Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 51 of 362
Found at i:15195076 original size:17 final size:18
Alignment explanation
Indices: 15195054--15195089 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
15195044 TCGAAACCGG
15195054 TCGGTTAA-CCAAAAAAA
1 TCGGTTAATCCAAAAAAA
*
15195071 TCGGTTAATCGAAAAAAA
1 TCGGTTAATCCAAAAAAA
15195089 T
1 T
15195090 TAATAAAAAA
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:0.50, C:0.14, G:0.14, T:0.22
Consensus pattern (18 bp):
TCGGTTAATCCAAAAAAA
Found at i:15195292 original size:9 final size:9
Alignment explanation
Indices: 15195278--15195372 Score: 136
Period size: 9 Copynumber: 10.6 Consensus size: 9
15195268 TTTATACAAA
*
15195278 TAATTCAGT
1 TAATTCGGT
15195287 TAATTCGGT
1 TAATTCGGT
*
15195296 TAATTCAGT
1 TAATTCGGT
15195305 TAATTCGGT
1 TAATTCGGT
15195314 TAATTCGGT
1 TAATTCGGT
15195323 TAATTCGGT
1 TAATTCGGT
* *
15195332 TAATTTGGG
1 TAATTCGGT
*
15195341 TAATTCGGG
1 TAATTCGGT
*
15195350 TAATTCGAT
1 TAATTCGGT
15195359 TAATTCGGT
1 TAATTCGGT
15195368 TAATT
1 TAATT
15195373 TTATACTTAT
Statistics
Matches: 77, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 77 1.00
ACGTcount: A:0.26, C:0.09, G:0.20, T:0.44
Consensus pattern (9 bp):
TAATTCGGT
Found at i:15200128 original size:93 final size:93
Alignment explanation
Indices: 15200013--15200183 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
15200003 GCCCCTAAGT
* *
15200013 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
15200078 CAAGTTCGGATGCCTAGTTACATTTCAC
66 CAAGTTCGGATGCCTAGTTACATTTCAC
*
15200106 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
15200171 CGAGTTCGGATGC
66 CAAGTTCGGATGC
15200184 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CAAGTTCGGATGCCTAGTTACATTTCAC
Found at i:15200180 original size:46 final size:46
Alignment explanation
Indices: 15200008--15200180 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
15199998 AACCCGCCCC
* * *
15200008 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* * *
15200054 TAAGTGAACTCGGACTCAACTCAACAAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
15200102 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
15200147 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
15200181 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 60 0.57
47 28 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:15209660 original size:22 final size:22
Alignment explanation
Indices: 15209632--15209676 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
15209622 CATGGAGGGC
*
15209632 CCAGATGAGAGAAAACAGACAA
1 CCAGATGAGAAAAAACAGACAA
15209654 CCAGATGAGAAAAAACAGACAA
1 CCAGATGAGAAAAAACAGACAA
15209676 C
1 C
15209677 TCAATAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.56, C:0.20, G:0.20, T:0.04
Consensus pattern (22 bp):
CCAGATGAGAAAAAACAGACAA
Found at i:15214746 original size:79 final size:79
Alignment explanation
Indices: 15214615--15214771 Score: 260
Period size: 79 Copynumber: 2.0 Consensus size: 79
15214605 CTAAAATAAT
* * *
15214615 CAATTAAGTTATTTCGTTAGTAGAATTCGTGGTTGACCACGTTGACCTTTAAAATAAATTAACAA
1 CAATTAAATTATTCCGTTAGTAGAATTCGTGGTTGACCACATTGACCTTTAAAATAAATTAACAA
15214680 ACCAATCATATAGC
66 ACCAATCATATAGC
* *
15214694 CAATTAAATTATTCCGTTAGTAGAATTCGTGGTTGACCACATTGACTTTTAAAATAAATTGACAA
1 CAATTAAATTATTCCGTTAGTAGAATTCGTGGTTGACCACATTGACCTTTAAAATAAATTAACAA
*
15214759 ACTAATCATATAG
66 ACCAATCATATAG
15214772 TAATATGTGA
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
79 72 1.00
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (79 bp):
CAATTAAATTATTCCGTTAGTAGAATTCGTGGTTGACCACATTGACCTTTAAAATAAATTAACAA
ACCAATCATATAGC
Found at i:15214938 original size:18 final size:18
Alignment explanation
Indices: 15214878--15214966 Score: 58
Period size: 18 Copynumber: 4.9 Consensus size: 18
15214868 TTAAAAAATA
*
15214878 ATAAAACTAATAT-AAACTT
1 ATAAAA-TATTATAAAAC-T
* *
15214897 ATAAAAAAATA-AAAACT
1 ATAAAATATTATAAAACT
*
15214914 -TATAAATGTTATAAAACT
1 ATA-AAATATTATAAAACT
* *
15214932 ATAAAATATTTTAAAATT
1 ATAAAATATTATAAAACT
*
15214950 AATAAAATATTTTAAAA
1 -ATAAAATATTATAAAA
15214967 TTTTATAAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 10
0.77 0.09 0.13
Matches are distributed among these distances:
16 2 0.03
17 6 0.10
18 26 0.45
19 24 0.41
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.34
Consensus pattern (18 bp):
ATAAAATATTATAAAACT
Found at i:15214956 original size:19 final size:19
Alignment explanation
Indices: 15214932--15214968 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
15214922 TTATAAAACT
15214932 ATAAAATATTTTAAAATTA
1 ATAAAATATTTTAAAATTA
15214951 ATAAAATATTTTAAAATT
1 ATAAAATATTTTAAAATT
15214969 TTATAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
ATAAAATATTTTAAAATTA
Found at i:15215005 original size:20 final size:19
Alignment explanation
Indices: 15214931--15215017 Score: 70
Period size: 20 Copynumber: 4.5 Consensus size: 19
15214921 GTTATAAAAC
*
15214931 TATAAAATATTTTAAAATTA
1 TATAAAA-ATTTTAAAAATA
* *
15214951 -ATAAAATATTTTAAAATTT
1 TATAAAA-ATTTTAAAAATA
**
15214970 TATAAAAATGAATAAAAATA
1 TATAAAAAT-TTTAAAAATA
*
15214990 TATAAAAATTCTTAAAAACA
1 TATAAAAATT-TTAAAAATA
15215010 TA-AAAAAT
1 TATAAAAAT
15215018 CATAAAAAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
19 26 0.46
20 30 0.54
ACGTcount: A:0.61, C:0.02, G:0.01, T:0.36
Consensus pattern (19 bp):
TATAAAAATTTTAAAAATA
Found at i:15215006 original size:19 final size:18
Alignment explanation
Indices: 15214931--15215015 Score: 57
Period size: 19 Copynumber: 4.4 Consensus size: 18
15214921 GTTATAAAAC
15214931 TATAAAATATTTTAAAAT-
1 TATAAAA-ATTTTAAAATA
*
15214949 TAATAAAATATTTTAAAATTT
1 T-ATAAAA-ATTTTAAAA-TA
* *
15214970 TATAAAAATGAATAAAAATA
1 TATAAAAAT--TTTAAAATA
15214990 TATAAAAATTCTTAAAA-A
1 TATAAAAATT-TTAAAATA
*
15215008 CATAAAAA
1 TATAAAAA
15215016 ATCATAAAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
18 9 0.16
19 23 0.42
20 17 0.31
21 6 0.11
ACGTcount: A:0.61, C:0.02, G:0.01, T:0.35
Consensus pattern (18 bp):
TATAAAAATTTTAAAATA
Found at i:15215014 original size:18 final size:18
Alignment explanation
Indices: 15214981--15215025 Score: 54
Period size: 20 Copynumber: 2.4 Consensus size: 18
15214971 ATAAAAATGA
*
15214981 ATAAAAATATATAAAAATTC
1 ATAAAAACATA-AAAAA-TC
*
15215001 TTAAAAACATAAAAAATC
1 ATAAAAACATAAAAAATC
15215019 ATAAAAA
1 ATAAAAA
15215026 AATTATAAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 8 0.36
19 5 0.23
20 9 0.41
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (18 bp):
ATAAAAACATAAAAAATC
Found at i:15215221 original size:16 final size:17
Alignment explanation
Indices: 15215197--15215238 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
15215187 AAAGTTGAAG
*
15215197 TAATTTTTTTTA-TTTT
1 TAATATTTTTTAGTTTT
15215213 TAATATTTTTTAGTTTT
1 TAATATTTTTTAGTTTT
*
15215230 TAATGTTTT
1 TAATATTTT
15215239 ATTTAATTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 11 0.48
17 12 0.52
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (17 bp):
TAATATTTTTTAGTTTT
Found at i:15215223 original size:17 final size:17
Alignment explanation
Indices: 15215197--15215243 Score: 60
Period size: 16 Copynumber: 2.7 Consensus size: 17
15215187 AAAGTTGAAG
15215197 TAATTTTTTTTA-TTTT
1 TAATTTTTTTTAGTTTT
*
15215213 TAATATTTTTTAGTTTT
1 TAATTTTTTTTAGTTTT
15215230 TAATGTTTTATTTA
1 TAAT-TTTT-TTTA
15215244 ATTGAACTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
16 11 0.42
17 8 0.31
18 3 0.12
19 4 0.15
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.72
Consensus pattern (17 bp):
TAATTTTTTTTAGTTTT
Found at i:15215353 original size:10 final size:9
Alignment explanation
Indices: 15215316--15215407 Score: 71
Period size: 10 Copynumber: 9.8 Consensus size: 9
15215306 TCATTGATCC
15215316 AATTTTTAT
1 AATTTTTAT
*
15215325 AATATTTAT
1 AATTTTTAT
*
15215334 AACATTTTAT
1 AA-TTTTTAT
15215344 AATTTGTTAT
1 AATTT-TTAT
15215354 AATTTTTATT
1 AATTTTTA-T
*
15215364 AAGTTTATAT
1 AA-TTTTTAT
15215374 CAA-TTTT-T
1 -AATTTTTAT
15215382 AATTTTTGAT
1 AATTTTT-AT
*
15215392 ATTTTTTAT
1 AATTTTTAT
*
15215401 ACTTTTT
1 AATTTTT
15215408 TTTAGGTTAG
Statistics
Matches: 67, Mismatches: 8, Indels: 16
0.74 0.09 0.18
Matches are distributed among these distances:
7 2 0.03
8 5 0.07
9 26 0.39
10 27 0.40
11 7 0.10
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (9 bp):
AATTTTTAT
Found at i:15215360 original size:19 final size:18
Alignment explanation
Indices: 15215316--15215362 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
15215306 TCATTGATCC
15215316 AATTTTTATAATATTTAT
1 AATTTTTATAATATTTAT
* *
15215334 AACATTTTATAATTTGTTAT
1 AA-TTTTTATAATAT-TTAT
15215354 AATTTTTAT
1 AATTTTTAT
15215363 TAAGTTTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 2 0.08
19 16 0.67
20 6 0.25
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (18 bp):
AATTTTTATAATATTTAT
Found at i:15215371 original size:38 final size:39
Alignment explanation
Indices: 15215316--15215400 Score: 97
Period size: 38 Copynumber: 2.2 Consensus size: 39
15215306 TCATTGATCC
15215316 AATTTTTA-TAATATTTATAAC-ATTTTATAATTTGTT-AT
