Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 310 of 325
Found at i:98188414 original size:21 final size:21
Alignment explanation
Indices: 98188385--98188427 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
98188375 ATGAACAATA
**
98188385 TAATAATTTTGTCTTTTAACT
1 TAATAATTTTGAATTTTAACT
*
98188406 TAATTATTTTGAATTTTAACT
1 TAATAATTTTGAATTTTAACT
98188427 T
1 T
98188428 TTAAAAAAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.07, G:0.05, T:0.58
Consensus pattern (21 bp):
TAATAATTTTGAATTTTAACT
Found at i:98195446 original size:27 final size:27
Alignment explanation
Indices: 98195416--98195470 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
98195406 GCATCAAACT
* *
98195416 CAGTCGACAAGCCGGTAAGCAAAACCG
1 CAGTCGACAAGCAGGTAAACAAAACCG
*
98195443 CAGTGGACAAGCAGGTAAACAAAACCG
1 CAGTCGACAAGCAGGTAAACAAAACCG
98195470 C
1 C
98195471 CGTCCTCTCG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.40, C:0.27, G:0.25, T:0.07
Consensus pattern (27 bp):
CAGTCGACAAGCAGGTAAACAAAACCG
Found at i:98195767 original size:28 final size:30
Alignment explanation
Indices: 98195721--98195787 Score: 75
Period size: 28 Copynumber: 2.3 Consensus size: 30
98195711 AAAGTGAGAA
* * *
98195721 GTAAATACTTAAAATTTGAGGGA-TAA-AGT
1 GTAAATA-TGAAAAGTTGAAGGACTAATAGT
98195750 GTAAATATGAAAAGTTGAAGGACTAATAGT
1 GTAAATATGAAAAGTTGAAGGACTAATAGT
*
98195780 GCAAATAT
1 GTAAATAT
98195788 TTTAAGGGTG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 12 0.38
29 10 0.31
30 10 0.31
ACGTcount: A:0.46, C:0.04, G:0.21, T:0.28
Consensus pattern (30 bp):
GTAAATATGAAAAGTTGAAGGACTAATAGT
Found at i:98197768 original size:15 final size:15
Alignment explanation
Indices: 98197748--98197778 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
98197738 CAACGAGGTA
98197748 AGTTAGTGTAACTTG
1 AGTTAGTGTAACTTG
98197763 AGTTAGTGTAACTTG
1 AGTTAGTGTAACTTG
98197778 A
1 A
98197779 ATTGTATTTT
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:0.29, C:0.06, G:0.26, T:0.39
Consensus pattern (15 bp):
AGTTAGTGTAACTTG
Found at i:98201095 original size:22 final size:21
Alignment explanation
Indices: 98201069--98201115 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
98201059 TACAAATTAA
98201069 ATCTTCAAGATTACAAGATCAT
1 ATCTTCAAGATTAC-AGATCAT
* *
98201091 ATCTTCAAGATTGCATATCAT
1 ATCTTCAAGATTACAGATCAT
98201112 ATCT
1 ATCT
98201116 AAGATTGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.36
Consensus pattern (21 bp):
ATCTTCAAGATTACAGATCAT
Found at i:98201121 original size:19 final size:19
Alignment explanation
Indices: 98201086--98201145 Score: 88
Period size: 17 Copynumber: 3.2 Consensus size: 19
98201076 AGATTACAAG
98201086 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
98201107 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
98201124 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
98201143 ATC
1 ATC
98201146 CTTAAAGATT
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
17 17 0.46
19 11 0.30
20 1 0.03
21 8 0.22
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:98201514 original size:6 final size:7
Alignment explanation
Indices: 98201498--98201526 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
98201488 GCCATATTAT
98201498 AAAAAGA
1 AAAAAGA
98201505 AAAAAGA
1 AAAAAGA
98201512 AAAAAGA
1 AAAAAGA
98201519 AAAAAGA
1 AAAAAGA
98201526 A
1 A
98201527 GAGGCTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:98201993 original size:16 final size:16
Alignment explanation
Indices: 98201972--98202002 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
98201962 AACATTGAAT
98201972 AACAGACGAAGGAGGC
1 AACAGACGAAGGAGGC
98201988 AACAGACGAAGGAGG
1 AACAGACGAAGGAGG
98202003 AACCGAGCGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.16, G:0.39, T:0.00
Consensus pattern (16 bp):
AACAGACGAAGGAGGC
Found at i:98209691 original size:31 final size:31
Alignment explanation
Indices: 98209656--98209721 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
98209646 TTAAAAAAAC
* *
98209656 AATTCAACTCTTTTTGAAAGATTGATGGTCA
1 AATTCAACTCTTTTTAAAAGATTGAAGGTCA
* *
98209687 AATTCTACTCTTTTTAAAAGGTTGAAGGTCA
1 AATTCAACTCTTTTTAAAAGATTGAAGGTCA
98209718 AATT
1 AATT
98209722 TAGTTCAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.39
Consensus pattern (31 bp):
AATTCAACTCTTTTTAAAAGATTGAAGGTCA
Found at i:98217132 original size:40 final size:41
Alignment explanation
Indices: 98217077--98217170 Score: 115
Period size: 40 Copynumber: 2.3 Consensus size: 41
98217067 CGACTATGCT
*
98217077 TGGCACTAAGTGTGCG-GTTTAATATAGCTTC-AGCTACA-AA
1 TGGCACTAAGTGTGCGAGTTGAA-ATAGCTTCGA-CTACATAA
* *
98217117 TGGCACTAAGTGTGCGAGTTGGAATAGCTTCGACTATATAA
1 TGGCACTAAGTGTGCGAGTTGAAATAGCTTCGACTACATAA
98217158 -GGCACTAAGTGTG
1 TGGCACTAAGTGTG
98217171 TGATACCGAC
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
40 41 0.85
41 7 0.15
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.29
Consensus pattern (41 bp):
TGGCACTAAGTGTGCGAGTTGAAATAGCTTCGACTACATAA
Found at i:98221648 original size:17 final size:17
Alignment explanation
Indices: 98221626--98221660 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
98221616 ACTTATCTAA
98221626 CAATAATCCTTGTTTAC
1 CAATAATCCTTGTTTAC
*
98221643 CAATAATTCTTGTTTAC
1 CAATAATCCTTGTTTAC
98221660 C
1 C
98221661 TTATTTGCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.23, G:0.06, T:0.43
Consensus pattern (17 bp):
CAATAATCCTTGTTTAC
Found at i:98222807 original size:30 final size:31
Alignment explanation
Indices: 98222773--98222838 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
98222763 TAATTTATAT
* *
98222773 TTTTATAATTTTTA-AAAGATTAAATTAAAA
1 TTTTATAATTTTTAGAAAGACTAAAATAAAA
* *
98222803 TTTTATCATTTTTAGAAAGACTAAAATACAA
1 TTTTATAATTTTTAGAAAGACTAAAATAAAA
98222834 TTTTA
1 TTTTA
98222839 CCTTTATTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 13 0.42
31 18 0.58
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (31 bp):
TTTTATAATTTTTAGAAAGACTAAAATAAAA
Found at i:98227886 original size:57 final size:57
Alignment explanation
Indices: 98227811--98227924 Score: 219
Period size: 57 Copynumber: 2.0 Consensus size: 57
98227801 ATTAGCTAAA
*
98227811 GCTTTCAATTTTACCCTCACCATTATCCTTTCTTTCTCGTGTCTGAAATATTTTCCT
1 GCTTTCAATTTTACCCTCACCATTATCCTTACTTTCTCGTGTCTGAAATATTTTCCT
98227868 GCTTTCAATTTTACCCTCACCATTATCCTTACTTTCTCGTGTCTGAAATATTTTCCT
1 GCTTTCAATTTTACCCTCACCATTATCCTTACTTTCTCGTGTCTGAAATATTTTCCT
98227925 TTCTTTTTCA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.18, C:0.28, G:0.07, T:0.46
Consensus pattern (57 bp):
GCTTTCAATTTTACCCTCACCATTATCCTTACTTTCTCGTGTCTGAAATATTTTCCT
Found at i:98230313 original size:39 final size:38
Alignment explanation
Indices: 98230260--98230388 Score: 134
Period size: 40 Copynumber: 3.2 Consensus size: 38
98230250 CGTTTAAACA
* *
98230260 AAAAACGCCGCTATAGTTCAGCATTAGCGGCGTTTCT-T
1 AAAAACGCCACTATAGATCAGCATTAGCGGCGTTT-TAT
* *
98230298 AACAAACGCCACTATAGATAAGACATTAGCGGCGTTTTTCT
1 AA-AAACGCCACTATAGATCAG-CATTAGCGGCG-TTTTAT
* *
98230339 AAAAGCGCAACTATAGATCGAGCATTAGCGGCGCTTTTAT
1 AAAAACGCCACTATAGATC-AGCATTAGCGGCG-TTTTAT
98230379 AAAAAACGCC
1 -AAAAACGCC
98230389 GCAAATGTCC
Statistics
Matches: 75, Mismatches: 10, Indels: 9
0.80 0.11 0.10
Matches are distributed among these distances:
38 2 0.03
39 16 0.21
40 42 0.56
41 15 0.20
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.25
Consensus pattern (38 bp):
AAAAACGCCACTATAGATCAGCATTAGCGGCGTTTTAT
Found at i:98230566 original size:112 final size:112
Alignment explanation
Indices: 98230440--98230661 Score: 254
Period size: 112 Copynumber: 2.0 Consensus size: 112
98230430 CTAATAATTT
*** ** *
98230440 TAGCAAGACGGTCGTTTCCTTTCGGCCCTTAGTTTCATTAGCGGCGTTTTCA-AAAAACGCCACT
1 TAGCAAGACGGTCGTTTCCTTTCAAACCTTAGTGACATTAGCGGCATTTTCATAAAAACGCCACT
*
98230504 AAAGGT-TAAGTATTAGCGACGTTT-TT-TGGAAAACGCCGCAAAAAAA
66 AAAGGTCT-AGTATTAGCGACGTTTCTTAT-AAAAACGCCGCAAAAAAA
** * * *
98230550 TAGCAAGACGCTGTCGTTTTGTTTTAAACCTTAGTGACATTAGCGGCATTTTTATAAAAACGCCG
1 TAGCAAGACG--GTCGTTTCCTTTCAAACCTTAGTGACATTAGCGGCATTTTCATAAAAACGCCA
* *
98230615 CTATAGGTCTAGTATTAGCGGCGTTTCTTATAAAAACGCCGCAAAAA
64 CTAAAGGTCTAGTATTAGCGACGTTTCTTATAAAAACGCCGCAAAAA
98230662 GTATTTTATG
Statistics
Matches: 92, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
110 10 0.11
112 32 0.35
113 31 0.34
114 18 0.20
115 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (112 bp):
TAGCAAGACGGTCGTTTCCTTTCAAACCTTAGTGACATTAGCGGCATTTTCATAAAAACGCCACT
AAAGGTCTAGTATTAGCGACGTTTCTTATAAAAACGCCGCAAAAAAA
Found at i:98230711 original size:28 final size:29
Alignment explanation
Indices: 98230666--98230720 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
98230656 CAAAAAGTAT
*
98230666 TTTATGTATATATTTATT-ATTTAAATGG
1 TTTATGTATATATTTATTGATTAAAATGG
*
98230694 TTTATTTATAT-TTATATTGATTAAAAT
1 TTTATGTATATATT-TATTGATTAAAAT
98230721 ACAATTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 2 0.09
28 14 0.61
29 7 0.30
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (29 bp):
TTTATGTATATATTTATTGATTAAAATGG
Found at i:98231102 original size:7 final size:7
Alignment explanation
Indices: 98231092--98231180 Score: 52
Period size: 7 Copynumber: 12.3 Consensus size: 7
98231082 AGTGGGTAAA
98231092 GGTTAAG
1 GGTTAAG
*
98231099 GGTTATG
1 GGTTAAG
* *
98231106 GATTATG
1 GGTTAAG
98231113 GGTTTAAG
1 GG-TTAAG
*
98231121 GATTAAG
1 GGTTAAG
* *
98231128 GGTCATG
1 GGTTAAG
*
98231135 GGTTATG
1 GGTTAAG
*
98231142 GGTTTAAT
1 GG-TTAAG
98231150 GGTTAAAG
1 GGTT-AAG
* *
98231158 GGATATG
1 GGTTAAG
*
98231165 GGTTAGG
1 GGTTAAG
98231172 GGTTAAG
1 GGTTAAG
98231179 GG
1 GG
98231181 GTTTAATTAA
Statistics
Matches: 62, Mismatches: 17, Indels: 6
0.73 0.20 0.07
Matches are distributed among these distances:
7 47 0.76
8 15 0.24
ACGTcount: A:0.25, C:0.01, G:0.40, T:0.34
Consensus pattern (7 bp):
GGTTAAG
Found at i:98231135 original size:29 final size:28
Alignment explanation
Indices: 98231077--98231155 Score: 97
Period size: 29 Copynumber: 2.8 Consensus size: 28
98231067 TAAAGTTTAG
* *
98231077 GGATTAGTGGG-TAAAGGTTAAGGGTTAT
1 GGATTA-TGGGTTTAAGGTTAAGGGTCAT
98231105 GGATTATGGGTTTAAGGATTAAGGGTCAT
1 GGATTATGGGTTTAAGG-TTAAGGGTCAT
*
98231134 GGGTTATGGGTTTAATGGTTAA
1 GGATTATGGGTTTAA-GGTTAA
98231156 AGGGATATGG
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
27 4 0.09
28 11 0.24
29 28 0.62
30 2 0.04
ACGTcount: A:0.27, C:0.01, G:0.37, T:0.35
Consensus pattern (28 bp):
GGATTATGGGTTTAAGGTTAAGGGTCAT
Found at i:98231641 original size:26 final size:27
Alignment explanation
Indices: 98231568--98231642 Score: 109
Period size: 26 Copynumber: 2.9 Consensus size: 27
98231558 AATAATTTAA
*
98231568 AATTTTAAAGATTTCAAA-TTTAGAAT
1 AATTTTCAAGATTTCAAATTTTAGAAT
*
98231594 AAATTTCAAGATTTCAAATTTTA-AAT
1 AATTTTCAAGATTTCAAATTTTAGAAT
*
