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 93 of 126
Found at i:18174690 original size:60 final size:60
Alignment explanation
Indices: 18174562--18174692 Score: 135
Period size: 60 Copynumber: 2.2 Consensus size: 60
18174552 TAATTAACTA
* * *
18174562 AAAATTATTATAATGCCTCTTAATATAATAACTAAAATATTACTTTTATAATAATTGGTC
1 AAAATTATTATAATGCCTCTTAATATAATAACTAAAATATTACTTTTACAATAATTAGCC
* * * *
18174622 AAAGTTATTATAATG-CTCTATAATCATAATTAC-AAAA-ATGT-CTTTCTACCATCATTAGCC
1 AAAATTATTATAATGCCTCT-TAAT-ATAATAACTAAAATAT-TACTTT-TACAATAATTAGCC
18174682 AAAATTATTAT
1 AAAATTATTAT
18174693 TATAATATCC
Statistics
Matches: 59, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
59 10 0.17
60 42 0.71
61 7 0.12
ACGTcount: A:0.42, C:0.13, G:0.05, T:0.40
Consensus pattern (60 bp):
AAAATTATTATAATGCCTCTTAATATAATAACTAAAATATTACTTTTACAATAATTAGCC
Found at i:18186716 original size:22 final size:22
Alignment explanation
Indices: 18186688--18186735 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
18186678 CGAAAGTAAT
*
18186688 ATAATTTAAA-ATTTTAATAAAA
1 ATAATTTAAATA-TTGAATAAAA
*
18186710 ATAATTTATATATTGAATAAAA
1 ATAATTTAAATATTGAATAAAA
18186732 ATAA
1 ATAA
18186736 AAGAATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 22 0.96
23 1 0.04
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
ATAATTTAAATATTGAATAAAA
Found at i:18187295 original size:12 final size:12
Alignment explanation
Indices: 18187266--18187299 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
18187256 GACTATTAAG
18187266 TATTTAAAAATA
1 TATTTAAAAATA
*
18187278 T-GTTAAAAATA
1 TATTTAAAAATA
18187289 TATTTAAAAAT
1 TATTTAAAAAT
18187300 TTCTAAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (12 bp):
TATTTAAAAATA
Found at i:18195405 original size:17 final size:19
Alignment explanation
Indices: 18195375--18195416 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
18195365 CCCAAAAAAA
* *
18195375 AAAAAACCTGAAACCAA-C
1 AAAAAACCTAAAACAAACC
18195393 AAAAAACC-AAAACAAACC
1 AAAAAACCTAAAACAAACC
18195411 AAAAAA
1 AAAAAA
18195417 ATACAAAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.71, C:0.24, G:0.02, T:0.02
Consensus pattern (19 bp):
AAAAAACCTAAAACAAACC
Found at i:18195409 original size:21 final size:20
Alignment explanation
Indices: 18195385--18195428 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 20
18195375 AAAAAACCTG
18195385 AAACCAACAAAAA-ACCAAAAC
1 AAACCAA-AAAAATA-CAAAAC
18195406 AAACCAAAAAAATACAAAAC
1 AAACCAAAAAAATACAAAAC
18195426 AAA
1 AAA
18195429 AAACCACACA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.75, C:0.23, G:0.00, T:0.02
Consensus pattern (20 bp):
AAACCAAAAAAATACAAAAC
Found at i:18196958 original size:14 final size:16
Alignment explanation
Indices: 18196928--18196963 Score: 58
Period size: 14 Copynumber: 2.4 Consensus size: 16
18196918 ATCAATTATT
18196928 ATTTATAATTCAAATA
1 ATTTATAATTCAAATA
18196944 ATTTATAA-T-AAATA
1 ATTTATAATTCAAATA
18196958 ATTTAT
1 ATTTAT
18196964 TATTTATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 11 0.55
15 1 0.05
16 8 0.40
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (16 bp):
ATTTATAATTCAAATA
Found at i:18207929 original size:3 final size:3
Alignment explanation
Indices: 18207921--18207970 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
18207911 AGTATCTTTG
18207921 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
18207969 TT
1 TT
18207971 CAAGTTCCCT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:18211370 original size:20 final size:20
Alignment explanation
Indices: 18211345--18211382 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
18211335 CTCAGGTATT
18211345 ACATTATAGATTTTTAAACC
1 ACATTATAGATTTTTAAACC
*
18211365 ACATTATAGGTTTTTAAA
1 ACATTATAGATTTTTAAA
18211383 GTTTAAGTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.42
Consensus pattern (20 bp):
ACATTATAGATTTTTAAACC
Found at i:18215936 original size:16 final size:16
Alignment explanation
Indices: 18215900--18215938 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
18215890 TTACATTCAC
18215900 TTTTT-TCTTTTTAAT
1 TTTTTATCTTTTTAAT
*
18215915 TTTTTATCTTTTTATT
1 TTTTTATCTTTTTAAT
18215931 TTTTTATC
1 TTTTTATC
18215939 CATTTAACCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 5 0.23
16 17 0.77
ACGTcount: A:0.13, C:0.08, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTTATCTTTTTAAT
Found at i:18216665 original size:28 final size:28
Alignment explanation
Indices: 18216612--18216670 Score: 70
Period size: 26 Copynumber: 2.2 Consensus size: 28
18216602 TTTATTTATT
*
18216612 TTTTTATTTTTACATTTCTAAAAAATAA
1 TTTTTATTTTTACATTTATAAAAAATAA
* *
18216640 TTTTTA-TTTT-CATTTATCAAATA-AA
1 TTTTTATTTTTACATTTATAAAAAATAA
18216665 TTTTTA
1 TTTTTA
18216671 GAAAACAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 8 0.29
26 10 0.36
27 4 0.14
28 6 0.21
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.58
Consensus pattern (28 bp):
TTTTTATTTTTACATTTATAAAAAATAA
Found at i:18218553 original size:22 final size:22
Alignment explanation
Indices: 18218525--18218566 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
18218515 ATTTTTTGTC
*
18218525 CTTAATTATAGGAATACAAACA
1 CTTAATTATAGAAATACAAACA
18218547 CTTAATTATAGAAATACAAA
1 CTTAATTATAGAAATACAAA
18218567 TATAAATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.12, G:0.07, T:0.29
Consensus pattern (22 bp):
CTTAATTATAGAAATACAAACA
Found at i:18218578 original size:22 final size:22
Alignment explanation
Indices: 18218528--18218580 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
18218518 TTTTGTCCTT
* *
18218528 AATTATAGGAATACAAACACTT
1 AATTATAGAAATACAAACACTA
*
18218550 AATTATAGAAATACAAATA-TA
1 AATTATAGAAATACAAACACTA
18218571 AATATATAGA
1 AAT-TATAGA
18218581 TTACAAGATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 4 0.15
22 23 0.85
ACGTcount: A:0.57, C:0.08, G:0.08, T:0.28
Consensus pattern (22 bp):
AATTATAGAAATACAAACACTA
Found at i:18221592 original size:19 final size:20
Alignment explanation
Indices: 18221568--18221610 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
18221558 AAGATATTTG
18221568 ATATACTAAAGAT-ATTGAT
1 ATATACTAAAGATCATTGAT
**
18221587 ATATACTTGAGATCATTGAT
1 ATATACTAAAGATCATTGAT
18221607 ATAT
1 ATAT
18221611 GTGGGAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.42, C:0.07, G:0.12, T:0.40
Consensus pattern (20 bp):
ATATACTAAAGATCATTGAT
Found at i:18224597 original size:39 final size:39
Alignment explanation
Indices: 18224482--18224605 Score: 149
Period size: 39 Copynumber: 3.2 Consensus size: 39
18224472 TCCCTGGAGC
* *
18224482 CACCACATCAAGTCCAATCAGCTAATGACTCACTGGAAT
1 CACCACAGCAAGTCCAATCAGCTAATAACTCACTGGAAT
* * *
18224521 CACTACAGCAAATCCAACCAGCTAATAACTCACTGGAAT
1 CACCACAGCAAGTCCAATCAGCTAATAACTCACTGGAAT
* * * * * *
18224560 CACCACAGCAAGTCCAGTAAGCTCATTAGTCAATGGAAT
1 CACCACAGCAAGTCCAATCAGCTAATAACTCACTGGAAT
18224599 CACCACA
1 CACCACA
18224606 AGAAGCTAAT
Statistics
Matches: 71, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 71 1.00
ACGTcount: A:0.38, C:0.31, G:0.13, T:0.19
Consensus pattern (39 bp):
CACCACAGCAAGTCCAATCAGCTAATAACTCACTGGAAT
Found at i:18226669 original size:2 final size:2
Alignment explanation
Indices: 18226664--18226691 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
18226654 CATTTCAAGA
18226664 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
18226692 TGCTGGGAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18229225 original size:28 final size:29
Alignment explanation
Indices: 18229169--18229226 Score: 75
Period size: 28 Copynumber: 2.0 Consensus size: 29
18229159 ATTAATTGTG
* *
18229169 TCACTAATATTATGACGATTTATCTTTTA
1 TCACTAATATTATCACGATTTATCATTTA
18229198 TCACTAATA-TATCA-GATTTTATCATTTA
1 TCACTAATATTATCACGA-TTTATCATTTA
18229226 T
1 T
18229227 TTTGTAATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 2 0.08
28 15 0.58
29 9 0.35
ACGTcount: A:0.33, C:0.14, G:0.05, T:0.48
Consensus pattern (29 bp):
TCACTAATATTATCACGATTTATCATTTA
Found at i:18229405 original size:26 final size:26
Alignment explanation
Indices: 18229355--18229408 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
18229345 ACAATCATTG
**
18229355 GTGATGATAATTATGTCACTAATACT
1 GTGATGATAATTATGTCAAGAATACT
* *
18229381 GTGATGATAATTGTGTCAAGGATACT
1 GTGATGATAATTATGTCAAGAATACT
18229407 GT
1 GT
18229409 AATGTTTTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.31, C:0.09, G:0.22, T:0.37
Consensus pattern (26 bp):
GTGATGATAATTATGTCAAGAATACT
Found at i:18230571 original size:28 final size:28
Alignment explanation
Indices: 18230539--18230594 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
18230529 ATTTGGTTTA
*
18230539 AGAAAATA-TTTTTATTTCTTTATTTTTT
1 AGAAAATAGTTTTTATTT-TCTATTTTTT
18230567 AGAAAATAGTTTTTATTTTCTATTTTTT
1 AGAAAATAGTTTTTATTTTCTATTTTTT
18230595 GTTTTTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 17 0.65
29 9 0.35
ACGTcount: A:0.29, C:0.04, G:0.05, T:0.62
Consensus pattern (28 bp):
AGAAAATAGTTTTTATTTTCTATTTTTT
Found at i:18235636 original size:3 final size:3
Alignment explanation
Indices: 18235628--18235662 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
18235618 ATCTTATTGC
18235628 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
18235663 GTAAGAACCC