1 AATTTTTATTAATATTTATAACAATTTT-TAATTT-TTGAT
* *
15215354 AATTTTTATTAA-GTTTATATCAATTTTTAATTTTTGAT
1 AATTTTTATTAATATTTATAACAATTTTTAATTTTTGAT
*
15215392 ATTTTTTAT
1 AATTTTTAT
15215401 ACTTTTTTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
37 2 0.05
38 31 0.76
39 8 0.20
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (39 bp):
AATTTTTATTAATATTTATAACAATTTTTAATTTTTGAT
Found at i:15216463 original size:9 final size:9
Alignment explanation
Indices: 15216435--15216581 Score: 68
Period size: 10 Copynumber: 15.7 Consensus size: 9
15216425 GTTTAACAAA
15216435 TTATAATTT
1 TTATAATTT
**
15216444 TTATGTTTTT
1 TTAT-AATTT
*
15216454 TTATTATTT
1 TTATAATTT
15216463 TTATAAGTTT
1 TTATAA-TTT
15216473 TTAATAATTT
1 TT-ATAATTT
*
15216483 TTATACATGT
1 TTATA-ATTT
*
15216493 TTATAAAATT
1 TTAT-AATTT
*
15216503 TTAAATATATT
1 TTATA-AT-TT
15216514 TTATTAA-TT
1 TTA-TAATTT
*
15216523 TTATAA--A
1 TTATAATTT
*
15216530 ATATAATTT
1 TTATAATTT
15216539 TTAT-ATTT
1 TTATAATTT
* *
15216547 TTATAGTAT
1 TTATAATTT
15216556 TTATAAGTTT
1 TTATAA-TTT
* *
15216566 GTATTATTTT
1 TTA-TAATTT
15216576 TTATAA
1 TTATAA
15216582 ATTTATATCA
Statistics
Matches: 103, Mismatches: 22, Indels: 26
0.68 0.15 0.17
Matches are distributed among these distances:
7 5 0.05
8 11 0.11
9 34 0.33
10 39 0.38
11 13 0.13
12 1 0.01
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.61
Consensus pattern (9 bp):
TTATAATTT
Found at i:15216505 original size:30 final size:30
Alignment explanation
Indices: 15216452--15216531 Score: 85
Period size: 30 Copynumber: 2.7 Consensus size: 30
15216442 TTTTATGTTT
* * *
15216452 TTTTATTATTTTTAT-AAGTTTTTAATA-A
1 TTTTATTAATTTTATAAAATTTTAAATATA
15216480 TTTT-TATACATGTTTATAAAATTTTAAATATA
1 TTTTAT-TA-AT-TTTATAAAATTTTAAATATA
15216512 TTTTATTAATTTTATAAAAT
1 TTTTATTAATTTTATAAAAT
15216532 ATAATTTTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
27 1 0.02
28 6 0.14
29 1 0.02
30 15 0.35
31 12 0.28
32 7 0.16
33 1 0.02
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.59
Consensus pattern (30 bp):
TTTTATTAATTTTATAAAATTTTAAATATA
Found at i:15217126 original size:75 final size:76
Alignment explanation
Indices: 15216997--15217141 Score: 238
Period size: 75 Copynumber: 1.9 Consensus size: 76
15216987 ACTATTAAGG
* *
15216997 ACATTAAATTAATAATTAAATATAACGAAACTTTTAAATTATTTCATCTTTATGAAATTATTAAA
1 ACATTAAACTAATAATTAAATATAACAAAACTTTTAAATTATTTCATCTTTATGAAATTATTAAA
15217062 AATATGTCAAA
66 AATATGTCAAA
* * *
15217073 ACATTAAACTAATAATTTAATATAA-AAAAGTTTTAAATTATTTCATTTTTATGAAATTATTAAA
1 ACATTAAACTAATAATTAAATATAACAAAACTTTTAAATTATTTCATCTTTATGAAATTATTAAA
15217137 AATAT
66 AATAT
15217142 CCAATTATGT
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
75 41 0.64
76 23 0.36
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.41
Consensus pattern (76 bp):
ACATTAAACTAATAATTAAATATAACAAAACTTTTAAATTATTTCATCTTTATGAAATTATTAAA
AATATGTCAAA
Found at i:15223260 original size:2 final size:2
Alignment explanation
Indices: 15223255--15223306 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
15223245 AAGGAGGAAG
15223255 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
15223297 GA GA GA GA GA
1 GA GA GA GA GA
15223307 TTCTTCCACT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:15229333 original size:39 final size:39
Alignment explanation
Indices: 15229279--15229442 Score: 274
Period size: 39 Copynumber: 4.2 Consensus size: 39
15229269 GAAATGTGTA
15229279 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
* *
15229318 TGGAAATATATCCGGGCCAAAGACCCGCAGGCTTCGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
*
15229357 TGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTTGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
* *
15229396 TGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTGC
1 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
*
15229435 TGGTAATA
1 TGGAAATA
15229443 AAATTTCGGG
Statistics
Matches: 117, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 117 1.00
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.23
Consensus pattern (39 bp):
TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
Found at i:15232142 original size:18 final size:18
Alignment explanation
Indices: 15232119--15232156 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
15232109 AATTGGTTGA
15232119 TAGTTCTATTTGGAGGCT
1 TAGTTCTATTTGGAGGCT
15232137 TAGTTCTATTTGGAGGCT
1 TAGTTCTATTTGGAGGCT
15232155 TA
1 TA
15232157 ATATGTGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.18, C:0.11, G:0.26, T:0.45
Consensus pattern (18 bp):
TAGTTCTATTTGGAGGCT
Found at i:15241648 original size:15 final size:14
Alignment explanation
Indices: 15241622--15241651 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
15241612 TACAAAGTTA
15241622 ATAATAATTAATAT
1 ATAATAATTAATAT
15241636 ATAATATATTAATAT
1 ATAATA-ATTAATAT
15241651 A
1 A
15241652 CTATTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
ATAATAATTAATAT
Found at i:15243798 original size:31 final size:31
Alignment explanation
Indices: 15243763--15243821 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
15243753 GGTAATTCCC
* *
15243763 AATTAGTTGTGACAATAATTGGTGCCGAAAA
1 AATTAGGTCTGACAATAATTGGTGCCGAAAA
15243794 AATTAGGTCTGACAATAATTGGTGCCGA
1 AATTAGGTCTGACAATAATTGGTGCCGA
15243822 GATTCATCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.29
Consensus pattern (31 bp):
AATTAGGTCTGACAATAATTGGTGCCGAAAA
Found at i:15248396 original size:23 final size:23
Alignment explanation
Indices: 15248343--15248397 Score: 76
Period size: 22 Copynumber: 2.4 Consensus size: 23
15248333 TTGAGCCGAT
*
15248343 AAACGGTAAGCTCAATTGAGCTG
1 AAACGGTAAGCTCAATAGAGCTG
**
15248366 -AACGGTAAGCTCTGTAGAGCTG
1 AAACGGTAAGCTCAATAGAGCTG
15248388 AAACGGTAAG
1 AAACGGTAAG
15248398 TCCCTAAAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 19 0.68
23 9 0.32
ACGTcount: A:0.35, C:0.16, G:0.29, T:0.20
Consensus pattern (23 bp):
AAACGGTAAGCTCAATAGAGCTG
Found at i:15254430 original size:33 final size:33
Alignment explanation
Indices: 15254393--15254456 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
15254383 ATACTTACTT
15254393 GTATACTTAATCGTATATGGTGGCTAGAGACTG
1 GTATACTTAATCGTATATGGTGGCTAGAGACTG
* *
15254426 GTATACTTACTCGTATCTGGTGGCTAGAGAC
1 GTATACTTAATCGTATATGGTGGCTAGAGAC
15254457 AAACAAGATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.33
Consensus pattern (33 bp):
GTATACTTAATCGTATATGGTGGCTAGAGACTG
Found at i:15256135 original size:31 final size:31
Alignment explanation
Indices: 15256046--15256150 Score: 106
Period size: 31 Copynumber: 3.4 Consensus size: 31
15256036 AGTGGAATGT
15256046 ATTAATAAAATATTATCAAGATAAATATTAA
1 ATTAATAAAATATTATCAAGATAAATATTAA
** * * * * *
15256077 ATTAAATTTAACA-TCTC-ATATTAATATTGA
1 ATT-AATAAAATATTATCAAGATAAATATTAA
15256107 ATTAATAAAATATTATCAAGATAAATATTAA
1 ATTAATAAAATATTATCAAGATAAATATTAA
*
15256138 ATTTATTAAAATA
1 A-TTAATAAAATA
15256151 ATATTATTTT
Statistics
Matches: 55, Mismatches: 15, Indels: 7
0.71 0.19 0.09
Matches are distributed among these distances:
29 6 0.11
30 16 0.29
31 17 0.31
32 16 0.29
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.39
Consensus pattern (31 bp):
ATTAATAAAATATTATCAAGATAAATATTAA
Found at i:15256143 original size:21 final size:21
Alignment explanation
Indices: 15256114--15256156 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
15256104 TGAATTAATA
*
15256114 AAATATTATCAAGATAAATATT
1 AAATATTATCAAAAT-AATATT
*
15256136 AAAT-TTATTAAAATAATATT
1 AAATATTATCAAAATAATATT
15256156 A
1 A
15256157 TTTTTCAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
21 8 0.42
22 4 0.21
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (21 bp):
AAATATTATCAAAATAATATT
Found at i:15267842 original size:18 final size:16
Alignment explanation
Indices: 15267801--15267843 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
15267791 GATTATTAAA
*
15267801 TTATTTAATTAAAAGT
1 TTATTTAATTAAAAAT
15267817 TTATTTAATTAAAAAT
1 TTATTTAATTAAAAAT
15267833 TATGATTTAAT
1 T-T-ATTTAAT
15267844 AACTTATAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 16 0.67
17 1 0.04
18 7 0.29
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (16 bp):
TTATTTAATTAAAAAT
Found at i:15276379 original size:40 final size:39
Alignment explanation
Indices: 15276295--15276479 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 39
15276285 TCGAATGATG
* * * *
15276295 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* *
15276335 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* *
15276375 TCCGGGCTAAGCCCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
* *
15276414 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
15276455 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
15276480 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:15276501 original size:79 final size:79
Alignment explanation
Indices: 15276348--15276512 Score: 219
Period size: 79 Copynumber: 2.1 Consensus size: 79
15276338 GGACTAAGAT
* *
15276348 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTTGTACGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
* *
