Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 157 of 322
Found at i:51605112 original size:24 final size:24
Alignment explanation
Indices: 51605076--51605145 Score: 88
Period size: 24 Copynumber: 2.9 Consensus size: 24
51605066 TATTGACATC
*
51605076 CAAATCAGCACACATAGTGCCATT
1 CAAATCCGCACACATAGTGCCATT
* *
51605100 -AAATTCCGTACACATAGTGCTATT
1 CAAA-TCCGCACACATAGTGCCATT
*
51605124 CAAATCCGCACACTTAGTGCCA
1 CAAATCCGCACACATAGTGCCA
51605146 ATGTTGACCC
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
23 3 0.08
24 32 0.84
25 3 0.08
ACGTcount: A:0.34, C:0.29, G:0.13, T:0.24
Consensus pattern (24 bp):
CAAATCCGCACACATAGTGCCATT
Found at i:51612793 original size:24 final size:24
Alignment explanation
Indices: 51612760--51612821 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 24
51612750 TCCAAATCAA
* *
51612760 CACACATAGTGCCATTCAATTCCG
1 CACACATAGTGCCATTCAAATCCC
*
51612784 TACACATAGTGCCATTCAAATCCC
1 CACACATAGTGCCATTCAAATCCC
*
51612808 CACACTTAGTGCCA
1 CACACATAGTGCCA
51612822 ATGTTGACCC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.31, C:0.34, G:0.11, T:0.24
Consensus pattern (24 bp):
CACACATAGTGCCATTCAAATCCC
Found at i:51616858 original size:145 final size:145
Alignment explanation
Indices: 51616698--51617509 Score: 1120
Period size: 145 Copynumber: 5.7 Consensus size: 145
51616688 ATACGAAAAT
* *
51616698 AAAAATACGAATAAAGTGCTAAAATCAAGGTTATTTATTAAAAAAATATAAAAAATACTTAAATA
1 AAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAAATATAAAAAACACTTAAATA
*
51616763 ATACATTTGAAATATTATGTACTAAAATAATATAAAGAAATAAAATACAAAAATAATATATTTTA
66 ATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAATACAAAAATAATATATTTTA
51616828 AAAAATAAGATACAA
131 AAAAATAAGATACAA
* * *
51616843 AAAAATACGAATAAAGTGCTAAAATTAGGGTTATTTATTGAAAAAATATAAAAAATACTTAAATA
1 AAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAAATATAAAAAACACTTAAATA
* * *
51616908 ATACATTTGAAACATTATGTATTAAAATAATATGAAGAAATAAAATACGAAAATAATATATTTTA
66 ATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAATACAAAAATAATATATTTTA
51616973 AAAAATAAGATACGAA
131 AAAAATAAGATAC-AA
* ** *
51616989 AAAAATACGAAGAAAGTG-TCAAAATCAGGGTTATTTATTAAATTAATATAAAAAACACTTACAT
1 AAAAATACGAATAAAGTGCT-AAAATCAGGGTTATTTATTAAAAAAATATAAAAAACACTTAAAT
* * * * * *
51617053 AATACATTTGAAACATTTTTTGCTAAAATAATATAAAAAAATAATATAC--GAA-AATA-A---T
65 AATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAATACAAAAATAATATATTTT
*
51617111 -----ATACG----AA
130 AAAAAATAAGATACAA
* *
51617118 AAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTTAAAAAACATAAAAAACACTTAAATA
1 AAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAAATATAAAAAACACTTAAATA
*
51617183 ATACATTTGAACCATTATGTACTAAAATAATATAAAGAAATAAAATACAAAAATAATATATTTTA
66 ATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAATACAAAAATAATATATTTTA
*
51617248 AAAAATAAGATACGA
131 AAAAATAAGATACAA
* * *
51617263 AAAAATACAAATAAAGTGCTAAAATCAGGGTTATTTATTGAAAAAATATAAAAAATACTTAAATA
1 AAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAAATATAAAAAACACTTAAATA
* *
51617328 ATACATTTGAAACATTATGTACTATAATAATATGAAGAAATAAAATACAAAAATAATATATTTTA
66 ATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAATACAAAAATAATATATTTTA
*
51617393 AAAAATAAGATATGAA
131 AAAAATAAGATA-CAA
* ** *
51617409 AAAAATACGAAGAAAGTG-TCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACACTTACA
1 AAAAATACGAATAAAGTGCT-AAAATCAGGGTTATTTATTAAAAAAATAT-AAAAAACACTTAAA
* * *
51617473 TAATACATTTGAAACATTTTTTGCTAAAATAATATAA
64 TAATACATTTGAAACATTATGTACTAAAATAATATAA
51617510 CAAATAATAC
Statistics
Matches: 586, Mismatches: 59, Indels: 42
0.85 0.09 0.06
Matches are distributed among these distances:
129 101 0.17
130 1 0.00
131 2 0.00
132 4 0.01
133 1 0.00
134 4 0.01
136 1 0.00
139 1 0.00
141 4 0.01
142 1 0.00
143 4 0.01
144 2 0.00
145 274 0.47
146 142 0.24
147 44 0.08
ACGTcount: A:0.56, C:0.07, G:0.08, T:0.29
Consensus pattern (145 bp):
AAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAAATATAAAAAACACTTAAATA
ATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAATACAAAAATAATATATTTTA
AAAAATAAGATACAA
Found at i:51617102 original size:116 final size:123
Alignment explanation
Indices: 51617009--51617240 Score: 297
Period size: 129 Copynumber: 1.8 Consensus size: 123
51616999 AGAAAGTGTC
* * * * *
51617009 AAAATCAGGGTTATTTA-TTAAATTAATATAAAAAACACTTACATAATACATTTGAAACATTTTT
1 AAAATCAGGGTTATTTATTTAAA-AAACATAAAAAACACTTAAATAATACATTTGAAACATTATG
* *
51617073 TGCTAAAATAATATAAAAAAATAATATACGAAAATAATATACGAAAAAAATACGAATAAAGTGCT
65 TACTAAAATAATATAAAAAAATAAAATACGAAAA-AA-ATACG-AAAAAATACG-AT--AGTGCT
*
51617138 AAAATCAGGGTTATTTATTTAAAAAACATAAAAAACACTTAAATAATACATTTGAACCATTATGT
1 AAAATCAGGGTTATTTATTTAAAAAACATAAAAAACACTTAAATAATACATTTGAAACATTATGT
*
51617203 ACTAAAATAATATAAAGAAATAAAATAC-AAAAATAATA
66 ACTAAAATAATATAAAAAAATAAAATACGAAAAA-AATA
51617241 TATTTTAAAA
Statistics
Matches: 92, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
127 4 0.04
128 5 0.05
129 78 0.85
130 5 0.05
ACGTcount: A:0.55, C:0.09, G:0.07, T:0.29
Consensus pattern (123 bp):
AAAATCAGGGTTATTTATTTAAAAAACATAAAAAACACTTAAATAATACATTTGAAACATTATGT
ACTAAAATAATATAAAAAAATAAAATACGAAAAAAATACGAAAAAATACGATAGTGCT
Found at i:51617127 original size:11 final size:13
Alignment explanation
Indices: 51617077--51617128 Score: 72
Period size: 13 Copynumber: 4.2 Consensus size: 13
51617067 ATTTTTTGCT
**
51617077 AAAATAATATAAA
1 AAAATAATATACG
51617090 AAAATAATATACG
1 AAAATAATATACG
51617103 AAAATAATATACG
1 AAAATAATATACG
51617116 AAAA-AA-ATACG
1 AAAATAATATACG
51617127 AA
1 AA
51617129 TAAAGTGCTA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
11 7 0.19
12 2 0.05
13 28 0.76
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.19
Consensus pattern (13 bp):
AAAATAATATACG
Found at i:51617399 original size:275 final size:275
Alignment explanation
Indices: 51616828--51617387 Score: 876
Period size: 275 Copynumber: 2.0 Consensus size: 275
51616818 ATATATTTTA
* * *
51616828 AAAAATAAGATAC-AAAAAAATACGAATAAAGTGCTAAAATTAGGGTTATTTATTGAAAAAATAT
1 AAAAATAATATACGAAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTGAAAAAACAT
* * * *
51616892 AAAAAATACTTAAATAATACATTTGAAACATTATGTATTAAAATAATATGAAGAAATAAAATACG
66 AAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAATACA
*
51616957 AAAATAATATATTTTAAAAAATAAGATACGAAAAAAATACGAAGAAAGTGTCAAAATCAGGGTTA
131 AAAATAATATATTTTAAAAAATAAGATACGAAAAAAATACAAAGAAAGTGTCAAAATCAGGGTTA
* * * * *
51617022 TTTATTAAATTAATATAAAAAACACTTACATAATACATTTGAAACATTTTTTGCTAAAATAATAT
196 TTTATTAAATAAATATAAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAAATAATAT
*
51617087 AAAAAAATAATATAC
261 AAAAAAATAAAATAC
* *
51617102 GAAAATAATATACGAAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTTAAAAAACAT
1 AAAAATAATATACGAAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTGAAAAAACAT
*
51617167 AAAAAACACTTAAATAATACATTTGAACCATTATGTACTAAAATAATATAAAGAAATAAAATACA
66 AAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAATACA
*
51617232 AAAATAATATATTTTAAAAAATAAGATACG-AAAAAATACAAATAAAGTG-CTAAAATCAGGGTT
131 AAAATAATATATTTTAAAAAATAAGATACGAAAAAAATACAAAGAAAGTGTC-AAAATCAGGGTT
* *
51617295 ATTTATTGAAA-AAATATAAAAAATACTTAAATAATACATTTGAAACATTATGTACTATAATAAT
195 ATTTATT-AAATAAATATAAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAAATAAT
* *
51617359 ATGAAGAAATAAAATAC
259 ATAAAAAAATAAAATAC
51617376 AAAAATAATATA
1 AAAAATAATATA
51617388 TTTTAAAAAA
Statistics
Matches: 260, Mismatches: 23, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
273 1 0.00
274 118 0.45
275 141 0.54
ACGTcount: A:0.56, C:0.07, G:0.08, T:0.28
Consensus pattern (275 bp):
AAAAATAATATACGAAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTGAAAAAACAT
AAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAATACA
AAAATAATATATTTTAAAAAATAAGATACGAAAAAAATACAAAGAAAGTGTCAAAATCAGGGTTA
TTTATTAAATAAATATAAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAAATAATAT
AAAAAAATAAAATAC
Found at i:51617517 original size:420 final size:422
Alignment explanation
Indices: 51616680--51617525 Score: 1518
Period size: 420 Copynumber: 2.0 Consensus size: 422
51616670 TTAATTTAAT
*
51616680 AAAATAATATACGAAAATAAAAATACGAATAAAGTGCTAAAATCAAGGTTATTTATTAAAAAAAT
1 AAAATAATATACG-AAATAAAAATACGAATAAAGTGCTAAAATCAAGGTTATTTATTAAAAAAAC
* *
51616745 ATAAAAAATACTTAAATAATACATTTGAAATATTATGTACTAAAATAATATAAAGAAATAAAATA
65 ATAAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAATA
* *
51616810 CAAAAATAATATATTTTAAAAAATAAGATACAAAAAAATACGAATAAAGTGCTAAAATTAGGGTT
130 CAAAAATAATATATTTTAAAAAATAAGATACAAAAAAATACAAATAAAGTGCTAAAATCAGGGTT
*
51616875 ATTTATTGAAAAAATATAAAAAATACTTAAATAATACATTTGAAACATTATGTATTAAAATAATA
195 ATTTATTGAAAAAATATAAAAAATACTTAAATAATACATTTGAAACATTATGTACTAAAATAATA
*
51616940 TGAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAAAAATACGAAGAAAG
260 TGAAGAAATAAAATACAAAAATAATATATTTTAAAAAATAAGATACGAAAAAAATACGAAGAAAG
51617005 TGTCAAAATCAGGGTTATTTATTAAATTAATATAAAAAACACTTACATAATACATTTGAAACATT
325 TGTCAAAATCAGGGTTATTTATTAAATTAATATAAAAAACACTTACATAATACATTTGAAACATT
*
51617070 TTTTGCTAAAATAATATAAAAAAATAATATACG
390 TTTTGCTAAAATAATATAAAAAAATAATACACG
* *
51617103 AAAATAATATACG-AA-AAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTTAAAAAACA
1 AAAATAATATACGAAATAAAAATACGAATAAAGTGCTAAAATCAAGGTTATTTATTAAAAAAACA
*
51617166 TAAAAAACACTTAAATAATACATTTGAACCATTATGTACTAAAATAATATAAAGAAATAAAATAC
