Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 186 of 328
Found at i:55364454 original size:29 final size:29
Alignment explanation
Indices: 55364415--55364489 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
55364405 GGTTGAGAGA
* *
55364415 ATGGCACTAAGTGTGCGGGCTTGAAA-TGC
1 ATGGCACTAAGTGTGCGAG-TTGAAAGTAC
*
55364444 ATGGCACTAAGTGTGCGAGTTTAAAGTAC
1 ATGGCACTAAGTGTGCGAGTTGAAAGTAC
55364473 ATGGCACTAAGTGTGCG
1 ATGGCACTAAGTGTGCG
55364490 TGGTTGATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
28 5 0.12
29 37 0.88
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGTTGAAAGTAC
Found at i:55367478 original size:50 final size:50
Alignment explanation
Indices: 55367348--55367482 Score: 171
Period size: 50 Copynumber: 2.7 Consensus size: 50
55367338 CTTTGGTACG
* * * * *
55367348 CATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTAAA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACTTAACAATCTGATAAA
* * * *
55367398 CATAGTAGCCTGTACTCAGTACTACACACGTGACTTAACCATCTGATACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACTTAACAATCTGATAAA
* *
55367448 CGTAGTAGCCTGCACTTAATACTACACACGTGACT
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACT
55367483 CACAACGGAT
Statistics
Matches: 72, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 72 1.00
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (50 bp):
CATAGTAGCCTGCACTTAGTACTACACACGTGACTTAACAATCTGATAAA
Found at i:55372548 original size:22 final size:22
Alignment explanation
Indices: 55372523--55372566 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
55372513 AATACACTTC
55372523 AACATACTTAAACTTAAATCCT
1 AACATACTTAAACTTAAATCCT
*
55372545 AACATACTTAAACTTAGATCCT
1 AACATACTTAAACTTAAATCCT
55372567 TCCACATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.23, G:0.02, T:0.32
Consensus pattern (22 bp):
AACATACTTAAACTTAAATCCT
Found at i:55374868 original size:18 final size:18
Alignment explanation
Indices: 55374845--55374882 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
55374835 AAAGCACCAC
*
55374845 CACCAAAGCCACCATAAT
1 CACCAAAGCCACCAAAAT
*
55374863 CACCAAATCCACCAAAAT
1 CACCAAAGCCACCAAAAT
55374881 CA
1 CA
55374883 TCATGATATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.47, C:0.39, G:0.03, T:0.11
Consensus pattern (18 bp):
CACCAAAGCCACCAAAAT
Found at i:55377536 original size:11 final size:10
Alignment explanation
Indices: 55377520--55377566 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
55377510 AATTTTAACT
55377520 TTTTTTATATA
1 TTTTTTATA-A
*
55377531 TTTTTTAGAA
1 TTTTTTATAA
55377541 TTTTTT-TAAA
1 TTTTTTAT-AA
*
55377551 ATTTTTATAA
1 TTTTTTATAA
55377561 TTTTTT
1 TTTTTT
55377567 TAAAAATATA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
10 21 0.70
11 9 0.30
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (10 bp):
TTTTTTATAA
Found at i:55377566 original size:20 final size:19
Alignment explanation
Indices: 55377503--55377571 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 19
55377493 TTTTAGAACA
*
55377503 TTTTTAAAA-TTTTAACTT
1 TTTTTAAAATTTTTAAATT
*
55377521 TTTTTATATATTTTTTAGAATT
1 TTTTTA-A-AATTTTTA-AATT
55377543 TTTTTAAAATTTTTATAATT
1 TTTTTAAAATTTTTA-AATT
55377563 TTTTTAAAA
1 TTTTTAAAA
55377572 ATATATAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
18 6 0.14
19 1 0.02
20 21 0.49
21 6 0.14
22 9 0.21
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (19 bp):
TTTTTAAAATTTTTAAATT
Found at i:55377567 original size:11 final size:11
Alignment explanation
Indices: 55377519--55377568 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
55377509 AAATTTTAAC
55377519 TTTTTTTAT-A
1 TTTTTTTATAA
*
55377529 TATTTTTTAGAA
1 T-TTTTTTATAA
55377541 TTTTTTTA-AA
1 TTTTTTTATAA
*
55377551 -ATTTTTATAA
1 TTTTTTTATAA
55377561 TTTTTTTA
1 TTTTTTTA
55377569 AAAATATATA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
9 6 0.18
10 5 0.15
11 20 0.61
12 2 0.06
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (11 bp):
TTTTTTTATAA
Found at i:55377582 original size:20 final size:20
Alignment explanation
Indices: 55377539--55377584 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
55377529 TATTTTTTAG
* *
55377539 AATTTTTTTAAAATTTTTAT
1 AATTTTTTTAAAATATATAT
55377559 AATTTTTTTAAAA-ATATAT
1 AATTTTTTTAAAATATATAT
55377578 AAATTTT
1 -AATTTT
55377585 GAAATTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 4 0.17
20 19 0.83
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
AATTTTTTTAAAATATATAT
Found at i:55377653 original size:21 final size:20
Alignment explanation
Indices: 55377580--55377645 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
55377570 AAATATATAA
55377580 ATTTTGAAATTTTTATAAA-T
1 ATTTTGAAATTTTTA-AAATT
*
55377600 ATTTTG-AATTTTAAAAATT
1 ATTTTGAAATTTTTAAAATT
55377619 ATTTTGAAATTTTTAAAATT
1 ATTTTGAAATTTTTAAAATT
55377639 ATTTTGA
1 ATTTTGA
55377646 TTTTTTTTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
18 3 0.07
19 14 0.33
20 25 0.60
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (20 bp):
ATTTTGAAATTTTTAAAATT
Found at i:55379573 original size:49 final size:50
Alignment explanation
Indices: 55379506--55379603 Score: 135
Period size: 50 Copynumber: 2.0 Consensus size: 50
55379496 TATTATAAAG
* * *
55379506 AACATATGGAAAGCATT-AAACACGTTATATTCTTTCCAAAAGGAATTAT
1 AACATATGGAAAGCATTAAAAAAAGTTATATTCTTCCCAAAAGGAATTAT
* * *
55379555 AACATATTGAAAGTATTAAAAAAATTTATATTCTTCCCAAAAGGAATTA
1 AACATATGGAAAGCATTAAAAAAAGTTATATTCTTCCCAAAAGGAATTA
55379604 CAACTACCAT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
49 15 0.36
50 27 0.64
ACGTcount: A:0.46, C:0.12, G:0.10, T:0.32
Consensus pattern (50 bp):
AACATATGGAAAGCATTAAAAAAAGTTATATTCTTCCCAAAAGGAATTAT
Found at i:55382221 original size:28 final size:27
Alignment explanation
Indices: 55382158--55382227 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
55382148 ATAGTGAGTC
55382158 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
55382185 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
55382213 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
55382228 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:55389406 original size:28 final size:27
Alignment explanation
Indices: 55389343--55389412 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
55389333 ATAGTGAGTC
55389343 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
55389370 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
55389398 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
55389413 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:55390759 original size:49 final size:49
Alignment explanation
Indices: 55390701--55390824 Score: 185
Period size: 49 Copynumber: 2.5 Consensus size: 49
55390691 ACTTACGCCA
* *
55390701 ATCTAGTTAGCAACTAACATGCCCTACCAGTGGCCCATCTTATTTGGCC
1 ATCTGGTTAGCAACTAACATGCCCTACCAGTGGCCCATCTTATTTGCCC
* * * *
55390750 ATCTGGTTAGCAACTAACATGCCTTACTAGTGGCCTATCTTATTTTCCC
1 ATCTGGTTAGCAACTAACATGCCCTACCAGTGGCCCATCTTATTTGCCC
*
55390799 ATCTGGTTAGCAACTAACATACCCTA
1 ATCTGGTTAGCAACTAACATGCCCTA
55390825 TGAATGGTTT
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 67 1.00
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.31
Consensus pattern (49 bp):
ATCTGGTTAGCAACTAACATGCCCTACCAGTGGCCCATCTTATTTGCCC
Found at i:55393349 original size:39 final size:39
Alignment explanation
Indices: 55393231--55393413 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
55393221 TCGTTCAAAC
* * ** * **
55393231 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* * * *
55393271 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
*
55393311 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCCCAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
55393350 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
55393389 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
55393414 CTCGAACATT
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:55398368 original size:39 final size:39
Alignment explanation
Indices: 55398250--55398470 Score: 309
Period size: 39 Copynumber: 5.6 Consensus size: 39
55398240 TCGTTCAAAC
* * ** * **
55398250 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* * * *
55398290 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
*
55398330 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCCCAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
55398369 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
55398408 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
55398447 GCCTT-GGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
55398471 CTCGAACATT
Statistics
Matches: 164, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
38 19 0.12
39 107 0.65
40 38 0.23
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:55411225 original size:40 final size:40
Alignment explanation
Indices: 55411180--55411346 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
55411170 CGGAATATAA
55411180 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
55411220 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
55411260 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
55411300 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
55411339 CCGGATAT
1 CCGGATAT
55411347 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:55411330 original size:80 final size:79
Alignment explanation
Indices: 55411196--55411346 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
55411186 ATAATCACGT
*
55411196 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
55411261 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
55411276 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
55411339 CCGGATAT
64 CCGGATAT
55411347 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:55412294 original size:56 final size:53
Alignment explanation
Indices: 55412231--55412339 Score: 132
Period size: 56 Copynumber: 2.0 Consensus size: 53
55412221 TCCCCTTTTC
55412231 CCTTAGTA-ATTTCGGCCAAGAAGAT-GAGAAAGGATGAACAAATTTTTCTTTTCTTT
1 CCTTAGTACA-TTCGGCCAAGAAGATGGAG-AAGGATGAAC--ATTTTT-TTTTCTTT
