Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold409
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: 3905031
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 12 of 25
Found at i:1711485 original size:19 final size:18
Alignment explanation
Indices: 1711441--1711487 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
1711431 TTTTGGCACA
*
1711441 TTTTTTATTGATATTTTT
1 TTTTTTTTTGATATTTTT
1711459 TTTATTTTTTGAT-TTTTGT
1 TTT-TTTTTTGATATTTT-T
*
1711478 TTGTTTTTTG
1 TTTTTTTTTG
1711488 GACATGGGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 14 0.56
19 11 0.44
ACGTcount: A:0.11, C:0.00, G:0.11, T:0.79
Consensus pattern (18 bp):
TTTTTTTTTGATATTTTT
Found at i:1722512 original size:15 final size:16
Alignment explanation
Indices: 1722489--1722519 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1722479 AAAGGCTTTC
1722489 AAAA-TTTTTAATAGA
1 AAAAGTTTTTAATAGA
1722504 AAAAGTTTTTAATAGA
1 AAAAGTTTTTAATAGA
1722520 GGAAATGTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.39
Consensus pattern (16 bp):
AAAAGTTTTTAATAGA
Found at i:1725851 original size:47 final size:47
Alignment explanation
Indices: 1725797--1725886 Score: 171
Period size: 47 Copynumber: 1.9 Consensus size: 47
1725787 GTGGAGAACT
*
1725797 TTTTGAAAATAAATTTTTAGCATTTGACAAAGGGGGAGAAAATTATA
1 TTTTGAAAATAAATTTTTAGCATTTGACAAAGGAGGAGAAAATTATA
1725844 TTTTGAAAATAAATTTTTAGCATTTGACAAAGGAGGAGAAAAT
1 TTTTGAAAATAAATTTTTAGCATTTGACAAAGGAGGAGAAAAT
1725887 CATTATAAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.43, C:0.04, G:0.19, T:0.33
Consensus pattern (47 bp):
TTTTGAAAATAAATTTTTAGCATTTGACAAAGGAGGAGAAAATTATA
Found at i:1726587 original size:20 final size:19
Alignment explanation
Indices: 1726538--1726593 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
1726528 TATATCGATA
* *
1726538 CATTGTATCGATTCATGCT
1 CATTGTATCGATACATACT
*
1726557 CATTATATCGATACATACT
1 CATTGTATCGATACATACT
1726576 CAATTGTATCGATACATA
1 C-ATTGTATCGATACATA
1726594 AAACTAGCAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.38
Consensus pattern (19 bp):
CATTGTATCGATACATACT
Found at i:1726647 original size:20 final size:20
Alignment explanation
Indices: 1726622--1726674 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
1726612 CTAAGTGAAA
*
1726622 TGTATCGATACATG-GGACAT
1 TGTATCGATACATGAAGA-AT
1726642 TGTATCGATACATGAAGAAT
1 TGTATCGATACATGAAGAAT
1726662 TGTATCGATACAT
1 TGTATCGATACAT
1726675 TATGCCCAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 29 0.94
21 2 0.06
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (20 bp):
TGTATCGATACATGAAGAAT
Found at i:1730036 original size:23 final size:22
Alignment explanation
Indices: 1730010--1730056 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
1730000 AGAGACAAGT
*
1730010 TTAAATTTTTTTCAAGCAACAAA
1 TTAAATGTTTTTCAAGCAA-AAA
*
1730033 TT-AATGTTTTTCAAGTAAAAA
1 TTAAATGTTTTTCAAGCAAAAA
1730054 TTA
1 TTA
1730057 TTCAAAGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
21 5 0.24
22 14 0.67
23 2 0.10
ACGTcount: A:0.43, C:0.09, G:0.06, T:0.43
Consensus pattern (22 bp):
TTAAATGTTTTTCAAGCAAAAA
Found at i:1730766 original size:35 final size:32
Alignment explanation
Indices: 1730707--1730804 Score: 99
Period size: 31 Copynumber: 3.0 Consensus size: 32
1730697 TTGAGAATTT
* * *
1730707 GAGGTTTTATCTTGGTCTTTGAAAAAGATAGGG
1 GAGGTTTTATCTTAGCCTGTG-AAAAGATAGGG
* *
1730740 AAGAGGTTTTATCTTAGCCTGAGAAAATATA-GG
1 --GAGGTTTTATCTTAGCCTGTGAAAAGATAGGG
* *
1730773 GAGGTTCTATCTTAGCTTGTGAAAAGATAGGG
1 GAGGTTTTATCTTAGCCTGTGAAAAGATAGGG
1730805 TTGTAAGGTT
Statistics
Matches: 53, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
31 25 0.47
32 2 0.04
33 2 0.04
34 7 0.13
35 17 0.32
ACGTcount: A:0.31, C:0.08, G:0.29, T:0.33
Consensus pattern (32 bp):
GAGGTTTTATCTTAGCCTGTGAAAAGATAGGG
Found at i:1736444 original size:21 final size:20
Alignment explanation
Indices: 1736398--1736444 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
1736388 TTTGATGCTA
*
1736398 ATTTTGATGAAAAACGATGT
1 ATTTTGATGAAAAACGAAGT
*
1736418 AATTTGAAGTGAAAAAC-AAGT
1 ATTTTG-A-TGAAAAACGAAGT
1736439 ATTTTG
1 ATTTTG
1736445 CAAAAGATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.43, C:0.04, G:0.19, T:0.34
Consensus pattern (20 bp):
ATTTTGATGAAAAACGAAGT
Found at i:1738676 original size:15 final size:15
Alignment explanation
Indices: 1738656--1738686 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1738646 ATTTCGTTTG
*
1738656 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1738671 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1738686 G
1 G
1738687 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1740519 original size:21 final size:21
Alignment explanation
Indices: 1740490--1740534 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1740480 AAGTTTTCAT
*
1740490 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
1740510 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
1740532 TTT
1 TTT
1740535 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:1742769 original size:13 final size:13
Alignment explanation
Indices: 1742751--1742776 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1742741 CAATTTTTTG
1742751 TGTATCGATACAT
1 TGTATCGATACAT
1742764 TGTATCGATACAT
1 TGTATCGATACAT
1742777 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1746067 original size:19 final size:20
Alignment explanation
Indices: 1746026--1746074 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
1746016 CACCCAAATT
*
1746026 TATTGATACATATTGCTTTG
1 TATTGATACATATTGCATTG
*
1746046 TATTGATACATGTT-CATTG
1 TATTGATACATATTGCATTG
*
1746065 TATCGATACA
1 TATTGATACA
1746075 CCATAAAATG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 13 0.50
20 13 0.50
ACGTcount: A:0.29, C:0.12, G:0.14, T:0.45
Consensus pattern (20 bp):
TATTGATACATATTGCATTG
Found at i:1746635 original size:35 final size:34
Alignment explanation
Indices: 1746589--1746672 Score: 104
Period size: 31 Copynumber: 2.5 Consensus size: 34
1746579 AGTGATTGAG
1746589 AGGTTTTATCTTAGCCTTTGA-AAAAGATAGGGAAA
1 AGGTTTTATCTTAG-C-TTGAGAAAAGATAGGGAAA
*
1746624 AGGTTTTATCTTAGCTTGAGAAAATATAGGG---
1 AGGTTTTATCTTAGCTTGAGAAAAGATAGGGAAA
*
1746655 AGGTTCTATCTTAGCTTG
1 AGGTTTTATCTTAGCTTG
1746673 TAAAAAAATA
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
31 17 0.37
33 4 0.09
34 11 0.24
35 14 0.30
ACGTcount: A:0.31, C:0.10, G:0.24, T:0.36
Consensus pattern (34 bp):
AGGTTTTATCTTAGCTTGAGAAAAGATAGGGAAA
Found at i:1747155 original size:3 final size:3
Alignment explanation
Indices: 1747149--1747176 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
1747139 AAAAATATAT
1747149 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1747177 AGGAAGGCCG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:1747477 original size:38 final size:37
Alignment explanation
Indices: 1747400--1747487 Score: 113
Period size: 37 Copynumber: 2.4 Consensus size: 37
1747390 AAGAAATGAC
*
1747400 AAAAGCAATTAAACAAAAAATAAAAAAAAGAAACGGA
1 AAAAGCAATTAAACAAAAAATAAAAAAAAGAAACAGA
* ** *
1747437 AAAAGCAATTAAATAGTAAATAAAAAAGGAGAAACAGA
1 AAAAGCAATTAAACAAAAAATAAAAAA-AAGAAACAGA
*
1747475 AAAAGCAAATAAA
1 AAAAGCAATTAAA
1747488 AATAGCAAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
37 24 0.55
38 20 0.45
ACGTcount: A:0.70, C:0.07, G:0.12, T:0.10
Consensus pattern (37 bp):
AAAAGCAATTAAACAAAAAATAAAAAAAAGAAACAGA
Found at i:1747602 original size:20 final size:20
Alignment explanation
Indices: 1747577--1747627 Score: 63
Period size: 17 Copynumber: 2.7 Consensus size: 20
1747567 ACACAGTAAC
1747577 AATAGCAACAAGAAAAAGAT
1 AATAGCAACAAGAAAAAGAT
1747597 AATAG---CAAGAAAAAGAT
1 AATAGCAACAAGAAAAAGAT
* *
1747614 AGTAGCAAGAAGAA
1 AATAGCAACAAGAA
1747628 GATGCCAGCA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.63, C:0.08, G:0.20, T:0.10
Consensus pattern (20 bp):
AATAGCAACAAGAAAAAGAT
Found at i:1747605 original size:17 final size:17
Alignment explanation
Indices: 1747585--1747630 Score: 74
Period size: 17 Copynumber: 2.7 Consensus size: 17
1747575 ACAATAGCAA
1747585 CAAGAAAAAGATAATAG
1 CAAGAAAAAGATAATAG
*
1747602 CAAGAAAAAGATAGTAG
1 CAAGAAAAAGATAATAG
*
1747619 CAAGAAGAAGAT
1 CAAGAAAAAGAT
1747631 GCCAGCAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.61, C:0.07, G:0.22, T:0.11
Consensus pattern (17 bp):
CAAGAAAAAGATAATAG
Found at i:1750058 original size:15 final size:16
Alignment explanation
Indices: 1750040--1750077 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
1750030 TGATTGCCTG
*
1750040 TTAATTCAATTTTAA-
1 TTAATTCAATTTCAAT
*
1750055 TTAATTCGATTTCAAT
1 TTAATTCAATTTCAAT
1750071 TTAATTC
1 TTAATTC
1750078 TTTTTTTATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.34, C:0.11, G:0.03, T:0.53
Consensus pattern (16 bp):
TTAATTCAATTTCAAT
Found at i:1753019 original size:18 final size:19
Alignment explanation
Indices: 1752998--1753033 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
1752988 TCTACAGACA
*
1752998 CATTCATAATT-ATTCATG
1 CATTAATAATTGATTCATG
1753016 CATTAATAATTGATTCAT
1 CATTAATAATTGATTCAT
1753034 TAAAGAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.36, C:0.14, G:0.06, T:0.44
Consensus pattern (19 bp):
CATTAATAATTGATTCATG
Found at i:1753844 original size:13 final size:13
Alignment explanation
Indices: 1753826--1753855 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1753816 ACAATCCTTC
1753826 ATGTATCGATACA
1 ATGTATCGATACA
*
1753839 ATGTATCGATAGA
1 ATGTATCGATACA
1753852 ATGT
1 ATGT
1753856 GAGTTTTAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.33
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1753935 original size:33 final size:33
Alignment explanation
Indices: 1753879--1753942 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
1753869 TGCCAGTTTC
* * * *
1753879 ATGTATCGATATATTTTATTGTGTGTCGATATA
1 ATGTATCGATACATTTGAGTGTGTATCGATATA
*
1753912 ATGTATCGATACATTTGGGTGTGTATCGATA
1 ATGTATCGATACATTTGAGTGTGTATCGATA
1753943 CTTTCAAAGG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.44
Consensus pattern (33 bp):
ATGTATCGATACATTTGAGTGTGTATCGATATA
Found at i:1761610 original size:13 final size:13
Alignment explanation
