Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 144 of 259
Found at i:46954365 original size:12 final size:12
Alignment explanation
Indices: 46954348--46954375 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
46954338 TCAGGCTGTT
46954348 ACACGGCCTAGC
1 ACACGGCCTAGC
46954360 ACACGGCCTAGC
1 ACACGGCCTAGC
46954372 ACAC
1 ACAC
46954376 AGGCGTGTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.29, C:0.43, G:0.21, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:46987793 original size:9 final size:9
Alignment explanation
Indices: 46987779--46987805 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
46987769 GGCATGTATA
46987779 GGTTATATT
1 GGTTATATT
46987788 GGTTATATT
1 GGTTATATT
46987797 GGTTATATT
1 GGTTATATT
46987806 ACCATGTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.22, T:0.56
Consensus pattern (9 bp):
GGTTATATT
Found at i:46996947 original size:19 final size:19
Alignment explanation
Indices: 46996894--46996940 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
46996884 ACACTAAAAA
* *
46996894 AATTAAATTTTTAAAAATT
1 AATTAAAATATTAAAAATT
*
46996913 ATTTAAAATATTAAAAATT
1 AATTAAAATATTAAAAATT
46996932 AATTAAAAT
1 AATTAAAAT
46996941 CATAAAATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
AATTAAAATATTAAAAATT
Found at i:46997322 original size:18 final size:19
Alignment explanation
Indices: 46997281--46997320 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
46997271 CGATTATAAA
46997281 TTTAATGTTTTTTATATTT
1 TTTAATGTTTTTTATATTT
46997300 TTTAAT-TTTTTTATCATTT
1 TTTAATGTTTTTTAT-ATTT
46997319 TT
1 TT
46997321 AAAGATTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.75
Consensus pattern (19 bp):
TTTAATGTTTTTTATATTT
Found at i:46997329 original size:26 final size:26
Alignment explanation
Indices: 46997300--46997353 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
46997290 TTTTATATTT
* * *
46997300 TTTAATTTTTTTATCATTTTTAAAGA
1 TTTAAATTTTTTATAATTTCTAAAGA
*
46997326 TTTAAATTTTTTATAATTTCTAATGA
1 TTTAAATTTTTTATAATTTCTAAAGA
46997352 TT
1 TT
46997354 CTTATAAATT
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:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (26 bp):
TTTAAATTTTTTATAATTTCTAAAGA
Found at i:46999072 original size:16 final size:16
Alignment explanation
Indices: 46999047--46999078 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
46999037 TTTTGAAATT
46999047 TTTTAATTTAATTTAA
1 TTTTAATTTAATTTAA
*
46999063 TTTTATTTTAATTTAA
1 TTTTAATTTAATTTAA
46999079 AAGTGTCACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTTAATTTAATTTAA
Found at i:47003354 original size:25 final size:26
Alignment explanation
Indices: 47003305--47003351 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
47003295 TAATATTTTG
47003305 TTTTAAA-TATTTATAATAAATTTAA
1 TTTTAAATTATTTATAATAAATTTAA
47003330 TTTTAAATTA-TTA-AATAAATTT
1 TTTTAAATTATTTATAATAAATTT
47003352 TAAATTGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 9 0.43
25 10 0.48
26 2 0.10
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (26 bp):
TTTTAAATTATTTATAATAAATTTAA
Found at i:47003776 original size:3 final size:3
Alignment explanation
Indices: 47003768--47003792 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
47003758 TTCTTTATTC
47003768 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
47003793 ACAAATGACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:47006014 original size:20 final size:20
Alignment explanation
Indices: 47005989--47006026 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
47005979 GTCACATATA
47005989 TCATGAACTCAGACCACAAC
1 TCATGAACTCAGACCACAAC
* *
47006009 TCATGAGCTCAGATCACA
1 TCATGAACTCAGACCACA
47006027 TAATTCCTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.32, G:0.13, T:0.18
Consensus pattern (20 bp):
TCATGAACTCAGACCACAAC
Found at i:47012572 original size:27 final size:21
Alignment explanation
Indices: 47012514--47012556 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
47012504 TTAATTAAAG
47012514 TTAAATTAATTAGGTTTTAAT
1 TTAAATTAATTAGGTTTTAAT
47012535 TTAAATTAATTAGGTTTTAAT
1 TTAAATTAATTAGGTTTTAAT
47012556 T
1 T
47012557 ATAATTATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.53
Consensus pattern (21 bp):
TTAAATTAATTAGGTTTTAAT
Found at i:47036775 original size:216 final size:215
Alignment explanation
Indices: 47036401--47036827 Score: 809
Period size: 216 Copynumber: 2.0 Consensus size: 215
47036391 AACCTGTCAG
47036401 AAAAGGGAACAAGAAGAATTAGTAATAAAAATTAAAATAAAATTTAAATTACAATAGAAGTAAAT
1 AAAAGGGAACAAGAAGAATTAGTAATAAAAATTAAAATAAAATTTAAATTACAATAGAAGTAAAT
* *
47036466 GGCTAAAGTAATAAAATCGAGTGTTCCTAATATCTTAGTTCCCCGGCAACGGCGCCAAAAACTTG
66 GGCTAAAGCAATAAAATCGAGTATTCCTAATATCTTAGTTCCCCGGCAACGGCGCCAAAAACTTG
*
47036531 ATACGCGTGATATTCGTGACAGGTTTTAAATATTTATAATGAATCATTCTTGAAACTAACTATTA
131 ATACCCGTGATATTCGTGACAGGTTTTAAATATTTATAATGAATCATTCTTGAAACTAACTATTA
47036596 TCACAATGAAGGCAAGCAGA
196 TCACAATGAAGGCAAGCAGA
47036616 AAAAGGGAACAAGAAGAATTAGTAATAAAAATTAAAATAAAATTTAAATTACAATAGAAGTAAAT
1 AAAAGGGAACAAGAAGAATTAGTAATAAAAATTAAAATAAAATTTAAATTACAATAGAAGTAAAT
47036681 GGCTAAAGCAATAAAAATCGAGTATTCCTAATATCTTAGTTCCCCGGCAACGGCGCCAAAAACTT
66 GGCTAAAGCAAT-AAAATCGAGTATTCCTAATATCTTAGTTCCCCGGCAACGGCGCCAAAAACTT
47036746 GATACCCGTGATATTCGTGACAGGTTTTAAATATTTATAATGAATCATTCTTGAAACTAACTATT
130 GATACCCGTGATATTCGTGACAGGTTTTAAATATTTATAATGAATCATTCTTGAAACTAACTATT
*
47036811 ATCACGATGAAGGCAAG
195 ATCACAATGAAGGCAAG
47036828 TGTACCTATC
Statistics
Matches: 207, Mismatches: 4, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
215 76 0.37
216 131 0.63
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (215 bp):
AAAAGGGAACAAGAAGAATTAGTAATAAAAATTAAAATAAAATTTAAATTACAATAGAAGTAAAT
GGCTAAAGCAATAAAATCGAGTATTCCTAATATCTTAGTTCCCCGGCAACGGCGCCAAAAACTTG
ATACCCGTGATATTCGTGACAGGTTTTAAATATTTATAATGAATCATTCTTGAAACTAACTATTA
TCACAATGAAGGCAAGCAGA
Found at i:47040354 original size:49 final size:49
Alignment explanation
Indices: 47040186--47040458 Score: 189
Period size: 49 Copynumber: 5.6 Consensus size: 49
47040176 TAAGATGCCA
* ** * ***
47040186 ATGCCATGTCCCAGACATGGTCTTACACTGGCTAGCA--CATTAAAGTCG
1 ATGCCATGCCCCAGACA-GGTCTTACACTGGCTCTCATTTATTGGTGTCG
* * * * * * *
47040234 ATGCCATGTCCCAGATAGGTCTTACAATGACTTTCATATATCGAG-G-CTG
1 ATGCCATGCCCCAGACAGGTCTTACACTGGCTCTCATTTATTG-GTGTC-G
* * *
47040283 ATGTCGTGTCCCA-AGCAGGTCTTACACTGGCTCTCATTTATTGGTGTCG
1 ATGCCATGCCCCAGA-CAGGTCTTACACTGGCTCTCATTTATTGGTGTCG
* * * * * * *
47040332 ATGCCATGCCCCAGACAAGTCTTGCACAGACTTTCATATATTGAG-GCCG
1 ATGCCATGCCCCAGACAGGTCTTACACTGGCTCTCATTTATTG-GTGTCG
* * * **
47040381 ATGCCGTGCACCAGACAGGTCTTGCACTGGCTCTCATTTATCAGTGTCG
1 ATGCCATGCCCCAGACAGGTCTTACACTGGCTCTCATTTATTGGTGTCG
*
47040430 ATGCCATGTCCCAGACAGGTCTTACACTG
1 ATGCCATGCCCCAGACAGGTCTTACACTG
47040459 ACACACAACA
Statistics
Matches: 174, Mismatches: 41, Indels: 19
0.74 0.18 0.08
Matches are distributed among these distances:
47 15 0.09
48 20 0.11
49 136 0.78
50 3 0.02
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.28
Consensus pattern (49 bp):
ATGCCATGCCCCAGACAGGTCTTACACTGGCTCTCATTTATTGGTGTCG
Found at i:47040371 original size:98 final size:98
Alignment explanation
Indices: 47040230--47040460 Score: 315
Period size: 98 Copynumber: 2.4 Consensus size: 98
47040220 GCACATTAAA
* * *
47040230 GTCGATGCCATGTCCCAGATAGGTCTTACAATGACTTTCATATATCGAGGCTGATGTCGTGTC-C
1 GTCGATGCCATGTCCCAGACAGGTCTTACAATGACTTTCATATATCGAGGCCGATGCCGTG-CAC
**
47040294 CA-AGCAGGTCTTACACTGGCTCTCATTTATTGGT
65 CAGA-CAGGTCTTACACTGGCTCTCATTTATCAGT
* * * *
47040328 GTCGATGCCATGCCCCAGACAAGTCTTGCACA-GACTTTCATATATTGAGGCCGATGCCGTGCAC
1 GTCGATGCCATGTCCCAGACAGGTCTTACA-ATGACTTTCATATATCGAGGCCGATGCCGTGCAC
*
47040392 CAGACAGGTCTTGCACTGGCTCTCATTTATCAGT
65 CAGACAGGTCTTACACTGGCTCTCATTTATCAGT
*
47040426 GTCGATGCCATGTCCCAGACAGGTCTTACACTGAC
1 GTCGATGCCATGTCCCAGACAGGTCTTACAATGAC
47040461 ACACAACAAG
Statistics
Matches: 115, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
97 1 0.01
98 112 0.97
99 2 0.02
ACGTcount: A:0.22, C:0.27, G:0.23, T:0.29
Consensus pattern (98 bp):
GTCGATGCCATGTCCCAGACAGGTCTTACAATGACTTTCATATATCGAGGCCGATGCCGTGCACC
AGACAGGTCTTACACTGGCTCTCATTTATCAGT
Found at i:47040570 original size:46 final size:46
Alignment explanation
Indices: 47040504--47040626 Score: 142
Period size: 46 Copynumber: 2.7 Consensus size: 46
47040494 TCTTGAGGCT
* *
47040504 GATGCATGTCCTA-AACATGTCTTACACTAGCTCTCGT-CTCAAAACC
1 GATGCATGTCCCAGAA-ATGTCTTACACTAGCTCTCGTAAT-AAAACC
****
47040550 GATGCATGTCCCAGAAATGTCTTACACTAGCTCTCGTAATGTGGCC
1 GATGCATGTCCCAGAAATGTCTTACACTAGCTCTCGTAATAAAACC
* *
47040596 GAAGCATGTCCCAGACATGTCTTACACTAGC
1 GATGCATGTCCCAGAAATGTCTTACACTAGC
47040627 ACACATATCA
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
46 64 0.96
47 3 0.04
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (46 bp):
GATGCATGTCCCAGAAATGTCTTACACTAGCTCTCGTAATAAAACC
Found at i:47048236 original size:49 final size:48
Alignment explanation
Indices: 47048168--47048395 Score: 169
Period size: 49 Copynumber: 4.7 Consensus size: 48
47048158 CATTAAAGTC
*
47048168 GATGCCATGTCCCAGACAGGTCTTACAATGACTTTCATATATCGAGGCT
1 GATGCCGTGTCCCAGACAGGTCTTACAATGACTTTCATATAT-GAGGCT
* * * * * * *
47048217 GATGTCGTGTCCCAAACAGGTCTTACACTGGCTCTCATTTATTAGTG-T
1 GATGCCGTGTCCCAGACAGGTCTTACAATGACTTTCATATATGAG-GCT
* * * * *
47048265 CGATGCCATGCCCCAGACAAGTCTTGCACA-GACTTTCATATATTGAGGCC
1 -GATGCCGTGTCCCAGACAGGTCTTACA-ATGACTTTCATATA-TGAGGCT
* * * * *
47048315 GATGCCGTGTCCCAGACAGGTCTTGCACTGGCTCTCATTTATCG-GTG-T
1 GATGCCGTGTCCCAGACAGGTCTTACAATGACTTTCATATAT-GAG-GCT
*
47048363 CGATGCCAG-GTCCCAGACAGGTCTTACACTGAC
1 -GATGCC-GTGTCCCAGACAGGTCTTACAATGAC
47048396 ACACAACAAG
Statistics
Matches: 139, Mismatches: 30, Indels: 20
0.74 0.16 0.11
Matches are distributed among these distances:
48 5 0.04
49 130 0.94
50 4 0.03
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.28
Consensus pattern (48 bp):
GATGCCGTGTCCCAGACAGGTCTTACAATGACTTTCATATATGAGGCT
Found at i:47048280 original size:98 final size:98
Alignment explanation
Indices: 47048165--47048395 Score: 338
Period size: 98 Copynumber: 2.4 Consensus size: 98
47048155 GCACATTAAA
* *
47048165 GTCGATGCCATGTCCCAGACAGGTCTTACAATGACTTTCATATATCGAGGCTGATGTCGTGTCCC
1 GTCGATGCCATGTCCCAGACAGGTCTTACAATGACTTTCATATATCGAGGCCGATGCCGTGTCCC
*
47048230 AAACAGGTCTTACACTGGCTCTCATTTATTAGT
66 AAACAGGTCTTACACTGGCTCTCATTTATCAGT
* * * *
47048263 GTCGATGCCATGCCCCAGACAAGTCTTGCACA-GACTTTCATATATTGAGGCCGATGCCGTGTCC
1 GTCGATGCCATGTCCCAGACAGGTCTTACA-ATGACTTTCATATATCGAGGCCGATGCCGTGTCC
* * *
47048327 CAGACAGGTCTTGCACTGGCTCTCATTTATCGGT
65 CAAACAGGTCTTACACTGGCTCTCATTTATCAGT
* *
47048361 GTCGATGCCAGGTCCCAGACAGGTCTTACACTGAC
1 GTCGATGCCATGTCCCAGACAGGTCTTACAATGAC
47048396 ACACAACAAG
Statistics
Matches: 116, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
98 115 0.99
99 1 0.01
ACGTcount: A:0.22, C:0.27, G:0.23, T:0.28
Consensus pattern (98 bp):
GTCGATGCCATGTCCCAGACAGGTCTTACAATGACTTTCATATATCGAGGCCGATGCCGTGTCCC
AAACAGGTCTTACACTGGCTCTCATTTATCAGT
Found at i:47048525 original size:46 final size:46
Alignment explanation
Indices: 47048473--47048583 Score: 150
Period size: 46 Copynumber: 2.4 Consensus size: 46
47048463 TGTCCTGGAC
*
47048473 ATGTCTTACACTAGCTCTCGTCTCAAAGCCGATGCAGGTCCCAGAA
1 ATGTCTTACACTAGCTCTCGCCTCAAAGCCGATGCAGGTCCCAGAA
* ** * * *
47048519 ATGTCTTAAACTAGCTCTCGCCTCAAAGTTGATGCATGTCGCAGAC
1 ATGTCTTACACTAGCTCTCGCCTCAAAGCCGATGCAGGTCCCAGAA
*
47048565 ATGTCTTACACTGGCTCTC
1 ATGTCTTACACTAGCTCTC
47048584 ATAATGTCGC
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 56 1.00
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (46 bp):
ATGTCTTACACTAGCTCTCGCCTCAAAGCCGATGCAGGTCCCAGAA
Found at i:47048976 original size:21 final size:22
Alignment explanation
Indices: 47048950--47048990 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
47048940 TATTAGATAC
47048950 AGGGGC-ACATGCCAGTGTGGG
1 AGGGGCAACATGCCAGTGTGGG
*
47048971 AGGGGCAACATGCCCGTGTG
1 AGGGGCAACATGCCAGTGTG
