Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 36 of 185
Found at i:9902592 original size:25 final size:24
Alignment explanation
Indices: 9902564--9902669 Score: 88
Period size: 26 Copynumber: 4.2 Consensus size: 24
9902554 AGCTCCGAAT
* *
9902564 AGCCATGTATCGGGAAGTTCAAGCG
1 AGCCAT-TATCGGGAAGCTCAAGAG
*
9902589 AGCCA-TATCGGGAAGCTCCAGAG
1 AGCCATTATCGGGAAGCTCAAGAG
** *
9902612 AGCCATTAATTAGGAAGCTCACAAAG
1 AGCCATT-ATCGGGAAGCTCA-AGAG
* *
9902638 AGCCTTTAATCGGGAAGCTCATGAAG
1 AGCCATT-ATCGGGAAGCTCAAG-AG
9902664 AGCCAT
1 AGCCAT
9902670 ATAACGAGAC
Statistics
Matches: 64, Mismatches: 13, Indels: 7
0.76 0.15 0.08
Matches are distributed among these distances:
23 20 0.31
24 1 0.02
25 15 0.23
26 28 0.44
ACGTcount: A:0.33, C:0.22, G:0.26, T:0.19
Consensus pattern (24 bp):
AGCCATTATCGGGAAGCTCAAGAG
Found at i:9902646 original size:26 final size:26
Alignment explanation
Indices: 9902480--9902669 Score: 89
Period size: 25 Copynumber: 7.7 Consensus size: 26
9902470 ATATAACAGA
*
9902480 AAGCTCA-TAAGAGCCA-TAATCAGG
1 AAGCTCACAAAGAGCCATTAATCAGG
*** * *
9902504 AAGCTCA-TGCGAGCCAATAA-CTGG
1 AAGCTCACAAAGAGCCATTAATCAGG
* *
9902528 TAGCTC-CGAAGAGCCATTAAAT-AGG
1 AAGCTCACAAAGAGCCATT-AATCAGG
* * *
9902553 AAGCTC-CGAATAGCCATGT-ATCGGG
1 AAGCTCACAAAGAGCCAT-TAATCAGG
* ** *
9902578 AAGTTCA-AGCGAGCCA-T-ATCGGG
1 AAGCTCACAAAGAGCCATTAATCAGG
* *
9902601 AAGCTC-CAGAGAGCCATTAATTAGG
1 AAGCTCACAAAGAGCCATTAATCAGG
* *
9902626 AAGCTCACAAAGAGCCTTTAATCGGG
1 AAGCTCACAAAGAGCCATTAATCAGG
**
9902652 AAGCTCATGAAGAGCCAT
1 AAGCTCACAAAGAGCCAT
9902670 ATAACGAGAC
Statistics
Matches: 127, Mismatches: 28, Indels: 20
0.73 0.16 0.11
Matches are distributed among these distances:
23 20 0.16
24 32 0.25
25 44 0.35
26 31 0.24
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (26 bp):
AAGCTCACAAAGAGCCATTAATCAGG
Found at i:9907437 original size:116 final size:116
Alignment explanation
Indices: 9907228--9907462 Score: 407
Period size: 116 Copynumber: 2.0 Consensus size: 116
9907218 TTTTATCCAC
* * * *
9907228 CATCACATACTGGCTTAGGGGGTTTGATACTTTAACCACAAATTTAGTGGACTCAACAGATAAAT
1 CATCACATACTAGCCTAGGGGGTTTGATACTTTAACCACAAATTTAGTGGACGCAACAGACAAAT
9907293 TTTTATTAGACACTAAATTTGTGCATATGTATGAATGTGTCAAACCAGGAT
66 TTTTATTAGACACTAAATTTGTGCATATGTATGAATGTGTCAAACCAGGAT
*
9907344 CATCACATACTAGCCTAGGGGGTTTGATACTTTAACCACAAATTTAGTGGACGCGACAGACAAAT
1 CATCACATACTAGCCTAGGGGGTTTGATACTTTAACCACAAATTTAGTGGACGCAACAGACAAAT
* *
9907409 TTTTATTAGACACTAAATTTGTGTATATGTATGAATGTGTCGAACCAGGAT
66 TTTTATTAGACACTAAATTTGTGCATATGTATGAATGTGTCAAACCAGGAT
9907460 CAT
1 CAT
9907463 TTAAAGCAGT
Statistics
Matches: 112, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
116 112 1.00
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (116 bp):
CATCACATACTAGCCTAGGGGGTTTGATACTTTAACCACAAATTTAGTGGACGCAACAGACAAAT
TTTTATTAGACACTAAATTTGTGCATATGTATGAATGTGTCAAACCAGGAT
Found at i:9910302 original size:26 final size:26
Alignment explanation
Indices: 9910246--9910312 Score: 82
Period size: 26 Copynumber: 2.6 Consensus size: 26
9910236 AGCCATATTG
*
9910246 AGAAGCTC-CAGAGAGCATTTAATCA
1 AGAAGCTCACAAAGAGCATTTAATCA
* *
9910271 AAAAGCTCACAAAGAGCATTTAATCG
1 AGAAGCTCACAAAGAGCATTTAATCA
* *
9910297 GGAAGCTCACGAAGAG
1 AGAAGCTCACAAAGAG
9910313 TAATATAACG
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
25 7 0.20
26 28 0.80
ACGTcount: A:0.42, C:0.19, G:0.22, T:0.16
Consensus pattern (26 bp):
AGAAGCTCACAAAGAGCATTTAATCA
Found at i:9915519 original size:7 final size:7
Alignment explanation
Indices: 9915507--9915538 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
9915497 AAAAAAGCGT
9915507 CACCCAA
1 CACCCAA
9915514 CACCCAA
1 CACCCAA
9915521 CACCCAA
1 CACCCAA
*
9915528 CACCAAA
1 CACCCAA
9915535 CACC
1 CACC
9915539 GACTCTGTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.44, C:0.56, G:0.00, T:0.00
Consensus pattern (7 bp):
CACCCAA
Found at i:9926170 original size:6 final size:6
Alignment explanation
Indices: 9926159--9926187 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
9926149 ACTTTTTTGG
9926159 AAAAAC AAAAAC AAAAAC AAAAAC AAAAA
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAA
9926188 AGGAAATCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:9930685 original size:22 final size:21
Alignment explanation
Indices: 9930650--9930690 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
9930640 TGGTGGTTTC
*
9930650 AATTTGAATATATATTTTTGG
1 AATTTGAATATATAATTTTGG
9930671 AATTTGATATATATAATTTT
1 AATTTGA-ATATATAATTTT
9930691 CCTGGACGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.54
Consensus pattern (21 bp):
AATTTGAATATATAATTTTGG
Found at i:9937216 original size:68 final size:67
Alignment explanation
Indices: 9937116--9937314 Score: 191
Period size: 68 Copynumber: 3.0 Consensus size: 67
9937106 ATTTTAACAG
* * *
9937116 ATTTAATATTAAATTTAATTTAATACTAATCTTAAT-AGTATTTTATTAATTTAATATTAAAGCG
1 ATTTAATATTAAATTTAATTTAATATTTATCTTAATAAGTATTATATTAATTTAATATTAAAG-G
9937180 ATT
65 ATT
* * * *
9937183 ATCTTAATATTGAATTTAATTTAATGTTTATCTTGTAGATAAATATTCTATTAATTT-A-A-T-A
1 AT-TTAATATTAAATTTAATTTAATATTTATC-T-TA-ATAAGTATTATATTAATTTAATATTAA
9937244 A-G---
62 AGGATT
* * *
9937246 ATTTAAGATTAAATTTAATCTAATATTTATCTTGATAAGTATTATATTAATTTAATATTAAAGTG
1 ATTTAATATTAAATTTAATTTAATATTTATCTTAATAAGTATTATATTAATTTAATATTAAAG-G
9937311 ATT
65 ATT
9937314 A
1 A
9937315 AGTTTAATCA
Statistics
Matches: 105, Mismatches: 13, Indels: 27
0.72 0.09 0.19
Matches are distributed among these distances:
59 17 0.16
60 2 0.02
61 2 0.02
62 26 0.25
63 4 0.04
65 1 0.01
66 1 0.01
67 2 0.02
68 28 0.27
69 2 0.02
70 3 0.03
71 3 0.03
72 14 0.13
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.49
Consensus pattern (67 bp):
ATTTAATATTAAATTTAATTTAATATTTATCTTAATAAGTATTATATTAATTTAATATTAAAGGA
TT
Found at i:9937301 original size:59 final size:62
Alignment explanation
Indices: 9937186--9937302 Score: 159
Period size: 62 Copynumber: 1.9 Consensus size: 62
9937176 AGCGATTATC
* * * * *
9937186 TTAATATTGAATTTAATTTAATGTTTATCTTGTAGATAAATATTCTATTAATTTAATAAGAT
1 TTAAGATTAAATTTAATCTAATATTTATCTTGTAGATAAATATTATATTAATTTAATAAGAT
*
9937248 TTAAGATTAAATTTAATCTAATATTTATC-T-T-GATAAGTATTATATTAATTTAATA
1 TTAAGATTAAATTTAATCTAATATTTATCTTGTAGATAAATATTATATTAATTTAATA
9937303 TTAAAGTGAT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
59 22 0.45
60 1 0.02
61 1 0.02
62 25 0.51
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.50
Consensus pattern (62 bp):
TTAAGATTAAATTTAATCTAATATTTATCTTGTAGATAAATATTATATTAATTTAATAAGAT
Found at i:9941954 original size:15 final size:17
Alignment explanation
Indices: 9941934--9941977 Score: 56
Period size: 15 Copynumber: 2.7 Consensus size: 17
9941924 ATAGTAAGCC
*
9941934 TAAATACTATCAAA-A-
1 TAAATACTATAAAATAT
*
9941949 TAAATATTATAAAATAT
1 TAAATACTATAAAATAT
9941966 TAAATACTATAA
1 TAAATACTATAA
9941978 TATGTAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 12 0.50
16 1 0.04
17 11 0.46
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (17 bp):
TAAATACTATAAAATAT
Found at i:9942129 original size:16 final size:16
Alignment explanation
Indices: 9942108--9942159 Score: 104
Period size: 16 Copynumber: 3.2 Consensus size: 16
9942098 TTTGGTTCGC
9942108 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
9942124 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
9942140 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
9942156 TGTA
1 TGTA
9942160 ATAGCTAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.25, C:0.00, G:0.37, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:9942224 original size:44 final size:45
Alignment explanation
Indices: 9942140--9942230 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
9942130 GGATTAGAGG
* * *
9942140 TGTATTGGATTAGAGGTGTAATAGCTAATCCCCTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCCCTGTTTGGTTGAA
***
9942185 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCCCTGTTTGGTTGAA
9942229 TG
1 TG
9942231 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.26, C:0.08, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCCCTGTTTGGTTGAA
Found at i:9942416 original size:18 final size:17
Alignment explanation
Indices: 9942395--9942429 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
9942385 TTATTATTAA
*
9942395 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
9942413 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
9942430 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:9942515 original size:120 final size:120
Alignment explanation
Indices: 9942378--9943268 Score: 1459
Period size: 120 Copynumber: 7.4 Consensus size: 120
9942368 ATCATATTTA
9942378 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* * *
9942443 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
*
9942498 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* * *
9942563 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
*
9942618 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
9942683 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
* * *
9942738 AACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAGTAAAATTCTTAAT-ATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATT-A
* * * *
9942802 ATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATAAAATATAATTT
65 ATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
* *
9942858 AACATAATTATTATTAAATATAATTTAATAAAAATATATAA-TTAATAAAATTCTTAAT-ATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATT-A
9942921 ATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
65 ATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
* * * *
9942977 AACATAATTATTATTAAATATATTATAAATAAAATATATAATTTAATAAAATTATTAATAATCAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
9943042 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
* *
9943097 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
9943162 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
* *
9943217 GAA-ATAATTAATATTAAATATA-TTTAATTAAAATATATGATTTAATAAAATT
1 -AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
9943269 TAAAATAATT
Statistics
Matches: 735, Mismatches: 32, Indels: 9
0.95 0.04 0.01
Matches are distributed among these distances:
119 141 0.19
120 590 0.80
121 4 0.01
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
Found at i:9942747 original size:66 final size:65
Alignment explanation
Indices: 9942675--9942872 Score: 161
Period size: 66 Copynumber: 3.2 Consensus size: 65
9942665 GAAATTCTTA
*
9942675 ATAATTAATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAA
1 ATAATTAATATTCTTATATTAATTTACT-AAATCATAATATATAATACTGTAAAATATAAATTAA
9942740 C
65 C
* ** * * *
9942741 ATAATTATTATT-AAATA-TAATTTAAT-AA--A-AATATATAAT-TTAGTAAAAT-T--CTT-A
1 ATAATTAATATTCTTATATTAATTTACTAAATCATAATATATAATACT-GTAAAATATAAATTAA
9942795 -
65 C
* * * *
9942795 AT-ATTAAATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATAAAATATAATTTA
1 ATAATT-AATATTCTTATATTAATTTACT-AAATCATAATATATAATACTGTAAAATATAAATTA
