Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 30 of 235
Found at i:9464523 original size:95 final size:95
Alignment explanation
Indices: 9464359--9464531 Score: 310
Period size: 95 Copynumber: 1.8 Consensus size: 95
9464349 AAACAAGGAA
*
9464359 GGTGCAATTTCTGCTAAGCTTAGCGCATAGGATTATTTTAGATTTAAGGTGGGAGATGAATCATA
1 GGTGCAATTTCTGCTAAGCTTAGCGCATAGGATTATTTTAGAGTTAAGGTGGGAGATGAATCATA
9464424 TCATGTTCTCTACAACCACAAACTGCTGAT
66 TCATGTTCTCTACAACCACAAACTGCTGAT
* * *
9464454 GGTGCAATTTCTGCTAAGCTTAGCGCTTAGGATTATTTTAGGGTTAAGGTGGGAGATGAATCATT
1 GGTGCAATTTCTGCTAAGCTTAGCGCATAGGATTATTTTAGAGTTAAGGTGGGAGATGAATCATA
9464519 TCATGTTCTCTAC
66 TCATGTTCTCTAC
9464532 GACTAAGCTT
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
95 74 1.00
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.35
Consensus pattern (95 bp):
GGTGCAATTTCTGCTAAGCTTAGCGCATAGGATTATTTTAGAGTTAAGGTGGGAGATGAATCATA
TCATGTTCTCTACAACCACAAACTGCTGAT
Found at i:9479021 original size:18 final size:18
Alignment explanation
Indices: 9478942--9479035 Score: 131
Period size: 18 Copynumber: 5.4 Consensus size: 18
9478932 CAAGGTCACG
*
9478942 ATCAATAGCGTCACTATC
1 ATCAATATCGTCACTATC
* *
9478960 ATCAATAGCGTCACTAGC
1 ATCAATATCGTCACTATC
*
9478978 ATCAATATCGTCACTAGC
1 ATCAATATCGTCACTATC
9478996 ATCAATATCGTCACTATC
1 ATCAATATCGTCACTATC
9479014 ATCAATATCG--A-TATC
1 ATCAATATCGTCACTATC
9479029 ATCAATA
1 ATCAATA
9479036 AGAAAACCTT
Statistics
Matches: 73, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
15 11 0.15
16 1 0.01
18 61 0.84
ACGTcount: A:0.36, C:0.26, G:0.10, T:0.29
Consensus pattern (18 bp):
ATCAATATCGTCACTATC
Found at i:9479022 original size:9 final size:9
Alignment explanation
Indices: 9478942--9479022 Score: 54
Period size: 9 Copynumber: 9.0 Consensus size: 9
9478932 CAAGGTCACG
*
9478942 ATCAATAGC
1 ATCAATATC
* *
9478951 GTCACTATC
1 ATCAATATC
*
9478960 ATCAATAGC
1 ATCAATATC
* * *
9478969 GTCACTAGC
1 ATCAATATC
9478978 ATCAATATC
1 ATCAATATC
* * *
9478987 GTCACTAGC
1 ATCAATATC
9478996 ATCAATATC
1 ATCAATATC
* *
9479005 GTCACTATC
1 ATCAATATC
9479014 ATCAATATC
1 ATCAATATC
9479023 GATATCATCA
Statistics
Matches: 51, Mismatches: 21, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
9 51 1.00
ACGTcount: A:0.35, C:0.27, G:0.10, T:0.28
Consensus pattern (9 bp):
ATCAATATC
Found at i:9481425 original size:21 final size:21
Alignment explanation
Indices: 9481395--9481483 Score: 90
Period size: 21 Copynumber: 4.1 Consensus size: 21
9481385 CTCACAAAGA
* *
9481395 AAAAAG-GAAGTGAGTTAGAC
1 AAAAAGAGAAGTAACTTAGAC
* *
9481415 AAAAAGAGAAGCAACTTGGAC
1 AAAAAGAGAAGTAACTTAGAC
*
9481436 AAAAAGAGAAGTAACTTGGAC
1 AAAAAGAGAAGTAACTTAGAC
*
9481457 AAAAAGAAACGAAGTGACTTAGAC
1 AAAAAG--A-GAAGTAACTTAGAC
9481481 AAA
1 AAA
9481484 TCTTTTTTGT
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
20 6 0.10
21 36 0.62
23 1 0.02
24 15 0.26
ACGTcount: A:0.54, C:0.10, G:0.24, T:0.12
Consensus pattern (21 bp):
AAAAAGAGAAGTAACTTAGAC
Found at i:9481476 original size:24 final size:21
Alignment explanation
Indices: 9481395--9481463 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
9481385 CTCACAAAGA
* * *
9481395 AAAAAG-GAAGTGAGTTAGAC
1 AAAAAGAGAAGTAACTTGGAC
*
9481415 AAAAAGAGAAGCAACTTGGAC
1 AAAAAGAGAAGTAACTTGGAC
9481436 AAAAAGAGAAGTAACTTGGAC
1 AAAAAGAGAAGTAACTTGGAC
9481457 AAAAAGA
1 AAAAAGA
9481464 AACGAAGTGA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 6 0.14
21 37 0.86
ACGTcount: A:0.55, C:0.09, G:0.25, T:0.12
Consensus pattern (21 bp):
AAAAAGAGAAGTAACTTGGAC
Found at i:9485645 original size:14 final size:14
Alignment explanation
Indices: 9485626--9485652 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9485616 TACAATATAT
9485626 ATAAGAATTATACG
1 ATAAGAATTATACG
9485640 ATAAGAATTATAC
1 ATAAGAATTATAC
9485653 AAATCCATCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.07, G:0.11, T:0.30
Consensus pattern (14 bp):
ATAAGAATTATACG
Found at i:9489280 original size:13 final size:15
Alignment explanation
Indices: 9489254--9489293 Score: 66
Period size: 13 Copynumber: 2.8 Consensus size: 15
9489244 CCTTAATTTA
9489254 TTAATATTTATTAAT
1 TTAATATTTATTAAT
9489269 TTAAT-TTT-TTAAT
1 TTAATATTTATTAAT
9489282 TTAATATTTATT
1 TTAATATTTATT
9489294 TAATAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 10 0.43
14 6 0.26
15 7 0.30
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
TTAATATTTATTAAT
Found at i:9494275 original size:2 final size:2
Alignment explanation
Indices: 9494268--9494293 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9494258 CGACTAACAC
9494268 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
9494294 CCCTTTCAAT
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9498656 original size:100 final size:100
Alignment explanation
Indices: 9498483--9498684 Score: 404
Period size: 100 Copynumber: 2.0 Consensus size: 100
9498473 TTTTACAAGC
9498483 AATTTTTACTTACATTATGTCATGCTTTCTTTTGCTTAATTCATTATATGGTGAAATGGAACAAA
1 AATTTTTACTTACATTATGTCATGCTTTCTTTTGCTTAATTCATTATATGGTGAAATGGAACAAA
9498548 TTATTACTAAATTTTAGTGGCAAAAATGTCATGTT
66 TTATTACTAAATTTTAGTGGCAAAAATGTCATGTT
9498583 AATTTTTACTTACATTATGTCATGCTTTCTTTTGCTTAATTCATTATATGGTGAAATGGAACAAA
1 AATTTTTACTTACATTATGTCATGCTTTCTTTTGCTTAATTCATTATATGGTGAAATGGAACAAA
9498648 TTATTACTAAATTTTAGTGGCAAAAATGTCATGTT
66 TTATTACTAAATTTTAGTGGCAAAAATGTCATGTT
9498683 AA
1 AA
9498685 AAGAGGCATT
Statistics
Matches: 102, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 102 1.00
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.44
Consensus pattern (100 bp):
AATTTTTACTTACATTATGTCATGCTTTCTTTTGCTTAATTCATTATATGGTGAAATGGAACAAA
TTATTACTAAATTTTAGTGGCAAAAATGTCATGTT
Found at i:9503549 original size:27 final size:27
Alignment explanation
Indices: 9503519--9503840 Score: 344
Period size: 27 Copynumber: 11.9 Consensus size: 27
9503509 AGTACTCGTG
9503519 ATTTACAGAATTACTGTTTTACCCTCA
1 ATTTACAGAATTACTGTTTTACCCTCA
* * * *
9503546 ATTTACAAAATTACCGTTTTACCATCG
1 ATTTACAGAATTACTGTTTTACCCTCA
* *
9503573 ATTTACAAAATTACCGTTTTACCCTCA
1 ATTTACAGAATTACTGTTTTACCCTCA
* * *
9503600 GTTTATAGAATTACTGTTTTACCCTCG
1 ATTTACAGAATTACTGTTTTACCCTCA
* *
9503627 ATTTATAGAATTACCGTTTTACCCTCA
1 ATTTACAGAATTACTGTTTTACCCTCA
* * **
9503654 GTTTACAGAATTACTATTTTACCCTTG
1 ATTTACAGAATTACTGTTTTACCCTCA
*
9503681 ATTTACAGAATTACTGTTTTACCCTCG
1 ATTTACAGAATTACTGTTTTACCCTCA
* *
9503708 ATTTACAGAATTACCGTTTTACCCTTA
1 ATTTACAGAATTACTGTTTTACCCTCA
** * ** *
9503735 ATTTGTAAAATTACCATTTTACCCTTA
1 ATTTACAGAATTACTGTTTTACCCTCA
9503762 ATTTACAGAATTACTAG-TTTACCCTCA
1 ATTTACAGAATTACT-GTTTTACCCTCA
* * *
9503789 GTTTACAAAATTA-TCGTTTTACCCTCG
1 ATTTACAGAATTACT-GTTTTACCCTCA
*
9503816 ATTTATAGAATTA-TCGTTTTACCCT
1 ATTTACAGAATTACT-GTTTTACCCT
9503841 TGATTGTGAA
Statistics
Matches: 250, Mismatches: 43, Indels: 4
0.84 0.14 0.01
Matches are distributed among these distances:
26 2 0.01
27 248 0.99
ACGTcount: A:0.29, C:0.21, G:0.08, T:0.41
Consensus pattern (27 bp):
ATTTACAGAATTACTGTTTTACCCTCA
Found at i:9503841 original size:81 final size:81
Alignment explanation
Indices: 9503519--9503841 Score: 409
Period size: 81 Copynumber: 4.0 Consensus size: 81
9503509 AGTACTCGTG
* *
9503519 ATTTACAGAATTACTGTTTTACCCTCAATTTACAAAATTACCGTTTTACCATCGATTTACAAAAT
1 ATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAAAAT
* *
9503584 TACCGTTTTACCCTCA
66 TACCATTTTACCCTTA
* * * * *
9503600 GTTTATAGAATTACTGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTC-AGTTTACAGAA
1 ATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGA-TTTACAAAA
* *
9503664 TTACTATTTTACCCTTG
65 TTACCATTTTACCCTTA
* ** **
9503681 ATTTACAGAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTTAATTTGTAAAAT
1 ATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAAAAT
9503746 TACCATTTTACCCTTA
66 TACCATTTTACCCTTA
* * *
9503762 ATTTACAGAATTACTAG-TTTACCCTC-AGTTTACAAAATTATCGTTTTACCCTCGATTTATAGA
1 ATTTACAGAATTACT-GTTTTACCCTCGA-TTTACAAAATTACCGTTTTACCCTCGATTTACAAA
* *
9503825 ATTATCGTTTTACCCTT
64 ATTACCATTTTACCCTT
9503842 GATTGTGAAA
Statistics
Matches: 210, Mismatches: 28, Indels: 8
0.85 0.11 0.03
Matches are distributed among these distances:
80 2 0.01
81 206 0.98
82 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.08, T:0.41
Consensus pattern (81 bp):
ATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAAAAT
TACCATTTTACCCTTA
Found at i:9503920 original size:54 final size:54
Alignment explanation
Indices: 9503850--9504056 Score: 321
Period size: 54 Copynumber: 3.8 Consensus size: 54
9503840 TTGATTGTGA
9503850 AATTA-CAGAAATACCCCTATAGGGTAGAATTACTGAAATACCCTTATAGGATAG
1 AATTACCA-AAATACCCCTATAGGGTAGAATTACTGAAATACCCTTATAGGATAG
9503904 AATTACCAAAATACCCCTATAGGGTAGAATTACTGAAATACCCTTATAGGATAG
1 AATTACCAAAATACCCCTATAGGGTAGAATTACTGAAATACCCTTATAGGATAG
* *
9503958 AATTACCAAAATACCCCTATAGGGTAGAATTA-TCGAAATACCCTTGTAGGGTAG
1 AATTACCAAAATACCCCTATAGGGTAGAATTACT-GAAATACCCTTATAGGATAG
* * *
9504012 AAATT-CCAAAATACCCCTGTAGGGTAGAATTACCGAGATACCCTT
1 -AATTACCAAAATACCCCTATAGGGTAGAATTACTGAAATACCCTT
9504057 GTGGGGTAAA
Statistics
Matches: 144, Mismatches: 5, Indels: 8
0.92 0.03 0.05
Matches are distributed among these distances:
53 1 0.01
54 137 0.95
55 6 0.04
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.26
Consensus pattern (54 bp):
AATTACCAAAATACCCCTATAGGGTAGAATTACTGAAATACCCTTATAGGATAG
Found at i:9504063 original size:27 final size:27
Alignment explanation
Indices: 9503850--9504072 Score: 259
Period size: 27 Copynumber: 8.3 Consensus size: 27
9503840 TTGATTGTGA
* *
9503850 AATTACAGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCTTATAGGGTAG
* *
9503877 AATTACTGAAATACCCTTATAGGATAG
1 AATTACCGAAATACCCTTATAGGGTAG
* *
9503904 AATTACCAAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCTTATAGGGTAG
* *
9503931 AATTACTGAAATACCCTTATAGGATAG
1 AATTACCGAAATACCCTTATAGGGTAG
* *
9503958 AATTACCAAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCTTATAGGGTAG
* *
9503985 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTATAGGGTAG
* * *
9504012 AAATT-CCAAAATACCCCTGTAGGGTAG
1 -AATTACCGAAATACCCTTATAGGGTAG
* * * *
9504039 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCTTATAGGGTAG
9504066 AATTACC
1 AATTACC
9504073 ATTTTGCCCC
Statistics
Matches: 167, Mismatches: 27, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
26 4 0.02
27 159 0.95
28 4 0.02
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCTTATAGGGTAG
Found at i:9504332 original size:27 final size:26
Alignment explanation
Indices: 9504271--9504353 Score: 85
Period size: 27 Copynumber: 3.1 Consensus size: 26
9504261 TGGAGGAAGC
*
9504271 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCA-AAATATCT
*
9504298 GTTCTGGTGGCTCTGCCATAATATCT
1 GTTCTGGTGGCTCTGCCAAAATATCT
* * * * *
9504324 GTATTTGGTGACTCCGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCAAAATATCT
9504351 GTT
1 GTT
9504354 GACCGATCGA
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
26 10 0.21
27 38 0.79
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCAAAATATCT
Found at i:9504473 original size:22 final size:22
Alignment explanation
Indices: 9504441--9504499 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
9504431 CCCGTTATTA
*
