Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032247.1 Gossypioides kirkii chromosome KI_05
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: 50980411
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 17 of 171
Found at i:7842457 original size:25 final size:25
Alignment explanation
Indices: 7842429--7842477 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
7842419 AACATTACGT
7842429 TGATATTTTAAAAAATTT-GTATAAA
1 TGATATTTT-AAAAATTTAGTATAAA
*
7842454 TGATATTTTAATAATTTAGTATAA
1 TGATATTTTAAAAATTTAGTATAA
7842478 CATTAAACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (25 bp):
TGATATTTTAAAAATTTAGTATAAA
Found at i:7847713 original size:17 final size:17
Alignment explanation
Indices: 7847691--7847726 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
7847681 TATAAGATAT
* *
7847691 AAAAAAATAAAGAAAAG
1 AAAAAAAGAAACAAAAG
7847708 AAAAAAAGAAACAAAAG
1 AAAAAAAGAAACAAAAG
7847725 AA
1 AA
7847727 GGAATAGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.83, C:0.03, G:0.11, T:0.03
Consensus pattern (17 bp):
AAAAAAAGAAACAAAAG
Found at i:7847784 original size:14 final size:13
Alignment explanation
Indices: 7847753--7847783 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
7847743 GGTTTAAATG
7847753 AAAAAGGGAAGGA
1 AAAAAGGGAAGGA
7847766 AAAAAGGGAAGGA
1 AAAAAGGGAAGGA
7847779 AAAAA
1 AAAAA
7847784 AAAGGAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (13 bp):
AAAAAGGGAAGGA
Found at i:7848176 original size:17 final size:18
Alignment explanation
Indices: 7848154--7848189 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
7848144 TAAATGAGTT
7848154 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
7848171 AATTAGGATATAAATTGG
1 AATTAGGATATAAATTGG
7848189 A
1 A
7848190 TAGAAATTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.44, C:0.00, G:0.22, T:0.33
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:7857963 original size:32 final size:32
Alignment explanation
Indices: 7857920--7857982 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
7857910 CTAAATAGTA
* *
7857920 TGTGATGAAATACGTTTTATGGATTGCTTGTC
1 TGTGATAAAATAAGTTTTATGGATTGCTTGTC
*
7857952 TGTGATAAAATAAGTTTTATGGGTTGCTTGT
1 TGTGATAAAATAAGTTTTATGGATTGCTTGT
7857983 TATGTTCTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.24, C:0.06, G:0.25, T:0.44
Consensus pattern (32 bp):
TGTGATAAAATAAGTTTTATGGATTGCTTGTC
Found at i:7871504 original size:32 final size:32
Alignment explanation
Indices: 7871461--7871521 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
7871451 CTAAATAGTA
* *
7871461 TGTGATGAAATACGTTTTAT-GGATTGCTTGTC
1 TGTGATAAAATAAGTTTTATAGG-TTGCTTGTC
7871493 TGTGATAAAATAAGTTTTATAGGTTGCTT
1 TGTGATAAAATAAGTTTTATAGGTTGCTT
7871522 TTTATGTTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
32 24 0.92
33 2 0.08
ACGTcount: A:0.26, C:0.07, G:0.23, T:0.44
Consensus pattern (32 bp):
TGTGATAAAATAAGTTTTATAGGTTGCTTGTC
Found at i:7871603 original size:96 final size:97
Alignment explanation
Indices: 7871438--7871628 Score: 339
Period size: 96 Copynumber: 2.0 Consensus size: 97
7871428 ACTGCCAGCT
*
7871438 TACATCTCTTAAGCTAAATAGTATGTGATGAAATACGTTTTATGGATTGCTTGTCTGTGATAAAA
1 TACATCTCTTAAGCTAAATAGAATGTGATGAAATACGTTTTATGGATTGCTTGTCTGTGATAAAA
*
7871503 TAAGTTTTATAGGTTGCTTTTTATGTTCTGAG
66 TAAGTTTTATAGGTTGCTTGTTATGTTCTGAG
*
7871535 TACATCTCTTAAGCT-AATAGAATGTTATGAAATACGTTTTATGGATTGCTTGTCTGTGATAAAA
1 TACATCTCTTAAGCTAAATAGAATGTGATGAAATACGTTTTATGGATTGCTTGTCTGTGATAAAA
*
7871599 TAAGTTTTATGGGTTGCTTGTTATGTTCTG
66 TAAGTTTTATAGGTTGCTTGTTATGTTCTG
7871629 TTTATGGAGA
Statistics
Matches: 90, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
96 75 0.83
97 15 0.17
ACGTcount: A:0.27, C:0.09, G:0.20, T:0.43
Consensus pattern (97 bp):
TACATCTCTTAAGCTAAATAGAATGTGATGAAATACGTTTTATGGATTGCTTGTCTGTGATAAAA
TAAGTTTTATAGGTTGCTTGTTATGTTCTGAG
Found at i:7875290 original size:34 final size:35
Alignment explanation
Indices: 7875237--7875305 Score: 95
Period size: 34 Copynumber: 2.0 Consensus size: 35
7875227 GCGCTGGACA
*
7875237 ACCTATATAATGTAAGCTTAATCTGTTTTTTGTCT
1 ACCTATATAATGTAAGCTTAATCTGTTCTTTGTCT
* * *
7875272 ACCTTTATAAT-TTAGCTTAATGTGTTCTTTGTCT
1 ACCTATATAATGTAAGCTTAATCTGTTCTTTGTCT
7875306 GTTTGTCCTT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
34 20 0.67
35 10 0.33
ACGTcount: A:0.23, C:0.14, G:0.12, T:0.51
Consensus pattern (35 bp):
ACCTATATAATGTAAGCTTAATCTGTTCTTTGTCT
Found at i:7886328 original size:2 final size:2
Alignment explanation
Indices: 7886321--7886350 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
7886311 CTAATGAACT
7886321 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
7886351 AAGACTGGCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:7889519 original size:24 final size:24
Alignment explanation
Indices: 7889467--7889537 Score: 56
Period size: 24 Copynumber: 2.8 Consensus size: 24
7889457 CTCCGTATAT
*
7889467 CTATCTCTATGC-CT-ACTCCTATCT
1 CTATCTCTAT-CTCTGAC-CCTATCG
*
7889491 TTATCTCTATCTCTGACCCTATCG
1 CTATCTCTATCTCTGACCCTATCG
*
7889515 CTATCCCTCCTATCTCTGTCCCT
1 CTAT--CT-CTATCTCTGACCCT
7889538 GTCCCTGTCC
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
23 1 0.03
24 20 0.53
25 2 0.05
26 2 0.05
27 13 0.34
ACGTcount: A:0.14, C:0.39, G:0.06, T:0.41
Consensus pattern (24 bp):
CTATCTCTATCTCTGACCCTATCG
Found at i:7889541 original size:6 final size:6
Alignment explanation
Indices: 7889530--7889573 Score: 79
Period size: 6 Copynumber: 7.3 Consensus size: 6
7889520 CCTCCTATCT
*
7889530 CTGTCC CTGTCC CTGTCC CTGTCC CTGCCC CTGTCC CTGTCC CT
1 CTGTCC CTGTCC CTGTCC CTGTCC CTGTCC CTGTCC CTGTCC CT
7889574 ACCCTCTACT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.00, C:0.52, G:0.16, T:0.32
Consensus pattern (6 bp):
CTGTCC
Found at i:7890582 original size:14 final size:15
Alignment explanation
Indices: 7890554--7890593 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
7890544 TATTTAACAT
7890554 TTTAATAAAAAAT-AA
1 TTTAA-AAAAAATAAA
*
7890569 TTTAAAAAACATAAA
1 TTTAAAAAAAATAAA
7890584 TTTAAAAAAA
1 TTTAAAAAAA
7890594 GCTTAATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 6 0.27
15 16 0.73
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (15 bp):
TTTAAAAAAAATAAA
Found at i:7898395 original size:84 final size:84
Alignment explanation
Indices: 7898278--7898911 Score: 688
Period size: 84 Copynumber: 7.6 Consensus size: 84
7898268 TAGTTGCTTC
* * * ** * ****
7898278 TGCTTTAGCGATCTCAAAATCGGCACATTTTCTTGCTTCAACAGCCTTCTTCTTGGTTTCTTCTG
1 TGCTTTAGCCATCTCCAAATCAGCATGTTTTCTTTCTTCAACAGCCTTCTTCTTCAACTCTTCTG
* * *
7898343 CAATCTTTCTTTGCGCCTC
66 CAATCTTCCTTTGCTCCTG
* * ** *
7898362 TGATTCAGCCATCTGTAAATCAGCATGTTTTCTTTCTTCAACTGCCTTCTTCTT-AATCTCTTCT
1 TGCTTTAGCCATCTCCAAATCAGCATGTTTTCTTTCTTCAACAGCCTTCTTCTTCAA-CTCTTCT
7898426 GCAATCTT-CTTCTGCTCCTG
65 GCAATCTTCCTT-TGCTCCTG
* * * *
7898446 TGCTTTAGCCATCTCCAAAGCCGCATGTTTTCTTTCTTCAACAGCCTTCTTCTTCGACTCTTCGG
1 TGCTTTAGCCATCTCCAAATCAGCATGTTTTCTTTCTTCAACAGCCTTCTTCTTCAACTCTTCTG
*
7898511 CAATCTTCCTCTGCTCCTG
66 CAATCTTCCTTTGCTCCTG
* * *
7898530 TGCTTTAGCCATCTCCAAAGCAGCATGTTTTCTTTCTTCAAAAGCCTTCTTCTTCAATTCTTCTG
1 TGCTTTAGCCATCTCCAAATCAGCATGTTTTCTTTCTTCAACAGCCTTCTTCTTCAACTCTTCTG
*
7898595 CAGTCTTCCTCTT-CTCCTG
66 CAATCTTCCT-TTGCTCCTG
* ** * *
7898614 TGCTTTAGCAATCTCCAAATCAGCACATTTTCTTTCTTCAACAGCTTTCTTCTTCAATTCTTCTG
1 TGCTTTAGCCATCTCCAAATCAGCATGTTTTCTTTCTTCAACAGCCTTCTTCTTCAACTCTTCTG
*
7898679 CAGTCTTCCTTTGCTCCTG
66 CAATCTTCCTTTGCTCCTG
* ** *
7898698 TGCTTTAGCAATCTCCAAATCAGCACATTTTCTTTCTTCAACAGCCTTCTTCTTCATCTCTTCTG
1 TGCTTTAGCCATCTCCAAATCAGCATGTTTTCTTTCTTCAACAGCCTTCTTCTTCAACTCTTCTG
* * *
7898763 CAACCTTCCTCTCCTCCTG
66 CAATCTTCCTTTGCTCCTG
* ** * * *
7898782 TGCTTTAGCCATCTCCAGATCAGCACATTTTCTATCTTCAACA-CC-T-TTCTT-AGATTTTTCT
1 TGCTTTAGCCATCTCCAAATCAGCATGTTTTCTTTCTTCAACAGCCTTCTTCTTCA-ACTCTTCT
* * * * *
7898843 ACAAACTTTCTCTGCTCCTT
65 GCAATCTTCCTTTGCTCCTG
* ** *
7898863 TGCTTTAGCCATCTCCGAATCAGCACCTTTTCTTTCTTCAACCGCCTTC
1 TGCTTTAGCCATCTCCAAATCAGCATGTTTTCTTTCTTCAACAGCCTTC
7898912 CTTGTTTCTT
Statistics
Matches: 479, Mismatches: 61, Indels: 20
0.86 0.11 0.04
Matches are distributed among these distances:
80 1 0.00
81 63 0.13
82 3 0.01
83 8 0.02
84 400 0.84
85 4 0.01
ACGTcount: A:0.17, C:0.32, G:0.10, T:0.41
Consensus pattern (84 bp):
TGCTTTAGCCATCTCCAAATCAGCATGTTTTCTTTCTTCAACAGCCTTCTTCTTCAACTCTTCTG
CAATCTTCCTTTGCTCCTG
Found at i:7898542 original size:168 final size:168
Alignment explanation
Indices: 7898278--7898911 Score: 790
Period size: 168 Copynumber: 3.8 Consensus size: 168
7898268 TAGTTGCTTC
* * * * * *
7898278 TGCTTTAGCGATCTCAAAATCGGCACATTTTCTTGCTTCAACAGCCTTCTTCTTGGTTTCTTCTG
1 TGCTTTAGCCATCTCCAAATCAGCACATTTTCTTTCTTCAACAGCCTTCTTCTTCGATTCTTCTG
* * * * * * ** * *
7898343 CAATCTTTCTTTGCGCCTCTGATTCAGCCATCTGTAAATCAGCATGTTTTCTTTCTTCAACTGCC
66 CAATCTTCCTCTGCTCCTGTGCTTTAGCCATCTCCAAATCAGCACGTTTTCTTTCTTCAACAGCC
* *
7898408 TTCTTCTTAATCTCTTCTGCAATCTTCTTCTGCTCCTG
131 TTCTTCTTAATCTCTTCTGCAATCTTCCTCTCCTCCTG
* * ** * *