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:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:18236648 original size:2 final size:2
Alignment explanation
Indices: 18236641--18236668 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
18236631 ATACTAGTTC
18236641 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18236669 AACGATGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:18236847 original size:2 final size:2
Alignment explanation
Indices: 18236842--18236882 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
18236832 TTTTAAAGTG
* * *
18236842 TA TA TA TA TA TA TA TA TG TA CA TA TG TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
18236883 TCATCTTACT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (2 bp):
TA
Found at i:18242554 original size:25 final size:25
Alignment explanation
Indices: 18242526--18242576 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
18242516 AAGACTTGTG
*
18242526 CAAGTGTAATTTATTGAAACTTGAT
1 CAAGTGTAACTTATTGAAACTTGAT
18242551 CAAGTGTAACTTATTGAAACTTGAT
1 CAAGTGTAACTTATTGAAACTTGAT
18242576 C
1 C
18242577 TAATTCAATC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (25 bp):
CAAGTGTAACTTATTGAAACTTGAT
Found at i:18248704 original size:2 final size:2
Alignment explanation
Indices: 18248697--18248738 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
18248687 TCATTCATTC
*
18248697 AT AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18248739 TGTAGGTGTA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18250374 original size:22 final size:23
Alignment explanation
Indices: 18250333--18250380 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
18250323 CTCTTATATC
18250333 TCTTTTCTGGTCTTAATC-TTCT
1 TCTTTTCTGGTCTTAATCTTTCT
*
18250355 TCTTTTCTGGTC-TATTTCTTTCT
1 TCTTTTCTGGTCTTA-ATCTTTCT
18250378 TCT
1 TCT
18250381 CTTATTTAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 2 0.09
22 14 0.61
23 7 0.30
ACGTcount: A:0.06, C:0.23, G:0.08, T:0.62
Consensus pattern (23 bp):
TCTTTTCTGGTCTTAATCTTTCT
Found at i:18255323 original size:17 final size:17
Alignment explanation
Indices: 18255281--18255323 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
18255271 TTTTAAATTA
* *
18255281 TATTATTTTTATTTTTT
1 TATTATATTAATTTTTT
18255298 TATTCATATTAATTTTTT
1 TATT-ATATTAATTTTTT
18255316 TATTATAT
1 TATTATAT
18255324 CGATATATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (17 bp):
TATTATATTAATTTTTT
Found at i:18256525 original size:18 final size:18
Alignment explanation
Indices: 18256487--18256525 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
18256477 TTGGAGATGT
* *
18256487 TCAAGGTGGCCAGGGTGG
1 TCAAGGTGGCCAAGGTAG
18256505 TCAAGGTGGCCAAGGTAG
1 TCAAGGTGGCCAAGGTAG
18256523 TCA
1 TCA
18256526 GAGTGTTGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.23, C:0.18, G:0.41, T:0.18
Consensus pattern (18 bp):
TCAAGGTGGCCAAGGTAG
Found at i:18258506 original size:22 final size:22
Alignment explanation
Indices: 18258480--18258521 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
18258470 TATATTTATA
*
18258480 TTTGTATCTCTAGAATTAAGTC
1 TTTGTATCCCTAGAATTAAGTC
18258502 TTTGTATCCCTAGAATTAAG
1 TTTGTATCCCTAGAATTAAG
18258522 GAAGATTTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (22 bp):
TTTGTATCCCTAGAATTAAGTC
Found at i:18262379 original size:22 final size:22
Alignment explanation
Indices: 18262354--18262397 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
18262344 TGTATATTTA
* *
18262354 TATTTGTATATCTAGAATTAAG
1 TATTTATATACCTAGAATTAAG
*
18262376 TATTTATATCCCTAGAATTAAG
1 TATTTATATACCTAGAATTAAG
18262398 AAAGATTTAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.36, C:0.09, G:0.11, T:0.43
Consensus pattern (22 bp):
TATTTATATACCTAGAATTAAG
Found at i:18266701 original size:3 final size:3
Alignment explanation
Indices: 18266693--18266747 Score: 87
Period size: 3 Copynumber: 18.7 Consensus size: 3
18266683 CTAAAAACTA
18266693 AAT AAT AAT AAT AAT AAT AA- AAT AA- ATAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT
18266737 AAT AAT AAT AA
1 AAT AAT AAT AA
18266748 GAAACTATTT
Statistics
Matches: 49, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
2 3 0.06
3 45 0.92
4 1 0.02
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:18267155 original size:10 final size:10
Alignment explanation
Indices: 18267140--18267165 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
18267130 AAAATTATCT
18267140 TTTTAATAAA
1 TTTTAATAAA
18267150 TTTTAATAAA
1 TTTTAATAAA
18267160 TTTTAA
1 TTTTAA
18267166 GATTTTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (10 bp):
TTTTAATAAA
Found at i:18267583 original size:86 final size:87
Alignment explanation
Indices: 18267478--18267636 Score: 218
Period size: 86 Copynumber: 1.8 Consensus size: 87
18267468 AATCACTTGG
* * * *
18267478 TGGTGATATCCAAAGTCATTTGTATTTCTTTTA-TGGTAATA-TCAGAGTTTTTTTTG-TGGCAG
1 TGGTGATATCCAAAGTCATTTGTATTT-TTTTAGTGATAATATTCA-AGTTTTTTTCGATAGCAA
18267540 TATCTAAAGTATTCTATTTTTTTA
64 TATCTAAAGTATTCTATTTTTTTA
*
18267564 TGGTGATATCCGAAA-TCATTTGTATTTTTTTAGTGATGATATTCAAGTTTTTTTCGATAGCAAT
1 TGGTGATATCC-AAAGTCATTTGTATTTTTTTAGTGATAATATTCAAGTTTTTTTCGATAGCAAT
18267628 ATCTAAAGT
65 ATCTAAAGT
18267637 CATCTTGCAT
Statistics
Matches: 64, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
85 5 0.08
86 39 0.61
87 20 0.31
ACGTcount: A:0.26, C:0.09, G:0.16, T:0.48
Consensus pattern (87 bp):
TGGTGATATCCAAAGTCATTTGTATTTTTTTAGTGATAATATTCAAGTTTTTTTCGATAGCAATA
TCTAAAGTATTCTATTTTTTTA
Found at i:18267752 original size:57 final size:58
Alignment explanation
Indices: 18267568--18267783 Score: 187
Period size: 57 Copynumber: 3.8 Consensus size: 58
18267558 TTTTTATGGT
* * * * *
18267568 GATATCCGAAATCATTTGTATTTT-TTTAGTGATGATATTCAAGTTTTTTTCGATAGC
1 GATATCCGAAGTCATTTGCATTTTCTCTAGTGGTGATATCCAAGTTTTTTTCGATAGC
* ** * **** *
18267625 AATATCTAAAGTCATCTTGCATTTTC-CTTAATGGTGATATCCAAAAAATTTT-GATTGC
1 GATATCCGAAGTCAT-TTGCATTTTCTC-TAGTGGTGATATCCAAGTTTTTTTCGATAGC
*
18267683 -AGTATTTC-AAGTCATTTGCATTTTCTCT-GTGGTGATATCCAAGTTTTTTTCGATAGC
1 GA-TA-TCCGAAGTCATTTGCATTTTCTCTAGTGGTGATATCCAAGTTTTTTTCGATAGC
* *
18267740 GATATCCGAAGTCGTTTACATTTTCT-TAGTGGTGATAT-CAAGTT
1 GATATCCGAAGTCATTTGCATTTTCTCTAGTGGTGATATCCAAGTT
18267784 CTCTTTGGTG
Statistics
Matches: 124, Mismatches: 25, Indels: 21
0.73 0.15 0.12
Matches are distributed among these distances:
56 26 0.21
57 56 0.45
58 24 0.19
59 18 0.15
ACGTcount: A:0.26, C:0.14, G:0.16, T:0.44
Consensus pattern (58 bp):
GATATCCGAAGTCATTTGCATTTTCTCTAGTGGTGATATCCAAGTTTTTTTCGATAGC
Found at i:18268614 original size:18 final size:17
Alignment explanation
Indices: 18268583--18268632 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
18268573 AAAAACTAAA
**
18268583 AAAAAAATCCAAAAATCG
1 AAAAAAATTAAAAAAT-G
*
18268601 AAAAAAATTAAAAAAATT
1 AAAAAAATT-AAAAAATG
18268619 AAAAAAATTAAAAA
1 AAAAAAATTAAAAA
18268633 CTTAAAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 5 0.18
18 17 0.61
19 6 0.21
ACGTcount: A:0.76, C:0.06, G:0.02, T:0.16
Consensus pattern (17 bp):
AAAAAAATTAAAAAATG
Found at i:18268640 original size:9 final size:9
Alignment explanation
Indices: 18268601--18268641 Score: 66
Period size: 9 Copynumber: 4.7 Consensus size: 9
18268591 CCAAAAATCG
18268601 AAAAAAATT
1 AAAAAAATT
18268610 AAAAAAATT
1 AAAAAAATT
18268619 AAAAAAATT
1 AAAAAAATT
*
18268628 -AAAAACTT
1 AAAAAAATT
18268636 AAAAAA
1 AAAAAA
18268642 TCCAAAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
8 7 0.23
9 23 0.77
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (9 bp):
AAAAAAATT
Found at i:18268640 original size:18 final size:18
Alignment explanation
Indices: 18268601--18268641 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
18268591 CCAAAAATCG
18268601 AAAAAAATTAAAAAAATT
1 AAAAAAATTAAAAAAATT
*
18268619 AAAAAAATT-AAAAACTT
1 AAAAAAATTAAAAAAATT
18268636 AAAAAA
1 AAAAAA
18268642 TCCAAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (18 bp):
AAAAAAATTAAAAAAATT
Found at i:18271278 original size:16 final size:17
Alignment explanation
Indices: 18271257--18271296 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
18271247 GTACTTAGGC
18271257 TATTCATGAACTTA-GA
1 TATTCATGAACTTATGA
*
18271273 TATTCATGAATTTATGA
1 TATTCATGAACTTATGA
18271290 TATTCAT
1 TATTCAT
18271297 ACACTTAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.45
Consensus pattern (17 bp):
TATTCATGAACTTATGA
Found at i:18271668 original size:2 final size:2
Alignment explanation
Indices: 18271661--18271693 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
18271651 AAATTCTACA
18271661 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
18271694 ATACAAACCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18272589 original size:20 final size:18
Alignment explanation
Indices: 18272564--18272606 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
18272554 TATAGAAAAT
18272564 AATAATCATTTTTATGTTAA
1 AATAATCA-TTTTAT-TTAA
*
18272584 AATAATTATTTTATTTAA
1 AATAATCATTTTATTTAA
18272602 AATAA
1 AATAA
18272607 AATTAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 9 0.41
19 6 0.27
20 7 0.32
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (18 bp):
AATAATCATTTTATTTAA
Found at i:18272610 original size:20 final size:22
Alignment explanation
