Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 31 of 173
Found at i:8150303 original size:44 final size:44
Alignment explanation
Indices: 8150237--8150325 Score: 151
Period size: 44 Copynumber: 2.0 Consensus size: 44
8150227 AACTTCAGGG
* *
8150237 TAGTGGCTTCAATCTGCTCCACTACAACTTTAGGGAGATAAGAT
1 TAGTGGCTTCAATCTGCCCCACTACAACTTCAGGGAGATAAGAT
*
8150281 TAGTGGCTTCAATCTGCCCCACTATAACTTCAGGGAGATAAGAT
1 TAGTGGCTTCAATCTGCCCCACTACAACTTCAGGGAGATAAGAT
8150325 T
1 T
8150326 TGTCATAATG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.29
Consensus pattern (44 bp):
TAGTGGCTTCAATCTGCCCCACTACAACTTCAGGGAGATAAGAT
Found at i:8150365 original size:50 final size:51
Alignment explanation
Indices: 8150309--8150426 Score: 118
Period size: 51 Copynumber: 2.3 Consensus size: 51
8150299 CCACTATAAC
8150309 TTCAGGGAGATAAGATTTGTCATAATG-A-CTTCAATCCATCCCA-TCGCAAA
1 TTCAGGGAGATAAGATTTGTCAT-ATGTAGCTTCAATCCATCCCACT-GCAAA
* * * * * *
8150359 TTCAGGG-GTATAGGATTTGTGATCTGTAGCTTCAATCTATTCCACTGCAAC
1 TTCAGGGAG-ATAAGATTTGTCATATGTAGCTTCAATCCATCCCACTGCAAA
*
8150410 TTCAGGGAAATAAGATT
1 TTCAGGGAGATAAGATT
8150427 CGCATATTTT
Statistics
Matches: 55, Mismatches: 8, Indels: 9
0.76 0.11 0.12
Matches are distributed among these distances:
49 3 0.05
50 20 0.36
51 31 0.56
52 1 0.02
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (51 bp):
TTCAGGGAGATAAGATTTGTCATATGTAGCTTCAATCCATCCCACTGCAAA
Found at i:8155622 original size:15 final size:16
Alignment explanation
Indices: 8155597--8155629 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
8155587 AATACTCTAA
*
8155597 AAAATTAAAATGAAAT
1 AAAATTAAAATAAAAT
8155613 AAAA-TAAAATAAAAT
1 AAAATTAAAATAAAAT
8155628 AA
1 AA
8155630 TAAAAGACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (16 bp):
AAAATTAAAATAAAAT
Found at i:8165512 original size:40 final size:40
Alignment explanation
Indices: 8165454--8165555 Score: 102
Period size: 40 Copynumber: 2.5 Consensus size: 40
8165444 TAACGATAAA
*
8165454 TCGACTATAT-TTAGCACTTAGTATGAAATTC-GAGATAGCT
1 TCGACTATATATGA-CACTTAGTATGAAATTCGGA-ATAGCT
* ** *
8165494 TCGACTAT-TAATGACACTTAGTGTGTGATTTGGAATAGCT
1 TCGACTATAT-ATGACACTTAGTATGAAATTCGGAATAGCT
*
8165534 TCGGCTATATATGACACTTAGT
1 TCGACTATATATGACACTTAGT
8165556 GTGCGAGACT
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
39 1 0.02
40 46 0.88
41 5 0.10
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (40 bp):
TCGACTATATATGACACTTAGTATGAAATTCGGAATAGCT
Found at i:8165556 original size:40 final size:41
Alignment explanation
Indices: 8165488--8165640 Score: 152
Period size: 41 Copynumber: 3.8 Consensus size: 41
8165478 GAAATTCGAG
* *
8165488 ATAGCTTCGACTAT-TAATGACACTTAGTGTGTGA-TTTGGA
1 ATAGCTTCGGCTATATAATGACACTTAGTGTGTGAGATT-GA
* *
8165528 ATAGCTTCGGCTATAT-ATGACACTTAGTGTGCGAGACTGA
1 ATAGCTTCGGCTATATAATGACACTTAGTGTGTGAGATTGA
* * *
8165568 GATAGCTTCGGCTATGTAA-GGCACTTAGTGTGTGAGATTATA
1 -ATAGCTTCGGCTATATAATGACACTTAGTGTGTGAGATT-GA
* * * *
8165610 ATAGCTTCAGCTATATGATGGCAATTAGTGT
1 ATAGCTTCGGCTATATAATGACACTTAGTGT
8165641 ATGAAACATT
Statistics
Matches: 94, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
40 32 0.34
41 49 0.52
42 13 0.14
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (41 bp):
ATAGCTTCGGCTATATAATGACACTTAGTGTGTGAGATTGA
Found at i:8165593 original size:81 final size:83
Alignment explanation
Indices: 8165485--8165640 Score: 210
Period size: 81 Copynumber: 1.9 Consensus size: 83
8165475 TATGAAATTC
* * *
8165485 GAGATAGCTTCGACTATTAATGACACTTAGTGTGTGA-TTTGGAATAGCTTCGGCTATAT-ATGA
1 GAGATAGCTTCGACTATTAATGACACTTAGTGTGTGAGATTAGAATAGCTTCAGCTATATGATGA
*
8165548 CACTTAGTGTGCGAGACT
66 CAATTAGTGTGCGAGACT
* * *
8165566 GAGATAGCTTCGGCTATGTAA-GGCACTTAGTGTGTGAGATTATAATAGCTTCAGCTATATGATG
1 GAGATAGCTTCGACTAT-TAATGACACTTAGTGTGTGAGATTAGAATAGCTTCAGCTATATGATG
*
8165630 GCAATTAGTGT
65 ACAATTAGTGT
8165641 ATGAAACATT
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
81 31 0.48
82 21 0.33
83 12 0.19
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.33
Consensus pattern (83 bp):
GAGATAGCTTCGACTATTAATGACACTTAGTGTGTGAGATTAGAATAGCTTCAGCTATATGATGA
CAATTAGTGTGCGAGACT
Found at i:8166327 original size:24 final size:22
Alignment explanation
Indices: 8166300--8166529 Score: 88
Period size: 22 Copynumber: 10.0 Consensus size: 22
8166290 ATGTGGCTAT
8166300 TTTTATATGTTATAATGCTGTCCA
1 TTTTA-ATG-TATAATGCTGTCCA
*
8166324 TTTTAA-GCATATTGATGCTGTCCA
1 TTTTAATG--TA-TAATGCTGTCCA
* * *
8166348 ATTTGATGTATAATGCTGTTCA
1 TTTTAATGTATAATGCTGTCCA
* * * *
8166370 ATTTGA-GCATATTAAAGCTATCCA
1 TTTTAATG--TA-TAATGCTGTCCA
*
8166394 ATTTAATGTATAATGCTGTCCA
1 TTTTAATGTATAATGCTGTCCA
* * *
8166416 TTTTGA-GTATATTGATGTTGCCCA
1 TTTTAATGTATA---ATGCTGTCCA
* * * *
8166440 ATTTGATGTATAACGTTGTCCA
1 TTTTAATGTATAATGCTGTCCA
* * * *
8166462 TTTGAGTATATTGATGCTGTCCA
1 TTTTAATGTA-TAATGCTGTCCA
* * *
8166485 ATTTGATGTATAATGTTGTCCA
1 TTTTAATGTATAATGCTGTCCA
* * *
8166507 ATTTGATGTATAAATGTTGTCCA
1 TTTTAATGTAT-AATGCTGTCCA
8166530 AAACAGCGTA
Statistics
Matches: 159, Mismatches: 34, Indels: 27
0.72 0.15 0.12
Matches are distributed among these distances:
21 6 0.04
22 65 0.41
23 34 0.21
24 47 0.30
25 7 0.04
ACGTcount: A:0.27, C:0.13, G:0.17, T:0.43
Consensus pattern (22 bp):
TTTTAATGTATAATGCTGTCCA
Found at i:8166363 original size:46 final size:46
Alignment explanation
Indices: 8166310--8166512 Score: 264
Period size: 46 Copynumber: 4.4 Consensus size: 46
8166300 TTTTATATGT
*
8166310 TATAATGCTGTCCATTTTAAGCATATTGATGCTGTCCAATTTGATG
1 TATAATGCTGTCCATTTTGAGCATATTGATGCTGTCCAATTTGATG
* * * * * *
8166356 TATAATGCTGTTCAATTTGAGCATATTAAAGCTATCCAATTTAATG
1 TATAATGCTGTCCATTTTGAGCATATTGATGCTGTCCAATTTGATG
* * *
8166402 TATAATGCTGTCCATTTTGAGTATATTGATGTTGCCCAATTTGATG
1 TATAATGCTGTCCATTTTGAGCATATTGATGCTGTCCAATTTGATG
* * *
8166448 TATAACGTTGTCCA-TTTGAGTATATTGATGCTGTCCAATTTGATG
1 TATAATGCTGTCCATTTTGAGCATATTGATGCTGTCCAATTTGATG
* *
8166493 TATAATGTTGTCCAATTTGA
1 TATAATGCTGTCCATTTTGA
8166513 TGTATAAATG
Statistics
Matches: 135, Mismatches: 21, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
45 42 0.31
46 93 0.69
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.42
Consensus pattern (46 bp):
TATAATGCTGTCCATTTTGAGCATATTGATGCTGTCCAATTTGATG
Found at i:8166366 original size:22 final size:22
Alignment explanation
Indices: 8166338--8166530 Score: 169
Period size: 22 Copynumber: 8.5 Consensus size: 22
8166328 AAGCATATTG
8166338 ATGCTGTCCAATTTGATGTATA
1 ATGCTGTCCAATTTGATGTATA
*
8166360 ATGCTGTTCAATTTGA-GCATATTA
1 ATGCTGTCCAATTTGATG--TA-TA
* * *
8166384 AAGCTATCCAATTTAATGTATA
1 ATGCTGTCCAATTTGATGTATA
*
8166406 ATGCTGTCCATTTTGA-GTATA
1 ATGCTGTCCAATTTGATGTATA
* *
8166427 TTGATGTTGCCCAATTTGATGTATA
1 ---ATGCTGTCCAATTTGATGTATA
* *
8166452 ACGTTGTCC-ATTTGA-GTATA
1 ATGCTGTCCAATTTGATGTATA
8166472 TTGATGCTGTCCAATTTGATGTATA
1 ---ATGCTGTCCAATTTGATGTATA
*
8166497 ATGTTGTCCAATTTGATGTATAA
1 ATGCTGTCCAATTTGATGTAT-A
*
8166520 ATGTTGTCCAA
1 ATGCTGTCCAA
8166531 AACAGCGTAG
Statistics
Matches: 140, Mismatches: 17, Indels: 27
0.76 0.09 0.15
Matches are distributed among these distances:
20 5 0.04
21 12 0.09
22 56 0.40
23 23 0.16
24 33 0.24
25 11 0.08
ACGTcount: A:0.28, C:0.13, G:0.18, T:0.41
Consensus pattern (22 bp):
ATGCTGTCCAATTTGATGTATA
Found at i:8177654 original size:46 final size:45
Alignment explanation
Indices: 8177586--8177748 Score: 193
Period size: 45 Copynumber: 3.6 Consensus size: 45
8177576 ACAGGAAATG
*
8177586 CCATGGTTGAAAAATACCATGGCATTATACACAAAACGAGAAAGA
1 CCATAGTTGAAAAATACCATGGCATTATACACAAAACGAGAAAGA
* *
8177631 CCATGGTTGAAAAAATACCATGGCATTATACCCAAAACGAGAAAGA
1 CCATAGTTG-AAAAATACCATGGCATTATACACAAAACGAGAAAGA
* * * * * * *
8177677 CCGTAGTTGAAAGATACTATGGCATTAAATACGAAAC-AAATAAGA
1 CCATAGTTGAAAAATACCATGGCATTATACACAAAACGAGA-AAGA
* *
8177722 CCATAGTTGAAAGATACTATGGCATTA
1 CCATAGTTGAAAAATACCATGGCATTA
8177749 CATTGATAGC
Statistics
Matches: 105, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
44 2 0.02
45 61 0.58
46 42 0.40
ACGTcount: A:0.45, C:0.17, G:0.18, T:0.21
Consensus pattern (45 bp):
CCATAGTTGAAAAATACCATGGCATTATACACAAAACGAGAAAGA
Found at i:8177767 original size:45 final size:45
Alignment explanation
Indices: 8177673--8177787 Score: 142
Period size: 45 Copynumber: 2.6 Consensus size: 45
8177663 CAAAACGAGA
* *
8177673 AAGACCGTAGTTGAAAGATACTATGGCATTAAATACGAAACAAAT
1 AAGACCATAGTTGAAAGATACTATGGCATTAAATACGAAACAAAC
* * * *
8177718 AAGACCATAGTTGAAAGATACTATGGCATTACAT-TGATAGCGAAC
1 AAGACCATAGTTGAAAGATACTATGGCATTAAATACGA-AACAAAC
**
8177763 AAGACCATAGTTTTAAGATACTATG
1 AAGACCATAGTTGAAAGATACTATG
8177788 ACACCACTTC
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 2 0.03
45 59 0.97
ACGTcount: A:0.43, C:0.14, G:0.18, T:0.25
Consensus pattern (45 bp):
AAGACCATAGTTGAAAGATACTATGGCATTAAATACGAAACAAAC
Found at i:8180041 original size:27 final size:27
Alignment explanation
Indices: 8180005--8180343 Score: 277
Period size: 27 Copynumber: 12.6 Consensus size: 27
8179995 TACCAACGGA
* *
8180005 GGTATTTCGGTCATTTTACCCTTCGGG
1 GGTATTTCGATCATTTTACCCTTCAGG
** * *
8180032 GGTATTTCGGCCATTTTA-CCTTATAAG
1 GGTATTTCGATCATTTTACCCTT-CAGG
* *
8180059 GGTATTT-TAGTCATTTTA-CCAT-ATGG
1 GGTATTTCGA-TCATTTTACCCTTCA-GG
8180085 GGTATTTCGATCATTTTACCCTTCAGG
1 GGTATTTCGATCATTTTACCCTTCAGG
*
8180112 GGTATTTCGATCATTTTACCAC-TCAAG
1 GGTATTTCGATCATTTTACC-CTTCAGG
* * *
8180139 GGTATTTCGGTCATTTTACCCATCGGG
1 GGTATTTCGATCATTTTACCCTTCAGG
*
8180166 GGTATTTCGGTCATTTTA-CCTT-ATGGG
1 GGTATTTCGATCATTTTACCCTTCA--GG
* * *
8180193 GGTATTTCAATCATTTTATCC--AATGG
1 GGTATTTCGATCATTTTACCCTTCA-GG
* * *
8180219 TGGTATTTCGGTTATTTTACCCTT-TGG
1 -GGTATTTCGATCATTTTACCCTTCAGG
*
8180246 GGCTATTTCGATCATTTTATCCC-GCAGG
1 GG-TATTTCGATCATTTTA-CCCTTCAGG
* *
8180274 GGTATTTCGATCATTTTACCCCTCAAG
1 GGTATTTCGATCATTTTACCCTTCAGG
* * * *
8180301 GGCATTTTGATCATTTTACCTTTCTGG
1 GGTATTTCGATCATTTTACCCTTCAGG
8180328 GGTATTTCGATCATTT
1 GGTATTTCGATCATTT
8180344 ACGCATGAAT
Statistics
Matches: 254, Mismatches: 39, Indels: 38
0.77 0.12 0.11
Matches are distributed among these distances:
25 1 0.00
26 31 0.12
27 211 0.83
28 11 0.04
ACGTcount: A:0.19, C:0.19, G:0.20, T:0.42
Consensus pattern (27 bp):
GGTATTTCGATCATTTTACCCTTCAGG
Found at i:8180200 original size:81 final size:79
Alignment explanation
Indices: 8179989--8180343 Score: 333
Period size: 81 Copynumber: 4.4 Consensus size: 79
8179979 GGTATAACAA
* * * * **
8179989 TCATTTTA-CCAACGGAGGTATTTCGGTCATTTTACCCTTCGGGGGTATTTCGGCCATTTTACCT
1 TCATTTTACCCATCGGGGGTATTTCGATCATTTTACCCTT-AGGGGTATTTCGATCATTTTACC-
**
8180053 TA-TAAGGGTATTTTAG
64 -ACTAAGGGTATTTCGG
**
8180069 TCATTTTA-CCATATGGGGTATTTCGATCATTTTACCCTTCAGGGGTATTTCGATCATTTTACCA
1 TCATTTTACCCATCGGGGGTATTTCGATCATTTTACCCTT-AGGGGTATTTCGATCATTTTACCA
