Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 217 of 322
Found at i:71760739 original size:45 final size:46
Alignment explanation
Indices: 71760657--71760774 Score: 211
Period size: 45 Copynumber: 2.6 Consensus size: 46
71760647 CCTAGCCTCT
*
71760657 TTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCC
71760704 TTTAATAACT-GGGCATAAGCCCTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCC
71760749 TTTAATAACTGGGGCATAAGCCCTTT
1 TTTAATAACTGGGGCATAAGCCCTTT
71760775 TTCACTTCCT
Statistics
Matches: 69, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
45 33 0.48
46 26 0.38
47 10 0.14
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (46 bp):
TTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCC
Found at i:71760850 original size:20 final size:20
Alignment explanation
Indices: 71760825--71760885 Score: 113
Period size: 20 Copynumber: 3.0 Consensus size: 20
71760815 TTATGAATAC
71760825 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
71760845 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
71760865 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
71760885 A
1 A
71760886 CAATGTTTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:71760856 original size:11 final size:11
Alignment explanation
Indices: 71760825--71760880 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
71760815 TTATGAATAC
71760825 ATCATGTGCAT
1 ATCATGTGCAT
*
71760836 ATCA--TACAT
1 ATCATGTGCAT
71760845 ATCATGTGCAT
1 ATCATGTGCAT
*
71760856 ATCA--TACAT
1 ATCATGTGCAT
*
71760865 GTCATGTGCAT
1 ATCATGTGCAT
71760876 ATCAT
1 ATCAT
71760881 ACATACAATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:71777224 original size:101 final size:100
Alignment explanation
Indices: 71777092--71777274 Score: 255
Period size: 101 Copynumber: 1.8 Consensus size: 100
71777082 CCAACAATTC
*
71777092 GGTACACATAGTAGCTTGCACTTAGTACTAC-ACACATG-ACCTAACCATCTGATACACGTAGTA
1 GGTACACATAGTAGCCTGCACTTA--AC-ACTACACATGAACCTAACCATCTGATACACGTAGTA
71777155 G-CTTGCACTTAGTACTACATACGTGATCGAAGTTGTCG
63 GTC-TGCACTTAGTACTACATACGTGATCGAAGTTGTCG
* * * *
71777193 GGTACGCATAGTAGCCTGCACTTAACACTACATATGCAACCTAACTATCTGGTACACGTAGTAGT
1 GGTACACATAGTAGCCTGCACTTAACACTACACATG-AACCTAACCATCTGATACACGTAGTAGT
71777258 CTGCACTTAGTACTACA
65 CTGCACTTAGTACTACA
71777275 CAGTGACCTA
Statistics
Matches: 73, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
98 2 0.03
99 8 0.11
101 62 0.85
102 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (100 bp):
GGTACACATAGTAGCCTGCACTTAACACTACACATGAACCTAACCATCTGATACACGTAGTAGTC
TGCACTTAGTACTACATACGTGATCGAAGTTGTCG
Found at i:71777282 original size:150 final size:150
Alignment explanation
Indices: 71777043--71777323 Score: 388
Period size: 150 Copynumber: 1.9 Consensus size: 150
71777033 GAAGCTATTT
* ** *
71777043 GGTACGCATAGTAGTCTGCACTTAGTACTACACATGCGACCAACAATTCGGTACACATAGTAGCT
1 GGTACGCATAGTAGCCTGCACTTAACACTACACATGCAACCAACAATTCGGTACACATAGTAGCT
* * * *
71777108 TGCACTTAGTACTACACACATGACCTAACCATCTGATACACGTAGTAGCTTGCACTTAGTACTAC
66 TGCACTTAGTACTACACACATGACCTAACCATCTGAAACACATAGTAGCCTGCACATAGTACTAC
71777173 ATACGTGATCGAAGTTGTCG
131 ATACGTGATCGAAGTTGTCG
* * *
71777193 GGTACGCATAGTAGCCTGCACTTAACACTACATATGCAACCTAACTA-TCTGGTACACGTAGTAG
1 GGTACGCATAGTAGCCTGCACTTAACACTACACATGCAACC-AACAATTC-GGTACACATAGTAG
* * *
71777257 -TCTGCACTTAGTACTACACA-GTGACCTAATCATCTTAAACACATAGTAGCCTGCACATAGTAC
64 CT-TGCACTTAGTACTACACACATGACCTAACCATCTGAAACACATAGTAGCCTGCACATAGTAC
71777320 TACA
128 TACA
71777324 CATGTGTTCT
Statistics
Matches: 114, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
150 79 0.69
151 35 0.31
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.26
Consensus pattern (150 bp):
GGTACGCATAGTAGCCTGCACTTAACACTACACATGCAACCAACAATTCGGTACACATAGTAGCT
TGCACTTAGTACTACACACATGACCTAACCATCTGAAACACATAGTAGCCTGCACATAGTACTAC
ATACGTGATCGAAGTTGTCG
Found at i:71780063 original size:3 final size:3
Alignment explanation
Indices: 71780055--71780095 Score: 66
Period size: 3 Copynumber: 13.7 Consensus size: 3
71780045 AAATATTTAC
71780055 TTA TTA TTA TTA TTA TTA TTA TT- TTGA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TT
71780096 TATCAATTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.06
3 32 0.89
4 2 0.06
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:71781800 original size:30 final size:29
Alignment explanation
Indices: 71781764--71781821 Score: 98
Period size: 30 Copynumber: 2.0 Consensus size: 29
71781754 AATTGGAAGT
*
71781764 TTTGGCATTAAGTGTGCGATTTAAACTAGC
1 TTTGGCACTAAGTGTGCGATTT-AACTAGC
71781794 TTTGGCACTAAGTGTGCGATTTAACTAG
1 TTTGGCACTAAGTGTGCGATTTAACTAG
71781822 TTCAGCTACT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 6 0.22
30 21 0.78
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (29 bp):
TTTGGCACTAAGTGTGCGATTTAACTAGC
Found at i:71791895 original size:180 final size:180
Alignment explanation
Indices: 71791593--71792006 Score: 810
Period size: 180 Copynumber: 2.3 Consensus size: 180
71791583 TTCGGTTCAG
71791593 CTAGGTGTGTTTGATATGTGAAAATAGCTTAAAAATGATGAAAAATTAGGTTTTGTTTTAGTCAC
1 CTAGGTGTGTTTGATATGTGAAAATAGCTTAAAAATGATGAAAAATTAGGTTTTGTTTTAGTCAC
71791658 TTAAATATATTTATGTTTTGGGTGTAAAGTGAACTTGTAACTTTTAAGAAGTATTTCAAATGAAT
66 TTAAATATATTTATGTTTTGGGTGTAAAGTGAACTTGTAACTTTTAAGAAGTATTTCAAATGAAT
*
71791723 AAATGAATGCTATTTGATCAAGATTTATAAGTCAATGTTTTGGGCATGAA
131 AAATGAATGCTATTTGATCAAGATTTATAAGTCAATATTTTGGGCATGAA
71791773 CTAGGTGTGTTTGATATGTGAAAATAGCTTAAAAATGATGAAAAATTAGGTTTTGTTTTAGTCAC
1 CTAGGTGTGTTTGATATGTGAAAATAGCTTAAAAATGATGAAAAATTAGGTTTTGTTTTAGTCAC
71791838 TTAAATATATTTATGTTTTGGGTGTAAAGTGAACTTGTAACTTTTAAGAAGTATTTCAAATGAAT
66 TTAAATATATTTATGTTTTGGGTGTAAAGTGAACTTGTAACTTTTAAGAAGTATTTCAAATGAAT
71791903 AAATGAATGCTATTTGATCAAGATTTATAAGTCAATATTTTGGGCATGAA
131 AAATGAATGCTATTTGATCAAGATTTATAAGTCAATATTTTGGGCATGAA
*
71791953 CTAGGTGTGTTTGATATGTGAAAATAGCTTTAAAATGATGAAAAATTAGGTTTT
1 CTAGGTGTGTTTGATATGTGAAAATAGCTTAAAAATGATGAAAAATTAGGTTTT
71792007 TACACGGCCA
Statistics
Matches: 232, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
180 232 1.00
ACGTcount: A:0.35, C:0.06, G:0.20, T:0.39
Consensus pattern (180 bp):
CTAGGTGTGTTTGATATGTGAAAATAGCTTAAAAATGATGAAAAATTAGGTTTTGTTTTAGTCAC
TTAAATATATTTATGTTTTGGGTGTAAAGTGAACTTGTAACTTTTAAGAAGTATTTCAAATGAAT
AAATGAATGCTATTTGATCAAGATTTATAAGTCAATATTTTGGGCATGAA
Found at i:71791994 original size:93 final size:92
Alignment explanation
Indices: 71791717--71791998 Score: 214
Period size: 90 Copynumber: 3.1 Consensus size: 92
71791707 AGTATTTCAA
71791717 ATGAATAAATGAATGCTATTTGATCAAGATTTATAAGTCAATGTTTTGGGCATGAACTAGGTGTG
1 ATGAA-AAATGAATGCTATTTGATCAAGATTTATAAGTCAATGTTTTGGGCATGAACTAGGTGTG
*
71791782 TTTGATATGTGAAAATAGCTTAAAAATG
65 TTTGATATGTGAAAATAGCTTTAAAATG
* * * ** * **
71791810 ATGAAAAAT-TA-GGT-TTTGTTTTAGTCACTTAAATATA-TTTATGTTTTGGG--TGTAA--A-
1 ATGAAAAATGAATGCTATTTGATCAAG--A-TT-TATA-AGTCAATGTTTTGGGCATG-AACTAG
*** * * *
71791866 GTGAACTTG-TAACTTTTAAGAAGTA--TTTCAAATG
60 GTGTGTTTGAT-A-TGTGAA-AA-TAGCTTTAAAATG
* *
71791900 A--ATAAATGAATGCTATTTGATCAAGATTTATAAGTCAATATTTTGGGCATGAACTAGGTGTGT
1 ATGAAAAATGAATGCTATTTGATCAAGATTTATAAGTCAATGTTTTGGGCATGAACTAGGTGTGT
71791963 TTGATATGTGAAAATAGCTTTAAAATG
66 TTGATATGTGAAAATAGCTTTAAAATG
71791990 ATGAAAAAT
1 ATGAAAAAT
71791999 TAGGTTTTTA
Statistics
Matches: 133, Mismatches: 32, Indels: 49
0.62 0.15 0.23
Matches are distributed among these distances:
86 1 0.01
87 13 0.10
88 12 0.09
89 20 0.15
90 31 0.23
91 20 0.15
92 16 0.12
93 19 0.14
94 1 0.01
ACGTcount: A:0.37, C:0.06, G:0.20, T:0.38
Consensus pattern (92 bp):
ATGAAAAATGAATGCTATTTGATCAAGATTTATAAGTCAATGTTTTGGGCATGAACTAGGTGTGT
TTGATATGTGAAAATAGCTTTAAAATG
Found at i:71792158 original size:20 final size:20
Alignment explanation
Indices: 71792125--71792162 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
71792115 GCCCCACGGG
71792125 CAGGCAACACGGGCATGTCC
1 CAGGCAACACGGGCATGTCC
* *
71792145 CAGGCCACATGGGCATGT
1 CAGGCAACACGGGCATGT
71792163 GCCCCTATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.32, G:0.32, T:0.13
Consensus pattern (20 bp):
CAGGCAACACGGGCATGTCC
Found at i:71792634 original size:25 final size:25
Alignment explanation
Indices: 71792605--71792653 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
71792595 TGAAGAGTCG
*
71792605 TATGATTTAGATGAAATGGAGTCAC
1 TATGATTTAGATGAAACGGAGTCAC
71792630 TATGATTTAGATGAAACGGAGTCA
1 TATGATTTAGATGAAACGGAGTCA
71792654 GCTACTCCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.37, C:0.08, G:0.24, T:0.31
Consensus pattern (25 bp):
TATGATTTAGATGAAACGGAGTCAC
Found at i:71812833 original size:21 final size:20
Alignment explanation
Indices: 71812809--71812853 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
71812799 TATAAACAAC
71812809 ATTAAATTGCTCAAAATGACA
1 ATTAAATT-CTCAAAATGACA
**
71812830 ATTATGTTCTCAAAATGACA
1 ATTAAATTCTCAAAATGACA
71812850 ATTA
1 ATTA
71812854 TGTTACTACA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.44, C:0.13, G:0.09, T:0.33
Consensus pattern (20 bp):
ATTAAATTCTCAAAATGACA
Found at i:71812843 original size:20 final size:20
Alignment explanation
Indices: 71812818--71812857 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
71812808 CATTAAATTG
71812818 CTCAAAATGACAATTATGTT
1 CTCAAAATGACAATTATGTT
71812838 CTCAAAATGACAATTATGTT
1 CTCAAAATGACAATTATGTT
71812858 ACTACATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (20 bp):
CTCAAAATGACAATTATGTT
Found at i:71821346 original size:114 final size:114
Alignment explanation
Indices: 71821146--71821373 Score: 447
Period size: 114 Copynumber: 2.0 Consensus size: 114
71821136 TCACAAGAAG
*
71821146 GCATTAACACATGAATAAACATGTAATCAACATAAGCCATCATTCGTGGCTATGTACAGTTTGAA
1 GCATTAACACATGAATAAACATGTAATCAACATAAGCCATCATTCGTGGCTATGTACAATTTGAA
71821211 CAATAATCCATTATAGGCCAACACATTTTGCCACATTAATAATGACACA
66 CAATAATCCATTATAGGCCAACACATTTTGCCACATTAATAATGACACA
71821260 GCATTAACACATGAATAAACATGTAATCAACATAAGCCATCATTCGTGGCTATGTACAATTTGAA
1 GCATTAACACATGAATAAACATGTAATCAACATAAGCCATCATTCGTGGCTATGTACAATTTGAA
71821325 CAATAATCCATTATAGGCCAACACATTTTGCCACATTAATAATGACACA
66 CAATAATCCATTATAGGCCAACACATTTTGCCACATTAATAATGACACA
71821374 TATAACCAAA
Statistics
Matches: 113, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
114 113 1.00
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.27
Consensus pattern (114 bp):
GCATTAACACATGAATAAACATGTAATCAACATAAGCCATCATTCGTGGCTATGTACAATTTGAA
CAATAATCCATTATAGGCCAACACATTTTGCCACATTAATAATGACACA
Found at i:71829983 original size:43 final size:43
Alignment explanation
Indices: 71829871--71829984 Score: 101
Period size: 43 Copynumber: 2.7 Consensus size: 43
71829861 CAATGCTAAA
* * *
71829871 GTCCCAGACGTGGTCTTACATGT-AATCAAATATCGATAACACT
1 GTCCCAG-CATGGTCTTACACGTAAATCAAATATCGATAACAAT
* * * *
71829914 GTCCCA-AATAGGATCTTAAAC-AAAATCAAATA-CGATGACAAT
1 GTCCCAGCAT-GG-TCTTACACGTAAATCAAATATCGATAACAAT
71829956 GTCCCAGGCATGGTCTTACACGTAAATCA
1 GTCCCA-GCATGGTCTTACACGTAAATCA
71829985 TAAGTCAATG
Statistics
Matches: 55, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
41 1 0.02
42 23 0.42
43 29 0.53
44 2 0.04
ACGTcount: A:0.37, C:0.23, G:0.16, T:0.25
Consensus pattern (43 bp):
GTCCCAGCATGGTCTTACACGTAAATCAAATATCGATAACAAT
Found at i:71830689 original size:26 final size:26
Alignment explanation
Indices: 71830660--71830767 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
