Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397281.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_39.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1667509
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.31
Warning! 125079 characters in sequence are not A, C, G, or T
File 2 of 5
Found at i:418668 original size:341 final size:341
Alignment explanation
Indices: 418064--418680 Score: 845
Period size: 342 Copynumber: 1.8 Consensus size: 341
418054 TCATGCCATG
* *
418064 GAAATCCTTGTTACTTACGTTAAATAGTTTTATAATCTCATAAATGATTTTAGATCGAAATCTTA
1 GAAAGCCTTGTTACTTACGTTAAATAGTTTTATAATCTCATAAATGATTTTAAATCGAAATCTTA
* *
418129 TTCATTTTTTGTTAAACCCATCATAATTGGATGTTTCCATTGGGAAATGTGAAGCAGATGCAATC
66 TTCATTTTTGGTTAAACCCATCATAATTGGATATTTCCATTGGGAAATGTGAAGCAGATGCAATC
* * * * *
418194 CATGGACAAGAAAATTCAATTCATTGTCACTCATGCCATCGAAAGCCTAGTTATTAACTTTTAAT
131 AATGGACAAGAAAAATCAATTCATAGTCACTCATGACATCAAAAGCCTAGTTATTAACTTTTAAT
* *
418259 AGTATTATAATCTTATAAATGATTTCCAATCAAAATGTTTTTCCATTTCTATTAAAACCTATCAT
196 AGTATTATAATCTTATAAATGATTTCAAATCAAAATGTTTTTCCATTTCTATGAAAACCTATCAT
418324 AATTGGATGTTTGCATCAAGAAATGTGAAATGGATGCCATCCATTGACAATTGAAGTCCATTTAT
261 AATTGGATGTTTGCATCAAGAAATGTGAAATGGATGCCATCCATTGACAATTGAAGTCCATTTAT
418389 AGTCACTAATGACAAT
326 AGTCACTAATGACAAT
* * * * *
418405 GAAAGCCTTGTTACTTACTTTAAATGGTTTTATAATCTTATAGATGATTTTAAAT-GAAAATGTT
1 GAAAGCCTTGTTACTTACGTTAAATAGTTTTATAATCTCATAAATGATTTTAAATCG-AAATCTT
* * * * *
418469 TTTCCTTTTTGGTTAAAACCTATCATAATTGGATATTTGCATTGGGAAAATGTGACGTC-GATGG
65 ATTCATTTTTGGTT-AAACCCATCATAATTGGATATTTCCATTGGG-AAATGTGAAG-CAGAT-G
* * * * *
418533 C-ATCAATTGACAA-AAAAATCCATTTATAGTCACTCATGACATCAAAAGCCTAGTT-TTCCATT
126 CAATCAATGGACAAGAAAAATCAATTCATAGTCACTCATGACATCAAAAGCCTAGTTATT-AACT
* *
418595 TTTATTCGT-TTCATAATCTTATAAATGATTTCAAATCAAAATGTTTTTCC-TTT-TAGTGAAAA
190 TTTAATAGTATT-ATAATCTTATAAATGATTTCAAATCAAAATGTTTTTCCATTTCTA-TGAAAA
*
418657 TCTATCATAATTGGATGTTTGCAT
253 CCTATCATAATTGGATGTTTGCAT
418681 TAGGAAACAT
Statistics
Matches: 239, Mismatches: 29, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
340 3 0.01
341 101 0.42
342 110 0.46
343 22 0.09
344 3 0.01
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (341 bp):
GAAAGCCTTGTTACTTACGTTAAATAGTTTTATAATCTCATAAATGATTTTAAATCGAAATCTTA
TTCATTTTTGGTTAAACCCATCATAATTGGATATTTCCATTGGGAAATGTGAAGCAGATGCAATC
AATGGACAAGAAAAATCAATTCATAGTCACTCATGACATCAAAAGCCTAGTTATTAACTTTTAAT
AGTATTATAATCTTATAAATGATTTCAAATCAAAATGTTTTTCCATTTCTATGAAAACCTATCAT
AATTGGATGTTTGCATCAAGAAATGTGAAATGGATGCCATCCATTGACAATTGAAGTCCATTTAT
AGTCACTAATGACAAT
Found at i:418827 original size:122 final size:121
Alignment explanation
Indices: 418607--418828 Score: 311
Period size: 122 Copynumber: 1.8 Consensus size: 121
418597 TATTCGTTTC
* * *
418607 ATAATCTTATAAATGATTTCAAATCAAAATGTTTTTCCTTTTAGTGAAAATCTATCATAATTGGA
1 ATAATCTTATAAATGATTTCAAATAAAAATCTTTTTCCTTTTAGTGAAAACCTATCATAATTGGA
* * *
418672 TGTTTGCATTAGGAAACATCAAGTAGATGCCATCCCTCCAAAGTGAAAGTCCACTT
66 TGTTTGCATTAGGAAACATAAAGCAGATACCATCCCTCCAAAGTGAAAGTCCACTT
* * * * * *
418728 ATAATTTTATAAATGATTTTATATAAAAATCTTTTTCATTTTTAGTTAAAACCTATCATAGTTGG
1 ATAATCTTATAAATGATTTCAAATAAAAATCTTTTTC-CTTTTAGTGAAAACCTATCATAATTGG
418793 ATGTTTGCATT-GAGAAACATAAAGCAGATACCATCC
65 ATGTTTGCATTAG-GAAACATAAAGCAGATACCATCC
418829 ACTAATGAGA
Statistics
Matches: 87, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
121 33 0.38
122 54 0.62
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.37
Consensus pattern (121 bp):
ATAATCTTATAAATGATTTCAAATAAAAATCTTTTTCCTTTTAGTGAAAACCTATCATAATTGGA
TGTTTGCATTAGGAAACATAAAGCAGATACCATCCCTCCAAAGTGAAAGTCCACTT
Found at i:429751 original size:57 final size:57
Alignment explanation
Indices: 429663--429772 Score: 220
Period size: 57 Copynumber: 1.9 Consensus size: 57
429653 TTTGTCAATG
429663 GATTCATAAGACCTTTGTATAGAGCCATGATGCCTCAGAAGTTCACTAATTACTGCA
1 GATTCATAAGACCTTTGTATAGAGCCATGATGCCTCAGAAGTTCACTAATTACTGCA
429720 GATTCATAAGACCTTTGTATAGAGCCATGATGCCTCAGAAGTTCACTAATTAC
1 GATTCATAAGACCTTTGTATAGAGCCATGATGCCTCAGAAGTTCACTAATTAC
429773 GCTAAGGCAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 53 1.00
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (57 bp):
GATTCATAAGACCTTTGTATAGAGCCATGATGCCTCAGAAGTTCACTAATTACTGCA
Found at i:430139 original size:21 final size:21
Alignment explanation
Indices: 430115--430155 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
430105 AGGATTCAAT
*
430115 GGTCGACATAGGGATAGACAA
1 GGTCGACACAGGGATAGACAA
430136 GGTCGACACAGGGATAGACA
1 GGTCGACACAGGGATAGACA
430156 CAGCCAACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.37, C:0.17, G:0.34, T:0.12
Consensus pattern (21 bp):
GGTCGACACAGGGATAGACAA
Found at i:433855 original size:68 final size:68
Alignment explanation
Indices: 433745--433927 Score: 240
Period size: 68 Copynumber: 2.7 Consensus size: 68
433735 CATTTTTTAT
* * * * * *
433745 ATGATATATGCCATAAGATTATGTATGTGATGTAAATTCCATATACCATATGAGATGATTAAGTA
1 ATGATAAATGCCATGAGATTATGTATATGATGTATATTCCATATACCACATGAGATGATTAAGCA
*
433810 TGC
66 GGC
* * * * *
433813 ATGATAAATGCCATGAGTTTATGTATATGATGTGTATGCCATATACTACATGAGATGATTGAGCA
1 ATGATAAATGCCATGAGATTATGTATATGATGTATATTCCATATACCACATGAGATGATTAAGCA
433878 GGC
66 GGC
* *
433881 ATGATAAATGCCATGAGATTATGCATATGATGTATTTTCCATATACC
1 ATGATAAATGCCATGAGATTATGTATATGATGTATATTCCATATACC
433928 TTATAACATG
Statistics
Matches: 97, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
68 97 1.00
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.34
Consensus pattern (68 bp):
ATGATAAATGCCATGAGATTATGTATATGATGTATATTCCATATACCACATGAGATGATTAAGCA
GGC
Found at i:438452 original size:20 final size:20
Alignment explanation
Indices: 438427--438475 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
438417 TGGTCTATGG
*
438427 AATTGAATTAGTCAATTTAA
1 AATTGAATAAGTCAATTTAA
*
438447 AATTGAATAAGTTAATTTAA
1 AATTGAATAAGTCAATTTAA
438467 AATTGAATA
1 AATTGAATA
438476 TGATTCAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.49, C:0.02, G:0.10, T:0.39
Consensus pattern (20 bp):
AATTGAATAAGTCAATTTAA
Found at i:456872 original size:20 final size:20
Alignment explanation
Indices: 456849--456887 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
456839 TAAACACAAT
* *
456849 TAAAATATGGAAAACATAAA
1 TAAAACATGAAAAACATAAA
456869 TAAAACATGAAAAACATAA
1 TAAAACATGAAAAACATAA
456888 CTTAAAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.67, C:0.08, G:0.08, T:0.18
Consensus pattern (20 bp):
TAAAACATGAAAAACATAAA
Found at i:459512 original size:15 final size:15
Alignment explanation
Indices: 459464--459512 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
459454 CTTCCCTCCT
* *
459464 AAATATTTTGGACGG
1 AAATCTTTTGGAAGG
**
459479 AACCCTTTTGGAAGG
1 AAATCTTTTGGAAGG
*
459494 AAATCTTTTGGAGGG
1 AAATCTTTTGGAAGG
459509 AAAT
1 AAAT
459513 TAGCTATAAA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.33, C:0.10, G:0.27, T:0.31
Consensus pattern (15 bp):
AAATCTTTTGGAAGG
Found at i:468561 original size:28 final size:29
Alignment explanation
Indices: 468508--468596 Score: 128
Period size: 29 Copynumber: 3.1 Consensus size: 29
468498 NNNNATAAAA
468508 ATATTTTTCTTGTCTTAAATTAAGACAAAC
1 ATATTTTTCTTGTC-TAAATTAAGACAAAC
* *
468538 ATATTTTT-TTGTCTAAACTAAGACCAA-
1 ATATTTTTCTTGTCTAAATTAAGACAAAC
468565 ATATGTTTTCTTGTCTAAATTAAGACAAAC
1 ATAT-TTTTCTTGTCTAAATTAAGACAAAC
468595 AT
1 AT
468597 GTTAAAACTA
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
27 4 0.08
28 16 0.31
29 22 0.42
30 10 0.19
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.42
Consensus pattern (29 bp):
ATATTTTTCTTGTCTAAATTAAGACAAAC
Found at i:470403 original size:20 final size:20
Alignment explanation
Indices: 470378--470415 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
470368 AAAGAATATA
*
470378 TTTGAATAAAATAATATTTT
1 TTTGAACAAAATAATATTTT
470398 TTTGAACAAAATAATATT
1 TTTGAACAAAATAATATT
470416 AAAACATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (20 bp):
TTTGAACAAAATAATATTTT
Found at i:476796 original size:80 final size:80
Alignment explanation
Indices: 476690--477075 Score: 384
Period size: 80 Copynumber: 4.8 Consensus size: 80
476680 CATGAGTTCC
* * * * * *
476690 ATTTATGAGATTGT-AACATGTTTGCCATGAGATATATGTGTTAAGTATA-TCATGTTCACTATG
1 ATTTATGAGGTTATGAA-ATGTATGCCATGAGATGTATGTGTTAAG-ATAGTCATATACACTATG
*
476753 GACAAAGCATGCAAGTG
64 GACAAAGCATGTAAGTG
* * * * *
476770 ATTTATGAGGTTATGAAATATATGCCATGAGATGTGTGTGTTAAAATAGTCATATACATTATGGG
1 ATTTATGAGGTTATGAAATGTATGCCATGAGATGTATGTGTTAAGATAGTCATATACACTATGGA
*
476835 CCAAGCATGTAAGTG
66 CAAAGCATGTAAGTG
* * * * *
476850 ATTTATGAGGTTATGAAATGTATGCCATGAGATTTATATGTTGAGATAGTTATACACACTATGAG
1 ATTTATGAGGTTATGAAATGTATGCCATGAGATGTATGTGTTAAGATAGTCATATACACTATG-G
* *
476915 A-TAGGCATGTAAGTG
65 ACAAAGCATGTAAGTG
* * *
476930 ATTTATGAGGATTATGATATGTATGCCATGAGATGTTTGTGTTTAA-ATAGTCACATACACTATG
1 ATTTATGAGG-TTATGAAATGTATGCCATGAGATGTATGTG-TTAAGATAGTCATATACACTATG
* * * *
476994 GGCTAAGCATGTCAGTA
64 GACAAAGCATGTAAGTG
* * * * * * *
477011 ATTTTATGAAGTTATGCAATGTATGCCACGAAATGAAAGTGTTGAGATAGTCATATACACTATGG
1 A-TTTATGAGGTTATGAAATGTATGCCATGAGATGTATGTGTTAAGATAGTCATATACACTATGG
477076 GCTGAGTATG
Statistics
Matches: 251, Mismatches: 47, Indels: 15
0.80 0.15 0.05
Matches are distributed among these distances:
79 3 0.01
80 140 0.56
81 97 0.39
82 11 0.04
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.34
Consensus pattern (80 bp):
ATTTATGAGGTTATGAAATGTATGCCATGAGATGTATGTGTTAAGATAGTCATATACACTATGGA
CAAAGCATGTAAGTG
Found at i:481357 original size:67 final size:67
Alignment explanation
Indices: 481249--481384 Score: 272
Period size: 67 Copynumber: 2.0 Consensus size: 67
481239 GAGTTCTATC
481249 CAAGAAAGTGCCTAGAATGCTAGATTTTGTGGCCAAAGTATTGATACATATGAAGTATGTATTGA
1 CAAGAAAGTGCCTAGAATGCTAGATTTTGTGGCCAAAGTATTGATACATATGAAGTATGTATTGA
481314 TA
66 TA
481316 CAAGAAAGTGCCTAGAATGCTAGATTTTGTGGCCAAAGTATTGATACATATGAAGTATGTATTGA
1 CAAGAAAGTGCCTAGAATGCTAGATTTTGTGGCCAAAGTATTGATACATATGAAGTATGTATTGA
481381 TA
66 TA
481383 CA
1 CA
481385 TTTTCAACAA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 69 1.00
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (67 bp):
CAAGAAAGTGCCTAGAATGCTAGATTTTGTGGCCAAAGTATTGATACATATGAAGTATGTATTGA
TA
Found at i:488874 original size:81 final size:81
Alignment explanation
Indices: 488666--488881 Score: 287
Period size: 80 Copynumber: 2.7 Consensus size: 81
488656 CATTAGTTGC
* * *
488666 ATTTATGA-CATTAT-AACATGTATGCCATGAGATATATGTGTTAAGTATA-TCATGTACACTAT
1 ATTTATGAGGATTATGAA-ATGTATGCCATGAGATATATGTGTTGAG-ATAGTCATATACACTAT
488728 GGGCTAAGCATGTAAGTG
64 GGGCTAAGCATGTAAGTG
* * * *
488746 ATTTATGTGG-GTATGAAATGTATGCCATGAGATATATGGGTTGAGATAGTCATATTCACTATGG
1 ATTTATGAGGATTATGAAATGTATGCCATGAGATATATGTGTTGAGATAGTCATATACACTATGG
*
488810 GGTAAGCATGTAAGTG
66 GCTAAGCATGTAAGTG
* **
488826 ATTTATGAGGATTATGAAATGTATGCCTTGAGATGCATGTGTTGAGATAGTCATAT
1 ATTTATGAGGATTATGAAATGTATGCCATGAGATATATGTGTTGAGATAGTCATAT
488882 CCGTAATGGG
Statistics
Matches: 118, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
79 3 0.03
80 73 0.62
81 42 0.36
ACGTcount: A:0.31, C:0.09, G:0.25, T:0.35
Consensus pattern (81 bp):
ATTTATGAGGATTATGAAATGTATGCCATGAGATATATGTGTTGAGATAGTCATATACACTATGG
GCTAAGCATGTAAGTG
Found at i:488909 original size:81 final size:79
Alignment explanation
Indices: 488683--488912 Score: 216
Period size: 80 Copynumber: 2.9 Consensus size: 79
488673 ACATTATAAC
* * * * * * *
488683 ATGTATGCCATGAGATATATGTGTTAAGTATA-TCATGTACACTATGGGCTAAGCATGTAAGTGA
1 ATGTATGCCATGAGATACATGGGTTGAG-ATAGTCATATTCACTATGGGCCAAG-ATATAAGTGA
*
488747 TTTATGTGGGTATGAA
64 TTTATGAGGGTATGAA
* ** *
488763 ATGTATGCCATGAGATATATGGGTTGAGATAGTCATATTCACTATGGGGTAAGCATGTAAGTGAT
1 ATGTATGCCATGAGATACATGGGTTGAGATAGTCATATTCACTATGGGCCAAG-ATATAAGTGAT
*
488828 TTATGAGGATTATGAA
65 TTATGAGG-GTATGAA
* * *
488844 ATGTATGCCTTGAGATGCATGTGTTGAGATAGTCATA-TC-CGTAATGGGCCAAG-TATAATGAT
1 ATGTATGCCATGAGATACATGGGTTGAGATAGTCATATTCAC-T-ATGGGCCAAGATATAA-G-T
488906 GATTTAT
62 GATTTAT
488913 CAAAATGTTA
Statistics
Matches: 130, Mismatches: 14, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
79 8 0.06
80 67 0.52
81 55 0.42
ACGTcount: A:0.31, C:0.09, G:0.26, T:0.34
Consensus pattern (79 bp):
ATGTATGCCATGAGATACATGGGTTGAGATAGTCATATTCACTATGGGCCAAGATATAAGTGATT
TATGAGGGTATGAA
Found at i:498953 original size:16 final size:16
Alignment explanation
Indices: 498929--498960 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
498919 GCTATGCATT
498929 GACAATGCATTGACAA
1 GACAATGCATTGACAA
*
498945 GACAGTGCATTGACAA
1 GACAATGCATTGACAA
498961 TGCTCAAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.19, G:0.22, T:0.19
Consensus pattern (16 bp):
GACAATGCATTGACAA
Found at i:504092 original size:68 final size:68
Alignment explanation
Indices: 504011--504225 Score: 243
Period size: 68 Copynumber: 3.2 Consensus size: 68
504001 TACGATCGTT
* ** * *
504011 TATATAATGTAAATTCCATATACCATATAAGATGATTAAGTATGCATGATGCATACCATAAGATT
1 TATATGATGTAAATTCCATATACCATATAAGATGATTAAGTATGCATGATAAATGCCATGAGATT
*
504076 GTG
66 ATG
* ** * * *
504079 TATATGATGTAAATTCAATATACCATATCTGGTCATTAAGTATGCATGATAAATGCCTTGAGATT
1 TATATGATGTAAATTCCATATACCATATAAGATGATTAAGTATGCATGATAAATGCCATGAGATT
*
504144 TTG
66 ATG
* * * * * *
504147 TATATGATGTATATTCCATATACTACATGAGATGATTGAA-CAAGCATGATAAATGCCATGAGAT
1 TATATGATGTAAATTCCATATACCATATAAGATGATT-AAGTATGCATGATAAATGCCATGAGAT
504211 TATG
65 TATG
504215 TATATGATGTA
1 TATATGATGTA
504226 TTTTTTATAT
Statistics
Matches: 122, Mismatches: 24, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
68 120 0.98
69 2 0.02
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.35
Consensus pattern (68 bp):
TATATGATGTAAATTCCATATACCATATAAGATGATTAAGTATGCATGATAAATGCCATGAGATT
ATG
Found at i:507506 original size:144 final size:144
Alignment explanation
Indices: 507271--507542 Score: 313
Period size: 144 Copynumber: 1.9 Consensus size: 144
507261 AGTGACAAGA
* *
507271 CTTTCAAAGGCATCAGTGACTATAAATAGACTTTTCTTCTCAATGAATTACATTAGCTTCTAGTT
1 CTTTCAAAGGCATCAGAGACTATAAATAGACTTTGCTTCTCAATGAATTACATTAGCTTCTAGTT
* * ** * * *
507336 TCTTGATGCAAACATTCCAATATGATATGTTT-TAACAAAAAATGAAAAATATTTCGATTTAAAA
66 CCTAGATGCAAACATTCCAATATGATAAATTTGAAAC-AAAAATGAAAAAGATTTCCATTTAAAA
507400 TAATTTATACATTGG
130 TAATTTATACATTGG
* * * *
507415 CTTTCAAAGGCATGAGAGACTATAAAT-GAACTTTGCTTGTCAATGGATTGCATCTA-CTTC-AC
1 CTTTCAAAGGCATCAGAGACTATAAATAG-ACTTTGCTTCTCAATGAATTACAT-TAGCTTCTA-
* *
507477 GTTACCTAG-TGCAAACA-TCCAATTGTGATAAATTTGAAACAAAAATGCAAAAGATTTCCATTT
63 GTT-CCTAGATGCAAACATTCCAA-TATGATAAATTTGAAACAAAAATGAAAAAGATTTCCATTT
507540 AAA
126 AAA
507543 TTCAGTAATA
Statistics
Matches: 107, Mismatches: 15, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
143 7 0.07
144 92 0.86
145 8 0.07
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (144 bp):
CTTTCAAAGGCATCAGAGACTATAAATAGACTTTGCTTCTCAATGAATTACATTAGCTTCTAGTT
CCTAGATGCAAACATTCCAATATGATAAATTTGAAACAAAAATGAAAAAGATTTCCATTTAAAAT
AATTTATACATTGG
Found at i:508510 original size:15 final size:15
Alignment explanation
Indices: 508490--508523 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
508480 AAAGCTCTTA
*
508490 TGAAGGAGGTGAGTT
1 TGAAGGAGATGAGTT
*
508505 TGAAGGAGATGATTT
1 TGAAGGAGATGAGTT
508520 TGAA
1 TGAA
508524 AACTTTTGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.38, T:0.29
Consensus pattern (15 bp):
TGAAGGAGATGAGTT
Found at i:509600 original size:15 final size:16
Alignment explanation
Indices: 509580--509625 Score: 53
Period size: 15 Copynumber: 3.0 Consensus size: 16
509570 AACTGAATAA
*
509580 AAAAAATAT-TAAAAT
1 AAAAAATATAAAAAAT
509595 AAAAAA-ATAAAAAAT
1 AAAAAATATAAAAAAT
509610 AAAAAAT-TGAAAAAAT
1 AAAAAATAT-AAAAAAT
509626 GAATGAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 2 0.07
15 18 0.67
16 7 0.26
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (16 bp):
AAAAAATATAAAAAAT
Found at i:509600 original size:16 final size:15
Alignment explanation
Indices: 509579--509625 Score: 58
Period size: 16 Copynumber: 3.0 Consensus size: 15
509569 TAACTGAATA
*
509579 AAAAAAATATTAAAAT
1 AAAAAAATA-AAAAAT
509595 AAAAAAATAAAAAAT
1 AAAAAAATAAAAAAT
*
509610 AAAAAATTGAAAAAAT
1 AAAAAAAT-AAAAAAT
509626 GAATGAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 12 0.43
16 16 0.57
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (15 bp):
AAAAAAATAAAAAAT
Found at i:509601 original size:8 final size:8
Alignment explanation
Indices: 509579--509625 Score: 51
Period size: 8 Copynumber: 6.0 Consensus size: 8
509569 TAACTGAATA
509579 AAAAAAAT
1 AAAAAAAT
**
509587 ATTAAAAT
1 AAAAAAAT
509595 AAAAAAAT
1 AAAAAAAT
509603 -AAAAAAT
1 AAAAAAAT
*
509610 AAAAAATT
1 AAAAAAAT
*
509618 GAAAAAAT
1 AAAAAAAT
509626 GAATGAAAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
7 7 0.23
8 24 0.77
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (8 bp):
AAAAAAAT
Found at i:509632 original size:12 final size:11
Alignment explanation
Indices: 509618--509683 Score: 52
Period size: 10 Copynumber: 6.4 Consensus size: 11
509608 ATAAAAAATT
509618 GAAAAAATGAA
1 GAAAAAATGAA
*
509629 TG-AAAAATTAA
1 -GAAAAAATGAA
*
509640 GAAAAAAGGAA
1 GAAAAAATGAA
509651 -AAAAAA-GAA
1 GAAAAAATGAA
*
509660 GAAAAAAAGAA
1 GAAAAAATGAA
*
509671 -AACAAATG-A
1 GAAAAAATGAA
509680 GAAA
1 GAAA
509684 GGGCTAGGGC
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
9 4 0.09
10 21 0.48
11 18 0.41
12 1 0.02
ACGTcount: A:0.74, C:0.02, G:0.17, T:0.08
Consensus pattern (11 bp):
GAAAAAATGAA
Found at i:509654 original size:20 final size:20
Alignment explanation
Indices: 509610--509677 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 20
509600 AATAAAAAAT
*
509610 AAAAAATT--GAAAAAATGA
1 AAAAAATTAAGAAAAAAAGA
*
509628 ATGAAAAATTAAGAAAAAAGGA
1 A--AAAAATTAAGAAAAAAAGA
**
509650 AAAAAAAGAAGAAAAAAAGA
1 AAAAAATTAAGAAAAAAAGA
509670 AAACAAAT
1 AAA-AAAT
509678 GAGAAAGGGC
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
18 1 0.03
20 26 0.65
21 3 0.08
22 10 0.25
ACGTcount: A:0.75, C:0.01, G:0.13, T:0.10
Consensus pattern (20 bp):
AAAAAATTAAGAAAAAAAGA
Found at i:510553 original size:14 final size:16
Alignment explanation
Indices: 510534--510569 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
510524 TGTTTGGTTT
510534 TAAAAAA-TA-AAAAA
1 TAAAAAATTACAAAAA
510548 TAAAAAATTACAAAAA
1 TAAAAAATTACAAAAA
510564 -AAAAAA
1 TAAAAAA
510570 GTTAGAGCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 7 0.35
15 8 0.40
16 5 0.25
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.14
Consensus pattern (16 bp):
TAAAAAATTACAAAAA
Found at i:515815 original size:68 final size:67
Alignment explanation
