Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168492.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_9, 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: 25814696
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 122000 characters in sequence are not A, C, G, or T
File 32 of 126
Found at i:6804215 original size:25 final size:23
Alignment explanation
Indices: 6804187--6804267 Score: 67
Period size: 25 Copynumber: 3.4 Consensus size: 23
6804177 AAAAGTTATG
6804187 GAAAAAAAAACAAAGAAAGGAAAAA
1 GAAAAAAAAA-AAAGAAA-GAAAAA
* * *
6804212 GAAAAAACAATAAAGCCATGAAAAA
1 GAAAAAA-AAAAAAG-AAAGAAAAA
*
6804237 GTAAAAAAAAAAA-AAA-AAAAA
1 GAAAAAAAAAAAAGAAAGAAAAA
*
6804258 GAAAGAAAAA
1 GAAAAAAAAA
6804268 TGGAAAAATC
Statistics
Matches: 45, Mismatches: 9, Indels: 8
0.73 0.15 0.13
Matches are distributed among these distances:
21 13 0.29
22 1 0.02
24 5 0.11
25 23 0.51
26 3 0.07
ACGTcount: A:0.79, C:0.05, G:0.12, T:0.04
Consensus pattern (23 bp):
GAAAAAAAAAAAAGAAAGAAAAA
Found at i:6809679 original size:140 final size:139
Alignment explanation
Indices: 6809424--6809700 Score: 378
Period size: 141 Copynumber: 2.0 Consensus size: 139
6809414 TTATTTTTAA
* * *
6809424 AATATTTTTTAAATTATAAAATATATATTTTAAAAAATTATATTTTTATATCTAGGACTCACTTA
1 AATATTTTTTAAATTAAAAAATATATATTTTAAAAAATTATATTTTTATATCTAAGACCCACTTA
* * *
6809489 TACTAATTTTGTTTTTTTGCCTTTTCTTTTTCATCCTTCTTAACTTTTCTCTTTTTAAATAAAAA
66 TACCAAATTTGCTTTTTT-CCTTTTCTTTTTCATCCTTCTTAACTTTTCTCTTTTTAAATAAAAA
6809554 ATATTTAATG
130 ATATTTAATG
* * * * * *
6809564 AATA-TTTTTAAATAATAAAAAATATTTTTTTTAAAAGATTGTATTTTTATATGTAAGACCCATT
1 AATATTTTTTAAAT--TAAAAAATATATATTTTAAAAAATTATATTTTTATATCTAAGACCCACT
* *
6809628 TATACCAAATTTGCTTTTTT-CTTTTCCTTTTTTATCCTTTTTAACTTTTCTCTTTTTAAATAAA
64 TATACCAAATTTGCTTTTTTCCTTTT-CTTTTTCATCCTTCTTAACTTTTCTCTTTTTAAATAAA
6809692 AAATATTTA
128 AAATATTTA
6809701 TTAAAGATTT
Statistics
Matches: 120, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
139 14 0.12
140 49 0.41
141 57 0.47
ACGTcount: A:0.33, C:0.10, G:0.04, T:0.53
Consensus pattern (139 bp):
AATATTTTTTAAATTAAAAAATATATATTTTAAAAAATTATATTTTTATATCTAAGACCCACTTA
TACCAAATTTGCTTTTTTCCTTTTCTTTTTCATCCTTCTTAACTTTTCTCTTTTTAAATAAAAAA
TATTTAATG
Found at i:6818057 original size:2 final size:2
Alignment explanation
Indices: 6818052--6818093 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
6818042 CCCCCTTCCC
6818052 CT CT CT CT CT 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 CT CT CT CT CT
6818094 TCATGCACAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:6818428 original size:15 final size:15
Alignment explanation
Indices: 6818408--6818437 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6818398 CTCAATTTTA
6818408 AATTATTTTAAATTT
1 AATTATTTTAAATTT
*
6818423 AATTATTTTAGATTT
1 AATTATTTTAAATTT
6818438 GACACTTTGA
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:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (15 bp):
AATTATTTTAAATTT
Found at i:6818514 original size:21 final size:22
Alignment explanation
Indices: 6818490--6818530 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
6818480 ATTTCAAGTT
6818490 TAAATTA-TTAAATTTTAAAAA
1 TAAATTATTTAAATTTTAAAAA
*
6818511 TAAATTATTTTAATTTTAAA
1 TAAATTATTTAAATTTTAAA
6818531 TCATTTTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
TAAATTATTTAAATTTTAAAAA
Found at i:6820416 original size:6 final size:6
Alignment explanation
Indices: 6820391--6820562 Score: 72
Period size: 7 Copynumber: 27.3 Consensus size: 6
6820381 ACCTTTTTCT
* * *
6820391 AACCTTA AACTCTA AACCTA ACCCTA AGCCTTA AACC-A AGTCCTA AACCTTA
1 AACC-TA AAC-CTA AACCTA AACCTA AACC-TA AACCTA A-ACCTA AACC-TA
* * * * *
6820443 AA-CTA AACCTTA AATCTT AA-CT- TACCTGA AACCTCA AGCCCTC AACC-A
1 AACCTA AACC-TA AACCTA AACCTA AACCT-A AACCT-A A-ACCTA AACCTA
6820491 AATCCTA AACTCTA AACC-A AACCCTA AACCTTA AACC-A AATCCTA AATCCTA
1 AA-CCTA AAC-CTA AACCTA AA-CCTA AACC-TA AACCTA AA-CCTA AA-CCTA
6820543 AACCTA AACCCTA AA-CTA AA
1 AACCTA AA-CCTA AACCTA AA
6820563 AATCTAATTG
Statistics
Matches: 131, Mismatches: 14, Indels: 42
0.70 0.07 0.22
Matches are distributed among these distances:
4 1 0.01
5 23 0.18
6 38 0.29
7 65 0.50
8 4 0.03
ACGTcount: A:0.44, C:0.33, G:0.02, T:0.22
Consensus pattern (6 bp):
AACCTA
Found at i:6820425 original size:19 final size:19
Alignment explanation
Indices: 6820403--6820445 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
6820393 CCTTAAACTC
*
6820403 TAAACCTAA-CCCTAAGCCT
1 TAAACC-AAGCCCTAAACCT
*
6820422 TAAACCAAGTCCTAAACCT
1 TAAACCAAGCCCTAAACCT
6820441 TAAAC
1 TAAAC
6820446 TAAACCTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 2 0.10
19 19 0.90
ACGTcount: A:0.42, C:0.33, G:0.05, T:0.21
Consensus pattern (19 bp):
TAAACCAAGCCCTAAACCT
Found at i:6820456 original size:19 final size:19
Alignment explanation
Indices: 6820391--6820462 Score: 51
Period size: 19 Copynumber: 3.8 Consensus size: 19
6820381 ACCTTTTTCT
6820391 AACCTTAAA-CTCTAAACCT-
1 AACCTTAAACCT-TAAA-CTA
* * *
6820410 AACCCTAAGCCTTAAACCA
1 AACCTTAAACCTTAAACTA
*
6820429 AGTCC-TAAACCTTAAACTA
1 A-ACCTTAAACCTTAAACTA
*
6820448 AACCTTAAATCTTAA
1 AACCTTAAACCTTAA
6820463 CTTACCTGAA
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
18 3 0.07
19 34 0.83
20 4 0.10
ACGTcount: A:0.43, C:0.29, G:0.03, T:0.25
Consensus pattern (19 bp):
AACCTTAAACCTTAAACTA
Found at i:6820510 original size:19 final size:19
Alignment explanation
Indices: 6820486--6820559 Score: 89
Period size: 19 Copynumber: 3.8 Consensus size: 19
6820476 TCAAGCCCTC
*
6820486 AACCAAATCCTAAACTCTA
1 AACCAAACCCTAAACTCTA
6820505 AACCAAACCCTAAAC-CTTA
1 AACCAAACCCTAAACTC-TA
*
6820524 AACCAAATCCTAAA-TCCTA
1 AACCAAACCCTAAACT-CTA
6820543 AACCTAAACCCTAAACT
1 AACC-AAACCCTAAACT
6820560 AAAAATCTAA
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
18 1 0.02
19 35 0.74
20 10 0.21
21 1 0.02
ACGTcount: A:0.47, C:0.34, G:0.00, T:0.19
Consensus pattern (19 bp):
AACCAAACCCTAAACTCTA
Found at i:6820513 original size:38 final size:39
Alignment explanation
Indices: 6820481--6820558 Score: 115
Period size: 38 Copynumber: 2.0 Consensus size: 39
6820471 AAACCTCAAG
*
6820481 CCCTCAACCAAATCCTAAA-CTCTAAACC-AAACCCTAAA
1 CCCTAAACCAAATCCTAAATC-CTAAACCTAAACCCTAAA
*
6820519 CCTTAAACCAAATCCTAAATCCTAAACCTAAACCCTAAA
1 CCCTAAACCAAATCCTAAATCCTAAACCTAAACCCTAAA
6820558 C
1 C
6820559 TAAAAATCTA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
38 24 0.67
39 12 0.33
ACGTcount: A:0.45, C:0.37, G:0.00, T:0.18
Consensus pattern (39 bp):
CCCTAAACCAAATCCTAAATCCTAAACCTAAACCCTAAA
Found at i:6820550 original size:13 final size:13
Alignment explanation
Indices: 6820494--6820562 Score: 74
Period size: 12 Copynumber: 5.5 Consensus size: 13
6820484 TCAACCAAAT
*
6820494 CCTAAACTCTAAA
1 CCTAAACCCTAAA
6820507 CC-AAACCCTAAA
1 CCTAAACCCTAAA
6820519 CCTTAAA-CC-AAA
1 CC-TAAACCCTAAA
*
6820531 TCCTAAATCCTAAA
1 -CCTAAACCCTAAA
6820545 CCTAAACCCTAAA
1 CCTAAACCCTAAA
6820558 -CTAAA
1 CCTAAA
6820563 AATCTAATTG
Statistics
Matches: 49, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
12 23 0.47
13 20 0.41
14 6 0.12
ACGTcount: A:0.48, C:0.33, G:0.00, T:0.19
Consensus pattern (13 bp):
CCTAAACCCTAAA
Found at i:6821048 original size:30 final size:31
Alignment explanation
Indices: 6821013--6821083 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 31
6821003 AACATTTAGA
6821013 TTTGTTTTCAAAAATTCAAAAAT-AAAATGG
1 TTTGTTTTCAAAAATTCAAAAATCAAAATGG
* * *
6821043 TTTGTTTTC-AAAGTTCAAAATTCAAAATGT
1 TTTGTTTTCAAAAATTCAAAAATCAAAATGG
*
6821073 TTTGATTTCAA
1 TTTGTTTTCAA
6821084 GAAAAATGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
29 11 0.31
30 23 0.66
31 1 0.03
ACGTcount: A:0.39, C:0.08, G:0.10, T:0.42
Consensus pattern (31 bp):
TTTGTTTTCAAAAATTCAAAAATCAAAATGG
Found at i:6823037 original size:9 final size:9
Alignment explanation
Indices: 6823025--6823099 Score: 54
Period size: 9 Copynumber: 8.9 Consensus size: 9
6823015 GAAATATTTT
6823025 TAAAAATTA
1 TAAAAATTA
6823034 TAAAAA-T-
1 TAAAAATTA
*
6823041 TAAATATT-
1 TAAAAATTA
*
6823049 TAAATATT-
1 TAAAAATTA
*
6823057 TTAAAA-TA
1 TAAAAATTA
6823065 TTAAAAATTA
1 -TAAAAATTA
* *
6823075 TGAAAATTT
1 TAAAAATTA
6823084 TAAAAATTA
1 TAAAAATTA
6823093 -AAAAATT
1 TAAAAATT
6823100 TCAAAATTTC
Statistics
Matches: 54, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
7 6 0.11
8 21 0.39
9 25 0.46
10 2 0.04
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (9 bp):
TAAAAATTA
Found at i:6823065 original size:18 final size:19
Alignment explanation
Indices: 6823042--6823092 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 19
6823032 TATAAAAATT
* *
6823042 AAATATTTAAATATT-TTA
1 AAATATTTAAAAATTATGA
6823060 AAATA-TTAAAAATTATGA
1 AAATATTTAAAAATTATGA
6823078 AAAT-TTTAAAAATTA
1 AAATATTTAAAAATTA
6823093 AAAAATTTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 8 0.28
18 21 0.72
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (19 bp):
AAATATTTAAAAATTATGA
Found at i:6823105 original size:8 final size:8
Alignment explanation
Indices: 6823094--6823124 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
6823084 TAAAAATTAA
6823094 AAAATTTC
1 AAAATTTC
6823102 AAAATTTC
1 AAAATTTC
6823110 AAAATTTC
1 AAAATTTC
6823118 AAAATTT
1 AAAATTT
6823125 TAATAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.39
Consensus pattern (8 bp):
AAAATTTC
Found at i:6823105 original size:16 final size:16
Alignment explanation
Indices: 6823086--6823123 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
6823076 GAAAATTTTA
6823086 AAAATTAAAAAATTTC
1 AAAATTAAAAAATTTC
**
6823102 AAAATTTCAAAATTTC
1 AAAATTAAAAAATTTC
6823118 AAAATT
1 AAAATT
6823124 TTAATAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (16 bp):
AAAATTAAAAAATTTC
Found at i:6823534 original size:18 final size:17
Alignment explanation
Indices: 6823491--6823535 Score: 74
Period size: 17 Copynumber: 2.6 Consensus size: 17
6823481 GAATCTTTTT
6823491 TTTTA-TTTTAATAAAA
1 TTTTATTTTTAATAAAA
6823507 TTTTATTTTTAATAAAA
1 TTTTATTTTTAATAAAA
6823524 TTTTCATTTTTA
1 TTTT-ATTTTTA
6823536 TTTTTTTGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 5 0.19
17 15 0.56
18 7 0.26
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTTATTTTTAATAAAA
Found at i:6823612 original size:9 final size:9
Alignment explanation
Indices: 6823589--6823685 Score: 61
Period size: 10 Copynumber: 10.1 Consensus size: 9
6823579 TAAGTTTTAA
6823589 TATATATTTT
1 TATA-ATTTT
6823599 T-TAATTTT
1 TATAATTTT
6823607 TATAATTTCT
1 TATAATTT-T
* *
6823617 AAAAATATTT
1 TATAAT-TTT
*
6823627 CATATATTTT
1 TATA-ATTTT
*
6823637 TTTAATTTT
1 TATAATTTT
6823646 TATAAATTTT
1 TAT-AATTTT
* *
6823656 AAAAATATTT
1 TATAAT-TTT
*
6823666 TAGAATTTT
1 TATAATTTT
6823675 TATAAATTTT
1 TAT-AATTTT
6823685 T
1 T
6823686 TTGAATTTTA
