Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032251.1 Gossypioides kirkii chromosome KI_09
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: 38743931
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2800 characters in sequence are not A, C, G, or T
File 104 of 144
Found at i:24376252 original size:28 final size:28
Alignment explanation
Indices: 24376194--24376252 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
24376184 TAAACATGTT
* **
24376194 AATTAATTTTCAAATTAATTTCAACTTA
1 AATTAATTTTAAAATTAATTTCAACACA
**
24376222 AATTAATTTTAAAATTAATTTTTACACA
1 AATTAATTTTAAAATTAATTTCAACACA
24376250 AAT
1 AAT
24376253 ATACTTCGTG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (28 bp):
AATTAATTTTAAAATTAATTTCAACACA
Found at i:24379408 original size:23 final size:23
Alignment explanation
Indices: 24379382--24379527 Score: 165
Period size: 23 Copynumber: 6.3 Consensus size: 23
24379372 ACACTAGCGC
24379382 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGATTAGCACTTTGTGT
24379405 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGATTAGCACTTTGTGT
*
24379428 GCTCTCTGATTAGTACTTTGTGT
1 GCTCTCTGATTAGCACTTTGTGT
* * *
24379451 ACTCTCTGTTTAGCACTGTGTGT
1 GCTCTCTGATTAGCACTTTGTGT
*
24379474 GCTCTCTG-TTGCCCAGCAC-TTATGT
1 GCTCTCTGATT----AGCACTTTGTGT
*
24379499 GCTCTCTG-TTAGTACTTTG-GT
1 GCTCTCTGATTAGCACTTTGTGT
*
24379520 ACTCTCTG
1 GCTCTCTG
24379528 CTTGTTCCGT
Statistics
Matches: 107, Mismatches: 11, Indels: 12
0.82 0.08 0.09
Matches are distributed among these distances:
21 13 0.12
22 4 0.04
23 71 0.66
25 14 0.13
26 5 0.05
ACGTcount: A:0.12, C:0.23, G:0.21, T:0.43
Consensus pattern (23 bp):
GCTCTCTGATTAGCACTTTGTGT
Found at i:24379522 original size:69 final size:69
Alignment explanation
Indices: 24379383--24379527 Score: 199
Period size: 69 Copynumber: 2.1 Consensus size: 69
24379373 CACTAGCGCG
* *
24379383 CTCTCTGATTAGCACTTTGTGTGCTCTCTGATTAGCACTTTGTGTGCTCTCTGATTAGTACTTTG
1 CTCTCTGATTAGCACTGTGTGTGCTCTCTGATTAGCACTTTATGTGCTCTCTGATTAGTACTTTG
24379448 TGTA
66 TGTA
*
24379452 CTCTCTGTTTAGCACTGTGTGTGCTCTCTG-TTGCCCAGCAC-TTATGTGCTCTCTG-TTAGTAC
1 CTCTCTGATTAGCACTGTGTGTGCTCTCTGATT----AGCACTTTATGTGCTCTCTGATTAGTAC
24379514 TTTG-GTA
62 TTTGTGTA
24379521 CTCTCTG
1 CTCTCTG
24379528 CTTGTTCCGT
Statistics
Matches: 69, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
68 2 0.03
69 38 0.55
70 11 0.16
71 13 0.19
72 5 0.07
ACGTcount: A:0.12, C:0.23, G:0.21, T:0.43
Consensus pattern (69 bp):
CTCTCTGATTAGCACTGTGTGTGCTCTCTGATTAGCACTTTATGTGCTCTCTGATTAGTACTTTG
TGTA
Found at i:24392610 original size:62 final size:60
Alignment explanation
Indices: 24392531--24392793 Score: 286
Period size: 62 Copynumber: 4.3 Consensus size: 60
24392521 ATAGAGAATA
* *
24392531 AGAAAAAGTTGGTGTCGGCCATTTGATGGCCAACACCAAAAAAATTTAGAATTTTTTTATTCG
1 AGAAAAAG-GGGTGTCGGCCATTTGATGGCCAACACC-AAAAAATTTAGAATTTTTTT-CTCG
* *
24392594 AGAAAAAGGGGTGTCGGTCATTTGATGGCCAACACCAAAAAAATTT-GAAAATTTTTTCTCG
1 AGAAAAAGGGGTGTCGGCCATTTGATGGCCAACACC-AAAAAATTTAG-AATTTTTTTCTCG
* * * * *
24392655 AGAATAGGGAGGTGTCAGCCATTTGATGGCCAACACCCAAAAATGTA-AA-TTTTTT-TCG
1 AGAAAAAGG-GGTGTCGGCCATTTGATGGCCAACACCAAAAAATTTAGAATTTTTTTCTCG
** * *
24392713 AG-AAAAGAGGGTGTCGATCATTTGATGACCAACACCAAAAAATTTTGAATTTTTTTCTCG
1 AGAAAAAG-GGGTGTCGGCCATTTGATGGCCAACACCAAAAAATTTAGAATTTTTTTCTCG
24392773 AG-AAAAGGGCAGTGTCGGCCA
1 AGAAAAAGGG--GTGTCGGCCA
24392794 AACTTTTCAA
Statistics
Matches: 170, Mismatches: 21, Indels: 20
0.81 0.10 0.09
Matches are distributed among these distances:
57 33 0.19
58 8 0.05
59 14 0.08
60 12 0.07
61 26 0.15
62 69 0.41
63 8 0.05
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.28
Consensus pattern (60 bp):
AGAAAAAGGGGTGTCGGCCATTTGATGGCCAACACCAAAAAATTTAGAATTTTTTTCTCG
Found at i:24392760 original size:119 final size:122
Alignment explanation
Indices: 24392541--24392781 Score: 348
Period size: 119 Copynumber: 2.0 Consensus size: 122
24392531 AGAAAAAGTT
* *
24392541 GGTGTCGGCCATTTGATGGCCAACACCAAAAAAATTTAGAATTTTTTTATTCGAGAAAAAGGGGT
1 GGTGTCAGCCATTTGATGGCCAACACCAAAAAAATGTAGAA-TTTTTTATTCGAGAAAAAGGGGT
* * *
24392606 GTCGGTCATTTGATGGCCAACACCAAAAAAATTTGAAAATTTTTTCTCGAGAATAGGGA
65 GTCGATCATTTGATGACCAACACCAAAAAAATTTG-AAATTTTTTCTCGAGAAAAGGGA
*
24392665 GGTGTCAGCCATTTGATGGCCAACACC-CAAAAATGTA-AA-TTTTT-TTCGAG-AAAAGAGGGT
1 GGTGTCAGCCATTTGATGGCCAACACCAAAAAAATGTAGAATTTTTTATTCGAGAAAAAG-GGGT
* *
24392725 GTCGATCATTTGATGACCAACACCAAAAAATTTTGAATTTTTTTCTCGAGAAAAGGG
65 GTCGATCATTTGATGACCAACACCAAAAAAATTTGAAATTTTTTCTCGAGAAAAGGG
24392782 CAGTGTCGGC
Statistics
Matches: 108, Mismatches: 8, Indels: 8
0.87 0.06 0.06
Matches are distributed among these distances:
118 25 0.23
119 42 0.39
120 5 0.05
122 2 0.02
123 8 0.07
124 26 0.24
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.29
Consensus pattern (122 bp):
GGTGTCAGCCATTTGATGGCCAACACCAAAAAAATGTAGAATTTTTTATTCGAGAAAAAGGGGTG
TCGATCATTTGATGACCAACACCAAAAAAATTTGAAATTTTTTCTCGAGAAAAGGGA
Found at i:24392885 original size:59 final size:59
Alignment explanation
Indices: 24392791--24393144 Score: 432
Period size: 59 Copynumber: 6.0 Consensus size: 59
24392781 GCAGTGTCGG
* *
24392791 CCAAACTTTTCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCC
1 CCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCC
** * * *
24392850 TTAAACTTTCCAAAATTCCGTTTTCAACCCCGATTTCACCAAAAATTACCGTTTTACCC
1 CCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCC
* * *
24392909 CCAAACTTTCCAATA-T-CACTTTTTCAACCTCGGTTTCACC-AAAATTACCATTTTACCC
1 CCAAACTTTCCAAAATTCCA-TTTTT-AACCCCGATTTCACCAAAAATTACCATTTTACCC
* * *
24392967 CTAAACTTTCCAGAATTCCATTTTTAA-CCCTAGTTTCACC-AAAATTACCATTTTACCC
1 CCAAACTTTCCAAAATTCCATTTTTAACCCCGA-TTTCACCAAAAATTACCATTTTACCC
** * *
24393025 CCAAACTTTCCAAAACCCCATTCTTAACCCCAATTTCACCAAAAATTACCATTTTACCC
1 CCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCC
* ** * *
24393084 CCAAACTCTCCAAAATTCCATTTTTAACCATGATTTTATCAAAAATTA-CATTTTCACCC
1 CCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTT-ACCC
24393143 CC
1 CC
24393145 GAAAGTCAAA
Statistics
Matches: 251, Mismatches: 36, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
57 3 0.01
58 96 0.38
59 150 0.60
60 2 0.01
ACGTcount: A:0.32, C:0.32, G:0.03, T:0.33
Consensus pattern (59 bp):
CCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCC
Found at i:24393004 original size:117 final size:117
Alignment explanation
Indices: 24392791--24393144 Score: 457
Period size: 117 Copynumber: 3.0 Consensus size: 117
24392781 GCAGTGTCGG
* *
24392791 CCAAACTTTTCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCTTAAAC
1 CCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCTAAAC
* * * *
24392856 TTTCCAAAATTCCGTTTTCAACCCCGATTTCACCAAAAATTACCGTTTTACCC
66 TTTCCAAAATTCCATTTTTAACCCAGATTTCACC-AAAATTACCATTTTACCC
* * * *
24392909 CCAAACTTTCCAATATCAC-TTTTTCAACCTCGGTTTCACC-AAAATTACCATTTTACCCCTAAA
1 CCAAACTTTCCAAAATCCCATTTTT-AACCCCGATTTCACCAAAAATTACCATTTTACCCCTAAA
*
24392972 CTTTCCAGAATTCCATTTTTAACCCTAG-TTTCACCAAAATTACCATTTTACCC
65 CTTTCCAAAATTCCATTTTTAACCC-AGATTTCACCAAAATTACCATTTTACCC
* * * *
24393025 CCAAACTTTCCAAAACCCCATTCTTAACCCCAATTTCACCAAAAATTACCATTTTACCCCCAAAC
1 CCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCTAAAC
* * *
24393090 TCTCCAAAATTCCATTTTTAA-CCATGATTTTATCAAAAATTA-CATTTTCACCC
66 TTTCCAAAATTCCATTTTTAACCCA-GATTTCA-CCAAAATTACCATTTT-ACCC
24393143 CC
1 CC
24393145 GAAAGTCAAA
Statistics
Matches: 205, Mismatches: 23, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
115 1 0.00
116 48 0.23
117 112 0.55
118 44 0.21
ACGTcount: A:0.32, C:0.32, G:0.03, T:0.33
Consensus pattern (117 bp):
CCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCTAAAC
TTTCCAAAATTCCATTTTTAACCCAGATTTCACCAAAATTACCATTTTACCC
Found at i:24393012 original size:29 final size:31
Alignment explanation
Indices: 24392941--24393112 Score: 91
Period size: 29 Copynumber: 5.9 Consensus size: 31
24392931 TTCAACCTCG
*
24392941 GTTTCACCAAAATTACCA-TTTTACCCCTAAA
1 GTTTCACCAAAATTACCATTTTTAACCCT-AA
* *
24392972 CTTT--CCAGAATT-CCATTTTTAACCCT-A
1 GTTTCACCAAAATTACCATTTTTAACCCTAA
* *
24392999 GTTTCACCAAAATTACCA-TTTTACCCCCAAA
1 GTTTCACCAAAATTACCATTTTTA-ACCCTAA
* ** * *
24393030 CTTT--CCAAAA-CCCCATTCTTAACCCCAA
1 GTTTCACCAAAATTACCATTTTTAACCCTAA
* *
24393058 -TTTCACCAAAAATTACCA-TTTTACCCCCAA
1 GTTTCACC-AAAATTACCATTTTTAACCCTAA
** *
24393088 -ACTCTCCAAAATT-CCATTTTTAACC
1 GTTTCACCAAAATTACCATTTTTAACC
24393113 ATGATTTTAT
Statistics
Matches: 108, Mismatches: 21, Indels: 26
0.70 0.14 0.17
Matches are distributed among these distances:
27 7 0.06
28 14 0.13
29 53 0.49
30 24 0.22
31 10 0.09
ACGTcount: A:0.33, C:0.33, G:0.02, T:0.32
Consensus pattern (31 bp):
GTTTCACCAAAATTACCATTTTTAACCCTAA
Found at i:24399101 original size:34 final size:34
Alignment explanation
Indices: 24399063--24399143 Score: 162
Period size: 34 Copynumber: 2.4 Consensus size: 34
24399053 ATTGTCAAAC
24399063 TCAAACAATCCAATTAAAGGTTCTATTTTTGTAA
1 TCAAACAATCCAATTAAAGGTTCTATTTTTGTAA
24399097 TCAAACAATCCAATTAAAGGTTCTATTTTTGTAA
1 TCAAACAATCCAATTAAAGGTTCTATTTTTGTAA
24399131 TCAAACAATCCAA
1 TCAAACAATCCAA
24399144 ATGATGAGAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 47 1.00
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.35
Consensus pattern (34 bp):
TCAAACAATCCAATTAAAGGTTCTATTTTTGTAA
Found at i:24419714 original size:31 final size:33
Alignment explanation
Indices: 24419679--24419761 Score: 95
Period size: 31 Copynumber: 2.7 Consensus size: 33
24419669 CTGATCAAAA
*
24419679 TTTAAAAAATTTTGAG-AGTTTTAATTAGAA-T
1 TTTAAAAAATTTTGAGAAGTTTTAATTAAAACT
* * *
24419710 TTTAAAAAATTTTG-GTAGATCTAATTAAAACT
1 TTTAAAAAATTTTGAGAAGTTTTAATTAAAACT
24419742 TTT-AAAAATTTT-AGAAGTTT
1 TTTAAAAAATTTTGAGAAGTTT
24419762 GATAAAAATT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
30 1 0.02
31 38 0.88
32 4 0.09
ACGTcount: A:0.42, C:0.02, G:0.11, T:0.45
Consensus pattern (33 bp):
TTTAAAAAATTTTGAGAAGTTTTAATTAAAACT
Found at i:24425716 original size:31 final size:31
Alignment explanation
Indices: 24425670--24425730 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
24425660 AATAAAAAAT
* *
24425670 ATATAAAATTATTAAATATTAAAATAATATA
1 ATATAAAATTATTAAAAAATAAAATAATATA
24425701 ATATAAATATT-TTAAAAAATAAAATAATAT
1 ATATAAA-ATTATTAAAAAATAAAATAATAT
24425731 GGGTGAGCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 24 0.89
32 3 0.11
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (31 bp):
ATATAAAATTATTAAAAAATAAAATAATATA
Found at i:24435760 original size:17 final size:16
Alignment explanation
Indices: 24435738--24435781 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
24435728 TTTAGATCTA
24435738 ATATATAAATTAGTCAT
1 ATATATAAATTAGT-AT
24435755 ATATATAAA-TAGTAT
1 ATATATAAATTAGTAT
24435770 AT-TATAACATTA
1 ATATATAA-ATTA
24435782 AAAAACATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 5 0.20
15 5 0.20
16 6 0.24
17 9 0.36
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.41
Consensus pattern (16 bp):
ATATATAAATTAGTAT
Found at i:24446309 original size:76 final size:75
Alignment explanation
Indices: 24446214--24446356 Score: 232
Period size: 76 Copynumber: 1.9 Consensus size: 75
24446204 TATAAGAACT
* *
