Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 96 of 218
Found at i:27695514 original size:1 final size:1
Alignment explanation
Indices: 27695457--27695505 Score: 53
Period size: 1 Copynumber: 49.0 Consensus size: 1
27695447 CCTTGATTCC
* * * * *
27695457 AAAAAAAAAAAAAAGAAAAAAATAAAAAAAAAAGAGAAAAAATAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
27695506 GATGAAAAAT
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 38 1.00
ACGTcount: A:0.90, C:0.00, G:0.06, T:0.04
Consensus pattern (1 bp):
A
Found at i:27695520 original size:22 final size:20
Alignment explanation
Indices: 27695495--27695536 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
27695485 AAAAAGAGAA
27695495 AAAATAAAAAAGATGAAAAATG
1 AAAATAAAAAAG-T-AAAAATG
*
27695517 AAAATGAAAAAGTAAAAATG
1 AAAATAAAAAAGTAAAAATG
27695537 GAAAGGCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 7 0.37
21 1 0.05
22 11 0.58
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (20 bp):
AAAATAAAAAAGTAAAAATG
Found at i:27697244 original size:44 final size:44
Alignment explanation
Indices: 27697192--27697410 Score: 174
Period size: 44 Copynumber: 4.8 Consensus size: 44
27697182 TTTCAGATCT
27697192 TATCTCCCTGAGATTACAGCGGAGCAGATTAAAGCTAGTAATCC
1 TATCTCCCTGAGATTACAGCGGAGCAGATTAAAGCTAGTAATCC
* * * * *
27697236 TATCTCCCTGAGATTACAGTGGAGCGGATTAAA-ATAAAG-GATCT
1 TATCTCCCTGAGATTACAGCGGAGCAGATTAAAGCT--AGTAATCC
* * * * * *
27697280 TATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCT
1 TATCTCCCTGAGA-TTAC---AGCG--GA--G---CAGATTAAAGCTAGTAATCC
* *
27697334 TATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCC
1 TATCTCCCTGAGATTACAGCGGAGCAGATTAAAGCTAGTAATCC
*
27697378 TATCTCCCTGAGATTACAGTGGAGCAGATTAAA
1 TATCTCCCTGAGATTACAGCGGAGCAGATTAAA
27697411 ATAAAGGATA
Statistics
Matches: 138, Mismatches: 21, Indels: 32
0.72 0.11 0.17
Matches are distributed among these distances:
43 2 0.01
44 94 0.68
45 2 0.01
47 4 0.03
49 4 0.03
51 4 0.03
53 2 0.01
54 25 0.18
55 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.27
Consensus pattern (44 bp):
TATCTCCCTGAGATTACAGCGGAGCAGATTAAAGCTAGTAATCC
Found at i:27697444 original size:142 final size:142
Alignment explanation
Indices: 27697188--27697543 Score: 642
Period size: 142 Copynumber: 2.5 Consensus size: 142
27697178 AGAATTTCAG
* *
27697188 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTAAAGCTAGTAATCCTATCTCCCTGAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGAAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTAC
* *
27697253 AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGA
66 AGTGGAGCAGATTAAAATAAAGGATATTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGA
27697318 TTGAAGCCAGAA
131 TTGAAGCCAGAA
*
27697330 ATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGAAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTAC
27697395 AGTGGAGCAGATTAAAATAAAGGATATTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGA
66 AGTGGAGCAGATTAAAATAAAGGATATTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGA
27697460 TTGAAGCCAGAA
131 TTGAAGCCAGAA
*
27697472 ATCTTATCTCCCTGAGATTACAGCAGAGAAGATTGAAGCTAGTAATCCTATCTCCCTGATG-TTA
1 ATCTTATCTCCCTGAGATTACAGCGGAGAAGATTGAAGCTAGTAATCCTATCTCCCTGA-GATTA
27697536 CAGTGGAG
65 CAGTGGAG
27697544 TGGATCGAAG
Statistics
Matches: 207, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
142 206 1.00
143 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.28
Consensus pattern (142 bp):
ATCTTATCTCCCTGAGATTACAGCGGAGAAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTAC
AGTGGAGCAGATTAAAATAAAGGATATTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGA
TTGAAGCCAGAA
Found at i:27699503 original size:10 final size:10
Alignment explanation
Indices: 27699459--27699506 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
27699449 TCACATTTTT
27699459 AATTTATTTC
1 AATTTATTTC
*
27699469 AACTTATTTC
1 AATTTATTTC
27699479 AATATTA-TT-
1 AAT-TTATTTC
*
27699488 AATTTATTTA
1 AATTTATTTC
27699498 AATTTATTT
1 AATTTATTT
27699507 TAACATTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
8 3 0.09
9 5 0.15
10 22 0.67
11 3 0.09
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.58
Consensus pattern (10 bp):
AATTTATTTC
Found at i:27700681 original size:25 final size:25
Alignment explanation
Indices: 27700639--27700701 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
27700629 TTAAATGTTT
* *
27700639 TCAGTATAGT-CTATCTATAGTAGTC
1 TCAGTATA-TACTACCTATAGCAGTC
*
27700664 TCAGTATATACTACCTATAGCAGTT
1 TCAGTATATACTACCTATAGCAGTC
*
27700689 TCAGGATATACTA
1 TCAGTATATACTA
27700702 TCAAAGACAG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 1 0.03
25 32 0.97
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (25 bp):
TCAGTATATACTACCTATAGCAGTC
Found at i:27701053 original size:18 final size:17
Alignment explanation
Indices: 27701030--27701082 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 17
27701020 AATCGTGTTG
27701030 TTCATTTCCAAAACATTA
1 TTCATTT-CAAAACATTA
* *
27701048 TTCATTTACAAATCGTTA
1 TTCATTT-CAAAACATTA
27701066 TTCAATTTCAAAACATT
1 TTC-ATTTCAAAACATT
27701083 TTCTTATTGC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
18 25 0.86
19 4 0.14
ACGTcount: A:0.38, C:0.19, G:0.02, T:0.42
Consensus pattern (17 bp):
TTCATTTCAAAACATTA
Found at i:27706493 original size:18 final size:18
Alignment explanation
Indices: 27706470--27706506 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
27706460 TTTGATTCAG
27706470 TTATTAC-TAATTTAATTT
1 TTATTACTTAATTT-ATTT
27706488 TTATTACTTAATTTATTT
1 TTATTACTTAATTTATTT
27706506 T
1 T
27706507 CTATAATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (18 bp):
TTATTACTTAATTTATTT
Found at i:27721040 original size:20 final size:21
Alignment explanation
Indices: 27721012--27721050 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
27721002 TAGGGACTAA
*
27721012 TTTGAACAGTTTTC-AAAAGT
1 TTTGAACAGATTTCTAAAAGT
*
27721032 TTTGGACAGATTTCTAAAA
1 TTTGAACAGATTTCTAAAA
27721051 TAAGGGCACA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.38
Consensus pattern (21 bp):
TTTGAACAGATTTCTAAAAGT
Found at i:27721969 original size:22 final size:22
Alignment explanation
Indices: 27721915--27721970 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
27721905 CAATTTTGTT
*
27721915 TCATATTACATATCAAAGCATA
1 TCATATAACATATCAAAGCATA
* * * *
27721937 TCTTGTAACATATCAGAGCTTA
1 TCATATAACATATCAAAGCATA
*
27721959 TCATATCACATA
1 TCATATAACATA
27721971 ATTTTAGAAA
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.39, C:0.20, G:0.07, T:0.34
Consensus pattern (22 bp):
TCATATAACATATCAAAGCATA
Found at i:27724240 original size:19 final size:20
Alignment explanation
Indices: 27724207--27724244 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
27724197 AATATGATGA
*
27724207 AAAAGAAAAGGGAAACAAAG
1 AAAAGAAAAGAGAAACAAAG
27724227 AAAAG-AAAGAGAAACAAA
1 AAAAGAAAAGAGAAACAAA
27724245 ATTCTGGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.74, C:0.05, G:0.21, T:0.00
Consensus pattern (20 bp):
AAAAGAAAAGAGAAACAAAG
Found at i:27724819 original size:24 final size:25
Alignment explanation
Indices: 27724778--27724831 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
27724768 TTATAAGTTG
* *
27724778 AAATTTTTAAAAATAAATA-AAACA
1 AAATTTTTAAAAAGAAATACAAAAA
**
27724802 AAATTTTTTTAAAGAAATACAAAAA
1 AAATTTTTAAAAAGAAATACAAAAA
27724827 AAATT
1 AAATT
27724832 GTAATATATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 16 0.64
25 9 0.36
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (25 bp):
AAATTTTTAAAAAGAAATACAAAAA
Found at i:27725684 original size:14 final size:14
Alignment explanation
Indices: 27725665--27725699 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
27725655 GATAAATGAT
*
27725665 GATAATAATGCGAC
1 GATAATAATGCAAC
27725679 GATAATAATGCAAC
1 GATAATAATGCAAC
*
27725693 TATAATA
1 GATAATA
27725700 GTAATAAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.49, C:0.11, G:0.14, T:0.26
Consensus pattern (14 bp):
GATAATAATGCAAC
Found at i:27727388 original size:44 final size:44
Alignment explanation
Indices: 27727334--27727707 Score: 198
Period size: 44 Copynumber: 8.2 Consensus size: 44
27727324 GTATAGGAAA
* * *
27727334 TGTAGTTTCAATCTACTCTACTACAACTTCAGTGAGATAAGACT
1 TGTAGCTTCAATCTACTCCACTACAACTTCAGGGAGATAAGACT
* *
27727378 TGTAGCTTCAATCTGCTCCACTATAACTTCAGGGAGATAAGATTTGTAACT
1 TGTAGCTTCAATCTACTCCACTACAACTTCAGGGAGAT-A-A---G--ACT
* * * * *
27727429 TGTTGCTTTAATCTATTCCACTACAACTTTAGGGAAATAAGACTCGAT
1 TGTAGCTTCAATCTACTCCACTACAACTTCAGGGAGATAAGA--C--T
* * * * * *
27727477 GTGGTGGATTTAATCTAAC-CCACTACAATTTCA--GAGGTATAGATT
1 -T-GTAGCTTCAATCT-ACTCCACTACAACTTCAGGGAGATA-AGACT
* * * * ** * *
27727522 TTTCGCTTCAATTTGCTCCACTGTAACTTCAGCGAGATAAGATT
1 TGTAGCTTCAATCTACTCCACTACAACTTCAGGGAGATAAGACT
* * * * * *
27727566 TGTACCTTCAATCTGCTCCACTGCAACTTCAGAGAGATTAGATT
1 TGTAGCTTCAATCTACTCCACTACAACTTCAGGGAGATAAGACT
* * *
27727610 TGTAGCTTTAATCTGCTCCACTACAACTTCAGGGAGATAAGATT
1 TGTAGCTTCAATCTACTCCACTACAACTTCAGGGAGATAAGACT
* * * * * * ** *
27727654 TGCAACTTTAATTCGA-TCCACTACAATTTCAGGGATATGGGATT
1 TGTAGCTTCAA-TCTACTCCACTACAACTTCAGGGAGATAAGACT
27727698 TGTAGCTTCA
1 TGTAGCTTCA
27727708 TCTTTCTCTA
Statistics
Matches: 258, Mismatches: 53, Indels: 38
0.74 0.15 0.11
Matches are distributed among these distances:
42 1 0.00
43 19 0.07
44 156 0.60
45 9 0.03
46 3 0.01
48 5 0.02
49 6 0.02
50 24 0.09
51 35 0.14
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (44 bp):
TGTAGCTTCAATCTACTCCACTACAACTTCAGGGAGATAAGACT
Found at i:27727674 original size:88 final size:88
Alignment explanation
Indices: 27727496--27727707 Score: 223
Period size: 88 Copynumber: 2.4 Consensus size: 88
27727486 TTAATCTAAC
* * * * **
27727496 CCACTACAATTTCAGAG-G-TATAGATTTTTCGCTTCAATTTGCTCCACTGTAACTTCAGCGAGA
1 CCACTACAACTTCAGAGAGAT-TAGATTTGTAGCTTCAATCTGCTCCACTACAACTTCAGCGAGA
* * *
27727559 TAAGATTTGTACCTTCAATCTGCT
65 TAAGATTTGCAACTTCAATCTGAT
* * *
27727583 CCACTGCAACTTCAGAGAGATTAGATTTGTAGCTTTAATCTGCTCCACTACAACTTCAGGGAGAT
1 CCACTACAACTTCAGAGAGATTAGATTTGTAGCTTCAATCTGCTCCACTACAACTTCAGCGAGAT
*
27727648 AAGATTTGCAACTTTAAT-TCGAT
66 AAGATTTGCAACTTCAATCT-GAT
* * * **
27727671 CCACTACAATTTCAGGGATATGGGATTTGTAGCTTCA
1 CCACTACAACTTCAGAGAGATTAGATTTGTAGCTTCA
27727708 TCTTTCTCTA
Statistics
Matches: 102, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
87 16 0.16
88 85 0.83
89 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.33
Consensus pattern (88 bp):
CCACTACAACTTCAGAGAGATTAGATTTGTAGCTTCAATCTGCTCCACTACAACTTCAGCGAGAT
AAGATTTGCAACTTCAATCTGAT
Found at i:27739438 original size:5 final size:5
Alignment explanation
Indices: 27739428--27739457 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
27739418 AAATAAAAAG
27739428 ATAAA ATAAA ATAAA ATAAA AT-AA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA A
27739458 GAACATGTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:27739448 original size:15 final size:14
