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 90 of 168
Found at i:26758399 original size:249 final size:250
Alignment explanation
Indices: 26757960--26758460 Score: 880
Period size: 249 Copynumber: 2.0 Consensus size: 250
26757950 AGAGAAGACG
* * * *
26757960 GATAGAGTTGCTGAAAGATTATTCCTATGTGATAGGGTATCTCCCTGGAAAGGGAAATATGGTAG
1 GATAGAGTTGCTAAAAGATTATTACTATGTGATAGGGTATCGCCCTGGAAAGGAAAATATGGTAG
26758025 TAGATGCATTAAATAAAAGTTAGTAAGTGAGTTGCGAGCTCTGTTTGCACAATTGAGTGTGACAA
66 TAGATGCATTAAATAAAAGTTAGTAAGTGAGTTGCGAGCTCTGTTTGCACAATTGAGTGTGACAA
26758090 GTGATGGGGGATTTATCTTGGAATTGCAAGTGAGACCAATGTTTTAACATAAAATCAAAGAAAAA
131 GTGATGGGGGATTTATCTTGGAATTGCAAGTGAGACCAATGTTTTAACATAAAATCAAAGAAAAA
* *
26758155 CAAGCCTTAGATGAATAATTGACGAAGAGGGTTCACCAAGTGGTGCAATAAGTGT
196 CAAGCCTTAGATGAATAATTGACAAAGAGGGTTCACCAAGTGGAGCAATAAGTGT
*
26758210 GATAGAGTTGCTAAAAGATTATTACTATGTGATAGGGTATCGCCCTGGAAAGGAAAATGTGGT-G
1 GATAGAGTTGCTAAAAGATTATTACTATGTGATAGGGTATCGCCCTGGAAAGGAAAATATGGTAG
* *
26758274 TAGATGCATTAAATAGAAGTTAGTAAGTGAGTTGCGAGCTCTGTTTGCATAATTGAGTGTGACAA
66 TAGATGCATTAAATAAAAGTTAGTAAGTGAGTTGCGAGCTCTGTTTGCACAATTGAGTGTGACAA
* *
26758339 GTGATGGGGGATTTATGC-TGGAATTGCAAGTGAGACCAATTTTTTCACATAAAATCAAAGAAAA
131 GTGATGGGGGATTTAT-CTTGGAATTGCAAGTGAGACCAATGTTTTAACATAAAATCAAAGAAAA
26758403 ACAAGCCTTAGATGAATAATTGACAAAGAGGGTTCACCAAGTGGAGCAATAAGTGT
195 ACAAGCCTTAGATGAATAATTGACAAAGAGGGTTCACCAAGTGGAGCAATAAGTGT
26758459 GA
1 GA
26758461 GGGGACCTCA
Statistics
Matches: 239, Mismatches: 11, Indels: 3
0.94 0.04 0.01
Matches are distributed among these distances:
249 180 0.75
250 59 0.25
ACGTcount: A:0.35, C:0.11, G:0.26, T:0.28
Consensus pattern (250 bp):
GATAGAGTTGCTAAAAGATTATTACTATGTGATAGGGTATCGCCCTGGAAAGGAAAATATGGTAG
TAGATGCATTAAATAAAAGTTAGTAAGTGAGTTGCGAGCTCTGTTTGCACAATTGAGTGTGACAA
GTGATGGGGGATTTATCTTGGAATTGCAAGTGAGACCAATGTTTTAACATAAAATCAAAGAAAAA
CAAGCCTTAGATGAATAATTGACAAAGAGGGTTCACCAAGTGGAGCAATAAGTGT
Found at i:26759604 original size:14 final size:14
Alignment explanation
Indices: 26759585--26759638 Score: 56
Period size: 14 Copynumber: 3.7 Consensus size: 14
26759575 TGCATAAATT
26759585 TTTAAGTTTATTTA
1 TTTAAGTTTATTTA
* *
26759599 TTTAAGTTTA-GTG
1 TTTAAGTTTATTTA
26759612 TTTAATGTGTTTATTTA
1 TTTAA---GTTTATTTA
26759629 TTTAAGTTTA
1 TTTAAGTTTA
26759639 ATGTGATTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
13 6 0.19
14 15 0.47
16 5 0.16
17 6 0.19
ACGTcount: A:0.26, C:0.00, G:0.13, T:0.61
Consensus pattern (14 bp):
TTTAAGTTTATTTA
Found at i:26759626 original size:30 final size:32
Alignment explanation
Indices: 26759590--26759655 Score: 109
Period size: 30 Copynumber: 2.1 Consensus size: 32
26759580 AAATTTTTAA
*
26759590 GTTTATTTATTTAAGTTT-A-GTGTTTAATGT
1 GTTTATTTATTTAAGTTTAATGTGATTAATGT
26759620 GTTTATTTATTTAAGTTTAATGTGATTAATGT
1 GTTTATTTATTTAAGTTTAATGTGATTAATGT
26759652 GTTT
1 GTTT
26759656 GTTTTAATGT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
30 18 0.55
31 1 0.03
32 14 0.42
ACGTcount: A:0.24, C:0.00, G:0.17, T:0.59
Consensus pattern (32 bp):
GTTTATTTATTTAAGTTTAATGTGATTAATGT
Found at i:26760632 original size:18 final size:18
Alignment explanation
Indices: 26760609--26760733 Score: 83
Period size: 18 Copynumber: 6.6 Consensus size: 18
26760599 GAAAGAAAAT
* *
26760609 AAAGAAAAAGCAATTGAA
1 AAAGAAAAAGAAAGTGAA
26760627 AAAGAAAAAGAAAGTGAA
1 AAAGAAAAAGAAAGTGAA
*
26760645 AAAGAAAAAGAGAGTGAGA
1 AAAGAAAAAGAAAGTGA-A
* * *
26760664 GAATGAAAAAAGAGATTGAA
1 -AAAG-AAAAAGAAAGTGAA
*
26760684 AAGGAAATAA-AAAGT-AA
1 AAAGAAA-AAGAAAGTGAA
* *
26760701 CAAAAAAAAAGAAATGAGAGAA
1 -AAAGAAAAAG-AA--AGTGAA
26760723 AAAGAAAAAGA
1 AAAGAAAAAGA
26760734 GATCAAAAAA
Statistics
Matches: 85, Mismatches: 12, Indels: 18
0.74 0.10 0.16
Matches are distributed among these distances:
17 4 0.05
18 43 0.51
19 8 0.09
20 5 0.06
21 23 0.27
22 2 0.02
ACGTcount: A:0.69, C:0.02, G:0.22, T:0.08
Consensus pattern (18 bp):
AAAGAAAAAGAAAGTGAA
Found at i:26760675 original size:57 final size:56
Alignment explanation
Indices: 26760613--26760745 Score: 137
Period size: 57 Copynumber: 2.3 Consensus size: 56
26760603 GAAAATAAAG
* *
26760613 AAAAAGCA-ATTGAAAAAGAAA-AAGAAAGTGAA-AAAGAAAAAGAGAGTGAGAGAATGA
1 AAAAAG-AGATTGAAAAAGAAATAA-AAAGT-AACAAAAAAAAAGA-AATGAGAGAATGA
* **
26760670 AAAAAGAGATTGAAAAGGAAATAAAAAGTAACAAAAAAAAAGAAATGAGAGAAAAA
1 AAAAAGAGATTGAAAAAGAAATAAAAAGTAACAAAAAAAAAGAAATGAGAGAATGA
**
26760726 GAAAAAGAGATCAAAAAAGA
1 -AAAAAGAGATTGAAAAAGA
26760746 GCAAAAAGAG
Statistics
Matches: 64, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
56 13 0.20
57 49 0.77
58 2 0.03
ACGTcount: A:0.68, C:0.02, G:0.21, T:0.08
Consensus pattern (56 bp):
AAAAAGAGATTGAAAAAGAAATAAAAAGTAACAAAAAAAAAGAAATGAGAGAATGA
Found at i:26766429 original size:13 final size:13
Alignment explanation
Indices: 26766413--26766455 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 13
26766403 TTAATATTCT
26766413 GCATTAAACAACA
1 GCATTAAACAACA
26766426 GCATTAAACAATAGCA
1 GCATTAAAC-A-A-CA
*
26766442 ACATTAAACAACA
1 GCATTAAACAACA
26766455 G
1 G
26766456 TAGCAAGACA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
13 11 0.44
14 2 0.08
15 2 0.08
16 10 0.40
ACGTcount: A:0.53, C:0.21, G:0.09, T:0.16
Consensus pattern (13 bp):
GCATTAAACAACA
Found at i:26766547 original size:16 final size:16
Alignment explanation
Indices: 26766526--26766559 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
26766516 GTTTGAGACA
26766526 TAATTAAGCACTTAAT
1 TAATTAAGCACTTAAT
*
26766542 TAATTAAGTACTTAAT
1 TAATTAAGCACTTAAT
26766558 TA
1 TA
26766560 GGTCATAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (16 bp):
TAATTAAGCACTTAAT
Found at i:26768410 original size:6 final size:6
Alignment explanation
Indices: 26768401--26768533 Score: 59
Period size: 6 Copynumber: 21.7 Consensus size: 6
26768391 TTTTTCAACA
* * * * *
26768401 TCTTTT TCTTTT TCAATTT TCTTTTCT TCATTT TCTTTT TCTCTC ACTTTT
1 TCTTTT TCTTTT TC-TTTT TC-TTT-T TCTTTT TCTTTT TCTTTT TCTTTT
** * ** * *** ****
26768452 TCAGTT TCTTTT TCTTTT GCAATT TCTTTT TCATTT TCTCGC TCGCAC
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT
**
26768500 TCTTTT TCTTTT TCACTT TCTTTT TCTTTT TCTT
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTT
26768534 CTTTTTCGTT
Statistics
Matches: 89, Mismatches: 36, Indels: 4
0.69 0.28 0.03
Matches are distributed among these distances:
6 77 0.87
7 9 0.10
8 3 0.03
ACGTcount: A:0.08, C:0.23, G:0.03, T:0.67
Consensus pattern (6 bp):
TCTTTT
Found at i:26768433 original size:14 final size:14
Alignment explanation
Indices: 26768404--26768440 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
26768394 TTCAACATCT
26768404 TTTTC-TTTTTCAA
1 TTTTCTTTTTTCAA
26768417 TTTTCTTTTCTTC-A
1 TTTTCTTTT-TTCAA
26768431 TTTTCTTTTT
1 TTTTCTTTTT
26768441 CTCTCACTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 6 0.27
14 13 0.59
15 3 0.14
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTCTTTTTTCAA
Found at i:26768468 original size:18 final size:18
Alignment explanation
Indices: 26768387--26768531 Score: 83
Period size: 18 Copynumber: 7.6 Consensus size: 18
26768377 TTTTCTCTCG
**
26768387 TTTCTTTTTCAACATCTT
1 TTTCTTTTTCAATTTCTT
26768405 TTTCTTTTTCAATTTTCTTT
1 TTTCTTTTTCAA-TTTC-TT
* ** *
26768425 TCTTCATTTTCTTTTTCTC
1 T-TTCTTTTTCAATTTCTT
** *
26768444 TCACTTTTTCAGTTTCTT
1 TTTCTTTTTCAATTTCTT
*
26768462 TTTCTTTTGCAATTTCTT
1 TTTCTTTTTCAATTTCTT
** *
26768480 TTTCATTTTCTCGCTCGCACTCTT
1 TTTC-TTTT-TCAAT----TTCTT
*
26768504 TTTCTTTTTCACTTTCTT
1 TTTCTTTTTCAATTTCTT
26768522 TTTCTTTTTC
1 TTTCTTTTTC
26768532 TTCTTTTTCG
Statistics
Matches: 96, Mismatches: 22, Indels: 18
0.71 0.16 0.13
Matches are distributed among these distances:
18 55 0.57
19 8 0.08
20 9 0.09
21 8 0.08
22 4 0.04
23 4 0.04
24 8 0.08
ACGTcount: A:0.09, C:0.23, G:0.03, T:0.66
Consensus pattern (18 bp):
TTTCTTTTTCAATTTCTT
Found at i:26770612 original size:46 final size:46
Alignment explanation
Indices: 26770527--26770631 Score: 156
Period size: 46 Copynumber: 2.3 Consensus size: 46
26770517 CTTTTTGAAC
* * *
26770527 CATTAACATTTCGTACCAAATCGTATTACCATTTCGAACCAAATCA
1 CATTACCAATTCGAACCAAATCGTATTACCATTTCGAACCAAATCA
* *
26770573 CCTTACCAATTCGAACCAAATCGTATTACCATTTTGAACCAAATCA
1 CATTACCAATTCGAACCAAATCGTATTACCATTTCGAACCAAATCA
*
26770619 CATTACCATTTCG
1 CATTACCAATTCG
26770632 TAACAAACCC
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 52 1.00
ACGTcount: A:0.35, C:0.28, G:0.07, T:0.30
Consensus pattern (46 bp):
CATTACCAATTCGAACCAAATCGTATTACCATTTCGAACCAAATCA
Found at i:26770638 original size:23 final size:23
Alignment explanation
Indices: 26770527--26770631 Score: 129
Period size: 23 Copynumber: 4.6 Consensus size: 23
26770517 CTTTTTGAAC
* * *
26770527 CATTAACATTTCGTACCAAATCG
1 CATTACCATTTCGAACCAAATCA
*
26770550 TATTACCATTTCGAACCAAATCA
1 CATTACCATTTCGAACCAAATCA
* * *
26770573 CCTTACCAATTCGAACCAAATCG
1 CATTACCATTTCGAACCAAATCA
* *
26770596 TATTACCATTTTGAACCAAATCA
1 CATTACCATTTCGAACCAAATCA
26770619 CATTACCATTTCG
1 CATTACCATTTCG
26770632 TAACAAACCC
Statistics
Matches: 67, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 67 1.00
ACGTcount: A:0.35, C:0.28, G:0.07, T:0.30
Consensus pattern (23 bp):
CATTACCATTTCGAACCAAATCA
Found at i:26772593 original size:13 final size:13
Alignment explanation
Indices: 26772577--26772605 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
26772567 TTAATATTCT
26772577 GCATTAAACAACA
1 GCATTAAACAACA
26772590 GCATTAAACAACA
1 GCATTAAACAACA
26772603 GCA
1 GCA
26772606 GCTAAACACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.52, C:0.24, G:0.10, T:0.14
Consensus pattern (13 bp):
GCATTAAACAACA
Found at i:26772695 original size:16 final size:16
Alignment explanation
Indices: 26772674--26772707 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
26772664 GTTTGAGACA
26772674 TAATTAAACACTTAAT
1 TAATTAAACACTTAAT
**
26772690 TAATTAAGTACTTAAT
1 TAATTAAACACTTAAT
26772706 TA
1 TA
26772708 GGTCATAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.03, T:0.41
Consensus pattern (16 bp):
TAATTAAACACTTAAT
Found at i:26778246 original size:30 final size:30
Alignment explanation
Indices: 26778212--26778272 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
26778202 ATTAGAAATT
*
26778212 ATACTTTCATATGAGCTAATTTATGAACAA
1 ATACTTTCATATGAGCTAATTTATCAACAA
*
26778242 ATACTTTCATCTGAGCTAATTTATCAACAA
1 ATACTTTCATATGAGCTAATTTATCAACAA
26778272 A
1 A
26778273 AATTTTCTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.36
Consensus pattern (30 bp):
ATACTTTCATATGAGCTAATTTATCAACAA
Found at i:26778927 original size:40 final size:40
Alignment explanation
Indices: 26778872--26778951 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
26778862 TTGATTGTTG
26778872 AATTTTGTGTTTTTGCTACTAAACTCATTTCATCTCGTAC
1 AATTTTGTGTTTTTGCTACTAAACTCATTTCATCTCGTAC
26778912 AATTTTGTGTTTTTGCTACTAAACTCATTTCATCTCGTAC
