Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 161 of 325
Found at i:49422424 original size:30 final size:30
Alignment explanation
Indices: 49422388--49422513 Score: 161
Period size: 30 Copynumber: 4.3 Consensus size: 30
49422378 AAGATTGGCA
* * * * *
49422388 AAGTGTGCGGGTTTAAAATTGTACAGCACT
1 AAGTGTGCGAGCTGAAAATTATATAGCACT
*
49422418 AAGTGTGCGAGTTTG---ATTATATAGCACT
1 AAGTGTGCGAG-CTGAAAATTATATAGCACT
49422446 AAGTGTGCGAGCTGAAAATTATATAGCACT
1 AAGTGTGCGAGCTGAAAATTATATAGCACT
49422476 AAGTGTGCGAGCTGAAAA-TATATAGCACT
1 AAGTGTGCGAGCTGAAAATTATATAGCACT
49422505 AAGTGTGCG
1 AAGTGTGCG
49422514 GATTCACTAT
Statistics
Matches: 87, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
27 2 0.02
28 22 0.25
29 20 0.23
30 41 0.47
31 2 0.02
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.29
Consensus pattern (30 bp):
AAGTGTGCGAGCTGAAAATTATATAGCACT
Found at i:49422478 original size:58 final size:58
Alignment explanation
Indices: 49422388--49422513 Score: 164
Period size: 58 Copynumber: 2.2 Consensus size: 58
49422378 AAGATTGGCA
* * * * * *
49422388 AAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATAGCACT
1 AAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATAGCACT
*
49422446 AAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATAGCACT
1 AAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATAGCACT
49422505 AAGTGTGCG
1 AAGTGTGCG
49422514 GATTCACTAT
Statistics
Matches: 59, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
57 2 0.03
58 36 0.61
59 21 0.36
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.29
Consensus pattern (58 bp):
AAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATAGCACT
Found at i:49430366 original size:30 final size:30
Alignment explanation
Indices: 49430330--49430460 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
49430320 GACAAGATTG
* * * * *
49430330 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
49430360 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
49430388 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
49430418 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
49430447 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
49430461 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:49430421 original size:58 final size:58
Alignment explanation
Indices: 49430330--49430460 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
49430320 GACAAGATTG
* * * * * *
49430330 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
49430388 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
49430447 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
49430461 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:49433975 original size:26 final size:26
Alignment explanation
Indices: 49433946--49434005 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 26
49433936 GCCCTTTGAA
* * *
49433946 TCATTCGATATTTTGCACACTAAGTG
1 TCATTCAATATCTCGCACACTAAGTG
49433972 TCATTCTCAATATCTCGCACACTAAGTG
1 TCA-T-TCAATATCTCGCACACTAAGTG
49434000 TCATTC
1 TCATTC
49434006 TCAATATTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 5 0.17
27 2 0.07
28 22 0.76
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.37
Consensus pattern (26 bp):
TCATTCAATATCTCGCACACTAAGTG
Found at i:49434021 original size:28 final size:28
Alignment explanation
Indices: 49433961--49434027 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
49433951 CGATATTTTG
*
49433961 CACACTAAGTGTCATTCTCAATATCTCG
1 CACACTAAGTGTCATTCTCAATATCTCA
*
49433989 CACACTAAGTGTCATTCTCAATATTTCA
1 CACACTAAGTGTCATTCTCAATATCTCA
* *
49434017 TACACTGAGTG
1 CACACTAAGTG
49434028 CCATATTTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (28 bp):
CACACTAAGTGTCATTCTCAATATCTCA
Found at i:49436040 original size:30 final size:30
Alignment explanation
Indices: 49436004--49436134 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
49435994 GACAAGATTG
* * * * *
49436004 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
49436034 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
49436062 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
49436092 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
49436121 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
49436135 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:49436095 original size:58 final size:58
Alignment explanation
Indices: 49436004--49436134 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
49435994 GACAAGATTG
* * * * * *
49436004 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
49436062 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
49436121 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
49436135 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:49439630 original size:26 final size:26
Alignment explanation
Indices: 49439601--49439660 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 26
49439591 GCCCTTTGAA
* * *
49439601 TCATTCGATATTTTGCACACTAAGTG
1 TCATTCAATATCTCGCACACTAAGTG
49439627 TCATTCTCAATATCTCGCACACTAAGTG
1 TCA-T-TCAATATCTCGCACACTAAGTG
49439655 TCATTC
1 TCATTC
49439661 TCAATATTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 5 0.17
27 2 0.07
28 22 0.76
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.37
Consensus pattern (26 bp):
TCATTCAATATCTCGCACACTAAGTG
Found at i:49439676 original size:28 final size:28
Alignment explanation
Indices: 49439616--49439682 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
49439606 CGATATTTTG
*
49439616 CACACTAAGTGTCATTCTCAATATCTCG
1 CACACTAAGTGTCATTCTCAATATCTCA
*
49439644 CACACTAAGTGTCATTCTCAATATTTCA
1 CACACTAAGTGTCATTCTCAATATCTCA
* *
49439672 TACACTGAGTG
1 CACACTAAGTG
49439683 CCATATTTGA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (28 bp):
CACACTAAGTGTCATTCTCAATATCTCA
Found at i:49440327 original size:18 final size:19
Alignment explanation
Indices: 49440289--49440332 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
49440279 TAATTTCAAT
49440289 AATTCACATTTTAATCCAA
1 AATTCACATTTTAATCCAA
* *
49440308 AATTGACATTTTTA-CCAA
1 AATTCACATTTTAATCCAA
49440326 AATTCAC
1 AATTCAC
49440333 TTTACAAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.41, C:0.20, G:0.02, T:0.36
Consensus pattern (19 bp):
AATTCACATTTTAATCCAA
Found at i:49444071 original size:46 final size:48
Alignment explanation
Indices: 49444015--49444131 Score: 148
Period size: 48 Copynumber: 2.5 Consensus size: 48
49444005 GACAGGACAG
* *
49444015 GACAGAAATGAGCCATGTAAGTCCATA-T-TAGATATATGGCTTTGGA
1 GACAGGAATGAGCCATGTAAGTCCATATTATAGATATATGGCATTGGA
* * *
49444061 GACAGGAATGAGCCATGTAAGCCCATATTATATATATATGGCATTGGG
1 GACAGGAATGAGCCATGTAAGTCCATATTATAGATATATGGCATTGGA
* **
49444109 GACAGGAATAATTCATGTAAGTC
1 GACAGGAATGAGCCATGTAAGTC
49444132 TATGTCGAAG
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
46 25 0.42
47 1 0.02
48 34 0.57
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (48 bp):
GACAGGAATGAGCCATGTAAGTCCATATTATAGATATATGGCATTGGA
Found at i:49444117 original size:48 final size:46
Alignment explanation
Indices: 49444014--49444117 Score: 145
Period size: 46 Copynumber: 2.2 Consensus size: 46
49444004 GGACAGGACA
* * *
49444014 GGACAGAAATGAGCCATGTAAGTCCATATTAGATATATGGCTTTGG
1 GGACAGGAATGAGCCATGTAAGCCCATATTAGATATATGGCATTGG
* *
49444060 AGACAGGAATGAGCCATGTAAGCCCATATTATATATATATGGCATTGG
1 GGACAGGAATGAGCCATGTAAGCCCATA-T-TAGATATATGGCATTGG
49444108 GGACAGGAAT
1 GGACAGGAAT
49444118 AATTCATGTA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
46 25 0.50
47 1 0.02
48 24 0.48
ACGTcount: A:0.35, C:0.13, G:0.26, T:0.26
Consensus pattern (46 bp):
GGACAGGAATGAGCCATGTAAGCCCATATTAGATATATGGCATTGG
Found at i:49448267 original size:10 final size:10
Alignment explanation
Indices: 49448250--49448286 Score: 67
Period size: 10 Copynumber: 3.8 Consensus size: 10
49448240 AACTTAATAA
49448250 AAGA-AAAAT
1 AAGATAAAAT
49448259 AAGATAAAAT
1 AAGATAAAAT
49448269 AAGATAAAAT
1 AAGATAAAAT
49448279 AAGATAAA
1 AAGATAAA
49448287 TAATTGAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.15
10 23 0.85
ACGTcount: A:0.73, C:0.00, G:0.11, T:0.16
Consensus pattern (10 bp):
AAGATAAAAT
Found at i:49453596 original size:38 final size:35
Alignment explanation
Indices: 49453537--49453654 Score: 126
Period size: 31 Copynumber: 3.5 Consensus size: 35
49453527 TCAATCATGC
*
49453537 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTT-AT--T
49453576 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
*
49453607 ACTGGGCCGATGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
49453638 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
49453655 ACTGTAAACG
Statistics
Matches: 76, Mismatches: 3, Indels: 8
0.87 0.03 0.09
Matches are distributed among these distances:
31 47 0.62
33 2 0.03
34 1 0.01
36 1 0.01
38 14 0.18
39 11 0.14
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.38
Consensus pattern (35 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
Found at i:49453598 original size:31 final size:31
Alignment explanation
Indices: 49453560--49453654 Score: 172
Period size: 31 Copynumber: 3.1 Consensus size: 31
49453550 CCTTTTCATA
*
49453560 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
*
49453591 TTTCATATTTCATATTACTGGGCCGATGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
49453622 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
49453653 TT
1 TT
49453655 ACTGTAAACG
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 61 1.00
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.40
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:49453873 original size:24 final size:24
Alignment explanation
Indices: 49453846--49454011 Score: 255
Period size: 24 Copynumber: 7.0 Consensus size: 24
49453836 GCTTTATCAT
* * *
49453846 ATAACTGGAGGCCT-AGCCTTTTTA
1 ATAACTGG-GGCATAAGCCCTTTTG
* **
49453870 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTG
49453894 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTG
49453917 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
49453941 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
49453965 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
49453989 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
49454012 TCACTTCCTC
Statistics
Matches: 134, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