Alignment explanation
Indices: 27739418--27739457 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
27739408 TTAGGGTAAT
*
27739418 AAATAAA-AAGATA
1 AAATAAATAAAATA
27739431 AAATAAAATAAAATA
1 AAAT-AAATAAAATA
27739446 AAATAAATAAAA
1 AAATAAATAAAA
27739458 GAACATGTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 4 0.17
14 11 0.46
15 9 0.38
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (14 bp):
AAATAAATAAAATA
Found at i:27739564 original size:12 final size:12
Alignment explanation
Indices: 27739549--27739573 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27739539 CATAATAAAT
27739549 AGAATAATGATA
1 AGAATAATGATA
27739561 AGAATAATGATA
1 AGAATAATGATA
27739573 A
1 A
27739574 AGGTGAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.16, T:0.24
Consensus pattern (12 bp):
AGAATAATGATA
Found at i:27741859 original size:42 final size:43
Alignment explanation
Indices: 27741784--27741867 Score: 125
Period size: 42 Copynumber: 2.0 Consensus size: 43
27741774 TAGAAAAAAA
* ***
27741784 CGCCGCTAAAGATCAAGACCTTTAGCGGTGC-TTTTCCACAAT
1 CGCCGCTAAAGACCAAGACCTTTAGCAACGCTTTTTCCACAAT
27741826 CGCCGCTAAAGACCAAGACCTTTAGCAACGCTTTTTCCACAA
1 CGCCGCTAAAGACCAAGACCTTTAGCAACGCTTTTTCCACAA
27741868 AAGCTGCTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 27 0.73
43 10 0.27
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.24
Consensus pattern (43 bp):
CGCCGCTAAAGACCAAGACCTTTAGCAACGCTTTTTCCACAAT
Found at i:27741877 original size:43 final size:42
Alignment explanation
Indices: 27741780--27741879 Score: 119
Period size: 42 Copynumber: 2.3 Consensus size: 42
27741770 TTTTTAGAAA
* ***
27741780 AAAACGCCGCTAAAGATCAAGACCTTTAGCGGTGCTTTTCCAC
1 AAAA-GCCGCTAAAGACCAAGACCTTTAGCAACGCTTTTCCAC
**
27741823 AATCGCCGCTAAAGACCAAGACCTTTAGCAACGCTTTTTCCAC
1 AAAAGCCGCTAAAGACCAAGACCTTTAGCAACGC-TTTTCCAC
*
27741866 AAAAGCTGCTAAAG
1 AAAAGCCGCTAAAG
27741880 GTTTTTCCCA
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 26 0.55
43 21 0.45
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.22
Consensus pattern (42 bp):
AAAAGCCGCTAAAGACCAAGACCTTTAGCAACGCTTTTCCAC
Found at i:27747322 original size:21 final size:22
Alignment explanation
Indices: 27747283--27747323 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
27747273 TCTAAAACCC
27747283 TAAACCCCTAACCCCTAAACTT
1 TAAACCCCTAACCCCTAAACTT
* *
27747305 TAAATCCC-AACCCTTAAAC
1 TAAACCCCTAACCCCTAAAC
27747324 AATAAACCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.39, C:0.39, G:0.00, T:0.22
Consensus pattern (22 bp):
TAAACCCCTAACCCCTAAACTT
Found at i:27747550 original size:16 final size:17
Alignment explanation
Indices: 27747514--27747555 Score: 68
Period size: 16 Copynumber: 2.5 Consensus size: 17
27747504 CACTATAATC
27747514 ATTATTTTAATATATTAA
1 ATTA-TTTAATATATTAA
27747532 ATTATTTAATATA-TAA
1 ATTATTTAATATATTAA
27747548 ATTATTTA
1 ATTATTTA
27747556 TAAATAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 11 0.46
17 9 0.38
18 4 0.17
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTATTTAATATATTAA
Found at i:27747697 original size:21 final size:21
Alignment explanation
Indices: 27747663--27747726 Score: 76
Period size: 21 Copynumber: 3.0 Consensus size: 21
27747653 ACTAATTAAT
* *
27747663 CTAAACCCTAAATCCTAAACCC
1 CTAAA-CCTTAATCCTCAACCC
27747685 CT-AACTCTTAATCCTCAACCC
1 CTAAAC-CTTAATCCTCAACCC
*
27747706 CTAAACCTTAAACCTCAACCC
1 CTAAACCTTAATCCTCAACCC
27747727 TTAATCTATA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
20 1 0.03
21 31 0.84
22 5 0.14
ACGTcount: A:0.36, C:0.42, G:0.00, T:0.22
Consensus pattern (21 bp):
CTAAACCTTAATCCTCAACCC
Found at i:27747759 original size:34 final size:35
Alignment explanation
Indices: 27747663--27747787 Score: 105
Period size: 35 Copynumber: 3.6 Consensus size: 35
27747653 ACTAATTAAT
* * *
27747663 CTAAACCCTAAATCC-TAAACCCCTAACTCTT-AATC
1 CTAAACCTTAAA-CCATAAACCGC-AACCCTTAAATC
* * * *
27747698 CTCAACCCCTAAACCTTAAACCTCAACCCTT-AAT-
1 CT-AAACCTTAAACCATAAACCGCAACCCTTAAATC
*
27747732 CTATAACCTTAAACCATAAACCGCAACCTTTAAATC
1 CTA-AACCTTAAACCATAAACCGCAACCCTTAAATC
*
27747768 CTAAATCTTAAACCATAAAC
1 CTAAACCTTAAACCATAAAC
27747788 TGTAAACCAT
Statistics
Matches: 76, Mismatches: 9, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
33 1 0.01
34 24 0.32
35 32 0.42
36 19 0.25
ACGTcount: A:0.40, C:0.34, G:0.01, T:0.25
Consensus pattern (35 bp):
CTAAACCTTAAACCATAAACCGCAACCCTTAAATC
Found at i:27747829 original size:22 final size:23
Alignment explanation
Indices: 27747804--27747854 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
27747794 CCATAACCCC
27747804 TAAACTCA-TAA-TCCATAAACCT
1 TAAACTCAGTAACTCC-TAAACCT
*
27747826 TAAAAT-AGTAACTCCTAAACCT
1 TAAACTCAGTAACTCCTAAACCT
27747848 TAAACTC
1 TAAACTC
27747855 TAAATCATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
21 1 0.04
22 20 0.83
23 3 0.12
ACGTcount: A:0.45, C:0.25, G:0.02, T:0.27
Consensus pattern (23 bp):
TAAACTCAGTAACTCCTAAACCT
Found at i:27748264 original size:41 final size:41
Alignment explanation
Indices: 27748199--27748387 Score: 213
Period size: 41 Copynumber: 4.7 Consensus size: 41
27748189 AAATGTTTTT
* * * *
27748199 GCGGCGCATTTT-CAGAAATGCCGCTAAAGACCGGAGAATTA
1 GCGGCGC-TTTTCCAAAAACGCCGCTAAAGACCTGAGCATTA
*
27748240 GCGGCGCTTTTCCAAAAACACCGCTAAAGACCTGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCTGAGCATTA
* * * *
27748281 GCGGCGC-TTCCCAGAAACGCCACTAAAG-CCTAAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCTGAGCATTA
* *
27748320 GCGGCGCTTCTCCAAAAACGCCGCTAAAGACCAGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCTGAGCATTA
* ** *
27748361 GTGGCGCTTTTATAAAAACGTCGCTAA
1 GCGGCGCTTTTCCAAAAACGCCGCTAA
27748388 TGCTCGATTT
Statistics
Matches: 124, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 17 0.14
40 38 0.31
41 69 0.56
ACGTcount: A:0.31, C:0.28, G:0.22, T:0.19
Consensus pattern (41 bp):
GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCTGAGCATTA
Found at i:27751004 original size:14 final size:14
Alignment explanation
Indices: 27750982--27751024 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
27750972 TACGTTAGCG
*
27750982 AATAAAAATATATA
1 AATATAAATATATA
*
27750996 AATATAAATAAATA
1 AATATAAATATATA
**
27751010 AATATTTATATATA
1 AATATAAATATATA
27751024 A
1 A
27751025 TAAAATAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
AATATAAATATATA
Found at i:27751022 original size:22 final size:22
Alignment explanation
Indices: 27750987--27751034 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
27750977 TAGCGAATAA
27750987 AAATATATAAATATAA-ATAAAT
1 AAATATATAAATATAATA-AAAT
* *
27751009 AAATATTTATATATAATAAAAT
1 AAATATATAAATATAATAAAAT
27751031 AAAT
1 AAAT
27751035 TTAATAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 22 0.96
23 1 0.04
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (22 bp):
AAATATATAAATATAATAAAAT
Found at i:27752483 original size:24 final size:25
Alignment explanation
Indices: 27752446--27752495 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
27752436 CACGCTAGCG
27752446 AACAAAAATATATAAATATAA-ATA
1 AACAAAAATATATAAATATAATATA
* * *
27752470 AACAAATATTTATATATATAATATA
1 AACAAAAATATATAAATATAATATA
27752495 A
1 A
27752496 TAAATTGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (25 bp):
AACAAAAATATATAAATATAATATA
Found at i:27753969 original size:20 final size:20
Alignment explanation
Indices: 27753946--27753985 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
27753936 TATAAATATA
*
27753946 AATAAAA-ATATTTATATAAT
1 AATAAAATAAATTTA-ATAAT
27753966 AATAAAATAAATTTAATAAT
1 AATAAAATAAATTTAATAAT
27753986 TTATATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
AATAAAATAAATTTAATAAT
Found at i:27755442 original size:18 final size:20
Alignment explanation
Indices: 27755394--27755440 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
27755384 ACACGTTAGC
27755394 AAATAAAAATATATAAATAT
1 AAATAAAAATATATAAATAT
* *
27755414 AAATAAAAATATTTATATAT
1 AAATAAAAATATATAAATAT
27755434 -AATAAAA
1 AAATAAAA
27755441 TAAATTTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 7 0.28
20 18 0.72
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (20 bp):
AAATAAAAATATATAAATAT
Found at i:27755447 original size:20 final size:18
Alignment explanation
Indices: 27755410--27755452 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
27755400 AAATATATAA
*
27755410 ATATAAATAAAAATATTT
1 ATATAAATAAAAAAATTT
27755428 ATATATAATAAAATAAATTT
1 ATATA-AATAAAA-AAATTT
27755448 A-ATAA
1 ATATAA
27755453 TTTATATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 6 0.27
19 10 0.45
20 6 0.27
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
ATATAAATAAAAAAATTT
Found at i:27768508 original size:29 final size:30
Alignment explanation
Indices: 27768475--27768544 Score: 88
Period size: 35 Copynumber: 2.2 Consensus size: 30
27768465 TTATTGAATG
27768475 AATTTTA-GCTGAGATTGTATTTCATTTCA
1 AATTTTAGGCTGAGATTGTATTTCATTTCA
27768504 AATTTTAGCGTTGGCTGAGATTGTATTTCATTTCA
1 AATTTTA-----GGCTGAGATTGTATTTCATTTCA
27768539 AATTTT
1 AATTTT
27768545 CAACCACCAC
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
29 7 0.20
35 28 0.80
ACGTcount: A:0.26, C:0.10, G:0.16, T:0.49
Consensus pattern (30 bp):
AATTTTAGGCTGAGATTGTATTTCATTTCA
Found at i:27769781 original size:21 final size:21
Alignment explanation
Indices: 27769755--27769811 Score: 98
Period size: 21 Copynumber: 2.8 Consensus size: 21
27769745 CAGGACAAAA
27769755 AAGTATCGATACTTTTTGTCT
1 AAGTATCGATACTTTTTGTCT
27769776 AAGTATCGATACTTTTTGTCT
1 AAGTATCGATACTTTTTGTCT
*
27769797 AAGCATCGATA-TTTT
1 AAGTATCGATACTTTT
27769812 ACAAGATATC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
20 4 0.11
21 31 0.89
ACGTcount: A:0.26, C:0.14, G:0.14, T:0.46
Consensus pattern (21 bp):
AAGTATCGATACTTTTTGTCT
Found at i:27769912 original size:20 final size:20
Alignment explanation
Indices: 27769884--27769927 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
27769874 GTAAGTATCA
*
27769884 ATATTTTTCTTAAGGTACTG
1 ATATATTTCTTAAGGTACTG
*
27769904 ATATATTTCTTAAGGTATTG
1 ATATATTTCTTAAGGTACTG
27769924 ATAT
1 ATAT
27769928 TCCTGCTCCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.07, G:0.14, T:0.50
Consensus pattern (20 bp):
ATATATTTCTTAAGGTACTG
Found at i:27773968 original size:40 final size:40
Alignment explanation
Indices: 27773924--27774043 Score: 222
Period size: 40 Copynumber: 3.0 Consensus size: 40
27773914 AAAAATTAAT
27773924 TTGGTAGAAACCCATTCAAGCAAAACGAGAAAATGAAGAA
1 TTGGTAGAAACCCATTCAAGCAAAACGAGAAAATGAAGAA
27773964 TTGGTAGAAACCCATTCAAGCAAAACGAGAAAATGAAGAA
1 TTGGTAGAAACCCATTCAAGCAAAACGAGAAAATGAAGAA
* *
27774004 TTGGTAGAAATCCATTCAAGCAAAACGAGAAAACGAAGAA
1 TTGGTAGAAACCCATTCAAGCAAAACGAGAAAATGAAGAA
27774044 AGAAAGTGAA
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 78 1.00
ACGTcount: A:0.50, C:0.15, G:0.20, T:0.15
Consensus pattern (40 bp):
TTGGTAGAAACCCATTCAAGCAAAACGAGAAAATGAAGAA