66 TAAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAATAC
*
51617231 AAAAATAATATATTTTAAAAAATAAGATACGAAAAAATACAAATAAAGTGCTAAAATCAGGGTTA
131 AAAAATAATATATTTTAAAAAATAAGATACAAAAAAATACAAATAAAGTGCTAAAATCAGGGTTA
*
51617296 TTTATTGAAAAAATATAAAAAATACTTAAATAATACATTTGAAACATTATGTACTATAATAATAT
196 TTTATTGAAAAAATATAAAAAATACTTAAATAATACATTTGAAACATTATGTACTAAAATAATAT
*
51617361 GAAGAAATAAAATACAAAAATAATATATTTTAAAAAATAAGATATGAAAAAAATACGAAGAAAGT
261 GAAGAAATAAAATACAAAAATAATATATTTTAAAAAATAAGATACGAAAAAAATACGAAGAAAGT
51617426 GTCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACACTTACATAATACATTTGAAACATT
326 GTCAAAATCAGGGTTATTTATTAAATTAATAT-AAAAAACACTTACATAATACATTTGAAACATT
*
51617491 TTTTGCTAAAATAATAT-AACAAATAATACACG
390 TTTTGCTAAAATAATATAAAAAAATAATACACG
51617523 AAA
1 AAA
51617526 CTATTTTACT
Statistics
Matches: 407, Mismatches: 15, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
420 343 0.84
421 51 0.13
423 13 0.03
ACGTcount: A:0.56, C:0.07, G:0.08, T:0.29
Consensus pattern (422 bp):
AAAATAATATACGAAATAAAAATACGAATAAAGTGCTAAAATCAAGGTTATTTATTAAAAAAACA
TAAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAATAC
AAAAATAATATATTTTAAAAAATAAGATACAAAAAAATACAAATAAAGTGCTAAAATCAGGGTTA
TTTATTGAAAAAATATAAAAAATACTTAAATAATACATTTGAAACATTATGTACTAAAATAATAT
GAAGAAATAAAATACAAAAATAATATATTTTAAAAAATAAGATACGAAAAAAATACGAAGAAAGT
GTCAAAATCAGGGTTATTTATTAAATTAATATAAAAAACACTTACATAATACATTTGAAACATTT
TTTGCTAAAATAATATAAAAAAATAATACACG
Found at i:51617639 original size:27 final size:27
Alignment explanation
Indices: 51617607--51617676 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
51617597 GACCCACAGA
*
51617607 ACTGGTGCCGCCTCTGCCAGAGGCAAC
1 ACTGGTGCCGCCTCTGCCAAAGGCAAC
* *
51617634 ATTGGTGCCGCCTCTGTCAAAGGCAAC
1 ACTGGTGCCGCCTCTGCCAAAGGCAAC
51617661 ACTGGTGCCGCCTCTG
1 ACTGGTGCCGCCTCTG
51617677 GCACCAACAT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.17, C:0.34, G:0.29, T:0.20
Consensus pattern (27 bp):
ACTGGTGCCGCCTCTGCCAAAGGCAAC
Found at i:51622406 original size:12 final size:12
Alignment explanation
Indices: 51622389--51622413 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
51622379 CTGTGTGTTC
51622389 TTTATTTTATTT
1 TTTATTTTATTT
51622401 TTTATTTTATTT
1 TTTATTTTATTT
51622413 T
1 T
51622414 ATTTTCACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTATTTTATTT
Found at i:51626852 original size:12 final size:12
Alignment explanation
Indices: 51626835--51626859 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
51626825 CTGTATGTTC
51626835 TTTATTTTATTT
1 TTTATTTTATTT
51626847 TTTATTTTATTT
1 TTTATTTTATTT
51626859 T
1 T
51626860 ATTTTCTCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTATTTTATTT
Found at i:51629021 original size:166 final size:166
Alignment explanation
Indices: 51628715--51629027 Score: 364
Period size: 166 Copynumber: 1.9 Consensus size: 166
51628705 GAAACAAATT
* * * ** *
51628715 AAAAAAAATCAATTAATTCCTTCAAGTTAAAATTTTATTCCATTGAACCTTTATGGATAATAATT
1 AAAAAAAATCAATTAAATCCTTCAAATTAAAATTTTATTCAATTGAACCTTTATCCACAATAATT
* * * * ** * * *
51628780 TAATCAATTTGATCTTTTCATCAACATAAATTCTTATTGCTCGATTTAATCAGACTGTTTATTCA
66 TAATCAATTTAATCTTCTCATCAACAGAAATTCTTACTAATCAATTTAAACAGACTATTTATTCA
*
51628845 GACTAAATGATAAAAAAAATTCTATTGAATTTTGAA
131 GACAAAATGATAAAAAAAATTCTATTGAATTTTGAA
* *
51628881 AAAAAAAATCAATTAAATCTTTTCAAATT-AATTTTTATTCAATTGAACCTTTATCCACAATAAT
1 AAAAAAAATCAATTAAATC-CTTCAAATTAAAATTTTATTCAATTGAACCTTTATCCACAATAAT
* * *
51628945 TTAATTAATTTAATC-TCTCTATCAACAGAAATAT-TTACTAATCAATTTAAACGGTCTATTTAT
65 TTAATCAATTTAATCTTCTC-ATCAACAGAAAT-TCTTACTAATCAATTTAAACAGACTATTTAT
*
51629008 TTATG-CAAAATGATAAAAAA
128 TCA-GACAAAATGATAAAAAA
51629028 GAAATAAGTT
Statistics
Matches: 121, Mismatches: 22, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
165 3 0.02
166 109 0.90
167 9 0.07
ACGTcount: A:0.42, C:0.13, G:0.06, T:0.39
Consensus pattern (166 bp):
AAAAAAAATCAATTAAATCCTTCAAATTAAAATTTTATTCAATTGAACCTTTATCCACAATAATT
TAATCAATTTAATCTTCTCATCAACAGAAATTCTTACTAATCAATTTAAACAGACTATTTATTCA
GACAAAATGATAAAAAAAATTCTATTGAATTTTGAA
Found at i:51629318 original size:18 final size:18
Alignment explanation
Indices: 51629295--51629333 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
51629285 AACCCAAAAT
51629295 AAAAAATAAAAAAAAAGA
1 AAAAAATAAAAAAAAAGA
* *
51629313 AAAAAATGAAGAAAAAGA
1 AAAAAATAAAAAAAAAGA
51629331 AAA
1 AAA
51629334 CCTATGTGCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.10, T:0.05
Consensus pattern (18 bp):
AAAAAATAAAAAAAAAGA
Found at i:51630490 original size:19 final size:19
Alignment explanation
Indices: 51630466--51630503 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
51630456 TTGAGATTGC
*
51630466 CAACCTATTTGCTTGAAAT
1 CAACCTATTTGCCTGAAAT
51630485 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
51630504 TATTCATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.34
Consensus pattern (19 bp):
CAACCTATTTGCCTGAAAT
Found at i:51653326 original size:6 final size:6
Alignment explanation
Indices: 51653315--51653355 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
51653305 TTTGCTCTTT
* *
51653315 ACCCTC ACCCTC ACCCCC ACCCCC ACCCCC ACCCCC ACCCC
1 ACCCCC ACCCCC ACCCCC ACCCCC ACCCCC ACCCCC ACCCC
51653356 ACTTATTTCA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.17, C:0.78, G:0.00, T:0.05
Consensus pattern (6 bp):
ACCCCC
Found at i:51658312 original size:21 final size:20
Alignment explanation
Indices: 51658260--51658313 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 20
51658250 AATTTTGAAG
51658260 CACGAAATTTTTTTTTAAAA
1 CACGAAATTTTTTTTTAAAA
* *
51658280 AATGAAAGTTTTTTTTTAAAA
1 CACGAAA-TTTTTTTTTAAAA
51658301 CACGAGAATTTTT
1 CACGA-AATTTTT
51658314 AAACACGGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 5 0.18
21 21 0.75
22 2 0.07
ACGTcount: A:0.39, C:0.07, G:0.09, T:0.44
Consensus pattern (20 bp):
CACGAAATTTTTTTTTAAAA
Found at i:51658317 original size:16 final size:17
Alignment explanation
Indices: 51658292--51658386 Score: 113
Period size: 17 Copynumber: 5.6 Consensus size: 17
51658282 TGAAAGTTTT
51658292 TTTTTAAAACACGAGAA
1 TTTTTAAAACACGAGAA
51658309 TTTTT-AAACACG-GAAA
1 TTTTTAAAACACGAG-AA
** *
51658325 TTTCAAAAACACGAAAA
1 TTTTTAAAACACGAGAA
* *
51658342 TTTTTAAAACACGACAT
1 TTTTTAAAACACGAGAA
*
51658359 TTTTTGAAACACGAGAA
1 TTTTTAAAACACGAGAA
51658376 TTTTTAAAACA
1 TTTTTAAAACA
51658387 AGACATTTTT
Statistics
Matches: 64, Mismatches: 11, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
15 1 0.02
16 12 0.19
17 51 0.80
ACGTcount: A:0.46, C:0.14, G:0.09, T:0.31
Consensus pattern (17 bp):
TTTTTAAAACACGAGAA
Found at i:51658369 original size:34 final size:34
Alignment explanation
Indices: 51658291--51658404 Score: 142
Period size: 34 Copynumber: 3.4 Consensus size: 34
51658281 ATGAAAGTTT
51658291 TTTTTTAAAACACGAGAATTTTT-AAACACGGA-A
1 TTTTTTAAAACACGAGAATTTTTAAAACAC-GACA
* ** *
51658324 ATTTCAAAAACACGAAAATTTTTAAAACACGACA
1 TTTTTTAAAACACGAGAATTTTTAAAACACGACA
* *
51658358 TTTTTTGAAACACGAGAATTTTTAAAACAAGACA
1 TTTTTTAAAACACGAGAATTTTTAAAACACGACA
*
51658392 TTTTTTGAAACAC
1 TTTTTTAAAACAC
51658405 AATTTTTTTC
Statistics
Matches: 69, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
33 21 0.30
34 48 0.70
ACGTcount: A:0.45, C:0.14, G:0.10, T:0.32
Consensus pattern (34 bp):
TTTTTTAAAACACGAGAATTTTTAAAACACGACA
Found at i:51658396 original size:17 final size:17
Alignment explanation
Indices: 51658291--51658412 Score: 99
Period size: 17 Copynumber: 7.4 Consensus size: 17
51658281 ATGAAAGTTT
*
51658291 TTTTTTAAAACACGAGA
1 TTTTTTAAAACACGACA
*
51658308 ATTTTT-AAACACGGA-A
1 TTTTTTAAAACAC-GACA
* ** *
51658324 ATTTCAAAAACACGAAA
1 TTTTTTAAAACACGACA
*
51658341 ATTTTTAAAACACGACA
1 TTTTTTAAAACACGACA
* *
51658358 TTTTTTGAAACACGAGA
1 TTTTTTAAAACACGACA
* *
51658375 ATTTTTAAAACAAGACA
1 TTTTTTAAAACACGACA
*
51658392 TTTTTTGAAACAC-A-A
1 TTTTTTAAAACACGACA
51658407 TTTTTT
1 TTTTTT
51658413 TCTTAAAAAA
Statistics
Matches: 86, Mismatches: 16, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
15 7 0.08
16 14 0.16
17 65 0.76
ACGTcount: A:0.43, C:0.13, G:0.09, T:0.34
Consensus pattern (17 bp):
TTTTTTAAAACACGACA
Found at i:51672038 original size:3 final size:3
Alignment explanation
Indices: 51672030--51672075 Score: 58
Period size: 3 Copynumber: 15.0 Consensus size: 3
51672020 TTTTCTTTCT
*
51672030 TTC TTC TTC CTC TT- TTC TTC TTCC TTC TTC TTCC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TT-C TTC TTC TT-C TTC TTC TTC TTC
51672076 AAAGTCTAGC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 2 0.05
3 30 0.79
4 6 0.16
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (3 bp):
TTC
Found at i:51672059 original size:10 final size:10
Alignment explanation
Indices: 51672044--51672072 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
51672034 TCTTCCTCTT
51672044 TTCTTCTTCC
1 TTCTTCTTCC
51672054 TTCTTCTTCC
1 TTCTTCTTCC
51672064 TTCTTCTTC
1 TTCTTCTTC
51672073 TTCAAAGTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (10 bp):
TTCTTCTTCC
Found at i:51672060 original size:13 final size:13
Alignment explanation
Indices: 51672030--51672075 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 13
51672020 TTTTCTTTCT
51672030 TTCTTCTTCC-TC
1 TTCTTCTTCCTTC
51672042 TT-TTCTT-CTTCC
1 TTCTTCTTCCTT-C
51672054 TTCTTCTTCCTTC
1 TTCTTCTTCCTTC
51672067 TTCTTCTTC