98231620 AATTTTCAATATTTCAAATTTTA
1 AATTTTCAAGATTTCAAATTTTA
98231643 TCTAATTCTT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 40 0.91
27 4 0.09
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.45
Consensus pattern (27 bp):
AATTTTCAAGATTTCAAATTTTAGAAT
Found at i:98231787 original size:18 final size:17
Alignment explanation
Indices: 98231756--98231790 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
98231746 TAGTTGATTG
*
98231756 TTTTTTAATTTATATTA
1 TTTTTAAATTTATATTA
98231773 TTTTTAAATTATATATTA
1 TTTTTAAATT-TATATTA
98231791 AATAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTTTAAATTTATATTA
Found at i:98232262 original size:14 final size:13
Alignment explanation
Indices: 98232225--98232258 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
98232215 CCTTAAGTGT
98232225 TTTTCCCCTAAAA
1 TTTTCCCCTAAAA
*
98232238 CTTTCCCCTAAAA
1 TTTTCCCCTAAAA
98232251 TTTTCCCC
1 TTTTCCCC
98232259 CTAACCCTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.24, C:0.38, G:0.00, T:0.38
Consensus pattern (13 bp):
TTTTCCCCTAAAA
Found at i:98235818 original size:241 final size:242
Alignment explanation
Indices: 98235395--98236978 Score: 3092
Period size: 241 Copynumber: 6.6 Consensus size: 242
98235385 GCTCCATCAG
98235395 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
1 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
98235460 CTGTAAGATATAATGGATCCT-CCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
66 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
98235524 AAAAATACTTGAAAAAAATTTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTT
131 AAAAATACTTGAAAAAAATTTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTT
98235589 GCTTGTCCATTAAAATGACAACAATATCTGACCTTCTCTCCAACCTT
196 GCTTGTCCATTAAAATGACAACAATATCTGACCTTCTCTCCAACCTT
98235636 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
1 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
98235701 CTGTAAGATATAATGGATCCT-CCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
66 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
98235765 AAAAATACTTGAAAAAAATTTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTT
131 AAAAATACTTGAAAAAAATTTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTT
98235830 GCTTGTCCATTAAAATGACAACAATATCTGACCTTCTCTCCAACCTT
196 GCTTGTCCATTAAAATGACAACAATATCTGACCTTCTCTCCAACCTT
98235877 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
1 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
98235942 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
66 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
98236007 AAAAATACTTG-AAAAAATTTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTT
131 AAAAATACTTGAAAAAAATTTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTT
98236071 GCTTGTCCATTAAAATGACAACAATATCTGACCTTC-CTCCAACCTT
196 GCTTGTCCATTAAAATGACAACAATATCTGACCTTCTCTCCAACCTT
98236117 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
1 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
98236182 CTGTAAGATATAATGGAT-CTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
66 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
98236246 AAAAATACTTGAAAAAAATTTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTT
131 AAAAATACTTGAAAAAAATTTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTT
* *
98236311 GCTTGTCCATTAAAATTACAACAATATTTGACCTTCTCTCCAACCTT
196 GCTTGTCCATTAAAATGACAACAATATCTGACCTTCTCTCCAACCTT
98236358 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
1 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
98236423 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
66 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
98236488 AAAAATACTTG-AAAAAATTTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTT
131 AAAAATACTTGAAAAAAATTTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTT
*
98236552 GCTTGTCCATTAAAATTACAACAATATCTGACCTTCTCTCCAACCTT
196 GCTTGTCCATTAAAATGACAACAATATCTGACCTTCTCTCCAACCTT
98236599 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
1 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
98236664 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
66 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
98236729 AAAAATACTTGAAAAAAATTTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTT
131 AAAAATACTTGAAAAAAATTTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTT
98236794 GCTTGTCCATTAAAAT-ACAACAATATCTGACCTTCTCTCCAACCTT
196 GCTTGTCCATTAAAATGACAACAATATCTGACCTTCTCTCCAACCTT
98236840 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
1 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
98236905 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
66 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
98236970 AAAAATACT
131 AAAAATACT
98236979 GATATTGATC
Statistics
Matches: 1335, Mismatches: 3, Indels: 10
0.99 0.00 0.01
Matches are distributed among these distances:
239 57 0.04
240 180 0.13
241 918 0.69
242 180 0.13
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (242 bp):
ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
AAAAATACTTGAAAAAAATTTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTT
GCTTGTCCATTAAAATGACAACAATATCTGACCTTCTCTCCAACCTT
Found at i:98236298 original size:481 final size:481
Alignment explanation
Indices: 98235395--98236978 Score: 3084
Period size: 481 Copynumber: 3.3 Consensus size: 481
98235385 GCTCCATCAG
98235395 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
1 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
98235460 CTGTAAGATATAATGGATCCT-CCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
66 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
98235524 AAAAATACTTGAAAAAAATTTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTT
131 AAAAATACTTG-AAAAAATTTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTT
98235589 GCTTGTCCATTAAAATGACAACAATATCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAG
195 GCTTGTCCATTAAAATGACAACAATATCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAG
98235654 ATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGAT
260 ATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGAT
98235719 C-CTCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAATACTTGAAAAAAA
325 CTC-CCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAATACTTGAAAAAAA
98235783 TTTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTTGCTTGTCCATTAAAATGA
389 TTTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTTGCTTGTCCATTAAAAT-A
98235848 CAACAATATCTGACCTTCTCTCCAACCTT
453 CAACAATATCTGACCTTCTCTCCAACCTT
98235877 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
1 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
98235942 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
66 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
98236007 AAAAATACTTGAAAAAATTTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTTG
131 AAAAATACTTGAAAAAATTTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTTG
98236072 CTTGTCCATTAAAATGACAACAATATCTGACCTTC-CTCCAACCTTATTTTAAATATTTTAAAGA
196 CTTGTCCATTAAAATGACAACAATATCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGA
98236136 TTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATC
261 TTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATC
98236201 TCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAATACTTGAAAAAAATT
326 TCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAATACTTGAAAAAAATT
98236266 TCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACA
391 TCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTTGCTTGTCCATTAAAA-TACA
*
98236331 ACAATATTTGACCTTCTCTCCAACCTT
455 ACAATATCTGACCTTCTCTCCAACCTT
98236358 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
1 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
98236423 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
66 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
98236488 AAAAATACTTGAAAAAATTTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTTG
131 AAAAATACTTGAAAAAATTTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTTG
*
98236553 CTTGTCCATTAAAATTACAACAATATCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGA
196 CTTGTCCATTAAAATGACAACAATATCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGA
98236618 TTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATC
261 TTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGAT-
98236683 CTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAATACTTGAAAAAAAT
325 CTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAATACTTGAAAAAAAT
98236748 TTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTTGCTTGTCCATTAAAATACA
390 TTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTTGCTTGTCCATTAAAATACA
98236813 ACAATATCTGACCTTCTCTCCAACCTT
455 ACAATATCTGACCTTCTCTCCAACCTT
98236840 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
1 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
98236905 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
66 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
98236970 AAAAATACT
131 AAAAATACT
98236979 GATATTGATC
Statistics
Matches: 1094, Mismatches: 3, Indels: 10
0.99 0.00 0.01
Matches are distributed among these distances:
481 475 0.43
482 439 0.40
483 180 0.16
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (481 bp):
ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
AAAAATACTTGAAAAAATTTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTTG
CTTGTCCATTAAAATGACAACAATATCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGA
TTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATC
TCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAATACTTGAAAAAAATT
TCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTTGCTTGTCCATTAAAATACAA
CAATATCTGACCTTCTCTCCAACCTT
Found at i:98236816 original size:722 final size:723
Alignment explanation
Indices: 98235395--98236978 Score: 3077
Period size: 722 Copynumber: 2.2 Consensus size: 723
98235385 GCTCCATCAG
98235395 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
1 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
98235460 CTGTAAGATATAATGGATC-CTCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
66 CTGTAAGATATAATGGATCTC-CCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
98235524 AAAAATACTTGAAAAAAATTTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTT
130 AAAAATACTTGAAAAAAATTTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTT
98235589 GCTTGTCCATTAAAATGACAACAATATCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAG
195 GCTTGTCCATTAAAATGACAACAATATCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAG
98235654 ATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGAT
260 ATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGAT
98235719 CCTCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAATACTTGAAAAAAAT
325 CCTCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAATACTTGAAAAAAAT
98235784 TTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTTGCTTGTCCATTAAAATGAC
390 TTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTTGCTTGTCCATTAAAATGAC
98235849 AACAATATCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTG
455 AACAATATCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTG
98235914 GAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAACAAC
520 GAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAACAAC
98235979 GCCACGTATGATGAATCTTAAAAAATTCAAAAATACTTGAAAAAATTTCTATCGAGCTCATTTAC
585 GCCACGTATGATGAATCTTAAAAAATTCAAAAATACTTGAAAAAATTTCTATCGAGCTCATTTAC
98236044 TATTGAATATTTATTACCATGTAGCTTGCTTGTCCATTAAAATGACAACAATATCTGACCTTC-C
650 TATTGAATATTTATTACCATGTAGCTTGCTTGTCCATTAAAATGACAACAATATCTGACCTTCTC
98236108 TCCAACCTT
715 TCCAACCTT
98236117 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
1 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
98236182 CTGTAAGATATAATGGATCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCA
66 CTGTAAGATATAATGGATCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCA
98236247 AAAATACTTGAAAAAAATTTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTTG
131 AAAATACTTGAAAAAAATTTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTTG
* *
98236312 CTTGTCCATTAAAATTACAACAATATTTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGA
196 CTTGTCCATTAAAATGACAACAATATCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGA
98236377 TTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATC
261 TTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATC
98236442 CTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAATACTTG-AAAAAAT
326 CT-CCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAATACTTGAAAAAAAT
*
98236506 TTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTTGCTTGTCCATTAAAATTAC
390 TTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTTGCTTGTCCATTAAAATGAC
98236571 AACAATATCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTG
455 AACAATATCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTG
98236636 GAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAACAAC
520 GAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAACAAC
98236701 GCCACGTATGATGAATCTTAAAAAATTCAAAAATACTTGAAAAAAATTTCTATCGAGCTCATTTA
585 GCCACGTATGATGAATCTTAAAAAATTCAAAAATACTTG-AAAAAATTTCTATCGAGCTCATTTA
98236766 CTATTGAATATTTATTACCATGTAGCTTGCTTGTCCATTAAAAT-ACAACAATATCTGACCTTCT
649 CTATTGAATATTTATTACCATGTAGCTTGCTTGTCCATTAAAATGACAACAATATCTGACCTTCT
98236830 CTCCAACCTT
714 CTCCAACCTT
98236840 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
1 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
98236905 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
66 CTGTAAGATATAATGGAT-CTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
98236970 AAAAATACT
130 AAAAATACT
98236979 GATATTGATC
Statistics
Matches: 854, Mismatches: 3, Indels: 8
0.99 0.00 0.01
Matches are distributed among these distances:
722 582 0.68
723 217 0.25
724 55 0.06
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (723 bp):
ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
CTGTAAGATATAATGGATCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCA
AAAATACTTGAAAAAAATTTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTTG
CTTGTCCATTAAAATGACAACAATATCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGA
TTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATC
CTCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAATACTTGAAAAAAATT
TCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTTGCTTGTCCATTAAAATGACA
ACAATATCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGG
AAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACG
CCACGTATGATGAATCTTAAAAAATTCAAAAATACTTGAAAAAATTTCTATCGAGCTCATTTACT
ATTGAATATTTATTACCATGTAGCTTGCTTGTCCATTAAAATGACAACAATATCTGACCTTCTCT
CCAACCTT
Found at i:98237017 original size:9 final size:9
Alignment explanation
Indices: 98237003--98237115 Score: 90
Period size: 9 Copynumber: 12.3 Consensus size: 9
98236993 CTTAAAGCAA
98237003 TTACATAAC
1 TTACATAAC
98237012 TTACATAAC
1 TTACATAAC
98237021 -T-CAT-A-
1 TTACATAAC
*
98237026 TTACATAAT
1 TTACATAAC
98237035 TTACATAACAAC
1 TTACAT---AAC
98237047 TTACATAAC
1 TTACATAAC
*
98237056 TCACATAAC
1 TTACATAAC
*
98237065 TTACATAAT
1 TTACATAAC
*
98237074 TTACATATC
1 TTACATAAC
*
98237083 TCACATAAC
1 TTACATAAC
*
98237092 GTACATAACAAC
1 TTACAT---AAC
98237104 TTACATAAC
1 TTACATAAC
98237113 TTA
1 TTA
98237116 ACTAATACAT
Statistics
Matches: 83, Mismatches: 11, Indels: 20
0.73 0.10 0.18
Matches are distributed among these distances:
6 2 0.02
7 6 0.07
8 2 0.02
9 57 0.69
12 16 0.19
ACGTcount: A:0.44, C:0.22, G:0.01, T:0.33
Consensus pattern (9 bp):
TTACATAAC
Found at i:98237052 original size:35 final size:38
Alignment explanation
Indices: 98237009--98237080 Score: 114
Period size: 39 Copynumber: 1.9 Consensus size: 38
98236999 GCAATTACAT
98237009 AACTTACATAACT-CAT-A-TTACATAATTTACATAAC
1 AACTTACATAACTACATAACTTACATAATTTACATAAC
98237044 AACTTACATAACTCACATAACTTACATAATTTACATA
1 AACTTACATAACT-ACATAACTTACATAATTTACATA
98237081 TCTCACATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
35 13 0.39
37 3 0.09
38 1 0.03
39 16 0.48
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (38 bp):
AACTTACATAACTACATAACTTACATAATTTACATAAC
Found at i:98237102 original size:57 final size:53
Alignment explanation
Indices: 98237005--98237113 Score: 155
Period size: 57 Copynumber: 2.0 Consensus size: 53
98236995 TAAAGCAATT
**
98237005 ACATAACTTACATAACTCATATTACATAATTTACATAACAACTTACATAACTC
1 ACATAACTTACATAACTCATATTACATAACGTACATAACAACTTACATAACTC
*
98237058 ACATAACTTACATAATTTACATATCTCACATAACGTACATAACAACTTACATAACT
1 ACATAACTTACATAA-CT-CATAT-T-ACATAACGTACATAACAACTTACATAACT
98237114 TAACTAATAC
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
53 15 0.31
54 1 0.02
55 5 0.10
56 1 0.02
57 27 0.55
ACGTcount: A:0.45, C:0.23, G:0.01, T:0.31
Consensus pattern (53 bp):
ACATAACTTACATAACTCATATTACATAACGTACATAACAACTTACATAACTC
Found at i:98242709 original size:15 final size:16
Alignment explanation
Indices: 98242684--98242714 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
98242674 GCAACAACTT
98242684 AGAGCGGAGGCAGCAG
1 AGAGCGGAGGCAGCAG
98242700 AGAG-GGAGGCAGCAG
1 AGAGCGGAGGCAGCAG
98242715 CTGCAGCGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.32, C:0.16, G:0.52, T:0.00
Consensus pattern (16 bp):
AGAGCGGAGGCAGCAG
Found at i:98243211 original size:43 final size:42
Alignment explanation
Indices: 98243108--98243222 Score: 176
Period size: 42 Copynumber: 2.7 Consensus size: 42
98243098 AAAAGCGCCG
* * * *
98243108 CTAAAAGCCTTGACCTTTAGCGGTGCTTTTCCCACAAACGCG
1 CTAAAAGCCTTGACCTTTAGCGGCGTTTTTCCCACAAACCCA
*
98243150 CTAAAAGCCTTGACCTTTAGCAGCGTTTTTCCCACAAACACCA
1 CTAAAAGCCTTGACCTTTAGCGGCGTTTTTCCCACAAAC-CCA
98243193 CTAAAAGCCTTGACCTTTAGCGGCGTTTTT
1 CTAAAAGCCTTGACCTTTAGCGGCGTTTTT
98243223 TTCCAATAAA
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
42 36 0.55
43 30 0.45
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.29
Consensus pattern (42 bp):
CTAAAAGCCTTGACCTTTAGCGGCGTTTTTCCCACAAACCCA
Found at i:98244204 original size:11 final size:11
Alignment explanation
Indices: 98244188--98244216 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
98244178 TTTAGCCTTA
98244188 GTTTTCTCTAG
1 GTTTTCTCTAG
98244199 GTTTTCTCTAG
1 GTTTTCTCTAG
98244210 GTTTTCT
1 GTTTTCT
98244217 TCTTTTTCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.07, C:0.17, G:0.17, T:0.59
Consensus pattern (11 bp):
GTTTTCTCTAG
Found at i:98250113 original size:42 final size:43
Alignment explanation
Indices: 98250012--98250183 Score: 174
Period size: 43 Copynumber: 4.0 Consensus size: 43
98250002 AGCTCGTATA
* * * *
98250012 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGAAATCATATATCG
* *
98250055 ATGCC-ACTGTCTCAGACAAGGTCTTACACGAAATCATATA-CG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGAAATCATATATCG
* *
98250097 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATC-TCAAATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACG-AAATCAT-ATATCG
* * *
98250141 ATGCCAACGTCCCATACGTGGTATTACACGATAA-CA-ATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGA-AATCATATATCG
98250183 A
1 A
98250184 AAATTCTATG
Statistics
Matches: 107, Mismatches: 15, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
42 36 0.34
43 41 0.38
44 30 0.28
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGAAATCATATATCG
Found at i:98255204 original size:33 final size:35
Alignment explanation
Indices: 98255167--98255235 Score: 88
Period size: 33 Copynumber: 2.0 Consensus size: 35
98255157 TTTTCAGAAA
* *
98255167 GCTCTATGAAAGTTA-GGTTTTG-TTTTCGGGTTT
1 GCTCTATCAAAGTTAGGGCTTTGTTTTTCGGGTTT
* *
98255200 GCTCTATCAGAGTTAGGGCTTTGTTTTTGGGGTTT
1 GCTCTATCAAAGTTAGGGCTTTGTTTTTCGGGTTT
98255235 G
1 G
98255236 GGTTTGTAGG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 13 0.43
34 6 0.20
35 11 0.37
ACGTcount: A:0.13, C:0.10, G:0.30, T:0.46
Consensus pattern (35 bp):
GCTCTATCAAAGTTAGGGCTTTGTTTTTCGGGTTT
Found at i:98256954 original size:20 final size:20
Alignment explanation
Indices: 98256912--98256954 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
98256902 ATTATTTTAG
* *
98256912 AAATTTAAAAATAGATATTT
1 AAATTTAAAAATAGACATAT
**
98256932 AAATTTAAATTTAGACATAT
1 AAATTTAAAAATAGACATAT
98256952 AAA
1 AAA
98256955 AGAGAATAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (20 bp):
AAATTTAAAAATAGACATAT
Found at i:98268600 original size:12 final size:12
Alignment explanation
Indices: 98268583--98268621 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
98268573 CGGCCCGACC
98268583 ATATTAATTTTT
1 ATATTAATTTTT
*
98268595 ATATTATTTTTT
1 ATATTAATTTTT
*
98268607 ATA-TAATTTTA
1 ATATTAATTTTT
98268618 ATAT
1 ATAT
98268622 ATATATAAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
11 9 0.39
12 14 0.61
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:98268773 original size:29 final size:30
Alignment explanation
Indices: 98268740--98268801 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 30
98268730 ACTTAACAAG
98268740 CAAATACT-TCTAAAATAAT-AAAAAATTAA
1 CAAAT-CTGTCTAAAATAATAAAAAAATTAA
* *
98268769 CAAATGTGTTTAAAATAATAAAAAAATTAA
1 CAAATCTGTCTAAAATAATAAAAAAATTAA
98268799 CAA
1 CAA
98268802 TAAAATAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 1 0.03
29 15 0.52
30 13 0.45
ACGTcount: A:0.61, C:0.08, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATCTGTCTAAAATAATAAAAAAATTAA
Found at i:98270516 original size:21 final size:22
Alignment explanation
