Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 108 of 311
Found at i:35654761 original size:75 final size:75
Alignment explanation
Indices: 35654643--35654783 Score: 185
Period size: 75 Copynumber: 1.9 Consensus size: 75
35654633 TTTTGTCGGA
* * * * *
35654643 TAAATGCATCTTTGATTAATGTCTTGCATTAATACATTTGCAT-CTTTAGAAACTTGCATTAAAT
1 TAAATACATCTTTGATTAATGTCTTGAATTAATACACTAGCATCCTTTA-AAACCTGCATTAAAT
35654707 GTCTTGTTTAT
65 GTCTTGTTTAT
* * * *
35654718 TAAATACATCTTTGTTTAATGTTTTGAATTAATACACTAGCATCCTTTAATACCTGCATTATATG
1 TAAATACATCTTTGATTAATGTCTTGAATTAATACACTAGCATCCTTTAAAACCTGCATTAAATG
35654783 T
66 T
35654784 TCTTCATATT
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
75 51 0.91
76 5 0.09
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.45
Consensus pattern (75 bp):
TAAATACATCTTTGATTAATGTCTTGAATTAATACACTAGCATCCTTTAAAACCTGCATTAAATG
TCTTGTTTAT
Found at i:35659316 original size:30 final size:30
Alignment explanation
Indices: 35659282--35659341 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
35659272 TTCCTGAGCC
35659282 TAGGGG-AAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAA-TGTAATTATGCAAAAGTT
* *
35659312 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
35659342 CGTATTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.40, C:0.07, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:35661640 original size:16 final size:16
Alignment explanation
Indices: 35661621--35661652 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
35661611 AATTGTTTTA
35661621 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
35661637 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
35661653 ACTCCATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:35661908 original size:50 final size:50
Alignment explanation
Indices: 35661852--35662190 Score: 272
Period size: 50 Copynumber: 6.7 Consensus size: 50
35661842 ATCGAAGCTC
* * * *
35661852 TCTGGTACGCATAGTAGCCTGCATTTAGAACTACACATGCGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
* * **
35661902 TTTGGTACATGTAGTAGCCTGCACTTAGTACTACATACATGATCGAAGT-T-AA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTAC--ACATG--CGACCTATCAA
* ** * * *
35661954 -CGGGTATGCATAGTTGCCTACACTTAGTACTACACATGCGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
* *** * * *
35662003 TCTGGTACACGTAGTAGCCTACACTTAGTACTACACACATGACTTAACCA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
** * * * ** *
35662053 TCTAATACACGTAGTAGCCTACACTTAGTACTACACACGTGATCAAAGTTAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGA-CCTA-TCAA
* * * *
35662105 -CGGGTACGCATAGTAGCCTGCACTTAGTACTACATATGCGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
* * *
35662154 TATGGTACACGTAGTAGCCTGCACTTCGTACAACACA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
35662191 CATGACTCAC
Statistics
Matches: 223, Mismatches: 56, Indels: 20
0.75 0.19 0.07
Matches are distributed among these distances:
47 4 0.02
48 1 0.00
49 10 0.04
50 136 0.61
51 59 0.26
52 8 0.04
53 1 0.00
54 4 0.02
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (50 bp):
TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
Found at i:35662017 original size:101 final size:101
Alignment explanation
Indices: 35661855--35662044 Score: 299
Period size: 101 Copynumber: 1.9 Consensus size: 101
35661845 GAAGCTCTCT
* * * *
35661855 GGTACGCATAGTAGCCTGCATTTAGAACTACACATGCGACCTATCAATTTGGTACATGTAGTAGC
1 GGTACGCATAGTAGCCTACACTTAGAACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
* *
35661920 CTGCACTTAGTACTACATACATGATCGAAGTTAACG
66 CTACACTTAGTACTACACACATGATCGAAGTTAACG
* * *
35661956 GGTATGCATAGTTGCCTACACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTACACTTAGAACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
35662021 CTACACTTAGTACTACACACATGA
66 CTACACTTAGTACTACACACATGA
35662045 CTTAACCATC
Statistics
Matches: 80, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
101 80 1.00
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (101 bp):
GGTACGCATAGTAGCCTACACTTAGAACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
CTACACTTAGTACTACACACATGATCGAAGTTAACG
Found at i:35662081 original size:151 final size:151
Alignment explanation
Indices: 35661907--35662197 Score: 465
Period size: 151 Copynumber: 1.9 Consensus size: 151
35661897 ATCAATTTGG
* * * * * *
35661907 TACATGTAGTAGCCTGCACTTAGTACTACATACATGATCGAAGTTAACGGGTATGCATAGTTGCC
1 TACACGTAGTAGCCTACACTTAGTACTACACACATGATCAAAGTTAACGGGTACGCATAGTAGCC
* *
35661972 TACACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCCTACACTTAGTACTAC
66 TACACTTAGTACTACACATGCGACCTATCAATATGGTACACGTAGTAGCCTACACTTAGTACAAC
35662037 ACACATGACTTAACCATCTAA
131 ACACATGACTTAACCATCTAA
*
35662058 TACACGTAGTAGCCTACACTTAGTACTACACACGTGATCAAAGTTAACGGGTACGCATAGTAGCC
1 TACACGTAGTAGCCTACACTTAGTACTACACACATGATCAAAGTTAACGGGTACGCATAGTAGCC
* * * *
35662123 TGCACTTAGTACTACATATGCGACCTATCAATATGGTACACGTAGTAGCCTGCACTTCGTACAAC
66 TACACTTAGTACTACACATGCGACCTATCAATATGGTACACGTAGTAGCCTACACTTAGTACAAC
35662188 ACACATGACT
131 ACACATGACT
35662198 CACAACAAAT
Statistics
Matches: 127, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
151 127 1.00
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (151 bp):
TACACGTAGTAGCCTACACTTAGTACTACACACATGATCAAAGTTAACGGGTACGCATAGTAGCC
TACACTTAGTACTACACATGCGACCTATCAATATGGTACACGTAGTAGCCTACACTTAGTACAAC
ACACATGACTTAACCATCTAA
Found at i:35662572 original size:19 final size:20
Alignment explanation
Indices: 35662544--35662590 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
35662534 AAGAACAGGT
35662544 TATATCATCAAAATAATCACA
1 TATAT-ATCAAAATAATCACA
* *
35662565 TA-ATATCAAATTATTCACA
1 TATATATCAAAATAATCACA
35662584 TATATAT
1 TATATAT
35662591 ACTTACAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (20 bp):
TATATATCAAAATAATCACA
Found at i:35665941 original size:17 final size:16
Alignment explanation
Indices: 35665915--35665949 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
35665905 TATATATTTT
35665915 TTATTTTTAATTATAA
1 TTATTTTTAATTATAA
*
35665931 TTATATTTTAATTTTAA
1 TTAT-TTTTAATTATAA
35665948 TT
1 TT
35665950 TTAATATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TTATTTTTAATTATAA
Found at i:35665952 original size:6 final size:6
Alignment explanation
Indices: 35665913--35665954 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
35665903 TATATATATT
* * *
35665913 TTTTAT TTTTAA TTATAA TTAT-A TTTTAA TTTTAA TTTTAA T
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA T
35665955 ATAATAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
5 4 0.12
6 28 0.88
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TTTTAA
Found at i:35665978 original size:28 final size:29
Alignment explanation
Indices: 35665919--35665984 Score: 73
Period size: 27 Copynumber: 2.3 Consensus size: 29
35665909 TATTTTTTAT
* *
35665919 TTTTAATTATAATTATATTTTAATTTTAA
1 TTTTAATTATAATTAAATTTTAATTATAA
*
35665948 TTTTAA-TATAA-TAAATTTTTATTATATA
1 TTTTAATTATAATTAAATTTTAATTATA-A
35665976 TTTTCAATT
1 TTTT-AATT
35665985 TGTGTATTGT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
27 12 0.39
28 10 0.32
29 8 0.26
30 1 0.03
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (29 bp):
TTTTAATTATAATTAAATTTTAATTATAA
Found at i:35666015 original size:40 final size:40
Alignment explanation
Indices: 35665971--35666051 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
35665961 AATTTTTATT
35665971 ATATATTTTCAATTTGTGTATTGTTTTAAGAATTGTTTTA
1 ATATATTTTCAATTTGTGTATTGTTTTAAGAATTGTTTTA
** * * * *
35666011 ATATATTTTTTATTTGTTTCTTGTTTTAATATTTGTTTTA
1 ATATATTTTCAATTTGTGTATTGTTTTAAGAATTGTTTTA
35666051 A
1 A
35666052 ATGTATTTGA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.25, C:0.02, G:0.10, T:0.63
Consensus pattern (40 bp):
ATATATTTTCAATTTGTGTATTGTTTTAAGAATTGTTTTA
Found at i:35667173 original size:15 final size:16
Alignment explanation
Indices: 35667153--35667183 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
35667143 TTAAAATATA
35667153 TTTAAAA-TTATTATT
1 TTTAAAATTTATTATT
35667168 TTTAAAATTTATTATT
1 TTTAAAATTTATTATT
35667184 CAAATAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTAAAATTTATTATT
Found at i:35667873 original size:13 final size:13
Alignment explanation
Indices: 35667844--35667913 Score: 52
Period size: 13 Copynumber: 5.2 Consensus size: 13
35667834 ATCTAAATTC
35667844 TATTTTTTATT-A
1 TATTTTTTATTAA
*
35667856 GATTTTTTATTAA
1 TATTTTTTATTAA
** **
35667869 TATTTTCAAGAAA
1 TATTTTTTATTAA
35667882 TATTTTTTATTAAA
1 TATTTTTTATT-AA
*
35667896 AATTAATTTTATTAA
1 TATT--TTTTATTAA
35667911 TAT
1 TAT
35667914 ATTCAAGAAA
Statistics
Matches: 42, Mismatches: 12, Indels: 5
0.71 0.20 0.08
Matches are distributed among these distances:
12 10 0.24
13 16 0.38
14 5 0.12
15 4 0.10
16 7 0.17
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.59
Consensus pattern (13 bp):
TATTTTTTATTAA
Found at i:35667957 original size:41 final size:42
Alignment explanation
Indices: 35667860--35667945 Score: 156
Period size: 42 Copynumber: 2.1 Consensus size: 42
35667850 TTATTAGATT
*
35667860 TTTTATTAATATTTTCAAGAAATATTTTTTATTAAAAATTAA
1 TTTTATTAATATATTCAAGAAATATTTTTTATTAAAAATTAA
35667902 TTTTATTAATATATTCAAGAAATA-TTTTTATTAAAAATTAA
1 TTTTATTAATATATTCAAGAAATATTTTTTATTAAAAATTAA
35667943 TTT
1 TTT
35667946 GTGTTCTATA
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 20 0.47
42 23 0.53
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (42 bp):
TTTTATTAATATATTCAAGAAATATTTTTTATTAAAAATTAA
Found at i:35670204 original size:21 final size:22
Alignment explanation
Indices: 35670178--35670218 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
35670168 CTCTTAACAC
35670178 AGGGGC-ACACGCCCGTGTGGG
1 AGGGGCAACACGCCCGTGTGGG
35670199 AGGGGCAACACGCCCGTGTG
1 AGGGGCAACACGCCCGTGTG
35670219 ACATTTCAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.17, C:0.29, G:0.44, T:0.10
Consensus pattern (22 bp):
AGGGGCAACACGCCCGTGTGGG
Found at i:35679523 original size:30 final size:30
Alignment explanation
Indices: 35679438--35679525 Score: 104
Period size: 30 Copynumber: 2.9 Consensus size: 30
35679428 TAAACTAAAA
* *
35679438 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
* * * * *
35679468 TGAGCTGAGATTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
*
35679498 TGAGCTAAGGTTTAGCTCGTGAGCTGAA
1 TGAGCTAAGATTTAGCTCGTGAGCTGAA
35679526 TATGAGTTAG
Statistics
Matches: 45, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
30 45 1.00
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
Found at i:35681822 original size:30 final size:30
Alignment explanation
Indices: 35681768--35681852 Score: 109
Period size: 30 Copynumber: 2.8 Consensus size: 30
35681758 TTCTTTTGTT
*
35681768 TCAATTTCTTTTTCATCTTCTTTTTCACTC
1 TCAATTTCTTTTTCATCTTCTTTTTCAATC
**
35681798 TCAAATTTCTTTTTGTTC-TCTTTTTCAATC
