Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold1985.1
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: 321404
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.31
Warning! 11177 characters in sequence are not A, C, G, or T
Found at i:315 original size:29 final size:28
Alignment explanation
Indices: 279--356 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
269 TCATGAGATT
279 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
309 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
336 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
357 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:574 original size:174 final size:174
Alignment explanation
Indices: 311--636 Score: 589
Period size: 174 Copynumber: 1.9 Consensus size: 174
301 ATTGTACAGC
*
311 ACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTG
1 ACTAAGTGTGCGAGTTTAAAGTACATGACACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTG
* *
376 TGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGATT
66 TGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAATT
*
441 TTGGACAGCGGAATAGGTAAGTGTGCGAACTTGAAATGCATGGT
131 TTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATGGT
* *
485 ACTAAGTGTGTGAGTTTAAAGTGCATGACACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTG
1 ACTAAGTGTGCGAGTTTAAAGTACATGACACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTG
*
550 TGCGAACTCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAATT
66 TGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAATT
615 TTGGACAGCGGAAAAGGTAAGT
131 TTGGACAGCGGAAAAGGTAAGT
637 ACCTTGAGTT
Statistics
Matches: 145, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
174 145 1.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (174 bp):
ACTAAGTGTGCGAGTTTAAAGTACATGACACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTG
TGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAATT
TTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATGGT
Found at i:3070 original size:15 final size:14
Alignment explanation
Indices: 3050--3083 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
3040 TTATATGCTA
3050 AAATTAAATTATGTG
1 AAATTAAA-TATGTG
*
3065 AAATTATATATGTG
1 AAATTAAATATGTG
3079 AAATT
1 AAATT
3084 CGAATGTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (14 bp):
AAATTAAATATGTG
Found at i:5254 original size:40 final size:40
Alignment explanation
Indices: 5194--5294 Score: 132
Period size: 40 Copynumber: 2.5 Consensus size: 40
5184 TACAGTCTTC
* * *
5194 CACATTAAGTGCAATATATAGCCGAAGCTAAT-CCGAATGG
1 CACATTAAGTGCCATATATAGCCAAAGCT-ATGCCGAATCG
* *
5234 CACACTAAGTGCCATATATAGCCAAAGCTATGTCGAATCG
1 CACATTAAGTGCCATATATAGCCAAAGCTATGCCGAATCG
*
5274 CACATTAAGTGCCACATATAG
1 CACATTAAGTGCCATATATAG
5295 ATAATTTGTC
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
39 2 0.04
40 51 0.96
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.23
Consensus pattern (40 bp):
CACATTAAGTGCCATATATAGCCAAAGCTATGCCGAATCG
Found at i:8557 original size:31 final size:31
Alignment explanation
Indices: 8519--8659 Score: 246
Period size: 31 Copynumber: 4.5 Consensus size: 31
8509 TTTAACGGTT
*
8519 ACTGGGCCGAAGCCTTTTCATAACTCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
8550 ACTGGGCCGAAGCCTTATCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
8581 ACTGGGCCGAAGCCTTCTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
8612 TCTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
8643 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
8660 ACTGTAAATG
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 104 1.00
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.28
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:8928 original size:25 final size:25
Alignment explanation
Indices: 8878--8971 Score: 145
Period size: 25 Copynumber: 3.8 Consensus size: 25
8868 ATCTTTTAAT
*
8878 AACTGGGGCAAAGCCC-TTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGGTA
*
8902 AACTGGGGCAAGGCCCTTTTTGGTA
1 AACTGGGGCAAAGCCCTTTTTGGTA
*
8927 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTTGGTA
*
8952 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
8972 AGCACTTCCT
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
24 15 0.23
25 49 0.77
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGGTA
Found at i:9842 original size:27 final size:27
Alignment explanation
Indices: 9781--9844 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
9771 GGCATATTCA
9781 TCATTTTACCATACAGGGGTACTACGG
1 TCATTTTACCATACAGGGGTACTACGG
* * *
9808 TCACTTTACCCTACAGGGGCT-TTACGG
1 TCATTTTACCATACAGGGG-TACTACGG
*
9835 TCTTTTTACC
1 TCATTTTACC
9845 TAATAGTGTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.20, C:0.27, G:0.19, T:0.34
Consensus pattern (27 bp):
TCATTTTACCATACAGGGGTACTACGG
Found at i:9927 original size:27 final size:27
Alignment explanation
Indices: 9874--10196 Score: 192
Period size: 27 Copynumber: 12.0 Consensus size: 27
9864 TTTCACCCTA
* * * * *
9874 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
* *
9901 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
* * * *
9928 CAATGGTATTTCTA-TACTTTTTAGAAAGT
1 CAAGGGTATTT-TAGTA-ATTTTATAAA-C
* *
9957 CAAGGGTATTTCT-GTAATTTTGTAAAT
1 CAAGGGTATTT-TAGTAATTTTATAAAC
* * *
9984 C-AGAGGTATTTTGGTAATTTTACAAAT
1 CAAG-GGTATTTTAGTAATTTTATAAAC
** ** * *
10011 TGAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
* *
10038 C-AGTGGTATTTTGGTAATTTTACAAAC
1 CAAG-GGTATTTTAGTAATTTTATAAAC
* * * *
10065 TAGGGGTATTTTTGTAATTTTACAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
* * *
10092 CAGGGGTATTTTAGCAATTTTATAGAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
* * *
10119 C-AGGGTATTTTGGTAATTTTACT-GAT
1 CAAGGGTATTTTAGTAATTTTA-TAAAC
* * *
10145 CGAGGGTA-TTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
*
10171 CAAGGGTATTTTAGTAATTTTGTAAA
1 CAAGGGTATTTTAGTAATTTTATAAA
10197 TCGATGGTAA
Statistics
Matches: 240, Mismatches: 43, Indels: 26
0.78 0.14 0.08
Matches are distributed among these distances:
25 1 0.00
26 45 0.19
27 162 0.68
28 18 0.08
29 14 0.06
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAATTTTATAAAC
Found at i:10124 original size:26 final size:26
Alignment explanation
Indices: 9959--10196 Score: 201
Period size: 27 Copynumber: 8.9 Consensus size: 26
9949 TAGAAAGTCA
* *
9959 AGGGTATTTCT-GTAATTTTGTAAATC
1 AGGGTATTT-TGGTAATTTTATAAACC
* **
9985 AGAGGTATTTTGGTAATTTTACAAATTG
1 AG-GGTATTTTGGTAATTTTATAAA-CC
* * *
10013 AGGGTATTTCGGTAATTTCACAAACC
1 AGGGTATTTTGGTAATTTTATAAACC
* *
10039 AGTGGTATTTTGGTAATTTTACAAACT
1 AG-GGTATTTTGGTAATTTTATAAACC
* *
10066 AGGGGTATTTTTGTAATTTTACAAACC
1 A-GGGTATTTTGGTAATTTTATAAACC
* * *
10093 AGGGGTATTTTAGCAATTTTATAGACC
1 A-GGGTATTTTGGTAATTTTATAAACC
* * *
10120 AGGGTATTTTGGTAATTTTACTGATCG
1 AGGGTATTTTGGTAATTTTA-TAAACC
*
10147 AGGGTA-TTTGGTAATTTTGTAAACC
1 AGGGTATTTTGGTAATTTTATAAACC
* *
10172 AAGGGTATTTTAGTAATTTTGTAAA
1 -AGGGTATTTTGGTAATTTTATAAA
10197 TCGATGGTAA
Statistics
Matches: 177, Mismatches: 27, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
25 3 0.02
26 40 0.23
27 130 0.73
28 4 0.02
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.41
Consensus pattern (26 bp):
AGGGTATTTTGGTAATTTTATAAACC
Found at i:10152 original size:53 final size:53
Alignment explanation
Indices: 10013--10191 Score: 155
Period size: 53 Copynumber: 3.4 Consensus size: 53
10003 TTACAAATTG
** * * * * * *
10013 AGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGGTAATTTTACAAACTA
1 AGGGTATTTTAGTAATTTTACAAACCAGGGGTA-TTTAGCAATTTTATAAACCA
* * *
10067 GGGGTATTTTTGTAATTTTACAAACCAGGGGTATTTTAGCAATTTTATAGACC-
1 AGGGTATTTTAGTAATTTTACAAACCAGGGGTA-TTTAGCAATTTTATAAACCA
* ** * * * *
10120 AGGGTATTTTGGTAATTTTACTGATC-GAGGGTATTTGGTAATTTTGTAAACCA
1 AGGGTATTTTAGTAATTTTACAAACCAG-GGGTATTTAGCAATTTTATAAACCA
10173 AGGGTATTTTAGTAATTTT
1 AGGGTATTTTAGTAATTTT
10192 GTAAATCGAT
Statistics
Matches: 103, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
52 16 0.16
53 44 0.43
54 43 0.42
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.41
Consensus pattern (53 bp):
AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTAGCAATTTTATAAACCA
Found at i:10213 original size:27 final size:27
Alignment explanation
Indices: 10183--10311 Score: 152
Period size: 27 Copynumber: 4.8 Consensus size: 27
10173 AGGGTATTTT
* *
10183 AGTAATTTTGTAAATCGATGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
10210 AGTAATTCTGTAAATCAAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
10237 AGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * * *
10264 GGCAATTCTGTAAATTGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
10291 GGTAATTATGTAAATCG-GGGT
1 AGTAATTCTGTAAATCGAGGGT
10312 TACTTTGGTA
Statistics
Matches: 87, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
26 4 0.05
27 83 0.95
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.30
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:10240 original size:54 final size:54
Alignment explanation
Indices: 10157--10311 Score: 177
Period size: 54 Copynumber: 2.9 Consensus size: 54
10147 AGGGTATTTG
* * *** * *
10157 GTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGTAAATCGATGGTAAAACA
1 GTAATTCTGTAAATCAAGGGTAAAATAGTAATTATGTAAATCGAGGGTAAAACA
* * *
10211 GTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCAAGGGTAAAATAGTAATTATGTAAATCGAGGGTAAAACA
* ** *
10265 GCAATTCTGTAAATTGAGGGTAAAATGGTAATTATGTAAATCG-GGGT
1 GTAATTCTGTAAATCAAGGGTAAAATAGTAATTATGTAAATCGAGGGT
10312 TACTTTGGTA
Statistics
Matches: 86, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
53 4 0.05
54 82 0.95
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.32
Consensus pattern (54 bp):
GTAATTCTGTAAATCAAGGGTAAAATAGTAATTATGTAAATCGAGGGTAAAACA
Found at i:17028 original size:18 final size:18
Alignment explanation
Indices: 17005--17039 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
16995 AATTGAGTTG
17005 ACTCGAATAAATCGATTA
1 ACTCGAATAAATCGATTA
*
17023 ACTCGAATAACTCGATT
1 ACTCGAATAAATCGATT
17040 CGTTTAACTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (18 bp):
ACTCGAATAAATCGATTA
Found at i:21351 original size:42 final size:43
Alignment explanation
Indices: 21248--21409 Score: 120
Period size: 43 Copynumber: 3.8 Consensus size: 43
21238 CAATGCCAAC
** *
21248 GTCCCAGATGTGGTCTTACATGTAATCAAATATTGATGCATCTA
1 GTCCCAGACATGGTCTTACATGAAATCAAATATTGAT-CATCTA
*
21292 -TCCCAGACAGGGTCTTACATGAAATCAAATA-TGAT-AT-TGA
1 GTCCCAGACATGGTCTTACATGAAATCAAATATTGATCATCT-A
* * * * *
21332 TGTCCCAGACATGGTCTTACACGTAAATCTCAA-ATCGAT-ACCAA
1 -GTCCCAGACATGGTCTTACATG-AAATC-AAATATTGATCATCTA
* * *
21376 CGTCCCAGACGTGGTCTTACACGAAATCACATAT
1 -GTCCCAGACATGGTCTTACATGAAATCAAATAT
21410 CGGAATCCTA
Statistics
Matches: 96, Mismatches: 14, Indels: 17
0.76 0.11 0.13
Matches are distributed among these distances:
39 1 0.01
40 3 0.03
42 24 0.25
43 40 0.42
44 28 0.29
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.28
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACATGAAATCAAATATTGATCATCTA
Found at i:21710 original size:15 final size:17
Alignment explanation
Indices: 21689--21728 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
21679 AATCTAAATA
*
21689 CATTCAAATTTGA-ATT
1 CATTCAAATTTCACATT
21705 -ATTC-AATTTCACATT
1 CATTCAAATTTCACATT
21720 CATTCAAAT
1 CATTCAAAT
21729 CAATCCATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 5
0.77 0.04 0.19
Matches are distributed among these distances:
14 6 0.30
15 7 0.35
16 4 0.20
17 3 0.15
ACGTcount: A:0.38, C:0.17, G:0.03, T:0.42
Consensus pattern (17 bp):
CATTCAAATTTCACATT
Found at i:28870 original size:40 final size:40
Alignment explanation
Indices: 28806--28989 Score: 189
Period size: 40 Copynumber: 4.6 Consensus size: 40
28796 GCTACTCGTT
* **
28806 CAAATGCCTTTGGGACACAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
28846 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* * *
28886 CCAATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * *
28925 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
28966 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
28990 ACATCATTCA
Statistics
Matches: 120, Mismatches: 16, Indels: 16
0.79 0.11 0.11
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 74 0.62
41 14 0.12
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:28908 original size:79 final size:80
Alignment explanation
Indices: 28834--28990 Score: 203
Period size: 79 Copynumber: 2.0 Consensus size: 80
28824 AGCCCGGTTA
* * *
28834 TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCACCAATGCCTTC
1 TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGGATATAGTAACTTAGCA-CAAAGCCTTC
28897 GGG-CTTAGCCCGGAAT
64 GGGACTTAGCCCGGAAT
* ** * *
28913 TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAAGCCTTCGG
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGG
28978 GACTTAGCCCGGA
66 GACTTAGCCCGGA
28991 CATCATTCAA
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
78 3 0.04
79 49 0.73
80 15 0.22
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGG
GACTTAGCCCGGAAT
Found at i:42035 original size:56 final size:56
Alignment explanation
Indices: 41912--42083 Score: 256
Period size: 56 Copynumber: 3.1 Consensus size: 56
41902 GACCATGGCA
* * *
41912 TCGATAAATGTGTGTGAGTAAGACCATGTTTAATACGTT-GCATCGATATGTAATT
1 TCGATATATGTGTGCGAGTAAGACCATGTTTAATACGTTGGCATCGATATGTGATT
**
41967 TCGATATATGTGTGCGAGTAAGACCACATTTAATACGTTGGCATCGATATGTGATT
1 TCGATATATGTGTGCGAGTAAGACCATGTTTAATACGTTGGCATCGATATGTGATT
* * *
42023 TCGATATATGTGTGCGAGTAAGACCATGTTCAATACATTGGCATTGATATGTGATT
1 TCGATATATGTGTGCGAGTAAGACCATGTTTAATACGTTGGCATCGATATGTGATT
*
42079 ACGAT
1 TCGAT
42084 TAAGACCCTA
Statistics
Matches: 105, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
55 35 0.33
56 70 0.67
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.35
Consensus pattern (56 bp):
TCGATATATGTGTGCGAGTAAGACCATGTTTAATACGTTGGCATCGATATGTGATT
Found at i:50607 original size:17 final size:17
Alignment explanation
Indices: 50578--50610 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
50568 TCTTTCTTTT
50578 GGTTTTTTGTCATTTGG
1 GGTTTTTTGTCATTTGG
50595 GGTTTCTTT-TCATTTG
1 GGTTT-TTTGTCATTTG
50611 TTTCTAAAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.06, C:0.09, G:0.24, T:0.61
Consensus pattern (17 bp):
GGTTTTTTGTCATTTGG
Found at i:52060 original size:34 final size:35
Alignment explanation
Indices: 51999--52085 Score: 83
Period size: 34 Copynumber: 2.5 Consensus size: 35
51989 TGTACTGAAT
**
51999 TGGGCTAAGGCTTACACT-ATTACTGCTAATG-TAA
1 TGGGCTAAGGCCCACACTGATTACTGCTAATGAT-A
* *
52033 TGGGCTAAGGCCCACACTGA-TATTGCTACTGATA
1 TGGGCTAAGGCCCACACTGATTACTGCTAATGATA
*
52067 TGGGCTTAA-GCCCAAACTG
1 TGGGC-TAAGGCCCACACTG
52086 TCCAACACTG
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
34 40 0.89
35 5 0.11
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.28
Consensus pattern (35 bp):
TGGGCTAAGGCCCACACTGATTACTGCTAATGATA
Found at i:54890 original size:43 final size:43
Alignment explanation
Indices: 54843--54988 Score: 147
Period size: 43 Copynumber: 3.4 Consensus size: 43
54833 GCCGGCATCT
* * *
54843 CAGACATGGTCTTACATGTAATTCAATATCCATGCCTCTGTCC
1 CAGACATGGTCTTACACGTAATTCAATATCGATGCCTATGTCC
* * *
54886 CAGACAGGGTCTTACACG-AAATCAGATA-CGATGCCAATGTCC
1 CAGACATGGTCTTACACGTAATTCA-ATATCGATGCCTATGTCC
* * *
54928 CAGACATGGTTTTATACGTAAATCTC-A-ATCGAGGCCTATGTCC
1 CAGACATGGTCTTACACGT-AAT-TCAATATCGATGCCTATGTCC
*
54971 CAGACACGGTCTTACACG
1 CAGACATGGTCTTACACG
54989 ATGTCTCAAA
Statistics
Matches: 83, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
42 32 0.39
43 47 0.57
44 2 0.02
45 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (43 bp):
CAGACATGGTCTTACACGTAATTCAATATCGATGCCTATGTCC
Found at i:56614 original size:27 final size:27
Alignment explanation
Indices: 56583--56636 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
56573 GTAATTTTAG
*
56583 ATATATTAATTAGCATAAGTAATGAGT
1 ATATATTAATTAACATAAGTAATGAGT
56610 ATATATTAATTAACATAAGTAATGAGT
1 ATATATTAATTAACATAAGTAATGAGT
56637 GTACTTTTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.46, C:0.04, G:0.13, T:0.37
Consensus pattern (27 bp):
ATATATTAATTAACATAAGTAATGAGT
Found at i:64517 original size:26 final size:26
Alignment explanation
Indices: 64488--64543 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
64478 TGATACAAAT
64488 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
64514 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
64540 TGAT
1 TGAT
64544 GGGAATCTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:66323 original size:27 final size:27
Alignment explanation
Indices: 66236--66330 Score: 115
Period size: 27 Copynumber: 3.5 Consensus size: 27
66226 CTTAAAAATA
*
66236 TGCCACGATTATCTG-ATCTGGTGGCTC
1 TGCCAC-AATATCTGTATCTGGTGGCTC
66263 TGCCACATATATCTGT-TCTGGTGGCTC
