Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032247.1 Gossypioides kirkii chromosome KI_05
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: 50980411
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 25 of 171
Found at i:11555981 original size:16 final size:18
Alignment explanation
Indices: 11555948--11555984 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
11555938 AATTTTTGGG
11555948 AAATATTTCTAAACAAAT
1 AAATATTTCTAAACAAAT
*
11555966 AAAT-TTTC-AAATAAAT
1 AAATATTTCTAAACAAAT
11555982 AAA
1 AAA
11555985 ACATAATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 10 0.56
17 4 0.22
18 4 0.22
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.32
Consensus pattern (18 bp):
AAATATTTCTAAACAAAT
Found at i:11569276 original size:21 final size:21
Alignment explanation
Indices: 11569246--11569296 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
11569236 GGATTAAGTA
*
11569246 ATTTGGATTTATAAACTTTAT
1 ATTTGAATTTATAAACTTTAT
* *
11569267 GTTTGAATTTCTAAACTTTAT
1 ATTTGAATTTATAAACTTTAT
11569288 ATTTGAATT
1 ATTTGAATT
11569297 ATGCTATTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.31, C:0.06, G:0.10, T:0.53
Consensus pattern (21 bp):
ATTTGAATTTATAAACTTTAT
Found at i:11577699 original size:4 final size:4
Alignment explanation
Indices: 11577690--11577725 Score: 63
Period size: 4 Copynumber: 9.0 Consensus size: 4
11577680 TCACAGTTAC
*
11577690 ACAT ACAT ACAT ACAT ACCT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
11577726 GCATGCATGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:11584707 original size:32 final size:32
Alignment explanation
Indices: 11584661--11584731 Score: 115
Period size: 32 Copynumber: 2.2 Consensus size: 32
11584651 ATGAGATTTC
* **
11584661 ATTGTGAAGTGAAAGAATGTTATCAATGTTGA
1 ATTGTGAAGCGAAAGAACATTATCAATGTTGA
11584693 ATTGTGAAGCGAAAGAACATTATCAATGTTGA
1 ATTGTGAAGCGAAAGAACATTATCAATGTTGA
11584725 ATTGTGA
1 ATTGTGA
11584732 TGAGTGTGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.38, C:0.06, G:0.24, T:0.32
Consensus pattern (32 bp):
ATTGTGAAGCGAAAGAACATTATCAATGTTGA
Found at i:11588733 original size:30 final size:30
Alignment explanation
Indices: 11588694--11588768 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 30
11588684 CATTTAACAC
*
11588694 AACAGTCACTCAACTT-T-GAAAATGTGACAA
1 AACAGTCACT-AACTTATCAAAAAT-TGACAA
*
11588724 AACAATCACTAACGTTATCAAAAATTGACAA
1 AACAGTCACTAAC-TTATCAAAAATTGACAA
11588755 AACAGTCACTAACT
1 AACAGTCACTAACT
11588769 CAACCTCCTC
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
29 3 0.08
30 12 0.31
31 19 0.49
32 5 0.13
ACGTcount: A:0.47, C:0.21, G:0.09, T:0.23
Consensus pattern (30 bp):
AACAGTCACTAACTTATCAAAAATTGACAA
Found at i:11589797 original size:12 final size:15
Alignment explanation
Indices: 11589764--11589793 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
11589754 ACCCTAAAAT
11589764 ATGTTGATATGGGTG
1 ATGTTGATATGGGTG
11589779 ATGTTGATATGGGTG
1 ATGTTGATATGGGTG
11589794 TTGAGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.00, G:0.40, T:0.40
Consensus pattern (15 bp):
ATGTTGATATGGGTG
Found at i:11598295 original size:30 final size:30
Alignment explanation
Indices: 11598259--11598319 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
11598249 CTACGTAATG
*
11598259 TATAGCTTTATCGGTACATTGCATCTTAGT
1 TATAGCTTTATCAGTACATTGCATCTTAGT
11598289 TATAGCTTTATCAGTACATTGCATCTTAGT
1 TATAGCTTTATCAGTACATTGCATCTTAGT
11598319 T
1 T
11598320 TCTCTGTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.25, C:0.16, G:0.15, T:0.44
Consensus pattern (30 bp):
TATAGCTTTATCAGTACATTGCATCTTAGT
Found at i:11599943 original size:40 final size:41
Alignment explanation
Indices: 11599899--11599986 Score: 142
Period size: 40 Copynumber: 2.2 Consensus size: 41
11599889 AGTAATCTTG
11599899 TTCTAAAAGTACATAGCATATTGACATGTTA-GTTTGCAAT
1 TTCTAAAAGTACATAGCATATTGACATGTTATGTTTGCAAT
* * *
11599939 TTCTAAATGTACATGGCATATTGACATGTTATTTTTGCAAT
1 TTCTAAAAGTACATAGCATATTGACATGTTATGTTTGCAAT
11599980 TTCTAAA
1 TTCTAAA
11599987 TTGCAGGATC
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
40 29 0.66
41 15 0.34
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (41 bp):
TTCTAAAAGTACATAGCATATTGACATGTTATGTTTGCAAT
Found at i:11600635 original size:23 final size:23
Alignment explanation
Indices: 11600609--11600657 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
11600599 TAGTGTATTA
11600609 ACACAAGGAAAAGCTTAATTACT
1 ACACAAGGAAAAGCTTAATTACT
11600632 ACACAAGGAAAAGCTTAATTACT
1 ACACAAGGAAAAGCTTAATTACT
11600655 ACA
1 ACA
11600658 TAAGTATTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.49, C:0.18, G:0.12, T:0.20
Consensus pattern (23 bp):
ACACAAGGAAAAGCTTAATTACT
Found at i:11604471 original size:3 final size:3
Alignment explanation
Indices: 11604465--11604499 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
11604455 AGAAGAAGAA
11604465 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
11604500 GGTGATGAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:11605637 original size:19 final size:18
Alignment explanation
Indices: 11605608--11605644 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
11605598 GGAGAATTTT
11605608 CTTTTTCTTTTACCTTTG
1 CTTTTTCTTTTACCTTTG
*
11605626 CTTTTTCGTTTTTCCTTTG
1 CTTTTTC-TTTTACCTTTG
11605645 TTGATGGCGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.03, C:0.22, G:0.08, T:0.68
Consensus pattern (18 bp):
CTTTTTCTTTTACCTTTG
Found at i:11606710 original size:17 final size:17
Alignment explanation
Indices: 11606688--11606724 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
11606678 TTTAATGTTG
* *
11606688 TTTTTATATTTTTTAAT
1 TTTTTAAATTTTTAAAT
11606705 TTTTTAAATTTTTAAAT
1 TTTTTAAATTTTTAAAT
11606722 TTT
1 TTT
11606725 AAAAAATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTTAAATTTTTAAAT
Found at i:11607569 original size:27 final size:28
Alignment explanation
Indices: 11607508--11607572 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 28
11607498 CCATGTTCGA
*
11607508 ATTTTAAAAATTGTTAATCTTTTATTTC
1 ATTTAAAAAATTGTTAATCTTTTATTTC
**
11607536 A-AAAAAAAATTGTTAATC-TTTATTAT-
1 ATTTAAAAAATTGTTAATCTTTTATT-TC
11607562 ATTTAAAAAAT
1 ATTTAAAAAAT
11607573 AAGTCATTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
26 7 0.23
27 22 0.73
28 1 0.03
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.48
Consensus pattern (28 bp):
ATTTAAAAAATTGTTAATCTTTTATTTC
Found at i:11614622 original size:4 final size:4
Alignment explanation
Indices: 11614613--11614644 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
11614603 AGCCTTGCAA
11614613 TATT TATT TATT TATT TATT TATT TATT TATT
1 TATT TATT TATT TATT TATT TATT TATT TATT
11614645 CACCAATACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TATT
Found at i:11623764 original size:31 final size:31
Alignment explanation
Indices: 11623726--11623805 Score: 99
Period size: 31 Copynumber: 2.6 Consensus size: 31
11623716 TTTTTAGTCC
11623726 AATTTGGTACTCAAACTTGACACGTTTTCCT
1 AATTTGGTACTCAAACTTGACACGTTTTCCT
* **
11623757 AATTTGGTAC-CTAAACTTGACACTTTTTTTT
1 AATTTGGTACTC-AAACTTGACACGTTTTCCT
* *
11623788 AAGTTGGTACTTAAACTT
1 AATTTGGTACTCAAACTT
11623806 TTTGGAGTCC
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
30 1 0.02
31 41 0.98
ACGTcount: A:0.28, C:0.17, G:0.12, T:0.42
Consensus pattern (31 bp):
AATTTGGTACTCAAACTTGACACGTTTTCCT
Found at i:11624124 original size:60 final size:60
Alignment explanation
Indices: 11624024--11624196 Score: 181
Period size: 60 Copynumber: 2.9 Consensus size: 60
11624014 AATTGAATCT
* * * * *
11624024 AAAAAAGAGTTTAGGTACTAAATTA-AAAAAAATGTCAAGTTTAGATACCAAATTGGGCC
1 AAAAAAAAGTTTAAGTACAAAATTAGAAAAAAATGTCAAGTTCAGATACCAAATTAGGCC
* * * * * * * * *
11624083 CAAAAAAAGTTTAAGTACCAAATTAGGAAAAAGTGTTAAGTTCGGGTATCAAATTAGGTC
1 AAAAAAAAGTTTAAGTACAAAATTAGAAAAAAATGTCAAGTTCAGATACCAAATTAGGCC
11624143 AAAAAAAAGTTT-AGATACAAAATTAGAAAAAAATGTCAAGTTCA-AGTACCAAAT
1 AAAAAAAAGTTTAAG-TACAAAATTAGAAAAAAATGTCAAGTTCAGA-TACCAAAT
11624197 GTTATATTAA
Statistics
Matches: 90, Mismatches: 21, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
59 23 0.26
60 67 0.74
ACGTcount: A:0.49, C:0.10, G:0.16, T:0.25
Consensus pattern (60 bp):
AAAAAAAAGTTTAAGTACAAAATTAGAAAAAAATGTCAAGTTCAGATACCAAATTAGGCC
Found at i:11627940 original size:15 final size:15
Alignment explanation
Indices: 11627906--11627956 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
11627896 TGTAAAGTAA
*
11627906 ATTCCTCAGTAATCAC
1 ATTCCT-AGCAATCAC
*
11627922 ATTCCTAGCAATCAT
1 ATTCCTAGCAATCAC
* *
11627937 ATTCCAAGGAATCAC
1 ATTCCTAGCAATCAC
11627952 ATTCC
1 ATTCC
11627957 ATTGGAATCA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
15 24 0.80
16 6 0.20
ACGTcount: A:0.33, C:0.29, G:0.08, T:0.29
Consensus pattern (15 bp):
ATTCCTAGCAATCAC
Found at i:11629746 original size:58 final size:56
Alignment explanation
Indices: 11629636--11629748 Score: 131
Period size: 58 Copynumber: 2.0 Consensus size: 56
11629626 TATCAAGCAC
* *
11629636 TAATTTAAACAAAAAAATCAATCTCTAAATATAGAAACAATTTCTAAGTTCAGATAT
1 TAATTTAAACAAAAAAATCAATCTC-AAATATAAAAACAATTTCTAAATTCAGATAT
* *
11629693 TAATTTGAACAAAAAAAATTCAAATCTC-AATATAAAAATAATTAT-TAAATTCAGAT
1 TAATTTAAAC-AAAAAAA-TC-AATCTCAAATATAAAAACAATT-TCTAAATTCAGAT
11629749 CATAAAAAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
57 9 0.19
58 30 0.62
59 3 0.06
60 6 0.12
ACGTcount: A:0.53, C:0.11, G:0.04, T:0.32
Consensus pattern (56 bp):
TAATTTAAACAAAAAAATCAATCTCAAATATAAAAACAATTTCTAAATTCAGATAT
Found at i:11629765 original size:25 final size:24
Alignment explanation
Indices: 11629703--11629765 Score: 60
Period size: 25 Copynumber: 2.6 Consensus size: 24
11629693 TAATTTGAAC
*
11629703 AAAAAA-AATTCAAATCTCAATAT
1 AAAAAATAATTTAAATCTCAATAT
11629726 -AAAAATAATTATTAAAT-TCAGATCAT
1 AAAAAATAA-T-TTAAATCTCA-AT-AT
11629752 AAAAAATAATTTAA
1 AAAAAATAATTTAA
11629766 CCCTGGTAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
22 5 0.15
23 2 0.06
24 4 0.12
25 11 0.33
26 3 0.09
27 8 0.24
ACGTcount: A:0.60, C:0.08, G:0.02, T:0.30
Consensus pattern (24 bp):
AAAAAATAATTTAAATCTCAATAT
Found at i:11639370 original size:16 final size:17
Alignment explanation
