Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167871.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_14, 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: 22631831
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 114000 characters in sequence are not A, C, G, or T
File 90 of 125
Found at i:17640851 original size:2 final size:2
Alignment explanation
Indices: 17640844--17640934 Score: 173
Period size: 2 Copynumber: 45.5 Consensus size: 2
17640834 TGTAGTTTCA
17640844 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
*
17640886 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG CG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
17640928 TG TG TG T
1 TG TG TG T
17640935 ATATATATAT
Statistics
Matches: 87, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
2 87 1.00
ACGTcount: A:0.00, C:0.01, G:0.49, T:0.49
Consensus pattern (2 bp):
TG
Found at i:17640939 original size:2 final size:2
Alignment explanation
Indices: 17640934--17640962 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
17640924 CGTGTGTGTG
17640934 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 T
17640963 TTTAAAGGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:17641417 original size:2 final size:2
Alignment explanation
Indices: 17641410--17641436 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
17641400 TTATAACTAT
17641410 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 T
17641437 CTCAAAAGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:17641683 original size:4 final size:4
Alignment explanation
Indices: 17641674--17641698 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
17641664 CCCAAAAACA
17641674 CTAT CTAT CTAT CTAT CTAT CTAT C
1 CTAT CTAT CTAT CTAT CTAT CTAT C
17641699 GATATATATA
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:0.28, G:0.00, T:0.48
Consensus pattern (4 bp):
CTAT
Found at i:17641707 original size:2 final size:2
Alignment explanation
Indices: 17641700--17641745 Score: 67
Period size: 2 Copynumber: 23.5 Consensus size: 2
17641690 CTATCTATCG
* *
17641700 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT AG AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17641742 -T AT A
1 AT AT A
17641746 CAAGCATTAC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (2 bp):
AT
Found at i:17641824 original size:18 final size:18
Alignment explanation
Indices: 17641801--17641838 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
17641791 ACTATGTACA
17641801 TATTTTATAAATAATAAG
1 TATTTTATAAATAATAAG
17641819 TATTTTATAAATAATAAG
1 TATTTTATAAATAATAAG
17641837 TA
1 TA
17641839 CATAACCCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (18 bp):
TATTTTATAAATAATAAG
Found at i:17644367 original size:27 final size:26
Alignment explanation
Indices: 17644311--17644383 Score: 98
Period size: 25 Copynumber: 2.8 Consensus size: 26
17644301 AATGGTATAT
17644311 AATATTTAATTAAATATTAT-TTCAC
1 AATATTTAATTAAATATTATATTCAC
*
17644336 AATATTTAATTAAATATTATATTTA-
1 AATATTTAATTAAATATTATATTCAC
17644361 ATGATATTTAATT-AATATTATAT
1 A--ATATTTAATTAAATATTATAT
17644384 AATTATTTTA
Statistics
Matches: 44, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
25 21 0.48
26 13 0.30
27 10 0.23
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (26 bp):
AATATTTAATTAAATATTATATTCAC
Found at i:17644412 original size:34 final size:34
Alignment explanation
Indices: 17644351--17644417 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 34
17644341 TTAATTAAAT
*
17644351 ATTATATTTAATGATATTTAATTAATATTATATA
1 ATTATATTTAATGACATTTAATTAATATTATATA
*
17644385 ATTAT-TTTAATTACATTTAATTAAATATTATAT
1 ATTATATTTAATGACATTTAATT-AATATTATAT
17644418 TTAATAATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 15 0.50
34 15 0.50
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (34 bp):
ATTATATTTAATGACATTTAATTAATATTATATA
Found at i:17644483 original size:31 final size:32
Alignment explanation
Indices: 17644437--17644506 Score: 88
Period size: 31 Copynumber: 2.2 Consensus size: 32
17644427 TTAAATATGC
* *
17644437 AATAGTTAATAATATTTTGTTAAATACTT-AT
1 AATATTTAATAATATTTGGTTAAATACTTAAT
* * *
17644468 AATATTTAATCATATTTGGTTGAATATTTAAT
1 AATATTTAATAATATTTGGTTAAATACTTAAT
17644500 AATATTT
1 AATATTT
17644507 TCTTAAATAT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
31 24 0.73
32 9 0.27
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.50
Consensus pattern (32 bp):
AATATTTAATAATATTTGGTTAAATACTTAAT
Found at i:17644496 original size:22 final size:22
Alignment explanation
Indices: 17644463--17644526 Score: 83
Period size: 22 Copynumber: 2.9 Consensus size: 22
17644453 TTGTTAAATA
*
17644463 CTTATAATATTTAATCATATTTG
1 CTTA-AATATTTAATAATATTTG
* * *
17644486 GTTGAATATTTAATAATATTTT
1 CTTAAATATTTAATAATATTTG
17644508 CTTAAATATTTAATAATAT
1 CTTAAATATTTAATAATAT
17644527 ATTAGTATTT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
22 33 0.94
23 2 0.06
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.52
Consensus pattern (22 bp):
CTTAAATATTTAATAATATTTG
Found at i:17644503 original size:10 final size:10
Alignment explanation
Indices: 17644466--17644607 Score: 56
Period size: 10 Copynumber: 13.8 Consensus size: 10
17644456 TTAAATACTT
17644466 ATAATATTTA
1 ATAATATTTA
* *
17644476 ATCATATTTGG
1 ATAATATTT-A
*
17644487 TTGAATATTTA
1 AT-AATATTTA
*
17644498 ATAATATTTTC
1 ATAATA-TTTA
*
17644509 TTAAATATTTA
1 AT-AATATTTA
17644520 ATAATA--TA
1 ATAATATTTA
* *
17644528 TTAGTATTTA
1 ATAATATTTA
* *
17644538 AAAATAGTTA
1 ATAATATTTA
* **
17644548 AAAATAACTA
1 ATAATATTTA
17644558 AT-ATATTTAA
1 ATAATATTT-A
*
17644568 ATAAATATTTG
1 AT-AATATTTA
* *
17644579 ATAAGAATTA
1 ATAATATTTA
*
17644589 AAAATATTTAA
1 ATAATATTT-A
17644600 ATAATATT
1 ATAATATT
17644608 AGGTAAAATT
Statistics
Matches: 93, Mismatches: 29, Indels: 19
0.66 0.21 0.13
Matches are distributed among these distances:
8 6 0.06
9 4 0.04
10 47 0.51
11 20 0.22
12 16 0.17
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (10 bp):
ATAATATTTA
Found at i:17644690 original size:26 final size:26
Alignment explanation
Indices: 17644622--17644703 Score: 85
Period size: 26 Copynumber: 3.1 Consensus size: 26
17644612 AAAATTTTTG
** *
17644622 TATTTAATACTATTTACTTAAATATTA
1 TATTTAATAAAATTTAATT-AATATTA
**
17644649 TATTTAATAATGTTTAA-TAATATTAA
1 TATTTAATAAAATTTAATTAATATT-A
*
17644675 TATTTAATAAAATTTAATTAATAATA
1 TATTTAATAAAATTTAATTAATATTA
17644701 TAT
1 TAT
17644704 AAATATTAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
25 6 0.13
26 21 0.45
27 20 0.43
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.50
Consensus pattern (26 bp):
TATTTAATAAAATTTAATTAATATTA
Found at i:17644764 original size:7 final size:7
Alignment explanation
Indices: 17644752--17644784 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
17644742 ATATTATATA
17644752 ATTTAAT
1 ATTTAAT
17644759 ATTTAAT
1 ATTTAAT
17644766 ATTT--T
1 ATTTAAT
17644771 ATTTAAT
1 ATTTAAT
17644778 ATTTAAT
1 ATTTAAT
17644785 TATATGTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
5 5 0.21
7 19 0.79
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (7 bp):
ATTTAAT
Found at i:17645691 original size:12 final size:13
Alignment explanation
Indices: 17645663--17645692 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
17645653 TATTTTCAAA
17645663 AAAAAAAAAAACG
1 AAAAAAAAAAACG
17645676 AAAAAAAAAAAC-
1 AAAAAAAAAAACG
17645688 AAAAA
1 AAAAA
17645693 TATACCAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.90, C:0.07, G:0.03, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAACG
Found at i:17648594 original size:72 final size:73
Alignment explanation
Indices: 17648518--17648652 Score: 182
Period size: 72 Copynumber: 1.9 Consensus size: 73
17648508 ATCAATTTCC
** * * **
17648518 CAAAACATGTGCAACATTAATAGTAACAATTCCAAAAAT-ATAAGTTTTCTAGTAAAATCATGAC
1 CAAAACAAATGCAACATCAATAGTAACAATCCCAAAAATAATAAGTTTGATAGTAAAATCATGAC
17648582 GAATTTTT
66 GAATTTTT
* * *
17648590 CAAAACAAATGCAACATCAATAGTGACAATCCCAGAAATAATAAGTTTGATAGTAGAATCATG
1 CAAAACAAATGCAACATCAATAGTAACAATCCCAAAAATAATAAGTTTGATAGTAAAATCATG
17648653 GATGAAATAA
Statistics
Matches: 53, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
72 33 0.62
73 20 0.38
ACGTcount: A:0.46, C:0.15, G:0.12, T:0.27
Consensus pattern (73 bp):
CAAAACAAATGCAACATCAATAGTAACAATCCCAAAAATAATAAGTTTGATAGTAAAATCATGAC
GAATTTTT
Found at i:17649529 original size:8 final size:10
Alignment explanation
Indices: 17649506--17649532 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
17649496 TTAGCCCCAT
17649506 CACACACTTC
1 CACACACTTC
17649516 CACACACTTC
1 CACACACTTC
17649526 CACACAC
1 CACACAC
17649533 CTTCTGTCTT
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:0.33, C:0.52, G:0.00, T:0.15
Consensus pattern (10 bp):
CACACACTTC
Found at i:17650620 original size:21 final size:21
Alignment explanation
Indices: 17650596--17650635 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
17650586 AATCTTAATT
*
17650596 CTAATCAATCTAAATTCTAGC
1 CTAAGCAATCTAAATTCTAGC
* *
17650617 CTAAGCAATTTGAATTCTA
1 CTAAGCAATCTAAATTCTA
17650636 ATTCAAAACA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.20, G:0.07, T:0.35
Consensus pattern (21 bp):
CTAAGCAATCTAAATTCTAGC
Found at i:17659786 original size:52 final size:52
Alignment explanation
Indices: 17659725--17659855 Score: 181
Period size: 52 Copynumber: 2.5 Consensus size: 52
17659715 ATTTCAAGAC
* * **
17659725 AAAGAGGATTTTTAATAGGTAAGTTTGACTTGTAAGAGAAGAATTCTAAAAGG
1 AAAG-GGATTCTTAATAGGCAAGTTTGACTTACAAGAGAAGAATTCTAAAAGG
* *
17659778 AAAGGGATTCTTAATAGGCAAGTTTGACTTACAGGAGAAGAATTCTAAGAGG
1 AAAGGGATTCTTAATAGGCAAGTTTGACTTACAAGAGAAGAATTCTAAAAGG
* *
17659830 AGAGGGATTCTTAATGGGCAAGTTTG
1 AAAGGGATTCTTAATAGGCAAGTTTG
17659856 TATGGTTATA
Statistics
Matches: 70, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
52 66 0.94
53 4 0.06
ACGTcount: A:0.37, C:0.07, G:0.27, T:0.28
Consensus pattern (52 bp):
AAAGGGATTCTTAATAGGCAAGTTTGACTTACAAGAGAAGAATTCTAAAAGG
Found at i:17660378 original size:31 final size:31
Alignment explanation
Indices: 17660340--17660409 Score: 104
Period size: 31 Copynumber: 2.3 Consensus size: 31
17660330 AGGCTTTTAG
17660340 CCCAACAAATGGTATCAGAGCTATGGTGATC
1 CCCAACAAATGGTATCAGAGCTATGGTGATC
* * * *
17660371 CCCAACAAATTGTATCAGAGTTGTGGTGTTC
1 CCCAACAAATGGTATCAGAGCTATGGTGATC
17660402 CCCAACAA
1 CCCAACAA
17660410 GGAGAAATCA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.24
Consensus pattern (31 bp):
CCCAACAAATGGTATCAGAGCTATGGTGATC
Found at i:17680191 original size:17 final size:17
Alignment explanation
Indices: 17680169--17680202 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
17680159 TTTGTAGATG
17680169 ATTATTATTGTGTTACA
1 ATTATTATTGTGTTACA
*
17680186 ATTATTCTTGTGTTACA
1 ATTATTATTGTGTTACA
17680203 TGGCTTTATC
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:0.26, C:0.09, G:0.12, T:0.53
Consensus pattern (17 bp):
ATTATTATTGTGTTACA
Found at i:17684435 original size:79 final size:82
Alignment explanation
Indices: 17684283--17684452 Score: 229
Period size: 83 Copynumber: 2.1 Consensus size: 82
17684273 TATGAATCCT
*
17684283 GATAGGAAATCATAAATAAAAATAAAATAGACAAACAAACAAACAAAAGAGTAAAACATGTTTAT
1 GATAGGAAATCATAAATAAAAATAAAATAGACAAACAAAC-AACAAAAGAGTAAAACATGTTCAT
*
17684348 ACTCTTCAAAAATGTCCA
65 ACTATTCAAAAATGTCCA
* * * *
17684366 GATAGGATATCATAAATAAAAATAAAATAGAGAAACAAAC-A-AGAA-AGTAGAACATGTTCATA
1 GATAGGAAATCATAAATAAAAATAAAATAGACAAACAAACAACAAAAGAGTAAAACATGTTCATA
* *
17684428 TTATTCAAATATGTCCA
66 CTATTCAAAAATGTCCA
*
17684445 AATAGGAA
1 GATAGGAA
17684453 GAAAACTGAA
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
79 35 0.45
80 3 0.04
81 1 0.01
83 38 0.49
ACGTcount: A:0.55, C:0.11, G:0.12, T:0.22
Consensus pattern (82 bp):
GATAGGAAATCATAAATAAAAATAAAATAGACAAACAAACAACAAAAGAGTAAAACATGTTCATA
CTATTCAAAAATGTCCA
Found at i:17688718 original size:31 final size:31
Alignment explanation
Indices: 17688663--17688743 Score: 83
Period size: 31 Copynumber: 2.6 Consensus size: 31
17688653 TCAATCCCTC
* * * *
17688663 TCTATTCTTTTCTTATTCTCCTCAATTATCCT
1 TCTATTCTCTTATTAGTCTTCTCAATTAT-CT
* * *
17688695 T-TGTTCTCTTTTTAGTCTTCTCAATTCTCT
1 TCTATTCTCTTATTAGTCTTCTCAATTATCT
17688725 TCTATTCTCTTATTAGTCT
1 TCTATTCTCTTATTAGTCT
17688744 CTAAAACATT
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
30 3 0.08
