Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 95 of 189
Found at i:26420413 original size:18 final size:18
Alignment explanation
Indices: 26420390--26420428 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
26420380 TAAAAATAAA
26420390 TATATTATTAGGAGATAT
1 TATATTATTAGGAGATAT
*
26420408 TATATTATTATGAGATAT
1 TATATTATTAGGAGATAT
26420426 TAT
1 TAT
26420429 CTTTTAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (18 bp):
TATATTATTAGGAGATAT
Found at i:26429314 original size:19 final size:20
Alignment explanation
Indices: 26429292--26429348 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 20
26429282 ATTCTAAAAC
26429292 TTAAAAAAAAT-TAAAAATT
1 TTAAAAAAAATATAAAAATT
*
26429311 TTAAAAAATATATAAAAA-T
1 TTAAAAAAAATATAAAAATT
* *
26429330 TGAAAAAAAGTTATAAAAA
1 TTAAAAAAA-ATATAAAAA
26429349 ACGAAAAAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (20 bp):
TTAAAAAAAATATAAAAATT
Found at i:26429326 original size:20 final size:20
Alignment explanation
Indices: 26429292--26429348 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
26429282 ATTCTAAAAC
*
26429292 TTAAAAAAAAT-TAAAAATT
1 TTAAAAAATATATAAAAATT
26429311 TTAAAAAATATATAAAAATT
1 TTAAAAAATATATAAAAATT
**
26429331 GAAAAAAAGT-TATAAAAA
1 TTAAAAAA-TATATAAAAA
26429349 ACGAAAAAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
19 10 0.30
20 22 0.67
21 1 0.03
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (20 bp):
TTAAAAAATATATAAAAATT
Found at i:26429441 original size:15 final size:16
Alignment explanation
Indices: 26429404--26429442 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
26429394 TTTAATTTTT
*
26429404 TTTTATAATTTTAGAA
1 TTTTATAATTTGAGAA
*
26429420 TTATATAATTTGA-AA
1 TTTTATAATTTGAGAA
26429435 TTTTATAA
1 TTTTATAA
26429443 AAAATATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (16 bp):
TTTTATAATTTGAGAA
Found at i:26429577 original size:19 final size:19
Alignment explanation
Indices: 26429564--26429607 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
26429554 TTTTTATGTG
*
26429564 TTTTTTTAGATTTTATATA
1 TTTTTTCAGATTTTATATA
*
26429583 TTTTTTCAGAATTTATAATA
1 TTTTTTCAGATTTTAT-ATA
26429603 TTTTT
1 TTTTT
26429608 ATGTTTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (19 bp):
TTTTTTCAGATTTTATATA
Found at i:26429587 original size:20 final size:20
Alignment explanation
Indices: 26429545--26429607 Score: 56
Period size: 21 Copynumber: 3.1 Consensus size: 20
26429535 GTTAATTTTA
* * *
26429545 TTTTTATATTTTTTATGTGTT
1 TTTTTAGATTTTATATAT-TT
26429566 TTTTTAGATTTTATATA-TT
1 TTTTTAGATTTTATATATTT
* *
26429585 TTTTCAGAATTTATAATATTT
1 TTTTTAGATTTTAT-ATATTT
26429606 TT
1 TT
26429608 ATGTTTATAT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
19 14 0.40
20 3 0.09
21 18 0.51
ACGTcount: A:0.24, C:0.02, G:0.06, T:0.68
Consensus pattern (20 bp):
TTTTTAGATTTTATATATTT
Found at i:26430627 original size:14 final size:13
Alignment explanation
Indices: 26430582--26430633 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 13
26430572 TCAAAATGAA
26430582 TAATTAATTTAATT
1 TAATT-ATTTAATT
*
26430596 TAATT-TTGAATT
1 TAATTATTTAATT
26430608 TCAATTATTTAATT
1 T-AATTATTTAATT
*
26430622 GTAATTAATTAA
1 -TAATTATTTAA
26430634 ATAAAAATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
12 7 0.22
13 4 0.12
14 20 0.62
15 1 0.03
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (13 bp):
TAATTATTTAATT
Found at i:26432061 original size:20 final size:20
Alignment explanation
Indices: 26432036--26432089 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
26432026 ATTACTCTAC
* *
26432036 TATTATAGTATATGATATAG
1 TATTATAGTATATGAAATAA
26432056 TATTATA-TATAATGAAATAA
1 TATTATAGTAT-ATGAAATAA
*
26432076 TATGTTTAGTATAT
1 TAT-TATAGTATAT
26432090 TAAAATGCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 3 0.11
20 17 0.61
21 5 0.18
22 3 0.11
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (20 bp):
TATTATAGTATATGAAATAA
Found at i:26432493 original size:5 final size:5
Alignment explanation
Indices: 26432410--26432478 Score: 138
Period size: 5 Copynumber: 13.8 Consensus size: 5
26432400 TTCAATTGCC
26432410 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
26432460 AATAT AATAT AATAT AATA
1 AATAT AATAT AATAT AATA
26432479 ATGAACAATA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 64 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
AATAT
Found at i:26438093 original size:18 final size:18
Alignment explanation
Indices: 26438070--26438107 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
26438060 ATACTTAATC
*
26438070 ATGCAAATTAACATGAAT
1 ATGCAAATAAACATGAAT
*
26438088 ATGCAAATAAACATGTAT
1 ATGCAAATAAACATGAAT
26438106 AT
1 AT
26438108 TGATCTCGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.11, G:0.11, T:0.29
Consensus pattern (18 bp):
ATGCAAATAAACATGAAT
Found at i:26439994 original size:30 final size:31
Alignment explanation
Indices: 26439958--26440042 Score: 95
Period size: 30 Copynumber: 2.8 Consensus size: 31
26439948 GAGTGAATAA
* *
26439958 GTTGCTCACACAAGCTAACATTATAT-CAGG
1 GTTGCTCACACAAGCTGACATTATATAAAGG
* * *
26439988 GTTGCTCACATAAGTTGACATTATGTAAAGG
1 GTTGCTCACACAAGCTGACATTATATAAAGG
*
26440019 TTTG-TCACACAAGCTGAC-TTATAT
1 GTTGCTCACACAAGCTGACATTATAT
26440043 TAGGTTACCC
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
29 5 0.11
30 34 0.76
31 6 0.13
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.32
Consensus pattern (31 bp):
GTTGCTCACACAAGCTGACATTATATAAAGG
Found at i:26446213 original size:28 final size:28
Alignment explanation
Indices: 26446125--26446213 Score: 76
Period size: 28 Copynumber: 3.2 Consensus size: 28
26446115 GAGTCTTTCA
* *
26446125 AAGG-TTGTCTTATGT-GAAGGTCTACT
1 AAGGATTGTCTTATGTGGAAAGTCAACT
** * * *
26446151 AAGGGCTATCTTATGCGGAAAGTCCA-T
1 AAGGATTGTCTTATGTGGAAAGTCAACT
*
26446178 CAATGATTGTCTTATGTGGAAAGTCAACT
1 -AAGGATTGTCTTATGTGGAAAGTCAACT
26446207 AAGGATT
1 AAGGATT
26446214 ATCATATGCG
Statistics
Matches: 47, Mismatches: 12, Indels: 6
0.72 0.18 0.09
Matches are distributed among these distances:
26 4 0.09
27 9 0.19
28 33 0.70
29 1 0.02
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.33
Consensus pattern (28 bp):
AAGGATTGTCTTATGTGGAAAGTCAACT
Found at i:26450232 original size:27 final size:26
Alignment explanation
Indices: 26450201--26450269 Score: 84
Period size: 27 Copynumber: 2.6 Consensus size: 26
26450191 CCCACAATTT
* * *
26450201 GTAAAATAACTGTAATGCCCTTGTAGG
1 GTAAAATGACTGTAATGCCCCTATA-G
* *
26450228 GTAAAATGACCGTGATGCCCCTATAG
1 GTAAAATGACTGTAATGCCCCTATAG
26450254 GTAAAATGACTGTAAT
1 GTAAAATGACTGTAAT
26450270 ACCTTTGTTA
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
26 15 0.43
27 20 0.57
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.28
Consensus pattern (26 bp):
GTAAAATGACTGTAATGCCCCTATAG
Found at i:26450394 original size:24 final size:24
Alignment explanation
Indices: 26450338--26450396 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
26450328 TCGATTTTAA
*
26450338 ATGACTGATTTGTCTGTGATTGGT
1 ATGACTGATTTGACTGTGATTGGT
* *
26450362 ATAAATGATTTGACTGTGAATT-GT
1 ATGACTGATTTGACTGTG-ATTGGT
26450386 ATGACTGATTT
1 ATGACTGATTT
26450397 TGAGCATGGC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
24 26 0.90
25 3 0.10
ACGTcount: A:0.25, C:0.07, G:0.24, T:0.44
Consensus pattern (24 bp):
ATGACTGATTTGACTGTGATTGGT
Found at i:26450604 original size:26 final size:26
Alignment explanation
Indices: 26450512--26450593 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
26450502 TGGCCACACA
* *
26450512 TACTATTACTGGCAGCTTTGTTGTGG
1 TACTATTACTTGCAGCTTTGCTGTGG
26450538 TACTATTACTTGCAGCTTTGCTGTGG
1 TACTATTACTTGCAGCTTTGCTGTGG
26450564 TACTATTACTTGCAGCTTTGCTGTGG
1 TACTATTACTTGCAGCTTTGCTGTGG
26450590 TACT
1 TACT
26450594 GTTGCTAGCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.16, C:0.18, G:0.23, T:0.43
Consensus pattern (26 bp):
TACTATTACTTGCAGCTTTGCTGTGG
Found at i:26450668 original size:32 final size:32
Alignment explanation
Indices: 26450618--26450711 Score: 100
Period size: 32 Copynumber: 2.9 Consensus size: 32
26450608 TACTGCGATG
* *
26450618 CTACTAATGGCT-TGGTGCCAATCATATTACCG
1 CTACTGATGGCTGT-GTGCCAATCATATTACCA
* * * **
26450650 TTACTGTTGGCTGTGTGCCGATCATATTAATA
1 CTACTGATGGCTGTGTGCCAATCATATTACCA
*
26450682 CTACTGATGGCTTTGTGCCAATCATATTAC
1 CTACTGATGGCTGTGTGCCAATCATATTAC
26450712 TATACTTGTG
Statistics
Matches: 49, Mismatches: 12, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
32 48 0.98
33 1 0.02
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.36
Consensus pattern (32 bp):
CTACTGATGGCTGTGTGCCAATCATATTACCA
Found at i:26450761 original size:22 final size:22
Alignment explanation
Indices: 26450727--26450781 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
26450717 TTGTGGCTAG
* * *
26450727 TAGCTCTTTTGTTTATAGCT-T
1 TAGCTATTCTGTTTACAGCTCT
26450748 ATAGCTATTCTGTTTACAGCTCT
1 -TAGCTATTCTGTTTACAGCTCT
*
26450771 TAGCCATTCTG
1 TAGCTATTCTG
26450782 ATCACTGGCA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 27 0.96
23 1 0.04
ACGTcount: A:0.18, C:0.20, G:0.15, T:0.47
Consensus pattern (22 bp):
TAGCTATTCTGTTTACAGCTCT
Found at i:26458262 original size:23 final size:23
Alignment explanation
Indices: 26458236--26458284 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
26458226 TAGCGGCTTA
26458236 ATTATATACATAAAATTTTAATT
1 ATTATATACATAAAATTTTAATT
26458259 ATTATATACATAAAATTTTAATT
1 ATTATATACATAAAATTTTAATT
26458282 ATT
1 ATT
26458285 GTTGATATGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (23 bp):
ATTATATACATAAAATTTTAATT
Found at i:26462522 original size:104 final size:104
Alignment explanation
Indices: 26462400--26462623 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
26462390 AATGGATATC
26462400 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
