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 122 of 343
Found at i:40962445 original size:27 final size:27
Alignment explanation
Indices: 40962372--40962456 Score: 100
Period size: 27 Copynumber: 3.1 Consensus size: 27
40962362 AGCATGGCTG
* * *
40962372 CCAGAACAGATAA-TGTGACAGAGTCA
1 CCAGATCAGATAATTGTGGCAGAGCCA
**
40962398 CCAGATACAGATAATCATGGCAGAGCCA
1 CCAGAT-CAGATAATTGTGGCAGAGCCA
*
40962426 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGATCAGATAATTGTGGCAGAGCCA
40962453 CCAG
1 CCAG
40962457 GATGCTTCCT
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
26 5 0.10
27 29 0.59
28 15 0.31
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.16
Consensus pattern (27 bp):
CCAGATCAGATAATTGTGGCAGAGCCA
Found at i:40967449 original size:126 final size:126
Alignment explanation
Indices: 40967224--40967475 Score: 364
Period size: 126 Copynumber: 2.0 Consensus size: 126
40967214 TCACATGTCC
* ** * * *
40967224 GTGTCAATGGCCCATGTCTCTCACACAGCCATGACACGCTCGTGTCTCAGCCCGTGTGCAAAAAC
1 GTGTCAATGGCCCATGTCCCTCACACAGCCACAACACGCCCGTGTCTCAGCCAGTGTGAAAAAAC
40967289 AATGACATTCTATTTTTGACGTCAGCATGCTCAAGATGTCAAACGGCCAAGGCACACGCCT
66 AATGACATTCTATTTTTGACGTCAGCATGCTCAAGATGTCAAACGGCCAAGGCACACGCCT
* * *
40967350 GTGTCAATGGCCCGTGTCCCTCACACGGCCACAATACGCCCGTGTACT-AGCCAGTGTGAAAAAA
1 GTGTCAATGGCCCATGTCCCTCACACAGCCACAACACGCCCGTGT-CTCAGCCAGTGTGAAAAAA
* * *
40967414 C-ATGGACATTCTATTTTTGACGTCATCATGCTCAAGATGTCACATGGCCAAGGCACACGCCT
65 CAAT-GACATTCTATTTTTGACGTCAGCATGCTCAAGATGTCAAACGGCCAAGGCACACGCCT
40967476 ATGTGCTTTG
Statistics
Matches: 112, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
125 2 0.02
126 108 0.96
127 2 0.02
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (126 bp):
GTGTCAATGGCCCATGTCCCTCACACAGCCACAACACGCCCGTGTCTCAGCCAGTGTGAAAAAAC
AATGACATTCTATTTTTGACGTCAGCATGCTCAAGATGTCAAACGGCCAAGGCACACGCCT
Found at i:40968383 original size:47 final size:47
Alignment explanation
Indices: 40968314--40968534 Score: 181
Period size: 47 Copynumber: 4.7 Consensus size: 47
40968304 GGTACGGTGA
*
40968314 CGATGCCATGTTCCAGACATGGTCTTACACTGGCTTACATCTCA-AGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCT-AGAGT
* * *
40968361 CGATGCCATGTCCCATATATGGTCTTACACTGAC-TATCATCTAGTAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTA-CATCTAG-AGT
* * * * *
40968409 CGATG-CATGTCCCAGACAT-GTCTTACACTGGATTACGTTTTGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTAGA-GT
* * *
40968455 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCACT-CGTCTCA-A-T
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGC-TTACATCT-AGAGT
* *
40968499 ACCGATGCCATGTCCTAGACATGGTCTTACATTGGC
1 --CGATGCCATGTCCCAGACATGGTCTTACACTGGC
40968535 CCACACACAA
Statistics
Matches: 142, Mismatches: 21, Indels: 21
0.77 0.11 0.11
Matches are distributed among these distances:
45 1 0.01
46 59 0.42
47 63 0.44
48 19 0.13
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTAGAGT
Found at i:40968511 original size:93 final size:95
Alignment explanation
Indices: 40968314--40968529 Score: 230
Period size: 93 Copynumber: 2.3 Consensus size: 95
40968304 GGTACGGTGA
* * * * *
40968314 CGATGCCATGTTCCAGACATGGTCTTACACTGGCTTACATCTCAAGTCGATGCCATGTCCCATAT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGATTACATCTCAAGCCGATGCCATGTCCCAGAC
* *
40968379 ATGGTCTTACACTGACTATCATCTAGTAGT
66 ATGGTCTTACACTGACTATCATCTAATAGC
* * * *
40968409 CGATG-CATGTCCCAGACAT-GTCTTACACTGGATTACGTTTTGAGGCCGATG-CATGTCCCAGA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGATTAC-ATCTCAAGCCGATGCCATGTCCCAGA
*
40968471 CAT-GTCTTACACT-AGC-ACTCGTCTCAATA-C
65 CATGGTCTTACACTGA-CTA-TCATCT-AATAGC
*
40968501 CGATGCCATGTCCTAGACATGGTCTTACA
1 CGATGCCATGTCCCAGACATGGTCTTACA
40968530 TTGGCCCACA
Statistics
Matches: 102, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
91 2 0.02
92 21 0.21
93 44 0.43
94 30 0.29
95 5 0.05
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (95 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGATTACATCTCAAGCCGATGCCATGTCCCAGAC
ATGGTCTTACACTGACTATCATCTAATAGC
Found at i:40975835 original size:19 final size:19
Alignment explanation
Indices: 40975811--40975848 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
40975801 ACTATTTTTC
40975811 ATAAGT-TGCAAAATAGGTG
1 ATAAGTGTGCAAAAT-GGTG
*
40975830 ATAAGTGTGCGAAATGGTG
1 ATAAGTGTGCAAAATGGTG
40975849 GGATTTTGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.37, C:0.05, G:0.32, T:0.26
Consensus pattern (19 bp):
ATAAGTGTGCAAAATGGTG
Found at i:40981022 original size:41 final size:41
Alignment explanation
Indices: 40980962--40981095 Score: 202
Period size: 41 Copynumber: 3.3 Consensus size: 41
40980952 TATTCGGATG
*
40980962 ATATCGGGGCTAAGACCCGAAGGCATTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTTGTGCTAGTGACT
*
40981003 ATATCCGGGCTAAGTCCCGAAGGCATTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTTGTGCTAGTGACT
* *
40981044 ATATCCAGGCTAAGACCCGAAGGCA-TTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTTGTGCTAG-TGACT
40981084 ATATCC-GGCTAA
1 ATATCCGGGCTAA
40981096 ATCCCAAAGT
Statistics
Matches: 87, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
39 6 0.07
40 17 0.20
41 64 0.74
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (41 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTTGTGCTAGTGACT
Found at i:40982503 original size:26 final size:26
Alignment explanation
Indices: 40982458--40982525 Score: 91
Period size: 26 Copynumber: 2.5 Consensus size: 26
40982448 GGGCGTTACA
* *
40982458 TACTGAAAGACCCTTGGTTTACAAAAT
1 TACTG-AATACCCTTAGTTTACAAAAT
40982485 TACTGAATACCCTTAGTTTACAAAAT
1 TACTGAATACCCTTAGTTTACAAAAT
*
40982511 TACCAGAATACCCTT
1 TA-CTGAATACCCTT
40982526 GATTAGAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
26 21 0.57
27 16 0.43
ACGTcount: A:0.37, C:0.22, G:0.10, T:0.31
Consensus pattern (26 bp):
TACTGAATACCCTTAGTTTACAAAAT
Found at i:40982693 original size:27 final size:27
Alignment explanation
Indices: 40982490--40982707 Score: 204
Period size: 27 Copynumber: 8.1 Consensus size: 27
40982480 AAAATTACTG
* ** *
40982490 AATACCCTTAGTTTACAAAATTACCAG
1 AATACCCTTAATTTGTAAAATTACCAA
* * *
40982517 AATACCCTTGATTAGAAAAATTACCAA
1 AATACCCTTAATTTGTAAAATTACCAA
* *
40982544 AATACCCCTAGTTTGTAAAATTACCAA
1 AATACCCTTAATTTGTAAAATTACCAA
* * * *
40982571 AATACCATTGATTTGTGAAATTACCGA
1 AATACCCTTAATTTGTAAAATTACCAA
* * *
40982598 AATACCCTTAACTTGTAAAATTATCGA
1 AATACCCTTAATTTGTAAAATTACCAA
* *
40982625 AATACCCTCAATTTTTAAAATTACCAA
1 AATACCCTTAATTTGTAAAATTACCAA
* *
40982652 AATA-CATCTAATTTGAAAAATTACCAA
1 AATACCCT-TAATTTGTAAAATTACCAA
** * *
40982679 AATACCCTTGGTTTGTAGATTTACCAA
1 AATACCCTTAATTTGTAAAATTACCAA
40982706 AA
1 AA
40982708 CACCATTGTA
Statistics
Matches: 152, Mismatches: 37, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
26 2 0.01
27 148 0.97
28 2 0.01
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (27 bp):
AATACCCTTAATTTGTAAAATTACCAA
Found at i:40982695 original size:81 final size:81
Alignment explanation
Indices: 40982506--40982707 Score: 228
Period size: 81 Copynumber: 2.5 Consensus size: 81
40982496 CTTAGTTTAC
* * * *
40982506 AAAATTACCAGAATACCCTTGATTAGAAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
1 AAAATTACCAAAATACCCTTGATTTGTAAAATTACCAAAATACCCCTAATTTGTAAAATTACCAA
* *
40982571 AATACCATTGATTTGT
66 AATACCATTAATTTGA
* * * * * * *
40982587 GAAATTACCGAAATACCCTTAACTTGTAAAATTATCGAAATA-CCCTCAATTTTTAAAATTACCA
1 AAAATTACCAAAATACCCTTGATTTGTAAAATTACCAAAATACCCCT-AATTTGTAAAATTACCA
40982651 AAATA-CATCTAATTTGA
65 AAATACCAT-TAATTTGA
* * *
40982668 AAAATTACCAAAATACCCTTGGTTTGTAGATTTACCAAAA
1 AAAATTACCAAAATACCCTTGATTTGTAAAATTACCAAAA
40982708 CACCATTGTA
Statistics
Matches: 97, Mismatches: 22, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
80 7 0.07
81 90 0.93
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.31
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTTGATTTGTAAAATTACCAAAATACCCCTAATTTGTAAAATTACCAA
AATACCATTAATTTGA
Found at i:40983000 original size:41 final size:41
Alignment explanation
Indices: 40982955--40983074 Score: 168
Period size: 41 Copynumber: 2.9 Consensus size: 41
40982945 AGGAAGAAAT
*
40982955 TGAGGATCGCATGGTTGCTTGACAACCGTGGATCCACCAAC
1 TGAGGATCGCATGGTTGCTTGAAAACCGTGGATCCACCAAC
** * *
40982996 TGAGGATCGCATGGTTGCTTGATGACCGTGGATCCACCGAT
1 TGAGGATCGCATGGTTGCTTGAAAACCGTGGATCCACCAAC
* * *
40983037 TAAGGATCGCATGGTTGCTAGAAAATCGTGGATCCACC
1 TGAGGATCGCATGGTTGCTTGAAAACCGTGGATCCACC
40983075 GGTGGCTTTT
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 70 1.00
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (41 bp):
TGAGGATCGCATGGTTGCTTGAAAACCGTGGATCCACCAAC
Found at i:40983269 original size:22 final size:22
Alignment explanation
Indices: 40983218--40983270 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
40983208 CCAATTATTA
*
40983218 TGATTATGGCTTTGAGCCAACC
1 TGATTATGGCTCTGAGCCAACC
* * *
40983240 T-ACATATGGCTCTGTGGCAACC
1 TGA-TTATGGCTCTGAGCCAACC
40983262 TGATTATGG
1 TGATTATGG
40983271 TTGTGTGCCA
Statistics
Matches: 24, Mismatches: 5, Indels: 4
0.73 0.15 0.12
Matches are distributed among these distances:
21 1 0.04
22 22 0.92
23 1 0.04
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.32
Consensus pattern (22 bp):
TGATTATGGCTCTGAGCCAACC
Found at i:40985006 original size:17 final size:17
Alignment explanation
Indices: 40984984--40985017 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
40984974 ATAGGGTTAG
40984984 AACTTATTATTTTGAGT
1 AACTTATTATTTTGAGT
40985001 AACTTATTATTTTGAGT
1 AACTTATTATTTTGAGT
40985018 CTTTGAGACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.06, G:0.12, T:0.53
Consensus pattern (17 bp):
AACTTATTATTTTGAGT
Found at i:40994720 original size:21 final size:21
Alignment explanation
Indices: 40994669--40994721 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
40994659 GGGTGTGGGG
*
40994669 CACGAGCGTGTTACCCTCCTA
1 CACGGGCGTGTTACCCTCCTA
* * *
40994690 GACTGACGTGTTACCCTTCC-A
1 CACGGGCGTGTTACCC-TCCTA
40994711 CACGGGCGTGT
1 CACGGGCGTGT
40994722 GCCCTGTTTT
Statistics
Matches: 24, Mismatches: 7, Indels: 2
0.73 0.21 0.06
Matches are distributed among these distances:
21 21 0.88
22 3 0.12
ACGTcount: A:0.17, C:0.34, G:0.25, T:0.25
Consensus pattern (21 bp):
CACGGGCGTGTTACCCTCCTA
Found at i:40996372 original size:180 final size:180
Alignment explanation
Indices: 40996089--40996420 Score: 513
Period size: 180 Copynumber: 1.8 Consensus size: 180
40996079 TCTGTTGATT
* *
40996089 TTTCTAGAAACTAGACTCAAATATATTCTTACCATAAAATTTTCAGAATTTTTGGCTTAGCCAAT
1 TTTCCAGAAACTAGACTCAAATATATTCTTACCATAAAATTTTCAGAATTTTTAGCTTAGCCAAT
** **
40996154 TAGTAAAGTTTATTCATTAAATTTACCCCTATTTCACTGTCCAAAAGTTTTGACCTCTCTTAACT
66 TAGTAAAGTTTATTCATTAAAGATACCCCTATTTCACTGTCCAAAAGTTCCGACCTCTCTTAACT
*
40996219 AAAAACTATTTTTCTCATGGTACGAGACTCTAAATTAATAACTACTAATA
131 AAAAACTATTTATCTCATGGTACGAGACTCTAAATTAATAACTACTAATA
* *
40996269 TTTCCAGAAACTAGACT-AACATATATTCTTACCATAAAATTTTTAGAATTTTTAGTTTAGCCAA
1 TTTCCAGAAACTAGACTCAA-ATATATTCTTACCATAAAATTTTCAGAATTTTTAGCTTAGCCAA
* * * * *
40996333 TTAGTACATTTTATTCATTAAAGATACCCCTATTTCACTGTCCAATAGTTCCGATCTCTCTTCAC
65 TTAGTAAAGTTTATTCATTAAAGATACCCCTATTTCACTGTCCAAAAGTTCCGACCTCTCTTAAC
*
40996398 TAAAAATTATTTATCTCATGGTA
130 TAAAAACTATTTATCTCATGGTA
40996421 TAGATCTCAA
Statistics
Matches: 136, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
179 2 0.01
180 134 0.99
ACGTcount: A:0.34, C:0.19, G:0.08, T:0.39
Consensus pattern (180 bp):
TTTCCAGAAACTAGACTCAAATATATTCTTACCATAAAATTTTCAGAATTTTTAGCTTAGCCAAT
TAGTAAAGTTTATTCATTAAAGATACCCCTATTTCACTGTCCAAAAGTTCCGACCTCTCTTAACT
AAAAACTATTTATCTCATGGTACGAGACTCTAAATTAATAACTACTAATA
Found at i:40997103 original size:50 final size:50
Alignment explanation
Indices: 40996980--40997255 Score: 292
Period size: 50 Copynumber: 5.5 Consensus size: 50
40996970 ACCGAAGCTC
* *
40996980 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
1 TCTGATACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
* * * * *
40997030 TCT-AGTGCATGCAT--TAGCTTGCACTTAGTACTACACATGGGACTTATCCA