1 TTCTTCTTC
51672076 AAAGTCTAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
10 1 0.03
11 6 0.20
12 5 0.17
13 15 0.50
14 3 0.10
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (13 bp):
TTCTTCTTCCTTC
Found at i:51672171 original size:18 final size:19
Alignment explanation
Indices: 51672135--51672175 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
51672125 CGATACTCTT
*
51672135 TCTTTTCTTCTCCTCTTTC
1 TCTTTTCCTCTCCTCTTTC
51672154 TCTTTTCCT-TCCT-TTT-
1 TCTTTTCCTCTCCTCTTTC
51672170 TCTTTT
1 TCTTTT
51672176 TTTCGAAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 6 0.29
17 3 0.14
18 4 0.19
19 8 0.38
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (19 bp):
TCTTTTCCTCTCCTCTTTC
Found at i:51672177 original size:18 final size:16
Alignment explanation
Indices: 51672130--51672177 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
51672120 GACGCCGATA
51672130 CTCTTTCTTTTCTTCTC
1 CTCTTTCTTTT-TTCTC
*
51672147 CTCTTTCTCTTTTCCTTC
1 CTCTTTCT-TTTTTC-TC
*
51672165 CTTTTTCTTTTTT
1 CTCTTTCTTTTTT
51672178 TCGAAACTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 14 0.54
18 12 0.46
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (16 bp):
CTCTTTCTTTTTTCTC
Found at i:51672464 original size:30 final size:29
Alignment explanation
Indices: 51672409--51672525 Score: 110
Period size: 30 Copynumber: 3.9 Consensus size: 29
51672399 TGTAATTTTT
* * *
51672409 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAGTTTAGGGTCAAAATGAAATTTAA
* * *
51672438 TGAAAGTTTAGGAGTCTAAGTGAAATTTAA
1 AGAAAGTTTAGG-GTCAAAATGAAATTTAA
51672468 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAGTTT-AGGGTCAAAATGAAATTTAA
* * *
51672497 GGAAAAGTTTAGGGGTTAAAATGTAATTT
1 AG-AAAGTTTA-GGGTCAAAATGAAATTT
51672526 TTATTTTTAA
Statistics
Matches: 72, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
29 13 0.18
30 56 0.78
31 3 0.04
ACGTcount: A:0.45, C:0.02, G:0.21, T:0.32
Consensus pattern (29 bp):
AGAAAGTTTAGGGTCAAAATGAAATTTAA
Found at i:51672525 original size:60 final size:59
Alignment explanation
Indices: 51672394--51672525 Score: 142
Period size: 60 Copynumber: 2.2 Consensus size: 59
51672384 ACTTCTGGGG
** * *
51672394 CTAAATGTAATTTTTAGAAAATTTAGGATTAAAATGAAATTTAATGAAAGTTTAGGAGT
1 CTAAATGTAATTTAAAGAAAATTTAGGATCAAAATGAAATTTAAGGAAAGTTTAGGAGT
* * * * *
51672453 CTAAGTGAAATTTAAAGAAAGTTTAAGGGTCAAAATGAAATTT-AGGAAAAGTTTAGGGGT
1 CTAAATGTAATTTAAAGAAAATTT-AGGATCAAAATGAAATTTAAGG-AAAGTTTAGGAGT
51672513 -TAAAATGTAATTT
1 CT-AAATGTAATTT
51672526 TTATTTTTAA
Statistics
Matches: 59, Mismatches: 11, Indels: 5
0.79 0.15 0.07
Matches are distributed among these distances:
59 22 0.37
60 37 0.63
ACGTcount: A:0.44, C:0.02, G:0.20, T:0.34
Consensus pattern (59 bp):
CTAAATGTAATTTAAAGAAAATTTAGGATCAAAATGAAATTTAAGGAAAGTTTAGGAGT
Found at i:51672546 original size:14 final size:15
Alignment explanation
Indices: 51672521--51672555 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
51672511 GTTAAAATGT
51672521 AATTTTTATTTTTAA
1 AATTTTTATTTTTAA
*
51672536 AATTTTT-TTTTTGA
1 AATTTTTATTTTTAA
51672550 AATTTT
1 AATTTT
51672556 GAAAATTAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (15 bp):
AATTTTTATTTTTAA
Found at i:51674297 original size:4 final size:4
Alignment explanation
Indices: 51674288--51674314 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
51674278 GCCTAAGCTA
51674288 TTTC TTTC TTTC TTTC TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTT
51674315 TTTGCAGAAA
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:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTC
Found at i:51676022 original size:20 final size:20
Alignment explanation
Indices: 51675997--51676034 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
51675987 TTGTATTAAT
51675997 TTATCAAAATAAAATAAATA
1 TTATCAAAATAAAATAAATA
*
51676017 TTATCAAAATAATATAAA
1 TTATCAAAATAAAATAAA
51676035 AAATTATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (20 bp):
TTATCAAAATAAAATAAATA
Found at i:51684674 original size:18 final size:18
Alignment explanation
Indices: 51684647--51684739 Score: 150
Period size: 18 Copynumber: 5.2 Consensus size: 18
51684637 TACGACCGTT
51684647 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
51684665 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
51684683 TACAGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
51684701 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
51684719 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
51684737 TAC
1 TAC
51684740 AGTAGTTGGG
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 68 1.00
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:51692433 original size:131 final size:131
Alignment explanation
Indices: 51692292--51692562 Score: 445
Period size: 131 Copynumber: 2.1 Consensus size: 131
51692282 TTTAAGTAAT
* * *
51692292 TTTTAGAAGACATGAACGAAATCTT-GAAGGGATACTCGATTATTTTGAGCAAACGCGAAATTGT
1 TTTTAAAAGACATGAACGAAAT-TTCGAAGCGATACTCAATTATTTTGAGCAAACGCGAAATTGT
* *
51692356 AACCTAACACGTTAGGGCACGATTCCGTGAATTACTAAATATCGAATGTCGTCTTCGTTTGGAAG
65 AACCCAACACGTTAGGGCACGATTCCGTGAATTACTAAATATCGAATGCCGTCTTCGTTTGGAAG
51692421 AA
130 AA
* *
51692423 TTTTAAAAGACATGAATGAAATTTCGAAGCGATATTCAATTATTTTGAGCAAACGCGAAATTGTA
1 TTTTAAAAGACATGAACGAAATTTCGAAGCGATACTCAATTATTTTGAGCAAACGCGAAATTGTA
*
51692488 ACCCAACACGTTAGGGCACGATTCCGTGAATTACTAAATATCGAATGCCGTCTTCGTTTTGAAGA
66 ACCCAACACGTTAGGGCACGATTCCGTGAATTACTAAATATCGAATGCCGTCTTCGTTTGGAAGA
51692553 A
131 A
*
51692554 TTTTTAAAG
1 TTTTAAAAG
51692563 GAATACTTAT
Statistics
Matches: 130, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
130 2 0.02
131 128 0.98
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (131 bp):
TTTTAAAAGACATGAACGAAATTTCGAAGCGATACTCAATTATTTTGAGCAAACGCGAAATTGTA
ACCCAACACGTTAGGGCACGATTCCGTGAATTACTAAATATCGAATGCCGTCTTCGTTTGGAAGA
A
Found at i:51696175 original size:13 final size:16
Alignment explanation
Indices: 51696142--51696187 Score: 53
Period size: 14 Copynumber: 3.1 Consensus size: 16
51696132 AAATGGACTC
51696142 TTTGGACTTATTTATT
1 TTTGGACTTATTTATT
51696158 TTTGGA-TT-TTTATT
1 TTTGGACTTATTTATT
* *
51696172 TTGGGTC-TATTTATT
1 TTTGGACTTATTTATT
51696187 T
1 T
51696188 ACAAATGAGC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
14 11 0.42
15 9 0.35
16 6 0.23
ACGTcount: A:0.15, C:0.04, G:0.15, T:0.65
Consensus pattern (16 bp):
TTTGGACTTATTTATT
Found at i:51701948 original size:10 final size:10
Alignment explanation
Indices: 51701843--51701951 Score: 55
Period size: 10 Copynumber: 10.7 Consensus size: 10
51701833 ATATTAAATT
*
51701843 TTATATAAAC
1 TTATAAAAAC
*
51701853 TTATAAAAAGAA
1 TTAT-AAAA-AC
51701865 TTATAAAAAC
1 TTATAAAAAC
*
51701875 TTAT-GAAAC
1 TTATAAAAAC
*
51701884 TTATAAAAAAA
1 TTAT-AAAAAC
*
51701895 TTTTAAAAA-
1 TTATAAAAAC
*
51701904 -TATAAAAAT
1 TTATAAAAAC
51701913 TTA-ATAAAAC
1 TTATA-AAAAC
* **
51701923 ATATTTAAAATT
1 -T-TATAAAAAC
51701935 TTATAAAAAC
1 TTATAAAAAC
51701945 TTATAAA
1 TTATAAA
51701952 TAATATAAAG
Statistics
Matches: 74, Mismatches: 15, Indels: 20
0.68 0.14 0.18
Matches are distributed among these distances:
8 7 0.09
9 9 0.12
10 33 0.45
11 15 0.20
12 9 0.12
13 1 0.01
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.35
Consensus pattern (10 bp):
TTATAAAAAC
Found at i:51702210 original size:19 final size:18
Alignment explanation
Indices: 51702186--51702225 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
51702176 GATATTCTCC
51702186 TTTTTATTGATAAATTATT
1 TTTTTATTGATAAATT-TT
**
51702205 TTTTTATTTTTAAATTTT
1 TTTTTATTGATAAATTTT
51702223 TTT
1 TTT
51702226 ATCTCCAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (18 bp):
TTTTTATTGATAAATTTT
Found at i:51703411 original size:15 final size:16
Alignment explanation
Indices: 51703379--51703419 Score: 66
Period size: 15 Copynumber: 2.6 Consensus size: 16
51703369 GTTTTTTATT
51703379 TTTTGGATTTAGGGTTA
1 TTTT-GATTTAGGGTTA
51703396 TTTTGATTTA-GGTTA
1 TTTTGATTTAGGGTTA
51703411 TTTTGATTT
1 TTTTGATTT
51703420 TGATTTCGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 14 0.58
16 6 0.25
17 4 0.17
ACGTcount: A:0.17, C:0.00, G:0.22, T:0.61
Consensus pattern (16 bp):
TTTTGATTTAGGGTTA
Found at i:51703470 original size:5 final size:6
Alignment explanation
Indices: 51703410--51703576 Score: 101
Period size: 6 Copynumber: 28.7 Consensus size: 6
51703400 GATTTAGGTT
* * * * * **
51703410 ATTTTG ATTTTG ATTTCG ATTCTA ATTCTA ATTTTG ATTTTG ATTTCA
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG
* ** **
51703458 ATTTTG A-TTTG ATTTTG ATTTTG ATTTAG -GGTT- ATTTTG -GGTT-
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG
* ** * * **
51703501 ATTTCG ATTTCA ATTTTG ATTTTG ACTCTG ATTTTG ATTTCA ATTTTG
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG
** *
51703549 ATTTAA ATTTTG ATTTTG ATTTCG ATTT
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTT
51703577 AGGGTTATTT
Statistics
Matches: 119, Mismatches: 37, Indels: 10
0.72 0.22 0.06
Matches are distributed among these distances:
5 11 0.09
6 108 0.91
ACGTcount: A:0.21, C:0.06, G:0.14, T:0.59
Consensus pattern (6 bp):
ATTTTG
Found at i:51703470 original size:17 final size:17
Alignment explanation
Indices: 51703439--51703484 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
51703429 TTCTAATTCT
51703439 AATTTTGATTTTGATTTC
1 AATTTTGA-TTTGATTTC
*
