Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 118 of 211
Found at i:37258217 original size:14 final size:14
Alignment explanation
Indices: 37258193--37258234 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
37258183 AATCAAAGTC
*
37258193 AAAAT-AAAAAATG
1 AAAATGAAAAAAGG
37258206 AAAATGAAAAAAGG
1 AAAATGAAAAAAGG
*
37258220 AAAAAGAAAAAAGG
1 AAAATGAAAAAAGG
37258234 A
1 A
37258235 GAGGCCAAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
13 5 0.19
14 21 0.81
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (14 bp):
AAAATGAAAAAAGG
Found at i:37259107 original size:14 final size:15
Alignment explanation
Indices: 37259081--37259124 Score: 65
Period size: 14 Copynumber: 3.1 Consensus size: 15
37259071 TCGAGTCAAA
37259081 AAAAAGTGAAAAATG
1 AAAAAGTGAAAAATG
37259096 AAAAAGTG-AAAATG
1 AAAAAGTGAAAAATG
*
37259110 AAAAA-TAAAAAATG
1 AAAAAGTGAAAAATG
37259124 A
1 A
37259125 TGAAAGAGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 1 0.04
14 18 0.67
15 8 0.30
ACGTcount: A:0.70, C:0.00, G:0.16, T:0.14
Consensus pattern (15 bp):
AAAAAGTGAAAAATG
Found at i:37259119 original size:6 final size:7
Alignment explanation
Indices: 37259081--37259124 Score: 54
Period size: 7 Copynumber: 6.1 Consensus size: 7
37259071 TCGAGTCAAA
37259081 AAAAAGTG
1 AAAAA-TG
37259089 AAAAATG
1 AAAAATG
37259096 AAAAAGTG
1 AAAAA-TG
37259104 -AAAATG
1 AAAAATG
*
37259110 AAAAATA
1 AAAAATG
37259117 AAAAATG
1 AAAAATG
37259124 A
1 A
37259125 TGAAAGAGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
6 2 0.06
7 23 0.72
8 7 0.22
ACGTcount: A:0.70, C:0.00, G:0.16, T:0.14
Consensus pattern (7 bp):
AAAAATG
Found at i:37260977 original size:31 final size:31
Alignment explanation
Indices: 37260930--37260995 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
37260920 GACCGCATCC
* * *
37260930 GATCTTATCTCTCTGAAGTTGCAGTGGAGCA
1 GATCCTATCTCCCTGAAGTTACAGTGGAGCA
*
37260961 GATCCTATCTCCCTGAAGTTACAGTGGAGCG
1 GATCCTATCTCCCTGAAGTTACAGTGGAGCA
37260992 GATC
1 GATC
37260996 AAAATGATGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.29
Consensus pattern (31 bp):
GATCCTATCTCCCTGAAGTTACAGTGGAGCA
Found at i:37270147 original size:19 final size:20
Alignment explanation
Indices: 37270091--37270147 Score: 66
Period size: 19 Copynumber: 3.0 Consensus size: 20
37270081 CTAGATGTAG
37270091 TTTAAAATATTATAAAAA-A
1 TTTAAAATATTATAAAAATA
* *
37270110 TTTAAAATGTTGTAAAAATA
1 TTTAAAATATTATAAAAATA
37270130 -TTATAAAT-TTATAAAAAT
1 TTTA-AAATATTATAAAAAT
37270148 TATCGATAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 28 0.85
20 5 0.15
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (20 bp):
TTTAAAATATTATAAAAATA
Found at i:37270868 original size:16 final size:16
Alignment explanation
Indices: 37270855--37270889 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
37270845 TCAAATTTGA
37270855 ATTTTCTTATATTTAG
1 ATTTTCTTATATTTAG
* *
37270871 ATTTTCTTAGATTCAG
1 ATTTTCTTATATTTAG
37270887 ATT
1 ATT
37270890 ATTACATGCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.26, C:0.09, G:0.09, T:0.57
Consensus pattern (16 bp):
ATTTTCTTATATTTAG
Found at i:37280302 original size:23 final size:23
Alignment explanation
Indices: 37280259--37280303 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
37280249 TCATGGATTT
* *
37280259 TTCTAAAAATAGACTAAGTTTTG
1 TTCTAAAAATAAACAAAGTTTTG
37280282 TTCT-AAAATAAACAAATGTTTT
1 TTCTAAAAATAAACAAA-GTTTT
37280304 AAATTGACTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (23 bp):
TTCTAAAAATAAACAAAGTTTTG
Found at i:37283168 original size:18 final size:18
Alignment explanation
Indices: 37283131--37283165 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
37283121 TTTTTATTAC
*
37283131 AATTTTTTTATAATTATT
1 AATTATTTTATAATTATT
37283149 AATTATTTTA-AATTATT
1 AATTATTTTATAATTATT
37283166 TAAGAGTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
AATTATTTTATAATTATT
Found at i:37296762 original size:94 final size:96
Alignment explanation
Indices: 37296664--37296886 Score: 297
Period size: 94 Copynumber: 2.3 Consensus size: 96
37296654 TGTTTATTGT
* * *
37296664 TTTTTAAGAAAAAATCAATTAAATTAGGGTTTAAGGTTACTTGAGTAATTTGATTA-AAAAAATT
1 TTTTTAAGAAAAAATCAAATAAATTAGGGTTTAAGGTTACTTGAGTAAATTAATTATAAAAAATT
37296728 -AAAAATCAAATTAGGGTTTAGAGTTAAGGG
66 AAAAAATCAAATTAGGGTTTAGAGTTAAGGG
* * * ***
37296758 TTTTTAAGGAAAAATCAAATAAATTAGGGTTGAGGGTTACTTGAGTAAATTAATTATAAATTTTT
1 TTTTTAAGAAAAAATCAAATAAATTAGGGTTTAAGGTTACTTGAGTAAATTAATTATAAAAAATT
* * * *
37296823 AAAAAATTAGATTAGGGTTTAGTGTTTAGGG
66 AAAAAATCAAATTAGGGTTTAGAGTTAAGGG
*
37296854 TTTTTAAGTAAAAACTCAAATAAATTAGGGTTT
1 TTTTTAAG-AAAAAATCAAATAAATTAGGGTTT
37296887 GGGATTTAGG
Statistics
Matches: 110, Mismatches: 16, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
94 50 0.45
95 5 0.05
96 34 0.31
97 21 0.19
ACGTcount: A:0.41, C:0.03, G:0.18, T:0.37
Consensus pattern (96 bp):
TTTTTAAGAAAAAATCAAATAAATTAGGGTTTAAGGTTACTTGAGTAAATTAATTATAAAAAATT
AAAAAATCAAATTAGGGTTTAGAGTTAAGGG
Found at i:37300888 original size:30 final size:30
Alignment explanation
Indices: 37300854--37300912 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
37300844 TACTGGGTTG
* * *
37300854 GGTGACTGTGTCGGTGCTGTTGCTGGGCCT
1 GGTGACTGTATCGGTGCTGATGATGGGCCT
* *
37300884 GGTGATTGTATGGGTGCTGATGATGGGCC
1 GGTGACTGTATCGGTGCTGATGATGGGCC
37300913 GAGTGATTGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.08, C:0.15, G:0.44, T:0.32
Consensus pattern (30 bp):
GGTGACTGTATCGGTGCTGATGATGGGCCT
Found at i:37300919 original size:30 final size:30
Alignment explanation
Indices: 37300866--37300927 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
37300856 TGACTGTGTC
* *
37300866 GGTGCTGTTGCTGGGCCTGGTGATTGTATG
1 GGTGCTGATGATGGGCCTGGTGATTGTATG
*
37300896 GGTGCTGATGATGGGCC-GAGTGATTGTCTG
1 GGTGCTGATGATGGGCCTG-GTGATTGTATG
37300926 GG
1 GG
37300928 CGGAGTTGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 1 0.04
30 27 0.96
ACGTcount: A:0.10, C:0.13, G:0.45, T:0.32
Consensus pattern (30 bp):
GGTGCTGATGATGGGCCTGGTGATTGTATG
Found at i:37302597 original size:27 final size:28
Alignment explanation
Indices: 37302567--37302626 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 28
37302557 TTAAAAAAAA
*
37302567 TTAAAAATAA-TAAAATTTAAAAATTTT
1 TTAAAAATAATTAAAAATTAAAAATTTT
* **
37302594 TTAAAAGTAATTAAAAATTAAAGCTTTT
1 TTAAAAATAATTAAAAATTAAAAATTTT
37302622 TTAAA
1 TTAAA
37302627 TAGGAATTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 9 0.32
28 19 0.68
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.40
Consensus pattern (28 bp):
TTAAAAATAATTAAAAATTAAAAATTTT
Found at i:37303065 original size:14 final size:15
Alignment explanation
Indices: 37303042--37303070 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
37303032 TGAATGAATG
37303042 TATTTGATTATTTAT
1 TATTTGATTATTTAT
37303057 TATTT-ATTATTTAT
1 TATTTGATTATTTAT
37303071 ATTATAAGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (15 bp):
TATTTGATTATTTAT
Found at i:37307944 original size:48 final size:50
Alignment explanation
Indices: 37307889--37308010 Score: 162
Period size: 52 Copynumber: 2.4 Consensus size: 50
37307879 TTGAATTTTA
37307889 AAAACTCTTTTAAATAATAATTTAAA-T-TCTATTTAATTATCT-TTT-TTT
1 AAAACTCTTTTAAATAATAATTTAAAGTATCT-TTTAATTAT-TATTTATTT
* *
37307937 GAAACTCTTTTAAATAATAATAATTAAAGTATGTTTTAATTATTATTTATTT
1 AAAACTCTTTTAAATAATAAT--TTAAAGTATCTTTTAATTATTATTTATTT
37307989 AAAACTCTTTTAAATAATAATT
1 AAAACTCTTTTAAATAATAATT
37308011 ATATCTAAAA
Statistics
Matches: 65, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
48 20 0.31
50 7 0.11
51 13 0.20
52 25 0.38
ACGTcount: A:0.41, C:0.07, G:0.02, T:0.50
Consensus pattern (50 bp):
AAAACTCTTTTAAATAATAATTTAAAGTATCTTTTAATTATTATTTATTT
Found at i:37307999 original size:26 final size:27
Alignment explanation
Indices: 37307970--37308039 Score: 88
Period size: 28 Copynumber: 2.6 Consensus size: 27
37307960 TTAAAGTATG
* * *
37307970 TTTTAATTATTATT-TATTTAAAACTC
1 TTTTAATAATAATTATATCTAAAACTC
37307996 TTTTAAATAATAATTATATCTAAAACTC
1 TTTT-AATAATAATTATATCTAAAACTC
37308024 TTTTAAATAATAATTA
1 TTTT-AATAATAATTA
37308040 AATTCTATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
26 4 0.10
27 8 0.21
28 27 0.69
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (27 bp):
TTTTAATAATAATTATATCTAAAACTC
Found at i:37308025 original size:28 final size:27
Alignment explanation
Indices: 37307938--37308039 Score: 113
Period size: 26 Copynumber: 3.8 Consensus size: 27
37307928 TCTTTTTTTG
37307938 AAACTCTTTTAAATAATAA-TA-ATTA
1 AAACTCTTTTAAATAATAATTATATTA
* * * *
37307963 AAGTA-TGTTTTAATTATTATTTAT-TTA
1 AA--ACTCTTTTAAATAATAATTATATTA
37307990 AAACTCTTTTAAATAATAATTATATCTA
1 AAACTCTTTTAAATAATAATTATAT-TA
37308018 AAACTCTTTTAAATAATAATTA
1 AAACTCTTTTAAATAATAATTA
37308040 AATTCTATTT
Statistics
Matches: 62, Mismatches: 8, Indels: 11
0.77 0.10 0.14
Matches are distributed among these distances:
25 3 0.05
26 26 0.42
27 9 0.15
28 24 0.39
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.46
Consensus pattern (27 bp):
AAACTCTTTTAAATAATAATTATATTA
Found at i:37308428 original size:18 final size:18
Alignment explanation
Indices: 37308405--37308444 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
37308395 AAGTTCAATT
37308405 AAGTATAAGGCATGGATA
1 AAGTATAAGGCATGGATA
37308423 AAGTATAAGGCATGGATA
1 AAGTATAAGGCATGGATA
37308441 AAGT
1 AAGT
37308445 CAACCTTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.45, C:0.05, G:0.28, T:0.23
Consensus pattern (18 bp):
AAGTATAAGGCATGGATA
Found at i:37323600 original size:17 final size:18
Alignment explanation
Indices: 37323578--37323615 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
37323568 TTTAATTAAA
*
37323578 ATTATTTATA-TAGTAAT
1 ATTATTTATATTAGCAAT
*
37323595 ATTATTTTTATTAGCAAT
1 ATTATTTATATTAGCAAT
37323613 ATT
1 ATT
37323616 TAATTATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.55
Consensus pattern (18 bp):
ATTATTTATATTAGCAAT
Found at i:37324671 original size:16 final size:17
Alignment explanation
Indices: 37324639--37324671 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
37324629 CTATTTAGGT
*
37324639 TTGTTTTTTACACTTTA
1 TTGTTTTTTACAATTTA
37324656 TTGTTTTTT-CAATTTA
1 TTGTTTTTTACAATTTA
37324672 ATTATTGTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.18, C:0.09, G:0.06, T:0.67
Consensus pattern (17 bp):
TTGTTTTTTACAATTTA
Found at i:37325531 original size:25 final size:23
Alignment explanation
Indices: 37325492--37325538 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 23
37325482 TTGATTGAGA
*
37325492 AATTTATAGATTTTCATTATTTT
1 AATTTATAGATTTTCATAATTTT
37325515 AATTTAATAGAATTTTCATAATTT