1 TCTGA-TACA--CATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
* ** *
40997080 TCTGATACACATAGTAGCCTGCACTTAGTACTACACATGTGATCGAAGTTAA
1 TCTGATACACATAGTAGCCTGCACTTAGTACTACACATGCGA-CCTA-TCAA
* *
40997132 -CGGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
1 TCTGATACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
* * * *
40997181 TCT-AGTACACATAGTAGCCTGCACTTACTACTACACATGTGACCTAACCA
1 TCTGA-TACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
* *
40997231 TCTGATTCACGTAGTAGCCTGCACT
1 TCTGATACACATAGTAGCCTGCACT
40997256 GGAAGTCTAT
Statistics
Matches: 187, Mismatches: 28, Indels: 22
0.79 0.12 0.09
Matches are distributed among these distances:
48 3 0.02
49 3 0.02
50 134 0.72
51 42 0.22
52 5 0.03
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (50 bp):
TCTGATACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
Found at i:40997246 original size:151 final size:150
Alignment explanation
Indices: 40996983--40997255 Score: 431
Period size: 151 Copynumber: 1.8 Consensus size: 150
40996973 GAAGCTCTCT
* *
40996983 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTAGTGCATGCATTAGC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTAGTACA-GCATTAGC
* * * *
40997048 TTGCACTTAGTACTACACATGGGACTTATCCATCTGATACACATAGTAGCCTGCACTTAGTACTA
65 CTGCACTTACTACTACACATGGGACCTAACCATCTGATACACATAGTAGCCTGCACTTAGTACTA
40997113 CACATGTGATCGAAGTTAACG
130 CACATGTGATCGAAGTTAACG
40997134 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTAGTACA-CATAGTAG
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTAGTACAGCAT--TAG
* * *
40997198 CCTGCACTTACTACTACACATGTGACCTAACCATCTGATTCACGTAGTAGCCTGCACT
64 CCTGCACTTACTACTACACATGGGACCTAACCATCTGATACACATAGTAGCCTGCACT
40997256 GGAAGTCTAT
Statistics
Matches: 111, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
149 3 0.03
151 108 0.97
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.27
Consensus pattern (150 bp):
GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTAGTACAGCATTAGCC
TGCACTTACTACTACACATGGGACCTAACCATCTGATACACATAGTAGCCTGCACTTAGTACTAC
ACATGTGATCGAAGTTAACG
Found at i:40997775 original size:27 final size:27
Alignment explanation
Indices: 40997745--40997825 Score: 108
Period size: 27 Copynumber: 3.0 Consensus size: 27
40997735 AATCTCATAT
* *
40997745 CTGTAGGCTAGTATTACTGAAATACCC
1 CTGTAGGATAGAATTACTGAAATACCC
*
40997772 CTGTAGGATAGAATTACTGAAATGCCC
1 CTGTAGGATAGAATTACTGAAATACCC
* * *
40997799 TTGTAGGGTAGAATTATTGAAATACCC
1 CTGTAGGATAGAATTACTGAAATACCC
40997826 ATGGTTTACA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (27 bp):
CTGTAGGATAGAATTACTGAAATACCC
Found at i:40997858 original size:26 final size:27
Alignment explanation
Indices: 40997810--40997867 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 27
40997800 TGTAGGGTAG
* * *
40997810 AATTATTGAAATACCCATGGTTTACAA
1 AATTACTGAAATACCCATAGTTTAAAA
*
40997837 AATTACTG-AATACCCTTAGTTTAAAA
1 AATTACTGAAATACCCATAGTTTAAAA
40997863 AATTA
1 AATTA
40997868 ACAAAATACC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 20 0.74
27 7 0.26
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (27 bp):
AATTACTGAAATACCCATAGTTTAAAA
Found at i:40997940 original size:27 final size:27
Alignment explanation
Indices: 40997861--40998118 Score: 171
Period size: 27 Copynumber: 9.5 Consensus size: 27
40997851 CTTAGTTTAA
* * *
40997861 AAAATTAACAAAATACCCTCGATTAGC
1 AAAATTACCAAAATACCCTCGATTTGT
* *
40997888 AAAATTACCAAAGTATCCCT-GGTTTGT
1 AAAATTACCAAAATA-CCCTCGATTTGT
*
40997915 AAAATTACCAAAATACCCTAGATTTGT
1 AAAATTACCAAAATACCCTCGATTTGT
** * * ** *
40997942 GGAATTACCGAAATACCCTTGACCTAT
1 AAAATTACCAAAATACCCTCGATTTGT
** *** *
40997969 AAAATTACTGAAATACCCTCGGCCTAT
1 AAAATTACCAAAATACCCTCGATTTGT
* * **
40997996 AAAATTACCGAAATGCCCTCGACCTGT
1 AAAATTACCAAAATACCCTCGATTTGT
* * * * *
40998023 AAAATTATCGAAACAACCTCGACTTGT
1 AAAATTACCAAAATACCCTCGATTTGT
*
40998050 AAAATTACCAAAATACCC-CTGATTTGGA
1 AAAATTACCAAAATACCCTC-GATTT-GT
* *
40998078 AAAATTACCGAAAA-ACCCTTGATTTGG
1 AAAATTACC-AAAATACCCTCGATTTGT
*
40998105 AAAATTACAAAAAT
1 AAAATTACCAAAAT
40998119 GCCCCTAATT
Statistics
Matches: 187, Mismatches: 37, Indels: 14
0.79 0.16 0.06
Matches are distributed among these distances:
26 9 0.05
27 151 0.81
28 23 0.12
29 4 0.02
ACGTcount: A:0.41, C:0.22, G:0.11, T:0.26
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTCGATTTGT
Found at i:40998095 original size:28 final size:27
Alignment explanation
Indices: 40998050--40998129 Score: 99
Period size: 28 Copynumber: 2.9 Consensus size: 27
40998040 CTCGACTTGT
40998050 AAAATTACCAAAATACCCCTGATTTGG
1 AAAATTACCAAAATACCCCTGATTTGG
*
40998077 AAAAATTACCGAAAA-ACCCTTGATTTGG
1 -AAAATTACC-AAAATACCCCTGATTTGG
* * *
40998105 AAAATTACAAAAATGCCCCTAATTT
1 AAAATTACCAAAATACCCCTGATTT
40998130 ACAAATTTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
26 4 0.09
27 16 0.36
28 21 0.47
29 4 0.09
ACGTcount: A:0.44, C:0.20, G:0.10, T:0.26
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGATTTGG
Found at i:40998109 original size:55 final size:55
Alignment explanation
Indices: 40998023--40998129 Score: 135
Period size: 55 Copynumber: 1.9 Consensus size: 55
40998013 CTCGACCTGT
* * * *
40998023 AAAATTATCGAAACAACCTCGACTTGTAAAATTACCAAAATACCCCTGATTTGGA
1 AAAATTACCGAAACAACCTCGACTTGGAAAATTACAAAAATACCCCTAATTTGGA
* * *
40998078 AAAATTACCGAAA-AACCCTTGATTTGGAAAATTACAAAAATGCCCCTAATTT
1 AAAATTACCGAAACAA-CCTCGACTTGGAAAATTACAAAAATACCCCTAATTT
40998130 ACAAATTTAT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
54 2 0.05
55 42 0.95
ACGTcount: A:0.43, C:0.21, G:0.10, T:0.26
Consensus pattern (55 bp):
AAAATTACCGAAACAACCTCGACTTGGAAAATTACAAAAATACCCCTAATTTGGA
Found at i:40998200 original size:27 final size:27
Alignment explanation
Indices: 40998160--40998212 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
40998150 TTGACTTTCA
*
40998160 AAAATTATAAAAATACCATTGGTTTGC
1 AAAATTATAAAAATACCATTAGTTTGC
** *
40998187 AAAATTATCGAAATACCCTTAGTTTG
1 AAAATTATAAAAATACCATTAGTTTG
40998213 TATATTTACC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.34
Consensus pattern (27 bp):
AAAATTATAAAAATACCATTAGTTTGC
Found at i:40998516 original size:41 final size:41
Alignment explanation
Indices: 40998471--40998593 Score: 167
Period size: 41 Copynumber: 3.0 Consensus size: 41
40998461 TGGAGAAGAA
* *
40998471 ATTGAGGATTGCATGGTTGCTTGACGACCGTGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGAAGACCGTGGATCCACCG
* * *
40998512 ATTGAAGATCGCATGGTTG-TTTAATGACCGTGGATCCACTG
1 ATTGAGGATCGCATGGTTGCTTGAA-GACCGTGGATCCACCG
* *
40998553 ATTAAGGATCGCATGGTTGCTTGAAGACTGTGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGAAGACCGTGGATCCACCG
40998594 GTGGCTTTTA
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
40 3 0.04
41 63 0.90
42 4 0.06
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (41 bp):
ATTGAGGATCGCATGGTTGCTTGAAGACCGTGGATCCACCG
Found at i:40998786 original size:22 final size:22
Alignment explanation
Indices: 40998734--40998798 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
40998724 GCCAATTATT
* *
40998734 CTGATTATGGCTTTGCGCCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
40998756 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
40998778 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
40998799 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.26, G:0.23, T:0.31
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:41001405 original size:27 final size:27
Alignment explanation
Indices: 41001341--41001397 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
41001331 GTAGGCTAGT
*
41001341 ATTACTGAAATGCCCCTGTAGGATAGA
1 ATTACTGAAATGCCCCTGGAGGATAGA
* * *
41001368 ATTACTGAAATGTCCTTGGAGGGTAGA
1 ATTACTGAAATGCCCCTGGAGGATAGA
41001395 ATT
1 ATT
41001398 GTTGAAATAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.30
Consensus pattern (27 bp):
ATTACTGAAATGCCCCTGGAGGATAGA
Found at i:41001439 original size:26 final size:26
Alignment explanation
Indices: 41001403--41001452 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
41001393 GAATTGTTGA
*
41001403 AATACCATTGGTTTTCAAAATTACTG
1 AATACCATTGGTTTACAAAATTACTG
*
41001429 AATACCCTTGGTTTACAAAATTAC
1 AATACCATTGGTTTACAAAATTAC
41001453 CAAAATACCC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.36
Consensus pattern (26 bp):
AATACCATTGGTTTACAAAATTACTG
Found at i:41001512 original size:27 final size:26
Alignment explanation
Indices: 41001494--41001677 Score: 117
Period size: 27 Copynumber: 6.9 Consensus size: 26
41001484 ATGCCGCTGG
*
41001494 TTTGTAAAATTATCGAAATACCCCTAA
1 TTTGTAAAATTATCGAAATA-CCCTGA
*
41001521 TTTGT-GAATTATCGAAATACCCTCGA
1 TTTGTAAAATTATCGAAATACCCT-GA
**
41001547 CCTGTAAAATTATCGAAATACCCTCGA
1 TTTGTAAAATTATCGAAATACCCT-GA
** * * *
41001574 CCTGTGAAATTACCAAAATACCCTTGA
1 TTTGTAAAATTATCGAAATACCC-TGA
** * *
41001601 CCTGTAAAATTACCGAAA-ACCCTCGG
1 TTTGTAAAATTATCGAAATACCCT-GA
* *
41001627 CTTGTAAAATTA-CCAGAATACCCTTGA
1 TTTGTAAAATTATCGA-AATACCC-TGA
41001654 TTTAG-AAAATTA-CTGAAATACCCT
1 TTT-GTAAAATTATC-GAAATACCCT
41001678 TAACTCAAAA
Statistics
Matches: 132, Mismatches: 16, Indels: 19
0.79 0.10 0.11
Matches are distributed among these distances:
25 7 0.05
26 36 0.27
27 85 0.64
28 4 0.03
ACGTcount: A:0.37, C:0.23, G:0.11, T:0.29
Consensus pattern (26 bp):
TTTGTAAAATTATCGAAATACCCTGA
Found at i:41001558 original size:53 final size:55
Alignment explanation
Indices: 41001496--41001650 Score: 167
Period size: 53 Copynumber: 2.9 Consensus size: 55
41001486 GCCGCTGGTT
** * *
41001496 TGTAAAATTATCGAAATACCCCT-AATTTGTG-AATTATCGAAATACCCTCGACC
1 TGTAAAATTATCGAAATACCCCTCAACCTGTGAAATTACCAAAATACCCTCGACC
* *
41001549 TGTAAAATTATCGAAATA-CCCTCGACCTGTGAAATTACCAAAATACCCTTGACC
1 TGTAAAATTATCGAAATACCCCTCAACCTGTGAAATTACCAAAATACCCTCGACC
* ** * * *
41001603 TGTAAAATTACCGAAA-A-CCCTCGGCTTGTAAAATTACCAGAATACCCT
1 TGTAAAATTATCGAAATACCCCTCAACCTGTGAAATTACCAAAATACCCT
41001651 TGATTTAGAA
Statistics
Matches: 89, Mismatches: 11, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
52 4 0.04
53 51 0.57
54 34 0.38
ACGTcount: A:0.37, C:0.25, G:0.12, T:0.27
Consensus pattern (55 bp):
TGTAAAATTATCGAAATACCCCTCAACCTGTGAAATTACCAAAATACCCTCGACC
Found at i:41001651 original size:53 final size:54
Alignment explanation
Indices: 41001535--41001677 Score: 182
Period size: 53 Copynumber: 2.7 Consensus size: 54
41001525 TGAATTATCG
* * *
41001535 AAATACCCTCGACCTGTAAAATTATCGAAATACCCTCGACCTGTGAAATTACCA
1 AAATACCCTTGACCTGTAAAATTACCGAAATACCCTCGACCTGTAAAATTACCA
* *
41001589 AAATACCCTTGACCTGTAAAATTACCGAAA-ACCCTCGGCTTGTAAAATTACCA
1 AAATACCCTTGACCTGTAAAATTACCGAAATACCCTCGACCTGTAAAATTACCA
* ** *
41001642 GAATACCCTTGATTTAG-AAAATTACTGAAATACCCT
1 AAATACCCTTGACCT-GTAAAATTACCGAAATACCCT
41001678 TAACTCAAAA
Statistics
Matches: 78, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
53 44 0.56
54 34 0.44
ACGTcount: A:0.38, C:0.25, G:0.11, T:0.26
Consensus pattern (54 bp):
AAATACCCTTGACCTGTAAAATTACCGAAATACCCTCGACCTGTAAAATTACCA
Found at i:41001678 original size:27 final size:27
Alignment explanation
Indices: 41001632--41001787 Score: 147
Period size: 27 Copynumber: 5.7 Consensus size: 27
41001622 CTCGGCTTGT
*
41001632 AAAATTACCAG-AATACCCTTGATTTAG
1 AAAATTA-CAGAAATACCCTTAATTTAG
* * * *
41001659 AAAATTACTGAAATACCCTTAACTCAA
1 AAAATTACAGAAATACCCTTAATTTAG
* *
41001686 AAAATTACAAAAATACCCTTAATTTAC
1 AAAATTACAGAAATACCCTTAATTTAG
*
41001713 AAAATTACAAAAATACCCTTAACTTTCA-
1 AAAATTACAGAAATACCCTTAA-TTT-AG
* **
41001741 AAAATTACAGAAATACCATTGGTTT-G
1 AAAATTACAGAAATACCCTTAATTTAG
*
41001767 AAATATTACTGAAATACCCTT
1 AAA-ATTACAGAAATACCCTT
41001788 GGTTTGTAGA
Statistics
Matches: 108, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
26 5 0.05
27 81 0.75
28 21 0.19
29 1 0.01
ACGTcount: A:0.46, C:0.19, G:0.06, T:0.29
Consensus pattern (27 bp):
AAAATTACAGAAATACCCTTAATTTAG
Found at i:41001701 original size:54 final size:54
Alignment explanation
Indices: 41001580--41001787 Score: 190
Period size: 54 Copynumber: 3.9 Consensus size: 54
41001570 TCGACCTGTG
* ** * *** **
41001580 AAATTACCAAAATACCCTTGACCT-GTAAAATTACCGAAA-ACCCTCGGCTTGTA