31 36 0.90
32 1 0.03
ACGTcount: A:0.14, C:0.25, G:0.04, T:0.58
Consensus pattern (31 bp):
TCTATTCTCTTATTAGTCTTCTCAATTATCT
Found at i:17695405 original size:19 final size:19
Alignment explanation
Indices: 17695364--17695405 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
17695354 AATTATTACC
*
17695364 TTAAATCCAAAAAATAATT
1 TTAAATCCAAAAAATAATG
*
17695383 TTAAA-CCAATAAATAAGTG
1 TTAAATCCAAAAAATAA-TG
17695402 TTAA
1 TTAA
17695406 CGTAAAAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.55, C:0.10, G:0.05, T:0.31
Consensus pattern (19 bp):
TTAAATCCAAAAAATAATG
Found at i:17695615 original size:20 final size:22
Alignment explanation
Indices: 17695566--17695616 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 22
17695556 CTAAGTTGAT
17695566 AATGTAAAAGAAATATTATTACA
1 AATG-AAAAGAAATATTATTACA
17695589 AAT-AAAA-AAATAATT-TTA-A
1 AATGAAAAGAAAT-ATTATTACA
17695608 AATGAAAAG
1 AATGAAAAG
17695617 TAAAAGTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
19 4 0.16
20 11 0.44
21 7 0.28
23 3 0.12
ACGTcount: A:0.63, C:0.02, G:0.08, T:0.27
Consensus pattern (22 bp):
AATGAAAAGAAATATTATTACA
Found at i:17695647 original size:221 final size:218
Alignment explanation
Indices: 17695181--17696137 Score: 606
Period size: 221 Copynumber: 4.3 Consensus size: 218
17695171 ATTGAAAATT
* ** * *
17695181 AGTTAACGTAAAAAAGTGAGAATTATCATAAAATT-G-ATTTCATTTGGTATAAAATGTGTTAGA
1 AGTTAACGTAAAAAAGTGAGAATAATCATAAAATTAGTA-TT-ATTTAATGTAAAATGAGTTAGA
* * * * * * * * * **
17695244 AGTATCGTAAAACTCTAATAGAGAGTTATAATAATTTTAAATGTAAT-GAAAGTATGAACAAGA-
64 AGTATCGTAACACCCTAAAAAAGAGTTGTGATAATTATAAACGTAATAAAAAGTAACAA-AAGAC
* * *
17695307 GTAAAAAGATATTATTGTAACGTAAATAATTAAGTTGA-AACGTAAAAAATTATTACCTT-AAAT
128 GTAAAAAGATATTATTGTAACATAAATAATTAAGTTGATAATGTAAAAAAATATTA--TTAAAAT
*
17695370 CCAAAAAATAATTTTAAACCAATAAATAAG
191 --AAAAAATAATTTTAAACCAATAAATAAA
* * *
17695400 TGTTAACGT-AAAAAGATGAAAATAATCGTAAAATTAGTATTATTTAATGTAAAATGAGTTAGAA
1 AGTTAACGTAAAAAAG-TGAGAATAATCATAAAATTAGTATTATTTAATGTAAAATGAGTTAGAA
* * *
17695464 GTATCGTAACACCCTAAAAAAGAGTTGTGCTAATTATAAACGTAATAAAAAGTAACAATAGACAT
65 GTATCGTAACACCCTAAAAAAGAGTTGTGATAATTATAAACGTAATAAAAAGTAACAAAAGACGT
* * *
17695529 AAAAAGATATTATTGTAACAAAAAAAACTAAGTTGATAATGTAAAAGAAATATTATTACAAATAA
130 AAAAAGATATTATTGTAACATAAATAATTAAGTTGATAATGTAAAA-AAATATTATTA-AAAT-A
** *
17695594 AAAAATAATTTTAAAATGAA-AAGTAAA
192 AAAAATAATTTT-AAACCAATAAATAAA
* * *
17695621 AGTTAATGTAAAAAAGTGAGAATAATCATAAAATTAGTTTTATTTAATGTAAAAT-AGTTACAAA
1 AGTTAACGTAAAAAAGTGAGAATAATCATAAAATTAGTATTATTTAATGTAAAATGAGTTA-GAA
** * * * ** * ** *
17695685 GTGCCATTACACCTTAATAAACCA-TTGTGATAATTCTAAACACAATAAAAAGTAACAACA-ACT
65 GTATCGTAACACCCTAA-AAAAGAGTTGTGATAATTATAAACGTAATAAAAAGTAACAAAAGAC-
* ** * * *
17695748 GTAAAAAAATATTATTAAAACATAAATAATTAAGTTGTTAATGGAAAAAAATTAGTATTATAAAT
128 GTAAAAAGATATTATTGTAACATAAATAATTAAGTTGATAATGTAAAAAAA-TATTATTA-AAAT
** * * *
17695813 AAAAAATAATCCTACACACAAAAGAAAAAA
191 AAAAAATAATTTTAAAC-CAATA-AATAAA
* * ** * ****
17695843 AGCTGTTAACGT-AAAAAGATAAAAATAATTGTAAAATTGGTATT-TTTGGCATAAAATG-GTTA
1 A---GTTAACGTAAAAAAG-TGAGAATAATCATAAAATTAGTATTATTTAATGTAAAATGAGTTA
* * ** * * ** ** *
17695905 AAAGTGTTTTAATACCTTTAAGAAAA-AGTAATGATAATCCTAAACGTAAT-GAAAGATAAC--A
62 GAAGTATCGTAACACC-CTAA-AAAAGAGTTGTGATAATTATAAACGTAATAAAAAG-TAACAAA
* * * * * *
17695966 ACACGTATAAAAAGATATTATTATAACGTAAATAATTAATTTGATAATATAAAAACATTTATTAT
124 AGACG--TAAAAAGATATTATTGTAACATAAATAATTAAGTTGATAATGTAAAAA-A-ATATTAT
* * *
17696031 TATAAATAAAAAGTGATTCTAAA-CAA-AAA-AAA
185 TA-AAATAAAAAATAATTTTAAACCAATAAATAAA
* * ** * * * * * * * *
17696063 TGTTAACGTAAAAAAGTGAGAGTAATTGTAAAATTGGAATCATTTGACGTAAAGTGTGTTAAAAG
1 AGTTAACGTAAAAAAGTGAGAATAATCATAAAATTAGTATTATTTAATGTAAAATGAGTTAGAAG
17696128 TATCGTAACA
66 TATCGTAACA
17696138 TAAAAAGGTA
Statistics
Matches: 584, Mismatches: 120, Indels: 68
0.76 0.16 0.09
Matches are distributed among these distances:
217 28 0.05
218 23 0.04
219 99 0.17
220 72 0.12
221 168 0.29
222 34 0.06
223 21 0.04
224 88 0.15
225 51 0.09
ACGTcount: A:0.51, C:0.07, G:0.12, T:0.30
Consensus pattern (218 bp):
AGTTAACGTAAAAAAGTGAGAATAATCATAAAATTAGTATTATTTAATGTAAAATGAGTTAGAAG
TATCGTAACACCCTAAAAAAGAGTTGTGATAATTATAAACGTAATAAAAAGTAACAAAAGACGTA
AAAAGATATTATTGTAACATAAATAATTAAGTTGATAATGTAAAAAAATATTATTAAAATAAAAA
ATAATTTTAAACCAATAAATAAA
Found at i:17696663 original size:218 final size:209
Alignment explanation
Indices: 17696416--17696828 Score: 488
Period size: 218 Copynumber: 1.9 Consensus size: 209
17696406 AAGTGTCCTA
* * * *
17696416 ACACCTTAAAAAAATTGTAATACTTCTAAACATAATGAAATGTAACAACAAGCATAAAAAGATAT
1 ACACCTTAAAAAAATTGTAATAATTCTAAACATAATGAAAAGCAACAACAAACATAAAAAGATAT
* * **
17696481 TATTAAAACATAAATAATTAAGTTAGTAATACAAAAGAACTATTATTATAAATAAAAAATAATT-
66 TATT-AAA-AT--ATAA-TAAATTAGTAATACAAAAAAACTAACATTATAAATAAAAAATAATTA
* * * * * *
17696545 TTAAATAAAAGTTAAGAGTTGACGTAAAACGGTGAAAATAA-CAGTAAAATTAGTATTATTTAAT
126 ATAAA-AAAA--TAAGAGTTAACGTAAAAAGATGAAAATAATCA-TAAAATTAGTATCATTTAAC
17696609 GTAAAATAATTGGAAGTATTGTT
187 GTAAAATAATTGGAAGTATTGTT
** **
17696632 ACACCTTAAGAAAAAATTGTAATAATTCTAAATGTAATGAAAAGCAATGACAAACATAAAAAGAT
1 ACACCTT-A-AAAAAATTGTAATAATTCTAAACATAATGAAAAGCAACAACAAACATAAAAAGAT
* ** *
17696697 ATTATTGAAATATAATAAATTAGTAATGTAAAAAAATTAACATTATAAATAAAAAATAATTCAAT
64 ATTATTAAAATATAATAAATTAGTAATACAAAAAAACTAACATTATAAATAAAAAATAATT-AAT
* *
17696762 AAAAAAATAAGTGTTAACGTAAAAAGATGAAAATAATCATAAAATTAGTATCATTTGACGTAAAA
128 AAAAAAATAAGAGTTAACGTAAAAAGATGAAAATAATCATAAAATTAGTATCATTTAACGTAAAA
17696827 TA
193 TA
17696829 TATTATAAGT
Statistics
Matches: 168, Mismatches: 24, Indels: 14
0.82 0.12 0.07
Matches are distributed among these distances:
212 50 0.30
213 41 0.24
214 8 0.05
215 4 0.02
216 9 0.05
217 3 0.02
218 53 0.32
ACGTcount: A:0.54, C:0.07, G:0.10, T:0.29
Consensus pattern (209 bp):
ACACCTTAAAAAAATTGTAATAATTCTAAACATAATGAAAAGCAACAACAAACATAAAAAGATAT
TATTAAAATATAATAAATTAGTAATACAAAAAAACTAACATTATAAATAAAAAATAATTAATAAA
AAAATAAGAGTTAACGTAAAAAGATGAAAATAATCATAAAATTAGTATCATTTAACGTAAAATAA
TTGGAAGTATTGTT
Found at i:17697424 original size:21 final size:21
Alignment explanation
Indices: 17697395--17697465 Score: 67
Period size: 21 Copynumber: 3.4 Consensus size: 21
17697385 ACAACAAGCA
17697395 TAAAAAATTATTATTATAACG
1 TAAAAAATTATTATTATAACG
* *
17697416 TAAATAATTA--AGTTGATAATG
1 TAAAAAATTATTA-TT-ATAACG
*
17697437 TAAAAAAATTATTATTATAA-A
1 T-AAAAAATTATTATTATAACG
17697458 TAAAAAAT
1 TAAAAAAT
17697466 AATTTTAAAC
Statistics
Matches: 41, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
19 1 0.02
20 9 0.22
21 16 0.39
22 12 0.29
23 2 0.05
24 1 0.02
ACGTcount: A:0.56, C:0.01, G:0.06, T:0.37
Consensus pattern (21 bp):
TAAAAAATTATTATTATAACG
Found at i:17697459 original size:925 final size:929
Alignment explanation
Indices: 17695376--17697635 Score: 2337
Period size: 925 Copynumber: 2.4 Consensus size: 929
17695366 AAATCCAAAA
* * * * ** *
17695376 AATAATTTTAAACCAATAAATAAGTGTTAACGTAAAAAGATGAAAATAATCGTAAAATTAGTATT
1 AATAATTCTAAACAAAAAAAAAAGTGTTAATATAAAAAGGTGAAAATAATCGTAAAATTAGTATT
** * * * * * *
17695441 ATTTAATGTAAAATGAGTTAGAAGTATCGTAACACCCTAAAAAAGAGTTGTGCTAATTATAAACG
66 ATTTGGTATAAAAT-AGTTAGAAGTATCATAACACCTTAAAAAAAAGTTGTGATAATTCTAAACG
* * * * * *
17695506 TAATAAAAAGTAACAA-TAGACATAAAAAGATATTATTGTAACAAAAAAAACTAAGTTGATAATG
130 TAATGAAAAGTAACAACAAG-CATAAAAAGATATTATTATAACATAAATAATTAAGTTGATAATG
* * *
17695570 TAAAAGAAATATTATTACAAATAAAAAAATAATTTTAAAATGAAAAGTAAAAGTTAATGTAAAAA
194 TAAAA-AAATATTATTATAAAT-AAAAAATAATTTT-AAAT-AAAAGTAAGAGTTAACGTAAAAA
* * * * ** *
17695635 AGTGAGAATAATCATAAAATTAGTTTTATTTAATGTAAAATAGTTACAAAGTGCCATTACACCTT
255 GGTGAAAATAA-CATAAAATTAGTATTATTTAATGTAAAATAGTTA-GAAGTATCGTTACACCTT
** * * * *
17695700 AATAAACCATTGTGATAATTCTAAACACAATAAAAAGTAACAAC-AACTGTAAAAAAATATTATT
318 AATAAAAAATTGTAATAATTCTAAACATAATGAAAAGTAACAACAAAC-GTAAAAAGATATTATT
* **
17695764 AAAACATAAATAATTAAGTTGTTAATGGAAAAAAATTAGTATTATAAATAAAAAATAATCCTACA
382 GAAACATAAATAATTAA--TGTTAATGGAAAAAAATTAACATTATAAATAAAAAATAAT-CTACA
** * * *
17695829 CACAAAAGAAAAAAAGCTGTTAACGTAAAAAGATAAAAATAATTGTAAAATTGGTATTTTTGGCA
444 CACAAAAGAAAAAAAGCTGTTAACGTAAAAAGATAAAAATAATCATAAAATTAGTATATTTGACA
* ** *
17695894 TAAAATGGTTAAAAGTGTTTTAATACCTTTAAGAAAAAGTAATGATAATCCTAAACGTAATGAAA
509 TAAAATGATTAAAAGTGTCGTAATACCTTTAAGAAAAAG-AATGATAATCC-AAAC--AATAAAA
* * * *
17695959 GATAACAACACGTATAAAAAGATATTATTATAACGTAAATAATTAATTTGATAATATAAAAACAT
570 GATAACAACAAGTATAAAAAGATATTATTATAACGTAAATAATTAAGTTGACAAGATAAAAACAT
* * * * *
17696024 TTATTATTATAAATAAAAAGTGATTCTAAACAAAAAAAATGTTAACGTAAAAAAGTGAGAGTAAT
635 TTATTATTATAAATAAAAAATAATTCTAAACAAAAAAAATGTTAACATAAAAAAGTGAAAATAAT
** * * * *
17696089 TGTAAAATTGGAATCATTTGACGTAAAGTGTGTTAAAAGTATCGTAACATAAAAAGGTAAGAATA
700 TAAAAAACTGGAATCATTTGACGTAAAATATGTTAAAAGTATCGTAACATAAAAAGGTAAAAATA
* * * * * *
17696154 GTTATAAAATTAGTGTTACATGGAATAAATTGGATCTAAATTGTCATAACATCCTAATAAAAAGT
765 ATTATAAAATTAGTATCACATGGAATAAATTGGATCGAAAATGTCATAACATCCTAACAAAAAGT
* *
17696219 TGTAATAAATTTAAATATAATAAAAAGAAAGAACAAGTGTAAAAAATATTAATGTAAATAATATT
830 TATAATAAATTTAAATATAATAAAAAGAAAGAACAAGTATAAAAAATATTAATGTAAATAATATT
** *
17696284 TTTGGCAATGTAAAAAATTATTATTACAAATAAGT
895 TTTGGCAACATAAAAAATTATTATTACAAATAAAT
* * * * * * * *
17696319 AATAATTTTAAACTAAAAAATAAGTGTTAGTATAAAAAATAGTGAGAATAATCATAAAATTGGTA
1 AATAATTCTAAACAAAAAAAAAAGTGTTAATAT-AAAAA-GGTGAAAATAATCGTAAAATTAGTA
* * * *
17696384 TTATTTGGTATAAAAT-GATTAGAAGTGTCCTAACACCTT-AAAAAAA-TTGTAATACTTCTAAA
64 TTATTTGGTATAAAATAG-TTAGAAGTATCATAACACCTTAAAAAAAAGTTGTGATAATTCTAAA
* * *
17696446 CATAATGAAATGTAACAACAAGCATAAAAAGATATTATTAAAACATAAATAATTAAGTT-AGTAA
128 CGTAATGAAAAGTAACAACAAGCATAAAAAGATATTATTATAACATAAATAATTAAGTTGA-TAA
** * * *
17696510 TACAAAAGAACTATTATTATAAATAAAAAATAATTTTAAATAAAAGTTAAGAGTTGACGTAAAAC
192 TGTAAAA-AAATATTATTATAAATAAAAAATAATTTTAAATAAAAG-TAAGAGTTAACGTAAAAA
* * *
17696575 GGTGAAAATAACAGTAAAATTAGTATTATTTAATGTAAAATAATTGGAAGTATTGTTACACCTTA
255 GGTGAAAATAACA-TAAAATTAGTATTATTTAATGTAAAATAGTTAGAAGTATCGTTACACCTTA
* ** * ** *
17696640 AGAAAAAATTGTAATAATTCTAAATGTAATGAAAAGCAATGACAAACATAAAAAGATATTATTGA
319 ATAAAAAATTGTAATAATTCTAAACATAATGAAAAGTAACAACAAACGTAAAAAGATATTATTGA
* * *
17696705 AATAT-AATAAATT-A-G-TAATGTAAAAAAATTAACATTATAAATAAAAAATAAT-T-CA-A-T
384 AACATAAAT-AATTAATGTTAATGGAAAAAAATTAACATTATAAATAAAAAATAATCTACACACA
* * *
17696762 AAA-AAAATAAG-TGTTAACGTAAAAAGATGAAAATAATCATAAAATTAGTATCATTTGACGTAA
448 AAAGAAAAAAAGCTGTTAACGTAAAAAGATAAAAATAATCATAAAATTAGTAT-ATTTGACATAA
* * * * * *
17696825 AATATATTATAAGTGTCGTAATACC-TTAA-AAAAA-ACT-CTAA-CC-AA-AATAAAAGGTAAG
512 AAT-GATTAAAAGTGTCGTAATACCTTTAAGAAAAAGAATGATAATCCAAACAATAAAAGATAAC
* * * *
17696883 AACAAGTGTAAAAA-ATTTTATTATAATGTAAAT-A-TAAGTTGACAAGAT-AAAA-A-TTGTTA
576 AACAAGTATAAAAAGATATTATTATAACGTAAATAATTAAGTTGACAAGATAAAAACATTTATTA
* *
17696942 TTATAAATAAAAAATAATTTTAAACAAAAAATAGGTGTTAACATAAAAAAGTGAAAATAATTAAA
641 TTATAAATAAAAAATAATTCTAAACAAAAAA-A-ATGTTAACATAAAAAAGTGAAAATAATTAAA
* ** *
17697007 AAACTGGAATTATTTGGTGTAAAATATGTTACAATGT-TCGTAA-AGTAAAAAGGATAAAAATAA
704 AAACTGGAATCATTTGACGTAAAATATGTTA-AAAGTATCGTAACA-TAAAAAGG-TAAAAATAA
* * ** ** **
17697070 TTATAAATTTGGTATCATTTGGGGTAAATTGGAT-GAGAAATGTTGTAACA-CCTTAACAAAAAG
766 TTATAAAATTAGTATCACATGGAATAAATTGGATCGA-AAATGTCATAACATCC-TAACAAAAAG
* *
17697133 TTATAAT-AATTCTAAATATAATAAAAA-ATAGGAACAAGTATAAAAAAAATATTATTGTAACAT
829 TTATAATAAATT-TAAATATAATAAAAAGA-AAGAACAAGTAT--AAAAAATATTAATGTAA-AT
*
17697196 AAGTAATATCTTTGGTAACATAAAAGAATTATTATTACAAATAAAT
889 AA-T-AT-T-TTTGGCAACATAAAA-AATTATTATTACAAATAAAT
* *
17697242 AATCATTCTAAACAAAAAAAAAAGTGTTAATATAAAAACGGTGAAAATAATCGTAAAATTAATAT
1 AATAATTCTAAACAAAAAAAAAAGTGTTAATATAAAAA-GGTGAAAATAATCGTAAAATTAGTAT
* * * * *
17697307 CATTTGGCATAAAATAGTTAAAAGTATCATAACACCTTTAAAAAAAAGTTATGATAATTCTAAAT
65 TATTTGGTATAAAATAGTTAGAAGTATCATAACACC-TTAAAAAAAAGTTGTGATAATTCTAAAC
* *
17697372 GTAATGAAAGGTAACAACAAGCATAAAAA-ATTATTATTATAACGTAAATAATTAAGTTGATAAT
129 GTAATGAAAAGTAACAACAAGCATAAAAAGA-TATTATTATAACATAAATAATTAAGTTGATAAT
* * * *
17697436 GTAAAAAAATTATTATTATAAATAAAAAATAATTTTAAACAAAGAATAAGAGTTAACATAAAATG
193 GTAAAAAAA-TATTATTATAAATAAAAAATAATTTTAAATAAA-AGTAAGAGTTAACGTAAAAAG
* * ** * ** * * *
17697501 ATGAGAATTATTATAAAATTAGTATTATTTTACATAAAATGGTTAGAAATATCGATACACCTTAA
256 GTGA-AAATAACATAAAATTAGTATTATTTAATGTAAAATAGTTAGAAGTATCGTTACACCTTAA
* * *