Indices: 11639333--11639378 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
11639323 TTAGAATTTT
11639333 ATAA-ATTAAAAA-ATA
1 ATAATATTAAAAATATA
*
11639348 ATTATATTAAAAATA-A
1 ATAATATTAAAAATATA
11639364 ATAATA-TAAAAATAT
1 ATAATATTAAAAATAT
11639379 TTAATAAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 11 0.42
16 14 0.54
17 1 0.04
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
ATAATATTAAAAATATA
Found at i:11639383 original size:15 final size:16
Alignment explanation
Indices: 11639341--11639384 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 16
11639331 TTATAAATTA
11639341 AAAAATAATT-ATATT
1 AAAAATAATTAATATT
*
11639356 AAAAATAAATAATA-T
1 AAAAATAATTAATATT
*
11639371 AAAAATATTTAATA
1 AAAAATAATTAATA
11639385 AGAATATCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 22 0.88
16 3 0.12
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
AAAAATAATTAATATT
Found at i:11644630 original size:21 final size:18
Alignment explanation
Indices: 11644606--11644657 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
11644596 AAAAAATCAT
*
11644606 TAAAAATATCTATAAAAATTG
1 TAAAAATAT-T-T-AAAATTA
11644627 TAAAAATATTTAAAATTA
1 TAAAAATATTTAAAATTA
11644645 TAAAAA-ATTTAAA
1 TAAAAATATTTAAA
11644658 TAACTGAACA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 7 0.23
18 12 0.40
19 1 0.03
20 1 0.03
21 9 0.30
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (18 bp):
TAAAAATATTTAAAATTA
Found at i:11651475 original size:3 final size:3
Alignment explanation
Indices: 11651467--11651497 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
11651457 GAATCCAATT
11651467 TTC TTC TTC TTC TTC TTC TTC TT- TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
11651498 TTTTCCTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TTC
Found at i:11651771 original size:18 final size:18
Alignment explanation
Indices: 11651748--11651782 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11651738 TATATTTTGA
*
11651748 ACTTATATAATGTATTGG
1 ACTTATATAATATATTGG
*
11651766 ACTTATCTAATATATTG
1 ACTTATATAATATATTG
11651783 AGTCTATAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.09, G:0.11, T:0.46
Consensus pattern (18 bp):
ACTTATATAATATATTGG
Found at i:11652532 original size:14 final size:13
Alignment explanation
Indices: 11652515--11652552 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
11652505 TCTTAAATTA
11652515 ATTTTTTTAAAAT
1 ATTTTTTTAAAAT
*
11652528 CATTTTTTCAAAAT
1 -ATTTTTTTAAAAT
11652542 A-TTTTTTAAAA
1 ATTTTTTTAAAA
11652553 GCTAACGTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 9 0.41
13 1 0.05
14 12 0.55
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.55
Consensus pattern (13 bp):
ATTTTTTTAAAAT
Found at i:11652535 original size:13 final size:12
Alignment explanation
Indices: 11652517--11652552 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 12
11652507 TTAAATTAAT
11652517 TTTTTTAAAATCA
1 TTTTTTAAAAT-A
11652530 TTTTTTCAAAATA
1 TTTTTT-AAAATA
11652543 TTTTTTAAAA
1 TTTTTTAAAA
11652553 GCTAACGTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 4 0.18
13 13 0.59
14 5 0.23
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.56
Consensus pattern (12 bp):
TTTTTTAAAATA
Found at i:11654044 original size:12 final size:12
Alignment explanation
Indices: 11654027--11654056 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
11654017 TACAAATTTG
11654027 TTTCTTTCACCA
1 TTTCTTTCACCA
11654039 TTTCTTTCACCA
1 TTTCTTTCACCA
11654051 TTTCTT
1 TTTCTT
11654057 CCTTACGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.13, C:0.30, G:0.00, T:0.57
Consensus pattern (12 bp):
TTTCTTTCACCA
Found at i:11655506 original size:23 final size:23
Alignment explanation
Indices: 11655432--11655649 Score: 159
Period size: 23 Copynumber: 9.7 Consensus size: 23
11655422 TAAACGGAAC
* * *
11655432 AAACAGAGAGTAC-CGAAGTACT
1 AAACAGAGAGCACACAAAGTGCT
* *
11655454 GAACAGAGAGCACA-TAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
*
11655476 GGGCAACAGAGAGCACACAAAGTGCT
1 ---AAACAGAGAGCACACAAAGTGCT
*
11655502 AAACAGAGAGTACACAAA--G-T
1 AAACAGAGAGCACACAAAGTGCT
*
11655522 --AC--TGAGCACACAAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
11655541 AATCAGAGAGCACACGAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* * *
11655564 AATCGGAGAGCACACACAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
11655587 AATAACAGAGAGCACGA-GACGTGCT
1 -A-AACAGAGAGCAC-ACAAAGTGCT
*
11655612 AAACAGAGAGCACACACAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
*
11655635 AATCAGAGAGCACAC
1 AAACAGAGAGCACAC
11655650 TAGTGTTCCT
Statistics
Matches: 155, Mismatches: 25, Indels: 31
0.73 0.12 0.15
Matches are distributed among these distances:
16 10 0.06
18 3 0.02
19 1 0.01
20 1 0.01
21 2 0.01
22 18 0.12
23 82 0.53
24 2 0.01
25 28 0.18
26 8 0.05
ACGTcount: A:0.42, C:0.22, G:0.25, T:0.11
Consensus pattern (23 bp):
AAACAGAGAGCACACAAAGTGCT
Found at i:11655511 original size:48 final size:44
Alignment explanation
Indices: 11655433--11655648 Score: 165
Period size: 48 Copynumber: 4.8 Consensus size: 44
11655423 AAACGGAACA
* * * * *
11655433 AACAGAGAGTAC-CGAAGTACTGAACAGAGAGCACATAAGTGCT
1 AACAGAGAGCACACAAAGTGCTAAACAGAGAGCACAGAAGTGCT
* * *
11655476 GGGCAACAGAGAGCACACAAAGTGCTAAACAGAGAGTACACAA-AG-T
1 ----AACAGAGAGCACACAAAGTGCTAAACAGAGAGCACAGAAGTGCT
* *
11655522 -AC--TGAGCACACAAAGTGCTAATCAGAGAGCACACGAAGTGCT
1 AACAGAGAGCACACAAAGTGCTAAACAGAGAGCACA-GAAGTGCT
* * *
11655564 AATCGGAGAGCACACACAGTGCTAATAACAGAGAGCACGAGACGTGCT
1 AA-CAGAGAGCACACAAAGTGCT-A-AACAGAGAGCAC-AGAAGTGCT
* *
11655612 AAACAGAGAGCACACACAGTGCTAATCAGAGAGCACA
1 -AACAGAGAGCACACAAAGTGCTAAACAGAGAGCACA
11655649 CTAGTGTTCC
Statistics
Matches: 139, Mismatches: 18, Indels: 26
0.76 0.10 0.14
Matches are distributed among these distances:
39 28 0.20
40 2 0.01
41 3 0.02
42 1 0.01
43 1 0.01
44 1 0.01
45 1 0.01
46 27 0.19
47 14 0.10
48 58 0.42
49 3 0.02
ACGTcount: A:0.42, C:0.22, G:0.25, T:0.12
Consensus pattern (44 bp):
AACAGAGAGCACACAAAGTGCTAAACAGAGAGCACAGAAGTGCT
Found at i:11655540 original size:39 final size:39
Alignment explanation
Indices: 11655486--11655560 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
11655476 GGGCAACAGA
*
11655486 GAGCACACAAAGTGCTAAACAGAGAGTACACAAAGTACT
1 GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGTACT
* *
11655525 GAGCACACAAAGTGCTAATCAGAGAGCACACGAAGT
1 GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGT
11655561 GCTAATCGGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.12
Consensus pattern (39 bp):
GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGTACT
Found at i:11658455 original size:60 final size:60
Alignment explanation
Indices: 11658250--11658688 Score: 515
Period size: 60 Copynumber: 7.3 Consensus size: 60
11658240 AACAATTGCA
* * * **
11658250 TTTTTGGGTGTTGGCCATTGC-ATGGTC-ACACCCCCTATTTC-C-AAAAAAAAATT-GTAT
1 TTTTTTGGTGTTGGCCA-TGCAATGGCCGACACCCCCT-TTTCTCGAGAAAAAAATTCAAAT
* *
11658307 TTTTTGGGTGTTGGCCATTGC-ATGGCTGACACCCCCTATTTCTCGAGAAAAAAAATTTCAAAT
1 TTTTTTGGTGTTGGCCA-TGCAATGGCCGACACCCCCT-TTTCTCGAG-AAAAAAA-TTCAAAT
11658370 TTTTTTGGTGTTGGCCATTGC-ATGGCCGACACCCCCTTTTCTCGAGAAAAAAATTCAAAT
1 TTTTTTGGTGTTGGCCA-TGCAATGGCCGACACCCCCTTTTCTCGAGAAAAAAATTCAAAT
* * *
11658430 TTTTTTGGTGTTGGCCATGCAATGGCTGACACTCCCTTTTCTCGAGAAAAAAAAATTTAAAT
1 TTTTTTGGTGTTGGCCATGCAATGGCCGACACCCCCTTTTCTCGAG--AAAAAAATTCAAAT
* *
11658492 TTTTTTGGTGTTGGCCAT-CAAATGGCTGACACCCCCTGTTCTCGAGAAAAAAA-TC-AAT
1 TTTTTTGGTGTTGGCCATGC-AATGGCCGACACCCCCTTTTCTCGAGAAAAAAATTCAAAT
* *
11658550 TTTTTTTGTGTTGGCCAT-CAAATGGCCGACACCCCCTGTTCTCGAGAAAAAAATTCAAAT
1 TTTTTTGGTGTTGGCCATGC-AATGGCCGACACCCCCTTTTCTCGAGAAAAAAATTCAAAT
* * * *
11658610 TTTTTTGGTGTTGGCCAT-CAAATGGCAGACATCCCCTGTTCTCGAGAAAAAAAATTTAAAT
1 TTTTTTGGTGTTGGCCATGC-AATGGCCGACACCCCCTTTTCTCGAG-AAAAAAATTCAAAT
11658671 TTTTTTGGTGTTGGCCAT
1 TTTTTTGGTGTTGGCCAT
11658689 TTTCCTCGGA
Statistics
Matches: 350, Mismatches: 19, Indels: 22
0.90 0.05 0.06
Matches are distributed among these distances:
57 25 0.07
58 68 0.19
59 7 0.02
60 101 0.29
61 46 0.13
62 66 0.19
63 37 0.11
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (60 bp):
TTTTTTGGTGTTGGCCATGCAATGGCCGACACCCCCTTTTCTCGAGAAAAAAATTCAAAT
Found at i:11658581 original size:180 final size:184
Alignment explanation
Indices: 11658292--11658688 Score: 587
Period size: 180 Copynumber: 2.2 Consensus size: 184
11658282 CCCTATTTCC
* *** *
11658292 AAAAAAAAATTGT--ATTTTTTGGGTGTTGGCCATTGCATGGCTGACACCCCCTATTTCTCGAGA
1 AAAAAAAAATT-TAAATTTTTTTGGTGTTGGCCATCAAATGGCTGACACCCCCTAGTTCTCGAGA
*** *
11658355 AAAAAAATTTCAAATTTTTTTGGTGTTGGCCATTGCATGGCCGACACCCCCTTTTCTCGAGAAAA
65 AAAAAAA-TTCAAATTTTTTTGGTGTTGGCCATCAAATGGCCGACACCCCCTGTTCTCGAGAAAA
* *
11658420 AAATTCAAATTTTTTTGGTGTTGGCCATGC-AATGGCTGACA-CTCCCTTTTCTCGAG
129 AAATTCAAATTTTTTTGGTGTTGGCCAT-CAAATGGCAGACATC-CCCTGTTCTCGAG
11658476 AAAAAAAAATTTAAATTTTTTTGGTGTTGGCCATCAAATGGCTGACACCCCCT-GTTCTCGAG-A
1 AAAAAAAAATTTAAATTTTTTTGGTGTTGGCCATCAAATGGCTGACACCCCCTAGTTCTCGAGAA
*
11658539 AAAAAA-TC-AATTTTTTTTGTGTTGGCCATCAAATGGCCGACACCCCCTGTTCTCGAGAAAAAA
66 AAAAAATTCAAATTTTTTTGGTGTTGGCCATCAAATGGCCGACACCCCCTGTTCTCGAGAAAAAA
11658602 ATTCAAATTTTTTTGGTGTTGGCCATCAAATGGCAGACATCCCCTGTTCTCGAG
131 ATTCAAATTTTTTTGGTGTTGGCCATCAAATGGCAGACATCCCCTGTTCTCGAG
11658656 -AAAAAAAATTTAAATTTTTTTGGTGTTGGCCAT
1 AAAAAAAAATTTAAATTTTTTTGGTGTTGGCCAT
11658689 TTTCCTCGGA
Statistics
Matches: 197, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
179 34 0.17
180 98 0.50
181 3 0.02
183 8 0.04
184 19 0.10
185 35 0.18
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (184 bp):
AAAAAAAAATTTAAATTTTTTTGGTGTTGGCCATCAAATGGCTGACACCCCCTAGTTCTCGAGAA
AAAAAATTCAAATTTTTTTGGTGTTGGCCATCAAATGGCCGACACCCCCTGTTCTCGAGAAAAAA
ATTCAAATTTTTTTGGTGTTGGCCATCAAATGGCAGACATCCCCTGTTCTCGAG
Found at i:11659616 original size:30 final size:30
Alignment explanation
Indices: 11659556--11659647 Score: 98
Period size: 30 Copynumber: 3.1 Consensus size: 30
11659546 TAATAATTAG
* * ** *
11659556 AATATACATGAAATTAGAAAGAAAAATTAA
1 AATATACAAGAAATTCGAAATTAAATTTAA
11659586 AATATACAAGAAATTCGAAATTAAATTTAA
1 AATATACAAGAAATTCGAAATTAAATTTAA
*
11659616 AATA-AAAACGAAATTAC-AAATTAAATTTAA