1 AAATTACAAAAATACCCTTGATTTAG-AAAATTACTGAAATACCCTTAACTTCAA
* *
41001633 AAATTACCAGAATACCCTTGATTTAGAAAATTACTGAAATACCCTTAAC-TCAAA
1 AAATTACAAAAATACCCTTGATTTAGAAAATTACTGAAATACCCTTAACTTC-AA
* * **
41001687 AAATTACAAAAATACCCTTAATTTACAAAATTACAAAAATACCCTTAACTTTCAA
1 AAATTACAAAAATACCCTTGATTTAGAAAATTACTGAAATACCCTTAAC-TTCAA
* * *
41001742 AAATTACAGAAATACCATTGGTTT-GAAATATTACTGAAATACCCTT
1 AAATTACAAAAATACCCTTGATTTAGAAA-ATTACTGAAATACCCTT
41001788 GGTTTGTAGA
Statistics
Matches: 127, Mismatches: 22, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
53 34 0.27
54 54 0.43
55 37 0.29
56 2 0.02
ACGTcount: A:0.44, C:0.21, G:0.07, T:0.28
Consensus pattern (54 bp):
AAATTACAAAAATACCCTTGATTTAGAAAATTACTGAAATACCCTTAACTTCAA
Found at i:41002098 original size:41 final size:41
Alignment explanation
Indices: 41002053--41002175 Score: 165
Period size: 41 Copynumber: 3.0 Consensus size: 41
41002043 GGAGGAAGAA
*
41002053 ATTGAGGATTGCATGGTTGCTTGACGATCGTGGATCAACCG
1 ATTGAGGATTGCATGGTTGCTTGACGATCGTGGATCCACCG
** * *
41002094 ATTGAGGATCACATGGTTACTTGACGATCGTGGATCCACCA
1 ATTGAGGATTGCATGGTTGCTTGACGATCGTGGATCCACCG
* * * *
41002135 ATTAAGGATTGTATGGTTGCTTAACGATCATGGATCCACCG
1 ATTGAGGATTGCATGGTTGCTTGACGATCGTGGATCCACCG
41002176 GTGGCTTTTA
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 69 1.00
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (41 bp):
ATTGAGGATTGCATGGTTGCTTGACGATCGTGGATCCACCG
Found at i:41002369 original size:22 final size:22
Alignment explanation
Indices: 41002317--41002381 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
41002307 GCCAATTATT
*
41002317 CTGATTATGGCTTTGCGCCAAC
1 CTGATTATGGCTTTGTGCCAAC
* *
41002339 CT-ACATATGGCTTTGTACCAAC
1 CTGA-TTATGGCTTTGTGCCAAC
*
41002361 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTTTGTGCCAA
41002382 ACGTATTTGC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
CTGATTATGGCTTTGTGCCAAC
Found at i:41002808 original size:27 final size:27
Alignment explanation
Indices: 41002750--41002808 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 27
41002740 TTTAGGCTAA
* * *
41002750 GCCCAATTGATTTTGTTATGGACTGTG
1 GCCCAAATGATATTGTAATGGACTGTG
* * *
41002777 ACCCAAATGATATTGTAATGGGCTTTG
1 GCCCAAATGATATTGTAATGGACTGTG
41002804 GCCCA
1 GCCCA
41002809 CGTATGCTCT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.34
Consensus pattern (27 bp):
GCCCAAATGATATTGTAATGGACTGTG
Found at i:41004547 original size:17 final size:18
Alignment explanation
Indices: 41004521--41004554 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
41004511 ATTCTTACAT
*
41004521 TTATTGAAACCT-TCCAC
1 TTATTCAAACCTATCCAC
41004538 TTATTCAAACCTATCCA
1 TTATTCAAACCTATCCA
41004555 ATCACTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.32, C:0.29, G:0.03, T:0.35
Consensus pattern (18 bp):
TTATTCAAACCTATCCAC
Found at i:41005849 original size:6 final size:6
Alignment explanation
Indices: 41005830--41005903 Score: 60
Period size: 6 Copynumber: 12.2 Consensus size: 6
41005820 AAGAGAGCAA
** * *
41005830 AAAAAG AATGAG AAAAAG AAAAAG AAAATTG AAAAAG AAAAAG AAAATG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAA-AG AAAAAG AAAAAG AAAAAG
** *
41005879 ATCAAG -AAAAG AAAATTG AAAAAG A
1 AAAAAG AAAAAG AAAA-AG AAAAAG A
41005904 GAGTGAGTAT
Statistics
Matches: 51, Mismatches: 14, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
5 3 0.06
6 38 0.75
7 10 0.20
ACGTcount: A:0.72, C:0.01, G:0.18, T:0.09
Consensus pattern (6 bp):
AAAAAG
Found at i:41005885 original size:18 final size:18
Alignment explanation
Indices: 41005841--41005903 Score: 83
Period size: 19 Copynumber: 3.4 Consensus size: 18
41005831 AAAAGAATGA
41005841 GAAAAAGAAAAAGAAAATT
1 GAAAAAGAAAAAGAAAA-T
41005860 GAAAAAGAAAAAGAAAAT
1 GAAAAAGAAAAAGAAAAT
**
41005878 GATCAAG-AAAAGAAAATT
1 GAAAAAGAAAAAGAAAA-T
41005896 GAAAAAGA
1 GAAAAAGA
41005904 GAGTGAGTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
17 9 0.24
18 12 0.32
19 17 0.45
ACGTcount: A:0.71, C:0.02, G:0.17, T:0.10
Consensus pattern (18 bp):
GAAAAAGAAAAAGAAAAT
Found at i:41007289 original size:20 final size:20
Alignment explanation
Indices: 41007266--41007332 Score: 80
Period size: 20 Copynumber: 3.3 Consensus size: 20
41007256 AGCTCCGTGT
41007266 AGCTCAACTCAGCTTATTTG
1 AGCTCAACTCAGCTTATTTG
** *
41007286 AGCTCATTTCAGCTTGTTTG
1 AGCTCAACTCAGCTTATTTG
* *
41007306 AGCTCAACCCAGCTTACTTTT
1 AGCTCAACTCAGCTTA-TTTG
41007327 AGCTCA
1 AGCTCA
41007333 TTCTTTATTT
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
20 29 0.76
21 9 0.24
ACGTcount: A:0.22, C:0.27, G:0.15, T:0.36
Consensus pattern (20 bp):
AGCTCAACTCAGCTTATTTG
Found at i:41009066 original size:17 final size:18
Alignment explanation
Indices: 41009044--41009080 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
41009034 ACTATTCTTA
*
41009044 CACTTATTGAAACCT-TC
1 CACTTATTCAAACCTATC
41009061 CACTTATTCAAACCTATC
1 CACTTATTCAAACCTATC
41009079 CA
1 CA
41009081 ATCACTTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.32, C:0.32, G:0.03, T:0.32
Consensus pattern (18 bp):
CACTTATTCAAACCTATC
Found at i:41011007 original size:31 final size:31
Alignment explanation
Indices: 41010972--41011035 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
41010962 AGCATAAAGC
* *
41010972 TTAGTAAGTAAGGACGTAAATAATAAAAAAT
1 TTAGTAACTAAGCACGTAAATAATAAAAAAT
*
41011003 TTAGTAACTAAGCACGTAAATAATAAATAAT
1 TTAGTAACTAAGCACGTAAATAATAAAAAAT
41011034 TT
1 TT
41011036 GTCAACATGG
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:0.52, C:0.06, G:0.12, T:0.30
Consensus pattern (31 bp):
TTAGTAACTAAGCACGTAAATAATAAAAAAT
Found at i:41012059 original size:50 final size:50
Alignment explanation
Indices: 41012005--41012384 Score: 336
Period size: 50 Copynumber: 7.5 Consensus size: 50
41011995 CTGGTACGCA
* * * *
41012005 TAGTAGCTTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTGATACACG
* * *
41012055 TAGTAAG-CTGCACTTAGTACTACACACGTGGCTTATCCATCTGATACACG
1 TAGT-AGCCTGCACTTAGTACTACACACGTGACCTATCAATCTGATACACG
** * * *
41012105 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAA-C-GAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCTA-TCAATCTGA-TACACG
* * * *
41012156 TAGTAGCTTGCACTTAGTACTACACATGCGACCTATCAATGC-GATACACA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAAT-CTGATACACG
* *
41012206 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTGATACACG
* ** * * * * * *
41012256 TAGTAGCCTACACTTAGTACTACACACGTGATCGAAACTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCTATCAATCTGATACACG
* * * * * * *
41012307 TAGTAGCCTGCACTTAGTACTACGCACGTGACTTAAAACTATCTTAAACACA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT--ATCAATCTGATACACG
**
41012359 TAGTAGCCTGCAGATAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
41012385 TGTGTTCTCA
Statistics
Matches: 272, Mismatches: 47, Indels: 20
0.80 0.14 0.06
Matches are distributed among these distances:
49 6 0.02
50 149 0.55
51 81 0.30
52 36 0.13
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTGATACACG
Found at i:41012255 original size:151 final size:151
Alignment explanation
Indices: 41011998--41012329 Score: 515
Period size: 151 Copynumber: 2.2 Consensus size: 151
41011988 AAGCTCTCTG
* * **
41011998 GTACGCATAGTAGCTTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACATGTAGTAAGC
1 GTACGCATAGTAGCTTGCACTTAGTACTACACATGCGACCTATCAATCTGATACACATAGTAAGC
* * * *
41012063 TGCACTTAGTACTACACACGTGGCTTATCCATCTGATACACGTAGTAGCCTGCACTTAGTACTAC
66 TGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTACACTTAGTACTAC
**
41012128 ACACGTGATCGAAGTTAACGA
131 ACACGTGATCGAAACTAACGA
41012149 GTACGCATAGTAGCTTGCACTTAGTACTACACATGCGACCTATCAATGC-GATACACATAGT-AG
1 GTACGCATAGTAGCTTGCACTTAGTACTACACATGCGACCTATCAAT-CTGATACACATAGTAAG
41012212 CCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTACACTTAGTACT
65 -CTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTACACTTAGTACT
* *
41012277 ACACACGTGATCGAAACTATCGG
129 ACACACGTGATCGAAACTAACGA
*
41012300 GTACGCATAGTAGCCTGCACTTAGTACTAC
1 GTACGCATAGTAGCTTGCACTTAGTACTAC
41012330 GCACGTGACT
Statistics
Matches: 166, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
150 2 0.01
151 163 0.98
152 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (151 bp):
GTACGCATAGTAGCTTGCACTTAGTACTACACATGCGACCTATCAATCTGATACACATAGTAAGC
TGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTACACTTAGTACTAC
ACACGTGATCGAAACTAACGA
Found at i:41012338 original size:101 final size:100
Alignment explanation
Indices: 41012003--41012384 Score: 365
Period size: 101 Copynumber: 3.8 Consensus size: 100
41011993 CTCTGGTACG
* * * * * **
41012003 CATAGTAGCTTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACATGTAGTAAG-CTGCA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATCTGATACACATAGT-AGCCTGCA
* * * *
41012067 CTTAGTACTACACACGTGGCTTATCCATCTGATACA
65 CTTAGTACTACACACGTGACCTATCAATCGGATACA
* * * * * * *
41012103 CGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAAC-GAGTACGCATAGTAGCTTGC
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CTATCTGA-TACACATAGTAGCCTGC
* *
41012167 ACTTAGTACTACACATGCGACCTATCAAT-GCGATACA
64 ACTTAGTACTACACACGTGACCTATCAATCG-GATACA
* * *
41012204 CATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTACAC
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATCTGATACACATAGTAGCCTGCAC
** * * * *
41012269 TTAGTACTACACACGTGATCGAAACTATCGGGTACG
66 TTAGTACTACACACGTGA-CCTATCAATCGGATACA
* * * *
41012305 CATAGTAGCCTGCACTTAGTACTACGCACGTGACTTAAAACTATCTTAAACACATAGTAGCCTGC
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCT--AACTATCTGATACACATAGTAGCCTGC
**
41012370 AGATAGTACTACACA
64 ACTTAGTACTACACA
41012385 TGTGTTCTCA
Statistics
Matches: 226, Mismatches: 47, Indels: 15
0.78 0.16 0.05
Matches are distributed among these distances:
100 68 0.30
101 122 0.54
102 1 0.00
103 35 0.15
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (100 bp):
CATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATCTGATACACATAGTAGCCTGCAC
TTAGTACTACACACGTGACCTATCAATCGGATACA
Found at i:41014067 original size:47 final size:48
Alignment explanation
Indices: 41013994--41014216 Score: 210
Period size: 47 Copynumber: 4.8 Consensus size: 48
41013984 TGGGTAAGGT
* *
41013994 GTCGATGCCATGTCCTAGACACGGTCTTACACTGGCTTACATCTC-AA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAA
* * *
41014041 GTCGATGCCATGTCCCAGATATGGTCTTACACTGAC-TATCATCTCGTA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTA-CATCTCGAA
* * *
41014089 GTCGATG-CATGTCCCAAACAT-GTCTTACACTGGCTTACATTTCGAG
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAA
* * ** *
41014135 GCCGATG-CATGTCCCAGACAT-GTATTACACTAGAATT-CGTCTC-AA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACT-GGCTTACATCTCGAA
* * * *
41014180 TGCCGATGCCATGTCCCAGTCATGTTGTTACACTGGC
1 -GTCGATGCCATGTCCCAGACATGGTCTTACACTGGC
41014217 CCACACACAA
Statistics
Matches: 145, Mismatches: 24, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
45 1 0.01
46 59 0.41
47 69 0.48
48 16 0.11
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (48 bp):
GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAA
Found at i:41014193 original size:93 final size:94
Alignment explanation
Indices: 41013996--41014216 Score: 236
Period size: 93 Copynumber: 2.4 Consensus size: 94
41013986 GGTAAGGTGT
* * * *
41013996 CGATGCCATGTCCTAGACACGGTCTTACACTGGCTTACATCTCAAGTCGATGCCATGTCCCAGAT
1 CGATGCCATGTCCCAGACA-TGTCTTACACTGGCTTACATCTCAAGCCGATGCCATGTCCCAGAC
* * * *
41014061 ATGGTCTTACACTGACTATCATCTCGTAGT
65 ATGGTATTACACTGAATATCATCTCATAGC
* * *
41014091 CGATG-CATGTCCCAAACATGTCTTACACTGGCTTACATTTCGAGGCCGATG-CATGTCCCAGAC
1 CGATGCCATGTCCCAGACATGTCTTACACTGGCTTACATCTC-AAGCCGATGCCATGTCCCAGAC
*
41014154 AT-GTATTACACTAGAAT-TCGTCTCA-ATGC
65 ATGGTATTACACT-GAATATCATCTCATA-GC
* *
41014183 CGATGCCATGTCCCAGTCATGTTGTTACACTGGC
1 CGATGCCATGTCCCAGACATG-TCTTACACTGGC
41014217 CCACACACAA
Statistics
Matches: 106, Mismatches: 15, Indels: 11
0.80 0.11 0.08
Matches are distributed among these distances:
91 1 0.01
92 21 0.20
93 50 0.47
94 29 0.27
95 5 0.05
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (94 bp):