47048991 ACCAATTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.20, C:0.22, G:0.44, T:0.15
Consensus pattern (22 bp):
AGGGGCAACATGCCAGTGTGGG
Found at i:47049377 original size:13 final size:13
Alignment explanation
Indices: 47049359--47049391 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
47049349 ACTGTGTGTC
47049359 ACACACGGCCTAG
1 ACACACGGCCTAG
47049372 ACACACGGCCTAG
1 ACACACGGCCTAG
47049385 ACACACG
1 ACACACG
47049392 CCCGTGTGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.33, C:0.39, G:0.21, T:0.06
Consensus pattern (13 bp):
ACACACGGCCTAG
Found at i:47050314 original size:46 final size:47
Alignment explanation
Indices: 47050094--47050315 Score: 176
Period size: 46 Copynumber: 4.8 Consensus size: 47
47050084 GGGGTAAGAT
* *
47050094 GCCGATGCCATGTCCCAGACGTGGTCTTACACTAG--CTC--AACTCGTA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTAA-TCGTG
* * * * *
47050140 GCCGATGCATGTCCCAAACATGTCTTACACTGGCT-TACAT-CTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCT-CGTAATCGTG
* * * * * *
47050186 GCTGATGCATGTCTCAGACATGTCTTACACTAACTCTTGT-CTCAAT-
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTAATC-GTG
47050232 GCCGA-GACCATGTCCCAGACATGGTCTTACACTAGCTCTCGTAAT-GTG
1 GCCGATG--CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTAATCGTG
*
47050280 GCCGATGCATGTCTCAGACATGTCTTACACTAGCTC
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTC
47050316 ACAATAGTCC
Statistics
Matches: 141, Mismatches: 22, Indels: 26
0.75 0.12 0.14
Matches are distributed among these distances:
44 11 0.08
45 14 0.10
46 64 0.45
47 28 0.20
48 22 0.16
49 2 0.01
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (47 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTAATCGTG
Found at i:47053968 original size:45 final size:45
Alignment explanation
Indices: 47053833--47054077 Score: 190
Period size: 45 Copynumber: 5.4 Consensus size: 45
47053823 GGATGTTACA
* * * *
47053833 TTGCAGTAGAGCAGAT-GAAGATAGTAAATCTTATCTCTCTGAAG
1 TTGCAGTGGAGCAGATCAAAGATAGCAAATCTTATCTCCCTGAAG
* * * * * * *
47053877 TTGCAGTAGAGCATATTAAAGCTA-TAAACCTTATTTCCCTGAAG
1 TTGCAGTGGAGCAGATCAAAGATAGCAAATCTTATCTCCCTGAAG
* * * *
47053921 TTGCATTGGAGTAGATCAAAGATAGCAAATCTTATCTCTCTAAAG
1 TTGCAGTGGAGCAGATCAAAGATAGCAAATCTTATCTCCCTGAAG
* * * *
47053966 TTGTAGTGAAGCAGATTGAAA-ATAGCAAATCTTATTTCCCTGAAG
1 TTGCAGTGGAGCAGA-TCAAAGATAGCAAATCTTATCTCCCTGAAG
* * * * *
47054011 TTGCAGTGGAACAGATTAAAGCTACAAATTGTAAATTTTATCTCCCTGAAG
1 TTGCAGTGGAGCAGATCAAAG------ATAGCAAATCTTATCTCCCTGAAG
47054062 TTGCAGTGGAGCAGAT
1 TTGCAGTGGAGCAGAT
47054078 TAAAATGATA
Statistics
Matches: 157, Mismatches: 34, Indels: 13
0.77 0.17 0.06
Matches are distributed among these distances:
44 54 0.34
45 64 0.41
46 4 0.03
51 35 0.22
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (45 bp):
TTGCAGTGGAGCAGATCAAAGATAGCAAATCTTATCTCCCTGAAG
Found at i:47054039 original size:89 final size:89
Alignment explanation
Indices: 47053833--47054039 Score: 224
Period size: 89 Copynumber: 2.3 Consensus size: 89
47053823 GGATGTTACA
* * * * * *
47053833 TTGCAGTAGAGCAGAT-GAAGATAGTAAATCTTATCTCTCTGAAGTTGCAGTAGAGCATATTAAA
1 TTGCAGTGGAACAGATCAAAGATAGCAAATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATTAAA
* *
47053897 GCTATAAACCTTATTTCCCTGAAG
66 GATACAAACCTTATTTCCCTGAAG
* ** *
47053921 TTGCATTGGAGTAGATCAAAGATAGCAAATCTTATCTCTCTAAAGTTGTAGT-GAAGCAGATTGA
1 TTGCAGTGGAACAGATCAAAGATAGCAAATCTTATCTCTCTAAAGTTGCAGTAG-AGCAGATT-A
*
47053985 AA-ATAGCAAATCTTATTTCCCTGAAG
64 AAGATA-CAAACCTTATTTCCCTGAAG
* *
47054011 TTGCAGTGGAACAGATTAAAGCTA-CAAAT
1 TTGCAGTGGAACAGATCAAAGATAGCAAAT
47054040 TGTAAATTTT
Statistics
Matches: 99, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
88 14 0.14
89 45 0.45
90 40 0.40
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.30
Consensus pattern (89 bp):
TTGCAGTGGAACAGATCAAAGATAGCAAATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATTAAA
GATACAAACCTTATTTCCCTGAAG
Found at i:47055802 original size:27 final size:28
Alignment explanation
Indices: 47055768--47055983 Score: 105
Period size: 27 Copynumber: 7.7 Consensus size: 28
47055758 TAATCAAATG
47055768 TTTCCTTTATTACTTA-TTTACTTAATA
1 TTTCCTTTATTACTTATTTTACTTAATA
* *
47055795 TTTCCTTTATT--TTAGTTTTACAATTGGATT
1 TTTCCTTTATTACTTA-TTTTAC--TT-AATA
** *
47055825 TTTTATTTATTACTTATTTTA-TTATTTA
1 TTTCCTTTATTACTTATTTTACTTA-ATA
* * * * * *
47055853 TTT-ATTTAGTTTC-AATTTTAATCAAATG
1 TTTCCTTTA-TTACTTATTTTACT-TAATA
47055881 TTTCCTTTATTACTTA-TTTACTTAATA
1 TTTCCTTTATTACTTATTTTACTTAATA
* *
47055908 TTTCCTTTATT--TTATTTTTACAATTGGATTT
1 TTTCCTTTATTACTTA-TTTTAC--TT--AATA
**
47055939 TTTTATTTATTACTTA-TTTACTTAATA
1 TTTCCTTTATTACTTATTTTACTTAATA
47055966 TTTCCTTTATT--TTATTTT
1 TTTCCTTTATTACTTATTTT
47055984 TACAATTGGA
Statistics
Matches: 141, Mismatches: 26, Indels: 45
0.67 0.12 0.21
Matches are distributed among these distances:
25 9 0.06
26 3 0.02
27 57 0.40
28 22 0.16
29 12 0.09
30 11 0.08
31 21 0.15
32 3 0.02
33 3 0.02
ACGTcount: A:0.24, C:0.10, G:0.03, T:0.63
Consensus pattern (28 bp):
TTTCCTTTATTACTTATTTTACTTAATA
Found at i:47055854 original size:113 final size:114
Alignment explanation
Indices: 47055725--47055957 Score: 441
Period size: 113 Copynumber: 2.1 Consensus size: 114
47055715 CTGTCATTTG
*
47055725 TTATTTTATTTTTTATTTATTTAGTTTCAATTTTAATCAAATGTTTCCTTTATTACTTATTTACT
1 TTATTTTATTATTTATTTATTTAGTTTCAATTTTAATCAAATGTTTCCTTTATTACTTATTTACT
47055790 TAATATTTCCTTTATTTTAGTTTTACAATTGGA-TTTTTTATTTATTAC
66 TAATATTTCCTTTATTTTAGTTTTACAATTGGATTTTTTTATTTATTAC
47055838 TTATTTTATTATTTATTTATTTAGTTTCAATTTTAATCAAATGTTTCCTTTATTACTTATTTACT
1 TTATTTTATTATTTATTTATTTAGTTTCAATTTTAATCAAATGTTTCCTTTATTACTTATTTACT
*
47055903 TAATATTTCCTTTATTTTATTTTTACAATTGGATTTTTTTATTTATTAC
66 TAATATTTCCTTTATTTTAGTTTTACAATTGGATTTTTTTATTTATTAC
47055952 TTATTT
1 TTATTT
47055958 ACTTAATATT
Statistics
Matches: 117, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
113 96 0.82
114 21 0.18
ACGTcount: A:0.25, C:0.09, G:0.04, T:0.63
Consensus pattern (114 bp):
TTATTTTATTATTTATTTATTTAGTTTCAATTTTAATCAAATGTTTCCTTTATTACTTATTTACT
TAATATTTCCTTTATTTTAGTTTTACAATTGGATTTTTTTATTTATTAC
Found at i:47055949 original size:31 final size:31
Alignment explanation
Indices: 47055913--47056002 Score: 84
Period size: 31 Copynumber: 3.0 Consensus size: 31
47055903 TAATATTTCC
47055913 TTTATTTTATTTTTACAATTGGATTTTTTTA
1 TTTATTTTATTTTTACAATTGGATTTTTTTA
* * **
47055944 TTTA--TTACTTATTTAC--TT--AATATTTCC
1 TTTATTTTA-TT-TTTACAATTGGATTTTTTTA
47055971 TTTATTTTATTTTTACAATTGGATTTTTTTA
1 TTTATTTTATTTTTACAATTGGATTTTTTTA
47056002 T
1 T
47056003 ATTTTCTTTT
Statistics
Matches: 43, Mismatches: 8, Indels: 16
0.64 0.12 0.24
Matches are distributed among these distances:
27 14 0.33
28 2 0.05
29 10 0.23
30 2 0.05
31 15 0.35
ACGTcount: A:0.23, C:0.07, G:0.04, T:0.66
Consensus pattern (31 bp):
TTTATTTTATTTTTACAATTGGATTTTTTTA
Found at i:47055955 original size:58 final size:58
Alignment explanation
Indices: 47055773--47056002 Score: 292
Period size: 58 Copynumber: 4.0 Consensus size: 58
47055763 AAATGTTTCC
*
47055773 TTTATTACTTATTTACTTAATATTTCCTTTATTTTAGTTTTACAATTGGA-TTTTTTA
1 TTTATTACTTATTTACTTAATATTTCCTTTATTTTATTTTTACAATTGGATTTTTTTA
* * * * ** * * **
47055830 TTTATTACTTATTTTA-TTATTTATTT-ATTTAGTTTCAATTTT--AA-TCAAATGTTTCC
1 TTTATTACTTA-TTTACTTA-ATATTTCCTTTA-TTTTATTTTTACAATTGGATTTTTTTA
47055886 TTTATTACTTATTTACTTAATATTTCCTTTATTTTATTTTTACAATTGGATTTTTTTA
1 TTTATTACTTATTTACTTAATATTTCCTTTATTTTATTTTTACAATTGGATTTTTTTA
47055944 TTTATTACTTATTTACTTAATATTTCCTTTATTTTATTTTTACAATTGGATTTTTTTA
1 TTTATTACTTATTTACTTAATATTTCCTTTATTTTATTTTTACAATTGGATTTTTTTA
47056002 T
1 T
47056003 ATTTTCTTTT
Statistics
Matches: 145, Mismatches: 19, Indels: 17
0.80 0.10 0.09
Matches are distributed among these distances:
55 19 0.13
56 24 0.17
57 20 0.14
58 82 0.57
ACGTcount: A:0.25, C:0.09, G:0.04, T:0.63
Consensus pattern (58 bp):
TTTATTACTTATTTACTTAATATTTCCTTTATTTTATTTTTACAATTGGATTTTTTTA
Found at i:47056001 original size:27 final size:27
Alignment explanation
Indices: 47055913--47056002 Score: 87
Period size: 27 Copynumber: 3.2 Consensus size: 27
47055903 TAATATTTCC
47055913 TTTATTTTATTTTTACAATTGGATTTT
1 TTTATTTTATTTTTACAATTGGATTTT
*
47055940 TTTATTTATTACTTATTTACTTAA-T--ATTTCC
1 TTTA-TT-TTA-TT-TTTAC--AATTGGATTT-T
47055971 TTTATTTTATTTTTACAATTGGATTTT
1 TTTATTTTATTTTTACAATTGGATTTT
47055998 TTTAT
1 TTTAT
47056003 ATTTTCTTTT
Statistics
Matches: 51, Mismatches: 2, Indels: 20
0.70 0.03 0.27
Matches are distributed among these distances:
25 2 0.04
26 1 0.02
27 14 0.27
28 8 0.16
29 6 0.12
30 8 0.16
31 9 0.18
32 1 0.02
33 2 0.04
ACGTcount: A:0.23, C:0.07, G:0.04, T:0.66
Consensus pattern (27 bp):
TTTATTTTATTTTTACAATTGGATTTT
Found at i:47056030 original size:4 final size:4
Alignment explanation
Indices: 47056021--47056047 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
47056011 TTATTGTGCC
47056021 TTAT TTAT TTAT TTAT TTAT TTAT TTA
1 TTAT TTAT TTAT TTAT TTAT TTAT TTA
47056048 CTACTTTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTAT
Found at i:47056105 original size:16 final size:16
Alignment explanation
Indices: 47056080--47056126 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
47056070 TTTAGATTTT
47056080 ATTA-TTTTTTTTATC
1 ATTATTTTTTTTTATC
* *
47056095 ATTATTTTTTTTTGTT
1 ATTATTTTTTTTTATC
*
47056111 ATTATCATTTTTTTAT
1 ATTAT-TTTTTTTTAT
47056127 TTTTTTATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
15 4 0.15
16 14 0.54
17 8 0.31
ACGTcount: A:0.19, C:0.04, G:0.02, T:0.74
Consensus pattern (16 bp):
ATTATTTTTTTTTATC
Found at i:47056106 original size:19 final size:19
Alignment explanation
Indices: 47056084--47056134 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 19
47056074 GATTTTATTA
47056084 TTTTTTTTATCATTATTTTT
1 TTTTTTTTATCATT-TTTTT
47056104 TTTTGTTATTATCATTTTTTT
1 TTTT-TT-TTATCATTTTTTT
*
47056125 ATTTTTTTAT
1 TTTTTTTTAT
47056135 TTACGCATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 4 0.14
20 6 0.21
21 10 0.36
22 8 0.29
ACGTcount: A:0.16, C:0.04, G:0.02, T:0.78
Consensus pattern (19 bp):
TTTTTTTTATCATTTTTTT
Found at i:47056118 original size:22 final size:22
Alignment explanation
Indices: 47056075--47056135 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
47056065 CAAAATTTAG
*
47056075 ATTTTATTATTTT-TT-TTATC
1 ATTTTTTTATTTTGTTATTATC
47056095 ATTATTTTT-TTTTGTTATTATC
1 ATT-TTTTTATTTTGTTATTATC
*
47056117 ATTTTTTTATTTTTTTATT
1 ATTTTTTTATTTTGTTATT
47056136 TACGCATATT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
20 7 0.20
21 11 0.31
22 17 0.49
ACGTcount: A:0.18, C:0.03, G:0.02, T:0.77
Consensus pattern (22 bp):
ATTTTTTTATTTTGTTATTATC
Found at i:47058129 original size:27 final size:28
Alignment explanation
Indices: 47058063--47058130 Score: 68
Period size: 29 Copynumber: 2.4 Consensus size: 28
47058053 TAAAAATTCC
* *
47058063 ATATTTATTTTTTATTTATATAATATAAA
1 ATATATATTATTTATTTATAT-ATATAAA
* *
47058092 A-ATAATTTTATTTATTTATAT-TTTAAA
1 ATAT-ATATTATTTATTTATATATATAAA
47058119 ATATATATTATT
1 ATATATATTATT
47058131 AAATTAAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
27 13 0.41
28 4 0.12
29 15 0.47
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (28 bp):
ATATATATTATTTATTTATATATATAAA
Found at i:47068972 original size:44 final size:43
Alignment explanation
Indices: 47068875--47069339 Score: 190
Period size: 44 Copynumber: 10.5 Consensus size: 43
47068865 TTCACCAGAC
* * * * * *
47068875 CTTAACCCCCTAAGCAGTAGGGTAATAGGTTGAA-TTCG-CAGAT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGAT-GACA-AG
47068918 CTTAACCCCCCTAAGCAGTAGGGAAACAGATCGAAGATGACAAG
1 CTTAA-CCCCCTAAGCAGTAGGGAAACAGATCGAAGATGACAAG
* * * * *
47068962 CATTAACCCCCTAAACAGTAGGGTAACAG-GCTGAAGATTTACAGAT
1 C-TTAACCCCCTAAGCAGTAGGGAAACAGATC-GAAGA-TGACA-AG
* ** *
47069008 CTTATCCCCCTAAGCAGTAGGGAAACAGATCGAAGGCGACGAG
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGACAAG
* * * * * * *
47069051 CTTTAACCCCCTAAGCAGTAGGGTAACA-AGCTAAAGTTCATAGAT
1 C-TTAACCCCCTAAGCAGTAGGGAAACAGATC-GAAGATGACA-AG
