Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 95 of 205
Found at i:27636250 original size:616 final size:615
Alignment explanation
Indices: 27635071--27636308 Score: 2460
Period size: 616 Copynumber: 2.0 Consensus size: 615
27635061 AAAATTGTAG
27635071 TACATG-CAGTAAAATACTCGAAAAAAAACATATGTACTTGAAGTAAATTGCACTAAAGAGCTTG
1 TACATGCCAGTAAAATACTCGAAAAAAAACATATGTACTTGAAGTAAATTGCACTAAAGAGCTTG
27635135 TGAAAAGGAAAGAAAAGTTGATGTATTGAAGGTAATTATTTCGACAGGTCTGATACAAGCTGAAT
66 TGAAAAGGAAAGAAAAGTTGATGTATTGAAGGTAATTATTTCGACAGGTCTGATACAAGCTGAAT
27635200 CTAGGTTTTTTTTTAAACCTAAAATTATCTATCTTTTACCTACCCCTAAGCCCAGCCATGTTACA
131 CTAGGTTTTTTTTTAAACCTAAAATTATCTATCTTTTACCTACCCCTAAGCCCAGCCATGTTACA
27635265 ACCTTGTTAAAGACCTATTTATTCAAAGTTCCAATGTTACCCACATTAGTGGAGAGAAATTGCTC
196 ACCTTGTTAAAGACCTATTTATTCAAAGTTCCAATGTTACCCACATTAGTGGAGAGAAATTGCTC
27635330 TGTTCAACATATGAAGACATCAGTTAAGCTTAATGATTGCAGTTTAATTTTGAATAAGGGATTAA
261 TGTTCAACATATGAAGACATCAGTTAAGCTTAATGATTGCAGTTTAATTTTGAATAAGGGATTAA
27635395 AATCAAATTGGTAGGGATTAACATGTCTTTATTAAGAAACAATTAGTCTAATTTTTCTATTGTAG
326 AATCAAATTGGTAGGGATTAACATGTCTTTATTAAGAAACAATTAGTCTAATTTTTCTATTGTAG
27635460 TAATTGTTGAGATTAATTTGAACGATATATATACTTGAGTAGCATAATTAGCAAATTTATTGTTT
391 TAATTGTTGAGATTAATTTGAACGATATATATACTTGAGTAGCATAATTAGCAAATTTATTGTTT
27635525 TTGAGCATAAGTATATTGATTTCATGATTTTGGGAAGAATGTTGTTCTAAAGGAGTTTTTCAAAA
456 TTGAGCATAAGTATATTGATTTCATGATTTTGGGAAGAATGTTGTTCTAAAGGAGTTTTTCAAAA
27635590 AGTGTTTCCGAGAAAATTCTTTTCAAATTTGTGCAATACTCGGGACAAGCAATGAATTAAGTTTG
521 AGTGTTTCCGAGAAAATTCTTTTCAAATTTGTGCAATACTCGGGACAAGCAATGAATTAAGTTTG
27635655 GGGGTGTGGAAACACGAAAATTTGTGTTTT
586 GGGGTGTGGAAACACGAAAATTTGTGTTTT
27635685 TACATGCNCAGTAAAATACTCGAAAAAAAACATATGTACTTGAAGTAAATTGCACTAAAGAGCTT
1 TACATGC-CAGTAAAATACTCGAAAAAAAACATATGTACTTGAAGTAAATTGCACTAAAGAGCTT
27635750 GTGAAAAGGAAAGAAAAGTTGATGTATTGAAGGTAATTATTTCGACAGGTCTGATACAAGCTGAA
65 GTGAAAAGGAAAGAAAAGTTGATGTATTGAAGGTAATTATTTCGACAGGTCTGATACAAGCTGAA
27635815 TCTAGGTTTTTTTTTAAACCTAAAATTATCTATCTTTTACCTACCCCTAAGCCCAGCCATGTTAC
130 TCTAGGTTTTTTTTTAAACCTAAAATTATCTATCTTTTACCTACCCCTAAGCCCAGCCATGTTAC
27635880 AACCTTGTTAAAGACCTATTTATTCAAAGTTCCAATGTTACCCACATTAGTGGAGAGAAATTGCT
195 AACCTTGTTAAAGACCTATTTATTCAAAGTTCCAATGTTACCCACATTAGTGGAGAGAAATTGCT
27635945 CTGTTCAACATATGAAGACATCAGTTAAGCTTAATGATTGCAGTTTAATTTTGAATAAGGGATTA
260 CTGTTCAACATATGAAGACATCAGTTAAGCTTAATGATTGCAGTTTAATTTTGAATAAGGGATTA
27636010 AAATCAAATTGGTAGGGATTAACATGTCTTTATTAAGAAACAATTAGTCTAATTTTTCTATTGTA
325 AAATCAAATTGGTAGGGATTAACATGTCTTTATTAAGAAACAATTAGTCTAATTTTTCTATTGTA
27636075 GTAATTGTTGAGATTAATTTGAACGATATATATACTTGAGTAGCATAATTAGCAAATTTATTGTT
390 GTAATTGTTGAGATTAATTTGAACGATATATATACTTGAGTAGCATAATTAGCAAATTTATTGTT
27636140 TTTGAGCATAAGTATATTGATTTCATGATTTTGGGAAGAATGTTGTTCTAAAGGAGTTTTTCAAA
455 TTTGAGCATAAGTATATTGATTTCATGATTTTGGGAAGAATGTTGTTCTAAAGGAGTTTTTCAAA
27636205 AAGTGTTTCCGAGAAAATTCTTTTCAAATTTGTGCAATACTCGGGACAAGCAATGAATTAAGTTT
520 AAGTGTTTCCGAGAAAATTCTTTTCAAATTTGTGCAATACTCGGGACAAGCAATGAATTAAGTTT
27636270 GGGGGTGTGGAAACACGAAAATTTGTGTTTT
585 GGGGGTGTGGAAACACGAAAATTTGTGTTTT
27636301 TACATGCC
1 TACATGCC
27636309 CTTTTTTAAC
Statistics
Matches: 622, Mismatches: 0, Indels: 3
1.00 0.00 0.00
Matches are distributed among these distances:
614 6 0.01
615 1 0.00
616 615 0.99
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (615 bp):
TACATGCCAGTAAAATACTCGAAAAAAAACATATGTACTTGAAGTAAATTGCACTAAAGAGCTTG
TGAAAAGGAAAGAAAAGTTGATGTATTGAAGGTAATTATTTCGACAGGTCTGATACAAGCTGAAT
CTAGGTTTTTTTTTAAACCTAAAATTATCTATCTTTTACCTACCCCTAAGCCCAGCCATGTTACA
ACCTTGTTAAAGACCTATTTATTCAAAGTTCCAATGTTACCCACATTAGTGGAGAGAAATTGCTC
TGTTCAACATATGAAGACATCAGTTAAGCTTAATGATTGCAGTTTAATTTTGAATAAGGGATTAA
AATCAAATTGGTAGGGATTAACATGTCTTTATTAAGAAACAATTAGTCTAATTTTTCTATTGTAG
TAATTGTTGAGATTAATTTGAACGATATATATACTTGAGTAGCATAATTAGCAAATTTATTGTTT
TTGAGCATAAGTATATTGATTTCATGATTTTGGGAAGAATGTTGTTCTAAAGGAGTTTTTCAAAA
AGTGTTTCCGAGAAAATTCTTTTCAAATTTGTGCAATACTCGGGACAAGCAATGAATTAAGTTTG
GGGGTGTGGAAACACGAAAATTTGTGTTTT
Found at i:27644024 original size:17 final size:17
Alignment explanation
Indices: 27644002--27644054 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 17
27643992 TCTACATGTT
27644002 TGTGGCTCACAAGGGTG
1 TGTGGCTCACAAGGGTG
**
27644019 TGTGG--C-C-AGCCTG
1 TGTGGCTCACAAGGGTG
*
27644032 TGTGGCTCACACGGGTG
1 TGTGGCTCACAAGGGTG
27644049 TGTGGC
1 TGTGGC
27644055 CAGCTCGTGT
Statistics
Matches: 27, Mismatches: 5, Indels: 8
0.68 0.12 0.20
Matches are distributed among these distances:
13 9 0.33
14 1 0.04
15 2 0.07
16 1 0.04
17 14 0.52
ACGTcount: A:0.11, C:0.23, G:0.42, T:0.25
Consensus pattern (17 bp):
TGTGGCTCACAAGGGTG
Found at i:27644036 original size:30 final size:30
Alignment explanation
Indices: 27644002--27644096 Score: 140
Period size: 30 Copynumber: 3.2 Consensus size: 30
27643992 TCTACATGTT
*
27644002 TGTGGCTCACAAGGGTGTGTGGCCAGCCTG
1 TGTGGCTCACACGGGTGTGTGGCCAGCCTG
27644032 TGTGGCTCACACGGGTGTGTGGCCAG-CTCG
1 TGTGGCTCACACGGGTGTGTGGCCAGCCT-G
*
27644062 TGTGGCTCACACGGATGTGTGGCCAGGCC-G
1 TGTGGCTCACACGGGTGTGTGGCCA-GCCTG
27644092 TGTGG
1 TGTGG
27644097 AAATGCCCTG
Statistics
Matches: 60, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
29 2 0.03
30 56 0.93
31 1 0.02
32 1 0.02
ACGTcount: A:0.12, C:0.24, G:0.41, T:0.23
Consensus pattern (30 bp):
TGTGGCTCACACGGGTGTGTGGCCAGCCTG
Found at i:27648453 original size:14 final size:14
Alignment explanation
Indices: 27648429--27648461 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
27648419 AATAGCATAG
27648429 AAATG-ATATAAAA
1 AAATGAATATAAAA
27648442 AAATGAATATAAAA
1 AAATGAATATAAAA
*
27648456 TAATGA
1 AAATGA
27648462 CGTGCGAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.24
Consensus pattern (14 bp):
AAATGAATATAAAA
Found at i:27649319 original size:19 final size:19
Alignment explanation
Indices: 27649281--27649394 Score: 138
Period size: 19 Copynumber: 5.8 Consensus size: 19
27649271 AAATTAAATC
*
27649281 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
*
27649301 TCTAAGATTATATATCATA
1 TCTAAGATTACATATCATA
*
27649320 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
*
27649339 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
* *
27649360 TCTAGGATTGCATATCATA
1 TCTAAGATTACATATCATA
*
27649379 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
27649395 CTCAAAAATT
Statistics
Matches: 82, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
19 56 0.68
20 10 0.12
21 16 0.20
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.37
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:27649369 original size:40 final size:40
Alignment explanation
Indices: 27649281--27649393 Score: 176
Period size: 40 Copynumber: 2.9 Consensus size: 40
27649271 AAATTAAATC
* *
27649281 TCTAAGATTACAAAATCATATCTAAGATT--ATATATCATA
1 TCTAAGATTGC-ATATCATATCTAAGATTGCATATATCATA
27649320 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
*
27649360 TCTAGGATTGCATATCATATCTAAGATTGCATAT
1 TCTAAGATTGCATATCATATCTAAGATTGCATAT
27649394 CCTCAAAAAT
Statistics
Matches: 69, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
38 16 0.23
39 10 0.14
40 43 0.62
ACGTcount: A:0.39, C:0.14, G:0.10, T:0.37
Consensus pattern (40 bp):
TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
Found at i:27649377 original size:59 final size:58
Alignment explanation
Indices: 27649281--27649394 Score: 174
Period size: 59 Copynumber: 1.9 Consensus size: 58
27649271 AAATTAAATC
*
27649281 TCTAAGATTACAAAATCATATCTAAGATTATATATCATATCTAAGATTGCATATCATA
1 TCTAAGATTACAAAATCATATCTAAGATTACATATCATATCTAAGATTGCATATCATA
* * * *
27649339 TCTAAGATTGCATATATCATATCTAGGATTGCATATCATATCTAAGATTGCATATC
1 TCTAAGATTACA-AAATCATATCTAAGATTACATATCATATCTAAGATTGCATATC
27649395 CTCAAAAATT
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
58 11 0.22
59 39 0.78
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.37
Consensus pattern (58 bp):
TCTAAGATTACAAAATCATATCTAAGATTACATATCATATCTAAGATTGCATATCATA
Found at i:27650161 original size:44 final size:44
Alignment explanation
Indices: 27650063--27650202 Score: 129
Period size: 44 Copynumber: 3.2 Consensus size: 44
27650053 TTCACAATAC
* * *** * * *
27650063 CTGCTATTTTCGATCTACTTCAGGCCAATACATGAAGACAAGAT
1 CTGCTATCTTCGATCCACTTCCCACCAATATAGGAAGATAAGAT
* * *
27650107 CTGCTTTCTTCGATCTACTTCGCCACCAGTATAGGAAGATAAGAT
1 CTGCTATCTTCGATCCACTTC-CCACCAATATAGGAAGATAAGAT
* * * *
27650152 CTGC-ATCTTCGATCCACTTCCTACCAATATAGAAAGATAGGAC
1 CTGCTATCTTCGATCCACTTCCCACCAATATAGGAAGATAAGAT
27650195 CTGCTATC
1 CTGCTATC
27650203 ACGCCAATAC
Statistics
Matches: 78, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
43 22 0.28
44 36 0.46
45 20 0.26
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (44 bp):
CTGCTATCTTCGATCCACTTCCCACCAATATAGGAAGATAAGAT
Found at i:27650270 original size:119 final size:122
Alignment explanation
Indices: 27650086--27650454 Score: 537
Period size: 132 Copynumber: 3.0 Consensus size: 122
27650076 TCTACTTCAG
* * *
27650086 GCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATAGGAAGATAAGA
1 GCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCTCCACCAGTATGGGAAGACAAGA
* *
27650151 TCTGCATCTTCGATCCACTTCCTACCAATATAGAAAGATAGGACCTGCTATC-A-C-
66 TCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATCTATCA
*
27650205 GCCAATACATGAAGACAATATCTGCTTTCTTCGATCTACTTCTCCACCAGTATGGGAAGACAAGA
1 GCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCTCCACCAGTATGGGAAGACAAGA
*
27650270 TCTGCATCTTTGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATTTTCGATCTACTTC
66 TCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGC-----T--ATCTA--TC
27650335 A
122 A
* *
27650336 GGACAATACATGAAGAGAAGATCTGCTTTCTTCGATCTACTTCTCCACCAGTATGGGAAGACAAG
1 -GCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCTCCACCAGTATGGGAAGACAAG
*
27650401 ATCTGCATCTTCAATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATCT
65 ATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATCT
27650455 TCCTACAGCT
Statistics
Matches: 225, Mismatches: 12, Indels: 20
0.88 0.05 0.08
Matches are distributed among these distances:
119 106 0.47
124 1 0.00
125 4 0.02
126 3 0.01
127 2 0.01
130 1 0.00
132 108 0.48
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (122 bp):
GCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCTCCACCAGTATGGGAAGACAAGA
TCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATCTATCA
Found at i:27650455 original size:44 final size:45
Alignment explanation
Indices: 27650206--27650456 Score: 233
Period size: 44 Copynumber: 5.7 Consensus size: 45
27650196 TGCTATCACG
* * * *
27650206 CCAATACATGAAGACAATATCTGCTTTCTTCGATCTACTTCTCCA
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCTCCA
* * * * *
27650251 CCAGTATGGGAAGACAAGATCTGC-ATCTTTGATCCACTTC-CTA
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCTCCA
* * * ***
27650294 CCAATATAGGAAGACAGGACCTGCTATTTTCGATCTACTTCAGGA
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCTCCA
* * * *
27650339 -CAATACATGAAGAGAAGATCTGCTTTCTTCGATCTACTTCTCCA
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCTCCA
* * * * *
27650383 CCAGTATGGGAAGACAAGATCTGC-ATCTTCAATCCACTTC-CTA
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCTCCA
* *
27650426 CCAATATAGGAAGACAGGACCTGCTATCTTC
1 CCAATATAGGAAGACAAGATCTGCTATCTTC
27650457 CTACAGCTGC
Statistics
Matches: 161, Mismatches: 41, Indels: 9
0.76 0.19 0.04
Matches are distributed among these distances:
43 44 0.27
44 79 0.49
45 38 0.24
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (45 bp):
CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCTCCA
Found at i:27650999 original size:44 final size:44
Alignment explanation
Indices: 27650930--27651200 Score: 248
Period size: 44 Copynumber: 6.2 Consensus size: 44
27650920 CTGTCGGTGC
* * * *
27650930 AGGAAGGCAAGACCTGCTATT-TTCGATCTACTTCACGCCAATAA
1 AGGAAGACAAGATCTGCT-TTCTTCGATCTACTTCACACCAATAT
* * *
27650974 ATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTAT
1 AGGAAGACAAGATCTGCTTTCTTCGATCTACTTC-ACACCAATAT
* * *
27651019 GGGAAGACAAGATCTG-TATCTTCGATCCACTTC-CTACCAATAT
1 AGGAAGACAAGATCTGCTTTCTTCGATCTACTTCAC-ACCAATAT
* * ** *
27651062 AGGAAGACAGGACCTGCTATT-TTCGATCTACTTCAGGCCAATAC
1 AGGAAGACAAGATCTGCT-TTCTTCGATCTACTTCACACCAATAT
* * *
27651106 ATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTAT
1 AGGAAGACAAGATCTGCTTTCTTCGATCTACTTC-ACACCAATAT
* * *
27651151 AGGAAGATAAGATCTGC-ATCTTCGATCCACTTC-CTACCAATAT
1 AGGAAGACAAGATCTGCTTTCTTCGATCTACTTCAC-ACCAATAT
*
27651194 AGAAAGA
1 AGGAAGA
27651201 TAGGACCTGC
Statistics
Matches: 184, Mismatches: 34, Indels: 19
0.78 0.14 0.08
Matches are distributed among these distances:
42 2 0.01
43 37 0.20
44 104 0.57
45 41 0.22
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (44 bp):
AGGAAGACAAGATCTGCTTTCTTCGATCTACTTCACACCAATAT
Found at i:27651095 original size:132 final size:132
Alignment explanation
Indices: 27650930--27651464 Score: 808
Period size: 132 Copynumber: 4.2 Consensus size: 132
27650920 CTGTCGGTGC
* *
27650930 AGGAAGGCAAGACCTGCTATTTTCGATCTACTTCACGCCAATAAATGAAGACAAGATCTGCTTTC
1 AGGAAGACAGGACCTGCTATTTTCGATCTACTTCACGCCAATAAATGAAGACAAGATCTGCTTTC
*
27650995 TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTATCTTCGATCCACTTCCTACCAAT
66 TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAAT
27651060 AT
131 AT
* *
27651062 AGGAAGACAGGACCTGCTATTTTCGATCTACTTCAGGCCAATACATGAAGACAAGATCTGCTTTC
1 AGGAAGACAGGACCTGCTATTTTCGATCTACTTCACGCCAATAAATGAAGACAAGATCTGCTTTC
* *
27651127 TTCGATCTACTTCGCCACCAGTATAGGAAGATAAGATCTGCATCTTCGATCCACTTCCTACCAAT
66 TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAAT
27651192 AT
131 AT
* * * *
27651194 AGAAAGATAGGA-C--C-----T-G--CTA--TCACGCCAATACATGAAGACAATATCTGCTTTC
1 AGGAAGACAGGACCTGCTATTTTCGATCTACTTCACGCCAATAAATGAAGACAAGATCTGCTTTC
* *
27651246 TTCGATCTACTTCTCCACCAGTATGGGAAGACAAGATCTGCATCTTTGATCCACTTCCTACCAAT
66 TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAAT
27651311 AT
131 AT
* * *
27651313 AGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATAAATGAAAACAAGATCTGCTTTC
1 AGGAAGACAGGACCTGCTATTTTCGATCTACTTCACGCCAATAAATGAAGACAAGATCTGCTTTC
* * *
27651378 TTCGATCTACTCCGCCACCAATATGGGAAGACAAGATCTGCATCTTCAATCCACTTCCTACCAAT
66 TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAAT
27651443 AT
131 AT
27651445 AGGAAGACAGGACCTGCTAT
1 AGGAAGACAGGACCTGCTAT
27651465 CTTCCCTGAT
Statistics
Matches: 365, Mismatches: 25, Indels: 26
0.88 0.06 0.06
Matches are distributed among these distances:
119 105 0.29
120 1 0.00
121 3 0.01
122 1 0.00
123 1 0.00
124 1 0.00
127 1 0.00
128 1 0.00
129 1 0.00
130 3 0.01
131 1 0.00
132 246 0.67
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (132 bp):
AGGAAGACAGGACCTGCTATTTTCGATCTACTTCACGCCAATAAATGAAGACAAGATCTGCTTTC
TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAAT
AT
Found at i:27651309 original size:119 final size:119
Alignment explanation
Indices: 27651098--27651465 Score: 511
Period size: 119 Copynumber: 3.0 Consensus size: 119
27651088 TCTACTTCAG
* *
27651098 GCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATAGGAAGATAAGA
1 GCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGA
*
27651163 TCTGCATCTTCGATCCACTTCCTACCAATATAGAAAGATAGGACCTGCTATCAC
66 TCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCAC
* *
27651217 GCCAATACATGAAGACAATATCTGCTTTCTTCGATCTACTTCTCCACCAGTATGGGAAGACAAGA
1 GCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGA
*
27651282 TCTGCATCTTTGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTC
66 TCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGA----C---C-T-G--CTA--TC
27651347 AC
118 AC
* * * *
27651349 GCCAATAAATGAAAACAAGATCTGCTTTCTTCGATCTACTCCGCCACCAATATGGGAAGACAAGA
1 GCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGA
* *
27651414 TCTGCATCTTCAATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATC
66 TCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATC
27651466 TTCCCTGATC
Statistics
Matches: 221, Mismatches: 15, Indels: 26
0.84 0.06 0.10
Matches are distributed among these distances:
119 104 0.47
121 3 0.01
123 2 0.01
124 1 0.00
125 1 0.00
126 1 0.00
127 1 0.00
128 2 0.01
130 3 0.01
132 103 0.47
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (119 bp):
GCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGA
TCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCAC
Found at i:27651335 original size:44 final size:45
Alignment explanation
Indices: 27651218--27651468 Score: 233
Period size: 44 Copynumber: 5.7 Consensus size: 45
27651208 TGCTATCACG
* * * * *
27651218 CCAATACATGAAGACAATATCTGCTTTCTTCGATCTACTTCTCCA
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACCA
* * * * *
27651263 CCAGTATGGGAAGACAAGATCTGC-ATCTTTGATCCACTTC-CTA
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACCA
* * * *
27651306 CCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCA-CG
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACCA
* * * * * *
27651350 CCAATAAATGAAAACAAGATCTGCTTTCTTCGATCTACTCCGCCA
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACCA
* * * *
27651395 CCAATATGGGAAGACAAGATCTGC-ATCTTCAATCCACTTC-CTA
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACCA
* *
27651438 CCAATATAGGAAGACAGGACCTGCTATCTTC
1 CCAATATAGGAAGACAAGATCTGCTATCTTC
27651469 CCTGATCTGC
Statistics
Matches: 162, Mismatches: 40, Indels: 9
0.77 0.19 0.04
Matches are distributed among these distances:
43 44 0.27
44 78 0.48
45 40 0.25
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (45 bp):
CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACCA
Found at i:27651416 original size:251 final size:251
Alignment explanation
Indices: 27650962--27651465 Score: 855
Period size: 251 Copynumber: 2.0 Consensus size: 251
27650952 TCGATCTACT
27650962 TCACGCCAATAAATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGAC
1 TCACGCCAATAAATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGAC
* *
27651027 AAGATCTGTATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATTTTCGATCTA
66 AAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTA
* * * * *
27651092 CTTCAGGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATAGGAAG
131 CTTCACGCCAATAAATGAAAACAAGATCTGCTTTCTTCGATCTACTCCGCCACCAATATAGGAAG
* * *
27651157 ATAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGAAAGATAGGACCTGCTA
196 ACAAGATCTGCATCTTCAATCCACTTCCTACCAATATAGAAAGACAGGACCTGCTA
* * *
27651213 TCACGCCAATACATGAAGACAATATCTGCTTTCTTCGATCTACTTCTCCACCAGTATGGGAAGAC
1 TCACGCCAATAAATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGAC
* *
27651278 AAGATCTGCATCTTTGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCTA
66 AAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTA
*
27651343 CTTCACGCCAATAAATGAAAACAAGATCTGCTTTCTTCGATCTACTCCGCCACCAATATGGGAAG
131 CTTCACGCCAATAAATGAAAACAAGATCTGCTTTCTTCGATCTACTCCGCCACCAATATAGGAAG
*
27651408 ACAAGATCTGCATCTTCAATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTA
196 ACAAGATCTGCATCTTCAATCCACTTCCTACCAATATAGAAAGACAGGACCTGCTA
27651464 TC
1 TC
27651466 TTCCCTGATC
Statistics
Matches: 236, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
251 236 1.00
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (251 bp):
TCACGCCAATAAATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGAC
AAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTA
CTTCACGCCAATAAATGAAAACAAGATCTGCTTTCTTCGATCTACTCCGCCACCAATATAGGAAG
ACAAGATCTGCATCTTCAATCCACTTCCTACCAATATAGAAAGACAGGACCTGCTA
Found at i:27651940 original size:52 final size:52
Alignment explanation
Indices: 27651862--27651964 Score: 197
Period size: 52 Copynumber: 2.0 Consensus size: 52
27651852 AAATTCTTTG
*
27651862 GCCCTTTACACCATGCCCAAGGTGTCGTACCAAAGGCTCATGTGCAAATGAC
1 GCCCTTTACACCATGCCCAAGGTGTCGCACCAAAGGCTCATGTGCAAATGAC
27651914 GCCCTTTACACCATGCCCAAGGTGTCGCACCAAAGGCTCATGTGCAAATGA
1 GCCCTTTACACCATGCCCAAGGTGTCGCACCAAAGGCTCATGTGCAAATGA
27651965 AGTCTTTCTT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.27, C:0.31, G:0.21, T:0.20
Consensus pattern (52 bp):
GCCCTTTACACCATGCCCAAGGTGTCGCACCAAAGGCTCATGTGCAAATGAC
Found at i:27653633 original size:12 final size:12
Alignment explanation
Indices: 27653616--27653647 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
27653606 TAGTAAGCGC
27653616 AAAAGAATATAT
1 AAAAGAATATAT
27653628 AAAAGAATATAT
1 AAAAGAATATAT
27653640 AAAAGAAT
1 AAAAGAAT
27653648 GTGTGAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.09, T:0.22
Consensus pattern (12 bp):
AAAAGAATATAT
Found at i:27655427 original size:77 final size:77
Alignment explanation
Indices: 27655328--27655491 Score: 301
Period size: 77 Copynumber: 2.1 Consensus size: 77
27655318 AGTCCCCAGT
* **
27655328 GGAGTTGCCAAGCTGTTGAAACCATTTTTTTGAAAAAACAAAAATTTTAGGTTGTCGACTTTAAA
1 GGAGTCGCCAAGCTGTCAAAACCATTTTTTTGAAAAAACAAAAATTTTAGGTTGTCGACTTTAAA
27655393 AAATGAAAATTG
66 AAATGAAAATTG
27655405 GGAGTCGCCAAGCTGTCAAAACCATTTTTTTGAAAAAACAAAAATTTTAGGTTGTCGACTTTAAA
1 GGAGTCGCCAAGCTGTCAAAACCATTTTTTTGAAAAAACAAAAATTTTAGGTTGTCGACTTTAAA
27655470 AAATGAAAATTG
66 AAATGAAAATTG
27655482 GGAGTCGCCA
1 GGAGTCGCCA
27655492 CCAATCTTTT
Statistics
Matches: 84, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
77 84 1.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (77 bp):
GGAGTCGCCAAGCTGTCAAAACCATTTTTTTGAAAAAACAAAAATTTTAGGTTGTCGACTTTAAA
AAATGAAAATTG
Found at i:27656241 original size:13 final size:14
Alignment explanation
Indices: 27656210--27656238 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
27656200 AATAGCATAG
27656210 AAATG-ATATAAAT
1 AAATGAATATAAAT
27656223 AAATGAATATAAAT
1 AAATGAATATAAAT
27656237 AA
1 AA
27656239 TGACGTGCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.33
14 10 0.67
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.28
Consensus pattern (14 bp):
AAATGAATATAAAT
Found at i:27657082 original size:59 final size:59
Alignment explanation
Indices: 27656999--27657130 Score: 203
Period size: 59 Copynumber: 2.3 Consensus size: 59
27656989 AAATTAAATC
* * *
27656999 TCTAAGATTACA-AAATCATATCTAAGATTATATATCATATCTAAGATTGCATATCATA
1 TCTAAGATTGCATATATCATATCTAAGATTACATATCATATCTAAGATTGCATATCATA
* *
27657057 TCTAAGATTGCATATATCATATCTAAGATTGCATATCATATCTAGGATTGCATATCATA
1 TCTAAGATTGCATATATCATATCTAAGATTACATATCATATCTAAGATTGCATATCATA
*
27657116 TCTAAGACTGCATAT
1 TCTAAGATTGCATAT
27657131 CCTCAAAAAT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
58 11 0.16
59 56 0.84
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.36
Consensus pattern (59 bp):
TCTAAGATTGCATATATCATATCTAAGATTACATATCATATCTAAGATTGCATATCATA
Found at i:27657127 original size:19 final size:19
Alignment explanation
Indices: 27656999--27657131 Score: 185
Period size: 19 Copynumber: 6.8 Consensus size: 19
27656989 AAATTAAATC
* *
27656999 TCTAAGATTACAAAATCATA
1 TCTAAGATTGC-ATATCATA