CGATGCCATGTCCCAGACATGTCTTACACTGGCTTACATCTCAAGCCGATGCCATGTCCCAGACA
TGGTATTACACTGAATATCATCTCATAGC
Found at i:41027637 original size:37 final size:37
Alignment explanation
Indices: 41027576--41027654 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
41027566 TTATTACGAA
* * *
41027576 GTCTTACCCAGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
* *
41027613 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
41027650 GTCTT
1 GTCTT
41027655 TAGAGCTCAG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
Found at i:41027860 original size:47 final size:47
Alignment explanation
Indices: 41027773--41028363 Score: 849
Period size: 47 Copynumber: 12.4 Consensus size: 47
41027763 CCTTTCGGGA
* * * * * * * *
41027773 CTTATCACATTTATGCACTTTCACATCCATTACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
41027820 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
41027867 CTTATCACATATATACACTTTCACATTCATCGCATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
41027914 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* ** *
41027961 CTTATTACATATATACACTTTCACATTCATCATGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
41028008 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
41028055 CTTATCACACATATACACTTTCACATTCATCACATCAGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
41028102 CTTATTACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGG
1 CTTA-T-CACATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
41028153 CTTATCACATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
41028202 CTTATTACATATACATACACTTTCACATTCATCACATCGGCCATTAGGG
1 CTTATCACATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
41028251 CTTATTACATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
41028298 CTTATTACATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41028345 CTTATCACATATATACACT
1 CTTATCACATATATACACT
41028364 CTCTTGGCTG
Statistics
Matches: 502, Mismatches: 38, Indels: 8
0.92 0.07 0.01
Matches are distributed among these distances:
47 359 0.72
48 1 0.00
49 105 0.21
50 1 0.00
51 36 0.07
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:41031946 original size:39 final size:39
Alignment explanation
Indices: 41031890--41031979 Score: 144
Period size: 39 Copynumber: 2.3 Consensus size: 39
41031880 GCTCTTCGGT
*
41031890 TTAGCACGGATATATCACTAGCACGAATGCTCTTCGGGAC
1 TTAGC-CGGATACATCACTAGCACGAATGCTCTTCGGGAC
*
41031930 TTAGCCGGATACATCACTAGCATGAATGCTCTTCGGGAC
1 TTAGCCGGATACATCACTAGCACGAATGCTCTTCGGGAC
41031969 TTAGCCCGGAT
1 TTAG-CCGGAT
41031980 TTAGTAACTC
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
39 36 0.77
40 11 0.23
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
TTAGCCGGATACATCACTAGCACGAATGCTCTTCGGGAC
Found at i:41098851 original size:37 final size:37
Alignment explanation
Indices: 41098791--41098868 Score: 111
Period size: 37 Copynumber: 2.1 Consensus size: 37
41098781 TTATTACGAA
* * *
41098791 TCTTACCCAGACATAATCTCCACACGAAGTTATCGGG
1 TCTTACCCAGACAAAATCCCCACACGAAGTCATCGGG
* *
41098828 TCTTACCCGGACAAAATCCCCACACGTAGTCATCGGG
1 TCTTACCCAGACAAAATCCCCACACGAAGTCATCGGG
41098865 TCTT
1 TCTT
41098869 TAGAGCTCAG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.27, C:0.32, G:0.17, T:0.24
Consensus pattern (37 bp):
TCTTACCCAGACAAAATCCCCACACGAAGTCATCGGG
Found at i:41099069 original size:46 final size:47
Alignment explanation
Indices: 41098983--41099558 Score: 757
Period size: 46 Copynumber: 12.4 Consensus size: 47
41098973 CCTTTCGGGA
* * * * * * * *
41098983 CTTATCACATTTATGCACTTTCACATCCATTACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
41099030 CCTGTCA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
41099076 CTTATCACATA-ATACACTTTCACATTCATCGCATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
41099122 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
41099169 CTTATTACATATATACACTTTCACA-TC-TC-CATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
41099213 CTTATCA-ACATATACACTTTCACATTCATCACATCGGCTATTA-GC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
41099258 CTTATCACACATATACACTTTCACATTCATCACATCAGCTA-TAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
41099304 CTTATTACATATATACTACACTTTCACATTCATCACATCGGCCATTAGG-
1 CTTA-T-CACATATA-TACACTTTCACATTCATCACATCGGCCATTAGGC
41099353 CTTATTCACATATACATACACTTTCACATTCATCACATC-GCCATTAGG-
1 CTTA-TCACATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
41099401 CTTATTACA-ATAATACACTTTCACATTCATCACATCGGCCATTAGGG
1 CTTATCACATAT-ATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
41099448 C-TATTACATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
41099494 CTTATTACA-ACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41099540 CTTATCACATATATACACT
1 CTTATCACATATATACACT
41099559 CTCTTGGCTG
Statistics
Matches: 479, Mismatches: 32, Indels: 36
0.88 0.06 0.07
Matches are distributed among these distances:
43 16 0.03
44 21 0.04
45 39 0.08
46 231 0.48
47 87 0.18
48 25 0.05
49 55 0.11
50 5 0.01
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:41099465 original size:189 final size:185
Alignment explanation
Indices: 41099034--41099558 Score: 743
Period size: 189 Copynumber: 2.8 Consensus size: 185
41099024 CTCGGCCCTG
41099034 TCAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAATACACTTTCAC
1 TCAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAATACACTTTCAC
* *
41099099 ATTCATCGCATCGGCCATTAGGCCTTATCAC-ATATATACACTTTCACATTCATCACATCGGCCA
66 ATTCATCACATCGGCCATTAGGCCTTATTACAATATATACACTTTCACATTCATCACATCGGCCA
* *
41099163 TTAGACCTTATT-ACATAT-ATACACTTTCACATCTCCATCGGCTATTAGGCCTTA
131 TTAG-GCTTATTCACATATAATACACTTTCACATCTCCATCGGCCATTAGGCCTTA
* * *
41099217 TCAACATATACACTTTCACATTCATCACATCGGCTATTA-GCCTTATCACACATATACACTTTCA
1 TCAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA-ATACACTTTCA
* *
41099281 CATTCATCACATCAGCTA-TAGGCCTTATTACATATATACTACACTTTCACATTCATCACATCGG
65 CATTCATCACATCGGCCATTAGGCCTTATTACA-ATATA-TACACTTTCACATTCATCACATCGG
41099345 CCATTAGGCTTATTCACATATACATACACTTTCACATTCATCACATC-GCCATTAGG-CTTA
128 CCATTAGGCTTATTCACATATA-ATACACTTTCACA-TC-TC-CATCGGCCATTAGGCCTTA
* *
41099405 TTACAATA-ATACACTTTCACATTCATCACATCGGCCATTAGGGC-TATTACATACATACACTTT
1 -T-CAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA-ATACACTTT
*
41099468 CACATTCATCACATCGGCCATTAGGCCTTATTAC-A-ACATACACTTTCACATTCATCACATCGG
63 CACATTCATCACATCGGCCATTAGGCCTTATTACAATATATACACTTTCACATTCATCACATCGG
41099531 CCATTAGGCCTTA-TCACATAT-ATACACT
128 CCATTAGG-CTTATTCACATATAATACACT
41099559 CTCTTGGCTG
Statistics
Matches: 309, Mismatches: 18, Indels: 29
0.87 0.05 0.08
Matches are distributed among these distances:
182 24 0.08
183 63 0.20
184 18 0.06
185 38 0.12
186 41 0.13
187 19 0.06
188 7 0.02
189 76 0.25
190 23 0.07
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.32
Consensus pattern (185 bp):
TCAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAATACACTTTCAC
ATTCATCACATCGGCCATTAGGCCTTATTACAATATATACACTTTCACATTCATCACATCGGCCA
TTAGGCTTATTCACATATAATACACTTTCACATCTCCATCGGCCATTAGGCCTTA
Found at i:41102886 original size:25 final size:25
Alignment explanation
Indices: 41102849--41102897 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
41102839 AAGGAATTCG
41102849 CACACACACAGTGCCTCTAATCATT
1 CACACACACAGTGCCTCTAATCATT
* * *
41102874 CACACACATAGTGCTTCTATTCAT
1 CACACACACAGTGCCTCTAATCAT
41102898 CGTTATTACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.31, C:0.33, G:0.08, T:0.29
Consensus pattern (25 bp):
CACACACACAGTGCCTCTAATCATT
Found at i:41103134 original size:40 final size:38
Alignment explanation
Indices: 41103084--41103251 Score: 151
Period size: 40 Copynumber: 4.3 Consensus size: 38
41103074 TGCTCTTCGG
*
41103084 TTAGCACGGATATATCACTAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGC-CTTC-GGAC
* *
41103124 TTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGC-CTTCGGAC
* * * * *
41103163 TTAGCCCGGATTTAGTAACTCGCACCAATGCC-TCAGATC
1 TTAGCCCGGATATA-TCACTAGCACGAATGCCTTCGGA-C
* * *
41103202 TTAGTCCGGATATGGTCACTTAGCAC-AAAGCCTTCGGGAC
1 TTAGCCCGGATAT-ATCAC-TAGCACGAATGCCTTC-GGAC
41103242 TTAGCCCGGA
1 TTAGCCCGGA
41103252 CATCATCAAA
Statistics
Matches: 104, Mismatches: 18, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
38 4 0.04
39 37 0.36
40 61 0.59
41 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (38 bp):
TTAGCCCGGATATATCACTAGCACGAATGCCTTCGGAC
Found at i:41103597 original size:31 final size:29
Alignment explanation
Indices: 41103562--41103639 Score: 86
Period size: 31 Copynumber: 2.6 Consensus size: 29
41103552 TAATTAACCA
*
41103562 CGCACACTTAGTGCCATTGTATCTTT-AAAC
1 CGCACACTTAGTGCCA-TGCAT-TTTCAAAC
*
41103592 TCGCACACTTTAGTGCCATGCATTTTCAAGC
1 -CGCACAC-TTAGTGCCATGCATTTTCAAAC
41103623 CTGCACACTTAGTGCCA
1 C-GCACACTTAGTGCCA
41103640 ATCTCAACAA
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
30 13 0.31
31 20 0.48
32 9 0.21
ACGTcount: A:0.24, C:0.29, G:0.15, T:0.31
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTTCAAAC
Found at i:41105889 original size:45 final size:47
Alignment explanation
Indices: 41105745--41106285 Score: 584
Period size: 47 Copynumber: 11.4 Consensus size: 47
41105735 CCTTTCGGGA
* * * * * * * *
41105745 CTTATCACATTTATGCACTTTTCACATCCATTACGTTGGCCACTCGGC
1 CTTATCACATATATACAC-TTTCACATTCATCACATCGGCCATTAGGC
* *
41105793 CCTGTCACATTATATACACTTTCACATTCATCAACATCGGCCATTAGGC
1 CTTATCACA-TATATACACTTTCACATTCATC-ACATCGGCCATTAGGC
*
41105842 CTTATCACA-ATATACACTTTCACA-TCTATCGC-TCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTC-ATCACATCGGCCATTAGGC
*
41105887 CTTATCACATATATACCACTTTCACATTCATCACATCGGCCATTAGAC
1 CTTATCACATATATA-CACTTTCACATTCATCACATCGGCCATTAGGC
* * *
41105935 CTTATTTTACATATATACACTTTCACA-TCATC-CATCGGCGATTTGGC
1 CTTA--TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
41105982 CTTATCACACATATACACGTTCACATTCATCACGTCGGCTA-TAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
41106028 CTTAT-ACACATATACACTTTCACATTCTTAACATCGG-TATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
41106073 CTTATCCACATATA-CCACTTTCACATTCAGCACATCGG-TATTA-GC
1 CTTAT-CACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
41106118 CTTATTACATATATACATACACTTTCCACATTCATCACATCGGCCATTAGGGC
1 CTTA-T-CACATAT--ATACACTTT-CACATTCATCACATCGGCCATTA-GGC
41106171 CTTATCACATATACATACAC-TTCACATTCATCACATCGGCCCATTAGGC
1 CTTATCACATAT--ATACACTTTCACATTCATCACATCGG-CCATTAGGC
* *
41106220 CTTATTACATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41106267 CTTATCACATATATACACT
1 CTTATCACATATATACACT
41106286 CTCTTGGCTG
Statistics
Matches: 425, Mismatches: 44, Indels: 49
0.82 0.08 0.09
Matches are distributed among these distances:
44 2 0.00
45 84 0.20
46 54 0.13
47 93 0.22
48 61 0.14
49 72 0.17
50 34 0.08
51 18 0.04
52 1 0.00
53 6 0.01
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:41119806 original size:25 final size:25
Alignment explanation
Indices: 41119729--41119823 Score: 84
Period size: 25 Copynumber: 3.8 Consensus size: 25
41119719 TCATTTCTAT
** * * *
41119729 GAGCTTACCGACACTCAGCTCGTAT
1 GAGCTTACCGTTATTCAGCTCGGAG
* * *
41119754 GATCTTACCGTTATTCAGCTTGGTG
1 GAGCTTACCGTTATTCAGCTCGGAG
* *
41119779 GAGGTTATCGTTATTCAGCTCGGAG
1 GAGCTTACCGTTATTCAGCTCGGAG
*
41119804 GAGCTTACCGTT-TACAGCTC
1 GAGCTTACCGTTATTCAGCTC
41119824 TTATGGGCAT
Statistics
Matches: 54, Mismatches: 16, Indels: 1
0.76 0.23 0.01
Matches are distributed among these distances:
24 7 0.13
25 47 0.87
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.32
Consensus pattern (25 bp):
GAGCTTACCGTTATTCAGCTCGGAG
Found at i:41129292 original size:47 final size:46
Alignment explanation
Indices: 41129240--41129431 Score: 161
Period size: 47 Copynumber: 4.1 Consensus size: 46
41129230 AGGTTGGACC
* * * *
41129240 ATGGCAACATGTGATATGTGATTTTCGTATAAGACCATAGCTGGGCT
1 ATGGCATCATGTGATATGTG-CTTCCGTATAAGACCATAGCTGGGAT
* * * *
41129287 ATGGCATCGGTGTGATATGAGCTTCCTTATAAGACCATATCTGGGAT
1 ATGGCATC-ATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGAT
** * *
41129334 ATGGCATCAGTGTGATATGTGCTTCTATGTAAGACCATATCTGGGAT
