Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 180 of 316
Found at i:58131074 original size:27 final size:27
Alignment explanation
Indices: 58130960--58131076 Score: 112
Period size: 27 Copynumber: 4.3 Consensus size: 27
58130950 GAACAAATCT
* * * *
58130960 GTCATTTTACCTTACCG-GGGTATTACA
1 GTCATTTTACCCTA-TGAGGGTATTTCG
* *
58130987 GTCAATTTACCCTA-CAGGGGTATTTCG
1 GTCATTTTACCCTATGA-GGGTATTTCG
* *
58131014 ATCATTCTACCCTATGAGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
* *
58131041 GTTATTTTACCCTATGAGGGTATTTTG
1 GTCATTTTACCCTATGAGGGTATTTCG
58131068 GTCATTTTA
1 GTCATTTTA
58131077 TCACATAAGG
Statistics
Matches: 73, Mismatches: 14, Indels: 6
0.78 0.15 0.06
Matches are distributed among these distances:
27 72 0.99
28 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.20, T:0.40
Consensus pattern (27 bp):
GTCATTTTACCCTATGAGGGTATTTCG
Found at i:58131087 original size:27 final size:27
Alignment explanation
Indices: 58131030--58131115 Score: 75
Period size: 27 Copynumber: 3.2 Consensus size: 27
58131020 CTACCCTATG
* * * *
58131030 AGGGTATTTCGGTTATTTTA-CCCTATG
1 AGGGTATTTTGGTCATTTTATCAC-ATA
58131057 AGGGTATTTTGGTCATTTTATCACATA
1 AGGGTATTTTGGTCATTTTATCACATA
*** * *
58131084 AGGGTAAAATCGTCATTTTATCACGTA
1 AGGGTATTTTGGTCATTTTATCACATA
58131111 AGGGT
1 AGGGT
58131116 TCAGGTACGC
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
27 47 0.96
28 2 0.04
ACGTcount: A:0.26, C:0.13, G:0.22, T:0.40
Consensus pattern (27 bp):
AGGGTATTTTGGTCATTTTATCACATA
Found at i:58134265 original size:20 final size:21
Alignment explanation
Indices: 58134240--58134278 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
58134230 TAAAATGAGC
*
58134240 AAACGAGCT-CATTGAGCTGG
1 AAACGAGCTGAATTGAGCTGG
58134260 AAACGAGCTGAATTGAGCT
1 AAACGAGCTGAATTGAGCT
58134279 CAATGAGCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.33, C:0.18, G:0.28, T:0.21
Consensus pattern (21 bp):
AAACGAGCTGAATTGAGCTGG
Found at i:58135828 original size:40 final size:40
Alignment explanation
Indices: 58135791--58135975 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
58135781 GCTACTCGTT
*
58135791 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
58135831 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
58135871 CAAATGCCTTCGGG-CTTAGCCCGAAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
58135910 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
58135951 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
58135976 CATCATTCAA
Statistics
Matches: 125, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 78 0.62
41 13 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:58135902 original size:79 final size:81
Alignment explanation
Indices: 58135791--58135973 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
58135781 GCTACTCGTT
* **
58135791 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCG
* *
58135855 GATTTAGTAAC-TCGCA
65 GATATAGTAACTTAGCA
* **
58135871 CAAATGCCTTCGGG-CTTAGCCCGAA-ATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGAATA-TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
58135934 GATATGGTCACTTAGCA
65 GATATAGTAACTTAGCA
58135951 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
58135974 GACATCATTC
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 4 0.04
79 54 0.61
80 31 0.35
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:58139477 original size:18 final size:18
Alignment explanation
Indices: 58139400--58139480 Score: 58
Period size: 18 Copynumber: 4.4 Consensus size: 18
58139390 TCTTGCTTAC
* *
58139400 TTTCTTTTT-TATCTCAA
1 TTTCTTTTTCTTTTTCAA
*
58139417 TCTCTTTTTGCTTTCGTTC-A
1 TTTCTTTTT-CTTT--TTCAA
* **
58139437 TTCTCTTTTCCTTTTTCGG
1 TT-TCTTTTTCTTTTTCAA
58139456 TTTCTTTTTCTTTTTCAA
1 TTTCTTTTTCTTTTTCAA
58139474 TTTCTTT
1 TTTCTTT
58139481 GTCTCTCATT
Statistics
Matches: 49, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
17 8 0.16
18 23 0.47
19 4 0.08
20 6 0.12
21 8 0.16
ACGTcount: A:0.07, C:0.21, G:0.05, T:0.67
Consensus pattern (18 bp):
TTTCTTTTTCTTTTTCAA
Found at i:58139747 original size:40 final size:41
Alignment explanation
Indices: 58139695--58139912 Score: 291
Period size: 41 Copynumber: 5.3 Consensus size: 41
58139685 AAAAAAATTG
***
58139695 TAAAACAT-AGAGCAATAGCGGCG-TTTTACCAAAAACGCCGC
1 TAAAA-ATAAGAGCAATAGCGGCGCTTTT-GGTAAAACGCCGC
* *
58139736 TAAAAA-CAGAGCAATAGCGTCGCTTTTGGTAAAACGCCGC
1 TAAAAATAAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGC
*
58139776 TAAAAATAAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
1 TAAAAATAAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGC
*
58139817 TAAAAATAAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
1 TAAAAATAAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGC
* * *
58139858 TAAAAAT-CGAAGCAATAGCGGCACTTTTGGTAAAATGCCGC
1 TAAAAATAAG-AGCAATAGCGGCGCTTTTGGTAAAACGCCGC
58139899 TAAAAATAAGAGCA
1 TAAAAATAAGAGCA
58139913 TTAAAGCGCC
Statistics
Matches: 160, Mismatches: 12, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
40 32 0.20
41 127 0.79
42 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.20
Consensus pattern (41 bp):
TAAAAATAAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGC
Found at i:58139801 original size:41 final size:41
Alignment explanation
Indices: 58139726--58139915 Score: 294
Period size: 41 Copynumber: 4.7 Consensus size: 41
58139716 CGTTTTACCA
* * *
58139726 AAAACGCCGCTAAAAA-CAGAGCAATAGCGTCGCTTTTGGT
1 AAAACGCCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGGT
58139766 AAAACGCCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGGT
58139807 AAAACGCCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGGT
* * *
58139848 AAAACGCCGCTAAAAAT-CGAAGCAATAGCGGCACTTTTGGT
1 AAAACGCCGCTAAAAATAAG-AGCATTAGCGGCGCTTTTGGT
*
58139889 AAAATGCCGCTAAAAATAAGAGCATTA
1 AAAACGCCGCTAAAAATAAGAGCATTA
58139916 AAGCGCCGCT
Statistics
Matches: 138, Mismatches: 9, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
40 17 0.12
41 120 0.87
42 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.21
Consensus pattern (41 bp):
AAAACGCCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGGT
Found at i:58139931 original size:67 final size:67
Alignment explanation
Indices: 58139847--58139982 Score: 236
Period size: 67 Copynumber: 2.0 Consensus size: 67
58139837 GCGCTTTTGG
*
58139847 TAAAACGCCGCTAAAAATCGAAGCAATAGCGGCACTTTTGGTAAAATGCCGCTAAAAATAAGAGC
1 TAAAACGCCGCTAAAAATCGAAGCAATAGCGGCACTTTTGGTAAAACGCCGCTAAAAATAAGAGC
58139912 AT
66 AT
* * *
58139914 TAAAGCGCCGCTAAAAATCGAAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAATAAGAGC
1 TAAAACGCCGCTAAAAATCGAAGCAATAGCGGCACTTTTGGTAAAACGCCGCTAAAAATAAGAGC
58139979 AT
66 AT
58139981 TA
1 TA
58139983 GCGGCGCTTT
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 65 1.00
ACGTcount: A:0.40, C:0.20, G:0.21, T:0.20
Consensus pattern (67 bp):
TAAAACGCCGCTAAAAATCGAAGCAATAGCGGCACTTTTGGTAAAACGCCGCTAAAAATAAGAGC
AT
Found at i:58139944 original size:108 final size:108
Alignment explanation
Indices: 58139806--58140012 Score: 328
Period size: 108 Copynumber: 1.9 Consensus size: 108
58139796 GCGCTTTTGG
*
58139806 TAAAACGCCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAAT-CGAAG
1 TAAAACGCCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAATAAG-AG
*
58139870 CAATAGCGGCACTTTTGGTAAAATGCCGCTAAAAATAAGAGCAT
65 CAATAGCGGCACTTTTGGTAAAACGCCGCTAAAAATAAGAGCAT
* *
58139914 TAAAGCGCCGCTAAAAAT-CGAAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAATAAGAG
1 TAAAACGCCGCTAAAAATAAG-AGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAATAAGAG
* *
58139978 CATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAA
65 CAATAGCGGCACTTTTGGTAAAACGCCGCTAAAAA
58140013 GTTTAGGGTT
Statistics
Matches: 91, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
107 1 0.01
108 89 0.98
109 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.20
Consensus pattern (108 bp):
TAAAACGCCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAATAAGAGC
AATAGCGGCACTTTTGGTAAAACGCCGCTAAAAATAAGAGCAT
Found at i:58139964 original size:41 final size:41
Alignment explanation
Indices: 58139914--58140012 Score: 164
Period size: 41 Copynumber: 2.4 Consensus size: 41
58139904 ATAAGAGCAT
* *
58139914 TAAAGCGCCGCTAAAAAT-CGAAGCATTAGCGGCGCTTTTGG
1 TAAAACGCCGCTAAAAATAAG-AGCATTAGCGGCGCTTTTGG
58139955 TAAAACGCCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGG
1 TAAAACGCCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGG
58139996 TAAAACGCCGCTAAAAA
1 TAAAACGCCGCTAAAAA
58140013 GTTTAGGGTT
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
41 54 0.98
42 1 0.02
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.20
Consensus pattern (41 bp):
TAAAACGCCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGG
Found at i:58140110 original size:21 final size:22
Alignment explanation
Indices: 58140086--58140129 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
58140076 GGTTTATGTA
*
58140086 TTATGGTTTAAGGGTT-GGGGT
1 TTATGATTTAAGGGTTAGGGGT
58140107 TTATGATTTAAGGGTTAGGGGT
1 TTATGATTTAAGGGTTAGGGGT
58140129 T
1 T
58140130 AGTGGTTAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.18, C:0.00, G:0.39, T:0.43
Consensus pattern (22 bp):
TTATGATTTAAGGGTTAGGGGT
Found at i:58140392 original size:21 final size:21
Alignment explanation
Indices: 58140366--58140409 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
58140356 TTATGGTTAG
* *
58140366 GGGATATAGTTTAGGGTTTAA
1 GGGATATACTTTAGGGATTAA
58140387 GGGATATACTTTAGGGATTAA
1 GGGATATACTTTAGGGATTAA
58140408 GG
1 GG
58140410 TTATAGGGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.02, G:0.34, T:0.34
Consensus pattern (21 bp):
GGGATATACTTTAGGGATTAA
Found at i:58140737 original size:11 final size:11
Alignment explanation
Indices: 58140721--58140768 Score: 51
Period size: 11 Copynumber: 4.0 Consensus size: 11
58140711 AATTTCCCCG
58140721 ATTTCCCCCAA
1 ATTTCCCCCAA
58140732 ATTTCCCCCAA
1 ATTTCCCCCAA
*
58140743 CTTCTTCTCCCTCAA
1 -AT-TTC-CCC-CAA
58140758 ATTTCCCCCAA
1 ATTTCCCCCAA
58140769 CTTCTTCTCC
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
11 14 0.45
12 4 0.13
13 6 0.19
14 4 0.13
15 3 0.10
ACGTcount: A:0.23, C:0.46, G:0.00, T:0.31
Consensus pattern (11 bp):
ATTTCCCCCAA
Found at i:58140760 original size:26 final size:26
Alignment explanation
Indices: 58140724--58140784 Score: 113
Period size: 26 Copynumber: 2.3 Consensus size: 26
58140714 TTCCCCGATT
58140724 TCCCCCAAATTTCCCCCAACTTCTTC
1 TCCCCCAAATTTCCCCCAACTTCTTC
*
58140750 TCCCTCAAATTTCCCCCAACTTCTTC
1 TCCCCCAAATTTCCCCCAACTTCTTC
58140776 TCCCCCAAA
1 TCCCCCAAA
58140785 ATTTTTACCC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.21, C:0.49, G:0.00, T:0.30
Consensus pattern (26 bp):
TCCCCCAAATTTCCCCCAACTTCTTC
Found at i:58140781 original size:15 final size:15
Alignment explanation
Indices: 58140735--58140783 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
58140725 CCCCCAAATT
58140735 TCCCCCAACTTCTTC
1 TCCCCCAACTTCTTC
* *
58140750 TCCCTCAA---ATT-
1 TCCCCCAACTTCTTC
58140761 TCCCCCAACTTCTTC
1 TCCCCCAACTTCTTC
58140776 TCCCCCAA
1 TCCCCCAA
58140784 AATTTTTACC
Statistics
Matches: 26, Mismatches: 4, Indels: 8
0.68 0.11 0.21
Matches are distributed among these distances:
11 7 0.27
12 2 0.08
14 2 0.08
15 15 0.58
ACGTcount: A:0.18, C:0.51, G:0.00, T:0.31
Consensus pattern (15 bp):
TCCCCCAACTTCTTC
Found at i:58144154 original size:40 final size:40
Alignment explanation
Indices: 58144095--58144242 Score: 224
Period size: 40 Copynumber: 3.7 Consensus size: 40
58144085 GAGCATTGGA
*