8180133 CTCAAGGGTATTTCGG
65 CT-AAGGGTATTTCGG
* *
8180149 TCATTTTACCCATCGGGGGTATTTCGGTCATTTTA-CCTTATGGGGGTATTTCAATCATTTTATC
1 TCATTTTACCCATCGGGGGTATTTCGATCATTTTACCCTTA--GGGGTATTTCGATCATTTTA-C
* *
8180213 CAAT-GGTGGTATTTCGG
63 CACTAAG-GGTATTTCGG
* * * * ** *
8180230 TTATTTTACCCTTTGGGGCTATTTCGATCATTTTATCCCGCAGGGGTATTTCGATCATTTTACCC
1 TCATTTTACCCATCGGGGGTATTTCGATCATTTTA-CCCTTAGGGGTATTTCGATCATTTTACCA
* * *
8180295 CTCAAGGGCATTTTGA
65 CT-AAGGGTATTTCGG
** *
8180311 TCATTTTACCTTTCTGGGGTATTTCGATCATTT
1 TCATTTTACCCATCGGGGGTATTTCGATCATTT
8180344 ACGCATGAAT
Statistics
Matches: 229, Mismatches: 35, Indels: 21
0.80 0.12 0.07
Matches are distributed among these distances:
78 1 0.00
79 2 0.01
80 82 0.36
81 136 0.59
82 5 0.02
83 3 0.01
ACGTcount: A:0.19, C:0.19, G:0.20, T:0.42
Consensus pattern (79 bp):
TCATTTTACCCATCGGGGGTATTTCGATCATTTTACCCTTAGGGGTATTTCGATCATTTTACCAC
TAAGGGTATTTCGG
Found at i:8183418 original size:3 final size:3
Alignment explanation
Indices: 8183410--8183459 Score: 73
Period size: 3 Copynumber: 16.7 Consensus size: 3
8183400 TTTTCTGTTT
* * *
8183410 TTC TTC TTC TTC TTA TTC TTC TTC TTA TTC TTC TTC TTC TTA TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
8183458 TT
1 TT
8183460 ATTATTATTA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.06, C:0.26, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:8183428 original size:9 final size:9
Alignment explanation
Indices: 8183410--8183662 Score: 161
Period size: 9 Copynumber: 28.4 Consensus size: 9
8183400 TTTTCTGTTT
*
8183410 TTCTTCTTC
1 TTCTTATTC
8183419 TTCTTATTC
1 TTCTTATTC
* *
8183428 TTCTTCTTA
1 TTCTTATTC
*
8183437 TTCTTCTTC
1 TTCTTATTC
8183446 TTCTTATTC
1 TTCTTATTC
*
8183455 TTCTTATTA
1 TTCTTATTC
* *
8183464 TTATTATTA
1 TTCTTATTC
* *
8183473 TTATTATTA
1 TTCTTATTC
* *
8183482 TTATTATTA
1 TTCTTATTC
* *
8183491 TTATTATTA
1 TTCTTATTC
* *
8183500 TTATTATTA
1 TTCTTATTC
* *
8183509 TTATTATTA
1 TTCTTATTC
8183518 TTCTTATTC
1 TTCTTATTC
8183527 TTC---TTC
1 TTCTTATTC
* *
8183533 TTATTATTA
1 TTCTTATTC
* *
8183542 TTATTATTA
1 TTCTTATTC
* *
8183551 TTATTATTA
1 TTCTTATTC
* *
8183560 TTATTATTA
1 TTCTTATTC
* *
8183569 TTATTATTA
1 TTCTTATTC
*
8183578 TTATTATTC
1 TTCTTATTC
*
8183587 TTCTTCTTC
1 TTCTTATTC
*
8183596 TTCTTCTTC
1 TTCTTATTC
*
8183605 TTCTTCTTC
1 TTCTTATTC
*
8183614 TTCTTCTTC
1 TTCTTATTC
*
8183623 TTCTTCTTC
1 TTCTTATTC
*
8183632 TTCTTCTTC
1 TTCTTATTC
*
8183641 TTCTTCTTC
1 TTCTTATTC
*
8183650 TTCTTCTTC
1 TTCTTATTC
8183659 TTCT
1 TTCT
8183663 ATCATTAACC
Statistics
Matches: 227, Mismatches: 14, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
6 5 0.02
9 222 0.98
ACGTcount: A:0.16, C:0.17, G:0.00, T:0.67
Consensus pattern (9 bp):
TTCTTATTC
Found at i:8183464 original size:3 final size:3
Alignment explanation
Indices: 8183458--8183585 Score: 220
Period size: 3 Copynumber: 42.7 Consensus size: 3
8183448 CTTATTCTTC
8183458 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
8183506 TTA TTA TTA TTA TTC TTA TTC TTC TTC TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
8183554 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
8183586 CTTCTTCTTC
Statistics
Matches: 121, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 121 1.00
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:8183590 original size:3 final size:3
Alignment explanation
Indices: 8183584--8183662 Score: 158
Period size: 3 Copynumber: 26.3 Consensus size: 3
8183574 ATTATTATTA
8183584 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
8183632 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
8183663 ATCATTAACC
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 76 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:8189830 original size:8 final size:8
Alignment explanation
Indices: 8189817--8189844 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
8189807 CATAGAATTC
8189817 TTTTTTAT
1 TTTTTTAT
8189825 TTTTTTAT
1 TTTTTTAT
8189833 TTTTTTAT
1 TTTTTTAT
8189841 TTTT
1 TTTT
8189845 GAATTTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTTTAT
Found at i:8189850 original size:16 final size:16
Alignment explanation
Indices: 8189817--8189851 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
8189807 CATAGAATTC
**
8189817 TTTTTTATTTTTTTAT
1 TTTTTTATTTTTGAAT
8189833 TTTTTTATTTTTGAAT
1 TTTTTTATTTTTGAAT
8189849 TTT
1 TTT
8189852 AAAGAATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.83
Consensus pattern (16 bp):
TTTTTTATTTTTGAAT
Found at i:8193276 original size:15 final size:16
Alignment explanation
Indices: 8193252--8193293 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
8193242 TTAAACTATA
8193252 TAAAATTAAATAT-TAT
1 TAAAA-TAAATATGTAT
8193268 TAAAATAAA-ATGTAT
1 TAAAATAAATATGTAT
8193283 T-AAATAAATAT
1 TAAAATAAATAT
8193294 AATGATTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 9 0.38
15 10 0.42
16 5 0.21
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (16 bp):
TAAAATAAATATGTAT
Found at i:8203133 original size:8 final size:8
Alignment explanation
Indices: 8203122--8203208 Score: 57
Period size: 8 Copynumber: 10.4 Consensus size: 8
8203112 AAAAAATTGA
8203122 AAATTTAT
1 AAATTTAT
*
8203130 AAATATAT
1 AAATTTAT
*
8203138 AAATATAT
1 AAATTTAT
**
8203146 ATAATAAAT
1 A-AATTTAT
**
8203155 AAAATAAAT
1 -AAATTTAT
8203164 AAAAATTTAT
1 -AA-ATTTAT
*
8203174 AGATTTAT
1 AAATTTAT
*
8203182 AGATTTAT
1 AAATTTAT
*
8203190 AGATTTAT
1 AAATTTAT
8203198 AAATTTAT
1 AAATTTAT
8203206 AAA
1 AAA
8203209 AATATATAAA
Statistics
Matches: 70, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
8 48 0.69
9 17 0.24
10 5 0.07
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.40
Consensus pattern (8 bp):
AAATTTAT
Found at i:8203189 original size:16 final size:16
Alignment explanation
Indices: 8203166--8203206 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
8203156 AAATAAATAA
8203166 AAATTTATAGATTTAT
1 AAATTTATAGATTTAT
*
8203182 AGATTTATAGATTTAT
1 AAATTTATAGATTTAT
8203198 AAATTTATA
1 AAATTTATA
8203207 AAAATATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (16 bp):
AAATTTATAGATTTAT
Found at i:8205659 original size:18 final size:18
Alignment explanation
Indices: 8205636--8205674 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
8205626 GCAATCAAAC
8205636 AGACCCTTAGTCTATTGA
1 AGACCCTTAGTCTATTGA
8205654 AGACCCTTAGTCTATTGA
1 AGACCCTTAGTCTATTGA
8205672 AGA
1 AGA
8205675 GTTGATTGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.31
Consensus pattern (18 bp):
AGACCCTTAGTCTATTGA
Found at i:8206845 original size:29 final size:29
Alignment explanation
Indices: 8206806--8206862 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
8206796 CGTCCTTCCA
8206806 TTTCCATTTTTAATAAATGGCCCAATATT
1 TTTCCATTTTTAATAAATGGCCCAATATT
* **
8206835 TTTCCCTTTTTGCTAAATGGCCCAATAT
1 TTTCCATTTTTAATAAATGGCCCAATAT
8206863 GTTTATGCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.26, C:0.21, G:0.09, T:0.44
Consensus pattern (29 bp):
TTTCCATTTTTAATAAATGGCCCAATATT
Found at i:8208551 original size:5 final size:5
Alignment explanation
Indices: 8208536--8208586 Score: 50
Period size: 5 Copynumber: 10.2 Consensus size: 5
8208526 AAATTTAACG
* * * *
8208536 TTCTT TCCTT TTCTT TTCTC TTCTT TTCTT GTCTT TTTTCT TTC-T TTCTT
1 TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TTCT-T TTCTT TTCTT
8208586 T
1 T
8208587 CTTCTTTTTT
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
4 4 0.11
5 29 0.81
6 3 0.08
ACGTcount: A:0.00, C:0.24, G:0.02, T:0.75
Consensus pattern (5 bp):
TTCTT
Found at i:8208561 original size:15 final size:15
Alignment explanation
Indices: 8208543--8208594 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
8208533 ACGTTCTTTC
8208543 CTTTTCTTTTCTCTT
1 CTTTTCTTTTCTCTT
* *
8208558 CTTTTCTTGTCTTTT
1 CTTTTCTTTTCTCTT
* *
8208573 TTCTTTCTTTCTTTCTT
1 CT-TTTCTTT-TCTCTT
8208590 CTTTT
1 CTTTT
8208595 TTGTTCTGAT
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
15 14 0.50
16 9 0.32
17 5 0.18
ACGTcount: A:0.00, C:0.23, G:0.02, T:0.75
Consensus pattern (15 bp):
CTTTTCTTTTCTCTT
Found at i:8208561 original size:20 final size:21
Alignment explanation
Indices: 8208536--8208594 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 21
8208526 AAATTTAACG
8208536 TTCTTTCCTTTTCTTTTCTC-
1 TTCTTTCCTTTTCTTTTCTCT
* * *
8208556 TTCTTTTCTTGTCTTTTTTCT
1 TTCTTTCCTTTTCTTTTCTCT
*
8208577 TTCTTTCTTTCTTCTTTT
1 TTCTTTCCTT-TTCTTTT
8208595 TTGTTCTGAT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
20 17 0.55
21 8 0.26
22 6 0.19
ACGTcount: A:0.00, C:0.24, G:0.02, T:0.75
Consensus pattern (21 bp):
TTCTTTCCTTTTCTTTTCTCT
Found at i:8208576 original size:12 final size:11
Alignment explanation
Indices: 8208536--8208596 Score: 54
Period size: 12 Copynumber: 5.2 Consensus size: 11
8208526 AAATTTAACG
8208536 TTCTTTCCTTTT
1 TTCTTT-CTTTT
8208548 CTT-TTCTCTTCTT
1 -TTCTT-TCTT-TT
8208561 TTCTTGTCTTTT
1 TTCTT-TCTTTT
8208573 TTCTTTCTTTCT
1 TTCTTTCTTT-T
8208585 TTC-TTCTTTT
1 TTCTTTCTTTT
8208595 TT
1 TT
8208597 GTTCTGATTT
Statistics
Matches: 43, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
10 3 0.07
11 11 0.26
12 18 0.42
13 11 0.26
ACGTcount: A:0.00, C:0.23, G:0.02, T:0.75
Consensus pattern (11 bp):
TTCTTTCTTTT
Found at i:8209320 original size:63 final size:62
Alignment explanation
Indices: 8209174--8209327 Score: 148
Period size: 63 Copynumber: 2.5 Consensus size: 62
8209164 TGTTAAACGG
* * * *
8209174 GCATGTGTTCAAGCCATGTGACTTACTATTTTCCCCTATAGACCACACGAGCCAAGGATACAA
1 GCATGTGTTCAAGCCATGTGACTCACTACTTGCCCCTATAGACCACACGAGCCAA-GAAACAA
** * * * * * * *
8209237 GTGTTTGTCCAGGCCGTGTGACTCACTGCTTGCCCCTATAGACCACATGGGCCAA-AAACATA
1 GCATGTGTTCAAGCCATGTGACTCACTACTTGCCCCTATAGACCACACGAGCCAAGAAACA-A
*
8209299 GACATGTGTTCAAGCCATGTGACACACTA
1 G-CATGTGTTCAAGCCATGTGACTCACTA
8209328 TTTGTACATT
Statistics
Matches: 68, Mismatches: 21, Indels: 4
0.73 0.23 0.04
Matches are distributed among these distances:
61 4 0.06
62 2 0.03
63 62 0.91
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (62 bp):
GCATGTGTTCAAGCCATGTGACTCACTACTTGCCCCTATAGACCACACGAGCCAAGAAACAA
Found at i:8214858 original size:20 final size:20
Alignment explanation
Indices: 8214830--8214878 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
8214820 TTTTATCTTG
* *
8214830 ATTTTATTTGATTTCAATCA
1 ATTTGATTTGATTTCAAACA
*
8214850 ATTTGATTTGATTTTAAACA
1 ATTTGATTTGATTTCAAACA
*
8214870 AATTGATTT
1 ATTTGATTT
8214879 AATTGCTCCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.33, C:0.06, G:0.08, T:0.53
Consensus pattern (20 bp):
ATTTGATTTGATTTCAAACA
Found at i:8215669 original size:399 final size:399
Alignment explanation
Indices: 8214931--8215732 Score: 1595
Period size: 399 Copynumber: 2.0 Consensus size: 399