23 26 0.19
24 108 0.81
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:49453945 original size:71 final size:71
Alignment explanation
Indices: 49453845--49454011 Score: 255
Period size: 71 Copynumber: 2.3 Consensus size: 71
49453835 TGCTTTATCA
* *
49453845 TATAACTGGAGGCCT-AGCCTTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGG-GGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
49453909 GCCCTTT
65 GCCCTTT
* * **
49453916 TATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAG
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAG
49453981 CCCTTT
66 CCCTTT
49453987 TGATAACTGGGGCATAAGCCCTTTT
1 T-ATAACTGGGGCATAAGCCCTTTT
49454012 TCACTTCCTC
Statistics
Matches: 88, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
70 4 0.05
71 61 0.69
72 23 0.26
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (71 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAG
CCCTTT
Found at i:49454087 original size:20 final size:20
Alignment explanation
Indices: 49454062--49454121 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
49454052 TATGATTACG
49454062 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
49454082 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATA
*
49454102 TCATGTGCATCTCATACATA
1 TCATGTGCATATCATACATA
49454122 CCATATTTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:49455461 original size:27 final size:27
Alignment explanation
Indices: 49455370--49455453 Score: 116
Period size: 27 Copynumber: 3.1 Consensus size: 27
49455360 GGGCATATTC
* *
49455370 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCCTACAGGGGCT-TTACG
*
49455397 GTCACTTTACCCTACAAGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
*
49455424 ATCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
49455451 GTC
1 GTC
49455454 TTTTTACCTA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
27 49 0.98
28 1 0.02
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:49455545 original size:27 final size:27
Alignment explanation
Indices: 49455515--49455566 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
49455505 GTAAATCTAC
49455515 AAACCAAAAGTATTTC-AGTAATTTTGT
1 AAACCAAAAGTATTTCTA-TAATTTTGT
**
49455542 AAACCAATGGTATTTCTATAATTTT
1 AAACCAAAAGTATTTCTATAATTTT
49455567 TAGAAAGTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (27 bp):
AAACCAAAAGTATTTCTATAATTTTGT
Found at i:49455663 original size:54 final size:54
Alignment explanation
Indices: 49455605--49455744 Score: 192
Period size: 54 Copynumber: 2.6 Consensus size: 54
49455595 TGTAAATCAG
*
49455605 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAGCCAA
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAA
* * *
49455659 GGGTATTTTGGTAATTTTACAAACT-AGGGGTATTTTGGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAATTGA-GGGTATTTCGGTAATTTCACAAACCAA
* ** *
49455713 GGGTATTTTAGTAATTTTGTAAATAGAGGGTA
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTA
49455745 AAATAGTAAT
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
53 1 0.01
54 73 0.97
55 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.39
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAA
Found at i:49455742 original size:27 final size:27
Alignment explanation
Indices: 49455605--49455744 Score: 151
Period size: 27 Copynumber: 5.2 Consensus size: 27
49455595 TGTAAATCAG
*
49455605 GGGTATTTTGGTAATTTTACAAATTGA
1 GGGTATTTTGGTAATTTTACAAATAGA
* * **
49455632 GGGTATTTCGGTAATTTCACAAGCCA-A
1 GGGTATTTTGGTAATTTTACAA-ATAGA
49455659 GGGTATTTTGGTAATTTTACAAACTAG-
1 GGGTATTTTGGTAATTTTACAAA-TAGA
*
49455686 GGGTATTTTGGTAATTTTACAAACCA-A
1 GGGTATTTTGGTAATTTTACAAA-TAGA
* **
49455713 GGGTATTTTAGTAATTTTGTAAATAGA
1 GGGTATTTTGGTAATTTTACAAATAGA
49455740 GGGTA
1 GGGTA
49455745 AAATAGTAAT
Statistics
Matches: 94, Mismatches: 14, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
26 1 0.01
27 93 0.99
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAATAGA
Found at i:49455751 original size:27 final size:27
Alignment explanation
Indices: 49455722--49456014 Score: 276
Period size: 27 Copynumber: 10.9 Consensus size: 27
49455712 AGGGTATTTT
* *
49455722 AGTAATTTTGTAAATAGAGGGTAAAAT
1 AGTAATTCTGTAAATAGAGGGTAAAAC
*
49455749 AGTAATTCTGTAAATCA-AGGGTAAAAT
1 AGTAATTCTGTAAAT-AGAGGGTAAAAC
* * *
49455776 AGTAATTCTATAAATCGACGGTAAAAC
1 AGTAATTCTGTAAATAGAGGGTAAAAC
* * * *
49455803 -GATAATTTTGAAAATCGAGGGTAAAAT
1 AG-TAATTCTGTAAATAGAGGGTAAAAC
49455830 AGTAATTCTGTAAATCA-AGGGTAAAAC
1 AGTAATTCTGTAAAT-AGAGGGTAAAAC
*
49455857 AGTAATTCTATAAATCA-AGGGTAAAAC
1 AGTAATTCTGTAAAT-AGAGGGTAAAAC
* *
49455884 AGTAATTCAGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATAGAGGGTAAAAC
* * *
49455911 GGTAATTCTGTAAGTCGAGGGTAAAAC
1 AGTAATTCTGTAAATAGAGGGTAAAAC
* *
49455938 -GATAATTATGTAAATCAG-GTGTAAAAC
1 AG-TAATTCTGTAAAT-AGAGGGTAAAAC
* * *
49455965 GGCAATTATGTAAATTAG-GGGTAAAAC
1 AGTAATTCTGTAAA-TAGAGGGTAAAAC
*
49455992 AGTAATTCTGTAAATTGAGGGTA
1 AGTAATTCTGTAAATAGAGGGTA
49456015 CTTTGGTAAT
Statistics
Matches: 224, Mismatches: 31, Indels: 22
0.81 0.11 0.08
Matches are distributed among these distances:
26 4 0.02
27 215 0.96
28 5 0.02
ACGTcount: A:0.43, C:0.08, G:0.21, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATAGAGGGTAAAAC
Found at i:49455754 original size:54 final size:54
Alignment explanation
Indices: 49455696--49455909 Score: 193
Period size: 54 Copynumber: 4.0 Consensus size: 54
49455686 GGGTATTTTG
* *** * *
49455696 GTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATAGAGGGTAAAATA
1 GTAATTTTACAAATCAAGGGTAAAATAGTAATTCTATAAATAGAGGGTAAAATA
* ** * * *
49455750 GTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTATAAATCGACGGTAAAA-C
1 GTAATTTTACAAATCAAGGGTAAAATAGTAATTCTATAAATAGAGGGTAAAATA
* * *
49455803 GATAATTTTGA-AAATCGAGGGTAAAATAGTAATTCTGTAAATCA-AGGGTAAAACA
1 G-TAATTTT-ACAAATCAAGGGTAAAATAGTAATTCTATAAAT-AGAGGGTAAAATA
* * * *
49455858 GTAATTCTATAAATCAAGGGTAAAACAGTAATTC-AGTAAATCGAGGGTAAAA
1 GTAATTTTACAAATCAAGGGTAAAATAGTAATTCTA-TAAATAGAGGGTAAAA
49455910 CGGTAATTCT
Statistics
Matches: 129, Mismatches: 24, Indels: 14
0.77 0.14 0.08
Matches are distributed among these distances:
53 2 0.02
54 126 0.98
55 1 0.01
ACGTcount: A:0.44, C:0.08, G:0.19, T:0.29
Consensus pattern (54 bp):
GTAATTTTACAAATCAAGGGTAAAATAGTAATTCTATAAATAGAGGGTAAAATA
Found at i:49456014 original size:81 final size:81
Alignment explanation
Indices: 49455723--49456006 Score: 342
Period size: 81 Copynumber: 3.5 Consensus size: 81
49455713 GGGTATTTTA
* * *
49455723 GTAATTTTGTAAATAGAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTATA
1 GTAATTATGTAAATAGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATA
* *
49455788 AATCGACGGTAAAACG
66 AATCAAGGGTAAAACG
* * * * *
49455804 ATAATTTTGAAAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATA
1 GTAATTATGTAAATAGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATA
*
49455869 AATCAAGGGTAAAACA
66 AATCAAGGGTAAAACG
* * * * * *
49455885 GTAATTCA-GTAAATCGAGGGTAAAACGGTAATTCTGTAAGTCGAGGGTAAAAC-GATAATTATG
1 GTAATT-ATGTAAATAGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAG-TAATTCTA
49455948 TAAATC-AGGTGTAAAACG
64 TAAATCAAGG-GTAAAACG
*
49455966 GCAATTATGTAAATTAG-GGGTAAAACAGTAATTCTGTAAAT
1 GTAATTATGTAAA-TAGAGGGTAAAACAGTAATTCTGTAAAT
49456007 TGAGGGTACT
Statistics
Matches: 177, Mismatches: 21, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
80 5 0.03
81 170 0.96
82 2 0.01
ACGTcount: A:0.43, C:0.08, G:0.20, T:0.28
Consensus pattern (81 bp):
GTAATTATGTAAATAGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATA
AATCAAGGGTAAAACG
Found at i:49456041 original size:27 final size:27
Alignment explanation
Indices: 49456011--49456109 Score: 112
Period size: 27 Copynumber: 3.7 Consensus size: 27
49456001 GTAAATTGAG
*
49456011 GGTACTTT-GGTAATTTTACAAGTCGAA
1 GGTA-TTTCGGTAATTTTACAAATCGAA
* *
49456038 GGTATTTCGGTAAATTTACAAATCGAG
1 GGTATTTCGGTAATTTTACAAATCGAA
* * *
49456065 GGTATTTCAGTATTTTTACAAA-CTAA
1 GGTATTTCGGTAATTTTACAAATCGAA
49456091 GGGTATTTCGGTAATTTTA
1 -GGTATTTCGGTAATTTTA
49456110 GTAAACTAAA
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
26 5 0.08
27 55 0.92
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.39
Consensus pattern (27 bp):
GGTATTTCGGTAATTTTACAAATCGAA
Found at i:49456123 original size:27 final size:27
Alignment explanation
Indices: 49456020--49456124 Score: 72
Period size: 27 Copynumber: 3.9 Consensus size: 27
49456010 GGGTACTTTG
* * *
49456020 GTAATTTTACAAGTCGAAG-GTATTTCG
1 GTAATTTTACAA-ACTAAGAGTATTTCA
* * *
49456047 GTAAATTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGAGTATTTCA
* * *
49456074 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
49456101 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
49456125 CTAAACAGGG
Statistics
Matches: 62, Mismatches: 12, Indels: 8
0.76 0.15 0.10
Matches are distributed among these distances:
26 2 0.03
27 52 0.84
28 8 0.13
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:49457767 original size:32 final size:32
Alignment explanation
Indices: 49457731--49457794 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
49457721 TGAACCTAAA
49457731 GCCAAAGCAGTAACCTATGGTGAGGGCACCTT
1 GCCAAAGCAGTAACCTATGGTGAGGGCACCTT
49457763 GCCAAAGCAGTAACCTATGGTGAGGGCACCTT
1 GCCAAAGCAGTAACCTATGGTGAGGGCACCTT
49457795 CTCAAAAGGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.28, C:0.25, G:0.28, T:0.19
Consensus pattern (32 bp):
GCCAAAGCAGTAACCTATGGTGAGGGCACCTT
Found at i:49468375 original size:40 final size:40
Alignment explanation
Indices: 49468267--49468376 Score: 139
Period size: 40 Copynumber: 2.8 Consensus size: 40
49468257 ATTGAATGAT
* * * * *
49468267 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
* * *
49468307 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
*
49468347 ATCTGGGCTAAGACCCGAAGGCATTTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
49468377 AAATTGTGAA
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
Found at i:49479711 original size:18 final size:18
Alignment explanation
Indices: 49479670--49479711 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
49479660 TGATTGAGGT
*
49479670 TGAATTGGAATGGTTTAG
1 TGAATTGGAATGGTATAG
*
49479688 TTAATT-GAATGGTATATG
1 TGAATTGGAATGGTATA-G
49479706 TGAATT
1 TGAATT