9942859 AC
64 AC
*
9942861 ATAATTATTATT
1 ATAATTAATATT
9942873 AAATATAATT
Statistics
Matches: 99, Mismatches: 17, Indels: 32
0.67 0.11 0.22
Matches are distributed among these distances:
53 3 0.03
54 7 0.07
55 4 0.04
56 8 0.08
58 4 0.04
59 16 0.16
60 2 0.02
61 16 0.16
62 4 0.04
64 10 0.10
65 4 0.04
66 18 0.18
67 3 0.03
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.43
Consensus pattern (65 bp):
ATAATTAATATTCTTATATTAATTTACTAAATCATAATATATAATACTGTAAAATATAAATTAAC
Found at i:9942993 original size:479 final size:480
Alignment explanation
Indices: 9942373--9943268 Score: 1521
Period size: 479 Copynumber: 1.9 Consensus size: 480
9942363 ATTTAATCAT
* *
9942373 ATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATA
* * *
9942438 ATTAATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACAT
66 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATTAACAT
* * * * *
9942503 AATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAATATTC
131 AATTATTATTAAATATATTATAAATAAAATATATAATTTAATAAAATTATTAATAATCAATATTC
* * *
9942568 TTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATT
196 TTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATTAACATAATTATTATT
* * * *
9942633 AAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAATATTCTTATATTAAT
261 AAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAATTAATATTCTTATATGAAT
* * *
9942698 TTACTCAAATCATAATATATGATACTGTAAAATATAAATT-AACATAATTATTATTAAATATAAT
326 TTACTCAAATCATAATATATGATACTATAAAAGATAAATTGAA-ATAATTAATATTAAATAT-AT
*
9942762 TTAATAAAAATATATAATTTAGTAAAATTCTTAATATTAAATATTCTTATATGAATTTTCTAAAA
389 TTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTTCTAAAA
9942827 TCATAATATATAATACTATAAAATATA
454 TCATAATATATAATACTATAAAATATA
9942854 ATTT-AACATAATTATTATTAAATATAATTTAATAAAAATATATAA-TTAATAAAATTCTTAAT-
1 ATTTAAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATA
9942916 ATTAAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATTAACA
66 ATT-AATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATTAACA
9942981 TAATTATTATTAAATATATTATAAATAAAATATATAATTTAATAAAATTATTAATAATCAATATT
130 TAATTATTATTAAATATATTATAAATAAAATATATAATTTAATAAAATTATTAATAATCAATATT
9943046 CTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATTAACATAATTATTAT
195 CTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATTAACATAATTATTAT
9943111 TAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAATTAATATTCTTATATGAA
260 TAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAATTAATATTCTTATATGAA
*
9943176 TTTACTCAAATCATAATATATGATACTATAAAAGATAATTTGAAATAATTAATATTAAATATATT
325 TTTACTCAAATCATAATATATGATACTATAAAAGATAAATTGAAATAATTAATATTAAATATATT
* *
9943241 TAATTAAAATATATGATTTAATAAAATT
390 TAATAAAAATATATAATTTAATAAAATT
9943269 TAAAATAATT
Statistics
Matches: 389, Mismatches: 24, Indels: 7
0.93 0.06 0.02
Matches are distributed among these distances:
478 31 0.08
479 313 0.80
480 41 0.11
481 4 0.01
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (480 bp):
ATTTAAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATA
ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATTAACAT
AATTATTATTAAATATATTATAAATAAAATATATAATTTAATAAAATTATTAATAATCAATATTC
TTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATTAACATAATTATTATT
AAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAATTAATATTCTTATATGAAT
TTACTCAAATCATAATATATGATACTATAAAAGATAAATTGAAATAATTAATATTAAATATATTT
AATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTTCTAAAATC
ATAATATATAATACTATAAAATATA
Found at i:9943013 original size:16 final size:17
Alignment explanation
Indices: 9942992--9943033 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
9942982 AATTATTATT
9942992 AAATATATTA-TAAATA
1 AAATATATTATTAAATA
* *
9943008 AAATATATAATTTAATA
1 AAATATATTATTAAATA
9943025 AAAT-TATTA
1 AAATATATTA
9943034 ATAATCAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
AAATATATTATTAAATA
Found at i:9943135 original size:18 final size:18
Alignment explanation
Indices: 9943114--9943161 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
9943104 TTATTATTAA
9943114 ATATATTATAATTAAAAT
1 ATATATTATAATTAAAAT
9943132 ATATAATT-TAA-TAAAAT
1 ATAT-ATTATAATTAAAAT
*
9943149 -TAT-TAATAATTAA
1 ATATATTATAATTAA
9943162 TATTCTTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
14 1 0.04
15 3 0.12
16 6 0.23
17 6 0.23
18 7 0.27
19 3 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATATATTATAATTAAAAT
Found at i:9943142 original size:14 final size:15
Alignment explanation
Indices: 9943093--9943144 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
9943083 ATAAAATATA
9943093 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
9943108 TATTAAATATATTAT
1 AATTAAATATATTAT
9943123 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
9943136 AATTTAATA
1 AATTAAATA
9943145 AAATTATTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:9943265 original size:17 final size:17
Alignment explanation
Indices: 9943234--9943267 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
9943224 TTAATATTAA
9943234 ATATATTTAATTAAAAT
1 ATATATTTAATTAAAAT
9943251 ATATGATTTAA-TAAAAT
1 ATAT-ATTTAATTAAAAT
9943268 TTAAAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (17 bp):
ATATATTTAATTAAAAT
Found at i:9943338 original size:26 final size:28
Alignment explanation
Indices: 9943309--9943369 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
9943299 TATGAATTTG
*
9943309 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
9943335 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
9943363 TAAAATT
1 TATAATT
9943370 CTTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:9943367 original size:47 final size:46
Alignment explanation
Indices: 9943316--9943459 Score: 113
Period size: 47 Copynumber: 3.1 Consensus size: 46
9943306 TTGTATAATT
9943316 TAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCA
1 TAAAATAATTATTATTA-ATATAATTTAATAATAATATATAATTTCA
* ** * *
9943363 TAAAAT--TCT-TGA-TAATA-AATTTTCTTATATGAATTTATACAATT--
1 TAAAATAAT-TATTATTAATATAA-TTTAATA-AT-AATATATA-ATTTCA
* *
9943407 TAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCA
1 TAAAATAATTATTATT-AATATAATTTAATAATAATATATAATTTCA
9943454 TAAAAT
1 TAAAAT
9943460 TCTTGATAAT
Statistics
Matches: 72, Mismatches: 12, Indels: 26
0.65 0.11 0.24
Matches are distributed among these distances:
42 2 0.03
43 8 0.11
44 10 0.14
45 14 0.19
46 12 0.17
47 15 0.21
48 9 0.12
49 2 0.03
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (46 bp):
TAAAATAATTATTATTAATATAATTTAATAATAATATATAATTTCA
Found at i:9943451 original size:44 final size:43
Alignment explanation
Indices: 9943309--9943451 Score: 119
Period size: 44 Copynumber: 3.2 Consensus size: 43
9943299 TATGAATTTG
* *
9943309 TATAATTTAAAATAATTATTATTACATATAATTTAATAATAATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
** * * * *
9943353 TATAATTTCATAAAATTCTTGATAATAAAT-T-TTCTTATATGAATTTA
1 TATAA-TT--TAAAATAATTAATATTAAATATAAT-TTA-AT-AATATA
*
9943400 TACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
9943444 TATAATTT
1 TATAATTT
9943452 CATAAAATTC
Statistics
Matches: 74, Mismatches: 16, Indels: 18
0.69 0.15 0.17
Matches are distributed among these distances:
43 3 0.04
44 32 0.43
45 7 0.09
46 7 0.09
47 22 0.30
48 3 0.04
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.46
Consensus pattern (43 bp):
TATAATTTAAAATAATTAATATTAAATATAATTTAATAATATA
Found at i:9943473 original size:47 final size:47
Alignment explanation
Indices: 9943334--9943473 Score: 139
Period size: 47 Copynumber: 3.0 Consensus size: 47
9943324 TTATTATTAC
*
9943334 ATATAATTTAATAATAATATATAATTTCATAAAATTCTTGATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTGATAATAA
* * * ** * *
9943381 AT-T--TTCTTAT-ATGAATTTATACAATT--TAAAATAATTAATATTAA
1 ATATAATT-TAATAATG-ATATATA-ATTTCATAAAATTCTTGATAATAA
9943425 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTGATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTGATAATAA
9943472 AT
1 AT
9943474 TTTTTATATG
Statistics
Matches: 69, Mismatches: 15, Indels: 18
0.68 0.15 0.18
Matches are distributed among these distances:
44 20 0.29
45 13 0.19
46 13 0.19
47 23 0.33
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.44
Consensus pattern (47 bp):
ATATAATTTAATAATGATATATAATTTCATAAAATTCTTGATAATAA
Found at i:9943507 original size:91 final size:91
Alignment explanation
Indices: 9943284--9943498 Score: 333
Period size: 91 Copynumber: 2.4 Consensus size: 91
9943274 TAATTACAAC
* * * ** * *
9943284 TAATAAATTATCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATACAATAGAAAATAATTAATATTAAATATAATTTAATAAT
9943349 AATATATAATTTCATAAAATTCTTGA
66 AATATATAATTTCATAAAATTCTTGA
**
9943375 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATACAATAGAAAATAATTAATATTAAATATAATTTAATAAT
*
9943440 GATATATAATTTCATAAAATTCTTGA
66 AATATATAATTTCATAAAATTCTTGA
9943466 TAATAAATTTT-TTATATGAATTTATACAATAGA
1 TAATAAATTTTCTTATATGAATTTATACAATAGA
9943499 TATTTAATTG
Statistics
Matches: 116, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
90 20 0.17
91 96 0.83
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.46
Consensus pattern (91 bp):
TAATAAATTTTCTTATATGAATTTATACAATAGAAAATAATTAATATTAAATATAATTTAATAAT
AATATATAATTTCATAAAATTCTTGA
Found at i:9949261 original size:18 final size:19
Alignment explanation
Indices: 9949234--9949285 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
9949224 TGATTGATAT
9949234 AATA-AAAATTAATTTTAA
1 AATATAAAATTAATTTTAA
* * *
9949252 ACT-TAAAATTAGTTATAA
1 AATATAAAATTAATTTTAA
*
9949270 AATATAAAATTTATTT
1 AATATAAAATTAATTT
9949286 AATATTTATT
Statistics
Matches: 25, Mismatches: 7, Indels: 3
0.71 0.20 0.09
Matches are distributed among these distances:
18 16 0.64
19 9 0.36
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (19 bp):
AATATAAAATTAATTTTAA
Found at i:9967182 original size:6 final size:6
Alignment explanation
Indices: 9967171--9967198 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
9967161 ACTTTTTTGG
9967171 AAAACA AAAACA AAAACA AAAACA AAAA
1 AAAACA AAAACA AAAACA AAAACA AAAA
9967199 AGGAAATCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAACA
Found at i:9971637 original size:21 final size:21
Alignment explanation
Indices: 9971604--9971643 Score: 64
Period size: 20 Copynumber: 1.9 Consensus size: 21
9971594 TGGTGGTTTC
9971604 AATTTGAATATAT-ATTTTGG
1 AATTTGAATATATAATTTTGG
9971624 AATTTGATATATATAATTTT
1 AATTTGA-ATATATAATTTT
9971644 CCTGGACGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 6 0.33
22 5 0.28
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.53
Consensus pattern (21 bp):
AATTTGAATATATAATTTTGG
Found at i:9978145 original size:68 final size:67
Alignment explanation
Indices: 9978045--9978243 Score: 191
Period size: 68 Copynumber: 3.0 Consensus size: 67
9978035 ATTTTAACAG
* * *
9978045 ATTTAATATTAAATTTAATTTAATACTAATCTTAAT-AGTATTTTATTAATTTAATATTAAAGCG
1 ATTTAATATTAAATTTAATTTAATATTTATCTTAATAAGTATTATATTAATTTAATATTAAAG-G
9978109 ATT