1 TGCCACA-ATATCTGTATCTGGTGGCTC
*
66290 TGCCACAATATCTGTATCTGGTGACT-
1 TGCCACAATATCTGTATCTGGTGGCTC
*
66316 TCGTCACAATATCTG
1 T-GCCACAATATCTG
66331 GCAGCCTCGC
Statistics
Matches: 61, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
26 10 0.16
27 51 0.84
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:67529 original size:34 final size:34
Alignment explanation
Indices: 67491--67579 Score: 144
Period size: 34 Copynumber: 2.6 Consensus size: 34
67481 TTTGAGAAAG
*
67491 CAATTA-TCTGATTGATCCTACTATGGTGACTTTC
1 CAATTAGT-TGATTGATCCTACTATGGTGACTTTA
*
67525 CAATTAGTTAATTGATCCTACTATGGTGACTTTA
1 CAATTAGTTGATTGATCCTACTATGGTGACTTTA
67559 CAATTAGTTGATTGATCCTAC
1 CAATTAGTTGATTGATCCTAC
67580 ACCCATTTGA
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
34 50 0.98
35 1 0.02
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.40
Consensus pattern (34 bp):
CAATTAGTTGATTGATCCTACTATGGTGACTTTA
Found at i:77096 original size:93 final size:93
Alignment explanation
Indices: 76989--77159 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
76979 GCCCCTAAGT
****
76989 GAACTCGGACTCAACTCAACGAGCTCGGGTGTTCACATCCATAAGTGAACTCGGAATCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCACATCCATAAGTGAACTCGGAATCAACTCAA
77054 CAAGTTCGGATGCCTAGTTACATCTCAC
66 CAAGTTCGGATGCCTAGTTACATCTCAC
* * * *
77082 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCGTAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCACATCCATAAGTGAACTCGGAATCAACTCAA
*
77147 CGAGTTCGGATGC
66 CAAGTTCGGATGC
77160 TCAACCATCC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCACATCCATAAGTGAACTCGGAATCAACTCAA
CAAGTTCGGATGCCTAGTTACATCTCAC
Found at i:77175 original size:46 final size:46
Alignment explanation
Indices: 76984--77162 Score: 175
Period size: 46 Copynumber: 3.9 Consensus size: 46
76974 AACCCGCCCC
* * *
76984 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCACATCCA
* * *
77030 TAAGTGAACTCGGAATCAACTCAACAAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG-C---TCACATCCA
* * * *** * *
77078 TCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCACATCCA
77123 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCA
77163 ACCATCCTAG
Statistics
Matches: 103, Mismatches: 23, Indels: 14
0.74 0.16 0.10
Matches are distributed among these distances:
43 4 0.04
44 1 0.01
45 2 0.02
46 62 0.60
47 26 0.25
48 2 0.02
49 1 0.01
50 5 0.05
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCACATCCA
Found at i:85850 original size:28 final size:28
Alignment explanation
Indices: 85787--85884 Score: 119
Period size: 27 Copynumber: 3.5 Consensus size: 28
85777 ATATTAAGTC
*
85787 CGCACACTCAGTGCTATAAAATC-AACT
1 CGCACACTTAGTGCTATAAAATCAAACT
*
85814 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
85842 CGCACACTTAGTGCTGA-ACAATTTAAACC
1 CGCACACTTAGTGCT-ATA-AAATCAAACT
85871 CGCACACTTAGTGC
1 CGCACACTTAGTGC
85885 CAATCTCACG
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
27 21 0.34
28 20 0.32
29 21 0.34
ACGTcount: A:0.34, C:0.29, G:0.13, T:0.24
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:85879 original size:29 final size:28
Alignment explanation
Indices: 85786--85884 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
85776 TATATTAAGT
* *
85786 CCGCACACTCAGTGCTATAAAATC-AAC
1 CCGCACACTTAGTGCTATACAATCAAAC
* *
85813 TCGCACACTTAGTGCTATATAATCAAAC
1 CCGCACACTTAGTGCTATACAATCAAAC
* *
85841 TCGCACACTTAGTGCTGA-ACAATTTAAAC
1 CCGCACACTTAGTGCT-ATACAA-TCAAAC
85870 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
85885 CAATCTCACG
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
27 21 0.33
28 22 0.35
29 20 0.32
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.24
Consensus pattern (28 bp):
CCGCACACTTAGTGCTATACAATCAAAC
Found at i:94671 original size:18 final size:19
Alignment explanation
Indices: 94640--94677 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
94630 GGAATATACC
94640 AAATAATGAATTTTAGCAA
1 AAATAATGAATTTTAGCAA
* *
94659 AAAT-ATGATTTTTATCAA
1 AAATAATGAATTTTAGCAA
94677 A
1 A
94678 TTCTGCTGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.50, C:0.05, G:0.08, T:0.37
Consensus pattern (19 bp):
AAATAATGAATTTTAGCAA
Found at i:109950 original size:24 final size:25
Alignment explanation
Indices: 109923--109969 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
109913 GTCGAACACT
109923 CTTCTCCT-CTTCTTTT-CTTTTCTG
1 CTTCT-CTGCTTCTTTTCCTTTTCTG
*
109947 CTTCTCTGGTTCTTTTCCTTTTC
1 CTTCTCTGCTTCTTTTCCTTTTC
109970 ACGTGGCTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 2 0.10
24 12 0.60
25 6 0.30
ACGTcount: A:0.00, C:0.32, G:0.06, T:0.62
Consensus pattern (25 bp):
CTTCTCTGCTTCTTTTCCTTTTCTG
Found at i:111468 original size:34 final size:34
Alignment explanation
Indices: 111419--111500 Score: 123
Period size: 34 Copynumber: 2.4 Consensus size: 34
111409 ATTTGGTTGC
111419 ATACTG-TACTGAAATGGGCTAAGGCCCAGACTG
1 ATACTGTTACTGAAATGGGCTAAGGCCCAGACTG
* *
111452 -TCTCTGTTACTGAAATGGGCTCAGGCCCAGACTG
1 AT-ACTGTTACTGAAATGGGCTAAGGCCCAGACTG
111486 ATACTGTTACTGAAA
1 ATACTGTTACTGAAA
111501 AAAGGGGCTG
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
32 1 0.02
33 3 0.07
34 38 0.88
35 1 0.02
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (34 bp):
ATACTGTTACTGAAATGGGCTAAGGCCCAGACTG
Found at i:113830 original size:47 final size:46
Alignment explanation
Indices: 113754--114031 Score: 183
Period size: 47 Copynumber: 5.9 Consensus size: 46
113744 AAACCACATT
* * *
113754 ATGAGTGCCAGTATAAGACCATGTCTGGGACATGGCATCGGCGTAGAG
1 ATGAGTGCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTA-AG
*
113802 ATGAGTGCTAGTGTAAGA-CATGTTTGGGACATGCATCGGCCTCAATG
1 ATGAGTGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCCT-AA-G
* * * * * *
113849 ATGA-TAACCAGTGTAAGA-CGTGTTTGGGAAACGCATCGG-CTAAG
1 ATGAGT-GCTAGTGTAAGACCATGTCTGGGACATGCATCGGCCTAAG
* * *
113893 A-GTTGTGCTAGTGTAAGA-CATGTCTGGGACATGCATCAGCACGTATAT
1 ATG-AGTGCTAGTGTAAGACCATGTCTGGGACATGCATCGGC-C-TA-AG
** ** * * *
113941 ACAAGAACTAGTATAAGATCATGTCTGGGACATGGCATCGGCCT-CG
1 ATGAGTGCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTAAG
* *
113987 ATAATGCTAGCTAGTGTAAGACCATGTTTGGGACATTGCATCGGC
1 ATGA-G-T-GCTAGTGTAAGACCATGTCTGGGACA-TGCATCGGC
114032 AACTTATCCC
Statistics
Matches: 182, Mismatches: 32, Indels: 31
0.74 0.13 0.13
Matches are distributed among these distances:
43 1 0.01
44 28 0.15
45 3 0.02
46 17 0.09
47 50 0.27
48 30 0.16
49 45 0.25
50 8 0.04
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (46 bp):
ATGAGTGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCCTAAG
Found at i:114873 original size:55 final size:55
Alignment explanation
Indices: 114785--114903 Score: 143
Period size: 55 Copynumber: 2.2 Consensus size: 55
114775 TAAAATTTTT
* * *
114785 AGTCAGTGTTGTACACGAGTAGGCCACATGGGCGTGTGCCAT-GCC-TGTGTCTTAA
1 AGTCAGTGTCGTACACGAGCAGGCCACACGGGCGTGTGCCATGGCCATGTG--TTAA
* * * *
114840 AGTCAGTGTCGTACATGGGCAGGTCACACGGGCGTGTGCCATGGCCATGTGTTGA
1 AGTCAGTGTCGTACACGAGCAGGCCACACGGGCGTGTGCCATGGCCATGTGTTAA
114895 AGTCAGTGT
1 AGTCAGTGT
114904 TGCACACAGG
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
55 48 0.87
56 3 0.05
57 4 0.07
ACGTcount: A:0.19, C:0.21, G:0.34, T:0.26
Consensus pattern (55 bp):
AGTCAGTGTCGTACACGAGCAGGCCACACGGGCGTGTGCCATGGCCATGTGTTAA
Found at i:117102 original size:13 final size:13
Alignment explanation
Indices: 117080--117112 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
117070 AAGGGTTTGT
117080 TTAT-TAAACTAA
1 TTATCTAAACTAA
117092 TTATCTAAACTAA
1 TTATCTAAACTAA
*
117105 TTAACTAA
1 TTATCTAA
117113 TTTAATCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:119755 original size:24 final size:23
Alignment explanation
Indices: 119719--119765 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
119709 GTGAAACTCC
* *
119719 CTGTTAGAAGGATGCGGAGCTTG
1 CTGTTACAAGGATACGGAGCTTG
*
119742 NCTGTTACATGGATACGGAGCTTG
1 -CTGTTACAAGGATACGGAGCTTG
119766 ATTCTGAGGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.21, C:0.15, G:0.34, T:0.28
Consensus pattern (23 bp):
CTGTTACAAGGATACGGAGCTTG
Found at i:120060 original size:17 final size:16
Alignment explanation
Indices: 120038--120076 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
120028 CTTTCAAAAT
*
120038 AATAAAATTGAAATGAA
1 AATAAAATCGAAA-GAA
120055 AATAAAAATCGAAAGAA
1 AAT-AAAATCGAAAGAA
120072 AATAA
1 AATAA
120077 GAATAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 2 0.10
17 9 0.45