Statistics
Matches: 68, Mismatches: 12, Indels: 14
0.72 0.13 0.15
Matches are distributed among these distances:
8 6 0.09
9 23 0.34
10 35 0.51
11 4 0.06
ACGTcount: A:0.37, C:0.02, G:0.01, T:0.60
Consensus pattern (9 bp):
TATAATTTT
Found at i:6823644 original size:39 final size:39
Alignment explanation
Indices: 6823588--6823700 Score: 140
Period size: 39 Copynumber: 2.9 Consensus size: 39
6823578 TTAAGTTTTA
6823588 ATATATATTTTTTAATTTTTAT-AATTTCTAAAAATATTTC
1 ATATAT-TTTTTTAATTTTTATAAATTT-TAAAAATATTTC
*
6823628 ATATATTTTTTTAATTTTTATAAATTTTAAAAATATTTT
1 ATATATTTTTTTAATTTTTATAAATTTTAAAAATATTTC
* * * *
6823667 AGA-ATTTTTATAAATTTTTTTGAATTTTAAAAAT
1 ATATATTTTT-TTAATTTTTATAAATTTTAAAAAT
6823701 TTTGTGAATT
Statistics
Matches: 66, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
38 6 0.09
39 49 0.74
40 11 0.17
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (39 bp):
ATATATTTTTTTAATTTTTATAAATTTTAAAAATATTTC
Found at i:6823675 original size:20 final size:20
Alignment explanation
Indices: 6823604--6823700 Score: 76
Period size: 20 Copynumber: 5.0 Consensus size: 20
6823594 ATTTTTTAAT
*
6823604 TTTTATAATTTCTAAAAATA
1 TTTTATAATTTTTAAAAATA
* **
6823624 TTTCATATATTTTT-TTAAT-
1 TTTTATA-ATTTTTAAAAATA
*
6823643 TTTTATAAATTTTAAAAATA
1 TTTTATAATTTTTAAAAATA
* *
6823663 TTTTAGAATTTTTATAAAT-
1 TTTTATAATTTTTAAAAATA
*
6823682 TTTTTTGAA-TTTTAAAAAT
1 TTTTAT-AATTTTTAAAAAT
6823701 TTTGTGAATT
Statistics
Matches: 59, Mismatches: 14, Indels: 9
0.72 0.17 0.11
Matches are distributed among these distances:
18 5 0.08
19 22 0.37
20 27 0.46
21 5 0.08
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (20 bp):
TTTTATAATTTTTAAAAATA
Found at i:6823701 original size:19 final size:19
Alignment explanation
Indices: 6823640--6823703 Score: 74
Period size: 19 Copynumber: 3.3 Consensus size: 19
6823630 ATATTTTTTT
* *
6823640 AATTTTTATAAATTTTAAA
1 AATTTTTTTGAATTTTAAA
* * *
6823659 AATATTTTAGAATTTTTATA
1 AATTTTTTTGAA-TTTTAAA
6823679 AATTTTTTTGAATTTTAAA
1 AATTTTTTTGAATTTTAAA
6823698 AATTTT
1 AATTTT
6823704 GTGAATTGTT
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
19 20 0.56
20 16 0.44
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (19 bp):
AATTTTTTTGAATTTTAAA
Found at i:6823980 original size:19 final size:19
Alignment explanation
Indices: 6823956--6823992 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
6823946 CAATTTTCCC
*
6823956 TCTTTTTTCTTTCTTTTTT
1 TCTTTTTTCTTCCTTTTTT
6823975 TCTTTTTTCTTCCTTTTT
1 TCTTTTTTCTTCCTTTTT
6823993 AATCCTTTTT
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:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (19 bp):
TCTTTTTTCTTCCTTTTTT
Found at i:6830658 original size:21 final size:23
Alignment explanation
Indices: 6830620--6830666 Score: 62
Period size: 21 Copynumber: 2.1 Consensus size: 23
6830610 TAAATAATAA
6830620 TTAATATTTATTAAAAATTAATTT
1 TTAATATTTATT-AAAATTAATTT
*
6830644 TTAATATTT-TT-AAATTATTTT
1 TTAATATTTATTAAAATTAATTT
6830665 TT
1 TT
6830667 TTATTAATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 11 0.50
23 2 0.09
24 9 0.41
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (23 bp):
TTAATATTTATTAAAATTAATTT
Found at i:6833312 original size:2 final size:2
Alignment explanation
Indices: 6833305--6833336 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
6833295 TACACTTATC
6833305 AT AT AT AT AT AT A- AT AT AT AT AT AT A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6833337 GAATTTAAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 26 0.93
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:6833323 original size:11 final size:10
Alignment explanation
Indices: 6833305--6833336 Score: 50
Period size: 9 Copynumber: 3.4 Consensus size: 10
6833295 TACACTTATC
6833305 ATATATATAT
1 ATATATATAT
6833315 ATA-ATATAT
1 ATATATATAT
6833324 ATATATA-AT
1 ATATATATAT
6833333 ATAT
1 ATAT
6833337 GAATTTAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 15 0.71
10 6 0.29
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (10 bp):
ATATATATAT
Found at i:6833323 original size:13 final size:13
Alignment explanation
Indices: 6833305--6833336 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
6833295 TACACTTATC
6833305 ATATATATATATA
1 ATATATATATATA
6833318 ATATATATATATA
1 ATATATATATATA
6833331 ATATAT
1 ATATAT
6833337 GAATTTAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
ATATATATATATA
Found at i:6836033 original size:203 final size:203
Alignment explanation
Indices: 6835684--6836091 Score: 780
Period size: 203 Copynumber: 2.0 Consensus size: 203
6835674 AAATTGATAA
*
6835684 ATAAATAAATAAATTATTTAATGAACATATTACAACCATCAAGCTTTACTTGTGAAATTTAAAAA
1 ATAAATAAATAAATTATTAAATGAACATATTACAACCATCAAGCTTTACTTGTGAAATTTAAAAA
6835749 TTTTACCATCAATGATCATAATAATAATTCATCCAATAAATTAAGAGACTATATATGCCATCAGC
66 TTTTACCATCAATGATCATAATAATAATTCATCCAATAAATTAAGAGACTATATATGCCATCAGC
* *
6835814 ATTAATGCAAGATCATATAGCTACATCGAAAATTAATGGTCACAACTAATGTTAGCAAATGTTTG
131 ATTAATGCAAGATCATATAACTACATCAAAAATTAATGGTCACAACTAATGTTAGCAAATGTTTG
6835879 AGGGTATC
196 AGGGTATC
6835887 ATAAATAAATAAATTATTAAATGAACATATTACAACCATCAAGCTTTACTTGTGAAATTTAAAAA
1 ATAAATAAATAAATTATTAAATGAACATATTACAACCATCAAGCTTTACTTGTGAAATTTAAAAA
*
6835952 TTTTACCATCAATGATCATAATAATAATTCATCCAATAAATTAAGAGATTATATATGCCATCAGC
66 TTTTACCATCAATGATCATAATAATAATTCATCCAATAAATTAAGAGACTATATATGCCATCAGC
6836017 ATTAATGCAAGATCATATAACTACATCAAAAATTAATGGTCACAACTAATGTTAGCAAATGTTTG
131 ATTAATGCAAGATCATATAACTACATCAAAAATTAATGGTCACAACTAATGTTAGCAAATGTTTG
6836082 AGGGTATC
196 AGGGTATC
6836090 AT
1 AT
6836092 GCACATTTAT
Statistics
Matches: 201, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
203 201 1.00
ACGTcount: A:0.44, C:0.14, G:0.10, T:0.32
Consensus pattern (203 bp):
ATAAATAAATAAATTATTAAATGAACATATTACAACCATCAAGCTTTACTTGTGAAATTTAAAAA
TTTTACCATCAATGATCATAATAATAATTCATCCAATAAATTAAGAGACTATATATGCCATCAGC
ATTAATGCAAGATCATATAACTACATCAAAAATTAATGGTCACAACTAATGTTAGCAAATGTTTG
AGGGTATC
Found at i:6836475 original size:2 final size:2
Alignment explanation
Indices: 6836468--6836556 Score: 69
Period size: 2 Copynumber: 44.5 Consensus size: 2
6836458 TTGCTATTTA
* ** *
6836468 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AG GG AT CA- AT TT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT
*
6836510 AT CAT AT -T CAT -T GAT AT -T TT AT AT AT AT AT AT AT AT AT AT
1 AT -AT AT AT -AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6836550 AT AT AT A
1 AT AT AT A
6836557 CATACACACA
Statistics
Matches: 72, Mismatches: 7, Indels: 16
0.76 0.07 0.17
Matches are distributed among these distances:
1 4 0.06
2 63 0.88
3 5 0.07
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6836534 original size:62 final size:62
Alignment explanation
Indices: 6836436--6836556 Score: 197
Period size: 62 Copynumber: 2.0 Consensus size: 62
6836426 AGAGGAGAAC
*
6836436 GGATCAACTTAAATCAAATTCATTGCTATTTAATATATATATATATATATATATATATATAG
1 GGATCAACTTAAATCAAATTCATTGATATTTAATATATATATATATATATATATATATATAG
* * * *
6836498 GGATCAATTTATATCATATTCATTGATATTTTATATATATATATATATATATATATATA
1 GGATCAACTTAAATCAAATTCATTGATATTTAATATATATATATATATATATATATATA
6836557 CATACACACA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
62 54 1.00
ACGTcount: A:0.42, C:0.07, G:0.06, T:0.45
Consensus pattern (62 bp):
GGATCAACTTAAATCAAATTCATTGATATTTAATATATATATATATATATATATATATATAG
Found at i:6836565 original size:2 final size:2
Alignment explanation
Indices: 6836560--6836586 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6836550 ATATATACAT
6836560 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 A
6836587 TATATATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:6842368 original size:20 final size:20
Alignment explanation
Indices: 6842339--6842397 Score: 66
Period size: 19 Copynumber: 2.9 Consensus size: 20
6842329 ATACAAATTA
6842339 TTTTTGTTTATTTGAAAAAAC
1 TTTTT-TTTATTTGAAAAAAC
* *
6842360 TTTTTTTTA-TTGAAAAGAT
1 TTTTTTTTATTTGAAAAAAC
6842379 TTTTTTATTATTTTGAAAA
1 TTTTTT-TTA-TTTGAAAA
6842398 CTTTATTTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
19 14 0.42
20 7 0.21
21 5 0.15
22 7 0.21
ACGTcount: A:0.32, C:0.02, G:0.08, T:0.58
Consensus pattern (20 bp):
TTTTTTTTATTTGAAAAAAC
Found at i:6842567 original size:15 final size:15
Alignment explanation
Indices: 6842547--6842595 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
6842537 TAAAATGGGT
6842547 TAAAAATAAAATAAA
1 TAAAAATAAAATAAA
* *
6842562 TAAAAATGAAAT-CA
1 TAAAAATAAAATAAA
*
6842576 -AAAAATAAAAAAAA
1 TAAAAATAAAATAAA
6842590 TAAAAA
1 TAAAAA
6842596 AAGAAAAACC
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
13 9 0.33
14 2 0.07
15 16 0.59
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (15 bp):
TAAAAATAAAATAAA
Found at i:6842595 original size:9 final size:9
Alignment explanation
Indices: 6842548--6842597 Score: 57
Period size: 9 Copynumber: 5.4 Consensus size: 9
6842538 AAAATGGGTT
6842548 AAAAATAAA
1 AAAAATAAA
*
6842557 ATAAATAAA
1 AAAAATAAA
*
6842566 AATGAAAT-CA
1 AA--AAATAAA
6842576 AAAAATAAA
1 AAAAATAAA
6842585 AAAAATAAA
1 AAAAATAAA
6842594 AAAA
1 AAAA
6842598 GAAAAACCTA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
8 4 0.12
9 23 0.68
10 3 0.09
11 4 0.12
ACGTcount: A:0.82, C:0.02, G:0.02, T:0.14
Consensus pattern (9 bp):
AAAAATAAA
Found at i:6842602 original size:23 final size:23
Alignment explanation
Indices: 6842548--6842603 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
6842538 AAAATGGGTT
* *
6842548 AAAAATAAAATAAATAAAAATGA
1 AAAAAAAAAATAAATAAAAATAA
**
6842571 AATCAAAAAATAAA-AAAAATAA
1 AAAAAAAAAATAAATAAAAATAA
6842593 AAAAAGAAAAA
1 AAAAA-AAAAA
6842604 CCTACGATCG
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
22 10 0.38
23 16 0.62
ACGTcount: A:0.82, C:0.02, G:0.04, T:0.12
Consensus pattern (23 bp):
AAAAAAAAAATAAATAAAAATAA
Found at i:6843943 original size:119 final size:119
Alignment explanation
Indices: 6843763--6844572 Score: 672
Period size: 119 Copynumber: 6.8 Consensus size: 119
6843753 CAAATATGAA
* * * * * *
6843763 AAATGACCTGGACTGAACTAAGATCGAA-TGATCGAGACTAAACCACGAGTCAAGATGAAGTGAC
1 AAATGATCTGGACTGAGCCAAGATC-AAGTGATCGAGACGAAACCACGAGTCAAAATAAAGTGAC
* * * * *
6843827 CAAGACCGAGTCAAGGTAAAAAATAAATGATCGAGATGAAATCACGAATCATATG
65 CAAGATCGAGTCGAGGTCAAAAATAAATGATCGAGATGAAACCACGAATCATAAG
* *
6843882 AAATGATCTGGACTGAGCCAAGATCAAGTGA-CTGAGACGAAATCACAAGTCAAAATAAAGTGAC
1 AAATGATCTGGACTGAGCCAAGATCAAGTGATC-GAGACGAAACCACGAGTCAAAATAAAGTGAC
* * *
6843946 CAGGATCGAGTCGAGGTCGAAAATAAATGATC-AGGAT-AAACCATGAATCATAAG
65 CAAGATCGAGTCGAGGTCAAAAATAAATGATCGA-GATGAAACCACGAATCATAAG
* ** * * ** * *
6844000 AAATGATCTGGACTGAGCTAAGATCAA-ACAACTGGGATAAAATCATGAGTCAAAATAAAAGTGA
1 AAATGATCTGGACTGAGCCAAGATCAAGTGATC-GAGACGAAACCACGAGTCAAAAT-AAAGTGA
* * * ** * * *
