Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 211 of 343
Found at i:69388399 original size:99 final size:99
Alignment explanation
Indices: 69388228--69388409 Score: 310
Period size: 99 Copynumber: 1.8 Consensus size: 99
69388218 ATCTATAGTG
* * * * * *
69388228 AGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACTTGTACCGGATAATTGGTCGCATGTGTAGT
1 AGGTCACGTGTATAGTACTAAGTGCAGGCCACTACATGTACCGAATAATTGGTCGAATGTGTAGT
69388293 ACTAAGTGCAGGCTACTACATGTATCAGATGGTT
66 ACTAAGTGCAGGCTACTACATGTATCAGATGGTT
69388327 AGGTCACGTGTATAGTACTAAGTGCAGGCCACTACATGTACCGAATAATTGGTCGAATGTGTAGT
1 AGGTCACGTGTATAGTACTAAGTGCAGGCCACTACATGTACCGAATAATTGGTCGAATGTGTAGT
69388392 ACTAAGTGCAGGCTACTA
66 ACTAAGTGCAGGCTACTA
69388410 TGTGTACCAA
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
99 77 1.00
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.29
Consensus pattern (99 bp):
AGGTCACGTGTATAGTACTAAGTGCAGGCCACTACATGTACCGAATAATTGGTCGAATGTGTAGT
ACTAAGTGCAGGCTACTACATGTATCAGATGGTT
Found at i:69393605 original size:19 final size:19
Alignment explanation
Indices: 69393581--69393620 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
69393571 AAGGAGAAAA
*
69393581 ATCTTACTATGTTCGTAAC
1 ATCTTACTATGTTCATAAC
*
69393600 ATCTTACTTTGTTCATAAC
1 ATCTTACTATGTTCATAAC
69393619 AT
1 AT
69393621 TTGCACCACC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.20, G:0.07, T:0.45
Consensus pattern (19 bp):
ATCTTACTATGTTCATAAC
Found at i:69393837 original size:9 final size:9
Alignment explanation
Indices: 69393823--69393854 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
69393813 AGAGAGCTTC
69393823 TTTTTAAAG
1 TTTTTAAAG
69393832 TTTTTAAAG
1 TTTTTAAAG
69393841 TTTTTAAAG
1 TTTTTAAAG
69393850 TTTTT
1 TTTTT
69393855 TTTTAAGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.62
Consensus pattern (9 bp):
TTTTTAAAG
Found at i:69395070 original size:127 final size:127
Alignment explanation
Indices: 69394921--69395152 Score: 365
Period size: 127 Copynumber: 1.8 Consensus size: 127
69394911 ACCTTTCGAG
* *
69394921 AACAAGACAATATTTTGTGTTTGGAAATTCAAGAAATTGTACCCTAATGTGCTGGGTTTTGATTT
1 AACAAGACAATATTTTGTGTTTGGAAATTCAAGAAATCGTACCCTAATGTGCTGGGTTTCGATTT
*
69394986 TCCGTTTGACCAAATAACCAAATACCCTTTTAAAATTTCATCCATGTTTTCTTCAATTAAAA
66 ACCGTTTGACCAAATAACCAAATACCCTTTTAAAATTTCATCCATGTTTTCTTCAATTAAAA
* ** * *
69395048 AACAAGGCAATATTTTGTGTTTGGAAATTTGAGAAATCGTGCCCTAATGTGCTGGGTTTCGGTTT
1 AACAAGACAATATTTTGTGTTTGGAAATTCAAGAAATCGTACCCTAATGTGCTGGGTTTCGATTT
* * *
69395113 ACTGTTTGACCAAATAACCGAATATCCTTTTAAAATTTCA
66 ACCGTTTGACCAAATAACCAAATACCCTTTTAAAATTTCA
69395153 ATGCATGCGT
Statistics
Matches: 94, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
127 94 1.00
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (127 bp):
AACAAGACAATATTTTGTGTTTGGAAATTCAAGAAATCGTACCCTAATGTGCTGGGTTTCGATTT
ACCGTTTGACCAAATAACCAAATACCCTTTTAAAATTTCATCCATGTTTTCTTCAATTAAAA
Found at i:69398387 original size:19 final size:19
Alignment explanation
Indices: 69398363--69398407 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
69398353 GACGCCTTTT
* *
69398363 TGCATT-CATTTCATGCATC
1 TGCATTACATTACAT-CATA
69398382 TGCATTACATTACATCATA
1 TGCATTACATTACATCATA
69398401 TGCATTA
1 TGCATTA
69398408 AAGTTCATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (19 bp):
TGCATTACATTACATCATA
Found at i:69406600 original size:46 final size:46
Alignment explanation
Indices: 69406513--69406600 Score: 122
Period size: 46 Copynumber: 1.9 Consensus size: 46
69406503 TGAAGAAGCC
* * * *
69406513 ACAAATCCTATACCCGTGAGTTGCAGTGGGATAGATTGAAGATGGT
1 ACAAATCCTATACCCCTGAGTTGCAATAGGATAGATAGAAGATGGT
* *
69406559 ACAAATCCTATACCCCTGAGTTGTAATAGGATGGATAGAAGA
1 ACAAATCCTATACCCCTGAGTTGCAATAGGATAGATAGAAGA
69406601 AACCATAAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 36 1.00
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (46 bp):
ACAAATCCTATACCCCTGAGTTGCAATAGGATAGATAGAAGATGGT
Found at i:69407300 original size:43 final size:43
Alignment explanation
Indices: 69407003--69407786 Score: 254
Period size: 43 Copynumber: 17.7 Consensus size: 43
69406993 TAATGGCAAA
* *
69407003 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-TCCACTAAA-
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGT----TAAAG
* * * *
69407048 CCTTATCTCTCTG-AGTTGCAATGAAGCA-AGTTGAAGTTAAAG
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGA-CTGAAGTTAAAG
* * ** * *
69407090 TCTTATCTCCCTAAAAATGCAGTGGAGCAGACCGAAGATAGTGAA-
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAG-T--TAAAG
* * * *
69407135 TCTT-T-TC-CTTAAGTTGCAATGGAACAGATTGAAGCTATAAACAG
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAG-T-T-AA-AG
* * * * *
69407179 ATCTTGTGTCTCTGAAGTTGCAGTTGAGTAGA-TCATAG-TAAA-
1 -TCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGA-AGTTAAAG
* * **
69407221 CCTTATCTCTCTGAAGTTGTAGTGGAGCAGGTTGAAGTTAAAG
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGTTAAAG
* *
69407264 TCTTATCTTTCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAA-
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGTTA---AAG
** * *
69407309 TCCTT-TC-C-CTGAAGTTGCAGTGGAATAGATTAAAGCTATAAATAAACAG
1 T-CTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAG---T---T-AA-AG
* * * * * *
69407358 ATCTTATCTATCTAAAGTTGCAATAGAGCAGA-TCATAG-CAAA-
1 -TCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGA-AGTTAAAG
* * * * **
69407400 CCTTATCTCCCTGAAGTTGTAGTGGAGTAGGTTGAAGTTAAAG
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGTTAAAG
* * * *
69407443 TCTTATCTCCCTGAAGTTGCAATGGAGTAGACTGAAGATAGTGAA-
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAG-T--TAAAG
* * *
69407488 TCTTTTC-CT-TGAAGTTGCAGTGGAACAGATTGAAGCTATAAATAAACAG
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAG---T---T-AA-AG
* * * *
69407537 ATCTTATCTCTCTGAAGTTGCAGTAGAACAGA-TCATAG-CAAA-
1 -TCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGA-AGTTAAAG
* * * **
69407579 -CATTATCTC-CTTAAAGTTCCAATGGAGCAGGTTGAAGTTAAAG
1 TC-TTATCTCTC-TGAAGTTGCAGTGGAGCAGACTGAAGTTAAAG
* * * * *
69407622 TCTTATCCCCCTGAAGTTGTAGTGGAACAGACTGAAGATAGCAAG
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGTTA--AAG
* * *
69407667 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGTTA--AAG
* * * * * *
69407712 CCTTATCCCCCTGAAGTTGCAGTAGAGCATACTGAAGATGGCAAA-
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAG-T--TAAAG
* *
69407757 CCTTATCTCTCTAAAGTTGCAGTGGAGCAG
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAG
69407787 GTTAAAGTTA
Statistics
Matches: 555, Mismatches: 119, Indels: 130
0.69 0.15 0.16
Matches are distributed among these distances:
40 2 0.00
41 78 0.14
42 48 0.09
43 160 0.29
44 31 0.06
45 134 0.24
46 16 0.03
47 6 0.01
48 21 0.04
49 4 0.01
50 10 0.02
51 6 0.01
52 39 0.07
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (43 bp):
TCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGTTAAAG
Found at i:69407416 original size:179 final size:179
Alignment explanation
Indices: 69406961--69407796 Score: 860
Period size: 179 Copynumber: 4.7 Consensus size: 179
69406951 AATCCCATAC
* * * ** * *
69406961 CCCTGAAGTTGCAGTGGGACGGATTGAAGTTAT-AAT-GGCAAATCTTATCTCCCTGAAGTTGCA
1 CCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATAAACAGATCTTATCTCTCTGAAGTTGCA
* * * * *
69407024 GTGGAGCAGATTGAATCCA-CTAAACCTTATCTCTCTG-AGTTGCAATGAAGCAAGTTGAAGTTA
66 GTAGAGCAGA-T-CAT--AGC-AAACCTTATCTCCCTGAAGTTGCAATGGAGCAGGTTGAAGTTA
* ** * *
69407087 AAGTCTTATCTCCCTAAAAATGCAGTGGAGCAGACCGAAGATAGTGAAT-CTTT
126 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCCTTT
* * * * *
69407140 TCCTTAAGTTGCAATGGAACAGATTGAAGC--T--ATAAACAGATCTTGTGTCTCTGAAGTTGCA
1 CCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATAAACAGATCTTATCTCTCTGAAGTTGCA
* * * * * *
69407201 GTTGAGTAGATCATAGTAAACCTTATCTCTCTGAAGTTGTAGTGGAGCAGGTTGAAGTTAAAGTC
66 GTAGAGCAGATCATAGCAAACCTTATCTCCCTGAAGTTGCAATGGAGCAGGTTGAAGTTAAAGTC
**
69407266 TTATCTTTCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCCTTT
131 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCCTTT
* * * *
69407315 CCCTGAAGTTGCAGTGGAATAGATTAAAGCTATAAATAAACAGATCTTATCTATCTAAAGTTGCA
1 CCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATAAACAGATCTTATCTCTCTGAAGTTGCA
* * * *
69407380 ATAGAGCAGATCATAGCAAACCTTATCTCCCTGAAGTTGTAGTGGAGTAGGTTGAAGTTAAAGTC
66 GTAGAGCAGATCATAGCAAACCTTATCTCCCTGAAGTTGCAATGGAGCAGGTTGAAGTTAAAGTC
* * * *
69407445 TTATCTCCCTGAAGTTGCAATGGAGTAGACTGAAGATAGTGAATCTTTT
131 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCCTTT
*
69407494 CCTTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATAAACAGATCTTATCTCTCTGAAGTTGCA
1 CCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATAAACAGATCTTATCTCTCTGAAGTTGCA
* * * * *
69407559 GTAGAACAGATCATAGCAAACATTATCTCCTTAAAGTTCCAATGGAGCAGGTTGAAGTTAAAGTC
66 GTAGAGCAGATCATAGCAAACCTTATCTCCCTGAAGTTGCAATGGAGCAGGTTGAAGTTAAAGTC
* * * *
69407624 TTATCCCCCTGAAGTTGTAGTGGAACAGACTGAAGATAGC-AAGTCTTATCT
131 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAA-TCCT-T-T
* * ** * *
69407675 CCCTGAAGTTGCAGTGGAGCAGACTGAAG--AT-AGCAAAC----CTTATCCCCCTGAAGTTGCA
1 CCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATAAACAGATCTTATCTCTCTGAAGTTGCA
** * * * * *
69407733 GTAGAGCATACTGAAGATGGCAAACCTTATCTCTCTAAAGTTGCAGTGGAGCAGGTTAAAGTTA
66 GTAGAGC--A--GATCATAGCAAACCTTATCTCCCTGAAGTTGCAATGGAGCAGGTTGAAGTTA
69407797 CCAATTCTTA
Statistics
Matches: 557, Mismatches: 85, Indels: 31
0.83 0.13 0.05
Matches are distributed among these distances:
173 17 0.03
174 88 0.16
175 31 0.06
176 4 0.01
177 31 0.06
178 50 0.09
179 308 0.55
180 1 0.00
181 27 0.05
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (179 bp):
CCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATAAACAGATCTTATCTCTCTGAAGTTGCA
GTAGAGCAGATCATAGCAAACCTTATCTCCCTGAAGTTGCAATGGAGCAGGTTGAAGTTAAAGTC
TTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCCTTT
Found at i:69407683 original size:45 final size:45
Alignment explanation
Indices: 69407623--69407786 Score: 229
Period size: 45 Copynumber: 3.6 Consensus size: 45
69407613 AAGTTAAAGT
* * **
69407623 CTTATCCCCCTGAAGTTGTAGTGGAACAGACTGAAGATAGCAAGT
1 CTTATCCCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAAC
*
69407668 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAAC
1 CTTATCCCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAAC
* * *
69407713 CTTATCCCCCTGAAGTTGCAGTAGAGCATACTGAAGATGGCAAAC
