Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032245.1 Gossypioides kirkii chromosome KI_2_4
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: 41238926
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 6100 characters in sequence are not A, C, G, or T
File 28 of 132
Found at i:7720879 original size:9 final size:9
Alignment explanation
Indices: 7720865--7720891 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
7720855 GAATAAATTT
7720865 TTAATTAAA
1 TTAATTAAA
7720874 TTAATTAAA
1 TTAATTAAA
7720883 TTAATTAAA
1 TTAATTAAA
7720892 ATTTTTAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
TTAATTAAA
Found at i:7720899 original size:18 final size:19
Alignment explanation
Indices: 7720865--7720905 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
7720855 GAATAAATTT
7720865 TTAATTAAATTAATTAAA-
1 TTAATTAAATTAATTAAAC
*
7720883 TTAATTAAAATT-TTTAAAC
1 TTAATT-AAATTAATTAAAC
7720902 TTAA
1 TTAA
7720906 ACCTTAGCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (19 bp):
TTAATTAAATTAATTAAAC
Found at i:7721395 original size:14 final size:14
Alignment explanation
Indices: 7721378--7721408 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
7721368 AGAGTTTAAA
7721378 AAATTTAATTAATT
1 AAATTTAATTAATT
*
7721392 AAATTTATTTAATT
1 AAATTTAATTAATT
7721406 AAA
1 AAA
7721409 GATCTATTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
AAATTTAATTAATT
Found at i:7723678 original size:14 final size:15
Alignment explanation
Indices: 7723659--7723692 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
7723649 GTAACAAAAG
7723659 AAAAAGAGACT-AAT
1 AAAAAGAGACTGAAT
*
7723673 AAAAAGAGATTGAAT
1 AAAAAGAGACTGAAT
7723688 AAAAA
1 AAAAA
7723693 ATAGTTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.68, C:0.03, G:0.15, T:0.15
Consensus pattern (15 bp):
AAAAAGAGACTGAAT
Found at i:7723785 original size:20 final size:21
Alignment explanation
Indices: 7723760--7723806 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
7723750 AATAAACATA
7723760 AAAATAT-TTTTA-AGATTTTT
1 AAAATATGTTTTAGA-ATTTTT
7723780 AAAATATGTTTTAGAATTTTT
1 AAAATATGTTTTAGAATTTTT
*
7723801 AGAATA
1 AAAATA
7723807 ATAATTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 7 0.29
21 16 0.67
22 1 0.04
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.49
Consensus pattern (21 bp):
AAAATATGTTTTAGAATTTTT
Found at i:7724403 original size:55 final size:53
Alignment explanation
Indices: 7724162--7724440 Score: 271
Period size: 54 Copynumber: 5.2 Consensus size: 53
7724152 CGAGATTTTG
* * * * *
7724162 AAAAAAAAATTGTGTTGGCCAATGC-TTGGCCGACACTACCTTTTTGATCAAAT
1 AAAAAAAATTTGTGTTGGCC-ATGCATTGGCCGACACCACATTTTTTATCAGAT
* * * * *
7724215 AAAAAAAATTTGATGTTGGTCGTACATTAGCCGACACCAATATTTTTTATCAGAT
1 AAAAAAAATTTG-TGTTGGCCATGCATTGGCCGACACC-ACATTTTTTATCAGAT
* * * *
7724270 -AAAAAAATTTGGTGTTGGCCAATGC-TTGACCGACACCACCTTTTTAATTAGAT
1 AAAAAAAATTT-GTGTTGGCC-ATGCATTGGCCGACACCACATTTTTTATCAGAT
* *
7724323 AAAAAAAATTTGGTGTTGGCTATGCATTGGCCAACACCATCATTTTTTATCAGAT
1 AAAAAAAATTT-GTGTTGGCCATGCATTGGCCGACACCA-CATTTTTTATCAGAT
* * *
7724378 AAAAAAAATTTAGTGTTGGCCATGCATTGGCTGACACCAC--CTTTTATCGGAT
1 AAAAAAAATTT-GTGTTGGCCATGCATTGGCCGACACCACATTTTTTATCAGAT
*
7724430 AAAAAATATTT
1 AAAAAAAATTT
7724441 TTTTTGGTGT
Statistics
Matches: 186, Mismatches: 32, Indels: 17
0.79 0.14 0.07
Matches are distributed among these distances:
52 20 0.11
53 29 0.16
54 75 0.40
55 62 0.33
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (53 bp):
AAAAAAAATTTGTGTTGGCCATGCATTGGCCGACACCACATTTTTTATCAGAT
Found at i:7724423 original size:108 final size:107
Alignment explanation
Indices: 7724162--7724440 Score: 345
Period size: 108 Copynumber: 2.6 Consensus size: 107
7724152 CGAGATTTTG
* * *
7724162 AAAAAAAAATTGTGTTGGCCAATGCTTGGCCGACACTACCTTTTTGATCAAATAAAAAAAATTTG
1 AAAAAAAATTTGTGTTGGCCAATGCTTGGCCGACACCACCTTTTT-ATCAGATAAAAAAAATTTG
*
7724227 ATGTTGGTCGTACATTAGCCGACACCAATATTTTTTATCAGAT
65 ATGTTGGTCGTACATTAGCCAACACCAATATTTTTTATCAGAT
* *
7724270 -AAAAAAATTTGGTGTTGGCCAATGCTTGACCGACACCACCTTTTTAATTAGATAAAAAAAATTT
1 AAAAAAAATTT-GTGTTGGCCAATGCTTGGCCGACACCACCTTTTT-ATCAGATAAAAAAAATTT
* *
7724334 GGTGTTGG-C-TATGCATTGGCCAACACC-ATCATTTTTTATCAGAT
64 GATGTTGGTCGTA--CATTAGCCAACACCAAT-ATTTTTTATCAGAT
* * *
7724378 AAAAAAAATTTAGTGTTGGCC-ATGCATTGGCTGACACCACC-TTTTATCGGATAAAAAATATTT
1 AAAAAAAATTT-GTGTTGGCCAATGC-TTGGCCGACACCACCTTTTTATCAGATAAAAAAAATTT
7724441 TTTTTGGTGT
Statistics
Matches: 150, Mismatches: 15, Indels: 13
0.84 0.08 0.07
Matches are distributed among these distances:
106 2 0.01
107 27 0.18
108 89 0.59
109 32 0.21
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (107 bp):
AAAAAAAATTTGTGTTGGCCAATGCTTGGCCGACACCACCTTTTTATCAGATAAAAAAAATTTGA
TGTTGGTCGTACATTAGCCAACACCAATATTTTTTATCAGAT
Found at i:7724550 original size:60 final size:58
Alignment explanation
Indices: 7724277--7724600 Score: 271
Period size: 60 Copynumber: 5.7 Consensus size: 58
7724267 GATAAAAAAA
* *
7724277 TTTGGTGTTGGCCAATGC-TTGACCGACACCACCTTTTTAATTAGAT-AAAAA-AAA---
1 TTTGGTGTTGGCC-ATGCATTGACCGACACCA-CTTTTTTATCAGATAAAAAATAAATTT
* * *
7724331 TTTGGTGTTGGCTATGCATTGGCCAACACCATCATTTTTTATCAGAT-AAAAA-AAA---
1 TTTGGTGTTGGCCATGCATTGACCGACACCA-C-TTTTTTATCAGATAAAAAATAAATTT
* * * * * **
7724386 TTTAGTGTTGGCCATGCATTGGCTGACACCAC-CTTTTATCGGATAAAAAATATTTTT
1 TTTGGTGTTGGCCATGCATTGACCGACACCACTTTTTTATCAGATAAAAAATAAATTT
* * *
7724443 TTTGGTGTTGACCAATGC-TTGATCGACACCACCTTTTTATCTA-ATAAAAAAATAAATTT
1 TTTGGTGTTGGCC-ATGCATTGACCGACACCACTTTTTTATC-AGAT-AAAAAATAAATTT
* *
7724502 TTTGGTGTTGGCCATGCATTGACCGACATCATCTTTTTTACCAGATAAAAAAATAAATTT
1 TTTGGTGTTGGCCATGCATTGACCGACACCA-CTTTTTTATCAGAT-AAAAAATAAATTT
* * * *
7724562 TTTGGTGATGGTCATGCATTGGCCGATACCACCTTTTTT
1 TTTGGTGTTGGCCATGCATTGACCGACACCA-CTTTTTT
7724601 TTCTGGTGTT
Statistics
Matches: 222, Mismatches: 34, Indels: 22
0.80 0.12 0.08
Matches are distributed among these distances:
52 10 0.05
53 9 0.04
54 26 0.12
55 46 0.21
57 22 0.10
58 17 0.08
59 35 0.16
60 57 0.26
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (58 bp):
TTTGGTGTTGGCCATGCATTGACCGACACCACTTTTTTATCAGATAAAAAATAAATTT
Found at i:7725570 original size:17 final size:17
Alignment explanation
Indices: 7725550--7725588 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
7725540 ACGAAATTAG
7725550 AAATTAAATTA-AAATAT
1 AAATTAAATTAGAAAT-T
*
7725567 AAATGAAATTAGAAATT
1 AAATTAAATTAGAAATT
7725584 AAATT
1 AAATT
7725589 TAAAAAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (17 bp):
AAATTAAATTAGAAATT
Found at i:7725574 original size:29 final size:30
Alignment explanation
Indices: 7725514--7725600 Score: 140
Period size: 29 Copynumber: 2.9 Consensus size: 30
7725504 AAAAAATAAT
*
7725514 AATTAGAAATGAAATTTAAAATATAAACGA
1 AATTAGAAATTAAATTTAAAATATAAACGA
*
7725544 AATTAGAAATTAAA-TTAAAATATAAATGA
1 AATTAGAAATTAAATTTAAAATATAAACGA
*
7725573 AATTAGAAATTAAATTTAAAAAATAAAC
1 AATTAGAAATTAAATTTAAAATATAAAC
7725601 AAAAAATTTA
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
29 28 0.54
30 24 0.46
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (30 bp):
AATTAGAAATTAAATTTAAAATATAAACGA
Found at i:7726858 original size:18 final size:18
Alignment explanation
Indices: 7726835--7726879 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
7726825 AATATTATTT
7726835 TAAAAAAATTCAAAAATA
1 TAAAAAAATTCAAAAATA
**
7726853 TAAAAAAATTTGAAAATA
1 TAAAAAAATTCAAAAATA
*
7726871 GAAAAAAAT
1 TAAAAAAAT
7726880 ATTTTAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.22
Consensus pattern (18 bp):
TAAAAAAATTCAAAAATA
Found at i:7729585 original size:51 final size:54
Alignment explanation
Indices: 7729506--7729978 Score: 204
Period size: 55 Copynumber: 8.5 Consensus size: 54
7729496 AGAAAGTTGA
*
7729506 TGTCGACCAATGCATGACCAACA-AAAAAAA--ATTATCTA-ATAAAAAATGTGG
1 TGTCGACCAATGCATGGCCAACACAAAAAAATTATTATC-AGATAAAAAATGTGG
*
7729557 TGTCGACCAAT-CATTGGCTAACACAAAAAAATTATTTTTTATCAGATAAAAAATGTGG
1 TGTCGACCAATGCA-TGGCCAACACAAAAAAATTA----TTATCAGATAAAAAATGTGG
* * * * *
7729615 TGTCGACCAATGCATGGCCAACACCAAAAAATTTATTTTTTTATCAAATAAAATAGGTGC
1 TGTCGACCAATGCATGGCCAACA-CAAAAAA---A--TTATTATCAGATAAAAAATGTGG
* * * * **
7729675 TGTCGATCAA-GCATTGGCTAACACCAAAAAAATATTTTTTATCTGAT-AAAAGGGTGG
1 TGTCGACCAATGCA-TGGCCAACA-C-AAAAAA-A-TTATTATCAGATAAAAAATGTGG
* * * * * **
7729732 TGTC-AGCCAATGCATGACCAACACCAAAATATTTTTTATTTA-ATAAAAAGGGTGG
1 TGTCGA-CCAATGCATGGCCAACA-CAAAAAAATTATTA-TCAGATAAAAAATGTGG
* * ** * **
7729787 TG-CTGGCCAATGCATGGCCAACAC-CAAATTTTTTTAT-ATGATAAAAAAACCCTGG
1 TGTC-GACCAATGCATGGCCAACACAAAAAAATTATTATCA-GAT-AAAAAA-TGTGG
* * * * *
7729842 TGTCGACCAATGCATGACCAATACAAAAAAA--A-TATCTGATTAAAAAGGTGG
1 TGTCGACCAATGCATGGCCAACACAAAAAAATTATTATCAGATAAAAAATGTGG
* * * * * *
7729893 AGTCGGCCAA-GTATTGGCCAACACCAAAAAAAATTTTTATCTGATAAAAAATATTGG
1 TGTCGACCAATGCA-TGGCCAACA-C-AAAAAAATTATTATCAGATAAAAAAT-GTGG
** * *
7729950 TGTCGGTCAATGCATGACCAACACCAAAA
1 TGTCGACCAATGCATGGCCAACACAAAAA
7729979 TTTTTTTTAT
Statistics
Matches: 328, Mismatches: 55, Indels: 74
0.72 0.12 0.16
Matches are distributed among these distances:
50 4 0.01
51 37 0.11
52 14 0.04
53 24 0.07
54 16 0.05
55 55 0.17
56 24 0.07
57 43 0.13
58 53 0.16
59 14 0.04
60 35 0.11
61 6 0.02
62 1 0.00
64 2 0.01
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.27
Consensus pattern (54 bp):
TGTCGACCAATGCATGGCCAACACAAAAAAATTATTATCAGATAAAAAATGTGG
Found at i:7729679 original size:118 final size:116
Alignment explanation
Indices: 7729537--7729773 Score: 316
Period size: 118 Copynumber: 2.0 Consensus size: 116
7729527 CAAAAAAAAA
* * * *
7729537 TTATCTAATAAAAAATGTGGTGTCGACCAATCATTGGCTAACA-CAAAAAAATTATTTTTTATCA
1 TTATCAAATAAAAAAGGTGCTGTCGACCAAGCATTGGCTAACACCAAAAAAA-TATTTTTTATCA
* * *
7729601 GATAAAAAATGTGGTGTC-GACCAATGCATGGCCAACACCAAAAAATTTATTTTT
65 GAT-AAAAAGGTGGTGTCAG-CCAATGCATGACCAACACCAAAAAATTT-TTTAT
* * *
7729655 TTATCAAATAAAATAGGTGCTGTCGATCAAGCATTGGCTAACACCAAAAAAATATTTTTTATCTG
1 TTATCAAATAAAAAAGGTGCTGTCGACCAAGCATTGGCTAACACCAAAAAAATATTTTTTATCAG
* *
7729720 ATAAAAGGGTGGTGTCAGCCAATGCATGACCAACACCAAAATATTTTTTAT
66 ATAAAAAGGTGGTGTCAGCCAATGCATGACCAACACCAAAAAATTTTTTAT
7729771 TTA
1 TTA
7729774 ATAAAAAGGG
Statistics