24446214 TAAGATGCAACAAGTTCTAAAACACTTTCTTTTCCCTTCCACAGATTAATACAATATGCATAATT
1 TAAGATGCAACAAGTTCTAAAACACTTTCTTTTACCATCCACAGATTAA-ACAATATGCATAATT
24446279 CTAACACCTTA
65 CTAACACCTTA
* * *
24446290 TAAGATGCAACAAGTTCTAAAACACTTTCTTTTATCATCCACGGATTAAATAATATGCATAATTC
1 TAAGATGCAACAAGTTCTAAAACACTTTCTTTTACCATCCACAGATTAAACAATATGCATAATTC
24446355 TA
66 TA
24446357 GAATAGCAGC
Statistics
Matches: 62, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
75 17 0.27
76 45 0.73
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.34
Consensus pattern (75 bp):
TAAGATGCAACAAGTTCTAAAACACTTTCTTTTACCATCCACAGATTAAACAATATGCATAATTC
TAACACCTTA
Found at i:24456949 original size:18 final size:16
Alignment explanation
Indices: 24456915--24456964 Score: 57
Period size: 18 Copynumber: 3.1 Consensus size: 16
24456905 TATATTAAAA
*
24456915 AAATTA-AAAATTATT
1 AAATTATAAAATTTTT
24456930 AAATATATATAAATTTTT
1 AAAT-TATA-AAATTTTT
*
24456948 AAATTATAAATTTTTT
1 AAATTATAAAATTTTT
24456964 A
1 A
24456965 TTAAAAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
15 4 0.13
16 10 0.33
17 5 0.17
18 11 0.37
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
AAATTATAAAATTTTT
Found at i:24469596 original size:22 final size:22
Alignment explanation
Indices: 24469551--24469596 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
24469541 ATAATATTAG
24469551 AAAATTAAAAAATATCTTATAA
1 AAAATTAAAAAATATCTTATAA
24469573 AAAATATAATAAAATAT-TTA-AA
1 AAAAT-TAA-AAAATATCTTATAA
24469595 AA
1 AA
24469597 TAAATATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 9 0.41
23 6 0.27
24 7 0.32
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (22 bp):
AAAATTAAAAAATATCTTATAA
Found at i:24469600 original size:15 final size:15
Alignment explanation
Indices: 24469580--24469614 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
24469570 TAAAAAATAT
24469580 AATAAAATATTTAAA
1 AATAAAATATTTAAA
24469595 AAT-AAATATTTAAA
1 AATAAAATATTTAAA
24469609 AA-AAAA
1 AATAAAA
24469615 ACGCGTGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 16 0.84
15 3 0.16
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
AATAAAATATTTAAA
Found at i:24469610 original size:24 final size:23
Alignment explanation
Indices: 24469551--24469603 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
24469541 ATAATATTAG
*
24469551 AAAAT-TAAAAAATATCTTATAA
1 AAAATATAAAAAATATCTTAAAA
24469573 AAAATATAATAAAATAT-TTAAAA
1 AAAATATAA-AAAATATCTTAAAA
24469596 ATAAATAT
1 A-AAATAT
24469604 TTAAAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
22 5 0.19
23 9 0.33
24 13 0.48
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (23 bp):
AAAATATAAAAAATATCTTAAAA
Found at i:24471782 original size:19 final size:19
Alignment explanation
Indices: 24471759--24471805 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
24471749 GCAATTTTAT
24471759 ATTTTTTAT-ATTTTA-AGA
1 ATTTTTTATAATTTTAGA-A
*
24471777 ATTTTTCTTTAATTTTAGAA
1 ATTTTT-TATAATTTTAGAA
24471797 ATTTTTTAT
1 ATTTTTTAT
24471806 TTCAAGTTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
18 6 0.25
19 4 0.17
20 13 0.54
21 1 0.04
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (19 bp):
ATTTTTTATAATTTTAGAA
Found at i:24471793 original size:20 final size:21
Alignment explanation
Indices: 24471763--24471802 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
24471753 TTTTATATTT
24471763 TTTATATTTTA-AGAATTTTTC
1 TTTATATTTTAGA-AATTTTTC
24471784 TTTA-ATTTTAGAAATTTTT
1 TTTATATTTTAGAAATTTTT
24471803 TATTTCAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (21 bp):
TTTATATTTTAGAAATTTTTC
Found at i:24471856 original size:17 final size:19
Alignment explanation
Indices: 24471821--24471857 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
24471811 GTTAGGATCA
24471821 TGTATTTCTCTAGTAATTT
1 TGTATTTCTCTAGTAATTT
24471840 TGTATTT-TCTA-TAATTT
1 TGTATTTCTCTAGTAATTT
24471857 T
1 T
24471858 AAAGATAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.39
18 4 0.22
19 7 0.39
ACGTcount: A:0.22, C:0.08, G:0.08, T:0.62
Consensus pattern (19 bp):
TGTATTTCTCTAGTAATTT
Found at i:24473553 original size:30 final size:32
Alignment explanation
Indices: 24473490--24473565 Score: 95
Period size: 32 Copynumber: 2.4 Consensus size: 32
24473480 AAAAACGTAT
* *
24473490 AAAAATAACATCCAAACAATCAAAAAAGAAGC
1 AAAAATAACAGCAAAACAATCAAAAAAGAAGC
*
24473522 AAAAATAACAGCAAAACAA-CAAAAAA-TAGC
1 AAAAATAACAGCAAAACAATCAAAAAAGAAGC
24473552 AACAAA-AACAGCAA
1 AA-AAATAACAGCAA
24473566 CAAAAATAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
30 13 0.32
31 10 0.25
32 17 0.43
ACGTcount: A:0.68, C:0.18, G:0.07, T:0.07
Consensus pattern (32 bp):
AAAAATAACAGCAAAACAATCAAAAAAGAAGC
Found at i:24473556 original size:13 final size:13
Alignment explanation
Indices: 24473538--24473571 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
24473528 AACAGCAAAA
*
24473538 CAACAAAAAATAG
1 CAACAAAAAACAG
24473551 CAAC-AAAAACAG
1 CAACAAAAAACAG
24473563 CAACAAAAA
1 CAACAAAAA
24473572 TAATAAGATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.71, C:0.21, G:0.06, T:0.03
Consensus pattern (13 bp):
CAACAAAAAACAG
Found at i:24473603 original size:17 final size:18
Alignment explanation
Indices: 24473581--24473615 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
24473571 ATAATAAGAT
*
24473581 CAAAACAGTAA-AAAAAC
1 CAAAACAGCAACAAAAAC
24473598 CAAAACAGCAACAAAAAC
1 CAAAACAGCAACAAAAAC
24473616 AGTAAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.69, C:0.23, G:0.06, T:0.03
Consensus pattern (18 bp):
CAAAACAGCAACAAAAAC
Found at i:24473615 original size:29 final size:31
Alignment explanation
Indices: 24473582--24473648 Score: 93
Period size: 32 Copynumber: 2.2 Consensus size: 31
24473572 TAATAAGATC
*
24473582 AAAACAGT-AAAAAA-ACCAAAACAGCAACA
1 AAAACAGTAAAAAAACACCAAAACAACAACA
*
24473611 AAAACAGTAAAAAAAACACCAAAACAACAACC
1 AAAACAGT-AAAAAAACACCAAAACAACAACA
24473643 AAAACA
1 AAAACA
24473649 ACAATATAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
29 8 0.24
31 6 0.18
32 19 0.58
ACGTcount: A:0.70, C:0.22, G:0.04, T:0.03
Consensus pattern (31 bp):
AAAACAGTAAAAAAACACCAAAACAACAACA
Found at i:24473643 original size:12 final size:12
Alignment explanation
Indices: 24473595--24473652 Score: 52
Period size: 12 Copynumber: 5.2 Consensus size: 12
24473585 ACAGTAAAAA
*
24473595 AACCAAAACAGC
1 AACCAAAACAAC
* **
24473607 AACAAAAACAGT
1 AACCAAAACAAC
24473619 AA--AAAA-AAC
1 AACCAAAACAAC
24473628 -ACCAAAACAAC
1 AACCAAAACAAC
24473639 AACCAAAACAAC
1 AACCAAAACAAC
24473651 AA
1 AA
24473653 TATAAATTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 1 0.03
9 1 0.03
10 8 0.21
11 3 0.08
12 25 0.66
ACGTcount: A:0.69, C:0.26, G:0.03, T:0.02
Consensus pattern (12 bp):
AACCAAAACAAC
Found at i:24477470 original size:21 final size:19
Alignment explanation
Indices: 24477446--24477488 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 19
24477436 CTCCATATTC
24477446 ATATGATTAAGTGAATATAAA
1 ATATGATTAAGT-AAT-TAAA
* *
24477467 ATATTATTTAGTAATTAAA
1 ATATGATTAAGTAATTAAA
24477486 ATA
1 ATA
24477489 ATATTTTTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 7 0.35
20 3 0.15
21 10 0.50
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (19 bp):
ATATGATTAAGTAATTAAA
Found at i:24481970 original size:148 final size:148
Alignment explanation
Indices: 24481767--24482049 Score: 566
Period size: 148 Copynumber: 1.9 Consensus size: 148
24481757 AGTCTAAATC
24481767 CTCAGGGAAAGAATTTAGAGGTTGGTATTCTAGTCTTTAAGTACAAATATGAGGTCACTATACTT
1 CTCAGGGAAAGAATTTAGAGGTTGGTATTCTAGTCTTTAAGTACAAATATGAGGTCACTATACTT
24481832 AAAGAGTGGTAGAGTGAGGTTCACCTGTTGTATTGTGGACTAAAGATAGTTGAATTACTCACTGA
66 AAAGAGTGGTAGAGTGAGGTTCACCTGTTGTATTGTGGACTAAAGATAGTTGAATTACTCACTGA
24481897 GCTAAAGATAGTTACTCA
131 GCTAAAGATAGTTACTCA
24481915 CTCAGGGAAAGAATTTAGAGGTTGGTATTCTAGTCTTTAAGTACAAATATGAGGTCACTATACTT
1 CTCAGGGAAAGAATTTAGAGGTTGGTATTCTAGTCTTTAAGTACAAATATGAGGTCACTATACTT
24481980 AAAGAGTGGTAGAGTGAGGTTCACCTGTTGTATTGTGGACTAAAGATAGTTGAATTACTCACTGA
66 AAAGAGTGGTAGAGTGAGGTTCACCTGTTGTATTGTGGACTAAAGATAGTTGAATTACTCACTGA
24482045 GCTAA
131 GCTAA
24482050 GCTCTGCGGA
Statistics
Matches: 135, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
148 135 1.00
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.32
Consensus pattern (148 bp):
CTCAGGGAAAGAATTTAGAGGTTGGTATTCTAGTCTTTAAGTACAAATATGAGGTCACTATACTT
AAAGAGTGGTAGAGTGAGGTTCACCTGTTGTATTGTGGACTAAAGATAGTTGAATTACTCACTGA
GCTAAAGATAGTTACTCA
Found at i:24487528 original size:17 final size:17
Alignment explanation
Indices: 24487493--24487525 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
24487483 AGAGTAATAC
24487493 ATAAAATATTAATTATT
1 ATAAAATATTAATTATT
*
24487510 ATAATATATT-ATTATT
1 ATAAAATATTAATTATT
24487526 TATTATACTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
ATAAAATATTAATTATT
Found at i:24490385 original size:22 final size:23
Alignment explanation
Indices: 24490356--24490402 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
24490346 ACCCATCACT
24490356 TATTA-TTTAATTTTT-AAAAAA
1 TATTATTTTAATTTTTCAAAAAA
*
24490377 TATTGATTTTATTTTTTCAAAAAA
1 TATT-ATTTTAATTTTTCAAAAAA
24490401 TA
1 TA
24490403 ATTTTTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 4 0.18
22 1 0.05
23 9 0.41
24 8 0.36
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (23 bp):
TATTATTTTAATTTTTCAAAAAA
Found at i:24496843 original size:23 final size:23
Alignment explanation
Indices: 24496817--24496861 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
24496807 TAGGTACGTT
24496817 AATATTATTT-TTTTAATTTTAAG
1 AATATT-TTTATTTTAATTTTAAG
*
24496840 AATATTTTTATTTTTATTTTAA
1 AATATTTTTATTTTAATTTTAA
24496862 TTAAATATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 3 0.15
23 17 0.85
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (23 bp):
AATATTTTTATTTTAATTTTAAG
Found at i:24498450 original size:20 final size:20
Alignment explanation
Indices: 24498425--24498466 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
24498415 GTTTTTCAAA
24498425 AAAGTCAACGGTCAACGGTC
1 AAAGTCAACGGTCAACGGTC
24498445 AAAGTCAACGGTCAACGGTC
1 AAAGTCAACGGTCAACGGTC
24498465 AA
1 AA
24498467 TCAACATCGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.38, C:0.24, G:0.24, T:0.14
Consensus pattern (20 bp):
AAAGTCAACGGTCAACGGTC
Found at i:24498453 original size:13 final size:13
Alignment explanation
Indices: 24498435--24498459 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24498425 AAAGTCAACG
24498435 GTCAACGGTCAAA
1 GTCAACGGTCAAA
24498448 GTCAACGGTCAA
1 GTCAACGGTCAA
24498460 CGGTCAATCA
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:0.36, C:0.24, G:0.24, T:0.16
Consensus pattern (13 bp):
GTCAACGGTCAAA
Found at i:24498479 original size:21 final size:21
Alignment explanation
Indices: 24498433--24498521 Score: 69
Period size: 20 Copynumber: 4.3 Consensus size: 21
24498423 AAAAAGTCAA
24498433 CGGTCAACGGTCAAAGTC-A-A-
1 CGGTCAACGGTC-AA-TCAACAT
24498453 CGGTCAACGGTCAATCAACAT
1 CGGTCAACGGTCAATCAACAT
** *
24498474 CGGTCAACGGTCGGTCAACGT
1 CGGTCAACGGTCAATCAACAT
* * * *
24498495 TGGTCAAC-GCCAGTCAACGT
1 CGGTCAACGGTCAATCAACAT
24498515 CGGTCAA
1 CGGTCAA
24498522 TGGTTTGACT
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