1 CTTATCCCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAAC
* * *
69407758 CTTATCTCTCTAAAGTTGCAGTGGAGCAG
1 CTTATCCCCCTGAAGTTGCAGTGGAGCAG
69407787 GTTAAAGTTA
Statistics
Matches: 105, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 105 1.00
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (45 bp):
CTTATCCCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAAC
Found at i:69407819 original size:90 final size:88
Alignment explanation
Indices: 69407537--69407809 Score: 277
Period size: 90 Copynumber: 3.1 Consensus size: 88
69407527 AAATAAACAG
* * * * *
69407537 ATCTTATCTCTCTGAAGTTGCAGTAGAACAGA-T---CATAGCAAACATTATCTCCTTAAAGTTC
1 ATCTTATCCCCCTGAAGTTGCAGTAGAACAGACTGAAGATAGCAAACCTTATCTCC-TAAAGTTG
*
69407598 CAATGGAGCAGGTTGAAGTTA-AA
65 CAGTGGAGCAGGTTGAAGTTACAA
* * * ** *
69407621 GTCTTATCCCCCTGAAGTTGTAGTGGAACAGACTGAAGATAGCAAGTCTTATCTCCCTGAAGTTG
1 ATCTTATCCCCCTGAAGTTGCAGTAGAACAGACTGAAGATAGCAAACCTTATCT-CCTAAAGTTG
** *
69407686 CAGTGGAGCAGACTGAAGATAGCAA
65 CAGTGGAGCAGGTTGAAGTTA-CAA
* * * *
69407711 ACCTTATCCCCCTGAAGTTGCAGTAGAGCATACTGAAGATGGCAAACCTTATCTCTCTAAAGTTG
1 ATCTTATCCCCCTGAAGTTGCAGTAGAACAGACTGAAGATAGCAAACCTTATCTC-CTAAAGTTG
*
69407776 CAGTGGAGCAGGTTAAAGTTACCAA
65 CAGTGGAGCAGGTTGAAGTTA-CAA
*
69407801 TTCTTATCC
1 ATCTTATCC
69407810 TCTTTAAGTT
Statistics
Matches: 149, Mismatches: 32, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
84 27 0.18
85 1 0.01
88 36 0.24
89 3 0.02
90 82 0.55
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (88 bp):
ATCTTATCCCCCTGAAGTTGCAGTAGAACAGACTGAAGATAGCAAACCTTATCTCCTAAAGTTGC
AGTGGAGCAGGTTGAAGTTACAA
Found at i:69410124 original size:127 final size:127
Alignment explanation
Indices: 69409898--69410129 Score: 349
Period size: 127 Copynumber: 1.8 Consensus size: 127
69409888 TAACCTCTCG
* *
69409898 AGAACAAGGTAATATTTCGTGTTTGGAAATTCGAGAAATCGTACCCTAACGTGCTGGGTTTCGAT
1 AGAACAAGGCAATATTTCGTGTTTGGAAATTCGAGAAATCGTACCCTAACGTGCTGGATTTCGAT
* *
69409963 TTTTCATTTGACCAAATGACCAAATACCCTTTTAAAATTTTGTCTGTGTTTTCTTCAATTAA
66 TTCTCATTTGACCAAATAACCAAATACCCTTTTAAAATTTTGTCTGTGTTTTCTTCAATTAA
* * *
69410025 AGAACAAGGCAATATTTCGTGTTTGGAAATTTGAGAAATTGTTCCCTAACGTGCTGGATTTCGAT
1 AGAACAAGGCAATATTTCGTGTTTGGAAATTCGAGAAATCGTACCCTAACGTGCTGGATTTCGAT
* ** *
69410090 TTACT-GTTTGACCAAATAACTGAATATCCTTTTAAAATTT
66 TT-CTCATTTGACCAAATAACCAAATACCCTTTTAAAATTT
69410130 CAATGCATGA
Statistics
Matches: 93, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
127 92 0.99
128 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.38
Consensus pattern (127 bp):
AGAACAAGGCAATATTTCGTGTTTGGAAATTCGAGAAATCGTACCCTAACGTGCTGGATTTCGAT
TTCTCATTTGACCAAATAACCAAATACCCTTTTAAAATTTTGTCTGTGTTTTCTTCAATTAA
Found at i:69431070 original size:31 final size:32
Alignment explanation
Indices: 69431017--69431076 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 32
69431007 AACAATAATA
69431017 ACTGTTTCAGTTCCGAAATTTGAAAACAAGTG
1 ACTGTTTCAGTTCCGAAATTTGAAAACAAGTG
* *
69431049 ACTGTTTC-GTTTCTAAATTTGAAAACAA
1 ACTGTTTCAGTTCCGAAATTTGAAAACAA
69431077 ATAAGATTGG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 18 0.69
32 8 0.31
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (32 bp):
ACTGTTTCAGTTCCGAAATTTGAAAACAAGTG
Found at i:69435037 original size:15 final size:15
Alignment explanation
Indices: 69435017--69435049 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
69435007 ACTCCATTTT
69435017 ATTTATATTAGGATA
1 ATTTATATTAGGATA
69435032 ATTTATATTAGGATA
1 ATTTATATTAGGATA
69435047 ATT
1 ATT
69435050 ATTAGGATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (15 bp):
ATTTATATTAGGATA
Found at i:69438803 original size:16 final size:17
Alignment explanation
Indices: 69438778--69438832 Score: 62
Period size: 16 Copynumber: 3.3 Consensus size: 17
69438768 GCAACCCAAC
69438778 TTTTACTTTTA-TTTTA
1 TTTTACTTTTATTTTTA
*
69438794 TTTTATTTTTATTTTTA
1 TTTTACTTTTATTTTTA
69438811 -TTTA-TTTTATCTTATTA
1 TTTTACTTTTAT-TT-TTA
69438828 TTTTA
1 TTTTA
69438833 TATTAATTCT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
15 6 0.18
16 16 0.47
17 8 0.24
18 4 0.12
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTACTTTTATTTTTA
Found at i:69438833 original size:5 final size:5
Alignment explanation
Indices: 69438778--69438826 Score: 55
Period size: 5 Copynumber: 9.4 Consensus size: 5
69438768 GCAACCCAAC
*
69438778 TTTTA CTTTTA TTTTA TTTTA TTTTTA TTTT- TATTTA TTTTA TCTTA
1 TTTTA -TTTTA TTTTA TTTTA -TTTTA TTTTA T-TTTA TTTTA TTTTA
69438825 TT
1 TT
69438827 ATTTTATATT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
4 1 0.03
5 26 0.68
6 11 0.29
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:69440296 original size:15 final size:15
Alignment explanation
Indices: 69440276--69440308 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
69440266 ACTCCATTTT
69440276 ATTTATATTAGGATA
1 ATTTATATTAGGATA
69440291 ATTTATATTAGGATA
1 ATTTATATTAGGATA
69440306 ATT
1 ATT
69440309 ATTAGGATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (15 bp):
ATTTATATTAGGATA
Found at i:69441113 original size:17 final size:19
Alignment explanation
Indices: 69441077--69441114 Score: 62
Period size: 17 Copynumber: 2.1 Consensus size: 19
69441067 TTATTTTTCC
69441077 TTATTTCAATTTCTGCAAT
1 TTATTTCAATTTCTGCAAT
69441096 TTATTT-AATTTC-GCAAT
1 TTATTTCAATTTCTGCAAT
69441113 TT
1 TT
69441115 CAATTCACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.37
18 6 0.32
19 6 0.32
ACGTcount: A:0.26, C:0.13, G:0.05, T:0.55
Consensus pattern (19 bp):
TTATTTCAATTTCTGCAAT
Found at i:69450666 original size:16 final size:16
Alignment explanation
Indices: 69450645--69450692 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
69450635 GCCCGGCCCG
69450645 ATTTTAATATTAAATT
1 ATTTTAATATTAAATT
* **
69450661 ATTTTAAAATTATTTT
1 ATTTTAATATTAAATT
*
69450677 ATTTTTAATTTTAAAT
1 A-TTTTAATATTAAAT
69450693 AACTTTAGTA
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
16 14 0.58
17 10 0.42
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
ATTTTAATATTAAATT
Found at i:69450912 original size:19 final size:20
Alignment explanation
Indices: 69450884--69450922 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
69450874 TCCCATTATT
69450884 TATTTATTTTT-TGTTTTAA
1 TATTTATTTTTATGTTTTAA
*
69450903 TATTTGTTTTTATGTTTTAA
1 TATTTATTTTTATGTTTTAA
69450923 ATGTATTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.72
Consensus pattern (20 bp):
TATTTATTTTTATGTTTTAA
Found at i:69450940 original size:25 final size:23
Alignment explanation
Indices: 69450903--69450948 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
69450893 TTTGTTTTAA
*
69450903 TATTTGTTTTTATGTTTTAAATG
1 TATTTGTTTTTATATTTTAAATG
69450926 TATTTGATTTATTATATTTTAAA
1 TATTTG-TTT-TTATATTTTAAA
69450949 GTTTTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 3 0.15
25 11 0.55
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (23 bp):
TATTTGTTTTTATATTTTAAATG
Found at i:69452896 original size:10 final size:10
Alignment explanation
Indices: 69452881--69452910 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
69452871 GTTTTGCTTT
69452881 TTTTAATTTA
1 TTTTAATTTA
69452891 TTTTAATTTA
1 TTTTAATTTA
*
69452901 TTTTATTTTA
1 TTTTAATTTA
69452911 ACTATTTTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (10 bp):
TTTTAATTTA
Found at i:69452900 original size:15 final size:15
Alignment explanation
Indices: 69452882--69452911 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
69452872 TTTTGCTTTT
69452882 TTTAATTTATTTTAA
1 TTTAATTTATTTTAA
*
69452897 TTTATTTTATTTTAA
1 TTTAATTTATTTTAA
69452912 CTATTTTAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTAATTTATTTTAA
Found at i:69453402 original size:17 final size:17
Alignment explanation
Indices: 69453380--69453418 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
69453370 TATAATTAAT
* *
69453380 TTTAAATTTTTAATATA
1 TTTAAAATTGTAATATA
69453397 TTTAAAATTGTAATATA
1 TTTAAAATTGTAATATA
*
69453414 CTTAA
1 TTTAA
69453419 TATATATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (17 bp):
TTTAAAATTGTAATATA
Found at i:69453479 original size:26 final size:26
Alignment explanation
Indices: 69453450--69453502 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
69453440 GACAGAAAAG
69453450 ATTTTCTT-AATATATTAAACATTTTA
1 ATTTTCTTAAATATATTAAA-ATTTTA
*
69453476 ATTTTTTTAAATATATTAAAATTTTA
1 ATTTTCTTAAATATATTAAAATTTTA
69453502 A
1 A
69453503 ATATGTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 14 0.56
27 11 0.44
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.55
Consensus pattern (26 bp):
ATTTTCTTAAATATATTAAAATTTTA
Found at i:69453502 original size:17 final size:17
Alignment explanation
Indices: 69453480--69453512 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
69453470 ATTTTAATTT
69453480 TTTTAAATATATTAAAA
1 TTTTAAATATATTAAAA
*
69453497 TTTTAAATATGTTAAA
1 TTTTAAATATATTAAA
69453513 GAAAATGTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (17 bp):
TTTTAAATATATTAAAA
Found at i:69453558 original size:17 final size:16
Alignment explanation
Indices: 69453536--69453593 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 16
69453526 ATAACCAATT
69453536 TTAAAATTTTAATATA
1 TTAAAATTTTAATATA
*
69453552 CTTAAAATATTAAAATATA
1 -TTAAAAT-TT-TAATATA
*
69453571 TTAAAATTTTGAACATA
1 TTAAAATTTT-AATATA
69453588 TTAAAA
1 TTAAAA
69453594 AAAATTTAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
17 20 0.57
18 9 0.26
19 6 0.17
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.41
Consensus pattern (16 bp):
TTAAAATTTTAATATA
Found at i:69456649 original size:13 final size:12
Alignment explanation
Indices: 69456622--69456646 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
69456612 TTACTCTTTA
69456622 TAATTTTTATTT
1 TAATTTTTATTT
69456634 TAATTTTTATTT
1 TAATTTTTATTT
69456646 T
1 T
69456647 TAAGATTTAA
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TAATTTTTATTT
Found at i:69456845 original size:28 final size:28
Alignment explanation
Indices: 69456797--69456852 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
69456787 CATTATAATA
69456797 AATATTAATTTAATAAAAT-AATTTTAAC
1 AATATTAA-TTAATAAAATAAATTTTAAC
69456825 AATATTAA-TAATTAAATATAAATTTTAA
1 AATATTAATTAA-TAAA-ATAAATTTTAA
69456853 AATCTAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
26 3 0.12
27 4 0.16
28 10 0.40
29 8 0.32
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (28 bp):