Found at i:27774794 original size:19 final size:20
Alignment explanation
Indices: 27774751--27774794 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 20
27774741 GCCACACAGA
*
27774751 CATGTGTGAGGCCATATGGG
1 CATGTGTGAGGCCACATGGG
*
27774771 -TTGTGT-AGGCCACATGGG
1 CATGTGTGAGGCCACATGGG
27774789 CATGTG
1 CATGTG
27774795 GGCCCAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.18, C:0.16, G:0.39, T:0.27
Consensus pattern (20 bp):
CATGTGTGAGGCCACATGGG
Found at i:27776499 original size:56 final size:50
Alignment explanation
Indices: 27776431--27776621 Score: 161
Period size: 50 Copynumber: 3.7 Consensus size: 50
27776421 GGGAATGAGA
*
27776431 TCCCATGTAAGACCATGTTTAGGACATGGCATTGGCATCATTAAGATTATGAGAGG
1 TCCCATGTAAGACCATGTTTAGGACATGGCATTGGCA-C--T--GA-GATGAGAGG
* * *
27776487 TCCCATGTAAGACTATGTTTGGGACATGGCGTTGGCACTGAGATGAGAGG
1 TCCCATGTAAGACCATGTTTAGGACATGGCATTGGCACTGAGATGAGAGG
* * * * **
27776537 TCTCC-CGTAAGACCATGTCTAGGACATGGCA-TGAGCACCGATATGAGAAC
1 TC-CCATGTAAGACCATGTTTAGGACATGGCATTG-GCACTGAGATGAGAGG
* * * * *
27776587 TCCCATGTAAGATCATATATGGGATATGGCATTGG
1 TCCCATGTAAGACCATGTTTAGGACATGGCATTGG
27776622 TAGTGTACAG
Statistics
Matches: 112, Mismatches: 19, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
49 4 0.04
50 66 0.59
51 6 0.05
53 1 0.01
55 1 0.01
56 34 0.30
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.26
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTTTAGGACATGGCATTGGCACTGAGATGAGAGG
Found at i:27776920 original size:32 final size:32
Alignment explanation
Indices: 27776883--27776953 Score: 142
Period size: 32 Copynumber: 2.2 Consensus size: 32
27776873 TTAAGTAAGT
27776883 AAGTAAATGAGTAAGAGAGTAAGTACAGAAGG
1 AAGTAAATGAGTAAGAGAGTAAGTACAGAAGG
27776915 AAGTAAATGAGTAAGAGAGTAAGTACAGAAGG
1 AAGTAAATGAGTAAGAGAGTAAGTACAGAAGG
27776947 AAGTAAA
1 AAGTAAA
27776954 GAGCATGATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.52, C:0.03, G:0.30, T:0.15
Consensus pattern (32 bp):
AAGTAAATGAGTAAGAGAGTAAGTACAGAAGG
Found at i:27776935 original size:16 final size:16
Alignment explanation
Indices: 27776884--27776936 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
27776874 TAAGTAAGTA
27776884 AGTAAATGAGTAAGAG
1 AGTAAATGAGTAAGAG
* *
27776900 AGTAAGTACAG-AAG-G
1 AGTAAAT-GAGTAAGAG
27776915 AAGTAAATGAGTAAGAG
1 -AGTAAATGAGTAAGAG
27776932 AGTAA
1 AGTAA
27776937 GTACAGAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
15 3 0.10
16 23 0.79
17 3 0.10
ACGTcount: A:0.51, C:0.02, G:0.30, T:0.17
Consensus pattern (16 bp):
AGTAAATGAGTAAGAG
Found at i:27776951 original size:16 final size:16
Alignment explanation
Indices: 27776900--27776952 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
27776890 TGAGTAAGAG
27776900 AGTAAGTACAGAAGGA
1 AGTAAGTACAGAAGGA
* *
27776916 AGTAAAT-GAGTAA-GA
1 AGTAAGTACAG-AAGGA
27776931 GAGTAAGTACAGAAGGA
1 -AGTAAGTACAGAAGGA
27776948 AGTAA
1 AGTAA
27776953 AGAGCATGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
15 4 0.14
16 21 0.72
17 4 0.14
ACGTcount: A:0.51, C:0.04, G:0.30, T:0.15
Consensus pattern (16 bp):
AGTAAGTACAGAAGGA
Found at i:27783825 original size:13 final size:14
Alignment explanation
Indices: 27783802--27783839 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
27783792 TTCTTTATAT
27783802 ATTATATTATTTCA
1 ATTATATTATTTCA
27783816 ATTA-ATTATTTCA
1 ATTATATTATTTCA
*
27783829 AATATCATTAT
1 ATTAT-ATTAT
27783840 ATTTATACGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 12 0.57
14 4 0.19
15 5 0.24
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.53
Consensus pattern (14 bp):
ATTATATTATTTCA
Found at i:27790792 original size:11 final size:11
Alignment explanation
Indices: 27790776--27790822 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
27790766 TAATTTTTCA
27790776 TTGTTGTTTTG
1 TTGTTGTTTTG
27790787 TTGTTG-TTTG
1 TTGTTGTTTTG
* **
27790797 CTGTCATTTTG
1 TTGTTGTTTTG
*
27790808 ATGTTGTTTTG
1 TTGTTGTTTTG
27790819 TTGT
1 TTGT
27790823 CATTTTGCTT
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
10 7 0.25
11 21 0.75
ACGTcount: A:0.04, C:0.04, G:0.26, T:0.66
Consensus pattern (11 bp):
TTGTTGTTTTG
Found at i:27790806 original size:21 final size:22
Alignment explanation
Indices: 27790782--27790829 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
27790772 TTCATTGTTG
*
27790782 TTTTGTTGTTG-TTTGCTGTCA
1 TTTTGATGTTGTTTTGCTGTCA
*
27790803 TTTTGATGTTGTTTTGTTGTCA
1 TTTTGATGTTGTTTTGCTGTCA
27790825 TTTTG
1 TTTTG
27790830 CTTTTATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 10 0.42
22 14 0.58
ACGTcount: A:0.06, C:0.06, G:0.23, T:0.65
Consensus pattern (22 bp):
TTTTGATGTTGTTTTGCTGTCA
Found at i:27790841 original size:22 final size:22
Alignment explanation
Indices: 27790798--27790844 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
27790788 TGTTGTTTGC
* *
27790798 TGTCATTTTGATGTTGTTTTGT
1 TGTCATTTTGATGTTATATTGT
* *
27790820 TGTCATTTTGCTTTTATATTGT
1 TGTCATTTTGATGTTATATTGT
27790842 TGT
1 TGT
27790845 TATTATTTAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.11, C:0.06, G:0.19, T:0.64
Consensus pattern (22 bp):
TGTCATTTTGATGTTATATTGT
Found at i:27800417 original size:15 final size:15
Alignment explanation
Indices: 27800388--27800429 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
27800378 TTTGATAAAC
*
27800388 TGAAAAAA-AAATGT
1 TGAAAAAATAAGTGT
27800402 TGAAAAAATAAGTGT
1 TGAAAAAATAAGTGT
* *
27800417 TCAAAAATTAAGT
1 TGAAAAAATAAGT
27800430 TATAAAATTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
14 8 0.33
15 16 0.67
ACGTcount: A:0.57, C:0.02, G:0.14, T:0.26
Consensus pattern (15 bp):
TGAAAAAATAAGTGT
Found at i:27805121 original size:21 final size:21
Alignment explanation
Indices: 27805097--27805137 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
27805087 GAATTAAATG
27805097 AATATACATTTGAAGAATTAC
1 AATATACATTTGAAGAATTAC
* * *
27805118 AATATGCCTTTGATGAATTA
1 AATATACATTTGAAGAATTA
27805138 GCTATAGAGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.37
Consensus pattern (21 bp):
AATATACATTTGAAGAATTAC
Found at i:27806653 original size:13 final size:13
Alignment explanation
Indices: 27806637--27806662 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27806627 TCTAAATCGC
27806637 CTTCCAAAATCCT
1 CTTCCAAAATCCT
27806650 CTTCCAAAATCCT
1 CTTCCAAAATCCT
27806663 TGTTTCTCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.38, G:0.00, T:0.31
Consensus pattern (13 bp):
CTTCCAAAATCCT
Found at i:27808297 original size:15 final size:16
Alignment explanation
Indices: 27808260--27808301 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
27808250 AATGCATGTA
27808260 AAAATGAAAAAAATAT
1 AAAATGAAAAAAATAT
27808276 AATAATGAAAAAAATA-
1 AA-AATGAAAAAAATAT
*
27808292 CAAATGAAAA
1 AAAATGAAAA
27808302 GGAAAAACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 8 0.33
16 3 0.12
17 13 0.54
ACGTcount: A:0.74, C:0.02, G:0.07, T:0.17
Consensus pattern (16 bp):
AAAATGAAAAAAATAT
Found at i:27810782 original size:13 final size:13
Alignment explanation
Indices: 27810764--27810788 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27810754 TTACACGGCC
27810764 TGACACATGGGCT
1 TGACACATGGGCT
27810777 TGACACATGGGC
1 TGACACATGGGC
27810789 ATGTAGGGCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.24, G:0.32, T:0.20
Consensus pattern (13 bp):
TGACACATGGGCT
Found at i:27816761 original size:24 final size:24
Alignment explanation
Indices: 27816732--27816781 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
27816722 GTTTTTCACG
27816732 ACACGAACATGGGCATTTAATGAC
1 ACACGAACATGGGCATTTAATGAC
27816756 ACACGAACATGGGCATTTAATGAC
1 ACACGAACATGGGCATTTAATGAC
27816780 AC
1 AC
27816782 CAAAAAGGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.20
Consensus pattern (24 bp):
ACACGAACATGGGCATTTAATGAC
Found at i:27817917 original size:22 final size:22
Alignment explanation
Indices: 27817890--27817944 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
27817880 ATATGGGTTA
27817890 AAAACCCAAAACCAAGATAATT
1 AAAACCCAAAACCAAGATAATT
27817912 AAAACCCAAAACCAAGATAATT
1 AAAACCCAAAACCAAGATAATT
*
27817934 ACAACCCAAAA
1 AAAACCCAAAA
27817945 ACTTAGCCAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.60, C:0.25, G:0.04, T:0.11
Consensus pattern (22 bp):
AAAACCCAAAACCAAGATAATT
Found at i:27833353 original size:29 final size:29
Alignment explanation
Indices: 27833320--27833483 Score: 158
Period size: 29 Copynumber: 5.6 Consensus size: 29
27833310 GTCGTATTCG
* **
27833320 TCCCTTTTCATATTCGATGGCCGAAACCA
1 TCCCTTTTCATATTCGATGGTCGTCACCA
*
27833349 TCCCTTTTCATTAATCGATGGTCGTCACCA
1 TCCCTTTTCA-TATTCGATGGTCGTCACCA
27833379 TCCCCTTTT-ATAGTT-GATGGTCGTCACCA
1 T-CCCTTTTCATA-TTCGATGGTCGTCACCA
* * * *
27833408 TACCTTTTCATAATT-GATAG-C-TGAAGCTA
1 TCCCTTTTCAT-ATTCGATGGTCGT-CA-CCA
27833437 TCCCTTTTCATATTCGATGGTCGTCACCA
1 TCCCTTTTCATATTCGATGGTCGTCACCA
*
27833466 TCCCTTTTCATAATCGAT
1 TCCCTTTTCATATTCGAT
27833484 ACTGAAGCTA
Statistics
Matches: 111, Mismatches: 14, Indels: 20
0.77 0.10 0.14
Matches are distributed among these distances:
27 1 0.01
28 11 0.10
29 70 0.63
30 21 0.19
31 8 0.07
ACGTcount: A:0.22, C:0.27, G:0.13, T:0.37
Consensus pattern (29 bp):
TCCCTTTTCATATTCGATGGTCGTCACCA
Found at i:27833460 original size:58 final size:58
Alignment explanation
Indices: 27833320--27833504 Score: 209
Period size: 58 Copynumber: 3.2 Consensus size: 58
27833310 GTCGTATTCG
* ** * * *
27833320 TCCCTTTTCATATTCGATGGCCGAAACCATCCCTTTTCATTAATCGAT-GGTCGTCA-CCA
1 TCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCA-TAATCGATAGCT-G-AAGCTA
* *
27833379 TCCCCTTTT-ATAGTT-GATGGTCGTCACCATACCTTTTCATAATTGATAGCTGAAGCTA
1 T-CCCTTTTCATA-TTCGATGGTCGTCACCATCCCTTTTCATAATCGATAGCTGAAGCTA
27833437 TCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATAATCGATA-CTGAAGCTA
1 TCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATAATCGATAGCTGAAGCTA
*
27833494 TCCTTTTTCAT
1 TCCCTTTTCAT
27833505 GTTCAATGAT
Statistics
Matches: 109, Mismatches: 11, Indels: 14
0.81 0.08 0.10
Matches are distributed among these distances:
57 29 0.27
58 45 0.41
59 26 0.24
60 9 0.08
ACGTcount: A:0.22, C:0.27, G:0.13, T:0.38
Consensus pattern (58 bp):
TCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATAATCGATAGCTGAAGCTA
Found at i:27838162 original size:14 final size:15
Alignment explanation
Indices: 27838143--27838186 Score: 65
Period size: 14 Copynumber: 3.1 Consensus size: 15
27838133 ACATCTTTCG
27838143 TTCTCTTTTCCT-CT
1 TTCTCTTTTCCTGCT
27838157 TTCTCTTTTCCTGCT
1 TTCTCTTTTCCTGCT
*
27838172 TT-TCTTTTCTTGCT
1 TTCTCTTTTCCTGCT
27838186 T
1 T
27838187 CATACCTACA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
14 24 0.86
15 4 0.14
ACGTcount: A:0.00, C:0.30, G:0.05, T:0.66
Consensus pattern (15 bp):
TTCTCTTTTCCTGCT
Found at i:27846252 original size:16 final size:16
Alignment explanation
Indices: 27846205--27846254 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 16
27846195 AAAAAAGTGT
*
27846205 TAAAAAAGTACAAAAAA