8214921 GATGTTTCCA
*
8214931 AAATTCCTCCATATTGAATGTCTATAAAAACCTAAAGAATTCTTTAGAAATTTTTAACAGTCTCT
1 AAATTCCTCCATATTGAATGTCTATAAAAACCTAAAGAATTCTTTAGAAATTTTTAACACTCTCT
8214996 CACATTGAGTTTATTTTTCTCTCCAAAATTCTTCTCTTTTTCCTCTCCATATTTTCCAATGTTTT
66 CACATTGAGTTTATTTTTCTCTCCAAAATTCTTCTCTTTTTCCTCTCCATATTTTCCAATGTTTT
8215061 AGTGACAGAAGAAGGCAACGTTTGTTCGTTGATCCTTGCAGAGGTGCTGCTACTTCGATCATCTT
131 AGTGACAGAAGAAGGCAACGTTTGTTCGTTGATCCTTGCAGAGGTGCTGCTACTTCGATCATCTT
8215126 GTTGTTGTATCCTGGGAGACAGTCGACTAACGTTTCTCCAAGTACCATAGGAGTGGTCGAGTCTG
196 GTTGTTGTATCCTGGGAGACAGTCGACTAACGTTTCTCCAAGTACCATAGGAGTGGTCGAGTCTG
8215191 TTTTAAGGAAATTGTGTAAAATAGGTCTCAACATCTAGTAAAACTCGATTCTTTTATTCGATTTC
261 TTTTAAGGAAATTGTGTAAAATAGGTCTCAACATCTAGTAAAACTCGATTCTTTTATTCGATTTC
8215256 TGATTTTCATAATCTTATTTATTAGTTTTACGTATATGATATTTTAAATATAAATTATTTATTTT
326 TGATTTTCATAATCTTATTTATTAGTTTTACGTATATGATATTTTAAATATAAATTATTTATTTT
8215321 ATTTTATAT
391 ATTTTATAT
8215330 AAATTCCTCCATATTGAATGTCTATAAAAACCTAAAGAATTCTTTAGAAATTTTTAACACTCTCT
1 AAATTCCTCCATATTGAATGTCTATAAAAACCTAAAGAATTCTTTAGAAATTTTTAACACTCTCT
8215395 CACATTGAGTTTATTTTTCTCTCCAAAATTCTTCTCTTTTTCCTCTCCATATTTTCCAATGTTTT
66 CACATTGAGTTTATTTTTCTCTCCAAAATTCTTCTCTTTTTCCTCTCCATATTTTCCAATGTTTT
8215460 AGTGACAGAAGAAGGCAACGTTTGTTCGTTGATCCTTGCAGAGGTGCTGCTACTTCGATCATCTT
131 AGTGACAGAAGAAGGCAACGTTTGTTCGTTGATCCTTGCAGAGGTGCTGCTACTTCGATCATCTT
8215525 GTTGTTGTATCCTGGGAGACAGTCGACTAACGTTTCTCCAAGTACCATAGGAGTGGTCGAGTCTG
196 GTTGTTGTATCCTGGGAGACAGTCGACTAACGTTTCTCCAAGTACCATAGGAGTGGTCGAGTCTG
8215590 TTTTAAGGAAATTGTGTAAAATAGGTCTCAACATCTAGTAAAACTCGATTCTTTTATTCGATTTC
261 TTTTAAGGAAATTGTGTAAAATAGGTCTCAACATCTAGTAAAACTCGATTCTTTTATTCGATTTC
8215655 TGATTTTCATAATCTTATTTATTAGTTTTACGTATATGATATTTTAAATATAAATTATTTATTTT
326 TGATTTTCATAATCTTATTTATTAGTTTTACGTATATGATATTTTAAATATAAATTATTTATTTT
8215720 ATTTTATAT
391 ATTTTATAT
8215729 AAAT
1 AAAT
8215733 ACTTATTTAT
Statistics
Matches: 402, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
399 402 1.00
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.42
Consensus pattern (399 bp):
AAATTCCTCCATATTGAATGTCTATAAAAACCTAAAGAATTCTTTAGAAATTTTTAACACTCTCT
CACATTGAGTTTATTTTTCTCTCCAAAATTCTTCTCTTTTTCCTCTCCATATTTTCCAATGTTTT
AGTGACAGAAGAAGGCAACGTTTGTTCGTTGATCCTTGCAGAGGTGCTGCTACTTCGATCATCTT
GTTGTTGTATCCTGGGAGACAGTCGACTAACGTTTCTCCAAGTACCATAGGAGTGGTCGAGTCTG
TTTTAAGGAAATTGTGTAAAATAGGTCTCAACATCTAGTAAAACTCGATTCTTTTATTCGATTTC
TGATTTTCATAATCTTATTTATTAGTTTTACGTATATGATATTTTAAATATAAATTATTTATTTT
ATTTTATAT
Found at i:8215747 original size:22 final size:23
Alignment explanation
Indices: 8215702--8215750 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
8215692 GATATTTTAA
*
8215702 ATATAAATTATTTATTTTATTTT
1 ATATAAATTACTTATTTTATTTT
8215725 ATATAAA-TACTTA-TTTATATTT
1 ATATAAATTACTTATTTTAT-TTT
8215747 ATAT
1 ATAT
8215751 TTGTTCGCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 5 0.21
22 12 0.50
23 7 0.29
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (23 bp):
ATATAAATTACTTATTTTATTTT
Found at i:8216779 original size:23 final size:23
Alignment explanation
Indices: 8216753--8216805 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
8216743 AATTAATTTT
*
8216753 TTTATTAAAATGTTACATGATTA
1 TTTATTAAAATATTACATGATTA
*
8216776 TTTATTAAAATATTATATGATTA
1 TTTATTAAAATATTACATGATTA
*
8216799 TATATTA
1 TTTATTA
8216806 TTTGAGTACT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.51
Consensus pattern (23 bp):
TTTATTAAAATATTACATGATTA
Found at i:8217465 original size:21 final size:20
Alignment explanation
Indices: 8217439--8217499 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 20
8217429 TTAACAATGC
8217439 ACTTTTTTAATTTCACGTGTT
1 ACTTTTTTAATTTCAC-TGTT
8217460 ACTTTTTTAATTT---TG-T
1 ACTTTTTTAATTTCACTGTT
8217476 ACTTTTTTAATTTCACATGTT
1 ACTTTTTTAATTTCAC-TGTT
8217497 ACT
1 ACT
8217500 AGGAGATTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
16 14 0.40
17 2 0.06
20 2 0.06
21 17 0.49
ACGTcount: A:0.21, C:0.13, G:0.07, T:0.59
Consensus pattern (20 bp):
ACTTTTTTAATTTCACTGTT
Found at i:8218549 original size:21 final size:22
Alignment explanation
Indices: 8218525--8218568 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
8218515 TACTTTATAT
8218525 AATATATA-TAGTATATAATAA
1 AATATATATTAGTATATAATAA
* *
8218546 AATATATATTATTATATATTAA
1 AATATATATTAGTATATAATAA
8218568 A
1 A
8218569 TACAACAGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
AATATATATTAGTATATAATAA
Found at i:8220315 original size:20 final size:21
Alignment explanation
Indices: 8220268--8220315 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
8220258 TTAGTTAAAG
*
8220268 TTTTTTTTTCTATTTTTTGAA
1 TTTTTTATTCTATTTTTTGAA
*
8220289 TGTTTTATTC-ATTTTTTGAA
1 TTTTTTATTCTATTTTTTGAA
8220309 TTTTTTA
1 TTTTTTA
8220316 ATTTAGTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 16 0.67
21 8 0.33
ACGTcount: A:0.17, C:0.04, G:0.06, T:0.73
Consensus pattern (21 bp):
TTTTTTATTCTATTTTTTGAA
Found at i:8221351 original size:15 final size:15
Alignment explanation
Indices: 8221333--8221362 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
8221323 TTGTTTTAGC
*
8221333 GCTAATTAACCTAAA
1 GCTAATTAACATAAA
8221348 GCTAATTAACATAAA
1 GCTAATTAACATAAA
8221363 TTTAGGTGTA
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:0.50, C:0.17, G:0.07, T:0.27
Consensus pattern (15 bp):
GCTAATTAACATAAA
Found at i:8222249 original size:29 final size:29
Alignment explanation
Indices: 8222203--8222262 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 29
8222193 GTTAATGATT
*
8222203 TATAAAAATTAAATC-AAATTAAAATTTCA
1 TATAAAAATTAAATCAAAATCAAAA-TTCA
*
8222232 TATATAAAATTACA-CAAAATCAAAATTCA
1 TATA-AAAATTAAATCAAAATCAAAATTCA
8222261 TA
1 TA
8222263 ATTGTGATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 11 0.41
30 16 0.59
ACGTcount: A:0.58, C:0.10, G:0.00, T:0.32
Consensus pattern (29 bp):
TATAAAAATTAAATCAAAATCAAAATTCA
Found at i:8222580 original size:43 final size:42
Alignment explanation
Indices: 8222515--8222777 Score: 330
Period size: 43 Copynumber: 6.1 Consensus size: 42
8222505 CGCTATTATC
* *
8222515 AACGCTGCTATAGATCATGACCTTTAGCGGCGCTTTTCCTACA
1 AACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCC-ACA
*
8222558 AACGCCGCTATAGATCAAGACCTTTAGCGGCTCTTTCTCCACA
1 AACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTT-TCCACA
*
8222601 AACGCCGCTATAGATCAAGACCTTTAACGGCGCTTTTCCCACA
1 AACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTT-CCACA
* **
8222644 AACGCCGCTATAGATCAAGACCTTTAGAGGCATTTTTTCCACA
1 AACGCCGCTATAGATCAAGACCTTTAGCGGC-GCTTTTCCACA
* * **
8222687 AACGCCGCTATAGCTCGAGACCTTTAGCAACGCTTTTCCCACA
1 AACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTT-CCACA
* * * *
8222730 AACGCCGCTATAGAACAA-ACCTTTAGCGACGCTTCTCGCAAA
1 AACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTC-CACA
8222772 AACGCC
1 AACGCC
8222778 ACTAAAAACA
Statistics
Matches: 193, Mismatches: 22, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
41 1 0.01
42 30 0.16
43 155 0.80
44 7 0.04
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (42 bp):
AACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCACA
Found at i:8222660 original size:86 final size:86
Alignment explanation
Indices: 8222515--8222757 Score: 364
Period size: 86 Copynumber: 2.8 Consensus size: 86
8222505 CGCTATTATC
* * *
8222515 AACGCTGCTATAGATCATGACCTTTAGCGGCGCTTTTCCTACAAACGCCGCTATAGATCAAGACC
1 AACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAAGACC
8222580 TTTAGCGGC-TCTTTCTCCACA
66 TTTAGCGGCAT-TTTCTCCACA
*
8222601 AACGCCGCTATAGATCAAGACCTTTAACGGCGCTTTTCCCACAAACGCCGCTATAGATCAAGACC
1 AACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAAGACC
* *
8222666 TTTAGAGGCATTTTTTCCACA
66 TTTAGCGGCATTTTCTCCACA
* * ** *
8222687 AACGCCGCTATAGCTCGAGACCTTTAGCAACGCTTTTCCCACAAACGCCGCTATAGAACAA-ACC
1 AACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAAGACC
8222751 TTTAGCG
66 TTTAGCG
8222758 ACGCTTCTCG
Statistics
Matches: 143, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
85 9 0.06
86 133 0.93
87 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (86 bp):
AACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAAGACC
TTTAGCGGCATTTTCTCCACA
Found at i:8225214 original size:48 final size:49
Alignment explanation
Indices: 8225158--8225253 Score: 149
Period size: 49 Copynumber: 2.0 Consensus size: 49
8225148 AAGTGACTTC
* *
8225158 AAAATTGATCCTATA-TTCATCATTTGTTATCTCCAATGCATTGAGGTA
1 AAAATTGATCCTATATTTCATCATTTGCTATCTCCAAGGCATTGAGGTA
* *
8225206 AAAATTGATCCTATATTTGATCTTTTGCTATCTCCAAGGCATTGAGGT
1 AAAATTGATCCTATATTTCATCATTTGCTATCTCCAAGGCATTGAGGT
8225254 CATTTCAATC
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
48 15 0.35
49 28 0.65
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.40
Consensus pattern (49 bp):
AAAATTGATCCTATATTTCATCATTTGCTATCTCCAAGGCATTGAGGTA
Found at i:8230335 original size:41 final size:40
Alignment explanation
Indices: 8230290--8230391 Score: 141
Period size: 41 Copynumber: 2.5 Consensus size: 40
8230280 TGATTCAGTA
8230290 CACCGGCACTTAGCCTGCTAGACATATAGTCTGAAATATTT
1 CACCGGCA-TTAGCCTGCTAGACATATAGTCTGAAATATTT
* * *
8230331 CACCGGCATTAAGCCTGCTAGACATTTAGTCTGAAGTGTTT
1 CACCGGCATT-AGCCTGCTAGACATATAGTCTGAAATATTT
*
8230372 CACCGGCAATAAGCCTGCTA
1 CACCGGC-ATTAGCCTGCTA
8230392 AGCGCTAAGC
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
40 2 0.04
41 51 0.93
42 2 0.04
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.27
Consensus pattern (40 bp):
CACCGGCATTAGCCTGCTAGACATATAGTCTGAAATATTT
Found at i:8230406 original size:41 final size:41
Alignment explanation
Indices: 8230290--8230406 Score: 112
Period size: 41 Copynumber: 2.9 Consensus size: 41
8230280 TGATTCAGTA
* * * * *
8230290 CACCGGCACTTAGCCTGCTAGACA-TATAGTCTGAAATATTT
1 CACCGGCAATAAGCCTGCTAGACACTA-AGCCTGAAGTGTTT
* * * *
8230331 CACCGGCATTAAGCCTGCTAGACATTTAGTCTGAAGTGTTT
1 CACCGGCAATAAGCCTGCTAGACACTAAGCCTGAAGTGTTT
*
8230372 CACCGGCAATAAGCCTGCTA-AGCGCTAAGCCTGAA
1 CACCGGCAATAAGCCTGCTAGA-CACTAAGCCTGAA
8230407 AATCTCAATT
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
40 1 0.02
41 62 0.97
42 1 0.02
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.26
Consensus pattern (41 bp):
CACCGGCAATAAGCCTGCTAGACACTAAGCCTGAAGTGTTT
Found at i:8231987 original size:13 final size:13
Alignment explanation
Indices: 8231969--8231993 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8231959 CAATCAAATG
8231969 CACACAAAATAAA
1 CACACAAAATAAA
8231982 CACACAAAATAA
1 CACACAAAATAA
8231994 TATTAAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:8233216 original size:61 final size:61
Alignment explanation
Indices: 8233041--8233221 Score: 192
Period size: 61 Copynumber: 3.0 Consensus size: 61
8233031 TTCTTTTTAC
*