1 AATTT-ATAG-ATTTTCATAATTT
37325539 GCTTTGTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 5 0.24
24 4 0.19
25 12 0.57
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.55
Consensus pattern (23 bp):
AATTTATAGATTTTCATAATTTT
Found at i:37325793 original size:11 final size:11
Alignment explanation
Indices: 37325778--37325896 Score: 96
Period size: 11 Copynumber: 11.4 Consensus size: 11
37325768 TAAAAATTAA
37325778 AAAAAATATTTT
1 AAAAAA-ATTTT
37325790 AAAAAAATTTT
1 AAAAAAATTTT
37325801 ---AAAA--TT
1 AAAAAAATTTT
37325807 AAAAAAATTTT
1 AAAAAAATTTT
*
37325818 AAAAAGTATTTT
1 AAAAA-AATTTT
37325830 AAAAAAATTTT
1 AAAAAAATTTT
*
37325841 AAAAAAAATTT
1 AAAAAAATTTT
37325852 ---AAAA--TT
1 AAAAAAATTTT
37325858 AAAAAAATTTT
1 AAAAAAATTTT
37325869 AAAAAAGTATTTT
1 AAAAAA--ATTTT
**
37325882 AAAAGTATTTT
1 AAAAAAATTTT
37325893 AAAA
1 AAAA
37325897 TTAAAAAAAT
Statistics
Matches: 89, Mismatches: 5, Indels: 27
0.74 0.04 0.22
Matches are distributed among these distances:
6 4 0.04
8 8 0.09
9 8 0.09
11 44 0.49
12 16 0.18
13 9 0.10
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (11 bp):
AAAAAAATTTT
Found at i:37325822 original size:40 final size:38
Alignment explanation
Indices: 37325769--37325885 Score: 121
Period size: 40 Copynumber: 2.9 Consensus size: 38
37325759 AATTTATTTT
**
37325769 AAAAATTAAAAAAAATATTTTAAAAAAATTTTAAAATTAA
1 AAAAATTTTAAAAAATATTTTAAAAAAATTTTAAAA--AA
*
37325809 AAAAATTTTAAAAAGTATTTTAAAAAAATTTTAAAAAA
1 AAAAATTTTAAAAAATATTTTAAAAAAATTTTAAAAAA
*
37325847 AATTTAAA-ATTAAAAAA-ATTTTAAAAAAGTATTTTAAAA
1 AA---AAATTTTAAAAAATATTTTAAAAAA--ATTTTAAAA
37325886 GTATTTTAAA
Statistics
Matches: 67, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
38 4 0.06
39 11 0.16
40 40 0.60
41 12 0.18
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (38 bp):
AAAAATTTTAAAAAATATTTTAAAAAAATTTTAAAAAA
Found at i:37325834 original size:51 final size:52
Alignment explanation
Indices: 37325779--37325896 Score: 202
Period size: 51 Copynumber: 2.3 Consensus size: 52
37325769 AAAAATTAAA
*
37325779 AAAAATATTTTAAAAAAATTTTAAAATTAAAAAAATTTT-AAAAAGTATTTT
1 AAAAATATTTTAAAAAAAATTTAAAATTAAAAAAATTTTAAAAAAGTATTTT
*
37325830 AAAAAAATTTTAAAAAAAATTTAAAATTAAAAAAATTTTAAAAAAGTATTTT
1 AAAAATATTTTAAAAAAAATTTAAAATTAAAAAAATTTTAAAAAAGTATTTT
*
37325882 AAAAGTATTTTAAAA
1 AAAAATATTTTAAAA
37325897 TTAAAAAAAT
Statistics
Matches: 62, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
51 37 0.60
52 25 0.40
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (52 bp):
AAAAATATTTTAAAAAAAATTTAAAATTAAAAAAATTTTAAAAAAGTATTTT
Found at i:37331100 original size:101 final size:101
Alignment explanation
Indices: 37330920--37331159 Score: 399
Period size: 101 Copynumber: 2.4 Consensus size: 101
37330910 AATTCGTCCT
* * *
37330920 TTACATTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGT
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAACCCAACTATGGT
*
37330985 CTTACATATAAACACTGTCATGGTCCAACCATGGTC
66 CTTACATATAAACACTGCCATGGTCCAACCATGGTC
* * *
37331021 TTACGTTCATAGTGCTAGAACTCAGTTATGGTCTTATCATCAGAATGCCATAACCCAACTATGGT
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAACCCAACTATGGT
*
37331086 CTTATATATAAACACTGCCATGGTCCAACCATGGTC
66 CTTACATATAAACACTGCCATGGTCCAACCATGGTC
*
37331122 TGACGTTCATAGTGCCATAACCCAGTTATGGTCTTATC
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATC
37331160 CGTCAATTCA
Statistics
Matches: 127, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
101 127 1.00
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (101 bp):
TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAACCCAACTATGGT
CTTACATATAAACACTGCCATGGTCCAACCATGGTC
Found at i:37344037 original size:38 final size:38
Alignment explanation
Indices: 37343975--37344052 Score: 129
Period size: 38 Copynumber: 2.1 Consensus size: 38
37343965 AAACGAGTAA
*
37343975 ATTTATTTAAGCTAATCTGGAAAACCAACCAACCAAAC
1 ATTTATTTAAGCTAATCTGAAAAACCAACCAACCAAAC
* *
37344013 ATTTGTTTCAGCTAATCTGAAAAACCAACCAACCAAAC
1 ATTTATTTAAGCTAATCTGAAAAACCAACCAACCAAAC
37344051 AT
1 AT
37344053 CCTTACGGTA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.44, C:0.24, G:0.08, T:0.24
Consensus pattern (38 bp):
ATTTATTTAAGCTAATCTGAAAAACCAACCAACCAAAC
Found at i:37347702 original size:7 final size:7
Alignment explanation
Indices: 37347689--37347730 Score: 75
Period size: 7 Copynumber: 6.0 Consensus size: 7
37347679 AAAAAGGGGG
37347689 ATGAAAA
1 ATGAAAA
*
37347696 TTGAAAA
1 ATGAAAA
37347703 ATGAAAA
1 ATGAAAA
37347710 ATGAAAA
1 ATGAAAA
37347717 ATGAAAA
1 ATGAAAA
37347724 ATGAAAA
1 ATGAAAA
37347731 GTAATGACGG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.69, C:0.00, G:0.14, T:0.17
Consensus pattern (7 bp):
ATGAAAA
Found at i:37349214 original size:88 final size:87
Alignment explanation
Indices: 37348953--37349230 Score: 355
Period size: 87 Copynumber: 3.2 Consensus size: 87
37348943 CAGATCAGTG
* * * * * *
37348953 AAGATAGTAGATCTTGCCTTCATGCATTGATAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
1 AAGATAGCAGATCTTGCCTTCCTGCATTGACATCGAAGCAGATCGAAAACACAGCCTTGCCTCCC
*
37349018 TCGGTTGCAGTGGAGCTGGTTA
66 TCGGTTGCAGTGGAGCAGGTTA
* *
37349040 AAGATAGCAGATCTTGCCTTCCTGTATTGACAGT-GAAGCAGATTGAAAACACAGCCTTGCCTCC
1 AAGATAGCAGATCTTGCCTTCCTGCATTGACA-TCGAAGCAGATCGAAAACACAGCCTTGCCTCC
* * *
37349104 CCCGGTTGTAGTGAAGCAGGTTA
65 CTCGGTTGCAGTGGAGCAGGTTA
* *
37349127 AAGATAGCAGATCTTGCCTTCCTGCGA-TAACATCGAAGTAGATCGAAGATAC-CAGCCTTGCCT
1 AAGATAGCAGATCTTGCCTTCCTGC-ATTGACATCGAAGCAGATCGAA-A-ACACAGCCTTGCCT
*
37349190 CCCTCGGTTGCGGTGGAGCAGGTTA
63 CCCTCGGTTGCAGTGGAGCAGGTTA
*
37349215 AAGATAGTAGATCTTG
1 AAGATAGCAGATCTTG
37349231 TCCCTAAGCA
Statistics
Matches: 165, Mismatches: 21, Indels: 9
0.85 0.11 0.05
Matches are distributed among these distances:
86 1 0.01
87 113 0.68
88 49 0.30
89 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (87 bp):
AAGATAGCAGATCTTGCCTTCCTGCATTGACATCGAAGCAGATCGAAAACACAGCCTTGCCTCCC
TCGGTTGCAGTGGAGCAGGTTA
Found at i:37349481 original size:128 final size:126
Alignment explanation
Indices: 37349202--37349493 Score: 324
Period size: 128 Copynumber: 2.3 Consensus size: 126
37349192 CTCGGTTGCG
* * * *
37349202 GTGGAGCAGGTTAAAGATAGTAGATCTTGTC-C-CTAAGCAGTAGCGGGGCAGATCGAAGATGGC
1 GTGGAGC-GGTTAAAG-TAATAGATCTTGTCTCTCTAAGCAGTAGCGGAGCAGATCGAAGACGAC
* * *
37349265 GAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATGTCCCTGGTCAGCA
64 GAATCTTATCTTCAAGTGTAAGGAAACAGATTTAAGCCACAAATCCTATCTCCCTGGTCAGCA
** * * *
37349328 GTGGAATAGGTTGGAAA-TTACAGATCATGTCTCTCTAAGCAGTAGCGGAGCAGATC-AAGGACG
1 GTGG-AGCGGTT--AAAGTAATAGATCTTGTCTCTCTAAGCAGTAGCGGAGCAGATCGAA-GACG
* *
37349391 ACGAATCTTATCTTCAAGTGTAAGGAAACATATTTAAGCCACAAATCCTATCTCCCTGAAGT-TG
62 ACGAATCTTATCTTCAAGTGTAAGGAAACAGATTTAAGCCACAAATCCTATCTCCCTG--GTCAG
*
37349455 TA
125 CA
*
37349457 GTGGAGCGGATTAAAGTAATAGATCTTATCTCTCTAA
1 GTGGAGCGG-TTAAAGTAATAGATCTTGTCTCTCTAA
37349494 AGTTGCAGTA
Statistics
Matches: 135, Mismatches: 21, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
126 18 0.13
127 7 0.05
128 100 0.74
129 8 0.06
130 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (126 bp):
GTGGAGCGGTTAAAGTAATAGATCTTGTCTCTCTAAGCAGTAGCGGAGCAGATCGAAGACGACGA
ATCTTATCTTCAAGTGTAAGGAAACAGATTTAAGCCACAAATCCTATCTCCCTGGTCAGCA
Found at i:37349704 original size:44 final size:43
Alignment explanation
Indices: 37349439--37349719 Score: 164
Period size: 44 Copynumber: 6.5 Consensus size: 43
37349429 CCACAAATCC
* *
37349439 TATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCTGATT-AAGTAATAGATCT
* * * * * *
37349483 TATCTCTCTAAAGTTGCAGTAGAG-TGGA-T-CG-CATCAGGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCT-GATTAAGTAAT-AGATCT
* * * * *
37349524 TATATCCCTGAGGTTGCAGTGGAGCAT-ACTGAGTAAGTAGGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGC-TGATTAAGTAA-TAGATCT
* * * * * * *
37349568 TATCCCCCTGAAGTTGCAGTGGGGCAGATCGAAG-AAGCAAATAT
1 TATCTCCCTGAAGTTGCAGTGGAGCTGAT-TAAGTAA-TAGATCT
* * * *
37349612 TATCTCCCT-AAGGTTACAGTGGAGCAGATTGAAGCCAATA-ATCC
1 TATCTCCCTGAA-GTTGCAGTGGAGCTGATT-AAG-TAATAGATCT
* *
37349656 TATCTCCCTAAAGTTGTAGTGGAGCTGATTAAAGTAATAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCTGATT-AAGTAATAGATCT
*
37349700 TATCTCTCTGAAGTTGCAGT
1 TATCTCCCTGAAGTTGCAGT
37349720 AGAACAGATC
Statistics
Matches: 178, Mismatches: 43, Indels: 32
0.70 0.17 0.13
Matches are distributed among these distances:
40 2 0.01
41 26 0.15
42 1 0.01
43 9 0.05
44 132 0.74
45 6 0.03
46 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (43 bp):
TATCTCCCTGAAGTTGCAGTGGAGCTGATTAAGTAATAGATCT
Found at i:37354302 original size:112 final size:111
Alignment explanation
Indices: 37353944--37354334 Score: 576
Period size: 112 Copynumber: 3.5 Consensus size: 111
37353934 GAAAAATTAA
* * * *
37353944 TTTTTTT-ACTTTTTTCGTATATTGATACCTGCTATTGACACGAAAAAAGT-AAAAAAAAATTCT
1 TTTTTTTAACTTTTTTCGTATACTGATACCTTCTTTTGACACGAAAAAAGTAAAAAAAAAATTCC
* *
37354007 CACAAAAAAGGTGGTGCCTGCCATTGGCAGGCCAGCA-C--AATTT
66 CACAAAAAAGGTGGTGCCGGCCATTGGCAGGCCACCACCAAAATTT
* * *
37354050 TTTTTTTTACTTTTTTCGTATATTGATACCTTCTTTTGACACGAAAAATGTAAAAAAAAAATTCC
1 TTTTTTTAACTTTTTTCGTATACTGATACCTTCTTTTGACACGAAAAAAGTAAAAAAAAAATTCC
*
37354115 CACAAAAAAGGTGGTGCCGGCCATTAGCAGGCCACCACCAAAAAAATTT
66 CACAAAAAAGGTGGTGCCGGCCATTGGCAGGCCACCACC---AAAATTT
** *
37354164 TTTTTAAAACTTTTTTCGTATACTGATACCTTCTTTTGACACGAAAAATGTAAAAAAAAAAATTC
1 TTTTTTTAACTTTTTTCGTATACTGATACCTTCTTTTGACACGAAAAAAGT-AAAAAAAAAATTC
37354229 CCACAAAAAAGGTGGTGCCGGCCATTGGCAGGCCACCACCAAAATTT
65 CCACAAAAAAGGTGGTGCCGGCCATTGGCAGGCCACCACCAAAATTT
* *
37354276 TTTTTTTAACTTTTTTAGTATACTGATACCTTCTTTTGACACAAAAAAAGTAAAAAAAA
1 TTTTTTTAACTTTTTTCGTATACTGATACCTTCTTTTGACACGAAAAAAGTAAAAAAAA
37354335 TACGAATTAG
Statistics
Matches: 259, Mismatches: 17, Indels: 13
0.90 0.06 0.04
Matches are distributed among these distances:
106 7 0.03
107 40 0.15
108 46 0.18
109 1 0.00
111 8 0.03
112 53 0.20
114 52 0.20
115 52 0.20
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.32
Consensus pattern (111 bp):
TTTTTTTAACTTTTTTCGTATACTGATACCTTCTTTTGACACGAAAAAAGTAAAAAAAAAATTCC
CACAAAAAAGGTGGTGCCGGCCATTGGCAGGCCACCACCAAAATTT
Found at i:37354651 original size:26 final size:27
Alignment explanation
Indices: 37354596--37354653 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 27
37354586 TTAAAAAATT
*
37354596 ATTTTAACTTTTTATTAATTTTTCTAA
1 ATTTTAACTTTTTATTAATTTTTATAA
* *
37354623 ATTTATAA-TTTTT-TTTATTTTTATCA
1 ATTT-TAACTTTTTATTAATTTTTATAA
37354649 ATTTT
1 ATTTT
37354654 TCTCAAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
25 1 0.04
26 14 0.52
27 9 0.33
28 3 0.11
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (27 bp):
