Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008497.1 Hibiscus syriacus cultivar Beakdansim tig00111342_pilon, 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: 1504768
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
File 4 of 6
Found at i:704336 original size:32 final size:35
Alignment explanation
Indices: 704300--704366 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 35
704290 AAGATCAATA
*
704300 ATAATGTATAT-A-ATATTAA-AAATTATGTATAT
1 ATAATGTATATAATATATTAAGAAATTATATATAT
704332 ATAATGTATATAATATATTAAGAAATTATATATAT
1 ATAATGTATATAATATATTAAGAAATTATATATAT
704367 TAAAAATTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
32 11 0.35
33 1 0.03
34 7 0.23
35 12 0.39
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (35 bp):
ATAATGTATATAATATATTAAGAAATTATATATAT
Found at i:704366 original size:17 final size:16
Alignment explanation
Indices: 704306--704377 Score: 65
Period size: 17 Copynumber: 4.2 Consensus size: 16
704296 AATAATAATG
704306 TATATAATATTAAAAAT
1 TATAT-ATATTAAAAAT
* **
704323 TATGTATA-TATAATGT
1 TATATATATTA-AAAAT
704339 ATATAATATATTAAGAAAT
1 -TAT-ATATATTAA-AAAT
704358 TATATATATTAAAAAT
1 TATATATATTAAAAAT
704374 TATA
1 TATA
704378 CAATTACAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
15 2 0.05
16 14 0.32
17 16 0.36
18 8 0.18
19 4 0.09
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (16 bp):
TATATATATTAAAAAT
Found at i:704774 original size:2 final size:2
Alignment explanation
Indices: 704767--704798 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
704757 CTTCCATGTT
704767 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
704799 ATAAGCTTCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:705624 original size:34 final size:34
Alignment explanation
Indices: 705581--705647 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
705571 GTCAGGTTGA
705581 ATCTCAGGTGGAAGATTCTTTATTCTTAGGTCAG
1 ATCTCAGGTGGAAGATTCTTTATTCTTAGGTCAG
*
705615 ATCTCAGGTGGAAGATTCTTTGTTCTTAGGTCA
1 ATCTCAGGTGGAAGATTCTTTATTCTTAGGTCA
705648 TATCAGATGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.22, C:0.15, G:0.24, T:0.39
Consensus pattern (34 bp):
ATCTCAGGTGGAAGATTCTTTATTCTTAGGTCAG
Found at i:720076 original size:57 final size:60
Alignment explanation
Indices: 719960--720077 Score: 206
Period size: 57 Copynumber: 2.0 Consensus size: 60
719950 TTGTTCGGGT
719960 AGTTCTGCGGTGCGGCGCCTAAAAAACGGCTAATATATGGCGTGACCGGTTAAATAAGTG
1 AGTTCTGCGGTGCGGCGCCTAAAAAACGGCTAATATATGGCGTGACCGGTTAAATAAGTG
*
720020 AGTTCTGCGGTGCGGCGCCT-AAAAACGGCT-A-ATATGGCGTGACGGGTTAAATAAGTG
1 AGTTCTGCGGTGCGGCGCCTAAAAAACGGCTAATATATGGCGTGACCGGTTAAATAAGTG
720077 A
1 A
720078 TCGGTTAAAA
Statistics
Matches: 57, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
57 26 0.46
58 1 0.02
59 10 0.18
60 20 0.35
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.23
Consensus pattern (60 bp):
AGTTCTGCGGTGCGGCGCCTAAAAAACGGCTAATATATGGCGTGACCGGTTAAATAAGTG
Found at i:720163 original size:23 final size:22
Alignment explanation
Indices: 720137--720183 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
720127 ATAAAGTACA
*
720137 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAG-GCTTAT
**
720160 ATAATGTAATAGGTAGGCTTAT
1 ATAACATAATAGGTAGGCTTAT
720182 AT
1 AT
720184 TTACCTATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (22 bp):
ATAACATAATAGGTAGGCTTAT
Found at i:721140 original size:23 final size:23
Alignment explanation
Indices: 721114--721168 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
721104 ACAACTACCA
721114 TACATTATATAAACGATACCTAT
1 TACATTATATAAACGATACCTAT
* *
721137 TACATTATATAAGCGCTACCTAT
1 TACATTATATAAACGATACCTAT
721160 TACA-TATAT
1 TACATTATAT
721169 TTTTACCTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 5 0.17
23 25 0.83
ACGTcount: A:0.40, C:0.18, G:0.05, T:0.36
Consensus pattern (23 bp):
TACATTATATAAACGATACCTAT
Found at i:721609 original size:23 final size:23
Alignment explanation
Indices: 721574--721630 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
721564 ACTTTACAAC
721574 TACCTA-TACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
721596 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
721619 TACCTATTACAT
1 TACCTATTACAT
721631 CATTTTTACC
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 6 0.19
23 26 0.81
ACGTcount: A:0.39, C:0.21, G:0.05, T:0.35
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:721638 original size:465 final size:470
Alignment explanation
Indices: 720257--721687 Score: 2322
Period size: 463 Copynumber: 3.1 Consensus size: 470
720247 TTATAATATG
*
720257 TTGAAAGTGTCCATAC-TTTTATAAAAAGGATCGATAATTTTTTAAAG-TATGTAATTATGTTTC
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTAAAGTTATGTAATTATGTTTC
720320 AACTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACA
66 AACTTTTTTTAATAGTGTTTCATGTTTT--ACCTACAATATTAATTTAATAATTTCATTTACACA
720385 AAAAATTATTTGATTGTTTTGAT-TTTTAT-AAATAATA-TTAGAATTTAAATTTAACAATATTA
129 AAAAA-TATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTA
720447 ACCAAAGATAAT-ATAAAATATGTAATATATATG-TTATTGTTTT-ATTTAATAATAATATATAT
193 ACCAAAGATAATAAT-AAATATGTAATATATATGTTTATTGTTTTAATTTAATAATAATATATAT
720509 CGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATAATATCTTAAAACTCACTCAA
257 CGT-ACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATAATATCTTAAAACTCACTCAA
720574 AAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
321 AAG-TAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
*
720639 ATAC-TTACAACTACCTATTACATTATATAAACGATACCTATTACAGTATATAAGCG--A-CTA-
385 ATACTTTACAACTACCTA-TACATTATATAAACGATACCTATTACATTATATAAGCGCTACCTAT
720699 TACATCATATTTTACCTATTATA
449 TACATCAT-TTTTACCTATTATA
* *
720722 TTG-AAGTGT-CATACTTTTTATAAAAATGATCGATACTTTTTTTAAAGTTATGTAATTTGTGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAC-TTTTTTAAAGTTATGTAA-TTATGTT
* * *
720785 TAAATTTTTTTTAATAGTG-TTCATGTTTCCACCTAC-A-ATTAATTTAATAATTTCATTTACA-
64 TCAACTTTTTTTAATAGTGTTTCATGTTT-TACCTACAATATTAATTTAATAATTTCATTTACAC
*
720846 AAAAATTATTTGATTGTTTTGATATTTTATAAAATAA-ATTTAGAATTTAAATTTAACAATATTA
128 AAAAAATATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTA
720910 ACCAAAGATAATAATAAATATGT-A-ATATATGTTTATTGTTTTAA-TTAATAATAATATATATC
193 ACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTAATTTAATAATAATATATATC
*
720972 GAACGTAAAAAATAAATCATTAGA-GCCTATAA-TACTAAATAATATCTTAAAACTCACTCAAAA
258 GTACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATAATATCTTAAAACTCACTCAAAA
* * *
721035 GTAACCTTAAATTAATGTTTTCTACAGTTAAAAAAGTATGGACACTTTTATAAAAAGGATAGATA
323 GTAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATA
721100 CTTTACAACTACC-ATACATTATATAAACGATACCTATTACATTATATAAGCGCTACCTATTACA
388 CTTTACAACTACCTATACATTATATAAACGATACCTATTACATTATATAAGCGCTACCTATTACA
*
721164 TATATTTTTACCTATTATA
453 T-CATTTTTACCTATTATA
721183 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTCTTTTTAAAGTTATGTAATTATGTTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACT-TTTTTAAAGTTATGTAATTATGTTT
*
721248 CAA-TTTTTTTAATAGTGTTTCATGTTTTACCTACAATATTAA-TTAATAATTTTATTTACACAA
65 CAACTTTTTTTAATAGTGTTTCATGTTTTACCTACAATATTAATTTAATAATTTCATTTACACAA
721311 AAAATATTTGATTG-TTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAAC-ATATTAAC
130 AAAATATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAAC
721374 CAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTAATTTAATAAT-A-ATATATCGT
195 CAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTAATTTAATAATAATATATATCGT
*
721437 ACG-AAAAATTAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAG
260 ACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAA-TAATATCTTAAAACTCACTCAAAAG
*
721501 TAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGAACACTTTTATAAAAAGGATAGATAC
324 TAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATAC
721566 TTTACAACTACCTATACATTATATAAACGATACCTATTACATTATATAAGCGCTACCTATTACAT
389 TTTACAACTACCTATACATTATATAAACGATACCTATTACATTATATAAGCGCTACCTATTACAT
721631 CATTTTTACC--TTATA
454 CATTTTTACCTATTATA
* *
721646 TTGAAAG-GTCCATACTTTTTATAAAAATGATCGATACATTTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTT
721688 GAAGCAATTG
Statistics
Matches: 906, Mismatches: 28, Indels: 68
0.90 0.03 0.07
Matches are distributed among these distances:
457 37 0.04
458 63 0.07
459 44 0.05
460 11 0.01
461 92 0.10
462 182 0.20
463 196 0.22
464 56 0.06
465 134 0.15
466 68 0.08
467 23 0.03
ACGTcount: A:0.41, C:0.11, G:0.08, T:0.40
Consensus pattern (470 bp):
TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTAAAGTTATGTAATTATGTTTC
AACTTTTTTTAATAGTGTTTCATGTTTTACCTACAATATTAATTTAATAATTTCATTTACACAAA
AAATATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACC
AAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTAATTTAATAATAATATATATCGTA
CGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATAATATCTTAAAACTCACTCAAAAGTA
ACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTT
TACAACTACCTATACATTATATAAACGATACCTATTACATTATATAAGCGCTACCTATTACATCA
TTTTTACCTATTATA
Found at i:722321 original size:18 final size:17
Alignment explanation
Indices: 722270--722312 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 17
722260 ATATCCGGTC
722270 ATTTTACGGTTTTATCAT
1 ATTTTACGG-TTTATCAT
722288 -TTTGATACGGTTTATCAT
1 ATTT--TACGGTTTATCAT
722306 ATTTTAC
1 ATTTTAC
722313 TGTTATATCG
Statistics
Matches: 22, Mismatches: 0, Indels: 7
0.76 0.00 0.24
Matches are distributed among these distances:
17 6 0.27
18 8 0.36
19 8 0.36
ACGTcount: A:0.23, C:0.12, G:0.12, T:0.53
Consensus pattern (17 bp):
ATTTTACGGTTTATCAT
Found at i:722778 original size:21 final size:20
Alignment explanation
Indices: 722745--722786 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
722735 ACAGTGAAAT
722745 AAATATAGATACTTTTATAA
1 AAATATAGATACTTTTATAA
* *
722765 AAATGATATATACTTTTTTAA
1 AAAT-ATAGATACTTTTATAA
722786 A
1 A
722787 GTTATGTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.43
Consensus pattern (20 bp):
AAATATAGATACTTTTATAA
Found at i:723025 original size:223 final size:220
Alignment explanation
Indices: 722532--723206 Score: 1019
Period size: 223 Copynumber: 3.1 Consensus size: 220
722522 CTACTTTTAC
*