AATATTAATTAATAAAATAAATTTTAAC
Found at i:69460858 original size:31 final size:32
Alignment explanation
Indices: 69460812--69460873 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
69460802 CCAGCAATAA
*
69460812 TGACTGTTTCAGTTCCCAAATCTAAAAACAAG
1 TGACTATTTCAGTTCCCAAATCTAAAAACAAG
* *
69460844 TGACTATTTC-GTTCCCAAATTTGAAAACAA
1 TGACTATTTCAGTTCCCAAATCTAAAAACAA
69460874 ATAAGGTTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 18 0.67
32 9 0.33
ACGTcount: A:0.37, C:0.21, G:0.11, T:0.31
Consensus pattern (32 bp):
TGACTATTTCAGTTCCCAAATCTAAAAACAAG
Found at i:69465955 original size:38 final size:38
Alignment explanation
Indices: 69465904--69465990 Score: 156
Period size: 38 Copynumber: 2.2 Consensus size: 38
69465894 TGGGGTGAGC
69465904 TTAACAAGCTCAGTGTGAGACTACACGAGTATTAAGCA
1 TTAACAAGCTCAGTGTGAGACTACACGAGTATTAAGCA
69465942 TTAACAAGCTCAGTGTGAGACTACACGAGTATTAAGCA
1 TTAACAAGCTCAGTGTGAGACTACACGAGTATTAAGCA
69465980 TTCATACAAGC
1 TT-A-ACAAGC
69465991 AATTTCATAG
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
38 40 0.85
39 1 0.02
40 6 0.13
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.24
Consensus pattern (38 bp):
TTAACAAGCTCAGTGTGAGACTACACGAGTATTAAGCA
Found at i:69478727 original size:10 final size:10
Alignment explanation
Indices: 69478710--69478774 Score: 50
Period size: 10 Copynumber: 6.8 Consensus size: 10
69478700 ACTTTTCTTA
69478710 ATTT-TTATT
1 ATTTATTATT
69478719 ATTTATTA-T
1 ATTTATTATT
*
69478728 -TTTATT-TC
1 ATTTATTATT
*
69478736 ATTTTATTAGT
1 A-TTTATTATT
69478747 ATTTATTATT
1 ATTTATTATT
*
69478757 -TTATTTTATT
1 ATT-TATTATT
69478767 ATTTATTA
1 ATTTATTA
69478775 CTTTATTTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 13
0.69 0.10 0.21
Matches are distributed among these distances:
8 6 0.14
9 7 0.16
10 27 0.63
11 3 0.07
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.71
Consensus pattern (10 bp):
ATTTATTATT
Found at i:69478764 original size:13 final size:13
Alignment explanation
Indices: 69478720--69478770 Score: 59
Period size: 13 Copynumber: 3.8 Consensus size: 13
69478710 ATTTTTATTA
69478720 TTTATTATTTTAT
1 TTTATTATTTTAT
*
69478733 TTCATT-TTATTAGT
1 TTTATTATT-TTA-T
69478747 ATTTATTATTTTAT
1 -TTTATTATTTTAT
69478761 TTTATTATTT
1 TTTATTATTT
69478771 ATTACTTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
12 2 0.06
13 18 0.56
14 2 0.06
15 8 0.25
16 2 0.06
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.73
Consensus pattern (13 bp):
TTTATTATTTTAT
Found at i:69478769 original size:20 final size:20
Alignment explanation
Indices: 69478720--69478783 Score: 69
Period size: 20 Copynumber: 3.1 Consensus size: 20
69478710 ATTTTTATTA
69478720 TTTATTATTTTATTTCATTTTA-
1 TTTATTA-TTTA-TT-ATTTTAT
*
69478742 -TTAGTATTTATTATTTTAT
1 TTTATTATTTATTATTTTAT
*
69478761 TTTATTATTTATTACTTTAT
1 TTTATTATTTATTATTTTAT
69478781 TTT
1 TTT
69478784 TGGATATTGA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
18 6 0.16
19 2 0.05
20 24 0.65
21 5 0.14
ACGTcount: A:0.23, C:0.03, G:0.02, T:0.72
Consensus pattern (20 bp):
TTTATTATTTATTATTTTAT
Found at i:69478779 original size:28 final size:27
Alignment explanation
Indices: 69478713--69478781 Score: 93
Period size: 28 Copynumber: 2.5 Consensus size: 27
69478703 TTTCTTAATT
*
69478713 TTTATTATTTATTATTTTATTTCATTT
1 TTTATTATTTATTATTTTATTTCATTA
* *
69478740 TATTAGTATTTATTATTTTATTTTATTA
1 T-TTATTATTTATTATTTTATTTCATTA
69478768 TTTATTACTTTATT
1 TTTATTA-TTTATT
69478782 TTTGGATATT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 6 0.17
28 30 0.83
ACGTcount: A:0.25, C:0.03, G:0.01, T:0.71
Consensus pattern (27 bp):
TTTATTATTTATTATTTTATTTCATTA
Found at i:69478782 original size:12 final size:11
Alignment explanation
Indices: 69478713--69478773 Score: 52
Period size: 12 Copynumber: 5.2 Consensus size: 11
69478703 TTTCTTAATT
69478713 TTTATTATTTA
1 TTTATTATTTA
*
69478724 TTATTTTATTTCA
1 TT-TATTATTT-A
*
69478737 TTTTATTA-GTA
1 -TTTATTATTTA
69478748 TTTATTATTTTA
1 TTTATTA-TTTA
69478760 TTTTATTATTTA
1 -TTTATTATTTA
69478772 TT
1 TT
69478774 ACTTTATTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
10 7 0.17
11 5 0.12
12 14 0.35
13 12 0.30
14 2 0.05
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.72
Consensus pattern (11 bp):
TTTATTATTTA
Found at i:69482791 original size:22 final size:22
Alignment explanation
Indices: 69482765--69482807 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
69482755 ATAAACTCAT
*
69482765 TTACATTCAATTAATAAATGTA
1 TTACATTCAATCAATAAATGTA
69482787 TTACATTCAATCAATAAATGT
1 TTACATTCAATCAATAAATGT
69482808 GAATTAAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.44, C:0.12, G:0.05, T:0.40
Consensus pattern (22 bp):
TTACATTCAATCAATAAATGTA
Found at i:69498061 original size:7 final size:7
Alignment explanation
Indices: 69498049--69498073 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
69498039 AACAATAGCG
69498049 ATTATTT
1 ATTATTT
69498056 ATTATTT
1 ATTATTT
69498063 ATTATTT
1 ATTATTT
69498070 ATTA
1 ATTA
69498074 ATAAAAAACG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (7 bp):
ATTATTT
Found at i:69498192 original size:24 final size:24
Alignment explanation
Indices: 69498165--69498215 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
69498155 GTTCAAGGTC
69498165 GTCGTTTCGGACTTCGATTTCCAA
1 GTCGTTTCGGACTTCGATTTCCAA
69498189 GTCGTTTCGGACTTCGATTTCCAA
1 GTCGTTTCGGACTTCGATTTCCAA
69498213 GTC
1 GTC
69498216 TACATATACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.16, C:0.25, G:0.22, T:0.37
Consensus pattern (24 bp):
GTCGTTTCGGACTTCGATTTCCAA
Found at i:69502431 original size:40 final size:40
Alignment explanation
Indices: 69502381--69502539 Score: 167
Period size: 40 Copynumber: 4.0 Consensus size: 40
69502371 CTCTGCTTTT
* * *
69502381 TACTTTGGTACCCCTGATTGTACATACGTGCTCC-TGTTTG
1 TACTTCGGTACCCCTAATTGCACATACGTGC-CCATGTTTG
* * * *
69502421 TACTTCGGTACCTCTAATTACACATACATGCCCCTGTTTG
1 TACTTCGGTACCCCTAATTGCACATACGTGCCCATGTTTG
* * *
69502461 TACTTCGGTACCCCTAATTTCACATACGTGCCCATTTTTT
1 TACTTCGGTACCCCTAATTGCACATACGTGCCCATGTTTG
* * * * *
69502501 TACTTCAGTATCCCTGATTGCACTTACGTGCCCTTGTTT
1 TACTTCGGTACCCCTAATTGCACATACGTGCCCATGTTT
69502540 ACATTTCAAT
Statistics
Matches: 99, Mismatches: 19, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
39 2 0.02
40 97 0.98
ACGTcount: A:0.18, C:0.28, G:0.14, T:0.39
Consensus pattern (40 bp):
TACTTCGGTACCCCTAATTGCACATACGTGCCCATGTTTG
Found at i:69507844 original size:46 final size:47
Alignment explanation
Indices: 69507772--69507898 Score: 154
Period size: 46 Copynumber: 2.7 Consensus size: 47
69507762 TGATATGTGT
* * *
69507772 GCTAGTGTAAGACATGTATAGGACATGCATCGGCTACATTATGA-GAG-
1 GCTAATGTAAGACATGTATGGGACATGCATCGGC--CATTAAGATGAGA
69507819 GC-AATGTAAGACATGTATGGGACATGCATCGG-CATTAAGATGAGA
1 GCTAATGTAAGACATGTATGGGACATGCATCGGCCATTAAGATGAGA
* * *
69507864 GCTAGTGTAAGACATGTCTGGGACATTCATCGGCC
1 GCTAATGTAAGACATGTATGGGACATGCATCGGCC
69507899 TCGAGATATA
Statistics
Matches: 70, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
43 7 0.10
44 3 0.04
45 2 0.03
46 55 0.79
47 3 0.04
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.24
Consensus pattern (47 bp):
GCTAATGTAAGACATGTATGGGACATGCATCGGCCATTAAGATGAGA
Found at i:69508079 original size:142 final size:145
Alignment explanation
Indices: 69507856--69508126 Score: 340
Period size: 142 Copynumber: 1.9 Consensus size: 145
69507846 ATCGGCATTA
* * * * * *
69507856 AGATGAGAGCTAGTGTAAGACATGTCTGGGACATTCATCGGCCTCGAGATATACAAGCTAGTGTA
1 AGATGAGAGCCAATATAAGACATGTCTGGGACATGCATCGACCTCGAGATATACAAGCTAATGTA
* * * *
69507921 AGACTTGTTTGAGACATGGCGTC-AGC-TTGTTGTG-T-GTCAGTTTAAGACC-TGTCTGGGACA
66 AGACTTGTTTGAGACATGGCATCGA-CTTTGATGTGCTAGCCAGTGTAAGACCATGTCTGGGACA
69507981 TGGCATCAACACCGAT
130 TGGCATCAACACCGAT
* *
69507997 AGATGAGAGCCAATATAAGACCTGTCTGGGACATGGCATCGACCTCGATATATGA-AAG-TCAAT
1 AGATGAGAGCCAATATAAGACATGTCTGGGACAT-GCATCGACCTCGAGATAT-ACAAGCT-AAT
*
69508060 GTAAGACTTGTTTGGGACATGGCATCGACTTTGATGTGCTAGCCAGTGTAAGACCATGTCTGGGA
63 GTAAGACTTGTTTGAGACATGGCATCGACTTTGATGTGCTAGCCAGTGTAAGACCATGTCTGGGA
69508125 CA
128 CA
69508127 CAACGTCGGC
Statistics
Matches: 109, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
141 31 0.28
142 45 0.41
143 9 0.08
144 1 0.01
145 12 0.11
146 11 0.10
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (145 bp):
AGATGAGAGCCAATATAAGACATGTCTGGGACATGCATCGACCTCGAGATATACAAGCTAATGTA
AGACTTGTTTGAGACATGGCATCGACTTTGATGTGCTAGCCAGTGTAAGACCATGTCTGGGACAT
GGCATCAACACCGAT
Found at i:69508086 original size:49 final size:49
Alignment explanation
Indices: 69507963--69508088 Score: 173
Period size: 49 Copynumber: 2.6 Consensus size: 49
69507953 TGTGTCAGTT
* *
69507963 TAAGACCTGTCTGGGACATGGCATCAACACCGATAGATGAGAGCCAATA
1 TAAGACCTGTCTGGGACATGGCATCGACACCGATAGATGAAAGCCAATA
* * *
69508012 TAAGACCTGTCTGGGACATGGCATCGAC-CTCGATATATGAAAGTCAATG
1 TAAGACCTGTCTGGGACATGGCATCGACAC-CGATAGATGAAAGCCAATA
* *
69508061 TAAGACTTGTTTGGGACATGGCATCGAC
1 TAAGACCTGTCTGGGACATGGCATCGAC
69508089 TTTGATGTGC
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
48 1 0.01
49 68 0.99
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.23
Consensus pattern (49 bp):
TAAGACCTGTCTGGGACATGGCATCGACACCGATAGATGAAAGCCAATA
Found at i:69512593 original size:21 final size:20
Alignment explanation
Indices: 69512563--69512601 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
69512553 CGCGTCTACT
69512563 CAAGGCAATTATAATTCAAGA
1 CAAGGCAATT-TAATTCAAGA
* *
69512584 CAAGGGAATTTTATTCAA
1 CAAGGCAATTTAATTCAA
69512602 CAACAACAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.28
Consensus pattern (20 bp):
CAAGGCAATTTAATTCAAGA
Found at i:69525747 original size:16 final size:16
Alignment explanation
Indices: 69525726--69525756 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
69525716 GTAACGCCCT
69525726 AAAAATCTCGAAATCC
1 AAAAATCTCGAAATCC
69525742 AAAAATCTCGAAATC
1 AAAAATCTCGAAATC
69525757 TTGAATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.23, G:0.06, T:0.19
Consensus pattern (16 bp):
AAAAATCTCGAAATCC
Found at i:69527021 original size:16 final size:16
Alignment explanation
Indices: 69526983--69527022 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
69526973 GGTAAAAGCT
*
69526983 GAAAAGCCAAAATACC
1 GAAAAGTCAAAATACC
*
69526999 GAAAAGTCAAAATGCC
1 GAAAAGTCAAAATACC
69527015 GAAAAGTC
1 GAAAAGTC