71830650 TGGTACAAAT
71830660 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
71830686 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
71830712 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
71830738 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
71830764 TGAT
1 TGAT
71830768 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:71832421 original size:27 final size:28
Alignment explanation
Indices: 71832381--71832509 Score: 176
Period size: 27 Copynumber: 4.8 Consensus size: 28
71832371 AGGAAGCGCC
*
71832381 CTGGTGGCTATGCCACGAT-TATCTGAT
1 CTGGTGGCTCTGCCACGATATATCTGAT
*
71832408 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACGATATATCTGAT
*
71832435 CTGGTGGCTATGCCACGAT-TATCTGAT
1 CTGGTGGCTCTGCCACGATATATCTGAT
* *
71832462 CTGGTGGCTCTGCCA-TATATATCTGTT
1 CTGGTGGCTCTGCCACGATATATCTGAT
*
71832489 CTGGTGGCTCTGCCACAATAT
1 CTGGTGGCTCTGCCACGATAT
71832510 CTATATTTGG
Statistics
Matches: 90, Mismatches: 8, Indels: 7
0.86 0.08 0.07
Matches are distributed among these distances:
26 4 0.04
27 80 0.89
28 6 0.07
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (28 bp):
CTGGTGGCTCTGCCACGATATATCTGAT
Found at i:71832520 original size:27 final size:26
Alignment explanation
Indices: 71832381--71832538 Score: 133
Period size: 27 Copynumber: 5.9 Consensus size: 26
71832371 AGGAAGCGCC
* * *
71832381 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCAC-AATATCTTAT
71832408 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCT-TAT
* * *
71832435 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCAC-AATATCTTAT
*
71832462 CTGGTGGCTCTGCCATATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCT-TAT
71832489 CTGGTGGCTCTGCCACAATATCTATAT
1 CTGGTGGCTCTGCCACAATATCT-TAT
* * *
71832516 TTGGTGACT-TCGTCACAATATCT
1 CTGGTGGCTCT-GCCACAATATCT
71832539 GGCAGCCTCG
Statistics
Matches: 108, Mismatches: 15, Indels: 16
0.78 0.11 0.12
Matches are distributed among these distances:
26 10 0.09
27 97 0.90
28 1 0.01
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACAATATCTTAT
Found at i:71832521 original size:54 final size:54
Alignment explanation
Indices: 71832381--71832504 Score: 230
Period size: 54 Copynumber: 2.3 Consensus size: 54
71832371 AGGAAGCGCC
71832381 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
*
71832435 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCATATATATCTGTT
1 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
*
71832489 CTGGTGGCTCTGCCAC
1 CTGGTGGCTATGCCAC
71832505 AATATCTATA
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 68 1.00
ACGTcount: A:0.15, C:0.25, G:0.25, T:0.35
Consensus pattern (54 bp):
CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:71836832 original size:21 final size:21
Alignment explanation
Indices: 71836792--71836834 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
71836782 ATCGCATAAA
**
71836792 AGGCAAAAGTATTATTTTACT
1 AGGCAAAAGTATTAAATTACT
*
71836813 AGGCAAAGGTATTAAATTACT
1 AGGCAAAAGTATTAAATTACT
71836834 A
1 A
71836835 AGGAACCTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.42, C:0.09, G:0.16, T:0.33
Consensus pattern (21 bp):
AGGCAAAAGTATTAAATTACT
Found at i:71839578 original size:43 final size:43
Alignment explanation
Indices: 71839530--71839641 Score: 197
Period size: 43 Copynumber: 2.6 Consensus size: 43
71839520 CCGGCATTAT
*
71839530 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACGAA
*
71839573 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACGAA
*
71839616 GCCTGCTAGGCACGAAGGCTCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
71839642 TAATACCAGT
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 66 1.00
ACGTcount: A:0.30, C:0.33, G:0.25, T:0.12
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACGAA
Found at i:71839681 original size:38 final size:38
Alignment explanation
Indices: 71839639--71839713 Score: 105
Period size: 38 Copynumber: 2.0 Consensus size: 38
71839629 GAAGGCTCGA
* * * *
71839639 ATATAATACCAGTACTAGGCCTACGGGATTTATCCCGG
1 ATATAATACCAGCACAAAGCCTACGGGATTTAACCCGG
*
71839677 ATATAATACCAGCACAAAGCCTGCGGGATTTAACCCG
1 ATATAATACCAGCACAAAGCCTACGGGATTTAACCCG
71839714 AATACACATC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (38 bp):
ATATAATACCAGCACAAAGCCTACGGGATTTAACCCGG
Found at i:71848558 original size:42 final size:42
Alignment explanation
Indices: 71848507--71848597 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
71848497 CAAGACTATG
*
71848507 TGTAAGACCATATCTGAGATATGGCATC-ATTATGAGACTTCA
1 TGTAAGACCAGATCTGAGATATGGCATCGA-TATGAGACTTCA
*
71848549 TGTAAGACCAGATCTGAGATATGGCATCGATATGAGATTTCA
1 TGTAAGACCAGATCTGAGATATGGCATCGATATGAGACTTCA
*
71848591 TTTAAGA
1 TGTAAGA
71848598 TTATAGCTAG
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
42 44 0.98
43 1 0.02
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (42 bp):
TGTAAGACCAGATCTGAGATATGGCATCGATATGAGACTTCA
Found at i:71851039 original size:40 final size:40
Alignment explanation
Indices: 71850984--71851088 Score: 129
Period size: 40 Copynumber: 2.6 Consensus size: 40
71850974 CAACAAATCT
* **
71850984 GCTATTTGTGGCACTTAGTGTGCGATTCGACATAGCTTTG
1 GCTATATGTGGCACTTAGTGTGCGATTCGACATAGCTTCA
* *
71851024 GCTATATGTGGCACTTAGTGTGCGATTTGAGATAGCTTCA
1 GCTATATGTGGCACTTAGTGTGCGATTCGACATAGCTTCA
* * * *
71851064 GCCATGTATGACACTTAGTGTGCGA
1 GCTATATGTGGCACTTAGTGTGCGA
71851089 GATATCGAGT
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 56 1.00
ACGTcount: A:0.21, C:0.17, G:0.28, T:0.34
Consensus pattern (40 bp):
GCTATATGTGGCACTTAGTGTGCGATTCGACATAGCTTCA
Found at i:71851115 original size:24 final size:24
Alignment explanation
Indices: 71851080--71851125 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
71851070 TATGACACTT
*
71851080 AGTGTGCGAGATATCGAGTGTGAC
1 AGTGTGCAAGATATCGAGTGTGAC
*
71851104 AGTGTGCAAGATATTGAGTGTG
1 AGTGTGCAAGATATCGAGTGTG
71851126 GCACTTATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.26, C:0.09, G:0.37, T:0.28
Consensus pattern (24 bp):
AGTGTGCAAGATATCGAGTGTGAC
Found at i:71855228 original size:12 final size:14
Alignment explanation
Indices: 71855213--71855244 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
71855203 GTGAGAACAC
71855213 ATGTGTA-G-TACT
1 ATGTGTAGGCTACT
71855225 ATGTGTAGGCTACT
1 ATGTGTAGGCTACT
71855239 ATGTGT
1 ATGTGT
71855245 TTAAGATGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.39
13 1 0.06
14 10 0.56
ACGTcount: A:0.22, C:0.09, G:0.28, T:0.41
Consensus pattern (14 bp):
ATGTGTAGGCTACT
Found at i:71855332 original size:50 final size:50
Alignment explanation
Indices: 71855214--71855504 Score: 221
Period size: 50 Copynumber: 5.8 Consensus size: 50
71855204 TGAGAACACA
* * * *
71855214 TGTGTAGTACTATGTGTAGGCTACTATGTGT-TTAAGATGGTTTTAGGTCAC-
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACT-AGATAG--TTAGGTCACG
* ** *
71855265 TGTGTAGTACTAAGTGTAGGCTACTATGTGTACTAGATAGTTAGGTTGCT
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACTAGATAGTTAGGTCACG
* * * * * * *
71855315 TGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCA-ACAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTA-CTAGA-TAGTTAGGTCACG
* * * * * *
71855366 TGTGCAGTACGAAGTGCAGGCTACTACGTGTATTAGGTGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACTAGATAGTTAGGTCACG
* ** ** * * *
71855416 TGTGTAGTACTAAGTGCAAGCTACTACATGTACCGGATTGTT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACTAGATAGTTAGGTCACG
* * *
71855465 TGTGTAGTACCAAGTACAGGCTACTATGCGTACTAGATAG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACTAGATAG
71855505 CTTCGGTTAC
Statistics
Matches: 188, Mismatches: 47, Indels: 12
0.76 0.19 0.05
Matches are distributed among these distances:
49 43 0.23
50 74 0.39
51 70 0.37
52 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTACTAGATAGTTAGGTCACG
Found at i:71855389 original size:101 final size:100
Alignment explanation
Indices: 71855261--71855441 Score: 245
Period size: 101 Copynumber: 1.8 Consensus size: 100
71855251 TGGTTTTAGG
* * * * ** *
71855261 TCACTGTGTAGTACTAAGTGTAGGCTACTATGTGTACTAGATAGTTAGGTTGCTTGTGTAGTACT
1 TCACTGTGCAGTACGAAGTGCAGGCTACTACGTGTACTAGATAGTTAGGTCACGTGTGTAGTACT
* *
71855326 AAGTGTAGGCTACTATGCGTACCCAACAACTTCGA
66 AAGTGCAAGCTACTATGCGTACCCAACAACTTCGA
* * *
71855361 TCACGTGTGCAGTACGAAGTGCAGGCTACTACGTGTATTAGGTGGTTAGGTCACGTGTGTAGTAC
1 TCAC-TGTGCAGTACGAAGTGCAGGCTACTACGTGTACTAGATAGTTAGGTCACGTGTGTAGTAC
71855426 TAAGTGCAAGCTACTA
65 TAAGTGCAAGCTACTA
71855442 CATGTACCGG
Statistics
Matches: 68, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
100 4 0.06
101 64 0.94
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (100 bp):
TCACTGTGCAGTACGAAGTGCAGGCTACTACGTGTACTAGATAGTTAGGTCACGTGTGTAGTACT
AAGTGCAAGCTACTATGCGTACCCAACAACTTCGA
Found at i:71856711 original size:49 final size:50
Alignment explanation
Indices: 71856468--71856699 Score: 198
Period size: 50 Copynumber: 4.6 Consensus size: 50
71856458 ATTGTGAGAA
* * ** ***
71856468 CACATGTGTAGTACTATGTGCAAGCTACTATATGTTTAAGATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGG--TTAGGT
* * * * * *** * *
71856520 CACGTGTGTAGTACTAAATGCAGGCTACGATGCGTACTC-GACAACTTTGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CAGA-TGGTTAGGT
*
71856571 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGT
* * * *
71856621 CACATGGGTAGTACTAAATACAGGCTACTACGTGTACCAGATTGTTA-GT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGT
* *
71856670 CGCATGTGTAGTACTAAGTGTAGGCTACTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTA
71856700 TGCTTACCAG
Statistics
Matches: 141, Mismatches: 36, Indels: 9
0.76 0.19 0.05
Matches are distributed among these distances:
49 27 0.19
50 47 0.33
51 37 0.26
52 30 0.21
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.31
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGT
Found at i:71858079 original size:46 final size:46
Alignment explanation
Indices: 71858026--71858204 Score: 209
Period size: 46 Copynumber: 3.7 Consensus size: 46
71858016 TATTTGGGCA
71858026 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
71858072 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGTT-TGAGAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTAT--G-GATGCGAA-T--G
* *
71858123 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
71858171 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
71858205 CGGGCGGGTT
Statistics
Matches: 115, Mismatches: 7, Indels: 22
0.80 0.05 0.15
Matches are distributed among these distances:
46 63 0.55
47 3 0.03
48 4 0.03
49 5 0.04
50 4 0.03
51 4 0.03
52 3 0.03
53 29 0.25
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:71867553 original size:37 final size:37
Alignment explanation
Indices: 71867503--71867581 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
71867493 TTATTACGAA
* * *
71867503 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
71867540 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
71867577 GTCTT
1 GTCTT
71867582 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:71867773 original size:47 final size:47
Alignment explanation
Indices: 71867699--71868063 Score: 685
Period size: 47 Copynumber: 7.7 Consensus size: 47
71867689 GCCCTTCGGG
71867699 ACTTATCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
71867747 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
* *