1 AATTTTGTGTTTTTGCTACTAAACTCATTTCATCTCGTAC
26778952 TTTGCATTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.23, C:0.20, G:0.10, T:0.47
Consensus pattern (40 bp):
AATTTTGTGTTTTTGCTACTAAACTCATTTCATCTCGTAC
Found at i:26787232 original size:60 final size:60
Alignment explanation
Indices: 26787137--26787320 Score: 235
Period size: 60 Copynumber: 3.1 Consensus size: 60
26787127 CTCGGCCATC
* * * *
26787137 TATCACCCTATGAATAGGAGGATCAACATCCTGACCATTCAAATTATCATTTAGACTAGG
1 TATCACCCTACGAATAGGAGGATCAACATCTTGACCATTCAAATTATCATTCAGACCAGG
* * * *
26787197 TATCACCCTACGAATAGGAGGATCAGCGTCTTGACCATTCAAGTTATCATTCACACCAGG
1 TATCACCCTACGAATAGGAGGATCAACATCTTGACCATTCAAATTATCATTCAGACCAGG
* * * * * *
26787257 TATCACCCTACGAACAGGGGGATTAACATCTTGGCCATTCATATTATCATTGAGACCAGG
1 TATCACCCTACGAATAGGAGGATCAACATCTTGACCATTCAAATTATCATTCAGACCAGG
26787317 -ATCA
1 TATCA
26787321 TTCCCATTAC
Statistics
Matches: 106, Mismatches: 18, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
59 4 0.04
60 102 0.96
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (60 bp):
TATCACCCTACGAATAGGAGGATCAACATCTTGACCATTCAAATTATCATTCAGACCAGG
Found at i:26789443 original size:63 final size:63
Alignment explanation
Indices: 26789326--26789522 Score: 184
Period size: 63 Copynumber: 3.1 Consensus size: 63
26789316 ACCACATTGT
* * * * *
26789326 GGCCAAGCCACTCAATA-TAGCAGACAAGCTGTACA--TTATGGTCAAACTACTCAATAATGTTG
1 GGCCAAGCCACTCAATATTA-CAGACAAGC--TACATGTTCTGGACAAGCCATTCAATAATGTTG
26789388 G
63 G
* * * * *
26789389 GGCTAAGCCACTCAATATTACAGACAAGTTGCATGTTCTGGATAAGCCATTCAATAATGTTGT
1 GGCCAAGCCACTCAATATTACAGACAAGCTACATGTTCTGGACAAGCCATTCAATAATGTTGG
* * * * * * * *
26789452 GGCCAAGCCACTCAATATTGCAGATAAGCTACATGTTGTGGACAAGCAACTGAATAACGTTGT
1 GGCCAAGCCACTCAATATTACAGACAAGCTACATGTTCTGGACAAGCCATTCAATAATGTTGG
26789515 GGCCAAGC
1 GGCCAAGC
26789523 TGATTATTGT
Statistics
Matches: 110, Mismatches: 21, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
61 3 0.03
63 105 0.95
64 2 0.02
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (63 bp):
GGCCAAGCCACTCAATATTACAGACAAGCTACATGTTCTGGACAAGCCATTCAATAATGTTGG
Found at i:26789681 original size:33 final size:33
Alignment explanation
Indices: 26789636--26789708 Score: 128
Period size: 33 Copynumber: 2.2 Consensus size: 33
26789626 AGGCATGCTT
*
26789636 AACATGCAAATCAGATTTATAGTCAACACAGTC
1 AACATGCAAATCAAATTTATAGTCAACACAGTC
*
26789669 AACATGCGAATCAAATTTATAGTCAACACAGTC
1 AACATGCAAATCAAATTTATAGTCAACACAGTC
26789702 AACATGC
1 AACATGC
26789709 TCAACATAGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.42, C:0.22, G:0.12, T:0.23
Consensus pattern (33 bp):
AACATGCAAATCAAATTTATAGTCAACACAGTC
Found at i:26789733 original size:18 final size:18
Alignment explanation
Indices: 26789691--26789733 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
26789681 AAATTTATAG
*
26789691 TCAACACAGTCAACATGC
1 TCAACATAGTCAACATGC
*
26789709 TCAACATAGTCAATATGC
1 TCAACATAGTCAACATGC
*
26789727 TTAACAT
1 TCAACAT
26789734 GCAAATCATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.40, C:0.26, G:0.09, T:0.26
Consensus pattern (18 bp):
TCAACATAGTCAACATGC
Found at i:26800465 original size:30 final size:30
Alignment explanation
Indices: 26800431--26800487 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
26800421 AGAAATTATC
26800431 CTTTCATATGAGCTAATTTATCAACAATTA
1 CTTTCATATGAGCTAATTTATCAACAATTA
26800461 CTTTCATATGAGCTAATTTATCAACAA
1 CTTTCATATGAGCTAATTTATCAACAA
26800488 AAAAATTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.37, C:0.18, G:0.07, T:0.39
Consensus pattern (30 bp):
CTTTCATATGAGCTAATTTATCAACAATTA
Found at i:26800503 original size:30 final size:30
Alignment explanation
Indices: 26800432--26800496 Score: 94
Period size: 30 Copynumber: 2.1 Consensus size: 30
26800422 GAAATTATCC
** *
26800432 TTTCATATGAGCTAATTTATCAACAATTAC
1 TTTCATATGAGCTAATTTATCAACAAAAAA
26800462 TTTCATATGAGCTAATTTATCAACAAAAAAA
1 TTTCATATGAGCTAATTTATCAAC-AAAAAA
26800493 TTTC
1 TTTC
26800497 TCTGAGCATT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
30 24 0.77
31 7 0.23
ACGTcount: A:0.40, C:0.15, G:0.06, T:0.38
Consensus pattern (30 bp):
TTTCATATGAGCTAATTTATCAACAAAAAA
Found at i:26807134 original size:77 final size:77
Alignment explanation
Indices: 26807002--26807160 Score: 282
Period size: 77 Copynumber: 2.1 Consensus size: 77
26806992 ATCATACAAT
* * *
26807002 GTTGAAAAGTTTTCAGGTCATTACATAACACGAATGACATCCATCTGAATGCAAAAGTACCATAT
1 GTTGTAAAGTTGTCAGGTCATTACATAACACAAATGACATCCATCTGAATGCAAAAGTACCATAT
26807067 GGACATGTGAAA
66 GGACATGTGAAA
*
26807079 GTTGTAAAGTTGTCGGGTCATTACATAACACAAATGACATCCATCTGAATGCAAAAGTACCATAT
1 GTTGTAAAGTTGTCAGGTCATTACATAACACAAATGACATCCATCTGAATGCAAAAGTACCATAT
26807144 GGACATGTGAAA
66 GGACATGTGAAA
26807156 GTTGT
1 GTTGT
26807161 CTTATCTTGG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
77 78 1.00
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.27
Consensus pattern (77 bp):
GTTGTAAAGTTGTCAGGTCATTACATAACACAAATGACATCCATCTGAATGCAAAAGTACCATAT
GGACATGTGAAA
Found at i:26808463 original size:21 final size:21
Alignment explanation
Indices: 26808434--26808473 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
26808424 GAGACGCAGC
26808434 CTGACTCTAAATTACAACAGT
1 CTGACTCTAAATTACAACAGT
*
26808455 CTGATTCTAAATTACAACA
1 CTGACTCTAAATTACAACA
26808474 TCATTTTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.23, G:0.07, T:0.30
Consensus pattern (21 bp):
CTGACTCTAAATTACAACAGT
Found at i:26809667 original size:60 final size:60
Alignment explanation
Indices: 26809574--26809723 Score: 201
Period size: 60 Copynumber: 2.5 Consensus size: 60
26809564 CTCGGCCATC
* * * *
26809574 TATCACTCTATGAATAGGAGGATCAACATCCTGACCATTCAAATTACCATTTAGACCAGG
1 TATCACCCTACGAATAGGAGGATCAACATCCTGACCATTCAAATTACCATTCACACCAGG
* * * *
26809634 TATCACCCTACGAATAGGAGGATCAGCGTCCTGACCATTCAAGTTATCATTCACACCAGG
1 TATCACCCTACGAATAGGAGGATCAACATCCTGACCATTCAAATTACCATTCACACCAGG
* * *
26809694 TATCACCCTACGAACAGGGGGATTAACATC
1 TATCACCCTACGAATAGGAGGATCAACATC
26809724 TTGGTCAGTC
Statistics
Matches: 77, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
60 77 1.00
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (60 bp):
TATCACCCTACGAATAGGAGGATCAACATCCTGACCATTCAAATTACCATTCACACCAGG
Found at i:26809741 original size:60 final size:60
Alignment explanation
Indices: 26809574--26809757 Score: 174
Period size: 60 Copynumber: 3.1 Consensus size: 60
26809564 CTCGGCCATC
* * * * * * * *
26809574 TATCACTCTATGAATAGGAGGATCAACATCCTGACCATTCAAATTACCATTTAGACCAGG
1 TATCACCCTACGAACAGGAGGATCAACATCCTGACCAGTCAAGTTATCATTCACACCAGG
* * * *
26809634 TATCACCCTACGAATAGGAGGATCAGCGTCCTGACCATTCAAGTTATCATTCACACCAGG
1 TATCACCCTACGAACAGGAGGATCAACATCCTGACCAGTCAAGTTATCATTCACACCAGG
* * * ** * *
26809694 TATCACCCTACGAACAGGGGGATTAACATCTTGGTCAGTCATA-TTATCATTGAGACCAGG
1 TATCACCCTACGAACAGGAGGATCAACATCCTGACCAGTCA-AGTTATCATTCACACCAGG
26809754 -ATCA
1 TATCA
26809758 TTCCCATTAC
Statistics
Matches: 104, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
59 4 0.04
60 99 0.95
61 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (60 bp):
TATCACCCTACGAACAGGAGGATCAACATCCTGACCAGTCAAGTTATCATTCACACCAGG
Found at i:26821087 original size:27 final size:27
Alignment explanation
Indices: 26821046--26821348 Score: 228
Period size: 27 Copynumber: 11.3 Consensus size: 27
26821036 TACCTAGACT
*
26821046 GAAATACCCTTGAT-GGGTAAAATGACC
1 GAAATACCC-CGATAGGGTAAAATGACC
*
26821073 GAAATACCCTCGAT-GGGTAAACTGACC
1 GAAATACCC-CGATAGGGTAAAATGACC
* * *
26821100 GAAATGCCCCTATAGGGTAAAATGACT
1 GAAATACCCCGATAGGGTAAAATGACC
* * **
26821127 GAAATGCCCCTATAGGGTAAAACAACC
1 GAAATACCCCGATAGGGTAAAATGACC
* * *
26821154 GAAATACCCTC-AT-GAGTAAAAGGACT
1 GAAATACCC-CGATAGGGTAAAATGACC
* * * * *
26821180 GCAATGCCCCTATAAGGTAAAATGATC
1 GAAATACCCCGATAGGGTAAAATGACC
*
26821207 GAAATACCCC-AGTAGGGTAGAAT-ACC
1 GAAATACCCCGA-TAGGGTAAAATGACC
* *
26821233 GAAATACCCCCATAGGGTAAAATGATC
1 GAAATACCCCGATAGGGTAAAATGACC
* *
26821260 GTAATATCCCTG-TAGGGTAAAATGACC
1 GAAATA-CCCCGATAGGGTAAAATGACC
* *
26821287 GTAATGCCCCTG-TAGGGTAAAATGACC
1 GAAATACCCC-GATAGGGTAAAATGACC
* * * *
26821314 GTAATGCCCTG-TAGGGTAAAATGACT
1 GAAATACCCCGATAGGGTAAAATGACC
*
26821340 GTAATACCC
1 GAAATACCC
26821349 TGGTGGGTAA
Statistics
Matches: 230, Mismatches: 37, Indels: 19
0.80 0.13 0.07
Matches are distributed among these distances:
25 1 0.00
26 70 0.30
27 155 0.67
28 4 0.02
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.21
Consensus pattern (27 bp):
GAAATACCCCGATAGGGTAAAATGACC
Found at i:26821252 original size:53 final size:53
Alignment explanation
Indices: 26821060--26821338 Score: 258
Period size: 53 Copynumber: 5.2 Consensus size: 53
26821050 TACCCTTGAT
* * * *
26821060 GGGTAAAATGACCGAAATACCCTCGAT-GGGTAAACTGACCGAAATGCCCCTATA
1 GGGTAAAATGACCGAAATGCCC-CTATAGGGTAAAATGACCGAAATACCCC-ATA
* **
26821114 GGGTAAAATGACTGAAATGCCCCTATAGGGTAAAACAACCGAAATACCCTCAT-
1 GGGTAAAATGACCGAAATGCCCCTATAGGGTAAAATGACCGAAATACCC-CATA
* * * * * *
26821167 GAGTAAAAGGACTGCAATGCCCCTATAAGGTAAAATGATCGAAATACCCCAGTA
1 GGGTAAAATGACCGAAATGCCCCTATAGGGTAAAATGACCGAAATACCCCA-TA
* * * * * **
26821221 GGGTAGAAT-ACCGAAATACCCCCATAGGGTAAAATGATCGTAATATCCCTGTA
1 GGGTAAAATGACCGAAATGCCCCTATAGGGTAAAATGACCGAAATA-CCCCATA
* * * * **
26821274 GGGTAAAATGACCGTAATGCCCCTGTAGGGTAAAATGACCGTAATGCCCTGTA
1 GGGTAAAATGACCGAAATGCCCCTATAGGGTAAAATGACCGAAATACCCCATA
26821327 GGGTAAAATGAC
1 GGGTAAAATGAC
26821339 TGTAATACCC
Statistics
Matches: 187, Mismatches: 32, Indels: 13
0.81 0.14 0.06
Matches are distributed among these distances:
52 2 0.01
53 105 0.56
54 79 0.42
55 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.20
Consensus pattern (53 bp):
GGGTAAAATGACCGAAATGCCCCTATAGGGTAAAATGACCGAAATACCCCATA
Found at i:26821344 original size:80 final size:81
Alignment explanation
Indices: 26821060--26821348 Score: 284
Period size: 80 Copynumber: 3.6 Consensus size: 81
26821050 TACCCTTGAT
* * * *
26821060 GGGTAAAATGACCGAAATACCCTCG-ATGGGTAAACTGACCGAAATGCCCCTATAGGGTAAAATG
1 GGGTAAAATGACCGAAATACCCT-GTATGGGTAAAATGACTGTAATACCCCTATAGGGTAAAATG
* *
26821124 ACTGAAATGCCCCTATA
65 ACCGAAATGCCCCTGTA
** * * * * * *
26821141 GGGTAAAACAACCGAAATACCCT-CATGAGTAAAAGGACTGCAATGCCCCTATAAGGTAAAATGA
1 GGGTAAAATGACCGAAATACCCTGTATGGGTAAAATGACTGTAATACCCCTATAGGGTAAAATGA
* * *
26821205 TCGAAATACCCCAGTA
66 CCGAAATGCCCCTGTA
* ** * *
26821221 GGGTAGAAT-ACCGAAATACCC-CCATAGGGTAAAATGA-TCGTAATATCCCTGTAGGGTAAAAT
1 GGGTAAAATGACCGAAATACCCTGTAT-GGGTAAAATGACT-GTAATACCCCTATAGGGTAAAAT
*
26821283 GACCGTAATGCCCCTGTA
64 GACCGAAATGCCCCTGTA
* *
26821301 GGGTAAAATGACCGTAATGCCCTGTA-GGGTAAAATGACTGTAATACCC
1 GGGTAAAATGACCGAAATACCCTGTATGGGTAAAATGACTGTAATACCC
26821349 TGGTGGGTAA
Statistics
Matches: 169, Mismatches: 32, Indels: 15
0.78 0.15 0.07
Matches are distributed among these distances:
79 16 0.09
80 120 0.71
81 32 0.19