26462465 GGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATCA-CGCACATAGCACCACCAATAAACCGGGGAATCA
26462504 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
26462569 GGATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
**
26462608 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
26462624 TTTATATACA
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:26462985 original size:29 final size:29
Alignment explanation
Indices: 26462952--26463015 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
26462942 TAATCCACCA
26462952 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
26462981 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
26463011 CCCAA
1 CCCAA
26463016 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:26462989 original size:30 final size:30
Alignment explanation
Indices: 26462959--26463015 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
26462949 CCACCCAACT
26462959 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
26462988 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
26463016 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:26470077 original size:104 final size:103
Alignment explanation
Indices: 26469955--26470177 Score: 376
Period size: 104 Copynumber: 2.2 Consensus size: 103
26469945 AATGGATATC
26469955 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
26470020 GGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATCA-CGCACATAGCACCACC-ATAAACCGGGGAATCA
26470059 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
*
26470124 GGATCACGCACATAGCACCACCATAAATCGGGGAATCA
66 GGATCACGCACATAGCACCACCATAAACCGGGGAATCA
**
26470162 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
26470178 TTTATATACA
Statistics
Matches: 113, Mismatches: 5, Indels: 3
0.93 0.04 0.02
Matches are distributed among these distances:
103 28 0.25
104 84 0.74
105 1 0.01
ACGTcount: A:0.31, C:0.31, G:0.19, T:0.18
Consensus pattern (103 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATCACGCACATAGCACCACCATAAACCGGGGAATCA
Found at i:26470539 original size:29 final size:29
Alignment explanation
Indices: 26470506--26470569 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
26470496 TAATCCACCA
26470506 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
26470535 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
26470565 CCCAA
1 CCCAA
26470570 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:26470543 original size:30 final size:30
Alignment explanation
Indices: 26470513--26470569 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
26470503 CCACCCAACT
26470513 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
26470542 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
26470570 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:26473670 original size:18 final size:19
Alignment explanation
Indices: 26473642--26473677 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
26473632 TTTTAGCTTC
26473642 TCCCTAAAAGTTTTTTTTT
1 TCCCTAAAAGTTTTTTTTT
26473661 TCCC-AAAAGTTTTTTTT
1 TCCCTAAAAGTTTTTTTT
26473678 AGAAGCAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.22, C:0.17, G:0.06, T:0.56
Consensus pattern (19 bp):
TCCCTAAAAGTTTTTTTTT
Found at i:26479650 original size:81 final size:81
Alignment explanation
Indices: 26479556--26479887 Score: 434
Period size: 81 Copynumber: 4.1 Consensus size: 81
26479546 CTTCATAAGA
* * * * *
26479556 TAAAATGACCGAAATACCCCCATAGGATAAAATGACCGAAATACCCCTATAGGATAGAATGACCG
1 TAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCA
*
26479621 AAATAACCC-CATATGG
66 AAAT-ACCCTCATAGGG
* * * ** *
26479637 TAGAATGATCGAAATACCCCCATAGGGTAGAATGATAGAAATACCCCCATAGGGTAAAATGACCG
1 TAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCA
*
26479702 AAATACCCCCATAGGG
66 AAATACCCTCATAGGG
** * * **
26479718 TAAAATGATAGAAATA-CCCCGTAGGGTAAAATGACCAAAATACCCCTGTAGGGTAAAATGACCA
1 TAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCA
*
26479782 AAATACCCTCACAGGG
66 AAATACCCTCATAGGG
* * *
26479798 TAAAATGACCGAAATACCTCCATAAGGTAAAATGACCGAAATACCCCCATAAGGTAAAATGACCA
1 TAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCA
26479863 AAATACCCTCATAGGG
66 AAATACCCTCATAGGG
26479879 TAAAATGAC
1 TAAAATGAC
26479888 TATTATACCC
Statistics
Matches: 217, Mismatches: 32, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
80 72 0.33
81 145 0.67
ACGTcount: A:0.43, C:0.22, G:0.17, T:0.17
Consensus pattern (81 bp):
TAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCA
AAATACCCTCATAGGG
Found at i:26479897 original size:27 final size:27
Alignment explanation
Indices: 26479556--26479887 Score: 382
Period size: 27 Copynumber: 12.3 Consensus size: 27
26479546 CTTCATAAGA
* *
26479556 TAAAATGACCGAAATACCCCCATAGGA
1 TAAAATGACCAAAATACCCCCATAGGG
* * *
26479583 TAAAATGACCGAAATACCCCTATAGGA
1 TAAAATGACCAAAATACCCCCATAGGG
* * * *
26479610 TAGAATGACCGAAATAACCCCATATGG
1 TAAAATGACCAAAATACCCCCATAGGG
* * *
26479637 TAGAATGATCGAAATACCCCCATAGGG
1 TAAAATGACCAAAATACCCCCATAGGG
* *
26479664 TAGAATGA-TAGAAATACCCCCATAGGG
1 TAAAATGACCA-AAATACCCCCATAGGG
*
26479691 TAAAATGACCGAAATACCCCCATAGGG
1 TAAAATGACCAAAATACCCCCATAGGG
* *
26479718 TAAAATGA-TAGAAATA-CCCCGTAGGG
1 TAAAATGACCA-AAATACCCCCATAGGG
**
26479744 TAAAATGACCAAAATACCCCTGTAGGG
1 TAAAATGACCAAAATACCCCCATAGGG
* *
26479771 TAAAATGACCAAAATACCCTCACAGGG
1 TAAAATGACCAAAATACCCCCATAGGG
* * *
26479798 TAAAATGACCGAAATACCTCCATAAGG
1 TAAAATGACCAAAATACCCCCATAGGG
* *
26479825 TAAAATGACCGAAATACCCCCATAAGG
1 TAAAATGACCAAAATACCCCCATAGGG
*
26479852 TAAAATGACCAAAATACCCTCATAGGG
1 TAAAATGACCAAAATACCCCCATAGGG
26479879 TAAAATGAC
1 TAAAATGAC
26479888 TATTATACCC
Statistics
Matches: 268, Mismatches: 32, Indels: 10
0.86 0.10 0.03
Matches are distributed among these distances:
26 22 0.08
27 246 0.92
ACGTcount: A:0.43, C:0.22, G:0.17, T:0.17
Consensus pattern (27 bp):
TAAAATGACCAAAATACCCCCATAGGG
Found at i:26483054 original size:4 final size:4
Alignment explanation
Indices: 26483016--26483096 Score: 51
Period size: 4 Copynumber: 20.2 Consensus size: 4
26483006 TCCTAATTGG
* * * * *
26483016 TTTA TTGA TTTA TTTTG TTTG TTTA -TT- TTTC TTTA TTTA TTTCT TTTA
1 TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT-A TTTA
* *
26483064 GTTA TTTA TTTA TTT- TTTA TCTA TTTAA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT-A TTTA T
26483097 ATGGTTTATA
Statistics
Matches: 60, Mismatches: 11, Indels: 12
0.72 0.13 0.14
Matches are distributed among these distances:
3 7 0.12
4 43 0.72
5 10 0.17
ACGTcount: A:0.19, C:0.04, G:0.05, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:26489820 original size:20 final size:20
Alignment explanation
Indices: 26489795--26489838 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
26489785 AAAAGGTAAT
*
26489795 GATACTAAGC-CTACAGTACC
1 GATACTAACCTCTA-AGTACC
*
26489815 GATACTTACCTCTAAGTACC
1 GATACTAACCTCTAAGTACC
26489835 GATA
1 GATA
26489839 TCGATACCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (20 bp):
GATACTAACCTCTAAGTACC
Found at i:26492215 original size:49 final size:49
Alignment explanation
Indices: 26492140--26492234 Score: 138
Period size: 49 Copynumber: 1.9 Consensus size: 49
26492130 CTAAAGGTTA
* * *
26492140 TGATCTTTAGGGGAACTTTTATCACAAACGCCGCTAAAGAACATGATCT
1 TGATCTTTAGCGGAACTTTTACCACAAACGCCACTAAAGAACATGATCT
*
26492189 TGATCTTTAGCGGCAC-TTTACCCACAAACGCCACTAAAGAACATGA
1 TGATCTTTAGCGGAACTTTTA-CCACAAACGCCACTAAAGAACATGA
26492235 CTTTTAGCAG
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
48 4 0.10
49 37 0.90
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (49 bp):
TGATCTTTAGCGGAACTTTTACCACAAACGCCACTAAAGAACATGATCT
Found at i:26492258 original size:43 final size:46
Alignment explanation
Indices: 26492154--26492258 Score: 119
Period size: 49 Copynumber: 2.3 Consensus size: 46
26492144 CTTTAGGGGA
* *
26492154 ACTTTTATCACAAACGCCGCTAAAGAACATGATCTTGATCTTTAGCGGC
1 ACTTTTATCACAAACGCCACTAAAGAACATGATC-T--TCTTTAGCAGC
*
26492203 AC-TTTACCCACAAACGCCACTAAAGAACATGA-C-T-TTTAGCAGC
1 ACTTTTA-TCACAAACGCCACTAAAGAACATGATCTTCTTTAGCAGC
26492246 ACTTTTATCACAA
1 ACTTTTATCACAA
26492259 CCATTGCTAA
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
43 15 0.30
44 5 0.10
48 5 0.10
49 25 0.50
ACGTcount: A:0.34, C:0.27, G:0.12, T:0.27
Consensus pattern (46 bp):
ACTTTTATCACAAACGCCACTAAAGAACATGATCTTCTTTAGCAGC
Found at i:26495973 original size:46 final size:46
Alignment explanation
Indices: 26495906--26496002 Score: 176
Period size: 46 Copynumber: 2.1 Consensus size: 46
26495896 TTGACAACTC
*
26495906 TACTTCTGACTTCACCAATGCTAAACCCTAATCTGGAAACACCCAA
1 TACTTCTGACTTCACCAATGCTAAACCCTAATCTAGAAACACCCAA
*
26495952 TACTTCTGACTTCGCCAATGCTAAACCCTAATCTAGAAACACCCAA
1 TACTTCTGACTTCACCAATGCTAAACCCTAATCTAGAAACACCCAA
26495998 TACTT
1 TACTT
26496003 TAATGCTAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.34, C:0.32, G:0.08, T:0.26
Consensus pattern (46 bp):
TACTTCTGACTTCACCAATGCTAAACCCTAATCTAGAAACACCCAA
Found at i:26497219 original size:15 final size:15
Alignment explanation
Indices: 26497197--26497231 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
26497187 CCCTAACCCT
26497197 TAAA-CCATAATCCC
1 TAAACCCATAATCCC
26497211 TAAACCCATAATCCC
1 TAAACCCATAATCCC
26497226 TAAACC
1 TAAACC
26497232 TTAAGATAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.43, C:0.37, G:0.00, T:0.20
Consensus pattern (15 bp):
TAAACCCATAATCCC
Found at i:26497431 original size:21 final size:22
Alignment explanation
Indices: 26497407--26497447 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
26497397 CCCTAACCCC
26497407 TAAA-CTTTAAACCC-TAAATCA
1 TAAACCTTT-AACCCTTAAATCA
26497428 TAAACCTTTAACCCTTAAAT
1 TAAACCTTTAACCCTTAAAT
26497448 AACCCTAACC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (22 bp):
TAAACCTTTAACCCTTAAATCA
Found at i:26497515 original size:15 final size:15
Alignment explanation