71867794 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
* *
71867841 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
71867888 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
71867935 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
71867982 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
71868029 ACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTA
71868064 CTATCATTTC
Statistics
Matches: 313, Mismatches: 4, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
47 309 0.99
48 4 0.01
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
Found at i:71871782 original size:40 final size:40
Alignment explanation
Indices: 71871750--71872051 Score: 390
Period size: 40 Copynumber: 7.6 Consensus size: 40
71871740 CCAGCATGAT
* * * *
71871750 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
* *** *
71871790 TGCTTTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
* *
71871830 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
* * *
71871870 TGCT-TTCGGGATTTAGCCTGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
* * *
71871909 TGCTCTTTGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
* *
71871949 TGCTCTTCGGAATTTAGCCTGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
* *
71871989 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
* *
71872029 TGCTCTTCGGGATTTAGCCCGGA
1 TGCTCTTCGGAACTTAGCCCGGA
71872052 CACTTCACTC
Statistics
Matches: 224, Mismatches: 37, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
39 34 0.15
40 190 0.85
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
Found at i:71871866 original size:80 final size:80
Alignment explanation
Indices: 71871750--71872047 Score: 483
Period size: 80 Copynumber: 3.7 Consensus size: 80
71871740 CCAGCATGAT
* * * * * * * *
71871750 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTTTTCGGGGTTTAGCAC-GGAT
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGC-CTGGAT
71871814 ATATCACTAGCACGAA
65 ATATCACTAGCACGAA
71871830 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCT-TTCGGGATTTAGCCTGGATA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGCCTGGATA
71871894 TATCACTAGCACGAA
66 TATCACTAGCACGAA
* *
71871909 TGCTCTTTGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGAATTTAGCCTGGATA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGCCTGGATA
71871974 TATCACTAGCACGAA
66 TATCACTAGCACGAA
71871989 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGCC
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGCC
71872048 CGGACACTTC
Statistics
Matches: 205, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
78 1 0.00
79 75 0.37
80 129 0.63
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (80 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGCCTGGATA
TATCACTAGCACGAA
Found at i:71871988 original size:159 final size:160
Alignment explanation
Indices: 71871750--71872047 Score: 483
Period size: 159 Copynumber: 1.9 Consensus size: 160
71871740 CCAGCATGAT
* * * **
71871750 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTTTTCGGGGTTTAGCACGGATA
1 TGCTCTTCGGAACCTAGCCCGGATACAACACCAGCACGAATGCTCTTCGGAATTTAGCACGGATA
71871815 TATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCT-TTCGG
66 TATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGG
71871879 GATTTAGCCTGGATATATCACTAGCACGAA
131 GATTTAGCCTGGATATATCACTAGCACGAA
* * * * *
71871909 TGCTCTTTGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGAATTTAGC-CTGGAT
1 TGCTCTTCGGAACCTAGCCCGGATACAACACCAGCACGAATGCTCTTCGGAATTTAGCAC-GGAT
71871973 ATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCG
65 ATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCG
71872038 GGATTTAGCC
130 GGATTTAGCC
71872048 CGGACACTTC
Statistics
Matches: 127, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
158 1 0.01
159 112 0.88
160 14 0.11
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (160 bp):
TGCTCTTCGGAACCTAGCCCGGATACAACACCAGCACGAATGCTCTTCGGAATTTAGCACGGATA
TATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGG
GATTTAGCCTGGATATATCACTAGCACGAA
Found at i:71873258 original size:37 final size:37
Alignment explanation
Indices: 71873208--71873286 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
71873198 TTATTACGAA
* * *
71873208 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
71873245 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
71873282 GTCTT
1 GTCTT
71873287 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:71873483 original size:47 final size:47
Alignment explanation
Indices: 71873405--71873817 Score: 727
Period size: 47 Copynumber: 8.7 Consensus size: 47
71873395 CCCTTCGGGA
* * * * * *
71873405 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
71873452 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
71873499 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
71873546 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
71873593 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
71873640 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
71873689 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
71873736 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
71873783 CTTATCACATATATACACTTTCACATTCATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACAT
71873818 AGAATCCTAA
Statistics
Matches: 352, Mismatches: 12, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
47 306 0.87
49 46 0.13
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:71873726 original size:190 final size:188
Alignment explanation
Indices: 71873405--71873817 Score: 727
Period size: 190 Copynumber: 2.2 Consensus size: 188
71873395 CCCTTCGGGA
* * * * ** *
71873405 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAAGCCCTATCACATATATACAC
71873470 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
71873535 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
71873593 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAAGCCCTATCAC--ATATATAC
71873658 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
71873723 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
129 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
71873783 CTTATCACATATATACACTTTCACATTCATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACAT
71873818 AGAATCCTAA
Statistics
Matches: 214, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
188 46 0.21
190 168 0.79
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (188 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAAGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:71878713 original size:50 final size:50
Alignment explanation
Indices: 71878649--71878884 Score: 235
Period size: 50 Copynumber: 4.7 Consensus size: 50
71878639 TAAGATGGTT
*
71878649 TTAGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACTAGATAG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAG
** * * * * * *
71878699 TTAGGTTGCTTGTGTAGTACTAAGTGCATGCTACTATGCGTACCT-GACAAC
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CTAGA-TAG
* * * *
71878750 TTCGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGATGG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAG
* * *
71878800 TTAGGTCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTA-TCGAATTG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAG-ATAG
* * * * *
71878850 TT-GGTCGCATTTGTAGTACCAAGTGGAGGCTACTA
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTA
71878885 TGCATACCAG
Statistics
Matches: 150, Mismatches: 32, Indels: 9
0.79 0.17 0.05
Matches are distributed among these distances:
49 29 0.19
50 82 0.55
51 39 0.26
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.32
Consensus pattern (50 bp):
TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAG
Found at i:71878769 original size:101 final size:101
Alignment explanation
Indices: 71878654--71878835 Score: 301
Period size: 101 Copynumber: 1.8 Consensus size: 101
71878644 TGGTTTTAGG
* ** *
71878654 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACTAGATAGTTAGGTTGCTTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAGTTAGGTCACGTGTGTAGTAC
*
71878719 TAAGTGCATGCTACTATGCGTACCTGACAACTTCGA
66 TAAGTGCAAGCTACTATGCGTACCTGACAACTTCGA
* *
71878755 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGATGGTTAGGTCACGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAGTTAGGTCACGTGTGTAGTAC
71878820 TAAGTGCAAGCTACTA
66 TAAGTGCAAGCTACTA
71878836 CGTGTATCGA
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
101 74 1.00
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAGTTAGGTCACGTGTGTAGTAC
TAAGTGCAAGCTACTATGCGTACCTGACAACTTCGA
Found at i:71878882 original size:49 final size:50
Alignment explanation
Indices: 71878620--71878884 Score: 214
Period size: 50 Copynumber: 5.3 Consensus size: 50
71878610 GTGTCACAAT
* * * *
71878620 GTGCAGGCTACTATGTGTTTAAGATGGTTTTAGGTCACGTGTGTAGTACTAA
1 GTGCAGGCTACTACGTGTATGAGATGG--TTAGGTCACATGTGTAGTACTAA
* * ** *
71878672 GTGTAGGCTACTACGTGTACT-AGATAGTTAGGTTGCTTGTGTAGTACTAA
1 GTGCAGGCTACTACGTGTA-TGAGATGGTTAGGTCACATGTGTAGTACTAA
* * * * ** * * *
71878722 GTGCATGCTACTATGCGTACCTGACA-ACTTCGATCACGTGTGTAGTACTAA
1 GTGCAGGCTACTACGTGTA--TGAGATGGTTAGGTCACATGTGTAGTACTAA
* *
71878773 GTGCAGGCTACTACGTGTATTAGATGGTTAGGTCACGTGTGTAGTACTAA
1 GTGCAGGCTACTACGTGTATGAGATGGTTAGGTCACATGTGTAGTACTAA
* * * * *
71878823 GTGCAAGCTACTACGTGTATCGA-ATTGTT-GGTCGCATTTGTAGTACCAA
1 GTGCAGGCTACTACGTGTAT-GAGATGGTTAGGTCACATGTGTAGTACTAA
*
71878872 GTGGAGGCTACTA
1 GTGCAGGCTACTA
71878885 TGCATACCAG
Statistics
Matches: 172, Mismatches: 36, Indels: 13
0.78 0.16 0.06
Matches are distributed among these distances:
49 30 0.17
50 80 0.47
51 38 0.22
52 23 0.13
53 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (50 bp):
GTGCAGGCTACTACGTGTATGAGATGGTTAGGTCACATGTGTAGTACTAA
Found at i:71889162 original size:20 final size:20
Alignment explanation
Indices: 71889134--71889181 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
71889124 CAACACCTCA
71889134 TTAACCAATTTTTTAATTTT
1 TTAACCAATTTTTTAATTTT
*
71889154 TTAATCAATTTTTTAATTTT
1 TTAACCAATTTTTTAATTTT
*
71889174 TGAACCAA
1 TTAACCAA
71889182 AATCTATTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.33, C:0.10, G:0.02, T:0.54
Consensus pattern (20 bp):
TTAACCAATTTTTTAATTTT
Found at i:71895507 original size:29 final size:28
Alignment explanation
Indices: 71895475--71895801 Score: 189
Period size: 29 Copynumber: 11.4 Consensus size: 28
71895465 GCCATTTCCA
71895475 TAAAAGTGAGCCTTTGTGGCTATCTCTGT
1 TAAAAG-GAGCCTTTGTGGCTATCTCTGT
* *
71895504 T-AAAGGAAGCCTTTGTAGCTATCTCTAT
1 TAAAAGG-AGCCTTTGTGGCTATCTCTGT
* * * *
71895532 TCAAGGGAGCCTTTGCGGCGATCTCTGT
1 TAAAAGGAGCCTTTGTGGCTATCTCTGT
* ** **
71895560 TAAAATGAAGTTTTTGTGG-TGATCTCCAT
1 TAAAA-GGAGCCTTTGTGGCT-ATCTCTGT
* * * *
71895589 TAAAAAGAAGTCTTTGTGGCGATCTCCGT
1 T-AAAAGGAGCCTTTGTGGCTATCTCTGT
* ** * * *
71895618 TAAAGGGAATTCTTTATGGCGATCTTTGT
1 TAAAAGG-AGCCTTTGTGGCTATCTCTGT
* *
71895647 T-AAAGGACGCCTTTTTGG-TATCTTTGT
1 TAAAAGGA-GCCTTTGTGGCTATCTCTGT
* *
71895674 TAAAAGGATGCCTTTATGGCTATCACTGT
1 TAAAAGGA-GCCTTTGTGGCTATCTCTGT
*
71895703 TAAAAGGACGCCTTTATGGCTATCTCTGT
1 TAAAAGGA-GCCTTTGTGGCTATCTCTGT
* * *
71895732 TAAAAGGATGCATTTGTTGTTATCT-TAGT
1 TAAAAGGA-GCCTTTGTGGCTATCTCT-GT
* * * * *
71895761 TAAATGAAAGCC-TTGTGGCAAACTCTAT
1 TAAAAG-GAGCCTTTGTGGCTATCTCTGT
71895789 TAAAAGGATGCCT
1 TAAAAGGA-GCCT
