Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 181 of 328
Found at i:53849541 original size:25 final size:26
Alignment explanation
Indices: 53849485--53849554 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 26
53849475 CGAATGGGGC
*
53849485 AGCACTATGTGTGCGTATGGAAAAGCT
1 AGCACTATGTGTGCGAATGGAAAA-CT
*
53849512 AGCACTATGTGTGCGAAT-GAATA-T
1 AGCACTATGTGTGCGAATGGAAAACT
*
53849536 ATGCACTATGTGTGTGAAT
1 A-GCACTATGTGTGCGAAT
53849555 TTATTAACCG
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
24 2 0.05
25 16 0.41
26 4 0.10
27 17 0.44
ACGTcount: A:0.30, C:0.13, G:0.27, T:0.30
Consensus pattern (26 bp):
AGCACTATGTGTGCGAATGGAAAACT
Found at i:53853155 original size:22 final size:22
Alignment explanation
Indices: 53853130--53853173 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
53853120 TACAATCCAA
*
53853130 AACCGAATAATAATAA-TAAAAT
1 AACCGAAAAAT-ATAATTAAAAT
*
53853152 AACCTAAAAATATAATTAAAAT
1 AACCGAAAAATATAATTAAAAT
53853174 GAAATAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.64, C:0.09, G:0.02, T:0.25
Consensus pattern (22 bp):
AACCGAAAAATATAATTAAAAT
Found at i:53857824 original size:40 final size:39
Alignment explanation
Indices: 53857664--53857826 Score: 227
Period size: 39 Copynumber: 4.2 Consensus size: 39
53857654 TGTGTATGAA
*
53857664 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
53857703 TGTACGAGTTGTGATATTCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *** *
53857742 GGTGCGAGCCATGATATCTGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
53857781 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
53857821 TGTGCG
1 TGTGCG
53857827 GGTTACCATA
Statistics
Matches: 106, Mismatches: 17, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.25
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:53857842 original size:40 final size:40
Alignment explanation
Indices: 53857681--53857862 Score: 127
Period size: 39 Copynumber: 4.6 Consensus size: 40
53857671 ATTGTGATAT
* * *** *
53857681 CCGGGCTAAG-CCCGAAGGCAATTGTACGAGTTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* * * ** ** *
53857720 TCGGGCTAAG-CCCGAAGGCAATGGTGCGAGCCATGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* * *** *
53857759 CTGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* *
53857798 CCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* *
53857838 CCGGGCTATGTCCCGAAGGCGTTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
53857863 AACGAGTAGC
Statistics
Matches: 119, Mismatches: 23, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
39 74 0.62
40 45 0.38
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
Found at i:53859670 original size:42 final size:42
Alignment explanation
Indices: 53859623--53859848 Score: 247
Period size: 42 Copynumber: 5.4 Consensus size: 42
53859613 ACTCAAACCT
** *
53859623 CATGAGCTTAAGTGATAAGTTGCATATCAGCAAAGCTCCCTA
1 CATGAGCTTAAGTGATAAGTTGTGTATCAGCGAAGCTCCCTA
* *
53859665 CATGAGCTTAAGGGATAAGTTGTGTATCAACGAAGCTCCCTA
1 CATGAGCTTAAGTGATAAGTTGTGTATCAGCGAAGCTCCCTA
* * * * *
53859707 CGTGAGCTTAAGTGACAAGCTGTGTATCAGTGAAGCTCTCTA
1 CATGAGCTTAAGTGATAAGTTGTGTATCAGCGAAGCTCCCTA
** * * *
53859749 TTTGAGTTTAAGTGAGAAGTTGTGTATCAGTGAAGCTCCCCT-
1 CATGAGCTTAAGTGATAAGTTGTGTATCAGCGAAGCT-CCCTA
* * *
53859791 CATGAGCTTAAGTGACAAGTTGTGTATCAGCAAAGCTCCCGA
1 CATGAGCTTAAGTGATAAGTTGTGTATCAGCGAAGCTCCCTA
***
53859833 TGCGAGCTTAAGTGAT
1 CATGAGCTTAAGTGAT
53859849 TGTGCTCCTT
Statistics
Matches: 153, Mismatches: 29, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
41 3 0.02
42 147 0.96
43 3 0.02
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (42 bp):
CATGAGCTTAAGTGATAAGTTGTGTATCAGCGAAGCTCCCTA
Found at i:53859844 original size:84 final size:83
Alignment explanation
Indices: 53859620--53859847 Score: 276
Period size: 84 Copynumber: 2.7 Consensus size: 83
53859610 CCAACTCAAA
* ** * * *
53859620 CCTCATGAGCTTAAGTGATAAGTTGCATATCAGCAAAGCTCCCTACATGAGCTTAAGGGATAAGT
1 CCTCATGAGCTTAAGTGACAAGTTGTGTATCAGCAAAGCTCCCTATATGAGCTTAAGTGAGAAGT
53859685 TGTGTATCAACGAAGCTC
66 TGTGTATCAACGAAGCTC
* * ** * * *
53859703 CCTACGTGAGCTTAAGTGACAAGCTGTGTATCAGTGAAGCTCTCTATTTGAGTTTAAGTGAGAAG
1 CCT-CATGAGCTTAAGTGACAAGTTGTGTATCAGCAAAGCTCCCTATATGAGCTTAAGTGAGAAG
**
53859768 TTGTGTATCAGTGAAGCTCC
65 TTGTGTATCAACGAAGCT-C
* **
53859788 CCTCATGAGCTTAAGTGACAAGTTGTGTATCAGCAAAGCTCCCGATGCGAGCTTAAGTGA
1 CCTCATGAGCTTAAGTGACAAGTTGTGTATCAGCAAAGCTCCCTATATGAGCTTAAGTGA
53859848 TTGTGCTCCT
Statistics
Matches: 119, Mismatches: 24, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
83 3 0.03
84 112 0.94
85 4 0.03
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (83 bp):
CCTCATGAGCTTAAGTGACAAGTTGTGTATCAGCAAAGCTCCCTATATGAGCTTAAGTGAGAAGT
TGTGTATCAACGAAGCTC
Found at i:53862268 original size:43 final size:41
Alignment explanation
Indices: 53862192--53862272 Score: 108
Period size: 43 Copynumber: 1.9 Consensus size: 41
53862182 GAAACACATA
* *
53862192 TATCACATACAATGCCATATCCCAGATATGGTCTTACATGT
1 TATCACATACAATGCCATATCCCAGACAGGGTCTTACATGT
* *
53862233 TATCACATATCGATGCCTATGTCCCAGACAGGGTCTTACA
1 TATCACATA-CAATGCC-ATATCCCAGACAGGGTCTTACA
53862273 CGAATCCATA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 9 0.26
42 6 0.18
43 19 0.56
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.30
Consensus pattern (41 bp):
TATCACATACAATGCCATATCCCAGACAGGGTCTTACATGT
Found at i:53871093 original size:30 final size:28
Alignment explanation
Indices: 53871059--53871125 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 28
53871049 TCAAATCATC
* *
53871059 AAAATTAATATCAAGTGATAAAATTTAAT
1 AAAATTAAAATCAA-TGACAAAATTTAAT
*
53871088 AAAAATTAAAATTAATGACAAAATTTAAT
1 -AAAATTAAAATCAATGACAAAATTTAAT
53871117 AAAATTAAA
1 AAAATTAAA
53871126 GCTTAGTGCA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
28 9 0.26
29 13 0.38
30 12 0.35
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.31
Consensus pattern (28 bp):
AAAATTAAAATCAATGACAAAATTTAAT
Found at i:53871923 original size:19 final size:19
Alignment explanation
Indices: 53871875--53871917 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
53871865 TTCAAAATAT
53871875 AATAACAAATATCAATAAA
1 AATAACAAATATCAATAAA
53871894 AATAACAAATATCAATAAA
1 AATAACAAATATCAATAAA
53871913 AATAA
1 AATAA
53871918 AGAATAATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.70, C:0.09, G:0.00, T:0.21
Consensus pattern (19 bp):
AATAACAAATATCAATAAA
Found at i:53874436 original size:4 final size:4
Alignment explanation
Indices: 53874427--53874452 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
53874417 TTCTCAAGGA
53874427 TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TT
53874453 TTAAGGATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:53877164 original size:22 final size:22
Alignment explanation
Indices: 53877136--53877178 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
53877126 GACTATACGA
53877136 TCTGAGCTCATGAGT-TATGTGG
1 TCTGAGCTCATGA-TATATGTGG
53877158 TCTGAGCTCATGATATATGTG
1 TCTGAGCTCATGATATATGTG
53877179 ACACATGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 1 0.05
22 19 0.95
ACGTcount: A:0.21, C:0.14, G:0.28, T:0.37
Consensus pattern (22 bp):
TCTGAGCTCATGATATATGTGG
Found at i:53877584 original size:2 final size:2
Alignment explanation
Indices: 53877577--53877614 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
53877567 TGTGGTAAGA
53877577 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
53877615 GAAGAATAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:53879373 original size:22 final size:22
Alignment explanation
Indices: 53879345--53879391 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
53879335 TTTCAATAGT
53879345 GTTATTTTAGAAACAACCATTG
1 GTTATTTTAGAAACAACCATTG
53879367 GTTATTTTAGAAACAACCATTG
1 GTTATTTTAGAAACAACCATTG
53879389 GTT
1 GTT
53879392 GTATTTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.38
Consensus pattern (22 bp):
GTTATTTTAGAAACAACCATTG
Found at i:53881421 original size:41 final size:40
Alignment explanation
Indices: 53881364--53881446 Score: 139
Period size: 41 Copynumber: 2.0 Consensus size: 40
53881354 TTTAGAATGC
53881364 CTAAGAGCCCTCAAAAGTGACCTTTTCCGAATAGGACTATA
1 CTAAGAGCCCTCAAAAGTGACCTTTTCCGAATAGGA-TATA
* *
53881405 CTAAGAGCCTTCAAAAGTGGCCTTTTCCGAATAGGATATA
1 CTAAGAGCCCTCAAAAGTGACCTTTTCCGAATAGGATATA
53881445 CT
1 CT
53881447 TGGGCTCGAC
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
40 6 0.15
41 34 0.85
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.27
Consensus pattern (40 bp):
CTAAGAGCCCTCAAAAGTGACCTTTTCCGAATAGGATATA
Found at i:53894144 original size:43 final size:43
Alignment explanation
Indices: 53894097--53894253 Score: 112
Period size: 44 Copynumber: 3.7 Consensus size: 43
53894087 AGAACATATA
*
53894097 CAATGCCAACGTCCTAGACGTGGTCTTACATGTAATCAAACAT
1 CAATGCCAACGTCCTAGACGTGGTCTTACATGTAATCAAAAAT
* * *
53894140 CAATGCC-ACTGTCCTAGACAGT-G--TTACATGAAATCAGATA-
1 CAATGCCAAC-GTCCTAGAC-GTGGTCTTACATGTAATCAAAAAT
* ** * * * * *
53894180 CGATGCTGATGTCCCACACATGGTCTTACATGTAA-AAAAGAAGT
1 CAATGCCAACGTCCTAGACGTGGTCTTACATGTAATCAAA-AA-T
53894224 -AGATGCCAACGTCCTAGACGTGGTCTTACA
1 CA-ATGCCAACGTCCTAGACGTGGTCTTACA
53894254 CGAAATCACA
Statistics
Matches: 84, Mismatches: 20, Indels: 19
0.68 0.16 0.15
Matches are distributed among these distances:
39 1 0.01
40 13 0.15
41 17 0.20
42 12 0.14
43 17 0.20
44 24 0.29
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (43 bp):
CAATGCCAACGTCCTAGACGTGGTCTTACATGTAATCAAAAAT
Found at i:53897608 original size:29 final size:29
Alignment explanation
Indices: 53897539--53897641 Score: 100
Period size: 29 Copynumber: 3.6 Consensus size: 29
53897529 TACTCAATCA
* * *
53897539 CGCACACTTAGTGCCATGT-GATTCAAGCC
1 CGCACACTTAGTGCCATATAG-TACAAGCT
* * * *
53897568 CGCGCACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATAGTACAAGCT
* *