722532 GTATGAACAC-TTTAT-AAAATGATTTATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
1 GTATGAACACTTTTATAAAAATGA--TATATTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
*
722595 TTTTTAATAGTGTTTCATG-TTTCCACCTAC-ATATT-A-TAATAA-TTCATTTACACAAAAAAA
64 TTTTTAATAGTGTTTCATGTTTTCCA-CTACAATATTAATTAATAATTTCATTTACACAAAAAAT
722655 ATTGATTA-TTGATATTTTATAAAATAT-TATTAGAATTTAAATTTAACAATATAACAAAGATAA
128 ATTGATTATTTGATATTTTATAAAATATAT-TTAGAATTTAAATTTAACAATATAACAAAGATAA
722718 TAATAAATATGTTTTCCACAGTGAAATAA
192 TAATAAATATGTTTTCCACAGTGAAATAA
* * *
722747 ATAT-AGATACTTTTATAAAAATGATATATACTTTTTTAAAGTTATGTAA-TTATGTTTCAATTT
1 GTATGA-ACACTTTTATAAAAATGATATAT-TTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
*
722810 TTTTTAATAGTG-TTCATGTTTTCCACTACAATATTAATTAATAATTTTATTTACACAAAAAATT
64 TTTTTAATAGTGTTTCATGTTTTCCACTACAATATTAATTAATAATTTCATTTACACAAAAAA-T
722874 ATTTGATTATTTGATATTTTATAAAATATATTTAGAATTTAAATTTAAC-ATATTAACCAAAGAT
128 A-TTGATTATTTGATATTTTATAAAATATATTTAGAATTTAAATTTAACAATA-TAA-CAAAGAT
722938 AATAATAAAATATGTTTTCCACAGTGAAATAA
190 AATAAT-AAATATGTTTTCCACAGTGAAATAA
722970 GTATGAACACTTTTATAAAAAATGATAT-TTTTTTTTAAAGTTATGTAATTTATGTTTCAA-TTT
1 GTATGAACACTTTTAT-AAAAATGATATATTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTT
723033 TTTTAATAGTGTTTCATGTTTTCCACTACAATATTAATTAATAATTTCATTTACAC-AAAAATAT
65 TTTTAATAGTGTTTCATGTTTTCCACTACAATATTAATTAATAATTTCATTTACACAAAAAATAT
*
723097 TGATTGTTTTGATATTTTAT-AAA-ATATTTAGAATTTAAATTTAACAATATAACAAAGATAATA
130 TGATT-ATTTGATATTTTATAAAATATATTTAGAATTTAAATTTAACAATATAACAAAGATAATA
*
723160 ATAAATATATTTT-CACAGTGAAATAA
194 ATAAATATGTTTTCCACAGTGAAATAA
*
723186 GTATGGACACTTTTATAAAAA
1 GTATGAACACTTTTATAAAAA
723207 ACGATAGATA
Statistics
Matches: 425, Mismatches: 13, Indels: 44
0.88 0.03 0.09
Matches are distributed among these distances:
214 11 0.03
215 52 0.12
216 52 0.12
217 23 0.05
218 29 0.07
219 26 0.06
220 22 0.05
221 55 0.13
222 51 0.12
223 92 0.22
224 12 0.03
ACGTcount: A:0.41, C:0.08, G:0.07, T:0.44
Consensus pattern (220 bp):
GTATGAACACTTTTATAAAAATGATATATTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTT
TTTAATAGTGTTTCATGTTTTCCACTACAATATTAATTAATAATTTCATTTACACAAAAAATATT
GATTATTTGATATTTTATAAAATATATTTAGAATTTAAATTTAACAATATAACAAAGATAATAAT
AAATATGTTTTCCACAGTGAAATAA
Found at i:723707 original size:19 final size:20
Alignment explanation
Indices: 723683--723733 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
723673 AATGACCAAT
723683 AAAATCGCAACGCGATAT-C
1 AAAATCGCAACGCGATATAC
* *
723702 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATATAC
723722 AAAATCGCAACG
1 AAAATCGCAACG
723734 TTAAAAAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.43, C:0.24, G:0.18, T:0.16
Consensus pattern (20 bp):
AAAATCGCAACGCGATATAC
Found at i:723727 original size:20 final size:20
Alignment explanation
Indices: 723683--723976 Score: 166
Period size: 20 Copynumber: 14.6 Consensus size: 20
723673 AATGACCAAT
* *
723683 AAAATCGCAACGCGATAT-C
1 AAAATCGCAACGCGATTTAG
723702 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTTAG
** ***
723722 AAAATCGCAACGTTAAAAAG
1 AAAATCGCAACGCGATTTAG
** *
723742 AAAATCGCAACG-G-TCAAA
1 AAAATCGCAACGCGATTTAG
* **
723760 AGAAATCGCAACGCGAGCTTCC
1 A-AAATCGCAACGCGA-TTTAG
**
723782 AAGTTCGCAACGCGATTTAGAAG
1 AAAATCGCAACGCGATTT---AG
* * *
723805 AAAATCGCAATGCGATTGAT
1 AAAATCGCAACGCGATTTAG
* *
723825 AGAATCGCAATGCGA-TTA-
1 AAAATCGCAACGCGATTTAG
* * *
723843 ATAATCGCAATGCGATTGAG
1 AAAATCGCAACGCGATTTAG
* * *
723863 AGAGTCGCAACGCGATTAGAAG
1 AAAATCGCAACGCGATT--TAG
* * *
723885 AAAATCGCAATGCGACTGAG
1 AAAATCGCAACGCGATTTAG
* * *
723905 AGAATCGCAATGCGATTTAT
1 AAAATCGCAACGCGATTTAG
* * *
723925 AGAATCGCAATGCGATTGAG
1 AAAATCGCAACGCGATTTAG
*
723945 AGAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTTAG
723965 AAAATCGCAACG
1 AAAATCGCAACG
723977 TTAAAAAGAT
Statistics
Matches: 215, Mismatches: 48, Indels: 23
0.75 0.17 0.08
Matches are distributed among these distances:
18 17 0.08
19 32 0.15
20 124 0.58
21 12 0.06
22 16 0.07
23 14 0.07
ACGTcount: A:0.39, C:0.19, G:0.22, T:0.19
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTAG
Found at i:723882 original size:80 final size:82
Alignment explanation
Indices: 723786--723974 Score: 296
Period size: 80 Copynumber: 2.3 Consensus size: 82
723776 GCTTCCAAGT
* * *
723786 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGATTGATAGAATCGCAATGCGA-TTA-ATAATC
1 TCGCAACGCGA-TTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGATTTATAGAATC
*
723849 GCAATGCGATTGAGAGAG
65 GCAATGCGATTGAGAGAA
723867 TCGCAACGCGATTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGATTTATAGAATCG
1 TCGCAACGCGATTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGATTTATAGAATCG
723932 CAATGCGATTGAGAGAA
66 CAATGCGATTGAGAGAA
*
723949 TCGCAACGCGATT--TAGAAAATCGCAA
1 TCGCAACGCGATTAGAAGAAAATCGCAA
723975 CGTTAAAAAG
Statistics
Matches: 101, Mismatches: 5, Indels: 5
0.91 0.05 0.05
Matches are distributed among these distances:
80 52 0.51
81 14 0.14
82 35 0.35
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.21
Consensus pattern (82 bp):
TCGCAACGCGATTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGATTTATAGAATCG
CAATGCGATTGAGAGAA
Found at i:723931 original size:40 final size:38
Alignment explanation
Indices: 723807--723966 Score: 203
Period size: 38 Copynumber: 4.1 Consensus size: 38
723797 TTTAGAAGAA
* * *
723807 AATCGCAATGCGATTGATAGAATCGCAATGCGATTAAT
1 AATCGCAATGCGATTGAGAGAATCGCAACGCGATTAAG
*
723845 AATCGCAATGCGATTGAGAGAGTCGCAACGCGATTAGAAG
1 AATCGCAATGCGATTGAGAGAATCGCAACGCGATT--AAG
* *
723885 AAAATCGCAATGCGACTGAGAGAATCGCAATGCGATTTATAG
1 --AATCGCAATGCGATTGAGAGAATCGCAACGCGA-TTA-AG
*
723927 AATCGCAATGCGATTGAGAGAATCGCAACGCGATTTAG
1 AATCGCAATGCGATTGAGAGAATCGCAACGCGATTAAG
723965 AA
1 AA
723967 AATCGCAACG
Statistics
Matches: 106, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
38 36 0.34
39 2 0.02
40 33 0.31
41 1 0.01
42 32 0.30
43 2 0.02
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.21
Consensus pattern (38 bp):
AATCGCAATGCGATTGAGAGAATCGCAACGCGATTAAG
Found at i:723971 original size:40 final size:40
Alignment explanation
Indices: 723786--723974 Score: 238
Period size: 40 Copynumber: 4.7 Consensus size: 40
723776 GCTTCCAAGT
*
723786 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGATTGATAGAA
1 TCGCAACGCGATTT---AGAAAATCGCAATGCGATTGAGAGAA
* * *
723829 TCGCAATGCGA-TTA-ATAATCGCAATGCGATTGAGAGAG
1 TCGCAACGCGATTTAGAAAATCGCAATGCGATTGAGAGAA
* *
723867 TCGCAACGCGATTAGAAGAAAATCGCAATGCGACTGAGAGAA
1 TCGCAACGCGATT--TAGAAAATCGCAATGCGATTGAGAGAA
* * *
723909 TCGCAATGCGATTTATAGAATCGCAATGCGATTGAGAGAA
1 TCGCAACGCGATTTAGAAAATCGCAATGCGATTGAGAGAA
723949 TCGCAACGCGATTTAGAAAATCGCAA
1 TCGCAACGCGATTTAGAAAATCGCAA
723975 CGTTAAAAAG
Statistics
Matches: 125, Mismatches: 17, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
38 31 0.25
39 2 0.02
40 46 0.37
41 1 0.01
42 35 0.28
43 10 0.08
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.21
Consensus pattern (40 bp):
TCGCAACGCGATTTAGAAAATCGCAATGCGATTGAGAGAA
Found at i:724080 original size:6 final size:6
Alignment explanation
Indices: 724062--724116 Score: 96
Period size: 6 Copynumber: 9.5 Consensus size: 6
724052 AGACAGTATT
724062 ACCACG A-CACG ACCACG ACCACG ACCACG ACCACG ACCACG A-CACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
724108 ACCACG ACC
1 ACCACG ACC
724117 CGAGACGAGG
Statistics
Matches: 47, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
5 10 0.21
6 37 0.79
ACGTcount: A:0.35, C:0.49, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:724815 original size:6 final size:6
Alignment explanation
Indices: 724779--724842 Score: 93
Period size: 6 Copynumber: 11.5 Consensus size: 6
724769 TCTTGTCTCG
724779 GGTCG- GGTCG- GGTCG- GGTCG- GGTCG- GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
724822 GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGT
724843 AATACGTGTC
Statistics
Matches: 58, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 25 0.43
6 33 0.57
ACGTcount: A:0.00, C:0.17, G:0.55, T:0.28
Consensus pattern (6 bp):
GGTCGT
Found at i:724938 original size:20 final size:20
Alignment explanation
Indices: 724913--725009 Score: 140
Period size: 20 Copynumber: 4.8 Consensus size: 20
724903 ATTTTCAACG
* * *
724913 TCAATCGCGTTGCGACTCTC
1 TCAATCGCATTGCGATTCTA
*
724933 TCAATCGCATTGCGATTATA
1 TCAATCGCATTGCGATTCTA
* *
724953 TAAATCGCATTGCGATTATA
1 TCAATCGCATTGCGATTCTA
724973 TCAATCGCATTGCGATTCTA
1 TCAATCGCATTGCGATTCTA
724993 TCAATCGCATTGCGATT
1 TCAATCGCATTGCGATT
725010 TTCTTCTAAA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 70 1.00
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (20 bp):
TCAATCGCATTGCGATTCTA
Found at i:725107 original size:20 final size:20
Alignment explanation
Indices: 724915--725115 Score: 91
Period size: 20 Copynumber: 9.8 Consensus size: 20
724905 TTTCAACGTC
* * *
724915 AATCGCGTTGCGACTCTCTC
1 AATCGCGTTGCGATTTTCTA
* * *
724935 AATCGCATTGCGATTATATA
1 AATCGCGTTGCGATTTTCTA
* * * *
724955 AATCGCATTGCGATTATATC
1 AATCGCGTTGCGATTTTCTA
* * * *
724975 AATCGCATTGCGATTCTATC
1 AATCGCGTTGCGATTTTCTA
*
724995 AATCGCATTGCGATTTTCTTCTA
1 AATCGCGTTGCGA--TT-TTCTA
** **
725018 AATCGCGTTGCGAACTTGGA
1 AATCGCGTTGCGATTTTCTA
*
725038 AGCTCGCGTTGCGATTTTCT-
1 A-ATCGCGTTGCGATTTTCTA
* * *
725058 -TTTGACCGTTGCGATTTTCTT
1 AATCG--CGTTGCGATTTTCTA
** **
725079 TTTAACGTTGCGATTTTCTA
1 AATCGCGTTGCGATTTTCTA
725099 AATCGCGTTGCGATTTT
1 AATCGCGTTGCGATTTT
725116 ATTGGTCATT
Statistics
Matches: 144, Mismatches: 29, Indels: 16
0.76 0.15 0.08
Matches are distributed among these distances:
18 2 0.01
20 111 0.77
21 13 0.09
22 4 0.03
23 14 0.10
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.39
Consensus pattern (20 bp):
AATCGCGTTGCGATTTTCTA
Found at i:725664 original size:26 final size:28
Alignment explanation
Indices: 725634--725696 Score: 67
Period size: 31 Copynumber: 2.2 Consensus size: 28
725624 GAAAATTTTA
*
725634 AGCTCA-C-GAGTTTTCGAGTCGAGTCG
1 AGCTCATCAGAGTTTTCGAATCGAGTCG
725660 AGCTCTATTTCAGAGTTTTCGAATCGAGTCG
1 AGCTC-A--TCAGAGTTTTCGAATCGAGTCG
*
725691 AACTCA
1 AGCTCA
725697 ACGATACTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