65 ATT
* * * *
9978112 ATCTTAATATTGAATTTAATTTAATGTTTATCTTGTAGATAAATATTCTATTAATTT-A-A-T-A
1 AT-TTAATATTAAATTTAATTTAATATTTATC-T-TA-ATAAGTATTATATTAATTTAATATTAA
9978173 A-G---
62 AGGATT
* * *
9978175 ATTTAAGATTAAATTTAATCTAATATTTATCTTGATAAGTATTATATTAATTTAATATTAAAGTG
1 ATTTAATATTAAATTTAATTTAATATTTATCTTAATAAGTATTATATTAATTTAATATTAAAG-G
9978240 ATT
65 ATT
9978243 A
1 A
9978244 AGTTTAATCA
Statistics
Matches: 105, Mismatches: 13, Indels: 27
0.72 0.09 0.19
Matches are distributed among these distances:
59 17 0.16
60 2 0.02
61 2 0.02
62 26 0.25
63 4 0.04
65 1 0.01
66 1 0.01
67 2 0.02
68 28 0.27
69 2 0.02
70 3 0.03
71 3 0.03
72 14 0.13
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.49
Consensus pattern (67 bp):
ATTTAATATTAAATTTAATTTAATATTTATCTTAATAAGTATTATATTAATTTAATATTAAAGGA
TT
Found at i:9978230 original size:59 final size:62
Alignment explanation
Indices: 9978115--9978231 Score: 159
Period size: 62 Copynumber: 1.9 Consensus size: 62
9978105 AGCGATTATC
* * * * *
9978115 TTAATATTGAATTTAATTTAATGTTTATCTTGTAGATAAATATTCTATTAATTTAATAAGAT
1 TTAAGATTAAATTTAATCTAATATTTATCTTGTAGATAAATATTATATTAATTTAATAAGAT
*
9978177 TTAAGATTAAATTTAATCTAATATTTATC-T-T-GATAAGTATTATATTAATTTAATA
1 TTAAGATTAAATTTAATCTAATATTTATCTTGTAGATAAATATTATATTAATTTAATA
9978232 TTAAAGTGAT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
59 22 0.45
60 1 0.02
61 1 0.02
62 25 0.51
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.50
Consensus pattern (62 bp):
TTAAGATTAAATTTAATCTAATATTTATCTTGTAGATAAATATTATATTAATTTAATAAGAT
Found at i:9983060 original size:16 final size:16
Alignment explanation
Indices: 9983039--9983107 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
9983029 TTTGGTTCGC
9983039 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
9983055 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
9983071 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
9983088 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
9983104 TGTA
1 TGTA
9983108 ATAGCTAATC
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:9983085 original size:33 final size:32
Alignment explanation
Indices: 9983039--9983107 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
9983029 TTTGGTTCGC
9983039 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
9983071 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGTGTATTGGATTAGAGG
9983104 TGTA
1 TGTA
9983108 ATAGCTAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 6 0.17
33 30 0.83
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGATTAGAGG
Found at i:9983172 original size:44 final size:45
Alignment explanation
Indices: 9983088--9983178 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
9983078 GGATTAGAGG
* * *
9983088 TGTATTGGATTAGAGGTGTAATAGCTAATCCCCTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCCCTGTTTGGTTGAA
***
9983133 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCCCTGTTTGGTTGAA
9983177 TG
1 TG
9983179 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.26, C:0.08, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCCCTGTTTGGTTGAA
Found at i:9983364 original size:18 final size:17
Alignment explanation
Indices: 9983343--9983377 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
9983333 TTATTATTAA
*
9983343 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
9983361 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
9983378 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:9983463 original size:120 final size:120
Alignment explanation
Indices: 9983326--9984218 Score: 1452
Period size: 120 Copynumber: 7.4 Consensus size: 120
9983316 ATCATATTTA
9983326 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* * *
9983391 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
*
9983446 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* * *
9983511 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
*
9983566 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* * *
9983631 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
* * *
9983686 AACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAGTAAAATTCTTAAT-ATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATT-A
* * * *
9983750 ATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATAAAATATAATTT
65 ATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
* *
9983806 AACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAAT-AAATTCTTAAT-ATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATT-A
9983869 ATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
65 ATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
* * * *
9983925 AACATAATTATTATTAAATATATTATAAATAAAATATATAATTTAATAAAATTATTAATAATCAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
9983990 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
* *
9984045 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
9984110 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
* *
9984165 GAA-ATAATTAATATTAAATATATATTTAATTAAAATATATGATTTAATAAAATT
1 -AACATAATTATTATTAAATATAT-TTTAATTAAAATATATAATTTAATAAAATT
9984219 TAAAATAATT
Statistics
Matches: 737, Mismatches: 31, Indels: 9
0.95 0.04 0.01
Matches are distributed among these distances:
119 114 0.15
120 591 0.80
121 32 0.04
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
Found at i:9983695 original size:66 final size:65
Alignment explanation
Indices: 9983623--9983820 Score: 161
Period size: 66 Copynumber: 3.2 Consensus size: 65
9983613 GAAATTCTTA
*
9983623 ATAATTAATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAA
1 ATAATTAATATTCTTATATTAATTTACT-AAATCATAATATATAATACTGTAAAATATAAATTAA
9983688 C
65 C
* ** * * *
9983689 ATAATTATTATT-AAATA-TAATTTAAT-AA--A-AATATATAAT-TTAGTAAAAT-T--CTT-A
1 ATAATTAATATTCTTATATTAATTTACTAAATCATAATATATAATACT-GTAAAATATAAATTAA
9983743 -
65 C
* * * *
9983743 AT-ATTAAATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATAAAATATAATTTA
1 ATAATT-AATATTCTTATATTAATTTACT-AAATCATAATATATAATACTGTAAAATATAAATTA
9983807 AC
64 AC
*
9983809 ATAATTATTATT
1 ATAATTAATATT
9983821 AAATATAATT
Statistics
Matches: 99, Mismatches: 17, Indels: 32
0.67 0.11 0.22
Matches are distributed among these distances:
53 3 0.03
54 7 0.07
55 4 0.04
56 8 0.08
58 4 0.04
59 16 0.16
60 2 0.02
61 16 0.16
62 4 0.04
64 10 0.10
65 4 0.04
66 18 0.18
67 3 0.03
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.43
Consensus pattern (65 bp):
ATAATTAATATTCTTATATTAATTTACTAAATCATAATATATAATACTGTAAAATATAAATTAAC
Found at i:9983961 original size:16 final size:17
Alignment explanation
Indices: 9983940--9983981 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
9983930 AATTATTATT
9983940 AAATATATTA-TAAATA
1 AAATATATTATTAAATA
* *
9983956 AAATATATAATTTAATA
1 AAATATATTATTAAATA
9983973 AAAT-TATTA
1 AAATATATTA
9983982 ATAATCAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
AAATATATTATTAAATA
Found at i:9984083 original size:18 final size:18
Alignment explanation
Indices: 9984062--9984109 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
9984052 TTATTATTAA
9984062 ATATATTATAATTAAAAT
1 ATATATTATAATTAAAAT
9984080 ATATAATT-TAA-TAAAAT
1 ATAT-ATTATAATTAAAAT
*
9984097 -TAT-TAATAATTAA
1 ATATATTATAATTAA
9984110 TATTCTTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
14 1 0.04
15 3 0.12
16 6 0.23
17 6 0.23
18 7 0.27
19 3 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATATATTATAATTAAAAT
Found at i:9984090 original size:14 final size:15
Alignment explanation
Indices: 9984041--9984092 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
9984031 ATAAAATATA
9984041 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
9984056 TATTAAATATATTAT
1 AATTAAATATATTAT
9984071 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
9984084 AATTTAATA
1 AATTAAATA
9984093 AAATTATTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:9984202 original size:17 final size:17
Alignment explanation
Indices: 9984180--9984217 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
9984170 AATTAATATT
9984180 AAATATAT-ATTTAATTA
1 AAATATATGATTTAA-TA
9984197 AAATATATGATTTAATA
1 AAATATATGATTTAATA
9984214 AAAT
1 AAAT
9984218 TTAAAATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:9984288 original size:26 final size:28
Alignment explanation
Indices: 9984259--9984319 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
9984249 TATGAATTTG
*
9984259 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
9984285 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
9984313 TAAAATT
1 TATAATT
9984320 CTTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:9984310 original size:479 final size:478
Alignment explanation
Indices: 9983321--9984222 Score: 1470
Period size: 479 Copynumber: 1.9 Consensus size: 478
9983311 ATTTAATCAT
* *
9983321 ATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTT-AACATAATTA-TATT-AATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATA
* * *
9983386 ATTAATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACAT
63 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATTAACAT
* * * * *
9983451 AATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAATATTC
128 AATTATTATTAAATATATTATAAATAAAATATATAATTTAATAAAATTATTAATAATCAATATTC
* * *
9983516 TTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATT
193 TTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATTAACATAATTATTATT
* * * *
9983581 AAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAATATTCTTATATTAAT
258 AAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAATTAATATTCTTATATGAAT
* * * *
9983646 TTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATAATT
323 TTACTCAAATCATAATATATGATACTATAAAAGATAAATTAACATAATTAATATTAAATATAATT
* *
9983711 TAATAAAAATATATAATTTAGTAAAATTCTTAATATTAAATATTCTTATATGAATTTTCTAAAAT
388 TAATAAAAATATATAATTTAATAAAATTCTAAATATTAAATATTCTTATATGAATTTTCTAAAAT
9983776 CATAATATATAATACTATAAAATATA
453 CATAATATATAATACTATAAAATATA
9983802 ATTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAAT-AAATTCTTAAT-A
1 ATTTAACATAATTA-TATT-AATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAA
9983865 TTAAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATTAACAT
64 TT-AATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATTAACAT
9983930 AATTATTATTAAATATATTATAAATAAAATATATAATTTAATAAAATTATTAATAATCAATATTC
128 AATTATTATTAAATATATTATAAATAAAATATATAATTTAATAAAATTATTAATAATCAATATTC
9983995 TTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATTAACATAATTATTATT
193 TTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATTAACATAATTATTATT
9984060 AAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAATTAATATTCTTATATGAAT
258 AAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAATTAATATTCTTATATGAAT
*
9984125 TTACTCAAATCATAATATATGATACTATAAAAGATAATTTGAA-ATAATTAATATTAAATATATA
323 TTACTCAAATCATAATATATGATACTATAAAAGATAAATT-AACATAATTAATATTAAATATA-A
* *
9984189 TTTAATTAAAATATATGATTTAATAAAATT-TAAA
386 TTTAATAAAAATATATAATTTAATAAAATTCTAAA