Indices: 26497485--26497522 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
26497475 GACCCTTAAA
26497485 CCATAAA-CCATAAT
1 CCATAAACCCATAAT
* *
26497499 CCCTAAACCCATGAT
1 CCATAAACCCATAAT
26497514 CCATAAACC
1 CCATAAACC
26497523 TTAAGATAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.42, C:0.37, G:0.03, T:0.18
Consensus pattern (15 bp):
CCATAAACCCATAAT
Found at i:26498027 original size:40 final size:41
Alignment explanation
Indices: 26497867--26498057 Score: 240
Period size: 41 Copynumber: 4.7 Consensus size: 41
26497857 TGTTTTTTGT
* * * *
26497867 GGCGCTTTTTCAAAAATGCCGCTAAATCCCCGAGCATTAGC
1 GGCGCTTTTTCAAAAACGCCGCTAAAGCACCAAGCATTAGC
* * * *
26497908 GGCGCTTTTTCAAAAACACCGTTAAAGCACCGAGCATTAGT
1 GGCGCTTTTTCAAAAACGCCGCTAAAGCACCAAGCATTAGC
* * *
26497949 GGCGCTTTTTTAGAAACGCCGCTAAAGCACCAATCATTAGC
1 GGCGCTTTTTCAAAAACGCCGCTAAAGCACCAAGCATTAGC
* * *
26497990 GGCACTTTTTCAAAAACGTCGCT-AAGCCCCAAGCATTAGC
1 GGCGCTTTTTCAAAAACGCCGCTAAAGCACCAAGCATTAGC
*
26498030 GGTGCTTTTTCAAAAACGCCGCTAAAGC
1 GGCGCTTTTTCAAAAACGCCGCTAAAGC
26498058 CTAGAAAGGT
Statistics
Matches: 127, Mismatches: 22, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
40 35 0.28
41 92 0.72
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.24
Consensus pattern (41 bp):
GGCGCTTTTTCAAAAACGCCGCTAAAGCACCAAGCATTAGC
Found at i:26498150 original size:39 final size:38
Alignment explanation
Indices: 26498084--26498216 Score: 128
Period size: 40 Copynumber: 3.4 Consensus size: 38
26498074 GGCTTAGGTC
*
26498084 TTTT-GCGGCGTTTCTTAGAAAAACGCCGCTAATGCTC-A
1 TTTTAGCGGCGTTTC-T-GAAAAGCGCCGCTAATGCTCAA
*
26498122 TTTTCAGCGGCGTGTTCTGAAAAGCGCCGCAAATGCTCAA
1 TTTT-AGCGGCGT-TTCTGAAAAGCGCCGCTAATGCTCAA
* * *
26498162 TCTTTAGCGGCGTTT-TCCATAAAGCGCTGCTAATGCTCTAT
1 T-TTTAGCGGCGTTTCT-GA-AAAGCGCCGCTAATGCTC-AA
26498203 TTTTAGCGGCGTTT
1 TTTTAGCGGCGTTT
26498217 TTTGTCCAAA
Statistics
Matches: 81, Mismatches: 6, Indels: 14
0.80 0.06 0.14
Matches are distributed among these distances:
38 5 0.06
39 21 0.26
40 47 0.58
41 8 0.10
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.33
Consensus pattern (38 bp):
TTTTAGCGGCGTTTCTGAAAAGCGCCGCTAATGCTCAA
Found at i:26498217 original size:40 final size:39
Alignment explanation
Indices: 26498102--26498217 Score: 135
Period size: 40 Copynumber: 2.9 Consensus size: 39
26498092 CGTTTCTTAG
* * * *
26498102 AAAAACGCCGCTAATGCTCATTTTCAGCGGCGTGTTCTG
1 AAAAGCGCCGCTAATGCTCATTTTTAGCGGCGTTTTCTC
* *
26498141 AAAAGCGCCGCAAATGCTCAATCTTTAGCGGCGTTTTC-C
1 AAAAGCGCCGCTAATGCTC-ATTTTTAGCGGCGTTTTCTC
*
26498180 ATAAAGCGCTGCTAATGCTCTATTTTTAGCGGCGTTTT
1 A-AAAGCGCCGCTAATGCTC-ATTTTTAGCGGCGTTTT
26498218 TTGTCCAAAC
Statistics
Matches: 65, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
39 18 0.28
40 47 0.72
ACGTcount: A:0.23, C:0.24, G:0.22, T:0.31
Consensus pattern (39 bp):
AAAAGCGCCGCTAATGCTCATTTTTAGCGGCGTTTTCTC
Found at i:26501079 original size:28 final size:29
Alignment explanation
Indices: 26501017--26501080 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 29
26501007 AATTATGCAC
* * *
26501017 ATAAAAATTAAAATTTTAAAATTACTACA
1 ATAAAAATTAAAATGTTAAAATTAATAAA
**
26501046 AT-AAAATTAAAATGTT-ATTTTAATAAA
1 ATAAAAATTAAAATGTTAAAATTAATAAA
26501073 ATAAAAAT
1 ATAAAAAT
26501081 ACAAAGACGT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
27 9 0.31
28 18 0.62
29 2 0.07
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (29 bp):
ATAAAAATTAAAATGTTAAAATTAATAAA
Found at i:26501531 original size:16 final size:16
Alignment explanation
Indices: 26501510--26501540 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
26501500 AAAAATTCAG
26501510 AAAAAATTAATAAAAT
1 AAAAAATTAATAAAAT
*
26501526 AAAAAATTATTAAAA
1 AAAAAATTAATAAAA
26501541 ACATAAAGTT
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:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAAAATTAATAAAAT
Found at i:26509959 original size:32 final size:32
Alignment explanation
Indices: 26509919--26509979 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
26509909 AAGAAAATTA
*
26509919 TTAATTAAAAATTGATAAAGATTAATTAATGG
1 TTAATTAAAAATTAATAAAGATTAATTAATGG
*
26509951 TTAATTAAAAGTTAATAAAGATTAATTAA
1 TTAATTAAAAATTAATAAAGATTAATTAA
26509980 CTTATAATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (32 bp):
TTAATTAAAAATTAATAAAGATTAATTAATGG
Found at i:26512639 original size:47 final size:48
Alignment explanation
Indices: 26512556--26512681 Score: 119
Period size: 47 Copynumber: 2.6 Consensus size: 48
26512546 TAAGAATCTT
* * ** ** * *
26512556 GAAAGCCATCATTTTCGGGCCATCCAAGATGGTAGAATATTTGATTAGA
1 GAAA-CCATCATTATCGGGCAATCTGAGATAATAGAATATTGGAATAGA
*
26512605 G-AACCATCGTTATCGGGCAATCTGAGATAATAGAATATTGGAATAGA
1 GAAACCATCATTATCGGGCAATCTGAGATAATAGAATATTGGAATAGA
* * *
26512652 GTAAACCATCATTGTTGGGCTATCTGAGAT
1 G-AAACCATCATTATCGGGCAATCTGAGAT
26512682 GGTAATATAT
Statistics
Matches: 62, Mismatches: 13, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
47 36 0.58
48 2 0.03
49 24 0.39
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (48 bp):
GAAACCATCATTATCGGGCAATCTGAGATAATAGAATATTGGAATAGA
Found at i:26520702 original size:9 final size:9
Alignment explanation
Indices: 26520686--26520719 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
26520676 TTTAATTAGA
26520686 AATTAATTT
1 AATTAATTT
*
26520695 AGTTAATTT
1 AATTAATTT
*
26520704 AATTAATTA
1 AATTAATTT
26520713 AATTAAT
1 AATTAAT
26520720 AGAATAAAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (9 bp):
AATTAATTT
Found at i:26525245 original size:40 final size:39
Alignment explanation
Indices: 26525201--26525284 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 39
26525191 AGCCTGGCCG
26525201 AATATAATAAATAAATA-TTTTTTTATTTTTTTAATTTTAA
1 AATAT-ATAAA-AAATACTTTTTTTATTTTTTTAATTTTAA
* ** *
26525241 AATATTTTTAAAATACTTTTTTTTATTTTTTTATTTTTAA
1 AATATATAAAAAATAC-TTTTTTTATTTTTTTAATTTTAA
26525281 AATA
1 AATA
26525285 AATTTTTGGT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
38 5 0.13
39 2 0.05
40 31 0.82
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (39 bp):
AATATATAAAAAATACTTTTTTTATTTTTTTAATTTTAA
Found at i:26526791 original size:24 final size:24
Alignment explanation
Indices: 26526728--26526779 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
26526718 TTCCTAGAAG
* *
26526728 ATTTAGCATTTATGAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
26526752 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
26526776 ATTT
1 ATTT
26526780 GACTTTGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.37, C:0.06, G:0.10, T:0.48
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:26527534 original size:16 final size:16
Alignment explanation
Indices: 26527513--26527543 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
26527503 AGTAAAAATA
26527513 ATATAAAATTTATAAC
1 ATATAAAATTTATAAC
*
26527529 ATATAACATTTATAA
1 ATATAAAATTTATAA
26527544 AAAATATTTT
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:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (16 bp):
ATATAAAATTTATAAC
Found at i:26529127 original size:22 final size:22
Alignment explanation
Indices: 26529102--26529184 Score: 69
Period size: 22 Copynumber: 3.8 Consensus size: 22
26529092 TATCATGTAT
*
26529102 CATGTCGGAACATATCATATCA
1 CATGTCAGAACATATCATATCA
* * **
26529124 CATGTCATAGCATATCATATTT
1 CATGTCAGAACATATCATATCA
* *
26529146 CATATCAAAACATAT-ATTATCA
1 CATGTCAGAACATATCA-TATCA
* *
26529168 CATATCATAACATATCA
1 CATGTCAGAACATATCA
26529185 AATCCTACCC
Statistics
Matches: 48, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
21 1 0.02
22 46 0.96
23 1 0.02
ACGTcount: A:0.41, C:0.20, G:0.06, T:0.33
Consensus pattern (22 bp):
CATGTCAGAACATATCATATCA
Found at i:26529132 original size:44 final size:44
Alignment explanation
Indices: 26529079--26529184 Score: 124
Period size: 44 Copynumber: 2.4 Consensus size: 44
26529069 ATATTGAGTA
* * * **
26529079 ACATTTCATAGCATATCATGTATCATGTCGGAACATATCA-TATC
1 ACATATCATAGCATATCATATATCATATCAAAACATAT-ATTATC
* *
26529123 ACATGTCATAGCATATCATATTTCATATCAAAACATATATTATC
1 ACATATCATAGCATATCATATATCATATCAAAACATATATTATC
*
26529167 ACATATCATAACATATCA
1 ACATATCATAGCATATCA
26529185 AATCCTACCC
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
43 1 0.02
44 52 0.98
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.34
Consensus pattern (44 bp):
ACATATCATAGCATATCATATATCATATCAAAACATATATTATC
Found at i:26529716 original size:12 final size:12
Alignment explanation
Indices: 26529699--26529731 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
26529689 TCGTGTAGTG
*
26529699 CACACGATCTAC
1 CACACGACCTAC
26529711 CACACGACCTAC
1 CACACGACCTAC
26529723 CACACGACC
1 CACACGACC
26529732 GTGTGGCGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.33, C:0.48, G:0.09, T:0.09
Consensus pattern (12 bp):
CACACGACCTAC
Found at i:26538453 original size:28 final size:28
Alignment explanation
Indices: 26538419--26538473 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
26538409 CATTTTGAAC
26538419 AGGATTGTAAGTGACTATTCATACTTTT
1 AGGATTGTAAGTGACTATTCATACTTTT
*
26538447 AGGATTGTCAGTGACTATTCATACTTT
1 AGGATTGTAAGTGACTATTCATACTTT
26538474 CTCACTAGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.27, C:0.13, G:0.18, T:0.42
Consensus pattern (28 bp):
AGGATTGTAAGTGACTATTCATACTTTT
Found at i:26540166 original size:53 final size:53
Alignment explanation
Indices: 26540105--26540260 Score: 240
Period size: 53 Copynumber: 2.9 Consensus size: 53
26540095 GACGCTAAGG
* *
26540105 GACCATATCGTGTAAGACTGTAATTGGTGGGTTATGGCATCATATGGAAAGAA
1 GACCATATCGTGTAAGACCGTAACTGGTGGGTTATGGCATCATATGGAAAGAA
** *
26540158 GACCATATCGTGTAAGACCGTAACTGGTGGGTTATGATATCATATGGAAATAA
1 GACCATATCGTGTAAGACCGTAACTGGTGGGTTATGGCATCATATGGAAAGAA
* * *
26540211 AACCATATCGTGTAAGACCATAACTGGTGGCTTATGGCATCATATGGAAA
1 GACCATATCGTGTAAGACCGTAACTGGTGGGTTATGGCATCATATGGAAA
26540261 AATTCAAGGA
Statistics