Matches: 105, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
116 7 0.07
117 38 0.36
118 52 0.50
119 8 0.08
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.31
Consensus pattern (116 bp):
TTATCAAATAAAAAAGGTGCTGTCGACCAAGCATTGGCTAACACCAAAAAAATATTTTTTATCAG
ATAAAAAGGTGGTGTCAGCCAATGCATGACCAACACCAAAAAATTTTTTAT
Found at i:7729971 original size:57 final size:57
Alignment explanation
Indices: 7729506--7729978 Score: 282
Period size: 58 Copynumber: 8.5 Consensus size: 57
7729496 AGAAAGTTGA
* *
7729506 TGTCGACCAATGCATGACCAACA--AAAAAAAA---TTATCTAATAAAAAAT-GTGG
1 TGTCGACCAATGCATGGCCAACACCAAAAAAAATTTTTATCTGATAAAAAATAGTGG
* *
7729557 TGTCGACCAAT-CATTGGCTAACA-CAAAAAAATTATTTTTTATCAGATAAAAAAT-GTGG
1 TGTCGACCAATGCA-TGGCCAACACCAAAAAAA--A-TTTTTATCTGATAAAAAATAGTGG
* * * * *
7729615 TGTCGACCAATGCATGGCCAACACCAAAAAATTTATTTTTTTATCA-AATAAAATAGGTGC
1 TGTCGACCAATGCATGGCCAACACCAAAAAA--AATTTTTATCTGATAA-AAAATA-GTGG
* * **
7729675 TGTCGATCAA-GCATTGGCTAACACCAAAAAAATATTTTTTATCTGAT--AAAAGGGTGG
1 TGTCGACCAATGCA-TGGCCAACACCAAAAAAA-A-TTTTTATCTGATAAAAAATAGTGG
* * * * * **
7729732 TGTC-AGCCAATGCATGACCAACACC-AAAATATTTTTTATTTAAT-AAAAAGGGTGG
1 TGTCGA-CCAATGCATGGCCAACACCAAAAAAAATTTTTATCTGATAAAAAATAGTGG
* ** * *
7729787 TG-CTGGCCAATGCATGGCCAACACC---AAATTTTTTTATATGATAAAAAA-ACCCTGG
1 TGTC-GACCAATGCATGGCCAACACCAAAAAAAATTTTTATCTGATAAAAAATA--GTGG
* * * *
7729842 TGTCGACCAATGCATGACCAATA-CAAAAAAAA----TATCTGATTAAAAA-GGTGG
1 TGTCGACCAATGCATGGCCAACACCAAAAAAAATTTTTATCTGATAAAAAATAGTGG
* * * *
7729893 AGTCGGCCAA-GTATTGGCCAACACCAAAAAAAATTTTTATCTGATAAAAAATATTGG
1 TGTCGACCAATGCA-TGGCCAACACCAAAAAAAATTTTTATCTGATAAAAAATAGTGG
** *
7729950 TGTCGGTCAATGCATGACCAACACCAAAA
1 TGTCGACCAATGCATGGCCAACACCAAAA
7729979 TTTTTTTTAT
Statistics
Matches: 327, Mismatches: 56, Indels: 72
0.72 0.12 0.16
Matches are distributed among these distances:
50 4 0.01
51 36 0.11
52 16 0.05
53 25 0.08
54 18 0.06
55 51 0.16
56 20 0.06
57 49 0.15
58 58 0.18
59 14 0.04
60 36 0.11
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.27
Consensus pattern (57 bp):
TGTCGACCAATGCATGGCCAACACCAAAAAAAATTTTTATCTGATAAAAAATAGTGG
Found at i:7731515 original size:20 final size:20
Alignment explanation
Indices: 7731478--7731530 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
7731468 CTCCAGTGAG
*
7731478 ACTTCTACCGGTAAAACTCT
1 ACTTCTACCGATAAAACTCT
* *
7731498 ACTTCTATCGATATAACTAC-
1 ACTTCTACCGATAAAACT-CT
*
7731518 AGTTCTACCGATA
1 ACTTCTACCGATA
7731531 CCTTGAAGAC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 26 0.96
21 1 0.04
ACGTcount: A:0.32, C:0.26, G:0.09, T:0.32
Consensus pattern (20 bp):
ACTTCTACCGATAAAACTCT
Found at i:7731742 original size:20 final size:20
Alignment explanation
Indices: 7731717--7731765 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
7731707 CTACCTTAGG
* *
7731717 ACTTCTACTGGTAAAACTTC
1 ACTTCTACCGATAAAACTTC
*
7731737 ACTTCTACCGATACAACTTC
1 ACTTCTACCGATAAAACTTC
*
7731757 AGTTCTACC
1 ACTTCTACC
7731766 AATACAAGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.33
Consensus pattern (20 bp):
ACTTCTACCGATAAAACTTC
Found at i:7731770 original size:20 final size:20
Alignment explanation
Indices: 7731731--7731785 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
7731721 CTACTGGTAA
*
7731731 AACTTCACTTCTACCGATAC
1 AACTTCACTTCTACCAATAC
*
7731751 AACTTCAGTTCTACCAATAC
1 AACTTCACTTCTACCAATAC
*
7731771 AAGTAT-ACTTCTACC
1 AACT-TCACTTCTACC
7731786 GGAACAAGGA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.33, C:0.31, G:0.05, T:0.31
Consensus pattern (20 bp):
AACTTCACTTCTACCAATAC
Found at i:7737621 original size:9 final size:9
Alignment explanation
Indices: 7737607--7737655 Score: 55
Period size: 9 Copynumber: 5.2 Consensus size: 9
7737597 TATTTCAAAA
7737607 AATAATTTT
1 AATAATTTT
7737616 AATAATTTT
1 AATAATTTT
*
7737625 -ATATTTTT
1 AATAATTTT
7737633 AAAAATAATTTT
1 ---AATAATTTT
7737645 AATAATTTT
1 AATAATTTT
7737654 AA
1 AA
7737656 AATCATTTAC
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
8 7 0.21
9 20 0.59
12 7 0.21
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (9 bp):
AATAATTTT
Found at i:7737639 original size:29 final size:29
Alignment explanation
Indices: 7737580--7737654 Score: 109
Period size: 29 Copynumber: 2.7 Consensus size: 29
7737570 AAAATAATAT
*
7737580 AATAA-TTTAATAATTAT-TATTTCAAAA
1 AATAATTTTAATAATTTTATATTTCAAAA
**
7737607 AATAATTTTAATAATTTTATATTTTTAAA
1 AATAATTTTAATAATTTTATATTTCAAAA
7737636 AATAATTTTAATAATTTTA
1 AATAATTTTAATAATTTTA
7737655 AAATCATTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
27 5 0.12
28 11 0.26
29 27 0.63
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (29 bp):
AATAATTTTAATAATTTTATATTTCAAAA
Found at i:7737641 original size:20 final size:21
Alignment explanation
Indices: 7737616--7737657 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
7737606 AAATAATTTT
*
7737616 AATAATTTT-ATATTTTTAAA
1 AATAATTTTAATAATTTTAAA
7737636 AATAATTTTAATAATTTTAAA
1 AATAATTTTAATAATTTTAAA
7737657 A
1 A
7737658 TCATTTACTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
AATAATTTTAATAATTTTAAA
Found at i:7737658 original size:20 final size:20
Alignment explanation
Indices: 7737607--7737663 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
7737597 TATTTCAAAA
7737607 AATAATTTT--AATAATTTT
1 AATAATTTTAAAATAATTTT
*
7737625 -ATATTTTTAAAAATAATTTT
1 AATAATTTT-AAAATAATTTT
*
7737645 AATAATTTTAAAATCATTT
1 AATAATTTTAAAATAATTT
7737664 ACTGACGAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
17 7 0.22
20 18 0.56
21 7 0.22
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (20 bp):
AATAATTTTAAAATAATTTT
Found at i:7745113 original size:37 final size:37
Alignment explanation
Indices: 7745050--7745138 Score: 101
Period size: 37 Copynumber: 2.4 Consensus size: 37
7745040 TAAATAAATT
*
7745050 AAATAAAAAATATAATATATAATATATAAATTATACA
1 AAATAAAAAATATAATATATAATATATAAAATATACA
* *
7745087 AAATAAAACATTATAA-A-ATAATTATATAAAATATAGA
1 AAATAAAA-AATATAATATATAA-TATATAAAATATACA
*
7745124 ATAGTAAAAAATATA
1 A-AATAAAAAATATA
7745139 TAAATTCCAA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
36 4 0.09
37 28 0.64
38 12 0.27
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (37 bp):
AAATAAAAAATATAATATATAATATATAAAATATACA
Found at i:7755397 original size:13 final size:13
Alignment explanation
Indices: 7755364--7755397 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
7755354 AATAAGTAAT
*
7755364 TTTTCAGAAATCA
1 TTTTCAGAAATAA
7755377 TGTTTCAGAAATAA
1 T-TTTCAGAAATAA
7755391 TTTTCAG
1 TTTTCAG
7755398 TGAAACAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (13 bp):
TTTTCAGAAATAA
Found at i:7769144 original size:20 final size:20
Alignment explanation
Indices: 7769119--7769159 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
7769109 TGGTACGAAA
7769119 TTGTGACGAATTCAATGATT
1 TTGTGACGAATTCAATGATT
7769139 TTGTGACGAATTCAATGATT
1 TTGTGACGAATTCAATGATT
7769159 T
1 T
7769160 AGTTCAAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (20 bp):
TTGTGACGAATTCAATGATT
Found at i:7774029 original size:25 final size:26
Alignment explanation
Indices: 7773981--7774030 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
7773971 ACCAATTTTC
7773981 TCAAAATTTTACTGAGGGTAAAATTA
1 TCAAAATTTTACTGAGGGTAAAATTA
7774007 TCAAAATTTTACT-AGGGTAAAATT
1 TCAAAATTTTACTGAGGGTAAAATT
7774031 GGGATGATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 11 0.46
26 13 0.54
ACGTcount: A:0.42, C:0.08, G:0.14, T:0.36
Consensus pattern (26 bp):
TCAAAATTTTACTGAGGGTAAAATTA
Found at i:7775714 original size:38 final size:37
Alignment explanation
Indices: 7775671--7775743 Score: 101
Period size: 38 Copynumber: 1.9 Consensus size: 37
7775661 GAAATCCAAA
* *
7775671 CAGTAAAGATTCATTGGAAGATAAAAGACGAAGATGGG
1 CAGTAAAGATTCATTGCAA-AGAAAAGACGAAGATGGG
* *
7775709 CAGTAATGATTCTTTGCAAAGAAAAGACGAAGATG
1 CAGTAAAGATTCATTGCAAAGAAAAGACGAAGATG
7775744 AACAGTAATG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 15 0.48
38 16 0.52
ACGTcount: A:0.44, C:0.10, G:0.26, T:0.21
Consensus pattern (37 bp):
CAGTAAAGATTCATTGCAAAGAAAAGACGAAGATGGG
Found at i:7776094 original size:2 final size:2
Alignment explanation
Indices: 7776087--7776121 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
7776077 ATCATTCCTC
7776087 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7776122 ATTTAAAGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7786839 original size:21 final size:20
Alignment explanation
Indices: 7786813--7786871 Score: 93
Period size: 20 Copynumber: 3.0 Consensus size: 20
7786803 ATTTTGATGC
*
7786813 TTTTTTTT-CTGTTTTGGTGT
1 TTTTTTTTACTGTTTTGGT-A
7786833 TTTTTTTTACTGTTTTGGTA
1 TTTTTTTTACTGTTTTGGTA
7786853 TTTTTTTTACTGTTTTGGT
1 TTTTTTTTACTGTTTTGGT
7786872 TTCCGTTTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
20 27 0.73
21 10 0.27
ACGTcount: A:0.05, C:0.05, G:0.17, T:0.73
Consensus pattern (20 bp):
TTTTTTTTACTGTTTTGGTA
Found at i:7786880 original size:20 final size:20
Alignment explanation
Indices: 7786837--7786880 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
7786827 TGGTGTTTTT
**
7786837 TTTTACTGTTTTGGTATTTT
1 TTTTACTGTTTTGGTATTCG
7786857 TTTTACTGTTTTGGT-TTCCG
1 TTTTACTGTTTTGGTATT-CG
7786877 TTTT
1 TTTT
7786881 GATGCTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 2 0.10
20 19 0.90
ACGTcount: A:0.07, C:0.09, G:0.16, T:0.68
Consensus pattern (20 bp):
TTTTACTGTTTTGGTATTCG
Found at i:7786926 original size:12 final size:12
Alignment explanation
Indices: 7786909--7786998 Score: 62
Period size: 12 Copynumber: 7.8 Consensus size: 12
7786899 TTTGGTGTTG
7786909 TTTTGTTGTTAT
1 TTTTGTTGTTAT
*
7786921 TTTTGTTGCTAT
1 TTTTGTTGTTAT
*
7786933 TTTTATTG---T
1 TTTTGTTGTTAT
*
7786942 TTTTGTTGCTA-
1 TTTTGTTGTTAT
**
7786953 TTTTACTGTTAT
1 TTTTGTTGTTAT
** * *
7786965 TTTTACTGCTGT
1 TTTTGTTGTTAT
*
7786977 TTTGGTTGTTAT
1 TTTTGTTGTTAT
7786989 TTTTGTTGTT
1 TTTTGTTGTT
7786999 TGGATGTTAT
Statistics
Matches: 60, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
9 8 0.13
11 8 0.13
12 44 0.73
ACGTcount: A:0.09, C:0.06, G:0.17, T:0.69
Consensus pattern (12 bp):
TTTTGTTGTTAT
Found at i:7786946 original size:21 final size:21
