Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold358
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: 447680
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.32
Warning! 23201 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:3411 original size:12 final size:11
Alignment explanation
Indices: 3371--3408 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 11
3361 ATAATGAGAT
3371 TATTAAAAAAA
1 TATTAAAAAAA
3382 TA-T-AAAAAA
1 TATTAAAAAAA
3391 TATTAATAAAAA
1 TATTAA-AAAAA
3403 TATTAA
1 TATTAA
3409 TAATGTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
9 8 0.33
10 2 0.08
11 3 0.12
12 11 0.46
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TATTAAAAAAA
Found at i:6366 original size:25 final size:26
Alignment explanation
Indices: 6328--6385 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
6318 AAATTTAGTA
*
6328 GTAAAATGGATAAAA-TTTACCAGGG
1 GTAAAATCGATAAAATTTTACCAGGG
* **
6353 GTAAAATCGTTAAAATTTTATTAGGG
1 GTAAAATCGATAAAATTTTACCAGGG
6379 GTAAAAT
1 GTAAAAT
6386 AGGGATGAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 13 0.46
26 15 0.54
ACGTcount: A:0.43, C:0.05, G:0.21, T:0.31
Consensus pattern (26 bp):
GTAAAATCGATAAAATTTTACCAGGG
Found at i:11815 original size:25 final size:26
Alignment explanation
Indices: 11769--11832 Score: 103
Period size: 25 Copynumber: 2.5 Consensus size: 26
11759 ACATATTTTC
11769 TCAAAATTTTACTCGGGGTAAAATCG
1 TCAAAATTTTACTCGGGGTAAAATCG
*
11795 TCAAAATTTTA-TCGGGGTAAAATTG
1 TCAAAATTTTACTCGGGGTAAAATCG
*
11820 TTAAAATTTTACT
1 TCAAAATTTTACT
11833 GGGACTGAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
25 23 0.66
26 12 0.34
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.38
Consensus pattern (26 bp):
TCAAAATTTTACTCGGGGTAAAATCG
Found at i:12976 original size:36 final size:36
Alignment explanation
Indices: 12931--13159 Score: 234
Period size: 35 Copynumber: 6.4 Consensus size: 36
12921 GCTGAGTTTT
*
12931 AAAGAGTTGGGATAGACCATTCTATGCCAACCTTAAA
1 AAAG-GTTGGGATAGACCAGTCTATGCCAACCTTAAA
* *
12968 AAAGGTTGGGATAGACCCA-TCTAAGGCAA-CTTAAA
1 AAAGGTTGGGATAGA-CCAGTCTATGCCAACCTTAAA
* * *
13003 AAAGTTTGGGATAAACCATTCTATGCCAACCTTAAA
1 AAAGGTTGGGATAGACCAGTCTATGCCAACCTTAAA
* * ** **
13039 AAAGGTTGGGATAGACCCGTCTAAGGTAA-CTTTTA
1 AAAGGTTGGGATAGACCAGTCTATGCCAACCTTAAA
*
13074 AAAGGTTGGGATAGACTAGTCTATGCCAACCTT-AA
1 AAAGGTTGGGATAGACCAGTCTATGCCAACCTTAAA
* * * * *
13109 AAAGGTTGGGATAGACCCGTCTAAGGCAA-ATTTAA
1 AAAGGTTGGGATAGACCAGTCTATGCCAACCTTAAA
*
13144 AAAGGTTGGAATAGAC
1 AAAGGTTGGGATAGAC
13160 TTTATCTGCG
Statistics
Matches: 160, Mismatches: 27, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
34 5 0.03
35 98 0.61
36 50 0.31
37 7 0.04
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.24
Consensus pattern (36 bp):
AAAGGTTGGGATAGACCAGTCTATGCCAACCTTAAA
Found at i:13021 original size:71 final size:71
Alignment explanation
Indices: 12931--13159 Score: 352
Period size: 71 Copynumber: 3.2 Consensus size: 71
12921 GCTGAGTTTT
*
12931 AAAGAGTTGGGATAGACCATTCTATGCCAACCTTAAAAAAGGTTGGGATAGACCCATCTAAGGCA
1 AAAG-GTTGGGATAGACCATTCTATGCCAACCTTAAAAAAGGTTGGGATAGACCCGTCTAAGGCA
*
12996 ACTTAAA
65 ACTTTAA
* * *
13003 AAAGTTTGGGATAAACCATTCTATGCCAACCTTAAAAAAGGTTGGGATAGACCCGTCTAAGGTAA
1 AAAGGTTGGGATAGACCATTCTATGCCAACCTTAAAAAAGGTTGGGATAGACCCGTCTAAGGCAA
*
13068 CTTTTA
66 CTTTAA
* *
13074 AAAGGTTGGGATAGACTAGTCTATGCCAACCTT-AAAAAGGTTGGGATAGACCCGTCTAAGGCAA
1 AAAGGTTGGGATAGACCATTCTATGCCAACCTTAAAAAAGGTTGGGATAGACCCGTCTAAGGCAA
*
13138 ATTTAA
66 CTTTAA
*
13144 AAAGGTTGGAATAGAC
1 AAAGGTTGGGATAGAC
13160 TTTATCTGCG
Statistics
Matches: 143, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
70 49 0.34
71 90 0.63
72 4 0.03
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.24
Consensus pattern (71 bp):
AAAGGTTGGGATAGACCATTCTATGCCAACCTTAAAAAAGGTTGGGATAGACCCGTCTAAGGCAA
CTTTAA
Found at i:15159 original size:17 final size:18
Alignment explanation
Indices: 15137--15170 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15127 AAATGGTTTC
*
15137 GTTATAA-ATTTTTTAAG
1 GTTATAATATTTATTAAG
15154 GTTATAATATTTATTAA
1 GTTATAATATTTATTAA
15171 TTTTTAGGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (18 bp):
GTTATAATATTTATTAAG
Found at i:15504 original size:126 final size:126
Alignment explanation
Indices: 15269--15511 Score: 319
Period size: 126 Copynumber: 1.9 Consensus size: 126
15259 AGTCAACATT
* * * * * *
15269 GTGTTGGACAAAGCCGACTCTTATTTAAGTGTTGCCTTAGGCATCCATATCTCAGCCCTTATACA
1 GTGTTGCAAAAAGCCGAATCTTATTTAAGTGTTGCCTTAGGCATCCATATCACAACACTTATACA
* *
15334 AAGAGTTGGCCTAAGTGTATGTCGACAAGTCTATCCCAACACTTAGGAAAGTGTCGGCTTA
66 AAGAGTTGGCCTAAGTGTATGTCGACAAGTCTATCCAAACACTTAAGAAAGTGTCGGCTTA
* * * *
15395 GTGTTGCAAAAAGTCGAATCTTATTTAAGTGTTGCCTTAGGCGTGCATTTCACAACACTTATACA
1 GTGTTGCAAAAAGCCGAATCTTATTTAAGTGTTGCCTTAGGCATCCATATCACAACACTTATACA
* * *
15460 AAGAGTTGG-CTAAAGTGTATGTC-AGGAAGTCTATTCAAATACTTAAGAAAGT
66 AAGAGTTGGCCT-AAGTGTATGTCGA-CAAGTCTATCCAAACACTTAAGAAAGT
15512 TTCAGGCCAA
Statistics
Matches: 100, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
125 3 0.03
126 97 0.97
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (126 bp):
GTGTTGCAAAAAGCCGAATCTTATTTAAGTGTTGCCTTAGGCATCCATATCACAACACTTATACA
AAGAGTTGGCCTAAGTGTATGTCGACAAGTCTATCCAAACACTTAAGAAAGTGTCGGCTTA
Found at i:15681 original size:139 final size:139
Alignment explanation
Indices: 15381--15801 Score: 492
Period size: 139 Copynumber: 3.1 Consensus size: 139
15371 AACACTTAGG
* * * * * *
15381 AAAGTGTCGGCTTAGTGTTGCAAAAAGTCGAATCTTATTTAAGTGTTGCCTTAGGCGTGCATTTC
1 AAAGTGTCGACATAGTGTTGGAAAAAGTCGACTCTTATTTAAGTGTTGCCTTAGGCATGCATATC
* * * * * * * *
15446 ACAACACTTATACAAAGAGTTGGCTAAAGTGTATGTCAGGAAGTCTATTCAAATACTTAAGAAAG
66 -CAACCCTTATACAAAGACTTGGCCAAAGTGTATGTCAGCAAGTCTATCCCAACACTTAGGAAAG
* *
15511 TTTCAGGCCA
130 TGTCAGCCCA
* * * * * *
15521 AAAGTTTCAACATAGTATTGGACAAAGTCGACTCTTATTTGAGTGTTGCCTTACGCATGCATATC
1 AAAGTGTCGACATAGTGTTGGAAAAAGTCGACTCTTATTTAAGTGTTGCCTTAGGCATGCATAT-
* *
15586 CCAACCCTTATACAAAGACTT-GCCAAAGTGTATGTCTGCAAATCTATCCCAACACTTAGGAAAG
65 CCAACCCTTATACAAAGACTTGGCCAAAGTGTATGTCAGCAAGTCTATCCCAACACTTAGGAAAG
15650 TGTCAGCCCA
130 TGTCAGCCCA
* * *
15660 AAAGTGTCGACATAATGTTGGATAAAGACGACTCTTATTTAAGTGTTGCCTTAGGCATGCATAT-
1 AAAGTGTCGACATAGTGTTGGAAAAAGTCGACTCTTATTTAAGTGTTGCCTTAGGCATGCATATC
* * * *
15724 ---CCCTTATACAAAGACTTGGCCAAAGCGTATGTCCGTAAGTCTATCCCAACACTTAGGAAACT
66 CAACCCTTATACAAAGACTTGGCCAAAGTGTATGTCAGCAAGTCTATCCCAACACTTAGGAAAGT
* *
15786 GTCGGCTCA
131 GTCAGCCCA
15795 AAAGTGT
1 AAAGTGT
15802 TGTCTTAGGA
Statistics
Matches: 240, Mismatches: 39, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
134 17 0.07
135 53 0.22
139 99 0.41
140 70 0.29
141 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (139 bp):
AAAGTGTCGACATAGTGTTGGAAAAAGTCGACTCTTATTTAAGTGTTGCCTTAGGCATGCATATC
CAACCCTTATACAAAGACTTGGCCAAAGTGTATGTCAGCAAGTCTATCCCAACACTTAGGAAAGT
GTCAGCCCA
Found at i:19403 original size:35 final size:35
Alignment explanation
Indices: 19364--19514 Score: 176
Period size: 35 Copynumber: 4.3 Consensus size: 35
19354 CTCCCTATTT
* * * * *
19364 TGGTGTGTTTCGGTTCGATTATCTCTTCTAAGCAC
1 TGGTGTGTTTCGGATGGATTAGCTCTTTTGAGCAC
* * * *
19399 TGGTGTGTTTTGGATGGATTATCTCTTTTGTGCAT
1 TGGTGTGTTTCGGATGGATTAGCTCTTTTGAGCAC
* *
19434 TGGTGTGTTTAGGATGGATTAGCTCTTTTGAGCAT
1 TGGTGTGTTTCGGATGGATTAGCTCTTTTGAGCAC
* *
19469 TGGTGTGTTTCAGATGGATTAGCTCTTATGAGCATC
1 TGGTGTGTTTCGGATGGATTAGCTCTTTTGAGCA-C
19505 TGGTGTGTTT
1 TGGTGTGTTT
19515 GGTTGGAATA
Statistics
Matches: 101, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
35 91 0.90
36 10 0.10
ACGTcount: A:0.15, C:0.12, G:0.28, T:0.45
Consensus pattern (35 bp):
TGGTGTGTTTCGGATGGATTAGCTCTTTTGAGCAC
Found at i:21810 original size:140 final size:139
Alignment explanation
Indices: 21522--21871 Score: 560
Period size: 140 Copynumber: 2.5 Consensus size: 139
21512 ATTTTTATTC
* * ** * * * * *
21522 TTTCCAAAAGAATATTAACTTCCACGTATTTTATATTTTGACCGAAATTAATTAATATAACTATT
1 TTTCAAAAAGAATATTAATTTCCTTGTTTTTTATATTTTGACCAAAATTAACTAATATAATTGTT
*
21587 TATCTTAATAAATTCGACAAAATATATACAATTAATATTTTGTATGAATCAAATTCATATATTAG
66 TATATTAATAAATTCGACAAAATATATACAATTAATATTTTGTATGAATCAAATTCATATATTAG
21652 TTATATTTT
131 TTATATTTT
21661 TTTCAAAAAGAATATTAATTTCCTTGTTTTTTATATTTTGACCAAAATTAACTAATATAATTGTT
1 TTTCAAAAAGAATATTAATTTCCTTGTTTTTTATATTTTGACCAAAATTAACTAATATAATTGTT
*
21726 TATATTAATAAATTTGGTA-AAAATATATA-ATATTAATATTTTGTATGAATCAAATTCATATAT
66 TATATTAATAAA-TTCG-ACAAAATATATACA-ATTAATATTTTGTATGAATCAAATTCATATAT
21789 TAGTTATATTTT
128 TAGTTATATTTT
21801 TTTCAAAAAGAATATTAATTTCCTTGTTTTTTATATTTTGACCAAAATTAACTAATATAATTGTT
1 TTTCAAAAAGAATATTAATTTCCTTGTTTTTTATATTTTGACCAAAATTAACTAATATAATTGTT
21866 TATATT
66 TATATT
21872 CTTTCCAAAA
Statistics
Matches: 197, Mismatches: 11, Indels: 5
0.92 0.05 0.02
Matches are distributed among these distances:
139 68 0.35
140 128 0.65
141 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.06, T:0.46
Consensus pattern (139 bp):
TTTCAAAAAGAATATTAATTTCCTTGTTTTTTATATTTTGACCAAAATTAACTAATATAATTGTT
TATATTAATAAATTCGACAAAATATATACAATTAATATTTTGTATGAATCAAATTCATATATTAG
TTATATTTT
Found at i:27886 original size:16 final size:16
Alignment explanation
Indices: 27865--27899 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
27855 ATATAGATCC
*
27865 TAATTTTAGTTATTTT
1 TAATTTTAGTTAATTT
*
27881 TAATTTTATTTAATTT
1 TAATTTTAGTTAATTT
27897 TAA
1 TAA
27900 GTTAGTAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (16 bp):
TAATTTTAGTTAATTT
Found at i:47054 original size:20 final size:20
Alignment explanation
Indices: 47029--47073 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
47019 GAATATATAA
47029 TTTTAATTTGGC-TGATTTAT
1 TTTTAATTT-GCTTGATTTAT
*
47049 TTTTAATTTGCTTTATTTAT
1 TTTTAATTTGCTTGATTTAT
47069 TTTTA
1 TTTTA
47074 TTAAAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 2 0.09
20 21 0.91
ACGTcount: A:0.20, C:0.04, G:0.09, T:0.67
Consensus pattern (20 bp):
TTTTAATTTGCTTGATTTAT
Found at i:61969 original size:17 final size:18
Alignment explanation
Indices: 61944--61977 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
61934 CAGATTGGAC
61944 GTGTAGG-CCACACGAGT
1 GTGTAGGCCCACACGAGT
*
61961 GTGTGGGCCCACACGAG
1 GTGTAGGCCCACACGAG
61978 CATTCCACAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.21, C:0.26, G:0.38, T:0.15
Consensus pattern (18 bp):
GTGTAGGCCCACACGAGT
Found at i:62550 original size:13 final size:13
Alignment explanation
Indices: 62534--62579 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
62524 GGGGGTAGGA
62534 TTCTGTATATCTG
1 TTCTGTATATCTG
*
62547 TTCTGTTTATCTG
1 TTCTGTATATCTG
62560 ATTCTG-ATATCTG
1 -TTCTGTATATCTG
62573 TATCTGT
1 T-TCTGT
62580 TATGGGCTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
12 1 0.04
13 22 0.79
14 5 0.18
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.54
Consensus pattern (13 bp):
TTCTGTATATCTG
Found at i:65170 original size:18 final size:16
Alignment explanation
Indices: 65139--65175 Score: 56
Period size: 18 Copynumber: 2.2 Consensus size: 16
65129 CCCTTGCTGA
65139 TCATTCCACTCATCCC
1 TCATTCCACTCATCCC
65155 TCATTCACATCTCATCCC
1 TCATTC-CA-CTCATCCC
65173 TCA
1 TCA
65176 CATTCTCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.32
17 2 0.11
18 11 0.58
ACGTcount: A:0.22, C:0.46, G:0.00, T:0.32