***
55412287 CCTTAGTACATTCGGCCAAGCCTATGGAGAAGGATGAACATTTTTTTTTCTTT
1 CCTTAGTACATTCGGCCAAGAAGATGGAGAAGGATGAACATTTTTTTTTCTTT
55412340 TTTTTTTTTC
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
53 8 0.17
54 6 0.12
56 30 0.62
57 4 0.08
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (53 bp):
CCTTAGTACATTCGGCCAAGAAGATGGAGAAGGATGAACATTTTTTTTTCTTT
Found at i:55416627 original size:21 final size:21
Alignment explanation
Indices: 55416575--55416627 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
55416565 CTTGATGATG
*
55416575 AATCTGGCTTCTGAGATGGATT
1 AATC-GGCTTTTGAGATGGATT
55416597 AATCGGCTTTTGAGATGGATT
1 AATCGGCTTTTGAGATGGATT
55416618 AATCGGCTTT
1 AATCGGCTTT
55416628 CCTTGAGCAG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 26 0.87
22 4 0.13
ACGTcount: A:0.23, C:0.13, G:0.26, T:0.38
Consensus pattern (21 bp):
AATCGGCTTTTGAGATGGATT
Found at i:55418702 original size:40 final size:40
Alignment explanation
Indices: 55418638--55418863 Score: 207
Period size: 39 Copynumber: 5.8 Consensus size: 40
55418628 GCTACTCGTT
* * * ***
55418638 CAAACGCCTTCGGGACATAGCCCGGTTATGGTAACCCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* *
55418678 CAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* * * *
55418718 CAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* * * * *
55418757 CCATTGCCTTCGGG-CTTAGCCCGG----CATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* * *
55418792 CCATTGCCTTCGGG-CTTAGCCCGGATATCACAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
*
55418831 CAATTGCCTTCGGG-CTTAGCCCGGATATCACAA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAA
55418864 TTCGCACATT
Statistics
Matches: 166, Mismatches: 16, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
35 35 0.21
39 86 0.52
40 45 0.27
ACGTcount: A:0.23, C:0.33, G:0.22, T:0.22
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
Found at i:55418755 original size:39 final size:39
Alignment explanation
Indices: 55418674--55418871 Score: 278
Period size: 39 Copynumber: 5.2 Consensus size: 39
55418664 TATGGTAACC
* *
55418674 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
55418714 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* * *
55418753 CGCACCATTGCCTTCGGGCTTAGCCCGG----CATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
55418788 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
55418827 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
55418866 CGCACA
1 CGCACA
55418872 TTCATACACA
Statistics
Matches: 145, Mismatches: 9, Indels: 9
0.89 0.06 0.06
Matches are distributed among these distances:
35 35 0.24
39 93 0.64
40 17 0.12
ACGTcount: A:0.22, C:0.34, G:0.21, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:55418809 original size:74 final size:74
Alignment explanation
Indices: 55418712--55418854 Score: 250
Period size: 74 Copynumber: 1.9 Consensus size: 74
55418702 GATATCACAA
* * *
55418712 CTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCTCGCACCATTGCCTTCGGGCTTAGC
1 CTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGC
55418777 CCGGCATAG
66 CCGGCATAG
*
55418786 CTCGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGC
1 CTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGC
55418851 CCGG
66 CCGG
55418855 ATATCACAAT
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
74 65 1.00
ACGTcount: A:0.17, C:0.35, G:0.24, T:0.24
Consensus pattern (74 bp):
CTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGC
CCGGCATAG
Found at i:55424965 original size:30 final size:31
Alignment explanation
Indices: 55424931--55424993 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
55424921 CCTTTTCATA
55424931 TTTCATA-TTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
55424961 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
55424992 TT
1 TT
55424994 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 7 0.23
31 23 0.77
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:55425236 original size:24 final size:24
Alignment explanation
Indices: 55425185--55425303 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
55425175 GCTTTATCAT
*
55425185 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
55425210 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
55425234 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
55425257 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
55425281 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
55425304 TCACTTCCTC
Statistics
Matches: 87, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
23 23 0.26
24 52 0.60
25 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:55425264 original size:47 final size:48
Alignment explanation
Indices: 55425185--55425303 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
55425175 GCTTTATCAT
*
55425185 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTCA
* **
55425234 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
55425281 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
55425304 TCACTTCCTC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 44 0.68
48 9 0.14
49 12 0.18
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
Found at i:55425378 original size:20 final size:20
Alignment explanation
Indices: 55425353--55425413 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
55425343 TTATGATTAC
55425353 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
55425373 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
55425393 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
55425413 A
1 A
55425414 CCATATTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:55425488 original size:25 final size:25
Alignment explanation
Indices: 55425456--55425503 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
55425446 ATACATAAAC
* * *
55425456 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
55425481 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
55425504 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:55432033 original size:30 final size:31
Alignment explanation
Indices: 55431999--55432061 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
55431989 CCTTTTCATA
55431999 TTTCATA-TTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
55432029 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
55432060 TT
1 TT
55432062 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 7 0.23
31 23 0.77
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:55432303 original size:24 final size:24
Alignment explanation
Indices: 55432252--55432394 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
55432242 GCTTTATCAT
*
55432252 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
55432277 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
55432301 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
55432324 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
55432348 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
55432372 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
55432395 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 76 0.68
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:55432331 original size:47 final size:48
Alignment explanation
Indices: 55432252--55432393 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 48
55432242 GCTTTATCAT
* *
55432252 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
55432301 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
55432348 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
55432394 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 44 0.51
48 31 0.36
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:55432352 original size:71 final size:72
Alignment explanation
Indices: 55432251--55432394 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
55432241 TGCTTTATCA
*
55432251 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
55432316 GCCCTTT
66 GCCCTTT
* * **
55432323 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
55432386 AGCCCTTT
65 AGCCCTTT
55432394 T
1 T
55432395 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 53 0.80
72 13 0.20
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:55432466 original size:20 final size:20
Alignment explanation
Indices: 55432443--55432503 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
55432433 TTATGATTAC
55432443 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
55432463 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
55432483 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
55432503 A
1 A
55432504 CCATATTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:55432578 original size:25 final size:25
Alignment explanation
Indices: 55432546--55432593 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
55432536 ATACATAAAC
* * *
55432546 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
55432571 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
55432594 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:55434597 original size:46 final size:46
Alignment explanation
Indices: 55434547--55434672 Score: 209
Period size: 46 Copynumber: 2.7 Consensus size: 46
55434537 TGGTTGAGCA
*
55434547 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
55434593 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
55434639 -CCTGAGCTCGTTGAGTTGAGTTCGAGTTCACTTA
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
55434673 GGGGTGGGTT
Statistics
Matches: 76, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
45 2 0.03
46 74 0.97
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:55438541 original size:29 final size:29
Alignment explanation
Indices: 55438509--55438636 Score: 249
Period size: 29 Copynumber: 4.4 Consensus size: 29
55438499 CTTCGAGCTC
55438509 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
55438538 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
55438567 GCACACTTA-TGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
55438595 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