Indices: 515709--515968 Score: 270
Period size: 68 Copynumber: 3.8 Consensus size: 67
515699 GGTATGGTGT
* **
515709 ATGCCATACGATCGTGTATATGATGTAAATTTCATATACCATATGAGATGATTAAGTATGCATGA
1 ATGCCATAAGATTATGTATATGATGTAAA-TTCATATACCATATGAGATGATTAAGTATGCATGA
**
515774 TGT
65 TAA
* * * * *
515777 ATACCGTAAGATTGTGTATATGATGTAAATTCAATATACCATATGTGGTGATTAAGTATGCATGA
1 ATGCCATAAGATTATGTATATGATGTAAATTC-ATATACCATATGAGATGATTAAGTATGCATGA
515842 TAA
65 TAA
* * * * * * * *
515845 ATGCCTTCAGATTATGTATATGATGTATATTCCATATACTACATGAGATGATTCAGCAAGCATGA
1 ATGCCATAAGATTATGTATATGATGTAAATT-CATATACCATATGAGATGATTAAGTATGCATGA
515910 TAA
65 TAA
* ** *
515913 ATGCCATGAGATTATGTATATGATGTATTTTCTATATA-CATTATGAGATGAGTAAG
1 ATGCCATAAGATTATGTATATGATGTAAATTC-ATATACCA-TATGAGATGATTAAG
515969 ATTGTACATG
Statistics
Matches: 161, Mismatches: 27, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
67 5 0.03
68 155 0.96
69 1 0.01
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.36
Consensus pattern (67 bp):
ATGCCATAAGATTATGTATATGATGTAAATTCATATACCATATGAGATGATTAAGTATGCATGAT
AA
Found at i:519457 original size:170 final size:170
Alignment explanation
Indices: 519193--519648 Score: 397
Period size: 170 Copynumber: 2.7 Consensus size: 170
519183 AAGTTTGAAA
* * ** * * * * * *
519193 CAAAAATGAAAAAGATTTCCATTTAAATTCAGTAATAA-GATTATAAAACCAATGAAAGAGAGTA
1 CAAAAATGAAAACGATTTCAACGTAAAATCATTTATAATG-TTATAAAACCATTTAAAGCGAGTA
* * * * * * *
519257 ACAAGGCTTTC-AAAGGAATTAATAACTATAAATTGACTTTTCTT-TCAATGGATCCCATTTGC-
65 ACAAGACTTTCGAAA-GCATGAATGACTATAAATGGACTTTT-TTGTCAATGGAT--CATATCCA
** *
519319 TT-CATGTTTCTCAATGCAAACATTA-AATTATGATCTATTTTAACT
126 TTACATGTTAATCAATGCAAACA-CACAATTATGATCTATTTT-ACT
* *** * * *
519364 -AAAAATGAAAAGGATTTCATTTTAAAATCATTTATAATGTTATAAAACTATTTAAAGTGGGTAA
1 CAAAAATGAAAACGATTTCAACGTAAAATCATTTATAATGTTATAAAACCATTTAAAGCGAGTAA
* * ** *
519428 CTAGACTTT-GAACAGCATGAATGACTATAAATGGTCTTTTTTGTCAATGGATGGTATCCATTAT
66 CAAGACTTTCGAA-AGCATGAATGACTATAAATGGACTTTTTTGTCAATGGATCATATCCATTAC
* * * *
519492 ATGTTAATCGATGGAAACACACAATTATGATCTGTTTTAGT
130 ATGTTAATCAATGCAAACACACAATTATGATCTATTTTACT
* *
519533 CAAAAATGAAAACGATTTCAACGTAATATCATTTATAATTTTATAAAACCATTTAAAGCGAGTAA
1 CAAAAATGAAAACGATTTCAACGTAAAATCATTTATAATGTTATAAAACCATTTAAAGCGAGTAA
* * ** *
519598 CAAGGCTTTCGAAAGCATGAGTGACTATAAATAAACTTTTTGGTCAATGGA
66 CAAGACTTTCGAAAGCATGAATGACTATAAATGGACTTTTTTGTCAATGGA
519649 AGGATTTCAC
Statistics
Matches: 230, Mismatches: 46, Indels: 19
0.78 0.16 0.06
Matches are distributed among these distances:
168 3 0.01
169 7 0.03
170 215 0.93
171 5 0.02
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (170 bp):
CAAAAATGAAAACGATTTCAACGTAAAATCATTTATAATGTTATAAAACCATTTAAAGCGAGTAA
CAAGACTTTCGAAAGCATGAATGACTATAAATGGACTTTTTTGTCAATGGATCATATCCATTACA
TGTTAATCAATGCAAACACACAATTATGATCTATTTTACT
Found at i:520786 original size:20 final size:20
Alignment explanation
Indices: 520731--520787 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
520721 TATTTAGGTT
*
520731 TATTTTAAGTTATGTTTTGCA
1 TATTTTAA-TTATGTTTTCCA
* *
520752 TGTTTTATTTATGTTTTCCA
1 TATTTTAATTATGTTTTCCA
*
520772 TATTTTAATTGTGTTT
1 TATTTTAATTATGTTT
520788 AAAAATGAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 24 0.80
21 6 0.20
ACGTcount: A:0.19, C:0.05, G:0.12, T:0.63
Consensus pattern (20 bp):
TATTTTAATTATGTTTTCCA
Found at i:521852 original size:37 final size:37
Alignment explanation
Indices: 521799--521875 Score: 118
Period size: 37 Copynumber: 2.1 Consensus size: 37
521789 ATGCTACCTT
* * * *
521799 AAGCTGGAGTTGGAGTTAATTTTTTATGGAAAAGTTG
1 AAGCTGGAGTTAGAGTTAATTTTTGATGAAAAAATTG
521836 AAGCTGGAGTTAGAGTTAATTTTTGATGAAAAAATTG
1 AAGCTGGAGTTAGAGTTAATTTTTGATGAAAAAATTG
521873 AAG
1 AAG
521876 AACCATGATT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.35, C:0.03, G:0.27, T:0.35
Consensus pattern (37 bp):
AAGCTGGAGTTAGAGTTAATTTTTGATGAAAAAATTG
Found at i:535380 original size:36 final size:35
Alignment explanation
Indices: 535327--535396 Score: 104
Period size: 36 Copynumber: 2.0 Consensus size: 35
535317 TAAGTTGTGA
*
535327 CTAATTCATTAAATTGTTTAATTAAGTTATTGGGC
1 CTAATTCATTAAATTGTTTAATCAAGTTATTGGGC
* *
535362 CTAATTGATTAGATTTGTTTAATCAAGTTATTGGG
1 CTAATTCATTA-AATTGTTTAATCAAGTTATTGGG
535397 NNNNNNNNNN
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
35 10 0.32
36 21 0.68
ACGTcount: A:0.30, C:0.07, G:0.17, T:0.46
Consensus pattern (35 bp):
CTAATTCATTAAATTGTTTAATCAAGTTATTGGGC
Found at i:535447 original size:35 final size:35
Alignment explanation
Indices: 535416--535482 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 35
535406 NCAAATTGTT
*
535416 TAATTAAGTTATTGAGCCTTATTGATTAAATTAAA
1 TAATTAAGTTATTGAGCCTAATTGATTAAATTAAA
* *
535451 TAATTAAGTTGTTGGGCCTAATTGATTAAATT
1 TAATTAAGTTATTGAGCCTAATTGATTAAATT
535483 NNNNNNNNNN
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.36, C:0.06, G:0.15, T:0.43
Consensus pattern (35 bp):
TAATTAAGTTATTGAGCCTAATTGATTAAATTAAA
Found at i:539243 original size:35 final size:35
Alignment explanation
Indices: 539176--539451 Score: 281
Period size: 35 Copynumber: 7.9 Consensus size: 35
539166 TCTCAAGCAC
* *
539176 TTGATTAAAATTGCTTAATTAAG---TTGTGCCTAA
1 TTGATT-AAATTGTTTAATTAAGTTATTGGGCCTAA
* * *
539209 TTCATTAAATTGTTTGATTGAGTTATTGGGCCTAA
1 TTGATTAAATTGTTTAATTAAGTTATTGGGCCTAA
* * * **
539244 TTGATTAAATT-TGTTAATCAAGTTACTGAGTTTAA
1 TTGATTAAATTGT-TTAATTAAGTTATTGGGCCTAA
* *
539279 TTGATCAAATTGTTTAATTAAGTTATTGGGCCTCA
1 TTGATTAAATTGTTTAATTAAGTTATTGGGCCTAA
**** *
539314 TTGATTAAATTAAGCAATTAAGTTATTAGGCCTAA
1 TTGATTAAATTGTTTAATTAAGTTATTGGGCCTAA
* *
539349 TTGATTAAATTTATTTAATCAAGTTATTGGGCCTAA
1 TTGATTAAA-TTGTTTAATTAAGTTATTGGGCCTAA
*
539385 TTAATTAAATTGTTTAATTAAGTTATTGGGCCTAA
1 TTGATTAAATTGTTTAATTAAGTTATTGGGCCTAA
***
539420 TTGATTAAATTAAATAATTAAGTTAATTGGGC
1 TTGATTAAATTGTTTAATTAAGTT-ATTGGGC
539452 TTCTTAAGGA
Statistics
Matches: 197, Mismatches: 39, Indels: 11
0.80 0.16 0.04
Matches are distributed among these distances:
32 13 0.07
33 5 0.03
34 1 0.01
35 141 0.72
36 37 0.19
ACGTcount: A:0.34, C:0.08, G:0.16, T:0.43
Consensus pattern (35 bp):
TTGATTAAATTGTTTAATTAAGTTATTGGGCCTAA
Found at i:539394 original size:71 final size:71
Alignment explanation
Indices: 539276--539430 Score: 213
Period size: 71 Copynumber: 2.2 Consensus size: 71
539266 TTACTGAGTT
* * * * *
539276 TAATTGATCAAA-TTGTTTAATTAAGTTATTGGGCCTCATTGATTAAATTAAGCAATTAAGTTAT
1 TAATTGATTAAATTTATTTAATCAAGTTATTGGGCCTAATTAATTAAATTAAGCAATTAAGTTAT
539340 TAGGCC
66 TAGGCC
****
539346 TAATTGATTAAATTTATTTAATCAAGTTATTGGGCCTAATTAATTAAATTGTTTAATTAAGTTAT
1 TAATTGATTAAATTTATTTAATCAAGTTATTGGGCCTAATTAATTAAATTAAGCAATTAAGTTAT
*
539411 TGGGCC
66 TAGGCC
539417 TAATTGATTAAATT
1 TAATTGATTAAATT
539431 AAATAATTAA
Statistics
Matches: 74, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
70 11 0.15
71 63 0.85
ACGTcount: A:0.35, C:0.08, G:0.14, T:0.43
Consensus pattern (71 bp):
TAATTGATTAAATTTATTTAATCAAGTTATTGGGCCTAATTAATTAAATTAAGCAATTAAGTTAT
TAGGCC
Found at i:539407 original size:106 final size:105
Alignment explanation
Indices: 539229--539444 Score: 324
Period size: 106 Copynumber: 2.0 Consensus size: 105
539219 TGTTTGATTG
* ** *
539229 AGTTATTGGGCCTAATTGATTAAATTTGTTAATCAAGTTACTGAGTTTAATTGATCAAATTGTTT
1 AGTTATTAGGCCTAATTGATTAAATTTGTTAATCAAGTTACTGAGCCTAATTAATCAAATTGTTT
* *
539294 AATTAAGTTATTGGGCCTCATTGATTAAATTAAGCAATTA
66 AATTAAGTTATTGGGCCTAATTGATTAAATTAAACAATTA
* * * *
539334 AGTTATTAGGCCTAATTGATTAAATTTATTTAATCAAGTTATTGGGCCTAATTAATTAAATTGTT
1 AGTTATTAGGCCTAATTGATTAAATTT-GTTAATCAAGTTACTGAGCCTAATTAATCAAATTGTT
*
539399 TAATTAAGTTATTGGGCCTAATTGATTAAATTAAATAATTA
65 TAATTAAGTTATTGGGCCTAATTGATTAAATTAAACAATTA
539440 AGTTA
1 AGTTA
539445 ATTGGGCTTC
Statistics
Matches: 99, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
105 26 0.26
106 73 0.74
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.43
Consensus pattern (105 bp):
AGTTATTAGGCCTAATTGATTAAATTTGTTAATCAAGTTACTGAGCCTAATTAATCAAATTGTTT
AATTAAGTTATTGGGCCTAATTGATTAAATTAAACAATTA
Found at i:556215 original size:18 final size:18
Alignment explanation
Indices: 556182--556216 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
556172 TTTATTCAAA
*
556182 TAATTAAAATATAAATTC
1 TAATTAAAATAAAAATTC
*
556200 TAATTAAATTAAAAATT
1 TAATTAAAATAAAAATT
556217 ACTCAACTAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (18 bp):
TAATTAAAATAAAAATTC
Found at i:562430 original size:30 final size:28
Alignment explanation
Indices: 562394--562481 Score: 104
Period size: 29 Copynumber: 3.0 Consensus size: 28
562384 AGGATCAATC
*
562394 TTGTGAAGTAGAAATTTAAGGGTAAATAAT
1 TTGTGAAG-AAAAATTT-AGGGTAAATAAT
*
562424 TTGTGAAGAAAAATTTAGAGGCAAATAAT
1 TTGTGAAGAAAAATTTAG-GGTAAATAAT
* *
562453 CTATGAAGAAAAATTTAGGAGTAAATAAT
1 TTGTGAAGAAAAATTTAGG-GTAAATAAT
562482 AGCATTGGCT
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
28 3 0.06
29 40 0.78
30 8 0.16
ACGTcount: A:0.48, C:0.02, G:0.20, T:0.30
Consensus pattern (28 bp):
TTGTGAAGAAAAATTTAGGGTAAATAAT
Found at i:563874 original size:49 final size:49
Alignment explanation
Indices: 563821--563931 Score: 136
Period size: 49 Copynumber: 2.3 Consensus size: 49
563811 ATGATCTCGA
* *
563821 ACGATGATATGATGTG-CATGATGTATGTTCCATGT-GGAGATGATTCCAG
1 ACGATGATATGATATGACAT-ATGTATGTTCCAT-TCGGAGATGATTACAG
* * *
563870 ACGATGATATGATATGAGATATGTATGTTCCATTCGTAGATGATTACGG
1 ACGATGATATGATATGACATATGTATGTTCCATTCGGAGATGATTACAG
*
563919 ACAATGATATGAT
1 ACGATGATATGAT
563932 TTGGGTTATG
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
48 1 0.02
49 51 0.94
50 2 0.04
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (49 bp):
ACGATGATATGATATGACATATGTATGTTCCATTCGGAGATGATTACAG
Found at i:565657 original size:171 final size:169
Alignment explanation
Indices: 565159--565790 Score: 435
Period size: 171 Copynumber: 3.7 Consensus size: 169
565149 ATAGCTTCTG
* * *
565159 CTTCACGTTTCTTGATGC-AACATCCAATTAAT-ATAGG-TTAACCAAAAAGG-AAAAGCATTGC
1 CTTCACATTTCTTAATGCAAACATCCAATT-ATGATAGGTTTAACC-AAAAGGAAAAAG-ATTTC
* * * ** * * * *
565220 AATTTGAAATCATTTATAAGATTATATAACCATTTAAAGTGAGAAACTAGGCTTT-GATGGCATG
63 AATTTAAAATTATTTATAAGATTATAAAACCATTTAAAACGAGAAACAAGGCTTTCAATGACATA
* * * * * * * *
565284 AGTGACTTTTAAA--GGACTGTTCTTGTCAAGGGATGGAATCCA
128 AGTAAC-TATAAATCAGA-TTTTCTTGACAATGGACGGCATCCA
* * * ** *
565326 ATTCACGTTTCTTGAA--AAATACATCCAATTATGATAGGGTTTAACCAAAATAAAAAAGATTTT
1 CTTCACATTTCTT-AATGCAA-ACATCCAATTATGATA-GGTTTAACCAAAAGGAAAAAGATTTC
* * * * * **
565389 GATTTAAAATTATTTATATA-ATTAGAAAACGATTTAAAGCGAGTAACAAGGCTTTTGATGACAT
63 AATTTAAAATTATTTATA-AGATTATAAAACCATTTAAAACGAGAAACAAGGCTTTCAATGACAT
* * * ***
565453 AAGTAACTTTAAATCAGCTTTTCTTGACAATGGACGGCTTTTG
127 AAGTAACTATAAATCAGATTTTCTTGACAATGGACGGCATCCA
* * *
565496 CTTCACATTTGTTGATGCAAACATCCAATTATGATAGGTTTGAAGCAAAAGGAAAAGAGATTTCA
1 CTTCACATTTCTTAATGCAAACATCCAATTATGATAGGTTT-AACCAAAAGGAAAA-AGATTTCA
* * *
565561 ATTTAAAATTATTTATAAGATTATAAATCCATTTAAAACGAGCAACAAGGCTTTCAAT-ACCATG
64 ATTTAAAATTATTTATAAGATTATAAAACCATTTAAAACGAGAAACAAGGCTTTCAATGA-CATA
* * * * *
565625 TGTGACTATAAAT-GGATTTTCACTT-TCAATGGATGGCATCCA
128 AGTAACTATAAATCAGATTTT--CTTGACAATGGACGGCATCCA
* * ** * ** *
565667 CTTGACATTTCTTAATGCAAACATCTAATTACAATAGCTTTTTCCCAAAAAGGAAAAATATTTCA
1 CTTCACATTTCTTAATGCAAACATCCAATTATGATAG-GTTTAACC-AAAAGGAAAAAGATTTCA
* * * * * * * *
565732 AGTTGAAATCATTTTTAAGATTATAAAACCATTAAAAATGAGAAACTAGGCTTTTAATG
64 ATTTAAAATTATTTATAAGATTATAAAACCATTTAAAACGAGAAACAAGGCTTTCAATG
565791 GCATGAGTTG
Statistics
Matches: 363, Mismatches: 80, Indels: 39
0.75 0.17 0.08
Matches are distributed among these distances:
167 15 0.04
168 14 0.04
169 65 0.18
170 84 0.23
171 169 0.47
172 16 0.04
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.33
Consensus pattern (169 bp):
CTTCACATTTCTTAATGCAAACATCCAATTATGATAGGTTTAACCAAAAGGAAAAAGATTTCAAT
TTAAAATTATTTATAAGATTATAAAACCATTTAAAACGAGAAACAAGGCTTTCAATGACATAAGT
AACTATAAATCAGATTTTCTTGACAATGGACGGCATCCA
Found at i:567517 original size:171 final size:169
Alignment explanation
Indices: 567159--567640 Score: 517
Period size: 171 Copynumber: 2.8 Consensus size: 169
567149 TCGACTTCAC
* * * * *
567159 GTTTCTCGATACAACCATCCAATTATGATAAGTTTTAACCAAAATGGAAAAACATTTCAATTTAA
1 GTTTCTCAATGCAAACATCCAATTATGAT-AGTTTTAACAAAAAAGGAAAAACATTTCAATTTAA
* * * * ** * * **
567224 AACCATCTATAAGGTTATAAAACCATTTAAAGCGA-GAC--GGCTTTTGATGGTATAAGCAACTA
65 AACCATTTATAAGATTATAAAACCATTTAAAGCAATAACTAGGCTTTCAATGGCATGAGTGACTA
* * *
567286 TAAATGGACTTTTATTGTTAATGGAAGGCATTTGTTTCAT
130 TAAATGGACTTTTATTGTCAAAGGAAGGCATTTGTTTAAT
* *
567326 GTTTCTCAATGCAAACATCCAATTATGATAGCTTTTAACAAAAAAGGAAAAACATTTCGATTTGA
1 GTTTCTCAATGCAAACATCCAATTATGATAG-TTTTAACAAAAAAGGAAAAACATTTCAATTTAA
* * * *
567391 AATCATTTATAAGATTTTAAAATCATTAAAAGCAAATAACTAGGCTTTCAATGGCATGAGTGACT
65 AACCATTTATAAGATTATAAAACCATTTAAAGC-AATAACTAGGCTTTCAATGGCATGAGTGACT
* *
567456 ATAAATGGA-TTGTTCTTGTCAAAGGATGGCATTTGTTTAAT
129 ATAAATGGACTT-TTATTGTCAAAGGAAGGCATTTGTTTAAT
* * * * *
567497 GTTTCTTGAA-GCACACATCCAATTATGATAGGTTTTAACAAAAAAGGAAAAAGATTTTAATTTC
1 GTTTC-TCAATGCAAACATCCAATTATGATA-GTTTTAACAAAAAAGGAAAAACATTTCAATTTA
* ** * *
567561 AAACCATTTAAAAGATTGGAAAACCATTTAAAGCGAGTAA-TAAAGCTTTCAATGGCATGAGTGA
64 AAACCATTTATAAGATTATAAAACCATTTAAAGC-AATAACT-AGGCTTTCAATGGCATGAGTGA
*
567625 CTATAAATTGACTTTT
127 CTATAAATGGACTTTT
567641 CTCATCAATG
Statistics
Matches: 263, Mismatches: 42, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
166 2 0.01
167 82 0.31
168 1 0.00
169 2 0.01
170 3 0.01
171 167 0.63
172 6 0.02
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (169 bp):
GTTTCTCAATGCAAACATCCAATTATGATAGTTTTAACAAAAAAGGAAAAACATTTCAATTTAAA
ACCATTTATAAGATTATAAAACCATTTAAAGCAATAACTAGGCTTTCAATGGCATGAGTGACTAT
AAATGGACTTTTATTGTCAAAGGAAGGCATTTGTTTAAT
Found at i:568110 original size:171 final size:169
Alignment explanation
Indices: 567882--568246 Score: 389
Period size: 171 Copynumber: 2.1 Consensus size: 169
567872 AATCATTTGT
* * * * *** *
567882 AAGATTATAAAACTATTTAAAACGTGTAACGT-GGCTTTCGATGCCAAGAGTGACTATAAATAAA
1 AAGATTATAAAACTATTTAAAGCATGCAAC-TAGGCTTTTGATAATATGAGTGACTATAAATAAA
* * *
567946 ATTTTCTTGTTAATGGA-TCATATTCACTTCATGATTCCCGAT-GCAAACATCCAATTATTATAG
65 ATTTTCTTATCAATGGAGTCAT-TT-ACTTCATGATTCCCGATAG-AAACATCCAATTATGATAG
* * *
568009 GTTTTAACTAAAAATAAA-AATGATTTAAATATAAAATCATTTAG
127 GTTTGAA-GAAAAATAAATAA-GATTTAAATATAAAATAATTTAG
* **
568053 AAGATTATAAAA-TATTTTAAAGCATGCAACTAGGCTTTTGATAATATGAGTGACTATATATTGA
1 AAGATTATAAAACTA-TTTAAAGCATGCAACTAGGCTTTTGATAATATGAGTGACTATAAATAAA
* * ***
568117 ATTTTCTTATCAATGGATGTCGTTTACTTCATGTTTTTTGATAGAAACATCCAATTATGATAGGT
65 ATTTTCTTATCAATGGA-GTCATTTACTTCATGATTCCCGATAGAAACATCCAATTATGATAGGT
** * *
568182 TTGAAGAAAAATAAATAAGATTTTGATCTAAAATAATTTAT
129 TTGAAGAAAAATAAATAAGATTTAAATATAAAATAATTTAG
568223 AAGATTATAAAACTATTTAAAGCA
1 AAGATTATAAAACTATTTAAAGCA
568247 AGTAACAAGG
Statistics
Matches: 161, Mismatches: 26, Indels: 15
0.80 0.13 0.07
Matches are distributed among these distances:
170 51 0.32
171 104 0.65
172 3 0.02
173 3 0.02
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.36
Consensus pattern (169 bp):
AAGATTATAAAACTATTTAAAGCATGCAACTAGGCTTTTGATAATATGAGTGACTATAAATAAAA
TTTTCTTATCAATGGAGTCATTTACTTCATGATTCCCGATAGAAACATCCAATTATGATAGGTTT
GAAGAAAAATAAATAAGATTTAAATATAAAATAATTTAG
Found at i:568294 original size:170 final size:171
Alignment explanation
Indices: 567990--568321 Score: 397
Period size: 170 Copynumber: 1.9 Consensus size: 171
567980 TTCCCGATGC
* * * *
567990 AAACATCCAATTATTATAGGTTTTAACTAAAAATAAAAATGATTTAAATATAAAATCATTTAGAA
1 AAACATCCAATTATGATAGGTTTGAACGAAAAATAAAAATGATTTAAATATAAAATAATTTAGAA
* * * * *
568055 GATTATAAAATATTTTAAAGCATGCAACTAGGCTTTTGATAATATGAGTGACTATATATTGAATT
66 GATTATAAAATATTTTAAAGCAAGCAACAAGGCATTTGACAATATGAGTGACTATATATGGAATT
* *
568120 TTCTTATCAATGGATGTCGTTTACTTCATGTTTTTTGATAG
131 TTCTTATCAATGGATGACATTTACTTCATGTTTTTTGATAG
** * *
568161 AAACATCCAATTATGATAGGTTTGAA-GAAAAATAAATAA-GATTTTGATCTAAAATAATTTATA
1 AAACATCCAATTATGATAGGTTTGAACGAAAAATAAA-AATGATTTAAATATAAAATAATTTAGA
* * *
568224 AGATTATAAAACTA-TTTAAAGCAAGTAACAAGG-ATTT-CCAATGCATGTGTGACTATA-ACTG
65 AGATTATAAAA-TATTTTAAAGCAAGCAACAAGGCATTTGACAAT--ATGAGTGACTATATA-TG
* *
568285 GACTTTTCTTGTCAATGGATGACATTTACTTCATGTT
126 GAATTTTCTTATCAATGGATGACATTTACTTCATGTT
568322 CATTGATGCA
Statistics
Matches: 136, Mismatches: 20, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
168 3 0.02
169 4 0.03
170 101 0.74
171 28 0.21
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.37
Consensus pattern (171 bp):
AAACATCCAATTATGATAGGTTTGAACGAAAAATAAAAATGATTTAAATATAAAATAATTTAGAA
GATTATAAAATATTTTAAAGCAAGCAACAAGGCATTTGACAATATGAGTGACTATATATGGAATT
TTCTTATCAATGGATGACATTTACTTCATGTTTTTTGATAG
Found at i:571859 original size:343 final size:341
Alignment explanation
Indices: 571369--571985 Score: 719
Period size: 343 Copynumber: 1.8 Consensus size: 341
571359 AGGTCTAGCC
* * *
571369 AAAAAGGAATAAGATTTTGATCTGAAATCATTTATAAGATTATAAAACCATTTAAAGGGAGCAAT
1 AAAAAGGAATAACATTTCGATCTGAAATCATTTATAAGATTATAAAACCATTAAAAGGGAGCAAT
* * * * *
571434 AAGGATTTCCATGGAATGAGTGACTATAAATGGACTTTTTTTATTAATGGATAGCATCGACCTCA
66 AAGGATTTCCATGGAATGAGTGACTATAAATGGACTGTTCTTATCAACGGATAGCATCCACCTCA
* ** * * * ** *
571499 CATTTTTTTATGCAAGCATCCAATTATGATTGGTTTTAACTAA-AAAGAAAAAAC-A-TTTCACT
131 AATTTCCTGAAGCAAGCAACCAATTATGATAAGTTTTAAC-AACAAA-AAAAAACGATTTTCAAT
* * * * * *
571561 TGAAAATC-TTCTATAGGATTATAAAAACCATTTAAAGTGAGTAACGAGGTTTTTAATGGAATGA
194 TG-AAATCATT-TATAAGATT-GAAAAACCATTTAAAGCGAGTAA-AAGGCTTTCAATGGAATGA
* *
571625 GTGATTCTAAATAGACTTTTATTGTCAATGAATAGCATCCACTTCATGTTTCTTAATACAAACAT
255 GTGACTATAAATAGACTTTTATTGTCAATGAATAGCATCCACTTCATGTTTCTTAATACAAACAT
571690 CAAATTATGATACGTTTTATGA
320 CAAATTATGATACGTTTTATGA
* * * ** *
571712 AAAAAGGAA-AATCATTTCGATTTGACATCATTTATACA-ATTATAAAATCATTAAAAGTTAGTA
1 AAAAAGGAATAA-CATTTCGATCTGAAATCATTTATA-AGATTATAAAACCATTAAAAGGGAGCA
* * * *
571775 ACT-AGGCTTTCGATGGCATGAGTGACTATAAATGGACTGTTCTTATCAACGGATGGCATCCA-C
64 A-TAAGGATTTCCATGGAATGAGTGACTATAAATGGACTGTTCTTATCAACGGATAGCATCCACC
* *
571838 TTAAAGTTTCCTGAAGCAAGCAACCAATTATGATAAGTTTTAACAACAAACAAAAACGATTTTCA
128 TCAAA-TTTCCTGAAGCAAGCAACCAATTATGATAAGTTTTAACAACAAAAAAAAACGATTTTCA
* * *
571903 ATTGAAATCATTTATAAGATTGGAAAATCATTTAAAGCGAGTAAAAGGCTTTCAATGGCATGAGT
192 ATTGAAATCATTTATAAGATTGAAAAACCATTTAAAGCGAGTAAAAGGCTTTCAATGGAATGAGT
*
571968 GACTATAAATTGACTTTT
257 GACTATAAATAGACTTTT
571986 CTCATCAATG
Statistics
Matches: 225, Mismatches: 41, Indels: 18
0.79 0.14 0.06
Matches are distributed among these distances:
341 32 0.14
342 33 0.15
343 148 0.66
344 12 0.05
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (341 bp):