18 2 0.03
19 3 0.05
20 29 0.49
21 25 0.42
ACGTcount: A:0.28, C:0.28, G:0.26, T:0.18
Consensus pattern (21 bp):
CGGTCAACGGTCAATCAACAT
Found at i:24498485 original size:7 final size:7
Alignment explanation
Indices: 24498428--24498466 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
24498418 TTTCAAAAAA
24498428 GTCAACG
1 GTCAACG
24498435 GTCAACG
1 GTCAACG
*
24498442 GTCAA-A
1 GTCAACG
24498448 GTCAACG
1 GTCAACG
24498455 GTCAACG
1 GTCAACG
24498462 GTCAA
1 GTCAA
24498467 TCAACATCGG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 5 0.17
7 24 0.83
ACGTcount: A:0.33, C:0.26, G:0.26, T:0.15
Consensus pattern (7 bp):
GTCAACG
Found at i:24498499 original size:10 final size:10
Alignment explanation
Indices: 24498453--24498521 Score: 66
Period size: 10 Copynumber: 6.7 Consensus size: 10
24498443 TCAAAGTCAA
24498453 CGGTCAACGGT
1 CGGTCAAC-GT
** *
24498464 CAATCAACAT
1 CGGTCAACGT
24498474 CGGTCAACGGT
1 CGGTCAAC-GT
24498485 CGGTCAACGT
1 CGGTCAACGT
* *
24498495 TGGTCAACGC
1 CGGTCAACGT
*
24498505 CAGTCAACGT
1 CGGTCAACGT
24498515 CGGTCAA
1 CGGTCAA
24498522 TGGTTTGACT
Statistics
Matches: 45, Mismatches: 12, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
10 30 0.67
11 15 0.33
ACGTcount: A:0.26, C:0.29, G:0.26, T:0.19
Consensus pattern (10 bp):
CGGTCAACGT
Found at i:24498578 original size:15 final size:15
Alignment explanation
Indices: 24498558--24498587 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
24498548 TGGTTCATTT
24498558 GGTTTGGTTTAAATG
1 GGTTTGGTTTAAATG
24498573 GGTTTGGTTTAAATG
1 GGTTTGGTTTAAATG
24498588 AATTTGGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.00, G:0.33, T:0.47
Consensus pattern (15 bp):
GGTTTGGTTTAAATG
Found at i:24498593 original size:15 final size:15
Alignment explanation
Indices: 24498560--24498594 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
24498550 GTTCATTTGG
**
24498560 TTTGGTTTAAATGGG
1 TTTGGTTTAAATGAA
24498575 TTTGGTTTAAATGAA
1 TTTGGTTTAAATGAA
24498590 TTTGG
1 TTTGG
24498595 GTTTGGTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.29, T:0.49
Consensus pattern (15 bp):
TTTGGTTTAAATGAA
Found at i:24498597 original size:21 final size:21
Alignment explanation
Indices: 24498571--24498659 Score: 151
Period size: 21 Copynumber: 4.2 Consensus size: 21
24498561 TTGGTTTAAA
24498571 TGGGTTTGGTTTAAATGAATT
1 TGGGTTTGGTTTAAATGAATT
24498592 TGGGTTTGGTTTAAATGAATT
1 TGGGTTTGGTTTAAATGAATT
* *
24498613 TGAGTTTGGTTTAAATGAATG
1 TGGGTTTGGTTTAAATGAATT
24498634 TGGGTTTGGTTTAAATAGAATT
1 TGGGTTTGGTTTAAAT-GAATT
24498656 TGGG
1 TGGG
24498660 CTTAATGGGT
Statistics
Matches: 63, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
21 55 0.87
22 8 0.13
ACGTcount: A:0.25, C:0.00, G:0.30, T:0.45
Consensus pattern (21 bp):
TGGGTTTGGTTTAAATGAATT
Found at i:24499063 original size:11 final size:11
Alignment explanation
Indices: 24499030--24499104 Score: 62
Period size: 11 Copynumber: 6.5 Consensus size: 11
24499020 AAGTGTGATT
*
24499030 AAAAGAGGAAG
1 AAAAGAGAAAG
*
24499041 AAAATAGAAAAG
1 AAAAGAG-AAAG
24499053 AAAAGAGAAAG
1 AAAAGAGAAAG
24499064 AAATA-AGAAATG
1 AAA-AGAGAAA-G
* *
24499076 AATGAGAAAAAG
1 AA-AAGAGAAAG
24499088 AAAAGAGAAAG
1 AAAAGAGAAAG
*
24499099 GAAAGA
1 AAAAGA
24499105 TGAGAGGCTT
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
11 30 0.59
12 17 0.33
13 4 0.08
ACGTcount: A:0.69, C:0.00, G:0.25, T:0.05
Consensus pattern (11 bp):
AAAAGAGAAAG
Found at i:24499072 original size:23 final size:23
Alignment explanation
Indices: 24499030--24499102 Score: 67
Period size: 23 Copynumber: 3.1 Consensus size: 23
24499020 AAGTGTGATT
*
24499030 AAAAGAGGAAGAAAATAGAAAAG
1 AAAAGAGAAAGAAAATAGAAAAG
*
24499053 AAAAGAGAAAG-AAATAAGAAATG
1 AAAAGAGAAAGAAAAT-AGAAAAG
* * * *
24499076 AATGAGAAAAAGAAAAGAGAAAGG
1 AA-AAGAGAAAGAAAATAGAAAAG
24499100 AAA
1 AAA
24499103 GATGAGAGGC
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
22 4 0.10
23 18 0.45
24 15 0.38
25 3 0.08
ACGTcount: A:0.70, C:0.00, G:0.25, T:0.05
Consensus pattern (23 bp):
AAAAGAGAAAGAAAATAGAAAAG
Found at i:24499587 original size:3 final size:3
Alignment explanation
Indices: 24499579--24499616 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
24499569 GCAATTTCTT
24499579 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
24499617 TAATATTAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:24500914 original size:20 final size:21
Alignment explanation
Indices: 24500891--24500929 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
24500881 TTATTAAATA
24500891 AATAAAAATA-TTATTTTTTC
1 AATAAAAATATTTATTTTTTC
*
24500911 AATAAAATTATTTATTTTT
1 AATAAAAATATTTATTTTT
24500930 AACTTTGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (21 bp):
AATAAAAATATTTATTTTTTC
Found at i:24503185 original size:38 final size:38
Alignment explanation
Indices: 24503135--24503224 Score: 103
Period size: 38 Copynumber: 2.4 Consensus size: 38
24503125 TTGGAATTAA
* * *
24503135 TTATTTTTATGTTTATATTTGTATTTAATTA-A-TTATGT
1 TTATATTTATGTTTATA-TT-TAATTAATTATATTTATGC
*
24503173 TTATATTTATGTTTGTATTTAATTAATTATATTTATGC
1 TTATATTTATGTTTATATTTAATTAATTATATTTATGC
*
24503211 TTATGTTTATGTTT
1 TTATATTTATGTTT
24503225 GGGGTATAGG
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
36 9 0.20
37 3 0.07
38 33 0.73
ACGTcount: A:0.26, C:0.01, G:0.09, T:0.64
Consensus pattern (38 bp):
TTATATTTATGTTTATATTTAATTAATTATATTTATGC
Found at i:24503215 original size:32 final size:32
Alignment explanation
Indices: 24503129--24503218 Score: 135
Period size: 32 Copynumber: 2.8 Consensus size: 32
24503119 ATGAATTTGG
* *
24503129 AATTAATTATTTTTATGTTTATATTTGTATTT
1 AATTAATTATATTTATGTTTATGTTTGTATTT
* *
24503161 AATTAATTATGTTTATATTTATGTTTGTATTT
1 AATTAATTATATTTATGTTTATGTTTGTATTT
*
24503193 AATTAATTATATTTATGCTTATGTTT
1 AATTAATTATATTTATGTTTATGTTT
24503219 ATGTTTGGGG
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 52 1.00
ACGTcount: A:0.29, C:0.01, G:0.08, T:0.62
Consensus pattern (32 bp):
AATTAATTATATTTATGTTTATGTTTGTATTT
Found at i:24503348 original size:7 final size:7
Alignment explanation
Indices: 24503309--24503419 Score: 75
Period size: 7 Copynumber: 15.7 Consensus size: 7
24503299 TACTACACAA
24503309 TTAAACC
1 TTAAACC
*
24503316 TCAAACC
1 TTAAACC
*
24503323 TTATACC
1 TTAAACC
** *
24503330 CAAAATC
1 TTAAACC
24503337 TTAAACC
1 TTAAACC
24503344 TTAAACAC
1 TTAAAC-C
*
24503352 -GAAACC
1 TTAAACC
*
24503358 TTAAATC
1 TTAAACC
24503365 TTAAACC
1 TTAAACC
24503372 TTAAACCC
1 TTAAA-CC
24503380 TTAAATCC
1 TTAAA-CC
* *
24503388 -AAAATC
1 TTAAACC
*
24503394 ATAAACC
1 TTAAACC
24503401 TTAAATCC
1 TTAAA-CC
24503409 -TAAACC
1 TTAAACC
24503415 TTAAA
1 TTAAA
24503420 TCCCAAAATT
Statistics
Matches: 78, Mismatches: 20, Indels: 12
0.71 0.18 0.11
Matches are distributed among these distances:
6 4 0.05
7 62 0.79
8 12 0.15
ACGTcount: A:0.46, C:0.27, G:0.01, T:0.26
Consensus pattern (7 bp):
TTAAACC
Found at i:24503370 original size:14 final size:14
Alignment explanation
Indices: 24503309--24503421 Score: 86
Period size: 14 Copynumber: 8.0 Consensus size: 14
24503299 TACTACACAA
* *
24503309 TTAAACCTCAAACC
1 TTAAACCTTAAATC
* **
24503323 TTATACCCAAAATC
1 TTAAACCTTAAATC
24503337 TTAAACCTTAAA-C
1 TTAAACCTTAAATC
**
24503350 ACGAAACCTTAAATC
1 -TTAAACCTTAAATC
*
24503365 TTAAACCTTAAACCC
1 TTAAACCTTAAA-TC
*
24503380 TTAAATCC-AAAATC
1 TTAAA-CCTTAAATC
*
24503394 ATAAACCTTAAATC
1 TTAAACCTTAAATC
*
24503408 CTAAACCTTAAATC
1 TTAAACCTTAAATC
24503422 CCAAAATTTT
Statistics
Matches: 77, Mismatches: 17, Indels: 10
0.74 0.16 0.10
Matches are distributed among these distances:
13 3 0.04
14 62 0.81
15 10 0.13
16 2 0.03
ACGTcount: A:0.45, C:0.27, G:0.01, T:0.27
Consensus pattern (14 bp):
TTAAACCTTAAATC
Found at i:24503422 original size:14 final size:14
Alignment explanation
Indices: 24503332--24503422 Score: 87
Period size: 14 Copynumber: 6.4 Consensus size: 14
24503322 CTTATACCCA
*
24503332 AAATCTTAAACCTT
1 AAATCCTAAACCTT
*
24503346 AAA-CACGAAACCTT
1 AAATC-CTAAACCTT
*
24503360 AAATCTTAAACCTT
1 AAATCCTAAACCTT
* *
24503374 AAACCCTTAAATCC-A
1 AAATCC-TAAA-CCTT
*
24503389 AAATCATAAACCTT
1 AAATCCTAAACCTT
24503403 AAATCCTAAACCTT
1 AAATCCTAAACCTT
24503417 AAATCC
1 AAATCC
24503423 CAAAATTTTA
Statistics
Matches: 61, Mismatches: 11, Indels: 10
0.74 0.13 0.12
Matches are distributed among these distances:
13 3 0.05
14 47 0.77
15 9 0.15
16 2 0.03
ACGTcount: A:0.46, C:0.26, G:0.01, T:0.26
Consensus pattern (14 bp):
AAATCCTAAACCTT
Found at i:24503631 original size:26 final size:26
Alignment explanation
Indices: 24503582--24503642 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
24503572 ATACAAAGAT
24503582 TAATTAATTAAATACAAACATAAAAA
1 TAATTAATTAAATACAAACATAAAAA
* ** *
24503608 TTATTAATTAAATACAAATTTAAACA
1 TAATTAATTAAATACAAACATAAAAA
24503634 TAATTAATT
1 TAATTAATT
24503643 CCAAATTCGT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (26 bp):
TAATTAATTAAATACAAACATAAAAA
Found at i:24514322 original size:22 final size:22
Alignment explanation
Indices: 24514279--24514322 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
24514269 GGTATTTTTT
* *
24514279 TAATTTTAGTCTCGGAATTTGA
1 TAATTTTAATCTCGGAACTTGA
**
24514301 TAATTTTAATCTTTGAACTTGA
1 TAATTTTAATCTCGGAACTTGA
24514323 ATTTTATTAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.30, C:0.09, G:0.14, T:0.48
Consensus pattern (22 bp):
TAATTTTAATCTCGGAACTTGA
Found at i:24516389 original size:20 final size:20
Alignment explanation
Indices: 24516364--24516402 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
24516354 GATGGAAGAG
24516364 ATTATTCCCAAGCACTAAGC
1 ATTATTCCCAAGCACTAAGC
24516384 ATTATTCCCAAGCACTAAG
1 ATTATTCCCAAGCACTAAG
24516403 TATGTATTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.28, G:0.10, T:0.26
Consensus pattern (20 bp):
ATTATTCCCAAGCACTAAGC
Found at i:24525880 original size:20 final size:20
Alignment explanation
Indices: 24525845--24525883 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
24525835 AATATGAGTG
**
24525845 ATAATGATGATGATAATAAT
1 ATAATGATGACAATAATAAT
24525865 ATAATGATGACAATAATAA
1 ATAATGATGACAATAATAA
24525884 GGAACAACAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.54, C:0.03, G:0.13, T:0.31
Consensus pattern (20 bp):
ATAATGATGACAATAATAAT
Found at i:24531484 original size:29 final size:30
Alignment explanation
Indices: 24531423--24531491 Score: 104
Period size: 30 Copynumber: 2.3 Consensus size: 30
24531413 ATTCCCAACG
* *
24531423 TACAAAGATCTTTTTTATAAAAAAAAAGCA
1 TACAAAGATCTTCTTTAGAAAAAAAAAGCA
*
24531453 TACAAAGATCTTCTTTCGAAAAAAAAA-CA
1 TACAAAGATCTTCTTTAGAAAAAAAAAGCA
24531482 TACAAAGATC
1 TACAAAGATC
24531492 CAGAATTCAA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
29 12 0.33
30 24 0.67
ACGTcount: A:0.52, C:0.14, G:0.07, T:0.26
Consensus pattern (30 bp):
TACAAAGATCTTCTTTAGAAAAAAAAAGCA
Found at i:24535087 original size:10 final size:11
Alignment explanation
Indices: 24535072--24535100 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
24535062 TTTATTATTA
24535072 TTATTTTTT-T
1 TTATTTTTTAT
24535082 TTATTTTTTAT
1 TTATTTTTTAT
24535093 TTATTTTT
1 TTATTTTT
24535101 GCAGCTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.50