Indices: 1761592--1761621 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1761582 ACATTTCACC
1761592 ATGTATCGATACA
1 ATGTATCGATACA
*
1761605 ATGTATCGATAGA
1 ATGTATCGATACA
1761618 ATGT
1 ATGT
1761622 GAGTTTTAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.33
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1771886 original size:20 final size:21
Alignment explanation
Indices: 1771833--1771887 Score: 78
Period size: 20 Copynumber: 2.7 Consensus size: 21
1771823 AAAATTCCAG
**
1771833 ATGTATCGATACAAAG-ATCA
1 ATGTATCGATACATTGAATCA
1771853 ATGTATCGATACATTGAAT-A
1 ATGTATCGATACATTGAATCA
1771873 ATGTATCGATACATT
1 ATGTATCGATACATT
1771888 TCCTTGGCAG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.94
21 2 0.06
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATTGAATCA
Found at i:1772807 original size:49 final size:49
Alignment explanation
Indices: 1772741--1773086 Score: 304
Period size: 49 Copynumber: 7.4 Consensus size: 49
1772731 ATGTTAAAGA
* * *
1772741 TGCCAATATGCTAATTCAAGGCCAACAATATTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAACGATATTGGTCTTAAAGATGAAGG
* * * *
1772790 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGGTTAAGT
1 TGCCAATATGCTGATTCAAGGCCAACGATATTGGTCTTAAAGAT-G--AAGG
* * * *
1772842 TGCCAATGTGCTGATTCAAGGCCAAAGACATCGGTCTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAACGATATTGGTCTTAAAGATGAAGG
* *
1772891 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGC-T-----T----G
1 TGCCAATATGCTGATTCAAGGCCAACGATATTGGTCTTAAAGATGAAGG
* * *
1772930 TGCCAATGTGCTGATTCAAGGTCAACGATATTGGTCTTAAAGA-CAAGG
1 TGCCAATATGCTGATTCAAGGCCAACGATATTGGTCTTAAAGATGAAGG
* * * *
1772978 TGCCAATATGCTGATTTAGGGCCAGCGATATTGGGC-T-----T--A--
1 TGCCAATATGCTGATTCAAGGCCAACGATATTGGTCTTAAAGATGAAGG
* * *
1773017 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGA-CAAGG
1 TGCCAATATGCTGATTCAAGGCCAACGATATTGGTCTTAAAGATGAAGG
1773065 TGCCAATATGCTGATTCAAGGC
1 TGCCAATATGCTGATTCAAGGC
1773087 TAGTGATATT
Statistics
Matches: 239, Mismatches: 34, Indels: 49
0.74 0.11 0.15
Matches are distributed among these distances:
39 63 0.26
40 2 0.01
41 1 0.00
43 1 0.00
46 1 0.00
47 1 0.00
48 53 0.22
49 71 0.30
50 1 0.00
51 1 0.00
52 44 0.18
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.26
Consensus pattern (49 bp):
TGCCAATATGCTGATTCAAGGCCAACGATATTGGTCTTAAAGATGAAGG
Found at i:1772818 original size:101 final size:101
Alignment explanation
Indices: 1772645--1773086 Score: 338
Period size: 101 Copynumber: 4.7 Consensus size: 101
1772635 CGAAGAGTAA
* * * * * **
1772645 CAATGTGCTGATTCATGGCCAACGACATTAGACTTGAAGAAGAA--TGCCAATGTGCTGAGACAA
1 CAATGTGCTGATTCAAGGCCAACAACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
** *
1772708 GGCTTGCGACATTGGGCTT-AGGAAT-GTTAAAGATGC
66 GGCCAGCGACATTGGGCTTAAAG-ATGGTT-AAGATGC
* * *
1772744 CAATATGCTAATTCAAGGCCAACAATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAACAACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
* *
1772809 GGCCAGCGACATTGGTCTTAAAGATGGTTAAGTTGC
66 GGCCAGCGACATTGGGCTTAAAGATGGTTAAGATGC
* * *
1772845 CAATGTGCTGATTCAAGGCCAA-AGACATCGGTCTTAAAGATGAAGGTGCCAATATGCTGATTCA
1 CAATGTGCTGATTCAAGGCCAACA-ACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCA
*
1772909 AGGCCAGCGATATTGGGC----------TT--G-TGC
65 AGGCCAGCGACATTGGGCTTAAAGATGGTTAAGATGC
* * * * * * * *
1772933 CAATGTGCTGATTCAAGGTCAACGATATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGATTTAG
1 CAATGTGCTGATTCAAGGCCAACAACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
*
1772997 GGCCAGCGATATTGGGC----------TT---ATGC
66 GGCCAGCGACATTGGGCTTAAAGATGGTTAAGATGC
* * * *
1773020 CAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAACAACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
1773084 GGC
66 GGC
1773087 TAGTGATATT
Statistics
Matches: 302, Mismatches: 34, Indels: 26
0.83 0.09 0.07
Matches are distributed among these distances:
87 106 0.35
88 38 0.13
89 1 0.00
91 2 0.01
99 36 0.12
100 1 0.00
101 113 0.37
102 5 0.02
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (101 bp):
CAATGTGCTGATTCAAGGCCAACAACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
GGCCAGCGACATTGGGCTTAAAGATGGTTAAGATGC
Found at i:1772944 original size:39 final size:39
Alignment explanation
Indices: 1772890--1773305 Score: 177
Period size: 39 Copynumber: 9.7 Consensus size: 39
1772880 AAAGATGAAG
*
1772890 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
* * * *
1772929 GTGCCAATGTGCTGATTCAAGGTCAACGATATTGGTCTT
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
* * *
1772968 AAAGACAAGGTGCCAATATGCTGATTTAGGGCCAGCGATATTGGGCTT
1 ---------GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
* * * * *
1773016 ATGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTT
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
* *
1773055 AAAGACAAGGTGCCAATATGCTGATTCAAGGCTAGTGATATTAGG-CTT
1 ---------GTGCCAATATGCTGATTCAAGGCCAGCGATATT-GGACTT
* * * * * *
1773103 ATGCCAATGTGCCGATTCAAGGCCAGCAACATTGGTCTT
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
* * *
1773142 AGAGACAAGGTGCCAATATGTTAATTCAAGGCCAGCGACATTGGACTT
1 ---------GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
* * * **
1773190 ATGCCAATGTGCTGATTCAAAGCCAGCGACATTAGTCTTAGAGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCG--A-TA---TT-G-GAC-TT
* * * *
1773238 GTGCTAATATACTTATTCAAGGCCAGTGATATTGGACTT
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
* *
1773277 GTGCCAATGTGATGATTCAAGGCCAGCGA
1 GTGCCAATATGCTGATTCAAGGCCAGCGA
1773306 CATTAGTCTT
Statistics
Matches: 279, Mismatches: 60, Indels: 76
0.67 0.14 0.18
Matches are distributed among these distances:
38 2 0.01
39 142 0.51
40 3 0.01
41 2 0.01
42 3 0.01
45 4 0.01
46 2 0.01
47 3 0.01
48 116 0.42
49 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (39 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
Found at i:1773007 original size:48 final size:48
Alignment explanation
Indices: 1772929--1773370 Score: 220
Period size: 48 Copynumber: 9.9 Consensus size: 48
1772919 TATTGGGCTT
* *
1772929 GTGCCAATGTGCTGATTCAAGGTCAACGATATTGGTCTTAAAGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAACGATATTGGTCTTAAAGACAAG
* * * *
1772977 GTGCCAATATGCTGATTTAGGGCCAGCGATATTGGGCTT-------A-
1 GTGCCAATATGCTGATTCAAGGCCAACGATATTGGTCTTAAAGACAAG
* *
1773017 -TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAACGATATTGGTCTTAAAGACAAG
* **
1773064 GTGCCAATATGCTGATTCAAGGCTAGTGATATTAGG-CTT-------A-
1 GTGCCAATATGCTGATTCAAGGCCAACGATATT-GGTCTTAAAGACAAG
* * * * * *
1773104 -TGCCAATGTGCCGATTCAAGGCCAGCAACATTGGTCTTAGAGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAACGATATTGGTCTTAAAGACAAG
* * * * *
1773151 GTGCCAATATGTTAATTCAAGGCCAGCGACATTGGACTT-------A-
1 GTGCCAATATGCTGATTCAAGGCCAACGATATTGGTCTTAAAGACAAG
* * * * * *
1773191 -TGCCAATGTGCTGATTCAAAGCCAGCGACATTAGTCTTAGAGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAACGATATTGGTCTTAAAGACAAG
* * * ** *
1773238 GTGCTAATATACTTATTCAAGGCCAGTGATATTGGACTT---------
1 GTGCCAATATGCTGATTCAAGGCCAACGATATTGGTCTTAAAGACAAG
* * * * * *
1773277 GTGCCAATGTGATGATTCAAGGCCAGCGACATTAGTCTTAAAGATAAAG
1 GTGCCAATATGCTGATTCAAGGCCAACGATATTGGTCTTAAAGA-CAAG
* *
1773326 GTGCCAATATACTGATTCAAGGCCAACGATATTGGACTTAGAAGA
1 GTGCCAATATGCTGATTCAAGGCCAACGATATTGGTCTTA-AAGA
1773371 AGACACCACC
Statistics
Matches: 294, Mismatches: 60, Indels: 78
0.68 0.14 0.18
Matches are distributed among these distances:
38 2 0.01
39 123 0.42
41 3 0.01
46 3 0.01
48 124 0.42
49 35 0.12
50 4 0.01
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.27
Consensus pattern (48 bp):
GTGCCAATATGCTGATTCAAGGCCAACGATATTGGTCTTAAAGACAAG
Found at i:1773008 original size:87 final size:87
Alignment explanation
Indices: 1772842--1773365 Score: 706
Period size: 87 Copynumber: 6.0 Consensus size: 87
1772832 ATGGTTAAGT
* * *
1772842 TGCCAATGTGCTGATTCAAGGCCAAAGACATCGGTCTTAAAGATGAAGGTGCCAATATGCTGATT
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGATT
*
1772907 CAAGGCCAGCGATATTGGGCTTG
65 CAAGGCCAGCGATATTGGGCTTA
* * *
1772930 TGCCAATGTGCTGATTCAAGGTCAACGATATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTT
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
*
1772995 AGGGCCAGCGATATTGGGCTTA
66 AAGGCCAGCGATATTGGGCTTA
1773017 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
* * *
1773082 AAGGCTAGTGATATTAGGCTTA
66 AAGGCCAGCGATATTGGGCTTA
* * * * * *
1773104 TGCCAATGTGCCGATTCAAGGCCAGCAACATTGGTCTTAGAGACAAGGTGCCAATATGTTAATTC
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
* *
1773169 AAGGCCAGCGACATTGGACTTA
66 AAGGCCAGCGATATTGGGCTTA
* * * * * * *
1773191 TGCCAATGTGCTGATTCAAAGCCAGCGACATTAGTCTTAGAGACAAGGTGCTAATATACTTATTC
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
* * *
1773256 AAGGCCAGTGATATTGGACTTG
66 AAGGCCAGCGATATTGGGCTTA
* * * * *
1773278 TGCCAATGTGATGATTCAAGGCCAGCGACATTAGTCTTAAAGATAAAGGTGCCAATATACTGATT
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGATT
* *
1773343 CAAGGCCAACGATATTGGACTTA
65 CAAGGCCAGCGATATTGGGCTTA
1773366 GAAGAAGACA
Statistics
Matches: 389, Mismatches: 46, Indels: 2
0.89 0.11 0.00
Matches are distributed among these distances:
87 312 0.80
88 77 0.20
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (87 bp):
TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
AAGGCCAGCGATATTGGGCTTA
Found at i:1773474 original size:29 final size:30
Alignment explanation
Indices: 1773387--1773487 Score: 111
Period size: 29 Copynumber: 3.5 Consensus size: 30
1773377 CACCAACTTG
** *
1773387 TGTGGGCTTTTGAAAG-GGTTACACCAACT
1 TGTGGGCTTTTGAAAGAGGTGCCACCGACT
* * *
1773416 TGTGTGCTTTTG-AA-AGTTGCCACTGACT
1 TGTGGGCTTTTGAAAGAGGTGCCACCGACT
1773444 TGTGGGC-TTTGAAAGAGGTGCCACCGACT
1 TGTGGGCTTTTGAAAGAGGTGCCACCGACT
*
1773473 TGTAGGCTTTTGAAA
1 TGTGGGCTTTTGAAA
1773488 AGGGTACCAC
Statistics
Matches: 58, Mismatches: 10, Indels: 7
0.77 0.13 0.09
Matches are distributed among these distances:
27 4 0.07
28 18 0.31
29 29 0.50
30 7 0.12
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.33
Consensus pattern (30 bp):
TGTGGGCTTTTGAAAGAGGTGCCACCGACT
Found at i:1773557 original size:27 final size:27
Alignment explanation
Indices: 1773525--1774065 Score: 197
Period size: 27 Copynumber: 17.7 Consensus size: 27