18 9 0.45
ACGTcount: A:0.69, C:0.03, G:0.10, T:0.18
Consensus pattern (16 bp):
AATAAAATCGAAAGAA
Found at i:120081 original size:6 final size:5
Alignment explanation
Indices: 120038--120127 Score: 67
Period size: 6 Copynumber: 16.8 Consensus size: 5
120028 CTTTCAAAAT
* * *
120038 AATAA AATTGA AATGAA AATAAA AATCGA AAGAA AATAA GAATAA AAT-A
1 AATAA AA-TAA AAT-AA AAT-AA AAT-AA AATAA AATAA -AATAA AATAA
120087 AATAA AATAA AATAA GAATAA GAAT-A AATAAA AATAA AATA
1 AATAA AATAA AATAA -AATAA -AATAA AAT-AA AATAA AATA
120128 GGAGGATTCA
Statistics
Matches: 70, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
4 7 0.10
5 29 0.41
6 34 0.49
ACGTcount: A:0.72, C:0.01, G:0.08, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:124678 original size:79 final size:81
Alignment explanation
Indices: 124543--124724 Score: 230
Period size: 79 Copynumber: 2.3 Consensus size: 81
124533 CGAATGATGC
* *
124543 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
*
124607 GTGCGAGTTACTA-ATT
66 GTGCGAGTTACTATA-A
* * * **
124623 CCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATT
124685 TGTGCGAGTTACTATAA
65 TGTGCGAGTTACTATAA
*
124702 CCGGGCTATGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
124725 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 9, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 29 0.33
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTATAA
Found at i:124740 original size:40 final size:40
Alignment explanation
Indices: 124543--124726 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
124533 CGAATGATGC
* * * *
124543 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
124583 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
124623 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
124661 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
124702 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
124727 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:124748 original size:79 final size:79
Alignment explanation
Indices: 124595--124749 Score: 208
Period size: 79 Copynumber: 2.0 Consensus size: 79
124585 GGACTAAGAT
* **
124595 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
124660 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* *
124674 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
*
124737 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
124750 ATTCCAAAGG
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
78 2 0.03
79 41 0.61
80 24 0.36
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:128896 original size:13 final size:13
Alignment explanation
Indices: 128874--128906 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
128864 AAGGGTTTGT
128874 TTAT-TAAACTAA
1 TTATCTAAACTAA
128886 TTATCTAAACTAA
1 TTATCTAAACTAA
*
128899 TTAACTAA
1 TTATCTAA
128907 TTTAATCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:131363 original size:26 final size:26
Alignment explanation
Indices: 131332--131386 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
131322 TTGGTTTGTT
131332 GAATATGCCGAATTTGGATTTAGGGA
1 GAATATGCCGAATTTGGATTTAGGGA
131358 GAATATGCCGAATTTGGATTTAGGGA
1 GAATATGCCGAATTTGGATTTAGGGA
131384 GAA
1 GAA
131387 AAACTAAGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.33, C:0.07, G:0.31, T:0.29
Consensus pattern (26 bp):
GAATATGCCGAATTTGGATTTAGGGA
Found at i:133321 original size:39 final size:40
Alignment explanation
Indices: 133147--133330 Score: 228
Period size: 40 Copynumber: 4.6 Consensus size: 40
133137 ACTACTCACT
** * *
133147 CAAATGCCTTTAGGACATAGCCCGG-TTAGAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
133187 CAATTGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
133227 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * ** * * *
133267 CAAATGCCTTTGGGACTT-GCTCGGAACTAGTCACTAGCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
133306 CAGATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
133331 TTATCATCCA
Statistics
Matches: 126, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
39 31 0.25
40 93 0.74
41 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:141414 original size:39 final size:40
Alignment explanation
Indices: 141241--141431 Score: 242
Period size: 40 Copynumber: 4.8 Consensus size: 40
141231 GGATATAGCT
* * * * *
141241 ACTCGCTCAAATGCCTTTGGGACATAGCCCGG-TTAGAGTG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
* *
141281 ACTCGCACAATTGCCTTCGGGACTTAGCCCAGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
141321 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
** *
141361 ACTCGCACAAATGCCTTCGGGACTT-GCCCGGAACTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * *
141400 ACTAGCGCAGATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
141432 TTATCATCCA
Statistics
Matches: 134, Mismatches: 15, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
39 33 0.25
40 99 0.74
41 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:142709 original size:78 final size:78
Alignment explanation
Indices: 142580--142734 Score: 301
Period size: 78 Copynumber: 2.0 Consensus size: 78
142570 AGAACTCAAG
142580 CTAACAACTAAAAACATGCATGAATCTCATGGCACAACATCAAACTTACCTTAACCTAGATACAA
1 CTAACAACTAAAAACATGCATGAATCTCATGGCACAACATCAAACTTACCTTAACCTAGATACAA
*
142645 GTATGGCTGAACT
66 GTATGGCCGAACT
142658 CTAACAACTAAAAACATGCATGAATCTCATGGCACAACATCAAACTTACCTTAACCTAGATACAA
1 CTAACAACTAAAAACATGCATGAATCTCATGGCACAACATCAAACTTACCTTAACCTAGATACAA
142723 GTATGGCCGAAC
66 GTATGGCCGAAC
142735 CTCTTCCTAA
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 76 1.00
ACGTcount: A:0.41, C:0.25, G:0.12, T:0.22
Consensus pattern (78 bp):
CTAACAACTAAAAACATGCATGAATCTCATGGCACAACATCAAACTTACCTTAACCTAGATACAA
GTATGGCCGAACT
Found at i:144019 original size:38 final size:38
Alignment explanation
Indices: 143965--144091 Score: 191
Period size: 38 Copynumber: 3.3 Consensus size: 38
143955 GTGGTATTTG
*
143965 GAACATATCCGGACTTGAGGTCCGCAGGCTACGTGCTA
1 GAACATATCCGGACTTGAGGTCCGCAGGCTATGTGCTA
* * *
144003 GAACATATCCGAACTTGAGATCCGCAGGCTATGTGCTG
1 GAACATATCCGGACTTGAGGTCCGCAGGCTATGTGCTA
*
144041 GAAAATATCCGGACTTGAGGTCCGCAGGCTATGTGCTA
1 GAACATATCCGGACTTGAGGTCCGCAGGCTATGTGCTA
*
144079 GAAATATATCCGG
1 G-AACATATCCGG
144092 GCCTAAAGTC
Statistics
Matches: 79, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
38 69 0.87
39 10 0.13
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.23
Consensus pattern (38 bp):
GAACATATCCGGACTTGAGGTCCGCAGGCTATGTGCTA
Found at i:151821 original size:38 final size:38
Alignment explanation
Indices: 151765--151887 Score: 178
Period size: 38 Copynumber: 3.3 Consensus size: 38
151755 GTGTGGTATT
* * * *
151765 TGGAACATATCCGGACTTGAGGTTCGCAGGCTACGTGC
1 TGGAACATATTCGAACTTGAGGTCCGCAGGCTATGTGC
151803 TGGAACATATTCGAACTTGAGGTCCGCAGGCTATGTGC
1 TGGAACATATTCGAACTTGAGGTCCGCAGGCTATGTGC
*
151841 TGGAAGATATTCGGAA-TTGAGGTCCGCAGGCTATGTGC
1 TGGAACATATTC-GAACTTGAGGTCCGCAGGCTATGTGC
151879 TGGAA-ATAT
1 TGGAACATAT
151888 ATCTGGGCCT
Statistics
Matches: 79, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
37 4 0.05
38 72 0.91
39 3 0.04
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (38 bp):
TGGAACATATTCGAACTTGAGGTCCGCAGGCTATGTGC
Found at i:165036 original size:104 final size:104
Alignment explanation
Indices: 164868--165077 Score: 393
Period size: 104 Copynumber: 2.0 Consensus size: 104
164858 CCTTGCCTTG
*
164868 AGCAAATGTTTTCTTTCTAAGGTTAAACCCCTACCCTTGGTTAGTATGGTTATATGCAGAACTTG
1 AGCAAATGTTTTCTTTCTAAGGTTAAACCCCTACCCTTGGTCAGTATGGTTATATGCAGAACTTG
*
164933 TCTAAAGCATGACAGAGTGAGCATGCTAGCCTAGTGGTA
66 TCTAAAGCATGACAAAGTGAGCATGCTAGCCTAGTGGTA
164972 AGCAAATGTTTTCTTTCTAAGGTTAAACCCCTACCCTTGGTCAGTATGGTTATATGCAGAACTTG
1 AGCAAATGTTTTCTTTCTAAGGTTAAACCCCTACCCTTGGTCAGTATGGTTATATGCAGAACTTG
*
165037 TCTAAAGTATGACAAAGTGAGCATGCTAGCCTAGTGGTA
66 TCTAAAGCATGACAAAGTGAGCATGCTAGCCTAGTGGTA
165076 AG
1 AG
165078 GGGCGTGTTA
Statistics
Matches: 103, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
104 103 1.00
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (104 bp):
AGCAAATGTTTTCTTTCTAAGGTTAAACCCCTACCCTTGGTCAGTATGGTTATATGCAGAACTTG
TCTAAAGCATGACAAAGTGAGCATGCTAGCCTAGTGGTA
Found at i:169360 original size:47 final size:46
Alignment explanation
Indices: 169295--169705 Score: 281
Period size: 47 Copynumber: 8.8 Consensus size: 46
169285 GATTTCTTGT
*
169295 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGA
* * * *
169341 GTGCTAGTATAAGATCATGTCTGGGACATGGCATCAGTG-TAGA-GATGA
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATC-G-GCCACATGATGA
*
169389 GTGCCAGTGTAAGACATG-CTTGGGACATGCATCGGCCTCGATGATGA
1 GTGCCAGTGTAAGACATGTC-TGGGACATGCATCGGCCAC-ATGATGA
** * * * *
169436 -TAGGTAGTGTAAGACATGTCTGGGACACGCATCAGCTA-A-GA-GTT
1 GT-GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATG-A
*
169480 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGATGATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATGATGA
* * * * *
169527 -TAGCCAGTGTAAGACGTGTCTGGGACACGCATCAGCTA-A-GA-GTT
1 GT-GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATG-A
* * *
169571 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAG-CACATATATACGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAT-GAT--GA
** * * * *
169619 GAACTAGTATAAGACCATGTCTGGGACATGGCATCAGCCTCAATGATG-
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCAC-ATGATGA
* * *
169667 CTAGCCAATGTAAGACCATGTCTAGGACATGGCATCGGC
1 GT-GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
169706 AACTTATCCT
Statistics
Matches: 286, Mismatches: 49, Indels: 57
0.73 0.12 0.15
Matches are distributed among these distances:
43 3 0.01
44 66 0.23
45 5 0.02
46 23 0.08
47 92 0.32
48 34 0.12
49 49 0.17
50 8 0.03
51 4 0.01
52 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.24
Consensus pattern (46 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGA
Found at i:169511 original size:91 final size:91
Alignment explanation
Indices: 169294--169603 Score: 439
Period size: 91 Copynumber: 3.4 Consensus size: 91
169284 GGATTTCTTG
* * *
169294 TGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGAGT-GCTAGTATAAGATC
1 TGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGATGATGA-TAGCTAGTGTAAGA-C
* *
169357 ATGTCTGGGACATGGCATCAG-TGTAGAGAT
64 ATGTCTGGGACA-CGCATCAGCT-AAGAG-T
* *
169387 GAGTGCCAGTGTAAGACATG-CTTGGGACATGCATCGGCCTCGATGATGATAGGTAGTGTAAGAC
1 -TGTGCCAGTGTAAGACATGTC-TGGGACATGCATCGGCCTCGATGATGATAGCTAGTGTAAGAC
169451 ATGTCTGGGACACGCATCAGCTAAGAGT
64 ATGTCTGGGACACGCATCAGCTAAGAGT
* *
169479 TGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGATGATGATAGCCAGTGTAAGACGT
1 TGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGATGATGATAGCTAGTGTAAGACAT
169544 GTCTGGGACACGCATCAGCTAAGAGT
66 GTCTGGGACACGCATCAGCTAAGAGT
*
169570 TGTGCTAGTGTAAGACATGTCTGGGACATGCATC
1 TGTGCCAGTGTAAGACATGTCTGGGACATGCATC
169604 AGCACATATA
Statistics
Matches: 199, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
91 118 0.59
92 2 0.01
93 12 0.06
94 51 0.26
95 16 0.08
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (91 bp):
TGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGATGATGATAGCTAGTGTAAGACAT
GTCTGGGACACGCATCAGCTAAGAGT
Found at i:170582 original size:55 final size:55
Alignment explanation
Indices: 170477--170582 Score: 131
Period size: 55 Copynumber: 1.9 Consensus size: 55
170467 CAGTGTTGGG
* * *
170477 CACGGGTAGGCCACACGGGCATATGCCATGGCCGTATCTTAAATTTAGTGTCGTA
1 CACGGGTAGGCCACACGGGCATATGCCATGGCCATATCTTAAAGTCAGTGTCGTA
* * * * * *
170532 CACGGGTAGGTCACACGGGCGTGTGCCATGGCCATGTGTTGAAGTCAGTGT
1 CACGGGTAGGCCACACGGGCATATGCCATGGCCATATCTTAAAGTCAGTGT
170583 TGCACATAGG
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
55 42 1.00
ACGTcount: A:0.21, C:0.23, G:0.32, T:0.25
Consensus pattern (55 bp):
CACGGGTAGGCCACACGGGCATATGCCATGGCCATATCTTAAAGTCAGTGTCGTA
Found at i:179686 original size:40 final size:40
Alignment explanation
Indices: 179603--179818 Score: 273
Period size: 40 Copynumber: 5.5 Consensus size: 40
179593 CAACCAAGTA
** *
179603 CCTTCGGGGTTTAG-CCGGATATAGCT-ACT-GCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTAGCACAAATG
* *
179641 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
179681 CCTTCGGGACTTAGCCCGGATATAGT-ACTTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAAC-TAGCACAAATG
*
179721 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
* *
179761 CCTTCGGGACTT-GCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTAGCACAAATG
*
179800 CCTTCAGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
179819 TTATCATCCA
Statistics
Matches: 160, Mismatches: 11, Indels: 12
0.87 0.06 0.07
Matches are distributed among these distances:
38 14 0.09
39 47 0.29
40 97 0.61
41 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
Found at i:179813 original size:119 final size:118
Alignment explanation
Indices: 179603--179818 Score: 294
Period size: 119 Copynumber: 1.8 Consensus size: 118
179593 CAACCAAGTA
** * *
179603 CCTTCGGGGTTTAGCCGGATATAGCTACTGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
1 CCTTCGGGACTTAGCCGGATATAGCTACTGCACAAATGCCTTCGGGACTTAGCCCGGTAATAGTA
* *
179668 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTACTTCGCACAAATG
66 ACTAGCACAAATGCCTTCAGGACTTAGCCCGGATATAGTACTTCGCACAAATG
*
179721 CCTTCGGGACTTAGCCCGGATATAG-TAACTAGCACCAATGCCTTCGGGACTT-GCCCGG-AACT
1 CCTTCGGGACTTAG-CCGGATATAGCT-ACT-GCACAAATGCCTTCGGGACTTAGCCCGGTAA-T
* *
179783 AGTCACTAGCGCAAATGCCTTCAGGACTTAGCCCGG
62 AGTAACTAGCACAAATGCCTTCAGGACTTAGCCCGG
179819 TTATCATCCA
Statistics
Matches: 85, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
118 14 0.16
119 52 0.61
120 19 0.22
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (118 bp):
CCTTCGGGACTTAGCCGGATATAGCTACTGCACAAATGCCTTCGGGACTTAGCCCGGTAATAGTA
ACTAGCACAAATGCCTTCAGGACTTAGCCCGGATATAGTACTTCGCACAAATG
Found at i:192988 original size:27 final size:26
Alignment explanation
Indices: 192951--193065 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 26
192941 AGCATGGCTG
* * *
192951 CCAGAGCAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
192977 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
*
193004 CCAGAACAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGGCAGAGCCA
*
193031 CCAGAAACAGATAATTGTGGCATAGCCA
1 CCAG-AACAGAT-ATTGTGGCAGAGCCA
193059 CCAGAAC
1 CCAGAAC
193066 GCTTCCACCA
Statistics
Matches: 81, Mismatches: 4, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
26 12 0.15
27 43 0.53
28 25 0.31
29 1 0.01
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:197281 original size:27 final size:26
Alignment explanation
Indices: 197245--197359 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 26
197235 AGCATGGCTG
* *
197245 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
197271 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
*
197298 CCAGAACAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGGCAGAGCCA
* *
197325 CCAGAAATAGATAATTGTGGCATAGCCA
1 CCAG-AACAGAT-ATTGTGGCAGAGCCA
197353 CCAGAAC
1 CCAGAAC
197360 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 5, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
26 12 0.15
27 43 0.54
28 24 0.30
29 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:197523 original size:27 final size:28
Alignment explanation
Indices: 197467--197525 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
197457 TACCCTGGGT
* *
197467 GTATAATGGTAGTTTTGCATACTTATGG
1 GTATAATGGTAATTTTGCATACTTAGGG
197495 GTATAATGGTAATTTT-CATACTTAGGG
1 GTATAATGGTAATTTTGCATACTTAGGG
197522 GTAT
1 GTAT
197526 TTTAGTAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 14 0.48
28 15 0.52
ACGTcount: A:0.27, C:0.07, G:0.24, T:0.42
Consensus pattern (28 bp):
GTATAATGGTAATTTTGCATACTTAGGG
Found at i:208798 original size:15 final size:15
Alignment explanation
Indices: 208778--208812 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
208768 TATGATATTG
*
208778 TATCTTGTATTTCTA
1 TATCTTCTATTTCTA
*
208793 TATCTTCTATTTCTT
1 TATCTTCTATTTCTA
208808 TATCT
1 TATCT
208813 AGGATTTCTT
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:0.17, C:0.17, G:0.03, T:0.63
Consensus pattern (15 bp):
TATCTTCTATTTCTA
Found at i:209215 original size:18 final size:18
Alignment explanation
Indices: 209194--209228 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
209184 GAGGCATTAA
209194 CAAACAAAAACACATTTT
1 CAAACAAAAACACATTTT
**
209212 CAAACAACCACACATTT
1 CAAACAAAAACACATTT
209229 ATATAAGTCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.29, G:0.00, T:0.20
Consensus pattern (18 bp):
CAAACAAAAACACATTTT
Found at i:214173 original size:42 final size:40
Alignment explanation
Indices: 214071--214269 Score: 272
Period size: 40 Copynumber: 4.9 Consensus size: 40
214061 GCATGAGCAT
*
214071 TTGATATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
*