11 9 0.50
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (11 bp):
TTATTTTTTAT
Found at i:24537467 original size:30 final size:28
Alignment explanation
Indices: 24537431--24537501 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 28
24537421 CAATTCAACT
24537431 TAAATTTCGAAATATAAAAAATA-AATAGAC
1 TAAATTTC-AAATAT-AAAAATACAA-AGAC
* * *
24537461 TAAATTTTTAAAAATAAAAATACGAAGAC
1 TAAA-TTTCAAATATAAAAATACAAAGAC
24537490 TAAATTTCAAAT
1 TAAATTTCAAAT
24537502 TTATAAAAGG
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
28 6 0.18
29 15 0.44
30 10 0.29
31 3 0.09
ACGTcount: A:0.58, C:0.07, G:0.06, T:0.30
Consensus pattern (28 bp):
TAAATTTCAAATATAAAAATACAAAGAC
Found at i:24538975 original size:4 final size:4
Alignment explanation
Indices: 24538966--24539023 Score: 73
Period size: 4 Copynumber: 14.2 Consensus size: 4
24538956 ATAAAAACGG
* *
24538966 GAAA GAAA GAAA GAAA GAAA G-AA GAGAG GAGAG GAAA GAAA GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GA-AA GA-AA GAAA GAAA GAAA GAAA
24539015 GAAA GAAA G
1 GAAA GAAA G
24539024 GTAATGTGTT
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
3 3 0.06
4 39 0.78
5 8 0.16
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:24542307 original size:21 final size:21
Alignment explanation
Indices: 24542281--24542327 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
24542271 TTAGGGTCCA
*
24542281 ATTGCCCCGGAGAAGTAGAGT
1 ATTGCCCCGGAGAAGTAAAGT
* *
24542302 ATTGCCCGGGAGGAGTAAAGT
1 ATTGCCCCGGAGAAGTAAAGT
24542323 ATTGC
1 ATTGC
24542328 GGTGGCTCGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.28, C:0.17, G:0.34, T:0.21
Consensus pattern (21 bp):
ATTGCCCCGGAGAAGTAAAGT
Found at i:24544301 original size:16 final size:16
Alignment explanation
Indices: 24544280--24544328 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
24544270 TGATGGGGGT
24544280 ATTATTTTGATAATTA
1 ATTATTTTGATAATTA
*
24544296 ATTATTTTTAT-ATT-
1 ATTATTTTGATAATTA
* *
24544310 A-TATTTAGCTAATTA
1 ATTATTTTGATAATTA
24544325 ATTA
1 ATTA
24544329 GCTAGGTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
13 6 0.23
14 4 0.15
15 4 0.15
16 12 0.46
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (16 bp):
ATTATTTTGATAATTA
Found at i:24544677 original size:47 final size:47
Alignment explanation
Indices: 24544626--24544771 Score: 106
Period size: 47 Copynumber: 3.1 Consensus size: 47
24544616 TTTTAAATCG
*
24544626 ATAAATATGAATAATGTTTTTTACTGACTACTACTACTAATAACAAA
1 ATAAATATGAATAATGTTTTTTACTAACTACTACTACTAATAACAAA
* * * ** *
24544673 ATAAAATTACT-AACTAAT-TTTTTTA--AAC-ATTATTAAATTTTAA-ATCA
1 AT-AAA-TA-TGAA-TAATGTTTTTTACTAACTACTACT-ACTAATAACA-AA
* * *
24544720 ATAAATATGAACAATGTTTTTTACTTACTACTACTACTAACAACAAA
1 ATAAATATGAATAATGTTTTTTACTAACTACTACTACTAATAACAAA
24544767 ATAAA
1 ATAAA
24544772 ATTACTAACT
Statistics
Matches: 71, Mismatches: 16, Indels: 24
0.64 0.14 0.22
Matches are distributed among these distances:
44 4 0.06
45 11 0.15
46 8 0.11
47 24 0.34
48 8 0.11
49 11 0.15
50 5 0.07
ACGTcount: A:0.47, C:0.12, G:0.03, T:0.38
Consensus pattern (47 bp):
ATAAATATGAATAATGTTTTTTACTAACTACTACTACTAATAACAAA
Found at i:24544695 original size:94 final size:94
Alignment explanation
Indices: 24544521--24544874 Score: 547
Period size: 94 Copynumber: 3.8 Consensus size: 94
24544511 TATATTATTT
* *
24544521 TTTTAAATCAATAAATATGAACAA-GATGTTTTACTTACTACTACTTACTAATAACAAAATAAAA
1 TTTTAAATCAATAAATATGAACAATG-TTTTTTACTTACTACTAC-TACTAACAACAAAATAAAA
24544585 TTACTAACTAATTTTTTTAAACATTATTAAA
64 TTACTAACTAATTTTTTTAAACATTATTAAA
* * * *
24544616 TTTTAAATCGATAAATATGAATAATGTTTTTTACTGACTACTACTACTAATAACAAAATAAAATT
1 TTTTAAATCAATAAATATGAACAATGTTTTTTACTTACTACTACTACTAACAACAAAATAAAATT
24544681 ACTAACTAATTTTTTTAAACATTATTAAA
66 ACTAACTAATTTTTTTAAACATTATTAAA
24544710 TTTTAAATCAATAAATATGAACAATGTTTTTTACTTACTACTACTACTAACAACAAAATAAAATT
1 TTTTAAATCAATAAATATGAACAATGTTTTTTACTTACTACTACTACTAACAACAAAATAAAATT
***
24544775 ACTAACTAGCA-AAATTTAAACATTATTAAA
66 ACTAACTA--ATTTTTTTAAACATTATTAAA
*
24544805 TTTTAAATCAATAAATATGAACAATATTTTTTACTT-C--CTACTACTAACAACAAAATAAAATT
1 TTTTAAATCAATAAATATGAACAATGTTTTTTACTTACTACTACTACTAACAACAAAATAAAATT
24544867 ACTAACTA
66 ACTAACTA
24544875 GTAAAATTAA
Statistics
Matches: 244, Mismatches: 12, Indels: 9
0.92 0.05 0.03
Matches are distributed among these distances:
92 33 0.14
94 120 0.49
95 89 0.36
96 2 0.01
ACGTcount: A:0.47, C:0.13, G:0.03, T:0.38
Consensus pattern (94 bp):
TTTTAAATCAATAAATATGAACAATGTTTTTTACTTACTACTACTACTAACAACAAAATAAAATT
ACTAACTAATTTTTTTAAACATTATTAAA
Found at i:24544795 original size:189 final size:186
Alignment explanation
Indices: 24544521--24544874 Score: 543
Period size: 189 Copynumber: 1.9 Consensus size: 186
24544511 TATATTATTT
*
24544521 TTTTAAATCAATAAATATGAACAAGATGTTTTACTTACTACTACTTACTAATAACAAAATAAAAT
1 TTTTAAATCAATAAATATGAACAAGATGTTTTACTTACTACTACTTACTAACAACAAAATAAAAT
*** * * *
24544586 TACTAACTAATTTTTTTAAACATTATTAAATTTTAAATCGATAAATATGAATAATGTTTTTTACT
66 TACTAACTAATAAATTTAAACATTATTAAATTTTAAATCAATAAATATGAACAATATTTTTTACT
*
24544651 GACTACTACTACTAATAACAAAATAAAATTACTAACTAATTTTTTTAAACATTATTAAA
131 ---TACTACTACTAACAACAAAATAAAATTACTAACTAATTTTTTTAAACATTATTAAA
*
24544710 TTTTAAATCAATAAATATGAACAATG-TTTTTTACTTACTACTAC-TACTAACAACAAAATAAAA
1 TTTTAAATCAATAAATATGAACAA-GATGTTTTACTTACTACTACTTACTAACAACAAAATAAAA
24544773 TTACTAACTAGCA-AAATTTAAACATTATTAAATTTTAAATCAATAAATATGAACAATATTTTTT
65 TTACTAACTA--ATAAATTTAAACATTATTAAATTTTAAATCAATAAATATGAACAATATTTTTT
*
24544837 ACTTCCTACTACTAACAACAAAATAAAATTACTAACTA
128 ACTTACTACTACTAACAACAAAATAAAATTACTAACTA
24544875 GTAAAATTAA
Statistics
Matches: 152, Mismatches: 10, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
186 33 0.22
188 28 0.18
189 89 0.59
190 2 0.01
ACGTcount: A:0.47, C:0.13, G:0.03, T:0.38
Consensus pattern (186 bp):
TTTTAAATCAATAAATATGAACAAGATGTTTTACTTACTACTACTTACTAACAACAAAATAAAAT
TACTAACTAATAAATTTAAACATTATTAAATTTTAAATCAATAAATATGAACAATATTTTTTACT
TACTACTACTAACAACAAAATAAAATTACTAACTAATTTTTTTAAACATTATTAAA
Found at i:24551128 original size:20 final size:20
Alignment explanation
Indices: 24551100--24551140 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
24551090 CTCTAATTAG
*
24551100 AATCTCTAAAAATCAGCTAT
1 AATCCCTAAAAATCAGCTAT
* *
24551120 AATCCCTAAAGATTAGCTAT
1 AATCCCTAAAAATCAGCTAT
24551140 A
1 A
24551141 TAATGCTGTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.20, G:0.07, T:0.29
Consensus pattern (20 bp):
AATCCCTAAAAATCAGCTAT
Found at i:24551591 original size:14 final size:14
Alignment explanation
Indices: 24551572--24551602 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
24551562 TCAAGTGACT
24551572 AAGTTTACTCCCAC
1 AAGTTTACTCCCAC
24551586 AAGTTTACTCCCAC
1 AAGTTTACTCCCAC
24551600 AAG
1 AAG
24551603 AGTACAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.32, C:0.32, G:0.10, T:0.26
Consensus pattern (14 bp):
AAGTTTACTCCCAC
Found at i:24559238 original size:29 final size:24
Alignment explanation
Indices: 24559165--24559225 Score: 104
Period size: 24 Copynumber: 2.5 Consensus size: 24
24559155 TTATATATTA
*
24559165 AATATACAAATAATTATATTAATTT
1 AATATAAAAAT-ATTATATTAATTT
24559190 AATATAAAAATATTATATTAATTT
1 AATATAAAAATATTATATTAATTT
24559214 AATATAAAAATA
1 AATATAAAAATA
24559226 AATGTAAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
24 25 0.71
25 10 0.29
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (24 bp):
AATATAAAAATATTATATTAATTT
Found at i:24564429 original size:13 final size:13
Alignment explanation
Indices: 24564408--24564473 Score: 51
Period size: 13 Copynumber: 5.1 Consensus size: 13
24564398 CTTAAACCAA
* *
24564408 ACTTTTCAAAAGT
1 ACTTCTCAAAAGC
24564421 ACTTCTCAAAAGC
1 ACTTCTCAAAAGC
* * *
24564434 ACTTTTCCACAGC
1 ACTTCTCAAAAGC
* * *
24564447 ATTTTTTAAAAGC
1 ACTTCTCAAAAGC
*
24564460 ACTTTTCAAAAGC
1 ACTTCTCAAAAGC
24564473 A
1 A
24564474 ATGCTAAACT
Statistics
Matches: 42, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
13 42 1.00
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.33
Consensus pattern (13 bp):
ACTTCTCAAAAGC
Found at i:24564473 original size:26 final size:26
Alignment explanation
Indices: 24564408--24564473 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
24564398 CTTAAACCAA
*
24564408 ACTTTTCAAAAGTACTTCTCAAAAGC
1 ACTTTTCAAAAGCACTTCTCAAAAGC
* * * * *
24564434 ACTTTTCCACAGCATTTTTTAAAAGC
1 ACTTTTCAAAAGCACTTCTCAAAAGC
24564460 ACTTTTCAAAAGCA
1 ACTTTTCAAAAGCA
24564474 ATGCTAAACT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.33
Consensus pattern (26 bp):
ACTTTTCAAAAGCACTTCTCAAAAGC
Found at i:24568323 original size:6 final size:6
Alignment explanation
Indices: 24568293--24568359 Score: 65
Period size: 6 Copynumber: 12.0 Consensus size: 6
24568283 TTTTTATAAG
* *
24568293 TTTAAA -TTAAT TTTAAA TTT-TA TTTAAA TTTAAA TTT--A TCTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA
24568338 TTTAAA TTT-AA -TTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA
24568360 ATGATATTAA
Statistics
Matches: 50, Mismatches: 4, Indels: 14
0.74 0.06 0.21
Matches are distributed among these distances:
4 4 0.08
5 14 0.28
6 30 0.60
7 2 0.04
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:24568350 original size:11 final size:11
Alignment explanation
Indices: 24568293--24568358 Score: 64
Period size: 11 Copynumber: 6.0 Consensus size: 11
24568283 TTTTTATAAG
24568293 TTTAAA-TTAA
1 TTTAAATTTAA
*
24568303 TTTTAAATTTTA
1 -TTTAAATTTAA
24568315 TTTAAATTTAAA
1 TTTAAATTT-AA
** *
24568327 TTTATCTTAAA
1 TTTAAATTTAA
24568338 TTTAAATTTAA
1 TTTAAATTTAA
24568349 -TTAAATTTAA
1 TTTAAATTTAA
24568359 AATGATATTA
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
10 10 0.22
11 25 0.56
12 10 0.22
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (11 bp):
TTTAAATTTAA
Found at i:24568368 original size:17 final size:17
Alignment explanation
Indices: 24568293--24568375 Score: 89
Period size: 17 Copynumber: 4.9 Consensus size: 17
24568283 TTTTTATAAG
* *
24568293 TTTAAATTAATTTTAAA
1 TTTATATTAAATTTAAA
24568310 TTT-TATTTAAATTTAAA
1 TTTATA-TTAAATTTAAA
*
24568327 TTTATCTTAAATTTAAA
1 TTTATATTAAATTTAAA
24568344 TTTA-ATTAAATTTAAA
1 TTTATATTAAATTTAAA
* * *
24568360 ATGATATTAAAATTAA
1 TTTATATTAAATTTAA
24568376 TAAATTAAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
16 14 0.25
17 41 0.73
18 1 0.02
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (17 bp):
TTTATATTAAATTTAAA
Found at i:24569167 original size:3 final size:3
Alignment explanation
Indices: 24569159--24569202 Score: 79
Period size: 3 Copynumber: 14.3 Consensus size: 3
24569149 TTAGTAATTT
24569159 TAA TAA TAA TAA TAAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
24569203 TTGTAATATT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 37 0.93
4 3 0.08
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:24569457 original size:21 final size:21
Alignment explanation
Indices: 24569433--24569472 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
24569423 CGAAAAACAA
24569433 GTTTGATTGTTAAA-AAAAATG
1 GTTTG-TTGTTAAATAAAAATG
*
24569454 GTTTGTTTTTAAATAAAAA
1 GTTTGTTGTTAAATAAAAA
24569473 AGGGAAAGGG
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:0.42, C:0.00, G:0.15, T:0.42
