Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, whole genome shotgun sequence
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: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 130 of 147
Found at i:23379727 original size:29 final size:31
Alignment explanation
Indices: 23379663--23379728 Score: 75
Period size: 34 Copynumber: 2.1 Consensus size: 31
23379653 TTCTCATTTA
*
23379663 TTTATTTTTTAATTTATTTAATAATAATATTTT
1 TTTATTTTTTAATTTATTT-ATAAT-ATATTAT
23379696 TTTATTATTTTAATTTATTT-T-AT-TATTAT
1 TTTATT-TTTTAATTTATTTATAATATATTAT
23379725 TTTA
1 TTTA
23379729 AAAAAATTGA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
29 9 0.29
31 2 0.06
32 1 0.03
33 6 0.19
34 13 0.42
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (31 bp):
TTTATTTTTTAATTTATTTATAATATATTAT
Found at i:23379956 original size:19 final size:18
Alignment explanation
Indices: 23379932--23379975 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
23379922 AAAAATGCTT
*
23379932 AAATAAAATAATATATAAA
1 AAATAAAATAA-AAATAAA
23379951 AAATAAAA-AAAAATAAA
1 AAATAAAATAAAAATAAA
23379968 AAA-AAAAT
1 AAATAAAAT
23379976 TTTTTACCTG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 4 0.17
17 9 0.39
18 2 0.09
19 8 0.35
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (18 bp):
AAATAAAATAAAAATAAA
Found at i:23379975 original size:11 final size:10
Alignment explanation
Indices: 23379948--23379973 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
23379938 AATAATATAT
23379948 AAAAAATAAA
1 AAAAAATAAA
23379958 AAAAAATAAA
1 AAAAAATAAA
23379968 AAAAAA
1 AAAAAA
23379974 ATTTTTTACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (10 bp):
AAAAAATAAA
Found at i:23381503 original size:36 final size:37
Alignment explanation
Indices: 23381463--23381541 Score: 99
Period size: 37 Copynumber: 2.2 Consensus size: 37
23381453 TAAATCAAGG
* *
23381463 AATAAAGAA-CGATCGA-GATAACATCGTAAGTCGAAA
1 AATAAAGAATCGA-CGAGGATAACATCGCAAGTCAAAA
* *
23381499 AATAAAGAATCGACTAGGATAACATTGCAAGTCAAAA
1 AATAAAGAATCGACGAGGATAACATCGCAAGTCAAAA
23381536 AATAAA
1 AATAAA
23381542 AAATGATTAG
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
36 11 0.30
37 26 0.70
ACGTcount: A:0.53, C:0.13, G:0.16, T:0.18
Consensus pattern (37 bp):
AATAAAGAATCGACGAGGATAACATCGCAAGTCAAAA
Found at i:23381531 original size:37 final size:36
Alignment explanation
Indices: 23381463--23381575 Score: 122
Period size: 36 Copynumber: 3.1 Consensus size: 36
23381453 TAAATCAAGG
* * *
23381463 AATAAAGAA-CGATCGAGATAACATCGTAAGTCGAAA
1 AATAAAGAATCGATAG-GATAACATTGTAAGTCAAAA
*
23381499 AATAAAGAATCGACTAGGATAACATTGCAAGTCAAAA
1 AATAAAGAATCGA-TAGGATAACATTGTAAGTCAAAA
* * *
23381536 AATAAAAAAT-GATTAGGATGATATTGTAAGTCAAAA
1 AATAAAGAATCGA-TAGGATAACATTGTAAGTCAAAA
23381572 AATA
1 AATA
23381576 GGAAAACAAT
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
36 35 0.53
37 29 0.44
38 2 0.03
ACGTcount: A:0.52, C:0.10, G:0.17, T:0.21
Consensus pattern (36 bp):
AATAAAGAATCGATAGGATAACATTGTAAGTCAAAA
Found at i:23381553 original size:36 final size:37
Alignment explanation
Indices: 23381479--23381575 Score: 124
Period size: 36 Copynumber: 2.6 Consensus size: 37
23381469 GAACGATCGA
* * *
23381479 GATAACATCGTAAGTCGAAAAATAAAGAATCGACTAG
1 GATAACATTGTAAGTCAAAAAATAAAAAATCGACTAG
* *
23381516 GATAACATTGCAAGTCAAAAAATAAAAAAT-GATTAG
1 GATAACATTGTAAGTCAAAAAATAAAAAATCGACTAG
* *
23381552 GATGATATTGTAAGTCAAAAAATA
1 GATAACATTGTAAGTCAAAAAATA
23381576 GGAAAACAAT
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
36 26 0.50
37 26 0.50
ACGTcount: A:0.52, C:0.09, G:0.16, T:0.23
Consensus pattern (37 bp):
GATAACATTGTAAGTCAAAAAATAAAAAATCGACTAG
Found at i:23381909 original size:22 final size:22
Alignment explanation
Indices: 23381883--23381950 Score: 75
Period size: 22 Copynumber: 3.1 Consensus size: 22
23381873 AGACTTAAAT
23381883 ATTATACCTAGAGGTTTTAGAA
1 ATTATACCTAGAGGTTTTAGAA
*
23381905 ATTATACCT-GAAGGTCTTAGAA
1 ATTATACCTAG-AGGTTTTAGAA
* * * *
23381927 ATTATGCCCAAAGGTTTTACAA
1 ATTATACCTAGAGGTTTTAGAA
23381949 AT
1 AT
23381951 CTCATCATCT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
21 1 0.03
22 37 0.97
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.34
Consensus pattern (22 bp):
ATTATACCTAGAGGTTTTAGAA
Found at i:23382153 original size:127 final size:127
Alignment explanation
Indices: 23381957--23382264 Score: 296
Period size: 127 Copynumber: 2.4 Consensus size: 127
23381947 AAATCTCATC
* * * * * * *
23381957 ATCTTTGAATGCTCTTTATATATATGAGGCATTGAAACTTTTAAACTTTAAAATGCTATGCTCGA
1 ATCTTTGAATGCTCATCATA-ATAT-AGGCATTGAAACTTTAAAAATTTAAAATACTATACACGA
* * * *
23382022 AGGTCTTAAAAAAAAAACCTAGAGGTTTTAAAAATTAT-ATCTGGAGGTCTTACAAATCTAAAAA
64 AGGTCTTAAAAAAAAAACCTAAAGATCTTAAAAATTATGCT-TGGAGGTCTTACAAATCTAAAAA
* * *
23382086 ATCTTTGAATGCTCATCGTAATATAGGCATTGAAACTTTAAAAATTTAAAATATTTTACAC-AGA
1 ATCTTTGAATGCTCATCATAATATAGGCATTGAAACTTTAAAAATTTAAAATACTATACACGA-A
* ** ** * * * *
23382150 GGTCTTGAAAATTATTCTTAAAGATCTTAGAGATTATGCTTGGGGGTCTTACAAATCTAAAAA
65 GGTCTTAAAAAAAAAACCTAAAGATCTTAAAAATTATGCTTGGAGGTCTTACAAATCTAAAAA
* * ** ** *
23382213 ATCTTTGAATGCTCCTCATAATAGAGGTGTCAAAACTTAAAAAATTTAAAAT
1 ATCTTTGAATGCTCATCATAATATAGGCATTGAAACTTTAAAAATTTAAAAT
23382265 GGTGTTGAAA
Statistics
Matches: 146, Mismatches: 31, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
126 1 0.01
127 123 0.84
128 5 0.03
129 17 0.12
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.34
Consensus pattern (127 bp):
ATCTTTGAATGCTCATCATAATATAGGCATTGAAACTTTAAAAATTTAAAATACTATACACGAAG
GTCTTAAAAAAAAAACCTAAAGATCTTAAAAATTATGCTTGGAGGTCTTACAAATCTAAAAA
Found at i:23382431 original size:9 final size:9
Alignment explanation
Indices: 23382405--23382442 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
23382395 CTTTAAAATC
23382405 TTTT-TTTT
1 TTTTATTTT
**
23382413 TTTTGCTTT
1 TTTTATTTT
23382422 TTTTATTTT
1 TTTTATTTT
23382431 TTTTATTTT
1 TTTTATTTT
23382440 TTT
1 TTT
23382443 CTAATATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
8 4 0.15
9 22 0.85
ACGTcount: A:0.05, C:0.03, G:0.03, T:0.89
Consensus pattern (9 bp):
TTTTATTTT
Found at i:23382541 original size:18 final size:18
Alignment explanation
Indices: 23382520--23382567 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
23382510 GAAAATATTG
*
23382520 ATGTGAATGCAAATGTCA
1 ATGTAAATGCAAATGTCA
23382538 ATGTAAATGCAAATGTCA
1 ATGTAAATGCAAATGTCA
*
23382556 ATGCAAATGCAA
1 ATGTAAATGCAA
23382568 GAATGTGAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.44, C:0.12, G:0.19, T:0.25
Consensus pattern (18 bp):
ATGTAAATGCAAATGTCA
Found at i:23382702 original size:6 final size:6
Alignment explanation
Indices: 23382691--23382717 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
23382681 TTTTTTATGC
23382691 TGCAAA TGCAAA TGCAAA TGCAAA TGC
1 TGCAAA TGCAAA TGCAAA TGCAAA TGC
23382718 GAATATCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.19
Consensus pattern (6 bp):
TGCAAA
Found at i:23382897 original size:86 final size:86
Alignment explanation
Indices: 23382763--23382945 Score: 192
Period size: 86 Copynumber: 2.1 Consensus size: 86
23382753 AAATGCAAAT
** * * * * *
23382763 TTTTTTTATGATGTAGATATGAAAACAAATGTCTTTCTCATTATGCACA-GTCAAGTGTGAATAC
1 TTTTTTTATGATACAGATATGAAAACAAATATCTTTCTCATGACGCACATG-CAAATATGAATAC
*
23382827 -AAGTGATACAAATGCGAATGTC
65 GAA-TGATACAAATGCGAATGCC
* * * * *
23382849 TTTTTTTGTGATACAGATGTGAACACAAATATTTTTCTCATGACGCACATGCAAATATGAATGCG
1 TTTTTTTATGATACAGATATGAAAACAAATATCTTTCTCATGACGCACATGCAAATATGAATACG
* *
23382914 AATGATGCACATGCGAATGCC
66 AATGATACAAATGCGAATGCC
23382935 -TTTTTTATGAT
1 TTTTTTTATGAT
23382946 TTTTATGTTT
Statistics
Matches: 79, Mismatches: 16, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
85 10 0.13
86 66 0.84
87 3 0.04
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (86 bp):
TTTTTTTATGATACAGATATGAAAACAAATATCTTTCTCATGACGCACATGCAAATATGAATACG
AATGATACAAATGCGAATGCC
Found at i:23385857 original size:24 final size:22
Alignment explanation
Indices: 23385816--23385868 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
23385806 ACAAATTTAT
23385816 AAATAATCATAAACAAATGTCA
1 AAATAATCATAAACAAATGTCA
* * *
23385838 CAAATTATCTATAAATAAATTTCA
1 -AAATAATC-ATAAACAAATGTCA
23385862 AAATAAT
1 AAATAAT
23385869 ATGGCAAGGT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
23 13 0.52
24 12 0.48
ACGTcount: A:0.57, C:0.11, G:0.02, T:0.30
Consensus pattern (22 bp):
AAATAATCATAAACAAATGTCA
Found at i:23389675 original size:21 final size:22
Alignment explanation
Indices: 23389634--23389677 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
23389624 CTCTAACATT
*
23389634 AAAAATTCAAAAAAGTAAAAGA
1 AAAAATTCAAAAAAGAAAAAGA
*
23389656 AAAAATTTAAAAAA-AAAAAGA
1 AAAAATTCAAAAAAGAAAAAGA
23389677 A
1 A
23389678 GAGAAAGAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.77, C:0.02, G:0.07, T:0.14
Consensus pattern (22 bp):
AAAAATTCAAAAAAGAAAAAGA
Found at i:23389904 original size:15 final size:15
Alignment explanation
Indices: 23389858--23389908 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
23389848 ATTGTACTTT
*
23389858 ATATATATATATTT-
1 ATATATATTTATTTA
* *
23389872 ATATATATTTAATAA
1 ATATATATTTATTTA
*
23389887 ATATATTTTTATTTA
1 ATATATATTTATTTA
23389902 ATA-ATAT
1 ATATATAT
23389909 AACATTTTGT
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
14 14 0.48
15 15 0.52
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATATATATTTATTTA
Found at i:23393700 original size:3 final size:3
Alignment explanation
Indices: 23393692--23393722 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
23393682 CTTACACCTT
23393692 CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC C
1 CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC C
23393723 ACCACCTTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.68, G:0.00, T:0.32
Consensus pattern (3 bp):
CTC
Found at i:23398100 original size:3 final size:3
Alignment explanation
Indices: 23398092--23398117 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
23398082 TAAGGGGCTT
23398092 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
23398118 GAAAAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:23405498 original size:29 final size:30
Alignment explanation
Indices: 23405431--23405503 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 30
23405421 TATATTTAAA
**
23405431 ATAAAAATTTATTTGGATAAAAATCAAAAT
1 ATAAAAATTTATTTACATAAAAATCAAAAT
* *
23405461 ATAAGAATTTATTTACAT-ACAA-CAAAACT
1 ATAAAAATTTATTTACATAAAAATCAAAA-T
23405490 ATAAAAATTTATTT
1 ATAAAAATTTATTT
23405504 TAAAAAAGTG
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
28 5 0.14
29 17 0.46
30 15 0.41
ACGTcount: A:0.53, C:0.07, G:0.04, T:0.36
Consensus pattern (30 bp):
ATAAAAATTTATTTACATAAAAATCAAAAT
Found at i:23412088 original size:33 final size:33
Alignment explanation
Indices: 23412051--23412118 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
23412041 TTCCATATTT
23412051 TTAGGGCTGTTCCTTTTACATGTTATATCAGGG
1 TTAGGGCTGTTCCTTTTACATGTTATATCAGGG
23412084 TTAGGGCTGTTCCTTTTACATGTTATATCAGGG
1 TTAGGGCTGTTCCTTTTACATGTTATATCAGGG
23412117 TT
1 TT
23412119 TTTCTTAAGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.18, C:0.15, G:0.24, T:0.44
Consensus pattern (33 bp):
TTAGGGCTGTTCCTTTTACATGTTATATCAGGG
Found at i:23413352 original size:4 final size:4
Alignment explanation
Indices: 23413345--23413372 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
23413335 CTGACTTGTA
23413345 TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG
23413373 ATCTGAAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:23427930 original size:21 final size:21
Alignment explanation
Indices: 23427901--23427957 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
23427891 AAAAATAACG
* * *
23427901 ATAAGAATAATATTAATTATT
1 ATAATAATAAAATTAAATATT
23427922 ATAATAATAAAATTAAATATT
1 ATAATAATAAAATTAAATATT
*
23427943 GTAATAATAAAATTA
1 ATAATAATAAAATTA
23427958 TAATCAATGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.39
Consensus pattern (21 bp):
ATAATAATAAAATTAAATATT
Found at i:23427970 original size:21 final size:20
Alignment explanation
Indices: 23427924--23427967 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 20
23427914 TAATTATTAT
*
23427924 AATAATAAAATTAAATATTG
1 AATAATAAAATTAAATAATG
23427944 TAATAATAAAATTATAATCAATG
1 -AATAATAAAATTA-AAT-AATG
23427967 A
1 A
23427968 TAAAATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 13 0.65
22 4 0.20
23 3 0.15
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (20 bp):
AATAATAAAATTAAATAATG
Found at i:23441370 original size:10 final size:10
Alignment explanation
Indices: 23441355--23441387 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
23441345 TAGTCTTGTC
23441355 TATTCGTGTT
1 TATTCGTGTT
23441365 TATTCGTG-T
1 TATTCGTGTT
*
23441374 TATTCATGTT
1 TATTCGTGTT
23441384 TATT
1 TATT
23441388 TATGTCGTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.15, C:0.09, G:0.15, T:0.61
Consensus pattern (10 bp):
TATTCGTGTT
Found at i:23445604 original size:165 final size:165
Alignment explanation
Indices: 23445382--23445712 Score: 653
Period size: 165 Copynumber: 2.0 Consensus size: 165
23445372 ATGATGAAAA
23445382 CAACATTCAATTATCATTCCCTTATACAAAAAATATTATAATATATTCATAATAAATATTTAAAT
1 CAACATTCAATTATCATTCCCTTATACAAAAAATATTATAATATATTCATAATAAATATTTAAAT
23445447 AAATATATAAAGCTAACCTCATGTAGGCAATAATTTCAAAAGCTGATATCTCTTTCATCTCACAA
66 AAATATATAAAGCTAACCTCATGTAGGCAATAATTTCAAAAGCTGATATCTCTTTCATCTCACAA
23445512 AATCTAAGAATCTTCTCTTGCTCAAGATATGATGT
131 AATCTAAGAATCTTCTCTTGCTCAAGATATGATGT
23445547 CAACATTCAATTATCATTCCCTTATACAAAAAATATTATAATATATTCATAATAAATATTTAAAT
1 CAACATTCAATTATCATTCCCTTATACAAAAAATATTATAATATATTCATAATAAATATTTAAAT
*
23445612 AAATATATAAAGCTAACCTCATGTAGGTAATAATTTCAAAAGCTGATATCTCTTTCATCTCACAA
66 AAATATATAAAGCTAACCTCATGTAGGCAATAATTTCAAAAGCTGATATCTCTTTCATCTCACAA
23445677 AATCTAAGAATCTTCTCTTGCTCAAGATATGATGT
131 AATCTAAGAATCTTCTCTTGCTCAAGATATGATGT
23445712 C
1 C
23445713 GAGGGATAAT
Statistics
Matches: 165, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
165 165 1.00
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.35
Consensus pattern (165 bp):
CAACATTCAATTATCATTCCCTTATACAAAAAATATTATAATATATTCATAATAAATATTTAAAT
AAATATATAAAGCTAACCTCATGTAGGCAATAATTTCAAAAGCTGATATCTCTTTCATCTCACAA
AATCTAAGAATCTTCTCTTGCTCAAGATATGATGT
Found at i:23446635 original size:20 final size:19
Alignment explanation
Indices: 23446601--23446660 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
23446591 TGAAAACTTC
*
23446601 TCAGATTTCGATGAAATTTT
1 TCAG-TTTCGGTGAAATTTT
*
23446621 TTAGTTTTCGGTG-AATTTT
1 TCAG-TTTCGGTGAAATTTT
* *
23446640 TCAGTGTCGGTTAAATTTT
1 TCAGTTTCGGTGAAATTTT
23446659 TC
1 TC
23446661 GATGACTTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
18 6 0.18
19 17 0.52
20 10 0.30
ACGTcount: A:0.22, C:0.10, G:0.18, T:0.50
Consensus pattern (19 bp):
TCAGTTTCGGTGAAATTTT
Found at i:23446849 original size:15 final size:16
Alignment explanation
Indices: 23446829--23446858 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
23446819 CGATTCTATA
23446829 AAGAAAGG-AAGAGAT
1 AAGAAAGGAAAGAGAT
23446844 AAGAAAGGAAAGAGA
1 AAGAAAGGAAAGAGA
23446859 GAGAAGGGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.63, C:0.00, G:0.33, T:0.03
Consensus pattern (16 bp):
AAGAAAGGAAAGAGAT
Found at i:23452858 original size:20 final size:20
Alignment explanation
Indices: 23452850--23452899 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
23452840 TTTTTCTTTG
23452850 GTATTTTTTGATTTTATTTA
1 GTATTTTTTGATTTTATTTA
* *
23452870 GTATTTTTCTTAGTATT-TTTA
1 GTATTTTT-TGA-TTTTATTTA
23452891 GTATTTTTT
1 GTATTTTTT
23452900 TTCTTTTTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 9 0.35
21 14 0.54
22 3 0.12
ACGTcount: A:0.18, C:0.02, G:0.10, T:0.70
Consensus pattern (20 bp):
GTATTTTTTGATTTTATTTA
Found at i:23453143 original size:17 final size:18
Alignment explanation
Indices: 23453121--23453160 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
23453111 ATTTTCAAAC
23453121 AAAAAAA-ATTAAAAAT-T
1 AAAAAAACA-TAAAAATAT
23453138 AAAAAAACATAAAAATAT
1 AAAAAAACATAAAAATAT
23453156 AAAAA
1 AAAAA
23453161 TCTTTGAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (18 bp):
AAAAAAACATAAAAATAT
Found at i:23458116 original size:2 final size:2
Alignment explanation
Indices: 23458111--23458146 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
23458101 CGTGTGTGTC
23458111 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
23458147 GAGCCACGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:23459796 original size:25 final size:25
Alignment explanation
Indices: 23459768--23459815 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
23459758 TTACCTTTTT
23459768 TCATATCTCAAACCTCTAGCTCTTC
1 TCATATCTCAAACCTCTAGCTCTTC
* ** *
23459793 TCATGTCTTGAACCTTTAGCTCT
1 TCATATCTCAAACCTCTAGCTCT
23459816 GATATACTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.21, C:0.31, G:0.08, T:0.40
Consensus pattern (25 bp):
TCATATCTCAAACCTCTAGCTCTTC
Found at i:23467489 original size:3 final size:3
Alignment explanation
Indices: 23467481--23467528 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
23467471 TTGTGTTGTC
23467481 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
23467529 GTTGATAATA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:23467581 original size:21 final size:21
Alignment explanation
Indices: 23467557--23467599 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
23467547 CTTGATAAAA
*
23467557 TATTAAAATTTTAATTTTAAT
1 TATTAAAATTTAAATTTTAAT
*
23467578 TATTTAAATTTAAATTTTAAT
1 TATTAAAATTTAAATTTTAAT
23467599 T
1 T
23467600 TCATGTACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
TATTAAAATTTAAATTTTAAT
Found at i:23470483 original size:24 final size:24
Alignment explanation
Indices: 23470455--23470519 Score: 73
Period size: 23 Copynumber: 2.8 Consensus size: 24
23470445 TTTATTAAAC
*
23470455 TTAATTTTTAATTT-TGTATAATTT
1 TTAA-TTTTAATTTATATATAATTT
23470479 TTAATTTTAATTTATATATAA-TT
1 TTAATTTTAATTTATATATAATTT
* *
23470502 ATAATTATAA-TTATATAT
1 TTAATTTTAATTTATATAT
23470520 GTGAATTAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
22 8 0.22
23 19 0.51
24 10 0.27
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (24 bp):
TTAATTTTAATTTATATATAATTT
Found at i:23470533 original size:23 final size:23
Alignment explanation
Indices: 23470463--23470536 Score: 64
Period size: 23 Copynumber: 3.2 Consensus size: 23
23470453 ACTTAATTTT
* * *
23470463 TAATTT-TGTATAATTTTTAATTT
1 TAATTTATATATAA-TTATAATTA
23470486 TAATTTATATATAATTATAATTA
1 TAATTTATATATAATTATAATTA
*
23470509 TAATTATATATGTGAATTA-AA-TA
1 TAATT-TATATAT-AATTATAATTA
23470532 TAATT
1 TAATT
23470537 CTATTAAACT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
23 25 0.57
24 14 0.32
25 5 0.11