58144095 ATATATCCGGGCTAAGACCCGAAGGCAATTACGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
58144135 ATATATCCGGGATATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
58144175 ATATATCCGGGCTAAGACCCAAAGGCAATTATACAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
58144215 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
58144243 ATGTGTTTGC
Statistics
Matches: 97, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 97 1.00
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:58148396 original size:16 final size:16
Alignment explanation
Indices: 58148377--58148408 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
58148367 AATTGTTTTA
58148377 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
58148393 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
58148409 ACTCCATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:58148939 original size:146 final size:149
Alignment explanation
Indices: 58148610--58149000 Score: 509
Period size: 146 Copynumber: 2.6 Consensus size: 149
58148600 GAACCTCTCT
* * * * *
58148610 GGTACGCATAGTAGCTTGCACTTAGTACTATACATGTGACCTATCAATCTAGTATACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
* * * * * *
58148675 CTGCCCTTTGTACTACACACGTGACTTATCCATCTGATACATGTAATAGCCTGCACTTAGTACTA
66 CTGCACTTAGTACTACACACGTGACCTAACCATCTAATACATG--ATAGCCTACACTTAGTACTA
**
58148740 CACACGTGATCGAAGTTAACA
129 CACACGTGATCGAAACTAACA
* * * *
58148761 GGTACGCATTGTACCCTGCACTTGGTACTACACATGCGACCTATCAATCCGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
* * *
58148826 CTGCACTTAGTATTACACATGTGACCTAACCATCTAATA-A-G-TAGCCTACACTTAGTACTATA
66 CTGCACTTAGTACTACACACGTGACCTAACCATCTAATACATGATAGCCTACACTTAGTACTACA
* * *
58148888 CATGTGATCGAAACTATCG
131 CACGTGATCGAAACTAACA
* * *
58148907 GGTACGCATAGTAGCCTGCACTTAGTACTACACAAGCGACCTAACAATCTGGTACATGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
58148972 CTGCACTTAGTACTACACACGTGACCTAA
66 CTGCACTTAGTACTACACACGTGACCTAA
58149001 AACTGTCTTA
Statistics
Matches: 208, Mismatches: 32, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
146 118 0.57
149 1 0.00
150 1 0.00
151 88 0.42
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (149 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
CTGCACTTAGTACTACACACGTGACCTAACCATCTAATACATGATAGCCTACACTTAGTACTACA
CACGTGATCGAAACTAACA
Found at i:58149000 original size:50 final size:50
Alignment explanation
Indices: 58148618--58149000 Score: 305
Period size: 50 Copynumber: 7.7 Consensus size: 50
58148608 CTGGTACGCA
* * * * * *
58148618 TAGTAGCTTGCACTTAGTACTATACATGTGACCTATCAATCTAGTATACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGGTACATG
* * * * * * *
58148668 TAGTAGCCTGCCCTTTGTACTACACACGTGACTTATCCATCTGATACATG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGGTACATG
* * * * * *
58148718 TAATAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAA-CAGGTACGCAT-
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAA--CAATCTGGTA--CATG
* * * * * *
58148770 T-GTACCCTGCACTTGGTACTACACATGCGACCTATCAATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGGTACATG
* *
58148819 TAGTAGCCTGCACTTAGTATTACACATGTGACCTAACCATC---TA-AT-
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGGTACATG
* * * ** * * ***
58148864 AAGTAGCCTACACTTAGTACTATACATGTGATCGAAACTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCTAACAATCTGGTACATG
* *
58148915 TAGTAGCCTGCACTTAGTACTACACAAGCGACCTAACAATCTGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGGTACATG
*
58148965 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
58149001 AACTGTCTTA
Statistics
Matches: 257, Mismatches: 63, Indels: 26
0.74 0.18 0.08
Matches are distributed among these distances:
45 27 0.11
46 8 0.03
47 2 0.01
48 2 0.01
49 5 0.02
50 152 0.59
51 56 0.22
52 2 0.01
53 3 0.01
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGGTACATG
Found at i:58149426 original size:19 final size:20
Alignment explanation
Indices: 58149398--58149444 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
58149388 AAGAACATGT
58149398 TATATCATCAAAATAATCACA
1 TATAT-ATCAAAATAATCACA
* *
58149419 TA-ATATCAAATTATTCACA
1 TATATATCAAAATAATCACA
58149438 TATATAT
1 TATATAT
58149445 ACTTACAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (20 bp):
TATATATCAAAATAATCACA
Found at i:58154832 original size:25 final size:25
Alignment explanation
Indices: 58154800--58154858 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 25
58154790 CAGCTCATAT
58154800 GAGCTTACCACTATTCAGCTCGGAG
1 GAGCTTACCACTATTCAGCTCGGAG
* * * *
58154825 GAGTTTACCATTATTTAGCTTGGAG
1 GAGCTTACCACTATTCAGCTCGGAG
58154850 GAGCTTACC
1 GAGCTTACC
58154859 GTTTATAACT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.31
Consensus pattern (25 bp):
GAGCTTACCACTATTCAGCTCGGAG
Found at i:58158806 original size:28 final size:29
Alignment explanation
Indices: 58158774--58158872 Score: 139
Period size: 29 Copynumber: 3.4 Consensus size: 29
58158764 ACCTGTATCC
*
58158774 GGCCCATTAAGCCC-AATCATACTTATAT
1 GGCCCATTAGGCCCAAATCATACTTATAT
58158802 GGCCCATTAGGCCCAAATCAT-CTGTATAT
1 GGCCCATTAGGCCCAAATCATACT-TATAT
* *
58158831 GGCCCATTAGGCCCAAATCACATTTATAT
1 GGCCCATTAGGCCCAAATCATACTTATAT
*
58158860 GGCCCGTTAGGCC
1 GGCCCATTAGGCC
58158873 TAGTCACATT
Statistics
Matches: 64, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
28 15 0.23
29 48 0.75
30 1 0.02
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.26
Consensus pattern (29 bp):
GGCCCATTAGGCCCAAATCATACTTATAT
Found at i:58159127 original size:16 final size:16
Alignment explanation
Indices: 58159098--58159145 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
58159088 GCCAACTTTT
58159098 GGCTTTTC-GACATTTC
1 GGCTTTTCAG-CATTTC
*
58159114 GGCTTTTCAGCATTTT
1 GGCTTTTCAGCATTTC
*
58159130 GGCATTTCAGC-TTTC
1 GGCTTTTCAGCATTTC
58159145 G
1 G
58159146 CCGATTCATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 4 0.14
16 23 0.82
17 1 0.04
ACGTcount: A:0.12, C:0.23, G:0.21, T:0.44
Consensus pattern (16 bp):
GGCTTTTCAGCATTTC
Found at i:58166882 original size:16 final size:16
Alignment explanation
Indices: 58166848--58166899 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 16
58166838 CATAGCCAAC
* *
58166848 TTTCGGCTTTTCGGTA
1 TTTCGGCTTTTCAGCA
*
58166864 TTTTGGCTTTTCAGCA
1 TTTCGGCTTTTCAGCA
*
58166880 TTTCGGCATTTCAGC-
1 TTTCGGCTTTTCAGCA
58166895 TTTCG
1 TTTCG
58166900 CCGATTCATA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
15 5 0.16
16 26 0.84
ACGTcount: A:0.10, C:0.21, G:0.21, T:0.48
Consensus pattern (16 bp):
TTTCGGCTTTTCAGCA
Found at i:58173679 original size:40 final size:40
Alignment explanation
Indices: 58173642--58173945 Score: 393
Period size: 40 Copynumber: 7.7 Consensus size: 40
58173632 GCTACTCGTT
* *
58173642 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
58173682 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
58173722 CAAATGCCTTCGGG-CTTAGCCCGAAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
58173761 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
58173801 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
58173840 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
58173880 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
58173921 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
58173946 CATCATTCAA
Statistics
Matches: 233, Mismatches: 25, Indels: 12
0.86 0.09 0.04
Matches are distributed among these distances:
39 74 0.32
40 146 0.63
41 13 0.06
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:58173753 original size:79 final size:78
Alignment explanation
Indices: 58173642--58173945 Score: 423
Period size: 79 Copynumber: 3.8 Consensus size: 78
58173632 GCTACTCGTT
* ** * *
58173642 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGAAT-TAGTATCTCGCACAAATGCCTTCGGGACTTAACCCGG
58173707 ATTTAGTAACTCGCA
64 ATTTAGTAACTCGCA
58173722 CAAATGCCTTCGGGCTTAGCCCGAAATTAGTATCTCGCACAAATGCCTTCGGGACTTAACCCGGA
1 CAAATGCCTTCGGGCTTAGCCCG-AATTAGTATCTCGCACAAATGCCTTCGGGACTTAACCCGGA
58173787 TTTAGTAACTCGCA
65 TTTAGTAACTCGCA
58173801 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGACTTAACCCGGA
1 CAAATGCCTTCGGGCTTAGCCC-GAATTAGTATCTCGCACAAATGCCTTCGGGACTTAACCCGGA
58173866 TTTAGTAACTCGCA
65 TTTAGTAACTCGCA
* * * * * *
58173880 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCA-CTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGG-GCTTAGCCCGAAT-TAGT-ATC-TCGCACAAATGCCTTCGGGACTTAACCC
58173943 GGA
62 GGA
58173946 CATCATTCAA
Statistics
Matches: 207, Mismatches: 11, Indels: 12
0.90 0.05 0.05
Matches are distributed among these distances:
79 151 0.73
80 47 0.23
81 9 0.04
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGAATTAGTATCTCGCACAAATGCCTTCGGGACTTAACCCGGAT
TTAGTAACTCGCA
Found at i:58173871 original size:119 final size:119
Alignment explanation
Indices: 58173642--58173945 Score: 409
Period size: 119 Copynumber: 2.6 Consensus size: 119
58173632 GCTACTCGTT
* * *
58173642 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
* * *
58173706 GATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGAAATTAGTATCTCGCA
65 GAATTAGTAACTCGCACAAATGCCTTCGGGCTTAACCCGAAATTAGTAACTCGCA
*
58173761 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
* * *
58173825 AATTAGTATCTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
66 AATTAGTAACTCGCACAAATGCCTTCGGG-CTTAACCCGAAATTAGTAACTCGCA
* * * * *
58173880 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCC
58173943 GGA
64 GGA
58173946 CATCATTCAA
Statistics
Matches: 164, Mismatches: 16, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
118 39 0.24
119 104 0.63
120 21 0.13
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (119 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
AATTAGTAACTCGCACAAATGCCTTCGGGCTTAACCCGAAATTAGTAACTCGCA
Found at i:58181623 original size:79 final size:79
Alignment explanation
Indices: 58181489--58181825 Score: 416
Period size: 79 Copynumber: 4.3 Consensus size: 79
58181479 AAATCACTTA
* * * * *
58181489 CCTTCGGAATTTAA-CCGGATATAGCT-ACTCG-ATCAAATGCCTTCGGGACATAGCCCGG-TTA
1 CCTTCGGGACTTAACCCGGATTTAG-TAACTCGCA-CAAATGCCTTCGGG-CTTAGCCCGGAAT-
*
58181550 TAGTAACTCGCACAATTG
62 TAGTAACTCGCACAAATG
*
58181568 CCTTCGGGACTTAACCCAGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGT
1 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGT
*
58181633 ATCTCGCACAAATG
66 AACTCGCACAAATG
58181647 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGT
1 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGT
* *
58181712 ATCTTGCACAAATG
66 AACTCGCACAAATG
* * * *
58181726 CGTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGG-ATATG
1 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGG-GCTTAGCCCGGAAT-TA
* *
58181790 GTCACTTAGCACAAA-G
64 GTAAC-TCGCACAAATG
*
58181806 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
58181826 CATCATTCAA
Statistics
Matches: 232, Mismatches: 19, Indels: 13
0.88 0.07 0.05
Matches are distributed among these distances:
79 163 0.70
80 60 0.26
81 9 0.04
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (79 bp):
CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGT
AACTCGCACAAATG
Found at i:58181744 original size:119 final size:119
Alignment explanation
Indices: 58181522--58181825 Score: 391
Period size: 119 Copynumber: 2.6 Consensus size: 119
58181512 GCTACTCGAT
* * * *
58181522 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGACTTAACCCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
* * *
58181586 GATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
65 GAATTAGTAACTCGCACAAATGCCTTCGGGCTTAACCCGGAATTAGTAACTCGCA
*