82 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.20
Consensus pattern (81 bp):
GGGTAAAATGACCGAAATACCCTGTATGGGTAAAATGACTGTAATACCCCTATAGGGTAAAATGA
CCGAAATGCCCCTGTA
Found at i:26821458 original size:24 final size:24
Alignment explanation
Indices: 26821393--26821458 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
26821383 CAAATGATTG
* *
26821393 TTGTCTATGGTT-AAATGACTGAT
1 TTGTCTATGTTTGGAATGACTGAT
*
26821416 TTGTCTATGTTTGGTATGACTGAT
1 TTGTCTATGTTTGGAATGACTGAT
*
26821440 TTGTCTGTGATTT-GAATGA
1 TTGTCTATG-TTTGGAATGA
26821459 ATGGTTATGA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
23 11 0.31
24 22 0.61
25 3 0.08
ACGTcount: A:0.21, C:0.08, G:0.24, T:0.47
Consensus pattern (24 bp):
TTGTCTATGTTTGGAATGACTGAT
Found at i:26821589 original size:27 final size:27
Alignment explanation
Indices: 26821533--26821590 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 27
26821523 GGAAGGATTG
* *
26821533 TACTGGTGGTTCTGCCACAATCACTGT
1 TACTGGTGGTTCGGCCACAATCACTAT
26821560 TACTGGTGGCTT-GGCCACATAT-ACTAT
1 TACTGGTGG-TTCGGCCACA-ATCACTAT
26821587 TACT
1 TACT
26821591 AGCAGCTTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 23 0.85
28 4 0.15
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (27 bp):
TACTGGTGGTTCGGCCACAATCACTAT
Found at i:26821748 original size:32 final size:32
Alignment explanation
Indices: 26821636--26821748 Score: 147
Period size: 32 Copynumber: 3.5 Consensus size: 32
26821626 GCTGCGATGC
* *
26821636 TACTGATGGCTTTGTCCTGATCATAGTACCGT
1 TACTGATGGCTTTGTACTGATCATAGTACCAT
* * * *
26821668 TACTAATGGCCTTGTGCCGATCATAGTACCAT
1 TACTGATGGCTTTGTACTGATCATAGTACCAT
26821700 TACTGATGGCTTTGTACTGATCATA-TGACCAT
1 TACTGATGGCTTTGTACTGATCATAGT-ACCAT
*
26821732 TACTGATGGCTATGTAC
1 TACTGATGGCTTTGTAC
26821749 CAATCATTTC
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
31 1 0.01
32 69 0.99
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.35
Consensus pattern (32 bp):
TACTGATGGCTTTGTACTGATCATAGTACCAT
Found at i:26821755 original size:32 final size:32
Alignment explanation
Indices: 26821636--26821818 Score: 140
Period size: 32 Copynumber: 5.7 Consensus size: 32
26821626 GCTGCGATGC
*
26821636 TACTGATGGCTTTGT-CCTGATCATA-GTACCGT
1 TACTGATGGCTTTGTGCC-AATCATATG-ACCGT
* * * *
26821668 TACTAATGGCCTTGTGCCGATCATA-GTACCAT
1 TACTGATGGCTTTGTGCCAATCATATG-ACCGT
* ** *
26821700 TACTGATGGCTTTGTACTGATCATATGACCAT
1 TACTGATGGCTTTGTGCCAATCATATGACCGT
* * * * **
26821732 TACTGATGGCTATGTACCAATCATTTCATTGT
1 TACTGATGGCTTTGTGCCAATCATATGACCGT
* * *
26821764 TACTGATGG-TTGTGTGCCAATCATATCACTGC
1 TACTGATGGCTT-TGTGCCAATCATATGACCGT
26821796 TACTGATGGCTTTGTGCCAATCA
1 TACTGATGGCTTTGTGCCAATCA
26821819 CATTACTGTA
Statistics
Matches: 127, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
31 1 0.01
32 121 0.95
33 5 0.04
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCAATCATATGACCGT
Found at i:26821755 original size:64 final size:64
Alignment explanation
Indices: 26821636--26821755 Score: 163
Period size: 64 Copynumber: 1.9 Consensus size: 64
26821626 GCTGCGATGC
* * * *
26821636 TACTGATGGCTTTGTCCTGATCATAGTACCGTTACTAATGGCCTTGTGCCGATCATAGTACCAT
1 TACTGATGGCTTTGTACTGATCATAGTACCATTACTAATGGCCTTGTACCAATCATAGTACCAT
*
26821700 TACTGATGGCTTTGTACTGATCATA-TGACCATTACTGATGG-CTATGTACCAATCAT
1 TACTGATGGCTTTGTACTGATCATAGT-ACCATTACTAATGGCCT-TGTACCAATCAT
26821756 TTCATTGTTA
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
63 3 0.06
64 46 0.94
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (64 bp):
TACTGATGGCTTTGTACTGATCATAGTACCATTACTAATGGCCTTGTACCAATCATAGTACCAT
Found at i:26821917 original size:26 final size:26
Alignment explanation
Indices: 26821888--26821940 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
26821878 GGCTCTTAGC
* * *
26821888 CATTCTGACTACTGGCAGCTCTGCTG
1 CATTATGACTACTGGCAACTATGCTG
* *
26821914 CATTATTACTATTGGCAACTATGCTG
1 CATTATGACTACTGGCAACTATGCTG
26821940 C
1 C
26821941 GATATTGTTG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (26 bp):
CATTATGACTACTGGCAACTATGCTG
Found at i:26823734 original size:62 final size:63
Alignment explanation
Indices: 26823617--26823754 Score: 167
Period size: 62 Copynumber: 2.2 Consensus size: 63
26823607 CACCACAATA
* *
26823617 TGGCCAAGCCACTCAATATAGCAGACAAGCTGCAGATTGTGGTCAAACAACTCAATAACGTTG
1 TGGCCAAGCCACTCAATATAGCAGACAAGCTGCAGATTCTGATCAAACAACTCAATAACGTTG
* * * * *
26823680 -GGCTAAGCCACTCAATATTGCAGACAAGCTGCACG-TTCTAGAT-AAGCCATTCAATAACGTTG
1 TGGCCAAGCCACTCAATATAGCAGACAAGCTGCA-GATTCT-GATCAAACAACTCAATAACGTTG
26823742 TGGCCAA-CCACTC
1 TGGCCAAGCCACTC
26823755 TGATGCAATA
Statistics
Matches: 64, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
62 56 0.88
63 8 0.12
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.22
Consensus pattern (63 bp):
TGGCCAAGCCACTCAATATAGCAGACAAGCTGCAGATTCTGATCAAACAACTCAATAACGTTG
Found at i:26825328 original size:21 final size:20
Alignment explanation
Indices: 26825302--26825361 Score: 52
Period size: 18 Copynumber: 3.0 Consensus size: 20
26825292 CACAAGCAAT
26825302 TGAATAACGTTGTAGCCAAGC
1 TGAATAA-GTTGTAGCCAAGC
* *
26825323 TGAAT-A-TTGCAGACAAGC
1 TGAATAAGTTGTAGCCAAGC
* *
26825341 TGCATAATGTTGTGGCCAAGC
1 TGAATAA-GTTGTAGCCAAGC
26825362 CACTGAATAT
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
18 14 0.47
19 1 0.03
20 1 0.03
21 14 0.47
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (20 bp):
TGAATAAGTTGTAGCCAAGC
Found at i:26825481 original size:33 final size:33
Alignment explanation
Indices: 26825438--26825510 Score: 119
Period size: 33 Copynumber: 2.2 Consensus size: 33
26825428 GGGCAAGCTT
* *
26825438 AACATACGAATCAGATTTATAGTCAACACAGTC
1 AACATGCGAATCAAATTTATAGTCAACACAGTC
*
26825471 AACATGCGAATCAAATTTATAGTCAACATAGTC
1 AACATGCGAATCAAATTTATAGTCAACACAGTC
26825504 AACATGC
1 AACATGC
26825511 TTAATGTAAC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.42, C:0.21, G:0.12, T:0.25
Consensus pattern (33 bp):
AACATGCGAATCAAATTTATAGTCAACACAGTC
Found at i:26827381 original size:27 final size:27
Alignment explanation
Indices: 26827350--26827630 Score: 321
Period size: 27 Copynumber: 10.4 Consensus size: 27
26827340 CCCCAAAATA
*
26827350 GGTAAAATGACCAAAATACCCTCATAG
1 GGTAAAATGACCAAAATACCCCCATAG
*
26827377 GGTAAAATGACCAAAATACCTCCATAG
1 GGTAAAATGACCAAAATACCCCCATAG
*
26827404 GGTAAAATGACCGAAATACCCCCATAG
1 GGTAAAATGACCAAAATACCCCCATAG
* * *
26827431 GGTAAAATGA-TAGAAATACACCCACAG
1 GGTAAAATGACCA-AAATACCCCCATAG
* **
26827458 AGTAAAATGACTGAAATACCCCCATAG
1 GGTAAAATGACCAAAATACCCCCATAG
*
26827485 GGTAAAATGACCAAAATACCCCCATAA
1 GGTAAAATGACCAAAATACCCCCATAG
* * *
26827512 GGTAAAATGATCGAAATACCCTCATAG
1 GGTAAAATGACCAAAATACCCCCATAG
** *
26827539 GGTAAAATGGTCAAAATATCCCCATAG
1 GGTAAAATGACCAAAATACCCCCATAG
* ** *
26827566 GGTAAAAGGACTGAAATACCCCTATAG
1 GGTAAAATGACCAAAATACCCCCATAG
* * *
26827593 AGTAAAATGATCGAAATACCCCCATAG
1 GGTAAAATGACCAAAATACCCCCATAG
* *
26827620 GATGAAATGAC
1 GGTAAAATGAC
26827631 TATTATACCC
Statistics
Matches: 212, Mismatches: 40, Indels: 4
0.83 0.16 0.02
Matches are distributed among these distances:
27 211 1.00
28 1 0.00
ACGTcount: A:0.44, C:0.21, G:0.17, T:0.18
Consensus pattern (27 bp):
GGTAAAATGACCAAAATACCCCCATAG
Found at i:26829532 original size:101 final size:102
Alignment explanation
Indices: 26829412--26829595 Score: 273
Period size: 101 Copynumber: 1.8 Consensus size: 102
26829402 AAAGTGATGG
*
26829412 TCACGTGTGTAGTACTATGTGCAGACTACTACGTGTACCAGAAT-G-ATAGGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGACTACTACGTGTACC-GAATGGCATAGGTCACATGTGTAGT
*
26829475 ACTTTGTGCAGGCTACTATGCGTACTAGATAGTTTCGA
65 ACTATGTGCAGGCTACTATGCGTACTAGATAGTTTCGA
* * * * * *
26829513 TCACGTGTGTAGTATTATGTGCAGGCTACTACGTGTATCGGATGGCATTGTTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGACTACTACGTGTACCGAATGGCATAGGTCACATGTGTAGTA
26829578 CTATGTGCAGGCTACTAT
66 CTATGTGCAGGCTACTAT
26829596 ATGAACCGAA
Statistics
Matches: 73, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
100 3 0.04
101 37 0.51
102 33 0.45
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.33
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGACTACTACGTGTACCGAATGGCATAGGTCACATGTGTAGTA
CTATGTGCAGGCTACTATGCGTACTAGATAGTTTCGA
Found at i:26829534 original size:51 final size:51
Alignment explanation
Indices: 26829412--26829595 Score: 144
Period size: 51 Copynumber: 3.6 Consensus size: 51
26829402 AAAGTGATGG
* * * * * * * *
26829412 TCACGTGTGTAGTACTATGTGCAGACTACTACGTGTACCAGA-ATG-ATAGG
1 TCACATGTGTAGTATTATGTGCAGGCTACTATGCGTATCAGATA-GCATTGA
* *
26829462 TCGCATGTGTAGTACTT-TGTGCAGGCTACTATGCGTA-CTAGATAG-TTTCGA
1 TCACATGTGTAGTA-TTATGTGCAGGCTACTATGCGTATC-AGATAGCATT-GA
* * * * * *
26829513 TCACGTGTGTAGTATTATGTGCAGGCTACTACGTGTATCGGATGGCATTGT
1 TCACATGTGTAGTATTATGTGCAGGCTACTATGCGTATCAGATAGCATTGA
*
26829564 TCACATGTGTAGTACTATGTGCAGGCTACTAT
1 TCACATGTGTAGTATTATGTGCAGGCTACTAT
26829596 ATGAACCGAA
Statistics
Matches: 107, Mismatches: 20, Indels: 13
0.76 0.14 0.09
Matches are distributed among these distances:
49 1 0.01
50 36 0.34
51 67 0.63
52 3 0.03
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.33
Consensus pattern (51 bp):
TCACATGTGTAGTATTATGTGCAGGCTACTATGCGTATCAGATAGCATTGA
Found at i:26829613 original size:51 final size:51
Alignment explanation
Indices: 26829513--26829613 Score: 112
Period size: 51 Copynumber: 2.0 Consensus size: 51
26829503 ATAGTTTCGA
* * * * * * **
26829513 TCACGTGTGTAGTATTATGTGCAGGCTACTACGTGTATCGGATGGCATTGT
1 TCACATGTGTAGTACTATGTGCAGGCTACTACATGAACCGAACAGCATTGT
* *
26829564 TCACATGTGTAGTACTATGTGCAGGCTACTATATGAACCGAACATCATTG
1 TCACATGTGTAGTACTATGTGCAGGCTACTACATGAACCGAACAGCATTG
26829614 ATTAGTAAGG
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
51 40 1.00
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.33
Consensus pattern (51 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTACATGAACCGAACAGCATTGT
Found at i:26829656 original size:45 final size:45
Alignment explanation
Indices: 26829600--26829694 Score: 154
Period size: 45 Copynumber: 2.1 Consensus size: 45
26829590 TACTATATGA
* *
26829600 ACCGAACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
* *
26829645 ACCGGACATCATTGATTAATAAGGTGGTTGTTATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
26829690 ACCGA
1 ACCGA
26829695 GTATCTGTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
Found at i:26838021 original size:22 final size:21
Alignment explanation
Indices: 26837996--26838039 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
26837986 TGATAAACTT
26837996 TAATATATA-ATTATATTATTTA
1 TAATATATATATTA-ATT-TTTA
*
26838018 TAATTTATATATTAATTTTTA
1 TAATATATATATTAATTTTTA
26838039 T
1 T
26838040 CAACTTAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 11 0.55
23 4 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TAATATATATATTAATTTTTA
Found at i:26843133 original size:28 final size:28
Alignment explanation