ATTTTAACTTTTTATTAATTTTTATAA
Found at i:37354760 original size:20 final size:20
Alignment explanation
Indices: 37354735--37354772 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
37354725 GACATGTTAG
37354735 TATTTAATTAATTTTAAAAA
1 TATTTAATTAATTTTAAAAA
37354755 TATTTAATTAATTTTAAA
1 TATTTAATTAATTTTAAA
37354773 TTATAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TATTTAATTAATTTTAAAAA
Found at i:37362194 original size:46 final size:46
Alignment explanation
Indices: 37362127--37362303 Score: 291
Period size: 46 Copynumber: 3.8 Consensus size: 46
37362117 AGTGTGGAAC
37362127 GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAAAA
1 GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAAAA
* *
37362173 GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAATTGTGAGAA
1 GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAAAA
* * * *
37362219 GTAGGTATGGTATTTTACTAACGAAAACCGTACTGAGTTGTGAAAA
1 GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAAAA
*
37362265 GTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGTT
1 GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTT
37362304 ATAGCATTGT
Statistics
Matches: 118, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 118 1.00
ACGTcount: A:0.37, C:0.10, G:0.24, T:0.29
Consensus pattern (46 bp):
GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAAAA
Found at i:37367095 original size:25 final size:25
Alignment explanation
Indices: 37367067--37367120 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
37367057 AATCTTATGA
*
37367067 AAAGCCTTTGTGGTGTATTATCTAG
1 AAAGCCTTTGTGGTGTATTATATAG
*
37367092 AAAGCCTTTGTGGTGTATTGTATAG
1 AAAGCCTTTGTGGTGTATTATATAG
37367117 AAAG
1 AAAG
37367121 ACTGTATGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.28, C:0.09, G:0.26, T:0.37
Consensus pattern (25 bp):
AAAGCCTTTGTGGTGTATTATATAG
Found at i:37369554 original size:92 final size:92
Alignment explanation
Indices: 37369366--37369569 Score: 313
Period size: 94 Copynumber: 2.2 Consensus size: 92
37369356 TTTTTAAAAG
37369366 AAAAAAGCAATTAAGCCCTTGCTCTTTTTTTTTGCACTCAATTGGGTACATGAACTTTCAAAATG
1 AAAAAAGCAATTAAGCCCTTGCTCTTTTTTTTTGCACTCAATTGGGTACATGAACTTTCAAAATG
* * **
37369431 CATAAAAAAGGCCTTCAAACTTTTTCA
66 CATAAAAAAGACCCTCAAAAATTTTCA
*
37369458 AAAAAAGCAATTAAGCCCTTGCTGCTTTTTTTTTTGCACTCAATTGGGTACTTGAA-TTGTCAAA
1 AAAAAAGCAATTAAGCCCTTGCT-C-TTTTTTTTTGCACTCAATTGGGTACATGAACTT-TCAAA
37369522 ATGCATAAAAAA-ACCCTCAAAAATTTTCAA
63 ATGCATAAAAAAGACCCTCAAAAATTTTC-A
37369552 AAAAAAGCAATTAAGCCC
1 AAAAAAGCAATTAAGCCC
37369570 CTATTTTTTT
Statistics
Matches: 103, Mismatches: 5, Indels: 6
0.90 0.04 0.05
Matches are distributed among these distances:
92 23 0.22
93 15 0.15
94 65 0.63
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (92 bp):
AAAAAAGCAATTAAGCCCTTGCTCTTTTTTTTTGCACTCAATTGGGTACATGAACTTTCAAAATG
CATAAAAAAGACCCTCAAAAATTTTCA
Found at i:37369651 original size:20 final size:20
Alignment explanation
Indices: 37369615--37369652 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
37369605 AAAAGGCCAT
*
37369615 TTGACCGTAAACTTTAATAG
1 TTGACCGTAAACGTTAATAG
37369635 TTGACCGTTAAA-GTTAAT
1 TTGACCG-TAAACGTTAAT
37369653 TGCCCCTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (20 bp):
TTGACCGTAAACGTTAATAG
Found at i:37369728 original size:10 final size:10
Alignment explanation
Indices: 37369713--37369850 Score: 52
Period size: 10 Copynumber: 14.8 Consensus size: 10
37369703 GTCACATGTG
37369713 ATAAAAAATT
1 ATAAAAAATT
37369723 AT-AAAAA--
1 ATAAAAAATT
37369730 AT-AAAAATT
1 ATAAAAAATT
37369739 ATAAAAAA-T
1 ATAAAAAATT
* *
37369748 AT-TAAACTT
1 ATAAAAAATT
*
37369757 -TAATAAAAAT
1 ATAA-AAAATT
37369767 ATAAAAAATT
1 ATAAAAAATT
**
37369777 ATTTAAAATT
1 ATAAAAAATT
*
37369787 -TACTAAAA--
1 ATA-AAAAATT
37369795 ATAAAAAA-T
1 ATAAAAAATT
*
37369804 ATATATAAA-T
1 ATA-AAAAATT
37369814 AGTAAAAAA-T
1 A-TAAAAAATT
**
37369824 ATAAAATTTT
1 ATAAAAAATT
*
37369834 AT-AAAAATC
1 ATAAAAAATT
37369843 ATAAAAAA
1 ATAAAAAA
37369851 ACAATTATAA
Statistics
Matches: 97, Mismatches: 17, Indels: 28
0.68 0.12 0.20
Matches are distributed among these distances:
7 7 0.07
8 8 0.08
9 28 0.29
10 49 0.51
11 5 0.05
ACGTcount: A:0.67, C:0.02, G:0.01, T:0.30
Consensus pattern (10 bp):
ATAAAAAATT
Found at i:37369737 original size:16 final size:16
Alignment explanation
Indices: 37369716--37369748 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
37369706 ACATGTGATA
37369716 AAAAATTATAAAAAAT
1 AAAAATTATAAAAAAT
37369732 AAAAATTATAAAAAAT
1 AAAAATTATAAAAAAT
37369748 A
1 A
37369749 TTAAACTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAAATTATAAAAAAT
Found at i:37369753 original size:26 final size:25
Alignment explanation
Indices: 37369713--37369829 Score: 67
Period size: 29 Copynumber: 4.2 Consensus size: 25
37369703 GTCACATGTG
37369713 ATAAAAAAT-TATAAAAAATAAAAATT
1 ATAAAAAATAT-TAAAAAATAAAAA-T
*
37369739 ATAAAAAATATTAAACTTTAATAAAAAT
1 ATAAAAAATATTAAA---AAATAAAAAT
*
37369767 ATAAAAAATTATTTAAAATTTACTAAAAAT
1 ATAAAAAA-TA-TTAAAA---AATAAAAAT
* *
37369797 A-AAAAATATATATAAATAGTAAAAAAT
1 ATAAAAA-ATAT-TAAAAAAT-AAAAAT
37369824 ATAAAA
1 ATAAAA
37369830 TTTTATAAAA
Statistics
Matches: 73, Mismatches: 5, Indels: 24
0.72 0.05 0.24
Matches are distributed among these distances:
26 15 0.21
27 8 0.11
28 14 0.19
29 21 0.29
30 15 0.21
ACGTcount: A:0.68, C:0.02, G:0.01, T:0.30
Consensus pattern (25 bp):
ATAAAAAATATTAAAAAATAAAAAT
Found at i:37369764 original size:28 final size:27
Alignment explanation
Indices: 37369733--37369829 Score: 90
Period size: 28 Copynumber: 3.4 Consensus size: 27
37369723 ATAAAAAATA
*
37369733 AAAATTATAAAAAATATTAAACTTTAAT
1 AAAA-TATAAAAAATATTAAAATTTAAT
*
37369761 AAAAATATAAAAAATTATTTAAAATTTACT
1 -AAAATATAAAAAA-TA-TTAAAATTTAAT
*
37369791 AAAA-ATAAAAAATATATATAAATAGTAA-
1 AAAATATAAAAAATAT-TA-AAAT-TTAAT
37369819 AAAATATAAAA
1 AAAATATAAAA
37369830 TTTTATAAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
26 1 0.02
27 4 0.07
28 25 0.43
29 18 0.31
30 10 0.17
ACGTcount: A:0.66, C:0.02, G:0.01, T:0.31
Consensus pattern (27 bp):
AAAATATAAAAAATATTAAAATTTAAT
Found at i:37369784 original size:19 final size:19
Alignment explanation
Indices: 37369713--37369850 Score: 76
Period size: 19 Copynumber: 7.4 Consensus size: 19
37369703 GTCACATGTG
37369713 ATAAAAAATTA-TAAAAA-
1 ATAAAAAATTATTAAAAAT
*
37369730 AT-AAAAATTATAAAAAAT
1 ATAAAAAATTATTAAAAAT
* ** *
37369748 ATTAAACTTTAATAAAAAT
1 ATAAAAAATTATTAAAAAT
*
37369767 ATAAAAAATTATTTAAAAT
1 ATAAAAAATTATTAAAAAT
*
37369786 TTACTAAAAA-TA--AAAAAT
1 ATA--AAAAATTATTAAAAAT
* *
37369804 ATATATAAA-TAGTAAAAA-
1 ATA-AAAAATTATTAAAAAT
* *
37369822 ATATAAAATTTTATAAAAAT
1 ATAAAAAATTAT-TAAAAAT
37369842 CATAAAAAA
1 -ATAAAAAA
37369851 ACAATTATAA
Statistics
Matches: 91, Mismatches: 19, Indels: 18
0.71 0.15 0.14
Matches are distributed among these distances:
16 8 0.09
17 17 0.19
18 13 0.14
19 39 0.43
20 2 0.02
21 12 0.13
ACGTcount: A:0.67, C:0.02, G:0.01, T:0.30
Consensus pattern (19 bp):
ATAAAAAATTATTAAAAAT
Found at i:37369794 original size:30 final size:28
Alignment explanation
Indices: 37369729--37369812 Score: 98
Period size: 29 Copynumber: 2.9 Consensus size: 28
37369719 AATTATAAAA
*
37369729 AATAAAAATTATAAAAAATATTAAACTTT
1 AATAAAAA-TATAAAAAATATTAAAATTT
37369758 AATAAAAATATAAAAAATTATTTAAAATTT
1 AATAAAAATATAAAAAA-TA-TTAAAATTT
*
37369788 ACTAAAAATA-AAAAATATATATAAA
1 AATAAAAATATAAAAA-ATAT-TAAA
37369813 TAGTAAAAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
28 10 0.20
29 21 0.43
30 18 0.37
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.32
Consensus pattern (28 bp):
AATAAAAATATAAAAAATATTAAAATTT
Found at i:37369827 original size:29 final size:27
Alignment explanation
Indices: 37369713--37369841 Score: 77
Period size: 26 Copynumber: 4.7 Consensus size: 27
37369703 GTCACATGTG
* *
37369713 ATAAAAAATTATAAAAAATA-AAAATT
1 ATAAAAAATTATAAAAATTACAAAAAT
** *
37369739 ATAAAAAA-TATTAAACTTTAATAAAAAT
1 ATAAAAAATTA-TAAAAATT-ACAAAAAT
*
37369767 ATAAAAAATTATTTAAAATTTACTAAAAAT
1 ATAAAAAATTA--TAAAAATTAC-AAAAAT
* *
37369797 A-AAAAATATATATAAATAGTA-AAAAAT
1 ATAAAAA-AT-TATAAAAATTACAAAAAT
**
37369824 ATAAAATTTTATAAAAAT
1 ATAAAAAATTATAAAAAT
37369842 CATAAAAAAA
Statistics
Matches: 81, Mismatches: 13, Indels: 18
0.72 0.12 0.16
Matches are distributed among these distances:
25 2 0.02
26 20 0.25
27 9 0.11
28 17 0.21
29 14 0.17
30 17 0.21
31 2 0.02
ACGTcount: A:0.66, C:0.02, G:0.01, T:0.32
Consensus pattern (27 bp):
ATAAAAAATTATAAAAATTACAAAAAT
Found at i:37369836 original size:28 final size:27
Alignment explanation
Indices: 37369713--37369850 Score: 81
Period size: 28 Copynumber: 5.0 Consensus size: 27
37369703 GTCACATGTG
37369713 ATAAAAAAT-TATAAAAA--ATAAAAA
1 ATAAAAAATATATAAAAATCATAAAAA
** *
37369737 TTATAAAAAATAT-TAAACTTTAATAAAAA
1 --ATAAAAAATATATAAA-AATCATAAAAA
* * *
37369766 TATAAAAAATTATTTAAAATTTACT-AAAA
1 -ATAAAAAA-TATATAAAAATCA-TAAAAA
*
37369795 ATAAAAAATATATATAAAT-AGTAAAAA
1 ATAAAAAATATATAAAAATCA-TAAAAA
* *
37369822 ATATAAAATTTTATAAAAATCATAAAAA
1 ATA-AAAAATATATAAAAATCATAAAAA
37369850 A
1 A
37369851 ACAATTATAA
Statistics
Matches: 91, Mismatches: 11, Indels: 18
0.76 0.09 0.15
Matches are distributed among these distances:
26 15 0.16
27 16 0.18
28 37 0.41
29 18 0.20
30 5 0.05
ACGTcount: A:0.67, C:0.02, G:0.01, T:0.30
Consensus pattern (27 bp):
ATAAAAAATATATAAAAATCATAAAAA
Found at i:37370127 original size:10 final size:10
Alignment explanation
Indices: 37370112--37370217 Score: 51
Period size: 10 Copynumber: 10.8 Consensus size: 10
37370102 TTCTTATGAA
37370112 TTTATAAATT
1 TTTATAAATT
*
37370122 TTTATATATTT
1 TTTATA-AATT
* *
37370133 TTTCTATATT
1 TTTATAAATT
* *
37370143 TCTATATA-T
1 TTTATAAATT
37370152 TTTAT-AATT
1 TTTATAAATT
*
37370161 TTT-TACTATT
1 TTTATA-AATT
*
37370171 TTTATAAAAT
1 TTTATAAATT
* *
37370181 TTTA-CAACT
1 TTTATAAATT
37370190 TTTAT-AATCT
1 TTTATAAAT-T
* *
37370200 TTTCTAAGTT
1 TTTATAAATT
37370210 TTTATAAA
1 TTTATAAA
37370218 AATTAAATAT
Statistics
Matches: 70, Mismatches: 18, Indels: 16
0.67 0.17 0.15
Matches are distributed among these distances:
8 2 0.03
9 18 0.26
10 38 0.54
11 12 0.17
ACGTcount: A:0.32, C:0.07, G:0.01, T:0.60
Consensus pattern (10 bp):
TTTATAAATT
Found at i:37370155 original size:30 final size:28
Alignment explanation
Indices: 37370112--37370176 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 28
37370102 TTCTTATGAA
*
37370112 TTTATAAATTTTTATATATTTTTT-CTATAT
1 TTTATATA-TTTTATA-ATTTTTTACTAT-T
37370142 TTCTATATATTTTATAATTTTTTACTATT
1 TT-TATATATTTTATAATTTTTTACTATT
37370171 TTTATA
1 TTTATA
37370177 AAATTTTACA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