Consensus pattern (16 bp):
TCATTCCACTCATCCC
Found at i:73184 original size:22 final size:22
Alignment explanation
Indices: 73158--73210 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
73148 CCTAAAAATC
73158 AATTTGAAAACAATTAGGGACT
1 AATTTGAAAACAATTAGGGACT
*
73180 AATTTGAAAATAATTAGGGACT
1 AATTTGAAAACAATTAGGGACT
73202 AATTTGAAA
1 AATTTGAAA
73211 TGAAATAGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.47, C:0.06, G:0.17, T:0.30
Consensus pattern (22 bp):
AATTTGAAAACAATTAGGGACT
Found at i:93011 original size:2 final size:2
Alignment explanation
Indices: 93004--93465 Score: 924
Period size: 2 Copynumber: 231.0 Consensus size: 2
92994 TGATGATGTA
93004 AT AT AT AT AT 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 AT AT AT AT AT
93046 AT AT AT AT AT 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 AT AT AT AT AT
93088 AT AT AT AT AT 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 AT AT AT AT AT
93130 AT AT AT AT AT 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 AT AT AT AT AT
93172 AT AT AT AT AT 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 AT AT AT AT AT
93214 AT AT AT AT AT 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 AT AT AT AT AT
93256 AT AT AT AT AT 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 AT AT AT AT AT
93298 AT AT AT AT AT 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 AT AT AT AT AT
93340 AT AT AT AT AT 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 AT AT AT AT AT
93382 AT AT AT AT AT 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 AT AT AT AT AT
93424 AT AT AT AT AT 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 AT AT AT AT AT
93466 TACATCATCA
Statistics
Matches: 460, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 460 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:95988 original size:6 final size:6
Alignment explanation
Indices: 95977--96001 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
95967 GATATTATAA
95977 TAATTT TAATTT TAATTT TAATTT T
1 TAATTT TAATTT TAATTT TAATTT T
96002 TTAAAAACAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TAATTT
Found at i:97779 original size:16 final size:16
Alignment explanation
Indices: 97760--97801 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
97750 TAGGTAAAAT
97760 AAAATATTTTATGTTA
1 AAAATATTTTATGTTA
* *
97776 AAAATATTCTATTTTA
1 AAAATATTTTATGTTA
97792 AAAATTATTT
1 AAAA-TATTT
97802 AATAATAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 18 0.82
17 4 0.18
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (16 bp):
AAAATATTTTATGTTA
Found at i:112192 original size:18 final size:19
Alignment explanation
Indices: 112169--112210 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
112159 TGTAGAAGGA
*
112169 TGAAATTGA-GATCAATTT
1 TGAAATTGAGGATCAAATT
*
112187 TGAAATTGAGGCTCAAATT
1 TGAAATTGAGGATCAAATT
112206 TGAAA
1 TGAAA
112211 GTTATAACTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.40, C:0.07, G:0.19, T:0.33
Consensus pattern (19 bp):
TGAAATTGAGGATCAAATT
Found at i:116750 original size:22 final size:24
Alignment explanation
Indices: 116718--116767 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
116708 ATCATGAAGA
116718 TAAATATTGTTTATC-TTA-ATATT
1 TAAATATTG-TTATCATTAGATATT
*
116741 TAAAT-TTGTTATCATTAGATTTT
1 TAAATATTGTTATCATTAGATATT
116764 TAAA
1 TAAA
116768 ATTATCATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 5 0.21
22 6 0.25
23 13 0.54
ACGTcount: A:0.36, C:0.04, G:0.06, T:0.54
Consensus pattern (24 bp):
TAAATATTGTTATCATTAGATATT
Found at i:118049 original size:22 final size:21
Alignment explanation
Indices: 118013--118058 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 21
118003 AATTTAAACT
118013 AAAAATGTATCAAACTTAATATA
1 AAAAATGTATCAAAC-T-ATATA
*
118036 AAAAATTTAT-AAACTATATA
1 AAAAATGTATCAAACTATATA
118056 AAA
1 AAA
118059 GAAATTAAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 8 0.36
21 1 0.05
22 4 0.18
23 9 0.41
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.30
Consensus pattern (21 bp):
AAAAATGTATCAAACTATATA
Found at i:119018 original size:36 final size:36
Alignment explanation
Indices: 118977--119047 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
118967 GATTATTTAA
*
118977 TCTTAGAGTTCTAATTGTATACTGCTTCTAATTATG
1 TCTTAGAGTTCTAATTGTATACAGCTTCTAATTATG
*
119013 TCTTAGAGTTCTAATTGTATACAGCTTTTAATTAT
1 TCTTAGAGTTCTAATTGTATACAGCTTCTAATTAT
119048 AGCCTTTGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.48
Consensus pattern (36 bp):
TCTTAGAGTTCTAATTGTATACAGCTTCTAATTATG
Found at i:123960 original size:36 final size:36
Alignment explanation
Indices: 123919--123989 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
123909 GATTATTTAA
*
123919 TCTTAGAGTTTTAATTGTATACAGCTTCTAATTATG
1 TCTTAGAGTTCTAATTGTATACAGCTTCTAATTATG
*
123955 TCTTAGAGTTCTAATTGTATACAGCTTTTAATTAT
1 TCTTAGAGTTCTAATTGTATACAGCTTCTAATTAT
123990 AGCCTTTGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.28, C:0.11, G:0.13, T:0.48
Consensus pattern (36 bp):
TCTTAGAGTTCTAATTGTATACAGCTTCTAATTATG
Found at i:131118 original size:54 final size:54
Alignment explanation
Indices: 131059--131167 Score: 200
Period size: 54 Copynumber: 2.0 Consensus size: 54
131049 TTCATGTTAG
* *
131059 TTTTCAATCCACATATTATTATGAATATGCCACAAATACACTAATTATGCCAAA
1 TTTTCAATCCACATATCATTATGAATATGCCACAAATACACCAATTATGCCAAA
131113 TTTTCAATCCACATATCATTATGAATATGCCACAAATACACCAATTATGCCAAA
1 TTTTCAATCCACATATCATTATGAATATGCCACAAATACACCAATTATGCCAAA
131167 T
1 T
131168 GAATCAACTA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.40, C:0.22, G:0.06, T:0.32
Consensus pattern (54 bp):
TTTTCAATCCACATATCATTATGAATATGCCACAAATACACCAATTATGCCAAA
Found at i:134143 original size:17 final size:18
Alignment explanation
Indices: 134116--134150 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
134106 TGACTGCAGA
134116 GTGGTTTTTTTTTTAATT
1 GTGGTTTTTTTTTTAATT
134134 GTGG-TTTTTTTTTAATT
1 GTGGTTTTTTTTTTAATT
134151 TTAAAATGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.11, C:0.00, G:0.17, T:0.71
Consensus pattern (18 bp):
GTGGTTTTTTTTTTAATT
Found at i:137921 original size:27 final size:27
Alignment explanation
Indices: 137886--137939 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
137876 AGTACAAAGT
137886 TCACCCCTAA-CAGAAGAGCACAAAGGC
1 TCACCCCTAATCAGAA-AGCACAAAGGC
* * *
137913 TCACTCCTAATCAGCAAGCCCAAAGGC
1 TCACCCCTAATCAGAAAGCACAAAGGC
137940 CGAACAAAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 19 0.83
28 4 0.17
ACGTcount: A:0.37, C:0.35, G:0.17, T:0.11
Consensus pattern (27 bp):
TCACCCCTAATCAGAAAGCACAAAGGC
Found at i:142208 original size:642 final size:641
Alignment explanation
Indices: 140949--142662 Score: 2572
Period size: 668 Copynumber: 2.6 Consensus size: 641
140939 CAGCAGAGCT
* * * *
140949 TATTTCGATCCAGTTTTTATTTC--TT-TTTTTATTAAATATATGTATAGTTTTGTTCTCATTCG
1 TATTTCGATCCAGTCTTTATTTCTGTTCTTTTTATTATATATATGTATATTTTTGTTCTCGTTCG
* *
141011 ATCTTGTGATTTAAATAAATATTTTATATTACCGTTTATTTTACTAACGTGTGTGCAAGACCATA
66 ATCTTGTGATTTAAATAAATATTTTATATTACTGTTTATTTTACTAACGTGTGTGCAAGATCATA
* **
141076 TTCACTCCAATTTAAAGCCAAATTTGATTTTCCTTTCCGTTTTCACCATTTATGACTCATTTGCT
131 TTCACTTCAATTTAAAGCCAAATTTGATTTTCCTTTCCGTTTTCACCATTTATGACTCATTCCCT
* *
141141 CAATTAGGTCTTGCTAATTTCCCATTTTCCTAAGCTTTTGCTACTTTTAGTGGGATTTAGCTCAA
196 CAATTAGGTCTTGTTAATTTCCCATTTTCCTAAGCTTTTGCTACTTTTAGTGGGATTTAGCTTAA
* *
141206 GAATCGCATTTAAAATTTGGGAAAAGAACTAAGTT-TTTTAGCTTTATGAAATTCAATGCAATGA
261 GAATCACATTTAAAATTTGGAAAAAGAACTAAGTTCTTTTAGCTTTATGAAATTCAATGCAATGA
*
141270 AGTGTTTTCACTATTTCAAGGACAAGTTTTGAAGCAAGGGCAAAATATTAGCCTCAGAATTAAAA
326 AGTGTTTTCACTATTTCAAGGACAAGTTTTGAAGCAAGGG-AAAATATTAGCCTCAGAATTGAAA
* * *
141335 GAATGAATGAACGAAATCAAAGGAACATTCAAAGGCATTTTTCAAACTGTTTTTGGTGATAGCCG
390 GAATGAATGAACGAAATCAAAGGAACATTCAAAGGCATTTTTCAAACTATTTTCGGTGATAGACG
* * *
141400 AAGGCAAGACTATTGTTCGTTGATCACTGTAGCCGTGCTACTACCGTGCTCATCTTGTTGTTGTG
455 AAGGCAAGACTACTGTTCGTTGATCACTGCAGCCGTGCTACTACCGTGCTCATCTTGTTGTTGTA
**
141465 TCCTAAGAGACAATCGACCAACGTTTCTCCAGCACCAAAGGAGCGGTCGAATCTATCTTAAGGAA
520 TCCTAAGAGACAATCGACCAACGTTTCTCCAGCACCAAAGGAGCGACCGAATCTATCTTAAGGAA
* * *
141530 ACTGTGAAAATAGGCCTCAACTACCAATCCGTTTTTCCTGCCTACGTACGAGTATAA
585 ACTATGAAAATAGGCCTCAACTACCAATCCGTTTTTCCTACCTACCTACGAGTATAA
*
141587 TATTTCGATCCAGTCTTTCTTTCTGTTCTTTTTATTATATATATGTATATTTTTGTTCTCGTTCG
1 TATTTCGATCCAGTCTTTATTTCTGTTCTTTTTATTATATATATGTATATTTTTGTTCTCGTTCG
141652 ATCTTGTGATTTAAATAAATATTTTATATTACTGTTTATTTTACTAACGTGTGTGCAAGATCATA
66 ATCTTGTGATTTAAATAAATATTTTATATTACTGTTTATTTTACTAACGTGTGTGCAAGATCATA
*
141717 TTCACTTCAATTTAAAGCCAAATTTGATTTTCCTTTCCATTTTCACCATTTATGACTCATTCCCT
131 TTCACTTCAATTTAAAGCCAAATTTGATTTTCCTTTCCGTTTTCACCATTTATGACTCATTCCCT
* *
141782 CGATTAGGTCTTGTTAATTTCCCATTTTCCTAAGCTTTTGCTACTTTTAGTGGGATTTAACTTAA
196 CAATTAGGTCTTGTTAATTTCCCATTTTCCTAAGCTTTTGCTACTTTTAGTGGGATTTAGCTTAA
* * * * * *
141847 GAATCATATTTAAAATTTGGTACAAGAATTGAGTTCTTTTAGCTTTATGAAATTCAATGTAATGA
261 GAATCACATTTAAAATTTGGAAAAAGAACTAAGTTCTTTTAGCTTTATGAAATTCAATGCAATGA
*
141912 AGTGTTTTCACTATTTCAAGGACAAGTTTTGAAGCAAAGGAAAACTATTAGCCTCAGAATTGAAA
326 AGTGTTTTCACTATTTCAAGGACAAGTTTTGAAGCAAGGGAAAA-TATTAGCCTCAGAATTGAAA
* *
141977 GAATGAATGAAGGAAATCAAAGGAACATTCAAAGGCATTTTTCAAACTATTTTCGGTGATAGATG
390 GAATGAATGAACGAAATCAAAGGAACATTCAAAGGCATTTTTCAAACTATTTTCGGTGATAGACG
* * **
142042 AAGGCAAGGCTACTGTTCGTTGATCACTGCAGTCGTGCTACTGTCGTGCTCATCTTGTTGTTGTA
455 AAGGCAAGACTACTGTTCGTTGATCACTGCAGCCGTGCTACTACCGTGCTCATCTTGTTGTTGTA
* ** * * *
142107 TCTTGGGAGACAATCGACCAATGTTTCTCCAGCACCAAAGGAGTGACCGAATCTGTCTTAAGGAA
520 TCCTAAGAGACAATCGACCAACGTTTCTCCAGCACCAAAGGAGCGACCGAATCTATCTTAAGGAA
* * * *
142172 ACTATGAAAATAGGCCTCAACTATCAGTCTGTTTTTCCTACCTACCTATGAGTATAA
585 ACTATGAAAATAGGCCTCAACTACCAATCCGTTTTTCCTACCTACCTACGAGTATAA
*
142229 TATTTCGATCTAGTCTTTATTTCTGTTCTTTATTTTAATTATTATTATTATTATTATTATTATTA
1 TATTTCGATCCAGTCTTTATTTCTGTTC-----------------------T-TT-TTATTA-TA
* * *
142294 TATATGTATATTTTTGTTCTCGTTCGATCTTGTGATTTAAATAAATATTTTTTATTATTTTTTAT
40 TATATGTATATTTTTGTTCTCGTTCGATCTTGTGATTTAAATAAATATTTTATATTACTGTTTAT
* * *
142359 TTTACTAACATGTGTGCAAGATCATATTCACTTAAATTTAAAGCCAAATTTGATTTTCCTTTCTG
105 TTTACTAACGTGTGTGCAAGATCATATTCACTTCAATTTAAAGCCAAATTTGATTTTCCTTTCCG
* *
142424 TTTTCACCATTTATGACTCATTCCCTCAATTAGGTCCTGTTAATTTCCCATTTTTCTAAGCTTTT
170 TTTTCACCATTTATGACTCATTCCCTCAATTAGGTCTTGTTAATTTCCCATTTTCCTAAGCTTTT
*
142489 GCTACTTTTAGTGGGATTTAGCTTAAGAATCACATTTAAAATTTGGAAAAAGAACCAAGTTCTTT
235 GCTACTTTTAGTGGGATTTAGCTTAAGAATCACATTTAAAATTTGGAAAAAGAACTAAGTTCTTT
142554 TAGCTTTATGAAATTCAATGCAATGAAGTGTTTTCACTATTTCAAGGACAAGTTTTGAAGCAAGG
300 TAGCTTTATGAAATTCAATGCAATGAAGTGTTTTCACTATTTCAAGGACAAGTTTTGAAGCAAGG
*
142619 GAAAAATATTAGCCTCAGAATTGAAAGAATGAAGGAACGAAATC
365 G-AAAATATTAGCCTCAGAATTGAAAGAATGAATGAACGAAATC
142663 TGTTAGAGTT
Statistics
Matches: 970, Mismatches: 74, Indels: 34
0.90 0.07 0.03
Matches are distributed among these distances:
638 21 0.02
640 2 0.00
641 252 0.26
642 337 0.35
665 1 0.00
666 2 0.00
667 6 0.01
668 345 0.36
669 4 0.00
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.39
Consensus pattern (641 bp):
TATTTCGATCCAGTCTTTATTTCTGTTCTTTTTATTATATATATGTATATTTTTGTTCTCGTTCG
ATCTTGTGATTTAAATAAATATTTTATATTACTGTTTATTTTACTAACGTGTGTGCAAGATCATA