58181641 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
* * * *
58181705 AATTAGTATCTTGCACAAATGCGTTCGGGACTTAACCCGGATTTAGTAACTCGCA
66 AATTAGTAACTCGCACAAATGCCTTCGGG-CTTAACCCGGAATTAGTAACTCGCA
* * * * *
58181760 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCC
58181823 GGA
64 GGA
58181826 CATCATTCAA
Statistics
Matches: 162, Mismatches: 18, Indels: 9
0.86 0.10 0.05
Matches are distributed among these distances:
118 36 0.22
119 105 0.65
120 21 0.13
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (119 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
AATTAGTAACTCGCACAAATGCCTTCGGGCTTAACCCGGAATTAGTAACTCGCA
Found at i:58181825 original size:40 final size:40
Alignment explanation
Indices: 58181503--58181825 Score: 374
Period size: 40 Copynumber: 8.1 Consensus size: 40
58181493 CGGAATTTAA
*
58181503 CCGGATATAGCT-ACTCG-ATCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCA-CAAATGCCTTCGGGACTTAGC
* * *
58181543 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
58181583 CCAGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
58181622 CCGGA-ATTAGTATCTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
58181662 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * * *
58181701 CCGGA-ATTAGTATCTTGCACAAATGCGTTCGGGACTTAAC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
58181741 CCGGATTTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
58181781 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
58181821 CCGGA
1 CCGGA
58181826 CATCATTCAA
Statistics
Matches: 240, Mismatches: 32, Indels: 22
0.82 0.11 0.07
Matches are distributed among these distances:
39 71 0.30
40 157 0.65
41 12 0.05
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:58187832 original size:39 final size:39
Alignment explanation
Indices: 58187658--58187816 Score: 237
Period size: 39 Copynumber: 4.1 Consensus size: 39
58187648 TGTGAATATA
* * * *
58187658 TATATGCGAGAATTATATCCGGACTTCAGGTCCGTAAGC
1 TATATGCGAGAATTATATCCGGACTTTATGTCCGCAGGC
* *
58187697 TATAAGCGAGAATTATATCCGGACTTCATGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTTATGTCCGCAGGC
58187736 TATATGCGAGAATTATATCCGGACTTTATGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTTATGTCCGCAGGC
* **
58187775 TATATGCGAGAATTATATCCGGACTTTAGGTCTACAGGC
1 TATATGCGAGAATTATATCCGGACTTTATGTCCGCAGGC
58187814 TAT
1 TAT
58187817 GTGCTGGACA
Statistics
Matches: 111, Mismatches: 9, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 111 1.00
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.30
Consensus pattern (39 bp):
TATATGCGAGAATTATATCCGGACTTTATGTCCGCAGGC
Found at i:58190528 original size:48 final size:47
Alignment explanation
Indices: 58190468--58190571 Score: 113
Period size: 48 Copynumber: 2.2 Consensus size: 47
58190458 GTCCAACTAT
* * * * *
58190468 GGTCTTATACTAGCTCTGCTCT-GCTCGTGCTGATGCCTATTCC-CGATA
1 GGTCTTACACTAGCACT-CACTGGCT-GTGCCGATGCCTA-TCCTAGATA
58190516 GGTCTTACACTAGCACTCACTGGGCTGTGCCGATGCCTATCCTAGATA
1 GGTCTTACACTAGCACTCACT-GGCTGTGCCGATGCCTATCCTAGATA
58190564 GGTCTTAC
1 GGTCTTAC
58190572 GCTTAGCCCA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
47 6 0.12
48 39 0.81
49 3 0.06
ACGTcount: A:0.17, C:0.29, G:0.22, T:0.32
Consensus pattern (47 bp):
GGTCTTACACTAGCACTCACTGGCTGTGCCGATGCCTATCCTAGATA
Found at i:58192169 original size:43 final size:43
Alignment explanation
Indices: 58192104--58192215 Score: 197
Period size: 43 Copynumber: 2.6 Consensus size: 43
58192094 CTGGCATTAC
*
58192104 GCCTGCTAGGCACGAAGACCCGAATACACATCACCGACACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGACACGAA
*
58192147 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGACACGAA
*
58192190 TCCTGCTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
58192216 TAATACCAGC
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 66 1.00
ACGTcount: A:0.31, C:0.34, G:0.24, T:0.11
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGACACGAA
Found at i:58192264 original size:38 final size:38
Alignment explanation
Indices: 58192208--58192331 Score: 142
Period size: 38 Copynumber: 3.2 Consensus size: 38
58192198 GGCACGAAGG
* * * * *
58192208 CCCGAATATAATACCAGCACTAGGCCTGTGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
58192246 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
** *
58192284 CCCGGATATTTTACCAGCACGAA-CACTGCGGGTCTTTAA
1 CCCGGATATAATACCAGCACGAAGC-CTGCGGG-ATTTAA
58192323 GCCCGGATA
1 -CCCGGATA
58192332 CACATCAAGT
Statistics
Matches: 75, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
37 1 0.01
38 61 0.81
39 5 0.07
40 8 0.11
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.23
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:58195819 original size:50 final size:51
Alignment explanation
Indices: 58195709--58195894 Score: 191
Period size: 50 Copynumber: 3.7 Consensus size: 51
58195699 ATCTGGTATG
* * * ** *
58195709 CATAGTAGCCTTCACTTAGTACTACACATGCGACC-AATTC-TC-CAGTACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCTAAGCCATCGGA-TACA
* * *
58195758 CGTAGTAGCCTGGACTTAGTACTACACACGTGACCTAA-CCATCTGATACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCTAAGCCATCGGATACA
* * ** * *
58195808 CATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACG
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCTAAGCCATCGGATACA
*
58195859 CATAGTAGCCTGCACTTAGTGCTACACACGTGACCT
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCT
58195895 CACAATAGAT
Statistics
Matches: 114, Mismatches: 19, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
49 31 0.27
50 42 0.37
51 41 0.36
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.25
Consensus pattern (51 bp):
CATAGTAGCCTGCACTTAGTACTACACACGTGACCTAAGCCATCGGATACA
Found at i:58195894 original size:101 final size:99
Alignment explanation
Indices: 58195709--58195894 Score: 255
Period size: 101 Copynumber: 1.9 Consensus size: 99
58195699 ATCTGGTATG
* * * * *
58195709 CATAGTAGCCTTCACTTAGTACTACACATGCGACCAATTCTCCAGTACACGTAGTAGCCTGGACT
1 CATAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCAGTACACATAGTAGCCTGCACT
58195774 TAGTACTACACACGTGACCTAACCATCTGATACA
66 TAGTACTACACACGTGACCTAACCATCTGATACA
* * ** *
58195808 CATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCA
1 CATAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCCAGTACACATAGTAGCCTGCA
*
58195873 CTTAGTGCTACACACGTGACCT
64 CTTAGTACTACACACGTGACCT
58195895 CACAATAGAT
Statistics
Matches: 74, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
99 30 0.41
100 3 0.04
101 41 0.55
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.25
Consensus pattern (99 bp):
CATAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCAGTACACATAGTAGCCTGCACT
TAGTACTACACACGTGACCTAACCATCTGATACA
Found at i:58197122 original size:34 final size:34
Alignment explanation
Indices: 58197078--58197147 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
58197068 GGTCAAAGAA
*
58197078 TTGAGCAATAAAAACATAGCTTTAGTGAAAGTTC
1 TTGAGAAATAAAAACATAGCTTTAGTGAAAGTTC
58197112 TTGAGAAATAAAAACATAGCTTTAGTGAAAGTTC
1 TTGAGAAATAAAAACATAGCTTTAGTGAAAGTTC
58197146 TT
1 TT
58197148 AGGCAACGAC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.41, C:0.10, G:0.17, T:0.31
Consensus pattern (34 bp):
TTGAGAAATAAAAACATAGCTTTAGTGAAAGTTC
Found at i:58212270 original size:16 final size:16
Alignment explanation
Indices: 58212249--58212284 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
58212239 TATTGAATTG
58212249 TAATGATTTGATAGTT
1 TAATGATTTGATAGTT
58212265 TAATGATTTGATAGTT
1 TAATGATTTGATAGTT
58212281 TAAT
1 TAAT
58212285 TATCGAAGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (16 bp):
TAATGATTTGATAGTT
Found at i:58215605 original size:47 final size:47
Alignment explanation
Indices: 58215554--58216060 Score: 813
Period size: 47 Copynumber: 10.7 Consensus size: 47
58215544 TTAGGATTCT
* * *
58215554 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
58215601 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
58215648 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
58215695 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
58215744 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGACCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
58215793 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATCGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
58215840 ATGTGATGAATGTGAAAGTGTATATATATGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
58215887 ATGTGATGAATGTGAAAGTGTATATAT-T-ATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
58215932 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
58215979 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
58216026 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
58216061 TCCCGAAGGG
Statistics
Matches: 435, Mismatches: 20, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
45 44 0.10
46 3 0.01
47 293 0.67
49 95 0.22
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:58215629 original size:25 final size:25
Alignment explanation
Indices: 58215601--58215679 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
58215591 CTAATGGCCG
58215601 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ****
58215626 ATGTGAT-AAGGCCTAA-TG-GCCG
1 ATGTGATGAATGTGAAAGTGTATAT
58215648 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
58215673 ATGTGAT
1 ATGTGAT
58215680 AAGGCCTAAT
Statistics
Matches: 35, Mismatches: 16, Indels: 6
0.61 0.28 0.11
Matches are distributed among these distances:
22 7 0.20
23 7 0.20
24 7 0.20
25 14 0.40
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:58215805 original size:192 final size:186
Alignment explanation
Indices: 58215554--58216060 Score: 809
Period size: 192 Copynumber: 2.7 Consensus size: 186
58215544 TTAGGATTCT
* * *
58215554 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
58215618 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
65 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
58215683 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
130 GCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATAT-T-ATAAGGCCTAATGGCCG
*
58215744 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGACCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
58215809 AGTGTATATATGTGATAAGGCCTAATCGCCGATGTGATGAATGTGAAAGTGTATATATATGATAA
64 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
58215874 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATTATAAGGCCTAATGGCCG
129 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATTATAAGGCCTAATGGCCG
*
58215932 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* * * * * * * *
58215997 TGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
66 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
58216061 TCCCGAAGGG
Statistics
Matches: 296, Mismatches: 18, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
186 97 0.33
188 37 0.12
189 2 0.01
190 24 0.08
192 136 0.46
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (186 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATTATAAGGCCTAATGGCCG
Found at i:58216235 original size:37 final size:37
Alignment explanation
Indices: 58216179--58216257 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
58216169 CCGAGCTCTA
* * * *
58216179 AAGACCCGATGACTACGTGTGGGGATTTTTTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
58216216 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
58216253 AAGAC
1 AAGAC
58216258 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:58217218 original size:40 final size:39
Alignment explanation
Indices: 58217101--58217311 Score: 165