1773515 AGGAGAAAGA
1773525 TGCCACAGAGTTGTGGACTTAAAAGGG
1 TGCCACAGAGTTGTGGACTTAAAAGGG
1773552 TGCCAC-GAAGTTGTGGACTTAAAAAGAAAAAGAG
1 TGCCACAG-AGTTGTGGACTT-AAAAG-----G-G
** * *
1773586 TGCCATGGAGTTGTGGGCTTTAAAAAAAAAAGG
1 TGCCACAGAGTTGTGGAC-TT-----AAAAGGG
** *
1773619 TGCCATGGAGTTGTGGACTTAAAAAGG
1 TGCCACAGAGTTGTGGACTTAAAAGGG
*
1773646 TGCCACAGAGTAGTGGACTTAAAAGGAAAAAGAG
1 TGCCACAGAGTTGTGGACTTAAAA-G-----G-G
* *
1773680 TGCCACGGAGTTGTGGGCTTAAAAGGG
1 TGCCACAGAGTTGTGGACTTAAAAGGG
* * *
1773707 TGCCACGGAGTTGTGGGCTTTAAAGGAAAAAGAG
1 TGCCACAGAGTTGTGGAC-TT------AAAAGGG
** *
1773741 TGCCATGGAGTTGTGGGCTTAAAAGGG
1 TGCCACAGAGTTGTGGACTTAAAAGGG
1773768 TGCCACAGAGTTGTGGACTTAAAAGGAAAAAG
1 TGCCACAGAGTTGTGGACTTAAAAGG-----G
** *
1773800 AATGCCATGGAGTTGTGGGCTTAAAAGGAAAAAGAG
1 --TGCCACAGAGTTGTGGACTTAAAA-G-----G-G
* * *
1773836 TGCCATAGAGTTGTGGGCCTAAAAGGG
1 TGCCACAGAGTTGTGGACTTAAAAGGG
* *
1773863 TGCCACGGAGTTGTGGGCTTAAAAGGAAAAAGAG
1 TGCCACAGAGTTGTGGACTTAAAA-G-----G-G
*
1773897 TGCCACGGAGTTGTAGG-CTTAAAAGGG
1 TGCCACAGAGTTGT-GGACTTAAAAGGG
*
1773924 TGCCACAGAGTTGTGGACTTTGAAAAGAGAT
1 TGCCACAGAGTTGTGGAC-TT-AAAAG-G-G
* *
1773955 TGCCACTGAGTCGTGGACTTAAAAGGAAAAAG
1 TGCCACAGAGTTGTGGACTTAAAAGG-----G
* *
1773987 ATGCCATAGAGTTGTGGACTTAAAAGGA
1 -TGCCACAGAGTTGTGGACTTAAAAGGG
*
1774015 TGCCACAGAGTTGTGGACTTTAAGAAGAGAT
1 TGCCACAGAGTTGTGGAC-TTAA-AAG-G-G
1774046 TGCCACTA-AGTTGTGGACTT
1 TGCCAC-AGAGTTGTGGACTT
1774066 TGAGAAAATA
Statistics
Matches: 414, Mismatches: 36, Indels: 125
0.72 0.06 0.22
Matches are distributed among these distances:
26 3 0.01
27 148 0.36
28 18 0.04
29 13 0.03
30 6 0.01
31 32 0.08
32 5 0.01
33 49 0.12
34 126 0.30
35 6 0.01
36 2 0.00
39 5 0.01
40 1 0.00
ACGTcount: A:0.33, C:0.13, G:0.32, T:0.22
Consensus pattern (27 bp):
TGCCACAGAGTTGTGGACTTAAAAGGG
Found at i:1773589 original size:34 final size:34
Alignment explanation
Indices: 1773545--1773920 Score: 317
Period size: 34 Copynumber: 11.9 Consensus size: 34
1773535 TTGTGGACTT
* * *
1773545 AAAAGGGTGCCACGAAGTTGTGGACTTAAAAAGA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAAGA
*
1773579 AAAAGAGTGCCATGGAGTTGTGGGCTTTAAAAA-A
1 AAAAGAGTGCCACGGAGTTGTGGGC-TTAAAAAGA
* *
1773613 AAAAG-GTGCCATGGAGTTGTGGACTT------A
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAAGA
* * * *
1773640 AAAAG-GTGCCACAGAGTAGTGGACTTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAAGA
1773673 AAAAGAGTGCCACGGAGTTGTGGGCTT-AAAAG-
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAAGA
* *
1773705 ----G-GTGCCACGGAGTTGTGGGCTTTAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAAGA
*
1773734 AAAAGAGTGCCATGGAGTTGTGGGCTT-AAAAG-
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAAGA
* * *
1773766 ----G-GTGCCACAGAGTTGTGGACTTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAAGA
* * *
1773795 AAAAGAATGCCATGGAGTTGTGGGCTTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAAGA
** *
1773829 AAAAGAGTGCCATAGAGTTGTGGGCCT-AAAAG-
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAAGA
*
1773861 ----G-GTGCCACGGAGTTGTGGGCTTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAAGA
*
1773890 AAAAGAGTGCCACGGAGTTGTAGGCTTAAAA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAA
1773921 GGGTGCCACA
Statistics
Matches: 281, Mismatches: 32, Indels: 58
0.76 0.09 0.16
Matches are distributed among these distances:
27 81 0.29
28 15 0.05
32 2 0.01
33 39 0.14
34 137 0.49
35 7 0.02
ACGTcount: A:0.35, C:0.12, G:0.33, T:0.20
Consensus pattern (34 bp):
AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAAGA
Found at i:1773623 original size:94 final size:93
Alignment explanation
Indices: 1773520--1774034 Score: 299
Period size: 95 Copynumber: 5.6 Consensus size: 93
1773510 TTAAAAGGAG
* *
1773520 AAAGATGCCACAGAGTTGTGGACTTAAAAGGGTGCCAC-GAAGTTGTGGACTTAAAAAGAAAAAG
1 AAAGATGCCACAGAGTTGTGGACTTAAAAAGGTGCCACAG-AGTAGTGGACTTAAAAAGAAAAAG
*
1773584 AGTGCCATGGAGTTGTGGGCTTTAAAAAAA
65 AGTGCCACGGAGTTGTGGGC-TTAAAAAAA
* ** *
1773614 AAAGGTGCCATGGAGTTGTGGACTTAAAAAGGTGCCACAGAGTAGTGGACTTAAAAGGAAAAAGA
1 AAAGATGCCACAGAGTTGTGGACTTAAAAAGGTGCCACAGAGTAGTGGACTTAAAAAGAAAAAGA
1773679 GTGCCACGGAGTTGTGGGCTT-----AA
66 GTGCCACGGAGTTGTGGGCTTAAAAAAA
* * * * ** * *
1773702 AAGGGTGCCACGGAGTTGTGGGCTTTAAAGGAAAAAGAGTGCCATGGAGTTGTGGGCTT-AAAAG
1 AAAGATGCCACAGAGTTGTGGAC-TT-----AAAAAG-GTGCCACAGAGTAGTGGACTTAAAAAG
* * *
1773766 -----G-GTGCCACAGAGTTGTGGACTTAAAAGGAA
59 AAAAAGAGTGCCACGGAGTTGTGGGCTTAAAA-AAA
** * * * * *
1773796 AAAGAATGCCATGGAGTTGTGGGCTTAAAAGGAAAAAGAGTGCCATAGAGTTGTGGGCCT-AAAA
1 AAAG-ATGCCACAGAGTTGTGGACTT------AAAAAG-GTGCCACAGAGTAGTGGACTTAAAAA
*
1773860 G-----G-GTGCCACGGAGTTGTGGGCTTAAAAGGAA
58 GAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAA-AAA
* * * *
1773891 AAAGAGTGCCACGGAGTTGTAGG-CTTAAAAGGGTGCCACAGAGTTGTGGACTT----TGAAAAG
1 AAAGA-TGCCACAGAGTTGT-GGACTTAAAAAGGTGCCACAGAGTAGTGGACTTAAAAAGAAAA-
* * * * *
1773951 AGATTGCCACTGAGTCGTGGACTTAAAAGGAA
63 AGAGTGCCACGGAGTTGTGGGCTTAAAA-AAA
* *
1773983 AAAGATGCCATAGAGTTGTGGACTT-AAAAGGATGCCACAGAGTTGTGGACTT
1 AAAGATGCCACAGAGTTGTGGACTTAAAAAGG-TGCCACAGAGTAGTGGACTT
1774035 TAAGAAGAGA
Statistics
Matches: 357, Mismatches: 37, Indels: 57
0.79 0.08 0.13
Matches are distributed among these distances:
85 1 0.00
88 59 0.17
89 8 0.02
90 7 0.02
91 36 0.10
92 30 0.08
93 2 0.01
94 93 0.26
95 119 0.33
96 2 0.01
ACGTcount: A:0.34, C:0.12, G:0.32, T:0.21
Consensus pattern (93 bp):
AAAGATGCCACAGAGTTGTGGACTTAAAAAGGTGCCACAGAGTAGTGGACTTAAAAAGAAAAAGA
GTGCCACGGAGTTGTGGGCTTAAAAAAA
Found at i:1773643 original size:61 final size:62
Alignment explanation
Indices: 1773578--1774034 Score: 346
Period size: 61 Copynumber: 7.5 Consensus size: 62
1773568 ACTTAAAAAG
* ** * * *
1773578 AAAAAGAGTGCCATGGAGTTGTGGGCTTTAAAA-AAAAAAG-GTGCCATGGAGTTGTGGACTT
1 AAAAAGGGTGCCACAGAGTTGTGGAC-TTAAAAGGAAAAAGAGTGCCATGGAGTTGTGGGCTT
* *
1773639 AAAAA-GGTGCCACAGAGTAGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
1 AAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCATGGAGTTGTGGGCTT
* * *
1773700 -AAAAGGGTGCCACGGAGTTGTGGGCTTTAAAGGAAAAAGAGTGCCATGGAGTTGTGGGCTT
1 AAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCATGGAGTTGTGGGCTT
*
1773761 -AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAATGCCATGGAGTTGTGGGCTT
1 AAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCATGGAGTTGTGGGCTT
* * * * *
1773822 AAAAGGAAAAAGAGTGCCATAGAGTTGTGGGCCTAAAA-G-----G-GTGCCACGGAGTTGTGGG
1 ------AAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCATGGAGTTGTGGG
1773880 CTT
60 CTT
* * **
1773883 AAAAGGAAAAAGAGTGCCACGGAGTTGTAGG-CTTAAAA-G-----G-GTGCCACAGAGTTGTGG
1 ------AAAAAGGGTGCCACAGAGTTGT-GGACTTAAAAGGAAAAAGAGTGCCATGGAGTTGTGG
*
1773940 ACTTT
59 GC-TT
** * * * *
1773945 GAAAAGAGATTGCCACTGAGTCGTGGACTTAAAAGGAAAAAGA-TGCCATAGAGTTGTGGACTT
1 -AAAA-AGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCATGGAGTTGTGGGCTT
*
1774008 -AAAAGGATGCCACAGAGTTGTGGACTT
1 AAAAAGGGTGCCACAGAGTTGTGGACTT
1774035 TAAGAAGAGA
Statistics
Matches: 339, Mismatches: 36, Indels: 43
0.81 0.09 0.10
Matches are distributed among these distances:
57 7 0.02
58 22 0.06
59 7 0.02
60 45 0.13
61 205 0.60
62 5 0.01
63 2 0.01
64 18 0.05
67 1 0.00
68 27 0.08
ACGTcount: A:0.33, C:0.12, G:0.33, T:0.21
Consensus pattern (62 bp):
AAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCATGGAGTTGTGGGCTT
Found at i:1773792 original size:122 final size:121
Alignment explanation
Indices: 1773579--1773827 Score: 408
Period size: 122 Copynumber: 2.0 Consensus size: 121
1773569 CTTAAAAAGA
* *
1773579 AAAAGAGTGCCATGGAGTTGTGGGCTTTAAAAAAAAAAGGTGCCATGGAGTTGTGGACTTAAAAA
1 AAAAGGGTGCCACGGAGTTGTGGGCTTTAAAAAAAAAAGGTGCCATGGAGTTGTGGACTTAAAAA
*
1773644 GGTGCCACAGAGTAGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
66 GGTGCCACAGAGTAGTGGACTTAAAAGGAAAAAGAATGCCACGGAGTTGTGGGCTT
** *
1773700 AAAAGGGTGCCACGGAGTTGTGGGCTTTAAAGGAAAAAGAGTGCCATGGAGTTGTGGGCTTAAAA
1 AAAAGGGTGCCACGGAGTTGTGGGCTTTAAAAAAAAAAG-GTGCCATGGAGTTGTGGACTTAAAA
* * *
1773765 GGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAATGCCATGGAGTTGTGGGCTT
65 AGGTGCCACAGAGTAGTGGACTTAAAAGGAAAAAGAATGCCACGGAGTTGTGGGCTT
1773822 AAAAGG
1 AAAAGG
1773828 AAAAAGAGTG
Statistics
Matches: 118, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
121 35 0.30
122 83 0.70
ACGTcount: A:0.34, C:0.11, G:0.34, T:0.21
Consensus pattern (121 bp):
AAAAGGGTGCCACGGAGTTGTGGGCTTTAAAAAAAAAAGGTGCCATGGAGTTGTGGACTTAAAAA
GGTGCCACAGAGTAGTGGACTTAAAAGGAAAAAGAATGCCACGGAGTTGTGGGCTT
Found at i:1773812 original size:95 final size:95
Alignment explanation
Indices: 1773707--1774014 Score: 380
Period size: 95 Copynumber: 3.3 Consensus size: 95
1773697 CTTAAAAGGG
* *
1773707 TGCCACGGAGTTGTGGGCTTTAAAGGAAAAAGAGTGCCATGGAGTTGTGGGCTTAAAAGGGTGCC
1 TGCCACGGAGTTGTGGGCTTAAAAGGAAAAAGAGTGCCATAGAGTTGTGGGCTTAAAAGGGTGCC
1773772 ACAGAGTTGTGGACTTAAAAGGAAAAAGAA
66 ACAGAGTTGTGGACTTAAAAGGAAAAAGAA
* *
1773802 TGCCATGGAGTTGTGGGCTTAAAAGGAAAAAGAGTGCCATAGAGTTGTGGGCCTAAAAGGGTGCC
1 TGCCACGGAGTTGTGGGCTTAAAAGGAAAAAGAGTGCCATAGAGTTGTGGGCTTAAAAGGGTGCC
* * *
1773867 ACGGAGTTGTGGGCTTAAAAGGAAAAAGAG
66 ACAGAGTTGTGGACTTAAAAGGAAAAAGAA
* * * *
1773897 TGCCACGGAGTTGTAGGCTTAAAA-G-----G-GTGCCACAGAGTTGTGGACTTTGAAAAGAGAT
1 TGCCACGGAGTTGTGGGCTTAAAAGGAAAAAGAGTGCCATAGAGTTGTGGGC-TT-AAAAG-G-G
* *
1773955 TGCCACTGAGTCGTGGACTTAAAAGGAAAAAG-A
62 TGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAA
** *
1773988 TGCCATAGAGTTGTGGACTTAAAAGGA
1 TGCCACGGAGTTGTGGGCTTAAAAGGA
1774015 TGCCACAGAG
Statistics
Matches: 186, Mismatches: 21, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
88 17 0.09
89 2 0.01
90 5 0.03
91 21 0.11
92 30 0.16
94 1 0.01
95 110 0.59
ACGTcount: A:0.33, C:0.12, G:0.33, T:0.21
Consensus pattern (95 bp):
TGCCACGGAGTTGTGGGCTTAAAAGGAAAAAGAGTGCCATAGAGTTGTGGGCTTAAAAGGGTGCC
ACAGAGTTGTGGACTTAAAAGGAAAAAGAA
Found at i:1774058 original size:31 final size:30
Alignment explanation
Indices: 1773924--1774669 Score: 655
Period size: 31 Copynumber: 24.0 Consensus size: 30
1773914 CTTAAAAGGG
* * *
1773924 TGCCACAGAGTTGTGGACTTTGAA-AAGAGA
1 TGCCACTGAGTCGTGGACTTT-AAGAAAAGA
*
1773954 TTGCCACTGAGTCGTGGACTTAAAAGGAAAAAGA
1 -TGCCACTGAGTCGTGGACTT-TAA-G-AAAAGA
* *
1773988 TGCCA-TAGAGTTGTGGAC-TT-A-AAAGGA
