Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 33 of 292
Found at i:8881733 original size:40 final size:40
Alignment explanation
Indices: 8881678--8881924 Score: 270
Period size: 40 Copynumber: 6.2 Consensus size: 40
8881668 TTGACACTAC
* * *
8881678 TTTCAGTAAAATCAGTAGGTATGGCTCTATAGAGCATACT
1 TTTCAGTAAATTCAGTAGGTATGGCTCAATAGAGCATACA
* * *
8881718 TTTTAGTAAATTCAGTAGGTATGGCGT-GATAGATCATAC-
1 TTTCAGTAAATTCAGTAGGTATGGC-TCAATAGAGCATACA
*
8881757 TTTCAGTAGAA-TCAGTAGGTATGGTTCAATA-ACGCATACA
1 TTTCAGTA-AATTCAGTAGGTATGGCTCAATAGA-GCATACA
* * *
8881797 TTTCAGTAAATTTAGTAGGTATGGCTCAATAGCGTATACA
1 TTTCAGTAAATTCAGTAGGTATGGCTCAATAGAGCATACA
* * *
8881837 TTTCAGTATATTCAGTAGGTATTGCTCAATAGCGCATACA
1 TTTCAGTAAATTCAGTAGGTATGGCTCAATAGAGCATACA
* * * *
8881877 TTTCAATAGATTCAGTAGGTATGGCTCAATA-ACGTATACG
1 TTTCAGTAAATTCAGTAGGTATGGCTCAATAGA-GCATACA
8881917 TTTCAGTA
1 TTTCAGTA
8881925 GCTAACACTC
Statistics
Matches: 176, Mismatches: 23, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.01
39 30 0.17
40 143 0.81
41 1 0.01
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (40 bp):
TTTCAGTAAATTCAGTAGGTATGGCTCAATAGAGCATACA
Found at i:8881873 original size:80 final size:79
Alignment explanation
Indices: 8881675--8881924 Score: 306
Period size: 80 Copynumber: 3.1 Consensus size: 79
8881665 TCATTGACAC
* * * *
8881675 TACTTTCAGTAAAATCAGTAGGTATGGCTCTATAGAGCATACTTTTTAGTAAATTCAGTAGGTAT
1 TACTTTCAGTAAAATCAGTAGGTATGGCTCAATAGCGCATACATTTCAGTAAATTCAGTAGGTAT
* *
8881740 GGCGT-GATAG-ATCA
66 GGC-TCAATAGCGT-A
* * * *
8881754 TACTTTCAGTAGAATCAGTAGGTATGGTTCAATAACGCATACATTTCAGTAAATTTAGTAGGTAT
1 TACTTTCAGTAAAATCAGTAGGTATGGCTCAATAGCGCATACATTTCAGTAAATTCAGTAGGTAT
8881819 GGCTCAATAGCGTA
66 GGCTCAATAGCGTA
* * * * *
8881833 TACATTTCAGTATATTCAGTAGGTATTGCTCAATAGCGCATACATTTCAATAGATTCAGTAGGTA
1 TAC-TTTCAGTAAAATCAGTAGGTATGGCTCAATAGCGCATACATTTCAGTAAATTCAGTAGGTA
*
8881898 TGGCTCAATAACGTA
65 TGGCTCAATAGCGTA
8881913 TACGTTTCAGTA
1 TAC-TTTCAGTA
8881925 GCTAACACTC
Statistics
Matches: 148, Mismatches: 20, Indels: 5
0.86 0.12 0.03
Matches are distributed among these distances:
78 1 0.01
79 68 0.46
80 79 0.53
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (79 bp):
TACTTTCAGTAAAATCAGTAGGTATGGCTCAATAGCGCATACATTTCAGTAAATTCAGTAGGTAT
GGCTCAATAGCGTA
Found at i:8886402 original size:18 final size:19
Alignment explanation
Indices: 8886370--8886409 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
8886360 GTGACCTTTG
* *
8886370 TTTTTAAAATTTTTAGATT
1 TTTTTAAAATCTTTAAATT
8886389 TTTTTAAAA-CTTTAAATT
1 TTTTTAAAATCTTTAAATT
8886407 TTT
1 TTT
8886410 GTTTTAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (19 bp):
TTTTTAAAATCTTTAAATT
Found at i:8887577 original size:25 final size:27
Alignment explanation
Indices: 8887540--8887592 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
8887530 TCAAACATGC
8887540 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
8887566 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
8887592 A
1 A
8887593 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:8889110 original size:26 final size:26
Alignment explanation
Indices: 8889074--8889157 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
8889064 CATGAAATTC
8889074 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
8889100 TTATCATGAAACATTTACCCAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
8889126 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
8889152 TTATCA
1 TTATCA
8889158 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.37, C:0.26, G:0.05, T:0.32
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:8892174 original size:136 final size:136
Alignment explanation
Indices: 8891930--8892351 Score: 781
Period size: 136 Copynumber: 3.1 Consensus size: 136
8891920 TATTGGGCCT
** * *
8891930 AAGCCCATTCAGGTAACAGTGGTACTAGGCCAGAGCCCTTTTCAAATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
8891995 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
8892060 ATATGC
131 ATATGC
8892066 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
8892131 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
8892196 ATATGC
131 ATATGC
8892202 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
* *
8892267 AGACCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
8892332 CATATGC
130 CATATGC
8892339 AAGCCCATTTGGG
1 AAGCCCATTTGGG
8892352 GAGACTACTC
Statistics
Matches: 279, Mismatches: 6, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
136 257 0.92
137 22 0.08
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
ATATGC
Found at i:8892635 original size:25 final size:27
Alignment explanation
Indices: 8892598--8892650 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
8892588 TCAAACATGC
8892598 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
8892624 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
8892650 A
1 A
8892651 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:8894169 original size:26 final size:26
Alignment explanation
Indices: 8894133--8894242 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
8894123 CATGAAATTC
*
8894133 TTATCATGAAACATTTACCTAAACCA
1 TTATCATGAAACATTTACCTAACCCA
8894159 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
8894185 TTATCATGGAATATTTACCTAATCCA
1 TTATCATGAAACATTTACCTAACCCA
*
8894211 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
8894237 TTATCA
1 TTATCA
8894243 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:8894664 original size:3 final size:3
Alignment explanation
Indices: 8894650--8894680 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
8894640 CTAAATCCTC
*
8894650 TAT TAT TGT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
8894681 TGGTTAAGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:8900911 original size:2 final size:2
Alignment explanation
Indices: 8900904--8900937 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
8900894 TTTTAAAATT
8900904 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8900938 AAGAAGTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8901563 original size:11 final size:11
Alignment explanation
Indices: 8901503--8901575 Score: 71
Period size: 11 Copynumber: 6.8 Consensus size: 11
8901493 AAATTGTGCA
*
8901503 TATTAAACATAA
1 TATTAAA-ATAT
8901515 TATTAAAATAT
1 TATTAAAATAT
*
8901526 TA-T-AAATGT
1 TATTAAAATAT
8901535 TATT-AAATAT
1 TATTAAAATAT
* *
8901545 TATGAAAATAA
1 TATTAAAATAT
8901556 TATTAAAATAT
1 TATTAAAATAT
*
8901567 TATAAAAAT
1 TATTAAAAT
8901576 TTAGAAAGGA
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
9 7 0.14
10 10 0.20
11 27 0.53
12 7 0.14
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.40
Consensus pattern (11 bp):
TATTAAAATAT
Found at i:8904179 original size:13 final size:13
Alignment explanation
Indices: 8904161--8904185 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8904151 CTAAGCACAC
8904161 GCCTGTGTCCCTA
1 GCCTGTGTCCCTA
8904174 GCCTGTGTCCCT
1 GCCTGTGTCCCT
8904186 CACACGGCCT
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:0.04, C:0.40, G:0.24, T:0.32
Consensus pattern (13 bp):
GCCTGTGTCCCTA
Found at i:8908068 original size:18 final size:18
Alignment explanation
Indices: 8908047--8908082 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
8908037 CAATTAAACC
8908047 ATTTGATTGATATATTTA
1 ATTTGATTGATATATTTA
* *
8908065 ATTTGATTTATTTATTTA
1 ATTTGATTGATATATTTA
8908083 TAAATAAATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.61
Consensus pattern (18 bp):
ATTTGATTGATATATTTA
Found at i:8908143 original size:18 final size:18
Alignment explanation
Indices: 8908122--8908156 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
8908112 TAATTTAAAA
8908122 TATAAATTTATTAATATG
1 TATAAATTTATTAATATG
8908140 TATAAATTTATTAATAT
1 TATAAATTTATTAATAT
8908157 ATGTAAAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (18 bp):
TATAAATTTATTAATATG
Found at i:8908163 original size:18 final size:18
Alignment explanation
Indices: 8908121--8908163 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
8908111 ATAATTTAAA
8908121 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
*
8908139 GTATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
*
8908157 ATGTAAA
1 ATATAAA
8908164 AACAACTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.47
Consensus pattern (18 bp):
ATATAAATTTATTAATAT
Found at i:8908284 original size:19 final size:19
Alignment explanation
Indices: 8908239--8908284 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
8908229 CATCTAAACA
8908239 CCAAAAAGGTAAATCATTT
1 CCAAAAAGGTAAATCATTT
8908258 CCAGAAAA-GTAAATCATTTT
1 CCA-AAAAGGTAAATCA-TTT
8908278 CCAAAAA
1 CCAAAAA
8908285 TCATTTTTCG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.50, C:0.17, G:0.09, T:0.24
Consensus pattern (19 bp):
CCAAAAAGGTAAATCATTT
Found at i:8908287 original size:14 final size:14
Alignment explanation
Indices: 8908268--8908305 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
8908258 CCAGAAAAGT
8908268 AAATCATTTTCCAA
1 AAATCATTTTCCAA
*
8908282 AAATCATTTTTCGAA
1 AAATCA-TTTTCCAA
8908297 AAA-CATTTT
1 AAATCATTTT
8908306 ACTGGCAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 4 0.18
14 8 0.36
15 10 0.45
ACGTcount: A:0.42, C:0.16, G:0.03, T:0.39
Consensus pattern (14 bp):
AAATCATTTTCCAA
Found at i:8908298 original size:15 final size:15
Alignment explanation
Indices: 8908268--8908305 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
8908258 CCAGAAAAGT
8908268 AAATCA-TTTTCCAA
1 AAATCATTTTTCCAA
*
8908282 AAATCATTTTTCGAA
1 AAATCATTTTTCCAA
8908297 AAA-CATTTT
1 AAATCATTTT
8908306 ACTGGCAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.42, C:0.16, G:0.03, T:0.39
Consensus pattern (15 bp):
AAATCATTTTTCCAA
Found at i:8908553 original size:21 final size:21
Alignment explanation
Indices: 8908507--8908554 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
8908497 ATGTGTAATA
*
8908507 ATTTTTTTAATTTTAATATAAT
1 ATTTTTTTAATTTT-ATATAAC
*
8908529 ATTTTTTCTAATTTT-TATAGC
