Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 ID=Chr06-JGI_221_v2.0
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: 51074515
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 971674 characters in sequence are not A, C, G, or T
File 33 of 168
Found at i:8748488 original size:19 final size:20
Alignment explanation
Indices: 8748453--8748506 Score: 67
Period size: 19 Copynumber: 2.6 Consensus size: 20
8748443 AATAGAATGA
8748453 ATATAACATATAATATAATATA-
1 ATATAA-ATA-AATATAATA-AC
8748475 ATATAAA-AAATATAATAAC
1 ATATAAATAAATATAATAAC
8748494 ATATAAATAAATA
1 ATATAAATAAATA
8748507 AACAATAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
18 1 0.03
19 16 0.53
20 6 0.20
21 1 0.03
22 6 0.20
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (20 bp):
ATATAAATAAATATAATAAC
Found at i:8748491 original size:24 final size:23
Alignment explanation
Indices: 8748460--8748504 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
8748450 TGAATATAAC
8748460 ATATAATATA-ATATAATATAAAAA
1 ATATAATA-ACATATAA-ATAAAAA
8748484 ATATAATAACATATAAATAAA
1 ATATAATAACATATAAATAAA
8748505 TAAACAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (23 bp):
ATATAATAACATATAAATAAAAA
Found at i:8750092 original size:20 final size:20
Alignment explanation
Indices: 8750056--8750106 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
8750046 GATATATGTT
8750056 GATTAATTAAGTAAAATA-A
1 GATTAATTAAGTAAAATATA
8750075 GATTAATTAAGATAAAATATA
1 GATTAATTAAG-TAAAATATA
8750096 -ATTAATTAAGT
1 GATTAATTAAGT
8750107 TAATTAACCT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
19 12 0.40
20 17 0.57
21 1 0.03
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.35
Consensus pattern (20 bp):
GATTAATTAAGTAAAATATA
Found at i:8750136 original size:2 final size:2
Alignment explanation
Indices: 8750129--8750165 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
8750119 AATCTACATG
8750129 TA TA TA TA TA TA 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 TA TA TA TA TA TA T
8750166 GAAATTAGTG
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:8754354 original size:14 final size:15
Alignment explanation
Indices: 8754324--8754357 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
8754314 CCTCCTTTAG
*
8754324 AAATTTTGTCCTCGA
1 AAATTTTCTCCTCGA
8754339 AAATTTTCTCCT-GA
1 AAATTTTCTCCTCGA
8754353 AAATT
1 AAATT
8754358 GTTTCATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.32, C:0.18, G:0.09, T:0.41
Consensus pattern (15 bp):
AAATTTTCTCCTCGA
Found at i:8759277 original size:27 final size:26
Alignment explanation
Indices: 8759237--8759305 Score: 84
Period size: 27 Copynumber: 2.6 Consensus size: 26
8759227 GTATAGACAC
*
8759237 TTCATATAACCATTTCATATATTTAT
1 TTCATATAACCATTTCATATATCTAT
* **
8759263 TTCCATATAAACATTTTGTATATCTAT
1 TT-CATATAACCATTTCATATATCTAT
*
8759290 TTCATATTACCATTTC
1 TTCATATAACCATTTC
8759306 CGTTTACTCA
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
26 13 0.37
27 22 0.63
ACGTcount: A:0.32, C:0.17, G:0.01, T:0.49
Consensus pattern (26 bp):
TTCATATAACCATTTCATATATCTAT
Found at i:8759426 original size:26 final size:26
Alignment explanation
Indices: 8759397--8759462 Score: 96
Period size: 26 Copynumber: 2.5 Consensus size: 26
8759387 TAATTGTAAA
* * *
8759397 TGCTCACACAAGCTTTGGAATAGGCC
1 TGCTCACACGAGCTGTAGAATAGGCC
*
8759423 TGCTCACACGAGCTGTAGAATGGGCC
1 TGCTCACACGAGCTGTAGAATAGGCC
8759449 TGCTCACACGAGCT
1 TGCTCACACGAGCT
8759463 ATGAGTTGGG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.24, C:0.29, G:0.26, T:0.21
Consensus pattern (26 bp):
TGCTCACACGAGCTGTAGAATAGGCC
Found at i:8763911 original size:26 final size:26
Alignment explanation
Indices: 8763849--8763913 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
8763839 TTTTACCCCT
* *
8763849 AGTAAAATTTTAACAGTTTTACCCTC
1 AGTAAAATTTTAACAATTTTACCATC
*
8763875 -G-ACAAATTTTTGACAATTTTACCATC
1 AGTA-AAA-TTTTAACAATTTTACCATC
8763901 AGTAAAATTTTAA
1 AGTAAAATTTTAA
8763914 GAAAATATGT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
24 1 0.03
25 4 0.13
26 21 0.68
27 4 0.13
28 1 0.03
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (26 bp):
AGTAAAATTTTAACAATTTTACCATC
Found at i:8771761 original size:184 final size:182
Alignment explanation
Indices: 8771420--8771805 Score: 458
Period size: 184 Copynumber: 2.1 Consensus size: 182
8771410 AAATTTTTTA
* *
8771420 TTTATACCCAAAAAATATAGATAAATGTTTATAATGTATAATTTAAACACTCTAGAAGTATTTCA
1 TTTATACCCAAAAAGTATAGATAAATGTTTATAATGTATAATTTAAACACTCTAGAACTATTTCA
* * * * *
8771485 ATATAATATTAGAATCCCTGCTTTTGCAAGTTTTTTCTTTCTTTATTCCAATGAAGTGCATTAGT
66 ATATAATATTAGAAACCCTGCTTCT-CAAGGTTTTTCTTCCTTTATTCCAACGAAGTGCATTAGT
*
8771550 TTTTATTTTACACTTAAACATGTTTTTTTTTCTAAATTGTACCT-AAATAGTTAT
130 TTTTATTTTACACTTAAACATG--TTTTTTTATAAATTGTACCTAAAATAGTTAT
* ** * * * *
8771604 TTTATACCCAAAAAGTATAGATAAATTTTTATAATGTATCGTTTAAACATTC-CGACACTGTTTT
1 TTTATACCCAAAAAGTATAGATAAATGTTTATAATGTATAATTTAAACACTCTAGA-ACTATTTC
* *
8771668 AATATAATATTAGAAACCAC-GCTTCT-ATAGGTTTTT-TTCCTTTTTTTCAACGAAGTGCATTA
65 AATATAATATTAGAAACC-CTGCTTCTCA-AGGTTTTTCTTCCTTTATTCCAACGAAGTGCATTA
* **
8771730 GTTTTTTATTTTACACTTAAACATGGTTTTTTTATAAATTGTACTTAAAAATTTTTAT
128 G-TTTTTATTTTACACTTAAACAT-GTTTTTTTATAAATTGTACCT-AAAATAGTTAT
* *
8771788 TTTATACCGAATAAGTAT
1 TTTATACCCAAAAAGTAT
8771806 TTTGCAAATT
Statistics
Matches: 173, Mismatches: 22, Indels: 14
0.83 0.11 0.07
Matches are distributed among these distances:
182 42 0.24
183 31 0.18
184 99 0.57
185 1 0.01
ACGTcount: A:0.33, C:0.12, G:0.09, T:0.45
Consensus pattern (182 bp):
TTTATACCCAAAAAGTATAGATAAATGTTTATAATGTATAATTTAAACACTCTAGAACTATTTCA
ATATAATATTAGAAACCCTGCTTCTCAAGGTTTTTCTTCCTTTATTCCAACGAAGTGCATTAGTT
TTTATTTTACACTTAAACATGTTTTTTTATAAATTGTACCTAAAATAGTTAT
Found at i:8773822 original size:62 final size:59
Alignment explanation
Indices: 8773715--8773828 Score: 165
Period size: 62 Copynumber: 1.9 Consensus size: 59
8773705 AATTTAGTAA
* * *
8773715 TAAATTAATATAATATTTATCAAGATAAATATTAGATTAAATTTAACATTAAATCTTAT
1 TAAATTAATAAAATATTTATCAAGATAAACATTAAATTAAATTTAACATTAAATCTTAT
*
8773774 TAAATTAATAAAATATTTATCTACAAGATAAACATTAAATTAAATTTAATATTAA
1 TAAATTAATAAAATATTTA--T-CAAGATAAACATTAAATTAAATTTAACATTAA
8773829 GATAATCACT
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
59 18 0.38
61 1 0.02
62 29 0.60
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.40
Consensus pattern (59 bp):
TAAATTAATAAAATATTTATCAAGATAAACATTAAATTAAATTTAACATTAAATCTTAT
Found at i:8778413 original size:71 final size:71
Alignment explanation
Indices: 8778330--8778779 Score: 618
Period size: 71 Copynumber: 6.3 Consensus size: 71
8778320 CCTGTTTGGG
* * * * * *
8778330 CAGCACATATACATCAATTTGGCCAGCATTTATATACCAAACT-AGGCAGAATTTTTACA-CTAA
1 CAGCATATATACAACAATTTGGGCAGCATATATATACCAAATTGA-GCAGCATTTTTACATC-AA
8778393 AAATTAGA
64 AAATTAGA
* * * * *
8778401 TAGCATATATACAATAATTT-GGCAGCAAATGTATACCAAATTGAGCATCATTTTTTTTTTACAT
1 CAGCATATATACAACAATTTGGGCAGCATATATATACCAAATTGAGCAGCA-----TTTTTACA-
* *
8778465 TCTAAAATTGGA
60 TCAAAAATTAGA
* *
8778477 CAGCATATACACAACAATTTGGGCAGCATATATATAACAAATTGAGCAGCATTTTTACATCAAAA
1 CAGCATATATACAACAATTTGGGCAGCATATATATACCAAATTGAGCAGCATTTTTACATCAAAA
8778542 ATTAGA
66 ATTAGA
*
8778548 CAGCATATAGACAACAATTTGGGCAGCATATATATACCAAATTGAGCAGCATTTTTACATCAAAA
1 CAGCATATATACAACAATTTGGGCAGCATATATATACCAAATTGAGCAGCATTTTTACATCAAAA
*
8778613 ATTGGA
66 ATTAGA
* *
8778619 CAGCATATACACAACAATTTGGGCAGCATATATATACCAAATTGAGTAGCATTTTTACATCAAAA
1 CAGCATATATACAACAATTTGGGCAGCATATATATACCAAATTGAGCAGCATTTTTACATCAAAA
8778684 ATTAGA
66 ATTAGA
*
8778690 CAGCATATAGACAACAATTTGGGCAGCATATATATACCAAATTGAGCAGCATTTTTACATCAAAA
1 CAGCATATATACAACAATTTGGGCAGCATATATATACCAAATTGAGCAGCATTTTTACATCAAAA
8778755 ATTAGA
66 ATTAGA
*
8778761 CAGCATATATGCAACAATT
1 CAGCATATATACAACAATT
8778780 AGACAACATT
Statistics
Matches: 338, Mismatches: 32, Indels: 18
0.87 0.08 0.05
Matches are distributed among these distances:
70 21 0.06
71 249 0.74
72 8 0.02
75 8 0.02
76 25 0.07
77 27 0.08
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.29
Consensus pattern (71 bp):
CAGCATATATACAACAATTTGGGCAGCATATATATACCAAATTGAGCAGCATTTTTACATCAAAA
ATTAGA
Found at i:8778498 original size:23 final size:23
Alignment explanation
Indices: 8778469--8778769 Score: 141
Period size: 23 Copynumber: 12.7 Consensus size: 23
8778459 TTACATTCTA
8778469 AAATTGGACAGCATATACACAAC
1 AAATTGGACAGCATATACACAAC
* * * *
8778492 AATTTGGGCAGCATATATATAAC
1 AAATTGGACAGCATATACACAAC
*
8778515 AAATT-GAGCAGCATTTTTACATCAA-
1 AAATTGGA-CAGCA--TATACA-CAAC
* *
8778540 AAATTAGACAGCATATAGACAAC
1 AAATTGGACAGCATATACACAAC
* * * * *
8778563 AATTTGGGCAGCATATATATACC
1 AAATTGGACAGCATATACACAAC
*
8778586 AAATT-GAGCAGCATTTTTACATCAA-
1 AAATTGGA-CAGCA--TATACA-CAAC
8778611 AAATTGGACAGCATATACACAAC
1 AAATTGGACAGCATATACACAAC
* * * * *
8778634 AATTTGGGCAGCATATATATACC
1 AAATTGGACAGCATATACACAAC
* *
8778657 AAATT-GAGTAGCATTTTTACATCAA-
1 AAATTGGA-CAGCA--TATACA-CAAC
* *
8778682 AAATTAGACAGCATATAGACAAC
1 AAATTGGACAGCATATACACAAC
* * * * *
8778705 AATTTGGGCAGCATATATATACC
1 AAATTGGACAGCATATACACAAC
*
8778728 AAATT-GAGCAGCATTTTTACATCAA-
1 AAATTGGA-CAGCA--TATACA-CAAC
*
8778753 AAATTAGACAGCATATA
1 AAATTGGACAGCATATA
8778770 TGCAACAATT
Statistics
Matches: 203, Mismatches: 52, Indels: 46
0.67 0.17 0.15
Matches are distributed among these distances:
22 13 0.06
23 122 0.60
25 55 0.27
26 13 0.06
ACGTcount: A:0.43, C:0.17, G:0.14, T:0.27
Consensus pattern (23 bp):
AAATTGGACAGCATATACACAAC
Found at i:8778574 original size:48 final size:47
Alignment explanation
Indices: 8778469--8778723 Score: 155
Period size: 48 Copynumber: 5.4 Consensus size: 47
8778459 TTACATTCTA
* * * * * *
8778469 AAATTGGACAGCA--TATACACAACAATTTGGGCAGCATATATATAAC
1 AAATTGGGCAGCATTTATACACAA-AAATTAGACAGCATATAGACAAC
* *
8778515 AAATTGAGCAGCATTTTTACATCAAAAATTAGACAGCATATAGACAAC
1 AAATTGGGCAGCATTTATACA-CAAAAATTAGACAGCATATAGACAAC
* * * * * *
8778563 AATTTGGGCAGCATATATATAC-CAAATT-GAGCAGCATTTTTACATCAA-
1 AAATTGGGCAGCATTTATACACAAAAATTAGA-CAGCA--TATAGA-CAAC
* * * * * * *
8778611 AAATTGGACAGCA--TATACACAACAATTTGGGCAGCATATATATACC
1 AAATTGGGCAGCATTTATACACAA-AAATTAGACAGCATATAGACAAC
* * *
8778657 AAATTGAGTAGCATTTTTACATCAAAAATTAGACAGCATATAGACAAC
1 AAATTGGGCAGCATTTATACA-CAAAAATTAGACAGCATATAGACAAC
* *
8778705 AATTTGGGCAGCATATATA
1 AAATTGGGCAGCATTTATA
8778724 TACCAAATTG
Statistics
Matches: 154, Mismatches: 41, Indels: 26
0.70 0.19 0.12
Matches are distributed among these distances:
45 3 0.02
46 41 0.27
47 1 0.01
48 99 0.64
49 10 0.06
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.27
Consensus pattern (47 bp):
AAATTGGGCAGCATTTATACACAAAAATTAGACAGCATATAGACAAC
Found at i:8779679 original size:29 final size:28
Alignment explanation
Indices: 8779614--8779712 Score: 128
Period size: 28 Copynumber: 3.5 Consensus size: 28
8779604 TTTAATAAGT
* *
8779614 TCGCACACTTAGTGC-TCAATAATCAAAC
1 TCGCACACTTAGTGCTTC-ACAATTAAAC
* *
8779642 TCGCACACTTAGTTCTTTACAAATTAAAC
1 TCGCACACTTAGTGCTTCAC-AATTAAAC
*
8779671 TCGCACACTTAGTGCTTCACAATTAAAT
1 TCGCACACTTAGTGCTTCACAATTAAAC
8779699 TCGCACACTTAGTG
1 TCGCACACTTAGTG
8779713 TCGAAAGTCA
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
28 36 0.58
29 26 0.42
ACGTcount: A:0.32, C:0.26, G:0.11, T:0.30
Consensus pattern (28 bp):
TCGCACACTTAGTGCTTCACAATTAAAC
Found at i:8781902 original size:16 final size:18
Alignment explanation
Indices: 8781881--8781913 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
8781871 ACTTAGTCAG
8781881 TTTCTA-TTCCC-TTAGC
1 TTTCTACTTCCCATTAGC
8781897 TTTCTACTTCCCATTAG
1 TTTCTACTTCCCATTAG
8781914 AGGACGAGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 5 0.33
18 4 0.27
ACGTcount: A:0.15, C:0.30, G:0.06, T:0.48
Consensus pattern (18 bp):
TTTCTACTTCCCATTAGC
Found at i:8794142 original size:17 final size:17
Alignment explanation
Indices: 8794120--8794171 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 17
8794110 ATGGAAACAT
* *
8794120 AATCTTCAAGGATATGC
1 AATCTTAAAAGATATGC
*
8794137 AATCTTAGATATGATATGC
1 AATCTTA-A-AAGATATGC
8794156 AATCTTAAAAGATATG
1 AATCTTAAAAGATATG
8794172 ATTTTGTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 13 0.43
18 2 0.07
19 15 0.50
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (17 bp):
AATCTTAAAAGATATGC
Found at i:8794190 original size:22 final size:22
Alignment explanation
Indices: 8794130--8794173 Score: 67
Period size: 19 Copynumber: 2.1 Consensus size: 22
8794120 AATCTTCAAG
8794130 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAAAAGATAT
8794149 GATATGCAATCTTAAAAGATAT
1 GATATGCAATCTTAAAAGATAT
8794171 GAT
1 GAT
8794174 TTTGTAATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 13 0.59
22 9 0.41
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.34
Consensus pattern (22 bp):
GATATGCAATCTTAAAAGATAT
Found at i:8794435 original size:23 final size:23
Alignment explanation
Indices: 8794387--8794435 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
8794377 TTGTTCTTAT
* * *
8794387 TTTATTGATTTGTGTATAATTTA
1 TTTATGGATTTGTATATAATTGA
*
8794410 TTTATGGATTTGTATATTATTGA
1 TTTATGGATTTGTATATAATTGA
8794433 TTT
1 TTT
8794436 CAAATCTCTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.24, C:0.00, G:0.14, T:0.61
Consensus pattern (23 bp):