6844064 CCAGGA-CTGAATCAAGGTCAAAAATAAATGATC-AGAACAAAACTACGAATCCTAAA
64 CCAAGATC-GAGTCGAGGTCAAAAATAAATGATCGAG-ATGAAACCACGAATCATAAG
* * * * * * * ** *
6844120 AAATAATCTAGATTGAGCCAAGATCAA-TTAACTAGGATGAAACCACGAGTCAAAATAAAACGAT
1 AAATGATCTGGACTGAGCCAAGATCAAGTGATCGA-GACGAAACCACGAGTCAAAATAAAGTGAC
* * * * * * *
6844184 C-AGAATCGAATCAAGGTCGAAAATAAATGATTGGGATAAAACCACGAATCATTAG
65 CAAG-ATCGAGTCGAGGTCAAAAATAAATGATCGAGATGAAACCACGAATCATAAG
* ** * * * * **
6844239 AATTGATCTGGACTGAGTTAAGATTAAGCGATCGGGACGAAACCACGAGTCAAAATGAAGCAACC
1 AAATGATCTGGACTGAGCCAAGATCAAGTGATCGAGACGAAACCACGAGTCAAAATAAAGTGACC
* * * * *
6844304 AAGATGGAGTCGAGGT-AAAAAGTAAATAATTGAGATGAAACTATGAATCATAAG
66 AAGATCGAGTCGAGGTCAAAAA-TAAATGATCGAGATGAAACCACGAATCATAAG
* * * * * * * * *
6844358 AAATAATATAGACTGAG-CAAGATCAAGTGATCGGGATGAAACTATGAGTCAAAAAAAAATGACC
1 AAATGATCTGGACTGAGCCAAGATCAAGTGATCGAGACGAAACCACGAGTCAAAATAAAGTGACC
* * * * * * *
6844422 ACGATTGAGTCGAGGTTAAAAATAAATGATTG-GAACGAAACCACGATTCATAAA
66 AAGATCGAGTCGAGGTCAAAAATAAATGATCGAG-ATGAAACCACGAATCATAAG
* * *
6844476 AAATGATTTGGACTGAGCCAAGATCAAGTGATCGAGACAAAACCACTAGTCAAAATAAAGTGACC
1 AAATGATCTGGACTGAGCCAAGATCAAGTGATCGAGACGAAACCACGAGTCAAAATAAAGTGACC
* *
6844541 AGGATCGAGTCGAGGTCGAAAATAAATGATCG
66 AAGATCGAGTCGAGGTCAAAAATAAATGATCG
6844573 GGGATAAAAC
Statistics
Matches: 552, Mismatches: 121, Indels: 36
0.78 0.17 0.05
Matches are distributed among these distances:
117 2 0.00
118 159 0.29
119 328 0.59
120 63 0.11
ACGTcount: A:0.45, C:0.15, G:0.21, T:0.19
Consensus pattern (119 bp):
AAATGATCTGGACTGAGCCAAGATCAAGTGATCGAGACGAAACCACGAGTCAAAATAAAGTGACC
AAGATCGAGTCGAGGTCAAAAATAAATGATCGAGATGAAACCACGAATCATAAG
Found at i:6844579 original size:357 final size:356
Alignment explanation
Indices: 6843761--6844584 Score: 899
Period size: 357 Copynumber: 2.3 Consensus size: 356
6843751 TTCAAATATG
* * * * * *
6843761 AAAAATGACCTGGACTGAACTAAGATCGAATGATCGAGACTAAACCACGAGTCAAGATGAAGTGA
1 AAAAATGATCTGGACTGAGCCAAGATC-AATGATCGAGACAAAACCACGAGTCAAAATAAAGTGA
* * ** * * *
6843826 CCAAGACCGAGTCAAGGTAAAAAATAAATGATCGAGATGAAATCACGAATCATATGAAATGATCT
65 CCAGGATCGAGTCAAGGTCGAAAATAAATGATCGGGATAAAACCACGAATCATATGAAATGATCT
* * ** *
6843891 GGACTGAGCCAAGATCAAGTGACTGAGACGAAATCACAAGTCAAAATAAAGTGACCAGGATCGAG
130 GGACTGAGCCAAGATCAAGCGACTGAGACGAAACCACAAGTCAAAATAAAGCAACCAAGATCGAG
* * * * *
6843956 TCGAGGTCGAAAATAAATGATCAGGATAAACCATGAATCATAAGAAATGATCTGGACTGAGCTAA
195 TCGAGGTCAAAAATAAATAATCAGGATAAACCATGAATCATAAGAAATAATATAGACTGAGCTAA
* *
6844021 GATCAAACAACTGGGATAAAATCATGAGTCAAAATAAAAGTGACCAGGACTGAATCAAGGTCAAA
260 GATCAAACAACTGGGATAAAATCATGAGTCAAAATAAAAATGACCACGACTGAATCAAGGTCAAA
* *
6844086 AATAAATGATCAGAACAAAACTACGAATCCTA
325 AATAAATGATCAGAACAAAACCACGAATCATA
* * * * * * ** **
6844118 AAAAATAATCTAGATTGAGCCAAGATCAATTAACTAGGATGAAACCACGAGTCAAAATAAAACGA
1 AAAAATGATCTGGACTGAGCCAAGATCAATGATCGA-GACAAAACCACGAGTCAAAATAAAGTGA
* * * * *
6844183 TCAGAATCGAATCAAGGTCGAAAATAAATGATTGGGATAAAACCACGAATCAT-TAGAATTGATC
65 CCAGGATCGAGTCAAGGTCGAAAATAAATGATCGGGATAAAACCACGAATCATAT-GAAATGATC
** * * * * *
6844247 TGGACTGAGTTAAGATTAAGCGA-TCGGGACGAAACCACGAGTCAAAATGAAGCAACCAAGATGG
129 TGGACTGAGCCAAGATCAAGCGACT-GAGACGAAACCACAAGTCAAAATAAAGCAACCAAGATCG
* *
6844311 AGTCGAGGT-AAAAAGTAAATAAT-TGAGATGAAACTATGAATCATAAGAAATAATATAGACTGA
193 AGTCGAGGTCAAAAA-TAAATAATCAG-GAT-AAACCATGAATCATAAGAAATAATATAGACTGA
*** * * * *
6844374 GC-AAGATCAAGTGA-TCGGGATGAAA-CTATGAGTCAAAA-AAAAATGACCACGATTGAGTCGA
255 GCTAAGATCAAACAACT-GGGATAAAATC-ATGAGTCAAAATAAAAATGACCACGACTGAATCAA
* ** * *
6844435 GGTTAAAAATAAATGATTGGAACGAAACCACGATTCATA
318 GGTCAAAAATAAATGATCAGAACAAAACCACGAATCATA
* *
6844474 AAAAATGATTTGGACTGAGCCAAGATCAAGTGATCGAGACAAAACCACTAGTCAAAATAAAGTGA
1 AAAAATGATCTGGACTGAGCCAAGATCAA-TGATCGAGACAAAACCACGAGTCAAAATAAAGTGA
*
6844539 CCAGGATCGAGTCGAGGTCGAAAATAAATGATCGGGGATAAAACCA
65 CCAGGATCGAGTCAAGGTCGAAAATAAATGATC-GGGATAAAACCA
6844585 TAATTCATAA
Statistics
Matches: 378, Mismatches: 79, Indels: 20
0.79 0.17 0.04
Matches are distributed among these distances:
356 141 0.37
357 206 0.54
358 31 0.08
ACGTcount: A:0.45, C:0.15, G:0.21, T:0.19
Consensus pattern (356 bp):
AAAAATGATCTGGACTGAGCCAAGATCAATGATCGAGACAAAACCACGAGTCAAAATAAAGTGAC
CAGGATCGAGTCAAGGTCGAAAATAAATGATCGGGATAAAACCACGAATCATATGAAATGATCTG
GACTGAGCCAAGATCAAGCGACTGAGACGAAACCACAAGTCAAAATAAAGCAACCAAGATCGAGT
CGAGGTCAAAAATAAATAATCAGGATAAACCATGAATCATAAGAAATAATATAGACTGAGCTAAG
ATCAAACAACTGGGATAAAATCATGAGTCAAAATAAAAATGACCACGACTGAATCAAGGTCAAAA
ATAAATGATCAGAACAAAACCACGAATCATA
Found at i:6845950 original size:8 final size:10
Alignment explanation
Indices: 6845928--6845958 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
6845918 CTAGTCCTTG
6845928 TATATTTCAA
1 TATATTTCAA
6845938 TATATTTCAA
1 TATATTTCAA
6845948 TATATTTCAA
1 TATATTTCAA
6845958 T
1 T
6845959 CATCTTTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.52
Consensus pattern (10 bp):
TATATTTCAA
Found at i:6855175 original size:37 final size:36
Alignment explanation
Indices: 6855082--6855183 Score: 100
Period size: 39 Copynumber: 2.7 Consensus size: 36
6855072 ATAGGCACTT
* *
6855082 AAGCAAATATAAGCAATGAAAA-AAAACAAATGAATAA
1 AAGCAAATATAAGCAATGAAAAGAGAATAAAT-AAT-A
*
6855119 TTAAGCAAGTATACA-CAATGTAAAAGAGAATAAATAATA
1 --AAGCAAATATA-AGCAATG-AAAAGAGAATAAATAATA
*
6855158 AAGCAAATATAAGCAATGAAAGGAGA
1 AAGCAAATATAAGCAATGAAAAGAGA
6855184 TAATTCTAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
36 8 0.15
37 15 0.28
39 16 0.30
40 8 0.15
41 7 0.13
ACGTcount: A:0.61, C:0.08, G:0.15, T:0.17
Consensus pattern (36 bp):
AAGCAAATATAAGCAATGAAAAGAGAATAAATAATA
Found at i:6855761 original size:19 final size:19
Alignment explanation
Indices: 6855730--6855778 Score: 80
Period size: 19 Copynumber: 2.5 Consensus size: 19
6855720 GATAAAAATT
6855730 ATTGTTGTTTATTTGAAAAG
1 ATTGTT-TTTATTTGAAAAG
*
6855750 ATTTTTTTTATTTGAAAAG
1 ATTGTTTTTATTTGAAAAG
6855769 ATTGTTTTTA
1 ATTGTTTTTA
6855779 GAATTATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 22 0.81
20 5 0.19
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (19 bp):
ATTGTTTTTATTTGAAAAG
Found at i:6855898 original size:16 final size:15
Alignment explanation
Indices: 6855875--6855917 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 15
6855865 AATGGGTTAA
6855875 AAATAAAATAAAATC
1 AAATAAAATAAAATC
*
6855890 AAATCAAAATGAAATC
1 AAAT-AAAATAAAATC
*
6855906 AAA-AAATTAAAA
1 AAATAAAATAAAA
6855918 AAATAGAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
14 7 0.29
15 4 0.17
16 13 0.54
ACGTcount: A:0.72, C:0.07, G:0.02, T:0.19
Consensus pattern (15 bp):
AAATAAAATAAAATC
Found at i:6856301 original size:31 final size:31
Alignment explanation
Indices: 6856248--6856320 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 31
6856238 AAACCCTATC
* *
6856248 GAAAAATTTAACCTTATCGAAAATTTTC-AT
1 GAAAAATTCAACCTTATCGAAAAATTTCGAT
* *
6856278 GAAAAAATTCAACCTT-GCTGAAAAATTTCGTT
1 G-AAAAATTCAACCTTATC-GAAAAATTTCGAT
6856310 GAAAAATTCAA
1 GAAAAATTCAA
6856321 AGTTCTTCCC
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
30 2 0.06
31 32 0.89
32 2 0.06
ACGTcount: A:0.45, C:0.14, G:0.10, T:0.32
Consensus pattern (31 bp):
GAAAAATTCAACCTTATCGAAAAATTTCGAT
Found at i:6856813 original size:21 final size:21
Alignment explanation
Indices: 6856784--6856839 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
6856774 AAGAAAGTAG
* *
6856784 TAAAGAAAGAAAATGAACATAA
1 TAAA-AAAGAAAATCAAAATAA
*
6856806 TAAAAAAGAAAAACAAAATAA
1 TAAAAAAGAAAATCAAAATAA
6856827 TAATAAAA-AAAAT
1 TAA-AAAAGAAAAT
6856840 AATAATATGA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 21 0.72
22 8 0.28
ACGTcount: A:0.75, C:0.04, G:0.07, T:0.14
Consensus pattern (21 bp):
TAAAAAAGAAAATCAAAATAA
Found at i:6856830 original size:3 final size:3
Alignment explanation
Indices: 6856822--6856873 Score: 54
Period size: 3 Copynumber: 18.0 Consensus size: 3
6856812 AGAAAAACAA
* * * *
6856822 AAT AAT AAT AAA AAA AAT AAT AAT -AT GAT -AT AAT AAT AAT GAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
6856868 AAT AAT
1 AAT AAT
6856874 GTAATATAAC
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
2 4 0.09
3 39 0.91
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:6856840 original size:15 final size:16
Alignment explanation
Indices: 6856815--6856846 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
6856805 ATAAAAAAGA
6856815 AAAACAAAATAATAAT
1 AAAACAAAATAATAAT
6856831 AAAA-AAAATAATAAT
1 AAAACAAAATAATAAT
6856846 A
1 A
6856847 TGATATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (16 bp):
AAAACAAAATAATAAT
Found at i:6856868 original size:28 final size:28
Alignment explanation
Indices: 6856823--6856882 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
6856813 GAAAAACAAA
*
6856823 ATAATAATAAAAAAAATAATAATATGAT
1 ATAATAATAAAAAAAATAATAATATAAT
** * *
6856851 ATAATAATAATGATAATAATAATGTAAT
1 ATAATAATAAAAAAAATAATAATATAAT
6856879 ATAA
1 ATAA
6856883 CAATTTATAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (28 bp):
ATAATAATAAAAAAAATAATAATATAAT
Found at i:6856949 original size:25 final size:26
Alignment explanation
Indices: 6856901--6856959 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 26
6856891 AAAAAACTAT
** *
6856901 CTAATTGGACCCAGACACGGATGGGC
1 CTAATTGGACCCAGACACAAATGGAC
* *
6856927 CTAATTGGA-CTAGACACAAATGGAT
1 CTAATTGGACCCAGACACAAATGGAC
6856952 CTAATTGG
1 CTAATTGG
6856960 GCCTGAACAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
25 19 0.68
26 9 0.32
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.22
Consensus pattern (26 bp):
CTAATTGGACCCAGACACAAATGGAC
Found at i:6856993 original size:26 final size:26
Alignment explanation
Indices: 6856964--6857028 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 26
6856954 AATTGGGCCT
*
6856964 GAACATCAATAGGCCTAATCAAGCCC
1 GAACATAAATAGGCCTAATCAAGCCC
* ***
6856990 GAACATAAATGGGCCTAATTGGGCCC
1 GAACATAAATAGGCCTAATCAAGCCC
6857016 GAACATAAATAGG
1 GAACATAAATAGG
6857029 TGTCTATAAG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.17
Consensus pattern (26 bp):
GAACATAAATAGGCCTAATCAAGCCC
Found at i:6857489 original size:33 final size:35
Alignment explanation
Indices: 6857417--6857489 Score: 82
Period size: 33 Copynumber: 2.2 Consensus size: 35
6857407 GAATAGGCTC
6857417 ATTTTACTATTAAAAATTAGAATATTAAAAAGTAT
1 ATTTTACTATTAAAAATTAGAATATTAAAAAGTAT
* * *
6857452 -TTTTA-TATTAATAATT-TAATATTTTAAAA-TAT
1 ATTTTACTATTAAAAATTAGAATA-TTAAAAAGTAT
6857484 ATTTTA
1 ATTTTA
6857490 AAGTACAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
32 7 0.21
33 21 0.64
34 5 0.15
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (35 bp):
ATTTTACTATTAAAAATTAGAATATTAAAAAGTAT
Found at i:6857764 original size:25 final size:25
Alignment explanation
Indices: 6857736--6857789 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