1 ATTTTTT-TAATTTTATATAAC
8908550 ATTTT
1 ATTTT
8908555 AATAAATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 9 0.39
22 7 0.30
23 7 0.30
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (21 bp):
ATTTTTTTAATTTTATATAAC
Found at i:8909978 original size:76 final size:76
Alignment explanation
Indices: 8909844--8910133 Score: 307
Period size: 76 Copynumber: 3.8 Consensus size: 76
8909834 TCAGATCTTG
* ** * * * * * *
8909844 CCACTAAGTCTTTTCAAATAATATG-TCACATAGGCTTGTCAGGTAACTCATCGCAAAGGCTTTC
1 CCACTAAGGCTTCCCAAATAATACGCT-ACATAGGCTTTTCAAGCAACTCGTCACAAAGGCTTTC
*
8909908 CAAATAAATTCA
65 CAGATAAATTCA
* * * * *
8909920 CCACTAAGGCTTCCCAAATAAAACACTACATAGGCTTTTCAAGCAACT-GGCTATAAAGGCTTCC
1 CCACTAAGGCTTCCCAAATAATACGCTACATAGGCTTTTCAAGCAACTCGTC-ACAAAGGCTTTC
8909984 CAGATAAATTCA
65 CAGATAAATTCA
* * * * *
8909996 TCATTAAGGCTTCCCAAAT-ATACGCCACATAGGCTTTTCAGGTAACTCGTCACAAAGGCTTTCC
1 CCACTAAGGCTTCCCAAATAATACGCTACATAGGCTTTTCAAGCAACTCGTCACAAAGGCTTTCC
* *
8910060 AGATAATTTCG
66 AGATAAATTCA
* * * *
8910071 CCACTAAGGCTTCCTAAATAATACGCTACATAGGCTTTTTAGGTAACTCGTCACAAAGGCTTT
1 CCACTAAGGCTTCCCAAATAATACGCTACATAGGCTTTTCAAGCAACTCGTCACAAAGGCTTT
8910134 GTGTGGTTTG
Statistics
Matches: 178, Mismatches: 32, Indels: 8
0.82 0.15 0.04
Matches are distributed among these distances:
75 60 0.34
76 117 0.66
77 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.28
Consensus pattern (76 bp):
CCACTAAGGCTTCCCAAATAATACGCTACATAGGCTTTTCAAGCAACTCGTCACAAAGGCTTTCC
AGATAAATTCA
Found at i:8910054 original size:25 final size:25
Alignment explanation
Indices: 8910021--8910133 Score: 70
Period size: 25 Copynumber: 4.5 Consensus size: 25
8910011 AAATATACGC
* * *
8910021 CACATAGGCTTTTCAGGTAACTCGT
1 CACAAAGGCTTTCCAGATAACTCGT
* *
8910046 CACAAAGGCTTTCCAGATAATTTCGC
1 CACAAAGGCTTTCCAGATAA-CTCGT
* *
8910072 CACTAAGGC-TTCCTAAATAA-TACG-
1 CACAAAGGCTTTCC-AGATAACT-CGT
* ** *
8910096 CTACATAGGCTTTTTAGGTAACTCGT
1 C-ACAAAGGCTTTCCAGATAACTCGT
8910122 CACAAAGGCTTT
1 CACAAAGGCTTT
8910134 GTGTGGTTTG
Statistics
Matches: 67, Mismatches: 14, Indels: 14
0.71 0.15 0.15
Matches are distributed among these distances:
24 2 0.03
25 45 0.67
26 20 0.30
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (25 bp):
CACAAAGGCTTTCCAGATAACTCGT
Found at i:8913387 original size:27 final size:28
Alignment explanation
Indices: 8913331--8913400 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
8913321 AAATTTGTAC
8913331 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
8913359 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
8913386 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
8913401 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:8913411 original size:27 final size:27
Alignment explanation
Indices: 8913331--8913412 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
8913321 AAATTTGTAC
* *
8913331 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
8913359 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
8913386 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
8913413 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:8917225 original size:33 final size:33
Alignment explanation
Indices: 8917182--8917334 Score: 198
Period size: 33 Copynumber: 4.6 Consensus size: 33
8917172 TTTCTATTTA
* *
8917182 GTGTGCTGGTTGGATTAGTTCTTATGAGCATTG
1 GTGTGATGGTTGGATTAGCTCTTATGAGCATTG
* * * *
8917215 GTGTGATGGTTGGTTTAGCTTTTATAAGCGTTG
1 GTGTGATGGTTGGATTAGCTCTTATGAGCATTG
* **
8917248 GTGTGATGGTTGGTTTAGCTCTTATGAGCGCTG
1 GTGTGATGGTTGGATTAGCTCTTATGAGCATTG
*
8917281 GTGTGATGGTTGGATTAGCTCTTATGAGCATTA
1 GTGTGATGGTTGGATTAGCTCTTATGAGCATTG
* *
8917314 GTGTGATGGATGGATTGGCTC
1 GTGTGATGGTTGGATTAGCTC
8917335 AAGTGAGCAT
Statistics
Matches: 105, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 105 1.00
ACGTcount: A:0.16, C:0.09, G:0.35, T:0.41
Consensus pattern (33 bp):
GTGTGATGGTTGGATTAGCTCTTATGAGCATTG
Found at i:8920775 original size:15 final size:15
Alignment explanation
Indices: 8920755--8920807 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
8920745 GACACACAGC
*
8920755 TGTGTCACTTGACTG
1 TGTGTCACTTGACCG
** *
8920770 TGTGTCAC-ACACGG
1 TGTGTCACTTGACCG
8920784 CTGTGTCACTTGACCG
1 -TGTGTCACTTGACCG
8920800 TGTGTCAC
1 TGTGTCAC
8920808 ACACGGCTAT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
14 3 0.10
15 24 0.80
16 3 0.10
ACGTcount: A:0.15, C:0.26, G:0.26, T:0.32
Consensus pattern (15 bp):
TGTGTCACTTGACCG
Found at i:8920812 original size:30 final size:30
Alignment explanation
Indices: 8920746--8920815 Score: 122
Period size: 30 Copynumber: 2.3 Consensus size: 30
8920736 ACACCAGGAG
* *
8920746 ACACACAGCTGTGTCACTTGACTGTGTGTC
1 ACACACGGCTGTGTCACTTGACCGTGTGTC
8920776 ACACACGGCTGTGTCACTTGACCGTGTGTC
1 ACACACGGCTGTGTCACTTGACCGTGTGTC
8920806 ACACACGGCT
1 ACACACGGCT
8920816 ATTTACCCAG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.20, C:0.30, G:0.24, T:0.26
Consensus pattern (30 bp):
ACACACGGCTGTGTCACTTGACCGTGTGTC
Found at i:8924147 original size:102 final size:102
Alignment explanation
Indices: 8923966--8924169 Score: 390
Period size: 102 Copynumber: 2.0 Consensus size: 102
8923956 AAAAAAATAA
*
8923966 GATATTTATTAATTACATCAAAGTTTCAAAACAACATATGACGTTAAAACTTTAAACTTTATTAA
1 GATATTTATTAATTACATCAAAGTTTCAAAACAACAAATGACGTTAAAACTTTAAACTTTATTAA
*
8924031 AGACAAACTCTACATAGTGTAGTGTACTAAGCGCCAT
66 AGACAAACTATACATAGTGTAGTGTACTAAGCGCCAT
8924068 GATATTTATTAATTACATCAAAGTTTCAAAACAACAAATGACGTTAAAACTTTAAACTTTATTAA
1 GATATTTATTAATTACATCAAAGTTTCAAAACAACAAATGACGTTAAAACTTTAAACTTTATTAA
8924133 AGACAAACTATACATAGTGTAGTGTACTAAGCGCCAT
66 AGACAAACTATACATAGTGTAGTGTACTAAGCGCCAT
8924170 ACTCCTATGG
Statistics
Matches: 100, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
102 100 1.00
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.32
Consensus pattern (102 bp):
GATATTTATTAATTACATCAAAGTTTCAAAACAACAAATGACGTTAAAACTTTAAACTTTATTAA
AGACAAACTATACATAGTGTAGTGTACTAAGCGCCAT
Found at i:8925251 original size:23 final size:23
Alignment explanation
Indices: 8925225--8925300 Score: 71
Period size: 23 Copynumber: 3.3 Consensus size: 23
8925215 AAACTTCGCA
*
8925225 ACAAGGGCATTATAGAATACGCC
1 ACAAAGGCATTATAGAATACGCC
* * * *
8925248 ACAAAGGTATTACAAAATATGCC
1 ACAAAGGCATTATAGAATACGCC
* * **
8925271 ATAAAGGCATCATAGAATAAACC
1 ACAAAGGCATTATAGAATACGCC
8925294 ACAAAGG
1 ACAAAGG
8925301 TTTTCCAGAG
Statistics
Matches: 40, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.47, C:0.18, G:0.17, T:0.17
Consensus pattern (23 bp):
ACAAAGGCATTATAGAATACGCC
Found at i:8929647 original size:76 final size:76
Alignment explanation
Indices: 8929551--8929763 Score: 246
Period size: 76 Copynumber: 2.8 Consensus size: 76
8929541 CTCAAATCTT
* * * * *
8929551 GCCACTAAGACTTCCCAAATAATATGTTACATAGGCTTTTTAGGTGACTCGCCACAAAGGCAATC
1 GCCACTAAGGCTTCCCAAATAATATGTCACATAGGCTTTTCAGGTAACTCACCACAAAGGCAATC
8929616 CAGATAAATTA
66 CAGATAAATTA
* * ***
8929627 TCTACTAAGGCTTCCCAAATAATATGTCACATAGGCTTTTCAGGTAACTCACCACAAAGGTTTTC
1 GCCACTAAGGCTTCCCAAATAATATGTCACATAGGCTTTTCAGGTAACTCACCACAAAGGCAATC
*
8929692 CAGATAAATTC
66 CAGATAAATTA
* * *** * * * *
8929703 GCCACTAAGGCTTTCCAAATCATACACCATATAAGCTTTTCAAGTAACTCGCCACAAAGGC
1 GCCACTAAGGCTTCCCAAATAATATGTCACATAGGCTTTTCAGGTAACTCACCACAAAGGC
8929764 TTTGCTTTGT
Statistics
Matches: 114, Mismatches: 23, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
76 114 1.00
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.27
Consensus pattern (76 bp):
GCCACTAAGGCTTCCCAAATAATATGTCACATAGGCTTTTCAGGTAACTCACCACAAAGGCAATC
CAGATAAATTA
Found at i:8929765 original size:25 final size:25
Alignment explanation
Indices: 8929654--8929766 Score: 70
Period size: 25 Copynumber: 4.5 Consensus size: 25
8929644 AATAATATGT
* *
8929654 CACATAGGCTTTTCAGGTAACTCAC
1 CACAAAGGCTTTTCAAGTAACTCAC
* * *
8929679 CACAAAGG-TTTTCCAGATAAATTCGC
1 CACAAAGGCTTTTCAAG-T-AACTCAC
* * * *
8929705 CACTAAGGCTTTCCAAATCA-TACAC
1 CACAAAGGCTTTTCAAGTAACT-CAC
* *
8929730 CATATAA-GCTTTTCAAGTAACTCGC
1 CACA-AAGGCTTTTCAAGTAACTCAC
8929755 CACAAAGGCTTT
1 CACAAAGGCTTT
8929767 GCTTTGTTTG
Statistics
Matches: 63, Mismatches: 18, Indels: 14
0.66 0.19 0.15
Matches are distributed among these distances:
24 9 0.14
25 33 0.52
26 16 0.25
27 5 0.08
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (25 bp):
CACAAAGGCTTTTCAAGTAACTCAC
Found at i:8940235 original size:31 final size:31
Alignment explanation
Indices: 8940175--8940244 Score: 95
Period size: 31 Copynumber: 2.3 Consensus size: 31
8940165 CTTAAAAGAC
* **
8940175 AAATTTTTGAATAGTTCAGTGACTTAATTAA
1 AAATTTTTGAATAATTCAGTGACCAAATTAA
*
8940206 AAATTTTTGAATAATTCAGTGACCAAATTAT
1 AAATTTTTGAATAATTCAGTGACCAAATTAA
*
8940237 AACTTTTT
1 AAATTTTT
8940245 TAATTAAGCC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.39, C:0.09, G:0.10, T:0.43
Consensus pattern (31 bp):
AAATTTTTGAATAATTCAGTGACCAAATTAA
Found at i:8944086 original size:15 final size:16
Alignment explanation
Indices: 8944068--8944097 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8944058 ATTACTTAAT
8944068 TTAAAA-TTATTATTG
1 TTAAAATTTATTATTG
8944083 TTAAAATTTATTATT
1 TTAAAATTTATTATT
8944098 AAAACAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (16 bp):
TTAAAATTTATTATTG
Found at i:8944230 original size:22 final size:22
Alignment explanation
Indices: 8944197--8944241 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
8944187 ATGTTTAATA
8944197 ATATTGAAATTTATAATAT-TTG
1 ATATTGAAATTTA-AATATGTTG
8944219 ATATT-AATATTTAAATATGTTG
1 ATATTGAA-ATTTAAATATGTTG
8944241 A
1 A
8944242 AAAAAATGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (22 bp):
ATATTGAAATTTAAATATGTTG
Found at i:8944451 original size:9 final size:9
Alignment explanation
Indices: 8944437--8944470 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
8944427 GTTTTCGAAT
8944437 TCGAATAAC
1 TCGAATAAC
8944446 TCGAATAAC
1 TCGAATAAC
* *
8944455 TTGAATAAT
1 TCGAATAAC
8944464 TCGAATA
1 TCGAATA
8944471 TCAAACTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.29