Indices: 18272559--18272611 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 22
18272549 GACAATATAG
*
18272559 AAAATAATAATCATTTTTATGTT
1 AAAATAA-AATTATTTTTATGTT
18272582 AAAAT--AATTA-TTTTAT-TT
1 AAAATAAAATTATTTTTATGTT
18272600 AAAATAAAATTA
1 AAAATAAAATTA
18272612 AAAAAAAAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
18 7 0.26
19 6 0.22
20 9 0.33
23 5 0.19
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (22 bp):
AAAATAAAATTATTTTTATGTT
Found at i:18273155 original size:24 final size:25
Alignment explanation
Indices: 18273128--18273175 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
18273118 AAAATCAAGA
*
18273128 GTAAAAATGAT-AATTTTTTATTTC
1 GTAAAAATGATAAAATTTTTATTTC
* *
18273152 GTAATAATTATAAAATTTTTATTT
1 GTAAAAATGATAAAATTTTTATTT
18273176 TTTTATTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.52
Consensus pattern (25 bp):
GTAAAAATGATAAAATTTTTATTTC
Found at i:18275318 original size:22 final size:21
Alignment explanation
Indices: 18275292--18275332 Score: 73
Period size: 22 Copynumber: 1.9 Consensus size: 21
18275282 GGGTTTTTAA
18275292 AATTTTGGATTTTAAGGTTTGG
1 AATTTTGGATTTT-AGGTTTGG
18275314 AATTTTGGATTTTAGGTTT
1 AATTTTGGATTTTAGGTTT
18275333 AGGGTTTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.22, C:0.00, G:0.24, T:0.54
Consensus pattern (21 bp):
AATTTTGGATTTTAGGTTTGG
Found at i:18275395 original size:7 final size:7
Alignment explanation
Indices: 18275385--18275452 Score: 55
Period size: 7 Copynumber: 9.7 Consensus size: 7
18275375 TAGAGTTTGA
18275385 GGTTTAG
1 GGTTTAG
*
18275392 GGTTTTG
1 GGTTTAG
**
18275399 ATTTTAG
1 GGTTTAG
18275406 GGTTTAG
1 GGTTTAG
*
18275413 GGTTTCG
1 GGTTTAG
**
18275420 ACTTTAG
1 GGTTTAG
*
18275427 GGTTTAA
1 GGTTTAG
*
18275434 GGTTTCG
1 GGTTTAG
*
18275441 GTTTTAG
1 GGTTTAG
18275448 GGTTT
1 GGTTT
18275453 TAAAGGTCTA
Statistics
Matches: 43, Mismatches: 18, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
7 43 1.00
ACGTcount: A:0.13, C:0.04, G:0.34, T:0.49
Consensus pattern (7 bp):
GGTTTAG
Found at i:18275410 original size:28 final size:27
Alignment explanation
Indices: 18275314--18275413 Score: 101
Period size: 28 Copynumber: 3.6 Consensus size: 27
18275304 TAAGGTTTGG
* * *
18275314 AATTTTGGATTTTAGGTTTAGGGTTTC
1 AATTTTAGAGTTTAGGTTTAGGGTTTT
* *
18275341 AAGTTTTAGAGTTTAGTGTTCAGGTTTTT
1 AA-TTTTAGAGTTTAG-GTTTAGGGTTTT
*
18275370 TATTTTAGAGTTTGAGGTTTAGGGTTTT
1 AATTTTAGAGTTT-AGGTTTAGGGTTTT
* *
18275398 GATTTTAGGGTTTAGG
1 AATTTTAGAGTTTAGG
18275414 GTTTCGACTT
Statistics
Matches: 60, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
27 5 0.08
28 43 0.72
29 12 0.20
ACGTcount: A:0.19, C:0.02, G:0.28, T:0.51
Consensus pattern (27 bp):
AATTTTAGAGTTTAGGTTTAGGGTTTT
Found at i:18275411 original size:21 final size:21
Alignment explanation
Indices: 18275385--18275452 Score: 100
Period size: 21 Copynumber: 3.2 Consensus size: 21
18275375 TAGAGTTTGA
*
18275385 GGTTTAGGGTTTTGATTTTAG
1 GGTTTAGGGTTTCGATTTTAG
*
18275406 GGTTTAGGGTTTCGACTTTAG
1 GGTTTAGGGTTTCGATTTTAG
* *
18275427 GGTTTAAGGTTTCGGTTTTAG
1 GGTTTAGGGTTTCGATTTTAG
18275448 GGTTT
1 GGTTT
18275453 TAAAGGTCTA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.13, C:0.04, G:0.34, T:0.49
Consensus pattern (21 bp):
GGTTTAGGGTTTCGATTTTAG
Found at i:18275493 original size:29 final size:28
Alignment explanation
Indices: 18275456--18275818 Score: 185
Period size: 29 Copynumber: 12.5 Consensus size: 28
18275446 AGGGTTTTAA
* *
18275456 AGGTCTAGGGTTTCATTTTTAAAGTTTGG
1 AGGTTTAGGGTTTCA-TTTTAAGGTTTGG
* * * **
18275485 AGGTTTAGGGTTTAACTTTAGGGTTTAT
1 AGGTTTAGGGTTTCATTTTAAGGTTTGG
* * * *
18275513 AGGGTTGAAGGCTTAATTTTAAGGTTTGG
1 A-GGTTTAGGGTTTCATTTTAAGGTTTGG
* * **
18275542 AGGTTTA-GATTATGATTTTCAA-GTTTAAA
1 AGGTTTAGGGTT-TCATTTT-AAGGTTT-GG
* * **
18275571 AGGTTTAAGGTTTCATTTTAGGGTTCAG
1 AGGTTTAGGGTTTCATTTTAAGGTTTGG
* *
18275599 AGGTTTGGGGTTTAATTTTAAGGTTTGG
1 AGGTTTAGGGTTTCATTTTAAGGTTTGG
* * * *
18275627 AGGGTTTAAGGTTTTGATTTTAGGGTTTGA
1 A-GGTTT-AGGGTTTCATTTTAAGGTTTGG
18275657 AGGGTTTAGGGTTTCATTTT-AGAGTTTAGAG
1 A-GGTTTAGGGTTTCATTTTAAG-GTTT-G-G
**
18275688 ATTTTTGAGGGTTTCATTTCT-AGGTTTGG
1 AGGTTT-AGGGTTTCATTT-TAAGGTTTGG
* * *
18275717 AGGTTTGGGGTTTCATTTTAGGGTTTGA
1 AGGTTTAGGGTTTCATTTTAAGGTTTGG
** * * *
18275745 AGGGTTTAGCATTTGGATTTTAGGGTTTTG
1 A-GGTTTAGGGTTT-CATTTTAAGGTTTGG
* * *
18275775 AGGGTTTAGGGTTTTATTTTTAGGGTTTGT
1 A-GGTTTAGGGTTTCA-TTTTAAGGTTTGG
*
18275805 AGTGTTTATGGTTT
1 AG-GTTTAGGGTTT
18275819 AGTTTATAGG
Statistics
Matches: 257, Mismatches: 59, Indels: 35
0.73 0.17 0.10
Matches are distributed among these distances:
27 3 0.01
28 68 0.26
29 88 0.34
30 78 0.30
31 17 0.07
32 3 0.01
ACGTcount: A:0.20, C:0.03, G:0.31, T:0.46
Consensus pattern (28 bp):
AGGTTTAGGGTTTCATTTTAAGGTTTGG
Found at i:18275591 original size:86 final size:87
Alignment explanation
Indices: 18275485--18275687 Score: 241
Period size: 87 Copynumber: 2.3 Consensus size: 87
18275475 TAAAGTTTGG
* * *
18275485 AGGTTTAGGGTTTAACTTTAGGGTTTATAGGGTTGAAGGCTTAATTTTAAGGTTTGGA-GGTTT-
1 AGGTTTAGGGTTTCATTTTAGGGTTTAGAGGGTTG-AGGCTTAATTTTAAGGTTTGGAGGGTTTA
18275548 AGATTATGATTTTCA-AGTTTAAA
65 AGATTATGATTTT-AGAGTTTAAA
* * * * *
18275571 AGGTTTAAGGTTTCATTTTAGGGTTCAGAGGTTTGGGGTTTAATTTTAAGGTTTGGAGGGTTTAA
1 AGGTTTAGGGTTTCATTTTAGGGTTTAGAGGGTTGAGGCTTAATTTTAAGGTTTGGAGGGTTTAA
* * * *
18275636 GGTTTTGATTTTAGGGTTTGAA
66 GATTATGATTTTAGAGTTTAAA
* *
18275658 GGGTTTAGGGTTTCATTTTAGAGTTTAGAG
1 AGGTTTAGGGTTTCATTTTAGGGTTTAGAG
18275688 ATTTTTGAGG
Statistics
Matches: 98, Mismatches: 16, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
85 20 0.20
86 35 0.36
87 43 0.44
ACGTcount: A:0.23, C:0.03, G:0.30, T:0.44
Consensus pattern (87 bp):
AGGTTTAGGGTTTCATTTTAGGGTTTAGAGGGTTGAGGCTTAATTTTAAGGTTTGGAGGGTTTAA
GATTATGATTTTAGAGTTTAAA
Found at i:18275636 original size:16 final size:16
Alignment explanation
Indices: 18275615--18275670 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 16
18275605 GGGGTTTAAT
18275615 TTTAAGGTTTGGAGGG
1 TTTAAGGTTTGGAGGG
* *
18275631 TTTAAGGTTTTGA--T
1 TTTAAGGTTTGGAGGG
* *
18275645 TTTAGGGTTTGAAGGG
1 TTTAAGGTTTGGAGGG
*
18275661 TTTAGGGTTT
1 TTTAAGGTTT
18275671 CATTTTAGAG
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
14 10 0.31
16 22 0.69
ACGTcount: A:0.18, C:0.00, G:0.36, T:0.46
Consensus pattern (16 bp):
TTTAAGGTTTGGAGGG
Found at i:18275654 original size:30 final size:30
Alignment explanation
Indices: 18275425--18275872 Score: 165
Period size: 30 Copynumber: 15.3 Consensus size: 30
18275415 TTTCGACTTT
* * **
18275425 AGGGTTTAAGGTTTCGGTTTTAGGGTTTTA
1 AGGGTTTAAGGTTTTGATTTTAGGGTTTGG
* * * * **
18275455 AAGGTCT-AGGGTTTCATTTTTAAAGTTTGG
1 AGGGTTTAAGGTTTTGA-TTTTAGGGTTTGG
* * * **
18275485 A-GGTTT-AGGGTTTAACTTTAGGGTTTAT
1 AGGGTTTAAGGTTTTGATTTTAGGGTTTGG
* * * *
18275513 AGGGTTGAAGG-CTTAATTTTAAGGTTTGG
1 AGGGTTTAAGGTTTTGATTTTAGGGTTTGG
* * * **
18275542 A-GGTTT-AGATTATGATTTTCA-AGTTTAA
1 AGGGTTTAAGGTTTTGATTTT-AGGGTTTGG
* * **
18275570 AAGGTTTAAGG-TTTCATTTTAGGGTTCAG
1 AGGGTTTAAGGTTTTGATTTTAGGGTTTGG
* * * *
18275599 A-GGTTT-GGGGTTTAATTTTAAGGTTTGG
1 AGGGTTTAAGGTTTTGATTTTAGGGTTTGG
*
18275627 AGGGTTTAAGGTTTTGATTTTAGGGTTTGA
1 AGGGTTTAAGGTTTTGATTTTAGGGTTTGG
* * * *
18275657 AGGGTTT-AGGGTTTCATTTTAGAGTTTAG
1 AGGGTTTAAGGTTTTGATTTTAGGGTTTGG
** * * *
18275686 AGATTTTTGAGGGTTTCATTTCTA-GGTTTGG
1 AG-GGTTTAAGGTTTTGATTT-TAGGGTTTGG
* * * *
18275717 A-GGTTT-GGGGTTTCATTTTAGGGTTTGA
1 AGGGTTTAAGGTTTTGATTTTAGGGTTTGG
* * *
18275745 AGGGTTT-AGCATTTGGATTTTAGGGTTTTG
1 AGGGTTTAAG-GTTTTGATTTTAGGGTTTGG
* *
18275775 AGGGTTTAGGGTTTT-ATTTTTAGGGTTTGT
1 AGGGTTTAAGGTTTTGA-TTTTAGGGTTTGG
* * * *
18275805 AGTGTTTATGGTTTAG-TTTATAGGGTTTTG
1 AGGGTTTAAGGTTTTGATTT-TAGGGTTTGG
* * * * *
18275835 AGGATTTAAGATTTCGTTTTTAGGGTTTGA
1 AGGGTTTAAGGTTTTGATTTTAGGGTTTGG
*
18275865 AGTGTTTA
1 AGGGTTTA
18275873 GAGTTTAAAG
Statistics
Matches: 310, Mismatches: 86, Indels: 44
0.70 0.20 0.10
Matches are distributed among these distances:
27 6 0.02
28 63 0.20
29 90 0.29
30 127 0.41
31 22 0.07
32 2 0.01
ACGTcount: A:0.20, C:0.03, G:0.30, T:0.46
Consensus pattern (30 bp):
AGGGTTTAAGGTTTTGATTTTAGGGTTTGG
Found at i:18275676 original size:59 final size:58
Alignment explanation
Indices: 18275572--18275842 Score: 196
Period size: 59 Copynumber: 4.6 Consensus size: 58
18275562 AAGTTTAAAA
* * * *
18275572 GGTTTAAGG-TTTCATTTTAGGG-TTCAGAGGTTTGGGGTTTAATTTTAAGGTTTGGAG
1 GGTTTAAGGTTTTGATTTTAGGGTTTGAG-GGTTTAGGGTTTCATTTTAAGGTTTGGAG
*
18275629 GGTTTAAGGTTTTGATTTTAGGGTTTGAAGGGTTTAGGGTTTCATTTT-AGAGTTTAGAG
1 GGTTTAAGGTTTTGATTTTAGGGTTTG-AGGGTTTAGGGTTTCATTTTAAG-GTTTGGAG
** * * * * * *
18275688 ATTTTTGAGGGTTTCATTTCTA-GGTTTG-GAGGTTTGGGGTTTCATTTTAGGGTTTGAAG
1 -GGTTTAAGGTTTTGATTT-TAGGGTTTGAG-GGTTTAGGGTTTCATTTTAAGGTTTGGAG
* * * * *
18275747 GGTTT-AGCATTTGGATTTTAGGGTTTTGAGGGTTTAGGGTTTTATTTTTAGGGTTTGTAG
1 GGTTTAAG-GTTTTGATTTTAGGG-TTTGAGGGTTTAGGGTTTCA-TTTTAAGGTTTGGAG
* * * *
18275807 TGTTTATGGTTTAG-TTTATAGGGTTTTGAGGATTTA
1 GGTTTAAGGTTTTGATTT-TAGGG-TTTGAGGGTTTA
18275843 AGATTTCGTT
Statistics
Matches: 171, Mismatches: 28, Indels: 27
0.76 0.12 0.12
Matches are distributed among these distances:
57 13 0.08
58 26 0.15
59 67 0.39
60 62 0.36
61 3 0.02
ACGTcount: A:0.18, C:0.03, G:0.32, T:0.48
Consensus pattern (58 bp):
GGTTTAAGGTTTTGATTTTAGGGTTTGAGGGTTTAGGGTTTCATTTTAAGGTTTGGAG