Alignment explanation
Indices: 7786889--7786956 Score: 77
Period size: 21 Copynumber: 3.2 Consensus size: 21
7786879 TTGATGCTTT
7786889 TTTTTATTGTTTTGGTGTTG-T-
1 TTTTTATTGTTTT--TGTTGCTA
* *
7786910 TTTGTTGTTATTTTTGTTGCTA
1 TTT-TTATTGTTTTTGTTGCTA
7786932 TTTTTATTGTTTTTGTTGCTA
1 TTTTTATTGTTTTTGTTGCTA
7786953 TTTT
1 TTTT
7786957 ACTGTTATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
20 5 0.12
21 24 0.60
22 11 0.28
ACGTcount: A:0.07, C:0.03, G:0.18, T:0.72
Consensus pattern (21 bp):
TTTTTATTGTTTTTGTTGCTA
Found at i:7797381 original size:17 final size:17
Alignment explanation
Indices: 7797359--7797397 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
7797349 CTCCACCTTG
*
7797359 ACAAGAATTCTCT-ACGA
1 ACAAGAACTCT-TAACGA
7797376 ACAAGAACTCTTAACGA
1 ACAAGAACTCTTAACGA
7797393 ACAAG
1 ACAAG
7797398 TTCTCCACCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 1 0.05
17 19 0.95
ACGTcount: A:0.46, C:0.23, G:0.13, T:0.18
Consensus pattern (17 bp):
ACAAGAACTCTTAACGA
Found at i:7802356 original size:16 final size:16
Alignment explanation
Indices: 7802324--7802365 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
7802314 GAGAAGGGAG
7802324 AAAAAC-AAAAAGAGA
1 AAAAACGAAAAAGAGA
7802339 AACAAACGAAAAAG-GA
1 AA-AAACGAAAAAGAGA
*
7802355 AAAAAAGAAAA
1 AAAAACGAAAA
7802366 GTTAAAAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 10 0.42
16 8 0.33
17 6 0.25
ACGTcount: A:0.79, C:0.07, G:0.14, T:0.00
Consensus pattern (16 bp):
AAAAACGAAAAAGAGA
Found at i:7814554 original size:120 final size:119
Alignment explanation
Indices: 7814341--7814704 Score: 514
Period size: 120 Copynumber: 3.0 Consensus size: 119
7814331 GCTTCCACAA
* * * * * * * *
7814341 GCTATAATCGAAAATTCCATCCTCATGTTTTTATTAACTCTGTTACCAGTATACGATGCTGCTCA
1 GCTATAATCCAGAATTTCATTCTCATGTCTGTATCAACTCTATTACCAGTATACGATGCTGCTCA
* *
7814406 CACGAGCTGTCGAGGACTCGAAACATATGTGATACCCCAACCATCGATACGATAT
66 CACGAGCTGTCGAGGACTCGCAACATATG-GATACCCCAGCCATCGATACGATAT
* *
7814461 GCTATAATCCAGAATTTCATTCTCATGTCTGTATCAACTCTATTACCAGTATACGATGCCGTTCA
1 GCTATAATCCAGAATTTCATTCTCATGTCTGTATCAACTCTATTACCAGTATACGATGCTGCTCA
* * *
7814526 CACGAGCTATCAAGGACTCGCAACATATGCGGTACCCCAGCCATCGATACGATAT
66 CACGAGCTGTCGAGGACTCGCAACATATG-GATACCCCAGCCATCGATACGATAT
*
7814581 GTTATAATCCAGAATTTCATTCTCATGTCTGTATCAACTCTATTACCAGTATACGATGCTGCTCA
1 GCTATAATCCAGAATTTCATTCTCATGTCTGTATCAACTCTATTACCAGTATACGATGCTGCTCA
* * * *
7814646 CACGAGCTGTCGAGGACTCTCAACATATGCAGTACCTCAGCCATCGATAGGATAT
66 CACGAGCTGTCGAGGACTCGCAACATATGGA-TACCCCAGCCATCGATACGATAT
7814701 -CTAT
1 GCTAT
7814705 GCATATAACT
Statistics
Matches: 216, Mismatches: 27, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
119 3 0.01
120 213 0.99
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (119 bp):
GCTATAATCCAGAATTTCATTCTCATGTCTGTATCAACTCTATTACCAGTATACGATGCTGCTCA
CACGAGCTGTCGAGGACTCGCAACATATGGATACCCCAGCCATCGATACGATAT
Found at i:7820037 original size:23 final size:22
Alignment explanation
Indices: 7820001--7820053 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 22
7819991 ACGTGGCATC
*
7820001 CAGTCAACAACTTCTAGAAGGTT
1 CAGTCAGCAACTTCTAGAAGG-T
*
7820024 CAGTCAGCAGCTTCTAGAAGGT
1 CAGTCAGCAACTTCTAGAAGGT
7820046 CTAGTCAG
1 C-AGTCAG
7820054 TAAGGATGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 2 0.07
23 25 0.93
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (22 bp):
CAGTCAGCAACTTCTAGAAGGT
Found at i:7820137 original size:22 final size:23
Alignment explanation
Indices: 7820112--7820164 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
7820102 TTATCTTTTG
*
7820112 TTTTTAGGATTTA-ATTTAAATA
1 TTTTTAGGAATTATATTTAAATA
* * * *
7820134 TTTTCAAGAATTATATTTTATTA
1 TTTTTAGGAATTATATTTAAATA
7820157 TTTTTAGG
1 TTTTTAGG
7820165 TTATTTTTAG
Statistics
Matches: 23, Mismatches: 7, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
22 10 0.43
23 13 0.57
ACGTcount: A:0.32, C:0.02, G:0.09, T:0.57
Consensus pattern (23 bp):
TTTTTAGGAATTATATTTAAATA
Found at i:7820907 original size:17 final size:17
Alignment explanation
Indices: 7820885--7820918 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
7820875 AGGTTGATAC
7820885 TTAAATTGAGTTTCTTT
1 TTAAATTGAGTTTCTTT
* *
7820902 TTAAATTTATTTTCTTT
1 TTAAATTGAGTTTCTTT
7820919 AAATTCTTAG
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:0.06, G:0.06, T:0.65
Consensus pattern (17 bp):
TTAAATTGAGTTTCTTT
Found at i:7822462 original size:21 final size:23
Alignment explanation
Indices: 7822437--7822484 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
7822427 TCCTGAATAT
7822437 TTTATGTACA-TATTTTCCTT-A
1 TTTATGTACATTATTTTCCTTAA
*
7822458 TTTATGTATATTATTTTCCTTAA
1 TTTATGTACATTATTTTCCTTAA
7822481 TTTA
1 TTTA
7822485 CAAGTTAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 9 0.38
22 10 0.42
23 5 0.21
ACGTcount: A:0.25, C:0.10, G:0.04, T:0.60
Consensus pattern (23 bp):
TTTATGTACATTATTTTCCTTAA
Found at i:7827991 original size:40 final size:40
Alignment explanation
Indices: 7827946--7828103 Score: 154
Period size: 40 Copynumber: 3.9 Consensus size: 40
7827936 GTTTGAAAAT
* * ***
7827946 AAAACGCTGTAAAAGGTAAAGCAATAGCGGCGTTTTTTCA
1 AAAACGCCGCAAAAGGTAAAGCAATAGCGGCGTTTAACCA
* * *
7827986 AAAACGCCACAAAAGGTAAAGCATTAGCAGCGTTTAACCA
1 AAAACGCCGCAAAAGGTAAAGCAATAGCGGCGTTTAACCA
* **
7828026 TAAACGCCGCAAAAGGTAAAGCAATAGCGGCGTTTATAGGA
1 AAAACGCCGCAAAAGGTAAAGCAATAGCGGCGTTTA-ACCA
* * * * *
7828067 AAAACGCCGCTAAATGTTAGAGCATTAGCGGTGTTTA
1 AAAACGCCGC-AAAAGGTAAAGCAATAGCGGCGTTTA
7828104 GGACAAAGCG
Statistics
Matches: 96, Mismatches: 20, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
40 64 0.67
41 11 0.11
42 21 0.22
ACGTcount: A:0.39, C:0.18, G:0.23, T:0.21
Consensus pattern (40 bp):
AAAACGCCGCAAAAGGTAAAGCAATAGCGGCGTTTAACCA
Found at i:7828116 original size:41 final size:40
Alignment explanation
Indices: 7828045--7828430 Score: 448
Period size: 41 Copynumber: 9.4 Consensus size: 40
7828035 CAAAAGGTAA
* * * **
7828045 AGCAATAGCGGCGTTTATAGGAAAAACGCCGCTAAATGTTAG
1 AGCATTAGCGGCGTTTAT--GAAAAGCGCCGCTAAAGGTCGG
* * *
7828087 AGCATTAGCGGTGTTTAGGACAAAGCGCCGCTAAAGGTCTG
1 AGCATTAGCGGCGTTTATGA-AAAGCGCCGCTAAAGGTCGG
* *
7828128 AGCATTAGCGGCGTTTATGAGAAAGCGCTGCTAAAGGTCAG
1 AGCATTAGCGGCGTTTATGA-AAAGCGCCGCTAAAGGTCGG
* * *
7828169 AGCATTAGCGGCGTTTATGATAAAACGCCGCTAAAGATCGA
1 AGCATTAGCGGCGTTTATGA-AAAGCGCCGCTAAAGGTCGG
* * * *
7828210 AGCATTAGCGGCGTTTATAAAGAAGTGCCACTGAAGGTCGG
1 AGCATTAGCGGCGTTTATGAA-AAGCGCCGCTAAAGGTCGG
* *
7828251 AGCATTAGCGGCGTTTATGAAGAAACGCCGCTAAAGGTTGG
1 AGCATTAGCGGCGTTTATGAA-AAGCGCCGCTAAAGGTCGG
* *
7828292 AGCATTAGCGGCGTTTATGAAGAAGCGTCGCTACAGGTCGG
1 AGCATTAGCGGCGTTTATGAA-AAGCGCCGCTAAAGGTCGG
*
7828333 AGCATTAGCGGCGTTTACGAAGAAGCGCCGCTAAAGGTCGG
1 AGCATTAGCGGCGTTTATGAA-AAGCGCCGCTAAAGGTCGG
* * * *
7828374 AGCATTAGCGGCGTTTACGAAAAAGCACCACTAAAGGCCGG
1 AGCATTAGCGGCGTTTATG-AAAAGCGCCGCTAAAGGTCGG
7828415 AGCATTAGCGGCGTTT
1 AGCATTAGCGGCGTTT
7828431 TACAATAAAC
Statistics
Matches: 300, Mismatches: 41, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
40 3 0.01
41 280 0.93
42 17 0.06
ACGTcount: A:0.30, C:0.19, G:0.30, T:0.21
Consensus pattern (40 bp):
AGCATTAGCGGCGTTTATGAAAAGCGCCGCTAAAGGTCGG
Found at i:7828123 original size:82 final size:81
Alignment explanation
Indices: 7827964--7828448 Score: 442
Period size: 82 Copynumber: 5.9 Consensus size: 81
7827954 GTAAAAGGTA
* * * * * * * * *** *
7827964 AAGCAATAGCGGCGTTTTTTCAAAAACGCCACAAAAGGT-AAAGCATTAGCAGCGTTTAACCATA
1 AAGCATTAGCGGCG-TTTATGAAAAGCGCCGCTAAAGGTCAGAGCATTAGCGGCGTTTATGAAGA
* *
7828028 AACGCCGCAAAAGGT-A
65 AACGCCGCTAAAGGTCG
* * * * * *
7828044 AAGCAATAGCGGCGTTTATAGGAAAAACGCCGCTAAATGTTAGAGCATTAGCGGTGTTTAGGACA
1 AAGCATTAGCGGCGTTTAT--GAAAAGCGCCGCTAAAGGTCAGAGCATTAGCGGCGTTTATGA-A
*
7828109 -AAGCGCCGCTAAAGGTCTG
63 GAAACGCCGCTAAAGGTC-G
*
7828128 -AGCATTAGCGGCGTTTATGAGAAAGCGCTGCTAAAGGTCAGAGCATTAGCGGCGTTTATGATA-
1 AAGCATTAGCGGCGTTTATGA-AAAGCGCCGCTAAAGGTCAGAGCATTAGCGGCGTTTATGA-AG
*
7828191 AAACGCCGCTAAAGATCG
64 AAACGCCGCTAAAGGTCG
* * * * *
7828209 AAGCATTAGCGGCGTTTATAAAGAAGTGCCACTGAAGGTCGGAGCATTAGCGGCGTTTATGAAGA
1 AAGCATTAGCGGCGTTTATGAA-AAGCGCCGCTAAAGGTCAGAGCATTAGCGGCGTTTATGAAGA
*
7828274 AACGCCGCTAAAGGTTG
65 AACGCCGCTAAAGGTCG
* * * * *
7828291 GAGCATTAGCGGCGTTTATGAAGAAGCGTCGCTACAGGTCGGAGCATTAGCGGCGTTTACGAAGA
1 AAGCATTAGCGGCGTTTATGAA-AAGCGCCGCTAAAGGTCAGAGCATTAGCGGCGTTTATGAAGA
*
7828356 AGCGCCGCTAAAGGTCG
65 AACGCCGCTAAAGGTCG
* * * * * * * *
7828373 GAGCATTAGCGGCGTTTACGAAAAAGCACCACTAAAGGCCGGAGCATTAGCGGCGTTT-TACAAT
1 AAGCATTAGCGGCGTTTATG-AAAAGCGCCGCTAAAGGTCAGAGCATTAGCGGCGTTTAT-GAAG
7828437 AAACGCCGCTAA
64 AAACGCCGCTAA
7828449 TTTACATTTT
Statistics
Matches: 341, Mismatches: 52, Indels: 22
0.82 0.13 0.05
Matches are distributed among these distances:
79 4 0.01
80 14 0.04
81 20 0.06
82 283 0.83
83 20 0.06
ACGTcount: A:0.32, C:0.20, G:0.28, T:0.20
Consensus pattern (81 bp):
AAGCATTAGCGGCGTTTATGAAAAGCGCCGCTAAAGGTCAGAGCATTAGCGGCGTTTATGAAGAA
ACGCCGCTAAAGGTCG
Found at i:7830169 original size:17 final size:17
Alignment explanation
Indices: 7830134--7830175 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
7830124 GGAAAAAGTA
*
7830134 GTTACAAGAATATGAAAG
1 GTTA-AAGAAGATGAAAG
*
7830152 GTTAAAGAAGATGGAAG
1 GTTAAAGAAGATGAAAG
7830169 GTTAAAG
1 GTTAAAG
7830176 GTTAAGGGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.48, C:0.02, G:0.29, T:0.21
Consensus pattern (17 bp):
GTTAAAGAAGATGAAAG
Found at i:7830175 original size:24 final size:24
Alignment explanation
Indices: 7830148--7830195 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
7830138 CAAGAATATG
7830148 AAAGGTTAAAGAAGATGGAAGGTT
1 AAAGGTTAAAGAAGATGGAAGGTT
* *
7830172 AAAGGTTAAGGGAGATGGAAGGTT
1 AAAGGTTAAAGAAGATGGAAGGTT
7830196 GAACATCCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.21
Consensus pattern (24 bp):
AAAGGTTAAAGAAGATGGAAGGTT
Found at i:7835538 original size:17 final size:17
Alignment explanation
Indices: 7835507--7835548 Score: 66
Period size: 17 Copynumber: 2.4 Consensus size: 17
7835497 GGAAAAAGTA
*
7835507 GTTACAAGAATATGAAAG
1 GTTA-AAGAAGATGAAAG
7835525 GTTAAAGAAGATGAAAG
1 GTTAAAGAAGATGAAAG
7835542 GTTAAAG
1 GTTAAAG