17697566 TAAAAAATTGTAATAATTTTAAACAT-A-GAAAAGTAACAAAAAACGTAAAAAGATATTATTGAT
320 TAAAAAATTGTAATAATTCTAAACATAATGAAAAGTAACAACAAACGTAAAAAGATATTATTGAA
17697629 ACATAAA
385 ACATAAA
17697636 AAATATTATA
Statistics
Matches: 1091, Mismatches: 188, Indels: 95
0.79 0.14 0.07
Matches are distributed among these distances:
912 33 0.03
913 3 0.00
914 76 0.07
915 98 0.09
916 1 0.00
917 33 0.03
918 26 0.02
919 1 0.00
920 2 0.00
921 3 0.00
922 67 0.06
923 85 0.08
924 16 0.01
925 191 0.18
926 7 0.01
927 41 0.04
928 22 0.02
929 19 0.02
930 1 0.00
931 2 0.00
932 1 0.00
934 34 0.03
935 1 0.00
938 4 0.00
939 76 0.07
940 59 0.05
941 14 0.01
942 82 0.08
943 37 0.03
944 23 0.02
945 33 0.03
ACGTcount: A:0.52, C:0.07, G:0.11, T:0.30
Consensus pattern (929 bp):
AATAATTCTAAACAAAAAAAAAAGTGTTAATATAAAAAGGTGAAAATAATCGTAAAATTAGTATT
ATTTGGTATAAAATAGTTAGAAGTATCATAACACCTTAAAAAAAAGTTGTGATAATTCTAAACGT
AATGAAAAGTAACAACAAGCATAAAAAGATATTATTATAACATAAATAATTAAGTTGATAATGTA
AAAAAATATTATTATAAATAAAAAATAATTTTAAATAAAAGTAAGAGTTAACGTAAAAAGGTGAA
AATAACATAAAATTAGTATTATTTAATGTAAAATAGTTAGAAGTATCGTTACACCTTAATAAAAA
ATTGTAATAATTCTAAACATAATGAAAAGTAACAACAAACGTAAAAAGATATTATTGAAACATAA
ATAATTAATGTTAATGGAAAAAAATTAACATTATAAATAAAAAATAATCTACACACAAAAGAAAA
AAAGCTGTTAACGTAAAAAGATAAAAATAATCATAAAATTAGTATATTTGACATAAAATGATTAA
AAGTGTCGTAATACCTTTAAGAAAAAGAATGATAATCCAAACAATAAAAGATAACAACAAGTATA
AAAAGATATTATTATAACGTAAATAATTAAGTTGACAAGATAAAAACATTTATTATTATAAATAA
AAAATAATTCTAAACAAAAAAAATGTTAACATAAAAAAGTGAAAATAATTAAAAAACTGGAATCA
TTTGACGTAAAATATGTTAAAAGTATCGTAACATAAAAAGGTAAAAATAATTATAAAATTAGTAT
CACATGGAATAAATTGGATCGAAAATGTCATAACATCCTAACAAAAAGTTATAATAAATTTAAAT
ATAATAAAAAGAAAGAACAAGTATAAAAAATATTAATGTAAATAATATTTTTGGCAACATAAAAA
ATTATTATTACAAATAAAT
Found at i:17697572 original size:221 final size:222
Alignment explanation
Indices: 17697115--17697588 Score: 489
Period size: 221 Copynumber: 2.2 Consensus size: 222
17697105 AGAAATGTTG
* ** *
17697115 TAACACC-TTAACAAAAAGTTATAATAATTCTAAATATAATAAAAAATAGGAACAAGTATAAAAA
1 TAACACCTTTAAAAAAAAGTTATAATAATTCTAAATATAATAAAAAATAACAACAAGCATAAAAA
* * ** * * *
17697179 AAATATTATTGTAACATAAGTAATATCTTTGGTAACATAAAAGAATTATTATTACAAATAAATAA
66 AAATATTATTATAACATAAATAATATAGTTGATAACATAAAAAAATTATTATTACAAATAAAAAA
* * * * *
17697244 TCATTCTAAACAAAAAAAAAAGTGTTAATATAAAAACGGTGAAAATAATCGTAAAATTAATATCA
131 TAATTCTAAACAAAAAAAAAAGAGTTAACATAAAAACGATGAAAATAATCATAAAATTAATATCA
*
17697309 TTTGGCATAAAATAGTTAAAAGTATCA
196 TTTGACATAAAATAGTTAAAAGTATCA
* * * **
17697336 TAACACCTTTAAAAAAAAGTTATGATAATTCTAAATGTAATGAAAGGTAACAACAAGCAT-AAAA
1 TAACACCTTTAAAAAAAAGTTATAATAATTCTAAATATAATAAAAAATAACAACAAGCATAAAAA
* * ** *
17697400 AATTATTATTATAACGTAAATAAT-TAAGTTGATAATGTAAAAAAATTATTATTATAAATAAAAA
66 AAATATTATTATAACATAAATAATAT-AGTTGATAACATAAAAAAATTATTATTACAAATAAAAA
* * * * * * * * *
17697464 ATAATTTTAAAC-AAAGAATAAGAGTTAACAT-AAAATGATGAGAATTATTATAAAATTAGTATT
130 ATAATTCTAAACAAAAAAAAAAGAGTTAACATAAAAACGATGAAAATAATCATAAAATTAATATC
* *
17697527 ATTTTACATAAAATGGTTAGAAA-TATCGA
195 ATTTGACATAAAATAGTTA-AAAGTATC-A
* *
17697556 T-ACACC-TTAATAAAAAA-TTGTAATAATTTTAAA
1 TAACACCTTTAA-AAAAAAGTTATAATAATTCTAAA
17697589 CATAGAAAAG
Statistics
Matches: 207, Mismatches: 41, Indels: 13
0.79 0.16 0.05
Matches are distributed among these distances:
218 17 0.08
219 55 0.27
220 21 0.10
221 71 0.34
222 43 0.21
ACGTcount: A:0.53, C:0.07, G:0.09, T:0.31
Consensus pattern (222 bp):
TAACACCTTTAAAAAAAAGTTATAATAATTCTAAATATAATAAAAAATAACAACAAGCATAAAAA
AAATATTATTATAACATAAATAATATAGTTGATAACATAAAAAAATTATTATTACAAATAAAAAA
TAATTCTAAACAAAAAAAAAAGAGTTAACATAAAAACGATGAAAATAATCATAAAATTAATATCA
TTTGACATAAAATAGTTAAAAGTATCA
Found at i:17697652 original size:16 final size:15
Alignment explanation
Indices: 17697631--17697670 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
17697621 TTATTGATAC
17697631 ATAAAAAATATTATAA
1 ATAAAAAA-ATTATAA
* *
17697647 ATAAAATAATTCTAA
1 ATAAAAAAATTATAA
17697662 ATAAAAAAA
1 ATAAAAAAA
17697671 ATAAGTGTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.28
Consensus pattern (15 bp):
ATAAAAAAATTATAA
Found at i:17702236 original size:22 final size:23
Alignment explanation
Indices: 17702208--17702252 Score: 83
Period size: 22 Copynumber: 2.0 Consensus size: 23
17702198 TGTCGAGTAA
17702208 AACTCTTTTCATTAATTT-TTTT
1 AACTCTTTTCATTAATTTATTTT
17702230 AACTCTTTTCATTAATTTATTTT
1 AACTCTTTTCATTAATTTATTTT
17702253 GATAATTTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.24, C:0.13, G:0.00, T:0.62
Consensus pattern (23 bp):
AACTCTTTTCATTAATTTATTTT
Found at i:17702970 original size:20 final size:20
Alignment explanation
Indices: 17702945--17702982 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
17702935 AAATACCTAA
17702945 AATTAA-AAAAATTATTAATT
1 AATTAATAAAAATT-TTAATT
17702965 AATTAATAAAAATTTTAA
1 AATTAATAAAAATTTTAA
17702983 AAATCCAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
AATTAATAAAAATTTTAATT
Found at i:17708851 original size:18 final size:18
Alignment explanation
Indices: 17708828--17708868 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
17708818 AATTAACTTC
17708828 TAAAGAAATGATAGCTTA
1 TAAAGAAATGATAGCTTA
*
17708846 TAAAGAAATGATAGCTTT
1 TAAAGAAATGATAGCTTA
17708864 TAAAG
1 TAAAG
17708869 TATCAAATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.49, C:0.05, G:0.17, T:0.29
Consensus pattern (18 bp):
TAAAGAAATGATAGCTTA
Found at i:17710376 original size:50 final size:50
Alignment explanation
Indices: 17710245--17710384 Score: 155
Period size: 47 Copynumber: 2.8 Consensus size: 50
17710235 AACCGTAGTT
*
17710245 GAGAGATTTTTGAGATTTAATTCCAGAATCAATTGACA-T---TTGATGTG
1 GAGAGA-TTTTGAGATTTAATTCCAGAATCAATTCACATTAAATTGATGTG
* *
17710292 GAGAGATTGTCGAGATTTAATTCCATAATCAATTCACATTAAATTGATAG-G
1 GAGAGATT-TTGAGATTTAATTCCAGAATCAATTCACATTAAATTGAT-GTG
* * * *
17710343 GAGAGATTTTGGGATTTGATTTCAGAATCAATTCTCATTAAA
1 GAGAGATTTTGAGATTTAATTCCAGAATCAATTCACATTAAA
17710385 ATGAAAATCA
Statistics
Matches: 78, Mismatches: 9, Indels: 9
0.81 0.09 0.09
Matches are distributed among these distances:
46 2 0.03
47 32 0.41
48 1 0.01
50 28 0.36
51 14 0.18
52 1 0.01
ACGTcount: A:0.34, C:0.10, G:0.19, T:0.36
Consensus pattern (50 bp):
GAGAGATTTTGAGATTTAATTCCAGAATCAATTCACATTAAATTGATGTG
Found at i:17713432 original size:3 final size:3
Alignment explanation
Indices: 17713415--17713525 Score: 53
Period size: 3 Copynumber: 33.7 Consensus size: 3
17713405 TCTTAGTTAT
* * *
17713415 TTA TTA TTTA TTTA TTA TTA CTA TCTA TTA ATA TATA TTA TTT TTA TT-
1 TTA TTA -TTA -TTA TTA TTA TTA T-TA TTA TTA T-TA TTA TTA TTA TTA
* * * *
17713463 TTA TTT TTA TTT TTA TTA TTTA TCTG TTGA TATA CATA TTA TTA TTTA
1 TTA TTA TTA TTA TTA TTA -TTA T-TA TT-A T-TA -TTA TTA TTA -TTA
17713511 TCTA TTA TTA TTA TT
1 T-TA TTA TTA TTA TT
17713526 TATCTATTAA
Statistics
Matches: 83, Mismatches: 14, Indels: 22
0.70 0.12 0.18
Matches are distributed among these distances:
2 2 0.02
3 52 0.63
4 28 0.34
5 1 0.01
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:17713461 original size:43 final size:43
Alignment explanation
Indices: 17713411--17713537 Score: 111
Period size: 46 Copynumber: 2.8 Consensus size: 43
17713401 TGTATCTTAG
*
17713411 TTATTTATTATTTATTTATTATTACTATCTATTAATATATATTA
1 TTATTTATTATTTATTTATTATTA-TATCTATTAATACATATTA
*
17713455 TT-TTTATTTTATTTTTATTT-TTATTATTTATCTGTTGATATACATATTA
1 TTATTTA--TTA--TTTATTTATTATTA--TATCTATT-A-ATACATATTA
17713504 TTATTTATCTA-TTA-TTATTATT-TATCTATTAATA
1 TTATTTAT-TATTTATTTATTATTATATCTATTAATA
17713538 GTTTTATTTA
Statistics
Matches: 69, Mismatches: 4, Indels: 23
0.72 0.04 0.24
Matches are distributed among these distances:
41 3 0.04
42 1 0.01
43 11 0.16
44 2 0.03
45 5 0.07
46 14 0.20
47 14 0.20
48 2 0.03
49 13 0.19
50 4 0.06
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.64
Consensus pattern (43 bp):
TTATTTATTATTTATTTATTATTATATCTATTAATACATATTA
Found at i:17713521 original size:17 final size:17
Alignment explanation
Indices: 17713415--17713557 Score: 76
Period size: 17 Copynumber: 8.1 Consensus size: 17
17713405 TCTTAGTTAT
*
17713415 TTATTATTTATTTATTA
1 TTATTATTTATCTATTA
* * *
17713432 TTACTATCTAT-TAATA
1 TTATTATTTATCTATTA
* * *
17713448 TATATTATTTTTATTTTA
1 T-TATTATTTATCTATTA
*
17713466 TTTTTATTT-T-TATTA
1 TTATTATTTATCTATTA
* * * *
17713481 TTTATCTGTTGATATACATA
1 -TTAT-TATTTATCTA-TTA
17713501 TTATTATTTATCTATTA
1 TTATTATTTATCTATTA
17713518 TTATTATTTATCTATTAA
1 TTATTATTTATCTATT-A
*
17713536 TAGTTTTATTTATCTAATTA
1 T--TATTATTTATCT-ATTA
17713556 TT
1 TT
17713558 TTCTTTTAAT
Statistics
Matches: 96, Mismatches: 19, Indels: 21
0.71 0.14 0.15
Matches are distributed among these distances:
15 4 0.04
16 9 0.09
17 44 0.46
18 15 0.16
19 6 0.06
20 15 0.16
21 3 0.03
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (17 bp):
TTATTATTTATCTATTA
Found at i:17713855 original size:23 final size:24
Alignment explanation
Indices: 17713817--17713865 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 24
17713807 TGGTGGGGAA
*
17713817 TTTTTGGAGAATTTTTTGTGAATTT
1 TTTTTGGAGAATTTTTTG-GAAATT
17713842 TTTTTGGA-AA-TTTTTGGAAATT
1 TTTTTGGAGAATTTTTTGGAAATT
17713864 TT
1 TT
17713866 CCAGATTTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 7 0.30
23 6 0.26
24 2 0.09
25 8 0.35
ACGTcount: A:0.22, C:0.00, G:0.18, T:0.59
Consensus pattern (24 bp):
TTTTTGGAGAATTTTTTGGAAATT
Found at i:17714474 original size:12 final size:12
Alignment explanation
Indices: 17714457--17714522 Score: 80
Period size: 12 Copynumber: 5.4 Consensus size: 12
17714447 TGTTTAATAT
17714457 TTTTTATTTATA
1 TTTTTATTTATA
*
17714469 TTTTTATTTATT
1 TTTTTATTTATA
17714481 TTCCTTTATTTATA
1 TT--TTTATTTATA
*
17714495 TTTATATTTATA
1 TTTTTATTTATA
*
17714507 TTTATATTT-TA
1 TTTTTATTTATA
17714518 TTTTT
1 TTTTT
17714523 TAAATAAAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
11 6 0.12
12 31 0.65
14 11 0.23
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTATTTATA
Found at i:17714603 original size:60 final size:60
Alignment explanation
Indices: 17714533--17714754 Score: 301
Period size: 60 Copynumber: 3.7 Consensus size: 60
17714523 TAAATAAAAT
* * *
17714533 TAAAAAAAATATTTTTGGGGAAATGTTAAAAGTATCAATTTTCCTTGAAAATAAGCTTTC
1 TAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTC
* * *
17714593 TAAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAACCTTTC
1 TAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTC
* * *
17714653 TAGAAAAAATATTTTTG-GAGAAAAGTTGAAAGTATCAAATTTT-CTCGAAATTAAAG-TTTC
1 TAAAAAAAATATTTTTGAG-GAAAAGTTGAAAGTATC-AATTTTCCTTGAAAAT-AAGCTTTC
17714713 --AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
1 TAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
17714755 CTGCACAAAA
Statistics
Matches: 145, Mismatches: 12, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
57 6 0.04
58 32 0.22
59 2 0.01
60 97 0.67
61 8 0.06
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.36
Consensus pattern (60 bp):
TAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTC
Found at i:17718746 original size:20 final size:19
Alignment explanation
Indices: 17718717--17718754 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
17718707 TGGATGAAAA
17718717 ATGAGAAAAAAAAAAGAAG
1 ATGAGAAAAAAAAAAGAAG
17718736 ATGATGAAAAAAAAAAGAA
1 ATGA-GAAAAAAAAAAGAA
17718755 AAAATAGAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (19 bp):
ATGAGAAAAAAAAAAGAAG
Found at i:17718757 original size:28 final size:27
Alignment explanation
Indices: 17718720--17718787 Score: 72
Period size: 26 Copynumber: 2.6 Consensus size: 27
17718710 ATGAAAAATG
* * *
17718720 AGAAA-AAA-AAAAGAAGATGATGAAA
1 AGAAAGAAAGAAAAAAAGAGGAAGAAA
17718745 A-AAA-AAAGAAAAAATAGAGGAAGAAA
1 AGAAAGAAAGAAAAAA-AGAGGAAGAAA
17718771 AGAAAGAAAGAAAAAAA
1 AGAAAGAAAGAAAAAAA
17718788 ATGAGAAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
24 6 0.17
25 6 0.17
26 10 0.28
27 4 0.11
28 10 0.28
ACGTcount: A:0.76, C:0.00, G:0.19, T:0.04
Consensus pattern (27 bp):
AGAAAGAAAGAAAAAAAGAGGAAGAAA
Found at i:17718771 original size:24 final size:23
Alignment explanation
Indices: 17718713--17718779 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 23
17718703 ACAATGGATG
17718713 AAAAATGA-GAA-AAAAAAAAG-
1 AAAAATGAGGAAGAAAAAAAAGA
* *
17718733 -AAGATGATGAA-AAAAAAAAGA
1 AAAAATGAGGAAGAAAAAAAAGA
*
17718754 AAAAATAGAGGAAGAAAAGAAAGA
1 AAAAAT-GAGGAAGAAAAAAAAGA
17718778 AA
1 AA
17718780 GAAAAAAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