8233041 ATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAATTGTATTAAATTATATATT
1 ATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATT
* * ** * * * * *
8233102 TTTATTAAATTATATTTA-ATAATAATTATGTTAA-ATT-A-TATTTTA-TAGTATTATATATT
1 ATGATTTTATTAAATTCATATAAGAA-TAT-TTAATATTAAGAATTTTATTA-AATTATATATT
**
8233161 ATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATT
1 ATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATT
8233222 TTTATTAAAT
Statistics
Matches: 91, Mismatches: 21, Indels: 16
0.71 0.16 0.12
Matches are distributed among these distances:
58 6 0.07
59 31 0.34
60 14 0.15
61 34 0.37
62 6 0.07
ACGTcount: A:0.44, C:0.01, G:0.06, T:0.50
Consensus pattern (61 bp):
ATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATT
Found at i:8233254 original size:120 final size:120
Alignment explanation
Indices: 8233041--8233256 Score: 405
Period size: 120 Copynumber: 1.8 Consensus size: 120
8233031 TTCTTTTTAC
**
8233041 ATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAATTGTATTAAATTATATATTTTTA
1 ATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTGTATTAAATTATATATTTTTA
8233106 TTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATT
66 TTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATT
*
8233161 ATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTA
1 ATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTGTATTAAATTATATATTTTTA
8233226 TTAAATTATATTTAATAATAATTATGTTAAA
66 TTAAATTATATTTAATAATAATTATGTTAAA
8233257 ATATGATTAA
Statistics
Matches: 93, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 93 1.00
ACGTcount: A:0.44, C:0.01, G:0.05, T:0.50
Consensus pattern (120 bp):
ATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTGTATTAAATTATATATTTTTA
TTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATT
Found at i:8233449 original size:44 final size:45
Alignment explanation
Indices: 8233400--8233490 Score: 132
Period size: 45 Copynumber: 2.0 Consensus size: 45
8233390 ACCTCTATTC
8233400 CATTCAACCAAACACA-AGA-ATACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACA-ATAGATATACTATTACGCCTCTATTCCATTA
* * *
8233444 CATTCAACCAAACAATTGATTTGCTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACAATAGATATACTATTACGCCTCTATTCCATTA
8233489 CA
1 CA
8233491 CCTCTATTTC
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 16 0.38
45 25 0.60
ACGTcount: A:0.35, C:0.29, G:0.05, T:0.31
Consensus pattern (45 bp):
CATTCAACCAAACAATAGATATACTATTACGCCTCTATTCCATTA
Found at i:8233494 original size:16 final size:16
Alignment explanation
Indices: 8233469--8233522 Score: 72
Period size: 16 Copynumber: 3.4 Consensus size: 16
8233459 TTGATTTGCT
*
8233469 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
*
8233485 ATTACACCTCTATTTC
1 ATTACACCTCTATTCC
*
8233501 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
*
8233517 AATACA
1 ATTACA
8233523 GCGAACCAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.26, C:0.33, G:0.04, T:0.37
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:8234335 original size:19 final size:19
Alignment explanation
Indices: 8234311--8234359 Score: 89
Period size: 19 Copynumber: 2.5 Consensus size: 19
8234301 TAAAATTATA
8234311 ATTTTTAGTTTTTGTATTTC
1 ATTTTTA-TTTTTGTATTTC
8234331 ATTTTTATTTTTGTATTTC
1 ATTTTTATTTTTGTATTTC
8234350 ATTTTTATTT
1 ATTTTTATTT
8234360 GTTATAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 22 0.76
20 7 0.24
ACGTcount: A:0.16, C:0.04, G:0.06, T:0.73
Consensus pattern (19 bp):
ATTTTTATTTTTGTATTTC
Found at i:8234798 original size:21 final size:22
Alignment explanation
Indices: 8234762--8234808 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
8234752 ATAAATCCCT
*
8234762 AACCCCTAACCCTTAAACCTTA
1 AACCCCTAACCCTTAAACCATA
*
8234784 AACCCC-AACCTTTAAACCATA
1 AACCCCTAACCCTTAAACCATA
8234805 AACC
1 AACC
8234809 ATAAACCATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.40, C:0.40, G:0.00, T:0.19
Consensus pattern (22 bp):
AACCCCTAACCCTTAAACCATA
Found at i:8234813 original size:14 final size:14
Alignment explanation
Indices: 8234796--8234831 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
8234786 CCCCAACCTT
8234796 TAAACCATAAACCA
1 TAAACCATAAACCA
* *
8234810 TAAACCATAATCCC
1 TAAACCATAAACCA
8234824 TAAACCAT
1 TAAACCAT
8234832 CGAAGTATCC
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:0.50, C:0.31, G:0.00, T:0.19
Consensus pattern (14 bp):
TAAACCATAAACCA
Found at i:8235585 original size:22 final size:22
Alignment explanation
Indices: 8235545--8235608 Score: 58
Period size: 22 Copynumber: 2.9 Consensus size: 22
8235535 TATCAAACTA
* * *
8235545 ATAAACCATAACCCCTAAACCC
1 ATAATCCATAAACCTTAAACCC
***
8235567 ATAATCCATAAACCTTAAAATG
1 ATAATCCATAAACCTTAAACCC
8235589 AT-ATCACATAAACCTTAAAC
1 ATAATC-CATAAACCTTAAAC
8235609 TCTAAATCAT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
21 3 0.09
22 31 0.91
ACGTcount: A:0.48, C:0.28, G:0.02, T:0.22
Consensus pattern (22 bp):
ATAATCCATAAACCTTAAACCC
Found at i:8235945 original size:41 final size:41
Alignment explanation
Indices: 8235866--8235986 Score: 152
Period size: 41 Copynumber: 2.9 Consensus size: 41
8235856 GCTAAAAAAA
* * * **
8235866 GAGCATTAGCGGCGCTTTCTCAAAAAATGCCGTTAAAGCCTT
1 GAGCATTAGCGGCGCTTCCTC-AAAAACGCCGCTAAAGCCCC
* *
8235908 GAGCATTAGCGGCGCCTCCTCAAAAACGCCACTAAAGCCCC
1 GAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCC
* *
8235949 AAGCATTAGCGACGCTTCCTCAAAAACGCCGCTAAAGC
1 GAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGC
8235987 TCGCCTTCTC
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
41 49 0.72
42 19 0.28
ACGTcount: A:0.31, C:0.31, G:0.20, T:0.18
Consensus pattern (41 bp):
GAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCC
Found at i:8235998 original size:68 final size:68
Alignment explanation
Indices: 8235920--8236052 Score: 180
Period size: 68 Copynumber: 2.0 Consensus size: 68
8235910 GCATTAGCGG
8235920 CGCCTCCTCAAAAACGCCACTAAAGCCCCA-AGCATTAGCGACGCTTC-CTCAAAAACGCCGCTA
1 CGCCTCCTCAAAAACGCCACTAAAG-CCCAGAGCATTAGCGACGCTTCTC-CAAAAACGCCGCTA
8235983 AAGCT
64 AAGCT
* * * * * *
8235988 CGCCTTCTCAAAAATGCCGCTATAGCCCAGAGCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAA
1 CGCCTCCTCAAAAACGCCACTAAAGCCCAGAGCATTAGCGACGCTTCTCCAAAAACGCCGCTAAA
8236053 TCCCTAGCAT
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
67 4 0.07
68 52 0.91
69 1 0.02
ACGTcount: A:0.31, C:0.35, G:0.17, T:0.17
Consensus pattern (68 bp):
CGCCTCCTCAAAAACGCCACTAAAGCCCAGAGCATTAGCGACGCTTCTCCAAAAACGCCGCTAAA
GCT
Found at i:8236052 original size:109 final size:109
Alignment explanation
Indices: 8235882--8236092 Score: 273
Period size: 109 Copynumber: 1.9 Consensus size: 109
8235872 TAGCGGCGCT
* **
8235882 TTCTCAAAAAATGCCGTTAAAGCCTTGAGCATTAGCGGCGCCTCCTCAAAAACGCCACTAAAGCC
1 TTCTCAAAAAATGCCGCTAAAGCCCAGAGCATTAGCGGCGCCTCCTCAAAAACGCCACTAAA-CC
*
8235947 CCAAGCATTAGCGACGCTTCCTCAAAAACGCCGCTAAAGCTCGCC
65 CCAAGCATTAGCGACGCTTCATCAAAAACGCCGCTAAAGCTCGCC
* ** * *
8235992 TTCTC-AAAAATGCCGCTATAGCCCAGAGCATTAGCGGCG-CTTTTCCAAAAACGCCGCTAAATC
1 TTCTCAAAAAATGCCGCTAAAGCCCAGAGCATTAGCGGCGCCTCCT-CAAAAACGCCACTAAACC
* * * *
8236055 CCTAGCATTAGCGGCGCTTTATTAAAAACGCCGCTAAA
65 CCAAGCATTAGCGACGCTTCATCAAAAACGCCGCTAAA
8236093 TCCCCGAAAC
Statistics
Matches: 87, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
108 37 0.43
109 45 0.52
110 5 0.06
ACGTcount: A:0.31, C:0.31, G:0.18, T:0.20
Consensus pattern (109 bp):
TTCTCAAAAAATGCCGCTAAAGCCCAGAGCATTAGCGGCGCCTCCTCAAAAACGCCACTAAACCC
CAAGCATTAGCGACGCTTCATCAAAAACGCCGCTAAAGCTCGCC
Found at i:8236070 original size:40 final size:40
Alignment explanation
Indices: 8235995--8236096 Score: 134
Period size: 40 Copynumber: 2.5 Consensus size: 40
8235985 GCTCGCCTTC
* * * *
8235995 TCAAAAATGCCGCTATAGCCCAGAGCATTAGCGGCGCTTT-
1 TCAAAAACGCCGCTAAATCCC-TAGCATTAGCGGCGCTTTA
8236035 TCCAAAAACGCCGCTAAATCCCTAGCATTAGCGGCGCTTTA
1 T-CAAAAACGCCGCTAAATCCCTAGCATTAGCGGCGCTTTA
*
8236076 TTAAAAACGCCGCTAAATCCC
1 TCAAAAACGCCGCTAAATCCC
8236097 CGAAACCGGC
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
40 37 0.67
41 18 0.33
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (40 bp):
TCAAAAACGCCGCTAAATCCCTAGCATTAGCGGCGCTTTA
Found at i:8242739 original size:16 final size:16
Alignment explanation
Indices: 8242718--8242752 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
8242708 AACCTAAACC
8242718 ACCCGATAGATTTCGA
1 ACCCGATAGATTTCGA
8242734 ACCCGATAGATTTCGA
1 ACCCGATAGATTTCGA
8242750 ACC
1 ACC
8242753 AATTCGCTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (16 bp):
ACCCGATAGATTTCGA
Found at i:8242821 original size:3 final size:3
Alignment explanation
Indices: 8242813--8242865 Score: 97
Period size: 3 Copynumber: 17.7 Consensus size: 3
8242803 GGTGAGGTGG
*
8242813 ATT ATT ATT ATT ACT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
8242861 ATT AT
1 ATT AT
8242866 ATAGTGGATA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:8244690 original size:11 final size:11
Alignment explanation
Indices: 8244674--8244739 Score: 56
Period size: 11 Copynumber: 6.5 Consensus size: 11
8244664 TCCGCCTTGT
8244674 TTTTTAAATAA
1 TTTTTAAATAA
8244685 TTTTT-AAT--
1 TTTTTAAATAA
8244693 TTTTTAAATAA
1 TTTTTAAATAA
*
8244704 ATTTT--ATAA
1 TTTTTAAATAA
8244713 TTTTCT--ATAA
1 TTTT-TAAATAA
*
8244723 ATTTTAAATAA
1 TTTTTAAATAA
8244734 TTTTTA
1 TTTTTA
8244740 TTCTTTTTGC
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
8 5 0.11
9 11 0.24
10 11 0.24
11 18 0.40
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTTAAATAA
Found at i:8244697 original size:19 final size:21
Alignment explanation
Indices: 8244673--8244738 Score: 77
Period size: 19 Copynumber: 3.2 Consensus size: 21
8244663 TTCCGCCTTG
8244673 TTTTTTAAAT-AATTTT-TAA
1 TTTTTTAAATAAATTTTATAA
8244692 TTTTTTAAATAAATTTTATAA
1 TTTTTTAAATAAATTTTATAA
*
8244713 TTTTCT--ATAAATTTTAAATAA
1 TTTTTTAAATAAATTTT--ATAA
8244734 TTTTT
1 TTTTT
8244739 ATTCTTTTTG
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
19 19 0.46
20 6 0.15
21 16 0.39
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTTTTAAATAAATTTTATAA
Found at i:8244706 original size:20 final size:20
Alignment explanation
Indices: 8244673--8244738 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 20
8244663 TTCCGCCTTG
8244673 TTTTTTAAATAATTTT-TAA
1 TTTTTTAAATAATTTTATAA
8244692 TTTTTTAAATAAATTTTATAA
1 TTTTTTAAAT-AATTTTATAA
* *
8244713 TTTTCTATA-AATTTTAAATAA
1 TTTTTTAAATAATTTT--ATAA
8244734 TTTTT
1 TTTTT
8244739 ATTCTTTTTG
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
19 16 0.40
20 6 0.15
21 18 0.45
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTTTTAAATAATTTTATAA
Found at i:8244735 original size:10 final size:10
Alignment explanation