53897597 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCATATAGTACAAGCT
*
53897626 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
53897642 ATCTCGTCCC
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
29 59 0.98
30 1 0.02
ACGTcount: A:0.28, C:0.33, G:0.17, T:0.21
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATAGTACAAGCT
Found at i:53901349 original size:135 final size:135
Alignment explanation
Indices: 53901107--53901377 Score: 533
Period size: 135 Copynumber: 2.0 Consensus size: 135
53901097 TCTCGACGCG
*
53901107 TAGGCTACAACTCGACCTTCTTGCATCAATACGCAACCTAACCCAAGTAGGGAGGCGTCACTATA
1 TAGGCCACAACTCGACCTTCTTGCATCAATACGCAACCTAACCCAAGTAGGGAGGCGTCACTATA
53901172 AATGACAAACTCTTTGCCAGATTCGGGCTGCACTAAAACTGGAGCTTCTGTCAAATGAGTTTTCA
66 AATGACAAACTCTTTGCCAGATTCGGGCTGCACTAAAACTGGAGCTTCTGTCAAATGAGTTTTCA
53901237 ATTGA
131 ATTGA
53901242 TAGGCCACAACTCGACCTTCTTGCATCAATACGCAACCTAACCCAAGTAGGGAGGCGTCACTATA
1 TAGGCCACAACTCGACCTTCTTGCATCAATACGCAACCTAACCCAAGTAGGGAGGCGTCACTATA
53901307 AATGACAAACTCTTTGCCAGATTCGGGCTGCACTAAAACTGGAGCTTCTGTCAAATGAGTTTTCA
66 AATGACAAACTCTTTGCCAGATTCGGGCTGCACTAAAACTGGAGCTTCTGTCAAATGAGTTTTCA
53901372 ATTGA
131 ATTGA
53901377 T
1 T
53901378 CGAAACTTTT
Statistics
Matches: 135, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
135 135 1.00
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (135 bp):
TAGGCCACAACTCGACCTTCTTGCATCAATACGCAACCTAACCCAAGTAGGGAGGCGTCACTATA
AATGACAAACTCTTTGCCAGATTCGGGCTGCACTAAAACTGGAGCTTCTGTCAAATGAGTTTTCA
ATTGA
Found at i:53905719 original size:29 final size:27
Alignment explanation
Indices: 53905685--53905787 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
53905675 TACTCAATCA
*
53905685 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
53905714 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
53905743 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
53905772 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
53905788 ATCTCGTCCC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:53909051 original size:50 final size:50
Alignment explanation
Indices: 53908976--53909207 Score: 211
Period size: 50 Copynumber: 4.6 Consensus size: 50
53908966 CTTGCACGCA
* * * *
53908976 TAGTAGCCTGA-ACTTAGTAGTACACACGTGGCTTATCCATATGATACATG
1 TAGTAGCCT-ACACTTAGTACTACACACGTGACCTATCCATATGATACACG
** * * * * *
53909026 TAGTAGCCTACACTTAGTACTACACACGTGATCGAAGT-TA-ACGGGTACGCA
1 TAGTAGCCTACACTTAGTACTACACACGTGA-CCTA-TCCATA-TGATACACG
* * * * *
53909077 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCT-AGTACACG
1 TAGTAGCCTACACTTAGTACTACACACGTGACCTATCCATATGA-TACACG
* * * *
53909127 TAGTAGCCTACATTTAGTACTGCACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTACACTTAGTACTACACACGTGACCTATCCATATGATACACG
53909177 TAGTAGCCTACACTTAGTACTACACACGTGA
1 TAGTAGCCTACACTTAGTACTACACACGTGA
53909208 TCGAAACTAT
Statistics
Matches: 144, Mismatches: 30, Indels: 16
0.76 0.16 0.08
Matches are distributed among these distances:
49 2 0.01
50 105 0.73
51 36 0.25
52 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTACACTTAGTACTACACACGTGACCTATCCATATGATACACG
Found at i:53909094 original size:51 final size:50
Alignment explanation
Indices: 53909026--53909253 Score: 197
Period size: 50 Copynumber: 4.5 Consensus size: 50
53909016 ATGATACATG
** *
53909026 TAGTAGCCTACACTTAGTACTACACACGTGATCGAAGTTAACGGGTACGCA
1 TAGTAGCCTACACTTAGTACTACACACGTGATCGAA-CCAACGGGTACACA
* * * ** * ** *
53909077 TAGTAGCCTGCACTTAGTACTACACATGCGA-CCTATCAATCTAGTACACG
1 TAGTAGCCTACACTTAGTACTACACACGTGATCGAACCAA-CGGGTACACA
* * * * * * * *
53909127 TAGTAGCCTACATTTAGTACTGCACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTACACTTAGTACTACACACGTGATCGAACCAACGGGTACACA
* * **
53909177 TAGTAGCCTACACTTAGTACTACACACGTGATCGAAACTATCGGGTATGCA
1 TAGTAGCCTACACTTAGTACTACACACGTGATCG-AACCAACGGGTACACA
*
53909228 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTACACTTAGTACTACACA
53909254 TGCGACCTAA
Statistics
Matches: 142, Mismatches: 32, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
49 3 0.02
50 72 0.51
51 67 0.47
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTACACTTAGTACTACACACGTGATCGAACCAACGGGTACACA
Found at i:53909101 original size:101 final size:100
Alignment explanation
Indices: 53908971--53909207 Score: 260
Period size: 101 Copynumber: 2.4 Consensus size: 100
53908961 GCTCTCTTGC
* * * * * *
53908971 ACGCATAGTAGCCTGAACTTAGTAGTACACACGTGGCTTATCCATAT-GATACATGTAGTAGCCT
1 ACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATATAG-TACACGTAGTAGCCT
* ** *
53909035 ACACTTAGTACTACACACGTGATCGAAGTTAACGGGT
65 ACACTTAGTACTACACACGTGACCGAA-CCAACGGAT
* * *
53909072 ACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTAGTACACGTAGTAGCCTA
1 ACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATATAGTACACGTAGTAGCCTA
* * * * *
53909137 CATTTAGTACTGCACACGTGACCTAACCATCTGAT
66 CACTTAGTACTACACACGTGACCGAACCAACGGAT
* * *
53909172 ACACGTAGTAGCCTACACTTAGTACTACACACGTGA
1 ACGCATAGTAGCCTGCACTTAGTACTACACACGTGA
53909208 TCGAAACTAT
Statistics
Matches: 112, Mismatches: 23, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
100 35 0.31
101 76 0.68
102 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (100 bp):
ACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATATAGTACACGTAGTAGCCTA
CACTTAGTACTACACACGTGACCGAACCAACGGAT
Found at i:53909250 original size:151 final size:151
Alignment explanation
Indices: 53908976--53909262 Score: 450
Period size: 151 Copynumber: 1.9 Consensus size: 151
53908966 CTTGCACGCA
* * * * *
53908976 TAGTAGCCTGAACTTAGTAGTACACACGTGGCTTATCCATATGATACATGTAGTAGCCTACACTT
1 TAGTAGCCTGAACTTAGTACTACACACGTGACCTAACCATATGATACACGTAGTAGCCTACACTT
**
53909041 AGTACTACACACGTGATCGAAGTTAACGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGC
66 AGTACTACACACGTGATCGAAACTAACGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGC
53909106 GACCTATCAATCTAGTACACG
131 GACCTATCAATCTAGTACACG
* * *
53909127 TAGTAGCCT-ACATTTAGTACTGCACACGTGACCTAACCATCTGATACACGTAGTAGCCTACACT
1 TAGTAGCCTGA-ACTTAGTACTACACACGTGACCTAACCATATGATACACGTAGTAGCCTACACT
* *
53909191 TAGTACTACACACGTGATCGAAACTATCGGGTATGCATAGTAGCCTGCACTTAGTACTACACATG
65 TAGTACTACACACGTGATCGAAACTAACGGGTACGCATAGTAGCCTGCACTTAGTACTACACATG
53909256 CGACCTA
130 CGACCTA
53909263 AAACTGTCAA
Statistics
Matches: 123, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
150 1 0.01
151 122 0.99
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.26
Consensus pattern (151 bp):
TAGTAGCCTGAACTTAGTACTACACACGTGACCTAACCATATGATACACGTAGTAGCCTACACTT
AGTACTACACACGTGATCGAAACTAACGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGC
GACCTATCAATCTAGTACACG
Found at i:53911116 original size:29 final size:29
Alignment explanation
Indices: 53911081--53911154 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
53911071 GTTGTGAGAT
* *
53911081 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
53911110 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
53911139 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
53911155 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:53911195 original size:2 final size:2
Alignment explanation
Indices: 53911190--53911220 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
53911180 GCGAACCCAC
53911190 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
53911221 TTATCAATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:53914553 original size:40 final size:40
Alignment explanation
Indices: 53914508--53914674 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
53914498 CGGAATATAA
53914508 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
53914548 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
53914588 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
53914628 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
53914667 CCGGATAT
1 CCGGATAT
53914675 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:53914658 original size:80 final size:79
Alignment explanation
Indices: 53914524--53914674 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
53914514 ATAATCACGT
*
53914524 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
53914589 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
53914604 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
53914667 CCGGATAT
64 CCGGATAT
53914675 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:53922575 original size:40 final size:40
Alignment explanation
Indices: 53922530--53922696 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
53922520 CGGAATATAA
53922530 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
53922570 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
53922610 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
53922650 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
53922689 CCGGATAT
1 CCGGATAT
53922697 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:53922680 original size:80 final size:79
Alignment explanation
Indices: 53922546--53922696 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
53922536 ATAATCACGT
*
53922546 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
53922611 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
53922626 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
53922689 CCGGATAT
64 CCGGATAT
53922697 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:53929092 original size:40 final size:39
Alignment explanation
Indices: 53929048--53929146 Score: 117
Period size: 40 Copynumber: 2.5 Consensus size: 39
53929038 GAAATTATAA
* **
53929048 CCGGGTTAAGACCCGAAGGCATTCGTGCGAGTCATTCTAT
1 CCGGGTTAAGACCCGAAGGCATTCGTGC-AATCATGATAT
* * *
53929088 CCGGGCTAAGACCCGAAGGCATTTGTGCAATCGTGATAT
1 CCGGGTTAAGACCCGAAGGCATTCGTGCAATCATGATAT
* *
53929127 CCGGGTTAAGTCCCGTAGGC
1 CCGGGTTAAGACCCGAAGGC
53929147 CTTGGTGCCG
Statistics
Matches: 50, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