Period size: 40 Copynumber: 5.3 Consensus size: 39
58217091 AATTATTGTA
* * * *
58217101 TGAAAGCACATACGTGCCCCTGTTTATACTTCGGTACACC
1 TGAATGCACATACGTGCCCCT-TTTGTACTTTGGTACCCC
* * * * *
58217141 T-AATGTACATATGTGTCTCTGTTTATACTTT-GTACCCC
1 TGAATGCACATACGTGCCCCT-TTTGTACTTTGGTACCCC
*
58217179 TGAATGCATATACGTGCCCCTTTGTGTACTTTGGTACCCC
1 TGAATGCACATACGTGCCCCTTT-TGTACTTTGGTACCCC
* *** *
58217219 TGAATGCACATACGTGCCGCTGTTCACACTTTGGTACCTC
1 TGAATGCACATACGTGCCCCT-TTTGTACTTTGGTACCCC
* * * * *
58217259 TGAATGCACATACATACCCTTTTTTGTACTTCGGTACCCG
1 TGAATGCACATACGTGCCC-CTTTTGTACTTTGGTACCCC
* *
58217299 TAAATGCATATAC
1 TGAATGCACATAC
58217312 ATGCTTTTGA
Statistics
Matches: 135, Mismatches: 31, Indels: 10
0.77 0.18 0.06
Matches are distributed among these distances:
38 9 0.07
39 45 0.33
40 78 0.58
41 3 0.02
ACGTcount: A:0.23, C:0.27, G:0.17, T:0.34
Consensus pattern (39 bp):
TGAATGCACATACGTGCCCCTTTTGTACTTTGGTACCCC
Found at i:58217295 original size:80 final size:78
Alignment explanation
Indices: 58217101--58217311 Score: 199
Period size: 80 Copynumber: 2.7 Consensus size: 78
58217091 AATTATTGTA
* * * * * * * * * *
58217101 TGAAAGCACATACGTGCCCCTGTT-TATACTTCGGTACACCTAATGTACATATGTGTCTCTGTTT
1 TGAATGCACATACATACCCCT-TTGTGTACTTCGGTACCCCTAATGCACATACGTGCCGCTGTTC
*
58217165 ATACTTTGTACCCC
65 ACACTTTGTACCCC
* * * *
58217179 TGAATGCATATACGTGCCCCTTTGTGTACTTTGGTACCCCTGAATGCACATACGTGCCGCTGTTC
1 TGAATGCACATACATACCCCTTTGTGTACTTCGGTACCCCT-AATGCACATACGTGCCGCTGTTC
*
58217244 ACACTTTGGTACCTC
65 ACACTTT-GTACCCC
* * * *
58217259 TGAATGCACATACATACCCTTTTTTGTACTTCGGTACCCGTAAATGCATATAC
1 TGAATGCACATACATACCCCTTTGTGTACTTCGGTACCCCT-AATGCACATAC
58217312 ATGCTTTTGA
Statistics
Matches: 109, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
77 2 0.02
78 33 0.30
79 24 0.22
80 50 0.46
ACGTcount: A:0.23, C:0.27, G:0.17, T:0.34
Consensus pattern (78 bp):
TGAATGCACATACATACCCCTTTGTGTACTTCGGTACCCCTAATGCACATACGTGCCGCTGTTCA
CACTTTGTACCCC
Found at i:58222874 original size:27 final size:26
Alignment explanation
Indices: 58222826--58222885 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
58222816 GCGAAGCTAC
*
58222826 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
58222853 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
58222879 CAGATAT
1 CAGATAT
58222886 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:58223598 original size:26 final size:27
Alignment explanation
Indices: 58223569--58223622 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
58223559 TTACACAAGT
*
58223569 TAGTCATTT-ACGCACGAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
* *
58223595 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
58223622 T
1 T
58223623 GGTAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (27 bp):
TAGTCATTTAACACACGAGGGGCAAAA
Found at i:58223655 original size:27 final size:27
Alignment explanation
Indices: 58223625--58223795 Score: 209
Period size: 27 Copynumber: 6.3 Consensus size: 27
58223615 GGCAAAATGG
* * * *
58223625 TAATTTTACCCCATAAGGGTATCTCGA
1 TAATTCTACCCTATAGGGGTATTTCGA
* *
58223652 TAATTCTACCCTACAGGGGTATTTTGA
1 TAATTCTACCCTATAGGGGTATTTCGA
* *
58223679 TAATTCTACCCTACAAGGGTATTTCGA
1 TAATTCTACCCTATAGGGGTATTTCGA
*
58223706 TAATTCTATCCTATAGGGGTATTTC-A
1 TAATTCTACCCTATAGGGGTATTTCGA
*
58223732 GTAATTCTACCCTATAGGGGTATTTCGG
1 -TAATTCTACCCTATAGGGGTATTTCGA
* *
58223760 TAATTCTACCTTACAGGGGTATTTCGA
1 TAATTCTACCCTATAGGGGTATTTCGA
*
58223787 TAGTTCTAC
1 TAATTCTAC
58223796 AACTTATCCA
Statistics
Matches: 125, Mismatches: 17, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
26 1 0.01
27 124 0.99
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (27 bp):
TAATTCTACCCTATAGGGGTATTTCGA
Found at i:58228162 original size:20 final size:19
Alignment explanation
Indices: 58228137--58228180 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
58228127 ATTGGGCCTT
58228137 GCCCATATT-AACACAGTTGG
1 GCCCAT-TTCAACACAGTT-G
*
58228157 GCCCATTTCAATACAGTTG
1 GCCCATTTCAACACAGTTG
58228176 GCCCA
1 GCCCA
58228181 CAACAAAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (19 bp):
GCCCATTTCAACACAGTTG
Found at i:58228513 original size:26 final size:26
Alignment explanation
Indices: 58228484--58228546 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
58228474 AAAATTAACC
*
58228484 CTAGGGGTATAACGGTCATTTTGCAT-
1 CTAGGGGTATAACGGTAATTTT-CATA
* *
58228510 CTAGGGGTAAAATGGTAATTTTCATA
1 CTAGGGGTATAACGGTAATTTTCATA
58228536 CTTAGGGGTAT
1 C-TAGGGGTAT
58228547 TTTAGTAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
25 3 0.10
26 20 0.65
27 8 0.26
ACGTcount: A:0.27, C:0.11, G:0.27, T:0.35
Consensus pattern (26 bp):
CTAGGGGTATAACGGTAATTTTCATA
Found at i:58228840 original size:8 final size:8
Alignment explanation
Indices: 58228798--58228836 Score: 69
Period size: 8 Copynumber: 4.9 Consensus size: 8
58228788 AATGCTGAAT
58228798 TTTCGGCA
1 TTTCGGCA
58228806 TTTCGGCA
1 TTTCGGCA
58228814 TTTCGGCA
1 TTTCGGCA
*
58228822 TTTCGGCT
1 TTTCGGCA
58228830 TTTCGGC
1 TTTCGGC
58228837 TTTTGCCGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.08, C:0.26, G:0.26, T:0.41
Consensus pattern (8 bp):
TTTCGGCA
Found at i:58232496 original size:47 final size:47
Alignment explanation
Indices: 58232441--58233035 Score: 1001
Period size: 47 Copynumber: 12.6 Consensus size: 47
58232431 TATTTGAATA
58232441 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
58232488 GATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
58232535 AATGTGAAACTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAA--GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
58232584 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
58232631 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
58232678 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
58232725 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
58232774 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
58232821 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
58232868 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGCGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
58232915 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * *
58232962 AATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
58233009 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
58233036 TCCCGAAGGG
Statistics
Matches: 518, Mismatches: 26, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
47 428 0.83
49 90 0.17
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:58232764 original size:190 final size:190
Alignment explanation
Indices: 58232441--58233035 Score: 1041
Period size: 190 Copynumber: 3.1 Consensus size: 190
58232431 TATTTGAATA
*
58232441 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGGATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
58232506 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAACTGTATATATATGTGATAAGGCCTAAT
66 TGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
58232571 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
131 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
* *
58232631 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
58232696 TGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
66 TGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
58232761 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
131 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
58232821 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
58232886 TGTGATAAGGCCTAATGGCCGATGCGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAAT
66 TGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
* * * * * *
58232949 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATG
131 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
* *
58233009 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
58233036 TCCCGAAGGG
Statistics
Matches: 388, Mismatches: 17, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
188 101 0.26
190 287 0.74
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (190 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
Found at i:58234493 original size:40 final size:40
Alignment explanation
Indices: 58234449--58234680 Score: 331
Period size: 40 Copynumber: 5.8 Consensus size: 40
58234439 GAGAATTGAG
58234449 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
58234489 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
58234529 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
58234569 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
58234609 AGTGATATATCCGTGCT-AGACCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAG-TCCCGAAGAGCATTCGTGCT
* * * * *
58234649 GGTGTTATATCCGGGCTAGGTCCTGAAGAGCA
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCA
58234681 ATCATGCTGG
Statistics
Matches: 175, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 2 0.01
40 172 0.98
41 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:58238763 original size:47 final size:47
Alignment explanation
Indices: 58238706--58239253 Score: 898
Period size: 47 Copynumber: 11.6 Consensus size: 47
58238696 TATTTAAATA
* *
58238706 AATGTGAAAGTGTATGTATGTGATAAGGCCTAATGGCTGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
58238753 AATGTTAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
58238800 AATGTGAAACTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAA--GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
58238849 AATGTGAAAGTGTATATTTGTGATAAGGCCTAATGGCTGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
58238896 AATGTGAAAGTGTATATACGTGATAAGGCCGAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
58238943 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
58238990 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
58239039 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
58239086 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
58239133 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * *
58239180 AATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
58239227 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
58239254 TCCCGGAGTG
Statistics
Matches: 471, Mismatches: 26, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
47 381 0.81
49 90 0.19
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:58239029 original size:190 final size:190
Alignment explanation
Indices: 58238706--58239253 Score: 929
Period size: 190 Copynumber: 2.9 Consensus size: 190
58238696 TATTTAAATA
* * *
58238706 AATGTGAAAGTGTATGTATGTGATAAGGCCTAATGGCTGATGTGATGAATGTTAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
58238771 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAACTGTATATATATGTGATAAGGCCTAAT
66 TGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
* *
58238836 GGCCGATGTGATGAATGTGAAAGTGTATATTTGTGATAAGGCCTAATGGCTGATGTGATG
131 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
58238896 AATGTGAAAGTGTATATACGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
58238961 TGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
66 TGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
58239026 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
131 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
58239086 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * *
58239151 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAGGGCCGAGT
66 TGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
* * * *
58239214 GGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
131 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
58239254 TCCCGGAGTG