71895802 ATGTAGTGAG
Statistics
Matches: 232, Mismatches: 51, Indels: 30
0.74 0.16 0.10
Matches are distributed among these distances:
27 12 0.05
28 92 0.40
29 123 0.53
30 5 0.02
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.36
Consensus pattern (28 bp):
TAAAAGGAGCCTTTGTGGCTATCTCTGT
Found at i:71895763 original size:58 final size:57
Alignment explanation
Indices: 71895630--71895799 Score: 157
Period size: 57 Copynumber: 3.0 Consensus size: 57
71895620 AAGGGAATTC
* * * *
71895630 TTTATGGCGATCTTTGTT-AAAGGACGCCTTTTTGG-TATCTTTGTTAAAAGGATGCC
1 TTTATGGCTATC-TTGTTAAAAGGACGCCTTTATGGCTATCTCTGTTAAAAGGATGCA
*
71895686 TTTATGGCTATCACTGTTAAAAGGACGCCTTTATGGCTATCTCTGTTAAAAGGATGCA
1 TTTATGGCTATC-TTGTTAAAAGGACGCCTTTATGGCTATCTCTGTTAAAAGGATGCA
* * * * * * * * * *
71895744 TTTGTTGTTATCTTAGTTAAATGAAAGCC-TTGTGGCAAACTCTATTAAAAGGATGC
1 TTTATGGCTATCTT-GTTAAAAGGACGCCTTTATGGCTATCTCTGTTAAAAGGATGC
71895800 CTATGTAGTG
Statistics
Matches: 94, Mismatches: 17, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
56 15 0.16
57 40 0.43
58 39 0.41
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (57 bp):
TTTATGGCTATCTTGTTAAAAGGACGCCTTTATGGCTATCTCTGTTAAAAGGATGCA
Found at i:71898783 original size:13 final size:14
Alignment explanation
Indices: 71898757--71898789 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
71898747 ATAAAATATA
71898757 AATTTATATTTAAT
1 AATTTATATTTAAT
71898771 AATTTAT-TTTAAT
1 AATTTATATTTAAT
71898784 ATATTT
1 A-ATTT
71898790 CATTAAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
AATTTATATTTAAT
Found at i:71904571 original size:27 final size:28
Alignment explanation
Indices: 71904487--71904584 Score: 128
Period size: 28 Copynumber: 3.5 Consensus size: 28
71904477 CATGAGATTG
* * * *
71904487 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
71904516 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
71904544 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
71904571 GCACTGAA-TGTGCG
1 GCACT-AAGTGTGCG
71904585 GACTTAATAT
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
27 22 0.34
28 24 0.38
29 18 0.28
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:71904595 original size:27 final size:27
Alignment explanation
Indices: 71904515--71904597 Score: 89
Period size: 27 Copynumber: 3.0 Consensus size: 27
71904505 TAAATTGTAC
* *
71904515 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
71904543 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
71904570 AGCACTGAA-TGTGCGGACTT-AATATAT
1 AGCACT-AAGTGTGC-GACTTGAATATAT
71904597 A
1 A
71904598 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
27 28 0.56
28 22 0.44
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:71904598 original size:29 final size:27
Alignment explanation
Indices: 71904487--71904598 Score: 91
Period size: 28 Copynumber: 4.0 Consensus size: 27
71904477 CATGAGATTG
** * *
71904487 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
71904516 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
71904544 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
71904571 GCACTGAA-TGTGCGGACTTAATATATAT
1 GCACT-AAGTGTGC-GACTTAAT-TATAT
71904599 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
27 21 0.29
28 30 0.42
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:71908233 original size:40 final size:40
Alignment explanation
Indices: 71908185--71908516 Score: 344
Period size: 40 Copynumber: 8.7 Consensus size: 40
71908175 GCAAACACCT
* *
71908185 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGACATATCAACTCGCATAA
* *
71908225 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGACATATCAACTCGCATAA
* *
71908265 TTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGACATATCAACTCGCATAA
*
71908305 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGACATATCAACTCGCATAA
*
71908345 TTGCCTTCGGG---T--------CATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGACATATCAACTCGCATAA
** * *
71908374 TTGCCTT-AT---TTA-ACC-GA-ATA-CAAC-CGCAAACA
1 TTGCCTTCGGGTCTTAGCCCGGACATATCAACTCGCATA-A
* *
71908406 CCTTTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 ---TTGCCTTCGGGTCTTAGCCCGGACATATCAACTCGCATAA
*
71908449 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGACATATCAACTCGCATAA
*
71908489 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGACATAT
71908517 TTCAAATGCT
Statistics
Matches: 247, Mismatches: 25, Indels: 40
0.79 0.08 0.13
Matches are distributed among these distances:
28 1 0.00
29 22 0.09
31 5 0.02
32 4 0.02
33 3 0.01
35 7 0.03
37 1 0.00
39 3 0.01
40 187 0.76
41 2 0.01
42 3 0.01
43 5 0.02
44 4 0.02
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGACATATCAACTCGCATAA
Found at i:71916949 original size:40 final size:40
Alignment explanation
Indices: 71916901--71917088 Score: 313
Period size: 40 Copynumber: 4.7 Consensus size: 40
71916891 GCAAACACCT
* * *
71916901 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
71916941 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
71916981 TTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
71917021 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
71917061 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
71917089 TTCAAATGCT
Statistics
Matches: 137, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 137 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:71921337 original size:6 final size:6
Alignment explanation
Indices: 71921318--71921358 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
71921308 TAAACACCTA
*
71921318 TTATTT TTACTTT TTA-TT TTA-TT TTATTT TTATCT TTATTT
1 TTATTT TTA-TTT TTATTT TTATTT TTATTT TTATTT TTATTT
71921359 ATATGTTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 10 0.32
6 15 0.48
7 6 0.19
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (6 bp):
TTATTT
Found at i:71921342 original size:17 final size:17
Alignment explanation
Indices: 71921322--71921358 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
71921312 CACCTATTAT
71921322 TTTTACTTTTTAT-TTTA
1 TTTTA-TTTTTATCTTTA
71921339 TTTTATTTTTATCTTTA
1 TTTTATTTTTATCTTTA
71921356 TTT
1 TTT
71921359 ATATGTTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTATTTTTATCTTTA
Found at i:71925406 original size:46 final size:46
Alignment explanation
Indices: 71925354--71925528 Score: 244
Period size: 46 Copynumber: 3.8 Consensus size: 46
71925344 TATTTGGGCA
*
71925354 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
71925400 TCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
71925446 TCTGAGCTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
** * * *
71925492 -CCTGAGTTCTTTGAGTTGAGTCTGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
71925529 GCGGGTTACA
Statistics
Matches: 116, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
45 1 0.01
46 115 0.99
ACGTcount: A:0.20, C:0.18, G:0.29, T:0.33
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:71938487 original size:44 final size:44
Alignment explanation
Indices: 71938437--71938524 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
71938427 AAGTCAGCAG
71938437 GAAAGATGAATTTATCTACACGTACCAATACATCCTCAATTTTT
1 GAAAGATGAATTTATCTACACGTACCAATACATCCTCAATTTTT
*
71938481 GAAAGATGAATTTATCTACATGTACCAATACATCCTCAATTTTT
1 GAAAGATGAATTTATCTACACGTACCAATACATCCTCAATTTTT
71938525 CCTTCTGGAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.35
Consensus pattern (44 bp):
GAAAGATGAATTTATCTACACGTACCAATACATCCTCAATTTTT
Found at i:71944395 original size:20 final size:20
Alignment explanation
Indices: 71944370--71944411 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
71944360 GTAAGTTCGT
71944370 ATGTATTAAGCATTGTAATA
1 ATGTATTAAGCATTGTAATA
71944390 ATGTATTAAGCATTGTAATA
1 ATGTATTAAGCATTGTAATA
71944410 AT
1 AT
71944412 TATACTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.40, C:0.05, G:0.14, T:0.40
Consensus pattern (20 bp):
ATGTATTAAGCATTGTAATA
Found at i:71944552 original size:40 final size:39
Alignment explanation
Indices: 71944492--71944605 Score: 129
Period size: 40 Copynumber: 2.8 Consensus size: 39
71944482 TTATTTGTGA
*
71944492 CACTTAGTGTGCGATACGACATAGCTTCGGCTATATATGG
1 CACTTAGTGTGCGATTCGACATAGCTTC-GCTATATATGG
** *
71944532 CACTTAGTGTGCGATTCGACATATTTTCGATAATATATGG
1 CACTTAGTGTGCGATTCGACATAGCTTCGCT-ATATATGG
* * * *
71944572 CAATTAGTGTGCGATTTGAGATAGGTTCAGCTAT
1 CACTTAGTGTGCGATTCGACATAGCTTC-GCTAT
71944606 GTACGGTACT
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
39 2 0.03
40 58 0.94
41 2 0.03
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (39 bp):
CACTTAGTGTGCGATTCGACATAGCTTCGCTATATATGG
Found at i:71947707 original size:275 final size:275
Alignment explanation
Indices: 71946879--71947707 Score: 890
Period size: 275 Copynumber: 3.0 Consensus size: 275
71946869 TCAAGCCTAT
* *
71946879 CCACACCTCTCAATAACCATATCCATACCAAATGATTATAACATTACACTCAAACATATATAAGC
1 CCACACCTCTCAATAACCATACCCATACCAAATGATTATAACATTATACTCAAACATATATAAGC
71946944 CATTTTCGCATGGCTATCCAAAATTATACAAGTCCAAAGGGTCCATGACCCACAACAAACGGGTA
66 CATTTTCGCATGGCTATCCAAAATTATACAAGTCCAAAGGGTCCATGACCCACAACAAACGGGTA
71947009 GTCCTATACATGCCATTTCGAAGTTCAACCAAAATTGTACCAAAAGGGGGGGCTTTGATAGCTGG
131 GTCCTATACATGCCATTTCGAAGTTCAACCAAAATTGTACCAAAAGGGGGGGCTTTGATAGCTGG
71947074 AGAACCAAAATCTATAAAATAGAGGATCAAAGAAACGGAGTAAGCAATTTATGCTTAGTAAGTTT
196 AGAACCAAAATCTATAAAATAGAGGATCAAAGAAACGGAGTAAGCAATTTATGCTTAGTAAGTTT
71947139 TGAGCAAGGAATT--
261 TGAGCAAGGAATTCC
** ** * * ** * * * ** * * **
71947152 CCAGCACAGCAAAAGTATAGCATTCATATAGCTAAACGAATAATTTCA-TATGCACAAATTTTCG
1 CCA-CACCTCTCAA-TA-ACCATACCCATA-CCAAATG-ATTATAACATTATACTCAAA-CAT--
* ** * ** * *
71947216 ATATCATAC-TTGCTTCACAT---TA-CCAACCCTTATGTAC-A-TACACAAAAGAT-CA--ACC
58 ATATAAGCCATT--TTCGCATGGCTATCCAA-AATTA--TACAAGT-C-CAAAGGGTCCATGACC
** * * ** * * * *
71947271 CTTATGTACAAATGGAGTAAG--CAAT-TGTACC-CTT--ATGTACATACCAAAATT-TCGACTT
116 C--A-CAACAAACGG-GT-AGTCCTATACATGCCATTTCGAAGTTCA-ACCAAAATTGT--AC--
**** * **
71947329 CAAAATCCCGAG-TCCGATAGCTGGAGAACCAAAATCTATAAAATAGAGGATCAAAGAAACGGAG
171 CAAAAGGGGGGGCTTTGATAGCTGGAGAACCAAAATCTATAAAATAGAGGATCAAAGAAACGGAG
71947393 TAAGCAATTTATGCTTAGTAAGTTTTGAGCAAGGAATTCC
236 TAAGCAATTTATGCTTAGTAAGTTTTGAGCAAGGAATTCC
71947433 CCACACCTCTCAATAACCATACCCATACCAAATGATTATAACATTATACTCAAACATATATAAGC
1 CCACACCTCTCAATAACCATACCCATACCAAATGATTATAACATTATACTCAAACATATATAAGC
71947498 CATTTTCGCATGGCTATCCAAAATTATACAAGTCCAAAGGGTCCATGACCCACAACAAACGGGTA
66 CATTTTCGCATGGCTATCCAAAATTATACAAGTCCAAAGGGTCCATGACCCACAACAAACGGGTA
71947563 GTCCTATACATGCCATTTCGAAGTTCAACCAAAATTGTACCAAAAGGGGGGGCTTTGATAGCTGG
131 GTCCTATACATGCCATTTCGAAGTTCAACCAAAATTGTACCAAAAGGGGGGGCTTTGATAGCTGG
71947628 AGAACCAAAATCTATAAAATAGAGGATCAAAGAAACGGAGTAAGCAATTTATGCTTAGTAAGTTT
196 AGAACCAAAATCTATAAAATAGAGGATCAAAGAAACGGAGTAAGCAATTTATGCTTAGTAAGTTT
71947693 TGAGCAAGGAATTCC
261 TGAGCAAGGAATTCC
71947708 AGCACAGCAA
Statistics
Matches: 424, Mismatches: 86, Indels: 90
0.71 0.14 0.15
Matches are distributed among these distances:
272 2 0.00
273 11 0.03
274 38 0.09
275 102 0.24
276 30 0.07
277 59 0.14
278 31 0.07
279 100 0.24
280 38 0.09
281 11 0.03
282 2 0.00
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (275 bp):
CCACACCTCTCAATAACCATACCCATACCAAATGATTATAACATTATACTCAAACATATATAAGC
CATTTTCGCATGGCTATCCAAAATTATACAAGTCCAAAGGGTCCATGACCCACAACAAACGGGTA
GTCCTATACATGCCATTTCGAAGTTCAACCAAAATTGTACCAAAAGGGGGGGCTTTGATAGCTGG