Found at i:18275724 original size:118 final size:114
Alignment explanation
Indices: 18275449--18275794 Score: 326
Period size: 118 Copynumber: 3.0 Consensus size: 114
18275439 CGGTTTTAGG
* * * * *
18275449 GTTTTAAAGGTCTAGGGTTTCATTTTTAAAGTTTGGAGGTTTAGGGTTTAACTTTAGGGTTT-AT
1 GTTTAAAAGGTTTAGGGTTTCA-TTTT-AGGTTTGGAGGTTTGGGGTTTAATTTTAGGGTTTGA-
* * * * * *
18275513 AGGGTTGAAGG-CTTAATTTTAAGGTTTG-GAGGTTTA-GATTATGATTTTCAA
63 AGGGTTTAAGGTTTTGATTTTAGGGTTTGAG-GGTTTAGGGTT-TCATTTTCAA
* ** * *
18275564 GTTTAAAAGGTTTAAGGTTTCATTTTAGGGTTCAGAGGTTTGGGGTTTAATTTTAAGGTTTGGAG
1 GTTTAAAAGGTTTAGGGTTTCATTTTA-GGTTTGGAGGTTTGGGGTTTAATTTTAGGGTTTGAAG
18275629 GGTTTAAGGTTTTGATTTTAGGGTTTGAAGGGTTTAGGGTTTCATTTT-AGA
65 GGTTTAAGGTTTTGATTTTAGGGTTTG-AGGGTTTAGGGTTTCATTTTCA-A
* ** *
18275680 GTTTAGAGATTTTTGAGGGTTTCATTTCTAGGTTTGGAGGTTTGGGGTTTCATTTTAGGGTTTGA
1 GTTTA-AAAGGTTT-AGGGTTTCATTT-TAGGTTTGGAGGTTTGGGGTTTAATTTTAGGGTTTGA
* * *
18275745 AGGGTTT-AGCATTTGGATTTTAGGGTTTTGAGGGTTTAGGGTTTTATTTT
63 AGGGTTTAAG-GTTTTGATTTTAGGG-TTTGAGGGTTTAGGGTTTCATTTT
18275795 TAGGGTTTGT
Statistics
Matches: 191, Mismatches: 28, Indels: 21
0.80 0.12 0.09
Matches are distributed among these distances:
113 1 0.01
114 41 0.21
115 34 0.18
116 18 0.09
117 11 0.06
118 80 0.42
119 6 0.03
ACGTcount: A:0.21, C:0.03, G:0.30, T:0.46
Consensus pattern (114 bp):
GTTTAAAAGGTTTAGGGTTTCATTTTAGGTTTGGAGGTTTGGGGTTTAATTTTAGGGTTTGAAGG
GTTTAAGGTTTTGATTTTAGGGTTTGAGGGTTTAGGGTTTCATTTTCAA
Found at i:18275798 original size:14 final size:15
Alignment explanation
Indices: 18275762--18275833 Score: 67
Period size: 14 Copynumber: 4.8 Consensus size: 15
18275752 AGCATTTGGA
*
18275762 TTTTAGGGTTTTGAGG
1 TTTTAGGGTTTT-AGT
*
18275778 GTTTAGGGTTTTA-T
1 TTTTAGGGTTTTAGT
18275792 TTTTAGGGTTTGTAGT
1 TTTTAGGGTTT-TAGT
* *
18275808 GTTTATGG-TTTAGT
1 TTTTAGGGTTTTAGT
*
18275822 TTATAGGGTTTT
1 TTTTAGGGTTTT
18275834 GAGGATTTAA
Statistics
Matches: 45, Mismatches: 8, Indels: 7
0.75 0.13 0.12
Matches are distributed among these distances:
14 19 0.42
15 8 0.18
16 18 0.40
ACGTcount: A:0.14, C:0.00, G:0.31, T:0.56
Consensus pattern (15 bp):
TTTTAGGGTTTTAGT
Found at i:18275812 original size:60 final size:57
Alignment explanation
Indices: 18275573--18275878 Score: 228
Period size: 60 Copynumber: 5.2 Consensus size: 57
18275563 AGTTTAAAAG
* ** * * * * *
18275573 GTTTAAGGTTTCATTTTAGGGTTCAGA-GGTTTGGGGTTTAATTTTAAGGTTTGGAGG
1 GTTT-AGGTTTGATTTTAGGGTTTTGAGGGTTTAGGGTTTCATTTTAGGGTTTGAAGT
*
18275630 GTTTAAGGTTTTGATTTTAGGG-TTTGAAGGGTTTAGGGTTTCATTTTAGAGTTT-AGAGAT
1 GTTT-AGG-TTTGATTTTAGGGTTTTG-AGGGTTTAGGGTTTCATTTTAGGGTTTGA-AG-T
* * * * *
18275690 TTTTGAGGGTTTCATTTCTA-GGTTTGGA-GGTTTGGGGTTTCATTTTAGGGTTTGAAGG
1 GTTT-A-GGTTTGATTT-TAGGGTTTTGAGGGTTTAGGGTTTCATTTTAGGGTTTGAAGT
* * *
18275748 GTTTAGCATTTGGATTTTAGGGTTTTGAGGGTTTAGGGTTTTATTTTTAGGGTTTGTAGT
1 GTTTAG-GTTT-GATTTTAGGGTTTTGAGGGTTTAGGGTTTCA-TTTTAGGGTTTGAAGT
* * * *
18275808 GTTTATGGTTT-AGTTTATAGGGTTTTGAGGATTTAAGATTTCGTTTTTAGGGTTTGAAGT
1 GTTTA-GGTTTGA-TTT-TAGGGTTTTGAGGGTTTAGGGTTTC-ATTTTAGGGTTTGAAGT
18275868 GTTTAGAGTTT
1 GTTTAG-GTTT
18275879 AAAGAAAATA
Statistics
Matches: 199, Mismatches: 31, Indels: 35
0.75 0.12 0.13
Matches are distributed among these distances:
56 1 0.01
57 16 0.08
58 28 0.14
59 64 0.32
60 82 0.41
61 8 0.04
ACGTcount: A:0.18, C:0.03, G:0.31, T:0.48
Consensus pattern (57 bp):
GTTTAGGTTTGATTTTAGGGTTTTGAGGGTTTAGGGTTTCATTTTAGGGTTTGAAGT
Found at i:18275832 original size:118 final size:116
Alignment explanation
Indices: 18275573--18275874 Score: 308
Period size: 118 Copynumber: 2.6 Consensus size: 116
18275563 AGTTTAAAAG
* * * * *
18275573 GTTTAAGGTTTCATTTTAGGGTTCAGAGGTTTGGGGTTTAATTTTAAGGTTTGGAGGGTTTAAGG
1 GTTTAAGGTTTCATTTTAGGGTTTAGAGGTTTGGGGTTTCATTTTAGGGTTTGAAGGGTTT-AGA
*
18275638 TTTTGATTTTAGGGTTTGAAGGGTTTAGGGTTTCATTTTAGAGTTTAGAGAT
65 TTTGGATTTTAGGGTTTGAAGGGTTTAGGGTTTCATTTTAGAGTTTAGAGAT
* * *
18275690 TTTTGAGGGTTTCATTTCTA-GGTTTGGAGGTTTGGGGTTTCATTTTAGGGTTTGAAGGGTTTAG
1 GTTT-AAGGTTTCATTT-TAGGGTTTAGAGGTTTGGGGTTTCATTTTAGGGTTTGAAGGGTTTAG
* *
18275754 CATTTGGATTTTAGGGTTTTG-AGGGTTTAGGGTTTTATTTTTAGGGTTT-GTAG-T
64 -ATTTGGATTTTAGGG-TTTGAAGGGTTTAGGGTTTCA-TTTTAGAGTTTAG-AGAT
* * ** * * *
18275808 GTTTATGGTTT-AGTTTATAGGGTTTTGAGGATTTAAGATTTCGTTTTTAGGGTTTGAAGTGTTT
1 GTTTAAGGTTTCA-TTT-TAGGGTTTAGAGG-TTTGGGGTTTC-ATTTTAGGGTTTGAAGGGTTT
18275872 AGA
62 AGA
18275875 GTTTAAAGAA
Statistics
Matches: 155, Mismatches: 20, Indels: 18
0.80 0.10 0.09
Matches are distributed among these distances:
116 1 0.01
117 16 0.10
118 90 0.58
119 27 0.17
120 21 0.14
ACGTcount: A:0.18, C:0.03, G:0.31, T:0.48
Consensus pattern (116 bp):
GTTTAAGGTTTCATTTTAGGGTTTAGAGGTTTGGGGTTTCATTTTAGGGTTTGAAGGGTTTAGAT
TTGGATTTTAGGGTTTGAAGGGTTTAGGGTTTCATTTTAGAGTTTAGAGAT
Found at i:18276181 original size:3 final size:3
Alignment explanation
Indices: 18276175--18276290 Score: 88
Period size: 3 Copynumber: 41.0 Consensus size: 3
18276165 TATTCAAATT
* *
18276175 TTA TTA TTA TT- TTT TTA -GA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
** * * *
18276221 TTA TTA TTA TT- TTA GCA TT- TT- TTA TTT TTT TTA GTTA TTA -TC
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
18276263 TTA TT- TTA TT- TTCA TT- TTA TTA TTA TTA
1 TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA
18276291 AAAATAACTA
Statistics
Matches: 92, Mismatches: 11, Indels: 20
0.75 0.09 0.16
Matches are distributed among these distances:
2 16 0.17
3 71 0.77
4 5 0.05
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:18277023 original size:6 final size:6
Alignment explanation
Indices: 18277012--18277056 Score: 51
Period size: 6 Copynumber: 7.8 Consensus size: 6
18277002 GAGAGGACTG
*
18277012 TGTTTT TGTTTT TGTTTT TGTCTTT T-ATTT TG-TTT T-TTTT TGTTT
1 TGTTTT TGTTTT TGTTTT TGT-TTT TGTTTT TGTTTT TGTTTT TGTTT
18277057 GGTTATTATT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
5 12 0.35
6 18 0.53
7 4 0.12
ACGTcount: A:0.02, C:0.02, G:0.13, T:0.82
Consensus pattern (6 bp):
TGTTTT
Found at i:18277308 original size:10 final size:10
Alignment explanation
Indices: 18277293--18277319 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
18277283 TAGGAGCGTG
18277293 GGTGGCTAGT
1 GGTGGCTAGT
18277303 GGTGGCTAGT
1 GGTGGCTAGT
18277313 GGTGGCT
1 GGTGGCT
18277320 GCAAAGTGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.07, C:0.11, G:0.52, T:0.30
Consensus pattern (10 bp):
GGTGGCTAGT
Found at i:18277380 original size:11 final size:11
Alignment explanation
Indices: 18277364--18277388 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
18277354 CATTCTACCA
18277364 TTTTTTGTTTT
1 TTTTTTGTTTT
18277375 TTTTTTGTTTT
1 TTTTTTGTTTT
18277386 TTT
1 TTT
18277389 ATTATAAATA
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:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (11 bp):
TTTTTTGTTTT
Found at i:18277447 original size:19 final size:19
Alignment explanation
Indices: 18277423--18277461 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
18277413 TTAAACCAAT
*
18277423 ATTATTATTATTATTAAAA
1 ATTATTATTATTACTAAAA
18277442 ATTATTATTATTACTAAAA
1 ATTATTATTATTACTAAAA
18277461 A
1 A
18277462 AAATTGTAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (19 bp):
ATTATTATTATTACTAAAA
Found at i:18277463 original size:22 final size:22
Alignment explanation
Indices: 18277422--18277466 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
18277412 ATTAAACCAA
* **
18277422 TATTATTATTATTATTAAAAAT
1 TATTATTATTACTAAAAAAAAT
18277444 TATTATTATTACTAAAAAAAAT
1 TATTATTATTACTAAAAAAAAT
18277466 T
1 T
18277467 GTAGACCGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (22 bp):
TATTATTATTACTAAAAAAAAT
Found at i:18278029 original size:27 final size:27
Alignment explanation
Indices: 18277997--18278049 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
18277987 TTTTATATCC
* *
18277997 ACTTTTGGTCTTTTTGTGCAATTATAG
1 ACTTTTAGTCTGTTTGTGCAATTATAG
18278024 ACTTTTAGTCTGTTTGTGCAATTATA
1 ACTTTTAGTCTGTTTGTGCAATTATA
18278050 TGGAAAAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.21, C:0.11, G:0.17, T:0.51
Consensus pattern (27 bp):
ACTTTTAGTCTGTTTGTGCAATTATAG
Found at i:18282660 original size:3 final size:3
Alignment explanation
Indices: 18282654--18282685 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
18282644 ATTATTATTA
18282654 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
18282686 CCATTTTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:18283667 original size:15 final size:16
Alignment explanation
Indices: 18283632--18283667 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
18283622 AATATTAATG
18283632 ATAAAT-TTTAAAATA
1 ATAAATATTTAAAATA
18283647 AT-AATATTTAAAA-A
1 ATAAATATTTAAAATA
18283661 ATAAATA
1 ATAAATA
18283668 AAAAATTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
ATAAATATTTAAAATA
Found at i:18284678 original size:3 final size:3
Alignment explanation
Indices: 18284652--18284695 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
18284642 GATGATGATG
* * * *
18284652 ATA ATG ATA ATG ATG ATA AGA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
18284696 TTAGGATGAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:18285664 original size:3 final size:3
Alignment explanation
Indices: 18285658--18285723 Score: 132