Indices: 26843086--26843173 Score: 106
Period size: 28 Copynumber: 3.1 Consensus size: 28
26843076 TATTGCACTG
* * * *
26843086 CACTGTTACTATATTGGGCTAAGGTCCA
1 CACTGTTACTGTACTAGGCTAAGGCCCA
26843114 CACTGATT-CTGTACTAGGCTAAGGCCCA
1 CACTG-TTACTGTACTAGGCTAAGGCCCA
* *
26843142 CACTGTTACTGTATTGGGCTAAGGCCCA
1 CACTGTTACTGTACTAGGCTAAGGCCCA
26843170 CACT
1 CACT
26843174 ATACTGTCAC
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
27 2 0.04
28 48 0.92
29 2 0.04
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (28 bp):
CACTGTTACTGTACTAGGCTAAGGCCCA
Found at i:26847164 original size:50 final size:50
Alignment explanation
Indices: 26847110--26847233 Score: 149
Period size: 50 Copynumber: 2.5 Consensus size: 50
26847100 TATTGAGGTT
* * * *
26847110 ATGAGCGGTCCCACATAAGACCATGTCTGGGACATGGCATTGTCACCGAG
1 ATGAGAGGTCCCACATAAGACCATGTCTGGGAAATGGCATGGGCACCGAG
* * *
26847160 ATGAGAGGTCCCCCATAAGACTATGTCTGGGAAATGGCATGGGCACCGAT
1 ATGAGAGGTCCCACATAAGACCATGTCTGGGAAATGGCATGGGCACCGAG
** **
26847210 ATGAGAACTCCCATGTAAGACCAT
1 ATGAGAGGTCCCACATAAGACCAT
26847234 ATCTTGGATA
Statistics
Matches: 61, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 61 1.00
ACGTcount: A:0.29, C:0.24, G:0.27, T:0.20
Consensus pattern (50 bp):
ATGAGAGGTCCCACATAAGACCATGTCTGGGAAATGGCATGGGCACCGAG
Found at i:26847676 original size:20 final size:20
Alignment explanation
Indices: 26847651--26847689 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
26847641 TACTTTCTTC
26847651 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
26847671 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
26847690 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:26848015 original size:50 final size:50
Alignment explanation
Indices: 26847953--26848072 Score: 132
Period size: 50 Copynumber: 2.4 Consensus size: 50
26847943 GAATGTCATA
* ** * * *
26847953 TCCCAGATATGGTCTTACATAAGAGGTCTCATATCGGTGCCCATGCCATG
1 TCCCAGACATGGTCTTACATAAGACCTCTCATATCGGTACCAACGCCATG
**** *
26848003 TCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTACCAACGCCATG
1 TCCCAGACATGGTCTTACATAAGACCTCTCATATCGGTACCAACGCCATG
*
26848053 TCCCATACATGGTCTTACAT
1 TCCCAGACATGGTCTTACAT
26848073 GTGGTCTCAT
Statistics
Matches: 56, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
50 56 1.00
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.27
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACATAAGACCTCTCATATCGGTACCAACGCCATG
Found at i:26849067 original size:290 final size:287
Alignment explanation
Indices: 26848543--26849401 Score: 1311
Period size: 283 Copynumber: 3.0 Consensus size: 287
26848533 AATTCCTACT
* * *
26848543 CTAACATTTACTTATGAACATTAGGTATTTTTACCGATTATGTTGTTTTGCTCGTTTTCACTTAA
1 CTAACATTTACTTATGAACATTAGGTATTTTTACTGATTATGTCGTTTTGCTTGTTTTCACTTAA
* * *
26848608 AATTGCCTAGAAAAAGTTGTTTAACATAATTTCAAACTTCATATTCTACCATAAAACATCAAAAT
66 AATCGCCTAGCAAAAGTTCTTTAACATAATTTCAAACTTCATATTCTACCATAAAACATCAAAAT
* *
26848673 AAACATATTTCACCTACGGGTATTTTTCCAAATATGAACCCTAACACGAATTAATGGTAGAATAA
131 AAACACATTTCACCTATGGGTATTTTTCCAAATATGAACCCTAACACGAATTAATGGTAGAATAA
* *
26848738 GCTAAACCGAGCTA-TGAGGGTTCCAAAAATGTAAAAAAAACATTAAAAACGGGGCTTGGACGCA
196 GCTAAACCGAGCTACT-AGGATTCCAAAAATGT--AAAAAA-ATTAAAAACGGGGCTTGGATGCA
26848802 CTTACTATGAGCTTGAGAAAGTGAAAAAACC
257 CTTACTATGAGCTTGAGAAAGTGAAAAAACC
*
26848833 CTAACATTTACTTATGAACATTAGGTATTTTTACTGATTATGTCATTTTGCTTGTTTTCACTTAA
1 CTAACATTTACTTATGAACATTAGGTATTTTTACTGATTATGTCGTTTTGCTTGTTTTCACTTAA
* * *
26848898 AATCGCCTAGCAAAAGTTCTTTATCATAATTTCAAACTTCATAATCTACCATAAAACAACAAAAT
66 AATCGCCTAGCAAAAGTTCTTTAACATAATTTCAAACTTCATATTCTACCATAAAACATCAAAAT
*
26848963 AAACACATTTCACCTATGGGTATTTTTCCAAATATGAACCCTAACATGAATTTAATGGTAGAATA
131 AAACACATTTCACCTATGGGTATTTTTCCAAATATGAACCCTAACACGAA-TTAATGGTAGAATA
*
26849028 AGCTAAACCGAGCTACTAGGATTCCAAAAATGT---AAAA--AAAAATGGGGCTTGGATGCACTT
195 AGCTAAACCGAGCTACTAGGATTCCAAAAATGTAAAAAAATTAAAAACGGGGCTTGGATGCACTT
26849088 ACTATGAGCTTGAGAAAGTGAAAAAACC
260 ACTATGAGCTTGAGAAAGTGAAAAAACC
*
26849116 CTAACATTTACTTATGAACATTAGTTATTTTTACTGATTATGTCGTTTTGCTTGTTTTCACTTAA
1 CTAACATTTACTTATGAACATTAGGTATTTTTACTGATTATGTCGTTTTGCTTGTTTTCACTTAA
* *
26849181 AATCGCCTAGCAAAAGTTCTTTAACATAATTTCAAAATTCATATTCTACCATAGAACATCAAAAT
66 AATCGCCTAGCAAAAGTTCTTTAACATAATTTCAAACTTCATATTCTACCATAAAACATCAAAAT
* *** * * *
26849246 AAACACATTTCACCTATGTGTATTTTTCCAAATATGAATTGTAACAGGAATTAACGATAGAATAA
131 AAACACATTTCACCTATGGGTATTTTTCCAAATATGAACCCTAACACGAATTAATGGTAGAATAA
* * * * **
26849311 GCTAAATCGAGCTACGAGGACTCTAAAAACAT-AAAAAATT-AAAACGGGGCTTGGATGCACTTA
196 GCTAAACCGAGCTACTAGGATTCCAAAAATGTAAAAAAATTAAAAACGGGGCTTGGATGCACTTA
* *
26849374 CTATGAGGTTGAGAAAGTGAAGAAACC
261 CTATGAGCTTGAGAAAGTGAAAAAACC
26849401 C
1 C
26849402 CAGCTATGGA
Statistics
Matches: 524, Mismatches: 39, Indels: 17
0.90 0.07 0.03
Matches are distributed among these distances:
282 39 0.07
283 217 0.41
284 4 0.01
285 49 0.09
286 3 0.01
290 167 0.32
291 44 0.08
292 1 0.00
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.32
Consensus pattern (287 bp):
CTAACATTTACTTATGAACATTAGGTATTTTTACTGATTATGTCGTTTTGCTTGTTTTCACTTAA
AATCGCCTAGCAAAAGTTCTTTAACATAATTTCAAACTTCATATTCTACCATAAAACATCAAAAT
AAACACATTTCACCTATGGGTATTTTTCCAAATATGAACCCTAACACGAATTAATGGTAGAATAA
GCTAAACCGAGCTACTAGGATTCCAAAAATGTAAAAAAATTAAAAACGGGGCTTGGATGCACTTA
CTATGAGCTTGAGAAAGTGAAAAAACC
Found at i:26855734 original size:20 final size:20
Alignment explanation
Indices: 26855709--26855747 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
26855699 TACTTTCTTC
26855709 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
26855729 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
26855748 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:26856075 original size:50 final size:50
Alignment explanation
Indices: 26856013--26856132 Score: 141
Period size: 50 Copynumber: 2.4 Consensus size: 50
26856003 GAATGTCATA
* ** * * *
26856013 TCCCAGATATGGTCTTACATAAGAGTTCTCATATCGGTGCCCATGCCATG
1 TCCCAGACATGGTCTTACATAAGACCTCTCATATCGGTACCAACGCCATG
**** *
26856063 TCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTACCAACGCCATG
1 TCCCAGACATGGTCTTACATAAGACCTCTCATATCGGTACCAACGCCATG
26856113 TCCCAGACATGGTCTTACAT
1 TCCCAGACATGGTCTTACAT
26856133 GTGGTCTCAT
Statistics
Matches: 57, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 57 1.00
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.27
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACATAAGACCTCTCATATCGGTACCAACGCCATG
Found at i:26871467 original size:45 final size:45
Alignment explanation
Indices: 26871403--26871635 Score: 403
Period size: 45 Copynumber: 5.2 Consensus size: 45
26871393 TCGGCCATGG
* * * * *
26871403 TGCTTCCTCAATTTGTTCCATAAACTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
*
26871448 TGCTTCCTTAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
26871493 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
26871538 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
*
26871583 TGCTTCCTCAAATTCTCCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
26871628 TGCTTCCT
1 TGCTTCCT
26871636 TAATTTCATG
Statistics
Matches: 180, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 180 1.00
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (45 bp):
TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
Found at i:26877930 original size:45 final size:45
Alignment explanation
Indices: 26877881--26878113 Score: 412
Period size: 45 Copynumber: 5.2 Consensus size: 45
26877871 TCGGCCATGG
* * * *
26877881 TGCTTCCTCAATTTGTTCCATAAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
*
26877926 TGCTTCCTTAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
26877971 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
26878016 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
*
26878061 TGCTTCCTCAAATTCTCCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
26878106 TGCTTCCT
1 TGCTTCCT
26878114 TAATTTCATA
Statistics
Matches: 181, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 181 1.00
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (45 bp):
TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
Found at i:26880513 original size:18 final size:17
Alignment explanation
Indices: 26880478--26880517 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
26880468 AACGAGTGAG
* *
26880478 AAAAAAGAAAATGTGAA
1 AAAAAAGAAAAAGAGAA
26880495 ACAAAAAGAAAAAGAGAA
1 A-AAAAAGAAAAAGAGAA
26880513 AAAAA
1 AAAAA
26880518 GAGATGATGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.78, C:0.03, G:0.15, T:0.05
Consensus pattern (17 bp):
AAAAAAGAAAAAGAGAA
Found at i:26892984 original size:15 final size:16
Alignment explanation
Indices: 26892966--26892998 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
26892956 CCTTTTCGCC
26892966 TTTTTCATTTTCA-TT
1 TTTTTCATTTTCACTT
*
26892981 TTTTTCTTTTTCACTT
1 TTTTTCATTTTCACTT
26892997 TT
1 TT
26892999 ATTTTTCTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTCATTTTCACTT
Found at i:26892989 original size:21 final size:21
Alignment explanation
Indices: 26892965--26893009 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
26892955 TCCTTTTCGC
*
26892965 CTTTTTCA-TTTTCATTTTTTT
1 CTTTTTCACTTTT-ATTTTTCT
26892986 CTTTTTCACTTTTATTTTTCT
1 CTTTTTCACTTTTATTTTTCT
26893007 CTT
1 CTT
26893010 CTCTTTTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.09, C:0.18, G:0.00, T:0.73
Consensus pattern (21 bp):
CTTTTTCACTTTTATTTTTCT
Found at i:26897914 original size:22 final size:22
Alignment explanation
Indices: 26897889--26897932 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
26897879 TTTTGAACCA
*
26897889 TTACCATTTTGTACCAAATCCC
1 TTACCATTTCGTACCAAATCCC
*
26897911 TTACCATTTCGTACCAATTCCC
1 TTACCATTTCGTACCAAATCCC
26897933 AAATACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.25, C:0.34, G:0.05, T:0.36
Consensus pattern (22 bp):
TTACCATTTCGTACCAAATCCC
Found at i:26898171 original size:20 final size:20
Alignment explanation
Indices: 26898146--26898190 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
26898136 GCGGAAATAT
*
26898146 AAAAGAAAAGAAAAATGAAA
1 AAAAGAAAAGAAAAATCAAA
*
26898166 AAAAG-AAAGAAAATTCAAA
1 AAAAGAAAAGAAAAATCAAA
26898185 AAAAGA
1 AAAAGA
26898191 GAATGAAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.78, C:0.02, G:0.13, T:0.07
Consensus pattern (20 bp):
AAAAGAAAAGAAAAATCAAA
Found at i:26898238 original size:14 final size:15
Alignment explanation
Indices: 26898209--26898238 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
26898199 AGAGAGCGAG
26898209 AAAAGAAAAAGATGA
1 AAAAGAAAAAGATGA
26898224 AAAAGAAAAAG-TGA
1 AAAAGAAAAAGATGA
26898238 A
1 A
26898239 TGAAAAATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.73, C:0.00, G:0.20, T:0.07
Consensus pattern (15 bp):
AAAAGAAAAAGATGA
Found at i:26901252 original size:30 final size:30
Alignment explanation