TTTATGGATTTGTATATAATTGA
Found at i:8794482 original size:15 final size:16
Alignment explanation
Indices: 8794455--8794487 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
8794445 TTTTCCTTTT
8794455 TTCATTCATTTTCAAA
1 TTCATTCATTTTCAAA
8794471 TTCATT-ATTTTCAAA
1 TTCATTCATTTTCAAA
8794486 TT
1 TT
8794488 TGTTTACATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.30, C:0.15, G:0.00, T:0.55
Consensus pattern (16 bp):
TTCATTCATTTTCAAA
Found at i:8794639 original size:23 final size:23
Alignment explanation
Indices: 8794591--8794640 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
8794581 ATTTGTTATT
** *
8794591 TTATTTTTTTATTATTAAATTAA
1 TTATTTTAATATTATTAAACTAA
8794614 TTATTTTAATATTATTAATACT-A
1 TTATTTTAATATTATTAA-ACTAA
8794637 TTAT
1 TTAT
8794641 GTGGCATCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 21 0.91
24 2 0.09
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (23 bp):
TTATTTTAATATTATTAAACTAA
Found at i:8795180 original size:20 final size:19
Alignment explanation
Indices: 8795155--8795193 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
8795145 TTTATATTTA
8795155 CATTATCACAATTGTTACTC
1 CATTAT-ACAATTGTTACTC
*
8795175 CATTATATAATTGTTACTC
1 CATTATACAATTGTTACTC
8795194 ATATTCGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.31, C:0.21, G:0.05, T:0.44
Consensus pattern (19 bp):
CATTATACAATTGTTACTC
Found at i:8803782 original size:47 final size:47
Alignment explanation
Indices: 8803702--8803796 Score: 111
Period size: 47 Copynumber: 2.0 Consensus size: 47
8803692 GAAGGAGAAG
** * * * *
8803702 AGACCAAGGTGAAAACCTGCAGAGGGCGTTTTGAGTCCTAAAAA-AAA
1 AGACCAAGGTGAAAACCCACAAAGAGCGCTTTGACT-CTAAAAATAAA
*
8803749 AGACTAAGGTGAAAACCCACAAAGAGCGCTTTGACTCTAAAAATAAA
1 AGACCAAGGTGAAAACCCACAAAGAGCGCTTTGACTCTAAAAATAAA
8803796 A
1 A
8803797 AAATAAAAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
46 7 0.17
47 33 0.82
ACGTcount: A:0.44, C:0.18, G:0.21, T:0.17
Consensus pattern (47 bp):
AGACCAAGGTGAAAACCCACAAAGAGCGCTTTGACTCTAAAAATAAA
Found at i:8805145 original size:45 final size:45
Alignment explanation
Indices: 8805073--8806221 Score: 1426
Period size: 45 Copynumber: 25.6 Consensus size: 45
8805063 TCCCTGAGCA
* * * *
8805073 GTAGTGGAGTAGGTTGAAGATAGCAGATCTTGTCTTCCTATATTG
1 GTAGCGGAGTAGATCGAAGATAACAGATCTTGTCTTCCTATATTG
* * * *
8805118 GTATCGGAGTAGATCGAATATAACAGATATTGTCTTCCTGTATTG
1 GTAGCGGAGTAGATCGAAGATAACAGATCTTGTCTTCCTATATTG
* * * * * *
8805163 GCAGCGAAGCAGATCAAAGATAGCAGATCTTGTCTTCCTATGTTG
1 GTAGCGGAGTAGATCGAAGATAACAGATCTTGTCTTCCTATATTG
* * *
8805208 GTAGCAGAGTAGATCGAAGATAACAGATCTTGTCTTCTTGTATTG
1 GTAGCGGAGTAGATCGAAGATAACAGATCTTGTCTTCCTATATTG
* * * *
8805253 GCAGCGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTAT-GTG
1 GTAGCGGAGTAGATCGAAGATAACAGATCTTGTCTTCCTATATTG
8805297 GTAGCGGAGTAGATCGAAGATAACAGATCTTGTCTTCCTATATTG
1 GTAGCGGAGTAGATCGAAGATAACAGATCTTGTCTTCCTATATTG
* * * *
8805342 GCAGCGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTG
1 GTAGCGGAGTAGATCGAAGATAACAGATCTTGTCTTCCTATATTG
8805387 GTAGCGGAGTAGATCGAAGATAACAGATCTTGTCTTCCTATATTG
1 GTAGCGGAGTAGATCGAAGATAACAGATCTTGTCTTCCTATATTG
* * * * * * *
8805432 GCAACGAAGTAGATCAAAGATAGCAGATCTTATCTTCCTATGTTG
1 GTAGCGGAGTAGATCGAAGATAACAGATCTTGTCTTCCTATATTG
* *
8805477 GTAGCGGAGTAGATCGAAGATAATAGATCTTGTCTTCCTGTATTG
1 GTAGCGGAGTAGATCGAAGATAACAGATCTTGTCTTCCTATATTG
* * * * * * *
8805522 GCAACGAAGTAGATCAAAGATAGCAAATCTTGTCTTCCTATGTTG
1 GTAGCGGAGTAGATCGAAGATAACAGATCTTGTCTTCCTATATTG
8805567 GTAGCGGAGTAGATCGAAGATAACAGATCTTGTC-TCCTATATTG
1 GTAGCGGAGTAGATCGAAGATAACAGATCTTGTCTTCCTATATTG
* * *
8805611 GTAGCGAAGTAGATCGAAGATAATAGATATTGTCTTCCTATATTG
1 GTAGCGGAGTAGATCGAAGATAACAGATCTTGTCTTCCTATATTG
* * * * * * * *
8805656 GCAGCGAAGTAGATCAAATATAGCAGATTTTTTCTTCCTATGTTG
1 GTAGCGGAGTAGATCGAAGATAACAGATCTTGTCTTCCTATATTG
* *
8805701 GTAGCAGAGTAGATCGAAGATAACAAATCTTGTCTTCCTATATTG
1 GTAGCGGAGTAGATCGAAGATAACAGATCTTGTCTTCCTATATTG
* * * * *
8805746 GTAGTGAAGTAGATCGAAGATAATAGATATTGTCTTCCTGTATTG
1 GTAGCGGAGTAGATCGAAGATAACAGATCTTGTCTTCCTATATTG
* * * * *
8805791 GCAGC-GAATCAGATCAAAGATAGCAGATCTTGTCTTCCTATGTTG
1 GTAGCGGAGT-AGATCGAAGATAACAGATCTTGTCTTCCTATATTG
* *
8805836 GTAGCGGAGTAGATTGAAGATAACAGATCTTGTCTTCCTGTATTG
1 GTAGCGGAGTAGATCGAAGATAACAGATCTTGTCTTCCTATATTG
* ** *
8805881 GCAGCAAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTG
1 GTAGCGGAGTAGATCGAAGATAACAGATCTTGTCTTCCTATATTG
*
8805926 GTAGCGGAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTG
1 GTAGCGGAGTAGATCGAAGATAACAGATCTTGTCTTCCTATATTG
*
8805971 GTAGCGGAGTAGATCGAAGATAACAGATCTTGTCTTCCTGTATTG
1 GTAGCGGAGTAGATCGAAGATAACAGATCTTGTCTTCCTATATTG
* * * * * * *
8806016 GCAACGAAGTAGATCAAAGATAGCAGATCTTATCTTCCTATGTTG
1 GTAGCGGAGTAGATCGAAGATAACAGATCTTGTCTTCCTATATTG
* *
8806061 GCAGCGGAGTAGATCGAAGATAACAGATCTTGTCTTCCTGTATTG
1 GTAGCGGAGTAGATCGAAGATAACAGATCTTGTCTTCCTATATTG
* * * * * *
8806106 GCAAC-GACGTAGATCGAAAATAGCAGATCTTGCCTTCCTATGTTG
1 GTAGCGGA-GTAGATCGAAGATAACAGATCTTGTCTTCCTATATTG
* *
8806151 GTAGCGGAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTG
1 GTAGCGGAGTAGATCGAAGATAACAGATCTTGTCTTCCTATATTG
*
8806196 GCAGC-GATGTAGATCGAAGATAACAG
1 GTAGCGGA-GTAGATCGAAGATAACAG
8806222 GTCTAGTATT
Statistics
Matches: 934, Mismatches: 163, Indels: 14
0.84 0.15 0.01
Matches are distributed among these distances:
44 86 0.09
45 843 0.90
46 5 0.01
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (45 bp):
GTAGCGGAGTAGATCGAAGATAACAGATCTTGTCTTCCTATATTG
Found at i:8807838 original size:20 final size:20
Alignment explanation
Indices: 8807800--8807839 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
8807790 TCCATTCATC
* *
8807800 TTATTATTTTTAGTATTATT
1 TTATTATTATTACTATTATT
*
8807820 TTATTATTATTACTCTTATT
1 TTATTATTATTACTATTATT
8807840 ATATCCACGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.68
Consensus pattern (20 bp):
TTATTATTATTACTATTATT
Found at i:8807977 original size:20 final size:20
Alignment explanation
Indices: 8807952--8807994 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
8807942 TAAAATTTTC
* *
8807952 TTTTTATAAATATATACATT
1 TTTTTACAAACATATACATT
*
8807972 TTTTTACAAACATATATATT
1 TTTTTACAAACATATACATT
8807992 TTT
1 TTT
8807995 ATATTTTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (20 bp):
TTTTTACAAACATATACATT
Found at i:8811489 original size:14 final size:15
Alignment explanation
Indices: 8811470--8811499 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
8811460 TTCTTGCTTG
8811470 TTTTATTTTAT-TTT
1 TTTTATTTTATCTTT
8811484 TTTTATTTTATCTTT
1 TTTTATTTTATCTTT
8811499 T
1 T
8811500 ACATAAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTATTTTATCTTT
Found at i:8812232 original size:3 final size:3
Alignment explanation
Indices: 8812219--8812251 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
8812209 ATTTTCTTAA
8812219 TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
8812252 TCCTCATTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:8812329 original size:14 final size:14
Alignment explanation
Indices: 8812264--8812329 Score: 50
Period size: 14 Copynumber: 4.9 Consensus size: 14
8812254 CTCATTTATA
*
8812264 TATATATACATACT
1 TATATATACATATT
8812278 TATATATACAT-TT
1 TATATATACATATT
**
8812291 TATA-ATTTATAATT
1 TATATATACAT-ATT
*
8812305 T-T-TATATATATT
1 TATATATACATATT
*
8812317 TTTATATACATAT
1 TATATATACATAT
8812330 ACGTGTATAT
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
12 8 0.19
13 12 0.29
14 22 0.52
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (14 bp):
TATATATACATATT
Found at i:8816708 original size:8 final size:9
Alignment explanation
Indices: 8816695--8816741 Score: 60
Period size: 10 Copynumber: 5.0 Consensus size: 9
8816685 AACTCGAAAG
8816695 AAAAATC-A
1 AAAAATCAA
8816703 AAAAATCAAA
1 AAAAATC-AA
8816713 AAAAATCAAA
1 AAAAATC-AA
8816723 AAAAATCAAA
1 AAAAATC-AA
8816733 AAAAATCAA
1 AAAAATCAA
8816742 TGTCAAAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 3
0.93 0.00 0.08
Matches are distributed among these distances:
8 7 0.19
9 2 0.05
10 28 0.76
ACGTcount: A:0.79, C:0.11, G:0.00, T:0.11
Consensus pattern (9 bp):
AAAAATCAA
Found at i:8816717 original size:10 final size:10
Alignment explanation
Indices: 8816702--8816741 Score: 80
Period size: 10 Copynumber: 4.0 Consensus size: 10
8816692 AAGAAAAATC
8816702 AAAAAATCAA
1 AAAAAATCAA
8816712 AAAAAATCAA
1 AAAAAATCAA
8816722 AAAAAATCAA
1 AAAAAATCAA
8816732 AAAAAATCAA
1 AAAAAATCAA
8816742 TGTCAAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 30 1.00
ACGTcount: A:0.80, C:0.10, G:0.00, T:0.10
Consensus pattern (10 bp):
AAAAAATCAA
Found at i:8816764 original size:6 final size:6
Alignment explanation
Indices: 8816755--8816793 Score: 53
Period size: 6 Copynumber: 6.3 Consensus size: 6
8816745 CAAAAATAAG
8816755 AGAAAA AGAAATA AGAAAA A-AGAAA AGAAAA AGAAAA AG
1 AGAAAA AGAAA-A AGAAAA AGA-AAA AGAAAA AGAAAA AG
8816794 GAGAAGTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
5 1 0.03
6 22 0.73
7 7 0.23
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (6 bp):
AGAAAA
Found at i:8816766 original size:15 final size:14
Alignment explanation
Indices: 8816748--8816790 Score: 56
Period size: 15 Copynumber: 3.2 Consensus size: 14
8816738 TCAATGTCAA
8816748 AAATAAGAGAAAAAG
1 AAATAAGA-AAAAAG
8816763 AAATAAGAAAAAAG
1 AAATAAGAAAAAAG
8816777 -AA-AAG-AAAAAG
1 AAATAAGAAAAAAG
8816788 AAA
1 AAA
8816791 AAGGAGAAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 6 0.22
12 5 0.19
13 2 0.07
14 6 0.22
15 8 0.30
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (14 bp):
AAATAAGAAAAAAG
Found at i:8819829 original size:18 final size:17
Alignment explanation
Indices: 8819796--8819834 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
8819786 TTGTATAAAT
8819796 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
8819814 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
8819831 TGTG
1 TGTG
8819835 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:8819952 original size:8 final size:8
Alignment explanation
Indices: 8819939--8819967 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
8819929 CACTAGAGAC
8819939 CAGTGTTA
1 CAGTGTTA
8819947 CAGTGTTA
1 CAGTGTTA
8819955 CAGTGTTA
1 CAGTGTTA
8819963 CAGTG
1 CAGTG
8819968 AGTCCCGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (8 bp):
CAGTGTTA
Found at i:8820081 original size:23 final size:23
Alignment explanation
Indices: 8820054--8820129 Score: 143
Period size: 23 Copynumber: 3.3 Consensus size: 23
8820044 AGTGTTATTG
8820054 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
8820077 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
8820100 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
8820123 ATCAGTG
1 ATCAGTG
8820130 TGGCACTTAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:8828650 original size:49 final size:49
Alignment explanation
Indices: 8828498--8828670 Score: 172
Period size: 49 Copynumber: 3.5 Consensus size: 49
8828488 TGCAATTCAA
* *
8828498 AGATTGAAGCCACAACGGCGAATCTTACTTTCCAGGCGATGCAGCGGAGC
1 AGATTGAAGCCACAACGGCGAATCTTAC-TTCCAGGCGATGTAGCGGAAC
* * * * * ****
8828548 AGATTGAAGCTACAACAGCGAATCTCACTTCCCTGAC-AT-TCCAATTCAA-
1 AGATTGAAGCCACAACGGCGAATCTTACTT-CCAGGCGATGT--AGCGGAAC
8828597 AGATTGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGTAGCGGAAC
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGTAGCGGAAC
* *
8828646 AGATTGAAGTCACAACGGTGAATCT
1 AGATTGAAGCCACAACGGCGAATCT
8828671 CGATTCCCGA
Statistics
Matches: 95, Mismatches: 22, Indels: 13
0.73 0.17 0.10
Matches are distributed among these distances:
48 7 0.07
49 56 0.59
50 32 0.34
ACGTcount: A:0.32, C:0.25, G:0.23, T:0.21
Consensus pattern (49 bp):
AGATTGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGTAGCGGAAC
Found at i:8828751 original size:50 final size:50
Alignment explanation
Indices: 8828498--8829625 Score: 765
Period size: 50 Copynumber: 23.3 Consensus size: 50
8828488 TGCAATTCAA
* * * * * *
8828498 AGATTGAAGCCACAACGGCGAATCTTACTTTCC-AGGCGATGCAGCGGAGC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTA-GCGTTGCAGTGGAAC
* * * * * * **
8828548 AGATTGAAGCTACAACAGCGAATCTCACTTCCCT-GACATTCCAATTCAA-
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAG-CGTTGCAGTGGAAC
* * * * * *
8828597 AGATTGAAGCCACAACGGCGAATCTTAC-TTCC-AGGCGATGTAGCGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTA-GCGTTGCAGTGGAAC
* * * * * * * * *
8828646 AGATTGAAG-TCACAACGGTGAATCTCGA-TTCCCGA-CATTG-A-T-TAAA
1 AGATTGAAGCT-ACAACAGCGGATCT-TACTTTCCTAGCGTTGCAGTGGAAC
*
8828692 AGATTGAAGCTACAACAGCGGATCTTACTTTCTTAGCGTTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAAC
* * * * * *
8828742 AGATTGAAGCTACAACAGCAGATCTTACTTCCCT-GACATTGCAAT-TAAGA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAG-CGTTGCAGTGGAA-C
*
8828792 AGATTGAAGCTACAACAGCGGATCTTACTTTCTTAGCGTTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAAC
* ** * * * ** *
8828842 AGATTAAAGCTACAACAATGGATCTTGC-TTCC--CCG--ACAGTTAAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAAC
* *
8828887 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAAGTGGTGGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCT-AG-CGTTGCAGTGGAAC
* * ** ** *
8828939 AGATTGAAGCCTCCAACAGCCGGAATCTTGGC-TTCC-CCCG--GCAGTTAAAA