Indices: 98270490--98270536 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
98270480 CTCTGCTCAA
*
98270490 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
98270511 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
98270533 ACTC
1 ACTC
98270537 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:98277920 original size:12 final size:11
Alignment explanation
Indices: 98277905--98278018 Score: 52
Period size: 12 Copynumber: 9.4 Consensus size: 11
98277895 CAATAGTGAA
98277905 AATAATAAGTAT
1 AATAATAA-TAT
98277917 AATAATAAATAT
1 AATAAT-AATAT
* *
98277929 AATGATATATAAA
1 AATAATA-AT-AT
*
98277942 AATAATACTAT
1 AATAATAATAT
*
98277953 ATATAAAAAGTAT
1 A-ATAATAA-TAT
98277966 -ATATATACACGTAT
1 AATA-ATA-A--TAT
98277980 AATAA-AATAT
1 AATAATAATAT
*
98277990 ATATACTAATATT
1 A-ATAATAATA-T
98278003 AATAATAAATAT
1 AATAAT-AATAT
98278015 AATA
1 AATA
98278019 GGGGTAAAAA
Statistics
Matches: 79, Mismatches: 10, Indels: 26
0.69 0.09 0.23
Matches are distributed among these distances:
10 4 0.05
11 9 0.11
12 38 0.48
13 20 0.25
14 5 0.06
15 3 0.04
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.34
Consensus pattern (11 bp):
AATAATAATAT
Found at i:98277944 original size:18 final size:17
Alignment explanation
Indices: 98277903--98277972 Score: 63
Period size: 18 Copynumber: 3.9 Consensus size: 17
98277893 AACAATAGTG
98277903 AAAATAATAAGTATA-ATA
1 AAAAT-ATAA-TATATATA
98277921 ATAAATATAATGATATATA
1 A-AAATATAAT-ATATATA
*
98277940 AAAATAATACTATATATA
1 AAAAT-ATAATATATATA
98277958 AAAAGTAT-ATATATA
1 AAAA-TATAATATATA
98277973 CACGTATAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
17 7 0.16
18 25 0.56
19 13 0.29
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.33
Consensus pattern (17 bp):
AAAATATAATATATATA
Found at i:98277973 original size:24 final size:22
Alignment explanation
Indices: 98277915--98278015 Score: 61
Period size: 23 Copynumber: 4.5 Consensus size: 22
98277905 AATAATAAGT
* * *
98277915 ATAATAATAAATATAATGATAT-
1 ATAA-AATATATATACTAATATA
98277937 ATAAAA-ATA-ATACTATATATA
1 ATAAAATATATATACTA-ATATA
*
98277958 A-AAAGTATATATATAC-ACGTATA
1 ATAAA--ATATATATACTA-ATATA
98277981 ATAAAATATATATACTAATATTA
1 ATAAAATATATATACTAATA-TA
98278004 ATAATAA-ATATA
1 ATAA-AATATATA
98278016 ATAGGGGTAA
Statistics
Matches: 63, Mismatches: 6, Indels: 19
0.72 0.07 0.22
Matches are distributed among these distances:
19 4 0.06
20 9 0.14
21 3 0.05
22 17 0.27
23 21 0.33
24 9 0.14
ACGTcount: A:0.58, C:0.04, G:0.03, T:0.35
Consensus pattern (22 bp):
ATAAAATATATATACTAATATA
Found at i:98278015 original size:43 final size:40
Alignment explanation
Indices: 98277914--98278016 Score: 102
Period size: 43 Copynumber: 2.4 Consensus size: 40
98277904 AAATAATAAG
*
98277914 TATAATAATAAATATAATGATATATAAAAATAATACTATA
1 TATAATAATAAATATAACGATATATAAAAATAATACTATA
*
98277954 TATAAAAAGTATATATATACACG-TATAATAAAATATATATACTA-A
1 TATAATAA-TA-A-ATATA-ACGATAT-ATAAAA-ATA-ATACTATA
98277999 TATTAATAATAAATATAA
1 TA-TAATAATAAATATAA
98278017 TAGGGGTAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 14
0.75 0.04 0.20
Matches are distributed among these distances:
40 7 0.13
41 2 0.04
42 2 0.04
43 13 0.25
44 9 0.17
45 8 0.15
46 11 0.21
ACGTcount: A:0.58, C:0.04, G:0.03, T:0.35
Consensus pattern (40 bp):
TATAATAATAAATATAACGATATATAAAAATAATACTATA
Found at i:98278066 original size:24 final size:25
Alignment explanation
Indices: 98278039--98278095 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 25
98278029 TAGATATAAT
*
98278039 AATATGTACATAATATGGTA-TTAA
1 AATATGTACATAATATAGTATTTAA
* *
98278063 AATATATATATAATATAGTATTTAA
1 AATATGTACATAATATAGTATTTAA
*
98278088 AAAATGTA
1 AATATGTA
98278096 TACATAATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
24 17 0.63
25 10 0.37
ACGTcount: A:0.51, C:0.02, G:0.09, T:0.39
Consensus pattern (25 bp):
AATATGTACATAATATAGTATTTAA
Found at i:98278427 original size:25 final size:26
Alignment explanation
Indices: 98278373--98278451 Score: 82
Period size: 23 Copynumber: 3.3 Consensus size: 26
98278363 ACATATATAC
*
98278373 ATATATA-AATAATAATGGTATTAG-A
1 ATATATACAATAAT-ATAGTATTAGAA
98278398 A-ATATACAAT-ATATAGTATTAGAA
1 ATATATACAATAATATAGTATTAGAA
*
98278422 ATATATAC-ATAAAATAGTA-TA-AA
1 ATATATACAATAATATAGTATTAGAA
98278445 ATATATA
1 ATATATA
98278452 ACTAATGACA
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
23 18 0.38
24 13 0.27
25 17 0.35
ACGTcount: A:0.56, C:0.03, G:0.08, T:0.34
Consensus pattern (26 bp):
ATATATACAATAATATAGTATTAGAA
Found at i:98278479 original size:22 final size:22
Alignment explanation
Indices: 98278415--98278568 Score: 88
Period size: 23 Copynumber: 6.9 Consensus size: 22
98278405 AATATATAGT
*
98278415 ATTAGAAATATATACATAA-AAT
1 ATTA-AAATATATACATAATAAC
*
98278437 AGTATAAAATATATA-ACTAATGAC
1 A-T-TAAAATATATACA-TAATAAC
*
98278461 ATTAAAATATATACATAATAAT
1 ATTAAAATATATACATAATAAC
*
98278483 ATATAAAA-ATATA-ATATTAA-
1 AT-TAAAATATATACATAATAAC
* * *
98278503 A--AAATATATGTACATAACATAT
1 ATTAAA-ATATATACATAATA-AC
* *
98278525 ATAAAAATATATACATAATATAGT
1 ATTAAAATATATACATAATA-A-C
*
98278549 ATTAAAATATTTACATAATA
1 ATTAAAATATATACATAATA
98278569 TATACATATA
Statistics
Matches: 106, Mismatches: 12, Indels: 26
0.74 0.08 0.18
Matches are distributed among these distances:
17 3 0.03
18 1 0.01
19 4 0.04
20 5 0.05
21 7 0.07
22 26 0.25
23 34 0.32
24 26 0.25
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.34
Consensus pattern (22 bp):
ATTAAAATATATACATAATAAC
Found at i:98278499 original size:13 final size:15
Alignment explanation
Indices: 98278478--98278510 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
98278468 TATATACATA
98278478 ATAATA-TATAAAAAT
1 ATAATATTA-AAAAAT
98278493 ATAATATTAAAAAAT
1 ATAATATTAAAAAAT
98278508 ATA
1 ATA
98278511 TGTACATAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 15 0.88
16 2 0.12
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
ATAATATTAAAAAAT
Found at i:98278563 original size:24 final size:23
Alignment explanation
Indices: 98278464--98278572 Score: 97
Period size: 24 Copynumber: 4.9 Consensus size: 23
98278454 TAATGACATT
*
98278464 AAAATATATACATAATAATATATA
1 AAAATATTTACATAAT-ATATATA
98278488 AAAATA--TA-AT-AT-TA-A-A
1 AAAATATTTACATAATATATATA
* *
98278504 AAATATATGTACATAACATATATA
1 AAA-ATATTTACATAATATATATA
* *
98278528 AAAATATATACATAATATAGTATT
1 AAAATATTTACATAATATA-TATA
98278552 AAAATATTTACATAATATATA
1 AAAATATTTACATAATATATA
98278573 CATATATATA
Statistics
Matches: 71, Mismatches: 5, Indels: 19
0.75 0.05 0.20
Matches are distributed among these distances:
16 4 0.06
17 4 0.06
18 2 0.03
19 2 0.03
20 4 0.06
21 3 0.04
22 4 0.06
23 17 0.24
24 31 0.44
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.35
Consensus pattern (23 bp):
AAAATATTTACATAATATATATA
Found at i:98278592 original size:21 final size:20
Alignment explanation
Indices: 98278568--98278616 Score: 53
Period size: 23 Copynumber: 2.3 Consensus size: 20
98278558 TTTACATAAT
*
98278568 ATATACATATATATATTAAAGAT
1 ATATACATATATA-A-TAAA-AC
*
98278591 ATATGCATATATAATAAAAC
1 ATATACATATATAATAAAAC
98278611 ATATAC
1 ATATAC
98278617 TAATATTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 6 0.26
21 4 0.17
22 1 0.04
23 12 0.52
ACGTcount: A:0.53, C:0.08, G:0.04, T:0.35
Consensus pattern (20 bp):
ATATACATATATAATAAAAC
Found at i:98280527 original size:14 final size:14
Alignment explanation
Indices: 98280494--98280527 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
98280484 GTTGATTTTC
*
98280494 TTGAAAAGCAGAAA
1 TTGAAAAACAGAAA
98280508 TT-AAAAACAGAAA
1 TTGAAAAACAGAAA
98280521 TTGAAAA
1 TTGAAAA
98280528 TATCTCGGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.62, C:0.06, G:0.15, T:0.18
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:98280633 original size:75 final size:75
Alignment explanation
Indices: 98280510--98280681 Score: 247
Period size: 75 Copynumber: 2.2 Consensus size: 75
98280500 AGCAGAAATT
* * *
98280510 AAAAACAGAAATTGAAAATATCTCGGCATGTGGCCCGAGGGTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
98280575 TTGATTTTTG
66 TTGATTTTTG
*
98280585 AAAAACTGAAATTGAAAATACCTCGG-AGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGA
1 AAAAACAGAAATTGAAAATACCTCGGCA-TGTGACCCGAGGCTCAACTCACCTCTCGCAATATGA
98280649 GTTGATTTTTCTTG
65 GTTGA--TTT-TTG
*
98280663 AAAAAGCAGAAATTAAAAA
1 AAAAA-CAGAAATTGAAAA
98280682 ACAAAACTTG
Statistics
Matches: 86, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
74 1 0.01
75 63 0.73
77 3 0.03
78 8 0.09
79 11 0.13
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (75 bp):
AAAAACAGAAATTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTG
Found at i:98280727 original size:168 final size:159
Alignment explanation
Indices: 98280428--98280815 Score: 554
Period size: 168 Copynumber: 2.4 Consensus size: 159
98280418 AAGTAAAAAA
* * * *
98280428 AAATTAAGAATACCTCAGTGTGTGACCTGAGGCTCAACTCCCCTCTCTCAATATGAGTTGA-TTT
1 AAATTAA-AATACCTCAGAGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
*
98280492 TCTTGAAAAGCAGAAATTAAAAACAGAAATTGAAAATATCTCGGCATGTGGCCCGAGGGTCAACT
65 TCTTGAAAAGCAGAAATTAAAAACAGAAATTGAAAATATCTCGGCATGTGGCCCGAGGCTCAACT
*
98280557 CACCTCTCGCAATATGAGTTGATTTTTGAAAAACT
130 CACCTCTCACAATATGAGTTGA----T-AAAAACT
*
98280592 GAAATTGAAAATACCTCGGAGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 -AAATT-AAAATACCTCAGAGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
98280657 TTCTTGAAAAAGCAGAAATTAAAAAACA-AAACTTGAAAATATCTCGGCATGTGGCCCGAGGCTC
64 TTCTTG-AAAAGCAGAAATT-AAAAACAGAAA-TTGAAAATATCTCGGCATGTGGCCCGAGGCTC
*
98280721 AACTCACCTCTCACAATATGAGTTGATAGAAACT
126 AACTCACCTCTCACAATATGAGTTGATAAAAACT
*
98280755 --A--AAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 AAATTAAAATACCTCAGAGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
98280816 GAAAAAACAA
Statistics
Matches: 208, Mismatches: 10, Indels: 18
0.88 0.04 0.08
Matches are distributed among these distances:
157 58 0.28
160 1 0.00
163 6 0.03
164 1 0.00
165 53 0.25
166 10 0.05
167 16 0.08
168 63 0.30
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.27
Consensus pattern (159 bp):
AAATTAAAATACCTCAGAGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
CTTGAAAAGCAGAAATTAAAAACAGAAATTGAAAATATCTCGGCATGTGGCCCGAGGCTCAACTC
ACCTCTCACAATATGAGTTGATAAAAACT
Found at i:98280793 original size:64 final size:64
Alignment explanation
Indices: 98280692--98280811 Score: 195
Period size: 64 Copynumber: 1.9 Consensus size: 64
98280682 ACAAAACTTG
* * *
98280692 AAAATATCTCGGCATGTGGCCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATAGAAACTA
1 AAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATAGAAACTA
* *
98280756 AAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCACAATATGAGTTGAT
98280812 TTTTGAAAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 51 1.00