7835549 GTTAAGGGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 19 0.83
18 4 0.17
ACGTcount: A:0.50, C:0.02, G:0.26, T:0.21
Consensus pattern (17 bp):
GTTAAAGAAGATGAAAG
Found at i:7837558 original size:2 final size:2
Alignment explanation
Indices: 7837553--7837578 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7837543 TATATATATA
7837553 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
7837579 AGTTGCAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:7838660 original size:18 final size:18
Alignment explanation
Indices: 7838637--7838704 Score: 68
Period size: 18 Copynumber: 3.7 Consensus size: 18
7838627 TTAATTCAAA
*
7838637 ATATTTAATTGTTTAATT
1 ATATTTAATTATTTAATT
7838655 ATATTTAATTATTTAA-T
1 ATATTTAATTATTTAATT
*
7838672 -TACTTAATTATATTTAATT
1 ATATTTAA-T-TATTTAATT
7838691 AAATATTTAATTAT
1 --ATATTTAATTAT
7838705 AAACAGTATT
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
16 6 0.15
17 2 0.05
18 22 0.54
19 1 0.02
20 3 0.07
21 1 0.02
22 6 0.15
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (18 bp):
ATATTTAATTATTTAATT
Found at i:7838667 original size:8 final size:8
Alignment explanation
Indices: 7838638--7838704 Score: 57
Period size: 8 Copynumber: 8.4 Consensus size: 8
7838628 TAATTCAAAA
7838638 TATTTAAT
1 TATTTAAT
*
7838646 TGTTTAATT
1 TATTTAA-T
7838655 ATATTTAAT
1 -TATTTAAT
7838664 TATTTAAT
1 TATTTAAT
*
7838672 TACTTAAT
1 TATTTAAT
*
7838680 TA--TATT
1 TATTTAAT
* *
7838686 TAATTAAA
1 TATTTAAT
7838694 TATTTAAT
1 TATTTAAT
7838702 TAT
1 TAT
7838705 AAACAGTATT
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
6 5 0.11
8 34 0.72
9 2 0.04
10 6 0.13
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.58
Consensus pattern (8 bp):
TATTTAAT
Found at i:7838667 original size:26 final size:26
Alignment explanation
Indices: 7838638--7838691 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
7838628 TAATTCAAAA
**
7838638 TATTTAATTGTTTAATTATATTTAAT
1 TATTTAATTACTTAATTATATTTAAT
7838664 TATTTAATTACTTAATTATATTTAAT
1 TATTTAATTACTTAATTATATTTAAT
7838690 TA
1 TA
7838692 AATATTTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (26 bp):
TATTTAATTACTTAATTATATTTAAT
Found at i:7838700 original size:22 final size:22
Alignment explanation
Indices: 7838615--7838705 Score: 76
Period size: 22 Copynumber: 4.0 Consensus size: 22
7838605 ACAGTATTAG
*
7838615 TTAATTAAATATTTAATTCA-AA
1 TTAATTAAATATTTAATT-ATAT
* * * *
7838637 ATATTTAATTGTTTAATTATAT
1 TTAATTAAATATTTAATTATAT
*
7838659 TTAATTATTTAATTACTTAATTATAT
1 TTAATTA---AA-TATTTAATTATAT
7838685 TTAATTAAATATTTAATTATA
1 TTAATTAAATATTTAATTATA
7838706 AACAGTATTA
Statistics
Matches: 53, Mismatches: 11, Indels: 10
0.72 0.15 0.14
Matches are distributed among these distances:
21 1 0.02
22 31 0.58
23 2 0.04
25 1 0.02
26 18 0.34
ACGTcount: A:0.43, C:0.02, G:0.01, T:0.54
Consensus pattern (22 bp):
TTAATTAAATATTTAATTATAT
Found at i:7838758 original size:76 final size:76
Alignment explanation
Indices: 7838664--7838833 Score: 277
Period size: 76 Copynumber: 2.2 Consensus size: 76
7838654 TATATTTAAT
*
7838664 TATTTAATTACTTAATTATATTTAATTAAATATTTAATTATAAACAGTATTACTTAATTAAATAT
1 TATTTAATTATTTAATTATATTTAATTAAATATTTAATTATAAACAGTATTACTTAATTAAATAT
*
7838729 TTTACTCAAAA
66 TTAACTCAAAA
* *
7838740 TATTTAATTATTTAATTATATTTAATTAAATATTTAATTATAAACATTATTAGTTAATTAAATAT
1 TATTTAATTATTTAATTATATTTAATTAAATATTTAATTATAAACAGTATTACTTAATTAAATAT
* *
7838805 TTAATTCAAGA
66 TTAACTCAAAA
*
7838816 TATTTAATTCTTTAATTA
1 TATTTAATTATTTAATTA
7838834 GTTATTTATT
Statistics
Matches: 87, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
76 87 1.00
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.50
Consensus pattern (76 bp):
TATTTAATTATTTAATTATATTTAATTAAATATTTAATTATAAACAGTATTACTTAATTAAATAT
TTAACTCAAAA
Found at i:7838802 original size:32 final size:30
Alignment explanation
Indices: 7838737--7838810 Score: 103
Period size: 32 Copynumber: 2.4 Consensus size: 30
7838727 ATTTTACTCA
** *
7838737 AAATATTTAATTATTTAATTATATTTAATT
1 AAATATTTAATTATAAAATTATAGTTAATT
7838767 AAATATTTAATTATAAACATTATTAGTTAATT
1 AAATATTTAATTATAAA-ATTA-TAGTTAATT
7838799 AAATATTTAATT
1 AAATATTTAATT
7838811 CAAGATATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
30 15 0.38
31 4 0.10
32 20 0.51
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (30 bp):
AAATATTTAATTATAAAATTATAGTTAATT
Found at i:7838824 original size:102 final size:102
Alignment explanation
Indices: 7838600--7838810 Score: 298
Period size: 102 Copynumber: 2.0 Consensus size: 102
7838590 TATATATATA
* * *
7838600 TATAAACAGTATTAGTTAATTAAATATTTAATTCAAAATATTTAATTGTTTAATTATATTTAATT
1 TATAAACAGTATTACTTAATTAAATATTTAACTCAAAATATTTAATTATTTAATTATATTTAATT
* *
7838665 ATTTAATTACTTAATTATATTTAATTAAATATTTAAT
66 ATTTAATTACTAAATTATAGTTAATTAAATATTTAAT
*
7838702 TATAAACAGTATTACTTAATTAAATATTTTACTCAAAATATTTAATTATTTAATTATATTTAATT
1 TATAAACAGTATTACTTAATTAAATATTTAACTCAAAATATTTAATTATTTAATTATATTTAA-T
7838767 AAATATTTAATTA-TAAACATTATTAGTTAATTAAATATTTAAT
65 ---TATTTAATTACT-AA-ATTA-TAGTTAATTAAATATTTAAT
7838810 T
1 T
7838811 CAAGATATTT
Statistics
Matches: 96, Mismatches: 6, Indels: 8
0.87 0.05 0.07
Matches are distributed among these distances:
102 59 0.61
103 1 0.01
105 1 0.01
106 11 0.11
107 4 0.04
108 20 0.21
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (102 bp):
TATAAACAGTATTACTTAATTAAATATTTAACTCAAAATATTTAATTATTTAATTATATTTAATT
ATTTAATTACTAAATTATAGTTAATTAAATATTTAAT
Found at i:7838825 original size:14 final size:13
Alignment explanation
Indices: 7838793--7838825 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
7838783 ACATTATTAG
7838793 TTAATT-AAATAT
1 TTAATTCAAATAT
7838805 TTAATTCAAGATAT
1 TTAATTCAA-ATAT
7838819 TTAATTC
1 TTAATTC
7838826 TTTAATTAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.32
13 2 0.11
14 11 0.58
ACGTcount: A:0.42, C:0.06, G:0.03, T:0.48
Consensus pattern (13 bp):
TTAATTCAAATAT
Found at i:7838889 original size:29 final size:28
Alignment explanation
Indices: 7838856--7838938 Score: 91
Period size: 29 Copynumber: 3.0 Consensus size: 28
7838846 TAACAATAGA
7838856 AATATTTAATCCAAAATATTTAATTATTT
1 AATATTTAATCC-AAATATTTAATTATTT
*
7838885 AATATATTCAAT-TAAATATTTAATTA-TT
1 AATAT-TT-AATCCAAATATTTAATTATTT
* *
7838913 AA-AATGAATCCAAATATTTAATTATT
1 AATATTTAATCCAAATATTTAATTATT
7838939 CAATTAGTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
25 3 0.07
26 14 0.30
27 2 0.04
28 4 0.09
29 18 0.39
30 2 0.04
31 3 0.07
ACGTcount: A:0.47, C:0.06, G:0.01, T:0.46
Consensus pattern (28 bp):
AATATTTAATCCAAATATTTAATTATTT
Found at i:7838934 original size:26 final size:29
Alignment explanation
Indices: 7838857--7838938 Score: 91
Period size: 26 Copynumber: 2.9 Consensus size: 29
7838847 AACAATAGAA
*
7838857 ATATTTAATCCAAAATATTTAATTATTTAAT
1 ATATTCAATCC-AAATATTTAATTA-TTAAT
*
7838888 ATATTCAAT-TAAATATTTAATTATTAA-
1 ATATTCAATCCAAATATTTAATTATTAAT
*
7838915 A-A-TGAATCCAAATATTTAATTATT
1 ATATTCAATCCAAATATTTAATTATT
7838939 CAATTAGTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
25 4 0.09
26 16 0.35
27 1 0.02
28 4 0.09
29 13 0.28
31 8 0.17
ACGTcount: A:0.46, C:0.06, G:0.01, T:0.46
Consensus pattern (29 bp):
ATATTCAATCCAAATATTTAATTATTAAT
Found at i:7838992 original size:18 final size:18
Alignment explanation
Indices: 7838969--7839005 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
7838959 AATAACCCAA
* *
7838969 ATATTTAATTGTTTAATT
1 ATATTTAAATATTTAATT
7838987 ATATTTAAATATTTAATT
1 ATATTTAAATATTTAATT
7839005 A
1 A
7839006 CTTAATTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (18 bp):
ATATTTAAATATTTAATT
Found at i:7838998 original size:26 final size:26
Alignment explanation
Indices: 7838967--7839020 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
7838957 AAAATAACCC
**
7838967 AAATATTTAATTGTTTAATTATATTT
1 AAATATTTAATTACTTAATTATATTT
7838993 AAATATTTAATTACTTAATTATATTT
1 AAATATTTAATTACTTAATTATATTT
7839019 AA
1 AA
7839021 TTAAATATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (26 bp):
AAATATTTAATTACTTAATTATATTT
Found at i:7839061 original size:44 final size:42
Alignment explanation
Indices: 7839013--7839111 Score: 110
Period size: 44 Copynumber: 2.3 Consensus size: 42
7839003 TTACTTAATT
7839013 ATATTTAATTAAATATTTAATTA-TAAACCGTATTAGTTAATTAA
1 ATATTTAATTAAATATTTAATTATTAAA--GTA-TAGTTAATTAA
* * * *
7839057 ATATTTTATTCAAAATATTTAATTATTTAATTATATTTAATTAA
1 ATATTTAATT--AAATATTTAATTATTAAAGTATAGTTAATTAA
7839101 ATATTTAATTA
1 ATATTTAATTA
7839112 TAAATATTAT
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
42 1 0.02
44 28 0.60
45 2 0.04
46 13 0.28
47 3 0.06
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (42 bp):
ATATTTAATTAAATATTTAATTATTAAAGTATAGTTAATTAA
Found at i:7839073 original size:76 final size:76
Alignment explanation
Indices: 7838993--7839165 Score: 283
Period size: 76 Copynumber: 2.3 Consensus size: 76
7838983 AATTATATTT
* *
7838993 AAATATTTAATTACTTAATTATATTTAATTAAATATTTAATTATAAACCGTATTAGTTAATTAAA
1 AAATATTTAATTATTTAATTATATTTAATTAAATATTTAATTATAAACAGTATTAGTTAATTAAA
*
7839058 TATTTTATTCA
66 TATTTAATTCA
* *
7839069 AAATATTTAATTATTTAATTATATTTAATTAAATATTTAATTATAAATATTATTAGTTAATTAAA
1 AAATATTTAATTATTTAATTATATTTAATTAAATATTTAATTATAAACAGTATTAGTTAATTAAA
*
7839134 TATTTAATTTA
66 TATTTAATTCA
*
7839145 AGATATTTAATTATTTAATTA
1 AAATATTTAATTATTTAATTA
7839166 GTTAATTATT
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
76 90 1.00
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (76 bp):
AAATATTTAATTATTTAATTATATTTAATTAAATATTTAATTATAAACAGTATTAGTTAATTAAA
TATTTAATTCA
Found at i:7839085 original size:8 final size:8
Alignment explanation
Indices: 7839072--7839175 Score: 58
Period size: 8 Copynumber: 13.5 Consensus size: 8
7839062 TTATTCAAAA
7839072 TATTTAAT
1 TATTTAAT
7839080 TATTTAAT
1 TATTTAAT
*
7839088 TA--TATT
1 TATTTAAT
* *
7839094 TAATTAAA
1 TATTTAAT
7839102 TATTTAAT
1 TATTTAAT
*
7839110 TA--TAAA
1 TATTTAAT
7839116 TA-TT-AT
1 TATTTAAT
*
7839122 TAGTTAAT
1 TATTTAAT
** *
7839130 TAAATATT
1 TATTTAAT
*
7839138 TAATTTAAGA
1 T-ATTTAA-T
7839148 TATTTAAT
1 TATTTAAT
7839156 TATTTAAT
1 TATTTAAT
*
7839164 TAGTTAAT
1 TATTTAAT
7839172 TATT
1 TATT
7839176 AAAAACAATC
Statistics
Matches: 72, Mismatches: 17, Indels: 14