Indices: 26901199--26901257 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
26901189 ACTTTAATAC
* *
26901199 GAGCTGAATTAACTTCCATTTCAGCTCAAT
1 GAGCTGAATTAACTTCAACTTCAGCTCAAT
26901229 GAGCTCGAATTAAC-TCAACTTCAGCTCAA
1 GAGCT-GAATTAACTTCAACTTCAGCTCAA
26901258 ACATTTTCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (30 bp):
GAGCTGAATTAACTTCAACTTCAGCTCAAT
Found at i:26902417 original size:22 final size:22
Alignment explanation
Indices: 26902389--26902432 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
26902379 TTTTGAACCA
*
26902389 TTACCATTTTGTACCAAATCCC
1 TTACCATTTCGTACCAAATCCC
*
26902411 TTACCATTTCGTACCAATTCCC
1 TTACCATTTCGTACCAAATCCC
26902433 AAATACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.25, C:0.34, G:0.05, T:0.36
Consensus pattern (22 bp):
TTACCATTTCGTACCAAATCCC
Found at i:26915596 original size:50 final size:50
Alignment explanation
Indices: 26915530--26915658 Score: 170
Period size: 50 Copynumber: 2.6 Consensus size: 50
26915520 AGGTCCCACA
***
26915530 TAAGACCATGTTTGGGACATGGCATTGGCACCGAGATAAGCGGTCCTC-TG
1 TAAGACCATGTTTGGGACATGGCATTGGCACCGAGATAAGAACTCC-CATG
* *
26915580 TAAGACCATGTTTGGGACATGGCATGGGCACCGATATAAGAACTCCCATG
1 TAAGACCATGTTTGGGACATGGCATTGGCACCGAGATAAGAACTCCCATG
* * *
26915630 TAAGACCATATCTGGGATATGGCATTGGC
1 TAAGACCATGTTTGGGACATGGCATTGGC
26915659 TGTACTGGAA
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
49 1 0.01
50 68 0.99
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (50 bp):
TAAGACCATGTTTGGGACATGGCATTGGCACCGAGATAAGAACTCCCATG
Found at i:26915936 original size:20 final size:20
Alignment explanation
Indices: 26915911--26915949 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
26915901 TTAGTTATTT
26915911 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
26915931 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
26915950 AAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:26919241 original size:9 final size:9
Alignment explanation
Indices: 26919227--26919254 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
26919217 AGCCCCGTTG
26919227 GAATTGAAA
1 GAATTGAAA
26919236 GAATTGAAA
1 GAATTGAAA
26919245 GAATTGAAA
1 GAATTGAAA
26919254 G
1 G
26919255 CTCAGTTGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.25, T:0.21
Consensus pattern (9 bp):
GAATTGAAA
Found at i:26924103 original size:50 final size:50
Alignment explanation
Indices: 26924049--26924190 Score: 167
Period size: 50 Copynumber: 2.8 Consensus size: 50
26924039 ATTGACGTTT
26924049 TGAGAGGTCCCACGTAAGATCATGTCTGGGACATGGCATTGGCACCGAGA
1 TGAGAGGTCCCACGTAAGATCATGTCTGGGACATGGCATTGGCACCGAGA
* * * * * * *
26924099 TGAGAGGTCCCCCATAAGATTATGTATGAGACATGGCATGGGCACCGATA
1 TGAGAGGTCCCACGTAAGATCATGTCTGGGACATGGCATTGGCACCGAGA
** * * * *
26924149 TGAGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGG
1 TGAGAGGTCCCACGTAAGATCATGTCTGGGACATGGCATTGG
26924191 TAGTACAAGA
Statistics
Matches: 73, Mismatches: 19, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
50 73 1.00
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (50 bp):
TGAGAGGTCCCACGTAAGATCATGTCTGGGACATGGCATTGGCACCGAGA
Found at i:26930300 original size:40 final size:39
Alignment explanation
Indices: 26930250--26930362 Score: 136
Period size: 40 Copynumber: 2.8 Consensus size: 39
26930240 CAAGATTACC
* *
26930250 AAAGTCCAAATAGGGTCACATATGTGCATTCAGGGGTACT
1 AAAGTACAAATAGGG-CACATATGTGCATTCAGGGGTACG
* * *
26930290 AAAGTACAAATAGGGGCACTTATGTGGATTTAGGGGTACG
1 AAAGTACAAATA-GGGCACATATGTGCATTCAGGGGTACG
* *
26930330 AAAGTACAAACAGGAGCACAAATGTGCATTCAG
1 AAAGTACAAATAGG-GCACATATGTGCATTCAG
26930363 CAATAATTAT
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
39 2 0.03
40 56 0.92
41 3 0.05
ACGTcount: A:0.36, C:0.15, G:0.27, T:0.22
Consensus pattern (39 bp):
AAAGTACAAATAGGGCACATATGTGCATTCAGGGGTACG
Found at i:26931714 original size:54 final size:54
Alignment explanation
Indices: 26931651--26931756 Score: 131
Period size: 54 Copynumber: 2.0 Consensus size: 54
26931641 CTTATTCAAA
* * * * *
26931651 TGCCCCACACGCATGTGTGCCAGGTCATGTCCTAGGTCGTGTAACTCACTGAGT
1 TGCCACACACACACGTGAGCCAGGCCATGTCCTAGGTCGTGTAACTCACTGAGT
* * * *
26931705 TGCCACACACACACGTGAGCCAGGCCATGTGCTTGGTTGTGTATCTCACTGA
1 TGCCACACACACACGTGAGCCAGGCCATGTCCTAGGTCGTGTAACTCACTGA
26931757 CTTGAGCAGT
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 43 1.00
ACGTcount: A:0.20, C:0.29, G:0.25, T:0.25
Consensus pattern (54 bp):
TGCCACACACACACGTGAGCCAGGCCATGTCCTAGGTCGTGTAACTCACTGAGT
Found at i:26932483 original size:40 final size:40
Alignment explanation
Indices: 26932429--26932602 Score: 204
Period size: 40 Copynumber: 4.3 Consensus size: 40
26932419 GATTCAAGAT
* *
26932429 TACCAAAGTACAAATAGGGGCATGTATGTGCATTCAGGGG
1 TACCGAAGTACAAATAGGGGCACGTATGTGCATTCAGGGG
* * * *
26932469 TACCGAAGTGCAAATAGTGGCACGCATGTGCATTCAAGGG
1 TACCGAAGTACAAATAGGGGCACGTATGTGCATTCAGGGG
* * * *
26932509 TACTGAAGTACAAATCGGGGTACGTATGTGCATTTAGGGG
1 TACCGAAGTACAAATAGGGGCACGTATGTGCATTCAGGGG
* * *
26932549 TACTGAAGTACAAACAGGGGCACGTATGTGCAATCAGGGG
1 TACCGAAGTACAAATAGGGGCACGTATGTGCATTCAGGGG
* * *
26932589 CATCGAAGAACAAA
1 TACCGAAGTACAAA
26932603 CAAGGGTGTA
Statistics
Matches: 111, Mismatches: 23, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 111 1.00
ACGTcount: A:0.33, C:0.17, G:0.30, T:0.21
Consensus pattern (40 bp):
TACCGAAGTACAAATAGGGGCACGTATGTGCATTCAGGGG
Found at i:26932531 original size:20 final size:20
Alignment explanation
Indices: 26932506--26932568 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
26932496 GTGCATTCAA
*
26932506 GGGTACTGAAGTACAAATCG
1 GGGTACTGAAGTACAAATAG
* * **
26932526 GGGTAC-GTATGTGCATTTAG
1 GGGTACTG-AAGTACAAATAG
*
26932546 GGGTACTGAAGTACAAACAG
1 GGGTACTGAAGTACAAATAG
26932566 GGG
1 GGG
26932569 CACGTATGTG
Statistics
Matches: 31, Mismatches: 10, Indels: 4
0.69 0.22 0.09
Matches are distributed among these distances:
19 1 0.03
20 29 0.94
21 1 0.03
ACGTcount: A:0.30, C:0.13, G:0.35, T:0.22
Consensus pattern (20 bp):
GGGTACTGAAGTACAAATAG
Found at i:26933191 original size:33 final size:34
Alignment explanation
Indices: 26933148--26933213 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 34
26933138 AGAGAACATG
* *
26933148 CAGTAACAGTGTGGGCCTGAGCCCTATTCAATAT
1 CAGTAACAGTGTGGGCCTGAGCCCAATACAATAT
*
26933182 CAGT-ACAGTGTGGGCCTTAGCCCAATACAATA
1 CAGTAACAGTGTGGGCCTGAGCCCAATACAATA
26933214 ACATTGTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 25 0.86
34 4 0.14
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (34 bp):
CAGTAACAGTGTGGGCCTGAGCCCAATACAATAT
Found at i:26933349 original size:26 final size:26
Alignment explanation
Indices: 26933317--26933387 Score: 106
Period size: 26 Copynumber: 2.7 Consensus size: 26
26933307 ACACACCAAT
*
26933317 ATAGCAGCAAAGCTGCCAGTACTAGC
1 ATAGCAGCAAAGCTGCCAGTACTAGA
* * *
26933343 ATCGCAGCAGAGCTGCCAGTAGTAGA
1 ATAGCAGCAAAGCTGCCAGTACTAGA
26933369 ATAGCAGCAAAGCTGCCAG
1 ATAGCAGCAAAGCTGCCAG
26933388 AAACAATATA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.34, C:0.25, G:0.27, T:0.14
Consensus pattern (26 bp):
ATAGCAGCAAAGCTGCCAGTACTAGA
Found at i:26933579 original size:27 final size:27
Alignment explanation
Indices: 26933549--26934216 Score: 675
Period size: 27 Copynumber: 24.6 Consensus size: 27
26933539 CAGATTCTAG
* * *
26933549 GGGTATATCAGTCATTTTACCCTACGA
1 GGGTATTTCGGTCATTTTACCCTTCGA
** *
26933576 GGGTATTTCAATCATTTTACCCTAC-A
1 GGGTATTTCGGTCATTTTACCCTTCGA
*
26933602 GGGGTATTTCGGTCATTTTACCCTTCGG
1 -GGGTATTTCGGTCATTTTACCCTTCGA
**
26933630 GGGTATTTCGGTCATTTTA-CCTTTTA
1 GGGTATTTCGGTCATTTTACCCTTCGA
*
26933656 GGGGTATTTCGGTCATTTTACCCTTCGG
1 -GGGTATTTCGGTCATTTTACCCTTCGA
* * *
26933684 GGGTATTTCGGTTATTTTACCCTTTTGG
1 GGGTATTTCGGTCATTTTACCC-TTCGA
* * * * *
26933712 GGGTATTTTGATCATTTT-CCATTTGG
1 GGGTATTTCGGTCATTTTACCCTTCGA
* **
26933738 GGGTATTTCAGTCATTTTACCCTTTTA
1 GGGTATTTCGGTCATTTTACCCTTCGA
* * *
26933765 GGGGTATTTCGATCATTTTACCCTTAGG
1 -GGGTATTTCGGTCATTTTACCCTTCGA
* * *
26933793 GGGTATTTTGGTCATTTTACCCTTTTGG
1 GGGTATTTCGGTCATTTTACCC-TTCGA
*
26933821 GGGTATTTTGGTCATTTTACCCTTC-A
1 GGGTATTTCGGTCATTTTACCCTTCGA
* * *
26933847 GGGGTATTTCAGTCATTTTAACCTTCAA
1 -GGGTATTTCGGTCATTTTACCCTTCGA
* *
26933875 GGGTATTTCGATCATTTTACCCTACGA
1 GGGTATTTCGGTCATTTTACCCTTCGA
* * *
26933902 GGGTATTTCAGTTATTTTACCCTTCGG
1 GGGTATTTCGGTCATTTTACCCTTCGA
* *
26933929 GGGTATTTCAGTCATTTTACCCTTCGG
1 GGGTATTTCGGTCATTTTACCCTTCGA
26933956 GGGTATTTCGGTCATTTTACCCTTCGA
1 GGGTATTTCGGTCATTTTACCCTTCGA
** * * *
26933983 GGGTATTTCAATCAGTTTACCCTTTTGG
1 GGGTATTTCGGTCATTTTACCC-TTCGA
* * *
26934011 GGGTATTTTGATCATTTTACCATTC-A
1 GGGTATTTCGGTCATTTTACCCTTCGA
*
26934037 GGGGTATTTCGATCATTTTACCCTTCCGA
1 -GGGTATTTCGGTCATTTTACCCTT-CGA
*
26934066 -GGTATTTCGGTCATTTTACCCTTTTGA
1 GGGTATTTCGGTCATTTTACCC-TTCGA
** *
26934093 GGGTATTTCATTTATTTTACCCTTC-A
1 GGGTATTTCGGTCATTTTACCCTTCGA
* **
26934119 GGGGTATTTCGGTCATTTTTCCCTTTTA
1 -GGGTATTTCGGTCATTTTACCCTTCGA
26934147 GGGGTATTTCGGTCATTTTACCCTTCGA
1 -GGGTATTTCGGTCATTTTACCCTTCGA
* *
26934175 GGGTATTTCGATCATTTTACCCTTCGG
1 GGGTATTTCGGTCATTTTACCCTTCGA
26934202 GGGTATTTCGGTCAT
1 GGGTATTTCGGTCAT
26934217 CTGCCCAAGC
Statistics
Matches: 543, Mismatches: 80, Indels: 36
0.82 0.12 0.05
Matches are distributed among these distances:
26 26 0.05
27 376 0.69
28 140 0.26
29 1 0.00
ACGTcount: A:0.17, C:0.19, G:0.21, T:0.43
Consensus pattern (27 bp):
GGGTATTTCGGTCATTTTACCCTTCGA
Found at i:26933783 original size:82 final size:81
Alignment explanation
Indices: 26933548--26934216 Score: 736
Period size: 82 Copynumber: 8.2 Consensus size: 81
26933538 TCAGATTCTA
* * ** * * *
26933548 GGGGTATATCAGTCATTTTACCCTACGAGGGTATTTCAATCATTTTACCCTACAGGGGTATTTCG
1 GGGGTATTTCGGTCATTTTACCCTTTGGGGGTATTTCAGTCATTTTACCCTTCAGGGGTATTTCG
*
26933613 GTCATTTTACCCTTCG
66 ATCATTTTACCCTTCG
* * * *
26933629 GGGGTATTTCGGTCATTTTACCTTTTAGGGGTATTTCGGTCATTTTACCCTTCGGGGGTATTTCG
1 GGGGTATTTCGGTCATTTTACCCTTTGGGGGTATTTCAGTCATTTTACCCTTCAGGGGTATTTCG
* * *
26933694 GTTATTTTACCCTTTTG
66 ATCATTTTACCC-TTCG
* * * *
26933711 GGGGTATTTTGATCATTTT-CCATTTGGGGGTATTTCAGTCATTTTACCCTTTTAGGGGTATTTC
1 GGGGTATTTCGGTCATTTTACCCTTTGGGGGTATTTCAGTCATTTTACCC-TTCAGGGGTATTTC
*
26933775 GATCATTTTACCCTTAG
65 GATCATTTTACCCTTCG
* **
26933792 GGGGTATTTTGGTCATTTTACCCTTTTGGGGGTATTTTGGTCATTTTACCCTTCAGGGGTATTTC
1 GGGGTATTTCGGTCATTTTACCC-TTTGGGGGTATTTCAGTCATTTTACCCTTCAGGGGTATTTC
* *
26933857 -AGTCATTTTAACCTTCA
65 GA-TCATTTTACCCTTCG
* * ** * * *
26933874 AGGGTATTTCGATCATTTTACCCTACGAGGGTATTTCAGTTATTTTACCCTTCGGGGGTATTTC-
1 GGGGTATTTCGGTCATTTTACCCTTTGGGGGTATTTCAGTCATTTTACCCTTCAGGGGTATTTCG
26933938 AGTCATTTTACCCTTCG
66 A-TCATTTTACCCTTCG
* * * * ** *
26933955 GGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCAATCAGTTTACCCTTTTGGGGGTATTTT
1 GGGGTATTTCGGTCATTTTACCCTTTGGGGGTATTTCAGTCATTTTACCC-TTCAGGGGTATTTC
* *
26934020 GATCATTTTACCATTCA
65 GATCATTTTACCCTTCG