1 AATATACAA-GAAATT-CGAAATTAAATTTAA
11659646 AA
1 AA
11659648 AGTAAAGGGA
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
29 3 0.06
30 50 0.93
31 1 0.02
ACGTcount: A:0.62, C:0.05, G:0.07, T:0.26
Consensus pattern (30 bp):
AATATACAAGAAATTCGAAATTAAATTTAA
Found at i:11660620 original size:60 final size:60
Alignment explanation
Indices: 11660505--11660618 Score: 189
Period size: 59 Copynumber: 1.9 Consensus size: 60
11660495 TTTTTCTCGA
*
11660505 GAAATAGAGGGTGTCAGGCCATGCAATGGCCAACACCCAAAAAATATAATTTTTTTGGGG
1 GAAATAGAGGGTGTCAGGCCATGCAATGGCCAACACCCAAAAAATACAATTTTTTTGGGG
11660565 GAAATA-AGAGGTGTC-GGCCATGCAATGGCCAACACCC-AAAAATACAATTTTTTT
1 GAAATAGAG-GGTGTCAGGCCATGCAATGGCCAACACCCAAAAAATACAATTTTTTT
11660619 TTTGAAATAG
Statistics
Matches: 52, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
58 16 0.31
59 24 0.46
60 12 0.23
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (60 bp):
GAAATAGAGGGTGTCAGGCCATGCAATGGCCAACACCCAAAAAATACAATTTTTTTGGGG
Found at i:11661127 original size:11 final size:11
Alignment explanation
Indices: 11661111--11661155 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
11661101 TAACCATTTA
11661111 TAATAAAATAT
1 TAATAAAATAT
*
11661122 TAATAACATATCT
1 TAATAA-A-ATAT
*
11661135 TATTAAAATAT
1 TAATAAAATAT
11661146 TAATAAAATA
1 TAATAAAATA
11661156 ATATTATCTA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
11 18 0.64
12 2 0.07
13 8 0.29
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (11 bp):
TAATAAAATAT
Found at i:11662178 original size:56 final size:56
Alignment explanation
Indices: 11662117--11662229 Score: 190
Period size: 56 Copynumber: 2.0 Consensus size: 56
11662107 AAGAATACTT
*
11662117 TATTTACATCTTTCTCTACACTTTCACATTTTATTCAATTTAAACTTACTTCCTAA
1 TATTTACATCTTTCTCTACACTTTCACATTTTATTCAATTTAAACTCACTTCCTAA
* * *
11662173 TATTTACATGTTTCTCTACACTTTCACATTTTATTCAATTTAGACTCACTTCTTAA
1 TATTTACATCTTTCTCTACACTTTCACATTTTATTCAATTTAAACTCACTTCCTAA
11662229 T
1 T
11662230 TTGTCCTGTA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.27, C:0.22, G:0.02, T:0.49
Consensus pattern (56 bp):
TATTTACATCTTTCTCTACACTTTCACATTTTATTCAATTTAAACTCACTTCCTAA
Found at i:11662957 original size:9 final size:9
Alignment explanation
Indices: 11662942--11663000 Score: 50
Period size: 9 Copynumber: 6.3 Consensus size: 9
11662932 ACAGCCTGAC
11662942 AAATTAAAA
1 AAATTAAAA
*
11662951 TAATTAAAA
1 AAATTAAAA
11662960 AAATT-AAA
1 AAATTAAAA
11662968 AAATGTAAACA
1 AAAT-TAAA-A
*
11662979 AATATT-TAA
1 AA-ATTAAAA
11662988 AAATTATAAA
1 AAATTA-AAA
11662998 AAA
1 AAA
11663001 AAACCCAAGA
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
8 10 0.25
9 16 0.40
10 8 0.20
11 4 0.10
12 2 0.05
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (9 bp):
AAATTAAAA
Found at i:11662965 original size:18 final size:17
Alignment explanation
Indices: 11662942--11663000 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 17
11662932 ACAGCCTGAC
11662942 AAATTAAAATAATTAAAA
1 AAATTAAAA-AATTAAAA
11662960 AAATTAAAAAATGTAAACA
1 AAATTAAAAAAT-TAAA-A
*
11662979 AATATTTAAAAATTATAAA
1 AA-ATTAAAAAATTA-AAA
11662998 AAA
1 AAA
11663001 AAACCCAAGA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
17 3 0.08
18 14 0.39
19 8 0.22
20 11 0.31
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (17 bp):
AAATTAAAAAATTAAAA
Found at i:11663002 original size:188 final size:187
Alignment explanation
Indices: 11662575--11663114 Score: 784
Period size: 187 Copynumber: 2.9 Consensus size: 187
11662565 AAATATTTAA
*
11662575 AATTATAAAAAATTAAAAAAACTGTAAACAAATATTTAAAAATTAT-AAAAAAAACTCAAGATCC
1 AATTA-AAAAAATT-AAAAAA-TGTAAACAAATATTTAAAAATTATAAAAAAAAACCCAAGATCC
* * * *
11662639 AAGCCTAAAACTTAGCAAATTTTATTGAAATAGCTCAACAACTAAACAAAAATCCACATTCGCGT
63 AAGCCTAAAACTTGGCAAATTTTATTGAAATAGCT---CAACTAAACAAAAATCCGCGTCCGCGT
* * *
11662704 TTTCAAGTAATTT-CCCAGTAATTATTAAACAAAAAAAAAAAAAAAACTTAGCAAATTTAAAT
125 TTACAAGTAATTTCCCCAGTAATTATTAAACAAAAAAAAAAAAAAAACTGAGCAAATTAAAAT
* *
11662766 AACTGAAAAAATTAAAAAAT-TAAACAAATATTTAAAAATTATAAAAAAAAACCCAAGATCCAAG
1 AATTAAAAAAATTAAAAAATGTAAACAAATATTTAAAAATTATAAAAAAAAACCCAAGATCCAAG
* * * *
11662830 CCTAAAACATGGCAGATTTTATTGAAATAGCTCAACTAAACAAAAATCCGTGTCCACGTTTACAA
66 CCTAAAACTTGGCAAATTTTATTGAAATAGCTCAACTAAACAAAAATCCGCGTCCGCGTTTACAA
* * **
11662895 GTAATTTCCCCAATAA-TATTAAACAAAAAAAAATTAAACAGCCTGA-CAAATTAAAAT
131 GTAATTTCCCCAGTAATTATTAAACAAAAAAAAA--AAAAAAACTGAGCAAATTAAAAT
11662952 AATTAAAAAAATTAAAAAATGTAAACAAATATTTAAAAATTATAAAAAAAAACCCAAGATCCAAG
1 AATTAAAAAAATTAAAAAATGTAAACAAATATTTAAAAATTATAAAAAAAAACCCAAGATCCAAG
* *
11663017 CCTAAAACTTGGCAAATTTTATTGAAATTGCTCAAATAAACAAAAATCCGCGTCCGCGTTTACAA
66 CCTAAAACTTGGCAAATTTTATTGAAATAGCTCAACTAAACAAAAATCCGCGTCCGCGTTTACAA
*
11663082 GTAATATCCCCAGTAATTATTAAACAAAAAAAA
131 GTAATTTCCCCAGTAATTATTAAACAAAAAAAA
11663115 CGAAACAGCT
Statistics
Matches: 315, Mismatches: 28, Indels: 15
0.88 0.08 0.04
Matches are distributed among these distances:
185 51 0.16
186 35 0.11
187 146 0.46
188 66 0.21
189 6 0.02
190 8 0.03
191 3 0.01
ACGTcount: A:0.53, C:0.15, G:0.07, T:0.25
Consensus pattern (187 bp):
AATTAAAAAAATTAAAAAATGTAAACAAATATTTAAAAATTATAAAAAAAAACCCAAGATCCAAG
CCTAAAACTTGGCAAATTTTATTGAAATAGCTCAACTAAACAAAAATCCGCGTCCGCGTTTACAA
GTAATTTCCCCAGTAATTATTAAACAAAAAAAAAAAAAAAACTGAGCAAATTAAAAT
Found at i:11666373 original size:7 final size:7
Alignment explanation
Indices: 11666361--11667595 Score: 1434
Period size: 7 Copynumber: 181.1 Consensus size: 7
11666351 CTCTTTATAT
11666361 GTTTTCG
1 GTTTTCG
11666368 GTTTTCG
1 GTTTTCG
11666375 GTTTTCG
1 GTTTTCG
*
11666382 GGTTTCG
1 GTTTTCG
*
11666389 GGTTTCG
1 GTTTTCG
*
11666396 GGTTTCG
1 GTTTTCG
*
11666403 GGTTTCG
1 GTTTTCG
11666410 GTTTTCG
1 GTTTTCG
11666417 G-TTTCG
1 GTTTTCG
*
11666423 GGTTTCG
1 GTTTTCG
*
11666430 GGTTTCGG
1 GTTTTC-G
11666438 GTTTTCG
1 GTTTTCG
*
11666445 GGTTTCG
1 GTTTTCG
11666452 G-TTTCG
1 GTTTTCG
*
11666458 GGTTTCG
1 GTTTTCG
*
11666465 GGTTTCG
1 GTTTTCG
*
11666472 GGTTTCG
1 GTTTTCG
*
11666479 GGTTTCG
1 GTTTTCG
*
11666486 GGTTTCG
1 GTTTTCG
*
11666493 GGTTTCG
1 GTTTTCG
*
11666500 GGTTTCG
1 GTTTTCG
11666507 G-TTTCG
1 GTTTTCG
11666513 G-TTTCG
1 GTTTTCG
*
11666519 GGTTTCG
1 GTTTTCG
*
11666526 GGTTTCG
1 GTTTTCG
*
11666533 GGTTTCG
1 GTTTTCG
11666540 G-TTTCG
1 GTTTTCG
*
11666546 GGTTTCG
1 GTTTTCG
*
11666553 GGTTTCG
1 GTTTTCG
*
11666560 GGTTTCG
1 GTTTTCG
11666567 G-TTTCG
1 GTTTTCG
*
11666573 GGTTTCG
1 GTTTTCG
11666580 G-TTTCG
1 GTTTTCG
*
11666586 GGTTTCG
1 GTTTTCG
*
11666593 GGTTTCG
1 GTTTTCG
11666600 G-TTTCG
1 GTTTTCG
*
11666606 GGTTTCG
1 GTTTTCG
*
11666613 GGTTTCG
1 GTTTTCG
*
11666620 GGTTTCG
1 GTTTTCG
*
11666627 G-GTTCG
1 GTTTTCG
*
11666633 GGTTTCG
1 GTTTTCG
11666640 G-TTTCG
1 GTTTTCG
11666646 G--TTCG
1 GTTTTCG
*
11666651 GGTTTCG
1 GTTTTCG
*
11666658 G-GTTCG
1 GTTTTCG
*
11666664 GGTTTCG
1 GTTTTCG
*
11666671 GGTTTCG
1 GTTTTCG
*
11666678 GGTTTCG
1 GTTTTCG
11666685 G-TTTCG
1 GTTTTCG
*
11666691 GGTTTCG
1 GTTTTCG
*
11666698 GGTTTCG
1 GTTTTCG
*
11666705 GGTTTCG
1 GTTTTCG
*
11666712 GGTTTCG
1 GTTTTCG
*
11666719 GGTTTCG
1 GTTTTCG
11666726 G-TTTCG
1 GTTTTCG
*
11666732 GGTTTCG
1 GTTTTCG
*
11666739 G-GTTCG
1 GTTTTCG
*
11666745 GGTTTCG
1 GTTTTCG
*
11666752 GGTTTCGG
1 GTTTTC-G
11666760 GTTTTCGG
1 GTTTTC-G
*
11666768 GGTTTCG
1 GTTTTCG
*
11666775 GGTTTCG
1 GTTTTCG
*
11666782 GGTTTCG
1 GTTTTCG
*
11666789 GGTTTCG
1 GTTTTCG
*
11666796 GGTTTCG
1 GTTTTCG
*
11666803 GGTTTCG
1 GTTTTCG
*
11666810 GGTTTCG
1 GTTTTCG
*
11666817 GGTTTC-
1 GTTTTCG
11666823 GTTTTCG
1 GTTTTCG
*
11666830 GGTTTCG
1 GTTTTCG
11666837 G-TTTCG
1 GTTTTCG
*
11666843 GGTTTCGG
1 GTTTTC-G
*
11666851 GGTTTCG
1 GTTTTCG
*
11666858 GGTTTCG
1 GTTTTCG
11666865 G-TTTCGG
1 GTTTTC-G
11666872 GTTTTCG
1 GTTTTCG
*
11666879 GGTTTCGG
1 GTTTTC-G
11666887 GTTTTCG
1 GTTTTCG
*
11666894 GGTTTCG
1 GTTTTCG
*
11666901 G--GTCG
1 GTTTTCG
11666906 GTTTTC-
1 GTTTTCG
11666912 G-TTTCG
1 GTTTTCG
11666918 GTTTTCG
1 GTTTTCG
11666925 GTTTTCG
1 GTTTTCG
11666932 GTTTTCG
1 GTTTTCG
11666939 G-TTTCG
1 GTTTTCG
11666945 GTTTTCG
1 GTTTTCG
11666952 GTTTTCG
1 GTTTTCG
11666959 GTTTTCG
1 GTTTTCG
11666966 GTTTTTCG
1 G-TTTTCG
11666974 GTTTTCG
1 GTTTTCG
11666981 GTTTTCG
1 GTTTTCG
11666988 G-TTTCG
1 GTTTTCG
11666994 GTTTTCG
1 GTTTTCG
11667001 GTTTTCG
1 GTTTTCG
11667008 GTTTTCG
1 GTTTTCG
11667015 GTTTTTCG
1 G-TTTTCG
11667023 GTTTTCG
1 GTTTTCG
11667030 GTTTTCG
1 GTTTTCG
11667037 GTTTTCG
1 GTTTTCG
11667044 GTTTTTCG
1 G-TTTTCG
11667052 G-TTTCG
1 GTTTTCG
11667058 G-TTTCG
1 GTTTTCG
11667064 GTTTTCG
1 GTTTTCG
11667071 GTTTTCG
1 GTTTTCG
11667078 GTTTTCG
1 GTTTTCG
11667085 GTTTTCG
1 GTTTTCG
11667092 GTTTTCG
1 GTTTTCG
11667099 GTTTTCG
1 GTTTTCG
11667106 G--TTCG
1 GTTTTCG
11667111 GTTTTCG
1 GTTTTCG
11667118 GTTTTCG
1 GTTTTCG
11667125 GTTTTTCG
1 G-TTTTCG
11667133 G-TTTCG
1 GTTTTCG
11667139 GTTTTC-
1 GTTTTCG
11667145 G-TTTCG
1 GTTTTCG
*
11667151 TTTTTCG
1 GTTTTCG
11667158 G-TTTC-
1 GTTTTCG
11667163 GTTTTC-
1 GTTTTCG
11667169 GTTTTCG
1 GTTTTCG
11667176 GTTTTCG
1 GTTTTCG
11667183 GTTTTCG
1 GTTTTCG
11667190 GTTTTCG
1 GTTTTCG
11667197 GTTTTCG
1 GTTTTCG
11667204 GTTTTCG
1 GTTTTCG
11667211 GTTTTCG
1 GTTTTCG
11667218 GTTTTCG
1 GTTTTCG
11667225 GTTTTCG
1 GTTTTCG
11667232 G-TTTCG
1 GTTTTCG
11667238 GTTTTTC-
1 G-TTTTCG
11667245 G-TTTCG
1 GTTTTCG
11667251 GTTTTC-
1 GTTTTCG
11667257 GTTTTCG
1 GTTTTCG
11667264 GTTTTCG
1 GTTTTCG
11667271 GTTTTCG
1 GTTTTCG
11667278 GTTTTTCG
1 G-TTTTCG
11667286 GTTTTCG
1 GTTTTCG
11667293 GTTTTCG
1 GTTTTCG
11667300 GTTTTCG
1 GTTTTCG
11667307 GTTTTCG
1 GTTTTCG
11667314 GTTTTCG
1 GTTTTCG
11667321 GTTTTCG
1 GTTTTCG
11667328 GTTTTCG
1 GTTTTCG
11667335 GTTTTCG
1 GTTTTCG
*
11667342 TTTTTCG
1 GTTTTCG
11667349 GTTTTCG
1 GTTTTCG
11667356 GTTTTCG
1 GTTTTCG
11667363 GTTTTCG
1 GTTTTCG
11667370 GTTTTTCG
1 G-TTTTCG
11667378 GTTTTTCG
1 G-TTTTCG
11667386 GTTTTCG
1 GTTTTCG
11667393 G-TTTCG
1 GTTTTCG
11667399 G-TTTCG
1 GTTTTCG
11667405 GTTTTCG
1 GTTTTCG
11667412 GTTTTTCG
1 G-TTTTCG
11667420 GTTTTCG
1 GTTTTCG
11667427 GTTTTCG
1 GTTTTCG
11667434 GTTTTCG
1 GTTTTCG
*
11667441 TTTTTCG
1 GTTTTCG
11667448 GTTTTCG
1 GTTTTCG
11667455 GTTTTCG
1 GTTTTCG
11667462 GTTTTCG
1 GTTTTCG
11667469 GTTTTCG
1 GTTTTCG