AAAAAGGAATAACATTTCGATCTGAAATCATTTATAAGATTATAAAACCATTAAAAGGGAGCAAT
AAGGATTTCCATGGAATGAGTGACTATAAATGGACTGTTCTTATCAACGGATAGCATCCACCTCA
AATTTCCTGAAGCAAGCAACCAATTATGATAAGTTTTAACAACAAAAAAAAACGATTTTCAATTG
AAATCATTTATAAGATTGAAAAACCATTTAAAGCGAGTAAAAGGCTTTCAATGGAATGAGTGACT
ATAAATAGACTTTTATTGTCAATGAATAGCATCCACTTCATGTTTCTTAATACAAACATCAAATT
ATGATACGTTTTATGA
Found at i:571869 original size:171 final size:169
Alignment explanation
Indices: 571180--572991 Score: 694
Period size: 171 Copynumber: 10.6 Consensus size: 169
571170 AGACAAACAC
* * ** * * *
571180 CCAATTATGATAGGTTTTAACCAAAATGAAAAA-AAAT-GATATAAAATCATTTATAAGATTATA
1 CCAATTATGATAGGTTTTAACAAAAAAGAAAAACATTTCGATTTGAAATCATTTATAAGATTAGA
* * * * * * * * * ** * * *
571243 AGACCATTTAAACTGTGAAACAAAGCTTTCTATGGCATGAGCGACTATAAATTAACTTTTGTTGT
66 AAACCATTAAAAGTGAGTAACTAGGCTTTCGATGGCATGAGTGACTATAAATGGACTGTTCTTAT
**** ** * * *
571308 CAATGGATGGCATTTGTTTCGCA-TTTCCGGATA-CAAACAT
131 CAATGGAT-GCATCCACTT-AAAGTTTCCTGA-AGCAAGCAA
* * * * * * * * *
571348 CCAATTAAGATAGG-TCTAGCCAAAAAGGAATAAGATTTTGATCTGAAATCATTTATAAGATTAT
1 CCAATTATGATAGGTTTTA-ACAAAAAAGAAAAACATTTCGATTTGAAATCATTTATAAGATTAG
* * * * * * * *
571412 AAAACCATTTAAAGGGAGCAA-TAAGGATTTCCATGGAATGAGTGACTATAAATGGACTTTTTTT
65 AAAACCATTAAAAGTGAGTAACT-AGGCTTTCGATGGCATGAGTGACTATAAATGGACTGTTCTT
* * * * ** * * *
571476 ATTAATGGATAGCATCGACCTCACA-TTTTTTTATGCAAGCAT
129 ATCAATGGAT-GCATCCA-CTTAAAGTTTCCTGAAGCAAGCAA
* * * *
571518 CCAATTATGATTGGTTTTAACTAAAAAGAAAAAACATTTC-ACTTGAAAATC-TTCTATAGGATT
1 CCAATTATGATAGGTTTTAACAAAAAAG-AAAAACATTTCGATTTG-AAATCATT-TATAAGATT
* * * * ** * * * * * *
571581 ATAAAAACCATTTAAAGTGAGTAACGAGGTTTTTAATGGAATGAGTGATTCTAAATAGACTTTTA
63 A-GAAAACCATTAAAAGTGAGTAACTAGGCTTTCGATGGCATGAGTGACTATAAATGGACTGTTC
* * * * * * * *
571646 TTGTCAATGAATAGCATCCACTTCATGTTT-CTTAATACAAACAT
127 TTATCAATGGAT-GCATCCACTTAAAGTTTCCTGAA-GCAAGCAA
* * ** * *
571690 CAAATTATGATACGTTTTATGAAAAAAGGAAAATCATTTCGATTTGACATCATTTATACA-ATTA
1 CCAATTATGATAGGTTTTAACAAAAAA-GAAAAACATTTCGATTTGAAATCATTTATA-AGATTA
* * *
571754 TAAAATCATTAAAAGTTAGTAACTAGGCTTTCGATGGCATGAGTGACTATAAATGGACTGTTCTT
64 GAAAACCATTAAAAGTGAGTAACTAGGCTTTCGATGGCATGAGTGACTATAAATGGACTGTTCTT
*
571819 ATCAACGGATGGCATCCACTTAAAGTTTCCTGAAGCAAGCAA
129 ATCAATGGAT-GCATCCACTTAAAGTTTCCTGAAGCAAGCAA
* * * * *
571861 CCAATTATGATAAGTTTTAACAACAAACAAAAACGATTTTC-AATTGAAATCATTTATAAGATTG
1 CCAATTATGATAGGTTTTAACAAAAAAGAAAAAC-A-TTTCGATTTGAAATCATTTATAAGATTA
* * * * * * * *
571925 GAAAATCATTTAAAGCGAGTAA-AAGGCTTTCAATGGCATGAGTGACTATAAATTGACTTTTCTC
64 GAAAACCATTAAAAGTGAGTAACTAGGCTTTCGATGGCATGAGTGACTATAAATGGACTGTTCTT
* *** * * *** *
571989 ATCAATGGATCACAT-TTGTTCATGTTTCAC-GATTTTAA-CAT
129 ATCAATGGAT-GCATCCACTTAAAGTTTC-CTGA-AGCAAGCAA
* * * ** * * *
572030 CCAATTATGATAGGTTTTAACCACAAATAAAAGGTATTTCAATATAAAATCATTTATAAGATTAG
1 CCAATTATGATAGGTTTTAACAAAAAAGAAAA-ACATTTCGATTTGAAATCATTTATAAGATTAG
* * * * * * *
572095 AAGACCATTTAAAA--CATGCAACTAGAG-TTTCGATGGCATGAATTACTATAAATGGATTGTTA
65 AAAACCA-TTAAAAGTGA-GTAACTAG-GCTTTCGATGGCATGAGTGACTATAAATGGACTGTTC
* * * * * * *
572157 TTGTCAATAGATTGCATCCACTTCATGGTTCCTGATGCAAACAA
127 TTATCAATGGA-TGCATCCACTTAAAGTTTCCTGAAGCAAGCAA
** * ** * * *
572201 TAAATTATGATAGGTTTTACCCCAAAAGAATAAACATTTTGATTTGAAATCATTTATAAAATTAT
1 CCAATTATGATAGGTTTTAACAAAAAAGAA-AAACATTTCGATTTGAAATCATTTATAAGATTAG
* ** * * *
572266 AAAACCATTAAAAGTGAGTAATTAGGCTTTCGACAGCATAAGTGACTATAAATGGACTATTCCTA
65 AAAACCATTAAAAGTGAGTAACTAGGCTTTCGATGGCATGAGTGACTATAAATGGACTGTTCTTA
* * * * * *
572331 TTAAGGGATGCAATGCATTTCATA-TTTCCTGAAGCAAAG-AT
130 TCAATGGATGC-ATCCACTT-AAAGTTTCCTGAAGC-AAGCAA
* ** * *
572372 CCAATTATGATAGG-TTTAACCAAAAACGAAAAAGGTTTTGATTTGAAATCATTTGTAAGA--AC
1 CCAATTATGATAGGTTTTAA-CAAAAAAGAAAAACATTTCGATTTGAAATCATTTATAAGATTA-
** ** * * * * * *
572434 GAAAATTATTTAAAA-TGAGTTTCAAAGCTTT-GAATGGCATGACTCACTATAAATCGACTTTTC
64 GAAAACCA-TTAAAAGTGAGTAACTAGGCTTTCG-ATGGCATGAGTGACTATAAATGGACTGTTC
* * ** *** * * * * * * *
572497 TCATCAGTGGATAATATCTGTTTTACGTTT-GTCGATGTAAACAT
127 TTATCAATGGAT-GCATCCACTTAAAGTTTCCT-GAAGCAAGCAA
* * * * * * *
572541 CCAATTGTGATAGGTTTTAACCAAAAATTG-AAAAGATTTTGATATAAAATCATTTATAAAATTA
1 CCAATTATGATAGGTTTTAA-CAAAAA-AGAAAAACATTTCGATTTGAAATCATTTATAAGATTA
* * * * * * * *
572605 TAAGAA-TATTTAAAG-CATGTAACTA-CCATTTTGATGGCA-GTAGTGACAATAAATCGACAT-
64 GAA-AACCATTAAAAGTGA-GTAACTAGGC-TTTCGATGGCATG-AGTGACTATAAATGGAC-TG
*** * * * * * *
572665 TTCTTATCAATGGATGGCATCTGTTTTATGTTTCCAGATGCAAACAT
124 TTCTTATCAATGGAT-GCATCCACTTAAAGTTTCCTGAAGCAAGCAA
* * * * * * * * *
572712 CCAATTACGATAGG-TTTAACCAGAAATGAATAAGATTTCAATATGAAATCACTTATAAGATTAT
1 CCAATTATGATAGGTTTTAA-CAAAAAAGAAAAACATTTCGATTTGAAATCATTTATAAGATTAG
* * * * * * * * *
572776 AAAACCATTTAAATTGAGTAA-GATGGCTTTCGATGACTTAAGTGA-TAGTAAACGAAAT-TCTC
65 AAAACCATTAAAAGTGAGTAACTA-GGCTTTCGATGGCATGAGTGACTA-TAAATGGACTGT-TC
* * * * * * * * * *
572838 TTCTCAATGGATCACATCCATTTCATGTTTCTTGATGTAAACAT
127 TTATCAATGGAT-GCATCCACTTAAAGTTTCCTGAAGCAAGCAA
* * * *
572882 CAAATTATGATAGGTTATAACAAAAAAGGAAAACCATTGT-AATTTGAAATCATTTATAAGATTA
1 CCAATTATGATAGGTTTTAACAAAAAA-GAAAAACATT-TCGATTTGAAATCATTTATAAGATTA
* * * * *
572946 TAAAATCATTTAAAGTGAGAAAGTAGGCTTTCGATGGCATGAGTGA
64 GAAAACCATTAAAAGTGAGTAACTAGGCTTTCGATGGCATGAGTGA
572992 TGGCATACAC
Statistics
Matches: 1242, Mismatches: 329, Indels: 143
0.72 0.19 0.08
Matches are distributed among these distances:
167 3 0.00
168 33 0.03
169 152 0.12
170 444 0.36
171 464 0.37
172 139 0.11
173 7 0.01
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.33
Consensus pattern (169 bp):
CCAATTATGATAGGTTTTAACAAAAAAGAAAAACATTTCGATTTGAAATCATTTATAAGATTAGA
AAACCATTAAAAGTGAGTAACTAGGCTTTCGATGGCATGAGTGACTATAAATGGACTGTTCTTAT
CAATGGATGCATCCACTTAAAGTTTCCTGAAGCAAGCAA
Found at i:572269 original size:511 final size:510
Alignment explanation
Indices: 571643--572629 Score: 1197
Period size: 511 Copynumber: 1.9 Consensus size: 510
571633 AAATAGACTT
* *
571643 TTATTGTCAATGAATAGCATCCACTTCATGTTTCTTAATACAAACATCAAATTATGATACGTTTT
1 TTATTGTCAATGAATAGCATCCACTTCATGGTTCCTAATACAAACATCAAATTATGATACGTTTT
** * * * * *
571708 ATGAAAAAAGGAAAATCATTTCGATTTGACATCATTTATACAATTATAAAATCATTAAAAGTTAG
66 ACCAAAAAAGGAAAAACATTTCGATTTGAAATCATTTATAAAATTATAAAACCATTAAAAGTGAG
** * * *
571773 TAACTAGGCTTTCGATGGCATGAGTGACTATAAATGGACTGTTCTTATCAACGGATGGC-ATCCA
131 TAACTAGGCTTTCGACAGCATAAGTGACTATAAATGGACTATTCCTATCAACGGAT-GCAATCCA
*
571837 CTT-AAAGTTTCCTGAAGC-AAGCAACCAATTATGATAAGTTTTAA-CAACAAAC-AAAAACGAT
195 CTTCAAA-TTTCCTGAAGCAAAG-AACCAATTATGAT-AGGTTTAACCAA-AAACGAAAAA-GAT
** *
571898 TTTCAATTGAAATCATTTATAAGATTGGAAAATCATTTAAAGCGAG-TAAAAGGCTTTCAATGGC
255 TTTCAATTGAAATCATTTATAAGA-ACGAAAATCATTTAAAACGAGTTAAAA-GCTTTCAATGGC
* * * * * * * *
571962 ATGAGTGACTATAAATTGACTTTTCTCATCAATGGATCACATTTG-TTCATGTTTCACGATTTTA
318 ATGACTCACTATAAATCGACTTTTCTCATCAATGGATAACATCTGTTTCACGTTTCACGATGTAA
*
572026 ACATCCAATTATGATAGGTTTTAACCACAAA-T-AAAAGGTATTTCAATATAAAATCATTTATAA
383 ACATCCAATTATGATAGGTTTTAACCAAAAATTGAAAA-G-ATTTCAATATAAAATCATTTATAA
* *
572089 GATTAGAAGACCATTTAAAACATGCAACTAGAGTTTCGATGGCATGAATTACTATAAATGGATTG
446 AATTAGAAGAACATTTAAAACATGCAACTAGAGTTTCGATGGCATGAATTACTATAAATGGATTG
* * * *
572154 TTATTGTCAAT-AGATTGCATCCACTTCATGGTTCCTGATGCAAACAAT-AAATTATGATAGGTT
1 TTATTGTCAATGA-ATAGCATCCACTTCATGGTTCCTAATACAAAC-ATCAAATTATGATACGTT
** *
572217 TTACCCCAAAA-GAATAAACATTTTGATTTGAAATCATTTATAAAATTATAAAACCATTAAAAGT
64 TTACCAAAAAAGGAA-AAACATTTCGATTTGAAATCATTTATAAAATTATAAAACCATTAAAAGT
* * * *
572281 GAGTAATTAGGCTTTCGACAGCATAAGTGACTATAAATGGACTATTCCTATTAAGGGATGCAATG
128 GAGTAACTAGGCTTTCGACAGCATAAGTGACTATAAATGGACTATTCCTATCAACGGATGCAATC
* * * *
572346 CATTTCATATTTCCTGAAGCAAAGATCCAATTATGATAGGTTTAACCAAAAACGAAAAAGGTTTT
193 CACTTCAAATTTCCTGAAGCAAAGAACCAATTATGATAGGTTTAACCAAAAACGAAAAAGATTTT
* * * * * * *
572411 GATTTGAAATCATTTGTAAGAACGAAAATTATTTAAAATGAGTTTCAAAGCTTTGAATGGCATGA
258 CAATTGAAATCATTTATAAGAACGAAAATCATTTAAAACGAG-TTAAAAGCTTTCAATGGCATGA
* * * **
572476 CTCACTATAAATCGACTTTTCTCATCAGTGGATAATATCTGTTTTACGTTTGTCGATGTAAACAT
322 CTCACTATAAATCGACTTTTCTCATCAATGGATAACATCTGTTTCACGTTTCACGATGTAAACAT
* ** *
572541 CCAATTGTGATAGGTTTTAACCAAAAATTGAAAAGATTTTGATATAAAATCATTTATAAAATTAT
387 CCAATTATGATAGGTTTTAACCAAAAATTGAAAAGATTTCAATATAAAATCATTTATAAAATTAG
* * *
572606 AAGAATATTTAAAGCATGTAACTA
452 AAGAACATTTAAAACATGCAACTA
572630 CCATTTTGAT
Statistics
Matches: 400, Mismatches: 63, Indels: 26
0.82 0.13 0.05
Matches are distributed among these distances:
509 16 0.04
510 89 0.22
511 282 0.70
512 9 0.02
513 4 0.01
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.34
Consensus pattern (510 bp):
TTATTGTCAATGAATAGCATCCACTTCATGGTTCCTAATACAAACATCAAATTATGATACGTTTT
ACCAAAAAAGGAAAAACATTTCGATTTGAAATCATTTATAAAATTATAAAACCATTAAAAGTGAG
TAACTAGGCTTTCGACAGCATAAGTGACTATAAATGGACTATTCCTATCAACGGATGCAATCCAC
TTCAAATTTCCTGAAGCAAAGAACCAATTATGATAGGTTTAACCAAAAACGAAAAAGATTTTCAA
TTGAAATCATTTATAAGAACGAAAATCATTTAAAACGAGTTAAAAGCTTTCAATGGCATGACTCA
CTATAAATCGACTTTTCTCATCAATGGATAACATCTGTTTCACGTTTCACGATGTAAACATCCAA
TTATGATAGGTTTTAACCAAAAATTGAAAAGATTTCAATATAAAATCATTTATAAAATTAGAAGA
ACATTTAAAACATGCAACTAGAGTTTCGATGGCATGAATTACTATAAATGGATTG
Found at i:572707 original size:511 final size:510
Alignment explanation
Indices: 571659--572796 Score: 1183
Period size: 511 Copynumber: 2.2 Consensus size: 510
571649 TCAATGAATA
* * * * * * ** *
571659 GCATCCACTTCATGTTTCTTA-ATACAAACATCAAATTATGATACGTTTTATGAAAAAAGGAA-A
1 GCATCCACTTCATGGTTC-CAGATGCAAACATCAAATTACGATAGGTTTAACCACAAAA-GAATA
* * * *
571722 ATCATTTCGATTTGACATCATTTATACAATTATAAAATCATTAAAAGTTAGTAACTAGGCTTTCG
64 A-CATTTCGATTTGAAATCATTTATAAAATTATAAAACCATTAAAAGTGAGTAACTAGGCTTTCG
** * * *
571787 ATGGCATGAGTGACTATAAATGGACTGTTCTTATCAACGGATGGCATCCACTTAAAGTTTCCTGA
128 ACAGCATAAGTGACTATAAATGGACTATTCCTATCAACGGATGGCATCCACTTAAAGTTTCCTGA
*
571852 AGCAAGCAACCAATTATGATAAGTTTTAACAACAAACAAAAACGATTTTCAATTGAAATCATTTA
193 AGCAAGCAACCAATTATGATAAGGTTTAACAACAAACAAAAACGATTTTCAATTGAAATCATTTA
** * * * *
571917 TAAGATTGGAAAATCATTTAAAGCGAGTAAAAGGCTTTCAATGGCATGAGTGACTATAAATTGAC
258 TAAGATACGAAAATCATTTAAAACGAGTAAAAGGCTTTCAATGGCATGACTCACTATAAATCGAC
* * * * *
571982 TTTTCTCATCAATGGATCACATTTGTTCATGTTTCACGATTTTAACATCCAATTATGATAGGTTT
323 TTTTCTCATCAATGGATAACATCTGTTCACGTTTCACGATGTAAACATCCAATTATGATAGGTTT
* * *
572047 TAACCACAAATAAAAGGTATTTCAATATAAAATCATTTATAAGATTAGAAGACCATTTAAAACAT
388 TAACCAAAAATAAAAGGTATTTCAATATAAAATCATTTATAAAATTAGAAGAACATTTAAAACAT
* * * * * * *
572112 GCAACTAGAGTTTCGATGGCATGAATTACTATAAATGGATTGTTATTGTCAATAGATT
453 GCAACTACAGTTTCGATGGCATGAATGACAATAAATCGAATGTTATTATCAATAGATG
* * * *
572170 GCATCCACTTCATGGTTCCTGATGCAAACAAT-AAATTATGATAGGTTTTACCCCAAAAGAATAA
1 GCATCCACTTCATGGTTCCAGATGCAAAC-ATCAAATTACGATAGGTTTAACCACAAAAGAAT-A
* *
572234 ACATTTTGATTTGAAATCATTTATAAAATTATAAAACCATTAAAAGTGAGTAATTAGGCTTTCGA
64 ACATTTCGATTTGAAATCATTTATAAAATTATAAAACCATTAAAAGTGAGTAACTAGGCTTTCGA
* * * * *
572299 CAGCATAAGTGACTATAAATGGACTATTCCTATTAAGGGAT-GCAATGCATTTCATA-TTTCCTG
129 CAGCATAAGTGACTATAAATGGACTATTCCTATCAACGGATGGC-ATCCACTT-AAAGTTTCCTG
* * * *
572362 AAGCAAAG-ATCCAATTATGAT-AGGTTTAACCAA-AAACGAAAAA-GGTTTTGATTTGAAATCA
192 AAGC-AAGCAACCAATTATGATAAGGTTTAA-CAACAAAC-AAAAACGATTTTCAATTGAAATCA
* * * * *
572423 TTTGTAAGA-ACGAAAATTATTTAAAATGAGTTTCAAA-GCTTTGAATGGCATGACTCACTATAA
254 TTTATAAGATACGAAAATCATTTAAAACGAG--TAAAAGGCTTTCAATGGCATGACTCACTATAA
* * * ** *
572486 ATCGACTTTTCTCATCAGTGGATAATATCTGTTTTACGTTTGTCGATGTAAACATCCAATTGTGA
317 ATCGACTTTTCTCATCAATGGATAACATCTG-TTCACGTTTCACGATGTAAACATCCAATTATGA
** * *
572551 TAGGTTTTAACCAAAAATTGAAAA-G-ATTTTGATATAAAATCATTTATAAAATTATAAGAATAT
381 TAGGTTTTAACCAAAAA-T-AAAAGGTATTTCAATATAAAATCATTTATAAAATTAGAAGAACAT
* * * * *
572614 TTAAAGCATGTAACTACCA-TTTTGATGGCA-GTAGTGACAATAAATCGACAT-TTCTTATCAAT
444 TTAAAACATGCAACTA-CAGTTTCGATGGCATG-AATGACAATAAATCGA-ATGTTATTATCAAT
*
572676 GGATG
506 AGATG
*** * * * * * *
572681 GCATCTGTTTTATGTTTCCAGATGCAAACATCCAATTACGATAGGTTTAACCAGAAATGAATAAG
1 GCATCCACTTCATGGTTCCAGATGCAAACATCAAATTACGATAGGTTTAACCACAAAAGAATAAC
* * * * * *
572746 ATTTCAATATGAAATCACTTATAAGATTATAAAACCATTTAAATTGAGTAA
66 ATTTCGATTTGAAATCATTTATAAAATTATAAAACCATTAAAAGTGAGTAA
572797 GATGGCTTTC
Statistics
Matches: 517, Mismatches: 92, Indels: 37
0.80 0.14 0.06
Matches are distributed among these distances:
509 16 0.03
510 137 0.26
511 347 0.67
512 13 0.03
513 4 0.01
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.33
Consensus pattern (510 bp):
GCATCCACTTCATGGTTCCAGATGCAAACATCAAATTACGATAGGTTTAACCACAAAAGAATAAC
ATTTCGATTTGAAATCATTTATAAAATTATAAAACCATTAAAAGTGAGTAACTAGGCTTTCGACA
GCATAAGTGACTATAAATGGACTATTCCTATCAACGGATGGCATCCACTTAAAGTTTCCTGAAGC
AAGCAACCAATTATGATAAGGTTTAACAACAAACAAAAACGATTTTCAATTGAAATCATTTATAA
GATACGAAAATCATTTAAAACGAGTAAAAGGCTTTCAATGGCATGACTCACTATAAATCGACTTT
TCTCATCAATGGATAACATCTGTTCACGTTTCACGATGTAAACATCCAATTATGATAGGTTTTAA
CCAAAAATAAAAGGTATTTCAATATAAAATCATTTATAAAATTAGAAGAACATTTAAAACATGCA
ACTACAGTTTCGATGGCATGAATGACAATAAATCGAATGTTATTATCAATAGATG
Found at i:573546 original size:171 final size:169
Alignment explanation
Indices: 573350--573775 Score: 457
Period size: 171 Copynumber: 2.5 Consensus size: 169
573340 CTGCTTGATG
* * * **
573350 TTTCATAATGCAAACATCCAATTATGATAGTTTTTCACCAAAAAGGGAAAACATTTTGATTTGAA
1 TTTCTTAATGCAAACATCCAATTATGATAGATTTT-ACTAAAAAGAAAAAACATTTTGATTTGAA
* * * *
573415 ATCAATTATAAGATTATGAAACCAACAAAAATGTAAAACT-AGGCTTTTGATGTCATGAGTGACT
65 ATCAATTATAAGATTATAAAACCAACAAAAACG-AAAA-TAAGGCTTTCGATGTCATAAGTGACT
* * *
573479 ATAAATGGA-TTT-TTCTATCAATTGATGGCATCGACTTCACA
128 ATAAATGGACTTTAAT-TATCAATGGATGGCATCCACTTCACA
* * * *
573520 TTT-TTCCAATGCAAATATCCAATTATGATAGGTTTTAACTGAAAAGAAAAAACATTTTGATTTA
1 TTTCTT--AATGCAAACATCCAATTATGATAGATTTT-ACTAAAAAGAAAAAACATTTTGATTTG
*** ** * *
573584 AAATC-ATCTATAAGATTATAAAACCATTTAAGGCGAGAATAAGGCTTTCGTTGTCATAAGTGAC
63 AAATCAAT-TATAAGATTATAAAACCAACAAAAACGAAAATAAGGCTTTCGATGTCATAAGTGAC
* *
573648 TATAAATGGACTTTAATTGTCAATGGATGGCATCCATTTCACA
127 TATAAATGGACTTTAATTATCAATGGATGGCATCCACTTCACA
* * * *
573691 TTTCTTGATGCAAACATCCAATTATGATACATTTTAATAGAAACAAAAAAAACATTTTGATTTGA
1 TTTCTTAATGCAAACATCCAATTATGATAGATTTTACTA-AAA-AGAAAAAACATTTTGATTTGA
*
573756 AATCATTTATAAGATTATAA
64 AATCAATTATAAGATTATAA
573776 TACTATTAAC
Statistics
Matches: 212, Mismatches: 34, Indels: 19
0.80 0.13 0.07
Matches are distributed among these distances:
169 4 0.02
170 66 0.31
171 138 0.65
172 4 0.02
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (169 bp):
TTTCTTAATGCAAACATCCAATTATGATAGATTTTACTAAAAAGAAAAAACATTTTGATTTGAAA
TCAATTATAAGATTATAAAACCAACAAAAACGAAAATAAGGCTTTCGATGTCATAAGTGACTATA
AATGGACTTTAATTATCAATGGATGGCATCCACTTCACA
Found at i:574151 original size:171 final size:171
Alignment explanation
Indices: 573872--574373 Score: 506
Period size: 171 Copynumber: 2.9 Consensus size: 171
573862 GCAAGCACTC
* *
573872 AATTATGATAGGTTTTAACCAAAAACAAAAAAGATTTTGATCTGAAATCATTTATAAGATTGA-A
1 AATTATGATAGGTTTTAACTAAAAA-AAAAAAGATTTTGATCTAAAATCATTTATAAGATT-ATA
* * * * * *
573936 AAATCATTTAACGCGAGTAA-TAAGTCTTTCAATGGCACGAGTGACTATATATCAACTTTTCTCA
64 AAATTATTTAAAGTGAGTAACTAAG-CTTTCGATGGCATGAGTGACTATATATTAACTTTTCTCA
* ** * *
574000 TTAATGGATCG-CATTTGCTTCATGTTT-TAGAATGTAAACT-TCA
128 TCAATGGATCGTCATCCGCTTCATGTTTCT-CAATGCAAA-TGTCA
* * * *
574043 AATTATGATAGGTTTTAACTAAAAATGAAAAATATTTTAATATAAAATCATTTATAAGATTATAA
1 AATTATGATAGGTTTTAACTAAAAA-AAAAAAGATTTTGATCTAAAATCATTTATAAGATTATAA
* * * * **
574108 AATTATTTAAAATGTGCAACTAAGCTTTCGATGGCATGAGTGACTATATATTGACTTTTCTTGTC
65 AATTATTTAAAGTGAGTAACTAAGCTTTCGATGGCATGAGTGACTATATATTAACTTTTCTCATC
*
574173 AATGGAT-GTCATCCGCTTCATGTTTCTCAATGCAAATGTCC
130 AATGGATCGTCATCCGCTTCATGTTTCTCAATGCAAATGTCA
* * *
574214 AATTATGATA--ATTTAA-TGAAAAACAAATAAGATCTTGATCTAAAATCATTTATCAA-ATTAT
1 AATTATGATAGGTTTTAACT-AAAAA-AAAAAAGATTTTGATCTAAAATCATTTAT-AAGATTAT
* * * * *
574275 AAAACTATTTAAAGTGAGTAAC-ATGGCTTTCGATGGCATAAGTGATTATATATTAACTTTTTTC
63 AAAATTATTTAAAGTGAGTAACTA-AGCTTTCGATGGCATGAGTGACTATATATTAACTTTTCTC
* * * *
574339 ATCAATGGATC-TCATCCACTTGATATTTCCCAATG
127 ATCAATGGATCGTCATCCGCTTCATGTTTCTCAATG
574374 TGAAAACCAA
Statistics
Matches: 274, Mismatches: 48, Indels: 20
0.80 0.14 0.06
Matches are distributed among these distances:
168 2 0.01
169 119 0.43
170 5 0.02
171 143 0.52
172 5 0.02
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (171 bp):
AATTATGATAGGTTTTAACTAAAAAAAAAAAGATTTTGATCTAAAATCATTTATAAGATTATAAA
ATTATTTAAAGTGAGTAACTAAGCTTTCGATGGCATGAGTGACTATATATTAACTTTTCTCATCA
ATGGATCGTCATCCGCTTCATGTTTCTCAATGCAAATGTCA
Found at i:605140 original size:18 final size:19
Alignment explanation
Indices: 605100--605147 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 19
605090 TTAATATTTT
605100 AATATTATTTTATTCACAAA
1 AATATTATTTTATT-ACAAA
*
605120 AATATTATTTTATT-TAAA
1 AATATTATTTTATTACAAA
605138 AATATT-TTTT
1 AATATTATTTT
605148 CCACCCATCG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 4 0.15
18 9 0.33
20 14 0.52
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (19 bp):
AATATTATTTTATTACAAA
Found at i:622169 original size:11 final size:11
Alignment explanation
Indices: 622140--622182 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
622130 CTTGATAAAA
622140 TATTATTATTT
1 TATTATTATTT
622151 TA--ATTATTT
1 TATTATTATTT
622160 TATTATTATTT
1 TATTATTATTT
* *
622171 TAATAATATTT
1 TATTATTATTT
622182 T
1 T
622183 TTCAGGTACA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 9 0.32
11 19 0.68
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
TATTATTATTT
Found at i:637610 original size:25 final size:25
Alignment explanation
Indices: 637581--637640 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
637571 GTGGTCACAA
* **
637581 CCACGTATATCAACTTGTGGCCTAG
1 CCACGTATAACAACTCATGGCCTAG
* *
637606 CCACGTATAACAAGTCATGGCCTTG
1 CCACGTATAACAACTCATGGCCTAG
637631 CCACGTATAA
1 CCACGTATAA
637641 TCATAGATCG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.25
Consensus pattern (25 bp):
CCACGTATAACAACTCATGGCCTAG
Found at i:640780 original size:25 final size:25
Alignment explanation
Indices: 640727--640781 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
640717 GATCTATAAT
* * *
640727 TATACGTGGCAAGGCCATGACTTGT
1 TATACATGGCAAGGCCACGACTTGA
* *
640752 TATACATGGCTAGGCCACGAGTTGA
1 TATACATGGCAAGGCCACGACTTGA
640777 TATAC
1 TATAC
640782 GTGGTTGTGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (25 bp):
TATACATGGCAAGGCCACGACTTGA
Found at i:645602 original size:21 final size:22
Alignment explanation
Indices: 645566--645609 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
645556 CTCTTAAAGT
645566 AATTTAACACAAAATAACATAA
1 AATTTAACACAAAATAACATAA
* *
645588 AATTTAAC-TAAAATAACTTAA
1 AATTTAACACAAAATAACATAA