* * * * * *
47069096 CTTATCACCCTAAGCAGTAGGGAAACAGATCAAAAGACGGCGAAT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATC-GAAGATGAC-AAG
* * ** * * * **
47069141 CTT-GCCTTCCTGAAGTTGCAGTGAAGCAGATTC-AA-ACCACCAAG
1 CTTAACC-CCCT-AAGCAGTAGGGAAACAGA-TCGAAGATGA-CAAG
* * * * * *
47069185 CCTTAATCCCCTAAGTAGTAGGGTAACAG-GCTGAAGATCTACAGAT
1 -CTTAACCCCCTAAGCAGTAGGGAAACAGATC-GAAGAT-GACA-AG
** *
47069231 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGAT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGACAAG
* * * ** * ***
47069274 CTTATCACCCTAAGCAGTAGGGAAACGGATTAAAGAAGATGGG
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGACAAG
47069317 CCTTAACCCCCTAAGCAGTAGGG
1 -CTTAACCCCCTAAGCAGTAGGG
47069340 TAATAGGCTG
Statistics
Matches: 316, Mismatches: 80, Indels: 51
0.71 0.18 0.11
Matches are distributed among these distances:
42 1 0.00
43 47 0.15
44 147 0.47
45 98 0.31
46 21 0.07
47 2 0.01
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.20
Consensus pattern (43 bp):
CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGACAAG
Found at i:47069035 original size:89 final size:89
Alignment explanation
Indices: 47068876--47069126 Score: 346
Period size: 89 Copynumber: 2.8 Consensus size: 89
47068866 TCACCAGACC
* * * *
47068876 TTAACCCCCTAAGCAGTAGGGTAATAGGTTG-A-ATTCGCAGATCTTAACCCCCCTAAGCAGTAG
1 TTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTCACAGATCTT-ATCCCCCTAAGCAGTAG
*
47068939 GGAAACAGATCGAAGATGACAAGCA
65 GGAAACAGATCGAAGACGACAAGCA
* *
47068964 TTAACCCCCTAAACAGTAGGGTAACAGGCTGAAGATTTACAGATCTTATCCCCCTAAGCAGTAGG
1 TTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTCACAGATCTTATCCCCCTAAGCAGTAGG
* * *
47069029 GAAACAGATCGAAGGCGACGAGCT
66 GAAACAGATCGAAGACGACAAGCA
* * * *
47069053 TTAACCCCCTAAGCAGTAGGGTAACAAGCTAAAG-TTCATAGATCTTATCACCCTAAGCAGTAGG
1 TTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTCACAGATCTTATCCCCCTAAGCAGTAGG
47069117 GAAACAGATC
66 GAAACAGATC
47069127 AAAAGACGGC
Statistics
Matches: 145, Mismatches: 16, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
88 65 0.45
89 69 0.48
90 11 0.08
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.20
Consensus pattern (89 bp):
TTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTCACAGATCTTATCCCCCTAAGCAGTAGG
GAAACAGATCGAAGACGACAAGCA
Found at i:47069250 original size:45 final size:45
Alignment explanation
Indices: 47069186--47069364 Score: 136
Period size: 44 Copynumber: 4.1 Consensus size: 45
47069176 ACCACCAAGC
* * * *
47069186 CTTAATCCCCTAAGTAGTAGGGTAACAGGCTGAAGATCTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGGCTGAAGATCGACAGAT
* *
47069231 CTTAACCCCCTAAGCAGTAGGGAAACA-GATCGAAGAT-GA-TGAT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGGCT-GAAGATCGACAGAT
* * * * * ** **
47069274 CTTATCACCCTAAGCAGTAGGGAAAC-GGATTAAAGA-AGATGGGC
1 CTTAACCCCCTAAGCAGTAGGGAAACAGG-CTGAAGATCGACAGAT
* * *
47069318 CTTAACCCCCTAAGCAGTAGGGTAATAGGCTGAAAATC-ACAGAT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGGCTGAAGATCGACAGAT
47069362 CTT
1 CTT
47069365 GCCTCCCTGA
Statistics
Matches: 102, Mismatches: 25, Indels: 15
0.72 0.18 0.11
Matches are distributed among these distances:
43 34 0.33
44 36 0.35
45 32 0.31
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (45 bp):
CTTAACCCCCTAAGCAGTAGGGAAACAGGCTGAAGATCGACAGAT
Found at i:47071382 original size:15 final size:15
Alignment explanation
Indices: 47071344--47071385 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
47071334 TAATACCATA
*
47071344 TATATTATTATCATT
1 TATATTATTATTATT
**
47071359 TATGCTATTATTATT
1 TATATTATTATTATT
47071374 TATATTATTATT
1 TATATTATTATT
47071386 TTTGTTATCG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (15 bp):
TATATTATTATTATT
Found at i:47073278 original size:15 final size:14
Alignment explanation
Indices: 47073260--47073307 Score: 60
Period size: 15 Copynumber: 3.3 Consensus size: 14
47073250 TGTGATTATG
47073260 GTTTGATTAATTAAA
1 GTTTGATTAATT-AA
*
47073275 GTTTAATTAAATTAA
1 GTTTGATT-AATTAA
*
47073290 TTTTGATTAATTAA
1 GTTTGATTAATTAA
47073304 GTTT
1 GTTT
47073308 ATACAAAACA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
14 9 0.32
15 15 0.54
16 4 0.14
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (14 bp):
GTTTGATTAATTAA
Found at i:47074046 original size:16 final size:16
Alignment explanation
Indices: 47074022--47074052 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
47074012 TATGGTATGA
*
47074022 ATGTGTTTAAATTTTT
1 ATGTATTTAAATTTTT
47074038 ATGTATTTAAATTTT
1 ATGTATTTAAATTTT
47074053 GTATATATGT
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:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (16 bp):
ATGTATTTAAATTTTT
Found at i:47077269 original size:106 final size:106
Alignment explanation
Indices: 47077071--47077283 Score: 279
Period size: 106 Copynumber: 2.0 Consensus size: 106
47077061 AAATATTGCT
* * *
47077071 AATTAAATCAAATTTTATGAAAAATGCCTTCGTATTTTGAGTTAATCGAGAAGAAAATCATGTCT
1 AATTAAATCAAATTTTATGAAAAATACCTTCGTATTTCGAGCTAATCGAGAAGAAAATCATGTCT
*
47077136 CGTAAGTTTGGACACAATGTTTAGAATTC-CTAAAAATAAGA
66 CGTAAGTTAGGACACAATGTTTAGAATTCTC-AAAAATAAGA
* * * *
47077177 AATTAAATCAAATTTTATGAAGAATATCTTCGTATTTCGAGCTATTCGGGAAGAAAATCATGTC-
1 AATTAAATCAAATTTTATGAAAAATACCTTCGTATTTCGAGCTAATCGAGAAGAAAATCATGTCT
* * *
47077241 CTGTAAGTTAGGGCACGATGTCTT-GAATTCTCGAAAATAAGA
66 C-GTAAGTTAGGACACAATGT-TTAGAATTCTCAAAAATAAGA
47077283 A
1 A
47077284 TGCTCATTTT
Statistics
Matches: 93, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
105 1 0.01
106 89 0.96
107 3 0.03
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.32
Consensus pattern (106 bp):
AATTAAATCAAATTTTATGAAAAATACCTTCGTATTTCGAGCTAATCGAGAAGAAAATCATGTCT
CGTAAGTTAGGACACAATGTTTAGAATTCTCAAAAATAAGA
Found at i:47078827 original size:23 final size:23
Alignment explanation
Indices: 47078784--47078827 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
47078774 CTTTGTGGTA
* *
47078784 TTTTATTTCGATTCTTCTGATTT
1 TTTTATTTCAATTATTCTGATTT
47078807 TTTTATTTCAATGTATT-TGAT
1 TTTTATTTCAAT-TATTCTGAT
47078828 CCCCCTTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 15 0.83
24 3 0.17
ACGTcount: A:0.18, C:0.09, G:0.09, T:0.64
Consensus pattern (23 bp):
TTTTATTTCAATTATTCTGATTT
Found at i:47079734 original size:6 final size:6
Alignment explanation
Indices: 47079723--47079755 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
47079713 AGACATGTGA
47079723 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT
47079756 GTATAAATAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:47093796 original size:106 final size:106
Alignment explanation
Indices: 47093598--47093810 Score: 279
Period size: 106 Copynumber: 2.0 Consensus size: 106
47093588 AAATATTGCT
* * *
47093598 AATTAAATCAAATTTTATGAAAAATGCCTTCGTATTTTGAGTTAATCGAGAAGAAAATCATGTCT
1 AATTAAATCAAATTTTATGAAAAATACCTTCGTATTTCGAGCTAATCGAGAAGAAAATCATGTCT
*
47093663 CGTAAGTTTGGACACAATGTTTAGAATTC-CTAAAAATAAGA
66 CGTAAGTTAGGACACAATGTTTAGAATTCTC-AAAAATAAGA
* * * *
47093704 AATTAAATCAAATTTTATGAAGAATATCTTCGTATTTCGAGCTATTCGGGAAGAAAATCATGTC-
1 AATTAAATCAAATTTTATGAAAAATACCTTCGTATTTCGAGCTAATCGAGAAGAAAATCATGTCT
* * *
47093768 CTGTAAGTTAGGGCACGATGTCTT-GAATTCTCGAAAATAAGA
66 C-GTAAGTTAGGACACAATGT-TTAGAATTCTCAAAAATAAGA
47093810 A
1 A
47093811 TGCTCATTTT
Statistics
Matches: 93, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
105 1 0.01
106 89 0.96
107 3 0.03
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.32
Consensus pattern (106 bp):
AATTAAATCAAATTTTATGAAAAATACCTTCGTATTTCGAGCTAATCGAGAAGAAAATCATGTCT
CGTAAGTTAGGACACAATGTTTAGAATTCTCAAAAATAAGA
Found at i:47095360 original size:24 final size:24
Alignment explanation
Indices: 47095315--47095360 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
47095305 CTTTGTGGTA
* *
47095315 TTTTTATTTCGATTCTTCTGATTT
1 TTTTTATTTCAATTATTCTGATTT
47095339 TTTTTATTTCAATGTATT-TGAT
1 TTTTTATTTCAAT-TATTCTGAT
47095361 CCCCCTTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 16 0.84
25 3 0.16
ACGTcount: A:0.17, C:0.09, G:0.09, T:0.65
Consensus pattern (24 bp):
TTTTTATTTCAATTATTCTGATTT
Found at i:47096271 original size:6 final size:6
Alignment explanation
Indices: 47096260--47096292 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
47096250 AGACATGTGA
47096260 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT
47096293 GTATAAATAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:47099637 original size:24 final size:24
Alignment explanation
Indices: 47099584--47099638 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
47099574 GAGGATATAT
47099584 TTGAGGAGGATGATACATGAGAGG
1 TTGAGGAGGATGATACATGAGAGG
* * * *
47099608 TGGAGGTGGGTGATACATTG-GTGG
1 TTGAGGAGGATGATACA-TGAGAGG
47099632 TTGAGGA
1 TTGAGGA
47099639 TGCATTTGAG
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
24 22 0.92
25 2 0.08
ACGTcount: A:0.25, C:0.04, G:0.45, T:0.25
Consensus pattern (24 bp):
TTGAGGAGGATGATACATGAGAGG
Found at i:47100563 original size:14 final size:14
Alignment explanation
Indices: 47100525--47100567 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
47100515 CAAAATGTAC
47100525 AATATAATTAAA-T
1 AATATAATTAAATT
47100538 AATATAAATTAAATT
1 AATAT-AATTAAATT
*
47100553 AA-ATAATTTAATT
1 AATATAATTAAATT
47100566 AA
1 AA
47100568 CTGTTTACCC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 15 0.56
14 9 0.33
15 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATATAATTAAATT
Found at i:47101470 original size:17 final size:17
Alignment explanation
Indices: 47101448--47101493 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
47101438 GAAAAATGAG
47101448 AATTTTTAAAACACGAA
1 AATTTTTAAAACACGAA
*
47101465 AATTTTAAAAACACGAA
1 AATTTTTAAAACACGAA
* *
47101482 CATTTTTGAAAC
1 AATTTTTAAAAC
47101494 CTGAATTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.50, C:0.13, G:0.07, T:0.30
Consensus pattern (17 bp):
AATTTTTAAAACACGAA
Found at i:47102111 original size:15 final size:17
Alignment explanation
Indices: 47102091--47102122 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
47102081 TTAGGAAACG
47102091 TACATAA-A-AAATATA
1 TACATAATATAAATATA
47102106 TACATAATATAAATATA
1 TACATAATATAAATATA
47102123 ATATATACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.31
Consensus pattern (17 bp):
TACATAATATAAATATA
Found at i:47104190 original size:74 final size:74
Alignment explanation
Indices: 47104069--47104540 Score: 304
Period size: 74 Copynumber: 6.1 Consensus size: 74
47104059 TTAAAAGCAG
* * * * * *
47104069 AAATTGAAATTAACTCAACGTGCCTTGAGGCTCAACTTACCTCTCGCAGTATGAGTTGA-TTTTT
1 AAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
*
47104133 TGAAAGACAA
66 TGAAA-ATAA
* **
47104143 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
*
47104208 TGACAATAA
66 TGAAAATAA
* * * *
47104217 AAATTGAAATTACCTCAGCGTGTCCTAAGGCTCAACTCGCCTCTCGCAATATGAGTTGAATTTTT
1 AAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTT
*
47104282 TTGAAAAATAT
65 TTG-AAAATAA
* ** * *** ** * * * * * * *
47104293 AAATTGAAAAGCAGAAATTGAAATTACCTCAGCGTGCCTTGAGGCTCAACTCAC-C--TCTCGCA
1 AAATTG-AAA--A-TACCTCAGCGTGTCT-TGAG-G-C-TCA-ACTCACCTCTCGCAATAT-G-A
* *
47104355 ATATGAGTTAATTTTTTGAAAGACAA
55 GT-TGA-TT--TTTT-TGAAA-ATAA
* **
47104381 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
* * *
47104446 TGACAACAG
66 TGAAAATAA
* * ***
47104455 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAATAATATGAGTTGAATTTTT
1 AAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTT
*
47104520 TTGAAAAATAT
65 TTG-AAAATAA
47104531 AAATTGAAAA
1 AAATTGAAAA
47104541 GCAGAAATTG
Statistics
Matches: 298, Mismatches: 75, Indels: 48
0.71 0.18 0.11
Matches are distributed among these distances:
74 157 0.53
75 31 0.10
76 28 0.09
77 3 0.01
78 2 0.01
79 10 0.03
80 10 0.03
81 3 0.01
82 6 0.02
83 4 0.01
84 12 0.04
85 12 0.04
87 10 0.03
88 10 0.03
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (74 bp):
AAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
TGAAAATAA