AGAACCAAAATCTATAAAATAGAGGATCAAAGAAACGGAGTAAGCAATTTATGCTTAGTAAGTTT
TGAGCAAGGAATTCC
Found at i:71948127 original size:79 final size:82
Alignment explanation
Indices: 71948016--71948200 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
71948006 GCTACTCGTT
* * *
71948016 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
71948079 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
71948096 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
71948159 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
71948176 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
71948201 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:71948200 original size:40 final size:40
Alignment explanation
Indices: 71947997--71948200 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
71947987 CGGAATTTAA
** *
71947997 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
71948037 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
71948077 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
71948116 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
71948156 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
71948196 CCGGA
1 CCGGA
71948201 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:71956517 original size:45 final size:45
Alignment explanation
Indices: 71956453--71956625 Score: 271
Period size: 45 Copynumber: 3.9 Consensus size: 45
71956443 TGTACAGTAC
*
71956453 TATTCAGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAT
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAT
*
71956498 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGATGAGATAT
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAT
*
71956543 TATTTGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAT
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAT
* *
71956588 TATTCTGGCC-TCGAGCCTAGCAGG-TGA-AATGCCGGTGA
1 TATTCGGGCCTTTGAGCCTAGCAGGCT-ATAATGCCGGTGA
71956626 ATGAATTCGG
Statistics
Matches: 120, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
43 12 0.10
44 14 0.12
45 94 0.78
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.28
Consensus pattern (45 bp):
TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAT
Found at i:71965991 original size:55 final size:54
Alignment explanation
Indices: 71965904--71966158 Score: 287
Period size: 55 Copynumber: 4.8 Consensus size: 54
71965894 ATTAGGGTTT
*
71965904 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * * * *
71965959 AAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGGC
* * *
71966014 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGC-ATTGGTCAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
*
71966067 AAGGATACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* *
71966116 AAGGATACCACGTAAGACCATGACAAGACATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
71966159 GTACCCGCGT
Statistics
Matches: 173, Mismatches: 20, Indels: 20
0.81 0.09 0.09
Matches are distributed among these distances:
49 41 0.24
52 7 0.04
53 41 0.24
54 12 0.07
55 68 0.39
56 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:71966110 original size:108 final size:110
Alignment explanation
Indices: 71965911--71966111 Score: 327
Period size: 108 Copynumber: 1.8 Consensus size: 110
71965901 TTTAAGGATA
*
71965911 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
71965976 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* *
71966021 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTCA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
*
71966083 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
71966112 TCAAAAGGAT
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
107 3 0.04
108 48 0.56
109 7 0.08
110 27 0.32
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:71974465 original size:40 final size:40
Alignment explanation
Indices: 71974376--71974679 Score: 431
Period size: 40 Copynumber: 7.7 Consensus size: 40
71974366 TTGAATGATG
* * *
71974376 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
** * *
71974415 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
71974455 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
71974494 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
71974534 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
71974574 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
71974614 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
71974655 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
71974680 AACGAGGAGT
Statistics
Matches: 246, Mismatches: 12, Indels: 13
0.91 0.04 0.05
Matches are distributed among these distances:
39 53 0.22
40 183 0.74
41 10 0.04
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:71976388 original size:48 final size:48
Alignment explanation
Indices: 71976300--71976480 Score: 254
Period size: 48 Copynumber: 3.8 Consensus size: 48
71976290 TCCCATATCG
* * **
71976300 ACGCCATGTCCCAAACATGGTCGTACATGAAATCACATATCGATGCCA
1 ACGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCA
* * * *
71976348 ACGCCATATCCCAGACATGGTCTTACGTGGGATCATATATCAATGCCA
1 ACGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCA
* *
71976396 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATTGATGCCA
1 ACGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCA
* *
71976444 ATGCCATGTCCCAGACATGGTCTAACATGGGATCACA
1 ACGCCATGTCCCAGACATGGTCTTACATGGGATCACA
71976481 ATGCCATAGC
Statistics
Matches: 118, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 118 1.00
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (48 bp):
ACGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCA
Found at i:71976509 original size:37 final size:37
Alignment explanation
Indices: 71976442--71976540 Score: 110
Period size: 37 Copynumber: 2.7 Consensus size: 37
71976432 ATATTGATGC
* *
71976442 CAATGCCAT-GTCCCAGACATGGTCTAACATGGGATCA
1 CAATGCCATAG-CCCAGCCATGGTCTAACATGGCATCA
* * * *
71976479 CAATGCCATAGCCCAGCCATGGTTTTACATGTCATTA
1 CAATGCCATAGCCCAGCCATGGTCTAACATGGCATCA
* *
71976516 CGATGCCATAGCCCAGCTATGGTCT
1 CAATGCCATAGCCCAGCCATGGTCT
71976541 TGCACGTACT
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
37 51 0.98
38 1 0.02
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.25
Consensus pattern (37 bp):
CAATGCCATAGCCCAGCCATGGTCTAACATGGCATCA
Found at i:71978446 original size:47 final size:47
Alignment explanation
Indices: 71978139--71978455 Score: 218
Period size: 46 Copynumber: 6.7 Consensus size: 47
71978129 TATGGGTTAT
* * *
71978139 TATGAGCCAGTGTAAGACCATGTCTGGGACATGACATTGGCATTGAGA
1 TATGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TTCAGA
* * * *
71978187 CGA-GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCAAGA
1 -TATGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTC-AGA
** * * * * *
71978233 CGTAAGGCAGTGCAAGA-CATGTCTAGGACAT-GCATCGGCTAC-GA
1 TATGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTCAGA
* * * * * *
71978277 AATGTGTCAGTGTAAGACCATGTCCGGGACATGGCATCGAC-ACAGA
1 TATGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTCAGA
* * * * *
71978323 TATGTGAGAACTAGTGTAAGACCATGCCTGGGACATGGCGTCAGCCTCA-A
1 TA--TGAG--CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTCAGA
* * *
71978373 TGACGATAGTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGAGA
1 T-ATG--AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTCAGA
* *
71978423 TATGAGCCAGTGTAAGACAATGTCTAGGACATG
1 TATGAGCCAGTGTAAGACCATGTCTGGGACATG
71978456 ACGTCGACAT
Statistics
Matches: 206, Mismatches: 48, Indels: 30
0.73 0.17 0.11
Matches are distributed among these distances:
44 13 0.06
45 15 0.07
46 49 0.24
47 40 0.19
48 16 0.08
49 36 0.17
50 32 0.16
51 5 0.02
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (47 bp):
TATGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTCAGA
Found at i:71983263 original size:40 final size:40
Alignment explanation
Indices: 71983218--71983320 Score: 100
Period size: 40 Copynumber: 2.6 Consensus size: 40
71983208 CGAAAAATCT
* *
71983218 ACTATATTTGGCACTTAGTGTGCG-TTTCGAAATAGCTTCG
1 ACTATATATGGCACTTAGTGTGCGAATT-GAAATAGCTTCG
* *** *
71983258 GCTATATACAACACTTAGTGTGCGAATTGGAATAGCTTCG
1 ACTATATATGGCACTTAGTGTGCGAATTGAAATAGCTTCG
* * *
71983298 ACTTTATGTGGCACTAAGTGTGC
1 ACTATATATGGCACTTAGTGTGC
71983321 AATACTAAGA
Statistics
Matches: 48, Mismatches: 14, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
40 46 0.96
41 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.34
Consensus pattern (40 bp):
ACTATATATGGCACTTAGTGTGCGAATTGAAATAGCTTCG
Found at i:71987946 original size:20 final size:20
Alignment explanation
Indices: 71987921--71987965 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
71987911 AAGGACTAAA
* *
71987921 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
71987941 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
71987961 ATGAA
1 ATGAA
71987966 TACATGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:72003599 original size:119 final size:118
Alignment explanation
Indices: 72003476--72003770 Score: 380
Period size: 119 Copynumber: 2.5 Consensus size: 118
72003466 AATTCTGGAA
* * **
72003476 ACAATTCCAGCACGAAGCCTGCGAGTCTTTATGCCCAGATACAATTCCAGCACGAAGCATGTGGG
1 ACAATTCCAGCACGAAGCCTGCG-GTCTTTAAGCCCGGATACAATTCCAGCACGAAGCATACGGG
72003541 TCTTTAAGCCCGGATACAATTCCAGCACA-AAGCCTGCGGACCTTAAGTCC-GAAT
65 TCTTTAAGCCCGGATACAATTCCAGCA-AGAAGCCTGCGGACCTTAAGTCCTG-AT
* * * * * *
72003595 ACAATTCCAGCACAAAGTCTGTGGGTCTTTAAGCCCGGATATAATTCCAGCA-TATAGCCTACGG
1 ACAATTCCAGCACGAAGCCTG-CGGTCTTTAAGCCCGGATACAATTCCAGCACGA-AGCATACGG
*
72003659 GTCTTTAAGCCCGGATACAATTCCAGCAAGAAGCTTGCGGACCTTAAGTCCTGAT
64 GTCTTTAAGCCCGGATACAATTCCAGCAAGAAGCCTGCGGACCTTAAGTCCTGAT
* * * * *
72003714 ACAATTCCAGCACGAAGCTTGCGGACCTTAAGTCTGGATACAATTCCAGCACGAAGC
1 ACAATTCCAGCACGAAGCCTGCGGTCTTTAAGCCCGGATACAATTCCAGCACGAAGC
72003771 TTGCGGACCT
Statistics
Matches: 150, Mismatches: 21, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
118 29 0.19
119 119 0.79
120 2 0.01
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.22
Consensus pattern (118 bp):
ACAATTCCAGCACGAAGCCTGCGGTCTTTAAGCCCGGATACAATTCCAGCACGAAGCATACGGGT
CTTTAAGCCCGGATACAATTCCAGCAAGAAGCCTGCGGACCTTAAGTCCTGAT
Found at i:72003792 original size:39 final size:39
Alignment explanation
Indices: 72003404--72003792 Score: 357
Period size: 39 Copynumber: 9.9 Consensus size: 39
72003394 GGATATAGTA
* * * * *
72003404 CCAGTACGAAGCCTGCGGACCTTAAGTCCGAATATAGTA
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
* * * * * *
72003443 CCAGCACGAAGCCTACAGATCTTAATTCTGGAAACAATT
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
* * * * *
72003482 CCAGCACGAAGCCTGCGAGTCTTTATGCCCAGATACAATT
1 CCAGCACGAAGCCTGCG-GACCTTAAGTCCGGATACAATT
* * * * *
72003522 CCAGCACGAAGCATGTGGGTCTTTAAGCCCGGATACAATT
1 CCAGCACGAAGCCTG-CGGACCTTAAGTCCGGATACAATT
* *
72003562 CCAGCACAAAGCCTGCGGACCTTAAGTCCGAATACAATT
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
* * * * * * *
72003601 CCAGCACAAAGTCTGTGGGTCTTTAAGCCCGGATATAATT
1 CCAGCACGAAGCCTG-CGGACCTTAAGTCCGGATACAATT
* * * * *
72003641 CCAGCA-TATAGCCTACGGGTCTTTAAGCCCGGATACAATT
1 CCAGCACGA-AGCCTGC-GGACCTTAAGTCCGGATACAATT
* * *
72003681 CCAGCAAGAAGCTTGCGGACCTTAAGTCCTGATACAATT
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
* *
72003720 CCAGCACGAAGCTTGCGGACCTTAAGTCTGGATACAATT