39 24 0.48
40 26 0.52
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.23
Consensus pattern (39 bp):
CCGGGTTAAGACCCGAAGGCATTCGTGCAATCATGATAT
Found at i:53936408 original size:40 final size:40
Alignment explanation
Indices: 53936302--53936485 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 40
53936292 ATGCTGGAAT
* * * * * **
53936302 TATAACCGGGTTAAGACCCGAAGGCAATGGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
*
53936342 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * *
53936382 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATC-G
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * * * * *
53936420 TGATATCCGGGTTAAGTCCCGTAGGCCTTGGTGCGGGTTAC
1 T-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * *
53936461 CATATCTGGGCTATGTCCCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGC
53936486 GTTTGAACGA
Statistics
Matches: 114, Mismatches: 27, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
38 1 0.01
39 29 0.25
40 84 0.74
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.24
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
Found at i:53936426 original size:79 final size:80
Alignment explanation
Indices: 53936307--53936454 Score: 183
Period size: 79 Copynumber: 1.9 Consensus size: 80
53936297 GGAATTATAA
* * *
53936307 CCGGGTTAAGACCCGAAGGCAATGGTGCTAGTGGCTATATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCAATGGTGCTAATCGCTATATCCGGGCTAAGACCCGAAGGCATTCG
53936372 TGCGAGTCATTCTAT
66 TGCGAGTCATTCTAT
* * * * * * *
53936387 CCGGGCTAAGACCCGAAGGCATTTGTGC-AATCG-TGATATCCGGGTTAAGTCCCGTAGGCCTTG
1 CCGGGCTAAGACCCGAAGGCAATGGTGCTAATCGCT-ATATCCGGGCTAAGACCCGAAGGCATTC
53936450 GTGCG
65 GTGCG
53936455 GGTTACCATA
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
78 1 0.02
79 31 0.54
80 25 0.44
ACGTcount: A:0.22, C:0.24, G:0.31, T:0.23
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCAATGGTGCTAATCGCTATATCCGGGCTAAGACCCGAAGGCATTCG
TGCGAGTCATTCTAT
Found at i:53940217 original size:29 final size:29
Alignment explanation
Indices: 53940182--53940255 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
53940172 GTTGTGAGAT
* *
53940182 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
53940211 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
53940240 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
53940256 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:53952573 original size:21 final size:21
Alignment explanation
Indices: 53952547--53952590 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
53952537 ACACACTCAG
53952547 CTTAATTGAGCT-ATTAATAAA
1 CTTAATTGAGCTAATTAA-AAA
53952568 CTTAATTGAGCTAATTAAAAA
1 CTTAATTGAGCTAATTAAAAA
53952589 CT
1 CT
53952591 ACAAGACTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.36
Consensus pattern (21 bp):
CTTAATTGAGCTAATTAAAAA
Found at i:53958782 original size:46 final size:46
Alignment explanation
Indices: 53958732--53958907 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
53958722 TGGTTGAGCA
*
53958732 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
53958778 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
53958825 ACCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
53958871 CCCGAGCTCTTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
53958908 GCGGATTACA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 62 0.58
47 28 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:53969587 original size:28 final size:28
Alignment explanation
Indices: 53969522--53969622 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
53969512 ATAGTGAATC
*
53969522 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
53969551 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
53969579 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
53969609 CGCACACTTAGTGC
1 CGCACACTTAGTGC
53969623 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:53978886 original size:40 final size:40
Alignment explanation
Indices: 53978778--53978947 Score: 225
Period size: 40 Copynumber: 4.2 Consensus size: 40
53978768 CGGGATTTAA
* * * * *
53978778 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
53978818 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
53978858 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
53978898 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
53978938 CCGGATATAT
1 CCGGATATAT
53978948 TTCCAATGTT
Statistics
Matches: 113, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
39 1 0.01
40 112 0.99
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:53985867 original size:30 final size:30
Alignment explanation
Indices: 53985822--53985881 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
53985812 ATTTAATACG
* *
53985822 AACTTTGGCAAAATTATATTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* * *
53985852 AACTTTTGCATAATTACACTTTTGTCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
53985882 GGCTCGGGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.28, C:0.22, G:0.08, T:0.42
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:53986926 original size:19 final size:18
Alignment explanation
Indices: 53986897--53986933 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
53986887 ATTATGTATG
*
53986897 CCATTTTGTATTGACTTT
1 CCATTTTGTATTAACTTT
53986915 CCATTCTTGTATTAACTTT
1 CCATT-TTGTATTAACTTT
53986934 AGTTATTTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.19, C:0.19, G:0.08, T:0.54
Consensus pattern (18 bp):
CCATTTTGTATTAACTTT
Found at i:53989480 original size:46 final size:46
Alignment explanation
Indices: 53989430--53989602 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
53989420 TGGTTGAGCA
*
53989430 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
53989476 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
53989523 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
53989569 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
53989603 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:53989586 original size:93 final size:93
Alignment explanation
Indices: 53989427--53989597 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
53989417 GGATGGTTGA
* *
53989427 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
53989492 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
53989520 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
53989585 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
53989598 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:53989864 original size:19 final size:20
Alignment explanation
Indices: 53989827--53989864 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
53989817 ATAAGGTGGT
53989827 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
53989847 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
53989865 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:53997059 original size:46 final size:46
Alignment explanation
Indices: 53997009--53997134 Score: 198
Period size: 46 Copynumber: 2.7 Consensus size: 46
53996999 TGGTTGAGCA
* *
53997009 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAACG
* *
53997055 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATACGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAACG
* *
53997101 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
53997135 GGGCGGGTTA
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAACG
Found at i:53997395 original size:19 final size:20
Alignment explanation
Indices: 53997358--53997395 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
53997348 ATAAGGTGGT
53997358 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
53997378 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
53997396 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:54000104 original size:11 final size:11
Alignment explanation
Indices: 54000079--54000120 Score: 50
Period size: 12 Copynumber: 3.8 Consensus size: 11
54000069 TTTTTCATTT
*
54000079 TATTTCTAG-G
1 TATTTCTGGTG
54000089 TATTTCTGGTG
1 TATTTCTGGTG
*
54000100 TATTTTCAGGTG
1 TA-TTTCTGGTG
54000112 TATTTCTGG
1 TATTTCTGG
54000121 GTCTGAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
10 8 0.30
11 9 0.33
12 10 0.37
ACGTcount: A:0.14, C:0.10, G:0.24, T:0.52
Consensus pattern (11 bp):
TATTTCTGGTG
Found at i:54000746 original size:20 final size:20
Alignment explanation
Indices: 54000704--54000756 Score: 65
Period size: 19 Copynumber: 2.7 Consensus size: 20
54000694 AATAATTTAT
*
54000704 CAAAATTTCT-AAGGTTAAA
1 CAAAATTTCTAAAGCTTAAA
*
54000723 CAAAAATTTCTAAAGCTT-AC
1 C-AAAATTTCTAAAGCTTAAA
54000743 CAAAATTTCTAAAG
1 CAAAATTTCTAAAG
54000757 ATTTACTAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 14 0.47
20 11 0.37
21 5 0.17
ACGTcount: A:0.47, C:0.15, G:0.08, T:0.30
Consensus pattern (20 bp):
CAAAATTTCTAAAGCTTAAA
Found at i:54000762 original size:20 final size:20
Alignment explanation
Indices: 54000680--54000762 Score: 64
Period size: 20 Copynumber: 4.2 Consensus size: 20
54000670 TACTAAGTAG
* *
54000680 TTACCAAAGTTGCTAATA-AT
1 TTACCAAAATTTCTAA-AGAT
* *
54000700 TTATCAAAATTTCT-AAGGT
1 TTACCAAAATTTCTAAAGAT
* * *
54000719 TAAACAAAAATTTCTAAAG-C
1 T-TACCAAAATTTCTAAAGAT
54000739 TTACCAAAATTTCTAAAGAT
1 TTACCAAAATTTCTAAAGAT
54000759 TTAC
1 TTAC
54000763 TAGTATCTCT
Statistics
Matches: 48, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
18 1 0.02
19 18 0.38
20 26 0.54
21 3 0.06
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.35
Consensus pattern (20 bp):
TTACCAAAATTTCTAAAGAT
Found at i:54000915 original size:20 final size:20
Alignment explanation
Indices: 54000900--54000938 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
54000890 TATAAGGTTA
54000900 TAACAAAATATCTAAGGATT
1 TAACAAAATATCTAAGGATT
* *
54000920 TACCAAAATTTCTAAGGAT
1 TAACAAAATATCTAAGGAT