1 ATGGCATCA-TGTGATATGTGCTTCCGTATAAGACCATAGCTGGGAT
* * * * * * * *
41129381 ATGACGTTAGTGTGATATGTG-ATCCGTGTAAGACCATGGCTAGGCT
1 ATGGCATCA-TGTGATATGTGCTTCCGTATAAGACCATAGCTGGGAT
41129427 ATGGC
1 ATGGC
41129432 TTCGGTGTGT
Statistics
Matches: 119, Mismatches: 24, Indels: 5
0.80 0.16 0.03
Matches are distributed among these distances:
46 22 0.18
47 87 0.73
48 10 0.08
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.32
Consensus pattern (46 bp):
ATGGCATCATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGAT
Found at i:41133705 original size:11 final size:11
Alignment explanation
Indices: 41133689--41133714 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
41133679 GCCACTTGCA
41133689 CAACCCAATTG
1 CAACCCAATTG
41133700 CAACCCAATTG
1 CAACCCAATTG
41133711 CAAC
1 CAAC
41133715 TGTAATCATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.38, G:0.08, T:0.15
Consensus pattern (11 bp):
CAACCCAATTG
Found at i:41144154 original size:39 final size:39
Alignment explanation
Indices: 41144111--41144202 Score: 139
Period size: 39 Copynumber: 2.4 Consensus size: 39
41144101 GTCTTTAACT
* *
41144111 CGGATATTTTTCCAGCACGTAGCCTGCGAACCTCAAGTC
1 CGGATATATTTCCAGCACATAGCCTGCGAACCTCAAGTC
* * *
41144150 CGGATATATTTCCAGCATATAGCCTGCGGACCTCATGTC
1 CGGATATATTTCCAGCACATAGCCTGCGAACCTCAAGTC
41144189 CGGATATATTTCCA
1 CGGATATATTTCCA
41144203 ATCTCATATA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 48 1.00
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (39 bp):
CGGATATATTTCCAGCACATAGCCTGCGAACCTCAAGTC
Found at i:41147016 original size:32 final size:32
Alignment explanation
Indices: 41146971--41147062 Score: 121
Period size: 32 Copynumber: 2.9 Consensus size: 32
41146961 TTGAATCTCT
* *
41146971 GTACATACATGTACCATATTGTACCAATTTTC
1 GTACATACCTGTACCATATTGTACCAATTTCC
41147003 GTACATACCTGTACCATATTGTACCAATTTCC
1 GTACATACCTGTACCATATTGTACCAATTTCC
* * * * *
41147035 ATAGATACCTGTATCATCTCGTACCAAT
1 GTACATACCTGTACCATATTGTACCAAT
41147063 CTCATACTCA
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 53 1.00
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.35
Consensus pattern (32 bp):
GTACATACCTGTACCATATTGTACCAATTTCC
Found at i:41147228 original size:28 final size:28
Alignment explanation
Indices: 41147141--41147235 Score: 86
Period size: 28 Copynumber: 3.4 Consensus size: 28
41147131 CGATACCTTG
* * *
41147141 CACACTAAGTGTCGTTCTGGATGTTTCA
1 CACACTAAGTGCCATTCTGGATGTATCA
* *
41147169 CACACTAAGTGCCATCCTCG-T-TACTTCA
1 CACACTAAGTGCCATTCTGGATGTA--TCA
* *
41147197 CACATTAAGTGCCATTCTGGATGTATCG
1 CACACTAAGTGCCATTCTGGATGTATCA
*
41147225 CACACAAAGTG
1 CACACTAAGTG
41147236 TCATCCCCAA
Statistics
Matches: 52, Mismatches: 11, Indels: 8
0.73 0.15 0.11
Matches are distributed among these distances:
26 1 0.02
27 1 0.02
28 47 0.90
29 1 0.02
30 2 0.04
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.29
Consensus pattern (28 bp):
CACACTAAGTGCCATTCTGGATGTATCA
Found at i:41147261 original size:56 final size:56
Alignment explanation
Indices: 41147141--41147266 Score: 135
Period size: 56 Copynumber: 2.2 Consensus size: 56
41147131 CGATACCTTG
* * * * * * **
41147141 CACACTAAGTGTCGTTCTGGATGTTTCACACACTAAGTGCCATCCTCGTTACTTCA
1 CACATTAAGTGCCATTCTGGATGTATCACACACAAAGTGCCATCCCCAATACTTCA
* * * *
41147197 CACATTAAGTGCCATTCTGGATGTATCGCACACAAAGTGTCATCCCCAATGCTTCG
1 CACATTAAGTGCCATTCTGGATGTATCACACACAAAGTGCCATCCCCAATACTTCA
*
41147253 CACGTTAAGTGCCA
1 CACATTAAGTGCCA
41147267 CATATAATTA
Statistics
Matches: 57, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (56 bp):
CACATTAAGTGCCATTCTGGATGTATCACACACAAAGTGCCATCCCCAATACTTCA
Found at i:41149432 original size:27 final size:27
Alignment explanation
Indices: 41149376--41149486 Score: 109
Period size: 27 Copynumber: 4.1 Consensus size: 27
41149366 AGCATTGCTG
* * * *
41149376 CCAGAACAGATAA-TGTGACAAAGTCG
1 CCAGAACAGATAATTGTGGCAGAGCCA
*
41149402 CCAGAACAGATAATTGTGGTAGAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
*
41149429 CCAGAATAGAT-ATATGTGGCAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* * * *
41149456 CCAGATCAGATAAATATGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
41149483 CCAG
1 CCAG
41149487 GACGCTTCCT
Statistics
Matches: 70, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
26 15 0.21
27 54 0.77
28 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.23, T:0.17
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:41149466 original size:54 final size:53
Alignment explanation
Indices: 41149376--41149486 Score: 123
Period size: 54 Copynumber: 2.1 Consensus size: 53
41149366 AGCATTGCTG
* * * * *
41149376 CCAGAACAGATAATGTGACAAAGTCGCCAGAACAGATAATTGTGGTAGAGCCA
1 CCAGAACAGATAATGTGACAAAGCCACCAGAACAGATAAATATGGCAGAGCCA
* * * * *
41149429 CCAGAATAGATATATGTGGCAGAGCCACCAGATCAGATAAATATGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAAAGCCACCAGAACAGATAAATATGGCAGAGCCA
41149483 CCAG
1 CCAG
41149487 GACGCTTCCT
Statistics
Matches: 47, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
53 11 0.23
54 36 0.77
ACGTcount: A:0.39, C:0.21, G:0.23, T:0.17
Consensus pattern (53 bp):
CCAGAACAGATAATGTGACAAAGCCACCAGAACAGATAAATATGGCAGAGCCA
Found at i:41150929 original size:24 final size:24
Alignment explanation
Indices: 41150894--41150994 Score: 132
Period size: 24 Copynumber: 4.2 Consensus size: 24
41150884 CCAACACTGT
*
41150894 TCTCCCTAATCAGCTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
41150918 TCTCCCTTATCAGCTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
* * *
41150942 TATCCCTTACCAACTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
* *
41150966 TATCCCTTATC-GACTCCTAAATCA
1 TCTCCCTTATCAG-CTCCTAAATCC
41150990 TCTCC
1 TCTCC
41150995 TGACAGACTT
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
24 68 1.00
ACGTcount: A:0.25, C:0.41, G:0.03, T:0.32
Consensus pattern (24 bp):
TCTCCCTTATCAGCTCCTAAATCC
Found at i:41156806 original size:27 final size:27
Alignment explanation
Indices: 41156752--41156859 Score: 130
Period size: 27 Copynumber: 4.0 Consensus size: 27
41156742 AGCATTGCTG
* *
41156752 CCAGAACAGATAA-TGTGACAGAGTCA
1 CCAGAACAGATAATTGTGTCAGAGCCA
* *
41156778 CCAGAACAAATAATTGTGGCAGAGCCA
1 CCAGAACAGATAATTGTGTCAGAGCCA
41156805 CCAGAACAGAT-ATATGTGTCAGAGCCA
1 CCAGAACAGATAAT-TGTGTCAGAGCCA
* * *
41156832 CCAGATCAGATAAATGTGTCATAGCCA
1 CCAGAACAGATAATTGTGTCAGAGCCA
41156859 C
1 C
41156860 TCGGACGCTT
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
26 14 0.20
27 56 0.79
28 1 0.01
ACGTcount: A:0.39, C:0.22, G:0.21, T:0.18
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGTCAGAGCCA
Found at i:41156834 original size:54 final size:53
Alignment explanation
Indices: 41156752--41156859 Score: 144
Period size: 54 Copynumber: 2.0 Consensus size: 53
41156742 AGCATTGCTG
* *
41156752 CCAGAACAGATAATGTGACAGAGTCACCAGAACAAATAATTGTGGCAGAGCCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGAACAAATAAATGTGGCAGAGCCA
* * * * *
41156805 CCAGAACAGATATATGTGTCAGAGCCACCAGATCAGATAAATGTGTCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGAACAAATAAATGTGGCAGAGCCA
41156859 C
1 C
41156860 TCGGACGCTT
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
53 12 0.26
54 35 0.74
ACGTcount: A:0.39, C:0.22, G:0.21, T:0.18
Consensus pattern (53 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGAACAAATAAATGTGGCAGAGCCA
Found at i:41158289 original size:24 final size:24
Alignment explanation
Indices: 41158262--41158363 Score: 80
Period size: 24 Copynumber: 4.2 Consensus size: 24
41158252 GCCAACACTG
*
41158262 TTCTCCCTAATCAGTTCCTAAATC
1 TTCTCCCTAATCAGCTCCTAAATC
*
41158286 TTCTCCCTTATCAGCTCCTAAATC
1 TTCTCCCTAATCAGCTCCTAAATC
* * * * * *
41158310 CTATCCCTTACCAACACCTAAATC
1 TTCTCCCTAATCAGCTCCTAAATC
* * *
41158334 CTATCCCTTATC-GACTCCTAAATC
1 TTCTCCCTAATCAG-CTCCTAAATC
*
41158358 CTCTCC
1 TTCTCC
41158364 TAAAAGACTT
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
24 66 1.00
ACGTcount: A:0.25, C:0.39, G:0.03, T:0.33
Consensus pattern (24 bp):
TTCTCCCTAATCAGCTCCTAAATC
Found at i:41159483 original size:30 final size:30
Alignment explanation
Indices: 41159426--41159483 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
41159416 TTTTTGGACT
**
41159426 TAGGGGTAAAATGGTCATTTTGTCAAAGTC
1 TAGGGGTAAAATGGTCATTTTACCAAAGTC
41159456 TAGGGGTAAAATGGTCATTTTACCAAAG
1 TAGGGGTAAAATGGTCATTTTACCAAAG
41159484 ATATGAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.31
Consensus pattern (30 bp):
TAGGGGTAAAATGGTCATTTTACCAAAGTC
Found at i:41160010 original size:44 final size:43
Alignment explanation
Indices: 41159870--41160028 Score: 133
Period size: 45 Copynumber: 3.5 Consensus size: 43
41159860 TATGAGAGCC
* * *
41159870 AGTGTAAGACCATGTCTGGGGCATGGCATCGGCATTGAGACGAGTGTT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CT-CGA-GAGTGTT
* * *
41159918 AGCGTAAGACATGTCT-GGACATGTATCGGCCTCGAGAGTAAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGAGT--GTT
* *
41159962 AGTGTAAGACATGTTTGGGACATGCATCTG-CTACGAGATGTGTT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGA-GTGTT
*
41160006 AGTGTGAGACCATGTCTGGGACA
1 AGTGTAAGA-CATGTCTGGGACA
41160029 CGGCACTGAC
Statistics
Matches: 92, Mismatches: 13, Indels: 15
0.77 0.11 0.12
Matches are distributed among these distances:
42 4 0.04
43 2 0.02
44 29 0.32
45 35 0.38
46 7 0.08
47 7 0.08
48 8 0.09
ACGTcount: A:0.25, C:0.17, G:0.32, T:0.26
Consensus pattern (43 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGAGTGTT
Found at i:41164649 original size:68 final size:67
Alignment explanation
Indices: 41164577--41164726 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
41164567 CATCATGTGT
* * * *
41164577 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
41164639 ATGTAG
62 ATGTAG
** * *
41164645 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
41164710 AG
66 AG
41164712 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
41164727 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:41164682 original size:64 final size:64
Alignment explanation
Indices: 41164601--41164784 Score: 185
Period size: 67 Copynumber: 2.8 Consensus size: 64
41164591 AGACATTATG
* *
41164601 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
41164665 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
41164730 AA
63 AA
* * * **
41164732 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTTACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
41164785 CGAACTATAC
Statistics
Matches: 97, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
62 1 0.01
63 18 0.19
64 21 0.22
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:41167538 original size:201 final size:201
Alignment explanation
Indices: 41167193--41167596 Score: 576
Period size: 201 Copynumber: 2.0 Consensus size: 201
41167183 ATGGGACACG
*
41167193 CCAGTGCTCTTTGCAAAAAAAAAAGATGGGTCAATGAGGTTATGTATCAACTACAGACAACTCAA
1 CCAGTGCTCTTTGCAAAAAAAAAAGATGGGTCAATGAGGTTATGTATCAACTACAGACAACCCAA
* * * *
41167258 TAATGTAATAGTGAAGAACAAGTATCTTTTGCCAATGATTGATGACCTGTTTGATTAGGTAAAGG
66 TAATGTAACAGTGAAGAACAAGTATCCTTTGCCAAGGATTGATGACCTGTTTGATCAGGTAAAGG
*
41167323 GAGCCATTGTATTTTCCAAGATTAACCTGAGGTCAGGATACTACCAGTTAAGGGCAAAAGAGCAA
131 GAGCCATTGTATTTTCCAAGATTAACCTGAGGTCAGGATACTACCAGTTAAAGGCAAAAGAGCAA
41167388 GATGTA
196 GATGTA
** * * * * * * *
41167394 CCAGTGCTCTTTGTGAAAAAGAAAGATGTGTCGATGAGGTTATGTATCATCTATAGATAGCCCAA
1 CCAGTGCTCTTTGCAAAAAAAAAAGATGGGTCAATGAGGTTATGTATCAACTACAGACAACCCAA
* * *
41167459 TAATGTAACAGTGAAGAGA-AAGTATCCTTTGCCAAGGATTGATGACCTGTTTTATCAGTTAAAT
66 TAATGTAACAGTGAAGA-ACAAGTATCCTTTGCCAAGGATTGATGACCTGTTTGATCAGGTAAAG
* * * **
41167523 GGAGCCATTGTATTTTTCAAGATTGACTTGAGGTCAGGATACTACCAGTTAAAGGTGAAAGAGCA
130 GGAGCCATTGTATTTTCCAAGATTAACCTGAGGTCAGGATACTACCAGTTAAAGGCAAAAGAGCA
*
41167588 ATATGTA
195 AGATGTA
41167595 CC
1 CC
41167597 GAAGACTGCG
Statistics
Matches: 178, Mismatches: 24, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
201 177 0.99
202 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (201 bp):
CCAGTGCTCTTTGCAAAAAAAAAAGATGGGTCAATGAGGTTATGTATCAACTACAGACAACCCAA