Consensus pattern (9 bp):
TCGAATAAC
Found at i:8944553 original size:30 final size:30
Alignment explanation
Indices: 8944519--8944603 Score: 152
Period size: 30 Copynumber: 2.8 Consensus size: 30
8944509 AAATCTTTTT
8944519 ACTTTTCCCTCAAAACTTTTACTCCTTCCC
1 ACTTTTCCCTCAAAACTTTTACTCCTTCCC
*
8944549 ACTTTCCCCTCAAAACTTTTACTCCTTCCC
1 ACTTTTCCCTCAAAACTTTTACTCCTTCCC
*
8944579 ACTTTTCCCCCAAAACTTTTACTCC
1 ACTTTTCCCTCAAAACTTTTACTCC
8944604 CCTTCCATCC
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.21, C:0.41, G:0.00, T:0.38
Consensus pattern (30 bp):
ACTTTTCCCTCAAAACTTTTACTCCTTCCC
Found at i:8946990 original size:16 final size:16
Alignment explanation
Indices: 8946965--8946995 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8946955 TGAGATTAAC
8946965 TGTAAAGAAGCTAAAT
1 TGTAAAGAAGCTAAAT
*
8946981 TGTAATGAAGCTAAA
1 TGTAAAGAAGCTAAA
8946996 CATAGTAGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.06, G:0.19, T:0.26
Consensus pattern (16 bp):
TGTAAAGAAGCTAAAT
Found at i:8949005 original size:46 final size:46
Alignment explanation
Indices: 8948687--8949004 Score: 433
Period size: 46 Copynumber: 6.9 Consensus size: 46
8948677 TTTGACATGA
* * * * *
8948687 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATATCACGT
** *
8948733 TGCCATGGTATCTTTCAACCATGGTCTTA-TTTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
*
8948778 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
* * * *
8948824 TGCCATGGTATCTTCCAACCATAGTTTTATTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
* *
8948870 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
* * *
8948916 TGTCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
* *
8948962 TGTCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCA
8949005 GAGAGCACAC
Statistics
Matches: 251, Mismatches: 19, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
44 4 0.02
45 37 0.15
46 210 0.84
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
Found at i:8949171 original size:58 final size:54
Alignment explanation
Indices: 8949042--8949173 Score: 142
Period size: 54 Copynumber: 2.4 Consensus size: 54
8949032 TTACAGTGGG
* * * *
8949042 ATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTCGGG
1 ATTACCAGTCCAGGCTAAATCCCCTGCAATACAAACTCATAGAGTATGGTCGGA
* *
8949096 ATTACCAGTCCAAGCTAAATCCCCTGCAATGACAATTACTC-TAATGAGCT-TGGTCTGA
1 ATTACCAGTCCAGGCTAAATCCCCTGCAAT-ACAA--ACTCAT-A-GAG-TATGGTCGGA
8949154 ATTACCAGTCCAGGCTAAAT
1 ATTACCAGTCCAGGCTAAAT
8949174 TCAGACCCTA
Statistics
Matches: 65, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
54 28 0.43
55 3 0.05
56 1 0.02
57 5 0.08
58 27 0.42
59 1 0.02
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (54 bp):
ATTACCAGTCCAGGCTAAATCCCCTGCAATACAAACTCATAGAGTATGGTCGGA
Found at i:8951146 original size:11 final size:11
Alignment explanation
Indices: 8951130--8951177 Score: 60
Period size: 11 Copynumber: 4.2 Consensus size: 11
8951120 CTTTATATAC
8951130 TAATAAAATAA
1 TAATAAAATAA
8951141 TAATAAAATATA
1 TAATAAAATA-A
* *
8951153 TTATTAAAATAT
1 -TAATAAAATAA
8951165 TAATAAAATAA
1 TAATAAAATAA
8951176 TA
1 TA
8951178 TTTATCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 21 0.68
12 1 0.03
13 9 0.29
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:8951160 original size:24 final size:24
Alignment explanation
Indices: 8951124--8951179 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
8951114 TTCTTTCTTT
*
8951124 ATATACTAATAAAATAATAATAAA
1 ATATATTAATAAAATAATAATAAA
* *
8951148 ATATATTATTAAAATATTAATAAA
1 ATATATTAATAAAATAATAATAAA
8951172 ATAATATT
1 AT-ATATT
8951180 TATCTAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 23 0.82
25 5 0.18
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (24 bp):
ATATATTAATAAAATAATAATAAA
Found at i:8962938 original size:26 final size:26
Alignment explanation
Indices: 8962909--8962958 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
8962899 GCAATTCATA
8962909 TGCGAACGATAACAGTTTTTAGTTAT
1 TGCGAACGATAACAGTTTTTAGTTAT
8962935 TGCGAACGATAACAGTTTTTAGTT
1 TGCGAACGATAACAGTTTTTAGTT
8962959 TGAGCAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (26 bp):
TGCGAACGATAACAGTTTTTAGTTAT
Found at i:8965929 original size:21 final size:20
Alignment explanation
Indices: 8965892--8965934 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
8965882 TATAATTTTA
* *
8965892 TATGTATTTTTAGAAAATAT
1 TATGCATTTTTAGAAAAAAT
*
8965912 TATGCATTTTTATCAAAAAAT
1 TATGCATTTTTA-GAAAAAAT
8965933 TA
1 TA
8965935 ACTTTTAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.47
Consensus pattern (20 bp):
TATGCATTTTTAGAAAAAAT
Found at i:8968511 original size:23 final size:24
Alignment explanation
Indices: 8968479--8968523 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
8968469 AACTGAAACT
*
8968479 CTCCCAATTATCTC-CTAAAATCA
1 CTCCCAATTAACTCACTAAAATCA
*
8968502 CTCCCTATTAACTCACTAAAAT
1 CTCCCAATTAACTCACTAAAAT
8968524 GCAACTACTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.31
Consensus pattern (24 bp):
CTCCCAATTAACTCACTAAAATCA
Found at i:8970444 original size:6 final size:6
Alignment explanation
Indices: 8970433--8970465 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
8970423 TTGGAATATC
8970433 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT
8970466 CTTCTGATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:8973621 original size:32 final size:32
Alignment explanation
Indices: 8973580--8973640 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
8973570 ATTACTCAAT
8973580 TTTGGAATTTGATAATTTAAGTTATTCTTAAG
1 TTTGGAATTTGATAATTTAAGTTATTCTTAAG
8973612 TTTGGAATTTGATAATTTAAGTTATTCTT
1 TTTGGAATTTGATAATTTAAGTTATTCTT
8973641 TTTGTTGATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.30, C:0.03, G:0.15, T:0.52
Consensus pattern (32 bp):
TTTGGAATTTGATAATTTAAGTTATTCTTAAG
Found at i:8973885 original size:26 final size:26
Alignment explanation
Indices: 8973838--8973888 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
8973828 TTTAATTTGG
**
8973838 AATTATAAAAATTATTTTAAAATTAT
1 AATTATAAAAATTATTGAAAAATTAT
* *
8973864 AATTATACAAATTCTTGAAAAATTA
1 AATTATAAAAATTATTGAAAAATTA
8973889 AAATAATCAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (26 bp):
AATTATAAAAATTATTGAAAAATTAT
Found at i:8976449 original size:13 final size:13
Alignment explanation
Indices: 8976431--8976456 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8976421 ATTAGATGTG
8976431 AAAAACTGTTACT
1 AAAAACTGTTACT
8976444 AAAAACTGTTACT
1 AAAAACTGTTACT
8976457 CACGTGTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (13 bp):
AAAAACTGTTACT
Found at i:8984250 original size:40 final size:38
Alignment explanation
Indices: 8984123--8984252 Score: 152
Period size: 40 Copynumber: 3.3 Consensus size: 38
8984113 ATGCTGGAAA
* *
8984123 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTGTGC-AGTGG
* * *
8984163 CTACATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCA-TTGTGC-AGTGG
*
8984203 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATT-GTGCA-GTGG
8984243 TTATATCCGG
1 TTATATCCGG
8984253 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (38 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTGTGCAGTGG
Found at i:8984827 original size:2 final size:2
Alignment explanation
Indices: 8984820--8984846 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8984810 TTGTGATTTG
8984820 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
8984847 GGTTTCATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8991165 original size:48 final size:46
Alignment explanation
Indices: 8991083--8991173 Score: 119
Period size: 48 Copynumber: 1.9 Consensus size: 46
8991073 CAATATAATG
* * *
8991083 ATTTTTCCTTTTACCTTAGTAAGTAAATATTTATCAAAATGACATA
1 ATTTTACCTTTTACCTTAGAAAGTAAACATTTATCAAAATGACATA
* *
8991129 ATTTTACCTTTTAACTTTAGAAAGGTAAACATTTATCAGAATGAC
1 ATTTTACCTTTT-ACCTTAGAAA-GTAAACATTTATCAAAATGAC
8991174 GAAGTTTTGA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
46 11 0.29
47 8 0.21
48 19 0.50
ACGTcount: A:0.37, C:0.13, G:0.09, T:0.41
Consensus pattern (46 bp):
ATTTTACCTTTTACCTTAGAAAGTAAACATTTATCAAAATGACATA
Found at i:8992321 original size:2 final size:2
Alignment explanation
Indices: 8992314--8992345 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
8992304 TTACTTGCAA
8992314 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8992346 TGTGATGATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9001158 original size:23 final size:20
Alignment explanation
Indices: 9001118--9001165 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 20
9001108 TCTATTTTAT
*
9001118 TATATATATATTTGTGTGTTA
1 TATATATATATATGTGTG-TA
9001139 TATATATATGATATGATGTGTA
1 TATATATAT-ATATG-TGTGTA
9001161 TATAT
1 TATAT
9001166 GCTATCATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 9 0.38
22 11 0.46
23 4 0.17
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (20 bp):
TATATATATATATGTGTGTA
Found at i:9001175 original size:23 final size:23
Alignment explanation
Indices: 9001118--9001175 Score: 59
Period size: 22 Copynumber: 2.6 Consensus size: 23
9001108 TCTATTTTAT
*
9001118 TATATATAT-ATTTG-TGTGTTA
1 TATATATATCATATGATGTGTTA
*
9001139 TATATATATGATATGATGTG-TA
1 TATATATATCATATGATGTGTTA
*
9001161 TATATGCTATCATAT
1 TATAT-ATATCATAT
9001176 ATATAATAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
21 9 0.29
22 11 0.35
23 11 0.35
ACGTcount: A:0.33, C:0.03, G:0.14, T:0.50
Consensus pattern (23 bp):
TATATATATCATATGATGTGTTA
Found at i:9001180 original size:18 final size:18
Alignment explanation
Indices: 9001137--9001180 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
9001127 ATTTGTGTGT
*
9001137 TATATATATATGATATGA
1 TATATATATATGATATCA
* * *
9001155 TGTGTATATATGCTATCA
1 TATATATATATGATATCA
9001173 TATATATA
1 TATATATA
9001181 ATAAAATTAA
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.39, C:0.05, G:0.11, T:0.45
Consensus pattern (18 bp):
TATATATATATGATATCA
Found at i:9007814 original size:25 final size:24