9984223 ATAATTACAA
Statistics
Matches: 392, Mismatches: 26, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
478 3 0.01
479 310 0.79
480 75 0.19
481 4 0.01
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (478 bp):
ATTTAACATAATTATATTAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAATT
AATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATTAACATAAT
TATTATTAAATATATTATAAATAAAATATATAATTTAATAAAATTATTAATAATCAATATTCTTA
TATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATTAACATAATTATTATTAAA
TATATTATAATTAAAATATATAATTTAATAAAATTATTAATAATTAATATTCTTATATGAATTTA
CTCAAATCATAATATATGATACTATAAAAGATAAATTAACATAATTAATATTAAATATAATTTAA
TAAAAATATATAATTTAATAAAATTCTAAATATTAAATATTCTTATATGAATTTTCTAAAATCAT
AATATATAATACTATAAAATATA
Found at i:9984317 original size:47 final size:46
Alignment explanation
Indices: 9984266--9984409 Score: 113
Period size: 47 Copynumber: 3.1 Consensus size: 46
9984256 TTGTATAATT
9984266 TAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCA
1 TAAAATAATTATTATTA-ATATAATTTAATAATAATATATAATTTCA
* ** * *
9984313 TAAAAT--TCT-TGA-TAATA-AATTTTCTTATATGAATTTATACAATT--
1 TAAAATAAT-TATTATTAATATAA-TTTAATA-AT-AATATATA-ATTTCA
* *
9984357 TAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCA
1 TAAAATAATTATTATT-AATATAATTTAATAATAATATATAATTTCA
9984404 TAAAAT
1 TAAAAT
9984410 TCTTGATAAT
Statistics
Matches: 72, Mismatches: 12, Indels: 26
0.65 0.11 0.24
Matches are distributed among these distances:
42 2 0.03
43 8 0.11
44 10 0.14
45 14 0.19
46 12 0.17
47 15 0.21
48 9 0.12
49 2 0.03
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (46 bp):
TAAAATAATTATTATTAATATAATTTAATAATAATATATAATTTCA
Found at i:9984329 original size:91 final size:91
Alignment explanation
Indices: 9984234--9984446 Score: 363
Period size: 91 Copynumber: 2.3 Consensus size: 91
9984224 TAATTACAAC
* * * * *
9984234 TAATAAATTATCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
9984299 AATATATAATTTCATAAAATTCTTGA
66 AATATATAATTTCATAAAATTCTTGA
9984325 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
9984390 GATATATAATTTCATAAAATTCTTGA
66 AATATATAATTTCATAAAATTCTTGA
*
9984416 TAATAAATTTTTTTATATGAATTTATACAAT
1 TAATAAATTTTCTTATATGAATTTATACAAT
9984447 AGATATTTAA
Statistics
Matches: 115, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
91 115 1.00
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.46
Consensus pattern (91 bp):
TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
AATATATAATTTCATAAAATTCTTGA
Found at i:9984401 original size:44 final size:43
Alignment explanation
Indices: 9984259--9984401 Score: 119
Period size: 44 Copynumber: 3.2 Consensus size: 43
9984249 TATGAATTTG
* *
9984259 TATAATTTAAAATAATTATTATTACATATAATTTAATAATAATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
** * * * *
9984303 TATAATTTCATAAAATTCTTGATAATAAAT-T-TTCTTATATGAATTTA
1 TATAA-TT--TAAAATAATTAATATTAAATATAAT-TTA-AT-AATATA
*
9984350 TACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
9984394 TATAATTT
1 TATAATTT
9984402 CATAAAATTC
Statistics
Matches: 74, Mismatches: 16, Indels: 18
0.69 0.15 0.17
Matches are distributed among these distances:
43 3 0.04
44 32 0.43
45 7 0.09
46 7 0.09
47 22 0.30
48 3 0.04
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.46
Consensus pattern (43 bp):
TATAATTTAAAATAATTAATATTAAATATAATTTAATAATATA
Found at i:9984423 original size:47 final size:47
Alignment explanation
Indices: 9984284--9984423 Score: 139
Period size: 47 Copynumber: 3.0 Consensus size: 47
9984274 TTATTATTAC
*
9984284 ATATAATTTAATAATAATATATAATTTCATAAAATTCTTGATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTGATAATAA
* * * ** * *
9984331 AT-T--TTCTTAT-ATGAATTTATACAATT--TAAAATAATTAATATTAA
1 ATATAATT-TAATAATG-ATATATA-ATTTCATAAAATTCTTGATAATAA
9984375 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTGATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTGATAATAA
9984422 AT
1 AT
9984424 TTTTTTATAT
Statistics
Matches: 69, Mismatches: 15, Indels: 18
0.68 0.15 0.18
Matches are distributed among these distances:
44 20 0.29
45 13 0.19
46 13 0.19
47 23 0.33
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.44
Consensus pattern (47 bp):
ATATAATTTAATAATGATATATAATTTCATAAAATTCTTGATAATAA
Found at i:10008575 original size:21 final size:21
Alignment explanation
Indices: 10008508--10008576 Score: 66
Period size: 21 Copynumber: 3.3 Consensus size: 21
10008498 AAGCAGAGGA
* * *
10008508 GACATGATCGTGTGGCTGAAA
1 GACATGACCGTGTAGCTGAAG
* * *
10008529 GACACGCCCGTGTAACTGAAG
1 GACATGACCGTGTAGCTGAAG
* *
10008550 CACATGACCGTGTAGCTGAGG
1 GACATGACCGTGTAGCTGAAG
10008571 GACATG
1 GACATG
10008577 CCTATGTGCG
Statistics
Matches: 36, Mismatches: 12, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.28, C:0.22, G:0.32, T:0.19
Consensus pattern (21 bp):
GACATGACCGTGTAGCTGAAG
Found at i:10021636 original size:21 final size:21
Alignment explanation
Indices: 10021583--10021639 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
10021573 TAGCTTTCAC
*
10021583 GAGCTTCTGTTTAACTCATAT
1 GAGCTTCTGTTCAACTCATAT
* * *
10021604 GAGTTTCCGTTCAGCTC-TATT
1 GAGCTTCTGTTCAACTCATA-T
10021625 GAGCTTCTGTTCAAC
1 GAGCTTCTGTTCAAC
10021640 CCTTATGGGT
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
20 2 0.07
21 26 0.93
ACGTcount: A:0.19, C:0.23, G:0.18, T:0.40
Consensus pattern (21 bp):
GAGCTTCTGTTCAACTCATAT
Found at i:10021685 original size:21 final size:21
Alignment explanation
Indices: 10021625--10021685 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 21
10021615 CAGCTCTATT
* *
10021625 GAGCTTCTGTTCAACCCTTAT
1 GAGCTTCCGTTCAACCCTTAC
* * * *
10021646 GGGTTTTCGTCCAA-CCTTAC
1 GAGCTTCCGTTCAACCCTTAC
10021666 GAGCTTCCGTTCAACCCTTA
1 GAGCTTCCGTTCAACCCTTA
10021686 TGGGTTTCTG
Statistics
Matches: 29, Mismatches: 10, Indels: 2
0.71 0.24 0.05
Matches are distributed among these distances:
20 15 0.52
21 14 0.48
ACGTcount: A:0.18, C:0.31, G:0.16, T:0.34
Consensus pattern (21 bp):
GAGCTTCCGTTCAACCCTTAC
Found at i:10031076 original size:26 final size:26
Alignment explanation
Indices: 10031047--10031106 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
10031037 ATTTTTCTAG
*
10031047 AAATTTTACCAATGA-TAAAATCATCA
1 AAATTTTACC-ACGAGTAAAATCATCA
**
10031073 AAATTTTACCACGAGTAAAATTGTCA
1 AAATTTTACCACGAGTAAAATCATCA
10031099 AAATTTTA
1 AAATTTTA
10031107 TTAGGATAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
25 3 0.10
26 27 0.90
ACGTcount: A:0.47, C:0.13, G:0.07, T:0.33
Consensus pattern (26 bp):
AAATTTTACCACGAGTAAAATCATCA
Found at i:10041053 original size:26 final size:26
Alignment explanation
Indices: 10041024--10041080 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
10041014 CCGATATATA
*
10041024 GCTCTTCGTGAGCTTCCCAATTAAAG
1 GCTCTTCGTGACCTTCCCAATTAAAG
* ** *
10041050 GCTCTTTGTGACCTTCCTGATTAATG
1 GCTCTTCGTGACCTTCCCAATTAAAG
10041076 GCTCT
1 GCTCT
10041081 CCGAAGCTTC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.18, C:0.26, G:0.19, T:0.37
Consensus pattern (26 bp):
GCTCTTCGTGACCTTCCCAATTAAAG
Found at i:10041141 original size:73 final size:73
Alignment explanation
Indices: 10041059--10041196 Score: 192
Period size: 73 Copynumber: 1.9 Consensus size: 73
10041049 GGCTCTTTGT
* * *
10041059 GACCTTCCTGATTAATGGCTCTCC-GAAGCTTCTCGA-TA-TGGCTCGCTTGAGCTTCCTGATAT
1 GACCTTCCTGATTAATGGCTCTCCAG-AGCTAC-CCATTATTGGCTCGCATGAGCTTCCTGAT-T
10041121 ATGACTATCCA
63 ATGACTATCCA
*
10041132 GACCTTCCTGATTAATGGCTCTTCAGAGCTACCCATTATTGGCTCGCATGAGCTTCCTGATTATG
1 GACCTTCCTGATTAATGGCTCTCCAGAGCTACCCATTATTGGCTCGCATGAGCTTCCTGATTATG
10041197 GCTCTTATGA
Statistics
Matches: 58, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
72 2 0.03
73 34 0.59
74 22 0.38
ACGTcount: A:0.20, C:0.27, G:0.20, T:0.33
Consensus pattern (73 bp):
GACCTTCCTGATTAATGGCTCTCCAGAGCTACCCATTATTGGCTCGCATGAGCTTCCTGATTATG
ACTATCCA
Found at i:10042505 original size:42 final size:42
Alignment explanation
Indices: 10042459--10042542 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 42
10042449 TTTCGAATGC
*
10042459 CCACACGGCCTATGACACGGTTGTGTCTCTTCGTCATGTGAG
1 CCACACGGCCTATGACACGGGTGTGTCTCTTCGTCATGTGAG
* * *
10042501 CCACACGGCCTATTACACGGGTGTGTCTCTTTGTCGTGTGAG
1 CCACACGGCCTATGACACGGGTGTGTCTCTTCGTCATGTGAG
10042543 TCGCACAGCC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.15, C:0.27, G:0.27, T:0.30
Consensus pattern (42 bp):
CCACACGGCCTATGACACGGGTGTGTCTCTTCGTCATGTGAG
Found at i:10042554 original size:42 final size:42
Alignment explanation
Indices: 10042459--10042554 Score: 120
Period size: 42 Copynumber: 2.3 Consensus size: 42
10042449 TTTCGAATGC
* *
10042459 CCACACGGCCTATGACACGGTTGTGTCTCTTCGTCATGTGAG
1 CCACACAGCCTATGACACGGGTGTGTCTCTTCGTCATGTGAG
* * * *
10042501 CCACACGGCCTATTACACGGGTGTGTCTCTTTGTCGTGTGAG
1 CCACACAGCCTATGACACGGGTGTGTCTCTTCGTCATGTGAG
* *
10042543 TCGCACAGCCTA
1 CCACACAGCCTA
10042555 ACCACACGGG
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.17, C:0.29, G:0.26, T:0.28
Consensus pattern (42 bp):
CCACACAGCCTATGACACGGGTGTGTCTCTTCGTCATGTGAG
Found at i:10044337 original size:22 final size:22
Alignment explanation
Indices: 10044289--10044338 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
10044279 TACGTCAGTA
*
10044289 CTCTCTATTTAGCACATCTGTG
1 CTCTCTATATAGCACATCTGTG
* *
10044311 TTCTCTATATAGCA-ATTTAGTG
1 CTCTCTATATAGCACATCT-GTG
10044333 CTCTCT
1 CTCTCT
10044339 GTTCATTAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 3 0.13
22 20 0.87
ACGTcount: A:0.20, C:0.24, G:0.12, T:0.44
Consensus pattern (22 bp):
CTCTCTATATAGCACATCTGTG
Found at i:10050190 original size:8 final size:8
Alignment explanation
Indices: 10050179--10050210 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
10050169 TATGTTATTA
10050179 TATTATAT
1 TATTATAT
10050187 TATTATAT
1 TATTATAT
10050195 TATTATAT
1 TATTATAT
10050203 TATTATAT
1 TATTATAT
10050211 ATATAACAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATTATAT
Found at i:10050875 original size:22 final size:22
Alignment explanation
Indices: 10050850--10050916 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 22
10050840 TATCTGATTA
*
10050850 TTAGCACGTCAGTGCTCTCTGT
1 TTAGCACATCAGTGCTCTCTGT
* *
10050872 TTAGCACATCTGTGTTCTCTGT
1 TTAGCACATCAGTGCTCTCTGT
* * *
10050894 ATAGCACTTTAGTGCTCTCTGT
1 TTAGCACATCAGTGCTCTCTGT
10050916 T
1 T
10050917 CATTAGTGCA
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.15, C:0.24, G:0.19, T:0.42
Consensus pattern (22 bp):
TTAGCACATCAGTGCTCTCTGT
Found at i:10052947 original size:28 final size:27
Alignment explanation
Indices: 10052915--10052974 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 27
10052905 CAGGCATAGT
*
10052915 ATCAGGT-GAGCCTTAGCCCATTAACAGA
1 ATCAGGTGGA-CCTAAGCCCATT-ACAGA
10052943 ATCAGGTGGACCTAAGCCCATTACAGA
1 ATCAGGTGGACCTAAGCCCATTACAGA
10052970 ATCAG
1 ATCAG
10052975 TATCAGATGC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 10 0.33
28 18 0.60
29 2 0.07
ACGTcount: A:0.33, C:0.25, G:0.22, T:0.20