26 5 0.17
27 1 0.03
30 2 0.07
31 22 0.73
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (28 bp):
AGCTCATCAGAGTTTTCGAATCGAGTCG
Found at i:726617 original size:3 final size:3
Alignment explanation
Indices: 726609--726640 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
726599 ATTGAAAAGA
726609 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
726641 ATAAAAAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:731146 original size:21 final size:21
Alignment explanation
Indices: 731120--731159 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
731110 ATTAAAATAA
*
731120 TATTATTAATTAATAATATTT
1 TATTATTAATTAAAAATATTT
*
731141 TATTATTTATTAAAAATAT
1 TATTATTAATTAAAAATAT
731160 ATTAGTTAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TATTATTAATTAAAAATATTT
Found at i:744046 original size:20 final size:21
Alignment explanation
Indices: 744009--744057 Score: 75
Period size: 20 Copynumber: 2.4 Consensus size: 21
743999 TAACCGGTGT
744009 AACCGGTTTTGGTTTTAAAAAA
1 AACCGGTTTT-GTTTTAAAAAA
744031 AACCGGTTTT-TTTTAAAAAA
1 AACCGGTTTTGTTTTAAAAAA
744051 AA-CGGTT
1 AACCGGTT
744058 ATAAAAAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.19
20 12 0.44
22 10 0.37
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (21 bp):
AACCGGTTTTGTTTTAAAAAA
Found at i:744493 original size:13 final size:13
Alignment explanation
Indices: 744472--744526 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
744462 AAGTTCGATA
*
744472 AATTTAAATACTT
1 AATTGAAATACTT
744485 AATTGAAATACTT
1 AATTGAAATACTT
* *
744498 AATT-AACTCAACAT
1 AATTGAAAT--ACTT
744512 AATTGAAATACTT
1 AATTGAAATACTT
744525 AA
1 AA
744527 ATACTTCCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.62
14 7 0.21
15 3 0.09
ACGTcount: A:0.49, C:0.11, G:0.04, T:0.36
Consensus pattern (13 bp):
AATTGAAATACTT
Found at i:744608 original size:32 final size:33
Alignment explanation
Indices: 744512--744610 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
744502 AACTCAACAT
* * *
744512 AATTGAAATACTTAAATACTTCCAAGTTTGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
744545 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
744578 AATTCAAATACTTAAAAACTT-CAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
744610 A
1 A
744611 TTGAAACAAA
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 12 0.19
33 51 0.81
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.32
Consensus pattern (33 bp):
AATTCAAATACTTAAAAACTTCCAAGTTCGATA
Found at i:744629 original size:21 final size:21
Alignment explanation
Indices: 744605--744644 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
744595 ACTTCAAGTT
744605 CGATAATTGAAACAAAGTTTA
1 CGATAATTGAAACAAAGTTTA
*
744626 CGATAATTGAAATAAAGTT
1 CGATAATTGAAACAAAGTT
744645 ATAAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.07, G:0.15, T:0.30
Consensus pattern (21 bp):
CGATAATTGAAACAAAGTTTA
Found at i:747009 original size:14 final size:13
Alignment explanation
Indices: 746974--747012 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
746964 GGTTTTTTAT
746974 CCGG-TAAAAAAA
1 CCGGTTAAAAAAA
*
746986 CCGGTTAAAATAA
1 CCGGTTAAAAAAA
746999 CCGGTTTAAAAAAA
1 CCGG-TTAAAAAAA
747013 TCCGATCCGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 4 0.17
13 11 0.48
14 8 0.35
ACGTcount: A:0.51, C:0.15, G:0.15, T:0.18
Consensus pattern (13 bp):
CCGGTTAAAAAAA
Found at i:747038 original size:14 final size:14
Alignment explanation
Indices: 746979--747038 Score: 50
Period size: 13 Copynumber: 3.9 Consensus size: 14
746969 TTTATCCGGT
746979 AAAAAAACCGGTT-
1 AAAAAAACCGGTTA
*
746992 AAAATAACCGGTTTA
1 AAAAAAACCGG-TTA
747007 AAAAAATCCGATCCGGTTA
1 AAAAAA----A-CCGGTTA
747026 AAAAAAACCGGTT
1 AAAAAAACCGGTT
747039 TTTCCCAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 13
0.72 0.04 0.25
Matches are distributed among these distances:
13 10 0.26
14 8 0.21
15 6 0.16
19 10 0.26
20 4 0.11
ACGTcount: A:0.48, C:0.17, G:0.15, T:0.20
Consensus pattern (14 bp):
AAAAAAACCGGTTA
Found at i:752840 original size:12 final size:12
Alignment explanation
Indices: 752811--752842 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
752801 AATGAACTTG
*
752811 TAAACAAGTCGA
1 TAAACGAGTCGA
752823 TAAACGAGTCGA
1 TAAACGAGTCGA
752835 TAAACGAG
1 TAAACGAG
752843 CTTATAAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.47, C:0.16, G:0.22, T:0.16
Consensus pattern (12 bp):
TAAACGAGTCGA
Found at i:752895 original size:34 final size:34
Alignment explanation
Indices: 752846--752921 Score: 116
Period size: 34 Copynumber: 2.2 Consensus size: 34
752836 AAACGAGCTT
*
752846 ATAAACAAACCAATAATTGAGCTTGTTCGTGAAC
1 ATAAACGAACCAATAATTGAGCTTGTTCGTGAAC
* *
752880 ATAAACGAACTAATAATTGAGCTTGTTTGTGAAC
1 ATAAACGAACCAATAATTGAGCTTGTTCGTGAAC
*
752914 TTAAACGA
1 ATAAACGA
752922 TCCGAACACA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (34 bp):
ATAAACGAACCAATAATTGAGCTTGTTCGTGAAC
Found at i:753413 original size:3 final size:3
Alignment explanation
Indices: 753405--753440 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
753395 GAGATGGTTT
* *
753405 TTA TTA TTA TCA TTA TTA CTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
753441 GGAGCAGCTG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:755526 original size:24 final size:27
Alignment explanation
Indices: 755466--755528 Score: 80
Period size: 24 Copynumber: 2.5 Consensus size: 27
755456 CATTGTTATA
*
755466 TAATT-ATTTATATTCAATCTATTATT
1 TAATTGATTTATATTCAATCTATTAAT
755492 TAATTGATTTATA-TCAAT-TA-TAAT
1 TAATTGATTTATATTCAATCTATTAAT
*
755516 TATTTGATTTATA
1 TAATTGATTTATA
755529 ATGTCAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
24 15 0.44
25 2 0.06
26 10 0.29
27 7 0.21
ACGTcount: A:0.37, C:0.05, G:0.03, T:0.56
Consensus pattern (27 bp):
TAATTGATTTATATTCAATCTATTAAT
Found at i:755761 original size:25 final size:24
Alignment explanation
Indices: 755717--755772 Score: 76
Period size: 25 Copynumber: 2.3 Consensus size: 24
755707 TGAATCCTAA
*
755717 TATTTTAATTTAATACAAAAAGAT
1 TATTTTAATTTAATAAAAAAAGAT
* *
755741 TATTATTATTTTAATAAAAAAATAT
1 TATT-TTAATTTAATAAAAAAAGAT
755766 TATTTTA
1 TATTTTA
755773 GAGGATTGAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 7 0.25
25 21 0.75
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (24 bp):
TATTTTAATTTAATAAAAAAAGAT
Found at i:756900 original size:11 final size:10
Alignment explanation
Indices: 756878--756941 Score: 56
Period size: 10 Copynumber: 6.1 Consensus size: 10
756868 TTTATTTTTT
*
756878 TAAAAATAAA
1 TAAAAATGAA
756888 TAAAAATGCAA
1 TAAAAATG-AA
*
756899 TAAAAAAGAA
1 TAAAAATGAA
*
756909 TTAAAAGTGAA
1 -TAAAAATGAA
* *
756920 TAAAATTCAA
1 TAAAAATGAA
756930 TAAAAATAGAA
1 TAAAAAT-GAA
756941 T
1 T
756942 GTAAAGCTAA
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
10 23 0.53
11 20 0.47
ACGTcount: A:0.67, C:0.03, G:0.08, T:0.22
Consensus pattern (10 bp):
TAAAAATGAA
Found at i:756904 original size:21 final size:20
Alignment explanation
Indices: 756878--756941 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 20
756868 TTTATTTTTT
756878 TAAAAATAAATAAAAATGCAA
1 TAAAAATAAATAAAAATG-AA
*
756899 TAAAAA-AGAATTAAAAGTGAA
1 TAAAAATA-AA-TAAAAATGAA
* *
756920 TAAAATTCAATAAAAATAGAA
1 TAAAAATAAATAAAAAT-GAA
756941 T
1 T
756942 GTAAAGCTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
20 7 0.20
21 21 0.60
22 7 0.20
ACGTcount: A:0.67, C:0.03, G:0.08, T:0.22
Consensus pattern (20 bp):
TAAAAATAAATAAAAATGAA
Found at i:756913 original size:32 final size:32
Alignment explanation
Indices: 756877--756946 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 32
756867 ATTTATTTTT
756877 TTAAAAATAAATAAAAATGCAATAAAAA-AGAA
1 TTAAAAATAAAT-AAAATGCAATAAAAATAGAA
* * *
756909 TTAAAAGTGAATAAAATTCAATAAAAATAGAA
1 TTAAAAATAAATAAAATGCAATAAAAATAGAA
756941 TGTAAA
1 T-TAAA
756947 GCTAAAAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
31 14 0.42
32 15 0.45
33 4 0.12
ACGTcount: A:0.66, C:0.03, G:0.09, T:0.23
Consensus pattern (32 bp):
TTAAAAATAAATAAAATGCAATAAAAATAGAA
Found at i:758128 original size:449 final size:449
Alignment explanation
Indices: 757545--758511 Score: 1645
Period size: 449 Copynumber: 2.1 Consensus size: 449
757535 TTAATTTTAA
* *
757545 AAGTCGCGGTGTAGGGGCCGCGCCTTCCTGCCAAAGGTGTTAGATCGAGAAATAAAATCTTAACA
1 AAGTCGCGGTGTAGGGGCCGCGCCTTCCTGCC-AAGGTGTTAGATCG-GAAATAAAATCTAAACG
757610 GTGCCTGAATTTTTTCAAAAATATATGAAGTTTATAAATTTTTAAATTATAAAATATTTATCATC
64 GTGCCTGAATTTTTTCAAAAATATATGAAGTTTATAAATTTTTAAATTATAAAATATTTATCATC
757675 ATCATCATTTTGTAAAAGAAATATTAATTATAAAACTTTTATAAAATTATTCATATTTTAAAATA
129 ATCATCATTTTGTAAAAGAAATATTAATTATAAAACTTTTATAAAATTATTCATATTTTAAAATA
* *
757740 CTTACCCTCAAAGTTTTCCTATACTAGATTATACGAATTGTGTAATTTCGTGCAAAAATAAAAAT
194 CTTACCCTCAAAGTTTTCATATACTAGATTATACGAATTGTGTAATTTCATGCAAAAATAAAAAT
* * *
757805 TTTCCAAAAG-TTTTTTTTCACACA-TAAAAATAAATAAATAAAATTGACGTTTTTACACAAATA
259 TTGCCAAAAGTTTTTTTTTCACACACAAAAAATAAATAAATAAAATTAACGTTTTTACACAAATA
*
757868 TTACTCTAATAGAAATTAATTACATATTAGGTACTATGTTAAAAATATTTACAAAACTAGCACCC
324 TCACTCTAATAGAAATTAATTACATATTAGGTACTATGTTAAAAATATTTACAAAACTAGCACCC
*
757933 AGCTTTTTTACACATTTCACTGTAGGGGCGCGCCTTACCTCACGTGACCCCATATCAACGT
389 AGCTTTTTTACACATTTCACTGTAGGGGCGCGCCTTACCTCACGTGACCCCAGATCAACGT
* * *
757994 AAGTCGCGGTGTAAGGGCCGCACCTTCCTGCCAAGTGTGTTAGATCGGGAAATAAAATCTGAACG
1 AAGTCGCGGTGTAGGGGCCGCGCCTTCCTGCCAAG-GTGTTAGATC-GGAAATAAAATCTAAACG
758059 GTGCCTGAATTTTTTCAAAAATATATGAAGTTTAT-AATTTTTCAAATTATAAAATATTTATCAT
64 GTGCCTGAATTTTTTCAAAAATATATGAAGTTTATAAATTTTT-AAATTATAAAATATTTATCAT
*
758123 CATCATCATTTTGTAAAAGAAATATTAGTTATAAAACTTTTATAAAATTATTCATATTTTAAAAT
128 CATCATCATTTTGTAAAAGAAATATTAATTATAAAACTTTTATAAAATTATTCATATTTTAAAAT
*
758188 ACTTACCCTCAAAGTTTTCATATACTAGATTATACGTATTGTGTAATTTCATGCAAAAATAAAAA
193 ACTTACCCTCAAAGTTTTCATATACTAGATTATACGAATTGTGTAATTTCATGCAAAAATAAAAA
* *
758253 TTTGCCAAAAGTTTTTTTTTCACACACAAAAAATAAATAAATAAAATTAACGTTTTTATATAAAT
258 TTTGCCAAAAGTTTTTTTTTCACACACAAAAAATAAATAAATAAAATTAACGTTTTTACACAAAT
758318 ATCACTCTAATAGAAATTAATTACATATTAGGTACTATGTTAAAAATATTTACAAAACTAGCACC
323 ATCACTCTAATAGAAATTAATTACATATTAGGTACTATGTTAAAAATATTTACAAAACTAGCACC
* * ** *