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (23 bp):
TAATTTATATATAATTATAATTA
Found at i:23471197 original size:19 final size:20
Alignment explanation
Indices: 23471175--23471217 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
23471165 ATACAATATG
*
23471175 ATAATAGATAC-AAAATAAT
1 ATAATAAATACGAAAATAAT
*
23471194 ATAA-AAATACGAAAGTAAT
1 ATAATAAATACGAAAATAAT
23471213 ATAAT
1 ATAAT
23471218 TTAATATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.63, C:0.05, G:0.07, T:0.26
Consensus pattern (20 bp):
ATAATAAATACGAAAATAAT
Found at i:23475432 original size:33 final size:32
Alignment explanation
Indices: 23475380--23475482 Score: 88
Period size: 33 Copynumber: 3.2 Consensus size: 32
23475370 TTGACATCTT
* *
23475380 AAAAA-AAATGATCAAATTATATCTAAACAATA
1 AAAAATAAATAATAAAATTATATCTAAA-AATA
* *
23475412 AAAAATAAATAATTAAATTATAT-T-CAAATA
1 AAAAATAAATAATAAAATTATATCTAAAAATA
* *
23475442 ATAAATAAA-AATAAAATTATATTCTAATAATGA
1 AAAAATAAATAATAAAATTATA-TCTAAAAAT-A
*
23475475 AACAATAA
1 AAAAATAA
23475483 TAAGTAGTGG
Statistics
Matches: 57, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
29 11 0.19
30 13 0.23
31 2 0.04
32 9 0.16
33 22 0.39
ACGTcount: A:0.63, C:0.06, G:0.02, T:0.29
Consensus pattern (32 bp):
AAAAATAAATAATAAAATTATATCTAAAAATA
Found at i:23475470 original size:29 final size:30
Alignment explanation
Indices: 23475408--23475485 Score: 97
Period size: 29 Copynumber: 2.6 Consensus size: 30
23475398 ATATCTAAAC
* *
23475408 AATAAAAAATAAATAATTAAATTATATTCA
1 AATAATAAATAAATAATAAAATTATATTCA
*
23475438 AATAATAAATAAA-AATAAAATTATATTCT
1 AATAATAAATAAATAATAAAATTATATTCA
*
23475467 AATAATGAAA-CAATAATAA
1 AATAAT-AAATAAATAATAA
23475486 GTAGTGGTCA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
29 22 0.52
30 20 0.48
ACGTcount: A:0.64, C:0.04, G:0.01, T:0.31
Consensus pattern (30 bp):
AATAATAAATAAATAATAAAATTATATTCA
Found at i:23476295 original size:52 final size:52
Alignment explanation
Indices: 23476228--23476333 Score: 144
Period size: 52 Copynumber: 2.0 Consensus size: 52
23476218 CCATTTGAGG
*
23476228 TTTGCCAAAGGTGTTGAAAAGCCTAGTAAAAG-AAA-TGAGGCTTCTATTTCAT
1 TTTGCCAAAGGTGTTGAAAAGCCTAG-AAAAGAAAACGGA-GCTTCTATTTCAT
* * *
23476280 TTTGTCAAAGGTGTTGAAAAGCGTAGCAAAGAAAACGGAGCTTCTATTTCAT
1 TTTGCCAAAGGTGTTGAAAAGCCTAGAAAAGAAAACGGAGCTTCTATTTCAT
23476332 TT
1 TT
23476334 AATTTGACCT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
51 4 0.08
52 42 0.88
53 2 0.04
ACGTcount: A:0.34, C:0.13, G:0.22, T:0.31
Consensus pattern (52 bp):
TTTGCCAAAGGTGTTGAAAAGCCTAGAAAAGAAAACGGAGCTTCTATTTCAT
Found at i:23482864 original size:22 final size:22
Alignment explanation
Indices: 23482823--23482864 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
23482813 TTTATTTTTT
*
23482823 ATTTTTATTAAATTTATAAATA
1 ATTTTTATAAAATTTATAAATA
23482845 ATTTTTATCAAAATTT-TAAA
1 ATTTTTAT-AAAATTTATAAA
23482865 CTGTAATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (22 bp):
ATTTTTATAAAATTTATAAATA
Found at i:23485203 original size:14 final size:14
Alignment explanation
Indices: 23485184--23485210 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
23485174 ATTTTATAGT
23485184 TAAAAAATATTAGA
1 TAAAAAATATTAGA
23485198 TAAAAAATATTAG
1 TAAAAAATATTAG
23485211 TTAATATCCA
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:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (14 bp):
TAAAAAATATTAGA
Found at i:23485554 original size:2 final size:2
Alignment explanation
Indices: 23485549--23485600 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
23485539 ATATATGGTA
23485549 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
23485591 CT CT CT CT CT
1 CT CT CT CT CT
23485601 ATATATATAT
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:23485605 original size:2 final size:2
Alignment explanation
Indices: 23485600--23485638 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
23485590 TCTCTCTCTC
23485600 TA TA TA TA TA TA TA TA TA TA TA TA TA 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 TA TA T
23485639 GCTTCCTTCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:23489867 original size:26 final size:23
Alignment explanation
Indices: 23489810--23489882 Score: 58
Period size: 25 Copynumber: 3.0 Consensus size: 23
23489800 GATGATTTAA
23489810 TTTATT-TAAAATAAAAAATTAT
1 TTTATTATAAAATAAAAAATTAT
*
23489832 TTTAATTTATAAAATTAAAATTATATAT
1 TTT-A-TTATAAAA-TAAAA-AAT-TAT
***
23489860 TTTATTATATTTTAAAAAATTAT
1 TTTATTATAAAATAAAAAATTAT
23489883 ATCAATAATT
Statistics
Matches: 40, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
22 3 0.08
23 4 0.10
24 4 0.10
25 10 0.25
26 10 0.25
27 3 0.08
28 6 0.15
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
TTTATTATAAAATAAAAAATTAT
Found at i:23494960 original size:8 final size:8
Alignment explanation
Indices: 23494949--23494979 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
23494939 CAGGGCAGGA
*
23494949 CAGGACGC
1 CAGGGCGC
23494957 CAGGGCGC
1 CAGGGCGC
23494965 CAGGGCGC
1 CAGGGCGC
23494973 CAGGGCG
1 CAGGGCG
23494980 GGGGCAGCCG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.16, C:0.35, G:0.48, T:0.00
Consensus pattern (8 bp):
CAGGGCGC
Found at i:23497845 original size:17 final size:16
Alignment explanation
Indices: 23497823--23497864 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
23497813 TTTTGATTTG
23497823 AAAAAAATAAAGTATA
1 AAAAAAATAAAGTATA
* *
23497839 AAAAAAATTAATTATA
1 AAAAAAATAAAGTATA
23497855 ATAAAAAATA
1 A-AAAAAATA
23497865 GAAAAACTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 15 0.68
17 7 0.32
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (16 bp):
AAAAAAATAAAGTATA
Found at i:23502244 original size:31 final size:29
Alignment explanation
Indices: 23502209--23502286 Score: 77
Period size: 29 Copynumber: 2.6 Consensus size: 29
23502199 AATATTACGA
* *
23502209 ATAATTTTTGAATTATAATAAAATATTTAAT
1 ATAATATTTAAATT-TAA-AAAATATTTAAT
* *
23502240 ATAATATTTAAATTTAAAAAGTTTTTAAT
1 ATAATATTTAAATTTAAAAAATATTTAAT
*
23502269 AT-GTATTTAAATTATAAA
1 ATAATATTTAAATT-TAAA
23502287 TTTATTAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
28 10 0.24
29 16 0.39
30 3 0.07
31 12 0.29
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (29 bp):
ATAATATTTAAATTTAAAAAATATTTAAT
Found at i:23502258 original size:27 final size:28
Alignment explanation
Indices: 23502226--23502286 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
23502216 TTGAATTATA
23502226 ATAAAA-TATTTAATATAATATTTAAATT
1 ATAAAAGTATTTAATAT-ATATTTAAATT
* *
23502254 -TAAAAAGTTTTTAATATGTATTTAAATT
1 AT-AAAAGTATTTAATATATATTTAAATT
23502282 ATAAA
1 ATAAA
23502287 TTTATTAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
27 1 0.04
28 17 0.61
29 10 0.36
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (28 bp):
ATAAAAGTATTTAATATATATTTAAATT
Found at i:23502266 original size:29 final size:27
Alignment explanation
Indices: 23502228--23502301 Score: 80
Period size: 27 Copynumber: 2.7 Consensus size: 27
23502218 GAATTATAAT
*
23502228 AAAATATTTAATATAATATTTAAATTTA
1 AAAATTTTTAATATAATATTTAAA-TTA
*
23502256 AAAAGTTTTTAATAT-GTATTTAAATTA
1 AAAA-TTTTTAATATAATATTTAAATTA
*
23502283 TAAATTTATTAAT-TAATAT
1 AAAATTT-TTAATATAATAT
23502302 GATATTAATT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
26 4 0.10
27 14 0.36
28 12 0.31
29 9 0.23
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (27 bp):
AAAATTTTTAATATAATATTTAAATTA
Found at i:23502318 original size:18 final size:18
Alignment explanation
Indices: 23502295--23502330 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
23502285 AATTTATTAA
*
23502295 TTAATATGATATTAATTT
1 TTAATATGAAATTAATTT
23502313 TTAATATGAAATTAATTT
1 TTAATATGAAATTAATTT
23502331 AAATTATGAT
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:0.42, C:0.00, G:0.06, T:0.53
Consensus pattern (18 bp):
TTAATATGAAATTAATTT
Found at i:23502338 original size:18 final size:18
Alignment explanation
Indices: 23502273--23502339 Score: 50
Period size: 18 Copynumber: 3.7 Consensus size: 18
23502263 TTTAATATGT
*
23502273 ATTTAAATTAT-AAATTT
1 ATTTAAATTATGAAATTA
* *
23502290 A-TTAATTAATATGATATTA
1 ATTTAA--ATTATGAAATTA
*
23502309 ATTTTTAA-TATGAAATTA
1 A-TTTAAATTATGAAATTA
23502327 ATTTAAATTATGA
1 ATTTAAATTATGA
23502340 TATGTAAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 11
0.69 0.11 0.20
Matches are distributed among these distances:
16 4 0.11
17 6 0.16
18 19 0.50
19 6 0.16
21 3 0.08
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.49
Consensus pattern (18 bp):
ATTTAAATTATGAAATTA
Found at i:23504634 original size:3 final size:3
Alignment explanation
Indices: 23504626--23504742 Score: 82
Period size: 3 Copynumber: 40.3 Consensus size: 3
23504616 TAAAAATGGA
* *
23504626 AAT AAT AAT -AT AAT -AT AAT -AT AAT -AT AAT AAT AGT AAT AGT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * *
23504670 AGT -AT CAAT AAC AAT AAA AAT AAT AAT AAT ACT AAC AAC AAA AAT
1 AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
23504715 AAT AAT AGT AGT AGT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
23504743 CACATAAAAA
Statistics
Matches: 91, Mismatches: 17, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
2 9 0.10
3 80 0.88
4 2 0.02
ACGTcount: A:0.61, C:0.04, G:0.05, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:23504640 original size:5 final size:5
Alignment explanation