Consensus pattern (27 bp):
ATCAGGTGGACCTAAGCCCATTACAGA
Found at i:10053465 original size:27 final size:27
Alignment explanation
Indices: 10053435--10053527 Score: 109
Period size: 27 Copynumber: 3.4 Consensus size: 27
10053425 CCCATGGGGA
* *
10053435 TATTTTAGTTATTTTCCCTTTC-AGAGG
1 TATTTTGGTAATTTTCCCTTTCGAG-GG
*
10053462 TATTTCGGTAATTTTACCC-TTCGAGGG
1 TATTTTGGTAATTTT-CCCTTTCGAGGG
*
10053489 TATTTTGGTAATTTTACCTTTCGAGGG
1 TATTTTGGTAATTTTCCCTTTCGAGGG
*
10053516 TATTTCGGTAAT
1 TATTTTGGTAAT
10053528 GTAACAACTT
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
26 2 0.04
27 50 0.88
28 5 0.09
ACGTcount: A:0.19, C:0.14, G:0.19, T:0.47
Consensus pattern (27 bp):
TATTTTGGTAATTTTCCCTTTCGAGGG
Found at i:10055710 original size:25 final size:25
Alignment explanation
Indices: 10055682--10055730 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
10055672 CGTTACATAC
*
10055682 ATGGTGACGCAAACCCACATCATGA
1 ATGGTGACACAAACCCACATCATGA
* *
10055707 ATGGTGATACGAACCCACATCATG
1 ATGGTGACACAAACCCACATCATG
10055731 CGATCCATAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.27, G:0.20, T:0.18
Consensus pattern (25 bp):
ATGGTGACACAAACCCACATCATGA
Found at i:10058227 original size:16 final size:16
Alignment explanation
Indices: 10058193--10058239 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
10058183 ACATTATAAA
*
10058193 AATA-TAAAGATTAAAT
1 AATATTAAAAATT-AAT
*
10058209 AATGTTAAAAATTAAT
1 AATATTAAAAATTAAT
*
10058225 AATATTAAATATTAA
1 AATATTAAAAATTAA
10058240 AGTATAAAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
16 19 0.73
17 7 0.27
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (16 bp):
AATATTAAAAATTAAT
Found at i:10058262 original size:7 final size:7
Alignment explanation
Indices: 10058225--10058288 Score: 50
Period size: 7 Copynumber: 9.7 Consensus size: 7
10058215 AAAAATTAAT
10058225 AATATTA
1 AATATTA
10058232 AATATTA
1 AATATTA
10058239 AAGTA-TA
1 AA-TATTA
*
10058246 AAGATTA
1 AATATTA
*
10058253 AATATCA
1 AATATTA
10058260 AAT-TTA
1 AATATTA
10058266 AACTA--A
1 AA-TATTA
10058272 AAT-TTA
1 AATATTA
10058278 AAT-TTA
1 AATATTA
10058284 AATAT
1 AATAT
10058289 ATATTAAAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
5 1 0.02
6 18 0.39
7 25 0.54
8 2 0.04
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (7 bp):
AATATTA
Found at i:10059181 original size:19 final size:19
Alignment explanation
Indices: 10059157--10059213 Score: 105
Period size: 19 Copynumber: 3.0 Consensus size: 19
10059147 GGTCCTGAAA
*
10059157 ACCTTGCGAGTTGAGGATC
1 ACCTTGCGAGTTGGGGATC
10059176 ACCTTGCGAGTTGGGGATC
1 ACCTTGCGAGTTGGGGATC
10059195 ACCTTGCGAGTTGGGGATC
1 ACCTTGCGAGTTGGGGATC
10059214 TAGGATGTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 37 1.00
ACGTcount: A:0.18, C:0.21, G:0.35, T:0.26
Consensus pattern (19 bp):
ACCTTGCGAGTTGGGGATC
Found at i:10068999 original size:331 final size:328
Alignment explanation
Indices: 10068354--10069013 Score: 817
Period size: 331 Copynumber: 2.0 Consensus size: 328
10068344 CATCTGCTTC
* *
10068354 AGCTTCCTTTAGCTTTGTCTCTTCTGGTTCCACTGCAGCCAGTGCAGATTCCCTGTCAGCAGCAT
1 AGCTTCCTTTAGCTTTGTCTCTTCTGATTCCACTGCAGCCAGTGCAGATTCCCGGTCAGCAGCAT
* * *
10068419 CGATACTTTCTTCTACTAAGGTTTTCTCTTCAGCATCCTTGTTCAATTCCTCAAGCTCAGATGAA
66 CGATACTTCCTTCTACTAAGGTTCTCTCTTCAGCATCCTTGTTCAAGTCCTCAAGCTCAGATGAA
* * * *
10068484 GAGCTTGCCTGTAAAAAGATTGGATGTGCAAGTTAGCAACTAACAATGGTCAAAAAGAACACATT
131 GAGCTTGCCTGTAAAAACATTGAATGTGCAAGTTAGCAACTAACAATGGTAAAAAAGAACAAATT
* * * *
10068549 TTTGGACCCAAATCGACTTTCATTTATATTAGCTGACCTTTTCTGTTACCTTCAATGGGGTGCTT
196 TTTGGACCCAAATCAACTTTCATTTATATTAGCTGACATTTTCTGTTAACTTCAATGGGATGCTT
* * *
10068614 TCATCTTCCTTTGTGCTTTCCTTCACAGTTTCATCACTAATCATTGAGCTCGAGATGTCAGATAT
261 TCATCTTCCTCTGTGCTTTCCTTCACAGTTTCATCACCAATCATTGAACTCGAGATGTCAGATAT
10068679 AGG
326 AGG
** * * * *
10068682 AGCTTCCTTTAGCTTTGTCTCTTCTGATTCTGCTGCAGCCGGTGCCGATTCCGGGTCAGCAGTAT
1 AGCTTCCTTTAGCTTTGTCTCTTCTGATTCCACTGCAGCCAGTGCAGATTCCCGGTCAGCAGCAT
* * ** * * **
10068747 CGATACTTCCTTCTACTAAGGTTCTCTCTTCAGTATCCTTTTTTGAGTCTTGAATTTCTA-ATGA
66 CGATACTTCCTTCTACTAAGGTTCTCTCTTCAGCATCCTTGTTCAAGTCCTCAAGCTC-AGATGA
* ** * *
10068811 AG-GACTTGCCTGT-AAATCATTGAATGTTTAAGTTAGCAATTAACAATGGTAAAAAAAAATTAA
130 AGAG-CTTGCCTGTAAAAACATTGAATGTGCAAGTTAGCAACTAACAATGGT---AAAAAA-GAA
* * *
10068874 CAAATTTTTGGGCCCAAATCAATTTTCATTTGTATTAGCTGACATTTTCTGTTAACTTCAATGGG
190 CAAATTTTTGGACCCAAATCAACTTTCATTTATATTAGCTGACATTTTCTGTTAACTTCAATGGG
* * * * *
10068939 ATGCTTTCATTTTCCTCTGTGCTTTCTTTCA-TGATTTCATCGCCAGTCGA-TGAACTCGAGATG
255 ATGCTTTCATCTTCCTCTGTGCTTTCCTTCACAG-TTTCATCACCAATC-ATTGAACTCGAGATG
*
10069002 TCAGCTATAGG
318 TCAGATATAGG
10069013 A
1 A
10069014 TGTTCCTCCA
Statistics
Matches: 280, Mismatches: 44, Indels: 13
0.83 0.13 0.04
Matches are distributed among these distances:
327 32 0.11
328 119 0.43
329 1 0.00
330 6 0.02
331 121 0.43
332 1 0.00
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (328 bp):
AGCTTCCTTTAGCTTTGTCTCTTCTGATTCCACTGCAGCCAGTGCAGATTCCCGGTCAGCAGCAT
CGATACTTCCTTCTACTAAGGTTCTCTCTTCAGCATCCTTGTTCAAGTCCTCAAGCTCAGATGAA
GAGCTTGCCTGTAAAAACATTGAATGTGCAAGTTAGCAACTAACAATGGTAAAAAAGAACAAATT
TTTGGACCCAAATCAACTTTCATTTATATTAGCTGACATTTTCTGTTAACTTCAATGGGATGCTT
TCATCTTCCTCTGTGCTTTCCTTCACAGTTTCATCACCAATCATTGAACTCGAGATGTCAGATAT
AGG
Found at i:10072103 original size:16 final size:16
Alignment explanation
Indices: 10072084--10072114 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10072074 ATATTAACAT
*
10072084 TATTTAATTTTAAAGA
1 TATTTAATATTAAAGA
10072100 TATTTAATATTAAAG
1 TATTTAATATTAAAG
10072115 TAATACAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (16 bp):
TATTTAATATTAAAGA
Found at i:10075425 original size:22 final size:22
Alignment explanation
Indices: 10075397--10075440 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
10075387 GTATCTAAGT
*
10075397 TAATAATTGAATTAATG-AATTA
1 TAATAATT-AAATAATGCAATTA
10075419 TAATAATTAAATAATGCAATTA
1 TAATAATTAAATAATGCAATTA
10075441 AAGTAGTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.39
Consensus pattern (22 bp):
TAATAATTAAATAATGCAATTA
Found at i:10077815 original size:13 final size:13
Alignment explanation
Indices: 10077797--10077826 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
10077787 AGACTAGATT
*
10077797 TTAACTAAGTAAA
1 TTAACTAAGAAAA
10077810 TTAACTAAGAAAA
1 TTAACTAAGAAAA
10077823 TTAA
1 TTAA
10077827 AAGATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.30
Consensus pattern (13 bp):
TTAACTAAGAAAA
Found at i:10078181 original size:105 final size:105
Alignment explanation
Indices: 10077999--10078208 Score: 411
Period size: 105 Copynumber: 2.0 Consensus size: 105
10077989 AACATATTAC
10077999 TATGCCAATTCAAACAATTAATCAAATTTAATAAACAAGTAAAAGATTAAGTGAAGTAACAACAT
1 TATGCCAATTCAAACAATTAATCAAATTTAATAAACAAGTAAAAGATTAAGTGAAGTAACAACAT
10078064 ATTCCTACATCGAAATAGTTTAACCACAATAATCTTGCAA
66 ATTCCTACATCGAAATAGTTTAACCACAATAATCTTGCAA
*
10078104 TATGCCAATTCAAACAATTAATCAAATTTAATAAGCAAGTAAAAGATTAAGTGAAGTAACAACAT
1 TATGCCAATTCAAACAATTAATCAAATTTAATAAACAAGTAAAAGATTAAGTGAAGTAACAACAT
10078169 ATTCCTACATCGAAATAGTTTAACCACAATAATCTTGCAA
66 ATTCCTACATCGAAATAGTTTAACCACAATAATCTTGCAA
10078209 GTTATGCAAG
Statistics
Matches: 104, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
105 104 1.00
ACGTcount: A:0.47, C:0.16, G:0.09, T:0.28
Consensus pattern (105 bp):
TATGCCAATTCAAACAATTAATCAAATTTAATAAACAAGTAAAAGATTAAGTGAAGTAACAACAT
ATTCCTACATCGAAATAGTTTAACCACAATAATCTTGCAA
Found at i:10079204 original size:16 final size:17
Alignment explanation
Indices: 10079183--10079215 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10079173 AAAAATTAAA
*
10079183 ATTAAT-TTTATTATTT
1 ATTAATATTTATAATTT
10079199 ATTAATATTTATAATTT
1 ATTAATATTTATAATTT
10079216 GGACTATACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
ATTAATATTTATAATTT
Found at i:10079393 original size:22 final size:22
Alignment explanation
Indices: 10079341--10079390 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
10079331 AAAATAAATC
* * * *
10079341 AAAATTTATGAAAATTTATTAT
1 AAAATTAATCAAAATTAAATAT
10079363 AAAATTAATCAAAATTAAATAT
1 AAAATTAATCAAAATTAAATAT
10079385 ATAAAT
1 A-AAAT
10079391 AATTTAAGTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (22 bp):
AAAATTAATCAAAATTAAATAT
Found at i:10081513 original size:19 final size:20
Alignment explanation
Indices: 10081479--10081516 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
10081469 AATAATTTTT
*
10081479 AATTTAATTATTAAATATAA
1 AATTTAATTATAAAATATAA
10081499 AATTT-ATTATAAAATATA
1 AATTTAATTATAAAATATA
10081517 TTTATTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
AATTTAATTATAAAATATAA
Found at i:10081729 original size:19 final size:18
Alignment explanation
Indices: 10081696--10081733 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
10081686 CATATTTAAA
10081696 ATAAAATTTTATTTATTT
1 ATAAAATTTTATTTATTT
*
10081714 ATAAATTTTATATTTATTT
1 ATAAAATTT-TATTTATTT
10081733 A
1 A
10081734 ATTAAAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
ATAAAATTTTATTTATTT
Found at i:10081746 original size:23 final size:23
Alignment explanation
Indices: 10081703--10081746 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
10081693 AAAATAAAAT
* *
10081703 TTTATTTATTTATAAATTTTATA
1 TTTATTTAATTATAAAATTTATA
10081726 TTTATTTAATTA-AAACATTTA
1 TTTATTTAATTATAAA-ATTTA
10081747 CTTATAAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 3 0.17
23 15 0.83
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (23 bp):
TTTATTTAATTATAAAATTTATA
Found at i:10085145 original size:42 final size:42
Alignment explanation
Indices: 10085076--10085168 Score: 98
Period size: 42 Copynumber: 2.2 Consensus size: 42
10085066 CGGTATATTT
* **
10085076 GATGATGCACTTATGTGCCAGTATGATTAC-TCAAATTTATCC
1 GATGATGCAATTACATGCCAGTATGATTACTTC-AATTTATCC
* * * * *
10085118 GATGATGCAATTACATGTCAGTGTGATTGCTTCGATTTATCT
1 GATGATGCAATTACATGCCAGTATGATTACTTCAATTTATCC
10085160 GATGATGCA
1 GATGATGCA
10085169 CTACGTGTAC
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
42 40 0.95
43 2 0.05
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (42 bp):
GATGATGCAATTACATGCCAGTATGATTACTTCAATTTATCC
Found at i:10094675 original size:25 final size:25
Alignment explanation
Indices: 10094646--10094702 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
10094636 ACTATTAAAT
*
10094646 AGAGAGCACTAATGTGCTAATAATC
1 AGAGAGCACTAATATGCTAATAATC
*
10094671 GGAGAGCACTAATATGCTAATAATC
1 AGAGAGCACTAATATGCTAATAATC
10094696 AGAGAGC
1 AGAGAGC
10094703 GCGCTAAGGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.40, C:0.16, G:0.23, T:0.21
Consensus pattern (25 bp):
AGAGAGCACTAATATGCTAATAATC
Found at i:10097980 original size:13 final size:13
Alignment explanation
Indices: 10097962--10097986 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10097952 ATATCAACAA
10097962 TTTCCATATCATC
1 TTTCCATATCATC
10097975 TTTCCATATCAT
1 TTTCCATATCAT
10097987 AGATCACTTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.28, G:0.00, T:0.48