758383 CAGCTTTTTTATACATTTCACTGTAGGGGCGCGTCTTACCTCACGTGACGTCAGATCAGCGT
388 CAGCTTTTTTACACATTTCACTGTAGGGGCGCGCCTTACCTCACGTGACCCCAGATCAACGT
* *
758445 AAGTCGCGGTGTAGGGGTCACGCCTTCCTGCCAAGGGTGTTAGATC-GAAATAAAATCTAAACGG
1 AAGTCGCGGTGTAGGGGCCGCGCCTTCCTGCCAA-GGTGTTAGATCGGAAATAAAATCTAAACGG
758509 TGC
65 TGC
758512 ATGACATGAA
Statistics
Matches: 487, Mismatches: 25, Indels: 12
0.93 0.05 0.02
Matches are distributed among these distances:
448 10 0.02
449 267 0.55
450 15 0.03
451 194 0.40
452 1 0.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (449 bp):
AAGTCGCGGTGTAGGGGCCGCGCCTTCCTGCCAAGGTGTTAGATCGGAAATAAAATCTAAACGGT
GCCTGAATTTTTTCAAAAATATATGAAGTTTATAAATTTTTAAATTATAAAATATTTATCATCAT
CATCATTTTGTAAAAGAAATATTAATTATAAAACTTTTATAAAATTATTCATATTTTAAAATACT
TACCCTCAAAGTTTTCATATACTAGATTATACGAATTGTGTAATTTCATGCAAAAATAAAAATTT
GCCAAAAGTTTTTTTTTCACACACAAAAAATAAATAAATAAAATTAACGTTTTTACACAAATATC
ACTCTAATAGAAATTAATTACATATTAGGTACTATGTTAAAAATATTTACAAAACTAGCACCCAG
CTTTTTTACACATTTCACTGTAGGGGCGCGCCTTACCTCACGTGACCCCAGATCAACGT
Found at i:761462 original size:126 final size:126
Alignment explanation
Indices: 761237--761481 Score: 427
Period size: 126 Copynumber: 1.9 Consensus size: 126
761227 TGAACCACTG
*
761237 CACCTCCCCAAAAGCTTTGTATTTAACCCGAAAAACCCACTTGAAGCCAATGCATTCCTTGCCAG
1 CACCTCCCCAAAAGCTTTGTATTTAACCAGAAAAACCCACTTGAAGCCAATGCATTCCTTGCCAG
* * *
761302 GAGGCAAAGGAACCACAGTCCAAGTATTATTCAACTCTAGTGCTTGAATCTCTTCTCTCCT
66 GAGGCAAAGAAACCACAATCCAAGTATTATTCAACTCCAGTGCTTGAATCTCTTCTCTCCT
* * *
761363 CACCTCCCCAGAAGCTTTGTATTTAACCAGAAAAACCCACTTGCAGCCAATGCATTCCTTTCCAG
1 CACCTCCCCAAAAGCTTTGTATTTAACCAGAAAAACCCACTTGAAGCCAATGCATTCCTTGCCAG
761428 GAGGCAAAGAAACCACAATCCAAGTATTATTCAACTCCAGTGCTTGAATCTCTT
66 GAGGCAAAGAAACCACAATCCAAGTATTATTCAACTCCAGTGCTTGAATCTCTT
761482 ATGTCATTGC
Statistics
Matches: 112, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
126 112 1.00
ACGTcount: A:0.31, C:0.30, G:0.14, T:0.26
Consensus pattern (126 bp):
CACCTCCCCAAAAGCTTTGTATTTAACCAGAAAAACCCACTTGAAGCCAATGCATTCCTTGCCAG
GAGGCAAAGAAACCACAATCCAAGTATTATTCAACTCCAGTGCTTGAATCTCTTCTCTCCT
Found at i:769360 original size:2 final size:2
Alignment explanation
Indices: 769348--769405 Score: 107
Period size: 2 Copynumber: 29.0 Consensus size: 2
769338 AACAATTAAG
*
769348 AT AT CT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
769390 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
769406 TAAAAATCAA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:773696 original size:2 final size:2
Alignment explanation
Indices: 773683--773728 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
773673 TCAAATATGC
*
773683 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
773725 AT AT
1 AT AT
773729 TTTGTTCAAG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:774138 original size:12 final size:12
Alignment explanation
Indices: 774121--774145 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
774111 TAGTTAACGA
774121 CTATTTCTTCTT
1 CTATTTCTTCTT
774133 CTATTTCTTCTT
1 CTATTTCTTCTT
774145 C
1 C
774146 ACACATCCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.28, G:0.00, T:0.64
Consensus pattern (12 bp):
CTATTTCTTCTT
Found at i:775672 original size:23 final size:23
Alignment explanation
Indices: 775624--775674 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
775614 AAACATACCG
* *
775624 AAAATGTATCATAAAGACATAGA
1 AAAATGTATCATAAAAACATAAA
*
775647 AAAATTTATCATAGAAAAC-TAAA
1 AAAATGTATCATA-AAAACATAAA
775670 AAAAT
1 AAAAT
775675 AAAGGAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 20 0.83
24 4 0.17
ACGTcount: A:0.61, C:0.08, G:0.08, T:0.24
Consensus pattern (23 bp):
AAAATGTATCATAAAAACATAAA
Found at i:776453 original size:25 final size:26
Alignment explanation
Indices: 776398--776453 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
776388 CTTATATAAA
* *
776398 ATATATTTTTATTATACTTTTATTTT
1 ATATATTTTTATTATACTTTAAATTT
* *
776424 TTATA-TTTTATTATAGTTTAAATTT
1 ATATATTTTTATTATACTTTAAATTT
776449 ATATA
1 ATATA
776454 ATTCATATAT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
25 21 0.84
26 4 0.16
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (26 bp):
ATATATTTTTATTATACTTTAAATTT
Found at i:778296 original size:28 final size:28
Alignment explanation
Indices: 778241--778297 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
778231 ATTATTATAT
** *
778241 TTATAAAAAAACCCTAATTTATCTTAAA
1 TTATAAAAAAACCCTAATAAATCCTAAA
778269 TTATAAAAAAATCCCTAA-AAATCCTAAA
1 TTATAAAAAAA-CCCTAATAAATCCTAAA
778297 T
1 T
778298 CCCTAACCCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 19 0.76
29 6 0.24
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.32
Consensus pattern (28 bp):
TTATAAAAAAACCCTAATAAATCCTAAA
Found at i:782427 original size:14 final size:15
Alignment explanation
Indices: 782399--782427 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
782389 GCAAGGTACG
782399 AATCTGATCCTTTTT
1 AATCTGATCCTTTTT
782414 AATCTGAT-CTTTTT
1 AATCTGATCCTTTTT
782428 GCAATTTGGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.21, C:0.17, G:0.07, T:0.55
Consensus pattern (15 bp):
AATCTGATCCTTTTT
Found at i:783542 original size:43 final size:41
Alignment explanation
Indices: 783467--783581 Score: 139
Period size: 41 Copynumber: 2.8 Consensus size: 41
783457 TTATTAAATA
*
783467 ATTTTAAATAA-T-TTATAAGGTTATTTATTTTAAAATAA-TT
1 ATTTTAAATAATTATTATAA--ATATTTATTTTAAAATAATTT
783507 ATTTTAAAATAATTTATTATAAATAATTTATTTT-AAATAATTT
1 ATTTT-AAATAA-TTATTATAAAT-ATTTATTTTAAAATAATTT
*
783550 ATTTTAAATAATTATTATAAATATGTATTTTA
1 ATTTTAAATAATTATTATAAATATTTATTTTA
783582 TTATTTTAAA
Statistics
Matches: 66, Mismatches: 2, Indels: 13
0.81 0.02 0.16
Matches are distributed among these distances:
40 13 0.20
41 17 0.26
42 13 0.20
43 17 0.26
44 6 0.09
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (41 bp):
ATTTTAAATAATTATTATAAATATTTATTTTAAAATAATTT
Found at i:783544 original size:28 final size:27
Alignment explanation
Indices: 783489--783581 Score: 125
Period size: 28 Copynumber: 3.4 Consensus size: 27
783479 TTATAAGGTT
783489 ATTTATTTTAAAATAATTATTTTAAAATA
1 ATTTATTTT-AAATAATTATTTT-AAATA
*
783518 ATTTATTATAAATAATTTATTTTAAATA
1 ATTTATTTTAAATAA-TTATTTTAAATA
*
783546 ATTTATTTTAAATAATTATTATAAAT-
1 ATTTATTTTAAATAATTATTTTAAATA
*
783572 ATGTATTTTA
1 ATTTATTTTA
783582 TTATTTTAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
26 9 0.15
27 10 0.17
28 25 0.42
29 15 0.25
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (27 bp):
ATTTATTTTAAATAATTATTTTAAATA
Found at i:783578 original size:13 final size:14
Alignment explanation
Indices: 783489--783572 Score: 100
Period size: 14 Copynumber: 6.0 Consensus size: 14
783479 TTATAAGGTT
*
783489 ATTTATTTTAAAATA
1 ATTTATTAT-AAATA
*
783504 A-TTATTTTAAAATA
1 ATTTATTAT-AAATA
783518 ATTTATTATAAATA
1 ATTTATTATAAATA
*
783532 ATTTATTTTAAATA
1 ATTTATTATAAATA
*
783546 ATTTATTTTAAATA
1 ATTTATTATAAATA
783560 A-TTATTATAAATA
1 ATTTATTATAAATA
783573 TGTATTTTAT
Statistics
Matches: 65, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
13 11 0.17
14 47 0.72
15 7 0.11
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
ATTTATTATAAATA
Found at i:783600 original size:20 final size:21
Alignment explanation
Indices: 783560--783601 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
783550 ATTTTAAATA
783560 ATTATTATAAATATGTATTTT
1 ATTATTATAAATATGTATTTT
* *
783581 ATTATTTTAAA-ATTTATTTT
1 ATTATTATAAATATGTATTTT
783601 A
1 A
783602 ATAATTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
ATTATTATAAATATGTATTTT
Found at i:783611 original size:15 final size:12
Alignment explanation
Indices: 783489--783608 Score: 68
Period size: 14 Copynumber: 9.3 Consensus size: 12
783479 TTATAAGGTT
783489 ATTTATTTTAAA
1 ATTTATTTTAAA
783501 ATAATTATTTTAAAATA
1 AT--TTATTTT--AA-A
*
783518 ATTTATTATAAATA
1 ATTTATT-TTAA-A
783532 ATTTATTTTAAATA
1 ATTTATTTT-AA-A
783546 ATTTATTTTAAA
1 ATTTATTTTAAA
* *
783558 TAATTATTATAAA
1 -ATTTATTTTAAA
*
783571 TATGTATTTT---
1 -ATTTATTTTAAA
783581 A-TTATTTTAAA
1 ATTTATTTTAAA
783592 ATTTATTTTAATA
1 ATTTATTTTAA-A
783605 ATTT
1 ATTT
783609 TTAGTATGGA
Statistics
Matches: 87, Mismatches: 8, Indels: 25
0.73 0.07 0.21
Matches are distributed among these distances:
8 6 0.07
9 1 0.01
11 1 0.01
12 12 0.14
13 25 0.29
14 31 0.36
15 5 0.06
16 3 0.03
17 3 0.03
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (12 bp):
ATTTATTTTAAA
Found at i:783683 original size:41 final size:42
Alignment explanation
Indices: 783597--783718 Score: 118
Period size: 41 Copynumber: 3.0 Consensus size: 42
783587 TTAAAATTTA
* *
783597 TTTTAATAATTTTTAGTATGGATTGA-TTTTTAAAATATTTG-TT
1 TTTTAATAA-TATT-GTATGGATTGATTTTTTAAAATA-TGGATT
783640 TTTTAATAATATTGTATGGATTGATTTTTTAAAA-ATGGA-T
1 TTTTAATAATATTGTATGGATTGATTTTTTAAAATATGGATT
783680 TTTT-AT--TA--GTATGGATTGATTTATTTTAAAATATGGATT
1 TTTTAATAATATTGTATGGATTGA-TT-TTTTAAAATATGGATT
783719 AATTTATTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 16
0.80 0.02 0.18
Matches are distributed among these distances:
35 11 0.15
36 2 0.03
37 10 0.14
38 5 0.07
39 3 0.04
40 7 0.10
41 12 0.17
42 12 0.17
43 9 0.13
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (42 bp):
TTTTAATAATATTGTATGGATTGATTTTTTAAAATATGGATT
Found at i:783699 original size:35 final size:37
Alignment explanation
Indices: 783649--783718 Score: 110
Period size: 35 Copynumber: 1.9 Consensus size: 37
783639 TTTTTAATAA
783649 TATTGTATGGATTGA-TT-TTTTAAAA-ATGGATTTT
1 TATTGTATGGATTGATTTATTTTAAAATATGGATTTT
783683 TATTAGTATGGATTGATTTATTTTAAAATATGGATT
1 TATT-GTATGGATTGATTTATTTTAAAATATGGATT
783719 AATTTATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
34 4 0.12
35 11 0.34
36 2 0.06
37 8 0.25
38 7 0.22
ACGTcount: A:0.31, C:0.00, G:0.17, T:0.51
Consensus pattern (37 bp):
TATTGTATGGATTGATTTATTTTAAAATATGGATTTT
Found at i:783741 original size:22 final size:22
Alignment explanation
Indices: 783689--783731 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
783679 TTTTTATTAG
*
783689 TATGGATTGATTTATTTTAAAA
1 TATGGATTAATTTATTTTAAAA
783711 TATGGATTAATTTATTTTAAA
1 TATGGATTAATTTATTTTAAA
783732 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGGATTAATTTATTTTAAAA
Found at i:783813 original size:31 final size:31
Alignment explanation
Indices: 783755--783814 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
783745 TAGTTGTATG
* * **
783755 AATTATTTAAATTTTAATATTGTAAAACTAA
1 AATTATTTAAATATCAATATTACAAAACTAA
783786 AATTATTTAAATATCAATATTACAAAACT
1 AATTATTTAAATATCAATATTACAAAACT
783815 CTTTTAAGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.42
Consensus pattern (31 bp):
AATTATTTAAATATCAATATTACAAAACTAA
Found at i:786817 original size:21 final size:21
Alignment explanation
Indices: 786791--786884 Score: 116
Period size: 21 Copynumber: 4.5 Consensus size: 21
786781 GTCACCCTAG
** *
786791 ACTGTCATGTTAGTATTGTTA
1 ACTGTCACATTAGTATTGTGA
786812 ACTGTCACATTAGTATTGTGA
1 ACTGTCACATTAGTATTGTGA
* * *
786833 ATTGTCACATCAATATTGTGA
1 ACTGTCACATTAGTATTGTGA
* *
786854 ATTGTCACATCAGTATTGTGA
1 ACTGTCACATTAGTATTGTGA
786875 ACTGTCACAT
1 ACTGTCACAT
786885 CAACACTGTA
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 65 1.00
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (21 bp):
ACTGTCACATTAGTATTGTGA
Found at i:786885 original size:21 final size:21
Alignment explanation
Indices: 786802--786886 Score: 125
Period size: 21 Copynumber: 4.0 Consensus size: 21
786792 CTGTCATGTT
* *
786802 AGTATTGTTAACTGTCACATT
1 AGTATTGTGAACTGTCACATC
*
786823 AGTATTGTGAATTGTCACATC
1 AGTATTGTGAACTGTCACATC
* *
786844 AATATTGTGAATTGTCACATC
1 AGTATTGTGAACTGTCACATC
786865 AGTATTGTGAACTGTCACATC
1 AGTATTGTGAACTGTCACATC
786886 A
1 A
786887 ACACTGTAGA
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 58 1.00
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (21 bp):
AGTATTGTGAACTGTCACATC
Found at i:792356 original size:23 final size:24
Alignment explanation
Indices: 792303--792356 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
792293 CTCCCCCTTC
792303 TTCATCTGATTCAACACCCAAGTT
1 TTCATCTGATTCAACACCCAAGTT
792327 TTCATCTGATTCAACACCCAAG-T
1 TTCATCTGATTCAACACCCAAGTT
792350 TTCATCT
1 TTCATCT
792357 TTGCTTCAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 8 0.27
24 22 0.73
ACGTcount: A:0.28, C:0.30, G:0.07, T:0.35
Consensus pattern (24 bp):
TTCATCTGATTCAACACCCAAGTT
Found at i:797051 original size:38 final size:39
Alignment explanation
Indices: 797009--797105 Score: 128
Period size: 38 Copynumber: 2.5 Consensus size: 39
796999 TCAATTCCAG
*
797009 AATCCCTAATTTCCCATTTT-CATTTC-CCTCTCGCA-CTC
1 AATCCCTAA-TTCCCATTTTACAATTCTCCT-TCGCATCTC
*
797047 AATCCCTAATTCCCCTTTTACAATTCTCCTTCGCATCTC
1 AATCCCTAATTCCCATTTTACAATTCTCCTTCGCATCTC
797086 AATCCCTAATTCACCATTTT
1 AATCCCTAATTC-CCATTTT
797106 TCTCTTTGTT
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
37 9 0.17
38 19 0.37
39 18 0.35
40 6 0.12
ACGTcount: A:0.22, C:0.37, G:0.02, T:0.39
Consensus pattern (39 bp):
AATCCCTAATTCCCATTTTACAATTCTCCTTCGCATCTC
Found at i:803289 original size:37 final size:36
Alignment explanation
Indices: 803247--803340 Score: 109
Period size: 37 Copynumber: 2.6 Consensus size: 36
803237 TCAATTCCAG
803247 AATCCCTAATTCCCATTTTC-ATTCCCTCTCGCACCTC
1 AATCCCTAATTCCCATTTTCAATTCCC-CTCGCA-CTC
* * * * *
803284 AATCCCTAATTCCCCTTTCCAATTCTCCTCGTATTC
1 AATCCCTAATTCCCATTTTCAATTCCCCTCGCACTC
803320 AATCCCTAATTCACCATTTTC
1 AATCCCTAATTC-CCATTTTC
803341 TCTTCGTTTC
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
36 14 0.29
37 29 0.60
38 5 0.10
ACGTcount: A:0.21, C:0.39, G:0.02, T:0.37
Consensus pattern (36 bp):
AATCCCTAATTCCCATTTTCAATTCCCCTCGCACTC
Found at i:811146 original size:2 final size:2
Alignment explanation
Indices: 811139--811175 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
811129 TATTTTTGAA
811139 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
811176 TTTTGGTTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:822838 original size:26 final size:23
Alignment explanation
Indices: 822821--822866 Score: 69
Period size: 21 Copynumber: 2.0 Consensus size: 23
822811 ATTAATAAAT
822821 TTAATTTAAATTAA-ATA-TATA
1 TTAATTTAAATTAATATATTATA
822842 TTAATTTAAATTAATATATATATA
1 TTAATTTAAATTAATATAT-TATA
822866 T
1 T
822867 ATATATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 14 0.64
22 3 0.14
24 5 0.23
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
TTAATTTAAATTAATATATTATA
Found at i:822860 original size:2 final size:2
Alignment explanation
Indices: 822855--822917 Score: 76
Period size: 2 Copynumber: 32.5 Consensus size: 2
822845 ATTTAAATTA
*
822855 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
822896 AT TT A- AT TT AA AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
822918 CCCGGCCCAA
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
1 2 0.04
2 49 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:823090 original size:25 final size:25
Alignment explanation
Indices: 823043--823090 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
823033 ATCTCCGCGG
* *
823043 TTTTTAAACGGGGACGGATATGGAC
1 TTTTTAAACGGAGACGGAGATGGAC
*
823068 TTTTTAAACGGAGACGGGGATGG
1 TTTTTAAACGGAGACGGAGATGG
823091 GAGACCAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.27, C:0.10, G:0.35, T:0.27
Consensus pattern (25 bp):
TTTTTAAACGGAGACGGAGATGGAC
Found at i:823442 original size:14 final size:14
Alignment explanation
Indices: 823420--823450 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
823410 CATGTTTAAG
*
823420 TTTTTAAATAATTA
1 TTTTAAAATAATTA
823434 TTTTAAAATAATTA
1 TTTTAAAATAATTA
823448 TTT
1 TTT
823451 CAGTCATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
TTTTAAAATAATTA
Found at i:823602 original size:32 final size:32
Alignment explanation
Indices: 823566--823632 Score: 98
Period size: 32 Copynumber: 2.1 Consensus size: 32
823556 TTATAGTTCT
* *
823566 ATAGATTTTAATGATTGTTTTATAAAAATTTG
1 ATAGAATTTAATGATTATTTTATAAAAATTTG
**
823598 ATAGAATTTAATGATTATTTTATAACTATTTG
1 ATAGAATTTAATGATTATTTTATAAAAATTTG
823630 ATA
1 ATA
823633 CATGTGAGGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.39, C:0.01, G:0.10, T:0.49
Consensus pattern (32 bp):
ATAGAATTTAATGATTATTTTATAAAAATTTG
Found at i:824304 original size:59 final size:58
Alignment explanation
Indices: 824212--824381 Score: 225
Period size: 59 Copynumber: 2.9 Consensus size: 58
824202 GACAAAGGTA
* *
824212 GAAAATTTATGATGAGGATCAAGATA-AATTTTTTACTACCTTCGTCGATCTTTTAACTT
1 GAAAATTTATGTTGAGGATCAAGGTAGAA-TTTTT-CTACCTTCGTCGATCTTTTAACTT
* * * *
824271 GAAAATTTATGTTAATGATCAAGGTAGAATTTTTTTTACCTTCGTTGATCTTTTAACTT
1 GAAAATTTATGTTGAGGATCAAGGTAGAA-TTTTTCTACCTTCGTCGATCTTTTAACTT
* *
824330 GAAATTTTATGTTGAGGATCAAGGTAGAAAATTTTCTACCTTCGTCGATCTT
1 GAAAATTTATGTTGAGGATCAAGGTAG-AATTTTTCTACCTTCGTCGATCTT
824382 GTTCACTATA
Statistics
Matches: 97, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
59 87 0.90
60 10 0.10
ACGTcount: A:0.30, C:0.12, G:0.15, T:0.42
Consensus pattern (58 bp):
GAAAATTTATGTTGAGGATCAAGGTAGAATTTTTCTACCTTCGTCGATCTTTTAACTT
Found at i:827396 original size:24 final size:24
Alignment explanation
Indices: 827325--827396 Score: 62
Period size: 24 Copynumber: 3.0 Consensus size: 24
827315 TCTAAACCCC
827325 AAATTCCAAAGTAATTCAATTT--
1 AAATTCCAAAGTAATTCAATTTCA
* *
827347 -TATTCTAAATAGTAAATTC-ATGTTCA
1 AAATTC-CAA-AGT-AATTCAAT-TTCA
827373 AAATTCCAAAGTAATTCAATTTCA
1 AAATTCCAAAGTAATTCAATTTCA
827397 TTTTAAACCC
Statistics
Matches: 38, Mismatches: 4, Indels: 14
0.68 0.07 0.25
Matches are distributed among these distances:
21 4 0.11
22 2 0.05
23 5 0.13
24 16 0.42
25 5 0.13
26 2 0.05
27 4 0.11
ACGTcount: A:0.43, C:0.14, G:0.06, T:0.38
Consensus pattern (24 bp):
AAATTCCAAAGTAATTCAATTTCA
Found at i:827412 original size:35 final size:35
Alignment explanation
Indices: 827373--827447 Score: 114
Period size: 35 Copynumber: 2.1 Consensus size: 35
827363 TTCATGTTCA
* * *
827373 AAATTCCAAAGTAATTCAATTTCATTTTAAACCCT
1 AAATTCCAAAATAATTCAATTACATTCTAAACCCT
*
827408 AAATTCCAAAATAATTCAATTACATTCTAAACCTT
1 AAATTCCAAAATAATTCAATTACATTCTAAACCCT
827443 AAATT
1 AAATT
827448 GAAGTATTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.44, C:0.19, G:0.01, T:0.36
Consensus pattern (35 bp):
AAATTCCAAAATAATTCAATTACATTCTAAACCCT
Found at i:827468 original size:21 final size:21
Alignment explanation
Indices: 827444--827484 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
827434 CTAAACCTTA
827444 AATTGAAGTATTTTAGAATTC
1 AATTGAAGTATTTTAGAATTC
* *
827465 AATTGAATTATTTTGGAATT
1 AATTGAAGTATTTTAGAATT
827485 TAGGGTTTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.02, G:0.15, T:0.46
Consensus pattern (21 bp):
AATTGAAGTATTTTAGAATTC
Found at i:827504 original size:35 final size:35
Alignment explanation
Indices: 827455--827540 Score: 118
Period size: 35 Copynumber: 2.5 Consensus size: 35
827445 ATTGAAGTAT
** * *
827455 TTTAGAATTCAATTGAATTATTTTGGAATTTAGGG
1 TTTAGAATAAAATTGAATTACTTTAGAATTTAGGG
*
827490 TTTAGAATAAAATTGAATTACTTTAGAATTTGGGG
1 TTTAGAATAAAATTGAATTACTTTAGAATTTAGGG
*
827525 TTTAGAATGAAATTGA
1 TTTAGAATAAAATTGA
827541 GGGCTGTTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 45 1.00
ACGTcount: A:0.36, C:0.02, G:0.20, T:0.42
Consensus pattern (35 bp):
TTTAGAATAAAATTGAATTACTTTAGAATTTAGGG
Found at i:828478 original size:37 final size:34
Alignment explanation
Indices: 828412--828509 Score: 106
Period size: 37 Copynumber: 2.8 Consensus size: 34
828402 ACCAACCCCG
* ***
828412 TTAATAAAAATTTTATAAAAATTTTAAAAGAGTA
1 TTAATAAAAATTTTAAAAAAATAAAAAAAGAGTA
* *
828446 TATACTTATAAAATTTTAAAAAAATAAAAAAAGATTA
1 T-TA-ATA-AAAATTTTAAAAAAATAAAAAAAGAGTA
*
828483 TTAATAAAAATATTAAAAAAATAAAAA
1 TTAATAAAAATTTTAAAAAAATAAAAA
828510 TTTAAATGAG
Statistics
Matches: 53, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
34 21 0.40
35 4 0.08
36 4 0.08
37 24 0.45
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (34 bp):
TTAATAAAAATTTTAAAAAAATAAAAAAAGAGTA
Found at i:828498 original size:12 final size:11
Alignment explanation
Indices: 828455--828505 Score: 52
Period size: 11 Copynumber: 4.5 Consensus size: 11
828445 ATATACTTAT
*
828455 AAAATTTTAAA
1 AAAATATTAAA
828466 AAAATA--AAA
1 AAAATATTAAA
828475 AAAGATTATTAATA
1 AAA-A-TATTAA-A
828489 AAAATATTAAA
1 AAAATATTAAA
828500 AAAATA
1 AAAATA
828506 AAAATTTAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