TAATGTAACAGTGAAGAACAAGTATCCTTTGCCAAGGATTGATGACCTGTTTGATCAGGTAAAGG
GAGCCATTGTATTTTCCAAGATTAACCTGAGGTCAGGATACTACCAGTTAAAGGCAAAAGAGCAA
GATGTA
Found at i:41171423 original size:46 final size:46
Alignment explanation
Indices: 41171316--41171477 Score: 163
Period size: 46 Copynumber: 3.5 Consensus size: 46
41171306 TTATGAGAGC
* *
41171316 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACG-AGT
1 CAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTCGAGACGTAGT
* *
41171362 GCTAGTATAATA-CATGTCTGGGACATGCATCGGCCTCGAGACGTAAGT
1 -C-AGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGACGT-AGT
* * * *
41171410 CAGTGTAAGA-CATGCCTGGGACATGCATC-GACTACGAGA-TTTGT
1 CAGTGTAAGACCATGTCTGGGACATGCATCGGCCT-CGAGACGTAGT
*
41171454 CAGTGTAAGACCATGTCTGCGACA
1 CAGTGTAAGACCATGTCTGGGACA
41171478 CGGCATTTGC
Statistics
Matches: 98, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
44 12 0.12
45 15 0.15
46 45 0.46
47 16 0.16
48 10 0.10
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.23
Consensus pattern (46 bp):
CAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGACGTAGT
Found at i:41181296 original size:8 final size:8
Alignment explanation
Indices: 41181283--41181308 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
41181273 TATTACTACT
41181283 CACTTTTA
1 CACTTTTA
41181291 CACTTTTA
1 CACTTTTA
41181299 CACTTTTA
1 CACTTTTA
41181307 CA
1 CA
41181309 AACAAGTCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.27, C:0.27, G:0.00, T:0.46
Consensus pattern (8 bp):
CACTTTTA
Found at i:41188913 original size:18 final size:17
Alignment explanation
Indices: 41188892--41188946 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 17
41188882 ACAATTCTTT
41188892 TCTCTTCTTCTTTTCTCC
1 TCTCTTCTTCTTTTCT-C
*
41188910 TCTCTTCATCTATTT-TC
1 TCTCTTCTTCT-TTTCTC
41188927 TCTTCTTCTTCTTTTC-C
1 TC-TCTTCTTCTTTTCTC
41188944 TCT
1 TCT
41188947 ATAGTTGAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
16 1 0.03
17 9 0.28
18 19 0.59
19 3 0.09
ACGTcount: A:0.04, C:0.35, G:0.00, T:0.62
Consensus pattern (17 bp):
TCTCTTCTTCTTTTCTC
Found at i:41190969 original size:27 final size:27
Alignment explanation
Indices: 41190939--41191313 Score: 195
Period size: 27 Copynumber: 13.9 Consensus size: 27
41190929 AATGTCTTCA
* *
41190939 ATTTGTAAAATTACCAAAGTACCCTCG
1 ATTTATAAAATTACCAAATTACCCTCG
* ***
41190966 ATTTATAGAATTACCGTTTTACCCTCG
1 ATTTATAAAATTACCAAATTACCCTCG
* **
41190993 ATTTATAGAATTACCATTTTACCCTCG
1 ATTTATAAAATTACCAAATTACCCTCG
* *** *
41191020 ATTTATAGAATTACCGTTTTATCCTCG
1 ATTTATAAAATTACCAAATTACCCTCG
* * *** *
41191047 ATTTATAGAATTATCGTTTTACCCTCA
1 ATTTATAAAATTACCAAATTACCCTCG
* **
41191074 ATTTATAGAATTACCATTTTACCCTCG
1 ATTTATAAAATTACCAAATTACCCTCG
* * **
41191101 ATTTACAGAATTA-CAGTTTTACCCTCG
1 ATTTATAAAATTACCA-AATTACCCTCG
* * ** *
41191128 ATTTATAGAACTACCATTTTACCCTTG
1 ATTTATAAAATTACCAAATTACCCTCG
* * * *
41191155 ATTTACAAAATTACTAAAATACCCTTG
1 ATTTATAAAATTACCAAATTACCCTCG
* * *
41191182 GTTTACAAAATTACCAAAATACCCTCG
1 ATTTATAAAATTACCAAATTACCCTCG
*
41191209 A-TCAGTAAAATTACCTAAA-TACCC-CTG
1 ATTTA-TAAAATTACC-AAATTACCCTC-G
* * * *
41191236 GTTTGTAAAATTACTAAAATACCC-CTG
1 ATTTATAAAATTACCAAATTACCCTC-G
* * *
41191263 GTTTGTAAAATTACCAAAATAGCCCT-G
1 ATTTATAAAATTACCAAATTA-CCCTCG
** * *
41191290 GCTTGTAAAATTACCAAAATACCC
1 ATTTATAAAATTACCAAATTACCC
41191314 CTGATCTGTG
Statistics
Matches: 301, Mismatches: 38, Indels: 19
0.84 0.11 0.05
Matches are distributed among these distances:
26 11 0.04
27 281 0.93
28 9 0.03
ACGTcount: A:0.34, C:0.22, G:0.09, T:0.35
Consensus pattern (27 bp):
ATTTATAAAATTACCAAATTACCCTCG
Found at i:41191016 original size:54 final size:54
Alignment explanation
Indices: 41190958--41191168 Score: 307
Period size: 54 Copynumber: 3.9 Consensus size: 54
41190948 ATTACCAAAG
* *
41190958 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCATTT
* * * * *
41191012 TACCCTCGATTTATAGAATTACCGTTTTATCCTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCATTT
*
41191066 TACCCTCAATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTA-CAGTTT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCA-TTT
* * *
41191120 TACCCTCGATTTATAGAACTACCATTTTACCCTTGATTTACAAAATTAC
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTAC
41191169 TAAAATACCC
Statistics
Matches: 143, Mismatches: 12, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
53 1 0.01
54 142 0.99
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (54 bp):
TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCATTT
Found at i:41191195 original size:81 final size:81
Alignment explanation
Indices: 41190958--41191168 Score: 332
Period size: 81 Copynumber: 2.6 Consensus size: 81
41190948 ATTACCAAAG
41190958 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATT
1 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATT
* *
41191023 TATAGAATTACCGTTT
66 TACAGAATTACAGTTT
* * *
41191039 TATCCTCGATTTATAGAATTATCGTTTTACCCTCAATTTATAGAATTACCATTTTACCCTCGATT
1 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATT
41191104 TACAGAATTACAGTTT
66 TACAGAATTACAGTTT
* * * * *
41191120 TACCCTCGATTTATAGAACTACCATTTTACCCTTGATTTACAAAATTAC
1 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAGAATTAC
41191169 TAAAATACCC
Statistics
Matches: 117, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 117 1.00
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (81 bp):
TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATT
TACAGAATTACAGTTT
Found at i:41191205 original size:81 final size:81
Alignment explanation
Indices: 41190945--41191210 Score: 255
Period size: 81 Copynumber: 3.3 Consensus size: 81
41190935 TTCAATTTGT
* * *
41190945 AAAATTACCAAAGTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAGAATTACCAT
1 AAAATTACCAAAATACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAAAATTACCAA
** *
41191010 TTTACCCTCGATTTAT
66 AATACCCTCGATTTAC
* **** * * * * *
41191026 AGAATTACCGTTTTATCCTCGATTTATAGAATTATCGTTTTACCCTCAATTTATAGAATTACCAT
1 AAAATTACCAAAATACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAAAATTACCAA
**
41191091 TTTACCCTCGATTTAC
66 AATACCCTCGATTTAC
* *** * * * * *
41191107 AGAATTA-CAGTTTTACCCTCGATTTATAGAACTACCATTTTACCCTTGATTTACAAAATTACTA
1 AAAATTACCA-AAATACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAAAATTACCA
* *
41191171 AAATACCCTTGGTTTAC
65 AAATACCCTCGATTTAC
41191188 AAAATTACCAAAATACCCTCGAT
1 AAAATTACCAAAATACCCTCGAT
41191211 CAGTAAAATT
Statistics
Matches: 155, Mismatches: 28, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
80 1 0.01
81 152 0.98
82 2 0.01
ACGTcount: A:0.33, C:0.22, G:0.08, T:0.37
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAAAATTACCAA
AATACCCTCGATTTAC
Found at i:41191315 original size:27 final size:27
Alignment explanation
Indices: 41191161--41191369 Score: 199
Period size: 27 Copynumber: 7.8 Consensus size: 27
41191151 CTTGATTTAC
* * **
41191161 AAAATTACTAAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCCTGGTTTGT
* **
41191188 AAAATTACCAAAATA-CCCTCGATCAGT
1 AAAATTACCAAAATACCCCT-GGTTTGT
*
41191215 AAAATTACCTAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
41191242 AAAATTACTAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* *
41191269 AAAATTACCAAAATAGCCCTGGCTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* *
41191296 AAAATTACCAAAATACCCCTGATCTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * * * *
41191323 GAAATTATCGAAATA-CTCTCGATTTGT
1 AAAATTACCAAAATACCCCT-GGTTTGT
* *
41191350 AAAA-TATCGAAATACCCCTG
1 AAAATTACCAAAATACCCCTG
41191370 TAGGGTAGAA
Statistics
Matches: 151, Mismatches: 27, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
26 17 0.11
27 130 0.86
28 4 0.03
ACGTcount: A:0.39, C:0.22, G:0.11, T:0.29
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGGTTTGT
Found at i:41191338 original size:81 final size:81
Alignment explanation
Indices: 41191161--41191329 Score: 232
Period size: 81 Copynumber: 2.1 Consensus size: 81
41191151 CTTGATTTAC
* *
41191161 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAATTACCTA
1 AAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAATTACCAA
* *
41191226 AATACCCCTGGTTTGT
66 AATACCCCTGATCTGT
** * * *
41191242 AAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATAGCCCTGGCT-TGTAAAATTACCA
1 AAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAATA-CCCTCGATCAGTAAAATTACCA
41191306 AAATACCCCTGATCTGT
65 AAATACCCCTGATCTGT
*
41191323 GAAATTA
1 AAAATTA
41191330 TCGAAATACT
Statistics
Matches: 77, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
81 71 0.92
82 6 0.08
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (81 bp):
AAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAATTACCAA
AATACCCCTGATCTGT
Found at i:41191398 original size:27 final size:27
Alignment explanation
Indices: 41191357--41191465 Score: 121
Period size: 27 Copynumber: 4.0 Consensus size: 27
41191347 TGTAAAATAT
41191357 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * *
41191384 CGAAATACCCTTGTAGGGTAGAAATAT
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * *
41191411 CAAAATACCCCTATAGGGTAGAATTAT
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * *
41191438 CGAGATACCCTTGT-GGGATAAAATTAC
1 CGAAATACCCCTGTAGGG-TAGAATTAC
41191465 C
1 C
41191466 ATTTTGCCCC
Statistics
Matches: 68, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
26 3 0.04
27 65 0.96
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (27 bp):
CGAAATACCCCTGTAGGGTAGAATTAC
Found at i:41191726 original size:24 final size:23
Alignment explanation
Indices: 41191670--41191740 Score: 70
Period size: 24 Copynumber: 3.0 Consensus size: 23
41191660 AGGAAGTGCG
* *
41191670 AAAAGGGATTTGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAG-TTATC
*
41191694 AAAAGGGCTTTGCCCCAGTTATT
1 AAAAGGGCTTTGCCCCAGTTATC
**
41191717 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAG-GGCTTTGCC-CCAGTTAT
41191741 ATGATAAAGC
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
23 8 0.20
24 24 0.60
25 8 0.20
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (23 bp):
AAAAGGGCTTTGCCCCAGTTATC
Found at i:41192727 original size:26 final size:26
Alignment explanation
Indices: 41192657--41192736 Score: 101
Period size: 27 Copynumber: 3.0 Consensus size: 26
41192647 ATGGAGTAAG
41192657 CATTCTAGTGGCCATGCCACAAATAT
1 CATTCTAGTGGCCATGCCACAAATAT
*
41192683 C-TGATCTGGTGGCCATGCCACAAATAT
1 CAT--TCTAGTGGCCATGCCACAAATAT
*
41192710 CATTCTAGTGGCTC-TGCCACAATTAT
1 CATTCTAGTGGC-CATGCCACAAATAT
41192736 C
1 C
41192737 TATATCTGGT
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
25 1 0.02
26 21 0.45
27 24 0.51
28 1 0.02
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (26 bp):
CATTCTAGTGGCCATGCCACAAATAT
Found at i:41196284 original size:51 final size:49
Alignment explanation
Indices: 41196229--41196376 Score: 134
Period size: 50 Copynumber: 3.1 Consensus size: 49
41196219 CTATCACATA
*
41196229 ACATGTAACACATCCATAATGAACTCAGACCTCTCAACAAGCTCAGATGTT
1 ACATGTAACACATCCATAATGAACTC-GACCTCTCAACGAGCTCAGATG-T
* * * *
41196280 ACATG-AATCGA-ATCCATCATGAACTTGACCACTCAACGAGCTCGGATG-
1 ACATGTAA-C-ACATCCATAATGAACTCGACCTCTCAACGAGCTCAGATGT
41196328 -C---T--CACATCCATAATGAACTCGAACCTCTCAACGAGCTCAGATGCT
1 ACATGTAACACATCCATAATGAACTCG-ACCTCTCAACGAGCTCAGATG-T
41196373 ACAT
1 ACAT
41196377 ACCTCACGAG
Statistics
Matches: 78, Mismatches: 9, Indels: 23
0.71 0.08 0.21
Matches are distributed among these distances:
41 1 0.01
42 15 0.19
43 19 0.24
46 1 0.01
47 1 0.01
50 21 0.27
51 19 0.24
52 1 0.01
ACGTcount: A:0.34, C:0.29, G:0.14, T:0.22
Consensus pattern (49 bp):
ACATGTAACACATCCATAATGAACTCGACCTCTCAACGAGCTCAGATGT
Found at i:41196371 original size:43 final size:41
Alignment explanation
Indices: 41196291--41196376 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 41
41196281 CATGAATCGA
* * *
41196291 ATCCATCATGAACTTGACCACTCAACGAGCTCGGATGCTCAC
1 ATCCATAATGAACTCGACCACTCAACGAGCTCAGATGCT-AC
*
41196333 ATCCATAATGAACTCGAACCTCTCAACGAGCTCAGATGCTAC
1 ATCCATAATGAACTCG-ACCACTCAACGAGCTCAGATGCTAC
41196375 AT
1 AT