7898446 TGCTTTAGCCATCTCCAAAGCCGCATGTTTTCTTTCTTCAACAGCCTTCTTCTTCGACTCTTCGG
1 TGCTTTAGCCATCTCCAAATCAGCACATTTTCTTTCTTCAACAGCCTTCTTCTTCGATTCTTCTG
* * *
7898511 CAATCTTCCTCTGCTCCTGTGCTTTAGCCATCTCCAAAGCAGCATGTTTTCTTTCTTCAAAAGCC
66 CAATCTTCCTCTGCTCCTGTGCTTTAGCCATCTCCAAATCAGCACGTTTTCTTTCTTCAACAGCC
* *
7898576 TTCTTCTTCAAT-TCTTCTGCAGTCTTCCTCTTCTCCTG
131 TTCTTCTT-AATCTCTTCTGCAATCTTCCTCTCCTCCTG
* * *
7898614 TGCTTTAGCAATCTCCAAATCAGCACATTTTCTTTCTTCAACAGCTTTCTTCTTCAATTCTTCTG
1 TGCTTTAGCCATCTCCAAATCAGCACATTTTCTTTCTTCAACAGCCTTCTTCTTCGATTCTTCTG
* * * *
7898679 CAGTCTTCCTTTGCTCCTGTGCTTTAGCAATCTCCAAATCAGCACATTTTCTTTCTTCAACAGCC
66 CAATCTTCCTCTGCTCCTGTGCTTTAGCCATCTCCAAATCAGCACGTTTTCTTTCTTCAACAGCC
* *
7898744 TTCTTCTTCATCTCTTCTGCAACCTTCCTCTCCTCCTG
131 TTCTTCTTAATCTCTTCTGCAATCTTCCTCTCCTCCTG
* * * * *
7898782 TGCTTTAGCCATCTCCAGATCAGCACATTTTCTATCTTCAACA-CC-T-TTCTTAGATTTTTCTA
1 TGCTTTAGCCATCTCCAAATCAGCACATTTTCTTTCTTCAACAGCCTTCTTCTTCGATTCTTCTG
* * * * * *
7898844 CAAACTTTCTCTGCTCCTTTGCTTTAGCCATCTCCGAATCAGCACCTTTTCTTTCTTCAACCGCC
66 CAATCTTCCTCTGCTCCTGTGCTTTAGCCATCTCCAAATCAGCACGTTTTCTTTCTTCAACAGCC
7898909 TTC
131 TTC
7898912 CTTGTTTCTT
Statistics
Matches: 402, Mismatches: 62, Indels: 7
0.85 0.13 0.01
Matches are distributed among these distances:
165 71 0.18
166 1 0.00
167 3 0.01
168 324 0.81
169 3 0.01
ACGTcount: A:0.17, C:0.32, G:0.10, T:0.41
Consensus pattern (168 bp):
TGCTTTAGCCATCTCCAAATCAGCACATTTTCTTTCTTCAACAGCCTTCTTCTTCGATTCTTCTG
CAATCTTCCTCTGCTCCTGTGCTTTAGCCATCTCCAAATCAGCACGTTTTCTTTCTTCAACAGCC
TTCTTCTTAATCTCTTCTGCAATCTTCCTCTCCTCCTG
Found at i:7898731 original size:252 final size:251
Alignment explanation
Indices: 7898278--7898911 Score: 778
Period size: 252 Copynumber: 2.5 Consensus size: 251
7898268 TAGTTGCTTC
* * * * **
7898278 TGCTTTAGCGATCTCAAAATCGGCACATTTTCTTGCTTCAACAGCCTTCTTCTTGGTTTCTTCTG
1 TGCTTTAGCCATCTCCAAATCAGCACATTTTCTTTCTTCAACAGCCTTCTTCTT-AATTCTTCTG
* * * ** ** *
7898343 CAATCTTTCT-TTGCGCCTCTGATTCAGCCATCTGTAAATCAGCATGTTTTCTTTCTTCAACTGC
65 CAATCTTTCTCTT-CTCCTCTGCTTTAGCCATCTCCAAATCAGCACATTTTCTTTCTTCAACAGC
* * *
7898407 CTTCTTCTTAATCTCTTCTGCAATCTTCTTCTGCTCCTGTGCTTTAGCCATCTCCAAAGCCGCAT
129 CTTCTTCTTAATCTCTTCTGCAATCTTCTTCTGCTCCTGTGCTTTAGCAATCTCCAAAGCAGCAC
* * *
7898472 GTTTTCTTTCTTCAACAGCCTTCTTCTTCGA-CTCTTCGGCAATCTTCCTCTGCTCCTG
194 ATTTTCTTTCTTCAACAGCCTTCTTCTTC-ATCTCTTCGGCAACCTTCCTCTCCTCCTG
* ** *
7898530 TGCTTTAGCCATCTCCAAAGCAGCATGTTTTCTTTCTTCAAAAGCCTTCTTCTTCAATTCTTCTG
1 TGCTTTAGCCATCTCCAAATCAGCACATTTTCTTTCTTCAACAGCCTTCTTCTT-AATTCTTCTG
* * * * *
7898595 CAGTCTTCCTCTTCTCCTGTGCTTTAGCAATCTCCAAATCAGCACATTTTCTTTCTTCAACAGCT
65 CAATCTTTCTCTTCTCCTCTGCTTTAGCCATCTCCAAATCAGCACATTTTCTTTCTTCAACAGCC
* *
7898660 TTCTTCTTCAAT-TCTTCTGCAGTCTTCCTT-TGCTCCTGTGCTTTAGCAATCTCCAAATCAGCA
130 TTCTTCTT-AATCTCTTCTGCAATCTT-CTTCTGCTCCTGTGCTTTAGCAATCTCCAAAGCAGCA
*
7898723 CATTTTCTTTCTTCAACAGCCTTCTTCTTCATCTCTTCTGCAACCTTCCTCTCCTCCTG
193 CATTTTCTTTCTTCAACAGCCTTCTTCTTCATCTCTTCGGCAACCTTCCTCTCCTCCTG
* * * *
7898782 TGCTTTAGCCATCTCCAGATCAGCACATTTTCTATCTTCAACA-CC-T-TTCTTAGATTTTTCTA
1 TGCTTTAGCCATCTCCAAATCAGCACATTTTCTTTCTTCAACAGCCTTCTTCTTA-ATTCTTCTG
* * * * * *
7898844 CAAACTTTCTCTGCTCCTTTGCTTTAGCCATCTCCGAATCAGCACCTTTTCTTTCTTCAACCGCC
65 CAATCTTTCTCTTCTCCTCTGCTTTAGCCATCTCCAAATCAGCACATTTTCTTTCTTCAACAGCC
7898909 TTC
130 TTC
7898912 CTTGTTTCTT
Statistics
Matches: 326, Mismatches: 51, Indels: 13
0.84 0.13 0.03
Matches are distributed among these distances:
248 1 0.00
249 70 0.21
250 1 0.00
251 3 0.01
252 243 0.75
253 8 0.02
ACGTcount: A:0.17, C:0.32, G:0.10, T:0.41
Consensus pattern (251 bp):
TGCTTTAGCCATCTCCAAATCAGCACATTTTCTTTCTTCAACAGCCTTCTTCTTAATTCTTCTGC
AATCTTTCTCTTCTCCTCTGCTTTAGCCATCTCCAAATCAGCACATTTTCTTTCTTCAACAGCCT
TCTTCTTAATCTCTTCTGCAATCTTCTTCTGCTCCTGTGCTTTAGCAATCTCCAAAGCAGCACAT
TTTCTTTCTTCAACAGCCTTCTTCTTCATCTCTTCGGCAACCTTCCTCTCCTCCTG
Found at i:7901166 original size:14 final size:15
Alignment explanation
Indices: 7901130--7901168 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
7901120 ACTTTTTATG
7901130 ATTTTTTTAATATTT
1 ATTTTTTTAATATTT
7901145 ATTTTTTTAAT-TTT
1 ATTTTTTTAATATTT
7901159 -TTTGTTTTAA
1 ATTT-TTTTAA
7901169 AATATAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 3 0.13
14 9 0.39
15 11 0.48
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (15 bp):
ATTTTTTTAATATTT
Found at i:7909462 original size:29 final size:28
Alignment explanation
Indices: 7909429--7909499 Score: 70
Period size: 29 Copynumber: 2.5 Consensus size: 28
7909419 ATTTTAAGGG
* *
7909429 TTTAGGATTTAGGTTTTTAGTGTTCATGT
1 TTTAGGATTTAGGTTTTT-GTGTTCAGGA
* * *
7909458 TTTAGGGTTTATGATTTTTGTGTTTAGGA
1 TTTAGGATTTA-GGTTTTTGTGTTCAGGA
*
7909487 TTTAAGATTTAGG
1 TTTAGGATTTAGG
7909500 GTTTATGTTT
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
28 1 0.03
29 26 0.79
30 6 0.18
ACGTcount: A:0.20, C:0.01, G:0.25, T:0.54
Consensus pattern (28 bp):
TTTAGGATTTAGGTTTTTGTGTTCAGGA
Found at i:7909484 original size:36 final size:36
Alignment explanation
Indices: 7909420--7909518 Score: 96
Period size: 36 Copynumber: 2.8 Consensus size: 36
7909410 GTTGGTATGA
* * *
7909420 TTTTAAGGGTTTAGGA-TTTAGGTTTTTAGTG-TTCATG
1 TTTT-AGGGTTTATGATTTTA-GTGTTTAG-GATTCAAG
* *
7909457 TTTTAGGGTTTATGATTTTTGTGTTTAGGATTTAAG
1 TTTTAGGGTTTATGATTTTAGTGTTTAGGATTCAAG
*
7909493 ATTTAGGGTTTATG-TTTTAGTGTTTA
1 TTTTAGGGTTTATGATTTTAGTGTTTA
7909519 TGGTTTAGGA
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
35 12 0.23
36 34 0.64
37 7 0.13
ACGTcount: A:0.19, C:0.01, G:0.25, T:0.55
Consensus pattern (36 bp):
TTTTAGGGTTTATGATTTTAGTGTTTAGGATTCAAG
Found at i:7909499 original size:14 final size:14
Alignment explanation
Indices: 7909480--7909531 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
7909470 GATTTTTGTG
*
7909480 TTTAGGATTTAAGA
1 TTTAGGATTTATGA
* *
7909494 TTTAGGGTTTATGT
1 TTTAGGATTTATGA
*
7909508 TTTAGTG-TTTATGG
1 TTTAG-GATTTATGA
7909522 TTTAGGATTT
1 TTTAGGATTT
7909532 GTTTTTAGGG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
13 1 0.03
14 30 0.94
15 1 0.03
ACGTcount: A:0.21, C:0.00, G:0.25, T:0.54
Consensus pattern (14 bp):
TTTAGGATTTATGA
Found at i:7912367 original size:9 final size:9
Alignment explanation
Indices: 7912353--7912391 Score: 62
Period size: 9 Copynumber: 4.3 Consensus size: 9
7912343 TTTAATCTTT
7912353 TAAAAATTA
1 TAAAAATTA
7912362 TAAAAA-TA
1 TAAAAATTA
7912370 TAAAAATTA
1 TAAAAATTA
7912379 TAAAAATATA
1 TAAAAAT-TA
7912389 TAA
1 TAA
7912392 TTTAATTTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.29
9 15 0.54
10 5 0.18
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (9 bp):
TAAAAATTA
Found at i:7912375 original size:17 final size:17
Alignment explanation
Indices: 7912353--7912388 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
7912343 TTTAATCTTT
7912353 TAAAAATTATAAAAATA
1 TAAAAATTATAAAAATA
7912370 TAAAAATTATAAAAATA
1 TAAAAATTATAAAAATA
7912387 TA
1 TA
7912389 TAATTTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
TAAAAATTATAAAAATA
Found at i:7916459 original size:17 final size:18
Alignment explanation
Indices: 7916423--7916465 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
7916413 AATGAACTTC
*
7916423 ATAACTAAAAATGCTATT
1 ATAAATAAAAATGCTATT
*
7916441 ATAAATAAAAA-GCTGTT
1 ATAAATAAAAATGCTATT
*
7916458 ATAGATAA
1 ATAAATAA
7916466 TCAAAATAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 12 0.55
18 10 0.45
ACGTcount: A:0.53, C:0.07, G:0.09, T:0.30
Consensus pattern (18 bp):
ATAAATAAAAATGCTATT
Found at i:7917361 original size:7 final size:7
Alignment explanation
Indices: 7917351--7917380 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
7917341 AGCATTGTAT
7917351 CTTCCCA
1 CTTCCCA
7917358 CTTCCCA
1 CTTCCCA
7917365 CTTCCCA
1 CTTCCCA
*
7917372 CTTGCCA
1 CTTCCCA
7917379 CT
1 CT
7917381 GCAAATCTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.13, C:0.53, G:0.03, T:0.30
Consensus pattern (7 bp):
CTTCCCA
Found at i:7917753 original size:25 final size:25
Alignment explanation
Indices: 7917722--7917780 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
7917712 TGTATCGTAG
* * *
7917722 AAATTATTTTTTTAATATTATATAT
1 AAATTATTTATTAAATATTAAATAT
*
7917747 AAATTATGTATTAAATATTAAATAT
1 AAATTATTTATTAAATATTAAATAT
*
7917772 GAATCTATT
1 AAAT-TATT
7917781 CTGAAATAGT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
25 24 0.89
26 3 0.11
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.51
Consensus pattern (25 bp):
AAATTATTTATTAAATATTAAATAT
Found at i:7919204 original size:5 final size:5
Alignment explanation
Indices: 7919194--7919219 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
7919184 TTGACATTCT
7919194 TTTTA TTTTA TTTTA TTTTA TTTTA T
1 TTTTA TTTTA TTTTA TTTTA TTTTA T
7919220 GATGATGTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:7929749 original size:29 final size:30
Alignment explanation
Indices: 7929696--7929752 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
7929686 GAATTTGATC
*
7929696 AAATCAAAATTTCATGTATAAAATTACATA
1 AAATCAAAATTTCATATATAAAATTACATA
* *