6857726 TAAACACCCA
6857736 TTTTATTATTATTATTTTTCTTTTC
1 TTTTATTATTATTATTTTTCTTTTC
* * * *
6857761 TTTTATTATTCTTTTTTTTTTTTTT
1 TTTTATTATTATTATTTTTCTTTTC
6857786 TTTT
1 TTTT
6857790 TTGGTTTTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.11, C:0.06, G:0.00, T:0.83
Consensus pattern (25 bp):
TTTTATTATTATTATTTTTCTTTTC
Found at i:6857769 original size:22 final size:22
Alignment explanation
Indices: 6857741--6857786 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
6857731 ACCCATTTTA
6857741 TTATTATTATTTTTCTTTTCTT
1 TTATTATTATTTTTCTTTTCTT
* * *
6857763 TTATTATTCTTTTTTTTTTTTT
1 TTATTATTATTTTTCTTTTCTT
6857785 TT
1 TT
6857787 TTTTTGGTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.11, C:0.07, G:0.00, T:0.83
Consensus pattern (22 bp):
TTATTATTATTTTTCTTTTCTT
Found at i:6857772 original size:16 final size:15
Alignment explanation
Indices: 6857747--6857791 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
6857737 TTTATTATTA
*
6857747 TTATTTTTCTTTTCTT
1 TTATTATTCTTTT-TT
6857763 TTATTATTCTTTTTT
1 TTATTATTCTTTTTT
6857778 TT-TT-TT-TTTTTT
1 TTATTATTCTTTTTT
6857790 TT
1 TT
6857792 GGTTTTTGCT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
12 8 0.29
13 2 0.07
14 2 0.07
15 4 0.14
16 12 0.43
ACGTcount: A:0.07, C:0.07, G:0.00, T:0.87
Consensus pattern (15 bp):
TTATTATTCTTTTTT
Found at i:6857783 original size:19 final size:19
Alignment explanation
Indices: 6857744--6857782 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
6857734 CATTTTATTA
6857744 TTATTATTTTTCTTTTCTT
1 TTATTATTTTTCTTTTCTT
6857763 TTATTATTCTTT-TTTT-TT
1 TTATTATT-TTTCTTTTCTT
6857781 TT
1 TT
6857783 TTTTTTTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.21
19 12 0.63
20 3 0.16
ACGTcount: A:0.10, C:0.08, G:0.00, T:0.82
Consensus pattern (19 bp):
TTATTATTTTTCTTTTCTT
Found at i:6857980 original size:23 final size:23
Alignment explanation
Indices: 6857950--6858000 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
6857940 CAAAACCTTT
*
6857950 GAAAATTTGGGATCTCAATCCCA
1 GAAAATTTGAGATCTCAATCCCA
* *
6857973 GAAAATTTGAGATTTGAATCCCA
1 GAAAATTTGAGATCTCAATCCCA
6857996 GAAAA
1 GAAAA
6858001 GCTCTATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.41, C:0.16, G:0.18, T:0.25
Consensus pattern (23 bp):
GAAAATTTGAGATCTCAATCCCA
Found at i:6860346 original size:17 final size:17
Alignment explanation
Indices: 6860321--6860353 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
6860311 GATTTATTTT
6860321 CAATAAAAAATAAAAAC
1 CAATAAAAAATAAAAAC
*
6860338 CAATCAAAAATAAAAA
1 CAATAAAAAATAAAAA
6860354 ATAAATTGAA
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:0.76, C:0.12, G:0.00, T:0.12
Consensus pattern (17 bp):
CAATAAAAAATAAAAAC
Found at i:6860789 original size:11 final size:10
Alignment explanation
Indices: 6860764--6860791 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
6860754 ACAACAAAAA
6860764 TAAAAAATCT
1 TAAAAAATCT
6860774 TAAAAAATCT
1 TAAAAAATCT
6860784 TAAAAAAT
1 TAAAAAAT
6860792 ATTTTTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (10 bp):
TAAAAAATCT
Found at i:6870044 original size:11 final size:11
Alignment explanation
Indices: 6870028--6870052 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6870018 TGTAATCAAG
6870028 AATATTAAAAA
1 AATATTAAAAA
6870039 AATATTAAAAA
1 AATATTAAAAA
6870050 AAT
1 AAT
6870053 GACTGATACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
AATATTAAAAA
Found at i:6873123 original size:13 final size:13
Alignment explanation
Indices: 6873105--6873140 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
6873095 AATAATTAGT
6873105 AAAAATGAAAATA
1 AAAAATGAAAATA
6873118 AAAAAT-AAAATA
1 AAAAATGAAAATA
6873130 AAATAATGAAA
1 AAA-AATGAAA
6873141 TATGTAGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 9 0.43
13 9 0.43
14 3 0.14
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.17
Consensus pattern (13 bp):
AAAAATGAAAATA
Found at i:6873336 original size:10 final size:11
Alignment explanation
Indices: 6873289--6873336 Score: 53
Period size: 11 Copynumber: 4.3 Consensus size: 11
6873279 AGAAAAAAGG
6873289 AAAAA-TAATCA
1 AAAAATTAAT-A
*
6873300 AAAAATAAATA
1 AAAAATTAATA
6873311 ATAAAATTAATA
1 A-AAAATTAATA
*
6873323 AAAAATTAGTA
1 AAAAATTAATA
6873334 AAA
1 AAA
6873337 TTGTAAGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
11 19 0.59
12 13 0.41
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (11 bp):
AAAAATTAATA
Found at i:6875281 original size:19 final size:18
Alignment explanation
Indices: 6875257--6875305 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
6875247 TTGCTCATTT
6875257 TTTATTACTTTATTTTTAA
1 TTTATTACTTTATTTTT-A
* *
6875276 TTTATTAGTTAATTTTTA
1 TTTATTACTTTATTTTTA
*
6875294 TTT-TTATTTTAT
1 TTTATTACTTTAT
6875306 GACAAAAAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
17 7 0.27
18 4 0.15
19 15 0.58
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (18 bp):
TTTATTACTTTATTTTTA
Found at i:6875636 original size:21 final size:21
Alignment explanation
Indices: 6875602--6875646 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
6875592 TGATATGCAT
* * *
6875602 AAATATTAATAATAAAATTTA
1 AAATAATAAAAATAAAATATA
*
6875623 AAATAATAAAAATAATATATA
1 AAATAATAAAAATAAAATATA
6875644 AAA
1 AAA
6875647 ATTCAAAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (21 bp):
AAATAATAAAAATAAAATATA
Found at i:6876426 original size:22 final size:22
Alignment explanation
Indices: 6876386--6876427 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
6876376 GAGCTTTCTA
*
6876386 GGATTCAAATCCCAGATTTTTG
1 GGATTCAAATCCCAAATTTTTG
*
6876408 GGATTCAAATCCTAAATTTT
1 GGATTCAAATCCCAAATTTT
6876428 CAACCAGGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (22 bp):
GGATTCAAATCCCAAATTTTTG
Found at i:6876597 original size:16 final size:16
Alignment explanation
Indices: 6876576--6876606 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6876566 CAAACAGATC
6876576 AAAAAAGAAAAAAGAA
1 AAAAAAGAAAAAAGAA
*
6876592 AAAAAATAAAAAAGA
1 AAAAAAGAAAAAAGA
6876607 GGAGAAAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.87, C:0.00, G:0.10, T:0.03
Consensus pattern (16 bp):
AAAAAAGAAAAAAGAA
Found at i:6876606 original size:23 final size:23
Alignment explanation
Indices: 6876576--6876623 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
6876566 CAAACAGATC
6876576 AAAAAAGA-AAAAAGAAAAAAAAT
1 AAAAAAGAGAAAAA-AAAAAAAAT
* *
6876599 AAAAAAGAGGAGAAAAAAAAAAT
1 AAAAAAGAGAAAAAAAAAAAAAT
6876622 AA
1 AA
6876624 TAATAAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 19 0.86
24 3 0.14
ACGTcount: A:0.83, C:0.00, G:0.12, T:0.04
Consensus pattern (23 bp):
AAAAAAGAGAAAAAAAAAAAAAT
Found at i:6877116 original size:147 final size:146
Alignment explanation
Indices: 6876864--6877211 Score: 432
Period size: 147 Copynumber: 2.4 Consensus size: 146
6876854 ACTTTAAAAC
** * * *
6876864 TTAAAAATTTTATCTCAAAAAAGCTCCTCTAAGCAAATGCTCAATGGCTTTAAAAATTTCACCTT
1 TTAAAAATTTTATCTTGAAAAAGCTCCTCTAAGCAAAGGCTCAACGACTTTAAAAATTTCACCTT
*
6876929 GAAAAAGCTCATCTAAGCAGAGGCTCAACAACTTTAAAAATTTCATCTTGAAAAAACTCCTCTAA
66 GAAAAAGCTCATCTAAGCAGAGGCTCAACAACTTTAAAAA-TTCATCATGAAAAAACTCCTCTAA
*
6876994 GCAGAA-GCTCAATGACT
130 GCA-AAGGCTCAACGACT
* * *
6877011 TTAAAAATTTTATCTTGGAAAAGCTCCTCTAAGCAAAGGCTCAACGACTTTAAAAATTTTATCTT
1 TTAAAAATTTTATCTTGAAAAAGCTCCTCTAAGCAAAGGCTCAACGACTTTAAAAATTTCACCTT
* * * * *
6877076 GGAAAAGGCTCTTTTAAGCAGAGGCTCAACAACTTT-AAAATTCATCATGGAAAAACTCGTCTAA
66 -GAAAAAGCTCATCTAAGCAGAGGCTCAACAACTTTAAAAATTCATCATGAAAAAACTCCTCTAA
* **
6877140 GTAAAGGCTTTACGACT
130 GCAAAGGCTCAACGACT
* * * * * *
6877157 TTAAAAA-TTCATCTTGCAAAAGCTCCTTTAAGCAGAGGCTCTACAACTTTAAAAA
1 TTAAAAATTTTATCTTGAAAAAGCTCCTCTAAGCAAAGGCTCAACGACTTTAAAAA
6877212 GCAAAGGCTC
Statistics
Matches: 175, Mismatches: 24, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
145 44 0.25
146 38 0.22
147 61 0.35
148 32 0.18
ACGTcount: A:0.39, C:0.20, G:0.13, T:0.29
Consensus pattern (146 bp):
TTAAAAATTTTATCTTGAAAAAGCTCCTCTAAGCAAAGGCTCAACGACTTTAAAAATTTCACCTT
GAAAAAGCTCATCTAAGCAGAGGCTCAACAACTTTAAAAATTCATCATGAAAAAACTCCTCTAAG
CAAAGGCTCAACGACT
Found at i:6877166 original size:48 final size:49
Alignment explanation
Indices: 6876864--6877211 Score: 362
Period size: 49 Copynumber: 7.1 Consensus size: 49
6876854 ACTTTAAAAC
* *** * * *
6876864 TTAAAAATTTTATCTCAAAAAAGCTCCTCTAAGCAAATGCTCAATGGCT
1 TTAAAAATTTCATCTTGGAAAAGCTCCTCTAAGCAAAGGCTCAACGACT
* * * * *
6876913 TTAAAAATTTCACCTTGAAAAAGCTCATCTAAGCAGAGGCTCAACAACT
1 TTAAAAATTTCATCTTGGAAAAGCTCCTCTAAGCAAAGGCTCAACGACT
* * *
6876962 TTAAAAATTTCATCTTGAAAAAACTCCTCTAAGCAGAA-GCTCAATGACT
1 TTAAAAATTTCATCTTGGAAAAGCTCCTCTAAGCA-AAGGCTCAACGACT
*
6877011 TTAAAAATTTTATCTTGGAAAAGCTCCTCTAAGCAAAGGCTCAACGACT
1 TTAAAAATTTCATCTTGGAAAAGCTCCTCTAAGCAAAGGCTCAACGACT
* * * * *
6877060 TTAAAAATTTTATCTTGGAAAAGGCTCTTTTAAGCAGAGGCTCAACAACT
1 TTAAAAATTTCATCTTGGAAAA-GCTCCTCTAAGCAAAGGCTCAACGACT
* * * * **
6877110 TT-AAAA-TTCATCATGGAAAAACTCGTCTAAGTAAAGGCTTTACGACT
1 TTAAAAATTTCATCTTGGAAAAGCTCCTCTAAGCAAAGGCTCAACGACT
* * * * *
6877157 TTAAAAA-TTCATCTTGCAAAAGCTCCTTTAAGCAGAGGCTCTACAACT
1 TTAAAAATTTCATCTTGGAAAAGCTCCTCTAAGCAAAGGCTCAACGACT
6877205 TTAAAAA
1 TTAAAAA
6877212 GCAAAGGCTC
Statistics
Matches: 252, Mismatches: 43, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
47 21 0.08
48 57 0.23
49 148 0.59
50 26 0.10
ACGTcount: A:0.39, C:0.20, G:0.13, T:0.29
Consensus pattern (49 bp):
TTAAAAATTTCATCTTGGAAAAGCTCCTCTAAGCAAAGGCTCAACGACT
Found at i:6877219 original size:24 final size:24
Alignment explanation
Indices: 6877186--6877235 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
6877176 AAGCTCCTTT
*
6877186 AAGCAGAGGCTCTACAACTTTAAA
1 AAGCAAAGGCTCTACAACTTTAAA
*
6877210 AAGCAAAGGCTCTATAACTTTAAA
1 AAGCAAAGGCTCTACAACTTTAAA
6877234 AA
1 AA
6877236 TTTCATCATG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.46, C:0.18, G:0.14, T:0.22
Consensus pattern (24 bp):
AAGCAAAGGCTCTACAACTTTAAA
Found at i:6877299 original size:49 final size:48
Alignment explanation
Indices: 6877210--6877483 Score: 214
Period size: 49 Copynumber: 5.7 Consensus size: 48
6877200 CAACTTTAAA
* *
6877210 AAGCAAAGGCTCTATAACTTTAAAAATTTCATCATGGAAAAGCTCCTCT
1 AAGCAAA-GCTCAATAACTTTAAAAATTTCATCCTGGAAAAGCTCCTCT
* * *
6877259 AAGTAAAGAGTCAATAACTTTAAAAATTTCATCCTAGAAAAGCTCCTCT
1 AAGCAAAG-CTCAATAACTTTAAAAATTTCATCCTGGAAAAGCTCCTCT
* * * ** ** *
6877308 AAGTAAAGACTTAACAA-TTTTTAAATTT-ATTTTGGAAAAGCTCCTTT
1 AAGCAAAG-CTCAATAACTTTAAAAATTTCATCCTGGAAAAGCTCCTCT
* * * *
6877355 AAGCATATGCTCTACAACTTTAAAAA-TTCATCTTGGAAAAGCTCCTCT
1 AAGCA-AAGCTCAATAACTTTAAAAATTTCATCCTGGAAAAGCTCCTCT
* * ** * *
6877403 TAGCAGAGGCTTTATGACTTTAAAAATTTCATCCTAGAAAAGCTCCTCT
1 AAGCA-AAGCTCAATAACTTTAAAAATTTCATCCTGGAAAAGCTCCTCT
* * * * *
6877452 GAGCAGAGGTTGAATGACTTTAAAAA-TTCATC