Indices: 8244675--8244737 Score: 51
Period size: 10 Copynumber: 6.4 Consensus size: 10
8244665 CCGCCTTGTT
8244675 TTTTAAATAA
1 TTTTAAATAA
* *
8244685 TTTTTAAT-T
1 TTTTAAATAA
8244694 TTTTAAATAAA
1 TTTTAAAT-AA
8244705 TTTT--ATAA
1 TTTTAAATAA
**
8244713 TTTTCTATAAA
1 TTTTAAAT-AA
8244724 TTTTAAATAA
1 TTTTAAATAA
8244734 TTTT
1 TTTT
8244738 TATTCTTTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
8 6 0.14
9 9 0.21
10 15 0.36
11 12 0.29
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.59
Consensus pattern (10 bp):
TTTTAAATAA
Found at i:8245091 original size:29 final size:29
Alignment explanation
Indices: 8245049--8245114 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 29
8245039 CCGAATATAA
8245049 TAAATATA-TTTTTTAAAATTTTATTAATTT
1 TAAA-ATACTTTTTTAAAATTTT-TTAATTT
** *
8245079 TAAAATACTTTTTTATTATTTTTTATTTT
1 TAAAATACTTTTTTAAAATTTTTTAATTT
8245108 TAAAATA
1 TAAAATA
8245115 AATTTTTGGT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 16 0.50
30 16 0.50
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (29 bp):
TAAAATACTTTTTTAAAATTTTTTAATTT
Found at i:8245121 original size:30 final size:31
Alignment explanation
Indices: 8245050--8245121 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 31
8245040 CGAATATAAT
*
8245050 AAATATATTTTTTAAAATTTTATTAATTTTA
1 AAATAAATTTTTTAAAATTTTATTAATTTTA
* ** *
8245081 AAAT-ACTTTTTTATTATTTT-TTATTTTTA
1 AAATAAATTTTTTAAAATTTTATTAATTTTA
8245110 AAATAAATTTTT
1 AAATAAATTTTT
8245122 GGTGTATATT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
29 12 0.35
30 18 0.53
31 4 0.12
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (31 bp):
AAATAAATTTTTTAAAATTTTATTAATTTTA
Found at i:8247254 original size:21 final size:22
Alignment explanation
Indices: 8247224--8247266 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
8247214 GTGCTTTCTA
*
8247224 TAAAATGAGC-TAGAACATATT
1 TAAAACGAGCATAGAACATATT
8247245 TAAAACGAGCTATAGAACATAT
1 TAAAACGAGC-ATAGAACATAT
8247267 GTAGATGGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 9 0.47
23 10 0.53
ACGTcount: A:0.49, C:0.12, G:0.14, T:0.26
Consensus pattern (22 bp):
TAAAACGAGCATAGAACATATT
Found at i:8252147 original size:32 final size:32
Alignment explanation
Indices: 8252111--8252187 Score: 100
Period size: 32 Copynumber: 2.4 Consensus size: 32
8252101 TAAAATAAAT
*
8252111 TATGAAAAGTTACGAATGTGAAAAGACTTGAA
1 TATGAAAAGTTACGAATGCGAAAAGACTTGAA
* ** *
8252143 TATGAAGAGTTAATAATGCGAAGAGACTTGAA
1 TATGAAAAGTTACGAATGCGAAAAGACTTGAA
*
8252175 GATGAAAAGTTAC
1 TATGAAAAGTTAC
8252188 ACACATGCAT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.45, C:0.06, G:0.23, T:0.25
Consensus pattern (32 bp):
TATGAAAAGTTACGAATGCGAAAAGACTTGAA
Found at i:8252282 original size:36 final size:38
Alignment explanation
Indices: 8252196--8252282 Score: 115
Period size: 36 Copynumber: 2.3 Consensus size: 38
8252186 ACACACATGC
* * *
8252196 ATGAATAGTCACAACTCCTATAGTATTTAAGTTATGTAA
1 ATGAATAGTCACAACTCC-ATAGCATTTAAGTGATATAA
*
8252235 ATGAATAGTCACAACTCC-TAGCATTT-AGTGATATAG
1 ATGAATAGTCACAACTCCATAGCATTTAAGTGATATAA
8252271 ATGAATAGTCAC
1 ATGAATAGTCAC
8252283 TTACAACTCC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
36 19 0.43
37 7 0.16
39 18 0.41
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (38 bp):
ATGAATAGTCACAACTCCATAGCATTTAAGTGATATAA
Found at i:8256661 original size:32 final size:32
Alignment explanation
Indices: 8256624--8256700 Score: 82
Period size: 32 Copynumber: 2.4 Consensus size: 32
8256614 TAAAATAAAT
* *
8256624 TATGAAAAGTTACGAATGTAAAAATACTTGAA
1 TATGAAAAGTTACGAATGCAAAAAGACTTGAA
* ** * *
8256656 TATGAAGAGTTAATAATGCGAAGAGACTTGAA
1 TATGAAAAGTTACGAATGCAAAAAGACTTGAA
*
8256688 GATGAAAAGTTAC
1 TATGAAAAGTTAC
8256701 ACACATGCAT
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.47, C:0.06, G:0.21, T:0.26
Consensus pattern (32 bp):
TATGAAAAGTTACGAATGCAAAAAGACTTGAA
Found at i:8256795 original size:36 final size:39
Alignment explanation
Indices: 8256709--8256795 Score: 117
Period size: 39 Copynumber: 2.3 Consensus size: 39
8256699 ACACACATGC
* * *
8256709 ATGAATAGTCACAACTCCTATAGTATTTAAGTTATGTAA
1 ATGAATAGTCACAACTCCTATAGCATTTAAGTGATATAA
*
8256748 ATGAATAGTCACAACTCCTA-A-CATTT-AGTGATATAG
1 ATGAATAGTCACAACTCCTATAGCATTTAAGTGATATAA
8256784 ATGAATAGTCAC
1 ATGAATAGTCAC
8256796 TTACAACTCC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
36 19 0.43
37 4 0.09
38 1 0.02
39 20 0.45
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.32
Consensus pattern (39 bp):
ATGAATAGTCACAACTCCTATAGCATTTAAGTGATATAA
Found at i:8258486 original size:26 final size:26
Alignment explanation
Indices: 8258456--8258505 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
8258446 TTCAAATTGT
8258456 TAAATATACGTTACATGAAATGAAAC
1 TAAATATACGTTACATGAAATGAAAC
8258482 TAAATATACGTTACATGAAATGAA
1 TAAATATACGTTACATGAAATGAA
8258506 CATAGCTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.50, C:0.10, G:0.12, T:0.28
Consensus pattern (26 bp):
TAAATATACGTTACATGAAATGAAAC
Found at i:8262502 original size:14 final size:14
Alignment explanation
Indices: 8262433--8262503 Score: 54
Period size: 14 Copynumber: 5.0 Consensus size: 14
8262423 TGCTGGTTAC
* *
8262433 GGTTTTGGGTTTTT
1 GGTTTAGGGTTTTA
* *
8262447 GTTTTAGGGTTTAA
1 GGTTTAGGGTTTTA
* *
8262461 GGTTTA-GGATTAA
1 GGTTTAGGGTTTTA
*
8262474 GGTTTTGTGGGTTTTA
1 GG-TTT-AGGGTTTTA
8262490 GGTTTAGGGTTTTA
1 GGTTTAGGGTTTTA
8262504 AAGAAAAAAA
Statistics
Matches: 44, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
13 8 0.18
14 26 0.59
15 3 0.07
16 7 0.16
ACGTcount: A:0.14, C:0.00, G:0.34, T:0.52
Consensus pattern (14 bp):
GGTTTAGGGTTTTA
Found at i:8262841 original size:126 final size:126
Alignment explanation
Indices: 8262693--8262982 Score: 438
Period size: 126 Copynumber: 2.3 Consensus size: 126
8262683 AGTGTTAATT
* * * *
8262693 TAAAA-AAGCTCCTACGTGGACGCTCTTTTGCTACAGTAACTCCTGAAAAAATAATTTTGAGAAG
1 TAAAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAACTCCTGAAAAAATAATATCGAGAAG
* * **
8262757 ACGTTTCTGAGTAAATAGTGTCAAAAACGCTTTAAGCGGGATGCTTTGTCAGCAAAAGTAC
66 ACGTTTCTAAGCAAATAGTGTCAAAAACGCTTTAAGCAAGATGCTTTGTCAGCAAAAGTAC
* * ** *
8262818 TGAAAGAAGCTCCCATGTGGACGCGCTTTTGCTACAGTGGCTCCTGAAAAAATAATATCGAGTAG
1 TAAAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAACTCCTGAAAAAATAATATCGAGAAG
*
8262883 ATGTTTCTAAGCAAATAGTGTCAAAAACGCTTTAAGCAAGATGCTTTGTCAGCAAAAGTAC
66 ACGTTTCTAAGCAAATAGTGTCAAAAACGCTTTAAGCAAGATGCTTTGTCAGCAAAAGTAC
*
8262944 TAAAAGAAGCTCCCACGTGGACACGCTTTTGCTACAGTA
1 TAAAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTA
8262983 GCACCTGTTT
Statistics
Matches: 146, Mismatches: 18, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
125 4 0.03
126 142 0.97
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.27
Consensus pattern (126 bp):
TAAAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAACTCCTGAAAAAATAATATCGAGAAG
ACGTTTCTAAGCAAATAGTGTCAAAAACGCTTTAAGCAAGATGCTTTGTCAGCAAAAGTAC
Found at i:8264125 original size:43 final size:43
Alignment explanation
Indices: 8264077--8264163 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
8264067 ACATAGCATC
8264077 AATAATGACGTTAACTACCACGTGGTTAAATCCAAAGCTGATA
1 AATAATGACGTTAACTACCACGTGGTTAAATCCAAAGCTGATA
8264120 AATAATGACGTTAACTACCACGTGGTTAAATCCAAAGCTGATA
1 AATAATGACGTTAACTACCACGTGGTTAAATCCAAAGCTGATA
8264163 A
1 A
8264164 GTTTCAGGCG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.25
Consensus pattern (43 bp):
AATAATGACGTTAACTACCACGTGGTTAAATCCAAAGCTGATA
Found at i:8266568 original size:18 final size:18
Alignment explanation
Indices: 8266542--8266584 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
8266532 GACTAGAAAA
* * *
8266542 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
8266560 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
8266578 AGGATAC
1 AGGATAC
8266585 GCACCTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:8269033 original size:30 final size:30
Alignment explanation
Indices: 8268997--8269060 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
8268987 AAAAAAAATT
*
8268997 TCTCAAATTTCTCCCTAAATTTCTTAAAGC
1 TCTCAAATTTCTCCCTAAATTTCTCAAAGC
*
8269027 TCTCAAATTTCTCCTTAAATTTCTCAAAGC
1 TCTCAAATTTCTCCCTAAATTTCTCAAAGC
8269057 TCTC
1 TCTC
8269061 TTTAATTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.28, C:0.28, G:0.03, T:0.41
Consensus pattern (30 bp):
TCTCAAATTTCTCCCTAAATTTCTCAAAGC
Found at i:8272535 original size:126 final size:126
Alignment explanation
Indices: 8272309--8272569 Score: 373
Period size: 126 Copynumber: 2.1 Consensus size: 126
8272299 TAAGGCCAAA
* *
8272309 CAGGAACTACTGTAGAAAAGGAGCGTCCACGTGGGAGCTTTTTTCATCAATTTTGCTGACAATGC
1 CAGGAACTACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCATCAATTTTGCTGACAATGC
* * ** *
8272374 ATCTTGCTTGAAGTGTTTTTGACACTATTTATTCAGAACCGTC-TTCTTAAAATTATTTTTT
66 ATCCTGCTTGAAGCGTTTTTGACACTATTTATTCAGAAAAGTCTTTC-CAAAATTATTTTTT
* * * *
8272435 TAGGAACTATTATAGAAAAAGAGCGTCCATGTGGGAGCTTTTTTCAGT-AATTTTGCTGACAGTG
1 CAGGAACTACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCA-TCAATTTTGCTGACAATG
*
8272499 CATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAAAGTCTTTCCAAAATTATTTTTT
65 CATCCTGCTTGAAGCGTTTTTGACACTATTTATTCAGAAAAGTCTTTCCAAAATTATTTTTT
*
8272561 CAGAAACTA
1 CAGGAACTA
8272570 GTGTGAAAAA
Statistics
Matches: 119, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
126 115 0.97
127 4 0.03
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.37
Consensus pattern (126 bp):
CAGGAACTACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCATCAATTTTGCTGACAATGC
ATCCTGCTTGAAGCGTTTTTGACACTATTTATTCAGAAAAGTCTTTCCAAAATTATTTTTT
Found at i:8298572 original size:19 final size:18
Alignment explanation
Indices: 8298548--8298620 Score: 78
Period size: 19 Copynumber: 3.9 Consensus size: 18
8298538 AATTTAAAGT
8298548 TTAATTAATTTAGTTAATC
1 TTAATTAATTTA-TTAATC
8298567 TTAATTAA-TTATTAA-C
1 TTAATTAATTTATTAATC
*
8298583 TTAAATAATATATATTAATC
1 TTAATTAAT-T-TATTAATC
*
8298603 ATAATTAATTTAATTAAT
1 TTAATTAATTT-ATTAAT
8298621 GGTTTTCATC
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
16 8 0.17
17 4 0.09
18 5 0.11
19 21 0.46
20 8 0.17
ACGTcount: A:0.45, C:0.04, G:0.01, T:0.49
Consensus pattern (18 bp):
TTAATTAATTTATTAATC
Found at i:8301676 original size:26 final size:26
Alignment explanation
Indices: 8301659--8301715 Score: 105
Period size: 26 Copynumber: 2.2 Consensus size: 26
8301649 TTTGATTACG
*
8301659 ATTTTTCGAATTTGAGTTGGAATATC
1 ATTTTTCGAATTCGAGTTGGAATATC
8301685 ATTTTTCGAATTCGAGTTGGAATATC
1 ATTTTTCGAATTCGAGTTGGAATATC
8301711 ATTTT
1 ATTTT
8301716 CGTAAGTGGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.26, C:0.09, G:0.18, T:0.47
Consensus pattern (26 bp):
ATTTTTCGAATTCGAGTTGGAATATC