69527023 TAAAGTTTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.53, C:0.20, G:0.17, T:0.10
Consensus pattern (16 bp):
GAAAAGTCAAAATACC
Found at i:69527284 original size:29 final size:29
Alignment explanation
Indices: 69527242--69527297 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
69527232 CATGAGGACA
*
69527242 AGGTGATTGGGGCCTAACGGGCCATATAG
1 AGGTGATTGGGGCCTAACAGGCCATATAG
* *
69527271 AGGTGATTTGGGCCTAATAGGCCATAT
1 AGGTGATTGGGGCCTAACAGGCCATAT
69527298 GAATATGAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.25, C:0.16, G:0.34, T:0.25
Consensus pattern (29 bp):
AGGTGATTGGGGCCTAACAGGCCATATAG
Found at i:69527360 original size:29 final size:29
Alignment explanation
Indices: 69527251--69527360 Score: 132
Period size: 29 Copynumber: 3.8 Consensus size: 29
69527241 AAGGTGATTG
* * * *
69527251 GGGCCTAACGGGCCATATAG-AGGTGATTT
1 GGGCCTGATGGGCCATAT-GAATGTGAATT
* * *
69527280 GGGCCTAATAGGCCATATGAATATGAATT
1 GGGCCTGATGGGCCATATGAATGTGAATT
69527309 GGGCCTGATGGGCCATATGAATGTGAATT
1 GGGCCTGATGGGCCATATGAATGTGAATT
*
69527338 GGGCGTGATGGGCCATATGAATG
1 GGGCCTGATGGGCCATATGAATG
69527361 AGATGGGCCA
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
28 1 0.01
29 70 0.99
ACGTcount: A:0.26, C:0.15, G:0.34, T:0.25
Consensus pattern (29 bp):
GGGCCTGATGGGCCATATGAATGTGAATT
Found at i:69539208 original size:21 final size:21
Alignment explanation
Indices: 69539182--69539223 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
69539172 TTATACCTTA
69539182 ATTTATTCTAATAGTGTATAT
1 ATTTATTCTAATAGTGTATAT
69539203 ATTTATTCTAATAGTGTATAT
1 ATTTATTCTAATAGTGTATAT
69539224 TGTAATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.52
Consensus pattern (21 bp):
ATTTATTCTAATAGTGTATAT
Found at i:69539425 original size:68 final size:68
Alignment explanation
Indices: 69539316--69539458 Score: 277
Period size: 68 Copynumber: 2.1 Consensus size: 68
69539306 ACACTCCTCG
*
69539316 TAAAATTAAAGTATTTTATTGACAGTGTTTTATATACAAACATAAAATATAAATATACTAAATGA
1 TAAAATTAAAGTATTTTATTGACAGTGTTTTAAATACAAACATAAAATATAAATATACTAAATGA
69539381 TTT
66 TTT
69539384 TAAAATTAAAGTATTTTATTGACAGTGTTTTAAATACAAACATAAAATATAAATATACTAAATGA
1 TAAAATTAAAGTATTTTATTGACAGTGTTTTAAATACAAACATAAAATATAAATATACTAAATGA
69539449 TTT
66 TTT
69539452 TAAAATT
1 TAAAATT
69539459 TGATTTTAAA
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 74 1.00
ACGTcount: A:0.48, C:0.06, G:0.07, T:0.39
Consensus pattern (68 bp):
TAAAATTAAAGTATTTTATTGACAGTGTTTTAAATACAAACATAAAATATAAATATACTAAATGA
TTT
Found at i:69541217 original size:36 final size:36
Alignment explanation
Indices: 69541170--69541241 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
69541160 ACAAAAGTAC
69541170 ACCCTCAGGTCTTCTAACAAAAAGAGAACCATCTGA
1 ACCCTCAGGTCTTCTAACAAAAAGAGAACCATCTGA
69541206 ACCCTCAGGTCTTCTAACAAAAAGAGAACCATCTGA
1 ACCCTCAGGTCTTCTAACAAAAAGAGAACCATCTGA
69541242 CTTGGCTAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.39, C:0.28, G:0.14, T:0.19
Consensus pattern (36 bp):
ACCCTCAGGTCTTCTAACAAAAAGAGAACCATCTGA
Found at i:69544774 original size:15 final size:14
Alignment explanation
Indices: 69544753--69544794 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 14
69544743 TACTAACTGC
* *
69544753 TAACTGTTAATAGT
1 TAACTGTTAACAAT
69544767 TCAACTGTTAACAAT
1 T-AACTGTTAACAAT
69544782 TAACTGTT-ACAAT
1 TAACTGTTAACAAT
69544795 CGTTTCATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 5 0.20
14 8 0.32
15 12 0.48
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (14 bp):
TAACTGTTAACAAT
Found at i:69549760 original size:28 final size:27
Alignment explanation
Indices: 69549707--69549761 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
69549697 ATTTGGGGAT
* *
69549707 TTGGAATTTAGAATAAAAAATTGAGAA
1 TTGGAATTGAGAATAAAAAATCGAGAA
**
69549734 TTGGCAATTGAGAATAATGAATCGAGAA
1 TTGG-AATTGAGAATAAAAAATCGAGAA
69549762 CAATAAGTTG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.47, C:0.04, G:0.22, T:0.27
Consensus pattern (27 bp):
TTGGAATTGAGAATAAAAAATCGAGAA
Found at i:69551378 original size:17 final size:18
Alignment explanation
Indices: 69551341--69551392 Score: 54
Period size: 17 Copynumber: 2.9 Consensus size: 18
69551331 AACAACACCA
* * *
69551341 TGTTATATTTGTGTATTG
1 TGTTATACTTGTGAATAG
69551359 TGTTATA-TTGTGAATAG
1 TGTTATACTTGTGAATAG
69551376 TGTT-TACTTGGTGAATA
1 TGTTATACTT-GTGAATA
69551393 ATATTATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 2 0.07
17 14 0.47
18 14 0.47
ACGTcount: A:0.23, C:0.02, G:0.23, T:0.52
Consensus pattern (18 bp):
TGTTATACTTGTGAATAG
Found at i:69567149 original size:6 final size:7
Alignment explanation
Indices: 69567132--69567158 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
69567122 TCCAAAGGAA
69567132 AAAAAAT
1 AAAAAAT
69567139 AAAAAAT
1 AAAAAAT
69567146 AAAAAAT
1 AAAAAAT
69567153 AAAAAA
1 AAAAAA
69567159 ACTACGTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (7 bp):
AAAAAAT
Found at i:69567867 original size:3 final size:3
Alignment explanation
Indices: 69567861--69567912 Score: 86
Period size: 3 Copynumber: 17.3 Consensus size: 3
69567851 TTTTTTTAGC
* *
69567861 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ACA ATA ACA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
69567909 ATA A
1 ATA A
69567913 CGATGATCAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:69573051 original size:37 final size:37
Alignment explanation
Indices: 69573010--69573083 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
69573000 GAATTTCTTC
69573010 ACGAAATTTTCATACAATCATGCAATCATATCATATA
1 ACGAAATTTTCATACAATCATGCAATCATATCATATA
69573047 ACGAAATTTTCATACAATCATGCAATCATATCATATA
1 ACGAAATTTTCATACAATCATGCAATCATATCATATA
69573084 CCTCAAAATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.43, C:0.19, G:0.05, T:0.32
Consensus pattern (37 bp):
ACGAAATTTTCATACAATCATGCAATCATATCATATA
Found at i:69574076 original size:16 final size:16
Alignment explanation
Indices: 69574055--69574088 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
69574045 ACAATAAGAG
69574055 AAGAATGCAACATTGC
1 AAGAATGCAACATTGC
69574071 AAGAATGCAACATTGC
1 AAGAATGCAACATTGC
69574087 AA
1 AA
69574089 CAGCAAGAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.47, C:0.18, G:0.18, T:0.18
Consensus pattern (16 bp):
AAGAATGCAACATTGC
Found at i:69576507 original size:24 final size:24
Alignment explanation
Indices: 69576480--69576527 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
69576470 TATCCCGACG
69576480 CATACAATGGCCTATTTTTTACTT
1 CATACAATGGCCTATTTTTTACTT
*
69576504 CATACAATGGCCTGTTTTTTACTT
1 CATACAATGGCCTATTTTTTACTT
69576528 TCTAAAACTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.23, C:0.21, G:0.10, T:0.46
Consensus pattern (24 bp):
CATACAATGGCCTATTTTTTACTT
Found at i:69580955 original size:21 final size:21
Alignment explanation
Indices: 69580932--69580991 Score: 95
Period size: 21 Copynumber: 2.9 Consensus size: 21
69580922 CGTTCCCCTT
*
69580932 TTTTTGTTC-TTTCTCTTTTC
1 TTTTTCTTCTTTTCTCTTTTC
*
69580952 TTTTTCTTCTTTTCTATTTTC
1 TTTTTCTTCTTTTCTCTTTTC
69580973 TTTTTCTTCTTTTCTCTTT
1 TTTTTCTTCTTTTCTCTTT
69580992 CACCGTATGG
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
20 8 0.22
21 28 0.78
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.77
Consensus pattern (21 bp):
TTTTTCTTCTTTTCTCTTTTC
Found at i:69580990 original size:7 final size:7
Alignment explanation
Indices: 69580941--69580991 Score: 61
Period size: 7 Copynumber: 7.3 Consensus size: 7
69580931 TTTTTTGTTC
69580941 TTTCTCT
1 TTTCTCT
69580948 TTTCT-T
1 TTTCTCT
69580954 TTTCTTCT
1 TTTC-TCT
*
69580962 TTTCTAT
1 TTTCTCT
69580969 TTTCT-T
1 TTTCTCT
69580975 TTTCTTCT
1 TTTC-TCT
69580983 TTTCTCT
1 TTTCTCT
69580990 TT
1 TT
69580992 CACCGTATGG
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
6 10 0.26
7 19 0.49
8 10 0.26
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTCTCT
Found at i:69585886 original size:20 final size:21
Alignment explanation
Indices: 69585856--69585896 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
69585846 ATTAAATATA
*
69585856 ACAATAAATTTATATTTTAAT
1 ACAATAAATTTATAATTTAAT
69585877 ACAA-AAATTTATAATTTAAT
1 ACAATAAATTTATAATTTAAT
69585897 TATGAAATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (21 bp):
ACAATAAATTTATAATTTAAT
Found at i:69586217 original size:17 final size:17
Alignment explanation
Indices: 69586186--69586231 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
69586176 ATAGTCTCTC
69586186 ATTTTTTTTCATTTAAT
1 ATTTTTTTTCATTTAAT
*
69586203 -TTTTATTTTCGTTTAAT
1 ATTTT-TTTTCATTTAAT
*
69586220 ATTTTTTATCAT
1 ATTTTTTTTCAT
69586232 CCATTTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 4 0.17
17 16 0.67
18 4 0.17
ACGTcount: A:0.22, C:0.07, G:0.02, T:0.70
Consensus pattern (17 bp):
ATTTTTTTTCATTTAAT
Found at i:69591433 original size:34 final size:34
Alignment explanation
Indices: 69591406--69591476 Score: 115
Period size: 34 Copynumber: 2.1 Consensus size: 34
69591396 TGCTATTGAG
*
69591406 TTGAACTGTTATAAGCATATTAATTGCTACTGTA
1 TTGAACTGTTATAAACATATTAATTGCTACTGTA
* *
69591440 TTGAACTGTTATAAACATATTGATTTCTACTGTA
1 TTGAACTGTTATAAACATATTAATTGCTACTGTA
69591474 TTG
1 TTG
69591477 TTCTATTAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.31, C:0.11, G:0.14, T:0.44
Consensus pattern (34 bp):
TTGAACTGTTATAAACATATTAATTGCTACTGTA
Found at i:69591631 original size:45 final size:45
Alignment explanation
Indices: 69591567--69591674 Score: 126
Period size: 45 Copynumber: 2.4 Consensus size: 45
69591557 ACAAAGGAAG
* * * * *
69591567 TATTAGCAACTTTTATCTACACCGTTTAGTGGTTTATCAATACCA
1 TATTAGCAGCTTTTATCTACACCGATTAATGGTTTACCAACACCA
* * *
69591612 TATTAGCAGCTTTTATCTACACTGATTAATGGTTTACCCACACCG
1 TATTAGCAGCTTTTATCTACACCGATTAATGGTTTACCAACACCA
* *
69591657 TATTAGAAGCTTTAATCT
1 TATTAGCAGCTTTTATCT
69591675 GCAAATGTAT
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 53 1.00
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (45 bp):
TATTAGCAGCTTTTATCTACACCGATTAATGGTTTACCAACACCA
Found at i:69593270 original size:21 final size:21
Alignment explanation
Indices: 69593244--69593328 Score: 71
Period size: 21 Copynumber: 4.0 Consensus size: 21
69593234 TGATCAGTAT
*
69593244 ACGACACATAAAGTGCCTAAA
1 ACGACACACAAAGTGCCTAAA
* * * *
69593265 ACGACACACGAGGTGCCTGAT
1 ACGACACACAAAGTGCCTAAA
* * *
69593286 ACGACACGCGAGGTGCCTGAAA
1 ACGACACACAAAGTGCCT-AAA
*
69593308 TACGACACATAAAGTGCCTAA
1 -ACGACACACAAAGTGCCTAA