1 TAAAAAA-TAAAAAAAA
*
27846222 TATAAAATACGAAAAAAA
1 TAAAAAATA--AAAAAAA
27846240 TAAAAAATAAAAAAA
1 TAAAAAATAAAAAAA
27846255 GTATTCAGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
16 8 0.29
17 6 0.21
18 14 0.50
ACGTcount: A:0.78, C:0.04, G:0.04, T:0.14
Consensus pattern (16 bp):
TAAAAAATAAAAAAAA
Found at i:27847608 original size:8 final size:8
Alignment explanation
Indices: 27847597--27847621 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
27847587 TAAAATATGA
27847597 AAAAAAAT
1 AAAAAAAT
27847605 AAAAAAAT
1 AAAAAAAT
27847613 AAAAAAAT
1 AAAAAAAT
27847621 A
1 A
27847622 TTCTGTGGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAAAAAT
Found at i:27849100 original size:34 final size:34
Alignment explanation
Indices: 27849026--27849089 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
27849016 CAATGCCAGC
* **
27849026 AATCAGTAGGGCCTTTGCCCAATTTTAGTAATAG
1 AATCAGTAGGGCCTTGGCCCAATAATAGTAATAG
27849060 AATCAGTAGGGCCTTGGCCC-ATAATAGTAA
1 AATCAGTAGGGCCTTGGCCCAATAATAGTAA
27849090 CTTATATCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
33 8 0.30
34 19 0.70
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (34 bp):
AATCAGTAGGGCCTTGGCCCAATAATAGTAATAG
Found at i:27849846 original size:27 final size:27
Alignment explanation
Indices: 27849562--27849839 Score: 331
Period size: 27 Copynumber: 10.3 Consensus size: 27
27849552 GGGTACAATA
*
27849562 GTCATTTTACCTTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
27849589 GTCATTTTACCCTATGGGGTTCTTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
27849616 GTCATTCTACCTTATAGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
27849643 GTTATTTTACACTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
27849670 ATCATTTTACCCTATCGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
27849697 GGCAGTTTACCCTATGGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * *
27849724 ATTATTTTACCCTATAGGGATATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * **
27849751 GTCATTTTATCTTATGGGGGTATTTTA
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
27849778 GTTATTTTATCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
27849805 GTCATTTTACCCTATAGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
27849832 GTTATTTT
1 GTCATTTT
27849840 TACCTATTTT
Statistics
Matches: 206, Mismatches: 45, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 206 1.00
ACGTcount: A:0.17, C:0.15, G:0.23, T:0.45
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:27852149 original size:26 final size:27
Alignment explanation
Indices: 27852115--27852168 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 27
27852105 TGAGTTAATA
*
27852115 AATTCTCTCTGGATTTTTCTTTTT-AAG
1 AATTCTCTCTGGA-GTTTCTTTTTGAAG
*
27852142 AATT-TCTCTTGAGTTTCTTTTTGAAG
1 AATTCTCTCTGGAGTTTCTTTTTGAAG
27852168 A
1 A
27852169 GTTTTAACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 9 0.38
26 11 0.46
27 4 0.17
ACGTcount: A:0.20, C:0.13, G:0.13, T:0.54
Consensus pattern (27 bp):
AATTCTCTCTGGAGTTTCTTTTTGAAG
Found at i:27852771 original size:16 final size:15
Alignment explanation
Indices: 27852752--27852786 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
27852742 AGAGATTAAA
27852752 AAAAGTACAAAAAAAT
1 AAAA-TACAAAAAAAT
*
27852768 AAAATACGAAAAAAT
1 AAAATACAAAAAAAT
27852783 AAAA
1 AAAA
27852787 AATATTATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.77, C:0.06, G:0.06, T:0.11
Consensus pattern (15 bp):
AAAATACAAAAAAAT
Found at i:27853248 original size:11 final size:11
Alignment explanation
Indices: 27853234--27853259 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
27853224 ATTTTTCAAA
27853234 TATTATTATTT
1 TATTATTATTT
27853245 TATTATTATTT
1 TATTATTATTT
27853256 TATT
1 TATT
27853260 CTAAATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
TATTATTATTT
Found at i:27864020 original size:17 final size:18
Alignment explanation
Indices: 27863998--27864031 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
27863988 AAATACGAAG
27863998 ATTAAAAAGTCT-AAAAA
1 ATTAAAAAGTCTGAAAAA
*
27864015 ATTAAACAGTCTGAAAA
1 ATTAAAAAGTCTGAAAA
27864032 GTCCATTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.59, C:0.09, G:0.09, T:0.24
Consensus pattern (18 bp):
ATTAAAAAGTCTGAAAAA
Found at i:27871339 original size:10 final size:10
Alignment explanation
Indices: 27871312--27871342 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
27871302 AATTTTATAG
27871312 TTATTTTTGA
1 TTATTTTTGA
*
27871322 TTAATTTTGA
1 TTATTTTTGA
27871332 TTATTTTTGA
1 TTATTTTTGA
27871342 T
1 T
27871343 AGATTTCCAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.68
Consensus pattern (10 bp):
TTATTTTTGA
Found at i:27875024 original size:16 final size:17
Alignment explanation
Indices: 27875003--27875035 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
27874993 CAACACGGAG
27875003 ATTAAA-AATCCCAAAA
1 ATTAAACAATCCCAAAA
*
27875019 ATTAAACAATCTCAAAA
1 ATTAAACAATCCCAAAA
27875036 GTCCATTTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.61, C:0.18, G:0.00, T:0.21
Consensus pattern (17 bp):
ATTAAACAATCCCAAAA
Found at i:27878853 original size:22 final size:22
Alignment explanation
Indices: 27878817--27878858 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
27878807 CTAAGAGCCG
* *
27878817 TAAACAGGATAGTTATAAGCTA
1 TAAACAGAATAGTTACAAGCTA
*
27878839 TAAACAGAATGGTTACAAGC
1 TAAACAGAATAGTTACAAGC
27878859 CATATGTACT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.45, C:0.12, G:0.19, T:0.24
Consensus pattern (22 bp):
TAAACAGAATAGTTACAAGCTA
Found at i:27878942 original size:32 final size:32
Alignment explanation
Indices: 27878875--27879025 Score: 182
Period size: 32 Copynumber: 4.7 Consensus size: 32
27878865 TACTGTAATG
* *
27878875 TGATTGGCACAAAGCCATCAGTAGA-AGTGA-TA
1 TGATCGGCACAAAGCCATCAGTA-ACGGT-ACTA
*
27878907 TGATCGGCACACAGCCATCAGTAACGGTAAC-A
1 TGATCGGCACAAAGCCATCAGTAACGGT-ACTA
* *
27878939 TGATCGGTACAAAGCCATTAGTAACGGTACTA
1 TGATCGGCACAAAGCCATCAGTAACGGTACTA
*
27878971 TGACCGGCACAAAGCCATCAGTAACGGTACTA
1 TGATCGGCACAAAGCCATCAGTAACGGTACTA
* *
27879003 TGACCGACACAAAGCCATCAGTA
1 TGATCGGCACAAAGCCATCAGTA
27879026 GCATCGCAGC
Statistics
Matches: 105, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
31 3 0.03
32 102 0.97
ACGTcount: A:0.36, C:0.24, G:0.22, T:0.19
Consensus pattern (32 bp):
TGATCGGCACAAAGCCATCAGTAACGGTACTA
Found at i:27879080 original size:26 final size:26
Alignment explanation
Indices: 27879028--27879081 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
27879018 CATCAGTAGC
* *
27879028 ATCGCAGCAAAGCTGCTAGCAACAGT
1 ATCGCAGCAAAGCTACCAGCAACAGT
* *
27879054 ATCGCAGCAAAGCTACCAGTAATAGT
1 ATCGCAGCAAAGCTACCAGCAACAGT
27879080 AT
1 AT
27879082 ATGTGGCCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.19
Consensus pattern (26 bp):
ATCGCAGCAAAGCTACCAGCAACAGT
Found at i:27879564 original size:27 final size:27
Alignment explanation
Indices: 27879295--27879680 Score: 307
Period size: 27 Copynumber: 14.3 Consensus size: 27
27879285 CCACCAGGGC
* *
27879295 ATTACGGTCATTTTACCGTATAGGAGT
1 ATTACGGTCATTTTACCCTATAGGGGT
** *
27879322 ATTACGGTCATTTTACTTTATAGGGGC
1 ATTACGGTCATTTTACCCTATAGGGGT
*
27879349 ATTACGATCATTTTACCCTATAGGGGT
1 ATTACGGTCATTTTACCCTATAGGGGT
* * **
27879376 ATTACGATCATTTTACCCTACAAAGGT
1 ATTACGGTCATTTTACCCTATAGGGGT
* *
27879403 ATTACGATCATTTTACCCTATAGGGGA
1 ATTACGGTCATTTTACCCTATAGGGGT
* * *
27879430 ATTACGGTCATTTTACCTTATAGGTGC
1 ATTACGGTCATTTTACCCTATAGGGGT
*
27879457 ATTACGGTCATTTTACCCTACTA-GGGC
1 ATTACGGTCATTTTACCCTA-TAGGGGT
* * * *
27879484 ATTACGGTCATTTTATCTTACAGGGGC
1 ATTACGGTCATTTTACCCTATAGGGGT
* * *
27879511 ATTACAGTCATTTTACCTTACAGGGGT
1 ATTACGGTCATTTTACCCTATAGGGGT
** *
27879538 ATTATAGTCATTTTACCCTATGGGGGT
1 ATTACGGTCATTTTACCCTATAGGGGT
* * * * * * *
27879565 ATTTCGAT-ATTCTATCGTA-CGAGTGT
1 ATTACGGTCATTTTACCCTATAG-GGGT
* * *
27879591 ATTTCGGTCATTTTACGCTAT-GGGAGA
1 ATTACGGTCATTTTACCCTATAGGG-GT
* * *
27879618 ATTTCAGTCATTTTACCC-ATCGAGGGT
1 ATTACGGTCATTTTACCCTATAG-GGGT
* *
27879645 ATTTCGATCATTTTACCC-ATAGAGGGT
1 ATTACGGTCATTTTACCCTATAG-GGGT
*
27879672 ATTTCGGTC
1 ATTACGGTC
27879681 CAAATATCGA
Statistics
Matches: 297, Mismatches: 54, Indels: 16
0.81 0.15 0.04
Matches are distributed among these distances:
25 1 0.00
26 22 0.07
27 270 0.91
28 4 0.01
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (27 bp):
ATTACGGTCATTTTACCCTATAGGGGT
Found at i:27885188 original size:39 final size:39
Alignment explanation
Indices: 27885144--27885365 Score: 224
Period size: 39 Copynumber: 5.6 Consensus size: 39
27885134 GCTCCTCGTT
*
27885144 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAATTCGCA
* * *
27885184 -AAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAATTCGCA
*
27885223 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAAT-TCGCA
*
27885262 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAAT-TCGCA
* * * *
27885301 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGG-TATAGT-AATTCGCA
27885342 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
27885366 ACATCATTCA
Statistics
Matches: 158, Mismatches: 15, Indels: 18
0.83 0.08 0.09
Matches are distributed among these distances:
38 3 0.02
39 102 0.65
40 40 0.25
41 12 0.08
42 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAATTCGCA
Found at i:27885270 original size:79 final size:80
Alignment explanation
Indices: 27885144--27885366 Score: 271
Period size: 78 Copynumber: 2.8 Consensus size: 80
27885134 GCTCCTCGTT
* * *
27885144 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAAT-TCGCA-AAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGG-CTTAGCCCGGATATAGTAATCTCGCACAAATGCCTTCGGGACTTAGCCCG
*
27885207 GATTTAGTAACTCGCA
65 GAATTAGTAACTCGCA
27885223 CAAATGCCTTCGGGCTTAGCCCGGA-ATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCG
1 CAAATGCCTTCGGGCTTAGCCCGGATA-TAGTAATCTCGCACAAATGCCTTCGGGACTTAGCCCG
*
27885285 GAATTAGTATCTCGCA
65 GAATTAGTAACTCGCA
* * * * *
27885301 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCA-CTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGG-GCTTAGCCCGGATATAGTAATC-TCGCACAAATGCCTTCGGGACTTAGCCC
27885364 GGA
64 GGA
27885367 CATCATTCAA
Statistics
Matches: 127, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
77 3 0.02
78 53 0.42
79 50 0.39
80 21 0.17
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATAGTAATCTCGCACAAATGCCTTCGGGACTTAGCCCGG
AATTAGTAACTCGCA
Found at i:27893159 original size:79 final size:78
Alignment explanation
Indices: 27893057--27893280 Score: 281
Period size: 79 Copynumber: 2.8 Consensus size: 78
27893047 GCTCCTCGTT
* *
27893057 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
27893122 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
* *
27893137 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
*
27893201 ATTAGTATCTCGCA
65 ATTAGTAACTCGCA
* * * * *
27893215 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
27893279 GA
63 GA
27893281 CATCATTCAA