19 6 0.16
20 12 0.32
22 4 0.11
23 5 0.13
24 11 0.29
ACGTcount: A:0.75, C:0.00, G:0.19, T:0.06
Consensus pattern (23 bp):
AAAAATGAGGAAGAAAAAAAAGA
Found at i:17718802 original size:31 final size:27
Alignment explanation
Indices: 17718724--17718803 Score: 72
Period size: 28 Copynumber: 2.8 Consensus size: 27
17718714 AAAATGAGAA
*
17718724 AAAAAAAAGAAGATGATGAAAAAAAAAAG
1 AAAAAAAAG-AGA-AATGAAAAAAAAAAG
* *
17718753 AAAAAATAGAGGAA-GAAAAGAAAGAAAG
1 AAAAAAAAGAGAAATGAAAA-AAA-AAAG
17718781 AAAAAAAATGAGAAAATGAAAAA
1 AAAAAAAA-GAG-AAATGAAAAA
17718804 GAGAGATTCA
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
26 5 0.12
27 4 0.10
28 13 0.32
29 11 0.27
30 3 0.07
31 5 0.12
ACGTcount: A:0.75, C:0.00, G:0.19, T:0.06
Consensus pattern (27 bp):
AAAAAAAAGAGAAATGAAAAAAAAAAG
Found at i:17719818 original size:20 final size:20
Alignment explanation
Indices: 17719793--17719838 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
17719783 TTAGGTTGTT
17719793 GCATTTGCATCATTAAGAAG
1 GCATTTGCATCATTAAGAAG
17719813 GCATTTGCATCATTAAGAAG
1 GCATTTGCATCATTAAGAAG
17719833 GCATTT
1 GCATTT
17719839 ACATTTTTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.33
Consensus pattern (20 bp):
GCATTTGCATCATTAAGAAG
Found at i:17720284 original size:43 final size:42
Alignment explanation
Indices: 17720219--17720324 Score: 124
Period size: 43 Copynumber: 2.5 Consensus size: 42
17720209 GCCTTTGAAC
* *
17720219 TCAAATGAGAAGCTTTGAATTTTTGGATGTGAATCTCCAAAAT
1 TCAAATGAAAAGCTTTGAATTTTTGGATATGAAT-TCCAAAAT
**
17720262 TCAAATGAAAAGCTTT-AGATTTTTGGATATGAATTCCAAGTT
1 TCAAATGAAAAGCTTTGA-ATTTTTGGATATGAATTCCAAAAT
*
17720304 TGCCAAATGAAAACCTTTGAA
1 T--CAAATGAAAAGCTTTGAA
17720325 AAGCCTTGAA
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
42 8 0.15
43 30 0.56
44 15 0.28
45 1 0.02
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.34
Consensus pattern (42 bp):
TCAAATGAAAAGCTTTGAATTTTTGGATATGAATTCCAAAAT
Found at i:17720737 original size:83 final size:83
Alignment explanation
Indices: 17720626--17720945 Score: 317
Period size: 83 Copynumber: 3.9 Consensus size: 83
17720616 AGTTCCATCC
* * *
17720626 CCTCTGTTAAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTAT
1 CCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTAT
*
17720691 TTTCCAAAGTTGTGGTTA
66 TTTTCAAAGTTGTGGTTA
* *
17720709 CCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTCATGGTTGCCTCTATTTAGAAGAGCAATTTA
1 CCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTCATGG-TGCCTCTGTTTAGAGGAGCAATTTA
* *
17720774 CTTTTCAAAGTTGTGG-TG
65 TTTTTCAAAGTTGTGGTTA
* * * * * * ***
17720792 CCTCTGCTTAGAGGAGC-ATTTATTTTT-GAAGTCATGGTGCTTTTGCTTAGAGAATTTATTTAT
1 CCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTAT
*
17720855 TTTTCAAAGTTGT--TGA
66 TTTTCAAAGTTGTGGTTA
* * ** * * ** * **
17720871 GCCTCTGATTAGAAGAGCCTTTTATTTTTCAAAAGTCGTTGAACCTCTGATTAGAGGAGCCTTTT
1 -CCTCTGTTTAGAGGAGCAATTTATTTTTC-AAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTT
17720936 ATTTTTCAAA
64 ATTTTTCAAA
17720946 AGTCGTTGAG
Statistics
Matches: 193, Mismatches: 38, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
80 44 0.23
81 18 0.09
82 10 0.05
83 84 0.44
84 37 0.19
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (83 bp):
CCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTAT
TTTTCAAAGTTGTGGTTA
Found at i:17720983 original size:42 final size:41
Alignment explanation
Indices: 17720626--17721106 Score: 306
Period size: 42 Copynumber: 11.4 Consensus size: 41
17720616 AGTTCCATCC
* * *
17720626 CCTCTG-TTAAGAGGAGCAATTTACTTTTCAAAGTCGTGGTG
1 CCTCTGATT-AGAGGAGCAATTTATTTTTCAAAGTCGTTGAG
* * * *
17720667 CCTCTGTTTAGAGGAGCAATTTATTTTCCAAAGTTGTGGTTA-
1 CCTCTGATTAGAGGAGCAATTTATTTTTCAAAGTCGT--TGAG
* * * *
17720709 CCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTCATGGTTG
1 CCTCTGATTAGAGGAGCAATTTATTTTTCAAAGTCGTTG-AG
* * * * *
17720751 CCTCT-ATTTAGAAGAGCAATTTACTTTTCAAAGTTGTGGTG
1 CCTCTGA-TTAGAGGAGCAATTTATTTTTCAAAGTCGTTGAG
* * * * *
17720792 CCTCTGCTTAGAGGAGC-ATTTATTTTT-GAAGTCATGGTG
1 CCTCTGATTAGAGGAGCAATTTATTTTTCAAAGTCGTTGAG
* * * * *** *
17720831 CTTTTGCTTAGAGAATTTATTTATTTTTCAAAGTTGTTGAG
1 CCTCTGATTAGAGGAGCAATTTATTTTTCAAAGTCGTTGAG
* ** *
17720872 CCTCTGATTAGAAGAGCCTTTTATTTTTCAAAAGTCGTTGAA
1 CCTCTGATTAGAGGAGCAATTTATTTTTC-AAAGTCGTTGAG
**
17720914 CCTCTGATTAGAGGAGCCTTTTATTTTTCAAAAGTCGTTGAG
1 CCTCTGATTAGAGGAGCAATTTATTTTTC-AAAGTCGTTGAG
* * *
17720956 CCTCTGATTAGAAGAGCCATTTATTTTTTAAAAAGTCGTTGAG
1 CCTCTGATTAGAGGAGCAATTTA-TTTTT-CAAAGTCGTTGAG
* * *** *
17720999 CCTTTGATTAAAGGAGTTTTGTTTATTTATTTCCAAAAGTCGTCGAG
1 CCTCTGATTAGAGGAG--CAATTTA-TT-TTT-C-AAAGTCGTTGAG
* *** *
17721046 TCTCTGATTAGAGGAGTTTTGTTTATGTTCTTCAAAGTCATTGAG
1 CCTCTGATTAGAGGAG--CAATTTAT-TT-TTCAAAGTCGTTGAG
*
17721091 CCTCTGCTTAGAGGAG
1 CCTCTGATTAGAGGAG
17721107 TTTTGATTAA
Statistics
Matches: 357, Mismatches: 65, Indels: 32
0.79 0.14 0.07
Matches are distributed among these distances:
39 21 0.06
40 19 0.05
41 74 0.21
42 140 0.39
43 30 0.08
45 31 0.09
46 6 0.02
47 36 0.10
ACGTcount: A:0.25, C:0.14, G:0.21, T:0.40
Consensus pattern (41 bp):
CCTCTGATTAGAGGAGCAATTTATTTTTCAAAGTCGTTGAG
Found at i:17721338 original size:3 final size:3
Alignment explanation
Indices: 17721321--17721425 Score: 50
Period size: 3 Copynumber: 31.7 Consensus size: 3
17721311 TTTTGTATCT
* * * *
17721321 TTA TTA TTTA TTTA TTA TTA CTA TCTA TTA ATA TATA TT- TTT TTA TTT
1 TTA TTA -TTA -TTA TTA TTA TTA T-TA TTA TTA T-TA TTA TTA TTA TTA
* *
17721369 TTA TTA TTTA TCTG TTGA TATA CATA TTA TTA TTTA TCTA TTA TTA TTA
1 TTA TTA -TTA T-TA TT-A T-TA -TTA TTA TTA -TTA T-TA TTA TTA TTA
17721418 TTA TTA TT
1 TTA TTA TT
17721426 TATCTATTAA
Statistics
Matches: 80, Mismatches: 11, Indels: 22
0.71 0.10 0.19
Matches are distributed among these distances:
2 2 0.03
3 49 0.61
4 28 0.35
5 1 0.01
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:17721381 original size:35 final size:35
Alignment explanation
Indices: 17721322--17721420 Score: 103
Period size: 35 Copynumber: 2.8 Consensus size: 35
17721312 TTTGTATCTT
* *
17721322 TATTATTTATTTATTATTACTATCTATTAATATATA
1 TATT-TTTATTTATTATTATTATCTATTAATATACA
* * *
17721358 TTTTTTTATTT-TTATTATTTATCTGTTGATATACA
1 TATTTTTATTTATTATTA-TTATCTATTAATATACA
*
17721393 TATTATTATTTATCTATTATTAT-TATTA
1 TATTTTTATTTAT-TATTATTATCTATTA
17721421 TTATTTATCT
Statistics
Matches: 51, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
34 6 0.12
35 32 0.63
36 8 0.16
37 5 0.10
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (35 bp):
TATTTTTATTTATTATTATTATCTATTAATATACA
Found at i:17721418 original size:20 final size:20
Alignment explanation
Indices: 17721393--17721476 Score: 73
Period size: 20 Copynumber: 4.1 Consensus size: 20
17721383 TTGATATACA
*
17721393 TATTATTATTTATCTAT-TAT
1 TATTATTA-TTATTTATCTAT
17721413 TATTATTATTATTTATCTAT
1 TATTATTATTATTTATCTAT
*
17721433 TAATAGTT-TTATTTATCTAAT
1 TATTA-TTATTATTTATCT-AT
* * *
17721454 TATTTTCTTTTAATTATCTAT
1 TATTAT-TATTATTTATCTAT
17721475 TA
1 TA
17721477 ACACTTTTTG
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
19 7 0.13
20 26 0.48
21 12 0.22
22 9 0.17
ACGTcount: A:0.30, C:0.06, G:0.01, T:0.63
Consensus pattern (20 bp):
TATTATTATTATTTATCTAT
Found at i:17721419 original size:23 final size:23
Alignment explanation
Indices: 17721321--17721476 Score: 108
Period size: 23 Copynumber: 6.7 Consensus size: 23
17721311 TTTTGTATCT
* *
17721321 TTATTATTTATTTATTATTACTA
1 TTATTATTTATCTATTATTATTA
* * * * *
17721344 TCTATTAATATATATTTTTTTATTT
1 T-TATT-ATTTATCTATTATTATTA
* *
17721369 TTATTATTTATCTGTTGATATACATA
1 TTATTATTTATCTATT-AT-TA-TTA
17721395 TTATTATTTATCTATTATTATTA
1 TTATTATTTATCTATTATTATTA
17721418 TTATTATTTATCTATTA--A-TA
1 TTATTATTTATCTATTATTATTA
*
17721438 GTT-TTATTTATCTAATTATT-TTC
1 -TTATTATTTATCT-ATTATTATTA
*
17721461 TT-TTAATTATCTATTA
1 TTATTATTTATCTATTA
17721477 ACACTTTTTG
Statistics
Matches: 107, Mismatches: 16, Indels: 22
0.74 0.11 0.15
Matches are distributed among these distances:
20 12 0.11
21 11 0.10
22 11 0.10
23 29 0.27
24 11 0.10
25 17 0.16
26 16 0.15
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (23 bp):
TTATTATTTATCTATTATTATTA
Found at i:17722479 original size:26 final size:26
Alignment explanation
Indices: 17722450--17722501 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
17722440 GGAAAAGTTG
17722450 AAGGTATCAATTTTCCTTGAAAATAA
1 AAGGTATCAATTTTCCTTGAAAATAA
17722476 AAGGTATCAATTTTCCTTGAAAATAA
1 AAGGTATCAATTTTCCTTGAAAATAA
17722502 GCTTTCTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.35
Consensus pattern (26 bp):
AAGGTATCAATTTTCCTTGAAAATAA
Found at i:17722489 original size:85 final size:86
Alignment explanation
Indices: 17722394--17722561 Score: 302
Period size: 86 Copynumber: 2.0 Consensus size: 86
17722384 AAAGTTGAAA
* * *
17722394 GTATCAATTTTCCTTGAAAATAAGCTTTCT-AAAAAAATATTTTTGAGGAAAAGTTGAAGGTATC
1 GTATCAATTTTCCTTGAAAATAAGCTTTCTAAAAAAAATATCTTTGAAGAAAAGTTGAAAGTATC
17722458 AATTTTCCTTGAAAATAAAAG
66 AATTTTCCTTGAAAATAAAAG
17722479 GTATCAATTTTCCTTGAAAATAAGCTTTCTAAAAAAAATATCTTTGAAGAAAAGTTGAAAGTATC
1 GTATCAATTTTCCTTGAAAATAAGCTTTCTAAAAAAAATATCTTTGAAGAAAAGTTGAAAGTATC
17722544 AATTTTCCTTGAAAATAA
66 AATTTTCCTTGAAAATAA
17722562 GCTTTCAAAA
Statistics
Matches: 79, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
85 30 0.38
86 49 0.62
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.35
Consensus pattern (86 bp):
GTATCAATTTTCCTTGAAAATAAGCTTTCTAAAAAAAATATCTTTGAAGAAAAGTTGAAAGTATC
AATTTTCCTTGAAAATAAAAG
Found at i:17722501 original size:145 final size:144
Alignment explanation
Indices: 17722351--17722619 Score: 416
Period size: 145 Copynumber: 1.9 Consensus size: 144
17722341 TATTTTCTTT
* **
17722351 AAATAA-AATTCAAAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT
1 AAATAAGAATTC-AAAAAAAAATATCTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT
* *
17722415 AAGCTTTCTAAAAA-AATATTTTTGAGGAAAAGTTGAAGGTATCAATTTTCCTTGAAAATAAAAG
65 AAGCTTTC-AAAAAGAATATTTTTGAGAAAAAGTTGAAAGTATCAA-TTTCCTTGAAAATAAAAG
17722479 GTATCAATTTTCCTTGA
128 GTATCAATTTTCCTTGA
** *
17722496 AAATAAGCTTTCTAAAAAAAATATCTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATA
1 AAATAAGAATTCAAAAAAAAATATCTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATA
*
17722561 AGCTTTCAAAAAGAATATTTTTGAGAAAAAGTTGAAAGTATTAATTTCCTTGAAAATAA
66 AGCTTTCAAAAAGAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTCCTTGAAAATAA
17722620 GCTTTCTAGA
Statistics
Matches: 113, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
144 20 0.18
145 90 0.80
146 3 0.03
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.33
Consensus pattern (144 bp):
AAATAAGAATTCAAAAAAAAATATCTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATA
AGCTTTCAAAAAGAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTCCTTGAAAATAAAAGGTA
TCAATTTTCCTTGA
Found at i:17722531 original size:59 final size:59
Alignment explanation
Indices: 17722479--17722901 Score: 512
Period size: 59 Copynumber: 7.2 Consensus size: 59
17722469 AAAATAAAAG
*
17722479 GTATCAATTTTCCTTGAAAATAAGCTTTCTAAAAAAAATATCTTTGAAGAAAAGTTGAAA
1 GTATCAATTTTCCTTGAAAATAAGCTTTCTAAAAAAAATATTTTTGAAGAAAA-TTGAAA
*
17722539 GTATCAATTTTCCTTGAAAATAAGCTTTC-AAAAAGAATATTTTTG-AGAAAAAGTTGAAA
1 GTATCAATTTTCCTTGAAAATAAGCTTTCTAAAAAAAATATTTTTGAAG-AAAA-TTGAAA
* * *
17722598 GTATTAA-TTTCCTTGAAAATAAGCTTTCTAGAAAAAATATTTTTGGGAA-AAAGTTGAAA
1 GTATCAATTTTCCTTGAAAATAAGCTTTCTAAAAAAAATATTTTT--GAAGAAAATTGAAA
*
17722657 GTATCAATTTTCCTTGAAAATAAGCTTTCT-AAAAAAATA-TTTTGAGGAAAAGTTGAAA
1 GTATCAATTTTCCTTGAAAATAAGCTTTCTAAAAAAAATATTTTTGAAGAAAA-TTGAAA
* *
17722715 GTATCAATTTTTCTTGAAAATAAGCTTT-TCAAAAAAATATTTTTG-AGAAAAAGTTGAAA
1 GTATCAATTTTCCTTGAAAATAAGCTTTCTAAAAAAAATATTTTTGAAG-AAAA-TTGAAA
* * * *
17722774 GTATCAATTTTTCTCGAAAATAAGCTTT-TCAAAAAAATATTTTTGAAAAAAAGTTGAAA
1 GTATCAATTTTCCTTGAAAATAAGCTTTCTAAAAAAAATATTTTTGAAGAAAA-TTGAAA
* * *
17722833 GTATCAATTTTTCTCGAAATTAAAG-TTTC--AAAAAAATATTTTTGGAA-AAAATTTGAAA
1 GTATCAATTTTCCTTGAAAAT-AAGCTTTCTAAAAAAAATATTTTT-GAAGAAAA-TTGAAA
17722891 GTATCAATTTT
1 GTATCAATTTT
17722902 TCCTACACAA
Statistics
Matches: 332, Mismatches: 16, Indels: 32
0.87 0.04 0.08
Matches are distributed among these distances:
56 2 0.01
57 4 0.01
58 105 0.32
59 161 0.48
60 58 0.17
61 1 0.00
62 1 0.00
ACGTcount: A:0.44, C:0.08, G:0.12, T:0.36
Consensus pattern (59 bp):