1 TC-AATTTCTTTTTCATCTTCTTTTTCAATC
* *
35681828 TCATTTTCTTTTTCATTTTCTTTTT
1 TCAATTTCTTTTTCATCTTCTTTTT
35681853 GCTTTTCAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
29 11 0.24
30 22 0.48
31 13 0.28
ACGTcount: A:0.13, C:0.21, G:0.01, T:0.65
Consensus pattern (30 bp):
TCAATTTCTTTTTCATCTTCTTTTTCAATC
Found at i:35681859 original size:12 final size:12
Alignment explanation
Indices: 35681828--35681852 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
35681818 TTTTTCAATC
35681828 TCATTTTCTTTT
1 TCATTTTCTTTT
35681840 TCATTTTCTTTT
1 TCATTTTCTTTT
35681852 T
1 T
35681853 GCTTTTCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:35681870 original size:12 final size:12
Alignment explanation
Indices: 35681855--35681885 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
35681845 TTCTTTTTGC
35681855 TTTTCAAAGGCT
1 TTTTCAAAGGCT
35681867 TTTTCAAAGGCT
1 TTTTCAAAGGCT
35681879 TTTTCAA
1 TTTTCAA
35681886 GTTCTCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGGCT
Found at i:35681953 original size:15 final size:15
Alignment explanation
Indices: 35681933--35681993 Score: 54
Period size: 16 Copynumber: 4.1 Consensus size: 15
35681923 CTCTTGCCTC
35681933 TCATTTCTTTTTATT
1 TCATTTCTTTTTATT
*
35681948 TCATTTTCTTTTT-CT
1 TCA-TTTCTTTTTATT
*
35681963 TCTTTTGCTTTTTATT
1 TCATTT-CTTTTTATT
* *
35681979 TTATTT-TCTTTATT
1 TCATTTCTTTTTATT
35681993 T
1 T
35681994 TCTCTTTACA
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
14 11 0.30
15 12 0.32
16 14 0.38
ACGTcount: A:0.10, C:0.13, G:0.02, T:0.75
Consensus pattern (15 bp):
TCATTTCTTTTTATT
Found at i:35683468 original size:32 final size:33
Alignment explanation
Indices: 35683402--35683514 Score: 115
Period size: 32 Copynumber: 3.5 Consensus size: 33
35683392 AAGAGCAATA
* * ** *
35683402 TTGTTATCATTTAACAAGATG-CTAGTCGATAT
1 TTGTTATCATTTCACAAAATGAAAAGTTGATAT
* * *
35683434 TTGTTATCATTTTATAAAAT-TAAAGTTG-TAAT
1 TTGTTATCATTTCACAAAATGAAAAGTTGAT-AT
*
35683466 TTGTTATAATTTCACAAAATGAAAAGTTGATAT
1 TTGTTATCATTTCACAAAATGAAAAGTTGATAT
35683499 TTGTTATCATTTCACA
1 TTGTTATCATTTCACA
35683515 GAACCGTACG
Statistics
Matches: 66, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
31 1 0.02
32 40 0.61
33 24 0.36
34 1 0.02
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.44
Consensus pattern (33 bp):
TTGTTATCATTTCACAAAATGAAAAGTTGATAT
Found at i:35694607 original size:50 final size:49
Alignment explanation
Indices: 35694507--35694734 Score: 294
Period size: 49 Copynumber: 4.6 Consensus size: 49
35694497 ATATGATGAA
* * * * *
35694507 TAAGAGCAGGCTACTATGCGTACCCGATAACTTCGATCACGTGTGTAGTAC
1 TAAGTGCAGGCTACTACGTGTACCAGATAA-TT-GGTCACGTGTGTAGTAC
* ** *
35694558 TAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCATGTGTGTAGTAC
1 TAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACGTGTGTAGTAC
*
35694608 TAAGTGCGGGCTACTACGTGTACCAGATAATTGGTCACGTGTGTAGTAC
1 TAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACGTGTGTAGTAC
* * *
35694657 TAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTAC
1 TAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACGTGTGTAGTAC
* *
35694706 TAAGTGCAGGCTACTATGCGTACCAGATA
1 TAAGTGCAGGCTACTACGTGTACCAGATA
35694735 GCTTGGCTAC
Statistics
Matches: 155, Mismatches: 22, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
49 87 0.56
50 45 0.29
51 23 0.15
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (49 bp):
TAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACGTGTGTAGTAC
Found at i:35697458 original size:5 final size:6
Alignment explanation
Indices: 35697424--35697491 Score: 56
Period size: 5 Copynumber: 11.7 Consensus size: 6
35697414 TAATCAGTTC
* *
35697424 AATATT AA-ATT AATATA AATATT -ATATT AAT-TT AATATT AAGA-T
1 AATATT AATATT AATATT AATATT AATATT AATATT AATATT AATATT
35697468 AATCACTTT AATATT AA-ATT AATA
1 AAT-A--TT AATATT AATATT AATA
35697492 AAATACTATT
Statistics
Matches: 50, Mismatches: 4, Indels: 16
0.71 0.06 0.23
Matches are distributed among these distances:
5 23 0.46
6 22 0.44
8 1 0.02
9 4 0.08
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.44
Consensus pattern (6 bp):
AATATT
Found at i:35697490 original size:20 final size:18
Alignment explanation
Indices: 35697424--35697549 Score: 68
Period size: 20 Copynumber: 6.9 Consensus size: 18
35697414 TAATCAGTTC
*
35697424 AATATTAAATTAATA-TA
1 AATATTAAATTAATATTT
*
35697441 AATATTATATT-A-ATTT
1 AATATTAAATTAATATTT
35697457 AATATTAAGA-TAATCACTTT
1 AATATTAA-ATTAAT-A-TTT
**
35697477 AATATTAAATTAATAAAAT
1 AATATTAAATTAAT-ATTT
*
35697496 ACTATTAAGA-TAAGTA-TT
1 AATATTAA-ATTAA-TATTT
*
35697514 AA-ATTAAATTTAATATTA
1 AATATTAAA-TTAATATTT
*
35697532 AACTATTAAAATAATATT
1 AA-TATTAAATTAATATT
35697550 ATTTTTGGAA
Statistics
Matches: 84, Mismatches: 11, Indels: 26
0.69 0.09 0.21
Matches are distributed among these distances:
15 1 0.01
16 11 0.13
17 19 0.23
18 8 0.10
19 21 0.25
20 24 0.29
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.42
Consensus pattern (18 bp):
AATATTAAATTAATATTT
Found at i:35697537 original size:37 final size:36
Alignment explanation
Indices: 35697475--35697550 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
35697465 GATAATCACT
*
35697475 TTAATATTAAATTAATAAAATACTATTAAGATAAGTA
1 TTAATATTAAATTAATAAAATACTATTAAAATAA-TA
*
35697512 TTAA-ATTAAATTTAATATTAA-ACTATTAAAATAATA
1 TTAATATTAAA-TTAATA-AAATACTATTAAAATAATA
35697548 TTA
1 TTA
35697551 TTTTTGGAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 11 0.31
37 22 0.63
38 2 0.06
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (36 bp):
TTAATATTAAATTAATAAAATACTATTAAAATAATA
Found at i:35699096 original size:6 final size:6
Alignment explanation
Indices: 35699085--35699112 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
35699075 GCCCCTTTTT
35699085 CAGTAG CAGTAG CAGTAG CAGTAG CAGT
1 CAGTAG CAGTAG CAGTAG CAGTAG CAGT
35699113 CTGGGCCTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.32, C:0.18, G:0.32, T:0.18
Consensus pattern (6 bp):
CAGTAG
Found at i:35699172 original size:33 final size:32
Alignment explanation
Indices: 35699097--35699173 Score: 91
Period size: 33 Copynumber: 2.3 Consensus size: 32
35699087 GTAGCAGTAG
35699097 CAGTAGCAGTAGCAGTCTGGGCCTGAGCCATTT
1 CAGTA-CAGTAGCAGTCTGGGCCTGAGCCATTT
* * *
35699130 CAATAACAGTGGCAGTCTGGGCCTTAGCCCATTT
1 CAGT-ACAGTAGCAGTCTGGGCCTGAG-CCATTT
*
35699164 TAGTACAGTA
1 CAGTACAGTA
35699174 TGCAAACAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
33 27 0.75
34 9 0.25
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (32 bp):
CAGTACAGTAGCAGTCTGGGCCTGAGCCATTT
Found at i:35699609 original size:18 final size:17
Alignment explanation
Indices: 35699583--35699616 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
35699573 CATATCGCAA
35699583 GCCCATGTGGGCCCACAC
1 GCCCATGT-GGCCCACAC
*
35699601 GCCCGTGTGGCCCACA
1 GCCCATGTGGCCCACA
35699617 TAGCCCAGAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.15, C:0.44, G:0.29, T:0.12
Consensus pattern (17 bp):
GCCCATGTGGCCCACAC
Found at i:35699622 original size:18 final size:18
Alignment explanation
Indices: 35699580--35699623 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
35699570 ACCCATATCG
35699580 CAAGCCCATGTGGGCCCA
1 CAAGCCCATGTGGGCCCA
* *
35699598 CACGCCCGTGT-GGCCCA
1 CAAGCCCATGTGGGCCCA
35699615 CATAGCCCA
1 CA-AGCCCA
35699624 GACATGGCCT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.20, C:0.43, G:0.25, T:0.11
Consensus pattern (18 bp):
CAAGCCCATGTGGGCCCA
Found at i:35707086 original size:23 final size:22
Alignment explanation
Indices: 35707060--35707183 Score: 99
Period size: 23 Copynumber: 5.5 Consensus size: 22
35707050 AGTTCATTTA
35707060 AGCTTACTGATTTAGCTCGAAAG
1 AGCTTACTG-TTTAGCTCGAAAG
*
35707083 AGCTTACTGTTCAGCTC-AATAG
1 AGCTTACTGTTTAGCTCGAA-AG
* * * *
35707105 AGCTTACCGTTTCAACTCGTATG
1 AGCTTACTGTTT-AGCTCGAAAG
* * * *
35707128 AGCTTATTGTTCATCTCGATAG
1 AGCTTACTGTTTAGCTCGAAAG
*
35707150 AGCTTACCGTTTTAGCTC-AATAG
1 AGCTTACTG-TTTAGCTCGAA-AG
35707173 AGCTTACTGTT
1 AGCTTACTGTT
35707184 CATCAGCTCT
Statistics
Matches: 77, Mismatches: 19, Indels: 11
0.72 0.18 0.10
Matches are distributed among these distances:
21 2 0.03
22 35 0.45
23 39 0.51
24 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (22 bp):
AGCTTACTGTTTAGCTCGAAAG
Found at i:35707111 original size:45 final size:44
Alignment explanation
Indices: 35707034--35707185 Score: 146
Period size: 45 Copynumber: 3.4 Consensus size: 44
35707024 TACAGGTCAG
* * * *
35707034 AAGAGCATACTGTTTCAGTTCATTTA-AGCTTACTGATTTAGCTCGA
1 AAGAGCTTACTG-TTCAGCTCA-ATAGAGCTTACCG-TTTAGCTCGA
* *
35707080 AAGAGCTTACTGTTCAGCTCAATAGAGCTTACCGTTTCAACTCGT
1 AAGAGCTTACTGTTCAGCTCAATAGAGCTTACCGTTT-AGCTCGA
* * * *
35707125 ATGAGCTTATTGTTCATCTCGATAGAGCTTACCGTTTTAGCTC-A
1 AAGAGCTTACTGTTCAGCTCAATAGAGCTTACCG-TTTAGCTCGA
35707169 ATAGAGCTTACTGTTCA
1 A-AGAGCTTACTGTTCA
35707186 TCAGCTCTAG
Statistics
Matches: 88, Mismatches: 14, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
44 6 0.07
45 68 0.77
46 14 0.16
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (44 bp):
AAGAGCTTACTGTTCAGCTCAATAGAGCTTACCGTTTAGCTCGA
Found at i:35707186 original size:45 final size:45
Alignment explanation
Indices: 35707060--35707187 Score: 152
Period size: 45 Copynumber: 2.8 Consensus size: 45
35707050 AGTTCATTTA
* * *
35707060 AGCTTACTGATTTAGCTCGAA-AGAGCTTACTGTTCAGCTCAATAG
1 AGCTTACCGTTTTAGCTC-AATAGAGCTTACTGTTCATCTCAATAG
* * * * *
35707105 AGCTTACCGTTTCAACTC-GTATGAGCTTATTGTTCATCTCGATAG
1 AGCTTACCGTTTTAGCTCAATA-GAGCTTACTGTTCATCTCAATAG
35707150 AGCTTACCGTTTTAGCTCAATAGAGCTTACTGTTCATC
1 AGCTTACCGTTTTAGCTCAATAGAGCTTACTGTTCATC
35707188 AGCTCTAGAG
Statistics
Matches: 68, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
44 1 0.01
45 65 0.96
46 2 0.03
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (45 bp):
AGCTTACCGTTTTAGCTCAATAGAGCTTACTGTTCATCTCAATAG
Found at i:35712974 original size:13 final size:13
Alignment explanation
Indices: 35712958--35712982 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35712948 CACACAAACG
35712958 ATTAAATTTTCAT
1 ATTAAATTTTCAT
35712971 ATTAAATTTTCA
1 ATTAAATTTTCA
35712983 CACATATTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (13 bp):
ATTAAATTTTCAT
Found at i:35715810 original size:27 final size:27
Alignment explanation
Indices: 35715771--35715844 Score: 87
Period size: 27 Copynumber: 2.7 Consensus size: 27
35715761 TCTCGCCCTT
* * *
35715771 AGGGGCATTTCGGTAATTTTACAAGTCG
1 AGGGGTATTTCGGTAATTTCACAAAT-G
*
35715799 A-GGGTATTTCGGTAATTTCACAAATT
1 AGGGGTATTTCGGTAATTTCACAAATG
*
35715825 AGGGGTATTTTGGTAATTTC
1 AGGGGTATTTCGGTAATTTC
35715845 CCTTTATTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
26 1 0.03
27 38 0.95
28 1 0.03
ACGTcount: A:0.26, C:0.11, G:0.26, T:0.38
Consensus pattern (27 bp):
AGGGGTATTTCGGTAATTTCACAAATG