Found at i:47104313 original size:164 final size:151
Alignment explanation
Indices: 47104069--47105240 Score: 948
Period size: 164 Copynumber: 7.4 Consensus size: 151
47104059 TTAAAAGCAG
* * * *
47104069 AAATTGAAATTAACTCAACGTG-CCTTGAGGCTCAACTTACCTCTCGCAGTATGAGTTGATTTTT
1 AAATTGAAATTACCTCAGCGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* * * * **
47104133 TG--A-AAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATAT
65 TGTTAGAAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATAT
* *
47104195 GAGTTGATTTTTTTGACAATAA
130 GAGTTGATTTTTTTGAAAACAA
* *
47104217 AAATTGAAATTACCTCAGCGTGTCCTAAGGCTCAACTCGCCTCTCGCAATATGAGTTGAATTTTT
1 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-A-TTTT
*
47104282 TTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTACCTCAGCGTGCCTTGAGGCTCAACTCAC
64 TTG-----T-T--A--GAAAA-CAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCAC
*
47104347 CTCTCGCAATATGAGTT-AATTTTTTGAAAGACAA
118 CTCTCGCAATATGAGTTGATTTTTTTGAAA-ACAA
* * * **
47104381 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTT
1 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
* * ***
47104445 -TT-GACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAATAATATG
66 GTTAGAAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
*
47104508 AGTTGAATTTTTTTGAAAAATATAAATTGAAAAGCAG
131 AGTTG-A----TTT------T-T---TTGAAAA-CAA
*
47104545 AAATTGAAATTACCTCAACGTG-CCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTT
1 AAATTGAAATTACCTCAGCGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* * * ** *
47104608 TG--A-CAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGTAATAT
65 TGTTAGAAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATAT
47104670 GAGTTGATTTTTGAAAAATAGATTGAAACACAA
130 GAGTTGA-TTTT------T---TTGAAA-ACAA
* * * *
47104703 AAATTGACAA-TACCTCAGTGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT-AATTTT
1 AAATTGA-AATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* * *
47104766 TG--A-AAAACAGGAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
65 TGTTAGAAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATAT
47104828 GAGTTGA--TTTTTGAAAAACATAAATTGACA
130 GAGTTGATTTTTTTG-AAAAC--------A-A
* * * ** *
47104858 AAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTTGCAATATGAGTTGATTTTTT
1 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
* * * * **
47104923 -TTA-AAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATG
66 GTTAGAAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
*
47104986 AGTTGATTTTTTTTTGACAACAA
131 AGTTGA--TTTTTTTGAAAACAA
47105009 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTT
1 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-A--TTT
* * * * *
47105074 TTTGAAAAATATAAATTTAAAAGTAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTTA
63 TTTG-----T-T--A--GAAAA-CAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCA
* *
47105139 CCTCTCGCAGTATGAGTTGATTTTTTTTGAAAAGCAG
117 CCTCTCGCAATATGAGTTGA-TTTTTTTGAAAA-CAA
* ** * *
47105176 AAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGAAATATGAGTTGATTTTTT
1 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
47105241 TGAAACAGAA
Statistics
Matches: 845, Mismatches: 97, Indels: 148
0.78 0.09 0.14
Matches are distributed among these distances:
146 5 0.01
147 3 0.00
148 104 0.12
149 8 0.01
150 8 0.01
151 53 0.06
152 2 0.00
153 1 0.00
154 12 0.01
155 50 0.06
156 6 0.01
157 61 0.07
158 126 0.15
159 9 0.01
160 7 0.01
161 13 0.02
162 1 0.00
163 75 0.09
164 178 0.21
166 16 0.02
167 107 0.13
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (151 bp):
AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
GTTAGAAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTTTTTTGAAAACAA
Found at i:47104351 original size:238 final size:238
Alignment explanation
Indices: 47103889--47105245 Score: 1447
Period size: 238 Copynumber: 5.7 Consensus size: 238
47103879 AAGGCAAAAA
* * * * * *
47103889 TTGAAAAACAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGTCTCTCGCAATAC
1 TTGAAAAACAAAAATTGAAAATACCTCAGCGTGT--CTTGAGGCTCAACTCATTTCTCGCAATAT
* *
47103954 GAGTTGATTTTTTTTTTGACAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCAC
64 GAGTTGA---TTTTTTTGACAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCAC
* * *
47104019 CTCTCGCAATATAAGTTGAATTTTTTTGAAAAATATAAATTTAAAAGCAGAAATTGAAATTAACT
126 CTCTCGCAATATGAGTTGAATTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTACCT
* * *
47104084 CAACGTGCCTTGAGGCTCAACTTACCTCTCGCAGTATGAGTTGATTTT
191 CAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
* *
47104132 TTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
1 TTGAAAAACAAAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
* * *
47104197 GTTGATTTTTTTGACAATAAAAATTGAAATTACCTCAGCGTGTCCTAAGGCTCAACTCGCCTCTC
66 GTTGATTTTTTTGACAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTC
47104262 GCAATATGAGTTGAATTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTACCTCAGCG
131 GCAATATGAGTTGAATTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTACCTCAGCG
*
47104327 TGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTT
196 TGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
* *
47104370 TTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
1 TTGAAAAACAAAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
* *
47104435 GTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTA
66 GTTGATTTTTTTGACAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTC
** *
47104500 ATAATATGAGTTGAATTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTACCTCAACG
131 GCAATATGAGTTGAATTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTACCTCAGCG
47104565 TGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT
196 TGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
* * * *
47104607 TTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGTAATATGA
1 TTGAAAAACAAAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
* * * *
47104672 GTTGATTTTTGAAAAATAGATTGAAACACAAAAATTGACAA-TACCTCAGTGTGCCCCGAGGCTC
66 GTTGA-TTTT------T---TTGACA-ACAAAAATTGA-AATTACCTCAGCGTGTCCTGAGGCTC
*
47104736 AACTCACCTCTCGCAATATGAGTT-AA--TTTTTG----------A---AAAA-CAGGAATTGAA
119 AACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAA
*
47104784 AATACCTCAGCGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT
184 ATTACCTCAGCGTG-CCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
* * *
47104838 TTGAAAAACATAAATTGACAAAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTT
1 TTGAAAAAC--------A-AAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTC
* * * * *
47104903 GCAATATGAGTTGATTTTTTTTAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAA
57 GCAATATGAGTTGATTTTTTTGACA-ACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAA
** * *
47104968 CTCATTTCTCGCAATATGAGTTG-A--TTTTT------T-T---TTGACAA-CAAAAATTGAAAT
121 CTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAAT
47105019 TACCTCAGCGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTT
186 TACCTCAGCGTG-CCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-A--TTTT
* * * * * *
47105075 TTGAAAAATATAAATTTAAAAGTAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTTAC
1 TTG--------AAA---AACA--A-AAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCAT
* * * * * ** *
47105140 CTCTCGCAGTATGAGTTGATTTTTTTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAG
52 TTCTCGCAATATGAGTTGA-TTTTTTTGACAA-CAAAAATTGAAATTACCTCAGCGTGTCCTGAG
*
47105205 GCTCAACTCACCTCTCGAAATATGAGTTG-ATTTTTTTGAAA
115 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAA
47105246 CAGAAATAAA
Statistics
Matches: 978, Mismatches: 82, Indels: 102
0.84 0.07 0.09
Matches are distributed among these distances:
229 2 0.00
230 62 0.06
231 67 0.07
232 6 0.01
233 62 0.06
234 1 0.00
235 1 0.00
237 73 0.07
238 385 0.39
239 5 0.01
240 56 0.06
241 33 0.03
242 53 0.05
243 95 0.10
244 1 0.00
245 14 0.01
247 7 0.01
248 53 0.05
249 2 0.00
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (238 bp):
TTGAAAAACAAAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
GTTGATTTTTTTGACAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTC
GCAATATGAGTTGAATTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTACCTCAGCG
TGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
Found at i:47104630 original size:73 final size:73
Alignment explanation
Indices: 47104545--47105073 Score: 397
Period size: 73 Copynumber: 6.9 Consensus size: 73
47104535 TGAAAAGCAG
47104545 AAATTGAAATTACCTCAACGTG-CCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 AAATTGAAATTACCTCAACGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
47104609 GACAAACAA
65 GACAAACAA
* ** *
47104618 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGTAATATGAGTTGATTTTTG
1 AAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
*
47104683 A-AAA-AT
66 ACAAACAA
* * ** ** * * *
47104689 AGATTGAAA-CA-CAAAAATTGACAATACCTCAGTGTGCCCCGAGGCTCAACTCACCTCTCGCAA
1 AAATTGAAATTACCTCAACGTG----T-CCT--GAG-G-CTC-A---AC---TCACCTCTCGCAA
* * *
47104752 TATGAGTTAATTTTTGAAAAACAG
50 TATGAGTTGATTTTTGACAAACAA
* * *
47104776 GAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
*
47104841 AAAAACATAAATTGACA
66 ----AC--AAA--CA-A
* * ** *
47104858 AAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTTGCAATATGAGTTGATTTTTT
1 AAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTT
*
47104923 TTA-AAGACAA
64 TGACAA-ACAA
* * * * **
47104933 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TT
47104998 TTTGAC-AACAA
62 TTTGACAAACAA
*
47105009 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTT
1 AAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTT
47105074 TTTGAAAAAT
Statistics
Matches: 365, Mismatches: 54, Indels: 74
0.74 0.11 0.15
Matches are distributed among these distances:
69 4 0.01
70 1 0.00
71 9 0.02
72 3 0.01
73 93 0.25
74 5 0.01
75 56 0.15
76 61 0.17
77 14 0.04
78 3 0.01
79 5 0.01
80 3 0.01
81 2 0.01
82 55 0.15
84 8 0.02
85 27 0.07
86 3 0.01
87 8 0.02
88 1 0.00
89 4 0.01
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (73 bp):
AAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
ACAAACAA
Found at i:47104709 original size:85 final size:85
Alignment explanation
Indices: 47104614--47104772 Score: 239
Period size: 85 Copynumber: 1.9 Consensus size: 85
47104604 TTTTTGACAA
* * ** * *
47104614 ACAAAAATTGA-AATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGTAATATGAGTTGAT
1 ACAAAAATTGACAA-TACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAAT
47104678 TTTTGAAAAATAGATTGAAAC
65 TTTTGAAAAATAGATTGAAAC
*
47104699 ACAAAAATTGACAATACCTCAGTGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATT
1 ACAAAAATTGACAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATT
47104764 TTTGAAAAA
66 TTTGAAAAA
47104773 CAGGAATTGA
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
85 64 0.97
86 2 0.03
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (85 bp):
ACAAAAATTGACAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATT
TTTGAAAAATAGATTGAAAC
Found at i:47104754 original size:158 final size:159
Alignment explanation
Indices: 47104370--47105073 Score: 807
Period size: 158 Copynumber: 4.5 Consensus size: 159
47104360 AGTTAATTTT
* * **
47104370 TTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
1 TTGAAA-ACAAAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
* *
47104435 GTTGATTTTTTTGAC-AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
65 GTTGA--TTTTTGACAAACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
*** *
47104499 AATAATATGAGTTGAATTTTTTTGAAAAATATAAA
128 CGCAATATGAGTTG-A--TTTTTGAAAAACATAAA
* * *
47104534 TTGAAAAGCAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAA-CAAAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
* **
47104599 GTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCG
65 GTTGATTTTTGACAAACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
* *
47104664 TAATATGAGTTGATTTTTG-AAAA-ATAGA
130 CAATATGAGTTGATTTTTGAAAAACATAAA
* * **