7929726 AAATCAAAGTTT-ATATATACAATTACA
1 AAATCAAAATTTCATATATAAAATTACA
7929753 CATTAAACCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 13 0.54
30 11 0.46
ACGTcount: A:0.53, C:0.11, G:0.04, T:0.33
Consensus pattern (30 bp):
AAATCAAAATTTCATATATAAAATTACATA
Found at i:7930474 original size:7 final size:7
Alignment explanation
Indices: 7930464--7930489 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
7930454 CAAAAAGCAA
7930464 AAAAAAG
1 AAAAAAG
7930471 AAAAAAG
1 AAAAAAG
7930478 AAAAAAG
1 AAAAAAG
7930485 AAAAA
1 AAAAA
7930490 TAAGAAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:7930481 original size:16 final size:16
Alignment explanation
Indices: 7930450--7930500 Score: 50
Period size: 16 Copynumber: 3.0 Consensus size: 16
7930440 ACTCGGCAGG
7930450 GAAACAAAAAGCAAAAAA
1 GAAA-AAAAAG-AAAAAA
7930468 -AAGAAAAAAGAAAAAA
1 GAA-AAAAAAGAAAAAA
*
7930484 GAAAAATAAGAAGAAAA
1 GAAAAAAAAGAA-AAAA
7930501 TATAAATATC
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
16 14 0.48
17 14 0.48
18 1 0.03
ACGTcount: A:0.80, C:0.04, G:0.14, T:0.02
Consensus pattern (16 bp):
GAAAAAAAAGAAAAAA
Found at i:7933443 original size:96 final size:98
Alignment explanation
Indices: 7933278--7933469 Score: 291
Period size: 96 Copynumber: 2.0 Consensus size: 98
7933268 ATTTTGTAAG
* * * *
7933278 AGTCATATGCATTGCTTTTAAAATCTCGAGGTTGACTGAGCAATATAACTCTGGTTATATACGAA
1 AGTCATATGCATTGCTTTTAAAATCTCGAAGTTGACAGAGCAATATAACCCTGGTTATACACGAA
*
7933343 G-AAAAGAG-ACAAAAAGAAAAAGAATCTTAAT
66 GAAAAAGAGAAAAAAAAGAAAAAGAATCTTAAT
* *
7933374 AGTCATATGCATTTCTTTTAAAATCTCGAAGTTGACAGAGCAATATGACCCTGGTTATACAC-AA
1 AGTCATATGCATTGCTTTTAAAATCTCGAAGTTGACAGAGCAATATAACCCTGGTTATACACGAA
7933438 TGAAAAAGAGAAAAAAAAGAAAAAGAATCTTA
66 -GAAAAAGAGAAAAAAAAGAAAAAGAATCTTA
7933470 TGCCAAGCTG
Statistics
Matches: 86, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
95 2 0.02
96 57 0.66
97 7 0.08
98 20 0.23
ACGTcount: A:0.44, C:0.13, G:0.17, T:0.26
Consensus pattern (98 bp):
AGTCATATGCATTGCTTTTAAAATCTCGAAGTTGACAGAGCAATATAACCCTGGTTATACACGAA
GAAAAAGAGAAAAAAAAGAAAAAGAATCTTAAT
Found at i:7940938 original size:22 final size:22
Alignment explanation
Indices: 7940912--7940968 Score: 114
Period size: 22 Copynumber: 2.6 Consensus size: 22
7940902 CTATTATTAT
7940912 TTATTGTTCTTTTTTGGCTTCA
1 TTATTGTTCTTTTTTGGCTTCA
7940934 TTATTGTTCTTTTTTGGCTTCA
1 TTATTGTTCTTTTTTGGCTTCA
7940956 TTATTGTTCTTTT
1 TTATTGTTCTTTT
7940969 AATTATGTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.09, C:0.12, G:0.12, T:0.67
Consensus pattern (22 bp):
TTATTGTTCTTTTTTGGCTTCA
Found at i:7948014 original size:105 final size:105
Alignment explanation
Indices: 7947825--7948030 Score: 308
Period size: 105 Copynumber: 2.0 Consensus size: 105
7947815 AACGAAGAGC
* * * * *
7947825 TTTCTTTCAAAGGTGTATTTTTGTGCTGGTCATTTTAGCTCATTTCATTTTTAAGTTCCTCCTCG
1 TTTCATTCAAAGGTGTATCTTTGTGCTGATCATTTCAGCTCATTTCAGTTTTAAGTTCCTCCTCG
7947890 GCTTCTTGATTTTACTTTGTGATTGTTGAGATGCTTGAGT
66 GCTTCTTGATTTTACTTTGTGATTGTTGAGATGCTTGAGT
7947930 TTTCATTCAAAGGTGTATCCTTT-TGCTGATCATTTCAGCTCATTTCAGTTTT-AGATTCCTCCT
1 TTTCATTCAAAGGTGTAT-CTTTGTGCTGATCATTTCAGCTCATTTCAGTTTTAAG-TTCCTCCT
* * *
7947993 TGGCTTCTTGCTTTTATTTTGTGATTGTTGAGATGCTT
64 CGGCTTCTTGATTTTACTTTGTGATTGTTGAGATGCTT
7948031 TCAATCTGTT
Statistics
Matches: 91, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
104 2 0.02
105 86 0.95
106 3 0.03
ACGTcount: A:0.16, C:0.17, G:0.18, T:0.50
Consensus pattern (105 bp):
TTTCATTCAAAGGTGTATCTTTGTGCTGATCATTTCAGCTCATTTCAGTTTTAAGTTCCTCCTCG
GCTTCTTGATTTTACTTTGTGATTGTTGAGATGCTTGAGT
Found at i:7957527 original size:23 final size:23
Alignment explanation
Indices: 7957496--7957539 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
7957486 TTGCCCGATT
*
7957496 TATATAAATA-ATCATTAAAAAAA
1 TATAAAAATATAT-ATTAAAAAAA
7957519 TATAAAAATATATATTAAAAA
1 TATAAAAATATATATTAAAAA
7957540 TCTAATTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (23 bp):
TATAAAAATATATATTAAAAAAA
Found at i:7963770 original size:4 final size:4
Alignment explanation
Indices: 7963761--7963785 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
7963751 AGAAATAAGA
7963761 ATGT ATGT ATGT ATGT ATGT ATGT A
1 ATGT ATGT ATGT ATGT ATGT ATGT A
7963786 AGACTTGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (4 bp):
ATGT
Found at i:7964713 original size:3 final size:3
Alignment explanation
Indices: 7964705--7964731 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
7964695 AACTATAACT
7964705 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
7964732 TAAAGAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:7972889 original size:15 final size:15
Alignment explanation
Indices: 7972869--7972900 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
7972859 TATTCATATA
*
7972869 AAATATAAAAGAAAT
1 AAATATAAAAAAAAT
7972884 AAATATAAAAAAAAT
1 AAATATAAAAAAAAT
7972899 AA
1 AA
7972901 TAATGAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (15 bp):
AAATATAAAAAAAAT
Found at i:7977203 original size:30 final size:31
Alignment explanation
Indices: 7977167--7977228 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 31
7977157 AGCTTTGAAT
*
7977167 TGCATATTACCCTCTTCACTTA-AAAAAGAG
1 TGCATATTAACCTCTTCACTTAGAAAAAGAG
* *
7977197 TGCATATTAACCTCTTTACTTAGAAAATGAG
1 TGCATATTAACCTCTTCACTTAGAAAAAGAG
7977228 T
1 T
7977229 CTCTTTGTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 20 0.71
31 8 0.29
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.34
Consensus pattern (31 bp):
TGCATATTAACCTCTTCACTTAGAAAAAGAG
Found at i:7978452 original size:23 final size:23
Alignment explanation
Indices: 7978412--7978462 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
7978402 CATCTAAACA
* * *
7978412 ACAAAAATAACAATAAAAGTAGC
1 ACAAAAACAACAACAAAAATAGC
*
7978435 ACAAAAACAATAACAAAAATAGC
1 ACAAAAACAACAACAAAAATAGC
7978458 A-AAAA
1 ACAAAA
7978463 CACACACTAG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 4 0.17
23 20 0.83
ACGTcount: A:0.71, C:0.14, G:0.06, T:0.10
Consensus pattern (23 bp):
ACAAAAACAACAACAAAAATAGC
Found at i:7991896 original size:22 final size:22
Alignment explanation
Indices: 7991879--7991932 Score: 108
Period size: 22 Copynumber: 2.5 Consensus size: 22
7991869 AGAGGGAGGA
7991879 AAAGAGGAGAAATAAGGGGGGC
1 AAAGAGGAGAAATAAGGGGGGC
7991901 AAAGAGGAGAAATAAGGGGGGC
1 AAAGAGGAGAAATAAGGGGGGC
7991923 AAAGAGGAGA
1 AAAGAGGAGA
7991933 GAGAAATTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.48, C:0.04, G:0.44, T:0.04
Consensus pattern (22 bp):
AAAGAGGAGAAATAAGGGGGGC
Found at i:8005149 original size:17 final size:17
Alignment explanation
Indices: 8005117--8005150 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
8005107 AAAGAGTACT
* *
8005117 ATGAAATAATATATCTA
1 ATGAAATAACACATCTA
8005134 ATGAAATAACACATCTA
1 ATGAAATAACACATCTA
8005151 GTATAATAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.12, G:0.06, T:0.29
Consensus pattern (17 bp):
ATGAAATAACACATCTA
Found at i:8007119 original size:5 final size:5
Alignment explanation
Indices: 8007109--8007134 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
8007099 GTTAATTGAT
8007109 GGCAA GGCAA GGCAA GGCAA GGCAA G
1 GGCAA GGCAA GGCAA GGCAA GGCAA G
8007135 TGAATCTCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.42, T:0.00
Consensus pattern (5 bp):
GGCAA
Found at i:8007786 original size:11 final size:11
Alignment explanation
Indices: 8007770--8007827 Score: 52
Period size: 11 Copynumber: 5.5 Consensus size: 11
8007760 ACTTAATTTA
8007770 AATATTAAAAT
1 AATATTAAAAT
*
8007781 AATATTAAGAT
1 AATATTAAAAT
*
8007792 GAT-TATATAAA-
1 AATAT-TA-AAAT
8007803 AA-ATTAAAAT
1 AATATTAAAAT
8007813 AA-ATTAAAAT
1 AATATTAAAAT
8007823 AATAT
1 AATAT
8007828 AAATACTTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
9 3 0.08
10 15 0.39
11 18 0.47
12 2 0.05
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (11 bp):
AATATTAAAAT
Found at i:8007828 original size:28 final size:29
Alignment explanation
Indices: 8007773--8007849 Score: 77
Period size: 28 Copynumber: 2.6 Consensus size: 29
8007763 TAATTTAAAT
*
8007773 ATTAAAATAATATTAAGATGATTATATAAA-AA
1 ATTAAAATAA-ATTAA-A--ATAATATAAATAA
*
8007805 ATTAAAATAAATTAAAATAATATAAATAC
1 ATTAAAATAAATTAAAATAATATAAATAA
*
8007834 TTTAAAA-AAATTAAAA
1 ATTAAAATAAATTAAAA
8007850 ATGAAATGTT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
28 18 0.44
29 7 0.17
30 1 0.02
31 5 0.12
32 10 0.24
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (29 bp):
ATTAAAATAAATTAAAATAATATAAATAA
Found at i:8016134 original size:21 final size:21
Alignment explanation
Indices: 8016096--8016135 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
8016086 TGAAGGAGGG
**
8016096 TTTGGGTTTTGCTTGAAGGAA
1 TTTGGGTTTTGCGGGAAGGAA
*
8016117 TTTGGGTTTTGGGGGAAGG
1 TTTGGGTTTTGCGGGAAGG
8016136 GTGGAAGGGG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.15, C:0.03, G:0.42, T:0.40
Consensus pattern (21 bp):
TTTGGGTTTTGCGGGAAGGAA
Found at i:8039311 original size:6 final size:7
Alignment explanation