51703457 AATTTTGATTTGATTTT
1 AATTTTGATTTGATTTC
*
51703474 GATTTTGATTT
1 AATTTTGATTT
51703485 AGGGTTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 18 0.69
18 8 0.31
ACGTcount: A:0.22, C:0.02, G:0.13, T:0.63
Consensus pattern (17 bp):
AATTTTGATTTGATTTC
Found at i:51703787 original size:16 final size:16
Alignment explanation
Indices: 51703762--51703805 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
51703752 ACTGCTGTTT
*
51703762 ATTGTCTGTATCTGCC
1 ATTGTTTGTATCTGCC
*
51703778 ATTGTTTGTATCTGTC
1 ATTGTTTGTATCTGCC
*
51703794 ATTGTTTATATC
1 ATTGTTTGTATC
51703806 CTAGCTGCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.52
Consensus pattern (16 bp):
ATTGTTTGTATCTGCC
Found at i:51711291 original size:25 final size:25
Alignment explanation
Indices: 51711259--51711326 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 25
51711249 TACGTGCTGT
51711259 TGACTATTTTTTAATATGCATGTAG
1 TGACTATTTTTTAATATGCATGTAG
*
51711284 TGAGTATTTTTTTAATAATATGCATGTAG
1 TGACTA--TTTTT--TAATATGCATGTAG
*
51711313 TGACTGTTTTTTAA
1 TGACTATTTTTTAA
51711327 GTGTGTGTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
25 8 0.22
27 10 0.28
29 18 0.50
ACGTcount: A:0.28, C:0.06, G:0.16, T:0.50
Consensus pattern (25 bp):
TGACTATTTTTTAATATGCATGTAG
Found at i:51711294 original size:26 final size:28
Alignment explanation
Indices: 51711265--51711324 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 28
51711255 CTGTTGACTA
*
51711265 TTTTT-TAATATGCATGTAGTGAGTATT
1 TTTTTATAATATGCATGTAGTGACTATT
*
51711292 TTTTTAATAATATGCATGTAGTGACTGTT
1 TTTTT-ATAATATGCATGTAGTGACTATT
51711321 TTTT
1 TTTT
51711325 AAGTGTGTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 5 0.17
29 24 0.83
ACGTcount: A:0.25, C:0.05, G:0.17, T:0.53
Consensus pattern (28 bp):
TTTTTATAATATGCATGTAGTGACTATT
Found at i:51712028 original size:21 final size:21
Alignment explanation
Indices: 51712002--51712053 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
51711992 CAAGTGGTTT
*
51712002 CCCCAACTCAGCAATAG-GCTA
1 CCCCAACTCAGCAAGAGAG-TA
*
51712023 CCCCAAATCAGCAAGAGAGTA
1 CCCCAACTCAGCAAGAGAGTA
51712044 CCCCAACTCA
1 CCCCAACTCA
51712054 ACAGGCTGCC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 26 0.96
22 1 0.04
ACGTcount: A:0.37, C:0.38, G:0.13, T:0.12
Consensus pattern (21 bp):
CCCCAACTCAGCAAGAGAGTA
Found at i:51712559 original size:23 final size:24
Alignment explanation
Indices: 51712522--51712569 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
51712512 TCTTCTAACA
*
51712522 TATGAGTATTAAGAAA-ACAAATG
1 TATGAGGATTAAGAAATACAAATG
*
51712545 TATGAGGATTGAGAAATACAAATG
1 TATGAGGATTAAGAAATACAAATG
51712569 T
1 T
51712570 TCTTTTTCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.48, C:0.04, G:0.21, T:0.27
Consensus pattern (24 bp):
TATGAGGATTAAGAAATACAAATG
Found at i:51714184 original size:32 final size:32
Alignment explanation
Indices: 51714148--51714209 Score: 124
Period size: 32 Copynumber: 1.9 Consensus size: 32
51714138 GAGCAAAACA
51714148 TGCCAACTATGAAATGGTGATGGATTTAGCCC
1 TGCCAACTATGAAATGGTGATGGATTTAGCCC
51714180 TGCCAACTATGAAATGGTGATGGATTTAGC
1 TGCCAACTATGAAATGGTGATGGATTTAGC
51714210 TCTATTACCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (32 bp):
TGCCAACTATGAAATGGTGATGGATTTAGCCC
Found at i:51721611 original size:22 final size:23
Alignment explanation
Indices: 51721569--51721611 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
51721559 GCTATTATTT
* *
51721569 TCATTGTTTTTGTTGTTGTTTTG
1 TCATTGTTTTTGGTGTCGTTTTG
51721592 TCATTG-TTTTGGTGTCGTTT
1 TCATTGTTTTTGGTGTCGTTT
51721612 CACTATTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.05, C:0.07, G:0.23, T:0.65
Consensus pattern (23 bp):
TCATTGTTTTTGGTGTCGTTTTG
Found at i:51725611 original size:15 final size:16
Alignment explanation
Indices: 51725591--51725639 Score: 57
Period size: 15 Copynumber: 3.2 Consensus size: 16
51725581 GGTAATAAGT
51725591 AAATAA-AATAAAATA
1 AAATAATAATAAAATA
**
51725606 AAATAATTTTAAAATA
1 AAATAATAATAAAATA
*
51725622 AAA-AATAAAAAAATA
1 AAATAATAATAAAATA
51725637 AAA
1 AAA
51725640 CATATTGGTA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
15 18 0.64
16 10 0.36
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (16 bp):
AAATAATAATAAAATA
Found at i:51730330 original size:12 final size:12
Alignment explanation
Indices: 51730313--51730338 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
51730303 AAAGGCGATC
51730313 CCAAGTCCAAGA
1 CCAAGTCCAAGA
51730325 CCAAGTCCAAGA
1 CCAAGTCCAAGA
51730337 CC
1 CC
51730339 GGCGGTTCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.38, G:0.15, T:0.08
Consensus pattern (12 bp):
CCAAGTCCAAGA
Found at i:51737002 original size:26 final size:27
Alignment explanation
Indices: 51736947--51737002 Score: 64
Period size: 26 Copynumber: 2.1 Consensus size: 27
51736937 TGGGAAATGG
*
51736947 TTTACGAAAATATTTTCTATTTTCATT
1 TTTACGAAAATATTTTCTATTTTCAGT
51736974 TTTA-GAAAATAGTTTTC-A-TTTCTAGT
1 TTTACGAAAATA-TTTTCTATTTTC-AGT
51737000 TTT
1 TTT
51737003 TAAAAATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
25 4 0.15
26 13 0.50
27 9 0.35
ACGTcount: A:0.29, C:0.09, G:0.07, T:0.55
Consensus pattern (27 bp):
TTTACGAAAATATTTTCTATTTTCAGT
Found at i:51744117 original size:22 final size:24
Alignment explanation
Indices: 51744089--51744135 Score: 80
Period size: 22 Copynumber: 2.0 Consensus size: 24
51744079 AATTTGAATT
51744089 TTTTTGAATATTTT-AATA-TATA
1 TTTTTGAATATTTTGAATATTATA
51744111 TTTTTGAATATTTTGAATATTATA
1 TTTTTGAATATTTTGAATATTATA
51744135 T
1 T
51744136 AGAATTTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 14 0.61
23 4 0.17
24 5 0.22
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (24 bp):
TTTTTGAATATTTTGAATATTATA
Found at i:51748405 original size:24 final size:23
Alignment explanation
Indices: 51748378--51748447 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 23
51748368 TTGTTAACAT
51748378 TGTTCGTGAACATGTTCAATTATA
1 TGTTCGTGAACATGTTCAATTA-A
* * *
51748402 TGTTCATGACCATGTTCATTTAA
1 TGTTCGTGAACATGTTCAATTAA
* *
51748425 TGTTCGTAAACATGTTCGATTAA
1 TGTTCGTGAACATGTTCAATTAA
51748448 GTTAAATGAA
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
23 19 0.50
24 19 0.50
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (23 bp):
TGTTCGTGAACATGTTCAATTAA
Found at i:51756502 original size:30 final size:30
Alignment explanation
Indices: 51756466--51756530 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
51756456 ACTAGCAGGA
51756466 GATATATATATATATAAAAAAGGAGTCTTG
1 GATATATATATATATAAAAAAGGAGTCTTG
*
51756496 GATATATATATATATATAAAAGGAGTCTTG
1 GATATATATATATATAAAAAAGGAGTCTTG
51756526 GATAT
1 GATAT
51756531 GTGGATGAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.45, C:0.03, G:0.17, T:0.35
Consensus pattern (30 bp):
GATATATATATATATAAAAAAGGAGTCTTG
Found at i:51764703 original size:28 final size:28
Alignment explanation
Indices: 51764671--51764726 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
51764661 TCTCCTATCG
51764671 ACAAGAAGACATGATCTAAAAATTAATT
1 ACAAGAAGACATGATCTAAAAATTAATT
51764699 ACAAGAAGACATGATCTAAAAATTAATT
1 ACAAGAAGACATGATCTAAAAATTAATT
51764727 TTTCTTTTGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.54, C:0.11, G:0.11, T:0.25
Consensus pattern (28 bp):
ACAAGAAGACATGATCTAAAAATTAATT
Found at i:51770019 original size:22 final size:22
Alignment explanation
Indices: 51769991--51770032 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
51769981 AACATGAAGT
*
51769991 AAGAGAAGTAACCAGAGTTCTA
1 AAGAGAAGTAACCAAAGTTCTA
51770013 AAGAGAAGTAACCAAAGTTC
1 AAGAGAAGTAACCAAAGTTC
51770033 CAAAAATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.48, C:0.14, G:0.21, T:0.17
Consensus pattern (22 bp):
AAGAGAAGTAACCAAAGTTCTA
Found at i:51785048 original size:22 final size:22
Alignment explanation
Indices: 51785023--51785066 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
51785013 TAATCTTATA
51785023 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
51785045 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
51785067 TTTTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:51785104 original size:13 final size:14
Alignment explanation
Indices: 51785086--51785127 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
51785076 TTTCAACTTT
51785086 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
51785099 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
51785114 ATTTTAAATAATAT
1 ATTTT-AATAATAT
51785128 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:51785112 original size:16 final size:16
Alignment explanation
Indices: 51785090--51785126 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
51785080 AACTTTATTT
51785090 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
51785107 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
51785122 TAATA
1 TAATA
51785127 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:51785176 original size:15 final size:15
Alignment explanation
Indices: 51785156--51785215 Score: 57
Period size: 15 Copynumber: 3.7 Consensus size: 15
51785146 AATATTCGAT
51785156 ATAAATATTTTAATA
1 ATAAATATTTTAATA
*
51785171 ATAAATATTTATTATA
1 ATAAATATTT-TAATA
*
51785187 ATTATAAGTATATTAATA
1 A-TA-AA-TATTTTAATA
*
51785205 ATAAATGTTTT
1 ATAAATATTTT
51785216 GTAGTATAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
15 14 0.39