11667476 GTTTTC-
1 GTTTTCG
11667482 GTTTTCG
1 GTTTTCG
11667489 G-TTTCG
1 GTTTTCG
11667495 GTTTTCG
1 GTTTTCG
11667502 G-TTTCG
1 GTTTTCG
11667508 G--TTCG
1 GTTTTCG
*
11667513 GGTTTCG
1 GTTTTCG
11667520 GTTTTCG
1 GTTTTCG
11667527 G-TTTCG
1 GTTTTCG
11667533 GTTTTCG
1 GTTTTCG
11667540 G-TTTCG
1 GTTTTCG
11667546 GTTTTCG
1 GTTTTCG
11667553 GTTTTCG
1 GTTTTCG
11667560 G-TTTCG
1 GTTTTCG
11667566 GTTTTCG
1 GTTTTCG
11667573 GTTTTCG
1 GTTTTCG
11667580 GTTTTTCG
1 G-TTTTCG
11667588 GTTTTCG
1 GTTTTCG
11667595 G
1 G
11667596 ATCTAGGGTT
Statistics
Matches: 1145, Mismatches: 26, Indels: 114
0.89 0.02 0.09
Matches are distributed among these distances:
5 32 0.03
6 204 0.18
7 805 0.70
8 104 0.09
ACGTcount: A:0.00, C:0.15, G:0.34, T:0.52
Consensus pattern (7 bp):
GTTTTCG
Found at i:11667788 original size:7 final size:7
Alignment explanation
Indices: 11667769--11668070 Score: 168
Period size: 7 Copynumber: 43.1 Consensus size: 7
11667759 GTTTCGAATC
11667769 TAGGGTT
1 TAGGGTT
* *
11667776 TCGGGTC
1 TAGGGTT
11667783 TAGGGTT
1 TAGGGTT
* *
11667790 TCGGGTC
1 TAGGGTT
11667797 TAGGGTT
1 TAGGGTT
11667804 TAGGGTT
1 TAGGGTT
*
11667811 TCGGGTT
1 TAGGGTT
11667818 TAGGGTT
1 TAGGGTT
11667825 TAGGGTT
1 TAGGGTT
11667832 TCA-GGTT
1 T-AGGGTT
*
11667839 TCGGGTT
1 TAGGGTT
*
11667846 TATGGTT
1 TAGGGTT
*
11667853 TTGGGTT
1 TAGGGTT
*
11667860 TCGGGTT
1 TAGGGTT
*
11667867 TCGGGTT
1 TAGGGTT
11667874 TAGGGTTT
1 TAGGG-TT
*
11667882 TA-GATT
1 TAGGGTT
*
11667888 TAAGGTT
1 TAGGGTT
* *
11667895 TCGAGTT
1 TAGGGTT
11667902 TAGGGTT
1 TAGGGTT
* *
11667909 TTGGATT
1 TAGGGTT
* *
11667916 TCGGATT
1 TAGGGTT
11667923 TAGGGTT
1 TAGGGTT
*
11667930 TCA-AGTT
1 T-AGGGTT
*
11667937 TCA-GATT
1 T-AGGGTT
11667944 TAGGGTT
1 TAGGGTT
11667951 TAGGGTT
1 TAGGGTT
11667958 TAGGGTTT
1 TAGGG-TT
*
11667966 TA-GATT
1 TAGGGTT
11667972 TAGGGTT
1 TAGGGTT
* *
11667979 TTGGATT
1 TAGGGTT
11667986 TA-GGTT
1 TAGGGTT
* *
11667992 TTGGATT
1 TAGGGTT
11667999 TAGGGTT
1 TAGGGTT
*
11668006 TCAAGGTT
1 T-AGGGTT
* *
11668014 TTGGTTT
1 TAGGGTT
*
11668021 TAGAGTT
1 TAGGGTT
**
11668028 TCA-ATTT
1 T-AGGGTT
*
11668035 TAAGGTT
1 TAGGGTT
* *
11668042 TTGGTTT
1 TAGGGTT
11668049 TAGGGTT
1 TAGGGTT
* *
11668056 TCGGTTT
1 TAGGGTT
11668063 TAGGGTT
1 TAGGGTT
11668070 T
1 T
11668071 CGGTTTCGAT
Statistics
Matches: 221, Mismatches: 62, Indels: 24
0.72 0.20 0.08
Matches are distributed among these distances:
6 14 0.06
7 190 0.86
8 17 0.08
ACGTcount: A:0.14, C:0.05, G:0.34, T:0.47
Consensus pattern (7 bp):
TAGGGTT
Found at i:11667802 original size:21 final size:21
Alignment explanation
Indices: 11667657--11667963 Score: 123
Period size: 21 Copynumber: 14.6 Consensus size: 21
11667647 GTTTCAGATC
*
11667657 TAGGGTTTCGGATCTAGGGTT
1 TAGGGTTTCGGGTCTAGGGTT
* * * * * * * *
11667678 TCGGATCTAGGGTTTCGGATC
1 TAGGGTTTCGGGTCTAGGGTT
*
11667699 TAGGGTTTCGGATCTAGGGTT
1 TAGGGTTTCGGGTCTAGGGTT
* * * * * * *
11667720 TCGGATCTAGGGTTTCGGGTC
1 TAGGGTTTCGGGTCTAGGGTT
* *
11667741 TAGGGTTTCGGATCTATGGTT
1 TAGGGTTTCGGGTCTAGGGTT
* ** * * * * *
11667762 TCGAATCTAGGGTTTCGGGTC
1 TAGGGTTTCGGGTCTAGGGTT
11667783 TAGGGTTTCGGGTCTAGGGTT
1 TAGGGTTTCGGGTCTAGGGTT
*
11667804 TAGGGTTTCGGGTTTAGGGTT
1 TAGGGTTTCGGGTCTAGGGTT
* * *
11667825 TAGGGTTTCAGGTTTCGGGTT
1 TAGGGTTTCGGGTCTAGGGTT
* * * *
11667846 TATGGTTTTGGGTTTCGGGTT
1 TAGGGTTTCGGGTCTAGGGTT
* * * *
11667867 TCGGGTTTAGGGTTTTA-GATT
1 TAGGGTTTCGGG-TCTAGGGTT
* * *
11667888 TAAGGTTTCGAGTTTAGGGTT
1 TAGGGTTTCGGGTCTAGGGTT
* * * *
11667909 TTGGATTTCGGATTTAGGGTT
1 TAGGGTTTCGGGTCTAGGGTT
* * * *
11667930 TCA-AGTTTCAGATTTAGGGTT
1 T-AGGGTTTCGGGTCTAGGGTT
*
11667951 TAGGGTTTAGGGT
1 TAGGGTTTCGGGT
11667964 TTTAGATTTA
Statistics
Matches: 200, Mismatches: 82, Indels: 8
0.69 0.28 0.03
Matches are distributed among these distances:
20 5 0.03
21 192 0.96
22 3 0.01
ACGTcount: A:0.13, C:0.09, G:0.36, T:0.41
Consensus pattern (21 bp):
TAGGGTTTCGGGTCTAGGGTT
Found at i:11667816 original size:14 final size:14
Alignment explanation
Indices: 11666363--11667965 Score: 1261
Period size: 14 Copynumber: 116.7 Consensus size: 14
11666353 CTTTATATGT
* *
11666363 TTTCGGTTTTCGGT
1 TTTCGGGTTTCGGG
11666377 TTTCGGGTTTCGGG
1 TTTCGGGTTTCGGG
11666391 TTTCGGGTTTCGGG
1 TTTCGGGTTTCGGG
*
11666405 TTTCGGTTTTC-GG
1 TTTCGGGTTTCGGG
11666418 TTTCGGGTTTCGGG
1 TTTCGGGTTTCGGG
11666432 TTTCGGGTTTTCGGG
1 TTTCGGG-TTTCGGG
11666447 TTTC-GGTTTCGGG
1 TTTCGGGTTTCGGG
11666460 TTTCGGGTTTCGGG
1 TTTCGGGTTTCGGG
11666474 TTTCGGGTTTCGGG
1 TTTCGGGTTTCGGG
11666488 TTTCGGGTTTCGGG
1 TTTCGGGTTTCGGG
11666502 TTTC-GGTTTC-GG
1 TTTCGGGTTTCGGG
11666514 TTTCGGGTTTCGGG
1 TTTCGGGTTTCGGG
11666528 TTTCGGGTTTC-GG
1 TTTCGGGTTTCGGG
11666541 TTTCGGGTTTCGGG
1 TTTCGGGTTTCGGG
11666555 TTTCGGGTTTC-GG
1 TTTCGGGTTTCGGG
11666568 TTTCGGGTTTC-GG
1 TTTCGGGTTTCGGG
11666581 TTTCGGGTTTCGGG
1 TTTCGGGTTTCGGG
11666595 TTTC-GGTTTCGGG
1 TTTCGGGTTTCGGG
11666608 TTTCGGGTTTCGGG
1 TTTCGGGTTTCGGG
11666622 TTTCGGG-TTCGGG
1 TTTCGGGTTTCGGG
11666635 TTTC-GGTTTC-GG
1 TTTCGGGTTTCGGG
11666647 -TTCGGGTTTCGGG
1 TTTCGGGTTTCGGG
11666660 -TTCGGGTTTCGGG
1 TTTCGGGTTTCGGG
11666673 TTTCGGGTTTC-GG
1 TTTCGGGTTTCGGG
11666686 TTTCGGGTTTCGGG
1 TTTCGGGTTTCGGG
11666700 TTTCGGGTTTCGGG
1 TTTCGGGTTTCGGG
11666714 TTTCGGGTTTC-GG
1 TTTCGGGTTTCGGG
11666727 TTTCGGGTTTCGGG
1 TTTCGGGTTTCGGG
11666741 -TTCGGGTTTCGGG
1 TTTCGGGTTTCGGG
11666754 TTTCGGGTTTTCGGGG
1 TTTCGGG-TTTC-GGG
11666770 TTTCGGGTTTCGGG
1 TTTCGGGTTTCGGG
11666784 TTTCGGGTTTCGGG
1 TTTCGGGTTTCGGG
11666798 TTTCGGGTTTCGGG
1 TTTCGGGTTTCGGG
*
11666812 TTTCGGGTTTC-GT
1 TTTCGGGTTTCGGG
11666825 TTTCGGGTTTC-GG
1 TTTCGGGTTTCGGG
11666838 TTTCGGGTTTCGGGG
1 TTTCGGGTTTC-GGG
11666853 TTTCGGGTTTC-GG
1 TTTCGGGTTTCGGG
11666866 TTTCGGGTTTTCGGG
1 TTTCGGG-TTTCGGG
11666881 TTTCGGGTTTTCGGG
1 TTTCGGG-TTTCGGG
*
11666896 TTTCGGG--TCGGT
1 TTTCGGGTTTCGGG
*
11666908 TTTC--GTTTCGGT
1 TTTCGGGTTTCGGG
* *
11666920 TTTCGGTTTTCGGT
1 TTTCGGGTTTCGGG
*
11666934 TTTC-GGTTTCGGT
1 TTTCGGGTTTCGGG
* *
11666947 TTTCGGTTTTCGGT
1 TTTCGGGTTTCGGG
* *
11666961 TTTCGGTTTTTCGGT
1 TTTCGG-GTTTCGGG
*
11666976 TTTCGGTTTTC-GG
1 TTTCGGGTTTCGGG
* *
11666989 TTTCGGTTTTCGGT
1 TTTCGGGTTTCGGG
* *
11667003 TTTCGGTTTTCGGTT
1 TTTCGGGTTTCGG-G
* *
11667018 TTTCGGTTTTCGGT
1 TTTCGGGTTTCGGG
* *
11667032 TTTCGGTTTTCGGTT
1 TTTCGGGTTTCGG-G
11667047 TTTC-GGTTTC-GG
1 TTTCGGGTTTCGGG
* *
11667059 TTTCGGTTTTCGGT
1 TTTCGGGTTTCGGG
* *
11667073 TTTCGGTTTTCGGT
1 TTTCGGGTTTCGGG
* *
11667087 TTTCGGTTTTCGGT
1 TTTCGGGTTTCGGG
*
11667101 TTTC-GG-TTCGGT
1 TTTCGGGTTTCGGG
* *
11667113 TTTCGGTTTTCGGTT
1 TTTCGGGTTTCGG-G
*
11667128 TTTC-GGTTTCGGT
1 TTTCGGGTTTCGGG
**
11667141 TTTC--GTTTCGTT
1 TTTCGGGTTTCGGG
*
11667153 TTTC-GGTTTC-GT
1 TTTCGGGTTTCGGG
* *
11667165 TTTC-GTTTTCGGT
1 TTTCGGGTTTCGGG
* *
11667178 TTTCGGTTTTCGGT
1 TTTCGGGTTTCGGG
* *
11667192 TTTCGGTTTTCGGT
1 TTTCGGGTTTCGGG
* *
11667206 TTTCGGTTTTCGGT
1 TTTCGGGTTTCGGG
*
11667220 TTTCGGTTTTC-GG
1 TTTCGGGTTTCGGG
*
11667233 TTTCGGTTTTTC--G
1 TTTCGG-GTTTCGGG
* *
11667246 TTTCGGTTTTC-GT
1 TTTCGGGTTTCGGG
* *
11667259 TTTCGGTTTTCGGT
1 TTTCGGGTTTCGGG
* *
11667273 TTTCGGTTTTTCGGT
1 TTTCGG-GTTTCGGG
* *
11667288 TTTCGGTTTTCGGT
1 TTTCGGGTTTCGGG
* *
11667302 TTTCGGTTTTCGGT
1 TTTCGGGTTTCGGG
* *
11667316 TTTCGGTTTTCGGT
1 TTTCGGGTTTCGGG
* **
11667330 TTTCGGTTTTCGTT
1 TTTCGGGTTTCGGG
* *
11667344 TTTCGGTTTTCGGT
1 TTTCGGGTTTCGGG
* *
11667358 TTTCGGTTTTCGGTT
1 TTTCGGGTTTCGG-G
* *
11667373 TTTCGGTTTTTCGGT
1 TTTCGG-GTTTCGGG
11667388 TTTC-GGTTTC-GG
1 TTTCGGGTTTCGGG
* *
11667400 TTTCGGTTTTCGGTT
1 TTTCGGGTTTCGG-G
* *
11667415 TTTCGGTTTTCGGT
1 TTTCGGGTTTCGGG
* **
11667429 TTTCGGTTTTCGTT
1 TTTCGGGTTTCGGG
* *
11667443 TTTCGGTTTTCGGT
1 TTTCGGGTTTCGGG
* *
11667457 TTTCGGTTTTCGGT
1 TTTCGGGTTTCGGG
* *
11667471 TTTCGGTTTTC-GT
1 TTTCGGGTTTCGGG
*
11667484 TTTC-GGTTTCGGT
1 TTTCGGGTTTCGGG
11667497 TTTC-GGTTTC-GG
1 TTTCGGGTTTCGGG
*
11667509 -TTCGGGTTTCGGT
1 TTTCGGGTTTCGGG
*
11667522 TTTC-GGTTTCGGT
1 TTTCGGGTTTCGGG
*
11667535 TTTC-GGTTTCGGT
1 TTTCGGGTTTCGGG
*
11667548 TTTCGGTTTTC-GG
1 TTTCGGGTTTCGGG
* *
11667561 TTTCGGTTTTCGGT
1 TTTCGGGTTTCGGG
* *
11667575 TTTCGGTTTTTCGGT
1 TTTCGG-GTTTCGGG
* * *
11667590 TTTCGGATCTAGGG
1 TTTCGGGTTTCGGG
* * *
11667604 TTTTCGGATCTAGGG
1 -TTTCGGGTTTCGGG
* * * *
11667619 TTTTCGGATCTAGGT
1 -TTTCGGGTTTCGGG
* * *
11667634 TTTCGGATCTAGGG
1 TTTCGGGTTTCGGG
* * * *
11667648 TTTCAGATCTAGGG
1 TTTCGGGTTTCGGG
* * *
11667662 TTTCGGATCTAGGG
1 TTTCGGGTTTCGGG
* * *
11667676 TTTCGGATCTAGGG
1 TTTCGGGTTTCGGG
* * *
11667690 TTTCGGATCTAGGG
1 TTTCGGGTTTCGGG
* * *
11667704 TTTCGGATCTAGGG
1 TTTCGGGTTTCGGG
* * *
11667718 TTTCGGATCTAGGG
1 TTTCGGGTTTCGGG
* *
11667732 TTTCGGGTCTAGGG
1 TTTCGGGTTTCGGG
* * **
11667746 TTTCGGATCTATGG
1 TTTCGGGTTTCGGG
** * *
11667760 TTTCGAATCTAGGG
1 TTTCGGGTTTCGGG
* *
11667774 TTTCGGGTCTAGGG
1 TTTCGGGTTTCGGG
* *
11667788 TTTCGGGTCTAGGG
1 TTTCGGGTTTCGGG
*
11667802 TTTAGGGTTTCGGG
1 TTTCGGGTTTCGGG
* *
11667816 TTTAGGGTTTAGGG
1 TTTCGGGTTTCGGG
*
11667830 TTTCAGGTTTCGGG
1 TTTCGGGTTTCGGG
** *
11667844 TTTATGGTTTTGGG
1 TTTCGGGTTTCGGG
11667858 TTTCGGGTTTCGGG
1 TTTCGGGTTTCGGG
* ** *
11667872 TTTAGGGTTTTAGA
1 TTTCGGGTTTCGGG
** *
11667886 TTTAAGGTTTCGAG
1 TTTCGGGTTTCGGG
* * *
11667900 TTTAGGGTTTTGGA
1 TTTCGGGTTTCGGG
* *
11667914 TTTCGGATTTAGGG
1 TTTCGGGTTTCGGG
** * *
11667928 TTTCAAGTTTCAGA
1 TTTCGGGTTTCGGG
* *
11667942 TTTAGGGTTTAGGG
1 TTTCGGGTTTCGGG
*
11667956 TTTAGGGTTT
1 TTTCGGGTTT
11667966 TAGATTTAGG
Statistics
Matches: 1439, Mismatches: 95, Indels: 110
0.88 0.06 0.07
Matches are distributed among these distances:
10 1 0.00
11 6 0.00
12 90 0.06
13 326 0.23
14 824 0.57
15 175 0.12
16 17 0.01
ACGTcount: A:0.03, C:0.14, G:0.34, T:0.49
Consensus pattern (14 bp):
TTTCGGGTTTCGGG
Found at i:11667882 original size:28 final size:28
Alignment explanation
Indices: 11667802--11668070 Score: 214
Period size: 28 Copynumber: 9.9 Consensus size: 28
11667792 GGGTCTAGGG
* *
11667802 TTTAGGGTTTCGGGTTTAGGGTTTAGGG
1 TTTAGGGTTTCGGGTTTAGGGTTTTGGA
* *
11667830 TTTCA-GGTTTCGGGTTTATGGTTTTGGG
1 TTT-AGGGTTTCGGGTTTAGGGTTTTGGA
* *
11667858 TTTCGGGTTTCGGGTTTAGGGTTTTAGA
1 TTTAGGGTTTCGGGTTTAGGGTTTTGGA
* *
11667886 TTTAAGGTTTCGAGTTTAGGGTTTTGGA
1 TTTAGGGTTTCGGGTTTAGGGTTTTGGA
