Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008520.1 Hibiscus syriacus cultivar Beakdansim tig00111387_pilon, whole genome shotgun sequence
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: 519447
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 3
Found at i:4997 original size:30 final size:29
Alignment explanation
Indices: 4950--5023 Score: 73
Period size: 30 Copynumber: 2.6 Consensus size: 29
4940 TATCATATCT
*
4950 TATAACATATACAATAA-TCATTAACACACA
1 TATATCATATACAATAATTCA-TAACACA-A
*
4980 TATATCATAT-CATATAATTCATATCACAA
1 TATATCATATACA-ATAATTCATAACACAA
*
5009 TATAT-ATATATAATA
1 TATATCATATACAATA
5024 TATATATATA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
28 7 0.18
29 9 0.24
30 19 0.50
31 3 0.08
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (29 bp):
TATATCATATACAATAATTCATAACACAA
Found at i:5015 original size:2 final size:2
Alignment explanation
Indices: 5008--5108 Score: 195
Period size: 2 Copynumber: 51.0 Consensus size: 2
4998 TCATATCACA
5008 AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5049 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5091 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
5109 CACATACATT
Statistics
Matches: 98, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
1 1 0.01
2 97 0.99
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6113 original size:20 final size:20
Alignment explanation
Indices: 6088--6125 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
6078 TTCCCTTTGA
6088 AGTGCATCGATACATTCTAT
1 AGTGCATCGATACATTCTAT
*
6108 AGTGCATCGATGCATTCT
1 AGTGCATCGATACATTCT
6126 TTAACATGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.34
Consensus pattern (20 bp):
AGTGCATCGATACATTCTAT
Found at i:9412 original size:2 final size:2
Alignment explanation
Indices: 9405--9465 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
9395 TCATATCACA
9405 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9447 AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
9466 ACATACATTG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:22757 original size:11 final size:9
Alignment explanation
Indices: 22724--22751 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
22714 AACGTATTAA
22724 ATATTAAAT
1 ATATTAAAT
22733 ATATTAAAT
1 ATATTAAAT
22742 ATATTAAAT
1 ATATTAAAT
22751 A
1 A
22752 CATATTCTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (9 bp):
ATATTAAAT
Found at i:23521 original size:20 final size:19
Alignment explanation
Indices: 23492--23540 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
23482 TGGATGTATG
* *
23492 AATTTTAAATTACATTTAA
1 AATTTTAAATAAAATTTAA
23511 AATTGTTAAATAAAATTT-A
1 AATT-TTAAATAAAATTTAA
23530 AATGTTTAAAT
1 AAT-TTTAAAT
23541 CATATCATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 14 0.54
20 12 0.46
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (19 bp):
AATTTTAAATAAAATTTAA
Found at i:23931 original size:127 final size:135
Alignment explanation
Indices: 23717--23991 Score: 397
Period size: 127 Copynumber: 2.1 Consensus size: 135
23707 TCTGAAAATA
* * *
23717 TTTTTTTATTTTTAAAAACAATTTATTTTTATATATTTTAAAATATATATATATATATATATAGA
1 TTTTTTTAATTTTAAAAACAATTTATTTTCATATATTTTAAAATATATATATATATATATATACA
*
23782 ATTATTACTTAAAAACATTGAAAATATTAAAATGAAATTTTAGTTATAATTGAGTGACTAAATAA
66 ATTATTACTTAAAAACATTGAAAATATTAAAATGAAATTTTAGTTATAATTGAGGGACTAAATAA
23847 GAT-T
131 GATAT
* *
23851 TTTTTTTAATTTTACAAATAATTTATTTTCATATATTTTATAAA-A-A-ATAT-T-T-T-T-TAC
1 TTTTTTTAATTTTAAAAACAATTTATTTTCATATATTTTA-AAATATATATATATATATATATAC
*
23908 AATTATTACTTAAAAACGTTGAAAATATTAAAATGAAATTTTAGTTATAATTGAGGGACTAAATA
65 AATTATTACTTAAAAACATTGAAAATATTAAAATGAAATTTTAGTTATAATTGAGGGACTAAATA
23973 AGATAT
130 AGATAT
*
23979 TTTTCATTAATTT
1 TTTT-TTTAATTT
23992 AGTATGTTAT
Statistics
Matches: 130, Mismatches: 8, Indels: 11
0.87 0.05 0.07
Matches are distributed among these distances:
127 69 0.53
128 6 0.05
129 8 0.06
130 1 0.01
131 1 0.01
132 4 0.03
133 1 0.01
134 37 0.28
135 3 0.02
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (135 bp):
TTTTTTTAATTTTAAAAACAATTTATTTTCATATATTTTAAAATATATATATATATATATATACA
ATTATTACTTAAAAACATTGAAAATATTAAAATGAAATTTTAGTTATAATTGAGGGACTAAATAA
GATAT
Found at i:38311 original size:6 final size:6
Alignment explanation
Indices: 38300--38352 Score: 106
Period size: 6 Copynumber: 8.8 Consensus size: 6
38290 AGCTCGCCTT
38300 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
38348 TATAC
1 TATAC
38353 GCATACGCAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.34
Consensus pattern (6 bp):
TATACA
Found at i:38358 original size:6 final size:6
Alignment explanation
Indices: 38349--38631 Score: 552
Period size: 6 Copynumber: 47.5 Consensus size: 6
38339 ACATATACAT
38349 ATACGC ATACGC ATACGC ATACGC ATACGC ATACGC ATACGC ATACGC
1 ATACGC ATACGC ATACGC ATACGC ATACGC ATACGC ATACGC ATACGC
38397 ATACGC ATACGC ATACGC ATACGC ATACGC ATACGC ATACGC ATACGC
1 ATACGC ATACGC ATACGC ATACGC ATACGC ATACGC ATACGC ATACGC
38445 ATACGC ATACGC ATACGC ATACGC ATACGC ATACGC ATACGC ATACGC
1 ATACGC ATACGC ATACGC ATACGC ATACGC ATACGC ATACGC ATACGC
38493 ATACGC ATACGC ATACGC ATACGC ATACGC ATACGC ATACGC ATACGC
1 ATACGC ATACGC ATACGC ATACGC ATACGC ATACGC ATACGC ATACGC
38541 ATACGC ATACGC --ACGC ATACGC ATACGC ATACGC ATACGC ATACGC
1 ATACGC ATACGC ATACGC ATACGC ATACGC ATACGC ATACGC ATACGC
38587 ATACGC ATACGC ATACGC ATACGC ATACGC ATACGC ATACGC ATA
1 ATACGC ATACGC ATACGC ATACGC ATACGC ATACGC ATACGC ATA
38632 TACATATACA
Statistics
Matches: 275, Mismatches: 0, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
4 4 0.01
6 271 0.99
ACGTcount: A:0.34, C:0.33, G:0.17, T:0.17
Consensus pattern (6 bp):
ATACGC
Found at i:40408 original size:35 final size:35
Alignment explanation
Indices: 40351--40440 Score: 135
Period size: 35 Copynumber: 2.5 Consensus size: 35
40341 TCAGCTTTTC
*
40351 TCAAGCTGGTAATTCCTCATATAGGTTCAACACCGA
1 TCAA-CTGGTAATTCCTTATATAGGTTCAACACCGA
** *
40387 TCAGTTGGTAATTCCTTATATAGGTTCAACATCGA
1 TCAACTGGTAATTCCTTATATAGGTTCAACACCGA
40422 TCAACTGGTAATTCCTTAT
1 TCAACTGGTAATTCCTTAT
40441 GGATCTAAGG
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
35 45 0.94
36 3 0.06
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (35 bp):
TCAACTGGTAATTCCTTATATAGGTTCAACACCGA
Found at i:42844 original size:19 final size:19
Alignment explanation
Indices: 42808--42863 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
42798 ACGAACTGGT
* *
42808 CTGAACCGTTAACCTTGA-
1 CTGAACCGTTGACTTTGAC
42826 CTCGAACCGTTGACTTTGAC
1 CT-GAACCGTTGACTTTGAC
42846 CTG-ACCGTTGACTGTTGA
1 CTGAACCGTTGACT-TTGA
42864 TCAGACCCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
18 12 0.36
19 19 0.58
20 2 0.06
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.30
Consensus pattern (19 bp):
CTGAACCGTTGACTTTGAC
Found at i:42870 original size:19 final size:18
Alignment explanation
Indices: 42831--42884 Score: 54
Period size: 19 Copynumber: 2.9 Consensus size: 18
42821 CTTGACTCGA
*
42831 ACCGTTGACTTTGACCTG
1 ACCGTTGACTTTGACCAG
*
42849 ACCGTTGACTGTTGATCAG
1 ACCGTTGACT-TTGACCAG
* *
42868 ACCCATTAACTTTGACC
1 A-CCGTTGACTTTGACC
42885 TTTGACCAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
18 10 0.34
19 12 0.41
20 7 0.24
ACGTcount: A:0.22, C:0.28, G:0.19, T:0.31
Consensus pattern (18 bp):
ACCGTTGACTTTGACCAG
Found at i:44259 original size:21 final size:21
Alignment explanation
Indices: 44217--44259 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
44207 TTTATGGGCT
* *
44217 AGGGGAATCGGTACCCATTCA
1 AGGGGAATCGATACCCACTCA
* *
44238 AGGGGAATCGATCCCCCCTCA
1 AGGGGAATCGATACCCACTCA
44259 A
1 A
44260 ACGAATATGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.30, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:44312 original size:20 final size:20
Alignment explanation
Indices: 44287--44324 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
44277 GAATGCTAGA
*
44287 GGGGAATCGATACCCCCAGG
1 GGGGAACCGATACCCCCAGG
*
44307 GGGGAACCGATTCCCCCA
1 GGGGAACCGATACCCCCA
44325 TAATGAAAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.34, G:0.32, T:0.11
Consensus pattern (20 bp):
GGGGAACCGATACCCCCAGG
Found at i:45419 original size:31 final size:31
Alignment explanation
Indices: 45381--45454 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
45371 GTCAAAGAAC
**
45381 TACCTATG-TCTTTCGAGACATATGGATAGTA
1 TACCTATGTTCTAACGA-ACATATGGATAGTA
* *
45412 TACCTATGTTCTAAGGAACATATGGATAGTT
1 TACCTATGTTCTAACGAACATATGGATAGTA
*
45443 TACCTAGGTTCT
1 TACCTATGTTCT
45455 TCGGGACCTA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 32 0.86
32 5 0.14
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.36
Consensus pattern (31 bp):
TACCTATGTTCTAACGAACATATGGATAGTA
Found at i:45467 original size:31 final size:31
Alignment explanation
Indices: 45392--45473 Score: 92
Period size: 31 Copynumber: 2.6 Consensus size: 31
45382 ACCTATGTCT
* * *
45392 TTCGAGACATATGGATAGTATACCTATGTTC
1 TTCGGGACATATGGATAGTTTACCTAGGTTC
** *
45423 TAAGGAACATATGGATAGTTTACCTAGGTTC
1 TTCGGGACATATGGATAGTTTACCTAGGTTC
* *
45454 TTCGGGACCTATGGACAGTT
1 TTCGGGACATATGGATAGTT
45474 ACCGAGGATC
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (31 bp):
TTCGGGACATATGGATAGTTTACCTAGGTTC
Found at i:45493 original size:30 final size:30
Alignment explanation
Indices: 45459--45591 Score: 239
Period size: 30 Copynumber: 4.4 Consensus size: 30
45449 GGTTCTTCGG
* *
45459 GACCTATGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
45489 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
45519 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
*
45549 GACCTCTGGATAGTTACCGAAGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
45579 GACCTCTGGATAG
1 GACCTCTGGATAG
45592 GTCCTTCGGA
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 100 1.00
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (30 bp):
GACCTCTGGATAGTTACCGAGGATCTTTAT
Found at i:57159 original size:37 final size:34
Alignment explanation
Indices: 57085--57162 Score: 86
Period size: 35 Copynumber: 2.2 Consensus size: 34
57075 ATAAAATTTT
* * *
57085 AATTATTAAAATTTAAAAATTATCATTATTTTCA
1 AATTATTAAAAATTAAAAATTATAATTATTTTAA
57119 AATTATTATAAAATTAATAAATT-TAATTATCATTTAA
1 AATTATTA-AAAATTAA-AAATTATAATTAT--TTTAA
57156 AATTATT
1 AATTATT
57163 TGAAAGTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
34 8 0.22
35 13 0.35
36 5 0.14
37 11 0.30
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (34 bp):
AATTATTAAAAATTAAAAATTATAATTATTTTAA