Consensus pattern (21 bp):
GTTTGTTGTTAAATAAAAATG
Found at i:24570410 original size:59 final size:59
Alignment explanation
Indices: 24570341--24570490 Score: 239
Period size: 59 Copynumber: 2.6 Consensus size: 59
24570331 TTACATTCTG
* * *
24570341 ACCCCAATTTCACCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTA
1 ACCCCGATTTCACCAAAAATTACCATTTTACCCCCAAACTCTCCAAAATTCCATTTTTA
* *
24570400 ACCCCGATTTCACCAAAAACTACCATTTTGCCCCCAAACTCTCCAAAATTCCATTTTTA
1 ACCCCGATTTCACCAAAAATTACCATTTTACCCCCAAACTCTCCAAAATTCCATTTTTA
*
24570459 ACCCCGATTTCATC-AAAATTACCATTTTACCC
1 ACCCCGATTTCACCAAAAATTACCATTTTACCC
24570491 TCGGGTATCC
Statistics
Matches: 83, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
58 16 0.19
59 67 0.81
ACGTcount: A:0.33, C:0.34, G:0.03, T:0.31
Consensus pattern (59 bp):
ACCCCGATTTCACCAAAAATTACCATTTTACCCCCAAACTCTCCAAAATTCCATTTTTA
Found at i:24570486 original size:30 final size:30
Alignment explanation
Indices: 24570341--24570486 Score: 124
Period size: 29 Copynumber: 4.9 Consensus size: 30
24570331 TTACATTCTG
*
24570341 ACCCCAATTTCACCAAAAATTACCA-TTTTA
1 ACCCCGATTTCACC-AAAATTACCATTTTTA
*
24570371 CCCCCGAACTTT--CCAAAATT-CCATTTTTA
1 ACCCCG-A-TTTCACCAAAATTACCATTTTTA
* *
24570400 ACCCCGATTTCACCAAAAACTACCA-TTTTG
1 ACCCCGATTTCACC-AAAATTACCATTTTTA
* * ** *
24570430 CCCCCAAACTCTCCAAAATT-CCATTTTTA
1 ACCCCGATTTCACCAAAATTACCATTTTTA
*
24570459 ACCCCGATTTCATCAAAATTACCATTTT
1 ACCCCGATTTCACCAAAATTACCATTTT
24570487 ACCCTCGGGT
Statistics
Matches: 89, Mismatches: 18, Indels: 18
0.71 0.14 0.14
Matches are distributed among these distances:
27 3 0.03
28 7 0.08
29 41 0.46
30 31 0.35
31 4 0.04
32 3 0.03
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.32
Consensus pattern (30 bp):
ACCCCGATTTCACCAAAATTACCATTTTTA
Found at i:24570530 original size:58 final size:58
Alignment explanation
Indices: 24570341--24570528 Score: 225
Period size: 59 Copynumber: 3.2 Consensus size: 58
24570331 TTACATTCTG
* *
24570341 ACCCCAATTTCACCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTA
1 ACCCCGATTTCACCAAAAATTACCATTTTACCCCCG-ACTATCCAAAATTCCATTTTTA
* * * *
24570400 ACCCCGATTTCACCAAAAACTACCATTTTGCCCCCAAACTCTCCAAAATTCCATTTTTA
1 ACCCCGATTTCACCAAAAATTACCATTTTACCCCC-GACTATCCAAAATTCCATTTTTA
* * ** * * *
24570459 ACCCCGATTTCATC-AAAATTACCATTTTACCCTCGGGTATCCAAAAGTCTCGTTTTCA
1 ACCCCGATTTCACCAAAAATTACCATTTTACCCCCGACTATCCAAAATTC-CATTTTTA
24570517 ACCCCGATTTCA
1 ACCCCGATTTCA
24570529 TCGTTTCTTC
Statistics
Matches: 111, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
57 10 0.09
58 35 0.32
59 66 0.59
ACGTcount: A:0.31, C:0.33, G:0.05, T:0.31
Consensus pattern (58 bp):
ACCCCGATTTCACCAAAAATTACCATTTTACCCCCGACTATCCAAAATTCCATTTTTA
Found at i:24579970 original size:30 final size:29
Alignment explanation
Indices: 24579943--24580341 Score: 380
Period size: 30 Copynumber: 13.4 Consensus size: 29
24579933 ATCGGGGTTA
*
24579943 AAAATGGAATTTTGGAAAGTTTAGGGGT-
1 AAAATGTAATTTTGGAAAGTTTAGGGGTC
* * * *
24579971 AAAATGGTAATTTTTGAAAAG-TTCGAGGTT
1 AAAAT-GTAA-TTTTGGAAAGTTTAGGGGTC
* * *
24580001 AAAATATGATTTTGGAAAAGTTTTGGGGTC
1 AAAATGTAATTTTGG-AAAGTTTAGGGGTC
*
24580031 AAAATGTAATTTTGGAAAAGTTT-GGGGTT
1 AAAATGTAATTTTGG-AAAGTTTAGGGGTC
24580060 AAAATGTAATTTTGGAAAAGTTTTA-GGGTC
1 AAAATGTAATTTTGG-AAAG-TTTAGGGGTC
*
24580090 AAAATGTAATTTTGGAAATGGTTT-GAGGTC
1 AAAATGTAATTTTGGAAA--GTTTAGGGGTC
* * *
24580120 AAAATGTAATTTTTAGAAAGTTTCGGGGTT
1 AAAATGTAA-TTTTGGAAAGTTTAGGGGTC
* *
24580150 AAAATATAATTTTGGAAAAGTTTTGGGGTC
1 AAAATGTAATTTTGG-AAAGTTTAGGGGTC
*
24580180 AAAATGTAATTTTGAGAAAGTTTCA-GGGTT
1 AAAATGTAATTTTG-GAAAGTTT-AGGGGTC
*
24580210 AAAATATAATTTTGGAAAAGTTTTA-GGGTC
1 AAAATGTAATTTTGG-AAAG-TTTAGGGGTC
** *
24580240 AAAATGTAATTTTCAAAAAGTTTCGGGGTC
1 AAAATGTAATTTT-GGAAAGTTTAGGGGTC
* *
24580270 AAAATATAATTTTAGGAAAGTTTTGGGGTC
1 AAAATGTAATTTT-GGAAAGTTTAGGGGTC
* *
24580300 AAAATGTAATTTTGGGAAAGTTTTGAGGTC
1 AAAATGTAATTTT-GGAAAGTTTAGGGGTC
24580330 AAAATGTAATTT
1 AAAATGTAATTT
24580342 ATCGACAAAT
Statistics
Matches: 313, Mismatches: 39, Indels: 36
0.81 0.10 0.09
Matches are distributed among these distances:
28 10 0.03
29 56 0.18
30 234 0.75
31 13 0.04
ACGTcount: A:0.36, C:0.03, G:0.24, T:0.37
Consensus pattern (29 bp):
AAAATGTAATTTTGGAAAGTTTAGGGGTC
Found at i:24580183 original size:90 final size:88
Alignment explanation
Indices: 24579943--24580341 Score: 437
Period size: 90 Copynumber: 4.5 Consensus size: 88
24579933 ATCGGGGTTA
* * * * *
24579943 AAAATGGAATTTTGGAAAGTTTAGGGG-TAAAATGGTAATTTTTGAAAAG-TTCGAGGTTAAAAT
1 AAAATGTAATTTTGGAAAGTTTTGGGGTTAAAAT-GTAATTTTGGAAAAGTTTCGGGGTCAAAAT
* * *
24580006 ATGATTTTGGAAAAGTTTTGGGGTC
65 ATAATTTTGG-AAAGGTTTGAGGTC
**
24580031 AAAATGTAATTTTGGAAAAG-TTTGGGGTTAAAATGTAATTTTGGAAAAGTTTTAGGGTCAAAAT
1 AAAATGTAATTTTGG-AAAGTTTTGGGGTTAAAATGTAATTTTGGAAAAGTTTCGGGGTCAAAAT
*
24580095 GTAATTTTGGAAATGGTTTGAGGTC
65 ATAATTTTGGAAA-GGTTTGAGGTC
* * * *
24580120 AAAATGTAATTTTTAGAAAGTTTCGGGGTTAAAATATAATTTTGGAAAAGTTTTGGGGTCAAAAT
1 AAAATGTAA-TTTTGGAAAGTTTTGGGGTTAAAATGTAATTTTGGAAAAGTTTCGGGGTCAAAAT
* * *
24580185 GTAATTTTGAGAAA-GTTTCAGGGTT
65 ATAATTTTG-GAAAGGTTTGA-GGTC
* * * **
24580210 AAAATATAATTTTGGAAAAGTTTTAGGGTCAAAATGTAATTTTCAAAAAGTTTCGGGGTCAAAAT
1 AAAATGTAATTTTGG-AAAGTTTTGGGGTTAAAATGTAATTTTGGAAAAGTTTCGGGGTCAAAAT
* *
24580275 ATAATTTTAGGAAAGTTTTGGGGTC
65 ATAATTTT-GGAAAGGTTTGAGGTC
* *
24580300 AAAATGTAATTTTGGGAAAGTTTTGAGGTCAAAATGTAATTT
1 AAAATGTAATTTT-GGAAAGTTTTGGGGTTAAAATGTAATTT
24580342 ATCGACAAAT
Statistics
Matches: 265, Mismatches: 34, Indels: 22
0.83 0.11 0.07
Matches are distributed among these distances:
88 37 0.14
89 60 0.23
90 158 0.60
91 10 0.04
ACGTcount: A:0.36, C:0.03, G:0.24, T:0.37
Consensus pattern (88 bp):
AAAATGTAATTTTGGAAAGTTTTGGGGTTAAAATGTAATTTTGGAAAAGTTTCGGGGTCAAAATA
TAATTTTGGAAAGGTTTGAGGTC
Found at i:24582192 original size:11 final size:11
Alignment explanation
Indices: 24582172--24582258 Score: 68
Period size: 11 Copynumber: 7.5 Consensus size: 11
24582162 TGTTTAGTAT
*
24582172 TTTAATTTTAA
1 TTTAAATTTAA
24582183 TTTAAATTTAAA
1 TTTAAATTT-AA
* *
24582195 TTTAAAGTAAA
1 TTTAAATTTAA
24582206 TTTAAATAATTAAA
1 TTTAAAT--TT-AA
24582220 TTTAAATTTAA
1 TTTAAATTTAA
**
24582231 GATAAATTTAAA
1 TTTAAATTT-AA
*
24582243 TTTAAA-TAAA
1 TTTAAATTTAA
24582253 TTTAAA
1 TTTAAA
24582259 ATCAATTTAT
Statistics
Matches: 61, Mismatches: 10, Indels: 11
0.74 0.12 0.13
Matches are distributed among these distances:
10 8 0.13
11 26 0.43
12 17 0.28
13 1 0.02
14 9 0.15
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (11 bp):
TTTAAATTTAA
Found at i:24582198 original size:6 final size:6
Alignment explanation
Indices: 24582170--24582258 Score: 89
Period size: 6 Copynumber: 15.2 Consensus size: 6
24582160 AATGTTTAGT
* * *
24582170 ATTTTA ATTTTA ATTTAA ATTTAA ATTTAA A-GTAA ATTTAA ATAATTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA AT--TTAA
24582219 ATTTAA ATTTAA GA--TAA ATTTAA ATTTAA A--TAA ATTTAA A
1 ATTTAA ATTTAA -ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA A
24582259 ATCAATTTAT
Statistics
Matches: 72, Mismatches: 3, Indels: 16
0.79 0.03 0.18
Matches are distributed among these distances:
4 5 0.07
5 7 0.10
6 53 0.74
7 1 0.01
8 6 0.08
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (6 bp):
ATTTAA
Found at i:24582222 original size:31 final size:32
Alignment explanation
Indices: 24582179--24582258 Score: 110
Period size: 31 Copynumber: 2.5 Consensus size: 32
24582169 TATTTTAATT
24582179 TTAATTTAAATTTAAATTTAA-AGTAAATTTAAA
1 TTAA-TTAAATTTAAATTTAAGA-TAAATTTAAA
24582212 -TAATTAAATTTAAATTTAAGATAAATTTAAA
1 TTAATTAAATTTAAATTTAAGATAAATTTAAA
*
24582243 TTTAAATAAATTTAAA
1 -TTAATTAAATTTAAA
24582259 ATCAATTTAT
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
31 26 0.60
32 4 0.09
33 13 0.30
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (32 bp):
TTAATTAAATTTAAATTTAAGATAAATTTAAA
Found at i:24582227 original size:37 final size:37
Alignment explanation
Indices: 24582181--24582251 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
24582171 TTTTAATTTT
24582181 AATTTAAATTTAA-ATTTAAA-GTAAATTTAAATAATTA
1 AATTTAAATTTAAGA--TAAATGTAAATTTAAATAATTA
*
24582218 AATTTAAATTTAAGATAAATTTAAATTTAAATAA
1 AATTTAAATTTAAGATAAATGTAAATTTAAATAA
24582252 ATTTAAAATC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
36 4 0.13
37 26 0.84
38 1 0.03
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (37 bp):
AATTTAAATTTAAGATAAATGTAAATTTAAATAATTA
Found at i:24582260 original size:11 final size:11
Alignment explanation
Indices: 24582181--24582267 Score: 50
Period size: 11 Copynumber: 7.5 Consensus size: 11
24582171 TTTTAATTTT
*
24582181 AATTTAAATTTA
1 AATTTAAA-ATA
*
24582193 AATTTAAAGTA
1 AATTTAAAATA
24582204 AATTTAAATAATTA
1 AATTT-AA-AA-TA
* *
24582218 AATTTAAATTT
1 AATTTAAAATA
** *
24582229 AAGATAAATTTA
1 AATTTAAA-ATA
24582241 AATTT-AAATA
1 AATTTAAAATA
*
24582251 AATTTAAAATC
1 AATTTAAAATA
24582262 AATTTA
1 AATTTA
24582268 TCTCCAAATT
Statistics
Matches: 59, Mismatches: 11, Indels: 11
0.73 0.14 0.14
Matches are distributed among these distances:
10 7 0.12
11 26 0.44
12 16 0.27
13 3 0.05
14 7 0.12
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.43
Consensus pattern (11 bp):
AATTTAAAATA
Found at i:24582260 original size:17 final size:16
Alignment explanation
Indices: 24582185--24582258 Score: 107
Period size: 17 Copynumber: 4.6 Consensus size: 16
24582175 AATTTTAATT
24582185 TAAATTTAAATTTAAA
1 TAAATTTAAATTTAAA
*
24582201 GTAAATTTAAA--TAAT
1 -TAAATTTAAATTTAAA
24582216 TAAATTTAAATTTAAGA
1 TAAATTTAAATTTAA-A
24582233 TAAATTTAAATTTAAA
1 TAAATTTAAATTTAAA
24582249 TAAATTTAAA
1 TAAATTTAAA
24582259 ATCAATTTAT
Statistics
Matches: 52, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
14 10 0.19
15 3 0.06
16 14 0.27
17 25 0.48
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (16 bp):
TAAATTTAAATTTAAA
Found at i:24585928 original size:76 final size:76
Alignment explanation
Indices: 24585826--24586739 Score: 1442
Period size: 76 Copynumber: 12.0 Consensus size: 76
24585816 ATCAGACCGC
* *
24585826 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTGATATCTGAA
1 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
24585891 ATTGAAGTAAG
66 ATTGAAGTAAG
* * *
24585902 AGCAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGTA
1 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
24585966 ATTGAAGTAAG
66 ATTGAAGTAAG
* * * *
24585977 AGCAAGATCGTTTCCCATTCTCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAA
1 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
24586041 ATTGAAGTAAG
66 ATTGAAGTAAG
* *
24586052 AGCAACG-TCATTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGA
1 AGCAA-GATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGA
24586116 AATTGAAGTAAG
65 AATTGAAGTAAG
*
24586128 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAA
1 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
24586193 ATTGAAGTAAG
66 ATTGAAGTAAG
24586204 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
1 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
*
24586269 ATTGAAGTAGG
66 ATTGAAGTAAG
* * * *
24586280 AGCAAGATCGTTTCCCATTCTCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAA
1 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
24586344 ATTGAAGTAAG
66 ATTGAAGTAAG
* * * * *
24586355 AGCAAGATCTTTTCATATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGACTTTATCTCTGAA
1 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
24586420 ATTGAAGTAAG
66 ATTGAAGTAAG
*
24586431 AGCAACG-TCATTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGA
1 AGCAA-GATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGA
*
24586495 AATTGAAGCAAG
65 AATTGAAGTAAG
* * *
24586507 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATATCAATTCTTTATCTCTGAA
1 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
24586572 ATTGAAGTAAG
66 ATTGAAGTAAG
24586583 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
1 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
*
24586648 ATTTAAGTAAG
66 ATTGAAGTAAG
* * * * * * *
24586659 AGCAAGATCGTTTCCCATTCTCTCGAAATTGAAATAAAGTTGGATAGCAAGTCTTTATCTCTCTG
1 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTA--TCTCTG
24586724 AAATTGAAGTAAG
64 AAATTGAAGTAAG
24586737 AGC
1 AGC
24586740 TGGACGAAGC
Statistics
Matches: 779, Mismatches: 51, Indels: 14
0.92 0.06 0.02
Matches are distributed among these distances:
75 206 0.26
76 551 0.71
77 1 0.00
78 21 0.03
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (76 bp):
AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
ATTGAAGTAAG
Found at i:24586376 original size:303 final size:303
Alignment explanation
Indices: 24585826--24586739 Score: 1501
Period size: 303 Copynumber: 3.0 Consensus size: 303
24585816 ATCAGACCGC
* *
24585826 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTGATATCTGAA
1 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
* *
24585891 ATTGAAGTAAGAGCAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAGAG-TGGATAACACGTCT
66 ATTGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCT
*
24585955 TTATCTCTGTAATTGAAGTAAGAGCAAGATCGTTTCCCATTCTCTTGAAATTGAAGTAGAGTGGA
131 TTATCTCTGAAATTGAAGTAAGAGCAAGATCGTTTCCCATTCTCTTGAAATTGAAGTAGAGTGGA
24586020 TAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACG-TCATTTCCTATCCGCTTGAAATTGA
196 TAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA-GATCATTTCCTATCCGCTTGAAATTGA
24586084 AGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAG
260 AGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAG
*
24586128 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAA
1 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
24586193 ATTGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCT
66 ATTGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCT
*
24586258 TTATCTCTGAAATTGAAGTAGGAGCAAGATCGTTTCCCATTCTCTTGAAATTGAAGTAGAGTGGA
131 TTATCTCTGAAATTGAAGTAAGAGCAAGATCGTTTCCCATTCTCTTGAAATTGAAGTAGAGTGGA
* *
24586323 TAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCTTTTCATATCCGCTTGAAATTGAA
196 TAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCATTTCCTATCCGCTTGAAATTGAA
*
24586388 GTAGAGTTGGATAACACGACTTTATCTCTGAAATTGAAGTAAG
261 GTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAG
*
24586431 AGCAACG-TCATTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGA
1 AGCAA-GATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGA
* * * *
24586495 AATTGAAGCAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATATCAATTC
65 AATTGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTC
* * *
24586560 TTTATCTCTGAAATTGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTG
130 TTTATCTCTGAAATTGAAGTAAGAGCAAGATCGTTTCCCATTCTCTTGAAATTGAAGTAGAG-TG
* * * * * * *
24586625 GATAACAAGTCTTTATCTCTGAAATTTAAGTAAGAGCAAGATCGTTTCCCATTCTCTCGAAATTG
194 GATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCATTTCCTATCCGCTTGAAATTG
* * * *
24586690 AAATAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAATTGAAGTAAG
259 AAGTAGAGTTGGATAACACGTCTTTA--TCTCTGAAATTGAAGTAAG
24586737 AGC
1 AGC
24586740 TGGACGAAGC
Statistics
Matches: 573, Mismatches: 33, Indels: 8
0.93 0.05 0.01
Matches are distributed among these distances:
302 112 0.20
303 358 0.62
304 81 0.14
306 22 0.04
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (303 bp):
AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
ATTGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCT
TTATCTCTGAAATTGAAGTAAGAGCAAGATCGTTTCCCATTCTCTTGAAATTGAAGTAGAGTGGA
TAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCATTTCCTATCCGCTTGAAATTGAA
GTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAG
Found at i:24587098 original size:6 final size:6
Alignment explanation
Indices: 24587089--24587133 Score: 51
Period size: 6 Copynumber: 8.0 Consensus size: 6
24587079 TTTTGATTTT
* *
24587089 TTTAAG TTTAAA -TTAAT TTTAAA TTTAAA TTT-AA -TTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
24587134 ATGATATTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
4 2 0.06
5 8 0.24
6 23 0.70
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (6 bp):
TTTAAA
Found at i:24587109 original size:11 final size:11
Alignment explanation
Indices: 24587090--24587133 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
24587080 TTTGATTTTT
*
24587090 TTAAGTTTAAA
1 TTAAATTTAAA
*
24587101 TTAATTTTAAA
1 TTAAATTTAAA
24587112 TTTAAATTT-AA
1 -TTAAATTTAAA
24587123 TTAAATTTAAA
1 TTAAATTTAAA
24587134 ATGATATTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 8 0.28
11 14 0.48
12 7 0.24
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (11 bp):
TTAAATTTAAA
Found at i:24587110 original size:17 final size:18
Alignment explanation
Indices: 24587088--24587133 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
24587078 CTTTTGATTT
*
24587088 TTTTAAGTTTAAA-TTAA
1 TTTTAAATTTAAATTTAA
24587105 TTTTAAATTTAAATTTAA
1 TTTTAAATTTAAATTTAA
24587123 --TTAAATTTAAA
1 TTTTAAATTTAAA
24587134 ATGATATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 11 0.41
17 12 0.44
18 4 0.15
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (18 bp):
TTTTAAATTTAAATTTAA
Found at i:24587135 original size:23 final size:23
Alignment explanation
Indices: 24587089--24587135 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
24587079 TTTTGATTTT
* *
24587089 TTTAAGTTTAAATTAATTTTAAA
1 TTTAAATTTAAATTAATTTAAAA
24587112 TTTAAATTT-AATTAAATTTAAAA
1 TTTAAATTTAAATT-AATTTAAAA
24587135 T
1 T
24587136 GATATTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (23 bp):
TTTAAATTTAAATTAATTTAAAA
Found at i:24587142 original size:17 final size:16
Alignment explanation
Indices: 24587107--24587149 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
24587097 TAAATTAATT
* *
24587107 TTAAATTTAAATTTAA
1 TTAAATTTAAAATGAA
24587123 TTAAATTTAAAATGATA
1 TTAAATTTAAAATGA-A
*
24587140 TTAAAATTAA
1 TTAAATTTAA
24587150 TAAATTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 13 0.57
17 10 0.43
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (16 bp):
TTAAATTTAAAATGAA
Found at i:24588194 original size:20 final size:19
Alignment explanation
Indices: 24588169--24588217 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 19
24588159 AGAAGGGGCG
24588169 AAAAAAAGTTTGATTGTTAA
1 AAAAAAAGTTTG-TTGTTAA
* *
24588189 AAAAAATGGTTTGTTTTTAA
1 AAAAAA-AGTTTGTTGTTAA
24588209 ATAAAAAAG
1 A-AAAAAAG
24588218 GGGAAAGGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 14 0.58
21 10 0.42
ACGTcount: A:0.51, C:0.00, G:0.14, T:0.35
Consensus pattern (19 bp):
AAAAAAAGTTTGTTGTTAA
Found at i:24589356 original size:451 final size:452
Alignment explanation
Indices: 24588505--24589382 Score: 1526
Period size: 451 Copynumber: 1.9 Consensus size: 452
24588495 CGGAGTTGGT
24588505 AGGAAATGGTTTTTGAAATGAAAATGAAATTTTTTTAGAAAAAAGAAACCTTTAATTAACATTTA
1 AGGAAATGGTTTTTGAAATGAAAATGAAATTTTTTTAGAAAAAAGAAACCTTTAATTAACATTTA
* *
24588570 TACTTACCCATTAAACCGACCCGGTTCGACCCGAACCCGCCTCAGGATCCGCGCGTTTTTTATAA
66 TACATACCCATTAAACCGACCCGGTTCGACCCGAACCCGCCTCAGGATCCGCGCGTTCTTTATAA
* *
24588635 ATGGTTTAATTACGTTCTTGGTCCTTTCGCTTTTTTATTTGTTTCAATTTAGTCCTTTTTGTTTT
131 ATGGTCTAATTACGTTCTTGGTCCTTCCGCTTTTTTATTTGTTTCAATTTAGTCC----T-TTTT
*
24588700 TTTAATTATTTGCAATTTTGCCCAATAATTTTGATTGGTTTTCAATTTAATCCTTTGACTGTTTG
191 TTAAATTATTTGCAATTTTGCCCAATAATTTTGATTGGTTTTCAATTTAATCCTTTGACTGTTTG
* *
24588765 ACTGCACCAGAGGCTGCCATGTGTCACTTTTTGGCTTATTTATGCATTTAATCCTTGACATTTTT
256 ACTGCACCAGAGGCTGCCACGTGTCACTTTTTGGCTTATTTATGCATTTAATCCCTGACATTTTT
* *
24588830 AATTTATTTTAATTTAATCCCTAAATTAACTTTTATTTAATTACAAAATTGGCCCAATAATTTTC
321 AATTTATTTTAATTTAATCCCTAAATCAACTTTTATTTAATTACAAAATTGGCCCAAGAATTTTC
* *
24588895 CAAAATTTACAATTTAGTCCCTTGACTGTTGGATGCCGGCCATGGGACATTTGAGAGAAAAAAGA
386 CAAAATTTACAATTTAGTCCATTGACTGCTGGATGCCGGCCATGGGACATTTGAGAGAAAAAAGA
24588960 GA
451 GA
24588962 AGGAAATGGTTTTTGAAATGAAAATGAAATTTTTTTAGAAAAAAGAAACCTTTAATTAACATTTA
1 AGGAAATGGTTTTTGAAATGAAAATGAAATTTTTTTAGAAAAAAGAAACCTTTAATTAACATTTA
24589027 TACATACCCATTAAACCGACCCGG-TCTGACCCGAACCCGCCTCAGGATCCGCGCGTTCTTTATA
66 TACATACCCATTAAACCGACCCGGTTC-GACCCGAACCCGCCTCAGGATCCGCGCGTTCTTTATA
*
24589091 AATGGTCTAATTACGTTTTTGGTCCTTCCGCTTTTTTATTTGTTTCAATTTAGTCC-TTTTTTAA
130 AATGGTCTAATTACGTTCTTGGTCCTTCCGCTTTTTTATTTGTTTCAATTTAGTCCTTTTTTTAA
*
24589155 ATTATTTGCAATTTTGCCCAGTAATTTTGATTGGTTTTCAATTTAATCCTTTGACTGTTTGACTG
195 ATTATTTGCAATTTTGCCCAATAATTTTGATTGGTTTTCAATTTAATCCTTTGACTGTTTGACTG
* *
24589220 TACCAGAGGCTGCCACGTGTCACTTTTTGGCTTATTTATGCATTTAGTCCCTGACATTTTTAATT
260 CACCAGAGGCTGCCACGTGTCACTTTTTGGCTTATTTATGCATTTAATCCCTGACATTTTTAATT
* * *
24589285 TGTTTTAATTTAATCCCTAAATCAACTTTTATTTAATTACAAAATTGGCCCAAGAATTTTTCAAG
325 TATTTTAATTTAATCCCTAAATCAACTTTTATTTAATTACAAAATTGGCCCAAGAATTTTCCAAA
24589350 ATTTACAATTTAGTCCATTGACTGCTGGATGCC
390 ATTTACAATTTAGTCCATTGACTGCTGGATGCC
24589383 TGTGAGGCTG
Statistics
Matches: 402, Mismatches: 18, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
451 223 0.55
456 2 0.00
457 177 0.44
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.41
Consensus pattern (452 bp):
AGGAAATGGTTTTTGAAATGAAAATGAAATTTTTTTAGAAAAAAGAAACCTTTAATTAACATTTA
TACATACCCATTAAACCGACCCGGTTCGACCCGAACCCGCCTCAGGATCCGCGCGTTCTTTATAA
ATGGTCTAATTACGTTCTTGGTCCTTCCGCTTTTTTATTTGTTTCAATTTAGTCCTTTTTTTAAA
TTATTTGCAATTTTGCCCAATAATTTTGATTGGTTTTCAATTTAATCCTTTGACTGTTTGACTGC
ACCAGAGGCTGCCACGTGTCACTTTTTGGCTTATTTATGCATTTAATCCCTGACATTTTTAATTT
ATTTTAATTTAATCCCTAAATCAACTTTTATTTAATTACAAAATTGGCCCAAGAATTTTCCAAAA
TTTACAATTTAGTCCATTGACTGCTGGATGCCGGCCATGGGACATTTGAGAGAAAAAAGAGA
Found at i:24589508 original size:29 final size:28
Alignment explanation
Indices: 24589476--24589697 Score: 112
Period size: 29 Copynumber: 7.6 Consensus size: 28
24589466 AAATTTTAGG
*
24589476 AAATTACATTTTGACCTCGATTTCACCAA
1 AAATTACATTTT-ACCCCGATTTCACCAA
*
24589505 AAATTACAATTTTACCCCTGAATTT-TCC-A
1 AAATTAC-ATTTTACCCC-G-ATTTCACCAA
* * *
24589534 AAATTCCATTTTTAACCCGATTTCATCAA
1 AAATTACA-TTTTACCCCGATTTCACCAA
* ** *
24589563 AAATTACCATTTTACCCCTAAACTCTCC-A
1 AAATTA-CATTTTACCCC-GATTTCACCAA
* *
24589592 AAATTCCATTTTTAACCTCGATTTCACCAA
1 AAATTACA-TTTT-ACCCCGATTTCACCAA
* * ** *
24589622 AAATTACCATTTCACCCCTAAACTCTCC-A
1 AAATTA-CATTTTACCCC-GATTTCACCAA
* *
24589651 AAATTCCATTTTTCAACCCCGATTTCATC-A
1 AAATTACA-TTTT--ACCCCGATTTCACCAA
24589681 AAATTACCATTTTACCC
1 AAATTA-CATTTTACCC
24589698 TCGGGTATCC
Statistics