69593329 TCGATAAAGC
Statistics
Matches: 50, Mismatches: 12, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
21 33 0.66
22 3 0.06
23 14 0.28
ACGTcount: A:0.38, C:0.26, G:0.22, T:0.14
Consensus pattern (21 bp):
ACGACACACAAAGTGCCTAAA
Found at i:69593314 original size:23 final size:23
Alignment explanation
Indices: 69593242--69593316 Score: 86
Period size: 21 Copynumber: 3.4 Consensus size: 23
69593232 CTTGATCAGT
** *
69593242 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACGAGGTGCCTGAA
69593264 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACGAGGTGCCTGAA
*
69593284 ATACGACACGCGAGGTGCCTGAA
1 ATACGACACACGAGGTGCCTGAA
69593307 ATACGACACA
1 ATACGACACA
69593317 TAAAGTGCCT
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
20 1 0.02
21 33 0.75
22 1 0.02
23 9 0.20
ACGTcount: A:0.37, C:0.27, G:0.23, T:0.13
Consensus pattern (23 bp):
ATACGACACACGAGGTGCCTGAA
Found at i:69593724 original size:15 final size:15
Alignment explanation
Indices: 69593699--69593756 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
69593689 TCATATATAT
69593699 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
69593715 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
69593730 AATAATTTCAATCAA
1 TATAAATTCAATCAA
69593745 TATAAATTCAAT
1 TATAAATTCAAT
69593757 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:69595299 original size:6 final size:6
Alignment explanation
Indices: 69595288--69595312 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
69595278 TTTATCAAAT
69595288 ATATTA ATATTA ATATTA ATATTA A
1 ATATTA ATATTA ATATTA ATATTA A
69595313 ATTTCAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
ATATTA
Found at i:69604667 original size:23 final size:23
Alignment explanation
Indices: 69604601--69604668 Score: 59
Period size: 23 Copynumber: 2.9 Consensus size: 23
69604591 AATATTTATA
* *
69604601 TATTTGTAATAATTTAT-TATAGT
1 TATTTATAAT-ATTTATAAATAGT
* *
69604624 AATTTATAATATATATAAAATAGT
1 TATTTATAATATTTAT-AAATAGT
69604648 TATTT-TAATATTTTATAAATA
1 TATTTATAATA-TTTATAAATA
69604669 TTAAAATATT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
22 5 0.14
23 18 0.50
24 13 0.36
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (23 bp):
TATTTATAATATTTATAAATAGT
Found at i:69606945 original size:21 final size:22
Alignment explanation
Indices: 69606908--69606958 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 22
69606898 TGTATATACG
* *
69606908 TATATTTTATGTATATTATGTA
1 TATATTTTATATATATTATGCA
*
69606930 TATATTTTA-ATATATTATGCG
1 TATATTTTATATATATTATGCA
69606951 TATATTTT
1 TATATTTT
69606959 GTTTTGTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 17 0.65
22 9 0.35
ACGTcount: A:0.31, C:0.02, G:0.08, T:0.59
Consensus pattern (22 bp):
TATATTTTATATATATTATGCA
Found at i:69607715 original size:23 final size:22
Alignment explanation
Indices: 69607681--69607741 Score: 54
Period size: 22 Copynumber: 2.6 Consensus size: 22
69607671 GTATGCGCTT
69607681 TTATATTATTATTACCGCCATCA
1 TTATATTATTATT-CCGCCATCA
*
69607704 TTATCATT-TTATTTCGCCATC-
1 TTAT-ATTATTATTCCGCCATCA
69607725 TTCATATTCATTTATTC
1 TT-ATATT-A-TTATTC
69607742 GTTAATTTAC
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
21 5 0.16
22 9 0.29
23 9 0.29
24 8 0.26
ACGTcount: A:0.25, C:0.21, G:0.03, T:0.51
Consensus pattern (22 bp):
TTATATTATTATTCCGCCATCA
Found at i:69619985 original size:77 final size:76
Alignment explanation
Indices: 69619843--69620078 Score: 206
Period size: 88 Copynumber: 2.9 Consensus size: 76
69619833 TCAAACCTTA
* * *
69619843 AACCCCTAAGCAGTAGGGTAACATGTTGAATTTACAGATCTAAACCCCTAAGCAGTAGGGAAACA
1 AACCCCTAAGCAGTAGGGTAACAAGCTGAATTTACAGATCTAAACCCCTAAGCAGTAAGGAAACA
*
69619908 GGTCGAGCTTT
66 GATCGAGCTTT
* *
69619919 AACCCCTAA-CAGTAGGGTAACAAGCTGAATTTTGA-AGATCTTATCACCCTAAGCAGTAAGGAA
1 AACCCCTAAGCAGTAGGGTAACAAGCTGAA-TTT-ACAGATCTAAAC-CCCTAAGCAGTAAGGAA
*
69619982 ACAGATCGAAGGTAAAAGAGCCTTA
63 ACAGATC----------GAG-CTTT
* * * * * *
69620007 AACCCCTAAGCAGTAGGGTAACAGGCTGAATTTATAGACCTTACCTCCCTAAGCAGTAGGGAAAC
1 AACCCCTAAGCAGTAGGGTAACAAGCTGAATTTACAGATCTAAAC-CCCTAAGCAGTAAGGAAAC
69620072 AGATCGA
65 AGATCGA
69620079 AGATGATGGG
Statistics
Matches: 132, Mismatches: 12, Indels: 30
0.76 0.07 0.17
Matches are distributed among these distances:
75 18 0.14
76 20 0.15
77 23 0.17
78 2 0.02
87 4 0.03
88 46 0.35
89 19 0.14
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (76 bp):
AACCCCTAAGCAGTAGGGTAACAAGCTGAATTTACAGATCTAAACCCCTAAGCAGTAAGGAAACA
GATCGAGCTTT
Found at i:69620016 original size:45 final size:44
Alignment explanation
Indices: 69619965--69620080 Score: 121
Period size: 43 Copynumber: 2.6 Consensus size: 44
69619955 GATCTTATCA
*
69619965 CCCTAAGCAGTAAGGAAACAGATCGAAGGTAAAAGAGCCTTAAAC-
1 CCCTAAGCAGTAGGGAAACAGATCGAAGGTAAAAGA-CCTT-AACT
* * * * * *
69620010 CCCTAAGCAGTAGGGTAACAG-GCTGAA-TTTATAGACCTTACCT
1 CCCTAAGCAGTAGGGAAACAGATC-GAAGGTAAAAGACCTTAACT
69620053 CCCTAAGCAGTAGGGAAACAGATCGAAG
1 CCCTAAGCAGTAGGGAAACAGATCGAAG
69620081 ATGATGGGCC
Statistics
Matches: 58, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
42 2 0.03
43 27 0.47
44 7 0.12
45 22 0.38
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.17
Consensus pattern (44 bp):
CCCTAAGCAGTAGGGAAACAGATCGAAGGTAAAAGACCTTAACT
Found at i:69620070 original size:88 final size:87
Alignment explanation
Indices: 69619919--69620119 Score: 262
Period size: 88 Copynumber: 2.3 Consensus size: 87
69619909 GTCGAGCTTT
* * *
69619919 AACCCCTAA-CAGTAGGGTAACAAGCTGAATTTTGAAGATCTTATCACCCTAAGCAGTAAGGAAA
1 AACCCCTAAGCAGTAGGGTAACAGGCTGAATTTT-AAGACCTTACCACCCTAAGCAGTAAGGAAA
*
69619983 CAGATCGAAGGTAAAAGAGCCTTA
65 CAGATCGAAGAT-AAAGAGCCTTA
* *
69620007 AACCCCTAAGCAGTAGGGTAACAGGCTGAA-TTTATAGACCTTACCTCCCTAAGCAGTAGGGAAA
1 AACCCCTAAGCAGTAGGGTAACAGGCTGAATTTTA-AGACCTTACCACCCTAAGCAGTAAGGAAA
* * *
69620071 CAGATCGAAGATGATGGGCCTTA
65 CAGATCGAAGATAAAGAGCCTTA
* *
69620094 AACCCTTAAGCAATAGGGTAACAGGC
1 AACCCCTAAGCAGTAGGGTAACAGGC
69620120 CAGAAATTAC
Statistics
Matches: 100, Mismatches: 11, Indels: 5
0.86 0.09 0.04
Matches are distributed among these distances:
87 33 0.33
88 48 0.48
89 19 0.19
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.20
Consensus pattern (87 bp):
AACCCCTAAGCAGTAGGGTAACAGGCTGAATTTTAAGACCTTACCACCCTAAGCAGTAAGGAAAC
AGATCGAAGATAAAGAGCCTTA
Found at i:69621888 original size:21 final size:22
Alignment explanation
Indices: 69621851--69621901 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 22
69621841 TGTATATATG
* *
69621851 TATATTTTACGTATATTATGTA
1 TATATTTTACATATATTATGCA
*
69621873 TATATTTTA-ATATATTATGCG
1 TATATTTTACATATATTATGCA
69621894 TATATTTT
1 TATATTTT
69621902 GTTTTGTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 17 0.65
22 9 0.35
ACGTcount: A:0.31, C:0.04, G:0.08, T:0.57
Consensus pattern (22 bp):
TATATTTTACATATATTATGCA
Found at i:69622664 original size:23 final size:22
Alignment explanation
Indices: 69622630--69622690 Score: 54
Period size: 22 Copynumber: 2.6 Consensus size: 22
69622620 GTATGCGCTT
69622630 TTATATTATTATTACCGCCATCA
1 TTATATTATTATT-CCGCCATCA
*
69622653 TTATCATT-TTATTTCGCCATC-
1 TTAT-ATTATTATTCCGCCATCA
69622674 TTCATATTCATTTATTC
1 TT-ATATT-A-TTATTC
69622691 GTTAATTTAC
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
21 5 0.16
22 9 0.29
23 9 0.29
24 8 0.26
ACGTcount: A:0.25, C:0.21, G:0.03, T:0.51
Consensus pattern (22 bp):
TTATATTATTATTCCGCCATCA
Found at i:69639032 original size:83 final size:83
Alignment explanation
Indices: 69638893--69639059 Score: 325
Period size: 83 Copynumber: 2.0 Consensus size: 83
69638883 ACCGAGAAGC
*
69638893 AATTTGAAGTATCAAGGTGAATTAATTTTCAGCCTAAGACGGTCCAAAATTATGTGTATTAATTC
1 AATTTGAACTATCAAGGTGAATTAATTTTCAGCCTAAGACGGTCCAAAATTATGTGTATTAATTC
69638958 ATAATATAATTAGTTTTA
66 ATAATATAATTAGTTTTA
69638976 AATTTGAACTATCAAGGTGAATTAATTTTCAGCCTAAGACGGTCCAAAATTATGTGTATTAATTC
1 AATTTGAACTATCAAGGTGAATTAATTTTCAGCCTAAGACGGTCCAAAATTATGTGTATTAATTC
69639041 ATAATATAATTAGTTTTA
66 ATAATATAATTAGTTTTA
69639059 A
1 A
69639060 TTTATATTCA
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 83 1.00
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (83 bp):
AATTTGAACTATCAAGGTGAATTAATTTTCAGCCTAAGACGGTCCAAAATTATGTGTATTAATTC
ATAATATAATTAGTTTTA
Found at i:69647030 original size:6 final size:6
Alignment explanation
Indices: 69647019--69647050 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
69647009 CACCATAAGG
69647019 GTAACA GTAACA GTAACA GTAACA GTAACA GT
1 GTAACA GTAACA GTAACA GTAACA GTAACA GT
69647051 CAGGTACAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.47, C:0.16, G:0.19, T:0.19
Consensus pattern (6 bp):
GTAACA
Found at i:69647539 original size:17 final size:18
Alignment explanation
Indices: 69647516--69647560 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
69647506 AATATATTAA
69647516 TTATATAATATAATTTAC
1 TTATATAATATAATTTAC
* *
69647534 -TATATATTATTATTTAC
1 TTATATAATATAATTTAC
69647551 TTATATAATA
1 TTATATAATA
69647561 AGTAAGTACA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 15 0.65
18 8 0.35
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.53
Consensus pattern (18 bp):
TTATATAATATAATTTAC
Found at i:69656962 original size:49 final size:49
Alignment explanation
Indices: 69656812--69657126 Score: 168
Period size: 49 Copynumber: 6.6 Consensus size: 49
69656802 ATGCTAATGC
* * * * *
69656812 CATGTCCCAGATATGGTCTTACACTAGCT-AGC--ACATCAAAGTCAATG
1 CATGTCCCAGATA-GGTCTTACACTAGCTCTGCATATATCGAGGTCGATG
* * * * * * *
69656859 CCATGTCCCATACAGGTCTGACACT-GACT-TTCATATATTGAGGCCTATG
1 -CATGTCCCAGATAGGTCTTACACTAG-CTCTGCATATATCGAGGTCGATG
* *
69656908 CCATGTCCCAGATAGGTCTTACACTGGCTCT-CATCTATCG-GTGTCGATGG
1 -CATGTCCCAGATAGGTCTTACACTAGCTCTGCATATATCGAG-GTCGAT-G
* * *
69656958 CATGTCCCAGATAGGTCTTACAGTAGCT-TGTATATCTCGAGGTCGATG
1 CATGTCCCAGATAGGTCTTACACTAGCTCTGCATATATCGAGGTCGATG
* * * * * * *
69657006 CATGTCCCAGACATGTCTTACACTAGCTCT---TGTCTCAATGCCGATG
1 CATGTCCCAGATAGGTCTTACACTAGCTCTGCATATATCGAGGTCGATG
* * * * * * * * * *
69657052 CATGTCCCAGACATGTCTTGCACTGGCT-GGTATATCTTGAGGCCAATG
1 CATGTCCCAGATAGGTCTTACACTAGCTCTGCATATATCGAGGTCGATG
* *
69657100 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGATAGGTCTTACACTAGC
69657127 ACATATATCA
Statistics
Matches: 214, Mismatches: 40, Indels: 26
0.76 0.14 0.09
Matches are distributed among these distances:
46 39 0.18
47 13 0.06
48 75 0.35
49 83 0.39
50 4 0.02