1 TGCCACT-GAGTCGTGGACTTTAAGAAAAGA
* * *
1774015 TGCCACAGAGTTGTGGACTTTAAGAAGAGA
1 TGCCACTGAGTCGTGGACTTTAAGAAAAGA
* * *
1774045 TTGCCACTAAGTTGTGGACTTTGAGAAAATAGA
1 -TGCCACTGAGTCGTGGACTTTAAG-AAA-AGA
* * * * *
1774078 TGCCATTAAGTTGTGGACTTTAAGAAGATA
1 TGCCACTGAGTCGTGGACTTTAAGAAAAGA
* * *
1774108 TGCCATTGAGTTGTGGACTTTGAGAAAAGAGA
1 TGCCACTGAGTCGTGGACTTTAAG-AAA-AGA
* * *
1774140 TGCCACTGAGTTGTGGACTTTGAGAAGAGA
1 TGCCACTGAGTCGTGGACTTTAAGAAAAGA
*
1774170 TGCCACTGAGTCGTGGACTTTGAGAAAAGAGA
1 TGCCACTGAGTCGTGGACTTTAAG-AAA-AGA
* * *
1774202 TGCCACTGAGTTGTGGACTTTGAGAAGAGA
1 TGCCACTGAGTCGTGGACTTTAAGAAAAGA
* *
1774232 TGCCACTAAGCCGTGGACTTTGAAGAAAAAAAGA
1 TGCCACTGAGTCGTGGACTTT-AAG---AAAAGA
* *
1774266 TGCCACTGAGCCGTGGACTTGGAAGAAAAGGA
1 TGCCACTGAGTCGTGGACTT-TAAGAAAA-GA
*
1774298 TGCCACTGAGTCATGGAC-TT-AGAAAAGAGA
1 TGCCACTGAGTCGTGGACTTTAAG-AAA-AGA
*
1774328 TGCCACTGAGTTGTGGACTTTGAAGAAAAGA
1 TGCCACTGAGTCGTGGACTTT-AAGAAAAGA
* ** *
1774359 TGCCACTAAGTCGTGGACTTTGGGAAGAGA
1 TGCCACTGAGTCGTGGACTTTAAGAAAAGA
*
1774389 TGCCACTGAGTCATGGACTTTGAAGAAAAGA
1 TGCCACTGAGTCGTGGACTTT-AAGAAAAGA
* *
1774420 TGCCACTAAGTCGTGGACTTCGAAGAAAAAAGA
1 TGCCACTGAGTCGTGGACTT-TAAG--AAAAGA
*
1774453 TGCCACTGAGTCATGGACTTTGAAGAAAAGA
1 TGCCACTGAGTCGTGGACTTT-AAGAAAAGA
*
1774484 TGCCACTGAGTCGTGGACTTCGAAGAAAAAAGA
1 TGCCACTGAGTCGTGGACTT-TAAG--AAAAGA
*
1774517 TGCCACTGAGTCATGGACTTTAAAGAAAAGA
1 TGCCACTGAGTCGTGGACTTT-AAGAAAAGA
**
1774548 TGCCACTGAGTCGTGGACTTTGGGAGAAAGA
1 TGCCACTGAGTCGTGGACTTTAAGA-AAAGA
* ** *
1774579 TGCCACTGAGTCATGGACTTTGGGACAAGA
1 TGCCACTGAGTCGTGGACTTTAAGAAAAGA
* *
1774609 TGCCACTAAGTTGTGGACTTTGAAGAAAAAAGA
1 TGCCACTGAGTCGTGGACTTT-AAG--AAAAGA
1774642 TGCCACTGAGTCGTGGAC-TT-AGAAAAGA
1 TGCCACTGAGTCGTGGACTTTAAGAAAAGA
1774670 GATTTGAAGA
Statistics
Matches: 602, Mismatches: 73, Indels: 83
0.79 0.10 0.11
Matches are distributed among these distances:
27 21 0.03
28 8 0.01
29 3 0.00
30 148 0.25
31 194 0.32
32 100 0.17
33 96 0.16
34 32 0.05
ACGTcount: A:0.33, C:0.15, G:0.28, T:0.23
Consensus pattern (30 bp):
TGCCACTGAGTCGTGGACTTTAAGAAAAGA
Found at i:1774141 original size:62 final size:62
Alignment explanation
Indices: 1773924--1774669 Score: 793
Period size: 62 Copynumber: 12.0 Consensus size: 62
1773914 CTTAAAAGGG
* * *
1773924 TGCCACAGAGTTGTGGACTTT--GAAAAGAGATTGCCACTGAGTCGTGGACTTAAAAGGAAAAAG
1 TGCCACTGAGTCGTGGACTTTGAGAAAAGAGA-TGCCACTGAGTCGTGGACTT-TAA-G-AAAAG
1773987 A
62 A
* * * *
1773988 TGCCA-TAGAGTTGTGGAC-TT---AAAAG-GATGCCACAGAGTTGTGGACTTTAAGAAGAGA
1 TGCCACT-GAGTCGTGGACTTTGAGAAAAGAGATGCCACTGAGTCGTGGACTTTAAGAAAAGA
* * * * * * * *
1774045 TTGCCACTAAGTTGTGGACTTTGAGAAAATAGATGCCATTAAGTTGTGGACTTTAAGAAGATA
1 -TGCCACTGAGTCGTGGACTTTGAGAAAAGAGATGCCACTGAGTCGTGGACTTTAAGAAAAGA
* * * * *
1774108 TGCCATTGAGTTGTGGACTTTGAGAAAAGAGATGCCACTGAGTTGTGGACTTTGAGAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAAAGAGATGCCACTGAGTCGTGGACTTTAAGAAAAGA
* * *
1774170 TGCCACTGAGTCGTGGACTTTGAGAAAAGAGATGCCACTGAGTTGTGGACTTTGAGAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAAAGAGATGCCACTGAGTCGTGGACTTTAAGAAAAGA
* * * * *
1774232 TGCCACTAAGCCGTGGACTTTGAAGAAAAAAAGATGCCACTGAGCCGTGGACTTGGAAGAAAAGG
1 TGCCACTGAGTCGTGGACTTTG-AG-AAAAGAGATGCCACTGAGTCGTGGACTT-TAAGAAAA-G
1774297 A
62 A
* *
1774298 TGCCACTGAGTCATGGAC-TT-AGAAAAGAGATGCCACTGAGTTGTGGACTTTGAAGAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAAAGAGATGCCACTGAGTCGTGGACTTT-AAGAAAAGA
* * *
1774359 TGCCACTAAGTCGTGGACTTTG-G-GAAGAGATGCCACTGAGTCATGGACTTTGAAGAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAAAGAGATGCCACTGAGTCGTGGACTTT-AAGAAAAGA
* * * *
1774420 TGCCACTAAGTCGTGGACTTCGAAGAAAAAAGATGCCACTGAGTCATGGACTTTGAAGAAAAGA
1 TGCCACTGAGTCGTGGACTTTG-AGAAAAGAGATGCCACTGAGTCGTGGACTTT-AAGAAAAGA
* * *
1774484 TGCCACTGAGTCGTGGACTTCGAAGAAAAAAGATGCCACTGAGTCATGGACTTTAAAGAAAAGA
1 TGCCACTGAGTCGTGGACTTTG-AGAAAAGAGATGCCACTGAGTCGTGGACTTT-AAGAAAAGA
* * * ** *
1774548 TGCCACTGAGTCGTGGACTTTGGGAGAA-AGATGCCACTGAGTCATGGACTTTGGGACAAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAAAGAGATGCCACTGAGTCGTGGACTTTAAGAAAAGA
* * *
1774609 TGCCACTAAGTTGTGGACTTTGAAGAAAAAAGATGCCACTGAGTCGTGGAC-TT-AGAAAAGA
1 TGCCACTGAGTCGTGGACTTTG-AGAAAAGAGATGCCACTGAGTCGTGGACTTTAAGAAAAGA
1774670 GATTTGAAGA
Statistics
Matches: 604, Mismatches: 58, Indels: 43
0.86 0.08 0.06
Matches are distributed among these distances:
57 5 0.01
58 16 0.03
59 5 0.01
60 18 0.03
61 108 0.18
62 209 0.35
63 59 0.10
64 160 0.26
65 7 0.01
66 17 0.03
ACGTcount: A:0.33, C:0.15, G:0.28, T:0.23
Consensus pattern (62 bp):
TGCCACTGAGTCGTGGACTTTGAGAAAAGAGATGCCACTGAGTCGTGGACTTTAAGAAAAGA
Found at i:1783028 original size:20 final size:20
Alignment explanation
Indices: 1782975--1783029 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
1782965 AAATTTCCAG
**
1782975 ATGTATCGATACAAAGATCA
1 ATGTATCGATACATTGATCA
1782995 ATGTATCGATACATTGAAT-A
1 ATGTATCGATACATTG-ATCA
1783015 ATGTATCGATACATT
1 ATGTATCGATACATT
1783030 TCCTTGGCAG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.94
21 2 0.06
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACATTGATCA
Found at i:1783114 original size:82 final size:82
Alignment explanation
Indices: 1782995--1783173 Score: 313
Period size: 82 Copynumber: 2.2 Consensus size: 82
1782985 ACAAAGATCA
* *
1782995 ATGTATCGATACATTGAATAATGTATCGATACATTTCCTTGGCAGTAGCTTTTTAGCGATACATT
1 ATGTATCGATACATTGAATAATGTATCGATACATTTCCTTGGCAGTAGCTTTGTAGAGATACATT
*
1783060 GTATCGATACAACTCTT
66 GTATCGATACAACACTT
*
1783077 ATGTATCGATACATTGAATAATGTATCGATATATTTCCTTGGCAGTAGCTTTGTAGAGATACATT
1 ATGTATCGATACATTGAATAATGTATCGATACATTTCCTTGGCAGTAGCTTTGTAGAGATACATT
1783142 GTATCGATACAACACTT
66 GTATCGATACAACACTT
*
1783159 ATGTATTGATACATT
1 ATGTATCGATACATT
1783174 TACTATTTGT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
82 92 1.00
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (82 bp):
ATGTATCGATACATTGAATAATGTATCGATACATTTCCTTGGCAGTAGCTTTGTAGAGATACATT
GTATCGATACAACACTT
Found at i:1784891 original size:41 final size:41
Alignment explanation
Indices: 1784765--1784917 Score: 116
Period size: 42 Copynumber: 3.7 Consensus size: 41
1784755 GCTTATCAGT
* * * *
1784765 TTTGACCTA-GGAGACTTTTTTACCCCTTATTTGCCCATCGAC
1 TTTGA-CTAGGGAGACTTTTTTTCCCTTTATCT-CCCATCGGC
** * * * *
1784807 TTTGACCCGAGAGATTTTTTTTCCCTTTGTC-CGCCAGTTGGC
1 TTTGACTAGGGAGACTTTTTTTCCCTTTATCTC-CCA-TCGGC
1784849 TTTGACTAGGGAGA-TTTTTTTCCCTTTATCTACCCATCGGC
1 TTTGACTAGGGAGACTTTTTTTCCCTTTATCT-CCCATCGGC
* *
1784890 TTTGAATTAGGG-GACTTCTTTTCCCTTT
1 TTTG-ACTAGGGAGACTTTTTTTCCCTTT
1784918 GCCTACCCGG
Statistics
Matches: 87, Mismatches: 17, Indels: 14
0.74 0.14 0.12
Matches are distributed among these distances:
40 1 0.01
41 29 0.33
42 56 0.64
43 1 0.01
ACGTcount: A:0.16, C:0.25, G:0.18, T:0.42
Consensus pattern (41 bp):
TTTGACTAGGGAGACTTTTTTTCCCTTTATCTCCCATCGGC
Found at i:1784988 original size:42 final size:41
Alignment explanation
Indices: 1784929--1785043 Score: 124
Period size: 42 Copynumber: 2.7 Consensus size: 41
1784919 CCTACCCGGT
* *
1784929 TTTGACCCAAGAAACTTCTTTACCCTTTGTTTATCC-ATCAAC
1 TTTGACCC-AGAGACTTCTTTACCCTTTGTTT-GCCAATCAAC
* ***
1784971 TTTGACCCGAGAGACTTCTTTACCTTTTGTTTGCCAATTGGC
1 TTTGACCC-AGAGACTTCTTTACCCTTTGTTTGCCAATCAAC
*
1785013 TTTGACCCAGGAGACTTCTTTTCCCTTTGTT
1 TTTGACCCA-GAGACTTCTTTACCCTTTGTT
1785044 GACCTGAGAG
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
41 3 0.05
42 59 0.95
ACGTcount: A:0.19, C:0.26, G:0.14, T:0.41
Consensus pattern (41 bp):
TTTGACCCAGAGACTTCTTTACCCTTTGTTTGCCAATCAAC
Found at i:1785121 original size:27 final size:28
Alignment explanation
Indices: 1785023--1785125 Score: 154
Period size: 28 Copynumber: 3.7 Consensus size: 28
1785013 TTTGACCCAG
1785023 GAGACTTCTTTTCCCTTTGTTGACCTGA
1 GAGACTTCTTTTCCCTTTGTTGACCTGA
*
1785051 GAGACTTCTTTTCCCTTTGTTGACCCGA
1 GAGACTTCTTTTCCCTTTGTTGACCTGA
* *
1785079 GAGACTTATTTTCCCTTTGTT-ACTTGA
1 GAGACTTCTTTTCCCTTTGTTGACCTGA
* *
1785106 AAGACTTCTTTACCCTTTGT
1 GAGACTTCTTTTCCCTTTGT
1785126 CTACCTATCA
Statistics
Matches: 68, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
27 21 0.31
28 47 0.69
ACGTcount: A:0.17, C:0.24, G:0.16, T:0.44
Consensus pattern (28 bp):
GAGACTTCTTTTCCCTTTGTTGACCTGA
Found at i:1785358 original size:83 final size:84
Alignment explanation
Indices: 1785111--1785359 Score: 263
Period size: 83 Copynumber: 3.0 Consensus size: 84
1785101 CTTGAAAGAC
* * * * * *
1785111 TTCTTTACCCTTTGTCTACCTATCAG-TTTGAACTTGGGAGACTTCTTTACCCTTTGTCTACCTG
1 TTCTTTACCCTTCGTTTGCCCATCAGCTTTG-ACCTGGGAGACTTCTTTACCCTTTGTCTACCTA
* * *
1785175 TCGACTTTGACTCGGGAGAA
65 TCGGCTTTGACCCGAGAGAA
* * * *
1785195 TTCTTTACCCTTTGTTTGCCCATCGGCTTTGACCTGGGAGACTT-TTTTCCCTTTTTCTACCTAT
1 TTCTTTACCCTTCGTTTGCCCATCAGCTTTGACCTGGGAGACTTCTTTACCCTTTGTCTACCTAT
* * *
1785259 CGGCTTTAACCTGAGAGAC
66 CGGCTTTGACCCGAGAGAA
* * * *
1785278 TTCTTTATCCTTCGTTTGCTCGAT-AGCTTTGA-CTGGGAGACTTCTTTACCATTTGTCTACCCA
1 TTCTTTACCCTTCGTTTGC-CCATCAGCTTTGACCTGGGAGACTTCTTTACCCTTTGTCTACCTA
*
1785341 TCGGCTATGACCCGAGAGA
65 TCGGCTTTGACCCGAGAGA
1785360 TTTTTTTCGT
Statistics
Matches: 137, Mismatches: 25, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
82 11 0.08
83 85 0.62
84 37 0.27
85 4 0.03
ACGTcount: A:0.17, C:0.26, G:0.18, T:0.39
Consensus pattern (84 bp):
TTCTTTACCCTTCGTTTGCCCATCAGCTTTGACCTGGGAGACTTCTTTACCCTTTGTCTACCTAT
CGGCTTTGACCCGAGAGAA
Found at i:1785641 original size:42 final size:42
Alignment explanation
Indices: 1785107--1785711 Score: 316
Period size: 42 Copynumber: 14.5 Consensus size: 42
1785097 GTTACTTGAA
* * ** *
1785107 AGACTTCTTTACCCTTTGTCTACCTATCAG-TTTGAACTTGGG
1 AGACTTTTTTACCCTTTGTCTGCCCGTCAGCTTTG-ACCTGGG
* * *
1785149 AGACTTCTTTACCCTTTGTCTACCTGTC-GACTTTGA-CTCGGG
1 AGACTTTTTTACCCTTTGTCTGCCCGTCAG-CTTTGACCT-GGG
* * * * *
1785191 AGAATTCTTTACCCTTTGTTTGCCCATCGGCTTTGACCTGGG
1 AGACTTTTTTACCCTTTGTCTGCCCGTCAGCTTTGACCTGGG
* * ** * * *
1785233 AGACTTTTTT-CCCTTTTTCTACCTATCGGCTTTAACCTGAG
1 AGACTTTTTTACCCTTTGTCTGCCCGTCAGCTTTGACCTGGG
* * * * *
1785274 AGACTTCTTTATCCTTCGTTTGCTCGAT-AGCTTTGA-CTGGG
1 AGACTTTTTTACCCTTTGTCTGCCCG-TCAGCTTTGACCTGGG
* * * * * * * *
1785315 AGACTTCTTTACCATTTGTCTACCCATCGGCTATGACCCGAG
1 AGACTTTTTTACCCTTTGTCTGCCCGTCAGCTTTGACCTGGG