1 AGATTGAAG-CTACAACAG-CGG-ATCTT-ACTTTCCTAGCGTTGCAGTGGAAC
*** * **
8828989 AGATTGAAGCTACAACATTTGATCTTACTTTTCTAGTATTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAAC
* * * *
8829039 AGATTGAAGCTACAACAGCGGATCTTGC-TTCCT--C--AGCAGT-TAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAAC
**
8829083 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGTATTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAAC
* * ** *
8829133 AGATTGAAGCTACAACAACGGATCTTGC-TTCCT--CG--GCAGTTAAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAAC
* * *
8829178 AGATTGAAGCTACAACAGCGGATCTTACTTTTCTGGTGTTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAAC
* * * ** *
8829228 AGATTGAAGCTACAACAGCGAATATTGC-TTCCT--CG--GCAGTTAAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAAC
* *
8829273 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTAGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAAC
* * * * ** *
8829323 AGATTGACGCTACAACAACGGATCTTGC-TTCC--CCG--GCAGTTAAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAAC
* * *
8829368 AGGTTGAAGCTACAACAGCGGATCTTACTTTTCTAGTGTTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAAC
* * ** *
8829418 AGATTGAAGCTACAACAGCGGATCTTGC-TTCCT--CGAT--AGTTAAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAAC
8829463 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAAC
* * ** * * ** *
8829513 AAATTGAAGCTACAACAGCAGATCTTAC-TTCCCCGACATTGCAATTAAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAG-CGTTGCAGTGGAAC
* * *
8829563 AGATTGAAGCTACAACGGCGAATCTTACTTTCC-AG-GTGATGCAGTGGAAT
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGT--TGCAGTGGAAC
8829613 AGATTGAAGCTAC
1 AGATTGAAGCTAC
8829626 GACGGCGAAT
Statistics
Matches: 823, Mismatches: 191, Indels: 128
0.72 0.17 0.11
Matches are distributed among these distances:
44 29 0.04
45 169 0.21
46 48 0.06
47 19 0.02
48 18 0.02
49 97 0.12
50 398 0.48
51 8 0.01
52 16 0.02
53 8 0.01
54 3 0.00
55 9 0.01
56 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (50 bp):
AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAAC
Found at i:8829242 original size:95 final size:95
Alignment explanation
Indices: 8828496--8829625 Score: 1263
Period size: 95 Copynumber: 11.7 Consensus size: 95
8828486 TTTGCAATTC
* * * * * * *
8828496 AAAGATTGAAGCCACAACGGCGAATCTTACTTTCC-AGGCGATGCAGCGGAGCAGATTGAAGCTA
1 AAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTA-GTGTTGCAGTGGAACAGATTGAAGCTA
* ** *
8828560 CAACAGCGAATCTCACTTCC-CTGACA-TTCCAA
65 CAACAGCGGATCTTGCTTCCTC-GGCAGTT--AA
* * * * * * *
8828592 TTCAAAGATTGAAGCCACAACGGCGAATCTTAC-TTCC-AGGCGATGTAGCGGAACAGATTGAAG
1 ---AAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTA-GTGTTGCAGTGGAACAGATTGAAG
* * * * * *
8828655 -TCACAACGGTGAATCTCGATTCC-CGACA-TTGATTA
62 CT-ACAACAGCGGATCTTGCTTCCTCGGCAGTT-A--A
* *
8828690 AAAGATTGAAGCTACAACAGCGGATCTTACTTTCTTAGCGTTGCAGTGGAACAGATTGAAGCTAC
1 AAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGTGTTGCAGTGGAACAGATTGAAGCTAC
* * * *
8828755 AACAGCAGATCTTACTTCCCTGACATTGCAATTAA
66 AACAGCGGATCTTGCTT-CCT--C--GGCAGTTAA
* * * *
8828790 GAAGATTGAAGCTACAACAGCGGATCTTACTTTCTTAGCGTTGCAGTGGAACAGATTAAAGCTAC
1 AAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGTGTTGCAGTGGAACAGATTGAAGCTAC
** * *
8828855 AACAATGGATCTTGCTTCCCCGACAGTTAA
66 AACAGCGGATCTTGCTTCCTCGGCAGTTAA
*
8828885 AAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAAGTGGTGGCAGTGGAACAGATTGAAGCC
1 AAAGATTGAAGCTACAACAGCGGATCTTACTTTCCT-AGT-GTTGCAGTGGAACAGATTGAAG-C
* *
8828950 TCCAACAGCCGGAATCTTGGCTTCCCCCGGCAGTTAA
63 TACAACAG-CGG-ATCTT-GCTT-CCTCGGCAGTTAA
*** * *
8828987 AAAGATTGAAGCTACAACATTTGATCTTACTTTTCTAGTATTGCAGTGGAACAGATTGAAGCTAC
1 AAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGTGTTGCAGTGGAACAGATTGAAGCTAC
*
8829052 AACAGCGGATCTTGCTTCCTCAGCAGTT-A
66 AACAGCGGATCTTGCTTCCTCGGCAGTTAA
*
8829081 AAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGTATTGCAGTGGAACAGATTGAAGCTAC
1 AAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGTGTTGCAGTGGAACAGATTGAAGCTAC
*
8829146 AACAACGGATCTTGCTTCCTCGGCAGTTAA
66 AACAGCGGATCTTGCTTCCTCGGCAGTTAA
* *
8829176 AAAGATTGAAGCTACAACAGCGGATCTTACTTTTCTGGTGTTGCAGTGGAACAGATTGAAGCTAC
1 AAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGTGTTGCAGTGGAACAGATTGAAGCTAC
* *
8829241 AACAGCGAATATTGCTTCCTCGGCAGTTAA
66 AACAGCGGATCTTGCTTCCTCGGCAGTTAA
** * *
8829271 AAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTAGAACAGATTGACGCTAC
1 AAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGTGTTGCAGTGGAACAGATTGAAGCTAC
* *
8829336 AACAACGGATCTTGCTTCCCCGGCAGTTAA
66 AACAGCGGATCTTGCTTCCTCGGCAGTTAA
* *
8829366 AAAGGTTGAAGCTACAACAGCGGATCTTACTTTTCTAGTGTTGCAGTGGAACAGATTGAAGCTAC
1 AAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGTGTTGCAGTGGAACAGATTGAAGCTAC
**
8829431 AACAGCGGATCTTGCTTCCTCGATAGTTAA
66 AACAGCGGATCTTGCTTCCTCGGCAGTTAA
* *
8829461 AAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAAATTGAAGCTAC
1 AAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGTGTTGCAGTGGAACAGATTGAAGCTAC
* * * *
8829526 AACAGCAGATCTTACTTCCCCGACATTGCAATTAA
66 AACAGCGGATCTTGCTTCCTCG-----GCAGTTAA
* * * *
8829561 AAAGATTGAAGCTACAACGGCGAATCTTACTTTCC-AGGTGATGCAGTGGAATAGATTGAAGCTA
1 AAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTA-GTGTTGCAGTGGAACAGATTGAAGCTA
8829625 C
65 C
8829626 GACGGCGAAT
Statistics
Matches: 905, Mismatches: 99, Indels: 53
0.86 0.09 0.05
Matches are distributed among these distances:
94 88 0.10
95 416 0.46
96 43 0.05
97 37 0.04
98 57 0.06
99 43 0.05
100 165 0.18
101 7 0.01
102 47 0.05
103 2 0.00
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (95 bp):
AAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGTGTTGCAGTGGAACAGATTGAAGCTAC
AACAGCGGATCTTGCTTCCTCGGCAGTTAA
Found at i:8829631 original size:50 final size:50
Alignment explanation
Indices: 8828496--8830222 Score: 605
Period size: 50 Copynumber: 35.2 Consensus size: 50
8828486 TTTGCAATTC
* *
8828496 AAAGATTGAAGCCACAACGGCGAATCTTACTTTCCAGGCGATGCAGCGGA
1 AAAGATTGAAGCTACAACGGCGAATCTTACTTTCCAGGCGATGCAGTGGA
** * * * * * * * **
8828546 GCAGATTGAAGCTACAACAGCGAATCTCACTTCCCTGAC-ATTCCAAT-TC
1 AAAGATTGAAGCTACAACGGCGAATCTTACTTTCCAGGCGA-TGCAGTGGA
* * *
8828595 AAAGATTGAAGCCACAACGGCGAATCTTAC-TTCCAGGCGATGTAGCGGA
1 AAAGATTGAAGCTACAACGGCGAATCTTACTTTCCAGGCGATGCAGTGGA
* * * * * *
8828644 ACAGATTGAAG-TCACAACGGTGAATC-T-CGATTCCCGAC-ATTG-A-T-TA
1 AAAGATTGAAGCT-ACAACGGCGAATCTTAC-TTTCCAGGCGA-TGCAGTGGA
* * * *
8828690 AAAGATTGAAGCTACAACAGCGGATCTTACTTTCTTA-GCGTTGCAGTGGA
1 AAAGATTGAAGCTACAACGGCGAATCTTACTTTC-CAGGCGATGCAGTGGA
* * * * * * *
8828740 ACAGATTGAAGCTACAACAGC-AGATCTTACTTCCCTGAC-ATTGCAAT-TA
1 AAAGATTGAAGCTACAACGGCGA-ATCTTACTTTCCAGGCGA-TGCAGTGGA
* * * *
8828789 AGAAGATTGAAGCTACAACAGCGGATCTTACTTTCTTA-GCGTTGCAGTGGA
1 A-AAGATTGAAGCTACAACGGCGAATCTTACTTTC-CAGGCGATGCAGTGGA
* * *** * * * **
8828840 ACAGATTAAAGCTACAACAATGGATCTTGC-TTCC--CCGA--CAGTTAA
1 AAAGATTGAAGCTACAACGGCGAATCTTACTTTCCAGGCGATGCAGTGGA
* * * * *
8828885 AAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAAGTGGTGGCAGTGGA
1 AAAGATTGAAGCTACAACGGCGAATCTTACTTTCC-AGGCGAT-GCAGTGGA
* * * * ** **
8828937 ACAGATTGAAGCCTCCAACAGCCGGAATCTTGGC-TTCC-CCCG--GCAGTTAA
1 AAAGATTGAAG-CTACAAC-GGC-GAATCTT-ACTTTCCAGGCGATGCAGTGGA
*** * *
8828987 AAAGATTGAAGCTACAACATTTG-ATCTTACTTTTCTA-G-TATTGCAGTGGA
1 AAAGATTGAAGCTACAAC-GGCGAATCTTAC-TTTCCAGGCGA-TGCAGTGGA
* * * * * *
8829037 ACAGATTGAAGCTACAACAGCGGATCTTGC-TTCC--TC-A-GCAGT-TA
1 AAAGATTGAAGCTACAACGGCGAATCTTACTTTCCAGGCGATGCAGTGGA
* * *
8829081 AAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTA-G-TATTGCAGTGGA
1 AAAGATTGAAGCTACAACGGCGAATCTTACTTTCC-AGGCGA-TGCAGTGGA
* ** * * * **
8829131 ACAGATTGAAGCTACAACAACGGATCTTGC-TTCC--TCG--GCAGTTAA
1 AAAGATTGAAGCTACAACGGCGAATCTTACTTTCCAGGCGATGCAGTGGA
* * * * * *
8829176 AAAGATTGAAGCTACAACAGCGGATCTTACTTTTCTGGTGTTGCAGTGGA
1 AAAGATTGAAGCTACAACGGCGAATCTTACTTTCCAGGCGATGCAGTGGA
* * * * * **
8829226 ACAGATTGAAGCTACAACAGCGAATATTGC-TTCC--TCG--GCAGTTAA
1 AAAGATTGAAGCTACAACGGCGAATCTTACTTTCCAGGCGATGCAGTGGA
* * *
8829271 AAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTA-GC-ATTGCAGTAGA
1 AAAGATTGAAGCTACAACGGCGAATCTTACTTTCC-AGGCGA-TGCAGTGGA
* * ** * * * **
8829321 ACAGATTGACGCTACAACAACGGATCTTGC-TTCC--CCG--GCAGTTAA
1 AAAGATTGAAGCTACAACGGCGAATCTTACTTTCCAGGCGATGCAGTGGA
* * * * * *
8829366 AAAGGTTGAAGCTACAACAGCGGATCTTACTTTTCTA-GTGTTGCAGTGGA
1 AAAGATTGAAGCTACAACGGCGAATCTTAC-TTTCCAGGCGATGCAGTGGA
* * * * * **
8829416 ACAGATTGAAGCTACAACAGCGGATCTTGC-TTCC--TCGAT--AGTTAA
1 AAAGATTGAAGCTACAACGGCGAATCTTACTTTCCAGGCGATGCAGTGGA
* * *
8829461 AAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTA-GCGTTGCAGTGGA
1 AAAGATTGAAGCTACAACGGCGAATCTTACTTTCC-AGGCGATGCAGTGGA
* * * * * **
8829511 ACAA-ATTGAAGCTACAACAGC-AGATCTTACTTCCCCGAC-ATTGCAATTAA
1 A-AAGATTGAAGCTACAACGGCGA-ATCTTACTTTCCAGGCGA-TGCAGTGGA
*
8829561 AAAGATTGAAGCTACAACGGCGAATCTTACTTTCCAGGTGATGCAGTGGA
1 AAAGATTGAAGCTACAACGGCGAATCTTACTTTCCAGGCGATGCAGTGGA
* * * ** ** * **
8829611 ATAGATTGAAGCTACGACGGCGAATCTCAC-TTCCCCGATATTGCAATTCA
1 AAAGATTGAAGCTACAACGGCGAATCTTACTTTCCAGGCGA-TGCAGTGGA
* * * * * *
8829661 AAAGATTAAAGCCACAACGGCGAATCTTACTTCCCAAGCGATGTAG-CGA
1 AAAGATTGAAGCTACAACGGCGAATCTTACTTTCCAGGCGATGCAGTGGA
* * * * * * **
8829710 AACAGATTGAAGCCACGACGGTGAATCTCAC-TTCCTTA-AC-ATTGCAATTCA
1 AA-AGATTGAAGCTACAACGGCGAATCTTACTTTCC--AGGCGA-TGCAGTGGA
* * * * *
8829761 AAAGATTGAAGCTACAACGGTGAATCTTACTTCCCAAGCAATGCAGCGGA
1 AAAGATTGAAGCTACAACGGCGAATCTTACTTTCCAGGCGATGCAGTGGA
* * * * * * * * **
8829811 ACAGATTGAAGCTACGACGGTGAAACTCACTTCCCCA-AC-ATTGCAATTCA
1 AAAGATTGAAGCTACAACGGCGAATCTTACTT-TCCAGGCGA-TGCAGTGGA
* * * * *
8829861 AAAGATTGAAGCCACAACAGTGAATCTTACTTCCCAGGCGATGCAGCGGA
1 AAAGATTGAAGCTACAACGGCGAATCTTACTTTCCAGGCGATGCAGTGGA
* * * * * ** * * * **
8829911 ACAGATTGAAGCCACGACAGCGAATCTCACTTTCTTGAC-ATTGGAATTTA
1 AAAGATTGAAGCTACAACGGCGAATCTTACTTTCCAGGCGA-TGCAGTGGA
* * * *
8829961 AAATATTGAAGCCACAACGGCAAATCTTAC-TTCTCAGGCAATGCAGTGGA
1 AAAGATTGAAGCTACAACGGCGAATCTTACTTTC-CAGGCGATGCAGTGGA
* * * * ** ** * **
8830011 ATAGATTGAAGCTACGACGGTGAATCTCAC-TTCCCCGATATTGCAATTTA
1 AAAGATTGAAGCTACAACGGCGAATCTTACTTTCCAGGCGA-TGCAGTGGA
* * * *
8830061 AAAGATTGAAGCCACAACGGTGAATCTTAC-TTCTCAAGCAATGCAGTGGA
1 AAAGATTGAAGCTACAACGGCGAATCTTACTTTC-CAGGCGATGCAGTGGA
* * * * * * * * **
8830111 ATAGATTGAAGCTACGACGGTGAATCTCACTTCCCCGAC-ATTGCAATTCA
1 AAAGATTGAAGCTACAACGGCGAATCTTACTTTCCAGGCGA-TGCAGTGGA
* * *
8830161 AAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGA
1 AAAGATTGAAGCTACAACGGCGAATCTTACTTTCCAGGCGATGCAGTGGA
*
8830211 ACAGATTGAAGC
1 AAAGATTGAAGC
8830223 CACGACGCGG
Statistics
Matches: 1244, Mismatches: 332, Indels: 202
0.70 0.19 0.11
Matches are distributed among these distances:
44 29 0.02
45 167 0.13
46 37 0.03
47 25 0.02
48 28 0.02
49 117 0.09
50 776 0.62
51 31 0.02
52 15 0.01
53 7 0.01
54 1 0.00
55 10 0.01
56 1 0.00
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (50 bp):
AAAGATTGAAGCTACAACGGCGAATCTTACTTTCCAGGCGATGCAGTGGA
Found at i:8830229 original size:100 final size:99
Alignment explanation
Indices: 8828487--8830222 Score: 1367
Period size: 100 Copynumber: 17.7 Consensus size: 99
8828477 AAACCATAGT
* * * * * *
8828487 TTGCAATT-CAAAGATTGAAGCCACAACGGCGAATCTTACTTTCCAGGCGATGCAGCGGAGCAGA
1 TTGCAATTAAAAAGATTGAAGCTACAACAGCGAATCTTACTTCCCA-GCGATGCAGTGGAACAGA
*
8828551 TTGAAGCTACAACAGCGAATCTCACTTCCCTGACA
65 TTGAAGCTACAACAGCGAATCTCACTTCCCCGACA
* * * * * *
8828586 TTCCAATT-CAAAGATTGAAGCCACAACGGCGAATCTTACTT-CCAGGCGATGTAGCGGAACAGA
1 TTGCAATTAAAAAGATTGAAGCTACAACAGCGAATCTTACTTCCCA-GCGATGCAGTGGAACAGA
* *
8828649 TTGAAG-TCACAACGGTGAATCTCGA-TT-CCCGACA
65 TTGAAGCT-ACAACAGCGAATCTC-ACTTCCCCGACA
* ** *
8828683 TTG--ATT-AAAAGATTGAAGCTACAACAGCGGATCTTACTTTCTTAGCGTTGCAGTGGAACAGA
1 TTGCAATTAAAAAGATTGAAGCTACAACAGCGAATCTTAC-TTCCCAGCGATGCAGTGGAACAGA
* *
8828745 TTGAAGCTACAACAGC-AGATCTTACTTCCCTGACA
65 TTGAAGCTACAACAGCGA-ATCTCACTTCCCCGACA
* * ** *
8828780 TTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCTTAGCGTTGCAGTGGAACAGA
1 TTGCAATTAAAAAGATTGAAGCTACAACAGCGAATCTTAC-TTCCCAGCGATGCAGTGGAACAGA
* ** * **
8828845 TTAAAGCTACAACAATGGATCTTGCTTCCCCGACA
65 TTGAAGCTACAACAGCGAATCTCACTTCCCCGACA
* * * *
8828880 --G---TTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAAGTGGTGGCAGTGGAACA
1 TTGCAATTAAAAAGATTGAAGCTACAACAGCGAATCTTAC-TTCC-CAGCGAT-GCAGTGGAACA
* **
8828940 GATTGAAGCCTCCAACAGCCGGAATCTTGGCTTCCCC--C-
63 GATTGAAG-CTACAACAG-C-GAATC-TCACTTCCCCGACA
* * ** * * *
8828978 -GGCAGTTAAAAAGATTGAAGCTACAACATTTG-ATCTTACTTTTCTAG-TATTGCAGTGGAACA
1 TTGCAATTAAAAAGATTGAAGCTACAACA-GCGAATCTTAC-TTCCCAGCGA-TGCAGTGGAACA
* ** *
8829040 GATTGAAGCTACAACAGCGGATCTTGCTT--CC-TCA
63 GATTGAAGCTACAACAGCGAATCTCACTTCCCCGACA
* * * *
8829074 --GCAGTT-AAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAG-TATTGCAGTGGAACAG
1 TTGCAATTAAAAAGATTGAAGCTACAACAGCGAATCTTAC-TTCCCAGCGA-TGCAGTGGAACAG
* * ** *
8829135 ATTGAAGCTACAACAACGGATCTTGCTTCCTCG---
64 ATTGAAGCTACAACAGCGAATCTCACTTCCCCGACA
* * * ** * *
8829168 --GCAGTTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTTCTGGTGTTGCAGTGGAACAGA
1 TTGCAATTAAAAAGATTGAAGCTACAACAGCGAATCTTAC-TTCCCAGCGATGCAGTGGAACAGA
* ** *
8829231 TTGAAGCTACAACAGCGAATATTGCTTCCTCG---
65 TTGAAGCTACAACAGCGAATCTCACTTCCCCGACA