9504441 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
9504463 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
9504485 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
9504500 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:9504728 original size:27 final size:27
Alignment explanation
Indices: 9504666--9504718 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
9504656 GGTGGGTTTG
* *
9504666 CCACATTATCTG-ATTCTGGTGGCTCTA
1 CCACAATATCTGTA-TCTGGTGACTCTA
9504693 CCACAATATCTGTATCTGGTGACTCT
1 CCACAATATCTGTATCTGGTGACTCT
9504719 GTCACGATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.36
Consensus pattern (27 bp):
CCACAATATCTGTATCTGGTGACTCTA
Found at i:9504891 original size:6 final size:6
Alignment explanation
Indices: 9504880--9505041 Score: 140
Period size: 6 Copynumber: 26.8 Consensus size: 6
9504870 TTGTCACCTA
* * *
9504880 ATTCTG ATTCTG ACTT-TG ATTCTG -TTACTA ATACTG ATTTTG ATTCTG
1 ATTCTG ATTCTG A-TTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG
* * *
9504928 ATTCTG -TTACTG ATTTTG ATTCTG ATTCTG -TCACCTT ATTCTG ATTCTG
1 ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
*
9504977 ATTCTG ATTCTG -TTACTA ATAT-TG ATTCTG ATTCTG ATTCTG -TTACTG
1 ATTCTG ATTCTG ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG
9505025 ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCT
9505042 CATTTTGGTT
Statistics
Matches: 127, Mismatches: 14, Indels: 30
0.74 0.08 0.18
Matches are distributed among these distances:
5 12 0.09
6 103 0.81
7 10 0.08
8 2 0.02
ACGTcount: A:0.19, C:0.16, G:0.14, T:0.51
Consensus pattern (6 bp):
ATTCTG
Found at i:9504957 original size:24 final size:25
Alignment explanation
Indices: 9504855--9505062 Score: 148
Period size: 24 Copynumber: 8.3 Consensus size: 25
9504845 TTGCATTCAC
* *
9504855 ATTCTGATT-CTGATTTTG-TCACCTA
1 ATTCTGATTACTGATTTTGAT--TCTG
*
9504880 ATTCTGATT-CTGACTTTGATTCTG
1 ATTCTGATTACTGATTTTGATTCTG
*
9504904 -TTACT-AATACTGATTTTGATTCTG
1 ATT-CTGATTACTGATTTTGATTCTG
9504928 ATTCTG-TTACTGATTTTGATTCTG
1 ATTCTGATTACTGATTTTGATTCTG
*
9504952 ATTCTGTCACCTTATTCTGATTCTGATTCTG
1 ATTCTG--A--TTA--CTGATTTTGATTCTG
* *
9504983 ATTCTG-TTACTAATATTGATTCTG
1 ATTCTGATTACTGATTTTGATTCTG
*
9505007 ATTCTGATT-CTG-TTACTGATTCTG
1 ATTCTGATTACTGATT-TTGATTCTG
* * **
9505031 ATTCTGATT-CTCATTTTGGTTCCA
1 ATTCTGATTACTGATTTTGATTCTG
9505055 ATTCTGAT
1 ATTCTGAT
9505063 AATGTTTCTT
Statistics
Matches: 150, Mismatches: 18, Indels: 31
0.75 0.09 0.16
Matches are distributed among these distances:
23 5 0.03
24 95 0.63
25 23 0.15
26 4 0.03
29 3 0.02
31 20 0.13
ACGTcount: A:0.19, C:0.17, G:0.14, T:0.50
Consensus pattern (25 bp):
ATTCTGATTACTGATTTTGATTCTG
Found at i:9504995 original size:85 final size:85
Alignment explanation
Indices: 9504855--9505041 Score: 313
Period size: 85 Copynumber: 2.2 Consensus size: 85
9504845 TTGCATTCAC
* *
9504855 ATTCTGATTCTGATTTTGTCACCTAATTCTGATTCTGACTTTGATTCTGTTACTAATACTGATTT
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGACTTTGATTCTGTTACTAATACTGATTC
9504920 TGATTCTGATTCTGTTACTG
66 TGATTCTGATTCTGTTACTG
* * *
9504940 ATTTTGATTCTGATTCTGTCACCTTATTCTGATTCTGA-TTCTGATTCTGTTACTAATATTGATT
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGACTT-TGATTCTGTTACTAATACTGATT
9505004 CTGATTCTGATTCTGTTACTG
65 CTGATTCTGATTCTGTTACTG
9505025 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
9505042 CATTTTGGTT
Statistics
Matches: 95, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
84 2 0.02
85 93 0.98
ACGTcount: A:0.19, C:0.17, G:0.14, T:0.50
Consensus pattern (85 bp):
ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGACTTTGATTCTGTTACTAATACTGATTC
TGATTCTGATTCTGTTACTG
Found at i:9505062 original size:30 final size:30
Alignment explanation
Indices: 9504855--9505041 Score: 210
Period size: 30 Copynumber: 6.4 Consensus size: 30
9504845 TTGCATTCAC
* *
9504855 ATTCTGATTCTGATTTTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTA-CTAATTCTG
*
9504886 ATTCTGACTT-TGATTCTGTTACTAATACTG
1 ATTCTGA-TTCTGATTCTGTTACTAATTCTG
*
9504916 ATTTTGATTCTGATTCTG-T--T-A--CTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
* * *
9504940 ATTTTGATTCTGATTCTGTCACCTTATTCTG
1 ATTCTGATTCTGATTCTGTTA-CTAATTCTG
9504971 ATTCTGATTCTGATTCTGTTACTAATAT-TG
1 ATTCTGATTCTGATTCTGTTACTAAT-TCTG
*
9505001 ATTCTGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
9505031 ATTCTGATTCT
1 ATTCTGATTCT
9505042 CATTTTGGTT
Statistics
Matches: 136, Mismatches: 9, Indels: 23
0.81 0.05 0.14
Matches are distributed among these distances:
24 21 0.15
26 1 0.01
27 1 0.01
28 1 0.01
29 5 0.04
30 66 0.49
31 39 0.29
32 2 0.01
ACGTcount: A:0.19, C:0.17, G:0.14, T:0.50
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACTAATTCTG
Found at i:9505230 original size:6 final size:6
Alignment explanation
Indices: 9505219--9505320 Score: 75
Period size: 6 Copynumber: 16.8 Consensus size: 6
9505209 CGATCAAATA
* * * * *
9505219 ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTT ACTCAG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
9505268 -TTACTA ATACTG ATTTTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG
1 ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
9505316 ATTCT
1 ATTCT
9505321 CATTTTGGTT
Statistics
Matches: 73, Mismatches: 16, Indels: 14
0.71 0.16 0.14
Matches are distributed among these distances:
5 5 0.07
6 62 0.85
7 5 0.07
8 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.13, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:9505302 original size:24 final size:24
Alignment explanation
Indices: 9505275--9505320 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
9505265 CTGTTACTAA
*
9505275 TACTGATTTTGATTCTGATTCTGT
1 TACTGATTCTGATTCTGATTCTGT
9505299 TACTGATTCTGATTCTGATTCT
1 TACTGATTCTGATTCTGATTCT
9505321 CATTTTGGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.17, C:0.15, G:0.15, T:0.52
Consensus pattern (24 bp):
TACTGATTCTGATTCTGATTCTGT
Found at i:9505318 original size:30 final size:30
Alignment explanation
Indices: 9505219--9505320 Score: 132
Period size: 30 Copynumber: 3.4 Consensus size: 30
9505209 CGATCAAATA
*
9505219 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTA-CTAATTCTG
* * * *
9505250 ATTCTTACTCAGATTCTGTTACTAATACTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
* *
9505280 ATTTTGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
9505310 ATTCTGATTCT
1 ATTCTGATTCT
9505321 CATTTTGGTT
Statistics
Matches: 59, Mismatches: 12, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
30 42 0.71
31 17 0.29
ACGTcount: A:0.21, C:0.19, G:0.13, T:0.48
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACTAATTCTG
Found at i:9505440 original size:279 final size:279
Alignment explanation
Indices: 9504944--9505463 Score: 961
Period size: 279 Copynumber: 1.9 Consensus size: 279
9504934 TTACTGATTT
* * * *
9504944 TGATTCTGATTCTGTCACCTTATTCTGATTCTGATTCTGATTCTGTTACTAATATTGATTCTGAT
1 TGATTCTGATTCTGTCACCTAATTCTGATTCTGACTCAGATTCTGTTACTAATACTGATTCTGAT
9505009 TCTGATTCTGTTACTGATTCTGATTCTGATTCTCATTTTGGTTCCAATTCTGATAATGTTTCTTA
66 TCTGATTCTGTTACTGATTCTGATTCTGATTCTCATTTTGGTTCCAATTCTGATAATGTTTCTTA
9505074 TTCTGTAATGGGCTAAGGTCCATCTGGTACTGTCTGTTGTAATGGGCTAAGACCTGACTGGTACT
131 TTCTGTAATGGGCTAAGGTCCATCTGGTACTGTCTGTTGTAATGGGCTAAGACCTGACTGGTACT
9505139 GAAATTGTAAGTAAGGCTGGGGCCAGACTTTTAATTCTTTTAGACGGAAAGTTATTAGCCAGGGT
196 GAAATTGTAAGTAAGGCTGGGGCCAGACTTTTAATTCTTTTAGACGGAAAGTTATTAGCCAGGGT
9505204 TGAGCCGATCAAATAATTC
261 TGAGCCGATCAAATAATTC
* *
9505223 TGATTCTGATTCTGTCACCTAATTCTGATTCTTACTCAGATTCTGTTACTAATACTGATTTTGAT
1 TGATTCTGATTCTGTCACCTAATTCTGATTCTGACTCAGATTCTGTTACTAATACTGATTCTGAT
9505288 TCTGATTCTGTTACTGATTCTGATTCTGATTCTCATTTTGGTTCCAATTCTGATAATGTTTCTTA
66 TCTGATTCTGTTACTGATTCTGATTCTGATTCTCATTTTGGTTCCAATTCTGATAATGTTTCTTA
*
9505353 TTCTGTAATGGGCTAAGGTCCATCTGGTACTGTCTGTTGTAATGGGCTAAGAACC-GATTGGTAC
131 TTCTGTAATGGGCTAAGGTCCATCTGGTACTGTCTGTTGTAATGGGCTAAG-ACCTGACTGGTAC
9505417 TGAAATTGTAAGTAAGGCTGGGGCCAGACTTTTAATTCTTTTAGACG
195 TGAAATTGTAAGTAAGGCTGGGGCCAGACTTTTAATTCTTTTAGACG
9505464 ACTGACTGTT
Statistics
Matches: 233, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
279 230 0.99
280 3 0.01
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.41
Consensus pattern (279 bp):
TGATTCTGATTCTGTCACCTAATTCTGATTCTGACTCAGATTCTGTTACTAATACTGATTCTGAT
TCTGATTCTGTTACTGATTCTGATTCTGATTCTCATTTTGGTTCCAATTCTGATAATGTTTCTTA
TTCTGTAATGGGCTAAGGTCCATCTGGTACTGTCTGTTGTAATGGGCTAAGACCTGACTGGTACT
GAAATTGTAAGTAAGGCTGGGGCCAGACTTTTAATTCTTTTAGACGGAAAGTTATTAGCCAGGGT
TGAGCCGATCAAATAATTC
Found at i:9508247 original size:27 final size:27
Alignment explanation
Indices: 9508066--9508366 Score: 356
Period size: 27 Copynumber: 11.2 Consensus size: 27
9508056 AAAGTACTCC
*
9508066 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
9508093 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
9508120 CGATTTATAGAATTACCG-TTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* **
9508146 C-AGTTTATAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* **
9508173 CGATTTATAGAATTACTATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
9508200 C-AGTTTACAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
9508227 CGATTTACAGAATAACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * *
9508254 CGATTTGTAAAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * *
9508281 TAATTTACAGAATTACTGGTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
9508308 CAATTTACAAAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
9508335 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
9508362 TGATT
1 CGATT
9508367 GTGAAATTAC
Statistics
Matches: 238, Mismatches: 31, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
25 1 0.00
26 23 0.10
27 212 0.89
28 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:9508362 original size:81 final size:81
Alignment explanation
Indices: 9508068--9508361 Score: 392
Period size: 81 Copynumber: 3.6 Consensus size: 81
9508058 AGTACTCCCG
* * *
9508068 ATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAAT
1 ATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCAATTTACAGAAT
*
9508133 TAC-CGTTTACCCTCA
66 TACTGGTTTACCCTCA
* * * ** *
9508148 GTTTATAGAATTACTATTTTACCCTCGATTTATAGAATTACTATTTTACCCTCAGTTTACAGAAT
1 ATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCAATTTACAGAAT
* *
9508213 TACTGTTTTACCCTCG
66 TACTGGTTTACCCTCA
* * * * * *
9508229 ATTTACAGAATAACCGTTTTACCCTCGATTTGTAAAATTATCGTTTTACCCTTAATTTACAGAAT
1 ATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCAATTTACAGAAT
9508294 TACTGGTTTACCCTCA
66 TACTGGTTTACCCTCA
* * *
9508310 ATTTACAAAATTATCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCT
1 ATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTTACCCT
9508362 TGATTGTGAA
Statistics
Matches: 181, Mismatches: 32, Indels: 1
0.85 0.15 0.00
Matches are distributed among these distances:
80 59 0.33
81 122 0.67
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (81 bp):
ATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCAATTTACAGAAT
TACTGGTTTACCCTCA
Found at i:9508401 original size:27 final size:27
Alignment explanation
Indices: 9508371--9508566 Score: 239
Period size: 27 Copynumber: 7.3 Consensus size: 27
9508361 TTGATTGTGA