* ** * * ** * **
1785357 AGA-TTTTTTTCGTTTTATCTGTCATTGA-CTTTGACCTAAG
1 AGACTTTTTTACCCTTTGTCTGCCCGTCAGCTTTGACCTGGG
* * *
1785397 AGACTTTTTTACCCTTTGTCTGCCCAT-TGCTCTGACCTGGG
1 AGACTTTTTTACCCTTTGTCTGCCCGTCAGCTTTGACCTGGG
* * * * * * **
1785438 AGACTTTTTCACCAC-TTGTTTGCCCTTCGGCTTTAACCCGAT
1 AGACTTTTTTACC-CTTTGTCTGCCCGTCAGCTTTGACCTGGG
* * * * * *
1785480 AAACTTCTTCACCCCTTGTTTACCCGTCAGCTTT-AGCCTGGG
1 AGACTTTTTTACCCTTTGTCTGCCCGTCAGCTTTGA-CCTGGG
* * * *
1785522 AGACTTTTTTACCCTTTGTCTACCCATCAACTTTGACCTAGG
1 AGACTTTTTTACCCTTTGTCTGCCCGTCAGCTTTGACCTGGG
* * *
1785564 AGACTTGTTTACCTTTTGTCTGCCCGTTAGCTTTGACCTGGG
1 AGACTTTTTTACCCTTTGTCTGCCCGTCAGCTTTGACCTGGG
* * * * *
1785606 AGGCTTTTTTGCCCTTTGTATGCTCGTCAGTTTTGA-CTCGGG
1 AGACTTTTTTACCCTTTGTCTGCCCGTCAGCTTTGACCT-GGG
* * * * * * * *
1785648 GGAATTTTTTACCCTTTTGTTTGCCCATCGGCCTTGACCCGAG
1 AGACTTTTTTACCC-TTTGTCTGCCCGTCAGCTTTGACCTGGG
* *
1785691 AAATTTTTTTACCCTTTGTCT
1 AGACTTTTTTACCCTTTGTCT
1785712 CCCTATCGAC
Statistics
Matches: 425, Mismatches: 119, Indels: 38
0.73 0.20 0.07
Matches are distributed among these distances:
40 13 0.03
41 130 0.31
42 243 0.57
43 38 0.09
44 1 0.00
ACGTcount: A:0.16, C:0.26, G:0.18, T:0.40
Consensus pattern (42 bp):
AGACTTTTTTACCCTTTGTCTGCCCGTCAGCTTTGACCTGGG
Found at i:1786150 original size:13 final size:13
Alignment explanation
Indices: 1786132--1786157 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1786122 TACAGCAAGT
1786132 ATGTATCGATACA
1 ATGTATCGATACA
1786145 ATGTATCGATACA
1 ATGTATCGATACA
1786158 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1787020 original size:42 final size:42
Alignment explanation
Indices: 1786928--1787020 Score: 116
Period size: 42 Copynumber: 2.2 Consensus size: 42
1786918 GGCCCGTTAG
* * * * *
1786928 CTTTGACCCGGGAGACTTCTTTACCTTTTTCCTGCCCATCGA
1 CTTTGACCTGGAAAACTTCTTTACCTTTATCCTACCCATCGA
*
1786970 CTTTGACCTGGAAAACTTCTTTACCCTTTAT-CTACCCGTCGA
1 CTTTGACCTGGAAAACTTCTTTA-CCTTTATCCTACCCATCGA
1787012 CTTTGACCT
1 CTTTGACCT
1787021 AGGAGATTTA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
42 38 0.86
43 6 0.14
ACGTcount: A:0.17, C:0.32, G:0.14, T:0.37
Consensus pattern (42 bp):
CTTTGACCTGGAAAACTTCTTTACCTTTATCCTACCCATCGA
Found at i:1787039 original size:42 final size:42
Alignment explanation
Indices: 1786966--1787047 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
1786956 TTCCTGCCCA
*
1786966 TCGACTTTGACCTGGAAAACTTCTTTACCCTTTATCTACCCG
1 TCGACTTTGACCTGGAAAACTTATTTACCCTTTATCTACCCG
* * * *
1787008 TCGACTTTGACCTAGG-AGATTTATTTTCCCTTTGTCTACC
1 TCGACTTTGACCT-GGAAAACTTATTTACCCTTTATCTACC
1787048 TATCAGCTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 32 0.94
43 2 0.06
ACGTcount: A:0.20, C:0.28, G:0.13, T:0.39
Consensus pattern (42 bp):
TCGACTTTGACCTGGAAAACTTATTTACCCTTTATCTACCCG
Found at i:1787292 original size:21 final size:21
Alignment explanation
Indices: 1787259--1787299 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1787249 CTAAGTAAAA
1787259 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
1787280 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
1787300 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:1787997 original size:34 final size:35
Alignment explanation
Indices: 1787934--1788000 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
1787924 CTAAGTGATT
1787934 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
1787970 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
1788001 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:1791186 original size:13 final size:13
Alignment explanation
Indices: 1791168--1791192 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1791158 TTTTCCAGAT
1791168 TGTATCGATACAA
1 TGTATCGATACAA
1791181 TGTATCGATACA
1 TGTATCGATACA
1791193 TTGCTTCAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1792858 original size:21 final size:21
Alignment explanation
Indices: 1792825--1792865 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1792815 CTAAGTAAAA
1792825 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
1792846 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
1792866 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:1792948 original size:20 final size:20
Alignment explanation
Indices: 1792925--1792998 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
1792915 ACAATTCAAA
1792925 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
1792945 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
1792966 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
1792986 GTATCGATACATG
1 GTATCGATACATG
1792999 AAAAAGATGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:1792969 original size:21 final size:21
Alignment explanation
Indices: 1792943--1793018 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
1792933 ACATGTTGCA
1792943 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
1792964 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
1792984 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
1793005 ATGTATCGATACAT
1 ATGTATCGATACAT
1793019 TTCTTGGCAG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:1792976 original size:41 final size:41
Alignment explanation
Indices: 1792925--1793018 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
1792915 ACAATTCAAA
1792925 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1792966 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1793007 GTATCGATACAT
1 GTATCGATACAT
1793019 TTCTTGGCAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
Found at i:1793075 original size:13 final size:13
Alignment explanation
Indices: 1793057--1793082 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1793047 TACAGCAAGT
1793057 ATGTATCGATACA
1 ATGTATCGATACA
1793070 ATGTATCGATACA
1 ATGTATCGATACA
1793083 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1793604 original size:34 final size:35
Alignment explanation
Indices: 1793541--1793607 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
1793531 CTAAGTGATT
1793541 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
1793577 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
1793608 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:1794359 original size:3 final size:3
Alignment explanation
Indices: 1794316--1794375 Score: 56
Period size: 3 Copynumber: 20.7 Consensus size: 3
1794306 TATTTTAAAA
* *
1794316 AAT AA- AAT AAT ATAT AAT CAT AAT TA- AAT AA- AA- AGAT AAT AAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
1794359 AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AA
1794376 AGCCGAATTT
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
2 6 0.12
3 38 0.79
4 4 0.08
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:1794363 original size:25 final size:26
Alignment explanation
Indices: 1794315--1794364 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
1794305 TTATTTTAAA
*
1794315 AAATAAAATAATATATAATCATAATT
1 AAATAAAATAATATATAATAATAATT
1794341 AAATAAAA-AGATA-ATAATAATAAT
1 AAATAAAATA-ATATATAATAATAAT
1794365 AATAATAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (26 bp):
AAATAAAATAATATATAATAATAATT
Found at i:1798983 original size:26 final size:26
Alignment explanation
Indices: 1798954--1799017 Score: 103
Period size: 26 Copynumber: 2.5 Consensus size: 26
1798944 TTAAAAAAGA
*
1798954 GGTTAGAGTATAC-CTTTAGAAGATGG
1 GGTTTGAGTAT-CGCTTTAGAAGATGG
1798980 GGTTTGAGTATCGCTTTAGAAGATGG
1 GGTTTGAGTATCGCTTTAGAAGATGG
1799006 GGTTTGAGTATC
1 GGTTTGAGTATC
1799018 CTCGATAATA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
25 1 0.03
26 35 0.97
ACGTcount: A:0.25, C:0.08, G:0.33, T:0.34
Consensus pattern (26 bp):
GGTTTGAGTATCGCTTTAGAAGATGG
Found at i:1805255 original size:20 final size:21
Alignment explanation
Indices: 1805230--1805296 Score: 93
Period size: 21 Copynumber: 3.3 Consensus size: 21
1805220 TGTTAACAAC
1805230 CTATG-TCCATGCATTTTGAG
1 CTATGTTCCATGCATTTTGAG
*
1805250 CTATGTTTCATGCATTTTGAG
1 CTATGTTCCATGCATTTTGAG
* *
1805271 CTATGTTTCATGCATTTTTAG
1 CTATGTTCCATGCATTTTGAG
1805292 -TATGT
1 CTATGT
1805297 CCAACACCTC
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
20 10 0.23
21 34 0.77
ACGTcount: A:0.19, C:0.15, G:0.18, T:0.48
Consensus pattern (21 bp):
CTATGTTCCATGCATTTTGAG
Found at i:1805263 original size:21 final size:21
Alignment explanation
Indices: 1805237--1805296 Score: 104
Period size: 21 Copynumber: 2.9 Consensus size: 21
1805227 AACCTATGTC
1805237 CATGCATTTTGAGCTATGTTT
1 CATGCATTTTGAGCTATGTTT
1805258 CATGCATTTTGAGCTATGTTT
1 CATGCATTTTGAGCTATGTTT
*
1805279 CATGCATTTTTAG-TATGT
1 CATGCATTTTGAGCTATGT
1805297 CCAACACCTC
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
20 5 0.13
21 33 0.87
ACGTcount: A:0.20, C:0.13, G:0.18, T:0.48
Consensus pattern (21 bp):
CATGCATTTTGAGCTATGTTT
Found at i:1806569 original size:27 final size:27
Alignment explanation
Indices: 1806539--1806594 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
1806529 ATACCAAATT
**
1806539 TTATTCATCGGAGATACTCCAACCCCA
1 TTATTCAGAGGAGATACTCCAACCCCA
* * *
1806566 TTATTCCGAGGGGATACTCCTACCCCA
1 TTATTCAGAGGAGATACTCCAACCCCA
1806593 TT
1 TT
1806595 TTTTAACATG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.25, C:0.32, G:0.14, T:0.29
Consensus pattern (27 bp):
TTATTCAGAGGAGATACTCCAACCCCA
Found at i:1811543 original size:32 final size:30
Alignment explanation
Indices: 1811507--1811565 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
1811497 AAATCAAAAT
1811507 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
1811539 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
1811566 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:1811849 original size:20 final size:20
Alignment explanation
Indices: 1811824--1811875 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
1811814 TACAAGCCAA
**
1811824 TGTATCGATACAATTTTTTG
1 TGTATCGATACAATACTTTG
1811844 TGTATCGATAC-ATACTTTG
1 TGTATCGATACAATACTTTG
1811863 TGTATCGATACAA
1 TGTATCGATACAA
1811876 GTTTGGCTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.42
Consensus pattern (20 bp):
TGTATCGATACAATACTTTG
Found at i:1813889 original size:21 final size:20
Alignment explanation
Indices: 1813860--1813902 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