* ** * * **
26934037 GGGGTATTTCGATCATTTTACCCTTCCGAGGTATTTCGGTCATTTTACCCTTTTGAGGGTATTTC
1 GGGGTATTTCGGTCATTTTACCCTTTGGGGGTATTTCAGTCATTTTACCCTTCAG-GGGTATTTC
* *
26934102 -ATTTATTTTACCCTTCA
65 GA-TCATTTTACCCTTCG
* * *
26934119 GGGGTATTTCGGTCATTTTTCCCTTTTAGGGGTATTTCGGTCATTTTACCCTTC-GAGGGTATTT
1 GGGGTATTTCGGTCATTTTACCC-TTTGGGGGTATTTCAGTCATTTTACCCTTCAG-GGGTATTT
26934183 CGATCATTTTACCCTTCG
64 CGATCATTTTACCCTTCG
26934201 GGGGTATTTCGGTCAT
1 GGGGTATTTCGGTCAT
26934217 CTGCCCAAGC
Statistics
Matches: 505, Mismatches: 72, Indels: 21
0.84 0.12 0.04
Matches are distributed among these distances:
81 212 0.42
82 240 0.48
83 53 0.10
ACGTcount: A:0.17, C:0.19, G:0.21, T:0.43
Consensus pattern (81 bp):
GGGGTATTTCGGTCATTTTACCCTTTGGGGGTATTTCAGTCATTTTACCCTTCAGGGGTATTTCG
ATCATTTTACCCTTCG
Found at i:26938397 original size:20 final size:18
Alignment explanation
Indices: 26938355--26938402 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 18
26938345 TCCTTTTCAC
26938355 TCTTT-TTTTTCACATTT
1 TCTTTCTTTTTCACATTT
*
26938372 TCTTTCTTTTTCTCATTTT
1 TCTTTCTTTTTCACA-TTT
26938391 TCTTTTCTTTTT
1 TC-TTTCTTTTT
26938403 TGTTTTCACT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 5 0.19
18 8 0.30
19 5 0.19
20 9 0.33
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.75
Consensus pattern (18 bp):
TCTTTCTTTTTCACATTT
Found at i:26940517 original size:15 final size:16
Alignment explanation
Indices: 26940481--26940519 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
26940471 GAATCACAAT
26940481 TTTTTTTTAAATTCAC
1 TTTTTTTTAAATTCAC
**
26940497 GATTTTTT-AATTCAC
1 TTTTTTTTAAATTCAC
26940512 TTTTTTTT
1 TTTTTTTT
26940520 TATTTTGTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.21, C:0.10, G:0.03, T:0.67
Consensus pattern (16 bp):
TTTTTTTTAAATTCAC
Found at i:26940518 original size:16 final size:16
Alignment explanation
Indices: 26940480--26940521 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
26940470 TGAATCACAA
26940480 TTTTTTTTTAAATTCAC
1 TTTTTTTTT-AATTCAC
**
26940497 -GATTTTTTAATTCAC
1 TTTTTTTTTAATTCAC
26940512 TTTTTTTTTA
1 TTTTTTTTTA
26940522 TTTTGTATGT
Statistics
Matches: 20, Mismatches: 4, Indels: 3
0.74 0.15 0.11
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.21, C:0.10, G:0.02, T:0.67
Consensus pattern (16 bp):
TTTTTTTTTAATTCAC
Found at i:26961853 original size:14 final size:13
Alignment explanation
Indices: 26961834--26961879 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
26961824 ATAGGTACGT
26961834 AAAAAAAAGTTCG
1 AAAAAAAAGTTCG
* *
26961847 AAAAAAAATTTTG
1 AAAAAAAAGTTCG
26961860 AAAAAAAA-TTC-
1 AAAAAAAAGTTCG
26961871 AAAAGAAAA
1 AAAA-AAAA
26961880 AAAAATTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
11 4 0.14
12 6 0.21
13 19 0.66
ACGTcount: A:0.70, C:0.04, G:0.09, T:0.17
Consensus pattern (13 bp):
AAAAAAAAGTTCG
Found at i:26961878 original size:16 final size:15
Alignment explanation
Indices: 26961859--26961898 Score: 62
Period size: 17 Copynumber: 2.5 Consensus size: 15
26961849 AAAAAATTTT
26961859 GAAAAAAAATTCAAAA
1 GAAAAAAAATT-AAAA
26961875 GAAAAAAAAATTAAAA
1 G-AAAAAAAATTAAAA
26961891 GAAAAAAA
1 GAAAAAAA
26961899 TTGTATACGG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.30
16 6 0.26
17 10 0.43
ACGTcount: A:0.80, C:0.03, G:0.07, T:0.10
Consensus pattern (15 bp):
GAAAAAAAATTAAAA
Found at i:26961880 original size:17 final size:16
Alignment explanation
Indices: 26961860--26961898 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
26961850 AAAAATTTTG
26961860 AAAAAAAATTCAAAAGA
1 AAAAAAAATT-AAAAGA
26961877 AAAAAAAATTAAAAGA
1 AAAAAAAATTAAAAGA
26961893 AAAAAA
1 AAAAAA
26961899 TTGTATACGG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 12 0.55
17 10 0.45
ACGTcount: A:0.82, C:0.03, G:0.05, T:0.10
Consensus pattern (16 bp):
AAAAAAAATTAAAAGA
Found at i:26964153 original size:19 final size:19
Alignment explanation
Indices: 26964125--26964171 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
26964115 GCGAAAATAC
*
26964125 AAAAGAAAAGAAAAATGAAA
1 AAAAG-AAAGAAAAATCAAA
*
26964145 AAAAGAAAGAAAATTCAAA
1 AAAAGAAAGAAAAATCAAA
26964164 AAAAGAAA
1 AAAAGAAA
26964172 ATGAAAAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 20 0.80
20 5 0.20
ACGTcount: A:0.79, C:0.02, G:0.13, T:0.06
Consensus pattern (19 bp):
AAAAGAAAGAAAAATCAAA
Found at i:26973757 original size:38 final size:38
Alignment explanation
Indices: 26973706--26973783 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
26973696 TCTTGTGTGT
26973706 TACGCATATGAAACTAGTGTGGAAAGTTAATGAAATAG
1 TACGCATATGAAACTAGTGTGGAAAGTTAATGAAATAG
*
26973744 TACGCATATGAAACTGGTGTGGAAAGTTAATGAAATAG
1 TACGCATATGAAACTAGTGTGGAAAGTTAATGAAATAG
26973782 TA
1 TA
26973784 AGTTCATACT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.41, C:0.08, G:0.24, T:0.27
Consensus pattern (38 bp):
TACGCATATGAAACTAGTGTGGAAAGTTAATGAAATAG
Found at i:26973905 original size:20 final size:20
Alignment explanation
Indices: 26973862--26973903 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
26973852 TAAAGAAAGT
26973862 AAATGCAATGGAAAGTAATG
1 AAATGCAATGGAAAGTAATG
26973882 AAATGCAAAT-GAAAGTAA-G
1 AAATGC-AATGGAAAGTAATG
26973901 AAA
1 AAA
26973904 ATTTGGAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 14 0.67
21 3 0.14
ACGTcount: A:0.57, C:0.05, G:0.21, T:0.17
Consensus pattern (20 bp):
AAATGCAATGGAAAGTAATG
Found at i:26984798 original size:35 final size:35
Alignment explanation
Indices: 26984759--26984825 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
26984749 GTATGTTTTG
26984759 AAATGACCAAAATTGGTAT-G-TGTTAATGTATCTTT
1 AAATGACCAAAA-TGGTATGGTTGTT-ATGTATCTTT
* *
26984794 AAATGGCTAAAATGGTATGGTTGTTATGTATC
1 AAATGACCAAAATGGTATGGTTGTTATGTATC
26984826 AATTATGTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
34 6 0.21
35 18 0.64
36 4 0.14
ACGTcount: A:0.33, C:0.07, G:0.21, T:0.39
Consensus pattern (35 bp):
AAATGACCAAAATGGTATGGTTGTTATGTATCTTT
Found at i:26986893 original size:11 final size:13
Alignment explanation
Indices: 26986869--26986900 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
26986859 TAGTTTATTA
26986869 ATATTTTAATATG
1 ATATTTTAATATG
26986882 AT-TTTTAA-ATG
1 ATATTTTAATATG
26986893 ATATTTTA
1 ATATTTTA
26986901 TTAATTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.28
12 11 0.61
13 2 0.11
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (13 bp):
ATATTTTAATATG
Found at i:26989345 original size:102 final size:101
Alignment explanation
Indices: 26989045--26989343 Score: 462
Period size: 102 Copynumber: 3.0 Consensus size: 101
26989035 GAATATAAAG
26989045 GGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGG-T--T-GTGCTGATTCCACCATATTTTA
1 GGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAGTGCTGATTCCACCATATTTTA
*
26989106 AATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCCAA
66 AATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCCGA
*
26989142 GGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTT
1 GGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCT-AGTGCTGATTCCACCATATTTT
*
26989207 AAATGTGAAGGGGGTTGCTCAGTGCTGATTCCCCCGA
65 AAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCCGA
* * *
26989244 GGGGTTGCTAAGTGCTGATTCCCTGAATCATTGGTGGTTGCTGAGTGCTAATTCCACCATATCTT
1 GGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCT-AGTGCTGATTCCACCATAT-TT
* * *
26989309 TGAATGTGAAAGGGGTTGCTAAGTGTTGATTCCCC
64 TAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCC
26989344 GAATCACTGG
Statistics
Matches: 184, Mismatches: 12, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
97 37 0.20
98 1 0.01
100 1 0.01
102 112 0.61
103 33 0.18
ACGTcount: A:0.19, C:0.19, G:0.28, T:0.33
Consensus pattern (101 bp):
GGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAGTGCTGATTCCACCATATTTTA
AATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCCGA
Found at i:26990285 original size:49 final size:49
Alignment explanation
Indices: 26990219--26990361 Score: 214
Period size: 49 Copynumber: 2.9 Consensus size: 49
26990209 GTGAACATGC
* * *
26990219 GATTATGTGATTCCGTGTAAGACCATAGCTGGGTTATGGCATCGATATGT
1 GATT-TGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGATATCT
*
26990269 GATTTGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGGTATCT
1 GATTTGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGATATCT
* * *
26990318 GATTTGTGATTACTTGTAAGACCATAGTTGGACTATGGCATCGA
1 GATTTGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGA
26990362 GAAAATGAAG
Statistics
Matches: 85, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
49 81 0.95
50 4 0.05
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.34
Consensus pattern (49 bp):
GATTTGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGATATCT
Found at i:26991976 original size:24 final size:23
Alignment explanation
Indices: 26991947--26992095 Score: 106
Period size: 24 Copynumber: 6.0 Consensus size: 23
26991937 TTAGAAGATG
26991947 AATAAAATATGTCAATAAAATATG-
1 AATAAAATATG--AATAAAATATGA
* *
26991971 AATAAAATATGAAATTAAATATGTC
1 AATAAAATATG-AATAAAATATG-A
26991996 AATAAAATATGAATAAAATATGA
1 AATAAAATATGAATAAAATATGA
26992019 AATTAAATATTATTGAATAAAAT-TGA
1 AA-TAAA-A-TA-TGAATAAAATATGA
* * * *
26992045 ATTAGAAGATGAAATTAAATATGA
1 AATAAAATATG-AATAAAATATGA
26992069 AATTAAATATTATTGAATAAAAT-TGA
1 AA-TAAA-A-TA-TGAATAAAATATGA
26992095 A
1 A
26992096 TTGTGGGAAT
Statistics
Matches: 101, Mismatches: 12, Indels: 22
0.75 0.09 0.16
Matches are distributed among these distances:
22 2 0.02
23 20 0.20
24 30 0.30
25 18 0.18
26 11 0.11
27 18 0.18
28 2 0.02
ACGTcount: A:0.57, C:0.01, G:0.09, T:0.32
Consensus pattern (23 bp):
AATAAAATATGAATAAAATATGA
Found at i:26991991 original size:36 final size:36
Alignment explanation
Indices: 26991951--26992067 Score: 164
Period size: 36 Copynumber: 3.2 Consensus size: 36
26991941 AAGATGAATA
26991951 AAATATGTCAATAAAATATGAATAAAATATGAAATT
1 AAATATGTCAATAAAATATGAATAAAATATGAAATT
26991987 AAATATGTCAATAAAATATGAATAAAATATGAAATT
1 AAATATGTCAATAAAATATGAATAAAATATGAAATT
* * * *
26992023 AAATATTATTGAATAAAAT-TGAATTAGAAGATGAAATT
1 AAATA-T-GTCAATAAAATATGAA-TAAAATATGAAATT
26992061 AAATATG
1 AAATATG
26992068 AAATTAAATA
Statistics
Matches: 73, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
36 41 0.56
37 6 0.08
38 26 0.36
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.32
Consensus pattern (36 bp):
AAATATGTCAATAAAATATGAATAAAATATGAAATT
Found at i:26991992 original size:12 final size:12
Alignment explanation
Indices: 26991964--26992078 Score: 94
Period size: 12 Copynumber: 9.5 Consensus size: 12
26991954 TATGTCAATA
*
26991964 AAATATG-AATA
1 AAATATGAAATT
26991975 AAATATGAAATT
1 AAATATGAAATT
* *
26991987 AAATATGTCAATA
1 AAATATG-AAATT
*
26992000 AAATATG-AATA
1 AAATATGAAATT
26992011 AAATATGAAATT
1 AAATATGAAATT
* *
26992023 AAATATTATTGAATA
1 AAATATGA---AATT