16 7 0.19
17 4 0.11
18 7 0.19
19 4 0.11
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (15 bp):
ATAAATATTTTAATA
Found at i:51793065 original size:23 final size:22
Alignment explanation
Indices: 51793022--51793075 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
51793012 AAAATTTTAG
*
51793022 TAAATAAAAAATTATTAAATAT
1 TAAATAAAAAATAATTAAATAT
* *
51793044 TAAATTAAAAATAATATCAATAT
1 TAAATAAAAAATAAT-TAAATAT
*
51793067 TTAA-AAAAA
1 TAAATAAAAA
51793076 TAAAAAGATT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 17 0.65
23 9 0.35
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAATAAAAAATAATTAAATAT
Found at i:51793530 original size:15 final size:15
Alignment explanation
Indices: 51793510--51793541 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
51793500 TTGATAATCA
51793510 TAATATATCTAGAAT
1 TAATATATCTAGAAT
51793525 TAATATATCTAGAAT
1 TAATATATCTAGAAT
51793540 TA
1 TA
51793542 GATTAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (15 bp):
TAATATATCTAGAAT
Found at i:51794301 original size:21 final size:20
Alignment explanation
Indices: 51794271--51794309 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
51794261 TCGTAGAACC
*
51794271 TTTTAAATAATAACTAATTAA
1 TTTTAAATAA-AAATAATTAA
*
51794292 TTTTATATAAAAATAATT
1 TTTTAAATAAAAATAATT
51794310 TTATCAATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (20 bp):
TTTTAAATAAAAATAATTAA
Found at i:51795823 original size:15 final size:15
Alignment explanation
Indices: 51795803--51795831 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
51795793 ACCCTCTAGT
51795803 TTTTTCTTTTTTTTC
1 TTTTTCTTTTTTTTC
51795818 TTTTTCTTTTTTTT
1 TTTTTCTTTTTTTT
51795832 AGTTTCTAGG
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:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (15 bp):
TTTTTCTTTTTTTTC
Found at i:51797291 original size:19 final size:19
Alignment explanation
Indices: 51797267--51797304 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
51797257 ACAATTTAAT
51797267 TATTTATCTAA-TAAATATA
1 TATTTA-CTAATTAAATATA
51797286 TATTTACTAATTAAATATA
1 TATTTACTAATTAAATATA
51797305 AATATTACAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (19 bp):
TATTTACTAATTAAATATA
Found at i:51807180 original size:3 final size:3
Alignment explanation
Indices: 51807174--51807201 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
51807164 CCAAAGGAGG
51807174 AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA A
51807202 AGGGATGGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:51807280 original size:6 final size:6
Alignment explanation
Indices: 51807269--51807294 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
51807259 ACTTAGTTCG
51807269 GATGAA GATGAA GATGAA GATGAA GA
1 GATGAA GATGAA GATGAA GATGAA GA
51807295 AGATACTGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.35, T:0.15
Consensus pattern (6 bp):
GATGAA
Found at i:51809064 original size:16 final size:16
Alignment explanation
Indices: 51809043--51809080 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
51809033 ATAAATCAAT
51809043 ATTTGCTTCGATTTTA
1 ATTTGCTTCGATTTTA
51809059 ATTTGCTTCGATTTTA
1 ATTTGCTTCGATTTTA
*
51809075 GTTTGC
1 ATTTGC
51809081 AAAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.16, C:0.13, G:0.16, T:0.55
Consensus pattern (16 bp):
ATTTGCTTCGATTTTA
Found at i:51812154 original size:24 final size:26
Alignment explanation
Indices: 51812107--51812160 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
51812097 ACACAAAGAT
51812107 TTAAAATAAATCATATATGAAAAAAA
1 TTAAAATAAATCATATATGAAAAAAA
*
51812133 TTAAAATGAAT-A-ATATGTAAAAACAA
1 TTAAAATAAATCATATATG-AAAAA-AA
51812159 TT
1 TT
51812161 TTGAAAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 5 0.20
25 6 0.24
26 14 0.56
ACGTcount: A:0.61, C:0.04, G:0.06, T:0.30
Consensus pattern (26 bp):
TTAAAATAAATCATATATGAAAAAAA
Found at i:51812508 original size:26 final size:27
Alignment explanation
Indices: 51812479--51812529 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
51812469 AATGTATACG
51812479 ATAACTTAAA-AATAAACAATATGTAT
1 ATAACTTAAATAATAAACAATATGTAT
* *
51812505 ATAATTTAAATAATACACAATATGT
1 ATAACTTAAATAATAAACAATATGT
51812530 GGAAACACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 9 0.41
27 13 0.59
ACGTcount: A:0.55, C:0.08, G:0.04, T:0.33
Consensus pattern (27 bp):
ATAACTTAAATAATAAACAATATGTAT
Found at i:51813339 original size:44 final size:44
Alignment explanation
Indices: 51813276--51813363 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
51813266 CGTATACGGG
51813276 GGTTAAGGGCATGCGAAAAGGGGCTTTTCACCTCCGGAGTTTAT
1 GGTTAAGGGCATGCGAAAAGGGGCTTTTCACCTCCGGAGTTTAT
51813320 GGTTAAGGGCATGCGAAAAGGGGCTTTTCACCTCCGGAGTTTAT
1 GGTTAAGGGCATGCGAAAAGGGGCTTTTCACCTCCGGAGTTTAT
51813364 TAGGATAGAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.23, C:0.18, G:0.32, T:0.27
Consensus pattern (44 bp):
GGTTAAGGGCATGCGAAAAGGGGCTTTTCACCTCCGGAGTTTAT
Found at i:51814339 original size:19 final size:17
Alignment explanation
Indices: 51814306--51814344 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 17
51814296 AATATCAATA
*
51814306 AAAATATTTTTAATATT
1 AAAATATTTTTAATAAT
51814323 AAAATATTTAATTAATAAT
1 AAAATATTT--TTAATAAT
51814342 AAA
1 AAA
51814345 TTGAATAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 9 0.47
19 10 0.53
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AAAATATTTTTAATAAT
Found at i:51815629 original size:11 final size:12
Alignment explanation
Indices: 51815608--51815645 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
51815598 TTTTTTTAAA
51815608 TATATTTAATTT
1 TATATTTAATTT
*
51815620 TTTA-TTAATTAT
1 TATATTTAATT-T
51815632 TATATTTAATTT
1 TATATTTAATTT
51815644 TA
1 TA
51815646 GAAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
11 6 0.27
12 10 0.45
13 6 0.27
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
TATATTTAATTT
Found at i:51815638 original size:19 final size:19
Alignment explanation
Indices: 51815593--51815638 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
51815583 GATATATTTT
51815593 TTATATTTTTTTAAATATA
1 TTATATTTTTTTAAATATA
*
51815612 TT-TAATTTTTTATTAAT-TA
1 TTAT-ATTTTTT-TAAATATA
51815631 TTATATTT
1 TTATATTT
51815639 AATTTTAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
18 1 0.04
19 17 0.74
20 5 0.22
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TTATATTTTTTTAAATATA
Found at i:51820717 original size:241 final size:241
Alignment explanation
Indices: 51820294--51820777 Score: 968
Period size: 241 Copynumber: 2.0 Consensus size: 241
51820284 ATTGTTGCAT
51820294 AACTCGATCTATAGATTCTCCTATTAGATTTGACTCTAATCCGGTAGATTTATGTCTTCCTATTT
1 AACTCGATCTATAGATTCTCCTATTAGATTTGACTCTAATCCGGTAGATTTATGTCTTCCTATTT
51820359 CTAGGATTGTATGCAACTCCACTCAATTATGCCATATCTACTCTTAAATAAGGACTTTTGCCCCA
66 CTAGGATTGTATGCAACTCCACTCAATTATGCCATATCTACTCTTAAATAAGGACTTTTGCCCCA
51820424 GTGAAATAAGCACATCATACTTGAATTAATATCCTAAAAATATTAAAGTAAGAAATAGCATACAT
131 GTGAAATAAGCACATCATACTTGAATTAATATCCTAAAAATATTAAAGTAAGAAATAGCATACAT
51820489 AATTGAGAACAAGAATCAAGTATTTATCATATAATTTAGAAAATCA
196 AATTGAGAACAAGAATCAAGTATTTATCATATAATTTAGAAAATCA
51820535 AACTCGATCTATAGATTCTCCTATTAGATTTGACTCTAATCCGGTAGATTTATGTCTTCCTATTT
1 AACTCGATCTATAGATTCTCCTATTAGATTTGACTCTAATCCGGTAGATTTATGTCTTCCTATTT
51820600 CTAGGATTGTATGCAACTCCACTCAATTATGCCATATCTACTCTTAAATAAGGACTTTTGCCCCA
66 CTAGGATTGTATGCAACTCCACTCAATTATGCCATATCTACTCTTAAATAAGGACTTTTGCCCCA
51820665 GTGAAATAAGCACATCATACTTGAATTAATATCCTAAAAATATTAAAGTAAGAAATAGCATACAT
131 GTGAAATAAGCACATCATACTTGAATTAATATCCTAAAAATATTAAAGTAAGAAATAGCATACAT
51820730 AATTGAGAACAAGAATCAAGTATTTATCATATAATTTAGAAAATCA
196 AATTGAGAACAAGAATCAAGTATTTATCATATAATTTAGAAAATCA
51820776 AA
1 AA
51820778 TAATAAGATC
Statistics
Matches: 243, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
241 243 1.00
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (241 bp):
AACTCGATCTATAGATTCTCCTATTAGATTTGACTCTAATCCGGTAGATTTATGTCTTCCTATTT
CTAGGATTGTATGCAACTCCACTCAATTATGCCATATCTACTCTTAAATAAGGACTTTTGCCCCA
GTGAAATAAGCACATCATACTTGAATTAATATCCTAAAAATATTAAAGTAAGAAATAGCATACAT
AATTGAGAACAAGAATCAAGTATTTATCATATAATTTAGAAAATCA
Found at i:51823157 original size:16 final size:16
Alignment explanation
Indices: 51823136--51823204 Score: 129
Period size: 16 Copynumber: 4.3 Consensus size: 16
51823126 TTGGTTCGCT
51823136 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
*
51823152 GTAATGGAATAGAGAC
1 GTAATGGAATAGAGGC
51823168 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
51823184 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
51823200 GTAAT
1 GTAAT
51823205 AGCAATTCAA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 51 1.00
ACGTcount: A:0.39, C:0.06, G:0.35, T:0.20
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:51823285 original size:39 final size:43
Alignment explanation
Indices: 51823184--51823292 Score: 138
Period size: 45 Copynumber: 2.6 Consensus size: 43
51823174 GAATAGAGGC
51823184 GTAATGGAATAGAGGCGTAATAGCAATTCAATTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGCAATTCAATTGTTTGGTT--AT
* *
51823229 GTAATGGAATAGAGGCGTAATAG-TATTC-TTGTGTTTGG-T-T
1 GTAATGGAATAGAGGCGTAATAGCAATTCAAT-TGTTTGGTTAT
51823269 G-AATGGAATAGAGGCGTAATAGCA
1 GTAATGGAATAGAGGCGTAATAGCA
51823293 GAAGGAAAAA
Statistics
Matches: 59, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