TTCACTTCAATTTAAAGCCAAATTTGATTTTCCTTTCCGTTTTCACCATTTATGACTCATTCCCT
CAATTAGGTCTTGTTAATTTCCCATTTTCCTAAGCTTTTGCTACTTTTAGTGGGATTTAGCTTAA
GAATCACATTTAAAATTTGGAAAAAGAACTAAGTTCTTTTAGCTTTATGAAATTCAATGCAATGA
AGTGTTTTCACTATTTCAAGGACAAGTTTTGAAGCAAGGGAAAATATTAGCCTCAGAATTGAAAG
AATGAATGAACGAAATCAAAGGAACATTCAAAGGCATTTTTCAAACTATTTTCGGTGATAGACGA
AGGCAAGACTACTGTTCGTTGATCACTGCAGCCGTGCTACTACCGTGCTCATCTTGTTGTTGTAT
CCTAAGAGACAATCGACCAACGTTTCTCCAGCACCAAAGGAGCGACCGAATCTATCTTAAGGAAA
CTATGAAAATAGGCCTCAACTACCAATCCGTTTTTCCTACCTACCTACGAGTATAA
Found at i:142274 original size:3 final size:3
Alignment explanation
Indices: 142266--142294 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
142256 CTTTATTTTA
142266 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
142295 ATATGTATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:146371 original size:14 final size:14
Alignment explanation
Indices: 146334--146371 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
146324 TTGTTACAAA
*
146334 AACTTTTCTTCTTT
1 AACTTTTCTTCTCT
146348 AACGTTTTCTTCTCT
1 AAC-TTTTCTTCTCT
146363 AACTTTTCT
1 AACTTTTCT
146372 ATTTTCCCGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.16, C:0.24, G:0.03, T:0.58
Consensus pattern (14 bp):
AACTTTTCTTCTCT
Found at i:148488 original size:25 final size:25
Alignment explanation
Indices: 148456--148511 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
148446 GCAATCTAAC
148456 AATCTCAACAATATACAACTTTGCT
1 AATCTCAACAATATACAACTTTGCT
*
148481 AATCTCAACAATATACAACTTTGTT
1 AATCTCAACAATATACAACTTTGCT
148506 AATCTC
1 AATCTC
148512 TTAAGTGAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.39, C:0.23, G:0.04, T:0.34
Consensus pattern (25 bp):
AATCTCAACAATATACAACTTTGCT
Found at i:157667 original size:21 final size:21
Alignment explanation
Indices: 157641--157685 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
157631 ACTTAATTTT
157641 AAAAC-TAAGTACTAAATACCA
1 AAAACTTAAGTA-TAAATACCA
* *
157662 AAAACTTAATTATAAATACTA
1 AAAACTTAAGTATAAATACCA
157683 AAA
1 AAA
157686 TGTCTAAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.60, C:0.13, G:0.02, T:0.24
Consensus pattern (21 bp):
AAAACTTAAGTATAAATACCA
Found at i:166562 original size:32 final size:31
Alignment explanation
Indices: 166512--166607 Score: 156
Period size: 31 Copynumber: 3.1 Consensus size: 31
166502 TCTTAGATAA
166512 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
166543 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
* * *
166575 TTGAAAGAGTTTTATTAAGATTTAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
166606 TT
1 TT
166608 GTAATTTCCC
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
31 31 0.51
32 30 0.49
ACGTcount: A:0.32, C:0.08, G:0.12, T:0.47
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:166608 original size:31 final size:31
Alignment explanation
Indices: 166515--166608 Score: 152
Period size: 32 Copynumber: 3.0 Consensus size: 31
166505 TAGATAATTT
*
166515 AAAGAGTTTTATTAGGATTCAATTACTCTTT
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
166546 AAAGAGTTTTTATTAGGATTCAATTACTCTTG
1 AAAGAG-TTTTATTAGGATTCAATTACTCTTG
* *
166578 AAAGAGTTTTATTAAGATTTAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
166609 TAATTTCCCT
Statistics
Matches: 59, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
31 29 0.49
32 30 0.51
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.45
Consensus pattern (31 bp):
AAAGAGTTTTATTAGGATTCAATTACTCTTG
Found at i:174806 original size:25 final size:25
Alignment explanation
Indices: 174773--174860 Score: 158
Period size: 25 Copynumber: 3.5 Consensus size: 25
174763 TAGCTCTCAT
174773 GAGCTTCCCGTTATATGGTTATTGC
1 GAGCTTCCCGTTATATGGTTATTGC
174798 GAGCTTCCCGTTATATGGTTATTGC
1 GAGCTTCCCGTTATATGGTTATTGC
*
174823 GAGTTTCCCGTTATATGGTTATTGC
1 GAGCTTCCCGTTATATGGTTATTGC
*
174848 GAGCTTCCTGTTA
1 GAGCTTCCCGTTA
174861 ATAGCTCTTC
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 60 1.00
ACGTcount: A:0.16, C:0.19, G:0.24, T:0.41
Consensus pattern (25 bp):
GAGCTTCCCGTTATATGGTTATTGC
Found at i:174963 original size:25 final size:24
Alignment explanation
Indices: 174941--175023 Score: 87
Period size: 25 Copynumber: 3.3 Consensus size: 24
174931 GTCCCGATAT
*
174941 ATGGCTCTTTGGAGCTTCTCGATTA
1 ATGGCTCTTCGGAGCTTC-CGATTA
*
174966 AAGGCTCTTCGTGAGCTTCCCGATTA
1 ATGGCTCTTCG-GAGCTT-CCGATTA
*
174992 ATGGCTCTCCGGAGCTTCCTG-TTA
1 ATGGCTCTTCGGAGCTTCC-GATTA
175016 TATGGCTC
1 -ATGGCTC
175024 ACATGAGCTT
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
24 5 0.10
25 23 0.46
26 21 0.42
27 1 0.02
ACGTcount: A:0.16, C:0.25, G:0.24, T:0.35
Consensus pattern (24 bp):
ATGGCTCTTCGGAGCTTCCGATTA
Found at i:174989 original size:26 final size:25
Alignment explanation
Indices: 174943--175010 Score: 91
Period size: 26 Copynumber: 2.7 Consensus size: 25
174933 CCCGATATAT
* *
174943 GGCTCTTTGGAGCTTCTCGATTAAA
1 GGCTCTTCGGAGCTTCCCGATTAAA
*
174968 GGCTCTTCGTGAGCTTCCCGATTAAT
1 GGCTCTTCG-GAGCTTCCCGATTAAA
*
174994 GGCTCTCCGGAGCTTCC
1 GGCTCTTCGGAGCTTCC
175011 TGTTATATGG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
25 16 0.42
26 22 0.58
ACGTcount: A:0.15, C:0.28, G:0.25, T:0.32
Consensus pattern (25 bp):
GGCTCTTCGGAGCTTCCCGATTAAA
Found at i:175031 original size:25 final size:26
Alignment explanation
Indices: 174977--175070 Score: 97
Period size: 25 Copynumber: 3.7 Consensus size: 26
174967 AGGCTCTTCG
* *
174977 TGAGCTTCCCGATTA-ATGGCTCTCC
1 TGAGCTTCCCGATTATATGGCTCACA
* *
175002 GGAGCTTCCTG-TTATATGGCTCACA
1 TGAGCTTCCCGATTATATGGCTCACA
175027 TGAGCTTCCC-ATTATATGGCTCGA-A
1 TGAGCTTCCCGATTATATGGCTC-ACA
* *
175052 AGAGCTTCCCGTTTATATG
1 TGAGCTTCCCGATTATATG
175071 CTCGTATGAG
Statistics
Matches: 57, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
24 3 0.05
25 46 0.81
26 8 0.14
ACGTcount: A:0.20, C:0.26, G:0.21, T:0.33
Consensus pattern (26 bp):
TGAGCTTCCCGATTATATGGCTCACA
Found at i:175081 original size:25 final size:25
Alignment explanation
Indices: 174977--175081 Score: 90
Period size: 25 Copynumber: 4.2 Consensus size: 25
174967 AGGCTCTTCG
***
174977 TGAGCTTCCCGATTA-ATGGCTCTCC
1 TGAGCTTCCCG-TTATATGGCTCGAA
* *
175002 GGAGCTTCCTGTTATATGGCTC-ACA
1 TGAGCTTCCCGTTATATGGCTCGA-A
*
175027 TGAGCTTCCCATTATATGGCTCGAA
1 TGAGCTTCCCGTTATATGGCTCGAA
* *
175052 AGAGCTTCCCGTTTATAT-GCTCGTA
1 TGAGCTTCCCG-TTATATGGCTCGAA
175077 TGAGC
1 TGAGC
175082 ATTCTCGAAT
Statistics
Matches: 65, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
24 3 0.05
25 55 0.85
26 7 0.11
ACGTcount: A:0.20, C:0.26, G:0.22, T:0.32
Consensus pattern (25 bp):
TGAGCTTCCCGTTATATGGCTCGAA
Found at i:177087 original size:17 final size:17
Alignment explanation
Indices: 177017--177091 Score: 78
Period size: 17 Copynumber: 4.4 Consensus size: 17
177007 AGAACTCACA
* *
177017 GGTGAGCTCTCAAGTTT
1 GGTGAGCTCACAATTTT
* * * *
177034 GGTAAGCTTACAGTCTT
1 GGTGAGCTCACAATTTT
*
177051 GGTGAGCTCACATTTTTT
1 GGTGAGCTCACA-ATTTT
177069 GGTGAGCTCACAATTTT
1 GGTGAGCTCACAATTTT
177086 GGTGAG
1 GGTGAG
177092 TTCGCAGTTC
Statistics
Matches: 46, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
17 31 0.67
18 15 0.33
ACGTcount: A:0.20, C:0.16, G:0.28, T:0.36
Consensus pattern (17 bp):
GGTGAGCTCACAATTTT
Found at i:181890 original size:47 final size:47
Alignment explanation
Indices: 181825--181918 Score: 152
Period size: 47 Copynumber: 2.0 Consensus size: 47
181815 ATATATGCAC
* *
181825 CAACTTGAGAGAGTGTGTTGAAATATGTAAAACCTATATATTTTGGG
1 CAACTTGAGAGAGGGTGTTGAAATATGTAAAACCCATATATTTTGGG
* *
181872 CAACTTGAGGGAGGGTGTTGAAATATGTGAAACCCATATATTTTGGG
1 CAACTTGAGAGAGGGTGTTGAAATATGTAAAACCCATATATTTTGGG
181919 GATATATTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.32, C:0.10, G:0.27, T:0.32
Consensus pattern (47 bp):
CAACTTGAGAGAGGGTGTTGAAATATGTAAAACCCATATATTTTGGG
Found at i:183944 original size:21 final size:21
Alignment explanation
Indices: 183918--183959 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
183908 GTGGAAAAGG
183918 TTAGAAACTCTTTATGTGACT
1 TTAGAAACTCTTTATGTGACT
183939 TTAGAAACTCTTTATGTGACT
1 TTAGAAACTCTTTATGTGACT
183960 AAGTCTTTGG
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:0.14, G:0.14, T:0.43
Consensus pattern (21 bp):
TTAGAAACTCTTTATGTGACT
Found at i:188709 original size:16 final size:16
Alignment explanation
Indices: 188679--188708 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
188669 TAAATGTAAC
188679 ATATAATATGAAAAAT
1 ATATAATATGAAAAAT
188695 ATATAATA-GAAAAA
1 ATATAATATGAAAAA
188709 ACTAAACAGG
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:0.67, C:0.00, G:0.07, T:0.27
Consensus pattern (16 bp):
ATATAATATGAAAAAT
Found at i:190414 original size:6 final size:6
Alignment explanation
Indices: 190400--190431 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
190390 ATTTCCACTG
*
190400 CCTCCA CCTCTA CCTCTA CCTCTA CCTCTA CC
1 CCTCTA CCTCTA CCTCTA CCTCTA CCTCTA CC
190432 GCCACCAACA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.56, G:0.00, T:0.28
Consensus pattern (6 bp):
CCTCTA
Found at i:192460 original size:16 final size:17
Alignment explanation
Indices: 192441--192482 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
192431 ATAAGTTTTT
192441 ATTTTAAAAATAT-ATA
1 ATTTTAAAAATATAATA
192457 ATTTAATAAAAATATAATA
1 ATTT--TAAAAATATAATA
192476 ACTTTTA
1 A-TTTTA
192483 CATCAAGTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
16 4 0.18
18 11 0.50
19 4 0.18
20 3 0.14
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (17 bp):
ATTTTAAAAATATAATA
Found at i:198860 original size:97 final size:97
Alignment explanation
Indices: 198719--199150 Score: 613
Period size: 97 Copynumber: 4.6 Consensus size: 97
198709 GTTTTAGGAT
* * ** *
198719 TTTTAGAT-TTTAGGG-TTTTAAGGAAAAAAAT-AAATAAATAAGGGTTTAGGGTTTTTTTAAGT
1 TTTTAG-TGTTTAGGGTTTTTAAGG-AAAAAATCAAATAAATTAGGGTTT-GGGGTTACTTGAGT
198781 AAATTAATTATAAA-TTTTAAAAAATTAGATTAGG
63 AAATTAATTATAAATTTTTAAAAAATTAGATTAGG
* *
198815 TTTTAGTGTTTAGGGTTCTTAAGGAGAAAATCAAATAAATTAGGGTTTGGGGTTACTTGAGTAAA
1 TTTTAGTGTTTAGGGTTTTTAAGGAAAAAATCAAATAAATTAGGGTTTGGGGTTACTTGAGTAAA
198880 TTAATTATAAATTTTTAAAAAATTAGATTAGG
66 TTAATTATAAATTTTTAAAAAATTAGATTAGG
* *
198912 GTTTAGTGTTTAGGGTTTTTAA-GAAAAAATTCAAATAAATTAGGGTTTAGGGTTACTTGAGTAA
1 TTTTAGTGTTTAGGGTTTTTAAGGAAAAAA-TCAAATAAATTAGGGTTTGGGGTTACTTGAGTAA
198976 ATTAATTATAAATTTTTAAAAAATTAGATTAGG
65 ATTAATTATAAATTTTTAAAAAATTAGATTAGG
* *
199009 GTTTAGTTTTTAGGGTTTTTAAGGAAAAAATCAAATAAATTAGGGTTTGGGGTTACTTGAGTAAA
1 TTTTAGTGTTTAGGGTTTTTAAGGAAAAAATCAAATAAATTAGGGTTTGGGGTTACTTGAGTAAA
199074 TTAATTATAAATTTTTAAAAAATTAGATTA-G
66 TTAATTATAAATTTTTAAAAAATTAGATTAGG
**
199105 ----A--GTTTAGGACTTTTAAGG--AAAATCAAATAAATTAGGGTTTGGGGTT
1 TTTTAGTGTTTAGGGTTTTTAAGGAAAAAATCAAATAAATTAGGGTTTGGGGTT
199151 TAGGGTTACT
Statistics
Matches: 314, Mismatches: 16, Indels: 20
0.90 0.05 0.06
Matches are distributed among these distances:
88 28 0.09
90 14 0.04
92 1 0.00
95 1 0.00
96 50 0.16
97 213 0.68
98 7 0.02
ACGTcount: A:0.39, C:0.02, G:0.19, T:0.40
Consensus pattern (97 bp):
TTTTAGTGTTTAGGGTTTTTAAGGAAAAAATCAAATAAATTAGGGTTTGGGGTTACTTGAGTAAA
TTAATTATAAATTTTTAAAAAATTAGATTAGG
Found at i:199415 original size:126 final size:126
Alignment explanation
Indices: 199187--199601 Score: 670
Period size: 126 Copynumber: 3.3 Consensus size: 126
199177 TAATTTAAAA
*