Matches: 142, Mismatches: 34, Indels: 35
0.67 0.16 0.17
Matches are distributed among these distances:
27 4 0.03
28 11 0.08
29 68 0.48
30 46 0.32
31 13 0.09
ACGTcount: A:0.34, C:0.29, G:0.03, T:0.35
Consensus pattern (28 bp):
AAATTACATTTTACCCCGATTTCACCAA
Found at i:24589639 original size:59 final size:59
Alignment explanation
Indices: 24589476--24589697 Score: 324
Period size: 59 Copynumber: 3.8 Consensus size: 59
24589466 AAATTTTAGG
* * * * * *
24589476 AAATTACA-TTTTGACCTCGATTTCACCAAAAATTACAATTTTACCCCTGAATTTTCCA
1 AAATTCCATTTTTAACCTCGATTTCACCAAAAATTACCATTTTACCCCTAAACTCTCCA
*
24589534 AAATTCCATTTTTAACC-CGATTTCATCAAAAATTACCATTTTACCCCTAAACTCTCCA
1 AAATTCCATTTTTAACCTCGATTTCACCAAAAATTACCATTTTACCCCTAAACTCTCCA
*
24589592 AAATTCCATTTTTAACCTCGATTTCACCAAAAATTACCATTTCACCCCTAAACTCTCCA
1 AAATTCCATTTTTAACCTCGATTTCACCAAAAATTACCATTTTACCCCTAAACTCTCCA
* *
24589651 AAATTCCATTTTTCAACCCCGATTTCATC-AAAATTACCATTTTACCC
1 AAATTCCATTTTT-AACCTCGATTTCACCAAAAATTACCATTTTACCC
24589698 TCGGGTATCC
Statistics
Matches: 149, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
58 60 0.40
59 76 0.51
60 13 0.09
ACGTcount: A:0.34, C:0.29, G:0.03, T:0.35
Consensus pattern (59 bp):
AAATTCCATTTTTAACCTCGATTTCACCAAAAATTACCATTTTACCCCTAAACTCTCCA
Found at i:24589711 original size:117 final size:117
Alignment explanation
Indices: 24589476--24589697 Score: 340
Period size: 117 Copynumber: 1.9 Consensus size: 117
24589466 AAATTTTAGG
* * * * * *
24589476 AAATTACA-TTTTGACCTCGATTTCACCAAAAATTACAATTTTACCCCTGAATTTTCCAAAATTC
1 AAATTCCATTTTTAACCTCGATTTCACCAAAAATTACAATTTCACCCCTAAACTCTCCAAAATTC
*
24589540 CATTTTTAACCCGATTTCATCAAAAATTACCATTTTACCCCTAAACTCTCCA
66 CATTTTTAACCCGATTTCATCAAAAATTACCATTTTACCCCTAAACTATCCA
*
24589592 AAATTCCATTTTTAACCTCGATTTCACCAAAAATTACCATTTCACCCCTAAACTCTCCAAAATTC
1 AAATTCCATTTTTAACCTCGATTTCACCAAAAATTACAATTTCACCCCTAAACTCTCCAAAATTC
24589657 CATTTTTCAACCCCGATTTCATC-AAAATTACCATTTTACCC
66 CATTTTT-AA-CCCGATTTCATCAAAAATTACCATTTTACCC
24589698 TCGGGTATCC
Statistics
Matches: 96, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
116 7 0.07
117 57 0.59
118 20 0.21
119 12 0.12
ACGTcount: A:0.34, C:0.29, G:0.03, T:0.35
Consensus pattern (117 bp):
AAATTCCATTTTTAACCTCGATTTCACCAAAAATTACAATTTCACCCCTAAACTCTCCAAAATTC
CATTTTTAACCCGATTTCATCAAAAATTACCATTTTACCCCTAAACTATCCA
Found at i:24589731 original size:117 final size:117
Alignment explanation
Indices: 24589489--24589734 Score: 336
Period size: 117 Copynumber: 2.1 Consensus size: 117
24589479 TTACATTTTG
* * * *
24589489 ACCTCGATTTCACCAAAAATTACAATTTTACCCCTGAATTTTCCAAAATTCCATTTTTAACCCGA
1 ACCTCGATTTCACCAAAAATTACAATTTCACCCCTAAACTCTCCAAAATTCCATTTTTAACCCGA
* * *
24589554 TTTCATCAAAAATTACCATTTTACCCCTAAACTCTCCAAAATTCCATTTTTA
66 TTTCATCAAAAATTACCATTTTACCCCTAAACTATCCAAAATCCCATTTTCA
*
24589606 ACCTCGATTTCACCAAAAATTACCATTTCACCCCTAAACTCTCCAAAATTCCATTTTTCAACCCC
1 ACCTCGATTTCACCAAAAATTACAATTTCACCCCTAAACTCTCCAAAATTCCATTTTT-AA-CCC
****
24589671 GATTTCATC-AAAATTACCATTTTA-CCCTCGGGTATCCAAAAGTCCCATTTTCA
64 GATTTCATCAAAAATTACCATTTTACCCCTAAACTATCCAAAA-TCCCATTTTCA
24589724 ACC-CGATTTCA
1 ACCTCGATTTCA
24589735 TCGTTTCTTC
Statistics
Matches: 114, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
117 73 0.64
118 29 0.25
119 12 0.11
ACGTcount: A:0.33, C:0.30, G:0.04, T:0.33
Consensus pattern (117 bp):
ACCTCGATTTCACCAAAAATTACAATTTCACCCCTAAACTCTCCAAAATTCCATTTTTAACCCGA
TTTCATCAAAAATTACCATTTTACCCCTAAACTATCCAAAATCCCATTTTCA
Found at i:24591534 original size:44 final size:44
Alignment explanation
Indices: 24591456--24591559 Score: 154
Period size: 44 Copynumber: 2.4 Consensus size: 44
24591446 CATATTTTTG
* * *
24591456 TCATACACATGTCATACACTTTAATACAAACAAATCCATTTCAA
1 TCATGCACATGACAGACACTTTAATACAAACAAATCCATTTCAA
* **
24591500 TCATGCACTTGACAGACACTTTAATACAAACAAATCCATTTCTG
1 TCATGCACATGACAGACACTTTAATACAAACAAATCCATTTCAA
24591544 TCATGCACATGACAGA
1 TCATGCACATGACAGA
24591560 TAATAATCAA
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 53 1.00
ACGTcount: A:0.39, C:0.25, G:0.08, T:0.28
Consensus pattern (44 bp):
TCATGCACATGACAGACACTTTAATACAAACAAATCCATTTCAA
Found at i:24593255 original size:2 final size:2
Alignment explanation
Indices: 24593250--24593291 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
24593240 TATATGTTAA
*
24593250 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24593292 TAAATCACTA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:24595460 original size:4 final size:4
Alignment explanation
Indices: 24595453--24595478 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
24595443 AAAAAAAGAA
24595453 AAAG AAAG AAAG AAAG AAAG AAAG AA
1 AAAG AAAG AAAG AAAG AAAG AAAG AA
24595479 TAGTGATCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:24599490 original size:23 final size:23
Alignment explanation
Indices: 24599464--24599510 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
24599454 TAACCAAGCA
24599464 AAGGATATGACACAATATAATAC
1 AAGGATATGACACAATATAATAC
24599487 AAGGATATGACACAATATAATAC
1 AAGGATATGACACAATATAATAC
24599510 A
1 A
24599511 TATTTTTGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.53, C:0.13, G:0.13, T:0.21
Consensus pattern (23 bp):
AAGGATATGACACAATATAATAC
Found at i:24599597 original size:44 final size:44
Alignment explanation
Indices: 24599519--24599624 Score: 149
Period size: 44 Copynumber: 2.4 Consensus size: 44
24599509 CATATTTTTG
* * *
24599519 TCATACACATGTCATACACTTTAATACAAACAAATCCATTTCAA
1 TCATGCACATGACAGACACTTTAATACAAACAAATCCATTTCAA
* **
24599563 TCATGCACTTGACAGACACTTTAATACAAACAAATCCATTTCTG
1 TCATGCACATGACAGACACTTTAATACAAACAAATCCATTTCAA
*
24599607 TCGTGCACATGACAGACA
1 TCATGCACATGACAGACA
24599625 ATAATCAAAG
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 54 1.00
ACGTcount: A:0.39, C:0.25, G:0.08, T:0.27
Consensus pattern (44 bp):
TCATGCACATGACAGACACTTTAATACAAACAAATCCATTTCAA
Found at i:24600461 original size:15 final size:15
Alignment explanation
Indices: 24600441--24600473 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
24600431 ATCTAACGTA
24600441 ACAAGTTAACTAGTC
1 ACAAGTTAACTAGTC
24600456 ACAAGTTAACTAGTC
1 ACAAGTTAACTAGTC
24600471 ACA
1 ACA
24600474 TCACCTGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.42, C:0.21, G:0.12, T:0.24
Consensus pattern (15 bp):
ACAAGTTAACTAGTC
Found at i:24601378 original size:6 final size:6
Alignment explanation
Indices: 24601360--24601468 Score: 82
Period size: 6 Copynumber: 18.0 Consensus size: 6
24601350 TTAAATTGAT
* *
24601360 TTTAAA TTT--A TTTAAA TTTAGA TTT-AT TTTAAA TTTAAATA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT-AA-A TTTAAA
* ** *
24601407 TTT-AA TTTGAA TTTAAA TTTAAA TAAAAA TTAAAA TATTAAA TTTAACA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA TTTAA-A
*
24601456 TTAAAAA TTTAAA
1 TT-TAAA TTTAAA
24601469 AGTCCAATGT
Statistics
Matches: 83, Mismatches: 11, Indels: 18
0.74 0.10 0.16
Matches are distributed among these distances:
4 4 0.05
5 8 0.10
6 50 0.60
7 15 0.18
8 6 0.07
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.48
Consensus pattern (6 bp):
TTTAAA
Found at i:24601390 original size:17 final size:15
Alignment explanation
Indices: 24601364--24601428 Score: 78
Period size: 17 Copynumber: 4.1 Consensus size: 15
24601354 ATTGATTTTA
24601364 AATTTATTTAAATTT
1 AATTTATTTAAATTT
24601379 AGATTTATTTTAAATTT
1 A-ATTTA-TTTAAATTT
*
24601396 AA-ATATTTAAATTT
1 AATTTATTTAAATTT
24601410 AATTTGAATTTAAATTT
1 AATTT--ATTTAAATTT
24601427 AA
1 AA
24601429 ATAAAAATTA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
14 11 0.26
15 4 0.09
16 6 0.14
17 22 0.51
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (15 bp):
AATTTATTTAAATTT
Found at i:24601406 original size:31 final size:31
Alignment explanation
Indices: 24601368--24601431 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
24601358 ATTTTAAATT
*
24601368 TATTTAAATTTAGATTT-ATTTTAAATTTAAA
1 TATTTAAATTTA-ATTTGAATTTAAATTTAAA
24601399 TATTTAAATTTAATTTGAATTTAAATTTAAA
1 TATTTAAATTTAATTTGAATTTAAATTTAAA
24601430 TA
1 TA
24601432 AAAATTAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 4 0.13
31 27 0.87
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (31 bp):
TATTTAAATTTAATTTGAATTTAAATTTAAA
Found at i:24601414 original size:11 final size:11
Alignment explanation
Indices: 24601350--24601430 Score: 64
Period size: 11 Copynumber: 7.5 Consensus size: 11
24601340 GACTTTTGAG
* *
24601350 TTAAATTGATT
1 TTAAATTTAAT
24601361 TTAAATTT-AT
1 TTAAATTTAAT
24601371 TTAAATTTAGAT
1 TTAAATTTA-AT
*
24601383 TT-ATTTTAAAT
1 TTAAATTT-AAT
24601394 TTAAA--T-AT
1 TTAAATTTAAT
24601402 TTAAATTTAAT
1 TTAAATTTAAT
*
24601413 TTGAATTTAAAT
1 TTAAATTT-AAT
24601425 TTAAAT
1 TTAAAT
24601431 AAAAATTAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
8 7 0.12
10 11 0.20
11 24 0.43
12 14 0.25
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (11 bp):
TTAAATTTAAT
Found at i:24601427 original size:42 final size:41
Alignment explanation
Indices: 24601360--24601453 Score: 109
Period size: 42 Copynumber: 2.3 Consensus size: 41
24601350 TTAAATTGAT
* ** * *
24601360 TTTAAATTT-ATTTAAATTTAGATTTATTTTAAATTTAAATA
1 TTTAAATTTAATTTAAATTTAAATTTAAATAAAAATTAAA-A
*
24601401 TTTAAATTTAATTTGAATTTAAATTTAAATAAAAATTAAAA
1 TTTAAATTTAATTTAAATTTAAATTTAAATAAAAATTAAAA
24601442 TATTAAATTTAA
1 T-TTAAATTTAA
24601454 CATTAAAAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
41 11 0.24
42 34 0.76
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (41 bp):
TTTAAATTTAATTTAAATTTAAATTTAAATAAAAATTAAAA
Found at i:24601467 original size:20 final size:18
Alignment explanation
Indices: 24601416--24601468 Score: 52
Period size: 20 Copynumber: 2.8 Consensus size: 18
24601406 ATTTAATTTG
*
24601416 AATTTAAATTTAAATAAA
1 AATTAAAATTTAAATAAA
*
24601434 AATTAAAATATTAAATTTAA
1 AATTAAAAT-TTAAA-TAAA
*
24601454 CATTAAAAATTTAAA
1 AATT-AAAATTTAAA
24601469 AGTCCAATGT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 8 0.28
19 5 0.17
20 11 0.38
21 5 0.17
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (18 bp):
AATTAAAATTTAAATAAA
Found at i:24601669 original size:15 final size:15
Alignment explanation
Indices: 24601649--24601679 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
24601639 GCCTATGCCG
24601649 CTGCCACCACCAGCT
1 CTGCCACCACCAGCT
24601664 CTGCCACCACCAGCT
1 CTGCCACCACCAGCT
24601679 C
1 C
24601680 CATCCACCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.55, G:0.13, T:0.13
Consensus pattern (15 bp):
CTGCCACCACCAGCT
Found at i:24603387 original size:30 final size:30
Alignment explanation
Indices: 24603348--24603736 Score: 538
Period size: 30 Copynumber: 13.0 Consensus size: 30
24603338 CCCTAAATTA
*
24603348 TCCAGAAATTATATTTTGACCCCAAAA-TTT
1 TCCA-AAATTACATTTTGACCCCAAAACTTT
*
24603378 TCCTAAAATTATATTTTGA-CCCAAAACTTT
1 TCC-AAAATTACATTTTGACCCCAAAACTTT
* *
24603408 TCCAAAATTACATTTTGACCCCGAAACCTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
* *
24603438 TCCAAAATTACATTTTAACCTCAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
24603468 TCCAAAATTATC-TTTT-ATCCCCAAAA-TTT
1 TCCAAAATTA-CATTTTGA-CCCCAAAACTTT
* *
24603497 TCCTAAAATTATATTTTTACCCCAAAACTTT
1 TCC-AAAATTACATTTTGACCCCAAAACTTT