GTATCAATTTTCCTTGAAAATAAGCTTTCTAAAAAAAATATTTTTGAAGAAAATTGAAA
Found at i:17722775 original size:176 final size:176
Alignment explanation
Indices: 17722479--17722903 Score: 628
Period size: 176 Copynumber: 2.4 Consensus size: 176
17722469 AAAATAAAAG
*
17722479 GTATCAATTTTCCTTGAAAATAAGCTTTCTAAAAAAAATATCTTTGAAGAAAAGTTGAAAGTATC
1 GTATCAATTTTCCTTGAAAATAAGCTTTCT-AAAAAAATAT-TTTGAGGAAAAGTTGAAAGTATC
* *
17722544 AATTTTCCTTGAAAATAAGCTTTCAAAAAGAATATTTTTGAGAAAAAGTTGAAAGTATTAA-TTT
64 AATTTTTCTTGAAAATAAGCTTTCAAAAAGAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTT
* **
17722608 CCTTGAAAATAAGC-TTTCTAGAAAAAATATTTTTGGGAAAAAGTTGAAA
129 CCTCGAAAATAAGCTTTTC-A-AAAAAATATTTTTGAAAAAAAGTTGAAA
17722657 GTATCAATTTTCCTTGAAAATAAGCTTTCTAAAAAAATATTTTGAGGAAAAGTTGAAAGTATCAA
1 GTATCAATTTTCCTTGAAAATAAGCTTTCTAAAAAAATATTTTGAGGAAAAGTTGAAAGTATCAA
*
17722722 TTTTTCTTGAAAATAAGCTTTTCAAAAA-AATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTT
66 TTTTTCTTGAAAATAAGC-TTTCAAAAAGAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTC
17722786 CTCGAAAATAAGCTTTTCAAAAAAATATTTTTGAAAAAAAGTTGAAA
130 CTCGAAAATAAGCTTTTCAAAAAAATATTTTTGAAAAAAAGTTGAAA
* * * * *
17722833 GTATCAATTTTTCTCGAAATTAAAG-TTTC-AAAAAAATATTTTTG-GAAAAAATTTGAAAGTAT
1 GTATCAATTTTCCTTGAAAAT-AAGCTTTCTAAAAAAATA-TTTTGAG-GAAAAGTTGAAAGTAT
17722895 CAATTTTTC
63 CAATTTTTC
17722904 CTACACAAAA
Statistics
Matches: 229, Mismatches: 12, Indels: 14
0.90 0.05 0.05
Matches are distributed among these distances:
175 10 0.04
176 147 0.64
177 38 0.17
178 34 0.15
ACGTcount: A:0.44, C:0.08, G:0.12, T:0.36
Consensus pattern (176 bp):
GTATCAATTTTCCTTGAAAATAAGCTTTCTAAAAAAATATTTTGAGGAAAAGTTGAAAGTATCAA
TTTTTCTTGAAAATAAGCTTTCAAAAAGAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCC
TCGAAAATAAGCTTTTCAAAAAAATATTTTTGAAAAAAAGTTGAAA
Found at i:17726185 original size:69 final size:69
Alignment explanation
Indices: 17726104--17726535 Score: 449
Period size: 69 Copynumber: 6.3 Consensus size: 69
17726094 TCATTTTTAC
* * * * *
17726104 GAACCTTGCACCTTTACAAAACTTGAAATCTTGTGAATCTTTCTTTCTTGTGAATCTGAAAGTCT
1 GAACCTTGCACCTTTGCGAAACTTGAAATCTTGCGAATCTTTCTTTCTTGCGAATCTGAAAGTCC
17726169 TTGT
66 TTGT
* * * * *
17726173 GAACCTTGCACCTTTGCAAAACTTGAAATCTTACGAATCTTTCTTTCTTGCAAACCTGAAAATCC
1 GAACCTTGCACCTTTGCGAAACTTGAAATCTTGCGAATCTTTCTTTCTTGCGAATCTGAAAGTCC
*
17726238 ATGCT
66 TTG-T
* * * *
17726243 -AACCTTGCACCTTTGCGAAACTTGAAATCTTGCGAAT-TTTTTTTCTTGTGAATATAAAAGTCC
1 GAACCTTGCACCTTTGCGAAACTTGAAATCTTGCGAATCTTTCTTTCTTGCGAATCTGAAAGTCC
17726306 TTGT
66 TTGT
* ** * *
17726310 GAACCTTGCACTTTTATGAAA-TGTGGAATCTTGCAAATCTTTCTTTCTTGCGAATCTG-AAGTC
1 GAACCTTGCACCTTTGCGAAACT-TGAAATCTTGCGAATCTTTCTTTCTTGCGAATCTGAAAGTC
* *
17726373 TTTAT
65 CTTGT
* * * ** * *
17726378 AAACCTTGCACCTTTGTGAAACTTGGAATCTTATGAATCTTTCTTTTTTACGAATCTGAAAGTCC
1 GAACCTTGCACCTTTGCGAAACTTGAAATCTTGCGAATCTTTCTTTCTTGCGAATCTGAAAGTCC
17726443 TTGT
66 TTGT
* ** * * * * * *
17726447 TAGTCTTACACCTTTGCGAAACTTGAAATCTTGTGAATCTTTCTTTCTTGCAAATTTTAAAGTCT
1 GAACCTTGCACCTTTGCGAAACTTGAAATCTTGCGAATCTTTCTTTCTTGCGAATCTGAAAGTCC
*
17726512 TTGC
66 TTGT
* *
17726516 AAACCTTGCATCTTTGCGAA
1 GAACCTTGCACCTTTGCGAA
17726536 TCAGAACCTT
Statistics
Matches: 298, Mismatches: 59, Indels: 12
0.81 0.16 0.03
Matches are distributed among these distances:
67 2 0.01
68 107 0.36
69 188 0.63
70 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.39
Consensus pattern (69 bp):
GAACCTTGCACCTTTGCGAAACTTGAAATCTTGCGAATCTTTCTTTCTTGCGAATCTGAAAGTCC
TTGT
Found at i:17726320 original size:137 final size:137
Alignment explanation
Indices: 17726105--17726500 Score: 458
Period size: 137 Copynumber: 2.9 Consensus size: 137
17726095 CATTTTTACG
* * * *
17726105 AACCTTGCACCTTTACAAAACTTGAAATCTTGTGAATCTTTCTTTCTTGTGAATCTGAAAGTCTT
1 AACCTTGCACCTTTGCGAAACTTGAAATCTTGTGAATCTTTTTTTCTTGTGAATCTGAAAGTCCT
* *
17726170 TGTGAACCTTGCACCTTTGCAAAACTTGAAATCTTACGAATCTTTCTTTCTTGCAAACCTGAAAA
66 TGTGAACCTTGCACCTTTGCGAAACTTGAAATCTTGCGAATCTTTCTTTCTTGCAAACCTG-AAA
*
17726235 TCCATGCT-
130 T-CATGATA
* * *
17726243 AACCTTGCACCTTTGCGAAACTTGAAATCTTGCGAAT-TTTTTTTCTTGTGAATATAAAAGTCCT
1 AACCTTGCACCTTTGCGAAACTTGAAATCTTGTGAATCTTTTTTTCTTGTGAATCTGAAAGTCCT
* ** * * * * *
17726307 TGTGAACCTTGCACTTTTATGAAA-TGTGGAATCTTGCAAATCTTTCTTTCTTGCGAATCTGAAG
66 TGTGAACCTTGCACCTTTGCGAAACT-TGAAATCTTGCGAATCTTTCTTTCTTGCAAACCTGAAA
* *
17726371 TCTTTATA
130 TCATGATA
* * * **
17726379 AACCTTGCACCTTTGTGAAACTTGGAATCTTATGAATCTTTCTTTT-TTACGAATCTGAAAGTCC
1 AACCTTGCACCTTTGCGAAACTTGAAATCTTGTGAATCTTT-TTTTCTTGTGAATCTGAAAGTCC
* ** * *
17726443 TTGTTAGTCTTACACCTTTGCGAAACTTGAAATCTTGTGAATCTTTCTTTCTTGCAAA
65 TTGTGAACCTTGCACCTTTGCGAAACTTGAAATCTTGCGAATCTTTCTTTCTTGCAAA
17726501 TTTTAAAGTC
Statistics
Matches: 214, Mismatches: 39, Indels: 11
0.81 0.15 0.04
Matches are distributed among these distances:
135 3 0.01
136 37 0.17
137 135 0.63
138 39 0.18
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.39
Consensus pattern (137 bp):
AACCTTGCACCTTTGCGAAACTTGAAATCTTGTGAATCTTTTTTTCTTGTGAATCTGAAAGTCCT
TGTGAACCTTGCACCTTTGCGAAACTTGAAATCTTGCGAATCTTTCTTTCTTGCAAACCTGAAAT
CATGATA
Found at i:17726549 original size:137 final size:135
Alignment explanation
Indices: 17726137--17726551 Score: 370
Period size: 137 Copynumber: 3.0 Consensus size: 135
17726127 TGAAATCTTG
* * *
17726137 TGAATCTTTCTTTCTTGTGAATCTGAAAGTCTTTGTGAACCTTGCACCTTTGCAAAACTTGAAAT
1 TGAATCTTTCTTTTTTGTGAATCTGAAAGTCCTTGTGAACCTTGCACCTTTGCGAAACTTGAAAT
* * * * ** * * *
17726202 CTTACGAATCTTTCTTTCTTGCAAACCTGAAAATCCATGCTAACCTTGCACCTTTGCGAAACTTG
66 CTTGCGAATCTTTCTTTCTTGCAAA-TTTAAAGTCTTTGCAAACCTTGCACCTTTGCGAATC-AG
* *
17726267 AAATCTTG
129 AACT-TTA
* * * * ** *
17726275 CGAAT-TTT-TTTTCTTGTGAATATAAAAGTCCTTGTGAACCTTGCACTTTTATGAAA-TGTGGA
1 TGAATCTTTCTTTT-TTGTGAATCTGAAAGTCCTTGTGAACCTTGCACCTTTGCGAAACT-TGAA
* * * * ** * *
17726337 ATCTTGCAAATCTTTCTTTCTTGCGAATCTGAAGTCTTTATAAACCTTGCACCTTTGTGAAACTT
64 ATCTTGCGAATCTTTCTTTCTTGCAAATTTAAAGTCTTTGCAAACCTTGCACCTTTGCG-AA-TC
*
17726402 GGAA-TCTTA
127 AGAACT-TTA
** * ** *
17726411 TGAATCTTTCTTTTTTACGAATCTGAAAGTCCTTGTTAGTCTTACACCTTTGCGAAACTTGAAAT
1 TGAATCTTTCTTTTTTGTGAATCTGAAAGTCCTTGTGAACCTTGCACCTTTGCGAAACTTGAAAT
* *
17726476 CTTGTGAATCTTTCTTTCTTGCAAATTTTAAAGTCTTTGCAAACCTTGCATCTTTGCGAATCAGA
66 CTTGCGAATCTTTCTTTCTTGCAAA-TTTAAAGTCTTTGCAAACCTTGCACCTTTGCGAATCAGA
17726541 ACCTTTA
130 A-CTTTA
17726548 TGAA
1 TGAA
17726552 ACTTAAAATC
Statistics
Matches: 215, Mismatches: 52, Indels: 21
0.75 0.18 0.07
Matches are distributed among these distances:
136 37 0.17
137 142 0.66
138 36 0.17
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.40
Consensus pattern (135 bp):
TGAATCTTTCTTTTTTGTGAATCTGAAAGTCCTTGTGAACCTTGCACCTTTGCGAAACTTGAAAT
CTTGCGAATCTTTCTTTCTTGCAAATTTAAAGTCTTTGCAAACCTTGCACCTTTGCGAATCAGAA
CTTTA
Found at i:17728035 original size:20 final size:17
Alignment explanation
Indices: 17728005--17728044 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 17
17727995 TTCCACTCTG
17728005 TTTTCTATTTTGATTCTAT
1 TTTTCTATTTTG-TT-TAT
17728024 TTTTCTTATTTTGTTTAT
1 TTTTC-TATTTTGTTTAT
17728042 TTT
1 TTT
17728045 ATTTACTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 6 0.30
19 7 0.35
20 7 0.35
ACGTcount: A:0.12, C:0.07, G:0.05, T:0.75
Consensus pattern (17 bp):
TTTTCTATTTTGTTTAT
Found at i:17729169 original size:10 final size:9
Alignment explanation
Indices: 17729135--17729181 Score: 51
Period size: 10 Copynumber: 5.1 Consensus size: 9
17729125 TGGTATTCAC
*
17729135 TTTTAATTA
1 TTTTTATTA
*
17729144 TTTTTGTTTA
1 TTTTT-ATTA
17729154 TTTTTATTA
1 TTTTTATTA
17729163 TTATTTATTA
1 TT-TTTATTA
17729173 -TTTTATTA
1 TTTTTATTA
17729181 T
1 T
17729182 ATAGATAATC
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
8 7 0.22
9 10 0.31
10 15 0.47
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (9 bp):
TTTTTATTA
Found at i:17731728 original size:17 final size:17
Alignment explanation
Indices: 17731706--17731745 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
17731696 GATCCCACAT
17731706 TAAAAAAAGTTAAAATA
1 TAAAAAAAGTTAAAATA
* *
17731723 TAAAAAAATTTAAAATT
1 TAAAAAAAGTTAAAATA
17731740 TAAAAA
1 TAAAAA
17731746 GAAAGAAAAG
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:0.70, C:0.00, G:0.03, T:0.28
Consensus pattern (17 bp):
TAAAAAAAGTTAAAATA
Found at i:17732195 original size:10 final size:10
Alignment explanation
Indices: 17732180--17732212 Score: 50
Period size: 9 Copynumber: 3.3 Consensus size: 10
17732170 CTTAAATATT
17732180 AAAAATTTAA
1 AAAAATTTAA
17732190 AAAAA-TTAA
1 AAAAATTTAA
17732199 AAAAAGTTTAA
1 AAAAA-TTTAA
17732210 AAA
1 AAA
17732213 GAAAAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 9 0.43
10 5 0.24
11 7 0.33
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (10 bp):
AAAAATTTAA
Found at i:17732220 original size:20 final size:20
Alignment explanation
Indices: 17732180--17732224 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
17732170 CTTAAATATT
*
17732180 AAAAA-TTTAAAAAAATTAA
1 AAAAAGTTTAAAAAAATAAA
17732199 AAAAAGTTTAAAAAGAA-AAA
1 AAAAAGTTTAAAAA-AATAAA
17732219 AAAAAG
1 AAAAAG
17732225 AAGGAAAGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 5 0.22
20 16 0.70
21 2 0.09
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.18
Consensus pattern (20 bp):
AAAAAGTTTAAAAAAATAAA
Found at i:17732808 original size:16 final size:17
Alignment explanation
Indices: 17732784--17732826 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
17732774 TATTGGTAAT
*
17732784 TTATAAAATAAA-ATAA
1 TTATTAAATAAATATAA
* *
17732800 TTATTAAATAAATTTAC
1 TTATTAAATAAATATAA
17732817 TTATTAAATA
1 TTATTAAATA
17732827 TCCAAGTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 11 0.48
17 12 0.52
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (17 bp):
TTATTAAATAAATATAA
Found at i:17736422 original size:11 final size:11
Alignment explanation
Indices: 17736408--17736433 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
17736398 TAAAATTTTA
17736408 TTATAAAATAT
1 TTATAAAATAT
17736419 TTATAAAATAT
1 TTATAAAATAT
17736430 TTAT
1 TTAT
17736434 TTTTAAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
TTATAAAATAT
Found at i:17736820 original size:10 final size:12
Alignment explanation
Indices: 17736790--17736815 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
17736780 AGTAAAATGA
17736790 AAGAAAATATAT
1 AAGAAAATATAT
17736802 AAGAAAATATAT
1 AAGAAAATATAT
17736814 AA
1 AA
17736816 AAATAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.23
Consensus pattern (12 bp):
AAGAAAATATAT
Found at i:17737936 original size:60 final size:60
Alignment explanation
Indices: 17737870--17738010 Score: 167
Period size: 60 Copynumber: 2.4 Consensus size: 60
17737860 CTAATAATTT
* * * ** *
17737870 AAATGATTTAGGCTGAGCCAAAATCA-AAATGAGTTACCAGGATTGAACCGCTGGCCAAAA
1 AAATGATCTAGACTGAGCCAAAATCAGAAA-GAGTGACCAAAATTGAACCACTGGCCAAAA
* * * *
17737930 AAATGATCTAGACTAAGTCAAAATCAGAAAGAGTGACCAAAATTGAACCATTGGTCAAAA
1 AAATGATCTAGACTGAGCCAAAATCAGAAAGAGTGACCAAAATTGAACCACTGGCCAAAA
*
17737990 AAATGATCTAAACTGAGCCAA
1 AAATGATCTAGACTGAGCCAA
17738011 GATTAGAATG
Statistics
Matches: 67, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
60 64 0.96
61 3 0.04
ACGTcount: A:0.45, C:0.17, G:0.18, T:0.20
Consensus pattern (60 bp):
AAATGATCTAGACTGAGCCAAAATCAGAAAGAGTGACCAAAATTGAACCACTGGCCAAAA
Found at i:17738035 original size:60 final size:60
Alignment explanation
Indices: 17737885--17738036 Score: 144
Period size: 60 Copynumber: 2.5 Consensus size: 60
17737875 ATTTAGGCTG
* * * *
17737885 AGCCAAAATCA-AAATGAGTTACCAGGATTGAACCGCTGGCCAAAAAAATGATCTAGACTA
1 AGCCAAAATCAGAAA-GAATGACCAGGATTGAACCACTGGCCAAAAAAATGATCTAAACTA
* * ** * * *
17737945 AGTCAAAATCAGAAAGAGTGACCAAAATTGAACCATTGGTCAAAAAAATGATCTAAACTG
1 AGCCAAAATCAGAAAGAATGACCAGGATTGAACCACTGGCCAAAAAAATGATCTAAACTA
* * * **
17738005 AGCCAAGATTAGAATGAATGATTAGGATTGAA
1 AGCCAAAATCAGAAAGAATGACCAGGATTGAA
17738037 TTTCAGGTTT
Statistics
Matches: 73, Mismatches: 18, Indels: 2
0.78 0.19 0.02
Matches are distributed among these distances:
60 70 0.96
61 3 0.04
ACGTcount: A:0.45, C:0.15, G:0.19, T:0.20
Consensus pattern (60 bp):
AGCCAAAATCAGAAAGAATGACCAGGATTGAACCACTGGCCAAAAAAATGATCTAAACTA
Found at i:17747988 original size:13 final size:13
Alignment explanation
Indices: 17747966--17748021 Score: 60
Period size: 14 Copynumber: 4.2 Consensus size: 13