Found at i:57193 original size:20 final size:19
Alignment explanation
Indices: 57151--57198 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
57141 TTAATTATCA
* **
57151 TTTAAAATTATTTGAAAGT
1 TTTAAAATTATTTAAAAAC
57170 TTTAATAATTATTTAAAAAC
1 TTTAA-AATTATTTAAAAAC
57190 TTTAAAATT
1 TTTAAAATT
57199 TCAATAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 9 0.36
20 16 0.64
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (19 bp):
TTTAAAATTATTTAAAAAC
Found at i:57384 original size:29 final size:29
Alignment explanation
Indices: 57339--57424 Score: 136
Period size: 29 Copynumber: 3.0 Consensus size: 29
57329 AGTGTTGGCC
*
57339 GTAGGTCGCCATGCACTCCGAGCGACCTT
1 GTAGGTCGCCATGCACTCCGGGCGACCTT
*
57368 GTAGGTCGCCATACACTCCGGGCGACCTT
1 GTAGGTCGCCATGCACTCCGGGCGACCTT
* *
57397 ATAGGTCGTCATGCACTCCGGGCGACCT
1 GTAGGTCGCCATGCACTCCGGGCGACCT
57425 ACCCTTGAGA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.17, C:0.34, G:0.28, T:0.21
Consensus pattern (29 bp):
GTAGGTCGCCATGCACTCCGGGCGACCTT
Found at i:57515 original size:33 final size:33
Alignment explanation
Indices: 57477--57547 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
57467 CTACCCTCGA
* *
57477 TCGGATTCCCTCGCATAGCTCACTCGGTTGCCC
1 TCGGATGCCCTCGCATAGCTCACTCGGATGCCC
* *
57510 TCGGATGCCCTCGCATAGCTCATTCGGATGGCC
1 TCGGATGCCCTCGCATAGCTCACTCGGATGCCC
57543 TCGGA
1 TCGGA
57548 CGAATGGCCT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.14, C:0.35, G:0.25, T:0.25
Consensus pattern (33 bp):
TCGGATGCCCTCGCATAGCTCACTCGGATGCCC
Found at i:57573 original size:34 final size:34
Alignment explanation
Indices: 57533--57598 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
57523 CATAGCTCAT
57533 TCGGATGGCCTCGGACGAATGGCCTCGGATGCTC
1 TCGGATGGCCTCGGACGAATGGCCTCGGATGCTC
* *
57567 TCGGATGGCCTCGGTCGGATGGCCTCGGATGC
1 TCGGATGGCCTCGGACGAATGGCCTCGGATGC
57599 CCAGCGTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.12, C:0.29, G:0.38, T:0.21
Consensus pattern (34 bp):
TCGGATGGCCTCGGACGAATGGCCTCGGATGCTC
Found at i:57586 original size:14 final size:14
Alignment explanation
Indices: 57567--57594 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
57557 TCGGATGCTC
57567 TCGGATGGCCTCGG
1 TCGGATGGCCTCGG
57581 TCGGATGGCCTCGG
1 TCGGATGGCCTCGG
57595 ATGCCCAGCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.29, G:0.43, T:0.21
Consensus pattern (14 bp):
TCGGATGGCCTCGG
Found at i:65339 original size:17 final size:18
Alignment explanation
Indices: 65301--65339 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
65291 ATAATACATA
65301 AAAATATATAATTTTAAT
1 AAAATATATAATTTTAAT
* *
65319 AAAATATTTTATTTT-AT
1 AAAATATATAATTTTAAT
65336 AAAA
1 AAAA
65340 AATCAGCATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
AAAATATATAATTTTAAT
Found at i:66060 original size:136 final size:138
Alignment explanation
Indices: 65857--66136 Score: 336
Period size: 136 Copynumber: 2.0 Consensus size: 138
65847 AGCTTAAAGG
* * *
65857 ATTAAACCTAAAATGAAGTGTCTAATATTAAAACCTAACTAATTTTAACAACTTATTGGATCAAA
1 ATTAAACCTAAAACGAAGTGTCTAATATTAAAACATAACCAATTTTAACAACTTATTGGATCAAA
* * * * *
65922 TAATTAAAAT-GAAACATTAGGC-AAAT-ACGAGGACTAAATCAAAAATTCTTCTCATTTAAGGA
66 TAACTAAAATAG-AACATTAGGCAAAATGA-GAGGACCAAATAAAAAATTCTCCTAATTTAAGGA
* *
65984 GTAAAGTGAA
129 CTAAAATGAA
* * * * * *
65994 ATTAAACCTAAAACGGAG-GCTCTAATATT-AATCATAACCAATTTTAGCAATTTATTGGTTCGA
1 ATTAAACCTAAAACGAAGTG-TCTAATATTAAAACATAACCAATTTTAACAACTTATTGGATCAA
*
66057 ATAACTAAAATAGAACCTTAGGCATAAATGAGAGGACCAAATAAAAAATTCTCCTAATTTAAGGA
65 ATAACTAAAATAGAACATTAGGCA-AAATGAGAGGACCAAATAAAAAATTCTCCTAATTTAAGGA
66122 CTAAAATGAA
129 CTAAAATGAA
66132 ATTAA
1 ATTAA
66137 TGTAAATGAA
Statistics
Matches: 121, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
136 47 0.39
137 26 0.21
138 47 0.39
139 1 0.01
ACGTcount: A:0.46, C:0.13, G:0.12, T:0.29
Consensus pattern (138 bp):
ATTAAACCTAAAACGAAGTGTCTAATATTAAAACATAACCAATTTTAACAACTTATTGGATCAAA
TAACTAAAATAGAACATTAGGCAAAATGAGAGGACCAAATAAAAAATTCTCCTAATTTAAGGACT
AAAATGAA
Found at i:66154 original size:136 final size:135
Alignment explanation
Indices: 65857--66209 Score: 349
Period size: 137 Copynumber: 2.6 Consensus size: 135
65847 AGCTTAAAGG
* * * * *
65857 ATTAAACCTAAAATGAAGTGTCTAATATTAAAACCTAACTAATTTTAACAACTTATTGGATCAAA
1 ATTAAACCTAAAATGAAG-GTCTAATATT-AATCATAACCAATTTTAGCAAATTATTGGATCAAA
* * * * * *
65922 TAATTAAAATGAAACATTAGGCAAATACGAGGACTAAATCAAAAATTCTTCTCATTTAAGGAGTA
64 TAACTAAAATGAAACATTAGGCAAATACGAGGACCAAATAAAAAATTCTCCTAATTTAAGGACTA
*
65987 AAGTGAA
129 AAATGAA
* * * * *
65994 ATTAAACCTAAAACGGAGGCTCTAATATTAATCATAACCAATTTTAGCAATTTATTGGTTCGAAT
1 ATTAAACCTAAAATGAAGG-TCTAATATTAATCATAACCAATTTTAGCAAATTATTGGATCAAAT
*
66059 AACTAAAAT-AGAACCTTAGGCATAAATGA-GAGGACCAAATAAAAAATTCTCCTAATTTAAGGA
65 AACTAAAATGA-AACATTAGGC--AAAT-ACGAGGACCAAATAAAAAATTCTCCTAATTTAAGGA
66122 CTAAAATGAA
126 CTAAAATGAA
** * * * *
66132 ATT-AATGT-AAATGAAAGGTCTAATTGTTAATCTTAATCAATTTAAGCAAATTATT-GAGTCAA
1 ATTAAACCTAAAATG-AAGGTCTAA-TATTAATCATAACCAATTTTAGCAAATTATTGGA-TCAA
66194 ATAA-TCAAAATGAAAC
63 ATAACT-AAAATGAAAC
66210 CTCAAGCATA
Statistics
Matches: 178, Mismatches: 28, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
135 1 0.01
136 58 0.33
137 72 0.40
138 46 0.26
139 1 0.01
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.29
Consensus pattern (135 bp):
ATTAAACCTAAAATGAAGGTCTAATATTAATCATAACCAATTTTAGCAAATTATTGGATCAAATA
ACTAAAATGAAACATTAGGCAAATACGAGGACCAAATAAAAAATTCTCCTAATTTAAGGACTAAA
ATGAA
Found at i:67742 original size:23 final size:23
Alignment explanation
Indices: 67716--67760 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
67706 CACCACAGCT
*
67716 CGTATAATTGCACCGAAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCG
*
67739 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAATTGCACCGAAGTGCC
67761 ATATAATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.24, C:0.27, G:0.27, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCG
Found at i:68943 original size:18 final size:18
Alignment explanation
Indices: 68922--68956 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
68912 TCCCATCTAG
68922 CTTATC-TTATATGTTCAT
1 CTTATCATT-TATGTTCAT
68940 CTTATCATTTATGTTCA
1 CTTATCATTTATGTTCA
68957 AATCTCCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.23, C:0.17, G:0.06, T:0.54
Consensus pattern (18 bp):
CTTATCATTTATGTTCAT
Found at i:72090 original size:19 final size:20
Alignment explanation
Indices: 72053--72090 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
72043 AAAAATTATA
* *
72053 TAAATTATATAATTTTTTTT
1 TAAATTATATAAATATTTTT
72073 TAAA-TATATAAATATTTT
1 TAAATTATATAAATATTTT
72091 CAAGTTGTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
TAAATTATATAAATATTTTT
Found at i:72090 original size:20 final size:20
Alignment explanation
Indices: 72053--72090 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
72043 AAAAATTATA
*
72053 TAAATTATATAATTTTTTTT
1 TAAATTATATAATATTTTTT
72073 TAAA-TATATAAATATTTT
1 TAAATTATAT-AATATTTT
72091 CAAGTTGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
TAAATTATATAATATTTTTT
Found at i:72247 original size:16 final size:18
Alignment explanation
Indices: 72226--72272 Score: 62
Period size: 16 Copynumber: 2.6 Consensus size: 18
72216 ACAATATTCG
72226 TAGTAATCTTATTC-TA-
1 TAGTAATCTTATTCTTAC
72242 TAGTAATCTTACATTCTTAC
1 TAGTAATCTT--ATTCTTAC
72262 TAGTAATCTTA
1 TAGTAATCTTA
72273 CATTCTGTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
16 10 0.37
18 5 0.19
19 2 0.07
20 10 0.37
ACGTcount: A:0.32, C:0.15, G:0.06, T:0.47
Consensus pattern (18 bp):
TAGTAATCTTATTCTTAC
Found at i:72267 original size:20 final size:19
Alignment explanation
Indices: 72226--72278 Score: 76
Period size: 20 Copynumber: 2.9 Consensus size: 19
72216 ACAATATTCG
72226 TAGTAATCTT--ATTC-TA
1 TAGTAATCTTACATTCTTA
72242 TAGTAATCTTACATTCTTA
1 TAGTAATCTTACATTCTTA
72261 CTAGTAATCTTACATTCT
1 -TAGTAATCTTACATTCT
72279 GTGAACCAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
16 10 0.30
18 4 0.12
19 2 0.06
20 17 0.52
ACGTcount: A:0.30, C:0.17, G:0.06, T:0.47
Consensus pattern (19 bp):
TAGTAATCTTACATTCTTA
Found at i:73371 original size:45 final size:45
Alignment explanation
Indices: 73317--73505 Score: 227
Period size: 45 Copynumber: 4.0 Consensus size: 45
73307 TAATAAGGTT
73317 ATTTATTTTAAAATAATTTATTATAAAATAATTTATTTTAAAATA
1 ATTTATTTTAAAATAATTTATTATAAAATAATTTATTTTAAAATA
* *
73362 ATTTATTTTAAAATAATTTATTATAAAATAATTTAGTATAAAATA
1 ATTTATTTTAAAATAATTTATTATAAAATAATTTATTTTAAAATA
* *
73407 ATTTACTTTAAAATAAATTATTATAAAATATGGATTGATTTATTTTAAAATA
1 ATTTATTTTAAAATAATTTATTAT-AAA-AT--A---ATTTATTTTAAAATA
* *
73459 ATTTATTTT-AAATAATTTATTAGTATGAATTGATTTATTTTAAAATA
1 ATTTATTTTAAAATAATTTATTA-TA--AAATAATTTATTTTAAAATA
73506 TGGATTGATT
Statistics
Matches: 124, Mismatches: 10, Indels: 18
0.82 0.07 0.12
Matches are distributed among these distances:
45 65 0.52
46 3 0.02
47 17 0.14
49 1 0.01
51 13 0.10
52 23 0.19
53 2 0.02
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.49
Consensus pattern (45 bp):
ATTTATTTTAAAATAATTTATTATAAAATAATTTATTTTAAAATA
Found at i:73473 original size:14 final size:15
Alignment explanation
Indices: 73317--73479 Score: 193
Period size: 15 Copynumber: 10.5 Consensus size: 15
73307 TAATAAGGTT
73317 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
73332 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
73347 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
73362 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
73377 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
* *
73392 ATTTAGTATAAAATA
1 ATTTATTTTAAAATA
*
73407 ATTTACTTTAAAATA
1 ATTTATTTTAAAATA
* *
73422 AATTATTATAAAATATGGA
1 ATTTATT-TTAAA-AT--A
73441 TTGATTTATTTTAAAATA
1 ---ATTTATTTTAAAATA
73459 ATTTATTTT-AAATA
1 ATTTATTTTAAAATA
73473 ATTTATT
1 ATTTATT
73480 AGTATGAATT
Statistics
Matches: 130, Mismatches: 11, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
14 12 0.09
15 98 0.75
16 4 0.03
17 2 0.02
18 1 0.01
19 1 0.01
20 2 0.02
21 4 0.03
22 6 0.05
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.50
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:73498 original size:22 final size:22
Alignment explanation
Indices: 73482--73524 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
73472 AATTTATTAG
73482 TATGAATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
*
73504 TATGGATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
73525 TAATTTATTA