Indices: 23504630--23504655 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
23504620 AATGGAAATA
23504630 ATAAT ATAAT ATAAT ATAAT ATAAT A
1 ATAAT ATAAT ATAAT ATAAT ATAAT A
23504656 ATAGTAATAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
ATAAT
Found at i:23513673 original size:24 final size:24
Alignment explanation
Indices: 23513628--23513673 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
23513618 TACCTCCATA
*
23513628 CATGAAGATAAATAGATGTAAATG
1 CATGAAAATAAATAGATGTAAATG
*
23513652 CATGAAAATGAAATGGAT-TAAA
1 CATGAAAAT-AAATAGATGTAAA
23513674 CAAAACAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 12 0.63
25 7 0.37
ACGTcount: A:0.52, C:0.04, G:0.20, T:0.24
Consensus pattern (24 bp):
CATGAAAATAAATAGATGTAAATG
Found at i:23516423 original size:20 final size:20
Alignment explanation
Indices: 23516400--23516444 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
23516390 TTTTTCAAGC
*
23516400 TTTTTTTTATATAAA-TTTT
1 TTTTTTTTACATAAACTTTT
*
23516419 TTTTTATTTGCATAAACTTTT
1 TTTTT-TTTACATAAACTTTT
23516440 TTTTT
1 TTTTT
23516445 GTGGGTTTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 5 0.23
20 8 0.36
21 9 0.41
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.71
Consensus pattern (20 bp):
TTTTTTTTACATAAACTTTT
Found at i:23521783 original size:16 final size:17
Alignment explanation
Indices: 23521754--23521786 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
23521744 TTTTGACTCT
23521754 TTAAAAATCATGATTTG
1 TTAAAAATCATGATTTG
*
23521771 TTAAAAA-CTTGATTTG
1 TTAAAAATCATGATTTG
23521787 CAATCAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.39, C:0.06, G:0.12, T:0.42
Consensus pattern (17 bp):
TTAAAAATCATGATTTG
Found at i:23529290 original size:387 final size:387
Alignment explanation
Indices: 23528576--23529351 Score: 1480
Period size: 387 Copynumber: 2.0 Consensus size: 387
23528566 TAAAACAGTA
*
23528576 TTCAATAACATGTTTTTTAAATATAATTTACTCTATTACCCAGAGTATCATATAAATATATATTA
1 TTCAATAACATATTTTTTAAATATAATTTACTCTATTACCCAGAGTATCATATAAATATATATTA
*
23528641 TTAAAAGTACTATTAGAACTATTAGACTTTTTTATCCGTAATTTTAAATATGCAGAATAATTTTG
66 TTAAAAGTACTATTAGAACTATTAAACTTTTTTATCCGTAATTTTAAATATGCAGAATAATTTTG
23528706 TAAACATAATTCATCACATGGTGAAGAAAGTTTATGAAAAAATTGTTCTTTCCAAAAAGTTGAAT
131 TAAACATAATTCATCACATGGTGAAGAAAGTTTATGAAAAAATTGTTCTTTCCAAAAAGTTGAAT
*
23528771 GTTCTTTATCCAACTTTTGATATTCACTTATATATTTTTAGAGTACTCATCAAGGTTTATGATGT
196 GTTCTTTATCCAACTTTTGATATTCACTCATATATTTTTAGAGTACTCATCAAGGTTTATGATGT
23528836 TACAAAGTTTTAATTTTGAAAGAATGTATTAAGCTTCAGTGTTTGGATTAGCTTCTTCCAAACTT
261 TACAAAGTTTTAATTTTGAAAGAATGTATTAAGCTTCAGTGTTTGGATTAGCTTCTTCCAAACTT
23528901 TCACAAAACTCATTTTTTAAGATCTGGGTTAAACCTTTAAGTAAATATGGGATTGTTGTAGT
326 TCACAAAACTCATTTTTTAAGATCTGGGTTAAACCTTTAAGTAAATATGGGATTGTTGTAGT
*
23528963 TTCAATAACATATTTTTTTAATATAATTTACTCTATTACCCAGAGTATCATATAAATATATATTA
1 TTCAATAACATATTTTTTAAATATAATTTACTCTATTACCCAGAGTATCATATAAATATATATTA
23529028 TTAAAAGTACTATTAGAACTATTAAACTTTTTTATCCGTAATTTTAAATATGCAGAATAATTTTG
66 TTAAAAGTACTATTAGAACTATTAAACTTTTTTATCCGTAATTTTAAATATGCAGAATAATTTTG
23529093 TAAACATAATTCATCACATGGTGAAGAAAGTTTATGAAAAAATTGTTCTTTCCAAAAAGTTGAAT
131 TAAACATAATTCATCACATGGTGAAGAAAGTTTATGAAAAAATTGTTCTTTCCAAAAAGTTGAAT
*
23529158 GTTCTTTATCCAGCTTTTGATATTCACTCATATATTTTTAGAGTACTCATCAAGGTTTATGATGT
196 GTTCTTTATCCAACTTTTGATATTCACTCATATATTTTTAGAGTACTCATCAAGGTTTATGATGT
* *
23529223 TACAAAGTTTTAATTTTGAAAGAATGTATTGAGCTTCAGTGTTTGGATTAGCTTCTTCTAAACTT
261 TACAAAGTTTTAATTTTGAAAGAATGTATTAAGCTTCAGTGTTTGGATTAGCTTCTTCCAAACTT
*
23529288 TCACAAAACTCATTTTTTAAGATCTGGGTTAAACCTTTGAGTAAATATGGGATTGTTGTAGT
326 TCACAAAACTCATTTTTTAAGATCTGGGTTAAACCTTTAAGTAAATATGGGATTGTTGTAGT
23529350 TT
1 TT
23529352 GATTAAGAAG
Statistics
Matches: 381, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
387 381 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (387 bp):
TTCAATAACATATTTTTTAAATATAATTTACTCTATTACCCAGAGTATCATATAAATATATATTA
TTAAAAGTACTATTAGAACTATTAAACTTTTTTATCCGTAATTTTAAATATGCAGAATAATTTTG
TAAACATAATTCATCACATGGTGAAGAAAGTTTATGAAAAAATTGTTCTTTCCAAAAAGTTGAAT
GTTCTTTATCCAACTTTTGATATTCACTCATATATTTTTAGAGTACTCATCAAGGTTTATGATGT
TACAAAGTTTTAATTTTGAAAGAATGTATTAAGCTTCAGTGTTTGGATTAGCTTCTTCCAAACTT
TCACAAAACTCATTTTTTAAGATCTGGGTTAAACCTTTAAGTAAATATGGGATTGTTGTAGT
Found at i:23530940 original size:8 final size:9
Alignment explanation
Indices: 23530914--23530943 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
23530904 ATGTTAAATT
23530914 TATATAAAA
1 TATATAAAA
23530923 TATATAAAA
1 TATATAAAA
23530932 TAT-TAAAA
1 TATATAAAA
23530940 TATA
1 TATA
23530944 ATTATTTATG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (9 bp):
TATATAAAA
Found at i:23531017 original size:71 final size:71
Alignment explanation
Indices: 23530805--23531002 Score: 317
Period size: 71 Copynumber: 2.8 Consensus size: 71
23530795 ATATATGTTA
*
23530805 ATTTATGTATTTATATTTTTAATATTTTATGTTAAATTTATATAAAATATAAAAAACATTAAAAT
1 ATTTATGTATTTATATTTTTTATATTTTATGTTAAATTTATATAAAATATAAAAAACATTAAAAT
23530870 ATAATT
66 ATAATT
* * *
23530876 AGTTATGTATTTAT-TTTTTTAATATTTTATGTTAAATTTATATAAAATATATAAAATATTAAAA
1 ATTTATGTATTTATATTTTTT-ATATTTTATGTTAAATTTATATAAAATATAAAAAACATTAAAA
23530940 TATAATT
65 TATAATT
* * *
23530947 ATTTATGTATCTATATTTTTTATATTATACGTTAAATTTATATAAAATATAAAAAA
1 ATTTATGTATTTATATTTTTTATATTTTATGTTAAATTTATATAAAATATAAAAAA
23531003 GATTCGGATA
Statistics
Matches: 116, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
70 5 0.04
71 105 0.91
72 6 0.05
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.50
Consensus pattern (71 bp):
ATTTATGTATTTATATTTTTTATATTTTATGTTAAATTTATATAAAATATAAAAAACATTAAAAT
ATAATT
Found at i:23531068 original size:23 final size:23
Alignment explanation
Indices: 23531030--23531095 Score: 71
Period size: 23 Copynumber: 2.8 Consensus size: 23
23531020 TCTTAACACA
*
23531030 TTATACAT-ATTTTTTATTAAAT
1 TTATATATAATTTTTTATTAAAT
*
23531052 TTATATATAATTTTTTATTAATT
1 TTATATATAATTTTTTATTAAAT
* *
23531075 TTAAATTATATTATTTTTATT
1 TTATA-TATAAT-TTTTTATT
23531096 TTTTAAAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 7 0.19
23 17 0.46
24 5 0.14
25 8 0.22
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (23 bp):
TTATATATAATTTTTTATTAAAT
Found at i:23531073 original size:11 final size:11
Alignment explanation
Indices: 23531038--23531076 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
23531028 CATTATACAT
23531038 ATTTTTTATTA
1 ATTTTTTATTA
* *
23531049 AATTTATATATA
1 ATTTTTTAT-TA
23531061 ATTTTTTATTA
1 ATTTTTTATTA
23531072 ATTTT
1 ATTTT
23531077 AAATTATATT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
11 14 0.61
12 9 0.39
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
ATTTTTTATTA
Found at i:23531084 original size:24 final size:24
Alignment explanation
Indices: 23531038--23531107 Score: 74
Period size: 23 Copynumber: 3.0 Consensus size: 24
23531028 CATTATACAT
* *
23531038 ATTTTTTATTAAATTTATA-TATA
1 ATTTTTTATTAATTTTAAATTATA
23531061 ATTTTTTATTAATTTTAAATTATA
1 ATTTTTTATTAATTTTAAATTATA
*
23531085 TTATTTTTATT--TTTTAAAATTAT
1 AT-TTTTTATTAATTTT-AAATTAT
23531108 TTTATATTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
23 21 0.51
24 12 0.29
25 8 0.20
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (24 bp):
ATTTTTTATTAATTTTAAATTATA
Found at i:23531112 original size:24 final size:24
Alignment explanation
Indices: 23531063--23531112 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 24
23531053 TATATATAAT
23531063 TTTTTATTAATTTTAAATTATATTA
1 TTTTTATT-ATTTTAAATTATATTA
*
23531088 TTTTTATT-TTTTAAAATTATTTTA
1 TTTTTATTATTTT-AAATTATATTA
23531112 T
1 T
23531113 ATTATGTGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 4 0.17
24 11 0.48
25 8 0.35
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (24 bp):
TTTTTATTATTTTAAATTATATTA
Found at i:23532875 original size:25 final size:25
Alignment explanation
Indices: 23532840--23532901 Score: 81
Period size: 25 Copynumber: 2.4 Consensus size: 25
23532830 ATCTTTATCT
*
23532840 TATATACTTAAGTA-ATTTTTTATAAA
1 TATATA-TTAA-TATATTTTTAATAAA
23532866 TATATATTAATATATTTTTAATAAA
1 TATATATTAATATATTTTTAATAAA
*
23532891 AATATATTAAT
1 TATATATTAAT
23532902 TGTAATTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
24 2 0.06
25 25 0.76
26 6 0.18
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (25 bp):
TATATATTAATATATTTTTAATAAA
Found at i:23532932 original size:23 final size:22
Alignment explanation
Indices: 23532910--23532951 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
23532900 ATTGTAATTA
23532910 ATTTAAAATAATAATTTATATT
1 ATTTAAAATAATAATTTATATT
23532932 ATTTAATAA-AA-AATTTATAT
1 ATTTAA-AATAATAATTTATAT
23532952 ACTAAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.47
22 8 0.42
23 2 0.11
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATTTAAAATAATAATTTATATT
Found at i:23540439 original size:44 final size:43
Alignment explanation
Indices: 23540368--23540490 Score: 131
Period size: 44 Copynumber: 2.8 Consensus size: 43
23540358 GGCTTCTCTA
* * *
23540368 AACAAAGGCTCAACATCTTTT-AAAAATATAAAAAGTTCTTATC
1 AACAAAGACTCAACAACTTTTAAAAAATATAAAAACTTC-TATC
* * ** * *
23540411 AATAGAGGTTCAATAACTTTTAAAAAATATAAAAGACTTCTCTC
1 AACAAAGACTCAACAACTTTTAAAAAATATAAAA-ACTTCTATC
23540455 AACAAAGACTCAACAACTTTTGAAAAAATATAAAAA
1 AACAAAGACTCAACAACTTTT-AAAAAATATAAAAA
23540491 TATTCTCACT
Statistics
Matches: 65, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
43 16 0.25
44 32 0.49