9 6 0.18
10 1 0.03
11 14 0.41
12 6 0.18
13 3 0.09
14 4 0.12
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (11 bp):
AAAATATTAAA
Found at i:828831 original size:21 final size:21
Alignment explanation
Indices: 828807--828846 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
828797 ATATAATATT
* *
828807 TAAAATATATTTACACTTATA
1 TAAAATATATATAAACTTATA
828828 TAAAATATATATAAACTTA
1 TAAAATATATATAAACTTA
828847 AACTATAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAAATATATATAAACTTATA
Found at i:833442 original size:20 final size:19
Alignment explanation
Indices: 833419--833465 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
833409 CGATATACCA
833419 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
833439 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
833459 GGTAAAA
1 GGTAAAA
833466 CGTTACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:833583 original size:181 final size:181
Alignment explanation
Indices: 833208--833679 Score: 730
Period size: 181 Copynumber: 2.6 Consensus size: 181
833198 GATCCAAATT
* * * **
833208 AAAAATGTGTCGATCCAAAACGATATAACAGGTAAAACTATGACAAAACCGGTATTGAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* * * * *
833273 AAACCGGTAAAGCGCTACCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTTC
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
* * *
833338 GTGAATTTAAAAGAGAATCAGTTTTAAATCCTATAAAGTGTCGATACTTTT
131 GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTA
*
833389 AAAAATGTATCGATCCAAAACGATATACCAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* *
833454 AAACCGGTAAAACGTTACCGGATATATTGAAAGTGTCGATACTTT-ATATAAGGATCGACACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
** *
833518 GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAATGTGTCGATACTTTAA
131 GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTT-A
* * *
833570 AAAAATATATCGATCCACAACGATATAACAAGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
833635 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
833680 CGTAAGTACG
Statistics
Matches: 267, Mismatches: 23, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
180 63 0.24
181 204 0.76
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (181 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTA
Found at i:833651 original size:17 final size:19
Alignment explanation
Indices: 833611--833651 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
833601 GTAAAAATAT
*
833611 GATAAAACCGGTATCAAAAT
1 GATAAAACCGG-ATCAAAAC
833631 GATAAAACCGG-T-AAAAC
1 GATAAAACCGGATCAAAAC
833648 GATA
1 GATA
833652 CCGGATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 8 0.40
18 1 0.05
20 11 0.55
ACGTcount: A:0.51, C:0.15, G:0.17, T:0.17
Consensus pattern (19 bp):
GATAAAACCGGATCAAAAC
Found at i:835893 original size:21 final size:21
Alignment explanation
Indices: 835867--835931 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
835857 AAGACAATCA
*
835867 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
835888 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
835909 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
835930 AG
1 AG
835932 GCATAAGGGG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.42, C:0.11, G:0.31, T:0.17
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:836007 original size:33 final size:33
Alignment explanation
Indices: 835965--836030 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
835955 AAATAGATGG
*
835965 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
835998 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
836031 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:837237 original size:4 final size:4
Alignment explanation
Indices: 837228--837255 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
837218 AAGAGATTGA
837228 TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG
837256 AAAGGACATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:837859 original size:19 final size:19
Alignment explanation
Indices: 837835--837883 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
837825 ATTGTAGGGT
837835 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
837854 TAATTTTGTATATGATTTA
1 TAATTTTGTATAAGATTTA
837873 TAATTTTGTAT
1 TAATTTTGTAT
837884 GTGAATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:837894 original size:18 final size:19
Alignment explanation
Indices: 837835--837895 Score: 79
Period size: 19 Copynumber: 3.3 Consensus size: 19
837825 ATTGTAGGGT
* *
837835 TAATTTTGTATAAGATTTA
1 TAATTTTGTATATGATATA
*
837854 TAATTTTGTATATGATTTA
1 TAATTTTGTATATGATATA
*
837873 TAATTTTGTATGTGA-ATA
1 TAATTTTGTATATGATATA
837891 TAATT
1 TAATT
837896 ATGAATGAGA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
18 7 0.18
19 32 0.82
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.54
Consensus pattern (19 bp):
TAATTTTGTATATGATATA
Found at i:839080 original size:200 final size:200
Alignment explanation
Indices: 838117--839056 Score: 1639
Period size: 200 Copynumber: 4.7 Consensus size: 200
838107 AATTTACAAT
* *
838117 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAA
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* * *
838182 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAATCGGTACAGGTATACCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
838247 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTTGTAGTTTGTGTCGATATTTTTGGTCCA
131 ATGAGAGAATAGGTCTAAATAATGTATCGACAC-TTTTGTAGTTTGTGTCGATATTTTTGGTCCA
838312 GAATGA
195 GAATGA
* *
838318 ATGGAAAACAGGGTGCAACAATAAAGTGTCGATCCATATA-AAAAAGTGTCGATCCGATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* *
838382 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCTGTACAGGTATACCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
*
838447 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAT
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
838512 AATGA
196 AATGA
*
838517 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGGGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* *
838582 CGAAATCCATAAGTATAATGTAATTGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
* *
838647 ATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
838712 AATGA
196 AATGA
*
838717 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATTTATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
*
838782 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACTGGTACAAGTATACCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
*
838847 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
838912 AATGA
196 AATGA
*
838917 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* * * * *
838982 CGAAACCCAAAAGTATAATGTATTAGGTAATTTTTTAATCTAACCGGTATAAGTATACCTGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
*
839047 ATGGGAGAAT
131 ATGAGAGAAT
839057 TGTTATATAA
Statistics
Matches: 705, Mismatches: 33, Indels: 3
0.95 0.04 0.00
Matches are distributed among these distances:
199 75 0.11
200 592 0.84
201 38 0.05
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (200 bp):
ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
AATGA
Found at i:841824 original size:43 final size:42
Alignment explanation
Indices: 841763--841848 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 42
841753 ATGATGAGTT
*
841763 TGGAATACAATGAATAGTCAAGTGATCGTTTTGCAACTTTTAA
1 TGGAACACAATGAATAGTCAAGTGATCG-TTTGCAACTTTTAA
*
841806 TGGAACACAATGAATAGTCGAGTGATCGTTTGCAACTTTTAA
1 TGGAACACAATGAATAGTCAAGTGATCGTTTGCAACTTTTAA
841848 T
1 T
841849 AGTCGGGGAC
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
42 15 0.37
43 26 0.63
ACGTcount: A:0.34, C:0.13, G:0.20, T:0.34
Consensus pattern (42 bp):
TGGAACACAATGAATAGTCAAGTGATCGTTTGCAACTTTTAA
Found at i:842198 original size:18 final size:18
Alignment explanation
Indices: 842172--842206 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
842162 CTTTCACACC
842172 ACACACACATATATATAA
1 ACACACACATATATATAA
*
842190 ACACGCACATATATATA
1 ACACACACATATATATA
842207 TATATCATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.51, C:0.23, G:0.03, T:0.23
Consensus pattern (18 bp):
ACACACACATATATATAA
Found at i:843911 original size:56 final size:56
Alignment explanation
Indices: 843817--843931 Score: 149
Period size: 56 Copynumber: 2.1 Consensus size: 56
843807 TCACTCACTA
* * * * *
843817 TTAACAATCATTACTGGAGTAACAAAATATTGACATGACATGTTAAACCAATTGAC
1 TTAACAATCATTACTGCAATAACAAAATACTGAAATGACACGTTAAACCAATTGAC
* * * *
843873 TTAACAATCATTATTGCAATAACAGAATGCTGAAATGACACGTTAAACTAATTGAC
1 TTAACAATCATTACTGCAATAACAAAATACTGAAATGACACGTTAAACCAATTGAC
843929 TTA
1 TTA
843932 GCATGTTTGA
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
56 50 1.00
ACGTcount: A:0.43, C:0.16, G:0.12, T:0.30
Consensus pattern (56 bp):
TTAACAATCATTACTGCAATAACAAAATACTGAAATGACACGTTAAACCAATTGAC
Found at i:844121 original size:164 final size:164
Alignment explanation
Indices: 843847--844145 Score: 472
Period size: 164 Copynumber: 1.8 Consensus size: 164
843837 AACAAAATAT
* * *
843847 TGACATGACATGTTAAACCAATTGACTTAACAATCATTATTGCAATAACAGAATGCTGAAATGAC
1 TGACATGACACGTTAAACCAATTGACTTAACAACCATTACTGCAATAACAGAATGCTGAAATGAC
843912 ACGTTAAACTAATTGACTTAGCATGTTTGACCATGTAGAACCAAACTACTTAAGAAGAAGAAGAA
66 ACGTTAAACTAATTGACTTAGCATGTTTGACCATGTAGAACCAAACTACTTAAGAAGAAGAAGAA
843977 CAAGAACAAGAAGATTATTGCAGCAACAGAATGC
131 CAAGAACAAGAAGATTATTGCAGCAACAGAATGC
* * * * * * *
844011 TGACATGACACGTTAAATCAGTTGATTTAACAACCATTACTGCAGTAATAGAATGTTGAAATGGC
1 TGACATGACACGTTAAACCAATTGACTTAACAACCATTACTGCAATAACAGAATGCTGAAATGAC
* * *
844076 ACGTTAAACTAATTGACTTAGCATGTTTTACCATGTGGGACCAAACTACTTAAGAAGAAGAAGAA
66 ACGTTAAACTAATTGACTTAGCATGTTTGACCATGTAGAACCAAACTACTTAAGAAGAAGAAGAA
*
844141 GAAGA
131 CAAGA
844146 GTCAACATGT
Statistics
Matches: 121, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
164 121 1.00
ACGTcount: A:0.41, C:0.16, G:0.18, T:0.25
Consensus pattern (164 bp):
TGACATGACACGTTAAACCAATTGACTTAACAACCATTACTGCAATAACAGAATGCTGAAATGAC
ACGTTAAACTAATTGACTTAGCATGTTTGACCATGTAGAACCAAACTACTTAAGAAGAAGAAGAA
CAAGAACAAGAAGATTATTGCAGCAACAGAATGC
Found at i:854714 original size:15 final size:15
Alignment explanation