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:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:73498 original size:32 final size:32
Alignment explanation
Indices: 73459--73588 Score: 181
Period size: 32 Copynumber: 4.4 Consensus size: 32
73449 TTTTAAAATA
*
73459 ATTTATTTTAAATAATTTATTAGTATGAATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
73491 ATTTA-TTT---TAA---A--A-TATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
73513 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
73545 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
73577 ATTTATTTTAAA
1 ATTTATTTTAAA
73589 ATATGGATTG
Statistics
Matches: 87, Mismatches: 1, Indels: 20
0.81 0.01 0.19
Matches are distributed among these distances:
22 13 0.15
23 4 0.05
25 1 0.01
26 3 0.03
28 3 0.03
29 1 0.01
31 4 0.05
32 58 0.67
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (32 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTG
Found at i:73524 original size:54 final size:54
Alignment explanation
Indices: 73459--74509 Score: 526
Period size: 54 Copynumber: 19.4 Consensus size: 54
73449 TTTTAAAATA
*
73459 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
**
73513 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AAATAATTTATTAG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAAT-ATGGATT-G
** * ** * * * ** * *
73568 TATGGA-TTGATTTATTTTA-AAATATGGATTGATTTATTATT-GTATTTGTATGAGTTT
1 -ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATT-TTAAAATATG---GA-TTG
**
73625 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATATATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* *
73679 ATTTATTTTAAATAATTTATTAATATGGATTGATTTATTTCAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
73733 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* *
73787 ATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTT-AAATA---ATTT
1 ATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAATATGGATTG
* * * * * *
73831 A-TTAGTATCAATTGATTTATTTTAAAATATGGATTGATTTATTTT-AAATA---ATTT
1 ATTTA-TTTTAAATAATTTA--TT--AGTATGGATTGATTTATTTTAAAATATGGATTG
* * * * * *
73885 ATTAATATGAATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTA--TT--AGTATGGATTGATTTATTTTAAAATATGGATTG
* * * * *
73943 ATTTGTTTTAAATAATTTATTTGTATGGATTGATTTATTTAAATAATTTATTTGTATGG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAA-AA--TA--TGGATTG
* * * ***
74002 ATTGA-TTT--AT--TTTA-AAATATGGATTGATTTATTATTGTAGTTGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTA-T-TT-TA-AAATATGGATTG
*
74054 ATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* * **
74108 ATTTA--TT--AT--TGTAGTT-GTATGTATTGATTTATTTT-AAATAATTTATTAG
1 ATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAAT-ATGGATT-G
** * ** * * * **
74157 TATGGA-TTGATTTATTTTA-AAATATGGATTGATTTATTTT-AAATAATTTATTAG
1 -ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAAT-ATGGATT-G
* * ** * * * *
74211 TATGTA-TTGATTTATTTTA-AAATATGAATTGATTTATTTTAAATAATTTATTAGTATAGATTG
1 -ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AA-AA--TA-T-G----GATTG
* *
74274 ATTTATTTTAAATAATTTATTTGTATAGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* * **
74328 GTTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTT-AAATAATTTATTAG
1 ATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAAT-ATGGATT-G
** * ** * * * ***
74377 TATGGA-TTGATTTATTTTA-AAATATGGATTGATTTATTATTGTAGTTGTATGGATTG
1 -ATTTATTTTAAATAATTTATTAGTATGGATTGATTTA-T-TT-TA-AAATATGGATTG
*
74434 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATCGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
74488 ATTTATTTTAAATAATTTATTA
1 ATTTATTTTAAATAATTTATTA
74510 TTGTAGTTGT
Statistics
Matches: 783, Mismatches: 131, Indels: 166
0.73 0.12 0.15
Matches are distributed among these distances:
43 3 0.00
44 4 0.01
46 1 0.00
47 13 0.02
48 76 0.10
49 8 0.01
50 14 0.02
51 4 0.01
52 15 0.02
53 23 0.03
54 401 0.51
55 39 0.05
56 21 0.03
57 33 0.04
58 77 0.10
59 12 0.02
60 2 0.00
62 6 0.01
63 12 0.02
64 19 0.02
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (54 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
Found at i:73657 original size:80 final size:80
Alignment explanation
Indices: 73459--74494 Score: 713
Period size: 80 Copynumber: 12.8 Consensus size: 80
73449 TTTTAAAATA
*
73459 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTA---T--
* *
73524 ATAATTTATTAGTATGGATTG
61 -TGATTTATTTGTATGGATTG
73545 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATT-ATT
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTGATT
*
73609 GTATTTGTAT-GAGTTT
66 -TATTTGTATGGA-TTG
**
73625 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATATATTGATTTATTTTAA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTA---T--
* **
73690 ATAATTTATTAATATGGATTG
61 -TGATTTATTTGTATGGATTG
* ** **
73711 ATTTA-TTT---CAA---A--A-TATGGATTGATTTATTTT-AAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAAT-ATGGATT-G-ATTTATTG
*
73765 ATTTATTTTAAAATATGGATTG
63 ATTTA-TTT---GTATGGATTG
* ** **
73787 ATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTT-AAATAATTTATTAGTATCAATT
1 ATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAAT-ATGGATT-G-ATTTATT
*
73844 GATTTATTTTAAAATATGGATTG
62 GATTTA-TTT---GTATGGATTG
* *
73867 ATTTATTTTAAATAATTTATTAATATGAATTGATTTATTTTAAAATATGGATTGATTTA-T--TT
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTGATT
***
73929 TA-AAATATGGATTG
66 TATTTGTATGGATTG
* * ** **
73943 ATTTGTTTTAAATAATTTATTTGTATGGATTGATTTA-TTT-AAATAATTTATTTGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAAT-ATGGA-TTG-ATTTATTG
*
74006 ATTTATTTTAAAATATGGATTG
63 ATTTA-TTT---GTATGGATTG
* ** *
74028 ATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTT-AAATAATTTATTAGTATGTATT
1 ATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAAT-ATGGATT-G-ATTTATT
*
74085 GATTTATTTTAAAATATGGATTG
62 GATTTA-TTT---GTATGGATTG
* * ** **
74108 ATTTA--TT--AT--TGTAGTT-GTATGTATTGATTTATTTT-AAATAATTTATTAGTATGGATT
1 ATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAAT-ATGGATT-G-ATTTATT
*
74165 GATTTATTTTAAAATATGGATTG
62 GATTTA-TTT---GTATGGATTG
* *
74188 ATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTTAAAATATGAATTGATTTATTTTAA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTA---T--
* * *
74253 ATAATTTATTAGTATAGATTG
61 -TGATTTATTTGTATGGATTG
* * *
74274 ATTTATTTTAAATAATTTATTTGTATAGATTGATTTATTTTAAAATATGGATTGGTTTATT-ATT
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTGATT
*
74338 GTAGTTGTATGGATTG
66 -TATTTGTATGGATTG
74354 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATT-ATT
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTGATT
*
74418 GTAGTTGTATGGATTG
66 -TATTTGTATGGATTG
*
74434 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATCGATTGATTTATT
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATT
74495 TTAAATAATT
Statistics
Matches: 826, Mismatches: 62, Indels: 130
0.81 0.06 0.13
Matches are distributed among these distances:
72 6 0.01
73 2 0.00
74 4 0.00
75 13 0.02
76 85 0.10
77 6 0.01
78 4 0.00
79 29 0.04
80 417 0.50
81 6 0.01
82 6 0.01
83 6 0.01
84 10 0.01
85 23 0.03
86 187 0.23
87 14 0.02
89 2 0.00
90 6 0.01
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (80 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTGATT
TATTTGTATGGATTG
Found at i:73690 original size:134 final size:131
Alignment explanation
Indices: 73541--74509 Score: 660
Period size: 134 Copynumber: 7.2 Consensus size: 131
73531 ATTAGTATGG
73541 ATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATT
1 ATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATT
* * * * * *
73606 ATTGTATTTGTATGAGT-T-TATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA
66 ATTATAATT-TATTAGTATGGATTGA-TTT--AT-ATTTATTAATATGGATTGATTTATTTTAAA
73669 ATATAT
126 ATATAT
* *
73675 ATTGATTTATTTTAAATAATTTATTAATATGGATTGATTTATTTCAAAATATGGATTGATTTATT
1 ATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATT
* * **
73740 -TTAAATAATTTATTAGTATGGATTGATTTAT-TTTA-AAATATGGATTGATTTATTATTGTAGT
66 ATT--ATAATTTATTAGTATGGATTGATTTATATTTATTAATATGGATTGATTTATT-TT-AAAA
*
73802 TGTAT
127 TATAT
**
73807 GGATTGATTTATTTTAAATAATTTATTAGTATCAATTGATTTATTTTAAAATATGGATTGATTTA
1 --ATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTA
* * *
73872 TT-TTAAATAATTTATTAATATGAATTGATTTAT-TTTA-AAATATGGATTGATTTATTTTAAAA
64 TTATT--ATAATTTATTAGTATGGATTGATTTATATTTATTAATATGGATTGATTTATTTTAAAA
**
73934 TATGG
127 TATAT
* * ** **
73939 ATTGATTTGTTTTAAATAATTTATTTGTATGGATTGATTTA-TTT-AAATAATTTATTTGTATGG
1 ATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAAT-ATGGA-TTG-ATTT
* * * *
74002 ATTGATT-TATTTTA-AAATATGGATTGATTTATTATTGTAGTT-GTATGGATTGATTTATTTT-
63 ATT-ATTATAATTTATTAGTATGGATTGATTTA-TATT-TA-TTAATATGGATTGATTTATTTTA
*
74063 AAATAATTT
124 AAAT-ATAT
* * ** * * * *** *
74072 ATTAGTATGTA-TTGATTTATTTTA-AAATATGGATTGATTTATTATTGTAGTTGTATGTATTGA
1 ATT-G-ATTTATTTTAAATAATTTATTAGTATGGATTGATTTA-T-TT-TA-AAATATGGATTGA
*
74135 TTTATT-TTAAATAATTTATTAGTATGGATTGATTTAT-TTTA-AAATATGGATTGATTTATTTT
60 TTTATTATT--ATAATTTATTAGTATGGATTGATTTATATTTATTAATATGGATTGATTTATTTT
*
74197 -AAATAATTT
123 AAAAT-ATAT
* * ** * * * *
74206 ATTAGTATGTA-TTGATTTATTTTA-AAATATGAATTGATTTATTTTAAATAATTTATTAGTATA
1 ATT-G-ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AA-AA--TA-T-G----
* * * *
74269 GATTGATTTATT-TTAAATAATTTATTTGTATAGATTGATTTAT-TTTA-AAATATGGATTGGTT
54 GATTGATTTATTATT--ATAATTTATTAGTATGGATTGATTTATATTTATTAATATGGATTGATT
* ** *
74331 TATTATTGTAGTTGTAT
117 TATT-TT-AAAATATAT
74348 GGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTA
1 --ATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTA
* * * * * *
74413 TTATTGTAGTTGTA-T-GGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTA
64 TTATTATAATT-TATTAGTATGGATTGA-TTT--AT-ATTTATTAATATGGATTGATTTATTTTA
**
74476 AAATATCG
124 AAATATAT
74484 ATTGATTTATTTTAAATAATTTATTA
1 ATTGATTTATTTTAAATAATTTATTA
74510 TTGTAGTTGT
Statistics
Matches: 684, Mismatches: 94, Indels: 114
0.77 0.11 0.13
Matches are distributed among these distances:
128 4 0.01
129 21 0.03
130 64 0.09
131 14 0.02
132 25 0.04
133 54 0.08
134 303 0.44
135 18 0.03
136 17 0.02
137 17 0.02
138 36 0.05
139 2 0.00
140 64 0.09
141 2 0.00
142 8 0.01
143 14 0.02
144 21 0.03
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (131 bp):
ATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATT
ATTATAATTTATTAGTATGGATTGATTTATATTTATTAATATGGATTGATTTATTTTAAAATATA
T
Found at i:73711 original size:32 final size:32
Alignment explanation