**
27657019 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
27657038 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
27657057 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
27657078 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
27657097 TCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
27657116 TCTAAGACTGCATATC
1 TCTAAGATTGCATATC
27657132 CTCAAAAATT
Statistics
Matches: 104, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
19 75 0.72
20 10 0.10
21 19 0.18
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:27668355 original size:26 final size:26
Alignment explanation
Indices: 27668315--27668380 Score: 87
Period size: 26 Copynumber: 2.5 Consensus size: 26
27668305 CATTCTGATC
* *
27668315 CACAACTCGTATGAGCAGGCCCATTT
1 CACAACTCGTGTGAGCAGACCCATTT
* * *
27668341 CACAACTCATGTGAGCATACCTATTT
1 CACAACTCGTGTGAGCAGACCCATTT
27668367 CACAACTCGTGTGA
1 CACAACTCGTGTGA
27668381 ACAACTATGG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (26 bp):
CACAACTCGTGTGAGCAGACCCATTT
Found at i:27678661 original size:19 final size:19
Alignment explanation
Indices: 27678623--27678661 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
27678613 TGTAAACATG
* * *
27678623 AGTGTTTAAATTGGTTTTT
1 AGTGGTTAAATTGATATTT
27678642 AGTGGTTAAATTGATATTT
1 AGTGGTTAAATTGATATTT
27678661 A
1 A
27678662 AGCTTGTTGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.51
Consensus pattern (19 bp):
AGTGGTTAAATTGATATTT
Found at i:27690552 original size:20 final size:20
Alignment explanation
Indices: 27690529--27690599 Score: 99
Period size: 20 Copynumber: 3.5 Consensus size: 20
27690519 GGAATGGGCG
*
27690529 ATCAGGGGCACCGAAGTGCA
1 ATCAGGGGCACCAAAGTGCA
27690549 ATCAGGGGCA-CAAATGTGCA
1 ATCAGGGGCACCAAA-GTGCA
*
27690569 TTCAGGGGCACCAAAGTGCA
1 ATCAGGGGCACCAAAGTGCA
*
27690589 AACAGGGGCAC
1 ATCAGGGGCAC
27690600 ATATTTGCAT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
19 3 0.07
20 38 0.84
21 4 0.09
ACGTcount: A:0.32, C:0.24, G:0.32, T:0.11
Consensus pattern (20 bp):
ATCAGGGGCACCAAAGTGCA
Found at i:27690574 original size:40 final size:40
Alignment explanation
Indices: 27690534--27690679 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
27690524 GGGCGATCAG
* * *
27690534 GGGCACCGAAGTGCAATCAGGGGCACAAATGTGCATTCAG
1 GGGCACCGAAGTACAAACAGGGGCACAAATGTGCATTCAA
* * * *
27690574 GGGCACCAAAGTGCAAACAGGGGCACATATTTGCATTCAA
1 GGGCACCGAAGTACAAACAGGGGCACAAATGTGCATTCAA
* *
27690614 GGGTACTGAAGTACAAACAGGGGCACAAATGTGCATTCAA
1 GGGCACCGAAGTACAAACAGGGGCACAAATGTGCATTCAA
* * *
27690654 GGGTATCGAAGTACAAACAGGTGCAC
1 GGGCACCGAAGTACAAACAGGGGCAC
27690680 TTTTTCATTT
Statistics
Matches: 92, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 92 1.00
ACGTcount: A:0.34, C:0.21, G:0.29, T:0.16
Consensus pattern (40 bp):
GGGCACCGAAGTACAAACAGGGGCACAAATGTGCATTCAA
Found at i:27697377 original size:8 final size:7
Alignment explanation
Indices: 27697358--27697392 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
27697348 TTTGCTTGTT
27697358 TCTTTTA
1 TCTTTTA
27697365 TCTTTTGA
1 TCTTTT-A
27697373 TCTTTTA
1 TCTTTTA
*
27697380 TCTTTTT
1 TCTTTTA
27697387 TCTTTT
1 TCTTTT
27697393 TGTAACGGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
7 19 0.73
8 7 0.27
ACGTcount: A:0.09, C:0.14, G:0.03, T:0.74
Consensus pattern (7 bp):
TCTTTTA
Found at i:27698736 original size:73 final size:73
Alignment explanation
Indices: 27698618--27698764 Score: 249
Period size: 73 Copynumber: 2.0 Consensus size: 73
27698608 TACTTTAGGA
* * * *
27698618 TTTTCCATGTGTAGAACATGATGTGGAATCTTGTGAGAAGAGAGAAAGCATATTCCATTGTGATA
1 TTTTCCATGTGCAAAACATGATGTGGAATCTTGTAAGAAGAGAGAAAGCATATTCCACTGTGATA
*
27698683 TATTCTTG
66 TATTATTG
27698691 TTTTCCATGTGCAAAACATGATGTGGAATCTTGTAAGAAGAGAGAAAGCATATTCCACTGTGATA
1 TTTTCCATGTGCAAAACATGATGTGGAATCTTGTAAGAAGAGAGAAAGCATATTCCACTGTGATA
27698756 TATTATTG
66 TATTATTG
27698764 T
1 T
27698765 CTTTATGTTG
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
73 69 1.00
ACGTcount: A:0.32, C:0.12, G:0.22, T:0.35
Consensus pattern (73 bp):
TTTTCCATGTGCAAAACATGATGTGGAATCTTGTAAGAAGAGAGAAAGCATATTCCACTGTGATA
TATTATTG
Found at i:27699492 original size:34 final size:34
Alignment explanation
Indices: 27699449--27699518 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
27699439 TCTAAAATAA
27699449 GTAGGATTTTTCTTCTCTACCGGTTTTATTTTAT
1 GTAGGATTTTTCTTCTCTACCGGTTTTATTTTAT
27699483 GTAGGATTTTTCTTCTCTACCGGTTTTATTTTAT
1 GTAGGATTTTTCTTCTCTACCGGTTTTATTTTAT
27699517 GT
1 GT
27699519 TGCATGAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.14, C:0.14, G:0.16, T:0.56
Consensus pattern (34 bp):
GTAGGATTTTTCTTCTCTACCGGTTTTATTTTAT
Found at i:27700760 original size:25 final size:24
Alignment explanation
Indices: 27700732--27700778 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
27700722 GTAACTTATG
*
27700732 TAATT-AAATCATGTTTATATGTTTT
1 TAATTGAAAT-ATGTATA-ATGTTTT
27700757 TAATTGAAATATGTATAATGTT
1 TAATTGAAATATGTATAATGTT
27700779 ATGAAATGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 5 0.25
25 11 0.55
26 4 0.20
ACGTcount: A:0.36, C:0.02, G:0.11, T:0.51
Consensus pattern (24 bp):
TAATTGAAATATGTATAATGTTTT
Found at i:27700980 original size:25 final size:25
Alignment explanation
Indices: 27700941--27701074 Score: 99
Period size: 25 Copynumber: 5.4 Consensus size: 25
27700931 ACAACCTGTG
** *
27700941 AGAGCATACTGATTTATAGCTCATA
1 AGAGCATACCAATTTATAGCTCGTA
* * *
27700966 AGAGTATACCAATTTGTAGCTTGTA
1 AGAGCATACCAATTTATAGCTCGTA
* * * *
27700991 AAAGCATACCGATTTATAGTTCGTG
1 AGAGCATACCAATTTATAGCTCGTA
* *
27701016 AGAGCATACCAATCTACAGCTCG-A
1 AGAGCATACCAATTTATAGCTCGTA
* * * *
27701040 GTGAGCATACCGATTCATAGCACGTA
1 -AGAGCATACCAATTTATAGCTCGTA
*
27701066 TGAGCATAC
1 AGAGCATAC
27701075 ATGAGCATGA
Statistics
Matches: 82, Mismatches: 25, Indels: 4
0.74 0.23 0.04
Matches are distributed among these distances:
25 81 0.99
26 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (25 bp):
AGAGCATACCAATTTATAGCTCGTA
Found at i:27702591 original size:14 final size:14
Alignment explanation
Indices: 27702572--27702598 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
27702562 TACATTGGGC
27702572 AGATTCATGCATGT
1 AGATTCATGCATGT
27702586 AGATTCATGCATG
1 AGATTCATGCATG
27702599 GGACGATGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (14 bp):
AGATTCATGCATGT
Found at i:27704528 original size:25 final size:26
Alignment explanation
Indices: 27704500--27704569 Score: 92
Period size: 25 Copynumber: 2.8 Consensus size: 26
27704490 AGCTCGTGAA
*
27704500 AGCATACTAATTTATAGCTCA-TAAG
1 AGCATACTGATTTATAGCTCAGTAAG
27704525 AGCATA-TCGATTTATAGCT-AGTAAG
1 AGCATACT-GATTTATAGCTCAGTAAG
*
27704550 AGCATGCTGATTTATAGCTC
1 AGCATACTGATTTATAGCTC
27704570 GTATGAGGAT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
24 2 0.05
25 36 0.92
26 1 0.03
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (26 bp):
AGCATACTGATTTATAGCTCAGTAAG
Found at i:27726988 original size:2 final size:2
Alignment explanation
Indices: 27726981--27727035 Score: 101
Period size: 2 Copynumber: 27.5 Consensus size: 2
27726971 TCATGTTAGA
*
27726981 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG CG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
27727023 AG AG AG AG AG AG A
1 AG AG AG AG AG AG A
27727036 TCATATTCCA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.02, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:27739900 original size:86 final size:86
Alignment explanation
Indices: 27739742--27739901 Score: 243
Period size: 86 Copynumber: 1.9 Consensus size: 86
27739732 CCTACCTATT
* ** *
27739742 TTTTGCACATGGAAAATCATAAACTAGATAACTTTATTCTGTGTGAAGTTGTTTAATTTTAGGTG
1 TTTTACACATGGAAAATCATAAACTAGATAACTTTATTCAATGTGAAGTTGTTTAATTTTAGCTG
*
27739807 TTTAATTTTTTTCACTCAAGG
66 TTCAATTTTTTTCACTCAAGG
27739828 TTTTACACATGGAAAATCCAT-AACTAGATAAAC-TTATTCAATGTGAAGTTGTTTAATTTTAGC
1 TTTTACACATGGAAAAT-CATAAACTAGAT-AACTTTATTCAATGTGAAGTTGTTTAATTTTAGC
27739891 TGTTCAATTTT
64 TGTTCAATTTT
27739902 CACCCAACAA
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
86 61 0.91
87 6 0.09
ACGTcount: A:0.31, C:0.11, G:0.14, T:0.43
Consensus pattern (86 bp):
TTTTACACATGGAAAATCATAAACTAGATAACTTTATTCAATGTGAAGTTGTTTAATTTTAGCTG
TTCAATTTTTTTCACTCAAGG
Found at i:27755711 original size:2 final size:2
Alignment explanation
Indices: 27755704--27755737 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
27755694 GTGGAATATG
27755704 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
27755738 TCTTACATGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:27756522 original size:87 final size:87
Alignment explanation
Indices: 27756376--27756536 Score: 259
Period size: 87 Copynumber: 1.9 Consensus size: 87
27756366 GCTATCTAAT
* ** * *
27756376 TTTTGCACATGGAAAATCCTAAACTAGATAACCTTATTCTCTGTGAACTTGTTTGATTTTAGGTG
1 TTTTGCACATGGAAAATCCTAAACTAGATAAACTTATTCAATGTGAACTTGTTTAATTTTAGCTG
*
27756441 TTCAATTTTTTGCACATCAAGG
66 TTAAATTTTTTGCACATCAAGG
*
27756463 TTTTGCACATGGAAAATCCTAAACTAGATAAACTTATTCAATGTGAAGTTGTTTAATTTTAGCTG
1 TTTTGCACATGGAAAATCCTAAACTAGATAAACTTATTCAATGTGAACTTGTTTAATTTTAGCTG
27756528 TTAAATTTT
66 TTAAATTTT
27756537 CACCCAACAA
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 67 1.00
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.41
Consensus pattern (87 bp):
TTTTGCACATGGAAAATCCTAAACTAGATAAACTTATTCAATGTGAACTTGTTTAATTTTAGCTG
TTAAATTTTTTGCACATCAAGG
Found at i:27758300 original size:87 final size:87
Alignment explanation
Indices: 27758154--27758314 Score: 268
Period size: 87 Copynumber: 1.9 Consensus size: 87
27758144 TTGTTGGGTG
* * *
27758154 AAAATTGAACAACTAAAATTAAACAACTTCACATTGAATAAGTTTATCTAGTTTAGGATTTTCCA
1 AAAATTGAACAACTAAAATTAAACAACTTCACATAGAATAAGGTTATCTAGCTTAGGATTTTCCA
27758219 TGTCCAAAACCTTGATGTGCAA
66 TGTCCAAAACCTTGATGTGCAA
* *
27758241 AAAATTGAACACCTAAAATTAAACAAGTTCACATAGAATAAGGTTATCTAGCTTAGGATTTTCCA
1 AAAATTGAACAACTAAAATTAAACAACTTCACATAGAATAAGGTTATCTAGCTTAGGATTTTCCA
*
27758306 TGTGCAAAA
66 TGTCCAAAA
27758315 ATTAGGGAGT
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 68 1.00
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.30
Consensus pattern (87 bp):
AAAATTGAACAACTAAAATTAAACAACTTCACATAGAATAAGGTTATCTAGCTTAGGATTTTCCA
TGTCCAAAACCTTGATGTGCAA
Found at i:27764411 original size:19 final size:20
Alignment explanation
Indices: 27764361--27764413 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 20
27764351 TGATGTTTGT
27764361 GATATTTTTAATTAATTAATTA
1 GATA-TTTT-ATTAATTAATTA
* *
27764383 GATA-TATATTATTTAATTA
1 GATATTTTATTAATTAATTA
27764402 -ATATTTTATTAA
1 GATATTTTATTAA
27764414 GATTTTTAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
18 3 0.12
19 17 0.65
20 2 0.08
22 4 0.15
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.55
Consensus pattern (20 bp):
GATATTTTATTAATTAATTA
Found at i:27766096 original size:19 final size:18
Alignment explanation
Indices: 27766063--27766098 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
27766053 GTTAATAATT
27766063 TGAAAGTTTTAACTCAGA
1 TGAAAGTTTTAACTCAGA
*
27766081 TGAAATTTTGTAACTCAG
1 TGAAAGTTT-TAACTCAG
27766099 TTTAATACGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (18 bp):
TGAAAGTTTTAACTCAGA
Found at i:27769802 original size:40 final size:40
Alignment explanation
Indices: 27769704--27769966 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
27769694 TCCTCGTTCA
* * * * *