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (49 bp):
CATGTCCCAGATAGGTCTTACACTAGCTCTGCATATATCGAGGTCGATG
Found at i:69657101 original size:94 final size:96
Alignment explanation
Indices: 69656807--69657126 Score: 276
Period size: 94 Copynumber: 3.3 Consensus size: 96
69656797 ATAAGATGCT
* * * * *
69656807 AATGCCATGTCCCAGATATGGTCTTACACTAGCTAGC-A-C-ATCAAAGTCAATGCCATGTCCCA
1 AATG-CATGTCCCAGACAT-GTCTTACACTAGCT--CTATCTATCAATGCCGATGGCATGTCCCA
* * * *
69656869 TACAGGTCTGACACT-GACT-TTCATATATTGAGGCC
62 GACAGGTCTTACACTAG-CTGGT-ATATCTTGAGGCC
* * * * ** *
69656904 TATGCCATGTCCCAGATAGGTCTTACACTGGCTCTCATCTATCGGTGTCGATGGCATGTCCCAGA
1 AATG-CATGTCCCAGACATGTCTTACACTAGCTCT-ATCTATCAATGCCGATGGCATGTCCCAGA
* * * * *
69656969 TAGGTCTTACAGTAGCTTGTATATCTCGAGGTC
64 CAGGTCTTACACTAGCTGGTATATCTTGAGGCC
* * *
69657002 GATGCATGTCCCAGACATGTCTTACACTAGCTCT-TGTCTCAATGCCGAT-GCATGTCCCAGACA
1 AATGCATGTCCCAGACATGTCTTACACTAGCTCTATCTATCAATGCCGATGGCATGTCCCAGACA
* * *
69657065 TGTCTTGCACTGGCTGGTATATCTTGAGGCC
66 GGTCTTACACTAGCTGGTATATCTTGAGGCC
69657096 AATGCATGTCCCAGACATGTCTTACACTAGC
1 AATGCATGTCCCAGACATGTCTTACACTAGC
69657127 ACATATATCA
Statistics
Matches: 183, Mismatches: 34, Indels: 15
0.79 0.15 0.06
Matches are distributed among these distances:
94 68 0.37
95 10 0.05
96 14 0.08
97 45 0.25
98 44 0.24
99 2 0.01
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.29
Consensus pattern (96 bp):
AATGCATGTCCCAGACATGTCTTACACTAGCTCTATCTATCAATGCCGATGGCATGTCCCAGACA
GGTCTTACACTAGCTGGTATATCTTGAGGCC
Found at i:69657134 original size:48 final size:48
Alignment explanation
Indices: 69656898--69657135 Score: 214
Period size: 48 Copynumber: 5.0 Consensus size: 48
69656888 TTCATATATT
* * * * * *
69656898 GAGGCCTATGCCATGTCCCAGATAGGTCTTACACTGGCTC-TCATCTATC
1 GAGGCCGATG-CATGTCCCAGACATGTCTTACACTAGCTCGT-ATATCTC
* * * * *
69656947 G-GTGTCGATGGCATGTCCCAGATAGGTCTTACAGTAGCTTGTATATCTC
1 GAG-GCCGAT-GCATGTCCCAGACATGTCTTACACTAGCTCGTATATCTC
* *
69656996 GAGGTCGATGCATGTCCCAGACATGTCTTACACTAGCTC-T-TGTCTC
1 GAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCGTATATCTC
* * * * * *
69657042 AATGCCGATGCATGTCCCAGACATGTCTTGCACTGGCTGGTATATCTT
1 GAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCGTATATCTC
* * *
69657090 GAGGCCAATGCATGTCCCAGACATGTCTTACACTAGCACATATATC
1 GAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCGTATATC
69657136 ACCCAATGTC
Statistics
Matches: 155, Mismatches: 28, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
46 38 0.25
47 2 0.01
48 69 0.45
49 43 0.28
50 3 0.02
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.29
Consensus pattern (48 bp):
GAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCGTATATCTC
Found at i:69665259 original size:30 final size:29
Alignment explanation
Indices: 69665212--69665472 Score: 127
Period size: 30 Copynumber: 8.8 Consensus size: 29
69665202 GATGTTTGAT
* *
69665212 ACCATTCCTTTCCATAATTCGATAGTCGA
1 ACCATCCCTTTTCATAATTCGATAGTCGA
* * * *
69665241 AGCTATCCTTTTTCATAATTTGATGGTC-A
1 A-CCATCCCTTTTCATAATTCGATAGTCGA
** *
69665270 TCACCATCCCTTTTCATTGTT-GATGGTC-A
1 --ACCATCCCTTTTCATAATTCGATAGTCGA
* * *
69665299 TCACCATCCCTTTTCATAATTTGATAGCCAA
1 --ACCATCCCTTTTCATAATTCGATAGTCGA
* * *
69665330 ATCTATCCCTTTTCATGATTCGATAGCCGA
1 A-CCATCCCTTTTCATAATTCGATAGTCGA
* * *
69665360 AGCCATCCCTTTTCATAGTTCGATGGTCGTC
1 A-CCATCCCTTTTCATAATTCGATAGTCG-A
* * ** *
69665391 ACCATTCCTTTTCGTTGTTGCTGATCGTC--
1 ACCATCCCTTTTCATAATT-C-GATAGTCGA
* *
69665420 ACCATCCCTTTTCATAATTTGATAGCTGGA
1 ACCATCCCTTTTCATAATTCGATAG-TCGA
* * * *
69665450 GCTATCCATTTTCATAGTTCGAT
1 ACCATCCCTTTTCATAATTCGAT
69665473 GATTGTCGAG
Statistics
Matches: 179, Mismatches: 41, Indels: 23
0.74 0.17 0.09
Matches are distributed among these distances:
27 4 0.02
28 1 0.01
29 45 0.25
30 119 0.66
31 4 0.02
32 6 0.03
ACGTcount: A:0.22, C:0.26, G:0.13, T:0.39
Consensus pattern (29 bp):
ACCATCCCTTTTCATAATTCGATAGTCGA
Found at i:69665429 original size:119 final size:119
Alignment explanation
Indices: 69665218--69665445 Score: 339
Period size: 119 Copynumber: 1.9 Consensus size: 119
69665208 TGATACCATT
* * * *
69665218 CCTTTCCATAATTCGATAGTCGAAGCTATCCTTTTTCATAATTTGATGGTCATCACCATCCCTTT
1 CCTTTCCATAATTCGATAGCCGAAGCCATCCCTTTTCATAATTCGATGGTCATCACCATCCCTTT
*
69665283 TCATTGTTGATGGTCATCACCATCCCTTTTCATAATTTGATAGCCAAATCTATC
66 TCATTGTTGATGATCATCACCATCCCTTTTCATAATTTGATAGCCAAATCTATC
* * * * *
69665337 CCTTTTCATGATTCGATAGCCGAAGCCATCCCTTTTCATAGTTCGATGGTCGTCACCATTCCTTT
1 CCTTTCCATAATTCGATAGCCGAAGCCATCCCTTTTCATAATTCGATGGTCATCACCATCCCTTT
* * *
69665402 TCGTTGTTGCTGATCGTCACCATCCCTTTTCATAATTTGATAGC
66 TCATTGTTGATGATCATCACCATCCCTTTTCATAATTTGATAGC
69665446 TGGAGCTATC
Statistics
Matches: 96, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
119 96 1.00
ACGTcount: A:0.21, C:0.26, G:0.13, T:0.39
Consensus pattern (119 bp):
CCTTTCCATAATTCGATAGCCGAAGCCATCCCTTTTCATAATTCGATGGTCATCACCATCCCTTT
TCATTGTTGATGATCATCACCATCCCTTTTCATAATTTGATAGCCAAATCTATC
Found at i:69665455 original size:119 final size:118
Alignment explanation
Indices: 69665218--69665472 Score: 330
Period size: 119 Copynumber: 2.1 Consensus size: 118
69665208 TGATACCATT
* * * * *
69665218 CCTTTCCATAATTCGATAGTCGAAGCTATCCTTTTTCATAATTTGATGGTCATCACCATCCCTTT
1 CCTTTTCAT-ATTCGATAGCCGAAGCCATCCCTTTTCATAATTCGATGGTCATCACCATCCCTTT
* *
69665283 TCATTGTTGATGGTCATCACCATCCCTTTTCATAATTTGATAGCCAAATCTATC
65 TCATTGTTGATGATCATCACCATCCCTTTTCATAATTTGATAGCCAAAGCTATC
* * *
69665337 CCTTTTCATGATTCGATAGCCGAAGCCATCCCTTTTCATAGTTCGATGGTCGTCACCATTCCTTT
1 CCTTTTCAT-ATTCGATAGCCGAAGCCATCCCTTTTCATAATTCGATGGTCATCACCATCCCTTT
* * * ***
69665402 TCGTTGTTGCTGATCGTCACCATCCCTTTTCATAATTTGATAGCTGGAGCTATC
65 TCATTGTTGATGATCATCACCATCCCTTTTCATAATTTGATAGCCAAAGCTATC
*
69665456 CATTTTCATAGTTCGAT
1 CCTTTTCATA-TTCGAT
69665473 GATTGTCGAG
Statistics
Matches: 117, Mismatches: 18, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
118 1 0.01
119 116 0.99
ACGTcount: A:0.22, C:0.25, G:0.14, T:0.39
Consensus pattern (118 bp):
CCTTTTCATATTCGATAGCCGAAGCCATCCCTTTTCATAATTCGATGGTCATCACCATCCCTTTT
CATTGTTGATGATCATCACCATCCCTTTTCATAATTTGATAGCCAAAGCTATC
Found at i:69668305 original size:27 final size:26
Alignment explanation
Indices: 69668246--69668350 Score: 102
Period size: 27 Copynumber: 3.9 Consensus size: 26
69668236 CCATGTTTAG
* * *
69668246 AATACTTTAGTTTACTAAAATTACCGA
1 AATACCTTAGTTT-GTAAAATTACTGA
*
69668273 AATACCATTAGTTTGTAAAAATACTGA
1 AATACC-TTAGTTTGTAAAATTACTGA
* *
69668300 AATACCCTCGATTTGTAAAATTACTGA
1 AATACCTTAG-TTTGTAAAATTACTGA
**
69668327 AATACCTTCAACTTGTAAAATTAC
1 AATACCTT-AGTTTGTAAAATTAC
69668351 CAAAGTACCC
Statistics
Matches: 64, Mismatches: 11, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
26 2 0.03
27 55 0.86
28 7 0.11
ACGTcount: A:0.41, C:0.16, G:0.09, T:0.34
Consensus pattern (26 bp):
AATACCTTAGTTTGTAAAATTACTGA
Found at i:69668360 original size:54 final size:54
Alignment explanation
Indices: 69668261--69668367 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
69668251 TTTAGTTTAC
** * *
69668261 TAAAATTACCGAAATACCATTAGTTTGTAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACCGAAATACCATTAACTTGTAAAAATACTCAAATACCCCCGATTTG
* *
69668315 TAAAATTACTGAAATACC-TTCAACTTGTAAAATTAC-CAAAGTACCCCCGATTT
1 TAAAATTACCGAAATACCATT-AACTTGTAAAAATACTCAAA-TACCCCCGATTT
69668368 ACAGAATTAC
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
53 5 0.11
54 40 0.89
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (54 bp):
TAAAATTACCGAAATACCATTAACTTGTAAAAATACTCAAATACCCCCGATTTG
Found at i:69668386 original size:27 final size:27
Alignment explanation
Indices: 69668356--69668566 Score: 246
Period size: 27 Copynumber: 7.8 Consensus size: 27
69668346 ATTACCAAAG
*
69668356 TACCCCCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * * *
69668383 TACCCCCAATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
69668410 TACCC-CTGATTTACATAATTA-TCGTTT
1 TACCCTC-GATTTACAGAATTACT-GTTT
* *
69668437 TACCCTCGACTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * *
69668464 TACACTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * *
69668491 TACCCTCAATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
69668518 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
69668545 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
69668567 AAAAATACCC
Statistics
Matches: 157, Mismatches: 23, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
26 1 0.01
27 155 0.99
28 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:69668577 original size:81 final size:82
Alignment explanation
Indices: 69668356--69668566 Score: 284
Period size: 81 Copynumber: 2.6 Consensus size: 82
69668346 ATTACCAAAG
* * * * *
69668356 TACCCCCGATTTACAGAATTACTGTTTTACCCCCAATTTACATAATTACCGTTTTACCC-CTGAT
1 TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCTAAT
* *
69668420 TTACATAATTATCGTTT
66 TTACAGAATTATCATTT
* * *
69668437 TACCCTCGACTTACAGAATTACCGTTTTACACTCGATTTACAAAATTACCGTTTTACCCTC-AAT
1 TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCTAAT
*
69668501 TTATAGAATTA-CTATTT
66 TTACAGAATTATC-ATTT
*
69668518 TACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTAC
69668567 AAAAATACCC
Statistics
Matches: 113, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
80 1 0.01
81 111 0.98
82 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.39
Consensus pattern (82 bp):
TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCTAAT
TTACAGAATTATCATTT
Found at i:69668603 original size:54 final size:54
Alignment explanation
Indices: 69668545--69668684 Score: 192
Period size: 54 Copynumber: 2.6 Consensus size: 54
69668535 ATTACTGTTT
* ** *
69668545 TACCCTCGATTTACAAAATTACAAAAATACCCTTAGTTTGTAAAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAA
* * * *
69668599 TACCC-CTAATTTGTAAAATTACCAAAATACCCTTGGTTTGTGAAATTATCGAAA
1 TACCCTC-AATTTGTAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAA
69668653 TACCCTCAATTTGTAAAATTACCAAAATACCC
1 TACCCTCAATTTGTAAAATTACCAAAATACCC
69668685 CTGATTTACA
Statistics
Matches: 76, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
53 1 0.01
54 74 0.97
55 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (54 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAA
Found at i:69668603 original size:81 final size:81
Alignment explanation
Indices: 69668302--69668603 Score: 246
Period size: 81 Copynumber: 3.7 Consensus size: 81
69668292 AATACTGAAA