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (64 bp):
AAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATAGAAACTA
Found at i:98292447 original size:22 final size:22
Alignment explanation
Indices: 98292419--98292463 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
98292409 ATTGGATGAA
*
98292419 TGAATAAATCACAAATGAATGT
1 TGAATAAATCACAAATAAATGT
* *
98292441 TGAATAAATGACGAATAAATGT
1 TGAATAAATCACAAATAAATGT
98292463 T
1 T
98292464 AGTCATGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.49, C:0.07, G:0.16, T:0.29
Consensus pattern (22 bp):
TGAATAAATCACAAATAAATGT
Found at i:98293779 original size:14 final size:15
Alignment explanation
Indices: 98293755--98293789 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
98293745 TATATATATT
98293755 ACCATATAAATACTA
1 ACCATATAAATACTA
98293770 ACCATA-AAATACTA
1 ACCATATAAATACTA
98293784 ATCCAT
1 A-CCAT
98293790 GATTAAAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (15 bp):
ACCATATAAATACTA
Found at i:98294490 original size:41 final size:41
Alignment explanation
Indices: 98294459--98294822 Score: 498
Period size: 41 Copynumber: 8.9 Consensus size: 41
98294449 CTATATAAAA
* * * * *
98294459 CACCGGCATAAAGCCTGCTAGGCACAAAGCCCG-ATTAATTT
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAAATAA-TC
* * * * *
98294500 CACCGGCA-CAAAGCCTGCTAGACATAAAGTCGGAATTAATT
1 CACCGGCATC-AAGCCTGCTAGGCATAAAGCCTGAAATAATC
* * * *
98294541 CACCGGCATCAAGCCTGCTAGACATAAAGTCTAAAATAATT
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAAATAATC
*
98294582 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATC
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAAATAATC
* * *
98294623 CACCGGCATCAAGCCTGCTAGACATAAAGTCTAAAATAATC
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAAATAATC
*
98294664 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATC
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAAATAATC
*
98294705 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATC
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAAATAATC
*
98294746 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATC
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAAATAATC
*
98294787 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAA
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAAA
98294823 ATCTCATATA
Statistics
Matches: 299, Mismatches: 21, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
41 293 0.98
42 6 0.02
ACGTcount: A:0.34, C:0.28, G:0.19, T:0.20
Consensus pattern (41 bp):
CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAAATAATC
Found at i:98295055 original size:64 final size:63
Alignment explanation
Indices: 98294937--98295117 Score: 262
Period size: 64 Copynumber: 2.9 Consensus size: 63
98294927 GCAAACAAAC
*
98294937 ATTCGAACCACATATGT-AT-AATTTACA-ACATTAAAATTCAGCTCAAAGAA-TTTGTAACCTA
1 ATTCGAACCACATATGTAATAAAATT-CATACATT-AAATTCAGCTC-AAGAACTTTGTAACCTA
98294998 T
63 T
98294999 ATTCGAACCACATATGTAAGTAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTAT
1 ATTCGAACCACATATGTAA-TAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTAT
* *
98295063 ATTTGAACCACATATGTATATAAAATTCATACATTAAATACAGCTCAAGAACTTT
1 ATTCGAACCACATATGTA-ATAAAATTCATACATTAAATTCAGCTCAAGAACTTT
98295118 AAATATATAT
Statistics
Matches: 110, Mismatches: 3, Indels: 10
0.89 0.02 0.08
Matches are distributed among these distances:
62 17 0.15
63 6 0.05
64 77 0.70
65 10 0.09
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (63 bp):
ATTCGAACCACATATGTAATAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTAT
Found at i:98299113 original size:18 final size:17
Alignment explanation
Indices: 98299072--98299138 Score: 57
Period size: 18 Copynumber: 3.8 Consensus size: 17
98299062 AACAATAGTG
98299072 AAAATAATAAGTATA-ATA
1 AAAAT-ATAA-TATATATA
98299090 ATAAATATAATGATATATA
1 A-AAATATAAT-ATATATA
*
98299109 AAAATAATACTATATATA
1 AAAAT-ATAATATATATA
*
98299127 AAAGTAT-ATATA
1 AAAATATAATATA
98299139 CACACGTATA
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
16 4 0.10
17 3 0.07
18 23 0.55
19 12 0.29
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.33
Consensus pattern (17 bp):
AAAATATAATATATATA
Found at i:98299544 original size:20 final size:20
Alignment explanation
Indices: 98299521--98299601 Score: 65
Period size: 20 Copynumber: 3.8 Consensus size: 20
98299511 ATAGTATAAA
*
98299521 AAAATATA-ACTAATGATATT
1 AAAATATACA-TAATAATATT
98299541 AAAATATACATAATAATATT
1 AAAATATACATAATAATATT
*
98299561 AAAAAATATATACATAAATAGTATT
1 ---AAA-ATATACAT-AATAATATT
*
98299586 AAATATTTACATAATA
1 AAA-ATATACATAATA
98299602 TATACATATT
Statistics
Matches: 52, Mismatches: 3, Indels: 11
0.79 0.05 0.17
Matches are distributed among these distances:
20 17 0.33
21 5 0.10
22 11 0.21
23 3 0.06
24 8 0.15
25 8 0.15
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (20 bp):
AAAATATACATAATAATATT
Found at i:98299557 original size:23 final size:23
Alignment explanation
Indices: 98299451--98299601 Score: 93
Period size: 22 Copynumber: 6.5 Consensus size: 23
98299441 GTACATATAT
* *
98299451 ATATAAATAATAATGGTATTAGAA
1 ATATACATAATAATAGTATTA-AA
98299475 ATATAC--AATATATAGTATTAGAAA
1 ATATACATAATA-ATAGTATT--AAA
98299499 TATATACATAA-AATAGTA-TAAA
1 -ATATACATAATAATAGTATTAAA
* *
98299521 A-AAATATAACTAAT-GATATTAAA
1 ATATACATAA-TAATAG-TATTAAA
* **
98299544 ATATACATAATAATATTAAAAAA
1 ATATACATAATAATAGTATTAAA
98299567 TATATACAT-A-AATAGTATTAAA
1 -ATATACATAATAATAGTATTAAA
*
98299589 TATTTACATAATA
1 -ATATACATAATA
98299602 TATACATATT
Statistics
Matches: 99, Mismatches: 13, Indels: 30
0.70 0.09 0.21
Matches are distributed among these distances:
20 6 0.06
21 2 0.02
22 29 0.29
23 23 0.23
24 23 0.23
25 13 0.13
26 1 0.01
27 2 0.02
ACGTcount: A:0.57, C:0.04, G:0.05, T:0.34
Consensus pattern (23 bp):
ATATACATAATAATAGTATTAAA
Found at i:98299569 original size:22 final size:22
Alignment explanation
Indices: 98299473--98299601 Score: 79
Period size: 24 Copynumber: 5.6 Consensus size: 22
98299463 ATGGTATTAG
*
98299473 AAATATACAATATATAGTATTAGAA
1 AAATATAC-ATA-ATAATATTA-AA
*
98299498 ATATATACATAA-AATAGTATAAAA
1 AAATATACATAATAATA-T-T-AAA
*
98299522 AAATATA-ACTAATGATATT--A
1 AAATATACA-TAATAATATTAAA
98299542 AAATATACATAATAATATTAAAA
1 AAATATACATAATAATATT-AAA
*
98299565 AATATATACATAAATAGTATT-AA
1 AA-ATATACAT-AATAATATTAAA
* *
98299588 ATATTTACATAATA
1 AAATATACATAATA
98299602 TATACATATT
Statistics
Matches: 85, Mismatches: 8, Indels: 26
0.71 0.07 0.22
Matches are distributed among these distances:
20 17 0.20
21 5 0.06
22 10 0.12
23 10 0.12
24 24 0.28
25 19 0.22
ACGTcount: A:0.58, C:0.05, G:0.04, T:0.33
Consensus pattern (22 bp):
AAATATACATAATAATATTAAA
Found at i:98299707 original size:3 final size:3
Alignment explanation
Indices: 98299697--98299752 Score: 82
Period size: 3 Copynumber: 19.3 Consensus size: 3
98299687 ATACTACTAC
98299697 TAA T-A TAA TAA T-A TATA TAA TAA TAA TAA TAA TAA TAA T-A TAA
1 TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
98299740 TAA TAA TAA TAA T
1 TAA TAA TAA TAA T
98299753 GTTAAAAGTA
Statistics
Matches: 49, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
2 6 0.12
3 40 0.82
4 3 0.06
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:98299723 original size:23 final size:23
Alignment explanation
Indices: 98299697--98299752 Score: 96
Period size: 23 Copynumber: 2.4 Consensus size: 23
98299687 ATACTACTAC
98299697 TAAT-ATAATAATATATATAATAA
1 TAATAATAATAATA-ATATAATAA
98299720 TAATAATAATAATAATATAATAA
1 TAATAATAATAATAATATAATAA
98299743 TAATAATAAT
1 TAATAATAAT
98299753 GTTAAAAGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
23 23 0.72
24 9 0.28
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
TAATAATAATAATAATATAATAA
Found at i:98300373 original size:11 final size:10
Alignment explanation
Indices: 98300340--98300365 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
98300330 AAGGTAAATT
98300340 TTTTTTTATA
1 TTTTTTTATA
98300350 TTTTTTTATA
1 TTTTTTTATA
98300360 TTTTTT
1 TTTTTT
98300366 ATGTATTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (10 bp):
TTTTTTTATA
Found at i:98300982 original size:10 final size:10
Alignment explanation
Indices: 98300967--98301003 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
98300957 TCCACTCAAA
*
98300967 ATAAACATAT
1 ATAAACAGAT
98300977 ATAAACAGAT
1 ATAAACAGAT
*
98300987 ATAAATAGAT
1 ATAAACAGAT
98300997 ATAAACA
1 ATAAACA
98301004 TATTCCACAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.62, C:0.08, G:0.05, T:0.24
Consensus pattern (10 bp):
ATAAACAGAT
Found at i:98302104 original size:12 final size:12
Alignment explanation
Indices: 98302069--98302106 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
98302059 TCTATCCTAA
*
98302069 TATTTTTATAAA
1 TATTTTTATAAT
*
98302081 TATTTTTTTAAT
1 TATTTTTATAAT
98302093 TATTTTTATAAT
1 TATTTTTATAAT
98302105 TA
1 TA
98302107 AAATGATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
TATTTTTATAAT
Found at i:98305572 original size:13 final size:13
Alignment explanation
Indices: 98305550--98305581 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
98305540 GGCTCTTCCA
98305550 AAAG-TTAGATTT
1 AAAGTTTAGATTT
98305562 AAAGTTTAGATTT
1 AAAGTTTAGATTT
98305575 AAAGTTT
1 AAAGTTT
98305582 TAAGAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.41, C:0.00, G:0.16, T:0.44
Consensus pattern (13 bp):
AAAGTTTAGATTT
Found at i:98316944 original size:27 final size:27
Alignment explanation
Indices: 98316886--98316970 Score: 86
Period size: 27 Copynumber: 3.2 Consensus size: 27
98316876 CATAGTATAT
* *
98316886 ATATACATATAATATA-ATTATTAAGA
1 ATATACATACAATATATAGTATTAAGA
*
98316912 AAATACATACAATATATAGTATTAAGA
1 ATATACATACAATATATAGTATTAAGA
* *
98316939 ATATAC--ACAATACATAGGGTATTAAAA
1 ATATACATACAATATATA--GTATTAAGA
98316966 ATATA
1 ATATA
98316971 GTATTAAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
25 9 0.18
26 14 0.28
27 27 0.54
ACGTcount: A:0.54, C:0.07, G:0.07, T:0.32
Consensus pattern (27 bp):
ATATACATACAATATATAGTATTAAGA
Found at i:98317216 original size:16 final size:17
Alignment explanation
Indices: 98317186--98317218 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
98317176 GCAGAATAAT
98317186 AAATATAATAATATATG
1 AAATATAATAATATATG
*
98317203 AAAT-TAATACTATATG
1 AAATATAATAATATATG
98317219 TAAAAAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.36
Consensus pattern (17 bp):
AAATATAATAATATATG
Found at i:98317557 original size:12 final size:14
Alignment explanation
Indices: 98317501--98317550 Score: 52
Period size: 15 Copynumber: 3.7 Consensus size: 14
98317491 ATATTTAAAA
98317501 TAATACT-AAATA-
1 TAATACTAAAATAG
98317513 TAATA-TAAAATAG
1 TAATACTAAAATAG
*
98317526 TAATAATAATAATAG
1 TAATACTAA-AATAG
*
98317541 CAATACTAAA
1 TAATACTAAA