26992038 AAAT-TG-AATT
1 AAATATGAAATT
*
26992048 AGAAGATGAAATT
1 A-AATATGAAATT
26992061 AAATATGAAATT
1 AAATATGAAATT
26992073 AAATAT
1 AAATAT
26992079 TATTGAATAA
Statistics
Matches: 85, Mismatches: 10, Indels: 17
0.76 0.09 0.15
Matches are distributed among these distances:
10 4 0.05
11 20 0.24
12 38 0.45
13 15 0.18
14 1 0.01
15 7 0.08
ACGTcount: A:0.57, C:0.01, G:0.10, T:0.32
Consensus pattern (12 bp):
AAATATGAAATT
Found at i:27004072 original size:10 final size:10
Alignment explanation
Indices: 27004059--27004123 Score: 53
Period size: 10 Copynumber: 6.5 Consensus size: 10
27004049 ACTTTTTAGT
27004059 ATTTTTAATA
1 ATTTTTAATA
*
27004069 ATTTTTTTATAA
1 A-TTTTTAAT-A
*
27004081 AATTTTAATA
1 ATTTTTAATA
27004091 ATTTTTAATA
1 ATTTTTAATA
* *
27004101 GTTTTT-GTA
1 ATTTTTAATA
*
27004110 A-TATTAATA
1 ATTTTTAATA
27004119 ATTTT
1 ATTTT
27004124 ATAACCTTTT
Statistics
Matches: 41, Mismatches: 10, Indels: 8
0.69 0.17 0.14
Matches are distributed among these distances:
8 3 0.07
9 5 0.12
10 18 0.44
11 13 0.32
12 2 0.05
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (10 bp):
ATTTTTAATA
Found at i:27004080 original size:11 final size:11
Alignment explanation
Indices: 27004060--27004112 Score: 54
Period size: 11 Copynumber: 4.8 Consensus size: 11
27004050 CTTTTTAGTA
27004060 TTTTTAATAAT
1 TTTTTAATAAT
* *
27004071 TTTTTTATAAA
1 TTTTTAATAAT
*
27004082 ATTTTAATAA-
1 TTTTTAATAAT
*
27004092 TTTTTAATAGT
1 TTTTTAATAAT
27004103 TTTTGTAATA
1 TTTT-TAATA
27004113 TTAATAATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
10 8 0.24
11 21 0.62
12 5 0.15
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (11 bp):
TTTTTAATAAT
Found at i:27007300 original size:18 final size:18
Alignment explanation
Indices: 27007279--27007329 Score: 66
Period size: 20 Copynumber: 2.7 Consensus size: 18
27007269 AGGGAGAGGA
27007279 GGAGACAAAGGCAATAAG
1 GGAGACAAAGGCAATAAG
*
27007297 GGAGGGAAAAAGGCAATAAG
1 GGA--GACAAAGGCAATAAG
*
27007317 GGGGACAAAGGCA
1 GGAGACAAAGGCA
27007330 CCAAAAATGT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
18 12 0.43
20 16 0.57
ACGTcount: A:0.47, C:0.10, G:0.39, T:0.04
Consensus pattern (18 bp):
GGAGACAAAGGCAATAAG
Found at i:27015561 original size:16 final size:17
Alignment explanation
Indices: 27015530--27015563 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
27015520 CAATTTAGTC
*
27015530 CAAAATTTATACTTTTG
1 CAAAATTTATAATTTTG
27015547 CAAAA-TTATAATTTTG
1 CAAAATTTATAATTTTG
27015563 C
1 C
27015564 CCCTATTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (17 bp):
CAAAATTTATAATTTTG
Found at i:27021642 original size:26 final size:26
Alignment explanation
Indices: 27021611--27021679 Score: 129
Period size: 26 Copynumber: 2.7 Consensus size: 26
27021601 ATTCTGACCT
27021611 ACAGCTCGTGTGAGCAAGCCCACTCC
1 ACAGCTCGTGTGAGCAAGCCCACTCC
*
27021637 ACAGCTCTTGTGAGCAAGCCCACTCC
1 ACAGCTCGTGTGAGCAAGCCCACTCC
27021663 ACAGCTCGTGTGAGCAA
1 ACAGCTCGTGTGAGCAA
27021680 TGATGTAAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.25, C:0.35, G:0.23, T:0.17
Consensus pattern (26 bp):
ACAGCTCGTGTGAGCAAGCCCACTCC
Found at i:27025662 original size:20 final size:20
Alignment explanation
Indices: 27025637--27025682 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
27025627 AACATAGAGG
**
27025637 TATCGATTTTAAAACTCGAT
1 TATCGATTACAAAACTCGAT
*
27025657 TATCGA-TACCAAACTCGAT
1 TATCGATTACAAAACTCGAT
27025676 TATCGAT
1 TATCGAT
27025683 ACCTCTGCTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.35, C:0.20, G:0.11, T:0.35
Consensus pattern (20 bp):
TATCGATTACAAAACTCGAT
Found at i:27025672 original size:19 final size:19
Alignment explanation
Indices: 27025648--27025685 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
27025638 ATCGATTTTA
27025648 AAACTCGATTATCGATACC
1 AAACTCGATTATCGATACC
27025667 AAACTCGATTATCGATACC
1 AAACTCGATTATCGATACC
27025686 TCTGCTCTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.26, G:0.11, T:0.26
Consensus pattern (19 bp):
AAACTCGATTATCGATACC
Found at i:27027203 original size:16 final size:16
Alignment explanation
Indices: 27027184--27027224 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
27027174 TGGAGAAAAG
27027184 AGAGAATGATGAATGA
1 AGAGAATGATGAATGA
27027200 AGAGAATGATGAATGA
1 AGAGAATGATGAATGA
*
27027216 TGAGAATGA
1 AGAGAATGA
27027225 ATGAGGAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.49, C:0.00, G:0.32, T:0.20
Consensus pattern (16 bp):
AGAGAATGATGAATGA
Found at i:27050882 original size:27 final size:26
Alignment explanation
Indices: 27050861--27050922 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 26
27050851 AAAAATTTAT
27050861 TTTAAAA-ATTAAAAAATTAAAAAGTA
1 TTTAAAATATT-AAAAATTAAAAAGTA
*
27050887 TTTAAAATATTTAAAATTAAAAA--A
1 TTTAAAATATTAAAAATTAAAAAGTA
27050911 TTTAAAAGTATT
1 TTTAAAA-TATT
27050923 TTAAAATATT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
24 8 0.24
25 4 0.12
26 18 0.55
27 3 0.09
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (26 bp):
TTTAAAATATTAAAAATTAAAAAGTA
Found at i:27050910 original size:35 final size:35
Alignment explanation
Indices: 27050858--27050991 Score: 198
Period size: 34 Copynumber: 3.7 Consensus size: 35
27050848 ACCAAAAATT
27050858 TATTTTAAAAATTAAAAAATTAAAAAGTATTTAAAA
1 TATTTT-AAAATTAAAAAATTAAAAAGTATTTAAAA
*
27050894 TA-TTTAAAATTAAAAAATTTAAAAGTATTTTAAAA
1 TATTTTAAAATTAAAAAATTAAAAAGTA-TTTAAAA
27050929 TATTTTAAAATTAAAAAATTTAAAAAGTATTCTAAAA
1 TATTTTAAAATTAAAAAA-TTAAAAAGTATT-TAAAA
*
27050966 GTATTTTAAAATTAAAAAATAAAAAA
1 -TATTTTAAAATTAAAAAATTAAAAA
27050992 ATAATATTTA
Statistics
Matches: 90, Mismatches: 3, Indels: 9
0.88 0.03 0.09
Matches are distributed among these distances:
34 21 0.23
35 12 0.13
36 19 0.21
37 20 0.22
38 18 0.20
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.37
Consensus pattern (35 bp):
TATTTTAAAATTAAAAAATTAAAAAGTATTTAAAA
Found at i:27050927 original size:11 final size:10
Alignment explanation
Indices: 27050911--27050977 Score: 52
Period size: 11 Copynumber: 6.8 Consensus size: 10
27050901 AATTAAAAAA
27050911 TTTAAAAGTAT
1 TTTAAAA-TAT
27050922 TTTAAAATAT
1 TTTAAAATAT
27050932 TTT-AAA-A-
1 TTTAAAATAT
*
27050939 -TTAAAAAAT
1 TTTAAAATAT
*
27050948 TTAAAAAGTAT
1 TTTAAAA-TAT
*
27050959 TCTAAAAGTAT
1 TTTAAAA-TAT
27050970 TTTAAAAT
1 TTTAAAAT
27050978 TAAAAAATAA
Statistics
Matches: 46, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
6 2 0.04
7 3 0.07
8 2 0.04
9 3 0.07
10 12 0.26
11 24 0.52
ACGTcount: A:0.52, C:0.01, G:0.04, T:0.42
Consensus pattern (10 bp):
TTTAAAATAT
Found at i:27051697 original size:47 final size:49
Alignment explanation
Indices: 27051612--27051725 Score: 135
Period size: 47 Copynumber: 2.3 Consensus size: 49
27051602 ACCACTAATT
* * * *
27051612 TGCATATAAACTACCACTGATAATACTTTTTGGACAAGCCA-ACAC-ATA
1 TGCAGATAAACTACCACTGATAAGACTTTGTGAACAAGCCACA-ACGATA
* *
27051660 TGCAGATATACTACCACTGA-AAGACTTTGTGAACAAGCCACAACTGATT
1 TGCAGATAAACTACCACTGATAAGACTTTGTGAACAAGCCACAAC-GATA
27051709 TGCAGATAAACTACCAC
1 TGCAGATAAACTACCAC
27051726 ATACTTCCAC
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
47 19 0.34
48 19 0.34
49 18 0.32
ACGTcount: A:0.39, C:0.24, G:0.13, T:0.25
Consensus pattern (49 bp):
TGCAGATAAACTACCACTGATAAGACTTTGTGAACAAGCCACAACGATA
Found at i:27051722 original size:49 final size:49
Alignment explanation
Indices: 27051597--27051725 Score: 147
Period size: 48 Copynumber: 2.6 Consensus size: 49
27051587 ATTTTTGGAT
* * * * *
27051597 AAGCCACCACTAATTTGCATATAAACTACCACTGATAATACTTTTTGGAC
1 AAGCCACAACT-ATTTGCAGATAAACTACCACTGATAAGACTTTGTGAAC
* *
27051647 AAGCCA-ACAC-ATATGCAGATATACTACCACTGA-AAGACTTTGTGAAC
1 AAGCCACA-ACTATTTGCAGATAAACTACCACTGATAAGACTTTGTGAAC
27051694 AAGCCACAACTGATTTGCAGATAAACTACCAC
1 AAGCCACAACT-ATTTGCAGATAAACTACCAC
27051726 ATACTTCCAC
Statistics
Matches: 66, Mismatches: 9, Indels: 9
0.79 0.11 0.11
Matches are distributed among these distances:
47 19 0.29
48 21 0.32
49 18 0.27
50 8 0.12
ACGTcount: A:0.39, C:0.25, G:0.12, T:0.24
Consensus pattern (49 bp):
AAGCCACAACTATTTGCAGATAAACTACCACTGATAAGACTTTGTGAAC
Found at i:27061059 original size:27 final size:27
Alignment explanation
Indices: 27061000--27061330 Score: 423
Period size: 27 Copynumber: 12.3 Consensus size: 27
27060990 GAGTATAACA
* *
27061000 GTCATTTTACCCTATTGGGGGTATTTCG
1 GTCATTTTACCCT-TCGAGGGTATTTCG
*
27061028 ATCATTTTACCCTTCGAGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
**
27061055 GTCATTTTACCCTTTAAGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * *
27061082 ATCATTTTACCTTTCGAGGGTATTTCA
1 GTCATTTTACCCTTCGAGGGTATTTCG
* **
27061109 GTCATTTTACCTTTCGAGGGTATTTTA
1 GTCATTTTACCCTTCGAGGGTATTTCG
27061136 GTCATTTTACCCTTCGAGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * **
27061163 ATCAGTTTACCCTTCGAGGGTATTTTA
1 GTCATTTTACCCTTCGAGGGTATTTCG
27061190 GTCATTTTA-CCTTCGAGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
*
27061216 GTCATTTTACCCTTCGGGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * *
27061243 ATCATTTTACCCTTCGGGGGTATTTCA
1 GTCATTTTACCCTTCGAGGGTATTTCG
* *
27061270 GTTATTTTACCCTTTGAGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* *
27061297 GTCATTTTACCCTTC-AGGATATTTCA
1 GTCATTTTACCCTTCGAGGGTATTTCG
*
27061323 TTCATTTT
1 GTCATTTT
27061331 GCCCACGAAT
Statistics
Matches: 265, Mismatches: 37, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
26 40 0.15
27 213 0.80
28 12 0.05
ACGTcount: A:0.18, C:0.19, G:0.19, T:0.44
Consensus pattern (27 bp):
GTCATTTTACCCTTCGAGGGTATTTCG
Found at i:27061116 original size:81 final size:81
Alignment explanation
Indices: 27061001--27061330 Score: 470
Period size: 81 Copynumber: 4.1 Consensus size: 81
27060991 AGTATAACAG
* *
27061001 TCATTTTACCCTATTGGGGGTATTTC-GATCATTTTACCCTTCGAGGGTATTTCGGTCATTTTAC
1 TCATTTTACCCT-TCGAGGGTATTTCAG-TCATTTTACCCTTCGAGGGTATTTCGGTCATTTTAC
**
27061065 CCTTTAAGGGTATTTCGA
64 CCTTCGAGGGTATTTCGA
* * **
27061083 TCATTTTACCTTTCGAGGGTATTTCAGTCATTTTACCTTTCGAGGGTATTTTAGTCATTTTACCC
1 TCATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCC
27061148 TTCGAGGGTATTTCGA
66 TTCGAGGGTATTTCGA
* *
27061164 TCAGTTTACCCTTCGAGGGTATTTTAGTCATTTTA-CCTTCGAGGGTATTTCGGTCATTTTACCC
1 TCATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCC
*
27061228 TTCGGGGGTATTTCGA
66 TTCGAGGGTATTTCGA
* * *
27061244 TCATTTTACCCTTCGGGGGTATTTCAGTTATTTTACCCTTTGAGGGTATTTCGGTCATTTTACCC
1 TCATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCC
*
27061309 TTC-AGGATATTTC-A
66 TTCGAGGGTATTTCGA
27061323 TTCATTTT
1 -TCATTTT
27061331 GCCCACGAAT
Statistics
Matches: 223, Mismatches: 22, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
79 1 0.00
80 87 0.39
81 123 0.55
82 12 0.05
ACGTcount: A:0.18, C:0.19, G:0.19, T:0.44
Consensus pattern (81 bp):
TCATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCC
TTCGAGGGTATTTCGA
Found at i:27063211 original size:79 final size:79