28 4 0.12
29 10 0.31
30 13 0.41
31 5 0.16
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (28 bp):
TTTATATATTTTATAATTTTTTACTATT
Found at i:37370173 original size:19 final size:19
Alignment explanation
Indices: 37370138--37370216 Score: 63
Period size: 19 Copynumber: 4.1 Consensus size: 19
37370128 TATTTTTTCT
37370138 ATATTTCTA-TATATTTTATA
1 ATATTT-TACTAT-TTTTATA
*
37370158 ATTTTTTACTATTTTTATA
1 ATATTTTACTATTTTTATA
* * *
37370177 AAATTTTACAACTTTTATA
1 ATATTTTACTATTTTTATA
*
37370196 ATCTTTT-CTAAGTTTTTATA
1 ATATTTTACT-A-TTTTTATA
37370216 A
1 A
37370217 AAATTAAATA
Statistics
Matches: 47, Mismatches: 9, Indels: 6
0.76 0.15 0.10
Matches are distributed among these distances:
18 1 0.02
19 30 0.64
20 16 0.34
ACGTcount: A:0.33, C:0.08, G:0.01, T:0.58
Consensus pattern (19 bp):
ATATTTTACTATTTTTATA
Found at i:37370263 original size:28 final size:29
Alignment explanation
Indices: 37370208--37370272 Score: 80
Period size: 28 Copynumber: 2.3 Consensus size: 29
37370198 CTTTTCTAAG
*
37370208 TTTTTATAAAAATTAAATATTTCTTAT-A
1 TTTTTATTAAAATTAAATATTTCTTATAA
*
37370236 TTTTTATTAAAATTTAATATTT-TGTATAA
1 TTTTTATTAAAATTAAATATTTCT-TATAA
*
37370265 ATTTTATT
1 TTTTTATT
37370273 GATTTTATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 1 0.03
28 23 0.72
29 8 0.25
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (29 bp):
TTTTTATTAAAATTAAATATTTCTTATAA
Found at i:37370586 original size:83 final size:85
Alignment explanation
Indices: 37370439--37370645 Score: 244
Period size: 83 Copynumber: 2.4 Consensus size: 85
37370429 AAAAAAAAGT
* * ***
37370439 TTAATTGCTTTTTTGAAAATGTTTGAGGGCATTTTTTATACATTTTGGCAGTTAAAGTACCCAAT
1 TTAATTGCTTTTTTGAAAAAGTTTGAGGGC-CTTTTTATACATTTTAAAAGTTAAAGTACCCAAT
37370504 TAAGTGC-AAAAAA-AGGGGC
65 TAAGTGCAAAAAAACAGGGGC
* * *
37370523 TTAATTGCTTTTTTGAAAAAGTTTGAGGGCCTTTTTATGCATTTTAAAAGTTCAAGTATCCAATT
1 TTAATTGCTTTTTTGAAAAAGTTTGAGGGCCTTTTTATACATTTTAAAAGTTAAAGTACCCAATT
37370588 AAGTGCAGAAAAAATCAGGGGC
66 AAGTGCA-AAAAAA-CAGGGGC
* *
37370610 TTAACTT--TTTTTTAAAAAAATTTTGAGGG-CTTTTTA
1 TTAA-TTGCTTTTTT-GAAAAAGTTTGAGGGCCTTTTTA
37370646 CACCCTTAAG
Statistics
Matches: 107, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
83 34 0.32
84 29 0.27
85 6 0.06
86 13 0.12
87 23 0.21
88 2 0.02
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.39
Consensus pattern (85 bp):
TTAATTGCTTTTTTGAAAAAGTTTGAGGGCCTTTTTATACATTTTAAAAGTTAAAGTACCCAATT
AAGTGCAAAAAAACAGGGGC
Found at i:37371844 original size:18 final size:18
Alignment explanation
Indices: 37371821--37371857 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
37371811 GGTCTAACGA
37371821 TTTTGTTAATTCAATAGT
1 TTTTGTTAATTCAATAGT
37371839 TTTTGTTAATTCAATAGT
1 TTTTGTTAATTCAATAGT
37371857 T
1 T
37371858 AATTAAGGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.05, G:0.11, T:0.57
Consensus pattern (18 bp):
TTTTGTTAATTCAATAGT
Found at i:37372362 original size:11 final size:11
Alignment explanation
Indices: 37372346--37372377 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
37372336 GTTTGGTAAC
37372346 CATTTTTTGTT
1 CATTTTTTGTT
37372357 CATTTTTTGTT
1 CATTTTTTGTT
*
37372368 CATTTCTTGT
1 CATTTTTTGT
37372378 AATTTTTATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.09, C:0.12, G:0.09, T:0.69
Consensus pattern (11 bp):
CATTTTTTGTT
Found at i:37374251 original size:18 final size:18
Alignment explanation
Indices: 37374216--37374253 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
37374206 GCATACTTCA
*
37374216 AACAACATATGTTCGCAT
1 AACAACATAGGTTCGCAT
37374234 AACAACATAGGTTCGCAT
1 AACAACATAGGTTCGCAT
37374252 AA
1 AA
37374254 TGGGTTCGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.21, G:0.13, T:0.24
Consensus pattern (18 bp):
AACAACATAGGTTCGCAT
Found at i:37376326 original size:6 final size:6
Alignment explanation
Indices: 37376317--37376353 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
37376307 TGTCCTTGAG
* *
37376317 CTTGTT CTTGTT TTTGTT TTTGTT CTTGTT CTTGTT C
1 CTTGTT CTTGTT CTTGTT CTTGTT CTTGTT CTTGTT C
37376354 ATATACTGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.00, C:0.14, G:0.16, T:0.70
Consensus pattern (6 bp):
CTTGTT
Found at i:37380446 original size:12 final size:12
Alignment explanation
Indices: 37380413--37380446 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
37380403 AATTTTGTTT
* *
37380413 TATATATATGCA
1 TATATACATTCA
37380425 TATATACATTCA
1 TATATACATTCA
37380437 TATATACATT
1 TATATACATT
37380447 TTGATAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.41, C:0.12, G:0.03, T:0.44
Consensus pattern (12 bp):
TATATACATTCA
Found at i:37384759 original size:27 final size:27
Alignment explanation
Indices: 37384722--37384926 Score: 223
Period size: 27 Copynumber: 7.6 Consensus size: 27
37384712 TAAATTGTAC
*
37384722 AGCACTAAGTGTGCGATTTGGCTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
37384749 AGCACTAAGTGTGCGATTTGACCATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** **
37384776 TGCACTAAGTGTGCGAAATGAAAATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
37384802 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
* *
37384830 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
37384857 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * * *
37384885 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
37384912 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
37384927 GACTTAATAT
Statistics
Matches: 152, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
27 128 0.84
28 24 0.16
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:37384783 original size:54 final size:54
Alignment explanation
Indices: 37384723--37384926 Score: 257
Period size: 54 Copynumber: 3.8 Consensus size: 54
37384713 AAATTGTACA
* * *
37384723 GCACTAAGTGTGCGATTTGGCTATGTAGCACTAAGTGTGCGATTTGACCATGTT
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGACCATGTG
** ** * *
37384777 GCACTAAGTGTGCGAAATGAAAATG-ATGCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAGTTGACTATGTA-GCACTAAGTGTGCGATTTGACCATGTG
**
37384831 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGTG
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGA-TTTGACCATGTG
* * *
37384886 GCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
37384927 GACTTAATAT
Statistics
Matches: 128, Mismatches: 19, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 80 0.62
55 47 0.37
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGACCATGTG
Found at i:37387898 original size:14 final size:15
Alignment explanation
Indices: 37387872--37387904 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
37387862 TGTCAAACTG
*
37387872 GGAAGGACCTTATGT
1 GGAAGGACCTTATCT
37387887 GGAAGG-CCTTATCT
1 GGAAGGACCTTATCT
37387901 GGAA
1 GGAA
37387905 AAGCGTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.27, C:0.15, G:0.33, T:0.24
Consensus pattern (15 bp):
GGAAGGACCTTATCT
Found at i:37388003 original size:5 final size:5
Alignment explanation
Indices: 37387993--37388073 Score: 85
Period size: 5 Copynumber: 15.8 Consensus size: 5
37387983 AAAAATGAAG
37387993 AAGAA AAGAA AAGAAA AAGAA GAAGAA GAAGAA AAGAA AAGAA AAGAAA
1 AAGAA AAGAA AAG-AA AAGAA -AAGAA -AAGAA AAGAA AAGAA AAG-AA
* * *
37388042 AAGAA AATAA GA-AA AAGAG AAGAA AA-AA AAGA
1 AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGA
37388074 GAGGGTAAGG
Statistics
Matches: 66, Mismatches: 5, Indels: 10
0.81 0.06 0.12
Matches are distributed among these distances:
4 7 0.11
5 38 0.58
6 21 0.32
ACGTcount: A:0.78, C:0.00, G:0.21, T:0.01
Consensus pattern (5 bp):
AAGAA
Found at i:37388012 original size:6 final size:6
Alignment explanation
Indices: 37387983--37388068 Score: 67
Period size: 6 Copynumber: 14.8 Consensus size: 6
37387973 AAAATATTTC
* * *
37387983 AAAAATG AAGAAG -AAAAG -AAAAG AAAAAG AAGAAG AAGAAG -AAAAG
1 AAAAA-G AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
*
37388029 -AAAAG -AAAAG AAAAAG AAAATAAG AAAAAG -AGAAG AAAAA
1 AAAAAG AAAAAG AAAAAG -AAA-AAG AAAAAG AAAAAG AAAAA
37388069 AAAGAGAGGG
Statistics
Matches: 68, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
5 27 0.40
6 28 0.41
7 10 0.15
8 3 0.04
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (6 bp):
AAAAAG
Found at i:37388012 original size:11 final size:11
Alignment explanation
Indices: 37387983--37388068 Score: 86
Period size: 11 Copynumber: 7.5 Consensus size: 11
37387973 AAAATATTTC
37387983 AAAAATGAAGAAG
1 AAAAA-GAA-AAG
37387996 -AAAAGAAAAG
1 AAAAAGAAAAG
37388006 AAAAAGAAGAAG
1 AAAAAGAA-AAG
*
37388018 AAGAAGAAAAG
1 AAAAAGAAAAG
37388029 -AAAAGAAAAG
1 AAAAAGAAAAG
37388039 AAAAAGAAAATAAG
1 AAAAAG--AA-AAG
*
37388053 AAAAAGAGAAG
1 AAAAAGAAAAG
37388064 AAAAA
1 AAAAA
37388069 AAAGAGAGGG
Statistics
Matches: 64, Mismatches: 3, Indels: 14
0.79 0.04 0.17
Matches are distributed among these distances:
10 12 0.19
11 26 0.41
12 15 0.23
13 2 0.03
14 9 0.14
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:37388021 original size:28 final size:28
Alignment explanation
Indices: 37387989--37388073 Score: 100
Period size: 28 Copynumber: 3.0 Consensus size: 28
37387979 TTTCAAAAAT
37387989 GAAGAAGAAAAGAAAAGAAAAAGAAGAA
1 GAAGAAGAAAAGAAAAGAAAAAGAAGAA
*
37388017 GAAGAAGAAAAGAAAAG-AAAAGAAAAA
1 GAAGAAGAAAAGAAAAGAAAAAGAAGAA
* * *
37388044 GAAAATAAGAAAAAGAGAAGAAAAAAAAGA
1 G--AAGAAG-AAAAGAAAAGAAAAAGAAGA
37388074 GAGGGTAAGG
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
27 10 0.21
28 17 0.35
29 5 0.10
30 9 0.19
31 7 0.15
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.01
Consensus pattern (28 bp):
GAAGAAGAAAAGAAAAGAAAAAGAAGAA
Found at i:37388074 original size:14 final size:14
Alignment explanation
Indices: 37387996--37388075 Score: 65
Period size: 14 Copynumber: 5.6 Consensus size: 14
37387986 AATGAAGAAG
*
37387996 AAAAGAAAAGAAAA
1 AAAAGAGAAGAAAA
* *
37388010 AGAAGAAGAAG-AAG
1 AAAAG-AGAAGAAAA
*
37388024 AAAAGAAAAGAAAA
1 AAAAGAGAAGAAAA
*
37388038 GAAAA-AGAAAATAAGA
1 -AAAAGAGAAGA-AA-A
37388054 AAAAGAGAAGAAAA
1 AAAAGAGAAGAAAA
37388068 AAAAGAGA
1 AAAAGAGA
37388076 GGGTAAGGCG
Statistics
Matches: 51, Mismatches: 9, Indels: 12
0.71 0.12 0.17
Matches are distributed among these distances:
13 4 0.08
14 25 0.49
15 16 0.31
16 6 0.12
ACGTcount: A:0.78, C:0.00, G:0.21, T:0.01
Consensus pattern (14 bp):
AAAAGAGAAGAAAA
Found at i:37389456 original size:89 final size:89
Alignment explanation
Indices: 37389313--37389850 Score: 770
Period size: 89 Copynumber: 6.0 Consensus size: 89
37389303 GTGAAGATAG
* * * *
37389313 CAGCCTTGCCTTCCTGTACTGATAGCGGAGTAGACTGAAGATAGCAGATCTTGCCTTCCTATACT
1 CAGCCTTGCCTTCCTGTACTGACAGTGGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACT
* *
37389378 GACGGCGAAGTAGATCGAAGACAC
66 GACAGCGAAGCAGATCGAAGACAC
* * *
37389402 CAGCCTTGCCTTCCTGTACTGTCAGTAGAGAAGACTGAAGATAGCAGATCTTGCCTTCCTGTACT
1 CAGCCTTGCCTTCCTGTACTGACAGTGGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACT
* *
37389467 GACAGCGAAGCAGATCAAAAACAC
66 GACAGCGAAGCAGATCGAAGACAC
* * *
37389491 CAGCTTTGCCTTCCTGTACTGACAGCGGAGCAGACTGAATATAGCAGATCTTGCCTTCCTGTACT
1 CAGCCTTGCCTTCCTGTACTGACAGTGGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACT
*
37389556 GACAGCGAAGCAGATCTAAGACAC
66 GACAGCGAAGCAGATCGAAGACAC
* * * *
37389580 CAGCCTTGCCTTCCTGTACTGACAGTGGAGCAAACTGAATATAGCAGATCTTACCTTCCTATACT
1 CAGCCTTGCCTTCCTGTACTGACAGTGGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACT
37389645 GACAGCGAAGCAGATCGAAGACAC
66 GACAGCGAAGCAGATCGAAGACAC
* *
37389669 CAGCCTTGCCTTCCTGTACTGACAGTAGAGCAGACTGAAGATAACAGATCTTGCCTTCCTGTACT
1 CAGCCTTGCCTTCCTGTACTGACAGTGGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACT
*
37389734 GACAGCGAAGCAGATTGAAGACAC
66 GACAGCGAAGCAGATCGAAGACAC
* * * * * **
37389758 CAGCCTTGCCTTCTTATACTGACAGCGAAGCAGACTGAAGATAGCAGATCTTGCTTTTTTATGTA
1 CAGCCTTGCCTTCCTGTACTGACAGTGGAGCAGACTGAAGATAGCAGATCTTGC--CTTCCTGTA
* * *
37389823 CTGCCAGCGAAGCAGATCAAAAACAC
64 CTGACAGCGAAGCAGATCGAAGACAC
37389849 CA
1 CA
37389851 TAGTTTGTAA
Statistics
Matches: 403, Mismatches: 44, Indels: 2
0.90 0.10 0.00
Matches are distributed among these distances:
89 373 0.93
91 30 0.07
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.23
Consensus pattern (89 bp):
CAGCCTTGCCTTCCTGTACTGACAGTGGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACT
GACAGCGAAGCAGATCGAAGACAC
Found at i:37389835 original size:47 final size:46
Alignment explanation
Indices: 37389433--37389838 Score: 184
Period size: 44 Copynumber: 9.1 Consensus size: 46
37389423 TCAGTAGAGA
* * **
37389433 AGACTGAAGATAGCAGATCTTGC-CTTCCTGTACTGACAGCGAAGC
1 AGACTGAAGATAACAGATCTTGCTTTTTATGTACTGACAGCGAAGC
* * * * ** *
37389478 AGA-TCAA-A-AACACCAGCTTTGC-CTTCCTGTACTGACAGCGGAGC
1 AGACTGAAGATAACA-GATC-TTGCTTTTTATGTACTGACAGCGAAGC
* * * **
37389522 AGACTGAATATAGCAGATCTTGC-CTTCCTGTACTGACAGCGAAGC
1 AGACTGAAGATAACAGATCTTGCTTTTTATGTACTGACAGCGAAGC
* * * * ** * *
37389567 AGATCT-AAGACACCAG-CCTTGC-CTTCCTGTACTGACAGTGGAGC
1 AGA-CTGAAGATAACAGATCTTGCTTTTTATGTACTGACAGCGAAGC
* * * * **
37389611 AAACTGAATATAGCAGATCTTACCTTCCTA--TACTGACAGCGAAGC
1 AGACTGAAGATAACAGATCTT-GCTTTTTATGTACTGACAGCGAAGC
* * * * ** *
37389656 AGA-TCGAAGACACCAG-CCTTGC-CTTCCTGTACTGACAG-TAGAGC
1 AGACT-GAAGATAACAGATCTTGCTTTTTATGTACTGACAGCGA-AGC
* **
37389700 AGACTGAAGATAACAGATCTTGC-CTTCCTGTACTGACAGCGAAGC
1 AGACTGAAGATAACAGATCTTGCTTTTTATGTACTGACAGCGAAGC
* * * * *
37389745 AGATTGAAGACACCAG-CCTTGCCTTCTTA--TACTGACAGCGAAGC
1 AGACTGAAGATAACAGATCTTG-CTTTTTATGTACTGACAGCGAAGC
* *
37389789 AGACTGAAGATAGCAGATCTTGCTTTTTTATGTACTGCCAGCGAAGC
1 AGACTGAAGATAACAGATCTTGC-TTTTTATGTACTGACAGCGAAGC
37389836 AGA
1 AGA
37389839 TCAAAAACAC
Statistics
Matches: 279, Mismatches: 59, Indels: 44
0.73 0.15 0.12
Matches are distributed among these distances:
42 3 0.01
43 7 0.03
44 126 0.45
45 115 0.41
46 8 0.03
47 20 0.07
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.23
Consensus pattern (46 bp):
AGACTGAAGATAACAGATCTTGCTTTTTATGTACTGACAGCGAAGC
Found at i:37404609 original size:19 final size:19
Alignment explanation
Indices: 37404585--37404622 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
37404575 ACCACTATCT
37404585 CCCACCATAATCAAATTTG
1 CCCACCATAATCAAATTTG
37404604 CCCACCATAATCAAATTTG
1 CCCACCATAATCAAATTTG
37404623 TTATTAACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.32, G:0.05, T:0.26
Consensus pattern (19 bp):
CCCACCATAATCAAATTTG
Found at i:37411789 original size:17 final size:17
Alignment explanation
Indices: 37411762--37411828 Score: 57
Period size: 17 Copynumber: 3.7 Consensus size: 17
37411752 AACATTCAAG
37411762 CATAT-ATCACAATACT
1 CATATAATCACAATACT
37411778 CATATAATCAC-ATAACATT
1 CATATAATCACAAT-AC--T
*
37411797 CAAGCATATATCACAATACT
1 C-A-TATA-ATCACAATACT
37411817 CATATAATCACA
1 CATATAATCACA
37411829 TAACATTCAA
Statistics
Matches: 41, Mismatches: 2, Indels: 15
0.71 0.03 0.26
Matches are distributed among these distances:
16 7 0.17
17 13 0.32
18 3 0.07
19 3 0.07
20 3 0.07
21 3 0.07
22 7 0.17
23 2 0.05
ACGTcount: A:0.46, C:0.24, G:0.01, T:0.28
Consensus pattern (17 bp):
CATATAATCACAATACT
Found at i:37411855 original size:39 final size:39
Alignment explanation
Indices: 37411681--37411857 Score: 300
Period size: 39 Copynumber: 4.5 Consensus size: 39
37411671 ATTCACTTTT
* * *
37411681 AAGCATATATCACATTACACATATAATCACATAACATTT
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
* * *
37411720 AAGCATATATCATAATACACATATGATCACATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
37411759 AAGCATATATCACAATACTCATATAATCACATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
37411798 AAGCATATATCACAATACTCATATAATCACATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
37411837 AAGCATATATCACAATACTCA
1 AAGCATATATCACAATACTCA
37411858 AAAACATGTT
Statistics
Matches: 131, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 131 1.00
ACGTcount: A:0.46, C:0.22, G:0.03, T:0.28
Consensus pattern (39 bp):
AAGCATATATCACAATACTCATATAATCACATAACATTC
Found at i:37420412 original size:6 final size:6
Alignment explanation
Indices: 37420401--37420427 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
37420391 CCCACCATGA
37420401 TGATGG TGATGG TGATGG TGATGG TGA
1 TGATGG TGATGG TGATGG TGATGG TGA
37420428 GAAGTTATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.48, T:0.33
Consensus pattern (6 bp):
TGATGG
Found at i:37422642 original size:3 final size:3
Alignment explanation
Indices: 37422634--37422665 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
37422624 TAAAGTGAAA
37422634 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
37422666 ACTACCTCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:37423143 original size:31 final size:30
Alignment explanation
Indices: 37423078--37423144 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 30
37423068 ACCTAGTATT
* * *
37423078 TTAAATAAAAGTTTTGAATAGTTTATTGAT
1 TTAAATAAAACTTTTGAATAGTTTATAGAC
37423108 TTAAATAAAAACTTTTGAATAGTTTAATAG-C
1 TTAAAT-AAAACTTTTGAATAGTTT-ATAGAC
37423139 TTAAAT
1 TTAAAT
37423145 TGAAAATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 6 0.19
31 23 0.72
32 3 0.09
ACGTcount: A:0.43, C:0.03, G:0.10, T:0.43
Consensus pattern (30 bp):
TTAAATAAAACTTTTGAATAGTTTATAGAC
Found at i:37424645 original size:29 final size:29
Alignment explanation
Indices: 37424582--37424645 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
37424572 AATAGTTGAA
**
37424582 TAACCATTTTGTAACTTTTTATAGTTTTG
1 TAACCATTTTGTAACTTTTTATAGTTAGG
37424611 TAACCATTTTGTAA-TTTTTCATAGTTAGG
1 TAACCATTTTGTAACTTTTT-ATAGTTAGG
*
37424640 TGACCA
1 TAACCA
37424646 AAAAAGAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
28 5 0.16
29 26 0.84
ACGTcount: A:0.27, C:0.12, G:0.12, T:0.48
Consensus pattern (29 bp):
TAACCATTTTGTAACTTTTTATAGTTAGG
Found at i:37424913 original size:59 final size:58
Alignment explanation
Indices: 37424837--37424949 Score: 147
Period size: 59 Copynumber: 1.9 Consensus size: 58
37424827 TAGTTGAGTA
* * * *
37424837 ACTATTTTGTAACTTTTCATAATTTAAT-GACTAAAAAAGAAATTTACTAATAATTAGTG
1 ACTATTTTATAAATTTTCATAATTAAATAG-CCAAAAAA-AAATTTACTAATAATTAGTG
**
37424896 ACTATTTTATAAATTTTCATAATTAAATAGCCAAAAAAAGTTTTACTAATAATT
1 ACTATTTTATAAATTTTCATAATTAAATAGCCAAAAAAAAATTTACTAATAATT
37424950 GAGAAAGTGT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
58 14 0.30
59 32 0.68
60 1 0.02
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (58 bp):
ACTATTTTATAAATTTTCATAATTAAATAGCCAAAAAAAAATTTACTAATAATTAGTG
Found at i:37427920 original size:18 final size:18
Alignment explanation
Indices: 37427893--37427931 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
37427883 CTTGGTTTTC
* *
37427893 ATATAATTGATATGGAGG
1 ATATAATTGAGAAGGAGG
*
37427911 ATATATTTGAGAAGGAGG
1 ATATAATTGAGAAGGAGG
37427929 ATA
1 ATA
37427932 CATGAGAGGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.28, T:0.31
Consensus pattern (18 bp):
ATATAATTGAGAAGGAGG
Found at i:37432192 original size:452 final size:452
Alignment explanation
Indices: 37431348--37432246 Score: 1744
Period size: 452 Copynumber: 2.0 Consensus size: 452
37431338 GAAAACATTC
37431348 TCAGACTGGGTCTAGACTAGGACTAAAAGGCGGTGTTTTCAAGAAACCAAAATTCTAAGGAAAAT
1 TCAGACTGGGTCTAGACTAGGACTAAAAGGCGGTGTTTTCAAGAAACCAAAATTCTAAGGAAAAT
37431413 GCTTTAATTGTAATAAGATGGGGCACAAGTCATCTGGTTGTAGGCTTCTAAAAAGGGTCAGAACA
66 GCTTTAATTGTAATAAGATGGGGCACAAGTCATCTGGTTGTAGGCTTCTAAAAAGGGTCAGAACA
* *
37431478 AACGATGCCAATGCTGTGGAAAATATTTCTAAAGAAGTATCTGATCTTAACCTTTACGCTGTGAT
131 AACGAGGCCAACGCTGTGGAAAATATTTCTAAAGAAGTATCTGATCTTAACCTTTACGCTGTGAT
37431543 TTCTAAAGTCAACTTGGTTGATTTAAATCAAGAGAATGGTGGCTTGATACTGGTGTCACACATCA
196 TTCTAAAGTCAACTTGGTTGATTTAAATCAAGAGAATGGTGGCTTGATACTGGTGTCACACATCA
37431608 TATTTGCTGTGACAAGGACTCTTTTGTTGAGTTGGTTCCTTGTGAGAAATGGGAGAAAATCTATA
261 TATTTGCTGTGACAAGGACTCTTTTGTTGAGTTGGTTCCTTGTGAGAAATGGGAGAAAATCTATA
37431673 TGGGCAATGCTACAACTTCCAAGATTAAGGGGAAAGGCACTGTAATTTTGAAGTTTTGGCAAATA
326 TGGGCAATGCTACAACTTCCAAGATTAAGGGGAAAGGCACTGTAATTTTGAAGTTTTGGCAAATA
37431738 GTTGAAACTGTAAAATGTGTCGTATGTGCTCGACATATGCAAAAATCTTATCTCTGGTGTTT
391 GTTGAAACTGTAAAATGTGTCGTATGTGCTCGACATATGCAAAAATCTTATCTCTGGTGTTT
*
37431800 TCAGACTGGGTCTAGACTAGGACTAAAATGCGGTGTTTTCAAGAAACCAAAATTCTAAGGAAAAT
1 TCAGACTGGGTCTAGACTAGGACTAAAAGGCGGTGTTTTCAAGAAACCAAAATTCTAAGGAAAAT
37431865 GCTTTAATTGTAATAAGATGGGGCACAAGTCATCTGGTTGTAGGCTTCTAAAAAGGGTCAGAACA
66 GCTTTAATTGTAATAAGATGGGGCACAAGTCATCTGGTTGTAGGCTTCTAAAAAGGGTCAGAACA
*
37431930 AACGAGGCCAACGCTGTGGAAAATATTTCTAAAGAAGTATTTGATCTTAACCTTTACGCTGTGAT
131 AACGAGGCCAACGCTGTGGAAAATATTTCTAAAGAAGTATCTGATCTTAACCTTTACGCTGTGAT
37431995 TTCTAAAGTCAACTTGGTTGATTTAAATCAAGAGAATGGTGGCTTGATACTGGTGTCACACATCA
196 TTCTAAAGTCAACTTGGTTGATTTAAATCAAGAGAATGGTGGCTTGATACTGGTGTCACACATCA
*
37432060 TATTTGCTGTGACAAGGACTCTTTTGTTGAGTTGGTTCCTTGTGAGATATGGGAGAAAATCTATA
261 TATTTGCTGTGACAAGGACTCTTTTGTTGAGTTGGTTCCTTGTGAGAAATGGGAGAAAATCTATA
37432125 TGGGCAATGCTACAACTTCCAAGATTAAGGGGAAAGGCACTGTAATTTTGAAGTTTTGGCAAATA
326 TGGGCAATGCTACAACTTCCAAGATTAAGGGGAAAGGCACTGTAATTTTGAAGTTTTGGCAAATA
*
37432190 GTTGAAACTGTAAAATGTGTCGTATGTGCTCGACATATGCAAGAATCTTATCTCTGG
391 GTTGAAACTGTAAAATGTGTCGTATGTGCTCGACATATGCAAAAATCTTATCTCTGG
37432247 GACCCTCCTA
Statistics
Matches: 441, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
452 441 1.00
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.31