* * * * **
11667914 TTTCGGATTTAGGGTTTCA-AGTTTCAGA
1 TTTAGGGTTTCGGGTTT-AGGGTTTTGGA
* *
11667942 TTTAGGGTTTAGGGTTTAGGGTTTTAGA
1 TTTAGGGTTTCGGGTTTAGGGTTTTGGA
* *
11667970 TTTAGGGTTTTGGATTTA-GGTTTTGGA
1 TTTAGGGTTTCGGGTTTAGGGTTTTGGA
* *
11667997 TTTAGGGTTTC------AAGGTTTTGGT
1 TTTAGGGTTTCGGGTTTAGGGTTTTGGA
* *** * *
11668019 TTTAGAGTTTCAATTTTAAGGTTTTGGT
1 TTTAGGGTTTCGGGTTTAGGGTTTTGGA
*
11668047 TTTAGGGTTTCGGTTTTAGGGTTT
1 TTTAGGGTTTCGGGTTTAGGGTTT
11668071 CGGTTTCGAT
Statistics
Matches: 198, Mismatches: 32, Indels: 22
0.79 0.13 0.09
Matches are distributed among these distances:
21 1 0.01
22 18 0.09
27 19 0.10
28 158 0.80
29 2 0.01
ACGTcount: A:0.14, C:0.04, G:0.33, T:0.48
Consensus pattern (28 bp):
TTTAGGGTTTCGGGTTTAGGGTTTTGGA
Found at i:11668015 original size:22 final size:22
Alignment explanation
Indices: 11667987--11668031 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
11667977 TTTTGGATTT
*
11667987 AGGTTTTGGATTTAGGGTTTCA
1 AGGTTTTGGATTTAGAGTTTCA
*
11668009 AGGTTTTGGTTTTAGAGTTTCA
1 AGGTTTTGGATTTAGAGTTTCA
11668031 A
1 A
11668032 TTTTAAGGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.04, G:0.29, T:0.47
Consensus pattern (22 bp):
AGGTTTTGGATTTAGAGTTTCA
Found at i:11668153 original size:34 final size:35
Alignment explanation
Indices: 11668115--11668194 Score: 117
Period size: 34 Copynumber: 2.3 Consensus size: 35
11668105 TGGTTCTTGG
*
11668115 TTTAGGGTTTTAATTTTATGGTTTCATTTTTT-AT
1 TTTAGGGTTTTAATTTTAAGGTTTCATTTTTTGAT
**
11668149 TTTAGGGTTTTGGTTTTAAGGTTTCATTTTTTGAT
1 TTTAGGGTTTTAATTTTAAGGTTTCATTTTTTGAT
11668184 TTTAAGGGTTT
1 TTT-AGGGTTT
11668195 AGGGTTTCAT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
34 29 0.71
35 5 0.12
36 7 0.17
ACGTcount: A:0.16, C:0.03, G:0.20, T:0.61
Consensus pattern (35 bp):
TTTAGGGTTTTAATTTTAAGGTTTCATTTTTTGAT
Found at i:11668209 original size:36 final size:34
Alignment explanation
Indices: 11668129--11668211 Score: 103
Period size: 36 Copynumber: 2.4 Consensus size: 34
11668119 GGGTTTTAAT
* * *
11668129 TTTATGGTTTCATTTTTTATTTTAGGGTTTTGGT
1 TTTAAGGTTTCATTTTTTATTTTAGGGTTTAGGG
11668163 TTTAAGGTTTCATTTTTTGATTTTAAGGGTTTAGGG
1 TTTAAGGTTTCATTTTTT-ATTTT-AGGGTTTAGGG
* *
11668199 TTTCATGTTTCAT
1 TTTAAGGTTTCAT
11668212 GCTTTGGTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
34 17 0.40
35 5 0.12
36 20 0.48
ACGTcount: A:0.16, C:0.05, G:0.20, T:0.59
Consensus pattern (34 bp):
TTTAAGGTTTCATTTTTTATTTTAGGGTTTAGGG
Found at i:11668251 original size:42 final size:42
Alignment explanation
Indices: 11668182--11668285 Score: 145
Period size: 42 Copynumber: 2.5 Consensus size: 42
11668172 TCATTTTTTG
* *
11668182 ATTTTAAGGGTTTAGGGTTTCATGTTTCATGCTTTGGTTTTCA
1 ATTTTAA-AGTTTAGGGTTTCAGGTTTCATGCTTTGGTTTTCA
** *
11668225 ATTTTAAAGTTTAGGGTTTTGGGTTTCATGCTTTGGTTTTCG
1 ATTTTAAAGTTTAGGGTTTCAGGTTTCATGCTTTGGTTTTCA
*
11668267 ATTTTAAAGTTTAAGGTTT
1 ATTTTAAAGTTTAGGGTTT
11668286 AAGATTTTGG
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
42 48 0.87
43 7 0.13
ACGTcount: A:0.18, C:0.07, G:0.23, T:0.52
Consensus pattern (42 bp):
ATTTTAAAGTTTAGGGTTTCAGGTTTCATGCTTTGGTTTTCA
Found at i:11668280 original size:49 final size:49
Alignment explanation
Indices: 11668227--11668321 Score: 136
Period size: 49 Copynumber: 1.9 Consensus size: 49
11668217 GGTTTTCAAT
* * *
11668227 TTTAAAGTTTAGGGTTTTGGGTTTCATGCTTTGGTTTTCGATTTTAAAG
1 TTTAAAGTTTAAGATTTTGGGTTTCAGGCTTTGGTTTTCGATTTTAAAG
* **
11668276 TTTAAGGTTTAAGATTTTGGGTTTTGGGCTTTGGTTTTCGATTTTA
1 TTTAAAGTTTAAGATTTTGGGTTTCAGGCTTTGGTTTTCGATTTTA
11668322 GGGTTTTAGG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 40 1.00
ACGTcount: A:0.17, C:0.05, G:0.25, T:0.53
Consensus pattern (49 bp):
TTTAAAGTTTAAGATTTTGGGTTTCAGGCTTTGGTTTTCGATTTTAAAG
Found at i:11668383 original size:14 final size:14
Alignment explanation
Indices: 11668359--11668417 Score: 50
Period size: 13 Copynumber: 4.3 Consensus size: 14
11668349 TAGTTTTTTA
11668359 TTTTAGGGTTTCAAG
1 TTTT-GGGTTTCAAG
**
11668374 TTTTGGGTTTTGAG
1 TTTTGGGTTTCAAG
* *
11668388 -GTTGGGGTTCAAG
1 TTTTGGGTTTCAAG
*
11668401 TTTT-AGTTTCAAG
1 TTTTGGGTTTCAAG
11668414 TTTT
1 TTTT
11668418 AGTTTAGGGT
Statistics
Matches: 34, Mismatches: 9, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
13 20 0.59
14 10 0.29
15 4 0.12
ACGTcount: A:0.15, C:0.05, G:0.29, T:0.51
Consensus pattern (14 bp):
TTTTGGGTTTCAAG
Found at i:11668411 original size:13 final size:13
Alignment explanation
Indices: 11668395--11668422 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
11668385 GAGGTTGGGG
11668395 TTCAAGTTTTAGT
1 TTCAAGTTTTAGT
11668408 TTCAAGTTTTAGT
1 TTCAAGTTTTAGT
11668421 TT
1 TT
11668423 AGGGTTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.07, G:0.14, T:0.57
Consensus pattern (13 bp):
TTCAAGTTTTAGT
Found at i:11668429 original size:13 final size:12
Alignment explanation
Indices: 11668400--11668460 Score: 50
Period size: 13 Copynumber: 4.8 Consensus size: 12
11668390 TGGGGTTCAA
*
11668400 GTTTTAGTTTCAA
1 GTTTTAGTTT-AG
11668413 GTTTTAGTTTAGG
1 GTTTTAGTTTA-G
*
11668426 GTTTTAATTTTAG
1 GTTTT-AGTTTAG
* *
11668439 GTTTTAATTTCGG
1 GTTTTAGTTT-AG
11668452 GTTTTAGTT
1 GTTTTAGTT
11668461 AAAGTTTCTA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
12 5 0.12
13 30 0.75
14 5 0.12
ACGTcount: A:0.18, C:0.03, G:0.21, T:0.57
Consensus pattern (12 bp):
GTTTTAGTTTAG
Found at i:11668429 original size:26 final size:26
Alignment explanation
Indices: 11668400--11668460 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
11668390 TGGGGTTCAA
*
11668400 GTTTTAGTTTCAAGTTTTAGTTTAGG
1 GTTTTAGTTTCAAGTTTTAATTTAGG
* * * *
11668426 GTTTTAATTTTAGGTTTTAATTTCGG
1 GTTTTAGTTTCAAGTTTTAATTTAGG
11668452 GTTTTAGTT
1 GTTTTAGTT
11668461 AAAGTTTCTA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.18, C:0.03, G:0.21, T:0.57
Consensus pattern (26 bp):
GTTTTAGTTTCAAGTTTTAATTTAGG
Found at i:11668439 original size:14 final size:13
Alignment explanation
Indices: 11668413--11668457 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
11668403 TTAGTTTCAA
*
11668413 GTTTTAGTTTAGG
1 GTTTTAATTTAGG
11668426 GTTTTAATTTTA-G
1 GTTTTAA-TTTAGG
*
11668439 GTTTTAATTTCGG
1 GTTTTAATTTAGG
11668452 GTTTTA
1 GTTTTA
11668458 GTTAAAGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 3 0.11
13 21 0.75
14 4 0.14
ACGTcount: A:0.18, C:0.02, G:0.22, T:0.58
Consensus pattern (13 bp):
GTTTTAATTTAGG
Found at i:11673340 original size:21 final size:21
Alignment explanation
Indices: 11673315--11673354 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
11673305 TAAAATGACG
11673315 TAGTTTT-ATCTTTTAACTTAA
1 TAGTTTTGA-CTTTTAACTTAA
11673336 TAGTTTTGACTTTTAACTT
1 TAGTTTTGACTTTTAACTT
11673355 TTAAAAAGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.25, C:0.10, G:0.07, T:0.57
Consensus pattern (21 bp):
TAGTTTTGACTTTTAACTTAA
Found at i:11673680 original size:12 final size:11
Alignment explanation
Indices: 11673661--11673691 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
11673651 TGTATAACTT
11673661 TTATTTTATTA
1 TTATTTTATTA
11673672 TTAATTTTATTA
1 TT-ATTTTATTA
11673684 TTATTTTA
1 TTATTTTA
11673692 AAAGCATTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:11673681 original size:17 final size:17
Alignment explanation
Indices: 11673659--11673692 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
11673649 ATTGTATAAC
11673659 TTTTATT-TTATTATTAA
1 TTTTATTATTATT-TTAA
11673676 TTTTATTATTATTTTAA
1 TTTTATTATTATTTTAA
11673693 AAGCATTCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTATTATTATTTTAA
Found at i:11674848 original size:15 final size:16
Alignment explanation
Indices: 11674828--11674857 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
11674818 AGACTACAAA
11674828 TGCAAAAA-CAGAAAT
1 TGCAAAAACCAGAAAT
11674843 TGCAAAAACCAGAAA
1 TGCAAAAACCAGAAA
11674858 ACACGGCCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.60, C:0.17, G:0.13, T:0.10
Consensus pattern (16 bp):
TGCAAAAACCAGAAAT
Found at i:11677085 original size:6 final size:6
Alignment explanation
Indices: 11677074--11677106 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
11677064 TGATCAAAAT
*
11677074 TGAAAG TGAAAG TGAAAG TGAAAT TGAAAG TGA
1 TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGA
11677107 TATGAATTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.30, T:0.21
Consensus pattern (6 bp):
TGAAAG
Found at i:11678457 original size:17 final size:17
Alignment explanation
Indices: 11678435--11678474 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
11678425 TATCTAAACA
*
11678435 TAAAAAATATTATTTTT
1 TAAAAAAAATTATTTTT
11678452 TAAAAAAAATTATTTTT
1 TAAAAAAAATTATTTTT
*
11678469 CAAAAA
1 TAAAAA
11678475 CTACTTTTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (17 bp):
TAAAAAAAATTATTTTT
Found at i:11682978 original size:22 final size:22
Alignment explanation
Indices: 11682931--11682978 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
11682921 GTTTAACACT
**
11682931 TTTTTTAATGTGATATCTATGT
1 TTTTTTAATGTGATATCTATCA
11682953 TTTTTTAATGTGATAT-TATACA
1 TTTTTTAATGTGATATCTAT-CA
11682975 TTTT
1 TTTT
11682979 GTACTCGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 3 0.13
22 20 0.87
ACGTcount: A:0.25, C:0.04, G:0.10, T:0.60
Consensus pattern (22 bp):
TTTTTTAATGTGATATCTATCA
Found at i:11683560 original size:31 final size:31
Alignment explanation
Indices: 11683519--11683603 Score: 77
Period size: 29 Copynumber: 2.7 Consensus size: 31
11683509 AAACATGAAC
*
11683519 AATTAAATTAAAATTAAAATTTCACATA-TA
1 AATTATATTAAAATTAAAATTTCACATATTA
* *
11683549 TAATTATATT-AAA-TAAAAATTCATATATTA
1 -AATTATATTAAAATTAAAATTTCACATATTA
*
11683579 AATTATACATTAAATTGTAAAATTT
1 AATTAT--ATTAAAAT-TAAAATTT
11683604 ATCCTAATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
29 18 0.42
30 5 0.12
31 11 0.26
32 2 0.05
34 7 0.16
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.41
Consensus pattern (31 bp):
AATTATATTAAAATTAAAATTTCACATATTA
Found at i:11697548 original size:3 final size:3
Alignment explanation
Indices: 11697540--11697572 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
11697530 AACAGAGTGC
*
11697540 TAT TAT TAT TAT TAT TAT TTT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