1813850 GACGTTTCTG
*
1813860 GGGACTGCCCGGTTGTGACCT
1 GGGACTG-CCGGTCGTGACCT
*
1813881 GGGAGTGCCGGTCGTGACCT
1 GGGACTGCCGGTCGTGACCT
1813901 GG
1 GG
1813903 TGATGCTGCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.09, C:0.26, G:0.44, T:0.21
Consensus pattern (20 bp):
GGGACTGCCGGTCGTGACCT
Found at i:1814348 original size:13 final size:13
Alignment explanation
Indices: 1814330--1814368 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1814320 ATAATCCCCC
*
1814330 TGTATCGATACAG
1 TGTATCGATACAA
1814343 TGTATCGATACAA
1 TGTATCGATACAA
1814356 TGTATCGATACAA
1 TGTATCGATACAA
1814369 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1816681 original size:13 final size:13
Alignment explanation
Indices: 1816663--1816688 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1816653 TACACCAAGT
1816663 ATGTATCGATACA
1 ATGTATCGATACA
1816676 ATGTATCGATACA
1 ATGTATCGATACA
1816689 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1816686 original size:32 final size:33
Alignment explanation
Indices: 1816645--1816708 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
1816635 TAGCCAAACT
* **
1816645 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
1816677 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
1816709 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:1818960 original size:13 final size:13
Alignment explanation
Indices: 1818942--1818967 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1818932 CAATTTTTTG
1818942 TGTATCGATACAT
1 TGTATCGATACAT
1818955 TGTATCGATACAT
1 TGTATCGATACAT
1818968 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1819706 original size:21 final size:21
Alignment explanation
Indices: 1819665--1819708 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
1819655 CTCCCATTTA
* *
1819665 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
1819686 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
1819707 TC
1 TC
1819709 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:1823659 original size:13 final size:13
Alignment explanation
Indices: 1823641--1823666 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1823631 TACACCAAGT
1823641 ATGTATCGATACA
1 ATGTATCGATACA
1823654 ATGTATCGATACA
1 ATGTATCGATACA
1823667 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1823660 original size:32 final size:33
Alignment explanation
Indices: 1823623--1823686 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
1823613 TAGCCAAACT
* **
1823623 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
1823655 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
1823687 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:1828288 original size:32 final size:33
Alignment explanation
Indices: 1828231--1828294 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
1828221 TACAAGCCAA
**
1828231 TGTATCGATACAATTTTTTGTGTATCAATACAT
1 TGTATCGATACAATACTTTGTGTATCAATACAT
*
1828264 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCAATACA
1828295 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCAATACAT
Found at i:1829199 original size:103 final size:103
Alignment explanation
Indices: 1829015--1829223 Score: 400
Period size: 103 Copynumber: 2.0 Consensus size: 103
1829005 CAAAACAAAA
* *
1829015 TGTTTGGATCTTTGTTTTGATATAACAAAGGATTGAATAAAACCGGAAATTATTTTGAAAATACC
1 TGTTAGGATCTTGGTTTTGATATAACAAAGGATTGAATAAAACCGGAAATTATTTTGAAAATACC
1829080 AAAAATATGTTTTATTCAATTAAGTACTTAATAAATTT
66 AAAAATATGTTTTATTCAATTAAGTACTTAATAAATTT
1829118 TGTTAGGATCTTGGTTTTGATATAACAAAGGATTGAATAAAACCGGAAATTATTTTGAAAATACC
1 TGTTAGGATCTTGGTTTTGATATAACAAAGGATTGAATAAAACCGGAAATTATTTTGAAAATACC
1829183 AAAAATATGTTTTATTCAATTAAGTACTTAATAAATTT
66 AAAAATATGTTTTATTCAATTAAGTACTTAATAAATTT
1829221 TGT
1 TGT
1829224 ACCAAATGAT
Statistics
Matches: 104, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
103 104 1.00
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.39
Consensus pattern (103 bp):
TGTTAGGATCTTGGTTTTGATATAACAAAGGATTGAATAAAACCGGAAATTATTTTGAAAATACC
AAAAATATGTTTTATTCAATTAAGTACTTAATAAATTT
Found at i:1829529 original size:13 final size:13
Alignment explanation
Indices: 1829511--1829536 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1829501 TACACAAAAT
1829511 ATGTATCGATACA
1 ATGTATCGATACA
1829524 ATGTATCGATACA
1 ATGTATCGATACA
1829537 CAAAAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1829534 original size:32 final size:33
Alignment explanation
Indices: 1829493--1829557 Score: 105
Period size: 34 Copynumber: 2.0 Consensus size: 33
1829483 TAGCCAAACT
*
1829493 TGTATCGATACAC-AAAATATGTATCGATACAA
1 TGTATCGATACACAAAAATATGTATAGATACAA
1829525 TGTATCGATACACAAAAAATATGTATAGATACA
1 TGTATCGATACAC-AAAAATATGTATAGATACA
1829558 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 13 0.43
34 17 0.57
ACGTcount: A:0.46, C:0.14, G:0.12, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAATATGTATAGATACAA
Found at i:1830601 original size:19 final size:20
Alignment explanation
Indices: 1830577--1830628 Score: 88
Period size: 21 Copynumber: 2.6 Consensus size: 20
1830567 TAGCCAAACT
1830577 TGTATCGATACAC-AAAATA
1 TGTATCGATACACAAAAATA
1830596 TGTATCGATACACAAAAAATA
1 TGTATCGATACAC-AAAAATA
1830617 TGTATCGATACA
1 TGTATCGATACA
1830629 TTGGCTTGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 13 0.42
21 18 0.58
ACGTcount: A:0.46, C:0.15, G:0.12, T:0.27
Consensus pattern (20 bp):
TGTATCGATACACAAAAATA
Found at i:1831684 original size:13 final size:13
Alignment explanation
Indices: 1831666--1831691 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1831656 TACACAAAAT
1831666 ATGTATCGATACA
1 ATGTATCGATACA
1831679 ATGTATCGATACA
1 ATGTATCGATACA
1831692 CAAAAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1831691 original size:32 final size:33
Alignment explanation
Indices: 1831648--1831712 Score: 105
Period size: 34 Copynumber: 2.0 Consensus size: 33
1831638 TAGCCAAACT
1831648 TGTATCAATACAC-AAAATATGTATCGATACAA
1 TGTATCAATACACAAAAATATGTATCGATACAA
*
1831680 TGTATCGATACACAAAAAATATGTATCGATACA
1 TGTATCAATACAC-AAAAATATGTATCGATACA
1831713 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 12 0.40
34 18 0.60
ACGTcount: A:0.46, C:0.15, G:0.11, T:0.28
Consensus pattern (33 bp):
TGTATCAATACACAAAAATATGTATCGATACAA
Found at i:1832765 original size:13 final size:13
Alignment explanation
Indices: 1832747--1832772 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1832737 TACCCAAAAT
1832747 ATGTATCGATACA
1 ATGTATCGATACA
1832760 ATGTATCGATACA
1 ATGTATCGATACA
1832773 CAAAAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1832777 original size:32 final size:33
Alignment explanation
Indices: 1832729--1832793 Score: 96
Period size: 34 Copynumber: 2.0 Consensus size: 33
1832719 TAGCCAAACT
*
1832729 TGTATCAATAC-CCAAAATATGTATCGATACAA
1 TGTATCAATACACAAAAATATGTATCGATACAA
*
1832761 TGTATCGATACACAAAAAATATGTATCGATACA
1 TGTATCAATACAC-AAAAATATGTATCGATACA
1832794 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 10 0.34
33 1 0.03
34 18 0.62
ACGTcount: A:0.45, C:0.17, G:0.11, T:0.28
Consensus pattern (33 bp):
TGTATCAATACACAAAAATATGTATCGATACAA
Found at i:1833829 original size:13 final size:13
Alignment explanation
Indices: 1833811--1833836 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1833801 TACACAAAAT
1833811 ATGTATCGATACA
1 ATGTATCGATACA
1833824 ATGTATCGATACA
1 ATGTATCGATACA
1833837 CAAAAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1833834 original size:32 final size:33
Alignment explanation
Indices: 1833793--1833857 Score: 105
Period size: 34 Copynumber: 2.0 Consensus size: 33
1833783 TAGCCAAACT
*
1833793 TGTATCGATACAC-AAAATATGTATCGATACAA
1 TGTATCGATACACAAAAATATCTATCGATACAA
1833825 TGTATCGATACACAAAAAATATCTATCGATACA
1 TGTATCGATACAC-AAAAATATCTATCGATACA
1833858 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 13 0.43
34 17 0.57
ACGTcount: A:0.45, C:0.17, G:0.11, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAATATCTATCGATACAA
Found at i:1834901 original size:19 final size:19
Alignment explanation
Indices: 1834877--1834941 Score: 70
Period size: 21 Copynumber: 3.6 Consensus size: 19
1834867 TAGCCAAACT
1834877 TGTATCGATACACAAAATA
1 TGTATCGATACACAAAATA
1834896 TGTATCGAT--AC---A-A
1 TGTATCGATACACAAAATA
1834909 TGTATCGATACACAAAAAATA
1 TGTATCGATACAC--AAAATA
1834930 TGTATCGATACA
1 TGTATCGATACA
1834942 TTGGCTTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 10 0.26
14 1 0.03
15 2 0.05
17 2 0.05
19 9 0.24
20 1 0.03
21 13 0.34
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (19 bp):
TGTATCGATACACAAAATA
Found at i:1834913 original size:13 final size:13
Alignment explanation
Indices: 1834895--1834920 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1834885 TACACAAAAT
1834895 ATGTATCGATACA
1 ATGTATCGATACA
1834908 ATGTATCGATACA
1 ATGTATCGATACA
1834921 CAAAAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1834918 original size:32 final size:33
Alignment explanation
Indices: 1834877--1834941 Score: 114
Period size: 34 Copynumber: 2.0 Consensus size: 33
1834867 TAGCCAAACT
1834877 TGTATCGATACAC-AAAATATGTATCGATACAA
1 TGTATCGATACACAAAAATATGTATCGATACAA
1834909 TGTATCGATACACAAAAAATATGTATCGATACA
1 TGTATCGATACAC-AAAAATATGTATCGATACA
1834942 TTGGCTTGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 13 0.42
34 18 0.58
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAATATGTATCGATACAA
Found at i:1835985 original size:19 final size:20
Alignment explanation
Indices: 1835961--1836012 Score: 88
Period size: 21 Copynumber: 2.6 Consensus size: 20
1835951 TAGCCAAACT
1835961 TGTATCGATACAC-AAAATA
1 TGTATCGATACACAAAAATA
1835980 TGTATCGATACACAAAAAATA
1 TGTATCGATACAC-AAAAATA
1836001 TGTATCGATACA
1 TGTATCGATACA
1836013 TTGGCTTGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 13 0.42
21 18 0.58
ACGTcount: A:0.46, C:0.15, G:0.12, T:0.27
Consensus pattern (20 bp):
TGTATCGATACACAAAAATA
Found at i:1837068 original size:13 final size:13
Alignment explanation
Indices: 1837050--1837075 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1837040 TACACAAAAT
1837050 ATGTATCGATACA
1 ATGTATCGATACA
1837063 ATGTATCGATACA
1 ATGTATCGATACA