Found at i:35716176 original size:27 final size:29
Alignment explanation
Indices: 35716135--35716203 Score: 97
Period size: 28 Copynumber: 2.4 Consensus size: 29
35716125 AAGTCTACAT
*
35716135 ACATGCATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCACTAGGCCCAAATC
* *
35716163 TCATTCATA-GGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCACTAGGCCCAAATC
35716191 ACATTCATATGGC
1 ACATTCATATGGC
35716204 TCATCTGGCC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
27 13 0.37
28 19 0.54
29 3 0.09
ACGTcount: A:0.29, C:0.32, G:0.16, T:0.23
Consensus pattern (29 bp):
ACATTCATATGGCCCACTAGGCCCAAATC
Found at i:35727408 original size:188 final size:189
Alignment explanation
Indices: 35727090--35727467 Score: 749
Period size: 188 Copynumber: 2.0 Consensus size: 189
35727080 CTCCAATAAA
35727090 TCCACTACTTAGATTTTCAGTCCATCTCAAACTCTTTTGGACAGGCAAGCAAAAATAATGCCCAC
1 TCCACTACTTAGATTTTCAGTCCATCTCAAACTCTTTTGGACAGGCAAGCAAAAATAATGCCCAC
35727155 GCCAAGATTGGAACACAAGACCTCCTTCACACCAACACTCCACTTAACCACCAGATCAGCAAGCC
66 GCCAAGATTGGAACACAAGACCTCCTTCACACCAACACTCCACTTAACCACCAGATCAGCAAGCC
35727220 CAATCTATTAATTATTTACCAAATATTAAACTTAAGCCTTTTAGGCCAGGTTAAGGCTT
131 CAATCTATTAATTATTTACCAAATATTAAACTTAAGCCTTTTAGGCCAGGTTAAGGCTT
35727279 TCCACTACTTAGATTTTCAGTCCATCTCAAACTC-TTTGGACAGGCAAGCAAAAATAATGCCCAC
1 TCCACTACTTAGATTTTCAGTCCATCTCAAACTCTTTTGGACAGGCAAGCAAAAATAATGCCCAC
35727343 GCCAAGATTGGAACACAAGACCTCCTTCACACCAACACTCCACTTAACCACCAGATCAGCAAGCC
66 GCCAAGATTGGAACACAAGACCTCCTTCACACCAACACTCCACTTAACCACCAGATCAGCAAGCC
35727408 CAATCTATTAATTATTTACCAAATATTAAACTTAAGCCTTTTAGGCCAGGTTAAGGCTT
131 CAATCTATTAATTATTTACCAAATATTAAACTTAAGCCTTTTAGGCCAGGTTAAGGCTT
35727467 T
1 T
35727468 ATGTATAAAA
Statistics
Matches: 189, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
188 155 0.82
189 34 0.18
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (189 bp):
TCCACTACTTAGATTTTCAGTCCATCTCAAACTCTTTTGGACAGGCAAGCAAAAATAATGCCCAC
GCCAAGATTGGAACACAAGACCTCCTTCACACCAACACTCCACTTAACCACCAGATCAGCAAGCC
CAATCTATTAATTATTTACCAAATATTAAACTTAAGCCTTTTAGGCCAGGTTAAGGCTT
Found at i:35729574 original size:29 final size:29
Alignment explanation
Indices: 35729504--35729568 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
35729494 AAAGCATGAC
35729504 TATGAATGTGATTTGGGCCTAATCGGCCA
1 TATGAATGTGATTTGGGCCTAATCGGCCA
* *
35729533 TACGAATGTGATTTGGGCCTAATGGGCCA
1 TATGAATGTGATTTGGGCCTAATCGGCCA
35729562 TATGAAT
1 TATGAAT
35729569 AAGATTGGGC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (29 bp):
TATGAATGTGATTTGGGCCTAATCGGCCA
Found at i:35733204 original size:19 final size:20
Alignment explanation
Indices: 35733182--35733224 Score: 79
Period size: 19 Copynumber: 2.2 Consensus size: 20
35733172 ATTTTAAAAA
35733182 TTTGGATGTGAAATT-ATAT
1 TTTGGATGTGAAATTAATAT
35733201 TTTGGATGTGAAATTAATAT
1 TTTGGATGTGAAATTAATAT
35733221 TTTG
1 TTTG
35733225 AGTAGGTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.30, C:0.00, G:0.21, T:0.49
Consensus pattern (20 bp):
TTTGGATGTGAAATTAATAT
Found at i:35744814 original size:29 final size:29
Alignment explanation
Indices: 35744782--35744866 Score: 118
Period size: 29 Copynumber: 3.0 Consensus size: 29
35744772 GCATGACTAT
35744782 GAATGTGATTTGGGCCTAATGGGCCATAC
1 GAATGTGATTTGGGCCTAATGGGCCATAC
* *
35744811 GAATGTGATTTAGGCCTAATGGGCCATAT
1 GAATGTGATTTGGGCCTAATGGGCCATAC
* * *
35744840 GAATG-AAATTGGGCCTAGTGGGCCATA
1 GAATGTGATTTGGGCCTAATGGGCCATA
35744867 TACATGTATG
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
28 18 0.36
29 32 0.64
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
GAATGTGATTTGGGCCTAATGGGCCATAC
Found at i:35747006 original size:15 final size:15
Alignment explanation
Indices: 35746986--35747016 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
35746976 TAAAAAGTTT
35746986 ATTTTAATCAAGATG
1 ATTTTAATCAAGATG
35747001 ATTTTAATCAAGATG
1 ATTTTAATCAAGATG
35747016 A
1 A
35747017 CATAATTGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.06, G:0.13, T:0.39
Consensus pattern (15 bp):
ATTTTAATCAAGATG
Found at i:35753466 original size:143 final size:143
Alignment explanation
Indices: 35753208--35753494 Score: 574
Period size: 143 Copynumber: 2.0 Consensus size: 143
35753198 AGTTGTTGGG
35753208 ACCTTGTTTCCATAAACCTAGCCAGTAAATATTTTTATTAAATATTTATAGAGTGGCTATATAGG
1 ACCTTGTTTCCATAAACCTAGCCAGTAAATATTTTTATTAAATATTTATAGAGTGGCTATATAGG
35753273 TGTATTGAAGTTTGATCCAAAAATTTTAACATTTAGATAGTTAATTAAAGAAAAAGAACTAAATT
66 TGTATTGAAGTTTGATCCAAAAATTTTAACATTTAGATAGTTAATTAAAGAAAAAGAACTAAATT
35753338 GTAAAAGCTGGAA
131 GTAAAAGCTGGAA
35753351 ACCTTGTTTCCATAAACCTAGCCAGTAAATATTTTTATTAAATATTTATAGAGTGGCTATATAGG
1 ACCTTGTTTCCATAAACCTAGCCAGTAAATATTTTTATTAAATATTTATAGAGTGGCTATATAGG
35753416 TGTATTGAAGTTTGATCCAAAAATTTTAACATTTAGATAGTTAATTAAAGAAAAAGAACTAAATT
66 TGTATTGAAGTTTGATCCAAAAATTTTAACATTTAGATAGTTAATTAAAGAAAAAGAACTAAATT
35753481 GTAAAAGCTGGAA
131 GTAAAAGCTGGAA
35753494 A
1 A
35753495 AGTTAATCGC
Statistics
Matches: 144, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
143 144 1.00
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.35
Consensus pattern (143 bp):
ACCTTGTTTCCATAAACCTAGCCAGTAAATATTTTTATTAAATATTTATAGAGTGGCTATATAGG
TGTATTGAAGTTTGATCCAAAAATTTTAACATTTAGATAGTTAATTAAAGAAAAAGAACTAAATT
GTAAAAGCTGGAA
Found at i:35755192 original size:23 final size:23
Alignment explanation
Indices: 35755166--35755210 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
35755156 ATATTGAATT
35755166 ATCTTGTAAAATGTTTAA-TTTAC
1 ATCTT-TAAAATGTTTAAGTTTAC
* *
35755189 ATCTTTTACATGTTTAAGTTTA
1 ATCTTTAAAATGTTTAAGTTTA
35755211 TTACAAACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.31, C:0.09, G:0.09, T:0.51
Consensus pattern (23 bp):
ATCTTTAAAATGTTTAAGTTTAC
Found at i:35755235 original size:20 final size:20
Alignment explanation
Indices: 35755203--35755242 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
35755193 TTTACATGTT
35755203 TAAGTTTATTACAAACTTAC
1 TAAGTTTATTACAAACTTAC
*
35755223 TAAGCTTTA-TACAAGCTTAC
1 TAAG-TTTATTACAAACTTAC
35755243 CTCATTTTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.38, C:0.17, G:0.07, T:0.38
Consensus pattern (20 bp):
TAAGTTTATTACAAACTTAC
Found at i:35755764 original size:10 final size:10
Alignment explanation
Indices: 35755749--35755775 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
35755739 TGAATAGGCA
35755749 TAAATGGGTG
1 TAAATGGGTG
35755759 TAAATGGGTG
1 TAAATGGGTG
35755769 TAAATGG
1 TAAATGG
35755776 TATGGCTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.37, T:0.30
Consensus pattern (10 bp):
TAAATGGGTG
Found at i:35760237 original size:27 final size:27
Alignment explanation
Indices: 35760146--35760212 Score: 125
Period size: 27 Copynumber: 2.5 Consensus size: 27
35760136 TAGGGCAAAT
*
35760146 CAGTCATTTTACCTTACAGGGGTATTA
1 CAGTCATTTTACCCTACAGGGGTATTA
35760173 CAGTCATTTTACCCTACAGGGGTATTA
1 CAGTCATTTTACCCTACAGGGGTATTA
35760200 CAGTCATTTTACC
1 CAGTCATTTTACC
35760213 GTATAGGGAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.36
Consensus pattern (27 bp):
CAGTCATTTTACCCTACAGGGGTATTA
Found at i:35760316 original size:27 final size:27
Alignment explanation
Indices: 35760229--35760308 Score: 133
Period size: 27 Copynumber: 3.0 Consensus size: 27
35760219 GGATATTTTG
*
35760229 GTCATTTTATCTCATAAGGGCAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
*
35760256 GTCATTTTATCACATAAGGGAAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
*
35760283 GTCATTTTATCGCATAAGGGCAAAAT
1 GTCATTTTATCACATAAGGGCAAAAT
35760309 AGCCATTTAG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.31
Consensus pattern (27 bp):
GTCATTTTATCACATAAGGGCAAAATC
Found at i:35772730 original size:17 final size:17
Alignment explanation
Indices: 35772708--35772749 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
35772698 ATGGGCTAAA
*
35772708 TGGGCCCAATGGGTTGT
1 TGGGCCCAATGGGCTGT
*
35772725 TGGGCCCGATGGGCTGT
1 TGGGCCCAATGGGCTGT
*
35772742 TCGGCCCA
1 TGGGCCCA
35772750 TAATAGGAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.10, C:0.26, G:0.40, T:0.24
Consensus pattern (17 bp):
TGGGCCCAATGGGCTGT
Found at i:35772862 original size:29 final size:28
Alignment explanation
Indices: 35772807--35772921 Score: 122
Period size: 29 Copynumber: 4.0 Consensus size: 28
35772797 GTGAGCATGA
* * *
35772807 ATATGAATGTGACTGGGCCTAACGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
35772835 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* * *
35772864 ATATACAGGTGATTTGGGCCTAATGGACC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
** * *
35772893 ATACGAATATGATTGGGCTTAATGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
35772921 A
1 A
35772922 GATACAGGTA
Statistics
Matches: 73, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
28 26 0.36
29 47 0.64
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.27
Consensus pattern (28 bp):
ATATAAATGTGATTGGGCCTAATGGGCC
Found at i:35772927 original size:57 final size:58
Alignment explanation
Indices: 35772820--35772930 Score: 152
Period size: 57 Copynumber: 1.9 Consensus size: 58
35772810 TGAATGTGAC
* * * *
35772820 TGGGCCTAACGGGCCATATAAATGTGATTTGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAACGGACCATACAAATATGATTTGGGCCTAATGGGCCAGATACAGGTGATT
* * *
35772878 TGGGCCTAATGGACCATACGAATATGA-TTGGGCTTAATGGGCCAGATACAGGT
1 TGGGCCTAACGGACCATACAAATATGATTTGGGCCTAATGGGCCAGATACAGGT
35772931 ATGTGAATTT
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 24 0.52
58 22 0.48
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (58 bp):
TGGGCCTAACGGACCATACAAATATGATTTGGGCCTAATGGGCCAGATACAGGTGATT
Found at i:35775799 original size:44 final size:45
Alignment explanation
Indices: 35775698--35775956 Score: 279
Period size: 45 Copynumber: 5.9 Consensus size: 45
35775688 ATCGTACGAC
* * *
35775698 ACTATTCGGGCCTTTGAGCCTAGCCGGCTATAATGCCTGTGAGAC
1 ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGAT
35775743 ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC-GTGAGAT
1 ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGAT
* *
35775787 ACTATTCGGGCCTTTGAGCCTAGCAGGCTACAATACCGGTGAGAT
1 ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGAT
*
35775832 ATTATTCGGG-CTTTCGAGCCTAGCAGGCTATAATGCCGGTGA-A-
1 ACTATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGCCGGTGAGAT
** *
35775875 AAGATATCGGGCC-TCGAGCCTAGCAGG-TGA-AATGCCGGTGA-AT
1 ACTAT-TCGGGCCTTTGAGCCTAGCAGGCT-ATAATGCCGGTGAGAT
** * *
35775918 GA--ATTCGGGTTTTTAAAACCTAGCAGGCTA-AATGCCGGT
1 -ACTATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGCCGGT
35775957 AATTTGATGA
Statistics
Matches: 189, Mismatches: 15, Indels: 22
0.84 0.07 0.10
Matches are distributed among these distances:
41 5 0.03
42 16 0.08
43 36 0.19
44 54 0.29
45 78 0.41
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (45 bp):
ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGAT
Found at i:35775851 original size:89 final size:89
Alignment explanation
Indices: 35775698--35775869 Score: 274
Period size: 89 Copynumber: 1.9 Consensus size: 89
35775688 ATCGTACGAC
* * * *
35775698 ACTATTCGGGCCTTTGAGCCTAGCCGGCTATAATGCCTGTGAGACACTATTCGGGCCTTTGAGCC
1 ACTATTCGGGCCTTTGAGCCTAGCAGGCTACAATACCGGTGAGACACTATTCGGGCCTTTGAGCC
35775763 TAGCAGGCTATAATGCCGTGAGAT
66 TAGCAGGCTATAATGCCGTGAGAT
* *
35775787 ACTATTCGGGCCTTTGAGCCTAGCAGGCTACAATACCGGTGAGATATTATTCGGG-CTTTCGAGC
1 ACTATTCGGGCCTTTGAGCCTAGCAGGCTACAATACCGGTGAGACACTATTCGGGCCTTT-GAGC
35775851 CTAGCAGGCTATAATGCCG
65 CTAGCAGGCTATAATGCCG
35775870 GTGAAAAGAT
Statistics
Matches: 76, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
88 4 0.05
89 72 0.95
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.27
Consensus pattern (89 bp):
ACTATTCGGGCCTTTGAGCCTAGCAGGCTACAATACCGGTGAGACACTATTCGGGCCTTTGAGCC
TAGCAGGCTATAATGCCGTGAGAT
Found at i:35775885 original size:89 final size:89
Alignment explanation
Indices: 35775700--35775901 Score: 268
Period size: 89 Copynumber: 2.3 Consensus size: 89
35775690 CGTACGACAC
* * * *
35775700 TATTCGGGCCTTTGAGCCTAGCCGGCTATAATGCCTGTGAGACACTATTCGGGCCTTTGAGCCTA
1 TATTCGGGCCTTTGAGCCTAGCAGGCTACAATACCGGTGAGACACTATTCGGGCCTTTGAGCCTA
* *
35775765 GCAGGCTATAATGCCGTGAGATAC
66 GCAGGCTATAATGCCGTGAGAAAA
* *
35775789 TATTCGGGCCTTTGAGCCTAGCAGGCTACAATACCGGTGAGATATTATTCGGG-CTTTCGAGCCT
1 TATTCGGGCCTTTGAGCCTAGCAGGCTACAATACCGGTGAGACACTATTCGGGCCTTT-GAGCCT
35775853 AGCAGGCTATAATGCCGGTGA-AAAGA
65 AGCAGGCTATAATGCC-GTGAGAAA-A
*
35775879 TA-TCGGGCC-TCGAGCCTAGCAGG
1 TATTCGGGCCTTTGAGCCTAGCAGG
35775902 TGAAATGCCG
Statistics
Matches: 101, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
88 17 0.17
89 78 0.77
90 6 0.06
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (89 bp):
TATTCGGGCCTTTGAGCCTAGCAGGCTACAATACCGGTGAGACACTATTCGGGCCTTTGAGCCTA
GCAGGCTATAATGCCGTGAGAAAA
Found at i:35780747 original size:46 final size:46
Alignment explanation
Indices: 35780536--35780849 Score: 320
Period size: 46 Copynumber: 6.7 Consensus size: 46
35780526 GGGTGTAATA
* ** * *
35780536 CCGATGACATGTCCCAGACATGGTCTTACACTGGCTCATCCATC-AAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAACACAT-C-TCGTAG
* * * *
35780583 TCGATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCACATATCTGT-G
1 CCGATGCCATGTCCCAGACATGGTCTTACACTA----ACACATCTC-GTAG
* * *
35780633 CCGATGCCATGTCCCAGACATGGTCTTACATTGACACCTCTATACGT-G
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAACACATC--T-CGTAG
35780681 CCGATGCCATGTCCCAGACATGGTCTTACACTAACACATCTCGTAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAACACATCTCGTAG
35780727 CCGATGCCATGTCCCAGACATGGTCTTACACTAACACATCTCGTAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAACACATCTCGTAG
* **
35780773 CCGATG-CATGTCCTAGACAT-GTCTTACACTGGCTTACATCTCG-AG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAAC--ACATCTCGTAG
35780818 CCTGATG-CATGTCCCAGACAT-GTCTTACACTA
1 CC-GATGCCATGTCCCAGACATGGTCTTACACTA
35780850 GCGCATAAAT
Statistics
Matches: 231, Mismatches: 23, Indels: 27
0.82 0.08 0.10
Matches are distributed among these distances:
44 11 0.05
45 20 0.09
46 93 0.40
47 29 0.13
48 41 0.18
49 3 0.01
50 30 0.13
51 4 0.02
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (46 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAACACATCTCGTAG
Found at i:35780751 original size:94 final size:93
Alignment explanation
Indices: 35780536--35780848 Score: 340
Period size: 94 Copynumber: 3.3 Consensus size: 93
35780526 GGGTGTAATA
* * * *
35780536 CCGATGACATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGT--CGATGCCATGTCCTA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACACAT-CAT-ACGTGCCGATGCCATGTCCTA
* *
35780599 GACATGGTCTTACACTAGCTCTCACATATCTGT-G
64 GACATGGTCTTACACTA----ACACATCTC-GTAG
* * *
35780633 CCGATGCCATGTCCCAGACATGGTCTTACATTGACACCTCTATACGTGCCGATGCCATGTCCCAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACACATC-ATACGTGCCGATGCCATGTCCTAG
35780698 ACATGGTCTTACACTAACACATCTCGTAG
65 ACATGGTCTTACACTAACACATCTCGTAG
*
35780727 CCGATGCCATGTCCCAGACATGGTCTTACACTAACACATC-T-CGTAGCCGATG-CATGTCCTAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCATACGT-GCCGATGCCATGTCCTAG
**
35780789 ACAT-GTCTTACACTGGCTTACATCTCG-AG
65 ACATGGTCTTACACTAAC--ACATCTCGTAG
35780818 CCTGATG-CATGTCCCAGACAT-GTCTTACACT
1 CC-GATGCCATGTCCCAGACATGGTCTTACACT
35780849 AGCGCATAAA
Statistics
Matches: 193, Mismatches: 15, Indels: 23
0.84 0.06 0.10
Matches are distributed among these distances:
90 21 0.11
91 34 0.18
92 20 0.10
93 2 0.01
94 45 0.23
96 4 0.02
97 36 0.19
98 31 0.16
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (93 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCATACGTGCCGATGCCATGTCCTAGA
CATGGTCTTACACTAACACATCTCGTAG
Found at i:35793774 original size:28 final size:29
Alignment explanation
Indices: 35793742--35793825 Score: 118
Period size: 28 Copynumber: 3.0 Consensus size: 29
35793732 TCTCTTTCAA
*
35793742 ATGGCCCATTAGGCCC-ATTCACATTTAT
1 ATGGCCCATTAGGCCCAAATCACATTTAT
* *
35793770 GTGGCCCATTAGGCCCAAATCACATTCAT
1 ATGGCCCATTAGGCCCAAATCACATTTAT
*
35793799 ATGG-CCACTAGGCCCAAATCACATTTA
1 ATGGCCCATTAGGCCCAAATCACATTTA
35793826 CAATCATGAT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
28 36 0.73
29 13 0.27
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.26
Consensus pattern (29 bp):
ATGGCCCATTAGGCCCAAATCACATTTAT
Found at i:35794589 original size:16 final size:17
Alignment explanation
Indices: 35794557--35794593 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
35794547 GAAAATAAAA
35794557 TTTGAGATTTCGGGATT
1 TTTGAGATTTCGGGATT
*
35794574 TTTGAG-TTTTGGGATT
1 TTTGAGATTTCGGGATT
35794590 TTTG
1 TTTG
35794594 GGGCATTACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.14, C:0.03, G:0.30, T:0.54
Consensus pattern (17 bp):
TTTGAGATTTCGGGATT
Found at i:35797225 original size:27 final size:27
Alignment explanation
Indices: 35797185--35797258 Score: 96
Period size: 27 Copynumber: 2.7 Consensus size: 27
35797175 TGGATAAGTT
*
35797185 GTAGAATTATTGAAATACCCCTGTA-G
1 GTAGAATTACTGAAATACCCCTGTATG
*
35797211 GATAGAATTACTGAAATACCCTTGTATG
1 G-TAGAATTACTGAAATACCCCTGTATG
* *
35797239 GTAGAATTACCGAGATACCC
1 GTAGAATTACTGAAATACCC
35797259 TTGTGGGGTA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 1 0.02
27 39 0.93
28 2 0.05
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (27 bp):
GTAGAATTACTGAAATACCCCTGTATG
Found at i:35797259 original size:27 final size:26
Alignment explanation
Indices: 35797185--35797276 Score: 94
Period size: 27 Copynumber: 3.4 Consensus size: 26
35797175 TGGATAAGTT
** *
35797185 GTAGAATTATTGAAATACCCCTGTAG
1 GTAGAATTACCGAAATACCCTTGTAG
*
35797211 GATAGAATTACTGAAATACCCTTGTATG
1 G-TAGAATTACCGAAATACCCTTGTA-G
* *
35797239 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCTTGT-AG
*
35797266 GTAAAATTACC
1 GTAGAATTACC
35797277 ATTTTGCCCC
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
26 1 0.02
27 54 0.95
28 2 0.04
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (26 bp):
GTAGAATTACCGAAATACCCTTGTAG
Found at i:35802472 original size:40 final size:40
Alignment explanation
Indices: 35802388--35802612 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
35802378 TTGAATGATG
* * * *
35802388 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
35802428 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
35802468 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
35802507 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
35802547 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
35802588 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
35802613 AACGAGGAGC
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
39 34 0.21
40 121 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:35802634 original size:119 final size:119
Alignment explanation
Indices: 35802388--35802645 Score: 283
Period size: 119 Copynumber: 2.2 Consensus size: 119
35802378 TTGAATGATG
* *
35802388 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* ** *
35802453 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
* * * **
35802507 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
35802570 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTGA-CTAAA
* *
35802627 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
35802646 TACGTGATTT
Statistics
Matches: 117, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 83 0.71
120 31 0.26
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
Found at i:35805130 original size:40 final size:40
Alignment explanation
Indices: 35805086--35805310 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
35805076 CTTGCGCAAG
* * * * *
35805086 GCCTTTGGGTCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCGCTAGCACAAAT
*
35805126 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCGCTAGCACAAAT
* *
35805166 GCCTTCGGGTTTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCGCTAGCACAAAT
* * * *
35805206 GCCTTTGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-GCTAGCACAAAT
* * * * * * *
35805246 GCCTCCGGATCTTAGTCCGGTTATAGTCACCTAGTACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-GCTAGCACAAAT
* *
35805287 GCCTTCGGGACTTAGCCCAGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
35805311 CATTCGAATA
Statistics
Matches: 152, Mismatches: 31, Indels: 3
0.82 0.17 0.02
Matches are distributed among these distances:
39 1 0.01
40 124 0.82
41 27 0.18
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:35815521 original size:22 final size:21
Alignment explanation
Indices: 35815493--35815546 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
35815483 TACCTAAAGT
* *
35815493 AGTTTCAGAATATTCTAATCAT
1 AGTTTCAGAA-ATTCTAAACAG
*
35815515 ATTTTCAGACAATTCTAAACAG
1 AGTTTCAGA-AATTCTAAACAG
35815537 AGTTTCAGAA
1 AGTTTCAGAA
35815547 CTTACAAGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 1 0.04
22 25 0.93
23 1 0.04
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.35
Consensus pattern (21 bp):
AGTTTCAGAAATTCTAAACAG
Found at i:35815634 original size:14 final size:14
Alignment explanation
Indices: 35815605--35815646 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
35815595 AAATATTTCA
*
35815605 ATTTATTTACAAATC
1 ATTTCTTTA-AAATC
35815620 ATTTCTTTAAAATC
1 ATTTCTTTAAAATC
*
35815634 A-ATCTTTAAAATC
1 ATTTCTTTAAAATC
35815647 CAAATCCACA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 11 0.44
14 6 0.24
15 8 0.32
ACGTcount: A:0.40, C:0.14, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTCTTTAAAATC
Found at i:35825515 original size:46 final size:45
Alignment explanation
Indices: 35825465--35825636 Score: 215
Period size: 46 Copynumber: 3.8 Consensus size: 45
35825455 TGGTTGAGCA
35825465 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * *
35825511 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT-TATG-GA-T-GCGAAG
35825557 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
35825603 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
35825637 GGGGCGGGTT
Statistics
Matches: 108, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 96 0.89
47 2 0.02
48 3 0.03
49 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:35825619 original size:92 final size:92
Alignment explanation
Indices: 35825462--35825631 Score: 313
Period size: 92 Copynumber: 1.8 Consensus size: 92
35825452 GGATGGTTGA
* *
35825462 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
35825527 TGAGTCCGAGTTCGTGAATGTAACTAG
66 TGAGTCCGAGTTCGTGAATGTAACTAG
*
35825554 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
35825619 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
35825632 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAATGTAACTAG
Found at i:35828845 original size:28 final size:28
Alignment explanation
Indices: 35828811--35828867 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
35828801 TTCAAAGCCA
*
35828811 AAATGTCATTATATGACCAAATATACTT
1 AAATGTCATTATATAACCAAATATACTT
35828839 AAATGTCATTATATAACCAAATATACTT
1 AAATGTCATTATATAACCAAATATACTT
35828867 A
1 A
35828868 CACTTATATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.46, C:0.14, G:0.05, T:0.35
Consensus pattern (28 bp):
AAATGTCATTATATAACCAAATATACTT
Found at i:35829297 original size:45 final size:45
Alignment explanation
Indices: 35829148--35829404 Score: 208
Period size: 45 Copynumber: 5.9 Consensus size: 45
35829138 ATTGAACAAC
* * ** * *
35829148 GCCAACGTCCCAGACGAGGTCTTACATGCTATCTC--ATATCGAT
1 GCCAACGTCCCAGACGTGGTCTTACACGAAAACACATATATCGAT
* * *
35829191 GCC-ACTATCCTAGACAG-GGTCTTACACG-AATCA-A-ATA-CGAT
1 GCCAAC-GTCCCAGAC-GTGGTCTTACACGAAAACACATATATCGAT
* * * * * *
35829232 GCCGATGTCCTAGACATGGTCTTACACGTAACCACATATATCGAT
1 GCCAACGTCCCAGACGTGGTCTTACACGAAAACACATATATCGAT
* *
35829277 GCCAACGTCCCAGACGTGGTCTTACTCAAAAACACATATAT-GAT
1 GCCAACGTCCCAGACGTGGTCTTACACGAAAACACATATATCGAT
* * * * *
35829321 GCAAATGTCCCAGACGTGGCCTTACACGAAAACATATACATCGAT
1 GCCAACGTCCCAGACGTGGTCTTACACGAAAACACATATATCGAT
* * *
35829366 GCCAACGTCCTAGACATGATCTTACACGAAAACACATAT
1 GCCAACGTCCCAGACGTGGTCTTACACGAAAACACATAT
35829405 CGAAATCCTA
Statistics
Matches: 172, Mismatches: 32, Indels: 18
0.77 0.14 0.08
Matches are distributed among these distances:
41 26 0.15
42 13 0.08
43 21 0.12
44 41 0.24
45 71 0.41
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.23
Consensus pattern (45 bp):
GCCAACGTCCCAGACGTGGTCTTACACGAAAACACATATATCGAT
Found at i:35829337 original size:44 final size:45
Alignment explanation
Indices: 35829183--35829404 Score: 213
Period size: 45 Copynumber: 5.0 Consensus size: 45
35829173 ATGCTATCTC
* * * *
35829183 ATATCGATGCC-ACTATCCTAGACAGGGTCTTACACG-AATCA-A-
1 ATATCGATGCCAAC-GTCCCAGACATGGTCTTACACGAAAACACAT
* * * * *
35829225 ATA-CGATGCCGATGTCCTAGACATGGTCTTACACGTAACCACAT
1 ATATCGATGCCAACGTCCCAGACATGGTCTTACACGAAAACACAT
* * *
35829269 ATATCGATGCCAACGTCCCAGACGTGGTCTTACTCAAAAACACAT
1 ATATCGATGCCAACGTCCCAGACATGGTCTTACACGAAAACACAT
* * * * *
35829314 ATAT-GATGCAAATGTCCCAGACGTGGCCTTACACGAAAACATAT
1 ATATCGATGCCAACGTCCCAGACATGGTCTTACACGAAAACACAT
* * *
35829358 ACATCGATGCCAACGTCCTAGACATGATCTTACACGAAAACACAT
1 ATATCGATGCCAACGTCCCAGACATGGTCTTACACGAAAACACAT
35829403 AT
1 AT
35829405 CGAAATCCTA
Statistics
Matches: 147, Mismatches: 27, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
41 27 0.18
42 8 0.05
43 1 0.01
44 40 0.27
45 71 0.48
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.23
Consensus pattern (45 bp):
ATATCGATGCCAACGTCCCAGACATGGTCTTACACGAAAACACAT
Found at i:35829364 original size:89 final size:89
Alignment explanation
Indices: 35829236--35829404 Score: 230
Period size: 89 Copynumber: 1.9 Consensus size: 89
35829226 TACGATGCCG
* * * * * * *
35829236 ATGTCCTAGACATGGTCTTACACGTAACCACATATATCGATGCCAACGTCCCAGACGTGGTCTTA
1 ATGTCCCAGACATGGCCTTACACGAAAACACATACATCGATGCCAACGTCCCAGACATGATCTTA
*
35829301 CTCAAAAACACATATATGATGCAA
66 CACAAAAACACATATATGATGCAA
* * *
35829325 ATGTCCCAGACGTGGCCTTACACGAAAACATATACATCGATGCCAACGTCCTAGACATGATCTTA
1 ATGTCCCAGACATGGCCTTACACGAAAACACATACATCGATGCCAACGTCCCAGACATGATCTTA
*
35829390 CACGAAAACACATAT
66 CACAAAAACACATAT
35829405 CGAAATCCTA
Statistics
Matches: 68, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
89 68 1.00
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.23
Consensus pattern (89 bp):
ATGTCCCAGACATGGCCTTACACGAAAACACATACATCGATGCCAACGTCCCAGACATGATCTTA
CACAAAAACACATATATGATGCAA
Found at i:35829972 original size:15 final size:15
Alignment explanation
Indices: 35829949--35829979 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
35829939 TCAAAAATTC
*
35829949 CAATGCAAAACATAT
1 CAATCCAAAACATAT
35829964 CAATCCAAAACATAT
1 CAATCCAAAACATAT
35829979 C
1 C
35829980 TTTCATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.26, G:0.03, T:0.19
Consensus pattern (15 bp):
CAATCCAAAACATAT
Found at i:35830510 original size:14 final size:15
Alignment explanation
Indices: 35830493--35830521 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
35830483 TCGCAAAAAT
35830493 TTCACACA-TATAAA
1 TTCACACATTATAAA
35830507 TTCACACATTATAAA
1 TTCACACATTATAAA
35830522 CATAGAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.31
Consensus pattern (15 bp):
TTCACACATTATAAA
Found at i:35838694 original size:38 final size:38
Alignment explanation
Indices: 35838520--35838747 Score: 215
Period size: 38 Copynumber: 5.9 Consensus size: 38
35838510 ATTTGATGTG
* * *
35838520 TATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCTGGAATTA
1 TATCCGGG-TTAAA-TCCCGCAGGCT-TCGTGCTGGTATTA
* ** * *
35838560 TATTCGGGTTAAATCCCATAGGCTTCGCGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
* * *
35838598 TATCCGGGTTAAATCCCACAGGCTTCGCGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
*
35838636 TATCTGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
* * ** *
35838674 TATCCGGGTTAAATCTCGCAGGCCTAATGTTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
* * * *
35838712 TATCTGAGCTTAAAGTCCCGCAGGTTTTGTGCTGGT
1 TATCCG-GGTTAAA-TCCCGCAGGCTTCGTGCTGGT
35838748 GACTGGATTT
Statistics
Matches: 157, Mismatches: 28, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
37 1 0.01
38 123 0.78
39 11 0.07
40 22 0.14
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.31
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
Found at i:35840585 original size:30 final size:30
Alignment explanation
Indices: 35840550--35840613 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
35840540 GTCCTAACCT
* *
35840550 TTTTCATAGCTCAATAGCTGAAGCTATCCC
1 TTTTCATAGCCCAATAACTGAAGCTATCCC
*
35840580 TTTTCATAGCCCGATAACTGAAGCTATCCC
1 TTTTCATAGCCCAATAACTGAAGCTATCCC
35840610 TTTT
1 TTTT
35840614 TCATTATTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.27, G:0.12, T:0.36
Consensus pattern (30 bp):
TTTTCATAGCCCAATAACTGAAGCTATCCC
Found at i:35840647 original size:30 final size:30
Alignment explanation
Indices: 35840605--35840830 Score: 138
Period size: 30 Copynumber: 7.6 Consensus size: 30
35840595 AACTGAAGCT
*
35840605 ATCCCTTTTTCATTATTTGATGGTCATCACC
1 ATCCC-TTTTCATTATTTGATGGTCGTCACC
*
35840636 ATCCCTTTTCATT-GTTGATGGTCGTCACC
1 ATCCCTTTTCATTATTTGATGGTCGTCACC
* * * *
35840665 ATCCCTTTTCATAATTTGATTG-C-TGAAGCT
1 ATCCCTTTTCATTATTTGATGGTCGT-CA-CC
* ** ** * ***
35840695 ATCACTTTTCACAATTCAATAG-CCAAAGCC
1 ATCCCTTTTCATTATTTGATGGTCGTCA-CC
* * * *
35840725 ATCCCTTTTCACTCTTCGATGGTCGTCA-T
1 ATCCCTTTTCATTATTTGATGGTCGTCACC
35840754 ATCCCTTTTCATTATTTGATGGTCGTCACC
1 ATCCCTTTTCATTATTTGATGGTCGTCACC
* * * * *** *
35840784 GTCCCTTTTCATAATTTGATAGCCGAGGCT
1 ATCCCTTTTCATTATTTGATGGTCGTCACC
35840814 ATCCCTTTTCATTATTT
1 ATCCCTTTTCATTATTT
35840831 TGATAGCTGA
Statistics
Matches: 152, Mismatches: 37, Indels: 13
0.75 0.18 0.06
Matches are distributed among these distances:
28 1 0.01
29 53 0.35
30 91 0.60
31 7 0.05
ACGTcount: A:0.20, C:0.26, G:0.12, T:0.41
Consensus pattern (30 bp):
ATCCCTTTTCATTATTTGATGGTCGTCACC
Found at i:35840658 original size:29 final size:30
Alignment explanation
Indices: 35840605--35840676 Score: 110
Period size: 29 Copynumber: 2.4 Consensus size: 30
35840595 AACTGAAGCT
*
35840605 ATCCCTTTTTCATTATTTGATGGTCATCACC
1 ATCCC-TTTTCATTAGTTGATGGTCATCACC
*
35840636 ATCCCTTTTCATT-GTTGATGGTCGTCACC
1 ATCCCTTTTCATTAGTTGATGGTCATCACC
35840665 ATCCCTTTTCAT
1 ATCCCTTTTCAT
35840677 AATTTGATTG
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
29 26 0.67
30 8 0.21
31 5 0.13
ACGTcount: A:0.17, C:0.28, G:0.11, T:0.44
Consensus pattern (30 bp):
ATCCCTTTTCATTAGTTGATGGTCATCACC
Found at i:35840761 original size:29 final size:29
Alignment explanation
Indices: 35840725--35840781 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
35840715 AGCCAAAGCC
*
35840725 ATCCCTTTTCACTCTTCGATGGTCGTCAT
1 ATCCCTTTTCACTATTCGATGGTCGTCAT
* *
35840754 ATCCCTTTTCATTATTTGATGGTCGTCA
1 ATCCCTTTTCACTATTCGATGGTCGTCA
35840782 CCGTCCCTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.16, C:0.26, G:0.14, T:0.44
Consensus pattern (29 bp):
ATCCCTTTTCACTATTCGATGGTCGTCAT
Found at i:35840792 original size:119 final size:120
Alignment explanation
Indices: 35840600--35840824 Score: 319
Period size: 119 Copynumber: 1.9 Consensus size: 120
35840590 CCGATAACTG
* * *
35840600 AAGCTATCCCTTTTTCATTATTTGATGGTCATCACCATCCCTTTTCATTGTTGATGGTCGTCACC
1 AAGCCATCCCTTTTTCACTATTCGATGGTCATCACCATCCCTTTTCATTGTTGATGGTCGTCACC
* *
35840665 ATCCCTTTTCATAATTTGATTGCTGAAGCTATCACTTTTCACAATTCAATAGCCA
66 ATCCCTTTTCATAATTTGATAGCCGAAGCTATCACTTTTCACAATTCAATAGCCA
* * * *
35840720 AAGCCATCCC-TTTTCACTCTTCGATGGTCGTCA-TATCCCTTTTCATTATTTGATGGTCGTCAC
1 AAGCCATCCCTTTTTCACTATTCGATGGTCATCACCATCCCTTTTCATT-GTTGATGGTCGTCAC
* * *
35840783 CGTCCCTTTTCATAATTTGATAGCCGAGGCTATCCCTTTTCA
65 CATCCCTTTTCATAATTTGATAGCCGAAGCTATCACTTTTCA
35840825 TTATTTTGAT
Statistics
Matches: 92, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
118 13 0.14
119 70 0.76
120 9 0.10
ACGTcount: A:0.21, C:0.27, G:0.13, T:0.40
Consensus pattern (120 bp):
AAGCCATCCCTTTTTCACTATTCGATGGTCATCACCATCCCTTTTCATTGTTGATGGTCGTCACC
ATCCCTTTTCATAATTTGATAGCCGAAGCTATCACTTTTCACAATTCAATAGCCA
Found at i:35840836 original size:31 final size:31
Alignment explanation
Indices: 35840753--35840859 Score: 110
Period size: 30 Copynumber: 3.5 Consensus size: 31
35840743 ATGGTCGTCA
* * **
35840753 TATCCCTTTTCATT-ATTTGATGGTCGTCAC
1 TATCCCTTTTCATTAATTTGATAGCCGAAAC
** **
35840783 CGTCCCTTTTCA-TAATTTGATAGCCGAGGC
1 TATCCCTTTTCATTAATTTGATAGCCGAAAC
* *
35840813 TATCCCTTTTCATTATTTTGATAGCTGAAAC
1 TATCCCTTTTCATTAATTTGATAGCCGAAAC
35840844 TATCCCTTTTCATTAA
1 TATCCCTTTTCATTAA
35840860 CCGATGATCA
Statistics