27769704 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
27769743 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
27769783 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
27769823 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
27769863 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
27769903 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
27769943 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
27769967 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:27777754 original size:40 final size:40
Alignment explanation
Indices: 27777656--27777918 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
27777646 TCCTCGTTCA
* * * * *
27777656 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
27777695 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
27777735 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
27777775 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
27777815 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
27777855 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
27777895 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
27777919 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:27782017 original size:52 final size:52
Alignment explanation
Indices: 27781960--27782063 Score: 190
Period size: 52 Copynumber: 2.0 Consensus size: 52
27781950 AGCAGAAAGT
* *
27781960 AAGGGAACAAACTTGACTATAGAGACATCATTGATGCACAAAATAAAACATA
1 AAGGGAACAAACTTGAATACAGAGACATCATTGATGCACAAAATAAAACATA
27782012 AAGGGAACAAACTTGAATACAGAGACATCATTGATGCACAAAATAAAACATA
1 AAGGGAACAAACTTGAATACAGAGACATCATTGATGCACAAAATAAAACATA
27782064 TCGAGAAGTT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.51, C:0.15, G:0.15, T:0.18
Consensus pattern (52 bp):
AAGGGAACAAACTTGAATACAGAGACATCATTGATGCACAAAATAAAACATA
Found at i:27782505 original size:15 final size:15
Alignment explanation
Indices: 27782484--27782518 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
27782474 AAGGCCGAGG
27782484 AAGAAAATACTAAGA
1 AAGAAAATACTAAGA
* *
27782499 TAGAAAATGCTAAGA
1 AAGAAAATACTAAGA
27782514 AAGAA
1 AAGAA
27782519 TCTGTTGACC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.63, C:0.06, G:0.17, T:0.14
Consensus pattern (15 bp):
AAGAAAATACTAAGA
Found at i:27782775 original size:72 final size:72
Alignment explanation
Indices: 27782690--27782836 Score: 231
Period size: 72 Copynumber: 2.0 Consensus size: 72
27782680 ACCTAACTAA
* * *** *
27782690 TTTTTGTACATGGAAAATCCTAAACTAGATAACCTTATTGTCTGTGAAGTTGTTTAATTTTAGGT
1 TTTTTGCACATGGAAAATCCTAAACTAGATAAACTTATTCAATCTGAAGTTGTTTAATTTTAGGT
27782755 GTTCAAT
66 GTTCAAT
*
27782762 TTTTTGCACATGGAAAATCCTAAACTAGATAAACTTATTCAATCTGAAGTTGTTTAGTTTTAGGT
1 TTTTTGCACATGGAAAATCCTAAACTAGATAAACTTATTCAATCTGAAGTTGTTTAATTTTAGGT
27782827 GTTCAAT
66 GTTCAAT
27782834 TTT
1 TTT
27782837 CACCCAACAA
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
72 68 1.00
ACGTcount: A:0.30, C:0.12, G:0.16, T:0.43
Consensus pattern (72 bp):
TTTTTGCACATGGAAAATCCTAAACTAGATAAACTTATTCAATCTGAAGTTGTTTAATTTTAGGT
GTTCAAT
Found at i:27795512 original size:28 final size:28
Alignment explanation
Indices: 27795449--27795714 Score: 453
Period size: 28 Copynumber: 9.5 Consensus size: 28
27795439 ATATTAAGTC
*
27795449 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
27795476 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
27795504 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
27795532 TGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
27795560 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
27795588 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
27795616 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
27795644 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
27795672 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
27795701 CGCACACTTAGTGC
1 CGCACACTTAGTGC
27795715 CAATCTCATG
Statistics
Matches: 228, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
27 22 0.10
28 187 0.82
29 19 0.08
ACGTcount: A:0.34, C:0.26, G:0.12, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:27799537 original size:87 final size:87
Alignment explanation
Indices: 27799389--27799547 Score: 237
Period size: 87 Copynumber: 1.8 Consensus size: 87
27799379 TACCTAATTG
* ** * * *
27799389 TTGCACATGGAAAATCCTAAACTAGATACCCTTATTCTGTCTGAGGTTGTTTAATTTTAGGTTTT
1 TTGCACATGGAAAATCCTAAACTAGATAACCTTATTCAATCTGAAGTTGTTTAATTCTAGGTGTT
27799454 CAATTTTTTGCACATCAAGGTT
66 CAATTTTTTGCACATCAAGGTT
* * *
27799476 TTGCACATGGAAAATCTTAAACTAGATAAGCTTATTCAATGTGAAGTTGTTTAATTCTAGGTGTT
1 TTGCACATGGAAAATCCTAAACTAGATAACCTTATTCAATCTGAAGTTGTTTAATTCTAGGTGTT
27799541 CAATTTT
66 CAATTTT
27799548 CACCCAACAA
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
87 63 1.00
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (87 bp):
TTGCACATGGAAAATCCTAAACTAGATAACCTTATTCAATCTGAAGTTGTTTAATTCTAGGTGTT
CAATTTTTTGCACATCAAGGTT
Found at i:27816038 original size:24 final size:23
Alignment explanation
Indices: 27816011--27816056 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
27816001 TTTGGAGTAT
27816011 TTTGTGTTTAGGTTTTGAGGGTTC
1 TTTGTGTTTAGGTTTTG-GGGTTC
*
27816035 TTTGTTTTTAGGTTTTGGGGTT
1 TTTGTGTTTAGGTTTTGGGGTT
27816057 TAGTTTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.07, C:0.02, G:0.33, T:0.59
Consensus pattern (23 bp):
TTTGTGTTTAGGTTTTGGGGTTC
Found at i:27818650 original size:41 final size:41
Alignment explanation
Indices: 27818568--27818734 Score: 199
Period size: 41 Copynumber: 4.1 Consensus size: 41
27818558 GTACGTAGGA
* * * *
27818568 GTACCGAAGTACAAACAGGGACGTGTCTCTGAAATTCAGGG
1 GTACTGAAGTACAAACAGGGGCATGTATCTGAAATTCAGGG
* * * * *
27818609 GTATTGAAGTACAAACAGGGGCACGTATGTGTAATTTAGGG
1 GTACTGAAGTACAAACAGGGGCATGTATCTGAAATTCAGGG
*
27818650 GTACTGAAGTACAAACAGGGGCTTGTATCTGAAATTCAGGG
1 GTACTGAAGTACAAACAGGGGCATGTATCTGAAATTCAGGG
* * * * *
27818691 GTACTGAAGTAGAAACAAGGGCATGTATGTGCAATTTAGGG
1 GTACTGAAGTACAAACAGGGGCATGTATCTGAAATTCAGGG
27818732 GTA
1 GTA
27818735 TCGAATTACG
Statistics
Matches: 105, Mismatches: 21, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 105 1.00
ACGTcount: A:0.32, C:0.13, G:0.31, T:0.24
Consensus pattern (41 bp):
GTACTGAAGTACAAACAGGGGCATGTATCTGAAATTCAGGG
Found at i:27818713 original size:82 final size:82
Alignment explanation
Indices: 27818563--27818748 Score: 255
Period size: 82 Copynumber: 2.3 Consensus size: 82
27818553 ATAGGGTACG
* * * *
27818563 TAGGAGTACCGAAGTACAAACAGGGACGTGTCTCTGAAATTCAGGGGTATTGAAGTACAAACAGG
1 TAGGGGTACCGAAGTACAAACAGGGACGTGTATCTGAAATTCAGGGGTACTGAAGTACAAACAAG
*
27818628 GGCACGTATGTGTAATT
66 GGCACGTATGTGCAATT
* * * *
27818645 TAGGGGTACTGAAGTACAAACAGGGGCTTGTATCTGAAATTCAGGGGTACTGAAGTAGAAACAAG
1 TAGGGGTACCGAAGTACAAACAGGGACGTGTATCTGAAATTCAGGGGTACTGAAGTACAAACAAG
*
27818710 GGCATGTATGTGCAATT
66 GGCACGTATGTGCAATT
* * *
27818727 TAGGGGTATCGAATTACGAACA
1 TAGGGGTACCGAAGTACAAACA
27818749 AGGGCATATA
Statistics
Matches: 90, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
82 90 1.00
ACGTcount: A:0.33, C:0.13, G:0.30, T:0.24
Consensus pattern (82 bp):
TAGGGGTACCGAAGTACAAACAGGGACGTGTATCTGAAATTCAGGGGTACTGAAGTACAAACAAG
GGCACGTATGTGCAATT
Found at i:27818749 original size:41 final size:41
Alignment explanation
Indices: 27818568--27818769 Score: 192
Period size: 41 Copynumber: 4.9 Consensus size: 41
27818558 GTACGTAGGA
* * * * *
27818568 GTACCGAAGTACAAAC-AGGGACGTGTCTCTGAAATTCAGGG
1 GTACTGAAGTACAAACAAGGG-CATGTATGTGCAATTCAGGG
* * * * *
27818609 GTATTGAAGTACAAACAGGGGCACGTATGTGTAATTTAGGG
1 GTACTGAAGTACAAACAAGGGCATGTATGTGCAATTCAGGG
* * * *
27818650 GTACTGAAGTACAAACAGGGGCTTGTATCTGAAATTCAGGG
1 GTACTGAAGTACAAACAAGGGCATGTATGTGCAATTCAGGG
* *
27818691 GTACTGAAGTAGAAACAAGGGCATGTATGTGCAATTTAGGG
1 GTACTGAAGTACAAACAAGGGCATGTATGTGCAATTCAGGG
* * * *
27818732 GTA-TCGAATTACGAACAAGGGCATATATGAGCAATTCA
1 GTACT-GAAGTACAAACAAGGGCATGTATGTGCAATTCA
27818770 TAGAATAATT
Statistics
Matches: 132, Mismatches: 27, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
40 1 0.01
41 128 0.97
42 3 0.02
ACGTcount: A:0.34, C:0.14, G:0.29, T:0.24
Consensus pattern (41 bp):
GTACTGAAGTACAAACAAGGGCATGTATGTGCAATTCAGGG
Found at i:27819311 original size:13 final size:13
Alignment explanation
Indices: 27819293--27819322 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
27819283 CATCAAACAT
27819293 AAAAAAATCATGC
1 AAAAAAATCATGC
*
27819306 AAAAAAATCATGG
1 AAAAAAATCATGC
27819319 AAAA
1 AAAA
27819323 CCCTAAACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.67, C:0.10, G:0.10, T:0.13
Consensus pattern (13 bp):
AAAAAAATCATGC
Found at i:27826008 original size:41 final size:41
Alignment explanation
Indices: 27825856--27825995 Score: 158
Period size: 41 Copynumber: 3.4 Consensus size: 41
27825846 CAAAGTTACC
* *
27825856 GAAGTATAAATAGGGGCACGTATGTGCAATTCAGGGGTACT
1 GAAGTACAAATAGGGGCACGTATGTGCAATTTAGGGGTACT
* * * *
27825897 -AAGTACAAACAGGGGTATGTATGTGCAATTTAGGGGTACC
1 GAAGTACAAATAGGGGCACGTATGTGCAATTTAGGGGTACT
* * * * *
27825937 GAAGTAGAAACT-GAGGCACGTGTGTGCAATTTAGAGGTAGT
1 GAAGTACAAA-TAGGGGCACGTATGTGCAATTTAGGGGTACT
27825978 GAAGTACAAATAGGGGCA
1 GAAGTACAAATAGGGGCA
27825996 TGAATGTACA
Statistics
Matches: 79, Mismatches: 17, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
40 35 0.44
41 44 0.56
ACGTcount: A:0.34, C:0.11, G:0.32, T:0.23
Consensus pattern (41 bp):
GAAGTACAAATAGGGGCACGTATGTGCAATTTAGGGGTACT
Found at i:27829146 original size:5 final size:5
Alignment explanation
Indices: 27829136--27829178 Score: 68
Period size: 5 Copynumber: 8.6 Consensus size: 5
27829126 ACCTAAGATG
* *
27829136 TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT TGTAT TAAAT TGA
1 TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT TGA
27829179 GTTAAATTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.40, C:0.00, G:0.19, T:0.42
Consensus pattern (5 bp):
TGAAT
Found at i:27829183 original size:10 final size:10
Alignment explanation
Indices: 27829136--27829186 Score: 57
Period size: 10 Copynumber: 5.1 Consensus size: 10
27829126 ACCTAAGATG
*
27829136 TGAATTGAAT
1 TGAATTAAAT
*
27829146 TGAATTGAAT
1 TGAATTAAAT
*
27829156 TGAATTGAAT
1 TGAATTAAAT
*
27829166 TGTATTAAAT
1 TGAATTAAAT
*
27829176 TGAGTTAAAT
1 TGAATTAAAT
27829186 T
1 T
27829187 TACTCGTATA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 37 1.00
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.43
Consensus pattern (10 bp):
TGAATTAAAT
Found at i:27829663 original size:26 final size:24
Alignment explanation
Indices: 27829617--27829691 Score: 69
Period size: 26 Copynumber: 3.0 Consensus size: 24
27829607 GACACACCAC
* *
27829617 AGCTCTTATGAGCGTCTCGATATAT
1 AGCTCTTATGAGCTTCCCGAT-TAT
* *
27829642 AGCTCTTCGTGAGCTTCCCGATTAA
1 AGCTCTT-ATGAGCTTCCCGATTAT
*
27829667 AGGCTCCTTATGAGCTTCCTGATTA
1 A-GCT-CTTATGAGCTTCCCGATTA
27829692 ATGGCTTTTC
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
25 10 0.24
26 28 0.68
27 3 0.07
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.35
Consensus pattern (24 bp):
AGCTCTTATGAGCTTCCCGATTAT
Found at i:27836402 original size:22 final size:21
Alignment explanation
Indices: 27836368--27836412 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
27836358 AATTAAATTA
* *
27836368 TGAATATTTATATGTTTGAAT
1 TGAATATTTATATATATGAAT
*
27836389 TGAATGTTGTATATATATGAAT
1 TGAATATT-TATATATATGAAT
27836411 TG
1 TG
