Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, 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: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 42 of 127
Found at i:8334560 original size:88 final size:88
Alignment explanation
Indices: 8334283--8334550 Score: 482
Period size: 88 Copynumber: 3.0 Consensus size: 88
8334273 AAAGAGATTA
* *
8334283 AAAAGATAATTTAAAATTATTAATTTTAATATATAAATAATTTATGTTATATTTATTATTTTTAA
1 AAAAGATAGTTTAAAATTATTAATTTTAATATATTAATAATTTATGTTATATTTATTATTTTTAA
8334348 TTACATTAATAGTTTTAGAAAGT
66 TTACATTAATAGTTTTAGAAAGT
8334371 AAAAGATAGTTTAAAATTATTAATTTTAATATATTAATAATTTATGTTATATTTATTATTTTTAA
1 AAAAGATAGTTTAAAATTATTAATTTTAATATATTAATAATTTATGTTATATTTATTATTTTTAA
8334436 TTACATTAATAGTTTTAGAAAGT
66 TTACATTAATAGTTTTAGAAAGT
* *
8334459 AAAAGATAGTTTAAAATTATTAATTTTAATATATTAATAATTTATGTTATATTTATTGTTTTTAG
1 AAAAGATAGTTTAAAATTATTAATTTTAATATATTAATAATTTATGTTATATTTATTATTTTTAA
* *
8334524 TTACATTAATAGTTTTAAAAAAT
66 TTACATTAATAGTTTTAGAAAGT
8334547 AAAA
1 AAAA
8334551 TTATATTTAA
Statistics
Matches: 174, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
88 174 1.00
ACGTcount: A:0.44, C:0.01, G:0.06, T:0.49
Consensus pattern (88 bp):
AAAAGATAGTTTAAAATTATTAATTTTAATATATTAATAATTTATGTTATATTTATTATTTTTAA
TTACATTAATAGTTTTAGAAAGT
Found at i:8334934 original size:21 final size:21
Alignment explanation
Indices: 8334910--8334949 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
8334900 ATCAAACATC
8334910 AATATTTAATATGAT-ATAAAA
1 AATATTTAAT-TGATGATAAAA
8334931 AATATTTAATTGATGATAA
1 AATATTTAATTGATGATAA
8334950 TTTCCATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (21 bp):
AATATTTAATTGATGATAAAA
Found at i:8335087 original size:29 final size:28
Alignment explanation
Indices: 8335018--8335100 Score: 87
Period size: 29 Copynumber: 2.9 Consensus size: 28
8335008 TTTTAAATTT
* *
8335018 TTTTATTTAAATAATTTTTTATACTTTTA
1 TTTTATTCAAATAATTTTTTAT-TTTTTA
* *
8335047 TTATA-CCAAAATGAATTTTTTATTTTTTA
1 TTTTATTC-AAAT-AATTTTTTATTTTTTA
*
8335076 TTTTATTCAAATAAATTTTTATTTT
1 TTTTATTCAAATAATTTTTTATTTT
8335101 AAGCAAAAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
28 12 0.27
29 21 0.48
30 11 0.25
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.61
Consensus pattern (28 bp):
TTTTATTCAAATAATTTTTTATTTTTTA
Found at i:8335107 original size:21 final size:21
Alignment explanation
Indices: 8335070--8335113 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
8335060 AATTTTTTAT
** *
8335070 TTTTTATTTTATTCAAATAAA
1 TTTTTATTTTAAGCAAAAAAA
8335091 TTTTTATTTTAAGCAAAAAAA
1 TTTTTATTTTAAGCAAAAAAA
8335112 TT
1 TT
8335114 ACTTTTTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.52
Consensus pattern (21 bp):
TTTTTATTTTAAGCAAAAAAA
Found at i:8335220 original size:14 final size:15
Alignment explanation
Indices: 8335191--8335221 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
8335181 AAAAATTTAA
8335191 AAAAATTATTTCTTC
1 AAAAATTATTTCTTC
8335206 AAAAATTATTT-TTC
1 AAAAATTATTTCTTC
8335220 AA
1 AA
8335222 TAAAGTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (15 bp):
AAAAATTATTTCTTC
Found at i:8335454 original size:29 final size:30
Alignment explanation
Indices: 8335392--8335451 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
8335382 TGTAATAAGG
* *
8335392 ATTTATTTGAGTATAAATTAAAAATTAAAA
1 ATTTATTTAAATATAAATTAAAAATTAAAA
*
8335422 ATTTATTTAAATAT-AATAAAAATATTAAAA
1 ATTTATTTAAATATAAATTAAAA-ATTAAAA
8335452 TTTGTCAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 7 0.27
30 19 0.73
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (30 bp):
ATTTATTTAAATATAAATTAAAAATTAAAA
Found at i:8336385 original size:7 final size:7
Alignment explanation
Indices: 8336375--8336540 Score: 62
Period size: 7 Copynumber: 24.1 Consensus size: 7
8336365 CACAAATCAC
8336375 AAACCCT
1 AAACCCT
*
8336382 AAACACT
1 AAACCCT
* *
8336389 TAATCCT
1 AAACCCT
*
8336396 AAACCTT
1 AAACCCT
**
8336403 AAACTAT
1 AAACCCT
8336410 AAA-CCT
1 AAACCCT
*
8336416 AAAACACT
1 -AAACCCT
*
8336424 AAA-CTT
1 AAACCCT
8336430 AAACCC-
1 AAACCCT
8336436 AAATCCCT
1 AAA-CCCT
*
8336444 AATCCC-
1 AAACCCT
*
8336450 AAACACT
1 AAACCCT
8336457 AAAACCC-
1 -AAACCCT
8336464 AAACTCC-
1 AAAC-CCT
*
8336471 AAATCCT
1 AAACCCT
*
8336478 AAAACACT
1 -AAACCCT
*
8336486 AAA-CTT
1 AAACCCT
*
8336492 AAA-TCT
1 AAACCCT
8336498 AAATCCCT
1 AAA-CCCT
*
8336506 AATCCC-
1 AAACCCT
*
8336512 AAACACT
1 AAACCCT
8336519 AAACCCT
1 AAACCCT
8336526 AAACCCT
1 AAACCCT
*
8336533 AAATCCT
1 AAACCCT
8336540 A
1 A
8336541 TACACTAAAG
Statistics
Matches: 114, Mismatches: 32, Indels: 26
0.66 0.19 0.15
Matches are distributed among these distances:
6 30 0.26
7 66 0.58
8 18 0.16
ACGTcount: A:0.48, C:0.33, G:0.00, T:0.20
Consensus pattern (7 bp):
AAACCCT
Found at i:8336420 original size:21 final size:20
Alignment explanation
Indices: 8336402--8336500 Score: 74
Period size: 20 Copynumber: 4.8 Consensus size: 20
8336392 TCCTAAACCT
8336402 TAAACTATAAACCTAAAACAC
1 TAAACT-TAAACCTAAAACAC
* * *
8336423 TAAACTTAAACCCAAATCCC
1 TAAACTTAAACCTAAAACAC
* **
8336443 TAATCCCAAACACTAAAAC-C
1 TAAACTTAAAC-CTAAAACAC
* *
8336463 CAAACTCCAAATCCTAAAACAC
1 TAAACT-TAAA-CCTAAAACAC
*
8336485 TAAACTTAAATCTAAA
1 TAAACTTAAACCTAAA
8336501 TCCCTAATCC
Statistics
Matches: 60, Mismatches: 14, Indels: 9
0.72 0.17 0.11
Matches are distributed among these distances:
20 28 0.47
21 25 0.42
22 7 0.12
ACGTcount: A:0.52, C:0.29, G:0.00, T:0.19
Consensus pattern (20 bp):
TAAACTTAAACCTAAAACAC
Found at i:8336444 original size:28 final size:28
Alignment explanation
Indices: 8336413--8336507 Score: 84
Period size: 28 Copynumber: 3.2 Consensus size: 28
8336403 AAACTATAAA
8336413 CCTAAAACACTAAACTTAAACCCAAATC
1 CCTAAAACACTAAACTTAAACCCAAATC
**
8336441 CCTAATCCCAAACACTAAAACCCAAACTCCAAAT-
1 CCT-A----AAACACT-AAACTTAAAC-CCAAATC
* *
8336475 CCTAAAACACTAAACTTAAATCTAAATC
1 CCTAAAACACTAAACTTAAACCCAAATC
8336503 CCTAA
1 CCTAA
8336508 TCCCAAACAC
Statistics
Matches: 53, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
27 5 0.09
28 15 0.28
29 8 0.15
33 8 0.15
34 11 0.21
35 6 0.11
ACGTcount: A:0.48, C:0.33, G:0.00, T:0.19
Consensus pattern (28 bp):
CCTAAAACACTAAACTTAAACCCAAATC
Found at i:8336479 original size:62 final size:62
Alignment explanation
Indices: 8336394--8336563 Score: 213
Period size: 62 Copynumber: 2.7 Consensus size: 62
8336384 ACACTTAATC
* **
8336394 CTAAACCTTAAACTATAAA-CCTAAAACACTAAACTTAAACCCAAATCCCTAATCCCAAACA
1 CTAAACCCTAAACCCTAAATCCTAAAACACTAAACTTAAACCCAAATCCCTAATCCCAAACA
* *
8336455 CTAAAACCC-AAACTCC-AAATCCTAAAACACTAAACTTAAATCTAAATCCCTAATCCCAAACA
1 CT-AAACCCTAAAC-CCTAAATCCTAAAACACTAAACTTAAACCCAAATCCCTAATCCCAAACA
* *
8336517 CTAAACCCTAAACCCTAAATCCT-ATACACTAAAGTCTAAATCCCAAA
1 CTAAACCCTAAACCCTAAATCCTAAAACACTAAACT-TAAA-CCCAAA
8336564 CATTAAACTC
Statistics
Matches: 93, Mismatches: 9, Indels: 12
0.82 0.08 0.11
Matches are distributed among these distances:
61 27 0.29
62 62 0.67
63 4 0.04
ACGTcount: A:0.48, C:0.32, G:0.01, T:0.20
Consensus pattern (62 bp):
CTAAACCCTAAACCCTAAATCCTAAAACACTAAACTTAAACCCAAATCCCTAATCCCAAACA
Found at i:8336527 original size:28 final size:29
Alignment explanation
Indices: 8336496--8336560 Score: 80
Period size: 28 Copynumber: 2.3 Consensus size: 29
8336486 AAACTTAAAT
8336496 CTAAATCCCT-AATCCCAAACACTAAACC
1 CTAAATCCCTAAATCCCAAACACTAAACC
* * **
8336524 CTAAA-CCCTAAATCCTATACACTAAAGT
1 CTAAATCCCTAAATCCCAAACACTAAACC
8336552 CTAAATCCC
1 CTAAATCCC
8336561 AAACATTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
27 4 0.13
28 24 0.77
29 3 0.10
ACGTcount: A:0.42, C:0.35, G:0.02, T:0.22
Consensus pattern (29 bp):
CTAAATCCCTAAATCCCAAACACTAAACC
Found at i:8336548 original size:14 final size:14
Alignment explanation
Indices: 8336375--8336591 Score: 53
Period size: 14 Copynumber: 15.7 Consensus size: 14
8336365 CACAAATCAC
8336375 AAACCCTAAACACT
1 AAACCCTAAACACT
* *
8336389 TAATCCTAAAC-CTT
1 AAACCCTAAACAC-T
**
8336403 AAACTATAAAC-CT
1 AAACCCTAAACACT
* *
8336416 AAAACACTAAAC-TT
1 -AAACCCTAAACACT
*
8336430 AAACCC-AAATCCCT
1 AAACCCTAAA-CACT
*
8336444 AATCCC-AAACACT
1 AAACCCTAAACACT
* *
8336457 AAAACCC-AAACTCC
1 -AAACCCTAAACACT
*
8336471 AAATCCTAAAACACT
1 AAACCCT-AAACACT
* *
8336486 AAA-CTTAAA-TCT
1 AAACCCTAAACACT
* *
8336498 AAATCCCTAATC-CC
1 AAA-CCCTAAACACT
* *
8336512 AAACACTAAACCCT
1 AAACCCTAAACACT
8336526 AAACCCTAAATC-CT
1 AAACCCTAAA-CACT
* * **
8336540 ATACACTAAAGTCT
1 AAACCCTAAACACT
*
8336554 AAATCCC-AAACATT
1 AAA-CCCTAAACACT
*
8336568 AAACTCTAAACTA-T
1 AAACCCTAAAC-ACT
*
8336582 AAATCCTAAA
1 AAACCCTAAA
8336592 TCCTAAGCCT
Statistics
Matches: 148, Mismatches: 39, Indels: 32
0.68 0.18 0.15
Matches are distributed among these distances:
12 8 0.05
13 27 0.18
14 101 0.68
15 12 0.08
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.21
Consensus pattern (14 bp):
AAACCCTAAACACT
Found at i:8336555 original size:21 final size:21
Alignment explanation
Indices: 8336519--8336577 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
8336509 CCCAAACACT
* * *
8336519 AAACCCTAAACCCTAAATCCT
1 AAACACTAAACTCTAAATCCC
* *
8336540 ATACACTAAAGTCTAAATCCC
1 AAACACTAAACTCTAAATCCC
*
8336561 AAACATTAAACTCTAAA
1 AAACACTAAACTCTAAA