214111 TTGATATATCCGGGCTAAGACCCGCAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
* *
214151 TTGATATATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAG
1 TTG--ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
* *
214193 TTGATATATCCAGGCTAAGACCCGAAGGCATTCGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
* ** * * *
214233 TTGCTATGCCCTGGTTAAGACCCGAAGGCAATTGTGC
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGC
214270 TTGTGGTAAT
Statistics
Matches: 141, Mismatches: 16, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
40 104 0.74
42 37 0.26
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
Found at i:214211 original size:82 final size:80
Alignment explanation
Indices: 214071--214269 Score: 281
Period size: 82 Copynumber: 2.5 Consensus size: 80
214061 GCATGAGCAT
* * * * *
214071 TTGATATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGC
1 TTGATATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATATATCCAGGCTAAGACCCGA
*
214136 AGGCATTTGTGCGAG
66 AGGCATTCGTGCGAG
214151 TTGATATATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATATATCCAGGCTAAGACCC
1 TTG--ATATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATATATCCAGGCTAAGACCC
214216 GAAGGCATTCGTGCGAG
64 GAAGGCATTCGTGCGAG
* ** * *
214233 TTGCTATGCCCTGGTTAAGACCCGAAGGCAATTGTGC
1 TTGATATATCCGGGCTAAGACCCGAAGGCAATTGTGC
214270 TTGTGGTAAT
Statistics
Matches: 106, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
80 32 0.30
82 74 0.70
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TTGATATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATATATCCAGGCTAAGACCCGA
AGGCATTCGTGCGAG
Found at i:226774 original size:21 final size:22
Alignment explanation
Indices: 226734--226775 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
226724 GGGCTCACAT
* *
226734 GCCCTTGTGGCCCAAGGGACAC
1 GCCCGTGTGACCCAAGGGACAC
226756 GCCCGTGTGACCC-AGGGACA
1 GCCCGTGTGACCCAAGGGACA
226776 TTCCTGTGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.19, C:0.36, G:0.33, T:0.12
Consensus pattern (22 bp):
GCCCGTGTGACCCAAGGGACAC
Found at i:228466 original size:27 final size:28
Alignment explanation
Indices: 228435--228540 Score: 137
Period size: 27 Copynumber: 3.9 Consensus size: 28
228425 CTGCCAGAAT
* *
228435 AGATA-TTGTGACAGAGTCACCAGATAC
1 AGATATTTGTGGCAGAGCCACCAGATAC
* *
228462 AGATA-TTATGGCAGAGCCACCAGAAAC
1 AGATATTTGTGGCAGAGCCACCAGATAC
*
228489 AGATATTTGTGGCAGAGCCACCATAT-C
1 AGATATTTGTGGCAGAGCCACCAGATAC
*
228516 AGATATTTGTGGTAGAGCCACCAGA
1 AGATATTTGTGGCAGAGCCACCAGA
228541 ACGCTTCCTC
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
27 52 0.75
28 17 0.25
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.22
Consensus pattern (28 bp):
AGATATTTGTGGCAGAGCCACCAGATAC
Found at i:228511 original size:55 final size:54
Alignment explanation
Indices: 228435--228541 Score: 144
Period size: 55 Copynumber: 2.0 Consensus size: 54
228425 CTGCCAGAAT
*
228435 AGATATTGTGACAGAGTCACCAGATACAGATA-TTATGGCAGAGCCACCAGAAAC
1 AGATATTGTGACAGAGCCACCAGAT-CAGATATTTATGGCAGAGCCACCAGAAAC
* * * *
228489 AGATATTTGTGGCAGAGCCACCATATCAGATATTTGTGGTAGAGCCACCAGAA
1 AGATA-TTGTGACAGAGCCACCAGATCAGATATTTATGGCAGAGCCACCAGAA
228542 CGCTTCCTCC
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
54 11 0.24
55 35 0.76
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.21
Consensus pattern (54 bp):
AGATATTGTGACAGAGCCACCAGATCAGATATTTATGGCAGAGCCACCAGAAAC
Found at i:231652 original size:64 final size:64
Alignment explanation
Indices: 231571--231754 Score: 185
Period size: 67 Copynumber: 2.8 Consensus size: 64
231561 AGACATTATG
* *
231571 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * * *
231635 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACTATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
231700 AA
63 AA
* * * *
231702 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTGCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
231755 CGAACTATAT
Statistics
Matches: 96, Mismatches: 19, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
62 1 0.01
63 18 0.19
64 21 0.22
65 8 0.08
66 16 0.17
67 30 0.31
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:236065 original size:68 final size:65
Alignment explanation
Indices: 235990--236136 Score: 152
Period size: 64 Copynumber: 2.2 Consensus size: 65
235980 CATCATGTGT
* * * *
235990 ACAAGAGAGCTACAAGACATTATGACCTAGCTAGGTCGCATGGGTGATACTATGTG-TACACCAT
1 ACAAGAGAGCTACAAGACA-TATG---TAGCTAGGTCGCATGCGTGATACCAAGTGAGACACCAT
236054 GTAG
62 GTAG
* ** * * *
236058 ACAAGAGAGTTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGACACCATGTA
1 ACAAGAGAGCTACAAGACATATGTAGCTAGGTCGCATGCGTGATACCAAGTG-AGACACCATGTA
236123 G
65 G
236124 ACAAGAGAGCTAC
1 ACAAGAGAGCTAC
236137 GAGATAAACT
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
64 24 0.36
66 23 0.35
67 4 0.06
68 15 0.23
ACGTcount: A:0.33, C:0.18, G:0.27, T:0.22
Consensus pattern (65 bp):
ACAAGAGAGCTACAAGACATATGTAGCTAGGTCGCATGCGTGATACCAAGTGAGACACCATGTAG
Found at i:236094 original size:64 final size:65
Alignment explanation
Indices: 236017--236192 Score: 198
Period size: 66 Copynumber: 2.7 Consensus size: 65
236007 CATTATGACC
* * * * *
236017 TAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGTTACGGGATATA-TG
1 TAGCTAGGTCGCATGGGTGGTACTAAGTGTACACCATGTAGACAAGAGAGCTACGAGATAAACTG
* * * *
236081 TAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGACACCATGTAGACAAGAGAGCTACGAGATAAAC
1 TAGCTAGGTCGCATGGGTGGTACTAAGTG--TACACCATGTAGACAAGAGAGCTACGAGATAAAC
236146 TG
64 TG
* *
236148 --GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGA
1 TAGCTAGGTCGCATGGGTGGTACTAAGTGTACACCATGTAG-ACAAGA
236193 TAGCCGAACT
Statistics
Matches: 93, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
62 1 0.01
63 14 0.15
64 24 0.26
65 23 0.25
66 29 0.31
67 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (65 bp):
TAGCTAGGTCGCATGGGTGGTACTAAGTGTACACCATGTAGACAAGAGAGCTACGAGATAAACTG
Found at i:241757 original size:93 final size:93
Alignment explanation
Indices: 241648--241818 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
241638 GCCCCTAAGT
* *
241648 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTAAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTAAACTCGGACTCAACTCAA
241713 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* * *
241741 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTAAACTCGGACTCAACTCAA
241806 CGAGTTCGGATGC
66 CGAGTTCGGATGC
241819 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTAAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:241815 original size:46 final size:46
Alignment explanation
Indices: 241643--241815 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
241633 AACCCGCCCC
* * * *
241643 TAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* * *
241689 TAAGTAAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
241737 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
241782 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
241816 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 59 0.57
47 28 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:246842 original size:28 final size:28
Alignment explanation
Indices: 246802--246857 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
246792 AATCTCGAGT
246802 TCCCTACACTGGCTGCAGAAGTATTCTG
1 TCCCTACACTGGCTGCAGAAGTATTCTG
246830 TCCCTACACTGGCTGCAGAAGTATTCTG
1 TCCCTACACTGGCTGCAGAAGTATTCTG
246858 AGATTTAGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.29
Consensus pattern (28 bp):
TCCCTACACTGGCTGCAGAAGTATTCTG
Found at i:250586 original size:40 final size:39
Alignment explanation
Indices: 250488--250710 Score: 207
Period size: 40 Copynumber: 5.6 Consensus size: 39
250478 TCCTCGTTCA
* * * *
250488 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
250527 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
**
250566 GAATGCCTTCGGGACTTAACCCGGATTTAGTGTCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
250606 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
250646 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
250687 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
250711 CAGCATTCAA
Statistics
Matches: 155, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
39 40 0.26
40 103 0.66
41 12 0.08
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:250719 original size:41 final size:41
Alignment explanation