17747956 TATGGAAATG
17747966 AATAAAAATAAAGA
1 AATAAAAA-AAAGA
* *
17747980 AATAAAATACAAGG
1 AATAAAA-AAAAGA
17747994 AATAAAAAAAAGA
1 AATAAAAAAAAGA
17748007 AA-AAAGAAAAAGA
1 AATAAA-AAAAAGA
17748020 AA
1 AA
17748022 AGTCTTGAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
12 3 0.08
13 15 0.42
14 17 0.47
15 1 0.03
ACGTcount: A:0.79, C:0.02, G:0.11, T:0.09
Consensus pattern (13 bp):
AATAAAAAAAAGA
Found at i:17748998 original size:27 final size:26
Alignment explanation
Indices: 17748968--17749047 Score: 81
Period size: 27 Copynumber: 2.9 Consensus size: 26
17748958 GTAAAATTAA
*
17748968 AAAATCTAAAAAAATAAAATGAAATAG
1 AAAATATAAAAAAATAAAATGAAAT-G
**
17748995 AAAATATATCAAAATAAAAT-AAATG
1 AAAATATAAAAAAATAAAATGAAATG
17749020 AAAATATTAATTGAAAAATAAAATGAAA
1 AAAATA-TAA---AAAAATAAAATGAAA
17749048 AAAGAAAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
25 7 0.16
26 6 0.14
27 17 0.40
29 10 0.23
30 3 0.07
ACGTcount: A:0.69, C:0.03, G:0.06, T:0.23
Consensus pattern (26 bp):
AAAATATAAAAAAATAAAATGAAATG
Found at i:17749015 original size:15 final size:15
Alignment explanation
Indices: 17748950--17749025 Score: 50
Period size: 15 Copynumber: 5.1 Consensus size: 15
17748940 CCATTTAATT
*
17748950 TAAAATAAGT-AAAA
1 TAAAATAAATCAAAA
* *
17748964 TTAAA-AAATCTAAA
1 TAAAATAAATCAAAA
*
17748978 -AAAATAAAATGAAATA
1 TAAAAT-AAATCAAA-A
* *
17748994 GAAAATATATCAAAA
1 TAAAATAAATCAAAA
*
17749009 TAAAATAAATGAAAA
1 TAAAATAAATCAAAA
17749024 TA
1 TA
17749026 TTAATTGAAA
Statistics
Matches: 46, Mismatches: 11, Indels: 9
0.70 0.17 0.14
Matches are distributed among these distances:
13 6 0.13
14 7 0.15
15 21 0.46
16 7 0.15
17 5 0.11
ACGTcount: A:0.70, C:0.03, G:0.05, T:0.22
Consensus pattern (15 bp):
TAAAATAAATCAAAA
Found at i:17749856 original size:21 final size:20
Alignment explanation
Indices: 17749805--17749866 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 20
17749795 AGAAAGAAAG
17749805 GAAAGAAAATAAAAATAAAAA
1 GAAA-AAAATAAAAATAAAAA
* * * *
17749826 CAAAATAATAATAATACAAGA
1 GAAAAAAATAAAAATA-AAAA
17749847 GAAAAAAATAAAAATAAAAA
1 GAAAAAAATAAAAATAAAAA
17749867 TTTGATTACA
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
20 13 0.41
21 19 0.59
ACGTcount: A:0.77, C:0.03, G:0.06, T:0.13
Consensus pattern (20 bp):
GAAAAAAATAAAAATAAAAA
Found at i:17750831 original size:17 final size:17
Alignment explanation
Indices: 17750811--17750844 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
17750801 AGGATCAAAG
17750811 GTGGTGGCCAATCATTA
1 GTGGTGGCCAATCATTA
**
17750828 GTGGTGGTTAATCATTA
1 GTGGTGGCCAATCATTA
17750845 TATATTGCAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.12, G:0.29, T:0.35
Consensus pattern (17 bp):
GTGGTGGCCAATCATTA
Found at i:17751036 original size:25 final size:25
Alignment explanation
Indices: 17751008--17751078 Score: 115
Period size: 25 Copynumber: 2.8 Consensus size: 25
17750998 TTATAATCCT
*
17751008 TTATTCTCTTTATTCTATTCTCTGC
1 TTATTCTCTCTATTCTATTCTCTGC
* *
17751033 TTATTCTCCCTATTTTATTCTCTGC
1 TTATTCTCTCTATTCTATTCTCTGC
17751058 TTATTCTCTCTATTCTATTCT
1 TTATTCTCTCTATTCTATTCT
17751079 TTGTTTTTCT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.13, C:0.25, G:0.03, T:0.59
Consensus pattern (25 bp):
TTATTCTCTCTATTCTATTCTCTGC
Found at i:17752007 original size:148 final size:148
Alignment explanation
Indices: 17751746--17752042 Score: 490
Period size: 148 Copynumber: 2.0 Consensus size: 148
17751736 ACAAAAGCAA
17751746 TATATTAGTAGAAATAACAAACTCATATAATTATAAGTTTTATGAATTTATAAATAAAAATAAAA
1 TATATTAGTAGAAATAACAAACTCATATAATTATAAGTTTTATGAATTTATAAATAAAAATAAAA
* * *
17751811 ATAAAATCATTAAATAGATCATTTAAAACAAAAAAACAAATATGTGTATTAATAAATCAATTGTT
66 ATAAAATAATTAAATAAATAATTTAAAACAAAAAAACAAATATGTGTATTAATAAATCAATTGTT
17751876 AAAGTTAAGCCATATATT
131 AAAGTTAAGCCATATATT
17751894 TATATTAGTAGAAATAACAAACTCATATAATTATAAGTTTTATGAATTTATAAATAAAAATAAAA
1 TATATTAGTAGAAATAACAAACTCATATAATTATAAGTTTTATGAATTTATAAATAAAAATAAAA
* **
17751959 ATAAATTAAATTAAATAAATAATTTAAAACTAAAAGTA-AAA-ATGTGTATTAATAAATCAATTG
66 ATAAAAT-AATTAAATAAATAATTTAAAAC-AAAAAAACAAATATGTGTATTAATAAATCAATTG
**
17752022 TTAAAGTTAATTCATATATT
129 TTAAAGTTAAGCCATATATT
17752042 T
1 T
17752043 TTAATCAAAA
Statistics
Matches: 139, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
148 112 0.81
149 22 0.16
150 5 0.04
ACGTcount: A:0.53, C:0.05, G:0.06, T:0.35
Consensus pattern (148 bp):
TATATTAGTAGAAATAACAAACTCATATAATTATAAGTTTTATGAATTTATAAATAAAAATAAAA
ATAAAATAATTAAATAAATAATTTAAAACAAAAAAACAAATATGTGTATTAATAAATCAATTGTT
AAAGTTAAGCCATATATT
Found at i:17753454 original size:9 final size:9
Alignment explanation
Indices: 17753434--17753464 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
17753424 TAAAAAAACT
17753434 AAATAAAT-
1 AAATAAATA
17753442 AAATAAATA
1 AAATAAATA
17753451 AAATAAATA
1 AAATAAATA
17753460 AAATA
1 AAATA
17753465 CCAAAAATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (9 bp):
AAATAAATA
Found at i:17753454 original size:13 final size:13
Alignment explanation
Indices: 17753424--17753461 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
17753414 CAGAATACTT
17753424 TAAAA-AAACTAAA
1 TAAAATAAA-TAAA
17753437 T-AAATAAATAAA
1 TAAAATAAATAAA
17753449 TAAAATAAATAAA
1 TAAAATAAATAAA
17753462 ATACCAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 8 0.35
13 15 0.65
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (13 bp):
TAAAATAAATAAA
Found at i:17755092 original size:31 final size:31
Alignment explanation
Indices: 17755052--17755129 Score: 102
Period size: 31 Copynumber: 2.5 Consensus size: 31
17755042 ACAAGTATTT
17755052 TCAAAATTTCAATTTCACAAAAATTTGATTC
1 TCAAAATTTCAATTTCACAAAAATTTGATTC
* * * * *
17755083 TTAAGATTTCAGTTTCATAAGAATTTGATTC
1 TCAAAATTTCAATTTCACAAAAATTTGATTC
*
17755114 TCAAAATTTCATTTTC
1 TCAAAATTTCAATTTC
17755130 GCATTGATTT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.36, C:0.14, G:0.06, T:0.44
Consensus pattern (31 bp):
TCAAAATTTCAATTTCACAAAAATTTGATTC
Found at i:17755203 original size:31 final size:31
Alignment explanation
Indices: 17755152--17755214 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
17755142 GGTTCACAAG
** *
17755152 AATTTGATTCTCAAGCTTTCAGTTTTGCAAA
1 AATTTGATTCTCAAAATTTCAATTTTGCAAA
* *
17755183 AATTTGATTCTTAAAATTTCAATTTTGTAAA
1 AATTTGATTCTCAAAATTTCAATTTTGCAAA
17755214 A
1 A
17755215 TTCAAATTCA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.35, C:0.11, G:0.10, T:0.44
Consensus pattern (31 bp):
AATTTGATTCTCAAAATTTCAATTTTGCAAA
Found at i:17755365 original size:42 final size:42
Alignment explanation
Indices: 17755316--17755434 Score: 175
Period size: 42 Copynumber: 2.8 Consensus size: 42
17755306 TTTCACATTT
* * * *
17755316 GAGATTCACATCCAAAATTTTAATTCATGGATTCATATTTGA
1 GAGATTCACATCCAAAATTATAATTTAAGGATTCATATATGA
17755358 GAGATTCACATCCAAAATTATAATTTAAGGATTCATATATGA
1 GAGATTCACATCCAAAATTATAATTTAAGGATTCATATATGA
* * *
17755400 AAGATTCACATCCAAAATTGTAATTTAGGGATTCA
1 GAGATTCACATCCAAAATTATAATTTAAGGATTCA
17755435 CATCACAATT
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.34
Consensus pattern (42 bp):
GAGATTCACATCCAAAATTATAATTTAAGGATTCATATATGA
Found at i:17755519 original size:22 final size:22
Alignment explanation
Indices: 17755463--17755519 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
17755453 TACATCCAAT
*
17755463 ATTTAAATATTCACATTCTAAA
1 ATTTAAACATTCACATTCTAAA
* *
17755485 ATTCTAGAGATTCACA-TCTAAA
1 ATT-TAAACATTCACATTCTAAA
17755507 AGTTTAAACATTC
1 A-TTTAAACATTC
17755520 TTTTTCAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
22 17 0.59
23 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.05, T:0.37
Consensus pattern (22 bp):
ATTTAAACATTCACATTCTAAA
Found at i:17755538 original size:45 final size:45
Alignment explanation
Indices: 17755489--17755592 Score: 120
Period size: 45 Copynumber: 2.3 Consensus size: 45
17755479 TCTAAAATTC
* *
17755489 TAGAGATTCACATCTAAAAGTTTAAACA-TTCTTTTTCAAAAACTT
1 TAGAGATTCACATCTAAAAGTTTAAA-AGTTCTTATTAAAAAACTT
* * * *
17755534 TAGAGATTCACTTCTAAGATTTTAAAAGTTCTTATTAAAAAATTT
1 TAGAGATTCACATCTAAAAGTTTAAAAGTTCTTATTAAAAAACTT
* *
17755579 TAGTGTTTCACATC
1 TAGAGATTCACATC
17755593 CAATATTCTT
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
44 1 0.02
45 48 0.98
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.40
Consensus pattern (45 bp):
TAGAGATTCACATCTAAAAGTTTAAAAGTTCTTATTAAAAAACTT
Found at i:17756829 original size:6 final size:7
Alignment explanation
Indices: 17756778--17756837 Score: 57
Period size: 7 Copynumber: 7.7 Consensus size: 7
17756768 TTTTTTCTTT
17756778 TTTTTCA
1 TTTTTCA
17756785 CTTTTTCA
1 -TTTTTCA
*
17756793 CTTTTCA
1 TTTTTCA
17756800 TTTGTTCA
1 TTT-TTCA
17756808 CTTTTTTTCA
1 ---TTTTTCA
17756818 TTTTTTCA
1 -TTTTTCA
17756826 TTTTTCA
1 TTTTTCA
17756833 TTTTT
1 TTTTT
17756838 TTCTTCATCC
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
7 20 0.43
8 19 0.41
10 4 0.09
11 3 0.07
ACGTcount: A:0.12, C:0.17, G:0.02, T:0.70
Consensus pattern (7 bp):
TTTTTCA
Found at i:17756836 original size:15 final size:15
Alignment explanation
Indices: 17756778--17756838 Score: 68
Period size: 15 Copynumber: 3.9 Consensus size: 15
17756768 TTTTTTCTTT
*
17756778 TTTTTCACTTTTTCA
1 TTTTTCATTTTTTCA
* *
17756793 CTTTTCATTTGTTCA
1 TTTTTCATTTTTTCA
17756808 CTTTTTTTCATTTTTTCA
1 ---TTTTTCATTTTTTCA
17756826 TTTTTCATTTTTT
1 TTTTTCATTTTTT
17756839 TCTTCATCCA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
15 25 0.66
18 13 0.34
ACGTcount: A:0.11, C:0.16, G:0.02, T:0.70
Consensus pattern (15 bp):
TTTTTCATTTTTTCA
Found at i:17756838 original size:8 final size:8
Alignment explanation
Indices: 17756754--17756838 Score: 75
Period size: 8 Copynumber: 10.2 Consensus size: 8
17756744 AATTTGAGTC
17756754 TTCATTTT
1 TTCATTTT
17756762 CTCTCATTTT
1 -T-TCATTTT
*
17756772 TTCTTTTTT
1 TTC-ATTTT
*
17756781 TTCACTTT
1 TTCATTTT
*
17756789 TTCA-CTT
1 TTCATTTT
*
17756796 TTCATTTG
1 TTCATTTT
17756804 TTCACTTTTT
1 TTCA--TTTT
17756814 TTCATTTT
1 TTCATTTT
17756822 TTCA-TTT
1 TTCATTTT
17756829 TTCATTTT
1 TTCATTTT
17756837 TT
1 TT
17756839 TCTTCATCCA
Statistics
Matches: 63, Mismatches: 7, Indels: 13
0.76 0.08 0.16
Matches are distributed among these distances:
7 13 0.21
8 27 0.43
9 9 0.14
10 14 0.22
ACGTcount: A:0.11, C:0.18, G:0.01, T:0.71
Consensus pattern (8 bp):
TTCATTTT
Found at i:17761263 original size:20 final size:21
Alignment explanation
Indices: 17761239--17761287 Score: 91
Period size: 20 Copynumber: 2.4 Consensus size: 21
17761229 TTAAAAAAAC
17761239 TAAATAAATAAATAAAAACCA
1 TAAATAAATAAATAAAAACCA
17761260 -AAATAAATAAATAAAAACCA
1 TAAATAAATAAATAAAAACCA
17761280 TAAATAAA
1 TAAATAAA
17761288 ATACCAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 20 0.74
21 7 0.26
ACGTcount: A:0.73, C:0.08, G:0.00, T:0.18
Consensus pattern (21 bp):
TAAATAAATAAATAAAAACCA
Found at i:17761296 original size:20 final size:18
Alignment explanation
Indices: 17761244--17761297 Score: 55
Period size: 16 Copynumber: 3.2 Consensus size: 18
17761234 AAAACTAAAT
17761244 AAATAAATAAAA-ACC-A
1 AAATAAATAAAATACCAA
17761260 AAATAAAT-AAATA--AA
1 AAATAAATAAAATACCAA
17761275 AACCATAAATAAAATACCAA
1 AA--ATAAATAAAATACCAA
17761295 AAA
1 AAA
17761298 CAAAAGAACA
Statistics
Matches: 31, Mismatches: 0, Indels: 12
0.72 0.00 0.28
Matches are distributed among these distances:
15 6 0.19
16 9 0.29
17 6 0.19
18 6 0.19
20 4 0.13
ACGTcount: A:0.74, C:0.11, G:0.00, T:0.15
Consensus pattern (18 bp):
AAATAAATAAAATACCAA
Found at i:17763983 original size:18 final size:18
Alignment explanation
Indices: 17763957--17763991 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
17763947 AAAGAATATA
* *
17763957 AATACAATAAGATAAAAT
1 AATAAAATAAAATAAAAT
17763975 AATAAAATAAAATAAAA
1 AATAAAATAAAATAAAA
17763992 AGAAATGGCA
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:0.74, C:0.03, G:0.03, T:0.20
Consensus pattern (18 bp):
AATAAAATAAAATAAAAT
Found at i:17764312 original size:2 final size:2
Alignment explanation
Indices: 17764305--17764331 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
17764295 CATATTTAAC
17764305 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 T
17764332 GAAAGCTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:17768263 original size:32 final size:32
Alignment explanation
Indices: 17768222--17768283 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