8336578 CTATAAATCC
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.47, C:0.29, G:0.02, T:0.22
Consensus pattern (21 bp):
AAACACTAAACTCTAAATCCC
Found at i:8339434 original size:34 final size:34
Alignment explanation
Indices: 8339338--8339435 Score: 117
Period size: 34 Copynumber: 2.9 Consensus size: 34
8339328 ATACAGTAAA
*
8339338 TTTCATATGTTATTGAATATAAATATTTAATAAG
1 TTTCATATGTTATTGAATATAAATATTTGATAAG
* * * *
8339372 TTTCGTATGTT-TTCAAATTTACATATTTGATAAG
1 TTTCATATGTTATT-GAATATAAATATTTGATAAG
* *
8339406 TTTTATATGTTATTGAATATATATATTTGA
1 TTTCATATGTTATTGAATATAAATATTTGA
8339436 AAATATGCTA
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
33 2 0.04
34 48 0.92
35 2 0.04
ACGTcount: A:0.35, C:0.04, G:0.10, T:0.51
Consensus pattern (34 bp):
TTTCATATGTTATTGAATATAAATATTTGATAAG
Found at i:8343220 original size:3 final size:3
Alignment explanation
Indices: 8343214--8343253 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
8343204 TGTTGTTGAT
*
8343214 GAA GAA GAA GTA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
8343254 GGCTTCCATC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.62, C:0.00, G:0.35, T:0.03
Consensus pattern (3 bp):
GAA
Found at i:8343563 original size:37 final size:37
Alignment explanation
Indices: 8343522--8343594 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
8343512 TCTATTAGAT
8343522 AGCTTTTTCCATTTGGCTATCTATTTGAATTCCCCAG
1 AGCTTTTTCCATTTGGCTATCTATTTGAATTCCCCAG
*
8343559 AGCTTTTTCCATTTGGCTCTCTATTTGAATTCCCCA
1 AGCTTTTTCCATTTGGCTATCTATTTGAATTCCCCA
8343595 CTTCTTAGAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.18, C:0.26, G:0.12, T:0.44
Consensus pattern (37 bp):
AGCTTTTTCCATTTGGCTATCTATTTGAATTCCCCAG
Found at i:8346423 original size:11 final size:10
Alignment explanation
Indices: 8346398--8346422 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
8346388 GCTTAACTTT
8346398 AAAAATAAAA
1 AAAAATAAAA
8346408 AAAAATAAAA
1 AAAAATAAAA
8346418 AAAAA
1 AAAAA
8346423 ACGTTCGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (10 bp):
AAAAATAAAA
Found at i:8349707 original size:14 final size:15
Alignment explanation
Indices: 8349681--8349709 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
8349671 AACTCGAATC
8349681 AAATATATATAATTA
1 AAATATATATAATTA
8349696 AAATAT-TATAATTA
1 AAATATATATAATTA
8349710 TATAAATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
AAATATATATAATTA
Found at i:8356354 original size:18 final size:18
Alignment explanation
Indices: 8356331--8356367 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
8356321 TAAATTAAAC
*
8356331 ATTTATGTTTAAAAATCT
1 ATTTATATTTAAAAATCT
*
8356349 ATTTATATTTAAAGATCT
1 ATTTATATTTAAAAATCT
8356367 A
1 A
8356368 CAAGGTTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (18 bp):
ATTTATATTTAAAAATCT
Found at i:8362773 original size:14 final size:15
Alignment explanation
Indices: 8362756--8362788 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
8362746 CTTTTCATGT
8362756 TTTCCT-TTGGATCA
1 TTTCCTATTGGATCA
8362770 TTTCCTAATTGGATCA
1 TTTCCT-ATTGGATCA
8362786 TTT
1 TTT
8362789 AGGTTTAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.35
16 11 0.65
ACGTcount: A:0.18, C:0.18, G:0.12, T:0.52
Consensus pattern (15 bp):
TTTCCTATTGGATCA
Found at i:8363134 original size:114 final size:114
Alignment explanation
Indices: 8363014--8363220 Score: 369
Period size: 114 Copynumber: 1.8 Consensus size: 114
8363004 GTTTAAATCG
*
8363014 TTTTGTTGGTAATAAATTTTGATCATTTTGTTTTAGACCAATTTTGTTGAAATTAATTTGAGGCC
1 TTTTGTTGGTAATAAATTTTGATCATTTTGTTTTAGACCAATTTTGTTGAAATTAATTTGAAGCC
*
8363079 TAATTTGATTAATTTTGCCCATTTTGCTTACGGTCATTATGATTAATAT
66 TAATTTAATTAATTTTGCCCATTTTGCTTACGGTCATTATGATTAATAT
* * *
8363128 TTTTGTTGGTACTGAATTTTGGTCATTTTGTTTTAGACCAATTTTGTTGAAATTAATTTGAAGCC
1 TTTTGTTGGTAATAAATTTTGATCATTTTGTTTTAGACCAATTTTGTTGAAATTAATTTGAAGCC
8363193 TAATTTAATTAATTTTGCCCATTTTGCT
66 TAATTTAATTAATTTTGCCCATTTTGCT
8363221 CAACATTATA
Statistics
Matches: 88, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
114 88 1.00
ACGTcount: A:0.25, C:0.10, G:0.15, T:0.50
Consensus pattern (114 bp):
TTTTGTTGGTAATAAATTTTGATCATTTTGTTTTAGACCAATTTTGTTGAAATTAATTTGAAGCC
TAATTTAATTAATTTTGCCCATTTTGCTTACGGTCATTATGATTAATAT
Found at i:8368077 original size:14 final size:15
Alignment explanation
Indices: 8368058--8368086 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
8368048 CATTTGTTAA
8368058 AATTTTT-ATTTTTT
1 AATTTTTAATTTTTT
8368072 AATTTTTAATTTTTT
1 AATTTTTAATTTTTT
8368087 GAAAAAGATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
AATTTTTAATTTTTT
Found at i:8373042 original size:3 final size:3
Alignment explanation
Indices: 8373036--8373070 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
8373026 TTATTATTAT
* *
8373036 TAC TAC TAT TAC TAC TAC TAC TAC TAC TGC TAC TA
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
8373071 TTGTTAGAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.31, C:0.29, G:0.03, T:0.37
Consensus pattern (3 bp):
TAC
Found at i:8373045 original size:9 final size:9
Alignment explanation
Indices: 8373033--8373072 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
8373023 TTGTTATTAT
8373033 TATTACTAC
1 TATTACTAC
8373042 TATTACTAC
1 TATTACTAC
*
8373051 TACTACTAC
1 TATTACTAC
* *
8373060 TACTGCTAC
1 TATTACTAC
8373069 TATT
1 TATT
8373073 GTTAGAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.30, C:0.25, G:0.03, T:0.42
Consensus pattern (9 bp):
TATTACTAC
Found at i:8373098 original size:14 final size:14
Alignment explanation
Indices: 8373079--8373109 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
8373069 TATTGTTAGA
8373079 AAAAAATTAAAATT
1 AAAAAATTAAAATT
*
8373093 AAAAAATTAAAGTT
1 AAAAAATTAAAATT
8373107 AAA
1 AAA
8373110 TACCAATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (14 bp):
AAAAAATTAAAATT
Found at i:8374635 original size:3 final size:3
Alignment explanation
Indices: 8374627--8374660 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
8374617 AACTTTAAAA
8374627 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
8374661 CATTTTTATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:8375611 original size:152 final size:149
Alignment explanation
Indices: 8375443--8375888 Score: 548
Period size: 152 Copynumber: 3.0 Consensus size: 149
8375433 CCCTTCTCTA
* * *
8375443 ATTTTTTTTTGTTTTTGCCATATCTTGGAAAACTATTGAACTCTCCATGCCTTCATAAAACTTTC
1 ATTTTTTTTTGTTTTTGCCATATCTTGGAAAGCTATTGAACTCTCTATGCCTTCATGAAACTTTC
* * * *
8375508 ATTTATTAAAAGAAGGATTTGGCAAACCAAAAATATGAACTTTTAAGGCGACGAAAAGGATGGAA
66 ATTTATCAAAA-AAGGATTTGGCAAACCAAAAACATGAACTTTCAAGGCAACGAAAAGGATGGAA
8375573 GTTGGTTTCAAAAACTTTTTCC
130 GTTGGTTTCAAAAAC-TTTT-C
* * *
8375595 ATTTTTTTTTGTTTTTGTCGTATCTTGGAAAGCTATTAAACTCTCTATGCCTTCATGAAACTTTC
1 ATTTTTTTTTGTTTTTGCCATATCTTGGAAAGCTATTGAACTCTCTATGCCTTCATGAAACTTTC
* *
8375660 ATTTATCAAAAAATGGATTTGGCAAACCAAAAAACATGAACTTTCAAGGTAACGAAAGGGATGGA
66 ATTTATCAAAAAA-GGATTTGGCAAACC-AAAAACATGAACTTTCAAGGCAACGAAAAGGATGGA
* * *
8375725 AGTTGGTTTTAGAAACTTTTG
129 AGTTGGTTTCAAAAACTTTTC
* * * *
8375746 A---CTATTT-TTCTAGCCATATCTTGGAAAGCTATTGAACTCTCTATGCCTTCATGAAACTTTC
1 ATTTTTTTTTGTTTTTGCCATATCTTGGAAAGCTATTGAACTCTCTATGCCTTCATGAAACTTTC
* *
8375807 ATTTATCAAAATAAGGATTAGGCAAACCAAAAAACATG-A--TTCAAGGTAAC-AAAAGAGATGG
66 ATTTATCAAAA-AAGGATTTGGCAAACC-AAAAACATGAACTTTCAAGGCAACGAAAAG-GATGG
* * *
8375868 AAGATGGTTTTAGAAACTTTT
128 AAGTTGGTTTCAAAAACTTTT
8375889 TGTTGCTGTT
Statistics
Matches: 265, Mismatches: 25, Indels: 16
0.87 0.08 0.05
Matches are distributed among these distances:
143 4 0.02
144 36 0.14
146 1 0.00
147 83 0.31
148 6 0.02
151 3 0.01
152 87 0.33
153 45 0.17
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.35
Consensus pattern (149 bp):
ATTTTTTTTTGTTTTTGCCATATCTTGGAAAGCTATTGAACTCTCTATGCCTTCATGAAACTTTC
ATTTATCAAAAAAGGATTTGGCAAACCAAAAACATGAACTTTCAAGGCAACGAAAAGGATGGAAG
TTGGTTTCAAAAACTTTTC
Found at i:8375811 original size:147 final size:150
Alignment explanation
Indices: 8375450--8375888 Score: 552
Period size: 147 Copynumber: 3.0 Consensus size: 150
8375440 CTAATTTTTT
* * * * * *
8375450 TTTGTTTTTGCCATATCTTGGAAAACTATTGAACTCTCCATGCCTTCATAAAACTTTCATTTATT
1 TTTGTTCTAGCCATATCTTGGAAAGCTATTGAACTCTCTATGCCTTCATGAAACTTTCATTTATC
* * ** *
8375515 AAAAGAAGGATTTGGCAAACC-AAAAATATGAACTTTTAAGGCGACGAAAAGGATGGAAGTTGGT
66 AAAAGAAGGATTTGGCAAACCAAAAAACATGAACTTTCAAGGTAACGAAAGGGATGGAAGTTGGT
* * * *
8375579 TTCAAAAACTTTTTCCATTTTTT
131 TTTAGAAAC-TTTTCCA--TCTA
* * * * *
8375602 TTTGTTTTTGTCGTATCTTGGAAAGCTATTAAACTCTCTATGCCTTCATGAAACTTTCATTTATC
1 TTTGTTCTAGCCATATCTTGGAAAGCTATTGAACTCTCTATGCCTTCATGAAACTTTCATTTATC
8375667 AAAA-AATGGATTTGGCAAACCAAAAAACATGAACTTTCAAGGTAACGAAAGGGATGGAAGTTGG
66 AAAAGAA-GGATTTGGCAAACCAAAAAACATGAACTTTCAAGGTAACGAAAGGGATGGAAGTTGG
*
8375731 TTTTAGAAACTTTT-GA-CTA
130 TTTTAGAAACTTTTCCATCTA
8375750 TTT-TTCTAGCCATATCTTGGAAAGCTATTGAACTCTCTATGCCTTCATGAAACTTTCATTTATC
1 TTTGTTCTAGCCATATCTTGGAAAGCTATTGAACTCTCTATGCCTTCATGAAACTTTCATTTATC
* * * * *
8375814 AAAATAAGGATTAGGCAAACCAAAAAACATG-A--TTCAAGGTAACAAAAGAGATGGAAGATGGT
66 AAAAGAAGGATTTGGCAAACCAAAAAACATGAACTTTCAAGGTAACGAAAGGGATGGAAGTTGGT
8375876 TTTAGAAACTTTT
131 TTTAGAAACTTTT