Consensus pattern (452 bp):
TCAGACTGGGTCTAGACTAGGACTAAAAGGCGGTGTTTTCAAGAAACCAAAATTCTAAGGAAAAT
GCTTTAATTGTAATAAGATGGGGCACAAGTCATCTGGTTGTAGGCTTCTAAAAAGGGTCAGAACA
AACGAGGCCAACGCTGTGGAAAATATTTCTAAAGAAGTATCTGATCTTAACCTTTACGCTGTGAT
TTCTAAAGTCAACTTGGTTGATTTAAATCAAGAGAATGGTGGCTTGATACTGGTGTCACACATCA
TATTTGCTGTGACAAGGACTCTTTTGTTGAGTTGGTTCCTTGTGAGAAATGGGAGAAAATCTATA
TGGGCAATGCTACAACTTCCAAGATTAAGGGGAAAGGCACTGTAATTTTGAAGTTTTGGCAAATA
GTTGAAACTGTAAAATGTGTCGTATGTGCTCGACATATGCAAAAATCTTATCTCTGGTGTTT
Found at i:37439469 original size:7 final size:7
Alignment explanation
Indices: 37439452--37439503 Score: 72
Period size: 7 Copynumber: 7.6 Consensus size: 7
37439442 TCTGAGTCAA
37439452 AAAAATG
1 AAAAATG
37439459 -AAAATG
1 AAAAATG
37439465 AAAAATG
1 AAAAATG
37439472 AAAAAATG
1 -AAAAATG
*
37439480 -AGAATG
1 AAAAATG
37439486 AAAAATG
1 AAAAATG
37439493 AAAAATG
1 AAAAATG
37439500 AAAA
1 AAAA
37439504 GTAATGATGG
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
6 11 0.28
7 22 0.55
8 7 0.17
ACGTcount: A:0.71, C:0.00, G:0.15, T:0.13
Consensus pattern (7 bp):
AAAAATG
Found at i:37439477 original size:21 final size:21
Alignment explanation
Indices: 37439451--37439503 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
37439441 CTCTGAGTCA
37439451 AAAAAATGAAAATGAAAAATG
1 AAAAAATGAAAATGAAAAATG
*
37439472 AAAAAATGAGAATGAAAAATG
1 AAAAAATGAAAATGAAAAATG
37439493 -AAAAATGAAAA
1 AAAAAATGAAAA
37439504 GTAATGATGG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 10 0.33
21 20 0.67
ACGTcount: A:0.72, C:0.00, G:0.15, T:0.13
Consensus pattern (21 bp):
AAAAAATGAAAATGAAAAATG
Found at i:37441006 original size:44 final size:44
Alignment explanation
Indices: 37440958--37441469 Score: 234
Period size: 44 Copynumber: 11.0 Consensus size: 44
37440948 CGATTAAGTT
* *
37440958 GGAGCAGATTGAAGCCAGAAATCTTATCTCCCTCAGATTACAGC
1 GGAGCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGC
* ** *
37441002 GGAGCAGATTGAAGCTAGTAATCACA-CTCCCTGAGATTACAGT
1 GGAGCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGC
* ** * * *
37441045 GGAGCGGATT-AAAATA-AAGGATCTTATCTCTCT-AAAGTTACAATAGA
1 GGAGCAGATTGAAGCTAGAA--ATCTTATCTCCCTGAGA-TTAC---AGC
* * *
37441092 GTAGATCACATCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGC
1 G--G-----AGCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGC
* * * *
37441143 GGAGCAGATTGAAGCTAGTAATCCTATCTCCTTGAGATTACAGT
1 GGAGCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGC
* ** *
37441187 GGAGCGGATT-AAAATA-AAGGATCTTATCTCCCTGA-AGTTACAGTA
1 GGAGCAGATTGAAGCTAGAA--ATCTTATCTCCCTGAGA-TTACAG-C
* * * * *
37441232 GAGTAGATCACATCAGATTGAAGCCAGAAATCCTATTTCCTTGAGATTAAAGC
1 G-G-AG-------CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGC
* * *
37441285 GGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGT
1 GGAGCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGC
* ** * *
37441329 GGAGCGGATT-AAAATA-AAGGATCTTATCTCTCTGA-AGTTACAGTAGA
1 GGAGCAGATTGAAGCTAGAA--ATCTTATCTCCCTGAGA-TTAC---AGC
* *
37441376 GTAGATCGCATCAGTTTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGA
1 G--GA--G---CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGC
* * *
37441427 GGAACAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAG
1 GGAGCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAG
37441470 TGGAACGGAT
Statistics
Matches: 350, Mismatches: 69, Indels: 98
0.68 0.13 0.19
Matches are distributed among these distances:
41 1 0.00
42 6 0.02
43 40 0.11
44 190 0.54
45 1 0.00
46 1 0.00
47 8 0.02
49 6 0.02
51 10 0.03
52 1 0.00
53 1 0.00
54 66 0.19
55 14 0.04
56 5 0.01
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (44 bp):
GGAGCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGC
Found at i:37441043 original size:43 final size:44
Alignment explanation
Indices: 37440958--37441054 Score: 124
Period size: 43 Copynumber: 2.2 Consensus size: 44
37440948 CGATTAAGTT
**
37440958 GGAGCAGATTGAAGCCAGAAATCTTATCTCCCTCAGATTACAGC
1 GGAGCAGATTGAAGCCAGAAATCACATCTCCCTCAGATTACAGC
* * * *
37441002 GGAGCAGATTGAAGCTAGTAATCACA-CTCCCTGAGATTACAGT
1 GGAGCAGATTGAAGCCAGAAATCACATCTCCCTCAGATTACAGC
*
37441045 GGAGCGGATT
1 GGAGCAGATT
37441055 AAAATAAAGG
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
43 24 0.52
44 22 0.48
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.23
Consensus pattern (44 bp):
GGAGCAGATTGAAGCCAGAAATCACATCTCCCTCAGATTACAGC
Found at i:37441240 original size:142 final size:142
Alignment explanation
Indices: 37440962--37441531 Score: 946
Period size: 142 Copynumber: 4.0 Consensus size: 142
37440952 TAAGTTGGAG
*
37440962 CAGATTGAAGCCAGAAATCTTATCTCCCTCAGATTACAGCGGAGCAGATTGAAGCTAGTAATCAC
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATC-C
*
37441027 -A-CTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAATA
65 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTA
37441090 GAGTAGATCACAT
130 GAGTAGATCACAT
*
37441103 CAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
* * *
37441168 ATCTCCTTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCCCTGAAGTTACAGTAG
66 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAG
37441233 AGTAGATCACAT
131 AGTAGATCACAT
* * * *
37441245 CAGATTGAAGCCAGAAATCCTATTTCCTTGAGATTAAAGCGGAGCAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
*
37441310 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAG
*
37441375 AGTAGATCGCAT
131 AGTAGATCACAT
* * * *
37441387 CAGTTTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGAGGAACAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
* *
37441452 ATCTCCCTGAGATTACAGTGGAACGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTATAGTAG
66 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAG
*
37441517 AGTAGATCGCAT
131 AGTAGATCACAT
37441529 CAG
1 CAG
37441532 GTCTTATCTC
Statistics
Matches: 402, Mismatches: 25, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
140 1 0.00
141 62 0.15
142 339 0.84
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (142 bp):
CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAG
AGTAGATCACAT
Found at i:37441316 original size:98 final size:97
Alignment explanation
Indices: 37441147--37441328 Score: 224
Period size: 98 Copynumber: 1.9 Consensus size: 97
37441137 TACAGCGGAG
* * * * * * *
37441147 CAGATTGAAGCTAGTAATCCTATCTCCTTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTT
1 CAGATTGAAGCCAGAAATCCTATCTCCTTGAGATTAAAGCGGAGCAGATTAAAAT-AAGAATCCT
37441212 ATCTCCCTGA-AGTTACAGTAGAGTAGATCACAT
65 ATCTCCCTGAGA-TTACAGTAGAGTAGATCACAT
* **
37441245 CAGATTGAAGCCAGAAATCCTATTTCCTTGAGATTAAAGCGGAGCAGATTGAAGCT-AGTAATCC
1 CAGATTGAAGCCAGAAATCCTATCTCCTTGAGATTAAAGCGGAGCAGATT-AAAATAAG-AATCC
37441309 TATCTCCCTGAGATTACAGT
64 TATCTCCCTGAGATTACAGT
37441329 GGAGCGGATT
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
97 2 0.03
98 65 0.92
99 4 0.06
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (97 bp):
CAGATTGAAGCCAGAAATCCTATCTCCTTGAGATTAAAGCGGAGCAGATTAAAATAAGAATCCTA
TCTCCCTGAGATTACAGTAGAGTAGATCACAT
Found at i:37441468 original size:98 final size:97
Alignment explanation
Indices: 37441293--37441470 Score: 216
Period size: 98 Copynumber: 1.8 Consensus size: 97
37441283 GCGGAGCAGA
* * * * * *
37441293 TTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCT
1 TTGAAGCTAGAAATCCTATCTCCCTGAGATTACAGAGGAACAGATTAAAAT-AAGAATCCTATCT
*
37441358 CTCTGAAGTTACAGTAGAGTAGATCGCATCAGT
65 CCCTGAAGTTACAGTAGAGTAGATCGCATCAGT
* **
37441391 TTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGAGGAACAGATTGAAGCT-AGTAATCCTATC
1 TTGAAGCTAGAAATCCTATCTCCCTGAGATTACAGAGGAACAGATT-AAAATAAG-AATCCTATC
37441455 TCCCTG-AGATTACAGT
64 TCCCTGAAG-TTACAGT
37441471 GGAACGGATT
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
97 4 0.06
98 60 0.90
99 3 0.04
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (97 bp):
TTGAAGCTAGAAATCCTATCTCCCTGAGATTACAGAGGAACAGATTAAAATAAGAATCCTATCTC
CCTGAAGTTACAGTAGAGTAGATCGCATCAGT
Found at i:37441475 original size:44 final size:44
Alignment explanation
Indices: 37441391--37441480 Score: 144
Period size: 44 Copynumber: 2.0 Consensus size: 44
37441381 TCGCATCAGT
*
37441391 TTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGAGGAACAGA
1 TTGAAGCTAGAAATCCTATCTCCCTGAGATTACAGAGGAACAGA
* * *
37441435 TTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAACGGA
1 TTGAAGCTAGAAATCCTATCTCCCTGAGATTACAGAGGAACAGA
37441479 TT
1 TT
37441481 AAAATAAAGG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (44 bp):
TTGAAGCTAGAAATCCTATCTCCCTGAGATTACAGAGGAACAGA
Found at i:37441868 original size:99 final size:100
Alignment explanation
Indices: 37441693--37441874 Score: 258
Period size: 99 Copynumber: 1.8 Consensus size: 100
37441683 GTGATACCGT
* * * * * *
37441693 GGAATAGATTAAAACCACATCGGTGAATCTTGCTTCCTCGACATTGCAGTTCAAAAGATTAAAGC
1 GGAACAGATTAAAACCACAACAGCGAATCATGCTTCCTCGACATTGCAGTTAAAAAGATTAAAGC
*
37441758 TACAACAGCGAA-CTTACCTCCCAGGTGATGCAAC
66 CACAACAGCGAATCTTACCTCCCAGGTGATGCAAC
* *
37441792 GGAACAGATTAAAGCCACAACAGCGAATCATGCTTCCTCGACATTGTAGTTAAAAAGATTAAAGC
1 GGAACAGATTAAAACCACAACAGCGAATCATGCTTCCTCGACATTGCAGTTAAAAAGATTAAAGC
**
37441857 CACAATGGCGAATCTTAC
66 CACAACAGCGAATCTTAC
37441875 TTCCAAAAGT
Statistics
Matches: 71, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
99 66 0.93
100 5 0.07
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (100 bp):
GGAACAGATTAAAACCACAACAGCGAATCATGCTTCCTCGACATTGCAGTTAAAAAGATTAAAGC
CACAACAGCGAATCTTACCTCCCAGGTGATGCAAC
Found at i:37447979 original size:7 final size:7
Alignment explanation
Indices: 37447967--37448000 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
37447957 GATTATCCCT
37447967 CCTCATA
1 CCTCATA
37447974 CCTCATA
1 CCTCATA
37447981 CCTCATA
1 CCTCATA
37447988 CCTCATA
1 CCTCATA
37447995 CCTCAT
1 CCTCAT
37448001 GGGCTTCCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.26, C:0.44, G:0.00, T:0.29
Consensus pattern (7 bp):
CCTCATA
Found at i:37448744 original size:14 final size:16
Alignment explanation
Indices: 37448710--37448750 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
37448700 TTATGTCAAT
*
37448710 AATTATTAAAAGTTCAA
1 AATT-TTAAAAGTTAAA
37448727 AA-TTTAAAA-TTAAA
1 AATTTTAAAAGTTAAA
37448741 AATTTTAAAA
1 AATTTTAAAA
37448751 AATAAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 6 0.27
15 13 0.59
16 1 0.05
17 2 0.09
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (16 bp):
AATTTTAAAAGTTAAA
Found at i:37448769 original size:17 final size:17
Alignment explanation
Indices: 37448728--37448771 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
37448718 AAAGTTCAAA
*
37448728 ATTTAAAATTAAAAATT
1 ATTTAAAATAAAAAATT
*
37448745 -TTAAAAAATAAAAAATT