* * * *
8829263 --GCAGTTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGC-ATTGCAGTAGAACAG
1 TTGCAATTAAAAAGATTGAAGCTACAACAGCGAATCTTAC-TTCCCAGCGA-TGCAGTGGAACAG
* * * **
8829325 ATTGACGCTACAACAACGGATCTTGCTTCCCCG---
64 ATTGAAGCTACAACAGCGAATCTCACTTCCCCGACA
* * * * * * *
8829358 --GCAGTTAAAAAGGTTGAAGCTACAACAGCGGATCTTACTTTTCTAGTGTTGCAGTGGAACAGA
1 TTGCAATTAAAAAGATTGAAGCTACAACAGCGAATCTTAC-TTCCCAGCGATGCAGTGGAACAGA
* ** *
8829421 TTGAAGCTACAACAGCGGATCTTGCTTCCTCG--A
65 TTGAAGCTACAACAGCGAATCTCACTTCCCCGACA
* * * * *
8829454 -T--AGTTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAAA
1 TTGCAATTAAAAAGATTGAAGCTACAACAGCGAATCTTAC-TTCCCAGCGATGCAGTGGAACAGA
*
8829516 TTGAAGCTACAACAGC-AGATCTTACTTCCCCGACA
65 TTGAAGCTACAACAGCGA-ATCTCACTTCCCCGACA
* * * *
8829551 TTGCAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACTTTCCAGGTGATGCAGTGGAATAGA
1 TTGCAATTAAAAAGATTGAAGCTACAACAGCGAATCTTACTTCCCA-GCGATGCAGTGGAACAGA
* * *
8829616 TTGAAGCTACGACGGCGAATCTCACTTCCCCGATA
65 TTGAAGCTACAACAGCGAATCTCACTTCCCCGACA
* * * * * * *
8829651 TTGCAATTCAAAAGATTAAAGCCACAACGGCGAATCTTACTTCCCAAGCGATGTAGCGAAACAGA
1 TTGCAATTAAAAAGATTGAAGCTACAACAGCGAATCTTACTTCCC-AGCGATGCAGTGGAACAGA
* * * * ***
8829716 TTGAAGCCACGACGGTGAATCTCACTTCCTTAACA
65 TTGAAGCTACAACAGCGAATCTCACTTCCCCGACA
* * * * *
8829751 TTGCAATTCAAAAGATTGAAGCTACAACGGTGAATCTTACTTCCCAAGCAATGCAGCGGAACAGA
1 TTGCAATTAAAAAGATTGAAGCTACAACAGCGAATCTTACTTCCC-AGCGATGCAGTGGAACAGA
* * * * *
8829816 TTGAAGCTACGACGGTGAAACTCACTTCCCCAACA
65 TTGAAGCTACAACAGCGAATCTCACTTCCCCGACA
* * * *
8829851 TTGCAATTCAAAAGATTGAAGCCACAACAGTGAATCTTACTTCCCAGGCGATGCAGCGGAACAGA
1 TTGCAATTAAAAAGATTGAAGCTACAACAGCGAATCTTACTTCCCA-GCGATGCAGTGGAACAGA
* * * **
8829916 TTGAAGCCACGACAGCGAATCTCACTTTCTTGACA
65 TTGAAGCTACAACAGCGAATCTCACTTCCCCGACA
* * * * * * * * *
8829951 TTGGAATTTAAAATATTGAAGCCACAACGGCAAATCTTACTTCTCAGGCAATGCAGTGGAATAGA
1 TTGCAATTAAAAAGATTGAAGCTACAACAGCGAATCTTACTTCCCA-GCGATGCAGTGGAACAGA
* * * *
8830016 TTGAAGCTACGACGGTGAATCTCACTTCCCCGATA
65 TTGAAGCTACAACAGCGAATCTCACTTCCCCGACA
* * * * * * *
8830051 TTGCAATTTAAAAGATTGAAGCCACAACGGTGAATCTTACTTCTCAAGCAATGCAGTGGAATAGA
1 TTGCAATTAAAAAGATTGAAGCTACAACAGCGAATCTTACTTC-CCAGCGATGCAGTGGAACAGA
* * *
8830116 TTGAAGCTACGACGGTGAATCTCACTTCCCCGACA
65 TTGAAGCTACAACAGCGAATCTCACTTCCCCGACA
* * * *
8830151 TTGCAATTCAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAGA
1 TTGCAATTAAAAAGATTGAAGCTACAACAGCGAATCTTACTTCCCA-GCGATGCAGTGGAACAGA
8830216 TTGAAGC
65 TTGAAGC
8830223 CACGACGCGG
Statistics
Matches: 1426, Mismatches: 163, Indels: 95
0.85 0.10 0.06
Matches are distributed among these distances:
93 1 0.00
94 85 0.06
95 411 0.29
96 45 0.03
97 43 0.03
98 51 0.04
99 61 0.04
100 679 0.48
101 15 0.01
102 34 0.02
103 1 0.00
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.25
Consensus pattern (99 bp):
TTGCAATTAAAAAGATTGAAGCTACAACAGCGAATCTTACTTCCCAGCGATGCAGTGGAACAGAT
TGAAGCTACAACAGCGAATCTCACTTCCCCGACA
Found at i:8830236 original size:23 final size:23
Alignment explanation
Indices: 8830206--8830250 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
8830196 AGGCGATGCA
*
8830206 GCGGAACAGATTGAAGCCACGAC
1 GCGGAACAAATTGAAGCCACGAC
*
8830229 GCGGAACAAATTGAAGCTACGA
1 GCGGAACAAATTGAAGCCACGA
8830251 TGGTGAATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.38, C:0.22, G:0.29, T:0.11
Consensus pattern (23 bp):
GCGGAACAAATTGAAGCCACGAC
Found at i:8830404 original size:101 final size:100
Alignment explanation
Indices: 8830229--8830518 Score: 370
Period size: 101 Copynumber: 2.9 Consensus size: 100
8830219 AAGCCACGAC
* * * *
8830229 GCGGAACAAATTGAAGCTACGATGGTGAATCTCACTTCTCTGACATTGCAATTCAAAAGATTGAA
1 GCGGAACAGATTGAAGCTACGACGGTGAATCTCACTTCCCTGACATTGCAATTTAAAAGATTGAA
*
8830294 GCCACAACGGTGAATCTTACTTAT-CAAGGCGATACA
66 GCCACAACGGCGAATCTTACTT-TCCAA-GCGATACA
** *
8830330 GCGGAACAGATTGAAGCTACGACGACGAATCTCACTTCCCCGACATTGCAATTTAAAAGATTGAA
1 GCGGAACAGATTGAAGCTACGACGGTGAATCTCACTTCCCTGACATTGCAATTTAAAAGATTGAA
* *
8830395 GCCACAACGGCGAATCTTACTTTCCAAGCGGTGCA
66 GCCACAACGGCGAATCTTACTTTCCAAGCGATACA
* * ** *
8830430 GCGAAATAGATTGAAGCTACGACGGTGAATCTTGCTTCCCTAACATTGCAA-TTAAATAGATTGA
1 GCGGAACAGATTGAAGCTACGACGGTGAATCTCACTTCCCTGACATTGCAATTTAAA-AGATTGA
* **
8830494 AGCTACAACAACGAATCTTA-TTTCC
65 AGCCACAACGGCGAATCTTACTTTCC
8830519 CTGGCTGTGT
Statistics
Matches: 166, Mismatches: 21, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
99 10 0.06
100 74 0.45
101 82 0.49
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.24
Consensus pattern (100 bp):
GCGGAACAGATTGAAGCTACGACGGTGAATCTCACTTCCCTGACATTGCAATTTAAAAGATTGAA
GCCACAACGGCGAATCTTACTTTCCAAGCGATACA
Found at i:8830409 original size:50 final size:50
Alignment explanation
Indices: 8830255--8830511 Score: 130
Period size: 50 Copynumber: 5.1 Consensus size: 50
8830245 CTACGATGGT
* * *
8830255 GAATCTCACTTCTCTGACATTGCAATTCAAAAGATTGAAGCCACAACGGT
1 GAATCTCACTTCCCAGACATTGCAATTCAAAAGATTGAAGCCACAACGGC
* * * * * **** * * * *
8830305 GAATCTTACTTATCAAGGCGA-TACAGCGGAACAGATTGAAGCTACGACGAC
1 GAATCTCACTT-CCCAGAC-ATTGCAATTCAAAAGATTGAAGCCACAACGGC
* *
8830356 GAATCTCACTTCCCCGACATTGCAATTTAAAAGATTGAAGCCACAACGGC
1 GAATCTCACTTCCCAGACATTGCAATTCAAAAGATTGAAGCCACAACGGC
* * ** * * * *
8830406 GAATCTTACTTTCCA-AGCGGTGC-A-GCGAAATAGATTGAAGCTACGACGGT
1 GAATCTCACTTCCCAGA-CATTGCAATTC-AAA-AGATTGAAGCCACAACGGC
** * **
8830456 GAATCTTGCTTCCCTA-ACATTGCAATT-AAATAGATTGAAGCTACAACAAC
1 GAATCTCACTTCCC-AGACATTGCAATTCAAA-AGATTGAAGCCACAACGGC
8830506 GAATCT
1 GAATCT
8830512 TATTTCCCTG
Statistics
Matches: 149, Mismatches: 49, Indels: 18
0.69 0.23 0.08
Matches are distributed among these distances:
49 6 0.04
50 107 0.72
51 35 0.23
52 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (50 bp):
GAATCTCACTTCCCAGACATTGCAATTCAAAAGATTGAAGCCACAACGGC
Found at i:8830409 original size:224 final size:223
Alignment explanation
Indices: 8830015--8830453 Score: 698
Period size: 224 Copynumber: 2.0 Consensus size: 223
8830005 AGTGGAATAG
* *
8830015 ATTGAAGCTACGACGGTGAATCTCACTTCCCCGATATTGCAATTTAAAAGATTGAAGCCACAACG
1 ATTGAAGCTACGACGGTGAATCTCACTTCCCCGACATTGCAATTCAAAAGATTGAAGCCACAACG
* * * * **
8830080 GTGAATCTTACTTCTCAAGCAATGCAGTGGAATAGATTGAAGCTACGACGGTGAATCTCACTTCC
66 GTGAATCTTACTTATCAAGCAATACAGCGGAACAGATTGAAGCTACGACGACGAATCTCACTTCC
* *
8830145 CCGACATTGCAATTCAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGG
131 CCGACATTGCAATTCAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAAGCGATGCAGCGA
8830210 AACAGATTGAAGCCACGACGCGGAACAA
196 AACAGATTGAAGCCACGACGCGGAACAA
* * *
8830238 ATTGAAGCTACGATGGTGAATCTCACTTCTCTGACATTGCAATTCAAAAGATTGAAGCCACAACG
1 ATTGAAGCTACGACGGTGAATCTCACTTCCCCGACATTGCAATTCAAAAGATTGAAGCCACAACG
*
8830303 GTGAATCTTACTTATCAAGGCGATACAGCGGAACAGATTGAAGCTACGACGACGAATCTCACTTC
66 GTGAATCTTACTTATCAA-GCAATACAGCGGAACAGATTGAAGCTACGACGACGAATCTCACTTC
* * *
8830368 CCCGACATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTTCCAAGCGGTGCAGCG
130 CCCGACATTGCAATTCAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAAGCGATGCAGCG
* *
8830433 AAATAGATTGAAGCTACGACG
195 AAACAGATTGAAGCCACGACG
8830454 GTGAATCTTG
Statistics
Matches: 196, Mismatches: 19, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
223 77 0.39
224 119 0.61
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.22
Consensus pattern (223 bp):
ATTGAAGCTACGACGGTGAATCTCACTTCCCCGACATTGCAATTCAAAAGATTGAAGCCACAACG
GTGAATCTTACTTATCAAGCAATACAGCGGAACAGATTGAAGCTACGACGACGAATCTCACTTCC
CCGACATTGCAATTCAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAAGCGATGCAGCGA
AACAGATTGAAGCCACGACGCGGAACAA
Found at i:8830481 original size:100 final size:100
Alignment explanation
Indices: 8830238--8830561 Score: 366
Period size: 100 Copynumber: 3.2 Consensus size: 100
8830228 CGCGGAACAA
* * * *
8830238 ATTGAAGCTACGATGGTGAATCTCACTTCTCTGACATTGCAATTCAAAAGATTGAAGCCACAACG
1 ATTGAAGCTACGACGGCGAATCTCACTTCCCTGACATTGCAATTTAAAAGATTGAAGCCACAACG
* * * * *
8830303 GTGAATCTTACTTAT-CAAGGCGATACAGCGGAACAG
66 GCGAATCTTACTT-TCCAA-GCGGTGCAGCGAAATAG
* *
8830339 ATTGAAGCTACGACGACGAATCTCACTTCCCCGACATTGCAATTTAAAAGATTGAAGCCACAACG
1 ATTGAAGCTACGACGGCGAATCTCACTTCCCTGACATTGCAATTTAAAAGATTGAAGCCACAACG
8830404 GCGAATCTTACTTTCCAAGCGGTGCAGCGAAATAG
66 GCGAATCTTACTTTCCAAGCGGTGCAGCGAAATAG
* ** * *
8830439 ATTGAAGCTACGACGGTGAATCTTGCTTCCCTAACATTGCAA-TTAAATAGATTGAAGCTACAAC
1 ATTGAAGCTACGACGGCGAATCTCACTTCCCTGACATTGCAATTTAAA-AGATTGAAGCCACAAC
** ** * * ** *
8830503 AACGAATCTTA-TTTCCCTGGCTGTGTAATGAAGTAG
65 GGCGAATCTTACTTT-CCAAGCGGTGCAGCGAAATAG
8830539 ATTGAAGCTACGACGGCGAATCT
1 ATTGAAGCTACGACGGCGAATCT
8830562 AATTTCTTCG
Statistics
Matches: 192, Mismatches: 28, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
99 8 0.04
100 110 0.57
101 74 0.39
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (100 bp):
ATTGAAGCTACGACGGCGAATCTCACTTCCCTGACATTGCAATTTAAAAGATTGAAGCCACAACG
GCGAATCTTACTTTCCAAGCGGTGCAGCGAAATAG
Found at i:8830567 original size:50 final size:50
Alignment explanation
Indices: 8830337--8830567 Score: 182
Period size: 50 Copynumber: 4.6 Consensus size: 50
8830327 ACAGCGGAAC
* * * ** *
8830337 AGATTGAAGCTACGACGACGAATCTCACTTCCCCGACATTGCAATTTAAA-
1 AGATTGAAGCTACGACGGCGAATCTTATTTCCCTAACATTGCAA-TGAAAT
* * ** **
8830387 AGATTGAAGCCACAACGGCGAATCTTACTTT-CC-AAGCGGTGCAGCGAAAT
1 AGATTGAAGCTACGACGGCGAATCTTA-TTTCCCTAA-CATTGCAATGAAAT
* ** *
8830437 AGATTGAAGCTACGACGGTGAATCTTGCTTCCCTAACATTGCAATTAAAT
1 AGATTGAAGCTACGACGGCGAATCTTATTTCCCTAACATTGCAATGAAAT
* ** ** * *
8830487 AGATTGAAGCTACAACAACGAATCTTATTTCCCTGGC-TGTGTAATGAAGT
1 AGATTGAAGCTACGACGGCGAATCTTATTTCCCTAACAT-TGCAATGAAAT
*
8830537 AGATTGAAGCTACGACGGCGAATCTAATTTC
1 AGATTGAAGCTACGACGGCGAATCTTATTTC
8830568 TTCGACATCA
Statistics
Matches: 139, Mismatches: 36, Indels: 12
0.74 0.19 0.06
Matches are distributed among these distances:
49 7 0.05
50 128 0.92
51 4 0.03
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (50 bp):
AGATTGAAGCTACGACGGCGAATCTTATTTCCCTAACATTGCAATGAAAT
Found at i:8830772 original size:132 final size:132
Alignment explanation
Indices: 8830615--8830940 Score: 356
Period size: 132 Copynumber: 2.5 Consensus size: 132
8830605 CTTATCTCCT
* ** * *
8830615 TAAGCAGTAGTGGAGCAGATCGAAGATGGCAG-ATTTTA-CCTCCCTGTGACTA-CAGTGAAGTA
1 TAAGCAGTAGTGGAGCAGATCGAAGATGG-AGAATCTTATCCTCCCAAT-AC-AGCAGAGAAGCA
* *
8830677 CATAGAA-TCTAATTATTCTATCTCCCTAAGCAGTAGTGGAGTAGGTCAAAGATTGCAGATTCTG
63 CATAGAAGTC-AATTATCCTATCACCCTAAGCAGTAGTGGAGTAGGTCAAAGATTGCAGATTCTG
8830741 TCACCC
127 TCACCC
* ** * *
8830747 TAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATTTTCCCAATACAGTAGAGAAGCAGAT
1 TAAGCAGTAGTGGAGCAGATCGAAGATGGAGAATCTTATCCTCCCAATACAGCAGAGAAGCACAT
** * * ** *
8830812 TTAAGTCATTTGTCCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCTC
66 AGAAGTCAATTATCCTATCACCCTAAGCAGTAGTGGAGTAGGTCAAAGATTGCAGATTCTGTCAC
8830877 CC
131 CC
* * * **
8830879 TAAGAAGTAGTGGAACAGATCGAAGAT-GATGAATCTTATCTTCCCAATACAGTGGAGAAGCA
1 TAAGCAGTAGTGGAGCAGATCGAAGATGGA-GAATCTTATCCTCCCAATACAGCAGAGAAGCA
8830941 GATTTAAGTC
Statistics
Matches: 165, Mismatches: 24, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
131 3 0.02
132 155 0.94
133 7 0.04
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.27
Consensus pattern (132 bp):
TAAGCAGTAGTGGAGCAGATCGAAGATGGAGAATCTTATCCTCCCAATACAGCAGAGAAGCACAT
AGAAGTCAATTATCCTATCACCCTAAGCAGTAGTGGAGTAGGTCAAAGATTGCAGATTCTGTCAC
CC
Found at i:8830773 original size:44 final size:44
Alignment explanation
Indices: 8830691--8830905 Score: 143
Period size: 44 Copynumber: 4.9 Consensus size: 44
8830681 GAATCTAATT
* * *
8830691 ATTCTATCTCCCTAAGCAGTAGTGGAGTAGGTCAAAGATTGCAG
1 ATTCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATTGCAG
* * **
8830735 ATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCGAAGA-TGGTG
1 ATTCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATTGCAG
* * * * * ** *
8830778 AATCTTATTTTCCC-AATACAGTAGAGAAGCAGATTTAAGTCATT--TG
1 ATTC-TA-TCTCCCTAA-GCAGTAGTGGAGCAGATCGAAG--ATTGCAG
* * * * *
8830824 -TCCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAG
1 ATTCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATTGCAG
* * *
8830867 ATTCTGTCTCCCTAAGAAGTAGTGGAACAGATCGAAGAT
1 ATTCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAT
8830906 GATGAATCTT
Statistics
Matches: 126, Mismatches: 35, Indels: 20
0.70 0.19 0.11
Matches are distributed among these distances:
41 3 0.02
43 27 0.21
44 70 0.56
45 22 0.17
46 2 0.02
47 1 0.01
48 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (44 bp):
ATTCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATTGCAG
Found at i:8830960 original size:132 final size:132
Alignment explanation
Indices: 8830694--8830967 Score: 440
Period size: 132 Copynumber: 2.1 Consensus size: 132
8830684 TCTAATTATT
*
8830694 CTATCTCCCTAAGCAGTAGTGGAGTAGGTCAAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTG
1 CTATCTCCCTAAGCAGTAGTGGAGTAGGTCAAAGATTGCAGATTCTGTCACCCTAAGAAGTAGTG
* * * **
8830759 GAGCAGATCGAAGATGGTGAATCTTATTTTCCCAATACAGTAGAGAAGCAGATTTAAGTCATTTG
66 GAACAGATCGAAGATGATGAATCTTATCTTCCCAATACAGTAGAGAAGCAGATTTAAGTCATTAA
8830824 TC
131 TC
* ** *
8830826 CTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCTCCCTAAGAAGTAGTG
1 CTATCTCCCTAAGCAGTAGTGGAGTAGGTCAAAGATTGCAGATTCTGTCACCCTAAGAAGTAGTG
* *
8830891 GAACAGATCGAAGATGATGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGTCGTTAA
66 GAACAGATCGAAGATGATGAATCTTATCTTCCCAATACAGTAGAGAAGCAGATTTAAGTCATTAA
8830956 TC
131 TC
8830958 CTATCTCCCT
1 CTATCTCCCT
8830968 GAAGTTACAG
Statistics
Matches: 129, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
132 129 1.00
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (132 bp):
CTATCTCCCTAAGCAGTAGTGGAGTAGGTCAAAGATTGCAGATTCTGTCACCCTAAGAAGTAGTG
GAACAGATCGAAGATGATGAATCTTATCTTCCCAATACAGTAGAGAAGCAGATTTAAGTCATTAA
TC
Found at i:8831224 original size:218 final size:218
Alignment explanation
Indices: 8830937--8831508 Score: 828
Period size: 218 Copynumber: 2.6 Consensus size: 218
8830927 ACAGTGGAGA
* * **
8830937 AGCAGATTTAAGTCGTTAATCCTATCTCCCTGAAGTTACAGAGGAGCGGGTTAAAGTAATAGATC
1 AGCAGATTGAAGTCGATAATCCTATCTCCCTGAAGTTACAGAGGAGAAGGTTAAAGTAATAGATC
8831002 TTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAAGTTGCAGCGGA
66 TTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAAGTTGCAGCGGA
*
8831067 GTAGACTAAGTAAGCAGGTCTAATCCCCCTAAAGTTACAGTGGGGCAGATCAAAGATGGCAAATC
131 GTAGACTAAGTAAGCAGGTCTAATCCCCCTAAAGTTACAGTAGGGCAGATCAAAGATGGCAAATC
8831132 TTATCTCCCTGAAGTTACAGTGG
196 TTATCTCCCTGAAGTTACAGTGG
* * *
8831155 AGCAGATTGAAGCCGATGATCCTATCTCCCTGAAGTTGCAGAGGAGAAGGTTAAAGTAATAGATC
1 AGCAGATTGAAGTCGATAATCCTATCTCCCTGAAGTTACAGAGGAGAAGGTTAAAGTAATAGATC
* *
8831220 TTATCTTTCTGAAGTTGTAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAAGTTGCAGCGGA
66 TTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAAGTTGCAGCGGA
* * * * * * * *
8831285 GCAGACTGAGTAAGCAGGTCTTATCCTCCTGAAGTTGCAGTAGGGCAGATCGAAGATGGCTAATC
131 GTAGACTAAGTAAGCAGGTCTAATCCCCCTAAAGTTACAGTAGGGCAGATCAAAGATGGCAAATC
* *
8831350 TTATCTCCCTGAGGTTGCAGTGG
196 TTATCTCCCTGAAGTTACAGTGG
* * *
8831373 AGCAGATTGAAGTCGATAATCCTATCTCCCTG-AGATTACAGTGGAGCAA-ATTGAAA-TAAAAG
1 AGCAGATTGAAGTCGATAATCCTATCTCCCTGAAG-TTACAGAGGAG-AAGGTT-AAAGTAATAG
* * * *
8831435 ATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCATCTA-GTCTTATCTCCATGAAGTTACAG
63 ATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATC-AGGTCTTATCTCCCTGAAGTTGCAG
*
8831499 TGGAGTAGAC
127 CGGAGTAGAC
8831509 AGAAAGAAAT
Statistics
Matches: 316, Mismatches: 34, Indels: 8
0.88 0.09 0.02
Matches are distributed among these distances:
217 2 0.01
218 308 0.97
219 6 0.02
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.27
Consensus pattern (218 bp):
AGCAGATTGAAGTCGATAATCCTATCTCCCTGAAGTTACAGAGGAGAAGGTTAAAGTAATAGATC
TTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAAGTTGCAGCGGA
GTAGACTAAGTAAGCAGGTCTAATCCCCCTAAAGTTACAGTAGGGCAGATCAAAGATGGCAAATC
TTATCTCCCTGAAGTTACAGTGG
Found at i:8831225 original size:44 final size:44
Alignment explanation
Indices: 8830959--8831467 Score: 203
Period size: 44 Copynumber: 11.7 Consensus size: 44
8830949 TCGTTAATCC
* * *
8830959 TATCTCCCTGAAGTTACAGAGGAGCGGGTTAAAGTAATAGATCT
1 TATCTCCCTGAAGTTGCAGAGGAGCAGATTAAAGTAATAGATCT
* * * * *
8831003 TATCTCTCTGAAGTTGCAGTA-GAGTAGA-T--CG-CATCAGGTCT
1 TATCTCCCTGAAGTTGCAG-AGGAGCAGATTAAAGTAAT-AGATCT
* * * * *
8831044 TATCTCCCTGAAGTTGCAGCGGAGTAGACT-AAGTAAGCAGGTCT
1 TATCTCCCTGAAGTTGCAGAGGAGCAGATTAAAGTAA-TAGATCT
* * * * * * * *** *
8831088 AATCCCCCTAAAGTTACAGTGGGGCAGATCAAAGATGGCAAATCT
1 TATCTCCCTGAAGTTGCAGAGGAGCAGATTAAAG-TAATAGATCT
* * * ** *
8831133 TATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCCGAT-GATCC
1 TATCTCCCTGAAGTTGCAGAGGAGCAGATTAAAG-TAATAGATCT
* *
8831177 TATCTCCCTGAAGTTGCAGAGGAGAAGGTTAAAGTAATAGATCT
1 TATCTCCCTGAAGTTGCAGAGGAGCAGATTAAAGTAATAGATCT
** * * * * *
8831221 TATCTTTCTGAAGTTGTAGTA-GAGTAGA-T--CG-CATCAGGTCT
1 TATCTCCCTGAAGTTGCAG-AGGAGCAGATTAAAGTAAT-AGATCT
* * * * *
8831262 TATCTCCCTGAAGTTGCAGCGGAGCAGACT-GAGTAAGCAGGTCT
1 TATCTCCCTGAAGTTGCAGAGGAGCAGATTAAAGTAA-TAGATCT
** **
8831306 TATC-CTCCTGAAGTTGCAGTAGG-GCAGATCGAAGATGGCTA-ATCT
1 TATCTC-CCTGAAGTTGCAG-AGGAGCAGATTAAAG-T-AATAGATCT
* * * * *
8831351 TATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGTCGATA-ATCC
1 TATCTCCCTGAAGTTGCAGAGGAGCAGATTAAAGT-AATAGATCT
* * * *
8831395 TATCTCCCTG-AGATTACAGTGGAGCAAATTGAAA-TAAAAGATCT
1 TATCTCCCTGAAG-TTGCAGAGGAGCAGATT-AAAGTAATAGATCT
* *
8831439 TATCTCTCTGAAGTTACAGTA-GAGCAGAT
1 TATCTCCCTGAAGTTGCAG-AGGAGCAGAT
8831468 CGCATCTAGT
Statistics
Matches: 350, Mismatches: 86, Indels: 58
0.71 0.17 0.12
Matches are distributed among these distances:
40 4 0.01
41 59 0.17
42 2 0.01
43 10 0.03
44 195 0.56
45 76 0.22
46 4 0.01
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGAGGAGCAGATTAAAGTAATAGATCT
Found at i:8831307 original size:85 final size:85
Alignment explanation
Indices: 8831177--8831336 Score: 196
Period size: 85 Copynumber: 1.9 Consensus size: 85
8831167 CCGATGATCC
** * * * *
8831177 TATCTCCCTGAAGTTGCAGAGGAGAAGGTTAAAGTAATAGATCTTATCTTTCTGAAGTTGTAGTA
1 TATCTCCCTGAAGTTGCAGAGGAGAAGACTAAAGTAACAGATCTTATCCTCCTGAAGTTGCAGTA
*
8831242 GAGTAGATCGCATCAGGTCT
66 GAGCAGATCGCATCAGGTCT
* * * *
8831262 TATCTCCCTGAAGTTGCAGCGGAGCAGACT-GAGTAAGCAGGTCTTATCCTCCTGAAGTTGCAGT
1 TATCTCCCTGAAGTTGCAGAGGAGAAGACTAAAGTAA-CAGATCTTATCCTCCTGAAGTTGCAGT
*
8831326 AGGGCAGATCG
65 AGAGCAGATCG
8831337 AAGATGGCTA
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
84 5 0.08
85 57 0.92
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (85 bp):
TATCTCCCTGAAGTTGCAGAGGAGAAGACTAAAGTAACAGATCTTATCCTCCTGAAGTTGCAGTA
GAGCAGATCGCATCAGGTCT
Found at i:8831797 original size:88 final size:88
Alignment explanation
Indices: 8831648--8831836 Score: 297
Period size: 88 Copynumber: 2.1 Consensus size: 88
8831638 GTGGAGCAAG
* *
8831648 TTGAAAATACAAGTCTTATCCCCCTAACGTTGCAGTGGAGCAGACTAAAACCACGAATCTCGTCC
1 TTGAAGATACAAGTCTTATCCCCCTAACGTTGCAGTGGAGCAGACTAAAACCACAAATCTCGTCC
* *
8831713 CCTTGAAATTGTTGCGAATAATA
66 CCTTGAAATTGTTGCGAAGAAAA
* * * *
8831736 TTGAAGATACAAGTCTTATCTCCCTGACGTTGTAGTGGAGCAGACTAAAACCATAAATCTCGTCC
1 TTGAAGATACAAGTCTTATCCCCCTAACGTTGCAGTGGAGCAGACTAAAACCACAAATCTCGTCC
8831801 CCTTGAAATTGTTGCGAAGAAAA
66 CCTTGAAATTGTTGCGAAGAAAA
*
8831824 TTGAAGCTACAAG
1 TTGAAGATACAAG
8831837 CCATATTTCT
Statistics
Matches: 92, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
88 92 1.00
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (88 bp):
TTGAAGATACAAGTCTTATCCCCCTAACGTTGCAGTGGAGCAGACTAAAACCACAAATCTCGTCC
CCTTGAAATTGTTGCGAAGAAAA
Found at i:8832557 original size:13 final size:14
Alignment explanation
Indices: 8832539--8832567 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
8832529 TTCTTGCTTG
8832539 TTTTATTTTAT-TT
1 TTTTATTTTATCTT
8832552 TTTTATTTTATCTT
1 TTTTATTTTATCTT
8832566 TT
1 TT
8832568 ACATAAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTATTTTATCTT
Found at i:8833614 original size:23 final size:24
Alignment explanation
Indices: 8833553--8833623 Score: 67
Period size: 23 Copynumber: 2.9 Consensus size: 24
8833543 TACACACTTT
8833553 TTTTATAA-CGTATATACTTATATTA
1 TTTTATAATC-TATATAC-TATATTA
* *
8833578 -TATATATATATATATAC-ATATTA
1 TTTTATA-ATCTATATACTATATTA
8833601 TTTTATAATCTATATACCTATAT
1 TTTTATAATCTATATA-CTATAT
8833624 ATGTAAATGT
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
23 14 0.38
24 11 0.30
25 12 0.32
ACGTcount: A:0.39, C:0.08, G:0.01, T:0.51
Consensus pattern (24 bp):
TTTTATAATCTATATACTATATTA
Found at i:8835136 original size:20 final size:20
Alignment explanation
Indices: 8835095--8835136 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
8835085 TTAATAATAG
*
8835095 AAAAATTAAAATGGTTAAAA
1 AAAAATTAAAATAGTTAAAA
8835115 AAAAATTAAAATTAGTTTAAAA
1 AAAAATTAAAA-TAG-TTAAAA
8835137 TATCAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 11 0.58
21 2 0.11
22 6 0.32
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (20 bp):
AAAAATTAAAATAGTTAAAA
Found at i:8835636 original size:19 final size:20
Alignment explanation
Indices: 8835600--8835651 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
8835590 AAAAATTACA
* *
8835600 AAAAATCCAAAGTAATTT-T
1 AAAAATTCAAAATAATTTAT
8835619 CAAAAATTCAAAAT-ATTTAT
1 -AAAAATTCAAAATAATTTAT
8835639 AAAAATTCAAAAT
1 AAAAATTCAAAAT
8835652 TTATATTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.58, C:0.10, G:0.02, T:0.31
Consensus pattern (20 bp):
AAAAATTCAAAATAATTTAT
Found at i:8835677 original size:8 final size:8
Alignment explanation
Indices: 8835664--8835710 Score: 53
Period size: 8 Copynumber: 6.0 Consensus size: 8
8835654 ATATTTTAAA
8835664 AAAAATTT
1 AAAAATTT
8835672 AAAAATTTT
1 AAAAA-TTT
*
8835681 AAAAATAT
1 AAAAATTT
8835689 -AAAA-TT
1 AAAAATTT
*
8835695 AAAATTTT
1 AAAAATTT
8835703 AAAAATTT
1 AAAAATTT
8835711 TCTAAAATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
6 1 0.03
7 7 0.22
8 16 0.50
9 8 0.25
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
AAAAATTT
Found at i:8835717 original size:42 final size:43
Alignment explanation
Indices: 8835613--8835719 Score: 107
Period size: 42 Copynumber: 2.5 Consensus size: 43
8835603 AATCCAAAGT
* *
8835613 AATTTTCAAAAATTC-AAAATATTTATAAAAATTCAAAATTTA
1 AATTTTAAAAAATTCTAAAATATTTATAAAAATTCAAAATTAA
*
8835655 TATTTTAAAAAAAATT-TAAAA-ATTT-TAAAAATAT-AAAATTAA
1 AATTTT--AAAAAATTCTAAAATATTTATAAAAAT-TCAAAATTAA
*
8835697 AATTTTAAAAATTTTCTAAAATA
1 AATTTTAAAAA-ATTCTAAAATA
8835720 ATAATTTTGG
Statistics
Matches: 53, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
40 5 0.09
41 2 0.04
42 29 0.55
43 6 0.11
44 11 0.21
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (43 bp):
AATTTTAAAAAATTCTAAAATATTTATAAAAATTCAAAATTAA
Found at i:8842045 original size:110 final size:110
Alignment explanation
Indices: 8841928--8842128 Score: 255
Period size: 110 Copynumber: 1.8 Consensus size: 110
8841918 CACTTTTTAA
* * * ** *
8841928 TATTAAAAAATAATTGTTTTTT-GGTG-TTAGCACACTAATAGTCGATATTCATTTTATCAGATA
1 TATTAAAAAAAAATT-TTTTTTGGGTGCTGA-CACACTAATAGTCGACACCCACTTTATCAGATA
*
8841991 AAAAAATTTTGGG-TTGGGGAACTAGATGGTCAACATTACCTTTTTCT
64 AAAAAA-TTTGGGTTTAGGGAACTAGATGGTCAACATTACCTTTTTCT
* * * *
8842038 TATTAAAAAAAAATTTTTTTTGGGTGCTGACGCACTAATGGTTGACACCCACTTTATTAGATAAA
1 TATTAAAAAAAAATTTTTTTTGGGTGCTGACACACTAATAGTCGACACCCACTTTATCAGATAAA
8842103 AAAATTTGGGTTTAGGGAACTAGATG
66 AAAATTTGGGTTTAGGGAACTAGATG
8842129 TCTGACATCA
Statistics
Matches: 77, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
109 12 0.16
110 63 0.82
111 2 0.03
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.37
Consensus pattern (110 bp):
TATTAAAAAAAAATTTTTTTTGGGTGCTGACACACTAATAGTCGACACCCACTTTATCAGATAAA
AAAATTTGGGTTTAGGGAACTAGATGGTCAACATTACCTTTTTCT
Found at i:8844167 original size:19 final size:19
Alignment explanation
Indices: 8844143--8844188 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 19
8844133 GATCATATCA
8844143 TATTTTTTGAAT-ATGATTT
1 TATTTTTTGAATCAT-ATTT
8844162 TATTTTTT---TCATATTT
1 TATTTTTTGAATCATATTT
8844178 TATTTTTTGAA
1 TATTTTTTGAA
8844189 ATTGCATACA
Statistics
Matches: 23, Mismatches: 0, Indels: 8
0.74 0.00 0.26
Matches are distributed among these distances:
16 13 0.57
17 2 0.09
19 8 0.35
ACGTcount: A:0.24, C:0.02, G:0.07, T:0.67
Consensus pattern (19 bp):
TATTTTTTGAATCATATTT
Found at i:8848381 original size:90 final size:90
Alignment explanation
Indices: 8848127--8848381 Score: 237
Period size: 90 Copynumber: 2.8 Consensus size: 90
8848117 ACTAATATTC
* * * ** * * * * * *
8848127 GAAAATATATAATTCGACCAACAAATAGCACATACTAAATTTTATTTACAAATAAAAAAACAATA
1 GAAAATATAAAATTCGAACGACAAATAATACAGACTAAAATATATTTACAGATACAAAAATAATA
* * *
8848192 TGAACATTTTAGAAATTTGATATAA
66 TGAACATTTTACAAAATTAATATAA
* * * *
8848217 GAAAATATAAAATTCGACCGACAAATAATACAGACTAAAATATTTTTACAGATTCAAAAATGATA
1 GAAAATATAAAATTCGAACGACAAATAATACAGACTAAAATATATTTACAGATACAAAAATAATA
** *
8848282 CAAATATTTTACAAAATTAATATACA
66 TGAACATTTTACAAAATTAATATA-A
* * *
8848308 -AAAATATGAAATTC-AACGAACAAATAATATAGACTAAAAT-TGATTTACGGATACAAAAATAA
1 GAAAATATAAAATTCGAACG-ACAAATAATACAGACTAAAATAT-ATTTACAGATACAAAAATAA
*
8848370 TATGAAGATTTT
64 TATGAACATTTT
8848382 GAATAATAGT
Statistics
Matches: 133, Mismatches: 29, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
89 4 0.03
90 128 0.96
91 1 0.01
ACGTcount: A:0.53, C:0.11, G:0.08, T:0.29
Consensus pattern (90 bp):
GAAAATATAAAATTCGAACGACAAATAATACAGACTAAAATATATTTACAGATACAAAAATAATA
TGAACATTTTACAAAATTAATATAA
Found at i:8854125 original size:28 final size:28
Alignment explanation
Indices: 8854078--8854131 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
8854068 TTTTTAATGT
8854078 TTATTATAACATAATAATATATTATACC
1 TTATTATAACATAATAATATATTATACC
*
8854106 TTATTATAATAT-ATATATATATTATA
1 TTATTATAACATAATA-ATATATTATA
8854132 TTAATAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 3 0.12
28 21 0.88
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (28 bp):
TTATTATAACATAATAATATATTATACC
Found at i:8858897 original size:37 final size:37
Alignment explanation
Indices: 8858842--8858933 Score: 112
Period size: 37 Copynumber: 2.5 Consensus size: 37
8858832 GACAGATCAA
* * ** *
8858842 TGATTCCTTGTAAGGAAAAGATGAAGATGAATAGGAG
1 TGATTCCTTGCAAAGAAAAGACAAAGATGAACAGGAG
*
8858879 TGATTCCTTGCAAAGAAAAGACAAAGATGAACATGAG
1 TGATTCCTTGCAAAGAAAAGACAAAGATGAACAGGAG
* *
8858916 TAATTCTTTGCAAAGAAA
1 TGATTCCTTGCAAAGAAA
8858934 TTGATCTTGT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.43, C:0.10, G:0.23, T:0.24
Consensus pattern (37 bp):
TGATTCCTTGCAAAGAAAAGACAAAGATGAACAGGAG