Found at i:8302733 original size:17 final size:17
Alignment explanation
Indices: 8302711--8302767 Score: 78
Period size: 17 Copynumber: 3.3 Consensus size: 17
8302701 CATGGTAGTT
8302711 AAAAAAAAGGTATAATG
1 AAAAAAAAGGTATAATG
* *
8302728 AAAAAAAGGGTATGATG
1 AAAAAAAAGGTATAATG
*
8302745 AAAAAAAAGGGTAGAATG
1 AAAAAAAA-GGTATAATG
8302763 AAAAA
1 AAAAA
8302768 TTTAGTTCTC
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
17 22 0.65
18 12 0.35
ACGTcount: A:0.63, C:0.00, G:0.23, T:0.14
Consensus pattern (17 bp):
AAAAAAAAGGTATAATG
Found at i:8302734 original size:18 final size:18
Alignment explanation
Indices: 8302711--8302767 Score: 82
Period size: 18 Copynumber: 3.3 Consensus size: 18
8302701 CATGGTAGTT
8302711 AAAAAAAA-GGTATAATG
1 AAAAAAAAGGGTATAATG
*
8302728 -AAAAAAAGGGTATGATG
1 AAAAAAAAGGGTATAATG
*
8302745 AAAAAAAAGGGTAGAATG
1 AAAAAAAAGGGTATAATG
8302763 AAAAA
1 AAAAA
8302768 TTTAGTTCTC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
16 7 0.20
17 8 0.23
18 20 0.57
ACGTcount: A:0.63, C:0.00, G:0.23, T:0.14
Consensus pattern (18 bp):
AAAAAAAAGGGTATAATG
Found at i:8313221 original size:3 final size:3
Alignment explanation
Indices: 8313213--8313264 Score: 68
Period size: 3 Copynumber: 17.3 Consensus size: 3
8313203 AAAGCTCACC
* * * *
8313213 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG CTG CTG CTG CTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
8313261 TTG T
1 TTG T
8313265 GATTTGCCAT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.00, C:0.08, G:0.33, T:0.60
Consensus pattern (3 bp):
TTG
Found at i:8318366 original size:22 final size:22
Alignment explanation
Indices: 8318341--8318383 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
8318331 AACATACCTT
8318341 ATCATACCAGAGCATATCATAA
1 ATCATACCAGAGCATATCATAA
* *
8318363 ATCATACCATATCATATCATA
1 ATCATACCAGAGCATATCATA
8318384 TCATATCATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.44, C:0.23, G:0.05, T:0.28
Consensus pattern (22 bp):
ATCATACCAGAGCATATCATAA
Found at i:8318369 original size:32 final size:32
Alignment explanation
Indices: 8318333--8318393 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
8318323 TATATTGGAA
*
8318333 CATACCTTATCATACCAGAGCATATCATAAAT
1 CATACCATATCATACCAGAGCATATCATAAAT
* * *
8318365 CATACCATATCATATCATATCATATCATA
1 CATACCATATCATACCAGAGCATATCATA
8318394 TCATATCATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.41, C:0.25, G:0.03, T:0.31
Consensus pattern (32 bp):
CATACCATATCATACCAGAGCATATCATAAAT
Found at i:8318373 original size:5 final size:5
Alignment explanation
Indices: 8318353--8318403 Score: 75
Period size: 5 Copynumber: 9.8 Consensus size: 5
8318343 CATACCAGAG
*
8318353 CATAT CATAAAT CATAC CATAT CATAT CATAT CATAT CATAT CATAT CATA
1 CATAT CAT--AT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATA
8318404 CAAAGTCCTA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
5 37 0.88
7 5 0.12
ACGTcount: A:0.43, C:0.22, G:0.00, T:0.35
Consensus pattern (5 bp):
CATAT
Found at i:8318383 original size:15 final size:15
Alignment explanation
Indices: 8318333--8318403 Score: 70
Period size: 15 Copynumber: 4.6 Consensus size: 15
8318323 TATATTGGAA
* *
8318333 CATACCTTATCATAC
1 CATACCATATCATAT
* *
8318348 CAGAGCATATCATAAAT
1 CATACCATATCAT--AT
8318365 CATACCATATCATAT
1 CATACCATATCATAT
*
8318380 CATATCATATCATAT
1 CATACCATATCATAT
*
8318395 CATATCATA
1 CATACCATA
8318404 CAAAGTCCTA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
15 35 0.74
17 12 0.26
ACGTcount: A:0.41, C:0.24, G:0.03, T:0.32
Consensus pattern (15 bp):
CATACCATATCATAT
Found at i:8321986 original size:13 final size:14
Alignment explanation
Indices: 8321951--8321977 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8321941 ACATTTTCAA
8321951 AAATATTTATTTTT
1 AAATATTTATTTTT
8321965 AAATATTTATTTT
1 AAATATTTATTTT
8321978 GAATTTTTAG
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:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
AAATATTTATTTTT
Found at i:8328779 original size:28 final size:28
Alignment explanation
Indices: 8328721--8328780 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
8328711 ATAATTGTTT
* *
8328721 ATTTTTATATATATTTTTATTTTTAGGA
1 ATTTTTATATATATTTTTAATTTTAGAA
* *
8328749 ATTTTTTTATATTTTTTTAGATTTTA-AA
1 ATTTTTATATATATTTTTA-ATTTTAGAA
8328777 ATTT
1 ATTT
8328781 AAGTTTAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 22 0.81
29 5 0.19
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (28 bp):
ATTTTTATATATATTTTTAATTTTAGAA
Found at i:8330824 original size:34 final size:34
Alignment explanation
Indices: 8330782--8330850 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 34
8330772 TAAAATTTGC
**
8330782 AAAAACTTATTATATTCGTAGTGTTTTAAACGTA
1 AAAAACTTATTATATTAATAGTGTTTTAAACGTA
*
8330816 AAAAACTTATTATATTAATAGTGTTTTAGACGTA
1 AAAAACTTATTATATTAATAGTGTTTTAAACGTA
8330850 A
1 A
8330851 GGGTAATGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.41, C:0.07, G:0.12, T:0.41
Consensus pattern (34 bp):
AAAAACTTATTATATTAATAGTGTTTTAAACGTA
Found at i:8339418 original size:13 final size:13
Alignment explanation
Indices: 8339400--8339424 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8339390 TAAATTATCC
8339400 TTTATAGAAATTA
1 TTTATAGAAATTA
8339413 TTTATAGAAATT
1 TTTATAGAAATT
8339425 GCTATACTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TTTATAGAAATTA
Found at i:8362781 original size:28 final size:27
Alignment explanation
Indices: 8362748--8362846 Score: 110
Period size: 28 Copynumber: 3.6 Consensus size: 27
8362738 TAATGAGATT
8362748 AGCACTAAGTGTGCGAGTTTAATTGAA
1 AGCACTAAGTGTGCGAGTTTAATTGAA
* **
8362775 ATGCACTAAGTGTGCGAGTATAAGGGTAA
1 A-GCACTAAGTGTGCGAGTTTAATTG-AA
* *
8362804 AGTACTAAGTGTGCGAGTTTGATT-ATTA
1 AGCACTAAGTGTGCGAGTTTAATTGA--A
8362832 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
8362847 TACTTATTAA
Statistics
Matches: 59, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
26 1 0.02
27 1 0.02
28 54 0.92
29 3 0.05
ACGTcount: A:0.31, C:0.11, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTTAATTGAA
Found at i:8363810 original size:22 final size:22
Alignment explanation
Indices: 8363785--8364089 Score: 195
Period size: 25 Copynumber: 13.0 Consensus size: 22
8363775 TGTGTTATAA
* *
8363785 TTTGATGTAGAATGTTGTCCAT
1 TTTGATGTATAATGCTGTCCAT
8363807 TTTGA-GTATATTGATGCTGTCCAT
1 TTTGATGTATA---ATGCTGTCCAT
*
8363831 TTTAATGTATAATGCTGTCCAAT
1 TTTGATGTATAATGCTGTCC-AT
* *
8363854 TTTGAGTGTATTGATGTTGTCCAT
1 TTTGA-TGTA-TAATGCTGTCCAT
*
8363878 TTTAATGTATAATGCTGTCCAAT
1 TTTGATGTATAATGCTGTCC-AT
* *
8363901 TTT-AAGTATATTGATGCTGCCCAT
1 TTTGATGTATA---ATGCTGTCCAT
*
8363925 TTTAATGTATAATGCTGTCCAAT
1 TTTGATGTATAATGCTGTCC-AT
*
8363948 TTTGAGTGTATTGATGCTGTCCAAT
1 TTTGA-TGTA-TAATGCTGTCC-AT
* *
8363973 TTT-AAGTATATTGATGCTGCCCAT
1 TTTGATGTATA---ATGCTGTCCAT
* * *
8363997 TTTAATGTATATTGATGCTGTCTAA
1 TTTGATGTATA---ATGCTGTCCAT
8364022 TTTGATGTATAATGCTGTCCAT
1 TTTGATGTATAATGCTGTCCAT
* *
8364044 TTTGA-GCATATTATTGCTGTCCAA
1 TTTGATG--TA-TAATGCTGTCCAT
* *
8364068 TTTGCTGAATAATCGCTGTCCA
1 TTTGATGTATAAT-GCTGTCCA
8364090 AAACAGGGTT
Statistics
Matches: 229, Mismatches: 30, Indels: 47
0.75 0.10 0.15
Matches are distributed among these distances:
21 5 0.02
22 55 0.24
23 35 0.15
24 54 0.24
25 80 0.35
ACGTcount: A:0.25, C:0.13, G:0.18, T:0.44
Consensus pattern (22 bp):
TTTGATGTATAATGCTGTCCAT
Found at i:8363866 original size:47 final size:47
Alignment explanation
Indices: 8363789--8364090 Score: 353
Period size: 47 Copynumber: 6.4 Consensus size: 47
8363779 TTATAATTTG
* *
8363789 ATGTAGAATGTTGTCC-ATTTTGAGTATATTGATGCTGTCCATTTTA
1 ATGTATAATGCTGTCCAATTTTGAGTATATTGATGCTGTCCATTTTA
* *
8363835 ATGTATAATGCTGTCCAATTTTGAGTGTATTGATGTTGTCCATTTTA
1 ATGTATAATGCTGTCCAATTTTGAGTATATTGATGCTGTCCATTTTA
* *
8363882 ATGTATAATGCTGTCCAATTTTAAGTATATTGATGCTGCCCATTTTA
1 ATGTATAATGCTGTCCAATTTTGAGTATATTGATGCTGTCCATTTTA
*
8363929 ATGTATAATGCTGTCCAATTTTGAGTGTATTGATGCTGTCCAATTTTA
1 ATGTATAATGCTGTCCAATTTTGAGTATATTGATGCTGTCC-ATTTTA
* * * * *
8363977 A-GTATATTGATGCTG-CCCATTTTAATGTATATTGATGCTGTCTAATTTG
1 ATGTATA---ATGCTGTCCAATTTTGA-GTATATTGATGCTGTCCATTTTA
* * *
8364026 ATGTATAATGCTGTCC-ATTTTGAGCATATT-ATTGCTGTCCAATTTG
1 ATGTATAATGCTGTCCAATTTTGAGTATATTGA-TGCTGTCCATTTTA
* *
8364072 CTGAATAATCGCTGTCCAA
1 ATGTATAAT-GCTGTCCAA
8364091 AACAGGGTTG
Statistics
Matches: 223, Mismatches: 22, Indels: 20
0.84 0.08 0.08
Matches are distributed among these distances:
45 1 0.00
46 40 0.18
47 133 0.60
48 10 0.04
49 13 0.06
50 26 0.12
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.43
Consensus pattern (47 bp):
ATGTATAATGCTGTCCAATTTTGAGTATATTGATGCTGTCCATTTTA
Found at i:8363875 original size:25 final size:25
Alignment explanation
Indices: 8363800--8364070 Score: 232
Period size: 25 Copynumber: 11.4 Consensus size: 25
8363790 TGTAGAATGT
*
8363800 TGTCC-ATTTTGAGTATATTGATGC
1 TGTCCAATTTTGAGTGTATTGATGC
* *
8363824 TGTCC-ATTTT-AATGTA-TAATGC
1 TGTCCAATTTTGAGTGTATTGATGC
*
8363846 TGTCCAATTTTGAGTGTATTGATGT
1 TGTCCAATTTTGAGTGTATTGATGC
* *
8363871 TGTCC-ATTTT-AATGTA-TAATGC
1 TGTCCAATTTTGAGTGTATTGATGC
* *
8363893 TGTCCAATTTTAAGTATATTGATGC
1 TGTCCAATTTTGAGTGTATTGATGC
* * *
8363918 TG-CCCATTTT-AATGTA-TAATGC
1 TGTCCAATTTTGAGTGTATTGATGC
8363940 TGTCCAATTTTGAGTGTATTGATGC
1 TGTCCAATTTTGAGTGTATTGATGC
* *
8363965 TGTCCAATTTTAAGTATATTGATGC
1 TGTCCAATTTTGAGTGTATTGATGC
* * *
8363990 TG-CCCATTTTAATGTATATTGATGC
1 TGTCCAATTTTGA-GTGTATTGATGC
* *
8364015 TGTCTAA-TTTGA-TGTA-TAATGC
1 TGTCCAATTTTGAGTGTATTGATGC
**
8364037 TGTCC-ATTTTGAGCATATT-ATTGC
1 TGTCCAATTTTGAGTGTATTGA-TGC
8364061 TGTCCAATTT
1 TGTCCAATTT
8364071 GCTGAATAAT
Statistics
Matches: 201, Mismatches: 30, Indels: 31
0.77 0.11 0.12
Matches are distributed among these distances:
21 1 0.00
22 40 0.20
23 36 0.18
24 54 0.27
25 68 0.34
26 2 0.01
ACGTcount: A:0.24, C:0.13, G:0.17, T:0.45
Consensus pattern (25 bp):
TGTCCAATTTTGAGTGTATTGATGC
Found at i:8370562 original size:28 final size:25
Alignment explanation
Indices: 8370472--8370570 Score: 90
Period size: 28 Copynumber: 3.6 Consensus size: 25
8370462 TAATGAGATT
8370472 AGCACTAAGTGTGCGAGTTTAATTGA
1 AGCACTAAGTGTGCGAGTTTAATT-A
* *
8370498 AGTTCACTAAGTGTGCGAGTATAAGGGTAA
1 AG--CACTAAGTGTGCGAGTTTAA---TTA
*
8370528 AGAACTAAGTGTGCGAGTTTGATTATTA
1 AGCACTAAGTGTGCGAGTTT-A--ATTA
8370556 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
8370571 TACTTATTAA
Statistics
Matches: 59, Mismatches: 6, Indels: 14
0.75 0.08 0.18
Matches are distributed among these distances:
26 2 0.03
28 51 0.86
29 1 0.02
30 3 0.05
31 2 0.03
ACGTcount: A:0.31, C:0.11, G:0.28, T:0.29
Consensus pattern (25 bp):
AGCACTAAGTGTGCGAGTTTAATTA