Indices: 73675--73776 Score: 116
Period size: 32 Copynumber: 3.5 Consensus size: 32
73665 TAAAATATAT
73675 ATTGATTTATTTTAAATAATTTATTAATATGG
1 ATTGATTTATTTTAAATAATTTATTAATATGG
*
73707 ATTGATTTA--TT---TCA---A--AATATGG
1 ATTGATTTATTTTAAATAATTTATTAATATGG
*
73729 ATTGATTTATTTTAAATAATTTATTAGTATGG
1 ATTGATTTATTTTAAATAATTTATTAATATGG
73761 ATTGATTTATTTTAAA
1 ATTGATTTATTTTAAA
73777 ATATGGATTG
Statistics
Matches: 57, Mismatches: 3, Indels: 20
0.71 0.04 0.25
Matches are distributed among these distances:
22 16 0.28
24 3 0.05
27 4 0.07
30 3 0.05
32 31 0.54
ACGTcount: A:0.36, C:0.01, G:0.11, T:0.52
Consensus pattern (32 bp):
ATTGATTTATTTTAAATAATTTATTAATATGG
Found at i:73730 original size:188 final size:188
Alignment explanation
Indices: 73536--74509 Score: 832
Period size: 188 Copynumber: 5.2 Consensus size: 188
73526 AATTTATTAG
73536 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AAATATGGATTGAT
*
73601 TTATT-ATTGTATTTGTAT-GAGTTTATTTATTTTAAATAATTTATTAGTATGGATTGATTTATT
65 TTATTAATTGTATTTGTATGGA-TTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATT
*
73664 TTAAAATATATATTGATTTATTTTAAATAATTTATTAATATGGATTGATTTATTTCAAAA
129 TTAAAATATATATTGATTTATTTTAAATAATTTATTAATATGGATTGATTTATTTTAAAA
73724 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AAATATGGATTGAT
* **
73789 TTATT-ATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATCAATTGATTTATTT
65 TTATTAATTGTATTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTT
** *
73853 TAAAATATGGATTGATTTATTTTAAATAATTTATTAATATGAATTGATTTATTTTAAAA
130 TAAAATATATATTGATTTATTTTAAATAATTTATTAATATGGATTGATTTATTTTAAAA
* * * ** * * *
73912 TATGGATTGATTTATTTTAAAATATGGATTGATTTGTTTTAAATAATTTA-TTT--GTATGGATT
1 TATGGATTGATTTATTTT-AAATA---ATTTATTAGTATGGATTGATTTATTTTAAATATGGATT
* * * *
73974 GATTTATTTAAATAATTTATTTGTATGGATTGATTTATTTT-AA-AA--TA-T-GGATTGATTTA
62 GATTTA-TT-AAT--TGTATTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGA
* ** * * *
74033 -TTATTGT-AGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTTA
123 TTTATTTTAAAATATAT--ATTGATTTATTTTAAATAATTTATTAATATGGATTGATTTATTTTA
74096 AAA
186 AAA
* * **
74099 TATGGATTGATTTA--TT--AT--TGTAGTT-GTATGTATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAT-ATGGATT-G
** * * *
74157 TATGGATTGATT-TATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGTATTGA
63 -ATTTATTAATTGTA-TTT---GTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGA
* *
74221 TTTATTTTAAAATATGA-ATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTT-A
123 TTTATTTTAAAATAT-ATATTGATTTATTTTAAATAATTTATTAATATGGATTGATTTATTTTAA
74284 AA
187 AA
* * * * * * * **
74286 TA---ATTTATTT-GTATAGATTGATTTATTTTAAAATATGGATTGGTTTATTATTGTAGTTGTA
1 TATGGATTGATTTATTTTA-AATAATTTA--TT--AGTATGGATTGATTTA-T-TT-TA--AATA
* * *
74347 TGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AA-AA--TA-T-GGAT
56 TGGATTGATTTA--TT-AAT--TGTATTTGTATGGATTGATTTATTTTAAATAATTTATTAGTAT
* * * ** * *
74406 TGATTTA-TTATTGT-AGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATT
116 GGATTGATTTATTTTAAAATATAT--ATTGATTTATTTTAAATAATTTATTAATATGGATTGATT
74469 TATTTTAAAA
179 TATTTTAAAA
*
74479 TATCGATTGATTTATTTTAAATAATTTATTA
1 TATGGATTGATTTATTTTAAATAATTTATTA
74510 TTGTAGTTGT
Statistics
Matches: 639, Mismatches: 85, Indels: 120
0.76 0.10 0.14
Matches are distributed among these distances:
177 12 0.02
178 7 0.01
179 4 0.01
180 1 0.00
181 7 0.01
182 23 0.04
183 5 0.01
184 9 0.01
185 6 0.01
186 8 0.01
187 74 0.12
188 261 0.41
189 18 0.03
190 9 0.01
191 16 0.03
192 70 0.11
193 30 0.05
194 16 0.03
195 1 0.00
196 21 0.03
197 8 0.01
198 25 0.04
199 3 0.00
201 3 0.00
202 2 0.00
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (188 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATATGGATTGATT
TATTAATTGTATTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT
AAAATATATATTGATTTATTTTAAATAATTTATTAATATGGATTGATTTATTTTAAAA
Found at i:73913 original size:22 final size:22
Alignment explanation
Indices: 73888--73954 Score: 116
Period size: 22 Copynumber: 3.0 Consensus size: 22
73878 ATAATTTATT
*
73888 AATATGAATTGATTTATTTTAA
1 AATATGGATTGATTTATTTTAA
73910 AATATGGATTGATTTATTTTAA
1 AATATGGATTGATTTATTTTAA
*
73932 AATATGGATTGATTTGTTTTAA
1 AATATGGATTGATTTATTTTAA
73954 A
1 A
73955 TAATTTATTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.49
Consensus pattern (22 bp):
AATATGGATTGATTTATTTTAA
Found at i:73978 original size:18 final size:18
Alignment explanation
Indices: 73957--74013 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
73947 GTTTTAAATA
73957 ATTTATTTGTATGGATTG
1 ATTTATTTGTATGGATTG
* *
73975 ATTTA-TT-TA---AATA
1 ATTTATTTGTATGGATTG
73988 ATTTATTTGTATGGATTG
1 ATTTATTTGTATGGATTG
74006 ATTTATTT
1 ATTTATTT
74014 TAAAATATGG
Statistics
Matches: 30, Mismatches: 4, Indels: 10
0.68 0.09 0.23
Matches are distributed among these distances:
13 7 0.23
14 2 0.07
15 2 0.07
16 2 0.07
17 2 0.07
18 15 0.50
ACGTcount: A:0.28, C:0.00, G:0.14, T:0.58
Consensus pattern (18 bp):
ATTTATTTGTATGGATTG
Found at i:73984 original size:31 final size:31
Alignment explanation
Indices: 73934--74013 Score: 142
Period size: 31 Copynumber: 2.5 Consensus size: 31
73924 TATTTTAAAA
*
73934 TATGGATTGATTTGTTTTAAATAATTTATTTG
1 TATGGATTGATTT-ATTTAAATAATTTATTTG
73966 TATGGATTGATTTATTTAAATAATTTATTTG
1 TATGGATTGATTTATTTAAATAATTTATTTG
73997 TATGGATTGATTTATTT
1 TATGGATTGATTTATTT
74014 TAAAATATGG
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
31 34 0.72
32 13 0.28
ACGTcount: A:0.29, C:0.00, G:0.15, T:0.56
Consensus pattern (31 bp):
TATGGATTGATTTATTTAAATAATTTATTTG
Found at i:74093 original size:22 final size:23
Alignment explanation
Indices: 74068--74141 Score: 62
Period size: 22 Copynumber: 3.2 Consensus size: 23
74058 ATTTTAAATA
74068 ATTTAT-TAGTATGTATTGATTT
1 ATTTATATAGTATGTATTGATTT
* * *
74090 ATTT-TAAAATATGGATTGATTT
1 ATTTATATAGTATGTATTGATTT
* *
74112 ATTATTGTAGTTGTATGTATTGATTT
1 A-T-TTATA-TAGTATGTATTGATTT
74138 ATTT
1 ATTT
74142 TAAATAATTT
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
21 1 0.03
22 18 0.45
23 1 0.03
24 4 0.10
25 3 0.08
26 13 0.32
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (23 bp):
ATTTATATAGTATGTATTGATTT
Found at i:74166 original size:32 final size:32
Alignment explanation
Indices: 74124--74317 Score: 203
Period size: 32 Copynumber: 6.7 Consensus size: 32
74114 TATTGTAGTT
*
74124 GTATGTATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
74156 GTATGGATTGATTTA-TTT---TAA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
74179 -TATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
74210 GTATGTATTGATTTATTTT-AA-AA--TA-T-
1 GTATGGATTGATTTATTTTAAATAATTTATTA
74236 G-A---ATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
* *
74264 GTATAGATTGATTTATTTTAAATAATTTATTT
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
74296 GTATAGATTGATTTATTTTAAA
1 GTATGGATTGATTTATTTTAAA
74318 ATATGGATTG
Statistics
Matches: 139, Mismatches: 3, Indels: 40
0.76 0.02 0.22
Matches are distributed among these distances:
22 27 0.19
23 6 0.04
24 2 0.01
25 2 0.01
26 6 0.04
27 2 0.01
28 6 0.04
29 2 0.01
30 2 0.01
31 6 0.04
32 78 0.56
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.54
Consensus pattern (32 bp):
GTATGGATTGATTTATTTTAAATAATTTATTA
Found at i:74173 original size:22 final size:22
Alignment explanation
Indices: 74157--74199 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
74147 AATTTATTAG
74157 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
74179 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
74200 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:74227 original size:22 final size:22
Alignment explanation
Indices: 74211--74253 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
74201 AATTTATTAG
*
74211 TATGTATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
74233 TATGAATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
74254 TAATTTATTA
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:0.37, C:0.00, G:0.09, T:0.53
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:74261 original size:14 final size:14
Alignment explanation
Indices: 74242--74295 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
74232 ATATGAATTG
74242 ATTTATTTTAAATA
1 ATTTATTTTAAATA
* *
74256 ATTTATTAGTATAGATTG
1 ATTTATT--T-TA-AATA
74274 ATTTATTTTAAATA
1 ATTTATTTTAAATA
74288 ATTTATTT
1 ATTTATTT
74296 GTATAGATTG
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 17 0.53
15 2 0.06
16 2 0.06
17 2 0.06
18 9 0.28
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:74309 original size:18 final size:18
Alignment explanation
Indices: 74256--74313 Score: 70
Period size: 18 Copynumber: 3.4 Consensus size: 18
74246 ATTTTAAATA
*
74256 ATTTATTAGTATAGATTG
1 ATTTATTTGTATAGATTG
*
74274 ATTTATTT-TA-A-A-TA
1 ATTTATTTGTATAGATTG
74288 ATTTATTTGTATAGATTG
1 ATTTATTTGTATAGATTG
74306 ATTTATTT
1 ATTTATTT
74314 TAAAATATGG
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
14 9 0.27
15 3 0.09
16 2 0.06
17 3 0.09
18 16 0.48
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (18 bp):
ATTTATTTGTATAGATTG
Found at i:74322 original size:220 final size:214
Alignment explanation
Indices: 73536--74414 Score: 743
Period size: 220 Copynumber: 4.1 Consensus size: 214
73526 AATTTATTAG
*
73536 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTGAT
* * *
73601 TTATTATTGTATTTGTAT-GAGTTTATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTT
66 TTATTATTGTAGTTGTATAGA-TTGATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTT
** * * * *
73665 TAAAATATATATTGATTTATTTTAAATAATTTA-TTAATATGGATTGATTTATTTCAAA-ATATG
130 TAAAATATGGATTGATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTTAAATA-ATT
* ** * ** * * *
73728 GATT-G-ATTTATTTTAAATAATTTATTAG
187 TATTAGTATGGA-TTGATTTATTTTA-AAA
* * * * *** *
73756 TATGGATTGATTTATTTT-AA-AA--TA-T-GGATTGATTTA-TTATTGTAGTTGTATGGATTGA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTA-AAATATGAATTGA
* ** *
73814 TTTATTTTAAATAATTTA-TTAGTATCA-ATTGATTTATTTTAAA-ATATGGATT-G-ATTTATT
65 TTTA--TT--AT--TGTAGTT-GTAT-AGATTGATTTATTTTAAATA-ATTTATTAGTATGTA-T
* ** * * * ***
73874 TTAAATAATTTATTAATATGAATTGATTTA-T-TT-TA-AAATATGGATTGATTTATTTTAAAAT
120 TGATTTATTTTA-AAATATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTT-AAAT
* * * ** * * *
73935 ATGGATTGATTTGTTTTAAATAATTTA-TTT---G
183 A---ATTTATTAGTATGGATTGATTTATTTTAAAA
* *
73966 TATGGATTGATTTA-TTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTGAT
*
74030 TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTT
66 TTATTATTGTAGTTGTATAGATTGATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTT
*
74095 AAAATATGGATTGATTTATTATTGTAGTTGTATGTATTGATTTATTTTAAATAATTTATTAGTAT
131 AAAATATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTAT
74160 GGATTGATTTATTTTAAAA
196 GGATTGATTTATTTTAAAA
*
74179 TATGGATTGATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTTAAAATATGAATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTGAT
* *
74244 TTATTTTAAATAATTTA-TTAGTATAGATTGATTTATTTTAAATAATTTATTTGTATAG-ATTGA
66 TTA--TT--AT--TGTAGTT-GTATAGATTGATTTATTTTAAATAATTTATTAGTAT-GTATTGA
*
74307 TTTATTTTAAAATATGGATTGGTTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTT
123 TTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTT
74372 ATTAGTATGGATTGATTTATTTTAAAA
188 ATTAGTATGGATTGATTTATTTTAAAA
74399 TATGGATTGATTTATT
1 TATGGATTGATTTATT
74415 ATTGTAGTTG
Statistics
Matches: 542, Mismatches: 69, Indels: 96
0.77 0.10 0.14
Matches are distributed among these distances:
209 62 0.11
210 52 0.10
211 15 0.03
212 9 0.02
213 42 0.08
214 83 0.15
215 28 0.05
216 16 0.03
217 1 0.00
218 9 0.02
219 17 0.03
220 206 0.38
221 2 0.00
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (214 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTGAT
TTATTATTGTAGTTGTATAGATTGATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTT
AAAATATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTAT
GGATTGATTTATTTTAAAA
Found at i:74391 original size:18 final size:18
Alignment explanation
Indices: 74368--74415 Score: 51
Period size: 22 Copynumber: 2.4 Consensus size: 18
74358 ATTTTAAATA
*
74368 ATTTATTAGTATGGATTG
1 ATTTATTAATATGGATTG
74386 ATTTATTTTAAAATATGGATTG
1 ATTTA--TT--AATATGGATTG
74408 ATTTATTA
1 ATTTATTA
74416 TTGTAGTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
18 6 0.24
20 4 0.16
22 15 0.60
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (18 bp):
ATTTATTAATATGGATTG
Found at i:74559 original size:31 final size:31
Alignment explanation
Indices: 74524--74582 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
74514 AGTTGTATGG
* *
74524 ATTATTTAAATTTCAGTATTGTAAAACTAAA
1 ATTATTTAAATCTCAGTATTGCAAAACTAAA
74555 ATTATTTAAATCTCAGTATTGCAAAACT
1 ATTATTTAAATCTCAGTATTGCAAAACT
74583 CTTTTAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (31 bp):
ATTATTTAAATCTCAGTATTGCAAAACTAAA
Found at i:75648 original size:30 final size:30
Alignment explanation
Indices: 75562--75655 Score: 118
Period size: 30 Copynumber: 3.1 Consensus size: 30
75552 AAATAAAACG
* *
75562 CTCTCACCCCGTAAACATTCACACAACAATC
1 CTCTCAACCCGTAAACA-TCACACGACAATC
* *
75593 CTCTCAA-CCGAAAACATCACACGACAATT
1 CTCTCAACCCGTAAACATCACACGACAATC
* *
75622 CTCTCAACCCGTAAATATCACCCGACAATC
1 CTCTCAACCCGTAAACATCACACGACAATC
75652 CTCT
1 CTCT
75656 TATCTTTGAT
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
29 18 0.33
30 30 0.56
31 6 0.11
ACGTcount: A:0.35, C:0.39, G:0.05, T:0.20
Consensus pattern (30 bp):
CTCTCAACCCGTAAACATCACACGACAATC
Found at i:80887 original size:21 final size:21
Alignment explanation
Indices: 80861--80905 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
80851 GATTTCTGGG
* *
80861 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
80882 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
80903 CAA
1 CAA
80906 ACGACAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:81263 original size:24 final size:22
Alignment explanation
Indices: 81235--81294 Score: 68
Period size: 24 Copynumber: 2.6 Consensus size: 22
81225 CCTATGTTTA
81235 ATGCATGAATATATTTATATGTAT
1 ATGCATGAATATATTTATATG--T
*
81259 ATGCATGACATA-ATTTGTATGT
1 ATGCATGA-ATATATTTATATGT
*
81281 ATGCATGATTATAT
1 ATGCATGAATATAT
81295 GTTTAACATG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
21 2 0.06
22 11 0.34
24 16 0.50
25 3 0.09
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.43
Consensus pattern (22 bp):
ATGCATGAATATATTTATATGT
Found at i:82010 original size:31 final size:31
Alignment explanation
Indices: 81952--82029 Score: 79
Period size: 31 Copynumber: 2.5 Consensus size: 31
81942 AGAGTCGAGG
*
81952 GTTTACCTATGTCTTTCGAGACATATGGAAA
1 GTTTACCTAGGTCTTTCGAGACATATGGAAA
* * *
81983 GTTTACCTAGGT-TCTTCGGGACCTATGGACA
1 GTTTACCTAGGTCT-TTCGAGACATATGGAAA
*
82014 G-TTACCGAGGATCTTT
1 GTTTACCTAGG-TCTTT
82030 ATGACCTCTG
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
30 9 0.23
31 29 0.74
32 1 0.03
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (31 bp):
GTTTACCTAGGTCTTTCGAGACATATGGAAA
Found at i:82036 original size:30 final size:30
Alignment explanation
Indices: 82002--82220 Score: 404
Period size: 30 Copynumber: 7.3 Consensus size: 30
81992 GGTTCTTCGG
*
82002 GACCTATGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
82032 GACCTCTGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
82062 GACCTCTGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
82092 GACCTCTGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
82122 GACCTCTGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
82152 GACCTCTGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
* *
82182 GACCTCTGGACAGTTACCG-GGGTCTTTGT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
82211 GACCTCTGGA
1 GACCTCTGGA
82221 TAGGTCCTTC
Statistics
Matches: 186, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
29 18 0.10
30 168 0.90
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.30
Consensus pattern (30 bp):
GACCTCTGGACAGTTACCGAGGATCTTTAT
Found at i:85770 original size:21 final size:22
Alignment explanation
Indices: 85744--85790 Score: 87
Period size: 21 Copynumber: 2.2 Consensus size: 22
85734 ATGAGCATTA
85744 TGGGGGAGCTCTCA-TTTTTCT
1 TGGGGGAGCTCTCATTTTTTCT
85765 TGGGGGAGCTCTCATTTTTTCT
1 TGGGGGAGCTCTCATTTTTTCT
85787 TGGG
1 TGGG
85791 ACTCCAAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 14 0.56
22 11 0.44
ACGTcount: A:0.09, C:0.17, G:0.32, T:0.43
Consensus pattern (22 bp):
TGGGGGAGCTCTCATTTTTTCT
Found at i:86951 original size:44 final size:44
Alignment explanation
Indices: 86877--86976 Score: 128
Period size: 44 Copynumber: 2.3 Consensus size: 44
86867 TTTTGCTTTG
* ** * *
86877 TGCATCGATACACTATGAAAGTGTATCGATGTATCCCTTGAATA
1 TGCATCGATACAATATGAAAGTACACCGATGCATCCCTTGAATA
* * *
86921 TGCATCGATACAATATGAAGGTACACCGATGCATTCCTTGAATT
1 TGCATCGATACAATATGAAAGTACACCGATGCATCCCTTGAATA
86965 TGCATCGATACA
1 TGCATCGATACA
86977 CTAAGCAGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (44 bp):
TGCATCGATACAATATGAAAGTACACCGATGCATCCCTTGAATA
Found at i:87420 original size:17 final size:18
Alignment explanation
Indices: 87385--87421 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
87375 CGAAATAATT
*
87385 TTTTTGTTTTAATTGATG
1 TTTTTGATTTAATTGATG
87403 TTTTTGATTTAATT-ATG
1 TTTTTGATTTAATTGATG
87420 TT
1 TT
87422 GTTTTTCGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.19, C:0.00, G:0.14, T:0.68
Consensus pattern (18 bp):
TTTTTGATTTAATTGATG
Found at i:88857 original size:36 final size:38
Alignment explanation
Indices: 88810--88896 Score: 133
Period size: 36 Copynumber: 2.3 Consensus size: 38
88800 AGATATGGCT
*
88810 AATATATGGTTTGAATTGTTTGTTTTG-A-ATATTTTG
1 AATATTTGGTTTGAATTGTTTGTTTTGAATATATTTTG
*
88846 AATATTTGGTTTGGATTGTTTGTTTTGAATATATTTTG
1 AATATTTGGTTTGAATTGTTTGTTTTGAATATATTTTG
*
88884 GATATTTGGTTTG
1 AATATTTGGTTTG
88897 TTTGAATGAT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
36 25 0.54
37 1 0.02
38 20 0.43
ACGTcount: A:0.22, C:0.00, G:0.22, T:0.56
Consensus pattern (38 bp):
AATATTTGGTTTGAATTGTTTGTTTTGAATATATTTTG
Found at i:88895 original size:25 final size:26
Alignment explanation
Indices: 88841--88895 Score: 60
Period size: 25 Copynumber: 2.1 Consensus size: 26
88831 GTTTTGAATA
* *
88841 TTTTGAATATTTGGTTTGGATTGTTTG
1 TTTTGAATATAT-GTTTGGATTGTTGG
88868 TTTTGAATATAT-TTTGGATAT-TTGG
1 TTTTGAATATATGTTTGGAT-TGTTGG
88893 TTT
1 TTT
88896 GTTTGAATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
25 13 0.52
26 1 0.04
27 11 0.44
ACGTcount: A:0.18, C:0.00, G:0.22, T:0.60
Consensus pattern (26 bp):
TTTTGAATATATGTTTGGATTGTTGG
Found at i:89633 original size:19 final size:19
Alignment explanation
Indices: 89605--89656 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
89595 AATACATTTT
*
89605 ATGTACCGATGCACAGACC
1 ATGTATCGATGCACAGACC
89624 ATGTATCGATGCACAGACC
1 ATGTATCGATGCACAGACC
*
89643 ATGCATCGATGCAC
1 ATGTATCGATGCAC
89657 TCCTGGCTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.31, C:0.29, G:0.21, T:0.19
Consensus pattern (19 bp):
ATGTATCGATGCACAGACC
Found at i:89651 original size:84 final size:83
Alignment explanation
Indices: 89542--89702 Score: 225
Period size: 84 Copynumber: 1.9 Consensus size: 83
89532 ATGCATTTTG
*
89542 TGTACCGATGCACAGCCATGCATCGATGCACTCCT-GATTTTATTAAAACATCGAATACATTTTA
1 TGTACCGATGCACAGCCATGCATCGATGCACTCCTGGATCTT-TTAAAACATCGAATACATTTTA
*
89606 TGTACCGATGCACAGACCA
65 TGTACCAATGCACAGACCA
* * * ** *
89625 TGTATCGATGCACAGACCATGCATCGATGCACTCCTGGCTCTTTTGAAACATCGAATGTATTTTG
1 TGTACCGATGCACAG-CCATGCATCGATGCACTCCTGGATCTTTTAAAACATCGAATACATTTTA
89690 TGTACCAATGCAC
65 TGTACCAATGCAC
89703 CCTATGTGTA
Statistics
Matches: 68, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
83 14 0.21
84 50 0.74
85 4 0.06
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (83 bp):
TGTACCGATGCACAGCCATGCATCGATGCACTCCTGGATCTTTTAAAACATCGAATACATTTTAT
GTACCAATGCACAGACCA
Found at i:89713 original size:84 final size:83
Alignment explanation
Indices: 89540--89721 Score: 219
Period size: 84 Copynumber: 2.2 Consensus size: 83
89530 GAATGCATTT
* *
89540 TGTGTACCGATGCACAGCCATGCATCGATGCACTCCTGATTTTATTAAAACATCGAATACATTTT
1 TGTGTATCGATGCACAGCCATGCATCGATGCACTCCTGATCTTATTAAAACATCGAATACATTTT
*
89605 ATGTACCGATGCACAGACCA
66 ATGTACCAATGCAC--ACCA
* * **
89625 --TGTATCGATGCACAGACCATGCATCGATGCACTCCTGGCTCTT-TTGAAACATCGAATGTATT
1 TGTGTATCGATGCACAG-CCATGCATCGATGCACTCCT-GATCTTATTAAAACATCGAATACATT
*
89687 TTGTGTACCAATGCAC-CCTA
64 TTATGTACCAATGCACACC-A
89707 TGTGTATCGATGCAC
1 TGTGTATCGATGCAC
89722 TAGGTCTTAT
Statistics
Matches: 84, Mismatches: 8, Indels: 11
0.82 0.08 0.11
Matches are distributed among these distances:
81 2 0.02
82 1 0.01
83 14 0.17
84 63 0.75
85 4 0.05
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (83 bp):
TGTGTATCGATGCACAGCCATGCATCGATGCACTCCTGATCTTATTAAAACATCGAATACATTTT
ATGTACCAATGCACACCA
Found at i:94002 original size:24 final size:25
Alignment explanation
Indices: 93957--94036 Score: 79
Period size: 29 Copynumber: 2.9 Consensus size: 25