Consensus pattern (13 bp):
TTTCCATATCATC
Found at i:10104942 original size:22 final size:22
Alignment explanation
Indices: 10104914--10104973 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
10104904 TAATGAATAG
10104914 AGAGCACTGAAGTGCT-ATACAA
1 AGAGCACTGAAGTGCTAAT-CAA
* * *
10104936 AGAGCACAGATGTGCTAATCAG
1 AGAGCACTGAAGTGCTAATCAA
10104958 AGAGCACT-AAGTGCTA
1 AGAGCACTGAAGTGCTA
10104974 GTAATCAGAG
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
21 7 0.22
22 23 0.72
23 2 0.06
ACGTcount: A:0.38, C:0.18, G:0.25, T:0.18
Consensus pattern (22 bp):
AGAGCACTGAAGTGCTAATCAA
Found at i:10104981 original size:24 final size:25
Alignment explanation
Indices: 10104951--10105033 Score: 123
Period size: 25 Copynumber: 3.4 Consensus size: 25
10104941 ACAGATGTGC
* *
10104951 TAATCAGAGAGCACTAA-GTGCTAG
1 TAATCAGAGAGCACCAACGTGCTAA
*
10104975 TAATCAGAGAGCACCAATGTGCTAA
1 TAATCAGAGAGCACCAACGTGCTAA
*
10105000 TAATCAAAGAGCACCAACGTGCTAA
1 TAATCAGAGAGCACCAACGTGCTAA
10105025 TAATCAGAG
1 TAATCAGAG
10105034 CGCGCGCTAA
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
24 16 0.30
25 37 0.70
ACGTcount: A:0.41, C:0.19, G:0.20, T:0.19
Consensus pattern (25 bp):
TAATCAGAGAGCACCAACGTGCTAA
Found at i:10104995 original size:46 final size:46
Alignment explanation
Indices: 10104912--10105033 Score: 126
Period size: 49 Copynumber: 2.6 Consensus size: 46
10104902 ACTAATGAAT
*
10104912 AGAGAGCACTGAAGTGCTAT-A-CAAAGAGCACAGATGTGC-TAATC
1 AGAGAGCACT-AAGTGCTATAATCAGAGAGCACAGATGTGCATAATC
10104956 AGAGAGCACTAAGTGCTAGTAATCAGAGAGCACCA-ATGTGCTAATAATC
1 AGAGAGCACTAAGTGCTA-TAATCAGAGAGCA-CAGATGTGC--ATAATC
* *
10105005 AAAGAGCACCAACGTGCTAATAATCAGAG
1 AGAGAGCACTAA-GTGCT-ATAATCAGAG
10105034 CGCGCGCTAA
Statistics
Matches: 66, Mismatches: 3, Indels: 12
0.81 0.04 0.15
Matches are distributed among these distances:
43 8 0.12
44 11 0.17
45 1 0.02
46 14 0.21
47 2 0.03
49 15 0.23
50 14 0.21
51 1 0.02
ACGTcount: A:0.40, C:0.19, G:0.23, T:0.18
Consensus pattern (46 bp):
AGAGAGCACTAAGTGCTATAATCAGAGAGCACAGATGTGCATAATC
Found at i:10117122 original size:27 final size:29
Alignment explanation
Indices: 10117092--10117149 Score: 77
Period size: 27 Copynumber: 2.1 Consensus size: 29
10117082 TTTAAAAATA
10117092 TTTAAA-AATATATAA-TTTTAT-ATATTT
1 TTTAAATAAT-TATAATTTTTATAATATTT
*
10117119 TTTAAATAATTTTAATTTTTATAATATTT
1 TTTAAATAATTATAATTTTTATAATATTT
10117148 TT
1 TT
10117150 GAATTTTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
27 10 0.37
28 9 0.33
29 8 0.30
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (29 bp):
TTTAAATAATTATAATTTTTATAATATTT
Found at i:10117139 original size:17 final size:18
Alignment explanation
Indices: 10117117--10117160 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
10117107 TTTTATATAT
10117117 TTTTTAAATAATTTT-AA
1 TTTTTAAATAATTTTGAA
*
10117134 TTTTTATAATATTTTTGAA
1 TTTTTA-AATAATTTTGAA
10117153 TTTTTAAA
1 TTTTTAAA
10117161 ATTTTAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 6 0.25
18 10 0.42
19 8 0.33
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (18 bp):
TTTTTAAATAATTTTGAA
Found at i:10117164 original size:17 final size:17
Alignment explanation
Indices: 10117117--10117165 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 17
10117107 TTTTATATAT
*
10117117 TTTTTAAATAATTTTAA
1 TTTTTAAATATTTTTAA
10117134 TTTTTATAATATTTTTGAA
1 TTTTTA-AATATTTTT-AA
10117153 TTTTTAAA-ATTTT
1 TTTTTAAATATTTT
10117166 AAAAAACTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 11 0.38
18 10 0.34
19 8 0.28
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (17 bp):
TTTTTAAATATTTTTAA
Found at i:10137966 original size:58 final size:58
Alignment explanation
Indices: 10137876--10137986 Score: 222
Period size: 58 Copynumber: 1.9 Consensus size: 58
10137866 TACAATGTAT
10137876 AAAATTAATTGAATTTCAATTAATCATGATTATCTACAAGCATTAGTCAACATATGAG
1 AAAATTAATTGAATTTCAATTAATCATGATTATCTACAAGCATTAGTCAACATATGAG
10137934 AAAATTAATTGAATTTCAATTAATCATGATTATCTACAAGCATTAGTCAACAT
1 AAAATTAATTGAATTTCAATTAATCATGATTATCTACAAGCATTAGTCAACAT
10137987 TAAGATTCTC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 53 1.00
ACGTcount: A:0.43, C:0.13, G:0.09, T:0.35
Consensus pattern (58 bp):
AAAATTAATTGAATTTCAATTAATCATGATTATCTACAAGCATTAGTCAACATATGAG
Found at i:10145051 original size:49 final size:51
Alignment explanation
Indices: 10144977--10145104 Score: 215
Period size: 49 Copynumber: 2.5 Consensus size: 51
10144967 GACCATGGCA
*
10144977 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGA-AAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
10145027 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* *
10145077 ACAAGTGAAAAGTGGTAGCTTCGGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
10145105 CTGATCAGTG
Statistics
Matches: 73, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
49 43 0.59
50 6 0.08
51 24 0.33
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.25
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:10145118 original size:31 final size:31
Alignment explanation
Indices: 10145080--10145228 Score: 253
Period size: 31 Copynumber: 4.8 Consensus size: 31
10145070 ACAAATGACA
10145080 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
10145111 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
10145142 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
10145173 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
10145204 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
10145229 AAGTGACAAG
Statistics
Matches: 111, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 111 1.00
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:10145316 original size:47 final size:46
Alignment explanation
Indices: 10145246--10145410 Score: 169
Period size: 47 Copynumber: 3.7 Consensus size: 46
10145236 AAGTGATTTC
* *
10145246 CGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTA
1 CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * *
10145292 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATT
1 C-GTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * *
10145339 CGTGTAAGACCATAGCTGGGCTATGGCATC-----GATATATGAATA
1 CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATG-ATA
* * * *
10145381 TGTGTAAGACCATAGCTGGGCTATGGCATC
1 CGTATAAGACCATATCTGGGATATGGCATC
10145411 ATTATGTGAA
Statistics
Matches: 106, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
41 7 0.07
42 31 0.29
46 27 0.25
47 41 0.39
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (46 bp):
CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
Found at i:10145398 original size:42 final size:43
Alignment explanation
Indices: 10145340--10145454 Score: 171
Period size: 42 Copynumber: 2.7 Consensus size: 43
10145330 TATGTGATTC
*
10145340 GTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
*
10145382 GTGTAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
* **
10145424 GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA
10145455 GAAAACGAAG
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
41 1 0.02
42 64 0.97
43 1 0.02
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (43 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
Found at i:10159467 original size:88 final size:89
Alignment explanation
Indices: 10159332--10160173 Score: 837
Period size: 88 Copynumber: 9.6 Consensus size: 89
10159322 TCATTAAAGT
*** * * * * *
10159332 AGATCTTGTCTTCATGTATTAG-CGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATATT
1 AGATCTTGTCTTCCCATATTGGTCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCTATATT
10159396 GGTAG-GAAGTAGATCGAAGATGC
66 GGTAGCGAAGTAGATCGAAGATGC
* * * *
10159419 CGATCTTGTCTTCCCATATTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATT
1 AGATCTTGTCTTCCCATATTGGTCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCTATATT
* * *
10159484 GG-CGTGAAGTAGATCGAAGATATC
66 GGTAGCGAAGTAGATCGAAGAT-GC
* * * * * * *
10159508 AGATCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAG-ATGCAGATCTTGTCTTCCCATATT
1 AGATCTTGTCTTCCCATATTGGTCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCTATATT
* *
10159571 GGTGGCGAAGTAGATCGAAGAAAGC
66 GGTAGCGAAGTAGATCGAAG-ATGC
*** * * * *
10159596 AGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATATT
1 AGATCTTGTCTTCCCATATTGGTCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCTATATT
* *
10159660 GGTAG-GAAGTGGATCGAAGATGT
66 GGTAGCGAAGTAGATCGAAGATGC
* *
10159683 AGATCTTGTCTTCCCATATTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCCATATT
1 AGATCTTGTCTTCCCATATTGGTCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCTATATT
* *
10159748 GGTGGCGAAGTAGATCGAAGAAAGC
66 GGTAGCGAAGTAGATCGAAG-ATGC
*** * * * * *
10159773 AGATCTTGTCTTCATGTATTAG-CGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATATT
1 AGATCTTGTCTTCCCATATTGGTCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCTATATT
*
10159837 GGTAG-GAAGTGGATCGAAGATGC
66 GGTAGCGAAGTAGATCGAAGATGC
* * * *
10159860 AGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCCATTTT
1 AGATCTTGTCTTCCCATATTGGTCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCTATATT
* *
10159925 GGTGGCGAAGTAGATCGAAGAAAGC
66 GGTAGCGAAGTAGATCGAAG-ATGC
**** * * * *
10159950 AGATCTTGTCTTCAGGCATTAG-CGTGAAGTAGATCGAAG-ATGCCGATCTTGTCTTCCCATATT
1 AGATCTTGTCTTCCCATATTGGTCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCTATATT
* * *
10160013 GGTGGTGAAGTAGATCGAAGAAAGC
66 GGTAGCGAAGTAGATCGAAG-ATGC
*** * * * ***
10160038 AGATCTTGTCTTCATGTATTGG-CGTGAAATAGATCGAAGATATCAGATCCAATCTTCCTATATT
1 AGATCTTGTCTTCCCATATTGGTCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCTATATT
* * *
10160102 GGTAG-GAAGTGGACCGACGATGC
66 GGTAGCGAAGTAGATCGAAGATGC
* * * *
10160125 AGATTTTGTCTTCCCATACTGGTGGTGAAGAAGATCGAAGAAAGCAGAT
1 AGATCTTGTCTTCCCATATTGGTCGTGAAGTAGATCGAAGAAAGCAGAT
10160174 TGACGATGGC
Statistics
Matches: 617, Mismatches: 123, Indels: 29
0.80 0.16 0.04
Matches are distributed among these distances:
87 103 0.17
88 329 0.53
89 145 0.24
90 40 0.06
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.30
Consensus pattern (89 bp):
AGATCTTGTCTTCCCATATTGGTCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCTATATT
GGTAGCGAAGTAGATCGAAGATGC
Found at i:10159569 original size:132 final size:133
Alignment explanation
Indices: 10159327--10160173 Score: 890
Period size: 132 Copynumber: 6.4 Consensus size: 133
10159317 TGAAGTCATT
* ** * * *
10159327 AAAGTAGATCTTGTCTTCATGTATTAG-CGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCT
1 AAAGCAGATCTTGTCTTCACATATTGGTCGTGAAGTAGATCGAAGAAAGCAGATCCTATCTTCCT
*
10159391 ATATTGGTAGGAAGTAGATCGAAGATGCCGATCTTGTCTTCCCATATTGGTGGTGAAGTAGATCG
66 ATATTGGTAGGAAGTAGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGTGAAGTAGATCG
10159456 AAG
131 AAG
** * *
10159459 AAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCT
1 AAAGCAGATCTTGTCTTCACATATTGGTCGTGAAGTAGATCGAAGAAAGCAGATCCTATCTTCCT
* *