Alignment explanation
Indices: 27063074--27063239 Score: 280
Period size: 79 Copynumber: 2.1 Consensus size: 79
27063064 ATACCATTTC
*
27063074 CTTCTCTTAGGGTCCACCACAGAGGCATTGCCTTCAGATGGTTGCCACAAAAGTCATTCTTTAGA
1 CTTCTCTTAGGGTCCACCACAGAGGCATTGCCTTCAGATGGTTGCCACAAAAGGCATTCTTTAGA
*
27063139 GTGCGCCGAAAAGG
66 GTACGCCGAAAAGG
* *
27063153 CTTCTCTTAGGGTCGACCACAGAGGCATTGCCTTCAGATGGTTGCCACAAAGGGCATTCTTTAGA
1 CTTCTCTTAGGGTCCACCACAGAGGCATTGCCTTCAGATGGTTGCCACAAAAGGCATTCTTTAGA
*
27063218 GTACGTCGAAAAGG
66 GTACGCCGAAAAGG
27063232 CTTC-CTTA
1 CTTCTCTTA
27063240 TCATAGATCG
Statistics
Matches: 82, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
78 4 0.05
79 78 0.95
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.27
Consensus pattern (79 bp):
CTTCTCTTAGGGTCCACCACAGAGGCATTGCCTTCAGATGGTTGCCACAAAAGGCATTCTTTAGA
GTACGCCGAAAAGG
Found at i:27063257 original size:27 final size:27
Alignment explanation
Indices: 27063227--27063340 Score: 138
Period size: 27 Copynumber: 4.2 Consensus size: 27
27063217 AGTACGTCGA
* *
27063227 AAAGGCTTCCTTATCATAGATCGCCAC
1 AAAGGCTTCCTTTTCATAGATTGCCAC
* * * *
27063254 AAAGGCTTCCTTTTTATAGTTTTCCAT
1 AAAGGCTTCCTTTTCATAGATTGCCAC
*
27063281 AAATGCTTCCTTTTCATAGATTGCCAC
1 AAAGGCTTCCTTTTCATAGATTGCCAC
** *
27063308 AAAGGCTTTATTTTCATAGATTTCCAC
1 AAAGGCTTCCTTTTCATAGATTGCCAC
27063335 AAAGGC
1 AAAGGC
27063341 ATCATTTTTC
Statistics
Matches: 72, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 72 1.00
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (27 bp):
AAAGGCTTCCTTTTCATAGATTGCCAC
Found at i:27063298 original size:54 final size:54
Alignment explanation
Indices: 27063231--27063333 Score: 152
Period size: 54 Copynumber: 1.9 Consensus size: 54
27063221 CGTCGAAAAG
* * *
27063231 GCTTCCTTATCATAGATCGCCACAAAGGCTTCCTTTTTATAGTTTTCCATAAAT
1 GCTTCCTTATCATAGATCGCCACAAAGGCTTCATTTTCATAGATTTCCATAAAT
* * *
27063285 GCTTCCTTTTCATAGATTGCCACAAAGGCTTTATTTTCATAGATTTCCA
1 GCTTCCTTATCATAGATCGCCACAAAGGCTTCATTTTCATAGATTTCCA
27063334 CAAAGGCATC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 43 1.00
ACGTcount: A:0.25, C:0.23, G:0.12, T:0.40
Consensus pattern (54 bp):
GCTTCCTTATCATAGATCGCCACAAAGGCTTCATTTTCATAGATTTCCATAAAT
Found at i:27063861 original size:61 final size:61
Alignment explanation
Indices: 27063792--27063917 Score: 225
Period size: 61 Copynumber: 2.1 Consensus size: 61
27063782 TGCAAAGTCC
27063792 ATCAAACATTCATGCAATAGCATAATCATCATACCATACTTTTCTAGTTTCAGTTTCATAG
1 ATCAAACATTCATGCAATAGCATAATCATCATACCATACTTTTCTAGTTTCAGTTTCATAG
* * *
27063853 ATCAAACATTCATGCAATAGCATAATCATCATACCATGCTTTTCTAGTTTCGGTTTTATAG
1 ATCAAACATTCATGCAATAGCATAATCATCATACCATACTTTTCTAGTTTCAGTTTCATAG
27063914 ATCA
1 ATCA
27063918 GTCACCTTCA
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.37
Consensus pattern (61 bp):
ATCAAACATTCATGCAATAGCATAATCATCATACCATACTTTTCTAGTTTCAGTTTCATAG
Found at i:27069082 original size:26 final size:26
Alignment explanation
Indices: 27069053--27069125 Score: 101
Period size: 26 Copynumber: 2.8 Consensus size: 26
27069043 TGCTAATACA
* *
27069053 ACACCAGCACAAAGCCTTCTAAATGT
1 ACACCAGCACAAAGCCTACTAAATAT
* *
27069079 ACACCAGCTCGAAGCCTACTAAATAT
1 ACACCAGCACAAAGCCTACTAAATAT
*
27069105 ACACCAGCAAAAAGCCTACTA
1 ACACCAGCACAAAGCCTACTA
27069126 CGCCCTAATG
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.41, C:0.32, G:0.11, T:0.16
Consensus pattern (26 bp):
ACACCAGCACAAAGCCTACTAAATAT
Found at i:27069747 original size:42 final size:42
Alignment explanation
Indices: 27069701--27069790 Score: 171
Period size: 42 Copynumber: 2.1 Consensus size: 42
27069691 AAAATTAACT
27069701 AAAATCACTTTACAAAATAGTCCTATTTAACCATCAGGCTTA
1 AAAATCACTTTACAAAATAGTCCTATTTAACCATCAGGCTTA
27069743 AAAATCACTTTACAAAATAGTCCTATTTAACCATCAGGCTTA
1 AAAATCACTTTACAAAATAGTCCTATTTAACCATCAGGCTTA
*
27069785 ATAATC
1 AAAATC
27069791 CATCATAAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (42 bp):
AAAATCACTTTACAAAATAGTCCTATTTAACCATCAGGCTTA
Found at i:27086330 original size:16 final size:17
Alignment explanation
Indices: 27086303--27086338 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
27086293 AGAGAGTTGA
27086303 GAGAGAGGATGAGAGAT
1 GAGAGAGGATGAGAGAT
*
27086320 GAGAG-GGATGAGGGAT
1 GAGAGAGGATGAGAGAT
27086336 GAG
1 GAG
27086339 GGATGATTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.36, C:0.00, G:0.53, T:0.11
Consensus pattern (17 bp):
GAGAGAGGATGAGAGAT
Found at i:27090373 original size:20 final size:20
Alignment explanation
Indices: 27090348--27090387 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
27090338 ACCCCCTTTA
27090348 TTAACATAAA-AATTTAAATT
1 TTAACA-AAATAATTTAAATT
27090368 TTAACAAAATAATTTAAATT
1 TTAACAAAATAATTTAAATT
27090388 AGAAAAACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 3 0.16
20 16 0.84
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (20 bp):
TTAACAAAATAATTTAAATT
Found at i:27096323 original size:101 final size:102
Alignment explanation
Indices: 27096208--27096392 Score: 293
Period size: 101 Copynumber: 1.8 Consensus size: 102
27096198 AAAGTGATGG
* *
27096208 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-A-TGATAGGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACCTGTACCAGATAGTGAT-GGTCACATGTGTAGT
*
27096271 ACTATGTGTAGGCTACTATGCGTACCGAATAGCTTTGA
65 ACTATGTGCAGGCTACTATGCGTACCGAATAGCTTTGA
* *
27096309 TCACGTGTGTAGTACTATGTGTAGGCTACTACCTGTATCAGATAGTGATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACCTGTACCAGATAGTGATGGTCACATGTGTAGTA
*
27096374 CTATGTGCAGGTTACTATG
66 CTATGTGCAGGCTACTATG
27096393 TGAACCAGTA
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
101 39 0.51
102 33 0.43
103 4 0.05
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.32
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACCTGTACCAGATAGTGATGGTCACATGTGTAGTA
CTATGTGCAGGCTACTATGCGTACCGAATAGCTTTGA
Found at i:27096328 original size:51 final size:50
Alignment explanation
Indices: 27096208--27096390 Score: 183
Period size: 51 Copynumber: 3.6 Consensus size: 50
27096198 AAAGTGATGG
* * *
27096208 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGG
1 TCACGTGTGTAGTACTATGTGTAGGCTACTACGCGTACCAGAATGATAGA
* * * * *
27096258 TCGCATGTGTAGTACTATGTGTAGGCTACTATGCGTACC-GAATAGCTTTGA
1 TCACGTGTGTAGTACTATGTGTAGGCTACTACGCGTACCAGAAT-G-ATAGA
* *
27096309 TCACGTGTGTAGTACTATGTGTAGGCTACTAC-CTGTATCAGATAGTGAT-GG
1 TCACGTGTGTAGTACTATGTGTAGGCTACTACGC-GTACCAGA-A-TGATAGA
* * *
27096360 TCACATGTGTAGTACTATGTGCAGGTTACTA
1 TCACGTGTGTAGTACTATGTGTAGGCTACTA
27096391 TGTGAACCAG
Statistics
Matches: 110, Mismatches: 17, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
49 4 0.04
50 36 0.33
51 64 0.58
52 3 0.03
53 2 0.02
54 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (50 bp):
TCACGTGTGTAGTACTATGTGTAGGCTACTACGCGTACCAGAATGATAGA
Found at i:27096487 original size:46 final size:44
Alignment explanation
Indices: 27096401--27096488 Score: 115
Period size: 46 Copynumber: 2.0 Consensus size: 44
27096391 TGTGAACCAG
*
27096401 TATCATTAATTATAAGGTGGTTGCTATGTGCTGATCCCACCGGA
1 TATCATTAATTATAAGGTGGTTGCTATGTGCCGATCCCACCGGA
* *
27096445 TATCATTGATTATAAAGGGTGGTTGCTGTGTGCCGAAT-CCACCG
1 TATCATTAATTAT-AA-GGTGGTTGCTATGTGCCG-ATCCCACCG
27096489 TGTATCTGTT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
44 12 0.32
45 2 0.05
46 22 0.58
47 2 0.05
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (44 bp):
TATCATTAATTATAAGGTGGTTGCTATGTGCCGATCCCACCGGA
Found at i:27096633 original size:16 final size:16
Alignment explanation
Indices: 27096612--27096643 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
27096602 TGATTGAAAG
*
27096612 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
27096628 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
27096644 GCAACAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:27100014 original size:16 final size:17
Alignment explanation
Indices: 27099987--27100022 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
27099977 AGAGAGTTGA
27099987 GAGAGAGGATGAGAGAT
1 GAGAGAGGATGAGAGAT
*
27100004 GAGAG-GGATGAGGGAT
1 GAGAGAGGATGAGAGAT
27100020 GAG
1 GAG
27100023 GGATGATTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.36, C:0.00, G:0.53, T:0.11
Consensus pattern (17 bp):
GAGAGAGGATGAGAGAT
Found at i:27102616 original size:45 final size:45
Alignment explanation
Indices: 27102535--27102754 Score: 243
Period size: 45 Copynumber: 5.0 Consensus size: 45
27102525 AACCGTTACA
* * * *
27102535 CGGTGG-ATCAACACATAGC-ACCACCCTTATAATCAATTATATT
1 CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATATC
* **
27102578 CGGTGGAATCAGCACATAACAACCACCTTTATTTTCAATGACT-T-
1 CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGA-TATC
* * * *
27102622 TGGTGGAGTCAGCACATAGCAACCACCTTTATAATCAAAGGTA-C
1 CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATATC
* *
27102666 CTGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGGTACC
1 C-GGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATATC
** *
27102712 CAATGGAATCAACACATAGCAACCACCTTTATAATCAATGATA
1 CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATA
27102755 CTCAGTACAC
Statistics
Matches: 150, Mismatches: 20, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
43 7 0.05
44 45 0.30
45 95 0.63
46 3 0.02
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATATC
Found at i:27102705 original size:89 final size:89
Alignment explanation
Indices: 27102535--27102757 Score: 256
Period size: 89 Copynumber: 2.5 Consensus size: 89
27102525 AACCGTTACA
* ** *
27102535 CGGTGGATCAACACATAGC-ACCACCCTTATAATCAATTATATTCGGTGGAATCAGCACATAACA
1 CGGTGGATCAACACATAGCAACCACCTTTATAATCAAAGATACTCGGTGGAATCAGCACATAACA
** *
27102599 ACCACCTTTATTTTCAAT-G-ACTT
66 ACCACCTTTATAATCAATGGTAC-C
* * * *
27102622 TGGTGGAGTCAGCACATAGCAACCACCTTTATAATCAAAGGTAC-CTGGTGGAATCAGCACATAG
1 CGGTGGA-TCAACACATAGCAACCACCTTTATAATCAAAGATACTC-GGTGGAATCAGCACATAA
27102686 CAACCACCTTTATAATCAATGGTACC
64 CAACCACCTTTATAATCAATGGTACC
** *
27102712 CAATGGAATCAACACATAGCAACCACCTTTATAATCAATGATACTC
1 CGGTGG-ATCAACACATAGCAACCACCTTTATAATCAAAGATACTC
27102758 AGTACACGTA
Statistics
Matches: 112, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
87 6 0.05
88 12 0.11
89 53 0.47
90 37 0.33
91 4 0.04
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.26
Consensus pattern (89 bp):
CGGTGGATCAACACATAGCAACCACCTTTATAATCAAAGATACTCGGTGGAATCAGCACATAACA
ACCACCTTTATAATCAATGGTACC
Found at i:27113786 original size:12 final size:12
Alignment explanation
Indices: 27113762--27113795 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
27113752 ATCCTCCCTG
*
27113762 ATATC-CTCTAC
1 ATATCACTCCAC
27113773 ATATCACTCCAC
1 ATATCACTCCAC
27113785 ATATCACTCCA
1 ATATCACTCCA
27113796 ACCTCTTATC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 5 0.24
12 16 0.76
ACGTcount: A:0.32, C:0.38, G:0.00, T:0.29
Consensus pattern (12 bp):
ATATCACTCCAC
Done.