54000939 ATTTTGGTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.46, C:0.13, G:0.10, T:0.31
Consensus pattern (20 bp):
TAACAAAATATCTAAGGATT
Found at i:54003055 original size:44 final size:44
Alignment explanation
Indices: 54002992--54003080 Score: 153
Period size: 44 Copynumber: 2.0 Consensus size: 44
54002982 CTCTGTTTTC
54002992 AGTTTACCACTTAAACTCTGATTAGTGTAGGTTATTTTAAAATT
1 AGTTTACCACTTAAACTCTGATTAGTGTAGGTTATTTTAAAATT
*
54003036 AGTTT-CCTACTTAAACTCTGATTAGTGTAGGTTATTTTAACATT
1 AGTTTACC-ACTTAAACTCTGATTAGTGTAGGTTATTTTAAAATT
54003080 A
1 A
54003081 TTTGACCTAG
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
43 2 0.05
44 41 0.95
ACGTcount: A:0.30, C:0.12, G:0.13, T:0.44
Consensus pattern (44 bp):
AGTTTACCACTTAAACTCTGATTAGTGTAGGTTATTTTAAAATT
Found at i:54003943 original size:120 final size:118
Alignment explanation
Indices: 54003772--54004065 Score: 294
Period size: 120 Copynumber: 2.5 Consensus size: 118
54003762 TCGGTATGCC
* * * * *
54003772 AAAATGTTGAGTTGATCAAGTTT-GAGACGCTAAGGAAATCTTAAGAAATTTTGGTG-AGCTCTC
1 AAAATGTTGAGTTGATCGAGTTTAG-GACACTAAGGAAATTTTAA-ATATTTTGGTGAATC-CTC
* * **
54003835 AGAAATATTAGTATAAA-CTTAGAAA-TTTTGGAAAAGCCTT-GAAATTTTTGTTATGTT
63 AAAAATATT-G-ATAAACCTT-GAAAGTTTTGCAAAAGCCTTGGAAA-TTTTGGCATGTT
* * * *
54003892 AAAATGTTGAGTTGATCGAGTTTAGGGCACTAAAGAAATATTTAAATATTTTGATGAATCCTTAA
1 AAAATGTTGAGTTGATCGAGTTTAGGACACTAAGGAAAT-TTTAAATATTTTGGTGAATCCTCAA
*
54003957 AAATATTGATAAATCCTTGAAAGTTTTGCTAAAGCCTTGGAAATTTTGGCATGTT
65 AAATATTGATAAA-CCTTGAAAGTTTTGCAAAAGCCTTGGAAATTTTGGCATGTT
* * * *
54004012 AAAATGTTGAATTGATTGAGTTTAAGACAC-AAGGAAATTATTAGATATTTTGGT
1 AAAATGTTGAGTTGATCGAGTTTAGGACACTAAGGAAATT-TTAAATATTTTGGT
54004066 AAACCTTTTT
Statistics
Matches: 145, Mismatches: 21, Indels: 17
0.79 0.11 0.09
Matches are distributed among these distances:
118 6 0.04
119 24 0.17
120 104 0.72
121 11 0.08
ACGTcount: A:0.36, C:0.08, G:0.19, T:0.36
Consensus pattern (118 bp):
AAAATGTTGAGTTGATCGAGTTTAGGACACTAAGGAAATTTTAAATATTTTGGTGAATCCTCAAA
AATATTGATAAACCTTGAAAGTTTTGCAAAAGCCTTGGAAATTTTGGCATGTT
Found at i:54003989 original size:20 final size:20
Alignment explanation
Indices: 54003966--54004004 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
54003956 AAAATATTGA
*
54003966 TAAATCCTT-GAAAGTTTTGC
1 TAAAGCCTTGGAAA-TTTTGC
54003986 TAAAGCCTTGGAAATTTTG
1 TAAAGCCTTGGAAATTTTG
54004005 GCATGTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.38
Consensus pattern (20 bp):
TAAAGCCTTGGAAATTTTGC
Found at i:54006972 original size:40 final size:39
Alignment explanation
Indices: 54006927--54007056 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
54006917 CGGAATATAA
54006927 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
54006967 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
54007007 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
54007047 CCGGATATAA
1 CCGGATATAA
54007057 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:54007071 original size:40 final size:40
Alignment explanation
Indices: 54006943--54007093 Score: 146
Period size: 40 Copynumber: 3.8 Consensus size: 40
54006933 ATAACCATGT
* * *
54006943 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
54006983 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
54007023 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* * *
54007063 GCATAATTGTCTT-GGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
54007094 CATTCAATTT
Statistics
Matches: 90, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
39 18 0.20
40 70 0.78
41 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.25, T:0.27
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:54029551 original size:11 final size:12
Alignment explanation
Indices: 54029525--54029558 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
54029515 TAGGTTTCCA
54029525 AAAATGGAAATG
1 AAAATGGAAATG
* *
54029537 GAAATGAAAATG
1 AAAATGGAAATG
54029549 AAAATGGAAA
1 AAAATGGAAA
54029559 CTTGCAATCC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.24, T:0.15
Consensus pattern (12 bp):
AAAATGGAAATG
Found at i:54040200 original size:50 final size:50
Alignment explanation
Indices: 54040125--54040224 Score: 173
Period size: 50 Copynumber: 2.0 Consensus size: 50
54040115 TACTAGAAGA
* * *
54040125 AAATAAATCAATGACAAAAATCTCATTTAATAGATAGAAGATTAACTCGC
1 AAATAAATCAACGACAAAAATCTCATTTAACAGACAGAAGATTAACTCGC
54040175 AAATAAATCAACGACAAAAATCTCATTTAACAGACAGAAGATTAACTCGC
1 AAATAAATCAACGACAAAAATCTCATTTAACAGACAGAAGATTAACTCGC
54040225 TTCAGTGGTT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.50, C:0.17, G:0.10, T:0.23
Consensus pattern (50 bp):
AAATAAATCAACGACAAAAATCTCATTTAACAGACAGAAGATTAACTCGC
Found at i:54049836 original size:14 final size:14
Alignment explanation
Indices: 54049817--54049851 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
54049807 TTCAATAATA
54049817 TTGATTTGAAAATT
1 TTGATTTGAAAATT
54049831 TTGATTTGAAAATT
1 TTGATTTGAAAATT
54049845 TTGATTT
1 TTGATTT
54049852 ACTCACAGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.54
Consensus pattern (14 bp):
TTGATTTGAAAATT
Found at i:54058358 original size:29 final size:29
Alignment explanation
Indices: 54058325--54058485 Score: 214
Period size: 29 Copynumber: 5.6 Consensus size: 29
54058315 GTGACGAGAT
54058325 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
54058354 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* *
54058383 TGGCACTGAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
54058412 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
54058441 CGGCACTGGGTGTGCGAGCTCGAAGGCTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
54058470 TGGCACTATGTGTGCG
1 TGGCACTAAGTGTGCG
54058486 GGCTTAAATC
Statistics
Matches: 117, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 117 1.00
ACGTcount: A:0.25, C:0.16, G:0.33, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:54058505 original size:87 final size:87
Alignment explanation
Indices: 54058325--54058513 Score: 211
Period size: 87 Copynumber: 2.2 Consensus size: 87
54058315 GTGACGAGAT
* * * * *
54058325 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCGTGCTGGAAATATATGGCACT
1 TGGCACTAAGTGTGCATGCTGGAAATATACGGCACTAAGTGTGCGAGCTCGAAAGATATGGCACT
* *
54058390 GAGTGTGCATGCTGGAAATATA
66 GAGTGTGCAGGCTGGAAATACA
** * *
54058412 TGGCACTAAGTGTGCATGCTGGAAATATACGGCACTGGGTGTGCGAGCTCGAAGGCTATGGCACT
1 TGGCACTAAGTGTGCATGCTGGAAATATACGGCACTAAGTGTGCGAGCTCGAAAGATATGGCACT
* * *
54058477 -ATGTGTGCGGGCT-TAAATCGCA
66 GA-GTGTGCAGGCTGGAAAT-ACA
*
54058499 TTGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
54058514 GAAATCGAGT
Statistics
Matches: 85, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
86 5 0.06
87 80 0.94
ACGTcount: A:0.25, C:0.17, G:0.32, T:0.26
Consensus pattern (87 bp):
TGGCACTAAGTGTGCATGCTGGAAATATACGGCACTAAGTGTGCGAGCTCGAAAGATATGGCACT
GAGTGTGCAGGCTGGAAATACA
Found at i:54060776 original size:15 final size:14
Alignment explanation
Indices: 54060758--54060800 Score: 61
Period size: 13 Copynumber: 3.1 Consensus size: 14
54060748 TTTTTCCATT
54060758 TTCTTTTTCTTGTTC
1 TTCTTTTTCTT-TTC
54060773 TTCTTTTTCTTTTC
1 TTCTTTTTCTTTTC
*
54060787 -TCATTTTCTTTTC
1 TTCTTTTTCTTTTC
54060800 T
1 T
54060801 CTCTCTTTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 12 0.46
14 3 0.12
15 11 0.42
ACGTcount: A:0.02, C:0.21, G:0.02, T:0.74
Consensus pattern (14 bp):
TTCTTTTTCTTTTC
Found at i:54060871 original size:6 final size:6
Alignment explanation
Indices: 54060756--54060864 Score: 53
Period size: 6 Copynumber: 17.3 Consensus size: 6
54060746 TTTTTTTCCA
* * *
54060756 TTTTCT TTTTCTT GTTCTTCT TTTTCT TTTCTCA TTTTC- TTTTCT CTCTCT
1 TTTTCT TTTTC-T -TT-TTCT TTTTCT TTT-TCT TTTTCT TTTTCT TTTTCT
* * * * *
54060807 TTTGCT ATTTT-T GTGTTCT TTTTCT CATTTCT CATTTCT TTTTCA TTTTC-
1 TTTTCT -TTTTCT -TTTTCT TTTTCT -TTTTCT -TTTTCT TTTTCT TTTTCT
54060857 TTTTCT TT
1 TTTTCT TT
54060865 CTTTTTCAAA
Statistics
Matches: 81, Mismatches: 13, Indels: 18
0.72 0.12 0.16
Matches are distributed among these distances:
5 10 0.12
6 41 0.51
7 24 0.30
8 3 0.04
9 3 0.04
ACGTcount: A:0.05, C:0.20, G:0.04, T:0.72
Consensus pattern (6 bp):
TTTTCT
Found at i:54062257 original size:20 final size:20
Alignment explanation
Indices: 54062219--54062266 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
54062209 TAAATTCTAA
* **
54062219 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
54062239 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
54062259 AAA-ATAAA
1 AAAGATAAA
54062267 ATCCTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:54062310 original size:15 final size:15
Alignment explanation
Indices: 54062290--54062319 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
54062280 ATAATCTTAA
*
54062290 TAATTATCTTAATAT
1 TAATTATCCTAATAT
54062305 TAATTATCCTAATAT
1 TAATTATCCTAATAT
54062320 AAGTAAAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:54063609 original size:29 final size:28
Alignment explanation
Indices: 54063567--54063624 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 28
54063557 GTGAACGAAC
*
54063567 TTAAACTTCAAGAAAGATTCGATACTATA
1 TTAAACTTCAAGAAAGATTC-AAACTATA
54063596 TTAAACTTCAAGAAAGATTCAAACTATA
1 TTAAACTTCAAGAAAGATTCAAACTATA
54063624 T
1 T
54063625 CGAGTATCAC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 8 0.29
29 20 0.71
ACGTcount: A:0.47, C:0.14, G:0.09, T:0.31
Consensus pattern (28 bp):
TTAAACTTCAAGAAAGATTCAAACTATA
Found at i:54065031 original size:28 final size:28
Alignment explanation
Indices: 54064999--54065088 Score: 69
Period size: 28 Copynumber: 3.2 Consensus size: 28
54064989 CGTCATTTTG
*
54064999 ATATTGCTGGTGAGGTGCCTTATATGGC
1 ATATTGCTGATGAGGTGCCTTATATGGC
* ** **
54065027 ATATTGGTTGAATGATATTGGATTAT-T-G-
1 ATATT-GCTG-ATGA-GGTGCCTTATATGGC
*
54065055 ATATTGCTGTTGAGGTGCCTTATATGGC
1 ATATTGCTGATGAGGTGCCTTATATGGC
54065083 ATATTG
1 ATATTG
54065089 GTTGAATGAT