Statistics
Matches: 126, Mismatches: 13, Indels: 10
0.85 0.09 0.07
Matches are distributed among these distances:
78 36 0.29
79 56 0.44
80 34 0.27
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:27893174 original size:39 final size:40
Alignment explanation
Indices: 27893057--27893280 Score: 280
Period size: 40 Copynumber: 5.7 Consensus size: 40
27893047 GCTCCTCGTT
* *
27893057 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
27893097 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
27893137 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
27893176 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * * *
27893215 CAAATGCCTTC-GGATCTTAGTCCGG-ATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCA
27893256 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
27893281 CATCATTCAA
Statistics
Matches: 166, Mismatches: 11, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
38 2 0.01
39 74 0.45
40 77 0.46
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:27896494 original size:21 final size:21
Alignment explanation
Indices: 27896452--27896494 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
27896442 CACTACTCTG
**
27896452 TTTCTAGTTGTACGACTGCAT
1 TTTCTAGTTGTACGACCACAT
27896473 TTTCTAGTTGGTA-GACCACAT
1 TTTCTAGTT-GTACGACCACAT
27896494 T
1 T
27896495 ATTGGTGTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.42
Consensus pattern (21 bp):
TTTCTAGTTGTACGACCACAT
Found at i:27896884 original size:4 final size:4
Alignment explanation
Indices: 27896875--27896905 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
27896865 TGGAACTTTG
27896875 GTTT GTTT GTTT GTTT GTTT GTTT -TTT GTTT
1 GTTT GTTT GTTT GTTT GTTT GTTT GTTT GTTT
27896906 TGAGACTTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.00, C:0.00, G:0.23, T:0.77
Consensus pattern (4 bp):
GTTT
Found at i:27900948 original size:6 final size:6
Alignment explanation
Indices: 27900937--27900970 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
27900927 CAATTAACAT
27900937 ATATAC ATATAC ATATAC ATATAC ATATAC ATAT
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATAT
27900971 TTTTCATTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (6 bp):
ATATAC
Found at i:27902178 original size:32 final size:32
Alignment explanation
Indices: 27902111--27902187 Score: 100
Period size: 32 Copynumber: 2.4 Consensus size: 32
27902101 GTATAATCGG
* *
27902111 TGGTGGTGTAAGGTGGTGGCCATAGTGGTGAT
1 TGGTGGTGTAAGGTGGTGGCCACAGCGGTGAT
* * * *
27902143 TGGTAGTGCAAGGTGGTGGCCACGGCGGTGGT
1 TGGTGGTGTAAGGTGGTGGCCACAGCGGTGAT
27902175 TGGTGGTGTAAGG
1 TGGTGGTGTAAGG
27902188 GTCGACGTTC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.14, C:0.09, G:0.49, T:0.27
Consensus pattern (32 bp):
TGGTGGTGTAAGGTGGTGGCCACAGCGGTGAT
Found at i:27905002 original size:27 final size:27
Alignment explanation
Indices: 27904971--27905023 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
27904961 TATCGCAGCA
* *
27904971 AAGCTACCCGTAATAGT-ATATGTGGCC
1 AAGCTACCAGTAACAGTGAT-TGTGGCC
27904998 AAGCTACCAGTAACAGTGATTGTGGC
1 AAGCTACCAGTAACAGTGATTGTGGC
27905024 AGAGCCACTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 21 0.91
28 2 0.09
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.25
Consensus pattern (27 bp):
AAGCTACCAGTAACAGTGATTGTGGCC
Found at i:27905151 original size:24 final size:24
Alignment explanation
Indices: 27905115--27905178 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 24
27905105 AATTAATCAT
*
27905115 ACAAATCAGTCATTTAAATCATAGA
1 ACAAATCAATCATTTAAATCA-AGA
** *
27905140 A-AAATCAATCATTTGCATCACGA
1 ACAAATCAATCATTTAAATCAAGA
27905163 ACAAATCAATCATTTA
1 ACAAATCAATCATTTA
27905179 CACTCGAGGG
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
23 3 0.09
24 29 0.88
25 1 0.03
ACGTcount: A:0.47, C:0.19, G:0.06, T:0.28
Consensus pattern (24 bp):
ACAAATCAATCATTTAAATCAAGA
Found at i:27905254 original size:27 final size:27
Alignment explanation
Indices: 27905224--27905489 Score: 191
Period size: 27 Copynumber: 9.9 Consensus size: 27
27905214 GGCATTACGA
*
27905224 TCATTTTA-CCTTACAAGGGTATTTTGG
1 TCATTTTACCCTT-CGAGGGTATTTTGG
* * * **
27905251 TCATTTAACCCTAT-GGGGGTCTTAAGG
1 TCATTTTACCCT-TCGAGGGTATTTTGG
* * * *
27905278 TCATTTTACCTTATGGGGGGT-TTTTAG
1 TCATTTTACCCT-TCGAGGGTATTTTGG
* ***
27905305 TTATTTTACCCTTCGAGGGTATTTCAA
1 TCATTTTACCCTTCGAGGGTATTTTGG
* * *
27905332 TCATTTTACCCTTCAAGGGTATTTCGA
1 TCATTTTACCCTTCGAGGGTATTTTGG
* *
27905359 TTATTTTACCCTTCG-GGAATATTTTGG
1 TCATTTTACCCTTCGAGG-GTATTTTGG
*
27905386 TCATTTTACCCTTCGAGGGTATTTTAG
1 TCATTTTACCCTTCGAGGGTATTTTGG
* * * *
27905413 TAAATTTT-CCCTTCTAGGGTATTTCGA
1 T-CATTTTACCCTTCGAGGGTATTTTGG
* * *
27905440 TAATTTTACCCTTCGAGGGTATTTCGA
1 TCATTTTACCCTTCGAGGGTATTTTGG
* *
27905467 TAATTTTACCCTTCGGGGGTATT
1 TCATTTTACCCTTCGAGGGTATT
27905490 ACTATCATTT
Statistics
Matches: 196, Mismatches: 35, Indels: 16
0.79 0.14 0.06
Matches are distributed among these distances:
26 14 0.07
27 165 0.84
28 16 0.08
29 1 0.01
ACGTcount: A:0.20, C:0.17, G:0.19, T:0.43
Consensus pattern (27 bp):
TCATTTTACCCTTCGAGGGTATTTTGG
Found at i:27905365 original size:81 final size:80
Alignment explanation
Indices: 27905293--27905501 Score: 240
Period size: 81 Copynumber: 2.6 Consensus size: 80
27905283 TTACCTTATG
*
27905293 GGGGGTTTTTAGTTATTTTACCCTTCGAGGGTATTTCAATCATTTTACCCTTCAAGGGTATTTCG
1 GGGGGTTTTTAGTAATTTTACCCTTCGAGGGTATTTCAATCATTTTACCCTTCAAGGGTATTTCG
*
27905358 ATTATTTTACCCTTC
66 ATAATTTTACCCTTC
** * * * * * *
27905373 GGGAATATTTTGGTCATTTTACCCTTCGAGGGTATTTTAGTAAATTTT-CCCTTCTAGGGTATTT
1 GGGGGT-TTTTAGTAATTTTACCCTTCGAGGGTATTTCAAT-CATTTTACCCTTCAAGGGTATTT
27905437 CGATAATTTTACCCTTC
64 CGATAATTTTACCCTTC
* * * * * *
27905454 GAGGGTATTTCGATAATTTTACCCTTCGGGGGTATTACTATCATTTTA
1 GGGGGTTTTTAG-TAATTTTACCCTTCGAGGGTATTTCAATCATTTTA
27905502 GAAATATTGG
Statistics
Matches: 104, Mismatches: 21, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
80 13 0.12
81 86 0.83
82 5 0.05
ACGTcount: A:0.21, C:0.17, G:0.18, T:0.44
Consensus pattern (80 bp):
GGGGGTTTTTAGTAATTTTACCCTTCGAGGGTATTTCAATCATTTTACCCTTCAAGGGTATTTCG
ATAATTTTACCCTTC
Found at i:27905501 original size:27 final size:27
Alignment explanation
Indices: 27905307--27905489 Score: 219
Period size: 27 Copynumber: 6.8 Consensus size: 27
27905297 GTTTTTAGTT
* *
27905307 ATTTTACCCTTCGAGGGTATTTCAATC
1 ATTTTACCCTTCGAGGGTATTTCGATA
* *
27905334 ATTTTACCCTTCAAGGGTATTTCGATT
1 ATTTTACCCTTCGAGGGTATTTCGATA
* * * *
27905361 ATTTTACCCTTCG-GGAATATTTTGGTC
1 ATTTTACCCTTCGAGG-GTATTTCGATA
*
27905388 ATTTTACCCTTCGAGGGTATTT-TAGTAA
1 ATTTTACCCTTCGAGGGTATTTCGA-T-A
*
27905416 ATTTT-CCCTTCTAGGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGATA
27905442 ATTTTACCCTTCGAGGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGATA
*
27905469 ATTTTACCCTTCGGGGGTATT
1 ATTTTACCCTTCGAGGGTATT
27905490 ACTATCATTT
Statistics
Matches: 134, Mismatches: 16, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
26 8 0.06
27 118 0.88
28 8 0.06
ACGTcount: A:0.21, C:0.19, G:0.17, T:0.43
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTTCGATA
Found at i:27907603 original size:15 final size:16
Alignment explanation
Indices: 27907585--27907615 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
27907575 TTATATCATC
27907585 TCATAATCT-AAGTTT
1 TCATAATCTAAAGTTT
27907600 TCATAATCTAAAGTTT
1 TCATAATCTAAAGTTT
27907616 CAAGAATTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.35, C:0.13, G:0.06, T:0.45
Consensus pattern (16 bp):
TCATAATCTAAAGTTT
Found at i:27910476 original size:13 final size:13
Alignment explanation
Indices: 27910458--27910489 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
27910448 CGTGTGTAAC
27910458 ACATGGCCAGGCG
1 ACATGGCCAGGCG
*
27910471 ACATGGCTAGGCG
1 ACATGGCCAGGCG
27910484 ACATGG
1 ACATGG
27910490 TCTTGTGTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.25, C:0.25, G:0.38, T:0.12
Consensus pattern (13 bp):
ACATGGCCAGGCG
Found at i:27912646 original size:16 final size:16
Alignment explanation
Indices: 27912625--27912655 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
27912615 TTCTTTGTGT
27912625 TTTTCTATTTTCTTTA
1 TTTTCTATTTTCTTTA
*
27912641 TTTTCTTTTTTCTTT
1 TTTTCTATTTTCTTT
27912656 TTCCTTCTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.06, C:0.13, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTCTATTTTCTTTA
Found at i:27912666 original size:22 final size:23
Alignment explanation
Indices: 27912624--27912671 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
27912614 TTTCTTTGTG
*
27912624 TTTTTCTATTTTCTTTATTTTCT
1 TTTTTCTATTTTCCTTATTTTCT
* *
27912647 TTTTTCT-TTTTCCTTCTTTTGT
1 TTTTTCTATTTTCCTTATTTTCT
27912669 TTT
1 TTT
27912672 GGTTCTTGTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.04, C:0.15, G:0.02, T:0.79
Consensus pattern (23 bp):
TTTTTCTATTTTCCTTATTTTCT
Found at i:27919174 original size:14 final size:14
Alignment explanation
Indices: 27919155--27919182 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
27919145 TAAAGTTATA
27919155 TTTAATAATTCATT
1 TTTAATAATTCATT
27919169 TTTAATAATTCATT
1 TTTAATAATTCATT
27919183 AATAAATTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTAATAATTCATT
Found at i:27919655 original size:19 final size:19
Alignment explanation
Indices: 27919633--27919670 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
27919623 TCAATCATCC
27919633 CTCATCCCATCA-TCTCTCA
1 CTCAT-CCATCATTCTCTCA
*
27919652 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
27919671 ACTCTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:27924994 original size:3 final size:3
Alignment explanation
Indices: 27924982--27925060 Score: 65
Period size: 3 Copynumber: 27.3 Consensus size: 3
27924972 CTTTTTCAGC
* * * * * *
27924982 TAT T-T TAT TAT TAT TAT TTT TTT TAG TGT TAT TAT TAT AAT TA- TGT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
27925028 TA- TAC TAT CAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
27925061 TCTATATTCA
Statistics
Matches: 60, Mismatches: 13, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
2 5 0.08
3 55 0.92
ACGTcount: A:0.29, C:0.03, G:0.04, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:27925166 original size:26 final size:27
Alignment explanation
Indices: 27925076--27925166 Score: 109
Period size: 27 Copynumber: 3.4 Consensus size: 27
27925066 ATTCATTCAC
*
27925076 ATGCA-TTATTTTTATATAATATATAT
1 ATGCACTTTTTTTTATATAATATATAT
27925102 ATGCACTTTCTTTTT-TAT-ATAGTATAT
1 ATGCACTTT-TTTTTATATAATA-TATAT
*
27925129 ACGCACTGTTTTTTTATATAATATATAT
1 ATGCACT-TTTTTTTATATAATATATAT
27925157 ATGCA-TTTTT
1 ATGCACTTTTT
27925167 AGTACCTGTC
Statistics
Matches: 56, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
26 12 0.21
27 22 0.39
28 19 0.34
29 3 0.05
ACGTcount: A:0.31, C:0.09, G:0.07, T:0.54
Consensus pattern (27 bp):
ATGCACTTTTTTTTATATAATATATAT
Found at i:27932659 original size:18 final size:18