199187 AAGCTCCCATGTGGACGCTCTTTTGCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGACGTTT
1 AAGCTCCCATGTGGACGCTCTTTTGCTACAGTAGTTCTTAAAAAAATAATTTTGAGAAGACGTTT
* *
199252 CTGAGCAAATAGTGTCAAAAACTCTTTGAGCAGGATGCATTGTCAGCACAAGTACTGAAAG
66 CTGAGCAAATAGTGTCAAAAACTCTTTAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAG
* *
199313 AAGCTCCCATGTGGACGCTCTTTTGCTAAAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGTTT
1 AAGCTCCCATGTGGACGCTCTTTTGCTACAGTAGTTCTTAAAAAAATAATTTTGAGAAGACGTTT
* *
199378 CTGAGCAAATAGTGTCAAAAACTCTTTAAGCAAGATGCATTGTCAGCAAAAGTACTGAAAT
66 CTGAGCAAATAGTGTCAAAAACTCTTTAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAG
* * *
199439 AAGCTCTCACGTGGACGCTCTTTTGCTACAGTAGTT-TCTAAAAAAATAATTTTGAGAAGATGTT
1 AAGCTCCCATGTGGACGCTCTTTTGCTACAGTAGTTCT-TAAAAAAATAATTTTGAGAAGACGTT
* * * * * *
199503 TCTGAGCAAATAGAGTGAAAAACGCTTCAAGCAGGATGCAATGTCAGCAAAAGTACTAAAAG
65 TCTGAGCAAATAGTGTCAAAAACTCTTTAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAG
199565 AAGCTCCCATGTGGACGCTCTTTTGCTACAGTAGTTC
1 AAGCTCCCATGTGGACGCTCTTTTGCTACAGTAGTTC
199602 CTATTTGGCC
Statistics
Matches: 265, Mismatches: 22, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
125 1 0.00
126 264 1.00
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (126 bp):
AAGCTCCCATGTGGACGCTCTTTTGCTACAGTAGTTCTTAAAAAAATAATTTTGAGAAGACGTTT
CTGAGCAAATAGTGTCAAAAACTCTTTAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAG
Found at i:203306 original size:30 final size:30
Alignment explanation
Indices: 203272--203328 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
203262 TGCTGGGCCT
203272 GGTGATTGTGTGGCCGCTATTGATGGGTCG
1 GGTGATTGTGTGGCCGCTATTGATGGGTCG
* *
203302 GGTGATTGTGTGGGCGCTGTTGATGGG
1 GGTGATTGTGTGGCCGCTATTGATGGG
203329 CCTGCATCGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.09, C:0.11, G:0.47, T:0.33
Consensus pattern (30 bp):
GGTGATTGTGTGGCCGCTATTGATGGGTCG
Found at i:204925 original size:11 final size:11
Alignment explanation
Indices: 204911--204943 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
204901 CTTGGAGATG
*
204911 AATTTGAGAGA
1 AATTTGAAAGA
204922 AATTTGAAAGA
1 AATTTGAAAGA
204933 AATTTGAAAGA
1 AATTTGAAAGA
204944 TTGAAGATGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.21, T:0.27
Consensus pattern (11 bp):
AATTTGAAAGA
Found at i:207121 original size:30 final size:30
Alignment explanation
Indices: 207085--207141 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
207075 ATGATACAAG
*
207085 CCCATCAACGGCGCCCACACAATCACCCGA
1 CCCATCAACAGCGCCCACACAATCACCCGA
* *
207115 CCCATCAACAGCGCCCATACATTCACC
1 CCCATCAACAGCGCCCACACAATCACC
207142 AGGCCCAACA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.30, C:0.49, G:0.11, T:0.11
Consensus pattern (30 bp):
CCCATCAACAGCGCCCACACAATCACCCGA
Found at i:211282 original size:94 final size:94
Alignment explanation
Indices: 211021--211409 Score: 595
Period size: 94 Copynumber: 4.1 Consensus size: 94
211011 AACGCTAAAC
* *
211021 CCCAAACCCTAATTTATTTGATTTTTTCTTAAAAATCCTAAACACTAAACCCTAATCTAATTTTT
1 CCCAAACCCTAATTTATTTGATTTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAA--TTT
211086 TTTAAAATTTATAATTAATTTACTCAAGTAA
64 TTTAAAATTTATAATTAATTTACTCAAGTAA
*
211117 CCCCAAACCTTAATTTATTTGATTTTTCCTTAAAAACCCTAAAC-CTTAAACCCTAATCTAAATT
1 -CCCAAACCCTAATTTATTTGATTTTTCCTTAAAAACCCTAAACAC-TAAACCCTAATCT-AATT
211181 TTTTAAAA-TTATAATTAATTTACTCAAGTAA
63 TTTTAAAATTTATAATTAATTTACTCAAGTAA
*
211212 CCCAAACCCTAATTTATTTGATTTTATCCTTAAGAACCCTAAACACTAAACCCTAATCTAATTTT
1 CCCAAACCCTAATTTATTTGATTTT-TCCTTAAAAACCCTAAACACTAAACCCTAATCTAATTTT
211277 TTAAAATTTATAATTAATTTACTCAAGTAA
65 TTAAAATTTATAATTAATTTACTCAAGTAA
* * *
211307 CCTTAAACCCTAATTTATTT-ATTTTTCCTTAAAAACCATAAACAGTAAACCCTAATCTAATTTT
1 CC-CAAACCCTAATTTATTTGATTTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAATTTT
* * *
211371 TTAAAATTTATAATTAATTTAATTAAGAAA
65 TTAAAATTTATAATTAATTTACTCAAGTAA
211401 CCCTAAACC
1 CCC-AAACC
211410 TTAAACCCTT
Statistics
Matches: 272, Mismatches: 13, Indels: 17
0.90 0.04 0.06
Matches are distributed among these distances:
94 106 0.39
95 83 0.31
96 28 0.10
97 53 0.19
98 2 0.01
ACGTcount: A:0.40, C:0.19, G:0.02, T:0.39
Consensus pattern (94 bp):
CCCAAACCCTAATTTATTTGATTTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTT
TAAAATTTATAATTAATTTACTCAAGTAA
Found at i:211295 original size:190 final size:189
Alignment explanation
Indices: 211021--211409 Score: 611
Period size: 189 Copynumber: 2.0 Consensus size: 189
211011 AACGCTAAAC
* *
211021 CCCAAACCCTAATTTATTTGATTTTTTCTTAAAAATCCTAAACACTAAACCCTAATCTAATTTTT
1 CCCAAACCCTAATTTATTTGATTTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAA-TTTT
*
211086 TTTAAAATTTATAATTAATTTACTCAAGTAACCCCAAACCTTAATTTATTTGATTTTTCCTTAAA
65 TTTAAAATTTATAATTAATTTACTCAAGTAACCCCAAACCCTAATTTATTT-ATTTTTCCTTAAA
* ** * *
211151 AACCCTAAACCTTAAACCCTAATCTAAATTTTTTAAAA-TTATAATTAATTTACTCAAGTAA
129 AACCATAAACAGTAAACCCTAATCT-AATTTTTTAAAATTTATAATTAATTTAATCAAGAAA
*
211212 CCCAAACCCTAATTTATTTGATTTTATCCTTAAGAACCCTAAACACTAAACCCTAATCTAA-TTT
1 CCCAAACCCTAATTTATTTGATTTT-TCCTTAAAAACCCTAAACACTAAACCCTAATCTAATTTT
**
211276 TTTAAAATTTATAATTAATTTACTCAAGTAACCTTAAACCCTAATTTATTTATTTTTCCTTAAAA
65 TTTAAAATTTATAATTAATTTACTCAAGTAACCCCAAACCCTAATTTATTTATTTTTCCTTAAAA
*
211341 ACCATAAACAGTAAACCCTAATCTAATTTTTTAAAATTTATAATTAATTTAATTAAGAAA
130 ACCATAAACAGTAAACCCTAATCTAATTTTTTAAAATTTATAATTAATTTAATCAAGAAA
211401 CCCTAAACC
1 CCC-AAACC
211410 TTAAACCCTT
Statistics
Matches: 183, Mismatches: 12, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
188 12 0.07
189 58 0.32
190 56 0.31
191 25 0.14
192 32 0.17
ACGTcount: A:0.40, C:0.19, G:0.02, T:0.39
Consensus pattern (189 bp):
CCCAAACCCTAATTTATTTGATTTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTT
TTAAAATTTATAATTAATTTACTCAAGTAACCCCAAACCCTAATTTATTTATTTTTCCTTAAAAA
CCATAAACAGTAAACCCTAATCTAATTTTTTAAAATTTATAATTAATTTAATCAAGAAA
Found at i:214064 original size:36 final size:36
Alignment explanation
Indices: 214024--214155 Score: 147
Period size: 36 Copynumber: 3.4 Consensus size: 36
214014 TTTCATTCAT
214024 TCAGATAAGTGTAGTATTTATCACTTTGTCACTTGA
1 TCAGATAAGTGTAGTATTTATCACTTTGTCACTTGA
*
214060 TCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCTTGA
1 TCAGATAAGTGTAG-T--A--T-----TTATCACTTTGTCACTTGA
* *
214106 TCAGATAAGTGTAGCACTTATCACTTTGTCACTTGA
1 TCAGATAAGTGTAGTATTTATCACTTTGTCACTTGA
214142 TCAGATAAGTGTAG
1 TCAGATAAGTGTAG
214156 CTAAAGCTAC
Statistics
Matches: 82, Mismatches: 4, Indels: 20
0.77 0.04 0.19
Matches are distributed among these distances:
36 46 0.56
37 1 0.01
39 1 0.01
41 1 0.01
43 1 0.01
46 32 0.39
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.36
Consensus pattern (36 bp):
TCAGATAAGTGTAGTATTTATCACTTTGTCACTTGA
Found at i:214108 original size:46 final size:46
Alignment explanation
Indices: 214041--214192 Score: 198
Period size: 46 Copynumber: 3.5 Consensus size: 46
214031 AGTGTAGTAT
214041 TTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCAC
*
214087 TTATCACTTTGTCTCTTGATCAGATAA--GT-G-T--AG----CAC
1 TTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCAC
*
214123 TTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCAA
1 TTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCAC
* *
214169 TTATCACTTTATCTCTTGATCAGA
1 TTATCACTTTGTCACTTGATCAGA
214193 AGTTCATTTC
Statistics
Matches: 91, Mismatches: 5, Indels: 20
0.78 0.04 0.17
Matches are distributed among these distances:
36 29 0.32
38 2 0.02
39 1 0.01
40 3 0.03
42 3 0.03
43 1 0.01
44 2 0.02
46 50 0.55
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.36
Consensus pattern (46 bp):
TTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCAC
Found at i:214161 original size:82 final size:82
Alignment explanation
Indices: 214024--214192 Score: 302
Period size: 82 Copynumber: 2.1 Consensus size: 82
214014 TTTCATTCAT
* * *
214024 TCAGATAAGTGTAGTATTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTT
1 TCAGATAAGTGTAGCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCAATT
*
214089 ATCACTTTGTCTCTTGA
66 ATCACTTTATCTCTTGA
214106 TCAGATAAGTGTAGCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCAATT
1 TCAGATAAGTGTAGCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCAATT
214171 ATCACTTTATCTCTTGA
66 ATCACTTTATCTCTTGA
214188 TCAGA
1 TCAGA
214193 AGTTCATTTC
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
82 83 1.00
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (82 bp):
TCAGATAAGTGTAGCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCAATT
ATCACTTTATCTCTTGA
Found at i:214346 original size:36 final size:36
Alignment explanation
Indices: 214306--214437 Score: 147
Period size: 36 Copynumber: 3.4 Consensus size: 36
214296 TTTCATTCAT
214306 TCAGATAAGTGTAGTATTTATCACTTTGTCACTTGA
1 TCAGATAAGTGTAGTATTTATCACTTTGTCACTTGA
*
214342 TCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCTTGA
1 TCAGATAAGTGTAG-T--A--T-----TTATCACTTTGTCACTTGA
* *
214388 TCAGATAAGTGTAGCACTTATCACTTTGTCACTTGA
1 TCAGATAAGTGTAGTATTTATCACTTTGTCACTTGA
214424 TCAGATAAGTGTAG
1 TCAGATAAGTGTAG
214438 CTAAAGCTAC
Statistics
Matches: 82, Mismatches: 4, Indels: 20
0.77 0.04 0.19
Matches are distributed among these distances:
36 46 0.56
37 1 0.01
39 1 0.01
41 1 0.01
43 1 0.01
46 32 0.39
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.36
Consensus pattern (36 bp):
TCAGATAAGTGTAGTATTTATCACTTTGTCACTTGA
Found at i:214390 original size:46 final size:46
Alignment explanation
Indices: 214323--214474 Score: 198
Period size: 46 Copynumber: 3.5 Consensus size: 46
214313 AGTGTAGTAT
214323 TTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCAC
*
214369 TTATCACTTTGTCTCTTGATCAGATAA--GT-G-T--AG----CAC
1 TTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCAC
*
214405 TTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCAA
1 TTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCAC
* *
214451 TTATCACTTTATCTCTTGATCAGA
1 TTATCACTTTGTCACTTGATCAGA
214475 AGTACTCAAA
Statistics
Matches: 91, Mismatches: 5, Indels: 20
0.78 0.04 0.17
Matches are distributed among these distances:
36 29 0.32
38 2 0.02
39 1 0.01
40 3 0.03
42 3 0.03
43 1 0.01
44 2 0.02
46 50 0.55
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.36
Consensus pattern (46 bp):
TTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCAC
Found at i:214427 original size:282 final size:283
Alignment explanation
Indices: 213912--214477 Score: 1125
Period size: 282 Copynumber: 2.0 Consensus size: 283
213902 TCATAAATTA
213912 TTCATTTCGATTAATTTTTCATGAATGACAAGTTCTTTTATTTGTTTTGACGACAAACACATTTC
1 TTCATTTCGATTAATTTTTCATGAATGACAAGTTCTTTTATTTGTTTTGACGACAAACACATTTC
213977 TGCTACGCAATCGATAATGGTAAGGAAAAATTTTAATTTTCATTCATTCAGATAAGTGTAGTATT
66 TGCTACGCAATCGATAATGGTAAGGAAAAATTTTAATTTTCATTCATTCAGATAAGTGTAGTATT
214042 TATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCTTGAT
131 TATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCTTGAT
214107 CAGATAAGTGTAGCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCAATTA
196 CAGATAAGTGTAGCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCAATTA
214172 TCACTTTATCTCTTGATCAGAAG
261 TCACTTTATCTCTTGATCAGAAG
214195 TTCATTTCGA-TAATTTTTCATGAATGACAAGTTCTTTTATTTGTTTTGACGACAAACACATTTC
1 TTCATTTCGATTAATTTTTCATGAATGACAAGTTCTTTTATTTGTTTTGACGACAAACACATTTC