1837076 CAAAAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1837075 original size:32 final size:33
Alignment explanation
Indices: 1837032--1837096 Score: 105
Period size: 34 Copynumber: 2.0 Consensus size: 33
1837022 TAGCCAAACT
1837032 TGTATCAATACAC-AAAATATGTATCGATACAA
1 TGTATCAATACACAAAAATATGTATCGATACAA
*
1837064 TGTATCGATACACAAAAAATATGTATCGATACA
1 TGTATCAATACAC-AAAAATATGTATCGATACA
1837097 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 12 0.40
34 18 0.60
ACGTcount: A:0.46, C:0.15, G:0.11, T:0.28
Consensus pattern (33 bp):
TGTATCAATACACAAAAATATGTATCGATACAA
Found at i:1838149 original size:13 final size:13
Alignment explanation
Indices: 1838131--1838156 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1838121 TACCCAAAAT
1838131 ATGTATCGATACA
1 ATGTATCGATACA
1838144 ATGTATCGATACA
1 ATGTATCGATACA
1838157 CAAAAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1838161 original size:32 final size:33
Alignment explanation
Indices: 1838113--1838177 Score: 96
Period size: 34 Copynumber: 2.0 Consensus size: 33
1838103 TAGCCAAACT
*
1838113 TGTATCAATAC-CCAAAATATGTATCGATACAA
1 TGTATCAATACACAAAAATATGTATCGATACAA
*
1838145 TGTATCGATACACAAAAAATATGTATCGATACA
1 TGTATCAATACAC-AAAAATATGTATCGATACA
1838178 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 10 0.34
33 1 0.03
34 18 0.62
ACGTcount: A:0.45, C:0.17, G:0.11, T:0.28
Consensus pattern (33 bp):
TGTATCAATACACAAAAATATGTATCGATACAA
Found at i:1839221 original size:19 final size:19
Alignment explanation
Indices: 1839197--1839261 Score: 70
Period size: 21 Copynumber: 3.6 Consensus size: 19
1839187 TAGCCAAACT
1839197 TGTATCGATACACAAAATA
1 TGTATCGATACACAAAATA
1839216 TGTATCGAT--AC---A-A
1 TGTATCGATACACAAAATA
1839229 TGTATCGATACACAAAAAATA
1 TGTATCGATACAC--AAAATA
1839250 TGTATCGATACA
1 TGTATCGATACA
1839262 TTGGCTTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 10 0.26
14 1 0.03
15 2 0.05
17 2 0.05
19 9 0.24
20 1 0.03
21 13 0.34
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (19 bp):
TGTATCGATACACAAAATA
Found at i:1839233 original size:13 final size:13
Alignment explanation
Indices: 1839215--1839240 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1839205 TACACAAAAT
1839215 ATGTATCGATACA
1 ATGTATCGATACA
1839228 ATGTATCGATACA
1 ATGTATCGATACA
1839241 CAAAAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1839238 original size:32 final size:33
Alignment explanation
Indices: 1839197--1839261 Score: 114
Period size: 34 Copynumber: 2.0 Consensus size: 33
1839187 TAGCCAAACT
1839197 TGTATCGATACAC-AAAATATGTATCGATACAA
1 TGTATCGATACACAAAAATATGTATCGATACAA
1839229 TGTATCGATACACAAAAAATATGTATCGATACA
1 TGTATCGATACAC-AAAAATATGTATCGATACA
1839262 TTGGCTTGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 13 0.42
34 18 0.58
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAATATGTATCGATACAA
Found at i:1840317 original size:13 final size:13
Alignment explanation
Indices: 1840299--1840324 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1840289 TACACAAAAT
1840299 ATGTATCGATACA
1 ATGTATCGATACA
1840312 ATGTATCGATACA
1 ATGTATCGATACA
1840325 CAAAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1840322 original size:32 final size:33
Alignment explanation
Indices: 1840281--1840345 Score: 105
Period size: 34 Copynumber: 2.0 Consensus size: 33
1840271 TAGCCAAACT
1840281 TGTATCGATACAC-AAAATATGTATCGATACAA
1 TGTATCGATACACAAAAATATGTATCGATACAA
*
1840313 TGTATCGATACACAAAAAATGTGTATCGATACA
1 TGTATCGATACAC-AAAAATATGTATCGATACA
1840346 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 13 0.43
34 17 0.57
ACGTcount: A:0.43, C:0.15, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAATATGTATCGATACAA
Found at i:1841390 original size:19 final size:19
Alignment explanation
Indices: 1841366--1841430 Score: 70
Period size: 21 Copynumber: 3.6 Consensus size: 19
1841356 TAGCCAAACT
1841366 TGTATCGATACACAAAATA
1 TGTATCGATACACAAAATA
1841385 TGTATCGAT--AC---A-A
1 TGTATCGATACACAAAATA
1841398 TGTATCGATACACAAAAAATA
1 TGTATCGATACAC--AAAATA
1841419 TGTATCGATACA
1 TGTATCGATACA
1841431 TTGGCTTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 10 0.26
14 1 0.03
15 2 0.05
17 2 0.05
19 9 0.24
20 1 0.03
21 13 0.34
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (19 bp):
TGTATCGATACACAAAATA
Found at i:1841402 original size:13 final size:13
Alignment explanation
Indices: 1841384--1841409 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1841374 TACACAAAAT
1841384 ATGTATCGATACA
1 ATGTATCGATACA
1841397 ATGTATCGATACA
1 ATGTATCGATACA
1841410 CAAAAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1841407 original size:32 final size:33
Alignment explanation
Indices: 1841366--1841430 Score: 114
Period size: 34 Copynumber: 2.0 Consensus size: 33
1841356 TAGCCAAACT
1841366 TGTATCGATACAC-AAAATATGTATCGATACAA
1 TGTATCGATACACAAAAATATGTATCGATACAA
1841398 TGTATCGATACACAAAAAATATGTATCGATACA
1 TGTATCGATACAC-AAAAATATGTATCGATACA
1841431 TTGGCTTGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 13 0.42
34 18 0.58
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAATATGTATCGATACAA
Found at i:1842474 original size:19 final size:19
Alignment explanation
Indices: 1842450--1842514 Score: 70
Period size: 21 Copynumber: 3.6 Consensus size: 19
1842440 TAGCCAAACT
1842450 TGTATCGATACACAAAATA
1 TGTATCGATACACAAAATA
1842469 TGTATCGAT--AC---A-A
1 TGTATCGATACACAAAATA
1842482 TGTATCGATACACAAAAAATA
1 TGTATCGATACAC--AAAATA
1842503 TGTATCGATACA
1 TGTATCGATACA
1842515 TTGGCTTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 10 0.26
14 1 0.03
15 2 0.05
17 2 0.05
19 9 0.24
20 1 0.03
21 13 0.34
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (19 bp):
TGTATCGATACACAAAATA
Found at i:1842486 original size:13 final size:13
Alignment explanation
Indices: 1842468--1842493 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1842458 TACACAAAAT
1842468 ATGTATCGATACA
1 ATGTATCGATACA
1842481 ATGTATCGATACA
1 ATGTATCGATACA
1842494 CAAAAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1842491 original size:32 final size:33
Alignment explanation
Indices: 1842450--1842514 Score: 114
Period size: 34 Copynumber: 2.0 Consensus size: 33
1842440 TAGCCAAACT
1842450 TGTATCGATACAC-AAAATATGTATCGATACAA
1 TGTATCGATACACAAAAATATGTATCGATACAA
1842482 TGTATCGATACACAAAAAATATGTATCGATACA
1 TGTATCGATACAC-AAAAATATGTATCGATACA
1842515 TTGGCTTGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 13 0.42
34 18 0.58
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAATATGTATCGATACAA
Found at i:1848488 original size:13 final size:13
Alignment explanation
Indices: 1848470--1848507 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
1848460 CATTTTTCTT
1848470 TGTATCGATACAA
1 TGTATCGATACAA
*
1848483 TGTATCGATACAC
1 TGTATCGATACAA
*
1848496 TGTATTGATACA
1 TGTATCGATACA
1848508 GGGGGATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1848662 original size:20 final size:20
Alignment explanation
Indices: 1848619--1848664 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
1848609 AAATCTTTTG
1848619 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
1848640 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
1848660 CAAAA
1 CAAAA
1848665 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:1851060 original size:19 final size:19
Alignment explanation
Indices: 1851036--1851100 Score: 70
Period size: 21 Copynumber: 3.6 Consensus size: 19
1851026 TAGCCAAACT
1851036 TGTATCGATACACAAAATA
1 TGTATCGATACACAAAATA
1851055 TGTATCGAT--AC---A-A
1 TGTATCGATACACAAAATA
1851068 TGTATCGATACACAAAAAATA
1 TGTATCGATACAC--AAAATA
1851089 TGTATCGATACA
1 TGTATCGATACA
1851101 TTGGCTTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 10 0.26
14 1 0.03
15 2 0.05
17 2 0.05
19 9 0.24
20 1 0.03
21 13 0.34
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (19 bp):
TGTATCGATACACAAAATA
Found at i:1851072 original size:13 final size:13
Alignment explanation
Indices: 1851054--1851079 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1851044 TACACAAAAT
1851054 ATGTATCGATACA
1 ATGTATCGATACA
1851067 ATGTATCGATACA
1 ATGTATCGATACA
1851080 CAAAAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1851077 original size:32 final size:33
Alignment explanation
Indices: 1851036--1851100 Score: 114
Period size: 34 Copynumber: 2.0 Consensus size: 33
1851026 TAGCCAAACT
1851036 TGTATCGATACAC-AAAATATGTATCGATACAA
1 TGTATCGATACACAAAAATATGTATCGATACAA
1851068 TGTATCGATACACAAAAAATATGTATCGATACA
1 TGTATCGATACAC-AAAAATATGTATCGATACA
1851101 TTGGCTTGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 13 0.42
34 18 0.58
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAATATGTATCGATACAA
Found at i:1852148 original size:19 final size:19
Alignment explanation
Indices: 1852120--1852181 Score: 73
Period size: 19 Copynumber: 3.6 Consensus size: 19
1852110 TAGCCAAGCT
1852120 TGTATCGATACCCAAAATA
1 TGTATCGATACCCAAAATA
*
1852139 TGTATTGATA--C---AT-
1 TGTATCGATACCCAAAATA
1852152 TGTATCGATACCCAAAATA
1 TGTATCGATACCCAAAATA
1852171 TGTATCGATAC
1 TGTATCGATAC
1852182 AATGTATCGA
Statistics
Matches: 35, Mismatches: 2, Indels: 12
0.71 0.04 0.24
Matches are distributed among these distances:
13 9 0.26
14 2 0.06
15 1 0.03
17 1 0.03
18 2 0.06
19 20 0.57
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (19 bp):
TGTATCGATACCCAAAATA
Found at i:1852160 original size:32 final size:32
Alignment explanation
Indices: 1852119--1852219 Score: 148
Period size: 32 Copynumber: 3.1 Consensus size: 32
1852109 GTAGCCAAGC
*
1852119 TTGTATCGATACCCAAAATATGTATTGATACA
1 TTGTATCGATACCCAAAATATGTATCGATACA
1852151 TTGTATCGATACCCAAAATATGTATCGATACA
1 TTGTATCGATACCCAAAATATGTATCGATACA
* * *
1852183 ATGTATCGATACACAAAAAATATCTATCGATACA
1 TTGTATCGATAC-C-CAAAATATGTATCGATACA
1852217 TTG
1 TTG
1852220 GCTTGTAACG
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
32 42 0.68
33 1 0.02
34 19 0.31
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.32
Consensus pattern (32 bp):
TTGTATCGATACCCAAAATATGTATCGATACA
Found at i:1856282 original size:15 final size:15
Alignment explanation
Indices: 1856262--1856292 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1856252 TAAAAATGTC