Matches: 93, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
53 93 1.00
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (53 bp):
GACCATATCGTGTAAGACCGTAACTGGTGGGTTATGGCATCATATGGAAAGAA
Found at i:26547907 original size:40 final size:39
Alignment explanation
Indices: 26547837--26547968 Score: 119
Period size: 40 Copynumber: 3.3 Consensus size: 39
26547827 AGCGGCACTT
*
26547837 TTAGCGGCGTTTTCAACAAAATGC-CA-CTAAAAATCGAGCA
1 TTAGCGGCGTTTT--ACCAAA-GCGCAGCTAAAAATCGAGCA
*
26547877 TTAGCGGCGTTTTGACCAAAGCGCAGCTAAAGATCGAGCA
1 TTAGCGGCGTTTT-ACCAAAGCGCAGCTAAAAATCGAGCA
* * * *
26547917 TCAGCGGCGGATTT-CCAAAAGCGCCGCTAAAAATAG-GCA
1 TTAGCGGC-GTTTTACC-AAAGCGCAGCTAAAAATCGAGCA
*
26547956 TTAGCGGCTTTTT
1 TTAGCGGCGTTTT
26547969 TTATAAAACG
Statistics
Matches: 77, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
38 5 0.06
39 19 0.25
40 49 0.64
41 4 0.05
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (39 bp):
TTAGCGGCGTTTTACCAAAGCGCAGCTAAAAATCGAGCA
Found at i:26548140 original size:41 final size:41
Alignment explanation
Indices: 26548095--26548182 Score: 122
Period size: 41 Copynumber: 2.1 Consensus size: 41
26548085 AAAAAACGCT
* * **
26548095 GCTAATGCTCTGGCCTTTAGTGGCATTTTTGGTTAAGCGCC
1 GCTAATGCTCTGACCTTTAGCGGCATTTTTGACTAAGCGCC
* *
26548136 GCTAATGCTCTTACCTTTAGCGGCGTTTTTGACTAAGCGCC
1 GCTAATGCTCTGACCTTTAGCGGCATTTTTGACTAAGCGCC
26548177 GCTAAT
1 GCTAAT
26548183 AGTAACAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (41 bp):
GCTAATGCTCTGACCTTTAGCGGCATTTTTGACTAAGCGCC
Found at i:26548770 original size:15 final size:16
Alignment explanation
Indices: 26548736--26548773 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
26548726 TTTAAGGTTA
26548736 ATTTAGGGGTTAGAGG
1 ATTTAGGGGTTAGAGG
*
26548752 -TTTAGGGGTTTG-GG
1 ATTTAGGGGTTAGAGG
26548766 ATTTAGGG
1 ATTTAGGG
26548774 TTTCAACGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 2 0.10
15 18 0.90
ACGTcount: A:0.18, C:0.00, G:0.45, T:0.37
Consensus pattern (16 bp):
ATTTAGGGGTTAGAGG
Found at i:26549171 original size:28 final size:28
Alignment explanation
Indices: 26549140--26549194 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
26549130 AATAAACAAA
*
26549140 TAAATAATTACGTAATTAATTATTTAAG
1 TAAATAAATACGTAATTAATTATTTAAG
* *
26549168 TAAATAAATAGGTCATTAATTATTTAA
1 TAAATAAATACGTAATTAATTATTTAA
26549195 ATGTAAGATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.42
Consensus pattern (28 bp):
TAAATAAATACGTAATTAATTATTTAAG
Found at i:26550403 original size:27 final size:27
Alignment explanation
Indices: 26550365--26550416 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
26550355 AATAAACAAA
* *
26550365 TAAATAAGTAGGTAATTATTTATTTGT
1 TAAATAAATAGGTAATTAATTATTTGT
26550392 TAAATAAATAGGTAATTAATTATTT
1 TAAATAAATAGGTAATTAATTATTT
26550417 AAATGTAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (27 bp):
TAAATAAATAGGTAATTAATTATTTGT
Found at i:26551784 original size:27 final size:27
Alignment explanation
Indices: 26551746--26551797 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
26551736 AATAAACAAA
* *
26551746 TAAATAAATAGGTAATTATTTATTTGT
1 TAAAGAAATAGGTAATTAATTATTTGT
26551773 TAAAGAAATAGGTAATTAATTATTT
1 TAAAGAAATAGGTAATTAATTATTT
26551798 AAATGTAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (27 bp):
TAAAGAAATAGGTAATTAATTATTTGT
Found at i:26559662 original size:19 final size:18
Alignment explanation
Indices: 26559628--26559663 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
26559618 GTAAATATTT
*
26559628 TTATCATTTCACTTTTAG
1 TTATCATTTAACTTTTAG
26559646 TTATCATTTTAACTTTTA
1 TTATCA-TTTAACTTTTA
26559664 TCATTTTTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.25, C:0.14, G:0.03, T:0.58
Consensus pattern (18 bp):
TTATCATTTAACTTTTAG
Found at i:26559998 original size:43 final size:43
Alignment explanation
Indices: 26559845--26560154 Score: 283
Period size: 43 Copynumber: 7.2 Consensus size: 43
26559835 TCTGCCAAAA
* * * *
26559845 TTAGCGGCGTTTGTGGAAAAAATCGCCGTTAAAGGTCAGGGTCT
1 TTAGCGGCGTTTGTTG-AGAAAGCGCCGCTAAAGGTCAGGGTCT
* * *** *
26559889 TTAGCGGCGTTTGTGGCA-AAAGCGCAGCTAAAGGTCCTTGTCA
1 TTAGCGGCGTTTGTTG-AGAAAGCGCCGCTAAAGGTCAGGGTCT
*
26559932 TT-GCGGCGTTT-TTGTGAAAAGCGCCGCTAAAGGTC-GTGGTCT
1 TTAGCGGCGTTTGTTGAG-AAAGCGCCGCTAAAGGTCAG-GGTCT
* *
26559974 TTAGCGGCGTTTGTTGAGAGAGCGCCGCTAAAGGTCAGAGTCT
1 TTAGCGGCGTTTGTTGAGAAAGCGCCGCTAAAGGTCAGGGTCT
* * * * *
26560017 TTAGCGGCGATTGTAG-GAAAAGTGCCACTAAAGATCAGGGTCT
1 TTAGCGGCGTTTGTTGAG-AAAGCGCCGCTAAAGGTCAGGGTCT
* * * *
26560060 TTAGCGGCGTTTGTCGAAAAAACGCCGCTAAAGATCAGGGTCT
1 TTAGCGGCGTTTGTTGAGAAAGCGCCGCTAAAGGTCAGGGTCT
* * * *
26560103 TTAGCTGCGTTT-TTGTA-AAAGCACCGGTAAAGGTCATGGTCT
1 TTAGCGGCGTTTGTTG-AGAAAGCGCCGCTAAAGGTCAGGGTCT
26560145 TTAGCGGCGT
1 TTAGCGGCGT
26560155 ATTCCCAAAA
Statistics
Matches: 219, Mismatches: 38, Indels: 20
0.79 0.14 0.07
Matches are distributed among these distances:
41 2 0.01
42 63 0.29
43 132 0.60
44 22 0.10
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.27
Consensus pattern (43 bp):
TTAGCGGCGTTTGTTGAGAAAGCGCCGCTAAAGGTCAGGGTCT
Found at i:26560070 original size:86 final size:85
Alignment explanation
Indices: 26559874--26560178 Score: 287
Period size: 85 Copynumber: 3.6 Consensus size: 85
26559864 AAATCGCCGT
* * *** *
26559874 TAAAGGTCAGGGTCTTTAGCGGCGTTTGTGGCAAAAGCGCAGCTAAAGGTCCTTGTCATT-GCGG
1 TAAAGGTCAGGGTCTTTAGCGGCGTTTGTCG-AAAAGCGCCGCTAAAGGTCAGAGTCTTTAGCGG
* * *
26559938 CGTTTTTGTGAAAAGCGCCGC
65 CGTTGTAGTGAAAAGCGCCAC
* *
26559959 TAAAGGTC-GTGGTCTTTAGCGGCGTTTGTTGAGAGAGCGCCGCTAAAGGTCAGAGTCTTTAGCG
1 TAAAGGTCAG-GGTCTTTAGCGGCGTTTGTCGA-AAAGCGCCGCTAAAGGTCAGAGTCTTTAGCG
*
26560023 GCGATTGTAG-GAAAAGTGCCAC
64 GCG-TTGTAGTGAAAAGCGCCAC
* * * * *
26560045 TAAAGATCAGGGTCTTTAGCGGCGTTTGTCGAAAAAACGCCGCTAAAGATCAGGGTCTTTAGCTG
1 TAAAGGTCAGGGTCTTTAGCGGCGTTTGTCG-AAAAGCGCCGCTAAAGGTCAGAGTCTTTAGCGG
* * * **
26560110 CGTTTTTGT-AAAAGCACCGG
65 CGTTGTAGTGAAAAGCGCCAC
* * * *
26560130 TAAAGGTCATGGTCTTTAGCGGCGTATT-CCCAAAAACGCCGCTAAAGGT
1 TAAAGGTCAGGGTCTTTAGCGGCGT-TTGTCGAAAAGCGCCGCTAAAGGT
26560179 AGCGACGCTC
Statistics
Matches: 183, Mismatches: 29, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
84 19 0.10
85 84 0.46
86 74 0.40
87 6 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (85 bp):
TAAAGGTCAGGGTCTTTAGCGGCGTTTGTCGAAAAGCGCCGCTAAAGGTCAGAGTCTTTAGCGGC
GTTGTAGTGAAAAGCGCCAC
Found at i:26561084 original size:29 final size:30
Alignment explanation
Indices: 26561025--26561082 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
26561015 TCCGAGCCTT
*
26561025 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
26561055 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
26561083 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:26561312 original size:13 final size:13
Alignment explanation
Indices: 26561294--26561325 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
26561284 TTTCCAGCAA
26561294 TTATGAATTTATT
1 TTATGAATTTATT
26561307 TTATGAATTTATT
1 TTATGAATTTATT
*
26561320 TGATGA
1 TTATGA
26561326 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:26561532 original size:50 final size:50
Alignment explanation
Indices: 26561419--26561660 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
26561409 ATTTGGGTAA
* * *
26561419 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
26561475 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
26561525 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
26561575 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
26561625 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
26561661 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:26561608 original size:100 final size:103
Alignment explanation
Indices: 26561419--26561668 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
26561409 ATTTGGGTAA
26561419 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
26561484 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
26561525 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
26561587 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
26561625 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
26561669 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:26572213 original size:18 final size:17
Alignment explanation
Indices: 26572186--26572220 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
26572176 AGAAAATTGG
26572186 TTATTGAGTTGGATAAA
1 TTATTGAGTTGGATAAA
*
26572203 TTATATGAGTTGGTTAAA
1 TTAT-TGAGTTGGATAAA
26572221 AATTCAGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.34, C:0.00, G:0.23, T:0.43
Consensus pattern (17 bp):
TTATTGAGTTGGATAAA
Found at i:26572821 original size:10 final size:10
Alignment explanation
Indices: 26572791--26572831 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
26572781 ATCACAAGTC
26572791 TTGTGATATA
1 TTGTGATATA
*
26572801 GTGTGATATA
1 TTGTGATATA
26572811 TTGTGATATA
1 TTGTGATATA
*
26572821 TATATGATATA
1 T-TGTGATATA
26572832 CGTAGAAATC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
10 19 0.70
11 8 0.30
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.46
Consensus pattern (10 bp):
TTGTGATATA
Found at i:26583275 original size:96 final size:96
Alignment explanation
Indices: 26583079--26583308 Score: 283
Period size: 97 Copynumber: 2.4 Consensus size: 96
26583069 TGTTTATTTT
*
26583079 TTTTTAAGAAAAAATCAAATAAATTAGGGTTTA-GGGTTACTTGAGTAATTTAATTAAAAAAGTT
1 TTTTTAAGAAAAAATCAAATAAATTAGGGTTTAGGGGTTACTTGAGTAAATTAATTAAAAAAGTT
26583143 TAAAAATCAGATTAGGATTTAGAGTTAAGGG
66 TAAAAATCAGATTAGGATTTAGAGTTAAGGG
* * * *
26583174 TTTTTAA-AGAAAAATTAAATAAATTAGAGTTTAGGGGTTACTTGAGTAAATTAATT-ATAAATT
1 TTTTTAAGA-AAAAATCAAATAAATTAGGGTTTAGGGGTTACTTGAGTAAATTAATTAAAAAAGT
* * * *
26583237 TATAATAAATTAGTTTAAGG-TTTAGTGTTTAGGG
65 T-TAA-AAATCAGATT-AGGATTTAGAGTTAAGGG
*
26583271 -TTTTAAGTAAAAACTCAAATAAATTAGGGTTT-GGGGTT