0.70 0.17 0.14
Matches are distributed among these distances:
6 13 0.18
7 3 0.04
8 46 0.64
9 9 0.12
10 1 0.01
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (8 bp):
TATTTAAT
Found at i:7839100 original size:22 final size:22
Alignment explanation
Indices: 7839049--7839165 Score: 73
Period size: 22 Copynumber: 5.3 Consensus size: 22
7839039 ACCGTATTAG
* *
7839049 TTAATTAAATATTTTATTCA-AA
1 TTAATTAAATATTTAATT-ATAT
* * *
7839071 ATATTTAATTATTTAATTATAT
1 TTAATTAAATATTTAATTATAT
*
7839093 TTAATTAAATATTTAATTATAA
1 TTAATTAAATATTTAATTATAT
* * *
7839115 AT-ATT-ATTAGTTAATTAAATAT
1 TTAATTAAATATTTAATT--ATAT
7839137 TTAATTTAAGATATTTAA-T-TAT
1 TTAA-TTAA-ATATTTAATTATAT
7839159 TTAATTA
1 TTAATTA
7839166 GTTAATTATT
Statistics
Matches: 72, Mismatches: 16, Indels: 15
0.70 0.16 0.15
Matches are distributed among these distances:
20 9 0.12
21 7 0.10
22 45 0.62
23 1 0.01
24 2 0.03
25 2 0.03
26 6 0.08
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (22 bp):
TTAATTAAATATTTAATTATAT
Found at i:7839137 original size:44 final size:44
Alignment explanation
Indices: 7839049--7839158 Score: 136
Period size: 44 Copynumber: 2.5 Consensus size: 44
7839039 ACCGTATTAG
* *
7839049 TTAATTAAATATTTTATTCA-AAATATTTAATTATTTAATTATAT
1 TTAATTAAATATTTAATT-ATAAATATTTAATTAGTTAATTATAT
7839093 TTAATTAAATATTTAATTATAAATA-TT-ATTAGTTAATTAAATAT
1 TTAATTAAATATTTAATTATAAATATTTAATTAGTTAATT--ATAT
7839137 TTAATTTAAGATATTTAATTAT
1 TTAA-TTAA-ATATTTAATTAT
7839159 TTAATTAGTT
Statistics
Matches: 59, Mismatches: 2, Indels: 8
0.86 0.03 0.12
Matches are distributed among these distances:
42 10 0.17
43 3 0.05
44 30 0.51
45 4 0.07
46 12 0.20
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.53
Consensus pattern (44 bp):
TTAATTAAATATTTAATTATAAATATTTAATTAGTTAATTATAT
Found at i:7839197 original size:56 final size:57
Alignment explanation
Indices: 7839131--7839276 Score: 213
Period size: 56 Copynumber: 2.6 Consensus size: 57
7839121 TTAGTTAATT
* * *
7839131 AAATATTTAATTTAAGATATTTAATTATTTAATTAGTTAATTATTAAAAACAA-TCC
1 AAATATTTAATTCAAAATATTTAATTATTTAATTAGTTAATTATTAAAAACAATTCA
* * * *
7839187 AAATTTTTAATTCAAAATATTTAATTATTTAATTAGTTATTTATTAATAACAATTGA
1 AAATATTTAATTCAAAATATTTAATTATTTAATTAGTTAATTATTAAAAACAATTCA
*
7839244 AAATATTTAATCCAAAATATTTAATTATTTAAT
1 AAATATTTAATTCAAAATATTTAATTATTTAAT
7839277 ATATTCAATT
Statistics
Matches: 80, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
56 48 0.60
57 32 0.40
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.47
Consensus pattern (57 bp):
AAATATTTAATTCAAAATATTTAATTATTTAATTAGTTAATTATTAAAAACAATTCA
Found at i:7839321 original size:243 final size:244
Alignment explanation
Indices: 7839069--7839576 Score: 885
Period size: 243 Copynumber: 2.1 Consensus size: 244
7839059 ATTTTATTCA
*
7839069 AAATATTTAATTATTTAATTATATTTAATTAAATATTTAATTATAAATATTATTAGTTAATTAAA
1 AAATATTTAATTATTTAATTATATTTAATTAAATATTTAATTATAAACATTATTAGTTAATTAAA
* * * *
7839134 TATTTAATTTAAGATATTTAATTATTTAATTAGTTAATTATTAAAAACAATC-CAAATTTTTAAT
66 TATTTAATTCAAAATATTTAATTATTTAATTAGTTAATTATTAAAAA-AAGCTCAAATCTTTAAT
* *
7839198 TCAAAATATTTAATTATTTAATTAGTTATTTATTAATAACAATTGAAAATATTTAATCCAAAATA
130 TCAAAATATTTAATTATTTAATTAGCTATTTATTAATAACAATCGAAAATATTTAATCCAAAATA
* *
7839263 TTTAATTATTTAATATATTCAATT-AATATTTAATTATTTAAATGAACCC
195 TTTAATTATTTAATATATTCAATTAAATATTTAATTATTAAAATAAACCC
*
7839312 AAATATTTAATTATTTAATTATATTTAATTAAATATTTAATTATAAACCTTATTAGTTAATTAAA
1 AAATATTTAATTATTTAATTATATTTAATTAAATATTTAATTATAAACATTATTAGTTAATTAAA
*
7839377 TATTTAATTCAAAATATTTAATTATTTAATTAGTTAATTATTAAAAATAGCTCAAATCTTTAATT
66 TATTTAATTCAAAATATTTAATTATTTAATTAGTTAATTATTAAAAAAAGCTCAAATCTTTAATT
7839442 CAAAATATTTAATTATTTAATTAGCTATTTATTAATAACAATCGAAAATATTTAATCCAAAATAT
131 CAAAATATTTAATTATTTAATTAGCTATTTATTAATAACAATCGAAAATATTTAATCCAAAATAT
*
7839507 TTAATTATTTAATATATTCAATTAAATATTTAATTATTAAAATAAACTC
196 TTAATTATTTAATATATTCAATTAAATATTTAATTATTAAAATAAACCC
7839556 AAATATTTAATTATTTAATTA
1 AAATATTTAATTATTTAATTA
7839577 GTGCATATAA
Statistics
Matches: 251, Mismatches: 12, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
242 2 0.01
243 206 0.82
244 43 0.17
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.47
Consensus pattern (244 bp):
AAATATTTAATTATTTAATTATATTTAATTAAATATTTAATTATAAACATTATTAGTTAATTAAA
TATTTAATTCAAAATATTTAATTATTTAATTAGTTAATTATTAAAAAAAGCTCAAATCTTTAATT
CAAAATATTTAATTATTTAATTAGCTATTTATTAATAACAATCGAAAATATTTAATCCAAAATAT
TTAATTATTTAATATATTCAATTAAATATTTAATTATTAAAATAAACCC
Found at i:7839328 original size:8 final size:8
Alignment explanation
Indices: 7839315--7839418 Score: 51
Period size: 8 Copynumber: 13.5 Consensus size: 8
7839305 TGAACCCAAA
7839315 TATTTAAT
1 TATTTAAT
7839323 TATTTAAT
1 TATTTAAT
*
7839331 TA--TATT
1 TATTTAAT
* *
7839337 TAATTAAA
1 TATTTAAT
7839345 TATTTAAT
1 TATTTAAT
*
7839353 TA-TAAACCT
1 TATTTAA--T
*
7839362 TA-TTAGT
1 TATTTAAT
* *
7839369 TAATTAAA
1 TATTTAAT
7839377 TATTTAAT
1 TATTTAAT
*
7839385 TCA---AAA
1 T-ATTTAAT
7839391 TATTTAAT
1 TATTTAAT
7839399 TATTTAAT
1 TATTTAAT
*
7839407 TAGTTAAT
1 TATTTAAT
7839415 TATT
1 TATT
7839419 AAAAATAGCT
Statistics
Matches: 71, Mismatches: 16, Indels: 18
0.68 0.15 0.17
Matches are distributed among these distances:
5 1 0.01
6 8 0.11
7 6 0.08
8 50 0.70
9 6 0.08
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (8 bp):
TATTTAAT
Found at i:7839445 original size:56 final size:57
Alignment explanation
Indices: 7839374--7839519 Score: 206
Period size: 56 Copynumber: 2.6 Consensus size: 57
7839364 TTAGTTAATT
* **
7839374 AAATATTTAATTCAAAATATTTAATTATTTAATTAGTTAATTATTAA-AA-ATAGCTC
1 AAATATTTAATTCAAAATATTTAATTATTTAATTAGCTAATTATTAATAACA-AGCGA
* * *
7839430 AAATCTTTAATTCAAAATATTTAATTATTTAATTAGCTATTTATTAATAACAATCGA
1 AAATATTTAATTCAAAATATTTAATTATTTAATTAGCTAATTATTAATAACAAGCGA
*
7839487 AAATATTTAATCCAAAATATTTAATTATTTAAT
1 AAATATTTAATTCAAAATATTTAATTATTTAAT
7839520 ATATTCAATT
Statistics
Matches: 80, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
56 44 0.55
57 35 0.44
58 1 0.01
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.45
Consensus pattern (57 bp):
AAATATTTAATTCAAAATATTTAATTATTTAATTAGCTAATTATTAATAACAAGCGA
Found at i:7839503 original size:14 final size:14
Alignment explanation
Indices: 7839481--7839511 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
7839471 TATTAATAAC
*
7839481 AATCGAAAATATTT
1 AATCCAAAATATTT
7839495 AATCCAAAATATTT
1 AATCCAAAATATTT
7839509 AAT
1 AAT
7839512 TATTTAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.52, C:0.10, G:0.03, T:0.35
Consensus pattern (14 bp):
AATCCAAAATATTT
Found at i:7845601 original size:42 final size:43
Alignment explanation
Indices: 7845520--7845831 Score: 394
Period size: 43 Copynumber: 7.3 Consensus size: 43
7845510 ATCTGTTAAT
* * * * *
7845520 TTTAGCGACATTTGTGAGAAAAGCGCCGCTAAAAACCATGTTC
1 TTTAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGACCATGTTC
*
7845563 TTTAGCGGCGTTTGTGGGAGAAGC-ACGCTAAAGACCATGTTC
1 TTTAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGACCATGTTC
* * * *
7845605 TTTAGCGGCATTTGTGGGAGAAACGTCGCGAAAGACCATGTTC
1 TTTAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGACCATGTTC
* * * * *
7845648 TTTATCGGCGGTTGTGGTAGAAGCGCCGCGAAAGACCATATTC
1 TTTAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGACCATGTTC
*
7845691 TTTAGCGGCGTTTGTGGGAGAAGCGCCACTAAAGACCATGTTC
1 TTTAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGACCATGTTC
* * * *
7845734 TTTAGTGGGGTTTGTGGGAAAAGCACCGCTAAAGACCATGTTC
1 TTTAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGACCATGTTC
* * *
7845777 TTTAACGGCGTTTAT-GGAAAAGCGCCGCTAAAGACCATGTTC
1 TTTAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGACCATGTTC
*
7845819 TGTAGCGGCGTTT
1 TTTAGCGGCGTTT
7845832 TTCCTCATAA
Statistics
Matches: 233, Mismatches: 35, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
42 75 0.32
43 158 0.68
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.27
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGACCATGTTC
Found at i:7845826 original size:128 final size:127
Alignment explanation
Indices: 7845537--7845831 Score: 412
Period size: 128 Copynumber: 2.3 Consensus size: 127
7845527 ACATTTGTGA
* *
7845537 GAAAAGCGCCGCTAAAAACCATGTTCTTTAGCGGCGTTTGTGGGAGAAGCACGCTAAAGACCATG
1 GAAAAGCGCCGCTAAAGACCATGTTCTTTAGCGGCGTTTGTGGGAGAAGCACACTAAAGACCATG
** * *
7845602 TTCTTTAGCGGCATTTGTGGGAGAAACGTCGCGAAAGACCATGTTCTTTATCGGCGGTTGTG
66 TTCTTTAGCGGCATTTGTGGGAGAAACACCGCGAAAGACCATGTTCTTTAACGGCGGTTATG
* * * *
7845664 GTAGAAGCGCCGCGAAAGACCATATTCTTTAGCGGCGTTTGTGGGAGAAGCGCCACTAAAGACCA
1 G-AAAAGCGCCGCTAAAGACCATGTTCTTTAGCGGCGTTTGTGGGAGAAGC-ACACTAAAGACCA
* ** * *
7845729 TGTTCTTTAGTGGGGTTTGTGGGA-AAAGCACCGCTAAAGACCATGTTCTTTAACGGCGTTTATG
64 TGTTCTTTAGCGGCATTTGTGGGAGAAA-CACCGCGAAAGACCATGTTCTTTAACGGCGGTTATG
*
7845793 GAAAAGCGCCGCTAAAGACCATGTTCTGTAGCGGCGTTT
1 GAAAAGCGCCGCTAAAGACCATGTTCTTTAGCGGCGTTT
7845832 TTCCTCATAA
Statistics
Matches: 146, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
127 1 0.01
128 82 0.56
129 63 0.43
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (127 bp):
GAAAAGCGCCGCTAAAGACCATGTTCTTTAGCGGCGTTTGTGGGAGAAGCACACTAAAGACCATG
TTCTTTAGCGGCATTTGTGGGAGAAACACCGCGAAAGACCATGTTCTTTAACGGCGGTTATG
Found at i:7849858 original size:7 final size:7
Alignment explanation
Indices: 7849846--7849904 Score: 57
Period size: 7 Copynumber: 8.6 Consensus size: 7
7849836 ACCCGACACA
7849846 TTGACCG
1 TTGACCG
7849853 TTGACCG
1 TTGACCG
***
7849860 TTGATAA
1 TTGACCG
*
7849867 TTGAACG
1 TTGACCG
7849874 TTGACCG
1 TTGACCG
*
7849881 TTAACCG
1 TTGACCG
*
7849888 TTGA-CT
1 TTGACCG
7849894 TTGACCG
1 TTGACCG
7849901 TTGA
1 TTGA
7849905 ATTTTTCCAA
Statistics
Matches: 40, Mismatches: 11, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
6 5 0.12
7 35 0.88
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.34
Consensus pattern (7 bp):
TTGACCG
Found at i:7853996 original size:14 final size:14
Alignment explanation
Indices: 7853977--7854010 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
7853967 TATATTAGTT
7853977 AATAATAATAATTA
1 AATAATAATAATTA
*
7853991 AATAATACTAATTA
1 AATAATAATAATTA
7854005 AATAAT
1 AATAAT