55438624 GCACACTTAGTGC
1 GCACACTTAGTGC
55438637 TAATCTCGTC
Statistics
Matches: 98, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
28 28 0.29
29 70 0.71
ACGTcount: A:0.27, C:0.28, G:0.14, T:0.30
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:55438594 original size:57 final size:58
Alignment explanation
Indices: 55438509--55438636 Score: 249
Period size: 57 Copynumber: 2.2 Consensus size: 58
55438499 CTTCGAGCTC
55438509 GCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCAT
55438567 GCACACTTA-TGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCAT
55438624 GCACACTTAGTGC
1 GCACACTTAGTGC
55438637 TAATCTCGTC
Statistics
Matches: 69, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
57 57 0.83
58 12 0.17
ACGTcount: A:0.27, C:0.28, G:0.14, T:0.30
Consensus pattern (58 bp):
GCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCAT
Found at i:55446449 original size:29 final size:29
Alignment explanation
Indices: 55446415--55446604 Score: 100
Period size: 29 Copynumber: 6.6 Consensus size: 29
55446405 TACTCGATTG
* * *
55446415 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * * *
55446444 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * *
55446473 CGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
* * * *
55446502 TGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
* * * * *
55446531 TGCACACTTATTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
* * * *
55446560 TGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
*
55446589 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
55446605 ATCTCGTCAC
Statistics
Matches: 145, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
29 145 1.00
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACCATTCAAGCC
Found at i:55446507 original size:58 final size:58
Alignment explanation
Indices: 55446474--55446604 Score: 253
Period size: 58 Copynumber: 2.3 Consensus size: 58
55446464 CTTCGAGCTC
55446474 GCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCAT
*
55446532 GCACACTTATTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCAT
55446590 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
55446605 ATCTCGTCAC
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 71 1.00
ACGTcount: A:0.27, C:0.28, G:0.14, T:0.31
Consensus pattern (58 bp):
GCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCAT
Found at i:55446536 original size:87 final size:87
Alignment explanation
Indices: 55446445--55446604 Score: 250
Period size: 87 Copynumber: 1.8 Consensus size: 87
55446435 ATTTAAGCCC
* *
55446445 GCACACATAGTGCCATACCCTTCGAGC-TCGCACACTTAGTGCCATATATTTCCAGCATGCACAC
1 GCACACATAGTGCCATACACTTCCAGCAT-GCACACTTAGTGCCATATATTTCCAGCATGCACAC
55446509 TTAGTGCCATATATTTCCAGCAT
65 TTAGTGCCATATATTTCCAGCAT
* * * *
55446532 GCACACTTATTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCATGCACACT
1 GCACACATAGTGCCATACACTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCATGCACACT
55446597 TAGTGCCA
66 TAGTGCCA
55446605 ATCTCGTCAC
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
87 65 0.98
88 1 0.02
ACGTcount: A:0.27, C:0.30, G:0.14, T:0.29
Consensus pattern (87 bp):
GCACACATAGTGCCATACACTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCATGCACACT
TAGTGCCATATATTTCCAGCAT
Found at i:55448801 original size:15 final size:15
Alignment explanation
Indices: 55448781--55448836 Score: 78
Period size: 15 Copynumber: 3.7 Consensus size: 15
55448771 GTATCTTGGG
55448781 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
55448796 TTTCTTTATTCTAGA
1 TTTCTTTATTCTGGA
*
55448811 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
55448826 TTTCTTTATTC
1 TTTCTTTATTC
55448837 GGTTTCCTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
14 2 0.06
15 31 0.89
16 2 0.06
ACGTcount: A:0.14, C:0.16, G:0.09, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:55454536 original size:49 final size:49
Alignment explanation
Indices: 55454479--55454580 Score: 186
Period size: 49 Copynumber: 2.1 Consensus size: 49
55454469 TCGATGCACA
* *
55454479 CATAGTTTCTGTGCATACCTGTACTGTTATGTATCTATTCTCACCATTT
1 CATAGTTTCTGTACATACCTATACTGTTATGTATCTATTCTCACCATTT
55454528 CATAGTTTCTGTACATACCTATACTGTTATGTATCTATTCTCACCATTT
1 CATAGTTTCTGTACATACCTATACTGTTATGTATCTATTCTCACCATTT
55454577 CATA
1 CATA
55454581 TCTTCGATAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.24, C:0.23, G:0.10, T:0.44
Consensus pattern (49 bp):
CATAGTTTCTGTACATACCTATACTGTTATGTATCTATTCTCACCATTT
Found at i:55454703 original size:48 final size:48
Alignment explanation
Indices: 55454632--55454724 Score: 159
Period size: 48 Copynumber: 1.9 Consensus size: 48
55454622 TACTCGAGAG
*
55454632 TCTTGCACCCTAAGTGCCAATATCATGGCCCAAAGCCAACTCAATGAA
1 TCTTGCACCCGAAGTGCCAATATCATGGCCCAAAGCCAACTCAATGAA
**
55454680 TCTTGCACCCGAAGTGCCAATATCATGGCCTGAAGCCAACTCAAT
1 TCTTGCACCCGAAGTGCCAATATCATGGCCCAAAGCCAACTCAAT
55454725 ATAACCCCAA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.31, C:0.31, G:0.16, T:0.22
Consensus pattern (48 bp):
TCTTGCACCCGAAGTGCCAATATCATGGCCCAAAGCCAACTCAATGAA
Found at i:55457333 original size:18 final size:18
Alignment explanation
Indices: 55457310--55457344 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
55457300 AAGATGTACC
55457310 AAACTATTTTCATGCATG
1 AAACTATTTTCATGCATG
*
55457328 AAACTATTTTGATGCAT
1 AAACTATTTTCATGCAT
55457345 CATGTTCTTG
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:0.14, G:0.11, T:0.40
Consensus pattern (18 bp):
AAACTATTTTCATGCATG
Found at i:55469171 original size:24 final size:24
Alignment explanation
Indices: 55469143--55469203 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
55469133 AACCAAATTT
* * *
55469143 GCACACATAGTGCTA-ATTATACTC
1 GCACACATAGTGCCATAGTAAAC-C
55469167 GCACACATAGTGCCATAGTAAACC
1 GCACACATAGTGCCATAGTAAACC
55469191 GCACACATAGTGC
1 GCACACATAGTGC
55469204 ATTGGATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 28 0.85
25 5 0.15
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.21
Consensus pattern (24 bp):
GCACACATAGTGCCATAGTAAACC
Found at i:55472534 original size:40 final size:40
Alignment explanation
Indices: 55472475--55472643 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
55472465 CGGGACTTTA
* * *
55472475 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
55472515 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
55472555 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
55472595 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
55472635 CCCGGATAT
1 CCCGGATAT
55472644 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:55481753 original size:40 final size:39
Alignment explanation
Indices: 55481589--55481771 Score: 136
Period size: 40 Copynumber: 4.6 Consensus size: 39
55481579 GTATTTGAAT
* * *
55481589 TATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--TA
1 TATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGTA
* * * * * *
55481629 TAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TA
* * * * * *
55481669 CATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GTA
55481709 TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTGA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT-A
* * *
55481749 TATCCGGGTTAAGTCCCGTAGGC
1 TATCCGGGCTAAGACCCGAAGGC
55481772 CTTGGTGCGG
Statistics
Matches: 112, Mismatches: 26, Indels: 10
0.76 0.18 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 103 0.92
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTA
Found at i:55481796 original size:80 final size:81
Alignment explanation
Indices: 55481628--55481816 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
55481618 GCTGGAAATT
* * * *
55481628 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
55481693 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
55481709 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
55481772 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
55481788 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
55481817 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:55487507 original size:40 final size:40
Alignment explanation
Indices: 55487399--55487608 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
55487389 CGGGATTTAA
* * * * *
55487399 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
55487439 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
55487479 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
55487519 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
55487559 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
55487599 CCGGATATAT
1 CCGGATATAT
55487609 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:55489401 original size:27 final size:27
Alignment explanation
Indices: 55489371--55489630 Score: 333
Period size: 27 Copynumber: 9.7 Consensus size: 27
55489361 GGCTGTCACA
* *
55489371 CTGTAGGATAGAATTACCGCAATACCC
1 CTGTAGGGTAGAATTACCGAAATACCC
* *
55489398 CTGTAGGGTAGAATTATCGCAATACCC
1 CTGTAGGGTAGAATTACCGAAATACCC
*
55489425 CTGTAGGGTAGAATTACCGGAATACCC
1 CTGTAGGGTAGAATTACCGAAATACCC
55489452 CTGTAGGGTAGAATTACCGAAATACCC
1 CTGTAGGGTAGAATTACCGAAATACCC
* *
55489479 CTGTAGGGTAGAATTACTGAAATAACC
1 CTGTAGGGTAGAATTACCGAAATACCC
* * *
55489506 CTGTAGGGTAGAAGTATCGCAATACCC
1 CTGTAGGGTAGAATTACCGAAATACCC
*
55489533 CTGTAGGGTAGAATTATCGAAATACCC
1 CTGTAGGGTAGAATTACCGAAATACCC
* * **
55489560 CTATAAGGTAGAATTACTAAAATACCC
1 CTGTAGGGTAGAATTACCGAAATACCC
* *
55489587 CTGTAGGGTGGAATTACCGAGATA-CC
1 CTGTAGGGTAGAATTACCGAAATACCC
* * *
55489613 TTGTGGGGTAAAATTACC
1 CTGTAGGGTAGAATTACC
55489631 ATTTTGCCCC
Statistics
Matches: 204, Mismatches: 29, Indels: 1
0.87 0.12 0.00
Matches are distributed among these distances:
26 16 0.08
27 188 0.92
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.25
Consensus pattern (27 bp):
CTGTAGGGTAGAATTACCGAAATACCC
Found at i:55490117 original size:22 final size:21
Alignment explanation
Indices: 55490057--55490121 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
55490047 TTAAAGCCTT
*
55490057 CTGATTATGGCTTCGTGTCAAC