27836413 TGTAATTGCC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.49
Consensus pattern (21 bp):
TGAATATTTATATATATGAAT
Found at i:27836772 original size:25 final size:25
Alignment explanation
Indices: 27836743--27836802 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
27836733 GGCTCTTTGT
** *
27836743 GAGCTTCGTGATTATTGGATCTCCA
1 GAGCTTCCCGATTAATGGATCTCCA
* *
27836768 GAGCTTCCCGATTAATGGCTCTTCA
1 GAGCTTCCCGATTAATGGATCTCCA
*
27836793 GAGCTACCCG
1 GAGCTTCCCG
27836803 TTATTGGCTC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.20, C:0.27, G:0.23, T:0.30
Consensus pattern (25 bp):
GAGCTTCCCGATTAATGGATCTCCA
Found at i:27838023 original size:12 final size:12
Alignment explanation
Indices: 27837985--27838016 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
27837975 TCAGAGAGTT
27837985 ACACGGGTATGG
1 ACACGGGTATGG
*
27837997 ACACAGGTATGG
1 ACACGGGTATGG
27838009 ACACGGGT
1 ACACGGGT
27838017 TGGGACAAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.28, C:0.19, G:0.38, T:0.16
Consensus pattern (12 bp):
ACACGGGTATGG
Found at i:27852617 original size:27 final size:27
Alignment explanation
Indices: 27852586--27852763 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
27852576 TAAATTGTAC
27852586 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
27852613 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
27852639 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
27852667 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
27852695 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
27852722 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
27852749 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
27852764 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:27852700 original size:82 final size:81
Alignment explanation
Indices: 27852587--27852742 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
27852577 AAATTGTACA
* *
27852587 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
27852651 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
27852668 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
27852733 TGCGAGTTGA
65 TGCGAATTGA
27852743 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:27852754 original size:82 final size:81
Alignment explanation
Indices: 27852583--27852763 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
27852573 GATTAAATTG
* *
27852583 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
27852648 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
27852664 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
27852728 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
27852746 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
27852764 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:27854834 original size:72 final size:72
Alignment explanation
Indices: 27854749--27854885 Score: 247
Period size: 72 Copynumber: 1.9 Consensus size: 72
27854739 TAATTTTGGC
** *
27854749 ACATGGAAAATCCTAAACTAGATAACCTTATTCTGTGTGAATTTGTTTAATTTTAGGTGTTCAAT
1 ACATGGAAAATCCTAAACTAGATAACCTTATTCAATGTGAAGTTGTTTAATTTTAGGTGTTCAAT
27854814 ATTTTGT
66 ATTTTGT
27854821 ACATGGAAAATCCTAAACTAGATAACCTTATTCAATGTGAAGTTGTTTAATTTTAGGTGTTCAAT
1 ACATGGAAAATCCTAAACTAGATAACCTTATTCAATGTGAAGTTGTTTAATTTTAGGTGTTCAAT
27854886 TTTCACTCAA
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
72 62 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (72 bp):
ACATGGAAAATCCTAAACTAGATAACCTTATTCAATGTGAAGTTGTTTAATTTTAGGTGTTCAAT
ATTTTGT
Found at i:27858773 original size:41 final size:41
Alignment explanation
Indices: 27858728--27858812 Score: 170
Period size: 41 Copynumber: 2.1 Consensus size: 41
27858718 TAATTTAGTG
27858728 ATATATTTTCAATTAGTACAAAAGAAACATAATTAAATAAC
1 ATATATTTTCAATTAGTACAAAAGAAACATAATTAAATAAC
27858769 ATATATTTTCAATTAGTACAAAAGAAACATAATTAAATAAC
1 ATATATTTTCAATTAGTACAAAAGAAACATAATTAAATAAC
27858810 ATA
1 ATA
27858813 CTCAATGGAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.54, C:0.09, G:0.05, T:0.32
Consensus pattern (41 bp):
ATATATTTTCAATTAGTACAAAAGAAACATAATTAAATAAC
Found at i:27866140 original size:44 final size:44
Alignment explanation
Indices: 27866091--27866174 Score: 132
Period size: 44 Copynumber: 1.9 Consensus size: 44
27866081 AGGAACTAGT
* *
27866091 GCTTTAATCTACTCCACTGCAACTTCAGGGAGATAGGATTGTCG
1 GCTTTAATCTACTCCACTACAACTTCAGGGAGATAAGATTGTCG
* *
27866135 GCTTTAATCTGCTCCACTACAATTTCAGGGAGATAAGATT
1 GCTTTAATCTACTCCACTACAACTTCAGGGAGATAAGATT
27866175 TGCCATCTTC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.31
Consensus pattern (44 bp):
GCTTTAATCTACTCCACTACAACTTCAGGGAGATAAGATTGTCG
Found at i:27866248 original size:44 final size:44
Alignment explanation
Indices: 27866102--27866479 Score: 179
Period size: 44 Copynumber: 8.7 Consensus size: 44
27866092 CTTTAATCTA
* * *
27866102 CTCCACTGCAACTTCAGG-GAGATAGGA-TTGTCGGCT-TTAATCTG
1 CTCCACTGCAACTTCAGGAGAGATAAGACTTG-C--TTATTAGTCTG
* * * * *
27866146 CTCCACTACAATTTCAGG-GAGATAAGATTTGCCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGAGAGATAAGACTTG-CTTATT-AGTCTG
* *
27866191 C-CTCGCTACAACTTCAGGAG-GATAAGACTTGCTTAATTAGTCTG
1 CTC-CACTGCAACTTCAGGAGAGATAAGACTTGCTT-ATTAGTCTG
* * * *
27866235 CTCCACTGCAACTTCAGG-GAGATAAGACTAG-ATGTGA-TCTG
1 CTCCACTGCAACTTCAGGAGAGATAAGACTTGCTTATTAGTCTG
* * * * * *
27866276 CT-CTCTGTAACTTCA-GAGAGATGAGATCTAAGGTT-TTAATC--
1 CTCCACTGCAACTTCAGGAGAGATAAGA-CT-TGCTTATTAGTCTG
* * * *
27866317 CATCCACTGCAACTTCA-GCGAGAT-AGAATTG-TTGGCTTTAATCTG
1 C-TCCACTGCAACTTCAGGAGAGATAAGACTTGCTT---ATTAGTCTG
* *
27866362 CTCCACTGCAACTTCAGG-GAAATAAGATTTGCCATCT-TTAGTCTG
1 CTCCACTGCAACTTCAGGAGAGATAAGACTTG-C-T-TATTAGTCTG
*
27866407 C-CTCGCTGCAACTTCAGGAG-GATAAGACTTGCTTAATTAGTCTG
1 CTC-CACTGCAACTTCAGGAGAGATAAGACTTGCTT-ATTAGTCTG
* *
27866451 CTCCACTGTAACGTCAGG-GAGATAAGACT
1 CTCCACTGCAACTTCAGGAGAGATAAGACT
27866480 AGATGCGATC
Statistics
Matches: 265, Mismatches: 36, Indels: 66
0.72 0.10 0.18
Matches are distributed among these distances:
39 3 0.01
40 20 0.08
41 10 0.04
42 11 0.04
43 31 0.12
44 110 0.42
45 76 0.29
46 2 0.01
48 1 0.00
49 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.29
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGAGAGATAAGACTTGCTTATTAGTCTG
Found at i:27866477 original size:216 final size:217
Alignment explanation
Indices: 27866093--27866490 Score: 681
Period size: 216 Copynumber: 1.8 Consensus size: 217
27866083 GAACTAGTGC
* * * *
27866093 TTTAATCTACTCCACTGCAACTTCAGGGAGATAGGATTGTCGGCTTTAATCTGCTCCACTACAAT
1 TTTAATCCACTCCACTGCAACTTCAGCGAGATAGAATTGTCGGCTTTAATCTGCTCCACTACAAC
*
27866158 TTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCGCTACAACTTCAGGAGGATAAGACTTGC
66 TTCAGGGAAATAAGATTTGCCATCTTCAGTCTGCCTCGCTACAACTTCAGGAGGATAAGACTTGC
* *
27866223 TTAATTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGTGATCTGCTCTCTGTAACT
131 TTAATTAGTCTGCTCCACTGCAACGTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGTAACT
27866288 TCAGAGAGATGAGATCTAAGGT
196 TCAGAGAGATGAGATCTAAGGT
* *
27866310 TTTAATCCA-TCCACTGCAACTTCAGCGAGATAGAATTGTTGGCTTTAATCTGCTCCACTGCAAC
1 TTTAATCCACTCCACTGCAACTTCAGCGAGATAGAATTGTCGGCTTTAATCTGCTCCACTACAAC
* *
27866374 TTCAGGGAAATAAGATTTGCCATCTTTAGTCTGCCTCGCTGCAACTTCAGGAGGATAAGACTTGC
66 TTCAGGGAAATAAGATTTGCCATCTTCAGTCTGCCTCGCTACAACTTCAGGAGGATAAGACTTGC
*
27866439 TTAATTAGTCTGCTCCACTGTAACGTCAGGGAGATAAGACTAGATGCGATCT
131 TTAATTAGTCTGCTCCACTGCAACGTCAGGGAGATAAGACTAGATGCGATCT
27866491 ACTATCGGCT
Statistics
Matches: 169, Mismatches: 12, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
216 161 0.95
217 8 0.05
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (217 bp):
TTTAATCCACTCCACTGCAACTTCAGCGAGATAGAATTGTCGGCTTTAATCTGCTCCACTACAAC
TTCAGGGAAATAAGATTTGCCATCTTCAGTCTGCCTCGCTACAACTTCAGGAGGATAAGACTTGC
TTAATTAGTCTGCTCCACTGCAACGTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGTAACT
TCAGAGAGATGAGATCTAAGGT
Found at i:27866569 original size:45 final size:44
Alignment explanation
Indices: 27866505--27866624 Score: 136
Period size: 45 Copynumber: 2.7 Consensus size: 44
27866495 TCGGCTTTAA
*
27866505 TCTGCTCCACTACAACTTCAGGGAGATAAGAATTGCCAT-CTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGAATTG-CATACTT-AG
* * *
27866550 TCTGCTTCACTGCAACTTCA-GGAGGATAAGACTTGCTTACTTAG
1 TCTGCTCCACTGCAACTTCAGGGA-GATAAGAATTGCATACTTAG
* * *
27866594 TCTACTCCACGGCAACTTCAGGGAAATAAGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA
27866625 CTAGATGCGG
Statistics
Matches: 64, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
44 30 0.47
45 34 0.53
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (44 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGAATTGCATACTTAG
Found at i:27866617 original size:147 final size:147
Alignment explanation
Indices: 27866350--27866633 Score: 460
Period size: 147 Copynumber: 1.9 Consensus size: 147
27866340 TAGAATTGTT
* * * *
27866350 GGCTTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGCCATCTTTAGTCTGCCTCGCTG
1 GGCTTTAATCTGCTCCACTACAACTTCAGGGAAATAAGAATTGCCATCTTCAGTCTGCCTCACTG
* * * *
27866415 CAACTTCAGGAGGATAAGACTTGCTTAATTAGTCTGCTCCACTGTAACGTCAGGGAGATAAGACT
66 CAACTTCAGGAGGATAAGACTTGCTTAATTAGTCTACTCCACGGCAACGTCAGGGAAATAAGACT
27866480 AGATGCGATCTACTATC
131 AGATGCGATCTACTATC
* *
27866497 GGCTTTAATCTGCTCCACTACAACTTCAGGGAGATAAGAATTGCCATCTTCAGTCTGCTTCACTG
1 GGCTTTAATCTGCTCCACTACAACTTCAGGGAAATAAGAATTGCCATCTTCAGTCTGCCTCACTG
* *
27866562 CAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTACTCCACGGCAACTTCAGGGAAATAAGACT
66 CAACTTCAGGAGGATAAGACTTGCTTAATTAGTCTACTCCACGGCAACGTCAGGGAAATAAGACT
27866627 AGATGCG
131 AGATGCG
27866634 GTCTGCTCTC
Statistics
Matches: 125, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
147 125 1.00
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (147 bp):
GGCTTTAATCTGCTCCACTACAACTTCAGGGAAATAAGAATTGCCATCTTCAGTCTGCCTCACTG
CAACTTCAGGAGGATAAGACTTGCTTAATTAGTCTACTCCACGGCAACGTCAGGGAAATAAGACT
AGATGCGATCTACTATC
Found at i:27866625 original size:44 final size:45
Alignment explanation
Indices: 27866517--27866626 Score: 127
Period size: 44 Copynumber: 2.5 Consensus size: 45
27866507 TGCTCCACTA
* * * *
27866517 CAACTTCAGGGAGATAAGAATTGCCATCTTCAGTCTGCTTCACTG
1 CAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTACTCCACGG
*
27866562 CAACTTCA-GGAGGATAAGACTTG-CTTACTT-AGTCTACTCCACGG
1 CAACTTCAGGGA-GATAAGACTTGCCAT-CTTCAGTCTACTCCACGG
*
27866606 CAACTTCAGGGAAATAAGACT
1 CAACTTCAGGGAGATAAGACT
27866627 AGATGCGGTC
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
44 32 0.57
45 24 0.43
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (45 bp):
CAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTACTCCACGG
Found at i:27879014 original size:22 final size:22
Alignment explanation
Indices: 27878989--27879035 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
27878979 GTTCAAAAGG
*
27878989 ATTAAA-TTGGAATTTAAAATAA
1 ATTAAAGTT-GAATTTAAAAAAA
27879011 ATTAAAGGTTGAATTTAAAAAAA
1 ATTAAA-GTTGAATTTAAAAAAA
27879034 AT
1 AT
27879036 AAAAAAACCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 6 0.27
23 14 0.64
24 2 0.09
ACGTcount: A:0.55, C:0.00, G:0.11, T:0.34
Consensus pattern (22 bp):
ATTAAAGTTGAATTTAAAAAAA
Found at i:27880124 original size:12 final size:12
Alignment explanation
Indices: 27880107--27880132 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
27880097 TTGGTGGCTA
27880107 TGGAAATTTCTT
1 TGGAAATTTCTT
27880119 TGGAAATTTCTT
1 TGGAAATTTCTT