7854011 TATTTATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (14 bp):
AATAATAATAATTA
Found at i:7859309 original size:24 final size:24
Alignment explanation
Indices: 7859280--7859342 Score: 99
Period size: 24 Copynumber: 2.6 Consensus size: 24
7859270 CCCAAACCCA
* *
7859280 ACCCGACCTGTTGACTGACCGTTG
1 ACCCGACCCGTTGACTAACCGTTG
*
7859304 ACCCGACCCATTGACTAACCGTTG
1 ACCCGACCCGTTGACTAACCGTTG
7859328 ACCCGACCCGTTGAC
1 ACCCGACCCGTTGAC
7859343 CGTTAATTGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.21, C:0.38, G:0.21, T:0.21
Consensus pattern (24 bp):
ACCCGACCCGTTGACTAACCGTTG
Found at i:7859340 original size:13 final size:13
Alignment explanation
Indices: 7859280--7859343 Score: 55
Period size: 13 Copynumber: 5.2 Consensus size: 13
7859270 CCCAAACCCA
*
7859280 ACCCGACCTGTTG
1 ACCCGACCCGTTG
*
7859293 A-CTGA-CCGTTG
1 ACCCGACCCGTTG
*
7859304 ACCCGACCCATTG
1 ACCCGACCCGTTG
* *
7859317 A--CTAACCGTTG
1 ACCCGACCCGTTG
7859328 ACCCGACCCGTTG
1 ACCCGACCCGTTG
7859341 ACC
1 ACC
7859344 GTTAATTGTT
Statistics
Matches: 38, Mismatches: 9, Indels: 8
0.69 0.16 0.15
Matches are distributed among these distances:
11 14 0.37
12 6 0.16
13 18 0.47
ACGTcount: A:0.20, C:0.39, G:0.20, T:0.20
Consensus pattern (13 bp):
ACCCGACCCGTTG
Found at i:7864381 original size:42 final size:40
Alignment explanation
Indices: 7864334--7864414 Score: 126
Period size: 40 Copynumber: 2.0 Consensus size: 40
7864324 ACAAAACCTA
*
7864334 TAAAATAAATTAAAAATAAAAAATATTAGCTTCTATTAAAAG
1 TAAAATAAATAAAAAAT-AAAAA-ATTAGCTTCTATTAAAAG
*
7864376 TAAAATAAATAAAAAATAAAAAATTGGCTTCTATTAAAA
1 TAAAATAAATAAAAAATAAAAAATTAGCTTCTATTAAAA
7864415 AAATAGCAAC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
40 16 0.43
41 5 0.14
42 16 0.43
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.30
Consensus pattern (40 bp):
TAAAATAAATAAAAAATAAAAAATTAGCTTCTATTAAAAG
Found at i:7874021 original size:21 final size:20
Alignment explanation
Indices: 7873975--7874028 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
7873965 CTGACTTGGG
*
7873975 TTGTATCGGTAGTTGCATAA
1 TTGTATCGGTAGTTGAATAA
**
7873995 TATGTATCGGTAGTTAGAATGC
1 T-TGTATCGGTAGTT-GAATAA
7874017 TTGTATCGGTAG
1 TTGTATCGGTAG
7874029 AAGTTGTAGG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 1 0.03
21 24 0.83
22 4 0.14
ACGTcount: A:0.24, C:0.09, G:0.28, T:0.39
Consensus pattern (20 bp):
TTGTATCGGTAGTTGAATAA
Found at i:7886039 original size:22 final size:22
Alignment explanation
Indices: 7886014--7886184 Score: 92
Period size: 22 Copynumber: 8.0 Consensus size: 22
7886004 AAATCAACTC
7886014 TTTGCTTATTTGAATCGATT-AT
1 TTTG-TTATTTGAATCGATTCAT
* * *
7886036 TTTGTTGA-TTGACTCAATTCTT
1 TTTGTT-ATTTGAATCGATTCAT
*
7886058 TTTGTTGTTTGAATCGATTCAT
1 TTTGTTATTTGAATCGATTCAT
* *
7886080 TATTG---TTTAAATCAATT-AT
1 T-TTGTTATTTGAATCGATTCAT
** * *
7886099 TTACTTATTTGAATCAATT-GT
1 TTTGTTATTTGAATCGATTCAT
* *
7886120 TTTGTTGA-TAGACTCGATTCAT
1 TTTGTT-ATTTGAATCGATTCAT
* *
7886142 TTTGTTGTTTGAATCGATT--G
1 TTTGTTATTTGAATCGATTCAT
* *
7886162 TTTATTGTTTGAATCGATTCAT
1 TTTGTTATTTGAATCGATTCAT
7886184 T
1 T
7886185 ATTATTCGAA
Statistics
Matches: 112, Mismatches: 25, Indels: 24
0.70 0.16 0.15
Matches are distributed among these distances:
18 1 0.01
19 3 0.03
20 28 0.25
21 35 0.31
22 42 0.38
23 3 0.03
ACGTcount: A:0.23, C:0.09, G:0.15, T:0.53
Consensus pattern (22 bp):
TTTGTTATTTGAATCGATTCAT
Found at i:7886087 original size:20 final size:20
Alignment explanation
Indices: 7886062--7886187 Score: 87
Period size: 20 Copynumber: 6.1 Consensus size: 20
7886052 ATTCTTTTTG
7886062 TTGTTTGAATCGATTCATTA
1 TTGTTTGAATCGATTCATTA
* *
7886082 TTGTTTAAATCAATT-ATTTA
1 TTGTTTGAATCGATTCA-TTA
* * *
7886102 CTTATTTGAATCAATT-GTT-
1 -TTGTTTGAATCGATTCATTA
* *
7886121 TTGTTGATAGACTCGATTCATTTTG
1 TTGTT--T-GAATCGATTCA--TTA
**
7886146 TTGTTTGAATCGATTGTTTA
1 TTGTTTGAATCGATTCATTA
7886166 TTGTTTGAATCGATTCATTA
1 TTGTTTGAATCGATTCATTA
7886186 TT
1 TT
7886188 ATTCGAATTG
Statistics
Matches: 82, Mismatches: 15, Indels: 18
0.71 0.13 0.16
Matches are distributed among these distances:
18 4 0.05
19 1 0.01
20 41 0.50
21 20 0.24
22 8 0.10
23 1 0.01
24 2 0.02
25 5 0.06
ACGTcount: A:0.25, C:0.09, G:0.14, T:0.52
Consensus pattern (20 bp):
TTGTTTGAATCGATTCATTA
Found at i:7886106 original size:84 final size:84
Alignment explanation
Indices: 7885997--7886176 Score: 252
Period size: 84 Copynumber: 2.1 Consensus size: 84
7885987 CAATTGTTTG
* * * * *
7885997 TTGTCTTAAATCAACTCTTTGCTTATTTGAATCGATTATTTTGTTGATTGACTCAATTCTTTTTG
1 TTGT-TTAAATCAACTATTTACTTATTTGAATCAATTATTTTGTTGATAGACTCAATTCATTTTG
7886062 TTGTTTGAATCGATTCATTA
65 TTGTTTGAATCGATTCATTA
* * *
7886082 TTGTTTAAATCAATTATTTACTTATTTGAATCAATTGTTTTGTTGATAGACTCGATTCATTTTGT
1 TTGTTTAAATCAACTATTTACTTATTTGAATCAATTATTTTGTTGATAGACTCAATTCATTTTGT
**
7886147 TGTTTGAATCGATTGTTTA
66 TGTTTGAATCGATTCATTA
*
7886166 TTGTTTGAATC
1 TTGTTTAAATC
7886177 GATTCATTAT
Statistics
Matches: 84, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
84 80 0.95
85 4 0.05
ACGTcount: A:0.23, C:0.11, G:0.14, T:0.52
Consensus pattern (84 bp):
TTGTTTAAATCAACTATTTACTTATTTGAATCAATTATTTTGTTGATAGACTCAATTCATTTTGT
TGTTTGAATCGATTCATTA
Found at i:7886195 original size:20 final size:20
Alignment explanation
Indices: 7886152--7886195 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
7886142 TTTGTTGTTT
** * *
7886152 GAATCGATTGTTTATTGTTT
1 GAATCGATTCATTATTATTC
7886172 GAATCGATTCATTATTATTC
1 GAATCGATTCATTATTATTC
7886192 GAAT
1 GAAT
7886196 TGTTTAAATC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.27, C:0.09, G:0.16, T:0.48
Consensus pattern (20 bp):
GAATCGATTCATTATTATTC
Found at i:7891893 original size:18 final size:18
Alignment explanation
Indices: 7891860--7891894 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7891850 TCTTAAAAAT
*
7891860 AATTTATTATTATATTTA
1 AATTTATTAATATATTTA
*
7891878 AATTTATTAATGTATTT
1 AATTTATTAATATATTT
7891895 TATCACTAAT
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:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (18 bp):
AATTTATTAATATATTTA
Found at i:7892299 original size:18 final size:18
Alignment explanation
Indices: 7892285--7892324 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 18
7892275 CATAATACTT
7892285 TTAAA-AAATATAATATA
1 TTAAACAAATATAATATA
7892302 TTAAACAAATATAATTATA
1 TTAAACAAATATAA-TATA
7892321 TTAA
1 TTAA
7892325 TATTAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 5 0.24
18 8 0.38
19 8 0.38
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (18 bp):
TTAAACAAATATAATATA
Found at i:7892752 original size:25 final size:24
Alignment explanation
Indices: 7892719--7892772 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 24
7892709 GGGGAGATTT
7892719 TTATTTTATTTAATATTAATATAA
1 TTATTTTATTTAATATTAATATAA
*
7892743 TTATATTTATTTAATGTTAATATAA
1 TTAT-TTTATTTAATATTAATATAA
*
7892768 ATATT
1 TTATT
7892773 AATATAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 5 0.19
25 22 0.81
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (24 bp):
TTATTTTATTTAATATTAATATAA
Found at i:7892806 original size:21 final size:22
Alignment explanation
Indices: 7892782--7892837 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
7892772 TAATATAAAA
7892782 TTAAAATTTA-TTAT-TATATTT
1 TTAAAATTTATTTATATATA-TT
**
7892803 TTAAAAAATATTTATATATATT
1 TTAAAATTTATTTATATATATT
7892825 TTAAAATTT-TTTA
1 TTAAAATTTATTTA
7892838 AAATTAAGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 12 0.41
22 13 0.45
23 4 0.14
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TTAAAATTTATTTATATATATT
Found at i:7900939 original size:9 final size:9
Alignment explanation
Indices: 7900927--7901165 Score: 65
Period size: 9 Copynumber: 24.7 Consensus size: 9
7900917 CACACATTGC
7900927 AAAAAATAT
1 AAAAAATAT
7900936 AAAAAA-AT
1 AAAAAATAT
*
7900944 AAAATCA-AT
1 AAAA-AATAT
*
7900953 AAAAAGTA-
1 AAAAAATAT
*
7900961 ATAAAATTAT
1 A-AAAAATAT
*
7900971 AAAAATATAG
1 AAAAA-ATAT
7900981 AAAAAAGGTAT
1 AAAAAA--TAT
*
7900992 AAAAATTATT
1 AAAAAATA-T
*
7901002 AAAAATTTAT
1 AAAAA-ATAT
*
7901012 AAAAATATTT
1 AAAAA-ATAT
*
7901022 ACAAATATAT
1 A-AAAAATAT
7901032 AAAAACAT-T
1 AAAAA-ATAT
*
7901041 GAAAAGCAT-T
1 -AAAA-AATAT
* *
7901051 AAAAACTTAGA
1 AAAAA-ATA-T
7901062 AAAGAAATAGT
1 AAA-AAATA-T
*
7901073 ATAAAATAT
1 AAAAAATAT
*
7901082 ATAAAAGTAT
1 A-AAAAATAT
* *
7901092 TAAAAGTAT
1 AAAAAATAT
*
7901101 AGAAAATAT
1 AAAAAATAT
7901110 AGAAAAATTAGT
1 A-AAAAA-TA-T
*
7901122 ATAAAATAT
1 AAAAAATAT
7901131 AAAAAATAT
1 AAAAAATAT
*
7901140 AGAAAATTATT
1 A-AAAAATA-T
**
7901151 AAAACTTAT
1 AAAAAATAT
7901160 AAAAAA
1 AAAAAA
7901166 GTTGCATTGT
Statistics
Matches: 174, Mismatches: 33, Indels: 46
0.69 0.13 0.18
Matches are distributed among these distances:
8 7 0.04
9 68 0.39
10 66 0.38
11 29 0.17
12 4 0.02
ACGTcount: A:0.65, C:0.03, G:0.06, T:0.26
Consensus pattern (9 bp):
AAAAAATAT
Found at i:7901005 original size:20 final size:21
Alignment explanation
Indices: 7900968--7901019 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
7900958 GTAATAAAAT
7900968 TATAAAAATATAGAAAAAAGG
1 TATAAAAATATAGAAAAAAGG
** **
7900989 TATAAAAAT-TATTAAAAATT
1 TATAAAAATATAGAAAAAAGG
7901009 TATAAAAATAT
1 TATAAAAATAT
7901020 TTACAAATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (21 bp):
TATAAAAATATAGAAAAAAGG
Found at i:7901027 original size:20 final size:20
Alignment explanation
Indices: 7900989--7901036 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
7900979 AGAAAAAAGG
*
7900989 TATAAAAATTATTAAAAATT
1 TATAAAAATTATTAAAAATA
*
7901009 TATAAAAA-TATTTACAAATA
1 TATAAAAATTA-TTAAAAATA
7901029 TATAAAAA
1 TATAAAAA
7901037 CATTGAAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 2 0.08
20 23 0.92
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (20 bp):
TATAAAAATTATTAAAAATA
Found at i:7901164 original size:10 final size:9
Alignment explanation
Indices: 7900963--7901164 Score: 52
Period size: 10 Copynumber: 20.4 Consensus size: 9
7900953 AAAAAGTAAT
7900963 AAAATTATA
1 AAAATTATA
*
7900972 AAAATATAGAA
1 AAAAT-TA-TA
*
7900983 AAAAGGTATA
1 AAAA-TTATA
7900993 AAAATTATTA
1 AAAATTA-TA
7901003 AAAATTTATA
1 AAAA-TTATA
*
7901013 AAAATATTTA
1 AAAAT-TATA
*