214259 TGCTACGCAATCGATAATGGTAAGGAAAAATTTTAATTTTCATTCATTCAGATAAGTGTAGTATT
66 TGCTACGCAATCGATAATGGTAAGGAAAAATTTTAATTTTCATTCATTCAGATAAGTGTAGTATT
214324 TATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCTTGAT
131 TATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCTTGAT
214389 CAGATAAGTGTAGCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCAATTA
196 CAGATAAGTGTAGCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCAATTA
214454 TCACTTTATCTCTTGATCAGAAG
261 TCACTTTATCTCTTGATCAGAAG
214477 T
1 T
214478 ACTCAAATCC
Statistics
Matches: 283, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
282 273 0.96
283 10 0.04
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.38
Consensus pattern (283 bp):
TTCATTTCGATTAATTTTTCATGAATGACAAGTTCTTTTATTTGTTTTGACGACAAACACATTTC
TGCTACGCAATCGATAATGGTAAGGAAAAATTTTAATTTTCATTCATTCAGATAAGTGTAGTATT
TATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCTTGAT
CAGATAAGTGTAGCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCAATTA
TCACTTTATCTCTTGATCAGAAG
Found at i:214443 original size:82 final size:82
Alignment explanation
Indices: 214306--214474 Score: 302
Period size: 82 Copynumber: 2.1 Consensus size: 82
214296 TTTCATTCAT
* * *
214306 TCAGATAAGTGTAGTATTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTT
1 TCAGATAAGTGTAGCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCAATT
*
214371 ATCACTTTGTCTCTTGA
66 ATCACTTTATCTCTTGA
214388 TCAGATAAGTGTAGCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCAATT
1 TCAGATAAGTGTAGCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCAATT
214453 ATCACTTTATCTCTTGA
66 ATCACTTTATCTCTTGA
214470 TCAGA
1 TCAGA
214475 AGTACTCAAA
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
82 83 1.00
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (82 bp):
TCAGATAAGTGTAGCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCAATT
ATCACTTTATCTCTTGA
Found at i:221166 original size:10 final size:10
Alignment explanation
Indices: 221151--221182 Score: 64
Period size: 10 Copynumber: 3.2 Consensus size: 10
221141 CAAGTGGGTT
221151 AGCTTGCAAC
1 AGCTTGCAAC
221161 AGCTTGCAAC
1 AGCTTGCAAC
221171 AGCTTGCAAC
1 AGCTTGCAAC
221181 AG
1 AG
221183 AACTTAGGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.31, C:0.28, G:0.22, T:0.19
Consensus pattern (10 bp):
AGCTTGCAAC
Found at i:225941 original size:12 final size:12
Alignment explanation
Indices: 225926--225952 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
225916 GGCTGTGTGC
225926 TAGGCTATGTAA
1 TAGGCTATGTAA
225938 TAGGCTATGTAA
1 TAGGCTATGTAA
225950 TAG
1 TAG
225953 CCTGACTTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.26, T:0.33
Consensus pattern (12 bp):
TAGGCTATGTAA
Found at i:228782 original size:15 final size:16
Alignment explanation
Indices: 228762--228791 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
228752 TGGCAACTAA
228762 TATATAAT-TATATTT
1 TATATAATATATATTT
228777 TATATAATATATATT
1 TATATAATATATATT
228792 AATTGTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TATATAATATATATTT
Found at i:230676 original size:20 final size:20
Alignment explanation
Indices: 230651--230691 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
230641 TCGAGGAGGG
230651 AACGAGG-TGATTCAAGCAAA
1 AACGAGGATGA-TCAAGCAAA
*
230671 AACGAGGATGATGAAGCAAA
1 AACGAGGATGATCAAGCAAA
230691 A
1 A
230692 GATGGGTCGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 16 0.84
21 3 0.16
ACGTcount: A:0.49, C:0.12, G:0.27, T:0.12
Consensus pattern (20 bp):
AACGAGGATGATCAAGCAAA
Found at i:236754 original size:16 final size:16
Alignment explanation
Indices: 236735--236765 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
236725 CTTAGGTTCA
*
236735 CAAACAGATAGGCTCG
1 CAAACAAATAGGCTCG
236751 CAAACAAATAGGCTC
1 CAAACAAATAGGCTC
236766 TCATACATAT
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:0.42, C:0.26, G:0.19, T:0.13
Consensus pattern (16 bp):
CAAACAAATAGGCTCG
Found at i:236896 original size:21 final size:21
Alignment explanation
Indices: 236872--236911 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
236862 GTAATATAGA
*
236872 AGGGTTCGTACACATTTTAAT
1 AGGGTTCGCACACATTTTAAT
*
236893 AGGGTTCGCATACATTTTA
1 AGGGTTCGCACACATTTTA
236912 TTCAATTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.38
Consensus pattern (21 bp):
AGGGTTCGCACACATTTTAAT
Found at i:237641 original size:6 final size:6
Alignment explanation
Indices: 237630--237661 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
237620 AAACCCAATT
237630 ATTTTA ATTTTA ATTTTA A-TTT- ATTTTA ATTT
1 ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTT
237662 CTACAACACT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
4 1 0.04
5 6 0.25
6 17 0.71
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (6 bp):
ATTTTA
Found at i:241628 original size:23 final size:23
Alignment explanation
Indices: 241579--241821 Score: 183
Period size: 23 Copynumber: 10.5 Consensus size: 23
241569 TTTATCATGT
* * *
241579 TTGAAGTGTTAAAAGTGTTGCATA
1 TTGAAGTGTTTAAA-TGTTGTAAA
* *
241603 TTGAAGTATTTAAATGTTGTGAA
1 TTGAAGTGTTTAAATGTTGTAAA
* *
241626 TTGAAGTG-TT-AGTGTGCTGCAAA
1 TTGAAGTGTTTAAATGT--TGTAAA
241649 TTGAAGTGTTTAAATGTTGTAAA
1 TTGAAGTGTTTAAATGTTGTAAA
* *
241672 TTGAAGTGTTTTAA-GTACTGCAAA
1 TTGAAGTGTTTAAATGT--TGTAAA
241696 TTGAAGTGTTTAAATGTTGTAAA
1 TTGAAGTGTTTAAATGTTGTAAA
* *
241719 TTGAAGTGTTTTAA-GTACTGCAAA
1 TTGAAGTGTTTAAATGT--TGTAAA
* ** * *
241743 TTGAATTGTTTAGTTGCTGAAAA
1 TTGAAGTGTTTAAATGTTGTAAA
* * *
241766 TTG-AGATGTTTTATTGCTGT-AA
1 TTGAAG-TGTTTAAATGTTGTAAA
* *
241788 TTGAGGTGTATAAATGTTGTAAA
1 TTGAAGTGTTTAAATGTTGTAAA
241811 TTGAAGTGTTT
1 TTGAAGTGTTT
241822 TATTGCTGAA
Statistics
Matches: 172, Mismatches: 34, Indels: 27
0.74 0.15 0.12
Matches are distributed among these distances:
21 4 0.02
22 22 0.13
23 92 0.53
24 47 0.27
25 7 0.04
ACGTcount: A:0.31, C:0.04, G:0.23, T:0.42
Consensus pattern (23 bp):
TTGAAGTGTTTAAATGTTGTAAA
Found at i:241685 original size:70 final size:68
Alignment explanation
Indices: 241579--241836 Score: 193
Period size: 70 Copynumber: 3.7 Consensus size: 68
241569 TTTATCATGT
* * * * **
241579 TTGAAGTGTTAAAAGTGTTGCATATTGAAGT-ATTTAAATGTTGTGAATTGAAGTGTTAGTGTGC
1 TTGAAGTGTTTAAA-TGTTGCAAATTGAAGTGTTTTAAATGCTGAAAATTGAAGTGTTA-TGTGC
241643 TGCAAA
64 TG-AAA
* * * * ** *
241649 TTGAAGTGTTTAAATGTTGTAAATTGAAGTGTTTTAAGTACTGCAAATTGAAGTGTTTAAATGTT
1 TTGAAGTGTTTAAATGTTGCAAATTGAAGTGTTTTAAATGCTGAAAATTGAAGTG-TTATGTGCT
241714 GTAAA
65 G-AAA
* * ** *
241719 TTGAAGTGTTTTAA-GTACTGCAAATTGAATTG-TTTAGTTGCTGAAAATTGAGATGTTTTAT-T
1 TTGAAGTGTTTAAATGT--TGCAAATTGAAGTGTTTTAAATGCTGAAAATTGA-A-GTGTTATGT
*
241781 GCTGTAA
62 GCTGAAA
* * * *
241788 TTGAGGTGTATAAATGTTGTAAATTGAAGTGTTTT-ATTGCTGAAAATTG
1 TTGAAGTGTTTAAATGTTGCAAATTGAAGTGTTTTAAATGCTGAAAATTG
241837 GATGGTATAA
Statistics
Matches: 150, Mismatches: 30, Indels: 18
0.76 0.15 0.09
Matches are distributed among these distances:
68 25 0.17
69 32 0.21
70 72 0.48
71 19 0.13
72 2 0.01
ACGTcount: A:0.31, C:0.04, G:0.23, T:0.41
Consensus pattern (68 bp):
TTGAAGTGTTTAAATGTTGCAAATTGAAGTGTTTTAAATGCTGAAAATTGAAGTGTTATGTGCTG
AAA
Found at i:241711 original size:47 final size:47
Alignment explanation
Indices: 241579--241836 Score: 276
Period size: 47 Copynumber: 5.6 Consensus size: 47
241569 TTTATCATGT
** * * * *
241579 TTGAAGTGTTAAAAGTGTTGCATATTGAAGTATTTAAATGTTGTGAA
1 TTGAAGTGTTTTAAGTGCTGCAAATTGAAGTGTTTAAATGTTGTAAA
*
241626 TTGAAGTG--TTAGTGTGCTGCAAATTGAAGTGTTTAAATGTTGTAAA
1 TTGAAGTGTTTTA-AGTGCTGCAAATTGAAGTGTTTAAATGTTGTAAA
*
241672 TTGAAGTGTTTTAAGTACTGCAAATTGAAGTGTTTAAATGTTGTAAA
1 TTGAAGTGTTTTAAGTGCTGCAAATTGAAGTGTTTAAATGTTGTAAA
* * ** * *
241719 TTGAAGTGTTTTAAGTACTGCAAATTGAATTGTTTAGTTGCTGAAAA
1 TTGAAGTGTTTTAAGTGCTGCAAATTGAAGTGTTTAAATGTTGTAAA
* * * *
241766 TTG-AGATGTTTT-ATTGCTG-TAATTGAGGTGTATAAATGTTGTAAA
1 TTGAAG-TGTTTTAAGTGCTGCAAATTGAAGTGTTTAAATGTTGTAAA
* *
241811 TTGAAGTGTTTT-ATTGCTGAAAATTG
1 TTGAAGTGTTTTAAGTGCTGCAAATTG
241837 GATGGTATAA
Statistics
Matches: 180, Mismatches: 25, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
45 35 0.19
46 51 0.28
47 91 0.51
48 3 0.02
ACGTcount: A:0.31, C:0.04, G:0.23, T:0.41
Consensus pattern (47 bp):
TTGAAGTGTTTTAAGTGCTGCAAATTGAAGTGTTTAAATGTTGTAAA
Found at i:241792 original size:22 final size:23
Alignment explanation
Indices: 241713--241840 Score: 79
Period size: 23 Copynumber: 5.6 Consensus size: 23
241703 GTTTAAATGT
* *
241713 TGTAAATTGA-AGTGTTTTAAGTAC
1 TGTAAATTGAGA-TGTTTT-ATTGC
*
241737 TGCAAATTGA-AT-TGTTTAGTTGC
1 TGTAAATTGAGATGT-TTTA-TTGC
*
241760 TGAAAATTGAGATGTTTTATTGC
1 TGTAAATTGAGATGTTTTATTGC
* * * * *
241783 TGT-AATTGAGGTGTATAAATGT
1 TGTAAATTGAGATGTTTTATTGC
241805 TGTAAATTGA-AGTGTTTTATTGC
1 TGTAAATTGAGA-TGTTTTATTGC
*
241828 TGAAAATTG-GATG
1 TGTAAATTGAGATG
241841 GTATAATGAC
Statistics
Matches: 81, Mismatches: 16, Indels: 16
0.72 0.14 0.14
Matches are distributed among these distances:
22 21 0.26
23 43 0.53
24 16 0.20
25 1 0.01
ACGTcount: A:0.30, C:0.04, G:0.23, T:0.42
Consensus pattern (23 bp):
TGTAAATTGAGATGTTTTATTGC
Found at i:242451 original size:45 final size:44
Alignment explanation
Indices: 242368--242463 Score: 149
Period size: 45 Copynumber: 2.2 Consensus size: 44
242358 ATTACAACAT
*
242368 CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
1 CATTACATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
*
242412 CATTACATTCAACCAAACA-ATTGAATTACTATTACAGTTCTATTC
1 CATTACATTCAACCAAACACA-AGAA-TACTATTACAGTTCTATTC
242457 CATTACA
1 CATTACA
242464 GCTCTATTCA
Statistics
Matches: 48, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
43 1 0.02
44 21 0.44
45 26 0.54
ACGTcount: A:0.39, C:0.25, G:0.04, T:0.32
Consensus pattern (44 bp):
CATTACATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
Found at i:242463 original size:16 final size:16
Alignment explanation
Indices: 242442--242481 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
242432 TTGAATTACT
* *
242442 ATTACAGTTCTATTCC
1 ATTACAGCTCTATTCA
242458 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCA
242474 ATTACAGC
1 ATTACAGC
242482 GAACCAAACG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCA
Found at i:244823 original size:45 final size:47
Alignment explanation
Indices: 244772--244869 Score: 137
Period size: 48 Copynumber: 2.1 Consensus size: 47
244762 GAAGATGCTT
244772 TTTCATC-A-AATAATAATGAAAGCTTCAAAGGTGATTGAAAACGCG
1 TTTCATCAATAATAATAATGAAAGCTTCAAAGGTGATTGAAAACGCG
* * * *
244817 TTTCATCGAATAATAATAATGAATGCTTCAGAGGTGCTTGAAAACGTG
1 TTTCATC-AATAATAATAATGAAAGCTTCAAAGGTGATTGAAAACGCG
244865 TTTCA
1 TTTCA
244870 GCAGATATGT
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
45 7 0.15
47 1 0.02
48 38 0.83
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (47 bp):
TTTCATCAATAATAATAATGAAAGCTTCAAAGGTGATTGAAAACGCG
Found at i:251517 original size:14 final size:14
Alignment explanation
Indices: 251498--251527 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
251488 ATTCAATAGA
251498 ACTAAAATGATTAT
1 ACTAAAATGATTAT
*
251512 ACTAAAGTGATTAT
1 ACTAAAATGATTAT
251526 AC
1 AC
251528 ATAATAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.10, G:0.10, T:0.33
Consensus pattern (14 bp):
ACTAAAATGATTAT
Found at i:253197 original size:38 final size:38
Alignment explanation
Indices: 253155--253230 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