*
9508371 AATTACTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAG
*
9508398 AATTTCCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAG
* * *
9508425 AATTACTGAAATACCCTTATAGGATAG
1 AATTACCGAAATACCCCTATAGGGTAG
* *
9508452 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAG
* * *
9508479 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAG
* *
9508506 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAG
* * * * *
9508533 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTATAGGGTAG
9508560 AATTACC
1 AATTACC
9508567 ATTTTGCCCC
Statistics
Matches: 147, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 147 1.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTATAGGGTAG
Found at i:9508439 original size:54 final size:54
Alignment explanation
Indices: 9508371--9508566 Score: 268
Period size: 54 Copynumber: 3.6 Consensus size: 54
9508361 TTGATTGTGA
* * *
9508371 AATTACTGAAATACCCCTATAGGGTAGAATTTCCGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCTTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* *
9508425 AATTACTGAAATACCCTTATAGGATAGAATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* *
9508479 AATTA-TCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCTTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * * * *
9508533 AATTACCGAGATACCCTTGTGGGGTAAAATTACC
1 AATTACTGAAATACCCTTATAGGGTAGAATTACC
9508567 ATTTTGCCCC
Statistics
Matches: 126, Mismatches: 14, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
53 1 0.01
54 125 0.99
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (54 bp):
AATTACTGAAATACCCTTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
Found at i:9508803 original size:27 final size:26
Alignment explanation
Indices: 9508765--9508847 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
9508755 CGGAGGAAGC
*
9508765 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
9508792 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
9508818 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
9508845 GTT
1 GTT
9508848 GACCGATCGA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 10 0.20
27 41 0.80
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:9508967 original size:22 final size:22
Alignment explanation
Indices: 9508935--9508993 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
9508925 CCCGTTATTA
*
9508935 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
9508957 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
9508979 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
9508994 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:9509180 original size:27 final size:27
Alignment explanation
Indices: 9509158--9509231 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
9509148 TAGGTGGGTT
*
9509158 TGCCACATTATCTG-ATTCTGGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGGCTC
*
9509185 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTC
* *
9509212 TGTCACGATATCTGT-TCTGG
1 TGCCACAATATCTGTATCTGG
9509232 CAGCCATGCT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 5 0.12
27 36 0.86
28 1 0.02
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:9511948 original size:16 final size:17
Alignment explanation
Indices: 9511917--9511949 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
9511907 ACTTACTTAA
*
9511917 TACTTGATAATCTCAAT
1 TACTTGATAATATCAAT
9511934 TACTT-ATAATATCAAT
1 TACTTGATAATATCAAT
9511950 ATTAAATAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.39, C:0.15, G:0.03, T:0.42
Consensus pattern (17 bp):
TACTTGATAATATCAAT
Found at i:9512248 original size:54 final size:54
Alignment explanation
Indices: 9512063--9512368 Score: 344
Period size: 55 Copynumber: 5.6 Consensus size: 54
9512053 AACTTACCAT
* * * * *
9512063 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GACCTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAA
* * ** * *
9512116 TTCCATGCCTTGGCATGGTCTTACATGGGATCTTTGGCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAG-AACTCATCAA
* * *
9512171 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAA
* * ** * *
9512225 TGCGATGCCTTGGCATGGTCTTACATGGGATCTTTGGCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAG-AACTCATCAA
* * *
9512280 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAA
* * * *
9512334 TGCGATGCCTTGGCATGATCTCACATGATATCCTT
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTT
9512369 ATCTTACCAA
Statistics
Matches: 208, Mismatches: 42, Indels: 5
0.82 0.16 0.02
Matches are distributed among these distances:
53 35 0.17
54 84 0.40
55 89 0.43
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.36
Consensus pattern (54 bp):
TGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAA
Found at i:9512264 original size:109 final size:109
Alignment explanation
Indices: 9512063--9512360 Score: 499
Period size: 109 Copynumber: 2.7 Consensus size: 109
9512053 AACTTACCAT
* * * * * * * *
9512063 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GACCTCACCAATTCCATGCCTT
1 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCGATGCCTT
9512127 GGCATGGTCTTACATGGGATCTTTGGCTTATAGTAACTCATCAA
66 GGCATGGTCTTACATGGGATCTTTGGCTTATAGTAACTCATCAA
9512171 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCGATGCCTT
1 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCGATGCCTT
9512236 GGCATGGTCTTACATGGGATCTTTGGCTTATAGTAACTCATCAA
66 GGCATGGTCTTACATGGGATCTTTGGCTTATAGTAACTCATCAA
9512280 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCGATGCCTT
1 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCGATGCCTT
* *
9512345 GGCATGATCTCACATG
66 GGCATGGTCTTACATG
9512361 ATATCCTTAT
Statistics
Matches: 179, Mismatches: 10, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
108 39 0.22
109 140 0.78
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.36
Consensus pattern (109 bp):
TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCGATGCCTT
GGCATGGTCTTACATGGGATCTTTGGCTTATAGTAACTCATCAA
Found at i:9515570 original size:54 final size:55
Alignment explanation
Indices: 9515475--9515585 Score: 170
Period size: 54 Copynumber: 2.0 Consensus size: 55
9515465 CATGGGACCT
* *
9515475 TTGCCTTATAGTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCC
1 TTGCCTTATAGTAACTCATCAATGCCATGCCTTGACATGGTCTTACATGATATCC
* * *
9515530 TTGCCTTATAG-AACTTATCAATGCCATGCCTTGGCATGGTCTTGCATGATATCC
1 TTGCCTTATAGTAACTCATCAATGCCATGCCTTGACATGGTCTTACATGATATCC
9515584 TT
1 TT
9515586 ATCTTACCAA
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
54 40 0.78
55 11 0.22
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (55 bp):
TTGCCTTATAGTAACTCATCAATGCCATGCCTTGACATGGTCTTACATGATATCC
Found at i:9515617 original size:47 final size:47
Alignment explanation
Indices: 9515564--9515685 Score: 183
Period size: 47 Copynumber: 2.6 Consensus size: 47
9515554 CATGCCTTGG
* * * *
9515564 CATGGTCTTGCATGATATCCTTATCTTACCAAAT-TCTATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGTC-AAGTTCCAAA
9515611 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGTCAAGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGTCAAGTTCCAAA
*
9515658 CATTGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
9515686 GTGCTAATGC
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
47 67 0.97
48 2 0.03
ACGTcount: A:0.25, C:0.23, G:0.13, T:0.39
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGTCAAGTTCCAAA
Found at i:9518433 original size:20 final size:20
Alignment explanation
Indices: 9518405--9518443 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
9518395 CAATTTATAA
9518405 CATTAAAAT-TAATCTATCAT
1 CATTAAAATATAATC-ATCAT
*
9518425 CATTCAAATATAATCATCA
1 CATTAAAATATAATCATCA
9518444 AAAAATTATC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.46, C:0.18, G:0.00, T:0.36
Consensus pattern (20 bp):
CATTAAAATATAATCATCAT
Found at i:9529161 original size:21 final size:20
Alignment explanation
Indices: 9529120--9529164 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
9529110 AGCACATGTA
*
9529120 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAATTT
*
9529140 TTCATCAAAA-TTTACAACTT
1 TTCAT-AAAATTTTACAATTT
9529160 TTCAT
1 TTCAT
9529165 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.38, C:0.13, G:0.02, T:0.47
Consensus pattern (20 bp):
TTCATAAAATTTTACAATTT
Found at i:9529640 original size:17 final size:17
Alignment explanation
Indices: 9529618--9529651 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
9529608 GACCTCTAGT
*
9529618 TTTGATTCTCATAGCTA
1 TTTGATCCTCATAGCTA
*
9529635 TTTGATCCTTATAGCTA
1 TTTGATCCTCATAGCTA
9529652 CTAGAATTTA
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:0.18, G:0.12, T:0.47
Consensus pattern (17 bp):
TTTGATCCTCATAGCTA
Found at i:9531071 original size:25 final size:25
Alignment explanation
Indices: 9531038--9531100 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
9531028 GAATCGGTAT
* * *
9531038 TCACTCGAGCTGTAGATCGATATGC
1 TCACACGAGCTGTAAATCGATATAC
** *
9531063 TCTTACGAGCTATAAATCGATATAC
1 TCACACGAGCTGTAAATCGATATAC
9531088 TCACACGAGCTGT
1 TCACACGAGCTGT
9531101 GGGTCGAAAC
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (25 bp):
TCACACGAGCTGTAAATCGATATAC
Found at i:9552733 original size:28 final size:28
Alignment explanation
Indices: 9552668--9552777 Score: 127
Period size: 28 Copynumber: 4.0 Consensus size: 28
9552658 TTAGGAAATG
*
9552668 AAGCCTTTGTGGCAAA-TCATGAAATG-A
1 AAGCCTTTGTGGCAAAGT-ATGAAAAGAA
* ** *
9552695 AAGCCTCTGTGGTGAAGTATGAAAATAA
1 AAGCCTTTGTGGCAAAGTATGAAAAGAA
*
9552723 TAA-CCTTTGTGGCAAAGTAAGAAAAGAA
1 -AAGCCTTTGTGGCAAAGTATGAAAAGAA
9552751 AAGCCTTTGTGGCAAAGTATGAAAAGA
1 AAGCCTTTGTGGCAAAGTATGAAAAGA
9552778 TCAGCCTCTA
Statistics
Matches: 68, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
27 21 0.31
28 45 0.66
29 2 0.03
ACGTcount: A:0.41, C:0.12, G:0.24, T:0.24
Consensus pattern (28 bp):
AAGCCTTTGTGGCAAAGTATGAAAAGAA
Found at i:9552769 original size:56 final size:55
Alignment explanation
Indices: 9552671--9552775 Score: 140
Period size: 56 Copynumber: 1.9 Consensus size: 55
9552661 GGAAATGAAG
* * **
9552671 CCTTTGTGGCAAATCATGAAATGAAAGCCTCTGTGGTGAAGTATGAAAATAATAA
1 CCTTTGTGGCAAATCAAGAAAAGAAAGCCTCTGTGGCAAAGTATGAAAATAATAA
*
9552726 CCTTTGTGGCAAAGT-AAGAAAAGAAAAGCCTTTGTGGCAAAGTATGAAAA
1 CCTTTGTGGCAAA-TCAAGAAAAG-AAAGCCTCTGTGGCAAAGTATGAAAA
9552776 GATCAGCCTC
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
55 19 0.44
56 24 0.56
ACGTcount: A:0.40, C:0.12, G:0.23, T:0.25
Consensus pattern (55 bp):
CCTTTGTGGCAAATCAAGAAAAGAAAGCCTCTGTGGCAAAGTATGAAAATAATAA
Found at i:9552791 original size:28 final size:28
Alignment explanation
Indices: 9552732--9552791 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
9552722 ATAACCTTTG
* *
9552732 TGGCAAAGTAAGAAAAGAAAAGCCTTTG
1 TGGCAAAGTAAGAAAAGAAAAGCCTCTA
* **
9552760 TGGCAAAGTATGAAAAGATCAGCCTCTA
1 TGGCAAAGTAAGAAAAGAAAAGCCTCTA
9552788 TGGC
1 TGGC
9552792 GATATTTGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.20
Consensus pattern (28 bp):
TGGCAAAGTAAGAAAAGAAAAGCCTCTA
Found at i:9554006 original size:18 final size:17
Alignment explanation
Indices: 9553956--9554009 Score: 54
Period size: 18 Copynumber: 3.1 Consensus size: 17
9553946 ACTATATAGA
*