10159523 ATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
66 ATATTGGTAGGAAGTAGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGTGAAGTAGATCG
10159588 AAG
131 AAG
** * *
10159591 AAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCT
1 AAAGCAGATCTTGTCTTCACATATTGGTCGTGAAGTAGATCGAAGAAAGCAGATCCTATCTTCCT
* *
10159655 ATATTGGTAGGAAGTGGATCGAAGATGTAGATCTTGTCTTCCCATATTGGTGGTGAAGTAGATCG
66 ATATTGGTAGGAAGTAGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGTGAAGTAGATCG
10159720 AAG
131 AAG
* * * * * *
10159723 AAAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCAT
1 AAAGCAGATCTTGTCTTCACATATTGGTCGTGAAGTAGATCGAAGAAAGCAGATCCTATCTTCCT
* * * * * * *
10159788 GTATTAGCGT--GAAGTAGATCGAAGATATCAGATCCTATCTTCCTATATTGGTAG-GAAGTGGA
66 ATATT-G-GTAGGAAGTAGATCGAAGAT-GCAGATCTTGTCTTCCCATATTGGTGGTGAAGTAGA
10159850 TCGAAG
128 TCGAAG
* * * * * * *
10159856 -ATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCC
1 AAAGCAGATCTTGTCTTCACATATTGGTCGTGAAGTAGATCGAAGAAAGCAGATCCTATCTTCCT
* * * **** * *
10159920 ATTTTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCAGGCATTAG-CGTGAAGTAGAT
66 ATATTGGTAG-GAAGTAGATCGAAG-ATGCAGATCTTGTCTTCCCATATTGGTGGTGAAGTAGAT
10159984 CGAAG
129 CGAAG
* * * * * * *
10159989 -ATGCCGATCTTGTCTTCCCATATTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCAT
1 AAAGCAGATCTTGTCTTCACATATTGGTCGTGAAGTAGATCGAAGAAAGCAGATCCTATCTTCCT
* * * * *** * * * *
10160053 GTATTGG-CGTGAAATAGATCGAAGATATCAGATCCAATCTTCCTATATTGGTAG-GAAGTGGAC
66 ATATTGGTAG-GAAGTAGATCGAAGAT-GCAGATCTTGTCTTCCCATATTGGTGGTGAAGTAGAT
*
10160116 CGACG
129 CGAAG
* * * * * *
10160121 -ATGCAGATTTTGTCTTCCCATACTGGTGGTGAAGAAGATCGAAGAAAGCAGAT
1 AAAGCAGATCTTGTCTTCACATATTGGTCGTGAAGTAGATCGAAGAAAGCAGAT
10160174 TGACGATGGC
Statistics
Matches: 635, Mismatches: 69, Indels: 22
0.87 0.10 0.03
Matches are distributed among these distances:
130 2 0.00
131 2 0.00
132 435 0.69
133 171 0.27
134 23 0.04
135 2 0.00
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.30
Consensus pattern (133 bp):
AAAGCAGATCTTGTCTTCACATATTGGTCGTGAAGTAGATCGAAGAAAGCAGATCCTATCTTCCT
ATATTGGTAGGAAGTAGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGTGAAGTAGATCG
AAG
Found at i:10159762 original size:177 final size:178
Alignment explanation
Indices: 10159355--10160104 Score: 933
Period size: 177 Copynumber: 4.2 Consensus size: 178
10159345 ATGTATTAGC
* * * * * * *
10159355 GTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATATTGGTAG-GAAGTAGATCGAAG-ATG
1 GTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAG
* *** * * * * * * *
10159418 CCGATCTTGTCTTCCCATATTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTAT
66 CAGATCTTGTCTTCATGTATTAG-CGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATAT
* * * * * *
10159483 TGG-CGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATATTGGTA
130 TGGTAGTGAAGTAGATCGAAGAT-GCAGATCTTGTCTTCCCATATTGGTG
* *
10159532 G-GAAGTGGATCGAAG-ATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAG
1 GTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAG
* *
10159595 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATATT
66 CAGATCTTGTCTTCATGTATTAGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATT
* *
10159660 GGTAG-GAAGTGGATCGAAGATGTAGATCTTGTCTTCCCATATTGGTG
131 GGTAGTGAAGTAGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTG
10159707 GTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAG
1 GTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAG
*
10159772 CAGATCTTGTCTTCATGTATTAGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATATT
66 CAGATCTTGTCTTCATGTATTAGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATT
*
10159837 GGTAG-GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTG
131 GGTAGTGAAGTAGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTG
* *
10159884 GCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCCATTTTGGTGGCGAAGTAGATCGAAGAAAG
1 GTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAG
* * * * * *
10159949 CAGATCTTGTCTTCAGGCATTAGCGTGAAGTAGATCGAAGAT-GCCGATCTTGTCTTCCCATATT
66 CAGATCTTGTCTTCATGTATTAGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATT
* * *** *
10160013 GGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG-C
131 GGTAGTGAAGTAGATCGAAG-ATGCAGATCTTGTCTTCCCATATTGGTG
* * * *** *
10160061 GTGAAATAGATCGAAGATATCAGATCCAATCTTCCTATATTGGT
1 GTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCCATATTGGT
10160105 AGGAAGTGGA
Statistics
Matches: 509, Mismatches: 57, Indels: 14
0.88 0.10 0.02
Matches are distributed among these distances:
175 43 0.08
176 113 0.22
177 331 0.65
178 22 0.04
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.30
Consensus pattern (178 bp):
GTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAG
CAGATCTTGTCTTCATGTATTAGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATT
GGTAGTGAAGTAGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTG
Found at i:10161996 original size:17 final size:17
Alignment explanation
Indices: 10161974--10162008 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
10161964 TTTATTACTA
10161974 TTTTT-ATTATATACACT
1 TTTTTAATT-TATACACT
10161991 TTTTTAATTTATACACT
1 TTTTTAATTTATACACT
10162008 T
1 T
10162009 GTACCCATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.82
18 3 0.18
ACGTcount: A:0.29, C:0.11, G:0.00, T:0.60
Consensus pattern (17 bp):
TTTTTAATTTATACACT
Found at i:10163479 original size:19 final size:19
Alignment explanation
Indices: 10163455--10163494 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
10163445 ATTAATTTTG
10163455 ATCAAATAAAATT-AAATTA
1 ATCAAAT-AAATTAAAATTA
*
10163474 ATCAAATTAATTAAAATTA
1 ATCAAATAAATTAAAATTA
10163493 AT
1 AT
10163495 ATGATATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (19 bp):
ATCAAATAAATTAAAATTA
Found at i:10175625 original size:4 final size:4
Alignment explanation
Indices: 10175616--10175642 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
10175606 TTATGATTTT
10175616 TTAA TTAA TTAA TTAA TTAA TTAA TTA
1 TTAA TTAA TTAA TTAA TTAA TTAA TTA
10175643 TTGGTTCAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TTAA
Found at i:10185643 original size:14 final size:14
Alignment explanation
Indices: 10185624--10185655 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
10185614 AGGTCATTTA
10185624 GCCCAACCAAACTG
1 GCCCAACCAAACTG
10185638 GCCCAACCAAACTG
1 GCCCAACCAAACTG
10185652 GCCC
1 GCCC
10185656 GGTGATTAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.47, G:0.16, T:0.06
Consensus pattern (14 bp):
GCCCAACCAAACTG
Found at i:10188770 original size:20 final size:21
Alignment explanation
Indices: 10188719--10188775 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 21
10188709 AATTCGATGA
*
10188719 TCGACGGTGGTTGACAGCGTT
1 TCGACGGTGGTTGACAACGTT
**
10188740 TCGACTATGGTTGACAACG-T
1 TCGACGGTGGTTGACAACGTT
* *
10188760 TCGGCGGTGGTCGACA
1 TCGACGGTGGTTGACA
10188776 GTGATCGATG
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
20 13 0.45
21 16 0.55
ACGTcount: A:0.18, C:0.21, G:0.35, T:0.26
Consensus pattern (21 bp):
TCGACGGTGGTTGACAACGTT
Found at i:10188802 original size:22 final size:22
Alignment explanation
Indices: 10188776--10188822 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
10188766 GTGGTCGACA
* *
10188776 GTGATCGATGGTGGAACTTGCG
1 GTGATCGACGGTGGAAATTGCG
* *
10188798 GTGATCGGCGGTGGAAATTGTG
1 GTGATCGACGGTGGAAATTGCG
10188820 GTG
1 GTG
10188823 TTGGGACAGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.17, C:0.11, G:0.45, T:0.28
Consensus pattern (22 bp):
GTGATCGACGGTGGAAATTGCG
Found at i:10189343 original size:90 final size:90
Alignment explanation
Indices: 10189181--10189349 Score: 243
Period size: 90 Copynumber: 1.9 Consensus size: 90
10189171 TTTATTTAAA
10189181 TTAAGTAAAAATAAGAAATTCAATTAAATTTTAACTTAATATATAATTATTAAGTTAAACTTTAA
1 TTAAGTAAAAATAAGAAATTCAATTAAATTTTAACTTAATATATAATTATTAAGTTAAACTTTAA
*
10189246 TTGTTTAATTTTTAAATTGATTTTT
66 TTATTTAATTTTTAAATTGATTTTT
* * * * * *
10189271 TTAATTAAAATTAAGAAATTCAATT-AATTTTTAGTTTATACTTTAATTATTAAGTTAAACTTT-
1 TTAAGTAAAAATAAGAAATTCAATTAAATTTTAACTTAATA-TATAATTATTAAGTTAAACTTTA
10189334 ATGTATTTAATTTTTA
65 AT-TATTTAATTTTTA
10189350 TTTTTGAATT
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
89 14 0.20
90 56 0.80
ACGTcount: A:0.41, C:0.04, G:0.05, T:0.50
Consensus pattern (90 bp):
TTAAGTAAAAATAAGAAATTCAATTAAATTTTAACTTAATATATAATTATTAAGTTAAACTTTAA
TTATTTAATTTTTAAATTGATTTTT
Found at i:10191424 original size:104 final size:104
Alignment explanation
Indices: 10191286--10191518 Score: 387
Period size: 104 Copynumber: 2.2 Consensus size: 104
10191276 TTACATATAA
** * *
10191286 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGTTGATTCCACCGTATTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGAGTCCACCGTATTT
10191351 TTAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCCG
66 TTAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCCG
* *
10191390 AGGGGTTGCTAAGTGCTGATTCCCCTACTT-ATTGGTGGTTGCTATGTGCTGAGTCCACCGTATT
1 AGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTTGCTAAGTGCTGAGTCCACCGTATT
10191454 TTTAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCCG
65 TTTAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCCG
*
10191494 AGGGGTTGCTAAGTGTTGATTCCCC
1 AGGGGTTGCTAAGTGCTGATTCCCC
10191519 CAAGGGGTTG
Statistics
Matches: 121, Mismatches: 7, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 119 0.98
105 2 0.02
ACGTcount: A:0.18, C:0.19, G:0.30, T:0.34
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGAGTCCACCGTATTT
TTAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCCG
Found at i:10191505 original size:27 final size:27
Alignment explanation
Indices: 10191468--10191545 Score: 120
Period size: 27 Copynumber: 2.9 Consensus size: 27
10191458 AATGTGAAAG
*
10191468 GGGGTTGCTAAGTGCTGATTCCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCCAA
*
10191495 GGGGTTGCTAAGTGTTGATTCCCCCAA
1 GGGGTTGCTAAGTGCTGATTCCCCCAA
**
10191522 GGGGTTGCTGTGTGCTGATTCCCC
1 GGGGTTGCTAAGTGCTGATTCCCC
10191546 AATTCAGTGG
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.13, C:0.24, G:0.33, T:0.29
Consensus pattern (27 bp):
GGGGTTGCTAAGTGCTGATTCCCCCAA
Found at i:10201156 original size:15 final size:15
Alignment explanation
Indices: 10201138--10201166 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
10201128 AATATATTAT
10201138 AAAATATTTTTAAAA
1 AAAATATTTTTAAAA
10201153 AAAATATTTTTAAA
1 AAAATATTTTTAAA
10201167 TATGCATTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
AAAATATTTTTAAAA
Found at i:10201807 original size:22 final size:22
Alignment explanation
Indices: 10201782--10201825 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
10201772 AACATTTATT
*
10201782 TTTA-TATCATAATAAATTAAAA
1 TTTATTAT-ATAATAAATAAAAA
*
10201804 TTTATTATATATTAAATAAAAA
1 TTTATTATATAATAAATAAAAA
10201826 ATAGAATTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
TTTATTATATAATAAATAAAAA
Found at i:10202875 original size:20 final size:20