Statistics
Matches: 44, Mismatches: 12, Indels: 12
0.65 0.18 0.18
Matches are distributed among these distances:
25 6 0.14
26 4 0.09
27 4 0.09
28 16 0.36
29 4 0.09
30 4 0.09
31 6 0.14
ACGTcount: A:0.22, C:0.09, G:0.28, T:0.41
Consensus pattern (28 bp):
ATATTGCTGATGAGGTGCCTTATATGGC
Found at i:54065082 original size:56 final size:56
Alignment explanation
Indices: 54064996--54065115 Score: 215
Period size: 56 Copynumber: 2.2 Consensus size: 56
54064986 TCACGTCATT
*
54064996 TTGATATTGCTGGTGAGGTGCCTTATATGGCATATTGGTTGAATGATATTGGATTA
1 TTGATATTGCTGGTGAGGTGCCTTATATGGCATATTGGTTGAATGATATTGGACTA
*
54065052 TTGATATTGCTGTTGAGGTGCCTTATATGGCATATTGGTTGAATGATATTGGACTA
1 TTGATATTGCTGGTGAGGTGCCTTATATGGCATATTGGTTGAATGATATTGGACTA
54065108 TTGA-ATTG
1 TTGATATTG
54065116 GCCATTTCAT
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
55 4 0.06
56 58 0.94
ACGTcount: A:0.23, C:0.07, G:0.28, T:0.42
Consensus pattern (56 bp):
TTGATATTGCTGGTGAGGTGCCTTATATGGCATATTGGTTGAATGATATTGGACTA
Found at i:54070922 original size:21 final size:22
Alignment explanation
Indices: 54070893--54070933 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
54070883 TCGTGTTAGG
*
54070893 GACTATATGATTGTATTTGAAT
1 GACTATATGATTGGATTTGAAT
*
54070915 GACT-TATGTTTGGATTTGA
1 GACTATATGATTGGATTTGA
54070934 TAAATGCATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.27, C:0.05, G:0.22, T:0.46
Consensus pattern (22 bp):
GACTATATGATTGGATTTGAAT
Found at i:54074125 original size:42 final size:42
Alignment explanation
Indices: 54074015--54074178 Score: 195
Period size: 42 Copynumber: 3.9 Consensus size: 42
54074005 TACCGTACCA
* ** * * *
54074015 ATGCCA-ATCCCATATATGGTCTTACTTGTAATATCAGATTG
1 ATGCCATATCCCAGATATGGTCTTACACGTAGTCTCATATTG
* * * * *
54074056 ATGCCAATAGCCCAGCTACGGTCTTACACGAAGTCTCATATTT
1 ATGCC-ATATCCCAGATATGGTCTTACACGTAGTCTCATATTG
* *
54074099 ATGCCATATCCTAGATATGGTCTTACACGTAGCCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACACGTAGTCTCATATTG
54074141 ATGCCATATCCCAGATATGGTCTTACACGTAGTCTCAT
1 ATGCCATATCCCAGATATGGTCTTACACGTAGTCTCAT
54074179 TAACCCTAAT
Statistics
Matches: 101, Mismatches: 20, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
41 5 0.05
42 67 0.66
43 29 0.29
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGTAGTCTCATATTG
Found at i:54079455 original size:40 final size:40
Alignment explanation
Indices: 54079364--54079543 Score: 222
Period size: 40 Copynumber: 4.5 Consensus size: 40
54079354 GATGTCCAGG
* * * *
54079364 CTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCTGGA
1 CTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGA
*
54079404 CTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCCGGG
1 CTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGA
* *
54079444 TTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGA
1 CTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGA
* *
54079484 TTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGG
1 CTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGA
*
54079524 CTATGTCCCGAAGGCATTTG
1 CTAAGTCCCGAAGGCATTTG
54079544 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 12, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
39 1 0.01
40 113 0.91
41 10 0.08
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
CTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGA
Found at i:54088954 original size:50 final size:50
Alignment explanation
Indices: 54088770--54088964 Score: 185
Period size: 50 Copynumber: 3.8 Consensus size: 50
54088760 ATTGTGAGAA
* * * * *
54088770 CACATGTGTAGTACTATGTGCAGGCTACTGTGTGTTTAAGATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTATCAGATGG--TTAGGT
* * * * * * *
54088822 CACATGTGTAGTACTAAGTGTAGGCTATTATGCGTACCCGACAGCTTCA-AT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTATCAGA-TGGTT-AGGT
* * * *
54088873 CACGTGTGTAGTACTAAGTTCAAGCTACTATGTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTATCAGATGGTTAGGT
* *
54088923 TACATCTGTAGTACTAAGTGCAGGCTACTATGCGTATCAGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTATCAGAT
54088965 AACTTCGGTT
Statistics
Matches: 111, Mismatches: 29, Indels: 8
0.75 0.20 0.05
Matches are distributed among these distances:
49 1 0.01
50 40 0.36
51 36 0.32
52 33 0.30
53 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTATCAGATGGTTAGGT
Found at i:54088955 original size:101 final size:102
Alignment explanation
Indices: 54088774--54088958 Score: 264
Period size: 101 Copynumber: 1.8 Consensus size: 102
54088764 TGAGAACACA
* * * * *
54088774 TGTGTAGTACTATGTGCAGGCTACTGTGTGTTTAAGATGGTTTTAGGTCACATGTGTAGTACTAA
1 TGTGTAGTACTAAGTGCAAGCTACTATGTGTATAAGATGG-TTTAGGTCACATCTGTAGTACTAA
* *
54088839 GTGTAGGCTATTATGCGTACCCGACAGCTTCAATCACG
65 GTGCAGGCTACTATGCGTACCCGACAGCTTCAATCACG
* * *
54088877 TGTGTAGTACTAAGTTCAAGCTACTATGTGTATCAGATGG-TTAGGTTACATCTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAAGCTACTATGTGTATAAGATGGTTTAGGTCACATCTGTAGTACTAAG
54088941 TGCAGGCTACTATGCGTA
66 TGCAGGCTACTATGCGTA
54088959 TCAGATAACT
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
101 38 0.53
103 34 0.47
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (102 bp):
TGTGTAGTACTAAGTGCAAGCTACTATGTGTATAAGATGGTTTAGGTCACATCTGTAGTACTAAG
TGCAGGCTACTATGCGTACCCGACAGCTTCAATCACG
Found at i:54089184 original size:16 final size:15
Alignment explanation
Indices: 54089163--54089192 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
54089153 GAATGGAGTA
54089163 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
54089179 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
54089193 TAAAACAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:54098321 original size:16 final size:15
Alignment explanation
Indices: 54098302--54098335 Score: 59
Period size: 15 Copynumber: 2.2 Consensus size: 15
54098292 TGACTTTTCC
54098302 AAAACCCTAAAACCCT
1 AAAACCCT-AAACCCT
54098318 AAAACCCTAAACCCT
1 AAAACCCTAAACCCT
54098333 AAA
1 AAA
54098336 CCCAAAAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.53, C:0.35, G:0.00, T:0.12
Consensus pattern (15 bp):
AAAACCCTAAACCCT
Found at i:54098338 original size:7 final size:8
Alignment explanation
Indices: 54098302--54098335 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
54098292 TGACTTTTCC
54098302 AAAACCCT
1 AAAACCCT
54098310 AAAACCCT
1 AAAACCCT
54098318 AAAACCCT
1 AAAACCCT
54098326 -AAACCCT
1 AAAACCCT
54098333 AAA
1 AAA
54098336 CCCAAAAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 7 0.28
8 18 0.72
ACGTcount: A:0.53, C:0.35, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAACCCT
Found at i:54104163 original size:29 final size:29
Alignment explanation
Indices: 54104102--54104178 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
54104092 GAGTTATACC
* * * *
54104102 GATTTGGATTCAGACCATGCATATCGGAA
1 GATTTGGCTTCGGGCCATGCATATCGCAA
54104131 GATTTGGCTTCGGGCCATGCATATC-CAA
1 GATTTGGCTTCGGGCCATGCATATCGCAA
54104159 TGATTTGGCTTCGGGCCATG
1 -GATTTGGCTTCGGGCCATG
54104179 ATAATTGTTC
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
28 2 0.05
29 41 0.95
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (29 bp):
GATTTGGCTTCGGGCCATGCATATCGCAA
Found at i:54111076 original size:46 final size:45
Alignment explanation
Indices: 54111026--54111198 Score: 179
Period size: 46 Copynumber: 3.8 Consensus size: 45
54111016 TGGTTGAGCA
* *
54111026 TCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTACGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATGCAAACG
* * * *
54111072 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCAA--A--CG
* * *
54111119 TCCGAACTCGTTGAGTTGAGTCCGATTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATGCAAACG
* *
54111165 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
54111199 TGGGCGGGTT
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 59 0.57
47 28 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCAAACG
Found at i:54111182 original size:93 final size:93
Alignment explanation
Indices: 54111023--54111194 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
54111013 GGATGGTTGA
* *
54111023 GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTACGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTCACGGATGCAAACGTCCGAACTCGTTGAGT
54111088 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * * *
54111116 GCATCCGAACTCGTTGAGTTGAGTCCGATTTCACTCATGGATGCGAACGTCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTCACGGATGCAAACGTCCGAACTCGTTGAGT
54111181 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
54111195 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTCACGGATGCAAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:54114033 original size:40 final size:40
Alignment explanation
Indices: 54113984--54114173 Score: 147
Period size: 40 Copynumber: 4.8 Consensus size: 40
54113974 CAGAATTTAA
* * *
54113984 CCGGATATAGCT-ACTCATTCGAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCATACAAATGCCTTCGGGACATAAC
* * *
54114024 CCGGTTATAGTAACTCGTACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCATACAAATGCCTTCGGGACATAAC
* ** * * *
54114064 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCATACAAATGCCTTCGGGACATAAC
** * **
54114103 CCGGGAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CC-GGATATAGTAACTCATACAAATGCCTTCGGGA-CATAAC
**
54114143 CCGGAT-TAGTAACTCGCACAAATGCCTTCGG
1 CCGGATATAGTAACTCATACAAATGCCTTCGG
54114174 ATCTTAGTCC
Statistics
Matches: 132, Mismatches: 13, Indels: 10
0.85 0.08 0.06
Matches are distributed among these distances:
38 2 0.02
39 57 0.43
40 73 0.55
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCATACAAATGCCTTCGGGACATAAC
Found at i:54114105 original size:79 final size:78
Alignment explanation
Indices: 54114005--54114225 Score: 261
Period size: 79 Copynumber: 2.8 Consensus size: 78
54113995 TACTCATTCG
* * *