645609 A
1 A
645610 TTGATCACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.27
Consensus pattern (22 bp):
AATTTAACACAAAATAACATAA
Found at i:655774 original size:16 final size:17
Alignment explanation
Indices: 655729--655768 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
655719 AGTTTTATTC
* * *
655729 GAGCATATATTTATGGG
1 GAGCAAATACTTAGGGG
655746 GAGCAAATACTTAGGGG
1 GAGCAAATACTTAGGGG
655763 GAGCAA
1 GAGCAA
655769 TCCTTAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.35, C:0.10, G:0.33, T:0.23
Consensus pattern (17 bp):
GAGCAAATACTTAGGGG
Found at i:664502 original size:22 final size:23
Alignment explanation
Indices: 664458--664505 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
664448 TAATGGGTTA
* * *
664458 TAATATTGGGCCAATATTGTAAT
1 TAATATTGGCCCAACACTGTAAT
664481 TAATATTGGCCCAACACT-TAAT
1 TAATATTGGCCCAACACTGTAAT
664503 TAA
1 TAA
664506 ACCTTATCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (23 bp):
TAATATTGGCCCAACACTGTAAT
Found at i:666418 original size:114 final size:114
Alignment explanation
Indices: 666237--666485 Score: 453
Period size: 114 Copynumber: 2.2 Consensus size: 114
666227 TTAAGAACTT
*
666237 AATTAAAATAGTTTAATTAAGATTAAGTTTAATATTATACATAGTTATAATATTAGAACCTTAAT
1 AATTAAAATAGTTTAATTAAGATTAAGGTTAATATTATACATAGTTATAATATTAGAACCTTAAT
666302 TGCAAACATGACAAAAGGAAATTAATTTGATTTTAATTTCCAAGGACTA
66 TGCAAACATGACAAAAGGAAATTAATTTGATTTTAATTTCCAAGGACTA
*
666351 AATTAAAATAGTTTAATTAAGATTAAGGTTAATATTTTACATAGTTATAATATTAGAACCTTAAT
1 AATTAAAATAGTTTAATTAAGATTAAGGTTAATATTATACATAGTTATAATATTAGAACCTTAAT
*
666416 TGCAAACATGACAAAAGGAAATTAATTTGATTTTAATTTCTAAGGACTA
66 TGCAAACATGACAAAAGGAAATTAATTTGATTTTAATTTCCAAGGACTA
**
666465 AATTAAAAGGGTTTAATTAAG
1 AATTAAAATAGTTTAATTAAG
666486 TGTTGGGCCA
Statistics
Matches: 130, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
114 130 1.00
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.37
Consensus pattern (114 bp):
AATTAAAATAGTTTAATTAAGATTAAGGTTAATATTATACATAGTTATAATATTAGAACCTTAAT
TGCAAACATGACAAAAGGAAATTAATTTGATTTTAATTTCCAAGGACTA
Found at i:666512 original size:114 final size:114
Alignment explanation
Indices: 666237--666518 Score: 406
Period size: 114 Copynumber: 2.5 Consensus size: 114
666227 TTAAGAACTT
* *** *
666237 AATTAAAATAGTTTAATTAAGATTAAGTTTAATATTATACATAGTTATAATATTAGAACCTTAAT
1 AATTAAAAGAGTTTAATTAAGATTAAGGCCAATATTGTACATAGTTATAATATTAGAACCTTAAT
666302 TGCAAACATGACAAAAGGAAATTAATTTGATTTTAATTTCCAAGGACTA
66 TGCAAACATGACAAAAGGAAATTAATTTGATTTTAATTTCCAAGGACTA
* ** *
666351 AATTAAAATAGTTTAATTAAGATTAAGGTTAATATTTTACATAGTTATAATATTAGAACCTTAAT
1 AATTAAAAGAGTTTAATTAAGATTAAGGCCAATATTGTACATAGTTATAATATTAGAACCTTAAT
*
666416 TGCAAACATGACAAAAGGAAATTAATTTGATTTTAATTTCTAAGGACTA
66 TGCAAACATGACAAAAGGAAATTAATTTGATTTTAATTTCCAAGGACTA
* ** *
666465 AATTAAAAGGGTTTAATTAAG-TGTTGGGCCAATATTGTA-ATTGGTTATAATATT
1 AATTAAAAGAGTTTAATTAAGAT-TAAGGCCAATATTGTACA-TAGTTATAATATT
666519 GGGCCTTTAG
Statistics
Matches: 155, Mismatches: 11, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
113 2 0.01
114 153 0.99
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.38
Consensus pattern (114 bp):
AATTAAAAGAGTTTAATTAAGATTAAGGCCAATATTGTACATAGTTATAATATTAGAACCTTAAT
TGCAAACATGACAAAAGGAAATTAATTTGATTTTAATTTCCAAGGACTA
Found at i:669056 original size:27 final size:27
Alignment explanation
Indices: 669026--669144 Score: 141
Period size: 27 Copynumber: 4.4 Consensus size: 27
669016 TATAAGCTTT
* *
669026 TGGTCTTGCCACATAAACATCATCTCA
1 TGGTCTTGCCACATAAACATCAACTCG
*
669053 TGGTCTCGCCA-AGTAAACATCAACTCG
1 TGGTCTTGCCACA-TAAACATCAACTCG
* ** *
669080 TGGTCTTACCATGTAAATATCAACTCG
1 TGGTCTTGCCACATAAACATCAACTCG
* *
669107 TGGTCTTGCCACTTAAACATCAACTTG
1 TGGTCTTGCCACATAAACATCAACTCG
669134 TGGTCTTGCCA
1 TGGTCTTGCCA
669145 TGTAACATGT
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
26 1 0.01
27 77 0.99
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.30
Consensus pattern (27 bp):
TGGTCTTGCCACATAAACATCAACTCG
Found at i:671649 original size:14 final size:14
Alignment explanation
Indices: 671630--671663 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
671620 TTAATAAAGA
* *
671630 ATTATTATTTTATT
1 ATTATTATTTAAAT
671644 ATTATTATTTAAAT
1 ATTATTATTTAAAT
671658 ATTATT
1 ATTATT
671664 TTATCAAGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
ATTATTATTTAAAT
Found at i:682158 original size:19 final size:19
Alignment explanation
Indices: 682134--682215 Score: 53
Period size: 19 Copynumber: 4.3 Consensus size: 19
682124 ATCTTTGCAT
682134 GCATAGCATTTATTAAATC
1 GCATAGCATTTATTAAATC
* **
682153 GCATAGAATAAATGT--ATC
1 GCATAGCATTTAT-TAAATC
* *
682171 ACA-AGCATTATACTTTAAATT
1 GCATAGCATT-TA--TTAAATC
*
682192 GCATAGCATTTATTAAATT
1 GCATAGCATTTATTAAATC
682211 GCATA
1 GCATA
682216 AAATAAATCT
Statistics
Matches: 47, Mismatches: 9, Indels: 14
0.67 0.13 0.20
Matches are distributed among these distances:
17 4 0.09
18 6 0.13
19 23 0.49
20 2 0.04
21 6 0.13
22 6 0.13
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.35
Consensus pattern (19 bp):
GCATAGCATTTATTAAATC
Found at i:682243 original size:58 final size:58
Alignment explanation
Indices: 682133--682244 Score: 154
Period size: 58 Copynumber: 1.9 Consensus size: 58
682123 CATCTTTGCA
* * *
682133 TGCATAGCATTTATTAAATCGCATAGAATAAATGTATCACAAGCATTATACTTTAAAT
1 TGCATAGCATTTATTAAATCGCATAAAATAAATCTATCACAAGCATAATACTTTAAAT
* * *
682191 TGCATAGCATTTATTAAATTGCATAAAATAAATCTGTCACATGCA-AACTACTTT
1 TGCATAGCATTTATTAAATCGCATAAAATAAATCTATCACAAGCATAA-TACTTT
682245 GGATGATTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
57 1 0.02
58 46 0.98
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (58 bp):
TGCATAGCATTTATTAAATCGCATAAAATAAATCTATCACAAGCATAATACTTTAAAT
Found at i:691377 original size:170 final size:170
Alignment explanation
Indices: 690204--693257 Score: 1644
Period size: 170 Copynumber: 18.0 Consensus size: 170
690194 GCATATTTAA
*
690204 TGTCAATGGATGGCATC-CGCTTCACATTTCTCAATGCAAACATCCAATTATGATAAGTTTTAA-
1 TGTCAATGGATGGCA-CACGCTTCATATTTCTCAATGCAAACATCCAATTATGAT-AGTTTTAAC
* * * * * * * * * *
690267 CAAAAAGGGAAA-AACATTTCT-CTTTGAAATCATTTATAAGATTATAAACCCATTAAAATTCAA
64 CAAAAA--TAAATAAGATTT-TGATCTAAAATCATTTATAAGATTATAAAACCATTTAAAGTGAG
* * * * *
690330 TAA-ATAGGCTATCGATGGCATAACTGACTATAAATGGACTATTCT
126 TAACA-AGGCTTTCGATGGCATGAGTGACTATAAATTGACTTTTCT
* * * * * *
690375 TGTCAA-GGCATGGCATC-CGCTTAATGTTTCCCAAAGTAAACATCCAATTATGATAACTTTTAA
1 TGTCAATGG-ATGGCA-CACGCTTCATATTTCTCAATGCAAACATCCAATTATGAT-AGTTTTAA
* * * * * ** * *
690438 CCAAAAAT-GATAAATATTTTGATTTGAAATCATTTATAAGACTGGAGAACCATTTAAAGCGAGT
63 CCAAAAATAAAT-AAGATTTTGATCTAAAATCATTTATAAGATTATAAAACCATTTAAAGTGAGT
* * * *
690502 TATAAGGCTTTCGATGGCATGAGTGACTATAAA-TAAATTTT-T
127 AACAAGGCTTTCGATGGCATGAGTGACTATAAATTGACTTTTCT
* ** * * *
690544 T-TCATAACTGGATGGCATC-TGCTTCATATCACTTC-ATACAAACATCCAATTATGAAAGGTTT
1 TGTC--AA-TGGATGGCA-CACGCTTCATATTTC-TCAATGCAAACATCCAATTATGATAGTTTT
* * * * *
690606 AACAAAAAATGAATAAGATTTTGACCTAAAATCATTTATAAGACTATAAAACTATTTAAAGTGAG
61 AACCAAAAATAAATAAGATTTTGATCTAAAATCATTTATAAGATTATAAAACCATTTAAAGTGAG
* * ** * ** * * *
690671 TAACATGGGTTTTAAAT-GCATGGGTGAGAATAAATGGAATTCTCT
126 TAACA-AGGCTTTCGATGGCATGAGTGACTATAAATTGACTTTTCT
* * * * * * *
690716 T-ACTAATGGAT--CACATCTACTTCACATTT-TCTGATGCAAACAACTAATTCTGATAAGTTTT
1 TGTC-AATGGATGGCACA-C-GCTTCATATTTCTC-AATGCAAACATCCAATTATGAT-AGTTTT
* * * * * * * *
690777 AACTAAAAGTGAAA-ACGAGTTTGA--TACAAATTATTTATGAGATTATAAGACCATTTAAAGCG
61 AACCAAAAAT-AAATAAGATTTTGATCTA-AAATCATTTATAAGATTATAAAACCATTTAAAGTG
* * * *
690839 TGTAACTAGGCTTTCGATGGTATGAGTAACTATAAATTGACTTTTCT
124 AGTAACAAGGCTTTCGATGGCATGAGTGACTATAAATTGACTTTTCT
* * * * * * * * *
690886 TGTCAAAGCATGGCA-ATTGCTTCATATTTCCCGATGCAAAAATCCAATCATGGTAGGTTTAACC
1 TGTCAATGGATGGCACA-CGCTTCATATTTCTCAATGCAAACATCCAATTATGATAGTTTTAACC
* * * * * **
690950 AAAAAATGAATAAAATTTTGATCTAAAATCATTTATAAGACTATAAAATCATATAAAGCCAGTAA
65 -AAAAATAAATAAGATTTTGATCTAAAATCATTTATAAGATTATAAAACCATTTAAAGTGAGTAA
* * * * * * *
691015 CAAGGATTTCCATGGCATGAGTTAATATAACTAGACTCTTCT
129 CAAGGCTTTCGATGGCATGAGTGACTATAAATTGACTTTTCT
** * ** * * * **
691057 TACCAATGGATGGCATTA-ATTTCACATTCCTCAATGCGATTATCCAATTATGATAGGTTTTAAC
1 TGTCAATGGATGGCA-CACGCTTCATATTTCTCAATGCAAACATCCAATTATGATA-GTTTTAAC
* * * * * * * * *
691121 CAAAACTAAAAAATACTTTGATATAAAATCATTT-TATGATTATAACACCATTTAAACT-ATGTC
64 CAAAAATAAATAAGATTTTGATCTAAAATCATTTATAAGATTATAAAACCATTTAAAGTGA-GTA
** ** *
691184 AGTACCCTTTCGATGGTATGAGTGACTATAAATTGACTTTTCT
128 ACAAGGCTTTCGATGGCATGAGTGACTATAAATTGACTTTTCT
* * * ** * * *
691227 TGTTAATGGATGGCACACGTTTCATTTTTCTCAATATAAACATCTAATTATGATAGCTTTAACTA
1 TGTCAATGGATGGCACACGCTTCATATTTCTCAATGCAAACATCCAATTATGATAGTTTTAACCA
* * * *
691292 AAAATAAATAAGATTTTGATTTGAAATCATTGATAAGATTATAAAACCATATAAAGTGAGTAACA
66 AAAATAAATAAGATTTTGATCTAAAATCATTTATAAGATTATAAAACCATTTAAAGTGAGTAACA
* * *
691357 AGGCTTTCCATAGCATGAGTGACTAT-AATTGGAGTTTTCT
131 AGGCTTTCGATGGCATGAGTGACTATAAATT-GACTTTTCT
* ** ** * * * *
691397 TATCAATCAATGGCATTCGCTTCA-AGTTTC-CTAATGTAAATATCCAATTGTGATAAGTTTCAA
1 TGTCAATGGATGGCACACGCTTCATA-TTTCTC-AATGCAAACATCCAATTATGAT-AGTTTTAA
* * * * *
691460 CCAAAAAGCAAA-AATATTTTGATCTAAAATAATTTATAAGATTATAAAGCCACTTAAAGTGAGT
63 CCAAAAA-TAAATAAGATTTTGATCTAAAATCATTTATAAGATTATAAAACCATTTAAAGTGAGT
* * * *
691524 AACAAGGCTTTCGATGGGATGGGTTACTATAAA-TGAACTTTTAT
127 AACAAGGCTTTCGATGGCATGAGTGACTATAAATTG-ACTTTTCT
* * ** * * * *
691568 TATAAATGGATGGCAGTCACTTCATCTTTCTCAATGCAAACATCCAA-TATGACAGGTTTAA-CA
1 TGTCAATGGATGGCACACGCTTCATATTTCTCAATGCAAACATCCAATTATGATAGTTTTAACCA
* * * * ** * *
691631 AAAAGGGAAA-AACATTTTGATTTGAAATTGTTTATAAGATTATAAAACCATTAAAATTGAGTAA
66 AAAA--TAAATAAGATTTTGATCTAAAATCATTTATAAGATTATAAAACCATTTAAAGTGAGTAA
* * * * *
691695 TGAA-G-TTGTCAATGGCATGAGTGACTGTAAATAGACTGTTCT
129 -CAAGGCTT-TCGATGGCATGAGTGACTATAAATTGACTTTTCT
* **** * * * * *
691737 TGTTAATGGATGGCATTTACTTAATGTTTTTTGAA-GCAAACATCCAATTATGATAGGTTTTATC
1 TGTCAATGGATGGCACACGCTTCAT-ATTTCTCAATGCAAACATCCAATTATGATA-GTTTTAAC
* * * * *
691801 CGAAAACAAAAAAGATTTTGATTTGAAAA-CATTTATAAGATTA-AGGAA-C------A---AGT
64 CAAAAATAAATAAGATTTTGATCT-AAAATCATTTATAAGATTATA-AAACCATTTAAAGTGAGT
* * *
691854 AACAAGGCTTTTGATGGCATGAGTGTCTATAAATCGACTTTTCT
127 AACAAGGCTTTCGATGGCATGAGTGACTATAAATTGACTTTTCT
* * * * *** * * * * *
691898 TATCACTAGATGCCATTTGCTTCATATCTCT-AGTTACAAACATCCAATTTTGGTAAG-TTTAAC
1 TGTCAATGGATGGCACACGCTTCATATTTCTCA-ATGCAAACATCCAATTATGAT-AGTTTTAAC
* *
691961 C-AAAATGAATATGATTTTGATCTAAAATCATTTATAAGATTATAAAACCATTTAAAGTGAGTAA
64 CAAAAATAAATAAGATTTTGATCTAAAATCATTTATAAGATTATAAAACCATTTAAAGTGAGTAA
* * * * * * * *
692025 CAAAGCTTTCGAAGACAAGAGTGAC-ACAAAATGGAATTCTCT
129 CAAGGCTTTCGATGGCATGAGTGACTA-TAAATTGACTTTTCT
* * ** **
692067 TGTTAATGGAT--CACATCCACTTCACGTTTCTTGATGCAAACAAT-CAATTATGATAAGTTTTA
1 TGTCAATGGATGGCACA--CGCTTCATATTTCTCAATGCAAAC-ATCCAATTATGAT-AGTTTTA
* * * * * *
692129 ACTAAAAA-AGAA-AATGAGTTTGATATAAAATCATTTATAAGATTATCAAACTATTTAAAGTGT
62 ACCAAAAATA-AATAA-GATTTTGATCTAAAATCATTTATAAGATTATAAAACCATTTAAAGTGA
* * *
692192 GTAACTAGGCTTTCGATGGCATGAGTGACTATAACTTGACTTTTCC
125 GTAACAAGGCTTTCGATGGCATGAGTGACTATAAATTGACTTTTCT
* * * *** * * * * * *
692238 TATCAAAGCATGGCATTTGTTTCATGTTTCTTAATGCAAAAAGCCAATTATGGTAGTTTTAACCA
1 TGTCAATGGATGGCACACGCTTCATATTTCTCAATGCAAACATCCAATTATGATAGTTTTAACCA
* * * * * * **
692303 AAAATGAATAAGAATTTGATCTAAAATCATTAAGAGGATTTTAAAACCATTTAAAGCAAGTAACA
66 AAAATAAATAAGATTTTGATCTAAAATCATTTATAAGATTATAAAACCATTTAAAGTGAGTAACA
* * * * *
692368 AGGATTTCCATGGCATGAGTTAATAT-AACTGAACTTTTCT
131 AGGCTTTCGATGGCATGAGTGACTATAAATTG-ACTTTTCT
* * * * * * *
692408 TGTCAA-AGAGTGGCATC-CACTTCACATTCCCCAATGTAAACATCCAATTGTGATAGGTTTTAA
1 TGTCAATGGA-TGGCA-CACGCTTCATATTTCTCAATGCAAACATCCAATTATGATA-GTTTTAA
* * *
692471 CCAAAAATGAAA-AAGATTTCGATAC-AAAATCATTT-TAAGATCATAACACCATTTACAACGT-
63 CCAAAAAT-AAATAAGATTTTGAT-CTAAAATCATTTATAAGATTATAAAACCATTTA-AA-GTG
* * * * * *
692532 -GCAACTAGGCTTTTGATAGTATAAGTGACTATAAATTGACTTTTCT
124 AGTAACAAGGCTTTCGATGGCATGAGTGACTATAAATTGACTTTTCT
* * * ** * * * * * *
692578 TGTAAATGGATGACATATACTTCATGTTTCCCAATGCAAACATTCAATTATGATAGGTTTCACTA
1 TGTCAATGGATGGCACACGCTTCATATTTCTCAATGCAAACATCCAATTATGATAGTTTTAACCA
* * * * * *
692643 AAAATGAATAATATTTCGATCTGAAATCATTTATAAGATTAT-AAACCATCTAAAGCGAGTAACA
66 AAAATAAATAAGATTTTGATCTAAAATCATTTATAAGATTATAAAACCATTTAAAGTGAGTAAC-
** * *
692707 AAGATTTTC-ATGGCATGAATGACTATAAATGGACTTTTCT
130 AAGGCTTTCGATGGCATGAGTGACTATAAATTGACTTTTCT
* * *** * * *
692747 TATCAATTGATGGCATTTGTTTCATGTTTCTCAATGCAAACATCCAATTGTGATAGGTTTTAACC
1 TGTCAATGGATGGCACACGCTTCATATTTCTCAATGCAAACATCCAATTATGATA-GTTTTAACC
** * * *
692812 AAAAA-GCATAAATATTTTGATCTAAAATCATTTATAAGATTATAAAACCACTT-AAGGGAGTAA
65 AAAAATAAAT-AAGATTTTGATCTAAAATCATTTATAAGATTATAAAACCATTTAAAGTGAGTAA
* * ****
692875 CAAGGCTTTCAATGGCATGAGCT-ACTATAAATGGACTCCAAT
129 CAAGGCTTTCGATGGCATGAG-TGACTATAAATTGACTTTTCT
** * * * * * *
692917 TGTCAATGGATGGCATTCACTTCACATTTC-CTAATGGAAACAT-TAGATTATTATAGGTTTAAC
1 TGTCAATGGATGGCACACGCTTCATATTTCTC-AATGCAAACATCCA-ATTATGATAGTTTTAAC
* * * ** * * ** *
692980 AAAAAATGGAA-AACATTTCCATTTGAAATCATTTATAAGATTATAAAACCATAAAAATTGAGTA
64 CAAAAAT-AAATAAGATTTTGATCTAAAATCATTTATAAGATTATAAAACCATTTAAAGTGAGTA
** * * * * *
693044 ATTAGGCTATCGATGCCATGAGTGACTGTAAATGGA--TTGCAT
128 ACAAGGCTTTCGATGGCATGAGTGACTATAAATTGACTTTTC-T
* * * * * *
693086 ATGTTGAA-GGATGGCTTC-CGC-TCAATGTTTTCCCAA-GCGAACACCCAATTATGATAGGTTT
1 -TG-TCAATGGATGGC-ACACGCTTC-AT-ATTTCTCAATGCAAACATCCAATTATGATA-GTTT
* * * * * *
693147 TAACTAAAAACAAAATAA-ATTTTGATTTGAAATCATTTATAATATTGA-AAAACTATTTAAAGT
60 TAACCAAAAA-TAAATAAGATTTTGATCTAAAATCATTTATAAGATT-ATAAAACCATTTAAAGT
* * * * * * * **
693210 AAGTAAGAAGGCTTTCAATGACTTGAGTAACTATCAATCAACTTTTCT
123 GAGTAACAAGGCTTTCGATGGCATGAGTGACTATAAATTGACTTTTCT
693258 CATCACTATA
Statistics
Matches: 2182, Mismatches: 568, Indels: 265
0.72 0.19 0.09
Matches are distributed among these distances:
158 4 0.00
159 34 0.02
160 13 0.01
161 69 0.03
162 3 0.00
164 1 0.00
166 1 0.00
167 4 0.00
168 20 0.01
169 423 0.19
170 817 0.37
171 736 0.34
172 51 0.02
173 6 0.00
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.33
Consensus pattern (170 bp):
TGTCAATGGATGGCACACGCTTCATATTTCTCAATGCAAACATCCAATTATGATAGTTTTAACCA
AAAATAAATAAGATTTTGATCTAAAATCATTTATAAGATTATAAAACCATTTAAAGTGAGTAACA
AGGCTTTCGATGGCATGAGTGACTATAAATTGACTTTTCT
Found at i:693562 original size:20 final size:21
Alignment explanation
Indices: 693532--693571 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
693522 TGCAATCTAG
693532 GCAAGATGTATCGATACATTA
1 GCAAGATGTATCGATACATTA
693553 GCAA-ATGTATCGATACATT
1 GCAAGATGTATCGATACATT
693572 CTTGGAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (21 bp):
GCAAGATGTATCGATACATTA
Found at i:695298 original size:22 final size:20
Alignment explanation
Indices: 695270--695331 Score: 81
Period size: 22 Copynumber: 3.0 Consensus size: 20
695260 CTCTTCTTCA
695270 AATGTATCGATACATTTGGGGC-
1 AATGTATCGATACATTT---GCT
695292 AATGTATCGATACATTTGCT
1 AATGTATCGATACATTTGCT
695312 AATGTATCGATACATCTTGC
1 AATGTATCGATACAT-TTGC
695332 CTAGATTGCA
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
19 2 0.05
20 15 0.39
21 4 0.11
22 17 0.45
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTTGCT
Found at i:695939 original size:170 final size:169
Alignment explanation
Indices: 695763--697341 Score: 1036
Period size: 170 Copynumber: 9.3 Consensus size: 169
695753 ACAGATGCAA
* * * *
695763 TCCATTTACAGTCACTCATGCTATCGATAGCCTAGTTACTCAATTTTAATGGTTTTATAATCTTA
1 TCCATTTATAGTCACTCATGCCATCGAAAGCCTAGTTACTC-CTTTTAATGGTTTTATAATCTTA
* * * * * * *
695828 TAAATGATTTCAAATGGAAATGTTTTTCCTTTTTTGTTAAACCTATAATAAATGGATGTTTGCAT
65 TAAATGATTTCAGATCGAAATCTTTTTCATTTTTGGTTAAACCTATCATAATTGGATGTTTGCAT
* * ** *
695893 TAGGAAATGTGAAGCGCATGCCATCCATTGACAATTAGAG
130 TAGGAAATATGAAGCGAATGCCATCCATTGACAAGAAAAG
* * *
695933 TCCATTTATAGT-AGCTCATGCCATTGAAAGCCTTGTTACT-CTCTTAAGTGGTTTTATAATCTT
1 TCCATTTATAGTCA-CTCATGCCATCGAAAGCCTAGTTACTCCTTTTAA-TGGTTTTATAATCTT
* * * * * * *
695996 ATAAATGATTTTAGATCAAAATACTTATGC-TTTTTGGTTAAAACCTATCACAATTAGATGTTTA
64 ATAAATGATTTCAGATCGAAAT-CTTTTTCATTTTTGGTT-AAACCTATCATAATTGGATGTTTG
* * * * *
696060 CA-TCGAGAAACATGAAAG-AAATGCCATCAATTGATAAGAAAAG
127 CATTAG-GAAATATG-AAGCGAATGCCATCCATTGACAAGAAAAG
*
696103 TCCATTTATAGTCACTCATGCCATGGAAAGCCTTTA-TTACTCGC-TTTAGATGGTTTTATAATC
1 TCCATTTATAGTCACTCATGCCATCGAAAGCC--TAGTTACTC-CTTTTA-ATGGTTTTATAATC
* * * *
696166 TTACAAATGATTTCAGATCGAAATCTTATTCATTTTTGGTGAAACCTATCATAATTCGATGTTTG
62 TTATAAATGATTTCAGATCGAAATCTTTTTCATTTTTGGTTAAACCTATCATAATTGGATGTTTG
* * * * * * * *
696231 CATTGGGAAACATAAAG-TATATGTCATCCATTTACATGAACAG
127 CATTAGGAAATATGAAGCGA-ATGCCATCCATTGACAAGAAAAG
* * * * * * * * * *
696274 TCAATTTATAGTCACTTATGCCATCAAAAGCCTAGCTGCACGCTGTAAATGGTGTTATGATCTTA
1 TCCATTTATAGTCACTCATGCCATCGAAAGCCTAGTTACTC-CTTTTAATGGTTTTATAATCTTA
*********** * * *
696339 -ANNNNNNNNNNTATCGAAATCTTTTTCATTTTTGGGTAAAACCTATCACAATTGGATGTTTACA
65 TAAATGATTTCAGATCGAAATCTTTTTCATTTTT-GGTTAAACCTATCATAATTGGATGTTTGCA
* * * * * * **
696403 TTAGGGAATGTGAAGTGGATGCCATTCTTTGATGAGAAAAG
129 TTAGGAAATATGAAGCGAATGCCATCCATTGACAAGAAAAG
* * * * * * * * *
696444 TTCAGTTATATTAACTCATGCCATGGAAATCCTTGTTACTCGC-TTTATATGATTTTATAATATT
1 TCCATTTATAGTCACTCATGCCATCGAAAGCCTAGTTACTC-CTTTTA-ATGGTTTTATAATCTT
* * * * *
696508 ACAAATGATTTTAGATCAAAAT-TTTATTCATTTTTGGTTAAACCTACCATAATTGGATTTTTGC
64 ATAAATGATTTCAGATCGAAATCTTT-TTCATTTTTGGTTAAACCTATCATAATTGGATGTTTGC
* * * *
696572 ATCAGGAAATATGAAGC-AATTGCTATACTTTGACAAGAAAAG
128 ATTAGGAAATATGAAGCGAA-TGCCATCCATTGACAAGAAAAG
* * * * * * *
696614 TCAATTTATAGTTACTCATACCATCGAAAGCCTAGTTACACGCTTTAAATGGTCTTATAATCTCA
1 TCCATTTATAGTCACTCATGCCATCGAAAGCCTAGTTACTC-CTTTTAATGGTTTTATAATCTTA
* * * * *
696679 TAAATGATTT--GTATC-AAACTCATTTTCACTTTTAGTTAAAACTTATCATAATTGGTTGTTTG
65 TAAATGATTTCAG-ATCGAAA-TCTTTTTCATTTTTGGTT-AAACCTATCATAATTGGATGTTTG
* * * ** * * *
696741 CATCAGGAAATGTGAAG-TAGATGTGATCCATT-AGTAAGATAAT
127 CATTAGGAAATATGAAGCGA-ATGCCATCCATTGA-CAAGAAAAG
* * ** * * * * *
696784 TCCATTTATTGTCACCCATG-CATTTAAAACCCATGTTACTCACTTTAAATGGTTTGATAGTCTT
1 TCCATTTATAGTCACTCATGCCATCGAAAGCCTA-GTTACTC-CTTTTAATGGTTTTATAATCTT
* * * * * *
696848 ATAAATGAGTTT-AGATCAAAATCTTATTCATTTTTTGTTAAACCTTTCATAATTGAATGTTTGT
64 ATAAATGA-TTTCAGATCGAAATCTTTTTCATTTTTGGTTAAACCTATCATAATTGGATGTTTGC
* * * * ** *
696912 ATGAAGTAATATGAAGCAAATGCCATCCCGTGATGAA-AAAA-
128 ATTAGGAAATATGAAGCGAATGCCATCCATTGA-CAAGAAAAG
** * * * * * **
696953 TTGATTTATAGTCACTCATGTCATCGAAAGTCTTA-TAACTCGCTTTAAATGGTTCTCCAATCTT
1 TCCATTTATAGTCACTCATGCCATCGAAAG-CCTAGTTACTC-CTTTTAATGGTTTTATAATCTT
* *