11697573 ATGTGTTCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:11699015 original size:24 final size:24
Alignment explanation
Indices: 11698988--11699041 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
11698978 TTTTTTAAAA
* *
11698988 ATATTTAATTTTTATTAGTATAAT
1 ATATTTAATATTTATTAGCATAAT
*
11699012 ATATTTTATATTTATTAGCATAAT
1 ATATTTAATATTTATTAGCATAAT
*
11699036 TTATTT
1 ATATTT
11699042 GACTTAGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (24 bp):
ATATTTAATATTTATTAGCATAAT
Found at i:11712971 original size:2 final size:2
Alignment explanation
Indices: 11712964--11713000 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
11712954 ATTTTCAGTA
11712964 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
11713001 AAGCAATTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:11736155 original size:11 final size:11
Alignment explanation
Indices: 11736139--11736170 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
11736129 TTCCTTAAGA
11736139 ATTACTTGCAT
1 ATTACTTGCAT
11736150 ATTACTTGCAT
1 ATTACTTGCAT
*
11736161 ATTACCTGCA
1 ATTACTTGCA
11736171 GTTGCTGCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (11 bp):
ATTACTTGCAT
Found at i:11739357 original size:2 final size:2
Alignment explanation
Indices: 11739352--11739382 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
11739342 GAATATATTT
11739352 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11739383 TTGTTTTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11743594 original size:15 final size:15
Alignment explanation
Indices: 11743571--11743600 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11743561 TTGATTCTTC
*
11743571 TTTGGTTCAATCATA
1 TTTGATTCAATCATA
11743586 TTTGATTCAATCATA
1 TTTGATTCAATCATA
11743601 GACTTTGGAT
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:0.30, C:0.13, G:0.10, T:0.47
Consensus pattern (15 bp):
TTTGATTCAATCATA
Found at i:11744284 original size:19 final size:19
Alignment explanation
Indices: 11744260--11744302 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
11744250 AAATATAAAT
11744260 TAAATACAAAT-TTAAATAA
1 TAAATA-AAATCTTAAATAA
* *
11744279 TAAATAATATCTTAAATAT
1 TAAATAAAATCTTAAATAA
11744298 TAAAT
1 TAAAT
11744303 CCTAATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAATAAAATCTTAAATAA
Found at i:11747457 original size:21 final size:21
Alignment explanation
Indices: 11747433--11747474 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
11747423 AAAAGAAAAA
*
11747433 TATTAGGGTTTTACAGG-AAAT
1 TATTAGAGTTTTA-AGGCAAAT
*
11747454 TATTTGAGTTTTAAGGCAAAT
1 TATTAGAGTTTTAAGGCAAAT
11747475 AATAATATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.33, C:0.05, G:0.21, T:0.40
Consensus pattern (21 bp):
TATTAGAGTTTTAAGGCAAAT
Found at i:11757283 original size:2 final size:2
Alignment explanation
Indices: 11757276--11757311 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
11757266 CTTTAAAAAG
11757276 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11757312 GAGTACATGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11758141 original size:70 final size:70
Alignment explanation
Indices: 11758028--11758181 Score: 238
Period size: 70 Copynumber: 2.2 Consensus size: 70
11758018 CACAGCCTAG
*
11758028 CACACGGTCGTGTGTACAAAGTTAGTGAGTTACACGGACGTGTGAGGTAACCACACGGGTTGGTT
1 CACACGGTCGTGTGTACAAAGTTAGTGAGTTACACGGACGTGTGAGGTAACCACACGAGTTGGTT
11758093 TTTGT
66 TTTGT
* * * *
11758098 CACACGTTCGTGTGTACAAAGTTGGTGAGTTACAC-GAGTGTGTGAGGTGACCACACGAGTTGGT
1 CACACGGTCGTGTGTACAAAGTTAGTGAGTTACACGGA-CGTGTGAGGTAACCACACGAGTTGGT
11758162 TTTTGT
65 TTTTGT
*
11758168 CACACGGTCATGTG
1 CACACGGTCGTGTG
11758182 ACCCATGTTT
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
69 2 0.03
70 74 0.97
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.29
Consensus pattern (70 bp):
CACACGGTCGTGTGTACAAAGTTAGTGAGTTACACGGACGTGTGAGGTAACCACACGAGTTGGTT
TTTGT
Found at i:11758525 original size:23 final size:23
Alignment explanation
Indices: 11758495--11758540 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
11758485 TGATTTGATC
11758495 CAATTCTTAATCTATGCAATTAT
1 CAATTCTTAATCTATGCAATTAT
11758518 CAATTCTTAATCTATGCAATTAT
1 CAATTCTTAATCTATGCAATTAT
11758541 TTTAGACAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.17, G:0.04, T:0.43
Consensus pattern (23 bp):
CAATTCTTAATCTATGCAATTAT
Found at i:11759659 original size:17 final size:17
Alignment explanation
Indices: 11759614--11759660 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
11759604 GAACTATTTT
* *
11759614 AAAAATTAAAAATTTTA
1 AAAAATTAAATATTTAA
11759631 AAAAA-T--ATATTTAA
1 AAAAATTAAATATTTAA
11759645 AAAAATTAAATATTTA
1 AAAAATTAAATATTTA
11759661 TATGTTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
14 11 0.44
15 1 0.04
16 1 0.04
17 12 0.48
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAAAATTAAATATTTAA
Found at i:11763170 original size:36 final size:36
Alignment explanation
Indices: 11763130--11763209 Score: 90
Period size: 36 Copynumber: 2.2 Consensus size: 36
11763120 GAGGATAAGA
* *
11763130 TGGTGGGTGTGTTGGTGGCTTG-GTCGGAGGCTTGGT
1 TGGTGGCTGTGTCGG-GGCTTGAGTCGGAGGCTTGGT
* * * *
11763166 TGGTGGCTTTGTCGGGGGTTGAGTTGGAGGTTTGGT
1 TGGTGGCTGTGTCGGGGCTTGAGTCGGAGGCTTGGT
11763202 TGGTGGCT
1 TGGTGGCT
11763210 TAGTTGGAGG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
35 5 0.14
36 32 0.86
ACGTcount: A:0.04, C:0.07, G:0.51, T:0.38
Consensus pattern (36 bp):
TGGTGGCTGTGTCGGGGCTTGAGTCGGAGGCTTGGT
Found at i:11763172 original size:24 final size:23
Alignment explanation
Indices: 11763140--11763216 Score: 73
Period size: 24 Copynumber: 3.2 Consensus size: 23
11763130 TGGTGGGTGT
11763140 GTTGGTGGCTTGGTCGGAGGCTTG
1 GTTGGTGGCTTGGTCGG-GGCTTG
* *
11763164 GTTGGTGGCTTTGTCGGGGGTTG
1 GTTGGTGGCTTGGTCGGGGCTTG
* * * *
11763187 AGTTGGAGGTTTGGTTGGTGGCTTA
1 -GTTGGTGGCTTGGTCGG-GGCTTG
11763212 GTTGG
1 GTTGG
11763217 AGGTTGAACT
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
23 5 0.12
24 34 0.79
25 4 0.09
ACGTcount: A:0.05, C:0.08, G:0.49, T:0.38
Consensus pattern (23 bp):
GTTGGTGGCTTGGTCGGGGCTTG
Found at i:11763222 original size:36 final size:36
Alignment explanation
Indices: 11763155--11763223 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 36
11763145 TGGCTTGGTC
* *
11763155 GGAGGCTTGGTTGGTGGCTTTGTCGGGGGTTGAGTT
1 GGAGGCTTGGTTGGTGGCTTAGTCGGAGGTTGAGTT
* *
11763191 GGAGGTTTGGTTGGTGGCTTAGTTGGAGGTTGA
1 GGAGGCTTGGTTGGTGGCTTAGTCGGAGGTTGA
11763224 ACTGGTGGCT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.09, C:0.06, G:0.49, T:0.36
Consensus pattern (36 bp):
GGAGGCTTGGTTGGTGGCTTAGTCGGAGGTTGAGTT
Found at i:11763229 original size:24 final size:23
Alignment explanation
Indices: 11763202--11763290 Score: 88
Period size: 24 Copynumber: 3.7 Consensus size: 23
11763192 GAGGTTTGGT
*
11763202 TGGTGGCTTAGTTGGAGGTTGAAC
1 TGGTGGCTTGGTTGGAGG-TGAAC
* * *
11763226 TGGTGGCTTGGGTGGCGAGTGAGC
1 TGGTGGCTTGGTTGGAG-GTGAAC
* *
11763250 CGGTGGCTTGGTTGGTGGGTGAAC
1 TGGTGGCTTGGTTGG-AGGTGAAC
*
11763274 TGGTGGCTTGGGTGGAG
1 TGGTGGCTTGGTTGGAG
11763291 CAGAAGTTGG
Statistics
Matches: 52, Mismatches: 11, Indels: 5
0.76 0.16 0.07
Matches are distributed among these distances:
23 1 0.02
24 49 0.94
25 2 0.04
ACGTcount: A:0.10, C:0.10, G:0.51, T:0.29
Consensus pattern (23 bp):
TGGTGGCTTGGTTGGAGGTGAAC
Found at i:11763324 original size:48 final size:48
Alignment explanation
Indices: 11763200--11763336 Score: 150
Period size: 48 Copynumber: 2.9 Consensus size: 48
11763190 TGGAGGTTTG
* * * *
11763200 GTTGGTGGCTTAGTTGGAGGTTGAACTGGTGGCTTGGGTGGCGAGTGA
1 GTTGGTGGCTTGGTTGGTGGTTGAACTGGTGGCTTGGGTGGAGAGTAA
** *
11763248 GCCGGTGGCTTGGTTGGTGGGTGAACTGGTGGCTTGGGTGGAGCAG-AA
1 GTTGGTGGCTTGGTTGGTGGTTGAACTGGTGGCTTGGGTGGAG-AGTAA
* ** * *
11763296 GTTGGGGGCTTGGTTGGTGGTTTCACTGGCGCCTTGGGTGG
1 GTTGGTGGCTTGGTTGGTGGTTGAACTGGTGGCTTGGGTGG
11763337 TGGATGAACT
Statistics
Matches: 73, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
48 71 0.97
49 2 0.03
ACGTcount: A:0.09, C:0.12, G:0.49, T:0.30
Consensus pattern (48 bp):
GTTGGTGGCTTGGTTGGTGGTTGAACTGGTGGCTTGGGTGGAGAGTAA
Found at i:11763432 original size:18 final size:18
Alignment explanation
Indices: 11763389--11763432 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
11763379 TGGATGAGGA
*
11763389 TGAGGATGAGGATGGGGG
1 TGAGGGTGAGGATGGGGG
* *
11763407 TGAGGGTGAGGGTGGTGG
1 TGAGGGTGAGGATGGGGG
*
11763425 TGATGGTG
1 TGAGGGTG
11763433 GTGGGTTGGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.16, C:0.00, G:0.61, T:0.23
Consensus pattern (18 bp):
TGAGGGTGAGGATGGGGG
Found at i:11770733 original size:23 final size:23
Alignment explanation
Indices: 11770707--11770750 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
11770697 GTTGTTTATT
11770707 GTTGTCAAATTTGGAGATTTTAG
1 GTTGTCAAATTTGGAGATTTTAG
**
11770730 GTTGTTGAATTTGGAGATTTT
1 GTTGTCAAATTTGGAGATTTT
11770751 GGATTTTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.23, C:0.02, G:0.27, T:0.48
Consensus pattern (23 bp):
GTTGTCAAATTTGGAGATTTTAG
Found at i:11770770 original size:29 final size:30
Alignment explanation
Indices: 11770722--11770783 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 30
11770712 CAAATTTGGA
* *
11770722 GATTTTAGGTTGTTGAATTTGGAGATTTTG
1 GATTTTAGGTGGTCGAATTTGGAGATTTTG
*
11770752 GATTTT-GGTGGTCGAATTTGGGGATTTTG
1 GATTTTAGGTGGTCGAATTTGGAGATTTTG
11770781 GAT
1 GAT
11770784 AAGAGTTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 23 0.79
30 6 0.21
ACGTcount: A:0.18, C:0.02, G:0.34, T:0.47
Consensus pattern (30 bp):
GATTTTAGGTGGTCGAATTTGGAGATTTTG
Found at i:11770801 original size:13 final size:14
Alignment explanation
Indices: 11770785--11770825 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
11770775 ATTTTGGATA
11770785 AGAG-TTTTGATTT
1 AGAGTTTTTGATTT
11770798 AGAGATTTTTG-TTT
1 AGAG-TTTTTGATTT
*
11770812 AGGGTTTTTGATTT
1 AGAGTTTTTGATTT
11770826 TGGAGATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
13 10 0.42
14 9 0.38
15 5 0.21
ACGTcount: A:0.20, C:0.00, G:0.24, T:0.56
Consensus pattern (14 bp):
AGAGTTTTTGATTT
Found at i:11770812 original size:14 final size:15