Statistics
Matches: 339, Mismatches: 19, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
188 55 0.16
190 284 0.84
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (190 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:58248481 original size:46 final size:44
Alignment explanation
Indices: 58248414--58248623 Score: 151
Period size: 46 Copynumber: 4.7 Consensus size: 44
58248404 ATCTCGAGGC
* *
58248414 CGATGCATGTCCCAAACATGTCTTACAATGGCTCTTGTCTCAAAGT-
1 CGATGCATGTCCCAGACATGTCTTACAATGGCTC---TCGCAAAGTG
* * * *
58248460 CGATGCATGTCTCAGACATGTCTTGCACTGGCTCTCGCAACGTGG
1 CGATGCATGTCCCAGACATGTCTTACAATGGCTCTCGCAAAGT-G
* * * * * * *
58248505 CCGATGCATGTCCCAGACATGTCTTACACTAG-T-ACACATATTT
1 -CGATGCATGTCCCAGACATGTCTTACAATGGCTCTCGCAAAGTG
* * * *
58248548 CGAT--ATGTCCTAGACATGTATTACACTGGCTCTCGCAATGTGG
1 CGATGCATGTCCCAGACATGTCTTACAATGGCTCTCGCAAAGT-G
* *
58248591 TCGATGCATGTTCCAGACATGTCTTACACTGGC
1 -CGATGCATGTCCCAGACATGTCTTACAATGGC
58248624 GCACATATCA
Statistics
Matches: 128, Mismatches: 27, Indels: 18
0.74 0.16 0.10
Matches are distributed among these distances:
40 22 0.17
41 1 0.01
42 8 0.06
43 7 0.05
44 8 0.06
45 1 0.01
46 81 0.63
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (44 bp):
CGATGCATGTCCCAGACATGTCTTACAATGGCTCTCGCAAAGTG
Found at i:58248629 original size:86 final size:86
Alignment explanation
Indices: 58248473--58248631 Score: 246
Period size: 86 Copynumber: 1.8 Consensus size: 86
58248463 TGCATGTCTC
* * *
58248473 AGACATGTCTTGCACTGGCTCTCGCAACGTGGCCGATGCATGTCCCAGACATGTCTTACACTAGT
1 AGACATGTATTACACTGGCTCTCGCAACGTGGCCGATGCATGTCCCAGACATGTCTTACACTAGC
58248538 ACACATATTTCGATATGTCCT
66 ACACATATTTCGATATGTCCT
* * * *
58248559 AGACATGTATTACACTGGCTCTCGCAATGTGGTCGATGCATGTTCCAGACATGTCTTACACTGGC
1 AGACATGTATTACACTGGCTCTCGCAACGTGGCCGATGCATGTCCCAGACATGTCTTACACTAGC
*
58248624 GCACATAT
66 ACACATAT
58248632 CACCTGCACT
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
86 65 1.00
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (86 bp):
AGACATGTATTACACTGGCTCTCGCAACGTGGCCGATGCATGTCCCAGACATGTCTTACACTAGC
ACACATATTTCGATATGTCCT
Found at i:58249811 original size:13 final size:13
Alignment explanation
Indices: 58249793--58249825 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
58249783 ACCGTATGTC
58249793 ACACACGGCCTAG
1 ACACACGGCCTAG
58249806 ACACACGGCCTAG
1 ACACACGGCCTAG
58249819 ACACACG
1 ACACACG
58249826 CCCATGTGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.33, C:0.39, G:0.21, T:0.06
Consensus pattern (13 bp):
ACACACGGCCTAG
Found at i:58251870 original size:19 final size:17
Alignment explanation
Indices: 58251836--58251883 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 17
58251826 CTATAGAAAC
58251836 TCACAAATTTAATTATT
1 TCACAAATTTAATTATT
*
58251853 TCACACATTTACACTTATT
1 TCACAAATTTA-A-TTATT
*
58251872 TTACAAACTTTA
1 TCACAAA-TTTA
58251884 CAAAATAGCC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 10 0.40
18 1 0.04
19 10 0.40
20 4 0.16
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.44
Consensus pattern (17 bp):
TCACAAATTTAATTATT
Found at i:58252635 original size:24 final size:23
Alignment explanation
Indices: 58252594--58252660 Score: 64
Period size: 24 Copynumber: 2.9 Consensus size: 23
58252584 AGGTTATCTA
* * *
58252594 TGATGCCTTTATGACGTATTCTG
1 TGATGCCTTTGTGGCGTATTCAG
*
58252617 TTGATGCCTTTGTGGCGTACTCAG
1 -TGATGCCTTTGTGGCGTATTCAG
* *
58252641 TGTTTCC-TTGTGGCGTATTC
1 TGATGCCTTTGTGGCGTATTC
58252661 GAGGCTGCCT
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
22 12 0.33
23 5 0.14
24 19 0.53
ACGTcount: A:0.12, C:0.19, G:0.25, T:0.43
Consensus pattern (23 bp):
TGATGCCTTTGTGGCGTATTCAG
Found at i:58252826 original size:50 final size:50
Alignment explanation
Indices: 58252764--58252863 Score: 182
Period size: 50 Copynumber: 2.0 Consensus size: 50
58252754 GATCAGATAA
* *
58252764 ATCTGAAGTGAACTTGGTTTGGTTATTCTTATGATGAAATTGAATAAGTC
1 ATCTAAAGTGAACTTGGTTTGGTTATTCTTATGATGAAAATGAATAAGTC
58252814 ATCTAAAGTGAACTTGGTTTGGTTATTCTTATGATGAAAATGAATAAGTC
1 ATCTAAAGTGAACTTGGTTTGGTTATTCTTATGATGAAAATGAATAAGTC
58252864 TTAAGGGACG
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (50 bp):
ATCTAAAGTGAACTTGGTTTGGTTATTCTTATGATGAAAATGAATAAGTC
Found at i:58258786 original size:27 final size:27
Alignment explanation
Indices: 58258756--58259102 Score: 297
Period size: 27 Copynumber: 12.9 Consensus size: 27
58258746 AAAACCCCAG
*
58258756 TTTGTAAAATTACTGAAATACCCCCGA
1 TTTGTAAAATTACCGAAATACCCCCGA
* **
58258783 TTTGTAAAATTACCAAAATACCCCTAA
1 TTTGTAAAATTACCGAAATACCCCCGA
* *
58258810 TTTGTAAAATTACCAAAATA-CCCCTA
1 TTTGTAAAATTACCGAAATACCCCCGA
* *
58258836 GTTTGTAAAATTACCAAAATACCCTCGA
1 -TTTGTAAAATTACCGAAATACCCCCGA
* * *
58258864 TTTGTAAAATTACCAAAATACCCTTCTA
1 TTTGTAAAATTACCGAAATACCC-CCGA
* * **
58258892 -GTGTAAAATTACCAAAATACCCCTAA
1 TTTGTAAAATTACCGAAATACCCCCGA
** *
58258918 TTTGTAAAATTATTGAAATACCCCCAA
1 TTTGTAAAATTACCGAAATACCCCCGA
* * **
58258945 TTTGTAAAGTTACTGAAATACCCTTG-
1 TTTGTAAAATTACCGAAATACCCCCGA
*
58258971 TAGTGTAAAATTACCGAAATACCCCC-A
1 T-TTGTAAAATTACCGAAATACCCCCGA
* * *
58258998 GTTTGTAAAATTATCGAAATACCCTCGG
1 -TTTGTAAAATTACCGAAATACCCCCGA
* * **
58259026 TTTGTAAAATTATCGAGATACCCCTTA
1 TTTGTAAAATTACCGAAATACCCCCGA
** **
58259053 TTTGTAAAATTAATGAAATACCCTTGA
1 TTTGTAAAATTACCGAAATACCCCCGA
* * *
58259080 TTTTTCAAATTACCAAAATACCC
1 TTTGTAAAATTACCGAAATACCC
58259103 TTATAGTGAA
Statistics
Matches: 265, Mismatches: 47, Indels: 16
0.81 0.14 0.05
Matches are distributed among these distances:
26 6 0.02
27 251 0.95
28 8 0.03
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
TTTGTAAAATTACCGAAATACCCCCGA
Found at i:58258830 original size:54 final size:53
Alignment explanation
Indices: 58258756--58259102 Score: 333
Period size: 54 Copynumber: 6.4 Consensus size: 53
58258746 AAAACCCCAG
* * *
58258756 TTTGTAAAATTACTGAAATACCCCCGATTTGTAAAATTACCAAAATACCCCTAA
1 TTTGTAAAATTACCGAAATACCCCCTATTTGTAAAATTACCAAAATA-CCCTGA
*
58258810 TTTGTAAAATTACCAAAATA-CCCCTAGTTTGTAAAATTACCAAAATACCCTCGA
1 TTTGTAAAATTACCGAAATACCCCCTA-TTTGTAAAATTACCAAAATACCCT-GA
* * * *
58258864 TTTGTAAAATTACCAAAATACCCTTCTA-GTGTAAAATTACCAAAATACCCCTAA
1 TTTGTAAAATTACCGAAATACCC-CCTATTTGTAAAATTACCAAAATA-CCCTGA
** * * **
58258918 TTTGTAAAATTATTGAAATACCCCCAATTTGTAAAGTTACTGAAATACCCTTG-
1 TTTGTAAAATTACCGAAATACCCCCTATTTGTAAAATTACCAAAATACCC-TGA
* * * *
58258971 TAGTGTAAAATTACCGAAATACCCCC-AGTTTGTAAAATTATCGAAATACCCTCGG
1 T-TTGTAAAATTACCGAAATACCCCCTA-TTTGTAAAATTACCAAAATACCCT-GA
* * * ***
58259026 TTTGTAAAATTATCGAGATACCCCTTATTTGTAAAATTAATGAAATACCCTTGA
1 TTTGTAAAATTACCGAAATACCCCCTATTTGTAAAATTACCAAAATACCC-TGA
* * *
58259080 TTTTTCAAATTACCAAAATACCC
1 TTTGTAAAATTACCGAAATACCC
58259103 TTATAGTGAA
Statistics
Matches: 245, Mismatches: 35, Indels: 26
0.80 0.11 0.08
Matches are distributed among these distances:
53 17 0.07
54 216 0.88
55 9 0.04
56 3 0.01
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (53 bp):
TTTGTAAAATTACCGAAATACCCCCTATTTGTAAAATTACCAAAATACCCTGA
Found at i:58259103 original size:81 final size:81
Alignment explanation
Indices: 58258749--58259064 Score: 386
Period size: 81 Copynumber: 3.9 Consensus size: 81
58258739 GGTCGTTAAA
* * * *
58258749 ACCCC-AGTTTGTAAAATTACTGAAATACCCCCGATTTGTAAAATTACCAAAATACCCCTA-ATT
1 ACCCCTAGTTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCAAAATACCCTTATA-G
58258812 TGTAAAATTACCAAAAT
65 TGTAAAATTACCAAAAT
* *
58258829 ACCCCTAGTTTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCCTTCTAGT
1 ACCCCTAGTTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCAAAATACCCTTATAGT
58258894 GTAAAATTACCAAAAT
66 GTAAAATTACCAAAAT
* ** * * * ** *
58258910 ACCCCTAATTTGTAAAATTATTGAAATACCCCCAATTTGTAAAGTTACTGAAATACCCTTGTAGT
1 ACCCCTAGTTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCAAAATACCCTTATAGT
*
58258975 GTAAAATTACCGAAAT
66 GTAAAATTACCAAAAT
* * * * * * *
58258991 ACCCCCAGTTTGTAAAATTATCGAAATACCCTCGGTTTGTAAAATTATCGAGATACCCCTTAT-T
1 ACCCCTAGTTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCAAAATA-CCCTTATAG
58259055 TGTAAAATTA
65 TGTAAAATTA
58259065 ATGAAATACC
Statistics
Matches: 204, Mismatches: 29, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
80 5 0.02
81 192 0.94
82 7 0.03
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (81 bp):
ACCCCTAGTTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCAAAATACCCTTATAGT
GTAAAATTACCAAAAT
Found at i:58274134 original size:29 final size:29
Alignment explanation
Indices: 58274068--58274157 Score: 101
Period size: 29 Copynumber: 3.1 Consensus size: 29
58274058 CACATACCTG
* * *
58274068 TATATGGCCCACTAGACCC-AATTATATT
1 TATATGGCCCATTAGGCCCAAATTACATT
* * *
58274096 CACATGGCCCATTAGGCCCAAATCACATT
1 TATATGGCCCATTAGGCCCAAATTACATT
* *
58274125 TATATGGCCCATCAGGCCCAATTTACATT
1 TATATGGCCCATTAGGCCCAAATTACATT
58274154 TATA
1 TATA
58274158 GTCATGCTCA
Statistics
Matches: 50, Mismatches: 11, Indels: 1
0.81 0.18 0.02
Matches are distributed among these distances:
28 15 0.30
29 35 0.70
ACGTcount: A:0.31, C:0.28, G:0.12, T:0.29
Consensus pattern (29 bp):
TATATGGCCCATTAGGCCCAAATTACATT
Found at i:58274394 original size:16 final size:16
Alignment explanation
Indices: 58274370--58274412 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
58274360 ATATTCAAAC
* *
58274370 TTTCAGCTTTTCAATA
1 TTTCGGCTTTTCAACA
* *
58274386 TTTTGGCTTTTCAGCA
1 TTTCGGCTTTTCAACA
58274402 TTTCGGCTTTT
1 TTTCGGCTTTT
58274413 TCCGATCTAC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.14, C:0.19, G:0.14, T:0.53
Consensus pattern (16 bp):
TTTCGGCTTTTCAACA
Found at i:58278186 original size:39 final size:40
Alignment explanation
Indices: 58278141--58278312 Score: 204
Period size: 40 Copynumber: 4.3 Consensus size: 40
58278131 GCTCCTCGTT
* * *
58278141 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
58278181 C-AATGCCTTCGAGACATAACCCGAATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
58278220 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
58278260 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
58278300 CAAATGCCTTCGG
1 CAAATGCCTTCGG
58278313 ATCTTAGTCC
Statistics
Matches: 115, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
39 33 0.29
40 78 0.68
41 4 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:58278325 original size:80 final size:79
Alignment explanation
Indices: 58278141--58278365 Score: 231
Period size: 80 Copynumber: 2.8 Consensus size: 79
58278131 GCTCCTCGTT
* * * * * *
58278141 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGAGACATAACCC-GA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
58278205 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
58278220 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
58278285 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
58278300 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
58278364 GA
63 GA
58278366 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 66 0.55
81 15 0.12
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:58278374 original size:41 final size:41
Alignment explanation
Indices: 58278297--58278374 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
58278287 TTTGTATCTC
* * *
58278297 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
58278338 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
58278375 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:58285750 original size:27 final size:27
Alignment explanation
Indices: 58285720--58285857 Score: 177
Period size: 27 Copynumber: 5.1 Consensus size: 27
58285710 AAGAGTCACC
*
58285720 TTACCACATAAGGGCAAAATAGTTATT