1 TTTTTAAG-AAAAAATCAAATAAATTAGGGTTTAGGGGTT
26583309 TATGGTTACT
Statistics
Matches: 116, Mismatches: 12, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
94 1 0.01
95 35 0.30
96 36 0.31
97 40 0.34
98 4 0.03
ACGTcount: A:0.41, C:0.03, G:0.19, T:0.38
Consensus pattern (96 bp):
TTTTTAAGAAAAAATCAAATAAATTAGGGTTTAGGGGTTACTTGAGTAAATTAATTAAAAAAGTT
TAAAAATCAGATTAGGATTTAGAGTTAAGGG
Found at i:26583575 original size:125 final size:126
Alignment explanation
Indices: 26583347--26583767 Score: 646
Period size: 126 Copynumber: 3.3 Consensus size: 126
26583337 ATTTAAAGAC
* *
26583347 GCTCCCACGTGGACGCGCTTTTGCTACAGTGGCTCCTGAAAAAATAATTTCGAGTAGACGTTTCT
1 GCTCCCACGTAGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGTTTCT
* *
26583412 GAGCAAACAGTGTCAAAAACGCTTTAAGTAGGATGCTTTGTCAGCAGAAGTACTGAAAAAA
66 GAGCAAACAGTGTCAAAAACGCTTTAAGCAAGATGCTTTGTCAGCAGAAGTACTGAAAAAA
* * * *
26583473 GCTCTCACGTAGATGCGCTTTTGCTATAGTAGCTCCT-AAAAAATAATTTCGAGTAGACGTTTTT
1 GCTCCCACGTAGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGTTTCT
* *
26583537 GAGTAAACAGTGTCAAAAACGCTTTAAGCAATATGCTTTGTCAGCAGAAGTACTGAAAAAA
66 GAGCAAACAGTGTCAAAAACGCTTTAAGCAAGATGCTTTGTCAGCAGAAGTACTGAAAAAA
* * * *
26583598 GCTTCCACATGGACGCGCTTTTGCTACAGTAGCTCTTGAAAAAATAATTTCGAGTAGACGTTTCT
1 GCTCCCACGTAGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGTTTCT
* * * *
26583663 GAGCAAACAATGTCAAAAACGCTTTAAGCAAGATGCTTTGTTAGAAGAAGTACTGAAAGAA
66 GAGCAAACAGTGTCAAAAACGCTTTAAGCAAGATGCTTTGTCAGCAGAAGTACTGAAAAAA
* * *
26583724 GCTCCCACGTAGACACGCTTTTGCTACAGTAACTACTGAAAAAA
1 GCTCCCACGTAGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAA
26583768 GCTCTCACGT
Statistics
Matches: 263, Mismatches: 31, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
125 113 0.43
126 150 0.57
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (126 bp):
GCTCCCACGTAGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGTTTCT
GAGCAAACAGTGTCAAAAACGCTTTAAGCAAGATGCTTTGTCAGCAGAAGTACTGAAAAAA
Found at i:26583763 original size:44 final size:44
Alignment explanation
Indices: 26583713--26583797 Score: 134
Period size: 44 Copynumber: 1.9 Consensus size: 44
26583703 TTAGAAGAAG
*
26583713 TACTGAAAGAAGCTCCCACGTAGACACGCTTTTGCTACAGTAAC
1 TACTGAAAAAAGCTCCCACGTAGACACGCTTTTGCTACAGTAAC
* * *
26583757 TACTGAAAAAAGCTCTCACGTGGACGCGCTTTTGCTACAGT
1 TACTGAAAAAAGCTCCCACGTAGACACGCTTTTGCTACAGT
26583798 GGCGCATGGC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (44 bp):
TACTGAAAAAAGCTCCCACGTAGACACGCTTTTGCTACAGTAAC
Found at i:26589133 original size:18 final size:18
Alignment explanation
Indices: 26589074--26589135 Score: 51
Period size: 18 Copynumber: 3.5 Consensus size: 18
26589064 AACAAATAAT
26589074 AAATT-AATAATTATTT-A
1 AAATTAAATAA-TATTTAA
* *
26589091 AAATTACATAA-A-TAAA
1 AAATTAAATAATATTTAA
26589107 AAATCTTAAATAATATTTAA
1 AAA--TTAAATAATATTTAA
26589127 AAATTAAAT
1 AAATTAAAT
26589136 TTAACACTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 11
0.70 0.08 0.22
Matches are distributed among these distances:
15 1 0.03
16 5 0.14
17 5 0.14
18 17 0.49
19 1 0.03
20 6 0.17
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (18 bp):
AAATTAAATAATATTTAA
Found at i:26589323 original size:11 final size:11
Alignment explanation
Indices: 26589309--26589420 Score: 101
Period size: 11 Copynumber: 10.6 Consensus size: 11
26589299 AAATAGGGAT
*
26589309 TTGAGAGGAAT
1 TTGAGAGGAAA
*
26589320 TTGAGAGAAAA
1 TTGAGAGGAAA
*
26589331 TTGAGAGCAAA
1 TTGAGAGGAAA
* *
26589342 TTGATA-TAAA
1 TTGAGAGGAAA
* *
26589352 AT-AG-GG-AT
1 TTGAGAGGAAA
26589360 TTGAGA-GAAA
1 TTGAGAGGAAA
26589370 TTTGAGAGGAAA
1 -TTGAGAGGAAA
*
26589382 TTGAGAGCAAA
1 TTGAGAGGAAA
26589393 TTGAGAGGAAA
1 TTGAGAGGAAA
26589404 TTGAGAGGAAA
1 TTGAGAGGAAA
26589415 TT-AGAG
1 TTGAGAG
26589421 AAAGGATTTA
Statistics
Matches: 82, Mismatches: 13, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
8 2 0.02
9 4 0.05
10 9 0.11
11 63 0.77
12 4 0.05
ACGTcount: A:0.45, C:0.02, G:0.30, T:0.23
Consensus pattern (11 bp):
TTGAGAGGAAA
Found at i:26589337 original size:22 final size:22
Alignment explanation
Indices: 26589309--26589421 Score: 117
Period size: 22 Copynumber: 5.3 Consensus size: 22
26589299 AAATAGGGAT
*
26589309 TTGAGAGGAATTTGAGAGAAAA
1 TTGAGAGGAAATTGAGAGAAAA
* * *
26589331 TTGAGAGCAAATTGATATAAAA
1 TTGAGAGGAAATTGAGAGAAAA
* *
26589353 -T-AG-GG-ATTTGAGAGAAAT
1 TTGAGAGGAAATTGAGAGAAAA
*
26589371 TTGAGAGGAAATTGAGAGCAAA
1 TTGAGAGGAAATTGAGAGAAAA
*
26589393 TTGAGAGGAAATTGAGAGGAAA
1 TTGAGAGGAAATTGAGAGAAAA
26589415 TTAGAGA
1 TT-GAGA
26589422 AAGGATTTAT
Statistics
Matches: 73, Mismatches: 13, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
18 9 0.12
19 2 0.03
20 4 0.05
21 3 0.04
22 51 0.70
23 4 0.05
ACGTcount: A:0.45, C:0.02, G:0.30, T:0.23
Consensus pattern (22 bp):
TTGAGAGGAAATTGAGAGAAAA
Found at i:26589359 original size:51 final size:51
Alignment explanation
Indices: 26589299--26589396 Score: 178
Period size: 51 Copynumber: 1.9 Consensus size: 51
26589289 AAGCTCTTTT
*
26589299 AAATAGGGATTTGAGAGGAATTTGAGAGAAAATTGAGAGCAAATTGATATA
1 AAATAGGGATTTGAGAGAAATTTGAGAGAAAATTGAGAGCAAATTGATATA
*
26589350 AAATAGGGATTTGAGAGAAATTTGAGAGGAAATTGAGAGCAAATTGA
1 AAATAGGGATTTGAGAGAAATTTGAGAGAAAATTGAGAGCAAATTGA
26589397 GAGGAAATTG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.45, C:0.02, G:0.29, T:0.24
Consensus pattern (51 bp):
AAATAGGGATTTGAGAGAAATTTGAGAGAAAATTGAGAGCAAATTGATATA
Found at i:26596956 original size:9 final size:9
Alignment explanation
Indices: 26596939--26596975 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
26596929 TGAGTTTTTG
26596939 AATTCGAAT
1 AATTCGAAT
*
26596948 AACTCGAAT
1 AATTCGAAT
*
26596957 AATTTGAAT
1 AATTCGAAT
26596966 AATTCGAAT
1 AATTCGAAT
26596975 A
1 A
26596976 TCAAACATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:26597221 original size:30 final size:31
Alignment explanation
Indices: 26597187--26597246 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
26597177 AAACCTTTTA
*
26597187 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
26597217 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
26597247 TCCCACCTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:26599436 original size:13 final size:13
Alignment explanation
Indices: 26599417--26599450 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
26599407 CAAAGTGAGT
*
26599417 AGAAAAAGAAAAAA
1 AGAAAAA-AAAGAA
26599431 AGAAAAAAAAGAA
1 AGAAAAAAAAGAA
26599444 AGAAAAA
1 AGAAAAA
26599451 TACTCATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (13 bp):
AGAAAAAAAAGAA
Found at i:26603884 original size:28 final size:28
Alignment explanation
Indices: 26603764--26603895 Score: 88
Period size: 28 Copynumber: 4.6 Consensus size: 28
26603754 TCATTCTTTG
*
26603764 AGAGGTTTGCCACAAAGGC-TACCTTTT
1 AGAGGTTTGCCACAAAGGCTTACCTTGT
* * * *
26603791 AATAGGTTTTCCACAAATGCTTACCTTTCT
1 -AGAGGTTTGCCACAAAGGCTTACC-TTGT
* * * * *
26603821 AGAGTTTTACCACAAGGGTTGTA-CTTGA
1 AGAGGTTTGCCACAAAGGCT-TACCTTGT
*
26603849 ACAGGTTTGCCACAAAGGCTTACCTTCGT
1 AGAGGTTTGCCACAAAGGCTTACCTT-GT
* * *
26603878 AGAGTTTTTCCATAAAGG
1 AGAGGTTTGCCACAAAGG
26603896 TTCCCTGAAA
Statistics
Matches: 77, Mismatches: 22, Indels: 9
0.71 0.20 0.08
Matches are distributed among these distances:
27 2 0.03
28 36 0.47
29 34 0.44
30 5 0.06
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (28 bp):
AGAGGTTTGCCACAAAGGCTTACCTTGT
Found at i:26604167 original size:52 final size:52
Alignment explanation
Indices: 26604045--26604195 Score: 162
Period size: 52 Copynumber: 2.9 Consensus size: 52
26604035 CCTTAAAATT
* ** * * ** *
26604045 TTCCATATGATTCTATAACCTACTAGTTACAGTCTTACATGAAATGATTTTT
1 TTCCATATGATACTATAACCTACTAGTTATGGTCTTACACGATATGACATTC
*
26604097 TTCCACATGATACTATAACCTACTAGTTATGGTCTTACACGATATGACATTC
1 TTCCATATGATACTATAACCTACTAGTTATGGTCTTACACGATATGACATTC
* * *
26604149 TTCTCATATGATAC-ATAA-CTCACCAATTATGGTCTTACACAATATGA
1 TTC-CATATGATACTATAACCT-ACTAGTTATGGTCTTACACGATATGA
26604196 TTTTATTCAG
Statistics
Matches: 84, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
51 2 0.02
52 73 0.87
53 9 0.11
ACGTcount: A:0.32, C:0.21, G:0.10, T:0.37
Consensus pattern (52 bp):
TTCCATATGATACTATAACCTACTAGTTATGGTCTTACACGATATGACATTC
Found at i:26605571 original size:20 final size:22
Alignment explanation
Indices: 26605546--26605586 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
26605536 AACGTATTCC
*
26605546 TTTCTT-TTTTTATTT-TTTTG
1 TTTCTTCTTTCTATTTATTTTG
26605566 TTTCTTCTTTCTATTTATTTT
1 TTTCTTCTTTCTATTTATTTT
26605587 TTTGGGTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 8 0.44
22 4 0.22
ACGTcount: A:0.07, C:0.10, G:0.02, T:0.80
Consensus pattern (22 bp):
TTTCTTCTTTCTATTTATTTTG
Found at i:26607551 original size:29 final size:29
Alignment explanation
Indices: 26607518--26607585 Score: 136
Period size: 29 Copynumber: 2.3 Consensus size: 29
26607508 GACTCATTCG
26607518 CATTTGTTTTGTCCCCTAGGGTTCGTTTC
1 CATTTGTTTTGTCCCCTAGGGTTCGTTTC
26607547 CATTTGTTTTGTCCCCTAGGGTTCGTTTC
1 CATTTGTTTTGTCCCCTAGGGTTCGTTTC
26607576 CATTTGTTTT
1 CATTTGTTTT
26607586 ACTCAATCAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.07, C:0.22, G:0.19, T:0.51
Consensus pattern (29 bp):
CATTTGTTTTGTCCCCTAGGGTTCGTTTC
Found at i:26608195 original size:16 final size:17
Alignment explanation
Indices: 26608149--26608195 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 17
26608139 ATCATATCAC
26608149 ATATTCACATGTATC-ATT
1 ATATTCACA--TATCAATT
26608167 ATATTCACA-ATCAATT
1 ATATTCACATATCAATT
26608183 ATATTCA-ATATCA
1 ATATTCACATATCA
26608196 CCATCCATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
15 4 0.15
16 14 0.52
18 9 0.33
ACGTcount: A:0.40, C:0.17, G:0.02, T:0.40
Consensus pattern (17 bp):
ATATTCACATATCAATT
Found at i:26608790 original size:21 final size:20
Alignment explanation
Indices: 26608737--26608791 Score: 51