1 CTGATTATGGCTT-GTGCCAAC
* *
55490079 CT-ACATATAGCTCTGTGCCAAC
1 CTGA-TTATGGCT-TGTGCCAAC
55490101 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCT-TGTGCCAA
55490122 ACATATTTGC
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
21 1 0.03
22 31 0.91
23 2 0.06
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.32
Consensus pattern (21 bp):
CTGATTATGGCTTGTGCCAAC
Found at i:55490309 original size:27 final size:27
Alignment explanation
Indices: 55490279--55490380 Score: 107
Period size: 27 Copynumber: 3.8 Consensus size: 27
55490269 ATTCTGTTCA
* * *
55490279 GTGGCTTTGCTACATTATCTGTTTCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
55490306 GTGGCTATGCCACAAATATCTG-TTCTG
1 GTGGCTATGCCAC-AATATCTGTTTCTG
* * *
55490333 GTGGCTCTGCCACAATATCTATATCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
* * *
55490360 GTGACTCTGTCACAATATCTG
1 GTGGCTATGCCACAATATCTG
55490381 ATAACTGAGC
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
26 7 0.11
27 50 0.78
28 7 0.11
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.37
Consensus pattern (27 bp):
GTGGCTATGCCACAATATCTGTTTCTG
Found at i:55490337 original size:54 final size:52
Alignment explanation
Indices: 55490271--55490380 Score: 121
Period size: 54 Copynumber: 2.1 Consensus size: 52
55490261 TGCCACGTAT
* * * * * *
55490271 TCTGTTCAGTGGCTTTGCTACATTATCTGTTTCTGGTGGCTATGCCACAAATA
1 TCTGTTCAGTGGCTCTGCCACAATATCTATATCTGGTGACTATGCCAC-AATA
* * *
55490324 TCTGTTCTGGTGGCTCTGCCACAATATCTATATCTGGTGACTCTGTCACAATA
1 TCTGTTC-AGTGGCTCTGCCACAATATCTATATCTGGTGACTATGCCACAATA
55490377 TCTG
1 TCTG
55490381 ATAACTGAGC
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
53 15 0.32
54 32 0.68
ACGTcount: A:0.19, C:0.23, G:0.20, T:0.38
Consensus pattern (52 bp):
TCTGTTCAGTGGCTCTGCCACAATATCTATATCTGGTGACTATGCCACAATA
Found at i:55490525 original size:6 final size:6
Alignment explanation
Indices: 55490487--55490643 Score: 108
Period size: 6 Copynumber: 25.3 Consensus size: 6
55490477 TTGCATTCAC
* * *
55490487 ATTCTG ATTTTAG ATTCTG -TTACTTG ATACTG ATTCTG ATTTTG ATTCTG
1 ATTCTG ATTCT-G ATTCTG ATT-C-TG ATTCTG ATTCTG ATTCTG ATTCTG
* * * *
55490537 -TTACCTG ATACTA ATTCTG ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG
* *
55490587 ATTCTG ATTCT- ATCACCTA ATTCTG ATTCTG ATTCTG ATTCTG ATTCT-
1 ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG
55490635 AGTTCTG AT
1 A-TTCTG AT
55490644 AATGTTTCTT
Statistics
Matches: 119, Mismatches: 17, Indels: 30
0.72 0.10 0.18
Matches are distributed among these distances:
5 8 0.07
6 90 0.76
7 16 0.13
8 5 0.04
ACGTcount: A:0.21, C:0.18, G:0.13, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:55490537 original size:31 final size:31
Alignment explanation
Indices: 55490487--55490629 Score: 148
Period size: 31 Copynumber: 4.6 Consensus size: 31
55490477 TTGCATTCAC
* * *
55490487 ATTCTGATTTTAGATTCTGTTACTTGATACTG
1 ATTCTGATTCT-GATTCTGTTACCTGATACTA
*
55490519 ATTCTGATTTTGATTCTGTTACCTGATACTA
1 ATTCTGATTCTGATTCTGTTACCTGATACTA
55490550 ATTCTGATTCTGATTCTGATT--CTG-TCACCTA
1 ATTCTGATTCTGATTCTG-TTACCTGAT-A-CTA
* * * * *
55490581 ATTCTGATTCTGATTCTATCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTA
55490612 ATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
55490630 ATTCTAGTTC
Statistics
Matches: 96, Mismatches: 9, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
29 1 0.01
30 5 0.05
31 74 0.77
32 15 0.16
33 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.13, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTACCTGATACTA
Found at i:55490557 original size:37 final size:37
Alignment explanation
Indices: 55490516--55490597 Score: 119
Period size: 37 Copynumber: 2.2 Consensus size: 37
55490506 TTACTTGATA
* * *
55490516 CTGATTCTGATTTTGATTCTGTTACCTGATACTAATT
1 CTGATTCTGATTCTGATTCTGTCACCTAATACTAATT
* *
55490553 CTGATTCTGATTCTGATTCTGTCACCTAATTCTGATT
1 CTGATTCTGATTCTGATTCTGTCACCTAATACTAATT
55490590 CTGATTCT
1 CTGATTCT
55490598 ATCACCTAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.20, C:0.20, G:0.13, T:0.48
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCTGTCACCTAATACTAATT
Found at i:55490584 original size:25 final size:25
Alignment explanation
Indices: 55490556--55490623 Score: 127
Period size: 25 Copynumber: 2.7 Consensus size: 25
55490546 ACTAATTCTG
55490556 ATTCTGATTCTGATTCTGTCACCTA
1 ATTCTGATTCTGATTCTGTCACCTA
*
55490581 ATTCTGATTCTGATTCTATCACCTA
1 ATTCTGATTCTGATTCTGTCACCTA
55490606 ATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
55490624 ATTCTGATTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.21, C:0.22, G:0.12, T:0.46
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTGTCACCTA
Found at i:55491745 original size:46 final size:46
Alignment explanation
Indices: 55491580--55491755 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 46
55491570 TGTAACCCGC
* ** * * * *
55491580 CCATAAGCGAACTTAGAATCAACTCAACGAGCTCGGGCGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* * * * *
55491626 CCATGAGTGAACTCGAACTCAACTCAATGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
*
55491676 -C-TCA-TGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
*
55491719 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
55491756 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 57 0.55
47 28 0.27
48 2 0.02
49 2 0.02
50 5 0.05
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:55491774 original size:46 final size:45
Alignment explanation
Indices: 55491631--55491774 Score: 127
Period size: 46 Copynumber: 3.1 Consensus size: 45
55491621 TGCATCCATG
*
55491631 AGTGAACTCGAACTCAACTCAATGAGTTCGGATGC-CTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAATGAGTTCGGATGCTC-A---ACCATCT
* * * *
55491678 CA-TGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAATGAGTTCGG--ATGCT-CAACCATCT
55491724 AGTGAACTCGGACTCAACTCAATGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAATGAGTTCGGATGCTCAACCAT-CT
55491770 AGTGA
1 AGTGA
55491775 CATGTCACTT
Statistics
Matches: 78, Mismatches: 9, Indels: 20
0.73 0.08 0.19
Matches are distributed among these distances:
44 8 0.10
45 2 0.03
46 33 0.42
47 30 0.38
48 1 0.01
49 3 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAATGAGTTCGGATGCTCAACCATCT
Found at i:55494174 original size:15 final size:15
Alignment explanation
Indices: 55494148--55494203 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
55494138 CAAGGAAACC
55494148 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
55494163 -AGATAGAGAAATCCA
1 GA-ATAAAGAAATCCA
55494178 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
55494193 GAATAAAGAAA
1 GAATAAAGAAA
55494204 CCCAAGATAC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
14 1 0.03
15 35 0.95
16 1 0.03
ACGTcount: A:0.61, C:0.11, G:0.16, T:0.12
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:55496252 original size:40 final size:39
Alignment explanation
Indices: 55496103--55496288 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 39
55496093 TCGAATGATG
* * *
55496103 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
*
55496143 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
55496183 TCCGGACTAAGATCCAAAGGCATTAGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
55496223 TCCGGGTTAAGTCTCGAAGGCATTCGTGCGAGCTACTATAA
1 TCCGGGCTAAGTC-CGAAGGCATTTGTGCGAGTTACTA-AA
*
55496264 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
55496289 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 2 0.02
40 114 0.90
41 11 0.09
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:55496295 original size:80 final size:80
Alignment explanation
Indices: 55496103--55496321 Score: 218
Period size: 80 Copynumber: 2.8 Consensus size: 80
55496093 TCGAATGATG
* * **
55496103 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGTTAAGATCCGAAGGCATT
* *
55496167 TGTGCGAGTTACTAAA
65 CGTGCGAGCTACTAAA
* * * *
55496183 TCCGGACTAAGAT-CCAAAGGCATTAGTGCGAGTTACTAAATCCGGGTTAAG-TCTCGAAGGCAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGATC-CGAAGGCAT
55496246 TCGTGCGAGCTACTATAA
64 TCGTGCGAGCTACTA-AA
* **
55496264 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAA-ACTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGTTAAGA-TCCGAAGG
55496322 TATGTGATTC
Statistics
Matches: 114, Mismatches: 17, Indels: 17
0.77 0.11 0.11
Matches are distributed among these distances:
79 17 0.15
80 88 0.77
81 9 0.08
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGATCCGAAGGCATTC
GTGCGAGCTACTAAA
Found at i:55500131 original size:43 final size:42
Alignment explanation
Indices: 55500083--55500219 Score: 125
Period size: 43 Copynumber: 3.2 Consensus size: 42
55500073 TTCCGGATGT
* *
55500083 GGTCTTACATGTAATTCAATATCGATGCCTCTGTCCCAGACAG
1 GGTCTTACATG-AATTCAATATCGATGCCTATGTCCCAGACAC
* * * *
55500126 GGTCTTACACGAAATCAGATAT-GATGCCGATGTCCCAGACAT
1 GGTCTTACATGAATTCA-ATATCGATGCCTATGTCCCAGACAC
* * * *
55500168 GGTCTTACACTAAATCTCAA-ATCGAAGCCTGTGTCCAAGACAC
1 GGTCTTACA-TGAAT-TCAATATCGATGCCTATGTCCCAGACAC
*
55500211 AGTCTTACA
1 GGTCTTACA
55500220 CGATATTTCA
Statistics
Matches: 76, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
42 33 0.43
43 40 0.53
44 3 0.04
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (42 bp):
GGTCTTACATGAATTCAATATCGATGCCTATGTCCCAGACAC
Found at i:55500344 original size:38 final size:38
Alignment explanation
Indices: 55500302--55500377 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
55500292 AATCTAGTCA
55500302 GAGTTCATTCATCAGGCTCTGAAGGCCATCCAATACAG
1 GAGTTCATTCATCAGGCTCTGAAGGCCATCCAATACAG
55500340 GAGTTCATTCATCAGGCTCTGAAGGCCATCCAATACAG
1 GAGTTCATTCATCAGGCTCTGAAGGCCATCCAATACAG
55500378 ATTATAACAA
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:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (38 bp):
GAGTTCATTCATCAGGCTCTGAAGGCCATCCAATACAG
Found at i:55507603 original size:16 final size:17
Alignment explanation
Indices: 55507582--55507614 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
55507572 AAGGCCATCC
*
55507582 AATATAGAT-TATAACA
1 AATATACATATATAACA