Period size: 3 Copynumber: 22.0 Consensus size: 3
18285648 CAAAAAAAAA
18285658 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
18285706 GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT
18285724 AATAATAATA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:18285728 original size:3 final size:3
Alignment explanation
Indices: 18285722--18285756 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
18285712 GATGATGATG
18285722 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
18285757 TTAGGATGAT
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:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:18286835 original size:26 final size:25
Alignment explanation
Indices: 18286772--18286835 Score: 58
Period size: 26 Copynumber: 2.5 Consensus size: 25
18286762 AGATAAAGAG
*
18286772 AGAAAACGAAAGATTAATAAAGAAAA
1 AGAAAAAGAAA-ATTAATAAAGAAAA
* * *
18286798 TGAAAGTA-AAAATTGATAAAAGAAAA
1 AGAAA-AAGAAAATTAAT-AAAGAAAA
18286824 AGAAAAAGAAAA
1 AGAAAAAGAAAA
18286836 AGAGAAAGTG
Statistics
Matches: 29, Mismatches: 6, Indels: 6
0.71 0.15 0.15
Matches are distributed among these distances:
25 6 0.21
26 23 0.79
ACGTcount: A:0.70, C:0.02, G:0.16, T:0.12
Consensus pattern (25 bp):
AGAAAAAGAAAATTAATAAAGAAAA
Found at i:18286879 original size:20 final size:20
Alignment explanation
Indices: 18286856--18286909 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
18286846 ACGCCCAAAT
18286856 AAAGAATAAATAAAAAAAAG
1 AAAGAATAAATAAAAAAAAG
*
18286876 AAAGAAT--ATAAAAGGAAAG
1 AAAGAATAAATAAAA-AAAAG
*
18286895 AAA-AGTAAATAAAAA
1 AAAGAATAAATAAAAA
18286910 TAAAAACGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
18 8 0.29
19 7 0.25
20 13 0.46
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (20 bp):
AAAGAATAAATAAAAAAAAG
Found at i:18288232 original size:3 final size:3
Alignment explanation
Indices: 18288224--18288250 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
18288214 TTATGTATTC
18288224 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
18288251 GTATATCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:18288958 original size:19 final size:20
Alignment explanation
Indices: 18288934--18288979 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
18288924 TCCGACCAAC
*
18288934 TTCCGGCGAAATTTCC-AGA
1 TTCCGGCGAAAATTCCTAGA
18288953 TTCCGGCGAAAATTCCTAGA
1 TTCCGGCGAAAATTCCTAGA
*
18288973 ATCCGGC
1 TTCCGGC
18288980 ACCGGTGTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (20 bp):
TTCCGGCGAAAATTCCTAGA
Found at i:18289328 original size:12 final size:11
Alignment explanation
Indices: 18289308--18289354 Score: 51
Period size: 12 Copynumber: 4.1 Consensus size: 11
18289298 TTTTTTTTTC
18289308 TTTTT-TTTAT
1 TTTTTATTTAT
*
18289318 TTCTTTGTTTAT
1 TT-TTTATTTAT
18289330 TTGTTTATTTTAT
1 TT-TTTA-TTTAT
18289343 TTTTTATTTAT
1 TTTTTATTTAT
18289354 T
1 T
18289355 AGATTAGGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
10 2 0.06
11 9 0.28
12 14 0.44
13 7 0.22
ACGTcount: A:0.13, C:0.02, G:0.04, T:0.81
Consensus pattern (11 bp):
TTTTTATTTAT
Found at i:18289631 original size:66 final size:63
Alignment explanation
Indices: 18289420--18289686 Score: 351
Period size: 66 Copynumber: 4.3 Consensus size: 63
18289410 AAATAAAAAT
18289420 AAAA-AAA-TTCC-AAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT-AG
1 AAAATAAATTTCCAAAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAG
* * *
18289479 -AAATAAATTTCC---AAAAA-ATATTTTTGGGGAAAAGTTGAAAATATCAATTTTCC-TCAG
1 AAAATAAATTTCCAAAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAG
* *
18289536 -AAATAAATTT-CAAAAAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAG
1 AAAATAAATTTCCAAAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT--AAG
18289599 AAAAATAAATTTCCAAAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAA
1 -AAAATAAATTTCCAAAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT--AA
18289664 G
63 G
18289665 AAAAATAAATTTCCAAAAAAAA
1 -AAAATAAATTTCCAAAAAAAA
18289687 GGATTTAAAT
Statistics
Matches: 187, Mismatches: 8, Indels: 19
0.87 0.04 0.09
Matches are distributed among these distances:
56 2 0.01
57 46 0.25
58 8 0.04
59 8 0.04
60 37 0.20
61 1 0.01
63 2 0.01
65 10 0.05
66 73 0.39
ACGTcount: A:0.51, C:0.08, G:0.10, T:0.31
Consensus pattern (63 bp):
AAAATAAATTTCCAAAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAG
Found at i:18292408 original size:1 final size:1
Alignment explanation
Indices: 18292404--18292431 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
18292394 GGTATTTTTG
18292404 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
18292432 TTAACCATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:18292487 original size:12 final size:12
Alignment explanation
Indices: 18292458--18292486 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
18292448 TCAAAGACAT
18292458 GAAAAAGAGAAA
1 GAAAAAGAGAAA
18292470 GAAAAAGA-AAA
1 GAAAAAGAGAAA
18292481 GAAAAA
1 GAAAAA
18292487 ATAAATGCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (12 bp):
GAAAAAGAGAAA
Found at i:18292854 original size:6 final size:6
Alignment explanation
Indices: 18292839--18292867 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
18292829 AAAAGATGAT
18292839 GAAAAA -AAAAA GAAAAA GAAAAA GAAAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA
18292868 ATGAAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.23
6 17 0.77
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:18294217 original size:42 final size:41
Alignment explanation
Indices: 18294071--18294935 Score: 1353
Period size: 42 Copynumber: 21.0 Consensus size: 41
18294061 GTCTAGGAGT
18294071 ATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
18294111 ATTTACTTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTAC-TTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
18294152 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
18294193 ATTTACTTTTTCCAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTAC-TTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
18294235 ATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
18294277 ATTTACTTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTAC-TTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
18294318 ATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
*
18294358 ATTTACTTTTCAAAGTCATGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
18294399 ATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
18294441 ATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
*
18294481 ATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
18294523 ATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
18294565 ATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
*
18294605 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
18294646 ATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
18294688 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
18294729 ATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCA
1 ATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
18294771 ATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
18294813 ATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
*
18294853 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
* *
18294894 ATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCA
1 ATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
18294936 GTGCCTCTGT
Statistics
Matches: 780, Mismatches: 22, Indels: 44
0.92 0.03 0.05
Matches are distributed among these distances:
39 15 0.02
40 164 0.21
41 242 0.31
42 351 0.45
43 8 0.01
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.37
Consensus pattern (41 bp):
ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
Found at i:18294429 original size:206 final size:205
Alignment explanation
Indices: 18294071--18294935 Score: 1346
Period size: 206 Copynumber: 4.2 Consensus size: 205
18294061 GTCTAGGAGT
*
18294071 ATTTAC-TTTTCAAAGTTCGT-TGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAGTTCGT-T
1 ATTTACTTTTTCAAAG-TCGTGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAG-TCGTGT
18294133 GCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTA
64 GCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTA
* *
18294198 CTTTTTCCAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTACCTC
129 C-TTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTT-CAAAGTCGTGGTGCCTC
18294263 TGTTTAGAGGAGCA
192 TGTTTAGAGGAGCA
18294277 ATTTACTTTTTCAAAGTTCGT-TGCCTCTGTTTAGAGGAGCAATTTACTTTT-CAAAGTTCGT-T
1 ATTTACTTTTTCAAAG-TCGTGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAG-TCGTGT
*
18294339 GCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTA
64 GCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTA
*
18294404 CTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGT--TGCCTC
129 CTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAG-TCGTGGTGCCTC
18294467 TGTTTAGAGGAGCA
192 TGTTTAGAGGAGCA
18294481 ATTTA-TTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGG
1 ATTTACTTTTT-CAAAGTCGT-GTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGT-G
*
18294545 TACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCAATT
63 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCAATT
* *
18294608 TACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTATTTTTCCAAAGTCGTGGTGCCT