Matches: 61, Mismatches: 14, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
29 1 0.02
30 31 0.51
31 29 0.48
ACGTcount: A:0.21, C:0.23, G:0.12, T:0.43
Consensus pattern (31 bp):
TATCCCTTTTCATTAATTTGATAGCCGAAAC
Found at i:35840945 original size:12 final size:14
Alignment explanation
Indices: 35840916--35840947 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
35840906 TGACATTATA
35840916 TAAAATAATAACTT
1 TAAAATAATAACTT
35840930 TAAAAT-ATAA-TT
1 TAAAATAATAACTT
35840942 TAAAAT
1 TAAAAT
35840948 GCTATTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 8 0.44
13 4 0.22
14 6 0.33
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (14 bp):
TAAAATAATAACTT
Found at i:35850759 original size:27 final size:27
Alignment explanation
Indices: 35850704--35850763 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
35850694 AGCATAGCTG
* *
35850704 CCAGAAACAGTAAATGTGGCAAAGCCA
1 CCAGTAACAGTAAATGTGACAAAGCCA
* * *
35850731 CCAGTAACAGTGAATGTGACATAGTCA
1 CCAGTAACAGTAAATGTGACAAAGCCA
35850758 CCAGTA
1 CCAGTA
35850764 CAATACTTTC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.40, C:0.22, G:0.22, T:0.17
Consensus pattern (27 bp):
CCAGTAACAGTAAATGTGACAAAGCCA
Found at i:35850918 original size:25 final size:27
Alignment explanation
Indices: 35850890--35850954 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 27
35850880 CATACAGAAA
35850890 CATA-AGG-GCATAATCGTCATTTTAC
1 CATACAGGCGCATAATCGTCATTTTAC
* *
35850915 CATACAGGCGCATTATGGTCATTTTAC
1 CATACAGGCGCATAATCGTCATTTTAC
* *
35850942 CCTACAGGGGCAT
1 CATACAGGCGCAT
35850955 TATGGTCCCT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 4 0.12
26 3 0.09
27 27 0.79
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (27 bp):
CATACAGGCGCATAATCGTCATTTTAC
Found at i:35850954 original size:27 final size:27
Alignment explanation
Indices: 35850905--35851098 Score: 186
Period size: 27 Copynumber: 7.4 Consensus size: 27
35850895 GGGCATAATC
* * *
35850905 GTCATTTTACCATACAGGCGCATTATG
1 GTCATTTTACCCTACAGGGGTATTATG
*
35850932 GTCATTTTACCCTACAGGGGCATTATG
1 GTCATTTTACCCTACAGGGGTATTATG
*
35850959 G------T-CCCTACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTATG
* * *
35850979 ATCATTTTTACCTTATAGGGGTATTATG
1 GTCA-TTTTACCCTACAGGGGTATTATG
*
35851007 GTCATTTTACCCTATAGGGGTATTATG
1 GTCATTTTACCCTACAGGGGTATTATG
* * **
35851034 GTCATTTTACCCTAGAAGGGTATTACA
1 GTCATTTTACCCTACAGGGGTATTATG
* *
35851061 GTCATTTTACCCTAAAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTATG
*
35851088 GTTATTTTACC
1 GTCATTTTACC
35851099 TATTTTGGGG
Statistics
Matches: 141, Mismatches: 18, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
20 16 0.11
21 1 0.01
27 106 0.75
28 18 0.13
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGTATTATG
Found at i:35854684 original size:46 final size:45
Alignment explanation
Indices: 35854513--35854686 Score: 183
Period size: 46 Copynumber: 3.8 Consensus size: 45
35854503 GGTTGAGCAT
* ***
35854513 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACGC
* * *
35854558 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAC---GC
35854603 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-AACGC
* * *
35854651 CCGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
35854687 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 13, Indels: 17
0.78 0.09 0.12
Matches are distributed among these distances:
42 6 0.06
44 2 0.02
45 27 0.25
46 33 0.31
47 28 0.26
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (45 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACGC
Found at i:35860376 original size:28 final size:29
Alignment explanation
Indices: 35860315--35860382 Score: 102
Period size: 28 Copynumber: 2.4 Consensus size: 29
35860305 TTCGAGCCAG
* *
35860315 ATGGGCTATATGAATGTGATTTGGGCCTA
1 ATGGGCCATATGAATGAGATTTGGGCCTA
35860344 ATGGGCCATATGAATGAGA-TTGGGCCTA
1 ATGGGCCATATGAATGAGATTTGGGCCTA
*
35860372 GTGGGCCATAT
1 ATGGGCCATAT
35860383 ACAAGTATGT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
28 19 0.53
29 17 0.47
ACGTcount: A:0.25, C:0.13, G:0.32, T:0.29
Consensus pattern (29 bp):
ATGGGCCATATGAATGAGATTTGGGCCTA
Found at i:35863219 original size:46 final size:46
Alignment explanation
Indices: 35863113--35863332 Score: 223
Period size: 46 Copynumber: 4.7 Consensus size: 46
35863103 TTATTTGTGT
* * * * *
35863113 GCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAGACG-AGA
1 GCCAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCTCGAGATGTA-A
* * * *
35863161 GCTAGTGTAAGACATATCTAGCACATACATCGGCCTCGAGATGTAA
1 GCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATGTAA
* * *
35863207 GCCAGTGTAAGACATGTTTGGGACATGCATTGGCCTCGAGATGTAA
1 GCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATGTAA
*
35863253 GCTAGTGTAAGACATGTCTAGGACATGCATCGG-CTACGAGATGT--
1 GCCAGTGTAAGACATGTCTAGGACATGCATCGGCCT-CGAGATGTAA
* *
35863297 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 GCCAGTGTAAGA-CATGTCTAGGACAT-GCATCGGC
35863333 ATCAGACCCT
Statistics
Matches: 144, Mismatches: 23, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
44 10 0.07
45 15 0.10
46 96 0.67
47 12 0.08
48 11 0.08
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATGTAA
Found at i:35863273 original size:92 final size:91
Alignment explanation
Indices: 35863110--35863339 Score: 279
Period size: 92 Copynumber: 2.5 Consensus size: 91
35863100 GACTTATTTG
*
35863110 TGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAGACGAGAGCTAGTGTAAGACA
1 TGTGCCAGTGTAAGACCATGTCTGGGACAT-GCATCAGCATCGAGACGAGAGCTAGTGTAAGACA
35863175 TATCTAGCACATACATCGGCCT-CGAGA
65 TATCTAGCACATACATCGG-CTACGAGA
* ** * *
35863202 TGTAAGCCAGTGTAAGA-CATGTTTGGGACATGCATTGGCCTCGAGATGTA-AGCTAGTGTAAGA
1 TGT--GCCAGTGTAAGACCATGTCTGGGACATGCATCAGCATCGAGACG-AGAGCTAGTGTAAGA
* * *
35863265 CATGTCTAGGACATGCATCGGCTACGAGA
63 CATATCTAGCACATACATCGGCTACGAGA
* *
35863294 TGTGTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATC-AGAC
1 TGTGCCAGTGTAAGACCATGTCTGGGACAT-GCATCAGCATCGAGAC
35863340 CCTATGTTTG
Statistics
Matches: 118, Mismatches: 14, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
90 11 0.09
91 18 0.15
92 63 0.53
93 14 0.12
94 12 0.10
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (91 bp):
TGTGCCAGTGTAAGACCATGTCTGGGACATGCATCAGCATCGAGACGAGAGCTAGTGTAAGACAT
ATCTAGCACATACATCGGCTACGAGA
Found at i:35865140 original size:26 final size:27
Alignment explanation
Indices: 35865111--35865175 Score: 69
Period size: 26 Copynumber: 2.4 Consensus size: 27
35865101 TAGAATTATT
*
35865111 GAAATACCCCTGTAGGAT-GAATTACC
1 GAAATACCCCTGTAGGATAGAAGTACC
* * * *
35865137 GAAATAACCTTGTAGGGTAGGAGTACC
1 GAAATACCCCTGTAGGATAGAAGTACC
*
35865164 GATATACCCCTG
1 GAAATACCCCTG
35865176 GAGGGTAAAA
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
26 15 0.50
27 15 0.50
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.23
Consensus pattern (27 bp):
GAAATACCCCTGTAGGATAGAAGTACC
Found at i:35865956 original size:27 final size:26
Alignment explanation
Indices: 35865904--35865963 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
35865894 CGCCACATAT
*
35865904 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
35865930 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
35865957 ATATCTG
1 ATATCTG
35865964 GCAACCTCAC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:35873285 original size:27 final size:26
Alignment explanation
Indices: 35873233--35873292 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
35873223 CGCACAATAT
*
35873233 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
35873259 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
35873286 ATATCTG
1 ATATCTG
35873293 GCAGCTCGCT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:35884483 original size:40 final size:40
Alignment explanation
Indices: 35884400--35884630 Score: 304
Period size: 40 Copynumber: 5.8 Consensus size: 40
35884390 CATTGAATAC
* * * *
35884400 ATCCGGGCTAAGTCCC-AAGGCATTTATGCTAG-TGATTTTT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGA--TAT
35884440 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
*
35884480 ATCCGGGCTAAGACCTGAAGGCATTTGTGCAAGTTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAG-TTGATAT
* *
35884521 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGATGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
* * *
35884561 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
* * *
35884601 ACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
35884631 TTGTGGTTAT
Statistics
Matches: 173, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
40 118 0.68
41 52 0.30
42 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
Found at i:35884524 original size:81 final size:80
Alignment explanation
Indices: 35884400--35884630 Score: 295
Period size: 81 Copynumber: 2.9 Consensus size: 80
35884390 CATTGAATAC
* ** * *
35884400 ATCCGGGCTAAGTCCC-AAGGCATTTATGCTAG-TGATTTTTATCCGGGCTAAGACCCGAAGGCA
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGA--TATATCCGGGCTAAGACCCGAAGGCA
*
35884463 TTTGTGCAAGTTGATAT
64 TTTGTGCAAGATGATAT
* *
35884480 ATCCGGGCTAAGACCTGAAGGCATTTGTGCAAGTTTGATATATCCGGGCTAAGACCCGAAGGCAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAG-TTGATATATCCGGGCTAAGACCCGAAGGCAT
*
35884545 TTGTGCGAGATGATAT
65 TTGTGCAAGATGATAT
* * * * *
35884561 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATT
35884626 TGTGC
66 TGTGC
35884631 TTGTGGTTAT
Statistics
Matches: 134, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
80 47 0.35
81 84 0.63
83 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGATGATAT
Found at i:35884576 original size:121 final size:120
Alignment explanation
Indices: 35884400--35884630 Score: 329
Period size: 121 Copynumber: 1.9 Consensus size: 120
35884390 CATTGAATAC
* * *
35884400 ATCCGGGCTAAGTCCCAAGGCATTTATGCTAGTGATTTTTATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCAAGGCATTTATGCGAGTGA-TTATATCCGGGCTAAGACCCGAAGGCATT
* * * *
35884465 TGTGCAAGTTGATATATCCGGGCTAAGACCTGAAGGCATTTGTGCAAGTTTGATAT
65 CGTGCAAGTTGATATACCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTTGATAT
*
35884521 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGATGA-TATATCCGGGCTAAGACCCGAAGGCAT
1 ATCCGGGCTAAGACCC-AAGGCATTTATGCGAG-TGATTATATCCGGGCTAAGACCCGAAGGCAT
* * *
35884585 TCGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGC
64 TCGTGCAAGTTGATATACCCGGGCTAAGACCCGAAGGCAATTGTGC
35884631 TTGTGGTTAT
Statistics
Matches: 97, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
121 80 0.82
122 14 0.14
123 3 0.03
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (120 bp):
ATCCGGGCTAAGACCCAAGGCATTTATGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCATTC
GTGCAAGTTGATATACCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTTGATAT
Found at i:35892952 original size:39 final size:40
Alignment explanation