253145 TCAATACACA
253155 GCATGTAATTCACTTACCAAAACTTACCAATTGTACAT
1 GCATGTAATTCACTTACCAAAACTTACCAATTGTACAT
*
253193 GCATGTAATTCACTTGCCAAAACTTACCAATTGTACAT
1 GCATGTAATTCACTTACCAAAACTTACCAATTGTACAT
253231 ATAATCAATA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.36, C:0.24, G:0.09, T:0.32
Consensus pattern (38 bp):
GCATGTAATTCACTTACCAAAACTTACCAATTGTACAT
Found at i:254095 original size:25 final size:25
Alignment explanation
Indices: 254036--254144 Score: 107
Period size: 25 Copynumber: 4.4 Consensus size: 25
254026 AGCTCTAAAC
* *
254036 CGGTATGCTCTTACGAGCT-A-TAA
1 CGGTAAGCTCATACGAGCTGAGTAA
*
254059 TCGATAAGCTCATACGAGCTGAGTAA
1 -CGGTAAGCTCATACGAGCTGAGTAA
* * * *
254085 CTGTAAGCTCATGCGAGTTGAATAA
1 CGGTAAGCTCATACGAGCTGAGTAA
*
254110 CGGTAAGCTCATACAAGCTGAG-AA
1 CGGTAAGCTCATACGAGCTGAGTAA
254134 TCGGTAAGCTC
1 -CGGTAAGCTC
254145 TCACGAGTTG
Statistics
Matches: 69, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
24 18 0.26
25 48 0.70
26 3 0.04
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (25 bp):
CGGTAAGCTCATACGAGCTGAGTAA
Found at i:269340 original size:964 final size:964
Alignment explanation
Indices: 267474--269392 Score: 3838
Period size: 964 Copynumber: 2.0 Consensus size: 964
267464 GCCAAAACAA
267474 AGTTAAATACGCAGTGATAAATTAAAATAATAAGGATGAGTGCGAAAGGTTTACTGACTAATATT
1 AGTTAAATACGCAGTGATAAATTAAAATAATAAGGATGAGTGCGAAAGGTTTACTGACTAATATT
267539 AGAAAATTCTAAGGTAAAGCAAGAAAAAAATGCAATGGTAATTACGAGAATAATCGAGTGAAAAA
66 AGAAAATTCTAAGGTAAAGCAAGAAAAAAATGCAATGGTAATTACGAGAATAATCGAGTGAAAAA
267604 AATAAATAACTAAGAATGCAATAGCAAATATGCTACGGCAACATATTGAAGGTCTACAATGTTGG
131 AATAAATAACTAAGAATGCAATAGCAAATATGCTACGGCAACATATTGAAGGTCTACAATGTTGG
267669 TTTTGAAGGTTAGGACTACTAAGAATCTGGCCTTACTTTCAGTAATACCTCAGCATACTTGTACT
196 TTTTGAAGGTTAGGACTACTAAGAATCTGGCCTTACTTTCAGTAATACCTCAGCATACTTGTACT
267734 TAATCTACTGCTCGGAGGAGATCTAAAGTGACCTGGTTTTTTCGAGAGCAAGGTCTCAAGTTACC
261 TAATCTACTGCTCGGAGGAGATCTAAAGTGACCTGGTTTTTTCGAGAGCAAGGTCTCAAGTTACC
267799 TAGCCTGTGTCTGTAGGTCTTATCACGATACCCTACACTATTTTGTCTTCATTTTATACAAACGC
326 TAGCCTGTGTCTGTAGGTCTTATCACGATACCCTACACTATTTTGTCTTCATTTTATACAAACGC
267864 TGATCTATGTCTAGAGTCTGCTATTAGTATTCAGTCGAATACTCACTTGTATCATTCAATTTTGG
391 TGATCTATGTCTAGAGTCTGCTATTAGTATTCAGTCGAATACTCACTTGTATCATTCAATTTTGG
267929 TCCAACTAATCCAACATTTTCATAATTTGATTCATTTTATGGGCATGCTGCACATTCATCTATGT
456 TCCAACTAATCCAACATTTTCATAATTTGATTCATTTTATGGGCATGCTGCACATTCATCTATGT
267994 CTAGAGAATATAAACATACATTTATAAAATAAAAAAAAACTGAATGAAATAGTAGATTAAACAAA
521 CTAGAGAATATAAACATACATTTATAAAATAAAAAAAAACTGAATGAAATAGTAGATTAAACAAA
268059 ATATATGCTTCAACCATTAAAAATAATAAAAGCTTTCATCTTGTAATCCCAACCTTATGAAATTT
586 ATATATGCTTCAACCATTAAAAATAATAAAAGCTTTCATCTTGTAATCCCAACCTTATGAAATTT
268124 AGCTCATGGGTCGGCGATTAAAATTCAAGTTTGTAATAACATCCAACACCATTTTCATCAAATTA
651 AGCTCATGGGTCGGCGATTAAAATTCAAGTTTGTAATAACATCCAACACCATTTTCATCAAATTA
268189 AATCACGGAGAATAGAATAAGAAATATCGGAAGAACTTAGGAAGATGGTTGCCGCCAAATCAATC
716 AATCACGGAGAATAGAATAAGAAATATCGGAAGAACTTAGGAAGATGGTTGCCGCCAAATCAATC
268254 CTTAATCCAGTAACACAGCATCTTTTGATGGCTGAGAGGGATTGCCTTCGATCTCCTATTTTCGT
781 CTTAATCCAGTAACACAGCATCTTTTGATGGCTGAGAGGGATTGCCTTCGATCTCCTATTTTCGT
268319 CTCTTCTTAGCTACTACCCTCAATTTTTGCCTCCAGATCTCTACACTTAGGGCTTCCTCATTCGG
846 CTCTTCTTAGCTACTACCCTCAATTTTTGCCTCCAGATCTCTACACTTAGGGCTTCCTCATTCGG
268384 CTTTTTATAGGCCTTTTCTTCCTAGAATAGCTCCAACAACCCATGGCAAAACCG
911 CTTTTTATAGGCCTTTTCTTCCTAGAATAGCTCCAACAACCCATGGCAAAACCG
268438 AGTTAAATACGCAGTGATAAATTAAAATAATAAGGATGAGTGCGAAAGGTTTACTGACTAATATT
1 AGTTAAATACGCAGTGATAAATTAAAATAATAAGGATGAGTGCGAAAGGTTTACTGACTAATATT
268503 AGAAAATTCTAAGGTAAAGCAAGAAAAAAATGCAATGGTAATTACGAGAATAATCGAGTGAAAAA
66 AGAAAATTCTAAGGTAAAGCAAGAAAAAAATGCAATGGTAATTACGAGAATAATCGAGTGAAAAA
268568 AATAAATAACTAAGAATGCAATAGCAAATATGCTACGGCAACATATTGAAGGTCTACAATGTTGG
131 AATAAATAACTAAGAATGCAATAGCAAATATGCTACGGCAACATATTGAAGGTCTACAATGTTGG
268633 TTTTGAAGGTTAGGACTACTAAGAATCTGGCCTTACTTTCAGTAATACCTCAGCATACTTGTACT
196 TTTTGAAGGTTAGGACTACTAAGAATCTGGCCTTACTTTCAGTAATACCTCAGCATACTTGTACT
268698 TAATCTACTGCTCGGAGGAGATCTAAAGTGACCTGGTTTTTTCGAGAGCAAGGTCTCAAGTTACC
261 TAATCTACTGCTCGGAGGAGATCTAAAGTGACCTGGTTTTTTCGAGAGCAAGGTCTCAAGTTACC
268763 TAGCCTGTGTCTGTAGGTCTTATCACGATACCCTACACTATTTTGTCTTCATTTTATACAAACGC
326 TAGCCTGTGTCTGTAGGTCTTATCACGATACCCTACACTATTTTGTCTTCATTTTATACAAACGC
268828 TGATCTATGTCTAGAGTCTGCTATTAGTATTCAGTCGAATACTCACTTGTATCATTCAATTTTGG
391 TGATCTATGTCTAGAGTCTGCTATTAGTATTCAGTCGAATACTCACTTGTATCATTCAATTTTGG
268893 TCCAACTAATCCAACATTTTCATAATTTGATTCATTTTATGGGCATGCTGCACATTCATCTATGT
456 TCCAACTAATCCAACATTTTCATAATTTGATTCATTTTATGGGCATGCTGCACATTCATCTATGT
268958 CTAGAGAATATAAACATACATTTATAAAATAAAAAAAAACTGAATGAAATAGTAGATTAAACAAA
521 CTAGAGAATATAAACATACATTTATAAAATAAAAAAAAACTGAATGAAATAGTAGATTAAACAAA
269023 ATATATGCTTCAACCATTAAAAATAATAAAAGCTTTCATCTTGTAATCCCAACCTTATGAAATTT
586 ATATATGCTTCAACCATTAAAAATAATAAAAGCTTTCATCTTGTAATCCCAACCTTATGAAATTT
269088 AGCTCATGGGTCGGCGATTAAAATTCAAGTTTGTAATAACATCCAACACCATTTTCATCAAATTA
651 AGCTCATGGGTCGGCGATTAAAATTCAAGTTTGTAATAACATCCAACACCATTTTCATCAAATTA
269153 AATCACGGAGAATAGAATAAGAAATATCGGAAGAACTTAGGAAGATGGTTGCCGCCAAATCAATC
716 AATCACGGAGAATAGAATAAGAAATATCGGAAGAACTTAGGAAGATGGTTGCCGCCAAATCAATC
269218 CTTAATCCAGTAACACAGCATCTTTTGATGGCTGAGAGGGATTGCCTTCGATCTCCTATTTTCGT
781 CTTAATCCAGTAACACAGCATCTTTTGATGGCTGAGAGGGATTGCCTTCGATCTCCTATTTTCGT
269283 CTCTTCTTAGCTACTACCCTCAATTTTTGCCTCCAGATCTCTACACTTAGGGCTTCCTCATTCGG
846 CTCTTCTTAGCTACTACCCTCAATTTTTGCCTCCAGATCTCTACACTTAGGGCTTCCTCATTCGG
269348 CTTTTTATAGGCCTTTTCTTCCTAGAATAGCTCCAACAACCCATG
911 CTTTTTATAGGCCTTTTCTTCCTAGAATAGCTCCAACAACCCATG
269393 AAATCTTCTC
Statistics
Matches: 955, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
964 955 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.31
Consensus pattern (964 bp):
AGTTAAATACGCAGTGATAAATTAAAATAATAAGGATGAGTGCGAAAGGTTTACTGACTAATATT
AGAAAATTCTAAGGTAAAGCAAGAAAAAAATGCAATGGTAATTACGAGAATAATCGAGTGAAAAA
AATAAATAACTAAGAATGCAATAGCAAATATGCTACGGCAACATATTGAAGGTCTACAATGTTGG
TTTTGAAGGTTAGGACTACTAAGAATCTGGCCTTACTTTCAGTAATACCTCAGCATACTTGTACT
TAATCTACTGCTCGGAGGAGATCTAAAGTGACCTGGTTTTTTCGAGAGCAAGGTCTCAAGTTACC
TAGCCTGTGTCTGTAGGTCTTATCACGATACCCTACACTATTTTGTCTTCATTTTATACAAACGC
TGATCTATGTCTAGAGTCTGCTATTAGTATTCAGTCGAATACTCACTTGTATCATTCAATTTTGG
TCCAACTAATCCAACATTTTCATAATTTGATTCATTTTATGGGCATGCTGCACATTCATCTATGT
CTAGAGAATATAAACATACATTTATAAAATAAAAAAAAACTGAATGAAATAGTAGATTAAACAAA
ATATATGCTTCAACCATTAAAAATAATAAAAGCTTTCATCTTGTAATCCCAACCTTATGAAATTT
AGCTCATGGGTCGGCGATTAAAATTCAAGTTTGTAATAACATCCAACACCATTTTCATCAAATTA
AATCACGGAGAATAGAATAAGAAATATCGGAAGAACTTAGGAAGATGGTTGCCGCCAAATCAATC
CTTAATCCAGTAACACAGCATCTTTTGATGGCTGAGAGGGATTGCCTTCGATCTCCTATTTTCGT
CTCTTCTTAGCTACTACCCTCAATTTTTGCCTCCAGATCTCTACACTTAGGGCTTCCTCATTCGG
CTTTTTATAGGCCTTTTCTTCCTAGAATAGCTCCAACAACCCATGGCAAAACCG
Found at i:273313 original size:25 final size:25
Alignment explanation
Indices: 273272--273366 Score: 122
Period size: 25 Copynumber: 3.8 Consensus size: 25
273262 TATGCTCATA
*
273272 TGAGCTGTA-AACGGTAAGCTCCTC
1 TGAGCTGAATAACGGTAAGCTCCTC
* *
273296 TAAGCTAAATAACGGTAAGCTCCT-
1 TGAGCTGAATAACGGTAAGCTCCTC
273320 TCGAGCTGAATAACGGTAAGCTCCTC
1 T-GAGCTGAATAACGGTAAGCTCCTC
* *
273346 CGAGCTGAATAATGGTAAGCT
1 TGAGCTGAATAACGGTAAGCT
273367 TACACAAGCT
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
24 7 0.11
25 54 0.89
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (25 bp):
TGAGCTGAATAACGGTAAGCTCCTC
Found at i:273377 original size:50 final size:50
Alignment explanation
Indices: 273281--273377 Score: 115
Period size: 50 Copynumber: 1.9 Consensus size: 50
273271 ATGAGCTGTA
* * * *
273281 AACGGTAAGCTCCTCTAAGCTAAATAACGGTAAGCTCCTTCGAGCTGAAT
1 AACGGTAAGCTCCTCCAAGCTAAATAACGGTAAGCTACTACAAGCTGAAT
* * *
273331 AACGGTAAGCTCCTCCGAGCTGAATAATGGTAAGCTTAC-ACAAGCTG
1 AACGGTAAGCTCCTCCAAGCTAAATAACGGTAAGC-TACTACAAGCTG
273378 GGTATAGGTA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
50 37 0.95
51 2 0.05
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.23
Consensus pattern (50 bp):
AACGGTAAGCTCCTCCAAGCTAAATAACGGTAAGCTACTACAAGCTGAAT
Found at i:284621 original size:82 final size:82
Alignment explanation
Indices: 284484--284644 Score: 295
Period size: 82 Copynumber: 2.0 Consensus size: 82
284474 TAAGACATGA
*
284484 AAATTAATATTCTTTTGGAAAGAATATAATTAATATATGAATTTGATTCATACAAAATATTATTT
1 AAATTAATATTCTTTTGGAAAGAATATAATTAATATATGAATTTGATTCATACAAAATATTAATT
284549 GTATATATTTTACCAGG
66 GTATATATTTTACCAGG
* *
284566 AAATTAATATTCTTTTGGAAAGAATATAATTAATATTTGAATTTGATTCATACAAATTATTAATT
1 AAATTAATATTCTTTTGGAAAGAATATAATTAATATATGAATTTGATTCATACAAAATATTAATT
284631 GTATATATTTTACC
66 GTATATATTTTACC
284645 GAATTTAGTA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
82 76 1.00
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (82 bp):
AAATTAATATTCTTTTGGAAAGAATATAATTAATATATGAATTTGATTCATACAAAATATTAATT
GTATATATTTTACCAGG
Found at i:291900 original size:70 final size:70
Alignment explanation
Indices: 291810--291946 Score: 256
Period size: 70 Copynumber: 2.0 Consensus size: 70
291800 GAAGTTTCAT
* *
291810 TAAAATTTTTGGAGTGGTTTTAAAGTATTATATTTTTTTGATAAATAATATCTCACTGAAATTTA
1 TAAAATTTATGGAATGGTTTTAAAGTATTATATTTTTTTGATAAATAATATCTCACTGAAATTTA
291875 TACGC
66 TACGC
291880 TAAAATTTATGGAATGGTTTTAAAGTATTATATTTTTTTGATAAATAATATCTCACTGAAATTTA
1 TAAAATTTATGGAATGGTTTTAAAGTATTATATTTTTTTGATAAATAATATCTCACTGAAATTTA
291945 TA
66 TA
291947 TGCCATTTAA
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 65 1.00
ACGTcount: A:0.36, C:0.06, G:0.12, T:0.46
Consensus pattern (70 bp):
TAAAATTTATGGAATGGTTTTAAAGTATTATATTTTTTTGATAAATAATATCTCACTGAAATTTA
TACGC
Found at i:294702 original size:37 final size:37
Alignment explanation
Indices: 294661--294736 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
294651 CTGAGAAAAG
*
294661 TATATTTTCTGGGTCATGTTATCTATATTAATGGCAT
1 TATATTTTCTGGGTCATGTTATCTACATTAATGGCAT
294698 TATATTTTCTGGGTCATGTTATCTACATTAATGGCAT
1 TATATTTTCTGGGTCATGTTATCTACATTAATGGCAT
294735 TA
1 TA
294737 AAGTAGATCC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.12, G:0.16, T:0.47
Consensus pattern (37 bp):
TATATTTTCTGGGTCATGTTATCTACATTAATGGCAT
Found at i:296648 original size:10 final size:10
Alignment explanation
Indices: 296633--296678 Score: 62
Period size: 10 Copynumber: 4.8 Consensus size: 10
296623 AACATAAAGT
296633 AAATGAAATA
1 AAATGAAATA
296643 AAATGAAATA
1 AAATGAAATA
296653 AAA-GAAA-A
1 AAATGAAATA
296661 CAAATGAAATA
1 -AAATGAAATA
296672 AAA-GAAA
1 AAATGAAA
296679 GAAAGAAACA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
8 1 0.03
9 11 0.33
10 20 0.61
11 1 0.03
ACGTcount: A:0.74, C:0.02, G:0.11, T:0.13
Consensus pattern (10 bp):
AAATGAAATA
Found at i:296759 original size:13 final size:14
Alignment explanation
Indices: 296723--296760 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
296713 AGGAACAGGG
296723 GAGAAAGAAAGAAA
1 GAGAAAGAAAGAAA
*
296737 GAAAAAGAAA-AAA
1 GAGAAAGAAAGAAA
*
296750 GAGAAGGAAAG
1 GAGAAAGAAAG
296761 GAAAAACTAG
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
13 11 0.55
14 9 0.45
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (14 bp):
GAGAAAGAAAGAAA
Found at i:296764 original size:18 final size:17
Alignment explanation
Indices: 296724--296766 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