1 TTACCACATAAGGGCAAAATAGTCATT
* * *
58285747 TTACCATATAACGGCAAAATGGTCATT
1 TTACCACATAAGGGCAAAATAGTCATT
* * *
58285774 TTACCACATAAGGGTAAAACAATCATT
1 TTACCACATAAGGGCAAAATAGTCATT
*
58285801 TTACCATATAAGGGCAAAATAGTCATT
1 TTACCACATAAGGGCAAAATAGTCATT
* * *
58285828 TTACCACATAAGAGAAAAATAGTCACT
1 TTACCACATAAGGGCAAAATAGTCATT
58285855 TTA
1 TTA
58285858 TCAATTAGGG
Statistics
Matches: 93, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 93 1.00
ACGTcount: A:0.42, C:0.17, G:0.13, T:0.28
Consensus pattern (27 bp):
TTACCACATAAGGGCAAAATAGTCATT
Found at i:58290350 original size:27 final size:27
Alignment explanation
Indices: 58290320--58290499 Score: 159
Period size: 27 Copynumber: 6.6 Consensus size: 27
58290310 ATTTATTGAG
* *
58290320 CTCGCACACTCAGTGCTATATAATCAA
1 CTCGCACACTTAGTGCTACATAATCAA
*
58290347 CTCGCACACTTAGTGCTACGTAATCAA
1 CTCGCACACTTAGTGCTACATAATCAA
* * * *
58290374 ATCGCACACTTAGTGCCACATAGTCCAT
1 CTCGCACACTTAGTGCTACATAAT-CAA
** **
58290402 CTCGCACACTTAGTGCCGCATGGTCAA
1 CTCGCACACTTAGTGCTACATAATCAA
* *
58290429 TTCGCACACTTAGTGC-ATCAT-ATCCAT
1 CTCGCACACTTAGTGCTA-CATAAT-CAA
* * *
58290456 TTCGCACACTTAGTGCAACATAGTCGAA
1 CTCGCACACTTAGTGCTACATAATC-AA
58290484 -TCGCACACTTAGTGCT
1 CTCGCACACTTAGTGCT
58290500 GTACAATTTA
Statistics
Matches: 128, Mismatches: 19, Indels: 12
0.81 0.12 0.08
Matches are distributed among these distances:
26 1 0.01
27 101 0.79
28 26 0.20
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.27
Consensus pattern (27 bp):
CTCGCACACTTAGTGCTACATAATCAA
Found at i:58290488 original size:54 final size:53
Alignment explanation
Indices: 58290321--58290498 Score: 189
Period size: 54 Copynumber: 3.3 Consensus size: 53
58290311 TTTATTGAGC
* * * * * * *
58290321 TCGCACACTCAGTGCTATATAAT-CAACTCGCACACTTAGTGCTACGTAATCAAA
1 TCGCACACTTAGTGC-ACATAGTCCATCTCGCACACTTAGTGCAACATAGTC-AA
** *
58290375 TCGCACACTTAGTGCCACATAGTCCATCTCGCACACTTAGTGCCGCATGGTCAA
1 TCGCACACTTAGTG-CACATAGTCCATCTCGCACACTTAGTGCAACATAGTCAA
*
58290429 TTCGCACACTTAGTGCATCATA-TCCATTTCGCACACTTAGTGCAACATAGTCGAA
1 -TCGCACACTTAGTGCA-CATAGTCCATCTCGCACACTTAGTGCAACATAGTC-AA
58290484 TCGCACACTTAGTGC
1 TCGCACACTTAGTGC
58290499 TGTACAATTT
Statistics
Matches: 106, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
54 63 0.59
55 43 0.41
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (53 bp):
TCGCACACTTAGTGCACATAGTCCATCTCGCACACTTAGTGCAACATAGTCAA
Found at i:58298093 original size:27 final size:27
Alignment explanation
Indices: 58298063--58298242 Score: 159
Period size: 27 Copynumber: 6.6 Consensus size: 27
58298053 ATTTATTGAG
* *
58298063 CTCGCACACTCAGTGCTATATAATCAA
1 CTCGCACACTTAGTGCTACATAATCAA
*
58298090 CTCGCACACTTAGTGCTACGTAATCAA
1 CTCGCACACTTAGTGCTACATAATCAA
* * * *
58298117 ATCGCACACTTAGTGCCACATAGTCCAT
1 CTCGCACACTTAGTGCTACATAAT-CAA
** **
58298145 CTCGCACACTTAGTGCCGCATGGTCAA
1 CTCGCACACTTAGTGCTACATAATCAA
* *
58298172 TTCGCACACTTAGTGC-ATCAT-ATCCAT
1 CTCGCACACTTAGTGCTA-CATAAT-CAA
* * *
58298199 TTCGCACACTTAGTGCAACATAGTCGAA
1 CTCGCACACTTAGTGCTACATAATC-AA
58298227 -TCGCACACTTAGTGCT
1 CTCGCACACTTAGTGCT
58298243 GTACAATTTA
Statistics
Matches: 128, Mismatches: 19, Indels: 12
0.81 0.12 0.08
Matches are distributed among these distances:
26 1 0.01
27 101 0.79
28 26 0.20
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.27
Consensus pattern (27 bp):
CTCGCACACTTAGTGCTACATAATCAA
Found at i:58298231 original size:54 final size:53
Alignment explanation
Indices: 58298064--58298241 Score: 189
Period size: 54 Copynumber: 3.3 Consensus size: 53
58298054 TTTATTGAGC
* * * * * * *
58298064 TCGCACACTCAGTGCTATATAAT-CAACTCGCACACTTAGTGCTACGTAATCAAA
1 TCGCACACTTAGTGC-ACATAGTCCATCTCGCACACTTAGTGCAACATAGTC-AA
** *
58298118 TCGCACACTTAGTGCCACATAGTCCATCTCGCACACTTAGTGCCGCATGGTCAA
1 TCGCACACTTAGTG-CACATAGTCCATCTCGCACACTTAGTGCAACATAGTCAA
*
58298172 TTCGCACACTTAGTGCATCATA-TCCATTTCGCACACTTAGTGCAACATAGTCGAA
1 -TCGCACACTTAGTGCA-CATAGTCCATCTCGCACACTTAGTGCAACATAGTC-AA
58298227 TCGCACACTTAGTGC
1 TCGCACACTTAGTGC
58298242 TGTACAATTT
Statistics
Matches: 106, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
54 63 0.59
55 43 0.41
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (53 bp):
TCGCACACTTAGTGCACATAGTCCATCTCGCACACTTAGTGCAACATAGTCAA
Found at i:58302084 original size:43 final size:43
Alignment explanation
Indices: 58302032--58302186 Score: 249
Period size: 43 Copynumber: 3.6 Consensus size: 43
58302022 CCGGCATTAC
* *
58302032 GCCTGCTAGGCACGAAGGCCTGAATACACATCACCGGCACGAA
1 GCCTACTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
58302075 GCCCT-CTAGGCACGAAGGCCCGAATACACATCATCGGCATGAA
1 G-CCTACTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
58302118 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTACTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
58302161 GCCTACTAGGCACGAAGGCCCGAATA
1 GCCTACTAGGCACGAAGGCCCGAATA
58302187 TAATACCAGC
Statistics
Matches: 104, Mismatches: 6, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
42 3 0.03
43 98 0.94
44 3 0.03
ACGTcount: A:0.30, C:0.33, G:0.25, T:0.12
Consensus pattern (43 bp):
GCCTACTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:58302170 original size:86 final size:86
Alignment explanation
Indices: 58302023--58302186 Score: 285
Period size: 86 Copynumber: 1.9 Consensus size: 86
58302013 ATCATTTCAC
* * *
58302023 CGGCATTACGCCTGCTAGGCACGAAGGCCTGAATACACATCACCGGCACGAAGCCCTCTAGGCAC
1 CGGCATGAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCCTCTAGGCAC
58302088 GAAGGCCCGAATACACATCAT
66 GAAGGCCCGAATACACATCAT
58302109 CGGCATGAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG-CCTACTAGGCA
1 CGGCATGAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCCT-CTAGGCA
58302173 CGAAGGCCCGAATA
65 CGAAGGCCCGAATA
58302187 TAATACCAGC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
85 3 0.04
86 71 0.96
ACGTcount: A:0.30, C:0.33, G:0.25, T:0.12
Consensus pattern (86 bp):
CGGCATGAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCCTCTAGGCAC
GAAGGCCCGAATACACATCAT
Found at i:58302263 original size:38 final size:38
Alignment explanation
Indices: 58302184--58302285 Score: 134
Period size: 38 Copynumber: 2.7 Consensus size: 38
58302174 GAAGGCCCGA
* * *
58302184 ATATAATACCAGCACTAGGCCTGCGGGATTTATCCCTG
1 ATATAATACCAGCACAAAGCCTGCGGGATTTATACCTG
*
58302222 ATATAATACTAGCACAAAGCCTGCGGGATTTA-ACCTGG
1 ATATAATACCAGCACAAAGCCTGCGGGATTTATACCT-G
**
58302260 ATATTTTACCAGCACAAAGCCTGCGG
1 ATATAATACCAGCACAAAGCCTGCGG
58302286 TTCTTTAAGC
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
37 3 0.05
38 53 0.95
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.25
Consensus pattern (38 bp):
ATATAATACCAGCACAAAGCCTGCGGGATTTATACCTG
Found at i:58307428 original size:93 final size:93
Alignment explanation
Indices: 58307315--58307485 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
58307305 GCCCATAAGT
* *
58307315 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
58307380 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
58307408 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
58307473 CGAGTTCGGATGC
66 CGAGTTCGGATGC
58307486 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:58307482 original size:46 final size:46
Alignment explanation
Indices: 58307307--58307482 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
58307297 TGTAATCCGC
* * *
58307307 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
58307353 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
58307403 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
58307446 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
58307483 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:58312554 original size:15 final size:15
Alignment explanation
Indices: 58312517--58312577 Score: 61
Period size: 15 Copynumber: 4.1 Consensus size: 15
58312507 AGAGTTCAAG
*
58312517 ATAAAGAAATCCATA
1 ATAAAGAAATCCAGA
***
58312532 ACGGAGAAATCCAGA
1 ATAAAGAAATCCAGA
*
58312547 ATATAGAAATCCA-A
1 ATAAAGAAATCCAGA
58312561 CATAAAGAAATCCAGA
1 -ATAAAGAAATCCAGA
58312577 A
1 A
58312578 GAAAATATCA
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
14 1 0.03
15 34 0.94
16 1 0.03
ACGTcount: A:0.56, C:0.16, G:0.13, T:0.15
Consensus pattern (15 bp):
ATAAAGAAATCCAGA
Found at i:58313135 original size:17 final size:17
Alignment explanation
Indices: 58313101--58313150 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 17
58313091 CCTGGCCCAT
58313101 AAAAAACCAAAACCAAAATA
1 AAAAAACC-AAA--AAAATA
58313121 AAATAAA-CAAAAAAATA
1 AAA-AAACCAAAAAAATA
58313138 AAAAAACCAAAAA
1 AAAAAACCAAAAA
58313151 CAGTAGAAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
16 3 0.11
17 15 0.54
19 3 0.11
20 4 0.14
21 3 0.11
ACGTcount: A:0.80, C:0.14, G:0.00, T:0.06
Consensus pattern (17 bp):
AAAAAACCAAAAAAATA
Found at i:58313144 original size:16 final size:18
Alignment explanation
Indices: 58313115--58313150 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
58313105 AACCAAAACC
58313115 AAAATAAAATAAA-CAAA
1 AAAATAAAATAAACCAAA
58313132 AAAATAAAA-AAACCAAA
1 AAAATAAAATAAACCAAA
58313149 AA
1 AA
58313151 CAGTAGAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 3 0.17
17 15 0.83
ACGTcount: A:0.83, C:0.08, G:0.00, T:0.08
Consensus pattern (18 bp):
AAAATAAAATAAACCAAA
Found at i:58322753 original size:26 final size:27
Alignment explanation
Indices: 58322722--58322772 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
58322712 AGCAATCAAA
*
58322722 AAATGGG-AAAGGGAAAATAAGAGAGC
1 AAATGGGAAAAGAGAAAATAAGAGAGC
*
58322748 AAATGGGAAAAGAGAAAATGAGAGA
1 AAATGGGAAAAGAGAAAATAAGAGA
58322773 AATGGATGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.57, C:0.02, G:0.33, T:0.08
Consensus pattern (27 bp):
AAATGGGAAAAGAGAAAATAAGAGAGC
Found at i:58324437 original size:27 final size:27
Alignment explanation
Indices: 58324386--58324475 Score: 110
Period size: 27 Copynumber: 3.2 Consensus size: 27
58324376 GTGACAGAGT
58324386 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* * *
58324415 CACCAGAATAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
58324442 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
58324470 CACCAG
1 CACCAG
58324476 GATGCTTCCT
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
27 23 0.43
28 23 0.43
29 7 0.13
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.21
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:58329297 original size:40 final size:40
Alignment explanation
Indices: 58329224--58329409 Score: 211
Period size: 40 Copynumber: 4.7 Consensus size: 40
58329214 GCTACTCGTT
* *
58329224 CAAATGCCTTCGGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTC-GGGACTTAGCCCGGATT-TAGTAACTAGCA
*
58329265 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTAGCA
* *
58329305 TC-AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 -CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTAGCA
* * * *
58329344 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TAGCA
58329385 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
58329410 CATCATTCGA
Statistics
Matches: 125, Mismatches: 13, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
38 3 0.02
39 31 0.25
40 66 0.53
41 25 0.20
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTAGCA
Found at i:58329341 original size:79 final size:81
Alignment explanation
Indices: 58329226--58329409 Score: 234
Period size: 79 Copynumber: 2.3 Consensus size: 81
58329216 TACTCGTTCA
* *
58329226 AATGCCTTCGGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
1 AATGCCTTC-GGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCG
*
58329289 GATTTAGTAAC-TAGCATC
64 GATATAGTAACTTAGCA-C
**
58329307 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
58329370 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
58329386 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
58329410 CATCATTCGA
Statistics
Matches: 91, Mismatches: 8, Indels: 9
0.84 0.07 0.08
Matches are distributed among these distances:
78 3 0.03
79 59 0.65
80 20 0.22
81 9 0.10
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:58330637 original size:55 final size:56
Alignment explanation
Indices: 58330536--58330654 Score: 231
Period size: 55 Copynumber: 2.1 Consensus size: 56
58330526 TATTAGTTTA
58330536 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
58330592 TTGCCCATGCTTCTTATTTTATT-TTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
58330647 TTGCCCAT
1 TTGCCCAT
58330655 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
55 40 0.63
56 23 0.37
ACGTcount: A:0.23, C:0.24, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:58333146 original size:28 final size:27
Alignment explanation
Indices: 58333083--58333262 Score: 288
Period size: 28 Copynumber: 6.6 Consensus size: 27
58333073 ATAATAAGTC
* * *
58333083 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
58333110 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
58333138 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
58333165 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
58333193 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
58333221 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
58333248 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
58333263 GCACAATTTA
Statistics
Matches: 147, Mismatches: 4, Indels: 4
0.95 0.03 0.03
Matches are distributed among these distances:
27 66 0.45
28 81 0.55
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:58333163 original size:55 final size:55
Alignment explanation
Indices: 58333083--58333262 Score: 299
Period size: 55 Copynumber: 3.3 Consensus size: 55
58333073 ATAATAAGTC
* * * *
58333083 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
58333138 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
*
58333193 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTC-AATT
1 CGCACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTGCTACATAGTCAAACT
58333248 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
58333263 GCACAATTTA
Statistics
Matches: 119, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
55 92 0.77
56 27 0.23
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
Found at i:58333221 original size:83 final size:82
Alignment explanation
Indices: 58333083--58333262 Score: 306
Period size: 83 Copynumber: 2.2 Consensus size: 82
58333073 ATAATAAGTC
* *
58333083 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
58333148 GTGCTACATAGTCAACT
66 GTGCTACATAGTCAACT
* *
58333165 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
1 CGCACACTTAGTGCTACATAATC-AACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTT
*
58333230 AGTGCTACATAGTCAATT
65 AGTGCTACATAGTCAACT
58333248 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
58333263 GCACAATTTA
Statistics
Matches: 92, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
82 20 0.22
83 72 0.78
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (82 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
GTGCTACATAGTCAACT
Found at i:58352089 original size:40 final size:40
Alignment explanation
Indices: 58352045--58352189 Score: 213
Period size: 40 Copynumber: 3.6 Consensus size: 40
58352035 CTCGCTCAAA
*
58352045 TGCCTTCGGGACTTAACCCGGTTATAGTAACTCACACAAT
1 TGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACACAAT
*
58352085 TGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAT
1 TGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACACAAT
* * *
58352125 TGCCTTCGGGACTTAGCCCGG-AATTAGTCACT-AGCACAAA
1 TGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCA-CACAAT
58352165 TGCCTTCGGGACTTAGCCCGGTTAT
1 TGCCTTCGGGACTTAGCCCGGTTAT
58352190 CATCCGAATA
Statistics
Matches: 95, Mismatches: 7, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
39 1 0.01
40 93 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (40 bp):
TGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACACAAT
Found at i:58352145 original size:80 final size:80
Alignment explanation
Indices: 58352008--58352189 Score: 228
Period size: 80 Copynumber: 2.3 Consensus size: 80
58351998 AAACCAAGTA
** * * *
58352008 CCTTCGGGGTTTAG-CCGGATATAGCTACTCGCTCAAATGCCTTCGGGACTTAACCCGG-TTATA
1 CCTTCGGGACTTAGCCCGGTTATAGCTACTCGCACAAATGCCTTCGGGACTTAACCCGGAAT-TA
*
58352071 GTAACTCA-CACAATTG
65 GTAACT-AGCACAAATG
* *
58352087 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAATTGCCTTCGGGACTTAGCCCGGAATTA
1 CCTTCGGGACTTAGCCCGGTTATAGCT-ACTCGCACAAATGCCTTCGGGACTTAACCCGGAATTA
*
58352151 GTCACTAGCACAAATG
65 GTAACTAGCACAAATG
58352167 CCTTCGGGACTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
58352190 CATCCGAATA
Statistics
Matches: 90, Mismatches: 9, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
79 14 0.16
80 75 0.83
81 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGTTATAGCTACTCGCACAAATGCCTTCGGGACTTAACCCGGAATTAG
TAACTAGCACAAATG
Found at i:58356526 original size:28 final size:27
Alignment explanation
Indices: 58356494--58356575 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
58356484 GTCACTAGAT
58356494 ACAGATATTTTGTGGCAGTGCCACCAGA
1 ACAGATA-TTTGTGGCAGTGCCACCAGA
** *
58356522 ACAGATATACGTGGCAGGGCCACCAGA
1 ACAGATATTTGTGGCAGTGCCACCAGA
58356549 ACAGATAATTTGTGGCA-TAGCCACCAG
1 ACAGAT-ATTTGTGGCAGT-GCCACCAG
58356576 GACGCTTCCT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
27 23 0.50
28 23 0.50
ACGTcount: A:0.32, C:0.23, G:0.26, T:0.20
Consensus pattern (27 bp):
ACAGATATTTGTGGCAGTGCCACCAGA
Found at i:58356526 original size:55 final size:56
Alignment explanation
Indices: 58356461--58356575 Score: 128
Period size: 55 Copynumber: 2.1 Consensus size: 56
58356451 AGCATGGCTG
* * * *
58356461 CCAGATACAGA-AAATGTGACAGAGTCACTAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
58356517 CCAGA-ACAGATATACGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
58356572 CCAG
1 CCAG
58356576 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.58
56 20 0.40
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:58356727 original size:27 final size:28
Alignment explanation
Indices: 58356684--58356744 Score: 97
Period size: 27 Copynumber: 2.2 Consensus size: 28
58356674 TTAACCCTAA
*
58356684 GGGTATAAAGGTCATTTTGCATACAT-G
1 GGGTATAAAGGTAATTTTGCATACATAG
*
58356711 GGGTATAATGGTAATTTTGCATACATAG
1 GGGTATAAAGGTAATTTTGCATACATAG
58356739 GGGTAT
1 GGGTAT
58356745 TCTAGTAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 24 0.77
28 7 0.23
ACGTcount: A:0.30, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
GGGTATAAAGGTAATTTTGCATACATAG
Found at i:58359925 original size:28 final size:28
Alignment explanation
Indices: 58359893--58359948 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
58359883 TACCGAGATG
*
58359893 TGATTACATGTAAGAGCATGTATGGGAC
1 TGATTACATGTAAGACCATGTATGGGAC
*
58359921 TGATTACATGTAAGACCATGTCTGGGAC
1 TGATTACATGTAAGACCATGTATGGGAC
58359949 ATTGGCATCG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (28 bp):
TGATTACATGTAAGACCATGTATGGGAC
Found at i:58360017 original size:43 final size:42
Alignment explanation
Indices: 58359929--58360041 Score: 120
Period size: 43 Copynumber: 2.6 Consensus size: 42
58359919 ACTGATTACA
* * **
58359929 TGTAAGACCATGTCTGGGACATTGGCATCGTTAATCGATTTCG
1 TGTAAGACCATGTCTAGGACA-TGGCATCGATAATCGATAACG
* *
58359972 TGTAAGACCCTGTCTAGGACAGTGGCATCGAT-ATGTGATAACG
1 TGTAAGACCATGTCTAGGACA-TGGCATCGATAAT-CGATAACG
* *
58360015 TGTAAGACCATATCTAGGATATGGCAT
1 TGTAAGACCATGTCTAGGACATGGCAT
58360042 TGTACGAGCT
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
42 8 0.14
43 51 0.86
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATGTCTAGGACATGGCATCGATAATCGATAACG
Found at i:58361852 original size:23 final size:23
Alignment explanation
Indices: 58361817--58361906 Score: 92
Period size: 22 Copynumber: 3.8 Consensus size: 23
58361807 TACTATTTTT
* *
58361817 AGCTCATTGGAGCTTACCGGTTC
1 AGCTCAATAGAGCTTACCGGTTC
*
58361840 AGCTCAATAGAGCTTA-CTGTTC
1 AGCTCAATAGAGCTTACCGGTTC
* *
58361862 AGCTCAATAGAGCTTACTGTTCATC
1 AGCTCAATAGAGCTTACCGGT--TC
*
58361887 AGCTCAAAAGGAGCTTACCG
1 AGCTCAATA-GAGCTTACCG
58361907 ATCATGGCTC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
22 21 0.38
23 15 0.27
25 10 0.18
26 9 0.16
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (23 bp):
AGCTCAATAGAGCTTACCGGTTC
Found at i:58361864 original size:22 final size:22
Alignment explanation
Indices: 58361817--58361884 Score: 100
Period size: 22 Copynumber: 3.0 Consensus size: 22
58361807 TACTATTTTT
* * *
58361817 AGCTCATTGGAGCTTACCGGTTC
1 AGCTCAATAGAGCTTA-CTGTTC
58361840 AGCTCAATAGAGCTTACTGTTC
1 AGCTCAATAGAGCTTACTGTTC
58361862 AGCTCAATAGAGCTTACTGTTC
1 AGCTCAATAGAGCTTACTGTTC
58361884 A
1 A
58361885 TCAGCTCAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
22 28 0.67
23 14 0.33
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.31
Consensus pattern (22 bp):
AGCTCAATAGAGCTTACTGTTC
Found at i:58362113 original size:20 final size:21
Alignment explanation
Indices: 58362075--58362138 Score: 69
Period size: 20 Copynumber: 3.1 Consensus size: 21
58362065 ATAACTATTA
* * *
58362075 ATACGGTTGAATTACTGTTAT
1 ATACGGATGAACTATTGTTAT
*
58362096 -TACTGATGAACTATTGTT-T
1 ATACGGATGAACTATTGTTAT
58362115 ATACGGATGAACTATTGGTTAT
1 ATACGGATGAACTATT-GTTAT
58362137 AT
1 AT
58362139 GAATGAATTA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
19 1 0.03
20 28 0.80
21 3 0.09
22 3 0.09
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (21 bp):
ATACGGATGAACTATTGTTAT
Found at i:58362144 original size:20 final size:20
Alignment explanation
Indices: 58362101--58362145 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
58362091 GTTATTACTG
* *
58362101 ATGAACTATTGTTTATACGG
1 ATGAACTATTGGTTATACGA
*
58362121 ATGAACTATTGGTTATATGA
1 ATGAACTATTGGTTATACGA
58362141 ATGAA
1 ATGAA
58362146 TTACAGTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.07, G:0.20, T:0.38
Consensus pattern (20 bp):
ATGAACTATTGGTTATACGA
Found at i:58364088 original size:29 final size:29
Alignment explanation
Indices: 58364034--58364090 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
58364024 CAAGAAAATT
**
58364034 AAATAAAGAAATCCAAGATAGCGAAACCA
1 AAATAAAGAAATCCAAGATAAAGAAACCA
*
58364063 AAATAAAGAAAT-CTAGAATAAAGAAACC
1 AAATAAAGAAATCCAAG-ATAAAGAAACC
58364091 CAAGATACGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 3 0.12
29 21 0.88
ACGTcount: A:0.61, C:0.14, G:0.12, T:0.12
Consensus pattern (29 bp):
AAATAAAGAAATCCAAGATAAAGAAACCA
Found at i:58367755 original size:47 final size:47
Alignment explanation
Indices: 58367637--58367769 Score: 171
Period size: 46 Copynumber: 2.9 Consensus size: 47
58367627 ATAATCTCAC
* *
58367637 CCATAATGAACTCGGAATGCAACTCAACGAGCTCGGGTG-TTCGCAT
1 CCATAATGAACTCGGAATGCAACTCAACGAGTTCGGATGCTTCGCAT
** *
58367683 CCATAATGAACTCGGAACACAACTCAATGAGTTCGGATGCTT-GCAT
1 CCATAATGAACTCGGAATGCAACTCAACGAGTTCGGATGCTTCGCAT
* * *
58367729 CCATAGGTGAACTCGAAATGCAACTCAACGAGTTCAGATGC
1 CCATA-ATGAACTCGGAATGCAACTCAACGAGTTCGGATGC
58367770 CTCATAATTC
Statistics
Matches: 74, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
46 43 0.58
47 31 0.42
ACGTcount: A:0.32, C:0.25, G:0.22, T:0.22
Consensus pattern (47 bp):