Alignment explanation
Indices: 9007777--9007832 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 24
9007767 TTCTAATATG
*
9007777 TATATATTATGTAAATATTTTTAA
1 TATATATTATGTAAATATTCTTAA
* **
9007801 TACTATATTCTGTATTTATTCTTAA
1 TA-TATATTATGTAAATATTCTTAA
9007826 TATATAT
1 TATATAT
9007833 GTATATATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 7 0.26
25 20 0.74
ACGTcount: A:0.36, C:0.05, G:0.04, T:0.55
Consensus pattern (24 bp):
TATATATTATGTAAATATTCTTAA
Found at i:9007839 original size:57 final size:58
Alignment explanation
Indices: 9007757--9007957 Score: 169
Period size: 59 Copynumber: 3.4 Consensus size: 58
9007747 GCTTTTAATA
* *
9007757 TTATTATTATTTCTAATATGTATATATTATGTAAATATTTTTAATACTATATTCTGTAT
1 TTATTATTATATATAATATGTATATATTATGTAAATATTTTTAATACTATATT-TGTAT
* * * * * *
9007816 TTATTCTTA-ATAT-ATATGTATATATTTATGT-AGTATTATTAATAGT-TATTTTTAACA
1 TTATTATTATATATAATATGTATATA-TTATGTAAATATTTTTAATACTATATTTGT-A-T
* * *
9007873 TTATTATTATTTCTAATATGTATATACTATGTAAATA-TTTTAATACTATATTATGTAT
1 TTATTATTATATATAATATGTATATATTATGTAAATATTTTTAATACTATATT-TGTAT
** * * *
9007931 ACATTTTTTATATATATTACGTATATA
1 TTA-TTATTATATATAATATGTATATA
9007958 CATCTTTTTA
Statistics
Matches: 109, Mismatches: 24, Indels: 18
0.72 0.16 0.12
Matches are distributed among these distances:
55 2 0.02
56 5 0.05
57 31 0.28
58 24 0.22
59 45 0.41
60 2 0.02
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.54
Consensus pattern (58 bp):
TTATTATTATATATAATATGTATATATTATGTAAATATTTTTAATACTATATTTGTAT
Found at i:9007939 original size:26 final size:27
Alignment explanation
Indices: 9007910--9007977 Score: 79
Period size: 26 Copynumber: 2.5 Consensus size: 27
9007900 TATGTAAATA
*
9007910 TTTTAATACTATATTA-TGTATACAT-T
1 TTTTAATA-TATATTACTATATACATCT
9007936 TTTT-ATATATATTACGTATATACATCT
1 TTTTAATATATATTAC-TATATACATCT
9007963 TTTTAATATTATATT
1 TTTTAATA-TATATT
9007978 TTTATATATG
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
24 7 0.19
25 3 0.08
26 12 0.33
27 5 0.14
28 3 0.08
29 6 0.17
ACGTcount: A:0.34, C:0.07, G:0.03, T:0.56
Consensus pattern (27 bp):
TTTTAATATATATTACTATATACATCT
Found at i:9007956 original size:116 final size:117
Alignment explanation
Indices: 9007717--9007947 Score: 358
Period size: 116 Copynumber: 2.0 Consensus size: 117
9007707 ACTTAATACT
* *
9007717 TATATATATTATATAGTATTATTAATAGTTGCTTTTAATATTATTATTATTTCTAATATGTATAT
1 TATATATATTATATAGTATTATTAATAGTTACTTTTAACATTATTATTATTTCTAATATGTATAT
* * **
9007782 ATTATGTAAATATTTTTAATACTATATTCTGTATTTATTCTTAATATATATG
66 ACTATGTAAATATTTTTAATACTATATTATGTATACATTCTTAATATATATG
* *
9007834 TATATAT-TTATGTAGTATTATTAATAGTTATTTTTAACATTATTATTATTTCTAATATGTATAT
1 TATATATATTATATAGTATTATTAATAGTTACTTTTAACATTATTATTATTTCTAATATGTATAT
* *
9007898 ACTATGTAAATA-TTTTAATACTATATTATGTATACATTTTTTATATATAT
66 ACTATGTAAATATTTTTAATACTATATTATGTATACATTCTTAATATATAT
9007948 TACGTATATA
Statistics
Matches: 104, Mismatches: 10, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
115 33 0.32
116 64 0.62
117 7 0.07
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.55
Consensus pattern (117 bp):
TATATATATTATATAGTATTATTAATAGTTACTTTTAACATTATTATTATTTCTAATATGTATAT
ACTATGTAAATATTTTTAATACTATATTATGTATACATTCTTAATATATATG
Found at i:9008005 original size:37 final size:39
Alignment explanation
Indices: 9007935--9008024 Score: 112
Period size: 41 Copynumber: 2.3 Consensus size: 39
9007925 ATGTATACAT
*
9007935 TTTTTATATATATTACGTATATACATCTTTTTAATATTATA
1 TTTTTATATATATTACGTATATA-ATC-TTTTAATACTATA
* *
9007976 TTTTTATATATGTTATGTATAT-ATC-TTTAATACTATA
1 TTTTTATATATATTACGTATATAATCTTTTAATACTATA
9008013 TTATTTATATAT
1 TT-TTTATATAT
9008025 TTTTTTTATT
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
37 13 0.29
38 9 0.20
39 3 0.07
41 20 0.44
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.58
Consensus pattern (39 bp):
TTTTTATATATATTACGTATATAATCTTTTAATACTATA
Found at i:9008024 original size:25 final size:23
Alignment explanation
Indices: 9007777--9007957 Score: 78
Period size: 24 Copynumber: 7.7 Consensus size: 23
9007767 TTCTAATATG
*
9007777 TATATATTATGTAAATATTTTTAA
1 TATATATTATGTATATA-TTTTAA
* *
9007801 TACTATATTCTGTATTTATTCTT-A
1 TA-TATATTATGTATATATT-TTAA
9007825 -ATATA-TATGTATATA-TTT-A
1 TATATATTATGTATATATTTTAA
*
9007844 TGTAGTATTAT-TAATAGTTATTTT--
1 TATA-TATTATGT-ATA--TATTTTAA
*
9007868 TA-ACATTAT-TAT-TATTTCTAA
1 TATATATTATGTATATATTT-TAA
*
9007889 TATGTATATACTATGTAAATATTTTAA
1 TA--TATAT--TATGTATATATTTTAA
* *
9007916 TACTATATTATGTATACATTTTTTA
1 TA-TATATTATGTATATA-TTTTAA
*
9007941 TATATATTACGTATATA
1 TATATATTATGTATATA
9007958 CATCTTTTTA
Statistics
Matches: 121, Mismatches: 16, Indels: 40
0.68 0.09 0.23
Matches are distributed among these distances:
18 5 0.04
19 4 0.03
20 3 0.02
21 15 0.12
22 16 0.13
23 2 0.02
24 32 0.26
25 24 0.20
26 8 0.07
27 7 0.06
28 5 0.04
ACGTcount: A:0.36, C:0.05, G:0.06, T:0.54
Consensus pattern (23 bp):
TATATATTATGTATATATTTTAA
Found at i:9008334 original size:18 final size:17
Alignment explanation
Indices: 9008298--9008369 Score: 67
Period size: 18 Copynumber: 4.0 Consensus size: 17
9008288 ATTATACGTG
9008298 TATATATA-TATACTTTT
1 TATATATATTATA-TTTT
*
9008315 TATATATAGTATTATTTT
1 TATATATATTA-TATTTT
9008333 TATATATCATTATATTTAT
1 TATATAT-ATTATATTT-T
9008352 TAT-TATACTTATTATTTT
1 TATATATA-TTA-TATTTT
9008370 CACTATTGTT
Statistics
Matches: 48, Mismatches: 1, Indels: 11
0.80 0.02 0.18
Matches are distributed among these distances:
17 9 0.19
18 25 0.52
19 14 0.29
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.61
Consensus pattern (17 bp):
TATATATATTATATTTT
Found at i:9008339 original size:37 final size:37
Alignment explanation
Indices: 9008298--9008369 Score: 89
Period size: 37 Copynumber: 2.0 Consensus size: 37
9008288 ATTATACGTG
9008298 TATATAT-A-TATACTTT-TTATATATA-GTATTATTTT
1 TATATATCATTATA-TTTATTAT-TATACGTATTATTTT
*
9008333 TATATATCATTATATTTATTATTATACTTATTATTTT
1 TATATATCATTATATTTATTATTATACGTATTATTTT
9008370 CACTATTGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
35 7 0.22
36 8 0.25
37 17 0.53
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.61
Consensus pattern (37 bp):
TATATATCATTATATTTATTATTATACGTATTATTTT
Found at i:9008551 original size:17 final size:16
Alignment explanation
Indices: 9008529--9008560 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
9008519 TACACATATA
9008529 TATGTATATATATATTT
1 TATGTATATAT-TATTT
9008546 TATGTATATATTATT
1 TATGTATATATTATT
9008561 ATTTCTCTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.59
Consensus pattern (16 bp):
TATGTATATATTATTT
Found at i:9008618 original size:28 final size:30
Alignment explanation
Indices: 9008555--9008621 Score: 77
Period size: 28 Copynumber: 2.3 Consensus size: 30
9008545 TTATGTATAT
* *
9008555 ATTATTATTTCTCTATTATTGTTATAAATAC
1 ATTATT-TTTCTCTATTATAGTAATAAATAC
*
9008586 A-TATTTTTCT-TATTATAGTAAT-AGTAC
1 ATTATTTTTCTCTATTATAGTAATAAATAC
9008613 ATTATTTTT
1 ATTATTTTT
9008622 ATTTTCTTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
27 5 0.16
28 17 0.53
29 5 0.16
30 4 0.12
31 1 0.03
ACGTcount: A:0.31, C:0.07, G:0.04, T:0.57
Consensus pattern (30 bp):
ATTATTTTTCTCTATTATAGTAATAAATAC
Found at i:9008657 original size:19 final size:17
Alignment explanation
Indices: 9008633--9008678 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 17
9008623 TTTTCTTGTA
9008633 AATATTGTTATTGTGTTTT
1 AATATT-TTATTGT-TTTT
9008652 AATATTCTTA--GTTTTT
1 AATATT-TTATTGTTTTT
9008668 AATATTTTATT
1 AATATTTTATT
9008679 ATTAATTGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
15 3 0.12
16 10 0.42
17 2 0.08
19 9 0.38
ACGTcount: A:0.26, C:0.02, G:0.09, T:0.63
Consensus pattern (17 bp):
AATATTTTATTGTTTTT
Found at i:9010768 original size:27 final size:26
Alignment explanation
Indices: 9010730--9010842 Score: 127
Period size: 27 Copynumber: 4.2 Consensus size: 26
9010720 CAGCATGGCT
* * *
9010730 ACCAGAACAGATAATGTGACCGAGTC
1 ACCAGAACAGATAATGTGGCAGAGCC
9010756 ACCAGAAACAGATAATTGTGGCAGAGCC
1 ACCAG-AACAGATAA-TGTGGCAGAGCC
*
9010784 ACCAGAACAGAAATATGTGGCAGAGCC
1 ACCAGAACAGATA-ATGTGGCAGAGCC
* * *
9010811 ACCAGATCAGATAATTGTGGCATAACC
1 ACCAGAACAGATAA-TGTGGCAGAGCC
9010838 ACCAG
1 ACCAG
9010843 GACGCTTCCT
Statistics
Matches: 75, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 6 0.08
27 54 0.72
28 15 0.20
ACGTcount: A:0.39, C:0.23, G:0.23, T:0.15
Consensus pattern (26 bp):
ACCAGAACAGATAATGTGGCAGAGCC
Found at i:9010822 original size:54 final size:54
Alignment explanation
Indices: 9010730--9010842 Score: 147
Period size: 54 Copynumber: 2.1 Consensus size: 54
9010720 CAGCATGGCT
* * * *
9010730 ACCAGAACAGATAATGTGACCGAGTCACCAGAAACAGATAATTGTGGCAGAGCC
1 ACCAGAACAGAAAATGTGACAGAGCCACCAGAAACAGATAATTGTGGCAGAACC
* * *
9010784 ACCAGAACAGAAATATGTGGCAGAGCCACCAG-ATCAGATAATTGTGGCATAACC
1 ACCAGAACAGAAA-ATGTGACAGAGCCACCAGAAACAGATAATTGTGGCAGAACC
9010838 ACCAG
1 ACCAG
9010843 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 36 0.71
55 15 0.29
ACGTcount: A:0.39, C:0.23, G:0.23, T:0.15
Consensus pattern (54 bp):
ACCAGAACAGAAAATGTGACAGAGCCACCAGAAACAGATAATTGTGGCAGAACC
Found at i:9015578 original size:160 final size:160
Alignment explanation
Indices: 9015314--9015639 Score: 607
Period size: 160 Copynumber: 2.0 Consensus size: 160
9015304 TGTTCAACTG
9015314 GCGATAATCAATGCACATCCGCATTGTACCATCCTTCTTCTTCACGAATAACACCGGTGCTCCCC
1 GCGATAATCAATGCACATCCGCATTGTACCATCCTTCTTCTTCACGAATAACACCGGTGCTCCCC
9015379 ATGGAGACACGCTTGGCCTAATAAAGCCCCTATCCAACAACTCTTAAATTTGTGCCTTTAACTCC
66 ATGGAGACACGCTTGGCCTAATAAAGCCCCTATCCAACAACTCTTAAATTTGTGCCTTTAACTCC
*
9015444 ACTAACTCCTTCGGTGCCATCCTATACGGT
131 ACCAACTCCTTCGGTGCCATCCTATACGGT
*
9015474 GCGATAATCAATGCACATCCGCATTGTACCATCCTTCTTCTTCACGAATAACACCGGTGCTTCCC
1 GCGATAATCAATGCACATCCGCATTGTACCATCCTTCTTCTTCACGAATAACACCGGTGCTCCCC
* *
9015539 ATGGAGACACGCTTGGCCTAATAAAGCCCCTATCCAACAACTCTTGAATTTGTGCCTTTAGCTCC
66 ATGGAGACACGCTTGGCCTAATAAAGCCCCTATCCAACAACTCTTAAATTTGTGCCTTTAACTCC
*
9015604 ACCAGCTCCTTCGGTGCCATCCTATACGGT