45 17 0.26
ACGTcount: A:0.50, C:0.15, G:0.07, T:0.28
Consensus pattern (43 bp):
AACAAAGACTCAACAACTTTTAAAAAATATAAAAACTTCTATC
Found at i:23541041 original size:22 final size:21
Alignment explanation
Indices: 23541016--23541208 Score: 93
Period size: 22 Copynumber: 8.8 Consensus size: 21
23541006 ATGTTTTGAA
*
23541016 GTCTTAAAAATTATGTCTGTAG
1 GTCTTAAAAATTATGTCAG-AG
* *
23541038 GTCTTACAAATCATAT-TC-GAAA
1 GTCTTAAAAAT--TATGTCAG-AG
* *
23541060 GTCTTAAGAATTATACTCAGAG
1 GTCTTAAAAATTAT-GTCAGAG
* * *
23541082 GCCTTACAAATCATGCTCAGAG
1 GTCTTAAAAATTATG-TCAGAG
* *
23541104 GTCTTGAGAATTATGTCCAGAG
1 GTCTTAAAAATTATGT-CAGAG
* * * * **
23541126 ATCGTACAAATTACGTTTGGAG
1 GTCTTAAAAATTATG-TCAGAG
23541148 GTCTTAAAAATTATGTTCAGAG
1 GTCTTAAAAATTATG-TCAGAG
* * * **
23541170 GCCTTATAAATCATGCTTGGAG
1 GTCTTAAAAATTATG-TCAGAG
23541192 GTCTTAAAAATTATGTC
1 GTCTTAAAAATTATGTC
23541209 CGAAAGTTTT
Statistics
Matches: 123, Mismatches: 40, Indels: 17
0.68 0.22 0.09
Matches are distributed among these distances:
20 3 0.02
21 2 0.02
22 111 0.90
23 4 0.03
24 3 0.02
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (21 bp):
GTCTTAAAAATTATGTCAGAG
Found at i:23541108 original size:44 final size:43
Alignment explanation
Indices: 23541016--23541320 Score: 209
Period size: 44 Copynumber: 6.9 Consensus size: 43
23541006 ATGTTTTGAA
* * * * * * *
23541016 GTCTTAAAAATTATGTCTGTAGGTCTTACAAATCAT-ATTCGAAA
1 GTCTTAAGAATTATCTCAG-AGGCCTTACAAATCATGCTT-GGAG
**
23541060 GTCTTAAGAATTATACTCAGAGGCCTTACAAATCATGCTCAGAG
1 GTCTTAAGAATTAT-CTCAGAGGCCTTACAAATCATGCTTGGAG
* * ** * * * *
23541104 GTCTTGAGAATTATGTCCAGAGATCGTACAAATTACGTTTGGAG
1 GTCTTAAGAATTATCT-CAGAGGCCTTACAAATCATGCTTGGAG
* * *
23541148 GTCTTAAAAATTATGTTCAGAGGCCTTATAAATCATGCTTGGAG
1 GTCTTAAGAATTAT-CTCAGAGGCCTTACAAATCATGCTTGGAG
* * * * ** *
23541192 GTCTTAAAAATTATGTCCGAAAGTTTTACAAATCGTGCTTGGAG
1 GTCTTAAGAATTATCTCAG-AGGCCTTACAAATCATGCTTGGAG
* * * * *
23541236 GTCTTGAGAATTATATCCAAAGGCCTTACAAATCATACCTGGAG
1 GTCTTAAGAATTATCT-CAGAGGCCTTACAAATCATGCTTGGAG
* *
23541280 GTATTGAA-AATTATGCTCGGAGGCCTTACAAATCATGCTTG
1 GTCTT-AAGAATTAT-CTCAGAGGCCTTACAAATCATGCTTG
23541321 TAAGCCTGAA
Statistics
Matches: 199, Mismatches: 54, Indels: 16
0.74 0.20 0.06
Matches are distributed among these distances:
43 4 0.02
44 187 0.94
45 8 0.04
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (43 bp):
GTCTTAAGAATTATCTCAGAGGCCTTACAAATCATGCTTGGAG
Found at i:23541168 original size:88 final size:87
Alignment explanation
Indices: 23541016--23541271 Score: 255
Period size: 88 Copynumber: 2.9 Consensus size: 87
23541006 ATGTTTTGAA
* * * * * * * * *
23541016 GTCTTAAAAATTATGTCTGTAGGTCTTACAAATCATATTCGAAAGTCTTAAGAATTATACTCAGA
1 GTCTTAAAAATTATGTCCGAAAGTCGTACAAATCGTCTT-GGAGGTCTTAAGAATTATATTCAGA
23541081 GGCCTTACAAATCATGCTCAGAG
65 GGCCTTACAAATCATGCTCAGAG
* * * * *
23541104 GTCTTGAGAATTATGTCC-AGAGATCGTACAAATTACGT-TTGGAGGTCTTAAAAATTATGTTCA
1 GTCTTAAAAATTATGTCCGAAAG-TCGTACAAA-T-CGTCTTGGAGGTCTTAAGAATTATATTCA
* **
23541167 GAGGCCTTATAAATCATGCTTGGAG
63 GAGGCCTTACAAATCATGCTCAGAG
** * * *
23541192 GTCTTAAAAATTATGTCCGAAAGTTTTACAAATCGTGCTTGGAGGTCTTGAGAATTATATCCAAA
1 GTCTTAAAAATTATGTCCGAAAGTCGTACAAATCGT-CTTGGAGGTCTTAAGAATTATATTCAGA
23541257 GGCCTTACAAATCAT
65 GGCCTTACAAATCAT
23541272 ACCTGGAGGT
Statistics
Matches: 135, Mismatches: 27, Indels: 12
0.78 0.16 0.07
Matches are distributed among these distances:
86 3 0.02
87 2 0.01
88 122 0.90
89 6 0.04
90 2 0.01
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (87 bp):
GTCTTAAAAATTATGTCCGAAAGTCGTACAAATCGTCTTGGAGGTCTTAAGAATTATATTCAGAG
GCCTTACAAATCATGCTCAGAG
Found at i:23541338 original size:21 final size:21
Alignment explanation
Indices: 23541284--23541338 Score: 56
Period size: 22 Copynumber: 2.6 Consensus size: 21
23541274 CTGGAGGTAT
*
23541284 TGAAAATTATGCTCGGAGGCC
1 TGAAAATTATGCTCGGAAGCC
* * * *
23541305 TTACAAATCATGCTTGTAAGCC
1 TGA-AAATTATGCTCGGAAGCC
23541327 TGAAAATTATGC
1 TGAAAATTATGC
23541339 CTAGAGACCT
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
21 10 0.38
22 16 0.62
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (21 bp):
TGAAAATTATGCTCGGAAGCC
Found at i:23541350 original size:43 final size:43
Alignment explanation
Indices: 23541284--23541365 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 43
23541274 CTGGAGGTAT
* *
23541284 TGAAAATTATGCTCGGAGGCCTTACAAATCATGCTTGTAAGCC
1 TGAAAATTATGCTCAGAGACCTTACAAATCATGCTTGTAAGCC
* * *
23541327 TGAAAATTATGC-CTAGAGACCTTATAAATTATGTTTGTA
1 TGAAAATTATGCTC-AGAGACCTTACAAATCATGCTTGTA
23541366 GGTATTACAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
42 1 0.03
43 32 0.97
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (43 bp):
TGAAAATTATGCTCAGAGACCTTACAAATCATGCTTGTAAGCC
Found at i:23543042 original size:17 final size:17
Alignment explanation
Indices: 23543020--23543053 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
23543010 GGATTCTGAC
*
23543020 AAAAAGTGTGATTCCCA
1 AAAAAGTGTGATACCCA
23543037 AAAAAGTGTGATACCCA
1 AAAAAGTGTGATACCCA
23543054 GAGTTTTCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.18, G:0.18, T:0.21
Consensus pattern (17 bp):
AAAAAGTGTGATACCCA
Found at i:23543939 original size:62 final size:63
Alignment explanation
Indices: 23543873--23543997 Score: 157
Period size: 62 Copynumber: 2.0 Consensus size: 63
23543863 GCATTTCTAA
* ** *
23543873 CTAGAAAACGCCTTAAATAATGCTGATT-AATTTTTT-TAGGGGATTATTTAAGGA-GTTTTTTG
1 CTAGAAAACACCTTAAATAAT-CCCATTCAATTTTTTGTAGAGGATTATTTAA-GATGTTTTTTG
* *
23543935 CTAGAAAATACCTTAAATAATCCCATTCAATTTTTTGTAGATGATTATTTAAGATGTTTTTTG
1 CTAGAAAACACCTTAAATAATCCCATTCAATTTTTTGTAGAGGATTATTTAAGATGTTTTTTG
23543998 ACCTTAAATA
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
61 4 0.07
62 29 0.54
63 21 0.39
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.43
Consensus pattern (63 bp):
CTAGAAAACACCTTAAATAATCCCATTCAATTTTTTGTAGAGGATTATTTAAGATGTTTTTTG
Found at i:23549255 original size:15 final size:15
Alignment explanation
Indices: 23549235--23549269 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
23549225 CAGAAGTGTG
23549235 GAATATGGTAAACTA
1 GAATATGGTAAACTA
23549250 GAATATGGTAAACTA
1 GAATATGGTAAACTA
*
23549265 AAATA
1 GAATA
23549270 AGGTTACGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.51, C:0.06, G:0.17, T:0.26
Consensus pattern (15 bp):
GAATATGGTAAACTA
Found at i:23557511 original size:17 final size:20
Alignment explanation
Indices: 23557481--23557519 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
23557471 CATTAATAAC
23557481 TTATCTCTTAAAAATT-TTT
1 TTATCTCTTAAAAATTCTTT
23557500 TTATCT-TT-AAAATTCTTT
1 TTATCTCTTAAAAATTCTTT
23557518 TT
1 TT
23557520 TTACAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.32
18 7 0.37
19 6 0.32
ACGTcount: A:0.28, C:0.10, G:0.00, T:0.62
Consensus pattern (20 bp):
TTATCTCTTAAAAATTCTTT
Found at i:23562414 original size:12 final size:12
Alignment explanation
Indices: 23562397--23562438 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
23562387 ATTTTTAATG
23562397 TAAATATAAAAT
1 TAAATATAAAAT
*
23562409 TAAATA-AATAT
1 TAAATATAAAAT
23562420 ATAAATATAAAAT
1 -TAAATATAAAAT
23562433 TAAATA
1 TAAATA
23562439 ATTAATTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 4 0.15
12 18 0.69
13 4 0.15
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
TAAATATAAAAT
Found at i:23562421 original size:18 final size:20
Alignment explanation
Indices: 23562397--23562438 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 20
23562387 ATTTTTAATG
23562397 TAAATATA-AAAT-T-AAA-
1 TAAATATATAAATATAAAAT
23562413 TAAATATATAAATATAAAAT
1 TAAATATATAAATATAAAAT
23562433 TAAATA
1 TAAATA
23562439 ATTAATTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 8 0.36
17 4 0.18
18 1 0.05
19 3 0.14
20 6 0.27
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
TAAATATATAAATATAAAAT
Found at i:23562448 original size:24 final size:25
Alignment explanation
Indices: 23562391--23562448 Score: 84
Period size: 24 Copynumber: 2.4 Consensus size: 25
23562381 AATAATATTT
*
23562391 TTAATGTAAATATAAAATTAAATAA
1 TTAATATAAATATAAAATTAAATAA
*
23562416 AT-ATATAAATATAAAATTAAATAA
1 TTAATATAAATATAAAATTAAATAA
23562440 TTAAT-TAAA
1 TTAATATAAA
23562449 AAAATTTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
24 26 0.90
25 3 0.10
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (25 bp):
TTAATATAAATATAAAATTAAATAA
Found at i:23563998 original size:13 final size:11
Alignment explanation
Indices: 23563965--23563991 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
23563955 TTTGGCAAGA
23563965 TTTTTGTTTTT
1 TTTTTGTTTTT
23563976 TTTTTGTTTTT
1 TTTTTGTTTTT
23563987 TTTTT
1 TTTTT
23563992 CAGTTTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.00, C:0.00, G:0.07, T:0.93
Consensus pattern (11 bp):
TTTTTGTTTTT
Found at i:23564053 original size:3 final size:3
Alignment explanation
Indices: 23564045--23564093 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
23564035 TTGTTTATGA
23564045 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
23564093 T
1 T
23564094 TAGAAATGAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:23564651 original size:14 final size:14
Alignment explanation
Indices: 23564628--23564664 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
23564618 AAAATAATGA
23564628 AAATAATAAATAGT
1 AAATAATAAATAGT
* *
23564642 AAATATTAAATATT
1 AAATAATAAATAGT
23564656 AAATAATAA
1 AAATAATAA