93947 TTATAACTAC
93957 AAAAAAATTAAATAAATAAAATACT
1 AAAAAAATTAAATAAATAAAATACT
*
93982 AAAAAATTTAAATAATTAAATAAAATACT
1 AAAAAAATT--A-AA-TAAATAAAATACT
*
94011 AACAAAATTTTAAATAGAATAAAATA
1 AA-AAAA-ATTAAATA-AATAAAATA
94037 TACCTTATAA
Statistics
Matches: 47, Mismatches: 1, Indels: 11
0.80 0.02 0.19
Matches are distributed among these distances:
25 8 0.17
27 3 0.06
28 13 0.28
29 16 0.34
30 4 0.09
31 3 0.06
ACGTcount: A:0.68, C:0.04, G:0.01, T:0.28
Consensus pattern (25 bp):
AAAAAAATTAAATAAATAAAATACT
Found at i:94005 original size:29 final size:31
Alignment explanation
Indices: 93969--94026 Score: 102
Period size: 29 Copynumber: 1.9 Consensus size: 31
93959 AAAAATTAAA
93969 TAAATAAAATACTAA-AAAA-TTTAAATAAT
1 TAAATAAAATACTAACAAAATTTTAAATAAT
93998 TAAATAAAATACTAACAAAATTTTAAATA
1 TAAATAAAATACTAACAAAATTTTAAATA
94027 GAATAAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 15 0.56
30 4 0.15
31 8 0.30
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (31 bp):
TAAATAAAATACTAACAAAATTTTAAATAAT
Found at i:100386 original size:87 final size:88
Alignment explanation
Indices: 100236--100406 Score: 247
Period size: 87 Copynumber: 2.0 Consensus size: 88
100226 ACTTGAGAGC
* * * *
100236 TTGAGTTTTATACTTTTAATGAATTCATAGCCCAAGATTTGGGTGGTCCTAGTGAGACGGACTTG
1 TTGAGTTTTATACTCTTAATGAATTCATAGCCCAAGATTTGAGTAGTCCTAGTGAGACAGACTTG
*
100301 ATGGATACACC-AATTTATGATG
66 ATGAATACACCGAATTTATGATG
* *
100323 TTGAGTTTTATACTCTTAATG-ATTCATAGCCTAAGTTTATGAGTAGTCCTAGTGAGACAGACTT
1 TTGAGTTTTATACTCTTAATGAATTCATAGCCCAAGATT-TGAGTAGTCCTAGTGAGACAGACTT
*
100387 GATGAATTCACCGAATTTAT
65 GATGAATACACCGAATTTAT
100407 AAAATGAGAG
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
86 15 0.20
87 52 0.70
88 7 0.09
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (88 bp):
TTGAGTTTTATACTCTTAATGAATTCATAGCCCAAGATTTGAGTAGTCCTAGTGAGACAGACTTG
ATGAATACACCGAATTTATGATG
Found at i:103011 original size:2 final size:2
Alignment explanation
Indices: 103004--103042 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
102994 TTAAAATGTA
103004 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
103043 ATAATGTTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:109041 original size:11 final size:11
Alignment explanation
Indices: 108996--109044 Score: 50
Period size: 11 Copynumber: 4.6 Consensus size: 11
108986 TAAAACTATA
108996 TATTTTATTCT
1 TATTTTATTCT
*
109007 TATCTT-TTCT
1 TATTTTATTCT
*
109017 TA-ATTATT-T
1 TATTTTATTCT
109026 ATATTTTATTCT
1 -TATTTTATTCT
109038 TATTTTA
1 TATTTTA
109045 ACTTATAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
9 3 0.10
10 10 0.32
11 17 0.55
12 1 0.03
ACGTcount: A:0.22, C:0.08, G:0.00, T:0.69
Consensus pattern (11 bp):
TATTTTATTCT
Found at i:109079 original size:19 final size:18
Alignment explanation
Indices: 109037--109079 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
109027 TATTTTATTC
109037 TTATTTTAACTTATAAAA
1 TTATTTTAACTTATAAAA
* *
109055 TATATTTTAATTTTTTAAAA
1 T-TATTTTAA-CTTATAAAA
109075 TTATT
1 TTATT
109080 CTTATAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 1 0.05
19 12 0.57
20 8 0.38
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (18 bp):
TTATTTTAACTTATAAAA
Found at i:109158 original size:52 final size:52
Alignment explanation
Indices: 109098--109207 Score: 125
Period size: 52 Copynumber: 2.1 Consensus size: 52
109088 ATTTCAATTT
* *
109098 ATAAATATAAAAATTAAAACAA-AACAAAATATATTTTTAAATTAAAATAA-A
1 ATAAATAT-AAAATAAAAACAAGAACAAAATATATGTTTAAATTAAAATAAGA
* * * **
109149 ATAATATATATAATAAAAATAAGAATAAAATATATGTTTATGTTAAAATAAGA
1 ATAA-ATATAAAATAAAAACAAGAACAAAATATATGTTTAAATTAAAATAAGA
109202 ATAAAT
1 ATAAAT
109208 TATATTTAAT
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
51 14 0.29
52 30 0.61
53 5 0.10
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.32
Consensus pattern (52 bp):
ATAAATATAAAATAAAAACAAGAACAAAATATATGTTTAAATTAAAATAAGA
Found at i:109177 original size:29 final size:29
Alignment explanation
Indices: 109143--109212 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
109133 TTTAAATTAA
109143 AATAAAATA-ATATATATAATAAAAATAAG
1 AATAAAATATATATATAT-ATAAAAATAAG
* * * *
109172 AATAAAATATATGTTTATGTTAAAATAAG
1 AATAAAATATATATATATATAAAAATAAG
*
109201 AATAAATTATAT
1 AATAAAATATAT
109213 TTAATAATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
29 29 0.83
30 6 0.17
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (29 bp):
AATAAAATATATATATATATAAAAATAAG
Found at i:109180 original size:17 final size:18
Alignment explanation
Indices: 109140--109180 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
109130 ATTTTTAAAT
*
109140 TAAAAT-AAAATAATATA
1 TAAAATAAAAATAAGATA
*
109157 TATAATAAAAATAAGA-A
1 TAAAATAAAAATAAGATA
109174 TAAAATA
1 TAAAATA
109181 TATGTTTATG
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (18 bp):
TAAAATAAAAATAAGATA
Found at i:109300 original size:30 final size:30
Alignment explanation
Indices: 109134--109300 Score: 126
Period size: 30 Copynumber: 5.7 Consensus size: 30
109124 AAATATATTT
* *
109134 TTAAATTAA-AATAAAATA-ATATATATAA-
1 TTAAAATAAGAATAAAATATATGTA-ATAAG
* * *
109162 TAAAAATAAGAATAAAATATATGT-TTATG
1 TTAAAATAAGAATAAAATATATGTAATAAG
* * *
109191 TTAAAATAAGAATAAATTATATTTAATAAT
1 TTAAAATAAGAATAAAATATATGTAATAAG
** * * * *
109221 TTAAGGTAAGACTAGAATATATTTAATAAT
1 TTAAAATAAGAATAAAATATATGTAATAAG
*** *
109251 TTAGTTTAAGAATATAATATATGTAATAAG
1 TTAAAATAAGAATAAAATATATGTAATAAG
*
109281 TTAAAATAAAAATAAAATAT
1 TTAAAATAAGAATAAAATAT
109301 TATTTTAGGT
Statistics
Matches: 107, Mismatches: 28, Indels: 6
0.76 0.20 0.04
Matches are distributed among these distances:
28 9 0.08
29 30 0.28
30 68 0.64
ACGTcount: A:0.56, C:0.01, G:0.07, T:0.37
Consensus pattern (30 bp):
TTAAAATAAGAATAAAATATATGTAATAAG
Found at i:109744 original size:13 final size:14
Alignment explanation
Indices: 109728--109761 Score: 52
Period size: 13 Copynumber: 2.4 Consensus size: 14
109718 TTGTTAGGTT
109728 TTAATTGAA-TAAA
1 TTAATTGAATTAAA
109741 TTAATTGAATTAAA
1 TTAATTGAATTAAA
109755 TTCAATT
1 TT-AATT
109762 TGATTAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.47
14 6 0.32
15 4 0.21
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (14 bp):
TTAATTGAATTAAA
Found at i:110775 original size:20 final size:21
Alignment explanation
Indices: 110750--110842 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
110740 TTTTCCCAAT
*
110750 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
110770 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
110791 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
110811 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
110832 TCGCAATGCGA
1 TCGCAATGCGA
110843 TATTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:110793 original size:21 final size:21
Alignment explanation
Indices: 110767--110847 Score: 101
Period size: 21 Copynumber: 3.9 Consensus size: 21
110757 GCGAATAAGT
110767 AAATCGCAACGCGAATTGGGA
1 AAATCGCAACGCGAATTGGGA
* ** *
110788 AAATCGCAATGCGAA-TAAGT
1 AAATCGCAACGCGAATTGGGA
110808 AAATCGCAACGCGAATTGGGA
1 AAATCGCAACGCGAATTGGGA
*
110829 AAATCGCAATGCGATATTG
1 AAATCGCAACGCGA-ATTG
110848 ACTATCGCAA
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
20 16 0.33
21 29 0.59
22 4 0.08
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.19
Consensus pattern (21 bp):
AAATCGCAACGCGAATTGGGA
Found at i:110856 original size:20 final size:19
Alignment explanation
Indices: 110831--110965 Score: 74
Period size: 20 Copynumber: 6.7 Consensus size: 19
110821 AATTGGGAAA
*
110831 ATCGCAATGCGATATTGACT
1 ATCGCAACGCGATATT-ACT
* * * *
110851 ATCGCAATGTGATAATACAAA
1 ATCGCAACGCGATATTAC--T
*
110872 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATA-TTACT
* *
110892 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATA-TTACT
*
110912 TTCGCAACGCGAT-TCTGACT
1 ATCGCAACGCGATAT-T-ACT
* *
110932 TTCGCAACGCGATAATACAT
1 ATCGCAACGCGATATTAC-T
*
110952 AATCGCAATGCGAT
1 -ATCGCAACGCGAT
110966 TTTCAAAGCG
Statistics
Matches: 93, Mismatches: 14, Indels: 15
0.76 0.11 0.12
Matches are distributed among these distances:
18 1 0.01
19 4 0.04
20 62 0.67
21 23 0.25
22 3 0.03
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.26
Consensus pattern (19 bp):
ATCGCAACGCGATATTACT
Found at i:110857 original size:41 final size:41
Alignment explanation
Indices: 110750--110842 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
110740 TTTTCCCAAT
110750 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
110791 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
110832 TCGCAATGCGA
1 TCGCAATGCGA
110843 TATTGACTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:110873 original size:41 final size:41
Alignment explanation
Indices: 110828--110965 Score: 131
Period size: 41 Copynumber: 3.4 Consensus size: 41
110818 GCGAATTGGG
* * * *
110828 AAAATCGCAATGCGATATTGACTATCGCAATGTGATAATAC
1 AAAATCGCAACGCGATATTGACTTTCGCAACGCGATAATAC
* *
110869 AAAATCGCAACGAGATACTT-ACTTTCGCAACGCGATACTGAC
1 AAAATCGCAACGCGATA-TTGACTTTCGCAACGCGATAAT-AC
**
110911 --TTTCGCAACGCGAT-TCTGACTTTCGCAACGCGATAATAC
1 AAAATCGCAACGCGATAT-TGACTTTCGCAACGCGATAATAC
* *
110950 ATAATCGCAATGCGAT
1 AAAATCGCAACGCGAT
110966 TTTCAAAGCG
Statistics
Matches: 78, Mismatches: 13, Indels: 12
0.76 0.13 0.12
Matches are distributed among these distances:
38 1 0.01
39 3 0.04
40 29 0.37
41 41 0.53
42 4 0.05
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.25
Consensus pattern (41 bp):
AAAATCGCAACGCGATATTGACTTTCGCAACGCGATAATAC
Found at i:111158 original size:22 final size:22
Alignment explanation
Indices: 111130--111173 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
111120 CACTCTCTCA
*
111130 CCCATCTCCGACGAAATTCGTC
1 CCCATCTCCGACGAAATCCGTC
*
111152 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
111174 TATCTCCATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.43, G:0.16, T:0.20
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:111462 original size:20 final size:20
Alignment explanation
Indices: 111437--111483 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
111427 GATTCTCTCT
111437 TTGCGATAGTCAAATTCGCG
1 TTGCGATAGTCAAATTCGCG
* ** *
111457 TTGCGACAGTCATTTTCGTG
1 TTGCGATAGTCAAATTCGCG
111477 TTGCGAT
1 TTGCGAT
111484 TTTCATTTTC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.36
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCGCG
Found at i:112834 original size:18 final size:18
Alignment explanation