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
*
72003759 CCAGCACGAAGCTTGCGGACCTTAAGTCCGGATA
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATA
72003793 TACATCAAAT
Statistics
Matches: 288, Mismatches: 56, Indels: 12
0.81 0.16 0.03
Matches are distributed among these distances:
39 165 0.57
40 121 0.42
41 2 0.01
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
Found at i:72003796 original size:119 final size:117
Alignment explanation
Indices: 72003384--72003792 Score: 378
Period size: 119 Copynumber: 3.5 Consensus size: 117
72003374 GCCTATGGGA
* * * * * * * * * *
72003384 CTTTAAGCTCGGATATAGTACCAGTACGAAGCCTGCGGACCTTAAGTCCGAATATAGTACCAGCA
1 CTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTAAGCCCGGATACAATTCCAGCA
* * * * * * *
72003449 CGAAGCCTACAGATCTTAA-TTCTGGAAACAATTCCAGCACGAAGCCTGCGAGT
66 AGAAGCCTGCGGACCTTAAGTCCT-GATACAATTCCAGCACGAAGCTTGCG-GT
* * * * * *
72003502 CTTTATGCCCAGATACAATTCCAGCACGAAGCATGTGGGTCTTTAAGCCCGGATACAATTCCAGC
1 CTTTAAGCCCGGATACAATTCCAGCACGAAGCCTG-CGGACCTTAAGCCCGGATACAATTCCAGC
*
72003567 ACA-AAGCCTGCGGACCTTAAGTCC-GAATACAATTCCAGCACAAAGTCTGTG-GGT
65 A-AGAAGCCTGCGGACCTTAAGTCCTG-ATACAATTCCAGCACGAAG-CT-TGCGGT
* * * * *
72003621 CTTTAAGCCCGGATATAATTCCAGCA-TATAGCCTACGGGTCTTTAAGCCCGGATACAATTCCAG
1 CTTTAAGCCCGGATACAATTCCAGCACGA-AGCCTGC-GGACCTTAAGCCCGGATACAATTCCAG
* *
72003685 CAAGAAGCTTGCGGACCTTAAGTCCTGATACAATTCCAGCACGAAGCTTGCGGA
64 CAAGAAGCCTGCGGACCTTAAGTCCTGATACAATTCCAGCACGAAGCTTGCGGT
* * * * *
72003739 CCTTAAGTCTGGATACAATTCCAGCACGAAGCTTGCGGACCTTAAGTCCGGATA
1 CTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTAAGCCCGGATA
72003793 TACATCAAAT
Statistics
Matches: 235, Mismatches: 44, Indels: 25
0.77 0.14 0.08
Matches are distributed among these distances:
117 17 0.07
118 61 0.26
119 150 0.64
120 5 0.02
121 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (117 bp):
CTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTAAGCCCGGATACAATTCCAGCA
AGAAGCCTGCGGACCTTAAGTCCTGATACAATTCCAGCACGAAGCTTGCGGT
Found at i:72006058 original size:28 final size:26
Alignment explanation
Indices: 72006002--72006088 Score: 111
Period size: 27 Copynumber: 3.2 Consensus size: 26
72005992 CAGCATGGCT
* *
72006002 ACCAGAACAGATAATGTGACAGAGTC
1 ACCAGAACAGATAATGTGGCAGAGCC
72006028 ACCAGATACAGATAATCGTGGCAGAGCC
1 ACCAGA-ACAGATAAT-GTGGCAGAGCC
*
72006056 ACCAGAATAGATATATGTGGCAGAGCC
1 ACCAGAACAGATA-ATGTGGCAGAGCC
*
72006083 ATCAGA
1 ACCAGA
72006089 TCACCCCCAT
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
26 6 0.11
27 31 0.57
28 17 0.31
ACGTcount: A:0.39, C:0.21, G:0.24, T:0.16
Consensus pattern (26 bp):
ACCAGAACAGATAATGTGGCAGAGCC
Found at i:72006229 original size:27 final size:27
Alignment explanation
Indices: 72006194--72006258 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
72006184 ACAATGTGAT
*
72006194 AGAGTCACCAGATAAGATAATCGTGGC
1 AGAGCCACCAGATAAGATAATCGTGGC
* * *
72006221 AGAGCCACCAGATCAGATATTTGTGGC
1 AGAGCCACCAGATAAGATAATCGTGGC
*
72006248 ATAGCCACCAG
1 AGAGCCACCAG
72006259 GACGCTTCCT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.18
Consensus pattern (27 bp):
AGAGCCACCAGATAAGATAATCGTGGC
Found at i:72015341 original size:55 final size:55
Alignment explanation
Indices: 72015232--72015344 Score: 131
Period size: 55 Copynumber: 2.1 Consensus size: 55
72015222 CTTTTAAATT
* *
72015232 AGTATTGTCCACGGTTAGGCCACACAGGCGTGTGCCATAGCCGTGTCTATAAGTC
1 AGTATTGCCCACGGTTAGGCCACACAGGCGTGTGCCATAGCCGTGCCTATAAGTC
* * * * *
72015287 AGTATTGCCCACAGG-TAGGCCACACGGGCTTGTGTCATCGCTGTGCCCTA-AAGTC
1 AGTATTGCCCAC-GGTTAGGCCACACAGGCGTGTGCCATAGCCGTG-CCTATAAGTC
72015342 AGT
1 AGT
72015345 GTCGCACACG
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
55 44 0.90
56 5 0.10
ACGTcount: A:0.21, C:0.27, G:0.27, T:0.25
Consensus pattern (55 bp):
AGTATTGCCCACGGTTAGGCCACACAGGCGTGTGCCATAGCCGTGCCTATAAGTC
Found at i:72020119 original size:19 final size:19
Alignment explanation
Indices: 72020095--72020132 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
72020085 CACCAGAGTT
72020095 AGAAAAGATATACGATGTG
1 AGAAAAGATATACGATGTG
* *
72020114 AGAAAAGATTTATGATGTG
1 AGAAAAGATATACGATGTG
72020133 TTTCACGTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.45, C:0.03, G:0.26, T:0.26
Consensus pattern (19 bp):
AGAAAAGATATACGATGTG
Found at i:72020501 original size:9 final size:9
Alignment explanation
Indices: 72020487--72020515 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
72020477 AGATAGAAAA
72020487 ATTATTTTT
1 ATTATTTTT
72020496 ATTATTTTT
1 ATTATTTTT
72020505 ATTATTTTT
1 ATTATTTTT
72020514 AT
1 AT
72020516 GAGGTTATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (9 bp):
ATTATTTTT
Found at i:72021719 original size:47 final size:46
Alignment explanation
Indices: 72021647--72021874 Score: 187
Period size: 47 Copynumber: 4.8 Consensus size: 46
72021637 TGGGGTTATG
*
72021647 TGAGAGCCAGTATAAGACCATGTCTGGGACATGGCATCGGCATTGA-GA
1 TGAG-GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATTGATGA
* * * * * *
72021695 CGAGGGCTAGTGTAAGACGTGTCTGGGACATGCATCAGCCACATCATGA
1 TGA-GGCCAGTGTAAGACATGTCTGGGACATGCATC-GGCA-TTGATGA
* * * * *
72021744 T-A-GCCCGTGTAAGACCACGTCTAGGACATGGCATCGGCGTAGA-GA
1 TGAGGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATTGATGA
* *
72021789 TGAGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGATGA
1 TGAG-GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATTGATGA
*
72021836 TGTTA-GCCAGTGTAAGACGTGTCTGGGACATGCATCGGC
1 TG--AGGCCAGTGTAAGACATGTCTGGGACATGCATCGGC
72021875 TAAGTTTCGT
Statistics
Matches: 144, Mismatches: 24, Indels: 25
0.75 0.12 0.13
Matches are distributed among these distances:
45 3 0.02
46 28 0.19
47 78 0.54
48 31 0.22
49 4 0.03
ACGTcount: A:0.25, C:0.21, G:0.32, T:0.21
Consensus pattern (46 bp):
TGAGGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATTGATGA
Found at i:72021820 original size:94 final size:95
Alignment explanation
Indices: 72021651--72021874 Score: 292
Period size: 94 Copynumber: 2.4 Consensus size: 95
72021641 GTTATGTGAG
* * * *
72021651 AGCCAGTATAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGGGCTAGTGTAAGACGTG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATAGAGACGAGGGCCAGTGTAAGACATG
72021716 TCTGGGACATGCATCAGCCAC-ATCATGAT
66 TCTGGGACATGCATCAGCCACGATCATGAT
* * * * * *
72021745 AGCCCGTGTAAGACCACGTCTAGGACATGGCATCGGCGTAGAGATGAGTGCCAGTGTAAGACATG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATAGAGACGAGGGCCAGTGTAAGACATG
* * * *
72021810 TCTGGGACATGCATCGGCCTCGATGATGTT
66 TCTGGGACATGCATCAGCCACGATCATGAT
*
72021840 AGCCAGTGTAAGA-CGTGTCTGGGACAT-GCATCGGC
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
72021875 TAAGTTTCGT
Statistics
Matches: 111, Mismatches: 18, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
93 8 0.07
94 85 0.77
95 18 0.16
ACGTcount: A:0.25, C:0.22, G:0.31, T:0.21
Consensus pattern (95 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATAGAGACGAGGGCCAGTGTAAGACATG
TCTGGGACATGCATCAGCCACGATCATGAT
Found at i:72024113 original size:27 final size:27
Alignment explanation
Indices: 72024083--72024260 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
72024073 ATATTGAGTC
* * * *
72024083 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
72024110 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
72024137 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
72024165 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
72024192 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
72024219 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
72024246 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
72024261 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:72024222 original size:82 final size:81
Alignment explanation
Indices: 72024104--72024259 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
72024094 TGCTATATAA
* *
72024104 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
72024169 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
72024186 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
72024250 CACTTAGTGC
65 CACTTAGTGC
72024260 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:72039053 original size:12 final size:12
Alignment explanation
Indices: 72039036--72039062 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
72039026 ACAATAATTA
72039036 TTGGGTATTGTT
1 TTGGGTATTGTT
72039048 TTGGGTATTGTT
1 TTGGGTATTGTT
72039060 TTG
1 TTG
72039063 CATAAATCTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.00, G:0.33, T:0.59
Consensus pattern (12 bp):
TTGGGTATTGTT
Found at i:72043583 original size:58 final size:57
Alignment explanation
Indices: 72043451--72043585 Score: 155
Period size: 58 Copynumber: 2.3 Consensus size: 57
72043441 TTTAATTCAT
* * **
72043451 ATAATAATTACATTAAGAATTTTATTAAATTATATATCATTTTATTAAATTATAATTA
1 ATAATAATTATATTAA-AATATGGTTAAATTATATATCATTTTATTAAATTATAATTA
* * * **
72043509 ATAATAATTATGTTAAAATATGGTTAAATTATTTATTATATTTATTAAATTATTTTTA
1 ATAATAATTATATTAAAATATGGTTAAATTATATATCAT-TTTATTAAATTATAATTA
72043567 ATAATAATCT-TATTAAAAT
1 ATAATAAT-TATATTAAAAT
72043586 TTAATAAGAA
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
57 18 0.28
58 46 0.71
59 1 0.02
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (57 bp):
ATAATAATTATATTAAAATATGGTTAAATTATATATCATTTTATTAAATTATAATTA
Found at i:72045345 original size:89 final size:88
Alignment explanation
Indices: 72045217--72045461 Score: 278
Period size: 88 Copynumber: 2.8 Consensus size: 88
72045207 TGTAAAAAAT
* * *
72045217 CCTCAAACTTCTTTAAAATAAAGTAATTAAG-CCTCTGTTTTTTTTTTCACTCATTTGGGTACTT
1 CCTCAAACTTTTTTAAAA-AAAGCAATTAAGCCCT-TGTTTTTTTTTTCACTCAATTGGGTACTT
* * *
72045281 GAATTTTTATAATGCATCAAAAAGAC
64 GAACTTTCAAAATGCATC-AAAAGAC
* * *
72045307 CTTCAAATTTTTTTAAAAAAAGCAATTAAGCCCTTGTTTTTTTTTAT-ATTCAATTGGGTACTTG
1 CCTCAAACTTTTTTAAAAAAAGCAATTAAGCCCTTGTTTTTTTTT-TCACTCAATTGGGTACTTG
*
72045371 AACTTTCAAAATGCATCAAAAGGC
65 AACTTTCAAAATGCATCAAAAGAC
* * * ** ** *
72045395 CCTCAAACTTTTTCATAAAAAGCAATTAAGCCTTTGCCTTTTTTGGCACTCAATTAGGTACTTGA
1 CCTCAAACTTTTTTAAAAAAAGCAATTAAGCCCTTGTTTTTTTTTTCACTCAATTGGGTACTTGA
72045460 AC
66 AC
72045462 CGCCATTAAT
Statistics
Matches: 131, Mismatches: 21, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
88 61 0.47
89 51 0.39
90 19 0.15
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (88 bp):
CCTCAAACTTTTTTAAAAAAAGCAATTAAGCCCTTGTTTTTTTTTTCACTCAATTGGGTACTTGA
ACTTTCAAAATGCATCAAAAGAC
Found at i:72045525 original size:9 final size:9
Alignment explanation
Indices: 72045511--72045745 Score: 81
Period size: 9 Copynumber: 25.0 Consensus size: 9
72045501 CATTTGGCAA
*
72045511 AAAAATGAT
1 AAAAATTAT
72045520 AAAAA-TA-
1 AAAAATTAT
**
72045527 AAAAACAAT
1 AAAAATTAT
*
72045536 AAAAGTTAT
1 AAAAATTAT
* *
72045545 AAATATGATT
1 AAAAATTA-T
**
72045555 AAATTTTAAT
1 AAAAATTA-T
72045565 AAAAA-TAT
1 AAAAATTAT
72045573 AAAAAATTAT
1 -AAAAATTAT
*
72045583 AAAAATCAT
1 AAAAATTAT
72045592 AAAAATTAT
1 AAAAATTAT
*
72045601 AAAAAATTGT
1 -AAAAATTAT
72045611 -AAAATCATAT
1 AAAAAT--TAT
*
72045621 AAAAATCAT
1 AAAAATTAT
72045630 AAAATATTAT
1 AAAA-ATTAT
72045640 -AAAATATAT
1 AAAAAT-TAT
*
72045649 AGAAA-TAT
1 AAAAATTAT
72045657 AGAACAATTAT
1 A-AA-AATTAT
* *
72045668 -AACATTTT
1 AAAAATTAT
* *
72045676 ATAAAGTCAT
1 A-AAAATTAT
72045686 AAGAAAATTAT
1 -A-AAAATTAT
*
72045697 AAAAAATTGT