Alignment explanation
Indices: 27932636--27932685 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
27932626 AATCGTGTCG
27932636 TTCATTTTCAAAACATTA
1 TTCATTTTCAAAACATTA
* * *
27932654 TTCATTTACAAATCGTTA
1 TTCATTTTCAAAACATTA
*
27932672 TTCAATTTCAAAAC
1 TTCATTTTCAAAAC
27932686 GTTTTTTATT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.38, C:0.18, G:0.02, T:0.42
Consensus pattern (18 bp):
TTCATTTTCAAAACATTA
Found at i:27942272 original size:85 final size:85
Alignment explanation
Indices: 27942163--27942421 Score: 315
Period size: 85 Copynumber: 3.0 Consensus size: 85
27942153 TAAAAGTAAA
* * * * *
27942163 TAAAATCCATTTCGGGATTAATTCCCGCCGTTCAATGGATTTTAATCCATTATTTTGATTTTATT
1 TAAAATTCGTTTCGGGATTTATTCCCGCCGTTCAACGGATTTTAATCTATTATTTTGATTTTATT
27942228 TCCAAGA-GGGAAATTAAAGG
66 TCCAA-ACGGGAAATTAAAGG
* * *
27942248 TAAAATTCGTTTCGAGATTTATTCCCACCGTTCAACGGATTGTAATCTATTATTTTGATTTTATT
1 TAAAATTCGTTTCGGGATTTATTCCCGCCGTTCAACGGATTTTAATCTATTATTTTGATTTTATT
*
27942313 TCCAAATGGGAAATTAAAGG
66 TCCAAACGGGAAATTAAAGG
*** * ** * *
27942333 TAAAA-TCTGTTTCGGGATTTATTTTTGTCGTTCAACAAATTTTATTCTATTATTTTTATTTTAT
1 TAAAATTC-GTTTCGGGATTTATTCCCGCCGTTCAACGGATTTTAATCTATTATTTTGATTTTAT
* *
27942397 TTCCAAACAGGAAAGTAAAGG
65 TTCCAAACGGGAAATTAAAGG
27942418 TAAA
1 TAAA
27942422 TAAAATCCAT
Statistics
Matches: 150, Mismatches: 22, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
84 3 0.02
85 147 0.98
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.41
Consensus pattern (85 bp):
TAAAATTCGTTTCGGGATTTATTCCCGCCGTTCAACGGATTTTAATCTATTATTTTGATTTTATT
TCCAAACGGGAAATTAAAGG
Found at i:27942659 original size:78 final size:77
Alignment explanation
Indices: 27942417--27942651 Score: 278
Period size: 78 Copynumber: 3.0 Consensus size: 77
27942407 GAAAGTAAAG
* * **
27942417 GTAAATAAAATCCATTTTGGCATTGATTCCTACCATTCAACGATTTTATTCCAA-TTT-TTTTAT
1 GTAAATAAAATCCGTTTTGGGATTGATTCCCGCCATTCAACGATTTTATTCCAATTTTGTTTTAT
* *
27942480 TTCCAAAAGCAA
66 TTCCAAAAACGA
* ** * * *
27942492 GTAAAATAAAATCTGTTTCAGGATTGATTCCCGCCGTTCAA-TATTTTTATTTCAAATTTTGTTT
1 GT-AAATAAAATCCGTTTTGGGATTGATTCCCGCCATTCAACGA-TTTTA-TTCCAATTTTGTTT
*
27942556 TATTTCCAAAAATGA
63 TATTTCCAAAAACGA
*
27942571 GTAAATAAAATCCGTTTTGGGATTGATTCCCGTCATTCAACGATTTTATTCCAATTTTGATTTTA
1 GTAAATAAAATCCGTTTTGGGATTGATTCCCGCCATTCAACGATTTTATTCCAATTTTG-TTTTA
*
27942636 TTTCCAAAACCGA
65 TTTCCAAAAACGA
27942649 GTA
1 GTA
27942652 TTAAAAATAA
Statistics
Matches: 131, Mismatches: 22, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
75 3 0.02
76 35 0.27
77 15 0.11
78 60 0.46
79 18 0.14
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.41
Consensus pattern (77 bp):
GTAAATAAAATCCGTTTTGGGATTGATTCCCGCCATTCAACGATTTTATTCCAATTTTGTTTTAT
TTCCAAAAACGA
Found at i:27942831 original size:84 final size:84
Alignment explanation
Indices: 27942659--27942963 Score: 306
Period size: 84 Copynumber: 3.7 Consensus size: 84
27942649 GTATTAAAAA
* * * *
27942659 TAAATTAAAATCTATTACGAGATTTATTCTCGTCGTTCAAC-AGA-TTTATTACATTTTGATTTT
1 TAAA-TAAAATCTATTTCGAGATTTATTCTCGCCGTTTAACAAGATTTTATTTCATTTTG-TTTT
*
27942722 GTTGCTAAA--A-AATGAGAAAT
64 GTTTCTAAATTAGAAT-AG-AAT
* * * *
27942742 TAAATAAAATCTGTTTCAAGATTTATTCTCGCCATTTAACAAGATTTTATTTGATTTTGTTTTGT
1 TAAATAAAATCTATTTCGAGATTTATTCTCGCCGTTTAACAAGATTTTATTTCATTTTGTTTTGT
27942807 TTCTAAATTAGAATAGAAT
66 TTCTAAATTAGAATAGAAT
* * * * *
27942826 TAAATAAAATTTGTTTCGGGATTTATT-TCCGCCGTTTAACAAGATTTTATTTTATTTTATTTTG
1 TAAATAAAATCTATTTCGAGATTTATTCT-CGCCGTTTAACAAGATTTTATTTCATTTTGTTTTG
* *
27942890 TTTCCAAATTCGAATTA-AAT
65 TTTCTAAATTAGAA-TAGAAT
* * * *
27942910 TAAATAAAATCTATTTTGAGATTTATTCCCACCGTTTAA-TAGATTTT-TTT-ATTT
1 TAAATAAAATCTATTTCGAGATTTATTCTCGCCGTTTAACAAGATTTTATTTCATTT
27942964 AATGATATAA
Statistics
Matches: 190, Mismatches: 24, Indels: 18
0.82 0.10 0.08
Matches are distributed among these distances:
81 4 0.02
82 33 0.17
83 27 0.14
84 118 0.62
85 5 0.03
86 3 0.02
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.46
Consensus pattern (84 bp):
TAAATAAAATCTATTTCGAGATTTATTCTCGCCGTTTAACAAGATTTTATTTCATTTTGTTTTGT
TTCTAAATTAGAATAGAAT
Found at i:27955862 original size:328 final size:327
Alignment explanation
Indices: 27955262--27955897 Score: 930
Period size: 328 Copynumber: 1.9 Consensus size: 327
27955252 GTTATAGTTT
*
27955262 AACTAAACTTACATTACATATTTAAATAAATAATTTATGACATTATTTTTATCAAATAAAATATT
1 AACTAAACTTACATTACATATTTAAATAAATAATTTATGACAATATTTTTATCAAATAAAATATT
* *
27955327 GAATTATAAAATATATAAAAAAATTATAAATTGTTTAAATTTATTTATGAAATCAATTATCAAAT
66 GAATTACAAAATATATAAAAAAATTATAAATTATTTAAATTTATTTATGAAATCAATTATCAAAT
* ** *
27955392 TTAATTTATACAAAAAATTAAAATAATTATAAAATATTTTAATTGATATATACAATTTAAACTTG
131 TTAATTTATACAAAAAATTAAAATAATTATAAAATATTTTAATTAATATATACAATCCAAAC-TA
*
27955457 TAAAACAAGTAAAAAATAAAATAAAAATCTTTGGTTAAACTGGAAAACCAAGAAAAAGAATAACA
195 TAAAACAAGTAAAAAATAAAATAAAAATCTTTGGTCAAACTGGAAAACCAAGAAAAAGAATAACA
* * * *
27955522 TATGTTTTGATAGAAAGCTTACGTGAGGCATGACGTTTAGTTGGACAATTATGCCGTGGTATGTG
260 CATGTCTTGATAGAAAGCTTACGTCAGCCATGACGTTTAGTTGGACAATTATGCCGTGGTATGTG
27955587 TTC
325 TTC
*
27955590 AACTAAACTTACATTACATATTTAAATAAATAATTTATGATAATATTTTTATCAAATAAAATATT
1 AACTAAACTTACATTACATATTTAAATAAATAATTTATGACAATATTTTTATCAAATAAAATATT
* * *
27955655 GAATTACAAGATATA-AAAAAAGTTATAAATTATTTAAATTTATTTAT-AATATGAATTATCAAA
66 GAATTACAAAATATATAAAAAAATTATAAATTATTTAAATTTATTTATGAA-ATCAATTATCAAA
*
27955718 TTTATTTTATAC-AAAAATTAAAATAATTATAAAATATTTTAATTAATATATACAA-CCAAA-TA
130 TTTAATTTATACAAAAAATTAAAATAATTATAAAATATTTTAATTAATATATACAATCCAAACTA
* * *
27955780 TACATATTGCCGAA-T-AAAAATATAA-AAAAATCTGCTTGGTCAAATTGGAAAACCAAGAAAAA
195 TA-A-A---AC-AAGTAAAAAATAAAATAAAAATCT--TTGGTCAAACTGGAAAACCAAGAAAAA
27955842 GAAT-ACTACATGTCTTGATAGAAAGCTTACGTCAGCCATGACGTTTAGTTGGACAA
252 GAATAAC-ACATGTCTTGATAGAAAGCTTACGTCAGCCATGACGTTTAGTTGGACAA
27955898 CTATAACGTG
Statistics
Matches: 278, Mismatches: 20, Indels: 20
0.87 0.06 0.06
Matches are distributed among these distances:
323 3 0.01
324 1 0.00
325 4 0.01
326 52 0.19
327 64 0.23
328 152 0.55
329 2 0.01
ACGTcount: A:0.47, C:0.08, G:0.09, T:0.35
Consensus pattern (327 bp):
AACTAAACTTACATTACATATTTAAATAAATAATTTATGACAATATTTTTATCAAATAAAATATT
GAATTACAAAATATATAAAAAAATTATAAATTATTTAAATTTATTTATGAAATCAATTATCAAAT
TTAATTTATACAAAAAATTAAAATAATTATAAAATATTTTAATTAATATATACAATCCAAACTAT
AAAACAAGTAAAAAATAAAATAAAAATCTTTGGTCAAACTGGAAAACCAAGAAAAAGAATAACAC
ATGTCTTGATAGAAAGCTTACGTCAGCCATGACGTTTAGTTGGACAATTATGCCGTGGTATGTGT
TC
Found at i:27961091 original size:24 final size:24
Alignment explanation
Indices: 27961032--27961093 Score: 72
Period size: 23 Copynumber: 2.5 Consensus size: 24
27961022 CATATGAACG
* *
27961032 AGTAAAAAAAATGAAAACGTGAATAA
1 AGTAATAAAAAT--AAACGTGAACAA
*
27961058 A-TAATCAAAATAAACGTGAACAA
1 AGTAATAAAAATAAACGTGAACAA
27961081 AGTAATAAAAATA
1 AGTAATAAAAATA
27961094 TAAAAACATA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
23 12 0.39
24 10 0.32
25 8 0.26
26 1 0.03
ACGTcount: A:0.65, C:0.06, G:0.11, T:0.18
Consensus pattern (24 bp):
AGTAATAAAAATAAACGTGAACAA
Found at i:27963111 original size:132 final size:132
Alignment explanation
Indices: 27962951--27963443 Score: 754
Period size: 132 Copynumber: 3.7 Consensus size: 132
27962941 CTATACTACA
* * *
27962951 TTGGGAAGATAAGATTCATCATCTTCGATCTGCTCCACTACTACTCAGGGAGACAGAATCTGCAA
1 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCAA
* *
27963016 T-TTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGACTTAAATCTGCTTCTCCACT
66 TCTTT-GACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACT
27963080 ATC
130 ATC
* * * *
27963083 TTGGGAAGATAAGCTTCACCATTTTCGATCTGCTCCACTATTGCTTAGGGAGACAGAATCTACAA
1 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCAA
* * * *
27963148 TCTTTGACCTATTCCATTACTGCTTATGGAGATAGGACTAATGGCTTAAATATGCTTCTCCACTA
66 TCTTTGACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTA
27963213 TC
131 TC
* * *
27963215 TTGGGAAGATAAGATTCACCATCCTCGATCTGCTCCACTATTGCTTAGGGAGACAGAATCTGTAA
1 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCAA
* * *
27963280 TCTTTGACCTATTCCACTATTGCTTAGGGAGATAGGACTAATGGCTTAAATCTTCTTCTCCACTA
66 TCTTTGACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTA
27963345 TC
131 TC
* * * *
27963347 TTGGGAAGATAAGATTCACCATCTTTGATCTGCTCTACTACTGCTTAGGGGGAGAGAATCTGCAA
1 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCAA
*
27963412 TCTTTGACCTACTCCACTATTGCTTAGGGAGA
66 TCTTTGACCTACTCCACTACTGCTTAGGGAGA
27963444 CAGAATCTGC
Statistics
Matches: 329, Mismatches: 31, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
132 326 0.99
133 3 0.01
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (132 bp):
TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCAA
TCTTTGACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTA
TC
Found at i:27963311 original size:44 final size:44
Alignment explanation
Indices: 27963247--27963487 Score: 190
Period size: 44 Copynumber: 5.5 Consensus size: 44
27963237 CCTCGATCTG
*
27963247 CTCCACTATTGCTTAGGGAGACAGAATCTGTAATCTTTGACCTA
1 CTCCACTATTGCTTAGGGAGACAGAATCTGCAATCTTTGACCTA
* * * ** *
27963291 TTCCACTATTGCTTAGGGAGATAGGA-CT--AATGGCTTAAATCTTCTT
1 CTCCACTATTGCTTAGGGAGACAGAATCTGCAAT--CTTTGA-C--CTA
* * * * * *
27963337 CTCCACTA-T-CTT-GGGAAGATAAGATTC-ACCATCTTTGATCTG
1 CTCCACTATTGCTTAGGG-AGA-CAGAATCTGCAATCTTTGACCTA
* * * *
27963379 CTCTACTACTGCTTAGGGGGAGAGAATCTGCAATCTTTGACCTA
1 CTCCACTATTGCTTAGGGAGACAGAATCTGCAATCTTTGACCTA
*
27963423 CTCCACTATTGCTTAGGGAGACAGAATCTGCAATCTTTAACCTA
1 CTCCACTATTGCTTAGGGAGACAGAATCTGCAATCTTTGACCTA
* *
27963467 CTCCACTACTACTTAGGGAGA
1 CTCCACTATTGCTTAGGGAGA
27963488 TAGGATTGGT
Statistics
Matches: 153, Mismatches: 30, Indels: 28
0.73 0.14 0.13
Matches are distributed among these distances:
41 3 0.02
42 9 0.06
43 15 0.10
44 104 0.68
45 10 0.07
46 10 0.07
47 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.32
Consensus pattern (44 bp):
CTCCACTATTGCTTAGGGAGACAGAATCTGCAATCTTTGACCTA
Found at i:27963622 original size:87 final size:90
Alignment explanation
Indices: 27963502--27963780 Score: 330
Period size: 101 Copynumber: 3.0 Consensus size: 90
27963492 ATTGGTTTCT
27963502 TCTGTCTATTTAACTGCAATGTTGGGGAAGTGAGATTCGTCATCGTAGCTTCAATCTATTCCACT
1 TCTGTCT-TTT-ACTGCAATG-TGGGGAAGTGAGATTCGTCATCGTAGCTTCAATCTATTCCACT
27963567 ACACCACCAAGGAAT-AGATT-G-GTCG
63 ACACCACCAAGGAATAAGATTCGCGTCG
27963592 TCTGTCTTTTACTGCAATGTGGGGAAGTGAGATTCGTCATCGTAGCTTCAATCTATTCCACTACA
1 TCTGTCTTTTACTGCAATGTGGGGAAGTGAGATTCGTCATCGTAGCTTCAATCTATTCCACTACA
27963657 CCACCAAGGAAAATAAGATTCGCCGTCG
66 CCACCAAGG--AATAAGATTCG-CGTCG
* * * * * *
27963685 TGGCCTCAATCTTTTAGTTTGCAATGTCGGGGAAGTGAGATTTGCCGTCATAGCTTCAATCTATT
1 T---CT--GTCTTTTA--CTGCAATGT-GGGGAAGTGAGATTCGTCATCGTAGCTTCAATCTATT
*
27963750 CCACTATACCACCAAGGAAAATAAGATTCGC
58 CCACTACACCACCAAGG--AATAAGATTCGC
27963781 CATCGTGGCC
Statistics
Matches: 168, Mismatches: 7, Indels: 18
0.87 0.04 0.09
Matches are distributed among these distances:
87 55 0.33
88 9 0.05
89 6 0.04