98317551 TGTAATAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
11 1 0.03
12 10 0.31
13 5 0.16
14 4 0.12
15 12 0.38
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.30
Consensus pattern (14 bp):
TAATACTAAAATAG
Found at i:98318266 original size:5 final size:5
Alignment explanation
Indices: 98318256--98318304 Score: 64
Period size: 5 Copynumber: 9.6 Consensus size: 5
98318246 GAAAAGGTAA
*
98318256 TATTT TATTT TATTT TATTT TATTT GTATTA TATTT T-TTT TATATT TAT
1 TATTT TATTT TATTT TATTT TATTT -TATTT TATTT TATTT TAT-TT TAT
98318305 ATGTTTTTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
4 4 0.10
5 26 0.67
6 9 0.23
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (5 bp):
TATTT
Found at i:98318304 original size:17 final size:17
Alignment explanation
Indices: 98318255--98318323 Score: 74
Period size: 17 Copynumber: 4.2 Consensus size: 17
98318245 GGAAAAGGTA
98318255 ATATTTTATTT-TATTT
1 ATATTTTATTTATATTT
*
98318271 -TATTTTATTTGTA-TT
1 ATATTTTATTTATATTT
*
98318286 ATATTTTTTTTATATTT
1 ATATTTTATTTATATTT
*
98318303 ATATGTTT-TTTATATAT
1 ATAT-TTTATTTATATTT
98318320 ATAT
1 ATAT
98318324 ATGTGGAAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
15 12 0.26
16 13 0.28
17 18 0.39
18 3 0.07
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (17 bp):
ATATTTTATTTATATTT
Found at i:98318311 original size:19 final size:19
Alignment explanation
Indices: 98318285--98318327 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
98318275 TTATTTGTAT
*
98318285 TATAT-TTTTTT-TATATT
1 TATATGTTTTTTATATATA
98318302 TATATGTTTTTTATATATA
1 TATATGTTTTTTATATATA
98318321 TATATGT
1 TATATGT
98318328 GGAAAAATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.22
18 6 0.26
19 12 0.52
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (19 bp):
TATATGTTTTTTATATATA
Found at i:98318393 original size:14 final size:14
Alignment explanation
Indices: 98318374--98318413 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
98318364 TTGATTGGCA
98318374 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
98318388 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
98318402 GGAAAATGTTTT
1 GTAAAATGTTTT
98318414 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:98318422 original size:20 final size:20
Alignment explanation
Indices: 98318397--98318436 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
98318387 CGTAAAATGA
*
98318397 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
98318417 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
98318437 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:98318426 original size:34 final size:35
Alignment explanation
Indices: 98318382--98318448 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
98318372 CAGTAAAATG
*
98318382 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
98318416 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
98318449 CTAGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:98318560 original size:20 final size:20
Alignment explanation
Indices: 98318535--98318573 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
98318525 GTTTTTACAT
98318535 ATATTAATAAATTTATATAC
1 ATATTAATAAATTTATATAC
*
98318555 ATATTAATAAATTTTTATA
1 ATATTAATAAATTTATATA
98318574 TTTTAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATTAATAAATTTATATAC
Found at i:98318633 original size:15 final size:15
Alignment explanation
Indices: 98318604--98318656 Score: 52
Period size: 17 Copynumber: 3.2 Consensus size: 15
98318594 TATTGCAATG
*
98318604 ATTTATTTATAAATAA
1 ATTT-TTTATTAATAA
98318620 ATTTTTTATTAATAAA
1 ATTTTTTATTAAT-AA
98318636 AGTTTTTTATCTAATTAA
1 A-TTTTTTAT-TAA-TAA
98318654 ATT
1 ATT
98318657 CCAAATGTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
15 8 0.25
16 7 0.22
17 10 0.31
18 6 0.19
19 1 0.03
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (15 bp):
ATTTTTTATTAATAA
Found at i:98318846 original size:14 final size:14
Alignment explanation
Indices: 98318827--98318866 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
98318817 TTGATTGCCA
98318827 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
98318841 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
98318855 GGAAAATGTTTT
1 GTAAAATGTTTT
98318867 ACTTTTCTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:98321708 original size:18 final size:18
Alignment explanation
Indices: 98321687--98321737 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
98321677 AGGAATGAAG
98321687 GAAGGGAGAAGAATGGAT
1 GAAGGGAGAAGAATGGAT
*** *
98321705 GAAGGGAGCTTACTGGAT
1 GAAGGGAGAAGAATGGAT
98321723 GAAGGGAGAAGAATG
1 GAAGGGAGAAGAATG
98321738 CCTGAGAGCT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.39, C:0.04, G:0.43, T:0.14
Consensus pattern (18 bp):
GAAGGGAGAAGAATGGAT
Found at i:98330296 original size:48 final size:47
Alignment explanation
Indices: 98330206--98330431 Score: 263
Period size: 48 Copynumber: 4.7 Consensus size: 47
98330196 CATTAGGAGC
* * * * * *
98330206 TTCATTAAGTTGGTTTCGGGTCATGATATTAGCACTTTGGGTGCGAG
1 TTCATTGATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGCGAG
* * *
98330253 TTACATTGATTTGGCTTCGGACCTTGATATTGGCACTTCGGGTGCGAAC
1 TT-CATTGATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGCG-AG
* * *
98330302 TTCATTGATTTGGCATCGGGTCATGATATTAGCACTTCGGGTGCGAG
1 TTCATTGATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGCGAG
* * * * *
98330349 TTACATTGATTTAGCTTTGTGCCATGATATTGGCACTTCGAGTGCAAG
1 TT-CATTGATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGCGAG
98330397 CTTCATTGATTTGGCTTCGGGCCATGATATTGGCA
1 -TTCATTGATTTGGCTTCGGGCCATGATATTGGCA
98330432 TCTAGGGTGC
Statistics
Matches: 149, Mismatches: 26, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
47 5 0.03
48 139 0.93
49 5 0.03
ACGTcount: A:0.19, C:0.17, G:0.27, T:0.36
Consensus pattern (47 bp):
TTCATTGATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGCGAG
Found at i:98330440 original size:96 final size:97
Alignment explanation
Indices: 98330203--98330441 Score: 324
Period size: 96 Copynumber: 2.5 Consensus size: 97
98330193 TGTCATTAGG
* * * * *
98330203 AGCTTCATTAAGTTGGTTTCGGGTCATGATATTAGCACTTTGGGTGCGAGTTACATTGATTTGGC
1 AGCTTCATTGATTTGGCTTCGGGTCATGATATTAGCACTTAGGGTGCGAGTTACATTGATTTAGC
* *
98330268 TTCGGACCTTGATATTGGCACTTCGGGTGCGA
66 TTCGGACCATGATATTGGCACTTCGAGTGCGA
* *
98330300 A-CTTCATTGATTTGGCATCGGGTCATGATATTAGCACTTCGGGTGCGAGTTACATTGATTTAGC
1 AGCTTCATTGATTTGGCTTCGGGTCATGATATTAGCACTTAGGGTGCGAGTTACATTGATTTAGC
*
98330364 TTTGTG-CCATGATATTGGCACTTCGAGTGC-A
66 TTCG-GACCATGATATTGGCACTTCGAGTGCGA
* *
98330395 AGCTTCATTGATTTGGCTTCGGGCCATGATATTGGCA-TCTAGGGTGC
1 AGCTTCATTGATTTGGCTTCGGGTCATGATATTAGCACT-TAGGGTGC
98330442 AAAACTTCCA
Statistics
Matches: 126, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
95 3 0.02
96 121 0.96
97 2 0.02
ACGTcount: A:0.19, C:0.18, G:0.28, T:0.36
Consensus pattern (97 bp):
AGCTTCATTGATTTGGCTTCGGGTCATGATATTAGCACTTAGGGTGCGAGTTACATTGATTTAGC
TTCGGACCATGATATTGGCACTTCGAGTGCGA
Found at i:98333387 original size:13 final size:13
Alignment explanation
Indices: 98333369--98333397 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
98333359 AGAAGCGTCG
98333369 TCACCTGATGTTA
1 TCACCTGATGTTA
98333382 TCACCTGATGTTA
1 TCACCTGATGTTA
98333395 TCA
1 TCA
98333398 GCGTGGTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.38
Consensus pattern (13 bp):
TCACCTGATGTTA
Found at i:98334643 original size:48 final size:48
Alignment explanation
Indices: 98334542--98334717 Score: 237
Period size: 48 Copynumber: 3.7 Consensus size: 48
98334532 TAGGAGCTTT
* * *
98334542 ATTGAGTTGGTTTTGGGCCATGATATTAGCACTTCGGGTGCGAGTTAC
1 ATTGATTTGGCTTCGGGCCATGATATTAGCACTTCGGGTGCGAGTTAC
* * * ** *
98334590 TTTGATTTGGCTTCGAGCCATGATATTGGCACTTCATGTGTGAGCTT-C
1 ATTGATTTGGCTTCGGGCCATGATATTAGCACTTCGGGTGCGAG-TTAC
98334638 ATTGATTTGGCTTCGGGCCATGATATTAGCACTTCGGGTGCGAGTTAC
1 ATTGATTTGGCTTCGGGCCATGATATTAGCACTTCGGGTGCGAGTTAC
* *
98334686 ATTGATTTGGCTTTGGGCCATGATATTGGCAC
1 ATTGATTTGGCTTCGGGCCATGATATTAGCAC
98334718 CTAGGGTGTG
Statistics
Matches: 109, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
47 2 0.02
48 105 0.96
49 2 0.02
ACGTcount: A:0.18, C:0.17, G:0.28, T:0.36
Consensus pattern (48 bp):
ATTGATTTGGCTTCGGGCCATGATATTAGCACTTCGGGTGCGAGTTAC
Found at i:98334706 original size:96 final size:96
Alignment explanation
Indices: 98334535--98334717 Score: 303
Period size: 96 Copynumber: 1.9 Consensus size: 96
98334525 ATGTCATTAG
* * * *
98334535 GAGCTTTATTGAGTTGGTTTTGGGCCATGATATTAGCACTTCGGGTGCGAGTTACTTTGATTTGG
1 GAGCTTCATTGAGTTGGCTTCGGGCCATGATATTAGCACTTCGGGTGCGAGTTACATTGATTTGG
98334600 CTTCGAGCCATGATATTGGCACTTCATGTGT
66 CTTCGAGCCATGATATTGGCACTTCATGTGT
*
98334631 GAGCTTCATTGATTTGGCTTCGGGCCATGATATTAGCACTTCGGGTGCGAGTTACATTGATTTGG
1 GAGCTTCATTGAGTTGGCTTCGGGCCATGATATTAGCACTTCGGGTGCGAGTTACATTGATTTGG
* *
98334696 CTTTGGGCCATGATATTGGCAC
66 CTTCGAGCCATGATATTGGCAC
98334718 CTAGGGTGTG
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
96 80 1.00
ACGTcount: A:0.18, C:0.17, G:0.28, T:0.37
Consensus pattern (96 bp):
GAGCTTCATTGAGTTGGCTTCGGGCCATGATATTAGCACTTCGGGTGCGAGTTACATTGATTTGG
CTTCGAGCCATGATATTGGCACTTCATGTGT
Found at i:98337191 original size:19 final size:19
Alignment explanation
Indices: 98337167--98337203 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
98337157 CGCCAATGCA
98337167 TGGATGGCCACTTCGCAAT
1 TGGATGGCCACTTCGCAAT
98337186 TGGATGGCCACTTCGCAA
1 TGGATGGCCACTTCGCAA
98337204 CACTCCTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (19 bp):
TGGATGGCCACTTCGCAAT
Found at i:98339682 original size:13 final size:13
Alignment explanation
Indices: 98339664--98339688 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
98339654 TTGTCGTGTT
98339664 ATTTAGTTAATTA
1 ATTTAGTTAATTA
98339677 ATTTAGTTAATT
1 ATTTAGTTAATT
98339689 TTAATTTTAA
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:0.00, G:0.08, T:0.56
Consensus pattern (13 bp):
ATTTAGTTAATTA
Found at i:98340243 original size:21 final size:22
Alignment explanation
Indices: 98340218--98340259 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
98340208 CTTGAAAGGT
98340218 GGATATCGCGATACC-CTAAAA
1 GGATATCGCGATACCACTAAAA
* *
98340239 GGATATTGTGATACCACTAAA
1 GGATATCGCGATACCACTAAA
98340260 GGGTCTCATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (22 bp):
GGATATCGCGATACCACTAAAA
Found at i:98351149 original size:26 final size:27
Alignment explanation
Indices: 98351115--98351166 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
98351105 GGCTGAGAGA
* *
98351115 AAAATGAGAGAACAGTTTTTTTTTTAG
1 AAAATGAGAAAACAGATTTTTTTTTAG
*
98351142 AAAA-GAGAAAACTGATTTTTTTTTA
1 AAAATGAGAAAACAGATTTTTTTTTA
98351167 AAGAATTTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 18 0.82
27 4 0.18
ACGTcount: A:0.40, C:0.04, G:0.15, T:0.40
Consensus pattern (27 bp):