Indices: 35892844--35893071 Score: 327
Period size: 40 Copynumber: 5.8 Consensus size: 40
35892834 ATTTGAATAC
* * * *
35892844 ATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTTT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGA-TAT
35892884 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
35892924 ATCCGGGCTAAGA-CCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
* *
35892963 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGATGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
* *
35893003 ATCCGGGCTAAGACCCGAAGGCA-TTGTGCGAGTTGCTAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
* * *
35893042 ACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
35893072 TTGTGGTTAT
Statistics
Matches: 175, Mismatches: 10, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
39 74 0.42
40 98 0.56
41 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
Found at i:35893087 original size:79 final size:79
Alignment explanation
Indices: 35892844--35893071 Score: 318
Period size: 79 Copynumber: 2.9 Consensus size: 79
35892834 ATTTGAATAC
* * * *
35892844 ATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTTTATCCGGGCTAAGACCCGAAGGCAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGA-TATATCCGGGCTAAGACCCGAAGGCAT
35892908 TTGTGCAAGTTGATAT
65 TTGTGCAAG-TGATAT
35892924 ATCCGGGCTAAGA-CCGAAGGCATTTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATT
*
35892988 TGTGCGAGATGATAT
66 TGTGCAAG-TGATAT
* * * * *
35893003 ATCCGGGCTAAGACCCGAAGGCA-TTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATT
35893067 TGTGC
66 TGTGC
35893072 TTGTGGTTAT
Statistics
Matches: 135, Mismatches: 11, Indels: 5
0.89 0.07 0.03
Matches are distributed among these distances:
79 111 0.82
80 24 0.18
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.25
Consensus pattern (79 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTGATAT
Found at i:35901441 original size:40 final size:40
Alignment explanation
Indices: 35901359--35901587 Score: 318
Period size: 40 Copynumber: 5.8 Consensus size: 40
35901349 ATTTGAATAC
* * * *
35901359 ATCCGGGCTAAGTCCC-AAGGCATTTATGCTAG-TGATTTT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGA-TAT
35901398 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
*
35901438 ATCCGGGCTAAGACCTGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
* *
35901478 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGATGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
* * *
35901518 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
* * *
35901558 ACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
35901588 TTGTGGTTAT
Statistics
Matches: 173, Mismatches: 15, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
39 15 0.09
40 155 0.90
41 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
Found at i:35920412 original size:12 final size:12
Alignment explanation
Indices: 35920381--35920424 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
35920371 AATCAAAAGA
35920381 TGAGGAAGATCC
1 TGAGGAAGATCC
* * *
35920393 CGAAGAAGATCT
1 TGAGGAAGATCC
35920405 TGAGGAAGATCC
1 TGAGGAAGATCC
*
35920417 GGAGGAAG
1 TGAGGAAG
35920425 GTTCAAATGG
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.36, C:0.14, G:0.36, T:0.14
Consensus pattern (12 bp):
TGAGGAAGATCC
Found at i:35929030 original size:17 final size:19
Alignment explanation
Indices: 35929000--35929039 Score: 50
Period size: 17 Copynumber: 2.2 Consensus size: 19
35928990 TTGTATTATT
35929000 ATGTGGAATGTATA-TGATC
1 ATGTGGAATGTATAGT-ATC
35929019 ATGTGG-AT-TATAGTATC
1 ATGTGGAATGTATAGTATC
35929036 ATGT
1 ATGT
35929040 TATAAAGATG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
17 11 0.55
18 3 0.15
19 6 0.30
ACGTcount: A:0.30, C:0.05, G:0.25, T:0.40
Consensus pattern (19 bp):
ATGTGGAATGTATAGTATC
Found at i:35929226 original size:29 final size:29
Alignment explanation
Indices: 35929146--35929226 Score: 76
Period size: 29 Copynumber: 2.8 Consensus size: 29
35929136 TGCCTTATGA
* * * * *
35929146 TTATATTTATCAAGTAATTTGTACCGGTG
1 TTATATTTATCAGGTACTATGTGCCAGTG
*
35929175 TTACTA-TTATCAGAG-ACTCTGTGCCAGTG
1 TTA-TATTTATCAG-GTACTATGTGCCAGTG
35929204 TTATATTTATCAGGTACTATGTG
1 TTATATTTATCAGGTACTATGTG
35929227 TTGGAAAATC
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
28 3 0.07
29 36 0.86
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.19, T:0.42
Consensus pattern (29 bp):
TTATATTTATCAGGTACTATGTGCCAGTG
Found at i:35929742 original size:59 final size:61
Alignment explanation
Indices: 35929672--35929788 Score: 166
Period size: 62 Copynumber: 1.9 Consensus size: 61
35929662 ATCACTTTAA
* * *
35929672 TATTAAATTAATATAATACTTA-T-CAAGATAAATATTAGATTAAATTTAACATTAAAGCT
1 TATTAAATTAATAGAATACTTACTACAAGATAAACATTAAATTAAATTTAACATTAAAGCT
* *
35929731 TATTAAATTAATAGAATATTTATCTACAAGATAAACATTAAATTAAATTTAATATTAA
1 TATTAAATTAATAGAATACTTA-CTACAAGATAAACATTAAATTAAATTTAACATTAA
35929789 GATAATCACT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 20 0.40
61 1 0.02
62 29 0.58
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.39
Consensus pattern (61 bp):
TATTAAATTAATAGAATACTTACTACAAGATAAACATTAAATTAAATTTAACATTAAAGCT
Found at i:35937895 original size:40 final size:40
Alignment explanation
Indices: 35937833--35938048 Score: 314
Period size: 40 Copynumber: 5.4 Consensus size: 40
35937823 AAACCAAGTA
* * *
35937833 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
**
35937872 CCTTCGGGACTTAGCCCGGATATAGTAGTTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
35937912 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
35937952 CCTTCGGGACTTAGCCCGGA-ATTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
* *
35937992 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
35938032 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
35938049 CGTTATCATC
Statistics
Matches: 165, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
39 14 0.08
40 151 0.92
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:35944747 original size:40 final size:40
Alignment explanation
Indices: 35944685--35944899 Score: 321
Period size: 40 Copynumber: 5.4 Consensus size: 40
35944675 AAACCAAGTA
* * *
35944685 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
**
35944724 CCTTCGGGACTTAGCCCGGATATAGTAGTTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
35944764 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
35944804 CCTTCGGGACTTAGCCCGGAT-TAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
35944843 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
35944883 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
35944900 CGTTATCATC
Statistics
Matches: 163, Mismatches: 9, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
39 51 0.31
40 112 0.69
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:35944845 original size:79 final size:79
Alignment explanation
Indices: 35944685--35944899 Score: 319
Period size: 79 Copynumber: 2.7 Consensus size: 79
35944675 AAACCAAGTA
* * *
35944685 CCTTCGGGATTTA-ACCGGATATAGCTACTCGCTCAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
**
35944749 TAGTTCGCACAAATG
65 TAACTCGCACAAATG
35944764 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAT-TAG
1 CCTTCGGGACTTAGCCCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
35944828 TAACTCGCACAAATG
65 TAACTCGCACAAATG
*
35944843 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCCGGATA-TAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCC
35944900 CGTTATCATC
Statistics
Matches: 126, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
78 1 0.01
79 82 0.65
80 43 0.34
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
AACTCGCACAAATG
Found at i:35944896 original size:119 final size:119
Alignment explanation
Indices: 35944685--35944899 Score: 321
Period size: 119 Copynumber: 1.8 Consensus size: 119
35944675 AAACCAAGTA
* *
35944685 CCTTCGGGATTTAACCGGATATAGCTACTCGCTCAAATGCCTTCGGGACTTAGCCCGGATATAGT
1 CCTTCGGGACTTAACCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
* *
35944750 AGTTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
66 AGCTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
35944804 CCTTCGGGACTTAGCCCGGAT-TAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-ATT
1 CCTTCGGGACTTA-ACCGGATATAGCT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA-T
35944866 AGTCA-CTAGCACAAATGCCTTCGGGACTTAGCCC
63 AGT-AGCTAGCACAAATGCCTTCGGGACTTAGCCC
35944900 CGTTATCATC
Statistics
Matches: 87, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
118 2 0.02
119 78 0.90
120 7 0.08
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (119 bp):
CCTTCGGGACTTAACCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
AGCTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:35947465 original size:48 final size:47
Alignment explanation
Indices: 35947329--35947466 Score: 131
Period size: 48 Copynumber: 3.0 Consensus size: 47
35947319 CACATGGTAG
* * * *
35947329 GATGCCAATGCCATATTCCGGATATGGTCTTACATGGGATCACATATC
1 GATGCCAA-GCCATGTCCCAGATATGGTCTTACATGGAATCACATATC
* * * * *
35947377 GATGCC--G--ATGGCCCAGCTATGGTCTTACACGAAATTACATATC
1 GATGCCAAGCCATGTCCCAGATATGGTCTTACATGGAATCACATATC
* *
35947420 GATGCCAAAGCCATGTCCCAGAAATGGTCTTATATGGAATCACATAT
1 GATGCC-AAGCCATGTCCCAGATATGGTCTTACATGGAATCACATAT
35947467 AACCTTAATG
Statistics
Matches: 69, Mismatches: 16, Indels: 10
0.73 0.17 0.11
Matches are distributed among these distances:
43 33 0.48
45 1 0.01
46 1 0.01
48 34 0.49
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (47 bp):
GATGCCAAGCCATGTCCCAGATATGGTCTTACATGGAATCACATATC
Found at i:35953021 original size:21 final size:21
Alignment explanation
Indices: 35952995--35953045 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
35952985 TTCCCCACAT
35952995 GGAGTGTAGGGCTGGTACGGG
1 GGAGTGTAGGGCTGGTACGGG
*
35953016 GGAGTGTAGGGCTGGTACGGT
1 GGAGTGTAGGGCTGGTACGGG
*
35953037 GCAGTGTAG
1 GGAGTGTAG
35953046 CGGTTGGTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.16, C:0.10, G:0.53, T:0.22
Consensus pattern (21 bp):
GGAGTGTAGGGCTGGTACGGG
Found at i:35963543 original size:46 final size:46
Alignment explanation
Indices: 35963493--35963667 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
35963483 TGGTTGAGCA
35963493 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
35963539 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
35963584 CATCCGAACT-GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
35963631 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
35963668 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 10, Indels: 20
0.78 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 9 0.08
46 76 0.70
47 11 0.10
49 4 0.04
50 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:35963659 original size:92 final size:93