9553956 TGAAAAACAATGATATT
1 TGAAAAATAATGATATT
* **
9553973 TGAAATATTTTAGATATT
1 TGAAAAATAAT-GATATT
9553991 TGAAAAAATAATGATATT
1 TG-AAAAATAATGATATT
9554009 T
1 T
9554010 TAAATAATTA
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
17 7 0.25
18 15 0.54
19 6 0.21
ACGTcount: A:0.48, C:0.02, G:0.11, T:0.39
Consensus pattern (17 bp):
TGAAAAATAATGATATT
Found at i:9557662 original size:21 final size:21
Alignment explanation
Indices: 9557621--9557663 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
9557611 TGATTTAACT
*
9557621 CCACTATTCATGAACTCGACA
1 CCACTATTCATAAACTCGACA
9557642 CCACTATTCATAAGACT-GACA
1 CCACTATTCATAA-ACTCGACA
9557663 C
1 C
9557664 TCTAACTGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.35, C:0.33, G:0.09, T:0.23
Consensus pattern (21 bp):
CCACTATTCATAAACTCGACA
Found at i:9563215 original size:47 final size:47
Alignment explanation
Indices: 9562864--9563218 Score: 295
Period size: 47 Copynumber: 7.6 Consensus size: 47
9562854 TGTGTGCTAC
* ** **
9562864 TGTAAGA-CATGTCTGGGACAT-GCATCAGCCACATTATGAGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATC-GACTTAGCATGAGAGCCAG
* * *
9562910 TGTAAGACCATGTCTGGGACATGGCATCGGCATTGAG-ACGAGAGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGAC-TT-AGCATGAGAGCCAG
* * *
9562958 TGTAAGA-CATGTTTGGGACAT-GCATCGGCCTCGAG-ATGTA-AGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATC-GACT-TAGCATG-AGAGCCAG
* * *
9563004 TGTAAGA-CATGTCTGGGACAT-GCATCGGC-TA-CATGATGTGTCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACTTAGCATGA-GAGCCAG
* *
9563048 TAG-AAGACCATGTCTGGGACATGGCATCGTCATGGATA-CATGAGAGTCAG
1 T-GTAAGACCATGTCTGGGACATGGCATCGAC-T---TAGCATGAGAGCCAG
* * * * * *
9563098 TGTAAGACCATGTCTGGGAAATTGCATCGACTTAACGTTAGAGTCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACTTAGCATGAGAGCCAG
*
9563145 TGTAAGACCATGTCTGGGACATGGCATCGACTTAGCATGAGAGCCGG
1 TGTAAGACCATGTCTGGGACATGGCATCGACTTAGCATGAGAGCCAG
*
9563192 TGTAAGACCAGGTCTGGGACATGGCAT
1 TGTAAGACCATGTCTGGGACATGGCAT
9563219 TGGCATTATA
Statistics
Matches: 258, Mismatches: 31, Indels: 39
0.79 0.09 0.12
Matches are distributed among these distances:
42 1 0.00
43 4 0.02
44 9 0.03
45 17 0.07
46 56 0.22
47 108 0.42
48 21 0.08
49 3 0.01
50 32 0.12
51 7 0.03
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (47 bp):
TGTAAGACCATGTCTGGGACATGGCATCGACTTAGCATGAGAGCCAG
Found at i:9567081 original size:20 final size:20
Alignment explanation
Indices: 9567056--9567094 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
9567046 AAAATTTCAA
9567056 TTATTTCAC-ACATTTACAAC
1 TTATTTCACAAC-TTTACAAC
*
9567076 TTATTTTACAACTTTACAA
1 TTATTTCACAACTTTACAA
9567095 AATAGGCCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATTTCACAACTTTACAAC
Found at i:9573328 original size:39 final size:39
Alignment explanation
Indices: 9573285--9573658 Score: 448
Period size: 39 Copynumber: 9.6 Consensus size: 39
9573275 AATATGTCTT
*
9573285 TGAGTATTGTGATATATGCTTTAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
* ** * *
9573324 TGAGTATTGTGATATAAGCTTAAACATTTTGTTATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
9573363 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
* * ** *
9573402 TGAGTTTTGTGATATATTCTTAAACATTATGTGACTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
* **
9573441 TGAGTATTGTGACATATGCTTAAACATTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
* * *
9573480 TGAGTATTAT-AGTATATGATTAAATGTTATATGATTATA
1 TGAGTATTGTGA-TATATGCTTAAATGTTATGTGATTATA
* * *
9573519 TGAGCACTATGATATATGCTTAAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
* * * *
9573558 TGAGGACTGT-AAATTATGCTTAAACGTTATGTGATTATA
1 TGAGTATTGTGATA-TATGCTTAAATGTTATGTGATTATA
* * *
9573597 TGAGTATTGTGACAT-TGTTTAAATGTTATGTGATTACA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
* *
9573635 TGTGTAATGTGATATATGCTTAAA
1 TGAGTATTGTGATATATGCTTAAA
9573659 AGTGAATATG
Statistics
Matches: 286, Mismatches: 44, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
38 35 0.12
39 248 0.87
40 3 0.01
ACGTcount: A:0.32, C:0.05, G:0.18, T:0.44
Consensus pattern (39 bp):
TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
Found at i:9573519 original size:8 final size:8
Alignment explanation
Indices: 9573466--9573560 Score: 63
Period size: 8 Copynumber: 12.1 Consensus size: 8
9573456 ATGCTTAAAC
*
9573466 ATTATGTG
1 ATTATATG
9573474 ATTATATG
1 ATTATATG
*
9573482 AGTATTAT-
1 ATTA-TATG
*
9573490 AGTATATG
1 ATTATATG
*
9573498 ATTAAATG
1 ATTATATG
9573506 -TTATATG
1 ATTATATG
9573513 ATTATATG
1 ATTATATG
**
9573521 AGCACTATG
1 ATTA-TATG
9573530 A-TATATG
1 ATTATATG
* *
9573537 CTTAAATG
1 ATTATATG
*
9573545 -TTATGTG
1 ATTATATG
9573552 ATTATATG
1 ATTATATG
9573560 A
1 A
9573561 GGACTGTAAA
Statistics
Matches: 68, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
7 18 0.26
8 42 0.62
9 8 0.12
ACGTcount: A:0.36, C:0.03, G:0.17, T:0.44
Consensus pattern (8 bp):
ATTATATG
Found at i:9577086 original size:18 final size:18
Alignment explanation
Indices: 9577038--9577089 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
9577028 CACTTAAGCG
*
9577038 AATTCTCAAACTTAAGTAA
1 AATT-TCAAACTTAAGAAA
* *
9577057 ACTTTCACACTTAAGAAA
1 AATTTCAAACTTAAGAAA
*
9577075 AATTTTAAACTTAAG
1 AATTTCAAACTTAAG
9577090 CACAATTTTT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
18 24 0.89
19 3 0.11
ACGTcount: A:0.46, C:0.15, G:0.06, T:0.33
Consensus pattern (18 bp):
AATTTCAAACTTAAGAAA
Found at i:9577278 original size:70 final size:70
Alignment explanation
Indices: 9577198--9577808 Score: 523
Period size: 70 Copynumber: 8.7 Consensus size: 70
9577188 TTGAGCTTGT
* * ** *
9577198 GAGCCTTAAGATCACAGTTGGGAGTTTGAGCTC-TAGCTAACTATTTAGGAGGCTATGGTGTTGA
1 GAGCCTTAAGATCACAGTTGGGAGCTTGAGCTCAT-GCTAACTATTTTGGAGGCTGCGATGTTGA
*
9577262 ACTTGC
65 ACCTGC
* * * ** *
9577268 GAGCCTTAAGATCACAGCTGGGAGTTTGACCTCGCGTTAACTATTTTGGAGGCTGC-AGTGTTGA
1 GAGCCTTAAGATCACAGTTGGGAGCTTGAGCTCATGCTAACTATTTTGGAGGCTGCGA-TGTTGA
* *
9577332 ACTTGT
65 ACCTGC
* ** * ** * * * * * *
9577338 AAGCCTTAAGATCACAACTGGGAGCTTGAGCTTACACTAACTGTTTAGAAGGCTGTGCTGTTAAA
1 GAGCCTTAAGATCACAGTTGGGAGCTTGAGCTCATGCTAACTATTTTGGAGGCTGCGATGTTGAA
9577403 CCTGC
66 CCTGC
* * * * * *
9577408 AAGCCTTAAGATCACAGTTGGGAGTTTGAACTCATGCTAACTATTTTGTTA-GCTGCAAAGTTGA
1 GAGCCTTAAGATCACAGTTGGGAGCTTGAGCTCATGCTAACTATTTTG-GAGGCTGCGATGTTGA
* *
9577472 ACATAC
65 ACCTGC
* *
9577478 GAGCCTTAAGATCACAGTTGGGAGCTTGAGCTCATGCTAACTA-TTTGAGAGGCTACAATGTTGA
1 GAGCCTTAAGATCACAGTTGGGAGCTTGAGCTCATGCTAACTATTTTG-GAGGCTGCGATGTTGA
**
9577542 ACCTAT
65 ACCTGC
* ** *
9577548 GAGCCTTAAGATCACA-TCTGGGTGCTTGAGCTCGCGCTAACTATTTTGGAGGCTACGATGTTGA
1 GAGCCTTAAGATCACAGT-TGGGAGCTTGAGCTCATGCTAACTATTTTGGAGGCTGCGATGTTGA
*
9577612 ACCTGT
65 ACCTGC
* * * ** * * ** * * * *
9577618 GCGCCATAAAATCACAACTAGGAGCTTGAGCTAACACTAACTATTTTGGAGGTTGTGGTGTTCAA
1 GAGCCTTAAGATCACAGTTGGGAGCTTGAGCTCATGCTAACTATTTTGGAGGCTGCGATGTTGAA
9577683 CCTGC
66 CCTGC
*
9577688 GAGCCTTAAGATCACAGTTGGAAGCTTGAGCTCATGCTAACTATTTTGGAGGCTGC-ATGTTGAA
1 GAGCCTTAAGATCACAGTTGGGAGCTTGAGCTCATGCTAACTATTTTGGAGGCTGCGATGTTGAA
**
9577752 CCTAT
66 CCTGC
* * * * * * * **
9577757 GAACCTTAAAATCAAAGCTAGGAGCTTGAGTTCGTGCTAACTGCTTTGGAGG
1 GAGCCTTAAGATCACAGTTGGGAGCTTGAGCTCATGCTAACTATTTTGGAGG
9577809 ATCATATAAA
Statistics
Matches: 436, Mismatches: 97, Indels: 17
0.79 0.18 0.03
Matches are distributed among these distances:
69 57 0.13
70 374 0.86
71 5 0.01
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (70 bp):
GAGCCTTAAGATCACAGTTGGGAGCTTGAGCTCATGCTAACTATTTTGGAGGCTGCGATGTTGAA
CCTGC
Found at i:9577368 original size:140 final size:140
Alignment explanation
Indices: 9577188--9577786 Score: 580
Period size: 140 Copynumber: 4.3 Consensus size: 140
9577178 TGTGGAGTTT
* ** *
9577188 TTGAGCTTGTGAGCCTTAAGATCACAGTTGGGAGTTTGAGCTCTA-GCTAACTATTTAGGAGGCT
1 TTGAACTTGTGAGCCTTAAGATCACAACTGGGAGCTTGAGCTC-ACGCTAACTATTTAGGAGGCT
* * * * *
9577252 ATGGTGTTGAACTTGCGAGCCTTAAGATCACAGCTGGGAGTTTGACCTCGCGTTAACTATTTTGG
65 ATGGTGTTGAACCTGCGAGCCTTAAGATCACAGCTGGGAGCTTGAGCTCACGCTAACTATTTTGG
9577317 AGGCTGCAGTG
130 AGGCTGCAGTG
* * * * * *
9577328 TTGAACTTGTAAGCCTTAAGATCACAACTGGGAGCTTGAGCTTACACTAACTGTTTAGAAGGCTG
1 TTGAACTTGTGAGCCTTAAGATCACAACTGGGAGCTTGAGCTCACGCTAACTATTTAGGAGGCTA
* * * * * * * *
9577393 TGCTGTTAAACCTGCAAGCCTTAAGATCACAGTTGGGAGTTTGAACTCATGCTAACTATTTTGTT
66 TGGTGTTGAACCTGCGAGCCTTAAGATCACAGCTGGGAGCTTGAGCTCACGCTAACTATTTTG-G
**
9577458 A-GCTGCAAAG
130 AGGCTGCAGTG
* ** ** *
9577468 TTGAACATACGAGCCTTAAGATCACAGTTGGGAGCTTGAGCTCATGCTAACTATTT-GAGAGGCT
1 TTGAACTTGTGAGCCTTAAGATCACAACTGGGAGCTTGAGCTCACGCTAACTATTTAG-GAGGCT
*** ** * * *
9577532 ACAATGTTGAACCTATGAGCCTTAAGATCACATCTGGGTGCTTGAGCTCGCGCTAACTATTTTGG
65 ATGGTGTTGAACCTGCGAGCCTTAAGATCACAGCTGGGAGCTTGAGCTCACGCTAACTATTTTGG
*
9577597 AGGCTAC-GATG
130 AGGCTGCAG-TG
* * * * * * * * * *
9577608 TTGAACCTGTGCGCCATAAAATCACAACTAGGAGCTTGAGCTAACACTAACTATTTTGGAGGTTG
1 TTGAACTTGTGAGCCTTAAGATCACAACTGGGAGCTTGAGCTCACGCTAACTATTTAGGAGGCTA
* * * *
9577673 TGGTGTTCAACCTGCGAGCCTTAAGATCACAGTTGGAAGCTTGAGCTCATGCTAACTATTTTGGA
66 TGGTGTTGAACCTGCGAGCCTTAAGATCACAGCTGGGAGCTTGAGCTCACGCTAACTATTTTGGA
9577738 GGCTGCA-TG
131 GGCTGCAGTG
* * * * *
9577747 TTGAACCTATGAACCTTAAAATCA-AAGCTAGGAGCTTGAG
1 TTGAACTTGTGAGCCTTAAGATCACAA-CTGGGAGCTTGAG
9577787 TTCGTGCTAA
Statistics
Matches: 368, Mismatches: 83, Indels: 17
0.79 0.18 0.04
Matches are distributed among these distances:
138 2 0.01
139 38 0.10
140 326 0.89
141 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.30
Consensus pattern (140 bp):
TTGAACTTGTGAGCCTTAAGATCACAACTGGGAGCTTGAGCTCACGCTAACTATTTAGGAGGCTA
TGGTGTTGAACCTGCGAGCCTTAAGATCACAGCTGGGAGCTTGAGCTCACGCTAACTATTTTGGA
GGCTGCAGTG
Found at i:9577542 original size:210 final size:210
Alignment explanation
Indices: 9577199--9577786 Score: 614
Period size: 210 Copynumber: 2.8 Consensus size: 210
9577189 TGAGCTTGTG
* *
9577199 AGCCTTAAGATCACAGTTGGGAGTTTGAGCTC-TAGCTAACTATTTAGGAGGCTATGGTGTTGAA
1 AGCCTTAAGATCACAGTTGGGAGTTTGAGCTCAT-GCTAACTATTTTGGAGGCTGTGGTGTTGAA
* * * * ** * *
9577263 CTTGCGAGCCTTAAGATCACAGCTGGGAGTTTGACCTCGCGTTAACTATTTTGGAGGCTGCAGTG
65 CATGCGAGCCTTAAGATCACAGTTGGGAGCTTGAGCTCATGCTAACTATTTTGGAGGCTGCAATG
* * *
9577328 TTGAACTTGTAAGCCTTAAGATCACAACTGGGAGCTTGAGCTTACACTAACTGTTTAGAAGGCTG
130 TTGAACTTGTAAGCCTTAAGATCACAACTGGGAGCTTGAGCTCACACTAACTATTTAGAAGGCTA
* *
9577393 TGCTGTTAAACCTGCA
195 CGATGTTAAACCTGCA
* * ****
9577409 AGCCTTAAGATCACAGTTGGGAGTTTGAACTCATGCTAACTATTTTGTTA-GCTGCAAAGTTGAA
1 AGCCTTAAGATCACAGTTGGGAGTTTGAGCTCATGCTAACTATTTTG-GAGGCTGTGGTGTTGAA
* *
9577473 CATACGAGCCTTAAGATCACAGTTGGGAGCTTGAGCTCATGCTAACTA-TTTGAGAGGCTACAAT
65 CATGCGAGCCTTAAGATCACAGTTGGGAGCTTGAGCTCATGCTAACTATTTTG-GAGGCTGCAAT
* * * * * * * * *
9577537 GTTGAACCTATGAGCCTTAAGATCACATCTGGGTGCTTGAGCTCGCGCTAACTATTTTGGAGGCT
129 GTTGAACTTGTAAGCCTTAAGATCACAACTGGGAGCTTGAGCTCACACTAACTATTTAGAAGGCT
* **
9577602 ACGATGTTGAACCTGTG
194 ACGATGTTAAACCTGCA
* * * ** * * * ** * *
9577619 CGCCATAAAATCACAACTAGGAGCTTGAGCTAACACTAACTATTTTGGAGGTTGTGGTGTTCAAC
1 AGCCTTAAGATCACAGTTGGGAGTTTGAGCTCATGCTAACTATTTTGGAGGCTGTGGTGTTGAAC
* *
9577684 CTGCGAGCCTTAAGATCACAGTTGGAAGCTTGAGCTCATGCTAACTATTTTGGAGGCTGC-ATGT
66 ATGCGAGCCTTAAGATCACAGTTGGGAGCTTGAGCTCATGCTAACTATTTTGGAGGCTGCAATGT