15276413 ATCTGGGTTAAGTC
66 ATCTCGGTTAAATC
*
15276427 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
15276490 TATATC-CGGTTAAATT
63 TAAATCTCGGTTAAATC
15276506 CCGAAGG
1 CCGAAGG
15276513 TACGTGATTC
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCTCGGTTAAATC
Found at i:15279336 original size:33 final size:32
Alignment explanation
Indices: 15279278--15279341 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 32
15279268 GTATTGCCAA
15279278 AAACATATATTAGATCATAAAGTCATATTTTCG
1 AAACATATATTAGATCATAAAGTCAT-TTTTCG
*
15279311 AAACATAT-TTCAGATCGA-AATGTCATTTTTC
1 AAACATATATT-AGATC-ATAAAGTCATTTTTC
15279342 ATTATCATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
32 7 0.25
33 20 0.71
34 1 0.04
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.38
Consensus pattern (32 bp):
AAACATATATTAGATCATAAAGTCATTTTTCG
Found at i:15284350 original size:16 final size:16
Alignment explanation
Indices: 15284331--15284361 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15284321 AGATGTGAAT
*
15284331 TGAATTGAATTAAATA
1 TGAATCGAATTAAATA
15284347 TGAATCGAATTAAAT
1 TGAATCGAATTAAAT
15284362 TGAGCTGAAT
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:0.48, C:0.03, G:0.13, T:0.35
Consensus pattern (16 bp):
TGAATCGAATTAAATA
Found at i:15286621 original size:46 final size:46
Alignment explanation
Indices: 15286571--15286746 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
15286561 TGATTGAGCA
15286571 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
15286617 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
15286662 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
15286710 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
15286747 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 61 0.55
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:15286727 original size:93 final size:93
Alignment explanation
Indices: 15286568--15286739 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
15286558 GGATGATTGA
*
15286568 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
15286633 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
15286661 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
15286725 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
15286740 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:15288938 original size:28 final size:28
Alignment explanation
Indices: 15288875--15288997 Score: 176
Period size: 28 Copynumber: 4.4 Consensus size: 28
15288865 ATATTAAGTC
*
15288875 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
15288902 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
15288930 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
15288958 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
15288987 CGCACACTTAG
1 CGCACACTTAG
15288998 CGCCAATCTC
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 22 0.25
28 49 0.56
29 16 0.18
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:15310605 original size:24 final size:24
Alignment explanation
Indices: 15310578--15310635 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
15310568 CCCTCTCGAG
* *
15310578 CTTCCCATTATGTGGTTCAGCGAA
1 CTTCCCATTATATGGTTCAACGAA
*
15310602 CTTCCCATTATATGGTTCAACGAG
1 CTTCCCATTATATGGTTCAACGAA
*
15310626 CTTTCCATTA
1 CTTCCCATTA
15310636 ATAGCTCTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.22, C:0.26, G:0.16, T:0.36
Consensus pattern (24 bp):
CTTCCCATTATATGGTTCAACGAA
Found at i:15313182 original size:18 final size:18
Alignment explanation
Indices: 15313126--15313192 Score: 71
Period size: 18 Copynumber: 3.7 Consensus size: 18
15313116 AATCGGTTAA
*
15313126 TCAGTAACAATCATTTAT
1 TCAGTAACAGTCATTTAT
* * * *
15313144 TCGGTATCAGTCGTTTTT
1 TCAGTAACAGTCATTTAT
*
15313162 TCAGTAACAGTCAATTAT
1 TCAGTAACAGTCATTTAT
*
15313180 TCAGTAGCAGTCA
1 TCAGTAACAGTCA
15313193 GTCTTTAATA
Statistics
Matches: 38, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 38 1.00
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (18 bp):
TCAGTAACAGTCATTTAT
Found at i:15313332 original size:6 final size:6
Alignment explanation
Indices: 15313315--15313349 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
15313305 TACACTGTGT
* *
15313315 CAGTAA CGGTAA CAGTAA CAGTAA TAGTAA CAGTA
1 CAGTAA CAGTAA CAGTAA CAGTAA CAGTAA CAGTA
15313350 GCGGCACACA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.46, C:0.14, G:0.20, T:0.20
Consensus pattern (6 bp):
CAGTAA
Found at i:15314358 original size:19 final size:19
Alignment explanation
Indices: 15314334--15314370 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
15314324 CTAATTTTTC
*
15314334 CTTTTTCTTTCTTTCCTTT
1 CTTTTTCCTTCTTTCCTTT
15314353 CTTTTTCCTTCTTTCCTT
1 CTTTTTCCTTCTTTCCTT
15314371 ACCTTGTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (19 bp):
CTTTTTCCTTCTTTCCTTT
Found at i:15314645 original size:20 final size:22
Alignment explanation
Indices: 15314620--15314669 Score: 70
Period size: 20 Copynumber: 2.4 Consensus size: 22
15314610 AAAATCTTAT
15314620 AATATATTATT-TAATT-AATA
1 AATATATTATTATAATTAAATA
15314640 AATATATT-TTATAATTAAATA
1 AATATATTATTATAATTAAATA
*
15314661 CATATATTA
1 AATATATTA
15314670 CAAATGTATG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 2 0.08
20 13 0.50
21 11 0.42
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (22 bp):
AATATATTATTATAATTAAATA
Found at i:15318640 original size:19 final size:19
Alignment explanation
Indices: 15318616--15318653 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
15318606 TACAAAGCTA
15318616 ACAAACAAGCTTAACTAAC
1 ACAAACAAGCTTAACTAAC
15318635 ACAAACAAGCTTAACTAAC
1 ACAAACAAGCTTAACTAAC
15318654 TCTACAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.26, G:0.05, T:0.16
Consensus pattern (19 bp):
ACAAACAAGCTTAACTAAC
Found at i:15321571 original size:17 final size:17
Alignment explanation
Indices: 15321549--15321585 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
15321539 TAATCAAATG
15321549 AGTGCTCTAGTTGACAT
1 AGTGCTCTAGTTGACAT
*
15321566 AGTGCTTTAGTTGACAT
1 AGTGCTCTAGTTGACAT
15321583 AGT
1 AGT
15321586 TCATTATACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.24, C:0.14, G:0.24, T:0.38
Consensus pattern (17 bp):
AGTGCTCTAGTTGACAT
Found at i:15325315 original size:19 final size:20
Alignment explanation
Indices: 15325278--15325322 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 20
15325268 AAGTTGAACG
*
15325278 GAAAGAAAAAGATAGGGAGAA
1 GAAA-AAAAAGATAAGGAGAA
15325299 GAAAAAAAAGA-AAGGAGAA
1 GAAAAAAAAGATAAGGAGAA
15325318 GAAAA
1 GAAAA
15325323 CAAGGAGGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 12 0.52
20 7 0.30
21 4 0.17
ACGTcount: A:0.69, C:0.00, G:0.29, T:0.02
Consensus pattern (20 bp):
GAAAAAAAAGATAAGGAGAA
Found at i:15328756 original size:33 final size:33
Alignment explanation
Indices: 15328699--15328761 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
15328689 TTGAGCTGGA
* *
15328699 AGGAGTGGAGTACTGCGATTGATACGGGCCAAG
1 AGGAGTGGAGTACGGCGATGGATACGGGCCAAG
* *
15328732 AGGAGTGGAGTACGGTGGTGGATACGGGCC
1 AGGAGTGGAGTACGGCGATGGATACGGGCC
15328762 GGAAGGAGCG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.24, C:0.14, G:0.44, T:0.17
Consensus pattern (33 bp):
AGGAGTGGAGTACGGCGATGGATACGGGCCAAG
Found at i:15328769 original size:33 final size:33
Alignment explanation
Indices: 15328696--15328774 Score: 88
Period size: 33 Copynumber: 2.4 Consensus size: 33
15328686 AACTTGAGCT
* *
15328696 GGAAGGAGTGGAGTACTGCGATTGATACGGGCC
1 GGAAGGAGTGGAGTACGGCGATGGATACGGGCC
* * *
15328729 -AAGAGGAGTGGAGTACGGTGGTGGATACGGGCC
1 GGA-AGGAGTGGAGTACGGCGATGGATACGGGCC
*
15328762 GGAAGGAGCGGAG
1 GGAAGGAGTGGAG
15328775 CACTAAGGTG
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
32 1 0.03
33 35 0.95
34 1 0.03
ACGTcount: A:0.25, C:0.13, G:0.48, T:0.14
Consensus pattern (33 bp):
GGAAGGAGTGGAGTACGGCGATGGATACGGGCC
Found at i:15331663 original size:60 final size:60
Alignment explanation
Indices: 15331579--15331695 Score: 173
Period size: 60 Copynumber: 1.9 Consensus size: 60
15331569 ATACTAAACT
* * * *
15331579 AAACACAACAATTTATAACTTAATCTTAATTTACTAATAAATTAATTTTAAAATAATTAC
1 AAACACAACAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
*
15331639 AAACACAA-AATTTTTTAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAAT
1 AAACACAACAA-TTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAAT
15331696 CATAAAAAAC
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
59 2 0.04
60 49 0.96
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (60 bp):
AAACACAACAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
Found at i:15331886 original size:17 final size:18
Alignment explanation
Indices: 15331863--15331909 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 18
15331853 CATTACCTTT
*
15331863 TTTCTTTCTTTCTTCTTC
1 TTTCTTTCTTTCTTCTCC
*
15331881 -TTCTTTTTTTCTTCTCC
1 TTTCTTTCTTTCTTCTCC
*
15331898 TTTCTCTCTTTC
1 TTTCTTTCTTTC
15331910 GGTGTGGATG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
17 15 0.62
18 9 0.38
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTCTTTCTTTCTTCTCC
Found at i:15331938 original size:22 final size:22
Alignment explanation
Indices: 15331910--15331953 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
15331900 TCTCTCTTTC
15331910 GGTGTGGATGGGGTTTGGGGGA
1 GGTGTGGATGGGGTTTGGGGGA
15331932 GGTGTGGATGGGGTTTGGGGGA
1 GGTGTGGATGGGGTTTGGGGGA
15331954 CCATACTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.09, C:0.00, G:0.64, T:0.27
Consensus pattern (22 bp):
GGTGTGGATGGGGTTTGGGGGA
Found at i:15340606 original size:19 final size:19
Alignment explanation
Indices: 15340560--15340606 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 19
15340550 ATAAAAATTC
15340560 AAATATATATAATTTATAAA
1 AAATATA-ATAATTTATAAA
*
15340580 AAACATAATAA-TTATAAA
1 AAATATAATAATTTATAAA
15340598 AAATTATAA
1 AAA-TATAA
15340607 AAATAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 10 0.42
19 8 0.33
20 6 0.25
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (19 bp):
AAATATAATAATTTATAAA
Found at i:15340944 original size:35 final size:36
Alignment explanation
Indices: 15340881--15340949 Score: 99
Period size: 35 Copynumber: 1.9 Consensus size: 36
15340871 ATTTTTAAAA
15340881 TTTTTAAAATCTTTTATATTATATATATA-AATAAT
1 TTTTTAAAATCTTTTATATTATATATATATAATAAT
15340916 TTTTTAAAAT-TTTTA-ATTAATATAATATATAATA
1 TTTTTAAAATCTTTTATATT-ATAT-ATATATAATA
15340950 TTAAAAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
33 3 0.10
34 9 0.29
35 15 0.48
36 4 0.13
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (36 bp):
TTTTTAAAATCTTTTATATTATATATATATAATAAT
Found at i:15341693 original size:21 final size:21
Alignment explanation
Indices: 15341667--15341707 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
15341657 ATCATTTAAA
* *
15341667 AATTGATTGAATCGACAATTG
1 AATTGATTGAACCGAAAATTG
15341688 AATTGATTGAACCGAAAATT
1 AATTGATTGAACCGAAAATT
15341708 TATTTTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.41, C:0.10, G:0.17, T:0.32
Consensus pattern (21 bp):
AATTGATTGAACCGAAAATTG
Found at i:15348409 original size:21 final size:21
Alignment explanation
Indices: 15348383--15348424 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
15348373 ATCGAAGGTT
*
15348383 TCTGGTTCACATAAATCAAAA
1 TCTGGTACACATAAATCAAAA
15348404 TCTGGTACACATAAATCAAAA
1 TCTGGTACACATAAATCAAAA
15348425 CATTGCTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.45, C:0.19, G:0.10, T:0.26
Consensus pattern (21 bp):
TCTGGTACACATAAATCAAAA
Found at i:15356589 original size:25 final size:25
Alignment explanation
Indices: 15356511--15356594 Score: 91
Period size: 25 Copynumber: 3.3 Consensus size: 25
15356501 TGGCTCGCAA
15356511 GAGCTTCCCGTTATACA-GCTCAAAT
1 GAGCTTCCCGTT-TACATGCTCAAAT
* *
15356536 GAGCTTCCCG-TTATATGGCTCAAAA
1 GAGCTTCCCGTTTACAT-GCTCAAAT
* *
15356561 GAGCTTCTCGTTTACATGCTCATAT
1 GAGCTTCCCGTTTACATGCTCAAAT
15356586 GAGCATTCC
1 GAGC-TTCC
15356595 TGAATATGAA
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
23 3 0.06
24 1 0.02
25 36 0.75
26 8 0.17
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (25 bp):
GAGCTTCCCGTTTACATGCTCAAAT
Found at i:15356602 original size:50 final size:50
Alignment explanation
Indices: 15356487--15356602 Score: 130
Period size: 50 Copynumber: 2.3 Consensus size: 50
15356477 AACTCTCTTT
**
15356487 AGCTTCCCAGTAA-ATGGCTCGCAAGAGCTTCCCGTTATACAGCTCAAATG
1 AGCTTCCC-GTAATATGGCTCAAAAGAGCTTCCCGTTATACAGCTCAAATG
* * *
15356537 AGCTTCCCGTTATATGGCTCAAAAGAGCTTCTCGTT-TACATGCTCATATG
1 AGCTTCCCGTAATATGGCTCAAAAGAGCTTCCCGTTATACA-GCTCAAATG
*
15356587 AGCATTCCTG-AATATG
1 AGC-TTCCCGTAATATG
15356603 AATTGACAGA
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
49 7 0.12
50 44 0.79
51 5 0.09
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (50 bp):
AGCTTCCCGTAATATGGCTCAAAAGAGCTTCCCGTTATACAGCTCAAATG
Found at i:15367079 original size:157 final size:157
Alignment explanation
Indices: 15366876--15367171 Score: 472
Period size: 157 Copynumber: 1.9 Consensus size: 157
15366866 TATAAGGGCA
*
15366876 AAATAATAATTCTGCCAAAGATGTGTGTTGGATTAAATTGAGTATGAATTATATTAAATTGAGTT
1 AAATAATAATTCTGCCAAAGATGTGTGTTGGATTAAATTGAATATGAATTATATTAAATTGAGTT
* * *
15366941 AAATTCATTCGTATAGAAT-TGGATAGACCTAATAC-GAAGTTAGACT-GAGGTAAAGAAAAAGT
66 AAATTCATTCGTATAG-ATCCGGATAAACCTAATACAG-AGTTAG-CTCGAGGCAAAGAAAAAGT
15367003 ATCGGATTAGTAATTCATTCGTATAGGGAC
128 ATCGGATTAGTAATTCATTCGTATAGGGAC
* * *
15367033 AAATAGTAATTTTTCCAAAGATGTGTGTTGGATTAAATTGAATATGAATTATATTAAATTGAGTT
1 AAATAATAATTCTGCCAAAGATGTGTGTTGGATTAAATTGAATATGAATTATATTAAATTGAGTT
*
15367098 AAATTCATTCGTATAGATCCGGATAAACCTAATACAGAGTTAGGTCGAGGCAAAGAAAAAGTATC
66 AAATTCATTCGTATAGATCCGGATAAACCTAATACAGAGTTAGCTCGAGGCAAAGAAAAAGTATC
15367163 GGATTAGTA
131 GGATTAGTA
15367172 GCTTTGTATC
Statistics
Matches: 128, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
156 3 0.02
157 124 0.97
158 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.20, T:0.32
Consensus pattern (157 bp):
AAATAATAATTCTGCCAAAGATGTGTGTTGGATTAAATTGAATATGAATTATATTAAATTGAGTT
AAATTCATTCGTATAGATCCGGATAAACCTAATACAGAGTTAGCTCGAGGCAAAGAAAAAGTATC
GGATTAGTAATTCATTCGTATAGGGAC
Found at i:15371856 original size:47 final size:47
Alignment explanation
Indices: 15371802--15371939 Score: 267
Period size: 47 Copynumber: 2.9 Consensus size: 47
15371792 TTATAGCCTA
*
15371802 TCTCAAACCCTCAACTCTTAATTTTTGTATATCATACCCATATATGT
1 TCTCAAACCCTCAACTCTTAATTTTTGTATTTCATACCCATATATGT
15371849 TCTCAAACCCTCAACTCTTAATTTTTGTATTTCATACCCATATATGT
1 TCTCAAACCCTCAACTCTTAATTTTTGTATTTCATACCCATATATGT
15371896 TCTCAAACCCTCAACTCTTAATTTTTGTATTTCATACCCATATA
1 TCTCAAACCCTCAACTCTTAATTTTTGTATTTCATACCCATATA
15371940 AATTATTGTA
Statistics
Matches: 90, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 90 1.00
ACGTcount: A:0.29, C:0.26, G:0.04, T:0.41
Consensus pattern (47 bp):
TCTCAAACCCTCAACTCTTAATTTTTGTATTTCATACCCATATATGT
Found at i:15372071 original size:29 final size:29
Alignment explanation
Indices: 15372029--15372086 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
15372019 GTGGTGCCGC
*
15372029 CTCTTTACCACCCACAATATATAATTTCA
1 CTCTTCACCACCCACAATATATAATTTCA
15372058 CTCTTCACCACCCACAATATATAATTTCA
1 CTCTTCACCACCCACAATATATAATTTCA
15372087 GTAGATAATG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.34, C:0.33, G:0.00, T:0.33
Consensus pattern (29 bp):
CTCTTCACCACCCACAATATATAATTTCA
Found at i:15391697 original size:25 final size:26
Alignment explanation
Indices: 15391668--15391720 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 26
15391658 TTATAGCCAT
* *
15391668 ACGAACCGTATAACTAAAGA-CCAAA
1 ACGAACCATATAACTAAAAAGCCAAA
*
15391693 ACGAACCATTTAACTAAAAAGCCAAA
1 ACGAACCATATAACTAAAAAGCCAAA
15391719 AC
1 AC
15391721 ACACCGTTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 17 0.71
26 7 0.29
ACGTcount: A:0.53, C:0.25, G:0.09, T:0.13
Consensus pattern (26 bp):
ACGAACCATATAACTAAAAAGCCAAA
Found at i:15394715 original size:31 final size:31
Alignment explanation
Indices: 15394680--15394743 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
15394670 AAATAATCAC
* *
15394680 TAAACAATTTAAAATTTTTTATTTAAGTTAT
1 TAAACAATTTAAAAGTTTTTATTTAAGATAT
*
15394711 TAAACTATTTAAAAGTTTTTATTTAAGATAT
1 TAAACAATTTAAAAGTTTTTATTTAAGATAT
15394742 TA
1 TA
15394744 CTTGGAGATC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (31 bp):
TAAACAATTTAAAAGTTTTTATTTAAGATAT
Found at i:15395689 original size:41 final size:41
Alignment explanation
Indices: 15395642--15395739 Score: 112
Period size: 42 Copynumber: 2.4 Consensus size: 41
15395632 TAAAATCATT
* *
15395642 AAAATTATTAAAAAAATTATACAAAAGATTA-ATAATATTA-A
1 AAAATTATTAAAAAAATGACACAAAA-ATTATAT-ATATTATA
*
15395683 AAAATTA-TAAATATAAATGACACAAAAATTGTATATATTATA
1 AAAATTATTAAA-A-AAATGACACAAAAATTATATATATTATA
15395725 AAAATTATTAAAAAA
1 AAAATTATTAAAAAA
15395740 TGCAAGAAAC
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
40 4 0.08
41 19 0.39
42 22 0.45
43 4 0.08
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (41 bp):
AAAATTATTAAAAAAATGACACAAAAATTATATATATTATA
Found at i:15396540 original size:2 final size:2
Alignment explanation
Indices: 15396533--15396567 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
15396523 TGTTTTAAGT
*
15396533 TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15396568 TGTTTTTCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:15397771 original size:8 final size:8
Alignment explanation
Indices: 15397748--15397782 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
15397738 TCACTTAAAT
*
15397748 AAATTTTA
1 AAATTATA
*
15397756 AAAATATA
1 AAATTATA
15397764 AAATTATA
1 AAATTATA
15397772 AAATTATA
1 AAATTATA
15397780 AAA
1 AAA
15397783 ATACATGTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (8 bp):
AAATTATA
Found at i:15403431 original size:30 final size:30
Alignment explanation
Indices: 15403397--15403495 Score: 83
Period size: 30 Copynumber: 3.2 Consensus size: 30
15403387 AAATTTTCAC
*
15403397 TTTAAGTGAGTAATTATTGTTTAAATAAAT
1 TTTAAGTGAGTAATTATTATTTAAATAAAT
** * **
15403427 TTTAA-AAAATAAGTTAAAATTTAAAACTAAAAAT
1 TTTAAGTGAGTAA-TTATTATTT-AAA-T--AAAT
*
15403461 TTTAAGTGAGTAATTATTTTTTAAATAAAT
1 TTTAAGTGAGTAATTATTATTTAAATAAAT
15403491 TTTAA
1 TTTAA