8375889 TGTTGCTGTT
Statistics
Matches: 258, Mismatches: 26, Indels: 14
0.87 0.09 0.05
Matches are distributed among these distances:
144 40 0.16
146 1 0.00
147 83 0.32
148 6 0.02
151 3 0.01
152 80 0.31
153 45 0.17
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (150 bp):
TTTGTTCTAGCCATATCTTGGAAAGCTATTGAACTCTCTATGCCTTCATGAAACTTTCATTTATC
AAAAGAAGGATTTGGCAAACCAAAAAACATGAACTTTCAAGGTAACGAAAGGGATGGAAGTTGGT
TTTAGAAACTTTTCCATCTA
Found at i:8378724 original size:19 final size:19
Alignment explanation
Indices: 8378700--8378737 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
8378690 TGAATGGCTA
8378700 CCATGCAAA-AAAAGCAAAT
1 CCATGCAAACAAAAG-AAAT
8378719 CCATGCAAACAAAAGAAAT
1 CCATGCAAACAAAAGAAAT
8378738 GAAGCCTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.58, C:0.21, G:0.11, T:0.11
Consensus pattern (19 bp):
CCATGCAAACAAAAGAAAT
Found at i:8379109 original size:32 final size:29
Alignment explanation
Indices: 8379066--8379124 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 29
8379056 ATAAAATACG
8379066 AAATACAAAAAAAATATACCAAAAATAATATA
1 AAATAC-AAAAAAATATA-CAAAAA-AATATA
*
8379098 AAATACCAAAAAATATACAAAAAAATA
1 AAATACAAAAAAATATACAAAAAAATA
8379125 AAACAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 4 0.15
30 6 0.23
31 10 0.38
32 6 0.23
ACGTcount: A:0.73, C:0.10, G:0.00, T:0.17
Consensus pattern (29 bp):
AAATACAAAAAAATATACAAAAAAATATA
Found at i:8379119 original size:19 final size:19
Alignment explanation
Indices: 8379081--8379119 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
8379071 CAAAAAAAAT
*
8379081 ATACCAAAAATAATATAAA
1 ATACCAAAAATAATACAAA
8379100 ATACCAAAAA-ATATACAAA
1 ATACCAAAAATA-ATACAAA
8379119 A
1 A
8379120 AAATAAAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 1 0.06
19 17 0.94
ACGTcount: A:0.69, C:0.13, G:0.00, T:0.18
Consensus pattern (19 bp):
ATACCAAAAATAATACAAA
Found at i:8379120 original size:12 final size:11
Alignment explanation
Indices: 8379046--8379144 Score: 62
Period size: 11 Copynumber: 8.9 Consensus size: 11
8379036 TCAATTTGTC
8379046 TAAAAAAAATA
1 TAAAAAAAATA
8379057 TAAAATACGAAATA
1 TAAAA-A--AAATA
*
8379071 CAAAAAAAATA
1 TAAAAAAAATA
**
8379082 TACCAAAAATA
1 TAAAAAAAATA
* *
8379093 -ATATAAAATA
1 TAAAAAAAATA
**
8379103 -CCAAAAAATA
1 TAAAAAAAATA
8379113 TACAAAAAAATA
1 TA-AAAAAAATA
8379125 -AAACAAAAA-A
1 TAAA-AAAAATA
8379135 TAAAAAAAAT
1 TAAAAAAAAT
8379145 CGAGGGTGGT
Statistics
Matches: 68, Mismatches: 12, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
10 22 0.32
11 27 0.40
12 9 0.13
13 1 0.01
14 9 0.13
ACGTcount: A:0.75, C:0.08, G:0.01, T:0.16
Consensus pattern (11 bp):
TAAAAAAAATA
Found at i:8379140 original size:31 final size:31
Alignment explanation
Indices: 8379074--8379141 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 31
8379064 CGAAATACAA
* * * *
8379074 AAAAAATATACCAAAAATAATATAAAATACC
1 AAAAAATATACAAAAAATAAAACAAAATAAC
*
8379105 AAAAAATATACAAAAAAATAAAACAAAA-AAT
1 AAAAAATATAC-AAAAAATAAAACAAAATAAC
8379136 AAAAAA
1 AAAAAA
8379142 AATCGAGGGT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
31 18 0.58
32 13 0.42
ACGTcount: A:0.76, C:0.09, G:0.00, T:0.15
Consensus pattern (31 bp):
AAAAAATATACAAAAAATAAAACAAAATAAC
Found at i:8381692 original size:29 final size:31
Alignment explanation
Indices: 8381640--8381714 Score: 75
Period size: 30 Copynumber: 2.5 Consensus size: 31
8381630 TTTAGTTTTC
* * * *
8381640 ATTTTGTTTTTATGTTTTTAAAT-ATTTTAT
1 ATTTTGTTATTATATTCTTAAATAATTATAT
*
8381670 TTTTTGTTATTATATTCTT-AATAATTATAT
1 ATTTTGTTATTATATTCTTAAATAATTATAT
*
8381700 ATTTT-TTATTTTATT
1 ATTTTGTTATTATATT
8381715 ATAATAATAA
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
29 12 0.32
30 25 0.68
ACGTcount: A:0.25, C:0.01, G:0.04, T:0.69
Consensus pattern (31 bp):
ATTTTGTTATTATATTCTTAAATAATTATAT
Found at i:8384012 original size:18 final size:18
Alignment explanation
Indices: 8383982--8384017 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
8383972 TAATTAAATC
8383982 ATAAAGAATAAAATAAAA
1 ATAAAGAATAAAATAAAA
8384000 ATAAATGAA-AAAATAAAA
1 ATAAA-GAATAAAATAAAA
8384018 TTAGTTACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.82
19 3 0.18
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.17
Consensus pattern (18 bp):
ATAAAGAATAAAATAAAA
Found at i:8384571 original size:16 final size:14
Alignment explanation
Indices: 8384529--8384573 Score: 54
Period size: 16 Copynumber: 3.0 Consensus size: 14
8384519 TGTTCAATAA
8384529 TTAAAAATTAAAAT
1 TTAAAAATTAAAAT
*
8384543 TTAACAATCTAAAAT
1 TTAAAAAT-TAAAAT
8384558 ATTAAAAAATTAAAAT
1 -TT-AAAAATTAAAAT
8384574 GCTATAGGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
14 7 0.27
15 6 0.23
16 8 0.31
17 5 0.19
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (14 bp):
TTAAAAATTAAAAT
Found at i:8387686 original size:95 final size:98
Alignment explanation
Indices: 8387463--8387739 Score: 304
Period size: 97 Copynumber: 2.9 Consensus size: 98
8387453 AAAACTTATT
* * * *
8387463 AAAATAGAAAATTTTGACATTTATTTATTTCAAATTATAAAACTAT-ATAAAA-ATATAAAAGTA
1 AAAATAGAAAATTTTGAAATTTATTTATTTTAAATTATAAAA-TTTGATAAAATATATAAAACTA
8387526 TATTATATCTAAAAATAAAAAACAAAAATTCTTA
65 TATTATATCTAAAAATAAAAAACAAAAATTCTTA
* * *
8387560 AAAATAGAAAATTTTAAAACTTATTTATTTTAAACTATAAAATTTGATAAAATATATTAAAACTA
1 AAAATAGAAAATTTTGAAATTTATTTATTTTAAATTATAAAATTTGATAAAATATA-TAAAACTA
* *
8387625 TATTATACTTTTAAAAA-ATAAAA-AAAAA-T-TT-
65 TATTATA--TCTAAAAATAAAAAACAAAAATTCTTA
* * * *
8387656 AAAA-GGAAAATTTTGAAATTTATTTATTTTAAATTATAAAAGTAGAT-AAA-ATATAGAACTAT
1 AAAATAGAAAATTTTGAAATTTATTTATTTTAAATTATAAAATTTGATAAAATATATAAAACTAT
* *
8387718 ATTACATCTAAACATTAAAAAA
66 ATTATATCTAAA-AATAAAAAA
8387740 TTTTAAAATA
Statistics
Matches: 153, Mismatches: 20, Indels: 19
0.80 0.10 0.10
Matches are distributed among these distances:
90 5 0.03
91 1 0.01
92 18 0.12
93 3 0.02
94 3 0.02
95 37 0.24
96 6 0.04
97 45 0.29
98 4 0.03
99 19 0.12
100 5 0.03
101 7 0.05
ACGTcount: A:0.55, C:0.05, G:0.04, T:0.36
Consensus pattern (98 bp):
AAAATAGAAAATTTTGAAATTTATTTATTTTAAATTATAAAATTTGATAAAATATATAAAACTAT
ATTATATCTAAAAATAAAAAACAAAAATTCTTA
Found at i:8387756 original size:15 final size:16
Alignment explanation
Indices: 8387736--8387768 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
8387726 TAAACATTAA
8387736 AAAATTT-TAAAATAT
1 AAAATTTATAAAATAT
8387751 AAAATTTGATAAAATAT
1 AAAATTT-ATAAAATAT
8387768 A
1 A
8387769 TTAAAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (16 bp):
AAAATTTATAAAATAT
Found at i:8388028 original size:92 final size:92
Alignment explanation
Indices: 8387878--8388113 Score: 234
Period size: 92 Copynumber: 2.6 Consensus size: 92
8387868 AAAAATTCCT
* * * ** *
8387878 AAAAATAGAAAATTTTAAAATTTATTTAATTTAAA-CTATAAAATGTCATATTATATA-TT-AAT
1 AAAAATAGAAAATTTTAAAATTTATTT-ATTTAAATC-ATAATATTTGATAAAACATATTTAAAT
*
8387940 ATATTAGATTT-AAAAATTAAAAAAATATATT
64 ATATTAGATTTGAAAAA-T-AAAAAATAT-TA
* * *
8387971 CAAAA-AGAAAATTTTGAAATTTACTTATTTTAAATCATAATATTTGATAAAACATATTTAAAAT
1 AAAAATAGAAAATTTTAAAATTTATTTA-TTTAAATCATAATATTTGATAAAACATATTT-AAAT
*
8388035 ATATTATATTTGAAAAATAAAAAATATTA
64 ATATTAGATTTGAAAAATAAAAAATATTA
* *
8388064 AAAAATAGAAAA-TTTAAAAGCTTATTTATTTAAATTATAATATTTG-TAAA
1 AAAAATAGAAAATTTTAAAA-TTTATTTATTTAAATCATAATATTTGATAAA
8388114 TGTGTTACAA
Statistics
Matches: 119, Mismatches: 16, Indels: 17
0.78 0.11 0.11
Matches are distributed among these distances:
91 1 0.01
92 43 0.36
93 35 0.29
94 21 0.18
95 14 0.12
96 5 0.04
ACGTcount: A:0.53, C:0.03, G:0.04, T:0.40
Consensus pattern (92 bp):
AAAAATAGAAAATTTTAAAATTTATTTATTTAAATCATAATATTTGATAAAACATATTTAAATAT
ATTAGATTTGAAAAATAAAAAATATTA
Found at i:8388029 original size:29 final size:28
Alignment explanation
Indices: 8387996--8388051 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 28
8387986 GAAATTTACT
*
8387996 TATTTTAAATCATA-ATATTTGATAAAACA
1 TATTTAAAAT-ATATATATTTGA-AAAACA
8388025 TATTTAAAATATATTATATTTGAAAAA
1 TATTTAAAATATA-TATATTTGAAAAA
8388052 TAAAAAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 3 0.12
29 13 0.54
30 8 0.33
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.43
Consensus pattern (28 bp):
TATTTAAAATATATATATTTGAAAAACA
Found at i:8388061 original size:18 final size:17
Alignment explanation
Indices: 8388047--8388082 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
8388037 ATTATATTTG
8388047 AAAAATAAAAAATATTA
1 AAAAATAAAAAATATTA
*
8388064 AAAAATAGAAAAT-TTA
1 AAAAATAAAAAATATTA
8388080 AAA
1 AAA
8388083 GCTTATTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (17 bp):
AAAAATAAAAAATATTA
Found at i:8388067 original size:17 final size:16
Alignment explanation
Indices: 8388042--8388082 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
8388032 AATATATTAT
*
8388042 ATTTGAAAAATAAAAA
1 ATTTAAAAAATAAAAA
*
8388058 ATATTAAAAAATAGAAA
1 AT-TTAAAAAATAAAAA
8388075 ATTTAAAA
1 ATTTAAAA
8388083 GCTTATTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (16 bp):
ATTTAAAAAATAAAAA
Found at i:8391757 original size:2 final size:2
Alignment explanation
Indices: 8391750--8391796 Score: 76
Period size: 2 Copynumber: 23.5 Consensus size: 2
8391740 ATTATGTTCG
* *