Indices: 8039286--8039310 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
8039276 TAATCAAAGG
8039286 AAAAATA
1 AAAAATA
8039293 AAAAATA
1 AAAAATA
8039300 AAAAATA
1 AAAAATA
8039307 AAAA
1 AAAA
8039311 TTGTAAATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATA
Found at i:8042551 original size:12 final size:12
Alignment explanation
Indices: 8042531--8042564 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
8042521 GTCAGCTGCA
*
8042531 CTCTGCACACTT
1 CTCTTCACACTT
8042543 CTCTTCACACTT
1 CTCTTCACACTT
8042555 CTCTTCACAC
1 CTCTTCACAC
8042565 CCTCCCTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.18, C:0.44, G:0.03, T:0.35
Consensus pattern (12 bp):
CTCTTCACACTT
Found at i:8047447 original size:16 final size:17
Alignment explanation
Indices: 8047425--8047467 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
8047415 AAAAATAGAG
8047425 TTTTTTATTTTT-A-AA
1 TTTTTTATTTTTCACAA
8047440 TGTTTTTAATTTTTCACAA
1 T-TTTTT-ATTTTTCACAA
8047459 TTTTTTATT
1 TTTTTTATT
8047468 GAAAATATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
15 1 0.04
16 5 0.21
17 9 0.38
18 6 0.25
19 3 0.12
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.70
Consensus pattern (17 bp):
TTTTTTATTTTTCACAA
Found at i:8064985 original size:26 final size:26
Alignment explanation
Indices: 8064952--8065003 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
8064942 AACTGACATC
8064952 CAGATCAGGCCAAATTCATTGATCAT
1 CAGATCAGGCCAAATTCATTGATCAT
8064978 CAGATCAGGCCAAATTCATTGATCAT
1 CAGATCAGGCCAAATTCATTGATCAT
8065004 ACATTACAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (26 bp):
CAGATCAGGCCAAATTCATTGATCAT
Found at i:8066357 original size:6 final size:6
Alignment explanation
Indices: 8066346--8066407 Score: 115
Period size: 6 Copynumber: 10.3 Consensus size: 6
8066336 AGCCTATGTG
8066346 TCACTC TCACTC TCACTC TCACTC TCACTC TCACTC TCACTC TCACTC
1 TCACTC TCACTC TCACTC TCACTC TCACTC TCACTC TCACTC TCACTC
*
8066394 TCACCC TCACTC TC
1 TCACTC TCACTC TC
8066408 GATGGCGTCG
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 54 1.00
ACGTcount: A:0.16, C:0.52, G:0.00, T:0.32
Consensus pattern (6 bp):
TCACTC
Found at i:8066605 original size:27 final size:26
Alignment explanation
Indices: 8066550--8066606 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 26
8066540 TTGAATCGAG
* * *
8066550 TTTTAAATATTTTTACTCGATTTATA
1 TTTTAAATATTTTTAATCGATTAAAA
8066576 TTTTAAAGTATTATTTAAT-GATTAAAA
1 TTTTAAA-TATT-TTTAATCGATTAAAA
8066603 TTTT
1 TTTT
8066607 TATTTCATTC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 7 0.27
27 14 0.54
28 5 0.19
ACGTcount: A:0.35, C:0.04, G:0.05, T:0.56
Consensus pattern (26 bp):
TTTTAAATATTTTTAATCGATTAAAA
Found at i:8067317 original size:9 final size:9
Alignment explanation
Indices: 8067303--8067361 Score: 51
Period size: 9 Copynumber: 7.1 Consensus size: 9
8067293 ACAAATGATT
8067303 TTAAAATTA
1 TTAAAATTA
8067312 TTAAAATTA
1 TTAAAATTA
8067321 TT----TT-
1 TTAAAATTA
8067325 TTAAAA-TA
1 TTAAAATTA
8067333 -TAAAATTA
1 TTAAAATTA
8067341 TTAAAATTA
1 TTAAAATTA
8067350 TTTTAAAATTA
1 --TTAAAATTA
8067361 T
1 T
8067362 AATTATTATC
Statistics
Matches: 41, Mismatches: 0, Indels: 18
0.69 0.00 0.31
Matches are distributed among these distances:
4 2 0.05
5 2 0.05
7 6 0.15
8 2 0.05
9 20 0.49
11 9 0.22
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (9 bp):
TTAAAATTA
Found at i:8067370 original size:20 final size:20
Alignment explanation
Indices: 8067295--8067361 Score: 61
Period size: 20 Copynumber: 3.4 Consensus size: 20
8067285 TCACGTCAAC
*
8067295 AAATGATTTTAAAATTATTA
1 AAATTATTTTAAAATTATTA
8067315 AAATTATTTTTTAAAA-TA-TA
1 AAATTA--TTTTAAAATTATTA
8067335 AAATTA--TTAAAATTATTTTA
1 AAATTATTTTAAAATTA--TTA
8067355 AAATTAT
1 AAATTAT
8067362 AATTATTATC
Statistics
Matches: 39, Mismatches: 1, Indels: 13
0.74 0.02 0.25
Matches are distributed among these distances:
16 6 0.15
17 2 0.05
20 21 0.54
21 2 0.05
22 8 0.21
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (20 bp):
AAATTATTTTAAAATTATTA
Found at i:8067370 original size:29 final size:28
Alignment explanation
Indices: 8067304--8067369 Score: 100
Period size: 29 Copynumber: 2.4 Consensus size: 28
8067294 CAAATGATTT
8067304 TAAAATTATTAAAATTATTTTTTAAAATA
1 TAAAATTATTAAAATTA-TTTTTAAAATA
8067333 TAAAATTATTAAAATTA-TTTTAAAAT-
1 TAAAATTATTAAAATTATTTTTAAAATA
*
8067359 TATAATTATTA
1 TAAAATTATTA
8067370 TCCTATTCTT
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
26 10 0.28
27 9 0.25
29 17 0.47
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (28 bp):
TAAAATTATTAAAATTATTTTTAAAATA
Found at i:8068301 original size:27 final size:29
Alignment explanation
Indices: 8068261--8068321 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 29
8068251 ATGATAATGA
*
8068261 TTATAATTTT-AAAATAATTTTAATAATT
1 TTATAATTTTAAAAATAATTTCAATAATT
8068289 TTAT-ATTTTAAAAAAATAATTTCAATAATT
1 TTATAATTTT--AAAAATAATTTCAATAATT
8068319 TTA
1 TTA
8068322 AAATCATTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 5 0.17
28 4 0.14
30 20 0.69
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (29 bp):
TTATAATTTTAAAAATAATTTCAATAATT
Found at i:8069174 original size:6 final size:6
Alignment explanation
Indices: 8069163--8069204 Score: 84
Period size: 6 Copynumber: 7.0 Consensus size: 6
8069153 ACAAATATTC
8069163 TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT
1 TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT
8069205 GATGGAAGGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TATTTT
Found at i:8069315 original size:18 final size:18
Alignment explanation
Indices: 8069289--8069323 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
8069279 AAAGATATAT
* *
8069289 TAATTAATAATATTATTA
1 TAATAAATAATAATATTA
8069307 TAATAAATAATAATATT
1 TAATAAATAATAATATT
8069324 TTATTATTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TAATAAATAATAATATTA
Found at i:8069317 original size:21 final size:20
Alignment explanation
Indices: 8069293--8069338 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
8069283 ATATATTAAT
8069293 TAATAATATTATTATAATAAA
1 TAATAATATT-TTATAATAAA
* *
8069314 TAATAATATTTTATTATTAA
1 TAATAATATTTTATAATAAA
8069334 TAATA
1 TAATA
8069339 TACAATATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
TAATAATATTTTATAATAAA
Found at i:8079491 original size:18 final size:17
Alignment explanation
Indices: 8079453--8079491 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
8079443 TAACACCAAC
* *
8079453 TTAAATATTTGTTTCCT
1 TTAAATATTTATTTCCA
8079470 TTAAATATTTAATTTCCA
1 TTAAATATTT-ATTTCCA
8079488 TTAA
1 TTAA
8079492 GATTTTCATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.33, C:0.10, G:0.03, T:0.54
Consensus pattern (17 bp):
TTAAATATTTATTTCCA
Found at i:8081740 original size:24 final size:24
Alignment explanation
Indices: 8081713--8081763 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
8081703 TAAAAACAAT
8081713 TATATTAGAATTGTTATTAAATTA
1 TATATTAGAATTGTTATTAAATTA
** *
8081737 TATATTATTATTTTTATTAAATTA
1 TATATTAGAATTGTTATTAAATTA
8081761 TAT
1 TAT
8081764 TTAATAATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (24 bp):
TATATTAGAATTGTTATTAAATTA
Found at i:8081777 original size:24 final size:24
Alignment explanation
Indices: 8081726--8081777 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
8081716 ATTAGAATTG
* **
8081726 TTATTAAATTATATATTATTATTT
1 TTATTAAATTATATATTATAATAA
8081750 TTATTAAATTATAT-TTAATAATAA
1 TTATTAAATTATATATT-ATAATAA
8081774 TTAT
1 TTAT
8081778 ATTTAAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 2 0.08
24 22 0.92
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (24 bp):
TTATTAAATTATATATTATAATAA
Found at i:8081860 original size:21 final size:21
Alignment explanation
Indices: 8081813--8081860 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
8081803 TATTATTATT
**
8081813 AAATTATATTTAATAATAATT
1 AAATTATATTTAATAATAACA
**
8081834 CTATTATATTTAATAATAACA
1 AAATTATATTTAATAATAACA
8081855 AAATTA
1 AAATTA
8081861 ATTATTTACC
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (21 bp):
AAATTATATTTAATAATAACA
Found at i:8083024 original size:10 final size:10
Alignment explanation
Indices: 8083009--8083045 Score: 74
Period size: 10 Copynumber: 3.7 Consensus size: 10
8082999 AAATAACCAA
8083009 TTTTTAATTT
1 TTTTTAATTT
8083019 TTTTTAATTT
1 TTTTTAATTT
8083029 TTTTTAATTT
1 TTTTTAATTT
8083039 TTTTTAA
1 TTTTTAA
8083046 AAAACAGTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTTTAATTT
Found at i:8083137 original size:31 final size:31
Alignment explanation
Indices: 8083102--8083200 Score: 96
Period size: 30 Copynumber: 3.3 Consensus size: 31
8083092 AAATAAAAAA
8083102 ATTGATTTTGTAAAAATTGAGAGTTAAATTT
1 ATTGATTTTGTAAAAATTGAGAGTTAAATTT
* * * * *
8083133 ATTGATTTT-TTAAAATTTA-AATTAAAATG
1 ATTGATTTTGTAAAAATTGAGAGTTAAATTT
** * *
8083162 ATAAATTTTGTAAATATTGAGAGTTAATTTT
1 ATTGATTTTGTAAAAATTGAGAGTTAAATTT
8083193 ATT-ATTTT
1 ATTGATTTT
8083201 TTTATATTTA
Statistics
Matches: 51, Mismatches: 15, Indels: 5
0.72 0.21 0.07