54114005 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGTACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGG-CTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-
*
54114070 TTAGTAACTCGCACC
64 TTAGTAACTCGCACA
* *
54114085 AATGCCTTCGGGCTTAGCCCGG-GATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGGA
1 AATGCCTTCGGGCTTAGCCCGGTTA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGA
54114148 TTAGTAACTCGCACA
64 TTAGTAACTCGCACA
* * * *
54114163 AATGCCTTCGGATCTTAGTCCGGATT-TAGTAACTTAGCACAAA-GCCTTCGGTACTTAGCCCGG
1 AATGCCTTCGG-GCTTAGCCCGG-TTATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCGG
54114226 TCATCATTCG
Statistics
Matches: 122, Mismatches: 12, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
78 29 0.24
79 71 0.58
80 22 0.18
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
AATGCCTTCGGGCTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT
AGTAACTCGCACA
Found at i:54114220 original size:40 final size:39
Alignment explanation
Indices: 54114005--54114225 Score: 270
Period size: 40 Copynumber: 5.6 Consensus size: 39
54113995 TACTCATTCG
* *
54114005 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGTACA
1 AATGCCTTC-GGACTTAGCCCGGATT-TAGTAACTCGCACA
* *
54114045 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
1 AATGCCTTC-GGACTTAGCCCGGATTTAGTAACTCGCACA
*
54114085 AATGCCTTCGGGCTTAGCCCGGGA-TTAGTAACTCGCACA
1 AATGCCTTCGGACTTAGCCC-GGATTTAGTAACTCGCACA
*
54114124 AATGCCTTCGGATCTTAGTCCGGA-TTAGTAACTCGCACA
1 AATGCCTTCGGA-CTTAGCCCGGATTTAGTAACTCGCACA
* *
54114163 AATGCCTTCGGATCTTAGTCCGGATTTAGTAACTTAGCACA
1 AATGCCTTCGGA-CTTAGCCCGGATTTAGTAAC-TCGCACA
54114204 AA-GCCTTCGGTACTTAGCCCGG
1 AATGCCTTCGG-ACTTAGCCCGG
54114226 TCATCATTCG
Statistics
Matches: 164, Mismatches: 11, Indels: 12
0.88 0.06 0.06
Matches are distributed among these distances:
39 76 0.46
40 77 0.47
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCACA
Found at i:54117567 original size:15 final size:15
Alignment explanation
Indices: 54117547--54117602 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
54117537 GTATCTTGGG
54117547 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
54117562 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
54117577 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
54117592 TTTCTTTATTC
1 TTTCTTTATTC
54117603 AGTTTCCTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
14 2 0.05
15 33 0.89
16 2 0.05
ACGTcount: A:0.12, C:0.16, G:0.11, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:54119586 original size:46 final size:46
Alignment explanation
Indices: 54119536--54119711 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
54119526 TGGTTGAGCA
*
54119536 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * * *
54119582 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
* * *
54119627 CATCCGAACTCATTGAGTTGAGTCCGATTTCACTCATGGATGCGAATG
1 --TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * *
54119675 CCCGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGG
54119712 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
45 4 0.04
46 61 0.57
47 27 0.25
48 4 0.04
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:54119692 original size:93 final size:93
Alignment explanation
Indices: 54119533--54119704 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
54119523 GGATGGTTGA
* * * *
54119533 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTCATGGATGCAAATGCCCGAACTCATTGAGT
54119598 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
54119626 GCATCCGAACTCATTGAGTTGAGTCCGATTTCACTCATGGATGCGAATGCCCGAGCTCATTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTCATGGATGCAAATGCCCGAACTCATTGAGT
54119691 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
54119705 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTCATGGATGCAAATGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:54122544 original size:21 final size:21
Alignment explanation
Indices: 54122518--54122563 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
54122508 AATAGATTTG
54122518 GATACTAGTGCCTTGTTATTA
1 GATACTAGTGCCTTGTTATTA
54122539 GATACTAGTGCCTTGTTATTA
1 GATACTAGTGCCTTGTTATTA
54122560 GATA
1 GATA
54122564 ATAAGTTGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.26, C:0.13, G:0.20, T:0.41
Consensus pattern (21 bp):
GATACTAGTGCCTTGTTATTA
Found at i:54122702 original size:29 final size:30
Alignment explanation
Indices: 54122620--54122695 Score: 120
Period size: 29 Copynumber: 2.6 Consensus size: 30
54122610 ATTTATACCA
* *
54122620 ATTTGGCTTCGGGGCATGCATA-TCAGATG
1 ATTTGGCTTCGGGCCATGCATATTGAGATG
54122649 ATTTGGCTTCGGGCCATGCATATTGA-ATG
1 ATTTGGCTTCGGGCCATGCATATTGAGATG
54122678 ATTTGGCTTCGGGCCATG
1 ATTTGGCTTCGGGCCATG
54122696 ATAATTGTTC
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
29 42 0.95
30 2 0.05
ACGTcount: A:0.18, C:0.18, G:0.30, T:0.33
Consensus pattern (30 bp):
ATTTGGCTTCGGGCCATGCATATTGAGATG
Found at i:54128731 original size:17 final size:19
Alignment explanation
Indices: 54128698--54128747 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
54128688 AATTGAATCC
*
54128698 TAATT-AAATTAAGTT-AA
1 TAATTAAAATTTAGTTAAA
54128715 TAATTAAAATTTA-TTAAAA
1 TAATTAAAATTTAGTT-AAA
54128734 TAATTAAAATTTAG
1 TAATTAAAATTTAG
54128748 AGTAGACTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 7 0.25
18 6 0.21
19 15 0.54
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (19 bp):
TAATTAAAATTTAGTTAAA
Found at i:54129499 original size:41 final size:40
Alignment explanation
Indices: 54129397--54129527 Score: 138
Period size: 41 Copynumber: 3.2 Consensus size: 40
54129387 CGTTTTGACA
* * * ** *
54129397 AAAACGACGCTAAAAA-ATGAGCAATAACGGCTTTTTTTGTT
1 AAAACGCCGCTAAAAACA-GAGCATTAGCGGCGCTTTTAG-T
*
54129438 AAAACGCAGCTAAAAACAGAGCATTAGCGGCGCTTTTAGT
1 AAAACGCCGCTAAAAACAGAGCATTAGCGGCGCTTTTAGT
* * *
54129478 GAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAA-AACAGAGCATTAGCGGCGCTTTTAGT
54129519 AAAACGCCG
1 AAAACGCCG
54129528 TCATGAAACT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
40 13 0.17
41 62 0.82
42 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (40 bp):
AAAACGCCGCTAAAAACAGAGCATTAGCGGCGCTTTTAGT
Found at i:54131038 original size:14 final size:13
Alignment explanation
Indices: 54130989--54131040 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 13
54130979 TAATTTTTTT
54130989 TATTTATAAAAACCA
1 TATTTATAAAAA--A
54131004 -ATTTATAAAAAA
1 TATTTATAAAAAA
* *
54131016 TAGTAATAAAAAA
1 TATTTATAAAAAA
54131029 TATTTTATAAAA
1 TA-TTTATAAAA
54131041 TCACTTAACT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
12 1 0.03
13 12 0.39
14 18 0.58
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.35
Consensus pattern (13 bp):
TATTTATAAAAAA
Found at i:54131228 original size:23 final size:23
Alignment explanation
Indices: 54131202--54131246 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
54131192 CGGTTTTATC
*
54131202 CCTAAATTTTCCCCTCTGAAAAG
1 CCTAAATTTTCCCCTCTCAAAAG
*
54131225 CCTAATTTTTCCCCTCTCAAAA
1 CCTAAATTTTCCCCTCTCAAAA
54131247 CACCCCCAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.29, C:0.33, G:0.04, T:0.33
Consensus pattern (23 bp):
CCTAAATTTTCCCCTCTCAAAAG
Found at i:54135310 original size:42 final size:43
Alignment explanation
Indices: 54135215--54135415 Score: 280
Period size: 42 Copynumber: 4.7 Consensus size: 43
54135205 TGAGAAAAGT
* * *
54135215 GCCGCTAAAGGTTACGATCTTTAGCGGCGTTTGCGAAAAAACC
1 GCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGCGAAAAAACC
* * * *
54135258 GCCGCTAAAGGTCATGGTTTTTAGCGGTGTTTGAGAAAAAA-T
1 GCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGCGAAAAAACC
*
54135300 GCCGCCAAAGGTCATGGTCTTTAGCGGCGTTTGCGAAAAAACC
1 GCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGCGAAAAAACC
** **
54135343 GCCGCTAAAGGTCATGGTCTTTAGTTGCGTTTGCG-AAAATGC
1 GCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGCGAAAAAACC
54135385 GCCGCTAAAGGTCATGGTCTTTAGCGGCGTT
1 GCCGCTAAAGGTCATGGTCTTTAGCGGCGTT
54135416 GCATATAGCG
Statistics
Matches: 138, Mismatches: 19, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
42 71 0.51
43 67 0.49
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (43 bp):
GCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGCGAAAAAACC
Found at i:54135341 original size:85 final size:85
Alignment explanation
Indices: 54135191--54135415 Score: 308
Period size: 85 Copynumber: 2.6 Consensus size: 85
54135181 AATCATTATT
* * * *
54135191 TTTAGCAGCGTTT-ATGAGAAAAGTGCCGCTAAAGGTTACGATCTTTAGCGGCGTTTGCGAAAAA
1 TTTAGCGGCGTTTGA-GA-AAAAGTGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGCGAAAAA
*
54135255 ACCGCCGCTAAAGGTCATGGTT
64 ACCGCCGCTAAAGGTCATGGTC
* * *
54135277 TTTAGCGGTGTTTGAGAAAAAATGCCGCCAAAGGTCATGGTCTTTAGCGGCGTTTGCGAAAAAAC
1 TTTAGCGGCGTTTGAGAAAAAGTGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGCGAAAAAAC
54135342 CGCCGCTAAAGGTCATGGTC
66 CGCCGCTAAAGGTCATGGTC
** * * *
54135362 TTTAGTTGCGTTTGCGAAAATGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTT
1 TTTAGCGGCGTTTGAGAAAAAGTGCCGCTAAAGGTCATGGTCTTTAGCGGCGTT
54135416 GCATATAGCG
Statistics
Matches: 122, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
85 108 0.89
86 13 0.11
87 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (85 bp):
TTTAGCGGCGTTTGAGAAAAAGTGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGCGAAAAAAC
CGCCGCTAAAGGTCATGGTC
Found at i:54136835 original size:43 final size:41
Alignment explanation
Indices: 54136783--54136862 Score: 115
Period size: 43 Copynumber: 1.9 Consensus size: 41
54136773 TACTTATAGA
* *
54136783 AAAAGTAGAAATTAGAGGAAGAAAAAAATGAAGATTTAAAAGG
1 AAAAGTAGAAAATAGAAGAAG--AAAAATGAAGATTTAAAAGG
*
54136826 AAAATTAGAAAATAGAAGAAGAAAAATGAAGATTTAA
1 AAAAGTAGAAAATAGAAGAAGAAAAATGAAGATTTAA
54136863 CGGTGAAAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
41 16 0.47
43 18 0.53
ACGTcount: A:0.62, C:0.00, G:0.20, T:0.17