41196377 ACCTCACGAG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
42 18 0.46
43 21 0.54
ACGTcount: A:0.31, C:0.31, G:0.15, T:0.22
Consensus pattern (41 bp):
ATCCATAATGAACTCGACCACTCAACGAGCTCAGATGCTAC
Found at i:41199347 original size:15 final size:16
Alignment explanation
Indices: 41199327--41199356 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
41199317 TGGTGCCTTG
41199327 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
41199342 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
41199357 AGCATGTTCG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:41202130 original size:43 final size:42
Alignment explanation
Indices: 41202082--41202218 Score: 136
Period size: 43 Copynumber: 3.3 Consensus size: 42
41202072 ATAGGATTTC
*
41202082 CGATATGTG-TTCTTGTGTAAGACCATGTCTAAGACGTTGGCAT
1 CGATATGTGATTC--GTGTAAGACCATGTCTAAGACATTGGCAT
* * *
41202125 CGATATGTGATTACATGTAAGGCCATGTCTAGGACATTGGCAT
1 CGATATGTGATT-CGTGTAAGACCATGTCTAAGACATTGGCAT
* ** * *
41202168 CG-TATTTGATTCGTGTAAGACC-TGTCTGGGACAGTCGCAT
1 CGATATGTGATTCGTGTAAGACCATGTCTAAGACATTGGCAT
*
41202208 CAATATGTGAT
1 CGATATGTGAT
41202219 GGCATGTAAT
Statistics
Matches: 79, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
40 16 0.20
41 16 0.20
42 8 0.10
43 36 0.46
44 2 0.03
45 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.33
Consensus pattern (42 bp):
CGATATGTGATTCGTGTAAGACCATGTCTAAGACATTGGCAT
Found at i:41204038 original size:46 final size:44
Alignment explanation
Indices: 41203941--41204055 Score: 149
Period size: 46 Copynumber: 2.5 Consensus size: 44
41203931 AGGCTGACGC
*
41203941 CATGTCCCAAACATGGTCTTACACTGACACATCTCGTAGCCGATG
1 CATGTCCCAAACAT-GTCTTACACTGACACATCTCGGAGCCGATG
* * *
41203986 CATGTCCCAAACATGTCTTACACTGGCCTACATCTCGGGGTCGATG
1 CATGTCCCAAACATGTCTTACACT-GAC-ACATCTCGGAGCCGATG
* *
41204032 CGTGTCCCAGACATGTCTTACACT
1 CATGTCCCAAACATGTCTTACACT
41204056 AGCTCTCGTC
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
44 10 0.16
45 16 0.26
46 36 0.58
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.26
Consensus pattern (44 bp):
CATGTCCCAAACATGTCTTACACTGACACATCTCGGAGCCGATG
Found at i:41205863 original size:25 final size:25
Alignment explanation
Indices: 41205830--41205892 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
41205820 TATCAGAACT
* *
41205830 AGAATCAGAATTAGAATCAGGT-GAC
1 AGAATCAGAATCAGAATCAGATAG-C
* *
41205855 AGAATCAGACTCAGTATCAGATAGC
1 AGAATCAGAATCAGAATCAGATAGC
41205880 AGAATCAGAATCA
1 AGAATCAGAATCA
41205893 AAATGCGAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
25 31 0.97
26 1 0.03
ACGTcount: A:0.44, C:0.16, G:0.21, T:0.19
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGATAGC
Found at i:41206051 original size:27 final size:26
Alignment explanation
Indices: 41206014--41206121 Score: 99
Period size: 27 Copynumber: 4.0 Consensus size: 26
41206004 AACATGGATG
* *
41206014 CCAGAACAGATATTGTGACTGAGTCA
1 CCAGAACAGATATTGTGACAGAGCCA
*
41206040 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGACAGAGCCA
* * * *
41206067 CCAGACCAGATATTTGTGGCATACCCA
1 CCAGAACAGATA-TTGTGACAGAGCCA
* * *
41206094 CCAGAAACAGATAATGTGGCAAAGCCA
1 CCAG-AACAGATATTGTGACAGAGCCA
41206121 C
1 C
41206122 TTAACAAAAT
Statistics
Matches: 69, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
26 11 0.16
27 51 0.74
28 7 0.10
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATATTGTGACAGAGCCA
Found at i:41206711 original size:16 final size:16
Alignment explanation
Indices: 41206686--41206716 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
41206676 ATCCCAACCC
41206686 ATGCAAAATGTCATGT
1 ATGCAAAATGTCATGT
*
41206702 ATGCAGAATGTCATG
1 ATGCAAAATGTCATG
41206717 CCCATATTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.29
Consensus pattern (16 bp):
ATGCAAAATGTCATGT
Found at i:41206889 original size:27 final size:27
Alignment explanation
Indices: 41206859--41206999 Score: 165
Period size: 27 Copynumber: 5.2 Consensus size: 27
41206849 GGGCAAAATG
* * * *
41206859 GTAATTTTACCCCACAAGTGTATCTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
41206886 GTAATTCTACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
41206913 GTATTTCTACCTTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
41206940 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* * *
41206967 ATAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
41206994 ATAATT
1 GTAATT
41207000 TTATAAATCG
Statistics
Matches: 99, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 99 1.00
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:41206905 original size:54 final size:54
Alignment explanation
Indices: 41206847--41206959 Score: 129
Period size: 54 Copynumber: 2.1 Consensus size: 54
41206837 TCAACACCCT
* *
41206847 AGGGGCAAAATGGTAATTT-TACCCCACAAGTGTATCTCAGTAATTCTACCCTAC
1 AGGGGCAAAATAGT-ATTTCTACCCCACAAGGGTATCTCAGTAATTCTACCCTAC
* *** ** *
41206901 AGGGGTATTTTAGTATTTCTACCTTACAAGGGTATTTCAGTAATTCTACCCTAC
1 AGGGGCAAAATAGTATTTCTACCCCACAAGGGTATCTCAGTAATTCTACCCTAC
41206955 AGGGG
1 AGGGG
41206960 TATTTCAATA
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
53 4 0.08
54 45 0.92
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.32
Consensus pattern (54 bp):
AGGGGCAAAATAGTATTTCTACCCCACAAGGGTATCTCAGTAATTCTACCCTAC
Found at i:41207014 original size:27 final size:27
Alignment explanation
Indices: 41206984--41207241 Score: 143
Period size: 27 Copynumber: 9.6 Consensus size: 27
41206974 TACCCTATAG
* *
41206984 GGGTATTTCAATAATTTTATAAATCGA
1 GGGTATTTCAGTAATTTTACAAATCGA
*** * * *
41207011 GGGTAAAACGGTAATTCTATAAATCGA
1 GGGTATTTCAGTAATTTTACAAATCGA
* *
41207038 GGGTATGTT-GGTAATTTTACAAGT-GA
1 GGGTAT-TTCAGTAATTTTACAAATCGA
* **
41207064 GGGTATTTTAGTAATTTTACAGGTCGA
1 GGGTATTTCAGTAATTTTACAAATCGA
* *
41207091 GGGTATTTCAGTAATTTCACAACTC-A
1 GGGTATTTCAGTAATTTTACAAATCGA
** * *
41207117 GGGGTATTTTGGTAATTTCACAAA-CTA
1 -GGGTATTTCAGTAATTTTACAAATCGA
** *
41207144 GGGGTATTTTGGTAATTTTACAAA-CTA
1 -GGGTATTTCAGTAATTTTACAAATCGA
** * * *
41207171 GAGGTATTTTGGTAATTTTGCTAGTCGA
1 G-GGTATTTCAGTAATTTTACAAATCGA
** *
41207199 GGGTA-TTCAGTAATTTTGTAAA-CTAA
1 GGGTATTTCAGTAATTTTACAAATC-GA
*
41207225 GGGTATTTTAGTAATTT
1 GGGTATTTCAGTAATTT
41207242 GGTAAACTAA
Statistics
Matches: 189, Mismatches: 33, Indels: 18
0.79 0.14 0.08
Matches are distributed among these distances:
25 3 0.02
26 42 0.22
27 141 0.75
28 3 0.02
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTTACAAATCGA
Found at i:41207106 original size:107 final size:108
Alignment explanation
Indices: 41206984--41207220 Score: 245
Period size: 107 Copynumber: 2.2 Consensus size: 108
41206974 TACCCTATAG
* *
41206984 GGGTATTTCAATAATTTTATAAATC-GAGGGTAAAACGGTAA-TTCTATAAATCGA-GGGTATGT
1 GGGTATTTCAGTAATTTTATAAATCAG-GGGTAAAACGGTAATTTC-ACAAA-CGAGGGGTATGT
*
41207046 TGGTAATTTTAC-AAGT-GAGGGTATTTTAGTAATTTTAC-AGGTCGA
63 TGGTAATTTTACAAACTAGA-GGTATTTTAGTAATTTTACTA-GTCGA
* * * **** * *
41207091 GGGTATTTCAGTAATTTCACAACTCAGGGGTATTTTGGTAATTTCACAAACTAGGGGTATTTTGG
1 GGGTATTTCAGTAATTTTATAAATCAGGGGTAAAACGGTAATTTCACAAACGAGGGGTATGTTGG
* *
41207156 TAATTTTACAAACTAGAGGTATTTTGGTAATTTTGCTAGTCGA
66 TAATTTTACAAACTAGAGGTATTTTAGTAATTTTACTAGTCGA
*
41207199 GGGTA-TTCAGTAATTTTGTAAA
1 GGGTATTTCAGTAATTTTATAAA
41207221 CTAAGGGTAT
Statistics
Matches: 106, Mismatches: 18, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
106 2 0.02
107 67 0.63
108 34 0.32
109 3 0.03
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.38
Consensus pattern (108 bp):
GGGTATTTCAGTAATTTTATAAATCAGGGGTAAAACGGTAATTTCACAAACGAGGGGTATGTTGG
TAATTTTACAAACTAGAGGTATTTTAGTAATTTTACTAGTCGA
Found at i:41207177 original size:81 final size:80
Alignment explanation
Indices: 41207038--41207188 Score: 180
Period size: 81 Copynumber: 1.9 Consensus size: 80
41207028 TATAAATCGA
* * ** *
41207038 GGGTATGTTGGTAATTTTACAAGTGAGGGTATTTTAGTAATTTTACAGGTCGAGGGTATTTCAGT
1 GGGTATGTTGGTAATTTCACAACTGAGGGTATTTTAGTAATTTTACAACTAGAGGGTATTTCAGT
41207103 AATTTCACAACTCAG
66 AATTTCACAACTCAG
* * *
41207118 GGGTATTTTGGTAATTTCACAAACT-AGGGGTATTTTGGTAATTTTACAAACTAGA-GGTATTTT
1 GGGTATGTTGGTAATTTCAC-AACTGA-GGGTATTTTAGTAATTTTAC-AACTAGAGGGTATTTC
*
41207181 GGTAATTT
63 AGTAATTT
41207189 TGCTAGTCGA
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
80 19 0.32
81 36 0.61
82 4 0.07
ACGTcount: A:0.28, C:0.09, G:0.24, T:0.40
Consensus pattern (80 bp):
GGGTATGTTGGTAATTTCACAACTGAGGGTATTTTAGTAATTTTACAACTAGAGGGTATTTCAGT
AATTTCACAACTCAG
Found at i:41207203 original size:54 final size:53
Alignment explanation
Indices: 41207034--41207241 Score: 187
Period size: 54 Copynumber: 3.9 Consensus size: 53
41207024 ATTCTATAAA
* *
41207034 TCGAGGGTATGTT-GGTAATTTTACAAGT-GAGGGTATTTTAGTAATTTTACAGG
1 TCGAGGGTAT-TTCAGTAATTTTACAACTAGAGGGTATTTTAGTAATTTTACA-G
* * * *
41207087 TCGAGGGTATTTCAGTAATTTCACAACTCAG-GGGTATTTTGGTAATTTCACAA
1 TCGAGGGTATTTCAGTAATTTTACAACT-AGAGGGTATTTTAGTAATTTTACAG
* * ** * *
41207140 ACTAGGGGTATTTTGGTAATTTTACAAACTAGA-GGTATTTTGGTAATTTTGCTAG
1 TCGA-GGGTATTTCAGTAATTTTAC-AACTAGAGGGTATTTTAGTAATTTTAC-AG
41207195 TCGAGGGTA-TTCAGTAATTTTGTA-AACTA-AGGGTATTTTAGTAATTT
1 TCGAGGGTATTTCAGTAA-TTT-TACAACTAGAGGGTATTTTAGTAATTT
41207242 GGTAAACTAA
Statistics
Matches: 126, Mismatches: 19, Indels: 20
0.76 0.12 0.12
Matches are distributed among these distances:
52 3 0.02
53 50 0.40
54 63 0.50
55 10 0.08
ACGTcount: A:0.28, C:0.09, G:0.24, T:0.40
Consensus pattern (53 bp):
TCGAGGGTATTTCAGTAATTTTACAACTAGAGGGTATTTTAGTAATTTTACAG
Found at i:41207227 original size:26 final size:27
Alignment explanation
Indices: 41207198--41207251 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
41207188 TTGCTAGTCG
*
41207198 AGGGTA-TTCAGTAATTTTGTAAACTA
1 AGGGTATTTCAGTAATTTGGTAAACTA
*
41207224 AGGGTATTTTAGTAATTTGGTAAACTA
1 AGGGTATTTCAGTAATTTGGTAAACTA
41207251 A
1 A
41207252 AGTATTCTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 6 0.24
27 19 0.76
ACGTcount: A:0.35, C:0.06, G:0.20, T:0.39
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTGGTAAACTA
Found at i:41207256 original size:26 final size:27
Alignment explanation
Indices: 41207207--41207257 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
41207197 GAGGGTATTC
* *
41207207 AGTAATTTTGTAAACTAAGGGTATTTT
1 AGTAATTTGGTAAACTAAGAGTATTTT
41207234 AGTAATTTGGTAAACTAA-AGTATT
1 AGTAATTTGGTAAACTAAGAGTATT
41207258 CTAAACAGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 5 0.23
27 17 0.77
ACGTcount: A:0.37, C:0.04, G:0.18, T:0.41
Consensus pattern (27 bp):
AGTAATTTGGTAAACTAAGAGTATTTT
Found at i:41209451 original size:27 final size:26
Alignment explanation
Indices: 41209410--41209495 Score: 100
Period size: 27 Copynumber: 3.2 Consensus size: 26
41209400 TTGCAATAAC
* *
41209410 AGATATTGTGACAGAGTCACCAGATAT
1 AGATATTGTGGCAGAGCCACCAGA-AT
*
41209437 AGATATTGTGGCAGAGCCACCAGAAC
1 AGATATTGTGGCAGAGCCACCAGAAT
* *
41209463 AGATATTTGTGGCATACCCACCAGAAAT
1 AGATA-TTGTGGCAGAGCCACCAG-AAT
41209491 AGATA
1 AGATA
41209496 ATATGGTAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
26 6 0.12
27 38 0.75
28 7 0.14
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (26 bp):
AGATATTGTGGCAGAGCCACCAGAAT
Found at i:41210308 original size:27 final size:27
Alignment explanation
Indices: 41210245--41210380 Score: 164
Period size: 27 Copynumber: 5.0 Consensus size: 27
41210235 AGGGGGAAAA
* * * *
41210245 TGGTAATTTTACCCCACAAGGGTATCT
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
41210272 CGATAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* * *
41210299 TGGTACTTCTACCTTACAAGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
41210326 CGGTAATTCTACCCTACAGGGGTGTTT
1 TGGTAATTCTACCCTACAGGGGTATTT
*
41210353 TAGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
41210380 T
1 T
41210381 AATAATTTTG
Statistics
Matches: 90, Mismatches: 19, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 90 1.00
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.36
Consensus pattern (27 bp):
TGGTAATTCTACCCTACAGGGGTATTT
Found at i:41210387 original size:54 final size:54
Alignment explanation
Indices: 41210247--41210379 Score: 185