8391750 TA TA TA TA TA TA TA TA TG TA TA TA TA TA TA TA TT TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8391792 TA TA T
1 TA TA T
8391797 TGAGTGTGAA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (2 bp):
TA
Found at i:8400588 original size:204 final size:199
Alignment explanation
Indices: 8400226--8400629 Score: 682
Period size: 204 Copynumber: 2.0 Consensus size: 199
8400216 TTCTCTGGGA
*
8400226 TGGTGATTTCTTCTGGCTTTCCACTTTTTTTTCCCCTTAATTGTAATAATCAATGGGAATAATGT
1 TGGTGATTTCTTCTGGCTTTCCACTTTTTTTTCCCCTTAATTGTAATAATCAATGAGAATAATGT
* *
8400291 ATAGGTTGGGTTTTTTTTTTGTGTTGTTTTTAGCAATGATGGAAGGGGAGAAAAATTAAATTTGG
66 ATAGGTTGGGTTTTTTTTTTGTGTTGTTTTTAGCAATGATGGAAGAGGAGAAAAATGAAATTTGG
* * * *
8400356 GTAAGAAGTGGTAATGTAGGTTGGAAATTATTTGAATGTGGTTTGGAAAAACTGGCAACAGGTAG
131 GTAAGAAGTGGTAATGTAGGTTGGAAATTATTGGAATGTGGGTTGGAAAAACAGGCAACAGATAG
8400421 CTGC
196 CTGC
*
8400425 TGGTGATTTCTTCTGGCTTTCCACTTTTTTTTCTCCTTAATTGTAATAATCAATGAGAATAATGT
1 TGGTGATTTCTTCTGGCTTTCCACTTTTTTTTCCCCTTAATTGTAATAATCAATGAGAATAATGT
*
8400490 ATAGGTTGGTTTTTTTTTTTTTTTTGTGTTGTTTTTAGCAATGATGGAAGAGGAGAAAAATGAAA
66 ATAGGTTGG-----GTTTTTTTTTTGTGTTGTTTTTAGCAATGATGGAAGAGGAGAAAAATGAAA
8400555 TTTGGGTAAGAAGTGGTAATGTAGGTTGGAAATTATTGGAATGTGGGTTGGAAAAACAGGCAACA
126 TTTGGGTAAGAAGTGGTAATGTAGGTTGGAAATTATTGGAATGTGGGTTGGAAAAACAGGCAACA
8400620 GATAGCTGC
191 GATAGCTGC
8400629 T
1 T
8400630 TTTGTAAGTA
Statistics
Matches: 191, Mismatches: 9, Indels: 5
0.93 0.04 0.02
Matches are distributed among these distances:
199 72 0.38
204 119 0.62
ACGTcount: A:0.27, C:0.08, G:0.25, T:0.40
Consensus pattern (199 bp):
TGGTGATTTCTTCTGGCTTTCCACTTTTTTTTCCCCTTAATTGTAATAATCAATGAGAATAATGT
ATAGGTTGGGTTTTTTTTTTGTGTTGTTTTTAGCAATGATGGAAGAGGAGAAAAATGAAATTTGG
GTAAGAAGTGGTAATGTAGGTTGGAAATTATTGGAATGTGGGTTGGAAAAACAGGCAACAGATAG
CTGC
Found at i:8406426 original size:2 final size:2
Alignment explanation
Indices: 8406413--8406447 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
8406403 ATTACATGCA
*
8406413 TC TC TT TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
8406448 ATATATATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (2 bp):
TC
Found at i:8406452 original size:2 final size:2
Alignment explanation
Indices: 8406447--8406472 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8406437 TCTCTCTCTC
8406447 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
8406473 CACACACACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8406477 original size:2 final size:2
Alignment explanation
Indices: 8406472--8406506 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
8406462 ATATATATAT
8406472 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
8406507 TGTAAACTAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:8409273 original size:22 final size:22
Alignment explanation
Indices: 8409248--8409290 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
8409238 TAGTATTATT
* *
8409248 ATAAACGAATAGCAAATGAATA
1 ATAAACAAATAACAAATGAATA
*
8409270 ATAAACAAATAATAAATGAAT
1 ATAAACAAATAACAAATGAAT
8409291 GAGTTTTAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.63, C:0.07, G:0.09, T:0.21
Consensus pattern (22 bp):
ATAAACAAATAACAAATGAATA
Found at i:8420833 original size:12 final size:12
Alignment explanation
Indices: 8420811--8420852 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
8420801 ATATAAAAAA
8420811 TATTT-TTTAAT
1 TATTTATTTAAT
8420822 TATTTATTTAAT
1 TATTTATTTAAT
* *
8420834 TATATATATAAT
1 TATTTATTTAAT
*
8420846 TTTTTAT
1 TATTTAT
8420853 ATTTATTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
11 5 0.19
12 21 0.81
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
TATTTATTTAAT
Found at i:8420858 original size:30 final size:32
Alignment explanation
Indices: 8420812--8420870 Score: 95
Period size: 30 Copynumber: 1.9 Consensus size: 32
8420802 TATAAAAAAT
8420812 ATTTTTTAATTATTTATTTAATTATATATATA
1 ATTTTTTAATTATTTATTTAATTATATATATA
*
8420844 ATTTTTT-A-TATTTATTTAATTTTATAT
1 ATTTTTTAATTATTTATTTAATTATATAT
8420871 CTACATTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 18 0.69
31 1 0.04
32 7 0.27
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (32 bp):
ATTTTTTAATTATTTATTTAATTATATATATA
Found at i:8420866 original size:16 final size:16
Alignment explanation
Indices: 8420822--8420870 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
8420812 ATTTTTTAAT
*
8420822 TATTTATTTAATTATA
1 TATTTATTTAATTTTA
* *
8420838 TATATAATT--TTTTA
1 TATTTATTTAATTTTA
8420852 TATTTATTTAATTTTA
1 TATTTATTTAATTTTA
8420868 TAT
1 TAT
8420871 CTACATTAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
14 11 0.42
16 15 0.58
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TATTTATTTAATTTTA
Found at i:8422202 original size:19 final size:19
Alignment explanation
Indices: 8422178--8422214 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
8422168 TTACAAAAAA
*
8422178 AAACTTATTATTATATATC
1 AAACTTATTATTACATATC
8422197 AAACTTATTATTACATAT
1 AAACTTATTATTACATAT
8422215 ATTATATGCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (19 bp):
AAACTTATTATTACATATC
Found at i:8423457 original size:19 final size:19
Alignment explanation
Indices: 8423421--8423457 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
8423411 TTACTTTTTA
* *
8423421 TTTAAATTTTAAATAAATC
1 TTTAAATTTAAAACAAATC
8423440 TTTAAATTTAAAACAAAT
1 TTTAAATTTAAAACAAAT
8423458 AATTCAATCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.43
Consensus pattern (19 bp):
TTTAAATTTAAAACAAATC
Found at i:8423583 original size:19 final size:20
Alignment explanation
Indices: 8423561--8423617 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 20
8423551 AATATTCATA
8423561 AAATAATATTTTTAAATAT-
1 AAATAATATTTTTAAATATG
* *
8423580 AAATTATATCTTAATTATATATG
1 AAATAATAT-TT--TTAAATATG
8423603 AATATAATATTTTTA
1 AA-ATAATATTTTTA
8423618 TTTAATTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
19 8 0.27
20 2 0.07
21 3 0.10
22 7 0.23
23 4 0.13
24 6 0.20
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (20 bp):
AAATAATATTTTTAAATATG
Found at i:8424384 original size:32 final size:35
Alignment explanation
Indices: 8424348--8424430 Score: 93
Period size: 35 Copynumber: 2.5 Consensus size: 35
8424338 ATTTGATTTG
* *
8424348 AGAAATTA-TTTTTGTTTT-TA-TTTTTATTTTTT
1 AGAAAATACTTTTGGTTTTCTATTTTTTATTTTTT
*
8424380 AGAAAATACTTTTGGTTTTCTATTTTTTGTTTTTT
1 AGAAAATACTTTTGGTTTTCTATTTTTTATTTTTT
*
8424415 AAAAAAT-CTATTTGGT
1 AGAAAATACT-TTTGGT
8424431 GAATGAAAAC
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
32 7 0.16
33 9 0.21
34 4 0.09
35 23 0.53
ACGTcount: A:0.25, C:0.04, G:0.10, T:0.61
Consensus pattern (35 bp):
AGAAAATACTTTTGGTTTTCTATTTTTTATTTTTT
Found at i:8425987 original size:26 final size:25
Alignment explanation
Indices: 8425958--8426006 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
8425948 TTTTATATTT
* *
8425958 AATTTATTTACTTAAATTTATGAATG
1 AATTTATTTA-TAAAATATATGAATG
*
8425984 AATTTTTTTATAAAATATATGAA
1 AATTTATTTATAAAATATATGAA
8426007 ATTAATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 11 0.55
26 9 0.45
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (25 bp):
AATTTATTTATAAAATATATGAATG
Found at i:8426022 original size:12 final size:13
Alignment explanation
Indices: 8425997--8426025 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
8425987 TTTTTTATAA
8425997 AATATATGAAATT
1 AATATATGAAATT
8426010 AATATAT-AAATT
1 AATATATGAAATT
8426022 AATA
1 AATA
8426026 AAAAATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (13 bp):
AATATATGAAATT
Found at i:8437813 original size:14 final size:14
Alignment explanation
Indices: 8437794--8437821 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
8437784 GTCAGAATTA
8437794 ATCATGTTGTATGG
1 ATCATGTTGTATGG
8437808 ATCATGTTGTATGG
1 ATCATGTTGTATGG
8437822 CGAGTTGACC
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:0.21, C:0.07, G:0.29, T:0.43
Consensus pattern (14 bp):
ATCATGTTGTATGG
Found at i:8442359 original size:18 final size:18
Alignment explanation
Indices: 8442292--8442359 Score: 59
Period size: 18 Copynumber: 3.7 Consensus size: 18
8442282 TAAAATTTTT
*
8442292 TTAATAATATTAATATAATTA
1 TTAA-AATATTAAAAT-A-TA
8442313 TTAAAATATTCAAAAT-TA
1 TTAAAATATT-AAAATATA
* *
8442331 TT-TATTATTAAAATATA
1 TTAAAATATTAAAATATA
8442348 TTAAAATATTAA
1 TTAAAATATTAA
8442360 TATAAAAAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
16 5 0.13
17 9 0.23
18 11 0.28
20 6 0.15
21 8 0.21
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (18 bp):
TTAAAATATTAAAATATA
Found at i:8442422 original size:27 final size:28
Alignment explanation
Indices: 8442353--8442432 Score: 87
Period size: 27 Copynumber: 2.9 Consensus size: 28
8442343 ATATATTAAA
*
8442353 ATATTAATATAAAAAATAATT-ATATTTG
1 ATATTAATATAAAAAAT-ATTAAAATTTG
*
8442381 A-A-TAATAATATAAAATATTAAAATTT-
1 ATATTAAT-ATAAAAAATATTAAAATTTG
8442407 ATATTAATATAAAAAATACTTAAAAT
1 ATATTAATATAAAAAATA-TTAAAAT
8442433 AAAACTATTT
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
26 8 0.18
27 24 0.55
28 12 0.27
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (28 bp):
ATATTAATATAAAAAATATTAAAATTTG
Found at i:8442537 original size:26 final size:25
Alignment explanation