Indices: 112813--112857 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
112803 TCCACTTCGG
*
112813 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
112831 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
112849 GAGCCATCA
1 GAGCCATCA
112858 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:113391 original size:19 final size:20
Alignment explanation
Indices: 113337--113403 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
113327 TAGTTTACTT
* *
113337 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
113357 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
113377 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
113396 TCGCAACG
1 TCGCAACG
113404 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:113411 original size:14 final size:14
Alignment explanation
Indices: 113392--113449 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
113382 ATGCGAAATG
113392 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
113406 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
113422 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
113438 AAAATCGCAACG
1 AAAATCGCAACG
113450 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:113434 original size:32 final size:33
Alignment explanation
Indices: 113376--113466 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
113366 GGAAATGGCT
*
113376 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
113409 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
113441 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAACGCGAAATGAAAATCGCAA
113467 TGCGATTTGT
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 32 0.57
33 24 0.43
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:113460 original size:19 final size:19
Alignment explanation
Indices: 113337--113471 Score: 85
Period size: 19 Copynumber: 7.6 Consensus size: 19
113327 TAGTTTACTT
* **
113337 TCGCAACACGAAAATGACTA
1 TCGCAACGCG-AAATGAAAA
***
113357 TCGCAACGCGGAAATGGCTA
1 TCGCAACGC-GAAATGAAAA
*
113377 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
113396 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
113410 TCGCAACGCGAAATG-AAA
1 TCGCAACGCGAAATGAAAA
*
113428 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
113442 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
113461 TCGCAATGCGA
1 TCGCAACGCGA
113472 TTTGTGTTTC
Statistics
Matches: 92, Mismatches: 11, Indels: 25
0.72 0.09 0.20
Matches are distributed among these distances:
14 20 0.22
15 1 0.01
16 6 0.07
17 2 0.02
18 11 0.12
19 27 0.29
20 24 0.26
21 1 0.01
ACGTcount: A:0.43, C:0.24, G:0.21, T:0.13
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:113502 original size:14 final size:14
Alignment explanation
Indices: 113483--113540 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
113473 TTGTGTTTCG
113483 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
113497 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
113513 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
113529 CGTTGCGATTTT
1 CGTTGCGATTTT
113541 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 23 0.61
16 4 0.11
18 11 0.29
ACGTcount: A:0.09, C:0.17, G:0.26, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:113517 original size:32 final size:33
Alignment explanation
Indices: 113478--113556 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
113468 GCGATTTGTG
113478 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
113510 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
*
113543 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
113557 AGCCATTTCC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 27 0.60
33 18 0.40
ACGTcount: A:0.10, C:0.19, G:0.24, T:0.47
Consensus pattern (33 bp):
TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
Found at i:113575 original size:20 final size:19
Alignment explanation
Indices: 113541--113596 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
113531 TTGCGATTTT
*
113541 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
113560 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
113580 CATTTTCGCGTTGCGAT
1 CA-TTTCGCGTTGCGAT
113597 TTTAAGTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 5 0.15
20 25 0.76
21 3 0.09
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:115483 original size:14 final size:14
Alignment explanation
Indices: 115464--115499 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
115454 ATTGTTTAAT
115464 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
115478 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
115492 TGATTTGT
1 TGATTTGT
115500 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:115638 original size:19 final size:19
Alignment explanation
Indices: 115616--115683 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
115606 ATCGCAACGA
115616 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
115635 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
115654 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
115668 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
115684 TTTTCATTTC
Statistics
Matches: 46, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
14 11 0.24
15 1 0.02
16 2 0.04
17 2 0.04
19 30 0.65
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:115727 original size:20 final size:20
Alignment explanation
Indices: 115702--115739 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
115692 TCGCATTGCG
*
115702 ATTTTCTCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
115722 ATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
115740 TCAAATGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.16, C:0.21, G:0.24, T:0.39
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:116824 original size:24 final size:24
Alignment explanation
Indices: 116797--116850 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
116787 GTATTCGAAA
* *
116797 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGGAC
*
116821 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
116845 TTTGAT
1 TTTGAT
116851 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:117042 original size:12 final size:12
Alignment explanation
Indices: 117025--117049 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
117015 ATATAATCCT
117025 GAAGAAGAAAAA
1 GAAGAAGAAAAA
117037 GAAGAAGAAAAA
1 GAAGAAGAAAAA
117049 G
1 G
117050 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:119364 original size:19 final size:19
Alignment explanation
Indices: 119342--119472 Score: 94
Period size: 19 Copynumber: 7.7 Consensus size: 19
119332 GGAAATTACT
119342 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
119361 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
119375 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
119394 ATCGCAA--CG--CT-AAT
1 ATCGCAATGCGAAATGAAA
*
119408 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
119427 ATCGCAAT--G--A-GGGA
1 ATCGCAATGCGAAATGAAA
119441 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
119460 ATCGCAACGCGAA
1 ATCGCAATGCGAA
119473 TTTAATTTCG
Statistics
Matches: 84, Mismatches: 13, Indels: 30
0.66 0.10 0.24
Matches are distributed among these distances:
14 28 0.33
15 3 0.04
16 5 0.06
17 5 0.06
18 3 0.04
19 40 0.48
ACGTcount: A:0.43, C:0.19, G:0.23, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:119384 original size:33 final size:33
Alignment explanation
Indices: 119342--119468 Score: 193
Period size: 33 Copynumber: 3.8 Consensus size: 33
119332 GGAAATTACT
119342 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
**
119375 ATCGCAATGCGAAATGAAAATCGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* * *
119407 TTTCGCAATGCGAAATGAAAATCGCAATGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
119441 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
119469 CGAATTTAAT
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
32 1 0.01
33 81 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.23, T:0.16
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:119449 original size:66 final size:66
Alignment explanation
Indices: 119343--119475 Score: 239
Period size: 66 Copynumber: 2.0 Consensus size: 66
119333 GAAATTACTA
*
119343 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCTAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
119408 T
66 T
* *
119409 TCGCAATGCGAAATGAAAATCGCAATGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
119474 T
66 T
119475 T
1 T
119476 AATTTCGCGT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.41, C:0.19, G:0.23, T:0.17
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
T
Found at i:119490 original size:19 final size:19
Alignment explanation
Indices: 119468--119542 Score: 70
Period size: 19 Copynumber: 4.2 Consensus size: 19
119458 AAATCGCAAC
*
119468 GCGAATTTAATTTCGCGTT
1 GCGAATTTCATTTCGCGTT
*
119487 GCG-A-TTC---TCTCGTT
1 GCGAATTTCATTTCGCGTT
*
119501 GCGATTTTCATTTCGCGTT
1 GCGAATTTCATTTCGCGTT
* *
119520 GCGATTTTCATTTCGCATT
1 GCGAATTTCATTTCGCGTT
119539 GCGA
1 GCGA
119543 TAGTACTTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
14 9 0.20
16 3 0.07
17 2 0.04
18 1 0.02
19 31 0.67
ACGTcount: A:0.15, C:0.21, G:0.21, T:0.43
Consensus pattern (19 bp):
GCGAATTTCATTTCGCGTT
Found at i:119543 original size:19 final size:19
Alignment explanation
Indices: 119499--119543 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
119489 GATTCTCTCG
*
119499 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
119518 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
119537 TTGCGAT
1 TTGCGAT
119544 AGTACTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.13, C:0.20, G:0.20, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:119669 original size:14 final size:14
Alignment explanation
Indices: 119650--119686 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
119640 CATCAATTAA
119650 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
119664 ACAAATCACCTTTT
1 ACAAATCAACTTTT
119678 ACAAATCAA
1 ACAAATCAA
119687 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:121103 original size:42 final size:42
Alignment explanation
Indices: 121044--121137 Score: 111
Period size: 42 Copynumber: 2.2 Consensus size: 42
121034 GTGAATCGGG
* *
121044 CTCTTGAATGGTGGGAGG-GACCTCTTCAACG-ATGATAGTGGC
1 CTCTTGAACGGTGGGAGGTGA-CTC-TCAACGAATGATAGGGGC
* *
121086 CTCTTGAACGGTGGGAGGTGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGTGACTCTCAACGAATGATAGGGGC
*
121128 CTCTTCAACG
1 CTCTTGAACG
121138 ATAGGAGTGG