Alignment explanation
Indices: 10202826--10202875 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 20
10202816 TATTCTAAGT
10202826 ATTAACAAATATTTTTTATTA
1 ATTAA-AAATATTTTTTATTA
**
10202847 A-TATTAATATATTTTTA-TA
1 ATTAAAAATAT-TTTTTATTA
10202866 ATTAAAAATA
1 ATTAAAAATA
10202876 AATATTTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 5
0.72 0.12 0.16
Matches are distributed among these distances:
19 8 0.35
20 14 0.61
21 1 0.04
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (20 bp):
ATTAAAAATATTTTTTATTA
Found at i:10213128 original size:29 final size:30
Alignment explanation
Indices: 10213095--10213196 Score: 92
Period size: 31 Copynumber: 3.4 Consensus size: 30
10213085 GCCCGAATAA
10213095 TAAATATA-TTTTTTT--ATTTTTTTAATTT
1 TAAA-ATACTTTTTTTAAATTTTTTTAATTT
10213123 TAAAATACTTTTTTTAAAATTTTTTTAATTT
1 TAAAATACTTTTTTT-AAATTTTTTTAATTT
*
10213154 T-AAAT--TTTTTTAAAAATACTTTTTTTAATTT
1 TAAAATACTTTTTT--TAA-A-TTTTTTTAATTT
10213185 TAAAATA-TTTTT
1 TAAAATACTTTTT
10213197 AAAATACTTT
Statistics
Matches: 63, Mismatches: 1, Indels: 15
0.80 0.01 0.19
Matches are distributed among these distances:
27 3 0.05
28 17 0.27
29 2 0.03
30 5 0.08
31 27 0.43
32 4 0.06
33 5 0.08
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (30 bp):
TAAAATACTTTTTTTAAATTTTTTTAATTT
Found at i:10213147 original size:13 final size:14
Alignment explanation
Indices: 10213120--10213181 Score: 56
Period size: 14 Copynumber: 4.4 Consensus size: 14
10213110 ATTTTTTTAA
10213120 TTTTAAAATACTTT
1 TTTTAAAATACTTT
**
10213134 TTTTAAAATTTTTT
1 TTTTAAAATACTTT
*
10213148 TAATTTTAAAT--TTT
1 T--TTTAAAATACTTT
*
10213162 TTTAAAAATACTTT
1 TTTTAAAATACTTT
10213176 TTTTAA
1 TTTTAA
10213182 TTTTAAAATA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
12 6 0.16
14 25 0.66
16 7 0.18
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.61
Consensus pattern (14 bp):
TTTTAAAATACTTT
Found at i:10213235 original size:33 final size:31
Alignment explanation
Indices: 10213111--10213210 Score: 134
Period size: 31 Copynumber: 3.2 Consensus size: 31
10213101 TATTTTTTTA
*
10213111 TTTTTTTAATTTTAAAATACTTTTTTTAAA-A-
1 TTTTTTTAATTTTAAAATA--TTTTTAAAATAC
*
10213142 TTTTTTTAATTTT-AAATTTTTTTAAAAATAC
1 TTTTTTTAATTTTAAAATATTTTT-AAAATAC
10213173 TTTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTTTAATTTTAAAATATTTTTAAAATAC
10213204 TTTTTTT
1 TTTTTTT
10213211 TTATTTTTAT
Statistics
Matches: 62, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
28 5 0.08
29 3 0.05
30 5 0.08
31 40 0.65
32 9 0.15
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (31 bp):
TTTTTTTAATTTTAAAATATTTTTAAAATAC
Found at i:10213865 original size:3 final size:3
Alignment explanation
Indices: 10213819--10213847 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
10213809 TATTTTCTCC
10213819 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
10213848 GGTATTGTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:10214451 original size:13 final size:14
Alignment explanation
Indices: 10214417--10214453 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
10214407 TACTTTTATA
10214417 TATATTCATTTCGTT
1 TATATT-ATTTCGTT
10214432 TAT-TTATTT-GTT
1 TATATTATTTCGTT
10214444 TATATTATTT
1 TATATTATTT
10214454 TTATGCTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 10 0.48
14 2 0.10
15 3 0.14
ACGTcount: A:0.22, C:0.05, G:0.05, T:0.68
Consensus pattern (14 bp):
TATATTATTTCGTT
Found at i:10215565 original size:114 final size:114
Alignment explanation
Indices: 10215360--10215914 Score: 772
Period size: 114 Copynumber: 4.9 Consensus size: 114
10215350 TAAATTATTT
* * *
10215360 TAAATCCCTGAGCATTAGCGGCGCTTTCTTAAAAATGCCGCTAAATCCCCGAAAGCTCAGAAAAT
1 TAAAACCCTGACCATTAGCGGCGGTTTCTTAAAAATGCCGCTAAATCCCCGAAAGCTCAGAAAAT
** *
10215425 AACGTCGTTGGGCTTAGGTATTTTTACGGCGCTTTCCCAAAAACGCCGC
66 GGCGTCGTTGGGCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGC
* *
10215474 TAAAACCCTGACCATTAGCGACGGTTTCTTAAAAATGCCGCTAAATCCCCAAAAGCTCAGAAAAT
1 TAAAACCCTGACCATTAGCGGCGGTTTCTTAAAAATGCCGCTAAATCCCCGAAAGCTCAGAAAAT
* * *
10215539 GGCGTTGTTGGGCTTAGGTATTTTTACGGTGCTTTCCCAAAAACGCCGC
66 GGCGTCGTTGGGCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGC
* * *
10215588 TAAAACGCTGACCATTAGCGGC-GTTTACTTAAAAACGCCGCTAAATCCCCGAAAGCTTAGAAAA
1 TAAAACCCTGACCATTAGCGGCGGTTT-CTTAAAAATGCCGCTAAATCCCCGAAAGCTCAGAAAA
*
10215652 CGGCGTCGTTGGGCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGC
65 TGGCGTCGTTGGGCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGC
* * * * * * * **
10215702 TAAAGCCCTGACCATTAGCAGTGCTTTCTTAAAAACGTCGTTAAATCCCTAAAAGCTCAGAAAAT
1 TAAAACCCTGACCATTAGCGGCGGTTTCTTAAAAATGCCGCTAAATCCCCGAAAGCTCAGAAAAT
** *
10215767 GGTATCGTTGGGCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCAGC
66 GGCGTCGTTGGGCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGC
* * * * *
10215816 TAAAGCCCTGACCATTAGCGGCGCTTACTTAAAAATGCCACTAAATCCCCGAAAGCTCAGAAAAC
1 TAAAACCCTGACCATTAGCGGCGGTTTCTTAAAAATGCCGCTAAATCCCCGAAAGCTCAGAAAAT
* * *
10215881 GACGTCGTTGGGCTCAAGTA-TTTTGCGGCGCTTT
66 GGCGTCGTTGGGCTTAGGTATTTTTGCGGCGCTTT
10215915 TTGGAAAACG
Statistics
Matches: 392, Mismatches: 47, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
113 18 0.05
114 371 0.95
115 3 0.01
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (114 bp):
TAAAACCCTGACCATTAGCGGCGGTTTCTTAAAAATGCCGCTAAATCCCCGAAAGCTCAGAAAAT
GGCGTCGTTGGGCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGC
Found at i:10245281 original size:20 final size:20
Alignment explanation
Indices: 10245240--10245281 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
10245230 AATTACGTTT
**
10245240 ATTTAAAATAAAAATATTAA
1 ATTTAAAATAAAAATAGAAA
*
10245260 ATTTAAATTAAAAATAGAAA
1 ATTTAAAATAAAAATAGAAA
10245280 AT
1 AT
10245282 CATAATATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (20 bp):
ATTTAAAATAAAAATAGAAA
Found at i:10245494 original size:22 final size:24
Alignment explanation
Indices: 10245451--10245497 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 24
10245441 TATTTAAATA
**
10245451 TTTAATATTATAATTTTTTATTTT
1 TTTAATATTATAATTTAATATTTT
10245475 TTTAAT-TTA-AATTTAATATTTT
1 TTTAATATTATAATTTAATATTTT
10245497 T
1 T
10245498 ATTTTAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 12 0.57
23 3 0.14
24 6 0.29
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (24 bp):
TTTAATATTATAATTTAATATTTT
Found at i:10245544 original size:16 final size:17
Alignment explanation
Indices: 10245523--10245555 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
10245513 AATTATCACG
10245523 TGACA-TTTTTTTCATT
1 TGACATTTTTTTTCATT
10245539 TGACATTTTTTTTCATT
1 TGACATTTTTTTTCATT
10245556 GGTCAAAACG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.64
Consensus pattern (17 bp):
TGACATTTTTTTTCATT
Found at i:10246420 original size:30 final size:30
Alignment explanation
Indices: 10246328--10246420 Score: 107
Period size: 31 Copynumber: 3.1 Consensus size: 30
10246318 AAAATAGATC
* *
10246328 TAATCAAAATTTCATGTATAAAATT-ATATA
1 TAATCAAAA-TTCATGTATAATATTAATATT
* *
10246358 GAATCAAAATTTATGTATAATATTACATATT
1 TAATCAAAATTCATGTATAATATTA-ATATT
* *
10246389 TAATTAAAATTCATGTATAATTTTAATATT
1 TAATCAAAATTCATGTATAATATTAATATT
10246419 TA
1 TA
10246421 TCTTTTTTTT
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
29 13 0.25
30 15 0.28
31 25 0.47
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.44
Consensus pattern (30 bp):
TAATCAAAATTCATGTATAATATTAATATT
Found at i:10247694 original size:30 final size:30
Alignment explanation
Indices: 10247660--10247728 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 30
10247650 AACCAAAAAA
10247660 GGCCGTTTTTTTTCAA-AATTTACCGAAATG
1 GGCCGTTTTTTTT-AATAATTTACCGAAATG
* * *
10247690 GGCCG-GTTTTTTAATTATTTACCGGAATG
1 GGCCGTTTTTTTTAATAATTTACCGAAATG
*
10247719 GGCCATTTTT
1 GGCCGTTTTT
10247729 CGCGAAATCG
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
28 2 0.06
29 22 0.69
30 8 0.25
ACGTcount: A:0.22, C:0.16, G:0.20, T:0.42
Consensus pattern (30 bp):
GGCCGTTTTTTTTAATAATTTACCGAAATG
Found at i:10256570 original size:14 final size:14
Alignment explanation
Indices: 10256551--10256577 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10256541 TGTTTTGTGA
10256551 TTATTAGTATTAAC
1 TTATTAGTATTAAC
10256565 TTATTAGTATTAA
1 TTATTAGTATTAA
10256578 ACTGAGTTCT
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:0.37, C:0.04, G:0.07, T:0.52
Consensus pattern (14 bp):
TTATTAGTATTAAC
Found at i:10264853 original size:3 final size:3
Alignment explanation
Indices: 10264845--10264876 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
10264835 CAGGTGCCTA
10264845 CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CT
1 CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CT
10264877 ACTCTTCTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.66, G:0.00, T:0.34
Consensus pattern (3 bp):
CTC
Found at i:10264885 original size:3 final size:3
Alignment explanation
Indices: 10264879--10264924 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
10264869 CTCCTCCTAC
10264879 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
10264925 ACCTCAAAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:10272250 original size:28 final size:31
Alignment explanation
Indices: 10272190--10272250 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 31
10272180 TACAGATCGT
* *
10272190 ATTTGGGCCTACAATAATTTTTATTTTTGCA
1 ATTTGGGCCTACAATAATTTTTAGTTTTCCA
*
10272221 ATTTGGGCC-ATAA-AATTTTT-GTTTTCCA
1 ATTTGGGCCTACAATAATTTTTAGTTTTCCA
10272249 AT
1 AT
10272251 ATTAAGTCCA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 8 0.30
29 7 0.26
30 3 0.11
31 9 0.33
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.48
Consensus pattern (31 bp):
ATTTGGGCCTACAATAATTTTTAGTTTTCCA
Found at i:10277254 original size:16 final size:16
Alignment explanation
Indices: 10277230--10277262 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
10277220 TGTATTGGGT
*
10277230 TGGATTAGAGGTGTAA
1 TGGAATAGAGGTGTAA
10277246 TGGAATAGAGGTGTAA
1 TGGAATAGAGGTGTAA
10277262 T
1 T
10277263 AGCAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.30
Consensus pattern (16 bp):
TGGAATAGAGGTGTAA
Found at i:10277307 original size:45 final size:44
Alignment explanation
Indices: 10277241--10277335 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
10277231 GGATTAGAGG
* *
10277241 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
10277286 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
10277330 TGTAAT
1 TGTAAT
10277336 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:10277518 original size:18 final size:17
Alignment explanation
Indices: 10277497--10277531 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
10277487 TTATTATTTA
*
10277497 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
10277515 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
10277532 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Done.