1 AAGCA-AAGCTCAATAACTTTAAAAATTTCATC
6877484 TTTTCTCGAA
Statistics
Matches: 186, Mismatches: 34, Indels: 11
0.81 0.15 0.05
Matches are distributed among these distances:
47 27 0.15
48 61 0.33
49 98 0.53
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.32
Consensus pattern (48 bp):
AAGCAAAGCTCAATAACTTTAAAAATTTCATCCTGGAAAAGCTCCTCT
Found at i:6877349 original size:169 final size:169
Alignment explanation
Indices: 6877041--6877380 Score: 416
Period size: 169 Copynumber: 2.0 Consensus size: 169
6877031 AAGCTCCTCT
* * * * * *
6877041 AAGCAAAGGCTCAACGACTTTAAAAATTTTATCTTGGAAAAGGCTCTTTTAAGCAGAGGCTCAAC
1 AAGCAAAGGCTCAACAACTTTAAAAATTTCATCATGGAAAAGGCTCCTCTAAGCAAAGGCTCAAC
* * * * *
6877106 AACTTTAAAATTCATCATGGAAAAACTCGTCTAAGTAAAGGCTTTACGACTTTAAAAATTCATCT
66 AACTTTAAAATTCATCATAGAAAAACTCCTCTAAGTAAAGACTTAACGAATTTAAAAATTCATCT
6877171 TGCAAAAGCTCCTTTAAGCAGAGGCTCTACAACTTTAAA
131 TGCAAAAGCTCCTTTAAGCAGAGGCTCTACAACTTTAAA
* * *
6877210 AAGCAAAGGCTCTATAACTTTAAAAATTTCATCATGGAAAA-GCTCCTCTAAGTAAAGAG-TCAA
1 AAGCAAAGGCTCAACAACTTTAAAAATTTCATCATGGAAAAGGCTCCTCTAAGCAAAG-GCTCAA
* * * ** *
6877273 TAACTTTAAAAATTTCATCCTAGAAAAGCTCCTCTAAGTAAAGACTTAAC-AATTTTTAAATTTA
65 CAACTTT-AAAA-TTCATCATAGAAAAACTCCTCTAAGTAAAGACTTAACGAATTTAAAAATTCA
* * * *
6877337 TTTTGGAAAAGCTCCTTTAAGCATATGCTCTACAACTTTAAA
128 TCTTGCAAAAGCTCCTTTAAGCAGAGGCTCTACAACTTTAAA
6877379 AA
1 AA
6877381 TTCATCTTGG
Statistics
Matches: 144, Mismatches: 24, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
168 22 0.15
169 91 0.63
170 31 0.22
ACGTcount: A:0.39, C:0.18, G:0.13, T:0.30
Consensus pattern (169 bp):
AAGCAAAGGCTCAACAACTTTAAAAATTTCATCATGGAAAAGGCTCCTCTAAGCAAAGGCTCAAC
AACTTTAAAATTCATCATAGAAAAACTCCTCTAAGTAAAGACTTAACGAATTTAAAAATTCATCT
TGCAAAAGCTCCTTTAAGCAGAGGCTCTACAACTTTAAA
Found at i:6877411 original size:217 final size:218
Alignment explanation
Indices: 6877008--6877428 Score: 524
Period size: 217 Copynumber: 1.9 Consensus size: 218
6876998 AAGCTCAATG
* * * *
6877008 ACTTTAAAAATTTTATCTTGGAAAAGCTCCTCTAAGCAAAGGCTCAACGACTTTAAAAATTTTAT
1 ACTTTAAAAATTTCATCATGGAAAAGCTCCTCTAAGCAAAGGCTCAACAACTTTAAAAATTTCAT
* * * * * * *
6877073 CTTGGAAAAGGCTCTTTTAAGCAGAGGCTCAACAACTTTAAAATTCATCATGGAAAAACTCGTCT
66 CCTAGAAAAGGCTCCTCTAAGCAAAGACTCAACAACTTTAAAATTCATCATGGAAAAACTCCTCT
* * *
6877138 AAGTAAAGGCTTTACGACTTTAAAAATTCATCTTGCAAAAGCTCCTTTAAGCAGAGGCTCTACAA
131 AAGCAAAGGCTCTACAACTTTAAAAATTCATCTTGCAAAAGCTCCTTTAAGCAGAGGCTCTACAA
6877203 CTTTAAAAAGCAAAGGCTCTATA
196 CTTTAAAAAGCAAAGGCTCTATA
* *
6877226 ACTTTAAAAATTTCATCATGGAAAAGCTCCTCTAAGTAAAGAG-TCAATAACTTTAAAAATTTCA
1 ACTTTAAAAATTTCATCATGGAAAAGCTCCTCTAAGCAAAG-GCTCAACAACTTTAAAAATTTCA
* * * * * ** * *
6877290 TCCTAGAAAA-GCTCCTCTAAGTAAAGACTTAACAATTTTTAAATTTATTTTGGAAAAGCTCCTT
65 TCCTAGAAAAGGCTCCTCTAAGCAAAGACTCAACAACTTTAAAATTCATCATGGAAAAACTCCTC
* * * * *
6877354 TAAGCATATGCTCTACAACTTTAAAAATTCATCTTGGAAAAGCTCCTCTT-AGCAGAGGCTTTAT
130 TAAGCAAAGGCTCTACAACTTTAAAAATTCATCTTGCAAAAGCTCCT-TTAAGCAGAGGCTCTAC
*
6877418 GACTTTAAAAA
194 AACTTTAAAAA
6877429 TTTCATCCTA
Statistics
Matches: 170, Mismatches: 31, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
217 103 0.61
218 66 0.39
219 1 0.01
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.31
Consensus pattern (218 bp):
ACTTTAAAAATTTCATCATGGAAAAGCTCCTCTAAGCAAAGGCTCAACAACTTTAAAAATTTCAT
CCTAGAAAAGGCTCCTCTAAGCAAAGACTCAACAACTTTAAAATTCATCATGGAAAAACTCCTCT
AAGCAAAGGCTCTACAACTTTAAAAATTCATCTTGCAAAAGCTCCTTTAAGCAGAGGCTCTACAA
CTTTAAAAAGCAAAGGCTCTATA
Found at i:6878287 original size:19 final size:19
Alignment explanation
Indices: 6878263--6878299 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
6878253 AGATATATCA
6878263 TTTTTTT-TCTCTTTTTTTC
1 TTTTTTTAT-TCTTTTTTTC
6878282 TTTTTTTATTCTTTTTTT
1 TTTTTTTATTCTTTTTTT
6878300 AAGCAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 16 0.94
20 1 0.06
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.86
Consensus pattern (19 bp):
TTTTTTTATTCTTTTTTTC
Found at i:6878300 original size:11 final size:10
Alignment explanation
Indices: 6878263--6878299 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
6878253 AGATATATCA
6878263 TTTTTTTTCT
1 TTTTTTTTCT
*
6878273 CTTTTTTTCT
1 TTTTTTTTCT
6878283 TTTTTTATTCT
1 TTTTTT-TTCT
6878294 TTTTTT
1 TTTTTT
6878300 AAGCAAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 14 0.58
11 10 0.42
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.86
Consensus pattern (10 bp):
TTTTTTTTCT
Found at i:6879762 original size:15 final size:15
Alignment explanation
Indices: 6879738--6879775 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
6879728 AGGTAAGTGC
*
6879738 TCAAACTGAATCTTT
1 TCAAATTGAATCTTT
6879753 TCAAATTGAATCTTT
1 TCAAATTGAATCTTT
6879768 TCAAATTG
1 TCAAATTG
6879776 TTTGACCAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.34, C:0.16, G:0.08, T:0.42
Consensus pattern (15 bp):
TCAAATTGAATCTTT
Found at i:6886038 original size:248 final size:248
Alignment explanation
Indices: 6885600--6886099 Score: 901
Period size: 248 Copynumber: 2.0 Consensus size: 248
6885590 AGTCAAAATT
6885600 TTTGGTGGGCAAGCTATTTTCAAACTTTTATTACCACAAATTTTTAAAAATCAGAATGTCATATG
1 TTTGGTGGGCAAGCTATTTTCAAACTTTTATTACCACAAATTTTTAAAAATCAGAATGTCATATG
* **
6885665 TTAAAAATTTTATTTTTGATTTTTTTATGATCTTTTTTTTGAAAGAAAATGATGTGCACGATGCA
66 TTAAAAATTTTATTTTTGATTTTTTTACGATCTTTTTTTTGAAAGAAAATGATGCACACGATGCA
6885730 TGAATACAATTGGGAGATATTTGCTCTTGGACAAATTATAGCATTAGAAATTTTCATTGATTCCA
131 TGAATACAATTGGGAGATATTTGCTCTTGGACAAATTATAGCATTAGAAATTTTCATTGATTCCA
6885795 TACAACTTTTGTTACATGAAATTTATCATCCTAGAATTGTATCCATAAAAGTG
196 TACAACTTTTGTTACATGAAATTTATCATCCTAGAATTGTATCCATAAAAGTG
* * *
6885848 TTTGGTGGGCGAGCTATTTTTAAACTTTTATTACCATAAATTTTTAAAAATCAGAATGTCATATG
1 TTTGGTGGGCAAGCTATTTTCAAACTTTTATTACCACAAATTTTTAAAAATCAGAATGTCATATG
* * *
6885913 TTAAAAATTTTATTTTTTATTTTTTTACGATCTTTTTTTTGAAAGAAAATGATGCATATGATGCA
66 TTAAAAATTTTATTTTTGATTTTTTTACGATCTTTTTTTTGAAAGAAAATGATGCACACGATGCA
* *
6885978 TGAATGCAATTGGGAGATATTTGCTCTTGGACAAATTTTAGCATTAGAAATTTTCATTGATTCCA
131 TGAATACAATTGGGAGATATTTGCTCTTGGACAAATTATAGCATTAGAAATTTTCATTGATTCCA
6886043 TACAACTTTTGTTACATGAAATTTATCATCCTAGAATTGTATCCATAAAAGTG
196 TACAACTTTTGTTACATGAAATTTATCATCCTAGAATTGTATCCATAAAAGTG
6886096 TTTG
1 TTTG
6886100 ACTTGCTCAT
Statistics
Matches: 241, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
248 241 1.00
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.42
Consensus pattern (248 bp):
TTTGGTGGGCAAGCTATTTTCAAACTTTTATTACCACAAATTTTTAAAAATCAGAATGTCATATG
TTAAAAATTTTATTTTTGATTTTTTTACGATCTTTTTTTTGAAAGAAAATGATGCACACGATGCA
TGAATACAATTGGGAGATATTTGCTCTTGGACAAATTATAGCATTAGAAATTTTCATTGATTCCA
TACAACTTTTGTTACATGAAATTTATCATCCTAGAATTGTATCCATAAAAGTG
Found at i:6900081 original size:28 final size:28
Alignment explanation
Indices: 6900032--6900132 Score: 139
Period size: 28 Copynumber: 3.6 Consensus size: 28
6900022 CCATAAACAA
* * *
6900032 AAACCAGTAACACACAACTAACTTTCAT
1 AAACCACTAACACACATCTAACTTCCAT
* *
6900060 AATCCACTGACACACATCTAACTTCCAT
1 AAACCACTAACACACATCTAACTTCCAT
*
6900088 AAACCACTAACAAACATCTAACTTCCAT
1 AAACCACTAACACACATCTAACTTCCAT
*
6900116 AAACCATTAACACACAT
1 AAACCACTAACACACAT
6900133 TTAATTTGTC
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 63 1.00
ACGTcount: A:0.45, C:0.32, G:0.02, T:0.22
Consensus pattern (28 bp):
AAACCACTAACACACATCTAACTTCCAT
Found at i:6904745 original size:28 final size:28
Alignment explanation
Indices: 6904697--6904773 Score: 127
Period size: 28 Copynumber: 2.8 Consensus size: 28
6904687 CTATAAACAA
* *
6904697 AAACCACTAACACACAACTAACTTCCGT
1 AAACCACTAACACACATCTAACTTCCAT
*
6904725 AAACCACTAACAAACATCTAACTTCCAT
1 AAACCACTAACACACATCTAACTTCCAT
6904753 AAACCACTAACACACATCTAA
1 AAACCACTAACACACATCTAA
6904774 TTTTTCATCA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.47, C:0.34, G:0.01, T:0.18
Consensus pattern (28 bp):
AAACCACTAACACACATCTAACTTCCAT
Found at i:6910183 original size:212 final size:212
Alignment explanation
Indices: 6909816--6910235 Score: 795
Period size: 212 Copynumber: 2.0 Consensus size: 212
6909806 ACTTGTCAAT
*
6909816 TTGCTCTCCTTGTTTCAAATGTGACAACTTTTAAAGAAGTAGCAAACCAAGAAGAATGGCAGAAT
1 TTGCTCTCCTTGTTTCAAATGTGACAACTTTTAAAGAAGTAGCAAACCAAGAAAAATGGCAGAAT
6909881 GCAATGCAAGAAGAGATGATGGTAATTCAAAAGAATGAAACATGAGAAATGGTAGATTTACTGAA
66 GCAATGCAAGAAGAGATGATGGTAATTCAAAAGAATGAAACATGAGAAATGGTAGATTTACTGAA
6909946 AGACAAGAATGCAATTGGCCTCAAATGGGTATTCAAAACTAAATACCATGCTGATGGAACCATAC
131 AGACAAGAATGCAATTGGCCTCAAATGGGTATTCAAAACTAAATACCATGCTGATGGAACCATAC
6910011 AAAAGCACAAAGCCCAG
196 AAAAGCACAAAGCCCAG
* *
6910028 TTGCTCTCCTTGTTTCAGATGTGACAACTTTTAAAGAAGTAGTAAACCAAGAAAAATGGCAGAAT
1 TTGCTCTCCTTGTTTCAAATGTGACAACTTTTAAAGAAGTAGCAAACCAAGAAAAATGGCAGAAT
* *
6910093 GCAATGTAATAAGAGATGATGGTAATTCAAAAGAATGAAACATGAGAAATGGTAGATTTACTGAA
66 GCAATGCAAGAAGAGATGATGGTAATTCAAAAGAATGAAACATGAGAAATGGTAGATTTACTGAA
6910158 AGACAAGAATGCAATTGGCCTCAAATGGGTATTCAAAACTAAATACCATGCTGATGGAACCATAC
131 AGACAAGAATGCAATTGGCCTCAAATGGGTATTCAAAACTAAATACCATGCTGATGGAACCATAC
6910223 AAAAGCACAAAGC
196 AAAAGCACAAAGC
6910236 TCGGTTAGTG
Statistics
Matches: 203, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
212 203 1.00
ACGTcount: A:0.42, C:0.15, G:0.20, T:0.23
Consensus pattern (212 bp):
TTGCTCTCCTTGTTTCAAATGTGACAACTTTTAAAGAAGTAGCAAACCAAGAAAAATGGCAGAAT
GCAATGCAAGAAGAGATGATGGTAATTCAAAAGAATGAAACATGAGAAATGGTAGATTTACTGAA
AGACAAGAATGCAATTGGCCTCAAATGGGTATTCAAAACTAAATACCATGCTGATGGAACCATAC
AAAAGCACAAAGCCCAG
Found at i:6910506 original size:21 final size:21
Alignment explanation
Indices: 6910467--6910506 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
6910457 GACAAAGGTG
*
6910467 TACAAGCTAAAGAAGGCACTT
1 TACAAGCTAAAGAAAGCACTT
6910488 TACAAGCTAAA-ACAAGCAC
1 TACAAGCTAAAGA-AAGCAC
6910507 CACAGGCATG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.47, C:0.23, G:0.15, T:0.15
Consensus pattern (21 bp):
TACAAGCTAAAGAAAGCACTT
Found at i:6915539 original size:11 final size:12
Alignment explanation
Indices: 6915519--6915555 Score: 53
Period size: 11 Copynumber: 3.3 Consensus size: 12
6915509 TTTTAAATCA
6915519 TATT-TTTTTTG
1 TATTATTTTTTG
6915530 TA-TATTTTTTG
1 TATTATTTTTTG
6915541 TATTATTTTTT-
1 TATTATTTTTTG
6915552 TATT
1 TATT
6915556 TTATTTCTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 1 0.04
11 15 0.62
12 8 0.33
ACGTcount: A:0.16, C:0.00, G:0.05, T:0.78
Consensus pattern (12 bp):
TATTATTTTTTG
Found at i:6915644 original size:33 final size:33
Alignment explanation
Indices: 6915607--6915672 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
6915597 AAGCATGGGT
*
6915607 TTCCATCATGGTGCTTTTAATTAATAATTAACC
1 TTCCATCAGGGTGCTTTTAATTAATAATTAACC
6915640 TTCCATCAGGGTGCTTTTAATTAATAATTAACC
1 TTCCATCAGGGTGCTTTTAATTAATAATTAACC
6915673 CTCACAATTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.30, C:0.18, G:0.11, T:0.41