** * * * *
69668302 TACCCTCGATTTGTAAAATTACTGAAATA-CCTTCAACTTGTAAAATTACCAAAGTACCCCCGAT
1 TACCCTCGATTTACAAAATTACCGAAATACCCTT-AATTTGTAAAATTACCAAATTACCCTCGAT
69668366 TTACAGAATTACTGTTT
65 TTACAGAATTACTGTTT
* * * *** * * ** * * *** *
69668383 TACCCCCAATTTACATAATTACCGTTTTACCCCTGATTTACATAATTATCGTTTTACCCTCGACT
1 TACCCTCGATTTACAAAATTACCGAAATACCCTTAATTTGTAAAATTACCAAATTACCCTCGATT
*
69668448 TACAGAATTACCGTTT
66 TACAGAATTACTGTTT
* *** * * * * ** *
69668464 TACACTCGATTTACAAAATTACCGTTTTACCCTCAATTTATAGAATTACTATTTTACCCTTGATT
1 TACCCTCGATTTACAAAATTACCGAAATACCCTTAATTTGTAAAATTACCAAATTACCCTCGATT
69668529 TACAGAATTACTGTTT
66 TACAGAATTACTGTTT
** * *
69668545 TACCCTCGATTTACAAAATTACAAAAATACCCTTAGTTTGTAAAATTACCAAAATACCC
1 TACCCTCGATTTACAAAATTACCGAAATACCCTTAATTTGTAAAATTACCAAATTACCC
69668604 CTAATTTGTA
Statistics
Matches: 168, Mismatches: 52, Indels: 2
0.76 0.23 0.01
Matches are distributed among these distances:
81 165 0.98
82 3 0.02
ACGTcount: A:0.33, C:0.23, G:0.08, T:0.36
Consensus pattern (81 bp):
TACCCTCGATTTACAAAATTACCGAAATACCCTTAATTTGTAAAATTACCAAATTACCCTCGATT
TACAGAATTACTGTTT
Found at i:69668707 original size:54 final size:54
Alignment explanation
Indices: 69668545--69668797 Score: 187
Period size: 54 Copynumber: 4.6 Consensus size: 54
69668535 ATTACTGTTT
* ** * *
69668545 TACCCTCGATTTACAAAATTACAAAAATACCCTTAGTTTGTA-AAATTACCA-AAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCTT-GGTT-TACAAATTACCAGAAA
** *
69668599 TACCC-CTAATTTGTAAAATTACCAAAATACCCTTGGTTTGTGAAATTATC-GAAA
1 TACCCTC-AATTTGTAAAATTACCAAAATACCCTTGGTTT-ACAAATTACCAGAAA
* *
69668653 TACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAGTTA-CAGAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCTTGGTTTACAAA-TTACCAGAAA
* * * * * *
69668707 TACCCTTGACTTTCTAAAAATTA-TAGAAATACCATTGGTTTACAAAATTA-CTGAAA
1 TACCC-TCAATTTGT-AAAATTACCA-AAATACCCTTGGTTTAC-AAATTACCAGAAA
* * * * *
69668763 TACCCTTAGTTTGTAGATTTACCAAAACACCCTTG
1 TACCCTCAATTTGTAAAATTACCAAAATACCCTTG
69668798 TAGGATGAAA
Statistics
Matches: 160, Mismatches: 27, Indels: 24
0.76 0.13 0.11
Matches are distributed among these distances:
52 1 0.01
53 8 0.05
54 99 0.62
55 15 0.09
56 34 0.21
57 3 0.02
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.32
Consensus pattern (54 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCTTGGTTTACAAATTACCAGAAA
Found at i:69668774 original size:27 final size:27
Alignment explanation
Indices: 69668558--69668796 Score: 153
Period size: 27 Copynumber: 8.8 Consensus size: 27
69668548 CCTCGATTTA
*
69668558 CAAAATTACAAAAATACCCTTAGTTTG
1 CAAAATTACCAAAATACCCTTAGTTTG
* * *
69668585 TAAAATTACCAAAATACCCCTAATTTG
1 CAAAATTACCAAAATACCCTTAGTTTG
* *
69668612 TAAAATTACCAAAATACCCTTGGTTTG
1 CAAAATTACCAAAATACCCTTAGTTTG
** * * * *
69668639 TGAAATTATCGAAATACCCTCAATTTG
1 CAAAATTACCAAAATACCCTTAGTTTG
* * *
69668666 TAAAATTACCAAAATACCCCT-GATTTA
1 CAAAATTACCAAAATACCCTTAG-TTTG
* *
69668693 CAAAGTTA-CAGAAATACCCTTGACTTT-
1 CAAAATTACCA-AAATACCCTT-AGTTTG
* * * *
69668720 CTAAAAATTA-TAGAAATACCATTGGTTTA
1 C--AAAATTACCA-AAATACCCTTAGTTTG
**
69668749 CAAAATTACTGAAATACCCTTAGTTTG
1 CAAAATTACCAAAATACCCTTAGTTTG
* * * *
69668776 TAGATTTACCAAAACACCCTT
1 CAAAATTACCAAAATACCCTT
69668797 GTAGGATGAA
Statistics
Matches: 165, Mismatches: 39, Indels: 16
0.75 0.18 0.07
Matches are distributed among these distances:
26 2 0.01
27 138 0.84
28 7 0.04
29 18 0.11
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (27 bp):
CAAAATTACCAAAATACCCTTAGTTTG
Found at i:69668892 original size:27 final size:27
Alignment explanation
Indices: 69668815--69668892 Score: 79
Period size: 27 Copynumber: 2.9 Consensus size: 27
69668805 AAATGACTAA
* * *
69668815 AATACCCCTAT-TAGGTAAAAAGATCGT
1 AATACCCCTGTAT-GGTAAAATGACCGT
* *
69668842 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTATGGTAAAATGACCGT
69668869 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTATGGTAAAATGAC
69668893 GAATATGCCC
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
26 1 0.02
27 39 0.95
28 1 0.02
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.23
Consensus pattern (27 bp):
AATACCCCTGTATGGTAAAATGACCGT
Found at i:69670084 original size:25 final size:25
Alignment explanation
Indices: 69670052--69670099 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
69670042 TTATAATATG
* *
69670052 AAAATGACCGTTTTACCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
69670077 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
69670100 GTTTATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:69670150 original size:9 final size:9
Alignment explanation
Indices: 69670138--69670194 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
69670128 TTTGATAAAC
69670138 ATGATATGT
1 ATGATATGT
*
69670147 ATGATATGCAC
1 ATGATATG--T
*
69670158 ATGACATGT
1 ATGATATGT
*
69670167 ATGATATGCAC
1 ATGATATG--T
69670178 ATGATATGT
1 ATGATATGT
69670187 ATGATATG
1 ATGATATG
69670195 CACATGATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:69670161 original size:20 final size:20
Alignment explanation
Indices: 69670136--69670206 Score: 133
Period size: 20 Copynumber: 3.5 Consensus size: 20
69670126 ATTTTGATAA
69670136 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
69670156 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
69670176 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
69670196 ACATGATATGT
1 ACATGATATGT
69670207 TCATAAATGC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:69670183 original size:11 final size:11
Alignment explanation
Indices: 69670147--69670205 Score: 63
Period size: 11 Copynumber: 5.7 Consensus size: 11
69670137 CATGATATGT
69670147 ATGATATGCAC
1 ATGATATGCAC
* *
69670158 ATGACATG--T
1 ATGATATGCAC
69670167 ATGATATGCAC
1 ATGATATGCAC
*
69670178 ATGATATG--T
1 ATGATATGCAC
69670187 ATGATATGCAC
1 ATGATATGCAC
69670198 ATGATATG
1 ATGATATG
69670206 TTCATAAATG
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 15 0.39
11 23 0.61
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:69670309 original size:25 final size:24
Alignment explanation
Indices: 69670253--69670364 Score: 181
Period size: 25 Copynumber: 4.6 Consensus size: 24
69670243 AGGAAGTGCA
69670253 AAAGGGCTTATGCCCCAGTTAT-T
1 AAAGGGCTTATGCCCCAGTTATAT
69670276 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTAT-AT
69670301 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTAT-AT
*
69670326 AAAGGGCTTATGCCCCAGTTATAA
1 AAAGGGCTTATGCCCCAGTTATAT
*
69670350 AAAGGGCTTTTGCCC
1 AAAGGGCTTATGCCC
69670365 TTGTTACTAA
Statistics
Matches: 85, Mismatches: 2, Indels: 3
0.94 0.02 0.03
Matches are distributed among these distances:
23 22 0.26
24 15 0.18
25 48 0.56
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (24 bp):
AAAGGGCTTATGCCCCAGTTATAT
Found at i:69670628 original size:31 final size:31
Alignment explanation
Indices: 69670590--69670653 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
69670580 CGTTTACAAT
*
69670590 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
69670621 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
69670652 AA
1 AA
69670654 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:69683615 original size:21 final size:20
Alignment explanation
Indices: 69683577--69683616 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
69683567 CTCTTGAAAC
*
69683577 AGGGCACACGCTCGTGTGGA
1 AGGGCACACGCCCGTGTGGA
*
69683597 AGGGCAACACGCCCTTGTGG
1 AGGGC-ACACGCCCGTGTGG
69683617 TCATTATAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.20, C:0.28, G:0.38, T:0.15
Consensus pattern (20 bp):
AGGGCACACGCCCGTGTGGA
Found at i:69684873 original size:49 final size:49
Alignment explanation
Indices: 69684800--69684922 Score: 158
Period size: 49 Copynumber: 2.5 Consensus size: 49
69684790 TGCCAACGCA
* *
69684800 ATGTCCCAGACATGGTCTTACACTGGCTTTCATATAGCGAGCCT-GATGCC
1 ATGTCCCAGACA-GGTCTTACACTGGCTCTCATATAGCG-GCCTCAATGCC
* * * **
69684850 ATGTCCCGGACAGGTCTTACACTGGCTCTCATCTATCGGTGTCAATGCC
1 ATGTCCCAGACAGGTCTTACACTGGCTCTCATATAGCGGCCTCAATGCC
69684899 ATGTCCCAGACAGGTCTTACACTG
1 ATGTCCCAGACAGGTCTTACACTG
69684923 ACACACAACA
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
48 2 0.03
49 51 0.80
50 11 0.17
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.28
Consensus pattern (49 bp):
ATGTCCCAGACAGGTCTTACACTGGCTCTCATATAGCGGCCTCAATGCC
Found at i:69684960 original size:44 final size:44
Alignment explanation
Indices: 69684897--69685009 Score: 172
Period size: 44 Copynumber: 2.6 Consensus size: 44
69684887 GGTGTCAATG
* *
69684897 CCATGTCCCAGACAGGTCTTACACTGACACACAACAAGCTGACA
1 CCATGTCCCAGACAGGTCTTACACTGAAACACAACAAGCTAACA
* * *
69684941 CCATGTCCCAGACAGGTCTTAGAATGAAACACAACAAGCTAACG
1 CCATGTCCCAGACAGGTCTTACACTGAAACACAACAAGCTAACA
*
69684985 CCATGTCCCAGACAAGTCTTACACT
1 CCATGTCCCAGACAGGTCTTACACT
69685010 AGCTTGTATA
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 61 1.00
ACGTcount: A:0.35, C:0.32, G:0.16, T:0.18
Consensus pattern (44 bp):
CCATGTCCCAGACAGGTCTTACACTGAAACACAACAAGCTAACA
Found at i:69687419 original size:28 final size:28
Alignment explanation
Indices: 69687387--69687457 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 28
69687377 TACAATTTCT
*
69687387 AGGTACTATGTACTGGTGTTACAGTTCC
1 AGGTACTATGTACTGGTGATACAGTTCC
* * * *
69687415 AGGTACTCTGT-GTCGGTGATATATTTCC
1 AGGTACTATGTACT-GGTGATACAGTTCC
*
69687443 AAGTACTATGTACTG
1 AGGTACTATGTACTG
69687458 ATGGTGGATA
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
27 1 0.03
28 31 0.94
29 1 0.03
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.37
Consensus pattern (28 bp):
AGGTACTATGTACTGGTGATACAGTTCC
Found at i:69688219 original size:23 final size:23
Alignment explanation
Indices: 69688192--69688235 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
69688182 GGTCTTAGAA
69688192 AATAGTTCTTAATAAATCTTAAT
1 AATAGTTCTTAATAAATCTTAAT
69688215 AATAGTTCTTAATAAATCTTA
1 AATAGTTCTTAATAAATCTTA
69688236 CTCGCATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.43, C:0.09, G:0.05, T:0.43
Consensus pattern (23 bp):
AATAGTTCTTAATAAATCTTAAT
Found at i:69688224 original size:13 final size:13
Alignment explanation
Indices: 69688192--69688229 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
69688182 GGTCTTAGAA
69688192 AATAGTTCTTAAT
1 AATAGTTCTTAAT
69688205 AA-A--TCTTAAT
1 AATAGTTCTTAAT
69688215 AATAGTTCTTAAT
1 AATAGTTCTTAAT
69688228 AA
1 AA
69688230 ATCTTACTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