17768212 TCTCTTTATT
***
17768222 TAATTGTTTATTCATTTGTTTTGTTTTATGCA
1 TAATTGTTTATTCATTCACTTTGTTTTATGCA
*
17768254 TAATTGTTTATTTATTCACTTTGTTTTATG
1 TAATTGTTTATTCATTCACTTTGTTTTATG
17768284 GTTTTCATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.19, C:0.06, G:0.11, T:0.63
Consensus pattern (32 bp):
TAATTGTTTATTCATTCACTTTGTTTTATGCA
Found at i:17768516 original size:9 final size:8
Alignment explanation
Indices: 17768496--17768537 Score: 52
Period size: 8 Copynumber: 5.5 Consensus size: 8
17768486 TTTTCAAACC
17768496 AAAAAATT
1 AAAAAATT
17768504 AAAAAATT
1 AAAAAATT
*
17768512 -AAAAATA
1 AAAAAATT
*
17768519 AAAAAAAT
1 AAAAAATT
17768527 AAAAAA-T
1 AAAAAATT
17768534 AAAA
1 AAAA
17768538 TTTTTGGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
7 11 0.37
8 19 0.63
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (8 bp):
AAAAAATT
Found at i:17768523 original size:16 final size:16
Alignment explanation
Indices: 17768504--17768537 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
17768494 CCAAAAAATT
*
17768504 AAAAAATTAAAAATAA
1 AAAAAATAAAAAATAA
17768520 AAAAAATAAAAAATAA
1 AAAAAATAAAAAATAA
17768536 AA
1 AA
17768538 TTTTTGGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (16 bp):
AAAAAATAAAAAATAA
Found at i:17768670 original size:206 final size:207
Alignment explanation
Indices: 17768312--17768683 Score: 475
Period size: 207 Copynumber: 1.8 Consensus size: 207
17768302 TAAATTTAAT
* ** * * *
17768312 AAAATAATAAAAAATAAAAATTTTAGGAATAAATATTAATCATCCAATGATGGAATTTATAAAAA
1 AAAAAAATAAAAAATAAAAATTTTAGGAATAAATACAAATCACCCAAGGATGGAATTCATAAAAA
** * ** * *
17768377 TATCAAATGGCAAATTTTTATGAAATTCCTAGGTGAGAAATTTTGTTTAAATTTATCCCAAATGG
66 TATCAAATGGCAAATTCCTAAGAAATTCCTAGGTGAGAAATTTCCTCTAAATTTAGCCCAAATGG
17768442 TGGAATAATTTAGATAAAATTTCAATAACAA-TAATTAATATTTATTTTCAAACCAAAAAATTAA
131 TGGAATAATTTAGATAAAATTTCAAT-ACAAGTAATTAATATTTATTTTCAAACCAAAAAATTAA
17768506 AAAATTAAAAATA
195 AAAATTAAAAATA
* * * *
17768519 AAAAAAATAAAAAAT-AAAATTTTTGGAATTAAATACAAATTACCCAAGGAT-GAGATTCCTAGA
1 AAAAAAATAAAAAATAAAAATTTTAGGAA-TAAATACAAATCACCCAAGGATGGA-ATTCATAAA
* * *
17768582 AATTTCAAATGGTAAATTCCTAAGAAA-TCTCTAGGTGAGAAATTTCCTCTAAATTT-GGCCAAA
64 AATATCAAATGGCAAATTCCTAAGAAATTC-CTAGGTGAGAAATTTCCTCTAAATTTAGCCCAAA
* *
17768645 TGGTGGAATGATTTAGATGAAATTTCAATACAAGTAATT
128 TGGTGGAATAATTTAGATAAAATTTCAATACAAGTAATT
17768684 GTATTCTTTT
Statistics
Matches: 139, Mismatches: 22, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
205 4 0.03
206 53 0.38
207 82 0.59
ACGTcount: A:0.48, C:0.09, G:0.11, T:0.32
Consensus pattern (207 bp):
AAAAAAATAAAAAATAAAAATTTTAGGAATAAATACAAATCACCCAAGGATGGAATTCATAAAAA
TATCAAATGGCAAATTCCTAAGAAATTCCTAGGTGAGAAATTTCCTCTAAATTTAGCCCAAATGG
TGGAATAATTTAGATAAAATTTCAATACAAGTAATTAATATTTATTTTCAAACCAAAAAATTAAA
AAATTAAAAATA
Found at i:17775004 original size:22 final size:23
Alignment explanation
Indices: 17774954--17775017 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 23
17774944 TGAAAGATGA
*
17774954 GAAAAAAAAAAGAAAAGAAAATGGT
1 GAAAATAAAAA-AAAA-AAAATGGT
*
17774979 GAAAGGTAAAAAAAAAAAAA-GG-
1 GAAA-ATAAAAAAAAAAAAATGGT
*
17775001 GAAAATGAAAAAAAAAA
1 GAAAATAAAAAAAAAAA
17775018 GACAAAAAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 11 0.32
22 4 0.12
23 2 0.06
24 4 0.12
25 8 0.24
26 5 0.15
ACGTcount: A:0.75, C:0.00, G:0.19, T:0.06
Consensus pattern (23 bp):
GAAAATAAAAAAAAAAAAATGGT
Found at i:17776481 original size:43 final size:42
Alignment explanation
Indices: 17776430--17776511 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 42
17776420 GCCTTTGAAC
* *
17776430 TCAAATGAAAAGCTTT-GAATTTTTTGATGTGAATCTCCAAAAT
1 TCAAATGAAAAGCTTTAG-ATTTTTGGATATGAAT-TCCAAAAT
17776473 TCAAATGAAAAGCTTTAGATTTTTGGATATGAATTCCAA
1 TCAAATGAAAAGCTTTAGATTTTTGGATATGAATTCCAA
17776512 GTTTGCCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
42 5 0.14
43 30 0.83
44 1 0.03
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.37
Consensus pattern (42 bp):
TCAAATGAAAAGCTTTAGATTTTTGGATATGAATTCCAAAAT
Found at i:17776861 original size:42 final size:42
Alignment explanation
Indices: 17776812--17777263 Score: 545
Period size: 42 Copynumber: 11.0 Consensus size: 42
17776802 GATTGTTAAT
* *
17776812 GAGCAATTTACTTTCCAAAAGTTGA-GGTGCCTTTGTTTAGAG
1 GAGCAATTTACTTTCCAAAAGTT-ACGGTGCCTCTATTTAGAG
* *
17776854 GAGCAATTTACTTT-C-AAAGTTATGGTGCCTCTGTTTAGAG
1 GAGCAATTTACTTTCCAAAAGTTACGGTGCCTCTATTTAGAG
*
17776894 GAGCAATTTACTTTCCAAAAGTTGA-GGTGCCTCTGTTTAGAG
1 GAGCAATTTACTTTCCAAAAGTT-ACGGTGCCTCTATTTAGAG
** *
17776936 GAGCAATTTACTTTCCAAAAGTTGTGGTGCCTCTATTTAGAA
1 GAGCAATTTACTTTCCAAAAGTTACGGTGCCTCTATTTAGAG
*
17776978 GAGCAATTTACTTTTCAAAAGTTACGGTGCCTCTATTTAGAG
1 GAGCAATTTACTTTCCAAAAGTTACGGTGCCTCTATTTAGAG
17777020 GAGCAATTTACTTTCCAAAAGTTGA-GGTGCCTCTATTTAGAG
1 GAGCAATTTACTTTCCAAAAGTT-ACGGTGCCTCTATTTAGAG
*
17777062 GAGCAATTTA-TTT-C-AAAGTTATGGTGCCTCTATTTAGAG
1 GAGCAATTTACTTTCCAAAAGTTACGGTGCCTCTATTTAGAG
* *
17777101 GAGCAATTTACTTTTCAAAAGTTACGGTGCCTCTA-TTGGAAG
1 GAGCAATTTACTTTCCAAAAGTTACGGTGCCTCTATTTAG-AG
* * *
17777143 GAGCAATTTACTTT-CAAAA-TTACGGTGTCTCTGTTTGGAG
1 GAGCAATTTACTTTCCAAAAGTTACGGTGCCTCTATTTAGAG
** * * *
17777183 GAGCAATTTACTTT-C-AAAGTTGTGATGCCTTTATTTAGAA
1 GAGCAATTTACTTTCCAAAAGTTACGGTGCCTCTATTTAGAG
* * ** *
17777223 GAGCAATTTGCTTTCC-AAAGTCATTGAGCCTCTATTTAGAG
1 GAGCAATTTACTTTCCAAAAGTTACGGTGCCTCTATTTAGAG
17777264 AAGCTTTGTT
Statistics
Matches: 367, Mismatches: 29, Indels: 29
0.86 0.07 0.07
Matches are distributed among these distances:
38 1 0.00
39 37 0.10
40 95 0.26
41 37 0.10
42 195 0.53
43 2 0.01
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.36
Consensus pattern (42 bp):
GAGCAATTTACTTTCCAAAAGTTACGGTGCCTCTATTTAGAG
Found at i:17778238 original size:16 final size:16
Alignment explanation
Indices: 17778211--17778254 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
17778201 TTCAAACCAA
17778211 AAAAAT-TAAAAA-ATT
1 AAAAATATAAAAACA-T
17778226 AAAAATAATAAAAACAT
1 AAAAAT-ATAAAAACAT
17778243 AAAAATATAAAA
1 AAAAATATAAAA
17778255 CTTTTGGAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
15 6 0.23
16 6 0.23
17 13 0.50
18 1 0.04
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.20
Consensus pattern (16 bp):
AAAAATATAAAAACAT
Found at i:17781825 original size:20 final size:21
Alignment explanation
Indices: 17781786--17781825 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
17781776 ATCCATCACT
17781786 TAGACTCTACATAAAATTTTGA
1 TAGACTCTA-ATAAAATTTTGA
*
17781808 TAGACTCT-ATATAATTTT
1 TAGACTCTAATAAAATTTT
17781826 AAATTATGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
22 8 0.47
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.42
Consensus pattern (21 bp):
TAGACTCTAATAAAATTTTGA
Found at i:17787019 original size:129 final size:128
Alignment explanation
Indices: 17786854--17787110 Score: 381
Period size: 129 Copynumber: 2.0 Consensus size: 128
17786844 TTTTTTTTTA
* * *
17786854 ATTTCAACATGATAAAAGTTCAAAAGTCATCATTTTTAATCTCAAGAAGTATATGGCTGAAAGTT
1 ATTTCAACATGATAAAAGTTCAAAAGTCATCATTTTTAATCTCAAAAAGTACATGGCTGAAAGTC
* * * * * * *
17786919 AAGTATTTTCTTTCAAGTCAATTCCTAAACTAAGATGGTTTATGTTTGAGACCTGTTAAGATTT
66 AAATA-TTTCTTTCAACTCAAGTCCTAAACTAAAATGGTTCATGTTTGAGAACTGCTAAGATTT
17786983 ATTTCAACATGATAAAAGTTCAAAAGAT-ATCATTTTTAATCTCAAAAAGTACATGGCTGAAAGT
1 ATTTCAACATGATAAAAGTTCAAAAG-TCATCATTTTTAATCTCAAAAAGTACATGGCTGAAAGT
* *
17787047 CAAATATTTCTTTCAACTTAAGTCCTAAACTAAAATTGTTCATGTTTGAGAACTGCTAAGATTT
65 CAAATATTTCTTTCAACTCAAGTCCTAAACTAAAATGGTTCATGTTTGAGAACTGCTAAGATTT
17787111 TCTAGACCAT
Statistics
Matches: 115, Mismatches: 12, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
128 50 0.43
129 64 0.56
130 1 0.01
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (128 bp):
ATTTCAACATGATAAAAGTTCAAAAGTCATCATTTTTAATCTCAAAAAGTACATGGCTGAAAGTC
AAATATTTCTTTCAACTCAAGTCCTAAACTAAAATGGTTCATGTTTGAGAACTGCTAAGATTT
Found at i:17789909 original size:26 final size:26
Alignment explanation
Indices: 17789873--17789924 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
17789863 GGATGGAATA
*
17789873 TTTAGAAGAGAGATTTCGTTTCAATT
1 TTTAGAAGAGAGATTTCATTTCAATT
* *
17789899 TTTAGAGGAGAGATTTCATTTTAATT
1 TTTAGAAGAGAGATTTCATTTCAATT
17789925 AAAGTTTTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.31, C:0.06, G:0.19, T:0.44
Consensus pattern (26 bp):
TTTAGAAGAGAGATTTCATTTCAATT
Found at i:17790167 original size:10 final size:10
Alignment explanation
Indices: 17790128--17790166 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
17790118 AATATATATA
17790128 ATATAATTTT
1 ATATAATTTT
*
17790138 ATTTAATTTT
1 ATATAATTTT
*
17790148 ATATTATTTT
1 ATATAATTTT
17790158 ATAT-ATTTT
1 ATATAATTTT
17790167 TGCAAATCTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
9 5 0.19
10 21 0.81
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (10 bp):
ATATAATTTT
Found at i:17801198 original size:33 final size:33
Alignment explanation
Indices: 17801156--17801225 Score: 131
Period size: 33 Copynumber: 2.1 Consensus size: 33
17801146 ATCCAACCAA
17801156 TCTTGAAGGCAGCTTGCTCATTAAATCTCACAG
1 TCTTGAAGGCAGCTTGCTCATTAAATCTCACAG
*
17801189 TCTTGAAGGCAGCTTGCTCATTAAATCTCACAT
1 TCTTGAAGGCAGCTTGCTCATTAAATCTCACAG
17801222 TCTT
1 TCTT
17801226 ACTTACAATC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (33 bp):
TCTTGAAGGCAGCTTGCTCATTAAATCTCACAG
Found at i:17806023 original size:37 final size:36
Alignment explanation
Indices: 17805981--17806059 Score: 88
Period size: 37 Copynumber: 2.1 Consensus size: 36
17805971 TTTGTTATAA
* *
17805981 TTTAATA-ATAGATACTTTCATTATAAAATATAAATAT
1 TTTAATAGATAAATA-TTTCATAAT-AAATATAAATAT
* *
17806018 TTTAATAGTATAAATATTTCATAATAAATATTACTAT
1 TTTAATAG-ATAAATATTTCATAATAAATATAAATAT
17806055 TTTAA
1 TTTAA
17806060 ATATTTTAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
37 22 0.61
38 8 0.22
39 6 0.17
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.46
Consensus pattern (36 bp):
TTTAATAGATAAATATTTCATAATAAATATAAATAT
Found at i:17806103 original size:47 final size:45
Alignment explanation
Indices: 17806038--17806126 Score: 108
Period size: 47 Copynumber: 1.9 Consensus size: 45
17806028 TAAATATTTC
17806038 ATAATAAATATTACTATTTTAAATATTTTAAAATATTAATATAAAGA
1 ATAATAAATATTACTATTTTAAATATTTT--AATATTAATATAAAGA
* ** *
17806085 ATAATAAATAGTT-TTATTTTATGTATTTTTATATTAATATAA
1 ATAATAAATA-TTACTATTTTAAATATTTTAATATTAATATAA
17806127 TATTTTAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
45 12 0.32
47 23 0.62
48 2 0.05
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.48
Consensus pattern (45 bp):
ATAATAAATATTACTATTTTAAATATTTTAATATTAATATAAAGA
Found at i:17806211 original size:26 final size:24
Alignment explanation
Indices: 17806181--17806240 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 24
17806171 ATATTAATAA
17806181 TTTTAATAATAAATAATTTCTATAT-
1 TTTTAATAAT-AATAATTTCTA-ATG
*
17806206 TCTTTAATAATAATAATTTTTAATG
1 T-TTTAATAATAATAATTTCTAATG
17806231 TTTTAATAAT
1 TTTTAATAAT
17806241 TATATTTATA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
24 11 0.34
25 12 0.38
26 9 0.28
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (24 bp):
TTTTAATAATAATAATTTCTAATG
Found at i:17807224 original size:13 final size:13
Alignment explanation
Indices: 17807206--17807254 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
17807196 CAAAAATTAA
17807206 ATATTTTTAAATT
1 ATATTTTTAAATT
**
17807219 ATATTTTT-AACC
1 ATATTTTTAAATT
*
17807231 ATAATTTTAAATAT
1 ATATTTTTAAAT-T
17807245 ATATTTTTAA
1 ATATTTTTAA
17807255 TTTAAACTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
12 9 0.32
13 10 0.36
14 9 0.32
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (13 bp):
ATATTTTTAAATT
Found at i:17807283 original size:28 final size:28
Alignment explanation
Indices: 17807252--17807317 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 28
17807242 TATATATTTT
*
17807252 TAATTTAAACTTTTTTCAATGCTAACAA
1 TAATTTAAACTTTTTTCAATACTAACAA
* **
17807280 TAATTTTAA-TTTTTTTTATACTAACAA
1 TAATTTAAACTTTTTTCAATACTAACAA
17807307 TAATGTTAAAC
1 TAAT-TTAAAC
17807318 GAAATCTTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
27 19 0.61
28 12 0.39
ACGTcount: A:0.39, C:0.11, G:0.03, T:0.47
Consensus pattern (28 bp):
TAATTTAAACTTTTTTCAATACTAACAA
Found at i:17810975 original size:103 final size:103
Alignment explanation
Indices: 17810807--17810993 Score: 275