Consensus pattern (33 bp):
TTCCATCAGGGTGCTTTTAATTAATAATTAACC
Found at i:6920474 original size:22 final size:22
Alignment explanation
Indices: 6920449--6920553 Score: 68
Period size: 22 Copynumber: 4.8 Consensus size: 22
6920439 ATAGTCATCG
6920449 ATAACTTAATAATAAATTAGTA
1 ATAACTTAATAATAAATTAGTA
* * * *
6920471 ATAATTTAATAGTAAATGAATA
1 ATAACTTAATAATAAATTAGTA
* * * * * * *
6920493 ATAATTTAGTAGTTAATAATTG
1 ATAACTTAATAATAAATTAGTA
**
6920515 ATAACTTTTTAATAAATTAGTA
1 ATAACTTAATAATAAATTAGTA
*
6920537 ATAA-TACAATAATAAAT
1 ATAACT-TAATAATAAAT
6920554 ACATAATATT
Statistics
Matches: 62, Mismatches: 20, Indels: 2
0.74 0.24 0.02
Matches are distributed among these distances:
21 1 0.02
22 61 0.98
ACGTcount: A:0.51, C:0.03, G:0.07, T:0.39
Consensus pattern (22 bp):
ATAACTTAATAATAAATTAGTA
Found at i:6920668 original size:22 final size:22
Alignment explanation
Indices: 6920623--6920696 Score: 76
Period size: 22 Copynumber: 3.4 Consensus size: 22
6920613 ACTAAATCAA
** * *
6920623 TGATAACTTAACAAAAAATAAT
1 TGATAACTTAGGAATAAATTAT
*
6920645 TGATAACTTAGGAATTAATTAT
1 TGATAACTTAGGAATAAATTAT
* * *
6920667 TGATAATTTAGTAATAAATTAA
1 TGATAACTTAGGAATAAATTAT
6920689 TGATAACT
1 TGATAACT
6920697 CAATAGTAAA
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.49, C:0.05, G:0.09, T:0.36
Consensus pattern (22 bp):
TGATAACTTAGGAATAAATTAT
Found at i:6920694 original size:11 final size:11
Alignment explanation
Indices: 6920678--6920731 Score: 54
Period size: 11 Copynumber: 4.9 Consensus size: 11
6920668 GATAATTTAG
6920678 TAATAAATTAA
1 TAATAAATTAA
* * *
6920689 TGATAACTCAA
1 TAATAAATTAA
* *
6920700 TAGTAAATTAG
1 TAATAAATTAA
*
6920711 TAATAATTTAA
1 TAATAAATTAA
6920722 TAATAAATTA
1 TAATAAATTA
6920732 GTTTCAGTTT
Statistics
Matches: 31, Mismatches: 12, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
11 31 1.00
ACGTcount: A:0.54, C:0.04, G:0.06, T:0.37
Consensus pattern (11 bp):
TAATAAATTAA
Found at i:6920716 original size:22 final size:22
Alignment explanation
Indices: 6920678--6920733 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
6920668 GATAATTTAG
* *
6920678 TAATAAATTAATGATAACTCAA
1 TAATAAATTAGTAATAACTCAA
* * *
6920700 TAGTAAATTAGTAATAATTTAA
1 TAATAAATTAGTAATAACTCAA
6920722 TAATAAATTAGT
1 TAATAAATTAGT
6920734 TTCAGTTTAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.52, C:0.04, G:0.07, T:0.38
Consensus pattern (22 bp):
TAATAAATTAGTAATAACTCAA
Found at i:6920897 original size:65 final size:65
Alignment explanation
Indices: 6920784--6920923 Score: 147
Period size: 65 Copynumber: 2.1 Consensus size: 65
6920774 ATAACTTATT
* * * ** * * *
6920784 AGTAAATCAATTATAAATTAGTAGTAAATAATTGATAAATTAGTAGTTATTGATTGAAAACTTAA
1 AGTAAATC-AGTATAAATTAATAGTAAATAATCGATAAATTAACAGTTAATCACTGAAAACTTAA
6920849 A
65 A
* * *
6920850 AGTAAATCAGTATAACTTAATAGTAAATCATCGATAACA-TAACAGTTAATCACTGATAACTTAA
1 AGTAAATCAGTATAAATTAATAGTAAATAATCGATAA-ATTAACAGTTAATCACTGAAAACTTAA
*
6920914 T
65 A
6920915 AGTAAATCA
1 AGTAAATCA
6920924 TGCATAATTT
Statistics
Matches: 61, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
65 52 0.85
66 9 0.15
ACGTcount: A:0.48, C:0.09, G:0.11, T:0.33
Consensus pattern (65 bp):
AGTAAATCAGTATAAATTAATAGTAAATAATCGATAAATTAACAGTTAATCACTGAAAACTTAAA
Found at i:6920996 original size:22 final size:21
Alignment explanation
Indices: 6920758--6921114 Score: 104
Period size: 22 Copynumber: 16.6 Consensus size: 21
6920748 AATTCATTGA
* *
6920758 TAGTAGTAAATAATAAATAACT
1 TAGTAGTAAATCAT-GATAACT
* * *
6920780 TATTAGTAAATCAATTATAAAT
1 TAGTAGTAAATC-ATGATAACT
* *
6920802 TAGTAGTAAATAATTGATAAAT
1 TAGTAGTAAATCA-TGATAACT
* * * *
6920824 TAGTAGTTATTGATTGAAAACT
1 TAGTAGTAAATCA-TGATAACT
**
6920846 TAAAAGTAAATCA-GTATAACT
1 TAGTAGTAAATCATG-ATAACT
* *
6920867 TAATAGTAAATCATCGATAACA
1 TAGTAGTAAATCAT-GATAACT
** *
6920889 TAACAGTTAATCACTGATAACT
1 TAGTAGTAAATCA-TGATAACT
* *
6920911 TAATAGTAAATCATGCATAATT
1 TAGTAGTAAATCATG-ATAACT
* *
6920933 TA-TA-TAAAAT-ATAAATAGCT
1 TAGTAGT-AAATCAT-GATAACT
* * * *
6920953 TGGTAATAAATCATAGACAATT
1 TAGTAGTAAATCAT-GATAACT
*
6920975 TAGTAGTAAATCAGTGATAATT
1 TAGTAGTAAATCA-TGATAACT
* * * * * *
6920997 TTGTAATAAATAATTAAAAAT
1 TAGTAGTAAATCATGATAACT
* *
6921018 TAAGTAGAAAATCAAT-ATAACA
1 T-AGTAGTAAATC-ATGATAACT
* * *
6921040 TAATAATAAAT-AT-ATAAAAAT
1 TAGTAGTAAATCATGAT--AACT
* * *
6921061 ATAATAATAAATCATTGATAATT
1 -TAGTAGTAAATCA-TGATAACT
*
6921084 TAGTAGT-AAT--TGATAATT
1 TAGTAGTAAATCATGATAACT
6921102 TAGTAGTAAATCA
1 TAGTAGTAAATCA
6921115 CTAATAACAC
Statistics
Matches: 253, Mismatches: 58, Indels: 49
0.70 0.16 0.14
Matches are distributed among these distances:
18 15 0.06
19 7 0.03
20 9 0.04
21 50 0.20
22 158 0.62
23 11 0.04
24 1 0.00
25 2 0.01
ACGTcount: A:0.50, C:0.06, G:0.10, T:0.34
Consensus pattern (21 bp):
TAGTAGTAAATCATGATAACT
Found at i:6921097 original size:18 final size:18
Alignment explanation
Indices: 6921074--6921110 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
6921064 ATAATAAATC
6921074 ATTGATAATTTAGTAGTA
1 ATTGATAATTTAGTAGTA
6921092 ATTGATAATTTAGTAGTA
1 ATTGATAATTTAGTAGTA
6921110 A
1 A
6921111 ATCACTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.16, T:0.43
Consensus pattern (18 bp):
ATTGATAATTTAGTAGTA
Found at i:6921520 original size:7 final size:7
Alignment explanation
Indices: 6921493--6921534 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
6921483 TAATAAAAAA
6921493 AATAATT
1 AATAATT
6921500 AATAACTT
1 AATAA-TT
*
6921508 ACTAATT
1 AATAATT
6921515 AATAATT
1 AATAATT
*
6921522 AATATTT
1 AATAATT
6921529 AATAAT
1 AATAAT
6921535 AAATTAATAG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
7 24 0.80
8 6 0.20
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (7 bp):
AATAATT
Found at i:6921655 original size:22 final size:22
Alignment explanation
Indices: 6921527--6921761 Score: 90
Period size: 22 Copynumber: 10.6 Consensus size: 22
6921517 TAATTAATAT
* *
6921527 TTAATAATAAATTAATAGTAAC
1 TTAATAGTAAATTAATAATAAC
* * * *
6921549 TTATTAGT-AA-TAGTGATAAT
1 TTAATAGTAAATTAATAATAAC
* * * *
6921569 TTAATTGTAAATTAGT-TTCAAT
1 TTAATAGTAAATTAATAAT-AAC
* *
6921591 TTAATAGT-AATTAATTGATAAAT
1 TTAATAGTAAATTAA-TAAT-AAC
* **
6921614 TTAGTAGTAAA-CCATAAATAAC
1 TTAATAGTAAATTAAT-AATAAC
*
6921636 TTAATAGTAAATTAATAATAAT
1 TTAATAGTAAATTAATAATAAC
* * * * *
6921658 TTAGTTGTTAATCATTAGA-AAC
1 TTAATAGTAAATTAATA-ATAAC
*
6921680 TTAAAAGTAAATTAAT-ATAAC
1 TTAATAGTAAATTAATAATAAC
* * *
6921701 TTAGTAGTAGTTAA-TCATCAATAGC
1 TTA--A-TAGTAAATTAAT-AATAAC
*
6921726 TTAATAGTTAATTAATAATAAC
1 TTAATAGTAAATTAATAATAAC
*
6921748 TTAATAATAAATTA
1 TTAATAGTAAATTA
6921762 TGTATAATTT
Statistics
Matches: 155, Mismatches: 42, Indels: 32
0.68 0.18 0.14
Matches are distributed among these distances:
20 13 0.08
21 16 0.10
22 87 0.56
23 25 0.16
24 7 0.05
25 7 0.05
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.40
Consensus pattern (22 bp):
TTAATAGTAAATTAATAATAAC
Found at i:6921802 original size:22 final size:22
Alignment explanation
Indices: 6921743--6921802 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
6921733 TTAATTAATA
*
6921743 ATAACTTAATAATAAATTATGT
1 ATAACTTAATAATGAATTATGT
*
6921765 ATAATTTAAT-ATGAATTGATG-
1 ATAACTTAATAATGAATT-ATGT
*
6921786 ATAACTTGATAATGAAT
1 ATAACTTAATAATGAAT
6921803 CATAATTAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 14 0.44
22 18 0.56
ACGTcount: A:0.47, C:0.03, G:0.10, T:0.40
Consensus pattern (22 bp):
ATAACTTAATAATGAATTATGT
Found at i:6921921 original size:22 final size:22
Alignment explanation
Indices: 6921839--6921965 Score: 71
Period size: 22 Copynumber: 5.8 Consensus size: 22
6921829 GATAATTTTG
* *
6921839 TAGTAAATAATTGA-AACCTAA
1 TAGTAAATCATTGATAACATAA
* * **
6921860 GTAGTAAATTAATGATAACATTG
1 -TAGTAAATCATTGATAACATAA
* * *
6921883 GAATAAATGCA-TAATAACATAA
1 TAGTAAAT-CATTGATAACATAA
**
6921905 TAGTAAATCATTGATAATTTAGA
1 TAGTAAATCATTGATAACATA-A
* * *
6921928 T-GTAAATTATTGATAACTTAG
1 TAGTAAATCATTGATAACATAA
*
6921949 TAGTAAATCATTAATAA
1 TAGTAAATCATTGATAA
6921966 TTTAGTTGTA
Statistics
Matches: 79, Mismatches: 21, Indels: 10
0.72 0.19 0.09
Matches are distributed among these distances:
21 3 0.04
22 69 0.87
23 7 0.09
ACGTcount: A:0.48, C:0.06, G:0.12, T:0.34
Consensus pattern (22 bp):
TAGTAAATCATTGATAACATAA
Found at i:6921934 original size:44 final size:44
Alignment explanation
Indices: 6921886--6921978 Score: 116
Period size: 44 Copynumber: 2.1 Consensus size: 44
6921876 AACATTGGAA
*
6921886 TAAATGCA-TAATAACATAATAGTAAATCATTGATAATTTAGATG
1 TAAAT-CATTAATAACATAATAGTAAATCATTAATAATTTAGATG
* * * * *
6921930 TAAATTATTGATAACTTAGTAGTAAATCATTAATAATTTAGTTG
1 TAAATCATTAATAACATAATAGTAAATCATTAATAATTTAGATG
6921974 TAAAT
1 TAAAT
6921979 AAATGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
43 1 0.02
44 41 0.98
ACGTcount: A:0.45, C:0.05, G:0.11, T:0.39
Consensus pattern (44 bp):
TAAATCATTAATAACATAATAGTAAATCATTAATAATTTAGATG
Found at i:6921956 original size:66 final size:66
Alignment explanation
Indices: 6921859--6922002 Score: 159
Period size: 66 Copynumber: 2.2 Consensus size: 66
6921849 TTGAAACCTA
* *
6921859 AGTAGTAAATTAATGATAACATTGGAATAAATGCA-TAATAACATAATAGTAAATCATTGATAAT
1 AGTAGTAAATTAATGATAACATTGGAATAAAT-CATTAATAACATAATAGTAAATAAATGATAAT
6921923 TT
65 TT
* * * ** * *
6921925 AG-ATGTAAATTATTGATAAC-TTAGTAGTAAATCATTAATAATTTAGTTGTAAATAAATGATAA
1 AGTA-GTAAATTAATGATAACATT-GGAATAAATCATTAATAACATAATAGTAAATAAATGATAA
6921988 TTT
64 TTT
6921991 AGTAGTAAATTA
1 AGTAGTAAATTA
6922003 GTTAATCATT
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
65 5 0.08
66 59 0.91
67 1 0.02
ACGTcount: A:0.47, C:0.04, G:0.12, T:0.37
Consensus pattern (66 bp):
AGTAGTAAATTAATGATAACATTGGAATAAATCATTAATAACATAATAGTAAATAAATGATAATT
T
Found at i:6921970 original size:22 final size:22
Alignment explanation
Indices: 6921905--6922000 Score: 122
Period size: 22 Copynumber: 4.4 Consensus size: 22
6921895 AATAACATAA
6921905 TAGTAAATCATTGATAATTTAG
1 TAGTAAATCATTGATAATTTAG
* *
6921927 -ATGTAAATTATTGATAACTTAG
1 TA-GTAAATCATTGATAATTTAG
*
6921949 TAGTAAATCATTAATAATTTAG
1 TAGTAAATCATTGATAATTTAG
* * *
6921971 TTGTAAATAAATGATAATTTAG
1 TAGTAAATCATTGATAATTTAG
6921993 TAGTAAAT
1 TAGTAAAT
6922001 TAGTTAATCA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
21 1 0.02
22 60 0.97
23 1 0.02
ACGTcount: A:0.44, C:0.03, G:0.12, T:0.41
Consensus pattern (22 bp):
TAGTAAATCATTGATAATTTAG
Found at i:6921986 original size:44 final size:44
Alignment explanation
Indices: 6921896--6922000 Score: 147
Period size: 44 Copynumber: 2.4 Consensus size: 44
6921886 TAAATGCATA
* * * * *
6921896 ATAACATAATAGTAAATCATTGATAATTTAGATGTAAATTATTG
1 ATAACTTAGTAGTAAATCATTAATAATTTAGATGTAAATAAATG
*
6921940 ATAACTTAGTAGTAAATCATTAATAATTTAGTTGTAAATAAATG
1 ATAACTTAGTAGTAAATCATTAATAATTTAGATGTAAATAAATG