* *
9577748 TGAACCTATG-AA-CCTTAAAATCA-AAGCTAGGAGCTTGAG
131 TGAA-CT-TGTAAGCCTTAAGATCACAA-CTGGGAGCTTGAG
9577787 TTCGTGCTAA
Statistics
Matches: 306, Mismatches: 64, Indels: 17
0.79 0.17 0.04
Matches are distributed among these distances:
208 1 0.00
209 34 0.11
210 264 0.86
211 7 0.02
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (210 bp):
AGCCTTAAGATCACAGTTGGGAGTTTGAGCTCATGCTAACTATTTTGGAGGCTGTGGTGTTGAAC
ATGCGAGCCTTAAGATCACAGTTGGGAGCTTGAGCTCATGCTAACTATTTTGGAGGCTGCAATGT
TGAACTTGTAAGCCTTAAGATCACAACTGGGAGCTTGAGCTCACACTAACTATTTAGAAGGCTAC
GATGTTAAACCTGCA
Found at i:9581949 original size:25 final size:25
Alignment explanation
Indices: 9581901--9581950 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
9581891 GAAATGTATG
* *
9581901 ATTATTGTGTTGTAAGTTCGATAAT
1 ATTATTGTGTTGTAAGTCCAATAAT
9581926 ATTATTGTGTTGTAAGTCCAATAAT
1 ATTATTGTGTTGTAAGTCCAATAAT
9581951 TCTCCGTAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.30, C:0.06, G:0.18, T:0.46
Consensus pattern (25 bp):
ATTATTGTGTTGTAAGTCCAATAAT
Found at i:9589666 original size:40 final size:41
Alignment explanation
Indices: 9589595--9589671 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 41
9589585 GTTAGAGCTA
*
9589595 TAGTGGCGTTTATGATAAAAACACCGCAAAAGGTCAATCAT
1 TAGTGGCATTTATGATAAAAACACCGCAAAAGGTCAATCAT
* ** *
9589636 TAGTGGCATTTATTA-AAAAATGCCGTAAAAGGTCAA
1 TAGTGGCATTTATGATAAAAACACCGCAAAAGGTCAA
9589672 GCAGTTGCGA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
40 18 0.58
41 13 0.42
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.26
Consensus pattern (41 bp):
TAGTGGCATTTATGATAAAAACACCGCAAAAGGTCAATCAT
Found at i:9591674 original size:13 final size:13
Alignment explanation
Indices: 9591656--9591683 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
9591646 ACAAAATTGA
9591656 AAAGATGATAAAT
1 AAAGATGATAAAT
9591669 AAAGATGATAAAT
1 AAAGATGATAAAT
9591682 AA
1 AA
9591684 TAAAATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.64, C:0.00, G:0.14, T:0.21
Consensus pattern (13 bp):
AAAGATGATAAAT
Found at i:9592753 original size:26 final size:26
Alignment explanation
Indices: 9592724--9592781 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
9592714 CTCGATATAT
9592724 GGCTCTTCGTAAGCTTCCCGATTAAA
1 GGCTCTTCGTAAGCTTCCCGATTAAA
* * ** *
9592750 GGCTCTTTGTGAGCTTCTTGATTAAT
1 GGCTCTTCGTAAGCTTCCCGATTAAA
9592776 GGCTCT
1 GGCTCT
9592782 CAGGCGCTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.38
Consensus pattern (26 bp):
GGCTCTTCGTAAGCTTCCCGATTAAA
Found at i:9601820 original size:46 final size:45
Alignment explanation
Indices: 9601730--9601849 Score: 129
Period size: 46 Copynumber: 2.6 Consensus size: 45
9601720 GTGTCGATGC
*
9601730 CATGTCCCAGACATGATCTTACACTAACTATCATCTCACAGCCGACG
1 CATGT-CCAGACAT-ATCTTACACTAGCTATCATCTCACAGCCGACG
*
9601777 CATGTCTCAGACATATCTTACACTAGCT-TACATC-C-CGAGGCCGATG
1 CATGTC-CAGACATATCTTACACTAGCTAT-CATCTCAC-A-GCCGACG
*
9601823 CATGTCCTAGACATGTCTTACACTAGC
1 CATGTCC-AGACATATCTTACACTAGC
9601850 ACTCGTCTCA
Statistics
Matches: 65, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
44 1 0.02
45 4 0.06
46 48 0.74
47 12 0.18
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.26
Consensus pattern (45 bp):
CATGTCCAGACATATCTTACACTAGCTATCATCTCACAGCCGACG
Found at i:9601922 original size:94 final size:92
Alignment explanation
Indices: 9601724--9601944 Score: 257
Period size: 94 Copynumber: 2.4 Consensus size: 92
9601714 GGTAAGGTGT
* * *
9601724 CGATGCCATGTCCCAGACATGATCTTACACTAACTATCATCTCACAGCCGACGCATGTCTCAGAC
1 CGATG-CATGTCCCAGACATG-TCTTACACTAGCTATCATCTCACAACCGACGCATGTCCCAGAC
**
9601789 ATATCTTACACTAGCTTACATCCCGAGGC
64 ATATCTTACACTAGCTTACATAACGAGGC
* * *
9601818 CGATGCATGTCCTAGACATGTCTTACACTAGC-ACTCGTCTCA-ATACCGATGCCATGTCCCAGA
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTA-TCATCTCACA-ACCGACG-CATGTCCCAGA
* * * * *
9601881 CATGGTCTTACACTGGCTTTCATAATGTGGC
63 CAT-ATCTTACACTAGCTTACATAACGAGGC
9601912 CGATGCATGTCCCAGACATGTCTTACACTAGCT
1 CGATGCATGTCCCAGACATGTCTTACACTAGCT
9601945 CACACAAGTG
Statistics
Matches: 108, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
91 2 0.02
92 23 0.21
93 27 0.25
94 56 0.52
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.27
Consensus pattern (92 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTATCATCTCACAACCGACGCATGTCCCAGACAT
ATCTTACACTAGCTTACATAACGAGGC
Found at i:9603908 original size:29 final size:28
Alignment explanation
Indices: 9603876--9603948 Score: 92
Period size: 28 Copynumber: 2.5 Consensus size: 28
9603866 GACAACCATC
*
9603876 GAATATGAAAAGGGATAGCTTCGGCTATT
1 GAATATGAAAA-GGATAGCTTCAGCTATT
* *
9603905 GAATATGAAAAGGATAGGTTTAGCTATT
1 GAATATGAAAAGGATAGCTTCAGCTATT
*
9603933 GATTATGAAAATGGAT
1 GAATATGAAAA-GGAT
9603949 GGTGATGACC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 24 0.62
29 15 0.38
ACGTcount: A:0.38, C:0.05, G:0.26, T:0.30
Consensus pattern (28 bp):
GAATATGAAAAGGATAGCTTCAGCTATT
Found at i:9604003 original size:29 final size:28
Alignment explanation
Indices: 9603876--9604004 Score: 107
Period size: 29 Copynumber: 4.5 Consensus size: 28
9603866 GACAACCATC
* * * *
9603876 GAATATGAAAAGGGATAGCTTCGGCTATT
1 GAATATGAAAA-GGATGGTTTTGACTATT
*
9603905 GAATATGAAAAGGATAGGTTTAG-CTATT
1 GAATATGAAAAGGAT-GGTTTTGACTATT
* ** * *
9603933 GATTATGAAAATGGATGGTGATGACCATC
1 GAATATGAAAA-GGATGGTTTTGACTATT
*
9603962 GATTAATGAAAAGCGATGGTTTTGACTATT
1 GAAT-ATGAAAAG-GATGGTTTTGACTATT
9603992 GAATATGAAAAGG
1 GAATATGAAAAGG
9604005 GACGGTAACC
Statistics
Matches: 81, Mismatches: 14, Indels: 11
0.76 0.13 0.10
Matches are distributed among these distances:
28 24 0.30
29 35 0.43
30 22 0.27
ACGTcount: A:0.37, C:0.07, G:0.26, T:0.29
Consensus pattern (28 bp):
GAATATGAAAAGGATGGTTTTGACTATT
Found at i:9604909 original size:46 final size:45
Alignment explanation
Indices: 9604768--9604986 Score: 189
Period size: 46 Copynumber: 4.8 Consensus size: 45
9604758 TCATTTGTGT
* * *
9604768 GCTAGTGTAAGACATGTCTGGGACATGCATTGG-ATACAACATG-T
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCAT-CGACATGAA
* * * *
9604812 G-TCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGAGACGAGA
1 GCT-AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATCGACATGA-A
* *
9604860 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGATATGGAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGACAT-GAA
* * *
9604906 GCTAGTGTAAGACATGTCTGGGACATGCATTGG-ATACAACATG-T
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCAT-CGACATGAA
*
9604950 G-TCAGTGTAAGACCATGTTTGGGACATGGCATCGGCA
1 GCT-AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCA
9604987 CAGATATGTG
Statistics
Matches: 143, Mismatches: 19, Indels: 23
0.77 0.10 0.12
Matches are distributed among these distances:
43 2 0.01
44 20 0.14
45 28 0.20
46 64 0.45
47 18 0.13
48 10 0.07
49 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.25
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGACATGAA
Found at i:9614662 original size:26 final size:26
Alignment explanation
Indices: 9614628--9614677 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
9614618 CATGCTATTA
9614628 TAATGCTTATTATTTTCATATGGAAT
1 TAATGCTTATTATTTTCATATGGAAT
9614654 TAATGCTTATTATTTTCATATGGA
1 TAATGCTTATTATTTTCATATGGA
9614678 CTTACTAAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.30, C:0.08, G:0.12, T:0.50
Consensus pattern (26 bp):
TAATGCTTATTATTTTCATATGGAAT
Found at i:9615394 original size:55 final size:54
Alignment explanation
Indices: 9615335--9615439 Score: 122
Period size: 55 Copynumber: 1.9 Consensus size: 54
9615325 TTAGTATAGG
* * *
9615335 ACATGGATAGGTCAAACA-GGCGTGTCTCATAGCCGTGTCCCAAAGTCAGTATTGA
1 ACATGGACAGG-C-AACAGGGCATGTCTCATAGCCGTGTCCAAAAGTCAGTATTGA
* * *
9615390 ACATGGACAGGCAGCATGGGCATGTGTCATAGCCGTGTTCAAAAGTCAGT
1 ACATGGACAGGCAACA-GGGCATGTCTCATAGCCGTGTCCAAAAGTCAGT
9615440 GTTGCCCACG
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
53 3 0.07
54 1 0.02
55 38 0.90
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.23
Consensus pattern (54 bp):
ACATGGACAGGCAACAGGGCATGTCTCATAGCCGTGTCCAAAAGTCAGTATTGA
Found at i:9620246 original size:46 final size:46
Alignment explanation
Indices: 9620035--9620291 Score: 233
Period size: 46 Copynumber: 5.5 Consensus size: 46
9620025 TATGTGAGCT
* * *
9620035 AGTGTAAGACATGTCTGGGACATGCATCGGAC-AC-ATCATGAAAGTC
1 AGTGTAAGACATGTCTGGGACATGCGTCGG-CTACGA-GATGATAGTC
* *
9620081 AGTGTAAGACCATGTCTGGGACATG-GTATCGGC-ATTGAGACG--AGTGC
1 AGTGTAAGA-CATGTCTGGGACATGCG--TCGGCTA-CGAGATGATAGT-C
* * * *
9620128 TAATGTAAGACATGTCTGGGACATGCATCGACCT-CGAGATG-TAAGCC
1 -AGTGTAAGACATGTCTGGGACATGCGTCG-GCTACGAGATGAT-AGTC
*
9620175 AGTGTAAGACATGTCTGGGACATGCGTCGGCTATGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCGTCGGCTACGAGATGATAGTC
* *
9620221 AGTGTAAGACATGTCTGGAACATGCGTCAGCTACGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCGTCGGCTACGAGATGATAGTC
* *
9620267 AGAGTAAGATCATGTCAGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
9620292 GCATTGACAC
Statistics
Matches: 175, Mismatches: 21, Indels: 29
0.78 0.09 0.13
Matches are distributed among these distances:
45 2 0.01
46 107 0.61
47 49 0.28
48 16 0.09
49 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.30, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCGTCGGCTACGAGATGATAGTC
Found at i:9625075 original size:27 final size:26
Alignment explanation
Indices: 9625045--9625100 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
9625035 TATATTGATG
* *
9625045 AAATAATCGTTATACCCCTAAGAGGTA
1 AAATAA-CATTATAACCCTAAGAGGTA
* *
9625072 AAATGACATTATAACCCTATGAGGTA
1 AAATAACATTATAACCCTAAGAGGTA
9625098 AAA
1 AAA
9625101 GACTGATATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 20 0.80
27 5 0.20
ACGTcount: A:0.45, C:0.16, G:0.14, T:0.25
Consensus pattern (26 bp):
AAATAACATTATAACCCTAAGAGGTA
Found at i:9626969 original size:7 final size:7
Alignment explanation
Indices: 9626957--9626985 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
9626947 AGATTAGGTT
9626957 TAGAGGG
1 TAGAGGG
9626964 TAGAGGG
1 TAGAGGG
9626971 TAGAGGG
1 TAGAGGG
9626978 TAGAGGG
1 TAGAGGG
9626985 T
1 T
9626986 GACGGGGGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.28, C:0.00, G:0.55, T:0.17
Consensus pattern (7 bp):
TAGAGGG
Found at i:9628740 original size:7 final size:7
Alignment explanation
Indices: 9628730--9628765 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
9628720 TAGTTTAAAG
9628730 TTCAAAA
1 TTCAAAA
9628737 TTCAAAA
1 TTCAAAA
*
9628744 TTTAAAA
1 TTCAAAA
9628751 TTCAAAAA
1 TTC-AAAA
9628759 TTCAAAA
1 TTCAAAA
9628766 ATAATATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
7 19 0.73
8 7 0.27
ACGTcount: A:0.58, C:0.11, G:0.00, T:0.31
Consensus pattern (7 bp):
TTCAAAA
Found at i:9629317 original size:7 final size:7
Alignment explanation
Indices: 9629302--9629332 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
9629292 TTTAAATTTC
9629302 AAAATTA
1 AAAATTA
*
9629309 AAGATTA
1 AAAATTA
9629316 AAAATTA
1 AAAATTA
9629323 AAAATTA
1 AAAATTA
9629330 AAA
1 AAA
9629333 CATAATATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (7 bp):
AAAATTA
Found at i:9629432 original size:19 final size:19
Alignment explanation