Matches are distributed among these distances:
29 14 0.27
30 20 0.39
31 17 0.33
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.49
Consensus pattern (31 bp):
ATTGATTTTGTAAAAATTGAGAGTTAAATTT
Found at i:8083181 original size:60 final size:60
Alignment explanation
Indices: 8083106--8083259 Score: 193
Period size: 60 Copynumber: 2.5 Consensus size: 60
8083096 AAAAAAATTG
*
8083106 ATTTTGTAAAAATTGAGAGTTAAATTTATTGATTTTTTAAAATTTAA-ATTAAAATGATAA
1 ATTTTGTAAATATTGAGAGTTAAATTTATT-ATTTTTTAAAATTTAAGATTAAAATGATAA
* * * *
8083166 ATTTTGTAAATATTGAGAGTTAATTTTATTATTTTTTTATATTTAAGATTAAATTGATAA
1 ATTTTGTAAATATTGAGAGTTAAATTTATTATTTTTTAAAATTTAAGATTAAAATGATAA
* * * * *
8083226 AATATGTAAATATTAAAAGGCTAAATTTATTATT
1 ATTTTGTAAATATTGAGA-GTTAAATTTATTATT
8083260 AAACAAAAAA
Statistics
Matches: 81, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
59 14 0.17
60 54 0.67
61 13 0.16
ACGTcount: A:0.42, C:0.01, G:0.10, T:0.47
Consensus pattern (60 bp):
ATTTTGTAAATATTGAGAGTTAAATTTATTATTTTTTAAAATTTAAGATTAAAATGATAA
Found at i:8088890 original size:22 final size:22
Alignment explanation
Indices: 8088837--8088901 Score: 94
Period size: 22 Copynumber: 3.0 Consensus size: 22
8088827 TGGCAACAAT
*
8088837 AGGCACACAAAGTGCTGAACAG
1 AGGCACACACAGTGCTGAACAG
*
8088859 AAGCACACACAGTGCTGAACAG
1 AGGCACACACAGTGCTGAACAG
* *
8088881 AGGCACACACAATGTTGAACA
1 AGGCACACACAGTGCTGAACA
8088902 TAGGGCATGA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.42, C:0.25, G:0.23, T:0.11
Consensus pattern (22 bp):
AGGCACACACAGTGCTGAACAG
Found at i:8112802 original size:23 final size:23
Alignment explanation
Indices: 8112728--8112941 Score: 160
Period size: 23 Copynumber: 9.5 Consensus size: 23
8112718 TAAACGGAAC
* * *
8112728 AAACAGAGAGTAC-CGAAGTACT
1 AAACAGAGAGCACACAAAGTGCT
* *
8112750 GAACAGAGAGCACA-TAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
*
8112772 GGGCAACAGAGAGCACACAAAGTGCT
1 ---AAACAGAGAGCACACAAAGTGCT
*
8112798 AAACAGAGAGTACACAAA--G-T
1 AAACAGAGAGCACACAAAGTGCT
*
8112818 --AC--TGAGCACACAAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
8112837 AATCAGAGAGCACACGAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
8112860 AATCAGAGAGCACACACAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
8112883 AATAACAGAGAGCACGA-GACGTGCT
1 -A-AACAGAGAGCAC-ACAAAGTGCT
*
8112908 AAACAGAGAGCACACACAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
*
8112931 AATCAGAGAGC
1 AAACAGAGAGC
8112942 GCGCTAGTGT
Statistics
Matches: 153, Mismatches: 23, Indels: 31
0.74 0.11 0.15
Matches are distributed among these distances:
16 10 0.07
18 3 0.02
19 1 0.01
20 1 0.01
21 2 0.01
22 18 0.12
23 79 0.52
24 2 0.01
25 29 0.19
26 8 0.05
ACGTcount: A:0.42, C:0.21, G:0.25, T:0.12
Consensus pattern (23 bp):
AAACAGAGAGCACACAAAGTGCT
Found at i:8112807 original size:48 final size:44
Alignment explanation
Indices: 8112729--8112941 Score: 168
Period size: 48 Copynumber: 4.8 Consensus size: 44
8112719 AAACGGAACA
* * * * *
8112729 AACAGAGAGTAC-CGAAGTACTGAACAGAGAGCACATAAGTGCT
1 AACAGAGAGCACACAAAGTGCTAAACAGAGAGCACAGAAGTGCT
* * *
8112772 GGGCAACAGAGAGCACACAAAGTGCTAAACAGAGAGTACACAA-AG-T
1 ----AACAGAGAGCACACAAAGTGCTAAACAGAGAGCACAGAAGTGCT
* *
8112818 -AC--TGAGCACACAAAGTGCTAATCAGAGAGCACACGAAGTGCT
1 AACAGAGAGCACACAAAGTGCTAAACAGAGAGCACA-GAAGTGCT
* *
8112860 AATCAGAGAGCACACACAGTGCTAATAACAGAGAGCACGAGACGTGCT
1 AA-CAGAGAGCACACAAAGTGCT-A-AACAGAGAGCAC-AGAAGTGCT
* *
8112908 AAACAGAGAGCACACACAGTGCTAATCAGAGAGC
1 -AACAGAGAGCACACAAAGTGCTAAACAGAGAGC
8112942 GCGCTAGTGT
Statistics
Matches: 137, Mismatches: 17, Indels: 25
0.77 0.09 0.14
Matches are distributed among these distances:
39 28 0.20
40 2 0.01
41 3 0.02
42 1 0.01
43 1 0.01
44 1 0.01
46 25 0.18
47 14 0.10
48 59 0.43
49 3 0.02
ACGTcount: A:0.42, C:0.22, G:0.25, T:0.12
Consensus pattern (44 bp):
AACAGAGAGCACACAAAGTGCTAAACAGAGAGCACAGAAGTGCT
Found at i:8112836 original size:39 final size:39
Alignment explanation
Indices: 8112782--8112856 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
8112772 GGGCAACAGA
*
8112782 GAGCACACAAAGTGCTAAACAGAGAGTACACAAAGTACT
1 GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGTACT
* *
8112821 GAGCACACAAAGTGCTAATCAGAGAGCACACGAAGT
1 GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGT
8112857 GCTAATCAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.12
Consensus pattern (39 bp):
GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGTACT
Found at i:8119247 original size:23 final size:23
Alignment explanation
Indices: 8119173--8119386 Score: 153
Period size: 23 Copynumber: 9.5 Consensus size: 23
8119163 TAAACGGAAC
* * *
8119173 AAACAGAGAGTAC-CGAAGTACT
1 AAACAGAGAGCACACAAAGTGCT
* *
8119195 GAACAGAGAGCACA-TAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
*
8119217 GGGCAACAGAGAGCACACAAAGTGCT
1 ---AAACAGAGAGCACACAAAGTGCT
*
8119243 AAACAGAGAGTACACAAA--G-T
1 AAACAGAGAGCACACAAAGTGCT
*
8119263 --AC--TGAGCACACAAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
8119282 AATCAGAGAGCACACGAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
8119305 AATCAGAGAGCACACACAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
8119328 AATAACAGAGAGCACGA-GACGTGCT
1 -A-AACAGAGAGCAC-ACAAAGTGCT
8119353 AAACAGAGAGCACACACAA-TGCT
1 AAACAGAGAGCACACA-AAGTGCT
*
8119376 AATCAGAGAGC
1 AAACAGAGAGC
8119387 GCGCTAGTGT
Statistics
Matches: 153, Mismatches: 22, Indels: 33
0.74 0.11 0.16
Matches are distributed among these distances:
16 10 0.07
18 3 0.02
19 1 0.01
20 1 0.01
21 2 0.01
22 18 0.12
23 78 0.51
24 3 0.02
25 29 0.19
26 8 0.05
ACGTcount: A:0.43, C:0.21, G:0.24, T:0.12
Consensus pattern (23 bp):
AAACAGAGAGCACACAAAGTGCT
Found at i:8119281 original size:39 final size:39
Alignment explanation
Indices: 8119227--8119301 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
8119217 GGGCAACAGA
*
8119227 GAGCACACAAAGTGCTAAACAGAGAGTACACAAAGTACT
1 GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGTACT
* *
8119266 GAGCACACAAAGTGCTAATCAGAGAGCACACGAAGT
1 GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGT
8119302 GCTAATCAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.12
Consensus pattern (39 bp):
GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGTACT
Found at i:8119340 original size:48 final size:46
Alignment explanation
Indices: 8119266--8119386 Score: 172
Period size: 48 Copynumber: 2.6 Consensus size: 46
8119256 ACAAAGTACT
* *
8119266 GAGCACACAAAGTGCTAATCAGAGAGCAC-ACGAAGTGCTAATCAGA
1 GAGCACACACAGTGCTAATCAGAGAGCACGA-GAAGTGCTAAACAGA
*
8119312 GAGCACACACAGTGCTAATAACAGAGAGCACGAGACGTGCTAAACAGA
1 GAGCACACACAGTGCTAAT--CAGAGAGCACGAGAAGTGCTAAACAGA
*
8119360 GAGCACACACAATGCTAATCAGAGAGC
1 GAGCACACACAGTGCTAATCAGAGAGC
8119387 GCGCTAGTGT
Statistics
Matches: 68, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
46 26 0.38
48 41 0.60
49 1 0.01
ACGTcount: A:0.41, C:0.23, G:0.24, T:0.12
Consensus pattern (46 bp):
GAGCACACACAGTGCTAATCAGAGAGCACGAGAAGTGCTAAACAGA
Found at i:8143164 original size:9 final size:9
Alignment explanation
Indices: 8143150--8143245 Score: 50
Period size: 9 Copynumber: 10.0 Consensus size: 9
8143140 TTTTAGTGGG
8143150 ATAATTTTT
1 ATAATTTTT
8143159 ATAATTTTTT
1 ATAA-TTTTT
* *
8143169 TTACGAATTTT
1 ATA--ATTTTT
8143180 AT-ATTTTT
1 ATAATTTTT
*
8143188 TTACATTTTTT
1 ATA-A-TTTTT
*
8143199 ATTATTTTT
1 ATAATTTTT
* * *
8143208 TTAAGATTTC
1 ATAA-TTTTT
8143218 ATAATTTTTT
1 ATAA-TTTTT
8143228 ATAATTTTT
1 ATAATTTTT
*
8143237 ATAGTTTTT
1 ATAATTTTT
8143246 TTATTAAAAT
Statistics
Matches: 64, Mismatches: 16, Indels: 14
0.68 0.17 0.15
Matches are distributed among these distances:
8 6 0.09
9 24 0.38
10 22 0.34
11 11 0.17
12 1 0.02
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.67
Consensus pattern (9 bp):
ATAATTTTT
Found at i:8143188 original size:19 final size:19
Alignment explanation
Indices: 8143164--8143248 Score: 68
Period size: 19 Copynumber: 4.4 Consensus size: 19
8143154 TTTTTATAAT
8143164 TTTTTTTACGAATTTTATA
1 TTTTTTTACGAATTTTATA
*
8143183 TTTTTTTAC-ATTTTTTATTA
1 TTTTTTTACGA-ATTTTA-TA
* *
8143203 TTTTTTTAAG-ATTTCATA
1 TTTTTTTACGAATTTTATA
* *
8143221 ATTTTTTA-TAATTTTTATA
1 TTTTTTTACGAA-TTTTATA
8143240 GTTTTTTTA
1 -TTTTTTTA
8143249 TTAAAATTTA
Statistics
Matches: 52, Mismatches: 8, Indels: 11
0.73 0.11 0.15
Matches are distributed among these distances:
18 11 0.21
19 24 0.46
20 17 0.33
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.68
Consensus pattern (19 bp):
TTTTTTTACGAATTTTATA
Found at i:8143204 original size:20 final size:20
Alignment explanation
Indices: 8143153--8143216 Score: 69
Period size: 19 Copynumber: 3.2 Consensus size: 20
8143143 TAGTGGGATA
*
8143153 ATTTTTATAATTTTTTTTACG
1 ATTTTTATTA-TTTTTTTACG
*
8143174 AATTTTA-TATTTTTTTAC-
1 ATTTTTATTATTTTTTTACG
*
8143192 ATTTTTTATTATTTTTTTAAG
1 A-TTTTTATTATTTTTTTACG
8143213 ATTT
1 ATTT
8143217 CATAATTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
18 1 0.03
19 14 0.39
20 14 0.39
21 7 0.19
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.69