1 -AAAAATTAT
*
72045707 AAAGAAATAT
1 AAA-AATTAT
72045717 -AAAATTCAT
1 AAAAATT-AT
72045726 AAAATATATAT
1 AAAA-AT-TAT
*
72045737 ATAAATTAT
1 AAAAATTAT
72045746 CATAGTAAAC
Statistics
Matches: 168, Mismatches: 35, Indels: 46
0.67 0.14 0.18
Matches are distributed among these distances:
7 5 0.03
8 21 0.12
9 64 0.38
10 53 0.32
11 24 0.14
12 1 0.01
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:72045593 original size:19 final size:19
Alignment explanation
Indices: 72045563--72045729 Score: 89
Period size: 19 Copynumber: 8.8 Consensus size: 19
72045553 TTAAATTTTA
72045563 ATAAAAAT-ATAAAAAATT
1 ATAAAAATCATAAAAAATT
72045581 ATAAAAATCAT-AAAAATT
1 ATAAAAATCATAAAAAATT
** *
72045599 ATAAAAAATTGTAAAATCA-T
1 AT-AAAAATCATAAAA-AATT
*
72045619 ATAAAAATCATAAAATATT
1 ATAAAAATCATAAAAAATT
*
72045638 AT-AAAAT-ATATAGAAA-T
1 ATAAAAATCATA-AAAAATT
* * **
72045655 ATAGAACAATTATAACATTTT
1 ATA-AA-AATCATAAAAAATT
*
72045676 AT-AAAGTCATAAGAAAATT
1 ATAAAAATCATAA-AAAATT
**
72045695 ATAAAAAATTGTAAAGAAA-T
1 AT-AAAAATCATAAA-AAATT
*
72045715 ATAAAATTCATAAAA
1 ATAAAAATCATAAAA
72045730 TATATATATA
Statistics
Matches: 112, Mismatches: 22, Indels: 30
0.68 0.13 0.18
Matches are distributed among these distances:
17 6 0.05
18 33 0.29
19 41 0.37
20 15 0.13
21 17 0.15
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.29
Consensus pattern (19 bp):
ATAAAAATCATAAAAAATT
Found at i:72045641 original size:10 final size:10
Alignment explanation
Indices: 72045541--72045656 Score: 77
Period size: 10 Copynumber: 12.1 Consensus size: 10
72045531 ACAATAAAAG
72045541 TTAT-AAATA
1 TTATAAAATA
* * *
72045550 TGATTAAATT
1 TTATAAAATA
72045560 TTAATAAAA-A
1 TT-ATAAAATA
*
72045570 -TATAAAAAA
1 TTATAAAATA
72045579 TTATAAAA-A
1 TTATAAAATA
*
72045588 TCATAAAA-A
1 TTATAAAATA
*
72045597 TTATAAAAAA
1 TTATAAAATA
*
72045607 TTGTAAAATCA
1 TTATAAAAT-A
72045618 -TATAAAA-A
1 TTATAAAATA
*
72045626 TCATAAAATA
1 TTATAAAATA
72045636 TTATAAAATA
1 TTATAAAATA
72045646 -TATAGAAATA
1 TTATA-AAATA
72045656 T
1 T
72045657 AGAACAATTA
Statistics
Matches: 85, Mismatches: 12, Indels: 18
0.74 0.10 0.16
Matches are distributed among these distances:
8 7 0.08
9 31 0.36
10 41 0.48
11 6 0.07
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.34
Consensus pattern (10 bp):
TTATAAAATA
Found at i:72045679 original size:57 final size:57
Alignment explanation
Indices: 72045524--72045701 Score: 159
Period size: 57 Copynumber: 3.1 Consensus size: 57
72045514 AATGATAAAA
* * * * *
72045524 ATAAAAAACAATAAAAGTTAT-AAATATGATTAAATTTTAATAAAAAT-ATAAAAAATT
1 ATAAAAATC-ATAAAAATTATAAAAAATTATAAAATTTT-ATAAAAATCATAAAAAATT
* ** *
72045581 ATAAAAATCATAAAAATTATAAAAAATTGTAAAATCATATAAAAATCATAAAATATT
1 ATAAAAATCATAAAAATTATAAAAAATTATAAAATTTTATAAAAATCATAAAAAATT
* * * *
72045638 ATAAAATAT-ATAGAAA-TATAGAACAATTATAACATTTTAT-AAAGTCATAAGAAAATT
1 ATAAAA-ATCATAAAAATTATA-AAAAATTATAAAATTTTATAAAAATCATAA-AAAATT
72045695 ATAAAAA
1 ATAAAAA
72045702 ATTGTAAAGA
Statistics
Matches: 99, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
56 32 0.32
57 65 0.66
58 2 0.02
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (57 bp):
ATAAAAATCATAAAAATTATAAAAAATTATAAAATTTTATAAAAATCATAAAAAATT
Found at i:72046041 original size:28 final size:29
Alignment explanation
Indices: 72045981--72046051 Score: 74
Period size: 28 Copynumber: 2.5 Consensus size: 29
72045971 CATACTTCTT
* * * *
72045981 TTATGATTTTTTTTAAATTTTAAATATTT
1 TTATAATTTTTATTAAAATTTAAATATTC
72046010 TTAT-ATTTTTATTAAAATTT-AATAATTC
1 TTATAATTTTTATTAAAATTTAAAT-ATTC
*
72046038 TTATAAATTTTATT
1 TTATAATTTTTATT
72046052 GATTTTTATT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
27 3 0.08
28 21 0.58
29 12 0.33
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.62
Consensus pattern (29 bp):
TTATAATTTTTATTAAAATTTAAATATTC
Found at i:72046523 original size:89 final size:90
Alignment explanation
Indices: 72046194--72046543 Score: 346
Period size: 89 Copynumber: 3.9 Consensus size: 90
72046184 TTTTGATACA
* ** ** * *
72046194 TTTGATAGTTCAAGTTGCCAATTGAGTGCAAAAAAAATTC-AGGAGCTTAA-TGCTTTGTTTGAA
1 TTTGAAAGTTCAAGTACCCAATTGAGTGCAAAAAAAAAGCAAGGA-CTTAATTGCTTTTTTTAAA
* *
72046257 AAAGTTTGAGGGTC-TTTTTAATGCAT
65 AAAGTTTGA-GGACATTTTTTATGCAT
* * *
72046283 TTTGAAAGTTCAAGTACCTAATT-A-TGTAAAAAAAAAGCAAGGGCTTAATTGCTTTTCTTTTTT
1 TTTGAAAGTTCAAGTACCCAATTGAGTGCAAAAAAAAAGCAAGGACTTAATTGC---T-TTTTTT
* * *
72046346 GAAAAAGTTTGAGG-CCTTTTTTATACAT
62 AAAAAAGTTTGAGGACATTTTTTATGCAT
* * * *
72046374 TTTGAAAGTTGAAGTACCCAATTGAGTGTAAAAAAAAAAGCAAGG-GTTAATTG-TTCTTTTAAA
1 TTTGAAAGTTCAAGTACCCAATTGAGTG-CAAAAAAAAAGCAAGGACTTAATTGCTTTTTTTAAA
72046437 AAAGTTTGAGGACATTTTTTATGCAT
65 AAAGTTTGAGGACATTTTTTATGCAT
* * *
72046463 TTTGAAAGTTCAAGTACCCAATTGAGTGCAAAAAAATA-CAATGACTTAATTACTTTTTTTAAAA
1 TTTGAAAGTTCAAGTACCCAATTGAGTGCAAAAAAAAAGCAAGGACTTAATTGCTTTTTTTAAAA
*
72046527 AA-CTTGA-GA-ATTTTTTA
66 AAGTTTGAGGACATTTTTTA
72046544 CGCACTTAAA
Statistics
Matches: 221, Mismatches: 27, Indels: 29
0.80 0.10 0.10
Matches are distributed among these distances:
86 8 0.04
87 22 0.10
88 43 0.19
89 71 0.32
90 1 0.00
91 34 0.15
92 18 0.08
93 9 0.04
94 15 0.07
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.37
Consensus pattern (90 bp):
TTTGAAAGTTCAAGTACCCAATTGAGTGCAAAAAAAAAGCAAGGACTTAATTGCTTTTTTTAAAA
AAGTTTGAGGACATTTTTTATGCAT
Found at i:72048033 original size:56 final size:56
Alignment explanation
Indices: 72047931--72048039 Score: 146
Period size: 56 Copynumber: 1.9 Consensus size: 56
72047921 AAACTAATTC
* * *
72047931 CTATATATCAAGAGTATATCAAAACAGAAAACAAGAGCAAAGAAATTTGAAATCTT
1 CTATATATCAAGAGCACATCAAAACAGAAAACAAAAGCAAAGAAATTTGAAATCTT
* ** * *
72047987 CTATATATCAGGAGCACATCAAAACAGAAGGCAAAAGTAAATAAATTTGAAAT
1 CTATATATCAAGAGCACATCAAAACAGAAAACAAAAGCAAAGAAATTTGAAAT
72048040 ACAAATAGAT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
56 45 1.00
ACGTcount: A:0.51, C:0.13, G:0.14, T:0.22
Consensus pattern (56 bp):
CTATATATCAAGAGCACATCAAAACAGAAAACAAAAGCAAAGAAATTTGAAATCTT
Found at i:72052452 original size:17 final size:17
Alignment explanation
Indices: 72052430--72052463 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
72052420 CTAAGGCTTG
*
72052430 TAAAGAAGCTATTTGGT
1 TAAAGAAACTATTTGGT
*
72052447 TAAAGAAACTCTTTGGT
1 TAAAGAAACTATTTGGT
72052464 GAAGTAATAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (17 bp):
TAAAGAAACTATTTGGT
Found at i:72056199 original size:6 final size:6
Alignment explanation
Indices: 72056173--72056250 Score: 74
Period size: 6 Copynumber: 13.5 Consensus size: 6
72056163 AGTGATTTCA
* * *
72056173 TTTAGT TTTATGT TTTA-- TTTATT TTTATT TTTATT TGTACT TTTATT
1 TTTATT TTTAT-T TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
* *
72056220 TTTATT GTTATT TGT-TT TTTA-T TTTATT TTT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTT
72056251 TAAATTTATA
Statistics
Matches: 58, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
4 4 0.07
5 9 0.16
6 40 0.69
7 5 0.09
ACGTcount: A:0.15, C:0.01, G:0.06, T:0.77
Consensus pattern (6 bp):
TTTATT
Found at i:72056218 original size:18 final size:17
Alignment explanation
Indices: 72056173--72056249 Score: 72
Period size: 17 Copynumber: 4.5 Consensus size: 17
72056163 AGTGATTTCA
*
72056173 TTTAGTTTTATGTTTTA-
1 TTTACTTTTAT-TTTTAT
*
72056190 TTTATTTTTATTTTTAT
1 TTTACTTTTATTTTTAT
72056207 TTGTACTTTTATTTTTAT
1 TT-TACTTTTATTTTTAT
72056225 TGTTA-TTTGT-TTTTTAT
1 T-TTACTTT-TATTTTTAT
72056242 TTTA-TTTT
1 TTTACTTTT
72056250 TTAAATTTAT
Statistics
Matches: 54, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
15 1 0.02
16 11 0.20
17 23 0.43
18 18 0.33
19 1 0.02
ACGTcount: A:0.16, C:0.01, G:0.06, T:0.77
Consensus pattern (17 bp):
TTTACTTTTATTTTTAT
Found at i:72056222 original size:24 final size:23
Alignment explanation
Indices: 72056190--72056250 Score: 88
Period size: 24 Copynumber: 2.7 Consensus size: 23
72056180 TTATGTTTTA
72056190 TTTATTTTTATTTTTATTTGTACT
1 TTTATTTTTATTTTTATTTGT-CT
* *
72056214 TTTATTTTTATTGTTATTTGTTT
1 TTTATTTTTATTTTTATTTGTCT
72056237 TTTA-TTTTATTTTT
1 TTTATTTTTATTTTT
72056251 TAAATTTATA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
22 9 0.26
23 5 0.15
24 20 0.59
ACGTcount: A:0.15, C:0.02, G:0.05, T:0.79
Consensus pattern (23 bp):
TTTATTTTTATTTTTATTTGTCT
Found at i:72056251 original size:12 final size:12
Alignment explanation
Indices: 72056190--72056274 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 12
72056180 TTATGTTTTA
72056190 TTTATTTT-TATT
1 TTTATTTTAT-TT
*
72056202 TTTATTTGTA-CT
1 TTTATTT-TATTT
72056214 TTTATTTT-TATT
1 TTTATTTTAT-TT
* *
72056226 GTTA-TTTGTTT
1 TTTATTTTATTT
72056237 TTTATTTTATTT
1 TTTATTTTATTT
*
72056249 TTTAAATTTATATGT
1 TTT--ATTT-TATTT
72056264 TTTATTTTATT
1 TTTATTTTATT
72056275 ATGCACTTTC
Statistics
Matches: 57, Mismatches: 7, Indels: 18
0.70 0.09 0.22
Matches are distributed among these distances:
11 9 0.16
12 32 0.56
13 5 0.09
14 4 0.07
15 7 0.12
ACGTcount: A:0.19, C:0.01, G:0.05, T:0.75
Consensus pattern (12 bp):
TTTATTTTATTT
Found at i:72061245 original size:33 final size:33
Alignment explanation
Indices: 72061200--72061267 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
72061190 AGGACACTCC
72061200 CAGATCTAATATTTTGTGGACCCACATCAAAAA
1 CAGATCTAATATTTTGTGGACCCACATCAAAAA
* *
72061233 CAGATCTGATATTTTGTGGACCCACGTCAAAAA
1 CAGATCTAATATTTTGTGGACCCACATCAAAAA
72061266 CA
1 CA
72061268 TACTCCTGCC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.26
Consensus pattern (33 bp):
CAGATCTAATATTTTGTGGACCCACATCAAAAA
Found at i:72063374 original size:20 final size:20
Alignment explanation
Indices: 72063349--72063388 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
72063339 CGGTCGTGTG
72063349 GGGGTCAACAAGCCCATGTA
1 GGGGTCAACAAGCCCATGTA
* *
72063369 GGGGTCAACACGCCCGTGTA
1 GGGGTCAACAAGCCCATGTA
72063389 AGAGGAGGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.25, C:0.28, G:0.33, T:0.15
Consensus pattern (20 bp):
GGGGTCAACAAGCCCATGTA
Found at i:72063450 original size:21 final size:21
Alignment explanation
Indices: 72063393--72063444 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
72063383 CGTGTAAGAG
72063393 GAGGCACACGGTCGTGTGGCT
1 GAGGCACACGGTCGTGTGGCT
72063414 GAGGCACACGGTCGTGTGGCT
1 GAGGCACACGGTCGTGTGGCT
72063435 GAGGCACACG
1 GAGGCACACG
72063445 CCCGTGGGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.17, C:0.25, G:0.42, T:0.15
Consensus pattern (21 bp):
GAGGCACACGGTCGTGTGGCT
Found at i:72068012 original size:16 final size:17
Alignment explanation
Indices: 72067985--72068019 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
72067975 TAGAATTAGG
*
72067985 TTGAGAAAATTATTTAA
1 TTGAGAAAATTAATTAA
72068002 TTGAG-AAATTAATTAA
1 TTGAGAAAATTAATTAA
72068018 TT
1 TT
72068020 TTATTTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (17 bp):
TTGAGAAAATTAATTAA
Found at i:72069723 original size:20 final size:20
Alignment explanation
Indices: 72069698--72069866 Score: 73
Period size: 20 Copynumber: 8.7 Consensus size: 20
72069688 AAGTGGTATC
72069698 CATTAGAAATTTTAATATTG
1 CATTAGAAATTTTAATATTG
* ** *
72069718 CATTAGAAATATTGGTA-TC
1 CATTAGAAATTTTAATATTG
* ***
72069737 CATTAAAAATTTTGGCATTG
1 CATTAGAAATTTTAATATTG
* * *
72069757 CATTAAAAATATTGATATTG
1 CATTAGAAATTTTAATATTG
* * * *
72069777 CTTTAGAGATTTTGATATTA
1 CATTAGAAATTTTAATATTG
* *
72069797 CGA-TAAAAATTTTAGTATT-