27880131 TG
1 TG
27880133 AATTCTAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.08, G:0.19, T:0.50
Consensus pattern (12 bp):
TGGAAATTTCTT
Found at i:27880631 original size:30 final size:31
Alignment explanation
Indices: 27880564--27880622 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
27880554 CACCATTAAA
* *
27880564 ATATTTACACTATTGATCCTTCAAATTTTTC
1 ATATTTACACTATTGACCCCTCAAATTTTTC
*
27880595 ATATTTACA-TTTTGACCCCTCAAATTTT
1 ATATTTACACTATTGACCCCTCAAATTTT
27880623 GAGTATTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 16 0.64
31 9 0.36
ACGTcount: A:0.29, C:0.20, G:0.03, T:0.47
Consensus pattern (31 bp):
ATATTTACACTATTGACCCCTCAAATTTTTC
Found at i:27888503 original size:16 final size:16
Alignment explanation
Indices: 27888484--27888516 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
27888474 TTGGGTCAAT
27888484 TCCCCATTTTTTAATA
1 TCCCCATTTTTTAATA
27888500 TCCCCATTTTTTAATA
1 TCCCCATTTTTTAATA
27888516 T
1 T
27888517 ACTTCTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (16 bp):
TCCCCATTTTTTAATA
Found at i:27889274 original size:27 final size:27
Alignment explanation
Indices: 27889244--27889298 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
27889234 ACATTGGAAG
27889244 TCGATTACACAACTCCTCAACATATGT
1 TCGATTACACAACTCCTCAACATATGT
27889271 TCGATTACACAACTCCTCAACATATGT
1 TCGATTACACAACTCCTCAACATATGT
27889298 T
1 T
27889299 TCAATATTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.33, C:0.29, G:0.07, T:0.31
Consensus pattern (27 bp):
TCGATTACACAACTCCTCAACATATGT
Found at i:27889518 original size:18 final size:19
Alignment explanation
Indices: 27889495--27889534 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
27889485 TTTTTGTCAT
*
27889495 AAATAATTAATTTTTA-TA
1 AAATAATTAAATTTTATTA
27889513 AAATAATTAAATTTTATTA
1 AAATAATTAAATTTTATTA
27889532 AAA
1 AAA
27889535 ATTTGAACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
AAATAATTAAATTTTATTA
Found at i:27893932 original size:8 final size:8
Alignment explanation
Indices: 27893919--27893947 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
27893909 TATATATACT
27893919 AAATAATA
1 AAATAATA
27893927 AAATAATA
1 AAATAATA
27893935 AAATAATA
1 AAATAATA
27893943 AAATA
1 AAATA
27893948 TTATTTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AAATAATA
Found at i:27902313 original size:19 final size:18
Alignment explanation
Indices: 27902272--27902314 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
27902262 AATTTTTGTC
* *
27902272 ATAAAATAATTAATTTTT
1 ATAAAATAACTAAATTTT
27902290 ATAAAATAACTAAATTTT
1 ATAAAATAACTAAATTTT
27902308 ATTAAAA
1 A-TAAAA
27902315 ATTTTAACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (18 bp):
ATAAAATAACTAAATTTT
Found at i:27916674 original size:6 final size:6
Alignment explanation
Indices: 27916663--27916690 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
27916653 AATGTCCAGC
27916663 AAAAGA AAAAGA AAAAGA AAAAGA AAAA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAA
27916691 TAAATACAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:27917934 original size:24 final size:24
Alignment explanation
Indices: 27917888--27917942 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
27917878 TCTTTCTAAA
* * *
27917888 ATATTTGGTATTTATTAATATAAT
1 ATATTTAGTATTTACTAACATAAT
*
27917912 ATATTTAGTATTTACTAGCATAAT
1 ATATTTAGTATTTACTAACATAAT
*
27917936 TTATTTA
1 ATATTTA
27917943 ACCTACGAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.36, C:0.04, G:0.07, T:0.53
Consensus pattern (24 bp):
ATATTTAGTATTTACTAACATAAT
Found at i:27920979 original size:47 final size:47
Alignment explanation
Indices: 27920913--27921574 Score: 1261
Period size: 47 Copynumber: 14.1 Consensus size: 47
27920903 GAAATGATAG
27920913 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
27920960 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
27921007 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
27921054 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
27921101 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
27921148 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
27921195 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
27921242 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
27921289 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
27921336 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
27921383 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
27921430 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
27921477 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * *
27921524 CAAGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
27921571 TAAG
1 TAAG
27921575 TCCCGAAGGG
Statistics
Matches: 607, Mismatches: 8, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 607 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:27921749 original size:37 final size:37
Alignment explanation
Indices: 27921693--27921771 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
27921683 CCGAGCTCTA
* * *
27921693 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
27921730 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
27921767 AAGAC
1 AAGAC
27921772 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:27924770 original size:155 final size:155
Alignment explanation
Indices: 27924488--27924799 Score: 606
Period size: 155 Copynumber: 2.0 Consensus size: 155
27924478 GCGATATTTC
*
27924488 ATGCCACATAAAATAAAACCAATAGTGAAGCAAAATTTGAGTTATTTCAGATGCTATTGACAGAA
1 ATGCCACATAAAATAAAACCAATAGTGAAGAAAAATTTGAGTTATTTCAGATGCTATTGACAGAA
27924553 TCATCATACTTTCAATGGTAGTAAAACCTAACCTGTTTTAAATTTTACCATAATTTGCAACGTAA
66 TCATCATACTTTCAATGGTAGTAAAACCTAACCTGTTTTAAATTTTACCATAATTTGCAACGTAA
27924618 TAAATTAAATATCCATTATTTCCTT
131 TAAATTAAATATCCATTATTTCCTT
27924643 ATGCCACATAAAATAAAACCAATAGTGAAGAAAAATTTGAGTTATTTCAGATGCTATTGACAGAA
1 ATGCCACATAAAATAAAACCAATAGTGAAGAAAAATTTGAGTTATTTCAGATGCTATTGACAGAA
*
27924708 TCATCATACTTTCAATGGTAGTACAACCTAACCTGTTTTAAATTTTACCATAATTTGCAACGTAA
66 TCATCATACTTTCAATGGTAGTAAAACCTAACCTGTTTTAAATTTTACCATAATTTGCAACGTAA
27924773 TAAATTAAATATCCATTATTTCCTT
131 TAAATTAAATATCCATTATTTCCTT
27924798 AT
1 AT
27924800 AGGTTTTTGG
Statistics
Matches: 155, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
155 155 1.00
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.34
Consensus pattern (155 bp):
ATGCCACATAAAATAAAACCAATAGTGAAGAAAAATTTGAGTTATTTCAGATGCTATTGACAGAA
TCATCATACTTTCAATGGTAGTAAAACCTAACCTGTTTTAAATTTTACCATAATTTGCAACGTAA
TAAATTAAATATCCATTATTTCCTT
Found at i:27924940 original size:12 final size:12
Alignment explanation
Indices: 27924923--27924947 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27924913 CTAGTAAAGC
27924923 ATTCATTTTTTA
1 ATTCATTTTTTA
27924935 ATTCATTTTTTA
1 ATTCATTTTTTA
27924947 A
1 A
27924948 CTTTTTTGCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (12 bp):
ATTCATTTTTTA
Found at i:27934316 original size:28 final size:28
Alignment explanation
Indices: 27934274--27934328 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
27934264 GTATCAGTAC
* *
27934274 AGTGTGCGCCTTAGCCCATTACAGTAAT
1 AGTGTGCGCCCTAGCCCAATACAGTAAT
*
27934302 AGTGTGGGCCCTAGCCCAATACAGTAA
1 AGTGTGCGCCCTAGCCCAATACAGTAA
27934329 CCAGTATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.24
Consensus pattern (28 bp):
AGTGTGCGCCCTAGCCCAATACAGTAAT
Found at i:27934467 original size:26 final size:26
Alignment explanation
Indices: 27934438--27934514 Score: 100
Period size: 26 Copynumber: 3.0 Consensus size: 26
27934428 ACACCGATAT
*
27934438 CGCAGCAAAACTGCCAGTAATAATAA
1 CGCAGCAAAACTGCCAGTAACAATAA
* * *
27934464 CGCAGCAAAACTACTAGTAACAGTAA
1 CGCAGCAAAACTGCCAGTAACAATAA
* *
27934490 TGCAGCAAAGCTGCCAGTAACAATA
1 CGCAGCAAAACTGCCAGTAACAATA
27934515 TATGTGGCAA
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.44, C:0.23, G:0.17, T:0.16
Consensus pattern (26 bp):
CGCAGCAAAACTGCCAGTAACAATAA
Found at i:27934710 original size:27 final size:27
Alignment explanation
Indices: 27934680--27934996 Score: 156
Period size: 27 Copynumber: 11.7 Consensus size: 27
27934670 TTTCAACTCC
**
27934680 TAGGGGTATAACGATCATTTTACCCTA
1 TAGGGGTATTTCGATCATTTTACCCTA
* * *
27934707 TAGGGGTATTTTGGTTATTTTACCCT-
1 TAGGGGTATTTCGATCATTTTACCCTA
27934733 TCAGGGGTATTTC-AGTCATTTTACCCTA
1 T-AGGGGTATTTCGA-TCATTTTACCCTA
*
27934761 T-GGGGTTATTTC-AGTCATTTTA-CCTT
1 TAGGGG-TATTTCGA-TCATTTTACCCTA
* * *
27934787 TCAAGGGTATTTCGGTCATTTTATCCT-
1 T-AGGGGTATTTCGATCATTTTACCCTA
* * * *
27934814 TCAAGGGTATTTTGGTTATTTTACCCT-
1 T-AGGGGTATTTCGATCATTTTACCCTA
* *
27934841 TCGAGGGTATTTCGGTCATTTTACCCT-
1 TAG-GGGTATTTCGATCATTTTACCCTA
* * *
27934868 TTGAGGGTACTTCTG-TCATTTTACCCTT
1 TAG-GGGTATTTC-GATCATTTTACCCTA
* * * *
27934896 TAAGGGCATTTCGGTCATTTTACTCT-
1 TAGGGGTATTTCGATCATTTTACCCTA
* * * *
27934922 TTGAGGGTATTTCGGTCATTTTA-CATT
1 TAG-GGGTATTTCGATCATTTTACCCTA
* * *
27934949 TCAAGGGTGTTTCGACCATTTTACCCT-
1 T-AGGGGTATTTCGATCATTTTACCCTA
*
27934976 TTGAGGGTATTTC-AGTCATTT
1 TAG-GGGTATTTCGA-TCATTT
27934997 GTGGCCTCTA
Statistics
Matches: 232, Mismatches: 40, Indels: 36
0.75 0.13 0.12
Matches are distributed among these distances:
26 13 0.06
27 208 0.90
28 11 0.05
ACGTcount: A:0.19, C:0.18, G:0.20, T:0.44
Consensus pattern (27 bp):
TAGGGGTATTTCGATCATTTTACCCTA
Found at i:27934835 original size:81 final size:80
Alignment explanation
Indices: 27934710--27934996 Score: 326
Period size: 81 Copynumber: 3.5 Consensus size: 80
27934700 TACCCTATAG
* * * * *
27934710 GGGTATTTTGGTTATTTTACCCTTCAGGGGTATTTCAGTCATTTTACCCTATG-GGGTTATTTCA
1 GGGTATTTCGGTCATTTTACCCTTCAAGGGTATTTCGGTCATTTTACCCT-TGAGGG-TATTTCG
27934774 GTCATTTTACCTTTCAA
64 GTCATTTTACCTTTCAA
* * *
27934791 GGGTATTTCGGTCATTTTATCCTTCAAGGGTATTTTGGTTATTTTACCCTTCGAGGGTATTTCGG
1 GGGTATTTCGGTCATTTTACCCTTCAAGGGTATTTCGGTCATTTTACCCTT-GAGGGTATTTCGG
*
27934856 TCATTTTACCCTTT-GA
65 TCATTTTA-CCTTTCAA
* * * * *
27934872 GGGTACTTCTGTCATTTTACCCTTTAAGGGCATTTCGGTCATTTTACTCTTTGAGGGTATTTCGG
1 GGGTATTTCGGTCATTTTACCCTTCAAGGGTATTTCGGTCATTTTAC-CCTTGAGGGTATTTCGG
*
27934937 TCATTTTACATTTCAA
65 TCATTTTACCTTTCAA
* ** ** *
27934953 GGGTGTTTCGACCATTTTACCCTTTGAGGGTATTTCAGTCATTT
1 GGGTATTTCGGTCATTTTACCCTTCAAGGGTATTTCGGTCATTT
27934997 GTGGCCTCTA
Statistics
Matches: 174, Mismatches: 27, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
80 5 0.03
81 158 0.91
82 11 0.06
ACGTcount: A:0.17, C:0.18, G:0.20, T:0.45
Consensus pattern (80 bp):
GGGTATTTCGGTCATTTTACCCTTCAAGGGTATTTCGGTCATTTTACCCTTGAGGGTATTTCGGT
CATTTTACCTTTCAA
Found at i:27934978 original size:54 final size:54
Alignment explanation
Indices: 27934694--27934996 Score: 342
Period size: 54 Copynumber: 5.6 Consensus size: 54
27934684 GGTATAACGA
* * * * * *
27934694 TCATTTTACCCTAT-AGGGGTATTTTGGTTATTTTACCCTTCAGGGGTATTTCAG
1 TCATTTTACCCTTTGA-GGGTATTTCGGTCATTTTACCTTTCAAGGGTATTTCGG
* *
27934748 TCATTTTACCCTATG-GGGTTATTTCAGTCATTTTACCTTTCAAGGGTATTTCGG
1 TCATTTTACCCTTTGAGGG-TATTTCGGTCATTTTACCTTTCAAGGGTATTTCGG
* ** * * * *
27934802 TCATTTTATCCTTCAAGGGTATTTTGGTTATTTTACCCTTCGAGGGTATTTCGG
1 TCATTTTACCCTTTGAGGGTATTTCGGTCATTTTACCTTTCAAGGGTATTTCGG
* * *
27934856 TCATTTTACCCTTTGAGGGTACTTCTGTCATTTTACCCTTT-AAGGGCATTTCGG
1 TCATTTTACCCTTTGAGGGTATTTCGGTCATTTTA-CCTTTCAAGGGTATTTCGG
* * * *
27934910 TCATTTTACTCTTTGAGGGTATTTCGGTCATTTTACATTTCAAGGGTGTTTCGA
1 TCATTTTACCCTTTGAGGGTATTTCGGTCATTTTACCTTTCAAGGGTATTTCGG
* *