AAAATGAGAAAACAGATTTTTTTTTAG
Found at i:98351742 original size:11 final size:12
Alignment explanation
Indices: 98351721--98351753 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
98351711 AATTTAATAT
98351721 TATTATTTTATG
1 TATTATTTTATG
98351733 TATT-TTTTATG
1 TATTATTTTATG
*
98351744 TATTCTTTTA
1 TATTATTTTA
98351754 ATATACATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.55
12 9 0.45
ACGTcount: A:0.21, C:0.03, G:0.06, T:0.70
Consensus pattern (12 bp):
TATTATTTTATG
Found at i:98351865 original size:21 final size:22
Alignment explanation
Indices: 98351827--98351878 Score: 79
Period size: 21 Copynumber: 2.4 Consensus size: 22
98351817 TAGACATTAC
*
98351827 ATATATTTTACGTATATTATGT
1 ATATATTTTACATATATTATGT
98351849 ATATATTTTA-ATATATTATGT
1 ATATATTTTACATATATTATGT
*
98351870 GTATATTTT
1 ATATATTTT
98351879 GTTTTGTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
21 18 0.64
22 10 0.36
ACGTcount: A:0.33, C:0.02, G:0.08, T:0.58
Consensus pattern (22 bp):
ATATATTTTACATATATTATGT
Found at i:98352175 original size:8 final size:8
Alignment explanation
Indices: 98352164--98352197 Score: 50
Period size: 8 Copynumber: 4.0 Consensus size: 8
98352154 CTATTATTTC
98352164 TTTATTAT
1 TTTATTAT
98352172 TTTATTAT
1 TTTATTAT
98352180 TTTATTTTAT
1 TTTA--TTAT
98352190 TTTATTAT
1 TTTATTAT
98352198 GCTACCCTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 16 0.67
10 8 0.33
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTATTAT
Found at i:98358758 original size:20 final size:20
Alignment explanation
Indices: 98358709--98358760 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 20
98358699 TTATGCCTTA
*
98358709 TCAGTATTCTTATCCTGAATT
1 TCAGTATT-TTATCCTAAATT
98358730 TCAAG-ATTTTATCCTAAATT
1 TC-AGTATTTTATCCTAAATT
98358750 TCAGTATTTTA
1 TCAGTATTTTA
98358761 ATTTGGATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 2 0.07
20 19 0.68
21 5 0.18
22 2 0.07
ACGTcount: A:0.29, C:0.15, G:0.08, T:0.48
Consensus pattern (20 bp):
TCAGTATTTTATCCTAAATT
Found at i:98365661 original size:19 final size:18
Alignment explanation
Indices: 98365626--98365661 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
98365616 GAAGCAAGCA
*
98365626 ATGATTGAAGAAATCAGG
1 ATGATTGAAAAAATCAGG
98365644 ATGATTGAAAAGAATCAG
1 ATGATTGAAAA-AATCAG
98365662 ACCTGGAGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.47, C:0.06, G:0.25, T:0.22
Consensus pattern (18 bp):
ATGATTGAAAAAATCAGG
Found at i:98368376 original size:21 final size:21
Alignment explanation
Indices: 98368352--98368394 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
98368342 AAAAATACTT
98368352 TAGTATGATAAACTTGAATCA
1 TAGTATGATAAACTTGAATCA
98368373 TAGTATGATAAACTTGAATCA
1 TAGTATGATAAACTTGAATCA
98368394 T
1 T
98368395 TATTAACTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.42, C:0.09, G:0.14, T:0.35
Consensus pattern (21 bp):
TAGTATGATAAACTTGAATCA
Found at i:98368888 original size:28 final size:29
Alignment explanation
Indices: 98368843--98368903 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 29
98368833 TCTAAATTTG
* *
98368843 ATATTTAATTTCTATCTTTTAATTTT-TA
1 ATATATAATTTCTATCTTATAATTTTATA
* * *
98368871 ATATATAATTTGTTTCTTATACTTTTATA
1 ATATATAATTTCTATCTTATAATTTTATA
98368900 ATAT
1 ATAT
98368904 TATTAATTAG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 21 0.78
29 6 0.22
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.61
Consensus pattern (29 bp):
ATATATAATTTCTATCTTATAATTTTATA
Found at i:98369188 original size:17 final size:18
Alignment explanation
Indices: 98369166--98369200 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
98369156 ATTATACTAG
98369166 TGAATTCA-AAAAATAAA
1 TGAATTCATAAAAATAAA
*
98369183 TGAATTGATAAAAATAAA
1 TGAATTCATAAAAATAAA
98369201 AAAACAATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.63, C:0.03, G:0.09, T:0.26
Consensus pattern (18 bp):
TGAATTCATAAAAATAAA
Found at i:98373269 original size:15 final size:15
Alignment explanation
Indices: 98373251--98373291 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
98373241 TAATAATGCA
* * *
98373251 AATAATAATGATATC
1 AATAATAATAACAAC
98373266 AATAATAATAACAAC
1 AATAATAATAACAAC
98373281 AATAATAATAA
1 AATAATAATAA
98373292 ATCTAAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.27
Consensus pattern (15 bp):
AATAATAATAACAAC
Found at i:98373319 original size:27 final size:28
Alignment explanation
Indices: 98373286--98373340 Score: 94
Period size: 27 Copynumber: 2.0 Consensus size: 28
98373276 ACAACAATAA
98373286 TAATAAATCTAAA-TATGAAAGTACATG
1 TAATAAATCTAAATTATGAAAGTACATG
*
98373313 TAATAAATCTAAATTTTGAAAGTACATG
1 TAATAAATCTAAATTATGAAAGTACATG
98373341 AAAAGTAGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 13 0.50
28 13 0.50
ACGTcount: A:0.49, C:0.07, G:0.11, T:0.33
Consensus pattern (28 bp):
TAATAAATCTAAATTATGAAAGTACATG
Found at i:98380215 original size:16 final size:16
Alignment explanation
Indices: 98380183--98380232 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 16
98380173 AATCTTATTG
*
98380183 AAAATAAACATGTAAA
1 AAAATAAAAATGTAAA
*
98380199 AAAACTAAAAATGAAAA
1 AAAA-TAAAAATGTAAA
*
98380216 AAAATGCAAAATGTAAA
1 AAAAT-AAAAATGTAAA
98380233 TATAAAATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
16 5 0.18
17 23 0.82
ACGTcount: A:0.70, C:0.06, G:0.08, T:0.16
Consensus pattern (16 bp):
AAAATAAAAATGTAAA
Found at i:98380637 original size:34 final size:35
Alignment explanation
Indices: 98380592--98380675 Score: 95
Period size: 35 Copynumber: 2.4 Consensus size: 35
98380582 TTTTTATAAA
*
98380592 TATTT-TAATTAATTATATAATCGTTTTAAA-TTATT
1 TATTTATAATTAATTATA-AAT-ATTTTAAATTTATT
*
98380627 TA-TTAT-ATTAAATGATAAATATTTTAAATTTATT
1 TATTTATAATT-AATTATAAATATTTTAAATTTATT
98380661 TATTTATAATTAATT
1 TATTTATAATTAATT
98380676 CAATTTTTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
33 7 0.17
34 15 0.37
35 16 0.39
36 3 0.07
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.56
Consensus pattern (35 bp):
TATTTATAATTAATTATAAATATTTTAAATTTATT
Found at i:98381817 original size:42 final size:46
Alignment explanation
Indices: 98381757--98381864 Score: 127
Period size: 45 Copynumber: 2.5 Consensus size: 46
98381747 GCACTGGGTG
* *
98381757 CACAAGATATTTTACATGGCTGTGAGT-C-TAT-CTCCTT-GATCC
1 CACAAGATATTTTTCATGGCTGCGAGTACATATCCTCCTTGGATCC
* * * *
98381799 CACAAGATATTTTTCATGGCAGCGTGTACATCTCCTCCTTGGTTCC
1 CACAAGATATTTTTCATGGCTGCGAGTACATATCCTCCTTGGATCC
98381845 C-CAAGATATTTTTCATGGCT
1 CACAAGATATTTTTCATGGCT
98381865 CCTGGATCCT
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
42 23 0.42
43 1 0.02
44 2 0.04
45 24 0.44
46 5 0.09
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (46 bp):
CACAAGATATTTTTCATGGCTGCGAGTACATATCCTCCTTGGATCC
Found at i:98391992 original size:43 final size:43
Alignment explanation
Indices: 98391913--98392076 Score: 202
Period size: 43 Copynumber: 3.8 Consensus size: 43
98391903 GCCGCAAAAC
* * *
98391913 TTAGCGGCGTTTTTTCAAAAAAAATGCCGCTAAAGACCAGGACTT
1 TTAGCGGCG-CTTTTC-TAAAAAACGCCGCTAAAGACCAGGACTT
* *
98391958 TTAGCGGCGCTTTTTTAAAAAACGCCGCTAAAGACCAAGACTT
1 TTAGCGGCGCTTTTCTAAAAAACGCCGCTAAAGACCAGGACTT
* *
98392001 TTAGTGGCGCTTTTCTAAAAAACGCCGCTAAAGTCCAGGACTT
1 TTAGCGGCGCTTTTCTAAAAAACGCCGCTAAAGACCAGGACTT
* * ***
98392044 TTCGCGACGCTTTTCTCGCAAACGCCGCTAAAG
1 TTAGCGGCGCTTTTCTAAAAAACGCCGCTAAAG
98392077 GTCATAAAAT
Statistics
Matches: 104, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
43 91 0.88
44 4 0.04
45 9 0.09
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.26
Consensus pattern (43 bp):
TTAGCGGCGCTTTTCTAAAAAACGCCGCTAAAGACCAGGACTT
Found at i:98395894 original size:16 final size:16
Alignment explanation
Indices: 98395862--98395905 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
98395852 AACTAAAATA
*
98395862 TTAAATTTTTAAGTTTT
1 TTAAATTTTTTA-TTTT
98395879 TT--ATTTTTTATTTT
1 TTAAATTTTTTATTTT
98395893 TTAAATTTTTTAT
1 TTAAATTTTTTAT
98395906 GAAGATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 6 0.25
15 7 0.29
16 9 0.38
17 2 0.08
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (16 bp):
TTAAATTTTTTATTTT
Found at i:98396050 original size:19 final size:19
Alignment explanation
Indices: 98396026--98396064 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
98396016 TATTATTCTT
98396026 TAAATGGCATTTAATTATA
1 TAAATGGCATTTAATTATA
98396045 TAAATGGCATTTAATTATA
1 TAAATGGCATTTAATTATA
98396064 T
1 T
98396065 GTATACACCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (19 bp):
TAAATGGCATTTAATTATA
Found at i:98396524 original size:15 final size:15
Alignment explanation
Indices: 98396499--98396541 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
98396489 ACACTAACTA
98396499 ATCTAAACCCTAAAC
1 ATCTAAACCCTAAAC
* *
98396514 TTCTAATCCCTAAAC
1 ATCTAAACCCTAAAC
98396529 AT-TAAACCCTAAA
1 ATCTAAACCCTAAA
98396542 ACATAAACCA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 10 0.42
15 14 0.58
ACGTcount: A:0.44, C:0.30, G:0.00, T:0.26
Consensus pattern (15 bp):
ATCTAAACCCTAAAC
Found at i:98396543 original size:15 final size:14
Alignment explanation
Indices: 98396502--98396550 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
98396492 CTAACTAATC
*
98396502 TAAACCCTAAACTT
1 TAAACCCTAAACAT
*
98396516 CTAATCCCTAAACAT
1 -TAAACCCTAAACAT
98396531 TAAACCCTAAAACA-
1 TAAACCCT-AAACAT
98396545 TAAACC
1 TAAACC
98396551 ATGAACCTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
14 13 0.43
15 17 0.57
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.22
Consensus pattern (14 bp):
TAAACCCTAAACAT
Found at i:98396578 original size:14 final size:14
Alignment explanation
Indices: 98396556--98396618 Score: 65
Period size: 14 Copynumber: 4.4 Consensus size: 14
98396546 AAACCATGAA
*
98396556 CCTTGAACCCCTCAC
1 CCTT-AACCCCTAAC
98396571 CCTTAACCCCTAAC
1 CCTTAACCCCTAAC
* * *
98396585 CCCTAACACCTAAA
1 CCTTAACCCCTAAC
98396599 CCTTAAACCCC-AAC
1 CCTT-AACCCCTAAC
98396613 CCTTAA
1 CCTTAA
98396619 ACTACCTTTA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
13 2 0.05
14 29 0.73
15 9 0.22
ACGTcount: A:0.32, C:0.48, G:0.02, T:0.19
Consensus pattern (14 bp):
CCTTAACCCCTAAC
Found at i:98396651 original size:15 final size:14
Alignment explanation
Indices: 98396627--98396661 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
98396617 AAACTACCTT
*
98396627 TAAACCATAATCCC
1 TAAACCATAATCCA
98396641 TAAATCCATAATCCA
1 TAAA-CCATAATCCA
98396656 TAAACC
1 TAAACC
98396662 TTAAAATAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.23
Consensus pattern (14 bp):
TAAACCATAATCCA
Found at i:98396760 original size:41 final size:41
Alignment explanation
Indices: 98396699--98396876 Score: 252
Period size: 41 Copynumber: 4.4 Consensus size: 41
98396689 CTAGTTGGTA
98396699 TCTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