1 ATT-TAAAATAAAAAATT
37448762 ATTTAAAATA
1 ATTTAAAATA
37448772 TATTTTTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
16 2 0.09
17 18 0.82
18 2 0.09
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
ATTTAAAATAAAAAATT
Found at i:37449692 original size:20 final size:20
Alignment explanation
Indices: 37449655--37449693 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
37449645 ATTTTAAAAT
**
37449655 ATTTTTAAAATACTTTTTTA
1 ATTTTTAAAATAAATTTTTA
37449675 ATTTTTAAAATAAATTTTT
1 ATTTTTAAAATAAATTTTT
37449694 GGTATTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (20 bp):
ATTTTTAAAATAAATTTTTA
Found at i:37450177 original size:33 final size:30
Alignment explanation
Indices: 37450140--37450203 Score: 74
Period size: 33 Copynumber: 2.0 Consensus size: 30
37450130 TAATGAAAAC
* *
37450140 TAAATTTATTATTATATTGAATGACTAAAATAT
1 TAAATTTATGATAATATT-AATGA--AAAATAT
*
37450173 TAAATTTCTGATAATATTAATGAAAAATAT
1 TAAATTTATGATAATATTAATGAAAAATAT
37450203 T
1 T
37450204 TTAAAATTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 8 0.29
32 5 0.18
33 15 0.54
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (30 bp):
TAAATTTATGATAATATTAATGAAAAATAT
Found at i:37451827 original size:15 final size:15
Alignment explanation
Indices: 37451784--37451827 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
37451774 TTTTATTATG
*
37451784 TAATTAATATAAACA
1 TAATTAATATAAATA
**
37451799 TAATTTTTAT-AATA
1 TAATTAATATAAATA
37451813 TAATTAATATAAATA
1 TAATTAATATAAATA
37451828 CAATACAATG
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (15 bp):
TAATTAATATAAATA
Found at i:37452322 original size:27 final size:27
Alignment explanation
Indices: 37452274--37452349 Score: 134
Period size: 27 Copynumber: 2.8 Consensus size: 27
37452264 TTTCAGTTTA
37452274 TCACCACAAAAGGCTATCCTTTCATAAT
1 TCACCAC-AAAGGCTATCCTTTCATAAT
*
37452302 TCACCACAAAGGCTATTCTTTCATAAT
1 TCACCACAAAGGCTATCCTTTCATAAT
37452329 TCACCACAAAGGCTATCCTTT
1 TCACCACAAAGGCTATCCTTT
37452350 ACTGTTGTGT
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
27 39 0.85
28 7 0.15
ACGTcount: A:0.33, C:0.29, G:0.08, T:0.30
Consensus pattern (27 bp):
TCACCACAAAGGCTATCCTTTCATAAT
Found at i:37461907 original size:36 final size:36
Alignment explanation
Indices: 37461861--37461969 Score: 200
Period size: 36 Copynumber: 3.0 Consensus size: 36
37461851 GGTAGCTTTA
*
37461861 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
37461897 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
*
37461933 GCTATACTTATTTGATCAAGTGAAAAAGTGATAAGT
1 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
37461969 G
1 G
37461970 GTAGCTTTAG
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 71 1.00
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.30
Consensus pattern (36 bp):
GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:37461928 original size:82 final size:85
Alignment explanation
Indices: 37461825--37462055 Score: 249
Period size: 82 Copynumber: 2.8 Consensus size: 85
37461815 TTTGAGTACT
* *
37461825 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC--TAGCTACACTTATCTGATCAAGTGAAAAAGT
37461890 GATAA-GT-GC-TA-T-ACTTA
64 GATAAGGTAGCTTACTAACTTA
*
37461907 TCTGATCAAGTGAAAAAGTGATAA---GT-GCTA--T--ACTTATTTGATCAAGTGAAAAAGTGA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTAGCTACACTTATCTGATCAAGTGAAAAAGTGA
37461964 TAAGTGGTAGCTTTAGCTACACTTA
66 TAA--GGTAGC-TTA-CTA-ACTTA
*
37461989 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATCAAG-G-AAAAGTG
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTAGCTACACTTATCTGATCAAGTGAAAAAGTG
37462052 ATAA
65 ATAA
37462056 ATGATCATAC
Statistics
Matches: 125, Mismatches: 5, Indels: 31
0.78 0.03 0.19
Matches are distributed among these distances:
72 28 0.22
74 1 0.01
75 2 0.02
76 4 0.03
78 4 0.03
79 2 0.02
80 1 0.01
82 50 0.40
85 2 0.02
86 1 0.01
87 3 0.02
89 12 0.10
90 1 0.01
91 14 0.11
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (85 bp):
TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTAGCTACACTTATCTGATCAAGTGAAAAAGTGA
TAAGGTAGCTTACTAACTTA
Found at i:37462041 original size:45 final size:45
Alignment explanation
Indices: 37461933--37462055 Score: 187
Period size: 46 Copynumber: 2.7 Consensus size: 45
37461923 AGTGATAAGT
* * *
37461933 GCTATACTTATTTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTTA
1 GCTACACTTATCTGATCAAGTG-AAAAGTGATAAGTGGTAGCTCTA
37461979 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC-CTA
1 GCTACACTTATCTGATCAAGTGA-AAAGTGATAAGTGGTAGCTCTA
37462024 GCTACACTTATCTGATCAAG-GAAAAGTGATAA
1 GCTACACTTATCTGATCAAGTGAAAAGTGATAA
37462056 ATGATCATAC
Statistics
Matches: 73, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 23 0.32
46 38 0.52
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (45 bp):
GCTACACTTATCTGATCAAGTGAAAAGTGATAAGTGGTAGCTCTA
Found at i:37463814 original size:3 final size:3
Alignment explanation
Indices: 37463806--37463983 Score: 329
Period size: 3 Copynumber: 59.3 Consensus size: 3
37463796 AAACTAAATT
37463806 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
* * *
37463854 AGA AGA AGA GGA AGA AGA GGA AGA AGA GGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
37463902 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
37463950 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
37463984 AGTGTGAACG
Statistics
Matches: 169, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 169 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:37466099 original size:25 final size:24
Alignment explanation
Indices: 37466037--37466120 Score: 78
Period size: 24 Copynumber: 3.5 Consensus size: 24
37466027 CCGTTATTAA
*
37466037 CTCTCATGAGCATCCTGATATTGG
1 CTCTCATGAGCTTCCTGATATTGG
* * *
37466061 ATCTCTTGAGCTTCCTGATGTATGG
1 CTCTCATGAGCTTCCTGATAT-TGG
* * * *
37466086 CTCTCATGATCTTCTTGTTATTAG
1 CTCTCATGAGCTTCCTGATATTGG
*
37466110 CTCTTATGAGC
1 CTCTCATGAGC
37466121 ATCTCGATTT
Statistics
Matches: 46, Mismatches: 13, Indels: 2
0.75 0.21 0.03
Matches are distributed among these distances:
24 28 0.61
25 18 0.39
ACGTcount: A:0.18, C:0.23, G:0.19, T:0.40
Consensus pattern (24 bp):
CTCTCATGAGCTTCCTGATATTGG
Found at i:37466313 original size:25 final size:25
Alignment explanation
Indices: 37466274--37466343 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 25
37466264 ATTGTCTCGT
* *
37466274 AAGAGCTTACTGTTACATGGCTCAC
1 AAGAGCTTCCCGTTACATGGCTCAC
* * * *
37466299 ATGAGCTTCCCGTTATATGGTTCAG
1 AAGAGCTTCCCGTTACATGGCTCAC
37466324 AAGAGCTTCCCGTTTACATG
1 AAGAGCTTCCCG-TTACATG
37466344 TTTGTATAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
25 30 0.83
26 6 0.17
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.31
Consensus pattern (25 bp):
AAGAGCTTCCCGTTACATGGCTCAC
Found at i:37469208 original size:40 final size:39
Alignment explanation
Indices: 37469171--37469262 Score: 132
Period size: 39 Copynumber: 2.3 Consensus size: 39
37469161 GCTACTCGTT
*
37469171 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CATAGCCCGGAAT-TAGTAACTCGCA
* *
37469211 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
37469250 CAAATGCCTTCGG
1 CAAATGCCTTCGG
37469263 ATCTTAGTCC
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
39 33 0.69
40 15 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
Found at i:37469242 original size:39 final size:40
Alignment explanation
Indices: 37469152--37469315 Score: 176
Period size: 40 Copynumber: 4.1 Consensus size: 40
37469142 CGAAATTTAA
** *
37469152 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
37469192 CCGGTTATAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
37469231 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
37469271 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
37469311 CCGGA
1 CCGGA
37469316 CATCATTCAA
Statistics
Matches: 105, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
38 3 0.03
39 32 0.30
40 58 0.55
41 12 0.11
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:37473749 original size:25 final size:25
Alignment explanation
Indices: 37473698--37473752 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
37473688 TCATAATTAT
* *
37473698 ATATATTATATAATAAGACCCATGC
1 ATATATTACATAATAAGACCCACGC
*
37473723 ATATATGTACATAGTAAGA-CCACGC
1 ATATAT-TACATAATAAGACCCACGC
37473748 ATATA
1 ATATA
37473753 ATATGATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 16 0.62
26 10 0.38
ACGTcount: A:0.44, C:0.16, G:0.11, T:0.29
Consensus pattern (25 bp):
ATATATTACATAATAAGACCCACGC
Found at i:37478897 original size:39 final size:40
Alignment explanation
Indices: 37478843--37478947 Score: 115
Period size: 44 Copynumber: 2.5 Consensus size: 40
37478833 TTCCCTTATG
*
37478843 CTATTACACCTCTATTCCATTCAACCAAACACA-AGAA-TA
1 CTATTACGCCTCTATTCCATTCAACCAAACA-ATAGAATTA
* *
37478882 CTATTACGCCTCTATTCCATTACATTCAACCAAACAATTGAATTG
1 CTATTACGCCTCTATT-C----CATTCAACCAAACAATAGAATTA
37478927 CTATTACGCCTCTATTCCATT
1 CTATTACGCCTCTATTCCATT
37478948 ACGCATCTAT
Statistics
Matches: 56, Mismatches: 3, Indels: 13
0.78 0.04 0.18
Matches are distributed among these distances:
39 15 0.27
40 5 0.09
43 1 0.02
44 18 0.32
45 17 0.30
ACGTcount: A:0.33, C:0.30, G:0.05, T:0.32
Consensus pattern (40 bp):
CTATTACGCCTCTATTCCATTCAACCAAACAATAGAATTA
Found at i:37478940 original size:45 final size:44
Alignment explanation
Indices: 37478860--37478949 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 44
37478850 ACCTCTATTC
37478860 CATTCAACCAAACACAAGAATACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGAATACTATTACGCCTCTATTCCATTA
* *
37478904 CATTCAACCAAACA-ATTGAATTGCTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACA-AGAA-TACTATTACGCCTCTATTCCATTA
37478949 C
1 C
37478950 GCATCTATTC
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
43 1 0.02
44 17 0.40
45 24 0.57
ACGTcount: A:0.36, C:0.29, G:0.06, T:0.30
Consensus pattern (44 bp):
CATTCAACCAAACACAAGAATACTATTACGCCTCTATTCCATTA
Found at i:37478950 original size:16 final size:16
Alignment explanation
Indices: 37478929--37478961 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
37478919 TTGAATTGCT
*
37478929 ATTACGCCTCTATTCC
1 ATTACGCATCTATTCC
37478945 ATTACGCATCTATTCC
1 ATTACGCATCTATTCC
37478961 A
1 A
37478962 ATACAGCGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.33, G:0.06, T:0.36
Consensus pattern (16 bp):
ATTACGCATCTATTCC
Found at i:37482377 original size:34 final size:35
Alignment explanation
Indices: 37482315--37482394 Score: 101
Period size: 34 Copynumber: 2.3 Consensus size: 35
37482305 GCCTTTTTTA
* *
37482315 ATATTATTATTTTTAAATGAAAATTTTATATATGAT
1 ATATTATT-TTTTAAAATGAAAATTTTATATATAAT