Period size: 54 Copynumber: 2.5 Consensus size: 54
41210237 GGGGAAAATG
* * * *
41210247 GTAATTTTACCCCACAAGGGTATCTCGATAATTCTACCCTACAGGGGTATTTTG
1 GTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTTA
* * * *
41210301 GTACTTCTACCTTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTGTTTTA
1 GTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTTA
*
41210355 GTAATTCTACCCTACAGGGGTATTT
1 GTAATTCTACCCTACAAGGGTATTT
41210380 TAATAATTTT
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 68 1.00
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (54 bp):
GTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTTA
Found at i:41210438 original size:27 final size:26
Alignment explanation
Indices: 41210383--41210470 Score: 68
Period size: 27 Copynumber: 3.3 Consensus size: 26
41210373 GGTATTTTAA
* ***
41210383 TAATTTTGTAAATCGAGGGTAAAACGG
1 TAATTTTGTAAATTGAGGGT-ATTTGG
41210410 TAATTTTGTAAATTGAGGGTACTTTGG
1 TAATTTTGTAAATTGAGGGTA-TTTGG
* ** * *
41210437 TAAATTTACAAGTTGAGGGTATTTCAG
1 TAATTTTGTAAATTGAGGGTATTT-GG
41210464 TAATTTT
1 TAATTTT
41210471 ACAGGTCGAG
Statistics
Matches: 49, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
26 4 0.08
27 45 0.92
ACGTcount: A:0.32, C:0.06, G:0.23, T:0.40
Consensus pattern (26 bp):
TAATTTTGTAAATTGAGGGTATTTGG
Found at i:41210471 original size:27 final size:26
Alignment explanation
Indices: 41210420--41210630 Score: 101
Period size: 27 Copynumber: 7.9 Consensus size: 26
41210410 TAATTTTGTA
* *
41210420 AATTGAGGGTACTTT-GGTAAATTTAC
1 AATTGAGGGTA-TTTCAGTAATTTTAC
41210446 AAGTTGAGGGTATTTCAGTAATTTTAC
1 AA-TTGAGGGTATTTCAGTAATTTTAC
* * *
41210473 AGGTCGAGGGTATTTCAGTAATTTCAC
1 A-ATTGAGGGTATTTCAGTAATTTTAC
* * ** *
41210500 AAATCAGGGGTATTTTGGTAATTTCAC
1 AATTGA-GGGTATTTCAGTAATTTTAC
* **
41210527 AAACT-AGGGGTATTTTGGTAATTTTAC
1 -AATTGA-GGGTATTTCAGTAATTTTAC
* *
41210554 AAACT-AGGGGTATTT-AGGTAATTTTTC
1 -AATTGA-GGGTATTTCA-GTAATTTTAC
*
41210581 TAATCGAGGGTA-TTCAGTAATTTTGTA-
1 -AATTGAGGGTATTTCAGTAA-TTT-TAC
***
41210608 AACCAAGGGTATTTCAGTAATTT
1 AATTGAGGGTATTTCAGTAATTT
41210631 GGTAAACAAA
Statistics
Matches: 153, Mismatches: 21, Indels: 22
0.78 0.11 0.11
Matches are distributed among these distances:
26 24 0.16
27 124 0.81
28 5 0.03
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.38
Consensus pattern (26 bp):
AATTGAGGGTATTTCAGTAATTTTAC
Found at i:41210511 original size:54 final size:52
Alignment explanation
Indices: 41210453--41210630 Score: 162
Period size: 54 Copynumber: 3.3 Consensus size: 52
41210443 TACAAGTTGA
* *
41210453 GGGTATTTCAGTAATTTTACAGGTCGAGGGTATTTCAGTAATTTCACAAATCAG
1 GGGTATTTCAGTAATTTTACA-ATCGAGGGTATTTCAGTAATTTTACAAA-CAG
** * * * **
41210507 GGGTATTTTGGTAATTTCACAAACTAGGGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTCAGTAATTTTACAATCGA-GGGTATTTCAGTAATTTTACAAAC-AG
* ** *
41210561 GGGTATTT-AGGTAATTTTTCTAATCGAGGGTA-TTCAGTAATTTTGTAAACCAA
1 GGGTATTTCA-GTAATTTTAC-AATCGAGGGTATTTCAGTAATTTTACAAA-CAG
41210614 GGGTATTTCAGTAATTT
1 GGGTATTTCAGTAATTT
41210631 GGTAAACAAA
Statistics
Matches: 99, Mismatches: 19, Indels: 13
0.76 0.15 0.10
Matches are distributed among these distances:
53 32 0.32
54 63 0.64
55 4 0.04
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.39
Consensus pattern (52 bp):
GGGTATTTCAGTAATTTTACAATCGAGGGTATTTCAGTAATTTTACAAACAG
Found at i:41210616 original size:26 final size:27
Alignment explanation
Indices: 41210587--41210637 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
41210577 TTTCTAATCG
*
41210587 AGGGTA-TTCAGTAATTTTGTAAACCA
1 AGGGTATTTCAGTAATTTGGTAAACCA
41210613 AGGGTATTTCAGTAATTTGGTAAAC
1 AGGGTATTTCAGTAATTTGGTAAAC
41210638 AAAAGTATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.33, C:0.10, G:0.22, T:0.35
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTGGTAAACCA
Found at i:41210645 original size:26 final size:27
Alignment explanation
Indices: 41210593--41210646 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
41210583 ATCGAGGGTA
* **
41210593 TTCAGTAATTTTGTAAACCAAGGGTAT
1 TTCAGTAATTTGGTAAACCAAAAGTAT
41210620 TTCAGTAATTTGGTAAA-CAAAAGTAT
1 TTCAGTAATTTGGTAAACCAAAAGTAT
41210646 T
1 T
41210647 CGAAACAGGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 8 0.33
27 16 0.67
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (27 bp):
TTCAGTAATTTGGTAAACCAAAAGTAT
Found at i:41212624 original size:6 final size:6
Alignment explanation
Indices: 41212594--41212681 Score: 56
Period size: 6 Copynumber: 14.3 Consensus size: 6
41212584 AAGAAGCATT
* * *
41212594 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCA-A GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * *
41212643 ACCAGA ATCAGT ATCAAGTA A-CAGA ATTAGA ATCAGA AT
1 ATCAGA ATCAGA ATC-AG-A ATCAGA ATCAGA ATCAGA AT
41212682 GTGAATGCAA
Statistics
Matches: 62, Mismatches: 12, Indels: 16
0.69 0.13 0.18
Matches are distributed among these distances:
5 5 0.08
6 49 0.79
7 6 0.10
8 2 0.03
ACGTcount: A:0.50, C:0.15, G:0.17, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:41212648 original size:25 final size:25
Alignment explanation
Indices: 41212615--41212681 Score: 98
Period size: 25 Copynumber: 2.7 Consensus size: 25
41212605 AATCAAAATG
*
41212615 AGAATCAGAATCAGAATCAAGTGAC
1 AGAATCAGAATCAGAATCAAGTAAC
* *
41212640 AGAACCAGAATCAGTATCAAGTAAC
1 AGAATCAGAATCAGAATCAAGTAAC
*
41212665 AGAATTAGAATCAGAAT
1 AGAATCAGAATCAGAAT
41212682 GTGAATGCAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.18
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAAGTAAC
Found at i:41216155 original size:40 final size:40
Alignment explanation
Indices: 41216118--41216342 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
41216108 GCTACTCGTT
* *
41216118 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
41216158 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
41216198 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
41216238 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
41216277 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
41216318 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
41216343 CATCATTCGA
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
38 2 0.01
39 32 0.19
40 118 0.72
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:41216302 original size:119 final size:120
Alignment explanation
Indices: 41216120--41216342 Score: 301
Period size: 119 Copynumber: 1.9 Consensus size: 120
41216110 TACTCGTTCA
*
41216120 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
41216185 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
41216240 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
41216302 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
41216343 CATCATTCGA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
118 4 0.04
119 66 0.73
120 20 0.22
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:41217539 original size:56 final size:56
Alignment explanation
Indices: 41217472--41217647 Score: 352
Period size: 56 Copynumber: 3.1 Consensus size: 56
41217462 TATTAGTTTA
41217472 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
41217528 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
41217584 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
41217640 TTGCCCAT
1 TTGCCCAT
41217648 CATCCCTTGT
Statistics
Matches: 120, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 120 1.00
ACGTcount: A:0.23, C:0.24, G:0.09, T:0.44
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:41224154 original size:40 final size:40
Alignment explanation
Indices: 41224117--41224340 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
41224107 GCTACTCGTT
* *
41224117 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
41224157 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
41224197 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
41224237 CCAATGCCTTCGGG-CTTAGCCC-GAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
41224275 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
41224316 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
41224341 CATCATTCGA
Statistics
Matches: 163, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
37 2 0.01
38 24 0.15
39 14 0.09
40 110 0.67
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:41224300 original size:78 final size:79
Alignment explanation
Indices: 41224117--41224338 Score: 272
Period size: 78 Copynumber: 2.8 Consensus size: 79
41224107 GCTACTCGTT
* * *
41224117 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACCAATGCCTTCGGGACTTAGCCC-
*
41224181 GATTTAGTAACTCGCA
64 GAATTAGTAACTCGCA
*
41224197 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGA
*
41224261 ATTAGTATCTCGCA
66 ATTAGTAACTCGCA
* * * * * *
41224275 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA-CAAAGCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCACCAATGCCTTCGGGACTTAGCCC
41224338 G
64 G
41224339 GACATCATTC
Statistics
Matches: 125, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
77 3 0.02
78 52 0.42
79 20 0.16
80 48 0.38
81 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGA
ATTAGTAACTCGCA
Found at i:41224300 original size:118 final size:120
Alignment explanation
Indices: 41224119--41224340 Score: 299
Period size: 118 Copynumber: 1.9 Consensus size: 120
41224109 TACTCGTTCA
**
41224119 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
41224184 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
41224239 AATGCCTTCGGG-CTTAGCCCGAAT-TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGA
1 AATGCCTTCGGGACATAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGA
* * *
41224301 TATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
65 TATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
41224341 CATCATTCGA
Statistics
Matches: 89, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
117 3 0.03
118 57 0.64
119 17 0.19
120 12 0.13
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:41226050 original size:22 final size:22
Alignment explanation
Indices: 41226022--41226086 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
41226012 GCAAGTACGT
*
41226022 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
41226044 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
41226066 TTGGCGCAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
41226087 AATAATTTTC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:41226631 original size:27 final size:27
Alignment explanation
Indices: 41226601--41226686 Score: 109
Period size: 27 Copynumber: 3.2 Consensus size: 27
41226591 GGAAAAATGG
* * * *
41226601 TAATTTTACCCCACAAGGGTATCTCGA
1 TAATTCTACCCTACAGGGGTATTTCGA
*
41226628 TAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGA
* *
41226655 TAATTCTACCCTATAGGGGTATTTCAA
1 TAATTCTACCCTACAGGGGTATTTCGA
41226682 TAATT
1 TAATT
41226687 TTGTAAATCG
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.35
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCGA
Found at i:41226701 original size:27 final size:27
Alignment explanation
Indices: 41226671--41226903 Score: 91
Period size: 27 Copynumber: 8.7 Consensus size: 27
41226661 TACCCTATAG
**
41226671 GGGTATTTCAATAATTTTGTAAATCGA
1 GGGTATTTCAATAATTTTACAAATCGA
** * ** *
41226698 GGGTAAAAT-AATAATTCTGTAAATCGG
1 GGGT-ATTTCAATAATTTTACAAATCGA
** * *
41226725 GGGTACTTT-GGTAATTTTACAAGTCAA
1 GGGTA-TTTCAATAATTTTACAAATCGA
**
41226752 GGGTATTTCAATAATTTTACAGGTCGA
1 GGGTATTTCAATAATTTTACAAATCGA
* * *
41226779 GGGTATTTCAGTAATTTCACAAAT-TA
1 GGGTATTTCAATAATTTTACAAATCGA
*** * *
41226805 GGGGTATTTTGGTAATTTCACAAAT-TA
1 -GGGTATTTCAATAATTTTACAAATCGA
*** *
41226832 GGGGTATTTTGGTAATTTTACAAA-CTA
1 -GGGTATTTCAATAATTTTACAAATCGA
*** * *
41226859 GGGGTATTTTGGTAATTTTGCTAATCGA
1 -GGGTATTTCAATAATTTTACAAATCGA
*
41226887 GGGTA-TTCAGTAATTTT
1 GGGTATTTCAATAATTTT
41226904 GTAAACCAAA
Statistics
Matches: 169, Mismatches: 31, Indels: 13
0.79 0.15 0.06
Matches are distributed among these distances:
26 15 0.09
27 150 0.89
28 4 0.02
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (27 bp):
GGGTATTTCAATAATTTTACAAATCGA
Done.