Period size: 20 Copynumber: 2.7 Consensus size: 20
26608727 TTAATCATAG
26608737 TTAATTAGTTTAATTATAAT
1 TTAATTAGTTTAATTATAAT
* *
26608757 TTATTTTA-CTTAATTACTAA-
1 TTA-ATTAGTTTAATTA-TAAT
26608777 TTAATTAAGTTTAAT
1 TTAATT-AGTTTAAT
26608792 GACATCTTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 7
0.71 0.11 0.18
Matches are distributed among these distances:
19 2 0.07
20 14 0.52
21 11 0.41
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.55
Consensus pattern (20 bp):
TTAATTAGTTTAATTATAAT
Found at i:26612097 original size:22 final size:21
Alignment explanation
Indices: 26612062--26612119 Score: 53
Period size: 22 Copynumber: 2.7 Consensus size: 21
26612052 AAAGGGTATC
* * *
26612062 TACAAATTAAATCTCTAATAT
1 TACAAATCATATCTCTAAGAT
26612083 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
26612106 TGCATATCATATCT
1 TACAAATCATATCT
26612120 AAGATTGCAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
21 4 0.13
22 17 0.57
23 9 0.30
ACGTcount: A:0.41, C:0.17, G:0.03, T:0.38
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:26612802 original size:131 final size:132
Alignment explanation
Indices: 26612600--26612903 Score: 403
Period size: 131 Copynumber: 2.3 Consensus size: 132
26612590 AAGGCTGGTG
* * * * *
26612600 GCTTAAATCTACTTCCCTACTACCTCGAGAAGATAAGACTCGCCATCTTTGATTTGCTCCACTAC
1 GCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCGCCATCTTCGATCTGCTCCACTAC
*
26612665 TACTTAGAGAGACAAGATATACAATCTTTAACCTACTCCACTACTGCTCAGGGAAATAGGAATGA
66 TACTTAGAGAGACAAGATATACAATCTTCAACCTACTCCACTACTGCTCAGGGAAATAGGAATGA
26612730 TA
131 TA
* * * * *
26612732 GCTTAAATATGCTT-CCTACTATCTCGGGAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTAT
1 GCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCGCCATCTTCGATCTGCTCCACTAC
* * * * * * ** *
26612796 TGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCTACTACTGCTCAGGGAGATAGGTCTGG
66 TACTTAGAGAGACAAGATATACAATCTTCAACCTACTCCACTACTGCTCAGGGAAATAGGAATGA
*
26612861 TG
131 TA
*
26612863 GCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTC
1 GCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTC
26612904 ACTGTCTTTG
Statistics
Matches: 146, Mismatches: 25, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
131 111 0.76
132 35 0.24
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (132 bp):
GCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCGCCATCTTCGATCTGCTCCACTAC
TACTTAGAGAGACAAGATATACAATCTTCAACCTACTCCACTACTGCTCAGGGAAATAGGAATGA
TA
Found at i:26613001 original size:42 final size:43
Alignment explanation
Indices: 26612955--26613347 Score: 152
Period size: 44 Copynumber: 8.9 Consensus size: 43
26612945 GATTTACTAT
* * * *
26612955 CTTCAGTCTACTCCACAGCAACTTCAGGGAGATAAGA-CTTCA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATATTCA
* * * **
26612997 CTTCAATCCGCTCTACTGCAACTTCAGGGAGATAGGATTATTGG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TATTCA
* *
26613041 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTTC-
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATATTCA
* * * * * * *
26613083 CAT-GATCTACTCTACTGCAACTTCAGAGAGAAAAGATCTGTGATTTATA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA----T-A-TT-CA
* ** * * * * * *
26613132 GCTTTAATCTATTCCGCTGCAGCTTCAGGAAAATGAGAT-TCGCTA
1 -CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATAT-TC-A
* * * ** *
26613177 TCTTCAGTTTGCTCCACTGGAACTTCAGGGAGATAAGACTGGTCT
1 -CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TATTCA
* * ** *
26613222 CTTCAGT-TCGCTCCACTGTAACTTCAAAGAGATAGGATTATT-A
1 CTTCAATCT-GCTCCACTGCAACTTCAGGGAGATAAGA-TATTCA
* * *
26613265 GCTTTAATCTACTCCGCTGCAACTTCAGGGAGATAAGAT-TTGCCA
1 -CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATATT--CA
* * * * *
26613310 TCTTCAGTCTGCCCCACTACAACTTTAGGGGGATAAGA
1 -CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
26613348 CTTGCTTTCT
Statistics
Matches: 253, Mismatches: 76, Indels: 41
0.68 0.21 0.11
Matches are distributed among these distances:
41 28 0.11
42 35 0.14
43 5 0.02
44 96 0.38
45 59 0.23
46 2 0.01
47 3 0.01
50 2 0.01
51 23 0.09
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (43 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATATTCA
Found at i:26613440 original size:44 final size:44
Alignment explanation
Indices: 26613368--26613853 Score: 358
Period size: 44 Copynumber: 11.0 Consensus size: 44
26613358 GCAATAAGAC
26613368 TTGTAACTTTAAT-CGCTCCACTGCAACTTCAAGGAGATAGGAT
1 TTGTAACTTTAATCCGCTCCACTGCAACTTCAAGGAGATAGGAT
* * *
26613411 TTGTAAATTTAATCCGCTCCACTGTAACTT-TAGAGAGATAGGAT
1 TTGTAACTTTAATCCGCTCCACTGCAACTTCAAG-GAGATAGGAT
** * * * * * *
26613455 TAT-TGGCTTTAATCTGCTCCATTACAACTTCAGGGAGTTAAGAT
1 T-TGTAACTTTAATCCGCTCCACTGCAACTTCAAGGAGATAGGAT
* * ** ** * * * * *
26613499 TTGCCATCTTTTGTTTGCTTCACTGCAACTTTAGGGAGATAAGAC
1 TTG-TAACTTTAATCCGCTCCACTGCAACTTCAAGGAGATAGGAT
* * *
26613544 TTGTAACTTTAATCCGCTCGATTGCAACTTCAGGGAGATAGGAT
1 TTGTAACTTTAATCCGCTCCACTGCAACTTCAAGGAGATAGGAT
* * *
26613588 TTGTAACTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGAAT
1 TTGTAACTTTAATCCGCTCCACTGCAACTTCAAGGAGATAGGAT
** ** ** * * *
26613632 TACTGGCTTTAATCTACTCCACTTCAACTTCAGGGAGATAAGAT
1 TTGTAACTTTAATCCGCTCCACTGCAACTTCAAGGAGATAGGAT
* * * * * * *
26613676 TTGTCA-TCTTCAGCCTGCTCCATTGTAACTTC-AGGTAGATAAGAC
1 TTGTAACT-TTAATCC-GCTCCACTGCAACTTCAAGG-AGATAGGAT
26613721 TTGTAACTTTAATCCGCTCCACTGCAACTTC-AGGAAGATAGGAT
1 TTGTAACTTTAATCCGCTCCACTGCAACTTCAAGG-AGATAGGAT
** * *
26613765 TAT-TGGCTTTAATCTGCTCCACTGTAACTTCAAGGAGATAGGAT
1 T-TGTAACTTTAATCCGCTCCACTGCAACTTCAAGGAGATAGGAT
** * * *
26613809 TAT-TGGCTTTAATCTGCTCCACTGCAACTTCATGGAGATAAGAT
1 T-TGTAACTTTAATCCGCTCCACTGCAACTTCAAGGAGATAGGAT
26613853 T
1 T
26613854 CGCCATCTTC
Statistics
Matches: 351, Mismatches: 80, Indels: 23
0.77 0.18 0.05
Matches are distributed among these distances:
43 16 0.05
44 266 0.76
45 68 0.19
46 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (44 bp):
TTGTAACTTTAATCCGCTCCACTGCAACTTCAAGGAGATAGGAT
Found at i:26613624 original size:133 final size:131
Alignment explanation
Indices: 26613374--26613853 Score: 417
Period size: 133 Copynumber: 3.6 Consensus size: 131
26613364 AGACTTGTAA
* * * *
26613374 CTTTAATC-GCTCCACTGCAACTTCAAGGAGATAGGATTTGTAAATTTAATCCGCTCCACTGTAA
1 CTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGT-AATTTAATCCGCTCCATTGTAA
* * ** * * * * * *
26613438 CTTTAGAGAGATAGGATTAT-TGGCTTTAATCTGCTCCATTACAACTTCAGGGAGTTAAGATTTG
65 CTTCAGGGAGATAGGATT-TGTAACTTTAATCCGCTCCACTGCAACTTCAGGGAGAT-AGAATTA
*
26613502 CCAT
128 CCAG
** * * * * * * *
26613506 CTTTTGTTTGCTTCACTGCAACTTTAGGGAGATAAGACTTGTAACTTTAATCCGCTCGATTGCAA
1 CTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTAA-TTTAATCCGCTCCATTGTAA
* *
26613571 CTTCAGGGAGATAGGATTTGTAACTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGAATTACT
65 CTTCAGGGAGATAGGATTTGTAACTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGAATTACC
*
26613636 GG
130 AG
* * * *
26613638 CTTTAATCTACTCCACTTCAACTTCAGGGAGATAAGATTTGTCATCTTCAGCCTGCTCCATTGTA
1 CTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTAAT-TTAATCC-GCTCCATTGTA
* * * * * *
26613703 ACTTCAGGTAGATAAGACTTGTAACTTTAATCCGCTCCACTGCAACTTCAGGAAGATAGGATTAT
64 ACTTCAGGGAGATAGGATTTGTAACTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGAATTAC
**
26613768 TGG
129 CAG
* * * * ** * * *
26613771 CTTTAATCTGCTCCACTGTAACTTCAAGGAGATAGGATTAT-TGGCTTTAATCTGCTCCACTGCA
1 CTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATT-TGT-AATTTAATCCGCTCCATTGTA
* *
26613835 ACTTCATGGAGATAAGATT
64 ACTTCAGGGAGATAGGATT
26613854 CGCCATCTTC
Statistics
Matches: 281, Mismatches: 60, Indels: 14
0.79 0.17 0.04
Matches are distributed among these distances:
131 1 0.00
132 79 0.28
133 199 0.71
134 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (131 bp):
CTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTAATTTAATCCGCTCCATTGTAAC
TTCAGGGAGATAGGATTTGTAACTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGAATTACCA
G
Found at i:26613662 original size:177 final size:177
Alignment explanation
Indices: 26613361--26613863 Score: 715
Period size: 177 Copynumber: 2.8 Consensus size: 177
26613351 GCTTTCTGCA
* *
26613361 ATAAGACTTGTAACTTTAAT-CGCTCCACTGCAACTTCAAGGAGATAGGATTTGTAAATTTAATC
1 ATAAGACTTGTAACTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTTGTAACTTTAATC
* *
26613425 CGCTCCACTGTAACTTTAGAGAGATAGGATTATTGGCTTTAATCTGCTCCA-TTACAACTTCAGG
66 CGCTCCACTGTAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTT-CAACTTCAGG
* ** ** * *
26613489 GAGTTAAGATTTGCCATCTTTTGTTTGCTTCACTGCAACTTTAGGGAG
130 GAGATAAGATTTGCCATCTTCAGCCTGCTCCACTGCAACTTCAGGGAG
* *
26613537 ATAAGACTTGTAACTTTAATCCGCTCGATTGCAACTTCAGGGAGATAGGATTTGTAACTTTAATC
1 ATAAGACTTGTAACTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTTGTAACTTTAATC
* * *
26613602 CGCTCCACTGTAACTTCAGGGAGATAGAATTACTGGCTTTAATCTACTCCACTTCAACTTCAGGG
66 CGCTCCACTGTAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTTCAACTTCAGGG
* * * *
26613667 AGATAAGATTTGTCATCTTCAGCCTGCTCCATTGTAACTTCAGGTAG
131 AGATAAGATTTGCCATCTTCAGCCTGCTCCACTGCAACTTCAGGGAG
* **
26613714 ATAAGACTTGTAACTTTAATCCGCTCCACTGCAACTTCAGGAAGATAGGATTAT-TGGCTTTAAT
1 ATAAGACTTGTAACTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATT-TGTAACTTTAAT
* * * *
26613778 CTGCTCCACTGTAACTTCAAGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCATG
65 CCGCTCCACTGTAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTTCAACTTCAGG
*
26613843 GAGATAAGATTCGCCATCTTC
130 GAGATAAGATTTGCCATCTTC
26613864 TTCAATACAT
Statistics
Matches: 290, Mismatches: 34, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
176 20 0.07
177 267 0.92
178 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (177 bp):
ATAAGACTTGTAACTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTTGTAACTTTAATC
CGCTCCACTGTAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTTCAACTTCAGGG
AGATAAGATTTGCCATCTTCAGCCTGCTCCACTGCAACTTCAGGGAG
Found at i:26618500 original size:19 final size:20
Alignment explanation
Indices: 26618476--26618520 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
26618466 TGTGAAAATC
*
26618476 TAATGCATATG-ATGCAATG
1 TAATGCAGATGCATGCAATG
*
26618495 TAATGCAGATGCATGGAATG
1 TAATGCAGATGCATGCAATG
26618515 -AATGCA
1 TAATGCA
26618521 AAAAGAAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.38, C:0.11, G:0.24, T:0.27
Consensus pattern (20 bp):
TAATGCAGATGCATGCAATG
Found at i:26634649 original size:12 final size:12
Alignment explanation
Indices: 26634632--26634659 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
26634622 GAATGTTTCT
26634632 AATGTTACAAGC
1 AATGTTACAAGC
26634644 AATGTTACAAGC
1 AATGTTACAAGC
26634656 AATG
1 AATG
26634660 AGTGGCATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.43, C:0.14, G:0.18, T:0.25
Consensus pattern (12 bp):
AATGTTACAAGC
Found at i:26637791 original size:16 final size:16
Alignment explanation
Indices: 26637770--26637800 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
26637760 TTTCACTTTA
*
26637770 TGTCTTTTGTATTTTT
1 TGTCTTTTATATTTTT
26637786 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
26637801 GTATGCATAG
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:0.10, C:0.06, G:0.10, T:0.74
Consensus pattern (16 bp):
TGTCTTTTATATTTTT
Found at i:26656230 original size:25 final size:25
Alignment explanation
Indices: 26656170--26656230 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
26656160 CTACTAAATT
*
26656170 TTAATTTAATTATCTAATTTTTAAA
1 TTAATTAAATTATCTAATTTTTAAA
* * *
26656195 TTTATTGAATTAT-TAATATTTTATA
1 TTAATTAAATTATCTAAT-TTTTAAA
26656220 TTAATTAAATT
1 TTAATTAAATT
26656231 TTTGAGAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
24 4 0.13
25 26 0.87
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (25 bp):
TTAATTAAATTATCTAATTTTTAAA
Found at i:26662515 original size:14 final size:14
Alignment explanation
Indices: 26662493--26662527 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
26662483 CACATTTTAC
* *
26662493 TATTATGTCTCTTT
1 TATTTTGTCTCTTA
26662507 TATTTTGTCTCTTA
1 TATTTTGTCTCTTA
26662521 TATTTTG
1 TATTTTG
26662528 CATACATAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.14, C:0.11, G:0.09, T:0.66
Consensus pattern (14 bp):
TATTTTGTCTCTTA
Found at i:26664301 original size:62 final size:59
Alignment explanation
Indices: 26664228--26664344 Score: 171
Period size: 62 Copynumber: 1.9 Consensus size: 59
26664218 AGTGATTATC
* * * *
26664228 TTAATATTAAATTTAATTTAATGTTTATCTTATAGATAAATATTCTATTATTTTAATAAGAT
1 TTAATATTAAATTTAATCTAATATTTATC-T-T-GATAAATATTATATTAATTTAATAAGAT
26664290 TTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATA
1 TTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATA
26664345 TTAAAGTGAT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
59 22 0.43
60 1 0.02
61 1 0.02
62 27 0.53
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.51
Consensus pattern (59 bp):
TTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATAAGAT
Found at i:26669705 original size:19 final size:19
Alignment explanation
Indices: 26669681--26669718 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
26669671 GACTTTTGCT
26669681 GATTATGGTTTGTTAGAAG
1 GATTATGGTTTGTTAGAAG
26669700 GATTATGGTTTGTTAGAAG
1 GATTATGGTTTGTTAGAAG
26669719 ACATTCATCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (19 bp):
GATTATGGTTTGTTAGAAG
Found at i:26672735 original size:79 final size:80
Alignment explanation
Indices: 26672602--26672822 Score: 256
Period size: 79 Copynumber: 2.8 Consensus size: 80
26672592 ATGATGTCCG
* * * * *
26672602 GGCTAAGTCCCGAAGGCTTTGTGCTA--AGTGACCATATCCGGACTAAGAT-CCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTG-G-TACGAGTCACTATAACCGGGCTAAG-TCCCGAAGGCATTTG
*
26672664 TGCGAGTTACTA-ATTCCA
63 TGCGAGTTACTATA-ACCA
* *
26672682 GGCTAAG-CCCGAAGGCATTGGTACGAGTTACTA-AATCCGGGTTAAGTCCCGAAGGCATTTGTG
1 GGCTAAGTCCCGAAGGCATTGGTACGAGTCACTATAA-CCGGGCTAAGTCCCGAAGGCATTTGTG
*
26672745 CGAGTTACTATAACCG
65 CGAGTTACTATAACCA
* *
26672761 GGCTAAGTCCCGAAGGCATTTGTACGAGTCACTATAACCGGGCTATGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTGGTACGAGTCACTATAACCGGGCTAAGTCCCGAAGGCATTTG
26672823 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 12, Indels: 14
0.82 0.08 0.09
Matches are distributed among these distances:
77 2 0.02
78 3 0.02
79 60 0.49
80 55 0.45
81 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
GGCTAAGTCCCGAAGGCATTGGTACGAGTCACTATAACCGGGCTAAGTCCCGAAGGCATTTGTGC
GAGTTACTATAACCA
Found at i:26672836 original size:40 final size:40
Alignment explanation
Indices: 26672599--26672829 Score: 256
Period size: 40 Copynumber: 5.8 Consensus size: 40
26672589 TGAATGATGT
* * * * *
26672599 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTAC-GAGTTACTATAA
* * *
26672639 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTACGAGTTACTATA-A
* *
26672679 CCAGGCTAAG-CCCGAAGGCATTGGTACGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAA
* *
26672717 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAA
*
26672758 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTCACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAA
* *
26672798 CCGGGCTATGTCCCGAAGGCATTTGAACGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGT
26672830 AGCTATATCC
Statistics
Matches: 166, Mismatches: 18, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
39 33 0.20
40 123 0.74
41 10 0.06
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAA
Found at i:26672844 original size:119 final size:119
Alignment explanation
Indices: 26672598--26672855 Score: 292
Period size: 119 Copynumber: 2.2 Consensus size: 119
26672588 TTGAATGATG
* *
26672598 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
* * * *
26672663 GTGCGAGTTACTAATTCCAGGCTAAGCCCGAAGGCATTGGTACGAGTTACTAAA
66 GTACGAGTCACTAATACCAGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
* * * *
26672717 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
* * * *
26672780 TTGTACGAGTCACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
64 TTGTACGAGTCACTAAT-ACCAGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAA
* *
26672837 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
26672856 TACGTGATTT
Statistics
Matches: 118, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
118 3 0.03
119 83 0.70
120 32 0.27
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GTACGAGTCACTAATACCAGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
Found at i:26674732 original size:26 final size:26
Alignment explanation
Indices: 26674696--26674749 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
26674686 ATGTTTGAAG
26674696 CTACATCGATTAGTTGGATATTCTAA
1 CTACATCGATTAGTTGGATATTCTAA
26674722 CTACATCGATTAGTTGGATATTCTAA
1 CTACATCGATTAGTTGGATATTCTAA
26674748 CT
1 CT
26674750 TTTGTACCCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.39
Consensus pattern (26 bp):
CTACATCGATTAGTTGGATATTCTAA
Found at i:26678050 original size:57 final size:57
Alignment explanation
Indices: 26677983--26678091 Score: 173
Period size: 57 Copynumber: 1.9 Consensus size: 57
26677973 CATTTTGACA
**
26677983 AACATAAATATGTGCATTAAGAGACATTATCACAGAAACTATAAATTACATTTGGCC
1 AACATAAATATGCACATTAAGAGACATTATCACAGAAACTATAAATTACATTTGGCC
* * *
26678040 AACATAAATATGCACATTAAGAGACATTTTGACAGCAACTATAAATTACATT
1 AACATAAATATGCACATTAAGAGACATTATCACAGAAACTATAAATTACATT
26678092 AAGGCCGCAT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
57 47 1.00
ACGTcount: A:0.45, C:0.16, G:0.11, T:0.28
Consensus pattern (57 bp):
AACATAAATATGCACATTAAGAGACATTATCACAGAAACTATAAATTACATTTGGCC
Found at i:26678103 original size:57 final size:57
Alignment explanation
Indices: 26677983--26678105 Score: 167
Period size: 57 Copynumber: 2.2 Consensus size: 57
26677973 CATTTTGACA
** *
26677983 AACATAAATATGTGCATTAAGAGACATTATCACAGAAACTATAAATTACATTTGGCC
1 AACATAAATATGCACATTAAGAGACATTATCACAGAAACTATAAATTACATTAGGCC
* * *
26678040 AACATAAATATGCACATTAAGAGACATTTTGACAGCAACTATAAATTACATTAAGGCC
1 AACATAAATATGCACATTAAGAGACATTATCACAGAAACTATAAATTACATT-AGGCC
*
26678098 -GCATAAAT
1 AACATAAAT
26678106 GTAGAAATAA
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
57 54 0.93
58 4 0.07
ACGTcount: A:0.45, C:0.16, G:0.12, T:0.27
Consensus pattern (57 bp):
AACATAAATATGCACATTAAGAGACATTATCACAGAAACTATAAATTACATTAGGCC
Found at i:26686607 original size:5 final size:5
Alignment explanation
Indices: 26686597--26686636 Score: 80
Period size: 5 Copynumber: 8.0 Consensus size: 5
26686587 TCCAAAACTC
26686597 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA
26686637 TTTAATATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 35 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:26690149 original size:16 final size:18
Alignment explanation
Indices: 26690113--26690149 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
26690103 TAATATTAAA
*
26690113 TAATAAAATATTATTATT
1 TAATAAAATATTATCATT
26690131 TAATAAAA-A-TATCATT
1 TAATAAAATATTATCATT
26690147 TAA
1 TAA
26690150 AAGCATCATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 9 0.50
17 1 0.06
18 8 0.44
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (18 bp):
TAATAAAATATTATCATT
Found at i:26690438 original size:22 final size:22
Alignment explanation
Indices: 26690413--26690455 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
26690403 TTATTTAAGG
*
26690413 TCTTCTACCATAAATATTCTTC
1 TCTTCTACCATAAAAATTCTTC
26690435 TCTTCTACCATAAAAATTCTT
1 TCTTCTACCATAAAAATTCTT
26690456 TTTTTTAGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.30, C:0.26, G:0.00, T:0.44
Consensus pattern (22 bp):
TCTTCTACCATAAAAATTCTTC
Found at i:26692312 original size:16 final size:16
Alignment explanation