Indices: 250642--250719 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
250632 TTTGTATCTC
* * *
250642 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
250683 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
250720 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:257504 original size:27 final size:27
Alignment explanation
Indices: 257474--257651 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
257464 ATATTGAGTC
* * * *
257474 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
257501 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
257528 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
257556 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
257583 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
257610 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
257637 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
257652 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:257613 original size:82 final size:81
Alignment explanation
Indices: 257495--257650 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
257485 TGCTATATAA
* *
257495 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
257560 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
257577 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
257641 CACTTAGTGC
65 CACTTAGTGC
257651 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:265061 original size:27 final size:27
Alignment explanation
Indices: 265031--265208 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
265021 ATATTGAGTC
* * * *
265031 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
265058 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
265085 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
265113 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
265140 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
265167 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
265194 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
265209 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:265170 original size:82 final size:81
Alignment explanation
Indices: 265052--265207 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
265042 TGCTATATAA
* *
265052 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
265117 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
265134 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
265198 CACTTAGTGC
65 CACTTAGTGC
265208 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:272215 original size:40 final size:39
Alignment explanation
Indices: 272178--272269 Score: 132
Period size: 39 Copynumber: 2.3 Consensus size: 39
272168 GCTACTCGTT
*
272178 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CATAGCCCGGAAT-TAGTAACTCGCA
* *
272218 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
272257 CAAATGCCTTCGG
1 CAAATGCCTTCGG
272270 ATCTTAGTCC
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
39 33 0.69
40 15 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
Found at i:272249 original size:39 final size:40
Alignment explanation
Indices: 272159--272322 Score: 176
Period size: 40 Copynumber: 4.1 Consensus size: 40
272149 CGGAATTTAA
** *
272159 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
272199 CCGGTTATAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
272238 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
272278 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
272318 CCGGA
1 CCGGA
272323 CATCATTCAA
Statistics
Matches: 105, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
38 3 0.03
39 32 0.30
40 58 0.55
41 12 0.11
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:281750 original size:27 final size:28
Alignment explanation
Indices: 281712--281846 Score: 188
Period size: 27 Copynumber: 5.0 Consensus size: 28
281702 GGCTGCCAAA
* *
281712 ACAGATA-TTGTGACAGAGTCACCAGAT
1 ACAGATATTTGTGGCAGAGCCACCAGAT
*
281739 ACAGATA-TTGTGGCAGAGCCACCAGAA
1 ACAGATATTTGTGGCAGAGCCACCAGAT
*
281766 ACAGATATTTGTGGCAAAGCCACCAGAT
1 ACAGATATTTGTGGCAGAGCCACCAGAT
*
281794 -CAGATATTTGTGGCAAAGCCACCAGAT
1 ACAGATATTTGTGGCAGAGCCACCAGAT
*
281821 -GAGATATTTGTGGCAGAGCCACCAGA
1 ACAGATATTTGTGGCAGAGCCACCAGA
281847 ACGCTTCCTC
Statistics
Matches: 100, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
27 82 0.82
28 18 0.18
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (28 bp):
ACAGATATTTGTGGCAGAGCCACCAGAT
Found at i:286514 original size:40 final size:40
Alignment explanation
Indices: 286470--286835 Score: 504
Period size: 40 Copynumber: 9.2 Consensus size: 40
286460 TGGCTAATTT
*
286470 CGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATC
** * *
286510 CGGGCTAAGTCCCGAAATCGTTTGTGCGAGCTATTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATC
*
286550 CGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATC
** * *
286590 CGGGCTAAGTCCCGAAATCGTTTGTGCGAGCTATTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATC
* *
286630 CGGGCTAAGTCCCGAAGGCATTCGTGCTAGCTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATC
* * *
286670 CGGGCTAAGTCCTGAAGGCGTTTGTGCGAGCTATTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATC
* *
286710 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-C
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATC
* * *
286749 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAAC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATC
* *
286789 CGGGCTAAGTCCCGAAGGCATTTGAGCTAG-TAGCTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTA-CTATATC
286829 C-GGCTAA
1 CGGGCTAA
286836 ACTCCGAAGG
Statistics
Matches: 290, Mismatches: 34, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
39 45 0.16
40 245 0.84
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.26
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATC
Found at i:291887 original size:44 final size:44
Alignment explanation
Indices: 291839--291926 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
291829 GTCAGCAAGT
291839 GAAGGCGGAACATCAAGTTCCTACGGGTTTACTTCAGCCGATCA
1 GAAGGCGGAACATCAAGTTCCTACGGGTTTACTTCAGCCGATCA
291883 GAAGGCGGAACATCAAGTTCCTACGGGTTTACTTCAGCCGATCA
1 GAAGGCGGAACATCAAGTTCCTACGGGTTTACTTCAGCCGATCA
291927 TGATACCTGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.23
Consensus pattern (44 bp):
GAAGGCGGAACATCAAGTTCCTACGGGTTTACTTCAGCCGATCA
Found at i:295117 original size:19 final size:19
Alignment explanation
Indices: 295093--295157 Score: 55
Period size: 19 Copynumber: 3.4 Consensus size: 19
295083 AAATTACTAA
295093 AAATAGTAGGAACGGAATT
1 AAATAGTAGGAACGGAATT
**
295112 AAATAGT--GAA-TAAATACT
1 AAATAGTAGGAACGGAAT--T
295130 AAAAATAGTAGGAACGGAATT
1 --AAATAGTAGGAACGGAATT
295151 AAATAGT
1 AAATAGT
295158 GAATAAATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 14
0.66 0.08 0.26
Matches are distributed among these distances:
16 3 0.09
17 3 0.09
18 1 0.03
19 14 0.40
20 7 0.20
21 1 0.03
22 3 0.09
23 3 0.09
ACGTcount: A:0.52, C:0.05, G:0.20, T:0.23
Consensus pattern (19 bp):
AAATAGTAGGAACGGAATT
Found at i:295132 original size:39 final size:39
Alignment explanation
Indices: 295078--295165 Score: 160
Period size: 39 Copynumber: 2.3 Consensus size: 39
295068 TGACATGAAT
295078 GTGAA-AAATTACTAAAAATAGTAGGAACGGAATTAAATA
1 GTGAATAAA-TACTAAAAATAGTAGGAACGGAATTAAATA
295117 GTGAATAAATACTAAAAATAGTAGGAACGGAATTAAATA
1 GTGAATAAATACTAAAAATAGTAGGAACGGAATTAAATA
295156 GTGAATAAAT
1 GTGAATAAAT
295166 TATGTAATCG
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
39 45 0.94
40 3 0.06
ACGTcount: A:0.53, C:0.05, G:0.18, T:0.24
Consensus pattern (39 bp):
GTGAATAAATACTAAAAATAGTAGGAACGGAATTAAATA
Found at i:300714 original size:27 final size:27
Alignment explanation
Indices: 300636--300721 Score: 91
Period size: 27 Copynumber: 3.2 Consensus size: 27
300626 CGATTTACAA
*
300636 AATTATCGAAATACCTTTGTAGGGTAG
1 AATTATCGAAATACCCTTGTAGGGTAG
** * * *
300663 AAACACCGAAATACCCCTATAGGGTAG
1 AATTATCGAAATACCCTTGTAGGGTAG
* * *
300690 AATTATCGAGATACCCTTGTGGGGTAA
1 AATTATCGAAATACCCTTGTAGGGTAG
300717 AATTA
1 AATTA
300722 CCATTTTGCC
Statistics
Matches: 45, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (27 bp):
AATTATCGAAATACCCTTGTAGGGTAG
Found at i:301347 original size:6 final size:6
Alignment explanation
Indices: 301338--301444 Score: 69
Period size: 6 Copynumber: 17.3 Consensus size: 6
301328 TTGCATTCAC
* *
301338 ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCT- ATCACCTG ATTCTG