55507598 AATATACATATATAACA
1 AATATACATATATAACA
55507615 TTTAGTCAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.58, C:0.09, G:0.03, T:0.30
Consensus pattern (17 bp):
AATATACATATATAACA
Found at i:55536581 original size:15 final size:15
Alignment explanation
Indices: 55536561--55536599 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
55536551 CAATAATTAA
*
55536561 TATTATTATTAGTAT
1 TATTATTATTAGAAT
*
55536576 TATTATTATTTGAAT
1 TATTATTATTAGAAT
55536591 TATTATTAT
1 TATTATTAT
55536600 GTTAGGGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (15 bp):
TATTATTATTAGAAT
Found at i:55542912 original size:40 final size:40
Alignment explanation
Indices: 55542867--55543074 Score: 317
Period size: 40 Copynumber: 5.2 Consensus size: 40
55542857 TCGGATACAA
* ** *
55542867 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAGC
* * *
55542907 CCGGATATAACGACTCGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAGC
*
55542947 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAGC
*
55542987 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAGC
* *
55543027 CCGGATATAACAACTTGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAGC
55543067 CCGGATAT
1 CCGGATAT
55543075 CATTCAATTG
Statistics
Matches: 157, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 157 1.00
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAGC
Found at i:55545769 original size:71 final size:71
Alignment explanation
Indices: 55545692--55545864 Score: 246
Period size: 67 Copynumber: 2.5 Consensus size: 71
55545682 TCACCAGATA
* * * *
55545692 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATATGTGGCGAAGCCACCAGATCGCAGCGA
1 CAGATATTGTGACGAAGTCACCAGAACAGATATATATATGTGGCGAAGCCACCAGATCGCAGCGA
55545757 GGCTGC
66 GGCTGC
* * *
55545763 CAGATATTGTGACGAAGTCACCAGAACAG----ATATATGTGGCGAGGCCACTAGATTGCAGCGA
1 CAGATATTGTGACGAAGTCACCAGAACAGATATATATATGTGGCGAAGCCACCAGATCGCAGCGA
*
55545824 GGCTTC
66 GGCTGC
55545830 CAGATATTGTGACGAAGTCACCAGAACAGATATAT
1 CAGATATTGTGACGAAGTCACCAGAACAGATATAT
55545865 CTGGCGAGGC
Statistics
Matches: 90, Mismatches: 8, Indels: 8
0.85 0.08 0.08
Matches are distributed among these distances:
67 63 0.70
71 27 0.30
ACGTcount: A:0.32, C:0.21, G:0.27, T:0.20
Consensus pattern (71 bp):
CAGATATTGTGACGAAGTCACCAGAACAGATATATATATGTGGCGAAGCCACCAGATCGCAGCGA
GGCTGC
Found at i:55545826 original size:67 final size:67
Alignment explanation
Indices: 55545725--55545898 Score: 294
Period size: 67 Copynumber: 2.6 Consensus size: 67
55545715 GAACAGATAT
* * *
55545725 ATATATGTGGCGAAGCCACCAGATCGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAAC
1 ATATATGTGGCGAGGCCACTAGATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAAC
55545790 AG
66 AG
*
55545792 ATATATGTGGCGAGGCCACTAGATTGCAGCGAGGCTTCCAGATATTGTGACGAAGTCACCAGAAC
1 ATATATGTGGCGAGGCCACTAGATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAAC
55545857 AG
66 AG
* *
55545859 ATATATCTGGCGAGGCCACTAGATTGCAGCGAGACTGCCA
1 ATATATGTGGCGAGGCCACTAGATTGCAGCGAGGCTGCCA
55545899 AAACGCTTCC
Statistics
Matches: 100, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
67 100 1.00
ACGTcount: A:0.30, C:0.23, G:0.28, T:0.19
Consensus pattern (67 bp):
ATATATGTGGCGAGGCCACTAGATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAAC
AG
Found at i:55554128 original size:40 final size:40
Alignment explanation
Indices: 55554061--55554237 Score: 189
Period size: 40 Copynumber: 4.5 Consensus size: 40
55554051 ACCCAAGTAT
* *
55554061 CTTCAGGAT-TTAG-CCGGATATAACAACTCGTACAAATGC
1 CTTCAGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
55554100 CTTCAGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCAGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * * * *
55554140 CTTCGGGTTTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCAGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * * * *
55554180 CTTCGGGACATAGCCCGGATATAGCAACTCACACGAATGC
1 CTTCAGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
55554220 CTTCAGATCTTAGTCCGG
1 CTTCAGGTCTTAGCCCGG
55554238 TTATCATCCG
Statistics
Matches: 114, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
38 1 0.01
39 13 0.11
40 98 0.86
41 2 0.02
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (40 bp):
CTTCAGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:55554207 original size:80 final size:79
Alignment explanation
Indices: 55554069--55554223 Score: 213
Period size: 80 Copynumber: 1.9 Consensus size: 79
55554059 ATCTTCAGGA
* * * * *
55554069 TTTAGCCGGATATAACAACTCGTACAAATGCCTTCAGGTCTTAGCCCGGATATAGCAACTCGCAC
1 TTTAGCCGGATATAACAACTAGCACAAATGCCTTCAGGACATAGCCCGGATATAGCAACTCACAC
55554134 AAATGCCTTCGGGT
66 AAATGCCTTCGGGT
* *
55554148 TTTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAGCAACTCAC
1 TTTAG-CCGGATATAA-CAACTAGCACAAATGCCTTCAGGACATAGCCCGGATATAGCAACTCAC
*
55554212 ACGAATGCCTTC
64 ACAAATGCCTTC
55554224 AGATCTTAGT
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
79 5 0.08
80 60 0.91
81 1 0.02
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (79 bp):
TTTAGCCGGATATAACAACTAGCACAAATGCCTTCAGGACATAGCCCGGATATAGCAACTCACAC
AAATGCCTTCGGGT
Found at i:55556279 original size:2 final size:2
Alignment explanation
Indices: 55556272--55556301 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
55556262 AACAGAACAG
55556272 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
55556302 GTGGCGAAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:55561472 original size:40 final size:39
Alignment explanation
Indices: 55561427--55561634 Score: 209
Period size: 40 Copynumber: 5.2 Consensus size: 39
55561417 CGGAATACAA
*
55561427 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
55561467 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
55561507 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
55561547 CCGGATTTAGTCACTAGCATAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
* * * * *
55561587 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
55561627 CCGGATAT
1 CCGGATAT
55561635 CATTTAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:55561574 original size:80 final size:81
Alignment explanation
Indices: 55561427--55561632 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
55561417 CGGAATACAA
* * * *
55561427 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
55561491 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
55561507 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTTAG-TC-ACTAGCATAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGA-TTAGAACGACTAGCACAAA
*
55561570 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
* * ** * *
55561587 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
55561633 ATCATTTAAT
Statistics
Matches: 109, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
79 1 0.01
80 104 0.95
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (81 bp):
CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:55569456 original size:40 final size:39
Alignment explanation
Indices: 55569411--55569618 Score: 209
Period size: 40 Copynumber: 5.2 Consensus size: 39
55569401 CGGAATACAA
*
55569411 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
55569451 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
55569491 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
55569531 CCGGATTTAGTCACTAGCATAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
* * * * *
55569571 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
55569611 CCGGATAT
1 CCGGATAT
55569619 CATTTAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:55569558 original size:80 final size:81
Alignment explanation
Indices: 55569411--55569616 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
55569401 CGGAATACAA
* * * *
55569411 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
55569475 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
55569491 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTTAG-TC-ACTAGCATAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGA-TTAGAACGACTAGCACAAA
*
55569554 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
* * ** * *
55569571 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
55569617 ATCATTTAAT
Statistics
Matches: 109, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
79 1 0.01
80 104 0.95
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (81 bp):
CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:55573284 original size:16 final size:17
Alignment explanation
Indices: 55573263--55573294 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
55573253 TAACATATAT
55573263 ATTATTAT-ATTATTAA
1 ATTATTATAATTATTAA
55573279 ATTATTATAATTATTA
1 ATTATTATAATTATTA
55573295 TTTCTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTATTATAATTATTAA
Found at i:55576194 original size:29 final size:29
Alignment explanation
Indices: 55576161--55576321 Score: 178
Period size: 29 Copynumber: 5.6 Consensus size: 29
55576151 GTGACGAGAT
*
55576161 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
*
55576190 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
*
55576219 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* * **
55576248 TGACACTATGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* ** * * ***
55576277 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
*
55576306 TGGCACTATGTGTGCG
1 TGGCACTAAGTGTGCG
55576322 GGCTTAAATT
Statistics
Matches: 115, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 115 1.00
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAAAATA
Found at i:55584737 original size:93 final size:93
Alignment explanation
Indices: 55584625--55584796 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
55584615 CGCCCATAAG
* *
55584625 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
55584690 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
55584718 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
55584783 AGGAGTTCGGATGC
66 ACGAGTTCGGATGC
55584797 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:55584793 original size:46 final size:46