Indices: 854690--854790 Score: 96
Period size: 15 Copynumber: 6.8 Consensus size: 15
854680 GGTTTTCTGA
854690 AAAATGAATTACTGG
1 AAAATGAATTACTGG
** *
854705 AATTTGAATTATTGG
1 AAAATGAATTACTGG
854720 AAAATGAATTACTGG
1 AAAATGAATTACTGG
** ** *
854735 AATTTGGTTTTCTGG
1 AAAATGAATTACTGG
*
854750 AAAATGAATTACTGT
1 AAAATGAATTACTGG
**
854765 AATTTGAATT-CTGG
1 AAAATGAATTACTGG
854779 AAAATGAATTAC
1 AAAATGAATTAC
854791 ATTTCTGGAA
Statistics
Matches: 63, Mismatches: 22, Indels: 2
0.72 0.25 0.02
Matches are distributed among these distances:
14 11 0.17
15 52 0.83
ACGTcount: A:0.39, C:0.06, G:0.19, T:0.37
Consensus pattern (15 bp):
AAAATGAATTACTGG
Found at i:854724 original size:30 final size:29
Alignment explanation
Indices: 854690--854790 Score: 148
Period size: 30 Copynumber: 3.4 Consensus size: 29
854680 GGTTTTCTGA
854690 AAAATGAATTACTGGAATTTGAATTATTGG
1 AAAATGAATTACTGGAATTTGAATT-TTGG
**
854720 AAAATGAATTACTGGAATTTGGTTTTCTGG
1 AAAATGAATTACTGGAATTTGAATTT-TGG
* *
854750 AAAATGAATTACTGTAATTTGAATTCTGG
1 AAAATGAATTACTGGAATTTGAATTTTGG
854779 AAAATGAATTAC
1 AAAATGAATTAC
854791 ATTTCTGGAA
Statistics
Matches: 64, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
29 16 0.25
30 48 0.75
ACGTcount: A:0.39, C:0.06, G:0.19, T:0.37
Consensus pattern (29 bp):
AAAATGAATTACTGGAATTTGAATTTTGG
Found at i:854746 original size:60 final size:59
Alignment explanation
Indices: 854678--854790 Score: 190
Period size: 60 Copynumber: 1.9 Consensus size: 59
854668 TTTGTTGTAA
*
854678 TTGGTTTTCTGAAAAATGAATTACTGGAATTTGAATTATTGGAAAATGAATTACTGGAAT
1 TTGGTTTTCTGAAAAATGAATTACTGGAATTTGAATT-CTGGAAAATGAATTACTGGAAT
* *
854738 TTGGTTTTCTGGAAAATGAATTACTGTAATTTGAATTCTGGAAAATGAATTAC
1 TTGGTTTTCTGAAAAATGAATTACTGGAATTTGAATTCTGGAAAATGAATTAC
854791 ATTTCTGGAA
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
59 15 0.30
60 35 0.70
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.39
Consensus pattern (59 bp):
TTGGTTTTCTGAAAAATGAATTACTGGAATTTGAATTCTGGAAAATGAATTACTGGAAT
Found at i:855091 original size:33 final size:32
Alignment explanation
Indices: 855032--855095 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
855022 TATTAAATAT
*
855032 TATTTTTATAGTTTTATTAATAAAAATATTAA
1 TATTTGTATAGTTTTATTAATAAAAATATTAA
855064 TATTTGTATA-TTTTAGTTAAATAAAAATATTA
1 TATTTGTATAGTTTTA-TT-AATAAAAATATTA
855096 TAAATTATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 5 0.17
32 11 0.38
33 13 0.45
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.52
Consensus pattern (32 bp):
TATTTGTATAGTTTTATTAATAAAAATATTAA
Found at i:855303 original size:23 final size:23
Alignment explanation
Indices: 855277--855327 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
855267 TTAAAATAAA
*
855277 AATATAATATCTTATATTATTAT
1 AATATAATATATTATATTATTAT
* *
855300 AATATAATTTATTATTTTATTAT
1 AATATAATATATTATATTATTAT
855323 AATAT
1 AATAT
855328 TAAAAAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (23 bp):
AATATAATATATTATATTATTAT
Found at i:855312 original size:18 final size:18
Alignment explanation
Indices: 855291--855325 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
855281 TAATATCTTA
855291 TATTATTATAATATAATT
1 TATTATTATAATATAATT
* *
855309 TATTATTTTATTATAAT
1 TATTATTATAATATAAT
855326 ATTAAAAAAA
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TATTATTATAATATAATT
Found at i:855369 original size:24 final size:23
Alignment explanation
Indices: 855342--855433 Score: 73
Period size: 24 Copynumber: 3.8 Consensus size: 23
855332 AAAATAATAT
855342 TATATTCTTATAAATATTAATAAA
1 TATATT-TTATAAATATTAATAAA
* *
855366 TATATTTTA-AATATTTTAATAAT
1 TATATTTTATAA-ATATTAATAAA
855389 TAATATTTTGATGAAA-ATTATATTAAA
1 T-ATATTTT-AT-AAATATTA-A-TAAA
*
855416 -ATATTTTATTAATATTAA
1 TATATTTTATAAATATTAA
855434 ATTCATAAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 17
0.71 0.06 0.22
Matches are distributed among these distances:
22 2 0.04
23 16 0.29
24 19 0.35
25 11 0.20
26 2 0.04
27 5 0.09
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.50
Consensus pattern (23 bp):
TATATTTTATAAATATTAATAAA
Found at i:855669 original size:42 final size:42
Alignment explanation
Indices: 855604--855684 Score: 126
Period size: 42 Copynumber: 1.9 Consensus size: 42
855594 CAAATACTGG
* * *
855604 AAAATATTTTTCGGAAAATGAATTACGTGAAACAAACACAAA
1 AAAATATTTTTCGAAAAACGAATTACATGAAACAAACACAAA
*
855646 AAAATATTTTTCGAAAAACGAATTACATTAAACAAACAC
1 AAAATATTTTTCGAAAAACGAATTACATGAAACAAACAC
855685 GAGATTTCGA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.53, C:0.14, G:0.09, T:0.25
Consensus pattern (42 bp):
AAAATATTTTTCGAAAAACGAATTACATGAAACAAACACAAA
Found at i:858925 original size:58 final size:59
Alignment explanation
Indices: 858810--858938 Score: 163
Period size: 58 Copynumber: 2.2 Consensus size: 59
858800 TTTCAATGTT
* ** *
858810 ATCCCTAAACTATGACTCTAATTTTAAACTAGTCTCAAACTTTTGAATATTATAATTTC
1 ATCCCTAAACTATGACTCTAATTCTAAACTAGAATCAAACTTTTGAATATTACAATTTC
* * * *
858869 ATCCCTAAACTATGACTCTCATTCTCAATTA-AATCAAACTTTTGAATATTCCAATTTC
1 ATCCCTAAACTATGACTCTAATTCTAAACTAGAATCAAACTTTTGAATATTACAATTTC
*
858927 ATCTC-AAACTAT
1 ATCCCTAAACTAT
858939 CAACATATGT
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
57 7 0.11
58 27 0.44
59 27 0.44
ACGTcount: A:0.36, C:0.22, G:0.04, T:0.39
Consensus pattern (59 bp):
ATCCCTAAACTATGACTCTAATTCTAAACTAGAATCAAACTTTTGAATATTACAATTTC
Found at i:864540 original size:16 final size:16
Alignment explanation
Indices: 864510--864540 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
864500 TTTGGTTCAT
*
864510 GTTGATTTCGGTTTGA
1 GTTGATTTCGATTTGA
864526 GTTGATTTCGATTTG
1 GTTGATTTCGATTTG
864541 TATTATTTTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.13, C:0.06, G:0.29, T:0.52
Consensus pattern (16 bp):
GTTGATTTCGATTTGA
Found at i:867372 original size:113 final size:114
Alignment explanation
Indices: 867165--867389 Score: 398
Period size: 113 Copynumber: 2.0 Consensus size: 114
867155 GTAGATGTGG
867165 GGCAGACGGATGCAGAACGGATAAGGTCTAAATCCATCACCTACTCACTCACTACCCACAGTAAG
1 GGCAGACGGATGCAGAACGGATAAGGTCTAAATCCATCACCTACTCACTCACTACCCACAGTAAG
* *
867230 TATGACTTTTTACATCCATATCCGTCCACTATCT-CTAAACTTATATCC
66 TATGACTTTTTACATCCATACCCGCCCACTATCTACTAAACTTATATCC
* *
867278 GGCAGACGGATGCAGAGCGGATAAGGTCTAAATCCATCACCTACTCACTCTCTACCCACAGTAAG
1 GGCAGACGGATGCAGAACGGATAAGGTCTAAATCCATCACCTACTCACTCACTACCCACAGTAAG
*
867343 TATGATTTTTTACATCCATACCCGCCCACTATCTACTAAACTTATAT
66 TATGACTTTTTACATCCATACCCGCCCACTATCTACTAAACTTATAT
867390 ATATTCCCGC
Statistics
Matches: 106, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
113 94 0.89
114 12 0.11
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.27
Consensus pattern (114 bp):
GGCAGACGGATGCAGAACGGATAAGGTCTAAATCCATCACCTACTCACTCACTACCCACAGTAAG
TATGACTTTTTACATCCATACCCGCCCACTATCTACTAAACTTATATCC
Found at i:867831 original size:39 final size:41
Alignment explanation
Indices: 867750--867835 Score: 104
Period size: 40 Copynumber: 2.1 Consensus size: 41
867740 CTCGACTCGA
*
867750 TCGGGTCAGATTTTTTTTTTAAAATACGGATTCAGGTAGGG
1 TCGGGTCAGATTTTTTTTTTAAAACACGGATTCAGGTAGGG
* * * * *
867791 TCGGGTC-GGTTTTTTTTTTAAAGCACTG-TTCGGGTTGGG
1 TCGGGTCAGATTTTTTTTTTAAAACACGGATTCAGGTAGGG
867830 TCGGGT
1 TCGGGT
867836 TTAGGGTGAA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
39 15 0.38
40 17 0.44
41 7 0.18
ACGTcount: A:0.16, C:0.12, G:0.31, T:0.41
Consensus pattern (41 bp):
TCGGGTCAGATTTTTTTTTTAAAACACGGATTCAGGTAGGG
Found at i:868912 original size:30 final size:30
Alignment explanation
Indices: 868857--868956 Score: 121
Period size: 30 Copynumber: 3.3 Consensus size: 30
868847 CTTATTGGAG
* *
868857 TATTTAAAG-TATTTCTTAGTTAAAATAAA
1 TATTTAAAGTTATTTTTTAGTTAAAATAGA
* * *
868886 TATTTAAAGTTATTTTTTGGTCAAAATAGG
1 TATTTAAAGTTATTTTTTAGTTAAAATAGA
*
868916 TATTTAAAATTATCTTTTTAGTTAAAATAGA
1 TATTTAAAGTTAT-TTTTTAGTTAAAATAGA
*
868947 TACTTAAAGT
1 TATTTAAAGT
868957 ATCCAATTTT
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
29 9 0.16
30 27 0.47
31 22 0.38
ACGTcount: A:0.40, C:0.04, G:0.10, T:0.46
Consensus pattern (30 bp):
TATTTAAAGTTATTTTTTAGTTAAAATAGA
Found at i:880158 original size:15 final size:15
Alignment explanation
Indices: 880138--880168 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
880128 CGCATCTGCA
880138 CCGCATCCACCCGCC
1 CCGCATCCACCCGCC
*
880153 CCGCATCCGCCCGCC
1 CCGCATCCACCCGCC
880168 C
1 C
880169 AACTAATATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.10, C:0.68, G:0.16, T:0.06
Consensus pattern (15 bp):
CCGCATCCACCCGCC
Found at i:883710 original size:22 final size:22
Alignment explanation
Indices: 883655--883732 Score: 104
Period size: 22 Copynumber: 3.5 Consensus size: 22
883645 ATATTGCAAC
*
883655 AAAACGTGCTACAAGAGTAGA-
1 AAAACGTGCTACAAGAGCAGAG
**
883676 AAGAAGCGTGCTACGGGAGCAGAG
1 AA-AA-CGTGCTACAAGAGCAGAG
883700 AAAACGTGCTACAAGAGCAGAG
1 AAAACGTGCTACAAGAGCAGAG
883722 AAAACGTGCTA
1 AAAACGTGCTA
883733 ACATTCTTGT
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
21 2 0.04
22 29 0.59
23 16 0.33
24 2 0.04
ACGTcount: A:0.42, C:0.17, G:0.29, T:0.12
Consensus pattern (22 bp):
AAAACGTGCTACAAGAGCAGAG
Found at i:893058 original size:2 final size:2
Alignment explanation
Indices: 893051--893075 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
893041 TAAAAATGAT
893051 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
893076 CGGGTCGGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:893480 original size:20 final size:20
Alignment explanation
Indices: 893457--893495 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
893447 TACATGTTTT
893457 TATATATTTT-TTATTAAAAA
1 TATAT-TTTTATTATTAAAAA
*
893477 TATATTTTTATTGTTAAAA
1 TATATTTTTATTATTAAAA
893496 TTTTATAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (20 bp):
TATATTTTTATTATTAAAAA
Found at i:896410 original size:43 final size:43
Alignment explanation
Indices: 896334--896473 Score: 208
Period size: 43 Copynumber: 3.2 Consensus size: 43
896324 GCTAAAGTTC
* *
896334 GCGGCGTTTGGTAACAAAAAACGCCGCAATAGGTGTTGATATTTA
1 GCGGCGTTT-G-ACCAACAAACGCCGCAATAGGTGTTGATATTTA
*
896379 GCGGCGTTTGACCAACAAACACCGCAATAGGTGTTGATATTTA
1 GCGGCGTTTGACCAACAAACGCCGCAATAGGTGTTGATATTTA