697017 ATAAATGATTTCA-AGTC-AAATTATTTTTCATTTTTGGTTAAAAGCTATCATAATTGGATGTTT
64 ATAAATGATTTCAGA-TCGAAA-TCTTTTTCATTTTTGGTT-AAACCTATCATAATTGGATGTTT
* * * * * * *
697080 TCTTTGGGAAACATTAAGCGGATGCCATGCC-TTGACAAGAATAG
126 GCATTAGGAAATATGAAGCGAATGCCAT-CCATTGACAAGAAAAG
* * * *
697124 TCCATTTATAGTCAGTCATGCCATCGATAA-CCTATTTACTCAATTTTAATGGGTTTATAATCTT
1 TCCATTTATAGTCACTCATGCCATCGA-AAGCCTAGTTACTC-CTTTTAATGGTTTTATAATCTT
* * * * *
697188 ATAAATGATTTCAAAGCGAAATATTTTTCCTTTTTTGTTAAAACCTATCATAATTGGATGTTTGC
64 ATAAATGATTTCAGATCGAAATCTTTTTCATTTTTGGTT-AAACCTATCATAATTGGATGTTTGC
* * * ** *
697253 ATT-GAGAAATTTGAAGCGGATGCCATCCATTGATATTAAATG
128 ATTAG-GAAATATGAAGCGAATGCCATCCATTGACAAGAAAAG
* * * * * *
697295 TCCATTTAAAGTCACTTAGGCCATCAAAAACCTTA-TTAGTCCTTTTA
1 TCCATTTATAGTCACTCATGCCATCGAAAGCC-TAGTTACTCCTTTTA
697342 TGNNNNNNNN
Statistics
Matches: 1081, Mismatches: 274, Indels: 108
0.74 0.19 0.07
Matches are distributed among these distances:
168 16 0.01
169 161 0.15
170 546 0.51
171 296 0.27
172 60 0.06
173 2 0.00
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.37
Consensus pattern (169 bp):
TCCATTTATAGTCACTCATGCCATCGAAAGCCTAGTTACTCCTTTTAATGGTTTTATAATCTTAT
AAATGATTTCAGATCGAAATCTTTTTCATTTTTGGTTAAACCTATCATAATTGGATGTTTGCATT
AGGAAATATGAAGCGAATGCCATCCATTGACAAGAAAAG
Found at i:704084 original size:179 final size:171
Alignment explanation
Indices: 703867--704287 Score: 478
Period size: 179 Copynumber: 2.4 Consensus size: 171
703857 AAACGTCTCG
** * *
703867 TAAAATCCTGAAAAAATATTATGGAAAATTTCCATGAGTTATCTACT-AGGATAAATTTTATTAG
1 TAAAATCCTGAAAATTTATTATGGAATAGTTCCATGAGTTA-CTACTCAGGATAAATTTTATTAG
* *
703931 GAATTAAGGTCCTAAGTTTTAATCACAAAGAATTTC-AAAAGTACTTAG-AAACCGATTCTGACG
65 GAATTAAAGTCCTAAGTTTTAATCACAAAGAATTTCAAAAAGT-C-TAGAAAACCGATTCTGACA
* *
703994 CCTGCAGATAAAAGTCATAGTTTTTGAATTTTTTGAATAGCCAAATCACCTCC
128 CCTGCAGATAAAAGTCACAGTTTTTGAA-----CG----GCCAAATCACCTCC
* *
704047 TAAAATCCTG-AAATTTATTCTGGAATAGTTACATGAGTTA-TACATCAGGATAAATTTTATTAG
1 TAAAATCCTGAAAATTTATTATGGAATAGTTCCATGAGTTACTAC-TCAGGATAAATTTTATTAG
* ** * * * *
704110 GAATTAAATTCCTAAGTTTTGGTGACAAAGTATTTCAAAAAGTCTCGAAAACCGATTCTGCCACC
65 GAATTAAAGTCCTAAGTTTTAATCACAAAGAATTTCAAAAAGTCTAGAAAACCGATTCTGACACC
* *
704175 TGCAGATAAAGGTCACAGTTTTTGAACGGCCACATCACCTCC
130 TGCAGATAAAAGTCACAGTTTTTGAACGGCCAAATCACCTCC
* *
704217 TAAAATCCTGAAAATTTATTTTGGAATGGTTCCATGAGTTAGCTA-TCAGGATAAATTTTATT-G
1 TAAAATCCTGAAAATTTATTATGGAATAGTTCCATGAGTTA-CTACTCAGGATAAATTTTATTAG
704280 GAATTAAA
65 GAATTAAA
704288 TTCCAAAATA
Statistics
Matches: 212, Mismatches: 22, Indels: 24
0.82 0.09 0.09
Matches are distributed among these distances:
170 32 0.15
171 44 0.21
173 2 0.01
174 1 0.00
177 3 0.01
178 3 0.01
179 111 0.52
180 16 0.08
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (171 bp):
TAAAATCCTGAAAATTTATTATGGAATAGTTCCATGAGTTACTACTCAGGATAAATTTTATTAGG
AATTAAAGTCCTAAGTTTTAATCACAAAGAATTTCAAAAAGTCTAGAAAACCGATTCTGACACCT
GCAGATAAAAGTCACAGTTTTTGAACGGCCAAATCACCTCC
Found at i:717469 original size:48 final size:48
Alignment explanation
Indices: 717398--717494 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
717388 GGAGTTTAGC
717398 ATAGAGAGAATCCTAAATGTTAAAAGTGGCACAAAGTCATGATTGGGT
1 ATAGAGAGAATCCTAAATGTTAAAAGTGGCACAAAGTCATGATTGGGT
717446 ATAGAGAGAATCCTAAATGTTAAAAGTGGCACAAAGTCATGATTGGGT
1 ATAGAGAGAATCCTAAATGTTAAAAGTGGCACAAAGTCATGATTGGGT
717494 A
1 A
717495 GTTGTATTGG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.40, C:0.10, G:0.25, T:0.25
Consensus pattern (48 bp):
ATAGAGAGAATCCTAAATGTTAAAAGTGGCACAAAGTCATGATTGGGT
Found at i:722057 original size:30 final size:29
Alignment explanation
Indices: 722023--722131 Score: 114
Period size: 30 Copynumber: 3.7 Consensus size: 29
722013 TTTTGTCAGG
* *
722023 AAAATATGTTTGTCATAATTTAAGACAAGA
1 AAAATATTTTTGTCTTAATTT-AGACAAGA
* *
722053 AAAATATTTTTTATCTTAATCTAGACAAGA
1 AAAATA-TTTTTGTCTTAATTTAGACAAGA
* *
722083 AAACGTA-TTTT-TCTCAATTTAGACAAGAA
1 AAA-ATATTTTTGTCTTAATTTAGACAAG-A
722112 AAAATATTTTTGTCTTAATT
1 AAAATATTTTTGTCTTAATT
722132 AAAGACAANN
Statistics
Matches: 65, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
28 16 0.25
29 12 0.18
30 24 0.37
31 13 0.20
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.39
Consensus pattern (29 bp):
AAAATATTTTTGTCTTAATTTAGACAAGA
Found at i:722119 original size:28 final size:28
Alignment explanation
Indices: 722039--722122 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
722029 TGTTTGTCAT
* *
722039 AATTTAAGACAAGAAAAATATTTTTTATCTT
1 AATTT-AGACAAGAAAAA-ATATTTT-TCTC
* **
722070 AATCTAGACAAGAAAACGTATTTTTCTC
1 AATTTAGACAAGAAAAAATATTTTTCTC
722098 AATTTAGACAAGAAAAAATATTTTT
1 AATTTAGACAAGAAAAAATATTTTT
722123 GTCTTAATTA
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
28 25 0.56
29 5 0.11
30 11 0.24
31 4 0.09
ACGTcount: A:0.45, C:0.10, G:0.08, T:0.37
Consensus pattern (28 bp):
AATTTAGACAAGAAAAAATATTTTTCTC
Found at i:731621 original size:29 final size:28
Alignment explanation
Indices: 731560--731627 Score: 82
Period size: 29 Copynumber: 2.4 Consensus size: 28
731550 GGCCATGTAG
* *
731560 CAAGAAAACATGTTTGTCTTAATTTAAA
1 CAAGAAAACATGTTGGCCTTAATTTAAA
* * *
731588 TAAGAAATCATGGTTGGCCTTAATTTAGA
1 CAAGAAAACAT-GTTGGCCTTAATTTAAA
731617 CAAGAAAACAT
1 CAAGAAAACAT
731628 ATTTGTCTCA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
28 9 0.28
29 23 0.72
ACGTcount: A:0.43, C:0.12, G:0.15, T:0.31
Consensus pattern (28 bp):
CAAGAAAACATGTTGGCCTTAATTTAAA
Found at i:731643 original size:28 final size:28
Alignment explanation
Indices: 731560--731659 Score: 94
Period size: 28 Copynumber: 3.5 Consensus size: 28
731550 GGCCATGTAG
* *
731560 CAAGAAAACATGTTTGTCTTAATTTAAA
1 CAAGAAAACATATTTGTCTTAATTTAGA
* * * * *
731588 TAAGAAATCATGGTTGGCCTTAATTTAGA
1 CAAGAAAACAT-ATTTGTCTTAATTTAGA
*
731617 CAAGAAAACATATTTGTCTCAATTTAGA
1 CAAGAAAACATATTTGTCTTAATTTAGA
*
731645 AAAGATAAA-ATATTT
1 CAAGA-AAACATATTT
731660 TTGTCTCGAT
Statistics
Matches: 58, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
28 32 0.55
29 26 0.45
ACGTcount: A:0.43, C:0.10, G:0.13, T:0.34
Consensus pattern (28 bp):
CAAGAAAACATATTTGTCTTAATTTAGA
Found at i:731844 original size:17 final size:17
Alignment explanation
Indices: 731822--731854 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
731812 ATAATAATAA
731822 AATAA-GAGTTATTATTC
1 AATAAGGAGTT-TTATTC
731839 AATAAGGAGTTTTATT
1 AATAAGGAGTTTTATT
731855 TTTTGAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.39, C:0.03, G:0.15, T:0.42
Consensus pattern (17 bp):
AATAAGGAGTTTTATTC
Found at i:735365 original size:29 final size:28
Alignment explanation
Indices: 735310--735453 Score: 162
Period size: 28 Copynumber: 5.0 Consensus size: 28
735300 ATACTAGCTT
*
735310 AAACATGTTTGTCTTAATTTAGGCAAGA
1 AAACATGTTTGTCTTAATTTAGACAAGA
*
735338 AAACATGTTTGGCCTTAATTTAGACAAGA
1 AAACATGTTT-GTCTTAATTTAGACAAGA
* *
735367 AAATATGTTTGTCTTAATATAAGACAAGAA
1 AAACATGTTTGTCTTAAT-TTAGACAAG-A
* * *
735397 AAATAATTTTTGTCTTAATCTAGACAAGA
1 AAA-CATGTTTGTCTTAATTTAGACAAGA
* * *
735426 AAATATATTTGTCTCAATTTAGACAAGA
1 AAACATGTTTGTCTTAATTTAGACAAGA
735454 TAAAATATTT
Statistics
Matches: 99, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
28 38 0.38
29 37 0.37
30 11 0.11
31 13 0.13
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.35
Consensus pattern (28 bp):
AAACATGTTTGTCTTAATTTAGACAAGA
Found at i:735424 original size:59 final size:58
Alignment explanation
Indices: 735351--735473 Score: 176
Period size: 59 Copynumber: 2.1 Consensus size: 58
735341 CATGTTTGGC
* * * *
735351 CTTAATTTAGACAAGAAAATATGTTTGTCTTAATATAAGACAAGA-AAAATAATTTTTGT
1 CTTAATCTAGACAAGAAAATATATTTGTCTCAAT-TAAGACAAGATAAAAT-ATTTTTAT
*
735410 CTTAATCTAGACAAGAAAATATATTTGTCTCAATTTAGACAAGATAAAATATTTTTAT
1 CTTAATCTAGACAAGAAAATATATTTGTCTCAATTAAGACAAGATAAAATATTTTTAT
735468 CTTAAT
1 CTTAAT
735474 TAAAGACAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
58 22 0.38
59 36 0.62
ACGTcount: A:0.43, C:0.09, G:0.10, T:0.38
Consensus pattern (58 bp):
CTTAATCTAGACAAGAAAATATATTTGTCTCAATTAAGACAAGATAAAATATTTTTAT
Found at i:735448 original size:28 final size:28
Alignment explanation
Indices: 735317--735474 Score: 163
Period size: 29 Copynumber: 5.4 Consensus size: 28
735307 CTTAAACATG
* * *
735317 TTTGTCTTAATTTAGGCAAGAAAACATG
1 TTTGTCTTAATTTAGACAAGAAAATATA
* *
735345 TTTGGCCTTAATTTAGACAAGAAAATATG
1 TTT-GTCTTAATTTAGACAAGAAAATATA
* *
735374 TTTGTCTTAATATAAGACAAGAAAAATAATT
1 TTTGTCTTAAT-TTAGACAAG-AAAAT-ATA
*
735405 TTTGTCTTAATCTAGACAAGAAAATATA
1 TTTGTCTTAATTTAGACAAGAAAATATA
* *
735433 TTTGTCTCAATTTAGACAAGATAAAATATT
1 TTTGTCTTAATTTAGACAAG--AAAATATA
*
735463 TTTATCTTAATT
1 TTTGTCTTAATT
735475 AAAGACAAAA
Statistics
Matches: 110, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
28 30 0.27
29 38 0.35
30 29 0.26
31 13 0.12
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.39
Consensus pattern (28 bp):
TTTGTCTTAATTTAGACAAGAAAATATA
Found at i:739163 original size:29 final size:28
Alignment explanation
Indices: 739118--739203 Score: 100
Period size: 29 Copynumber: 3.0 Consensus size: 28
739108 ACAAGAAATA
* *
739118 ATTTTCTTGTTTTAAATTAAGACAAACTT
1 ATTTTCTTG-TCTAAATTAAGACAAACAT
* *
739147 ATTTTCTTGTCTAAAATGAGACCAAACAT
1 ATTTTCTTGTCTAAATTAAGA-CAAACAT
* *
739176 ATTTTCTTATCTAAATTAGGACAAACAT
1 ATTTTCTTGTCTAAATTAAGACAAACAT
739204 GTTAAAACTG
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
28 16 0.33
29 32 0.67
ACGTcount: A:0.37, C:0.14, G:0.08, T:0.41
Consensus pattern (28 bp):
ATTTTCTTGTCTAAATTAAGACAAACAT
Found at i:746274 original size:35 final size:35
Alignment explanation
Indices: 746230--746434 Score: 134
Period size: 35 Copynumber: 6.0 Consensus size: 35
746220 GTTGGTATTG
*
746230 GGTTTTGGTTGATCCCGTGAAAAACCATTGTTAAA
1 GGTTTTGGTTGAGCCCGTGAAAAACCATTGTTAAA
* **** *
746265 GGTTGTGGTTGAGAATTTGAAAAACCATT-TT--G
1 GGTTTTGGTTGAGCCCGTGAAAAACCATTGTTAAA
* * * * *
746297 GGTTTTGGTTCATCCCATGAAAAATCATTATTAAA
1 GGTTTTGGTTGAGCCCGTGAAAAACCATTGTTAAA
* * ** * *
746332 GGTTGTGGTTAAGCCTTTGAAAAACTATT-TT--G
1 GGTTTTGGTTGAGCCCGTGAAAAACCATTGTTAAA
* **
746364 GGTTTTGGTTGATCTTGTGAAAAACCATTGTTAAA
1 GGTTTTGGTTGAGCCCGTGAAAAACCATTGTTAAA
* * ** *
746399 GGTTATGGCTGAGCCCGTGAAAGGCCATTGTAAAA
1 GGTTTTGGTTGAGCCCGTGAAAAACCATTGTTAAA
746434 G
1 G
746435 CTCACTAGAA
Statistics
Matches: 125, Mismatches: 39, Indels: 12
0.71 0.22 0.07
Matches are distributed among these distances:
32 44 0.35
33 4 0.03
34 4 0.03
35 73 0.58
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.35
Consensus pattern (35 bp):
GGTTTTGGTTGAGCCCGTGAAAAACCATTGTTAAA
Found at i:746318 original size:32 final size:32
Alignment explanation
Indices: 746282--746392 Score: 96
Period size: 32 Copynumber: 3.4 Consensus size: 32
746272 GTTGAGAATT
* *
746282 TGAAAAACCATTTTGGGTTTTGGTTCATCCCA
1 TGAAAAACCATTTTGGGTTTTGGTTAATCCTA
* * * * *
746314 TGAAAAATCATTATTAAAGGTTGTGGTTAAGCCTT
1 TGAAAAACCATT-TT--GGGTTTTGGTTAATCCTA
* * * *
746349 TGAAAAACTATTTTGGGTTTTGGTTGATCTTG
1 TGAAAAACCATTTTGGGTTTTGGTTAATCCTA
746381 TGAAAAACCATT
1 TGAAAAACCATT
746393 GTTAAAGGTT
Statistics
Matches: 60, Mismatches: 16, Indels: 6
0.73 0.20 0.07
Matches are distributed among these distances:
32 34 0.57
33 2 0.03
34 2 0.03
35 22 0.37
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.39
Consensus pattern (32 bp):
TGAAAAACCATTTTGGGTTTTGGTTAATCCTA
Found at i:746420 original size:67 final size:67
Alignment explanation
Indices: 746227--746413 Score: 266
Period size: 67 Copynumber: 2.8 Consensus size: 67
746217 AAAGTTGGTA
**
746227 TTGGGTTTTGGTTGATCCCGTGAAAAACCATTGTTAAAGGTTGTGGTTGAGAATTTGAAAAACCA
1 TTGGGTTTTGGTTGATCCCGTGAAAAACCATTGTTAAAGGTTGTGGTTGAGCCTTTGAAAAACCA
746292 TT
66 TT
* * * * * *
746294 TTGGGTTTTGGTTCATCCCATGAAAAATCATTATTAAAGGTTGTGGTTAAGCCTTTGAAAAACTA
1 TTGGGTTTTGGTTGATCCCGTGAAAAACCATTGTTAAAGGTTGTGGTTGAGCCTTTGAAAAACCA
746359 TT
66 TT
** * *
746361 TTGGGTTTTGGTTGATCTTGTGAAAAACCATTGTTAAAGGTTATGGCTGAGCC
1 TTGGGTTTTGGTTGATCCCGTGAAAAACCATTGTTAAAGGTTGTGGTTGAGCC
746414 CGTGAAAGGC
Statistics
Matches: 103, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
67 103 1.00
ACGTcount: A:0.27, C:0.11, G:0.24, T:0.37
Consensus pattern (67 bp):
TTGGGTTTTGGTTGATCCCGTGAAAAACCATTGTTAAAGGTTGTGGTTGAGCCTTTGAAAAACCA
TT
Found at i:750581 original size:30 final size:30
Alignment explanation
Indices: 750546--750644 Score: 96
Period size: 28 Copynumber: 3.3 Consensus size: 30
750536 TTTTGTCTTT
*
750546 AATTGAGACAAAAATATTTTTTCTTGTCTA
1 AATTAAGACAAAAATATTTTTTCTTGTCTA
* **
750576 AATTGAGAC--AAATACGTTTTCTTGTCTA
1 AATTAAGACAAAAATATTTTTTCTTGTCTA
* * *
750604 GATTAAGATAAAAA-ATATTTTTCTTATCTTA
1 AATTAAGACAAAAATAT-TTTTTCTTGTC-TA
750635 AATTAAGACA
1 AATTAAGACA
750645 NNNNNNNNNN
Statistics
Matches: 55, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
28 23 0.42
29 1 0.02
30 21 0.38
31 10 0.18
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.40
Consensus pattern (30 bp):
AATTAAGACAAAAATATTTTTTCTTGTCTA
Found at i:760057 original size:29 final size:29
Alignment explanation
Indices: 759985--760111 Score: 118
Period size: 29 Copynumber: 4.4 Consensus size: 29
759975 NNNNNNNNAT
* * *
759985 ATGTTTTCTTGTC-TAGATTAAGAGAAAAA
1 ATGTTTTCTTGTCTTAAATTAAGA-CAAAC
* *
760014 ATATTTTTCTTGTCTTTAATTAAGACAAAC
1 AT-GTTTTCTTGTCTTAAATTAAGACAAAC
* *
760044 ATGTTTTCTTGTC-TAAATTAAGGCCAACC
1 ATGTTTTCTTGTCTTAAATTAA-GACAAAC
*
760073 ATGATTTCATT-T-TTAAATTAAGACAAAC
1 ATGTTTTC-TTGTCTTAAATTAAGACAAAC
760101 ATGTTTTCTTG
1 ATGTTTTCTTG
760112 CTACATGGCC
Statistics
Matches: 79, Mismatches: 13, Indels: 13
0.75 0.12 0.12
Matches are distributed among these distances:
27 2 0.03
28 19 0.24
29 33 0.42
30 17 0.22
31 8 0.10
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.43
Consensus pattern (29 bp):
ATGTTTTCTTGTCTTAAATTAAGACAAAC
Found at i:775188 original size:20 final size:20
Alignment explanation
Indices: 775163--775201 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
775153 AAAAGACTTA
775163 GTCGACTAAGAAGTATGTTG
1 GTCGACTAAGAAGTATGTTG
775183 GTCGACTAAGAAGTATGTT
1 GTCGACTAAGAAGTATGTT
775202 AGTCAAGTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.10, G:0.28, T:0.31
Consensus pattern (20 bp):
GTCGACTAAGAAGTATGTTG
Found at i:775212 original size:20 final size:20
Alignment explanation
Indices: 775160--775213 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
775150 CAAAAAAGAC
*
775160 TTAGTCGACTAAGAAGTATG
1 TTAGTCAACTAAGAAGTATG
* *
775180 TTGGTCGACTAAGAAGTATG
1 TTAGTCAACTAAGAAGTATG
*
775200 TTAGTCAAGTAAGA
1 TTAGTCAACTAAGA
775214 GCTATGAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.35, C:0.09, G:0.26, T:0.30
Consensus pattern (20 bp):
TTAGTCAACTAAGAAGTATG
Found at i:775597 original size:36 final size:35
Alignment explanation
Indices: 775550--775724 Score: 123
Period size: 32 Copynumber: 5.1 Consensus size: 35
775540 AGTTAGTATT
*
775550 AGGTTTTGGTTGATCCCGTTAAAAACCATTTGTTAA
1 AGGTTGTGGTTGATCCCGTTAAAAACCA-TTGTTAA
* *
775586 AGGTTGTGGTTGA-GCCTTTGAAAAACCATT-TT--
1 AGGTTGTGGTTGATCCCGTT-AAAAACCATTGTTAA
* * * *
775618 GGGTTTTGGTTCATCCCGTGAAAAACCATTGTTAA
1 AGGTTGTGGTTGATCCCGTTAAAAACCATTGTTAA
** * *
775653 AGGTTGTGGTT-AAGCCTTTGAAAAACCATT-CT--
1 AGGTTGTGGTTGATCCCGTT-AAAAACCATTGTTAA
* * ** *
775685 GGGTTTTGGTTGATCTTGTGAAAAACCATTGTTAA
1 AGGTTGTGGTTGATCCCGTTAAAAACCATTGTTAA
775720 AGGTT
1 AGGTT
775725 ATGACTGAGC
Statistics
Matches: 103, Mismatches: 26, Indels: 21
0.69 0.17 0.14
Matches are distributed among these distances:
32 39 0.38
33 8 0.08
34 7 0.07
35 29 0.28
36 20 0.19
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.37
Consensus pattern (35 bp):
AGGTTGTGGTTGATCCCGTTAAAAACCATTGTTAA
Found at i:775675 original size:35 final size:35
Alignment explanation
Indices: 775570--775756 Score: 145
Period size: 35 Copynumber: 5.5 Consensus size: 35
775560 TGATCCCGTT
775570 AAAAACCATTTGTTAAAGGTTGTGGTTGAGCCTTTG
1 AAAAACCA-TTGTTAAAGGTTGTGGTTGAGCCTTTG
* * * * **
775606 AAAAACCATT-TT--GGGTTTTGGTTCATCCCGTG
1 AAAAACCATTGTTAAAGGTTGTGGTTGAGCCTTTG
*
775638 AAAAACCATTGTTAAAGGTTGTGGTTAAGCCTTTG
1 AAAAACCATTGTTAAAGGTTGTGGTTGAGCCTTTG
* * * *
775673 AAAAACCATT-CT--GGGTTTTGGTTGA-TCTTGTG
1 AAAAACCATTGTTAAAGGTTGTGGTTGAGCCTT-TG
* ** *
775705 AAAAACCATTGTTAAAGGTTATGACTGAGCCTGTG
1 AAAAACCATTGTTAAAGGTTGTGGTTGAGCCTTTG
** *
775740 AAAGGCCATTGTAAAAG
1 AAAAACCATTGTTAAAG
775757 CTTAGTGGAA
Statistics
Matches: 116, Mismatches: 27, Indels: 17
0.73 0.17 0.11
Matches are distributed among these distances:
31 3 0.03
32 46 0.40
33 3 0.03
34 3 0.03
35 51 0.44
36 10 0.09
ACGTcount: A:0.29, C:0.13, G:0.24, T:0.34
Consensus pattern (35 bp):
AAAAACCATTGTTAAAGGTTGTGGTTGAGCCTTTG
Found at i:775749 original size:67 final size:67
Alignment explanation
Indices: 775551--775742 Score: 285
Period size: 67 Copynumber: 2.9 Consensus size: 67
775541 GTTAGTATTA
*
775551 GGTTTTGGTTGATCCCGTTAAAAACCATTTGTTAAAGGTTGTGGTTGAGCCTTTGAAAAACCATT
1 GGTTTTGGTTGATCCCGTGAAAAACCA-TTGTTAAAGGTTGTGGTTGAGCCTTTGAAAAACCATT
*
775616 TTG
65 CTG
* *
775619 GGTTTTGGTTCATCCCGTGAAAAACCATTGTTAAAGGTTGTGGTTAAGCCTTTGAAAAACCATTC
1 GGTTTTGGTTGATCCCGTGAAAAACCATTGTTAAAGGTTGTGGTTGAGCCTTTGAAAAACCATTC
775684 TG
66 TG
** * ** *
775686 GGTTTTGGTTGATCTTGTGAAAAACCATTGTTAAAGGTTATGACTGAGCCTGTGAAA
1 GGTTTTGGTTGATCCCGTGAAAAACCATTGTTAAAGGTTGTGGTTGAGCCTTTGAAA
775743 GGCCATTGTA
Statistics
Matches: 112, Mismatches: 12, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
67 87 0.78
68 25 0.22
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.36
Consensus pattern (67 bp):
GGTTTTGGTTGATCCCGTGAAAAACCATTGTTAAAGGTTGTGGTTGAGCCTTTGAAAAACCATTC
TG
Found at i:782835 original size:23 final size:24
Alignment explanation
Indices: 782790--782836 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 24
782780 ATGCAAAGGC
*
782790 TAAAATAAATTAATTTTTAAAAAA
1 TAAAATAAATTAAATTTTAAAAAA
*
782814 TAAAA-AAA-TAAATTTTAGAAAA
1 TAAAATAAATTAAATTTTAAAAAA
782836 T
1 T
782837 TTTAAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 13 0.62
23 3 0.14
24 5 0.24
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (24 bp):
TAAAATAAATTAAATTTTAAAAAA
Found at i:784064 original size:35 final size:35
Alignment explanation
Indices: 783996--784064 Score: 93
Period size: 35 Copynumber: 2.0 Consensus size: 35
783986 NNNNNNNNNN
* * *
783996 AAGGCTCAACCACAACCTTTAACAATGGCTTTTCA
1 AAGGCTCAACCACAACCCTCAACAATGACTTTTCA
* *
784031 AAGGCTCAGCCACAACCCTCAACAATGATTTTTC
1 AAGGCTCAACCACAACCCTCAACAATGACTTTTC
784065 TCGGGATCAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.33, C:0.30, G:0.12, T:0.25
Consensus pattern (35 bp):
AAGGCTCAACCACAACCCTCAACAATGACTTTTCA
Found at i:809977 original size:68 final size:68
Alignment explanation