Indices: 8442484--8442642 Score: 82
Period size: 23 Copynumber: 6.2 Consensus size: 25
8442474 TAATATTTTT
* *
8442484 TATTAATA-ATATTTATTAATATATTA
1 TATTAATATATA-TTATTTAT-TAATA
8442510 TATTAATAGTATATTATTTATTAATA
1 TATTAATA-TATATTATTTATTAATA
* * *
8442536 TACT-AT-TATAATATTAATTAATTA
1 TATTAATATATATTATTTATTAA-TA
* * *
8442560 AATTAATA-ATATTTATTACATT-ATT
1 TATTAATATATA-TTATT-TATTAATA
8442585 TATTAATATAATTTTATTATTTATT-ATAA
1 TATTAATAT-A---TATTATTTATTAAT-A
8442614 TATT-ATA-ATATTATTTATTAAATA
1 TATTAATATATATTATTTATT-AATA
8442638 TATTA
1 TATTA
8442643 TTTATTTATG
Statistics
Matches: 104, Mismatches: 13, Indels: 33
0.69 0.09 0.22
Matches are distributed among these distances:
23 24 0.23
24 9 0.09
25 17 0.16
26 21 0.20
27 11 0.11
28 11 0.11
29 9 0.09
30 2 0.02
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (25 bp):
TATTAATATATATTATTTATTAATA
Found at i:8442665 original size:78 final size:76
Alignment explanation
Indices: 8442452--8442665 Score: 213
Period size: 75 Copynumber: 2.9 Consensus size: 76
8442442 TATTATTCTT
8442452 TATATTATTTATT-A-AT-ATATTATAATATT--TT--TT--ATTAATAATATTTATTAATA-TA
1 TATATTATTTATTAATATAATATTATAATATTAATTAATTAAATTAATAATATTTATTAATATTA
8442507 TTATATTAATAG
66 TT-TATTAATAG
* *
8442519 TATATTATTTATTAATATACTATTATAATATTAATTAATTAAATTAATAATATTTATT-ACATTA
1 TATATTATTTATTAATATAATATTATAATATTAATTAATTAAATTAATAATATTTATTAATATTA
8442583 TTTATTAATA-
66 TTTATTAATAG
* * * * *
8442593 TA-ATTTTATTATTTATTATAATATTATAATATT-ATTTATTAAATATATTATTTATTTATGTAA
1 TATATTAT-TTA-TTAATATAATATTATAATATTAATTAATTAAAT-TAATA-ATATTTAT-TAA
8442656 TATTATTTAT
61 TATTATTTAT
8442666 AAGTAAAACT
Statistics
Matches: 122, Mismatches: 9, Indels: 21
0.80 0.06 0.14
Matches are distributed among these distances:
67 13 0.11
68 1 0.01
69 2 0.02
70 12 0.10
72 2 0.02
73 4 0.03
74 17 0.14
75 33 0.27
76 27 0.22
77 1 0.01
78 10 0.08
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.57
Consensus pattern (76 bp):
TATATTATTTATTAATATAATATTATAATATTAATTAATTAAATTAATAATATTTATTAATATTA
TTTATTAATAG
Found at i:8443196 original size:14 final size:16
Alignment explanation
Indices: 8443171--8443203 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
8443161 TTTATATTTT
8443171 TTTTAGAAAAAATA-A
1 TTTTAGAAAAAATATA
8443186 TTTTA-AAAAAATATA
1 TTTTAGAAAAAATATA
8443201 TTT
1 TTT
8443204 ATGAGTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (16 bp):
TTTTAGAAAAAATATA
Found at i:8443421 original size:14 final size:14
Alignment explanation
Indices: 8443402--8443428 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8443392 TAATTCTTAA
8443402 ATAATATTTTAAAC
1 ATAATATTTTAAAC
8443416 ATAATATTTTAAA
1 ATAATATTTTAAA
8443429 TTTAAATTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (14 bp):
ATAATATTTTAAAC
Found at i:8443744 original size:36 final size:36
Alignment explanation
Indices: 8443704--8443773 Score: 108
Period size: 36 Copynumber: 1.9 Consensus size: 36
8443694 ATTTTGTATA
8443704 TAATAAAATTA-TAAAATTATTTATTATTT-ATAAAAT
1 TAAT-AAATTATTAAAATTATTTATT-TTTAATAAAAT
8443740 TAATAAATTATTAAAATTATTTATTTTTAATAAA
1 TAATAAATTATTAAAATTATTTATTTTTAATAAA
8443774 TAATATTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
35 9 0.28
36 23 0.72
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (36 bp):
TAATAAATTATTAAAATTATTTATTTTTAATAAAAT
Found at i:8444325 original size:28 final size:28
Alignment explanation
Indices: 8444275--8444336 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
8444265 CTTGTAAATC
* ** *
8444275 CTTTTATTGTTTTTATTTTTTCCTACTT
1 CTTTTATTATTTTTATTCATTCCCACTT
8444303 CTTTTATTATTTTTATTCATTCCCACTT
1 CTTTTATTATTTTTATTCATTCCCACTT
8444331 CATTTT
1 C-TTTT
8444337 TTTTTATTTC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 25 0.86
29 4 0.14
ACGTcount: A:0.15, C:0.18, G:0.02, T:0.66
Consensus pattern (28 bp):
CTTTTATTATTTTTATTCATTCCCACTT
Found at i:8444350 original size:25 final size:25
Alignment explanation
Indices: 8444284--8444350 Score: 64
Period size: 28 Copynumber: 2.6 Consensus size: 25
8444274 CCTTTTATTG
* *
8444284 TTTTTATTTTTTCCTACTTCTTTTA
1 TTTTTATTTCTTCCCACTTCTTTTA
*
8444309 TTATTTTTATTCATTCCCACTTCATTTT-
1 TT-TTTAT-TTC-TTCCCACTTC-TTTTA
8444337 TTTTTATTTCTTCC
1 TTTTTATTTCTTCC
8444351 AATTTTTTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
25 6 0.18
26 7 0.21
27 6 0.18
28 11 0.32
29 4 0.12
ACGTcount: A:0.13, C:0.19, G:0.00, T:0.67
Consensus pattern (25 bp):
TTTTTATTTCTTCCCACTTCTTTTA
Found at i:8444481 original size:26 final size:27
Alignment explanation
Indices: 8444445--8444506 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
8444435 TTAAGCAAAA
* *
8444445 TTTTAAAAAAATT-CTTATTTAAAATT
1 TTTTTAAAAAATTACATATTTAAAATT
*
8444471 TTTTTAAAAAATTACATATTTATAATT
1 TTTTTAAAAAATTACATATTTAAAATT
*
8444498 TTCTTAAAA
1 TTTTTAAAA
8444507 TTTCATCTCT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 12 0.39
27 19 0.61
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (27 bp):
TTTTTAAAAAATTACATATTTAAAATT
Found at i:8453382 original size:22 final size:22
Alignment explanation
Indices: 8453357--8453406 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
8453347 TTGTAAAAAA
* *
8453357 ATTAAATATATATTTTATTTTT
1 ATTAAATATATATATAATTTTT
*
8453379 ATTAAATTTATATATAATTTTT
1 ATTAAATATATATATAATTTTT
*
8453401 AATAAA
1 ATTAAA
8453407 ATTTTAAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
ATTAAATATATATATAATTTTT
Found at i:8453394 original size:28 final size:28
Alignment explanation
Indices: 8453296--8453399 Score: 95
Period size: 28 Copynumber: 3.7 Consensus size: 28
8453286 TGTATCGTAT
* *
8453296 AAAATT-TATTTATATTATATTTTATATA
1 AAAATTATATATATATTTTATTTT-TATA
* * *
8453324 AAAATTATATATTATAATTTATATTGTAAA
1 AAAATTATATA-TATATTTTAT-TTTTATA
* *
8453354 AAAATTAAATATATATTTTATTTTTATT
1 AAAATTATATATATATTTTATTTTTATA
*
8453382 AAATTTATATATA-ATTTT
1 AAAATTATATATATATTTT
8453400 TAATAAAATT
Statistics
Matches: 61, Mismatches: 12, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
27 5 0.08
28 21 0.34
29 12 0.20
30 21 0.34
31 2 0.03
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (28 bp):
AAAATTATATATATATTTTATTTTTATA
Found at i:8453515 original size:21 final size:22
Alignment explanation
Indices: 8453480--8453520 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
8453470 AATGGAACTC
*
8453480 AATTTAACTTAAAATAATTATT
1 AATTTAACATAAAATAATTATT
8453502 AATTTAA-ATAAAATAATTA
1 AATTTAACATAAAATAATTA
8453521 AAAAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (22 bp):
AATTTAACATAAAATAATTATT
Found at i:8458803 original size:28 final size:26
Alignment explanation
Indices: 8458755--8458807 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
8458745 AAAAATTAAT
8458755 TTTAAAACTAAAATTTTTAAAATATA
1 TTTAAAACTAAAATTTTTAAAATATA
* *
8458781 TTTAAAATTAAATTTTTTATAAA-ATA
1 TTTAAAACTAAAATTTTTA-AAATATA
8458807 T
1 T
8458808 CAAAATATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 21 0.88
27 3 0.12
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (26 bp):
TTTAAAACTAAAATTTTTAAAATATA
Found at i:8458812 original size:25 final size:26
Alignment explanation
Indices: 8458758--8458813 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
8458748 AATTAATTTT
* *
8458758 AAAACTAAAATTTTTAAAATATATTT
1 AAAATTAAAATTTTTAAAATATATTC
*
8458784 AAAATTAAATTTTTTATAAA-ATA-TC
1 AAAATTAAAATTTTTA-AAATATATTC
8458809 AAAAT
1 AAAAT
8458814 ATAATTAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
25 6 0.23
26 17 0.65
27 3 0.12
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (26 bp):
AAAATTAAAATTTTTAAAATATATTC
Found at i:8460940 original size:34 final size:34
Alignment explanation
Indices: 8460900--8460967 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
8460890 AAAGTAAGAG
8460900 TTAGAACATGATGTTTTCTCTCATATATATATAT
1 TTAGAACATGATGTTTTCTCTCATATATATATAT
8460934 TTAGAACATGATGTTTTCTCTCATATATATATAT
1 TTAGAACATGATGTTTTCTCTCATATATATATAT
8460968 ATATATATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.32, C:0.12, G:0.09, T:0.47
Consensus pattern (34 bp):
TTAGAACATGATGTTTTCTCTCATATATATATAT
Found at i:8463501 original size:8 final size:8
Alignment explanation
Indices: 8463490--8463519 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
8463480 ATTAATTTTT
8463490 TATTTATA
1 TATTTATA
8463498 TATTTATA
1 TATTTATA
*
8463506 TAATTATA
1 TATTTATA
8463514 TATTTA
1 TATTTA
8463520 AAAAAATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
TATTTATA
Found at i:8463547 original size:21 final size:22
Alignment explanation
Indices: 8463512--8463557 Score: 76
Period size: 21 Copynumber: 2.1 Consensus size: 22
8463502 TATATAATTA
8463512 TATATTTAAAAAAATAATATTT
1 TATATTTAAAAAAATAATATTT
*
8463534 TATATTT-TAAAAATAATATTT
1 TATATTTAAAAAAATAATATTT
8463555 TAT
1 TAT
8463558 TAATTTTAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
TATATTTAAAAAAATAATATTT
Found at i:8470742 original size:14 final size:14
Alignment explanation
Indices: 8470725--8470755 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
8470715 TATTATAATA
*
8470725 ATTTATGCATGGTG
1 ATTTATGCATAGTG
8470739 ATTTATGCATAGTG
1 ATTTATGCATAGTG
8470753 ATT
1 ATT
8470756 GAATCTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.26, C:0.06, G:0.23, T:0.45