Consensus pattern (41 bp):
AAAAGTAGAAAATAGAAGAAGAAAAATGAAGATTTAAAAGG
Found at i:54136879 original size:43 final size:40
Alignment explanation
Indices: 54136800--54136880 Score: 99
Period size: 41 Copynumber: 1.9 Consensus size: 40
54136790 GAAATTAGAG
**
54136800 GAAGAAAAAAATGAAGATTTAAAAGGAAAATTAGAAAATA
1 GAAGAAAAAAATGAAGATTTAAAAGGAAAAAGAGAAAATA
**
54136840 GAAGAAGAAAAATGAAGATTTAACGGTGAAAAGAGAGAAAA
1 GAAGAA-AAAAATGAAGATTTAAAAG-GAAAA-AGAGAAAA
54136881 ATAAGAGGTG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
40 6 0.18
41 17 0.50
42 5 0.15
43 6 0.18
ACGTcount: A:0.62, C:0.01, G:0.22, T:0.15
Consensus pattern (40 bp):
GAAGAAAAAAATGAAGATTTAAAAGGAAAAAGAGAAAATA
Found at i:54138490 original size:20 final size:20
Alignment explanation
Indices: 54138447--54138490 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
54138437 AAGCTTATTC
*
54138447 AATTTAGTCTAAATTATTTC
1 AATTTAGTCTAAATTATTTA
*
54138467 AATTTAGTCCTTAA-TATTTA
1 AATTTAGT-CTAAATTATTTA
54138487 AATT
1 AATT
54138491 AATTATTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.36, C:0.09, G:0.05, T:0.50
Consensus pattern (20 bp):
AATTTAGTCTAAATTATTTA
Found at i:54156988 original size:39 final size:40
Alignment explanation
Indices: 54156934--54157142 Score: 251
Period size: 40 Copynumber: 5.3 Consensus size: 40
54156924 AAACCAAGTA
** ** * *
54156934 CCTTCGGGGTTTAG-CCGGATATAGCCACTAGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
54156973 CCTTCGGGACTTAGCCTGGTTATGGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
54157013 CCTTCGGGACTTAGCCCGG-TATAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
54157052 CCTTCGGGACTTAGCCCGGATATAATAGCTCGCACAAACG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
** *
54157092 CCTTCGGGACTTAGCCCGGATATAGTAGTTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
54157132 CCTTCGGGACT
1 CCTTCGGGACT
54157143 GTGACAGCCC
Statistics
Matches: 149, Mismatches: 19, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
39 48 0.32
40 101 0.68
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:54157065 original size:79 final size:80
Alignment explanation
Indices: 54156967--54157142 Score: 246
Period size: 79 Copynumber: 2.2 Consensus size: 80
54156957 GCCACTAGCT
* * ** * *
54156967 CAAATGCCTTCGGGACTTAGCCTGGTTATGGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAACGCCTTCGGGACTTAGCCCGG
54157032 -TATAATAACTCGCA
66 ATATAATAACTCGCA
*
54157046 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCACAAACGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAACGCCTTCGGGACTTAGCCCGG
* **
54157111 ATATAGTAGTTCGCA
66 ATATAATAACTCGCA
*
54157126 CGAATGCCTTCGGGACT
1 CAAATGCCTTCGGGACT
54157143 GTGACAGCCC
Statistics
Matches: 85, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
79 58 0.68
80 27 0.32
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAACGCCTTCGGGACTTAGCCCGG
ATATAATAACTCGCA
Found at i:54158979 original size:40 final size:39
Alignment explanation
Indices: 54158814--54158997 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
54158804 AAATTGAATG
* * *
54158814 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
54158854 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
54158894 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
54158934 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
54158973 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
54158998 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:54159022 original size:80 final size:81
Alignment explanation
Indices: 54158854--54159042 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
54158844 GCTGGAAATT
* * * *
54158854 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
54158919 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
54158935 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
54158998 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
54159014 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
54159043 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:54166040 original size:80 final size:80
Alignment explanation
Indices: 54165956--54166104 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
54165946 TATGGTAACC
* * * *
54165956 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
54166020 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
54166036 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
54166101 CCGG
66 CCGG
54166105 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:54166046 original size:40 final size:38
Alignment explanation
Indices: 54165997--54166104 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
54165987 ATCACGATTT
*
54165997 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
54166037 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
54166077 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
54166105 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:54167955 original size:39 final size:40
Alignment explanation
Indices: 54167849--54168017 Score: 197
Period size: 38 Copynumber: 4.4 Consensus size: 40
54167839 AATTTTCGTC
* * ** *
54167849 AATGCCTTCGGGACTTAGCCTGGTTATGGTAACTTGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACA
54167889 AATGCCTTCGGGACTTAGCCCGG-TATAATAACTCG-ACA
1 AATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACA
*
54167927 AATGCCTTCGGGACTTAGCCCGGATATAA-AGCTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACA
* * **
54167966 AACGCCTTC-GGACTTAG-CCGGATATAGTAGTTCGCAC-
1 AATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACA
*
54168003 GATGCCTTCGGGACT
1 AATGCCTTCGGGACT
54168018 GTGACAGCCA
Statistics
Matches: 115, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
37 16 0.14
38 52 0.45
39 25 0.22
40 22 0.19
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACA
Found at i:54169850 original size:40 final size:39
Alignment explanation
Indices: 54169685--54169868 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
54169675 AAATTGAATG
* * *
54169685 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
54169725 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
54169765 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
54169805 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
54169844 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
54169869 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:54169893 original size:80 final size:81
Alignment explanation
Indices: 54169725--54169913 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
54169715 GCTGGAAATT
* * * *
54169725 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
54169790 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
54169806 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
54169869 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
54169885 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
54169914 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:54177967 original size:40 final size:39
Alignment explanation
Indices: 54177802--54177985 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
54177792 AAATTGAATG
* * *
54177802 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
54177842 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
54177882 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
54177922 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
54177961 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
54177986 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:54178010 original size:80 final size:81
Alignment explanation
Indices: 54177842--54178030 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
54177832 GCTGGAAATT
* * * *
54177842 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
54177907 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
54177923 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
54177986 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
54178002 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
54178031 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:54185748 original size:17 final size:19
Alignment explanation
Indices: 54185706--54185749 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
54185696 ATGAAATTTT
*
54185706 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
54185725 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
54185743 AA-TATTA
1 AATTATTA
54185750 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:54190884 original size:35 final size:35
Alignment explanation
Indices: 54190845--54190917 Score: 119
Period size: 35 Copynumber: 2.1 Consensus size: 35
54190835 CCCCTTTCAA
* *
54190845 GGTGTCTCCCTGAAGGACCTGTATACCGTTTGCAT
1 GGTGTCACCCCGAAGGACCTGTATACCGTTTGCAT
*
54190880 GGTGTCACCCCGAAGGACGTGTATACCGTTTGCAT
1 GGTGTCACCCCGAAGGACCTGTATACCGTTTGCAT
54190915 GGT
1 GGT
54190918 ATTGTCTCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.18, C:0.25, G:0.29, T:0.29
Consensus pattern (35 bp):
GGTGTCACCCCGAAGGACCTGTATACCGTTTGCAT
Found at i:54193893 original size:40 final size:39
Alignment explanation
Indices: 54193725--54193904 Score: 161
Period size: 40 Copynumber: 4.5 Consensus size: 39
54193715 AGAAATTGAA
* *
54193725 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
54193765 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
54193805 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
54193845 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
*
54193885 TGATATCCGGG-TAAGTCCCG
1 TGATATCCGGGCTAAGACCCG
54193905 TTGGCCTTGG
Statistics
Matches: 115, Mismatches: 18, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.03
39 12 0.10
40 95 0.83
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:54201921 original size:40 final size:39
Alignment explanation
Indices: 54201753--54201923 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