CCATAATGAACTCGGAATGCAACTCAACGAGTTCGGATGCTTCGCAT
Found at i:58370418 original size:23 final size:25
Alignment explanation
Indices: 58370392--58370449 Score: 75
Period size: 23 Copynumber: 2.4 Consensus size: 25
58370382 TCAGCTTGAT
*
58370392 AGAGCTTACTA-CTTTAGCTCAA-A
1 AGAGCTTACTATCATTAGCTCAAGA
58370415 AGAGCTTACTATTCATTAGCTCAAGA
1 AGAGCTTACTA-TCATTAGCTCAAGA
*
58370441 GGAGCTTAC
1 AGAGCTTAC
58370450 CGATCATGGC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
23 11 0.37
25 10 0.33
26 9 0.30
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (25 bp):
AGAGCTTACTATCATTAGCTCAAGA
Found at i:58370650 original size:20 final size:20
Alignment explanation
Indices: 58370627--58370681 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 20
58370617 TTAATACAGT
*
58370627 TGAATTACTGTTATTACTGA
1 TGAACTACTGTTATTACTGA
* *
58370647 TGAACTATTGTT-TATACGGA
1 TGAACTACTGTTAT-TACTGA
58370667 TGAACTACTAGTTAT
1 TGAACTACT-GTTAT
58370682 ATGAATGAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 1 0.04
20 23 0.82
21 3 0.11
22 1 0.04
ACGTcount: A:0.31, C:0.11, G:0.16, T:0.42
Consensus pattern (20 bp):
TGAACTACTGTTATTACTGA
Found at i:58370700 original size:40 final size:38
Alignment explanation
Indices: 58370599--58370704 Score: 95
Period size: 40 Copynumber: 2.7 Consensus size: 38
58370589 GATATGTGTA
* * * * *
58370599 TATATGGATGAATAACAGTTAATACAGTTGAATTACTGT
1 TATAT-GATGAATTACAGTTTATACGGATGAACTACTGT
* **
58370638 TATTACTGATGAACTATTGTTTATACGGATGAACTACTAGT
1 TA-TA-TGATGAATTACAGTTTATACGGATGAACTACT-GT
58370679 TATATGAATGAATTACAGTTTATACG
1 TATATG-ATGAATTACAGTTTATACG
58370705 AATAGAAATG
Statistics
Matches: 52, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
39 4 0.08
40 43 0.83
41 5 0.10
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (38 bp):
TATATGATGAATTACAGTTTATACGGATGAACTACTGT
Found at i:58370707 original size:20 final size:21
Alignment explanation
Indices: 58370646--58370707 Score: 67
Period size: 20 Copynumber: 3.1 Consensus size: 21
58370636 GTTATTACTG
* *
58370646 ATGAACTA-TTGTTTATACGG
1 ATGAACTACTAGTTTATACGA
*
58370666 ATGAACTACTAG-TTATATGA
1 ATGAACTACTAGTTTATACGA
*
58370686 ATGAATTAC-AGTTTATACGA
1 ATGAACTACTAGTTTATACGA
58370706 AT
1 AT
58370708 AGAAATGAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
19 2 0.06
20 31 0.89
21 2 0.06
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (21 bp):
ATGAACTACTAGTTTATACGA
Found at i:58374373 original size:56 final size:56
Alignment explanation
Indices: 58374287--58374406 Score: 240
Period size: 56 Copynumber: 2.1 Consensus size: 56
58374277 ACAAGGGATG
58374287 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
58374343 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
58374399 ATGGGCAA
1 ATGGGCAA
58374407 TAAACTAATA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 64 1.00
ACGTcount: A:0.46, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:58375635 original size:39 final size:40
Alignment explanation
Indices: 58375574--58375718 Score: 186
Period size: 40 Copynumber: 3.6 Consensus size: 40
58375564 AGTGACCATA
* * *
58375574 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTAAT
*
58375614 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
58375653 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACT-AT
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTAAT
* *
58375692 AACCGGGCTATGACCCGAAGGCATTTG
1 -TCCGGGCTAAGACCCGAAGGCATTTG
58375719 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
39 36 0.39
40 56 0.61
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:58375732 original size:40 final size:39
Alignment explanation
Indices: 58375537--58375718 Score: 172
Period size: 40 Copynumber: 4.6 Consensus size: 39
58375527 AATGATGTCA
* * * * *
58375537 GGGCTAAGTCCTGAAGGC-TTTGTGCTAAGTGACCATATCC
1 GGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTATAACC
* * * *
58375577 GGACTAAGATCCGAAGGCATTTGTGCGAGATACTA-ATTCC
1 GGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATA-ACC
58375617 GGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTA-AATCC
1 GGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTATAA-CC
* *
58375656 GGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAACC
1 GGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAACC
*
58375696 GGGCTATGACCCGAAGGCATTTG
1 GGGCTAAG-CCCGAAGGCATTTG
58375719 AACGAGTAGC
Statistics
Matches: 120, Mismatches: 17, Indels: 10
0.82 0.12 0.07
Matches are distributed among these distances:
39 35 0.29
40 76 0.63
41 9 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
GGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTATAACC
Found at i:58375740 original size:79 final size:79
Alignment explanation
Indices: 58375587--58375751 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
58375577 GGACTAAGAT
* **
58375587 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
58375652 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
58375666 CCGAAGGCATTTGTGTGAGTTACT-ATAACCGGGCTATGACCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
58375729 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
58375745 CCGAAGG
1 CCGAAGG
58375752 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:58376603 original size:18 final size:18
Alignment explanation
Indices: 58376580--58376616 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
58376570 ATGAACAGTA
58376580 TATTATGAGATGCTAAAG
1 TATTATGAGATGCTAAAG
58376598 TATTATGAGATGCTAAAG
1 TATTATGAGATGCTAAAG
58376616 T
1 T
58376617 TTTCGTGAGA
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:0.38, C:0.05, G:0.22, T:0.35
Consensus pattern (18 bp):
TATTATGAGATGCTAAAG
Found at i:58379383 original size:37 final size:37
Alignment explanation
Indices: 58379324--58379469 Score: 238
Period size: 37 Copynumber: 3.9 Consensus size: 37
58379314 AGCTCAGACG
* *
58379324 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
58379361 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
58379398 TACTCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
58379435 TAATCTCCACACGTAGTCATCGGGTCTCACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
58379470 ATATATTTCC
Statistics
Matches: 103, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 103 1.00
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:58379684 original size:47 final size:47
Alignment explanation
Indices: 58379632--58379911 Score: 434
Period size: 47 Copynumber: 6.0 Consensus size: 47
58379622 TTTCACACTA
* * * *
58379632 GCCATTCGGCTTTACCACATATATGCATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
58379679 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
*
58379726 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATAG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
58379773 GCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
58379820 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* **
58379867 GCCATTCGGCCTTATCACATATATACACATTCACATTCATCACAT
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACAT
58379912 AAAATCCTAA
Statistics
Matches: 212, Mismatches: 21, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 212 1.00
ACGTcount: A:0.27, C:0.30, G:0.12, T:0.32
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
Found at i:58379831 original size:141 final size:140
Alignment explanation
Indices: 58379624--58379912 Score: 515
Period size: 141 Copynumber: 2.0 Consensus size: 140
58379614 CCTACATATT
*
58379624 TCACACTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGC
1 TCACA-TAGCCATTCGGCCTTACCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGC
* *
58379689 CTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCAT
65 CTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
*
58379754 GTTCACATTCA
130 ATTCACATTCA
*
58379765 TCACATAGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGC
1 TCACATA-GCCATTCGGCCTTACCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGC
58379830 CTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
65 CTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
58379895 ATTCACATTCA
130 ATTCACATTCA
58379906 TCACATA
1 TCACATA
58379913 AAATCCTAAA
Statistics
Matches: 142, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
140 2 0.01
141 140 0.99
ACGTcount: A:0.27, C:0.30, G:0.11, T:0.31
Consensus pattern (140 bp):
TCACATAGCCATTCGGCCTTACCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGCC
TTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACA
TTCACATTCA
Found at i:58385738 original size:30 final size:30
Alignment explanation
Indices: 58385704--58385761 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
58385694 CCTTGACTCG
*
58385704 AACTTTGGCAAAATTACACTTTTTCCCCTA
1 AACTTTGACAAAATTACACTTTTTCCCCTA
* * *
58385734 AACTTTTACATATTTACACTTTTTCCCC
1 AACTTTGACAAAATTACACTTTTTCCCC
58385762 AAGGCTCGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.28, C:0.28, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTGACAAAATTACACTTTTTCCCCTA
Found at i:58387446 original size:71 final size:71
Alignment explanation
Indices: 58387330--58387472 Score: 277
Period size: 71 Copynumber: 2.0 Consensus size: 71
58387320 TATAATATTT
58387330 TGTTGTGCATGTAAATTTCGTTAATGAAGGCTTGTTTTAGTGGTTAAGTGTGCTGACAAGTGTTG
1 TGTTGTGCATGTAAATTTCGTTAATGAAGGCTTGTTTTAGTGGTTAAGTGTGCTGACAAGTGTTG
58387395 GAGAAG
66 GAGAAG
*
58387401 TGTTGTGCATGTAAATTTCGTTAATGAAGGCTTGTTTTAGTGGTTAAGTGTGCTGAGAAGTGTTG
1 TGTTGTGCATGTAAATTTCGTTAATGAAGGCTTGTTTTAGTGGTTAAGTGTGCTGACAAGTGTTG
58387466 GAGAAG
66 GAGAAG
58387472 T
1 T
58387473 CCTGGGTTCA
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 71 1.00
ACGTcount: A:0.24, C:0.06, G:0.31, T:0.38
Consensus pattern (71 bp):
TGTTGTGCATGTAAATTTCGTTAATGAAGGCTTGTTTTAGTGGTTAAGTGTGCTGACAAGTGTTG
GAGAAG
Found at i:58388249 original size:27 final size:26
Alignment explanation
Indices: 58388221--58388351 Score: 129
Period size: 27 Copynumber: 4.8 Consensus size: 26
58388211 CCCCCAGATA
* * *
58388221 TAAAATTACCAAAGTACCCCCGGTTTA
1 TAAAATTACCAAA-TACCCTCGATTTG
*
58388248 TAAAATTACCCAAATATCCTCGATTTG
1 TAAAATTA-CCAAATACCCTCGATTTG
58388275 TAAAATTACCGAAATACCCTC-AGTTTG
1 TAAAATTACC-AAATACCCTCGA-TTTG
* * *
58388302 CAAAATTACTAAAATACCCTCGACTTG
1 TAAAATTAC-CAAATACCCTCGATTTG
*
58388329 TAAAATTATCAAAGTACCCTCGA
1 TAAAATTACCAAA-TACCCTCGA
58388352 ATTACAAAAT
Statistics
Matches: 87, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
26 6 0.07
27 75 0.86
28 6 0.07
ACGTcount: A:0.39, C:0.24, G:0.09, T:0.28
Consensus pattern (26 bp):
TAAAATTACCAAATACCCTCGATTTG
Found at i:58388360 original size:27 final size:27
Alignment explanation
Indices: 58388192--58388392 Score: 95
Period size: 27 Copynumber: 7.5 Consensus size: 27
58388182 ATACTTTAGT
* * *
58388192 TTACCAAATTACTGAAATACCC-CCAGA
1 TTACAAAATTACTAAAATACCCTCGA-A
* * * * **
58388219 -TATAAAATTACCAAAGTACCCCCGGT
1 TTACAAAATTACTAAAATACCCTCGAA
* ** * *
58388245 TTATAAAATTACCCAAATATCCTCGAT
1 TTACAAAATTACTAAAATACCCTCGAA
** ** *
58388272 TTGTAAAATTACCGAAATACCCTC-AGT
1 TTACAAAATTACTAAAATACCCTCGA-A
* *
58388299 TTGCAAAATTACTAAAATACCCTCGAC
1 TTACAAAATTACTAAAATACCCTCGAA
** *
58388326 TTGTAAAATTA-TCAAAGTACCCTCGAA
1 TTACAAAATTACT-AAAATACCCTCGAA
*** *
58388353 TTACAAAATTACTATTTTACCCTCGAT
1 TTACAAAATTACTAAAATACCCTCGAA
58388380 TTACAAAATTACT
1 TTACAAAATTACT
58388393 GTTTTACCCT
Statistics
Matches: 139, Mismatches: 29, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
26 18 0.13
27 119 0.86
28 2 0.01
ACGTcount: A:0.39, C:0.23, G:0.07, T:0.30
Consensus pattern (27 bp):
TTACAAAATTACTAAAATACCCTCGAA
Done.