Consensus pattern (20 bp):
ATTTTTATTATTTTTTTACG
Found at i:8143226 original size:38 final size:40
Alignment explanation
Indices: 8143152--8143248 Score: 110
Period size: 38 Copynumber: 2.5 Consensus size: 40
8143142 TTAGTGGGAT
* * * * *
8143152 AATTTTTATAATTTTTTTTACGAATTTTATATTTTTTTAC
1 AATTTTTATTAGTTTTTTTAAGAATTTCATAATTTTTTAC
* *
8143192 ATTTTTTATTA-TTTTTTTAAG-ATTTCATAATTTTTTAT
1 AATTTTTATTAGTTTTTTTAAGAATTTCATAATTTTTTAC
8143230 AATTTTTA-TAGTTTTTTTA
1 AATTTTTATTAGTTTTTTTA
8143249 TTAAAATTTA
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
37 2 0.04
38 29 0.59
39 9 0.18
40 9 0.18
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.67
Consensus pattern (40 bp):
AATTTTTATTAGTTTTTTTAAGAATTTCATAATTTTTTAC
Found at i:8143624 original size:90 final size:88
Alignment explanation
Indices: 8143367--8143606 Score: 297
Period size: 90 Copynumber: 2.7 Consensus size: 88
8143357 AAATAGAGTT
* * *
8143367 GGTTCAAGTACTCAATTGAGTGCAAAAAAAAAT-CAGGGGTTTAATTGTTTTTTTTTGAAAAATT
1 GGTTCAAGTATTCAA-TGAGTGC-AAAAAAAATGTAGAGGTTTAATTG-TTTTTTTT-AAAAATT
8143431 TTGAGGGTCTTTTTGATGCATTTTAAA
62 TTGAGGGTCTTTTTGATGCATTTTAAA
* * * * *
8143458 AGTTCAAGTATCCAATGGAGTGCAAAAACAATGTAGAGGTTTAATTACATTTTATTT-AAAATTT
1 GGTTCAAGTATTCAAT-GAGTGCAAAAAAAATGTAGAGGTTTAATT--GTTTTTTTTAAAAATTT
*
8143522 TGAGGGTCTTTTTGATGCATTTTGAA
63 TGAGGGTCTTTTTGATGCATTTTAAA
*
8143548 GGTTCAAGTATTCAACTGAGTG-AAAAAAAATGTTGAGGTTTAATTGTTTTTTTTAAAAA
1 GGTTCAAGTATTCAA-TGAGTGCAAAAAAAATGTAGAGGTTTAATTGTTTTTTTTAAAAA
8143607 AAAATTTAGG
Statistics
Matches: 128, Mismatches: 15, Indels: 15
0.81 0.09 0.09
Matches are distributed among these distances:
87 7 0.05
88 4 0.03
89 21 0.16
90 59 0.46
91 30 0.23
92 7 0.05
ACGTcount: A:0.34, C:0.07, G:0.19, T:0.40
Consensus pattern (88 bp):
GGTTCAAGTATTCAATGAGTGCAAAAAAAATGTAGAGGTTTAATTGTTTTTTTTAAAAATTTTGA
GGGTCTTTTTGATGCATTTTAAA
Found at i:8161090 original size:29 final size:29
Alignment explanation
Indices: 8161056--8161115 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
8161046 AAACCCTGAA
*
8161056 TATTAACATTAATCCA-AAATCCAAAATCT
1 TATTAACACTAA-CCATAAATCCAAAATCT
*
8161085 TATTAACACTAACCATATATCCAAAATCT
1 TATTAACACTAACCATAAATCCAAAATCT
8161114 TA
1 TA
8161116 CTTCACTACA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 3 0.11
29 25 0.89
ACGTcount: A:0.47, C:0.22, G:0.00, T:0.32
Consensus pattern (29 bp):
TATTAACACTAACCATAAATCCAAAATCT
Found at i:8163784 original size:23 final size:22
Alignment explanation
Indices: 8163746--8163798 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 22
8163736 TGAAAACCAT
*
8163746 TAAATATAA-AAAAATAGAG-A
1 TAAATATAATAAAAATAAAGAA
8163766 TAAATATAATAAATTAATAAAGAA
1 TAAATATAATAAA--AATAAAGAA
8163790 TAAA-ATAAT
1 TAAATATAAT
8163799 CCTTTTTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 9 0.32
21 3 0.11
23 11 0.39
24 5 0.18
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (22 bp):
TAAATATAATAAAAATAAAGAA
Found at i:8169001 original size:15 final size:16
Alignment explanation
Indices: 8168971--8169003 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
8168961 AGATGACTAT
*
8168971 ATAAAAAATTTAATAA
1 ATAAAAAATATAATAA
8168987 ATAAAAAATAT-ATAA
1 ATAAAAAATATAATAA
8169002 AT
1 AT
8169004 TTATTAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATAAAAAATATAATAA
Found at i:8175959 original size:31 final size:30
Alignment explanation
Indices: 8175771--8175965 Score: 102
Period size: 31 Copynumber: 6.4 Consensus size: 30
8175761 TTAATATAAT
* * **
8175771 ATTTGGTACCTGAACTTGACACGTTTTCCTA
1 ATTTGGTACCTAAATTTGAC-TTTTTTCCTA
*
8175802 ATTTGGTACCTAAACTTT---TTTTGGTCC-A
1 ATTTGGTACCTAAA-TTTGACTTTT-TTCCTA
*
8175830 ATTTGGTA-CTCAAACTTGACATTTTTTCCTA
1 ATTTGGTACCT-AAATTTGAC-TTTTTTCCTA
* **
8175861 ATTTGATACCTAAATTTGACATTTTTTTATTA
1 ATTTGGTACCTAAATTTGAC--TTTTTTCCTA
* * ***
8175893 AGTTGGTACTTAAACTTT---TTGGGGTCC-A
1 ATTTGGTACCTAAA-TTTGACTT-TTTTCCTA
8175921 ATTTTGGTACCTAAATTTGACTCTTTTTCCTA
1 A-TTTGGTACCTAAATTTGACT-TTTTTCCTA
8175953 ATTTGGTACCTAA
1 ATTTGGTACCTAA
8175966 TCTTTTTTAA
Statistics
Matches: 121, Mismatches: 25, Indels: 36
0.66 0.14 0.20
Matches are distributed among these distances:
27 4 0.03
28 21 0.17
29 15 0.12
30 3 0.02
31 49 0.40
32 26 0.21
33 3 0.02
ACGTcount: A:0.25, C:0.17, G:0.13, T:0.45
Consensus pattern (30 bp):
ATTTGGTACCTAAATTTGACTTTTTTCCTA
Found at i:8176626 original size:17 final size:17
Alignment explanation
Indices: 8176601--8176634 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
8176591 ACGAAACAGG
* *
8176601 GGAAGAAGAAAAGGGGA
1 GGAAAAAGAAAAAGGGA
8176618 GGAAAAAGAAAAAGGGA
1 GGAAAAAGAAAAAGGGA
8176635 AAACTAGGAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (17 bp):
GGAAAAAGAAAAAGGGA
Found at i:8177097 original size:3 final size:3
Alignment explanation
Indices: 8177089--8177121 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
8177079 AATAGTGTAA
8177089 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
8177122 TTTGTAGCTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:8178545 original size:59 final size:59
Alignment explanation
Indices: 8178431--8178591 Score: 175
Period size: 58 Copynumber: 2.7 Consensus size: 59
8178421 GGGTGTTACA
* *
8178431 TTAGGTACCAAATTAGAAAAAAATAACAAGTTTAAGTACCAAATTAGATTCAAAAAAGT
1 TTAGGTACCAAATTAGAAAAAAATAACAAGTTCAAGTACCAAATTAGAGTCAAAAAAGT
* * ** * *
8178490 TTAGGTATCAAATTA-AAAAAAGTGCCAAGTTCAGGTACCAAATT-GAGTCGAAAAAATT
1 TTAGGTACCAAATTAGAAAAAAATAACAAGTTCAAGTACCAAATTAGAGTC-AAAAAAGT
* * * *
8178548 TTAGATACAAAATTA-AGAAAAAATATCAAATTCAAGTACCAAAT
1 TTAGGTACCAAATTAGA-AAAAAATAACAAGTTCAAGTACCAAAT
8178592 AATATATTAA
Statistics
Matches: 84, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
57 4 0.05
58 44 0.52
59 36 0.43
ACGTcount: A:0.51, C:0.11, G:0.12, T:0.25
Consensus pattern (59 bp):
TTAGGTACCAAATTAGAAAAAAATAACAAGTTCAAGTACCAAATTAGAGTCAAAAAAGT
Found at i:8181040 original size:22 final size:25
Alignment explanation
Indices: 8181004--8181051 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 25
8180994 ATATTTATAA
8181004 TTTTTAAAATATT-AAAT-TAATTT
1 TTTTTAAAATATTAAAATGTAATTT
*
8181027 TTTTTAAAA-GTTAAAATGTAATTT
1 TTTTTAAAATATTAAAATGTAATTT
8181051 T
1 T
8181052 ATTATTATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 2 0.09
23 13 0.59
24 7 0.32
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (25 bp):
TTTTTAAAATATTAAAATGTAATTT
Found at i:8181678 original size:8 final size:8
Alignment explanation
Indices: 8181665--8181707 Score: 61
Period size: 8 Copynumber: 5.5 Consensus size: 8
8181655 GGTTGAATTT
8181665 AAATTTTA
1 AAATTTTA
8181673 AAA-TTTA
1 AAATTTTA
8181680 AAATTTTA
1 AAATTTTA
**
8181688 AAAGATTA
1 AAATTTTA
8181696 AAATTTTA
1 AAATTTTA
8181704 AAAT
1 AAAT
8181708 AAAAATATAG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
7 7 0.23
8 23 0.77
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (8 bp):
AAATTTTA
Found at i:8181698 original size:16 final size:15
Alignment explanation
Indices: 8181660--8181706 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
8181650 GAAAGGGTTG
*
8181660 AATTTAAATTTTAAA
1 AATTAAAATTTTAAA
*
8181675 ATTTAAAATTTTAAA
1 AATTAAAATTTTAAA
8181690 AGATTAAAATTTTAAA
1 A-ATTAAAATTTTAAA
8181706 A
1 A
8181707 TAAAAATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
15 14 0.50
16 14 0.50
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (15 bp):
AATTAAAATTTTAAA
Found at i:8187401 original size:2 final size:2
Alignment explanation
Indices: 8187394--8187422 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8187384 AAGTTTCAGA
8187394 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8187423 CATGGATTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8188267 original size:18 final size:18
Alignment explanation
Indices: 8188244--8188281 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
8188234 TACTAATGAC
8188244 TCATCTTTCCAGCCTTTG
1 TCATCTTTCCAGCCTTTG
8188262 TCATCTTTCCAGCCTTTG
1 TCATCTTTCCAGCCTTTG
8188280 TC
1 TC
8188282 TGAGGCTGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.11, C:0.34, G:0.11, T:0.45
Consensus pattern (18 bp):
TCATCTTTCCAGCCTTTG
Found at i:8192847 original size:18 final size:17
Alignment explanation
Indices: 8192810--8192844 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
8192800 ATTTTTTAAG
8192810 TGAAAAAAGTAAAATAT
1 TGAAAAAAGTAAAATAT
8192827 TGAAGAAAAG-AAAATAT
1 TGAA-AAAAGTAAAATAT
8192844 T
1 T
8192845 TGATAATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.63, C:0.00, G:0.14, T:0.23
Consensus pattern (17 bp):
TGAAAAAAGTAAAATAT
Found at i:8193279 original size:13 final size:13
Alignment explanation
Indices: 8193263--8193292 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
8193253 AATTATATAA
*
8193263 TTTTTTTCTTTTC
1 TTTTCTTCTTTTC
8193276 TTTTCTTCTTTTC
1 TTTTCTTCTTTTC
8193289 TTTT
1 TTTT
8193293 AGTTTTGACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTCTTCTTTTC
Found at i:8201015 original size:6 final size:6
Alignment explanation
Indices: 8201006--8201032 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