10 9 0.41
11 1 0.05
12 1 0.05
13 11 0.50
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (13 bp):
AATAGTTCTTAAT
Found at i:69689588 original size:13 final size:14
Alignment explanation
Indices: 69689562--69689594 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
69689552 GAGCTCGCAT
69689562 AAAACATATCTTTA
1 AAAACATATCTTTA
69689576 AAAACATAT-TTTA
1 AAAACATATCTTTA
69689589 AAAACA
1 AAAACA
69689595 GAGTCTCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.30
Consensus pattern (14 bp):
AAAACATATCTTTA
Found at i:69694176 original size:80 final size:80
Alignment explanation
Indices: 69694043--69694196 Score: 272
Period size: 80 Copynumber: 1.9 Consensus size: 80
69694033 TAATGTGTAA
* *
69694043 TGTTACTGCTCCAAACTCTTCTATTGGAAACTTTGACGGCTACTCTTGTTCCACTTTATGTTCGA
1 TGTTACAGCTCCAAACTCTTCTATTGGAAAATTTGACGGCTACTCTTGTTCCACTTTATGTTCGA
69694108 ATAGAACATCAACTT
66 ATAGAACATCAACTT
* *
69694123 TGTTACAGGTCCAAACTCTTCTATTGGAAAATTTGACGGCTACTTTTGTTCCACTTTATGTTCGA
1 TGTTACAGCTCCAAACTCTTCTATTGGAAAATTTGACGGCTACTCTTGTTCCACTTTATGTTCGA
69694188 ATAGAACAT
66 ATAGAACAT
69694197 TAAATTTGGT
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
80 70 1.00
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (80 bp):
TGTTACAGCTCCAAACTCTTCTATTGGAAAATTTGACGGCTACTCTTGTTCCACTTTATGTTCGA
ATAGAACATCAACTT
Found at i:69696096 original size:119 final size:120
Alignment explanation
Indices: 69695920--69696142 Score: 337
Period size: 119 Copynumber: 1.9 Consensus size: 120
69695910 TACTCGTTCA
* *
69695920 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGTT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
*
69695985 ATAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
69696040 AATGCCTTCGGG-C-TCAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 AATGCCTTCGGGACAT-AGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGG
* * *
69696102 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
69696143 CATCATTCAA
Statistics
Matches: 94, Mismatches: 6, Indels: 7
0.88 0.06 0.07
Matches are distributed among these distances:
118 2 0.02
119 72 0.77
120 20 0.21
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:69696126 original size:79 final size:80
Alignment explanation
Indices: 69695918--69696142 Score: 228
Period size: 79 Copynumber: 2.8 Consensus size: 80
69695908 GCTACTCGTT
* * * * * *
69695918 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA-CAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCACCAAA-GCCTTCGGGA-CTCAGCCC
*
69695981 GG-TTATAGTAACTCGCA
64 GGAAT-TAGTAACTCGCA
* * *
69695998 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTCAGCCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCACCAAAGCCTTCGGGACTCAGCCCGG
69696062 AATTAGTAACTCGCA
66 AATTAGTAACTCGCA
** * * *
69696077 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA-CAAAGCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAACCCGGATATAGTAAC-TAGCACCAAAGCCTTCGGGACTCAGCCC
69696140 GGA
64 GGA
69696143 CATCATTCAA
Statistics
Matches: 123, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.02
79 58 0.47
80 57 0.46
81 5 0.04
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCACCAAAGCCTTCGGGACTCAGCCCGG
AATTAGTAACTCGCA
Found at i:69696142 original size:40 final size:40
Alignment explanation
Indices: 69695899--69696142 Score: 275
Period size: 40 Copynumber: 6.1 Consensus size: 40
69695889 CGGAATTTAA
** *
69695899 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
69695939 CCGGTTATAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
69695979 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
69696019 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTCAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
69696058 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
69696098 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
69696138 CCGGA
1 CCGGA
69696143 CATCATTCAA
Statistics
Matches: 175, Mismatches: 20, Indels: 18
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 35 0.20
40 123 0.70
41 15 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:69704278 original size:119 final size:120
Alignment explanation
Indices: 69704102--69704324 Score: 337
Period size: 119 Copynumber: 1.9 Consensus size: 120
69704092 TACTCGTTCA
* *
69704102 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGTT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
*
69704167 ATAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
69704222 AATGCCTTCGGG-C-TCAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 AATGCCTTCGGGACAT-AGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGG
* * *
69704284 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
69704325 CATCATTCAA
Statistics
Matches: 94, Mismatches: 6, Indels: 7
0.88 0.06 0.07
Matches are distributed among these distances:
118 2 0.02
119 72 0.77
120 20 0.21
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:69704308 original size:79 final size:80
Alignment explanation
Indices: 69704100--69704324 Score: 228
Period size: 79 Copynumber: 2.8 Consensus size: 80
69704090 GCTACTCGTT
* * * * * *
69704100 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA-CAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCACCAAA-GCCTTCGGGA-CTCAGCCC
*
69704163 GG-TTATAGTAACTCGCA
64 GGAAT-TAGTAACTCGCA
* * *
69704180 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTCAGCCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCACCAAAGCCTTCGGGACTCAGCCCGG
69704244 AATTAGTAACTCGCA
66 AATTAGTAACTCGCA
** * * *
69704259 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA-CAAAGCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAACCCGGATATAGTAAC-TAGCACCAAAGCCTTCGGGACTCAGCCC
69704322 GGA
64 GGA
69704325 CATCATTCAA
Statistics
Matches: 123, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.02
79 58 0.47
80 57 0.46
81 5 0.04
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCACCAAAGCCTTCGGGACTCAGCCCGG
AATTAGTAACTCGCA
Found at i:69704324 original size:40 final size:40
Alignment explanation
Indices: 69704081--69704324 Score: 275
Period size: 40 Copynumber: 6.1 Consensus size: 40
69704071 CGGAATTTAA
** *
69704081 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
69704121 CCGGTTATAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
69704161 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
69704201 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTCAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
69704240 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
69704280 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
69704320 CCGGA
1 CCGGA
69704325 CATCATTCAA
Statistics
Matches: 175, Mismatches: 20, Indels: 18
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 35 0.20
40 123 0.70
41 15 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:69708184 original size:28 final size:29
Alignment explanation
Indices: 69708150--69708212 Score: 101
Period size: 28 Copynumber: 2.2 Consensus size: 29
69708140 GATGTTTAAG
69708150 TACTTAAATCATAGTTGAATGGTAAG-TT
1 TACTTAAATCATAGTTGAATGGTAAGTTT
**
69708178 TACTTAAATTGTAGTTGAATGGTAAGTTT
1 TACTTAAATCATAGTTGAATGGTAAGTTT
69708207 TACTTA
1 TACTTA
69708213 TTAAGCATAC
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 24 0.75
29 8 0.25
ACGTcount: A:0.33, C:0.06, G:0.17, T:0.43
Consensus pattern (29 bp):
TACTTAAATCATAGTTGAATGGTAAGTTT
Found at i:69731892 original size:21 final size:21
Alignment explanation
Indices: 69731868--69731913 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
69731858 AAATGAAAGG
69731868 TTGTTGATAGATAAACAACTT
1 TTGTTGATAGATAAACAACTT
*
69731889 TTGTTGATAGGTAAACAACTT
1 TTGTTGATAGATAAACAACTT
69731910 TTGT
1 TTGT
69731914 AAAGTGAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.33, C:0.09, G:0.17, T:0.41
Consensus pattern (21 bp):
TTGTTGATAGATAAACAACTT
Found at i:69732696 original size:25 final size:24
Alignment explanation
Indices: 69732660--69732711 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
69732650 CACAAACGCA
*
69732660 GCTCTTTATGAGCGTCCTGATATAG
1 GCTCTTTATGAGCGTCCTAATAT-G
* *
69732685 GCTCTTTTTGAGCTTCCTAATATG
1 GCTCTTTATGAGCGTCCTAATATG
69732709 GCT
1 GCT
69732712 AACTTGAACT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 4 0.17
25 20 0.83
ACGTcount: A:0.17, C:0.21, G:0.21, T:0.40
Consensus pattern (24 bp):
GCTCTTTATGAGCGTCCTAATATG
Found at i:69735449 original size:30 final size:29
Alignment explanation
Indices: 69735415--69735471 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
69735405 GATGAAAAAT
*
69735415 TAAATACTGAATTTTTAGTATAGAAATTTA
1 TAAATACTGAATTTATAGTATA-AAATTTA
* *
69735445 TAAATATTGAATTTATATTATAAAATT
1 TAAATACTGAATTTATAGTATAAAATT
69735472 GTTTGGTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.46
Consensus pattern (29 bp):
TAAATACTGAATTTATAGTATAAAATTTA
Found at i:69742512 original size:47 final size:45
Alignment explanation
Indices: 69742400--69742529 Score: 140
Period size: 47 Copynumber: 2.8 Consensus size: 45
69742390 GGTTATGTGT
69742400 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAG-CACATTATGA
* * *
69742446 GAGCCATTGTAAGACCATGTCTGGGACATGGCAT-TG-ACATTGA-GA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCACATT-ATGA
*
69742491 CGAGTACTAGTGTAAGACATGTCTGGGATATGCATCAGC
1 -GAG--CTAGTGTAAGACATGTCTGGGACATGCATCAGC
69742530 CTTGGGACGT
Statistics
Matches: 69, Mismatches: 7, Indels: 14
0.77 0.08 0.16
Matches are distributed among these distances:
45 7 0.10
46 20 0.29
47 29 0.42
48 13 0.19
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (45 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCACATTATGA
Found at i:69742656 original size:50 final size:49
Alignment explanation
Indices: 69742600--69742712 Score: 131
Period size: 49 Copynumber: 2.3 Consensus size: 49
69742590 GTCTGAAACT
* * * *
69742600 ATGTCTGGGACATGGCATCGGCATGGTTATG-TGAG-AGCTAGTGTAAGACC
1 ATGTCTGGGACATGGCATCAGCATCG--AAGATG-GCAGCCAGTGTAAGACC
* *
69742650 ATGTCTGGTACATGGCATCAGCCTCGAAGATGGCAGCCAGTGTAAGACC
1 ATGTCTGGGACATGGCATCAGCATCGAAGATGGCAGCCAGTGTAAGACC
69742699 ATGTCTGGGACATG
1 ATGTCTGGGACATG
69742713 AATCGACACT
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
48 3 0.06
49 29 0.54
50 22 0.41
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.24
Consensus pattern (49 bp):
ATGTCTGGGACATGGCATCAGCATCGAAGATGGCAGCCAGTGTAAGACC
Done.