127 TACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTT-CAAAGTCGTGGTGCCT
18294673 CTGTTTAGAGGAGCA
191 CTGTTTAGAGGAGCA
18294688 ATTTAC-TTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGT
1 ATTTACTTTTTCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGT-GT
* *
18294752 GCCTCTGTTGAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTT
64 GCCTCTGTTTAGAGGAGCAATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTT
18294817 ACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTC
128 ACTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTC
*
18294880 TGTTGAGAGGAGCA
192 TGTTTAGAGGAGCA
*
18294894 ATTTA-TTTTTCCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCA
1 ATTTACTTTTT-CAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
18294936 GTGCCTCTGT
Statistics
Matches: 623, Mismatches: 16, Indels: 39
0.92 0.02 0.06
Matches are distributed among these distances:
203 9 0.01
204 29 0.05
205 85 0.14
206 289 0.46
207 170 0.27
208 37 0.06
209 4 0.01
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.37
Consensus pattern (205 bp):
ATTTACTTTTTCAAAGTCGTGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGTGC
CTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACT
TTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTT
TAGAGGAGCA
Found at i:18294863 original size:248 final size:248
Alignment explanation
Indices: 18294071--18294935 Score: 1519
Period size: 248 Copynumber: 3.5 Consensus size: 248
18294061 GTCTAGGAGT
18294071 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAGTTCGT--TG
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTAC-TTTTCAAAG-TCGTGGTG
*
18294134 CCTCTGTTTAGAGGAGCAATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTA
64 CCTCTGTTGAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTA
* *
18294198 CTTTTTCCAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTACCTC
129 C-TTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTC
* *
18294263 TGTTTAGAGGAGCAATTTACTTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
193 TGTTTAGAGGAGCAATTTACTTTTCCAAAG-TCGTGGTACCTCTGTTTAGAGGAGCA
*
18294318 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCATGGTGCC
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCC
* *
18294383 TCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACT
66 TCTGTTGAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACT
*
18294448 TTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAGTCGTGGTGCCTCTG
131 TTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTG
18294511 TTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
195 TTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
18294565 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCC
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCC
*
18294630 TCTGTTGAGAGGAGCAATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACT
66 TCTGTTGAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACT
18294695 TTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGT
131 TTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGT
*
18294760 TGAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
196 TTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
18294813 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCC
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCC
* *
18294878 TCTGTTGAGAGGAGCAATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCA
66 TCTGTTGAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
18294936 GTGCCTCTGT
Statistics
Matches: 596, Mismatches: 14, Indels: 15
0.95 0.02 0.02
Matches are distributed among these distances:
245 7 0.01
246 88 0.15
247 237 0.40
248 264 0.44
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.37
Consensus pattern (248 bp):
ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCC
TCTGTTGAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACT
TTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGT
TTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
Found at i:18294941 original size:21 final size:21
Alignment explanation
Indices: 18294915--18294956 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
18294905 CAAAGTCGTG
18294915 GTGCCTCTGTTGAGAGGAGCA
1 GTGCCTCTGTTGAGAGGAGCA
18294936 GTGCCTCTGTTGAGAGGAGCA
1 GTGCCTCTGTTGAGAGGAGCA
18294957 ATTTACTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.38, T:0.24
Consensus pattern (21 bp):
GTGCCTCTGTTGAGAGGAGCA
Found at i:18294992 original size:40 final size:39
Alignment explanation
Indices: 18294937--18295036 Score: 146
Period size: 40 Copynumber: 2.5 Consensus size: 39
18294927 AGAGGAGCAG
* *
18294937 TGCCTCTGTTGAGAGGAGCAATTTACTTTCCAAAGTCCGT
1 TGCCTCTGTTTAGAGGAGCAATTTACTTTCAAAAGT-CGT
18294977 TGCCTCTGTTTAGAGGAGCAATTTACTTTCAAAAGTCGT
1 TGCCTCTGTTTAGAGGAGCAATTTACTTTCAAAAGTCGT
*
18295016 TGAGTCTCTGTTTAGAGGAGC
1 T--GCCTCTGTTTAGAGGAGC
18295037 TTCGGCCAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
39 4 0.07
40 34 0.62
41 17 0.31
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34
Consensus pattern (39 bp):
TGCCTCTGTTTAGAGGAGCAATTTACTTTCAAAAGTCGT
Found at i:18295059 original size:9 final size:9
Alignment explanation
Indices: 18295045--18295132 Score: 81
Period size: 9 Copynumber: 9.6 Consensus size: 9
18295035 GCTTCGGCCA
18295045 AAAAAAAAC
1 AAAAAAAAC
18295054 AAAAAAAA-
1 AAAAAAAAC
*
18295062 AACAAAAA-
1 AAAAAAAAC
*
18295070 AACAAAAAC
1 AAAAAAAAC
18295079 AAAAAAAATC
1 AAAAAAAA-C
*
18295089 AAAAAAATC
1 AAAAAAAAC
*
18295098 AAAAAAATAA
1 AAAAAAA-AC
*
18295108 AAACAAAAAT
1 AAA-AAAAAC
18295118 AAAAAAAATC
1 AAAAAAAA-C
18295128 AAAAA
1 AAAAA
18295133 TAAAAATGTT
Statistics
Matches: 67, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
8 15 0.22
9 28 0.42
10 20 0.30
11 4 0.06
ACGTcount: A:0.85, C:0.09, G:0.00, T:0.06
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:18295084 original size:33 final size:32
Alignment explanation
Indices: 18295047--18295138 Score: 66
Period size: 31 Copynumber: 2.9 Consensus size: 32
18295037 TTCGGCCAAA
*
18295047 AAAAAACAAA-AAAAAAACAAAAA-AACAAAAA
1 AAAAAAAAAACAAAAAAACAAAAACAA-AAAAA
* * *
18295078 CAAAAAAAATCAAAAAAATCAAAAA-AATAAAA
1 AAAAAAAAAACAAAAAAA-CAAAAACAAAAAAA
* * * *
18295110 ACAAAAATAA-AAAAAATCAAAAATAAAAA
1 AAAAAAAAAACAAAAAAACAAAAACAAAAA
18295139 TGTTGAGTTG
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
30 6 0.12
31 17 0.35
32 17 0.35
33 8 0.17
ACGTcount: A:0.85, C:0.09, G:0.00, T:0.07
Consensus pattern (32 bp):
AAAAAAAAAACAAAAAAACAAAAACAAAAAAA
Found at i:18295138 original size:1 final size:1
Alignment explanation
Indices: 18295044--18295125 Score: 65
Period size: 1 Copynumber: 82.0 Consensus size: 1
18295034 AGCTTCGGCC
* * * * ** ** *
18295044 AAAAAAAAACAAAAAAAAAACAAAAAAACAAAAACAAAAAAAATCAAAAAAATCAAAAAAATAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
18295109 AACAAAAATAAAAAAAA
1 AAAAAAAAAAAAAAAAA
18295126 TCAAAAATAA
Statistics
Matches: 61, Mismatches: 20, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 61 1.00
ACGTcount: A:0.87, C:0.09, G:0.00, T:0.05
Consensus pattern (1 bp):
A
Found at i:18295334 original size:3 final size:3
Alignment explanation
Indices: 18295326--18295355 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
18295316 TTATGTATTC
18295326 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
18295356 GTATATCTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:18295954 original size:31 final size:31
Alignment explanation
Indices: 18295919--18295985 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
18295909 ATTTCCAGAA
*
18295919 TCCGACGAA-AATTCCGGC-AAAATTTGAATTT
1 TCCGAC-AACAATTCCGGCGAAAA-TTGAAGTT
*
18295950 TCCGACAACAATTCCGGCGAACATTGAAGTT
1 TCCGACAACAATTCCGGCGAAAATTGAAGTT
18295981 TCCGA
1 TCCGA
18295986 TGACCTACCC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 2 0.06
31 27 0.84
32 3 0.09
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (31 bp):
TCCGACAACAATTCCGGCGAAAATTGAAGTT
Found at i:18296431 original size:15 final size:15
Alignment explanation
Indices: 18296411--18296446 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
18296401 CCGCTCCAGG
*
18296411 TTTTTTTTTTGAATT
1 TTTTTTTTTTAAATT
18296426 TTTTTTTTTTAAATT
1 TTTTTTTTTTAAATT
18296441 TTTTTT
1 TTTTTT
18296447 ATTTCTTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.83
Consensus pattern (15 bp):
TTTTTTTTTTAAATT
Found at i:18296459 original size:12 final size:11
Alignment explanation
Indices: 18296439--18296485 Score: 51
Period size: 12 Copynumber: 4.1 Consensus size: 11
18296429 TTTTTTTAAA
18296439 TTTTT-TTTAT
1 TTTTTATTTAT
*
18296449 TTCTTTGTTTAT
1 TT-TTTATTTAT
18296461 TTGTTTATTTTAT
1 TT-TTTA-TTTAT
18296474 TTTTTATTTAT
1 TTTTTATTTAT
18296485 T
1 T
18296486 AGATTAGGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
10 2 0.06
11 9 0.28
12 14 0.44
13 7 0.22
ACGTcount: A:0.13, C:0.02, G:0.04, T:0.81
Consensus pattern (11 bp):
TTTTTATTTAT
Found at i:18296625 original size:59 final size:58
Alignment explanation
Indices: 18296557--18297031 Score: 589
Period size: 59 Copynumber: 7.8 Consensus size: 58
18296547 AAATAAAAAA
*
18296557 TTCCAAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
1 TTCC-AAAAAA-ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