131 ACCAACTCCTTCGGTGCCATCCTATACGGT
9015634 GCGATA
1 GCGATA
9015640 GACACTGACG
Statistics
Matches: 161, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
160 161 1.00
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (160 bp):
GCGATAATCAATGCACATCCGCATTGTACCATCCTTCTTCTTCACGAATAACACCGGTGCTCCCC
ATGGAGACACGCTTGGCCTAATAAAGCCCCTATCCAACAACTCTTAAATTTGTGCCTTTAACTCC
ACCAACTCCTTCGGTGCCATCCTATACGGT
Found at i:9016347 original size:6 final size:6
Alignment explanation
Indices: 9016336--9016361 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
9016326 GCCAGGCGCC
9016336 CCTCGA CCTCGA CCTCGA CCTCGA CC
1 CCTCGA CCTCGA CCTCGA CCTCGA CC
9016362 ATTTCCATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.54, G:0.15, T:0.15
Consensus pattern (6 bp):
CCTCGA
Found at i:9018785 original size:27 final size:27
Alignment explanation
Indices: 9018755--9018835 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
9018745 AGTCATCAGA
9018755 AACAGATAATTGTGGCACAGCCACCAG
1 AACAGATAATTGTGGCACAGCCACCAG
* *
9018782 AACAGA-AATATGTGGCAGAACCACCA-
1 AACAGATAAT-TGTGGCACAGCCACCAG
*
9018808 AATCAGATAATTGTGGCATAGCCACCAG
1 AA-CAGATAATTGTGGCACAGCCACCAG
9018836 GACGCTTCCT
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
26 5 0.11
27 38 0.83
28 3 0.07
ACGTcount: A:0.40, C:0.23, G:0.21, T:0.16
Consensus pattern (27 bp):
AACAGATAATTGTGGCACAGCCACCAG
Found at i:9026437 original size:21 final size:21
Alignment explanation
Indices: 9026413--9026463 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
9026403 CATTGTTTCT
*
9026413 AATCTCACTACTACAGTATCC
1 AATCTCACTACTACAGTAACC
** *
9026434 AATCTCACCGCTACAGTAACT
1 AATCTCACTACTACAGTAACC
9026455 AATCTCACT
1 AATCTCACT
9026464 GCCACCGCTG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.33, C:0.33, G:0.06, T:0.27
Consensus pattern (21 bp):
AATCTCACTACTACAGTAACC
Found at i:9026733 original size:25 final size:24
Alignment explanation
Indices: 9026688--9026734 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
9026678 AAATAGAGAG
* *
9026688 AAAACAATAAGAAAATAATATTAA
1 AAAACAAAAAGAAAAAAATATTAA
9026712 AAAACAAAAAGAAAAAACATATT
1 AAAACAAAAAGAAAAAA-ATATT
9026735 TTTTTGTCCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.72, C:0.06, G:0.04, T:0.17
Consensus pattern (24 bp):
AAAACAAAAAGAAAAAAATATTAA
Found at i:9027180 original size:2 final size:2
Alignment explanation
Indices: 9027171--9027205 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
9027161 CGTACTTTTT
9027171 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9027206 ACTAGTTTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:9027256 original size:17 final size:18
Alignment explanation
Indices: 9027234--9027268 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
9027224 GTAAACTTTA
9027234 TAATTTTT-TTATAAAAT
1 TAATTTTTGTTATAAAAT
*
9027251 TAATTTTTGTTTTAAAAT
1 TAATTTTTGTTATAAAAT
9027269 CATTAACGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (18 bp):
TAATTTTTGTTATAAAAT
Found at i:9037752 original size:19 final size:19
Alignment explanation
Indices: 9037728--9037766 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
9037718 AGGGATAAAG
9037728 GGAGAGATTTTAGGGATTT
1 GGAGAGATTTTAGGGATTT
9037747 GGAGAGATTTTAGGGATTT
1 GGAGAGATTTTAGGGATTT
9037766 G
1 G
9037767 ATATGGAGAT
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:0.26, C:0.00, G:0.38, T:0.36
Consensus pattern (19 bp):
GGAGAGATTTTAGGGATTT
Found at i:9039040 original size:25 final size:25
Alignment explanation
Indices: 9039011--9039058 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
9039001 TTATAATATG
* *
9039011 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
9039036 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
9039059 GTTTAAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:9039124 original size:20 final size:20
Alignment explanation
Indices: 9039095--9039141 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
9039085 ATTTTGATAA
*
9039095 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
9039115 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
9039135 ACATGAT
1 ACATGAT
9039142 GTATTCATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:9039289 original size:47 final size:45
Alignment explanation
Indices: 9039192--9039355 Score: 222
Period size: 47 Copynumber: 3.5 Consensus size: 45
9039182 AGGAAGTGAA
* *
9039192 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCAGTTAT-T
9039238 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATG-CCCAGTTATT
*
9039285 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTA-TAAAAGGGCTTATGCCCAGTTATT
*
9039331 AAAAGAGGC-TAGGCCTCCAGTTATA
1 -AAAG-GGCTTATGCC-CCAGTTATA
9039356 TGATAAAGCA
Statistics
Matches: 108, Mismatches: 4, Indels: 11
0.88 0.03 0.09
Matches are distributed among these distances:
46 32 0.30
47 56 0.52
48 20 0.19
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (45 bp):
AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCAGTTATT
Found at i:9039334 original size:23 final size:24
Alignment explanation
Indices: 9039191--9039354 Score: 239
Period size: 23 Copynumber: 7.0 Consensus size: 24
9039181 GAGGAAGTGA
9039191 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
9039215 -AAAGGGCTTATG-CCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
*
9039237 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
9039261 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
9039285 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
9039308 AAAAGGGCTTTTG-CCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
9039331 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
9039355 ATGATAAAGC
Statistics
Matches: 129, Mismatches: 5, Indels: 11
0.89 0.03 0.08
Matches are distributed among these distances:
22 9 0.07
23 64 0.50
24 48 0.37
25 8 0.06
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:9039579 original size:31 final size:31
Alignment explanation
Indices: 9039544--9039607 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
9039534 CGTTTACAGT
9039544 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
9039575 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
9039606 AA
1 AA
9039608 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:9046460 original size:24 final size:25
Alignment explanation
Indices: 9046417--9046463 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
9046407 TTATAATATG
* *
9046417 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATGACCCTAGGTA
9046442 AAAATGACCATTAT-ACCCTAGG
1 AAAATGACCATTATGACCCTAGG
9046464 GTTTAAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (25 bp):
AAAATGACCATTATGACCCTAGGTA
Found at i:9046525 original size:11 final size:11
Alignment explanation
Indices: 9046509--9046546 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
9046499 AACATGGTAT
9046509 ACATGATATGC
1 ACATGATATGC
9046520 ACATGATATG-
1 ACATGATATGC
*
9046530 -TATGATATGC
1 ACATGATATGC
9046540 ACATGAT
1 ACATGAT
9046547 GTATTCATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 8 0.35
11 15 0.65
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (11 bp):
ACATGATATGC
Found at i:9046709 original size:69 final size:71
Alignment explanation
Indices: 9046596--9046745 Score: 232
Period size: 69 Copynumber: 2.1 Consensus size: 71
9046586 GAGGAAGTGA
* *
9046596 AAAAGGGTTTATGCCCCAGTTATTAAAGGGCTTATGCCCTAGTTATCAAAAGGGCTTATGCC-CA
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCTCA
9046660 GTTATC
66 GTTATC
* *
9046666 AAAAGGGCTTATG-CCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCTCA
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCTCA
*
9046730 GTTATT
66 GTTATC
9046736 AAAAGAGGCT
1 AAAAG-GGCT
9046746 AGGCCTCCAG
Statistics
Matches: 73, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
69 45 0.62
70 24 0.33
71 4 0.05
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (71 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCTCA
GTTATC
Found at i:9046752 original size:24 final size:23
Alignment explanation
Indices: 9046596--9046745 Score: 205
Period size: 23 Copynumber: 6.4 Consensus size: 23
9046586 GAGGAAGTGA
*
9046596 AAAAGGGTTTATGCCCCAGTTATT
1 AAAAGGGCTTATG-CCCAGTTATT
*
9046620 -AAAGGGCTTATGCCCTAGTTATC
1 AAAAGGGCTTATGCCC-AGTTATT
*
9046643 AAAAGGGCTTATGCCCAGTTATC
1 AAAAGGGCTTATGCCCAGTTATT
9046666 AAAAGGGCTTATGCCCAGTTATT
1 AAAAGGGCTTATGCCCAGTTATT
9046689 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATG-CCCAGTTATT
*
9046712 AAAAGGGCTTTTGCCTCAGTTATT
1 AAAAGGGCTTATGCC-CAGTTATT
9046736 AAAAGAGGCT
1 AAAAG-GGCT
9046746 AGGCCTCCAG
Statistics
Matches: 116, Mismatches: 4, Indels: 11
0.89 0.03 0.08
Matches are distributed among these distances:
22 15 0.13
23 58 0.50
24 39 0.34
25 4 0.03
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCAGTTATT
Found at i:9046985 original size:31 final size:31
Alignment explanation
Indices: 9046950--9047010 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
9046940 CGTGTACAGT
*
9046950 AAAGGCTTCGGCCCAGTAATATGAAATATGG
1 AAAGGCTTCGGCCCAATAATATGAAATATGG
**
9046981 AAAGGCTTCGGCCCAATGTTATGAAATATG
1 AAAGGCTTCGGCCCAATAATATGAAATATG
9047011 AAATATGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAATAATATGAAATATGG
Found at i:9049130 original size:43 final size:43
Alignment explanation
Indices: 9049069--9049156 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
9049059 TGCAAAAATG
9049069 TAAAACCATTCAAACACCAATAAAATTCCCAAAGTTCAATAGT
1 TAAAACCATTCAAACACCAATAAAATTCCCAAAGTTCAATAGT
9049112 TAAAACCATTCAAACACCAATAAAATTCCCAAAGTTCAATAGT
1 TAAAACCATTCAAACACCAATAAAATTCCCAAAGTTCAATAGT
9049155 TA
1 TA
9049157 TAGATCATTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.49, C:0.23, G:0.05, T:0.24
Consensus pattern (43 bp):
TAAAACCATTCAAACACCAATAAAATTCCCAAAGTTCAATAGT
Found at i:9061422 original size:14 final size:14
Alignment explanation
Indices: 9061403--9061432 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
9061393 GTTGCGTTCG
9061403 TAGTTAAATTAGAT