49479712 AGGTATAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.31, C:0.00, G:0.26, T:0.43
Consensus pattern (18 bp):
TGAATTGGAATGGTATAG
Found at i:49482587 original size:14 final size:15
Alignment explanation
Indices: 49482558--49482588 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
49482548 ACCGATATTG
49482558 ATAGCTCTGTACAGA
1 ATAGCTCTGTACAGA
49482573 ATAGCTCTG-ACAGA
1 ATAGCTCTGTACAGA
49482587 AT
1 AT
49482589 TAAAAGAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.26
Consensus pattern (15 bp):
ATAGCTCTGTACAGA
Found at i:49485495 original size:45 final size:46
Alignment explanation
Indices: 49485446--49485616 Score: 199
Period size: 45 Copynumber: 3.7 Consensus size: 46
49485436 TGGTTGAGCA
*
49485446 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-AAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
49485491 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
49485538 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*
49485584 -CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
49485617 GGGGGGGTTA
Statistics
Matches: 107, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
42 4 0.04
43 2 0.02
44 2 0.02
45 61 0.57
46 1 0.01
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:49485600 original size:92 final size:92
Alignment explanation
Indices: 49485443--49485611 Score: 286
Period size: 92 Copynumber: 1.8 Consensus size: 92
49485433 GGATGGTTGA
*
49485443 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAAATGTCCGAACTCGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAAACGTCCGAACTCGTTGAGTT
49485508 GAGTCCGAGTTCGTGAGATGTAACTAG
66 GAGTCCGAGTTCGTGAGATGTAACTAG
* * *
49485535 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG-CCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-AAACGTCCGAACTCGTTGAGT
49485599 TGAGTCCGAGTTC
65 TGAGTCCGAGTTC
49485612 ACTTAGGGGG
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 69 0.96
93 3 0.04
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAAACGTCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:49485877 original size:19 final size:20
Alignment explanation
Indices: 49485840--49485877 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
49485830 ATAAGGTGGT
49485840 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
49485860 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
49485878 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:49493003 original size:46 final size:46
Alignment explanation
Indices: 49492953--49493125 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
49492943 TGGTTGAGCA
*
49492953 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
49492999 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
49493046 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
49493092 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
49493126 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:49493109 original size:93 final size:93
Alignment explanation
Indices: 49492950--49493120 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
49492940 GGATGGTTGA
* *
49492950 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
49493015 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
49493043 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
49493108 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
49493121 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:49493387 original size:19 final size:20
Alignment explanation
Indices: 49493350--49493387 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
49493340 ATAAGGTGGT
49493350 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
49493370 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
49493388 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:49498659 original size:41 final size:41
Alignment explanation
Indices: 49498614--49498731 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
49498604 TGAAAGATAA
49498614 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
49498655 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
49498685 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
49498726 ATGTAG
1 ATGTAG
49498732 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:49498670 original size:71 final size:71
Alignment explanation
Indices: 49498582--49498745 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
49498572 GAGATGTATC
49498582 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
49498647 AGGACA
66 AGGACA
49498653 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
49498718 AGGACA
66 AGGACA
49498724 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
49498746 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:49510868 original size:40 final size:40
Alignment explanation
Indices: 49510823--49510989 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
49510813 CGGAATATAA
49510823 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
49510863 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
49510903 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
49510943 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
49510982 CCGGATAT
1 CCGGATAT
49510990 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:49510973 original size:80 final size:79
Alignment explanation
Indices: 49510839--49510989 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
49510829 ATAATCACGT
*
49510839 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
49510904 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
49510919 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
49510982 CCGGATAT
64 CCGGATAT
49510990 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:49518871 original size:40 final size:40
Alignment explanation
Indices: 49518826--49518992 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
49518816 CGGAATATAA
49518826 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
49518866 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
49518906 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
49518946 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
49518985 CCGGATAT
1 CCGGATAT
49518993 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:49518976 original size:80 final size:79
Alignment explanation
Indices: 49518842--49518992 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
49518832 ATAATCACGT
*
49518842 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
49518907 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
49518922 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
49518985 CCGGATAT
64 CCGGATAT
49518993 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:49520800 original size:14 final size:14
Alignment explanation
Indices: 49520781--49520807 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
49520771 ATATGTGGCT
49520781 TGTTCTTAATTCTG
1 TGTTCTTAATTCTG
49520795 TGTTCTTAATTCT
1 TGTTCTTAATTCT
49520808 TGTCTTGATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.11, T:0.59
Consensus pattern (14 bp):
TGTTCTTAATTCTG
Found at i:49526224 original size:44 final size:43
Alignment explanation
Indices: 49526159--49526244 Score: 127
Period size: 44 Copynumber: 2.0 Consensus size: 43
49526149 CAGATACGAT
*
49526159 GCCTATGTCCCAGACATGGTCTTACACGTAAATCTCAAATCAAG
1 GCCTATGTCCCAGACACGGTCTTACACG-AAATCTCAAATCAAG
* * *
49526203 GCCTGTGTTCCAGACACGGTCTTACACGATATCTCAAATCAA
1 GCCTATGTCCCAGACACGGTCTTACACGAAATCTCAAATCAA
49526245 TGTCAATGTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
43 13 0.34
44 25 0.66
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (43 bp):
GCCTATGTCCCAGACACGGTCTTACACGAAATCTCAAATCAAG
Found at i:49547241 original size:47 final size:47
Alignment explanation
Indices: 49547187--49547308 Score: 208
Period size: 47 Copynumber: 2.6 Consensus size: 47
49547177 GCATTGGCAC
*
49547187 TAAGACAAGGATACCATGTAATACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
*
49547234 TAAGACAAGGATACCATGTAAGACCATGTTTGTAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
* *
49547281 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
49547309 CCAAGGCATG
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
Found at i:49547476 original size:53 final size:54
Alignment explanation
Indices: 49547281--49547731 Score: 421
Period size: 53 Copynumber: 8.5 Consensus size: 54
49547271 TGGCATTTGG
* * * *
49547281 TAAGATAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTCCTA
1 TAAGACAAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTA
* * * * *
49547335 TAAGGCAAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTA
1 TAAGACAAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTT-CTA
* * *
49547390 TAAGGCAAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-A
1 TAAGAC-AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTA
* * * *
49547443 TAATACAAGGATACCATTTAAGACCATGCCAAGGCATGACATTGGTGAGTTC-A
1 TAAGACAAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTA
***
49547496 TAAGACAAGGATACCATGTAAGACCATG-TTTGGAACATGGCATT--TG-G-----
1 TAAGACAAGGATACCATGTAAGACCATGCCAAGG--CATGGCATTGATGAGTTCTA
* * * * *
49547543 TAAGATAAGGATATCATGTAAGGCCATGCCAAGGCATGCCATTGATAAGTTCTA
1 TAAGACAAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTA
* * * * *
49547597 TAAG-CAAGGAAATCATGTAAGACCATGTCAAGACATGGAATTGATGAGTTACTA
1 TAAGACAAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTT-CTA
* * * *
49547651 TAAGTCAAAGG-TCCCATGTAAGACTATGCCAAGGCATGGCATTGGTGAGTTC-A
1 TAAGAC-AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTA
*
49547704 TAA-AGCAAGGATACCACGTAAGACCATG
1 TAAGA-CAAGGATACCATGTAAGACCATG
49547732 TCATTACATG
Statistics
Matches: 326, Mismatches: 52, Indels: 39
0.78 0.12 0.09
Matches are distributed among these distances:
46 8 0.02
47 25 0.08
48 3 0.01
49 1 0.00
51 1 0.00
52 12 0.04
53 127 0.39
54 65 0.20
55 76 0.23
56 8 0.02
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.24
Consensus pattern (54 bp):
TAAGACAAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTA
Found at i:49547578 original size:100 final size:102
Alignment explanation
Indices: 49547281--49547734 Score: 319
Period size: 108 Copynumber: 4.3 Consensus size: 102
49547271 TGGCATTTGG
* * * * * * **
49547281 TAAGATAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTCCTATAAGGCAAGGA
1 TAAGACAAGGATACCATGTAAGACCATGTCAAGACATGGAATT-ATGAG---T-TAAGATAAGGA
* * * * *
49547346 AATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTA
61 TATCATGTAAGACCATGCCAAGGCATGACATTGGTGAGTT-C-A
* * * * * *
49547390 TAAGGCAAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATA-ATACAAGG
1 TAAGAC-AAGGATACCATGTAAGACCATGTCAAGACATGGAATT-ATGAGTT-A-AGAT--AAGG
* *
49547453 ATACCATTTAAGACCATGCCAAGGCATGACATTGGTGAGTTCA
60 ATATCATGTAAGACCATGCCAAGGCATGACATTGGTGAGTTCA
*** *
49547496 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATT-TG-G-TAAGATAAGGATATC
1 TAAGACAAGGATACCATGTAAGACCATGTCAAG-ACATGGAATTATGAGTTAAGATAAGGATATC
* * * *
49547558 ATGTAAGGCCATGCCAAGGCATGCCATTGATAAGTTCTA
65 ATGTAAGACCATGCCAAGGCATGACATTGGTGAGTTC-A
* * ** * *
49547597 TAAG-CAAGGAAATCATGTAAGACCATGTCAAGACATGGAATTGATGAGTTACTATAAGTCAAAG
1 TAAGACAAGGATACCATGTAAGACCATGTCAAGACATGGAATT-ATGAGTTAAGATAAG-GATA-
* *
49547661 GTCCCATGTAAGACTATGCCAAGGCATGGCATTGGTGAGTTCA
63 -T--CATGTAAGACCATGCCAAGGCATGACATTGGTGAGTTCA
*
49547704 TAA-AGCAAGGATACCACGTAAGACCATGTCA
1 TAAGA-CAAGGATACCATGTAAGACCATGTCA
49547735 TTACATGGCA
Statistics
Matches: 279, Mismatches: 46, Indels: 41
0.76 0.13 0.11
Matches are distributed among these distances:
99 9 0.03
100 63 0.23
101 8 0.03
102 4 0.01
103 8 0.03
104 3 0.01
105 7 0.03
106 26 0.09
107 15 0.05
108 94 0.34
109 38 0.14
110 4 0.01
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.24
Consensus pattern (102 bp):
TAAGACAAGGATACCATGTAAGACCATGTCAAGACATGGAATTATGAGTTAAGATAAGGATATCA
TGTAAGACCATGCCAAGGCATGACATTGGTGAGTTCA
Found at i:49547682 original size:208 final size:208
Alignment explanation
Indices: 49547341--49547732 Score: 526
Period size: 208 Copynumber: 1.9 Consensus size: 208
49547331 CCTATAAGGC
* * * **
49547341 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCCCA
1 AAGGAAATCATGTAAGACCATGCCAAGACATGCCATTGATAAGTTACTATAAGGCAAAGGAACCA
* * * *
49547406 TGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAATACAAGGATACCATTTAAGACCATG
66 TGTAAGACCATGCCAAGACATGGAATTGATGAGTTCATAATACAAGGATACCATGTAAGACCATG
*
49547471 CCAAGGCATGACATTGGTGAGTTCAT-AAGACAAGGATACCATGTAAGACCATGTTTGGAACATG
131 CCAAGGCATGACATTGGTGAGTTCATAAAG-CAAGGATACCACGTAAGACCATGTTTGGAACATG
49547535 GCATTTGGTAAGAT
195 GCATTTGGTAAGAT
* * * *
49547549 AAGGATATCATGTAAGGCCATGCCAAGGCATGCCATTGATAAGTT-CTATAA-GC-AAGGAAATC
1 AAGGAAATCATGTAAGACCATGCCAAGACATGCCATTGATAAGTTACTATAAGGCAAAGG-AACC
* *
49547611 ATGTAAGACCATGTCAAGACATGGAATTGATGAGTTACTATAAGT-CAAAGG-TCCCATGTAAGA
65 ATGTAAGACCATGCCAAGACATGGAATTGATGAGTT-C-ATAA-TAC-AAGGATACCATGTAAGA
* *
49547674 CTATGCCAAGGCATGGCATTGGTGAGTTCATAAAGCAAGGATACCACGTAAGACCATGT
126 CCATGCCAAGGCATGACATTGGTGAGTTCATAAAGCAAGGATACCACGTAAGACCATGT
49547733 CATTACATGG
Statistics
Matches: 160, Mismatches: 18, Indels: 12
0.84 0.09 0.06
Matches are distributed among these distances:
205 4 0.03
206 35 0.22
207 7 0.04
208 106 0.66
209 8 0.05
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (208 bp):
AAGGAAATCATGTAAGACCATGCCAAGACATGCCATTGATAAGTTACTATAAGGCAAAGGAACCA
TGTAAGACCATGCCAAGACATGGAATTGATGAGTTCATAATACAAGGATACCATGTAAGACCATG
CCAAGGCATGACATTGGTGAGTTCATAAAGCAAGGATACCACGTAAGACCATGTTTGGAACATGG
CATTTGGTAAGAT
Found at i:49547696 original size:153 final size:152
Alignment explanation
Indices: 49547404--49547693 Score: 336
Period size: 153 Copynumber: 1.9 Consensus size: 152
49547394 GCAAAGGTCC
* * * * *
49547404 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAATACAAGGATACCATTTAAGACCA
1 CATGTAAGACCATGCCAAGGCATGCCATTGATAAGTTCATAATACAAGGAAACCATGTAAGACCA
* * ***
49547469 TGCCAAGGCATGACATTGGTGAGTTCATAAGACAAGGATACCATGTAAGACCATGTTTGGAACAT
66 TGCCAAGACATGACATTGATGAGTTCATAAGACAAGGATACCATGTAAGACCATGCAAGG-ACAT
49547534 GGCATTTGGTAAGATAAGGATAT
130 GGCATTTGGTAAGATAAGGATAT
* * *
49547557 CATGTAAGGCCATGCCAAGGCATGCCATTGATAAGTTCTATAA-GCAAGGAAATCATGTAAGACC
1 CATGTAAGACCATGCCAAGGCATGCCATTGATAAGTTC-ATAATACAAGGAAACCATGTAAGACC
* * * *
49547621 ATGTCAAGACATGGA-ATTGATGAGTTACTATAAGTCAAAGG-TCCCATGTAAGACTATGCCAAG
65 ATGCCAAGACAT-GACATTGATGAGTT-C-ATAAGAC-AAGGATACCATGTAAGACCATG-CAAG
49547684 G-CATGGCATT
125 GACATGGCATT
49547694 GGTGAGTTCA
Statistics
Matches: 114, Mismatches: 17, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
153 71 0.62
154 16 0.14
155 21 0.18
156 6 0.05
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.24
Consensus pattern (152 bp):
CATGTAAGACCATGCCAAGGCATGCCATTGATAAGTTCATAATACAAGGAAACCATGTAAGACCA
TGCCAAGACATGACATTGATGAGTTCATAAGACAAGGATACCATGTAAGACCATGCAAGGACATG
GCATTTGGTAAGATAAGGATAT
Found at i:49547703 original size:261 final size:262
Alignment explanation
Indices: 49547234--49547731 Score: 892
Period size: 261 Copynumber: 1.9 Consensus size: 262
49547224 TGGCATTTGG
*
49547234 TAAGACAAGGATACCATGTAAGACCATGTTTGTAACATGGCATTTGGTAAGATAAGGATATCATG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATG
*
49547299 TAAGACCATGCCAAGGCATGGCATTGATAAGTCCTATAAGGCAAGGAAATCATGTAAGACCATGT
66 TAAGACCATGCCAAGGCATGCCATTGATAAGTCCTATAAGGCAAGGAAATCATGTAAGACCATGT
*
49547364 CAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCCCATGTAAGACCATGCCAAGGCATGG
131 CAAGACATGGAATTGATGAGTTACTATAAGGCAAAGGTCCCATGTAAGACCATGCCAAGGCATGG
**
49547429 CATTGGTGAGTTCATAATA-CAAGGATACCATTTAAGACCATGCCAAGGCATGACATTGGTGAGT
196 CATTGGTGAGTTCATAA-AGCAAGGATACCACGTAAGACCATGCCAAGGCATGACATTGGTGAGT
49547493 TCA
260 TCA
49547496 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATG
* *
49547561 TAAGGCCATGCCAAGGCATGCCATTGATAAGTTCTATAA-GCAAGGAAATCATGTAAGACCATGT
66 TAAGACCATGCCAAGGCATGCCATTGATAAGTCCTATAAGGCAAGGAAATCATGTAAGACCATGT
* *
49547625 CAAGACATGGAATTGATGAGTTACTATAAGTCAAAGGTCCCATGTAAGACTATGCCAAGGCATGG
131 CAAGACATGGAATTGATGAGTTACTATAAGGCAAAGGTCCCATGTAAGACCATGCCAAGGCATGG
49547690 CATTGGTGAGTTCATAAAGCAAGGATACCACGTAAGACCATG
196 CATTGGTGAGTTCATAAAGCAAGGATACCACGTAAGACCATG
49547732 TCATTACATG
Statistics
Matches: 226, Mismatches: 9, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
260 1 0.00
261 125 0.55
262 100 0.44
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.24
Consensus pattern (262 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATG
TAAGACCATGCCAAGGCATGCCATTGATAAGTCCTATAAGGCAAGGAAATCATGTAAGACCATGT
CAAGACATGGAATTGATGAGTTACTATAAGGCAAAGGTCCCATGTAAGACCATGCCAAGGCATGG
CATTGGTGAGTTCATAAAGCAAGGATACCACGTAAGACCATGCCAAGGCATGACATTGGTGAGTT
CA
Found at i:49548905 original size:17 final size:18
Alignment explanation
Indices: 49548863--49548911 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
49548853 AGTTGAAAAG
49548863 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
49548882 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
49548899 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
49548912 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:49549797 original size:40 final size:40
Alignment explanation
Indices: 49549731--49549897 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
49549721 AAATTGAATG
* * *
49549731 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
49549770 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
49549810 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
49549850 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
49549890 ATATCCGG
1 ATATCCGG
49549898 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:49556885 original size:17 final size:18
Alignment explanation
Indices: 49556843--49556891 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
49556833 AGTTGAAAAG
49556843 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
49556862 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
49556879 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
49556892 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:49557775 original size:40 final size:39
Alignment explanation
Indices: 49557709--49557858 Score: 162
Period size: 40 Copynumber: 3.8 Consensus size: 39
49557699 AAATTGAATG
* * *
49557709 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGG-TATT
* * **
49557748 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTATT
49557787 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-G-TATT
* *
49557827 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
49557859 ACTGATTATA
Statistics
Matches: 93, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
38 3 0.03
39 42 0.45
40 46 0.49
41 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTATT
Found at i:49579038 original size:40 final size:40
Alignment explanation
Indices: 49578993--49579160 Score: 207
Period size: 40 Copynumber: 4.2 Consensus size: 40
49578983 CGGAATACAA
49578993 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* * * *
49579033 CCGGATATAACGACTCGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* **
49579073 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* *
49579113 CCGGATA-AAGTCACTA-GCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAA-CCAC-ACGCACGAA-TGCCTTCGGGTCTTAGC
49579153 CCGGATAT
1 CCGGATAT
49579161 CATTCAATTG
Statistics
Matches: 112, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
39 4 0.04
40 108 0.96
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
Found at i:49579133 original size:80 final size:80
Alignment explanation
Indices: 49578993--49579160 Score: 241
Period size: 80 Copynumber: 2.1 Consensus size: 80
49578983 CGGAATACAA
* *
49578993 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAAATG
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
*
49579058 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
** *
49579073 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA-AA-GTCACTAGCACAAT
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACG--ACTAGCACAAA
*
49579136 TGCCTTCGGGTCTTAAC
64 TGCCTTCGGGTATTAAC
49579153 CCGGATAT
1 CCGGATAT
49579161 CATTCAATTG
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
78 1 0.01
79 2 0.03
80 76 0.96
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (80 bp):
CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:49587007 original size:39 final size:38
Alignment explanation
Indices: 49586964--49587087 Score: 108
Period size: 39 Copynumber: 3.2 Consensus size: 38
49586954 ACCCAAGCTT
* *
49586964 CTTCGGAATACAACCGGATATAACCACACGCACGAATGC
1 CTTCGGAATAC-ACCGGATATAACAACTCGCACGAATGC
** * *
49587003 CTTCGGGTCTTAGC-CCGGATATAACGACTCGCACAAATGC