Consensus pattern (14 bp):
ATTTATGCATAGTG
Found at i:8472308 original size:21 final size:20
Alignment explanation
Indices: 8472284--8472324 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
8472274 TGTTTGCTTC
8472284 ACAATTGCATATAATTCATTT
1 ACAATTGCATATAATT-ATTT
* *
8472305 ACAATTTCATATCATTATTT
1 ACAATTGCATATAATTATTT
8472325 TTATATAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.37, C:0.15, G:0.02, T:0.46
Consensus pattern (20 bp):
ACAATTGCATATAATTATTT
Found at i:8473776 original size:165 final size:164
Alignment explanation
Indices: 8473480--8473795 Score: 458
Period size: 165 Copynumber: 1.9 Consensus size: 164
8473470 TTAGCAATTT
* *
8473480 TAGAGAAATTTAAAAGAATAAAATATTAATAACCAAAGTTAAGTATCTACGTTTTACTTTTCAAT
1 TAGAGAAATTTAAAAGAATAAAATATTAATAACCAAAGTTAAGTATCTACATTTTACTTTACAAT
* * * *
8473545 GAGAATTCTTAGTATAAGAAGTTCTCAAGCATTAGTACAATTAAACAGTTAAAGTAAAATATAAG
66 GAGAATTCTTAGTATAAAAAGTTCTCAAGCATTAATACAAATAAACAGTCAAAGTAAAATATAAG
8473610 ATATATATATTCTCATAATTTTATAGACGAATGA
131 ATATATATATTCTCATAATTTTATAGACGAATGA
* *
8473644 TAGAGAAATTTAAAAGAATAAAATATTAGTAACCAAA-TTCAAGTATCTTA-ATTTTGCCCTTTA
1 TAGAGAAATTTAAAAGAATAAAATATTAATAACCAAAGTT-AAGTATC-TACATTTT--ACTTTA
* * * *
8473707 C-ATGAGAATTTTTAGTATAAAAAGTTCTCATGTATTAATACAAATAAAGAGTCAAAGTAAAATA
62 CAATGAGAATTCTTAGTATAAAAAGTTCTCAAGCATTAATACAAATAAACAGTCAAAGTAAAATA
*
8473771 TAAGATATATTTATTCTCATAATTT
127 TAAGATATATATATTCTCATAATTT
8473796 AAATATGAAT
Statistics
Matches: 135, Mismatches: 13, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
163 2 0.01
164 47 0.35
165 81 0.60
166 5 0.04
ACGTcount: A:0.45, C:0.09, G:0.11, T:0.35
Consensus pattern (164 bp):
TAGAGAAATTTAAAAGAATAAAATATTAATAACCAAAGTTAAGTATCTACATTTTACTTTACAAT
GAGAATTCTTAGTATAAAAAGTTCTCAAGCATTAATACAAATAAACAGTCAAAGTAAAATATAAG
ATATATATATTCTCATAATTTTATAGACGAATGA
Found at i:8474177 original size:38 final size:37
Alignment explanation
Indices: 8474134--8474241 Score: 119
Period size: 36 Copynumber: 2.9 Consensus size: 37
8474124 CGAGTAATGA
*
8474134 AAGTGTTTTCCTAATGAAAATAGGAGAATAAGTAACAT
1 AAGTGTTTTCCTAA-AAAAATAGGAGAATAAGTAACAT
* **
8474172 AAGTGTTTTCCTAAAAAAATAGGAGAATGAGTAATGT
1 AAGTGTTTTCCTAAAAAAATAGGAGAATAAGTAACAT
* * * * *
8474209 GAGT-ATTTCTTTAAAAAATAGTAGAATAAGTAA
1 AAGTGTTTTCCTAAAAAAATAGGAGAATAAGTAA
8474242 TGAGGATGTT
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
36 24 0.40
37 22 0.37
38 14 0.23
ACGTcount: A:0.45, C:0.06, G:0.19, T:0.31
Consensus pattern (37 bp):
AAGTGTTTTCCTAAAAAAATAGGAGAATAAGTAACAT
Found at i:8474205 original size:37 final size:38
Alignment explanation
Indices: 8474134--8474205 Score: 119
Period size: 37 Copynumber: 1.9 Consensus size: 38
8474124 CGAGTAATGA
*
8474134 AAGTGTTTTCCTAATGAAAATAGGAGAATAAGTAACAT
1 AAGTGTTTTCCTAATAAAAATAGGAGAATAAGTAACAT
*
8474172 AAGTGTTTTCCTAA-AAAAATAGGAGAATGAGTAA
1 AAGTGTTTTCCTAATAAAAATAGGAGAATAAGTAA
8474206 TGTGAGTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
37 18 0.56
38 14 0.44
ACGTcount: A:0.46, C:0.07, G:0.19, T:0.28
Consensus pattern (38 bp):
AAGTGTTTTCCTAATAAAAATAGGAGAATAAGTAACAT
Found at i:8474252 original size:73 final size:71
Alignment explanation
Indices: 8474150--8474353 Score: 209
Period size: 73 Copynumber: 2.8 Consensus size: 71
8474140 TTTCCTAATG
* * * *
8474150 AAAATAGGAGAATAAGTAACATAAG-TGTTTTCCTAAAAAAATAGGAGAATGAGTAATG-TGAGT
1 AAAATAGGAGAATAAGT-A-ATAGGATGTTTACCTAAAAAAATA--AGAATAAGTAATGAAGA-T
8474213 ATTT-CTTTAA
61 ATTTCCTTTAA
*
8474223 AAAATAGTAGAATAAGTAATGAGGATGTTTACCT-AAAAAATAATAGAATAAGTAATGAAGATAT
1 AAAATAGGAGAATAAGTAAT-AGGATGTTTACCTAAAAAAAT-A-AGAATAAGTAATGAAGATAT
8474287 TTCCTTTAA
63 TTCCTTTAA
* * * *
8474296 AAAATAGGAGAATAATTATTAGGAATGTTTCCCTTAAAAATATAAGAATAAGTAATGA
1 AAAATAGGAGAATAAGTAATAGG-ATGTTTACC-TAAAAAAATAAGAATAAGTAATGA
8474354 GAATGCTTAA
Statistics
Matches: 112, Mismatches: 11, Indels: 16
0.81 0.08 0.12
Matches are distributed among these distances:
71 2 0.02
72 30 0.27
73 72 0.64
74 2 0.02
75 6 0.05
ACGTcount: A:0.48, C:0.05, G:0.17, T:0.30
Consensus pattern (71 bp):
AAAATAGGAGAATAAGTAATAGGATGTTTACCTAAAAAAATAAGAATAAGTAATGAAGATATTTC
CTTTAA
Found at i:8474358 original size:36 final size:37
Alignment explanation
Indices: 8474157--8474358 Score: 134
Period size: 36 Copynumber: 5.5 Consensus size: 37
8474147 ATGAAAATAG
* * * *
8474157 GAGAATAAGTAA-CATAAGTGTTTTCC-TAAAAAAATA
1 GAGAATAAGTAATGAGAA-TGTTTCCCTTAAAAATATA
* * * * *
8474193 GGAGAATGAGTAATGTGAGTATTT-CTTTAAAAA-ATA
1 -GAGAATAAGTAATGAGAATGTTTCCCTTAAAAATATA
* * *
8474229 GTAGAATAAGTAATGAGGATGTTTACCTAAAAAATA-A
1 G-AGAATAAGTAATGAGAATGTTTCCCTTAAAAATATA
* * *
8474266 TAGAATAAGTAATGA-AGATATTTCCTTTAAAAA-ATA
1 GAGAATAAGTAATGAGA-ATGTTTCCCTTAAAAATATA
* *
8474302 GGAGAATAA-TTATTAGGAATGTTTCCCTTAAAAATATA
1 -GAGAATAAGTAATGA-GAATGTTTCCCTTAAAAATATA
8474340 -AGAATAAGTAATGAGAATG
1 GAGAATAAGTAATGAGAATG
8474359 CTTAATTAAG
Statistics
Matches: 126, Mismatches: 27, Indels: 25
0.71 0.15 0.14
Matches are distributed among these distances:
35 2 0.02
36 64 0.51
37 54 0.43
38 6 0.05
ACGTcount: A:0.47, C:0.05, G:0.17, T:0.30
Consensus pattern (37 bp):
GAGAATAAGTAATGAGAATGTTTCCCTTAAAAATATA
Found at i:8474821 original size:19 final size:17
Alignment explanation
Indices: 8474763--8474819 Score: 78
Period size: 17 Copynumber: 3.2 Consensus size: 17
8474753 AGGAATACTT
8474763 TTTTAAAAATATATTTA
1 TTTTAAAAATATATTTA
**
8474780 TTTTAAATGCTTATATTTA
1 TTTTAAA--AATATATTTA
8474799 TTTTAAAAATATATTTA
1 TTTTAAAAATATATTTA
8474816 TTTT
1 TTTT
8474820 TTTTTTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
17 19 0.56
19 15 0.44
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (17 bp):
TTTTAAAAATATATTTA
Found at i:8474856 original size:231 final size:231
Alignment explanation
Indices: 8474595--8475018 Score: 803
Period size: 231 Copynumber: 1.8 Consensus size: 231
8474585 TTTTAAAAAA
*
8474595 AAAATAGTTCTGCTCATAAACCGATTGTTAAGATGATATGCTAGTAGTTTGGATTTTTTTTTCAT
1 AAAATAGTTCTGCTCATAAACCGATTGTTAAAATGATATGCTAGTAGTTTGGATTTTTTTTTCAT
8474660 AACGAGAAGAGCTTCGTAGAGTAACATATGAGAATCATTTTGAAAGAATAATGAAAAATTCTTCA
66 AACGAGAAGAGCTTCGTAGAGTAACATATGAGAATCATTTTGAAAGAATAATGAAAAATTCTTCA
*
8474725 CGAAAAACATTACTTGGAAGTGTGTTCAAGGAATACTTTTTTAAAAATATATTTATTTTAAATGC
131 CGAAAAACATTACTTGAAAGTGTGTTCAAGGAATACTTTTTTAAAAATATATTTATTTTAAATGC
8474790 TTATATTTATTTTAAAAATATATTTATTTTTTTTTT
196 TTATATTTATTTTAAAAATATATTTATTTTTTTTTT
* *
8474826 AAAATATTTCTGCTCATAAACCGTTTGTTAAAATGATATGCTAGTAGTTTGGATTTTTTTTTCAT
1 AAAATAGTTCTGCTCATAAACCGATTGTTAAAATGATATGCTAGTAGTTTGGATTTTTTTTTCAT
8474891 AACGAGAAGAGCTTCGTAGAGTAACATATGAGAATCATTTTGAAAGAATAATGAAAAATTCTTCA
66 AACGAGAAGAGCTTCGTAGAGTAACATATGAGAATCATTTTGAAAGAATAATGAAAAATTCTTCA
*
8474956 CGAAAAACATTACTTGAAAGTGTGTTCAAGGAATACTTTTTTTAAAATATATTTATTTTAAAT
131 CGAAAAACATTACTTGAAAGTGTGTTCAAGGAATACTTTTTTAAAAATATATTTATTTTAAAT
8475019 ACTGGAAACT
Statistics
Matches: 188, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
231 188 1.00
ACGTcount: A:0.37, C:0.09, G:0.14, T:0.40
Consensus pattern (231 bp):
AAAATAGTTCTGCTCATAAACCGATTGTTAAAATGATATGCTAGTAGTTTGGATTTTTTTTTCAT
AACGAGAAGAGCTTCGTAGAGTAACATATGAGAATCATTTTGAAAGAATAATGAAAAATTCTTCA
CGAAAAACATTACTTGAAAGTGTGTTCAAGGAATACTTTTTTAAAAATATATTTATTTTAAATGC
TTATATTTATTTTAAAAATATATTTATTTTTTTTTT
Found at i:8478913 original size:23 final size:23
Alignment explanation
Indices: 8478883--8478929 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 23
8478873 GTTAATCAAC
8478883 TTATTGATGT-GACATAAATATCT
1 TTATTGATGTAG-CATAAATATCT
8478906 TTATTGATGTAGCATAAATATCT
1 TTATTGATGTAGCATAAATATCT
8478929 T
1 T
8478930 ATAAGATGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 22 0.96
24 1 0.04
ACGTcount: A:0.34, C:0.09, G:0.13, T:0.45
Consensus pattern (23 bp):
TTATTGATGTAGCATAAATATCT
Found at i:8479039 original size:19 final size:19
Alignment explanation
Indices: 8479017--8479061 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
8479007 AAAAATTCAC
8479017 AAAAATTTAAAA-ATATTTT
1 AAAAATTTAAAATAT-TTTT
* *
8479036 AAAAATATGAAATATTTTT
1 AAAAATTTAAAATATTTTT
8479055 AAAAATT
1 AAAAATT
8479062 ATTAAAAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 20 0.91
20 2 0.09
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (19 bp):
AAAAATTTAAAATATTTTT
Found at i:8479052 original size:28 final size:27
Alignment explanation
Indices: 8479022--8479086 Score: 78
Period size: 27 Copynumber: 2.3 Consensus size: 27
8479012 TTCACAAAAA
*
8479022 TTTAAAAATATTTTAAAAATA-TGAAATATT
1 TTTAAAAAT-TATTAAAAA-ACT-AAATA-T
8479052 TTTAAAAATTATTAAAAAACTAAATAT
1 TTTAAAAATTATTAAAAAACTAAATAT
8479079 TTTAAAAA
1 TTTAAAAA
8479087 ATAAAATTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
27 9 0.27
28 6 0.18
29 9 0.27
30 9 0.27
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (27 bp):
TTTAAAAATTATTAAAAAACTAAATAT
Found at i:8479087 original size:28 final size:28
Alignment explanation
Indices: 8479022--8479088 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 28
8479012 TTCACAAAAA
8479022 TTTAAAAATATTTTAAAAATATGAAATAT
1 TTTAAAAA-ATTTTAAAAATATGAAATAT
*
8479051 TTTTAAAAATTATTAAAAA-ACT-AAATAT
1 TTTAAAAAATT-TTAAAAATA-TGAAATAT