1 ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG
* * * *
301388 ATTATG ATTCTG -TCACTTG ATTCTG ATTCTG ATTCTC ATTTTG ATTCT-
1 ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG
301436 AGTTCTG AT
1 A-TTCTG AT
301445 AATGTTTCTT
Statistics
Matches: 78, Mismatches: 12, Indels: 22
0.70 0.11 0.20
Matches are distributed among these distances:
5 6 0.08
6 59 0.76
7 9 0.12
8 4 0.05
ACGTcount: A:0.20, C:0.19, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:301366 original size:25 final size:25
Alignment explanation
Indices: 301338--301423 Score: 127
Period size: 25 Copynumber: 3.4 Consensus size: 25
301328 TTGCATTCAC
* *
301338 ATTCTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGTCACCTGATTCTG
*
301363 ATTCTGATTCTATCACCTGATTCTG
1 ATTCTGATTCTGTCACCTGATTCTG
* *
301388 ATTATGATTCTGTCACTTGATTCTG
1 ATTCTGATTCTGTCACCTGATTCTG
301413 ATTCTGATTCT
1 ATTCTGATTCT
301424 CATTTTGATT
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 54 1.00
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.47
Consensus pattern (25 bp):
ATTCTGATTCTGTCACCTGATTCTG
Found at i:302344 original size:146 final size:146
Alignment explanation
Indices: 302080--302527 Score: 887
Period size: 146 Copynumber: 3.1 Consensus size: 146
302070 CATAGACTCG
*
302080 AAACACTAAGATTTACTTACGCCGATAGCGTAGACTCAACAATGTGATAATATCTCTGACGGCCT
1 AAACAATAAGATTTACTTACGCCGATAGCGTAGACTCAACAATGTGATAATATCTCTGACGGCCT
302145 TCAACCCGAGCTAACCCAGCAACCCTAGTGAATATGGGAAAGAATAGGGGAGTAAGCTTTATGCT
66 TCAACCCGAGCTAACCCAGCAACCCTAGTGAATATGGGAAAGAATAGGGGAGTAAGCTTTATGCT
302210 TTGTAAGTTCATAAGA
131 TTGTAAGTTCATAAGA
302226 AAACAATAAGATTTACTTACGCCGATAGCGTAGACTCAACAATGTGATAATATCTCTGACGGCCT
1 AAACAATAAGATTTACTTACGCCGATAGCGTAGACTCAACAATGTGATAATATCTCTGACGGCCT
302291 TCAACCCGAGCTAACCCAGCAACCCTAGTGAATATGGGAAAGAATAGGGGAGTAAGCTTTATGCT
66 TCAACCCGAGCTAACCCAGCAACCCTAGTGAATATGGGAAAGAATAGGGGAGTAAGCTTTATGCT
302356 TTGTAAGTTCATAAGA
131 TTGTAAGTTCATAAGA
302372 AAACAATAAGATTTACTTACGCCGATAGCGTAGACTCAACAATGTGATAATATCTCTGACGGCCT
1 AAACAATAAGATTTACTTACGCCGATAGCGTAGACTCAACAATGTGATAATATCTCTGACGGCCT
302437 TCAACCCGAGCTAACCCAGCAACCCTAGTGAATATGGGAAAGAATAGGGGAGTAAGCTTTATGCT
66 TCAACCCGAGCTAACCCAGCAACCCTAGTGAATATGGGAAAGAATAGGGGAGTAAGCTTTATGCT
302502 TTGTAAGTTCATAAGA
131 TTGTAAGTTCATAAGA
302518 AAACAATAAG
1 AAACAATAAG
302528 CAACTCATTA
Statistics
Matches: 301, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
146 301 1.00
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.24
Consensus pattern (146 bp):
AAACAATAAGATTTACTTACGCCGATAGCGTAGACTCAACAATGTGATAATATCTCTGACGGCCT
TCAACCCGAGCTAACCCAGCAACCCTAGTGAATATGGGAAAGAATAGGGGAGTAAGCTTTATGCT
TTGTAAGTTCATAAGA
Found at i:314062 original size:29 final size:29
Alignment explanation
Indices: 314027--314100 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
314017 GTTGTGAGAT
* *
314027 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
314056 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
314085 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
314101 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:314534 original size:40 final size:40
Alignment explanation
Indices: 314490--314646 Score: 251
Period size: 40 Copynumber: 3.9 Consensus size: 40
314480 GAGTTACTAA
314490 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
314530 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* * *
314570 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* * * *
314610 ATCCGTGCTAAATCCCGAAGAGCAATCATGCTGGTGA
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
314647 CATGTATTCG
Statistics
Matches: 108, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 108 1.00
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
Found at i:314548 original size:80 final size:80
Alignment explanation
Indices: 314411--314640 Score: 261
Period size: 80 Copynumber: 2.9 Consensus size: 80
314401 TCGAATGATG
* * *
314411 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAG-GC
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TATATCCGGGCTAAG-TCCCGAAGAGC
** *
314472 ATTGGTGCGAGTTACTAAA
63 ATTCATGCGAGTGA-TAAA
* *
314491 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATT
* **
314556 CATGCTAGTGATGTA
66 CATGCGAGTGATAAA
* * * *
314571 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGTGCTAAATCCCGAAGAGCAAT
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATT
314636 CATGC
66 CATGC
314641 TGGTGACATG
Statistics
Matches: 129, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
79 1 0.01
80 103 0.80
81 19 0.15
82 6 0.05
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATT
CATGCGAGTGATAAA
Found at i:314626 original size:120 final size:120
Alignment explanation
Indices: 314411--314646 Score: 298
Period size: 120 Copynumber: 2.0 Consensus size: 120
314401 TCGAATGATG
** *
314411 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTG
1 TCCGGGCTAAGTCCCGAAGGCTTCATGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTC
* * *
314476 GTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
66 GTGCGAGTGACTAAATCCGGGCTAAATCCCGAAGAGCAATCATGCTAGTGATGTA
** * *
314531 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TGTATCCGGGCTAAGTTCCGAAGAGCA
1 TCCGGGCTAAGTCCCGAAG-GC-TTCATGCTAAGTGACCATATCCGGACTAAGATCCGAAG-GCA
* * * *
314594 TTCGTGCTAGTGA-TATATCCGTGCTAAATCCCGAAGAGCAATCATGCTGGTGA
63 TTCGTGCGAGTGACTAAATCCGGGCTAAATCCCGAAGAGCAATCATGCTAGTGA
314647 CATGTATTCG
Statistics
Matches: 99, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
120 73 0.74
121 20 0.20
122 6 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCTTCATGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTGACTAAATCCGGGCTAAATCCCGAAGAGCAATCATGCTAGTGATGTA
Found at i:318484 original size:47 final size:47
Alignment explanation
Indices: 318420--319550 Score: 2073
Period size: 47 Copynumber: 24.0 Consensus size: 47
318410 ATGATAGTAA
318420 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGATAG
* *
318467 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGAGATAG
318516 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGATAG
318563 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGATAG
318610 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGATAG
318657 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGATAG
318704 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGATAG
318751 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGATAG
318798 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGATAG
318845 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGATAG
318892 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGATAG
318939 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGATAG
318986 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGATAG
319033 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGATAG
319080 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGATAG
319127 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGATAG
319174 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGATAG
319221 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGATAG
319268 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGATAG
319315 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGATAG
* * *
319362 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGATAG
* *
319409 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGATAG
* * *
319456 GGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGACAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGAGATAG
* * * * * * *
319505 GGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGATA
319551 AGTCCCGAAG
Statistics
Matches: 1061, Mismatches: 19, Indels: 8
0.98 0.02 0.01
Matches are distributed among these distances:
47 977 0.92
49 84 0.08
ACGTcount: A:0.32, C:0.09, G:0.32, T:0.28
Consensus pattern (47 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGATAG
Found at i:319727 original size:37 final size:37
Alignment explanation
Indices: 319671--319749 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
319661 CCGAGCTCTA
* ** *
319671 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGAAGATTATGTCCGGGT
*
319708 AAGACCCGATAACTTCGTGTGAAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGAAGATTATGTCCGGGT
319745 AAGAC
1 AAGAC
319750 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGAAGATTATGTCCGGGT
Done.