296714 GGAACAGGGG
296724 AGAAAGAAAGAAAGAAAA
1 AGAAA-AAAGAAAGAAAA
*
296742 AGAAAAAAGAGAAGGAAA
1 AGAAAAAAGA-AAGAAAA
*
296760 GGAAAAA
1 AGAAAAA
296767 CTAGGGTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 5 0.23
18 17 0.77
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (17 bp):
AGAAAAAAGAAAGAAAA
Found at i:297110 original size:14 final size:14
Alignment explanation
Indices: 297093--297122 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
297083 TTGATAGGGA
297093 GAAAATATTTTCCG
1 GAAAATATTTTCCG
297107 GAAAATATTTTCCG
1 GAAAATATTTTCCG
297121 GA
1 GA
297123 TTTCCCGATG
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:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (14 bp):
GAAAATATTTTCCG
Found at i:297327 original size:14 final size:14
Alignment explanation
Indices: 297308--297337 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
297298 AACGATTGCA
297308 GCCTCATCATCTCT
1 GCCTCATCATCTCT
*
297322 GCCTCATCTTCTCT
1 GCCTCATCATCTCT
297336 GC
1 GC
297338 TAGTTCACCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.10, C:0.43, G:0.10, T:0.37
Consensus pattern (14 bp):
GCCTCATCATCTCT
Found at i:297985 original size:16 final size:16
Alignment explanation
Indices: 297960--297991 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
297950 ACTAAAGTGC
*
297960 TTATTTTGCAAATCGA
1 TTATTCTGCAAATCGA
297976 TTATTCTGCAAATCGA
1 TTATTCTGCAAATCGA
297992 CAACAAATCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (16 bp):
TTATTCTGCAAATCGA
Found at i:313949 original size:14 final size:15
Alignment explanation
Indices: 313919--313953 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
313909 ATGACTTAAA
313919 TTCAAAACTTAAATT
1 TTCAAAACTTAAATT
* *
313934 TTCAATACTTAATTT
1 TTCAAAACTTAAATT
313949 TTCAA
1 TTCAA
313954 GATATACTGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.40, C:0.14, G:0.00, T:0.46
Consensus pattern (15 bp):
TTCAAAACTTAAATT
Found at i:315586 original size:16 final size:15
Alignment explanation
Indices: 315563--315596 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
315553 CCCTAAGTGT
*
315563 TGAAAATTTAAGTAC
1 TGAAAAATTAAGTAC
*
315578 TGAAAAATTAAGTAT
1 TGAAAAATTAAGTAC
315593 TGAA
1 TGAA
315597 TAAGTTATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.03, G:0.15, T:0.32
Consensus pattern (15 bp):
TGAAAAATTAAGTAC
Found at i:316952 original size:43 final size:43
Alignment explanation
Indices: 316855--316953 Score: 101
Period size: 43 Copynumber: 2.3 Consensus size: 43
316845 TGGCTCAGGA
* * *
316855 ACATAACCATGTGGCCAAACCATGTACAGATGAAAATAGGGTC
1 ACATAACCGTGTCGCCAAACCATGTACAGATCAAAATAGGGTC
**** * *
316898 ACACGGTCGTGTCGCCAGACCATGTGCA-ATTCAAAATAGGGTC
1 ACATAACCGTGTCGCCAAACCATGTACAGA-TCAAAATAGGGTC
316941 ACATAACCGTGTC
1 ACATAACCGTGTC
316954 TCTAAGTAGT
Statistics
Matches: 42, Mismatches: 13, Indels: 2
0.74 0.23 0.04
Matches are distributed among these distances:
42 1 0.02
43 41 0.98
ACGTcount: A:0.33, C:0.24, G:0.22, T:0.20
Consensus pattern (43 bp):
ACATAACCGTGTCGCCAAACCATGTACAGATCAAAATAGGGTC
Found at i:319866 original size:41 final size:41
Alignment explanation
Indices: 319808--319888 Score: 126
Period size: 41 Copynumber: 2.0 Consensus size: 41
319798 CCAGATGACT
* * *
319808 GTGTGCCAGACCGTGTGAGCCATACGGGCGTGTGTCTGGCC
1 GTGTGCCAGACCATGTGAGACACACGGGCGTGTGTCTGGCC
*
319849 GTGTGTCAGACCATGTGAGACACACGGGCGTGTGTCTGGC
1 GTGTGCCAGACCATGTGAGACACACGGGCGTGTGTCTGGC
319889 TTCATGTCTA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.15, C:0.25, G:0.38, T:0.22
Consensus pattern (41 bp):
GTGTGCCAGACCATGTGAGACACACGGGCGTGTGTCTGGCC
Found at i:319904 original size:41 final size:41
Alignment explanation
Indices: 319814--319916 Score: 120
Period size: 41 Copynumber: 2.5 Consensus size: 41
319804 GACTGTGTGC
* * * *
319814 CAGACCGTGTGAGCCATACGGGCGTGTGTCTGGCCGTGTGT
1 CAGACCATGTGAGCCACACGGGCGTGTGTCTGGCCATGTCT
*
319855 CAGACCATGTGAGACACACGGGCGTGTGTCTGGCTTCATGTCT
1 CAGACCATGTGAGCCACACGGGCGTGTGTCTGGC--CATGTCT
*
319898 -AG-CCATGTGGGCCACACGG
1 CAGACCATGTGAGCCACACGG
319917 TCTAGACAGG
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
41 46 0.87
42 2 0.04
43 5 0.09
ACGTcount: A:0.17, C:0.26, G:0.35, T:0.22
Consensus pattern (41 bp):
CAGACCATGTGAGCCACACGGGCGTGTGTCTGGCCATGTCT
Found at i:327153 original size:27 final size:27
Alignment explanation
Indices: 327114--327166 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
327104 CATGATAGTC
*
327114 AAAGAACTGCCTTTGTGGCGAACTCTA
1 AAAGAACTACCTTTGTGGCGAACTCTA
*
327141 AAAGAACTACCTTTGTGGTGAACTCT
1 AAAGAACTACCTTTGTGGCGAACTCT
327167 GAATGAATGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (27 bp):
AAAGAACTACCTTTGTGGCGAACTCTA
Found at i:330316 original size:15 final size:15
Alignment explanation
Indices: 330296--330325 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
330286 AACTTATAAT
330296 GCTTAGTTTCAATGA
1 GCTTAGTTTCAATGA
330311 GCTTAGTTTCAATGA
1 GCTTAGTTTCAATGA
330326 ATCCATTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (15 bp):
GCTTAGTTTCAATGA
Found at i:336085 original size:44 final size:44
Alignment explanation
Indices: 336017--336148 Score: 185
Period size: 44 Copynumber: 3.0 Consensus size: 44
336007 CCTCATTAAT
*
336017 ATTAGCTCTTCTAGAGTTTTCAACTAATTTTTTACTACCAAATA
1 ATTAGCTCTTCTAGAGCTTTCAACTAATTTTTTACTACCAAATA
* * * *
336061 ATTAACTCTTCTAGAGCTTTCAACTAATTTTATGCTGCCAAATA
1 ATTAGCTCTTCTAGAGCTTTCAACTAATTTTTTACTACCAAATA
* *
336105 ATTAGCTTTTCTAGAGCTTTCAACT-ATTTTTGAACTACCAAATA
1 ATTAGCTCTTCTAGAGCTTTCAACTAATTTTT-TACTACCAAATA
336149 TTACATTAAT
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
43 5 0.07
44 71 0.93
ACGTcount: A:0.32, C:0.19, G:0.08, T:0.41
Consensus pattern (44 bp):
ATTAGCTCTTCTAGAGCTTTCAACTAATTTTTTACTACCAAATA
Found at i:336988 original size:2 final size:2
Alignment explanation
Indices: 336981--337020 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
336971 TTGAGAGCTT
336981 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
337021 CTTGTTTTCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:346841 original size:9 final size:9
Alignment explanation
Indices: 346813--347072 Score: 105
Period size: 9 Copynumber: 27.1 Consensus size: 9
346803 TCTGGCCTAG
*
346813 TTTTTATGA
1 TTTTTATAA
346822 TTTTCTAATAA
1 TTTT-T-ATAA
*
346833 CTTTTATAA
1 TTTTTATAA
* *
346842 GTTTATATCAG
1 -TTTTTAT-AA
* *
346853 TTTTAATAT
1 TTTTTATAA
346862 TTTTTATAA
1 TTTTTATAA
*
346871 TTTTTATGA
1 TTTTTATAA
346880 TTTTTATAGAA
1 TTTTTAT--AA
* *
346891 TTTTAATATG
1 TTTTTATA-A
346901 TTTTTATAAA
1 TTTTTAT-AA
* *
346911 ATTTTAAACA
1 TTTTTATA-A
*
346921 TTTTAACT-A
1 TTTTTA-TAA
346930 TGTTTTATCAA
1 T-TTTTAT-AA
346941 -TTTTATAA
1 TTTTTATAA
346949 TTTTTTTATAA
1 --TTTTTATAA
*
346960 TTTATTAGAA
1 TTT-TTATAA
346970 TTTTTAT-A
1 TTTTTATAA
346978 TTTTTATAA
1 TTTTTATAA
* *
346987 TATTTACAA
1 TTTTTATAA
346996 TTTTTTATAA
1 -TTTTTATAA
**
347006 GTTCATATAGA
1 -TTTTTATA-A
*
347017 TTTTTATAT
1 TTTTTATAA
*
347026 TTTTTAAAA
1 TTTTTATAA
*
347035 TATTTAATAA
1 T-TTTTATAA
*
347045 -TTTTATATT
1 TTTTTATA-A
* *
347054 TTTTTGTGA
1 TTTTTATAA
347063 TTTTTATAA
1 TTTTTATAA
347072 T
1 T
347073 AATTTTAATG
Statistics
Matches: 183, Mismatches: 45, Indels: 46
0.67 0.16 0.17
Matches are distributed among these distances:
8 16 0.09
9 72 0.39
10 70 0.38
11 25 0.14
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.60
Consensus pattern (9 bp):
TTTTTATAA
Found at i:346875 original size:19 final size:19
Alignment explanation
Indices: 346853--347057 Score: 65
Period size: 19 Copynumber: 10.7 Consensus size: 19
346843 TTTATATCAG
346853 TTTTAATATTTTTTATAAT
1 TTTTAATATTTTTTATAAT
*
346872 TTTT-ATGA-TTTTTATAGAA
1 TTTTAAT-ATTTTTTATA-AT
*
346891 TTTTAATATGTTTTTATAAAA
1 TTTTAATAT-TTTTTAT-AAT
**
346912 TTTTAA-ACATTTTA-ACTAT
1 TTTTAATATTTTTTATA--AT
*
346931 GTTTT-ATCA-ATTTTATAATT
1 -TTTTAAT-ATTTTTTATAA-T
* * *
346951 TTTTTATAATTTATTAGAAT
1 TTTTAAT-ATTTTTTATAAT
346971 TTTT-ATA-TTTTTATAAT
1 TTTTAATATTTTTTATAAT
*
346988 ATTTACA-ATTTTTTATAA-
1 TTTTA-ATATTTTTTATAAT
* * * *
347006 GTTCATATAGATTTTTATATT
1 TTTTA-ATA-TTTTTTATAAT
* * *
347027 TTTTAAAATATTTAATAA-
1 TTTTAATATTTTTTATAAT
347045 TTTT-ATATTTTTT
1 TTTTAATATTTTTT
347058 TGTGATTTTT
Statistics
Matches: 139, Mismatches: 26, Indels: 44
0.67 0.12 0.21
Matches are distributed among these distances:
17 18 0.13
18 20 0.14
19 42 0.30
20 32 0.23
21 26 0.19
22 1 0.01
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.60
Consensus pattern (19 bp):
TTTTAATATTTTTTATAAT
Found at i:346906 original size:21 final size:20
Alignment explanation
Indices: 346853--346917 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 20
346843 TTTATATCAG
346853 TTTTAATAT-TTTTTAT-AA
1 TTTTAATATGTTTTTATAAA
346871 TTTT--TATGATTTTTATAGAA
1 TTTTAATATG-TTTTTATA-AA
346891 TTTTAATATGTTTTTATAAAA
1 TTTTAATATGTTTTTAT-AAA
346912 TTTTAA
1 TTTTAA
346918 ACATTTTAAC
Statistics
Matches: 40, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
16 3 0.08
18 11 0.28
20 6 0.15
21 15 0.38
22 5 0.12
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.62
Consensus pattern (20 bp):
TTTTAATATGTTTTTATAAA
Found at i:347037 original size:48 final size:46
Alignment explanation
Indices: 346950--347040 Score: 130
Period size: 48 Copynumber: 1.9 Consensus size: 46
346940 ATTTTATAAT
* *
346950 TTTTTTATAATTTATTAGAATTTTTATATTTTTATAATATTTACAA
1 TTTTTTATAATTCATTAGAATTTTTATATTTTTAAAATATTTACAA
346996 TTTTTTATAAGTTCATATAG-ATTTTTATATTTTTTAAAATATTTA
1 TTTTTTATAA-TTCAT-TAGAATTTTTATA-TTTTTAAAATATTTA
347041 ATAATTTTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
46 10 0.25
47 13 0.32
48 17 0.43
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.60
Consensus pattern (46 bp):
TTTTTTATAATTCATTAGAATTTTTATATTTTTAAAATATTTACAA
Found at i:354586 original size:3 final size:3
Alignment explanation
Indices: 354578--354602 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
354568 CCCACCATTA
354578 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
354603 AGAATTGAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:355190 original size:16 final size:18
Alignment explanation
Indices: 355164--355200 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
355154 GTCATTGTGG
355164 AAATAATAGCACAT-ATC
1 AAATAATAGCACATAATC
*
355181 AAAT-ATAGCATATAATC
1 AAATAATAGCACATAATC
355198 AAA
1 AAA
355201 CTCAACTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.57, C:0.14, G:0.05, T:0.24
Consensus pattern (18 bp):
AAATAATAGCACATAATC
Found at i:358635 original size:29 final size:31
Alignment explanation
Indices: 358575--358635 Score: 74
Period size: 29 Copynumber: 2.0 Consensus size: 31
358565 GATGGAGAAG
*
358575 AAGTATAAACATATTGAGCCATTTACGCAAA
1 AAGTATAAACATATTGAGCCATTTACGAAAA
*
358606 AAGTA-AAA-ATATT-AGGCCATTTATGAAAA
1 AAGTATAAACATATTGA-GCCATTTACGAAAA
358635 A
1 A
358636 TGAAAAAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 1 0.04
29 18 0.67
30 3 0.11
31 5 0.19
ACGTcount: A:0.49, C:0.11, G:0.13, T:0.26
Consensus pattern (31 bp):
AAGTATAAACATATTGAGCCATTTACGAAAA
Found at i:358809 original size:31 final size:31
Alignment explanation
Indices: 358771--358849 Score: 104
Period size: 31 Copynumber: 2.5 Consensus size: 31
358761 TTAATGAGTG
358771 ACTGATTTGTTACTTTTCGATAACATTAGAA
1 ACTGATTTGTTACTTTTCGATAACATTAGAA