23564665 CAAAAATAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (14 bp):
AAATAATAAATAGT
Found at i:23576956 original size:34 final size:34
Alignment explanation
Indices: 23576830--23576956 Score: 92
Period size: 34 Copynumber: 3.6 Consensus size: 34
23576820 TTCAATTACT
* * **
23576830 TTTGGTCAGATGAGCTATTTAAAGTTTCATTGCC
1 TTTGGTCAGAGGAGTTATTTAAAGTTTCATAACC
** * * * *
23576864 TAGGGTTAGAGGAGCTTTTCTTTAAAATATCATAACC
1 TTTGGTCAGAGGAG---TTATTTAAAGTTTCATAACC
* * * *
23576901 TCTGGTCAAAAGAGTCATTTAAAGTTTCATAACC
1 TTTGGTCAGAGGAGTTATTTAAAGTTTCATAACC
*
23576935 TTTGGTCAGAGGAGTTTTTTAA
1 TTTGGTCAGAGGAGTTATTTAA
23576957 TTTTAAGAGC
Statistics
Matches: 66, Mismatches: 24, Indels: 6
0.69 0.25 0.06
Matches are distributed among these distances:
34 43 0.65
37 23 0.35
ACGTcount: A:0.29, C:0.13, G:0.20, T:0.38
Consensus pattern (34 bp):
TTTGGTCAGAGGAGTTATTTAAAGTTTCATAACC
Found at i:23578254 original size:7 final size:7
Alignment explanation
Indices: 23578229--23578266 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
23578219 AAGATTTCTC
*
23578229 TTTTTCT
1 TTTTTAT
23578236 TTTTT-T
1 TTTTTAT
23578242 TTTTTAT
1 TTTTTAT
23578249 TTTTTAT
1 TTTTTAT
23578256 TTATTTAT
1 TT-TTTAT
23578264 TTT
1 TTT
23578267 ATGTTAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 6 0.21
7 16 0.55
8 7 0.24
ACGTcount: A:0.11, C:0.03, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTTTAT
Found at i:23578262 original size:15 final size:13
Alignment explanation
Indices: 23578229--23578289 Score: 50
Period size: 13 Copynumber: 4.2 Consensus size: 13
23578219 AAGATTTCTC
*
23578229 TTTTTCTTTTTTT
1 TTTTTATTTTTTT
23578242 TTTTTATTTTTTAT
1 TTTTTATTTTTT-T
23578256 TTATTTATTTTATGTT
1 TT-TTTATTTT-T-TT
*
23578272 AATTTTATTTATTTT
1 -TTTTTATTT-TTTT
23578287 TTT
1 TTT
23578290 ATGATGATAA
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
13 11 0.28
14 5 0.13
15 10 0.26
16 10 0.26
17 3 0.08
ACGTcount: A:0.15, C:0.02, G:0.02, T:0.82
Consensus pattern (13 bp):
TTTTTATTTTTTT
Found at i:23578266 original size:20 final size:19
Alignment explanation
Indices: 23578240--23578291 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 19
23578230 TTTTCTTTTT
23578240 TTTTTTTATTTTTTATTTA
1 TTTTTTTATTTTTTATTTA
23578259 TTTATTTTATGTTAATTTTATTTA
1 TTT-TTTTA--TT--TTTTATTTA
23578283 TTTTTTTAT
1 TTTTTTTAT
23578292 GATGATAAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
19 3 0.11
20 5 0.18
21 1 0.04
22 2 0.07
23 5 0.18
24 12 0.43
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (19 bp):
TTTTTTTATTTTTTATTTA
Found at i:23578307 original size:3 final size:3
Alignment explanation
Indices: 23578301--23578348 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
23578291 TGATGATAAG
*
23578301 ATT ATT ATT ATT GTT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
23578349 CATTTTTTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:23580638 original size:15 final size:14
Alignment explanation
Indices: 23580618--23580647 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
23580608 ATAATTTTAA
23580618 ATTATAATTAATTAT
1 ATTATAA-TAATTAT
23580633 ATTATAATAATTAT
1 ATTATAATAATTAT
23580647 A
1 A
23580648 AATAAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
ATTATAATAATTAT
Found at i:23583405 original size:21 final size:21
Alignment explanation
Indices: 23583368--23583407 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
23583358 ATACATGTTT
*
23583368 TTTTGTTAATTATTTTTAAAA
1 TTTTGTTAAATATTTTTAAAA
23583389 TTTT-TTAAATATATTTTAA
1 TTTTGTTAAATAT-TTTTAA
23583408 GAGGTATGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (21 bp):
TTTTGTTAAATATTTTTAAAA
Found at i:23584454 original size:39 final size:39
Alignment explanation
Indices: 23584369--23584455 Score: 94
Period size: 39 Copynumber: 2.3 Consensus size: 39
23584359 TTATAAATTT
23584369 AATA-AAATAT-ATATTTTATTTTAATATATTGATATAA
1 AATATAAATATAATATTTTATTTTAATATATTGATATAA
* * *
23584406 ATTAT-AATATAATAATTTTATATTTTATATA-T-ATTTAA
1 AATATAAATATAAT-ATTTTAT-TTTAATATATTGATATAA
23584444 AATATAAATATA
1 AATATAAATATA
23584456 TACAAATATA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
37 8 0.20
38 11 0.27
39 14 0.34
40 8 0.20
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (39 bp):
AATATAAATATAATATTTTATTTTAATATATTGATATAA
Found at i:23584464 original size:16 final size:15
Alignment explanation
Indices: 23584431--23584485 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
23584421 TTTTATATTT
* *
23584431 TATATATATTTAAAA
1 TATAAATATATAAAA
23584446 TATAAATATATACAAA
1 TATAAATATATA-AAA
*
23584462 TATATAA-AT-TAACA
1 TATA-AATATATAAAA
23584476 TATAAATATA
1 TATAAATATA
23584486 AAATGATGAC
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
13 2 0.06
14 8 0.24
15 12 0.36
16 9 0.27
17 2 0.06
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (15 bp):
TATAAATATATAAAA
Found at i:23585863 original size:13 final size:12
Alignment explanation
Indices: 23585847--23585903 Score: 55
Period size: 11 Copynumber: 4.8 Consensus size: 12
23585837 ATGATTAGAT
23585847 AATATAATATAAA
1 AATAT-ATATAAA
23585860 AATATAT-TAAA
1 AATATATATAAA
*
23585871 TATATATA-AAA
1 AATATATATAAA
**
23585882 AATATATTATTTA
1 AATATA-TATAAA
23585895 AATATATAT
1 AATATATAT
23585904 TTTTATGAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
11 18 0.49
12 7 0.19
13 12 0.32
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AATATATATAAA
Found at i:23585877 original size:26 final size:24
Alignment explanation
Indices: 23585833--23585903 Score: 72
Period size: 26 Copynumber: 2.8 Consensus size: 24
23585823 GGATAATTTT
*
23585833 AAATATGATTAGATA-ATATAATATAA
1 AAATAT-ATTAAATATATATAA-A-AA
23585859 AAATATATTAAATATATATAAAAA
1 AAATATATTAAATATATATAAAAA
*
23585883 ATATATTATTTAAATATATAT
1 AAATA-TA-TTAAATATATAT
23585904 TTTTATGAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
24 6 0.15
25 10 0.25
26 24 0.60
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (24 bp):
AAATATATTAAATATATATAAAAA
Found at i:23585882 original size:22 final size:22
Alignment explanation
Indices: 23585847--23585890 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
23585837 ATGATTAGAT
23585847 AATATAATATAAAAATATATTA
1 AATATAATATAAAAATATATTA
23585869 AATAT-ATATAAAAAATATATTA
1 AATATAATAT-AAAAATATATTA
23585891 TTTAAATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
AATATAATATAAAAATATATTA
Found at i:23585899 original size:22 final size:22
Alignment explanation
Indices: 23585847--23585900 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
23585837 ATGATTAGAT
23585847 AATATAATAT-AAAAATATATTA
1 AATA-AATATAAAAAATATATTA
*
23585869 AATATATATAAAAAATATATTA
1 AATAAATATAAAAAATATATTA
**
23585891 TTTAAATATA
1 AATAAATATA
23585901 TATTTTTATG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 4 0.15
22 23 0.85
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
AATAAATATAAAAAATATATTA
Found at i:23597363 original size:16 final size:16
Alignment explanation
Indices: 23597342--23597376 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
23597332 ATACAAGCTC
*
23597342 ATACCAATTATTAAGA
1 ATACCAATTATTAAAA
*
23597358 ATACCAATTGTTAAAA
1 ATACCAATTATTAAAA
23597374 ATA
1 ATA
23597377 TGTTATCACG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.06, T:0.31
Consensus pattern (16 bp):
ATACCAATTATTAAAA
Found at i:23598718 original size:2 final size:2
Alignment explanation
Indices: 23598711--23598735 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
23598701 ATTAGAAAGG
23598711 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
23598736 AACCTAAGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:23598883 original size:17 final size:17
Alignment explanation
Indices: 23598861--23598904 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
23598851 CATAATAAAC
*
23598861 ATATTCAATATTCATAT
1 ATATTCAATATCCATAT
23598878 ATATTCAATATCCATAT
1 ATATTCAATATCCATAT
23598895 ATATTCAATA
1 ATATTCAATA
23598905 AATCATCAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (17 bp):
ATATTCAATATCCATAT
Found at i:23605512 original size:55 final size:55
Alignment explanation
Indices: 23605453--23605618 Score: 213
Period size: 49 Copynumber: 3.1 Consensus size: 55
23605443 AAAATATTTT
*
23605453 TAAATTGACCCAAATGGTGAAAAATTTAG-AATCCAACAAAAAAATAGAGAAATTC
1 TAAATTAACCCAAATGGTGAAAAATTTAGAAATCCAA-AAAAAAATAGAGAAATTC
* *
23605508 TAAA-TAAGCCCAAATGGTGAAAAATTTAGAAAT-TAAAAAAAAAT-----ATTTC
1 TAAATTAA-CCCAAATGGTGAAAAATTTAGAAATCCAAAAAAAAATAGAGAAATTC
23605557 TAAATTAACCCAAATGGTGAAAAATTTAGAAATCCAATAAAAAAAATAGAGAAATTC
1 TAAATTAACCCAAATGGTGAAAAATTTAGAAATCC-A-AAAAAAAATAGAGAAATTC
23605614 TAAAT
1 TAAAT
23605619 AGGTTCAAAT
Statistics
Matches: 95, Mismatches: 5, Indels: 20
0.79 0.04 0.17
Matches are distributed among these distances:
49 33 0.35
50 3 0.03
51 1 0.01
52 9 0.09
54 10 0.11
55 27 0.28
56 3 0.03
57 9 0.09
ACGTcount: A:0.55, C:0.10, G:0.11, T:0.24
Consensus pattern (55 bp):
TAAATTAACCCAAATGGTGAAAAATTTAGAAATCCAAAAAAAAATAGAGAAATTC
Found at i:23605568 original size:104 final size:106
Alignment explanation
Indices: 23605436--23605694 Score: 335
Period size: 106 Copynumber: 2.4 Consensus size: 106
23605426 AAAAAATAAA
* *
23605436 TAAAAAGAAAATATTTTTAAATTGACCCAAATGGTGAAAAATTTAG-AATCCAA-CAAAAAAATA
1 TAAAAA-AAAATATTTCTAAATTGACCCAAATGGTGAAAAATTTAGAAATCCAATAAAAAAAATA
* *
23605499 GAGAAATTCTAAATAAGCCCAAATGGT-GAAAAATTTAGAAAT