Alignment explanation
Indices: 55584618--55584793 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
55584608 TGTAACCCGC
* * *
55584618 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
55584664 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
55584714 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
55584757 CCATAAGTGAACTCGGACTCAACTCAAGGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
55584794 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 62 0.56
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:55592293 original size:93 final size:93
Alignment explanation
Indices: 55592181--55592352 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
55592171 CGCCCATAAG
* *
55592181 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
55592246 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
55592274 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
55592339 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
55592353 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:55592349 original size:46 final size:46
Alignment explanation
Indices: 55592174--55592349 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
55592164 TGTAACCCGC
* * *
55592174 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
55592220 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
55592270 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
55592313 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
55592350 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:55594533 original size:29 final size:29
Alignment explanation
Indices: 55594500--55594593 Score: 125
Period size: 29 Copynumber: 3.2 Consensus size: 29
55594490 GTGACGAGAT
* *
55594500 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
55594529 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
* * * *
55594558 TGACACTATGTGTGCAAGCTAGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
*
55594587 CGGCACT
1 TGGCACT
55594594 GGGTGTGCGA
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 57 1.00
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAAAATA
Found at i:55594592 original size:58 final size:58
Alignment explanation
Indices: 55594503--55594630 Score: 132
Period size: 58 Copynumber: 2.2 Consensus size: 58
55594493 ACGAGATTGG
* ** * * * *
55594503 CACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGC-ATGCTGGAAAAATATGA
1 CACTATGTGTGCAAGCTAGAAAAATACGGCACTAAGTGTGCGA-GCTCGAAAAATATGA
** ***
55594561 CACTATGTGTGCAAGCTAGAAAAATACGGCACTGGGTGTGCGAGCTCGAAGGGTATGA
1 CACTATGTGTGCAAGCTAGAAAAATACGGCACTAAGTGTGCGAGCTCGAAAAATATGA
55594619 CACTATGTGTGC
1 CACTATGTGTGC
55594631 GGGCTTAAAT
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
58 56 0.98
59 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.24
Consensus pattern (58 bp):
CACTATGTGTGCAAGCTAGAAAAATACGGCACTAAGTGTGCGAGCTCGAAAAATATGA
Found at i:55594599 original size:29 final size:29
Alignment explanation
Indices: 55594532--55594606 Score: 78
Period size: 29 Copynumber: 2.6 Consensus size: 29
55594522 AAATATATGG
* * * *
55594532 CACTAAGTGTGCATGCTGGAAAAATATGA
1 CACTAGGTGTGCAAGCTAGAAAAATACGA
* *
55594561 CACTATGTGTGCAAGCTAGAAAAATACGG
1 CACTAGGTGTGCAAGCTAGAAAAATACGA
* *
55594590 CACTGGGTGTGCGAGCT
1 CACTAGGTGTGCAAGCT
55594607 CGAAGGGTAT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.23
Consensus pattern (29 bp):
CACTAGGTGTGCAAGCTAGAAAAATACGA
Found at i:55597589 original size:40 final size:39
Alignment explanation
Indices: 55597534--55597664 Score: 140
Period size: 40 Copynumber: 3.3 Consensus size: 39
55597524 CATTCGAATG
*
55597534 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATT-GTGCAAGTTGTT
***
55597574 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCA-TTGTGCAAGTTGTT
* * ** *
55597614 AAAT-CGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTGTGCAAGTTGTT
55597653 ATATCC-GGCTAA
1 ATATCCGGGCTAA
55597665 ATTCCAAAGA
Statistics
Matches: 74, Mismatches: 14, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
39 34 0.46
40 38 0.51
41 2 0.03
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTGTGCAAGTTGTT
Found at i:55605755 original size:39 final size:40
Alignment explanation
Indices: 55605606--55605776 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
55605596 CATTCGAATG
55605606 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTT
55605646 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTT
* * ***
55605686 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTT
* * ** *
55605726 AAAT-CGGGTTAAGACCCGAAGGCAATT-GTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTT
55605765 ATATCC-GGCTAA
1 ATATCCGGGCTAA
55605777 ATTCCAAAGA
Statistics
Matches: 114, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
39 32 0.28
40 82 0.72
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTT
Found at i:55613851 original size:40 final size:40
Alignment explanation
Indices: 55613796--55613912 Score: 216
Period size: 40 Copynumber: 2.9 Consensus size: 40
55613786 CATTCGAATG
55613796 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTT
55613836 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTT
* *
55613876 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTT
55613913 ACCAAATTCG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 75 1.00
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTT
Found at i:55613934 original size:80 final size:80
Alignment explanation
Indices: 55613796--55613967 Score: 213
Period size: 80 Copynumber: 2.2 Consensus size: 80
55613786 CATTCGAATG
* *** * *
55613796 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGC-
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTACCAAATCCGGGCTAAAACCCGAAGGCA
*
55613860 ATTCGTGCGAGTTGTT
66 ATT-GTGCGAGTGGTT
* * *
55613876 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATTCGGGTTAAAACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTACCAAATCCGGGCTAAAACCCGAAGGCA
**
55613941 ATTGTGCTTGTGGTT
66 ATTGTGCGAGTGGTT
55613956 ATATCC-GGCTAA
1 ATATCCGGGCTAA
55613968 ATTCCAAAGA
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 6 0.08
80 70 0.89
81 3 0.04
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTACCAAATCCGGGCTAAAACCCGAAGGCA
ATTGTGCGAGTGGTT
Found at i:55619640 original size:40 final size:39
Alignment explanation
Indices: 55619585--55619716 Score: 140
Period size: 40 Copynumber: 3.3 Consensus size: 39
55619575 CATTCGAATG
* *
55619585 ATATCCGGGCTAAGACCTGAAGGCATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATT-GTGCAAGTTGTT
***
55619625 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCA-TTGTGCAAGTTGTT
* * ** *
55619665 AAATCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTGTGCAAGTTGTT
55619705 ATATCC-GGCTAA
1 ATATCCGGGCTAA
55619717 ATTCCGAAGA
Statistics
Matches: 75, Mismatches: 15, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
39 5 0.07
40 67 0.89
41 3 0.04
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTGTGCAAGTTGTT
Found at i:55623231 original size:29 final size:29
Alignment explanation
Indices: 55623198--55623299 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
55623188 TGACGAGATC
55623198 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
55623227 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
** * *
55623256 GGCACTAAGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
**
55623285 GGCACTGGGTGTGCG
1 GGCACTAAGTGTGCG
55623300 AGCTCGGAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAATATAT
Found at i:55628487 original size:20 final size:20
Alignment explanation
Indices: 55628462--55628508 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
55628452 AGGGGCACAC
55628462 GCCCGTGTGGCC-TAGGACAT
1 GCCCGTGT-GCCTTAGGACAT
*
55628482 GCCCGTGTGCCTTGGGACAT
1 GCCCGTGTGCCTTAGGACAT
*
55628502 GGCCGTG
1 GCCCGTG
55628509 GGGCAAGGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 3 0.12
20 21 0.88
ACGTcount: A:0.11, C:0.30, G:0.38, T:0.21
Consensus pattern (20 bp):
GCCCGTGTGCCTTAGGACAT
Found at i:55630310 original size:12 final size:12
Alignment explanation
Indices: 55630270--55630303 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
55630260 CAAAACCCTA
*
55630270 TTTTTCCTT-TC
1 TTTTTCTTTCTC
55630281 TTTTTCTTTCTC
1 TTTTTCTTTCTC
55630293 TTTTTCTTTCT
1 TTTTTCTTTCT
55630304 TTCTTTCCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 8 0.38
12 13 0.62
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTTCTTTCTC
Found at i:55630420 original size:16 final size:17
Alignment explanation
Indices: 55630399--55630430 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
55630389 TAACATATAT
55630399 ATTATTAT-ATTATTAA
1 ATTATTATAATTATTAA
55630415 ATTATTATAATTATTA
1 ATTATTATAATTATTA
55630431 TTTCTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTATTATAATTATTAA
Found at i:55631341 original size:31 final size:31
Alignment explanation
Indices: 55631298--55631361 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
55631288 CCTTTTCATA
*
55631298 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATAGTTCATAATACTGGGCCGAAGCCT
*
55631329 TTTCATAGTTCATATTACTGGGCCGAAGCCT
1 TTTCATAGTTCATAATACTGGGCCGAAGCCT
55631360 TT
1 TT
55631362 ACTGTAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (31 bp):
TTTCATAGTTCATAATACTGGGCCGAAGCCT
Found at i:55631603 original size:24 final size:24
Alignment explanation
Indices: 55631552--55631670 Score: 161
Period size: 24 Copynumber: 5.0 Consensus size: 24
55631542 GCTTTATCAT
*
55631552 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
55631577 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
55631601 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
55631624 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
55631648 ATAACTAGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
55631671 TTCACTTCCT
Statistics
Matches: 86, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
23 23 0.27
24 51 0.59
25 12 0.14
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:55631631 original size:47 final size:48