47104692 TTGAAACACAAAAATTGACAA-TACCTCAGTGTGCCCCGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAA-ACAAAAATTGA-AATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
* * **
47104756 AGTTAATTTTTGAAAAACAGGAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTC
64 AGTTGATTTTTGACAAACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTC
47104821 GCAATATGAGTTGATTTTTGAAAAACATAAA
129 GCAATATGAGTTGATTTTTGAAAAACATAAA
* * ** *
47104852 TTG---AC-AAAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTTGCAATATGAG
1 TTGAAAACAAAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
* * * **
47104913 TTGATTTTTTTTA-AAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCT
66 TTGA--TTTTTGACAA-ACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
*
47104977 CGCAATATGAGTTGATTTTT--------T--T
128 CGCAATATGAGTTGATTTTTGAAAAACATAAA
* *
47104999 TTGACAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAAAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
47105064 TTGAATTTTT
66 TTG-ATTTTT
47105074 TTTGAAAAAT
Statistics
Matches: 475, Mismatches: 50, Indels: 44
0.83 0.09 0.08
Matches are distributed among these distances:
147 3 0.01
149 1 0.00
150 7 0.01
151 53 0.11
152 1 0.00
154 2 0.00
155 48 0.10
156 4 0.01
157 68 0.14
158 135 0.28
159 11 0.02
160 13 0.03
162 9 0.02
163 59 0.12
164 61 0.13
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.31
Consensus pattern (159 bp):
TTGAAAACAAAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTGACAAACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
AATATGAGTTGATTTTTGAAAAACATAAA
Found at i:47104982 original size:75 final size:75
Alignment explanation
Indices: 47104857--47105081 Score: 335
Period size: 76 Copynumber: 3.0 Consensus size: 75
47104847 ATAAATTGAC
* * *
47104857 AAAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTTGCAATATGAGTTGATTTTT
1 AAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTT
47104922 TTT-AAAGACA
66 TTTGAAA-ACA
*
47104932 AAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTT
1 AAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTTT
*
47104997 TTTTGACAACA
65 TTTTGAAAACA
* * **
47105008 AAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTT
1 AAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG-ATTTT
47105073 TTTTGAAAA
65 TTTTGAAAA
47105082 ATATAAATTT
Statistics
Matches: 136, Mismatches: 11, Indels: 5
0.89 0.07 0.03
Matches are distributed among these distances:
75 56 0.41
76 77 0.57
77 3 0.02
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.35
Consensus pattern (75 bp):
AAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTT
TTTGAAAACA
Found at i:47105183 original size:76 final size:75
Alignment explanation
Indices: 47105092--47105252 Score: 236
Period size: 76 Copynumber: 2.2 Consensus size: 75
47105082 ATATAAATTT
* * * * *
47105092 AAAAGTAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTTACCTCTCGCAGTATGAGTT
1 AAAAGCAGAAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGAAATATGAGTT
47105157 GATTTTTTTTG
66 GA-TTTTTTTG
* *
47105168 AAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGAAATATGAGTT
1 AAAAGCAGAAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGAAATATGAGTT
47105233 GATTTTTTTG
66 GATTTTTTTG
47105243 -AAA-CAGAAAT
1 AAAAGCAGAAAT
47105253 AAAAACATCA
Statistics
Matches: 78, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
73 7 0.09
74 3 0.04
75 8 0.10
76 60 0.77
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (75 bp):
AAAAGCAGAAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGAAATATGAGTT
GATTTTTTTG
Found at i:47105209 original size:167 final size:165
Alignment explanation
Indices: 47104933--47105245 Score: 457
Period size: 167 Copynumber: 1.9 Consensus size: 165
47104923 TTAAAGACAA
* * **
47104933 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAACATGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
* * * *
47104998 TTTGACAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
66 TTTGAAAACAAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGAAATATGA
47105063 GTTGAATTTTTTTTGAAAAATATAAATTTAAAAGTAG
131 GTTG-A-TTTTTTTGAAAAATATAAATTTAAAAGTAG
* * * *
47105100 AAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTTACCTCTCGCAGTATGAGTTGA-TTTTT
1 AAATTGAAAATACCTCAACATGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
* * *
47105164 TTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGAAATATG
66 TTTGAAAA-CAAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGAAATATG
47105229 AGTTGATTTTTTTGAAA
130 AGTTGATTTTTTTGAAA
47105246 CAGAAATAAA
Statistics
Matches: 130, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
165 11 0.08
166 13 0.10
167 106 0.82
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (165 bp):
AAATTGAAAATACCTCAACATGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
TTTGAAAACAAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGAAATATGA
GTTGATTTTTTTGAAAAATATAAATTTAAAAGTAG
Found at i:47116136 original size:15 final size:17
Alignment explanation
Indices: 47116116--47116147 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
47116106 TTAGGAAACG
47116116 TACATAA-A-AAATATA
1 TACATAATATAAATATA
47116131 TACATAATATAAATATA
1 TACATAATATAAATATA
47116148 ATATATACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.31
Consensus pattern (17 bp):
TACATAATATAAATATA
Found at i:47116151 original size:20 final size:20
Alignment explanation
Indices: 47116128--47116167 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
47116118 CATAAAAAAT
*
47116128 ATATACATAATATAAATATA
1 ATATACACAATATAAATATA
* *
47116148 ATATATACAATATACATATA
1 ATATACACAATATAAATATA
47116168 TGATAAAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.35
Consensus pattern (20 bp):
ATATACACAATATAAATATA
Found at i:47116694 original size:11 final size:11
Alignment explanation
Indices: 47116660--47116701 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
47116650 AAATCATTTT
47116660 GAAGAGAGAAA
1 GAAGAGAGAAA
* *
47116671 GAA-AAAAAAA
1 GAAGAGAGAAA
*
47116681 GAAGGGAGAAA
1 GAAGAGAGAAA
47116692 GAAGAGAGAA
1 GAAGAGAGAA
47116702 TGGAAGGGGA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
10 8 0.33
11 16 0.67
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (11 bp):
GAAGAGAGAAA
Found at i:47119859 original size:13 final size:13
Alignment explanation
Indices: 47119827--47119864 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
47119817 TAGTTAATTA
47119827 AATTAT-TTAATTT
1 AATTATATT-ATTT
47119840 AATTTATATTATTT
1 AA-TTATATTATTT
47119854 AATTATATTAT
1 AATTATATTAT
47119865 ACATTTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 11 0.48
14 10 0.43
15 2 0.09
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
AATTATATTATTT
Found at i:47122210 original size:19 final size:19
Alignment explanation
Indices: 47122177--47122219 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
47122167 AAATTTGTAT
47122177 TTTTTAAACTAATTTTTAA
1 TTTTTAAACTAATTTTTAA
*
47122196 TATTTTAAAC-CATTTTTAA
1 T-TTTTAAACTAATTTTTAA
47122215 TTTTT
1 TTTTT
47122220 GTAATTTCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 4 0.18
19 10 0.45
20 8 0.36
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTTTAAACTAATTTTTAA
Found at i:47123303 original size:24 final size:24
Alignment explanation
Indices: 47123275--47123350 Score: 75
Period size: 24 Copynumber: 3.2 Consensus size: 24
47123265 ATAATGGTAA
*
47123275 TTAACTAATTTAATTAAAAATGAT
1 TTAACTAATTTAATTAAAAATAAT
* *
47123299 TTAACAAATTTATTTAAAAATAAT
1 TTAACTAATTTAATTAAAAATAAT
* *
47123323 ATATA-TAATTGAATT-AAAATAAGT
1 TTA-ACTAATTTAATTAAAAATAA-T
47123347 TTAA
1 TTAA
47123351 AATCTTTACA
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
23 8 0.19
24 33 0.79
25 1 0.02
ACGTcount: A:0.53, C:0.03, G:0.04, T:0.41
Consensus pattern (24 bp):
TTAACTAATTTAATTAAAAATAAT
Found at i:47123619 original size:15 final size:15
Alignment explanation
Indices: 47123601--47123631 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
47123591 AAATTAAAAC
47123601 AAAAATGAATATTGT
1 AAAAATGAATATTGT
*
47123616 AAAAATGAATGTTGT
1 AAAAATGAATATTGT
47123631 A
1 A
47123632 CACATCTTGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (15 bp):
AAAAATGAATATTGT
Found at i:47127454 original size:76 final size:76
Alignment explanation
Indices: 47127320--47127470 Score: 284
Period size: 76 Copynumber: 2.0 Consensus size: 76
47127310 ATGGCAAACC
*
47127320 CAATTCACAGTTCAATGACTTTTCCAAAGCTTTTGTTTAACTTATGTTTTCTGTGTGCTATGTGG
1 CAATTCACAGTTCAATGACTTTTCCAAAGCTTTTGTTTAACTTATGTTTTCTGCGTGCTATGTGG
47127385 TTATTCTTTCT
66 TTATTCTTTCT
*
47127396 CAATTCACAGTTCAATGACTTTTCCAAAGCTTTTGTTTAACTTATGTTTTGTGCGTGCTATGTGG
1 CAATTCACAGTTCAATGACTTTTCCAAAGCTTTTGTTTAACTTATGTTTTCTGCGTGCTATGTGG
47127461 TTATTCTTTC
66 TTATTCTTTC
47127471 CTGTAAATTC
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 73 1.00
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.48
Consensus pattern (76 bp):
CAATTCACAGTTCAATGACTTTTCCAAAGCTTTTGTTTAACTTATGTTTTCTGCGTGCTATGTGG
TTATTCTTTCT
Found at i:47128974 original size:19 final size:19
Alignment explanation
Indices: 47128950--47128989 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
47128940 TCGGAATAAG
47128950 TATGTTATTTGGATTAACT
1 TATGTTATTTGGATTAACT
47128969 TATGTTATTTGGATTAACT
1 TATGTTATTTGGATTAACT
47128988 TA
1 TA
47128990 AATATATGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.28, C:0.05, G:0.15, T:0.53
Consensus pattern (19 bp):
TATGTTATTTGGATTAACT
Found at i:47130280 original size:20 final size:20
Alignment explanation
Indices: 47130242--47130280 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
47130232 AAGTTCTTAT
* *
47130242 TTTTCTGGTGCTTGGAATTC
1 TTTTCTAGTGCTTGCAATTC
*
47130262 TTTTCTAGTGGTTGCAATT
1 TTTTCTAGTGCTTGCAATT
47130281 AGAGATTTAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.13, G:0.23, T:0.51
Consensus pattern (20 bp):
TTTTCTAGTGCTTGCAATTC
Found at i:47141735 original size:22 final size:23
Alignment explanation
Indices: 47141663--47141737 Score: 61
Period size: 22 Copynumber: 3.3 Consensus size: 23
47141653 NNNNNNNNNN
47141663 ATATAATAGAAAATAATTATA-AAT
1 ATATAAT-GAAAAT-ATTATATAAT
*
47141687 ATA-ATATGTAAA-ATTA-ATATAT
1 ATATA-ATGAAAATATTATATA-AT
*
47141709 TTATAATG-AAATATTATATAAT
1 ATATAATGAAAATATTATATAAT
47141731 ATATAAT
1 ATATAAT
47141738 ATAGATAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 14
0.71 0.05 0.24
Matches are distributed among these distances:
20 1 0.02
21 8 0.19
22 19 0.45
23 9 0.21
24 5 0.12
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (23 bp):
ATATAATGAAAATATTATATAAT
Found at i:47141760 original size:39 final size:38
Alignment explanation
Indices: 47141717--47141827 Score: 96
Period size: 35 Copynumber: 3.1 Consensus size: 38
47141707 ATTTATAATG
47141717 AAATATTATATAATATATAATATAGATAAATATAATATT
1 AAATA-TATATAATATATAATATAGATAAATATAATATT
* * *
47141756 AAATA-A-AT-ATATAAAAT-TA-ATAATTATATATATA
1 AAATATATATAATATATAATATAGATAAATATA-ATATT
*
47141790 AAATATA-ATAA-ATTATAAAATAGA-AAATAT-ATATT
1 AAATATATATAATA-TATAATATAGATAAATATAATATT
47141825 AAA
1 AAA
47141828 ATAAGAAATT
Statistics
Matches: 59, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
33 8 0.14
34 11 0.19
35 19 0.32
36 7 0.12
37 8 0.14
38 1 0.02
39 5 0.08
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (38 bp):
AAATATATATAATATATAATATAGATAAATATAATATT
Found at i:47141783 original size:17 final size:16
Alignment explanation
Indices: 47141687--47141785 Score: 58
Period size: 16 Copynumber: 5.6 Consensus size: 16
47141677 AATTATAAAT
*
47141687 ATAATATGTAAAATTA
1 ATAATATATAAAATTA
47141703 ATATATTTATAATGAAATATTA
1 ATA-A--TAT-AT-AAA-ATTA
*
47141725 TATAATATATAATA-TA
1 -ATAATATATAAAATTA
*
47141741 GATAA-ATATAATATTAA
1 -ATAATATATAAAATT-A
47141758 ATAAATATATAAAATTA
1 AT-AATATATAAAATTA
47141775 ATAATTATATA
1 ATAA-TATATA
47141786 TATAAAATAT
Statistics
Matches: 67, Mismatches: 4, Indels: 23
0.71 0.04 0.24
Matches are distributed among these distances:
15 8 0.12
16 14 0.21
17 14 0.21
18 11 0.16
19 5 0.07
20 4 0.06
21 3 0.04
22 5 0.07
23 3 0.04
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (16 bp):
ATAATATATAAAATTA
Found at i:47141788 original size:21 final size:23
Alignment explanation
Indices: 47141663--47141820 Score: 85
Period size: 24 Copynumber: 6.7 Consensus size: 23
47141653 NNNNNNNNNN
* *
47141663 ATATAATAGAAAATAATTATAAA-T
1 ATAT-ATATAAAAT-ATAATAAATT
* *
47141687 ATAATATGTAAAAT-TAATATATT
1 AT-ATATATAAAATATAATAAATT
* *
47141710 -TATA-ATGAAATATTATATAATAT
1 ATATATATAAAATATAATA-AAT-T
* *
47141733 ATAATATAGATAAATATAATATTAAAT
1 AT-ATATATA-AAATATAATA--AATT
*
47141760 AAATATATAAAAT-TAAT-AATT
1 ATATATATAAAATATAATAAATT
47141781 ATATATATAAAATATAATAAATT
1 ATATATATAAAATATAATAAATT
* *
47141804 ATAAAATAGAAAATATA
1 AT-ATATATAAAATATA
47141821 TATTAAAATA
Statistics
Matches: 103, Mismatches: 18, Indels: 26
0.70 0.12 0.18
Matches are distributed among these distances:
20 5 0.05
21 22 0.21
22 12 0.12
23 8 0.08
24 26 0.25
25 9 0.09
26 7 0.07
27 11 0.11
28 3 0.03
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.37
Consensus pattern (23 bp):
ATATATATAAAATATAATAAATT
Found at i:47141803 original size:30 final size:30
Alignment explanation
Indices: 47141721--47141804 Score: 81
Period size: 30 Copynumber: 2.9 Consensus size: 30
47141711 ATAATGAAAT
*
47141721 ATTATATAATATATAATATAGATAAA-T-ATA
1 ATTATAT-ATATAAAATATA-ATAAATTAATA
*
47141751 A-TAT-TAAAT-AAATAT-ATAAAATTAATA
1 ATTATATATATAAAATATAAT-AAATTAATA
47141778 ATTATATATATAAAATATAATAAATTA
1 ATTATATATATAAAATATAATAAATTA
47141805 TAAAATAGAA
Statistics
Matches: 44, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
24 2 0.05
25 3 0.07
26 6 0.14
27 7 0.16
28 4 0.09
29 7 0.16
30 13 0.30
31 2 0.05
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (30 bp):
ATTATATATATAAAATATAATAAATTAATA
Found at i:47141822 original size:56 final size:58
Alignment explanation
Indices: 47141663--47141829 Score: 141
Period size: 61 Copynumber: 2.9 Consensus size: 58
47141653 NNNNNNNNNN
* * * * * *
47141663 ATATAATAGAAAATA-ATTATAAATATAATATGTAAAATTAATATATTTATAATGAA-ATATT
1 ATATAATATAAAATATA-GATAAATATAATA-AT-AAATAAATATA-TTAAAATTAATA-ATT
* *
47141724 ATATAATATATAATATAGATAAATATAATATTAAATAAATATA-TAAAATTAATAATT
1 ATATAATATAAAATATAGATAAATATAATAATAAATAAATATATTAAAATTAATAATT
47141781 ATAT-ATATAAAATATA-ATAAATTATAA-AATAGAA-AATATATATTAAAAT
1 ATATAATATAAAATATAGATAAA-TATAATAATA-AATAA-ATATATTAAAAT
47141830 AAGAAATTAA
Statistics
Matches: 91, Mismatches: 9, Indels: 16
0.78 0.08 0.14
Matches are distributed among these distances:
55 10 0.11
56 23 0.25
57 20 0.22
58 1 0.01
59 10 0.11
60 1 0.01
61 25 0.27
62 1 0.01
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (58 bp):
ATATAATATAAAATATAGATAAATATAATAATAAATAAATATATTAAAATTAATAATT
Found at i:47141827 original size:19 final size:19
Alignment explanation
Indices: 47141780--47141835 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 19
47141770 AATTAATAAT
*
47141780 TATATATATAAAATATAATAA
1 TATATAT-TAAAATAGAA-AA
47141801 -AT-TA-TAAAATAGAAAA
1 TATATATTAAAATAGAAAA
47141817 TATATATTAAAATAAGAAA
1 TATATATTAAAAT-AGAAA
47141836 TTAAAAAAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
16 2 0.07
17 11 0.37
18 2 0.07
19 8 0.27
20 7 0.23
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (19 bp):
TATATATTAAAATAGAAAA
Found at i:47142084 original size:21 final size:22
Alignment explanation
Indices: 47142060--47142104 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
47142050 AAAGGATATC
*
47142060 TACAAATTAAATC-TCCAAGAT
1 TACAAAATAAATCTTCCAAGAT
* *
47142081 TACAAAATATATCTTCTAAGAT
1 TACAAAATAAATCTTCCAAGAT
47142103 TA
1 TA
47142105 TATATCATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.47, C:0.16, G:0.04, T:0.33
Consensus pattern (22 bp):
TACAAAATAAATCTTCCAAGAT
Found at i:47142107 original size:17 final size:19
Alignment explanation
Indices: 47142087--47142157 Score: 80
Period size: 17 Copynumber: 4.0 Consensus size: 19
47142077 AGATTACAAA
47142087 ATATATC-T-TCTAAGATT
1 ATATATCATATCTAAGATT
47142104 ATATATCATATCTAAGATT
1 ATATATCATATCTAAGATT
**
47142123 GCA-ATCATATCTAAGA-T
1 ATATATCATATCTAAGATT
*
47142140 -TGTATCATATCTAAGATT
1 ATATATCATATCTAAGATT
47142158 GCAATATTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
17 21 0.46
18 15 0.33
19 10 0.22
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.41
Consensus pattern (19 bp):
ATATATCATATCTAAGATT
Found at i:47142131 original size:18 final size:18
Alignment explanation
Indices: 47142108--47142162 Score: 94
Period size: 18 Copynumber: 3.1 Consensus size: 18
47142098 AAGATTATAT
47142108 ATCATATCTAAGATTGCA
1 ATCATATCTAAGATTGCA
*
47142126 ATCATATCTAAGATTG-T
1 ATCATATCTAAGATTGCA
47142143 ATCATATCTAAGATTGCA
1 ATCATATCTAAGATTGCA
47142161 AT
1 AT
47142163 ATTTATTGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
17 16 0.47
18 18 0.53
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (18 bp):
ATCATATCTAAGATTGCA
Found at i:47142158 original size:17 final size:18
Alignment explanation
Indices: 47142107--47142159 Score: 90
Period size: 17 Copynumber: 3.0 Consensus size: 18
47142097 TAAGATTATA
47142107 TATCATATCTAAGATTGC
1 TATCATATCTAAGATTGC
*
47142125 AATCATATCTAAGATTG-
1 TATCATATCTAAGATTGC
47142142 TATCATATCTAAGATTGC
1 TATCATATCTAAGATTGC
47142160 AATATTTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
17 16 0.50
18 16 0.50
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (18 bp):
TATCATATCTAAGATTGC
Found at i:47142602 original size:73 final size:79
Alignment explanation
Indices: 47142432--47142721 Score: 291
Period size: 73 Copynumber: 3.8 Consensus size: 79
47142422 ACTGATTACC
* *
47142432 TCTGTTTGGAACATTTGA-A-TCTATCTGCAAGGTCCTCGA-TTGTTCTTGT-AGAACAAGGATG
1 TCTGTTTGGAACATTTGAGAGTCTATCTGCAAGGTCCTCGATTTGTTCCTGTAAGCACAAGGATG
47142493 CCTAAACCATCTTGAG
66 -CT-AACCATCTTGAG
* *
47142509 TCTG-TTGG-ACATTTGAGAGTCTGTCTGCAAGGTCCTCCATTTGTTCCTGT-AGCAC-AGG-TG
1 TCTGTTTGGAACATTTGAGAGTCTATCTGCAAGGTCCTCGATTTGTTCCTGTAAGCACAAGGATG
47142569 CTAA-CATCTTGA-
66 CTAACCATCTTGAG
*
47142581 TCTGTTTGGAACATTTG-GAGTC-ATCTGCAATGTCCTTCGATCTTAGTTCCTGGTTAAGC-C--
1 TCTGTTTGGAACATTTGAGAGTCTATCTGCAAGGTCC-TCGAT-TT-GTTCCT-G-TAAGCACAA
47142641 --A--C-AACCATCTTGAG
61 GGATGCTAACCATCTTGAG
*
47142655 TCTGTTTGGAACATTTGAGAGTCATATCT-CAATGTCCTCGATTTGTTCCTTGTAAGCACAAGGA
1 TCTGTTTGGAACATTTGAGAGTC-TATCTGCAAGGTCCTCGATTTGTTCC-TGTAAGCACAAGGA
47142719 TGC
64 TGC
47142722 CAAACTCTTG
Statistics
Matches: 181, Mismatches: 7, Indels: 48
0.77 0.03 0.20
Matches are distributed among these distances:
72 22 0.12
73 37 0.20
74 31 0.17
75 26 0.14
76 16 0.09
77 32 0.18
78 16 0.09
79 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (79 bp):
TCTGTTTGGAACATTTGAGAGTCTATCTGCAAGGTCCTCGATTTGTTCCTGTAAGCACAAGGATG
CTAACCATCTTGAG
Found at i:47142846 original size:107 final size:112
Alignment explanation
Indices: 47142670--47142910 Score: 329
Period size: 110 Copynumber: 2.2 Consensus size: 112
47142660 TTGGAACATT
* * * * *
47142670 TGAGAGTCATATCT-CAATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACTCTTGAT
1 TGAGAGTCAAATCTGCTATGT-CTCGATTTGTTCCTTGTAAACACAAGGATACCAAACTCTGGAT
47142734 CTGCTTCAGTAT-AACATCTGAA-GTTA-ATCTGCTATTTGAGAACGTC
65 CTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATTTGAGAAC-TC
47142780 TGAGAGTCAAAT-TGCTATGTCTC-ATTTGTT-CTTGTAAACACAA-GA-ACCAAATCATCTGGA
1 TGAGAGTCAAATCTGCTATGTCTCGATTTGTTCCTTGTAAACACAAGGATACCAAA-C-TCTGGA
*
47142840 TCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATTTTAGAACTC
64 TCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATTTGAGAACTC
47142889 TGAGAGTCAAATCTGCTATGTC
1 TGAGAGTCAAATCTGCTATGTC
47142911 CTGATTTTCT
Statistics
Matches: 118, Mismatches: 6, Indels: 14
0.86 0.04 0.10
Matches are distributed among these distances:
105 5 0.04
106 3 0.03
107 30 0.25
108 17 0.14
109 22 0.19
110 41 0.35
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.34
Consensus pattern (112 bp):
TGAGAGTCAAATCTGCTATGTCTCGATTTGTTCCTTGTAAACACAAGGATACCAAACTCTGGATC
TGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATTTGAGAACTC
Found at i:47144136 original size:6 final size:6
Alignment explanation
Indices: 47144125--47144164 Score: 57
Period size: 6 Copynumber: 6.8 Consensus size: 6
47144115 GCCTCTCCAT
47144125 TTTTTC TTTTTC TCTTTT- TTTTT- TTTTTC TTTTTC TTTTT
1 TTTTTC TTTTTC T-TTTTC TTTTTC TTTTTC TTTTTC TTTTT
47144165 TTTGAAATAG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 9 0.28
6 19 0.59
7 4 0.12
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (6 bp):
TTTTTC
Found at i:47144152 original size:23 final size:22
Alignment explanation
Indices: 47144124--47144167 Score: 79
Period size: 23 Copynumber: 2.0 Consensus size: 22
47144114 GGCCTCTCCA
47144124 TTTTTTCTTTTTCTCTTTTTTTT
1 TTTTTTCTTTTTCT-TTTTTTTT
47144147 TTTTTTCTTTTTCTTTTTTTT
1 TTTTTTCTTTTTCTTTTTTTT
47144168 GAAATAGAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 7 0.33
23 14 0.67
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (22 bp):
TTTTTTCTTTTTCTTTTTTTTT
Found at i:47144165 original size:15 final size:15
Alignment explanation
Indices: 47144125--47144167 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
47144115 GCCTCTCCAT
*
47144125 TTTTTC-TTTTTCTC
1 TTTTTCTTTTTTTTC
*
47144139 TTTTTTTTTTTTTTC
1 TTTTTCTTTTTTTTC
47144154 TTTTTCTTTTTTTT
1 TTTTTCTTTTTTTT
47144168 GAAATAGAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
14 5 0.20
15 20 0.80
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (15 bp):
TTTTTCTTTTTTTTC
Found at i:47149717 original size:17 final size:17
Alignment explanation
Indices: 47149658--47149717 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
47149648 TAATAAATTT
47149658 AAAATATAATATATAATAA
1 AAAATATAAT-TAT-ATAA
47149677 AAAATAT-ATT-TAT-A
1 AAAATATAATTATATAA
*
47149691 AGAATAATAATTATATAA
1 AAAAT-ATAATTATATAA
47149709 AAAATATAA
1 AAAATATAA
47149718 AATATATTGG
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 5 0.14
15 4 0.11
16 4 0.11
17 8 0.23
18 7 0.20
19 7 0.20
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (17 bp):
AAAATATAATTATATAA
Found at i:47150233 original size:18 final size:18
Alignment explanation
Indices: 47150197--47150329 Score: 182
Period size: 18 Copynumber: 7.5 Consensus size: 18
47150187 AATCATATCT
*
47150197 TCTAAGATTGTATATCATA
1 TCTAAGATTGCA-ATCATA
47150216 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
47150234 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
47150251 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
* *
47150269 TTTAAGATT-CTATCATA
1 TCTAAGATTGCAATCATA
47150286 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
* *
47150304 TTTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
47150321 TCTAAGATT
1 TCTAAGATT
47150330 ACATATCATT
Statistics
Matches: 102, Mismatches: 10, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
17 45 0.44
18 46 0.45
19 11 0.11
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.40
Consensus pattern (18 bp):
TCTAAGATTGCAATCATA
Found at i:47150255 original size:35 final size:35
Alignment explanation
Indices: 47150197--47150338 Score: 221
Period size: 35 Copynumber: 4.0 Consensus size: 35
47150187 AATCATATCT
47150197 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCAATCATA
47150234 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
* *
47150269 TTTAAGATTCTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
* *
47150304 TTTAAGATTGTATCATATCTAAGATTACATATCAT
1 TCTAAGATTGTATCATATCTAAGATTGCA-ATCAT
47150339 TGAAGATTAT
Statistics
Matches: 100, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
35 85 0.85
36 5 0.05
37 10 0.10
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.39
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:47164902 original size:14 final size:14
Alignment explanation
Indices: 47164879--47164908 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
47164869 TTGAAAATAT
47164879 GTTGAATTGGATTG