**
37482351 ATATTATTTTTTAAAATTTAAA-TTTATATATAAT
1 ATATTATTTTTTAAAATGAAAATTTTATATATAAT
37482385 ATA-TATTTTT
1 ATATTATTTTT
37482395 CACTTGTGTG
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
33 7 0.17
34 14 0.35
35 11 0.28
36 8 0.20
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (35 bp):
ATATTATTTTTTAAAATGAAAATTTTATATATAAT
Found at i:37495389 original size:18 final size:18
Alignment explanation
Indices: 37495342--37495390 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 18
37495332 TTTATAAAAA
*
37495342 AATTAAAATAATAAATTT
1 AATTAATATAATAAATTT
*
37495360 AA-T-CTA-AA-AAATTT
1 AATTAATATAATAAATTT
37495374 AATTAATATAATAAATT
1 AATTAATATAATAAATT
37495391 CCTTTATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 8
0.69 0.09 0.23
Matches are distributed among these distances:
14 8 0.33
15 3 0.12
16 3 0.12
17 3 0.12
18 7 0.29
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (18 bp):
AATTAATATAATAAATTT
Found at i:37495897 original size:38 final size:39
Alignment explanation
Indices: 37495811--37495904 Score: 108
Period size: 38 Copynumber: 2.5 Consensus size: 39
37495801 GTGGTATTTA
* *
37495811 TTTTTTAAA-TTTAAAAATATTTTATACTCTTTATTAAT
1 TTTTTTAAATTTTAAAAAAATTTTATACTCTTTATAAAT
*
37495849 TTTATT-AATTTTAAAATAAATTTTTATA-T-TTT-TAAAT
1 TTTTTTAAATTTTAAAA-AAA-TTTTATACTCTTTATAAAT
37495886 TTTTTTAAATTTTAAAAAA
1 TTTTTTAAATTTTAAAAAA
37495905 TAATTAATTG
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
37 13 0.27
38 25 0.52
39 3 0.06
40 7 0.15
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (39 bp):
TTTTTTAAATTTTAAAAAAATTTTATACTCTTTATAAAT
Found at i:37497672 original size:19 final size:21
Alignment explanation
Indices: 37497650--37497701 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 21
37497640 AATGAAAAAT
*
37497650 TGGTATCGATATAAAA-A-GA
1 TGGTATCGATATAAAATACCA
37497669 TGGTATC-A-ATAAAATACCA
1 TGGTATCGATATAAAATACCA
37497688 TAGGTATCGATATA
1 T-GGTATCGATATA
37497702 TTTTGAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
17 6 0.22
18 2 0.07
19 9 0.33
20 6 0.22
21 1 0.04
22 3 0.11
ACGTcount: A:0.44, C:0.10, G:0.17, T:0.29
Consensus pattern (21 bp):
TGGTATCGATATAAAATACCA
Found at i:37497858 original size:20 final size:19
Alignment explanation
Indices: 37497833--37497874 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 19
37497823 AGAGAGTTTT
*
37497833 TTTCAATCGATTTAAAAATG
1 TTTCAATCGAGTTAAAAA-G
37497853 TTTCAATCGAGTTAAAAAG
1 TTTCAATCGAGTTAAAAAG
37497872 TTT
1 TTT
37497875 AAAATTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (19 bp):
TTTCAATCGAGTTAAAAAG
Found at i:37498928 original size:20 final size:20
Alignment explanation
Indices: 37498889--37498928 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
37498879 AACATGGAAG
*
37498889 TATCGATACTTATGCCCAAA
1 TATCGATACTTATGCACAAA
37498909 TATCGATACCTT-TGCACAAA
1 TATCGATA-CTTATGCACAAA
37498929 ACATCAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.35, C:0.25, G:0.10, T:0.30
Consensus pattern (20 bp):
TATCGATACTTATGCACAAA
Found at i:37503316 original size:140 final size:140
Alignment explanation
Indices: 37503159--37503436 Score: 538
Period size: 140 Copynumber: 2.0 Consensus size: 140
37503149 ACGACACAAA
*
37503159 AAAAGGGTGAAAGGGTGTTTCTCTTTTCTCTTCTTTCACGTTAAAAATAGGGTGAAAGGGGGAAA
1 AAAAGGGTGAAAGGGTGTTTCTCTTTTCTCTTCTTTCACGTTAAAAATAAGGTGAAAGGGGGAAA
*
37503224 ATATGGGCTAATTTTAAAACTTGGTGTAGTAGCTTTAAAGCTACCCTTAAGTTTAATATTTTTAC
66 ATATGGGCTAATTTTAAAACTTGGTGTAGTAGCTTTAAAGCTACCCTTAAGTTAAATATTTTTAC
37503289 AAAACAGTAG
131 AAAACAGTAG
37503299 AAAAGGGTGAAAGGGTGTTTCTCTTTTCTCTTCTTTCACGTTAAAAATAAGGTGAAAGGGGGAAA
1 AAAAGGGTGAAAGGGTGTTTCTCTTTTCTCTTCTTTCACGTTAAAAATAAGGTGAAAGGGGGAAA
37503364 ATATGGGCTAATTTTAAAACTTGGTGTAGTAGCTTTAAAGCTACCCTTAAGTTAAATATTTTTAC
66 ATATGGGCTAATTTTAAAACTTGGTGTAGTAGCTTTAAAGCTACCCTTAAGTTAAATATTTTTAC
37503429 AAAACAGT
131 AAAACAGT
37503437 CATCTTTTTA
Statistics
Matches: 136, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
140 136 1.00
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.34
Consensus pattern (140 bp):
AAAAGGGTGAAAGGGTGTTTCTCTTTTCTCTTCTTTCACGTTAAAAATAAGGTGAAAGGGGGAAA
ATATGGGCTAATTTTAAAACTTGGTGTAGTAGCTTTAAAGCTACCCTTAAGTTAAATATTTTTAC
AAAACAGTAG
Found at i:37506239 original size:18 final size:17
Alignment explanation
Indices: 37506206--37506244 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
37506196 TTTTATAAAT
37506206 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
37506224 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
37506241 TGTG
1 TGTG
37506245 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:37506498 original size:23 final size:23
Alignment explanation
Indices: 37506470--37506545 Score: 102
Period size: 23 Copynumber: 3.3 Consensus size: 23
37506460 AGGGTTTTTG
*
37506470 ATCAGTGGTAGCTTCGACTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
37506493 -TCCAGTGGTAGCTAT-GGCTACAT
1 AT-CAGTGGTAGCT-TCGGCTACAT
*
37506516 ATCAATGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
37506539 ATCAGTG
1 ATCAGTG
37506546 TGGCACTTAT
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
22 2 0.04
23 42 0.91
24 2 0.04
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:37520223 original size:22 final size:23
Alignment explanation
Indices: 37520186--37520231 Score: 85
Period size: 22 Copynumber: 2.0 Consensus size: 23
37520176 CCTAATTTGG
37520186 TACTTAATCTTTTTTGTTCAATT
1 TACTTAATCTTTTTTGTTCAATT
37520209 TACTTAAT-TTTTTTGTTCAATT
1 TACTTAATCTTTTTTGTTCAATT
37520231 T
1 T
37520232 GGTACTTGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 15 0.65
23 8 0.35
ACGTcount: A:0.22, C:0.11, G:0.04, T:0.63
Consensus pattern (23 bp):
TACTTAATCTTTTTTGTTCAATT
Found at i:37520753 original size:59 final size:58
Alignment explanation
Indices: 37520606--37520774 Score: 259
Period size: 59 Copynumber: 2.9 Consensus size: 58
37520596 AATTGAACCT
* * *
37520606 AAAAAAAAGCTTAGGTACCAAATTAGGAAAAAATGCCAAGTTCAGGTACTAAATTGGGCC
1 AAAAAAAA-TTTAGGTACTAAATTAGGAAAAAATGTCAAGTTCAGGTAC-AAATTGGGCC
*
37520666 -AAAAAAATTTAGGTACTAAATTAGGAAAAAGTGTCAAGTTCAGGTATCAAATTGGGCC
1 AAAAAAAATTTAGGTACTAAATTAGGAAAAAATGTCAAGTTCAGGTA-CAAATTGGGCC
*
37520724 AAAAAAAATTTAGGTACTAAATTAGGAAAAAATGTCAAGTTCATGTACAAA
1 AAAAAAAATTTAGGTACTAAATTAGGAAAAAATGTCAAGTTCAGGTACAAA
37520775 ATGTTATATT
Statistics
Matches: 101, Mismatches: 6, Indels: 6
0.89 0.05 0.05
Matches are distributed among these distances:
58 49 0.49
59 52 0.51
ACGTcount: A:0.47, C:0.11, G:0.18, T:0.24
Consensus pattern (58 bp):
AAAAAAAATTTAGGTACTAAATTAGGAAAAAATGTCAAGTTCAGGTACAAATTGGGCC
Found at i:37521047 original size:21 final size:21
Alignment explanation
Indices: 37521023--37521072 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
37521013 TTAACTAATT
37521023 ATTTTTA-AAATTTAAAAATA
1 ATTTTTATAAATTTAAAAATA
* *
37521043 CA-TTTTATAATTTTTAAAATA
1 -ATTTTTATAAATTTAAAAATA
37521064 ATTTTTATA
1 ATTTTTATA
37521073 TATTATTTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 6 0.24
21 19 0.76
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (21 bp):
ATTTTTATAAATTTAAAAATA
Found at i:37529555 original size:20 final size:20
Alignment explanation
Indices: 37529532--37529569 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
37529522 ATTTATAGAC
37529532 ATACATATATACATATATAT
1 ATACATATATACATATATAT
*
37529552 ATACATATTTACATATAT
1 ATACATATATACATATAT
37529570 CCTTGTTGTC
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:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (20 bp):
ATACATATATACATATATAT
Found at i:37529559 original size:12 final size:12
Alignment explanation
Indices: 37529525--37529559 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
37529515 TTTTACAATT
* *
37529525 TATAGACATACA
1 TATATACATATA
37529537 TATATACATATA
1 TATATACATATA
37529549 TATATACATAT
1 TATATACATAT
37529560 TTACATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.49, C:0.11, G:0.03, T:0.37
Consensus pattern (12 bp):
TATATACATATA
Found at i:37538859 original size:29 final size:30
Alignment explanation
Indices: 37538800--37538857 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
37538790 TCCGAGCCTT
*
37538800 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
37538830 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
37538858 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:37539087 original size:13 final size:13
Alignment explanation
Indices: 37539069--37539100 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
37539059 TTTCCAGCAA
37539069 TTATGAATTTATT
1 TTATGAATTTATT
37539082 TTATGAATTTATT
1 TTATGAATTTATT
*
37539095 TGATGA
1 TTATGA
37539101 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:37539315 original size:50 final size:50
Alignment explanation
Indices: 37539195--37539436 Score: 295
Period size: 50 Copynumber: 4.7 Consensus size: 50
37539185 ATTTGGGTAA
* *
37539195 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--AAGA-C--G
* *
37539251 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGACG
* * * * *
37539301 AGAGGTCTCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGACG
* * *
37539351 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACCAACACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGACG
**
37539401 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
37539437 TTTGGCATGT
Statistics
Matches: 164, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
50 90 0.55
51 29 0.18
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.24
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGACG
Found at i:37539382 original size:100 final size:104
Alignment explanation
Indices: 37539199--37539444 Score: 356
Period size: 100 Copynumber: 2.4 Consensus size: 104
37539189 GGGTAAAGAG
*
37539199 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCCCTGT
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCCCTAT
* * *
37539264 AAGACCATGTCTGGGACATGGCATGGGCACCGAGACGAG-AG
63 AAGACCATGTCTGGGACATGGCATGGGCACCAACACGAGAAC
* * * *
37539305 GTCTCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTATAAG
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTATAAG
37539367 ACCATGTCTGGGACATGGCATGGGCACCAACACGAGAAC
66 ACCATGTCTGGGACATGGCATGGGCACCAACACGAGAAC
*
37539406 ATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
37539445 GTTATTATCA
Statistics
Matches: 127, Mismatches: 11, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
100 52 0.41
101 38 0.30
105 2 0.02
106 35 0.28
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (104 bp):
ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTATAAG
ACCATGTCTGGGACATGGCATGGGCACCAACACGAGAAC
Done.