Indices: 26692293--26692323 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
26692283 AGAAGGGACG
26692293 AATCAAATTATCATCA
1 AATCAAATTATCATCA
26692309 AATCAAATTATCATC
1 AATCAAATTATCATC
26692324 CCATTGTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.48, C:0.19, G:0.00, T:0.32
Consensus pattern (16 bp):
AATCAAATTATCATCA
Found at i:26695496 original size:22 final size:22
Alignment explanation
Indices: 26695470--26695514 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
26695460 ATTATATGTA
26695470 TTAATTCATAATATAA-TTAATT
1 TTAATTCAT-ATATAATTTAATT
* *
26695492 TTAATTTATATCTAATTTAATT
1 TTAATTCATATATAATTTAATT
26695514 T
1 T
26695515 GGGTTAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (22 bp):
TTAATTCATATATAATTTAATT
Found at i:26698510 original size:39 final size:37
Alignment explanation
Indices: 26698440--26698512 Score: 103
Period size: 39 Copynumber: 1.9 Consensus size: 37
26698430 AATAGATTAA
26698440 TATTAAATTAAATTAAATACTTATCTTAATATTATTT
1 TATTAAATTAAATTAAATACTTATCTTAATATTATTT
*
26698477 TATTAATTTAATATTAAAGTGA-TTATCTTAATATTA
1 TATTAAATTAA-ATTAAA-T-ACTTATCTTAATATTA
26698513 AATTAAATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 10 0.31
38 6 0.19
39 15 0.47
40 1 0.03
ACGTcount: A:0.42, C:0.04, G:0.03, T:0.51
Consensus pattern (37 bp):
TATTAAATTAAATTAAATACTTATCTTAATATTATTT
Found at i:26698576 original size:61 final size:59
Alignment explanation
Indices: 26698504--26698619 Score: 144
Period size: 61 Copynumber: 1.9 Consensus size: 59
26698494 AGTGATTATC
* * * *
26698504 TTAATATTAAATTAAATTTAATGGTTATCCTATG-TATAATATTGTATTATTTTAATAAGAT
1 TTAATATTAAATTAAATCTAATAGTTAT-CT-TGATA-AATATTATATTAGTTTAATAAGAT
* *
26698565 TTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAGTTTAATA
1 TTAATATTAAATTAAATCTAATAGTTATCTTGATAAATATTATATTAGTTTAATA
26698620 TTAAAGTAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
59 20 0.42
60 4 0.08
61 24 0.50
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (59 bp):
TTAATATTAAATTAAATCTAATAGTTATCTTGATAAATATTATATTAGTTTAATAAGAT
Found at i:26704169 original size:7 final size:7
Alignment explanation
Indices: 26704157--26704223 Score: 55
Period size: 7 Copynumber: 9.0 Consensus size: 7
26704147 TAAGTATAAG
26704157 AATAAAA
1 AATAAAA
26704164 AATAAAA
1 AATAAAA
26704171 AATAAAAA
1 AAT-AAAA
*
26704179 AATTAGTAA
1 AA-TA-AAA
26704188 AAT-AAA
1 AATAAAA
26704194 AATAAATA
1 AATAAA-A
*
26704202 ATATAACA
1 A-ATAAAA
*
26704210 AATAATA
1 AATAAAA
26704217 AATAAAA
1 AATAAAA
26704224 TAAAATAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
6 5 0.10
7 23 0.47
8 12 0.24
9 9 0.18
ACGTcount: A:0.76, C:0.01, G:0.01, T:0.21
Consensus pattern (7 bp):
AATAAAA
Found at i:26704223 original size:34 final size:30
Alignment explanation
Indices: 26704152--26704233 Score: 85
Period size: 33 Copynumber: 2.6 Consensus size: 30
26704142 AAGTATAAGT
*
26704152 ATAAGAATAAAAAATAAAAAATAAAAAAATTA
1 ATAA-AAT-AAAAATAAAAAATAAAAAAATAA
*
26704184 GTAAAATAAAAATAAATAATATAACAAATAATAA
1 ATAAAATAAAAATAAA-AA-ATAA-AAA-AATAA
26704218 ATAAAAT-AAAATAAAA
1 ATAAAATAAAAATAAAA
26704234 GGGGTGGCCT
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
30 9 0.21
31 5 0.12
32 8 0.19
33 11 0.26
34 10 0.23
ACGTcount: A:0.76, C:0.01, G:0.02, T:0.21
Consensus pattern (30 bp):
ATAAAATAAAAATAAAAAATAAAAAAATAA
Found at i:26707551 original size:6 final size:6
Alignment explanation
Indices: 26707508--26707569 Score: 54
Period size: 6 Copynumber: 10.2 Consensus size: 6
26707498 TACTAGAAGC
* * * *
26707508 AAATAA AAGA-AA AATTATA AAACAA AAATTA AACTAA AAATAA AAATAA
1 AAATAA AA-ATAA AAATA-A AAATAA AAATAA AAATAA AAATAA AAATAA
*
26707557 AAATAA GAATAA A
1 AAATAA AAATAA A
26707570 TGGCTAAAGT
Statistics
Matches: 43, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
6 38 0.88
7 5 0.12
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (6 bp):
AAATAA
Found at i:26730479 original size:20 final size:20
Alignment explanation
Indices: 26730436--26730476 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
26730426 TGATCAGTTT
26730436 AATTAAAAAAATCATTAAAA
1 AATTAAAAAAATCATTAAAA
*
26730456 AATTATAAAAAT-ATTAAAA
1 AATTAAAAAAATCATTAAAA
26730475 AA
1 AA
26730477 ATTGATTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (20 bp):
AATTAAAAAAATCATTAAAA
Found at i:26730949 original size:14 final size:14
Alignment explanation
Indices: 26730932--26730960 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
26730922 AATGAGTTCA
26730932 AATCGTCAAAATCG
1 AATCGTCAAAATCG
26730946 AATCGTCAAAATCG
1 AATCGTCAAAATCG
26730960 A
1 A
26730961 CTAACTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.21, G:0.14, T:0.21
Consensus pattern (14 bp):
AATCGTCAAAATCG
Found at i:26732581 original size:17 final size:17
Alignment explanation
Indices: 26732559--26732632 Score: 64
Period size: 17 Copynumber: 4.4 Consensus size: 17
26732549 AATATAATAT
26732559 CATATCTTATAAGATTA
1 CATATCTTATAAGATTA
26732576 CATATCTTAGATAAGA-TA
1 CATATCTT--ATAAGATTA
** *
26732594 TGTAATCTTATAA-AATA
1 CAT-ATCTTATAAGATTA
*
26732611 -ATATCTTATAAGATTC
1 CATATCTTATAAGATTA
26732627 CATATC
1 CATATC
26732633 ATATCTAAGA
Statistics
Matches: 46, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
15 9 0.20
16 4 0.09
17 19 0.41
18 3 0.07
19 11 0.24
ACGTcount: A:0.42, C:0.12, G:0.07, T:0.39
Consensus pattern (17 bp):
CATATCTTATAAGATTA
Found at i:26732642 original size:51 final size:51
Alignment explanation
Indices: 26732543--26732675 Score: 158
Period size: 51 Copynumber: 2.6 Consensus size: 51
26732533 CCATCAAATC
* *
26732543 TCTAAGAATATAATATCATATCTTATAAGATTACATATCTTAGATAAGATA
1 TCTAAGATTATAATATCATATCTTATAAGATTACATATCATAGATAAGATA
* ** * * * ** *
26732594 TGTAATCTTATAAAATAATATCTTATAAGATTCCATATCATATCTAAGATC
1 TCTAAGATTATAATATCATATCTTATAAGATTACATATCATAGATAAGATA
*
26732645 TCTAAGATTATAATATCATATCTTTTAAGAT
1 TCTAAGATTATAATATCATATCTTATAAGAT
26732676 CATGTTTCCA
Statistics
Matches: 65, Mismatches: 17, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
51 65 1.00
ACGTcount: A:0.42, C:0.11, G:0.07, T:0.40
Consensus pattern (51 bp):
TCTAAGATTATAATATCATATCTTATAAGATTACATATCATAGATAAGATA
Found at i:26735253 original size:41 final size:43
Alignment explanation
Indices: 26735208--26735309 Score: 118
Period size: 44 Copynumber: 2.4 Consensus size: 43
26735198 GCAACCAACG
**
26735208 ATTCTTTT-ACCGA-TGGGTGGTTTAACTAGCCTCCAAGTCTC
1 ATTCTTTTAACCGATTGCATGGTTTAACTAGCCTCCAAGTCTC
* *
26735249 ATTCTTTTGAAGCGATTTCATGGTTTAACTAGCCTCCAAGTCTC
1 ATTCTTTT-AACCGATTGCATGGTTTAACTAGCCTCCAAGTCTC
* *
26735293 GTTCTTTTGAAGCGATT
1 ATTCTTTT-AACCGATT
26735310 TCATCTCTTC
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
41 8 0.15
43 4 0.08
44 41 0.77
ACGTcount: A:0.21, C:0.22, G:0.19, T:0.39
Consensus pattern (43 bp):
ATTCTTTTAACCGATTGCATGGTTTAACTAGCCTCCAAGTCTC
Found at i:26735276 original size:44 final size:44
Alignment explanation
Indices: 26735225--26735313 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
26735215 TACCGATGGG
26735225 TGGTTTAACTAGCCTCCAAGTCTCATTCTTTTGAAGCGATTTCA
1 TGGTTTAACTAGCCTCCAAGTCTCATTCTTTTGAAGCGATTTCA
*
26735269 TGGTTTAACTAGCCTCCAAGTCTCGTTCTTTTGAAGCGATTTCA
1 TGGTTTAACTAGCCTCCAAGTCTCATTCTTTTGAAGCGATTTCA
26735313 T
1 T
26735314 CTCTTCTTTC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.21, C:0.22, G:0.17, T:0.39
Consensus pattern (44 bp):
TGGTTTAACTAGCCTCCAAGTCTCATTCTTTTGAAGCGATTTCA
Found at i:26736594 original size:32 final size:32
Alignment explanation
Indices: 26736553--26736616 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
26736543 TATTTGAAAA
26736553 GGCTTTTATTGCACAAGACTATCATACCTTTC
1 GGCTTTTATTGCACAAGACTATCATACCTTTC
26736585 GGCTTTTATTGCACAAGACTATCATACCTTTC
1 GGCTTTTATTGCACAAGACTATCATACCTTTC
26736617 TCACTCATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.38
Consensus pattern (32 bp):
GGCTTTTATTGCACAAGACTATCATACCTTTC
Found at i:26740618 original size:25 final size:25
Alignment explanation
Indices: 26740547--26740733 Score: 137
Period size: 25 Copynumber: 7.5 Consensus size: 25
26740537 AAGTAAAACC
* *
26740547 AAGCATTTGTGGTGAGTTATCCT-TA
1 AAGCCTTTGTGGTGAGTTAT-CTAAA
* * *
26740572 AAGCCGTTGTGGCGAATTATCTAAA
1 AAGCCTTTGTGGTGAGTTATCTAAA
**
26740597 AAGCCTTTGTGGTGAGTTATCT-GT
1 AAGCCTTTGTGGTGAGTTATCTAAA
* ** *
26740621 AAGCCCTTGTGGAAAATTATC-AGAA
1 AAGCCTTTGTGGTGAGTTATCTA-AA
* *
26740646 AATCCTTTTGTGGTGAGTTATCTATA
1 AAGCC-TTTGTGGTGAGTTATCTAAA
*** *
26740672 AAGCCTTTGTGACAAGTTATCTATA
1 AAGCCTTTGTGGTGAGTTATCTAAA
** * *
26740697 AAGCCTTTACGGTGAATTATCTGAA
1 AAGCCTTTGTGGTGAGTTATCTAAA
26740722 AAGCCTTTGTGG
1 AAGCCTTTGTGG
26740734 CGTGTTGCAC
Statistics
Matches: 121, Mismatches: 36, Indels: 10
0.72 0.22 0.06
Matches are distributed among these distances:
24 19 0.16
25 84 0.69
26 17 0.14
27 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.35
Consensus pattern (25 bp):
AAGCCTTTGTGGTGAGTTATCTAAA
Found at i:26740656 original size:50 final size:49
Alignment explanation
Indices: 26740547--26740733 Score: 173
Period size: 50 Copynumber: 3.7 Consensus size: 49
26740537 AAGTAAAACC
* * **
26740547 AAGCATTTGTGGTGAGTTATCCTTAAAGCCGTTGTGGCGAATTATCTAAA
1 AAGCCTTTGTGGTGAGTTAT-CTTAAAGCCCTTGTGGAAAATTATCTAAA
26740597 AAGCCTTTGTGGTGAGTTATCTGT-AAGCCCTTGTGGAAAATTATC-AGAA
1 AAGCCTTTGTGGTGAGTTATCT-TAAAGCCCTTGTGGAAAATTATCTA-AA
* * * *
26740646 AATCCTTTTGTGGTGAGTTATCTATAAAGCCTTTGT-GACAAGTTATCTATA
1 AAGCC-TTTGTGGTGAGTTATCT-TAAAGCCCTTGTGGA-AAATTATCTAAA
** * * *
26740697 AAGCCTTTACGGTGAATTATCTGAAAAGCCTTTGTGG
1 AAGCCTTTGTGGTGAGTTATCT-TAAAGCCCTTGTGG
26740734 CGTGTTGCAC
Statistics
Matches: 115, Mismatches: 15, Indels: 13
0.80 0.10 0.09
Matches are distributed among these distances:
48 1 0.01
49 26 0.23
50 65 0.57
51 22 0.19
52 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.35
Consensus pattern (49 bp):
AAGCCTTTGTGGTGAGTTATCTTAAAGCCCTTGTGGAAAATTATCTAAA
Done.