15403496 ATGATTAGCT
Statistics
Matches: 51, Mismatches: 12, Indels: 12
0.68 0.16 0.16
Matches are distributed among these distances:
29 4 0.08
30 20 0.39
31 3 0.06
32 2 0.04
33 3 0.06
34 15 0.29
35 4 0.08
ACGTcount: A:0.47, C:0.01, G:0.08, T:0.43
Consensus pattern (30 bp):
TTTAAGTGAGTAATTATTATTTAAATAAAT
Found at i:15406882 original size:6 final size:6
Alignment explanation
Indices: 15406873--15406904 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
15406863 GCAGGCGGAG
15406873 GCGGCA GCGGCA GCGGCA GCGGCA GCGGCA GC
1 GCGGCA GCGGCA GCGGCA GCGGCA GCGGCA GC
15406905 AACCGGGAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.16, C:0.34, G:0.50, T:0.00
Consensus pattern (6 bp):
GCGGCA
Found at i:15407190 original size:28 final size:28
Alignment explanation
Indices: 15407150--15407219 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
15407140 ATTTTTTATA
*
15407150 TAAAATTTTTAAAAAAAATATAATACAT
1 TAAAATTATTAAAAAAAATATAATACAT
*
15407178 TAAAATTACT-AAAAAAATATAATACAT
1 TAAAATTATTAAAAAAAATATAATACAT
*
15407205 CAAAATTATTAAAAA
1 TAAAATTATTAAAAA
15407220 TATTAAAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
27 25 0.68
28 12 0.32
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (28 bp):
TAAAATTATTAAAAAAAATATAATACAT
Found at i:15407388 original size:14 final size:14
Alignment explanation
Indices: 15407369--15407400 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
15407359 ACAATATTCA
15407369 AATAATAACAACAT
1 AATAATAACAACAT
15407383 AATAATAACAACAT
1 AATAATAACAACAT
15407397 AATA
1 AATA
15407401 GTGAAATGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.66, C:0.12, G:0.00, T:0.22
Consensus pattern (14 bp):
AATAATAACAACAT
Found at i:15408551 original size:41 final size:41
Alignment explanation
Indices: 15408471--15408585 Score: 94
Period size: 41 Copynumber: 2.7 Consensus size: 41
15408461 ATATGTCAAA
* *
15408471 TTTTAATTAATTTTTAATTTTTAAAATTTACTTTTTTATACT
1 TTTTAATTAATTTTTAATTTTTAAAAATTAC-TTCTTATACT
* *
15408513 TTTTAA-TGATTTTTAATTTTTAAAAAAATTA-TTCTTATAAT
1 TTTTAATTAATTTTTAATTTTT--AAAAATTACTTCTTATACT
*
15408554 TTATT--TTGAATTTTTAAAAATTTTAAAAATTA
1 TT-TTAATT-AATTTTT--AATTTTTAAAAATTA
15408586 ATTAAATGCT
Statistics
Matches: 60, Mismatches: 6, Indels: 14
0.75 0.08 0.17
Matches are distributed among these distances:
41 25 0.42
42 22 0.37
43 7 0.12
44 6 0.10
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.58
Consensus pattern (41 bp):
TTTTAATTAATTTTTAATTTTTAAAAATTACTTCTTATACT
Found at i:15408750 original size:10 final size:10
Alignment explanation
Indices: 15408735--15408764 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
15408725 ACATTTTAAT
15408735 TAAATAAAAA
1 TAAATAAAAA
15408745 TAAATAAAAA
1 TAAATAAAAA
15408755 TAAAATAAAA
1 T-AAATAAAA
15408765 TATTTCTCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 11 0.58
11 8 0.42
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (10 bp):
TAAATAAAAA
Found at i:15410929 original size:6 final size:6
Alignment explanation
Indices: 15410918--15410943 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
15410908 ATTGTTAAAC
15410918 TTTTAA TTTTAA TTTTAA TTTTAA TT
1 TTTTAA TTTTAA TTTTAA TTTTAA TT
15410944 GTATATCTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (6 bp):
TTTTAA
Found at i:15412161 original size:16 final size:16
Alignment explanation
Indices: 15412140--15412175 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
15412130 TTAGTTTTTT
15412140 TTTTATAATTTTTCTA
1 TTTTATAATTTTTCTA
15412156 TTTTATAATTTTTCTA
1 TTTTATAATTTTTCTA
15412172 TTTT
1 TTTT
15412176 TTTGTAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTTATAATTTTTCTA
Found at i:15412227 original size:27 final size:26
Alignment explanation
Indices: 15412189--15412239 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
15412179 GTAAATATAA
*
15412189 TTTTATA-TTTTTTTCTATTTTAAAAG
1 TTTTATAGTTTTTTT-AATTTTAAAAG
15412215 TTTTATTAGTTTTTTTAATTTTAAA
1 TTTTA-TAGTTTTTTTAATTTTAAA
15412240 TAATTTTGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 5 0.23
27 10 0.45
28 7 0.32
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (26 bp):
TTTTATAGTTTTTTTAATTTTAAAAG
Found at i:15415300 original size:46 final size:45
Alignment explanation
Indices: 15415247--15415422 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 45
15415237 TATTTGGGCA
15415247 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
15415293 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
15415340 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*
15415386 -CTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
15415423 GCGGGATACA
Statistics
Matches: 111, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 68 0.61
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:15415402 original size:93 final size:93
Alignment explanation
Indices: 15415243--15415414 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
15415233 AGGATATTTG
*
15415243 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
15415308 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
15415336 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CTCGAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTC-CGAACTCGTTGA
15415400 GTTGAGTCCGAGTTC
65 GTTGAGTCCGAGTTC
15415415 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 1 0.01
93 74 0.99
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:15420364 original size:67 final size:65
Alignment explanation
Indices: 15420215--15420375 Score: 180
Period size: 67 Copynumber: 2.4 Consensus size: 65
15420205 GAGTGCACAT
* * * * *
15420215 CATGTATACAAGAAAGCTACGAGACATTATAATGTAGCTAGGTCGCATGGGTGATACTATGTGTA
1 CATGTATACAAGAGAGCTACGAG--A-TATAATGTAGCTAGGTCGCATGCGTGATACCATGAGAA
15420280 CAC
63 CAC
* * *
15420283 CATGTAGACAAGAGAGCTACGAGATAT-ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGAA
1 CATGTATACAAGAGAGCTACGAGATATAATGTAGCTAGGTCGCATGCGTGATACCA--TG-AGAA
15420347 CAC
63 CAC
*
15420350 CATGTATACAAGAGAGCTGCGAGATA
1 CATGTATACAAGAGAGCTACGAGATA
15420376 AACTGGCTAG
Statistics
Matches: 80, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
64 24 0.30
65 3 0.04
66 3 0.04
67 29 0.36
68 21 0.26
ACGTcount: A:0.34, C:0.17, G:0.27, T:0.23
Consensus pattern (65 bp):
CATGTATACAAGAGAGCTACGAGATATAATGTAGCTAGGTCGCATGCGTGATACCATGAGAACAC
Found at i:15429721 original size:7 final size:7
Alignment explanation
Indices: 15429711--15429736 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
15429701 AACTATTAAT
15429711 AATTTTA
1 AATTTTA
15429718 AATTTTA
1 AATTTTA
15429725 AATTTTA
1 AATTTTA
15429732 AATTT
1 AATTT
15429737 ATTCATTTCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
AATTTTA
Found at i:15433989 original size:19 final size:19
Alignment explanation
Indices: 15433965--15434003 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
15433955 AAGGTAGAAG
15433965 ACTAGTTTGATCATAATTA
1 ACTAGTTTGATCATAATTA
15433984 ACTAGTTTGATCATAATTA
1 ACTAGTTTGATCATAATTA
15434003 A
1 A
15434004 AACCATAGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.41
Consensus pattern (19 bp):
ACTAGTTTGATCATAATTA
Found at i:15445067 original size:18 final size:18
Alignment explanation
Indices: 15445044--15445079 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
15445034 ACTACAATAC
*
15445044 TAGAATAATTTAGAAACA
1 TAGAATAATTTAAAAACA
15445062 TAGAATAATTTAAAAACA
1 TAGAATAATTTAAAAACA
15445080 AATTAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.58, C:0.06, G:0.08, T:0.28
Consensus pattern (18 bp):
TAGAATAATTTAAAAACA
Found at i:15446514 original size:19 final size:19
Alignment explanation
Indices: 15446486--15446550 Score: 57
Period size: 19 Copynumber: 3.6 Consensus size: 19
15446476 ATTATCCAAA
*
15446486 TCAATTCAATTGATTTTAT
1 TCAATCCAATTGATTTTAT
* *
15446505 TCAATCCAATTCCA----AA
1 TCAATCCAATT-GATTTTAT
*
15446521 TCAATTCAATTGATTTTAT
1 TCAATCCAATTGATTTTAT
15446540 TCAATCCAATT
1 TCAATCCAATT
15446551 TAAATAATTT
Statistics
Matches: 34, Mismatches: 7, Indels: 10
0.67 0.14 0.20
Matches are distributed among these distances:
15 1 0.03
16 11 0.32
19 21 0.62
20 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.03, T:0.43
Consensus pattern (19 bp):
TCAATCCAATTGATTTTAT
Found at i:15446519 original size:35 final size:35
Alignment explanation
Indices: 15446480--15446550 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
15446470 ATATGTATTA
15446480 TCCAAATCAATTCAATTGATTTTATTCAATCCAAT
1 TCCAAATCAATTCAATTGATTTTATTCAATCCAAT
15446515 TCCAAATCAATTCAATTGATTTTATTCAATCCAAT
1 TCCAAATCAATTCAATTGATTTTATTCAATCCAAT
15446550 T
1 T
15446551 TAAATAATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.37, C:0.20, G:0.03, T:0.41
Consensus pattern (35 bp):
TCCAAATCAATTCAATTGATTTTATTCAATCCAAT
Found at i:15446922 original size:21 final size:19
Alignment explanation
Indices: 15446898--15446940 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 19
15446888 GTTGTATTCA
15446898 ATTAAACTCATATACTATTTC
1 ATTAAACTCA-ATAC-ATTTC
* *
15446919 ATTAAATTCAATTCATTTC
1 ATTAAACTCAATACATTTC
15446938 ATT
1 ATT
15446941 CTAACTTCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 8 0.40