27934964 CCATTTTACCCTTTGAGGGTATTTCAGTCATTT
1 TCATTTTACCCTTTGAGGGTATTTCGGTCATTT
27934997 GTGGCCTCTA
Statistics
Matches: 209, Mismatches: 35, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
53 7 0.03
54 195 0.93
55 7 0.03
ACGTcount: A:0.18, C:0.18, G:0.19, T:0.45
Consensus pattern (54 bp):
TCATTTTACCCTTTGAGGGTATTTCGGTCATTTTACCTTTCAAGGGTATTTCGG
Found at i:27937569 original size:28 final size:28
Alignment explanation
Indices: 27937527--27937581 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
27937517 GTATCACTAC
* *
27937527 AGTGTGGGCCATAGCCCATTACTGTAAT
1 AGTGTGGGCCATAGCCCAATACAGTAAT
*
27937555 AGTGTGGGCCCTAGCCCAATACAGTAA
1 AGTGTGGGCCATAGCCCAATACAGTAA
27937582 CCAGTACAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (28 bp):
AGTGTGGGCCATAGCCCAATACAGTAAT
Found at i:27937716 original size:26 final size:26
Alignment explanation
Indices: 27937687--27937737 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
27937677 CCAACACACC
* *
27937687 AATATCGCAGCAAAGCTGCCAGTAAT
1 AATAACGCAGCAAAGCTGACAGTAAT
27937713 AATAACGCAGCAAAGCTGACAGTAA
1 AATAACGCAGCAAAGCTGACAGTAA
27937738 CAGTATATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.43, C:0.22, G:0.20, T:0.16
Consensus pattern (26 bp):
AATAACGCAGCAAAGCTGACAGTAAT
Found at i:27937965 original size:27 final size:27
Alignment explanation
Indices: 27937921--27938250 Score: 380
Period size: 27 Copynumber: 12.3 Consensus size: 27
27937911 GGGTATAGCA
* *
27937921 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTTTGAGGGTATTTCG
*
27937948 GTCATTTTACCTTTTG-GGGTATTTCG
1 GTCATTTTACCCTTTGAGGGTATTTCG
*
27937974 GTCATTTTACACTTT-AGGGGTATTTCG
1 GTCATTTTACCCTTTGA-GGGTATTTCG
* * *
27938001 GGCATTTTACCCTTTG-GGAATATTTTG
1 GTCATTTTACCCTTTGAGG-GTATTTCG
*
27938028 GTCATTTTACCCTTTAAGGGTATTTCG
1 GTCATTTTACCCTTTGAGGGTATTTCG
* *
27938055 GTCATTTTACCCTTCGAGGGTATTTTG
1 GTCATTTTACCCTTTGAGGGTATTTCG
* * *
27938082 GTTATTTTACCCTTCGGGGGTATTTCG
1 GTCATTTTACCCTTTGAGGGTATTTCG
** * *
27938109 GTCATTTTACCCTTCAAGTGTATTTTG
1 GTCATTTTACCCTTTGAGGGTATTTCG
27938136 GTCATTTTA-CCTTTCGAGGGTATTTCG
1 GTCATTTTACCCTTT-GAGGGTATTTCG
* **
27938163 GTCATTTTACCTTTTGAGGGTATTTTA
1 GTCATTTTACCCTTTGAGGGTATTTCG
*
27938190 GTCATTTTACCATTTGAGGGTATTTCG
1 GTCATTTTACCCTTTGAGGGTATTTCG
* * *
27938217 ATCATTTTACCCTTCGAGGGTATTTTG
1 GTCATTTTACCCTTTGAGGGTATTTCG
*
27938244 ATCATTT
1 GTCATTT
27938251 GTGGCCTATT
Statistics
Matches: 259, Mismatches: 37, Indels: 14
0.84 0.12 0.05
Matches are distributed among these distances:
26 29 0.11
27 224 0.86
28 6 0.02
ACGTcount: A:0.17, C:0.17, G:0.21, T:0.46
Consensus pattern (27 bp):
GTCATTTTACCCTTTGAGGGTATTTCG
Found at i:27945454 original size:27 final size:27
Alignment explanation
Indices: 27945424--27945503 Score: 99
Period size: 27 Copynumber: 3.0 Consensus size: 27
27945414 TTTCATCTTC
**
27945424 TAGGGGTATAACGGTCATTTTACCCTA
1 TAGGGGTATTTCGGTCATTTTACCCTA
* *
27945451 TAGGGGTATTTCAGTAATTTTA-CCTA
1 TAGGGGTATTTCGGTCATTTTACCCTA
*
27945477 TCGAGGGTATTTCGGTCATTTTACCCT
1 TAG-GGGTATTTCGGTCATTTTACCCT
27945504 GCGGGGGTAT
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
26 6 0.14
27 35 0.80
28 3 0.07
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.39
Consensus pattern (27 bp):
TAGGGGTATTTCGGTCATTTTACCCTA
Found at i:27945511 original size:27 final size:27
Alignment explanation
Indices: 27945426--27945592 Score: 97
Period size: 27 Copynumber: 6.2 Consensus size: 27
27945416 TCATCTTCTA
** **
27945426 GGGGTATAACGGTCATTTTACCCTATA
1 GGGGTATTTCGGTCATTTTACCCTACG
* *
27945453 GGGGTATTTCAGTAATTTTA-CCTATCG
1 GGGGTATTTCGGTCATTTTACCCTA-CG
* *
27945480 AGGGTATTTCGGTCATTTTACCCTGCG
1 GGGGTATTTCGGTCATTTTACCCTACG
* * * **
27945507 GGGGTATTTTGATAATTTTA-CCTATTT
1 GGGGTATTTCGGTCATTTTACCCTA-CG
* * ** *
27945534 AGGTTATTTCTATAATTTTACCC-ATCG
1 GGGGTATTTCGGTCATTTTACCCTA-CG
* * *
27945561 AGGGTATTTTGATCATTTTACCCTACG
1 GGGGTATTTCGGTCATTTTACCCTACG
27945588 GGGGT
1 GGGGT
27945593 CTTTATGCAG
Statistics
Matches: 107, Mismatches: 28, Indels: 10
0.74 0.19 0.07
Matches are distributed among these distances:
26 7 0.07
27 94 0.88
28 6 0.06
ACGTcount: A:0.22, C:0.16, G:0.22, T:0.41
Consensus pattern (27 bp):
GGGGTATTTCGGTCATTTTACCCTACG
Found at i:27945542 original size:54 final size:53
Alignment explanation
Indices: 27945435--27945582 Score: 154
Period size: 54 Copynumber: 2.7 Consensus size: 53
27945425 AGGGGTATAA
** *
27945435 CGGTCATTTTACCCTATAGGGGTA-TTTCAGTAATTTTACCTATCGAGGGTATTT
1 CGGTCATTTTACCCT-CGGGGGTATTTTGA-TAATTTTACCTATCGAGGGTATTT
** *
27945489 CGGTCATTTTACCCTGCGGGGGTATTTTGATAATTTTACCTATTTAGGTTATTT
1 CGGTCATTTTACCCT-CGGGGGTATTTTGATAATTTTACCTATCGAGGGTATTT
** * * *
27945543 CTATAATTTTACCCATCGAGGGTATTTTGATCATTTTACC
1 CGGTCATTTTACCC-TCGGGGGTATTTTGATAATTTTACC
27945583 CTACGGGGGT
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
54 75 0.94
55 5 0.06
ACGTcount: A:0.22, C:0.17, G:0.18, T:0.43
Consensus pattern (53 bp):
CGGTCATTTTACCCTCGGGGGTATTTTGATAATTTTACCTATCGAGGGTATTT
Found at i:27962510 original size:61 final size:61
Alignment explanation
Indices: 27962433--27962548 Score: 153
Period size: 61 Copynumber: 1.9 Consensus size: 61
27962423 ATACATTTTA
* * * * *
27962433 TATATATATGTGGTTCGAATATAGGT-TACAAATTCTTTGAGCTGAATTTAATGTTTTAAAC
1 TATACATATGAGGTTCGAATATA-ATATACAAATTCTTTGAGCTAAACTTAATGTTTTAAAC
* *
27962494 TATACATATGAGGTTCGAATGTAATATACAAGTTCTTTGAGCTAAACTTAATGTT
1 TATACATATGAGGTTCGAATATAATATACAAATTCTTTGAGCTAAACTTAATGTT
27962549 ATGAATTATA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
60 1 0.02
61 46 0.98
ACGTcount: A:0.34, C:0.09, G:0.16, T:0.41
Consensus pattern (61 bp):
TATACATATGAGGTTCGAATATAATATACAAATTCTTTGAGCTAAACTTAATGTTTTAAAC
Found at i:27962721 original size:41 final size:41
Alignment explanation
Indices: 27962676--27962772 Score: 160
Period size: 41 Copynumber: 2.4 Consensus size: 41
27962666 GCTCTGTGCT
*
27962676 TAGCAGGCTTAATGCCAGTGAAATAATTT-AGACTTTACGTC
1 TAGCAGGCTTAATGCCAGTGAAAT-ATTTCAGACTTTACATC
*
27962717 TAGCAGGCTTAATGCCAGTGAAATATTTCTGACTTTACATC
1 TAGCAGGCTTAATGCCAGTGAAATATTTCAGACTTTACATC
27962758 TAGCAGGCTTAATGC
1 TAGCAGGCTTAATGC
27962773 TGGTGTTCTG
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
40 4 0.08
41 49 0.92
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.32
Consensus pattern (41 bp):
TAGCAGGCTTAATGCCAGTGAAATATTTCAGACTTTACATC
Found at i:27968419 original size:20 final size:21
Alignment explanation
Indices: 27968381--27968419 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
27968371 CTATCACGAG
*
27968381 TATCGATACTTAGGGTAGAAA
1 TATCGATACTTACGGTAGAAA
27968402 TATCGATACTT-CGGTAGA
1 TATCGATACTTACGGTAGA
27968420 GGTATTGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.31
Consensus pattern (21 bp):
TATCGATACTTACGGTAGAAA
Found at i:27974211 original size:87 final size:87
Alignment explanation
Indices: 27974065--27974225 Score: 268
Period size: 87 Copynumber: 1.9 Consensus size: 87
27974055 TTGTTGAGTG
* * *
27974065 AAAATTGAACTCCTAAAATTAAACAACTTCACATTGAATAAGGTTATCTACTTTAGGATTTTCCA
1 AAAATTGAACACCTAAAATTAAACAACTTCACACTAAATAAGGTTATCTACTTTAGGATTTTCCA
*
27974130 TTTGCAAAAACTTGATGTGCAC
66 TGTGCAAAAACTTGATGTGCAC
* *
27974152 AAAATTGAACACCTAAAATTAAACAACTTCAGACTAAATAAGGTTATCTAGTTTAGGATTTTCCA
1 AAAATTGAACACCTAAAATTAAACAACTTCACACTAAATAAGGTTATCTACTTTAGGATTTTCCA
27974217 TGTGCAAAA
66 TGTGCAAAA
27974226 TTTAGGTAGG
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 68 1.00
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (87 bp):
AAAATTGAACACCTAAAATTAAACAACTTCACACTAAATAAGGTTATCTACTTTAGGATTTTCCA
TGTGCAAAAACTTGATGTGCAC
Found at i:27976311 original size:24 final size:24
Alignment explanation
Indices: 27976284--27976337 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
27976274 CATAAAAGCA
*
27976284 TTCCTTTTTAAATTTTTTGTTGGT
1 TTCCTTTTTAAATTTTTTGTTAGT
*
27976308 TTCCTTTTTAATTTTTTTGTTAGT
1 TTCCTTTTTAAATTTTTTGTTAGT
*
27976332 GTCCTT
1 TTCCTT
27976338 CATTGCTTGC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.11, C:0.11, G:0.11, T:0.67
Consensus pattern (24 bp):
TTCCTTTTTAAATTTTTTGTTAGT
Found at i:27990053 original size:12 final size:12
Alignment explanation
Indices: 27990036--27990060 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27990026 TAAATTGATA
27990036 TAAAAAATATAT
1 TAAAAAATATAT
27990048 TAAAAAATATAT
1 TAAAAAATATAT
27990060 T
1 T
27990061 CGTCAATCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
TAAAAAATATAT
Found at i:27991904 original size:63 final size:64
Alignment explanation
Indices: 27991830--27991958 Score: 242
Period size: 63 Copynumber: 2.0 Consensus size: 64
27991820 TTACTCCAAC
*
27991830 TATGTTATGGAAGAGTTACATAGGTTTCTGCTTCAGGCTTGTCATGTTATTAACCATTTGG-TT
1 TATGTCATGGAAGAGTTACATAGGTTTCTGCTTCAGGCTTGTCATGTTATTAACCATTTGGCTT
27991893 TATGTCATGGAAGAGTTACATAGGTTTCTGCTTCAGGCTTGTCATGTTATTAACCATTTGGCTT
1 TATGTCATGGAAGAGTTACATAGGTTTCTGCTTCAGGCTTGTCATGTTATTAACCATTTGGCTT
27991957 TA
1 TA
27991959 ACCTGCGAGG
Statistics
Matches: 64, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
63 60 0.94
64 4 0.06
ACGTcount: A:0.22, C:0.14, G:0.22, T:0.42
Consensus pattern (64 bp):
TATGTCATGGAAGAGTTACATAGGTTTCTGCTTCAGGCTTGTCATGTTATTAACCATTTGGCTT
Found at i:27994915 original size:2 final size:2
Alignment explanation
Indices: 27994908--27994937 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
27994898 TTGTGTTCTT
27994908 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
27994938 GTGGCTGGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:27995054 original size:43 final size:43
Alignment explanation
Indices: 27994993--27995078 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
27994983 GCAAAAGAAA
27994993 GAGAATCAAGTTTGTGGCATCTATGTTTGTTTCTTATCCTTGT
1 GAGAATCAAGTTTGTGGCATCTATGTTTGTTTCTTATCCTTGT
27995036 GAGAATCAAGTTTGTGGCATCTATGTTTGTTTCTTATCCTTGT
1 GAGAATCAAGTTTGTGGCATCTATGTTTGTTTCTTATCCTTGT
27995079 TACCTTAAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.19, C:0.14, G:0.21, T:0.47
Consensus pattern (43 bp):
GAGAATCAAGTTTGTGGCATCTATGTTTGTTTCTTATCCTTGT
Found at i:27999592 original size:5 final size:5
Alignment explanation
Indices: 27999582--27999613 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
27999572 CTTGGACAGA
27999582 TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TT
1 TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TT
27999614 NTGGAAGGGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTCTT
Found at i:28001826 original size:30 final size:30
Alignment explanation
Indices: 28001754--28001921 Score: 146
Period size: 30 Copynumber: 5.7 Consensus size: 30
28001744 TGCTTCGACT
*
28001754 ATTG-ACTATGAAAAAGGATGGTGATGACC
1 ATTGAACTATGAAAAGGGATGGTGATGACC
* * *
28001783 A-TCAACAATGAAAAGGAATGGTGATGACC
1 ATTGAACTATGAAAAGGGATGGTGATGACC
* *
28001812 ATTGAACTATGAAAAGGGATGGCT--TCGGCT
1 ATTGAACTATGAAAAGGGATGG-TGAT-GACC
* * *
28001842 ATCGATCTATGAAAAGGGATGGTGACGACC
1 ATTGAACTATGAAAAGGGATGGTGATGACC
* * *
28001872 ATTGAACAATGAAAAGGGATTGTGAGGACC
1 ATTGAACTATGAAAAGGGATGGTGATGACC
** * *
28001902 ATCAAATTATGAAAATGGAT
1 ATTGAACTATGAAAAGGGAT
28001922 AGCTTCAGCT
Statistics
Matches: 109, Mismatches: 24, Indels: 11
0.76 0.17 0.08
Matches are distributed among these distances:
28 1 0.01
29 26 0.24
30 81 0.74
31 1 0.01
ACGTcount: A:0.39, C:0.12, G:0.27, T:0.23
Consensus pattern (30 bp):
ATTGAACTATGAAAAGGGATGGTGATGACC