Found at i:8371596 original size:47 final size:47
Alignment explanation
Indices: 8371516--8371662 Score: 262
Period size: 47 Copynumber: 3.1 Consensus size: 47
8371506 TTATAATTTG
*
8371516 ATGTATAATGCTGTCC-ATTTTGAGTATATTGATGCTGTCCATTTTA
1 ATGTATAATGCTGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTA
8371562 ATGTATAATGCTGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTA
1 ATGTATAATGCTGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTA
8371609 ATGTATAATGCTGTCCAATTTTGAGTGTATTGATGCTGTCCAATTTTA
1 ATGTATAATGCTGTCCAATTTTGAGTGTATTGATGCTGTCC-ATTTTA
8371657 A-GTATA
1 ATGTATA
8371663 TTGATGCTGC
Statistics
Matches: 98, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
46 16 0.16
47 75 0.77
48 7 0.07
ACGTcount: A:0.25, C:0.12, G:0.18, T:0.44
Consensus pattern (47 bp):
ATGTATAATGCTGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTA
Found at i:8371654 original size:72 final size:70
Alignment explanation
Indices: 8371523--8371840 Score: 283
Period size: 72 Copynumber: 4.5 Consensus size: 70
8371513 TTGATGTATA
* *
8371523 ATGCTGTCCATTTTGA-GTATATTGATGCTGTCC-ATTTT-AATGTATAATGCTGTCCAATTTTG
1 ATGCTGTCCATTTTAATGTATA---ATGCTGTCCAATTTTGAGTGTATAATGCTGTCC-ATTTTG
*
8371585 AGTGTATTG
62 AGTATATTG
* *
8371594 ATGCTGTCCATTTTAATGTATAATGCTGTCCAATTTTGAGTGTATTGATGCTGTCCAATTTTAAG
1 ATGCTGTCCATTTTAATGTATAATGCTGTCCAATTTTGAGTGTA-TAATGCTGTCC-ATTTTGAG
8371659 TATATTG
64 TATATTG
* * * * *
8371666 ATGCTGCCCATTTTAATGTATAATGCTGTCAAATTTTGAGTGTATTGATGCTGTCCATTTTTAAT
1 ATGCTGTCCATTTTAATGTATAATGCTGTCCAATTTTGAGTGTA-TAATGCTGTCCATTTTGAGT
* *
8371731 GTA-TA
65 ATATTG
* * *
8371736 ATGTTGTCCAATTTTAA-GTATATTGATGCTATCTAA-TTTGA-TGTATAATGCTGTCCATTTTG
1 ATGCTGTCC-ATTTTAATGTATA---ATGCTGTCCAATTTTGAGTGTATAATGCTGTCCATTTTG
*
8371798 AGCATATT-
62 AGTATATTG
* ** *
8371806 ATTGCTGTCCAATTTGCTGAATAATCGCTGTCCAA
1 A-TGCTGTCCATTTTAATGTATAAT-GCTGTCCAA
8371841 AACAGGGTTG
Statistics
Matches: 208, Mismatches: 27, Indels: 26
0.80 0.10 0.10
Matches are distributed among these distances:
68 2 0.01
69 16 0.08
70 41 0.20
71 52 0.25
72 88 0.42
73 9 0.04
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.44
Consensus pattern (70 bp):
ATGCTGTCCATTTTAATGTATAATGCTGTCCAATTTTGAGTGTATAATGCTGTCCATTTTGAGTA
TATTG
Found at i:8371692 original size:47 final size:46
Alignment explanation
Indices: 8371547--8371840 Score: 206
Period size: 47 Copynumber: 6.2 Consensus size: 46
8371537 GAGTATATTG
* * *
8371547 ATGCTGTCC-ATTTTAATGTATA--ATGCTGTCCAATTTTGAGTGTATTG
1 ATGCTGTCCAATTTTAA-GTATATTATGCTG-CCCATTTT-AATGTA-TA
* * *
8371594 ATGCTGTCC-ATTTTAATGTATA--ATGCTGTCCAATTTTGAGTGTATTG
1 ATGCTGTCCAATTTTAA-GTATATTATGCTG-CCCATTTT-AATGTA-TA
8371641 ATGCTGTCCAATTTTAAGTATATTGATGCTGCCCATTTTAATGTATA
1 ATGCTGTCCAATTTTAAGTATATT-ATGCTGCCCATTTTAATGTATA
* * * *
8371688 ATGCTGTCAAATTTTGAGTGTATTGATGCTGTCCATTTTTAATGTATA
1 ATGCTGTCCAATTTTAAGTATATT-ATGCTGCCCA-TTTTAATGTATA
* ** * * *
8371736 ATGTTGTCCAATTTTAAGTATATTGATGCTATCTAATTTGATGTATA
1 ATGCTGTCCAATTTTAAGTATATT-ATGCTGCCCATTTTAATGTATA
* * * * ** *
8371783 ATGCTGTCC-ATTTTGAGCATATTATTGCTGTCCAATTTGCTGAATA
1 ATGCTGTCCAATTTTAAGTATATTA-TGCTGCCCATTTTAATGTATA
8371829 ATCGCTGTCCAA
1 AT-GCTGTCCAA
8371841 AACAGGGTTG
Statistics
Matches: 217, Mismatches: 22, Indels: 15
0.85 0.09 0.06
Matches are distributed among these distances:
45 1 0.00
46 31 0.14
47 118 0.54
48 54 0.25
49 7 0.03
50 6 0.03
ACGTcount: A:0.26, C:0.14, G:0.17, T:0.44
Consensus pattern (46 bp):
ATGCTGTCCAATTTTAAGTATATTATGCTGCCCATTTTAATGTATA
Found at i:8371744 original size:95 final size:94
Alignment explanation
Indices: 8371523--8371821 Score: 261
Period size: 95 Copynumber: 3.2 Consensus size: 94
8371513 TTGATGTATA
* * * **
8371523 ATGCTGTCCATTTTGAGTATATTGATGCTGTCC-ATTTTAATGTATA---ATGCTGTCCAATTTT
1 ATGCTGTCCATTTTGAATGTATTAATGCTGTCCAATTTTAA-GTATATTGATGCTACCCAA-TTT
* * * * *
8371584 GAGTGTATTGATGCTGTCCATTTTAATG--TATA
64 -AATGTA-TAATGCTGTCAATTTTGA-GCATATT
* * * *
8371616 ATGCTGTCCAATTTTGAGTGTATTGATGCTGTCCAATTTTAAGTATATTGATGCTGCCCATTTTA
1 ATGCTGTCC-ATTTTGAATGTATTAATGCTGTCCAATTTTAAGTATATTGATGCTACCCAATTTA
**
8371681 ATGTATAATGCTGTCAAATTTTGAGTGTATT
65 ATGTATAATGCTGTC-AATTTTGAGCATATT
* * * * *
8371712 GATGCTGTCCATTTTTAATGTA-TAATGTTGTCCAATTTTAAGTATATTGATGCTATCTAATTTG
1 -ATGCTGTCCATTTTGAATGTATTAATGCTGTCCAATTTTAAGTATATTGATGCTACCCAATTTA
*
8371776 ATGTATAATGCTGTCCATTTTGAGCATATT
65 ATGTATAATGCTGTCAATTTTGAGCATATT
*
8371806 ATTGCTGTCCAATTTG
1 A-TGCTGTCCATTTTG
8371822 CTGAATAATC
Statistics
Matches: 174, Mismatches: 22, Indels: 19
0.81 0.10 0.09
Matches are distributed among these distances:
93 10 0.06
94 62 0.36
95 68 0.39
96 16 0.09
97 18 0.10
ACGTcount: A:0.25, C:0.13, G:0.18, T:0.45
Consensus pattern (94 bp):
ATGCTGTCCATTTTGAATGTATTAATGCTGTCCAATTTTAAGTATATTGATGCTACCCAATTTAA
TGTATAATGCTGTCAATTTTGAGCATATT
Found at i:8378262 original size:13 final size:13
Alignment explanation
Indices: 8378244--8378268 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8378234 TTTTTACTTT
8378244 TTATTATTTTTTA
1 TTATTATTTTTTA
8378257 TTATTATTTTTT
1 TTATTATTTTTT
8378269 CTTTATTTTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTATTATTTTTTA
Found at i:8378279 original size:9 final size:9
Alignment explanation
Indices: 8378265--8378304 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
8378255 TATTATTATT
8378265 TTTTCTTTA
1 TTTTCTTTA
8378274 TTTTCTTTA
1 TTTTCTTTA
*
8378283 -TTACTTTA
1 TTTTCTTTA
8378291 TTTTCTTTTA
1 TTTTC-TTTA
8378301 TTTT
1 TTTT
8378305 AGTTATTTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
8 7 0.26
9 12 0.44
10 8 0.30
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.78
Consensus pattern (9 bp):
TTTTCTTTA
Found at i:8378294 original size:27 final size:26
Alignment explanation
Indices: 8378233--8378304 Score: 67
Period size: 27 Copynumber: 2.6 Consensus size: 26
8378223 AGGCAACCCA
*
8378233 ATTTTTACTTTTTATTATTTTTTATTATT
1 ATTTTT-C-TTTTATT-TTCTTTATTATT
8378262 ATTTTT-TCTTTATTTTCTTTATTACTT
1 ATTTTTCT-TTTATTTTCTTTATTA-TT
8378289 -TATTTTCTTTTATTTT
1 AT-TTTTCTTTTATTTT
8378305 AGTTATTTGG
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
26 11 0.29
27 20 0.53
28 1 0.03
29 6 0.16
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (26 bp):
ATTTTTCTTTTATTTTCTTTATTATT
Found at i:8382234 original size:17 final size:17
Alignment explanation
Indices: 8382212--8382244 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8382202 AACGTTTTCT
*
8382212 TAATATATATAATGCTA
1 TAATATATAAAATGCTA
8382229 TAATATATAAAATGCT
1 TAATATATAAAATGCT
8382245 CTGAGGCATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (17 bp):
TAATATATAAAATGCTA
Found at i:8401622 original size:42 final size:42
Alignment explanation
Indices: 8401530--8401731 Score: 289
Period size: 42 Copynumber: 4.8 Consensus size: 42
8401520 CAAACAAAAA
* *
8401530 CGCCGCTAAAGACCATGTTCTTTAGCGGC-TTTTTTTCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
*
8401571 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTCTTTCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
8401613 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
* * **
8401655 TGCTGCTAAAGAACATTATCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
* * * * *
8401697 CACCGTTAAAGAACATGTTCTTTAGCAGCGCTTTT
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTT
8401732 ATACAAAAAT
Statistics
Matches: 144, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
41 27 0.19
42 117 0.81
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (42 bp):
CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
Found at i:8402075 original size:21 final size:21
Alignment explanation
Indices: 8402049--8402102 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
8402039 TTTTGCTTTG
*
8402049 CTCTGCTTCTCTCGCTGCAAC
1 CTCTGCTTCCCTCGCTGCAAC
*
8402070 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAAC
*
8402091 CGCTGCTTCCCT
1 CTCTGCTTCCCT
8402103 TACTGTCGCC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.06, C:0.46, G:0.17, T:0.31
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAAC
Found at i:8402117 original size:21 final size:21
Alignment explanation
Indices: 8402049--8402119 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
8402039 TTTTGCTTTG
* * *
8402049 CTCTGCTTCTCTCGCTGCAAC
1 CTCTGCTTCCCTCACTGCAGC
*
8402070 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCACTGCAGC
* *
8402091 CGCTGCTTCCCTTACTGTC-GC
1 CTCTGCTTCCCTCACTG-CAGC
8402112 CTCTGCTT
1 CTCTGCTT
8402120 TAAGTTGTAG
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
21 42 0.98
22 1 0.02
ACGTcount: A:0.06, C:0.44, G:0.17, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCCCTCACTGCAGC
Found at i:8407340 original size:16 final size:16
Alignment explanation
Indices: 8407319--8407379 Score: 68
Period size: 16 Copynumber: 3.7 Consensus size: 16
8407309 GAGTTATATA
8407319 TAAGTTGTGTATTATG
1 TAAGTTGTGTATTATG
* * *
8407335 TAAGTTTTTTAAGTTATA
1 TAAGTTGTGT-A-TTATG
8407353 TAAGTTGTGTATTATG
1 TAAGTTGTGTATTATG
*
8407369 TAAGTTATGTA
1 TAAGTTGTGTA
8407380 AGTCTGACAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
16 22 0.61
17 2 0.06
18 12 0.33
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.51
Consensus pattern (16 bp):
TAAGTTGTGTATTATG
Found at i:8407376 original size:9 final size:9
Alignment explanation
Indices: 8407330--8407569 Score: 111
Period size: 9 Copynumber: 27.6 Consensus size: 9
8407320 AAGTTGTGTA
8407330 TTATGTAAG
1 TTATGTAAG
* *
8407339 TTTTTTAAG
1 TTATGTAAG
*
8407348 TTATATAAG
1 TTATGTAAG
*
8407357 TTGTGT-A-
1 TTATGTAAG
8407364 TTATGTAAG
1 TTATGTAAG
8407373 TTATGTAAG
1 TTATGTAAG
* *
8407382 -TCTGACAAG
1 TTATG-TAAG
*
8407391 TTATGTTTAG
1 TTATG-TAAG
8407401 -TAT-TAA-
1 TTATGTAAG
8407407 TTAAT-TAAG
1 TT-ATGTAAG
*
8407416 TTGTGTAAG
1 TTATGTAAG
*
8407425 TTGTGT-A-
1 TTATGTAAG
8407432 TTATGTAAG
1 TTATGTAAG
8407441 TTATGTAAG
1 TTATGTAAG
* *
8407450 -TCTGACAAG
1 TTATG-TAAG
*
8407459 TTATGTTTAG
1 TTATG-TAAG
8407469 -TAT-TAA-
1 TTATGTAAG
8407475 TTAAT-TAAG
1 TT-ATGTAAG
8407484 TTATGTAAG
1 TTATGTAAG
*
8407493 TTATGTATAATA
1 TTATG--TAA-G
8407505 TTAATGTAAG
1 TT-ATGTAAG
8407515 TTATGT-A-
1 TTATGTAAG
8407522 TTATGTAAG
1 TTATGTAAG
* *
8407531 TTATTTTAG
1 TTATGTAAG
8407540 TTATGTAAG
1 TTATGTAAG
*
8407549 TTGTGT-A-
1 TTATGTAAG
*
8407556 TTATGTGAG
1 TTATGTAAG
8407565 TTATG
1 TTATG
8407570 CAATTTACGT
Statistics
Matches: 176, Mismatches: 31, Indels: 48
0.69 0.12 0.19
Matches are distributed among these distances:
7 27 0.15
8 27 0.15
9 99 0.56
10 12 0.07
11 6 0.03
12 2 0.01
13 3 0.02
ACGTcount: A:0.31, C:0.02, G:0.19, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:8407382 original size:34 final size:34
Alignment explanation
Indices: 8407315--8407450 Score: 136