8479079 TTTAAAAAAT
1 TTTAAAAAAT
8479089 AAAATTTAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
28 19 0.56
29 15 0.44
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (28 bp):
TTTAAAAAATTTTAAAAATATGAAATAT
Found at i:8479139 original size:19 final size:17
Alignment explanation
Indices: 8479056--8479139 Score: 77
Period size: 17 Copynumber: 4.8 Consensus size: 17
8479046 AATATTTTTA
8479056 AAAATTATTAAAAAAC-T
1 AAAATT-TTAAAAAACTT
8479073 AAATATTTTAAAAAA--T
1 AAA-ATTTTAAAAAACTT
8479089 AAAA-TTTAAGAAAACTT
1 AAAATTTTAA-AAAACTT
*
8479106 AAAAACTTTTAAAAAGCTT
1 -AAAA-TTTTAAAAAACTT
8479125 AAAATTTTAATAAAA
1 AAAATTTTAA-AAAA
8479140 AATCCAAATA
Statistics
Matches: 57, Mismatches: 2, Indels: 15
0.77 0.03 0.20
Matches are distributed among these distances:
14 5 0.09
15 5 0.09
16 4 0.07
17 18 0.32
18 14 0.25
19 6 0.11
20 5 0.09
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (17 bp):
AAAATTTTAAAAAACTT
Found at i:8479286 original size:20 final size:20
Alignment explanation
Indices: 8479250--8479287 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
8479240 AATTGAAAAT
**
8479250 AAAAAATCTAATTTTTTTTG
1 AAAAAATCTAAAATTTTTTG
8479270 AAAAAATCTAAAATTTTT
1 AAAAAATCTAAAATTTTT
8479288 AAAAAATTTG
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:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (20 bp):
AAAAAATCTAAAATTTTTTG
Found at i:8479293 original size:20 final size:20
Alignment explanation
Indices: 8479250--8479293 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
8479240 AATTGAAAAT
** **
8479250 AAAAAATCTAATTTTTTTTG
1 AAAAAATCTAAAATTTTTAA
8479270 AAAAAATCTAAAATTTTTAA
1 AAAAAATCTAAAATTTTTAA
8479290 AAAA
1 AAAA
8479294 TTTGTAAATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.39
Consensus pattern (20 bp):
AAAAAATCTAAAATTTTTAA
Found at i:8479309 original size:23 final size:22
Alignment explanation
Indices: 8479283--8479333 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
8479273 AAATCTAAAA
*
8479283 TTTTTAAAAAATT-TGTAAATTT
1 TTTTTTAAAAATTATG-AAATTT
8479305 TTTTTTAAAAATTATGAAATTT
1 TTTTTTAAAAATTATGAAATTT
8479327 TTGTTTT
1 TT-TTTT
8479334 TTTTTTTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 20 0.77
23 6 0.23
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (22 bp):
TTTTTTAAAAATTATGAAATTT
Found at i:8479346 original size:29 final size:29
Alignment explanation
Indices: 8479302--8479396 Score: 77
Period size: 28 Copynumber: 3.2 Consensus size: 29
8479292 AATTTGTAAA
* *
8479302 TTTTTTTTTAAAAATTATGAAATTTTTGT
1 TTTTTTTTTTATAATTATGAAATTTTTGT
**
8479331 TTTTTTTTTTATAATT-T-ACAATTTTAAT
1 TTTTTTTTTTATAATTATGA-AATTTTTGT
* * * *
8479359 TTTTTTTTATATATTTTATGAATTTTTTAGA
1 TTTTTTTTTTATA-ATTATGAAATTTTT-GT
8479390 TTTTTTT
1 TTTTTTT
8479397 GGATTTTTAT
Statistics
Matches: 51, Mismatches: 10, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
27 1 0.02
28 20 0.39
29 16 0.31
30 6 0.12
31 8 0.16
ACGTcount: A:0.26, C:0.01, G:0.04, T:0.68
Consensus pattern (29 bp):
TTTTTTTTTTATAATTATGAAATTTTTGT
Found at i:8479432 original size:17 final size:17
Alignment explanation
Indices: 8479412--8479494 Score: 78
Period size: 18 Copynumber: 4.6 Consensus size: 17
8479402 TTTATTTAAC
8479412 TTTT-AATTTTTTAACTT
1 TTTTAAATTTTTTAA-TT
*
8479429 TTTTAAATTTTTAATATT
1 TTTTAAATTTTTTA-ATT
*
8479447 TTTTAGAATATTTTAAATT
1 TTTTA-AAT-TTTTTAATT
*
8479466 TTTGAAAATTTTTTAATT
1 TTT-TAAATTTTTTAATT
*
8479484 TTTTTAATTTT
1 TTTTAAATTTT
8479495 CAAGAATTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
17 10 0.18
18 26 0.46
19 13 0.23
20 7 0.12
ACGTcount: A:0.30, C:0.01, G:0.02, T:0.66
Consensus pattern (17 bp):
TTTTAAATTTTTTAATT
Found at i:8479488 original size:9 final size:9
Alignment explanation
Indices: 8479412--8479494 Score: 62
Period size: 9 Copynumber: 9.1 Consensus size: 9
8479402 TTTATTTAAC
8479412 TTTTAA-TT
1 TTTTAATTT
*
8479420 TTTTAACTT
1 TTTTAATTT
*
8479429 TTTTAA-AT
1 TTTTAATTT
8479437 TTTTAATATT
1 TTTTAAT-TT
*
8479447 TTTTAGAATAT
1 TTTT--AATTT
*
8479458 TTTAAATTT
1 TTTTAATTT
** *
8479467 TTGAAAATT
1 TTTTAATTT
8479476 TTTTAATTT
1 TTTTAATTT
8479485 TTTTAATTT
1 TTTTAATTT
8479494 T
1 T
8479495 CAAGAATTTT
Statistics
Matches: 60, Mismatches: 10, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
8 13 0.22
9 35 0.58
10 5 0.08
11 4 0.07
12 3 0.05
ACGTcount: A:0.30, C:0.01, G:0.02, T:0.66
Consensus pattern (9 bp):
TTTTAATTT
Found at i:8479516 original size:10 final size:9
Alignment explanation
Indices: 8479412--8479515 Score: 88
Period size: 10 Copynumber: 11.3 Consensus size: 9
8479402 TTTATTTAAC
8479412 TTTT-AATT
1 TTTTAAATT
*
8479420 TTTTAACTT
1 TTTTAAATT
8479429 TTTTAAA-T
1 TTTTAAATT
8479437 TTTTAATATT
1 TTTTAA-ATT
*
8479447 TTTTAGAATA
1 TTTTA-AATT
8479457 TTTTAAATT
1 TTTTAAATT
*
8479466 TTTGAAAATT
1 TTT-TAAATT
8479476 TTTT-AATT
1 TTTTAAATT
*
8479484 TTTTTAATT
1 TTTTAAATT
**
8479493 TTCAAGAATT
1 TTTTA-AATT
8479503 TTTATAAATT
1 TTT-TAAATT
8479513 TTT
1 TTT
8479516 AGATTTAAAA
Statistics
Matches: 77, Mismatches: 11, Indels: 14
0.75 0.11 0.14
Matches are distributed among these distances:
8 19 0.25
9 22 0.29
10 34 0.44
11 2 0.03
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (9 bp):
TTTTAAATT
Found at i:8480464 original size:16 final size:16
Alignment explanation
Indices: 8480439--8480486 Score: 80
Period size: 16 Copynumber: 3.0 Consensus size: 16
8480429 ATAATATTTT
8480439 TTAT-TATTTATTTAA
1 TTATATATTTATTTAA
8480454 TTATATATTTATTTAA
1 TTATATATTTATTTAA
8480470 TTATATATTTATATTAA
1 TTATATATTTAT-TTAA
8480487 AAATATTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.13
16 23 0.74
17 4 0.13
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TTATATATTTATTTAA
Found at i:8480823 original size:10 final size:10
Alignment explanation
Indices: 8480808--8480832 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
8480798 ATAATATTAG
8480808 TAACATCAGA
1 TAACATCAGA
8480818 TAACATCAGA
1 TAACATCAGA
8480828 TAACA
1 TAACA
8480833 CAGCTGATCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.20, G:0.08, T:0.20
Consensus pattern (10 bp):
TAACATCAGA
Found at i:8488253 original size:21 final size:21
Alignment explanation
Indices: 8488227--8488268 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
8488217 AAGTCTGGAC
* *
8488227 AATCTTAATCATAGTTTTTAG
1 AATCTTAATAATAGTTATTAG
8488248 AATCTTAATAATAGTTATTAG
1 AATCTTAATAATAGTTATTAG
8488269 TTTTTAGGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.38, C:0.07, G:0.10, T:0.45
Consensus pattern (21 bp):
AATCTTAATAATAGTTATTAG
Found at i:8488280 original size:28 final size:28
Alignment explanation
Indices: 8488238--8488293 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
8488228 ATCTTAATCA
8488238 TAGTTTTTAGAATCTTAATAATAGTTAT
1 TAGTTTTTAGAATCTTAATAATAGTTAT
* * *
8488266 TAGTTTTTAGGATCTTAATCATATTTAT
1 TAGTTTTTAGAATCTTAATAATAGTTAT
8488294 CACCTAATAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.52
Consensus pattern (28 bp):
TAGTTTTTAGAATCTTAATAATAGTTAT
Found at i:8488667 original size:15 final size:15
Alignment explanation
Indices: 8488649--8488678 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
8488639 AAATATAAAC
*
8488649 AAATTTAATATTGAA
1 AAATTAAATATTGAA
8488664 AAATTAAATATTGAA
1 AAATTAAATATTGAA
8488679 TTTTTAGTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.37
Consensus pattern (15 bp):
AAATTAAATATTGAA
Found at i:8489293 original size:2 final size:2
Alignment explanation
Indices: 8489286--8489325 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
8489276 GCAATGATCC
* *
8489286 AT AT AT AT AT AA AT AT AT AT AA 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
8489326 TTCTGGACAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:8490914 original size:16 final size:16
Alignment explanation
Indices: 8490877--8490918 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
8490867 CGTATTGATC
*
8490877 TTAAAATACTTCAAAT
1 TTAAAATAATTCAAAT
*
8490893 TT-AAATAATTCGAAT
1 TTAAAATAATTCAAAT
8490908 TTAAAATAATT
1 TTAAAATAATT
8490919 TAAACAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 13 0.57
16 10 0.43
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.40
Consensus pattern (16 bp):
TTAAAATAATTCAAAT
Found at i:8493011 original size:2 final size:2
Alignment explanation
Indices: 8493004--8493035 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
8492994 CCTCCCTCCA
8493004 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
8493036 GTGTCTGTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:8500182 original size:16 final size:18
Alignment explanation
Indices: 8500153--8500185 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
8500143 AACAGGATTT
8500153 TTTTACACTGTTATTTTG
1 TTTTACACTGTTATTTTG
8500171 TTTTA-ACT-TTATTTT
1 TTTTACACTGTTATTTT
8500186 ATTCATCTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.18, C:0.09, G:0.06, T:0.67
Consensus pattern (18 bp):
TTTTACACTGTTATTTTG
Found at i:8509538 original size:23 final size:23
Alignment explanation
Indices: 8509511--8509554 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
8509501 ACATATATGT
8509511 TCATGTGCCCTTCCTAAAGCTCA
1 TCATGTGCCCTTCCTAAAGCTCA
*