Found at i:8860602 original size:19 final size:19
Alignment explanation
Indices: 8860578--8860616 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
8860568 TTGACTCCAT
*
8860578 TTCAAATTCATGTATTTCG
1 TTCAAAGTCATGTATTTCG
8860597 TTCAAAGTCATGTATTTCG
1 TTCAAAGTCATGTATTTCG
8860616 T
1 T
8860617 AGTCAACACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.15, G:0.13, T:0.46
Consensus pattern (19 bp):
TTCAAAGTCATGTATTTCG
Found at i:8870676 original size:17 final size:17
Alignment explanation
Indices: 8870654--8870708 Score: 85
Period size: 17 Copynumber: 3.3 Consensus size: 17
8870644 AAATACTCTC
8870654 TCTCTTTGCTCTCTCAT
1 TCTCTTTGCTCTCTCAT
8870671 TCTCTTTGCTCTCTCAT
1 TCTCTTTGCTCTCTCAT
* *
8870688 TCTCTTTGTTCT-TTAT
1 TCTCTTTGCTCTCTCAT
8870704 TCTCT
1 TCTCT
8870709 GTCGTTTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
16 8 0.22
17 28 0.78
ACGTcount: A:0.05, C:0.31, G:0.05, T:0.58
Consensus pattern (17 bp):
TCTCTTTGCTCTCTCAT
Found at i:8874134 original size:24 final size:25
Alignment explanation
Indices: 8874100--8874163 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
8874090 GTACATGTAT
* *
8874100 GCTCATACGAGCTGTA-AACGGTAA
1 GCTCATCCGAGCTGAATAACGGTAA
*
8874124 GCTCCTCCGAGCTGAATAACGGTAA
1 GCTCATCCGAGCTGAATAACGGTAA
*
8874149 GCTCATGCGAGCTGA
1 GCTCATCCGAGCTGA
8874164 GTATTCGTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 13 0.38
25 21 0.62
ACGTcount: A:0.28, C:0.25, G:0.27, T:0.20
Consensus pattern (25 bp):
GCTCATCCGAGCTGAATAACGGTAA
Found at i:8876301 original size:3 final size:3
Alignment explanation
Indices: 8876293--8876348 Score: 87
Period size: 3 Copynumber: 18.3 Consensus size: 3
8876283 AAAATGAATA
8876293 AAT AAT AAT AAT AAT AAT AAT AAT AAT AGA- AAT AAT AAT AAT CAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT -AAT
8876339 AAT AAT AAT A
1 AAT AAT AAT A
8876349 CAAGATTAAT
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
2 1 0.02
3 45 0.90
4 4 0.08
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:8876367 original size:28 final size:27
Alignment explanation
Indices: 8876296--8876351 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 27
8876286 ATGAATAAAT
*
8876296 AATAATAATAATAATAATAATAATAGA
1 AATAATAATAATAATAATAATAATACA
8876323 AATAATAATAATCAATAATAATAATACA
1 AATAATAATAAT-AATAATAATAATACA
8876351 A
1 A
8876352 GATTAATGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
27 12 0.44
28 15 0.56
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.29
Consensus pattern (27 bp):
AATAATAATAATAATAATAATAATACA
Found at i:8883475 original size:3 final size:3
Alignment explanation
Indices: 8883467--8883501 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
8883457 AAAATGAATA
*
8883467 AAT AAT AAT AAT AGT AAT AAT AAT CAAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT A
8883502 CAAGATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:8887681 original size:45 final size:46
Alignment explanation
Indices: 8887586--8887683 Score: 171
Period size: 46 Copynumber: 2.2 Consensus size: 46
8887576 TGTGTATATC
* *
8887586 TATTTTCTTTTAATTAGGAGATTAGATGCTAAAGTTTAGGAGATAA
1 TATTTTGTTTTAATTAGGAGATTAGATGCTAAAGTTTAAGAGATAA
8887632 TATTTTGTTTTAATTAGGAGATTAGATGCT-AAGTTTAAGAGATAA
1 TATTTTGTTTTAATTAGGAGATTAGATGCTAAAGTTTAAGAGATAA
8887677 TATTTTG
1 TATTTTG
8887684 ATTTCTATCT
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
45 21 0.42
46 29 0.58
ACGTcount: A:0.34, C:0.03, G:0.19, T:0.44
Consensus pattern (46 bp):
TATTTTGTTTTAATTAGGAGATTAGATGCTAAAGTTTAAGAGATAA
Found at i:8892257 original size:45 final size:46
Alignment explanation
Indices: 8892162--8892259 Score: 171
Period size: 46 Copynumber: 2.2 Consensus size: 46
8892152 TGTGTATATC
* *
8892162 TATTTTCTTTTAATTAGGAGATTAGATGCTAAAGTTTAGGAGATAA
1 TATTTTGTTTTAATTAGGAGATTAGATGCTAAAGTTTAAGAGATAA
8892208 TATTTTGTTTTAATTAGGAGATTAGATGCT-AAGTTTAAGAGATAA
1 TATTTTGTTTTAATTAGGAGATTAGATGCTAAAGTTTAAGAGATAA
8892253 TATTTTG
1 TATTTTG
8892260 GTTTCTATCT
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
45 21 0.42
46 29 0.58
ACGTcount: A:0.34, C:0.03, G:0.19, T:0.44
Consensus pattern (46 bp):
TATTTTGTTTTAATTAGGAGATTAGATGCTAAAGTTTAAGAGATAA
Found at i:8893868 original size:30 final size:28
Alignment explanation
Indices: 8893834--8893889 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
8893824 TACAAATAAT
8893834 AATTATAATTATATTACATAATTATTTTAA
1 AATTATAATTATATTA-ATAA-TATTTTAA
* *
8893864 AATTATTATTTTATTAATAATATTTT
1 AATTATAATTATATTAATAATATTTT
8893890 TATTATCGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 6 0.25
29 4 0.17
30 14 0.58
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (28 bp):
AATTATAATTATATTAATAATATTTTAA
Found at i:8894453 original size:21 final size:19
Alignment explanation
Indices: 8894426--8894471 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
8894416 ATTTTTTTTA
* *
8894426 TTTTTATTACTTTTAAATGT
1 TTTTTATTA-TTTCAAATAT
8894446 TATTTTATTATTTCAAATAT
1 T-TTTTATTATTTCAAATAT
8894466 TTTTTA
1 TTTTTA
8894472 AAATTAATAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 5 0.22
20 10 0.43
21 8 0.35
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.65
Consensus pattern (19 bp):
TTTTTATTATTTCAAATAT
Found at i:8895308 original size:16 final size:16
Alignment explanation
Indices: 8895287--8895317 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8895277 TATTTGATTA
*
8895287 TCGGAAAACTGGGAAC
1 TCGGAAAACCGGGAAC
8895303 TCGGAAAACCGGGAA
1 TCGGAAAACCGGGAA
8895318 TGGAGTGAAC
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:0.39, C:0.19, G:0.32, T:0.10
Consensus pattern (16 bp):
TCGGAAAACCGGGAAC
Found at i:8905153 original size:38 final size:38
Alignment explanation
Indices: 8905111--8905186 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
8905101 AACAGATTTG
8905111 GTTTGTGGTGAATGGAGACATTTTCTTGTGGGTGGACA
1 GTTTGTGGTGAATGGAGACATTTTCTTGTGGGTGGACA
8905149 GTTTGTGGTGAATGGAGACATTTTCTTGTGGGTGGACA
1 GTTTGTGGTGAATGGAGACATTTTCTTGTGGGTGGACA
8905187 CTGTTGAGTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.18, C:0.08, G:0.37, T:0.37
Consensus pattern (38 bp):
GTTTGTGGTGAATGGAGACATTTTCTTGTGGGTGGACA
Found at i:8905184 original size:20 final size:20
Alignment explanation
Indices: 8905123--8905184 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 20
8905113 TTGTGGTGAA
8905123 TGGAGACATTTTCTTGTGGG
1 TGGAGACATTTTCTTGTGGG
* * * **
8905143 T-G-GACAGTTTGTGGTGAA
1 TGGAGACATTTTCTTGTGGG
8905161 TGGAGACATTTTCTTGTGGG
1 TGGAGACATTTTCTTGTGGG
8905181 TGGA
1 TGGA
8905185 CACTGTTGAG
Statistics
Matches: 30, Mismatches: 10, Indels: 4
0.68 0.23 0.09
Matches are distributed among these distances:
18 12 0.40
19 2 0.07
20 16 0.53
ACGTcount: A:0.18, C:0.08, G:0.37, T:0.37
Consensus pattern (20 bp):
TGGAGACATTTTCTTGTGGG
Found at i:8908532 original size:302 final size:302
Alignment explanation
Indices: 8907793--8908975 Score: 2192
Period size: 302 Copynumber: 3.9 Consensus size: 302
8907783 ATTCTCCACC
* *
8907793 ATGCTGAAACTAATTATCCTGATGTCGTCTCTGTTAACAATACCCGTGACACCAATATGATTCAT
1 ATGCTGAAACTAATTATCCCGATGTGGTCTCTGTTAACAATACCCGTGACACCAATATGATTCAT
* * *
8907858 CTAAAGGTCTGTTGATCTCTTGAAATTAATTGAAAACTTAGGGTGACCAGTGAAGCAGTTTTCTT
66 CTAAAGGTCTGTTGGTCTCTTGAAATTAATTGAAAACTTAGGGTGACCAATCAAGCAGTTTTCTT
8907923 TCTCTTTTTACTTCTATTGCTTTACGATTTATCATATAGACTGCACTGCATAAAAGATCTCATTC
131 TCTCTTTTTACTTCTATTGCTTTACGATTTATCATATAGACTGCACTGCATAAAAGATCTCATTC
8907988 AAGCGCACAACAAATTTACCTCAAGCTATATCATTTAATCAAATGTTCTGCTTGAAGGCAATGCG
196 AAGCGCACAACAAATTTACCTCAAGCTATATCATTTAATCAAATGTTCTGCTTGAAGGCAATGCG
8908053 ACATGGTAGAG--C-TCTCCATGTTTATGCAGTGCAGTCTAT
261 ACATGGTAGAGCTCTTCTCCATGTTTATGCAGTGCAGTCTAT
8908092 ATGCTGAAACTAATTATCCCGATGTGGTCTCTGTTAACAATACCCGTGACACCAATATGATTCAT
1 ATGCTGAAACTAATTATCCCGATGTGGTCTCTGTTAACAATACCCGTGACACCAATATGATTCAT
8908157 CTAAAGGTCTGTTGGTCTCTTGAAATTAATTGAAAACTTAGGGTGACCAATCAAGCAGTTTTCTT
66 CTAAAGGTCTGTTGGTCTCTTGAAATTAATTGAAAACTTAGGGTGACCAATCAAGCAGTTTTCTT
*
8908222 TCTCTTTTTACTTCTATTGCTTTACGATTTATCATATAGAGTGCACTGCATAAAAGATCTCATTC
131 TCTCTTTTTACTTCTATTGCTTTACGATTTATCATATAGACTGCACTGCATAAAAGATCTCATTC
8908287 AAGCGCACAACAAATTTACCTCAAGCTATATCATTTAATCAAATGTTCTGCTTGAAGGCAATGCG
196 AAGCGCACAACAAATTTACCTCAAGCTATATCATTTAATCAAATGTTCTGCTTGAAGGCAATGCG
8908352 ACATGGTAGAGCTCTTCTCCATGTTTATGCAGTGCAGTCTAT
261 ACATGGTAGAGCTCTTCTCCATGTTTATGCAGTGCAGTCTAT
* *
8908394 ATGCTGAAACTAATTATCCCGATGTGGTCTCTGTTAGCAATATCCGTGACACCAATATGATTCAT
1 ATGCTGAAACTAATTATCCCGATGTGGTCTCTGTTAACAATACCCGTGACACCAATATGATTCAT
* *
8908459 CTAAAGTTCTGTTGGTCTCTTGAAATTAATTGAAAACTTAGGGTGACCTATCAAGCAGTTTTCTT
66 CTAAAGGTCTGTTGGTCTCTTGAAATTAATTGAAAACTTAGGGTGACCAATCAAGCAGTTTTCTT
8908524 TCTCTTTTTACTTCTATTGCTTTACGATTTATCATATAGACTGCACTGCATAAAAGATCTCATTC
131 TCTCTTTTTACTTCTATTGCTTTACGATTTATCATATAGACTGCACTGCATAAAAGATCTCATTC
8908589 AAGCGCACAACAAATTTACCTCAAGCTATATCATTTAATCAAATGTTCTGCTTGAAGGCAATGCG
196 AAGCGCACAACAAATTTACCTCAAGCTATATCATTTAATCAAATGTTCTGCTTGAAGGCAATGCG
*
8908654 ACATGGTAGAGCTCTTCTCCATGTTTATGTAGTGCAGTCTAT
261 ACATGGTAGAGCTCTTCTCCATGTTTATGCAGTGCAGTCTAT
* * *
8908696 ATGCTGAAACTAATTATCCTGATGTGGTCTCTGTTAACGATACCTGTGACACCAATATGATTCAT
1 ATGCTGAAACTAATTATCCCGATGTGGTCTCTGTTAACAATACCCGTGACACCAATATGATTCAT
*
8908761 CTAAAGGTCTGTTGGTCTCTTGAAATTAATTGAAAACTTAGGGTGACCAATCAAGCAATTTTCTT
66 CTAAAGGTCTGTTGGTCTCTTGAAATTAATTGAAAACTTAGGGTGACCAATCAAGCAGTTTTCTT
*
8908826 TCTCTTTTTACTTCTATTGCTTTACTATTTATCATATAGACTGCACTGCATAAAAGATCTCATTC
131 TCTCTTTTTACTTCTATTGCTTTACGATTTATCATATAGACTGCACTGCATAAAAGATCTCATTC
8908891 AAGCGCACAACAAATTTACCTCAAGCTATATCATTTAATCAAATGTTCTGCTTGAAGGCAATGCG
196 AAGCGCACAACAAATTTACCTCAAGCTATATCATTTAATCAAATGTTCTGCTTGAAGGCAATGCG
*
8908956 ACATGGTAGGGCTCTTCTCC
261 ACATGGTAGAGCTCTTCTCC
8908976 GAGTATCAAT
Statistics
Matches: 859, Mismatches: 22, Indels: 3
0.97 0.02 0.00
Matches are distributed among these distances:
299 265 0.31
301 1 0.00
302 593 0.69
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.35
Consensus pattern (302 bp):
ATGCTGAAACTAATTATCCCGATGTGGTCTCTGTTAACAATACCCGTGACACCAATATGATTCAT
CTAAAGGTCTGTTGGTCTCTTGAAATTAATTGAAAACTTAGGGTGACCAATCAAGCAGTTTTCTT
TCTCTTTTTACTTCTATTGCTTTACGATTTATCATATAGACTGCACTGCATAAAAGATCTCATTC
AAGCGCACAACAAATTTACCTCAAGCTATATCATTTAATCAAATGTTCTGCTTGAAGGCAATGCG
ACATGGTAGAGCTCTTCTCCATGTTTATGCAGTGCAGTCTAT
Found at i:8920218 original size:14 final size:13
Alignment explanation
Indices: 8920194--8920246 Score: 54
Period size: 13 Copynumber: 3.9 Consensus size: 13
8920184 CACGTTAGTG
8920194 AAATAAAATATAT
1 AAATAAAATATAT
*
8920207 AAATATAA-ATAT
1 AAATAAAATATAT
8920219 AAATAAATATTTATAT
1 AAATAAA-A--TATAT
*
8920235 AACTAAAATATA
1 AAATAAAATATA
8920247 AATAGAATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
12 10 0.30
13 12 0.36
15 1 0.03
16 10 0.30
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (13 bp):
AAATAAAATATAT
Found at i:8920226 original size:16 final size:16
Alignment explanation
Indices: 8920196--8920250 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
8920186 CGTTAGTGAA
*
8920196 ATAAA-ATATATAAAT
1 ATAAATATAAATAAAT
8920211 ATAAATATAAATAAAT
1 ATAAATATAAATAAAT
** *
8920227 ATTTATATAACTAAAAT
1 ATAAATATAAAT-AAAT
8920244 ATAAATA
1 ATAAATA
8920251 GAATAATTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
15 5 0.16
16 18 0.56
17 9 0.28
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.35
Consensus pattern (16 bp):
ATAAATATAAATAAAT
Found at i:8920263 original size:27 final size:27
Alignment explanation
Indices: 8920202--8920268 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 27
8920192 TGAAATAAAA
*
8920202 TATATAAATATAAATATAAATAAATATT
1 TATATAAATA-AAATATAAATAAATAAT
*
8920230 TATATAACTAAAATATAAATAGAATAAT
1 TATATAAATAAAATATAAATA-AATAAT
*
8920258 T-TATAATTAAA
1 TATATAAATAAA
8920269 TTGTGAAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
27 20 0.57
28 15 0.43
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (27 bp):
TATATAAATAAAATATAAATAAATAAT
Found at i:8924046 original size:51 final size:51
Alignment explanation
Indices: 8923988--8924126 Score: 233
Period size: 51 Copynumber: 2.7 Consensus size: 51
8923978 AAAATAATTT
** *
8923988 TGTTAAACGGCAGGATTAAATCCCGAAACAAAATTATATTAAAATAAAATA
1 TGTTAAACGGTGGGAATAAATCCCGAAACAAAATTATATTAAAATAAAATA
8924039 TGTTAAACGGTGGGAATAAATCCCGAAACAAAATTATATTAAAATAAAATA
1 TGTTAAACGGTGGGAATAAATCCCGAAACAAAATTATATTAAAATAAAATA
* *
8924090 TGTTAAACGGTGGGAATAAATCTCGAAAAAAAATTAT
1 TGTTAAACGGTGGGAATAAATCCCGAAACAAAATTAT
8924127 TTGATTACAT
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 83 1.00
ACGTcount: A:0.50, C:0.10, G:0.14, T:0.26
Consensus pattern (51 bp):
TGTTAAACGGTGGGAATAAATCCCGAAACAAAATTATATTAAAATAAAATA
Found at i:8924297 original size:83 final size:85
Alignment explanation
Indices: 8924164--8924467 Score: 287
Period size: 82 Copynumber: 3.6 Consensus size: 85
8924154 AAGAATATTG
* * * *
8924164 AATAAAATCTTGTTAGACAGTGGGAATAAAT-CCAGAAACAAATTTTATTTAATTTTAATTCTAA
1 AATAAAATCTTGTTAAACGGCGGGAATAAATCCCA-AAACAGATTTTATTTAATTTTAATTCTAA
*
8924228 TTTGGAAACAAAATAAAATCA
65 TTTGGAAACAAAATAAAATAA
* * * **** *
8924249 AATAAAAT-TTTTTAAATGGCGGGAATAAAT-CCTAAATTTTTTTTATTTAA-TTTAATTCTGAT
1 AATAAAATCTTGTTAAACGGCGGGAATAAATCCCAAAACAGATTTTATTTAATTTTAATTCTAAT
* *