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
41 4 0.09
42 39 0.87
43 2 0.04
ACGTcount: A:0.21, C:0.20, G:0.34, T:0.24
Consensus pattern (42 bp):
CTCTTGAACGGTGGGAGGTGACTCTCAACGAATGATAGGGGC
Found at i:121151 original size:42 final size:42
Alignment explanation
Indices: 121075--121162 Score: 106
Period size: 42 Copynumber: 2.1 Consensus size: 42
121065 CTCTTCAACG
* * * *
121075 ATGATAGTGGCCTCTTGAACGGTGGGAGGTGACTCTCGAGGA
1 ATGATAGGGGCCTCTTCAACGATAGGAGGTGACTCTCGAGGA
* *
121117 ATGATAGGGGCCTCTTCAACGATAGGA-GTGGACTCTTGAGGG
1 ATGATAGGGGCCTCTTCAACGATAGGAGGT-GACTCTCGAGGA
121159 ATGA
1 ATGA
121163 CAGGCGAGTC
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
41 2 0.05
42 37 0.95
ACGTcount: A:0.24, C:0.16, G:0.36, T:0.24
Consensus pattern (42 bp):
ATGATAGGGGCCTCTTCAACGATAGGAGGTGACTCTCGAGGA
Found at i:123246 original size:33 final size:33
Alignment explanation
Indices: 123189--123287 Score: 162
Period size: 33 Copynumber: 3.0 Consensus size: 33
123179 ACGAGATAAT
123189 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACGA
*
123223 GAGAATCGCAACGCGAAATGACTATCGCGACGA
1 GAGAATCGCAACGCGAAATGACTATCGCAACGA
**
123256 GAGAATCGCAACGCGAAATGAAAATCGCAACG
1 GAGAATCGCAACGCGAAATGACTATCGCAACG
123288 CGAAATGAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
33 47 0.77
34 14 0.23
ACGTcount: A:0.39, C:0.23, G:0.26, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACGA
Found at i:123281 original size:19 final size:19
Alignment explanation
Indices: 123164--123309 Score: 114
Period size: 19 Copynumber: 8.1 Consensus size: 19
123154 TCTTTTGGTT
*
123164 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
123183 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
123203 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
123221 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
123237 GAAATGACTATCGCGA--C
1 GAAATGAAAATCGCAACGC
*
123254 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
123270 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
123289 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
123308 GA
1 GA
123310 TTTTTGTTTT
Statistics
Matches: 101, Mismatches: 14, Indels: 24
0.73 0.10 0.17
Matches are distributed among these distances:
14 17 0.17
15 2 0.02
16 4 0.04
17 3 0.03
18 3 0.03
19 43 0.43
20 27 0.27
21 2 0.02
ACGTcount: A:0.42, C:0.21, G:0.25, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:123327 original size:19 final size:19
Alignment explanation
Indices: 123305--123348 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
123295 AAAATCGCAA
* *
123305 TGCGATTTTTGTTTTGCGT
1 TGCGATTTTTATTTCGCGT
*
123324 TGCGTTTTTTATTTCGCGT
1 TGCGATTTTTATTTCGCGT
123343 TGCGAT
1 TGCGAT
123349 AGTTGCGATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.07, C:0.14, G:0.25, T:0.55
Consensus pattern (19 bp):
TGCGATTTTTATTTCGCGT
Found at i:123916 original size:20 final size:20
Alignment explanation
Indices: 123891--123943 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
123881 GCGCTATGTA
123891 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
123911 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
* *
123931 TATCTCGTTGCGA
1 AATCGCGTTGCGA
123944 TTTTGTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (20 bp):
AATCGCGTTGCGAAAGTCAG
Found at i:123977 original size:20 final size:20
Alignment explanation
Indices: 123952--124005 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
123942 GATTTTGTAT
123952 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
123972 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
*
123992 TATCACATTGCGAT
1 TATCGCATTGCGAT
124006 TTTTCCAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:123990 original size:61 final size:61
Alignment explanation
Indices: 123892--124008 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 61
123882 CGCTATGTAA
* * * * *
123892 ATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCACATTGCGATTTTGTATT
* * *
123953 ATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGTATCACATTGCGATTTT
1 ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCACATTGCGATTTT
124009 TCCAATTCGC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (61 bp):
ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCACATTGCGATTTTGTATT
Found at i:124024 original size:61 final size:61
Alignment explanation
Indices: 123887--124026 Score: 160
Period size: 61 Copynumber: 2.3 Consensus size: 61
123877 AATGGCGCTA
* * * * *
123887 TGTAA-ATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTT
1 TGTAATATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCACATTGCGATTT
* * * *
123947 TGTATTATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGTATCACATTGCGATTT
1 TGTAATATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCACATTGCGATTT
124008 T-TCCAAT-TCGCGTTGCGAT
1 TGT--AATATCGCGTTGCGAT
124027 TTACTTATTC
Statistics
Matches: 66, Mismatches: 11, Indels: 5
0.80 0.13 0.06
Matches are distributed among these distances:
60 5 0.08
61 59 0.89
62 2 0.03
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.34
Consensus pattern (61 bp):
TGTAATATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCACATTGCGATTT
Found at i:124116 original size:21 final size:21
Alignment explanation
Indices: 124076--124116 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
124066 ACTGTAGACC
**
124076 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAAATCCAACT
*
124097 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATCCAAC
124117 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAAATCCAACT
Found at i:128473 original size:23 final size:23
Alignment explanation
Indices: 128447--128491 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
128437 CACCACAGCT
128447 CATATAATTGCACCGAAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
128470 CATATAATTGCACCGAAGTGCC
1 CATATAATTGCACCGAAGTGCC
128492 GCGTAGAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (23 bp):
CATATAATTGCACCGAAGTGCCA
Found at i:128501 original size:23 final size:23
Alignment explanation
Indices: 128447--128515 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 23
128437 CACCACAGCT
*
128447 CATATAATTGCACCGAAGTGCCA
1 CATAGAATTGCACCGAAGTGCCA
* *
128470 CATATAATTGCACCGAAGTGCCG
1 CATAGAATTGCACCGAAGTGCCA
* * * *
128493 CGTAGAATTACATCGTAGTGCCA
1 CATAGAATTGCACCGAAGTGCCA
128516 TATAATAATG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (23 bp):
CATAGAATTGCACCGAAGTGCCA
Found at i:137093 original size:30 final size:29
Alignment explanation
Indices: 137059--137115 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
137049 TGGATTCAGT
* *
137059 TTGGTGACCAAATTATAAGATTTTAAAAGC
1 TTGGTGACCAAAGTATAA-ACTTTAAAAGC
*
137089 TTGGTGACTAAAGTATAAACTTTAAAA
1 TTGGTGACCAAAGTATAAACTTTAAAA
137116 AGTTTAGGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 8 0.33
30 16 0.67
ACGTcount: A:0.42, C:0.09, G:0.16, T:0.33
Consensus pattern (29 bp):
TTGGTGACCAAAGTATAAACTTTAAAAGC
Found at i:137117 original size:30 final size:30
Alignment explanation
Indices: 137059--137130 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 30
137049 TGGATTCAGT
* *
137059 TTGGTGACCAAATTATAAGATTTTAAAAGC
1 TTGGTGACCAAAGTATAAGATTTAAAAAGC
* *
137089 TTGGTGACTAAAGTATAA-ACTTTAAAAAGT
1 TTGGTGACCAAAGTATAAGA-TTTAAAAAGC
137119 TTAGG-GACCAAA
1 TT-GGTGACCAAA
137131 ATGGTAATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
29 1 0.03
30 32 0.91
31 2 0.06
ACGTcount: A:0.42, C:0.10, G:0.18, T:0.31
Consensus pattern (30 bp):
TTGGTGACCAAAGTATAAGATTTAAAAAGC
Found at i:138496 original size:182 final size:180
Alignment explanation
Indices: 138297--138781 Score: 568
Period size: 182 Copynumber: 2.6 Consensus size: 180
138287 TTCACCCTAA
* *
138297 ACCCTAAATCCAAACCCGACCCGACCTGACCTGAATATCTTAAAAAAACCCGACCCGACCCGAAC
1 ACCCTAAACCCAAACCCGACCCGACCT-ACCTGAATATCTTAAAAAAACCCGACCCGACCCGACC
* *
138362 AAAATAAAATTTCATCCGACCCGAAATAATAAAAATATATTTTTATTTAATAAAAACAGTGACTT
65 AAAATAAAATTTCA-CCGACCCGAAATAATAAAAAAATATTTTTATTTAATAAAAACAATGACTT
138427 AATCCGACCCGACCCGAATTATATATATTTTCGGGTCGGTCCGATTTTTTTC
129 AATCCGACCCGACCCGAATTATATATATTTTCGGGTCGGTCCGATTTTTTTC
* * * *
138479 ACCCTAAACCCAAACCCGACCCGA-ATA--T-CACAT-TT-AAAAAACCCGACCCGACTCGACCT
1 ACCCTAAACCCAAACCCGACCCGACCTACCTGAATATCTTAAAAAAACCCGACCCGACCCGACC-
* * * **
138538 GAATATCACACTTAAAAAACCCGACCCGAAATAATAAAAAAATTATTTTTATTTAATAAAAACAA
65 -AAAAT-AAAATT---TCA-CCGACCCGAAATAATAAAAAAA-TATTTTTATTTAATAAAAACAA
** *
138603 TGACTTAATCCGACCCGACTTGAATTATATATATTTTCGGGTCGGTCCGGTTTTTTTC
123 TGACTTAATCCGACCCGACCCGAATTATATATATTTTCGGGTCGGTCCGATTTTTTTC
* * * * *
138661 ACCCTAAACCCGAACCTGACCCGACCCAACCCGAATATCACACTTAAAAAAACCCGATCCGACCC
1 ACCCTAAACCCAAACCCGACCCGA-CCTACCTGAATAT----CTTAAAAAAACCCGACCCGACCC
* * *
138726 GACCAAAATAAAGTTTCACTCGACCTGAAATAATAAAAAAATATTTTTATTCAATA
61 GACCAAAATAAAATTTCAC-CGACCCGAAATAATAAAAAAATATTTTTATTTAATA
138782 TATGAATAAG
Statistics
Matches: 251, Mismatches: 33, Indels: 34
0.79 0.10 0.11
Matches are distributed among these distances:
175 21 0.08
176 2 0.01
177 7 0.03
178 5 0.02
180 1 0.00
181 23 0.09
182 121 0.48
184 1 0.00
186 15 0.06
187 24 0.10
190 4 0.02
191 4 0.02
192 2 0.01
193 21 0.08
ACGTcount: A:0.38, C:0.27, G:0.10, T:0.25
Consensus pattern (180 bp):
ACCCTAAACCCAAACCCGACCCGACCTACCTGAATATCTTAAAAAAACCCGACCCGACCCGACCA
AAATAAAATTTCACCGACCCGAAATAATAAAAAAATATTTTTATTTAATAAAAACAATGACTTAA
TCCGACCCGACCCGAATTATATATATTTTCGGGTCGGTCCGATTTTTTTC
Found at i:138542 original size:37 final size:37
Alignment explanation
Indices: 138495--138566 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
138485 AACCCAAACC
*
138495 CGACCCGAATATCACATTTAAAAAACCCGACCCGACT
1 CGACCCGAATATCACACTTAAAAAACCCGACCCGACT
*
138532 CGACCTGAATATCACACTTAAAAAACCCGACCCGA
1 CGACCCGAATATCACACTTAAAAAACCCGACCCGA
138567 AATAATAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.39, C:0.35, G:0.11, T:0.15
Consensus pattern (37 bp):
CGACCCGAATATCACACTTAAAAAACCCGACCCGACT
Found at i:139283 original size:30 final size:31
Alignment explanation
Indices: 139249--139306 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
139239 AAAATTCATG
* *
139249 GACC-ATTCTATAATTTTTGAAAAGTTGGGA
1 GACCAATTCGATAATTTTGGAAAAGTTGGGA
139279 GACCAATTCGATAATTTTGGAAAAGTTG
1 GACCAATTCGATAATTTTGGAAAAGTTG
139307 TGAATGGTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 4 0.16
31 21 0.84
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.34
Consensus pattern (31 bp):
GACCAATTCGATAATTTTGGAAAAGTTGGGA
Done.