8509534 TCATGTGCCCTTCTTAAAGCT
1 TCATGTGCCCTTCCTAAAGCT
8509555 GATGTCAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.20, C:0.32, G:0.14, T:0.34
Consensus pattern (23 bp):
TCATGTGCCCTTCCTAAAGCTCA
Found at i:8509620 original size:17 final size:17
Alignment explanation
Indices: 8509598--8509630 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8509588 CTTTATATCA
8509598 TTTATATCATCCAAGTC
1 TTTATATCATCCAAGTC
*
8509615 TTTATATCATCTAAGT
1 TTTATATCATCCAAGT
8509631 GAAGTGAGCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.18, G:0.06, T:0.45
Consensus pattern (17 bp):
TTTATATCATCCAAGTC
Found at i:8517964 original size:50 final size:50
Alignment explanation
Indices: 8517809--8517998 Score: 197
Period size: 51 Copynumber: 3.8 Consensus size: 50
8517799 ATTTTTTGTA
* * * *
8517809 AAAAATATATAACCACTATGTTTTCTCCTTTAAAAATGTAGTTTTTGAATT
1 AAAAA-ATACAACCATTATGTTTTCTCTTTTAAAAATGTAGTCTTTGAATT
** ** *
8517860 AAAAAAATACAAGTATTACATTTCCTCTTTTAAAAATGTTA-TCTTTGAATT
1 -AAAAAATACAACCATTATGTTTTCTCTTTTAAAAATG-TAGTCTTTGAATT
* *
8517911 AAAAAATACAACCATTTATGTTTTCTCTTTTAAAAACGTGGTCTTTGAA-T
1 AAAAAATACAACCA-TTATGTTTTCTCTTTTAAAAATGTAGTCTTTGAATT
* *
8517961 AAAAAAAATAACCATTATGTTTTCT-TTATTAAAAATGT
1 AAAAAATACAACCATTATGTTTTCTCTT-TTAAAAATGT
8517999 GATTTTTTTA
Statistics
Matches: 115, Mismatches: 19, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
48 2 0.02
49 20 0.17
50 26 0.23
51 60 0.52
52 7 0.06
ACGTcount: A:0.40, C:0.12, G:0.07, T:0.41
Consensus pattern (50 bp):
AAAAAATACAACCATTATGTTTTCTCTTTTAAAAATGTAGTCTTTGAATT
Found at i:8518733 original size:14 final size:14
Alignment explanation
Indices: 8518714--8518743 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
8518704 TATAATATTT
8518714 TTTAAAATAAAAAA
1 TTTAAAATAAAAAA
*
8518728 TTTAAAATATAAAA
1 TTTAAAATAAAAAA
8518742 TT
1 TT
8518744 ACAATTATCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
TTTAAAATAAAAAA
Found at i:8518736 original size:26 final size:25
Alignment explanation
Indices: 8518688--8518737 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
8518678 ATCTATTACG
*
8518688 TTTTAAATATAAAAAATATAATATT
1 TTTTAAATATAAAAAATAAAATATT
8518713 TTTTAAA-ATAAAAAATTTAAAATAT
1 TTTTAAATATAAAAAA--TAAAATAT
8518738 AAAATTACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 8 0.36
25 7 0.32
26 7 0.32
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (25 bp):
TTTTAAATATAAAAAATAAAATATT
Found at i:8521439 original size:27 final size:28
Alignment explanation
Indices: 8521405--8521457 Score: 74
Period size: 27 Copynumber: 1.9 Consensus size: 28
8521395 TTTATCGATA
8521405 ATTATTTATTAA-AA-TAATTTTAAATAT
1 ATTATTTA-TAATAATTAATTTTAAATAT
*
8521432 ATTATTTATAATAATTTATTTTAAAT
1 ATTATTTATAATAATTAATTTTAAAT
8521458 TATAAAAGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 3 0.13
27 10 0.43
28 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (28 bp):
ATTATTTATAATAATTAATTTTAAATAT
Found at i:8524846 original size:311 final size:314
Alignment explanation
Indices: 8524271--8524880 Score: 786
Period size: 311 Copynumber: 1.9 Consensus size: 314
8524261 TCCAGATCTC
* * * * *
8524271 TAAAACTTGGAGTATCTTCAAGATTAAAACGGGGATAAAAACTTCTTGCATGGTCTGGATCTCTG
1 TAAAACTTGAAGTATCTTCAAGATTAAAACAGGGATAAAAACTTCTTGCATGCTCTAGATCTCTC
* * *
8524336 ATAAGAACAATGCTCTGCATAAAGAATTGAACAGACAATGAAGTCTAAGATTAGTACAAGAAAAA
66 ATAAGAACAATGCTCTGCATAAAGAATTGAACAGAAAATGAAGTATAAGATTAGGACAAGAAAAA
* *
8524401 TATTGAACATCCACAAAAAAGTAATAAAAAACACCCAAGGTTCCAGCATATGCTTCTTATTTGAC
131 TATTGAACATCCACAAAAAAG--A-AAAAAACACCCAAGGTTCCAACACATGCTTCTTATTTGAC
* * * ** *
8524466 AACTACAAGTTTCCTGGAAGAATCTATATCAATGAATCCTTTTGACAAACTAGCTTTTACGTAAC
193 AACAACAAGTCTCCAGGAAGAATCTATATCAATGAATCCTTAAGACAAACGAGCTTTTACGTAAC
*
8524531 ATGCAATTTGCACGT-AACCATGA-AGTGTTATCTTAATTATTAAAAAAAAAAAATAA
258 ATGCAATTTGCACATGAACCATGATA-TGTTATCTTAATTATTAAAAAAAAAAAATAA
*
8524587 TAAAACTTGAAGTATCTTCAAGATTAAAACAGGGATAGAAA-TGTCTTGCATGCTCTAGATCTCT
1 TAAAACTTGAAGTATCTTCAAGATTAAAACAGGGATAAAAACT-TCTTGCATGCTCTAGATCTCT
* * ** * **
8524651 CATAAGAACTAT-TTCTGCATAAAGAATTTGTGCAGAAAAATGAA-TAATAGGATTAGGAGTAG-
65 CATAAGAACAATGCTCTGCATAAAGAA-TTGAACAG-AAAATGAAGT-ATAAGATTAGGACAAGA
** *
8524713 AAAATATTGAACATCC-GGAAAAAG-AAAAAACACCCAGGGTTCCAACACATGCTTCTTATTTGA
127 AAAATATTGAACATCCACAAAAAAGAAAAAAACACCCAAGGTTCCAACACATGCTTCTTATTTGA
* * * * * *
8524776 CAACAACTAGTCTCCAGGAAGACTCTATATCAGTGAATCCTTAAGACATACGAGCTTTTACTTGA
192 CAACAACAAGTCTCCAGGAAGAATCTATATCAATGAATCCTTAAGACAAACGAGCTTTTACGTAA
8524841 CATGCAATTTGCACATGAACCATGATATGTTATCTTAATT
257 CATGCAATTTGCACATGAACCATGATATGTTATCTTAATT
8524881 GTTTAAATAA
Statistics
Matches: 254, Mismatches: 34, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
311 104 0.41
312 21 0.08
313 1 0.00
315 20 0.08
316 90 0.35
317 18 0.07
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (314 bp):
TAAAACTTGAAGTATCTTCAAGATTAAAACAGGGATAAAAACTTCTTGCATGCTCTAGATCTCTC
ATAAGAACAATGCTCTGCATAAAGAATTGAACAGAAAATGAAGTATAAGATTAGGACAAGAAAAA
TATTGAACATCCACAAAAAAGAAAAAAACACCCAAGGTTCCAACACATGCTTCTTATTTGACAAC
AACAAGTCTCCAGGAAGAATCTATATCAATGAATCCTTAAGACAAACGAGCTTTTACGTAACATG
CAATTTGCACATGAACCATGATATGTTATCTTAATTATTAAAAAAAAAAAATAA
Found at i:8533767 original size:25 final size:25
Alignment explanation
Indices: 8533733--8533794 Score: 83
Period size: 25 Copynumber: 2.6 Consensus size: 25
8533723 GAATGTAGAA
8533733 ATCTGATTCTCCTACATTAGTGCAG
1 ATCTGATTCTCCTACATTAGTGCAG
* *
8533758 ATCTGATTCTCCCATATTAGTGCAG
1 ATCTGATTCTCCTACATTAGTGCAG
*
8533783 -TTTGATT-TCCTA
1 ATCTGATTCTCCTA
8533795 ATTTATTTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 4 0.12
24 6 0.18
25 23 0.70
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.40
Consensus pattern (25 bp):
ATCTGATTCTCCTACATTAGTGCAG
Found at i:8534319 original size:58 final size:58
Alignment explanation
Indices: 8534240--8534394 Score: 213
Period size: 58 Copynumber: 2.7 Consensus size: 58
8534230 CTTTATGGGT
* * * *
8534240 CTAGGTTGTCTTAATGTCTCTCAAGCTTAGACTCAATCATAGCACACAACCTTAG-TGC
1 CTAGGTTGTCTCAATGCCTCTCAAGCTTGGACTCAATCATAGCACACAACCTT-GCCGC
* *
8534298 CTAGGTTGTCTCATTGCCTCTCAAGCTTGGACTCTATCATAGCACACAACCTTGCCGC
1 CTAGGTTGTCTCAATGCCTCTCAAGCTTGGACTCAATCATAGCACACAACCTTGCCGC
* **
8534356 CTAGGTTGTTTCGGTGCCTCTCAAGCTTGGACTCAATCA
1 CTAGGTTGTCTCAATGCCTCTCAAGCTTGGACTCAATCA
8534395 CGGCCTTAGC
Statistics
Matches: 86, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
57 1 0.01
58 85 0.99
ACGTcount: A:0.23, C:0.28, G:0.18, T:0.31
Consensus pattern (58 bp):
CTAGGTTGTCTCAATGCCTCTCAAGCTTGGACTCAATCATAGCACACAACCTTGCCGC
Found at i:8537828 original size:43 final size:43
Alignment explanation
Indices: 8537781--8537865 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
8537771 ATACATGCAA
*
8537781 CTAAAAGGAAGATGGAATATCAAG-AAAGCTTTTAAAATAGCAG
1 CTAAAAAGAAGATGGAATATCAAGCAAA-CTTTTAAAATAGCAG
* *
8537824 CTAAAAAGAAGATGGAATATCAAGCAAACTTTTTAAGTAGCA
1 CTAAAAAGAAGATGGAATATCAAGCAAACTTTTAAAATAGCA
8537866 ATTAATGCAC
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
43 35 0.92
44 3 0.08
ACGTcount: A:0.48, C:0.11, G:0.19, T:0.22
Consensus pattern (43 bp):
CTAAAAAGAAGATGGAATATCAAGCAAACTTTTAAAATAGCAG
Found at i:8539705 original size:2 final size:2
Alignment explanation
Indices: 8539698--8539731 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
8539688 TCAAGACTTC
8539698 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
8539732 AGTGCAAAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:8541276 original size:22 final size:24
Alignment explanation
Indices: 8541237--8541283 Score: 71
Period size: 22 Copynumber: 2.0 Consensus size: 24
8541227 TTAATTTATT
*
8541237 AATTTTTATATATTATTTTAATAA
1 AATTTTTATATATTATTTAAATAA
8541261 AATTTTTA-ATA-TATTTAAATAA
1 AATTTTTATATATTATTTAAATAA
8541283 A
1 A
8541284 TTTAAGTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 11 0.50
23 3 0.14
24 8 0.36
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
AATTTTTATATATTATTTAAATAA
Found at i:8541335 original size:10 final size:10
Alignment explanation
Indices: 8541312--8541352 Score: 52
Period size: 9 Copynumber: 4.4 Consensus size: 10
8541302 ATTTTTATTT
8541312 TATAAAAAT-
1 TATAAAAATA
8541321 T-TAAAAATA
1 TATAAAAATA
*
8541330 TATAAAATTA
1 TATAAAAATA
8541340 -ATAAAAATA
1 TATAAAAATA
8541349 TATA
1 TATA
8541353 TTTATTTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
8 7 0.26
9 10 0.37
10 10 0.37
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (10 bp):
TATAAAAATA
Found at i:8543125 original size:6 final size:6
Alignment explanation
Indices: 8543114--8543207 Score: 124
Period size: 6 Copynumber: 16.2 Consensus size: 6
8543104 AGCAATGTGG
8543114 TGGTGA TGGTGA TGGTGA TGGTGA TGGTGA TGGTGA TGGTGA TGGTGA
1 TGGTGA TGGTGA TGGTGA TGGTGA TGGTGA TGGTGA TGGTGA TGGTGA
* * *
8543162 TGGTGGA -GGTGG TGGTGA T-G-G- TGGTGA TGGTGA TGATGA TGATGA
1 TGGT-GA TGGTGA TGGTGA TGGTGA TGGTGA TGGTGA TGGTGA TGGTGA
8543207 T
1 T
8543208 TGTGGCTGGG
Statistics
Matches: 80, Mismatches: 3, Indels: 10
0.86 0.03 0.11
Matches are distributed among these distances:
3 1 0.01
4 2 0.03
5 3 0.04
6 72 0.90
7 2 0.03
ACGTcount: A:0.17, C:0.00, G:0.50, T:0.33
Consensus pattern (6 bp):
TGGTGA
Done.