Period size: 34 Copynumber: 4.0 Consensus size: 34
8407305 AAATGAGTTA
* *
8407315 TATATAAGTTGTGTATTATGTAAGTTTTTTAAGT
1 TATATAAGTTGTGTATTATGTAAGTTATGTAAGT
8407349 TATATAAGTTGTGTATTATGTAAGTTATGTAAGT
1 TATATAAGTTGTGTATTATGTAAGTTATGTAAGT
* * * *
8407383 CT-GACAAGTTATGT-TTA-GTATTAATTAAT-TAAGT
1 -TATATAAGTTGTGTATTATGTA--AGTT-ATGTAAGT
* *
8407417 TGTGTAAGTTGTGTATTATGTAAGTTATGTAAGT
1 TATATAAGTTGTGTATTATGTAAGTTATGTAAGT
8407451 CTGACAAGTT
Statistics
Matches: 83, Mismatches: 11, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
32 3 0.04
33 6 0.07
34 65 0.78
35 6 0.07
36 3 0.04
ACGTcount: A:0.31, C:0.01, G:0.20, T:0.48
Consensus pattern (34 bp):
TATATAAGTTGTGTATTATGTAAGTTATGTAAGT
Found at i:8407415 original size:68 final size:68
Alignment explanation
Indices: 8407343--8407500 Score: 289
Period size: 68 Copynumber: 2.3 Consensus size: 68
8407333 TGTAAGTTTT
*
8407343 TTAAGTTATATAAGTTGTGTATTATGTAAGTTATGTAAGTCTGACAAGTTATGTTTAGTATTAAT
1 TTAAGTTATGTAAGTTGTGTATTATGTAAGTTATGTAAGTCTGACAAGTTATGTTTAGTATTAAT
8407408 TAA
66 TAA
*
8407411 TTAAGTTGTGTAAGTTGTGTATTATGTAAGTTATGTAAGTCTGACAAGTTATGTTTAGTATTAAT
1 TTAAGTTATGTAAGTTGTGTATTATGTAAGTTATGTAAGTCTGACAAGTTATGTTTAGTATTAAT
8407476 TAA
66 TAA
*
8407479 TTAAGTTATGTAAGTTATGTAT
1 TTAAGTTATGTAAGTTGTGTAT
8407501 AATATTAATG
Statistics
Matches: 86, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
68 86 1.00
ACGTcount: A:0.32, C:0.03, G:0.19, T:0.46
Consensus pattern (68 bp):
TTAAGTTATGTAAGTTGTGTATTATGTAAGTTATGTAAGTCTGACAAGTTATGTTTAGTATTAAT
TAA
Found at i:8407494 original size:34 final size:34
Alignment explanation
Indices: 8407388--8407540 Score: 127
Period size: 34 Copynumber: 4.4 Consensus size: 34
8407378 TAAGTCTGAC
*
8407388 AAGTTATGTTTAGTATTAATTAATTAAGTTGTGT
1 AAGTTATGTTTAGTATTAATTAATTAAGTTATGT
* * * *
8407422 AAGTTGTGTATTATGTA--AGTT-ATGTAAG-TCTGAC
1 AAGTTATGT-TTA-GTATTAATTAAT-TAAGTTATG-T
8407456 AAGTTATGTTTAGTATTAATTAATTAAGTTATGT
1 AAGTTATGTTTAGTATTAATTAATTAAGTTATGT
* * *
8407490 AAGTTATGTATAATATTAATGTAAGTTATGTATTATGT
1 AAGTTATGTTTAGTATTAAT-TAA-TTAAG--TTATGT
8407528 AAGTTAT-TTTAGT
1 AAGTTATGTTTAGT
8407541 TATGTAAGTT
Statistics
Matches: 94, Mismatches: 13, Indels: 21
0.73 0.10 0.16
Matches are distributed among these distances:
32 3 0.03
33 8 0.09
34 48 0.51
35 11 0.12
36 7 0.07
37 4 0.04
38 13 0.14
ACGTcount: A:0.33, C:0.01, G:0.18, T:0.48
Consensus pattern (34 bp):
AAGTTATGTTTAGTATTAATTAATTAAGTTATGT
Found at i:8407827 original size:33 final size:32
Alignment explanation
Indices: 8407790--8407884 Score: 84
Period size: 33 Copynumber: 3.2 Consensus size: 32
8407780 ATAAAATTTT
8407790 AAATATATGTTACATATCCATACCATATATTAA
1 AAATATATGTTACATATCCAT-CCATATATTAA
*
8407823 AAATATA-G------AT---TGCATATATTAA
1 AAATATATGTTACATATCCATCCATATATTAA
*
8407845 AAATATATGTTACATATCCATGCCGTATATTAA
1 AAATATATGTTACATATCCAT-CCATATATTAA
8407878 AAATATA
1 AAATATA
8407885 GATTGCATAT
Statistics
Matches: 48, Mismatches: 3, Indels: 22
0.66 0.04 0.30
Matches are distributed among these distances:
22 17 0.35
23 2 0.04
26 2 0.04
29 2 0.04
32 2 0.04
33 23 0.48
ACGTcount: A:0.46, C:0.12, G:0.06, T:0.36
Consensus pattern (32 bp):
AAATATATGTTACATATCCATCCATATATTAA
Found at i:8407828 original size:22 final size:22
Alignment explanation
Indices: 8407803--8407851 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
8407793 TATATGTTAC
*
8407803 ATATCCATACCATATATTAAAA
1 ATATACATACCATATATTAAAA
* **
8407825 ATATAGATTGCATATATTAAAA
1 ATATACATACCATATATTAAAA
8407847 ATATA
1 ATATA
8407852 TGTTACATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.51, C:0.10, G:0.04, T:0.35
Consensus pattern (22 bp):
ATATACATACCATATATTAAAA
Found at i:8407860 original size:22 final size:22
Alignment explanation
Indices: 8407813--8407861 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
8407803 ATATCCATAC
*
8407813 CATATATTAAAAATATAGATTG
1 CATATATTAAAAATATAGATTA
8407835 CATATATTAAAAATATATG-TTA
1 CATATATTAAAAATATA-GATTA
8407857 CATAT
1 CATAT
8407862 CCATGCCGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 24 0.96
23 1 0.04
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.39
Consensus pattern (22 bp):
CATATATTAAAAATATAGATTA
Found at i:8407874 original size:55 final size:55
Alignment explanation
Indices: 8407790--8407905 Score: 214
Period size: 55 Copynumber: 2.1 Consensus size: 55
8407780 ATAAAATTTT
8407790 AAATATATGTTACATATCCATACCATATATTAAAAATATAGATTGCATATATTAA
1 AAATATATGTTACATATCCATACCATATATTAAAAATATAGATTGCATATATTAA
* *
8407845 AAATATATGTTACATATCCATGCCGTATATTAAAAATATAGATTGCATATATTAA
1 AAATATATGTTACATATCCATACCATATATTAAAAATATAGATTGCATATATTAA
8407900 AAATAT
1 AAATAT
8407906 CTTATATTAA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
55 59 1.00
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.36
Consensus pattern (55 bp):
AAATATATGTTACATATCCATACCATATATTAAAAATATAGATTGCATATATTAA
Found at i:8407883 original size:22 final size:22
Alignment explanation
Indices: 8407870--8407968 Score: 59
Period size: 22 Copynumber: 4.6 Consensus size: 22
8407860 ATCCATGCCG
**
8407870 TATATTAAAAATATAGATTGCA
1 TATATTAAAAATATCCATTGCA
8407892 TATATTAAAAATAT-C-TT--A
1 TATATTAAAAATATCCATTGCA
* *
8407910 TAT-TAAAAAAATAT-AATTG-A
1 TATAT-TAAAAATATCCATTGCA
*
8407930 TATTTCTAAAAAATATCCATTTTGCA
1 TATAT-T-AAAAATATCCA--TTGCA
8407956 TATATTAAAAATA
1 TATATTAAAAATA
8407969 GAGGTTTTAA
Statistics
Matches: 61, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
17 1 0.02
18 12 0.20
19 2 0.03
20 6 0.10
21 1 0.02
22 22 0.36
23 1 0.02
24 7 0.11
25 4 0.07
26 5 0.08
ACGTcount: A:0.51, C:0.06, G:0.04, T:0.39
Consensus pattern (22 bp):
TATATTAAAAATATCCATTGCA
Found at i:8409180 original size:19 final size:19
Alignment explanation
Indices: 8409156--8409193 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
8409146 GTTCATTTCT
8409156 TTGTATGTTTCATTTTTAA
1 TTGTATGTTTCATTTTTAA
8409175 TTGTATGTTTCATTTTTAA
1 TTGTATGTTTCATTTTTAA
8409194 GTGTCTTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.05, G:0.11, T:0.63
Consensus pattern (19 bp):
TTGTATGTTTCATTTTTAA
Found at i:8409571 original size:16 final size:16
Alignment explanation
Indices: 8409522--8409572 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
8409512 GATGGCAGAG
8409522 GAGTGCGACGGTAGA-
1 GAGTGCGACGGTAGAC
** **
8409537 GCCCTGCGACGGTCCAC
1 G-AGTGCGACGGTAGAC
8409554 GAGTGCGACGGTAGAC
1 GAGTGCGACGGTAGAC
8409570 GAG
1 GAG
8409573 CGCCGGCAGA
Statistics
Matches: 26, Mismatches: 8, Indels: 3
0.70 0.22 0.08
Matches are distributed among these distances:
15 1 0.04
16 24 0.92
17 1 0.04
ACGTcount: A:0.22, C:0.25, G:0.41, T:0.12
Consensus pattern (16 bp):
GAGTGCGACGGTAGAC
Found at i:8410084 original size:28 final size:28
Alignment explanation
Indices: 8410052--8410106 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
8410042 AATATATAGT
8410052 ACTAATAATTATAAATTTTAGTGTTTTC
1 ACTAATAATTATAAATTTTAGTGTTTTC
* * *
8410080 ACTAATATTTTTTAATTTTAGTGTTTT
1 ACTAATAATTATAAATTTTAGTGTTTT
8410107 TATTTCATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.31, C:0.05, G:0.07, T:0.56
Consensus pattern (28 bp):
ACTAATAATTATAAATTTTAGTGTTTTC
Found at i:8411496 original size:388 final size:382
Alignment explanation
Indices: 8410846--8411769 Score: 1393
Period size: 388 Copynumber: 2.4 Consensus size: 382
8410836 TTGGTGCTCT
* * * * *
8410846 CCTAAACCCTAAATTCCTAAGTCTTAACCACTAACATCTAACCCCTAACCCCTAAATCTTAAATA
1 CCTAAACACAAAATCCCTAAGTCTTAACCACTAACATCTAACCCCTAACCCCTAAACCTTAAATC
* *
8410911 TCGGCCAACCCTTAATTAAGCATAATCCATAATCTATAATCCCTAAATCCATATATATATAGTAT
66 CCGGCCAACCCTTAATTAAGCATAATCCATAATCTATAATCCCTAAATCCATATATATATAGTAC
* *
8410976 TCCCTAAAAATTTAAAAACATTAATTAATTGTATAAAATTCAAAATCTCAGTTAAACCCTAATCT
131 TCCCTAAACA-TTAAAAACATTAATTAATTGTATAAAATTCAAAATCTCAATTAAACCCTAATCT
*
8411041 TATTAAACCCGCCTAAATTAACCATTGAAGGGATATAAATATTTAAGTATTCTATCTATTATATA
195 TATTAAACCCGCCTAAATTAACCATTGAAGGGATATAAATATTTAAGTACTCTATCTATTATATA
* *
8411106 TATCTCTCTCAAGGCATAA-T-TTAAACCCTAATTTATACATCTTTTACAATTACATAAGAACAT
260 TATCTCTCTCAAGGCATAATTATTAAACCCTAAATTATACATATTTTACAATTACATAAGAACAT
* *
8411169 ATTTAAAATATAAATAAAAAATTAATCTAAACCCAAAATTGTAACCAGACCCTTAAAAC
325 ATTTAAAATATAAATAAAAAATTAATCTAAA-CCAAAATCGTAACCAGACCCCTAAAAC
* *
8411228 CCTAATCACAAAATCCCTAAGTCTTAACAACTAACATCTAACCCCTAAACCCCTCCCCTAAACCT
1 CCTAAACACAAAATCCCTAAGTCTTAACCACTAACATCTAACCCCT-AA-----CCCCTAAACCT
* *
8411293 TAAATCCCGGCCAACACTTAGTTAAGCATAATCCATAATCTATAATCCCTAAATCCATATATATA
60 TAAATCCCGGCCAACCCTTAATTAAGCATAATCCATAATCTATAATCCCTAAATCCATATATATA
* *
8411358 TAGTACTCCCTAAACATTAAAAAGCATTAATTAATTGTATAAAATTTAAAATCTCAATTAAACCT
125 TAGTACTCCCTAAACATTAAAAA-CATTAATTAATTGTATAAAATTCAAAATCTCAATTAAACCC
* **
8411423 TAATCTTATTAAACCCGCCTAAATTAATCATTGAAGGGATATAAATAATTTTCCGTACTCTATCT
189 TAATCTTATTAAACCCGCCTAAATTAACCATTGAAGGGATATAAAT-A-TTTAAGTACTCTATCT
8411488 ATTATATATATCTCTCTCAAGGCATAATTAATTAAACCCTAAATTATACATATTTTACAATTACA
252 ATTATATATATCTCTCTCAAGGCATAATT-ATTAAACCCTAAATTATACATATTTTACAATTACA
* *
8411553 TAAGAACATATTTAAATTATAAATAAAAAATTAATCTAAACCAAAATCGTAACCCGACCCCTAAA
316 TAAGAACATATTTAAAATATAAATAAAAAATTAATCTAAACCAAAATCGTAACCAGACCCCTAAA
8411618 AC
381 AC
* *
8411620 CCTAAACACAAAATCCCTAAGTCTTAACCACTAACATCTAACTCCTAACCCCTAAGCCTTAAATC
1 CCTAAACACAAAATCCCTAAGTCTTAACCACTAACATCTAACCCCTAACCCCTAAACCTTAAATC
* * * * *
8411685 CCTGCCAACCCTTAATTAAGCAAAACCCCTAATCTATAATCCGTATATAAATCCATATATATATA
66 CCGGCCAACCCTTAATTAAGCATAATCCATAATCTATAATCC----CTAAATCCATATATATATA
*
8411750 GTACTCCCTAAACCTTAAAA
127 GTACTCCCTAAACATTAAAA
8411770 TTATATGAAC
Statistics
Matches: 489, Mismatches: 37, Indels: 24
0.89 0.07 0.04
Matches are distributed among these distances:
382 41 0.08
383 2 0.00
386 52 0.11
387 7 0.01
388 168 0.34
389 1 0.00
390 77 0.16
391 3 0.01
392 67 0.14
393 71 0.15
ACGTcount: A:0.42, C:0.23, G:0.05, T:0.30
Consensus pattern (382 bp):
CCTAAACACAAAATCCCTAAGTCTTAACCACTAACATCTAACCCCTAACCCCTAAACCTTAAATC
CCGGCCAACCCTTAATTAAGCATAATCCATAATCTATAATCCCTAAATCCATATATATATAGTAC
TCCCTAAACATTAAAAACATTAATTAATTGTATAAAATTCAAAATCTCAATTAAACCCTAATCTT
ATTAAACCCGCCTAAATTAACCATTGAAGGGATATAAATATTTAAGTACTCTATCTATTATATAT
ATCTCTCTCAAGGCATAATTATTAAACCCTAAATTATACATATTTTACAATTACATAAGAACATA
TTTAAAATATAAATAAAAAATTAATCTAAACCAAAATCGTAACCAGACCCCTAAAAC
Found at i:8418267 original size:18 final size:19
Alignment explanation
Indices: 8418240--8418284 Score: 67
Period size: 18 Copynumber: 2.5 Consensus size: 19
8418230 TGTCACATCA
*
8418240 ATAAATAAATT-AAAATTT
1 ATAAAAAAATTCAAAATTT
8418258 ATAAAAAAATTCAAAATTT
1 ATAAAAAAATTCAAAATTT
8418277 A-AAAAAAA
1 ATAAAAAAA
8418285 AACCTATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 17 0.68
19 8 0.32
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (19 bp):
ATAAAAAAATTCAAAATTT
Done.