39 21 0.36
40 2 0.03
43 2 0.03
44 11 0.19
45 23 0.39
ACGTcount: A:0.32, C:0.06, G:0.29, T:0.32
Consensus pattern (43 bp):
GTAATGGAATAGAGGCGTAATAGCAATTCAATTGTTTGGTTAT
Found at i:51823410 original size:21 final size:20
Alignment explanation
Indices: 51823386--51823472 Score: 53
Period size: 19 Copynumber: 4.5 Consensus size: 20
51823376 AATAAGATTA
51823386 TTAATATAAATAATAAATAAT
1 TTAATATAAATAA-AAATAAT
* *
51823407 TTAATAATAATTTAAAATAA-
1 TTAAT-ATAAATAAAAATAAT
* *
51823427 TT-AT-T-ATTAAATATAAT
1 TTAATATAAATAAAAATAAT
*
51823444 TTAATA-AAA-AATATATAAT
1 TTAATATAAATAA-AAATAAT
51823463 TTAATA-AAAT
1 TTAATATAAAT
51823473 TCTTAATATA
Statistics
Matches: 54, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
16 9 0.17
17 3 0.06
18 4 0.07
19 19 0.35
20 2 0.04
21 11 0.20
22 6 0.11
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
TTAATATAAATAAAAATAAT
Found at i:51823415 original size:11 final size:11
Alignment explanation
Indices: 51823396--51823428 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
51823386 TTAATATAAA
51823396 TAATAAATAATT
1 TAAT-AATAATT
51823408 TAATAATAATT
1 TAATAATAATT
51823419 TAA-AATAATT
1 TAATAATAATT
51823429 ATTATTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 7 0.33
11 10 0.48
12 4 0.19
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
TAATAATAATT
Found at i:51823449 original size:24 final size:21
Alignment explanation
Indices: 51823373--51823485 Score: 79
Period size: 21 Copynumber: 5.1 Consensus size: 21
51823363 GTTATTAAAT
51823373 TTTAATAAGATTATTAATATAA
1 TTTAATAA-ATTATTAATATAA
* *
51823395 -ATAATAAATAATTTAATAATAA
1 TTTAATAAATTA-TTAAT-ATAA
51823417 TTTAAAATAATTATTATTAAATATAA
1 TTT--AATAA--ATTATT-AATATAA
* *
51823443 TTTAATAAA-AAAT-ATATAA
1 TTTAATAAATTATTAATATAA
*
51823462 TTTAATAAAATTCTTAATATAA
1 TTTAAT-AAATTATTAATATAA
51823484 TT
1 TT
51823486 ATTCTTATAT
Statistics
Matches: 71, Mismatches: 9, Indels: 22
0.70 0.09 0.22
Matches are distributed among these distances:
19 12 0.17
20 6 0.08
21 14 0.20
22 13 0.18
23 1 0.01
24 5 0.07
25 5 0.07
26 9 0.13
27 6 0.08
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (21 bp):
TTTAATAAATTATTAATATAA
Found at i:51823452 original size:29 final size:28
Alignment explanation
Indices: 51823419--51823509 Score: 71
Period size: 29 Copynumber: 3.2 Consensus size: 28
51823409 AATAATAATT
51823419 TAAAATAATTATTATTAAATATAATTTAA
1 TAAAATAATTATTATTAAATATAATTT-A
* * *
51823448 TAAAA-AATATATAATTTAATAAAATTCT-
1 TAAAATAAT-TATTATTAAATATAATT-TA
* * *
51823476 TAATATAATTATTCTTATAT-TAATTTA
1 TAAAATAATTATTATTAAATATAATTTA
51823503 CTAAAAT
1 -TAAAAT
51823510 CATAATATAT
Statistics
Matches: 47, Mismatches: 10, Indels: 11
0.69 0.15 0.16
Matches are distributed among these distances:
26 1 0.02
27 4 0.09
28 19 0.40
29 22 0.47
30 1 0.02
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (28 bp):
TAAAATAATTATTATTAAATATAATTTA
Found at i:51823462 original size:56 final size:57
Alignment explanation
Indices: 51823386--51823514 Score: 156
Period size: 56 Copynumber: 2.3 Consensus size: 57
51823376 AATAAGATTA
51823386 TTAATATAAATAATAAATAATTTAATAATAA-T-TTAAAATAATTATTATTAAATATAAT
1 TTAATA-AAATAATAAATAATTTAATAA-AATTCTTAAAATAATTATTATTAAAT-TAAT
* * * *
51823444 TTAATAAAA-AATATATAATTTAATAAAATTCTTAATATAATTATTCTTATATTAAT
1 TTAATAAAATAATAAATAATTTAATAAAATTCTTAAAATAATTATTATTAAATTAAT
* *
51823500 TTACTAAAATCATAA
1 TTAATAAAATAATAA
51823515 TATATAATAA
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
55 2 0.03
56 29 0.48
57 24 0.39
58 6 0.10
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (57 bp):
TTAATAAAATAATAAATAATTTAATAAAATTCTTAAAATAATTATTATTAAATTAAT
Found at i:51823926 original size:77 final size:77
Alignment explanation
Indices: 51823799--51823950 Score: 295
Period size: 77 Copynumber: 2.0 Consensus size: 77
51823789 TTTTTGTCCA
51823799 CTTTAATAATTGAACTTGACAATTAGATATATTTTAATCTTTGAACTTGAAATATATAAAATTTT
1 CTTTAATAATTGAACTTGACAATTAGATATATTTTAATCTTTGAACTTGAAATATATAAAATTTT
51823864 ATTGACATAACT
66 ATTGACATAACT
*
51823876 CTTTAATAATTGAACTTGACAATTAGATATATTTTAATCTTTGAACTTGAAATGTATAAAATTTT
1 CTTTAATAATTGAACTTGACAATTAGATATATTTTAATCTTTGAACTTGAAATATATAAAATTTT
51823941 ATTGACATAA
66 ATTGACATAA
51823951 AACTTTAAGA
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 74 1.00
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.43
Consensus pattern (77 bp):
CTTTAATAATTGAACTTGACAATTAGATATATTTTAATCTTTGAACTTGAAATATATAAAATTTT
ATTGACATAACT
Found at i:51826510 original size:53 final size:54
Alignment explanation
Indices: 51826426--51826532 Score: 207
Period size: 53 Copynumber: 2.0 Consensus size: 54
51826416 GCAGTGAATT
51826426 TCAAAAACCACAACAAAATGACAGGGAAAAAATGAAAAAAGAGACCGAGAGAGA
1 TCAAAAACCACAACAAAATGACAGGGAAAAAATGAAAAAAGAGACCGAGAGAGA
51826480 TCAAAAACCACAAC-AAATGACAGGGAAAAAATGAAAAAAGAGACCGAGAGAGA
1 TCAAAAACCACAACAAAATGACAGGGAAAAAATGAAAAAAGAGACCGAGAGAGA
51826533 GAATAGGTAA
Statistics
Matches: 53, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
53 39 0.74
54 14 0.26
ACGTcount: A:0.59, C:0.15, G:0.21, T:0.06
Consensus pattern (54 bp):
TCAAAAACCACAACAAAATGACAGGGAAAAAATGAAAAAAGAGACCGAGAGAGA
Found at i:51826950 original size:22 final size:22
Alignment explanation
Indices: 51826906--51826950 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
51826896 CAAAAACAAC
* ***
51826906 TTTTTGTGACGTTTTTCTCTTG
1 TTTTTGTAACGTTTTTAAATTG
51826928 TTTTTGTAACGTTTTTAAATTG
1 TTTTTGTAACGTTTTTAAATTG
51826950 T
1 T
51826951 CACAAAAAGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.13, C:0.09, G:0.16, T:0.62
Consensus pattern (22 bp):
TTTTTGTAACGTTTTTAAATTG
Found at i:51831077 original size:53 final size:54
Alignment explanation
Indices: 51830993--51831099 Score: 207
Period size: 53 Copynumber: 2.0 Consensus size: 54
51830983 GCAGTGAATT
51830993 TCAAAAACCACAACAAAATGACAGGGAAAAAATGAAAAAAGAGACCGAGAGAGA
1 TCAAAAACCACAACAAAATGACAGGGAAAAAATGAAAAAAGAGACCGAGAGAGA
51831047 TCAAAAACCACAAC-AAATGACAGGGAAAAAATGAAAAAAGAGACCGAGAGAGA
1 TCAAAAACCACAACAAAATGACAGGGAAAAAATGAAAAAAGAGACCGAGAGAGA
51831100 GAATAGGTAA
Statistics
Matches: 53, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
53 39 0.74
54 14 0.26
ACGTcount: A:0.59, C:0.15, G:0.21, T:0.06
Consensus pattern (54 bp):
TCAAAAACCACAACAAAATGACAGGGAAAAAATGAAAAAAGAGACCGAGAGAGA
Found at i:51834354 original size:3 final size:3
Alignment explanation
Indices: 51834339--51834447 Score: 83
Period size: 3 Copynumber: 36.0 Consensus size: 3
51834329 TTTAAGATTT
* * ** * * * * * *
51834339 TTA TTA TTG TTA TTA TTA TTA TTA ATA CCA TCA TCA TCA TCA TCA TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* **
51834387 TGA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTA CCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
*
51834433 GTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA
51834448 AATTTTTTTA
Statistics
Matches: 92, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
3 89 0.97
4 3 0.03
ACGTcount: A:0.33, C:0.09, G:0.03, T:0.55
Consensus pattern (3 bp):
TTA
Found at i:51840475 original size:37 final size:38
Alignment explanation
Indices: 51840411--51840483 Score: 103
Period size: 37 Copynumber: 1.9 Consensus size: 38
51840401 TTAATTCATA
* *
51840411 TAATAATTATATTAAAAATATTATTAAATTATATTTAG
1 TAATAATTATATTAAAAATATGATTAAAATATATTTAG
* *
51840449 TAATAATTATGTT-AAAATATGGTTAAAATATATTT
1 TAATAATTATATTAAAAATATGATTAAAATATATTT
51840484 TAAAATAGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 19 0.61
38 12 0.39
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.47
Consensus pattern (38 bp):
TAATAATTATATTAAAAATATGATTAAAATATATTTAG
Found at i:51840693 original size:16 final size:16
Alignment explanation
Indices: 51840672--51840725 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
51840662 TGAGTTATTG
51840672 ATTACAACTTTATTCC
1 ATTACAACTTTATTCC
*
51840688 ATTACAACTTTATTCA
1 ATTACAACTTTATTCC
* *
51840704 ATTACAGCCTTATTCC
1 ATTACAACTTTATTCC
51840720 ATTACA
1 ATTACA
51840726 GTGAACCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.33, C:0.24, G:0.02, T:0.41
Consensus pattern (16 bp):
ATTACAACTTTATTCC
Found at i:51849727 original size:22 final size:23
Alignment explanation
Indices: 51849702--51849745 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
51849692 ATATTTGCAT
51849702 TTTCAAAATTTAT-AAAAAAAAC
1 TTTCAAAATTTATCAAAAAAAAC
* *
51849724 TTTCAAACTTTTTCAAAAAAAA
1 TTTCAAAATTTATCAAAAAAAA
51849746 AATTAAGCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (23 bp):
TTTCAAAATTTATCAAAAAAAAC
Found at i:51849926 original size:30 final size:27
Alignment explanation
Indices: 51849852--51849954 Score: 77
Period size: 27 Copynumber: 3.7 Consensus size: 27
51849842 CTCCTGCTTT
*
51849852 TATTAAAAA-TTAGAAAAAAAATTATAAAA
1 TATTAAAAATTTA-ATAAAAAA-T-TAAAA
* * *
51849881 AATT-AAAA-TCAATAAAACATATAAATA
1 TATTAAAAATTTAATAAAAAAT-TAAA-A
* *
51849908 TTATTTAAATTTTAATAAAAAATTAAAA
1 -TATTAAAAATTTAATAAAAAATTAAAA
51849936 TATTAAAAATTTAATAAAA
1 TATTAAAAATTTAATAAAA
51849955 TTTATAAAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
26 6 0.10
27 24 0.40
28 10 0.17
29 10 0.17
30 10 0.17
ACGTcount: A:0.64, C:0.02, G:0.01, T:0.33
Consensus pattern (27 bp):
TATTAAAAATTTAATAAAAAATTAAAA
Found at i:51849956 original size:10 final size:9
Alignment explanation
Indices: 51849931--51850050 Score: 50