20 3 0.15
21 9 0.45
ACGTcount: A:0.37, C:0.16, G:0.00, T:0.47
Consensus pattern (19 bp):
ATTAAACTCAATACATTTC
Found at i:15448219 original size:13 final size:13
Alignment explanation
Indices: 15448203--15448227 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15448193 TGTTTATTTT
15448203 ATATAATAATATA
1 ATATAATAATATA
15448216 ATATAATAATAT
1 ATATAATAATAT
15448228 TAAATATCTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
ATATAATAATATA
Found at i:15448395 original size:5 final size:5
Alignment explanation
Indices: 15448387--15448413 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
15448377 TTTATTAAGT
15448387 TAATA TAATA TAATA TAATA TAATA TA
1 TAATA TAATA TAATA TAATA TAATA TA
15448414 TATTTTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TAATA
Found at i:15448418 original size:39 final size:39
Alignment explanation
Indices: 15448338--15448432 Score: 106
Period size: 39 Copynumber: 2.4 Consensus size: 39
15448328 TTTCACTAGG
*
15448338 TTTATTTATTAATAATAATAAAATATAATAACATACTTA
1 TTTATTAATTAATAATAATAAAATATAATAACATACTTA
*
15448377 TTTATTAAGTTAAT-ATAATATAATATAATATA-ATA-TATA
1 TTTATTAA-TTAATAATAATAAAATATAATA-ACATACT-TA
* *
15448416 TTTTTTAATTAAAAATA
1 TTTATTAATTAATAATA
15448433 TTTTGATATT
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
38 5 0.10
39 37 0.77
40 6 0.12
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (39 bp):
TTTATTAATTAATAATAATAAAATATAATAACATACTTA
Found at i:15450763 original size:16 final size:16
Alignment explanation
Indices: 15450742--15450772 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15450732 CATTCATTGA
*
15450742 TAAACATAGAAAAAAG
1 TAAACATACAAAAAAG
15450758 TAAACATACAAAAAA
1 TAAACATACAAAAAA
15450773 ACCTTATAAA
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:0.71, C:0.10, G:0.06, T:0.13
Consensus pattern (16 bp):
TAAACATACAAAAAAG
Found at i:15459981 original size:30 final size:30
Alignment explanation
Indices: 15459947--15460006 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
15459937 TACTATTGAA
*
15459947 CTATGATACAATTTTCAGATATAAAGATAG
1 CTATGATACAAGTTTCAGATATAAAGATAG
* *
15459977 CTATGGTACAAGTTTCAGATATAGAGATAG
1 CTATGATACAAGTTTCAGATATAAAGATAG
15460007 TTGAAGGTGG
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:0.40, C:0.10, G:0.18, T:0.32
Consensus pattern (30 bp):
CTATGATACAAGTTTCAGATATAAAGATAG
Found at i:15462872 original size:17 final size:17
Alignment explanation
Indices: 15462846--15462890 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
15462836 AGTAATTGAA
15462846 TTGTAAATAATTTTAAT
1 TTGTAAATAATTTTAAT
*
15462863 TTGTACATAATTTTAAT
1 TTGTAAATAATTTTAAT
*
15462880 TGGTATAATAA
1 TTGTA-AATAA
15462891 GAAATTTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 20 0.83
18 4 0.17
ACGTcount: A:0.40, C:0.02, G:0.09, T:0.49
Consensus pattern (17 bp):
TTGTAAATAATTTTAAT
Found at i:15465144 original size:39 final size:39
Alignment explanation
Indices: 15465100--15465177 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
15465090 TTTAAGTCTC
*
15465100 TTTGTGTGGATTTCCTTAAATTGAATTGTATATGAGTGA
1 TTTGTGTGGATTTCCGTAAATTGAATTGTATATGAGTGA
15465139 TTTGTGTGGATTTCCGTAAATTGAATTGTATATGAGTGA
1 TTTGTGTGGATTTCCGTAAATTGAATTGTATATGAGTGA
15465178 ACACTGAATG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.26, C:0.05, G:0.24, T:0.45
Consensus pattern (39 bp):
TTTGTGTGGATTTCCGTAAATTGAATTGTATATGAGTGA
Found at i:15467579 original size:12 final size:12
Alignment explanation
Indices: 15467564--15467588 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15467554 ATGGAGAGAG
15467564 AGAGAGAGAGGC
1 AGAGAGAGAGGC
15467576 AGAGAGAGAGGC
1 AGAGAGAGAGGC
15467588 A
1 A
15467589 ATTGCTTCAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.08, G:0.48, T:0.00
Consensus pattern (12 bp):
AGAGAGAGAGGC
Found at i:15468027 original size:27 final size:29
Alignment explanation
Indices: 15467951--15468033 Score: 93
Period size: 28 Copynumber: 3.0 Consensus size: 29
15467941 ATCGTTTAAC
* *
15467951 ATAAAAAATATTAAGTTAAATT-TATTTT
1 ATAAAAAATATTCAGATAAATTATATTTT
* *
15467979 ATAAAAAA-AATCTAAATAAATTATATTTT
1 ATAAAAAATATTC-AGATAAATTATATTTT
15468008 -TAAAAAATATTCAGAT-AATTATATTT
1 ATAAAAAATATTCAGATAAATTATATTT
15468034 ATCATTTATC
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
27 12 0.26
28 25 0.54
29 9 0.20
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (29 bp):
ATAAAAAATATTCAGATAAATTATATTTT
Found at i:15473133 original size:70 final size:70
Alignment explanation
Indices: 15473020--15473165 Score: 292
Period size: 70 Copynumber: 2.1 Consensus size: 70
15473010 ACATTTCAAA
15473020 TATTTTTTTGCCTCATAGTCTCTTGTACATAGGCTCTCTAGTGCTTATGATAAAATCTTTTTACC
1 TATTTTTTTGCCTCATAGTCTCTTGTACATAGGCTCTCTAGTGCTTATGATAAAATCTTTTTACC
15473085 ATTCT
66 ATTCT
15473090 TATTTTTTTGCCTCATAGTCTCTTGTACATAGGCTCTCTAGTGCTTATGATAAAATCTTTTTACC
1 TATTTTTTTGCCTCATAGTCTCTTGTACATAGGCTCTCTAGTGCTTATGATAAAATCTTTTTACC
15473155 ATTCT
66 ATTCT
15473160 TATTTT
1 TATTTT
15473166 ATCCTTTTGA
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 76 1.00
ACGTcount: A:0.21, C:0.19, G:0.11, T:0.49
Consensus pattern (70 bp):
TATTTTTTTGCCTCATAGTCTCTTGTACATAGGCTCTCTAGTGCTTATGATAAAATCTTTTTACC
ATTCT
Found at i:15476389 original size:14 final size:15
Alignment explanation
Indices: 15476362--15476392 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
15476352 ATATTATAAT
15476362 AATAAAATAAAAAGA
1 AATAAAATAAAAAGA
15476377 AATAAAA-AAAAAGA
1 AATAAAATAAAAAGA
15476391 AA
1 AA
15476393 GATAGAACGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.56
15 7 0.44
ACGTcount: A:0.84, C:0.00, G:0.06, T:0.10
Consensus pattern (15 bp):
AATAAAATAAAAAGA
Found at i:15478777 original size:27 final size:27
Alignment explanation
Indices: 15478747--15478897 Score: 169
Period size: 27 Copynumber: 5.6 Consensus size: 27
15478737 ATATTGAGTC
* * *
15478747 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
15478774 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
** * *
15478802 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
15478829 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
* *
15478856 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
15478883 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
15478898 GTACAATTTA
Statistics
Matches: 106, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
27 81 0.76
28 25 0.24
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:15478859 original size:82 final size:81
Alignment explanation
Indices: 15478747--15478896 Score: 230
Period size: 82 Copynumber: 1.8 Consensus size: 81
15478737 ATATTGAGTC
*
15478747 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTA
1 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCAACATAGTCAAA-TCGCACACTTA
15478812 GTGCCGCATGGTCAATT
65 GTGCCGCATGGTCAATT
* * **
15478829 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTA
1 CGCACACTCAGTGCTAT-ATAATCAACTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTA
15478893 GTGC
65 GTGC
15478897 TGTACAATTT
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 17 0.27
82 45 0.73
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (81 bp):
CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAG
TGCCGCATGGTCAATT
Found at i:15486932 original size:27 final size:27
Alignment explanation
Indices: 15486902--15487078 Score: 203
Period size: 27 Copynumber: 6.6 Consensus size: 27
15486892 ATATTGAGTC
* * * *
15486902 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
15486929 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
15486956 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
** * *
15486983 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
15487010 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
15487037 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
15487064 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
15487079 GTACAATTTA
Statistics
Matches: 129, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
27 128 0.99
28 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:15487040 original size:81 final size:81
Alignment explanation
Indices: 15486923--15487077 Score: 231
Period size: 81 Copynumber: 1.9 Consensus size: 81
15486913 TGCTATATAA
* * *
15486923 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAACTCGCAC
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
15486988 ACTTAGTGCCGCATGG
66 ACTTAGTGCCGCATGG
* * **
15487004 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
15487068 CACTTAGTGC
65 CACTTAGTGC
15487078 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
80 1 0.02
81 65 0.98
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:15488931 original size:28 final size:27
Alignment explanation
Indices: 15488870--15489022 Score: 189
Period size: 28 Copynumber: 5.6 Consensus size: 27
15488860 ATATTGAGTC
* * *
15488870 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
15488897 CGCACACTTAGTGCTACGTAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
15488925 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