1 GTTGAATTGGATTG
*
47164893 GTTGATTTGGATTG
1 GTTGAATTGGATTG
47164907 GT
1 GT
47164909 CTCGATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (14 bp):
GTTGAATTGGATTG
Found at i:47186525 original size:30 final size:30
Alignment explanation
Indices: 47186489--47186548 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
47186479 ATTTAATACG
* *
47186489 AACTTTTGCAAAATTACATTTTTGCCCCTA
1 AACTTTTGCAAAATTACACTTTTACCCCTA
*
47186519 AACTTTTGCATAATTACACTTTTACCCCTA
1 AACTTTTGCAAAATTACACTTTTACCCCTA
47186549 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.05, T:0.40
Consensus pattern (30 bp):
AACTTTTGCAAAATTACACTTTTACCCCTA
Found at i:47187843 original size:24 final size:24
Alignment explanation
Indices: 47187810--47187890 Score: 101
Period size: 24 Copynumber: 3.4 Consensus size: 24
47187800 TATAACATGG
*
47187810 GGGTTCGCATATATAAGACATATA
1 GGGTTCGCATATATAAAACATATA
* * *
47187834 GGGTTTGCATAT-TAAAACTTGTA
1 GGGTTCGCATATATAAAACATATA
* *
47187857 GAGTTCGCATGTATAAAACATATA
1 GGGTTCGCATATATAAAACATATA
47187881 GGGTTCGCAT
1 GGGTTCGCAT
47187891 CTATGCACTA
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
23 17 0.37
24 29 0.63
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.32
Consensus pattern (24 bp):
GGGTTCGCATATATAAAACATATA
Found at i:47192774 original size:36 final size:37
Alignment explanation
Indices: 47192697--47192774 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
47192687 TTTTCAATTG
* *
47192697 ATTTAATTTTTTCAATGGTCTATCAAATAGGGCCTTA
1 ATTTAATTTTTTCAATGGTCTATCAAACAAGGCCTTA
*
47192734 ATTTAATTTTTTCAATGGGT-TATCAAACAATGCCTT-
1 ATTTAATTTTTTCAAT-GGTCTATCAAACAAGGCCTTA
47192770 ATTTA
1 ATTTA
47192775 GAGTTGAGTT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
36 5 0.14
37 29 0.78
38 3 0.08
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.45
Consensus pattern (37 bp):
ATTTAATTTTTTCAATGGTCTATCAAACAAGGCCTTA
Found at i:47198487 original size:38 final size:39
Alignment explanation
Indices: 47198445--47198554 Score: 116
Period size: 38 Copynumber: 2.8 Consensus size: 39
47198435 TCAAATAGTT
* *
47198445 CGAAGCAAAGTTGACACCCAGTGTCTCATCG-GCCTAGC
1 CGAAGTAAAGTTGACACCCAGTGTCTCATCGAACCTAGC
** ** * *
47198483 CGAAGTAAAG-TGGTACCCAGTACCTCATCGAATCTATC
1 CGAAGTAAAGTTGACACCCAGTGTCTCATCGAACCTAGC
47198521 CGAAGTAACAGTATGACACCCAGTGTCTCATCGA
1 CGAAGTAA-AGT-TGACACCCAGTGTCTCATCGA
47198555 CTCGAGGTTG
Statistics
Matches: 56, Mismatches: 12, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
37 16 0.29
38 21 0.38
39 2 0.04
41 17 0.30
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (39 bp):
CGAAGTAAAGTTGACACCCAGTGTCTCATCGAACCTAGC
Found at i:47199200 original size:17 final size:18
Alignment explanation
Indices: 47199166--47199201 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
47199156 TGAATTTCTA
47199166 TCCAATTTATACCCTAAT
1 TCCAATTTATACCCTAAT
*
47199184 TCCAATTTA-ATCCTAAT
1 TCCAATTTATACCCTAAT
47199201 T
1 T
47199202 AACTCATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.33, C:0.25, G:0.00, T:0.42
Consensus pattern (18 bp):
TCCAATTTATACCCTAAT
Found at i:47199654 original size:17 final size:18
Alignment explanation
Indices: 47199627--47199670 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
47199617 CCTTCATTTC
*
47199627 TTTCTTTTATTTTTTTA-G
1 TTTC-TTTATTCTTTTATG
47199645 TTTCTTTATTCTTTTATG
1 TTTCTTTATTCTTTTATG
*
47199663 TTTATTTA
1 TTTCTTTA
47199671 CTTTATTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 11 0.48
18 12 0.52
ACGTcount: A:0.14, C:0.07, G:0.05, T:0.75
Consensus pattern (18 bp):
TTTCTTTATTCTTTTATG
Found at i:47199683 original size:23 final size:23
Alignment explanation
Indices: 47199640--47199683 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
47199630 CTTTTATTTT
**
47199640 TTTAGTTTCTTTATTCTTTTATG
1 TTTAGTTTCTTTATTAATTTATG
47199663 TTTA-TTTACTTTATTAATTTA
1 TTTAGTTT-CTTTATTAATTTA
47199684 ATAATAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 3 0.17
23 15 0.83
ACGTcount: A:0.20, C:0.07, G:0.05, T:0.68
Consensus pattern (23 bp):
TTTAGTTTCTTTATTAATTTATG
Found at i:47199720 original size:18 final size:17
Alignment explanation
Indices: 47199674--47199728 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 17
47199664 TTATTTACTT
47199674 TATTAATTTAATAAT-AA
1 TATT-ATTTAATAATAAA
47199691 TAATT-TTT-ATAATAAA
1 T-ATTATTTAATAATAAA
*
47199707 TATCTATTTAATAACAAA
1 TAT-TATTTAATAATAAA
47199725 TATT
1 TATT
47199729 TATATTACAT
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
15 7 0.22
16 7 0.22
17 5 0.16
18 13 0.41
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (17 bp):
TATTATTTAATAATAAA
Found at i:47200175 original size:20 final size:20
Alignment explanation
Indices: 47200129--47200176 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
47200119 AGTCTTTTTT
*
47200129 CCTAATTACTCTTAATTAAA
1 CCTAATTACACTTAATTAAA
47200149 -CTAAATT-CACTTAATTAAAA
1 CCT-AATTACACTTAATT-AAA
47200169 CCTAATTA
1 CCTAATTA
47200177 AATACACAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
19 10 0.43
20 11 0.48
21 2 0.09
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.38
Consensus pattern (20 bp):
CCTAATTACACTTAATTAAA
Found at i:47213522 original size:27 final size:28
Alignment explanation
Indices: 47213438--47213535 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
47213428 CATGAGATTG
* * * *
47213438 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
47213467 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
47213495 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
47213522 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
47213536 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:47213546 original size:27 final size:27
Alignment explanation
Indices: 47213466--47213548 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
47213456 TAAATTGTAC
* *
47213466 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
47213494 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
47213521 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
47213548 A
1 A
47213549 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:47213549 original size:29 final size:27
Alignment explanation
Indices: 47213438--47213549 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
47213428 CATGAGATTG
** * *
47213438 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
47213467 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
47213495 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
47213522 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
47213550 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:47215937 original size:14 final size:14
Alignment explanation
Indices: 47215914--47215957 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
47215904 TGAGCTTCAA
47215914 GATG-GTCCGGCTT
1 GATGAGTCCGGCTT
47215927 GATGAGTCCGGCTT
1 GATGAGTCCGGCTT
*
47215941 GATGAGT-CAGCTT
1 GATGAGTCCGGCTT
47215954 GATG
1 GATG
47215958 GGTTCTATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 13 0.45
14 16 0.55
ACGTcount: A:0.16, C:0.18, G:0.36, T:0.30
Consensus pattern (14 bp):
GATGAGTCCGGCTT
Found at i:47220710 original size:17 final size:19
Alignment explanation
Indices: 47220688--47220726 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
47220678 TAAACGCCAC
47220688 TTCTCA-ATTTAAT-CCAA
1 TTCTCACATTTAATACCAA
*
47220705 TTCTCACATTTCATACCAA
1 TTCTCACATTTAATACCAA
47220724 TTC
1 TTC
47220727 ACAAACAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 6 0.32
19 7 0.37
ACGTcount: A:0.31, C:0.28, G:0.00, T:0.41
Consensus pattern (19 bp):
TTCTCACATTTAATACCAA
Found at i:47225465 original size:42 final size:43
Alignment explanation
Indices: 47225381--47225522 Score: 182
Period size: 42 Copynumber: 3.3 Consensus size: 43
47225371 CGTTCCAAAT
* * *
47225381 ATGGTCTTACATGTAA-TCAAATATCGATGCCACTGTCTCAGAC
1 ATGGTCTTACACGTAACTCAAATA-CGATGCCAATGTCCCAGAC
47225424 ATGGTCTTACACG-AACTCAAATACGATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAACTCAAATACGATGCCAATGTCCCAGAC
**
47225466 ATGGTCTTACACGTAAATCTCAAAT-CGATGCCAACATCCCAGAC
1 ATGGTCTTACACGT-AA-CTCAAATACGATGCCAATGTCCCAGAC
*
47225510 GTGGTCTTACACG
1 ATGGTCTTACACG
47225523 AAATCACATA
Statistics
Matches: 89, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
42 32 0.36
43 19 0.21
44 31 0.35
45 7 0.08
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGGTCTTACACGTAACTCAAATACGATGCCAATGTCCCAGAC
Found at i:47225515 original size:44 final size:44
Alignment explanation
Indices: 47225381--47225527 Score: 162
Period size: 44 Copynumber: 3.4 Consensus size: 44
47225371 CGTTCCAAAT
* * * *
47225381 ATGGTCTTACATGTAA--TCAAATATCGATGCC-ACTGTCTCAGAC
1 ATGGTCTTACACGAAATCTCAAATA-CGATGCCAAC-ATCCCAGAC
**
47225424 ATGGTCTTACACG-AA-CTCAAATACGATGCCAATGTCCCAGAC
1 ATGGTCTTACACGAAATCTCAAATACGATGCCAACATCCCAGAC
47225466 ATGGTCTTACACGTAAATCTCAAAT-CGATGCCAACATCCCAGAC
1 ATGGTCTTACACG-AAATCTCAAATACGATGCCAACATCCCAGAC
*
47225510 GTGGTCTTACACGAAATC
1 ATGGTCTTACACGAAATC
47225528 ACATATCGTA
Statistics
Matches: 93, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
42 30 0.32
43 25 0.27
44 31 0.33
45 7 0.08
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (44 bp):
ATGGTCTTACACGAAATCTCAAATACGATGCCAACATCCCAGAC
Found at i:47228772 original size:50 final size:49
Alignment explanation
Indices: 47228595--47228776 Score: 186
Period size: 53 Copynumber: 3.5 Consensus size: 49
47228585 AAATTTTTTT
* * * *
47228595 CATATGATGCCATAACCTACTAGTTGTGATCTTTAATGATATGATATTCTTTC
1 CATATGATGCCATAACCCACCAGTTATGGTC-TTAATGATATG--A-TCTTTC
* * *
47228648 CATATGATGCCATAGCCCACCAGTTACGGTCTT-ATGCAATATGGTCTTTTTTC
1 CATATGATGCCATAACCCACCAGTTATGGTCTTAATG--ATATGATC---TTTC
* *
47228701 CATATGATGCCATAACTCACCAATTATGGTCTTACATGATATGATCTTTC
1 CATATGATGCCATAACCCACCAGTTATGGTCTTA-ATGATATGATCTTTC
47228751 CATATGATGCCATAACCCACCAGTTA
1 CATATGATGCCATAACCCACCAGTTA
47228777 CTATCTTAAA
Statistics
Matches: 108, Mismatches: 14, Indels: 17
0.78 0.10 0.12
Matches are distributed among these distances:
50 30 0.28
51 3 0.03
52 2 0.02
53 70 0.65
55 3 0.03
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.36
Consensus pattern (49 bp):
CATATGATGCCATAACCCACCAGTTATGGTCTTAATGATATGATCTTTC
Found at i:47228777 original size:103 final size:105
Alignment explanation
Indices: 47228588--47228777 Score: 271
Period size: 106 Copynumber: 1.8 Consensus size: 105
47228578 CTTCCTTAAA
* * * *
47228588 TTTTTTTCATATGATGCCATAACCTACTAGTTGTGATCTTTAATGATATGATATTCTTTCCATAT
1 TTTTTTCCATATGATGCCATAACCTACCAATTATGATCTTTAATGATATGA-ATTCTTTCCATAT
*
47228653 GATGCCATAGCCCACCAGTTACGGTCTTATGCAATATGGTC
65 GATGCCATAACCCACCAGTTACGGTCTTATGCAATATGGTC
*
47228694 TTTTTTCCATATGATGCCATAA-CTCACCAATTATGGTC-TTACATGATATG-A-TCTTTCCATA
1 TTTTTTCCATATGATGCCATAACCT-ACCAATTATGATCTTTA-ATGATATGAATTCTTTCCATA
47228755 TGATGCCATAACCCACCAGTTAC
64 TGATGCCATAACCCACCAGTTAC
47228778 TATCTTAAAC
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
103 32 0.42
104 1 0.01
105 5 0.07
106 38 0.50
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.38
Consensus pattern (105 bp):
TTTTTTCCATATGATGCCATAACCTACCAATTATGATCTTTAATGATATGAATTCTTTCCATATG
ATGCCATAACCCACCAGTTACGGTCTTATGCAATATGGTC
Found at i:47228784 original size:103 final size:105
Alignment explanation
Indices: 47228588--47228798 Score: 268
Period size: 103 Copynumber: 2.0 Consensus size: 105
47228578 CTTCCTTAAA
* * * *
47228588 TTTTTTTCATATGATGCCATAACCTACTAGTTGTGATCTTTAATGATATGATATTCTTTCCATAT
1 TTTTTTCCATATGATGCCATAACCTACCAATTATGATCTTTAATGATATGA-ATTCTTTCCATAT
* * **
47228653 GATGCCATAGCCCACCAGTTACGGTCTTATGCAATATGGTC
65 GATGCCATAACCCACCAGTTACGATCTTAAACAATATGGTC
*
47228694 TTTTTTCCATATGATGCCATAA-CTCACCAATTATGGTC-TTACATGATATG-A-TCTTTCCATA
1 TTTTTTCCATATGATGCCATAACCT-ACCAATTATGATCTTTA-ATGATATGAATTCTTTCCATA
* *
47228755 TGATGCCATAACCCACCAGTTACTATCTTAAACGATATGGTC
64 TGATGCCATAACCCACCAGTTACGATCTTAAACAATATGGTC
47228797 TT
1 TT
47228799 CTTTAGTGCC
Statistics
Matches: 92, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