Period size: 9 Copynumber: 12.4 Consensus size: 9
51849921 AATAAAAAAT
51849931 TAAAATATTA
1 TAAAAT-TTA
51849941 -AAAATTTAA
1 TAAAATTT-A
51849950 TAAAATTTA
1 TAAAATTTA
*
51849959 TAAAATAATA
1 TAAAAT-TTA
* *
51849969 GAAAAATCGTA
1 -TAAAAT-TTA
51849980 -AAAATATATA
1 TAAAAT-T-TA
*
51849990 TAAAAATTA
1 TAAAATTTA
51849999 TAAAATTTTA
1 TAAAA-TTTA
*
51850009 TAAAAATCGTAA
1 T-AAAAT--TTA
*
51850021 AAAAATTTA
1 TAAAATTTA
51850030 TAAAA--TA
1 TAAAATTTA
51850037 TAAAATTCTA
1 TAAAATT-TA
51850047 TAAA
1 TAAA
51850051 GTCATAGAAA
Statistics
Matches: 85, Mismatches: 12, Indels: 26
0.69 0.10 0.21
Matches are distributed among these distances:
7 7 0.08
8 2 0.02
9 31 0.36
10 23 0.27
11 20 0.24
12 2 0.02
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (9 bp):
TAAAATTTA
Found at i:51849974 original size:20 final size:21
Alignment explanation
Indices: 51849951--51850004 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
51849941 AAAATTTAAT
51849951 AAAATTTATAAAATA-ATAGA
1 AAAATTTATAAAATATATAGA
* *
51849971 AAAATCGTA-AAAATATATATA
1 AAAAT-TTATAAAATATATAGA
51849992 AAAA-TTATAAAAT
1 AAAATTTATAAAAT
51850005 TTTATAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
19 2 0.07
20 16 0.57
21 10 0.36
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.30
Consensus pattern (21 bp):
AAAATTTATAAAATATATAGA
Found at i:51849996 original size:21 final size:21
Alignment explanation
Indices: 51849960--51850034 Score: 77
Period size: 21 Copynumber: 3.7 Consensus size: 21
51849950 TAAAATTTAT
*
51849960 AAAATA-ATAGAAAAATCGTA
1 AAAATATATATAAAAATCGTA
51849980 AAAATATATATAAAAAT--TA
1 AAAATATATATAAAAATCGTA
*
51849999 TAAAAT-TTTATAAAAATCGTA
1 -AAAATATATATAAAAATCGTA
* *
51850020 AAAAAATTTATAAAA
1 AAAATATATATAAAA
51850035 TATAAAATTC
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
19 12 0.26
20 15 0.32
21 20 0.43
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.29
Consensus pattern (21 bp):
AAAATATATATAAAAATCGTA
Found at i:51850001 original size:40 final size:40
Alignment explanation
Indices: 51849939--51850042 Score: 124
Period size: 40 Copynumber: 2.7 Consensus size: 40
51849929 ATTAAAATAT
* *
51849939 TAAAAATTTA-ATAAAATTTATAAAATAATAGAAAAATCG
1 TAAAAATATATATAAAAATTATAAAATAATAGAAAAATCG
** *
51849978 TAAAAATATATATAAAAATTATAAAATTTTATAAAAATCG
1 TAAAAATATATATAAAAATTATAAAATAATAGAAAAATCG
* *
51850018 TAAAAAAATTTAT-AAAA-TATAAAAT
1 TAAAAATATATATAAAAATTATAAAAT
51850043 TCTATAAAGT
Statistics
Matches: 57, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
38 8 0.14
39 13 0.23
40 36 0.63
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (40 bp):
TAAAAATATATATAAAAATTATAAAATAATAGAAAAATCG
Found at i:51850014 original size:19 final size:19
Alignment explanation
Indices: 51849931--51850050 Score: 77
Period size: 19 Copynumber: 6.2 Consensus size: 19
51849921 AATAAAAAAT
*
51849931 TAAAATATTA-AAAATTTAA
1 TAAAA-ATTATAAAATTTTA
* **
51849950 TAAAATTTATAAAATAATA
1 TAAAAATTATAAAATTTTA
* *
51849969 GAAAAATCGTA-AAAATATATA
1 TAAAAAT--TATAAAAT-TTTA
51849990 TAAAAATTATAAAATTTTA
1 TAAAAATTATAAAATTTTA
* *
51850009 TAAAAATCGTAAAAAAATTTA
1 TAAAAAT--TATAAAATTTTA
*
51850030 T-AAAA-TATAAAATTCTA
1 TAAAAATTATAAAATTTTA
51850047 TAAA
1 TAAA
51850051 GTCATAGAAA
Statistics
Matches: 79, Mismatches: 14, Indels: 17
0.72 0.13 0.15
Matches are distributed among these distances:
17 10 0.13
18 5 0.06
19 28 0.35
20 14 0.18
21 22 0.28
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (19 bp):
TAAAAATTATAAAATTTTA
Found at i:51850199 original size:19 final size:19
Alignment explanation
Indices: 51850177--51850218 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
51850167 TTTCTATTTA
** *
51850177 TTTTATAATTTTTTATGAT
1 TTTTATAAAATTTTATAAT
51850196 TTTTATAAAATTTTATAAT
1 TTTTATAAAATTTTATAAT
51850215 TTTT
1 TTTT
51850219 TATATATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (19 bp):
TTTTATAAAATTTTATAAT
Found at i:51850219 original size:10 final size:10
Alignment explanation
Indices: 51850177--51850222 Score: 58
Period size: 10 Copynumber: 4.7 Consensus size: 10
51850167 TTTCTATTTA
51850177 TTTTATAATT
1 TTTTATAATT
*
51850187 TTTTATGA-T
1 TTTTATAATT
**
51850196 TTTTATAAAA
1 TTTTATAATT
51850206 TTTTATAATT
1 TTTTATAATT
51850216 TTTTATA
1 TTTTATA
51850223 TATATAAACT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
9 8 0.27
10 22 0.73
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (10 bp):
TTTTATAATT
Found at i:51850459 original size:27 final size:28
Alignment explanation
Indices: 51850429--51850492 Score: 103
Period size: 27 Copynumber: 2.3 Consensus size: 28
51850419 TTTATAAAAA
51850429 ATATTTTTAATAAAATTTAA-ATTTTTT
1 ATATTTTTAATAAAATTTAATATTTTTT
*
51850456 ATATTTTTATTAAAATTTAATATTTTTT
1 ATATTTTTAATAAAATTTAATATTTTTT
51850484 ATAGTTTTT
1 ATA-TTTTT
51850493 TTTCTAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 19 0.56
28 10 0.29
29 5 0.15
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (28 bp):
ATATTTTTAATAAAATTTAATATTTTTT
Found at i:51858856 original size:26 final size:26
Alignment explanation
Indices: 51858800--51858856 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
51858790 TTTTTTATAT
* * *
51858800 AATTTTTTAATTTTAAATTCAAAATA
1 AATTTTTAAAATTGAAATTCAAAATA
* * *
51858826 CATTTTTAAAATTGAAATTGAAATTA
1 AATTTTTAAAATTGAAATTCAAAATA
51858852 AATTT
1 AATTT
51858857 ATTCAAACGT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.47
Consensus pattern (26 bp):
AATTTTTAAAATTGAAATTCAAAATA
Found at i:51858888 original size:155 final size:151
Alignment explanation
Indices: 51858597--51858892 Score: 328
Period size: 155 Copynumber: 1.9 Consensus size: 151
51858587 AAAAGACAGC
* *
51858597 TTTAAAATTTGATATGAAATTGGCTAGGTATATTGTCAGTTTTAAGATAATTTTTTTTAATTTTA
1 TTTAAAATTTGAAATAAAATTGGCTAGGTATATTGTCAGTTTTAAGATAA-TTTTTTTAATTTTA
** * * *
51858662 AATTTGAAATAATTTTTTAAAAATTAAAATTAAAATTTAAAGGTTAAATAAAGAGATGAGATTTT
65 AATTCAAAATAATTTTTAAAAAATTAAAATTAAAATTCAAACGTTAAATAAAGAGAT---ATTTT
51858727 ATTTTTAAATAAATCAAATGATCAT
127 ATTTTTAAATAAATCAAATGATCAT
* * * * * *
51858752 TTTAAAATTTGAAATAAAATTGGTTAGGTATATTTTGATTTTTTATATAA-TTTTTTAATTTTAA
1 TTTAAAATTTGAAATAAAATTGGCTAGGTATATTGTCAGTTTTAAGATAATTTTTTTAATTTTAA
*
51858816 ATTCAAAATACATTTTTAAAATTGAAATTGAAATTAAATTTATTCAAACGTTAAATAAAGAG-T-
66 ATTCAAAATA-ATTTTT-AAA---AAATTAAAATTAAA---ATTCAAACGTTAAATAAAGAGATA
*
51858879 TTTTATTTTAAAAT
123 TTTTATTTTTAAAT
51858893 GAAAATTTAT
Statistics
Matches: 118, Mismatches: 15, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
153 22 0.19
154 6 0.05
155 44 0.37
156 13 0.11
158 13 0.11
160 1 0.01
161 19 0.16
ACGTcount: A:0.42, C:0.03, G:0.09, T:0.46
Consensus pattern (151 bp):
TTTAAAATTTGAAATAAAATTGGCTAGGTATATTGTCAGTTTTAAGATAATTTTTTTAATTTTAA
ATTCAAAATAATTTTTAAAAAATTAAAATTAAAATTCAAACGTTAAATAAAGAGATATTTTATTT
TTAAATAAATCAAATGATCAT
Found at i:51859315 original size:18 final size:18
Alignment explanation
Indices: 51859294--51859329 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
51859284 ATTATGCATC
51859294 TTTACCTTATTTTATTAT
1 TTTACCTTATTTTATTAT
51859312 TTTACCTTATTTTATTAT
1 TTTACCTTATTTTATTAT
51859330 AATATTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.11, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTACCTTATTTTATTAT
Found at i:51859321 original size:10 final size:10
Alignment explanation
Indices: 51859294--51859325 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
51859284 ATTATGCATC
51859294 TTTACCTTAT
1 TTTACCTTAT
51859304 TTTA--TTAT
1 TTTACCTTAT
51859312 TTTACCTTAT
1 TTTACCTTAT
51859322 TTTA
1 TTTA
51859326 TTATAATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
8 8 0.40
10 12 0.60
ACGTcount: A:0.22, C:0.12, G:0.00, T:0.66
Consensus pattern (10 bp):
TTTACCTTAT
Found at i:51860790 original size:12 final size:12
Alignment explanation
Indices: 51860773--51860804 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
51860763 ATTTTTTACC
51860773 TATTTACTCACT
1 TATTTACTCACT
*
51860785 TATTTATTCACT
1 TATTTACTCACT
51860797 TATTTACT
1 TATTTACT
51860805 TCAATTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.25, C:0.19, G:0.00, T:0.56
Consensus pattern (12 bp):
TATTTACTCACT
Found at i:51862875 original size:15 final size:16
Alignment explanation
Indices: 51862849--51862878 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
51862839 AAAATATAAT
51862849 TTTATCATTTTTATAG
1 TTTATCATTTTTATAG
51862865 TTTAT-ATTTTTATA
1 TTTATCATTTTTATA
51862879 ATTTGTAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.67
Consensus pattern (16 bp):
TTTATCATTTTTATAG
Found at i:51871235 original size:83 final size:83
Alignment explanation
Indices: 51871096--51871261 Score: 332
Period size: 83 Copynumber: 2.0 Consensus size: 83
51871086 TGGCTTTAGG
51871096 GCTCTATTTGCAATCATTGGTCACCTTACTCCTTGTTTCAATGGACATGAATTTAGTGGTTTAGG
1 GCTCTATTTGCAATCATTGGTCACCTTACTCCTTGTTTCAATGGACATGAATTTAGTGGTTTAGG
51871161 TTCAAAAAAGGGGGGAAA
66 TTCAAAAAAGGGGGGAAA
51871179 GCTCTATTTGCAATCATTGGTCACCTTACTCCTTGTTTCAATGGACATGAATTTAGTGGTTTAGG
1 GCTCTATTTGCAATCATTGGTCACCTTACTCCTTGTTTCAATGGACATGAATTTAGTGGTTTAGG
51871244 TTCAAAAAAGGGGGGAAA
66 TTCAAAAAAGGGGGGAAA
51871262 AAAGGATATC
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 83 1.00
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.34
Consensus pattern (83 bp):
GCTCTATTTGCAATCATTGGTCACCTTACTCCTTGTTTCAATGGACATGAATTTAGTGGTTTAGG