1 CTTC-GG-AATA-CACCGGATATAACAACTCGCACGAATGC
* *
49587043 CTTCGGTATTAGC-CCGGATATAACAACTTGCACGAATGC
1 CTTCGG-AATA-CACCGGATATAACAACTCGCACGAATGC
49587082 CTTCGG
1 CTTCGG
49587088 GTCTTAGCCC
Statistics
Matches: 73, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
39 41 0.56
40 29 0.40
41 2 0.03
42 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (38 bp):
CTTCGGAATACACCGGATATAACAACTCGCACGAATGC
Found at i:49587022 original size:40 final size:40
Alignment explanation
Indices: 49586977--49587143 Score: 198
Period size: 40 Copynumber: 4.2 Consensus size: 40
49586967 CGGAATACAA
49586977 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* * * *
49587017 CCGGATATAACGACTCGCACAAATGCCTTC-GGTATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* **
49587056 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* *
49587096 CCGGATA-AAGTCACTA-GCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAA-CCAC-ACGCACGAA-TGCCTTCGGGTCTTAGC
49587136 CCGGATAT
1 CCGGATAT
49587144 CATTCAATTG
Statistics
Matches: 110, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
39 39 0.35
40 71 0.65
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
Found at i:49587095 original size:79 final size:79
Alignment explanation
Indices: 49586977--49587143 Score: 230
Period size: 79 Copynumber: 2.1 Consensus size: 79
49586967 CGGAATACAA
* *
49586977 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAA-CGACTCGCACAAAT
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATA-AAGC-ACTAGCACAAAT
*
49587041 GCCTTC-GGTATTAGC
64 GCCTTCGGGTATTAAC
** *
49587056 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAAAGTCACTAGCACAATTG
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATAAAG-CACTAGCACAAATG
*
49587121 CCTTCGGGTCTTAAC
65 CCTTCGGGTATTAAC
49587136 CCGGATAT
1 CCGGATAT
49587144 CATTCAATTG
Statistics
Matches: 78, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
78 2 0.03
79 60 0.77
80 16 0.21
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (79 bp):
CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATAAAGCACTAGCACAAATGC
CTTCGGGTATTAAC
Found at i:49592870 original size:19 final size:19
Alignment explanation
Indices: 49592846--49592886 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
49592836 GTATAAAATA
*
49592846 ATATATGTTATTTTATAAC
1 ATATATATTATTTTATAAC
49592865 ATATATATTATTTTATAAC
1 ATATATATTATTTTATAAC
49592884 ATA
1 ATA
49592887 AAATGGGTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.51
Consensus pattern (19 bp):
ATATATATTATTTTATAAC
Found at i:49593519 original size:47 final size:47
Alignment explanation
Indices: 49593466--49593605 Score: 219
Period size: 47 Copynumber: 3.0 Consensus size: 47
49593456 GAATTTAAAT
*
49593466 CTTGTTAAATTTGCTCTTAATATTTCCAGATAAGTTACCTAGTTAAG
1 CTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACCTAGTTAAG
* *
49593513 CTTGTTAAATTTGCTCTTAATATTTCTGGATAAGTGA-CTCAGTTAAG
1 CTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACCT-AGTTAAG
* *
49593560 CTTGTTAAATTTGCCCTTAATATTTCCGGATAAGTTACTTAGTTAA
1 CTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACCTAGTTAA
49593606 AGAAAATTTT
Statistics
Matches: 84, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
46 2 0.02
47 81 0.96
48 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (47 bp):
CTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACCTAGTTAAG
Found at i:49594483 original size:45 final size:45
Alignment explanation
Indices: 49594413--49594574 Score: 195
Period size: 45 Copynumber: 3.6 Consensus size: 45
49594403 TATCTTACAG
*
49594413 TACTATTCGGGCCTTTGAGCTTAGCAGGCTATAATACAGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATACAGGTGAGA
* ** * *
49594458 TACTATTCAGGCCTTCAAGCCTAGCAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATACAGGTGAGA
* * * *
49594503 TACTATTTGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATACAGGTGAGA
*
49594548 TGA-TA-TCGGG-CTTCGAGCCTAGCAGGC
1 T-ACTATTCGGGCCTTTGAGCCTAGCAGGC
49594575 GAAATGCCGG
Statistics
Matches: 103, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
43 16 0.16
44 4 0.04
45 82 0.80
46 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATACAGGTGAGA
Found at i:49594610 original size:41 final size:41
Alignment explanation
Indices: 49594522--49594628 Score: 119
Period size: 41 Copynumber: 2.6 Consensus size: 41
49594512 GGCCTTTGAG
* ** *
49594522 CCTAGCAGGCTATAATGCCGGTGAAATGATATCGGGCTTCGAG
1 CCTAGCAGGCGA-AATGCCGGTG-AATGATATCGGGCTTAAAA
*
49594565 CCTAGCAGGCGAAATGCCGGTGAATGA-ATTCGGGTTTAAAA
1 CCTAGCAGGCGAAATGCCGGTGAATGATA-TCGGGCTTAAAA
49594606 CCTAGCAGGCTG-AATGCCGGTGA
1 CCTAGCAGGC-GAAATGCCGGTGA
49594629 TTTGATAAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
40 1 0.02
41 34 0.60
42 11 0.19
43 11 0.19
ACGTcount: A:0.27, C:0.21, G:0.31, T:0.21
Consensus pattern (41 bp):
CCTAGCAGGCGAAATGCCGGTGAATGATATCGGGCTTAAAA
Found at i:49596655 original size:29 final size:29
Alignment explanation
Indices: 49596622--49596695 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
49596612 GTGACGAGAT
49596622 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
49596651 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
49596680 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
49596696 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:49596711 original size:29 final size:29
Alignment explanation
Indices: 49596679--49596754 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
49596669 CTGGAAATAT
* *
49596679 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
49596708 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
49596737 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
49596755 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:49596722 original size:58 final size:58
Alignment explanation
Indices: 49596622--49596754 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
49596612 GTGACGAGAT
* * * * * *
49596622 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
49596680 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
49596738 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
49596755 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:49604528 original size:29 final size:29
Alignment explanation
Indices: 49604495--49604568 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
49604485 GTGACGAGAT
49604495 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
49604524 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
49604553 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
49604569 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:49604584 original size:29 final size:29
Alignment explanation
Indices: 49604552--49604627 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
49604542 CTGGAAATAT
* *
49604552 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
49604581 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
49604610 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
49604628 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:49604595 original size:58 final size:58
Alignment explanation
Indices: 49604495--49604627 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
49604485 GTGACGAGAT
* * * * * *
49604495 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
49604553 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
49604611 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
49604628 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:49606097 original size:16 final size:18
Alignment explanation
Indices: 49606066--49606098 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
49606056 AACTCGTCAC
49606066 ACTATCTATCATTTTGGT
1 ACTATCTATCATTTTGGT
49606084 ACTA-CTAT-ATTTTGG
1 ACTATCTATCATTTTGG
49606099 AGCTAGAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.48
Consensus pattern (18 bp):
ACTATCTATCATTTTGGT
Found at i:49607401 original size:51 final size:51
Alignment explanation
Indices: 49607338--49607513 Score: 158
Period size: 51 Copynumber: 3.5 Consensus size: 51
49607328 CGGATGCCCG
* *
49607338 GTGGCCTACACATAGTACCACCCTTGT-AGTCAAAGCTACCTTCTT-CACAAA
1 GTGGCCTACACATAGTACCACACTTGTGA-CCAAAGCTACCTT-TTACACAAA
* * *
49607389 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTTTACACATA
1 GTGGCCTACACATAGTACCACACTTGTGACCAAAGCTACCTTTTACACAAA
* * * * * * *** *
49607440 GTGGCCTACACTTAGCACCACACATGTGATCGAAGCTATCGCGTACACATA
1 GTGGCCTACACATAGTACCACACTTGTGACCAAAGCTACCTTTTACACAAA
* * *
49607491 GTAGCCTACACTTAGTACTACAC
1 GTGGCCTACACATAGTACCACAC
49607514 ACGTGACCTA
Statistics
Matches: 106, Mismatches: 17, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
50 2 0.02
51 103 0.97
52 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.26
Consensus pattern (51 bp):
GTGGCCTACACATAGTACCACACTTGTGACCAAAGCTACCTTTTACACAAA
Found at i:49617904 original size:47 final size:46
Alignment explanation
Indices: 49617834--49618098 Score: 204
Period size: 47 Copynumber: 5.7 Consensus size: 46
49617824 TAAGGTGCCT
*
49617834 ATGCCATGTCCCAGACACTGTCTTACATTGGCTCATATCTCAAGCCG
1 ATGCCATGTCCCAGACA-TGTCTTACACTGGCTCATATCTCAAGCCG
* * * *
49617881 GTGCCATGTCCCAGACATGGTCTTACATTGACTACCATATCGT--AGCTG
1 ATGCCATGTCCCAGACAT-GTCTTACACTGGCT--CATATC-TCAAGCCG
* ** *
49617929 ATG-CATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAGGCCG
1 ATGCCATGTCCCAGACATGTCTTACACTGGCTCATATCTC-AAGCCG
* * * * *
49617975 ATG-CATTTCCCAGACATGTCTTACACTAGCTC-TCGTCTTAATGCCA
1 ATGCCATGTCCCAGACATGTCTTACACTGGCTCAT-ATCTCAA-GCCG
* * *
49618021 ATGCCATGTCCCAGACATGGTCTTATACTGGCTCTCATAATGT--GGCCG
1 ATGCCATGTCCCAGACAT-GTCTTACACTGG--CTCAT-ATCTCAAGCCG
*
49618069 ATG-CATGTCCTAGACATGTCTTACACTGGC
1 ATGCCATGTCCCAGACATGTCTTACACTGGC
49618099 ACACACAAGT
Statistics
Matches: 176, Mismatches: 28, Indels: 31
0.75 0.12 0.13
Matches are distributed among these distances:
43 1 0.01
44 4 0.02
45 1 0.01
46 66 0.38
47 69 0.39
48 22 0.12
49 6 0.03
50 4 0.02
51 3 0.02
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (46 bp):
ATGCCATGTCCCAGACATGTCTTACACTGGCTCATATCTCAAGCCG
Found at i:49617978 original size:46 final size:46
Alignment explanation
Indices: 49617838--49618098 Score: 201
Period size: 46 Copynumber: 5.6 Consensus size: 46
49617828 GTGCCTATGC
* * * * *
49617838 CATGTCCCAGACACTGTCTTACATTGGCTCATATCTC-AAGCCGGTG