Alignment explanation
Indices: 55631552--55631670 Score: 161
Period size: 47 Copynumber: 2.5 Consensus size: 48
55631542 GCTTTATCAT
*
55631552 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTCA
* **
55631601 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
*
55631648 ATAACTAGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
55631671 TTCACTTCCT
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
47 43 0.67
48 9 0.14
49 12 0.19
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.29
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
Found at i:55631747 original size:20 final size:20
Alignment explanation
Indices: 55631722--55631781 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
55631712 TATGATTACC
55631722 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
55631742 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
55631762 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
55631782 CCATATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:55631752 original size:11 final size:11
Alignment explanation
Indices: 55631722--55631776 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
55631712 TATGATTACC
55631722 TCATGTGCATA
1 TCATGTGCATA
*
55631733 TCA--TACATA
1 TCATGTGCATA
55631742 TCATGTGCATA
1 TCATGTGCATA
* *
55631753 TCA--TACATT
1 TCATGTGCATA
55631762 TCATGTGCATA
1 TCATGTGCATA
55631773 TCAT
1 TCAT
55631777 ACATACCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:55633059 original size:27 final size:26
Alignment explanation
Indices: 55633029--55633106 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 26
55633019 AGGCATATTC
55633029 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACC-TACAGGGGTATTACG
*
55633056 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTA-CCTACAGGGG-TATTACG
* *
55633083 GTCTTTTTACCTAATAGGGGTATT
1 GTCATTTTACCT-ACAGGGGTATT
55633107 TTAGTCATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
26 4 0.09
27 36 0.84
28 3 0.07
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.36
Consensus pattern (26 bp):
GTCATTTTACCTACAGGGGTATTACG
Found at i:55633177 original size:27 final size:27
Alignment explanation
Indices: 55633147--55633403 Score: 140
Period size: 27 Copynumber: 9.4 Consensus size: 27
55633137 GTAAATCTAC
*
55633147 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *
55633174 AAACCAATGGTATTTCTA-TAATTTTTAG
1 AAACCAAGGGTATTTC-AGTAA-TTTTAT
* * * *
55633202 AAAGTCAAGGGTATTTCTGTAACTTTGT
1 AAA-CCAAGGGTATTTCAGTAATTTTAT
* * ** *
55633230 AAATCAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
*** * * *
55633257 AAATTGAGGGTATTTCGGTAATTTCAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *
55633284 AAACCAAGGGTATTT-TGATAATTTTAC
1 AAACCAAGGGTATTTCAG-TAATTTTAT
* * ** *
55633311 AAACTAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
* * *
55633338 AAACTAAGGGTATTTTAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* * *** * *
55633365 AAATCGAGGGTAAAACAGTAATTCTGT
1 AAACCAAGGGTATTTCAGTAATTTTAT
*
55633392 AAATCAAGGGTA
1 AAACCAAGGGTA
55633404 AAATAGTAAT
Statistics
Matches: 183, Mismatches: 41, Indels: 12
0.78 0.17 0.05
Matches are distributed among these distances:
26 1 0.01
27 153 0.84
28 15 0.08
29 14 0.08
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.37
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTAT
Found at i:55633295 original size:54 final size:54
Alignment explanation
Indices: 55633237--55633376 Score: 183
Period size: 54 Copynumber: 2.6 Consensus size: 54
55633227 TGTAAATCAG
55633237 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAA
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAA
* * * * *
55633291 GGGTATTTTGATAATTTTACAAACT-AGGGGTATTTTGGTAATTTTACAAACTAA
1 GGGTATTTTGGTAATTTTACAAATTGA-GGGTATTTCGGTAATTTCACAAACCAA
* ** *
55633345 GGGTATTTTAGTAATTTTGTAAATCGAGGGTA
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTA
55633377 AAACAGTAAT
Statistics
Matches: 73, Mismatches: 11, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
53 1 0.01
54 71 0.97
55 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.39
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAA
Found at i:55633403 original size:81 final size:80
Alignment explanation
Indices: 55633326--55633618 Score: 232
Period size: 81 Copynumber: 3.6 Consensus size: 80
55633316 AGGGGTATTT
** * *
55633326 TGGTAATTTTACAAACTAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTG
1 TGGTAATTTTACAAACTAAGGGTAAATCAGTAATTTTATAAATCGAGGGTAAAAC-GTAATTCTG
*
55633391 TAAATCAAGGGTAAAA
65 TAAATCGAGGGTAAAA
* * * * * * *
55633407 TAGTAATTCTATAAA-TCGAGGGTAAAACTGTAATTCTATAAATCGAGGGTAAAACGGTAATTCT
1 TGGTAATTTTACAAACT-AAGGGTAAATCAGTAATTTTATAAATCGAGGGTAAAAC-GTAATTCT
*
55633471 GTAAGTCGAGGGTAAAA
64 GTAAATCGAGGGTAAAA
* * * ** * * * * *
55633488 CGATAATTATGTAAATTAGGGGTAAAACAGTAATTATGTAAATCG-GGGTAAAACGATAATTCTG
1 TGGTAATTTTACAAACTAAGGGTAAATCAGTAATTTTATAAATCGAGGGTAAAACG-TAATTCTG
* ***
55633552 TAAATCGGGGGTACTT
65 TAAATCGAGGGTAAAA
* * ** *
55633568 TGGTAATTTTACAAGTCGAA-GGTATTTCAGTAATTTTACAAATCGAGGGTA
1 TGGTAATTTTACAA-ACTAAGGGTAAATCAGTAATTTTATAAATCGAGGGTA
55633619 TTTTAGTATT
Statistics
Matches: 163, Mismatches: 44, Indels: 10
0.75 0.20 0.05
Matches are distributed among these distances:
79 1 0.01
80 57 0.35
81 104 0.64
82 1 0.01
ACGTcount: A:0.38, C:0.09, G:0.22, T:0.31
Consensus pattern (80 bp):
TGGTAATTTTACAAACTAAGGGTAAATCAGTAATTTTATAAATCGAGGGTAAAACGTAATTCTGT
AAATCGAGGGTAAAA
Found at i:55633404 original size:27 final size:27
Alignment explanation
Indices: 55633354--55633564 Score: 259
Period size: 27 Copynumber: 7.9 Consensus size: 27
55633344 AGGGTATTTT
*
55633354 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
55633381 AGTAATTCTGTAAATCAAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
55633408 AGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
55633435 TGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
55633462 GGTAATTCTGTAAGTCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
55633489 -GATAATTATGTAAAT-TAGGGGTAAAAC
1 AG-TAATTCTGTAAATCGA-GGGTAAAAC
*
55633516 AGTAATTATGTAAATCG-GGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
55633542 -GATAATTCTGTAAATCGGGGGTA
1 AG-TAATTCTGTAAATCGAGGGTA
55633565 CTTTGGTAAT
Statistics
Matches: 163, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
25 1 0.01
26 25 0.15
27 136 0.83
28 1 0.01
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:55633591 original size:27 final size:26
Alignment explanation
Indices: 55633561--55633659 Score: 92
Period size: 27 Copynumber: 3.7 Consensus size: 26
55633551 GTAAATCGGG
* *
55633561 GGTACTTTGGTAATTTTACAAGTCGAA
1 GGTA-TTTAGTAATTTTACAAATCGAA
*
55633588 GGTATTTCAGTAATTTTACAAATCGAG
1 GGTATTT-AGTAATTTTACAAATCGAA
* *
55633615 GGTATTTTAGTATTTTTACAAA-CTAA
1 GGTA-TTTAGTAATTTTACAAATCGAA
*
55633641 GGGTATTTCGGTAATTTTA
1 -GGTATTT-AGTAATTTTA
55633660 GTAAACTAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
26 8 0.13
27 49 0.82
28 3 0.05
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.41
Consensus pattern (26 bp):
GGTATTTAGTAATTTTACAAATCGAA
Found at i:55633618 original size:54 final size:54
Alignment explanation
Indices: 55633553--55633659 Score: 135
Period size: 54 Copynumber: 2.0 Consensus size: 54
55633543 ATAATTCTGT
* * *
55633553 AAATCGGGGGTACTTTGGTAATTTTACAAGTCGAA-GGTATTTCAGTAATTTTAC
1 AAATCGAGGGTACTTTAGTAATTTTACAA-ACGAAGGGTATTTCAGTAATTTTAC
* * * *
55633607 AAATCGAGGGTATTTTAGTATTTTTACAAACTAAGGGTATTTCGGTAATTTTA
1 AAATCGAGGGTACTTTAGTAATTTTACAAACGAAGGGTATTTCAGTAATTTTA
55633660 GTAAACTAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
53 3 0.07
54 42 0.93
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (54 bp):
AAATCGAGGGTACTTTAGTAATTTTACAAACGAAGGGTATTTCAGTAATTTTAC
Found at i:55640711 original size:47 final size:47
Alignment explanation
Indices: 55640658--55641187 Score: 925
Period size: 47 Copynumber: 11.3 Consensus size: 47
55640648 ATAAGATATG
* * *
55640658 TATATGTGGTAAAGCCGAATGGCCAATGTGATGAATGTGAATGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATGTGTA
*
55640705 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATATGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATGTGTA
* *
55640752 TATATGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAATGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATGTGTA
55640799 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATGTGTA
*
55640846 TATATGTGATAAGGCCGAATGGCCAATGTGAGGAATGTGAATGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATGTGTA
55640893 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATGTGTA
*
55640940 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATGTGTA
55640987 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATGTGTA
55641034 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATGTGTA
* *
55641081 TATATGTGATACGGCCGAATGGCCAATGTGATGAATGTGAATGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATGTGTA
* * * *
55641128 TATATGTGATAAGGCCAAATGGCCAATGTGATGGATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATGTGTA
*
55641175 TAAATGTGATAAG
1 TATATGTGATAAG
55641188 TCCCGAAGGG
Statistics
Matches: 463, Mismatches: 20, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 463 1.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.28
Consensus pattern (47 bp):
TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATGTGTA
Found at i:55643796 original size:40 final size:40
Alignment explanation
Indices: 55643735--55644159 Score: 669
Period size: 40 Copynumber: 10.7 Consensus size: 40
55643725 AGGTCTCGAC
*
55643735 GATG-ATCCGGGTTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
55643774 GATGTATCCGGGCTAAGCCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
55643814 GATGTATCCGGGCTAAGCCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
55643854 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
55643894 GATGTATCCGGGCTAAGCCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