*
1856262 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
1856277 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
1856292 C
1 C
1856293 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:1860939 original size:19 final size:20
Alignment explanation
Indices: 1860915--1860966 Score: 88
Period size: 21 Copynumber: 2.6 Consensus size: 20
1860905 TAGCCAAACT
1860915 TGTATCGATACAC-AAAATA
1 TGTATCGATACACAAAAATA
1860934 TGTATCGATACACAAAAAATA
1 TGTATCGATACAC-AAAAATA
1860955 TGTATCGATACA
1 TGTATCGATACA
1860967 TTGGCTTGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 13 0.42
21 18 0.58
ACGTcount: A:0.46, C:0.15, G:0.12, T:0.27
Consensus pattern (20 bp):
TGTATCGATACACAAAAATA
Found at i:1862768 original size:30 final size:29
Alignment explanation
Indices: 1862734--1862827 Score: 84
Period size: 30 Copynumber: 3.2 Consensus size: 29
1862724 CCATGACTTC
*
1862734 GTGGCACCTTTCCTAAAAGTCCACTACTAA
1 GTGGCA-CTTTCCTAAAAGTCCACAACTAA
* * *
1862764 GTGGCA-TTTCTTCAAAGTCCACAACTCA
1 GTGGCACTTTCCTAAAAGTCCACAACTAA
* **
1862792 GTGGCATCTTTTCTCGAAGTCCACAACTTAA
1 GTGGCA-CTTTCCTAAAAGTCCACAAC-TAA
1862823 -TGGCA
1 GTGGCA
1862828 TTGCTTCAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
28 24 0.45
30 27 0.51
31 2 0.04
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.29
Consensus pattern (29 bp):
GTGGCACTTTCCTAAAAGTCCACAACTAA
Found at i:1862827 original size:58 final size:61
Alignment explanation
Indices: 1862750--1862887 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 61
1862740 CCTTTCCTAA
* * *
1862750 AAGTCCACTACTAAGTGGCATTTCTTCAAAGTCCACAACTCAGTGGCA-TC-TTTTC-TCG
1 AAGTCCACAACTAAGTGGCATTGCTTCAAAGTCCACAACTCAGTGGCATTCTTTTTCTTCC
* *
1862808 AAGTCCACAACTTAA-TGGCATTGCTTCAAATTCCACGACTCAGTGGCATTCTTTTTCTTCC
1 AAGTCCACAAC-TAAGTGGCATTGCTTCAAAGTCCACAACTCAGTGGCATTCTTTTTCTTCC
* *
1862869 AAGTCCACGACTCAGTGGC
1 AAGTCCACAACTAAGTGGC
1862888 GTCTTTTCTC
Statistics
Matches: 68, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
58 40 0.59
59 5 0.07
60 7 0.10
61 16 0.24
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.30
Consensus pattern (61 bp):
AAGTCCACAACTAAGTGGCATTGCTTCAAAGTCCACAACTCAGTGGCATTCTTTTTCTTCC
Found at i:1862875 original size:91 final size:89
Alignment explanation
Indices: 1862770--1863074 Score: 300
Period size: 91 Copynumber: 3.4 Consensus size: 89
1862760 CTAAGTGGCA
* * *
1862770 TTTCTTCAAAGTCCACAACTCAGTGGCATCTTTTCTCGAAGTCCACAACTTAATGGCATTGCTTC
1 TTTCTTCCAAGTCCACGACTCAGTGGCATCTTTTCTC-AAGTCCACGACTTAATGGCATT-CTTC
* * *
1862835 AAATTCCACGACTCAGTGGCATTCTT
64 AAAGTCCACGACTCAATGGCATCCTT
* * * * *
1862861 TTTCTTCCAAGTCCACGACTCAGTGGCGTCTTTTCTCCAAGTCAATGACTCAATGGCAGTTTTTC
1 TTTCTTCCAAGTCCACGACTCAGTGGCATCTTTTCT-CAAGTCCACGACTTAATGGCA-TTCTTC
1862926 AAAGTCCACGACTCAATGGCATCCTT
64 AAAGTCCACGACTCAATGGCATCCTT
* * * *
1862952 TTTCTTCCAAGTCCATGACTCAATGGCATCTTTTC-CTAGTCCACGACTTAGTGGCATCCTTTTT
1 TTTCTTCCAAGTCCACGACTCAGTGGCATCTTTTCTCAAGTCCACGACTTAATGGCA------TT
* * *
1863016 CTTCGAAGTCCATGACTCAGTGGCAT-C--
60 CTTCAAAGTCCACGACTCAATGGCATCCTT
1863043 --TCTTCCAAGTCCACGA-TGCAGTGGCATCTTTT
1 TTTCTTCCAAGTCCACGACT-CAGTGGCATCTTTT
1863075 TTCTTCTAAG
Statistics
Matches: 180, Mismatches: 26, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
88 1 0.01
89 44 0.24
91 107 0.59
92 3 0.02
93 1 0.01
94 24 0.13
ACGTcount: A:0.22, C:0.28, G:0.16, T:0.33
Consensus pattern (89 bp):
TTTCTTCCAAGTCCACGACTCAGTGGCATCTTTTCTCAAGTCCACGACTTAATGGCATTCTTCAA
AGTCCACGACTCAATGGCATCCTT
Found at i:1862881 original size:33 final size:31
Alignment explanation
Indices: 1862750--1863101 Score: 254
Period size: 28 Copynumber: 11.6 Consensus size: 31
1862740 CCTTTCCTAA
* * *
1862750 AAGTCCACTACTAAGTGGCA---TTTCTTCA
1 AAGTCCACGACTCAGTGGCATCTTTTCTTCC
* *
1862778 AAGTCCACAACTCAGTGGCATCTTTTC-TCG
1 AAGTCCACGACTCAGTGGCATCTTTTCTTCC
* * * * *
1862808 AAGTCCACAACTTAATGGCA---TTGCTTCA
1 AAGTCCACGACTCAGTGGCATCTTTTCTTCC
*
1862836 AATTCCACGACTCAGTGGCATTCTTTTTCTTCC
1 AAGTCCACGACTCAGTGGCA-TC-TTTTCTTCC
*
1862869 AAGTCCACGACTCAGTGGCGTCTTTTC-TCC
1 AAGTCCACGACTCAGTGGCATCTTTTCTTCC
* * * * *
1862899 AAGTCAATGACTCAATGGCA--GTTT-TTCA
1 AAGTCCACGACTCAGTGGCATCTTTTCTTCC
*
1862927 AAGTCCACGACTCAATGGCATCCTTTTTCTTCC
1 AAGTCCACGACTCAGTGGCAT-C-TTTTCTTCC
* *
1862960 AAGTCCATGACTCAATGGCATC--TT-TTCC
1 AAGTCCACGACTCAGTGGCATCTTTTCTTCC
* * *
1862988 TAGTCCACGACTTAGTGGCATCCTTTTTCTTCG
1 AAGTCCACGACTCAGTGGCAT-C-TTTTCTTCC
*
1863021 AAGTCCATGACTCAGTGGCATC---TCTTCC
1 AAGTCCACGACTCAGTGGCATCTTTTCTTCC
*
1863049 AAGTCCACGA-TGCAGTGGCATCTTTTTTCTTCT
1 AAGTCCACGACT-CAGTGGCATC--TTTTCTTCC
* *
1863082 AAGTCCACAACTCCGTGGCA
1 AAGTCCACGACTCAGTGGCA
1863102 CCCTTTTAAG
Statistics
Matches: 258, Mismatches: 39, Indels: 49
0.75 0.11 0.14
Matches are distributed among these distances:
27 4 0.02
28 104 0.40
29 3 0.01
30 39 0.15
31 9 0.03
32 9 0.03
33 89 0.34
34 1 0.00
ACGTcount: A:0.23, C:0.28, G:0.16, T:0.32
Consensus pattern (31 bp):
AAGTCCACGACTCAGTGGCATCTTTTCTTCC
Found at i:1863016 original size:152 final size:149
Alignment explanation
Indices: 1862765--1863039 Score: 365
Period size: 152 Copynumber: 1.8 Consensus size: 149
1862755 CACTACTAAG
* * *
1862765 TGGCATTTCTTCAAAGTCCACAACTCAGTGGCATCTTTTCTCGAAGTCCACAACTTAATGGCATT
1 TGGCATTTCTTCAAAGTCCACAACTCAATGGCATCTTTTCTCCAAGTCCACAACTCAATGGCATT
* *
1862830 GCTTCAAATTCCACGACTCAGTGGCATTCTTTTTCTTCCAAGTCCACGACTCAGTGGCGTCTTTT
66 GCTTCAAAGTCCACGACTCAGTGGCATCCTTTTTCTTCCAAGTCCACGACTCAGTGGCGTCTTTT
1862895 CTCCAAGTCAATGACTCAA
131 CTCCAAGTCAATGACTCAA
* **
1862914 TGGCAGTTT-TTCAAAGTCCACGACTCAATGGCATCCTTTTTCTTCCAAGTCCATGACTCAATGG
1 TGGCA-TTTCTTCAAAGTCCACAACTCAATGGCAT-C-TTTTC-TCCAAGTCCACAACTCAATGG
* ** * * *
1862978 CATCT-TTTCCTAGTCCACGACTTAGTGGCATCCTTTTTCTTCGAAGTCCATGACTCAGTGGC
62 CAT-TGCTTCAAAGTCCACGACTCAGTGGCATCCTTTTTCTTCCAAGTCCACGACTCAGTGGC
1863040 ATCTCTTCCA
Statistics
Matches: 107, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
149 28 0.26
150 4 0.04
151 5 0.05
152 69 0.64
153 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.16, T:0.33
Consensus pattern (149 bp):
TGGCATTTCTTCAAAGTCCACAACTCAATGGCATCTTTTCTCCAAGTCCACAACTCAATGGCATT
GCTTCAAAGTCCACGACTCAGTGGCATCCTTTTTCTTCCAAGTCCACGACTCAGTGGCGTCTTTT
CTCCAAGTCAATGACTCAA
Found at i:1863100 original size:61 final size:61
Alignment explanation
Indices: 1862863--1863139 Score: 296
Period size: 61 Copynumber: 4.6 Consensus size: 61
1862853 GCATTCTTTT
* * *
1862863 TCTTCCAAGTCCACGACTCAGTGGCGT-C-TTTTC-TCCAAGTCAATGACTCAATGGCAGT-
1 TCTTCCAAGTCCACGACTCAGTGGCATCCTTTTTCTTCCAAGTCCATGACTCAGTGGCA-TC
* * * *
1862921 TTTTCAAAGTCCACGACTCAATGGCATCCTTTTTCTTCCAAGTCCATGACTCAATGGCATC
1 TCTTCCAAGTCCACGACTCAGTGGCATCCTTTTTCTTCCAAGTCCATGACTCAGTGGCATC
* * * *
1862982 TTTTCCTAGTCCACGACTTAGTGGCATCCTTTTTCTTCGAAGTCCATGACTCAGTGGCATC
1 TCTTCCAAGTCCACGACTCAGTGGCATCCTTTTTCTTCCAAGTCCATGACTCAGTGGCATC
* * ** *
1863043 TCTTCCAAGTCCACGA-TGCAGTGGCATCTTTTTTCTTCTAAGTCCACAACTCCGTGGCA-C
1 TCTTCCAAGTCCACGACT-CAGTGGCATCCTTTTTCTTCCAAGTCCATGACTCAGTGGCATC
* ** ** *
1863103 CCTTTTAAGTCCATAACTTAGTGGCATCCTTTTTCTT
1 TCTTCCAAGTCCACGACTCAGTGGCATCCTTTTTCTT
1863140 TTCAAAGCCC
Statistics
Matches: 187, Mismatches: 26, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
58 23 0.12
59 1 0.01
60 36 0.19
61 127 0.68
ACGTcount: A:0.21, C:0.29, G:0.16, T:0.34
Consensus pattern (61 bp):
TCTTCCAAGTCCACGACTCAGTGGCATCCTTTTTCTTCCAAGTCCATGACTCAGTGGCATC
Found at i:1863120 original size:27 final size:27
Alignment explanation
Indices: 1863081--1863135 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
1863071 TTTTTTCTTC
*
1863081 TAAGTCCACAACTCCGTGGCACCCTTT
1 TAAGTCCACAACTCAGTGGCACCCTTT
* * *
1863108 TAAGTCCATAACTTAGTGGCATCCTTT
1 TAAGTCCACAACTCAGTGGCACCCTTT
1863135 T
1 T
1863136 TCTTTTCAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.24, C:0.29, G:0.15, T:0.33
Consensus pattern (27 bp):
TAAGTCCACAACTCAGTGGCACCCTTT
Found at i:1863127 original size:60 final size:60
Alignment explanation
Indices: 1862770--1863170 Score: 205
Period size: 61 Copynumber: 6.6 Consensus size: 60
1862760 CTAAGTGGCA
*
1862770 TTTCTTCAAAGTCCACAACTCAGTGGCA-TCTTTTCTCGAAGTCCACAACTTAATGGCA-----
1 TTTCTTCAAAGTCCACAACTCAGTGGCACTC-TTT-T--AAGTCCACAACTTAGTGGCATCTTT
* * * * * * *
1862828 TTGCTTCAAATTCCACGACTCAGTGGCATTCTTTTTCTTCCAAGTCCACGACTCAGTGGCGTC--
1 TTTCTTCAAAGTCCACAACTCAGTGGCA--C-TCTT-TT--AAGTCCACAACTTAGTGGCATCTT
1862891 T
60 T
* * ** * * * * * *
1862892 TTTC-TCCAAGTCAATGACTCAATGGCAGT-TTTTCAAAGTCCACGACTCAATGGCATCCTT
1 TTTCTTCAAAGTCCACAACTCAGTGGCACTCTTTT--AAGTCCACAACTTAGTGGCATCTTT
* ** * * * *
1862952 TTTCTTCCAAGTCCATGACTCAATGGCA-TCTTTTCCTAGTCCACGACTTAGTGGCATCCTT
1 TTTCTTCAAAGTCCACAACTCAGTGGCACTCTTTT--AAGTCCACAACTTAGTGGCATCTTT
* ** ** * *
1863013 TTTCTTCGAAGTCCATGACTCAGTGGCATCTCTTCCAAGTCCACGA-TGCAGTGGCATCTTT
1 TTTCTTCAAAGTCCACAACTCAGTGGCA-CTCTTTTAAGTCCACAACT-TAGTGGCATCTTT
* * * *
1863074 TTTCTTCTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCATAACTTAGTGGCATCCTTT
1 TTTCTTCAAAGTCCACAACTCAGTGGCACTCTTTTAAGTCCACAACTTAGTGGCAT-CTTT
* * *
1863135 TTCTTTTCAAAGCCCACAACTCTGTGGCACTCTTTT
1 TT-TCTTCAAAGTCCACAACTCAGTGGCACTCTTTT
1863171 TCCTTTTAAG
Statistics
Matches: 279, Mismatches: 46, Indels: 32
0.78 0.13 0.09
Matches are distributed among these distances:
58 48 0.17
59 2 0.01
60 28 0.10
61 146 0.52
62 30 0.11
63 22 0.08
64 3 0.01
ACGTcount: A:0.22, C:0.29, G:0.15, T:0.34
Consensus pattern (60 bp):
TTTCTTCAAAGTCCACAACTCAGTGGCACTCTTTTAAGTCCACAACTTAGTGGCATCTTT
Found at i:1863162 original size:35 final size:33
Alignment explanation
Indices: 1863103--1863204 Score: 100
Period size: 35 Copynumber: 3.0 Consensus size: 33
1863093 TCCGTGGCAC
* *
1863103 CCTTTTAAGTCCATAACT-TAGTGGCATCCTTTTT
1 CCTTTTAAGCCCACAACTCT-GTGGCA-CCTTTTT
1863137 -CTTTTCAAAGCCCACAACTCTGTGGCACTCTTTTT
1 CCTTTT--AAGCCCACAACTCTGTGGCAC-CTTTTT
* * *
1863172 CCTTTTAAGTCTACAACTCTGTGGCACCCTTTT
1 CCTTTTAAGCCCACAACTCTGTGGCACCTTTTT
1863205 AAGCCCATAC
Statistics
Matches: 58, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
33 10 0.17
34 20 0.34
35 22 0.38
36 6 0.10
ACGTcount: A:0.20, C:0.28, G:0.12, T:0.40
Consensus pattern (33 bp):
CCTTTTAAGCCCACAACTCTGTGGCACCTTTTT
Done.