8200996 CGAAAACCGT
8201006 CTTTGC CTTTGC CTTTGC CTTTGC CTT
1 CTTTGC CTTTGC CTTTGC CTTTGC CTT
8201033 GTCTTCCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.33, G:0.15, T:0.52
Consensus pattern (6 bp):
CTTTGC
Found at i:8210141 original size:33 final size:31
Alignment explanation
Indices: 8210080--8210142 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
8210070 TTTTTGCACG
*
8210080 TCTTATAAAATTATTTTGTAAAATAATATAA
1 TCTTATAAAATTATTTAGTAAAATAATATAA
8210111 TCTTATAAAATGATATTTCAGTAAAA-AATATA
1 TCTTATAAAAT--TATTT-AGTAAAATAATATA
8210143 CACCTATTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
31 11 0.39
33 11 0.39
34 6 0.21
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (31 bp):
TCTTATAAAATTATTTAGTAAAATAATATAA
Found at i:8210901 original size:3 final size:3
Alignment explanation
Indices: 8210893--8210926 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
8210883 AGAAAGGGGA
*
8210893 AAG AAG AAG AAG AAG AA- AAA AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
8210927 AATGGAGATC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:8210916 original size:14 final size:15
Alignment explanation
Indices: 8210893--8210928 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
8210883 AGAAAGGGGA
*
8210893 AAGAAGAAGAAGAAG
1 AAGAAAAAGAAGAAG
8210908 AA-AAAAAGAAGAAG
1 AAGAAAAAGAAGAAG
8210922 AAGAAAA
1 AAGAAAA
8210929 TGGAGATCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (15 bp):
AAGAAAAAGAAGAAG
Found at i:8210916 original size:17 final size:17
Alignment explanation
Indices: 8210896--8210928 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
8210886 AAGGGGAAAG
8210896 AAGAAGAAGAAGAAAAA
1 AAGAAGAAGAAGAAAAA
8210913 AAGAAGAAGAAGAAAA
1 AAGAAGAAGAAGAAAA
8210929 TGGAGATCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (17 bp):
AAGAAGAAGAAGAAAAA
Found at i:8211082 original size:6 final size:6
Alignment explanation
Indices: 8211065--8211098 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
8211055 AAACCCATTC
*
8211065 CTTCAT CCTCAT CTTCAT CTTCAT CTTCAT CTTC
1 CTTCAT CTTCAT CTTCAT CTTCAT CTTCAT CTTC
8211099 CCTTTGAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.15, C:0.38, G:0.00, T:0.47
Consensus pattern (6 bp):
CTTCAT
Found at i:8212798 original size:45 final size:45
Alignment explanation
Indices: 8212734--8212828 Score: 145
Period size: 45 Copynumber: 2.1 Consensus size: 45
8212724 CCCCACTCAA
*
8212734 CTAATTATGTGGTTGTGGTTGAGACTTGAGATTATTAAATTAAAT
1 CTAATTATGTGATTGTGGTTGAGACTTGAGATTATTAAATTAAAT
* * *
8212779 CTAATTATGTTATTGTGGTTGAGACTTGAGGTTGTTAAATTAAAT
1 CTAATTATGTGATTGTGGTTGAGACTTGAGATTATTAAATTAAAT
*
8212824 ATAAT
1 CTAAT
8212829 CAATCAATCA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.32, C:0.04, G:0.21, T:0.43
Consensus pattern (45 bp):
CTAATTATGTGATTGTGGTTGAGACTTGAGATTATTAAATTAAAT
Found at i:8231454 original size:26 final size:26
Alignment explanation
Indices: 8231405--8231454 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
8231395 AAATATGTAA
* *
8231405 TATTTTAATTAAAAAATAATATTAAT
1 TATTTGAATTAAAAAATAACATTAAT
**
8231431 TATTTGAATTAATTAATAACATTA
1 TATTTGAATTAAAAAATAACATTA
8231455 TAAACATATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (26 bp):
TATTTGAATTAAAAAATAACATTAAT
Found at i:8232315 original size:20 final size:19
Alignment explanation
Indices: 8232290--8232331 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
8232280 CTCCTAATGC
8232290 TAAATAAT-TAATAATAACTA
1 TAAATAATATAAT-ATAA-TA
8232310 TAAATAATATAATATAATA
1 TAAATAATATAATATAATA
8232329 TAA
1 TAA
8232332 TACAAAACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.24
20 12 0.57
21 4 0.19
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (19 bp):
TAAATAATATAATATAATA
Found at i:8232323 original size:5 final size:5
Alignment explanation
Indices: 8232293--8232333 Score: 50
Period size: 5 Copynumber: 8.2 Consensus size: 5
8232283 CTAATGCTAA
8232293 ATAAT -TAAT AATAACT ATAA- ATAAT ATAAT ATAAT ATAAT A
1 ATAAT ATAAT -ATAA-T ATAAT ATAAT ATAAT ATAAT ATAAT A
8232334 CAAAACAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
4 8 0.25
5 16 0.50
6 7 0.22
7 1 0.03
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (5 bp):
ATAAT
Found at i:8233314 original size:15 final size:16
Alignment explanation
Indices: 8233290--8233322 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
8233280 TAAAACTTAT
*
8233290 ATTTTGAATAAAT-TA
1 ATTTTAAATAAATATA
8233305 ATTTTAAATAAATATA
1 ATTTTAAATAAATATA
8233321 AT
1 AT
8233323 ATATATAGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (16 bp):
ATTTTAAATAAATATA
Found at i:8233703 original size:30 final size:29
Alignment explanation
Indices: 8233626--8233705 Score: 72
Period size: 29 Copynumber: 2.7 Consensus size: 29
8233616 GGCAAAATAA
*
8233626 TAAAAGTTGGTAAAAAAAATTGAGACCCT
1 TAAAAGTTGATAAAAAAAATTGAGACCCT
* ** * *
8233655 TAAAAACTAAAAAAAAAAAATT-AGAGCTCT
1 T-AAAAGTTGATAAAAAAAATTGAGA-CCCT
*
8233685 TAAAAGTTGATAATAAAAATT
1 TAAAAGTTGATAAAAAAAATT
8233706 CTTTACCTTT
Statistics
Matches: 38, Mismatches: 11, Indels: 4
0.72 0.21 0.08
Matches are distributed among these distances:
29 19 0.50
30 19 0.50
ACGTcount: A:0.56, C:0.07, G:0.11, T:0.25
Consensus pattern (29 bp):
TAAAAGTTGATAAAAAAAATTGAGACCCT
Found at i:8234614 original size:23 final size:23
Alignment explanation
Indices: 8234558--8234627 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 23
8234548 TCATTAACAT
* *
8234558 TGTTCGTGAACGTGTTCAATTATA
1 TGTTCGTGAACATGTTCGATTA-A
* * *
8234582 TGTTCATGAATATGTTTGATTAA
1 TGTTCGTGAACATGTTCGATTAA
8234605 TGTTCGTGAACATGTTCGATTAA
1 TGTTCGTGAACATGTTCGATTAA
8234628 ATTAAATGAA
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
23 21 0.55
24 17 0.45
ACGTcount: A:0.27, C:0.10, G:0.20, T:0.43
Consensus pattern (23 bp):
TGTTCGTGAACATGTTCGATTAA
Found at i:8234654 original size:23 final size:23
Alignment explanation
Indices: 8234611--8234656 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
8234601 TTAATGTTCG
*
8234611 TGAACATGTTCGATTAAATTAAA
1 TGAACATGTTCGATGAAATTAAA
8234634 TGAACATGTTCG-TGAATATTAAA
1 TGAACATGTTCGATGAA-ATTAAA
8234657 CAAACGAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 3 0.14
23 18 0.86
ACGTcount: A:0.41, C:0.09, G:0.15, T:0.35
Consensus pattern (23 bp):
TGAACATGTTCGATGAAATTAAA
Found at i:8235629 original size:26 final size:26
Alignment explanation
Indices: 8235600--8235658 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
8235590 ATTATCTATA
*
8235600 AATATGTAA-TATTTTAATTAAAAAAT
1 AATAT-TAATTATTTGAATTAAAAAAT
**
8235626 AATATTAATTATTTGAATTAATTAAT
1 AATATTAATTATTTGAATTAAAAAAT
8235652 AATATTA
1 AATATTA
8235659 TAAAGGATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 3 0.10
26 26 0.90
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (26 bp):
AATATTAATTATTTGAATTAAAAAAT
Found at i:8236758 original size:3 final size:3
Alignment explanation
Indices: 8236750--8236784 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
8236740 AATTTAAAAT
8236750 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
8236785 CATATAGAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:8240754 original size:22 final size:22
Alignment explanation
Indices: 8240729--8240775 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
8240719 CATGCGCTTA
*
8240729 TATATTTTTTATA-TTTATATTT
1 TATAGTTTTTATAATTT-TATTT
8240751 TATAGTTTTTATAATTTTATTT
1 TATAGTTTTTATAATTTTATTT
8240773 TAT
1 TAT
8240776 TTAAAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 20 0.87
23 3 0.13
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (22 bp):
TATAGTTTTTATAATTTTATTT
Found at i:8243106 original size:24 final size:23
Alignment explanation
Indices: 8243071--8243122 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
8243061 CTATATAAAA
8243071 AAAATTAATAAATAAAAAATATAT
1 AAAATTAATAAATAAAAAATAT-T
* **
8243095 AAAATTATTAAATATTAAATATT
1 AAAATTAATAAATAAAAAATATT
8243118 AAAAT
1 AAAAT
8243123 AAGATAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 6 0.24
24 19 0.76
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (23 bp):
AAAATTAATAAATAAAAAATATT
Found at i:8247772 original size:30 final size:30
Alignment explanation
Indices: 8247732--8247873 Score: 169
Period size: 30 Copynumber: 4.8 Consensus size: 30
8247722 CTCGAAGGTC
8247732 AAAATGTGATTTTGAAAAAGTTTAGGGGTT
1 AAAATGTGATTTTGAAAAAGTTTAGGGGTT
** * *
8247762 AAAACATGATTTTAAAAAAGTTTGGGGGTT
1 AAAATGTGATTTTGAAAAAGTTTAGGGGTT
* *
8247792 AAAATGTGATTTTGGAAAAGTTTAAGGGTT
1 AAAATGTGATTTTGAAAAAGTTTAGGGGTT
* * *
8247822 AAAATGTAATTTTGGAAAAGTTTAGGGG-C
1 AAAATGTGATTTTGAAAAAGTTTAGGGGTT
* * *
8247851 CAAATGTAATTTTGGAAAAGTTT
1 AAAATGTGATTTTGAAAAAGTTT
8247874 GGGATCTCTT
Statistics
Matches: 98, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
29 22 0.22
30 76 0.78
ACGTcount: A:0.38, C:0.02, G:0.25, T:0.35
Consensus pattern (30 bp):
AAAATGTGATTTTGAAAAAGTTTAGGGGTT
Found at i:8247781 original size:60 final size:60
Alignment explanation