** * *
15488953 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* *
15488980 CGCACACTTAGTGCATACATATTCAATT
1 CGCACACTTAGTGC-TACATAGTCAACT
15489008 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
15489023 GTACAATTTA
Statistics
Matches: 111, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
27 37 0.33
28 74 0.67
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:15488983 original size:55 final size:55
Alignment explanation
Indices: 15488870--15489021 Score: 189
Period size: 55 Copynumber: 2.7 Consensus size: 55
15488860 ATATTGAGTC
* * * *
15488870 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACGTAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAGTCAAACT
* * * *
15488925 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTC-AATT
1 CGCACACTTAGTGCTACATAATC-AACTCGCACACTTAGTGCCACATAGTCAAACT
* *
15488980 CGCACACTTAGTGCATACATATTCAATTCGCACACTTAGTGC
1 CGCACACTTAGTGC-TACATAATCAACTCGCACACTTAGTGC
15489022 TGTACAATTT
Statistics
Matches: 85, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
55 54 0.64
56 31 0.36
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAGTCAAACT
Found at i:15495373 original size:42 final size:45
Alignment explanation
Indices: 15495264--15495390 Score: 141
Period size: 48 Copynumber: 2.8 Consensus size: 45
15495254 GAAAAACTTA
* *
15495264 CACACTTAGTGCC--TAATAAATAGCCGAAGCTATATCAATCTCG
1 CACACTAAGTGCCAATAATATATAGCCGAAGCTATATCAATCTCG
* *
15495307 CACACTAAGTGCCAATATATATATATAGCCGAAGCTATCTCGATCTCG
1 CACACTAAGTGCC-A-ATA-ATATATAGCCGAAGCTATATCAATCTCG
* * *
15495355 CGCACTAAGTGCAAATATATATATAGCTGAAGCTAT
1 CACACTAAGTGCCAATA-ATATATAGCCGAAGCTAT
15495391 CTTGATTTCG
Statistics
Matches: 72, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
43 12 0.17
46 21 0.29
47 3 0.04
48 36 0.50
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (45 bp):
CACACTAAGTGCCAATAATATATAGCCGAAGCTATATCAATCTCG
Found at i:15495390 original size:46 final size:46
Alignment explanation
Indices: 15495283--15495413 Score: 181
Period size: 46 Copynumber: 2.8 Consensus size: 46
15495273 TGCCTAATAA
* *
15495283 ATAGCCGAAGCTATATCAATCTCGCACACTAAGTGCCAATATATATAT
1 ATAGCCGAAGCTATCTCGATCTCGCACACTAAGTG-CAA-ATATATAT
*
15495331 ATAGCCGAAGCTATCTCGATCTCGCGCACTAAGTGCAAATATATAT
1 ATAGCCGAAGCTATCTCGATCTCGCACACTAAGTGCAAATATATAT
* * * *
15495377 ATAGCTGAAGCTATCTTGATTTCGTACACTAAGTGCA
1 ATAGCCGAAGCTATCTCGATCTCGCACACTAAGTGCA
15495414 TATAATTAGC
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
46 40 0.53
47 3 0.04
48 32 0.43
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (46 bp):
ATAGCCGAAGCTATCTCGATCTCGCACACTAAGTGCAAATATATAT
Found at i:15495938 original size:21 final size:19
Alignment explanation
Indices: 15495914--15495952 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
15495904 CTTGTATAGC
15495914 TATCATCAAACATTCAAAATA
1 TATCATCAAA-A-TCAAAATA
*
15495935 TATCATTAAAATCAAAAT
1 TATCATCAAAATCAAAAT
15495953 TCTCATGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 1 0.06
21 9 0.53
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (19 bp):
TATCATCAAAATCAAAATA
Found at i:15501402 original size:40 final size:40
Alignment explanation
Indices: 15501340--15501432 Score: 127
Period size: 40 Copynumber: 2.3 Consensus size: 40
15501330 CTAAGTATCA
15501340 CACACTTAGTGCCTCTTATAGCCGAAGCTA-TTCCAACTCG
1 CACACTTAGTGCCTCTTATAGCCGAAGCTATTTCCAAC-CG
* **
15501380 CACACTTAGTGCCAT-TTGTAGCCGAAGCTATTTTGAACCG
1 CACACTTAGTGCC-TCTTATAGCCGAAGCTATTTCCAACCG
15501420 CACACTTAGTGCC
1 CACACTTAGTGCC
15501433 GAACATAGTC
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
40 42 0.88
41 6 0.12
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (40 bp):
CACACTTAGTGCCTCTTATAGCCGAAGCTATTTCCAACCG
Found at i:15507309 original size:46 final size:46
Alignment explanation
Indices: 15507256--15507392 Score: 193
Period size: 46 Copynumber: 3.0 Consensus size: 46
15507246 TATATATACA
* * * * *
15507256 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCGCATGTC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCGCATATC
* * *
15507302 CATCTCATACACGTTTCGCATTAGCCATTCGACTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCGCATATC
*
15507348 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCGCATAT
15507393 ATACACTTCC
Statistics
Matches: 80, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 80 1.00
ACGTcount: A:0.25, C:0.31, G:0.09, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCGCATATC
Found at i:15507437 original size:47 final size:47
Alignment explanation
Indices: 15507366--15507603 Score: 343
Period size: 47 Copynumber: 5.1 Consensus size: 47
15507356 ACACATTTCG
* * * * * * *
15507366 CATTAGCCATTCGGCTTTACCACATATATACACT-TCCACGTTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATGCA-TGTTCACATTCATCA
* * *
15507413 CATTGGCCATTCTGCCTTGTCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
*
15507460 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
*
15507507 CATTGGCCATTCGACCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
*
15507554 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
15507601 CAT
1 CAT
15507604 AAAATCCTAA
Statistics
Matches: 174, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
46 1 0.01
47 173 0.99
ACGTcount: A:0.26, C:0.31, G:0.11, T:0.32
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
Found at i:15507530 original size:22 final size:22
Alignment explanation
Indices: 15507503--15507577 Score: 57
Period size: 22 Copynumber: 3.3 Consensus size: 22
15507493 GTTCACATTC
15507503 ATCACATTGGCCATTCGACCTT
1 ATCACATTGGCCATTCGACCTT
*
15507525 ATCACACATAT-G-CATGTTC-ACATT
1 AT--CACAT-TGGCCA--TTCGACCTT
*
15507549 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGACCTT
15507572 ATCACA
1 ATCACA
15507578 CATACGCATG
Statistics
Matches: 41, Mismatches: 3, Indels: 18
0.66 0.05 0.29
Matches are distributed among these distances:
22 12 0.29
23 11 0.27
24 12 0.29
25 6 0.15
ACGTcount: A:0.27, C:0.31, G:0.12, T:0.31
Consensus pattern (22 bp):
ATCACATTGGCCATTCGACCTT
Found at i:15507602 original size:25 final size:25
Alignment explanation
Indices: 15507478--15507555 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 25
15507468 ATTCGGCCTT
15507478 ATCACACATACGCATGTTCACATTC
1 ATCACACATACGCATGTTCACATTC
** *
15507503 AT--CACATTGGCCA--TTCGACCTT-
1 ATCACACATACG-CATGTTC-ACATTC
*
15507525 ATCACACATATGCATGTTCACATTC
1 ATCACACATACGCATGTTCACATTC
15507550 ATCACA
1 ATCACA
15507556 TTGGCCATTC
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 5 0.12
23 12 0.30
24 12 0.30
25 11 0.28
ACGTcount: A:0.31, C:0.31, G:0.09, T:0.29
Consensus pattern (25 bp):
ATCACACATACGCATGTTCACATTC
Found at i:15511504 original size:40 final size:40
Alignment explanation
Indices: 15511458--15511693 Score: 418
Period size: 40 Copynumber: 5.9 Consensus size: 40
15511448 GAATACACAT
* *
15511458 CACCAGCATGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGTATGCTCTTCGGGACTTAGCCCGGATATAA
15511498 CACCAGCACGTATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGTATGCTCTTCGGGACTTAGCCCGGATATAA
* *
15511538 CCCCAGCATGTATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGTATGCTCTTCGGGACTTAGCCCGGATATAA
*
15511578 CACCAGCACGTATGCTCTTTGGGACTTAGCCCGGATATAA
1 CACCAGCACGTATGCTCTTCGGGACTTAGCCCGGATATAA
15511618 CACCAGCACGTATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGTATGCTCTTCGGGACTTAGCCCGGATATAA
*
15511658 CACCAGCACGTATGCTTTTCGGGACTTAGCCCGGAT
1 CACCAGCACGTATGCTCTTCGGGACTTAGCCCGGAT
15511694 CATATATAAC
Statistics
Matches: 187, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 187 1.00
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (40 bp):
CACCAGCACGTATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:15513232 original size:46 final size:46
Alignment explanation
Indices: 15513179--15513315 Score: 193
Period size: 46 Copynumber: 3.0 Consensus size: 46
15513169 TATATATACA
* * * * *
15513179 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCGCATGTC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCGCATATC
* * *
15513225 CATCTCATACACGTTTCGCATTAGCCATTCGACTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCGCATATC
*
15513271 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCGCATAT
15513316 ATACACTTCC
Statistics
Matches: 80, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 80 1.00
ACGTcount: A:0.25, C:0.31, G:0.09, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCGCATATC
Found at i:15513360 original size:47 final size:47
Alignment explanation
Indices: 15513289--15513525 Score: 343
Period size: 47 Copynumber: 5.1 Consensus size: 47
15513279 ACACATTTCG
* * * * * * *
15513289 CATTAGCCATTCGGCTTTACCACATATATACACT-TCCACGTTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATGCA-TGTTCACATTCATCA
* * *
15513336 CATTGGCCATTCTGCCTTGTCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
*
15513383 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
15513430 CATTGGCCATTC-GCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
*
15513476 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
15513523 CAT
1 CAT
15513526 AAAATCCTAA
Statistics