55643934 GATGTATCCGGGCTAAGTTCTGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
55643974 GATGTATCCGGGCTAAG-CCCGAAGGGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
55644013 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * *
55644053 GATATATCCGGGCTAAG-CCTGAAGGGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
55644092 GATGTATCCGGGCTAAGTTCCGAAGAGTATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * *
55644132 GATATATCCGTGCTAA-ACCCGAAGAGCA
1 GATGTATCCGGGCTAAGTCCCGAAGAGCA
55644160 ATCATGCTGG
Statistics
Matches: 355, Mismatches: 28, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
39 84 0.24
40 271 0.76
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.25
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
Found at i:55644376 original size:25 final size:25
Alignment explanation
Indices: 55644335--55644386 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
55644325 TGTGTAATAA
55644335 TGAATGAATAAGAGCACTATGTGTG
1 TGAATGAATAAGAGCACTATGTGTG
* *
55644360 TGAATG-ATTAGAGGCACTGTGTGTG
1 TGAATGAATAAGA-GCACTATGTGTG
55644385 TG
1 TG
55644387 CGAATTCCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.29, C:0.08, G:0.33, T:0.31
Consensus pattern (25 bp):
TGAATGAATAAGAGCACTATGTGTG
Found at i:55646885 original size:124 final size:124
Alignment explanation
Indices: 55646663--55646887 Score: 326
Period size: 124 Copynumber: 1.8 Consensus size: 124
55646653 GAATTATGTG
* * * * * * *
55646663 AAATGAAATATGGATGTGTATTGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
* * **
55646728 GCTAAGTCCCGAAGGCGATTATGCTTGTGATTATATTTGCGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGACGATTATGCTGGAAATTATATTTGCGTTTGAGCCTTAGTAACGA
*
55646787 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATATCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
55646852 GCTAAGTCCCGAAGAC-ATTTATGCTGGAAATTATAT
66 GCTAAGTCCCGAAGACGA-TTATGCTGGAAATTATAT
55646888 CCGGGTTAAG
Statistics
Matches: 88, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
123 1 0.01
124 87 0.99
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.35
Consensus pattern (124 bp):
AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
GCTAAGTCCCGAAGACGATTATGCTGGAAATTATATTTGCGTTTGAGCCTTAGTAACGA
Found at i:55647009 original size:40 final size:40
Alignment explanation
Indices: 55646882--55647011 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
55646872 ATGCTGGAAA
* *
55646882 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
55646922 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
55646962 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
55647002 TTATATCCGG
1 TTATATCCGG
55647012 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:55647010 original size:80 final size:80
Alignment explanation
Indices: 55646844--55647011 Score: 198
Period size: 80 Copynumber: 2.1 Consensus size: 80
55646834 CAATTGAATG
* * *
55646844 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
55646909 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * ** *
55646924 ACATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTCATTCTATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGC
*
55646988 -ATTCGTGC-ACGTGGTT
65 AATT-GTGCTA-GTGGCT
55647004 ATATCCGG
1 ATATCCGG
55647012 TTGTATTCCG
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
79 5 0.07
80 69 0.93
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:55654102 original size:124 final size:124
Alignment explanation
Indices: 55653880--55654104 Score: 299
Period size: 124 Copynumber: 1.8 Consensus size: 124
55653870 GAATTATGTG
* * * ** * * *
55653880 AAATGAAATATGGATGTGTATTGATTATTGATTTATGCGTGTATGAGTATTTGAATGATACCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGCATGCGTGCATGAGCAATTGAATGATACCCGG
* * **
55653945 GCTAAGTCCCGAAGGCGATTATGCTTGTGATTATATTTGCGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGACGATTATGCTGGAAATTATATTTGCGTTTGAGCCTTAGTAACGA
* * *
55654004 AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATATCTGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGCATGCGTGCATGAGCAATTGAATGATACCCGG
55654069 GCTAAGTCCCGAAGAC-ATTTATGCTGGAAATTATAT
66 GCTAAGTCCCGAAGACGA-TTATGCTGGAAATTATAT
55654105 CCGGGTTAAG
Statistics
Matches: 85, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
123 1 0.01
124 84 0.99
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.35
Consensus pattern (124 bp):
AAATGAAATATGAATGTCTAATGATTATTGATGCATGCGTGCATGAGCAATTGAATGATACCCGG
GCTAAGTCCCGAAGACGATTATGCTGGAAATTATATTTGCGTTTGAGCCTTAGTAACGA
Found at i:55657490 original size:47 final size:47
Alignment explanation
Indices: 55657437--55657917 Score: 827
Period size: 47 Copynumber: 10.2 Consensus size: 47
55657427 ATAAGATATG
* * *
55657437 TATATGTGGTAAAGCCGAATGGCCAATGTGATGAATGTGAATGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATGTGTA
*
55657484 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATATGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATGTGTA
* *
55657531 TATATGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAATGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATGTGTA
55657578 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATGTGTA
*
55657625 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGCGAATGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATGTGTA
*
55657672 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGCGAATGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATGTGTA
55657719 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATGTGTA
55657766 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATGTGTA
* *
55657813 TATATGTGATACGGCCGAATGGCCAATGTGATGAATGTGAATGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATGTGTA
* * * *
55657860 TATATGTGATAAGGCCAAATGGCCAATGTGATGGATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATGTGTA
*
55657907 TAAATGTGATA
1 TATATGTGATA
55657918 GTCCCGAAGG
Statistics
Matches: 416, Mismatches: 18, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 416 1.00
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.28
Consensus pattern (47 bp):
TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATGTGTA
Found at i:55660486 original size:10 final size:9
Alignment explanation
Indices: 55660459--55660491 Score: 50
Period size: 10 Copynumber: 3.7 Consensus size: 9
55660449 AATTAATATT
55660459 AATAAAA-A
1 AATAAAATA
55660467 AATAAAATA
1 AATAAAATA
55660476 AATAGAAATA
1 AATA-AAATA
55660486 AATAAA
1 AATAAA
55660492 TCAATAAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 7 0.30
9 7 0.30
10 9 0.39
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (9 bp):
AATAAAATA
Found at i:55662619 original size:42 final size:42
Alignment explanation
Indices: 55662562--55662764 Score: 262
Period size: 42 Copynumber: 4.8 Consensus size: 42
55662552 TAGGGTTATG
* *
55662562 TGTGATTTTGTGTAAGACCATATCTAGGATATGGCATCGATA
1 TGTGATTTCGTGTAAGACCATATCTGGGATATGGCATCGATA
55662604 TGTGATTTCGTGTAAGACCATATCTGGGATATGGCATCGATA
1 TGTGATTTCGTGTAAGACCATATCTGGGATATGGCATCGATA
* *
55662646 TGTGATTTCGTGTAAGACCATGTCTGGGACATGGCATCGATA
1 TGTGATTTCGTGTAAGACCATATCTGGGATATGGCATCGATA
* * ** * * *
55662688 CGAGACATCGTGTAAGACCATAGCTGGGCTATTGACATCGATA
1 TGTGATTTCGTGTAAGACCATATCTGGGATA-TGGCATCGATA
** * *
55662731 TGTGATCCCATGTAAAACCATATCTGGGATATGG
1 TGTGATTTCGTGTAAGACCATATCTGGGATATGG
55662765 GATTGGCATC
Statistics
Matches: 137, Mismatches: 23, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
42 105 0.77
43 32 0.23
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.31
Consensus pattern (42 bp):
TGTGATTTCGTGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:55675175 original size:17 final size:16
Alignment explanation
Indices: 55675150--55675181 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
55675140 TTGTTACCAT
55675150 TTTAATTTTTTTATTC
1 TTTAATTTTTTTATTC
55675166 TTTAAGTTTTTTTATT
1 TTTAA-TTTTTTTATT
55675182 TGGGTTTCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.75
Consensus pattern (16 bp):
TTTAATTTTTTTATTC
Found at i:55678020 original size:26 final size:27
Alignment explanation
Indices: 55677969--55678040 Score: 76
Period size: 26 Copynumber: 2.7 Consensus size: 27
55677959 CATTTCGACC
* *
55677969 CACAGCTCGTGTGAGCAGA-CCTATTT
1 CACAGCTCATGTGAGCATATCCTATTT
*
55677995 CACAGCTCATGTGAGCATATTC-ATTT
1 CACAGCTCATGTGAGCATATCCTATTT
** *
55678021 TGCAGCTCATGTAAGCATAT
1 CACAGCTCATGTGAGCATAT
55678041 GTGTACAGGA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
26 38 0.97
27 1 0.03
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (27 bp):
CACAGCTCATGTGAGCATATCCTATTT
Found at i:55682597 original size:13 final size:13
Alignment explanation
Indices: 55682579--55682605 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
55682569 CTATTGTGGC
55682579 TGATTAGTTTAAA
1 TGATTAGTTTAAA
55682592 TGATTAGTTTAAA
1 TGATTAGTTTAAA
55682605 T
1 T
55682606 AAGTTATCCT
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:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (13 bp):
TGATTAGTTTAAA
Found at i:55683090 original size:21 final size:21
Alignment explanation
Indices: 55683056--55683112 Score: 98
Period size: 21 Copynumber: 2.8 Consensus size: 21
55683046 TTAGAATTAA
55683056 TTCTACAC-GGCGTGTTACCC
1 TTCTACACGGGCGTGTTACCC
55683076 TTCTACACGGGCGTGTTACCC
1 TTCTACACGGGCGTGTTACCC
*
55683097 TTCTACATGGGCGTGT
1 TTCTACACGGGCGTGT
55683113 GCCTTGTTTC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
20 8 0.23
21 27 0.77
ACGTcount: A:0.14, C:0.30, G:0.25, T:0.32
Consensus pattern (21 bp):
TTCTACACGGGCGTGTTACCC
Found at i:55690463 original size:21 final size:21
Alignment explanation
Indices: 55690437--55690492 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
55690427 TTAGAATTAA
* * *
55690437 TTCTACATGGGCTTGTTACCC
1 TTCTACAAGGGCGTATTACCC
*
55690458 TTCTACACGGGCGTATTACCC
1 TTCTACAAGGGCGTATTACCC
*
55690479 TTTTACAAGGGCGT
1 TTCTACAAGGGCGT
55690493 GTGCCTTGTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.18, C:0.27, G:0.21, T:0.34
Consensus pattern (21 bp):
TTCTACAAGGGCGTATTACCC
Done.