** *
896422 GCGGCGTTTTTCCAACAAACGCCGCAATAGGTGTTGAGATTTA
1 GCGGCGTTTGACCAACAAACGCCGCAATAGGTGTTGATATTTA
896465 GCGGCGTTT
1 GCGGCGTTT
896474 TTTCCACAAA
Statistics
Matches: 88, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
43 78 0.89
44 1 0.01
45 9 0.10
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.27
Consensus pattern (43 bp):
GCGGCGTTTGACCAACAAACGCCGCAATAGGTGTTGATATTTA
Found at i:896474 original size:43 final size:43
Alignment explanation
Indices: 896352--896489 Score: 224
Period size: 43 Copynumber: 3.2 Consensus size: 43
896342 TGGTAACAAA
**
896352 AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGACCAAC
1 AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCCAAC
*
896395 AAACACCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCCAAC
1 AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCCAAC
*
896438 AAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTTCC-AC
1 AAACGCCGCAATAGGTGTTGATATTTAGCGGCG-TTTTTCCAAC
896481 AAACGCCGC
1 AAACGCCGC
896490 TAAATGTTAA
Statistics
Matches: 89, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
43 82 0.92
44 7 0.08
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (43 bp):
AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCCAAC
Found at i:900213 original size:21 final size:22
Alignment explanation
Indices: 900189--900233 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
900179 ACATTTAAAC
*
900189 AATTAACTCA-TTTATTTTTTA
1 AATTAACTAATTTTATTTTTTA
900210 AATTAACTAATTTTATTTTTTA
1 AATTAACTAATTTTATTTTTTA
900232 AA
1 AA
900234 AATAGTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.56
Consensus pattern (22 bp):
AATTAACTAATTTTATTTTTTA
Found at i:913854 original size:16 final size:16
Alignment explanation
Indices: 913820--913862 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
913810 GAGAGTATAA
* *
913820 TAGTCCTTC-AGGACT
1 TAGTCCTTCGGGGACG
913835 TAGTCCTTCGGGGACG
1 TAGTCCTTCGGGGACG
913851 TAGTCCTTCGGG
1 TAGTCCTTCGGG
913863 ATGTAGGAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 9 0.36
16 16 0.64
ACGTcount: A:0.14, C:0.26, G:0.30, T:0.30
Consensus pattern (16 bp):
TAGTCCTTCGGGGACG
Found at i:913868 original size:15 final size:15
Alignment explanation
Indices: 913820--913868 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
913810 GAGAGTATAA
*
913820 TAGTCCTTCAGGACT-
1 TAGTCCTTCGGGA-TG
*
913835 TAGTCCTTCGGGGACG
1 TAGTCCTTC-GGGATG
913851 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
913866 TAG
1 TAG
913869 GAGTCCTACG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 17 0.59
16 12 0.41
ACGTcount: A:0.16, C:0.22, G:0.31, T:0.31
Consensus pattern (15 bp):
TAGTCCTTCGGGATG
Found at i:915171 original size:16 final size:16
Alignment explanation
Indices: 915146--915178 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
915136 CTTTTAATTA
915146 ATGTGCTACTCAAGTG
1 ATGTGCTACTCAAGTG
*
915162 ATGTGTTACTCAAGTG
1 ATGTGCTACTCAAGTG
915178 A
1 A
915179 AAATTAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.33
Consensus pattern (16 bp):
ATGTGCTACTCAAGTG
Found at i:920956 original size:33 final size:33
Alignment explanation
Indices: 920914--920980 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
920904 GAGAAAAGTG
*
920914 AAATGTGTACAATTTGATTACAAGTGGTTACTT
1 AAATGTGTACAATTTGATTACAAGTGGATACTT
920947 AAATGTGTACAATTTGATTACAAGTGGATACTT
1 AAATGTGTACAATTTGATTACAAGTGGATACTT
920980 A
1 A
920981 GTTACATTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.37
Consensus pattern (33 bp):
AAATGTGTACAATTTGATTACAAGTGGATACTT
Found at i:923477 original size:31 final size:31
Alignment explanation
Indices: 923439--923520 Score: 110
Period size: 31 Copynumber: 2.6 Consensus size: 31
923429 ATAGCAGGCC
** **
923439 ATATTGCGCCTGTAGCAGGTGCTATTGGGGG
1 ATATTGCGGGTGTAGCAGGTGCTATTGGACG
*
923470 ATATTGCGGGTGTAGCGGGTGCTATTGGACG
1 ATATTGCGGGTGTAGCAGGTGCTATTGGACG
*
923501 CTATTGCGGGTGTAGCAGGT
1 ATATTGCGGGTGTAGCAGGT
923521 ATATCGGAAG
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.16, C:0.15, G:0.40, T:0.29
Consensus pattern (31 bp):
ATATTGCGGGTGTAGCAGGTGCTATTGGACG
Found at i:927541 original size:60 final size:60
Alignment explanation
Indices: 927444--927564 Score: 163
Period size: 60 Copynumber: 2.0 Consensus size: 60
927434 GAATATAAGT
* * *
927444 ATAGTTTGAGATTAAATTGGAATGCTCAAAAAGTTTAAGGACCAATTTAGAAAGAGAGTC
1 ATAGTTTGAGATGAAATTGAAATGCTCAAAAAGTTTAAGGACCAATTTAGAAAGACAGTC
* * * *
927504 ATAGTTTAGGGATGAAATTGAAATGTTCAAAAA-TTTAAGGACTAATTTAGAATGACAGTC
1 ATAGTTT-GAGATGAAATTGAAATGCTCAAAAAGTTTAAGGACCAATTTAGAAAGACAGTC
927564 A
1 A
927565 CAGATAAAGA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
60 32 0.60
61 21 0.40
ACGTcount: A:0.42, C:0.07, G:0.21, T:0.30
Consensus pattern (60 bp):
ATAGTTTGAGATGAAATTGAAATGCTCAAAAAGTTTAAGGACCAATTTAGAAAGACAGTC
Found at i:933126 original size:49 final size:49
Alignment explanation
Indices: 933050--933150 Score: 148
Period size: 49 Copynumber: 2.1 Consensus size: 49
933040 GTTCAATCGT
* * * * *
933050 ATTAGTCGACCGAAGCTTGAAGGTGAAGTCGAATTCGACCTACCGATAA
1 ATTAGTAGACCGAACCTAGAAGATGAAGTCGAAGTCGACCTACCGATAA
*
933099 ATTAGTAGACCGAACCTAGAAGATGAAGTTGAAGTCGACCTACCGATAA
1 ATTAGTAGACCGAACCTAGAAGATGAAGTCGAAGTCGACCTACCGATAA
933148 ATT
1 ATT
933151 CCTTACAATC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.23
Consensus pattern (49 bp):
ATTAGTAGACCGAACCTAGAAGATGAAGTCGAAGTCGACCTACCGATAA
Found at i:936126 original size:60 final size:60
Alignment explanation
Indices: 936058--936243 Score: 205
Period size: 60 Copynumber: 3.1 Consensus size: 60
936048 ATCATATGTA
* * *
936058 CCCAAACTATAACTCTCATTTTAAATTGGTATTAAAACTTTTGAATATTCTAATTTCATC
1 CCCAAACTATGACTCTCATTTTAAATTAGTCTTAAAACTTTTGAATATTCTAATTTCATC
* * * * *
936118 CCCAAACTATGAGTCTCATTTTGAATTAGTCCTTAAAA-TTTTGAAAAATCTAATGTCATC
1 CCCAAACTATGACTCTCATTTTAAATTAGT-CTTAAAACTTTTGAATATTCTAATTTCATC
* * * ** *
936178 CCTACACTATGACCCTC-TTTCTAAATTAGTCCCAAAACTTTTGAATATTCCAATTTCATC
1 CCCAAACTATGACTCTCATTT-TAAATTAGTCTTAAAACTTTTGAATATTCTAATTTCATC
*
936238 ACCAAA
1 CCCAAA
936244 TTCATCCAAA
Statistics
Matches: 101, Mismatches: 22, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
59 8 0.08
60 87 0.86
61 6 0.06
ACGTcount: A:0.34, C:0.22, G:0.06, T:0.37
Consensus pattern (60 bp):
CCCAAACTATGACTCTCATTTTAAATTAGTCTTAAAACTTTTGAATATTCTAATTTCATC
Found at i:938484 original size:63 final size:63
Alignment explanation
Indices: 938411--938531 Score: 181
Period size: 63 Copynumber: 1.9 Consensus size: 63
938401 TAAAACATCT
* * *
938411 TAAATCCTAATTAAAACACTTAAAA-TTATTTAAACTAAGATACTTAAAAAAAATATAATATTC
1 TAAATCCTAATTAAAACAC-TAAAACCTATTTAAACTAAAATACCTAAAAAAAATATAATATTC
* *
938474 TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAATATAA
1 TAAATCCTAATTAAAACACTAAAACCTATTTAAACTAAAATACCTAAAAAAAATATAA
938532 AATATAAAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
62 5 0.10
63 47 0.90
ACGTcount: A:0.55, C:0.13, G:0.01, T:0.31
Consensus pattern (63 bp):
TAAATCCTAATTAAAACACTAAAACCTATTTAAACTAAAATACCTAAAAAAAATATAATATTC
Found at i:938532 original size:25 final size:24
Alignment explanation
Indices: 938485--938532 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
938475 AAATCCTAAT
** *
938485 TAAAATACTAAAACCTATTTAAAC
1 TAAAATACTAAAACAAATATAAAC
938509 TAAAATACCTAAAACAAATATAAA
1 TAAAATA-CTAAAACAAATATAAA
938533 ATATAAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.60, C:0.15, G:0.00, T:0.25
Consensus pattern (24 bp):
TAAAATACTAAAACAAATATAAAC
Found at i:938553 original size:32 final size:31
Alignment explanation
Indices: 938512--938574 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 31
938502 TTTAAACTAA
*
938512 AATACCTAAAAC-AAATATAAAATATAAAAAT
1 AATACCTAAAACTAAAT-TAAAATACAAAAAT
*
938543 AATATCCTAAAACTTAATTAAAATACAAAAAT
1 AATA-CCTAAAACTAAATTAAAATACAAAAAT
938575 CTATTTAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 4 0.14
32 21 0.75
33 3 0.11
ACGTcount: A:0.63, C:0.11, G:0.00, T:0.25
Consensus pattern (31 bp):
AATACCTAAAACTAAATTAAAATACAAAAAT
Found at i:941626 original size:303 final size:307
Alignment explanation
Indices: 941067--941674 Score: 1163
Period size: 303 Copynumber: 2.0 Consensus size: 307
941057 TCGAATTGCC
941067 TTCCTTTGCACGTAGCATTCCATTCCAGGACAATCCTGGAGAATTCATGATAATGGCAATGAGAT
1 TTCCTTTGCACGTAGCATTCCATTCCAGGACAATCCTGGAGAATTCATGATAATGGCAATGAGAT
941132 GGGAAGCTGTAGTTTGCCAAAACAGGAGGCTTCCCATAAGTGAACCCAAAGTCATATTGAAGAAC
66 GGGAAGCTGTAGTTTGCCAAAACAGGAGGCTTCCCATAAGTGAACCCAAAGTCATATTGAAGAAC
941197 AGAGAGGGTACAAGGCTTGGTGTTTGGGACATGGATGGGTTTAATGACTTTAAATAAGAGGGTTT
131 A-AGAGGGTACAAGGCTTGGTGTTTGGGACATGGATGGGTTTAATGACTTTAAATAAGAGGGTTT
941262 GTCGGATGGTGGCATTGGTTAATGGTTGGGAGATGAGGGATGATCTGAGGGTTTTAGAATGGTGG
195 GTCGGATGGTGGCATTGGTTAATGGTTGGGAGATGAGGGATGATCTGAGGGTTTTAGAATGGTGG
941327 AGATTGGCTCGGCAGAAGATAGGGTTG-GAATTAGAATGGGGGAGAAG
260 AGATTGGCTCGGCAGAAGATAGGGTTGAGAATTAGAATGGGGGAGAAG
941374 TTCCTTTGCACGTAGCATTCCATTCCAGGACAATCCTGGAGAATTCATGATAATGGCAATGAGAT
1 TTCCTTTGCACGTAGCATTCCATTCCAGGACAATCCTGGAGAATTCATGATAATGGCAATGAGAT
941439 GGGAAGCTGTAGTTTGCCAAAACAGGAGGCTTCCCATAAGTGAA-CCAAAGTC-TATTGAAG-AC
66 GGGAAGCTGTAGTTTGCCAAAACAGGAGGCTTCCCATAAGTGAACCCAAAGTCATATTGAAGAAC
941501 -AGAGGGTACAAGGCTTTGGTGTTTGGGACATGGATGGGTTTAATGACTTTAAATAAGAGGGTTT
131 AAGAGGGTACAAGGC-TTGGTGTTTGGGACATGGATGGGTTTAATGACTTTAAATAAGAGGGTTT
941565 GTCGGATGGTGGCATTGGTTAATGGTTGGGAGATGAGGGATGATCTGAGGGTTTTAGAATGGTGG
195 GTCGGATGGTGGCATTGGTTAATGGTTGGGAGATGAGGGATGATCTGAGGGTTTTAGAATGGTGG
941630 AGATTGGCTCGGCAGAAGATAGGGTTGAGAATTAGAATGGGGGAG
260 AGATTGGCTCGGCAGAAGATAGGGTTGAGAATTAGAATGGGGGAG
941675 GAAGAAGAGG
Statistics
Matches: 299, Mismatches: 0, Indels: 7
0.98 0.00 0.02
Matches are distributed among these distances:
302 14 0.05
303 141 0.47
304 19 0.06
305 8 0.03
306 8 0.03
307 109 0.36
ACGTcount: A:0.28, C:0.12, G:0.33, T:0.27
Consensus pattern (307 bp):
TTCCTTTGCACGTAGCATTCCATTCCAGGACAATCCTGGAGAATTCATGATAATGGCAATGAGAT
GGGAAGCTGTAGTTTGCCAAAACAGGAGGCTTCCCATAAGTGAACCCAAAGTCATATTGAAGAAC
AAGAGGGTACAAGGCTTGGTGTTTGGGACATGGATGGGTTTAATGACTTTAAATAAGAGGGTTTG
TCGGATGGTGGCATTGGTTAATGGTTGGGAGATGAGGGATGATCTGAGGGTTTTAGAATGGTGGA
GATTGGCTCGGCAGAAGATAGGGTTGAGAATTAGAATGGGGGAGAAG
Done.