1 CATGTCCCAGACA-TGTCTTACACTGGCTTACATCTCGAGGCCGATG
* * * *
49617884 CCATGTCCCAGACATGGTCTTACATTGAC-TACCATATCGTA-GCTGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTTA-CATCTCG-AGGCCGATG
*
49617932 CATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGGCCGATG
* * * ** * *
49617978 CATTTCCCAGACATGTCTTACACTAGCTCT-CGTCTTAATGCCAATG
1 CATGTCCCAGACATGTCTTACACTGGCT-TACATCTCGAGGCCGATG
* * *
49618024 CCATGTCCCAGACATGGTCTTATACTGGCTCT-CATAAT-GTGGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCT-TACAT-CTCGAGGCCGATG
*
49618072 CATGTCCTAGACATGTCTTACACTGGC
1 CATGTCCCAGACATGTCTTACACTGGC
49618099 ACACACAAGT
Statistics
Matches: 176, Mismatches: 28, Indels: 21
0.78 0.12 0.09
Matches are distributed among these distances:
45 1 0.01
46 74 0.42
47 72 0.41
48 27 0.15
49 2 0.01
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGGCCGATG
Found at i:49621257 original size:50 final size:49
Alignment explanation
Indices: 49621151--49621326 Score: 181
Period size: 50 Copynumber: 3.5 Consensus size: 49
49621141 CTGGTAAGCA
* * * * ** *
49621151 TAGTAGCCTACACATAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATCCGATACACG
*
49621200 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AACCATCCGATACACG
**** * * * *
49621250 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAACCATCCGATACACG
49621301 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
49621327 TGCGACCTCA
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
49 29 0.27
50 43 0.40
51 35 0.32
52 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATCCGATACACG
Found at i:49621334 original size:101 final size:99
Alignment explanation
Indices: 49621151--49621334 Score: 251
Period size: 101 Copynumber: 1.8 Consensus size: 99
49621141 CTGGTAAGCA
* *
49621151 TAGTAGCCTACACATAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTACACATAGTACTACACACGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
*
49621216 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGCGACCTAACCATCTGATACACG
* * * * * * *
49621250 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTACACATAGTACTACACACGCGA-C-CAATTATCCGGTACACATAGTAGCCTGCACT
*
49621315 TAGTACTACACATGCGACCT
64 TAGTACTACACACGCGACCT
49621335 CACAATAGAT
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
99 27 0.38
100 1 0.01
101 44 0.61
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTACACATAGTACTACACACGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTAACCATCTGATACACG
Found at i:49623045 original size:15 final size:15
Alignment explanation
Indices: 49623025--49623063 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
49623015 TCCAAGATAG
49623025 AGAAACCCAGAATAA
1 AGAAACCCAGAATAA
*
49623040 AGAAACCCAGAGTAA
1 AGAAACCCAGAATAA
49623055 AGAAACCCA
1 AGAAACCCA
49623064 AGATACGATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.56, C:0.23, G:0.15, T:0.05
Consensus pattern (15 bp):
AGAAACCCAGAATAA
Found at i:49625494 original size:49 final size:49
Alignment explanation
Indices: 49625412--49625655 Score: 254
Period size: 55 Copynumber: 4.8 Consensus size: 49
49625402 TAGCCAAAGC
* * * * * *
49625412 TATCTGGTACGCATAGTAGCCTACACATAGTACTACACATGCGACCAAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
*
49625461 TATCCGGTACACGTAGTAGCCTGCACTTGGTACTAGTACTACACACGTGACCAAT
1 TATCCGGTACACATAGTAGCCTGCAC----T--TAGTACTACACACGTGACCAAT
* *
49625516 TATCCAGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC-AAT
* * * * *
49625566 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAAT
* * *
49625617 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACA
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACA
49625656 TGCAACCTCA
Statistics
Matches: 163, Mismatches: 23, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
49 41 0.25
50 41 0.25
51 36 0.22
52 1 0.01
55 44 0.27
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:49625594 original size:50 final size:48
Alignment explanation
Indices: 49625425--49625655 Score: 219
Period size: 50 Copynumber: 4.5 Consensus size: 48
49625415 CTGGTACGCA
* * * * *
49625425 TAGTAGCCTACACATAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTAT-CGATACACG
* *
49625474 TAGTAGCCTGCACTTGGTACTAGTACTACACACGTGACCAATTATCCAGTACACA
1 TAGTAGCCTGCAC----T--TAGTACTACACACGTGACCAATTATCGA-TACACG
**
49625529 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATC-GATACACG
* * * * *
49625579 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATTATC-GATACACG
49625630 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
49625656 TGCAACCTCA
Statistics
Matches: 152, Mismatches: 19, Indels: 20
0.80 0.10 0.10
Matches are distributed among these distances:
49 31 0.20
50 41 0.27
51 37 0.24
52 1 0.01
54 1 0.01
55 41 0.27
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (48 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCGATACACG
Found at i:49625654 original size:101 final size:100
Alignment explanation
Indices: 49625412--49625655 Score: 285
Period size: 101 Copynumber: 2.4 Consensus size: 100
49625402 TAGCCAAAGC
* * * * ** *
49625412 TATCTGGTACGCATAGTAGCCTACACATAGTACTACACATGCGACCAATTATCCGGTACACGTAG
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCAACCATCCGATACACGTAG
49625477 TAGCCTGCACTTGGTACTAGTACTACACACGTGACCAAT
66 TAGCCTGCAC---GTA-TAGTACTACACACGTGACCAAT
* * * *
49625516 TATCCAGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTA
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACC-AACCATCCGATACACGTA
*
49625581 GTAGCCTGCAC-T-TAGTACTACACACGTGATCACAGT
65 GTAGCCTGCACGTATAGTACTACACACGTGA-C-CAAT
* *
49625617 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACA
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACA
49625656 TGCAACCTCA
Statistics
Matches: 121, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
99 17 0.14
100 1 0.01
101 39 0.32
104 39 0.32
105 25 0.21
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (100 bp):
TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCAACCATCCGATACACGTAG
TAGCCTGCACGTATAGTACTACACACGTGACCAAT
Found at i:49627788 original size:27 final size:27
Alignment explanation
Indices: 49627720--49627790 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
49627710 CGACTTGTAA
* *
49627720 AATTACCAAAGTACTCC-CGATTTACAG
1 AATTACCAAAATAC-CCTCAATTTACAG
****
49627747 AATTACCGTTTTACCCTCAATTTACAG
1 AATTACCAAAATACCCTCAATTTACAG
49627774 AATTACCAAAATACCCT
1 AATTACCAAAATACCCT
49627791 TGGTTTATAA
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
26 2 0.06
27 32 0.94
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCTCAATTTACAG
Found at i:49627797 original size:27 final size:27
Alignment explanation
Indices: 49627774--49627897 Score: 160
Period size: 27 Copynumber: 4.6 Consensus size: 27
49627764 CAATTTACAG
49627774 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
* * *
49627801 AATCACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
49627828 AATTACTAAAATACCCTTTGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
**
49627855 AATTACCAAAATACCAATGGTTTGA-AA
1 AATTACCAAAATACCCTTGGTTT-ATAA
*
49627882 AATTACTAAAATACCC
1 AATTACCAAAATACCC
49627898 CTGTAGGGTA
Statistics
Matches: 82, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
27 81 0.99
28 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGGTTTATAA
Found at i:49627816 original size:54 final size:53
Alignment explanation
Indices: 49627758--49627869 Score: 136
Period size: 54 Copynumber: 2.1 Consensus size: 53
49627748 ATTACCGTTT
49627758 TACCCTCAATT-TACAGAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
1 TACCCTCAATTGTA-A-AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
*** * * *
49627812 TACCCCTGGTTTGTAAAATTACTAAAATACCCTTTGTTTATAAAATTACCAAAA
1 TA-CCCTCAATTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
49627866 TACC
1 TACC
49627870 AATGGTTTGA
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
53 2 0.04
54 39 0.78
55 7 0.14
56 2 0.04
ACGTcount: A:0.40, C:0.22, G:0.06, T:0.31
Consensus pattern (53 bp):
TACCCTCAATTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
Found at i:49627876 original size:54 final size:54
Alignment explanation
Indices: 49627774--49627897 Score: 194
Period size: 54 Copynumber: 2.3 Consensus size: 54
49627764 CAATTTACAG
* ** *
49627774 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTTGGTTTATAAAATCACCAAAATACCAATGGTTTGAAA
* *
49627828 AATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCAATGGTTTGAAA
1 AATTACTAAAATACCCTTGGTTTATAAAATCACCAAAATACCAATGGTTTGAAA
49627882 AATTACTAAAATACCC
1 AATTACTAAAATACCC
49627898 CTGTAGGGTA
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 64 1.00
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.31
Consensus pattern (54 bp):
AATTACTAAAATACCCTTGGTTTATAAAATCACCAAAATACCAATGGTTTGAAA
Found at i:49627910 original size:27 final size:27
Alignment explanation
Indices: 49627880--49627941 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
49627870 AATGGTTTGA
49627880 AAAATTACTAAAATACCCCTGTAGGGT
1 AAAATTACTAAAATACCCCTGTAGGGT
* * *
49627907 AAAATTACTGAAATACCCTTGTGGGGT
1 AAAATTACTAAAATACCCCTGTAGGGT
49627934 AAAATTAC
1 AAAATTAC
49627942 CATTTTGCCC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.27
Consensus pattern (27 bp):
AAAATTACTAAAATACCCCTGTAGGGT
Found at i:49627910 original size:54 final size:54
Alignment explanation
Indices: 49627774--49627923 Score: 151
Period size: 54 Copynumber: 2.8 Consensus size: 54
49627764 CAATTTACAG
* ** * ** *
49627774 AATTACCAAAATACCCT-TGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTCT-GTGGATAAAATTACCAAAATACCAATGGTTTGAAA
* **
49627828 AATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCAATGGTTTGAAA
1 AATTACTAAAATACCCTCTGTGGATAAAATTACCAAAATACCAATGGTTTGAAA
* **
49627882 AATTACTAAAATACCC-CTGTAGGGTAAAATTACTGAAATACC
1 AATTACTAAAATACCCTCTGT-GGATAAAATTACCAAAATACC
49627924 CTTGTGGGGT
Statistics
Matches: 83, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
53 3 0.04
54 79 0.95
55 1 0.01
ACGTcount: A:0.42, C:0.19, G:0.09, T:0.30
Consensus pattern (54 bp):
AATTACTAAAATACCCTCTGTGGATAAAATTACCAAAATACCAATGGTTTGAAA
Found at i:49627926 original size:81 final size:81
Alignment explanation
Indices: 49627774--49627926 Score: 211
Period size: 81 Copynumber: 1.9 Consensus size: 81
49627764 CAATTTACAG