54201743 AGAAATTGAA
* *
54201753 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
54201793 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
54201833 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
54201873 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
54201913 TGATATCCGGG
1 TGATATCCGGG
54201924 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:54207410 original size:16 final size:15
Alignment explanation
Indices: 54207383--54207415 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
54207373 AAAATTTTAA
54207383 AAATTAAAATAAATT
1 AAATTAAAATAAATT
54207398 AAATTAGAAATAAATT
1 AAATTA-AAATAAATT
54207414 AA
1 AA
54207416 TGTTGATTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (15 bp):
AAATTAAAATAAATT
Found at i:54208840 original size:23 final size:23
Alignment explanation
Indices: 54208810--54208856 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
54208800 AGACATAGTT
54208810 TATTCCTCTTGTAATTATTTGAA
1 TATTCCTCTTGTAATTATTTGAA
54208833 TATTCCTCTTGTAATTATTTGAA
1 TATTCCTCTTGTAATTATTTGAA
54208856 T
1 T
54208857 TCGACATAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.26, C:0.13, G:0.09, T:0.53
Consensus pattern (23 bp):
TATTCCTCTTGTAATTATTTGAA
Found at i:54212018 original size:49 final size:49
Alignment explanation
Indices: 54211945--54212070 Score: 148
Period size: 50 Copynumber: 2.6 Consensus size: 49
54211935 CTAGTACGCA
* **
54211945 TAGTAACCTGCACTTAGTACTACACA-TGCAAC-CAACAGTCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACTG-AACTCAACA-TCTAATACACG
* * *
54211994 TAGTAGCCTGCACTTAGTATTACACACGTGACCTCACCATCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACAC-TGAACTCAACATCTAATACACG
*
54212044 TTGTAGCCTGCACTTAGTACTACACAC
1 TAGTAGCCTGCACTTAGTACTACACAC
54212071 GTGATCACAG
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
49 24 0.36
50 36 0.55
51 6 0.09
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACTGAACTCAACATCTAATACACG
Found at i:54214260 original size:14 final size:14
Alignment explanation
Indices: 54214241--54214309 Score: 68
Period size: 14 Copynumber: 4.8 Consensus size: 14
54214231 TAAAGATAAC
* *
54214241 AAGAAAACCGAATA
1 AAGAAATCCAAATA
54214255 AAGAAATCCAAGATA
1 AAGAAATCCAA-ATA
*
54214270 GAA-AAACCCAGAATA
1 -AAGAAATCCA-AATA
54214285 AAGAAATCCAAATA
1 AAGAAATCCAAATA
*
54214299 AAGAAACCCAA
1 AAGAAATCCAA
54214310 GATACGATAC
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
14 25 0.54
15 18 0.39
16 3 0.07
ACGTcount: A:0.62, C:0.17, G:0.12, T:0.09
Consensus pattern (14 bp):
AAGAAATCCAAATA
Found at i:54214285 original size:30 final size:29
Alignment explanation
Indices: 54214241--54214308 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 29
54214231 TAAAGATAAC
*
54214241 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCAGAATAAAGAAATCCAA-ATA
54214270 GAA-AAACCCAGAATAAAGAAATCCAAATA
1 -AAGAAACCCAGAATAAAGAAATCCAAATA
54214299 AAGAAACCCA
1 AAGAAACCCA
54214309 AGATACGATA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
28 2 0.06
29 15 0.43
30 18 0.51
ACGTcount: A:0.62, C:0.18, G:0.12, T:0.09
Consensus pattern (29 bp):
AAGAAACCCAGAATAAAGAAATCCAAATA
Found at i:54215906 original size:17 final size:17
Alignment explanation
Indices: 54215884--54215919 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
54215874 CGCGTCGGGA
54215884 GACATCACACTATCACG
1 GACATCACACTATCACG
54215901 GACATCACACTATCACG
1 GACATCACACTATCACG
54215918 GA
1 GA
54215920 TCAGTGGCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.36, C:0.33, G:0.14, T:0.17
Consensus pattern (17 bp):
GACATCACACTATCACG
Found at i:54217453 original size:50 final size:49
Alignment explanation
Indices: 54217330--54217505 Score: 185
Period size: 50 Copynumber: 3.5 Consensus size: 49
54217320 CTGGTACGCA
* * **
54217330 TAGTAGCCTGCACTTAGTACTACACATGAGACCAACAGTCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTAATACACG
* *
54217379 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCA-TCTAATACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAACAGTCTAATACACG
* * * * * *
54217429 TAGTAGCCTGCACTTAGTACTACACACGTGATC-ATAGTTTTCAGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAG-TCT-A-ATACACG
54217480 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
54217506 TGCGACCTCA
Statistics
Matches: 107, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
47 1 0.01
48 1 0.01
49 31 0.29
50 41 0.38
51 33 0.31
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTAATACACG
Found at i:54217503 original size:101 final size:99
Alignment explanation
Indices: 54217330--54217516 Score: 259
Period size: 101 Copynumber: 1.9 Consensus size: 99
54217320 CTGGTACGCA
* * *
54217330 TAGTAGCCTGCACTTAGTACTACACATGAGACCAACAGTCTGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGAGACCAACAGTCAGGTACACATAGTAGCCTGCACTTA
*
54217395 GTACTACACACGTGACCTCACCATCTAATACATG
66 GTACTACACACGCGACCTCACCATCTAATACATG
* * * *
54217429 TAGTAGCCTGCACTTAGTACTACACACGTGATC-ATAGTTTTCAGGTACGCATAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGAGACCAACAG---TCAGGTACACATAGTAGCCTGCAC
*
54217493 TTAGTACTACACATGCGACCTCAC
63 TTAGTACTACACACGCGACCTCAC
54217517 AATAGATCAT
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
98 3 0.04
99 30 0.39
101 43 0.57
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGAGACCAACAGTCAGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTCACCATCTAATACATG
Found at i:54226983 original size:13 final size:14
Alignment explanation
Indices: 54226957--54226988 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
54226947 ACTAACGATG
54226957 AATTAAACCATTAT
1 AATTAAACCATTAT
54226971 AATTAAA-CATTAT
1 AATTAAACCATTAT
54226984 AATTA
1 AATTA
54226989 GTTATAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:54230326 original size:48 final size:48
Alignment explanation
Indices: 54230257--54230597 Score: 637
Period size: 48 Copynumber: 7.1 Consensus size: 48
54230247 GCGGAAATTG
* *
54230257 ATGTATGAGATAAGTAGATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
54230305 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
54230353 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
54230401 ATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
54230449 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGTCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
54230497 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
54230545 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
54230593 ATGTA
1 ATGTA
54230598 GGCGATGTGT
Statistics
Matches: 286, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 286 1.00
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.31
Consensus pattern (48 bp):
ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
Found at i:54230852 original size:37 final size:37
Alignment explanation
Indices: 54230744--54230852 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
54230734 GGAAATATAT
*
54230744 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTTTG
*
54230781 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTTTG
*
54230818 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTT
54230853 CATCTAAGCT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATAACTACGTGTGGAGATTTTG
Found at i:54232597 original size:40 final size:40
Alignment explanation
Indices: 54232126--54232585 Score: 641
Period size: 40 Copynumber: 11.4 Consensus size: 40
54232116 ATATAGCTGA
* *
54232126 GCTAAGTCCCGAAGAGCATTAGTGCTAGTGATATATAGCCGG
1 GCTAAGTCCCGAAGAGCATTCGTGCTAGTG-T-TATATCCGG
* * *
54232168 GCTAAGCCCCGAAGAGCATCCGTGCTGGTGTTATATCCGG
1 GCTAAGTCCCGAAGAGCATTCGTGCTAGTGTTATATCCGG
* *
54232208 GCTAAGTCCCGAAGAGCATCCGTGCTGGTGTTATATCCGG
1 GCTAAGTCCCGAAGAGCATTCGTGCTAGTGTTATATCCGG
54232248 GCTAAGTCCCGAAGAGCATTCGTGCTAGTGTTATATCCGG
1 GCTAAGTCCCGAAGAGCATTCGTGCTAGTGTTATATCCGG
* *
54232288 GCTAAGTCCCAAAGAGCATTCGTGCTGGTGTTATATCCGG
1 GCTAAGTCCCGAAGAGCATTCGTGCTAGTGTTATATCCGG
* * *
54232328 GCTAAGTCCCGAAGAGCGTTCGTGCTAGTGATGTATCCGG
1 GCTAAGTCCCGAAGAGCATTCGTGCTAGTGTTATATCCGG
* *
54232368 GCTAAGTCCCGAAGAGTATTCGTGCTAGTGTTGTATCCGG
1 GCTAAGTCCCGAAGAGCATTCGTGCTAGTGTTATATCCGG
* *
54232408 GCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGG
1 GCTAAGTCCCGAAGAGCATTCGTGCTAGTGTTATATCCGG
* *
54232448 GCTAAGTCCCGAAGAGCATTTGTGCTGGTGTTATATCCGG
1 GCTAAGTCCCGAAGAGCATTCGTGCTAGTGTTATATCCGG
* * * * *
54232488 GCTAAGTCTCAAAGAGCATTAGTGCTAGAGTTATATCAGG
1 GCTAAGTCCCGAAGAGCATTCGTGCTAGTGTTATATCCGG
* * * * *
54232528 GTTAAGTCCTGAAGAGCATTCGCGCTGGTGTTATAGCCGG
1 GCTAAGTCCCGAAGAGCATTCGTGCTAGTGTTATATCCGG
*
54232568 GCTAGGTCCCGAAGAGCA
1 GCTAAGTCCCGAAGAGCA
54232586 ATCATGCTGG
Statistics
Matches: 375, Mismatches: 43, Indels: 2
0.89 0.10 0.00
Matches are distributed among these distances:
40 348 0.93
41 1 0.00
42 26 0.07
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.26
Consensus pattern (40 bp):
GCTAAGTCCCGAAGAGCATTCGTGCTAGTGTTATATCCGG
Found at i:54235931 original size:48 final size:48
Alignment explanation
Indices: 54235876--54236216 Score: 646
Period size: 48 Copynumber: 7.1 Consensus size: 48
54235866 GCGGAAATTG
* *
54235876 ATGTATGAGATAAGTATATGTGGTAAAGCTGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
54235924 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
54235972 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
54236020 ATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
54236068 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
54236116 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
54236164 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
54236212 ATGTA
1 ATGTA
54236217 GGCGATGTGT
Statistics
Matches: 288, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 288 1.00
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.31
Consensus pattern (48 bp):
ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
Done.