Period size: 103 Copynumber: 1.8 Consensus size: 103
17810797 AGAAAAAGAC
* * * * * **
17810807 TATCAATATTCTAATTTGGCAAAAATTGTAGAAAGTCAACCTCTACCAAAAATGGCATTTTTTCC
1 TATCAACATTCTAATTTGGCAAAAATTGCAAAAAGCCAACATCTACCAAAAATGGCATTCATTCC
17810872 TTAAAAACGCCATAATAGACTTGTACTAAGAAGAATAT
66 TTAAAAACGCCATAATAGACTTGTACTAAGAAGAATAT
* * *
17810910 TATCAACATTCTATTTTGGCAAAACTTGCAAAAAGCCAACATGTACCAAAAATGGCATTCATTCC
1 TATCAACATTCTAATTTGGCAAAAATTGCAAAAAGCCAACATCTACCAAAAATGGCATTCATTCC
*
17810975 TTAAAAACGCCGTAATAGA
66 TTAAAAACGCCATAATAGA
17810994 AACATTTCAA
Statistics
Matches: 73, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
103 73 1.00
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.29
Consensus pattern (103 bp):
TATCAACATTCTAATTTGGCAAAAATTGCAAAAAGCCAACATCTACCAAAAATGGCATTCATTCC
TTAAAAACGCCATAATAGACTTGTACTAAGAAGAATAT
Found at i:17813357 original size:7 final size:7
Alignment explanation
Indices: 17813347--17813418 Score: 69
Period size: 7 Copynumber: 10.6 Consensus size: 7
17813337 CCTAAATTTG
17813347 AAACCTT
1 AAACCTT
*
17813354 AAACTTT
1 AAACCTT
*
17813361 AAACCCT
1 AAACCTT
*
17813368 AAACCCT
1 AAACCTT
17813375 AAATCC-T
1 AAA-CCTT
*
17813382 AAATCTT
1 AAACCTT
17813389 AAACCTT
1 AAACCTT
*
17813396 AAACCTC
1 AAACCTT
17813403 AAACC--
1 AAACCTT
17813408 AAACCTT
1 AAACCTT
17813415 AAAC
1 AAAC
17813419 TCCAAACCCT
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
5 5 0.09
6 1 0.02
7 47 0.85
8 2 0.04
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.24
Consensus pattern (7 bp):
AAACCTT
Found at i:17813371 original size:21 final size:21
Alignment explanation
Indices: 17813347--17813552 Score: 107
Period size: 21 Copynumber: 10.2 Consensus size: 21
17813337 CCTAAATTTG
*
17813347 AAACCTTAAACTTTAAACCCT
1 AAACCTTAAACTCTAAACCCT
* * *
17813368 AAACCCTAAA-TCCTAAATCTT
1 AAACCTTAAACT-CTAAACCCT
17813389 AAACCTTAAAC-CTCAAA-CC-
1 AAACCTTAAACTCT-AAACCCT
*
17813408 AAACCTTAAACTCCAAACCCT
1 AAACCTTAAACTCTAAACCCT
*
17813429 AAATCC-TAAA--CTAAACCAT
1 AAA-CCTTAAACTCTAAACCCT
* *
17813448 AAA--TCAAACTTTAAA-CC-
1 AAACCTTAAACTCTAAACCCT
* * *
17813465 AAACCCTAAACGCTAAATCCT
1 AAACCTTAAACTCTAAACCCT
* * *
17813486 AAA-CTACAAACCCTAAACCTT
1 AAACCT-TAAACTCTAAACCCT
*
17813507 AAA-CTATAAGC-CTTAAACCCT
1 AAACCT-TAAACTC-TAAACCCT
* *
17813528 AAACCATAAGCTCTAAACCCT
1 AAACCTTAAACTCTAAACCCT
17813549 AAAC
1 AAAC
17813553 TTGACCCCAA
Statistics
Matches: 142, Mismatches: 25, Indels: 36
0.70 0.12 0.18
Matches are distributed among these distances:
17 6 0.04
18 1 0.01
19 36 0.25
20 11 0.08
21 84 0.59
22 4 0.03
ACGTcount: A:0.46, C:0.31, G:0.01, T:0.21
Consensus pattern (21 bp):
AAACCTTAAACTCTAAACCCT
Found at i:17813436 original size:7 final size:6
Alignment explanation
Indices: 17813360--17813552 Score: 65
Period size: 7 Copynumber: 28.8 Consensus size: 6
17813350 CCTTAAACTT
*
17813360 TAAACCC TAAACCC TAAATCC TAAATCT TAAACC TTAAACC TCAAACC
1 TAAA-CC TAAA-CC TAAA-CC TAAA-CC TAAACC -TAAACC T-AAACC
* * *
17813408 -AAACC TTAAACTC CAAACCC TAAATCC TAAA-C TAAACC ATAAATC -AAACTT
1 TAAACC -TAAAC-C TAAA-CC TAAA-CC TAAACC TAAACC -TAAACC TAAAC-C
17813459 TAAACC -AAACCC TAAACGC TAAATCC TAAA-C TACAAACCC TAAACC
1 TAAACC TAAA-CC TAAAC-C TAAA-CC TAAACC T--AAA-CC TAAACC
*
17813505 TTAAA-C TATAAGCC TTAAACCC TAAACC ATAAGCTC TAAACCC TAAAC
1 -TAAACC TA-AA-CC -TAAA-CC TAAACC -TAAAC-C TAAA-CC TAAAC
17813553 TTGACCCCAA
Statistics
Matches: 147, Mismatches: 13, Indels: 53
0.69 0.06 0.25
Matches are distributed among these distances:
5 20 0.14
6 14 0.10
7 99 0.67
8 10 0.07
9 4 0.03
ACGTcount: A:0.46, C:0.32, G:0.02, T:0.21
Consensus pattern (6 bp):
TAAACC
Found at i:17813444 original size:19 final size:19
Alignment explanation
Indices: 17813366--17813452 Score: 60
Period size: 19 Copynumber: 4.7 Consensus size: 19
17813356 ACTTTAAACC
17813366 CTAAACCCTAAATCCTAAA
1 CTAAACCCTAAATCCTAAA
*
17813385 TCTTAAACCTTAAA-CCTCAAA
1 -C-TAAACCCTAAATCCT-AAA
* *
17813406 CCAAACCTTAAA--CT---
1 CTAAACCCTAAATCCTAAA
*
17813420 CCAAACCCTAAATCCTAAA
1 CTAAACCCTAAATCCTAAA
*
17813439 CTAAACCATAAATC
1 CTAAACCCTAAATC
17813453 AAACTTTAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
14 11 0.20
16 2 0.04
18 2 0.04
19 22 0.40
20 5 0.09
21 13 0.24
ACGTcount: A:0.46, C:0.32, G:0.00, T:0.22
Consensus pattern (19 bp):
CTAAACCCTAAATCCTAAA
Found at i:17813474 original size:12 final size:12
Alignment explanation
Indices: 17813433--17813504 Score: 54
Period size: 12 Copynumber: 5.7 Consensus size: 12
17813423 AACCCTAAAT
*
17813433 CCTAAACTAAAC
1 CCTAAACCAAAC
* *
17813445 CATAAATCAAAC
1 CCTAAACCAAAC
**
17813457 TTTAAACCAAAC
1 CCTAAACCAAAC
*
17813469 CCTAAACGCTAAAT
1 CCTAAAC-C-AAAC
17813483 CCTAAACTACAAAC
1 CCTAAAC--CAAAC
17813497 CCTAAACC
1 CCTAAACC
17813505 TTAAACTATA
Statistics
Matches: 46, Mismatches: 11, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
12 24 0.52
13 1 0.02
14 20 0.43
15 1 0.02
ACGTcount: A:0.49, C:0.32, G:0.01, T:0.18
Consensus pattern (12 bp):
CCTAAACCAAAC
Found at i:17813510 original size:14 final size:14
Alignment explanation
Indices: 17813347--17813552 Score: 110
Period size: 14 Copynumber: 15.3 Consensus size: 14
17813337 CCTAAATTTG
* *
17813347 AAACCTTAAACTTT
1 AAACCCTAAACCTT
*
17813361 AAACCCTAAACCCT
1 AAACCCTAAACCTT
* *
17813375 AAATCCTAAATCTT
1 AAACCCTAAACCTT
* *
17813389 AAACCTTAAACCTC
1 AAACCCTAAACCTT
17813403 AAA-CC-AAACCTT
1 AAACCCTAAACCTT
*
17813415 AAACTCC-AAACCCT
1 AAAC-CCTAAACCTT
*
17813429 AAATCCTAAA-C-T
1 AAACCCTAAACCTT
* *
17813441 AAACCATAAA--TC
1 AAACCCTAAACCTT
**
17813453 AAACTTTAAACC--
1 AAACCCTAAACCTT
17813465 AAACCCTAAACGC-T
1 AAACCCTAAAC-CTT
* *
17813479 AAATCCTAAA-CTAC
1 AAACCCTAAACCT-T
17813493 AAACCCTAAACCTT
1 AAACCCTAAACCTT
** *
17813507 AAACTATAAGCCTT
1 AAACCCTAAACCTT
*
17813521 AAACCCTAAACCAT
1 AAACCCTAAACCTT
* * *
17813535 AAGCTCTAAACCCT
1 AAACCCTAAACCTT
17813549 AAAC
1 AAAC
17813553 TTGACCCCAA
Statistics
Matches: 145, Mismatches: 36, Indels: 22
0.71 0.18 0.11
Matches are distributed among these distances:
12 36 0.25
13 5 0.03
14 102 0.70
15 2 0.01
ACGTcount: A:0.46, C:0.31, G:0.01, T:0.21
Consensus pattern (14 bp):
AAACCCTAAACCTT
Found at i:17814803 original size:55 final size:54
Alignment explanation
Indices: 17814739--17814881 Score: 144
Period size: 55 Copynumber: 2.6 Consensus size: 54
17814729 TGCTTAGCAT
* *
17814739 CTGTCAGTATAGACTTGTATTTTTTAATTTTCTTA-TCTATATCGACGGTAAGAGA
1 CTGTCAGTATAGACTTGTATATTTTAATTTT-TTACT-TATACCGACGGTAAGAGA
* * * ** ** *
17814794 CTGTTAGTATAAAATTGTATGCTTTAATGGATTTACTTATACCGACGGTTAGAGA
1 CTGTCAGTATAGACTTGTATATTTTAAT-TTTTTACTTATACCGACGGTAAGAGA
* *
17814849 TTGTCAGTATAGACTTATATATTTTAATTTTTT
1 CTGTCAGTATAGACTTGTATATTTTAATTTTTT
17814882 GTTATATTTT
Statistics
Matches: 68, Mismatches: 18, Indels: 5
0.75 0.20 0.05
Matches are distributed among these distances:
54 3 0.04
55 63 0.93
56 2 0.03
ACGTcount: A:0.29, C:0.10, G:0.16, T:0.45
Consensus pattern (54 bp):
CTGTCAGTATAGACTTGTATATTTTAATTTTTTACTTATACCGACGGTAAGAGA
Found at i:17815778 original size:67 final size:67
Alignment explanation
Indices: 17815699--17815824 Score: 189
Period size: 67 Copynumber: 1.9 Consensus size: 67
17815689 ACAAAAGGTA
* * *
17815699 AAAAGGTAATCATCCATTCATATACCAGTAGAAATAATTTTATAAACATCTTATTCATTTTATAT
1 AAAAGGTAATCATCCATTCATATACCAGCAAAAATAATATTATAAACATCTTATTCATTTTATAT
17815764 AT
66 AT
** * *
17815766 AAAAGGTAATCATCTGTTTATATACTAGCAAAAATAATATTATAAACATCTTATTCATT
1 AAAAGGTAATCATCCATTCATATACCAGCAAAAATAATATTATAAACATCTTATTCATT
17815825 AGTGTAATGC
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
67 52 1.00
ACGTcount: A:0.43, C:0.13, G:0.06, T:0.38
Consensus pattern (67 bp):
AAAAGGTAATCATCCATTCATATACCAGCAAAAATAATATTATAAACATCTTATTCATTTTATAT
AT
Found at i:17822988 original size:529 final size:529
Alignment explanation
Indices: 17821990--17823049 Score: 1996
Period size: 529 Copynumber: 2.0 Consensus size: 529
17821980 ATATTTATAA
17821990 TTAAACTTATGTATTTTTAGGAGAAGTACAAACCGAAATCAGTTTCATTGAAAAAGTAAGAGAAA
1 TTAAACTTATGTATTTTTAGGAGAAGTACAAACCGAAATCAGTTTCATTGAAAAAGTAAGAGAAA
*
17822055 GGCGGAGGATAAAAGTAAAGTAACTCACAATTACAAAAAGACAAAATCTGGGCAGCTTGTAAAAA
66 GGCAGAGGATAAAAGTAAAGTAACTCACAATTACAAAAAGACAAAATCTGGGCAGCTTGTAAAAA
17822120 CTATGTAAAATTAAGGGATTTTTGCAAGGAAAACAAAGTTTAAAAGCTTGAAAATTTAAACAAGG
131 CTATGTAAAATTAAGGGATTTTTGCAAGGAAAACAAAGTTTAAAAGCTTGAAAATTTAAACAAGG
*
17822185 ATTTTATCTACAAAGTTAAAAAAATGAAAGGTAAGAGAGAGTAGGCGAAGTAAGGACTGAAATGC
196 ATTTTATCTACAAAGTTAAAAAAATGAAAGGTAAGAGAGAGTAGGCGAAGTAAGGACCGAAATGC
*
17822250 AAAGTAAGGATGGTGAGAAGAAAATTTTCACTACTTTTGTTTTAATAAGTTTAGATTTTTTTTAA
261 AAAGTAAAGATGGTGAGAAGAAAATTTTCACTACTTTTGTTTTAATAAGTTTAGATTTTTTTTAA
17822315 AAGGTTTTCATTCCCAAGATGTGGGAGCATAAGGTAAGGATGGTGAAATATTGAAGGTTTTTTTG
326 AAGGTTTTCATTCCCAAGATGTGGGAGCATAAGGTAAGGATGGTGAAATATTGAAGGTTTTTTTG
17822380 ACCAGAAAATGCCTTGAATAATCTCTAGATAGAGGATTATTCCCTCTAATTTTTTATGAAGAATT
391 ACCAGAAAATGCCTTGAATAATCTCTAGATAGAGGATTATTCCCTCTAATTTTTTATGAAGAATT
*
17822445 ATTTGAGGTATTTTTTGCCAAAAATGACTTTAATAATCCCCTTCAATTTTTTAGGCAGGGATTAA
456 ATTTGAGGTATTTTTTGCCAAAAATGACTTCAATAATCCCCTTCAATTTTTTAGGCAGGGATTAA
17822510 TCAAGGTGT
521 TCAAGGTGT
17822519 TTAAACTTATGTATTTTTAGGAGAAGTACAAACCGAAATCAGTTTCATTGAAAAAGTAAGAGAAA
1 TTAAACTTATGTATTTTTAGGAGAAGTACAAACCGAAATCAGTTTCATTGAAAAAGTAAGAGAAA
* *
17822584 GGCAGAGGATAAAAGTAAAGTAACTCACAATTACAAAAGGACAAAATCTTGGCAGCTTGTAAAAA
66 GGCAGAGGATAAAAGTAAAGTAACTCACAATTACAAAAAGACAAAATCTGGGCAGCTTGTAAAAA
17822649 CTATGTAAAATTAAGGGATTTTTGCAAGGAAAACAAAGTTTAAAAGCTTGAAAATTTAAACAAGG
131 CTATGTAAAATTAAGGGATTTTTGCAAGGAAAACAAAGTTTAAAAGCTTGAAAATTTAAACAAGG
*
17822714 ATTTTATCTGCAAAGTTAAAAAAATGAAAGGTAAGAGAGAGTAGGCGAAGTAAGGACCGAAATGC
196 ATTTTATCTACAAAGTTAAAAAAATGAAAGGTAAGAGAGAGTAGGCGAAGTAAGGACCGAAATGC
*
17822779 AAAGTAAAGATGGTGAGAAGAAAATTTTCTCTACTTTTGTTTTAATAAGTTTAGATTTTTTTTAA
261 AAAGTAAAGATGGTGAGAAGAAAATTTTCACTACTTTTGTTTTAATAAGTTTAGATTTTTTTTAA
17822844 AAGGTTTTCATTCCCAAGATGTGGGAGCATAAGGTAAGGATGGTGAAATATTGAAGGTTTTTTTG
326 AAGGTTTTCATTCCCAAGATGTGGGAGCATAAGGTAAGGATGGTGAAATATTGAAGGTTTTTTTG
* *
17822909 ACCAGAAAATGCCTTGAATAATCTCTAGATAGGGGATTATTCCCTTTAATTTTTTATG-AGAAAT
391 ACCAGAAAATGCCTTGAATAATCTCTAGATAGAGGATTATTCCCTCTAATTTTTTATGAAG-AAT
* *
17822973 TATTTGAGGTATTTTTTGTCAAAAATGACTTCAATAATCCCCTTCATTTTTTTAGGCAGGGATTA
455 TATTTGAGGTATTTTTTGCCAAAAATGACTTCAATAATCCCCTTCAATTTTTTAGGCAGGGATTA
17823038 ATCAAGGTGT
520 ATCAAGGTGT
17823048 TT
1 TT
17823050 TAGCTTAAAA
Statistics
Matches: 518, Mismatches: 12, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
528 2 0.00
529 516 1.00
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.31
Consensus pattern (529 bp):
TTAAACTTATGTATTTTTAGGAGAAGTACAAACCGAAATCAGTTTCATTGAAAAAGTAAGAGAAA
GGCAGAGGATAAAAGTAAAGTAACTCACAATTACAAAAAGACAAAATCTGGGCAGCTTGTAAAAA
CTATGTAAAATTAAGGGATTTTTGCAAGGAAAACAAAGTTTAAAAGCTTGAAAATTTAAACAAGG
ATTTTATCTACAAAGTTAAAAAAATGAAAGGTAAGAGAGAGTAGGCGAAGTAAGGACCGAAATGC
AAAGTAAAGATGGTGAGAAGAAAATTTTCACTACTTTTGTTTTAATAAGTTTAGATTTTTTTTAA
AAGGTTTTCATTCCCAAGATGTGGGAGCATAAGGTAAGGATGGTGAAATATTGAAGGTTTTTTTG
ACCAGAAAATGCCTTGAATAATCTCTAGATAGAGGATTATTCCCTCTAATTTTTTATGAAGAATT
ATTTGAGGTATTTTTTGCCAAAAATGACTTCAATAATCCCCTTCAATTTTTTAGGCAGGGATTAA
TCAAGGTGT
Found at i:17823412 original size:63 final size:63
Alignment explanation
Indices: 17823339--17823559 Score: 194
Period size: 63 Copynumber: 3.6 Consensus size: 63
17823329 TGTTTTGGAA
17823339 TATTCAAGGCATTTTTGCCTAAAAAATATCTTGAATAATCCCTATCAATTTTTATGATGAGAT
1 TATTCAAGGCATTTTTGCCTAAAAAATATCTTGAATAATCCCTATCAATTTTTATGATGAGAT
* * * * * * *
17823402 TATTGAAGGCATTTTTTG--TCAAAAATA-CATTCAATAAT-CCTAGC-ATTTTT-T-TTTA-AA
1 TATTCAAGGCA-TTTTTGCCTAAAAAATATC-TTGAATAATCCCTATCAATTTTTATGATGAGAT
* * * * *
17823459 TATCCAA-GCTTTTTTGCCTAGAAAACATCTTGAATAATCCTCT-TCAATTTTTATGATGGGAT
1 TATTCAAGGCATTTTTGCCTAAAAAATATCTTGAATAATCC-CTATCAATTTTTATGATGAGAT
* * *
17823521 TATTAAAGGTATTTTTAGCC-AAAAAATACCTTGAATAAT
1 TATTCAAGGCATTTTT-GCCTAAAAAATATCTTGAATAAT
17823560 TTGTTACAAA
Statistics
Matches: 119, Mismatches: 26, Indels: 26
0.70 0.15 0.15
Matches are distributed among these distances:
55 6 0.05
56 2 0.02
57 20 0.17
58 5 0.04
59 9 0.08
60 7 0.06
61 7 0.06
62 22 0.18
63 32 0.27
64 9 0.08
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.40
Consensus pattern (63 bp):
TATTCAAGGCATTTTTGCCTAAAAAATATCTTGAATAATCCCTATCAATTTTTATGATGAGAT
Done.