1 TCTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
*
98396740 TCTTTAGCGGCGTTTCACCAAAAGCGCCGCTAATGCTCTGG
1 TCTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
* *
98396781 TCTTTAGCGGTGTTTTACCAAAAGCGCCGCTAATGCTCT-A
1 TCTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
* * * * *
98396821 TTTTTAGCGGCGTTTTAACAAAAAACGCCGCTATTGCTC-AG
1 TCTTTAGCGGCGTTTT-ACCAAAAGCGCCGCTAATGCTCTGG
*
98396862 TTTTTAGCGGCGTTT
1 TCTTTAGCGGCGTTT
98396877 AAAACGCCGC
Statistics
Matches: 125, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
40 14 0.11
41 111 0.89
ACGTcount: A:0.21, C:0.25, G:0.22, T:0.32
Consensus pattern (41 bp):
TCTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
Found at i:98397325 original size:24 final size:24
Alignment explanation
Indices: 98397293--98397381 Score: 85
Period size: 23 Copynumber: 3.6 Consensus size: 24
98397283 ATATATATAT
98397293 TATATATTATGTATATTTTTAATA
1 TATATATTATGTATATTTTTAATA
*
98397317 TATATATTATGTACATACTTTTAATA
1 TATATATTATGT--ATATTTTTAATA
* *
98397343 TCATCAT-GTAT-T-TATTTTTAAAA
1 T-AT-ATATTATGTATATTTTTAATA
98397366 TATATATGTATGTATA
1 TATATAT-TATGTATA
98397382 CTTATGTAAT
Statistics
Matches: 52, Mismatches: 5, Indels: 15
0.72 0.07 0.21
Matches are distributed among these distances:
21 2 0.04
22 2 0.04
23 13 0.25
24 13 0.25
25 2 0.04
26 13 0.25
27 5 0.10
28 2 0.04
ACGTcount: A:0.37, C:0.04, G:0.06, T:0.53
Consensus pattern (24 bp):
TATATATTATGTATATTTTTAATA
Found at i:98397338 original size:26 final size:24
Alignment explanation
Indices: 98397293--98397393 Score: 82
Period size: 26 Copynumber: 4.0 Consensus size: 24
98397283 ATATATATAT
*
98397293 TATATATTATGTATATTTTTAATA
1 TATATATTATGTATACTTTTAATA
98397317 TATATATTATGTACATACTTTTAATA
1 TATATATTATGT--ATACTTTTAATA
* * *
98397343 TCATCAT-GTAT-T-TATTTTTAAAA
1 T-AT-ATATTATGTATACTTTTAATA
98397366 TATATATGTATGTATACTTATGTAATA
1 TATATAT-TATGTATACTT-T-TAATA
98397393 T
1 T
98397394 CATTAATGGT
Statistics
Matches: 60, Mismatches: 7, Indels: 17
0.71 0.08 0.20
Matches are distributed among these distances:
21 2 0.03
22 2 0.03
23 13 0.22
24 13 0.22
25 4 0.07
26 14 0.23
27 10 0.17
28 2 0.03
ACGTcount: A:0.37, C:0.05, G:0.06, T:0.52
Consensus pattern (24 bp):
TATATATTATGTATACTTTTAATA
Found at i:98400328 original size:46 final size:45
Alignment explanation
Indices: 98400261--98400435 Score: 165
Period size: 46 Copynumber: 3.8 Consensus size: 45
98400251 TGTAACCCGC
*
98400261 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-TTAGTAT
* *
98400307 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGATGCCTAGT-T
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCTTAGTAT
* * * * ** * *
98400353 ACATCTCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTTGCAT
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-TTAGTAT
* *
98400400 CCATAAGTGAACTTGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
98400436 ATGCTCAACC
Statistics
Matches: 104, Mismatches: 18, Indels: 14
0.76 0.13 0.10
Matches are distributed among these distances:
45 3 0.03
46 66 0.63
47 31 0.30
48 4 0.04
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTAGTAT
Found at i:98400381 original size:93 final size:93
Alignment explanation
Indices: 98400269--98400439 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
98400259 GCCCATAAGT
** * *
98400269 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
98400334 TGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
* * *
98400362 GAACTCGGACTCAACTCAACGAGTTCGAACATTTGCATCCATAAGTGAACTTGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
98400427 CGAGTTCGGATGC
66 CGAGCTCGGATGC
98400440 TCAACCATCC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:98403926 original size:46 final size:46
Alignment explanation
Indices: 98403830--98404083 Score: 320
Period size: 46 Copynumber: 5.6 Consensus size: 46
98403820 AGACAGGTCT
* *
98403830 TGCATGTCCTAGACATGTCTTACACTAGC--ACATCTCGTA-GCCGA
1 TGCATGTCCCAGACATGTCTTACACTGGCTAACATCTCG-AGGCCGA
* *
98403874 CGCATGTCCCAGACATGTCTGACACTGGCTAACATCTCGAGGCCGA
1 TGCATGTCCCAGACATGTCTTACACTGGCTAACATCTCGAGGCCGA
** * *
98403920 TGCATGTCCCAGACATGTCTTACACTGGCTCTCATACT-GTGGCTGA
1 TGCATGTCCCAGACATGTCTTACACTGGCTAACAT-CTCGAGGCCGA
*
98403966 TGCATGTCCCAGACATGTCTGACACTGGCTAACATCTCGAGGCCGA
1 TGCATGTCCCAGACATGTCTTACACTGGCTAACATCTCGAGGCCGA
* ** * *
98404012 TGCATGTCCTAGACATGTCTTACACTGGCTCTCATACT-GTGGCTGA
1 TGCATGTCCCAGACATGTCTTACACTGGCTAACAT-CTCGAGGCCGA
98404058 TGCATGTCCCAGACATGTCTTACACT
1 TGCATGTCCCAGACATGTCTTACACT
98404084 AGCCCTCGTC
Statistics
Matches: 182, Mismatches: 22, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
44 25 0.14
45 3 0.02
46 150 0.82
47 4 0.02
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (46 bp):
TGCATGTCCCAGACATGTCTTACACTGGCTAACATCTCGAGGCCGA
Found at i:98404076 original size:138 final size:136
Alignment explanation
Indices: 98403830--98404083 Score: 368
Period size: 138 Copynumber: 1.9 Consensus size: 136
98403820 AGACAGGTCT
* *
98403830 TGCATGTCCTAGACATGTCTTACACTAGCACATCTCGTAGCCGACGCATGTCCCAGACATGTCTG
1 TGCATGTCCCAGACATGTCTGACACTAGCACATCTCGTAGCCGACGCATGTCCCAGACATGTCTG
98403895 ACACTGGCTAACATCTCGAGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATACTGT
66 ACACTGGCTAACATCTCGAGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATACTGT
98403960 GGCTGA
131 GGCTGA
* * *
98403966 TGCATGTCCCAGACATGTCTGACACTGGCTAACATCTCG-AGGCCGATGCATGTCCTAGACATGT
1 TGCATGTCCCAGACATGTCTGACACTAGC--ACATCTCGTA-GCCGACGCATGTCCCAGACATGT
* ** * *
98404030 CTTACACTGGCTCTCATACT-GTGGCTGATGCATGTCCCAGACATGTCTTACACT
63 CTGACACTGGCTAACAT-CTCGAGGCCGATGCATGTCCCAGACATGTCTTACACT
98404084 AGCCCTCGTC
Statistics
Matches: 104, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
136 26 0.25
137 1 0.01
138 75 0.72
139 2 0.02
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (136 bp):
TGCATGTCCCAGACATGTCTGACACTAGCACATCTCGTAGCCGACGCATGTCCCAGACATGTCTG
ACACTGGCTAACATCTCGAGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATACTGT
GGCTGA
Found at i:98404106 original size:92 final size:92
Alignment explanation
Indices: 98403830--98404083 Score: 415
Period size: 92 Copynumber: 2.8 Consensus size: 92
98403820 AGACAGGTCT
* * * * *
98403830 TGCATGTCCTAGACATGTCTTACACTAG--CACAT-CTCGTAGCCGACGCATGTCCCAGACATGT
1 TGCATGTCCTAGACATGTCTTACACTGGCTCTCATACT-GTGGCTGATGCATGTCCCAGACATGT
98403892 CTGACACTGGCTAACATCTCGAGGCCGA
65 CTGACACTGGCTAACATCTCGAGGCCGA
*
98403920 TGCATGTCCCAGACATGTCTTACACTGGCTCTCATACTGTGGCTGATGCATGTCCCAGACATGTC
1 TGCATGTCCTAGACATGTCTTACACTGGCTCTCATACTGTGGCTGATGCATGTCCCAGACATGTC
98403985 TGACACTGGCTAACATCTCGAGGCCGA
66 TGACACTGGCTAACATCTCGAGGCCGA
98404012 TGCATGTCCTAGACATGTCTTACACTGGCTCTCATACTGTGGCTGATGCATGTCCCAGACATGTC
1 TGCATGTCCTAGACATGTCTTACACTGGCTCTCATACTGTGGCTGATGCATGTCCCAGACATGTC
*
98404077 TTACACT
66 TGACACT
98404084 AGCCCTCGTC
Statistics
Matches: 153, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
90 26 0.17
92 125 0.82
93 2 0.01
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (92 bp):
TGCATGTCCTAGACATGTCTTACACTGGCTCTCATACTGTGGCTGATGCATGTCCCAGACATGTC
TGACACTGGCTAACATCTCGAGGCCGA
Found at i:98406945 original size:46 final size:46
Alignment explanation
Indices: 98406878--98407047 Score: 170
Period size: 46 Copynumber: 3.7 Consensus size: 46
98406868 TGTAACCCGC
98406878 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* *
98406924 CCATAAGTGAACTTGGACTCAACTCAATGAGCTCGGATGCCTAGTTACG--T
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTT-CGCAT
* * * ** *
98406974 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
98407017 CCATAAGTGAACTTGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
98407048 TTCAGATGCT
Statistics
Matches: 100, Mismatches: 13, Indels: 22
0.74 0.10 0.16
Matches are distributed among these distances:
41 2 0.02
42 2 0.02
43 1 0.01
44 2 0.02
45 2 0.02
46 56 0.56
47 24 0.24
48 3 0.03
49 2 0.02
50 1 0.01
51 3 0.03
52 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:98407056 original size:93 final size:93
Alignment explanation
Indices: 98406886--98407056 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
98406876 GCCCATAAGT
** *
98406886 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTTGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTTGGACTCAACTCAA
* *
98406951 TGAGCTCGGATGCCTAGTTACGTCTCAC
66 CGAGCTCAGATGCCTAGTTACGTCTCAC
*
98406979 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTTGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTTGGACTCAACTCAA
*
98407044 CGAGTTCAGATGC
66 CGAGCTCAGATGC
98407057 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTTGGACTCAACTCAA
CGAGCTCAGATGCCTAGTTACGTCTCAC
Found at i:98407072 original size:46 final size:45
Alignment explanation
Indices: 98406979--98407064 Score: 111
Period size: 46 Copynumber: 1.9 Consensus size: 45
98406969 TACGTCTCAC
* *
98406979 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTC-AACATGCGCAACCATAAGT
* * *
98407025 GAACTTGGACTCAACTCAACGAGTTC-AGATGCTCAACCAT
1 GAACTCGGACTCAACTCAACGAGTTCAACATGCGCAACCAT
98407065 CCTAGTGACA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 10 0.29
46 25 0.71
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.22
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCAACATGCGCAACCATAAGT
Found at i:98416498 original size:30 final size:31
Alignment explanation
Indices: 98416462--98416530 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
98416452 TGATTTCAAT
98416462 TCAATCACTCAAC-TT-TCGAAAAATAACAAA
1 TCAATCACT-AACGTTATCGAAAAATAACAAA
* *
98416492 TCAATCACTAACGTTATCGAAAAGTGACAAA
1 TCAATCACTAACGTTATCGAAAAATAACAAA
*
98416523 TCAGTCAC
1 TCAATCAC
98416531 CCATTAACAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 3 0.09
30 11 0.32
31 20 0.59
ACGTcount: A:0.45, C:0.23, G:0.09, T:0.23
Consensus pattern (31 bp):
TCAATCACTAACGTTATCGAAAAATAACAAA
Found at i:98420554 original size:30 final size:30
Alignment explanation
Indices: 98420513--98420572 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
98420503 CATTTATTGT
*
98420513 TAACATTAATGGCAGACAAACAATAATGGC
1 TAACATTAATGGCAAACAAACAATAATGGC
*
98420543 TAACGTTAATGGCAAACAAACAATAATGGC
1 TAACATTAATGGCAAACAAACAATAATGGC
98420573 AGCCATCAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.47, C:0.17, G:0.17, T:0.20
Consensus pattern (30 bp):
TAACATTAATGGCAAACAAACAATAATGGC
Found at i:98423373 original size:21 final size:21
Alignment explanation
Indices: 98423334--98423373 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
98423324 CAGACAAGCG
* * *
98423334 ATACTCCACAGCAGGTGGAAT
1 ATACTCCAAAACAGATGGAAT
98423355 ATACTCCAAAACAGATGGA
1 ATACTCCAAAACAGATGGA
98423374 GTTTGAGTAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.23, G:0.20, T:0.17
Consensus pattern (21 bp):
ATACTCCAAAACAGATGGAAT
Done.