Indices: 8247710--8247825 Score: 160
Period size: 60 Copynumber: 1.9 Consensus size: 60
8247700 TGAAAATAAA
* *
8247710 ATTTTAGAAAAGCTCGAAGGTCAAAATGTGATTTTGAAAAAGTTTAGGGGTTAAAACATG
1 ATTTTAAAAAAGCTCGAAGGTCAAAATGTGATTTTGAAAAAGTTTAAGGGTTAAAACATG
* * ** * *
8247770 ATTTTAAAAAAGTTTGGGGGTTAAAATGTGATTTTGGAAAAGTTTAAGGGTTAAAA
1 ATTTTAAAAAAGCTCGAAGGTCAAAATGTGATTTTGAAAAAGTTTAAGGGTTAAAA
8247826 TGTAATTTTG
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
60 48 1.00
ACGTcount: A:0.40, C:0.03, G:0.24, T:0.33
Consensus pattern (60 bp):
ATTTTAAAAAAGCTCGAAGGTCAAAATGTGATTTTGAAAAAGTTTAAGGGTTAAAACATG
Found at i:8249466 original size:22 final size:23
Alignment explanation
Indices: 8249431--8249473 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
8249421 GCTTTATTTT
8249431 TTTTTAAAATTTTTATTTTATAG
1 TTTTTAAAATTTTTATTTTATAG
*
8249454 TTTTTATAA-TTTTATTTTAT
1 TTTTTAAAATTTTTATTTTAT
8249474 TTAATAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (23 bp):
TTTTTAAAATTTTTATTTTATAG
Found at i:8249546 original size:24 final size:26
Alignment explanation
Indices: 8249497--8249551 Score: 96
Period size: 24 Copynumber: 2.2 Consensus size: 26
8249487 TAAGTTGTTT
8249497 TATTTTCATAATTATATAATTTTTAA
1 TATTTTCATAATTATATAATTTTTAA
8249523 TATTTT-ATAATTATA-AATTTTTAA
1 TATTTTCATAATTATATAATTTTTAA
8249547 TATTT
1 TATTT
8249552 AAAATAATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
24 14 0.48
25 9 0.31
26 6 0.21
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (26 bp):
TATTTTCATAATTATATAATTTTTAA
Found at i:8250189 original size:6 final size:6
Alignment explanation
Indices: 8250178--8250204 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
8250168 AAAAACTATA
8250178 AAATAT AAATAT AAATAT AAATAT AAA
1 AAATAT AAATAT AAATAT AAATAT AAA
8250205 AAGAGTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (6 bp):
AAATAT
Found at i:8252348 original size:29 final size:29
Alignment explanation
Indices: 8252315--8252590 Score: 148
Period size: 30 Copynumber: 9.4 Consensus size: 29
8252305 CTCTATAAGT
* *
8252315 CCCTAAACTATCCAAAAATTATATTTTGA
1 CCCTAAACTTTCCAAAAATTACATTTTGA
*
8252344 CCCTAAAACTTTCTAAAAATTACATTTTGA
1 CCCT-AAACTTTCCAAAAATTACATTTTGA
* *
8252374 CACCCAAAC-TTCCTTAAAATTACCATTTT-A
1 C-CCTAAACTTTCC-AAAAATTA-CATTTTGA
* *
8252404 CCCCAAACTTTCC-AAAATTCCATTTTGGA
1 CCCTAAACTTTCCAAAAATTACATTTT-GA
8252433 CCCT-AA-TTTCACCAAAAATTACATTTTTG-
1 CCCTAAACTTT--CCAAAAATTACA-TTTTGA
** * * *
8252462 CCACCGAACTTTCC-ACAATTCCATTTTTAA
1 CC-CTAAACTTTCCAAAAATTACA-TTTTGA
8252492 CCCT-AA-TTTCACCAAAAATTACATTTTTG-
1 CCCTAAACTTT--CCAAAAATTACA-TTTTGA
* * *
8252521 CCCTTGAACTTTCC-AAAATTCCATTTTAA
1 CCC-TAAACTTTCCAAAAATTACATTTTGA
*
8252550 CCCT-GA-TTTCACCAAAAATTACCATTTT-A
1 CCCTAAACTTT--CCAAAAATTA-CATTTTGA
8252579 CCCCTAAACTTT
1 -CCCTAAACTTT
8252591 TTAAAATTCC
Statistics
Matches: 196, Mismatches: 22, Indels: 55
0.72 0.08 0.20
Matches are distributed among these distances:
26 3 0.02
27 13 0.07
28 17 0.09
29 58 0.30
30 79 0.40
31 17 0.09
32 9 0.05
ACGTcount: A:0.34, C:0.27, G:0.03, T:0.35
Consensus pattern (29 bp):
CCCTAAACTTTCCAAAAATTACATTTTGA
Found at i:8252429 original size:58 final size:58
Alignment explanation
Indices: 8252326--8252692 Score: 322
Period size: 59 Copynumber: 6.3 Consensus size: 58
8252316 CCTAAACTAT
* * * * * *
8252326 CCAAAAATTA-TATTTTGACCCTAAAACTTTCTAAAAATTACATTTTGACACCCAAACTTC-
1 CCAAAAATTACCATTTT-ACCC-CAAACTTTC-CAAAATTCCATTTTGA-ACCCTAATTTCA
** *
8252386 CTTAAAATTACCATTTTACCCCAAACTTTCCAAAATTCCATTTTGGACCCTAATTTCA
1 CCAAAAATTACCATTTTACCCCAAACTTTCCAAAATTCCATTTTGAACCCTAATTTCA
* * * *
8252444 CCAAAAATTA-CATTTTTGCCACCGAACTTTCCACAATTCCATTTTTAACCCTAATTTCA
1 CCAAAAATTACCA-TTTTACC-CCAAACTTTCCAAAATTCCATTTTGAACCCTAATTTCA
* ** *
8252503 CCAAAAATTA-CATTTTTGCCCTTGAACTTTCCAAAATTCCATTTT-AACCCTGATTTCA
1 CCAAAAATTACCA-TTTTACCC-CAAACTTTCCAAAATTCCATTTTGAACCCTAATTTCA
** ** *
8252561 CCAAAAATTACCATTTTACCCCTAAACTTTTTAAAATTCCATTTT-AACCCCGATTTTA
1 CCAAAAATTACCATTTTACCCC-AAACTTTCCAAAATTCCATTTTGAACCCTAATTTCA
* * *
8252619 CC-AAAATTACCA-TTTACCCCCAAACTTTCCTAAATTCCATTTTTAAGCCTCAAATTT-A
1 CCAAAAATTACCATTTTA-CCCCAAACTTTCCAAAATTCCATTTTGAA-CC-CTAATTTCA
*
8252677 CCCAAAATTA-CATTTT
1 CCAAAAATTACCATTTT
8252693 TGCCCCCGAG
Statistics
Matches: 263, Mismatches: 31, Indels: 27
0.82 0.10 0.08
Matches are distributed among these distances:
56 23 0.09
57 27 0.10
58 96 0.37
59 100 0.38
60 12 0.05
61 5 0.02
ACGTcount: A:0.34, C:0.27, G:0.03, T:0.36
Consensus pattern (58 bp):
CCAAAAATTACCATTTTACCCCAAACTTTCCAAAATTCCATTTTGAACCCTAATTTCA
Found at i:8252631 original size:29 final size:28
Alignment explanation
Indices: 8252533--8252633 Score: 91
Period size: 29 Copynumber: 3.5 Consensus size: 28
8252523 CTTGAACTTT
* *
8252533 CCAAAATTCCATTTTAACCCTGATTTCA
1 CCAAAATTCCATTTTAACCCCGATTTTA
*
8252561 CCAAAAATTACCATTTT-ACCCCTAAACTTTT-
1 CC-AAAATT-CCATTTTAACCCC--GA-TTTTA
*
8252592 -TAAAATTCCATTTTAACCCCGATTTTA
1 CCAAAATTCCATTTTAACCCCGATTTTA
8252619 CCAAAATTACCATTT
1 CCAAAATT-CCATTT
8252634 ACCCCCAAAC
Statistics
Matches: 58, Mismatches: 6, Indels: 17
0.72 0.07 0.21
Matches are distributed among these distances:
26 4 0.07
27 1 0.02
28 15 0.26
29 27 0.47
30 7 0.12
31 1 0.02
32 3 0.05
ACGTcount: A:0.35, C:0.27, G:0.02, T:0.37
Consensus pattern (28 bp):
CCAAAATTCCATTTTAACCCCGATTTTA
Found at i:8254182 original size:24 final size:23
Alignment explanation
Indices: 8254147--8254198 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
8254137 AATATATAAA
8254147 AAAATTAATAAATAAAAAATATAT
1 AAAATTAATAAATAAAAAATAT-T
* **
8254171 AAAATTATTAAATATTAAATATT
1 AAAATTAATAAATAAAAAATATT
8254194 AAAAT
1 AAAAT
8254199 AAGATAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 6 0.24
24 19 0.76
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (23 bp):
AAAATTAATAAATAAAAAATATT
Found at i:8256228 original size:29 final size:28
Alignment explanation
Indices: 8256195--8256255 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
8256185 AAAACGGGAC
*
8256195 TTTTGGATACCCGAGGGGCAAAATGGTAA
1 TTTTGGACACCCG-GGGGCAAAATGGTAA
***
8256224 TTTTGGACGTGCGGGGGCAAAATGGTAA
1 TTTTGGACACCCGGGGGCAAAATGGTAA
8256252 TTTT
1 TTTT
8256256 TGGTGAAACC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 19 0.68
29 9 0.32
ACGTcount: A:0.26, C:0.11, G:0.33, T:0.30
Consensus pattern (28 bp):
TTTTGGACACCCGGGGGCAAAATGGTAA
Found at i:8256313 original size:38 final size:38
Alignment explanation
Indices: 8256254--8256328 Score: 114
Period size: 38 Copynumber: 2.0 Consensus size: 38
8256244 AATGGTAATT
* *
8256254 TTTGGTGAAACCGAGGTTAAAAGTGGAATTTTGGAAAC
1 TTTGGTGAAACCGAGGCTAAAAATGGAATTTTGGAAAC
* *
8256292 TTTGGTGAAATCGGGGCTAAAAATGGAATTTTGGAAA
1 TTTGGTGAAACCGAGGCTAAAAATGGAATTTTGGAAA
8256329 GTTCGAGGGG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.35, C:0.07, G:0.29, T:0.29
Consensus pattern (38 bp):
TTTGGTGAAACCGAGGCTAAAAATGGAATTTTGGAAAC
Found at i:8256343 original size:29 final size:29
Alignment explanation
Indices: 8256311--8256544 Score: 205
Period size: 29 Copynumber: 7.9 Consensus size: 29
8256301 ATCGGGGCTA
*
8256311 AAAATGG-AATTTTGGAAAGTTCGAGGGGT
1 AAAATGGTAATTTTGGAAAGTT-TAGGGGT
**
8256340 AAAATGGTAATTTTTGGTAAA-ACTA-GGGT
1 AAAATGGTAA-TTTTGG-AAAGTTTAGGGGT
*
8256369 CAAAAATGG-AATTTTGGAGAGTTTAGGGGT
1 --AAAATGGTAATTTTGGAAAGTTTAGGGGT
* *
8256399 AAAATGGTAATTTTTGATGAAG-TTAGGGTT
1 AAAATGGTAATTTTGGA--AAGTTTAGGGGT
*
8256429 AAAAATGG-AATTTTGGAGAGTTTAGGGGT
1 -AAAATGGTAATTTTGGAAAGTTTAGGGGT
* *
8256458 AAAATGGTAATTTTTGATGAAG-TTAGGGTT
1 AAAATGGTAATTTTGGA--AAGTTTAGGGGT
8256488 AAAAATGG-AATTTTGGAAAGTTTAGGGGT
1 -AAAATGGTAATTTTGGAAAGTTTAGGGGT
* *
8256517 AAAATGGTAATTTTCGGACAGTCTAGGG
1 AAAATGGTAATTTT-GGAAAGTTTAGGG
8256545 ACCTATAAAA
Statistics
Matches: 167, Mismatches: 19, Indels: 37
0.75 0.09 0.17
Matches are distributed among these distances:
28 28 0.17
29 55 0.33
30 50 0.30
31 31 0.19
32 3 0.02
ACGTcount: A:0.35, C:0.03, G:0.30, T:0.33
Consensus pattern (29 bp):
AAAATGGTAATTTTGGAAAGTTTAGGGGT
Found at i:8256426 original size:59 final size:59
Alignment explanation
Indices: 8256309--8256530 Score: 363
Period size: 59 Copynumber: 3.7 Consensus size: 59
8256299 AAATCGGGGC
* * * **
8256309 TAAAAATGGAATTTTGGAAAGTTCGAGGGGTAAAATGGTAATTTTTGGTAAAACTAGGGT
1 TAAAAATGGAATTTTGGAAAGTT-TAGGGGTAAAATGGTAATTTTTGATGAAGTTAGGGT
* *
8256369 CAAAAATGGAATTTTGGAGAGTTTAGGGGTAAAATGGTAATTTTTGATGAAGTTAGGGT
1 TAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTGATGAAGTTAGGGT
*
8256428 TAAAAATGGAATTTTGGAGAGTTTAGGGGTAAAATGGTAATTTTTGATGAAGTTAGGGT
1 TAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTGATGAAGTTAGGGT
8256487 TAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTT
1 TAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTT
8256531 CGGACAGTCT
Statistics
Matches: 153, Mismatches: 9, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
59 132 0.86
60 21 0.14
ACGTcount: A:0.36, C:0.01, G:0.29, T:0.34
Consensus pattern (59 bp):
TAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTGATGAAGTTAGGGT
Done.