Alignment explanation
Indices: 11770789--11770835 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
11770779 TGGATAAGAG
11770789 TTTTGATTTAGAGAT
1 TTTTGATTTAGAGAT
*
11770804 TTTTG-TTTAG-GGT
1 TTTTGATTTAGAGAT
*
11770817 TTTTGATTTTGGAGAT
1 TTTTGA-TTTAGAGAT
11770833 TTT
1 TTT
11770836 GGGTTAGTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
13 7 0.27
14 5 0.19
15 9 0.35
16 5 0.19
ACGTcount: A:0.17, C:0.00, G:0.23, T:0.60
Consensus pattern (15 bp):
TTTTGATTTAGAGAT
Found at i:11779215 original size:14 final size:14
Alignment explanation
Indices: 11779196--11779226 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
11779186 AGAATAGATT
11779196 TTTAATTAAATAAA
1 TTTAATTAAATAAA
*
11779210 TTTAATTAATTAAA
1 TTTAATTAAATAAA
11779224 TTT
1 TTT
11779227 TTTAAACTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TTTAATTAAATAAA
Found at i:11785467 original size:22 final size:21
Alignment explanation
Indices: 11785442--11785483 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
11785432 AATTTGAAAT
*
11785442 TTAATCTTTATATTTTAAAAAA
1 TTAAT-TTTATAATTTAAAAAA
*
11785464 TTAATTTTTTAATTTAAAAA
1 TTAATTTTATAATTTAAAAA
11785484 TTATATTGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (21 bp):
TTAATTTTATAATTTAAAAAA
Found at i:11785629 original size:30 final size:31
Alignment explanation
Indices: 11785589--11785646 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
11785579 TTAATGATTG
**
11785589 AATTAGAATTTTTAAATTGAAAATATAAAAA
1 AATTAGAATTTAAAAATTGAAAATATAAAAA
*
11785620 AATTA-AATTTAAAAATTTAAAATATAA
1 AATTAGAATTTAAAAATTGAAAATATAA
11785647 GTATTAAAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 19 0.79
31 5 0.21
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.36
Consensus pattern (31 bp):
AATTAGAATTTAAAAATTGAAAATATAAAAA
Found at i:11789250 original size:37 final size:41
Alignment explanation
Indices: 11789205--11789303 Score: 107
Period size: 38 Copynumber: 2.5 Consensus size: 41
11789195 AGCAATAAAG
* *
11789205 TGACACCCAGTGTCTCATCG-GCCTAGCCGAAGTAAAGT-A
1 TGACACCCAGTGTCTCATCGAACCTAGCCGAAGTAAAATAA
* ** * *
11789244 -G-TACCCAGTACCTCATCGAATCTATCCGAAGTAAAATAA
1 TGACACCCAGTGTCTCATCGAACCTAGCCGAAGTAAAATAA
11789283 TGACACCCAGTGTCTCATCGA
1 TGACACCCAGTGTCTCATCGA
11789304 CTCAAGGTCG
Statistics
Matches: 46, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
37 14 0.30
38 15 0.33
39 1 0.02
40 1 0.02
41 15 0.33
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.22
Consensus pattern (41 bp):
TGACACCCAGTGTCTCATCGAACCTAGCCGAAGTAAAATAA
Found at i:11790201 original size:11 final size:12
Alignment explanation
Indices: 11790168--11790226 Score: 50
Period size: 11 Copynumber: 4.9 Consensus size: 12
11790158 ATATTAGTTA
11790168 ATAATAATAA-T
1 ATAATAATAATT
*
11790179 ATAATACTAATT
1 ATAATAATAATT
11790191 A-AATAATAATTT
1 ATAATAATAA-TT
* *
11790203 ATATTATTATATT
1 ATAATAATA-ATT
*
11790216 ATAATATTAAT
1 ATAATAATAAT
11790227 AAATTAAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
11 16 0.41
12 7 0.18
13 15 0.38
14 1 0.03
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (12 bp):
ATAATAATAATT
Found at i:11793020 original size:16 final size:17
Alignment explanation
Indices: 11792991--11793025 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
11792981 TTTAATAATG
*
11792991 TTAATAATTTTTTTGAA
1 TTAATAATTTTTTTAAA
11793008 TTAATAA-TTTTTTAAA
1 TTAATAATTTTTTTAAA
11793024 TT
1 TT
11793026 TTAAAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (17 bp):
TTAATAATTTTTTTAAA
Found at i:11804958 original size:50 final size:50
Alignment explanation
Indices: 11804902--11805040 Score: 242
Period size: 50 Copynumber: 2.8 Consensus size: 50
11804892 ACAGTGCTGG
* * * *
11804902 GATAAGTATGAAGTCTCTTCATCTTTTTGAAGCTGACACGTTCATGTAGA
1 GATAAGTATCATGTCTTTTCATCTTTTTGAAGTTGACACGTTCATGTAGA
11804952 GATAAGTATCATGTCTTTTCATCTTTTTGAAGTTGACACGTTCATGTAGA
1 GATAAGTATCATGTCTTTTCATCTTTTTGAAGTTGACACGTTCATGTAGA
11805002 GATAAGTATCATGTCTTTTCATCTTTTTGAAGTTGACAC
1 GATAAGTATCATGTCTTTTCATCTTTTTGAAGTTGACAC
11805041 CTGTAGATGA
Statistics
Matches: 85, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 85 1.00
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.40
Consensus pattern (50 bp):
GATAAGTATCATGTCTTTTCATCTTTTTGAAGTTGACACGTTCATGTAGA
Found at i:11809894 original size:23 final size:23
Alignment explanation
Indices: 11809874--11809932 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
11809864 TTTCGCACCT
11809874 TGTGTGCCTACTGATTTGCACTA
1 TGTGTGCCTACTGATTTGCACTA
* *
11809897 TGTGCGCCTACTGGA-TTGCACTG
1 TGTGTGCCTACT-GATTTGCACTA
*
11809920 TGTGTGCTTACTG
1 TGTGTGCCTACTG
11809933 TTTCCCCAGC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
22 1 0.03
23 28 0.90
24 2 0.06
ACGTcount: A:0.14, C:0.22, G:0.27, T:0.37
Consensus pattern (23 bp):
TGTGTGCCTACTGATTTGCACTA
Found at i:11825864 original size:30 final size:33
Alignment explanation
Indices: 11825829--11825897 Score: 93
Period size: 36 Copynumber: 2.0 Consensus size: 33
11825819 GTTTTTTATG
*
11825829 TTATTTCAGATAATTCTCAATTTGAATATTTTA
1 TTATATCAGATAATTCTCAATTTGAATATTTTA
*
11825862 TTTTCATATCAGATAATTCTGAATTTGAATATTTTA
1 --TT-ATATCAGATAATTCTCAATTTGAATATTTTA
11825898 ATTTAAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 2 0.06
36 29 0.94
ACGTcount: A:0.33, C:0.09, G:0.07, T:0.51
Consensus pattern (33 bp):
TTATATCAGATAATTCTCAATTTGAATATTTTA
Found at i:11828412 original size:10 final size:10
Alignment explanation
Indices: 11828399--11828451 Score: 56
Period size: 9 Copynumber: 5.4 Consensus size: 10
11828389 TTTTGTGCAA
11828399 TTTTTATAAT
1 TTTTTATAAT
* *
11828409 TTTTTCCTTAT
1 TTTTT-ATAAT
*
11828420 TTTTTATGA-
1 TTTTTATAAT
11828429 TTTTTATAAT
1 TTTTTATAAT
11828439 TTTTTAT-AT
1 TTTTTATAAT
11828448 TTTT
1 TTTT
11828452 ATGGAAAATA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
9 14 0.39
10 14 0.39
11 8 0.22
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.74
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:11828800 original size:20 final size:23
Alignment explanation
Indices: 11828753--11828809 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 23
11828743 AAATACTCTT
11828753 AAATAATATAATTTATTTTAAATAG
1 AAATAA-AT-ATTTATTTTAAATAG
*
11828778 AAA-AAATATTT-TTTT-AATTG
1 AAATAAATATTTATTTTAAATAG
11828798 AAATAAAT-TTTA
1 AAATAAATATTTA
11828810 AAATTATACA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
20 10 0.34
21 8 0.28
22 4 0.14
23 2 0.07
24 2 0.07
25 3 0.10
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.46
Consensus pattern (23 bp):
AAATAAATATTTATTTTAAATAG
Found at i:11828903 original size:30 final size:30
Alignment explanation
Indices: 11828839--11828904 Score: 75
Period size: 29 Copynumber: 2.2 Consensus size: 30
11828829 ATTTAACATG
* *
11828839 CAATTGTATACATAAATTTTAATTTTGTGT
1 CAATTTTATACATAAATTTTAAATTTGTGT
11828869 -AATTTTATACATGAAA-TTTAAATTTGAT-T
1 CAATTTTATACAT-AAATTTTAAATTTG-TGT
11828898 CAATTTT
1 CAATTTT
11828905 TATAAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
29 21 0.68
30 10 0.32
ACGTcount: A:0.36, C:0.06, G:0.08, T:0.50
Consensus pattern (30 bp):
CAATTTTATACATAAATTTTAAATTTGTGT
Found at i:11829100 original size:31 final size:29
Alignment explanation
Indices: 11829054--11829126 Score: 92
Period size: 29 Copynumber: 2.4 Consensus size: 29
11829044 TAAACCTATT
*
11829054 ATATATATATATATATCACAATTAAAATTTCAG
1 ATATATA-AT-TATATCA-AATTAAAATTT-AC
11829087 ATATATAATTATATCAAATTAAAATTTAC
1 ATATATAATTATATCAAATTAAAATTTAC
*
11829116 ATTTATAATTA
1 ATATATAATTA
11829127 CATATTAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
29 11 0.29
30 11 0.29
31 7 0.18
32 2 0.05
33 7 0.18
ACGTcount: A:0.49, C:0.07, G:0.01, T:0.42
Consensus pattern (29 bp):
ATATATAATTATATCAAATTAAAATTTAC
Found at i:11829573 original size:176 final size:172
Alignment explanation
Indices: 11829248--11829576 Score: 448
Period size: 176 Copynumber: 1.9 Consensus size: 172
11829238 CATCTTCCCC
* * *
11829248 TACCATCGCTCCTCTTCTCTCCCTCGTCTCTGCAAATCAGTTTTTTTCTTCTCATCTCAGTTCTC
1 TACCATCGCCCCTCTTCTCTCCCTCGTCTCTACAAATAAGTTTTTTTCTTCTCATCTCAGTTCTC
* * * *
11829313 GCCCACCGCCGTCTCCACTGATTTTTTCCGGATCTGACCCGTATTCCGTTTCGGATCGTGTTGAC
66 GCCCACCGACG-CTCCACTGATTTTTGCCGGATCTGACCCGTATCCCGTTTCGGATCGTGTCGAC
*
11829378 ACAGGTACTGCACCCCAAATTGCCGAGTCAGGGTAAGGAAGCT
130 ACAAGTACTGCACCCCAAATTGCCGAGTCAGGGTAAGGAAGCT
* *
11829421 TACCATCGCCCCTCTTCTCTCTCTCGTCTCTACAAATAAGGTTTTTTCATTCTCTTGTCATCTCA
1 TACCATCGCCCCTCTTCTCTCCCTCGTCTCTACAAATAA-G--TTTT--TT-TCTTCTCATCTCA
*
11829486 GTTCTCGCCCACC-AC-CT-CAGCTGGTTTTTGCCGGATCTGACCCGTATCCCGTTTCGGATCGT
60 GTTCTCGCCCACCGACGCTCCA-CTGATTTTTGCCGGATCTGACCCGTATCCCGTTTCGGATCGT
* *
11829548 GTCGACACAAGTTCTGCATCCCAAATTGC
124 GTCGACACAAGTACTGCACCCCAAATTGC
11829577 TCCGGGTCCG
Statistics
Matches: 136, Mismatches: 13, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
173 35 0.26
174 1 0.01
175 2 0.01
176 70 0.51
178 3 0.02
179 25 0.18
ACGTcount: A:0.17, C:0.33, G:0.17, T:0.33
Consensus pattern (172 bp):
TACCATCGCCCCTCTTCTCTCCCTCGTCTCTACAAATAAGTTTTTTTCTTCTCATCTCAGTTCTC
GCCCACCGACGCTCCACTGATTTTTGCCGGATCTGACCCGTATCCCGTTTCGGATCGTGTCGACA
CAAGTACTGCACCCCAAATTGCCGAGTCAGGGTAAGGAAGCT
Found at i:11832709 original size:6 final size:6
Alignment explanation
Indices: 11832700--11832742 Score: 86
Period size: 6 Copynumber: 7.2 Consensus size: 6
11832690 CCTGCTCCTG
11832700 TTTCTA TTTCTA TTTCTA TTTCTA TTTCTA TTTCTA TTTCTA T
1 TTTCTA TTTCTA TTTCTA TTTCTA TTTCTA TTTCTA TTTCTA T
11832743 AGTTGATAGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.67
Consensus pattern (6 bp):
TTTCTA
Found at i:11837052 original size:7 final size:7
Alignment explanation
Indices: 11837040--11837073 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
11837030 CATTGGGTTG
11837040 TTGGAAT
1 TTGGAAT
11837047 TTGGAAT
1 TTGGAAT
11837054 TTGGAAT
1 TTGGAAT
11837061 TTGGAAT
1 TTGGAAT
11837068 TTGGAA
1 TTGGAA
11837074 ATTAAAACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.41
Consensus pattern (7 bp):
TTGGAAT
Found at i:11845656 original size:14 final size:14
Alignment explanation
Indices: 11845636--11845683 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