1 TAGTTAAATTAGAT
9061417 TAGTTAAATTAGAT
1 TAGTTAAATTAGAT
9061431 TA
1 TA
9061433 AAAACAATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.13, T:0.43
Consensus pattern (14 bp):
TAGTTAAATTAGAT
Found at i:9066263 original size:48 final size:47
Alignment explanation
Indices: 9066207--9066589 Score: 236
Period size: 48 Copynumber: 8.0 Consensus size: 47
9066197 GAGGGTGAAT
* * *
9066207 TGCCGATGCCATGATCCAAACATGGTCTTACACTGGATCACATGTCAA
1 TGCCGATGCCATG-TCCAAACATGGTCTTACACTGGCTCTCATATCAA
* * * * * * *
9066255 GGCCGATGCCATGTCCGAGATATGGTCTTACACTAGCTCTCGTCTTAA
1 TGCCGATGCCATGTCC-AAACATGGTCTTACACTGGCTCTCATATCAA
* * *
9066303 TGTCGATGCCATGTCTCAGACATGGTCTTACACTGGCTCTCA-A-AATA
1 TGCCGATGCCATGTC-CAAACATGGTCTTACACTGGCTCTCATATCA-A
* * * * *
9066350 TGGCCGATGCCATATCCCAAACATGGTTTTACACTAGCGCACATATCAA
1 T-GCCGATGCCATGT-CCAAACATGGTCTTACACTGGCTCTCATATCAA
*** * * * *
9066399 TATAGACGCCATGTCCCAGACATGGTCTTACACTGGCTTTCAT-TACAT
1 TGCCGATGCCATGT-CCAAACATGGTCTTACACTGGCTCTCATAT-CAA
* * * * *
9066447 TGCTGATGTCATGTTCCAAACATGGTCTTACACTGGTTCTCACAAC-A
1 TGCCGATGCCATG-TCCAAACATGGTCTTACACTGGCTCTCATATCAA
** * * * **
9066494 TCGTTGATTCCATCTTCCAAACATGGTCTTACATTGGCTCTCATAT-TG
1 T-GCCGATGCCAT-GTCCAAACATGGTCTTACACTGGCTCTCATATCAA
* * * * *
9066542 TGGCCAACGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCA
1 T-GCCGATGCCATGT-CCAAACATGGTCTTACACTGGCTCTCATATCA
9066590 CCCAAATGTC
Statistics
Matches: 252, Mismatches: 68, Indels: 29
0.72 0.19 0.08
Matches are distributed among these distances:
46 1 0.00
47 8 0.03
48 236 0.94
49 6 0.02
50 1 0.00
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (47 bp):
TGCCGATGCCATGTCCAAACATGGTCTTACACTGGCTCTCATATCAA
Found at i:9066376 original size:96 final size:95
Alignment explanation
Indices: 9066210--9066576 Score: 265
Period size: 96 Copynumber: 3.8 Consensus size: 95
9066200 GGTGAATTGC
* * ** * *
9066210 CGATGCCATGATC-CAAACATGGTCTTACACTGGATCAC-ATGTCAAGGCCGATGCCATGTCCGA
1 CGATGCCATG-TCTCAAACATGGTCTTACACTGGCTCTCAAAAT-ATGGCCGATGCCATGTCCCA
* * *
9066273 GATATGGTCTTACACTAGCTCTCGTCTTAATGT
64 AACATGGTCTTACACTAGCTCTC-TCTAAATGT
* *
9066306 CGATGCCATGTCTCAGACATGGTCTTACACTGGCTCTCAAAATATGGCCGATGCCATATCCCAAA
1 CGATGCCATGTCTCAAACATGGTCTTACACTGGCTCTCAAAATATGGCCGATGCCATGTCCCAAA
* * * * * *
9066371 CATGGTTTTACACTAGCGCACATATCAATAT
66 CATGGTCTTACACTAGCTCTC-TCTAAATGT
* * * * * ** * * * * *
9066402 AGACGCCATGTCCCAGACATGGTCTTACACTGGCTTTCATTACATTGCTGATGTCATGTTCCAAA
1 CGATGCCATGTCTCAAACATGGTCTTACACTGGCTCTCAAAATATGGCCGATGCCATGTCCCAAA
* * *
9066467 CATGGTCTTACACTGGTTCTCAC-AACATCGT
66 CATGGTCTTACACTAGCTCTCTCTAA-AT-GT
* * * * * * * * * *
9066498 TGATTCCATCT-TCCAAACATGGTCTTACATTGGCTCTCATATTGTGGCCAACGCCATGTCCCAG
1 CGATGCCATGTCT-CAAACATGGTCTTACACTGGCTCTCAAAATATGGCCGATGCCATGTCCCAA
9066562 ACATGGTCTTACACT
65 ACATGGTCTTACACT
9066577 GGCACACATA
Statistics
Matches: 209, Mismatches: 57, Indels: 10
0.76 0.21 0.04
Matches are distributed among these distances:
94 1 0.00
95 4 0.02
96 202 0.97
97 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.29
Consensus pattern (95 bp):
CGATGCCATGTCTCAAACATGGTCTTACACTGGCTCTCAAAATATGGCCGATGCCATGTCCCAAA
CATGGTCTTACACTAGCTCTCTCTAAATGT
Found at i:9069532 original size:29 final size:29
Alignment explanation
Indices: 9069471--9069569 Score: 159
Period size: 28 Copynumber: 3.5 Consensus size: 29
9069461 ACAGTAAGTC
*
9069471 CGCACACTTAGTGCT-TA-ATATTCAAACC
1 CGCACACTTAGTGCTATACA-ATTCAAACT
9069499 CGCACACTTAGTGCTATACAATTCAAACT
1 CGCACACTTAGTGCTATACAATTCAAACT
9069528 CGCACACTTAGTGCTATACAATT-AAACT
1 CGCACACTTAGTGCTATACAATTCAAACT
9069556 CGCACACTTAGTGC
1 CGCACACTTAGTGC
9069570 CAATCTCATT
Statistics
Matches: 68, Mismatches: 1, Indels: 4
0.93 0.01 0.05
Matches are distributed among these distances:
28 34 0.50
29 33 0.49
30 1 0.01
ACGTcount: A:0.32, C:0.28, G:0.12, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTATACAATTCAAACT
Found at i:9070028 original size:2 final size:2
Alignment explanation
Indices: 9070023--9070054 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
9070013 TCACACATGC
9070023 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9070055 GGCCAAATGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9072059 original size:93 final size:93
Alignment explanation
Indices: 9071949--9072118 Score: 252
Period size: 93 Copynumber: 1.8 Consensus size: 93
9071939 CGGATATTTG
* * **
9071949 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGTGAACG-TCCGAACTCGTTGA
1 GGCATCAGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCT-CGAACTCGTTGA
9072013 GTTGAGTCCGAGTTTGTGAGATGTAACTA
65 GTTGAGTCCGAGTTTGTGAGATGTAACTA
* * *
9072042 GGCATCAGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAACGCTCGAGCTCGTTGAG
1 GGCATCAGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCTCGAACTCGTTGAG
*
9072107 TTGAGTCTGAGT
66 TTGAGTCCGAGT
9072119 CCGCTTATGG
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
93 67 0.99
94 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.31
Consensus pattern (93 bp):
GGCATCAGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCTCGAACTCGTTGAG
TTGAGTCCGAGTTTGTGAGATGTAACTA
Found at i:9072114 original size:46 final size:46
Alignment explanation
Indices: 9071959--9072128 Score: 161
Period size: 46 Copynumber: 3.7 Consensus size: 46
9071949 GGCATCCGAA
* * *
9071959 CTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGTGAACG-TCCGAA
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACGCT-CGAG
* *
9072005 CTCGTTGAGTTGAGTCCGAG-T---TTGTGAGATGTAACTAGGCATCAGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGTAA--ACGC-TC-GAG
* *
9072052 CTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAACGCTCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACGCTCGAG
* * *
9072098 CTCGTTGAGTTGAGTCTGAGTCCGCTTATGG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
9072129 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 10, Indels: 20
0.78 0.07 0.15
Matches are distributed among these distances:
42 4 0.04
43 6 0.06
45 3 0.03
46 53 0.51
47 24 0.23
48 4 0.04
50 6 0.06
51 4 0.04
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.32
Consensus pattern (46 bp):
CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACGCTCGAG
Found at i:9079032 original size:15 final size:15
Alignment explanation
Indices: 9078990--9079033 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
9078980 CATAGTATCG
*
9078990 TATCTTGGATTTCTT
1 TATCTTGGATTTCTC
*
9079005 TAT-TCTGGGTTTCTC
1 TATCT-TGGATTTCTC
9079020 TATCTTGGATTTCT
1 TATCTTGGATTTCT
9079034 TTATTCAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
14 1 0.04
15 22 0.92
16 1 0.04
ACGTcount: A:0.11, C:0.16, G:0.16, T:0.57
Consensus pattern (15 bp):
TATCTTGGATTTCTC
Found at i:9081525 original size:46 final size:46
Alignment explanation
Indices: 9081473--9081640 Score: 169
Period size: 46 Copynumber: 3.6 Consensus size: 46
9081463 TTGGGCATCC
9081473 GAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGTCT
* ** * * * * * *
9081519 GAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTA-ACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCAT-TTATGGATGCGA-ACGTCT
* * *
9081566 GAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CT
1 GAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGTCT
* *
9081611 CGAGCTCGTTGAGTTGAGTCTGAGTTCATT
1 -GAACTCGTTGAGTTGAGTCCGAGTTCATT
9081641 GAATAGAAAT
Statistics
Matches: 94, Mismatches: 24, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
45 1 0.01
46 60 0.64
47 33 0.35
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.32
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGTCT
Found at i:9081625 original size:93 final size:93
Alignment explanation
Indices: 9081466--9081637 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
9081456 CGGATATTTG
*
9081466 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGTCTGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCTGAACTCGTTGAG
9081531 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * *
9081559 GGCATCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CTCGAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCT-GAACTCGTTGA
*
9081623 GTTGAGTCTGAGTTC
65 GTTGAGTCCGAGTTC
9081638 ATTGAATAGA
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.30
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCTGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:9087478 original size:27 final size:26
Alignment explanation
Indices: 9087448--9087520 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 26
9087438 ATTACTGAAC
*
9087448 TACCTTCGACTTGTAAAATTA-CCAAA
1 TACC-TCGATTTGTAAAATTACCCAAA
* *
9087474 GTACCCCCGATTTATAAAATTACCCAAA
1 -TA-CCTCGATTTGTAAAATTACCCAAA
9087502 TATCCTCGATTTGTAAAAT
1 TA-CCTCGATTTGTAAAAT
9087521 CACTGAAATA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
27 31 0.82
28 7 0.18
ACGTcount: A:0.37, C:0.23, G:0.08, T:0.32
Consensus pattern (26 bp):
TACCTCGATTTGTAAAATTACCCAAA
Found at i:9087814 original size:27 final size:27
Alignment explanation
Indices: 9087535--9087811 Score: 392
Period size: 27 Copynumber: 10.3 Consensus size: 27
9087525 GAAATAAGAT
*
9087535 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCGTTTTACCCTCGATTTAC
9087562 AGAATTACCGTTTTACCCTCGATTTAC
1 AGAATTACCGTTTTACCCTCGATTTAC
* * *
9087589 AAAATTACTGTTTTACCCTCAATTTAC
1 AGAATTACCGTTTTACCCTCGATTTAC
*
9087616 AAAATTACCGTTTTACCCTCGATTTAC
1 AGAATTACCGTTTTACCCTCGATTTAC
* *
9087643 AGAATTACCATTTTACCCTCGATTTAT
1 AGAATTACCGTTTTACCCTCGATTTAC
** *
9087670 AGAATTACTATTTTACGCTCGATTTAC
1 AGAATTACCGTTTTACCCTCGATTTAC
*
9087697 AGAATTACCGTTTTACCCTCGATTTAT
1 AGAATTACCGTTTTACCCTCGATTTAC
* *
9087724 AGAATTACCATTTTACCCTCGATTTAT
1 AGAATTACCGTTTTACCCTCGATTTAC
*
9087751 AGAATTACCGTTTTACCCTCGATCTAC
1 AGAATTACCGTTTTACCCTCGATTTAC
** *
9087778 AGAATTATTGTTTTATCCTCGATTTAC
1 AGAATTACCGTTTTACCCTCGATTTAC
*
9087805 AAAATTA
1 AGAATTA
9087812 TTGAAATACC
Statistics
Matches: 225, Mismatches: 25, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 225 1.00