8924311 TTGGAAATAAAATCAAATAA
66 TTGGAAACAAAATAAAATAA
8924331 AATAAAATCTTGTTAAACGGCGGGAATAAATCCCAAAACAGATTTTATTTAATTTTAATTTCTTG
1 AATAAAATCTTGTTAAACGGCGGGAATAAATCCCAAAACAGATTTTATTTAATTTTAA-TTC-T-
** * **
8924396 TTTTTGGCAACAAAATAAAAATGT
63 AATTTGGAAACAAAAT-AAAATAA
* * * * * *
8924420 AAT-AAAT-TCGTTGAATGACGAGAATAAATCCCGAAACAGATTTTATTT
1 AATAAAATCTTGTTAAACGGCGGGAATAAATCCCAAAACAGATTTTATTT
8924468 TACTCGTTTT
Statistics
Matches: 178, Mismatches: 34, Indels: 12
0.79 0.15 0.05
Matches are distributed among these distances:
82 36 0.20
83 33 0.19
84 34 0.19
85 13 0.07
86 3 0.02
87 36 0.20
88 16 0.09
89 7 0.04
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.36
Consensus pattern (85 bp):
AATAAAATCTTGTTAAACGGCGGGAATAAATCCCAAAACAGATTTTATTTAATTTTAATTCTAAT
TTGGAAACAAAATAAAATAA
Found at i:8924511 original size:79 final size:79
Alignment explanation
Indices: 8924420--8924714 Score: 322
Period size: 79 Copynumber: 3.6 Consensus size: 79
8924410 ATAAAAATGT
* * * *
8924420 AATAAATTCGTTGAATGACGAGAATAAATCCCGAAACAGATTTTATTTTACTCGTTTTTAGAAAT
1 AATAAAATCGTTGAACGACGGGAATCAATCCCGAAACAGATTTTATTTTACTCGTTTTTAGAAAT
8924485 AAAACAAAATTTGG
66 AAAACAAAATTTGG
* * * *
8924499 AATAAAATCGTTGCACGACGGGAATCAATCCCAAAACGGATTTTATTTTACTCGTTTTTGGAAAT
1 AATAAAATCGTTGAACGACGGGAATCAATCCCGAAACAGATTTTATTTTACTCGTTTTTAGAAAT
8924564 AAAACAAAATTTGG
66 AAAACAAAATTTGG
* * * * *
8924578 AATAAAATCTTTGAACGGCGGGAATCAATCCCGAAACAAATTTTATTTTACCTTTAATATCCTGT
1 AATAAAATCGTTGAACGACGGGAATCAATCCCGAAACAGATTTTATTTTA-C-------TCGTTT
* *
8924643 TTGGAAATAAAATCAAAATAATGG
58 TTAGAAATAAAA-CAAAAT-TTGG
* * *
8924667 AATAAAATCCGTCGAACGGCGGGAATTAATCCCGAAACAGA-TTTATTT
1 AATAAAAT-CGTTGAACGACGGGAATCAATCCCGAAACAGATTTTATTT
8924715 ACCTTTAATT
Statistics
Matches: 184, Mismatches: 21, Indels: 12
0.85 0.10 0.06
Matches are distributed among these distances:
79 115 0.62
80 1 0.01
87 16 0.09
88 6 0.03
89 18 0.10
90 28 0.15
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.31
Consensus pattern (79 bp):
AATAAAATCGTTGAACGACGGGAATCAATCCCGAAACAGATTTTATTTTACTCGTTTTTAGAAAT
AAAACAAAATTTGG
Found at i:8924791 original size:87 final size:87
Alignment explanation
Indices: 8924558--8924813 Score: 336
Period size: 88 Copynumber: 2.9 Consensus size: 87
8924548 ACTCGTTTTT
* * *
8924558 GGAAATAAAACAAAATTTGGAATAAAAT-CTTTGAACGGCGGGAATCAATCCCGAAACAAATTTT
1 GGAAATAAAACAAAATTTGGAATAAAATCCATTGAACGGCGGGAATAAATCCCGAAACAGATTTT
* * *
8924622 ATTTTACCTTTAATATCCTGTTT
66 A-TTTACCTTTAATTTCCCGTTC
* * * *
8924645 GGAAATAAAATCAAAATAATGGAATAAAATCCGTCGAACGGCGGGAATTAATCCCGAAACAGA-T
1 GGAAATAAAA-CAAAAT-TTGGAATAAAATCCATTGAACGGCGGGAATAAATCCCGAAACAGATT
8924709 TTATTTACCTTTAATTTCCCGTTC
64 TTATTTACCTTTAATTTCCCGTTC
* * *
8924733 GGAAATAAAACCAAAATTTGGAATAAAATCCATTGAACGGTGGAAATAAATCCTGAAACAGATTT
1 GGAAATAAAA-CAAAATTTGGAATAAAATCCATTGAACGGCGGGAATAAATCCCGAAACAGATTT
*
8924798 TATTTACTTTTAATTT
65 TATTTACCTTTAATTT
8924814 GGAAACAAAA
Statistics
Matches: 148, Mismatches: 17, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
87 48 0.32
88 57 0.39
89 15 0.10
90 28 0.19
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.30
Consensus pattern (87 bp):
GGAAATAAAACAAAATTTGGAATAAAATCCATTGAACGGCGGGAATAAATCCCGAAACAGATTTT
ATTTACCTTTAATTTCCCGTTC
Found at i:8925059 original size:27 final size:28
Alignment explanation
Indices: 8925010--8925083 Score: 80
Period size: 27 Copynumber: 2.6 Consensus size: 28
8925000 CAAAATAGAT
* *
8925010 AAATATAAATA-AATATTTATATAAATA
1 AAATATAAATAGAAAAATTATATAAATA
*
8925037 AAATATAAATAGAAAAATT-TATAATTA
1 AAATATAAATAGAAAAATTATATAAATA
*
8925064 AATTATGAAATACGAAAAAT
1 AAATAT-AAATA-GAAAAAT
8925084 CAAACAAAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
27 23 0.57
28 10 0.25
29 7 0.17
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.32
Consensus pattern (28 bp):
AAATATAAATAGAAAAATTATATAAATA
Found at i:8941681 original size:29 final size:29
Alignment explanation
Indices: 8941637--8941770 Score: 108
Period size: 29 Copynumber: 4.6 Consensus size: 29
8941627 CACCATCAGT
* *
8941637 ACATAGTACCTAATAAATATAACACCGAG
1 ACATAGTACCTGATAAATATAACACCGAC
* *
8941666 ACATAGTGCCTGATAAATATAACACTGAC
1 ACATAGTACCTGATAAATATAACACCGAC
* ** * **
8941695 ACAAAGTACCTGAT-AATATGGTCATCGGT
1 ACATAGTACCTGATAAATAT-AACACCGAC
* *
8941724 ACATAGTATCTGATCAATATAATCACCGAC
1 ACATAGTACCTGATAAATATAA-CACCGAC
* * *
8941754 ACACAGTGCTTGATAAA
1 ACATAGTACCTGATAAA
8941771 CCCTAAAGAC
Statistics
Matches: 78, Mismatches: 24, Indels: 5
0.73 0.22 0.05
Matches are distributed among these distances:
28 5 0.06
29 52 0.67
30 21 0.27
ACGTcount: A:0.41, C:0.20, G:0.14, T:0.25
Consensus pattern (29 bp):
ACATAGTACCTGATAAATATAACACCGAC
Found at i:8943824 original size:17 final size:17
Alignment explanation
Indices: 8943802--8943834 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8943792 ATTTCCCCTC
8943802 CAAGAAAAAAAACTTGG
1 CAAGAAAAAAAACTTGG
*
8943819 CAAGAAAAAGAACTTG
1 CAAGAAAAAAAACTTG
8943835 AATTTGATCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.12, G:0.18, T:0.12
Consensus pattern (17 bp):
CAAGAAAAAAAACTTGG
Found at i:8948849 original size:41 final size:41
Alignment explanation
Indices: 8948787--8948882 Score: 183
Period size: 41 Copynumber: 2.3 Consensus size: 41
8948777 GATACTCCAT
*
8948787 AGCTCGTGTGAGCAACATGTGTAGCTTACATTCTGACCCAC
1 AGCTTGTGTGAGCAACATGTGTAGCTTACATTCTGACCCAC
8948828 AGCTTGTGTGAGCAACATGTGTAGCTTACATTCTGACCCAC
1 AGCTTGTGTGAGCAACATGTGTAGCTTACATTCTGACCCAC
8948869 AGCTTGTGTGAGCA
1 AGCTTGTGTGAGCA
8948883 TGCCCATTTC
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (41 bp):
AGCTTGTGTGAGCAACATGTGTAGCTTACATTCTGACCCAC
Found at i:8950264 original size:9 final size:9
Alignment explanation
Indices: 8950252--8950277 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
8950242 CTTTTTCCTC
8950252 AATGTTTCA
1 AATGTTTCA
8950261 AATGTTTCA
1 AATGTTTCA
8950270 AATGTTTC
1 AATGTTTC
8950278 TAAAGCGTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.46
Consensus pattern (9 bp):
AATGTTTCA
Found at i:8959792 original size:13 final size:13
Alignment explanation
Indices: 8959774--8959800 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
8959764 GCCTTGTTAT
8959774 AATTAAAAAATTC
1 AATTAAAAAATTC
8959787 AATTAAAAAATTC
1 AATTAAAAAATTC
8959800 A
1 A
8959801 CTTTTTTGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (13 bp):
AATTAAAAAATTC
Found at i:8966580 original size:124 final size:126
Alignment explanation
Indices: 8966279--8966630 Score: 521
Period size: 126 Copynumber: 2.8 Consensus size: 126
8966269 TAATTTCGAG
** *
8966279 TTGACGTTTCTGATAAAATAATATAAAATCGCTTCTAGCAGGATGGTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
* * *
8966344 AAATCGCGCCCTCGTGGACGCGCTTTTTCTACAGTAGGTCCCGGGAGAAATAATTATTTTT
66 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCACGGAAGAAATAATTATTTTT
* * *
8966405 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAAAATTTGTA
1 TTGACGTTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
* * * * * *
8966470 AAATTGCGGCCTCGT-CAGCGCACTTTTGCTACAGTAGGTCATGTAAGAAATAA-T-TTTTT
66 AAATCGCGCCCTCGTGGA-CGCGCTTTTGCTACAGTAGGTCACGGAAGAAATAATTATTTTT
*
8966529 TTGACGTTTCTGAGCAAATAATATAAAATCGCTTCTAGCATGATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
*
8966594 AAATCGCACCCTCGTGGACGCGCTTTTGCTACAGTAG
66 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAG
8966631 CATGTTTGGG
Statistics
Matches: 200, Mismatches: 24, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
124 96 0.48
125 3 0.01
126 101 0.50
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.33
Consensus pattern (126 bp):
TTGACGTTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCACGGAAGAAATAATTATTTTT
Found at i:8969815 original size:116 final size:116
Alignment explanation
Indices: 8969611--8969828 Score: 382
Period size: 116 Copynumber: 1.9 Consensus size: 116
8969601 TGATAAATTC
*
8969611 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATACAATTATTAATTGT
1 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
8969676 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
66 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
* * *
8969727 TATTAAGTCAAAAAATTGTATTAGTGGTTAGTAAAATTATCAAATTATGTAAAATTATTATTTGT
1 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
**
8969792 TAGTACTTGTCAAAACATTTTTCCAAATCTAACATTA
66 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTA
8969829 CGTTAAGGTT
Statistics
Matches: 96, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
116 96 1.00
ACGTcount: A:0.42, C:0.09, G:0.10, T:0.39
Consensus pattern (116 bp):
TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
Found at i:8969856 original size:21 final size:22
Alignment explanation
Indices: 8969830--8969916 Score: 67
Period size: 23 Copynumber: 4.0 Consensus size: 22
8969820 CTAACATTAC
8969830 GTTAAGG-TTAGGGTTTTTAAA
1 GTTAAGGTTTAGGGTTTTTAAA
*
8969851 GTTAAGGGTTTAAGGTTTTTAATTAA
1 GTTAA-GGTTTAGGGTTTTT-A--AA
* *
8969877 ATT-AGG-CTAGGGTTTTT-AA
1 GTTAAGGTTTAGGGTTTTTAAA
8969896 -TTAAGAGTTTAGGGTTTTTAA
1 GTTAAG-GTTTAGGGTTTTTAA
8969917 TTAAATTAGG
Statistics
Matches: 52, Mismatches: 5, Indels: 17
0.70 0.07 0.23
Matches are distributed among these distances:
18 2 0.04
19 4 0.08
20 1 0.02
21 15 0.29
22 3 0.06
23 19 0.37
24 3 0.06
25 1 0.02
26 4 0.08
ACGTcount: A:0.29, C:0.01, G:0.25, T:0.45
Consensus pattern (22 bp):
GTTAAGGTTTAGGGTTTTTAAA
Found at i:8969890 original size:23 final size:23
Alignment explanation
Indices: 8969864--8970437 Score: 532
Period size: 23 Copynumber: 24.3 Consensus size: 23
8969854 AAGGGTTTAA
*
8969864 GGTTTTTAATTAAATTAGGCTAG
1 GGTTTTTAATTAAATTAGGTTAG
* *
8969887 GGTTTTTAATT-AA-GAGTTTAG
1 GGTTTTTAATTAAATTAGGTTAG
8969908 GGTTTTTAATTAAATTAGGTTAG
1 GGTTTTTAATTAAATTAGGTTAG
*
8969931 GG-TTTTAATTAAATTAGGCTAG
1 GGTTTTTAATTAAATTAGGTTAG
*
8969953 GGTTTTTAATTAAATTATGTTAG
1 GGTTTTTAATTAAATTAGGTTAG
8969976 GGTTTTTAATTAAATTAGGTTAG
1 GGTTTTTAATTAAATTAGGTTAG
8969999 GGTTTTTAATTAAATTAGGTTAG
1 GGTTTTTAATTAAATTAGGTTAG
*
8970022 GGTTTTTAATTAAATTAGGCTAG
1 GGTTTTTAATTAAATTAGGTTAG
*
8970045 GGTTTTTAATTAAATTAGGCTAG
1 GGTTTTTAATTAAATTAGGTTAG
**
8970068 CATTTTTAATTAAATTAGGTTAG
1 GGTTTTTAATTAAATTAGGTTAG
* *
8970091 GGTTTTTAAGTT-AA--GGGTTTAA
1 GGTTTTTAA-TTAAATTAGG-TTAG
*
8970113 AGTTTTTAATTGAATTAGGTTAGGGTTAG
1 GGTTTTTAATT-AA--A--TTA-GGTTAG
*
8970142 GGTTTTTAATT-AA--GGGTTTAG
1 GGTTTTTAATTAAATTAGG-TTAG
*
8970163 GATTTTTAATTAAATTAGGTTAG
1 GGTTTTTAATTAAATTAGGTTAG
*
8970186 GGTTTTTAATTAAATTTGGTTAGGCTAG
1 GGTTTTTAATTAAA-----TTAGGTTAG
8970214 GGTTTTTAATTAAATTAGGTTAG
1 GGTTTTTAATTAAATTAGGTTAG
*
8970237 GGTTTTT-ATGTTAA-T-GGTTTAG
1 GGTTTTTAAT-TAAATTAGG-TTAG
*
8970259 GG-TTTTAATTGAATTAGGTTAG
1 GGTTTTTAATTAAATTAGGTTAG
8970281 GGTTAGAGTTT--TT-AATTAAGGATTTAG
1 GGTT----TTTAATTAAATT-AGG--TTAG
8970308 GGTTTTTAATTAAATTAGGTTAG
1 GGTTTTTAATTAAATTAGGTTAG
* *
8970331 GGTTTTTAATTAAATTAAGCTAG
1 GGTTTTTAATTAAATTAGGTTAG
*
8970354 GGTTTTAAATTAAATTAGGTTATGG
1 GGTTTTTAATTAAATTAGGTTA--G
**
8970379 TTTTGAGTTTTTAATTATTTTAGGTTAG
1 ----G-GTTTTTAATTAAATTAGGTTAG
****
8970407 GGTTTAGGGTTAAATTAGGTTAG
1 GGTTTTTAATTAAATTAGGTTAG
8970430 GGTTTTTA
1 GGTTTTTA
8970438 TTACATCAAA
Statistics
Matches: 459, Mismatches: 46, Indels: 92
0.77 0.08 0.15
Matches are distributed among these distances:
20 2 0.00
21 43 0.09
22 56 0.12
23 263 0.57
24 9 0.02
25 13 0.03
26 4 0.01
27 12 0.03
28 23 0.05
29 14 0.03
30 20 0.04
ACGTcount: A:0.29, C:0.01, G:0.23, T:0.47
Consensus pattern (23 bp):
GGTTTTTAATTAAATTAGGTTAG
Found at i:8970155 original size:50 final size:49
Alignment explanation
Indices: 8970085--8970334 Score: 218
Period size: 50 Copynumber: 5.1 Consensus size: 49
8970075 AATTAAATTA
*
8970085 GGTTAGGGTTTTTAAGTTAAGGGTTTAAAGTTTTTAATTGAATTAGGTTAG
1 GGTTAGGGTTTTTAA-TTAAGGGTTTAAGGTTTTTAATT-AATTAGGTTAG
8970136 GGTTAGGGTTTTTAATTAAGGGTTT-AGGATTTTTAATTAA--A--TTA-
1 GGTTAGGGTTTTTAATTAAGGGTTTAAGG-TTTTTAATTAATTAGGTTAG
* *
8970180 GGTTAGGGTTTTTAATTAAATTTGGTTAGGCTAGGGTTTTTAATTAA--A--TTA-
1 GGTTAGGGTTTTTAATT-AA--GGGTT----TAAGGTTTTTAATTAATTAGGTTAG
* * *
8970231 GGTTAGGGTTTTTATGTTAATGGTTT-AGGGTTTTAATTGAATTAGGTTAG
1 GGTTAGGGTTTTTA-ATTAAGGGTTTAAGGTTTTTAATT-AATTAGGTTAG
* * *
8970281 GGTTAGAGTTTTTAATTAAGGATTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAGGGTTTAAGGTTTTTAATT-AATTAGGTTAG
8970331 GGTT
1 GGTT
8970335 TTTAATTAAA
Statistics
Matches: 169, Mismatches: 13, Indels: 35
0.78 0.06 0.16
Matches are distributed among these distances:
44 27 0.16
45 8 0.05
47 6 0.04
49 20 0.12
50 57 0.34
51 47 0.28
52 4 0.02
ACGTcount: A:0.27, C:0.00, G:0.26, T:0.47
Consensus pattern (49 bp):
GGTTAGGGTTTTTAATTAAGGGTTTAAGGTTTTTAATTAATTAGGTTAG
Found at i:8970208 original size:28 final size:28
Alignment explanation
Indices: 8970177--8970237 Score: 104
Period size: 28 Copynumber: 2.2 Consensus size: 28
8970167 TTTAATTAAA
* *
8970177 TTAGGTTAGGGTTTTTAATTAAATTTGG
1 TTAGGCTAGGGTTTTTAATTAAATTAGG
8970205 TTAGGCTAGGGTTTTTAATTAAATTAGG
1 TTAGGCTAGGGTTTTTAATTAAATTAGG
8970233 TTAGG
1 TTAGG
8970238 GTTTTTATGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.26, C:0.02, G:0.26, T:0.46
Consensus pattern (28 bp):
TTAGGCTAGGGTTTTTAATTAAATTAGG
Found at i:8970250 original size:28 final size:27
Alignment explanation
Indices: 8970167--8970251 Score: 79