** **
49627774 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAAAATTACTAAAA
1 AATTACCAAAATACCAATGGTTTATAAAATCACCAAAATACCCCTGGTGGGTAAAATTACTAAAA
49627839 TACCCTTTGTTTATAA
66 TACCCTTTGTTTATAA
* * *
49627855 AATTACCAAAATACCAATGGTTTGA-AAAATTACTAAAATACCCCT-GTAGGGTAAAATTACTGA
1 AATTACCAAAATACCAATGGTTT-ATAAAATCACCAAAATACCCCTGGT-GGGTAAAATTACTAA
49627918 AATACCCTT
64 AATACCCTT
49627927 GTGGGGTAAA
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
80 2 0.03
81 60 0.95
82 1 0.02
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (81 bp):
AATTACCAAAATACCAATGGTTTATAAAATCACCAAAATACCCCTGGTGGGTAAAATTACTAAAA
TACCCTTTGTTTATAA
Found at i:49628594 original size:28 final size:28
Alignment explanation
Indices: 49628561--49628657 Score: 144
Period size: 28 Copynumber: 3.5 Consensus size: 28
49628551 GCGTAGATCA
49628561 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
49628589 TGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
* *
49628617 CGAACTTACCCCTAAATAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
49628645 C--AATATACCCCTA
1 CGAAAT-TACCCCTA
49628658 GGGTTTAAAT
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
26 2 0.03
27 8 0.13
28 53 0.84
ACGTcount: A:0.44, C:0.27, G:0.08, T:0.21
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:49635413 original size:47 final size:47
Alignment explanation
Indices: 49635340--49635477 Score: 165
Period size: 47 Copynumber: 2.9 Consensus size: 47
49635330 TAGGTAAGGT
* *
49635340 GTCGATGCCATGTCCCAGACACGGTCTTACATTGGCTCATGTCTC-TA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-ATGTCTCGTA
* *
49635387 GTCGATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCGTA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTAT-GTCTCGTA
* * *
49635435 GTTGATG-CATGTCCCATACAT-GTCTTACACTAGCTTATGTCTC
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TATGTCTC
49635478 AAGGCGACAT
Statistics
Matches: 79, Mismatches: 9, Indels: 7
0.83 0.09 0.07
Matches are distributed among these distances:
46 17 0.22
47 54 0.68
48 8 0.10
ACGTcount: A:0.21, C:0.28, G:0.19, T:0.32
Consensus pattern (47 bp):
GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATGTCTCGTA
Found at i:49641895 original size:27 final size:28
Alignment explanation
Indices: 49641838--49641907 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
49641828 AAACTTGTAC
*
49641838 AGCACTAAGTGTGCGAGTTTGATCATGT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
49641866 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
49641893 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
49641908 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:49641918 original size:27 final size:27
Alignment explanation
Indices: 49641838--49641919 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
49641828 AAACTTGTAC
* * *
49641838 AGCACTAAGTGTGCGAGTTTGA-TCATGT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
49641866 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
49641893 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
49641920 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 29 0.60
28 18 0.38
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:49649830 original size:27 final size:28
Alignment explanation
Indices: 49649773--49649842 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
49649763 AAACTTGTAC
*
49649773 AGCACTAAGTGTGCGAGTTTGATCATGT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
49649801 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
49649828 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
49649843 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:49649853 original size:27 final size:27
Alignment explanation
Indices: 49649773--49649854 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
49649763 AAACTTGTAC
* * *
49649773 AGCACTAAGTGTGCGAGTTTGA-TCATGT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
49649801 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
49649828 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
49649855 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 29 0.60
28 18 0.38
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:49654926 original size:28 final size:28
Alignment explanation
Indices: 49654839--49654938 Score: 94
Period size: 28 Copynumber: 3.6 Consensus size: 28
49654829 TCGATGTCTC
* * *
49654839 GCACACTATGTACCATACTCGATACCTT
1 GCACACTAAGTTCCATACTCGATACTTT
* * * * *
49654867 GCACGCTAAGTTCTATTCTAGAT-GTTT
1 GCACACTAAGTTCCATACTCGATACTTT
* *
49654894 CGCACACTAAGTGCCATCCTCGATACTTT
1 -GCACACTAAGTTCCATACTCGATACTTT
49654923 GCACACTAAGTTCCAT
1 GCACACTAAGTTCCAT
49654939 TTATATATAT
Statistics
Matches: 55, Mismatches: 15, Indels: 4
0.74 0.20 0.05
Matches are distributed among these distances:
27 2 0.04
28 50 0.91
29 3 0.05
ACGTcount: A:0.26, C:0.29, G:0.14, T:0.31
Consensus pattern (28 bp):
GCACACTAAGTTCCATACTCGATACTTT
Found at i:49661119 original size:40 final size:39
Alignment explanation
Indices: 49660951--49661121 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
49660941 AGAAATTGAA
* *
49660951 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
49660991 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
49661031 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
49661071 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
49661111 TGATATCCGGG
1 TGATATCCGGG
49661122 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:49671507 original size:79 final size:80
Alignment explanation
Indices: 49671424--49671571 Score: 183
Period size: 79 Copynumber: 1.9 Consensus size: 80
49671414 TATGGTAACC
* * *
49671424 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGA-TTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
49671487 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
49671503 CGCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTAGCACCATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
49671568 CCGG
66 CCGG
49671572 TTATAATTTC
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
78 1 0.02
79 30 0.53
80 26 0.46
ACGTcount: A:0.23, C:0.31, G:0.24, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:49671516 original size:40 final size:40
Alignment explanation
Indices: 49671464--49671571 Score: 135
Period size: 40 Copynumber: 2.7 Consensus size: 40
49671454 TATCACGATT
** *
49671464 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
49671504 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
49671544 GCACCATTGCCTTCGGGTCTTAACCCGG
1 GCACAAATGCCTTCGGGTCTTAGCCCGG
49671572 TTATAATTTC
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.21, C:0.31, G:0.25, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
Found at i:49690904 original size:40 final size:39
Alignment explanation
Indices: 49690739--49690922 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
49690729 AAATTGAATG
* * *
49690739 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
49690779 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
49690819 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
49690859 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
49690898 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
49690923 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:49690947 original size:80 final size:81
Alignment explanation
Indices: 49690779--49690967 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
49690769 GCTGGAAATT
* * * *
49690779 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
49690844 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
49690860 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
49690923 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
49690939 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
49690968 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:49692426 original size:40 final size:40
Alignment explanation
Indices: 49692371--49692470 Score: 182
Period size: 40 Copynumber: 2.5 Consensus size: 40
49692361 TGTTACAAGC
*
49692371 TCGGGACTTAGCCCGGATATAATCACTAGCACAAATGCCT
1 TCGGGACTTAACCCGGATATAATCACTAGCACAAATGCCT
*
49692411 TCGGGACTTATCCCGGATATAATCACTAGCACAAATGCCT
1 TCGGGACTTAACCCGGATATAATCACTAGCACAAATGCCT
49692451 TCGGGACTTAACCCGGATAT
1 TCGGGACTTAACCCGGATAT
49692471 CATTCGAATA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 58 1.00
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (40 bp):
TCGGGACTTAACCCGGATATAATCACTAGCACAAATGCCT
Found at i:49694474 original size:46 final size:46
Alignment explanation
Indices: 49694407--49694581 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
49694397 TGTAACCCGC
*
49694407 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* * *
49694453 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * * * * *
49694503 -C-TCA-CGAACTCGGACTCAACTTAACAAGTTCAGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
49694546 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG
49694582 ATGCTCAACC
Statistics
Matches: 102, Mismatches: 18, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 58 0.57
47 24 0.24
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:49694573 original size:93 final size:93
Alignment explanation
Indices: 49694414--49694585 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
49694404 CGCCCATAAG
* * * *
49694414 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACAAGCTCAGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
49694479 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* * *
49694507 CGAACTCGGACTCAACTTAACAAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACAAGCTCAGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
49694572 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
49694586 TCAACCATCC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACAAGCTCAGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:49705217 original size:42 final size:42
Alignment explanation
Indices: 49705147--49705307 Score: 157
Period size: 42 Copynumber: 3.8 Consensus size: 42
49705137 ACATTAGGGT
* *
49705147 TATGAG-TTTACGTGTTAGACCATATCTGGGATATGGCATCGT
1 TATGAGATTT-CGTGTAAGACCATATCTGGGATATGGCATCGA
* * *
49705189 TTTGAGATTTCGTGTAAGACCATGTCTGGGACATGGCATCGA
1 TATGAGATTTCGTGTAAGACCATATCTGGGATATGGCATCGA
* * * *