90 12 0.07
91 1 0.01
93 5 0.03
96 2 0.01
98 7 0.04
100 9 0.05
101 62 0.37
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (90 bp):
TCTGTCTTTTACTGCAATGTGGGGAAGTGAGATTCGTCATCGTAGCTTCAATCTATTCCACTACA
CCACCAAGGAATAAGATTCGCGTCG
Found at i:27963732 original size:50 final size:50
Alignment explanation
Indices: 27963672--27964145 Score: 154
Period size: 50 Copynumber: 9.5 Consensus size: 50
27963662 AAGGAAAATA
* *
27963672 AGATTCGCCGTCGTGGCCTCAATCTTTTAGTTTGCAATGTCGGGGAAGTG
1 AGATTCGCCGTCGTAGCCTCAATCTTTTAGTTTGCAATGTCAGGGAAGTG
* * * * * * * * * * * *
27963722 AGATTTGCCGTCATAGCTTCAATCTATTCCACTATACCA--CCAAGGAAAATA
1 AGATTCGCCGTCGTAGCCTCAATCT-TT-TAGTTTGCAATGTC-AGGGAAGTG
* * *
27963773 AGATTCGCCATCGTGGCCTCAATCTTTTAGTTTGCAATGTCATGGAAGTG
1 AGATTCGCCGTCGTAGCCTCAATCTTTTAGTTTGCAATGTCAGGGAAGTG
* * **** ** * * * *
27963823 AGATTCGCCGTCGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGAACTA
1 AGATTCGCCGTCGTAGCCTCAATCTTTTAGTTTGCAATGTCAGGGAAGTG
* * * * * * * *
27963873 AGATTCACCGTTGTGGCTTCGATCTTTTAATTTGCAATGTCGGGGAAG-C
1 AGATTCGCCGTCGTAGCCTCAATCTTTTAGTTTGCAATGTCAGGGAAGTG
* * * ** * ** ** *
27963922 AGGATTCGACGTTGTAGCTTCAATCTGTTCCG-CTGC-ATCACCTGGAAGTA
1 A-GATTCGCCGTCGTAGCCTCAATCT-TTTAGTTTGCAATGTCAGGGAAGTG
* * ** * *
27963972 AGATTCGCCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAG-C
1 AGATTCGCCGTCGTAGCCTCAATCTTTTAGTTTGCAATGTCAGGGAAGTG
* * * * * * ** *
27964021 AGGATTCACCGTTGTAGCTTCAATCTGTTTCG-CTGCATTG-CCTGGAAGTA
1 A-GATTCGCCGTCGTAGCCTCAATCT-TTTAGTTTGCAATGTCAGGGAAGTG
* * * * ** * **
27964071 AGATTCACCGTTGTGGCCACAATCTTTTAAATTGCAATGTCGGGGAAGCA
1 AGATTCGCCGTCGTAGCCTCAATCTTTTAGTTTGCAATGTCAGGGAAGTG
* * *
27964121 AGATTCGCCATTGTAGCTTCAATCT
1 AGATTCGCCGTCGTAGCCTCAATCT
27964146 GTTCCGCTGC
Statistics
Matches: 300, Mismatches: 109, Indels: 30
0.68 0.25 0.07
Matches are distributed among these distances:
48 5 0.02
49 72 0.24
50 185 0.62
51 33 0.11
52 5 0.02
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (50 bp):
AGATTCGCCGTCGTAGCCTCAATCTTTTAGTTTGCAATGTCAGGGAAGTG
Found at i:27963795 original size:51 final size:51
Alignment explanation
Indices: 27963621--27963797 Score: 135
Period size: 51 Copynumber: 3.5 Consensus size: 51
27963611 TGGGGAAGTG
* * *
27963621 AGATTCGTCATCGTAGCTTCAATCTATTCCACTACACCACCAAGGAAAATA
1 AGATTCGCCATCGTAGCCTCAATCTATTCCACTATACCACCAAGGAAAATA
* * * * * * * * * * * *
27963672 AGATTCGCCGTCGTGGCCTCAATCT-TT-TAGTTTGCAATGTC-GGGGAAGTG
1 AGATTCGCCATCGTAGCCTCAATCTATTCCACTATACCA--CCAAGGAAAATA
* * * *
27963722 AGATTTGCCGTCATAGCTTCAATCTATTCCACTATACCACCAAGGAAAATA
1 AGATTCGCCATCGTAGCCTCAATCTATTCCACTATACCACCAAGGAAAATA
*
27963773 AGATTCGCCATCGTGGCCTCAATCT
1 AGATTCGCCATCGTAGCCTCAATCT
27963798 TTTAGTTTGC
Statistics
Matches: 87, Mismatches: 34, Indels: 10
0.66 0.26 0.08
Matches are distributed among these distances:
49 4 0.05
50 29 0.33
51 49 0.56
52 5 0.06
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.28
Consensus pattern (51 bp):
AGATTCGCCATCGTAGCCTCAATCTATTCCACTATACCACCAAGGAAAATA
Found at i:27964014 original size:99 final size:99
Alignment explanation
Indices: 27963670--27964838 Score: 1493
Period size: 99 Copynumber: 11.8 Consensus size: 99
27963660 CCAAGGAAAA
* ** * * *
27963670 TAAGATTCGCCGTCGTGGCCTCAATCTTTTAGTTTGCAATGTCGGGGAAG-TGAGATTTGCCGTC
1 TAAGATTCGCCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGCAG-GATTCGCCGTT
* * * ** * * * *
27963734 ATAGCTTCAATCTATTCCACTATACCACCAAGGAAAA
65 GTAGCTTCAATCTGTTCCGCTGCATCGCC-TGG-AAG
* * ** ** * *
27963771 TAAGATTCGCCATCGTGGCCTCAATCTTTTAGTTTGCAATGTCATGGAAG-TGAGATTCGCCGTC
1 TAAGATTCGCCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGCAG-GATTCGCCGTT
* * *
27963835 GTAGCTTCAATCTGTTCCACTGCACCGCCTGGGAAC
65 GTAGCTTCAATCTGTTCCGCTGCATCGCCT-GGAAG
* * * * *
27963871 TAAGATTCACCGTTGTGGCTTCGATCTTTTAATTTGCAATGTCGGGGAAGCAGGATTCGACGTTG
1 TAAGATTCGCCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGCAGGATTCGCCGTTG
*
27963936 TAGCTTCAATCTGTTCCGCTGCATCACCTGGAAG
66 TAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAG
*
27963970 TAAGATTCGCCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGCAGGATTCACCGTTG
1 TAAGATTCGCCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGCAGGATTCGCCGTTG
* *
27964035 TAGCTTCAATCTGTTTCGCTGCATTGCCTGGAAG
66 TAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAG
* * * *
27964069 TAAGATTCACCGTTGTGGCCACAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCGCCATTG
1 TAAGATTCGCCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGCAGGATTCGCCGTTG
27964134 TAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAG
66 TAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAG
* * * *
27964168 TAAGATTTGTCGTTGTGGCCTCAATCTTTTAAATTGCAACGTCGGGGAAGCAGGATTCACCGTTG
1 TAAGATTCGCCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGCAGGATTCGCCGTTG
* *
27964233 TAGCTTTAATCTGTTCCGTTGCATCGCCTGGAAG
66 TAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAG
* * *
27964267 TAAGATTCGCCGTTGTAGCCTCAATCTTTTAAATTACAATGTCGGGGAAGCAGGATTCACCGTTG
1 TAAGATTCGCCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGCAGGATTCGCCGTTG
* * *
27964332 TAGCTTCAATCTGTTTCACTGCAAT-GCCTGAAAG
66 TAGCTTCAATCTGTTCCGCTGC-ATCGCCTGGAAG
* * * * * * *
27964366 TAAAATTCACCGTTGTGGCCTCAATATTTTAAATTGCAATATCGGCGAAGCAAGATTCACCGTTG
1 TAAGATTCGCCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGCAGGATTCGCCGTTG
* *
27964431 TAGCTTCAATCTGTTCTGCTGCATCACCTGGAAG
66 TAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAG
* * *
27964465 TAAGATTCACCGTTGTGGCCTTAATCTTTTAAATTGCAATGTC-GGGAAGTAGGATTCGCCGTTG
1 TAAGATTCGCCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGCAGGATTCGCCGTTG
* *
27964529 TAGCTTCAATTTGTTCCGCTGCATCGCCTGAAAG
66 TAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAG
* * *
27964563 TAAGATTCGTCGTTGTGGCCTCAATCTTTTAAATTGCAATATCAGGGAAGCAGGA-TCTGCCGTT
1 TAAGATTCGCCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGCAGGATTC-GCCGTT
* * *
27964627 GTAGCTTCAATCTGTTCCGTTGTATCGCCTGAAAG
65 GTAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAG
* * *
27964662 TAAGATTCGTCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGCATGATTCGCTGTTG
1 TAAGATTCGCCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGCAGGATTCGCCGTTG
*
27964727 TAGCTTCAATCTGTTCCGCTGCATTGCCTGGAATG
66 TAGCTTCAATCTGTTCCGCTGCATCGCCTGGAA-G
* * * * * *
27964762 TAAGATTTGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTAGCCATTG
1 TAAGATTCGCCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGCAGGATTCGCCGTTG
*
27964827 TGGCTTCAATCT
66 TAGCTTCAATCT
27964839 ATTCGACTGC
Statistics
Matches: 948, Mismatches: 112, Indels: 17
0.88 0.10 0.02
Matches are distributed among these distances:
98 90 0.09
99 618 0.65
100 153 0.16
101 87 0.09
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.32
Consensus pattern (99 bp):
TAAGATTCGCCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGCAGGATTCGCCGTTG
TAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAG
Found at i:27964860 original size:50 final size:49
Alignment explanation
Indices: 27963823--27964869 Score: 222
Period size: 50 Copynumber: 21.1 Consensus size: 49
27963813 CATGGAAGTG
* * * * * **
27963823 AGATTCGCCGTCGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGAA-CTA
1 AGATTAGCCGTTGTGGCTTCAATCTATTCGACTGCAATGCC-GGGAAGC-A
* ** * *
27963873 AGATTCA-CCGTTGTGGCTTCGATCT-TTTAATTTGCAATGTCGGGGAAGCA
1 AGATT-AGCCGTTGTGGCTTCAATCTATTCGA-CTGCAATG-CCGGGAAGCA
* * * * * * * *
27963923 GGATTCGACGTTGTAGCTTCAATCTGTTCCG-CTGC-ATCACCTGGAAGTA
1 AGATTAGCCGTTGTGGCTTCAATCTATT-CGACTGCAAT-GCCGGGAAGCA
* * * ** * *
27963972 AGATTCGCCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGCA
1 AGATTAGCCGTTGTGGCTTCAATCTATTCGACTGCAATG-CCGGGAAGCA
* * * * * *
27964022 GGATTCA-CCGTTGTAGCTTCAATCTGTTTCG-CTGCATTGCCTGGAAGTA
1 AGATT-AGCCGTTGTGGCTTCAATCT-ATTCGACTGCAATGCCGGGAAGCA
** * ** * *
27964071 AGATTCA-CCGTTGTGGCCACAATCTTTTAAATTGCAATGTCGGGGAAGCA
1 AGATT-AGCCGTTGTGGCTTCAATCTATTCGACTGCAATG-CCGGGAAGCA
* * * * * *
27964121 AGATTCGCCATTGTAGCTTCAATCTGTTCCG-CTGC-ATCGCCTGGAAGTA
1 AGATTAGCCGTTGTGGCTTCAATCTATT-CGACTGCAAT-GCCGGGAAGCA
* * * * ** * * *
27964170 AGATTTGTCGTTGTGGCCTCAATCTTTTAAATTGCAACGTCGGGGAAGCA
1 AGATTAGCCGTTGTGGCTTCAATCTATTCGACTGCAATG-CCGGGAAGCA
* * * * * * *
27964220 GGATTCA-CCGTTGTAGCTTTAATCTGTTCCG-TTGC-ATCGCCTGGAAGTA
1 AGATT-AGCCGTTGTGGCTTCAATCTATT-CGACTGCAAT-GCCGGGAAGCA
* * * * ** * * *
27964269 AGATTCGCCGTTGTAGCCTCAATCTTTTAAATTACAATGTCGGGGAAGCA
1 AGATTAGCCGTTGTGGCTTCAATCTATTCGACTGCAATG-CCGGGAAGCA
* * * * * *
27964319 GGATTCA-CCGTTGTAGCTTCAATCTGTTTC-ACTGCAATGCCTGAAAGTA
1 AGATT-AGCCGTTGTGGCTTCAATCT-ATTCGACTGCAATGCCGGGAAGCA
* * * * ** * **
27964368 AAATTCA-CCGTTGTGGCCTCAATATTTTAAATTGCAATATCGGCGAAGCA
1 AGATT-AGCCGTTGTGGCTTCAATCTATTCGACTGCAATGCCGG-GAAGCA
* * * * *
27964418 AGATTCA-CCGTTGTAGCTTCAATCTGTTCTG-CTGC-ATCACCTGGAAGTA
1 AGATT-AGCCGTTGTGGCTTCAATCTATTC-GACTGCAAT-GCCGGGAAGCA
* ** * * *
27964467 AGATTCA-CCGTTGTGGCCTT-AATCTTTTAAATTGCAATGTCGGGAAGTA
1 AGATT-AGCCGTTGTGG-CTTCAATCTATTCGACTGCAATGCCGGGAAGCA
* * * * * * * *
27964516 GGATTCGCCGTTGTAGCTTCAATTTGTTCCG-CTGC-ATCGCCTGAAAGTA
1 AGATTAGCCGTTGTGGCTTCAATCTATT-CGACTGCAAT-GCCGGGAAGCA
* * * * ** * * *
27964565 AGATTCGTCGTTGTGGCCTCAATCTTTTAAATTGCAATATCAGGGAAGCA
1 AGATTAGCCGTTGTGGCTTCAATCTATTCGACTGCAAT-GCCGGGAAGCA
* * * * * * * *
27964615 GGATCT-GCCGTTGTAGCTTCAATCTGTTCCG-TTG-TATCGCCTGAAAGTA
1 AGAT-TAGCCGTTGTGGCTTCAATCTATT-CGACTGCAAT-GCCGGGAAGCA
* * * * ** * *
27964664 AGATTCGTCGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGCA
1 AGATTAGCCGTTGTGGCTTCAATCTATTCGACTGCAATG-CCGGGAAGCA
* * * * * * * *
27964714 TGATTCGCTGTTGTAGCTTCAATCTGTTCCG-CTGCATTGCCTGGAATGTA
1 AGATTAGCCGTTGTGGCTTCAATCTATT-CGACTGCAATGCCGGGAA-GCA
* * ** * *
27964764 AGATTTGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCA
1 AGATTAGCCGTTGTGGCTTCAATCTATTCGACTGCAATG-CCGGGAAGCA
* * *
27964814 AGATTAGCCATTGTGGCTTCAATCTATTCGACTGCACTGCCAGGGAAAGTA
1 AGATTAGCCGTTGTGGCTTCAATCTATTCGACTGCAATGCC-GGG-AAGCA
27964865 AGATT
1 AGATT
27964870 TGCTGTCTTT
Statistics
Matches: 710, Mismatches: 232, Indels: 109
0.68 0.22 0.10
Matches are distributed among these distances:
48 12 0.02
49 309 0.44
50 364 0.51
51 25 0.04
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.32
Consensus pattern (49 bp):
AGATTAGCCGTTGTGGCTTCAATCTATTCGACTGCAATGCCGGGAAGCA
Found at i:27965020 original size:88 final size:88
Alignment explanation
Indices: 27964868--27965451 Score: 904
Period size: 88 Copynumber: 6.6 Consensus size: 88
27964858 GAAAGTAAGA
* * * * *
27964868 TTTGCTGTCTTTGATCTGCTCCGCTGTCAA--CAAGCAGGCAAGATCTGTTGTCTTCAACTAGCT
1 TTTG-TGTCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCT
* *
27964931 CCACTATAACCGAGAGAGGTAAGG
65 CCACTACAACCGAGAGAGGCAAGG
27964955 TTTGTGTCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTC
1 TTTGTGTCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTC
27965020 CACTACAACCGAGAGAGGCAAGG
66 CACTACAACCGAGAGAGGCAAGG