7901023 CAAATATATAA
1 AAAAT-TAT-A
7901034 AAACATTGA-A
1 AAA-ATT-ATA
*
7901044 AAGCATTA-A
1 AA-AATTATA
* *
7901053 AAACTTAGAA
1 AAAATTA-TA
*
7901063 AAGAAATAGTA
1 AA-AATTA-TA
7901074 TAAAA-TATA
1 -AAAATTATA
* *
7901083 TAAAAGTATT
1 -AAAATTATA
*
7901093 AAAAGTATA
1 AAAATTATA
*
7901102 GAAAATATAGA
1 -AAAAT-TATA
7901113 AAAATTAGTA
1 AAAATTA-TA
7901123 TAAAA-TATA
1 -AAAATTATA
*
7901132 AAAAATATA
1 AAAATTATA
7901141 GAAAATTATTA
1 -AAAATTA-TA
*
7901152 AAACTTATA
1 AAAATTATA
7901161 AAAA
1 AAAA
7901165 AGTTGCATTG
Statistics
Matches: 149, Mismatches: 22, Indels: 44
0.69 0.10 0.20
Matches are distributed among these distances:
8 7 0.05
9 40 0.27
10 67 0.45
11 30 0.20
12 5 0.03
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.28
Consensus pattern (9 bp):
AAAATTATA
Found at i:7905771 original size:10 final size:10
Alignment explanation
Indices: 7905744--7905899 Score: 74
Period size: 10 Copynumber: 15.6 Consensus size: 10
7905734 AATATTTTTC
*
7905744 ATAACAAATT
1 ATAAAAAATT
*
7905754 ATTAAAAAATC
1 A-TAAAAAATT
7905765 AT-AAAAA-T
1 ATAAAAAATT
*
7905773 AT-AAAATTT
1 ATAAAAAATT
*
7905782 AGAAAAAATT
1 ATAAAAAATT
*
7905792 ATAAAAAAATC
1 AT-AAAAAATT
*
7905803 AGAAAAAAATT
1 A-TAAAAAATT
7905814 ATAAAAATATT
1 ATAAAAA-ATT
*
7905825 AAATATTAAAATT
1 --ATA-AAAAATT
*
7905838 ATAAAAAAAT
1 ATAAAAAATT
*
7905848 ATAAAAATTT
1 ATAAAAAATT
* *
7905858 CT-AAATATT
1 ATAAAAAATT
7905867 AT-AAAAA-T
1 ATAAAAAATT
*
7905875 AT-AAAACTT
1 ATAAAAAATT
* *
7905884 CTAATAAATT
1 ATAAAAAATT
7905894 ATAAAA
1 ATAAAA
7905900 TTAATAAAAC
Statistics
Matches: 108, Mismatches: 27, Indels: 22
0.69 0.17 0.14
Matches are distributed among these distances:
8 13 0.12
9 19 0.18
10 37 0.34
11 30 0.28
13 6 0.06
14 3 0.03
ACGTcount: A:0.65, C:0.04, G:0.01, T:0.30
Consensus pattern (10 bp):
ATAAAAAATT
Found at i:7905825 original size:11 final size:11
Alignment explanation
Indices: 7905775--7905876 Score: 56
Period size: 11 Copynumber: 9.6 Consensus size: 11
7905765 ATAAAAATAT
*
7905775 AAAAT-TTAGA
1 AAAATATTATA
7905785 AAAA-ATTATA
1 AAAATATTATA
* * *
7905795 AAAAAATCAGA
1 AAAATATTATA
*
7905806 AAAAAATTATA
1 AAAATATTATA
7905817 AAAATATTA-A
1 AAAATATTATA
*
7905827 ATATTAAAATTATA
1 A-A--AATATTATA
*
7905841 AAAA-AATATA
1 AAAATATTATA
*
7905851 AAAAT-TTCT-
1 AAAATATTATA
7905860 -AAATATTATA
1 AAAATATTATA
7905870 AAAATAT
1 AAAATAT
7905877 AAAACTTCTA
Statistics
Matches: 71, Mismatches: 11, Indels: 19
0.70 0.11 0.19
Matches are distributed among these distances:
8 4 0.06
9 3 0.04
10 25 0.35
11 30 0.42
13 7 0.10
14 2 0.03
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (11 bp):
AAAATATTATA
Found at i:7905875 original size:46 final size:43
Alignment explanation
Indices: 7905786--7905899 Score: 102
Period size: 46 Copynumber: 2.5 Consensus size: 43
7905776 AAATTTAGAA
* *
7905786 AAAATTATAAAAAAATCAGAAAAAAATTATAAAAATATTAAATATT
1 AAAATTATAAAAAAAT-A-TAAAAAATTATAAAAATATAAAATA-T
* * *
7905832 AAAATTATAAAAAAATATAAAAATTTCTAAATATTATAAAAATAT
1 AAAATTATAAAAAAATATAAAAAATTATAAA-AATAT-AAAATAT
* * *
7905877 AAAACTTCTAATAAATTATAAAA
1 AAAA-TTATAAAAAAATATAAAA
7905900 TTAATAAAAC
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
44 11 0.19
45 10 0.18
46 36 0.63
ACGTcount: A:0.65, C:0.04, G:0.01, T:0.31
Consensus pattern (43 bp):
AAAATTATAAAAAAATATAAAAAATTATAAAAATATAAAATAT
Found at i:7905894 original size:27 final size:26
Alignment explanation
Indices: 7905807--7905911 Score: 99
Period size: 27 Copynumber: 3.9 Consensus size: 26
7905797 AAAATCAGAA
*
7905807 AAAAATTATAAAAATATTAAA-TAT-T
1 AAAAATTATAAAAATATAAAACT-TCT
*
7905832 -AAAATTATAAAAAAATATAAAAATTTCT
1 AAAAATTAT--AAAAATAT-AAAACTTCT
*
7905860 AAATATTATAAAAATATAAAACTTCT
1 AAAAATTATAAAAATATAAAACTTCT
*
7905886 AATAAATTATAAAATTAATAAAACTT
1 AA-AAATTATAAAAAT-ATAAAACTT
7905912 ATTTAAAATA
Statistics
Matches: 67, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
24 8 0.12
26 18 0.27
27 23 0.34
28 11 0.16
29 7 0.10
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (26 bp):
AAAAATTATAAAAATATAAAACTTCT
Found at i:7905902 original size:8 final size:8
Alignment explanation
Indices: 7905808--7905913 Score: 52
Period size: 8 Copynumber: 12.0 Consensus size: 8
7905798 AAATCAGAAA
7905808 AAAATTAT
1 AAAATTAT
*
7905816 AAAAATAT
1 AAAATTAT
*
7905824 TAAA-TATT
1 AAAATTA-T
7905832 AAAATTAT
1 AAAATTAT
*
7905840 AAAAAAATAT
1 --AAAATTAT
*
7905850 AAAAATTTCT
1 -AAAA-TTAT
7905860 AAATATTAT
1 AAA-ATTAT
*
7905869 AAAAATAT
1 AAAATTAT
*
7905877 AAAACTTCT
1 AAAA-TTAT
7905886 AATAAATTAT
1 -A-AAATTAT
7905896 AAAATTAAT
1 AAAATT-AT
7905905 AAAACTTAT
1 AAAA-TTAT
7905914 TTAAAATAAA
Statistics
Matches: 76, Mismatches: 11, Indels: 21
0.70 0.10 0.19
Matches are distributed among these distances:
7 2 0.03
8 28 0.37
9 27 0.36
10 16 0.21
11 3 0.04
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (8 bp):
AAAATTAT
Found at i:7905918 original size:27 final size:27
Alignment explanation
Indices: 7905760--7905913 Score: 83
Period size: 27 Copynumber: 5.9 Consensus size: 27
7905750 AATTATTAAA
* * * *
7905760 AAATCATAAAAATATAAAATTTAGAAA
1 AAATTATAAAAATATAAAACTTATAAT
* * *
7905787 AAATTATAAAAAAATCAGA---A-AA-
1 AAATTATAAAAATATAAAACTTATAAT
* *
7905809 AAATTATAAAAATATTAAA--TATTA-
1 AAATTATAAAAATATAAAACTTATAAT
* *
7905833 AAATTATAAAAAAATATAAAAATTTCTAA-
1 AAATTAT--AAAAATAT-AAAACTTATAAT
* *
7905862 ATATTATAAAAATATAAAACTTCTAAT
1 AAATTATAAAAATATAAAACTTATAAT
*
7905889 AAATTATAAAATTAATAAAACTTAT
1 AAATTATAAAAAT-ATAAAACTTAT
7905914 TTAAAATAAA
Statistics
Matches: 102, Mismatches: 16, Indels: 17
0.76 0.12 0.13
Matches are distributed among these distances:
22 16 0.16
23 3 0.03
24 9 0.09
26 18 0.18
27 37 0.36
28 10 0.10
29 9 0.09
ACGTcount: A:0.64, C:0.04, G:0.01, T:0.31
Consensus pattern (27 bp):
AAATTATAAAAATATAAAACTTATAAT
Found at i:7911741 original size:22 final size:22
Alignment explanation
Indices: 7911683--7911739 Score: 82
Period size: 21 Copynumber: 2.6 Consensus size: 22
7911673 GACACCTCTA
*
7911683 TTTTCTATTTCTTTT-AATTCTG
1 TTTTCT-TTTATTTTCAATTCTG
7911705 TTTTCTTTTATTTTCAATTCTG
1 TTTTCTTTTATTTTCAATTCTG
7911727 -TTTCTTTTATTTT
1 TTTTCTTTTATTTT
7911740 TCCTCAGATC
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
21 20 0.61
22 13 0.39
ACGTcount: A:0.12, C:0.12, G:0.04, T:0.72
Consensus pattern (22 bp):
TTTTCTTTTATTTTCAATTCTG
Found at i:7913661 original size:21 final size:21
Alignment explanation
Indices: 7913621--7913661 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
7913611 CAATTTATAG
** *
7913621 ATTTTCAAAATCAAATTGTGA
1 ATTTTCAAAAGAAAACTGTGA
7913642 ATTTTCAAAAGAAAACTGTG
1 ATTTTCAAAAGAAAACTGTG
7913662 GCATTTATTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.34
Consensus pattern (21 bp):
ATTTTCAAAAGAAAACTGTGA
Found at i:7917796 original size:6 final size:6
Alignment explanation
Indices: 7917785--7917821 Score: 56
Period size: 6 Copynumber: 6.0 Consensus size: 6
7917775 GACAACCCAA
*
7917785 TTATTT TTATTT TTATTT TTATTT TTCTATT TTATTT
1 TTATTT TTATTT TTATTT TTATTT TTAT-TT TTATTT
7917822 ATTTATTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 23 0.82
7 5 0.18
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (6 bp):
TTATTT
Found at i:7917810 original size:13 final size:13
Alignment explanation
Indices: 7917785--7917830 Score: 60
Period size: 13 Copynumber: 3.5 Consensus size: 13
7917775 GACAACCCAA
7917785 TTATTTTTA-TTT
1 TTATTTTTATTTT
7917797 TTATTTTTATTTT
1 TTATTTTTATTTT
7917810 TCTA-TTTTATTTAT
1 T-TATTTTTATTT-T
7917824 TTATTTT
1 TTATTTT
7917831 ATTATATGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
12 9 0.30
13 14 0.47
14 7 0.23
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.80
Consensus pattern (13 bp):
TTATTTTTATTTT
Found at i:7918787 original size:101 final size:101
Alignment explanation
Indices: 7918620--7918811 Score: 230
Period size: 101 Copynumber: 1.9 Consensus size: 101
7918610 GAGTGTGTTA
* * *
7918620 GACTGAGTAACCAGGGTGAAGTGCTTGGTTGTCATTTCACTTCGCGTCAAAAAGGCTAATACATT
1 GACTGAGTAACCAGGGTGAAGTGCTTGGATGTCATTTCACTTCACATCAAAAAGGCTAATACATT
7918685 C-TACAA-AAAAAAGAAGAAAAAATTGAGAGCATATTG
66 CTTA-AAGAAAAAA-AAGAAAAAATTGAGAGCATATTG
* * * * **
7918721 GACTGAGTAACC-GGGATGGAGTGTTTGGATGTCATTTCATTTCACATC-AAAAGGTTCAATGTA
1 GACTGAGTAACCAGGG-TGAAGTGCTTGGATGTCATTTCACTTCACATCAAAAAGGCT-AATACA
*
7918784 TTCTTAAAGAAAAAAAAGGAAAAATTGA
64 TTCTTAAAGAAAAAAAAGAAAAAATTGA
7918812 CAAAATAAAA
Statistics
Matches: 77, Mismatches: 10, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
100 10 0.13
101 59 0.77
102 8 0.10
ACGTcount: A:0.39, C:0.13, G:0.22, T:0.27
Consensus pattern (101 bp):
GACTGAGTAACCAGGGTGAAGTGCTTGGATGTCATTTCACTTCACATCAAAAAGGCTAATACATT
CTTAAAGAAAAAAAAGAAAAAATTGAGAGCATATTG
Found at i:7920322 original size:12 final size:12
Alignment explanation
Indices: 7920305--7920329 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7920295 TTTGGTGGAG
7920305 CATATCTTAGAT
1 CATATCTTAGAT
7920317 CATATCTTAGAT
1 CATATCTTAGAT
7920329 C
1 C
7920330 CAAACCCATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.20, G:0.08, T:0.40
Consensus pattern (12 bp):
CATATCTTAGAT
Found at i:7921854 original size:13 final size:14
Alignment explanation
Indices: 7921819--7921857 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
7921809 TTATATTTTC
7921819 ATTATTTTAAATAT
1 ATTATTTTAAATAT
*
7921833 ATTTGTTTTAAATAT
1 A-TTATTTTAAATAT
7921848 A-TATTTTAAA
1 ATTATTTTAAA
7921858 GTTGATCGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
13 8 0.36
14 1 0.05
15 13 0.59
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (14 bp):
ATTATTTTAAATAT
Found at i:7922545 original size:18 final size:18
Alignment explanation
Indices: 7922521--7922562 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
7922511 CAAAATTATT
7922521 ATTTTTTTAAAATTTTAA
1 ATTTTTTTAAAATTTTAA
* * *
7922539 CTTTTTTTATATTTTTAA
1 ATTTTTTTAAAATTTTAA
7922557 ATTTTT
1 ATTTTT
7922563 ATAATTTTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (18 bp):
ATTTTTTTAAAATTTTAA
Found at i:7922548 original size:26 final size:27
Alignment explanation
Indices: 7922519--7922572 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
7922509 AGCAAAATTA