Matches: 174, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
46 46 0.26
47 128 0.74
ACGTcount: A:0.26, C:0.31, G:0.11, T:0.32
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
Found at i:15513472 original size:93 final size:94
Alignment explanation
Indices: 15513329--15513525 Score: 369
Period size: 93 Copynumber: 2.1 Consensus size: 94
15513319 CACTTCCACG
* *
15513329 TTCATCACATTGGCCATTCTGCCTTGTCACATATATGCATGTTCACATTCATCACATTGGCCATT
1 TTCATCACATTGGCCATTCTGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATT
15513394 CGGCCTTATCACACATACGCATGTTCACA
66 CGGCCTTATCACACATACGCATGTTCACA
15513423 TTCATCACATTGGCCATTC-GCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATT
1 TTCATCACATTGGCCATTCTGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATT
15513487 CGGCCTTATCACACATACGCATGTTCACA
66 CGGCCTTATCACACATACGCATGTTCACA
15513516 TTCATCACAT
1 TTCATCACAT
15513526 AAAATCCTAA
Statistics
Matches: 101, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
93 82 0.81
94 19 0.19
ACGTcount: A:0.25, C:0.30, G:0.12, T:0.32
Consensus pattern (94 bp):
TTCATCACATTGGCCATTCTGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATT
CGGCCTTATCACACATACGCATGTTCACA
Found at i:15517028 original size:40 final size:41
Alignment explanation
Indices: 15516984--15517071 Score: 106
Period size: 40 Copynumber: 2.2 Consensus size: 41
15516974 TCGCACACGT
* * *
15516984 AGTGCCACATATAGCCGAAGCTAT-TCCAATTCGCACAATA
1 AGTGCCACATATAGCCGAAGCTATCTCAAAATAGCACAATA
*** *
15517024 AGTGCTTTATATAGCCGAAGCTATCTCAAAATAGCACACTA
1 AGTGCCACATATAGCCGAAGCTATCTCAAAATAGCACAATA
15517065 AGTGCCA
1 AGTGCCA
15517072 AACATAGTCG
Statistics
Matches: 38, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
40 21 0.55
41 17 0.45
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (41 bp):
AGTGCCACATATAGCCGAAGCTATCTCAAAATAGCACAATA
Found at i:15518858 original size:21 final size:21
Alignment explanation
Indices: 15518826--15518882 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
15518816 ATGGCCTGCA
*
15518826 ACACGGGCGTGTCCCAGGGTC
1 ACACGGGTGTGTCCCAGGGTC
* *
15518847 ACATGGGTGTGTCCTAGGGTC
1 ACACGGGTGTGTCCCAGGGTC
15518868 ACACGGGTGTGTCCC
1 ACACGGGTGTGTCCC
15518883 TTGGACCACA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.14, C:0.28, G:0.37, T:0.21
Consensus pattern (21 bp):
ACACGGGTGTGTCCCAGGGTC
Found at i:15522820 original size:50 final size:46
Alignment explanation
Indices: 15522745--15522856 Score: 161
Period size: 50 Copynumber: 2.3 Consensus size: 46
15522735 TTCCAAATAA
*
15522745 ATAGCTGAAGCTATATCAATCTCGCACACCAAGTGCCAATATATATATGT
1 ATAGCTGAAGCTATCTCAATCTCGCACACCAAGTG-CAA-ATATATA--T
* *
15522795 ATAGCCGAAGCTATCTCAATCTCGCACACTAAGTGCAAATATATAT
1 ATAGCTGAAGCTATCTCAATCTCGCACACCAAGTGCAAATATATAT
15522841 ATAGCTGAAGCTATCT
1 ATAGCTGAAGCTATCT
15522857 TGGTTTCGCA
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
46 16 0.28
48 7 0.12
49 3 0.05
50 32 0.55
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (46 bp):
ATAGCTGAAGCTATCTCAATCTCGCACACCAAGTGCAAATATATAT
Found at i:15523417 original size:20 final size:21
Alignment explanation
Indices: 15523378--15523418 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
15523368 ACTTGTATAA
*
15523378 CTATCATCAAACATTCAAAAT
1 CTATCATCAAACAATCAAAAT
*
15523399 CTATCATTAAA-AATCAAAAT
1 CTATCATCAAACAATCAAAAT
15523419 ACTCATGTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.51, C:0.20, G:0.00, T:0.29
Consensus pattern (21 bp):
CTATCATCAAACAATCAAAAT
Found at i:15530405 original size:29 final size:28
Alignment explanation
Indices: 15530340--15530408 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 28
15530330 CATAAAGTAA
*
15530340 ATATAATATAAATACTTACTTATTATTT
1 ATATTATATAAATACTTACTTATTATTT
*
15530368 A-AGTATATATAAATA-TTATTATATTATATT
1 ATA-T-TATATAAATACTTACT-TATTAT-TT
15530398 ATATTATATAA
1 ATATTATATAA
15530409 TTAAAACATA
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
27 1 0.03
28 6 0.18
29 22 0.65
30 4 0.12
31 1 0.03
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.49
Consensus pattern (28 bp):
ATATTATATAAATACTTACTTATTATTT
Found at i:15533135 original size:48 final size:48
Alignment explanation
Indices: 15533062--15533535 Score: 398
Period size: 48 Copynumber: 9.9 Consensus size: 48
15533052 ACATTTGAGT
* * *
15533062 GATATGTGTGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCCAC
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC
* * * * ** * *
15533110 AATATGAGAGCCAGTGTAAGGCCATGTTTGGAACATGGCATCATCAAT
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC
* * * * ** * * *
15533158 GAGACGAGAGCTAGTGTAAGACCATGTATGGGACATAACATTGG-TATT
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-C
* * * * *
15533206 GATATGTGCGCTAGTGTAAGACCATGTCCGGGACATGGCATCGACCAC
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC
* * * * *
15533254 GATATGAGAGCCAGTGTAAGACCATATTTGGAACATGGCATCGGCAAT
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC
* * * ** *
15533302 G-TAATGAGAGCCATTATAAGACCATGTTTGGGACATGGCATC-AACATT
1 GAT-ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-C
* * * *
15533350 GATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCAC
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC
* *
15533398 -ATTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAAT
1 GA-TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC
* * * * ** *
15533446 GAGACGAGAGCTAGTGTAAGACCATGTCTGGGACATAGCATTAGCCTC
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC
* * * * *
15533494 AACATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATC
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
15533536 AGCAATTCAC
Statistics
Matches: 333, Mismatches: 85, Indels: 16
0.77 0.20 0.04
Matches are distributed among these distances:
47 4 0.01
48 323 0.97
49 6 0.02
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (48 bp):
GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC
Found at i:15533322 original size:144 final size:143
Alignment explanation
Indices: 15533061--15533535 Score: 619
Period size: 144 Copynumber: 3.3 Consensus size: 143
15533051 GACATTTGAG
* * * *
15533061 TGATATGTGTGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCCACAATATGAGAGCCAGTG
1 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCAC-ATATGAGAGCCAGTG
* **
15533126 TAAGGCCATGTTTGGAACATGGCATCATCAATGAGACGAGAGCTAGTGTAAGACCATGTATGGGA
65 TAAGACCATGTTTGGAACATGGCATCGGCAATGAGACGAGAGCTAGTGTAAGACCATGTATGGGA
* ***
15533191 CATAACATTGGTAT
130 CATAGCATTAACAT
*
15533205 TGATATGTGCGCTAGTGTAAGACCATGTCCGGGACATGGCATCGACCACGATATGAGAGCCAGTG
1 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCAC-ATATGAGAGCCAGTG
* * * * * *
15533270 TAAGACCATATTTGGAACATGGCATCGGCAATGTA-ATGAGAGCCATTATAAGACCATGTTTGGG
65 TAAGACCATGTTTGGAACATGGCATCGGCAATG-AGACGAGAGCTAGTGTAAGACCATGTATGGG
* *
15533334 ACATGGCATCAACAT
129 ACATAGCATTAACAT
15533349 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACATTATGAGAGCCAGTG
1 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACA-TATGAGAGCCAGTG
* * *
15533414 TAAGACCATGTCTGGGACATGGCATCGGCAATGAGACGAGAGCTAGTGTAAGACCATGTCTGGGA
65 TAAGACCATGTTTGGAACATGGCATCGGCAATGAGACGAGAGCTAGTGTAAGACCATGTATGGGA
* *
15533479 CATAGCATTAGCCT
130 CATAGCATTAACAT
** * * * * *
15533493 CAACATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATC
1 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATC
15533536 AGCAATTCAC
Statistics
Matches: 287, Mismatches: 41, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
143 2 0.01
144 284 0.99
145 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.24
Consensus pattern (143 bp):
TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACATATGAGAGCCAGTGT
AAGACCATGTTTGGAACATGGCATCGGCAATGAGACGAGAGCTAGTGTAAGACCATGTATGGGAC
ATAGCATTAACAT
Found at i:15541461 original size:14 final size:14
Alignment explanation
Indices: 15541442--15541471 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
15541432 ACCCCTTCAT
*
15541442 TCCCTCATTCATCA
1 TCCCTCATCCATCA
15541456 TCCCTCATCCATCA
1 TCCCTCATCCATCA
15541470 TC
1 TC
15541472 ATTCTCTCTT
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:0.20, C:0.47, G:0.00, T:0.33
Consensus pattern (14 bp):
TCCCTCATCCATCA
Found at i:15547646 original size:15 final size:14
Alignment explanation
Indices: 15547628--15547654 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
15547618 AATTTTTTGA
15547628 AAAAAATTGAAAAG
1 AAAAAATTGAAAAG
15547642 AAAAAATTGAAAA
1 AAAAAATTGAAAA
15547655 ATAGAAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.15
Consensus pattern (14 bp):
AAAAAATTGAAAAG
Found at i:15547662 original size:32 final size:32
Alignment explanation
Indices: 15547627--15547688 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
15547617 TAATTTTTTG
15547627 AAAAAAATTGA-AAAGAAAAAATTGAAAAATAGA
1 AAAAAAATT-ACAAA-AAAAAATTGAAAAATAGA
*
15547660 AAAAAAATTACACAAAAAAATTGAAAAAT
1 AAAAAAATTACAAAAAAAAATTGAAAAAT
15547689 GACTTTTGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
32 16 0.59
33 11 0.41
ACGTcount: A:0.73, C:0.03, G:0.08, T:0.16
Consensus pattern (32 bp):
AAAAAAATTACAAAAAAAAATTGAAAAATAGA
Done.