Period size: 28 Copynumber: 3.2 Consensus size: 27
8970157 GTTTAGGATT
8970167 TTTAATTAAATTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTT-A
* *** *
8970195 TTAAATTTGGTTAGGCTAGGG---TT-
1 TTTAATTAAATTAGGTTAGGGTTTTTA
8970218 TTTAATTAAATTAGGTTAGGGTTTTTA
1 TTTAATTAAATTAGGTTAGGGTTTTTA
8970245 TGTTAAT
1 T-TTAAT
8970252 GGTTTAGGGT
Statistics
Matches: 42, Mismatches: 10, Indels: 10
0.68 0.16 0.16
Matches are distributed among these distances:
23 16 0.38
25 2 0.05
26 2 0.05
27 1 0.02
28 21 0.50
ACGTcount: A:0.28, C:0.01, G:0.21, T:0.49
Consensus pattern (27 bp):
TTTAATTAAATTAGGTTAGGGTTTTTA
Found at i:8970389 original size:30 final size:30
Alignment explanation
Indices: 8970355--8970411 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
8970345 TTAAGCTAGG
*
8970355 GTTTTAAATTAAATTAGGTTATGGTTTTGA
1 GTTTTAAATTAAATTAGGTTAGGGTTTTGA
* **
8970385 GTTTTTAATTATTTTAGGTTAGGGTTT
1 GTTTTAAATTAAATTAGGTTAGGGTTT
8970412 AGGGTTAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.25, C:0.00, G:0.21, T:0.54
Consensus pattern (30 bp):
GTTTTAAATTAAATTAGGTTAGGGTTTTGA
Found at i:8970393 original size:53 final size:53
Alignment explanation
Indices: 8970332--8970435 Score: 129
Period size: 53 Copynumber: 2.0 Consensus size: 53
8970322 TTAGGTTAGG
*
8970332 GTTTTTAATTAAATTAAGCTAGGGTTTTA-AATTAAATTAGGTTATGGTTTTGA
1 GTTTTTAATTAAATTAAGCTAGGG-TTTAGAATTAAATTAGGTTAGGGTTTTGA
** * * **
8970385 GTTTTTAATTATTTTAGGTTAGGGTTTAGGGTTAAATTAGGTTAGGGTTTT
1 GTTTTTAATTAAATTAAGCTAGGGTTTAGAATTAAATTAGGTTAGGGTTTT
8970436 TATTACATCA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
52 4 0.09
53 39 0.91
ACGTcount: A:0.27, C:0.01, G:0.23, T:0.49
Consensus pattern (53 bp):
GTTTTTAATTAAATTAAGCTAGGGTTTAGAATTAAATTAGGTTAGGGTTTTGA
Found at i:8970517 original size:43 final size:45
Alignment explanation
Indices: 8970443--8970528 Score: 140
Period size: 43 Copynumber: 2.0 Consensus size: 45
8970433 TTTTATTACA
*
8970443 TCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAAC
1 TCAAATAAACTTCTATTTTATTACATAAAATAATATCAAAATAAC
*
8970488 TCAAA-AAATTTCTATTTT-TTACATAAAATAATATCAAAATA
1 TCAAATAAACTTCTATTTTATTACATAAAATAATATCAAAATA
8970529 TTCAAAATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
43 22 0.56
44 12 0.31
45 5 0.13
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (45 bp):
TCAAATAAACTTCTATTTTATTACATAAAATAATATCAAAATAAC
Found at i:8970974 original size:18 final size:18
Alignment explanation
Indices: 8970951--8970985 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
8970941 CGGAAAAGGA
*
8970951 TACATATAAGGGTTAGGG
1 TACATATAAGGGCTAGGG
8970969 TACATATAAGGGCTAGG
1 TACATATAAGGGCTAGG
8970986 AAACGCACTT
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:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (18 bp):
TACATATAAGGGCTAGGG
Found at i:8971648 original size:7 final size:7
Alignment explanation
Indices: 8971638--8971662 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
8971628 ATACATACAT
8971638 AATACTA
1 AATACTA
8971645 AATACTA
1 AATACTA
8971652 AATACTA
1 AATACTA
8971659 AATA
1 AATA
8971663 TCAATCAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:8972859 original size:51 final size:51
Alignment explanation
Indices: 8972804--8972926 Score: 194
Period size: 51 Copynumber: 2.4 Consensus size: 51
8972794 TATTTTAAAA
* * *
8972804 AAGGAAATTGAGAAGAAATTGAAATTAAATATGGATTTGAGAGAATTTTTG
1 AAGGAAATTGAGAAGAAATTGAAATTAAATATAGATTTGAAAGAATTTTGG
*
8972855 AAGGAAATTGAGAGGAAATTGAAATTAAATATAGATTTGAAAGAATTTTGG
1 AAGGAAATTGAGAAGAAATTGAAATTAAATATAGATTTGAAAGAATTTTGG
*
8972906 AAGGAAATTGAG-AGGAATTGA
1 AAGGAAATTGAGAAGAAATTGA
8972927 GAGGAATTGA
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
50 7 0.11
51 59 0.89
ACGTcount: A:0.46, C:0.00, G:0.25, T:0.28
Consensus pattern (51 bp):
AAGGAAATTGAGAAGAAATTGAAATTAAATATAGATTTGAAAGAATTTTGG
Found at i:8972951 original size:12 final size:10
Alignment explanation
Indices: 8972911--8972942 Score: 64
Period size: 10 Copynumber: 3.2 Consensus size: 10
8972901 TTTGGAAGGA
8972911 AATTGAGAGG
1 AATTGAGAGG
8972921 AATTGAGAGG
1 AATTGAGAGG
8972931 AATTGAGAGG
1 AATTGAGAGG
8972941 AA
1 AA
8972943 ATATGAGAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.38, T:0.19
Consensus pattern (10 bp):
AATTGAGAGG
Found at i:8973485 original size:12 final size:12
Alignment explanation
Indices: 8973468--8973494 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
8973458 TAAAACATAG
8973468 AAAGAAATAAAT
1 AAAGAAATAAAT
8973480 AAAGAAATAAAT
1 AAAGAAATAAAT
8973492 AAA
1 AAA
8973495 TAAACTTACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (12 bp):
AAAGAAATAAAT
Found at i:8973491 original size:16 final size:16
Alignment explanation
Indices: 8973466--8973498 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
8973456 TATAAAACAT
8973466 AGAAAGAAATAAATAA
1 AGAAAGAAATAAATAA
*
8973482 AGAAATAAATAAATAA
1 AGAAAGAAATAAATAA
8973498 A
1 A
8973499 CTTACTTAAC
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:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (16 bp):
AGAAAGAAATAAATAA
Found at i:8985299 original size:23 final size:23
Alignment explanation
Indices: 8985273--8985348 Score: 134
Period size: 23 Copynumber: 3.3 Consensus size: 23
8985263 ATAAGTGCCA
*
8985273 CACTGATATATAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
8985296 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
8985319 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
8985342 CACTGAT
1 CACTGAT
8985349 CAATAACACT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:8985448 original size:8 final size:8
Alignment explanation
Indices: 8985435--8985463 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
8985425 ACCCGGGACT
8985435 CACTGTAA
1 CACTGTAA
8985443 CACTGTAA
1 CACTGTAA
8985451 CACTGTAA
1 CACTGTAA
8985459 CACTG
1 CACTG
8985464 GTCTCTAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (8 bp):
CACTGTAA
Found at i:8985608 original size:18 final size:17
Alignment explanation
Indices: 8985582--8985620 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
8985572 ATTTTCCTTC
8985582 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
8985599 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
8985617 CACA
1 CACA
8985621 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:8991923 original size:27 final size:27
Alignment explanation
Indices: 8991884--8991983 Score: 105
Period size: 27 Copynumber: 3.7 Consensus size: 27
8991874 TCTTGGAGTC
*
8991884 AGTAAACACGGGATGGTCCTTCGAGAT
1 AGTAAACACGGGATAGTCCTTCGAGAT
* *
8991911 AGTAAACATGGGATAGT-CTGCTGAGAT
1 AGTAAACACGGGATAGTCCTTC-GAGAT
* *
8991938 AGTAAACACGAGATAGTCCATC-AGGAT
1 AGTAAACACGGGATAGTCCTTCGA-GAT
* *
8991965 AGTAAACACGAGAGAGTCC
1 AGTAAACACGGGATAGTCC
8991984 ACCAAGATAA
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
26 4 0.06
27 56 0.90
28 2 0.03
ACGTcount: A:0.36, C:0.17, G:0.27, T:0.20
Consensus pattern (27 bp):
AGTAAACACGGGATAGTCCTTCGAGAT
Found at i:8991984 original size:27 final size:27
Alignment explanation
Indices: 8991934--8991999 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
8991924 TAGTCTGCTG
* *
8991934 AGATAGTAAACACGAGATAGTCCATCA
1 AGATAGTAAACACGAGAGAGTCCACCA
*
8991961 GGATAGTAAACACGAGAGAGTCCACCA
1 AGATAGTAAACACGAGAGAGTCCACCA
*
8991988 AGATAATAAACA
1 AGATAGTAAACA
8992000 TCACTTCACT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.15
Consensus pattern (27 bp):
AGATAGTAAACACGAGAGAGTCCACCA
Found at i:8993238 original size:23 final size:23
Alignment explanation
Indices: 8993202--8993443 Score: 394
Period size: 23 Copynumber: 10.5 Consensus size: 23
8993192 CTACCCTGTT
* *
8993202 TTGGACAGCTTTTATACATCAAA
1 TTGGACAGCATTTATACACCAAA
*
8993225 TTGGACAACATTTATACACCAAA
1 TTGGACAGCATTTATACACCAAA
* *
8993248 TTGGATAGCATTTATACATCAAA
1 TTGGACAGCATTTATACACCAAA
8993271 TTGGACAGCATTTATACACCAAA
1 TTGGACAGCATTTATACACCAAA
*
8993294 TTGGACAGTATTTATACACCAAA
1 TTGGACAGCATTTATACACCAAA
*
8993317 TTGGACAGCATTTATACATCAAA
1 TTGGACAGCATTTATACACCAAA
8993340 TTGGACAGCATTTATACACCAAA
1 TTGGACAGCATTTATACACCAAA
8993363 TTGGACAGCATTTATACACCAAA
1 TTGGACAGCATTTATACACCAAA
* *
8993386 TTGGACAGCGTTTATACATCAAA
1 TTGGACAGCATTTATACACCAAA
*
8993409 TTGGACAGCATTTATAAACCAAA
1 TTGGACAGCATTTATACACCAAA
8993432 TTGGACAGCATT
1 TTGGACAGCATT
8993444 ATAACATGTA
Statistics
Matches: 202, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 202 1.00
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (23 bp):
TTGGACAGCATTTATACACCAAA
Found at i:8994325 original size:40 final size:40
Alignment explanation
Indices: 8994195--8994329 Score: 155
Period size: 40 Copynumber: 3.4 Consensus size: 40
8994185 ATATCAATCC
* * * **
8994195 CGCACACTAAGTGCCTTACATAGCCGAAGTTATCTCAGTTT
1 CGCACACTAAGTGCCATAAATAGCCGAAGCTATCTC-GAAT
* *
8994236 CGCACACTAAGTGCCATATATAGCCGAAGCTAT-TCCCAAT
1 CGCACACTAAGTGCCATAAATAGCCGAAGCTATCT-CGAAT
*
8994276 CGCACACTAAATGCCATAAATAGCCGAAGCTATCTCGAAT
1 CGCACACTAAGTGCCATAAATAGCCGAAGCTATCTCGAAT
* *
8994316 CACATACTAAGTGC
1 CGCACACTAAGTGC
8994330 TAAACATAGT
Statistics
Matches: 80, Mismatches: 12, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
40 48 0.60
41 32 0.40
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.24
Consensus pattern (40 bp):
CGCACACTAAGTGCCATAAATAGCCGAAGCTATCTCGAAT
Found at i:9000716 original size:23 final size:23
Alignment explanation
Indices: 9000686--9000765 Score: 124
Period size: 23 Copynumber: 3.5 Consensus size: 23
9000676 CTACCCTGTT
* *
9000686 TTGGACAGCTTTTATACATCAAA
1 TTGGACAGCATTTATACACCAAA
9000709 TTGGACAGCATTTATACACCAAA
1 TTGGACAGCATTTATACACCAAA
* *
9000732 TTGGATATCATTTATACACCAAA
1 TTGGACAGCATTTATACACCAAA
9000755 TTGGACAGCAT
1 TTGGACAGCAT
9000766 CATAACATGT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.31
Consensus pattern (23 bp):
TTGGACAGCATTTATACACCAAA
Found at i:9001638 original size:40 final size:41
Alignment explanation
Indices: 9001510--9001642 Score: 135
Period size: 40 Copynumber: 3.3 Consensus size: 41
9001500 ATTCATCCTA
* * * **
9001510 CACACTAAGTGCCTTACATAGCCGAAGCAATCTCAGTTTCG
1 CACACTAAGTGCCATAAATAGCCGAAGCTATCTCAGAATCG
* * * * **
9001551 TACACTAAGTACCATAAATAGTCAAAGCTAT-TCCCAATCG
1 CACACTAAGTGCCATAAATAGCCGAAGCTATCTCAGAATCG
*
9001591 CACACTAAGTGCCATAAATAGCCGAAGCTATCT-AGAATCA
1 CACACTAAGTGCCATAAATAGCCGAAGCTATCTCAGAATCG
*
9001631 CATACTAAGTGC
1 CACACTAAGTGC
9001643 TAAACATAGT
Statistics
Matches: 72, Mismatches: 19, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
40 47 0.65
41 25 0.35
ACGTcount: A:0.36, C:0.26, G:0.14, T:0.23
Consensus pattern (41 bp):
CACACTAAGTGCCATAAATAGCCGAAGCTATCTCAGAATCG
Found at i:9010691 original size:2 final size:2
Alignment explanation
Indices: 9010684--9010708 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9010674 TTTTGTCTTC
9010684 CA CA CA CA CA CA CA CA CA CA CA CA C
1 CA CA CA CA CA CA CA CA CA CA CA CA C
9010709 CTACATATAC
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:0.52, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:9015347 original size:18 final size:18
Alignment explanation
Indices: 9015324--9015401 Score: 54
Period size: 18 Copynumber: 4.3 Consensus size: 18
9015314 GTTGAATCGG
9015324 ATTTAAGTTAGTTTAAAT
1 ATTTAAGTTAGTTTAAAT
* * *
9015342 ATTTAATTTTATTTTTATAT
1 ATTTAA-GTTA-GTTTAAAT
* *
9015362 TTTTTAGTTAAG--TAAA-
1 ATTTAAGTT-AGTTTAAAT
*
9015378 ATTTAAGTTAGCTTAAAT
1 ATTTAAGTTAGTTTAAAT
9015396 ATTTAA
1 ATTTAA
9015402 TTTTTATAAT
Statistics
Matches: 44, Mismatches: 10, Indels: 12
0.67 0.15 0.18
Matches are distributed among these distances:
15 2 0.05
16 7 0.16
17 7 0.16
18 12 0.27
19 5 0.11
20 11 0.25
ACGTcount: A:0.37, C:0.01, G:0.08, T:0.54
Consensus pattern (18 bp):
ATTTAAGTTAGTTTAAAT
Found at i:9015383 original size:54 final size:53
Alignment explanation
Indices: 9015324--9015466 Score: 170
Period size: 49 Copynumber: 2.8 Consensus size: 53
9015314 GTTGAATCGG
* * * *
9015324 ATTTAAGTTAGTTTAAATATTTAATTTTATTTTTATATTTTTTAGTTAAGTAAA
1 ATTTAAGTTAG-TTAAATATTTAATTTTATTTTTATAATTTATAATTAAATAAA
**
9015378 ATTTAAGTTAGCTTAAATATTT-A----ATTTTTATAATTTATAATTAAATCGA
1 ATTTAAGTTAG-TTAAATATTTAATTTTATTTTTATAATTTATAATTAAATAAA
*
9015427 ATTTAAATTAGTTAAATATTTAATTTTATTTTTATAATTT
1 ATTTAAGTTAGTTAAATATTTAATTTTATTTTTATAATTT
9015467 GTATAAAAAT
Statistics
Matches: 76, Mismatches: 8, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
48 10 0.13
49 31 0.41
53 14 0.18
54 21 0.28
ACGTcount: A:0.38, C:0.01, G:0.06, T:0.55
Consensus pattern (53 bp):
ATTTAAGTTAGTTAAATATTTAATTTTATTTTTATAATTTATAATTAAATAAA
Found at i:9018155 original size:59 final size:59
Alignment explanation
Indices: 9018063--9018187 Score: 241
Period size: 59 Copynumber: 2.1 Consensus size: 59
9018053 GATTGTCGAG
9018063 TTTAAAAACCGTTACAGTAAGTTAGCTTTTATTTAATTAAAAAAAACTAGTTGATTTGC
1 TTTAAAAACCGTTACAGTAAGTTAGCTTTTATTTAATTAAAAAAAACTAGTTGATTTGC
*
9018122 TTTAAAAACTGTTACAGTAAGTTAGCTTTTATTTAATTAAAAAAAACTAGTTGATTTGC
1 TTTAAAAACCGTTACAGTAAGTTAGCTTTTATTTAATTAAAAAAAACTAGTTGATTTGC
9018181 TTTAAAA
1 TTTAAAA
9018188 CTTGTCTCTT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 65 1.00
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.40
Consensus pattern (59 bp):
TTTAAAAACCGTTACAGTAAGTTAGCTTTTATTTAATTAAAAAAAACTAGTTGATTTGC
Done.