Indices: 809869--809997 Score: 170
Period size: 68 Copynumber: 1.9 Consensus size: 68
809859 GATGAATCCC
** *
809869 ATAAGATTATATATATGATGTAAATTACATATACGGTATGAGATGATTAAGTATGCATGATGTAT
1 ATAAGATTATATATATGATGTAAATTACATATACCATATGAGATAATTAAGTATGCATGATGTAT
809934 ACT
66 ACT
* * * * *
809937 ATAAGATTGTGTATATGATGTAAGTTTCAT-TCACCATATGAGGTAATTAAGTATGCATGAT
1 ATAAGATTATATATATGATGTAAATTACATAT-ACCATATGAGATAATTAAGTATGCATGAT
809998 AAATGCCATG
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
67 1 0.02
68 51 0.98
ACGTcount: A:0.37, C:0.07, G:0.19, T:0.37
Consensus pattern (68 bp):
ATAAGATTATATATATGATGTAAATTACATATACCATATGAGATAATTAAGTATGCATGATGTAT
ACT
Found at i:810115 original size:68 final size:67
Alignment explanation
Indices: 809991--810118 Score: 177
Period size: 68 Copynumber: 1.9 Consensus size: 67
809981 AATTAAGTAT
*
809991 GCATGATAAATGCCATGAGATAATGTATATGAAGTATATTCCATATACTACCTGAGATGATTGAG
1 GCATGATAAATGCCATGAAATAATGTATATGAAGTATATTCCATATACTA-CTGAGATGATTGAG
810056 AAA
65 AAA
* * * *
810059 GCATGATGAATGCCATGAAATTATGTATATGATGTATTTTCCATATATCTTA-TGAGATGA
1 GCATGATAAATGCCATGAAATAATGTATATGAAGTATATTCCATATA-C-TACTGAGATGA
810119 ATAAGTTGGT
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
68 50 0.94
69 1 0.02
70 2 0.04
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.34
Consensus pattern (67 bp):
GCATGATAAATGCCATGAAATAATGTATATGAAGTATATTCCATATACTACTGAGATGATTGAGA
AA
Found at i:811754 original size:171 final size:169
Alignment explanation
Indices: 811450--814432 Score: 1558
Period size: 171 Copynumber: 17.5 Consensus size: 169
811440 ATGTGACGCA
* * * * * **
811450 AAATC-TTTTCATTTTTTGTTTAAA-TTCATCATGATTGAATGTTTGCATCTGAAA-AGGTGAAG
1 AAATCTTTTTCATTTTTGGTTAAAACAT-ATCATAATTGGATGTTTGCATAAGAAACA--TGAAG
* * * * *
811512 CAGATGCCATCCTTTGACATA-AAGAGTCCATTTATAGTCACTCATGCCTTCGAAAGACTTATTA
63 CAGATGCCATCCATTGACA-AGAAAAGTCCATTTATAGTCACTAATGCCTTCGAAAGCCTTGTTA
* * * * *
811576 GTTGCTTTAAGTGGTTTTATAATCTTATAAATAATTTTACCTTG
127 CTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTA-ATTG
** * * * * *
811620 AAATCTTTTTTGTTTTTTGTTAAAAGAGATCATAATTGGATGCTTGCAGCAAGAAACATGAAGCA
1 AAATCTTTTTCATTTTTGGTTAAAACATATCATAATTGGATGTTTGCA-TAAGAAACATGAAGCA
* * * * *
811685 GATGCCATCCATGGACAAGAAAAGTTCATCTATAGTCACTTATGCCTTCGAAAGCCTTGTTACTT
65 GATGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTAATGCCTTCGAAAGCCTTGTTACTC
* * **
811750 GCTTTAAATAGTTTTAAAATCTTATAAGGGATTTTAAATTG
130 GCTTTAAATGGTTTTATAATCTTATAAATGATTTT-AATTG
* * * *
811791 AAATCCTTTTTGC--TTTTGGTTAAAACAAATCATAGTTGGATGTTTACATAGAGAAACATGGAG
1 AAAT-CTTTTT-CATTTTTGGTTAAAACATATCATAATTGGATGTTTGCATA-AGAAACATGAAG
** * * * * * * * *
811854 TGGATGCCATGCATTGATAAGAAAAGTCCTTTTATAGTCACCAATGGCATCGAAAGCCTTATTAT
63 CAGATGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTAATGCCTTCGAAAGCCTTGTTAC
* ** * * **
811919 TCGCTTTAAAAGAATTTATAGTCTTAAAAATGATTTTAAATCA
128 TCGCTTTAAATGGTTTTATAATCTTATAAATGATTTT-AATTG
* * *
811962 AAATCTTTTGCATTTTTGGTTAAAAC-TGATCATAATGGGATGTTTGCATTAGAAAACATGAAG-
1 AAATCTTTTTCATTTTTGGTTAAAACAT-ATCATAATTGGATGTTTGCATAAG-AAACATGAAGC
* * * * ** ** * *
812025 TGAAAGGCATTCATTCTCAAGAAAAGTTTATTTATAATCACTAATGCCTTTGAAAGCCTT-TTAC
64 AG-ATGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTAATGCCTTCGAAAGCCTTGTTAC
** * * * * *
812089 TCATTTTCATTGCTTTTATAATCTTTTAAATGATTTTCAGTTG
128 TCGCTTTAAATGGTTTTATAATCTTATAAATGATTTT-AATTG
* * * * ** * * *
812132 -AA-CTCTTTCATTTTTGGTTCAAACCTATCATAATTGGCTAG-TTGCATTGGGAAATATGTACC
1 AAATCTTTTTCATTTTTGGTTAAAACATATCATAATTGGAT-GTTTGCA-TAAGAAACATGAAGC
* * * * * * *
812194 AAATGCTATCCATTGACAAGAAAAGTGCATTTATTGTCACTTATACCTTTGAAAGCCTTGTTACT
64 AGATGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTAATGCCTTCGAAAGCCTTGTTACT
* * * *
812259 CGCTTTGAATGGTTTTATAATCTTATAAATAATTTTAAATC
129 CGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAATTG
* * * * * * * **
812300 AATATATTTTTCTTTTTTGCTTAAAATATATCATATTTGAATGTTAGCATTGGGAAACATGAAGC
1 AA-ATCTTTTTCATTTTTGGTTAAAACATATCATAATTGGATGTTTGCA-TAAGAAACATGAAGC
* * * * * * * * * *
812365 AAAAGCCATCCATTGACTAGAAAAGTCTATTTGTAGACACTCATACCTTTGAAAGCCTAGTTACT
64 AGATGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTAATGCCTTCGAAAGCCTTGTTACT
* * * * ***
812430 TGCTTTGAATAGATTTATAATCTTATAAATGATTTTAAAACA
129 CGCTTTAAATGGTTTTATAATCTTATAAATGATTTT-AATTG
* * * * ** *
812472 AAATATCTTTCATTTTTAGTTAAAA-TTAATCATAATTCAATGTTTGCATCAAGAAACATTAAGC
1 AAATCTTTTTCATTTTTGGTTAAAACAT-ATCATAATTGGATGTTTGCAT-AAGAAACATGAAGC
* * * * * **
812536 TGATAG-CATCCATTGACAAAAAAAGTCCATTTATAGTCACTCATGTCATT-GAAAGTCTAATTA
64 AGAT-GCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTAATG-CCTTCGAAAGCCTTGTTA
* ** * *
812599 CTCACTTTAAATAATTTTATACTCTTATAAAT-A-ATT--TT-
127 CTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAATTG
* * * * * * ** ***
812637 -AATCTTTTTCATATTTGGTTTAAACAAATCATATTTGGATTTTTGTACTGGGAAACATGAAATG
1 AAATCTTTTTCATTTTTGGTTAAAACATATCATAATTGGATGTTTGCA-TAAGAAACATGAAGCA
** * * * *
812701 GATGCCATTGATTGGA-AAGAAAAGTCCATTTATAGTCACTTATGCCTT-TAAAGGACTTGTTAG
65 GATGCCATCCATT-GACAAGAAAAGTCCATTTATAGTCACTAATGCCTTCGAAA-GCCTTGTTAC
* * *
812764 TCACTTTAAATTGTTTTATAATCTTA-AAAGAGATTTTAATTG
128 TCGCTTTAAATGGTTTTATAATCTTATAAA-TGATTTTAATTG
* * * * * *** * * * **
812806 AAATCTTTTTCGTTTATGGTTCAAACCTATGATAATTGGATGTTCAAATTAGGAACTATAAAGTG
1 AAATCTTTTTCATTTTTGGTTAAAACATATCATAATTGGATGTTTGCATAAGAAAC-ATGAAGCA
* *
812871 GATGCCATCCATTGACAAGAAAAGTCCATTTATATTCACTAATGCCTTCGACAA-TCTTGTTACT
65 GATGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTAATGCCTTCGA-AAGCCTTGTTACT
* * *
812935 CACTTTAAATGGTTTTATAATTTTATAAATGATTTTAAATGG
129 CGCTTTAAATGGTTTTATAATCTTATAAATGATTTT-AATTG
* * * *** *
812977 AAA------T-ATTTTT-GTTAAAACAGAT-ATATTTGGATGTTTAG-ATCAACAAATGCGAATC
1 AAATCTTTTTCATTTTTGGTTAAAACATATCATAATTGGATGTTT-GCAT-AAGAAACATGAAGC
* ** * * * *
813032 -GAATGCCATTCATTGACAATTAAAGTCCATTTATAGTCAATCATGCCTTCGAAAGCATAGTTAC
64 AG-ATGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTAATGCCTTCGAAAGCCTTGTTAC
* * * **
813096 TCACTTTAAATGGTTTTATAATCATA-AAATTGATTTTTGATCA
128 TCGCTTTAAATGGTTTTATAATCTTATAAA-TGA-TTTTAATTG
* ** *
813139 AAATCTTTTTAATTTTTGGTTATAATGA-ATCATAATTGGATGATTGCATTGGAAAGTCCATTTA
1 AAATCTTTTTCATTTTTGGTTA-AAACATATCATAATTGGATGTTTGCA-T---AAG--------
* * * * ** * *
813203 CAAACATAAAGCTA-ATAG-CATCTATTGATAAGAAAAGTCCATTTATAGTCACTCATATCATCA
53 -AAACATGAAGC-AGAT-GCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTAATGCCTTCG
* ** ** * ***
813266 AAAGTCTAATTACTCATTTTAAATGGTTTTATAATCTTATAAATAATTTTAAACCA
115 AAAGCCTTGTTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTT-AATTG
* * * * * * * ** * ***
813322 AAATCTTTTTCGTTTTTGATTCAAACAAATCATATTTGGATTTTTGTATTGGGAAATATGAAATG
1 AAATCTTTTTCATTTTTGGTTAAAACATATCATAATTGGATGTTTGCA-TAAGAAACATGAAGCA
* * * * * *
813387 GATGTCATCAATTTACAAGAAAAGTCCATTTATAGTCACTGATGCCTTTGAAAGCCTTATTACTC
65 GATGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTAATGCCTTCGAAAGCCTTGTTACTC
** * *
813452 ATTTTAAATGGTTTTATAA-CTTATAATTCATTTTAAATTG
130 GCTTTAAATGGTTTTATAATCTTATAAATGATTTT-AATTG
* * * ** *
813492 AAATCTTTCTCATTTTTGG-TAAAACAAATTAT-ATTGGGATGTTTGCATCAA-AAGATTTGAAT
1 AAATCTTTTTCATTTTTGGTTAAAACATATCATAATT-GGATGTTTGCAT-AAGAA-ACATGAAG
* * * * * * ****
813554 CAGATGCCATCCATTGATAAGAAAAGTGCA-TTATAGTCACTCATTCCATCGAAAACCCAAATAC
63 CAGATGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTAATGCCTTCGAAAGCCTTGTTAC
** * ** **
813618 TCATTTTAGATCATTTTATAATCTTATAAATGATTTTAA-AC
128 TCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAATTG
* * ** * * * * * * * * * * *
813659 AGATTTTTTTTGTTTTTGGTCAAAATAGATTATATTTTGATTTTTAC-TTAGAGAACGGTGAAGT
1 AAATCTTTTTCATTTTTGGTTAAAACATATCATAATTGGATGTTTGCATAAGA-AAC-ATGAAGC
* * * *
813723 AGATGCCATCGATTGCTTTCAAG-AAAGTCCATTAATAGTCACTCATGCCTTC-AGAAGCCTTGT
64 AGATGCCATCCATTG---ACAAGAAAAGTCCATTTATAGTCACTAATGCCTTCGA-AAGCCTTGT
** * * * **
813786 TACTTACTTTAAATGATTTTAGAATCTTATAAATGATTCTAATCA
125 TACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAATTG
* * * * * **
813831 AAATCTTTTTCATTTTTTAGTTAAAGCAAATCAT-ATGTAGATGTTTTCAGTGGGAAACATGAAG
1 AAATCTTTTTCA-TTTTTGGTTAAAACATATCATAAT-TGGATGTTTGCA-TAAGAAACATGAAG
** * * ** * * **
813895 TGGATGCCAGCCATTGCCAAGAAAAGTCCATTTATAGTCA-TGCCTACCATATAAAG-CTTAGTT
63 CAGATGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACT-AATGCCTTCGAAAGCCTT-GTT
* * * * *
813958 ACTTGGTTTAAATGTTTTTATAATTTTATAAATTATTTTAATTCG
126 ACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAATT-G
** * * * * ** * *
814003 AAAAAATTTTT-GTTTTCGATTAAAACATATCATAATTGGTTGTTTGCATTGGGAAAGATGAAAC
1 -AAATCTTTTTCATTTTTGGTTAAAACATATCATAATTGGATGTTTGCA-TAAGAAACATGAAGC
* * * * * * * * *
814067 GGAAGCCATCCATTGATAAAAAAAAGTCCATTTACAGTCACTCATACCTTCGAAAGCTTTATTAC
64 AGATGCCATCCATTGA-CAAGAAAAGTCCATTTATAGTCACTAATGCCTTCGAAAGCCTTGTTAC
* * * ***
814132 TCACTTTAAAAGGTTTCATAATCTTATAAATGATTTTTAAGCA
128 TCGCTTTAAATGGTTTTATAATCTTATAAATGA-TTTTAATTG
* * * * * * * *
814175 AAATCTTTTACGTTTTTAGTTCACACCA-A-CTATAATTGGATGCTTGCATCAGGAAACATGAAA
1 AAATCTTTTTCATTTTTGGTT-AAAACATATC-ATAATTGGATGTTTGCAT-AAGAAACATGAAG
* * * * * ** * *
814238 TAGATGGCATCCATTAACAAGAAAAGTCCATTTATAGTCATTCATGCAATCTAAACCCTTGTTAC
63 CAGATGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTAATGCCTTCGAAAGCCTTGTTAC
* * * * * *
814303 TTGATTTAAATGCTTTTATAATATTATAAATAATTTTAAATCG
128 TCGCTTTAAATGGTTTTATAATCTTATAAATGATTTT-AATTG
* * * * * * * *
814346 AAATGTTTTTTATTTTTGGTTAAAACCTATTATAATTGGATGTTTGCATTGAGAAATATGGACCA
1 AAATCTTTTTCATTTTTGGTTAAAACATATCATAATTGGATGTTTGCA-TAAGAAACATGAAGCA
*
814411 GATGCCATCCATTGATAAGAAA
65 GATGCCATCCATTGACAAGAAA
814433 TGTCATGACC
Statistics
Matches: 2142, Mismatches: 550, Indels: 241
0.73 0.19 0.08
Matches are distributed among these distances:
161 6 0.00
162 98 0.05
163 26 0.01
164 111 0.05
165 5 0.00
166 3 0.00
167 17 0.01
168 179 0.08
169 121 0.06
170 234 0.11
171 1000 0.47
172 141 0.07
173 63 0.03
174 5 0.00
175 3 0.00
180 1 0.00
182 7 0.00
183 118 0.06
184 4 0.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (169 bp):
AAATCTTTTTCATTTTTGGTTAAAACATATCATAATTGGATGTTTGCATAAGAAACATGAAGCAG
ATGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTAATGCCTTCGAAAGCCTTGTTACTCG
CTTTAAATGGTTTTATAATCTTATAAATGATTTTAATTG
Found at i:814157 original size:343 final size:343
Alignment explanation
Indices: 813746--814428 Score: 793
Period size: 343 Copynumber: 2.0 Consensus size: 343
813736 TGCTTTCAAG
* * * * * *
813746 AAAGTCCATTAATAGTCACTCATGCCTTCAGAAGCCTTGTTACTTACTTTAAATGATTTTAGAAT
1 AAAGTCCATTAACAGTCACTCATACCTTCAGAAGCCTTATTACTCACTTTAAAAGATTTCAGAAT
* * * *
813811 CTTATAAATGA-TTCTAATCAAAATCTTTTTCATTTTTTAGTT-AAAGCAAATCAT-ATGTAGAT
66 CTTATAAATGATTTCTAAGCAAAATCTTTTAC-GTTTTTAGTTCAAACCAAAT-ATAAT-TAGAT
* * * * * **
813873 GTTTTCAGT-GGGAAACATGAAGTGGATGCCAGCCATTGCCAAGAAAAGTCCATTTATAGTCATG
128 GCTTGCA-TCAGGAAACATGAAATAGATGCCAGCCATTAACAAGAAAAGTCCATTTATAGTCATG
* * * * * * * *
813937 CCTACCATATAAA-GCTTAGTTACTTGGTTTAAATGTTTTTATAATTTTATAAATTATTTTAATT
192 CATACAATATAAACCCTT-GTTACTTGATTTAAATGCTTTTATAATATTATAAATAATTTTAAAT
* * *
814001 CGAAAAAATTTTTGTTTTCGATTAAAACATATCATAATTGGTTGTTTGCATTGGGAAAGATGAAA
256 CGAAAAAATTTTTATTTTCGATTAAAACATATCATAATTGGATGTTTGCATTGAGAAAGATGAAA
*
814066 CGGAAGCCATCCATTGATAAAAA
321 CAGAAGCCATCCATTGATAAAAA
* * * *
814089 AAAGTCCATTTACAGTCACTCATACCTTC-GAAAGCTTTATTACTCACTTTAAAAGGTTTCATAA
1 AAAGTCCATTAACAGTCACTCATACCTTCAG-AAGCCTTATTACTCACTTTAAAAGATTTCAGAA
* * * *
814153 TCTTATAAATGATTTTTAAGCAAAATCTTTTACGTTTTTAGTTCACACCAACTATAATTGGATGC
65 TCTTATAAATGATTTCTAAGCAAAATCTTTTACGTTTTTAGTTCAAACCAAATATAATTAGATGC
* * *
814218 TTGCATCAGGAAACATGAAATAGATGGCATCCATTAACAAGAAAAGTCCATTTATAGTCATTCAT
130 TTGCATCAGGAAACATGAAATAGATGCCAGCCATTAACAAGAAAAGTCCATTTATAGTCATGCAT
* *
814283 GCAATCTAAACCCTTGTTACTTGATTTAAATGCTTTTATAATATTATAAATAATTTTAAATCGAA
195 ACAATATAAACCCTTGTTACTTGATTTAAATGCTTTTATAATATTATAAATAATTTTAAATCGAA
*** * * * * * * *
814348 ATGTTTTTTATTTTTGGTTAAAACCTATTATAATTGGATGTTTGCATTGAGAAATATGGACCAGA
260 AAAATTTTTATTTTCGATTAAAACATATCATAATTGGATGTTTGCATTGAGAAAGATGAAACAGA
*
814413 TGCCATCCATTGATAA
325 AGCCATCCATTGATAA
814429 GAAATGTCAT
Statistics
Matches: 281, Mismatches: 53, Indels: 12
0.81 0.15 0.03
Matches are distributed among these distances:
342 2 0.01
343 251 0.89
344 28 0.10
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.37
Consensus pattern (343 bp):
AAAGTCCATTAACAGTCACTCATACCTTCAGAAGCCTTATTACTCACTTTAAAAGATTTCAGAAT
CTTATAAATGATTTCTAAGCAAAATCTTTTACGTTTTTAGTTCAAACCAAATATAATTAGATGCT
TGCATCAGGAAACATGAAATAGATGCCAGCCATTAACAAGAAAAGTCCATTTATAGTCATGCATA
CAATATAAACCCTTGTTACTTGATTTAAATGCTTTTATAATATTATAAATAATTTTAAATCGAAA
AAATTTTTATTTTCGATTAAAACATATCATAATTGGATGTTTGCATTGAGAAAGATGAAACAGAA
GCCATCCATTGATAAAAA
Found at i:815879 original size:42 final size:42
Alignment explanation
Indices: 815833--815939 Score: 126
Period size: 43 Copynumber: 2.5 Consensus size: 42
815823 CTTTATAACC
* * *
815833 AAATCACAGGAAATGGGGACAC-ACTCAATCCACTTTACATCA
1 AAATCATAGGAAATGGGGAC-CTACTCAATCCACTTCACAACA
* *
815875 AAATCATAGGAATATGGAGACCTTCTCAATCCACTTCACAACA
1 AAATCATAGGAA-ATGGGGACCTACTCAATCCACTTCACAACA
*
815918 AAATCATAGGAATTGGGAGACC
1 AAATCATAGGAAATGGG-GACC
815940 CTTTTAATCC
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
42 15 0.27
43 40 0.73
ACGTcount: A:0.40, C:0.23, G:0.16, T:0.21
Consensus pattern (42 bp):
AAATCATAGGAAATGGGGACCTACTCAATCCACTTCACAACA
Found at i:815920 original size:43 final size:44
Alignment explanation
Indices: 815856--815959 Score: 142
Period size: 43 Copynumber: 2.4 Consensus size: 44
815846 TGGGGACACA
* *
815856 CTCAATCCACTTTACATCAAAATCATAGGAATAT-GGAGA-CCTT
1 CTCAATCCACTTCACAACAAAATCATAGGAAT-TGGGAGACCCTT
815899 CTCAATCCACTTCACAACAAAATCATAGGAATTGGGAGACCCTT
1 CTCAATCCACTTCACAACAAAATCATAGGAATTGGGAGACCCTT
*
815943 -TTAATCCACATTCACAA
1 CTCAATCCAC-TTCACAA
815960 TACTTATATG
Statistics
Matches: 55, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
42 1 0.02
43 43 0.78
44 11 0.20
ACGTcount: A:0.38, C:0.26, G:0.11, T:0.26
Consensus pattern (44 bp):
CTCAATCCACTTCACAACAAAATCATAGGAATTGGGAGACCCTT
Found at i:819155 original size:36 final size:36
Alignment explanation
Indices: 819106--819180 Score: 107
Period size: 36 Copynumber: 2.1 Consensus size: 36
819096 TGATGATTCT
* *
819106 TGACTTCATCGTTTGCT-TCTGCAATGGGGCATAACA
1 TGACTTCACCGTTTGCTAT-AGCAATGGGGCATAACA
*
819142 TGACTTCACCGTTTGCTATAGCAATGGGGCATGACA
1 TGACTTCACCGTTTGCTATAGCAATGGGGCATAACA
819178 TGA
1 TGA
819181 TACTATATGT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
36 34 0.97
37 1 0.03
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (36 bp):
TGACTTCACCGTTTGCTATAGCAATGGGGCATAACA
Found at i:824783 original size:15 final size:17
Alignment explanation
Indices: 824749--824786 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
824739 TGATTCCTGC
*
824749 AAATATGGGAGTATGAT
1 AAATATGGGAGTAAGAT
824766 AAATAT-GGA-TAAGAT
1 AAATATGGGAGTAAGAT
824781 AAATAT
1 AAATAT
824787 CATGAATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 11 0.55
16 3 0.15
17 6 0.30
ACGTcount: A:0.50, C:0.00, G:0.21, T:0.29
Consensus pattern (17 bp):
AAATATGGGAGTAAGAT
Found at i:830738 original size:342 final size:342
Alignment explanation
Indices: 830058--830900 Score: 803
Period size: 343 Copynumber: 2.5 Consensus size: 342
830048 TCCAGCAGAA
** *
830058 ATTCAATTATTATCTGTTTTA-ATTAAAAAT-TAAAAAACATTCAACTTAAAATCAATTATGAGA
1 ATTCAATTATTATCTGTTTTATAAAAAAAATAT-AAAAAGATTCAACTT-AAATCAATTATGAGA
* *
830121 TTATAAAATTATTTAAAGCGAGTAATAAAGCTTTTGAAGGCATGGGTGACTATAGATGAACTTTT
64 TTATAAAATTATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATGGGTGACTATAAATGAACTTTT
* ** * *
830186 CTTACCAATAATTGGCTTTTTCTTCAAGTTTCCAGAGGTTGATATTCAATTATTATCTGTTTGAA
129 CTTACCAATAATTGGCTTTTTCTTCAAGTTTCCAGAAGTAAACATTCAATTATAATCTGTTTGAA
* *
830251 CTAAAAATGTAAAAAAACTAAACTCAAAATCAATTATAAGATTATAAAACTATTAAAAGAGAGTA
194 CTAAAAATATAAAAAAACTAAACTCAAAATCAATTATAAGATTATAAAACCATTAAAAGAGAGTA
*** *
830316 ATAAGGCTTTCGAAGGCATGGATGACTATAAATGGACTTCTCTTGACAATGGATGGGCTTTTCTT
259 ATAAGGCTTTCGAAGGCATGGATGACTATAAATGGACTTCTCTTGACAACAAATGAGCTTTTCTT
*
830381 TACGTTTCCTGAGGTAGAC
324 CACGTTTCCTGAGGTAGAC
*
830400 ATTCAATTATTATCTGTTTTCATAAAAAAAATATAAAAAGATTCAACTTAAATCAATTATGAGAC
1 ATTCAATTATTATCTGTTTT-ATAAAAAAAATATAAAAAGATTCAACTTAAATCAATTATGAGAT
* * *
830465 TATAAAATTATTTAAAGCGAATGATAAGGCTTTTGAAGGCATGGGTGACTGTAAAT-AGACTTTT
65 TATAAAATTATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATGGGTGACTATAAATGA-ACTTTT
*** * * * * *
830529 CTTGTTAATGAA-TGG-TATTTTCTT-AGCGTTTCTTA-AAGTAAACATTTATTTATAATCTTTT
129 CTTACCAAT-AATTGGCT-TTTTCTTCA-AGTTTC-CAGAAGTAAACATTCAATTATAATCTGTT
* * * * ** * * *********
830590 TTAACTAAAAATATTAAAACATTTTAC-CTAAATCAATTATGAGATTATAAAACCANNNNNNNNN
190 TGAACTAAAAATATAAAAAAACTAAACTCAAAATCAATTATAAGATTATAAAACCATTAAAAGAG
* * * * * * * *
830654 NGTAATAAGGTTTTCGAAGGCATAGG-TTACTATAAGTGGGCTTTTCTTGTCAACAAAT-ATCTT
255 AGTAATAAGGCTTTCGAAGGCAT-GGATGACTATAAATGGACTTCTCTTGACAACAAATGAGC-T
* *
830717 TTTCTTCATGTTTCTTGAGGTAGAC
318 TTTCTTCACGTTTCCTGAGGTAGAC
* * * ** * * * *
830742 GTTCAAATATAATCTGTTTTA-ACCAGAAATGTGAAAAGATTCAACCTAAAATCAATTATGAGAT
1 ATTCAATTATTATCTGTTTTATAAAAAAAATATAAAAAGATTCAA-CTTAAATCAATTATGAGAT
* * * ** * **
830806 TATAAAACTATTTAAAGCGGGTAATAAGTCTTTCAAAGGCTTGGGTGACTATAAATGGGC-TTTC
65 TATAAAATTATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATGGGTGACTATAAATGAACTTTTC
* * *
830870 CTACCAATAA-AGGTCTTTTTCTTCATGTTTC
130 TTACCAATAATTGG-CTTTTTCTTCAAGTTTC
830901 ATTTATCGAC
Statistics
Matches: 403, Mismatches: 83, Indels: 32
0.78 0.16 0.06
Matches are distributed among these distances:
339 4 0.01
340 38 0.09
341 69 0.17
342 133 0.33
343 134 0.33
344 24 0.06
345 1 0.00
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.36
Consensus pattern (342 bp):
ATTCAATTATTATCTGTTTTATAAAAAAAATATAAAAAGATTCAACTTAAATCAATTATGAGATT
ATAAAATTATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATGGGTGACTATAAATGAACTTTTCT
TACCAATAATTGGCTTTTTCTTCAAGTTTCCAGAAGTAAACATTCAATTATAATCTGTTTGAACT
AAAAATATAAAAAAACTAAACTCAAAATCAATTATAAGATTATAAAACCATTAAAAGAGAGTAAT
AAGGCTTTCGAAGGCATGGATGACTATAAATGGACTTCTCTTGACAACAAATGAGCTTTTCTTCA
CGTTTCCTGAGGTAGAC
Found at i:830867 original size:171 final size:171
Alignment explanation
Indices: 830058--830900 Score: 721
Period size: 171 Copynumber: 4.9 Consensus size: 171
830048 TCCAGCAGAA
* * *
830058 ATTCAATTATTATCTGTTTTAATTAAAAAT-TAAAAAACATTCAACTTAAAATCAATTATGAGAT
1 ATTCAATTATAATCTGTTTTAACTAAAAATAT-AAAAACATTCAACCTAAAATCAATTATGAGAT
* * * * *
830122 TATAAAATTATTTAAAGCGAGTAATAAAGCTTTTGAAGGCATGGGTGACTATAGATGAACTTTTC
65 TATAAAACTATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGGGTGACTATAAATGGACTTTTC
* * * * * * *
830187 TTACCAATAATTGGCTTTTTCTTCAAGTTTCCAGAGGTTGAT
130 TTGCCAATAAATGTCTTTTTCTTCACGTTTCCTGAGGTAGAC
* * * * * * *
830229 ATTCAATTATTATCTGTTTGAACTAAAAATGTAAAAAAACT-AAACTCAAAATCAATTATAAGAT
1 ATTCAATTATAATCTGTTTTAACTAAAAATATAAAAACATTCAACCT-AAAATCAATTATGAGAT
* * * *
830293 TATAAAACTATTAAAAGAGAGTAATAAGGCTTTCGAAGGCATGGATGACTATAAATGGACTTCTC
65 TATAAAACTATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGGGTGACTATAAATGGACTTTTC
* ** * *
830358 TTGACAATGGATGGGC-TTTTCTTTACGTTTCCTGAGGTAGAC
130 TTGCCAATAAAT-GTCTTTTTCTTCACGTTTCCTGAGGTAGAC
* ** * *
830400 ATTCAATTATTATCTGTTTTCATAAAAAAAATATAAAAAGATTCAA-CTTAAATCAATTATGAGA
1 ATTCAATTATAATCTGTTTT-A-ACTAAAAATATAAAAACATTCAACCTAAAATCAATTATGAGA
* * * * * * *
830464 CTATAAAATTATTTAAAGCGAATGATAAGGCTTTTGAAGGCATGGGTGACTGTAAATAGACTTTT
64 TTATAAAACTATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGGGTGACTATAAATGGACTTTT
** * * * * * *
830529 CTTGTTAATGAATGGT-ATTTTCTT-AGCGTTTCTTAAAGTAAAC
129 CTTGCCAATAAAT-GTCTTTTTCTTCA-CGTTTCCTGAGGTAGAC
* * * * **
830572 ATTTATTTATAATCTTTTTTAACTAAAAATATTAAAACATTTTACCT-AAATCAATTATGAGATT
1 ATTCAATTATAATCTGTTTTAACTAAAAATATAAAAACATTCAACCTAAAATCAATTATGAGATT
* ********** * * * * *
830636 ATAAAACCANNNNNNNNNNGTAATAAGGTTTTCGAAGGCATAGGTTACTATAAGTGGGCTTTTCT
66 ATAAAACTATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGGGTGACTATAAATGGACTTTTCT
* * * * *
830701 TGTCAACAAATATCTTTTTCTTCATGTTTCTTGAGGTAGAC
131 TGCCAATAAATGTCTTTTTCTTCACGTTTCCTGAGGTAGAC
* * * * * * *
830742 GTTCAAATATAATCTGTTTTAACCAGAAATGTGAAAAGATTCAACCTAAAATCAATTATGAGATT
1 ATTCAATTATAATCTGTTTTAACTAAAAATATAAAAACATTCAACCTAAAATCAATTATGAGATT
* * * * * *
830807 ATAAAACTATTTAAAGCGGGTAATAAGTCTTTCAAAGGCTTGGGTGACTATAAATGGGC-TTTCC
66 ATAAAACTATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGGGTGACTATAAATGGACTTTTCT
* * *
830871 TACCAATAAAGGTCTTTTTCTTCATGTTTC
131 TGCCAATAAATGTCTTTTTCTTCACGTTTC
830901 ATTTATCGAC
Statistics
Matches: 529, Mismatches: 131, Indels: 25
0.77 0.19 0.04
Matches are distributed among these distances:
169 1 0.00
170 171 0.32
171 217 0.41
172 121 0.23
173 17 0.03
174 2 0.00
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.36
Consensus pattern (171 bp):
ATTCAATTATAATCTGTTTTAACTAAAAATATAAAAACATTCAACCTAAAATCAATTATGAGATT
ATAAAACTATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGGGTGACTATAAATGGACTTTTCT
TGCCAATAAATGTCTTTTTCTTCACGTTTCCTGAGGTAGAC
Found at i:834111 original size:170 final size:168
Alignment explanation
Indices: 833720--834733 Score: 733
Period size: 171 Copynumber: 6.0 Consensus size: 168
833710 ATTTCTAGCA
* * *
833720 CACTCATGCCATCGAAAGTCTTGTTACTC-ACTTTAAATAGTTTTGA-AATCTTATAAATGATTC
1 CACTCATGCCATCGAAAGCCTAGTTACTCGA-TTTAAATGGTTTT-ATAATCTTATAAATGATT-
* * *** * * * *
833783 CAAATCAAAATCTTTTTCGTTTTTAGTTAAATTTTAACATAATAGGATGTTTACTTTGAGAAACA
63 TAAATCAAAATCTTTTTC-TTTTTGGTTAAAACCTATCATAATTGGATGTTTGCTTAG-GAAACA
* * * * * * *
833848 TGAAATGGATAACATCCCTTGAGAA-GAACGATCCAATTATATT
126 TGAAATGGATACCATCCATTGACAATAAAAG-TCCATTTATAGT
* * * * *
833891 CACTTATGCCATCGAAAGCCTAATTACTCAATTT-TATGGTTTTTTAATCTTATAAATGATTTCA
1 CACTCATGCCATCGAAAGCCTAGTTACTCGATTTAAATGGTTTTATAATCTTATAAATGATTT-A
** * **
833955 AATTGAAATGTTTTCTCTTTTTAATTAAAA-CTGATCATAATTGGA-GTTTGCTTCAGGAAACAT
65 AATCAAAATCTTTT-TCTTTTTGGTTAAAACCT-ATCATAATTGGATGTTTGCTT-AGGAAACAT
**
834018 GAAACAGATACCATCCATTGACAATAAAAGTCCATTTATAGT
127 GAAATGGATACCATCCATTGACAATAAAAGTCCATTTATAGT
* * * * * * *
834060 CACTCATGCCATTGAATGCCTTGTTACTCGCTTTAAATGGCTTTATAATCTT-TAAATAATTTGA
1 CACTCATGCCATCGAAAGCCTAGTTACTCGATTTAAATGGTTTTATAATCTTATAAATGATTTAA
* * * * *
834124 ATCAAAATCTTATTTGTTTTTGGTTAAAACCTATCATAATTGAATGTTTTCATCAAGAAACATGA
66 ATCAAAATCTT-TTTCTTTTTGGTTAAAACCTATCATAATTGGATGTTTGC-TTAGGAAACATGA
** * * * ** *
834189 AGCGAATGCCATCCGTTGACAGGAAAAGT-CACTTTCTAGT
129 AATGGATACCATCCATTGACAATAAAAGTCCA-TTTATAGT
* * * * * * * * *
834229 CATTAATGCAATCGAAAACCTAATTACAT-GCTTTAAATGATCTTATAATCTTACAAATGATTTA
1 CACTCATGCCATCGAAAGCCTAGTTAC-TCGATTTAAATGGTTTTATAATCTTATAAATGATTTA
* ** * **
834293 ATGTTGAAATCTTTTTCATTTTTGGTTAAAACCTATCATGATTAAATGTTTGCATTAGGAAACAT
65 A-ATCAAAATCTTTTTC-TTTTTGGTTAAAACCTATCATAATTGGATGTTTGC-TTAGGAAACAT
* * * * ** * **
834358 GAAGTGAATGCTATCTGTTGA-TATGACCAGTCCATTTATAGT
127 GAAATGGATACCATCCATTGACAAT-AAAAGTCCATTTATAGT
* * * * *
834400 CACTTATGCCATCGAAAGCCTAGATAC-AGATTTTAATGGTTTTACAATCTTATAAATGATTTGA
1 CACTCATGCCATCGAAAGCCTAGTTACTCGATTTAAATGGTTTTATAATCTTATAAATGATTT-A
* * * * * * * **
834464 AATCTAAATGTTTTCCCCTTTTGGTTAAAACCTATCATAATTGGAAGTTTGCATCGAGAAATGTG
65 AATCAAAATCTTTT-TCTTTTTGGTTAAAACCTATCATAATTGGATGTTTGCTTAG-GAAACATG
* * * * * * *
834529 AAGTGGATGCTATCCATTAACGATAAAAGTTCATTTATAAT
128 AAATGGATACCATCCATTGACAATAAAAGTCCATTTATAGT
* * * *
834570 CACTCACT-ACATCGAAAGCCTTGTTACTC-ATATTAAATGATTTTATAATCTTTTAAATGATTA
1 CACTCA-TGCCATCGAAAGCCTAGTTACTCGAT-TTAAATGGTTTTATAATCTTATAAATGATT-
* * * *
834633 TAAATCAAAATCTTTTTCCTTTATGCTTAAAACCTAGCATAATTGGATGTTTGCATTGGGAAACA
63 TAAATCAAAATCTTTTT-CTTTTTGGTTAAAACCTATCATAATTGGATGTTTGC-TTAGGAAACA
* *
834698 T-AAAGTGGACACCATCCATTGACAAAAAAAGTCCAT
126 TGAAA-TGGATACCATCCATTGACAATAAAAGTCCAT
834734 AAATCAAGAG
Statistics
Matches: 659, Mismatches: 153, Indels: 62
0.75 0.18 0.07
Matches are distributed among these distances:
168 34 0.05
169 169 0.26
170 215 0.33
171 235 0.36
172 6 0.01
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.37
Consensus pattern (168 bp):
CACTCATGCCATCGAAAGCCTAGTTACTCGATTTAAATGGTTTTATAATCTTATAAATGATTTAA
ATCAAAATCTTTTTCTTTTTGGTTAAAACCTATCATAATTGGATGTTTGCTTAGGAAACATGAAA
TGGATACCATCCATTGACAATAAAAGTCCATTTATAGT
Found at i:849822 original size:28 final size:28
Alignment explanation
Indices: 849782--849835 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
849772 AGAAAGAAAG
*
849782 GGAGAGAAAGAGCTTAGATAGAGTAAAC
1 GGAGAGAAAGAGCCTAGATAGAGTAAAC
849810 GGAGAGAAAGAGCCTAGATAGAGTAA
1 GGAGAGAAAGAGCCTAGATAGAGTAA
849836 CAGACGAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.46, C:0.07, G:0.33, T:0.13
Consensus pattern (28 bp):
GGAGAGAAAGAGCCTAGATAGAGTAAAC
Found at i:851329 original size:171 final size:171
Alignment explanation
Indices: 850938--851874 Score: 703
Period size: 171 Copynumber: 5.5 Consensus size: 171
850928 ATGCCACCGC
* * * *
850938 TTGACAAGAAAAGTCCATTTATAG---CTCATGCAATTGAAAGCCTAGTTTCT-GACTTTAAATG
1 TTGACAAGAAAAGTCCATTTATAGTCACTCATGCCATCGAAAGCCTTGTTACTCG-CTTTAAATG
* * * * * * * * *
850999 GTTCTACAATCTTATAAATGATTTCAAATTTAAATGTTTTTCCT-TGTTGA-TTACAACTTATCA
65 GTTTTATAATCTTATAAATGATTTCAAA-TCAAA-ATATTTCCTGTTTTTAGTTAAAACCTATCA
* * * *
851062 TAATTGAATGTTTGCATTAGG-AAACATGAAACAGATGCGATCCA
128 TAATTGGATATTTGCATT-GGAAAACATGAAGCAGATGCCATCCA
* * * * * * * * * *
851106 TTGATAATAAAAGCCCATTTATGGTCATTGATACCATCAAAATCCTTGTTACTCACTTTAAATGG
1 TTGACAAGAAAAGTCCATTTATAGTCACTCATGCCATCGAAAGCCTTGTTACTCGCTTTAAATGG
*
851171 TTTTATAATCTTATATGA-GATTTCAAAGT-AAAAT-TTTACCTGTTTTTAGTTAAAACCTATCA
66 TTTTATAATCTTATA-AATGATTTCAAA-TCAAAATATTT-CCTGTTTTTAGTTAAAACCTATCA
* * *
851233 CAATTGGATATTTTCATTGGAAAACATGAAACAGATGCCATCCA
128 TAATTGGATATTTGCATTGGAAAACATGAAGCAGATGCCATCCA
* ** * * * * *
851277 TTGACAAGAAAATTTAATTTATAGTCACTTATGCTATCGAAAGCCATGTTACTTGTTTTAAATGG
1 TTGACAAGAAAAGTCCATTTATAGTCACTCATGCCATCGAAAGCCTTGTTACTCGCTTTAAATGG
* * ** * * ** * *
851342 TTTTATAAT-TGTATGAATGATTTTAAATTGATATCTTTTTTG-GTTTAGCTTAAAATCTATCAT
66 TTTTATAATCT-TATAAATGATTTCAAATCAAAATATTTCCTGTTTTTAG-TTAAAACCTATCAT
* * * * * *
851405 AATTGGAT-GTTCCCTTAAGGAAATC-TCAAGCTAG-TGCCATCAA
129 AATTGGATATTTGCATT--GGAAAACATGAAGC-AGATGCCATCCA
* * * *
851448 TTAACAAGAAAAGTCCATTTGTTGTCACTCATGCCATCGAAAGCCTTGTTACTCGCTTTAAATAG
1 TTGACAAGAAAAGTCCATTTATAGTCACTCATGCCATCGAAAGCCTTGTTACTCGCTTTAAATGG
* * * * * *
851513 TTTAATAATCTTATAAATGATTTTATATCAAAATATTTCCTATTTTTAGTTAAAACTTATGATAA
66 TTTTATAATCTTATAAATGATTTCAAATCAAAATATTTCCTGTTTTTAGTTAAAACCTATCATAA
* ** **
851578 TTGGATGTTTGCA-TCAAGAAACATGAAGGGGATGCCATCCA
131 TTGGATATTTGCATTGGA-AAACATGAAGCAGATGCCATCCA
** * *** * *
851619 TTGACAAGAAAAGTTGATTTAAAGTCACTCATTTTATCGAAAACCTTGTTACTCGCTATAAATGG
1 TTGACAAGAAAAGTCCATTTATAGTCACTCATGCCATCGAAAGCCTTGTTACTCGCTTTAAATGG
** * * * **
851684 TTTTCCAATCTTATAAATTATTTCAAATCAAAATCTTTTTCAT-TTTTT-GTTAAAATGTATCAT
66 TTTTATAATCTTATAAATGATTTCAAATCAAAA--TATTTCCTGTTTTTAGTTAAAACCTATCAT
* ** *
851747 ACTTGGATATTTGCA-TCAAAAACATGAAGCAGATGCCATCCT
129 AATTGGATATTTGCATTGGAAAACATGAAGCAGATGCCATCCA
* * ** * * * *
851789 TTGA-TAGAATAGTCCATTTATAGTTGCTCATGCCATCAAAAGCCTAGTTTA-TTGCTTAAAATG
1 TTGACAAGAAAAGTCCATTTATAGTCACTCATGCCATCGAAAGCCTTG-TTACTCGCTTTAAATG
851852 GTTTTATAATCTTAT-AATGATTT
65 GTTTTATAATCTTATAAATGATTT
851875 TACATTGAAA
Statistics
Matches: 598, Mismatches: 145, Indels: 52
0.75 0.18 0.07
Matches are distributed among these distances:
168 30 0.05
169 57 0.10
170 53 0.09
171 426 0.71
172 26 0.04
173 6 0.01
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (171 bp):
TTGACAAGAAAAGTCCATTTATAGTCACTCATGCCATCGAAAGCCTTGTTACTCGCTTTAAATGG
TTTTATAATCTTATAAATGATTTCAAATCAAAATATTTCCTGTTTTTAGTTAAAACCTATCATAA
TTGGATATTTGCATTGGAAAACATGAAGCAGATGCCATCCA
Found at i:863919 original size:20 final size:20
Alignment explanation
Indices: 863893--863978 Score: 75
Period size: 20 Copynumber: 4.2 Consensus size: 20
863883 CCTTTTCTAC
*
863893 AATGAATCTATCTATACATT
1 AATGAATCTATCAATACATT
* * * *
863913 CATGAATGTATCGATACTTT
1 AATGAATCTATCAATACATT
*
863933 GAA-GAATCTATCAATACAAT
1 -AATGAATCTATCAATACATT
*
863953 AATGAAATGTATCAATACATTT
1 AATG-AATCTATCAATACA-TT
863975 AATG
1 AATG
863979 TATTCATACA
Statistics
Matches: 51, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
19 2 0.04
20 30 0.59
21 14 0.27
22 5 0.10
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.35
Consensus pattern (20 bp):
AATGAATCTATCAATACATT
Found at i:864551 original size:68 final size:68
Alignment explanation
Indices: 864435--864609 Score: 176
Period size: 68 Copynumber: 2.6 Consensus size: 68
864425 GTATATAGAA
* * * ** * *
864435 AATATATAT-TATACATAATCTCATGGCATTCATCATTC-TGTTTCAATCATCTCATACAGTATA
1 AATATACATCTATACATAATCTCATAGCATTCATCATGCATACTTCAATCACCTCATACAGAATA
864498 TGG
66 TGG
* **
864501 AATATACATCATATACATAATCTCACAGCATTCATCATGCATACTT-AATCACCTCATATGGAAT
1 AATATACATC-TATACATAATCTCATAGCATTCATCATGCATACTTCAATCACCTCATACAGAAT
864565 ATGG
65 ATGG
* * * * *
864569 AATTTACATCTCATACACAATCTTATAGTATACATCATGCA
1 AATATACATCT-ATACATAATCTCATAGCATTCATCATGCA
864610 NNNNNNNNNN
Statistics
Matches: 89, Mismatches: 16, Indels: 6
0.80 0.14 0.05
Matches are distributed among these distances:
66 8 0.09
67 1 0.01
68 77 0.87
69 3 0.03
ACGTcount: A:0.37, C:0.21, G:0.08, T:0.35
Consensus pattern (68 bp):
AATATACATCTATACATAATCTCATAGCATTCATCATGCATACTTCAATCACCTCATACAGAATA
TGG
Found at i:871399 original size:80 final size:80
Alignment explanation
Indices: 871281--871481 Score: 273
Period size: 80 Copynumber: 2.5 Consensus size: 80
871271 TTGTAACATA
* * * *
871281 TATGCCAAGAGATGTATGTGTTAAGTATA-TCATGTACACTACAGG-CTAAGCATGTAAGTGATT
1 TATGCCATGAGATGTATGTGTTGAG-ATAGTCATATACACTA-AGGACTAAACATGTAAGTGATT
871344 TATGAGGTTATGAAA-T
64 TATGAGGTTATGAAAGT
* *
871360 GTATGCCATGAGATTTATGTGTTGAGATAGTCATATACACTATGGACTAAACATGTAAGTGATTT
1 -TATGCCATGAGATGTATGTGTTGAGATAGTCATATACACTAAGGACTAAACATGTAAGTGATTT
871425 ATGAGGTTATGAAAGT
65 ATGAGGTTATGAAAGT
* * *
871441 TATGCCATAAAACGTATGTGTTGAGATAGTCATATACACTA
1 TATGCCATGAGATGTATGTGTTGAGATAGTCATATACACTA
871482 TGAGCTAACT
Statistics
Matches: 108, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
79 5 0.05
80 102 0.94
81 1 0.01
ACGTcount: A:0.34, C:0.10, G:0.22, T:0.33
Consensus pattern (80 bp):
TATGCCATGAGATGTATGTGTTGAGATAGTCATATACACTAAGGACTAAACATGTAAGTGATTTA
TGAGGTTATGAAAGT
Found at i:878865 original size:80 final size:82
Alignment explanation
Indices: 878776--879003 Score: 290
Period size: 80 Copynumber: 2.8 Consensus size: 82
878766 TATAACGCTT
* * * * *
878776 TCATAAATCATCAT-CATAG-TTAGTCCATAGTGTATATGACTATCTGAACACATACATTTTATG
1 TCATAAATCATCTTACAT-GCTTAGCCCATAGTGTATATGACTATCTCAACACATACATCTCATG
878839 GCATAAC-TTTCATAACC
65 GCATAACATTTCATAACC
* *
878856 TCATAAATCA-CTTACATGTTTAGCCCATAGTGTATATGACTATCTCAACACATAAATCTCATGG
1 TCATAAATCATCTTACATGCTTAGCCCATAGTGTATATGACTATCTCAACACATACATCTCATGG
*
878920 CAT-ACATTTTATAACC
66 CATAACATTTCATAACC
* * *
878936 TCATAAATCAT-TTACATGCTTAGCCCATAGTTTACATGA-TATACTTAACACATACATCTCATG
1 TCATAAATCATCTTACATGCTTAGCCCATAGTGTATATGACTAT-CTCAACACATACATCTCATG
878999 GCATA
65 GCATA
879004 TATGTTACAA
Statistics
Matches: 130, Mismatches: 12, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
79 8 0.06
80 122 0.94
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.34
Consensus pattern (82 bp):
TCATAAATCATCTTACATGCTTAGCCCATAGTGTATATGACTATCTCAACACATACATCTCATGG
CATAACATTTCATAACC
Found at i:886911 original size:68 final size:68
Alignment explanation
Indices: 886815--887051 Score: 244
Period size: 68 Copynumber: 3.5 Consensus size: 68
886805 ATAAATGACT
* * *
886815 TAAGATTAGGTATATGAGGTAAATTCTATATACCGTATGAGATGATTAAGTATGCATGATGTATA
1 TAAGATTACGTATATGATGTAAATTCTATATACCGTATGAGATGATTAAGTATGCATGATGAATA
*
886880 CTA
66 CCA
* * *
886883 TAAGATTGCGTAT-TAGATGTAAATTCTATATTCCGTATGAGGTGATTAAGTATGCATGATGAAT
1 TAAGATTACGTATAT-GATGTAAATTCTATATACCGTATGAGATGATTAAGTATGCATGATGAAT
*
886947 GCCA
65 ACCA
* * * * ** * * *
886951 TGAGATTATGTATATGATGTATATTCCATATACTATATGAGATGATTGAA-AAAGAATGATGAAT
1 TAAGATTACGTATATGATGTAAATTCTATATACCGTATGAGATGATT-AAGTATGCATGATGAAT
*
887015 GCCA
65 ACCA
* * **
887019 TGAGATTATGTATATGATGTATTTTCTATATAC
1 TAAGATTACGTATATGATGTAAATTCTATATAC
887052 TTCATGTGAT
Statistics
Matches: 144, Mismatches: 22, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
67 1 0.01
68 140 0.97
69 3 0.02
ACGTcount: A:0.35, C:0.08, G:0.20, T:0.37
Consensus pattern (68 bp):
TAAGATTACGTATATGATGTAAATTCTATATACCGTATGAGATGATTAAGTATGCATGATGAATA
CCA
Found at i:893662 original size:13 final size:13
Alignment explanation
Indices: 893634--893669 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
893624 ATATGCAACT
893634 TATGATTTTGAGA
1 TATGATTTTGAGA
893647 TATGAATTTTGA-A
1 TATG-ATTTTGAGA
893660 TATGATTTTG
1 TATGATTTTG
893670 CTTCATCTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 6 0.27
13 9 0.41
14 7 0.32
ACGTcount: A:0.31, C:0.00, G:0.19, T:0.50
Consensus pattern (13 bp):
TATGATTTTGAGA
Found at i:894986 original size:17 final size:17
Alignment explanation
Indices: 894956--894988 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
894946 TTCTTGATAA
894956 AATAAAACTCCTTATTG
1 AATAAAACTCCTTATTG
894973 AATAATAACT-CTTATT
1 AATAA-AACTCCTTATT
894989 TTATTATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.39
Consensus pattern (17 bp):
AATAAAACTCCTTATTG
Found at i:903030 original size:171 final size:170
Alignment explanation
Indices: 902729--904217 Score: 1122
Period size: 171 Copynumber: 8.7 Consensus size: 170
902719 GTATGGGTGG
* * * * * *
902729 CTAT-AATGGACTTTTCTTATCAATGAATGACATTTACTTCATGCTTCCTAATGCAAACATCCAA
1 CTATAAATGGACTTTTCTTGTCAATGGATGGCATCTACTTCATGTTTCCCAATGCAAACATCCAA
* * * * * * *
902793 TTATGATAGATTTTAACAAAAAACGAGAA-ATCTTTTTATTTAAAATCATTTTTCAGATTATAAA
66 TTATGATAGGTTTTAACAAAAAACAAAAAGAT-TTTGT-TTTAAAATCATTTATAAGATTGTAAA
* *
902857 ACCATTTAAAGCGAGTAACAAGGCTTCCGATGGCAT-GGATGA
129 ACCATTTAAAGCGAGTAACAAGGCTTTCGATGGCATAAG-TGA
** * *
902899 CTATAAATGGACTTTTCTTGTCAATGGATGGCATCCGCTTCATGTTTCCCAATGTAAACACCCAA
1 CTATAAATGGACTTTTCTTGTCAATGGATGGCATCTACTTCATGTTTCCCAATGCAAACATCCAA
* *** * *
902964 TTATGAT-GCATTTTAACAAAAAACAAAAAGGATTTTGTTTTACGTTAATTTTTAAGATTGTAAA
66 TTATGATAG-GTTTTAACAAAAAACAAAAA-GATTTTGTTTTAAAATCATTTATAAGATTGTAAA
* * *
903028 ACCATTTAAAACGAGTAACAAGGCTTTTGATGGCATGAGTGA
129 ACCATTTAAAGCGAGTAACAAGGCTTTCGATGGCATAAGTGA
* * * ** * *
903070 CTATAAATGAACCTTTCTTTTCAATGGATGGCAT-TAACTTCACATTTCCTAATGCAAACATCTA
1 CTATAAATGGACTTTTCTTGTCAATGGATGGCATCT-ACTTCATGTTTCCCAATGCAAACATCCA
* ** * *
903134 ATTATGATAGATTTTAACCAAAAATGAAAAAGATTTTTTTTTAAAATCATTTATAAAATTAG-AA
65 ATTATGATAGGTTTTAA-CAAAAAACAAAAAGATTTTGTTTTAAAATCATTTATAAGATT-GTAA
* * * *
903198 CACCATTTTAAGCGAG-AGA-AACGG-TTGTCGACGGCGTAAGTGA
128 AACCATTTAAAGCGAGTA-ACAA-GGCTT-TCGATGGCATAAGTGA
* * * * * *
903241 CAATAAATGGACTTTTCTTGACAA-CGAGTGGCATTCGA-TTCATGTTT--C--T-CAAGCATCA
1 CTATAAATGGACTTTTCTTGTCAATGGA-TGGCA-TCTACTTCATGTTTCCCAATGCAAACATCC
* * * * * * * * *
903299 AAATATTATAAGTTTTAACCAAAAAGCAAAAACAATTTTGATCTAAAGTCATTTATAAGGTTAG-
64 AATTATGATAGGTTTTAA-CAAAAAACAAAAA-GATTTTGTTTTAAAATCATTTATAAGATT-GT
* * *
903363 AAAACCATTTAAATCAAGTAACAAGGCTTTCGATGTG-ATAAGTAA
126 AAAACCATTTAAAGCGAGTAACAAGGCTTTCGATG-GCATAAGTGA
** * * * * * * *
903408 CTATAAATAAACTGTTT-ATGCCAATAGATGGCATCTAATTCATGTTTCTCGATGCAAGCATCCA
1 CTATAAATGGACT-TTTCTTGTCAATGGATGGCATCTACTTCATGTTTCCCAATGCAAACATCCA
* * * * * * *
903472 AATATGATAGGTTTTAACCAAAAAATAAAAATAATTTTGATCTAAAGTCATTTATAAGGTTAG-A
65 ATTATGATAGGTTTTAA-CAAAAAACAAAAA-GATTTTGTTTTAAAATCATTTATAAGATT-GTA
* * * ** *
903536 AAACCATTTAAATCAAGTAACAAGGCTTGCGATATCATAAGTAA
127 AAACCATTTAAAGCGAGTAACAAGGCTTTCGATGGCATAAGTGA
** * * * * * *** *
903580 CTATAAATAAACTGTTCATGCCAATAGATGGCATCTAATTCATGTTTCTTGATGCAAGCATCCAA
1 CTATAAATGGACTTTTCTTGTCAATGGATGGCATCTACTTCATGTTTCCCAATGCAAACATCCAA
* * * ** * *
903645 ATATGATAGGTTTTAACTAAAAAAGCCAAAAGATTTTGATCCAAAATTATTTATAAGATTATAAA
66 TTATGATAGGTTTTAAC-AAAAAA-CAAAAAGATTTTGTTTTAAAATCATTTATAAGATTGTAAA
* * * * * *
903710 ACCATTTAAAACAAGTAATAAGGCTTTTGATGTCATAAATGA
129 ACCATTTAAAGCGAGTAACAAGGCTTTCGATGGCATAAGTGA
* * *
903752 CTATAAATAGACTTTTCTTGTCAATGGATGGCATCCACTCTACA--TTTCCCAATGCAAACGTCC
1 CTATAAATGGACTTTTCTTGTCAATGGATGGCATCTACT-T-CATGTTTCCCAATGCAAACATCC
* * * * *
903815 AATTATGATAGGTGTTAAC-CAAAACAAAAA-ATATATTGATTTT-AAATAATTAATAAGATTAT
64 AATTATGATAGGTTTTAACAAAAAACAAAAAGAT-T-TTG-TTTTAAAATCATTTATAAGATTGT
** * * * * **
903877 AAAACCATTTAATTCTAGTAACAAAGATTTCAATGGCATGGGTGA
126 AAAACCATTTAAAGCGAGTAACAAGGCTTTCGATGGCATAAGTGA
* * * * *
903922 CTATAAATGGACTTTTTTTGTCAGTGGATGACATCTACTTCATGCTTCCTAATGCAAACATCCAA
1 CTATAAATGGACTTTTCTTGTCAATGGATGGCATCTACTTCATGTTTCCCAATGCAAACATCCAA
* * * * ** * *
903987 CTATGATAGGTTTTAACTAAAAACGAAAAATATTTTGATTTAAGGTCATTTATAAGATTTTAAAT
66 TTATGATAGGTTTTAACAAAAAAC-AAAAAGATTTTGTTTTAAAATCATTTATAAGATTGTAAAA
* * ** * *
904052 CCATGTAAAGTGAGTAACAAGATTTTCAATGTCATAAGTGA
130 CCATTTAAAGCGAGTAACAAGGCTTTCGATGGCATAAGTGA
* * * * ** *
904093 CAACAAATGGACTTTTCTTGTCTATGGATGGCATCTGCTTCATGTTTGTCAATGTAAACATCCAA
1 CTATAAATGGACTTTTCTTGTCAATGGATGGCATCTACTTCATGTTTCCCAATGCAAACATCCAA
* * * * * *
904158 TTATGATAGGTTTTAATAAAAAATGAAAAAGATTTTGATTTACAACCATTTAAAAG-TTGT
66 TTATGATAGGTTTTAACAAAAAA-CAAAAAGATTTTGTTTTAAAATCATTTATAAGATTGT