103 48 0.52
104 1 0.01
105 5 0.05
106 38 0.41
ACGTcount: A:0.27, C:0.21, G:0.13, T:0.38
Consensus pattern (105 bp):
TTTTTTCCATATGATGCCATAACCTACCAATTATGATCTTTAATGATATGAATTCTTTCCATATG
ATGCCATAACCCACCAGTTACGATCTTAAACAATATGGTC
Found at i:47228792 original size:50 final size:51
Alignment explanation
Indices: 47228595--47228798 Score: 173
Period size: 53 Copynumber: 4.0 Consensus size: 51
47228585 AAATTTTTTT
* * * * *
47228595 CATATGATGCCATAACCTACTAGTT-GTGATCTTTAATGATATGATATTCTTTC
1 CATATGATGCCATAACCCACCAGTTACTGATCTTAAACGATATG--A-TCTTTC
* * ** * *
47228648 CATATGATGCCATAGCCCACCAGTTAC-GGTCTTATGCAATATGGTCTTTTTTC
1 CATATGATGCCATAACCCACCAGTTACTGATCTTAAACGATATGATC---TTTC
* * * * *
47228701 CATATGATGCCATAACTCACCAATTA-TGGTCTTACATGATATGATCTTTC
1 CATATGATGCCATAACCCACCAGTTACTGATCTTAAACGATATGATCTTTC
*
47228751 CATATGATGCCATAACCCACCAGTTACT-ATCTTAAACGATATGGTCTT
1 CATATGATGCCATAACCCACCAGTTACTGATCTTAAACGATATGATCTT
47228799 CTTTAGTGCC
Statistics
Matches: 120, Mismatches: 25, Indels: 15
0.75 0.16 0.09
Matches are distributed among these distances:
50 46 0.38
51 1 0.01
53 73 0.61
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (51 bp):
CATATGATGCCATAACCCACCAGTTACTGATCTTAAACGATATGATCTTTC
Found at i:47238391 original size:24 final size:24
Alignment explanation
Indices: 47238364--47238413 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
47238354 TCCTTTCGTA
47238364 TTACCACTTCTATTTCACTTATCC
1 TTACCACTTCTATTTCACTTATCC
47238388 TTACCACTTCTATTTCACTTATCC
1 TTACCACTTCTATTTCACTTATCC
47238412 TT
1 TT
47238414 GTAATCTGAC
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:0.20, C:0.32, G:0.00, T:0.48
Consensus pattern (24 bp):
TTACCACTTCTATTTCACTTATCC
Found at i:47243584 original size:24 final size:22
Alignment explanation
Indices: 47243518--47243606 Score: 79
Period size: 24 Copynumber: 3.8 Consensus size: 22
47243508 TAGTGCTCGC
** *
47243518 TTGAACTTCCCGTTACTGGTTAT
1 TTGAACTTCCCAATA-TGGTTCT
* * *
47243541 CTGAAGCTTTCCGATATGGTTCTT
1 TTGAA-CTTCCCAATATGGTTC-T
47243565 TGTGAACTTCCCAATATGGTTCT
1 T-TGAACTTCCCAATATGGTTCT
47243588 TTGAACTTCCCAATTATGG
1 TTGAACTTCCCAA-TATGG
47243607 CTGTTATGAG
Statistics
Matches: 55, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
22 12 0.22
23 16 0.29
24 23 0.42
25 4 0.07
ACGTcount: A:0.20, C:0.21, G:0.18, T:0.40
Consensus pattern (22 bp):
TTGAACTTCCCAATATGGTTCT
Found at i:47248066 original size:24 final size:24
Alignment explanation
Indices: 47248034--47248102 Score: 102
Period size: 24 Copynumber: 2.9 Consensus size: 24
47248024 AACCTTTCTG
*
47248034 ATATGGTTCTTTGTGAACTTCCTA
1 ATATGGTTCTTTGTGAACTTCCAA
47248058 ATATGGTTCTTTGTGAACTTCCAA
1 ATATGGTTCTTTGTGAACTTCCAA
* * *
47248082 ATAAGGTTCTTTCTTAACTTC
1 ATATGGTTCTTTGTGAACTTC
47248103 TCGATAATGG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.23, C:0.17, G:0.14, T:0.45
Consensus pattern (24 bp):
ATATGGTTCTTTGTGAACTTCCAA
Found at i:47253137 original size:45 final size:45
Alignment explanation
Indices: 47253081--47253179 Score: 153
Period size: 45 Copynumber: 2.2 Consensus size: 45
47253071 TCTACATAAA
* *
47253081 TAAGATAACCATTACTCAACCATAGTGGGATAATCACTTGTATCAC
1 TAAGA-AACCATTACTCAACCACAGTGGAATAATCACTTGTATCAC
*
47253127 TAAGAAACCATTACTCAACCACAGTGGAATAATCACTTTTATCAC
1 TAAGAAACCATTACTCAACCACAGTGGAATAATCACTTGTATCAC
*
47253172 TAAAAAAC
1 TAAGAAAC
47253180 TCTTCGGAAC
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
45 44 0.90
46 5 0.10
ACGTcount: A:0.41, C:0.22, G:0.10, T:0.26
Consensus pattern (45 bp):
TAAGAAACCATTACTCAACCACAGTGGAATAATCACTTGTATCAC
Found at i:47258518 original size:27 final size:27
Alignment explanation
Indices: 47258436--47258762 Score: 166
Period size: 27 Copynumber: 12.1 Consensus size: 27
47258426 TTAGTTTACC
*
47258436 AAATTACTGAAATACCCTC-AGTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * * * * *
47258462 GAATCAC-CAAAGTACCCCCGGTTTATA
1 AAATTACTGAAA-TACCCTCGATTTGTA
** *
47258489 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
**
47258516 AAATTACTGAAATACCCTC-AGTTTACA
1 AAATTACTGAAATACCCTCGA-TTTGTA
*
47258543 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * **
47258570 AAATTA-TCAAAGTACCC-CTGAATTACA
1 AAATTACTGAAA-TACCCTC-GATTTGTA
* * * **
47258597 AAATTACTAAAATACCCTTGGTTTACA
1 AAATTACTGAAATACCCTCGATTTGTA
** * **
47258624 AAATTACCAAAATACCCTCTATCAGTA
1 AAATTACTGAAATACCCTCGATTTGTA
** * * *
47258651 AAATTACCAAAATAGCCTTGGTTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
47258678 AAACTACTAAAATACCC-CTGGTTTGTA
1 AAATTACTGAAATACCCTC-GATTTGTA
* ** *
47258705 AAATTACTAAAATACCC-CTGGCTTGTG
1 AAATTACTGAAATACCCTC-GATTTGTA
* *
47258732 AAATTA-TCAAAATACTCTCGATTTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
47258759 AAAT
1 AAAT
47258763 ATCAAAATAC
Statistics
Matches: 235, Mismatches: 54, Indels: 23
0.75 0.17 0.07
Matches are distributed among these distances:
25 3 0.01
26 18 0.08
27 204 0.87
28 10 0.04
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:47258586 original size:54 final size:53
Alignment explanation
Indices: 47258428--47258614 Score: 189
Period size: 54 Copynumber: 3.5 Consensus size: 53
47258418 AGAATACTTT
* * * * *
47258428 AGTTTACCAAATTACTGAAATACCCTC-AGTTGTAGAATCACCAAAGTACCCCC
1 AGTTTACAAAATTACTGAAATACCCTCGACTTGTAAAATTATCAAAGTA-CCCC
* * ** * * *
47258481 GGTTTATAAAATTACCCAAATATCCTCGATTTGTAAAATTACTGAAA-TACCCTC
1 AGTTTACAAAATTACTGAAATACCCTCGACTTGTAAAATTA-TCAAAGTACCC-C
47258535 AGTTTACAAAATTACTGAAATACCCTCGACTTGTAAAATTATCAAAGTACCCC
1 AGTTTACAAAATTACTGAAATACCCTCGACTTGTAAAATTATCAAAGTACCCC
* * *
47258588 TGAATTACAAAATTACTAAAATACCCT
1 AG-TTTACAAAATTACTGAAATACCCT
47258615 TGGTTTACAA
Statistics
Matches: 108, Mismatches: 21, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 30 0.28
54 75 0.69
55 3 0.03
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.29
Consensus pattern (53 bp):
AGTTTACAAAATTACTGAAATACCCTCGACTTGTAAAATTATCAAAGTACCCC
Found at i:47258627 original size:54 final size:52
Alignment explanation
Indices: 47258510--47258746 Score: 188
Period size: 54 Copynumber: 4.4 Consensus size: 52
47258500 ATATCCTCGA
* * * * * *
47258510 TTTGTAAAATTACTGAAATACCCTCAGTTTACAAAATTACTGAAATACCCTCGA
1 TTTGTAAAATTAC-AAAATACCC-CTGATTACAAAATTACTAAAATACCCTTGG
* *
47258564 CTTGTAAAATTATCAAAGTACCCCTGAATTACAAAATTACTAAAATACCCTTGG
1 TTTGTAAAATTA-CAAAATACCCCTG-ATTACAAAATTACTAAAATACCCTTGG
** * * * *
47258618 TTTACAAAATTACCAAAATACCCTCT-ATCAGTAAAATTACCAAAATAGCCTTGG
1 TTTGTAAAATTA-CAAAATACCC-CTGATTA-CAAAATTACTAAAATACCCTTGG
* * ** *
47258672 TTTGTAAAACTACTAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCCTGG
1 TTTGTAAAATTAC-AAAATACCCCT-GATTACAAAATTACTAAAATACCCTTGG
* *
47258726 CTTGTGAAATTATCAAAATAC
1 TTTGTAAAATTA-CAAAATAC
47258747 TCTCGATTTG
Statistics
Matches: 146, Mismatches: 29, Indels: 16
0.76 0.15 0.08
Matches are distributed among these distances:
53 8 0.05
54 133 0.91
55 5 0.03
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.30
Consensus pattern (52 bp):
TTTGTAAAATTACAAAATACCCCTGATTACAAAATTACTAAAATACCCTTGG
Found at i:47258736 original size:81 final size:80
Alignment explanation
Indices: 47258487--47258777 Score: 270
Period size: 81 Copynumber: 3.6 Consensus size: 80
47258477 CCCCGGTTTA
* * *
47258487 TAAAATTACCCAAATATCCTCGATTTGTAAAATTACTGAAATA-CCCTCAGTTTACAAAATTACT
1 TAAAATTACCAAAATA-CCTCGATTTGTAAAATTACTAAAATACCCCT-GGTTTACAAAATTACT
*
47258551 GAAATA-CCCTCGACTTG
64 AAAATACCCCT-GACTTG
* * * * ** * *
47258568 TAAAATTATCAAAGTACCCCTGAATTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCA
1 TAAAATTACCAAAATACCTC-GATTTGTAAAATTACTAAAATACCCCTGGTTTACAAAATTACTA
*
47258633 AAATACCCTCT-A-TCAG
65 AAATACCC-CTGACT-TG
* * * **
47258649 TAAAATTACCAAAATAGCCTTGGTTTGTAAAACTACTAAAATACCCCTGGTTTGTAAAATTACTA
1 TAAAATTACCAAAATA-CCTCGATTTGTAAAATTACTAAAATACCCCTGGTTTACAAAATTACTA
*
47258714 AAATACCCCTGGCTTG
65 AAATACCCCTGACTTG
* *
47258730 TGAAATTATCAAAATACTCTCGATTTGTAAAA-TA-TCAAAATACCCCTG
1 TAAAATTACCAAAATAC-CTCGATTTGTAAAATTACT-AAAATACCCCTG
47258778 TAGGGTAGAA
Statistics
Matches: 168, Mismatches: 32, Indels: 21
0.76 0.14 0.10
Matches are distributed among these distances:
79 1 0.01
80 21 0.12
81 136 0.81
82 8 0.05
83 2 0.01
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (80 bp):
TAAAATTACCAAAATACCTCGATTTGTAAAATTACTAAAATACCCCTGGTTTACAAAATTACTAA
AATACCCCTGACTTG
Found at i:47258757 original size:54 final size:54
Alignment explanation
Indices: 47258542--47258777 Score: 196
Period size: 54 Copynumber: 4.4 Consensus size: 54
47258532 CTCAGTTTAC
* * * * **
47258542 AAAATTACTGAAATA-CCCTCGACTTGTAAAATTATCAAAGTACCCCTGAATTAC
1 AAAATTACTAAAATACCCCT-GGCTTGTAAAATTATCAAAATACCCCTGATTTGT
* * ** * **
47258596 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCT-ATCAGT
1 AAAATTACTAAAATACCCCTGGCTTGTAAAATTATCAAAATACCC-CTGATTTGT
* * * * * *
47258650 AAAATTACCAAAATAGCCTTGGTTTGTAAAACTA-CTAAAATACCCCTGGTTTGT
1 AAAATTACTAAAATACCCCTGGCTTGTAAAATTATC-AAAATACCCCTGATTTGT
* *
47258704 AAAATTACTAAAATACCCCTGGCTTGTGAAATTATCAAAATA-CTCTCGATTTGT
1 AAAATTACTAAAATACCCCTGGCTTGTAAAATTATCAAAATACCCCT-GATTTGT
47258758 AAAA-TA-TCAAAATACCCCTG
1 AAAATTACT-AAAATACCCCTG
47258778 TAGGGTAGAA
Statistics
Matches: 146, Mismatches: 29, Indels: 15
0.77 0.15 0.08
Matches are distributed among these distances:
52 1 0.01
53 20 0.14
54 119 0.82
55 6 0.04
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (54 bp):
AAAATTACTAAAATACCCCTGGCTTGTAAAATTATCAAAATACCCCTGATTTGT
Found at i:47258808 original size:27 final size:27
Alignment explanation
Indices: 47258767--47258981 Score: 286
Period size: 27 Copynumber: 8.0 Consensus size: 27
47258757 TAAAATATCA
47258767 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
47258794 AAATACCCCTATAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
47258821 CAATACCCCTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
** **
47258848 AAATAATCCTGTAGGGTAGAATTACTA
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
47258875 AAATACCCCTGTAGGGCAAAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
47258902 AAATACCCTTGTAGGGTAGAAATACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
47258929 AAATACCCCTGTAGGGTAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * * *
47258956 AGATACCCTTGTGGGGTAAAATTACC
1 AAATACCCCTGTAGGGTAGAATTACC
47258982 ATTTTGCCCC
Statistics
Matches: 162, Mismatches: 26, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 162 1.00
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACCG
Found at i:47259251 original size:25 final size:25
Alignment explanation
Indices: 47259184--47259253 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
47259174 AGGAAGTGCT
* * *
47259184 AAAAGGGCTATGCCCCAATTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
47259209 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
47259234 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
47259254 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:47259521 original size:31 final size:31
Alignment explanation
Indices: 47259472--47259554 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
47259462 CGCTTACAGT
47259472 AAAGGCTTCAG-CCAGTGATATGATTTATGA
1 AAAGGCTTCAGCCCAGTGATATGATTTATGA
*
47259502 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCAGCCCAGTGATATGATTTATGA
47259533 AAAGGCTTCAGCCCAGT-ATATG
1 AAAGGCTTCAGCCCAGTGATATG
47259555 TCGAGACTGA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
30 15 0.30
31 35 0.70
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTGATATGATTTATGA
Found at i:47261962 original size:27 final size:27
Alignment explanation
Indices: 47261918--47261986 Score: 93
Period size: 27 Copynumber: 2.6 Consensus size: 27
47261908 GAAGTGTATT
* * *
47261918 ATACCGGTGGCTTCGCCACATATACTG
1 ATACTGGTGGCTTTGCCACATATACTA
*
47261945 TTACTGGTGGCTTTGCCACATATACTA
1 ATACTGGTGGCTTTGCCACATATACTA
*
47261972 ATACTGGTAGCTTTG
1 ATACTGGTGGCTTTG
47261987 TTGCGATACT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.33
Consensus pattern (27 bp):
ATACTGGTGGCTTTGCCACATATACTA
Done.