ACGTcount: A:0.30, C:0.22, G:0.09, T:0.39
Consensus pattern (27 bp):
AGAATTACCGTTTTACCCTCGATTTAC
Found at i:9087845 original size:27 final size:27
Alignment explanation
Indices: 9087815--9087982 Score: 142
Period size: 27 Copynumber: 6.2 Consensus size: 27
9087805 AAAATTATTG
*
9087815 AAATACCCTTAGTTTACAAAATTACCA
1 AAATACCCTTAGTTTATAAAATTACCA
* * *
9087842 AAATACCC-TCGATCAGTAAAATTACCA
1 AAATACCCTTAGTTTA-TAAAATTACCA
* *
9087869 AAATACCCTTAGTTTGTAAAATTACTA
1 AAATACCCTTAGTTTATAAAATTACCA
* * * *
9087896 AAATACCCCTGGTTTGTAAAATTACTA
1 AAATACCCTTAGTTTATAAAATTACCA
* * *
9087923 AAATACCCCT-GACTTGTAAAATTACCA
1 AAATACCCTTAG-TTTATAAAATTACCA
* * * * *
9087950 AAATACCCCTAATTTGTGAAATTATCA
1 AAATACCCTTAGTTTATAAAATTACCA
9087977 AAATAC
1 AAATAC
9087983 TCTCGATTTG
Statistics
Matches: 120, Mismatches: 17, Indels: 8
0.83 0.12 0.06
Matches are distributed among these distances:
26 5 0.04
27 112 0.93
28 3 0.03
ACGTcount: A:0.42, C:0.21, G:0.07, T:0.30
Consensus pattern (27 bp):
AAATACCCTTAGTTTATAAAATTACCA
Found at i:9087890 original size:81 final size:81
Alignment explanation
Indices: 9087805--9087982 Score: 216
Period size: 81 Copynumber: 2.2 Consensus size: 81
9087795 CTCGATTTAC
* *
9087805 AAAATTATTGAAATACCCTTAGTTTACAAAATTACCAAAATA-CCCTCGA-TCAGTAAAATTACC
1 AAAATTATTAAAATACCCCTAGTTTACAAAATTACCAAAATACCCCT-GACT-AGTAAAATTACC
* *
9087868 AAAATACCCTTAGTTTGT
64 AAAATACCCCTAATTTGT
* * ** * *
9087886 AAAATTACTAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCCTGACTTGTAAAATTACCAA
1 AAAATTATTAAAATACCCCTAGTTTACAAAATTACCAAAATACCCCTGACTAGTAAAATTACCAA
9087951 AATACCCCTAATTTGT
66 AATACCCCTAATTTGT
* *
9087967 GAAATTATCAAAATAC
1 AAAATTATTAAAATAC
9087983 TCTCGATTTG
Statistics
Matches: 82, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
81 77 0.94
82 5 0.06
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.30
Consensus pattern (81 bp):
AAAATTATTAAAATACCCCTAGTTTACAAAATTACCAAAATACCCCTGACTAGTAAAATTACCAA
AATACCCCTAATTTGT
Found at i:9087915 original size:54 final size:54
Alignment explanation
Indices: 9087815--9087982 Score: 196
Period size: 54 Copynumber: 3.1 Consensus size: 54
9087805 AAAATTATTG
** **
9087815 AAATACCCTTAGTTTACAAAATTACCAAAATA-CCCTCGATCAGTAAAATTACCA
1 AAATACCCTTAGTTTGTAAAATTACCAAAATACCCCT-GATTTGTAAAATTACCA
* * *
9087869 AAATACCCTTAGTTTGTAAAATTACTAAAATACCCCTGGTTTGTAAAATTACTA
1 AAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACCA
* * * * *
9087923 AAATACCCCT-GACTTGTAAAATTACCAAAATACCCCTAATTTGTGAAATTATCA
1 AAATACCCTTAG-TTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACCA
9087977 AAATAC
1 AAATAC
9087983 TCTCGATTTG
Statistics
Matches: 97, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
53 1 0.01
54 92 0.95
55 4 0.04
ACGTcount: A:0.42, C:0.21, G:0.07, T:0.30
Consensus pattern (54 bp):
AAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACCA
Found at i:9087994 original size:54 final size:52
Alignment explanation
Indices: 9087832--9088013 Score: 163
Period size: 54 Copynumber: 3.4 Consensus size: 52
9087822 CTTAGTTTAC
** *
9087832 AAAATTACCAAAATA-CCCTCGATCAGTAAAATTACCAAAATACC-CTTAGTTTGT
1 AAAATTACCAAAATACCCCT-GATTTGTAAAATTA-CAAAATACCTC-GA-TTTGT
* * * *
9087886 AAAATTACTAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCCTGACTTGT
1 AAAATTACCAAAATACCCCTGATTTGTAAAATTAC-AAAATACCTC-GATTTGT
* *
9087940 AAAATTACCAAAATACCCCTAATTTGTGAAATTATCAAAATACTCTCGATTTGT
1 AAAATTACCAAAATACCCCTGATTTGTAAAATTA-CAAAATAC-CTCGATTTGT
* * *
9087994 ATAA-TATCGAAATACCCCTG
1 AAAATTACCAAAATACCCCTG
9088014 TAGGTTAGAA
Statistics
Matches: 107, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
53 14 0.13
54 83 0.78
55 10 0.09
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (52 bp):
AAAATTACCAAAATACCCCTGATTTGTAAAATTACAAAATACCTCGATTTGT
Found at i:9088042 original size:27 final size:27
Alignment explanation
Indices: 9088001--9088278 Score: 423
Period size: 27 Copynumber: 10.3 Consensus size: 27
9087991 TGTATAATAT
*
9088001 CGAAATACCCCTGTAGGTTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
9088028 CGGAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
9088055 TGAAATACCCCTGTAGGGTAAAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
9088082 TGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * *
9088109 CGACATACCCCTATAGGGTAGAATTAT
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
9088136 CGCAATA-CCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
9088162 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * *
9088189 TGAAATACCCTTGTAGGGTAGAAATAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
9088216 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
9088243 TGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
9088270 CGAGATACC
1 CGAAATACC
9088279 TTGTGAGGTA
Statistics
Matches: 226, Mismatches: 24, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
26 23 0.10
27 203 0.90
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (27 bp):
CGAAATACCCCTGTAGGGTAGAATTAC
Found at i:9088307 original size:134 final size:134
Alignment explanation
Indices: 9088004--9088296 Score: 430
Period size: 134 Copynumber: 2.2 Consensus size: 134
9087994 ATAATATCGA
* * *
9088004 AATACCCCTGTAGGTTAGAATTACCGGAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGT
1 AATA-CCCTGTAGGGTAAAATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGT
* *
9088069 AGGGTAAAATTACTGAAATACCCCTGTAGGGTAGAATTACCGACATACCCCTATAGGGTAGAATT
65 AGGGTAAAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAATT
*
9088134 ATCGC
130 ACCGC
* *
9088139 AATACCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTA
1 AATACCCTGTAGGGTAAAATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTA
* *
9088204 GGGTAGAAA-TACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATT
66 GGGTA-AAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAATT
9088268 ACCG-
130 ACCGC
*
9088272 AGATACCTTGT-GAGGTAAAATTACC
1 A-ATACCCTGTAG-GGTAAAATTACC
9088297 ATTTTGCCCC
Statistics
Matches: 145, Mismatches: 10, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
133 2 0.01
134 136 0.94
135 7 0.05
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (134 bp):
AATACCCTGTAGGGTAAAATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTA
GGGTAAAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTA
CCGC
Found at i:9088739 original size:6 final size:6
Alignment explanation
Indices: 9088698--9088785 Score: 65
Period size: 6 Copynumber: 14.3 Consensus size: 6
9088688 TTGCATTCAC
* * *
9088698 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG GTTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
9088747 -TCACCTA ATTCTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
9088786 AATGTTTCTT
Statistics
Matches: 64, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
5 4 0.06
6 52 0.81
7 6 0.09
8 2 0.03
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:9088743 original size:31 final size:31
Alignment explanation
Indices: 9088698--9088776 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
9088688 TTGCATTCAC
* * *
9088698 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTCACCTAATACTG
* *
9088729 ATTCTGGTTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTCACCTAATACTG
9088760 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
9088777 AGTTCTGATA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.18, C:0.19, G:0.15, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTAATACTG
Found at i:9102393 original size:13 final size:13
Alignment explanation
Indices: 9102375--9102402 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
9102365 GACATGTAAC
9102375 ATATTCATATCAT
1 ATATTCATATCAT
9102388 ATATTCATATCAT
1 ATATTCATATCAT
9102401 AT
1 AT
9102403 TCAACTCTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.14, G:0.00, T:0.46
Consensus pattern (13 bp):
ATATTCATATCAT
Found at i:9103370 original size:21 final size:21
Alignment explanation
Indices: 9103344--9103385 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
9103334 CACTTGCCGT
9103344 AGTCAAATTTTTAGTTAGTTC
1 AGTCAAATTTTTAGTTAGTTC
9103365 AGTCAAATTTTTAGTTAGTTC
1 AGTCAAATTTTTAGTTAGTTC
9103386 TATGGCATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.48
Consensus pattern (21 bp):
AGTCAAATTTTTAGTTAGTTC
Found at i:9112803 original size:42 final size:42
Alignment explanation
Indices: 9112751--9112889 Score: 145
Period size: 42 Copynumber: 3.3 Consensus size: 42
9112741 TGACCATATC
* * **
9112751 TGGGATATGGCATTGAGATGAGATTTTGTGTAAGACCACGTA
1 TGGGACATGGCATCGAGATGAGATTTCATGTAAGACCACGTA
* * * ** *
9112793 TGGGACATGGCATCGAAATAAGATTTCATATAAGACCATATT
1 TGGGACATGGCATCGAGATGAGATTTCATGTAAGACCACGTA
* * *
9112835 TGGGATATGGCATCGATG-TGAGATCTCATGTAAGACCACGTC
1 TGGGACATGGCATCGA-GATGAGATTTCATGTAAGACCACGTA
9112877 TGGGACATGGCAT
1 TGGGACATGGCAT
9112890 TGGCATCTTA
Statistics
Matches: 77, Mismatches: 19, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
42 77 1.00
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.28
Consensus pattern (42 bp):
TGGGACATGGCATCGAGATGAGATTTCATGTAAGACCACGTA
Found at i:9112847 original size:84 final size:84
Alignment explanation
Indices: 9112734--9112889 Score: 233
Period size: 84 Copynumber: 1.9 Consensus size: 84
9112724 GTATGTGCTA
* * * **
9112734 TCATATATGACCATATCTGGGATATGGCATTGA-GATGAGATTTTGTGTAAGACCACGTATGGGA
1 TCATATAAGACCATATCTGGGATATGGCATCGATG-TGAGATCTCATGTAAGACCACGTATGGGA
9112798 CATGGCATCGAAATAAGATT
65 CATGGCATCGAAATAAGATT
* *
9112818 TCATATAAGACCATATTTGGGATATGGCATCGATGTGAGATCTCATGTAAGACCACGTCTGGGAC
1 TCATATAAGACCATATCTGGGATATGGCATCGATGTGAGATCTCATGTAAGACCACGTATGGGAC
9112883 ATGGCAT
66 ATGGCAT
9112890 TGGCATCTTA
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
84 63 0.98
85 1 0.02
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (84 bp):
TCATATAAGACCATATCTGGGATATGGCATCGATGTGAGATCTCATGTAAGACCACGTATGGGAC
ATGGCATCGAAATAAGATT
Found at i:9118968 original size:26 final size:26
Alignment explanation