* ** **
358802 ACTGATTTGTCACTTTTCGATAATGTTAGTG
1 ACTGATTTGTTACTTTTCGATAACATTAGAA
*
358833 ACTGATTTGTTATTTTT
1 ACTGATTTGTTACTTTT
358850 TTAAAGTTGA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.25, C:0.11, G:0.15, T:0.48
Consensus pattern (31 bp):
ACTGATTTGTTACTTTTCGATAACATTAGAA
Found at i:366426 original size:84 final size:83
Alignment explanation
Indices: 366253--366453 Score: 280
Period size: 84 Copynumber: 2.4 Consensus size: 83
366243 TTCTCTAACT
* ** *
366253 GATAAATAATAAGATAATATGCTTCAGTGCACTCAAACCCTTTTTACACAATGCTTAGAACTACT
1 GATAAATAGTAAGATAATATGCTTCAGCACACTCAAACCCTTTTTACAAAATGCTTAGAACTACT
366318 CATTCTCCCTCCCCAACC
66 CATTCTCCCTCCCCAACC
* *
366336 GATAAATAGTAAGATAACACGCTTCAGCACACTCAAACCCTTTTATACAAAATGCTTCA-AACTA
1 GATAAATAGTAAGATAATATGCTTCAGCACACTCAAACCCTTTT-TACAAAATGCTT-AGAACTA
*
366400 CTCGTTAC-CCCTCCCCAACC
64 CTCATT-CTCCCTCCCCAACC
* *
366420 GATAAATAGTAACATAATATGCTTCAGCCCACTC
1 GATAAATAGTAAGATAATATGCTTCAGCACACTC
366454 GAACACTCGG
Statistics
Matches: 104, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
83 39 0.38
84 63 0.61
85 2 0.02
ACGTcount: A:0.35, C:0.29, G:0.09, T:0.26
Consensus pattern (83 bp):
GATAAATAGTAAGATAATATGCTTCAGCACACTCAAACCCTTTTTACAAAATGCTTAGAACTACT
CATTCTCCCTCCCCAACC
Found at i:367637 original size:19 final size:19
Alignment explanation
Indices: 367610--367654 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
367600 ATTAATTAAC
367610 TTTTT-ATAATTTTATAT-A
1 TTTTTAATAATTTTA-ATGA
367628 TTTTTAATAATTTTAATGA
1 TTTTTAATAATTTTAATGA
367647 TTTTTAAT
1 TTTTTAAT
367655 TTTTAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.28
19 18 0.72
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
TTTTTAATAATTTTAATGA
Found at i:368065 original size:29 final size:29
Alignment explanation
Indices: 368026--368126 Score: 89
Period size: 29 Copynumber: 3.4 Consensus size: 29
368016 GTTTTTTTTA
*
368026 GTCACCCAACTATCAATTCTTTTAATTTG
1 GTCACTCAACTATCAATTCTTTTAATTTG
* * * *
368055 GTCATTTAACTATTGCAATT-TTCTT-TTTTA
1 GTCACTCAACTA-T-CAATTCTT-TTAATTTG
* *
368085 ATCACTCAACTATCAGTTCTTTTAATTTG
1 GTCACTCAACTATCAATTCTTTTAATTTG
*
368114 GTCACCCAACTAT
1 GTCACTCAACTAT
368127 TGCTCTTTTT
Statistics
Matches: 54, Mismatches: 13, Indels: 10
0.70 0.17 0.13
Matches are distributed among these distances:
28 6 0.11
29 26 0.48
30 15 0.28
31 7 0.13
ACGTcount: A:0.27, C:0.22, G:0.07, T:0.45
Consensus pattern (29 bp):
GTCACTCAACTATCAATTCTTTTAATTTG
Found at i:368066 original size:59 final size:59
Alignment explanation
Indices: 368019--368181 Score: 193
Period size: 59 Copynumber: 2.7 Consensus size: 59
368009 TGTTCCCGTT
***
368019 TTTTTTAGTCACCCAACTATCAATTCTTTTAATTTGGTCATTTAACTATTG-CAATTTTC
1 TTTTTTAGTCACCCAACTATCAATTCTTTTAATTTGGTCACCCAACTATTGTC-ATTTTC
* * * *
368078 TTTTTTAATCACTCAACTATCAGTTCTTTTAATTTGGTCACCCAACTATTGCTCTTTTTC
1 TTTTTTAGTCACCCAACTATCAATTCTTTTAATTTGGTCACCCAACTATTG-TCATTTTC
* * * * *
368138 TTTTTTTGTCACCTAACTATCATTTTTTTTAATTTGATCACCCA
1 TTTTTTAGTCACCCAACTATCAATTCTTTTAATTTGGTCACCCA
368182 TCTAATCAAG
Statistics
Matches: 88, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
59 45 0.51
60 42 0.48
61 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.06, T:0.50
Consensus pattern (59 bp):
TTTTTTAGTCACCCAACTATCAATTCTTTTAATTTGGTCACCCAACTATTGTCATTTTC
Found at i:368168 original size:60 final size:59
Alignment explanation
Indices: 368018--368181 Score: 186
Period size: 60 Copynumber: 2.7 Consensus size: 59
368008 TTGTTCCCGT
* ***
368018 TTTTTTTAGTCACCCAACTATCAATTCTTTTAATTTGGTCATTTAACTATTGCAATTTTC
1 TTTTTTT-GTCACCTAACTATCAATTCTTTTAATTTGGTCACCCAACTATTGCAATTTTC
** * **
368078 TTTTTTAATCA-CTCAACTATCAGTTCTTTTAATTTGGTCACCCAACTATTGCTCTTTTTC
1 TTTTTTTGTCACCT-AACTATCAATTCTTTTAATTTGGTCACCCAACTATTGC-AATTTTC
* * *
368138 TTTTTTTGTCACCTAACTATCATTTTTTTTAATTTGATCACCCA
1 TTTTTTTGTCACCTAACTATCAATTCTTTTAATTTGGTCACCCA
368182 TCTAATCAAG
Statistics
Matches: 87, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
58 1 0.01
59 37 0.43
60 47 0.54
61 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.06, T:0.50
Consensus pattern (59 bp):
TTTTTTTGTCACCTAACTATCAATTCTTTTAATTTGGTCACCCAACTATTGCAATTTTC
Found at i:368178 original size:29 final size:29
Alignment explanation
Indices: 368027--368179 Score: 73
Period size: 29 Copynumber: 5.2 Consensus size: 29
368017 TTTTTTTTAG
* * * *
368027 TCACCCAACTATCAATTCTTTTAATTTGG
1 TCACCTAACTATCATTTTTTTTAATTTGA
** * *
368056 TCATTTAACTATTGCAATTTTCTTT--TTTAA
1 TCACCTAACTA-T-C-ATTTTTTTTAATTTGA
* * *
368086 TCA-CTCAACTATCAGTTCTTTTAATTTGG
1 TCACCT-AACTATCATTTTTTTTAATTTGA
* **
368115 TCACCCAACTATTGC-TCTTTTTCTTTTTTTG-
1 TCACCTAACTA-T-CAT-TTTTT-TTAATTTGA
368146 TCACCTAACTATCATTTTTTTTAATTTGA
1 TCACCTAACTATCATTTTTTTTAATTTGA
368175 TCACC
1 TCACC
368180 CATCTAATCA
Statistics
Matches: 89, Mismatches: 22, Indels: 26
0.65 0.16 0.19
Matches are distributed among these distances:
27 6 0.07
28 7 0.08
29 32 0.36
30 16 0.18
31 16 0.18
32 12 0.13
ACGTcount: A:0.24, C:0.22, G:0.06, T:0.49
Consensus pattern (29 bp):
TCACCTAACTATCATTTTTTTTAATTTGA
Found at i:382685 original size:42 final size:42
Alignment explanation
Indices: 382635--382819 Score: 192
Period size: 42 Copynumber: 4.4 Consensus size: 42
382625 TGCAAGACAT
* **
382635 TCTGTATCTATAAACCTGTATCTATGAATCCACATCTATGAA
1 TCTGTATCTATAAATCTACATCTATGAATCCACATCTATGAA
* *
382677 TCTATATCTATGAATCTACATCTATGAATCCACATCTATGAA
1 TCTGTATCTATAAATCTACATCTATGAATCCACATCTATGAA
* * * * ***
382719 TCCGTATATA-AGAATCTGCATCTCTGAATCTGTATCTATGAA
1 TCTGTATCTATA-AATCTACATCTATGAATCCACATCTATGAA
* * * *
382761 TCTGCATGTATAAATCTACATCTATGAATCCACATGTATGGA
1 TCTGTATCTATAAATCTACATCTATGAATCCACATCTATGAA
* *
382803 TCTGGATCTATGAATCT
1 TCTGTATCTATAAATCT
382820 GCATGTATAG
Statistics
Matches: 114, Mismatches: 27, Indels: 4
0.79 0.19 0.03
Matches are distributed among these distances:
42 113 0.99
43 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (42 bp):
TCTGTATCTATAAATCTACATCTATGAATCCACATCTATGAA
Found at i:382820 original size:14 final size:14
Alignment explanation
Indices: 382635--382823 Score: 153
Period size: 14 Copynumber: 13.5 Consensus size: 14
382625 TGCAAGACAT
* *
382635 TCTGTATCTATAAA
1 TCTGCATCTATGAA
* *
382649 CCTGTATCTATGAA
1 TCTGCATCTATGAA
**
382663 TCCACATCTATGAA
1 TCTGCATCTATGAA
**
382677 TCTATATCTATGAA
1 TCTGCATCTATGAA
*
382691 TCTACATCTATGAA
1 TCTGCATCTATGAA
**
382705 TCCACATCTATGAA
1 TCTGCATCTATGAA
* * * *
382719 TCCGTATATAAGAA
1 TCTGCATCTATGAA
*
382733 TCTGCATCTCTGAA
1 TCTGCATCTATGAA
*
382747 TCTGTATCTATGAA
1 TCTGCATCTATGAA
* *
382761 TCTGCATGTATAAA
1 TCTGCATCTATGAA
*
382775 TCTACATCTATGAA
1 TCTGCATCTATGAA
** * *
382789 TCCACATGTATGGA
1 TCTGCATCTATGAA
*
382803 TCTGGATCTATGAA
1 TCTGCATCTATGAA
382817 TCTGCAT
1 TCTGCAT
382824 GTATAGATTC
Statistics
Matches: 139, Mismatches: 36, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
14 139 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.35
Consensus pattern (14 bp):
TCTGCATCTATGAA
Found at i:382852 original size:56 final size:56
Alignment explanation
Indices: 382746--382854 Score: 148
Period size: 56 Copynumber: 1.9 Consensus size: 56
382736 GCATCTCTGA
* **
382746 ATCTGTATCTATGAATCTGCATGTATAAATCTACATCTATGAATCCACATGTATGG
1 ATCTGGATCTATGAATCTGCATGTATAAATCTACATCTACAAATCCACATGTATGG
* * *
382802 ATCTGGATCTATGAATCTGCATGTATAGAT-TCACATTTACAAATCTACATGTA
1 ATCTGGATCTATGAATCTGCATGTATAAATCT-ACATCTACAAATCCACATGTA
382855 AGAGTCCGCA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
55 1 0.02
56 45 0.98
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (56 bp):
ATCTGGATCTATGAATCTGCATGTATAAATCTACATCTACAAATCCACATGTATGG
Found at i:394731 original size:43 final size:41
Alignment explanation
Indices: 394623--394740 Score: 96
Period size: 43 Copynumber: 2.8 Consensus size: 41
394613 AATTTGAGAT
* * *
394623 TTACATGTAAGACCATGTCTGGGACATTGGCGTAATATATTA
1 TTACATGTAAGA-CACGTCTGGGACAGTGGCATAATATATTA
* * * * *
394665 TTTCGTGTAAGACCCTGTTTGGGACAGTGGCATCGATAT-TTAA
1 TTACATGTAAGACAC-GTCTGGGACAGTGGCAT-AATATATT-A
394708 TTACATGTAAGATCACGTCTGGGAC-GTTGGCAT
1 TTACATGTAAGA-CACGTCTGGGACAG-TGGCAT
394741 TGTACGAGCT
Statistics
Matches: 59, Mismatches: 12, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
41 1 0.02
42 27 0.46
43 29 0.49
44 2 0.03
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (41 bp):
TTACATGTAAGACACGTCTGGGACAGTGGCATAATATATTA
Found at i:396401 original size:20 final size:20
Alignment explanation
Indices: 396376--396481 Score: 77
Period size: 20 Copynumber: 5.3 Consensus size: 20
396366 AAGGAGGAAG
396376 TACTGGCAGCTTGTCTGCAA
1 TACTGGCAGCTTGTCTGCAA
** ***
396396 TACTGGTGGCTTGTCCATAA
1 TACTGGCAGCTTGTCTGCAA
* *
396416 TACTGGCAGTTTGTCTGTAA
1 TACTGGCAGCTTGTCTGCAA
* ** * *
396436 TACTAGTGGCTTATCTACAA
1 TACTGGCAGCTTGTCTGCAA
* * *
396456 TACTAGCAGTTTATCTGCAA
1 TACTGGCAGCTTGTCTGCAA
396476 TACTGG
1 TACTGG
396482 TGGCTTATCC
Statistics
Matches: 64, Mismatches: 22, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 64 1.00
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.35
Consensus pattern (20 bp):
TACTGGCAGCTTGTCTGCAA
Found at i:396431 original size:40 final size:40
Alignment explanation
Indices: 396376--396495 Score: 168
Period size: 40 Copynumber: 3.0 Consensus size: 40
396366 AAGGAGGAAG
* * *
396376 TACTGGCAGCTTGTCTGCAATACTGGTGGCTTGTCCATAA
1 TACTGGCAGTTTGTCTGCAATACTGGTGGCTTATCCACAA
* * *
396416 TACTGGCAGTTTGTCTGTAATACTAGTGGCTTATCTACAA
1 TACTGGCAGTTTGTCTGCAATACTGGTGGCTTATCCACAA
* *
396456 TACTAGCAGTTTATCTGCAATACTGGTGGCTTATCCACAA
1 TACTGGCAGTTTGTCTGCAATACTGGTGGCTTATCCACAA
396496 ATTGGTATGT
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 69 1.00
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (40 bp):
TACTGGCAGTTTGTCTGCAATACTGGTGGCTTATCCACAA
Found at i:401753 original size:10 final size:10
Alignment explanation
Indices: 401740--401796 Score: 57
Period size: 9 Copynumber: 5.8 Consensus size: 10
401730 TATTTTAGAT
401740 ATTTTTAATA
1 ATTTTTAATA
401750 ATTTTTAATA
1 ATTTTTAATA
*
401760 A-TTTAAATA
1 ATTTTTAATA
*
401769 A-TTTCACATA
1 ATTTTTA-ATA
401779 ATTTTT-ATA
1 ATTTTTAATA
401788 ATTATTTAA
1 ATT-TTTAA
401797 AAAGACGGGT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
9 18 0.45
10 18 0.45
11 4 0.10
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (10 bp):
ATTTTTAATA
Found at i:401754 original size:9 final size:9
Alignment explanation
Indices: 401731--401790 Score: 57
Period size: 9 Copynumber: 6.3 Consensus size: 9
401721 GTTTAAGTTT
401731 ATTTTAGATA
1 ATTTTA-ATA
*
401741 TTTTTAATA
1 ATTTTAATA
401750 ATTTTTAATA
1 A-TTTTAATA
*
401760 ATTTAAATA
1 ATTTTAATA
*
401769 ATTTCACATA
1 ATTTTA-ATA
*
401779 ATTTTTATA
1 ATTTTAATA
401788 ATT
1 ATT
401791 ATTTAAAAAG
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
9 21 0.50
10 21 0.50
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.55
Consensus pattern (9 bp):
ATTTTAATA
Found at i:401768 original size:19 final size:20
Alignment explanation
Indices: 401732--401772 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
401722 TTTAAGTTTA
* *
401732 TTTTAGATATTTTTAATAAT
1 TTTTAGATAATTTAAATAAT
401752 TTTTA-ATAATTTAAATAAT
1 TTTTAGATAATTTAAATAAT
401771 TT
1 TT
401773 CACATAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (20 bp):
TTTTAGATAATTTAAATAAT
Done.