*
6921984 ATAATTTAGTAGTAAAT
1 ATAACTTAGTAGTAAAT
6922001 TAGTTAATCA
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 54 1.00
ACGTcount: A:0.46, C:0.04, G:0.11, T:0.39
Consensus pattern (44 bp):
ATAACTTAGTAGTAAATCATTAATAATTTAGATGTAAATAAATG
Found at i:6922040 original size:96 final size:96
Alignment explanation
Indices: 6921905--6922096 Score: 221
Period size: 96 Copynumber: 2.0 Consensus size: 96
6921895 AATAACATAA
* * *
6921905 TAGTAAATCATTGATAATTTAGATGTAAATTATTGATAAC-TTAGTAGTAAATCATTAATAATTT
1 TAGTAAATCATTGATAATTTAGATGTAAATAATTGATAACTTTA-TAATAAATCATCAATAATTT
* * *
6921969 AGTTGTAAATAAAT-GATAATTTAGTAGTAAAT
65 AATAGTAAAT-AATCAATAATTTAGTAGTAAAT
* * * *
6922001 TAGTTAATCATTGTTAACTTTATA-GTAAATCAATT-ATAACTTTATAATAAATTATCAATAATT
1 TAGTAAATCATTGATAA-TTTAGATGTAAAT-AATTGATAACTTTATAATAAATCATCAATAATT
*
6922064 TAATAGTAAATCATCAATAATTTAGTAGTAAAT
64 TAATAGTAAATAATCAATAATTTAGTAGTAAAT
6922097 CAATCATAAC
Statistics
Matches: 81, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
95 2 0.02
96 68 0.84
97 11 0.14
ACGTcount: A:0.44, C:0.05, G:0.09, T:0.41
Consensus pattern (96 bp):
TAGTAAATCATTGATAATTTAGATGTAAATAATTGATAACTTTATAATAAATCATCAATAATTTA
ATAGTAAATAATCAATAATTTAGTAGTAAAT
Found at i:6922097 original size:66 final size:65
Alignment explanation
Indices: 6922019--6922142 Score: 162
Period size: 66 Copynumber: 1.9 Consensus size: 65
6922009 CATTGTTAAC
* * *
6922019 TTTATAGTAAATCAATTATAACTTTA-TAATAAATTA-TCAATAATTTAATAGTAAATCATCAAT
1 TTTATAGTAAATCAATCATAAC-TTAGTAATAAAGTATTC-ATAAATTAATAGTAAATCATCAAT
6922082 AA
64 AA
* *
6922084 TTTAGTAGTAAATCAATCATAACTTAGTAGTAAAGTATTCATAAATTAGTAGTAAATCA
1 TTTA-TAGTAAATCAATCATAACTTAGTAATAAAGTATTCATAAATTAATAGTAAATCA
6922143 ATGCGAATTT
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
65 7 0.14
66 42 0.82
67 2 0.04
ACGTcount: A:0.47, C:0.08, G:0.07, T:0.38
Consensus pattern (65 bp):
TTTATAGTAAATCAATCATAACTTAGTAATAAAGTATTCATAAATTAATAGTAAATCATCAATAA
Found at i:6922112 original size:118 final size:118
Alignment explanation
Indices: 6921904--6922117 Score: 297
Period size: 118 Copynumber: 1.8 Consensus size: 118
6921894 TAATAACATA
* ** * *
6921904 ATAGTAAATCATTGATAATTTAGATGTAAATTATTGATAACTTAGTAGTAAATCATTAATAATTT
1 ATAGTAAATCATTGATAATTTAGATATAAATTATCAATAACTTAATAGTAAATCATCAATAATTT
* * *
6921969 AGTTGTAAATAAATGATAATTTAGTAGTAAATTAGTTAATCATTGTTAACTTT
66 AGTAGTAAATAAATCATAACTTAGTAGTAAATTAGTTAATCATTGTTAACTTT
* *
6922022 ATAGTAAATCAATT-ATAACTTTATA-ATAAATTATCAATAATTTAATAGTAAATCATCAATAAT
1 ATAGTAAATC-ATTGATAA-TTTAGATATAAATTATCAATAACTTAATAGTAAATCATCAATAAT
*
6922085 TTAGTAGTAAATCAATCATAACTTAGTAGTAAA
64 TTAGTAGTAAATAAATCATAACTTAGTAGTAAA
6922118 GTATTCATAA
Statistics
Matches: 83, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
118 75 0.90
119 8 0.10
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.40
Consensus pattern (118 bp):
ATAGTAAATCATTGATAATTTAGATATAAATTATCAATAACTTAATAGTAAATCATCAATAATTT
AGTAGTAAATAAATCATAACTTAGTAGTAAATTAGTTAATCATTGTTAACTTT
Found at i:6922152 original size:66 final size:65
Alignment explanation
Indices: 6922019--6922162 Score: 152
Period size: 66 Copynumber: 2.2 Consensus size: 65
6922009 CATTGTTAAC
* * * *
6922019 TTTA-TAGTAAATCAATTATAACTTTATAATAAATTATCAATAATTTAATAGTAAATCATCAATA
1 TTTAGTAGTAAATCAATCATAACTTTATAATAAAGTATCAATAAATTAATAGTAAATCATC-AGA
6922083 A
65 A
* *
6922084 TTTAGTAGTAAATCAATCATAAC-TTAGTAGTAAAGTATTC-ATAAATTAGTAGTAAATCAATGC
1 TTTAGTAGTAAATCAATCATAACTTTA-TAATAAAGTA-TCAATAAATTAATAGTAAATC-AT-C
6922147 -GAA
62 AGAA
*
6922150 TTTAGTAATAAAT
1 TTTAGTAGTAAAT
6922163 TATTGATAAT
Statistics
Matches: 67, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
65 7 0.10
66 55 0.82
67 4 0.06
68 1 0.01
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.38
Consensus pattern (65 bp):
TTTAGTAGTAAATCAATCATAACTTTATAATAAAGTATCAATAAATTAATAGTAAATCATCAGAA
Found at i:6922154 original size:22 final size:22
Alignment explanation
Indices: 6922019--6922162 Score: 120
Period size: 22 Copynumber: 6.6 Consensus size: 22
6922009 CATTGTTAAC
*
6922019 TTTA-TAGTAAATCAATTATAA
1 TTTAGTAGTAAATCAATCATAA
* *
6922040 CTTTA-TAATAAAT-TATCAATAA
1 -TTTAGTAGTAAATCAATC-ATAA
*
6922062 TTTAATAGTAAATC-ATCAATAA
1 TTTAGTAGTAAATCAATC-ATAA
6922084 TTTAGTAGTAAATCAATCATAA
1 TTTAGTAGTAAATCAATCATAA
* *
6922106 CTTAGTAGTAAAGT-ATTCATAA
1 TTTAGTAGTAAA-TCAATCATAA
* *
6922128 ATTAGTAGTAAATCAATGC-GAA
1 TTTAGTAGTAAATCAAT-CATAA
*
6922150 TTTAGTAATAAAT
1 TTTAGTAGTAAAT
6922163 TATTGATAAT
Statistics
Matches: 103, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
21 7 0.07
22 91 0.88
23 5 0.05
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.38
Consensus pattern (22 bp):
TTTAGTAGTAAATCAATCATAA
Found at i:6922346 original size:22 final size:21
Alignment explanation
Indices: 6922318--6922460 Score: 126
Period size: 22 Copynumber: 6.5 Consensus size: 21
6922308 ATAAATTTTT
6922318 ATAGTAAATCATCGATAAATTA
1 ATAGTAAATCATC-ATAAATTA
* * *
6922340 ATAGTAAATCAGTTATAACTTT
1 ATAGTAAATCA-TCATAAATTA
* * *
6922362 ATAATAAATTATCAATAATTTA
1 ATAGTAAATCATC-ATAAATTA
*
6922384 ATAGTAAATCATCAATAATTTA
1 ATAGTAAATCATC-ATAAATTA
*
6922406 ATAGTAAATCAATCATAACTTA
1 ATAGTAAATC-ATCATAAATTA
*
6922428 GTAGTAAAGT-ATTCATAAATTA
1 ATAGTAAA-TCA-TCATAAATTA
*
6922450 GTAGTAAATCA
1 ATAGTAAATCA
6922461 ATGCAAATAA
Statistics
Matches: 102, Mismatches: 13, Indels: 12
0.80 0.10 0.09
Matches are distributed among these distances:
21 3 0.03
22 94 0.92
23 5 0.05
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (21 bp):
ATAGTAAATCATCATAAATTA
Found at i:6922396 original size:66 final size:66
Alignment explanation
Indices: 6922318--6922474 Score: 183
Period size: 66 Copynumber: 2.3 Consensus size: 66
6922308 ATAAATTTTT
* * * * *
6922318 ATAGTAAATCATCGATAAATTAATAGTAAATCAGTTATAACTTTA-TAATAAATTA-TCAATAAT
1 ATAGTAAATCATCAATAAATTAATAGTAAATCAATCATAAC-TTAGTAATAAAGTATTC-ATAAA
6922381 TTA
64 TTA
* *
6922384 ATAGTAAATCATCAATAATTTAATAGTAAATCAATCATAACTTAGTAGTAAAGTATTCATAAATT
1 ATAGTAAATCATCAATAAATTAATAGTAAATCAATCATAACTTAGTAATAAAGTATTCATAAATT
6922449 A
66 A
*
6922450 GTAGTAAATCAATGCAAATAAATTA
1 ATAGTAAATC-AT-C-AATAAATTA
6922475 TTGATAATTT
Statistics
Matches: 77, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
65 3 0.04
66 61 0.79
67 4 0.05
68 1 0.01
69 8 0.10
ACGTcount: A:0.49, C:0.08, G:0.08, T:0.35
Consensus pattern (66 bp):
ATAGTAAATCATCAATAAATTAATAGTAAATCAATCATAACTTAGTAATAAAGTATTCATAAATT
A
Found at i:6922634 original size:318 final size:312
Alignment explanation
Indices: 6922022--6922596 Score: 938
Period size: 318 Copynumber: 1.8 Consensus size: 312
6922012 TGTTAACTTT
6922022 ATAGTAAATCAATTATAACTTTATAATAAATTATCAATAATTTAATAGTAAATCATCAATAATTT
1 ATAGTAAATCAATTATAACTTTATAATAAATTATCAATAATTTAATAGTAAATCATCAATAATTT
*
6922087 AGTAGTAAATCAATCATAACTTAGTAGTAAAGTATTCATAAATTAGTAGTAAATCAATGCGAATT
66 AATAGTAAATCAATCATAACTTAGTAGTAAAGTATTCATAAATTAGTAGTAAATCAATGC-----
6922152 TAGTAATAAATTATTGATAATTTAACAATATATCATTTATAGTTTCATAGTAAATCATTGAGAAC
126 TAG-AATAAATTATTGATAATTTAACAATATATCATTTATAGTTTCATAGTAAATCATTGAGAAC
* ***
6922217 ATAAAGTAAATCAATTAAACTTAATTGGCAATCATTGATAAATTTTTTAACACTTGAAATTTTTT
190 ATAAAGTAAATCAATGAAACTTAATTGGCAATCATTGATAAATTTTTTAACACTTGAAATTTCAG
* * * *
6922282 CAATGAAACTTAATTGTCAATCATTAATAAATTTTTATAGTAAATCATCGATAAATTA
255 AAATGAAACTTAATTCTCAATAATGAATAAATTTTTATAGTAAATCATCGATAAATTA
*
6922340 ATAGTAAATCAGTTATAACTTTATAATAAATTATCAATAATTTAATAGTAAATCATCAATAATTT
1 ATAGTAAATCAATTATAACTTTATAATAAATTATCAATAATTTAATAGTAAATCATCAATAATTT
6922405 AATAGTAAATCAATCATAACTTAGTAGTAAAGTATTCATAAATTAGTAGTAAATCAATGC-A-AA
66 AATAGTAAATCAATCATAACTTAGTAGTAAAGTATTCATAAATTAGTAGTAAATCAATGCTAGAA
* * * *
6922468 TAAATTATTGATAATTTAATAGTATATTATTTATAGTTTCATATTAAATCATTGAGAACATAAAG
131 TAAATTATTGATAATTTAACAATATATCATTTATAGTTTCATAGTAAATCATTGAGAACATAAAG
*
6922533 TAAATCAATGAAACTTAATTGTCAATCATTGATAAATTTTTTAACACTTGAAATTGTCAGAAAT
196 TAAATCAATGAAACTTAATTGGCAATCATTGATAAATTTTTTAACACTTGAAATT-TCAGAAAT
6922597 TGAATCTTGG
Statistics
Matches: 244, Mismatches: 12, Indels: 9
0.92 0.05 0.03
Matches are distributed among these distances:
310 116 0.48
311 4 0.02
312 1 0.00
318 123 0.50
ACGTcount: A:0.45, C:0.09, G:0.08, T:0.38
Consensus pattern (312 bp):
ATAGTAAATCAATTATAACTTTATAATAAATTATCAATAATTTAATAGTAAATCATCAATAATTT
AATAGTAAATCAATCATAACTTAGTAGTAAAGTATTCATAAATTAGTAGTAAATCAATGCTAGAA
TAAATTATTGATAATTTAACAATATATCATTTATAGTTTCATAGTAAATCATTGAGAACATAAAG
TAAATCAATGAAACTTAATTGGCAATCATTGATAAATTTTTTAACACTTGAAATTTCAGAAATGA
AACTTAATTCTCAATAATGAATAAATTTTTATAGTAAATCATCGATAAATTA
Found at i:6922827 original size:21 final size:21
Alignment explanation
Indices: 6922803--6922847 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
6922793 ATGATGATAT
*
6922803 AAATTTTATCAATAA-TTACCA
1 AAATTATATC-ATAAGTTACCA
*
6922824 AAATTATATCATAAGTTATCA
1 AAATTATATCATAAGTTACCA
6922845 AAA
1 AAA
6922848 GATTACAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.51, C:0.11, G:0.02, T:0.36
Consensus pattern (21 bp):
AAATTATATCATAAGTTACCA
Found at i:6922891 original size:33 final size:32
Alignment explanation
Indices: 6922808--6922880 Score: 94
Period size: 32 Copynumber: 2.3 Consensus size: 32
6922798 GATATAAATT
* * *
6922808 TTATCAATA-ATTACCAAAATTATATCATAAG
1 TTATCAAAAGATTACAAAAATTATATCAGAAG
6922839 TTATCAAAAGATTACAAAAATTATATCAAGAAG
1 TTATCAAAAGATTACAAAAATTATATC-AGAAG
*
6922872 TTATTAAAA
1 TTATCAAAA
6922881 TTTTATAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
31 8 0.22
32 16 0.44
33 12 0.33
ACGTcount: A:0.52, C:0.10, G:0.05, T:0.33
Consensus pattern (32 bp):
TTATCAAAAGATTACAAAAATTATATCAGAAG
Found at i:6922903 original size:21 final size:21
Alignment explanation
Indices: 6922840--6922985 Score: 127
Period size: 21 Copynumber: 6.9 Consensus size: 21
6922830 TATCATAAGT
* *
6922840 TATCAAAAGATTACAAAAATTA
1 TATCAAAAG-TTACCAAAATTG
** *
6922862 TATCAAGAAGTTATTAAAATTT
1 TATCAA-AAGTTACCAAAATTG
* *
6922884 TATAAAAAATTACCAAAATTG
1 TATCAAAAGTTACCAAAATTG
*
6922905 TAT-AAATAGTTACCAAAATTA
1 TATCAAA-AGTTACCAAAATTG
6922926 TATCATAAA-TTACC-AAATTG
1 TATCA-AAAGTTACCAAAATTG
* * *
6922946 TGTCAAAAGTTATCAAAATTT
1 TATCAAAAGTTACCAAAATTG
*
6922967 TATCAAAAGTTATCAAAAT
1 TATCAAAAGTTACCAAAAT
6922986 CAAAATTATA
Statistics
Matches: 103, Mismatches: 15, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
19 3 0.03
20 16 0.16
21 57 0.55
22 22 0.21
23 5 0.05
ACGTcount: A:0.51, C:0.10, G:0.06, T:0.34
Consensus pattern (21 bp):
TATCAAAAGTTACCAAAATTG
Found at i:6922957 original size:41 final size:42
Alignment explanation
Indices: 6922890--6922985 Score: 117
Period size: 41 Copynumber: 2.3 Consensus size: 42
6922880 ATTTTATAAA
6922890 AAATTACCAAAATTGTATAAATAGTTACCAAAATTATATCAT
1 AAATTACCAAAATTGTATAAATAGTTACCAAAATTATATCAT
* * *
6922932 AAATTACC-AAATTGTGTCAAA-AGTTATCAAAATTTTATCA-