Indices: 9118932--9118990 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 26
9118922 TATTTTCTTG
* *
9118932 AAATTTTACCAGAGGCAAACTCGTCA
1 AAATTTTACCAAAGGCAAAATCGTCA
* *
9118958 AAATTTTACCAAAGGTAAAATTGTCA
1 AAATTTTACCAAAGGCAAAATCGTCA
9118984 AAATTTT
1 AAATTTT
9118991 GCTAGGGGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.31
Consensus pattern (26 bp):
AAATTTTACCAAAGGCAAAATCGTCA
Found at i:9122458 original size:11 final size:11
Alignment explanation
Indices: 9122442--9122517 Score: 68
Period size: 11 Copynumber: 6.9 Consensus size: 11
9122432 GTTTAAAATG
9122442 AAAAATATTAT
1 AAAAATATTAT
*
9122453 AAAAATATTCT
1 AAAAATATTAT
*
9122464 AAAAATATTTT
1 AAAAATATTAT
*
9122475 AAAATTAAAATTAT
1 -AAA--AATATTAT
*
9122489 AAAAATAATAT
1 AAAAATATTAT
9122500 -AAAATA-TA-
1 AAAAATATTAT
9122508 AAAAATATTA
1 AAAAATATTA
9122518 AAACTTATTA
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
9 8 0.15
10 8 0.15
11 26 0.48
12 3 0.06
13 3 0.06
14 6 0.11
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.34
Consensus pattern (11 bp):
AAAAATATTAT
Found at i:9122504 original size:19 final size:20
Alignment explanation
Indices: 9122478--9122532 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 20
9122468 ATATTTTAAA
9122478 ATTAAAATTATAAAAATAAT
1 ATTAAAATTATAAAAATAAT
9122498 A-TAAAA-TAT-AAAA-AAT
1 ATTAAAATTATAAAAATAAT
9122514 ATTAAAACTTATTAAAAAT
1 ATTAAAA-TTA-TAAAAAT
9122533 TTTAAAATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
16 4 0.14
17 9 0.31
18 3 0.10
19 7 0.24
20 2 0.07
21 4 0.14
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (20 bp):
ATTAAAATTATAAAAATAAT
Found at i:9122537 original size:9 final size:9
Alignment explanation
Indices: 9122442--9122577 Score: 55
Period size: 9 Copynumber: 14.7 Consensus size: 9
9122432 GTTTAAAATG
9122442 AAAAATATTAT
1 AAAAAT-TT-T
9122453 AAAAATATTCT
1 AAAAAT-TT-T
9122464 AAAAATATTT
1 AAAAAT-TTT
*
9122474 TAAAA--TT
1 AAAAATTTT
*
9122481 -AAAATTAT
1 AAAAATTTT
**
9122489 AAAAATAAT
1 AAAAATTTT
* *
9122498 ATAAAATATA
1 A-AAAATTTT
*
9122508 AAAAATATT
1 AAAAATTTT
*
9122517 AAAACTTATT
1 AAAAATT-TT
9122527 AAAAATTTT
1 AAAAATTTT
*
9122536 AAAATATATT
1 AAAA-ATTTT
*
9122546 AGAAATTTT
1 AAAAATTTT
*
9122555 -AATATTTT
1 AAAAATTTT
*
9122563 TAAAATTTT
1 AAAAATTTT
*
9122572 ATAAAT
1 AAAAAT
9122578 CACATATATT
Statistics
Matches: 100, Mismatches: 18, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
6 4 0.04
7 2 0.02
8 7 0.07
9 41 0.41
10 27 0.27
11 19 0.19
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (9 bp):
AAAAATTTT
Found at i:9122537 original size:19 final size:19
Alignment explanation
Indices: 9122499--9122577 Score: 69
Period size: 19 Copynumber: 4.3 Consensus size: 19
9122489 AAAAATAATA
*
9122499 TAAAATATA--AAAAATAT
1 TAAAATATATTAAAAATTT
9122516 TAAAACT-TATTAAAAATTT
1 TAAAA-TATATTAAAAATTT
*
9122535 TAAAATATATTAGAAATTT
1 TAAAATATATTAAAAATTT
* *
9122554 T--AATATTTTTAAAATTT
1 TAAAATATATTAAAAATTT
9122571 TATAAAT
1 TA-AAAT
9122578 CACATATATT
Statistics
Matches: 50, Mismatches: 5, Indels: 11
0.76 0.08 0.17
Matches are distributed among these distances:
17 21 0.42
18 2 0.04
19 24 0.48
20 3 0.06
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (19 bp):
TAAAATATATTAAAAATTT
Found at i:9122568 original size:17 final size:18
Alignment explanation
Indices: 9122465--9122577 Score: 67
Period size: 19 Copynumber: 6.3 Consensus size: 18
9122455 AAATATTCTA
*
9122465 AAAATATTTTAAAA--TT
1 AAAATATATTAAAATTTT
* *
9122481 AAAAT-TATAAAAATAATAT
1 AAAATATATTAAAAT--TTT
* *
9122500 AAAATATA-AAAAATATT
1 AAAATATATTAAAATTTT
9122517 AAAACT-TATTAAAAATTTT
1 AAAA-TATATT-AAAATTTT
9122536 AAAATATATTAGAAATTTT
1 AAAATATATTA-AAATTTT
* *
9122555 AATAT-TTTTAAAATTTT
1 AAAATATATTAAAATTTT
9122572 ATAAAT
1 A-AAAT
9122578 CACATATATT
Statistics
Matches: 76, Mismatches: 10, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
15 6 0.08
16 5 0.07
17 15 0.20
18 10 0.13
19 38 0.50
20 2 0.03
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.41
Consensus pattern (18 bp):
AAAATATATTAAAATTTT
Found at i:9124770 original size:36 final size:36
Alignment explanation
Indices: 9124643--9125133 Score: 425
Period size: 36 Copynumber: 13.4 Consensus size: 36
9124633 AAATCTTATT
* * *
9124643 AGTATAATCAGTGGATAATGCTCGTTTGAGCAAGCATTC
1 AGTAGAATCAGTAGATATTGCTCGTTTGAGC-A-C-TTC
* * * *
9124682 AGTATAATCAGTGGATACTGCTCATTTGAGCAACTATTC
1 AGTAGAATCAGTAGATATTGCTCGTTTGAGC-AC--TTC
* *
9124721 AGTAGAATTAGTAGATATTGCTCGTTTGAGCACATC
1 AGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTC
* * *
9124757 AGTAGAATCAGTAGACATTGCTCGTTTAAGCACATTT
1 AGTAGAATCAGTAGATATTGCTCGTTTGAGCAC-TTC
* * * *
9124794 AGTAGGATCAGTAGTTATTGCTTG-TTGAGCACTTTT
1 AGTAGAATCAGTAGATATTGCTCGTTTGAGCAC-TTC
* *
9124830 AGTGGAATCAATAGATATTGCTCGTTTGAGCACTTC
1 AGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTC
* * * *
9124866 AGTAAAACCACTAGACATTGCTCGTTTGAGCACATTC
1 AGTAGAATCAGTAGATATTGCTCGTTTGAGCAC-TTC
* * * *
9124903 AATAGGATTAGTAGAAATTGCTCG-TTGAGCACTTTC
1 AGTAGAATCAGTAGATATTGCTCGTTTGAGCAC-TTC
* * *
9124939 AGTAGAATCAGTAGATATTGCTTGTTTAAGCACTTTT
1 AGTAGAATCAGTAGATATTGCTCGTTTGAGCAC-TTC
* ** *
9124976 AGTAGAATCAGTAGACATTGCTTATTTGAACACATTC
1 AGTAGAATCAGTAGATATTGCTCGTTTGAGCAC-TTC
* * * *
9125013 AGTAGGATCAGTAGATATTGCTTG-TTCAGCTCTTTC
1 AGTAGAATCAGTAGATATTGCTCGTTTGAGCAC-TTC
* *
9125049 AGTAGAATCAGTAGATATTACTCGTTTGAGCATTTTC
1 AGTAGAATCAGTAGATATTGCTCGTTTGAGCA-CTTC
* *
9125086 AGTAGAA-CTAGTACATATTGCTTG-TTGAGCACTTC
1 AGTAGAATC-AGTAGATATTGCTCGTTTGAGCACTTC
* *
9125121 AATAAAATCAGTA
1 AGTAGAATCAGTA
9125134 TTCCTTTTTT
Statistics
Matches: 373, Mismatches: 70, Indels: 22
0.80 0.15 0.05
Matches are distributed among these distances:
35 12 0.03
36 159 0.43
37 138 0.37
38 3 0.01
39 61 0.16
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.34
Consensus pattern (36 bp):
AGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTC
Found at i:9124838 original size:73 final size:73
Alignment explanation
Indices: 9124641--9125133 Score: 433
Period size: 73 Copynumber: 6.7 Consensus size: 73
9124631 GAAAATCTTA
* * * * * * * * * *
9124641 TTAGTATAATCAGTGGATAATGCTCGTTTGAGCAAGCATTCAGTATAATCAGTGGATACTGCTCA
1 TTAGTAGAATCAGTAGATATTGCTTGTTTGAGC-A-CTTTCAGTAGAATCAGTAGACATTGCTCG
9124706 TTTGAGCAACT
64 TTTGAGC-ACT
* * *
9124717 ATTCAGTAGAATTAGTAGATATTGCTCGTTTGAGCAC-ATCAGTAGAATCAGTAGACATTGCTCG
1 -TT-AGTAGAATCAGTAGATATTGCTTGTTTGAGCACTTTCAGTAGAATCAGTAGACATTGCTCG
*
9124781 TTTAAGCACAT
64 TTTGAGCAC-T
* * * * * *
9124792 TTAGTAGGATCAGTAGTTATTGCTTG-TTGAGCACTTTTAGTGGAATCAATAGATATTGCTCGTT
1 TTAGTAGAATCAGTAGATATTGCTTGTTTGAGCACTTTCAGTAGAATCAGTAGACATTGCTCGTT
9124856 TGAGCACT
66 TGAGCACT
* * * * * * * * * * *
9124864 TCAGTAAAACCACTAGACATTGCTCGTTTGAGCACATTCAATAGGATTAGTAGAAATTGCTCG-T
1 TTAGTAGAATCAGTAGATATTGCTTGTTTGAGCACTTTCAGTAGAATCAGTAGACATTGCTCGTT
9124928 TGAGCACT
66 TGAGCACT
* * **
9124936 TTCAGTAGAATCAGTAGATATTGCTTGTTTAAGCACTTTTAGTAGAATCAGTAGACATTGCTTAT
1 TT-AGTAGAATCAGTAGATATTGCTTGTTTGAGCACTTTCAGTAGAATCAGTAGACATTGCTCGT
*
9125001 TTGAACACAT
65 TTGAGCAC-T
* * * * * *
9125011 TCAGTAGGATCAGTAGATATTGCTTG-TTCAGCTCTTTCAGTAGAATCAGTAGATATTACTCGTT
1 TTAGTAGAATCAGTAGATATTGCTTGTTTGAGCACTTTCAGTAGAATCAGTAGACATTGCTCGTT
*
9125075 TGAGCATT
66 TGAGCACT
* * *
9125083 TTCAGTAGAA-CTAGTACATATTGCTTG-TTGAGCAC-TTCAATAAAATCAGTA
1 TT-AGTAGAATC-AGTAGATATTGCTTGTTTGAGCACTTTCAGTAGAATCAGTA
9125134 TTCCTTTTTT
Statistics
Matches: 336, Mismatches: 71, Indels: 23
0.78 0.17 0.05
Matches are distributed among these distances:
72 54 0.16
73 187 0.56
74 34 0.10
75 30 0.09
76 1 0.00
77 3 0.01
78 27 0.08
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.34
Consensus pattern (73 bp):
TTAGTAGAATCAGTAGATATTGCTTGTTTGAGCACTTTCAGTAGAATCAGTAGACATTGCTCGTT
TGAGCACT
Found at i:9124856 original size:109 final size:109
Alignment explanation
Indices: 9124643--9125092 Score: 508
Period size: 109 Copynumber: 4.1 Consensus size: 109
9124633 AAATCTTATT
* * * * * ** * *
9124643 AGTATAATCAGTGGATAATGCTCGTTTGAGCAAGCATTCAGTATAATCAGTGGATACTGCTCAT-
1 AGTAGAATCAGTAGACATTGCTCGTTTAAGC-A-CATTCAGTAGGATCAGTAGATATTGCT--TG
* *
9124707 TTGAGCAACTATTCAGTAGAATTAGTAGATATTGCTCGTTTGAGCACATC
62 TTGAGC-ACT-TTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTC
* *
9124757 AGTAGAATCAGTAGACATTGCTCGTTTAAGCACATTTAGTAGGATCAGTAGTTATTGCTTGTTGA
1 AGTAGAATCAGTAGACATTGCTCGTTTAAGCACATTCAGTAGGATCAGTAGATATTGCTTGTTGA
* * *
9124822 GCACTTTTAGTGGAATCAATAGATATTGCTCGTTTGAGCACTTC
66 GCACTTTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTC
* * * * * * * *
9124866 AGTAAAACCACTAGACATTGCTCGTTTGAGCACATTCAATAGGATTAGTAGAAATTGCTCGTTGA
1 AGTAGAATCAGTAGACATTGCTCGTTTAAGCACATTCAGTAGGATCAGTAGATATTGCTTGTTGA
* * *
9124931 GCACTTTCAGTAGAATCAGTAGATATTGCTTGTTTAAGCACTTTT
66 GCACTTTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCAC-TTC
** *
9124976 AGTAGAATCAGTAGACATTGCTTATTTGAA-CACATTCAGTAGGATCAGTAGATATTGCTTGTTC
1 AGTAGAATCAGTAGACATTGCTCGTTT-AAGCACATTCAGTAGGATCAGTAGATATTGCTTGTTG
* * *
9125040 AGCTCTTTCAGTAGAATCAGTAGATATTACTCGTTTGAGCATTTTC
65 AGCACTTTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCA-CTTC
9125086 AGTAGAA
1 AGTAGAA
9125093 CTAGTACATA
Statistics
Matches: 283, Mismatches: 49, Indels: 12
0.82 0.14 0.03
Matches are distributed among these distances:
109 125 0.44
110 103 0.36
111 7 0.02
112 21 0.07
113 1 0.00
114 26 0.09
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.34
Consensus pattern (109 bp):
AGTAGAATCAGTAGACATTGCTCGTTTAAGCACATTCAGTAGGATCAGTAGATATTGCTTGTTGA
GCACTTTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTC
Found at i:9126780 original size:22 final size:22
Alignment explanation
Indices: 9126755--9126797 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
9126745 GATATGGAGT
* *
9126755 ATATCATATATAGATGCAGAAC
1 ATATCAAATACAGATGCAGAAC
9126777 ATATCAAATACAGATGCAGAA
1 ATATCAAATACAGATGCAGAA
9126798 TCCTACCCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.23
Consensus pattern (22 bp):
ATATCAAATACAGATGCAGAAC
Done.