65 GAGAAATTCTAAATAAGCCCAAATGGTAG-AAAATTAAAAAAT
*
23605541 TAAAAAAAAATATTTCTAAATTAACCCAAATGGTGAAAAATTTAGAAATCCAATAAAAAAAATAG
1 TAAAAAAAAATATTTCTAAATTGACCCAAATGGTGAAAAATTTAGAAATCCAATAAAAAAAATAG
* **
23605606 AGAAATTCTAAATAGGTTCAAATGGTAGAAAATTAAAAAAT
66 AGAAATTCTAAATAAGCCCAAATGGTAGAAAATTAAAAAAT
* *
23605647 TCAAAAAAAAGAAAGTATTTCTAATTTGACCCAAATAGTGAAATAATT
1 T---AAAAAA-AAA-TATTTCTAAATTGACCCAAATGGTGAAA-AATT
23605695 AGATATATTT
Statistics
Matches: 134, Mismatches: 11, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
104 37 0.28
105 13 0.10
106 45 0.34
107 1 0.01
109 6 0.04
110 3 0.02
111 25 0.19
112 4 0.03
ACGTcount: A:0.54, C:0.09, G:0.11, T:0.26
Consensus pattern (106 bp):
TAAAAAAAAATATTTCTAAATTGACCCAAATGGTGAAAAATTTAGAAATCCAATAAAAAAAATAG
AGAAATTCTAAATAAGCCCAAATGGTAGAAAATTAAAAAAT
Found at i:23605569 original size:49 final size:50
Alignment explanation
Indices: 23605436--23605601 Score: 185
Period size: 49 Copynumber: 3.2 Consensus size: 50
23605426 AAAAAATAAA
* *
23605436 TAAAAAGAAAATATTTTTAAATTGACCCAAATGGTGAAAAATTTAG-AATC
1 TAAAAA-AAAATATTTCTAAATTAACCCAAATGGTGAAAAATTTAGAAATC
* *
23605486 CAACAAAAAAATAGAGAAATTCTAAA-TAAGCCCAAATGGTGAAAAATTTAGAAAT-
1 TAA-AAAAAAAT-----ATTTCTAAATTAA-CCCAAATGGTGAAAAATTTAGAAATC
23605541 TAAAAAAAAATATTTCTAAATTAACCCAAATGGTGAAAAATTTAGAAATC
1 TAAAAAAAAATATTTCTAAATTAACCCAAATGGTGAAAAATTTAGAAATC
*
23605591 CAATAAAAAAA
1 TAA-AAAAAAA
23605602 ATAGAGAAAT
Statistics
Matches: 98, Mismatches: 7, Indels: 21
0.78 0.06 0.17
Matches are distributed among these distances:
49 33 0.34
50 12 0.12
51 10 0.10
54 10 0.10
55 30 0.31
56 3 0.03
ACGTcount: A:0.55, C:0.10, G:0.10, T:0.25
Consensus pattern (50 bp):
TAAAAAAAAATATTTCTAAATTAACCCAAATGGTGAAAAATTTAGAAATC
Found at i:23610388 original size:63 final size:63
Alignment explanation
Indices: 23610224--23610504 Score: 321
Period size: 63 Copynumber: 4.4 Consensus size: 63
23610214 AGTAGGTGAA
* * * * * *
23610224 ATTTATTCTAAAATAGTTAGTGCTGAAAAACCTATGAGTGATGACCAAGTGATTGAGGAATGAA
1 ATTTATTCTAAAATGGTTAGTGCTGAGAAACCTATGAGTGATGACCAAGTGATAGAAG-ACGAG
** * * * * *
23610288 ATTTGCTCTGAAATAGTTAGTGCTGAGAAACCTATGAGTGATGATCAAGTTATAGAAGATGAG
1 ATTTATTCTAAAATGGTTAGTGCTGAGAAACCTATGAGTGATGACCAAGTGATAGAAGACGAG
* * *
23610351 ATTTACTT-TAAAATGGTTAGTGCTGAGAAGCCTATGAGTGATGACCAAGTGCTAAAAGACGAG
1 ATTTA-TTCTAAAATGGTTAGTGCTGAGAAACCTATGAGTGATGACCAAGTGATAGAAGACGAG
* * * * * *
23610414 ATTTGTTCTAAAATGATTAGTACTGAGAAACCTATGAGTGATGACCAAGTGATGGAGGACAAG
1 ATTTATTCTAAAATGGTTAGTGCTGAGAAACCTATGAGTGATGACCAAGTGATAGAAGACGAG
* *
23610477 ATTTATTCTAAACTGGCTAGTGCTGAGA
1 ATTTATTCTAAAATGGTTAGTGCTGAGA
23610505 TGCCTGTAAG
Statistics
Matches: 182, Mismatches: 33, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
62 2 0.01
63 129 0.71
64 51 0.28
ACGTcount: A:0.36, C:0.11, G:0.24, T:0.29
Consensus pattern (63 bp):
ATTTATTCTAAAATGGTTAGTGCTGAGAAACCTATGAGTGATGACCAAGTGATAGAAGACGAG
Found at i:23610480 original size:126 final size:127
Alignment explanation
Indices: 23610224--23610533 Score: 356
Period size: 126 Copynumber: 2.4 Consensus size: 127
23610214 AGTAGGTGAA
* * * ** * *
23610224 ATTTATTCTAAAATAGTTAGTGCTGAAAAACCTATGAGTGATGACCAAGTGATTGAGGAATGAAA
1 ATTTATTCTAAAATGGTTAGTGCTGAGAAGCCTATGAGTGATGACCAAGTGATAAAAGAACGAAA
* * * * **
23610289 TTTGCTCTGAAATAGTTAGTGCTGAGAAACCTATGAGTGATGATCAAGTTATAGAAGATGAG
66 TTTGCTCTAAAATAGTTAGTACTGAGAAACCTATGAGTGATGACCAAGTGATAGAAGACAAG
* *
23610351 ATTTACTT-TAAAATGGTTAGTGCTGAGAAGCCTATGAGTGATGACCAAGTGCTAAAAG-ACGAG
1 ATTTA-TTCTAAAATGGTTAGTGCTGAGAAGCCTATGAGTGATGACCAAGTGATAAAAGAACGAA
* * *
23610414 ATTTGTTCTAAAAT-GATTAGTACTGAGAAACCTATGAGTGATGACCAAGTGATGGAGGACAAG
65 ATTTGCTCTAAAATAG-TTAGTACTGAGAAACCTATGAGTGATGACCAAGTGATAGAAGACAAG
* * * * * * *
23610477 ATTTATTCTAAACTGGCTAGTGCTGAGATGCCTGTAAGTGGTGACCAAATGATAAAA
1 ATTTATTCTAAAATGGTTAGTGCTGAGAAGCCTATGAGTGATGACCAAGTGATAAAA
23610534 AACAGAATAA
Statistics
Matches: 154, Mismatches: 26, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
125 3 0.02
126 101 0.66
127 48 0.31
128 2 0.01
ACGTcount: A:0.36, C:0.11, G:0.24, T:0.29
Consensus pattern (127 bp):
ATTTATTCTAAAATGGTTAGTGCTGAGAAGCCTATGAGTGATGACCAAGTGATAAAAGAACGAAA
TTTGCTCTAAAATAGTTAGTACTGAGAAACCTATGAGTGATGACCAAGTGATAGAAGACAAG
Found at i:23610880 original size:21 final size:22
Alignment explanation
Indices: 23610847--23610935 Score: 121
Period size: 21 Copynumber: 4.1 Consensus size: 22
23610837 AATTTTTGGA
*
23610847 TGAAGTTTTAAATGAAAATCTT
1 TGAAGTTTCAAATGAAAATCTT
23610869 TGAA-TTTCAAATGAAAATCTT
1 TGAAGTTTCAAATGAAAATCTT
23610890 T-AAGTTTCCAAATGAAAATC-T
1 TGAAGTTT-CAAATGAAAATCTT
* *
23610911 TCAAGTTTCAAATGAGAATCTT
1 TGAAGTTTCAAATGAAAATCTT
23610933 TGA
1 TGA
23610936 GATGAGAAAT
Statistics
Matches: 60, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
20 2 0.03
21 33 0.55
22 25 0.42
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.37
Consensus pattern (22 bp):
TGAAGTTTCAAATGAAAATCTT
Found at i:23611403 original size:41 final size:41
Alignment explanation
Indices: 23611334--23611638 Score: 337
Period size: 41 Copynumber: 7.4 Consensus size: 41
23611324 TCGATGAGCT
* **
23611334 TTTATTTTTCAAAAGTTGTGATGCCTCTGTTTAGAAAAGCAA
1 TTTATTTTTC-AAAGTTGTGGTGCCTCTGTTTAGAGGAGCAA
* * *
23611376 TTTATTTTTCAAAATTGTGATGCCTCTGTTTAGATGAGCAA
1 TTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAA
** * * * *
23611417 TTTATTTTTCAAAGTCATAGTGCCTTTGTTTAGAAGAGTAA
1 TTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAA
* * * * *
23611458 TTTATTTTTTAAAGTCGTGGTACCTCTATTTAGAGGAGCAT
1 TTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAA
* * *
23611499 TTTA-TTTCCAAAGTTATGGTGCCTCTGTTTAGAGGAGCAT
1 TTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAA
* ** * *
23611539 TTTGTTTTTCAAAGTTGTGGTAACTCTGTTTAGAGGAGTAT
1 TTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAA
23611580 TTTA-TTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGC-A
1 TTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAA
23611619 TTTATTTTTCTCAAAGTTGT
1 TTTA-TTTT-TCAAAGTTGT
23611639 TAAGCTTCTA
Statistics
Matches: 222, Mismatches: 37, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
39 4 0.02
40 64 0.29
41 134 0.60
42 20 0.09
ACGTcount: A:0.25, C:0.11, G:0.20, T:0.44
Consensus pattern (41 bp):
TTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAA
Found at i:23611553 original size:81 final size:81
Alignment explanation
Indices: 23611340--23611638 Score: 339
Period size: 81 Copynumber: 3.7 Consensus size: 81
23611330 AGCTTTTATT
* * * * * * *
23611340 TTTCAAAAGTTGTGATGCCTCTGTTTAGAAAAGCAATTTATTTTTCAAAATTGTGATGCCTCTGT
1 TTTCCAAAGTTATGGTGCCTCTGTTTAGAAGAGCAATTTATTTTTCAAAGTTGTGGTACCTCTGT
* *
23611405 TTAGATGAGCAATTTA
66 TTAGAGGAGCATTTTA
* * * * * * * *
23611421 TTTTTCAAAGTCATAGTGCCTTTGTTTAGAAGAGTAATTTATTTTTTAAAGTCGTGGTACCTCTA
1 -TTTCCAAAGTTATGGTGCCTCTGTTTAGAAGAGCAATTTATTTTTCAAAGTTGTGGTACCTCTG
23611486 TTTAGAGGAGCATTTTA
65 TTTAGAGGAGCATTTTA
* * * *
23611503 TTTCCAAAGTTATGGTGCCTCTGTTTAGAGGAGCATTTTGTTTTTCAAAGTTGTGGTAACTCTGT
1 TTTCCAAAGTTATGGTGCCTCTGTTTAGAAGAGCAATTTATTTTTCAAAGTTGTGGTACCTCTGT
*
23611568 TTAGAGGAGTATTTTA
66 TTAGAGGAGCATTTTA
* * *
23611584 TTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGC-ATTTATTTTTCTCAAAGTTGT
1 TTTCCAAAGTTATGGTGCCTCTGTTTAGAAGAGCAATTTA-TTTT-TCAAAGTTGT
23611639 TAAGCTTCTA
Statistics
Matches: 181, Mismatches: 34, Indels: 4
0.83 0.16 0.02
Matches are distributed among these distances:
80 3 0.02
81 104 0.57
82 74 0.41
ACGTcount: A:0.25, C:0.12, G:0.20, T:0.43
Consensus pattern (81 bp):
TTTCCAAAGTTATGGTGCCTCTGTTTAGAAGAGCAATTTATTTTTCAAAGTTGTGGTACCTCTGT
TTAGAGGAGCATTTTA
Found at i:23613004 original size:56 final size:56
Alignment explanation
Indices: 23612942--23613103 Score: 225
Period size: 56 Copynumber: 2.9 Consensus size: 56
23612932 AAGAGAAAAT
* *
23612942 ATTTCTAAATTGACCCAAATGGTGGAAAATTTAAAAATCCAACAAAAAAAGAGAGA
1 ATTTCTAAATAGACCCAAATGGTGGAAAATTTAGAAATCCAACAAAAAAAGAGAGA
* * *
23612998 ATTTCTAAATAGGCCTAAATGGTGAAAAATTTAGAAATCCAACAAAAAAAGAGAGA
1 ATTTCTAAATAGACCCAAATGGTGGAAAATTTAGAAATCCAACAAAAAAAGAGAGA
* * * * * *
23613054 ATTTCTAAATAGACTCGAATGATAGAAAATTTAGAAATTCAAAAAAAAAA
1 ATTTCTAAATAGACCCAAATGGTGGAAAATTTAGAAATCCAACAAAAAAA
23613104 AAGAAAAATT
Statistics
Matches: 92, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
56 92 1.00
ACGTcount: A:0.53, C:0.10, G:0.14, T:0.23
Consensus pattern (56 bp):
ATTTCTAAATAGACCCAAATGGTGGAAAATTTAGAAATCCAACAAAAAAAGAGAGA
Found at i:23622549 original size:13 final size:13
Alignment explanation
Indices: 23622531--23622557 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
23622521 ACAGTCCCAT
23622531 CTTTTTTTTTTTC
1 CTTTTTTTTTTTC
23622544 CTTTTTTTTTTTC
1 CTTTTTTTTTTTC
23622557 C
1 C
23622558 ACAAACCACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (13 bp):
CTTTTTTTTTTTC
Found at i:23627725 original size:11 final size:11
Alignment explanation
Indices: 23627709--23627734 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
23627699 AGCCTACAAA
23627709 AAATCTTTTAC
1 AAATCTTTTAC
23627720 AAATCTTTTAC
1 AAATCTTTTAC
23627731 AAAT
1 AAAT
23627735 TTAAAACCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.42
Consensus pattern (11 bp):
AAATCTTTTAC
Found at i:23629903 original size:7 final size:7
Alignment explanation
Indices: 23629879--23629943 Score: 62
Period size: 7 Copynumber: 9.0 Consensus size: 7
23629869 GGTTTTCAGA
23629879 ATTTTGG
1 ATTTTGG
*