904218 CACATCCCAT
Statistics
Matches: 1074, Mismatches: 200, Indels: 90
0.79 0.15 0.07
Matches are distributed among these distances:
166 36 0.03
167 82 0.08
168 15 0.01
169 8 0.01
170 142 0.13
171 439 0.41
172 341 0.32
173 9 0.01
174 2 0.00
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.33
Consensus pattern (170 bp):
CTATAAATGGACTTTTCTTGTCAATGGATGGCATCTACTTCATGTTTCCCAATGCAAACATCCAA
TTATGATAGGTTTTAACAAAAAACAAAAAGATTTTGTTTTAAAATCATTTATAAGATTGTAAAAC
CATTTAAAGCGAGTAACAAGGCTTTCGATGGCATAAGTGA
Found at i:910660 original size:80 final size:81
Alignment explanation
Indices: 910518--910669 Score: 213
Period size: 80 Copynumber: 1.9 Consensus size: 81
910508 TTGTAACATA
* * *
910518 TATGCCATGAGATGTATGTGTTAAGCATATCATATACACTATAGGCTAAGCATGTAAGTGATTTA
1 TATGCCATGAGATGTAAGGGTTAAGCATATCATATACACTATAGACTAAGCATGTAAGTGATTTA
910583 T-GAGATTATGAAATG
66 TGGAGATTATGAAATG
*
910598 TATGCCATGAGATGTAAGGGTTAAG-ATAGTCATATACACTATAGACTAAGTC-TG-ATGATGAT
1 TATGCCATGAGATGTAAGGGTTAAGCATA-TCATATACACTATAGACTAAG-CATGTAAG-TGAT
910660 TTATGGAGAT
63 TTATGGAGAT
910670 GCTATATGTT
Statistics
Matches: 64, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
79 5 0.08
80 53 0.83
81 6 0.09
ACGTcount: A:0.35, C:0.10, G:0.22, T:0.33
Consensus pattern (81 bp):
TATGCCATGAGATGTAAGGGTTAAGCATATCATATACACTATAGACTAAGCATGTAAGTGATTTA
TGGAGATTATGAAATG
Found at i:914010 original size:170 final size:170
Alignment explanation
Indices: 913551--914154 Score: 537
Period size: 171 Copynumber: 3.5 Consensus size: 170
913541 GTAAACACCC
* * * * *
913551 AATTATGATAAGTTTTCACAAAAAACAAAAAAGATTTTAATTTACAATCATTTAGAAGATTATAA
1 AATTATGATAGGTTTTAACAAAAAACAAAAAAGATTTT-ACTTAAAATCATTTATAAGATTATAA
*
913616 AACCACTTAAAGC-GAGTAACAAGGCTTTCGATAGG-ATGAGTGACTATAAATGGACCTTTCCAT
65 AACCACTTAAA-CTGAGTAACAAGGCTTTCGAT-GGCATGAGTGACTATAAATGGA-CTTTTC-T
* *
913679 T-T-AATGGATGGTATCTATTTCATATTCCCTAATGCAAATATCT
126 TGTCAATGGATGGTATCCAATTCATATTCCCTAATGCAAATATCT
* * * ** * * * *
913722 AATTATTATAGGTTTGAACCAAAAATGAAAAAGATTTATAGTTAAAGTCATCTATAAAATTATAA
1 AATTATGATAGGTTTTAACAAAAAACAAAAAAGATTT-TACTTAAAATCATTTATAAGATTATAA
* * * * * *
913787 AACCACTTAAAGTGAGAAACAAGGCTTACAATGGCATGGGTGACTAGAAATGGACTTTTCTTGTC
65 AACCACTTAAACTGAGTAACAAGGCTTTCGATGGCATGAGTGACTATAAATGGACTTTTCTTGTC
* * *
913852 AATGGATGGTATCCAATTCATATTTCTTGATGCAAACT-T-T
130 AATGGATGGTATCCAATTCATATTCCCTAATGCAAA-TATCT
* * *
913892 CATTATGATAGGTTTTAACTAAAAACAAAAAAGAATTTTACTTAAAATCATTTATAAGTTTATAA
1 AATTATGATAGGTTTTAACAAAAAACAAAAAAG-ATTTTACTTAAAATCATTTATAAGATTATAA
* * * * * *
913957 AACTATTTAAACTAACTAACAAGCCTTTTGATGGCATGAGTGACTATAAATGGACATTTT-TTGT
65 AACCACTTAAACTGAGTAACAAGGCTTTCGATGGCATGAGTGACTATAAATGGAC-TTTTCTTGT
* * * * * * ** *
914021 CAATGGATAGCAT-TAAGTCCACATTTCCC-AATGTAAACGTCC
129 CAATGGATGGTATCCAA-TTCATA-TTCCCTAATGCAAATATCT
* * ** * * *
914063 AATTATGATAGGTTTTAACCATAAACAAAAAAGATATCCATTTAAAAT-ATTAATAAGATTGTAA
1 AATTATGATAGGTTTTAACAAAAAACAAAAAAGAT-TTTACTTAAAATCATTTATAAGATTATAA
* *
914127 AACCATTTAAAAC-GAGTAACAAAGCTTT
65 AACCACTT-AAACTGAGTAACAAGGCTTT
914155 TAATGGTATT
Statistics
Matches: 346, Mismatches: 73, Indels: 29
0.77 0.16 0.06
Matches are distributed among these distances:
169 4 0.01
170 160 0.46
171 180 0.52
172 2 0.01
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (170 bp):
AATTATGATAGGTTTTAACAAAAAACAAAAAAGATTTTACTTAAAATCATTTATAAGATTATAAA
ACCACTTAAACTGAGTAACAAGGCTTTCGATGGCATGAGTGACTATAAATGGACTTTTCTTGTCA
ATGGATGGTATCCAATTCATATTCCCTAATGCAAATATCT
Found at i:914958 original size:171 final size:170
Alignment explanation
Indices: 914612--915002 Score: 390
Period size: 171 Copynumber: 2.3 Consensus size: 170
914602 ATGTAAATAG
* * * *
914612 CCAATTATGATAGGTTTTGACCATAAGCAAAAAACATTTAAATTTGAAAAAAATTATAAGATTAT
1 CCAATTATGATAGGTTTTAACCA-AAACAAAAAATATTTAAATTTGAAAAAAATTATAAAATTAT
* * *
914677 AAAACCATTTAAAGCAAGTAACAAGGCTTTCGATGGCAAAGGTGGCTATAACTAGACATTTCTTG
65 AAAACCATTTAAAGCAAGTAACAAAGCTTTCGATGACAAAGGTGACTATAACTAGACATTTCTTG
* * ** * * *
914742 CTAATGGATGACATATGCTTCATGCTTCCTGATGCAAATAT
130 CTAATGGATGACATATACTACACACTACCTAATGCAAACAT
* * ** * * *
914783 CCAATTATTATAGGCTTTAACCTAAAACAAAAAATATTTTGATTTGAAATAATTTATAAAATTGT
1 CCAATTATGATAGGTTTTAACC-AAAACAAAAAATATTTAAATTTGAAAAAAATTATAAAATTAT
* * ** * * * * * **
914848 AAAACTATTTAATGCGGGTAATAAAGCTTTCGATGATAAGGGTGACTATAAGTGGGTATTTCTTG
65 AAAACCATTTAAAGCAAGTAACAAAGCTTTCGATGACAAAGGTGACTATAACTAGACATTTCTTG
* *
914913 -TCAATGGATGACATCTACTACACACTACCTAATGGAAACAT
130 CT-AATGGATGACATATACTACACACTACCTAATGCAAACAT
* * * *
914954 CCAATTATGATATGTTTTAATCAAAAATAAAAAATATTTCAATTT-AAAA
1 CCAATTATGATAGGTTTTAA-CCAAAACAAAAAATATTTAAATTTGAAAA
915003 TCCTTTATAA
Statistics
Matches: 175, Mismatches: 42, Indels: 7
0.78 0.19 0.03
Matches are distributed among these distances:
170 4 0.02
171 169 0.97
172 2 0.01
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.32
Consensus pattern (170 bp):
CCAATTATGATAGGTTTTAACCAAAACAAAAAATATTTAAATTTGAAAAAAATTATAAAATTATA
AAACCATTTAAAGCAAGTAACAAAGCTTTCGATGACAAAGGTGACTATAACTAGACATTTCTTGC
TAATGGATGACATATACTACACACTACCTAATGCAAACAT
Found at i:915323 original size:171 final size:171
Alignment explanation
Indices: 914665--915431 Score: 533
Period size: 171 Copynumber: 4.5 Consensus size: 171
914655 TTGAAAAAAA
*** * * * * *
914665 TTATAAGATTATAAAACCATTTAAAGCAAGTAACAAGGCTTTCGATGGCA-AAGGTGGCTATAAC
1 TTATAAGATTAT-AAACCATTTAAAATGAGTAATAAGGCTTTTGATGGCATGA-GTGACTATAAA
* * * * * * * *
914729 TAGACATTTCTT-GCTAATGGAT-GACATATGCTTCATGC-TTCCT-GATGCAAATATCCAATTA
64 TGGACTTTTCTTATC-AATGGATAGACATCTGCTTCA--CATTTCTAAATGCAAACATCCAATAA
* * * ** * * *
914790 TTATAGGCTTTAACCTAAAACAAAAAATATTTTGATTTGAAATAAT
126 TGATAGGTTTTAACCAAAAATGAAACATATTTTGATTTAAAATCAT
* * * *** * * * ** * * *
914836 TTATAAAATTGTAAAACTATTTAATGCGGGTAATAAAGCTTTCGATGATAAGGGTGACTATAAGT
1 TTATAAGATTAT-AAACCATTTAAAATGAGTAATAAGGCTTTTGATGGCATGAGTGACTATAAAT
* * * * ** * *
914901 GG-GTATTTCTTGTCAATGGAT-GACATCTACTACACACTACCT-AATGGAAACATCCAATTATG
65 GGACT-TTTCTTATCAATGGATAGACATCTGCTTCACA-TTTCTAAATGCAAACATCCAATAATG
* * * * ** *
914963 ATATGTTTTAATCAAAAATAAAAAATATTTCAATTTAAAATCCT
128 ATAGGTTTTAACCAAAAATGAAACATATTTTGATTTAAAATCAT
* * * * * *
915007 TTATAAGATTATAAACAATTTAAAATGAGAAATAAGCCTTTTGATGGGATGGGTGACTATATATG
1 TTATAAGATTATAAACCATTTAAAATGAGTAATAAGGCTTTTGATGGCATGAGTGACTATAAATG
* * * * ** * * *
915072 AACTTTTC-TAGCAAATGG-TTGACATCTGTTTCATGTTTTTCAATACAAACATCCAATTACA-G
66 GACTTTTCTTATC-AATGGATAGACATCTGCTTCACATTTCTAAATGCAAACATCCAA-TA-ATG
* *
915134 -TAAGG-TTTAACAAAAAATGAAACAGATTTTGATTTAAAATCAT
128 AT-AGGTTTTAACCAAAAATGAAACATATTTTGATTTAAAATCAT
* * **
915177 TTATAAGATTATAGAACCATTTAAAATGAGTAATAAGGTTTTTAATGGCATGAGTGACTGCAAAT
1 TTATAAGATTATA-AACCATTTAAAATGAGTAATAAGGCTTTTGATGGCATGAGTGACTATAAAT
* *
915242 GGACTTTTCTTATCAATGGATAG-TAT-TGGCTTCACATTTCTAAATGCAAACAACCAATAATGA
65 GGACTTTTCTTATCAATGGATAGACATCT-GCTTCACATTTCTAAATGCAAACATCCAATAATGA
*
915305 TAGGTTTTAACCAAAAATG-TACAATATTTTGATTTAAAATCAT
129 TAGGTTTTAACCAAAAATGAAAC-ATATTTTGATTTAAAATCAT
* * * * * *
915348 TTATAAGATTA-AAATCATTTAAAATGAGTAACAACGCTTTCGATGGCATGAGCGACTATAAATA
1 TTATAAGATTATAAACCATTTAAAATGAGTAATAAGGCTTTTGATGGCATGAGTGACTATAAATG
915412 GACTTTTCTTATCAATGGAT
66 GACTTTTCTTATCAATGGAT
915432 GGCATCAATT
Statistics
Matches: 466, Mismatches: 110, Indels: 42
0.75 0.18 0.07
Matches are distributed among these distances:
169 69 0.15
170 125 0.27
171 265 0.57
172 7 0.02
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.34
Consensus pattern (171 bp):
TTATAAGATTATAAACCATTTAAAATGAGTAATAAGGCTTTTGATGGCATGAGTGACTATAAATG
GACTTTTCTTATCAATGGATAGACATCTGCTTCACATTTCTAAATGCAAACATCCAATAATGATA
GGTTTTAACCAAAAATGAAACATATTTTGATTTAAAATCAT
Found at i:916674 original size:5 final size:5
Alignment explanation
Indices: 916666--916696 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
916656 TATTTATTTT
916666 TATTA TATTA TATTA TATTA TATTA TATTA T
1 TATTA TATTA TATTA TATTA TATTA TATTA T
916697 TTAGATAGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATTA
Found at i:930556 original size:2 final size:2
Alignment explanation
Indices: 930549--930585 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
930539 ATGACTTTGA
* *
930549 AT AT AT AT AT AA AT AT AT AT AT AT AT AT AT AC AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
930586 AAGGTTCTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:935743 original size:20 final size:21
Alignment explanation
Indices: 935715--935771 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 21
935705 CTACAAAGGT
* * *
935715 CCATATATCGATATATGAA-C
1 CCATGTATCGATACATGAAGA
935735 CCATGTATCGATACATGAAGA
1 CCATGTATCGATACATGAAGA
*
935756 ACATGTATCGATACAT
1 CCATGTATCGATACAT
935772 TTCACCATTG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 17 0.53
21 15 0.47
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (21 bp):
CCATGTATCGATACATGAAGA
Found at i:935901 original size:92 final size:89
Alignment explanation
Indices: 935736--935907 Score: 195
Period size: 91 Copynumber: 1.9 Consensus size: 89
935726 TATATGAACC
** *
935736 CATGTATCGATACATGAAGAACATGTATCGATACATTTCACCATTGTATAGATACATATCGTCCA
1 CATGTATCGATACATGAAGAACATGTATCGATACA-TTCACCATTCCATAGATACATATCATCCA
935801 ATAGCAAAAATTAAAATCCTATGTTT
65 ATAGCAAAAA-TAAAATCCTATGTTT
* * * *
935827 CATGTATCGATACATGCAAGAACATGTATTGATACA-TC-CCAATATCCATCGATACATTTCATT
1 CATGTATCGATACATG-AAGAACATGTATCGATACATTCACC-AT-TCCATAGATACATATCATC
* *
935890 CAGTGGCCAAAAATAAAA
63 CAATAG-CAAAAATAAAA
935908 CATTCTGCCT
Statistics
Matches: 68, Mismatches: 9, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
89 2 0.03
90 4 0.06
91 38 0.56
92 24 0.35
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.30
Consensus pattern (89 bp):
CATGTATCGATACATGAAGAACATGTATCGATACATTCACCATTCCATAGATACATATCATCCAA
TAGCAAAAATAAAATCCTATGTTT
Found at i:941639 original size:341 final size:340
Alignment explanation
Indices: 941009--942157 Score: 1036
Period size: 341 Copynumber: 3.4 Consensus size: 340
940999 ACTTGGTGTC
* * ** * * *
941009 AATGGACTATTCTTGTCAAGAAATGGCATAT-GGTTCACATTTCCCAATGTAAACATCTAATTAT
1 AATGGACTTTTCTTGTCAAGAGATGGCAT-TGGGTTCATGTTTTCCAATGCAAACATCCAATTAT
** * * * *
941073 GATAGGCTTTAACCAAAAACAAAAAAGATTTGGATTTGAAATCATATATAAGGTTATAAGACCA-
65 GATAGATTTTAACCAAAAACAAAAAAGATTTCGATTTAAAATCATATATAAGATTATAAAACCAT
* * * * ** * *
941137 TTAAAGCGAGTAACATGGCTTTCAATGGAATGAGTGACTATAAATTTACTTTTCTTATCAATGGA
130 TTAAAGCGAATAACATGACTTTCAATGGCATGAGTAACTATAAATCAAATTTCCTTATCAATGGA
** ** * * * *
941202 TCACATCCACTTCATATTT-CTAAGTGCAAACATTTAGTAATGATAAATTTTAACTAAAAATGAA
195 TGGCATCCACTTCATATTTCCT-A-TGCAAACATCCAATAATGATAGATTTTAACCAAAAACGAA
* * * * *
941266 TACGATTTTGATTTCAAATCATTTATAAGATTAGAAAACCATTTAAAGAGACTGATAAGGTTTTT
258 TAAGTTTTTGATTTCAAATCATTTACAAGATTATAAAACCATTTAAAGTGA-TGATAAGGTTTTT
*
941331 GATGTCATGAGTGATTATA
322 GATGTCATGAGTGACTATA
* * *
941350 TATGGACTTTTCTTGTTAATAGATGGCATTGGGTTCATGTTTTCCAATGCAAACATCCAATTATG
1 AATGGACTTTTCTTGTCAAGAGATGGCATTGGGTTCATGTTTTCCAATGCAAACATCCAATTATG
* ** * * * *
941415 ATAGATTTTAAGCAAAAGA-AAAAGGGATTTCTATTCAAAATAATTTATAA-ATTATAAAACCAT
66 ATAGATTTTAACCAAAA-ACAAAAAAGATTTCGATTTAAAATCATATATAAGATTATAAAACCAT
* * * **
941478 TTAAAGCGAATAACATGACTTTCAATGGCATGACTAACTATAAATGAAATTTCCTTGTTGATGGA
130 TTAAAGCGAATAACATGACTTTCAATGGCATGAGTAACTATAAATCAAATTTCCTTATCAATGGA
* * * *
941543 TGGCATCCACTTCATATTTCCTGATGCAAACATCCAATTATCATAGCTTTTAACCAAAAAGGAA-
195 TGGCATCCACTTCATATTTCCT-ATGCAAACATCCAATAATGATAGATTTTAACCAAAAACGAAT
* * * * * *
941607 AAGTTTTTTGATTTGAAATCATTTAGAAGATTATAACACCATTCAAAGTGA-GAAACTAGGCTTT
259 AAG-TTTTTGATTTCAAATCATTTACAAGATTATAAAACCATTTAAAGTGATGATA--AGGTTTT
*
941671 GGATGAT-ATGAGTGACTATA
321 TGATG-TCATGAGTGACTATA
* * * * * * *
941691 AATGGA-TTGTTTTTTTCAAGGGATGGCATTGGCTTCATGTTTTCCCATGTAAACATCCATTTAT
1 AATGGACTT-TTCTTGTCAAGAGATGGCATTGGGTTCATGTTTTCCAATGCAAACATCCAATTAT
* * * *
941755 GATAG-TTTAGAACCAAAAACAAAAAAGATTTTGAGTTAAAATCATATATAAGATTAGAAAACCA
65 GATAGATTT-TAACCAAAAACAAAAAAGATTTCGATTTAAAATCATATATAAGATTATAAAACCA
** * ** ** *
941819 TTTAAA-ATAAGTAACAAGACTTTTGATGGCACAAGTAACTATAAATCAACTTTTCC-TATCAAT
129 TTTAAAGCGAA-TAACATGACTTTCAATGGCATGAGTAACTATAAATCAA-ATTTCCTTATCAAT
* * * * * *
941882 GGATGGCATCTACTTCACATTTCCATATGCAAACATCCAATCATGATTGGTTTTAACCAAAAACA
192 GGATGGCATCCACTTCATATTTCC-TATGCAAACATCCAATAATGATAGATTTTAACCAAAAACG
* * * *
941947 AATAAGATTTTT-ATTTCAAATTATTTACAAGCTTATAAATCCATTTAAAGTGAGTAAT-AGTGT
256 AATAAG-TTTTTGATTTCAAATCATTTACAAGATTATAAAACCATTTAAAGTGA-TGATAAG-GT
* * * *
942010 TTTTGATGGCATGGGTGACAACA
318 TTTTGATGTCATGAGTGACTATA
* * * * ** *
942033 AATCGATTTTTCCTATCAATTGATGGCA-TGGGCTTGATG-TTTCCTAATGCAAACATCCAATTA
1 AATGGACTTTTCTTGTCAAGAGATGGCATTGGG-TTCATGTTTTCC-AATGCAAACATCCAATTA
* * * * *
942096 TGATAGATTTTTAGCAAAAAC-ACAAAGAATTTCGATTTAAAATTATTTATAAGATTATAAAA
64 TGATAGATTTTAACCAAAAACAAAAAAG-ATTTCGATTTAAAATCATATATAAGATTATAAAA
942158 TAGTACAAAG
Statistics
Matches: 646, Mismatches: 137, Indels: 49
0.78 0.16 0.06
Matches are distributed among these distances:
339 3 0.00
340 19 0.03
341 356 0.55
342 248 0.38
343 19 0.03
344 1 0.00
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.34
Consensus pattern (340 bp):
AATGGACTTTTCTTGTCAAGAGATGGCATTGGGTTCATGTTTTCCAATGCAAACATCCAATTATG
ATAGATTTTAACCAAAAACAAAAAAGATTTCGATTTAAAATCATATATAAGATTATAAAACCATT
TAAAGCGAATAACATGACTTTCAATGGCATGAGTAACTATAAATCAAATTTCCTTATCAATGGAT
GGCATCCACTTCATATTTCCTATGCAAACATCCAATAATGATAGATTTTAACCAAAAACGAATAA
GTTTTTGATTTCAAATCATTTACAAGATTATAAAACCATTTAAAGTGATGATAAGGTTTTTGATG
TCATGAGTGACTATA
Found at i:941718 original size:171 final size:167
Alignment explanation
Indices: 941390--942156 Score: 414
Period size: 171 Copynumber: 4.5 Consensus size: 167
941380 GGGTTCATGT
* * ** * *
941390 TTTCCAATGCAAACATCCAATTATGATAGATTTTAAGCAAAAGAAAAAGGGATTTCT-ATTCAAA
1 TTTCCTATGCAAACATCCAATTATGATAG-TTTTAACCAAAA-AAAAAAAG-TTTTTGATTTAAA
* * * * ** * ** *
941454 ATAATTTATAA-ATTATAAAACCATTTAAAGCGA-ATAACATGACTTTCAATGGCATGACTAACT
63 ATCATTTACAAGATTAT-AAACCATTTAAAGTGAGA-AACAAGACTTTGGATGACACAAGTAACT
* * * ** *
941517 ATAAATGAA-ATTTCCTTGTTGATGGATGGCATCCACTTCATA
126 ATAAATCAACTTTTCC-TATCAAGGGATGGCATCCACTTCATA
* ** *
941559 TTTCCTGATGCAAACATCCAATTATCATAGCTTTTAACCAAAAAGGAAAAGTTTTTTGATTTGAA
1 TTTCCT-ATGCAAACATCCAATTATGATAG-TTTTAACCAAAAAAAAAAAG-TTTTTGATTTAAA
* * * * * ** *
941624 ATCATTTAGAAGATTATAACACCATTCAAAGTGAGAAACTAGGCTTTGGATGATATGAGTGACTA
63 ATCATTTACAAGATTATAA-ACCATTTAAAGTGAGAAACAAGACTTTGGATGACACAAGTAACTA
** ** * *** *
941689 TAAATGGA-TTGTTTTTTTCAAGGGATGGCATTGGCTTCATGT
127 TAAATCAACTT-TTCCTATCAAGGGATGGCATCCACTTCAT-A
* * * * * *
941731 TTTCCCATGTAAACATCCATTTATGATAGTTTAGAACCAAAAACAAAAAAGATTTTGAGTTAAAA
1 TTTCCTATGCAAACATCCAATTATGATAGTTT-TAACCAAAAA-AAAAAAGTTTTTGATTTAAAA
* * * * * * * *
941796 TCATATATAAGATTAGAAAACCATTTAAAATAAGTAACAAGACTTTTGATGGCACAAGTAACTAT
64 TCATTTACAAGATTA-TAAACCATTTAAAGTGAGAAACAAGACTTTGGATGACACAAGTAACTAT
* * *
941861 AAATCAACTTTTCCTATCAATGGATGGCATCTACTTCACA
128 AAATCAACTTTTCCTATCAAGGGATGGCATCCACTTCATA
* * * *
941901 TTTCCATATGCAAACATCCAATCATGATTGGTTTTAACCAAAAACAAATAAGATTTTT-ATTTCA
1 TTTCC-TATGCAAACATCCAATTATGA-TAGTTTTAACCAAAAA-AAAAAAG-TTTTTGATTTAA
* * * * ** * * *** *
941965 AATTATTTACAAGCTTATAAATCCATTTAAAGTGAGTAA-TAGTGTTTTTGATGGCATGGGTGAC
62 AATCATTTACAAGATTATAAA-CCATTTAAAGTGAGAAACAAG-ACTTTGGATGACACAAGTAAC
* * * * ** *** * *
942029 AACAAATCGATTTTTCCTATCAATTGATGGCATGGGCTTGATG
125 TATAAATCAACTTTTCCTATCAAGGGATGGCATCCACTTCATA
* * * * * *
942072 TTTCCTAATGCAAACATCCAATTATGATAGATTTTTAGCAAAAACACAAAGAATTTCGATTTAAA
1 TTTCCT-ATGCAAACATCCAATTATGATAG-TTTTAACCAAAAAAAAAAAG-TTTTTGATTTAAA
* *
942137 ATTATTTATAAGATTATAAA
63 ATCATTTACAAGATTATAAA
942157 ATAGTACAAA
Statistics
Matches: 459, Mismatches: 120, Indels: 36
0.75 0.20 0.06
Matches are distributed among these distances:
169 13 0.03
170 73 0.16
171 347 0.76
172 26 0.06
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (167 bp):
TTTCCTATGCAAACATCCAATTATGATAGTTTTAACCAAAAAAAAAAAGTTTTTGATTTAAAATC
ATTTACAAGATTATAAACCATTTAAAGTGAGAAACAAGACTTTGGATGACACAAGTAACTATAAA
TCAACTTTTCCTATCAAGGGATGGCATCCACTTCATA
Found at i:943068 original size:21 final size:20
Alignment explanation
Indices: 943017--943068 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 20
943007 CTACAACAAT
* * *
943017 TCTATCGATACATTCTGTAA
1 TCTATCGATACATGCAGGAA
* *
943037 TGTATCTATACATGCAAGGAA
1 TCTATCGATACATGC-AGGAA
943058 TCTATCGATAC
1 TCTATCGATAC
943069 CTTTGGTAAT
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (20 bp):
TCTATCGATACATGCAGGAA
Found at i:943916 original size:35 final size:35
Alignment explanation
Indices: 943877--944065 Score: 146
Period size: 35 Copynumber: 5.3 Consensus size: 35
943867 TTAATTGTTT
* * *
943877 AATTTAATCAATTAGGCCTAATAACTTAATGAAAC
1 AATTTAATCAATTAGGCCCAATAACTTGATTAAAC
* *
943912 AATTTGAAT-AATTAGACCCAATAACTTGATTAAAT
1 AATTT-AATCAATTAGGCCCAATAACTTGATTAAAC
* *
943947 AATTTGATCAATTAAGCCCAATAACTTGATTAAAC
1 AATTTAATCAATTAGGCCCAATAACTTGATTAAAC
*********** *
943982 AAATTTAATCAANNNNNNNNNNNAACTCGATTAAAC
1 -AATTTAATCAATTAGGCCCAATAACTTGATTAAAC
* *
944018 AAATTTAATCAATTAGGCCCAATCACTTAATTAAAC
1 -AATTTAATCAATTAGGCCCAATAACTTGATTAAAC
944054 AATTTTAATCAA
1 AA-TTTAATCAA
944066 GTGCTTGAGA
Statistics
Matches: 114, Mismatches: 36, Indels: 7
0.73 0.23 0.04
Matches are distributed among these distances:
34 2 0.02
35 56 0.49
36 56 0.49
ACGTcount: A:0.43, C:0.14, G:0.06, T:0.30
Consensus pattern (35 bp):
AATTTAATCAATTAGGCCCAATAACTTGATTAAAC
Found at i:945987 original size:80 final size:80
Alignment explanation
Indices: 945681--945971 Score: 404
Period size: 80 Copynumber: 3.6 Consensus size: 80
945671 ATCATCATAT
* * * * *
945681 TTAGCCAACAGTGTATATGACTATCTAAACATATACATCTCGTGGCATACATTTCATAACCTCAT
1 TTAGCCTATAGTGTATATGACTATCTCAACACATACATCTCATGGCATACATTTCATAACCTCAT
* *
945746 AAAATCACTTACACGC
66 -AAATCACTTTCATGC
* * * *
945762 TTAGCCCATAGTGTATATGACTTTCTCAACACATGCATCTCATGGTATACATTTCATAACCTCAT
1 TTAGCCTATAGTGTATATGACTATCTCAACACATACATCTCATGGCATACATTTCATAACCTCAT
945827 AAATCA-TTTACATGC
66 AAATCACTTT-CATGC
*
945842 TTAGCCTATAGTGTATATGACTATCTCAAAACATACATCTCATGGCATACATTTCATAACCTCAT
1 TTAGCCTATAGTGTATATGACTATCTCAACACATACATCTCATGGCATACATTTCATAACCTCAT
*
945907 ATATCACTTTCATGC
66 AAATCACTTTCATGC
* * * *
945922 TTAACCTATAGTGTATCTGACTATCTCAGCACATACATCTCATCGCATAC
1 TTAGCCTATAGTGTATATGACTATCTCAACACATACATCTCATGGCATAC
945972 GTATTACAAT
Statistics
Matches: 187, Mismatches: 21, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
79 2 0.01
80 125 0.67
81 60 0.32
ACGTcount: A:0.33, C:0.25, G:0.10, T:0.33
Consensus pattern (80 bp):
TTAGCCTATAGTGTATATGACTATCTCAACACATACATCTCATGGCATACATTTCATAACCTCAT
AAATCACTTTCATGC
Done.