* *
18296617 TTCC-AAAAAATATTTTTGGGGAAAAGTTGAAAATATCAATTTTCCTCAGAAATAAAT
1 TTCCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
* * * *
18296674 TTCAAAAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAAAAAATAAAT
1 TTC-CAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT----AGAAATAAAT
*
18296737 TTCCAAAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAA
1 TTCC--AAAAAA-ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT---AG--AAATAAA
18296802 T
58 T
18296803 TTCCAAAAAAAAGTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCAAAAT
1 TTCC-AAAAAAA-TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAAT
*
18296865 TTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
1 TTCCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
* ** *
18296923 TTTCAAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCGAAAT
1 TTCCAAAAAAA-TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAAT
18296984 TTCC-AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTA
1 TTCCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTA
18297032 AAAAAAAAAA
Statistics
Matches: 372, Mismatches: 23, Indels: 40
0.86 0.05 0.09
Matches are distributed among these distances:
57 48 0.13
58 19 0.05
59 111 0.30
60 56 0.15
61 16 0.04
62 7 0.02
63 12 0.03
64 11 0.03
65 80 0.22
66 12 0.03
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.33
Consensus pattern (58 bp):
TTCCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
Found at i:18298774 original size:24 final size:23
Alignment explanation
Indices: 18298747--18298791 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
18298737 TTTTTTAAAA
18298747 ATTATAATTTTTGTATTTTATATT
1 ATTATAATTTTT-TATTTTATATT
*
18298771 ATTATAATTTTTTTTTTTATA
1 ATTATAATTTTTTATTTTATA
18298792 AATTTGATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (23 bp):
ATTATAATTTTTTATTTTATATT
Found at i:18299384 original size:3 final size:3
Alignment explanation
Indices: 18299376--18299429 Score: 90
Period size: 3 Copynumber: 18.0 Consensus size: 3
18299366 AATAGTTTAT
* *
18299376 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA AAA TAA TAA CAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
18299424 TAA TAA
1 TAA TAA
18299430 GCGTGAATTC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:18300929 original size:25 final size:25
Alignment explanation
Indices: 18300890--18300943 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
18300880 AAATTACGTA
*
18300890 TTTAACGTGTCTGATCAATTAAAT-TT
1 TTTAACATGTCTGAT-AA-TAAATATT
18300916 TTTAACATGT-TGATAATAAATATT
1 TTTAACATGTCTGATAATAAATATT
18300940 TTTA
1 TTTA
18300944 TTATAATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 5 0.19
24 8 0.31
25 4 0.15
26 9 0.35
ACGTcount: A:0.35, C:0.07, G:0.09, T:0.48
Consensus pattern (25 bp):
TTTAACATGTCTGATAATAAATATT
Found at i:18301316 original size:29 final size:32
Alignment explanation
Indices: 18301282--18301349 Score: 88
Period size: 29 Copynumber: 2.2 Consensus size: 32
18301272 GATAAATATG
* * *
18301282 ATATTTGAATTTTAAA-AT-TT-TTTATTGTA
1 ATATTTGAATTATAAATATATTAATTAATGTA
18301311 ATATTTGAATTATAAATATATTAATTAATGTA
1 ATATTTGAATTATAAATATATTAATTAATGTA
18301343 ATATTTG
1 ATATTTG
18301350 TTTTTAATGT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 15 0.45
30 2 0.06
31 2 0.06
32 14 0.42
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (32 bp):
ATATTTGAATTATAAATATATTAATTAATGTA
Found at i:18309114 original size:30 final size:30
Alignment explanation
Indices: 18309078--18309138 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
18309068 AAATTAATTT
* * *
18309078 ATATTAAGAGTTTTTTTAACTATAAATTAA
1 ATATTAAGAGTATATTTAAATATAAATTAA
18309108 ATATTAAGAGTATATTTAAATATAAATTAA
1 ATATTAAGAGTATATTTAAATATAAATTAA
18309138 A
1 A
18309139 GTTAATGTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.49, C:0.02, G:0.07, T:0.43
Consensus pattern (30 bp):
ATATTAAGAGTATATTTAAATATAAATTAA
Found at i:18311510 original size:10 final size:10
Alignment explanation
Indices: 18311495--18311551 Score: 51
Period size: 10 Copynumber: 5.5 Consensus size: 10
18311485 TGAAAGGGTG
*
18311495 GGGTGAGATT
1 GGGTGAGGTT
*
18311505 GGGTGAGGTA
1 GGGTGAGGTT
*
18311515 GGGTGGAGGGGT
1 GGGT-GA-GGTT
*
18311527 GGGTGAGATT
1 GGGTGAGGTT
*
18311537 GGGTGTGGTT
1 GGGTGAGGTT
18311547 GGGTG
1 GGGTG
18311552 CATTGGAAGG
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
10 27 0.73
11 4 0.11
12 6 0.16
ACGTcount: A:0.12, C:0.00, G:0.61, T:0.26
Consensus pattern (10 bp):
GGGTGAGGTT
Found at i:18311536 original size:32 final size:33
Alignment explanation
Indices: 18311490--18311551 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 33
18311480 TAAGGTGAAA
18311490 GGGTGGGGTGAGATTGGGTGAGGTAGGGTGGAG
1 GGGTGGGGTGAGATTGGGTGAGGTAGGGTGGAG
* *
18311523 GGGT-GGGTGAGATTGGGTGTGGTTGGGTG
1 GGGTGGGGTGAGATTGGGTGAGGTAGGGTG
18311552 CATTGGAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 23 0.85
33 4 0.15
ACGTcount: A:0.11, C:0.00, G:0.63, T:0.26
Consensus pattern (33 bp):
GGGTGGGGTGAGATTGGGTGAGGTAGGGTGGAG
Found at i:18311922 original size:14 final size:15
Alignment explanation
Indices: 18311894--18311927 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
18311884 AATTCCTTTG
18311894 TTATTAAATTAATTT
1 TTATTAAATTAATTT
*
18311909 TTATT-AATTTATTT
1 TTATTAAATTAATTT
18311923 TTATT
1 TTATT
18311928 TTTACGTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TTATTAAATTAATTT
Found at i:18315095 original size:6 final size:6
Alignment explanation
Indices: 18315080--18315129 Score: 73
Period size: 6 Copynumber: 8.3 Consensus size: 6
18315070 TAAGTCTAGA
* * *
18315080 TGATGC TGATGG TGATGG TGACGG TGATGA TGATGG TGATGG TGATGG
1 TGATGG TGATGG TGATGG TGATGG TGATGG TGATGG TGATGG TGATGG
18315128 TG
1 TG
18315130 CAAATTTTGG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.18, C:0.04, G:0.46, T:0.32
Consensus pattern (6 bp):
TGATGG
Found at i:18315107 original size:24 final size:24
Alignment explanation
Indices: 18315080--18315129 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
18315070 TAAGTCTAGA
*
18315080 TGATGCTGATGGTGATGGTGACGG
1 TGATGATGATGGTGATGGTGACGG
*
18315104 TGATGATGATGGTGATGGTGATGG
1 TGATGATGATGGTGATGGTGACGG
18315128 TG
1 TG
18315130 CAAATTTTGG
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:0.18, C:0.04, G:0.46, T:0.32
Consensus pattern (24 bp):
TGATGATGATGGTGATGGTGACGG
Found at i:18319108 original size:6 final size:6
Alignment explanation
Indices: 18319048--18319167 Score: 87
Period size: 6 Copynumber: 20.0 Consensus size: 6
18319038 TTTAACCAAA
** * * * * *
18319048 AAAATT AAAACC AAAAAT AAAATC AAAATT AAAATC AAAATC AAAACT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
* * * ** * *
18319096 AAGATT AAAATT AACATT AACATT AAAAAC AAAATT CAAATC AAAATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
* * *
18319144 AAAACT ACAATC AAAATT AAAATT
1 AAAATT AAAATT AAAATT AAAATT
18319168 TGTGAACCTT
Statistics
Matches: 85, Mismatches: 29, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
6 85 1.00
ACGTcount: A:0.64, C:0.12, G:0.01, T:0.23
Consensus pattern (6 bp):
AAAATT
Found at i:18319598 original size:15 final size:16
Alignment explanation
Indices: 18319567--18319597 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18319557 ATATTATTAG
*
18319567 TATTTATAATAAAAAA
1 TATTTAAAATAAAAAA
18319583 TATTTAAAATAAAAA
1 TATTTAAAATAAAAA
18319598 TTTCAAGATA
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
TATTTAAAATAAAAAA
Found at i:18320587 original size:2 final size:2
Alignment explanation
Indices: 18320582--18320620 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
18320572 CAACTCTTCG
18320582 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
18320621 AAAGAACATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:18324133 original size:2 final size:2
Alignment explanation
Indices: 18324126--18324158 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
18324116 TTAGTATGAA
*
18324126 AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
18324159 CCTAGACACT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 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):
AT
Found at i:18325899 original size:4 final size:4
Alignment explanation
Indices: 18325890--18325914 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
18325880 AATATATAAA
18325890 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
18325915 TATATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:18326326 original size:2 final size:2
Alignment explanation
Indices: 18326319--18326348 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
18326309 ACTCTTTTGA
18326319 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
18326349 GAGTAGAAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18326498 original size:2 final size:2
Alignment explanation
Indices: 18326491--18326520 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
18326481 TTTCCTCTTC
18326491 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
18326521 CCATTTATAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18326833 original size:2 final size:2
Alignment explanation
Indices: 18326826--18326860 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
18326816 GGATCTTTCC