1 AAATTACCAAAATTGTAT-AAATAGTTACCAAAATTATATCAT
*
6922972 AAAGTTATCAAAAT
1 AAA-TTACCAAAAT
6922986 CAAAATTATA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
40 3 0.06
41 29 0.62
42 15 0.32
ACGTcount: A:0.49, C:0.11, G:0.06, T:0.33
Consensus pattern (42 bp):
AAATTACCAAAATTGTATAAATAGTTACCAAAATTATATCAT
Found at i:6922961 original size:10 final size:10
Alignment explanation
Indices: 6922948--6922984 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
6922938 CCAAATTGTG
6922948 TCAAAAGTTA
1 TCAAAAGTTA
*
6922958 TCAAAATTTTA
1 TCAAAA-GTTA
6922969 TCAAAAGTTA
1 TCAAAAGTTA
6922979 TCAAAA
1 TCAAAA
6922985 TCAAAATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 15 0.62
11 9 0.38
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (10 bp):
TCAAAAGTTA
Found at i:6923001 original size:47 final size:47
Alignment explanation
Indices: 6922950--6923040 Score: 114
Period size: 47 Copynumber: 1.9 Consensus size: 47
6922940 AAATTGTGTC
6922950 AAAAGTTATCAAAATTTTA-TCAAAAGT-TATCAAAATCAAAATTATAT
1 AAAAGTTAT-AAAATTTTACT-AAAAGTATATCAAAATCAAAATTATAT
* * * *
6922997 AAAAGTTATTAAATTTTACTTATATTATATCAAAATCAAAATTA
1 AAAAGTTATAAAATTTTACTAAAAGTATATCAAAATCAAAATTA
6923041 AATTTTTAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
46 11 0.29
47 27 0.71
ACGTcount: A:0.52, C:0.08, G:0.03, T:0.37
Consensus pattern (47 bp):
AAAAGTTATAAAATTTTACTAAAAGTATATCAAAATCAAAATTATAT
Found at i:6928640 original size:17 final size:18
Alignment explanation
Indices: 6928607--6928643 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
6928597 TTTTATATTA
6928607 ATATTTTAAAATTTTAAAT
1 ATATTTTAAAA-TTTAAAT
*
6928626 ATATTTTAAAATTAAAAT
1 ATATTTTAAAATTTAAAT
6928644 TAAATAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
ATATTTTAAAATTTAAAT
Found at i:6928661 original size:23 final size:24
Alignment explanation
Indices: 6928635--6928681 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
6928625 TATATTTTAA
*
6928635 AATTAA-AATTAAATAAAATTTTT
1 AATTAATAATAAAATAAAATTTTT
*
6928658 AATTAATTAATAAAATAATATTTT
1 AATTAA-TAATAAAATAAAATTTT
6928682 AAGTCAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 6 0.30
25 14 0.70
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (24 bp):
AATTAATAATAAAATAAAATTTTT
Found at i:6929134 original size:20 final size:19
Alignment explanation
Indices: 6929111--6929151 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
6929101 TTTAAAATTT
6929111 ATCAATAAACTACAATTATA
1 ATCAAT-AACTACAATTATA
*
6929131 ATCAATAGCTACAATTATA
1 ATCAATAACTACAATTATA
6929150 AT
1 AT
6929152 GAAGAAGAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.51, C:0.15, G:0.02, T:0.32
Consensus pattern (19 bp):
ATCAATAACTACAATTATA
Found at i:6930165 original size:3 final size:3
Alignment explanation
Indices: 6930157--6930203 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
6930147 ACTCACTTCT
6930157 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
6930204 GTTCTTATGC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:6932610 original size:20 final size:21
Alignment explanation
Indices: 6932566--6932614 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
6932556 AATTGAAAAG
6932566 AAAA-AAAATTACTTAATACA
1 AAAATAAAATTACTTAATACA
*
6932586 TAAATAAAATTAC-TAATTA-A
1 AAAATAAAATTACTTAA-TACA
6932606 AAAATAAAA
1 AAAATAAAA
6932615 GATATATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 15 0.60
21 10 0.40
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (21 bp):
AAAATAAAATTACTTAATACA
Found at i:6935804 original size:62 final size:61
Alignment explanation
Indices: 6935699--6935912 Score: 163
Period size: 62 Copynumber: 3.5 Consensus size: 61
6935689 CCTAAATTTT
* * * * *
6935699 TTTTAAAAAAAATTATTGAAGGCATTTGTTAT-CAAAAATACCTTCAATAATTATGTACAAAA
1 TTTTAAAAGAAATTATTAAAGGTATTT-TTATAAAAAAACACCTT-AATAATTATGTACAAAA
* * * **
6935761 TTTTAAAAGAAATTATTAAAGCGT-TTTTTAGT-AGAAGACACCTT--TAATAAT-CCCAAAA
1 TTTTAAAAGAAATTATTAAAG-GTATTTTTA-TAAAAAAACACCTTAATAATTATGTACAAAA
* * *
6935819 TTTTTTAAAGGGAAATTATTAAAGGTGTTTGTTATAAAAAAATACCTTTAATAATTATGTACAAA
1 --TTTTAAA-AGAAATTATTAAAGGTATTT-TTATAAAAAAACACC-TTAATAATTATGTACAAA
6935884 A
61 A
* *
6935885 -TTTAAAAGGAATCATTAAAGGTATTTTT
1 TTTTAAAAGAAATTATTAAAGGTATTTTT
6935913 TCTAGAATAA
Statistics
Matches: 119, Mismatches: 21, Indels: 25
0.72 0.13 0.15
Matches are distributed among these distances:
58 5 0.04
59 6 0.05
60 9 0.08
61 22 0.18
62 57 0.48
63 9 0.08
65 6 0.05
66 5 0.04
ACGTcount: A:0.44, C:0.08, G:0.11, T:0.37
Consensus pattern (61 bp):
TTTTAAAAGAAATTATTAAAGGTATTTTTATAAAAAAACACCTTAATAATTATGTACAAAA
Found at i:6935823 original size:123 final size:122
Alignment explanation
Indices: 6935655--6935912 Score: 340
Period size: 123 Copynumber: 2.1 Consensus size: 122
6935645 TGGTATATTG
* * *
6935655 AAGGTGTTTTTCAGTAAAAGACACCTTTAATAATCCTAAATTTTTTTTAAA-AAAAATTATTGAA
1 AAGGT-TTTTT-AGTAAAAGACACCTTTAATAATCCCAAA-ATTTTTTAAAGAAAAATTATTAAA
* *
6935719 GGCATTTGTTAT-CAAAAATACCTTCAATAATTATGTACAAAATTTTAAAAGAAATTATTA
63 GGCATTTGTTATAAAAAAATACCTTCAATAATTATGTACAAAA-TTTAAAAGAAATCATTA
* **
6935779 AAGCGTTTTTTAGTAGAAGACACCTTTAATAATCCCAAAATTTTTTAAAGGGAAATTATTAAAGG
1 AAG-GTTTTTTAGTAAAAGACACCTTTAATAATCCCAAAATTTTTTAAAGAAAAATTATTAAAGG
** * *
6935844 TGTTTGTTATAAAAAAATACCTTTAATAATTATGTACAAAATTTAAAAGGAATCATTA
65 CATTTGTTATAAAAAAATACCTTCAATAATTATGTACAAAATTTAAAAGAAATCATTA
6935902 AAGGTATTTTT
1 AAGGT-TTTTT
6935913 TCTAGAATAA
Statistics
Matches: 118, Mismatches: 12, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
122 11 0.09
123 69 0.58
124 36 0.31
125 2 0.02
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.38
Consensus pattern (122 bp):
AAGGTTTTTTAGTAAAAGACACCTTTAATAATCCCAAAATTTTTTAAAGAAAAATTATTAAAGGC
ATTTGTTATAAAAAAATACCTTCAATAATTATGTACAAAATTTAAAAGAAATCATTA
Found at i:6936297 original size:186 final size:186
Alignment explanation
Indices: 6935783--6936360 Score: 560
Period size: 186 Copynumber: 3.1 Consensus size: 186
6935773 TTATTAAAGC
* * * * * ** ** *
6935783 GTTTTTTAGTAGAAGACACCTTTAATAATCCCAAAATTTTTTAAAGGGAAATTATTAAAGGT-GT
1 GTTTTTCACTAGAAGACGCTTTTAATAATACCAAAAAGTTTTAAAATGAAATTATTGAA-GTAGT
* * * * *
6935847 TTGTTATAAAAAAATACCTTTAATAATTATGTACA-AAATTTAAAAGGAATCATTAAAGGTATTT
65 TTGTTATCAAAAAATGCC-TTAATAATTATGTACATAAA-TTAAAAGGAATCAATGAAGGCA-TT
* * **** * * *
6935911 TTTCTAGAATAAATGCCTTCACTAACCATTTTCAAATTTGAGTACTAGTATATTTAAGGT
127 TTTCTAAAATAAATGCCTTCACTAACCGTAAAAAAATTTGAATACTAGAATATTGAAGGT
* * *
6935971 GTTTTTCACTAGAAGATGCTTTTAATAATCCCAAAAATTTTTAAAATGAAATTATTGAAGGTA-T
1 GTTTTTCACTAGAAGACGCTTTTAATAATACCAAAAAGTTTTAAAATGAAATTATTGAA-GTAGT
* * *
6936035 TTGTTCTCAAAAAATGACTTCAATAATTATGTACATAAATTAAATGGAATCAATGAAGGCATTTT
65 TTGTTATCAAAAAATGCCTT-AATAATTATGTACATAAATTAAAAGGAATCAATGAAGGCATTTT
* **
6936100 TCTAAAATAAATGCCTTCACTAGCCGTAAAAAAATTTGAATTGTAGAATATTGAAGGT
129 TCTAAAATAAATGCCTTCACTAACCGTAAAAAAATTTGAATACTAGAATATTGAAGGT
* *
6936158 GTTTTTCAGT-GAAAGACGCTTTTAATAATACC-AAAAGTTTTAATA-GAAAATTATTGAA-TAC
1 GTTTTTCACTAG-AAGACGCTTTTAATAATACCAAAAAGTTTTAAAATG-AAATTATTGAAGTA-
* * * *
6936219 GTTTGTTATCAAAGAATGCCTATAATAATTAAGTACATAAATTAAAAGGAATTAGTGAAGGCATT
63 GTTTGTTATCAAAAAATGCCT-TAATAATTATGTACATAAATTAAAAGGAATCAATGAAGGCATT
* * *** * * *
6936284 TTTCTATAATAAATGCCTTTACTAACCGTTTTAAAATTTGAGTAGT-GAAATATTGAAGGC
127 TTTCTAAAATAAATGCCTTCACTAACCGTAAAAAAATTTGAATACTAG-AATATTGAAGGT
* *
6936344 ATTTTGCACTAGAAGAC
1 GTTTTTCACTAGAAGAC
6936361 ACCTTCAATA
Statistics
Matches: 327, Mismatches: 53, Indels: 22
0.81 0.13 0.05
Matches are distributed among these distances:
184 2 0.01
185 2 0.01
186 139 0.43
187 81 0.25
188 100 0.31
189 3 0.01
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (186 bp):
GTTTTTCACTAGAAGACGCTTTTAATAATACCAAAAAGTTTTAAAATGAAATTATTGAAGTAGTT
TGTTATCAAAAAATGCCTTAATAATTATGTACATAAATTAAAAGGAATCAATGAAGGCATTTTTC
TAAAATAAATGCCTTCACTAACCGTAAAAAAATTTGAATACTAGAATATTGAAGGT
Found at i:6945234 original size:3 final size:3
Alignment explanation
Indices: 6945228--6945311 Score: 96
Period size: 3 Copynumber: 28.0 Consensus size: 3
6945218 CATAATCATC
* *
6945228 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT GTT ATT ACT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * *
6945276 ACT ACT ATT ACT ATT ACT ACT ACT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
6945312 CCTTTTTTGT
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 73 1.00
ACGTcount: A:0.32, C:0.08, G:0.01, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:6947751 original size:36 final size:36
Alignment explanation
Indices: 6947594--6947751 Score: 88
Period size: 35 Copynumber: 4.4 Consensus size: 36
6947584 TTTGTTTGGG
* * * *
6947594 AAAATAAAGAATGACTTGGACATCA-CTACAAGTTTAA
1 AAAATAAA-AATGACTTGGACAACATC-GCAGGTTAAA
* * * * *
6947631 AAAATAAAGATGA-TCGGATAACACCGCAGGTCAAA
1 AAAATAAAAATGACTTGGACAACATCGCAGGTTAAA
* * *** * * ** *
6947666 AAAACAAATATGACCAAGATAACATTGCA-ACTCAA
1 AAAATAAAAATGACTTGGACAACATCGCAGGTTAAA
**
6947701 AAAATAAAGTTGACTTGGACAACATCGCAGGTTAAA
1 AAAATAAAAATGACTTGGACAACATCGCAGGTTAAA
6947737 AAAATAAAAATGACT
1 AAAATAAAAATGACT
6947752 AAGACGATAC
Statistics
Matches: 86, Mismatches: 32, Indels: 7
0.69 0.26 0.06
Matches are distributed among these distances:
35 47 0.55
36 31 0.36
37 8 0.09
ACGTcount: A:0.51, C:0.15, G:0.15, T:0.20
Consensus pattern (36 bp):
AAAATAAAAATGACTTGGACAACATCGCAGGTTAAA
Found at i:6947973 original size:37 final size:37
Alignment explanation
Indices: 6947915--6947985 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 37
6947905 CCAACAGTTG
*
6947915 AAAAAATAAAGATGACCAGGACAATACTATAGGTCAA
1 AAAAAATAAAGATGACCAGGACAACACTATAGGTCAA
* * *
6947952 AAAAAATAAAGGT-ATCTAGGACAACACTGTAGGT
1 AAAAAATAAAGATGA-CCAGGACAACACTATAGGT
6947986 AGAGAAATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
36 1 0.03
37 28 0.97
ACGTcount: A:0.51, C:0.13, G:0.18, T:0.18
Consensus pattern (37 bp):
AAAAAATAAAGATGACCAGGACAACACTATAGGTCAA
Found at i:6948189 original size:36 final size:35
Alignment explanation
Indices: 6948127--6948288 Score: 119
Period size: 36 Copynumber: 4.5 Consensus size: 35
6948117 ATACCGTAGG
* * ** *
6948127 TCAAAAAAATAAAGATGACCAAGATAACACCAATGA
1 TCAAAAAAATAAATATGATCGGGACAACACCAA-GA
* * *
6948163 TCAAAAAAATAAATATGATCGGGATAATACCGCAGA
1 TCAAAAAAATAAATATGATCGGGACAACACC-AAGA
* * * * *
6948199 TCGAAAAAACAAAGAT-AACTGGGACAACACTAACGA
1 TCAAAAAAATAAATATGATC-GGGACAACACCAA-GA
* * * *
6948235 TAAAAAAAATGAATATGATTGGGACAACACCAACA
1 TCAAAAAAATAAATATGATCGGGACAACACCAAGA
6948270 GTCAAAAAAATAAATATGA
1 -TCAAAAAAATAAATATGA
6948289 CCTCTACAAT
Statistics
Matches: 96, Mismatches: 25, Indels: 10
0.73 0.19 0.08
Matches are distributed among these distances:
35 4 0.04
36 90 0.94
37 2 0.02
ACGTcount: A:0.55, C:0.15, G:0.14, T:0.16
Consensus pattern (35 bp):
TCAAAAAAATAAATATGATCGGGACAACACCAAGA
Done.