Indices: 9629398--9629442 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
9629388 ATTTATTATT
*
9629398 TATTATAA-AGATAAATAC
1 TATTATAATAAATAAATAC
*
9629416 TATTATAATAAATAAATAT
1 TATTATAATAAATAAATAC
9629435 TATT-TAAT
1 TATTATAAT
9629443 TACCATAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 12 0.50
19 12 0.50
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (19 bp):
TATTATAATAAATAAATAC
Found at i:9633158 original size:65 final size:65
Alignment explanation
Indices: 9633082--9633213 Score: 246
Period size: 65 Copynumber: 2.0 Consensus size: 65
9633072 AGTTTACCCT
*
9633082 TTCAATTGATGTCGGAGGTGAGAGAGGAAAAGGTCATACCACGAAGATTTTAACTATCAAATAAC
1 TTCAATTGATGTCGGAGGTGAGAGAGGAAAAAGTCATACCACGAAGATTTTAACTATCAAATAAC
*
9633147 TTCAATTGATGTCGGAGGTGAGAGAGGAAAAAGTCATACCATGAAGATTTTAACTATCAAATAAC
1 TTCAATTGATGTCGGAGGTGAGAGAGGAAAAAGTCATACCACGAAGATTTTAACTATCAAATAAC
9633212 TT
1 TT
9633214 AAATGAAAAC
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.39, C:0.13, G:0.22, T:0.27
Consensus pattern (65 bp):
TTCAATTGATGTCGGAGGTGAGAGAGGAAAAAGTCATACCACGAAGATTTTAACTATCAAATAAC
Found at i:9635198 original size:12 final size:12
Alignment explanation
Indices: 9635183--9635226 Score: 70
Period size: 12 Copynumber: 3.7 Consensus size: 12
9635173 TTGGGAATTA
9635183 GATTTGGGTTTG
1 GATTTGGGTTTG
9635195 GATTTGGGTTTG
1 GATTTGGGTTTG
*
9635207 GATTTGGATTTG
1 GATTTGGGTTTG
*
9635219 GGTTTGGG
1 GATTTGGG
9635227 GCTGAAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.09, C:0.00, G:0.43, T:0.48
Consensus pattern (12 bp):
GATTTGGGTTTG
Found at i:9635200 original size:6 final size:6
Alignment explanation
Indices: 9635183--9635225 Score: 59
Period size: 6 Copynumber: 7.2 Consensus size: 6
9635173 TTGGGAATTA
* * *
9635183 GATTTG GGTTTG GATTTG GGTTTG GATTTG GATTTG GGTTTG G
1 GATTTG GATTTG GATTTG GATTTG GATTTG GATTTG GATTTG G
9635226 GGCTGAAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.09, C:0.00, G:0.42, T:0.49
Consensus pattern (6 bp):
GATTTG
Found at i:9635212 original size:18 final size:18
Alignment explanation
Indices: 9635185--9635225 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
9635175 GGGAATTAGA
*
9635185 TTTGGGTTTGGATTTGGG
1 TTTGGATTTGGATTTGGG
9635203 TTTGGATTTGGATTTGGG
1 TTTGGATTTGGATTTGGG
9635221 TTTGG
1 TTTGG
9635226 GGCTGAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.07, C:0.00, G:0.41, T:0.51
Consensus pattern (18 bp):
TTTGGATTTGGATTTGGG
Found at i:9637125 original size:18 final size:17
Alignment explanation
Indices: 9637099--9637133 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
9637089 TCATATTACG
9637099 GCCCATGTGGGCCCACAT
1 GCCCATGT-GGCCCACAT
*
9637117 GCCCGTGTGGCCCACAT
1 GCCCATGTGGCCCACAT
9637134 AGCCTAGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.14, C:0.40, G:0.29, T:0.17
Consensus pattern (17 bp):
GCCCATGTGGCCCACAT
Found at i:9637916 original size:58 final size:58
Alignment explanation
Indices: 9637852--9637971 Score: 231
Period size: 58 Copynumber: 2.1 Consensus size: 58
9637842 CAAAGAGGGA
9637852 GAAAGAAAAAGAATCACACCCATACTGAAAGTCAGACTTACCAAAATGCAAAACCAAT
1 GAAAGAAAAAGAATCACACCCATACTGAAAGTCAGACTTACCAAAATGCAAAACCAAT
*
9637910 GAAAGAAAAAGAATCACACCCATACTGAAAGTTAGACTTACCAAAATGCAAAACCAAT
1 GAAAGAAAAAGAATCACACCCATACTGAAAGTCAGACTTACCAAAATGCAAAACCAAT
9637968 GAAA
1 GAAA
9637972 AGGAATGACT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 61 1.00
ACGTcount: A:0.53, C:0.21, G:0.12, T:0.14
Consensus pattern (58 bp):
GAAAGAAAAAGAATCACACCCATACTGAAAGTCAGACTTACCAAAATGCAAAACCAAT
Found at i:9647093 original size:29 final size:29
Alignment explanation
Indices: 9647032--9647093 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
9647022 ATTTGTACAT
* * *
9647032 GATGGATTCTGAAAAAGTAGTTTTGAGGG
1 GATGGATTCTGAAAAAATAGTTTTGACGA
*
9647061 GATGGGTTCT-AAAGAAATAGTTTTGACGA
1 GATGGATTCTGAAA-AAATAGTTTTGACGA
9647090 GATG
1 GATG
9647094 AGTTGAGAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 3 0.11
29 25 0.89
ACGTcount: A:0.32, C:0.05, G:0.32, T:0.31
Consensus pattern (29 bp):
GATGGATTCTGAAAAAATAGTTTTGACGA
Found at i:9651553 original size:329 final size:329
Alignment explanation
Indices: 9650955--9651763 Score: 1618
Period size: 329 Copynumber: 2.5 Consensus size: 329
9650945 TTAAAGAGGT
9650955 TCAAAAGCATAAAGATAACAAAACATAAGAAGACCCAAAACTCCTGAAGGAACTTGAAGGGAGAT
1 TCAAAAGCATAAAGATAACAAAACATAAGAAGACCCAAAACTCCTGAAGGAACTTGAAGGGAGAT
9651020 CTCCAGTCTTGATGATGAATTCGGCTCTTGAGATGGATCAATCGGCTTTCCTTAAGTAAAACCTT
66 CTCCAGTCTTGATGATGAATTCGGCTCTTGAGATGGATCAATCGGCTTTCCTTAAGTAAAACCTT
9651085 GCTTCCTACTCTGCCTCCTCTGAATAAGAGCTTAACTTGAATTAATATCCTGGAATATCAAAACA
131 GCTTCCTACTCTGCCTCCTCTGAATAAGAGCTTAACTTGAATTAATATCCTGGAATATCAAAACA
9651150 AGAATTAAGAGCACATAATTAAGAACAAGTCAAATATTTATCATACAATTCAGATAATAATAACA
196 AGAATTAAGAGCACATAATTAAGAACAAGTCAAATATTTATCATACAATTCAGATAATAATAACA
9651215 AGATCTGTCTTAGGTTTTATTCCCCTTAGGTATTTAGGGGTTTAGTTCATACTTATGAAAGAAAA
261 AGATCTGTCTTAGGTTTTATTCCCCTTAGGTATTTAGGGGTTTAGTTCATACTTATGAAAGAAAA
9651280 CATC
326 CATC
9651284 TCAAAAGCATAAAGATAACAAAACATAAGAAGACCCAAAACTCCTGAAGGAACTTGAAGGGAGAT
1 TCAAAAGCATAAAGATAACAAAACATAAGAAGACCCAAAACTCCTGAAGGAACTTGAAGGGAGAT
9651349 CTCCAGTCTTGATGATGAATTCGGCTCTTGAGATGGATCAATCGGCTTTCCTTAAGTAAAACCTT
66 CTCCAGTCTTGATGATGAATTCGGCTCTTGAGATGGATCAATCGGCTTTCCTTAAGTAAAACCTT
9651414 GCTTCCTACTCTGCCTCCTCTGAATAAGAGCTTAACTTGAATTAATATCCTGGAATATCAAAACA
131 GCTTCCTACTCTGCCTCCTCTGAATAAGAGCTTAACTTGAATTAATATCCTGGAATATCAAAACA
9651479 AGAATTAAGAGCACATAATTAAGAACAAGTCAAATATTTATCATACAATTCAGATAATAATAACA
196 AGAATTAAGAGCACATAATTAAGAACAAGTCAAATATTTATCATACAATTCAGATAATAATAACA
9651544 AGATCTGTCTTAGGTTTTATTCCCCTTAGGTATTTAGGGGTTTAGTTCATACTTATGAAAGAAAA
261 AGATCTGTCTTAGGTTTTATTCCCCTTAGGTATTTAGGGGTTTAGTTCATACTTATGAAAGAAAA
9651609 CATC
326 CATC
9651613 TCAAAAGCATAAAGATAACAAAACATAAGAAGACCCAAAACTCCTGAAGGAACTTGAAGGGAGAT
1 TCAAAAGCATAAAGATAACAAAACATAAGAAGACCCAAAACTCCTGAAGGAACTTGAAGGGAGAT
9651678 CTCCAGTCTTGATGATGAATTCGGCTCTTGAGATGGATCAATCGGCTTTCCTTAAGTAAAACCTT
66 CTCCAGTCTTGATGATGAATTCGGCTCTTGAGATGGATCAATCGGCTTTCCTTAAGTAAAACCTT
9651743 GCTTCCTACTCTGCCTCCTCT
131 GCTTCCTACTCTGCCTCCTCT
9651764 TTCCTAAGTG
Statistics
Matches: 480, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
329 480 1.00
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (329 bp):
TCAAAAGCATAAAGATAACAAAACATAAGAAGACCCAAAACTCCTGAAGGAACTTGAAGGGAGAT
CTCCAGTCTTGATGATGAATTCGGCTCTTGAGATGGATCAATCGGCTTTCCTTAAGTAAAACCTT
GCTTCCTACTCTGCCTCCTCTGAATAAGAGCTTAACTTGAATTAATATCCTGGAATATCAAAACA
AGAATTAAGAGCACATAATTAAGAACAAGTCAAATATTTATCATACAATTCAGATAATAATAACA
AGATCTGTCTTAGGTTTTATTCCCCTTAGGTATTTAGGGGTTTAGTTCATACTTATGAAAGAAAA
CATC
Found at i:9660008 original size:47 final size:47
Alignment explanation
Indices: 9659955--9660365 Score: 750
Period size: 47 Copynumber: 8.7 Consensus size: 47
9659945 TTAGGATTCT
9659955 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
9660002 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
9660049 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
9660096 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
9660143 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
9660190 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
9660237 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
9660284 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
9660331 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
9660366 TCCCGAAGGG
Statistics
Matches: 354, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 354 1.00
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:9660540 original size:37 final size:37
Alignment explanation
Indices: 9660484--9660562 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
9660474 CCGAGCTCTA
* * *
9660484 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
9660521 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
9660558 AAGAC
1 AAGAC
9660563 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:9663473 original size:37 final size:37
Alignment explanation
Indices: 9663419--9663493 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
9663409 CTTGCCATGG
*
9663419 ATCCTAAACCATGACATGTAATCCAGATTGCATACTA
1 ATCCTAAACCATAACATGTAATCCAGATTGCATACTA
* *
9663456 ATCCTAAACCATAACATGTAATCCGGATTGTATACTA
1 ATCCTAAACCATAACATGTAATCCAGATTGCATACTA
9663493 A
1 A
9663494 CTCCGGAAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.39, C:0.23, G:0.11, T:0.28
Consensus pattern (37 bp):
ATCCTAAACCATAACATGTAATCCAGATTGCATACTA
Found at i:9666245 original size:11 final size:11
Alignment explanation
Indices: 9666227--9666257 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
9666217 CCGCCCGTGT
9666227 TAATTTTTATA
1 TAATTTTTATA
*
9666238 TTATTTTTATA
1 TAATTTTTATA
9666249 TAATTTTTA
1 TAATTTTTA
9666258 AATACATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TAATTTTTATA
Found at i:9666290 original size:18 final size:19
Alignment explanation
Indices: 9666257--9666301 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
9666247 TATAATTTTT
*
9666257 AAATACATATAAACATCAA
1 AAATACATAAAAACATCAA
*
9666276 AAATAC-TAAAAACAT-TA
1 AAATACATAAAAACATCAA
9666293 AAATACATA
1 AAATACATA
9666302 TTTCCCAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 7 0.30
18 10 0.43
19 6 0.26
ACGTcount: A:0.64, C:0.13, G:0.00, T:0.22
Consensus pattern (19 bp):
AAATACATAAAAACATCAA
Found at i:9666510 original size:22 final size:22
Alignment explanation
Indices: 9666469--9666511 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
9666459 TATCCAAATA
*
9666469 ATAATAATAAAATAGTAGCAAC
1 ATAATAATAAAATAGCAGCAAC
* *
9666491 ATAATAGTAAAATGGCAGCAA
1 ATAATAATAAAATAGCAGCAA
9666512 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.09, G:0.14, T:0.21
Consensus pattern (22 bp):
ATAATAATAAAATAGCAGCAAC
Found at i:9667968 original size:14 final size:14
Alignment explanation
Indices: 9667949--9667982 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
9667939 CAACCGTGGG
*
9667949 CAACACTGACTTCT
1 CAACACTGACTTAT
9667963 CAACACTGACTTAT
1 CAACACTGACTTAT
9667977 CAACAC
1 CAACAC
9667983 GGCCATGGAA
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:0.35, C:0.35, G:0.06, T:0.24
Consensus pattern (14 bp):
CAACACTGACTTAT
Found at i:9675946 original size:80 final size:80
Alignment explanation
Indices: 9675813--9675980 Score: 252
Period size: 80 Copynumber: 2.1 Consensus size: 80
9675803 GGATTGATAC
* *
9675813 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAAATTCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
*
9675878 TGCGAGTTA-CTATAT
66 AGCGAG-TAGCTATAT
*
9675893 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTA-AATCCGGGCTAAGTCCCGAAGGCATTT
*
9675957 GAGCTAGTAGCTATAT
65 GAGCGAGTAGCTATAT
9675973 CC-GGCTAA
1 CCGGGCTAA
9675981 ACTCCGAAGG
Statistics
Matches: 81, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
79 8 0.10
80 71 0.88
81 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
AGCGAGTAGCTATAT
Found at i:9675971 original size:40 final size:40
Alignment explanation
Indices: 9675813--9675957 Score: 238
Period size: 40 Copynumber: 3.6 Consensus size: 40
9675803 GGATTGATAC
* *
9675813 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