Found at i:28001913 original size:60 final size:60
Alignment explanation
Indices: 28001761--28001921 Score: 168
Period size: 60 Copynumber: 2.7 Consensus size: 60
28001751 ACTATTGACT
* * * * *
28001761 ATGAAAAAGGATGGTGATGACCATCAACA--ATGAAAAGGAATGGTGATGACCATTGAACT
1 ATGAAAAGGGATGGTGAGGACCATCAA-ATTATGAAAAGGGATGGTGACGACCATTGAACA
** * *
28001820 ATGAAAAGGGATGGCTTCGG-CTATC-GATCTATGAAAAGGGATGGTGACGACCATTGAACA
1 ATGAAAAGGGATGG-TGAGGACCATCAAAT-TATGAAAAGGGATGGTGACGACCATTGAACA
* *
28001880 ATGAAAAGGGATTGTGAGGACCATCAAATTATGAAAATGGAT
1 ATGAAAAGGGATGGTGAGGACCATCAAATTATGAAAAGGGAT
28001922 AGCTTCAGCT
Statistics
Matches: 81, Mismatches: 15, Indels: 11
0.76 0.14 0.10
Matches are distributed among these distances:
57 1 0.01
59 20 0.25
60 58 0.72
61 2 0.02
ACGTcount: A:0.39, C:0.12, G:0.27, T:0.22
Consensus pattern (60 bp):
ATGAAAAGGGATGGTGAGGACCATCAAATTATGAAAAGGGATGGTGACGACCATTGAACA
Found at i:28001913 original size:90 final size:88
Alignment explanation
Indices: 28001745--28001951 Score: 261
Period size: 90 Copynumber: 2.3 Consensus size: 88
28001735 AAAACAGATT
* * * * *
28001745 GCTTCGACTATTGACTATGAAAAAGGATGGTGATGACCATCAACAATGAAAAGGAATGGTGATGA
1 GCTTCGGCTATCGACTATGAAAAGGGATGGTGACGACCATCAACAATGAAAAGGAATGGTGAGGA
** *
28001810 CCATTGAACTATGAAAAGGGATG
66 CCATCAAACTATGAAAAGGGATA
* * *
28001833 GCTTCGGCTATCGATCTATGAAAAGGGATGGTGACGACCATTGAACAATGAAAAGGGATTGTGAG
1 GCTTCGGCTATCGA-CTATGAAAAGGGATGGTGACGACCA-TCAACAATGAAAAGGAATGGTGAG
* *
28001898 GACCATCAAATTATGAAAATGGATA
64 GACCATCAAACTATGAAAAGGGATA
*
28001923 GCTTCAGCTATCGAACTATGAAAAGGGAT
1 GCTTCGGCTATCG-ACTATGAAAAGGGAT
28001952 AACTTCTGTT
Statistics
Matches: 102, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
88 12 0.12
89 23 0.23
90 66 0.65
91 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (88 bp):
GCTTCGGCTATCGACTATGAAAAGGGATGGTGACGACCATCAACAATGAAAAGGAATGGTGAGGA
CCATCAAACTATGAAAAGGGATA
Found at i:28001943 original size:30 final size:30
Alignment explanation
Indices: 28001909--28001981 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 30
28001899 ACCATCAAAT
* *
28001909 TATGAAAATGGATAGCTTCAGCTATCGAAC
1 TATGAAAAGGGATAACTTCAGCTATCGAAC
* * *
28001939 TATGAAAAGGGATAACTTCTGTTATCGAAT
1 TATGAAAAGGGATAACTTCAGCTATCGAAC
*
28001969 TACGAAAAGGGAT
1 TATGAAAAGGGAT
28001982 TGTCAACCAT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.27
Consensus pattern (30 bp):
TATGAAAAGGGATAACTTCAGCTATCGAAC
Found at i:28004532 original size:25 final size:23
Alignment explanation
Indices: 28004489--28004539 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 23
28004479 TAACATCATT
*
28004489 AATATCTAATTTTTGAAATGTTAAA
1 AATATCTAATTATTGAAA--TTAAA
28004514 AATATCTAAATTATT-AAATTAAA
1 AATATCT-AATTATTGAAATTAAA
28004537 AAT
1 AAT
28004540 TTTTCGTGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 8 0.33
25 10 0.42
26 6 0.25
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (23 bp):
AATATCTAATTATTGAAATTAAA
Found at i:28008474 original size:27 final size:26
Alignment explanation
Indices: 28008432--28008521 Score: 76
Period size: 27 Copynumber: 3.4 Consensus size: 26
28008422 TTAGCATTGT
28008432 TTTTAAAAAGTG-TTGTGAAAAAGTAC
1 TTTTAAAAAGTGTTTGTGAAAAA-TAC
* * **
28008458 TTTTAAGAAGTGTTTGTAAAAAATTGT
1 TTTTAAAAAGTGTTTGTGAAAAA-TAC
* * *
28008485 TTTTGAGAAGTGCTTT-TGAGAAATAC
1 TTTTAAAAAGTG-TTTGTGAAAAATAC
28008511 TTTTAAAAAGT
1 TTTTAAAAAGT
28008522 TTGGTTTAAT
Statistics
Matches: 50, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
26 21 0.42
27 26 0.52
28 3 0.06
ACGTcount: A:0.38, C:0.03, G:0.19, T:0.40
Consensus pattern (26 bp):
TTTTAAAAAGTGTTTGTGAAAAATAC
Found at i:28008748 original size:24 final size:23
Alignment explanation
Indices: 28008720--28008771 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
28008710 TGAAATATAA
*
28008720 ATTAAATATTTTTAAATAATTA-AT
1 ATTAAATATTTAT-AA-AATTAGAT
*
28008744 ATTAATTATTTATAAAATTAGAT
1 ATTAAATATTTATAAAATTAGAT
28008767 ATTAA
1 ATTAA
28008772 CACATTTGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 5 0.20
23 9 0.36
24 11 0.44
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (23 bp):
ATTAAATATTTATAAAATTAGAT
Found at i:28010813 original size:21 final size:22
Alignment explanation
Indices: 28010789--28010830 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
28010779 TTTTCCTATT
28010789 ATTATTATTATTTT-AATTTTC
1 ATTATTATTATTTTAAATTTTC
*
28010810 ATTATTTTTATTTTAAATTTT
1 ATTATTATTATTTTAAATTTT
28010831 AAATTTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (22 bp):
ATTATTATTATTTTAAATTTTC
Found at i:28012791 original size:38 final size:37
Alignment explanation
Indices: 28012741--28012924 Score: 140
Period size: 38 Copynumber: 4.7 Consensus size: 37
28012731 ATAGTATTAT
*
28012741 ATATTATG-ATTTTATTAAATTCATATAAGAATATTTA
1 ATATTAAGAATTTTATTAAATT-ATATAAGAATATTTA
**** *
28012778 ATATTAAGAATTTTATTAAATTATATATTTTTATTAAATT
1 ATATTAAGAATTTTATTAAATTATATAAGAATATT---TA
* * * *
28012818 ATATTTAATAATAATTATTTTAAATTATATTA-TATAGTATTA
1 ATA-TTAAGAAT--TT-TATTAAATTATATAAGAATA-T-TTA
*
28012860 TATATTATG-ATTTTATTAAATTCATATAAGAATATTTA
1 -ATATTAAGAATTTTATTAAATT-ATATAAGAATATTTA
28012898 ATATTAAGAATTTTATTAAATTATATA
1 ATATTAAGAATTTTATTAAATTATATA
28012925 TTTTTATTAA
Statistics
Matches: 115, Mismatches: 18, Indels: 28
0.71 0.11 0.17
Matches are distributed among these distances:
37 28 0.24
38 37 0.32
39 8 0.07
40 7 0.06
41 9 0.08
42 4 0.03
43 8 0.07
44 13 0.11
45 1 0.01
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (37 bp):
ATATTAAGAATTTTATTAAATTATATAAGAATATTTA
Found at i:28012809 original size:18 final size:18
Alignment explanation
Indices: 28012788--28012941 Score: 76
Period size: 18 Copynumber: 8.9 Consensus size: 18
28012778 ATATTAAGAA
28012788 TTTTATTAAATTATATAT
1 TTTTATTAAATTATATAT
28012806 TTTTATTAAA-T-TATA-
1 TTTTATTAAATTATATAT
* *
28012821 -TTTAAT-AATAAT-TAT
1 TTTTATTAAATTATATAT
* * *
28012836 TTTAAATTATATTATATAG
1 TTT-TATTAAATTATATAT
* * *
28012855 TATTA-TATATTAT-GA-
1 TTTTATTAAATTATATAT
*
28012870 TTTTATTAAATTCATATAA
1 TTTTATTAAATT-ATATAT
*** * *
28012889 GAATATTTAATATTA-AGAA
1 TTTTA-TTAA-ATTATATAT
28012908 TTTTATTAAATTATATAT
1 TTTTATTAAATTATATAT
28012926 TTTTATTAAATTATAT
1 TTTTATTAAATTATAT
28012942 TTAATAATAA
Statistics
Matches: 100, Mismatches: 22, Indels: 28
0.67 0.15 0.19
Matches are distributed among these distances:
13 2 0.02
14 7 0.07
15 5 0.05
16 12 0.12
17 17 0.17
18 38 0.38
19 11 0.11
20 5 0.05
21 3 0.03
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.55
Consensus pattern (18 bp):
TTTTATTAAATTATATAT
Found at i:28012862 original size:120 final size:120
Alignment explanation
Indices: 28012723--28013443 Score: 1203
Period size: 120 Copynumber: 6.0 Consensus size: 120
28012713 ATTATTAATC
* * * * * *
28012723 TATATTATATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAA
1 TATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAA
* *
28012788 TTTTATTAAATTATATATTTTTATTA-AATTATATTTAATAATAATTATTTTAAAT
66 TTTTATTAAATTATATATTTTAATTATAA-TATATTTAATAATAATTATGTTAAAT
* * * * * *
28012843 TATATTATATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAA
1 TATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAA
*
28012908 TTTTATTAAATTATATATTTTTATTA-AATTATATTTAATAATAATTATGTTAAAT
66 TTTTATTAAATTATATATTTTAATTATAA-TATATTTAATAATAATTATGTTAAAT
*
28012963 TATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAATAA
1 TATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAA
* *
28013028 TATTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATT
66 TTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAAT
*
28013083 TATATTTTATAGTATCCTATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAA
1 TATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAA
*
28013148 TTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATT
66 TTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAAT
28013203 TATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAA
1 TATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAA
*
28013268 TTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATT
66 TTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAAT
28013323 TATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAA
1 TATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAA
*
28013388 TTTTATTAAATTATATATTTTAATTATAATATATTTAATAATTATTATGTTTAAAT
66 TTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATG-TTAAAT
28013444 ATGATTAAAT
Statistics
Matches: 582, Mismatches: 17, Indels: 3
0.97 0.03 0.00
Matches are distributed among these distances:
120 575 0.99
121 7 0.01
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.51
Consensus pattern (120 bp):
TATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAA
TTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAAT
Found at i:28013045 original size:15 final size:13
Alignment explanation
Indices: 28013036--28013091 Score: 51
Period size: 15 Copynumber: 4.1 Consensus size: 13
28013026 AATATTATTA
28013036 AATTATATATTTT
1 AATTATATATTTT
28013049 AATTATAATATATTT
1 AATTAT-ATAT-TTT
* *
28013064 AATAATAATTATGTT
1 AATTAT-A-TATTTT
28013079 AATT-TATATTTT
1 AATTATATATTTT
28013091 A
1 A
28013092 TAGTATCCTA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
12 6 0.17
13 7 0.19
14 5 0.14
15 15 0.42
16 3 0.08
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (13 bp):
AATTATATATTTT
Found at i:28013061 original size:16 final size:16
Alignment explanation
Indices: 28013040--28013082 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
28013030 TTATTAAATT
28013040 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
28013056 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
28013071 AT-TATGTTAATT
1 ATATATTTTAATT
28013083 TATATTTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 2 0.09
15 16 0.70
16 5 0.22
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:28013186 original size:15 final size:15
Alignment explanation
Indices: 28013151--28013202 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
28013141 TTAAGAATTT
*
28013151 TATTAAATTAT-ATA
1 TATTTAATTATAATA
28013165 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
28013179 TATTTAATAATAAT-
1 TATTTAATTATAATA
28013193 TATGTTAATT
1 TAT-TTAATT
28013203 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:28013306 original size:15 final size:15
Alignment explanation
Indices: 28013271--28013322 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
28013261 TTAAGAATTT
*
28013271 TATTAAATTAT-ATA
1 TATTTAATTATAATA
28013285 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
28013299 TATTTAATAATAAT-
1 TATTTAATTATAATA
28013313 TATGTTAATT
1 TAT-TTAATT
28013323 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:28013667 original size:45 final size:43
Alignment explanation
Indices: 28013567--28013676 Score: 120
Period size: 45 Copynumber: 2.6 Consensus size: 43
28013557 TTTTCCATTA
28013567 TGCTATTACACCTCTATTC----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCATTACATTCAACCAAACACAAGAT
* * ***
28013606 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATT-CATTACATTCAACCAAACACAAGA-T
28013651 TGCTATTACACCTCTATTTCATTACA
1 TGCTATTACACCTCTA-TTCATTACA
28013677 CCTCTAATCC
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 22 0.39
46 2 0.04
ACGTcount: A:0.32, C:0.28, G:0.05, T:0.35
Consensus pattern (43 bp):
TGCTATTACACCTCTATTCATTACATTCAACCAAACACAAGAT
Done.