* *
7922519 TTATTTTTTTAAAATTTTA-ACTTTTT
1 TTATATTTTTAAAATTTTATAATTTTT
*
7922545 TTATATTTTTAAATTTTTATAATTTTT
1 TTATATTTTTAAAATTTTATAATTTTT
7922572 T
1 T
7922573 AAAAATATGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 17 0.71
27 7 0.29
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (27 bp):
TTATATTTTTAAAATTTTATAATTTTT
Found at i:7922639 original size:20 final size:20
Alignment explanation
Indices: 7922602--7922653 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 20
7922592 TTTTTATTAA
7922602 TGTTTTGAA-TTTTAAAAAT
1 TGTTTTGAATTTTTAAAAAT
*
7922621 TGTTTTGAATTTTTGAAAAT
1 TGTTTTGAATTTTTAAAAAT
*
7922641 TATTTT-AATTTTT
1 TGTTTTGAATTTTT
7922654 TTGTAATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.31, C:0.00, G:0.10, T:0.60
Consensus pattern (20 bp):
TGTTTTGAATTTTTAAAAAT
Found at i:7923249 original size:20 final size:20
Alignment explanation
Indices: 7923208--7923249 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
7923198 AGGTTGTGGC
*
7923208 ATGTATATAGATGTTATGGA
1 ATGTATATAGATGATATGGA
*
7923228 ATGTATATA-TTGATATGTGA
1 ATGTATATAGATGATATG-GA
7923248 AT
1 AT
7923250 ATGAATACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.36, C:0.00, G:0.21, T:0.43
Consensus pattern (20 bp):
ATGTATATAGATGATATGGA
Found at i:7927151 original size:14 final size:14
Alignment explanation
Indices: 7927132--7927162 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
7927122 CCCAAAAAGC
*
7927132 CAACGGTCAACTGT
1 CAACGGTCAACAGT
7927146 CAACGGTCAACAGT
1 CAACGGTCAACAGT
7927160 CAA
1 CAA
7927163 ACCTGAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.35, C:0.29, G:0.19, T:0.16
Consensus pattern (14 bp):
CAACGGTCAACAGT
Found at i:7927208 original size:19 final size:19
Alignment explanation
Indices: 7927184--7927220 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
7927174 TTTAGGGTTT
7927184 GGTTTGGGCTTGGGTCAAA
1 GGTTTGGGCTTGGGTCAAA
* *
7927203 GGTTTGGGTTTGGTTCAA
1 GGTTTGGGCTTGGGTCAA
7927221 TTGGGTTTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.14, C:0.08, G:0.41, T:0.38
Consensus pattern (19 bp):
GGTTTGGGCTTGGGTCAAA
Found at i:7934202 original size:27 final size:27
Alignment explanation
Indices: 7934172--7934223 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
7934162 CAGTTAATGA
*
7934172 TCAACGATTAACTGTCAAT-GTCAACGG
1 TCAACGATCAAC-GTCAATGGTCAACGG
7934199 TCAACGATCAACGTCAATGGTCAAC
1 TCAACGATCAACGTCAATGGTCAAC
7934224 AGTCGATCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.23
Consensus pattern (27 bp):
TCAACGATCAACGTCAATGGTCAACGG
Found at i:7934209 original size:20 final size:19
Alignment explanation
Indices: 7934186--7934245 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 19
7934176 CGATTAACTG
7934186 TCAATGTCAACGGTCAACGA
1 TCAA-GTCAACGGTCAACGA
*
7934206 TCAACGTCAATGGTCAAC-A
1 TCAA-GTCAACGGTCAACGA
*
7934225 GTCGA-TCAACGGTCAACGA
1 -TCAAGTCAACGGTCAACGA
7934244 TC
1 TC
7934246 GGTCAACAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
18 13 0.38
19 2 0.06
20 19 0.56
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.20
Consensus pattern (19 bp):
TCAAGTCAACGGTCAACGA
Found at i:7934251 original size:18 final size:18
Alignment explanation
Indices: 7934191--7934252 Score: 63
Period size: 18 Copynumber: 3.3 Consensus size: 18
7934181 AACTGTCAAT
*
7934191 GTCAACGGTCAACGATCAAC
1 GTCAACGGTCAACGATC--G
*
7934211 GTCAATGGTCAAC-AGTCG
1 GTCAACGGTCAACGA-TCG
*
7934229 ATCAACGGTCAACGATCG
1 GTCAACGGTCAACGATCG
7934247 GTCAAC
1 GTCAAC
7934253 AGTTAATGGT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
18 19 0.54
19 2 0.06
20 14 0.40
ACGTcount: A:0.32, C:0.27, G:0.23, T:0.18
Consensus pattern (18 bp):
GTCAACGGTCAACGATCG
Found at i:7941953 original size:26 final size:26
Alignment explanation
Indices: 7941924--7942065 Score: 101
Period size: 26 Copynumber: 5.5 Consensus size: 26
7941914 ATTGAGTCGA
*
7941924 AATGGGTCGAAGGTCCCTTGAGTTTG
1 AATGGGTCGAAGGACCCTTGAGTTTG
* *
7941950 AATGGCTCCG-AGGACCCTTAAGTTTG
1 AATGGGT-CGAAGGACCCTTGAGTTTG
* *** **
7941976 AGTTAATCGAAGGTTCCTTGAGTTTG
1 AATGGGTCGAAGGACCCTTGAGTTTG
* *
7942002 AGTGGGTCTAAGGACCCTTGA-TTT-
1 AATGGGTCGAAGGACCCTTGAGTTTG
* * *
7942026 AAGTTGGTCGGAGGACCCTTGAGTTTC
1 AA-TGGGTCGAAGGACCCTTGAGTTTG
*
7942053 AATTGGTCAGAAG
1 AATGGGTC-GAAG
7942066 ACCATGAGCA
Statistics
Matches: 89, Mismatches: 21, Indels: 11
0.74 0.17 0.09
Matches are distributed among these distances:
24 1 0.01
25 21 0.24
26 60 0.67
27 7 0.08
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.31
Consensus pattern (26 bp):
AATGGGTCGAAGGACCCTTGAGTTTG
Found at i:7942040 original size:25 final size:26
Alignment explanation
Indices: 7942012--7942060 Score: 75
Period size: 25 Copynumber: 1.9 Consensus size: 26
7942002 AGTGGGTCTA
7942012 AGGACCCTTGA-TTT-AAGTTGGTCGG
1 AGGACCCTTGAGTTTCAA-TTGGTCGG
7942037 AGGACCCTTGAGTTTCAATTGGTC
1 AGGACCCTTGAGTTTCAATTGGTC
7942061 AGAAGACCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 11 0.50
26 9 0.41
27 2 0.09
ACGTcount: A:0.20, C:0.18, G:0.29, T:0.33
Consensus pattern (26 bp):
AGGACCCTTGAGTTTCAATTGGTCGG
Found at i:7947642 original size:17 final size:19
Alignment explanation
Indices: 7947622--7947667 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 19
7947612 ATAGATGACT
7947622 TTATTTTTT-TTCTTTT-G
1 TTATTTTTTATTCTTTTGG
*
7947639 TTATTTATTTATTTTTTTGG
1 TTATTT-TTTATTCTTTTGG
7947659 TGTATTTTT
1 T-TATTTTT
7947668 GTTATTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
17 6 0.25
18 3 0.12
19 6 0.25
20 4 0.17
21 5 0.21
ACGTcount: A:0.11, C:0.02, G:0.09, T:0.78
Consensus pattern (19 bp):
TTATTTTTTATTCTTTTGG
Found at i:7948492 original size:22 final size:22
Alignment explanation
Indices: 7948460--7948505 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 22
7948450 TATTTTTAGA
* *
7948460 AAATAAAAAATATG--TTCCAT
1 AAATAAAAAAAATGATTTCAAT
7948480 AAATAAAAAAAATGATTTCAAT
1 AAATAAAAAAAATGATTTCAAT
7948502 AAAT
1 AAAT
7948506 TAGAAATGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 13 0.59
22 9 0.41
ACGTcount: A:0.61, C:0.07, G:0.04, T:0.28
Consensus pattern (22 bp):
AAATAAAAAAAATGATTTCAAT
Found at i:7949946 original size:20 final size:20
Alignment explanation
Indices: 7949918--7949955 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
7949908 TTTTTCAATT
*
7949918 TTTTGAATTTTGATATATCG
1 TTTTAAATTTTGATATATCG
*
7949938 TTTTAAATTTTTATATAT
1 TTTTAAATTTTGATATAT
7949956 TTTGTGTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.03, G:0.08, T:0.61
Consensus pattern (20 bp):
TTTTAAATTTTGATATATCG
Found at i:7950945 original size:8 final size:8
Alignment explanation
Indices: 7950932--7950977 Score: 53
Period size: 8 Copynumber: 6.0 Consensus size: 8
7950922 TAATTTAAAA
7950932 TTAAAATT
1 TTAAAATT
7950940 TTAAAA--
1 TTAAAATT
7950946 TTAAAATT
1 TTAAAATT
7950954 TTAAAA-T
1 TTAAAATT
*
7950961 ATAAAATT
1 TTAAAATT
7950969 GTTAAAATT
1 -TTAAAATT
7950978 ATTATATTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
6 6 0.19
7 6 0.19
8 13 0.41
9 7 0.22
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (8 bp):
TTAAAATT
Found at i:7950967 original size:15 final size:14
Alignment explanation
Indices: 7950914--7950978 Score: 91
Period size: 14 Copynumber: 4.7 Consensus size: 14
7950904 CAGCAAATGA
7950914 TTTAAAATT--AA-
1 TTTAAAATTAAAAT
7950925 TTTAAAATTAAAAT
1 TTTAAAATTAAAAT
7950939 TTTAAAATTAAAAT
1 TTTAAAATTAAAAT
7950953 TTTAAAATATAAAAT
1 TTTAAAAT-TAAAAT
7950968 TGTTAAAATTA
1 T-TTAAAATTA
7950979 TTATATTATT
Statistics
Matches: 49, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
11 9 0.18
13 2 0.04
14 22 0.45
15 9 0.18
16 7 0.14
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (14 bp):
TTTAAAATTAAAAT
Found at i:7950977 original size:38 final size:39
Alignment explanation
Indices: 7950931--7951025 Score: 122
Period size: 38 Copynumber: 2.5 Consensus size: 39
7950921 TTAATTTAAA
7950931 ATTAAAATT-TTAAAATTAAAATTTTAAAATATAAAATT
1 ATTAAAATTATTAAAATTAAAATTTTAAAATATAAAATT
* * *** *
7950969 GTTAAAATTATT-ATATTATTTTTTTGAAATATAAAATT
1 ATTAAAATTATTAAAATTAAAATTTTAAAATATAAAATT
7951007 ATTAAAATTATTAAAATTA
1 ATTAAAATTATTAAAATTA
7951026 TTAAATAATT
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
38 40 0.85
39 7 0.15
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (39 bp):
ATTAAAATTATTAAAATTAAAATTTTAAAATATAAAATT
Found at i:7951014 original size:9 final size:9
Alignment explanation
Indices: 7951000--7951030 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
7950990 TTTTGAAATA
7951000 TAAAATTAT
1 TAAAATTAT
7951009 TAAAATTAT
1 TAAAATTAT
7951018 TAAAATTAT
1 TAAAATTAT
7951027 TAAA
1 TAAA
7951031 TAATTTTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
TAAAATTAT
Found at i:7951951 original size:8 final size:8
Alignment explanation
Indices: 7951938--7952010 Score: 55
Period size: 8 Copynumber: 9.2 Consensus size: 8
7951928 ATGAGATTAA
7951938 AATAATTT
1 AATAATTT
7951946 AATAATTTT
1 AATAA-TTT
7951955 AATAATTT
1 AATAATTT
*
7951963 TAT-ATTT
1 AATAATTT
*
7951970 CAA-AA--A
1 -AATAATTT
7951976 AATAATTT
1 AATAATTT
7951984 AATAATTTT
1 AATAA-TTT
7951993 AATAATTT
1 AATAATTT
* *
7952001 TATATTTT
1 AATAATTT
7952009 AA
1 AA
7952011 ATTTTAATTT
Statistics
Matches: 51, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
5 2 0.04
6 2 0.04
7 4 0.08
8 27 0.53
9 16 0.31
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (8 bp):
AATAATTT
Found at i:7951957 original size:9 final size:9
Alignment explanation
Indices: 7951938--7952018 Score: 60
Period size: 9 Copynumber: 10.3 Consensus size: 9
7951928 ATGAGATTAA
7951938 AATAA-TTT
1 AATAATTTT
7951946 AATAATTTT
1 AATAATTTT
7951955 AATAATTTT
1 AATAATTTT
*
7951964 -AT-ATTTC
1 AATAATTTT
*
7951971 AA-AA---A
1 AATAATTTT
7951976 AATAA-TTT
1 AATAATTTT
7951984 AATAATTTT
1 AATAATTTT
7951993 AATAATTTT
1 AATAATTTT
7952002 -AT-ATTTT
1 AATAATTTT
7952009 -A-AATTTT
1 AATAATTTT
7952016 AAT
1 AAT
7952019 TTTAAATTAA
Statistics
Matches: 60, Mismatches: 3, Indels: 19
0.73 0.04 0.23
Matches are distributed among these distances:
5 2 0.03
6 2 0.03
7 15 0.25
8 17 0.28
9 24 0.40
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (9 bp):
AATAATTTT
Done.