*
27965043 TTTGTGTCTTCGATCTGCTTCGCTGTCAAGGCAGTAAGGCAAGATCTGTTGTCTTCAACCAGCTC
1 TTTGTGTCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTC
27965108 CACTACAACCGAGAGAGGCAAGG
66 CACTACAACCGAGAGAGGCAAGG
* *
27965131 TTTGTGTCTTCGATCTGCTTCGCTGTCAAGGTAGGAAGGCAAGATCTGTTGTTTTCAACCAGCTC
1 TTTGTGTCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTC
* *
27965196 CACTACAACTGAGAGAGGCTAGG
66 CACTACAACCGAGAGAGGCAAGG
*
27965219 TTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTC
1 TTTGTGTCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTC
*
27965284 CACTACAACCGAAAGAGGCAAGG
66 CACTACAACCGAGAGAGGCAAGG
* * * * *
27965307 TTTGTGTCTTCGATCTACTTCGCTGTCAATGTAAGAAGGCAAGATTTGTTGTCTTCAACCAGCTC
1 TTTGTGTCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTC
*
27965372 CACTACAACTGAGAGAGGCAAGG
66 CACTACAACCGAGAGAGGCAAGG
* * * * *
27965395 TTTGTG-CATTCGATCTTCTTTGCTGTCAAGGCAGGAAAGCAAGATTTGATGTCTTCA
1 TTTGTGTC-TTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTGTTGTCTTCA
27965452 TTGATCTGTT
Statistics
Matches: 462, Mismatches: 32, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
86 23 0.05
87 5 0.01
88 434 0.94
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.28
Consensus pattern (88 bp):
TTTGTGTCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTC
CACTACAACCGAGAGAGGCAAGG
Found at i:27966599 original size:42 final size:42
Alignment explanation
Indices: 27966528--27966647 Score: 159
Period size: 42 Copynumber: 2.8 Consensus size: 42
27966518 GGTATAGCAA
* * * *
27966528 GATCACCACATGCCCCAGTTTGATCAAAATTTGAGCTGCTCT
1 GATCACCTCATACCCCAATCTGATCAAAATTTGAGCTGCTCT
*
27966570 GATTACCTCATACCCCAATCTGATCAAAATTTGAGCTGCTCT
1 GATCACCTCATACCCCAATCTGATCAAAATTTGAGCTGCTCT
* * *
27966612 GATCGCCTCATGCCCCAATTTGATCCAAAATTTGAG
1 GATCACCTCATACCCCAATCTGAT-CAAAATTTGAG
27966648 TCACCCTTTT
Statistics
Matches: 68, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
42 57 0.84
43 11 0.16
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (42 bp):
GATCACCTCATACCCCAATCTGATCAAAATTTGAGCTGCTCT
Found at i:27966750 original size:15 final size:14
Alignment explanation
Indices: 27966723--27966759 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
27966713 TTAGCCTCTC
*
27966723 CATTTTTACTTTTT
1 CATTTTTTCTTTTT
27966737 CATTTTTTCATTTTT
1 CATTTTTTC-TTTTT
27966752 CATTTTTT
1 CATTTTTT
27966760 TTCATTTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.73
Consensus pattern (14 bp):
CATTTTTTCTTTTT
Found at i:27967592 original size:14 final size:15
Alignment explanation
Indices: 27967568--27967602 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
27967558 CGCCTTGACC
*
27967568 TCTCTTTTTTCTTTT
1 TCTCTTCTTTCTTTT
27967583 T-TCTTCTTTCTTTT
1 TCTCTTCTTTCTTTT
27967597 TCTCTT
1 TCTCTT
27967603 ATTTTTGACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (15 bp):
TCTCTTCTTTCTTTT
Found at i:27971036 original size:23 final size:24
Alignment explanation
Indices: 27971010--27971057 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
27971000 AAAATAATGA
* *
27971010 AAACGTGAATAAA-TAATCAAAAT
1 AAACGTGAACAAAGTAATAAAAAT
27971033 AAACGTGAACAAAGTAATAAAAAT
1 AAACGTGAACAAAGTAATAAAAAT
27971057 A
1 A
27971058 TAAAAACGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.62, C:0.08, G:0.10, T:0.19
Consensus pattern (24 bp):
AAACGTGAACAAAGTAATAAAAAT
Found at i:27971202 original size:10 final size:10
Alignment explanation
Indices: 27971187--27971216 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
27971177 TAAAAATGCG
27971187 TATAGATGTA
1 TATAGATGTA
27971197 TATAGATGTA
1 TATAGATGTA
27971207 TATAGATGTA
1 TATAGATGTA
27971217 GTCACATGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (10 bp):
TATAGATGTA
Found at i:27975613 original size:24 final size:22
Alignment explanation
Indices: 27975572--27975650 Score: 78
Period size: 21 Copynumber: 3.7 Consensus size: 22
27975562 ATTCTTCAAG
27975572 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
*
27975591 GATATGCAATCTTAG-ATATGAT
1 GATATGCAATCTTAGAAGAT-AT
27975613 -ATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
27975634 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
27975651 GATTTAATTT
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
19 13 0.26
21 19 0.38
22 6 0.12
23 12 0.24
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.38
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:27975618 original size:21 final size:19
Alignment explanation
Indices: 27975572--27975627 Score: 94
Period size: 19 Copynumber: 2.8 Consensus size: 19
27975562 ATTCTTCAAG
27975572 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
27975591 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
27975610 GATATATGCAATCTTAGA
1 G--ATATGCAATCTTAGA
27975628 AGATATGATT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 20 0.57
21 15 0.43
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:27975649 original size:23 final size:24
Alignment explanation
Indices: 27975573--27975650 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 24
27975563 TTCTTCAAGG
27975573 ATATGCAATCTT---AGATATG--
1 ATATGCAATCTTAGAAGATATGAT
27975592 ATATGCAATCTTAG---ATATGAT
1 ATATGCAATCTTAGAAGATATGAT
27975613 ATATGCAATCTTAGAAGATATGAT
1 ATATGCAATCTTAGAAGATATGAT
* *
27975637 -TTTGTAATCTTAGA
1 ATATGCAATCTTAGA
27975651 GATTTAATTT
Statistics
Matches: 50, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
19 17 0.34
21 14 0.28
23 12 0.24
24 7 0.14
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.38
Consensus pattern (24 bp):
ATATGCAATCTTAGAAGATATGAT
Found at i:27976229 original size:42 final size:39
Alignment explanation
Indices: 27976183--27976272 Score: 92
Period size: 40 Copynumber: 2.2 Consensus size: 39
27976173 ATACGTACAC
*
27976183 ATTTTTTAATTTTT-ATAAATATATATATACACATACTTTTAT
1 ATTTTTTAATTTTTCAT-AAT-TATATAT--ACATACTTATAT
* *
27976225 ATTTTTTCTATTTTTCATAATTCTATATACATACTTATAT
1 ATTTTTT-AATTTTTCATAATTATATATACATACTTATAT
*
27976265 ATATTTTA
1 ATTTTTTA
27976273 CATATTAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
40 17 0.41
42 13 0.32
43 9 0.22
44 2 0.05
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.57
Consensus pattern (39 bp):
ATTTTTTAATTTTTCATAATTATATATACATACTTATAT
Found at i:27976346 original size:23 final size:22
Alignment explanation
Indices: 27976316--27976359 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
27976306 ATAATTCACA
*
27976316 TACATATATATTTTTCTTATATG
1 TACATATATATATTT-TTATATG
27976339 TACATATATATATTTTTATAT
1 TACATATATATATTTTTATAT
27976360 TTTATAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.57
Consensus pattern (22 bp):
TACATATATATATTTTTATATG
Found at i:27979095 original size:40 final size:40
Alignment explanation
Indices: 27979034--27979280 Score: 327
Period size: 40 Copynumber: 6.2 Consensus size: 40
27979024 CGGAATTTAG
* * * *
27979034 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* * * * *
27979074 CCGGGT-ATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
* * *
27979114 CCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
27979154 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
*
27979194 CCGGATAAAATCACTAGCATAAATGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* *
27979234 CCGGATAAAATCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
27979274 CCGGATA
1 CCGGATA
27979281 TCATTCAAAT
Statistics
Matches: 188, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 2 0.01
40 182 0.97
41 4 0.02
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (40 bp):
CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:27987537 original size:40 final size:40
Alignment explanation
Indices: 27987472--27987762 Score: 358
Period size: 40 Copynumber: 7.3 Consensus size: 40
27987462 TCTTCGGAAT
* * * *
27987472 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
* * * * *
27987511 TTAACCCGGGT-ATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTC
* *
27987551 TTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTC
* *
27987591 TTAGCCCGGATATATAA--ACTCGCACAAATGCCTTCAGGTC
1 TTAGCCCGGATA-A-AATCACTAGCACAAATGCCTTCGGGTC
27987631 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
* *
27987671 TTAACCCGGATAAAATCACTAGCATAAATGCCTTCGGGTC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
* *
27987711 TTAACCCGGATAAAATCACTAGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
27987751 TTAGCCCGGATA
1 TTAGCCCGGATA
27987763 TCATTCAAAT
Statistics
Matches: 225, Mismatches: 20, Indels: 13
0.87 0.08 0.05
Matches are distributed among these distances:
38 2 0.01
39 6 0.03
40 215 0.96
42 1 0.00
43 1 0.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
Found at i:27992156 original size:17 final size:18
Alignment explanation
Indices: 27992131--27992175 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
27992121 AAAATATTTC
* *
27992131 AAAAAAAAAAACCAAAAG
1 AAAAGAAAAAACAAAAAG
*
27992149 -AAAGAAAAAAGAAAAAG
1 AAAAGAAAAAACAAAAAG
27992166 AAAAGAAAAA
1 AAAAGAAAAA
27992176 GGAGAGGCCA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 14 0.61
18 9 0.39
ACGTcount: A:0.84, C:0.04, G:0.11, T:0.00
Consensus pattern (18 bp):
AAAAGAAAAAACAAAAAG
Found at i:27992158 original size:11 final size:11
Alignment explanation
Indices: 27992144--27992176 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
27992134 AAAAAAAACC
27992144 AAAAGAAAGAA-
1 AAAAGAAA-AAG
27992155 AAAAGAAAAAG
1 AAAAGAAAAAG
27992166 AAAAGAAAAAG
1 AAAAGAAAAAG
27992177 GAGAGGCCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 2 0.10
11 19 0.90
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (11 bp):
AAAAGAAAAAG
Found at i:27992163 original size:22 final size:22
Alignment explanation
Indices: 27992131--27992173 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
27992121 AAAATATTTC
*
27992131 AAAAAAAAAAACCAAAAGAAAG
1 AAAAAAAAAAAACAAAAGAAAG
* *
27992153 AAAAAAGAAAAAGAAAAGAAA
1 AAAAAAAAAAAACAAAAGAAA
27992174 AAGGAGAGGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.84, C:0.05, G:0.12, T:0.00
Consensus pattern (22 bp):
AAAAAAAAAAAACAAAAGAAAG
Found at i:27993313 original size:44 final size:44
Alignment explanation
Indices: 27993263--27993398 Score: 112
Period size: 44 Copynumber: 3.1 Consensus size: 44
27993253 AAATAGCAGA
*
27993263 TCTTGTCTTCTTGTATTGGCAGTGAAGTAGATCGAAGATACCAG
1 TCTTGTCTTCTTGTAATGGCAGTGAAGTAGATCGAAGATACCAG
* ** * * * **
27993307 TCTTGTCTCCTTG-AACAGCAGTGGAGTAGGTTGAAGATGGCAG
1 TCTTGTCTTCTTGTAATGGCAGTGAAGTAGATCGAAGATACCAG
* * * ** * *
27993350 ATCTTGCCTTCCTGTACTGGCAGCAAAGCAGATCGAAGACACCAG
1 -TCTTGTCTTCTTGTAATGGCAGTGAAGTAGATCGAAGATACCAG
27993395 TCTT
1 TCTT
27993399 ATCGCCTTAA
Statistics
Matches: 66, Mismatches: 24, Indels: 4
0.70 0.26 0.04
Matches are distributed among these distances:
43 22 0.33
44 26 0.39
45 18 0.27
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.29
Consensus pattern (44 bp):
TCTTGTCTTCTTGTAATGGCAGTGAAGTAGATCGAAGATACCAG
Done.