1 C-ATTAGAAATTTTAATATTG
*
72069816 AATTA-AAATTTTAAT-TTCG
1 CATTAGAAATTTTAATATT-G
* * *
72069835 TATTAGAAATATTAA-ATATC
1 CATTAGAAATTTTAATAT-TG
72069855 CATTA-AAATTTT
1 CATTAGAAATTTT
72069867 TGCAAGTTTA
Statistics
Matches: 113, Mismatches: 28, Indels: 17
0.72 0.18 0.11
Matches are distributed among these distances:
17 2 0.02
18 10 0.09
19 27 0.24
20 73 0.65
21 1 0.01
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (20 bp):
CATTAGAAATTTTAATATTG
Found at i:72069746 original size:19 final size:19
Alignment explanation
Indices: 72069662--72069770 Score: 67
Period size: 20 Copynumber: 5.6 Consensus size: 19
72069652 CAAGATGCTC
* **
72069662 TTAAAAATTTTGGTATCTG
1 TTAAAAATATTGGTATCCA
*
72069681 TTAGAAAA-AGTGGTATCCA
1 TTA-AAAATATTGGTATCCA
* * ** *
72069700 TTAGAAATTTTAATATTGCA
1 TTAAAAATATTGGTA-TCCA
*
72069720 TTAGAAATATTGGTATCCA
1 TTAAAAATATTGGTATCCA
* * *
72069739 TTAAAAATTTTGGCATTGCA
1 TTAAAAATATTGGTA-TCCA
72069759 TTAAAAATATTG
1 TTAAAAATATTG
72069771 ATATTGCTTT
Statistics
Matches: 67, Mismatches: 19, Indels: 7
0.72 0.20 0.08
Matches are distributed among these distances:
18 3 0.04
19 31 0.46
20 33 0.49
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (19 bp):
TTAAAAATATTGGTATCCA
Found at i:72069757 original size:39 final size:39
Alignment explanation
Indices: 72069662--72069770 Score: 132
Period size: 39 Copynumber: 2.8 Consensus size: 39
72069652 CAAGATGCTC
* *
72069662 TTAAAAATTTTGGTATCTG--TTAGAAAAAGTGGTATCCA
1 TTAAAAATTTTGGTAT-TGCATTAGAAATATTGGTATCCA
* **
72069700 TTAGAAATTTTAATATTGCATTAGAAATATTGGTATCCA
1 TTAAAAATTTTGGTATTGCATTAGAAATATTGGTATCCA
* *
72069739 TTAAAAATTTTGGCATTGCATTAAAAATATTG
1 TTAAAAATTTTGGTATTGCATTAGAAATATTG
72069771 ATATTGCTTT
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
37 2 0.03
38 13 0.22
39 44 0.75
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (39 bp):
TTAAAAATTTTGGTATTGCATTAGAAATATTGGTATCCA
Found at i:72074324 original size:21 final size:21
Alignment explanation
Indices: 72074295--72074350 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
72074285 CGAACACGAC
* * *
72074295 AACAAAAGCTCATAGGAGCTG
1 AACAGAAGCTCAAAGAAGCTG
72074316 AACAGAAGCTCAAAGAAGCTG
1 AACAGAAGCTCAAAGAAGCTG
*
72074337 AGCAGAAGCTCAAA
1 AACAGAAGCTCAAA
72074351 AGAGTTTATC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.46, C:0.20, G:0.23, T:0.11
Consensus pattern (21 bp):
AACAGAAGCTCAAAGAAGCTG
Found at i:72074921 original size:16 final size:18
Alignment explanation
Indices: 72074900--72074932 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
72074890 ATTAATCATT
72074900 TTTATC-AAATA-AATAA
1 TTTATCTAAATATAATAA
72074916 TTTATCTAAATATAATA
1 TTTATCTAAATATAATA
72074933 GGCCCTCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 5 0.33
18 4 0.27
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (18 bp):
TTTATCTAAATATAATAA
Found at i:72076289 original size:9 final size:9
Alignment explanation
Indices: 72076275--72076342 Score: 111
Period size: 9 Copynumber: 7.6 Consensus size: 9
72076265 ATAAGTATAA
72076275 AATTAACCG
1 AATTAACCG
72076284 AATTAACCG
1 AATTAACCG
*
72076293 AATTAATCG
1 AATTAACCG
72076302 AATTAACCG
1 AATTAACCG
72076311 AATT-ACCAG
1 AATTAACC-G
72076320 AATTAACCG
1 AATTAACCG
72076329 AATTAACCG
1 AATTAACCG
72076338 AATTA
1 AATTA
72076343 TTTGTATAAA
Statistics
Matches: 55, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
8 3 0.05
9 49 0.89
10 3 0.05
ACGTcount: A:0.46, C:0.19, G:0.10, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:72076443 original size:13 final size:13
Alignment explanation
Indices: 72076427--72076451 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
72076417 AATTTTTATG
72076427 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
72076440 ATTGGGTTGGGT
1 ATTGGGTTGGGT
72076452 TGGGTACTTG
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:0.12, C:0.00, G:0.48, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:72076578 original size:18 final size:18
Alignment explanation
Indices: 72076555--72076589 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
72076545 TTTTATTAAT
*
72076555 TTTTTTTGGTTAACCGAA
1 TTTTTTCGGTTAACCGAA
72076573 TTTTTTCGGTTAACCGA
1 TTTTTTCGGTTAACCGA
72076590 TCGGTTTTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.14, G:0.17, T:0.49
Consensus pattern (18 bp):
TTTTTTCGGTTAACCGAA
Found at i:72077829 original size:8 final size:8
Alignment explanation
Indices: 72077795--72077836 Score: 52
Period size: 8 Copynumber: 5.5 Consensus size: 8
72077785 GTGTGATATT
72077795 TTAAA-TA
1 TTAAATTA
* *
72077802 TTATATAA
1 TTAAATTA
72077810 TTAAATTA
1 TTAAATTA
72077818 -TAAATTA
1 TTAAATTA
72077825 TTAAATTA
1 TTAAATTA
72077833 TTAA
1 TTAA
72077837 TTTTAAACTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
7 11 0.38
8 18 0.62
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
TTAAATTA
Found at i:72077850 original size:14 final size:15
Alignment explanation
Indices: 72077795--72077852 Score: 59
Period size: 15 Copynumber: 3.9 Consensus size: 15
72077785 GTGTGATATT
*
72077795 TTAAA-TATTATATAA
1 TTAAATTATTA-ATTA
*
72077810 TTAAATTATAAATTA
1 TTAAATTATTAATTA
72077825 TTAAATTATTAATT-
1 TTAAATTATTAATTA
72077839 TTAAACTT-TTAATT
1 TTAAA-TTATTAATT
72077853 GTGAAAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
14 11 0.29
15 23 0.61
16 4 0.11
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (15 bp):
TTAAATTATTAATTA
Found at i:72082656 original size:22 final size:23
Alignment explanation
Indices: 72082631--72082689 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 23
72082621 TGATTAAGAT
*
72082631 AATAAAAAAATAAAATA-TGAAA
1 AATAAAAAAATAAAATATTCAAA
72082653 AATAAAATAAA-AAAATATTCAAA
1 AATAAAA-AAATAAAATATTCAAA
**
72082676 AATGCAAAAATAAA
1 AATAAAAAAATAAA
72082690 TTTAAGAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
22 16 0.52
23 15 0.48
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.19
Consensus pattern (23 bp):
AATAAAAAAATAAAATATTCAAA
Found at i:72082667 original size:14 final size:14
Alignment explanation
Indices: 72082634--72082667 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
72082624 TTAAGATAAT
72082634 AAAAAAATAAAATA
1 AAAAAAATAAAATA
**
72082648 TGAAAAATAAAATA
1 AAAAAAATAAAATA
72082662 AAAAAA
1 AAAAAA
72082668 TATTCAAAAA
Statistics
Matches: 16, Mismatches: 4, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (14 bp):
AAAAAAATAAAATA
Found at i:72083527 original size:13 final size:13
Alignment explanation
Indices: 72083489--72083551 Score: 57
Period size: 13 Copynumber: 5.3 Consensus size: 13
72083479 ATTTTTCCTC
72083489 AATATTATCA-T-
1 AATATTATCACTA
* *
72083500 TATATAATC-CTA
1 AATATTATCACTA
72083512 AATATTATCACTA
1 AATATTATCACTA
*
72083525 AATA--AT-TCTA
1 AATATTATCACTA
72083535 AATATTATCACTA
1 AATATTATCACTA
72083548 AATA
1 AATA
72083552 ATTCAAAATT
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
10 7 0.17
11 10 0.25
12 9 0.22
13 14 0.35
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.40
Consensus pattern (13 bp):
AATATTATCACTA
Found at i:72083554 original size:23 final size:23
Alignment explanation
Indices: 72083489--72083560 Score: 108
Period size: 23 Copynumber: 3.1 Consensus size: 23
72083479 ATTTTTCCTC
* * *
72083489 AATATTATCATTATATAATCCTA
1 AATATTATCACTAAATAATTCTA
72083512 AATATTATCACTAAATAATTCTA
1 AATATTATCACTAAATAATTCTA
*
72083535 AATATTATCACTAAATAATTCAA
1 AATATTATCACTAAATAATTCTA
72083558 AAT
1 AAT
72083561 TTTAAAATCA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.39
Consensus pattern (23 bp):
AATATTATCACTAAATAATTCTA
Found at i:72084386 original size:14 final size:15
Alignment explanation
Indices: 72084348--72084418 Score: 60
Period size: 14 Copynumber: 5.0 Consensus size: 15
72084338 ATTCAATGGC
*
72084348 CATATTGCAACGGTT
1 CATATTGCAACAGTT
* *
72084363 -AGATTCCAAC-GTT
1 CATATTGCAACAGTT
72084376 CATATTGCAACAGTT
1 CATATTGCAACAGTT
* * *
72084391 -AGATTCCAATAG-T
1 CATATTGCAACAGTT
72084404 CATATTGCAACAGTT
1 CATATTGCAACAGTT
72084419 AGATTTCAAC
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
13 4 0.10
14 34 0.81
15 4 0.10
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.32
Consensus pattern (15 bp):
CATATTGCAACAGTT
Found at i:72084445 original size:28 final size:28
Alignment explanation
Indices: 72084348--72084438 Score: 130
Period size: 28 Copynumber: 3.2 Consensus size: 28
72084338 ATTCAATGGC
* *
72084348 CATATTGCAACGGTTAGATTCCAACGTT
1 CATATTGCAACAGTTAGATTCCAACGAT
*
72084376 CATATTGCAACAGTTAGATTCCAA-TAGT
1 CATATTGCAACAGTTAGATTCCAACGA-T
*
72084404 CATATTGCAACAGTTAGATTTCAACGAT
1 CATATTGCAACAGTTAGATTCCAACGAT
72084432 CATATTG
1 CATATTG
72084439 TGACAGTCAT
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
28 55 0.98
29 1 0.02
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (28 bp):
CATATTGCAACAGTTAGATTCCAACGAT
Found at i:72085525 original size:9 final size:9
Alignment explanation
Indices: 72085511--72085543 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
72085501 TAATAAATCA
72085511 TTAATATTC
1 TTAATATTC
72085520 TTAATATTC
1 TTAATATTC
72085529 TTAATTATT-
1 TTAA-TATTC
72085538 TTAATA
1 TTAATA
72085544 AATAATTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 2 0.09
9 17 0.74
10 4 0.17
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (9 bp):
TTAATATTC
Found at i:72085571 original size:31 final size:31
Alignment explanation
Indices: 72085533--72085623 Score: 94
Period size: 34 Copynumber: 2.8 Consensus size: 31
72085523 ATATTCTTAA
72085533 TTATTTTAATAAATAATTTAATATTAA-AATT
1 TTATTTTAAT-AATAATTTAATATTAATAATT
*
72085564 TTATTTTAATAATAAATTTTAACATTAATAATT
1 TTATTTTAATAAT-AA-TTTAATATTAATAATT
* *
72085597 TAAATTTTAAGTAATATTATTAATATT
1 T-TATTTTAA-TAATAAT-TTAATATT
72085624 TTATTTAAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
30 3 0.06
31 12 0.24
32 10 0.20
33 6 0.12
34 15 0.30
35 4 0.08
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (31 bp):
TTATTTTAATAATAATTTAATATTAATAATT
Found at i:72085573 original size:19 final size:18
Alignment explanation
Indices: 72085549--72085584 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
72085539 TAATAAATAA
*
72085549 TTTAATATTAAAATTTTAT
1 TTTAATAAT-AAATTTTAT
72085568 TTTAATAATAAATTTTA
1 TTTAATAATAAATTTTA
72085585 ACATTAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTAATAATAAATTTTAT
Found at i:72085729 original size:13 final size:13
Alignment explanation
Indices: 72085700--72085742 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
72085690 ATGTTTTGTA
72085700 ATATTAAATATAGAT
1 ATATT-AATATA-AT
*
72085715 ATTTTAATATAAT
1 ATATTAATATAAT
72085728 ATATTAATA-AAT
1 ATATTAATATAAT
72085740 ATA
1 ATA
72085743 ATATTTGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 6 0.23
13 10 0.38
14 6 0.23
15 4 0.15
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (13 bp):
ATATTAATATAAT
Found at i:72087415 original size:10 final size:10
Alignment explanation
Indices: 72087395--72087428 Score: 59
Period size: 10 Copynumber: 3.3 Consensus size: 10
72087385 TATCTGTGTT
72087395 TCTCAGTTGTA
1 TCTC-GTTGTA
72087406 TCTCGTTGTA
1 TCTCGTTGTA
72087416 TCTCGTTGTA
1 TCTCGTTGTA
72087426 TCT
1 TCT
72087429 ATTTATGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 19 0.83
11 4 0.17
ACGTcount: A:0.12, C:0.21, G:0.18, T:0.50
Consensus pattern (10 bp):
TCTCGTTGTA
Done.