9675852 TTCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
9675893 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
9675933 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
9675958 AGCTAGTAGC
Statistics
Matches: 98, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
40 97 0.99
41 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:9684040 original size:40 final size:40
Alignment explanation
Indices: 9683938--9684141 Score: 281
Period size: 40 Copynumber: 5.2 Consensus size: 40
9683928 TTGATACCCA
* * * *
9683938 GGCTAAGTCTCGAAGGCATTTGTGCTAGTGACTAAATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
* *
9683978 GGCTAA-TCTCGAAGGCATTTGTGCGAGTTACTTTATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
9684017 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATCA-CCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-ATCCG
*
9684057 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
* *
9684097 GGCTAAGTCCCGAAGGCATTTGAGCTAG-TAGCTATATCC-
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCG
9684136 GGCTAA
1 GGCTAA
9684142 ACTCCGAAGG
Statistics
Matches: 151, Mismatches: 9, Indels: 9
0.89 0.05 0.05
Matches are distributed among these distances:
39 44 0.29
40 106 0.70
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
Found at i:9694741 original size:27 final size:27
Alignment explanation
Indices: 9694711--9694887 Score: 95
Period size: 27 Copynumber: 6.5 Consensus size: 27
9694701 ATATTGAGCC
* * * *
9694711 CGCACACTCAGTGCTATACAATCAACT
1 CGCACACTTAGTGCCACACAATCAAAT
**
9694738 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCCACACAATCAAAT
* * **
9694765 CGCACACTTAGTGCCACATAGTCCATCT
1 CGCACACTTAGTGCCACACAAT-CAAAT
* * *** *
9694793 CACACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCCACACAATCAAAT
* * **
9694820 CGCACACTTAGTG-CATCATATTCATTT
1 CGCACACTTAGTGCCA-CACAATCAAAT
* * * * *
9694847 TGCACACTGAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCCACACAATCAAAT
*
9694874 CGCACCCTTAGTGC
1 CGCACACTTAGTGC
9694888 TGTACAATTT
Statistics
Matches: 118, Mismatches: 29, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
26 1 0.01
27 94 0.80
28 23 0.19
ACGTcount: A:0.29, C:0.31, G:0.15, T:0.25
Consensus pattern (27 bp):
CGCACACTTAGTGCCACACAATCAAAT
Found at i:9694807 original size:28 final size:27
Alignment explanation
Indices: 9694737--9694887 Score: 126
Period size: 27 Copynumber: 5.6 Consensus size: 27
9694727 TACAATCAAC
* * * *
9694737 TCGCACACTTAGTGCCACGTAATCAAA
1 TCGCACACTTAGTGCCACATAGTCCAT
9694764 TCGCACACTTAGTGCCACATAGTCCAT
1 TCGCACACTTAGTGCCACATAGTCCAT
* * * *
9694791 CTCACACACTTAGTGCCGCATGGTCAAT
1 -TCGCACACTTAGTGCCACATAGTCCAT
*
9694819 TCGCACACTTAGTG-CATCATA-TTCATT
1 TCGCACACTTAGTGCCA-CATAGTCCA-T
* * * * *
9694846 TTGCACACTGAGTGCAACATAGTCAAA
1 TCGCACACTTAGTGCCACATAGTCCAT
*
9694873 TCGCACCCTTAGTGC
1 TCGCACACTTAGTGC
9694888 TGTACAATTT
Statistics
Matches: 97, Mismatches: 22, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
26 3 0.03
27 68 0.70
28 26 0.27
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (27 bp):
TCGCACACTTAGTGCCACATAGTCCAT
Found at i:9694807 original size:55 final size:55
Alignment explanation
Indices: 9694740--9694887 Score: 165
Period size: 54 Copynumber: 2.7 Consensus size: 55
9694730 AATCAACTCG
* *
9694740 CACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCCA-CATAGTCCATCTCA
1 CACACTTAGTGCCACATAGTCAAATCGCACACTTAGTGCCATCATA-TCCATCTCA
* * * * * **
9694795 CACACTTAGTGCCGCATGGTCAATTCGCACACTTAGTG-CATCATATTCATTTTG
1 CACACTTAGTGCCACATAGTCAAATCGCACACTTAGTGCCATCATATCCATCTCA
* * *
9694849 CACACTGAGTGCAACATAGTCAAATCGCACCCTTAGTGC
1 CACACTTAGTGCCACATAGTCAAATCGCACACTTAGTGC
9694888 TGTACAATTT
Statistics
Matches: 76, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
54 39 0.51
55 37 0.49
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (55 bp):
CACACTTAGTGCCACATAGTCAAATCGCACACTTAGTGCCATCATATCCATCTCA
Found at i:9702814 original size:27 final size:27
Alignment explanation
Indices: 9702784--9702960 Score: 95
Period size: 27 Copynumber: 6.5 Consensus size: 27
9702774 ATATTGAGCC
* * * *
9702784 CGCACACTCAGTGCTATACAATCAACT
1 CGCACACTTAGTGCCACACAATCAAAT
**
9702811 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCCACACAATCAAAT
* * **
9702838 CGCACACTTAGTGCCACATAGTCCATCT
1 CGCACACTTAGTGCCACACAAT-CAAAT
* * *** *
9702866 CACACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCCACACAATCAAAT
* * **
9702893 CGCACACTTAGTG-CATCATATTCATTT
1 CGCACACTTAGTGCCA-CACAATCAAAT
* * * * *
9702920 TGCACACTGAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCCACACAATCAAAT
*
9702947 CGCACCCTTAGTGC
1 CGCACACTTAGTGC
9702961 TGTACAATTT
Statistics
Matches: 118, Mismatches: 29, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
26 1 0.01
27 94 0.80
28 23 0.19
ACGTcount: A:0.29, C:0.31, G:0.15, T:0.25
Consensus pattern (27 bp):
CGCACACTTAGTGCCACACAATCAAAT
Found at i:9702880 original size:28 final size:27
Alignment explanation
Indices: 9702810--9702960 Score: 126
Period size: 27 Copynumber: 5.6 Consensus size: 27
9702800 TACAATCAAC
* * * *
9702810 TCGCACACTTAGTGCCACGTAATCAAA
1 TCGCACACTTAGTGCCACATAGTCCAT
9702837 TCGCACACTTAGTGCCACATAGTCCAT
1 TCGCACACTTAGTGCCACATAGTCCAT
* * * *
9702864 CTCACACACTTAGTGCCGCATGGTCAAT
1 -TCGCACACTTAGTGCCACATAGTCCAT
*
9702892 TCGCACACTTAGTG-CATCATA-TTCATT
1 TCGCACACTTAGTGCCA-CATAGTCCA-T
* * * * *
9702919 TTGCACACTGAGTGCAACATAGTCAAA
1 TCGCACACTTAGTGCCACATAGTCCAT
*
9702946 TCGCACCCTTAGTGC
1 TCGCACACTTAGTGC
9702961 TGTACAATTT
Statistics
Matches: 97, Mismatches: 22, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
26 3 0.03
27 68 0.70
28 26 0.27
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (27 bp):
TCGCACACTTAGTGCCACATAGTCCAT
Found at i:9702880 original size:55 final size:55
Alignment explanation
Indices: 9702813--9702960 Score: 165
Period size: 54 Copynumber: 2.7 Consensus size: 55
9702803 AATCAACTCG
* *
9702813 CACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCCA-CATAGTCCATCTCA
1 CACACTTAGTGCCACATAGTCAAATCGCACACTTAGTGCCATCATA-TCCATCTCA
* * * * * **
9702868 CACACTTAGTGCCGCATGGTCAATTCGCACACTTAGTG-CATCATATTCATTTTG
1 CACACTTAGTGCCACATAGTCAAATCGCACACTTAGTGCCATCATATCCATCTCA
* * *
9702922 CACACTGAGTGCAACATAGTCAAATCGCACCCTTAGTGC
1 CACACTTAGTGCCACATAGTCAAATCGCACACTTAGTGC
9702961 TGTACAATTT
Statistics
Matches: 76, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
54 39 0.51
55 37 0.49
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (55 bp):
CACACTTAGTGCCACATAGTCAAATCGCACACTTAGTGCCATCATATCCATCTCA
Found at i:9710789 original size:40 final size:40
Alignment explanation
Indices: 9710700--9710963 Score: 360
Period size: 40 Copynumber: 6.7 Consensus size: 40
9710690 TTGAATGATG
* *
9710700 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * *
9710739 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
9710779 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
9710818 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
9710858 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
9710898 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
9710939 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
9710964 AACGAGGAGC
Statistics
Matches: 206, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
39 53 0.26
40 143 0.69
41 10 0.05
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:9710981 original size:120 final size:118
Alignment explanation
Indices: 9710700--9710996 Score: 338
Period size: 119 Copynumber: 2.5 Consensus size: 118
9710690 TTGAATGATG
* *
9710700 TCCGGGCTAAGTCCCGAAGGC-TTGTG--CTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
1 TCCGGGCTAAGTCCCGAAGGCATT-TGAAC-GAGTGACTAA-ATCCGG-TTAA-ATCCCGAAGGC
* *
9710760 ATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
61 ATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
* ** * *
9710818 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAATCCCGAAGGCATTT
* *
9710883 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
65 GTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAATTACTA-AA
* * *
9710939 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAATCCCGAAGG
9710997 TACGTGATTT
Statistics
Matches: 153, Mismatches: 17, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
118 23 0.15
119 64 0.42
120 64 0.42
121 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (118 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATCCCGAAGGCATTTG
TGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
Found at i:9718145 original size:48 final size:48
Alignment explanation
Indices: 9718074--9718170 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 48
9718064 ATCCGAAGGC
9718074 ATTTGTGCGAGATACAAATTCCGGGCTAAGCCCGAAGGCATTTGTGCG
1 ATTTGTGCGAGATACAAATTCCGGGCTAAGCCCGAAGGCATTTGTGCG
*
9718122 ATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCG
1 ATTTGTGCGAGATACAAATTCCGGGCTAAGCCCGAAGGCATTTGTGCG
9718170 A
1 A
9718171 GTTACTAAAT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.26
Consensus pattern (48 bp):
ATTTGTGCGAGATACAAATTCCGGGCTAAGCCCGAAGGCATTTGTGCG
Found at i:9718216 original size:40 final size:40
Alignment explanation
Indices: 9718122--9718245 Score: 164
Period size: 40 Copynumber: 3.1 Consensus size: 40
9718112 CATTTGTGCG
*
9718122 ATTTGTGCGAGA-TACTAATTCCGGGCTAAG-CCCGAAGGC
1 ATTTGTGCGA-ATTACTAAATCCGGGCTAAGTCCCGAAGGC
* * *
9718161 ATTTGTGCGAGTTACTAAATCCGGGTTAAGTCTCGAAGGC
1 ATTTGTGCGAATTACTAAATCCGGGCTAAGTCCCGAAGGC
*
9718201 ATTTGTGCGAATTACTATAA-CCGGGCTATGTCCCGAAGGC
1 ATTTGTGCGAATTACTA-AATCCGGGCTAAGTCCCGAAGGC
9718241 ATTTG
1 ATTTG
9718246 AACGAGGAGC
Statistics
Matches: 74, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
39 26 0.35
40 46 0.62
41 2 0.03
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (40 bp):
ATTTGTGCGAATTACTAAATCCGGGCTAAGTCCCGAAGGC
Found at i:9724468 original size:18 final size:18
Alignment explanation
Indices: 9724445--9724479 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
9724435 CTTGGTCCTT
*
9724445 TATAGTAACAGTAAACAG
1 TATAGTAACAATAAACAG
9724463 TATAGTAACAATAAACA
1 TATAGTAACAATAAACA
9724480 ATATGCAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.11, G:0.11, T:0.23
Consensus pattern (18 bp):
TATAGTAACAATAAACAG
Found at i:9724539 original size:23 final size:24
Alignment explanation
Indices: 9724495--9724539 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
9724485 CAAGTCCTAC
* *
9724495 CCATCCAGCCTCTACACTCCATCT
1 CCATCCAGCCTCAACACACCATCT
9724519 CCATCCAGCC-CAACACACCAT
1 CCATCCAGCCTCAACACACCAT
9724540 GTGGGGATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.27, C:0.51, G:0.04, T:0.18
Consensus pattern (24 bp):
CCATCCAGCCTCAACACACCATCT
Found at i:9728124 original size:39 final size:39
Alignment explanation
Indices: 9728068--9728145 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
9728058 CTACCCTAGA
9728068 AGAATAAACATGCACTGATTAAGTACTGTGTCCATTAAT
1 AGAATAAACATGCACTGATTAAGTACTGTGTCCATTAAT
*
9728107 AGAATAAACATGTACTGATTAAGTACTGTGTCCATTAAT
1 AGAATAAACATGCACTGATTAAGTACTGTGTCCATTAAT
9728146 TACAATTTTA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.32
Consensus pattern (39 bp):
AGAATAAACATGCACTGATTAAGTACTGTGTCCATTAAT