23629886 ATTTTAAG
1 ATTTT-GG
23629894 ATTTTGG
1 ATTTTGG
23629901 ATTTTATGG
1 A-TTT-TGG
23629910 -TTTTGG
1 ATTTTGG
23629916 ATTTTGG
1 ATTTTGG
23629923 ATTTTAGG
1 ATTTT-GG
*
23629931 GTTTT-G
1 ATTTTGG
23629937 ATTTTGG
1 ATTTTGG
23629944 GGTTTGAGAT
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
6 8 0.17
7 22 0.46
8 15 0.31
9 3 0.06
ACGTcount: A:0.17, C:0.00, G:0.26, T:0.57
Consensus pattern (7 bp):
ATTTTGG
Found at i:23629904 original size:22 final size:19
Alignment explanation
Indices: 23629879--23629943 Score: 58
Period size: 22 Copynumber: 3.0 Consensus size: 19
23629869 GGTTTTCAGA
23629879 ATTTTGGATTTTAAGATTTTGG
1 ATTTTGG-TTTT--GATTTTGG
23629901 ATTTTATGGTTTTGGATTTTGG
1 A-TTT-TGGTTTT-GATTTTGG
23629923 ATTTTAGGGTTTTGATTTTGG
1 ATTTT--GGTTTTGATTTTGG
23629944 GGTTTGAGAT
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
20 1 0.03
21 11 0.29
22 16 0.42
23 7 0.18
24 3 0.08
ACGTcount: A:0.17, C:0.00, G:0.26, T:0.57
Consensus pattern (19 bp):
ATTTTGGTTTTGATTTTGG
Found at i:23629936 original size:15 final size:15
Alignment explanation
Indices: 23629879--23629920 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
23629869 GGTTTTCAGA
23629879 ATTTTGGATTTTAAG
1 ATTTTGGATTTTAAG
*
23629894 ATTTTGGATTTTATG
1 ATTTTGGATTTTAAG
*
23629909 GTTTTGGATTTT
1 ATTTTGGATTTT
23629921 GGATTTTAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.19, C:0.00, G:0.21, T:0.60
Consensus pattern (15 bp):
ATTTTGGATTTTAAG
Found at i:23629939 original size:14 final size:14
Alignment explanation
Indices: 23629917--23630108 Score: 52
Period size: 14 Copynumber: 13.2 Consensus size: 14
23629907 TGGTTTTGGA
23629917 TTTTGGATTTTAGGG
1 TTTT-GATTTTAGGG
23629932 TTTTGATTTT-GGG
1 TTTTGATTTTAGGG
* * * *
23629945 GTTTGAGATTCAGGA
1 TTTTGA-TTTTAGGG
23629960 TTTT-AGTTTTAGGG
1 TTTTGA-TTTTAGGG
*
23629974 TTTTGAGGGTTTAGGG
1 TTTTGA--TTTTAGGG
** **
23629990 TTTCAATTTCGGGG
1 TTTTGATTTTAGGG
*
23630004 TTTATAGGTTTTAGGG
1 TTT-T-GATTTTAGGG
* * *
23630020 TTTAG-TTTCA-AG
1 TTTTGATTTTAGGG
* *
23630032 TTTAGAGGATTTAGGG
1 TTTTGA--TTTTAGGG
** *
23630048 TTTCAATTTTAAGG
1 TTTTGATTTTAGGG
* *
23630062 TTTGAGATTTTAGGA
1 TTT-TGATTTTAGGG
*
23630077 TTTCGATTTTAGGG
1 TTTTGATTTTAGGG
23630091 -TTTGATGTTTTAGGG
1 TTTTGA--TTTTAGGG
23630106 TTT
1 TTT
23630109 CAATTTTAAG
Statistics
Matches: 127, Mismatches: 36, Indels: 27
0.67 0.19 0.14
Matches are distributed among these distances:
12 6 0.05
13 16 0.13
14 46 0.36
15 31 0.24
16 28 0.22
ACGTcount: A:0.18, C:0.03, G:0.30, T:0.49
Consensus pattern (14 bp):
TTTTGATTTTAGGG
Found at i:23629954 original size:29 final size:29
Alignment explanation
Indices: 23629918--23630231 Score: 153
Period size: 29 Copynumber: 10.9 Consensus size: 29
23629908 GGTTTTGGAT
* *
23629918 TTTG-GATTTTAGGGTTTTGATTTTGGGG
1 TTTGAGATTTTAGGGTTTTAATTTTAGGG
* * *
23629946 TTTGAGA-TTCAGGATTTTAGTTTTAGGG
1 TTTGAGATTTTAGGGTTTTAATTTTAGGG
** * **
23629974 TTTTGAGGGTTTAGGGTTTCAATTTCGGGG
1 -TTTGAGATTTTAGGGTTTTAATTTTAGGG
* * * * *
23630004 TTTATAGGTTTTAGGG-TTTAGTTTCA-AG
1 TTT-GAGATTTTAGGGTTTTAATTTTAGGG
* *
23630032 TTTAGAGGA-TTTAGGGTTTCAATTTTAAGG
1 TTT-GA-GATTTTAGGGTTTTAATTTTAGGG
* **
23630062 TTTGAGATTTTAGGATTTCGATTTTAGGG
1 TTTGAGATTTTAGGGTTTTAATTTTAGGG
* * *
23630091 TTTGATG-TTTTAGGGTTTCAATTTTAAGA
1 TTTGA-GATTTTAGGGTTTTAATTTTAGGG
* * * **
23630120 TTTGAG-GTTT-GTGATTTTGATTTTATAG
1 TTTGAGATTTTAG-GGTTTTAATTTTAGGG
* **
23630148 TTTGAGGTTTTAGGGTTTTAATTTCGGGG
1 TTTGAGATTTTAGGGTTTTAATTTTAGGG
* * *
23630177 TTTAAAGGTTTTAAGG-TTTAATTTTAGGG
1 TTT-GAGATTTTAGGGTTTTAATTTTAGGG
* *
23630206 TTTG-GAGTGTTTAGAGTTTCAATTTT
1 TTTGAGA-T-TTTAGGGTTTTAATTTT
23630232 GAGGTTTTAA
Statistics
Matches: 216, Mismatches: 54, Indels: 30
0.72 0.18 0.10
Matches are distributed among these distances:
27 2 0.01
28 56 0.26
29 109 0.50
30 49 0.23
ACGTcount: A:0.20, C:0.03, G:0.28, T:0.49
Consensus pattern (29 bp):
TTTGAGATTTTAGGGTTTTAATTTTAGGG
Found at i:23630064 original size:58 final size:58
Alignment explanation
Indices: 23629925--23630171 Score: 173
Period size: 58 Copynumber: 4.3 Consensus size: 58
23629915 GATTTTGGAT
** ** * * * *
23629925 TTTAGGGTTTTGATTTTGGGGTTTGAGA-TTCAGGATTTTAG-TTTTAGGGTTTTGAGGG
1 TTTAGGGTTTCAATTTTAAGGTTTGAGATTTTAGGA-TTTAGATTTCAGAG-TTTGAGGA
*** * * *
23629983 TTTAGGGTTTCAATTTCGGGGTTTATAGGTTTTAGGGTTTAG-TTTCA-AGTTTAGAGGA
1 TTTAGGGTTTCAATTTTAAGGTTT-GAGATTTTAGGATTTAGATTTCAGAGTTT-GAGGA
* * * * *
23630041 TTTAGGGTTTCAATTTTAAGGTTTGAGATTTTAGGATTTCGATTTTAGGGTTTGATGT
1 TTTAGGGTTTCAATTTTAAGGTTTGAGATTTTAGGATTTAGATTTCAGAGTTTGAGGA
* * * * * *
23630099 TTTAGGGTTTCAATTTTAAGATTTGAG-GTTT-GTGATTTTGATTTTATAGTTTGAGGT
1 TTTAGGGTTTCAATTTTAAGGTTTGAGATTTTAG-GATTTAGATTTCAGAGTTTGAGGA
*
23630156 TTTAGGGTTTTAATTT
1 TTTAGGGTTTCAATTT
23630172 CGGGGTTTAA
Statistics
Matches: 155, Mismatches: 28, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
56 1 0.01
57 54 0.35
58 80 0.52
59 15 0.10
60 5 0.03
ACGTcount: A:0.19, C:0.03, G:0.28, T:0.50
Consensus pattern (58 bp):
TTTAGGGTTTCAATTTTAAGGTTTGAGATTTTAGGATTTAGATTTCAGAGTTTGAGGA
Found at i:23630073 original size:15 final size:15
Alignment explanation
Indices: 23630053--23630125 Score: 55
Period size: 14 Copynumber: 5.0 Consensus size: 15
23630043 TAGGGTTTCA
23630053 ATTTTAAGGTTTGAG
1 ATTTTAAGGTTTGAG
*
23630068 ATTTT-AGGATTT-CG
1 ATTTTAAGG-TTTGAG
*
23630082 ATTTTAGGGTTTGATG
1 ATTTTAAGGTTTGA-G
* *
23630098 -TTTTAGGGTTTCA-
1 ATTTTAAGGTTTGAG
*
23630111 ATTTTAAGATTTGAG
1 ATTTTAAGGTTTGAG
23630126 GTTTGTGATT
Statistics
Matches: 45, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
14 22 0.49
15 22 0.49
16 1 0.02
ACGTcount: A:0.23, C:0.03, G:0.25, T:0.49
Consensus pattern (15 bp):
ATTTTAAGGTTTGAG
Found at i:23630161 original size:57 final size:57
Alignment explanation
Indices: 23630030--23630171 Score: 178
Period size: 57 Copynumber: 2.5 Consensus size: 57
23630020 TTTAGTTTCA
* *
23630030 AGTTTAGAGGATTTAGGGTTTCAATTTTAAGGTTTGAGATTTTAGGATTTCGATTTTAG
1 AGTTT-GAGGTTTTAGGGTTTCAATTTTAAGATTTGAGATTTTA-GATTTCGATTTTAG
* * * * *
23630089 GGTTTGATGTTTTAGGGTTTCAATTTTAAGATTTGAGGTTTGT-GATTTTGATTTTAT
1 AGTTTGAGGTTTTAGGGTTTCAATTTTAAGATTTGAGATTT-TAGATTTCGATTTTAG
*
23630146 AGTTTGAGGTTTTAGGGTTTTAATTT
1 AGTTTGAGGTTTTAGGGTTTCAATTT
23630172 CGGGGTTTAA
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
57 35 0.49
58 32 0.44
59 5 0.07
ACGTcount: A:0.22, C:0.02, G:0.25, T:0.51
Consensus pattern (57 bp):
AGTTTGAGGTTTTAGGGTTTCAATTTTAAGATTTGAGATTTTAGATTTCGATTTTAG
Found at i:23630209 original size:58 final size:57
Alignment explanation
Indices: 23629961--23630230 Score: 197
Period size: 58 Copynumber: 4.6 Consensus size: 57
23629951 GATTCAGGAT
* * ** * *
23629961 TTTAGTTTTAGGGTTTTGAGGGTTTAGGGTTTCAATTTCGGGGTTTATAGGTTTTAGGG
1 TTTAATTTTAGGG-TTTGAGGTTTTAGGGTTTCAATTTCAAGGTTT-GAGGTTTTAAGG
* * * * * *
23630020 TTTAGTTTCA-AGTTTAGAGGATTTAGGGTTTCAATTTTAAGGTTTGAGATTTT-AGG
1 TTTAATTTTAGGGTTT-GAGGTTTTAGGGTTTCAATTTCAAGGTTTGAGGTTTTAAGG
* * * * * *
23630076 ATTTCGATTTTAGGGTTTGATGTTTTAGGGTTTCAATTTTAAGATTTGAGGTTTGTGA-T
1 -TTT-AATTTTAGGGTTTGAGGTTTTAGGGTTTCAATTTCAAGGTTTGAGGTTT-TAAGG
* ** * ** *
23630135 TTTGATTTTATAGTTTGAGGTTTTAGGGTTTTAATTTCGGGGTTTAAAGGTTTTAAGG
1 TTTAATTTTAGGGTTTGAGGTTTTAGGGTTTCAATTTCAAGGTTT-GAGGTTTTAAGG
*
23630193 TTTAATTTTAGGGTTTG-GAGTGTTTAGAGTTTCAATTT
1 TTTAATTTTAGGGTTTGAG-GT-TTTAGGGTTTCAATTT
23630231 TGAGGTTTTA
Statistics
Matches: 167, Mismatches: 34, Indels: 20
0.76 0.15 0.09
Matches are distributed among these distances:
56 2 0.01
57 49 0.29
58 87 0.52
59 28 0.17
60 1 0.01
ACGTcount: A:0.20, C:0.03, G:0.27, T:0.49
Consensus pattern (57 bp):
TTTAATTTTAGGGTTTGAGGTTTTAGGGTTTCAATTTCAAGGTTTGAGGTTTTAAGG
Found at i:23630645 original size:3 final size:3
Alignment explanation
Indices: 23630639--23630699 Score: 77
Period size: 3 Copynumber: 20.3 Consensus size: 3
23630629 ACTAATGTTG
* * * *
23630639 TTA TTA TCA TTA TCA TTA TCA TTA TTA TTA TTA CTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
23630687 GTA TTA TTA TTA T
1 TTA TTA TTA TTA T
23630700 AAAAAAATTA
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:23630817 original size:7 final size:7
Alignment explanation
Indices: 23630805--23630830 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
23630795 AATCAAAATC
23630805 AAAATAA
1 AAAATAA
23630812 AAAATAA
1 AAAATAA
23630819 AAAATAA
1 AAAATAA
23630826 AAAAT
1 AAAAT
23630831 TACCTGAACC
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:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
AAAATAA
Found at i:23631873 original size:20 final size:21
Alignment explanation
Indices: 23631849--23631901 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 21
23631839 TTACTGTTAT
*
23631849 TTTTTTAATTTTTTTTGTTTG
1 TTTTTTAATTTTTTTTCTTTG
*
23631870 TTTTGTTTTATTTTTTTTCTTTG
1 -TTT-TTTAATTTTTTTTCTTTG
*
23631893 -TGTTTAATT
1 TTTTTTAATT
23631902 AATAAATTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 6 0.23
21 1 0.04
22 3 0.12
23 16 0.62
ACGTcount: A:0.09, C:0.02, G:0.09, T:0.79
Consensus pattern (21 bp):
TTTTTTAATTTTTTTTCTTTG
Found at i:23631935 original size:5 final size:5
Alignment explanation
Indices: 23631920--23631953 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
23631910 AATATTAATG
*
23631920 TAAAA TGAAA TAAAA TAAAA TAAAA T-AAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
23631954 GATAAATGGG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (5 bp):
TAAAA
Done.