18326826 TA TA 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 TA TA T
18326861 TTATGAGAGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:18327066 original size:25 final size:25
Alignment explanation
Indices: 18327032--18327092 Score: 122
Period size: 25 Copynumber: 2.4 Consensus size: 25
18327022 TGAGGAGTCA
18327032 TAATTTGTCATCTAAGTCAAGAATC
1 TAATTTGTCATCTAAGTCAAGAATC
18327057 TAATTTGTCATCTAAGTCAAGAATC
1 TAATTTGTCATCTAAGTCAAGAATC
18327082 TAATTTGTCAT
1 TAATTTGTCAT
18327093 TTTTTTTATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.34, C:0.15, G:0.11, T:0.39
Consensus pattern (25 bp):
TAATTTGTCATCTAAGTCAAGAATC
Found at i:18327882 original size:30 final size:30
Alignment explanation
Indices: 18327843--18327901 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
18327833 AAAAATTTAT
18327843 TTAGATGCAAATTAAAGA-TTAAGAACTTAA
1 TTAGATGCAAATTAAA-ATTTAAGAACTTAA
* *
18327873 TTAGGTGCAAATTAAAATTTAAGGACTTA
1 TTAGATGCAAATTAAAATTTAAGAACTTA
18327902 TTTGAAAGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 25 0.96
ACGTcount: A:0.46, C:0.07, G:0.15, T:0.32
Consensus pattern (30 bp):
TTAGATGCAAATTAAAATTTAAGAACTTAA
Found at i:18329583 original size:23 final size:24
Alignment explanation
Indices: 18329557--18329601 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
18329547 CGGGATGTAA
18329557 AAAAGATAAAATT-ATAATTTATT
1 AAAAGATAAAATTAATAATTTATT
*
18329580 AAAAGATAAATTTAATAATTTA
1 AAAAGATAAAATTAATAATTTA
18329602 CATATGGATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (24 bp):
AAAAGATAAAATTAATAATTTATT
Found at i:18331808 original size:3 final size:3
Alignment explanation
Indices: 18331800--18331853 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
18331790 TTAAATATGT
18331800 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
18331848 ATA ATA
1 ATA ATA
18331854 GAACTCAGAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:18340219 original size:11 final size:11
Alignment explanation
Indices: 18340180--18340217 Score: 53
Period size: 10 Copynumber: 3.6 Consensus size: 11
18340170 GGGAAGAGAG
*
18340180 AAAATTTGTTC
1 AAAATTTGTTT
18340191 AAAATTTGTTT
1 AAAATTTGTTT
18340202 -AAATTT-TTT
1 AAAATTTGTTT
18340211 AAAATTT
1 AAAATTT
18340218 TTAGTTTTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
9 3 0.12
10 12 0.48
11 10 0.40
ACGTcount: A:0.39, C:0.03, G:0.05, T:0.53
Consensus pattern (11 bp):
AAAATTTGTTT
Found at i:18343038 original size:9 final size:9
Alignment explanation
Indices: 18343021--18343100 Score: 72
Period size: 9 Copynumber: 8.6 Consensus size: 9
18343011 TAAATTACAA
18343021 AAAAATT-T
1 AAAAATTCT
*
18343029 AAAAATTTT
1 AAAAATTCT
*
18343038 AAAAACTTCAA
1 AAAAA-TTC-T
*
18343049 AAAAAATCT
1 AAAAATTCT
*
18343058 AAAACATTCC
1 AAAA-ATTCT
*
18343068 AAAAATTTT
1 AAAAATTCT
18343077 AAGAAATTCT
1 AA-AAATTCT
18343087 AAAAATTCT
1 AAAAATTCT
18343096 AAAAA
1 AAAAA
18343101 AATTTTAAAT
Statistics
Matches: 58, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
8 7 0.12
9 27 0.47
10 19 0.33
11 5 0.09
ACGTcount: A:0.60, C:0.10, G:0.01, T:0.29
Consensus pattern (9 bp):
AAAAATTCT
Found at i:18343051 original size:19 final size:19
Alignment explanation
Indices: 18343029--18343100 Score: 58
Period size: 19 Copynumber: 3.7 Consensus size: 19
18343019 AAAAAAATTT
*
18343029 AAAAATTTTAAAAACTTCAA
1 AAAAATTCTAAAAACTTC-A
* *
18343049 AAAAAATCT-AAAACATTCC
1 AAAAATTCTAAAAAC-TTCA
* *
18343068 AAAAATTTTAAGAAA-TTCT
1 AAAAATTCTAA-AAACTTCA
18343087 AAAAATTCTAAAAA
1 AAAAATTCTAAAAA
18343101 AATTTTAAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
18 3 0.07
19 25 0.60
20 11 0.26
21 3 0.07
ACGTcount: A:0.60, C:0.11, G:0.01, T:0.28
Consensus pattern (19 bp):
AAAAATTCTAAAAACTTCA
Found at i:18343101 original size:29 final size:29
Alignment explanation
Indices: 18343020--18343236 Score: 106
Period size: 29 Copynumber: 7.5 Consensus size: 29
18343010 TTAAATTACA
* * **
18343020 AAAAAATT-TAAAAATTTTAAAAACTTCA
1 AAAAAATTCTAAAAATTCTAAAAAATTTT
* *
18343048 AAAAAAATCTAAAACATTC-CAAAAATTTT
1 AAAAAATTCTAAAA-ATTCTAAAAAATTTT
*
18343077 AAGAAATTCTAAAAATTCTAAAAAAATTTT
1 AAAAAATTCTAAAAATTCT-AAAAAATTTT
*** * * * *
18343107 AAATTTTTCAATAAAATATCTTAAAAGTTCT
1 AAAAAATTCTA-AAAAT-TCTAAAAAATTTT
* * ** * *
18343138 AAAAATTTTTTTTAAATTCTAATAATTTTT
1 AAAAA-ATTCTAAAAATTCTAAAAAATTTT
* * *
18343168 CAAAAGTTCTAAACATTCTAAAATAATTTT
1 AAAAAATTCTAAAAATTCTAAAA-AATTTT
*
18343198 AAAAAAATTC--AAAA-TATAAAAAA--TT
1 -AAAAAATTCTAAAAATTCTAAAAAATTTT
18343223 AAAAAATTCTAAAA
1 AAAAAATTCTAAAA
18343237 CTTTTAATTT
Statistics
Matches: 139, Mismatches: 39, Indels: 24
0.69 0.19 0.12
Matches are distributed among these distances:
24 9 0.06
25 2 0.01
26 3 0.02
27 2 0.01
28 17 0.12
29 38 0.27
30 36 0.26
31 26 0.19
32 6 0.04
ACGTcount: A:0.55, C:0.08, G:0.01, T:0.35
Consensus pattern (29 bp):
AAAAAATTCTAAAAATTCTAAAAAATTTT
Found at i:18343177 original size:20 final size:21
Alignment explanation
Indices: 18343129--18343180 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
18343119 AAAATATCTT
*
18343129 AAAAGTTCTAAAAATTTTTTT
1 AAAAGTTCTAAAAATTTTTTC
* *
18343150 TAAA-TTCTAATAA-TTTTTC
1 AAAAGTTCTAAAAATTTTTTC
18343169 AAAAGTTCTAAA
1 AAAAGTTCTAAA
18343181 CATTCTAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 8 0.32
20 14 0.56
21 3 0.12
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.44
Consensus pattern (21 bp):
AAAAGTTCTAAAAATTTTTTC
Found at i:18343316 original size:42 final size:40
Alignment explanation
Indices: 18343260--18343341 Score: 101
Period size: 42 Copynumber: 2.0 Consensus size: 40
18343250 TTTAATTTTT
* * *
18343260 AAAATTTAAAAATTTATCAAATATATAAAATATTTTTTAAAA
1 AAAATTTAAAAATTT-TAAAAAATATAAAA-ACTTTTTAAAA
* *
18343302 AAAATTTTAAAATTTTAAAAAATCTAAAAACTTTTTAAAA
1 AAAATTTAAAAATTTTAAAAAATATAAAAACTTTTTAAAA
18343342 TTTTAAAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
40 10 0.29
41 11 0.31
42 14 0.40
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (40 bp):
AAAATTTAAAAATTTTAAAAAATATAAAAACTTTTTAAAA
Found at i:18343388 original size:67 final size:67
Alignment explanation
Indices: 18343311--18343436 Score: 157
Period size: 67 Copynumber: 1.9 Consensus size: 67
18343301 AAAAATTTTA
* * * * *
18343311 AAATTTTAAAAAATCTAA-AAACTTTTTAAAATTTTAAAAAAAAT-TAGAGAAATTTAAAATTCT
1 AAATTCTAAAAAATC-AAGAAAATTTTTAAAAATTCAAAAAAAATCTAG-GAAACTTAAAATTCT
18343374 AAAG
64 AAAG
* *
18343378 AAATTCTAAAAATTCAAGAAAATTTTTAAAAATTCAAAAATAATCTAGGAAACTTAAAA
1 AAATTCTAAAAAATCAAGAAAATTTTTAAAAATTCAAAAAAAATCTAGGAAACTTAAAA
18343437 ATTTTCTAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
66 2 0.04
67 45 0.90
68 3 0.06
ACGTcount: A:0.57, C:0.06, G:0.05, T:0.32
Consensus pattern (67 bp):
AAATTCTAAAAAATCAAGAAAATTTTTAAAAATTCAAAAAAAATCTAGGAAACTTAAAATTCTAA
AG
Found at i:18343396 original size:18 final size:17
Alignment explanation
Indices: 18343349--18343418 Score: 56
Period size: 20 Copynumber: 3.9 Consensus size: 17
18343339 AAATTTTAAA
18343349 AAAAATT-AGAGAAATTT
1 AAAAATTCA-AGAAATTT
18343366 -AAAATTCTAAAGAAATTCT
1 AAAAATTC--AAGAAATT-T
18343385 AAAAATTCAAGAAAATTTTT
1 AAAAATTCAAG-AAA--TTT
18343405 AAAAATTCAA-AAAT
1 AAAAATTCAAGAAAT
18343419 AATCTAGGAA
Statistics
Matches: 45, Mismatches: 0, Indels: 17
0.73 0.00 0.27
Matches are distributed among these distances:
16 7 0.16
18 13 0.29
19 5 0.11
20 18 0.40
21 2 0.04
ACGTcount: A:0.59, C:0.06, G:0.06, T:0.30
Consensus pattern (17 bp):
AAAAATTCAAGAAATTT
Found at i:18343490 original size:17 final size:17
Alignment explanation
Indices: 18343470--18343521 Score: 54
Period size: 16 Copynumber: 3.1 Consensus size: 17
18343460 TTTTTTAAAA
18343470 TTTATATAGTTTTATTT
1 TTTATATAGTTTTATTT
**
18343487 TTTATA-AAATTTATTT
1 TTTATATAGTTTTATTT
*
18343503 TTT-TATTGTTTTGATTT
1 TTTATATAGTTTT-ATTT
18343520 TT
1 TT
18343522 AAAAATTGTC
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
15 2 0.07
16 14 0.50
17 12 0.43
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (17 bp):
TTTATATAGTTTTATTT
Found at i:18343632 original size:21 final size:22
Alignment explanation
Indices: 18343606--18343646 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
18343596 AACGTTTTAT
18343606 AAATTTT-AAATTTTTTTGAGA
1 AAATTTTAAAATTTTTTTGAGA
18343627 AAATTTTAAAATTTTTTTGA
1 AAATTTTAAAATTTTTTTGA
18343647 ATTTTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (22 bp):
AAATTTTAAAATTTTTTTGAGA
Found at i:18343737 original size:10 final size:9
Alignment explanation
Indices: 18343717--18343838 Score: 75
Period size: 9 Copynumber: 12.7 Consensus size: 9
18343707 TTTTTTGCAA
18343717 TTAAAAGTTT
1 TTAAAA-TTT
18343727 TTACAAATTT
1 TTA-AAATTT
18343737 TTAAAATTT
1 TTAAAATTT
*
18343746 TTAATAGTATT
1 TTAA-AAT-TT
*
18343757 TTAGAATTT
1 TTAAAATTT
*
18343766 TT-AATTTT
1 TTAAAATTT
18343774 TTAAAAATTGTT
1 TT-AAAA-T-TT
* *
18343786 TTGAATTTT
1 TTAAAATTT
*
18343795 TTAAAGGTTT
1 TTAAA-ATTT
*
18343805 TAAAAATTT
1 TTAAAATTT
**
18343814 TTAAAAAAT
1 TTAAAATTT
18343823 TTAGAAATTT
1 TTA-AAATTT
18343833 TTAAAA
1 TTAAAA
18343839 AACTTTAATA
Statistics
Matches: 86, Mismatches: 17, Indels: 19
0.70 0.14 0.16
Matches are distributed among these distances:
8 6 0.07
9 35 0.41
10 30 0.35
11 11 0.13
12 4 0.05
ACGTcount: A:0.41, C:0.01, G:0.07, T:0.52
Consensus pattern (9 bp):
TTAAAATTT
Done.