Found at i:9728328 original size:21 final size:20
Alignment explanation
Indices: 9728299--9728340 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 20
9728289 TGAAATGCAA
9728299 TCAAACCAACAC-GAATTAAAT
1 TCAAACCAA-ACTG-ATTAAAT
*
9728320 TCAAGCCAAACTGATTAAAT
1 TCAAACCAAACTGATTAAAT
9728340 T
1 T
9728341 AACCATTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.48, C:0.21, G:0.07, T:0.24
Consensus pattern (20 bp):
TCAAACCAAACTGATTAAAT
Found at i:9734235 original size:40 final size:40
Alignment explanation
Indices: 9734180--9734275 Score: 156
Period size: 40 Copynumber: 2.4 Consensus size: 40
9734170 TATGTGCATA
* *
9734180 GCATTCGTGCGGGTTATTATAATCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCAAAG
*
9734220 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTGCCAAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCAAAG
*
9734260 GCATTTGTGCGGGTTA
1 GCATTCGTGCGGGTTA
9734276 AGTCCCGAAG
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.30
Consensus pattern (40 bp):
GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCAAAG
Found at i:9734300 original size:26 final size:26
Alignment explanation
Indices: 9734243--9734300 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
9734233 TTATTATAAC
* **
9734243 CGGGTTAAGTGCCAAAGGCATTTGTG
1 CGGGTTAAGTCCCAAAGGCATTCATG
*
9734269 CGGGTTAAGTCCCGAAGGCATTCATG
1 CGGGTTAAGTCCCAAAGGCATTCATG
*
9734295 CTGGTT
1 CGGGTT
9734301 GTTACATCCG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.21, C:0.19, G:0.33, T:0.28
Consensus pattern (26 bp):
CGGGTTAAGTCCCAAAGGCATTCATG
Found at i:9741768 original size:79 final size:82
Alignment explanation
Indices: 9741624--9741808 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 82
9741614 GCTCCTCGTT
* *
9741624 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
*
9741688 GAT-TTAATAAC-TCGCA
66 GATATT-ATAACTTAGCA
* * **
9741704 CAAATGCGTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* *
9741766 GGATATTGTCACTTAGCA
65 GGATATTATAACTTAGCA
9741784 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
9741809 CATCATTCAA
Statistics
Matches: 90, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
78 3 0.03
79 52 0.58
80 35 0.39
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
GATATTATAACTTAGCA
Found at i:9741808 original size:40 final size:41
Alignment explanation
Indices: 9741624--9741808 Score: 222
Period size: 40 Copynumber: 4.6 Consensus size: 41
9741614 GCTCCTCGTT
* *
9741624 CAAATGCCTTCGGGACATAGCCCGGTTA-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATTAGTAACTCGCA
* *
9741664 CAAATGCCTTCGGGACTTAACCCGGAT-TTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATTAGTAACTCGCA
* *
9741704 CAAATGCGTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATTAGTAACTCGCA
* * *
9741743 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATTAGTAAC-TCGCA
9741784 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
9741809 CATCATTCAA
Statistics
Matches: 124, Mismatches: 14, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 77 0.62
41 14 0.11
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATTAGTAACTCGCA
Found at i:9742904 original size:13 final size:13
Alignment explanation
Indices: 9742886--9742910 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9742876 AGGATGAGCA
9742886 TTTTTTTTCTTTG
1 TTTTTTTTCTTTG
9742899 TTTTTTTTCTTT
1 TTTTTTTTCTTT
9742911 CTAGTTTCGG
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:0.00, C:0.08, G:0.04, T:0.88
Consensus pattern (13 bp):
TTTTTTTTCTTTG
Found at i:9745820 original size:40 final size:40
Alignment explanation
Indices: 9745765--9745854 Score: 171
Period size: 40 Copynumber: 2.2 Consensus size: 40
9745755 TATGTGCATA
*
9745765 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTGCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
9745805 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
9745845 GCATTCGTGC
1 GCATTCGTGC
9745855 TAGTTGTTAC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.21, C:0.20, G:0.31, T:0.28
Consensus pattern (40 bp):
GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
Found at i:9750728 original size:10 final size:10
Alignment explanation
Indices: 9750715--9750752 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
9750705 TTGTAGCTAA
9750715 ATTGAGCTCG
1 ATTGAGCTCG
9750725 ATTGAGCT-G
1 ATTGAGCTCG
9750734 ACTTGAGCTCG
1 A-TTGAGCTCG
*
9750745 AGTGAGCT
1 ATTGAGCT
9750753 GGAAACGAGC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.21, C:0.18, G:0.32, T:0.29
Consensus pattern (10 bp):
ATTGAGCTCG
Found at i:9750732 original size:20 final size:20
Alignment explanation
Indices: 9750692--9750752 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
9750682 ACCAATAAAA
9750692 TAAA-TGAGCT-GAATTGTAGC
1 TAAATTGAGCTCG-ATTG-AGC
9750712 TAAATTGAGCTCGATTGAGC
1 TAAATTGAGCTCGATTGAGC
* * *
9750732 TGACTTGAGCTCGAGTGAGC
1 TAAATTGAGCTCGATTGAGC
9750752 T
1 T
9750753 GGAAACGAGC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 25 0.69
21 10 0.28
22 1 0.03
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (20 bp):
TAAATTGAGCTCGATTGAGC
Found at i:9750753 original size:20 final size:20
Alignment explanation
Indices: 9750716--9750753 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
9750706 TGTAGCTAAA
*
9750716 TTGAGCTCGATTGAGCTGAC
1 TTGAGCTCGAGTGAGCTGAC
9750736 TTGAGCTCGAGTGAGCTG
1 TTGAGCTCGAGTGAGCTG
9750754 GAAACGAGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.18, G:0.34, T:0.29
Consensus pattern (20 bp):
TTGAGCTCGAGTGAGCTGAC
Found at i:9752442 original size:15 final size:15
Alignment explanation
Indices: 9752410--9752438 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
9752400 ATTTTCTTTG
9752410 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
9752425 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
9752439 ATTTTCATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:9760458 original size:40 final size:40
Alignment explanation
Indices: 9760428--9760637 Score: 314
Period size: 40 Copynumber: 5.3 Consensus size: 40
9760418 GGACTAAGAT
* * * *
9760428 CCGAAGGCCTTTGTGCGAGATATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
9760468 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
9760508 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
*
9760548 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
* ** * * *
9760588 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
9760627 CCGAAGGCATT
1 CCGAAGGCATT
9760638 TGAACGAGGA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 34 0.21
40 126 0.79
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
Found at i:9760657 original size:79 final size:80
Alignment explanation
Indices: 9760428--9760672 Score: 242
Period size: 80 Copynumber: 3.1 Consensus size: 80
9760418 GGACTAAGAT
* * * * * * ** ** *
9760428 CCGAAGGCCTTTGTGCGAGATATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
9760493 AATCCGGGTTAAGTC
66 AATCCGGGTTAAGTC
** * * ** ** *
9760508 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
9760573 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
9760588 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
9760652 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
9760666 CCGAAGG
1 CCGAAGG
9760673 TACGTGATTT
Statistics
Matches: 145, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
78 14 0.10
79 45 0.31
80 86 0.59
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.26
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:9767605 original size:46 final size:46
Alignment explanation
Indices: 9767555--9767681 Score: 218
Period size: 46 Copynumber: 2.8 Consensus size: 46
9767545 GTTGAGCATT
* *
9767555 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCC
9767601 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCC
* *
9767647 CGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
9767682 GCGGGTTACA
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCC
Found at i:9772294 original size:43 final size:43
Alignment explanation
Indices: 9772205--9772287 Score: 116
Period size: 42 Copynumber: 2.0 Consensus size: 43
9772195 TCTTACTTGT
*
9772205 AATCAAATATCGATGCCACTGTCCCAGACAGGGTCTTACACGA
1 AATCAAATATCGATGCCACTGTCCCAAACAGGGTCTTACACGA
* *
9772248 AATCAAATA-CGATGCCGA-TGTTCCAAACATGGTCTTACAC
1 AATCAAATATCGATGCC-ACTGTCCCAAACAGGGTCTTACAC
9772288 ATAAATCTCA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
42 26 0.72
43 10 0.28
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.23
Consensus pattern (43 bp):
AATCAAATATCGATGCCACTGTCCCAAACAGGGTCTTACACGA
Found at i:9776366 original size:37 final size:37
Alignment explanation
Indices: 9776316--9776394 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
9776306 TTATTACGAA
* *
9776316 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
9776353 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
9776390 GTCTT
1 GTCTT
9776395 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:9776638 original size:49 final size:49
Alignment explanation
Indices: 9776513--9777033 Score: 910
Period size: 49 Copynumber: 10.8 Consensus size: 49
9776503 CCCTTCGGGA
* * * * * *
9776513 CTTATCACAT-T-TATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
9776560 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
9776607 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
9776656 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
9776705 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
9776754 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
9776803 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
9776852 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
9776901 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
9776950 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
9776999 CTTATCAC--ATATATACACGTTCACATCCATCACAT
1 CTTATCACATATATATACACTTTCACATTCATCACAT
9777034 AGAATCCTAA
Statistics
Matches: 458, Mismatches: 12, Indels: 8
0.96 0.03 0.02
Matches are distributed among these distances:
46 1 0.00
47 67 0.15
49 390 0.85
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:9779659 original size:18 final size:18
Alignment explanation
Indices: 9779636--9779671 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
9779626 AAAAGATTGA
*
9779636 AACAAAGTTGAGAGTAAT
1 AACAAAATTGAGAGTAAT
9779654 AACAAAATTGAGAGTAAT
1 AACAAAATTGAGAGTAAT
9779672 CCACCTAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.53, C:0.06, G:0.19, T:0.22
Consensus pattern (18 bp):
AACAAAATTGAGAGTAAT
Found at i:9781621 original size:52 final size:52
Alignment explanation
Indices: 9781543--9781649 Score: 187
Period size: 52 Copynumber: 2.1 Consensus size: 52
9781533 AAGTTCTTGT
*
9781543 ATGGATTAAAAGTATTTTTATATGTTAAATGTGTGCCTATTGGTTTGTTACC
1 ATGGATTAAAAGTATTTTTATATGTTAAATGTGTGCCTATTGGTTTGCTACC
* *
9781595 ATGGATTAAATGTATTTTTATATGTTAAATGTGTGCCTATTTGTTTGCTACC
1 ATGGATTAAAAGTATTTTTATATGTTAAATGTGTGCCTATTGGTTTGCTACC
9781647 ATG
1 ATG
9781650 TTGGCATTGT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.26, C:0.08, G:0.19, T:0.47
Consensus pattern (52 bp):
ATGGATTAAAAGTATTTTTATATGTTAAATGTGTGCCTATTGGTTTGCTACC
Done.