Alignment explanation
Indices: 35963490--35963660 Score: 308
Period size: 92 Copynumber: 1.8 Consensus size: 93
35963480 GGATGGTTGA
* *
35963490 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
35963555 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
35963583 GCATCCGAACT-GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
35963647 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
35963661 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 64 0.85
93 11 0.15
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:35969306 original size:39 final size:39
Alignment explanation
Indices: 35969263--35969440 Score: 320
Period size: 39 Copynumber: 4.5 Consensus size: 39
35969253 TTGGCTCGGA
* *
35969263 TATAACAACCAGCACGAATGCCTTCGGGACTTAACCGGT
1 TATAATAACCCGCACGAATGCCTTCGGGACTTAACCGGT
35969302 TATAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGT
1 TATAATAACCCGCACGAATGCCTTCGGGACTTAA-CCGGT
35969342 TATAATAACCCGCACGAATGCCTTCGGGACTTAACCGGT
1 TATAATAACCCGCACGAATGCCTTCGGGACTTAACCGGT
*
35969381 TATAATAACCCGCACGAATGCCTTCGGGACTTAACCCGT
1 TATAATAACCCGCACGAATGCCTTCGGGACTTAACCGGT
35969420 TATAATAACCCGCACGAATGC
1 TATAATAACCCGCACGAATGC
35969441 TATGCACATA
Statistics
Matches: 135, Mismatches: 3, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
39 96 0.71
40 39 0.29
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (39 bp):
TATAATAACCCGCACGAATGCCTTCGGGACTTAACCGGT
Found at i:35969376 original size:79 final size:78
Alignment explanation
Indices: 35969263--35969440 Score: 329
Period size: 79 Copynumber: 2.3 Consensus size: 78
35969253 TTGGCTCGGA
* *
35969263 TATAACAACCAGCACGAATGCCTTCGGGACTTAACCGGTTATAATAACCCGCACGAATGCCTTCG
1 TATAATAACCCGCACGAATGCCTTCGGGACTTAACCGGTTATAATAACCCGCACGAATGCCTTCG
35969328 GGACTTAACCCGGT
66 GGACTTAACCC-GT
35969342 TATAATAACCCGCACGAATGCCTTCGGGACTTAACCGGTTATAATAACCCGCACGAATGCCTTCG
1 TATAATAACCCGCACGAATGCCTTCGGGACTTAACCGGTTATAATAACCCGCACGAATGCCTTCG
35969407 GGACTTAACCCGT
66 GGACTTAACCCGT
35969420 TATAATAACCCGCACGAATGC
1 TATAATAACCCGCACGAATGC
35969441 TATGCACATA
Statistics
Matches: 97, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
78 23 0.24
79 74 0.76
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (78 bp):
TATAATAACCCGCACGAATGCCTTCGGGACTTAACCGGTTATAATAACCCGCACGAATGCCTTCG
GGACTTAACCCGT
Found at i:35977650 original size:40 final size:40
Alignment explanation
Indices: 35977606--35977786 Score: 285
Period size: 40 Copynumber: 4.5 Consensus size: 40
35977596 TTGTCTCGGA
*
35977606 TATAACAACCAGCACGAATGCCTTCGGGACTTAACCCGGT
1 TATAATAACCAGCACGAATGCCTTCGGGACTTAACCCGGT
35977646 TATAATAACCCA-CACGAATGCCTTCGGGACTTAACCCGGT
1 TATAATAA-CCAGCACGAATGCCTTCGGGACTTAACCCGGT
*
35977686 TATAATAACCCA-CACGAATGCCTTCGGGACTTAACCTGGT
1 TATAATAA-CCAGCACGAATGCCTTCGGGACTTAACCCGGT
* *
35977726 TATAATAACCCGCACGAATGCCTTCGGGACTTAACCCGAT
1 TATAATAACCAGCACGAATGCCTTCGGGACTTAACCCGGT
*
35977766 TATAATAACCCGCACGAATGC
1 TATAATAACCAGCACGAATGC
35977787 TATGCACATA
Statistics
Matches: 134, Mismatches: 5, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
39 2 0.01
40 129 0.96
41 3 0.02
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (40 bp):
TATAATAACCAGCACGAATGCCTTCGGGACTTAACCCGGT
Found at i:35980030 original size:19 final size:19
Alignment explanation
Indices: 35980003--35980048 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
35979993 TTTTTAAAGT
*
35980003 TATCCTAATTTTATGCACC
1 TATCTTAATTTTATGCACC
*
35980022 TATCTTAATTTTGTGCACC
1 TATCTTAATTTTATGCACC
35980041 TATCTTAA
1 TATCTTAA
35980049 CTAAAGTTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.46
Consensus pattern (19 bp):
TATCTTAATTTTATGCACC
Found at i:35983700 original size:43 final size:42
Alignment explanation
Indices: 35983652--35983788 Score: 109
Period size: 43 Copynumber: 3.2 Consensus size: 42
35983642 TCCCGGACGT
* *
35983652 GGTCTTACATGTAATTCAATATCGATGCCTTTGTCCCAGACAG
1 GGTCTTACA-GTAATTCAATATCGATGCCTATGTCCCAGACAC
** * * * *
35983695 GGTCTTACACAAAATCAGATA-CGATGTCGATGTCCCAGACAT
1 GGTCTTACAGTAATTCA-ATATCGATGCCTATGTCCCAGACAC
* * *
35983737 GGTCTTATACGTAAATCTC-A-ATCGAGGCCTGTGTCCCAGACAC
1 GGTCTTACA-GT-AAT-TCAATATCGATGCCTATGTCCCAGACAC
35983780 GGTCTTACA
1 GGTCTTACA
35983789 CGATGTCTCA
Statistics
Matches: 72, Mismatches: 17, Indels: 10
0.73 0.17 0.10
Matches are distributed among these distances:
42 31 0.43
43 37 0.51
44 2 0.03
45 2 0.03
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.28
Consensus pattern (42 bp):
GGTCTTACAGTAATTCAATATCGATGCCTATGTCCCAGACAC
Found at i:35989265 original size:11 final size:11
Alignment explanation
Indices: 35989249--35989275 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
35989239 TTTGTAAAGA
35989249 AATTTTTGATG
1 AATTTTTGATG
35989260 AATTTTTGATG
1 AATTTTTGATG
35989271 AATTT
1 AATTT
35989276 GTCATTTAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.56
Consensus pattern (11 bp):
AATTTTTGATG
Found at i:36004790 original size:30 final size:30
Alignment explanation
Indices: 36004756--36004816 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
36004746 TCCTTAACTC
36004756 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
36004786 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
36004816 A
1 A
36004817 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:36008199 original size:46 final size:46
Alignment explanation
Indices: 36008078--36008243 Score: 166
Period size: 46 Copynumber: 3.6 Consensus size: 46
36008068 GGTTATTGTG
* * * * *
36008078 AGCTAGTGTAAGA-CATGTCTGAGACATGCATCAGCCAC-ATAATGA
1 AGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGAGT-A
*
36008123 GAGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGACGTA
1 -AGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGA-GTA
*
36008171 AGCTAGTATAAGA-CATGTCTGGGACATGCATCGG-CTACGAGATGT-
1 AGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCCT-CGAGA-GTA
36008216 -G-TCAGTGTAAGACCATGTCTGGGACATG
1 AGCT-AGTGTAAGACCATGTCTGGGACATG
36008244 GGATCGACAT
Statistics
Matches: 104, Mismatches: 10, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
43 1 0.01
44 9 0.09
45 17 0.16
46 40 0.38
47 33 0.32
48 3 0.03
49 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.22
Consensus pattern (46 bp):
AGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGAGTA
Found at i:36015868 original size:46 final size:47
Alignment explanation
Indices: 36015730--36015951 Score: 218
Period size: 46 Copynumber: 4.8 Consensus size: 47
36015720 GGGTTATTGT
* * * ** *
36015730 GAGCTAGTGTAAGACATGCCTGGGACATGCATCAGCCACATTATG-A
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGACGTA
* ** **
36015776 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTATTGAGACG-A
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCAAGACGTA
* * *
36015824 GTGCTAGTGTAAGACTTGTCTGGAACATGCATCGGCCTCAAGACGTA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGACGTA
* * * *
36015871 -AGGTAGTATAAGACATGTCTGGGACATGTATCGGCCTCGAGACGTA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGACGTA
* *
36015917 -AGCTAGTATAAGACATGTTTGGGACATGCATCGGC
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGC
36015952 TACGAGATGT
Statistics
Matches: 144, Mismatches: 29, Indels: 6
0.80 0.16 0.03
Matches are distributed among these distances:
46 97 0.67
47 26 0.18
48 21 0.15
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (47 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGACGTA
Found at i:36015996 original size:92 final size:93
Alignment explanation
Indices: 36015730--36015998 Score: 239
Period size: 92 Copynumber: 2.9 Consensus size: 93
36015720 GGGTTATTGT
* * * * * *
36015730 GAGCTAGTGTAAGACATGCCTGGGACATGCATCAGCCACATTATGA-G-AGCCAGTGTAAGACCA
1 GAGCTAGTATAAGACATGTCTGGAACATGCATCGGCCTCA--A-GACGTAGTCAGTGTAAGACCA
* *
36015793 TGTCTGGGACATGGCATCGGTATTGAGACGA
63 TGTCTGGGACATGGCATCGGCATCGAGACGA
* * * *
36015824 GTGCTAGTGTAAGACTTGTCTGGAACATGCATCGGCCTCAAGACGTAAGGT-AGTATAAGA-CAT
1 GAGCTAGTATAAGACATGTCTGGAACATGCATCGGCCTCAAGACGT-A-GTCAGTGTAAGACCAT
* *
36015887 GTCTGGGACAT-GTATCGGCCTCGAGACGTA
64 GTCTGGGACATGGCATCGGCATCGAGACG-A
* * * *
36015917 -AGCTAGTATAAGACATGTTTGGGACATGCATCGG-CTACGAGATGT-GTCAGTGTAAGACCATG
1 GAGCTAGTATAAGACATGTCTGGAACATGCATCGGCCT-CAAGACGTAGTCAGTGTAAGACCATG
**
36015979 TCTACGACATGGCATCGGCA
65 TCTGGGACATGGCATCGGCA
36015999 CAGATACACT
Statistics
Matches: 142, Mismatches: 24, Indels: 20
0.76 0.13 0.11
Matches are distributed among these distances:
89 2 0.01
90 8 0.06
91 16 0.11
92 57 0.40
93 15 0.11
94 43 0.30
95 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (93 bp):
GAGCTAGTATAAGACATGTCTGGAACATGCATCGGCCTCAAGACGTAGTCAGTGTAAGACCATGT
CTGGGACATGGCATCGGCATCGAGACGA
Found at i:36020781 original size:26 final size:25
Alignment explanation
Indices: 36020730--36020781 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
36020720 AAACTCTTCC
* *
36020730 AAAAGAAACTCAAGAGAAATTCTTA
1 AAAAAAAACTCAAGAGAAATTATTA
*
36020755 AAAAAAAACTCAAAGAGAATTTATTA
1 AAAAAAAACTC-AAGAGAAATTATTA
36020781 A
1 A
36020782 CTCAAAAGAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.60, C:0.10, G:0.10, T:0.21
Consensus pattern (25 bp):
AAAAAAAACTCAAGAGAAATTATTA
Found at i:36023675 original size:17 final size:17
Alignment explanation
Indices: 36023575--36023669 Score: 91
Period size: 17 Copynumber: 5.2 Consensus size: 17
36023565 CGCACACCAT
* * *
36023575 CACACGGTCGTGTCTTG
1 CACACGGCCATGTCTCG
36023592 CACACGGCCATGCTCTCG
1 CACACGGCCATG-TCTCG
**
36023610 TCAAACACATGGCTGTGTCTCG
1 -C--ACAC--GGCCATGTCTCG
36023632 CACACGGCCATGTCTCG
1 CACACGGCCATGTCTCG
36023649 CACACGGCCATGTCTCG
1 CACACGGCCATGTCTCG
36023666 CACA
1 CACA
36023670 TTGCCAGCCA
Statistics
Matches: 65, Mismatches: 7, Indels: 12
0.77 0.08 0.14
Matches are distributed among these distances:
17 41 0.63
18 4 0.06
19 5 0.08
21 5 0.08
22 5 0.08
23 5 0.08
ACGTcount: A:0.19, C:0.37, G:0.23, T:0.21
Consensus pattern (17 bp):
CACACGGCCATGTCTCG
Found at i:36025509 original size:38 final size:39
Alignment explanation
Indices: 36025397--36025574 Score: 270
Period size: 39 Copynumber: 4.5 Consensus size: 39
36025387 ACAAAGCATG
* * * *
36025397 CGGGACTTTAAGCTCGGATATAATACCAGCAC-AAAGCCTG
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
36025437 CGGGACTTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGAC-TTAGCCCGGATATAACACCAGCACGAATGCCTT
36025477 CGGGACTTAGCCCGGATAT-ACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
36025515 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
36025554 CGGGACTTGGCCCGGATATAA
1 CGGGACTTAGCCCGGATATAA
36025575 TTCTCCATTA
Statistics
Matches: 131, Mismatches: 5, Indels: 5
0.93 0.04 0.04
Matches are distributed among these distances:
38 38 0.29
39 72 0.55
40 21 0.16
ACGTcount: A:0.28, C:0.29, G:0.24, T:0.19
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Done.