11845626 AAAAAATTAA
*
11845636 AAAATTAATTATTT
1 AAAATTAATTAATT
* *
11845650 TAAATTATTTAATT
1 AAAATTAATTAATT
11845664 AAAATTAAATTAAGTT
1 AAAATT-AATTAA-TT
11845680 AAAA
1 AAAA
11845684 AATATATTAG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
14 16 0.59
15 5 0.19
16 6 0.22
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (14 bp):
AAAATTAATTAATT
Found at i:11849332 original size:15 final size:16
Alignment explanation
Indices: 11849293--11849392 Score: 78
Period size: 15 Copynumber: 5.9 Consensus size: 16
11849283 CATTATTTTT
11849293 TAAAAATATTTTTAAGA
1 TAAAAATATTTTTAA-A
*
11849310 TAAAAATATTATTAAA
1 TAAAAATATTTTTAAA
11849326 T-AAAATATTTTTAAA
1 TAAAAATATTTTTAAA
*
11849341 TTTTTAAAAATATTTTTGACAC
1 ----TAAAAATATTTTT-A-AA
*
11849363 TAAAAATACTTTTAAA
1 TAAAAATATTTTTAAA
* *
11849379 -AAATATTTTTTTAA
1 TAAAAATATTTTTAA
11849393 TCAAAAAAAA
Statistics
Matches: 68, Mismatches: 8, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
15 24 0.35
16 3 0.04
17 15 0.22
18 12 0.18
19 1 0.01
20 11 0.16
21 1 0.01
22 1 0.01
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (16 bp):
TAAAAATATTTTTAAA
Found at i:11849392 original size:53 final size:52
Alignment explanation
Indices: 11849289--11849388 Score: 143
Period size: 52 Copynumber: 1.9 Consensus size: 52
11849279 TTGGCATTAT
*
11849289 TTTTTAAAAATATTTTTAAGATAAAAATATTATTAAATAAAATATTTTTAAA
1 TTTTTAAAAATATTTTTAACATAAAAATATTATTAAATAAAATATTTTTAAA
*
11849341 TTTTTAAAAATATTTTTGACACTAAAAATACTT-TT-AA-AAAATATTTTT
1 TTTTTAAAAATATTTTTAACA-TAAAAATA-TTATTAAATAAAATATTTTT
11849389 TTAATCAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
51 11 0.25
52 21 0.48
53 10 0.23
54 2 0.05
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (52 bp):
TTTTTAAAAATATTTTTAACATAAAAATATTATTAAATAAAATATTTTTAAA
Found at i:11852337 original size:27 final size:27
Alignment explanation
Indices: 11852261--11852341 Score: 81
Period size: 27 Copynumber: 3.0 Consensus size: 27
11852251 GTACAAAGGG
* * *
11852261 TGGTGCCTACCTGACAAACGGCACTAG
1 TGGTGCCTACCTGACAAGCGGCACCAA
* * *
11852288 TGGTGCCTACCTGCCATGTGGCACCAA
1 TGGTGCCTACCTGACAAGCGGCACCAA
* * *
11852315 TGGTGCCTTCCTGTCAGGCGGCACCAA
1 TGGTGCCTACCTGACAAGCGGCACCAA
11852342 CCTTAATTTT
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.20, C:0.32, G:0.27, T:0.21
Consensus pattern (27 bp):
TGGTGCCTACCTGACAAGCGGCACCAA
Found at i:11852616 original size:28 final size:28
Alignment explanation
Indices: 11852581--11852669 Score: 89
Period size: 28 Copynumber: 3.3 Consensus size: 28
11852571 TTTCTTAAAT
11852581 AAATAATATA-AAAAATATTTATTTATCA
1 AAATAATATATAAAAA-ATTTATTTATCA
* *
11852609 AAATAATA-ATAGAGAA-TT-TTTA-CA
1 AAATAATATATAAAAAATTTATTTATCA
**
11852633 ATAATAATATATAAAAAATTTAAATATCA
1 A-AATAATATATAAAAAATTTATTTATCA
11852662 AAATAATA
1 AAATAATA
11852670 CACTTTTCTC
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
24 3 0.06
25 11 0.22
26 8 0.16
27 4 0.08
28 20 0.41
29 3 0.06
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.35
Consensus pattern (28 bp):
AAATAATATATAAAAAATTTATTTATCA
Found at i:11853687 original size:15 final size:14
Alignment explanation
Indices: 11853661--11853690 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
11853651 ATATTTTTAT
11853661 ATTAAAAAAATTAA
1 ATTAAAAAAATTAA
11853675 ATTAAATAAAATTAA
1 ATTAAA-AAAATTAA
11853690 A
1 A
11853691 ATTTGACAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
ATTAAAAAAATTAA
Found at i:11856718 original size:28 final size:28
Alignment explanation
Indices: 11856665--11856722 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
11856655 ATTTTTTCTG
*
11856665 TTGGAATTAATTAAGTTTATGATTGAAT
1 TTGGAATTAATTAAGTTTATAATTGAAT
**
11856693 TTGGAATTAATTCTGTTTA-AATTTGAAT
1 TTGGAATTAATTAAGTTTATAA-TTGAAT
11856721 TT
1 TT
11856723 ATTTAATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 1 0.04
28 25 0.96
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.50
Consensus pattern (28 bp):
TTGGAATTAATTAAGTTTATAATTGAAT
Found at i:11856763 original size:26 final size:26
Alignment explanation
Indices: 11856714--11856763 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
11856704 TCTGTTTAAA
**
11856714 TTTGAATTTATTTAATAATTTTTATG
1 TTTGAATTTATTTAATAAGGTTTATG
*
11856740 TTTGAATTTATTTAATGAGGTTTA
1 TTTGAATTTATTTAATAAGGTTTA
11856764 GCAAATGACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.58
Consensus pattern (26 bp):
TTTGAATTTATTTAATAAGGTTTATG
Found at i:11857301 original size:6 final size:6
Alignment explanation
Indices: 11857290--11857315 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
11857280 ATAGTGTTGC
11857290 GGCTCA GGCTCA GGCTCA GGCTCA GG
1 GGCTCA GGCTCA GGCTCA GGCTCA GG
11857316 TCCAGGCGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.31, G:0.38, T:0.15
Consensus pattern (6 bp):
GGCTCA
Found at i:11859549 original size:15 final size:15
Alignment explanation
Indices: 11859529--11859562 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
11859519 TATTATAAAT
*
11859529 TAATATATGTGAAAA
1 TAATATATGTAAAAA
*
11859544 TAATATATTTAAAAA
1 TAATATATGTAAAAA
11859559 TAAT
1 TAAT
11859563 GAAATATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (15 bp):
TAATATATGTAAAAA
Found at i:11859576 original size:7 final size:7
Alignment explanation
Indices: 11859564--11859593 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
11859554 AAAAATAATG
11859564 AAATATA
1 AAATATA
11859571 AAATATA
1 AAATATA
11859578 AAATATA
1 AAATATA
11859585 AAAT-TA
1 AAATATA
11859591 AAA
1 AAA
11859594 CAATATTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.22
7 18 0.78
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
AAATATA
Found at i:11860327 original size:17 final size:17
Alignment explanation
Indices: 11860305--11860338 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
11860295 TTTACAATAA
*
11860305 TTAAATAATATTTAAAT
1 TTAAATAACATTTAAAT
11860322 TTAAATAACATTTAAAT
1 TTAAATAACATTTAAAT
11860339 GAATTTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
TTAAATAACATTTAAAT
Found at i:11867012 original size:7 final size:7
Alignment explanation
Indices: 11867000--11867027 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
11866990 TGCGTGTACC
11867000 CTATAGG
1 CTATAGG
11867007 CTATAGG
1 CTATAGG
11867014 CTATAGG
1 CTATAGG
11867021 CTATAGG
1 CTATAGG
11867028 GTGTTAGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.29
Consensus pattern (7 bp):
CTATAGG
Found at i:11876790 original size:7 final size:7
Alignment explanation
Indices: 11876778--11876813 Score: 65
Period size: 7 Copynumber: 5.3 Consensus size: 7
11876768 GGGAAATTGT
11876778 AGTGCAA
1 AGTGCAA
11876785 AGTGCAA
1 AGTGCAA
11876792 AGTGCAA
1 AGTGCAA
11876799 AGTGCAA
1 AGTGCAA
11876806 AGTG-AA
1 AGTGCAA
11876812 AG
1 AG
11876814 AATTAATGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 4 0.14
7 25 0.86
ACGTcount: A:0.44, C:0.11, G:0.31, T:0.14
Consensus pattern (7 bp):
AGTGCAA
Found at i:11878915 original size:17 final size:17
Alignment explanation
Indices: 11878893--11878931 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
11878883 TAAAATGTAG
11878893 CAAAAAAAA-TAACAAAA
1 CAAAAAAAACT-ACAAAA
*
11878910 CAAAAAAAACTAGAAAA
1 CAAAAAAAACTACAAAA
11878927 CAAAA
1 CAAAA
11878932 CATCATACCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 19 0.95
18 1 0.05
ACGTcount: A:0.79, C:0.13, G:0.03, T:0.05
Consensus pattern (17 bp):
CAAAAAAAACTACAAAA
Found at i:11879280 original size:23 final size:26
Alignment explanation
Indices: 11879244--11879293 Score: 79
Period size: 24 Copynumber: 2.0 Consensus size: 26
11879234 AACGTGCCAT
11879244 AAGACAAAAGCGTGCCAC-AAGGCAG
1 AAGACAAAAGCGTGCCACAAAGGCAG
11879269 AAGA-AAAA-CGTGCCACAAAGGCAG
1 AAGACAAAAGCGTGCCACAAAGGCAG
11879293 A
1 A
11879294 TAAAAACTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
23 8 0.33
24 12 0.50
25 4 0.17
ACGTcount: A:0.48, C:0.22, G:0.26, T:0.04
Consensus pattern (26 bp):
AAGACAAAAGCGTGCCACAAAGGCAG
Found at i:11882534 original size:90 final size:90
Alignment explanation
Indices: 11882375--11882556 Score: 319
Period size: 90 Copynumber: 2.0 Consensus size: 90
11882365 GATAGAGTAT
* *
11882375 CTAGCAATATTTAAAATTTTAAAACCAACAAATGGTCAAGTGCAATGATAAGGCACATTGCACTT
1 CTAGCAATATTTAAAATTTTAAAACCAACAAATGGTCAAGTGCAATGATAAGACACATTGCACTC
*
11882440 TCAAGAGGTGAACATAAATTCGGAC
66 TCAAGAGGAGAACATAAATTCGGAC
* *
11882465 CTAGTAATATTTAAAATTTTAAAACCAACAAATGGTCAGGTGCAATGATAAGACACATTGCACTC
1 CTAGCAATATTTAAAATTTTAAAACCAACAAATGGTCAAGTGCAATGATAAGACACATTGCACTC
11882530 TCAAGAGGAGAACATAAATTCGGAC
66 TCAAGAGGAGAACATAAATTCGGAC
11882555 CT
1 CT
11882557 CGGACAAATA
Statistics
Matches: 87, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
90 87 1.00
ACGTcount: A:0.41, C:0.17, G:0.16, T:0.25
Consensus pattern (90 bp):
CTAGCAATATTTAAAATTTTAAAACCAACAAATGGTCAAGTGCAATGATAAGACACATTGCACTC
TCAAGAGGAGAACATAAATTCGGAC
Found at i:11882933 original size:4 final size:4
Alignment explanation
Indices: 11882924--11882964 Score: 82
Period size: 4 Copynumber: 10.2 Consensus size: 4
11882914 AATTACAACA
11882924 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC A
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC A
11882965 ACTTTTGTCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAC
Found at i:11885131 original size:6 final size:6
Alignment explanation
Indices: 11885121--11885155 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
11885111 AAAACACATT
11885121 AAAAAG CAAAAA- AAAAAG AAAAAG AAAAAG AAAAA
1 AAAAAG -AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
11885156 AACCCTATTG
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 5 0.19
6 17 0.63
7 5 0.19
ACGTcount: A:0.86, C:0.03, G:0.11, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:11904750 original size:16 final size:16
Alignment explanation
Indices: 11904728--11904764 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
11904718 AATTTCATCT
11904728 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
11904745 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
11904760 TAATA
1 TAATA
11904765 TTCTTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Done.