**
24603528 TCCAAAATTACATTTCAACCCCAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
*
24603558 TCCAAAATTACATTTTGACCCTAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
*
24603588 TCCAAAATTACATTTTAACCCCAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
*
24603618 TCCAAAATTACATTTTGACCCTAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
*
24603648 TCCAAAATTATATTTTGACCCCAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
* *
24603678 TTCAAAATTACATTTTGATCCCAAAAC-TT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
*
24603707 TCAAAAATTACATTTTGACCCCAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
24603737 CTTAAATCCC
Statistics
Matches: 322, Mismatches: 27, Indels: 20
0.87 0.07 0.05
Matches are distributed among these distances:
29 54 0.17
30 259 0.80
31 9 0.03
ACGTcount: A:0.37, C:0.24, G:0.03, T:0.36
Consensus pattern (30 bp):
TCCAAAATTACATTTTGACCCCAAAACTTT
Found at i:24603780 original size:59 final size:59
Alignment explanation
Indices: 24603709--24603846 Score: 149
Period size: 59 Copynumber: 2.4 Consensus size: 59
24603699 CAAAACTTTC
* *
24603709 AAAAATTA-CATTTTGACCCCAAAACTTTCTTAAATCCCA-TTTTAACCCCGATTTTAC-
1 AAAAATTACCATTTTGACCCCAAAACTTT-TAAAATCCCATTTTTAACCCCGATTTCACT
* * * * *
24603766 CAAAATCTACCATTTT-ACCCTCGAATCTTTTAAAATTCCATTTTTAACCTCGATTTCACT
1 AAAAAT-TACCATTTTGACCC-CAAAACTTTTAAAATCCCATTTTTAACCCCGATTTCACT
*
24603826 AAAAATTACCATTTTGCCCCC
1 AAAAATTACCATTTTGACCCC
24603847 GGGTATCCAA
Statistics
Matches: 66, Mismatches: 9, Indels: 10
0.78 0.11 0.12
Matches are distributed among these distances:
57 5 0.08
58 14 0.21
59 39 0.59
60 8 0.12
ACGTcount: A:0.33, C:0.28, G:0.04, T:0.36
Consensus pattern (59 bp):
AAAAATTACCATTTTGACCCCAAAACTTTTAAAATCCCATTTTTAACCCCGATTTCACT
Found at i:24616055 original size:37 final size:36
Alignment explanation
Indices: 24616012--24616334 Score: 270
Period size: 37 Copynumber: 9.4 Consensus size: 36
24616002 CGTCATCCCT
24616012 TGAAATTGAAGTAGAGTGGATAACATGTCTTCATCTC
1 TGAAATTGAAGTAGAGTGGATAACA-GTCTTCATCTC
* * * **
24616049 TGAAATTGAAGTA-AG-AG-CAAC-GTCATCCCCT-
1 TGAAATTGAAGTAGAGTGGATAACAGTCTTCATCTC
24616080 TGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTC
1 TGAAATTGAAGTAGAGTGGATAACA-GTCTTCATCTC
* * * **
24616117 TGAAATTGAAGTA-AG-AG-CAAC-GTCATCCCCT-
1 TGAAATTGAAGTAGAGTGGATAACAGTCTTCATCTC
24616148 TGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTC
1 TGAAATTGAAGTAGAGTGGATAACA-GTCTTCATCTC
* * * **
24616185 TGAAATTGAAGTA-AG-AG-CAAC-GTCATCCCCT-
1 TGAAATTGAAGTAGAGTGGATAACAGTCTTCATCTC
*
24616216 TGAAATTGAAGTAGAGTGGATAACATGTCTTCATCCC
1 TGAAATTGAAGTAGAGTGGATAACA-GTCTTCATCTC
* * * ** *
24616253 TGAAATTGAAGTA-AG-AG-CAAC-GTCATCCCCTT
1 TGAAATTGAAGTAGAGTGGATAACAGTCTTCATCTC
24616285 TGAAATTGAAGTAGAGTGGATAACATGTCTTCATCTC
1 TGAAATTGAAGTAGAGTGGATAACA-GTCTTCATCTC
24616322 TGAAATTGAAGTA
1 TGAAATTGAAGTA
24616335 AGAGCAACGT
Statistics
Matches: 219, Mismatches: 44, Indels: 46
0.71 0.14 0.15
Matches are distributed among these distances:
31 39 0.18
32 46 0.21
33 5 0.02
34 22 0.10
35 7 0.03
36 28 0.13
37 72 0.33
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (36 bp):
TGAAATTGAAGTAGAGTGGATAACAGTCTTCATCTC
Found at i:24616116 original size:68 final size:68
Alignment explanation
Indices: 24615938--24616380 Score: 798
Period size: 68 Copynumber: 6.5 Consensus size: 68
24615928 ACCTTTTCCT
24615938 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAC
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAC
24616003 GTC
66 GTC
*
24616006 AT-CCCTTGAAATTGAAGTAGAGTGGATAACATGTCTTCATCTCTGAAATTGAAGTAAGAGCAAC
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAC
24616070 GTC
66 GTC
24616073 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAC
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAC
24616138 GTC
66 GTC
24616141 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAC
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAC
24616206 GTC
66 GTC
* *
24616209 ATCCCCTTGAAATTGAAGTAGAGTGGATAACATGTCTTCATCCCTGAAATTGAAGTAAGAGCAAC
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAC
24616274 GTC
66 GTC
*
24616277 ATCCCCTTTGAAATTGAAGTAGAGTGGATAACATGTCTTCATCTCTGAAATTGAAGTAAGAGCAA
1 ATCCCC-TTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAA
24616342 CGTC
65 CGTC
* ** *
24616346 ATCCCCTCGGGATTGAAGTAGAATGGATAACACGT
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGT
24616381 ATTTATCTTT
Statistics
Matches: 363, Mismatches: 10, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
67 66 0.18
68 230 0.63
69 67 0.18
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.27
Consensus pattern (68 bp):
ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAC
GTC
Found at i:24616733 original size:6 final size:6
Alignment explanation
Indices: 24616715--24616823 Score: 73
Period size: 6 Copynumber: 18.0 Consensus size: 6
24616705 TTAAATTGAT
* *
24616715 TTTAAA TTT--A TTTAAA TTTAGA TTT-AT TTTAAA TTTAAATA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT-AA-A TTTAAA
* ** **
24616762 TTT-AA TTTGAA TTTAAA TTTAAA TAAAAA TAAAAA TATTAAA TTTAACA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA TTTAA-A
*
24616811 TTAAAAA TTTAAA
1 TT-TAAA TTTAAA
24616824 AGTCCAATGT
Statistics
Matches: 83, Mismatches: 11, Indels: 18
0.74 0.10 0.16
Matches are distributed among these distances:
4 4 0.05
5 8 0.10
6 51 0.61
7 14 0.17
8 6 0.07
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.47
Consensus pattern (6 bp):
TTTAAA
Found at i:24616745 original size:17 final size:15
Alignment explanation
Indices: 24616719--24616783 Score: 78
Period size: 17 Copynumber: 4.1 Consensus size: 15
24616709 ATTGATTTTA
24616719 AATTTATTTAAATTT
1 AATTTATTTAAATTT
24616734 AGATTTATTTTAAATTT
1 A-ATTTA-TTTAAATTT
*
24616751 AA-ATATTTAAATTT
1 AATTTATTTAAATTT
24616765 AATTTGAATTTAAATTT
1 AATTT--ATTTAAATTT
24616782 AA
1 AA
24616784 ATAAAAATAA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
14 11 0.26
15 4 0.09
16 6 0.14
17 22 0.51
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (15 bp):
AATTTATTTAAATTT
Found at i:24616761 original size:31 final size:31
Alignment explanation
Indices: 24616723--24616786 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
24616713 ATTTTAAATT
*
24616723 TATTTAAATTTAGATTT-ATTTTAAATTTAAA
1 TATTTAAATTTA-ATTTGAATTTAAATTTAAA
24616754 TATTTAAATTTAATTTGAATTTAAATTTAAA
1 TATTTAAATTTAATTTGAATTTAAATTTAAA
24616785 TA
1 TA
24616787 AAAATAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 4 0.13
31 27 0.87
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (31 bp):
TATTTAAATTTAATTTGAATTTAAATTTAAA
Found at i:24616769 original size:11 final size:11
Alignment explanation
Indices: 24616705--24616785 Score: 64
Period size: 11 Copynumber: 7.5 Consensus size: 11
24616695 GACTTTTGAG
* *
24616705 TTAAATTGATT
1 TTAAATTTAAT
24616716 TTAAATTT-AT
1 TTAAATTTAAT
24616726 TTAAATTTAGAT
1 TTAAATTTA-AT
*
24616738 TT-ATTTTAAAT
1 TTAAATTT-AAT
24616749 TTAAA--T-AT
1 TTAAATTTAAT
24616757 TTAAATTTAAT
1 TTAAATTTAAT
*
24616768 TTGAATTTAAAT
1 TTAAATTT-AAT
24616780 TTAAAT
1 TTAAAT
24616786 AAAAATAAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
8 7 0.12
10 11 0.20
11 24 0.43
12 14 0.25
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (11 bp):
TTAAATTTAAT
Found at i:24618720 original size:30 final size:29
Alignment explanation
Indices: 24618671--24619059 Score: 437
Period size: 30 Copynumber: 13.1 Consensus size: 29
24618661 GCTTTGTAAG
* * * *
24618671 CCCCTAAATTATCCAAAAATAATATTTTGA
1 CCCCAAAATTTTCC-AAAATTACATTTTGA
*
24618701 CCCCAAAATTTTCCTAAAATTATATTTTGA
1 CCCCAAAATTTTCC-AAAATTACATTTTGA
*
24618731 CCCCAAAACTTTTCCAAAATTACATTTTAA
1 CCCCAAAA-TTTTCCAAAATTACATTTTGA
** *
24618761 CCCCGAAACCTTTCCAAAATTACATTTTAA
1 CCCC-AAAATTTTCCAAAATTACATTTTGA
*
24618791 CCTCAAAACTTTTCCAAAATTATC-TTTTGA
1 CCCCAAAA-TTTTCCAAAATTA-CATTTTGA
*
24618821 CCCCAAAATTTTCCTAAAATTATATTTTGA
1 CCCCAAAATTTTCC-AAAATTACATTTTGA
*
24618851 CCCAAAAACTTTTCCAAAATTACATTTTGA
1 CCCCAAAA-TTTTCCAAAATTACATTTTGA
24618881 CCCCAAAACTTTTCCAAAATTACATTTTGA
1 CCCCAAAA-TTTTCCAAAATTACATTTTGA
24618911 CCCCAAAATTTTCCAAAATTACATTTTGA
1 CCCCAAAATTTTCCAAAATTACATTTTGA
*
24618940 CCCCAAAACTTTTCCAAAATTATATTTTGA
1 CCCCAAAA-TTTTCCAAAATTACATTTTGA
* *
24618970 CCCCAAAACTTTCAAAAATTACATTTTGA
1 CCCCAAAATTTTCCAAAATTACATTTTGA
* * * ** *
24618999 CCCTAAAA-CTTCCTAAATCCCATTTTAA
1 CCCCAAAATTTTCCAAAATTACATTTTGA
24619027 CCCC--AATTTTACCAAAATTTACCATTTT-A
1 CCCCAAAATTTT-CCAAAA-TTA-CATTTTGA
24619056 CCCC
1 CCCC
24619060 TGAATCTTTT
Statistics
Matches: 314, Mismatches: 33, Indels: 25
0.84 0.09 0.07
Matches are distributed among these distances:
26 2 0.01
27 2 0.01
28 22 0.07
29 69 0.22
30 203 0.65
31 16 0.05
ACGTcount: A:0.37, C:0.25, G:0.03, T:0.35
Consensus pattern (29 bp):
CCCCAAAATTTTCCAAAATTACATTTTGA
Found at i:24618888 original size:19 final size:19
Alignment explanation
Indices: 24618864--24618920 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
24618854 AAAAACTTTT
24618864 CCAAAATTACATTTTGACC
1 CCAAAATTACATTTTGACC
24618883 CC-AAA--AC-TTTT----
1 CCAAAATTACATTTTGACC
24618894 CCAAAATTACATTTTGACC
1 CCAAAATTACATTTTGACC
24618913 CCAAAATT
1 CCAAAATT
24618921 TTCCAAAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 16
0.65 0.00 0.35
Matches are distributed among these distances:
11 2 0.07
12 3 0.10
14 2 0.07
15 8 0.27
16 2 0.07
18 3 0.10
19 10 0.33
ACGTcount: A:0.39, C:0.26, G:0.04, T:0.32
Consensus pattern (19 bp):
CCAAAATTACATTTTGACC
Found at i:24619104 original size:30 final size:29
Alignment explanation
Indices: 24619070--24619155 Score: 77
Period size: 30 Copynumber: 2.9 Consensus size: 29
24619060 TGAATCTTTT
24619070 AAAATTCCATTTTTAACCCCGATTTCACTA
1 AAAATTCCATTTTTAACCCCGATTTCAC-A
** *
24619100 AAAATTACCA-TTTTGCCCCCGAGTATC-CA
1 AAAATT-CCATTTTTAACCCCGA-TTTCACA
* * *
24619129 AAAGTCCCATTTTTCACCCCGATTTCA
1 AAAATTCCATTTTTAACCCCGATTTCA
24619156 TCATTTATCA
Statistics
Matches: 44, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
28 6 0.14
29 15 0.34
30 17 0.39
31 6 0.14
ACGTcount: A:0.30, C:0.30, G:0.07, T:0.33
Consensus pattern (29 bp):
AAAATTCCATTTTTAACCCCGATTTCACA
Found at i:24622262 original size:2 final size:2
Alignment explanation
Indices: 24622255--24622282 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
24622245 AACATTCTTT
24622255 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
24622283 GGCCTATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:24624325 original size:23 final size:23
Alignment explanation
Indices: 24624299--24624396 Score: 110
Period size: 23 Copynumber: 4.2 Consensus size: 23
24624289 ACACTAGCGC
24624299 GCTCTCTGTTTAGCACTGTGTGT
1 GCTCTCTGTTTAGCACTGTGTGT
*
24624322 GCTCTCTGTTTAGCAC-GTCTCGT
1 GCTCTCTGTTTAGCACTGTGT-GT
*
24624345 GCTCTCTGTTATTAACACT-TCGTGT
1 GCTCTCTG-T-TTAGCACTGT-GTGT
* *
24624370 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGTTTAGCACTGTGTGT
24624393 GCTC
1 GCTC
24624397 AGTACTTTGT
Statistics
Matches: 64, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
22 3 0.05
23 41 0.64
24 2 0.03
25 17 0.27
26 1 0.02
ACGTcount: A:0.11, C:0.26, G:0.21, T:0.42
Consensus pattern (23 bp):
GCTCTCTGTTTAGCACTGTGTGT
Done.