49705231 TATGAGA-ATCGTGTAAGACAATAGT-TGGGTTATTGGCATAGA
1 TATGAGATTTCGTGTAAGACCATA-TCTGGGATA-TGGCATCGA
** * *
49705273 TATGAGATCCCATGTAAGACCATATCTAGGATATG
1 TATGAGATTTCGTGTAAGACCATATCTGGGATATG
49705308 ACATTGGTAC
Statistics
Matches: 96, Mismatches: 18, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
41 18 0.19
42 58 0.60
43 20 0.21
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.32
Consensus pattern (42 bp):
TATGAGATTTCGTGTAAGACCATATCTGGGATATGGCATCGA
Found at i:49706722 original size:40 final size:40
Alignment explanation
Indices: 49706651--49706837 Score: 288
Period size: 40 Copynumber: 4.7 Consensus size: 40
49706641 TTCTAACACG
* * * *
49706651 AGCCTACGGGTCTTT-AACCCGGATTCCATTCCAGCACGA-
1 AGCCTGCGGGTCTTTAAACCCGGATACAATTCCAGCA-TAT
*
49706690 AGCCTGCGGGTCTTTAAACCCAGATACAATTCCAGCATAT
1 AGCCTGCGGGTCTTTAAACCCGGATACAATTCCAGCATAT
*
49706730 AGCCTGCGGGTCTCTAAACCCGGATACAATTCCAGCATAT
1 AGCCTGCGGGTCTTTAAACCCGGATACAATTCCAGCATAT
49706770 AGCCTGCGGGTCTTTAAACCCGGATACAATTCCAGCATAT
1 AGCCTGCGGGTCTTTAAACCCGGATACAATTCCAGCATAT
*
49706810 AGCCTGCGGGTCTTTAAGCCCGGATACA
1 AGCCTGCGGGTCTTTAAACCCGGATACA
49706838 CACATCAAAT
Statistics
Matches: 137, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 15 0.11
40 122 0.89
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
AGCCTGCGGGTCTTTAAACCCGGATACAATTCCAGCATAT
Found at i:49714502 original size:40 final size:40
Alignment explanation
Indices: 49714419--49714605 Score: 270
Period size: 40 Copynumber: 4.7 Consensus size: 40
49714409 TTCTAACACG
* * * * *
49714419 AGCCTACGGGTCTTT-AACCTGGATTCCATTCCAGCACGA-
1 AGCCTGCGGGTCTTTAAACCCGGATACAATTCCAGCA-TAT
49714458 AGCCTGCGGGTCTTTAAACCCGGATACAATTCCAGCATAT
1 AGCCTGCGGGTCTTTAAACCCGGATACAATTCCAGCATAT
* *
49714498 AGCCTGCGGGTCTCTAAACCCAGATACAATTCCAGCATAT
1 AGCCTGCGGGTCTTTAAACCCGGATACAATTCCAGCATAT
49714538 AGCCTGCGGGTCTTTAAACCCGGATACAATTCCAGCATAT
1 AGCCTGCGGGTCTTTAAACCCGGATACAATTCCAGCATAT
* *
49714578 AGCATGCGGGTCTTTAAGCCCGGATACA
1 AGCCTGCGGGTCTTTAAACCCGGATACA
49714606 CACATCAAAT
Statistics
Matches: 135, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 15 0.11
40 120 0.89
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AGCCTGCGGGTCTTTAAACCCGGATACAATTCCAGCATAT
Found at i:49718657 original size:13 final size:13
Alignment explanation
Indices: 49718639--49718665 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
49718629 GTAACAAGAT
49718639 CTACCTATTTCTA
1 CTACCTATTTCTA
49718652 CTACCTATTTCTA
1 CTACCTATTTCTA
49718665 C
1 C
49718666 CATTTAGTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.33, G:0.00, T:0.44
Consensus pattern (13 bp):
CTACCTATTTCTA
Found at i:49721798 original size:40 final size:40
Alignment explanation
Indices: 49721729--49721986 Score: 464
Period size: 40 Copynumber: 6.5 Consensus size: 40
49721719 AACCCAAGTA
* *
49721729 CCTTCGGGAATTAG-CCGGATATAGCAACTAGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAATTG
49721768 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAATTG
*
49721808 CCTTCGGGACTTAGCCCGAATATAGTAACTAGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAATTG
49721848 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAATTG
*
49721888 TCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAATTG
49721928 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAATTG
*
49721968 CCTTTGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
49721987 TTATCATCCG
Statistics
Matches: 211, Mismatches: 7, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
39 13 0.06
40 198 0.94
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAATTG
Found at i:49723516 original size:13 final size:13
Alignment explanation
Indices: 49723498--49723523 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
49723488 ATTTTTATTT
49723498 TTAACATAAAATA
1 TTAACATAAAATA
49723511 TTAACATAAAATA
1 TTAACATAAAATA
49723524 ATTATAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACATAAAATA
Found at i:49731902 original size:27 final size:28
Alignment explanation
Indices: 49731846--49731915 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
49731836 AAATTTGTAC
*
49731846 AGCACTAAGTGTGTGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
49731874 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
49731901 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
49731916 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 25 0.61
28 16 0.39
ACGTcount: A:0.29, C:0.11, G:0.27, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:49731926 original size:27 final size:27
Alignment explanation
Indices: 49731846--49731927 Score: 76
Period size: 27 Copynumber: 3.0 Consensus size: 27
49731836 AAATTTGTAC
* * * *
49731846 AGCACTAAGTGTGTGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
* * *
49731874 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
49731901 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
49731928 GTTTTTGAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 1 0.02
27 32 0.65
28 16 0.33
ACGTcount: A:0.29, C:0.13, G:0.24, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:49739913 original size:29 final size:29
Alignment explanation
Indices: 49739874--49739953 Score: 108
Period size: 29 Copynumber: 2.7 Consensus size: 29
49739864 CTTAATAATC
*
49739874 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
49739904 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
49739933 AGCCCGCACACTTAGTGCCAT
1 AACCCGCACACTTAGTGCCAT
49739954 TCTCTCAACC
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 39 0.87
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:49745288 original size:29 final size:29
Alignment explanation
Indices: 49745249--49745328 Score: 108
Period size: 29 Copynumber: 2.7 Consensus size: 29
49745239 CTTAATAATC
*
49745249 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
49745279 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
49745308 AGCCCGCACACTTAGTGCCAT
1 AACCCGCACACTTAGTGCCAT
49745329 TCTCTCAACC
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 39 0.87
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:49747659 original size:8 final size:8
Alignment explanation
Indices: 49747648--49747678 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
49747638 AGAAAAAGCT
49747648 GAAAAGTC
1 GAAAAGTC
49747656 GAAAAGTC
1 GAAAAGTC
*
49747664 AAAAAGTC
1 GAAAAGTC
49747672 GAAAAGT
1 GAAAAGT
49747679 GGGCTGTCGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.55, C:0.10, G:0.23, T:0.13
Consensus pattern (8 bp):
GAAAAGTC
Found at i:49748410 original size:34 final size:33
Alignment explanation
Indices: 49748334--49748426 Score: 107
Period size: 34 Copynumber: 2.8 Consensus size: 33
49748324 TTGCATATTG
* *
49748334 TACTGTTACT-ATAATGGGCTTAGGCCCCACTGA
1 TACTGTTACTGA-AATGGGCTAAGGCCACACTGA
* * *
49748367 TACTGTTACTGAAATGGGCTCAGGCCTAGACTGC
1 TACTGTTACTGAAATGGGCTAAGGCC-ACACTGA
*
49748401 TACTGTTACTGATATGGGCTAAGGCC
1 TACTGTTACTGAAATGGGCTAAGGCC
49748427 GTAACTGAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
33 23 0.44
34 29 0.56
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.29
Consensus pattern (33 bp):
TACTGTTACTGAAATGGGCTAAGGCCACACTGA
Found at i:49750970 original size:42 final size:42
Alignment explanation
Indices: 49750923--49751072 Score: 133
Period size: 42 Copynumber: 3.6 Consensus size: 42
49750913 ATGAGTTTAT
* * * *
49750923 GTGTAAGAACATATCAGGGATATGGCATCGTTATAAGATTTC
1 GTGTAAGACCATATCAGGGATATGGCATCGATATGAGATATC
* * * *
49750965 GTGTAAGACCATGTCTGGGACATTGCATCGATATGAGA-ATC
1 GTGTAAGACCATATCAGGGATATGGCATCGATATGAGATATC
* * * **
49751006 GTGTAAGATCAT-TTATGGGCTATTGGCATCGATATGAGATCCC
1 GTGTAAGACCATATCA-GGGATA-TGGCATCGATATGAGATATC
* *
49751049 ATGTAAGACCATATCTGGGATATG
1 GTGTAAGACCATATCAGGGATATG
49751073 CCATTGGTAC
Statistics
Matches: 83, Mismatches: 21, Indels: 8
0.74 0.19 0.07
Matches are distributed among these distances:
40 1 0.01
41 17 0.20
42 48 0.58
43 16 0.19
44 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCATATCAGGGATATGGCATCGATATGAGATATC
Found at i:49760111 original size:46 final size:46
Alignment explanation
Indices: 49760061--49760232 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
49760051 TGAGCATCCA
* *
49760061 AACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCTG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
* * *
49760107 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCCG
* *
49760154 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
* * *
49760200 AGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
49760233 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 57 0.55
47 28 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.31
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
Found at i:49760213 original size:93 final size:93
Alignment explanation
Indices: 49760054--49760225 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
49760044 GGATGGTTGA
* * * *
49760054 GCATCCAAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
49760119 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
49760147 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
49760212 TGAGTCTGAGTTCG
66 TGAGTCCGAGTTCG
49760226 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:49763818 original size:43 final size:44
Alignment explanation
Indices: 49763737--49763820 Score: 143
Period size: 43 Copynumber: 1.9 Consensus size: 44
49763727 TATGTATGAG
* *
49763737 GCATCCGAGCTCGTTGAGTTGGTCCGAGTTCATTATGGATGCGA
1 GCATCCGAGCTCGTTGAGCTGGTCCGAGTTCATAATGGATGCGA
49763781 GCATCCGAGCTCGTTGA-CTGGTCCGAGTTCATAATGGATG
1 GCATCCGAGCTCGTTGAGCTGGTCCGAGTTCATAATGGATG
49763821 TGATACATGT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
43 21 0.55
44 17 0.45
ACGTcount: A:0.19, C:0.21, G:0.31, T:0.29
Consensus pattern (44 bp):
GCATCCGAGCTCGTTGAGCTGGTCCGAGTTCATAATGGATGCGA
Found at i:49767316 original size:18 final size:18
Alignment explanation
Indices: 49767278--49767316 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
49767268 GCGCGGACTA
*
49767278 CCCGTGTGGACCCACATG
1 CCCGTGTGGACCCACAAG
49767296 CCCGTGTGG-CCCACACAG
1 CCCGTGTGGACCCACA-AG
49767314 CCC
1 CCC
49767317 AATTTGGTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.15, C:0.46, G:0.26, T:0.13
Consensus pattern (18 bp):
CCCGTGTGGACCCACAAG
Done.