TTCAAAAAAGGGGGGAAA
Found at i:51885232 original size:192 final size:191
Alignment explanation
Indices: 51884903--51885282 Score: 645
Period size: 192 Copynumber: 2.0 Consensus size: 191
51884893 AGTTAAATTG
* *
51884903 ATAAAAAAAATCCGTTCCTCTCTTAATACGTATTTTGGGCCTCGAGGGTATTTTATAAAGACTTA
1 ATAAAAAAAATCCGTTCCACTCCTAATACGTATTTTGGGCCTCGAGGGTATTTTATAAAGACTTA
51884968 AAAGTTAAACTATGCTATGAATGTTATTTATTTATGAATTATTTCTAAGTTGTTCAATATGTCCG
66 AAAGTTAAACTATGCTATGAATGTTATTTATTTATGAATTATTTCTAAGTTGTTCAATATGTCCG
* **
51885033 ATAATGCTCCGTAACCCTGATCCGGCGACGGTTTAGGGTTAA-AGGGTGTTACATTTATATA
131 ATAATGCTCCGTAACCCTGATCCGACGACAATTTAGGGTTAAGA-GGTGTTACATTTATATA
** * *
51885094 ATAAAAAAAATTTTGTTCCACTCCTAATACGTATTTTGGGTCTCGAGGGTCTTTTATAAAGACTT
1 ATAAAAAAAA-TCCGTTCCACTCCTAATACGTATTTTGGGCCTCGAGGGTATTTTATAAAGACTT
51885159 AAAAGTTAAACTATGCTATGAATGTTATTTATTTATGAATTATTTCTAAGTTGTTCAATATGTCC
65 AAAAGTTAAACTATGCTATGAATGTTATTTATTTATGAATTATTTCTAAGTTGTTCAATATGTCC
*
51885224 GATAATGCTCCGTAACCCTGATCTGACGACAATTTAGGGTTAAGAGGTGTTACATTTAT
130 GATAATGCTCCGTAACCCTGATCCGACGACAATTTAGGGTTAAGAGGTGTTACATTTAT
51885283 TGGTATCAGA
Statistics
Matches: 177, Mismatches: 10, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
191 10 0.06
192 166 0.94
193 1 0.01
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (191 bp):
ATAAAAAAAATCCGTTCCACTCCTAATACGTATTTTGGGCCTCGAGGGTATTTTATAAAGACTTA
AAAGTTAAACTATGCTATGAATGTTATTTATTTATGAATTATTTCTAAGTTGTTCAATATGTCCG
ATAATGCTCCGTAACCCTGATCCGACGACAATTTAGGGTTAAGAGGTGTTACATTTATATA
Found at i:51891189 original size:35 final size:35
Alignment explanation
Indices: 51891162--51891327 Score: 172
Period size: 35 Copynumber: 4.6 Consensus size: 35
51891152 CATGGAAAAG
*
51891162 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
51891197 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
51891232 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGC
** * * * *
51891272 TAAGAAATGTAGGTATGGCAT-TTCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGC
**
51891307 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
51891328 TTCAATGAGG
Statistics
Matches: 113, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
34 1 0.01
35 79 0.70
37 2 0.02
38 3 0.03
40 28 0.25
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
Found at i:51891281 original size:75 final size:75
Alignment explanation
Indices: 51891162--51891332 Score: 221
Period size: 75 Copynumber: 2.4 Consensus size: 75
51891152 CATGGAAAAG
** *
51891162 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
51891221 CCATACTGAGC
65 CCATACCGAGC
51891232 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
51891297 CATACCGAGT
66 CATACCGAGC
**
51891307 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
51891333 TGAGGAAAAC
Statistics
Matches: 88, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
70 18 0.20
73 4 0.05
74 5 0.06
75 61 0.69
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:51893298 original size:7 final size:7
Alignment explanation
Indices: 51893286--51893332 Score: 55
Period size: 7 Copynumber: 7.1 Consensus size: 7
51893276 GATATTTTTG
51893286 ATATATA
1 ATATATA
*
51893293 ATATATT
1 ATATATA
51893300 ATAT-TA
1 ATATATA
*
51893306 TTATATA
1 ATATATA
51893313 ATATAT-
1 ATATATA
51893319 A-ATATA
1 ATATATA
51893325 ATATATA
1 ATATATA
51893332 A
1 A
51893333 AACATAAAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
5 4 0.12
6 6 0.18
7 23 0.70
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
ATATATA
Found at i:51893325 original size:12 final size:12
Alignment explanation
Indices: 51893286--51893332 Score: 58
Period size: 12 Copynumber: 3.7 Consensus size: 12
51893276 GATATTTTTG
51893286 ATATATAATATA
1 ATATATAATATA
*
51893298 TTATATTATTATATA
1 --ATA-TATAATATA
51893313 ATATATAATATA
1 ATATATAATATA
51893325 ATATATAA
1 ATATATAA
51893333 AACATAAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
12 16 0.53
13 3 0.10
14 3 0.10
15 8 0.27
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
ATATATAATATA
Found at i:51894223 original size:14 final size:16
Alignment explanation
Indices: 51894200--51894233 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
51894190 GACAAGAAAC
51894200 AAAACGAAAAT-ACAA
1 AAAACGAAAATCACAA
51894215 AAAAC-AAAATCACAA
1 AAAACGAAAATCACAA
51894230 AAAA
1 AAAA
51894234 AAATATGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.76, C:0.15, G:0.03, T:0.06
Consensus pattern (16 bp):
AAAACGAAAATCACAA
Found at i:51896778 original size:131 final size:132
Alignment explanation
Indices: 51896626--51896879 Score: 368
Period size: 131 Copynumber: 1.9 Consensus size: 132
51896616 GGCGAGATTT
* * **
51896626 GATATTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGTTTGCAATTTCGTGTTTGCTCAAAA
1 GATATTTGGCAACTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCCCGTTTGCTCAAAA
* * *
51896691 TAATCGAATA-TCACTTCAAAATATCACTCATATCTTTTAAAAATCCCTT-AAACGAAGGCGGTA
66 TAATCAAATATTC-CTTCAAAATATCACTCAGATCTTTTAAAAATCCATTAAAACGAAGGCGGTA
51896754 TGC
130 TGC
* * * *
51896757 GATATTTGGCAACTCGTGGAATTGTGCCCTAACGTGTTGGGTTGCAATTTCCCGTTTGTTTAAAA
1 GATATTTGGCAACTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCCCGTTTGCTCAAAA
* *
51896822 TAATCAAATATTCCTTCAAAATTTCACTCAGGTCTTTTAAAAATCCATTAAAACGAAG
66 TAATCAAATATTCCTTCAAAATATCACTCAGATCTTTTAAAAATCCATTAAAACGAAG
51896880 ATAATACTCG
Statistics
Matches: 108, Mismatches: 13, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
131 98 0.91
132 10 0.09
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (132 bp):
GATATTTGGCAACTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCCCGTTTGCTCAAAA
TAATCAAATATTCCTTCAAAATATCACTCAGATCTTTTAAAAATCCATTAAAACGAAGGCGGTAT
GC
Found at i:51896916 original size:131 final size:131
Alignment explanation
Indices: 51896626--51896967 Score: 341
Period size: 131 Copynumber: 2.6 Consensus size: 131
51896616 GGCGAGATTT
* * ** * ** *
51896626 GATATTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGTTTGCAATTTCGTGTTTGCTCAAAA
1 GATATTTGACAACTCGTAGAATCGTGCCCTAACGTGTTGGATTGCAATTTCCCGTTTGTTCAAAA
* * * **
51896691 TAATCGAATA-TCACTTCAAAATATCACTCATATCTTTTAAAAATCCCTTAAACGAAGGCGGTAT
66 TAATCGAATATTC-CTTCAAAATATCACTCAGATCTTTTAAAAATCCATTAAACGAAGACAATAT
51896755 GC
130 GC
* * * * *
51896757 GATATTTGGCAACTCGTGGAATTGTGCCCTAACGTGTTGGGTTGCAATTTCCCGTTTGTTTAAAA
1 GATATTTGACAACTCGTAGAATCGTGCCCTAACGTGTTGGATTGCAATTTCCCGTTTGTTCAAAA
* * * *
51896822 TAATCAAATATTCCTTCAAAATTTCACTCAGGTCTTTTAAAAATCCATTAAAACGAAGATAATAC
66 TAATCGAATATTCCTTCAAAATATCACTCAGATCTTTTAAAAATCCATT-AAACGAAGACAATA-
51896887 T-C
129 TGC
* * * * ** * *
51896889 GGTGTTTGACAA-TCCG-AGAATCATGCCCTATCGTGTTGGATTGTGATTTCTCGCTTGTTCAAA
1 GATATTTGACAACT-CGTAGAATCGTGCCCTAACGTGTTGGATTGCAATTTCCCGTTTGTTCAAA
*
51896952 ACAATCGAATATTCCT
65 ATAATCGAATATTCCT
51896968 CTAGGCTTTC
Statistics
Matches: 175, Mismatches: 32, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
131 150 0.86
132 24 0.14
133 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.34
Consensus pattern (131 bp):
GATATTTGACAACTCGTAGAATCGTGCCCTAACGTGTTGGATTGCAATTTCCCGTTTGTTCAAAA
TAATCGAATATTCCTTCAAAATATCACTCAGATCTTTTAAAAATCCATTAAACGAAGACAATATG
C
Found at i:51908567 original size:65 final size:65
Alignment explanation
Indices: 51908490--51908614 Score: 205
Period size: 65 Copynumber: 1.9 Consensus size: 65
51908480 CATATAATGA
*
51908490 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAACATCCTAATTATTTGACATAAATCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAACATCCTAATTATTTGACATAAATCAT
* * * *
51908555 CACATTTAGTTAGGAGCATTTGATTTATTTCAATCATAGCATCCTAATTATTTGGCATAA
1 CACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAACATCCTAATTATTTGACATAA
51908615 GCATAGATAC
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
65 55 1.00
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (65 bp):
CACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAACATCCTAATTATTTGACATAAATCAT
Found at i:51908964 original size:133 final size:133
Alignment explanation
Indices: 51908726--51909132 Score: 573
Period size: 133 Copynumber: 3.1 Consensus size: 133
51908716 CAAGCTAAAA
* * * * *
51908726 ATTGTAAATCTTGTTTCCCTAAGATTGTAGTGGAGCAGATCGAAGATGGCGAATATAGGTTTCCT
1 ATTGTAGATCTTGTTTCCCTGAGATTGCAGTGGAGCAGATCGAAGACGGCGAATCTAGGTTTCCT
* * *
51908791 GATGTTGCAGCGAAGCAGATTTAAGCCACCATCTTAGCTCCCTAAAGTTGTAATGGAGTAGGTTG
66 GATGTTGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAATGGAGTAGGCTG
51908856 AAG
131 AAG
* * * *
51908859 ATTGTAGATCTTGTTTCCTTGAGATTGCAGTGGAGCAGGTCGAAGACAGCGAATCTAGGCTTCCT
1 ATTGTAGATCTTGTTTCCCTGAGATTGCAGTGGAGCAGATCGAAGACGGCGAATCTAGGTTTCCT
* * *
51908924 GATATTACAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAGGTTGTAATGGAGTAGGCTG
66 GATGTTGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAATGGAGTAGGCTG
51908989 AAG
131 AAG
*
51908992 ATTGTAGATCTTGTTTCCCTGAGATTGCAGTGGAGCAGATCGAAGACGGC-AGATCTAAGTTTCC
1 ATTGTAGATCTTGTTTCCCTGAGATTGCAGTGGAGCAGATCGAAGACGGCGA-ATCTAGGTTTCC
* * * * * * * *
51909056 TGATGTTGCAATAAAGCAGATTTAAGTCACCACCCTAGCTCCCTAAAATTGTAGTGGAGTAGACC
65 TGATGTTGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAATGGAGTAGGCT
*
51909121 CAAG
130 GAAG
51909125 ATTGTAGA
1 ATTGTAGA
51909133 CCTCGTCTCC
Statistics
Matches: 241, Mismatches: 32, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
132 1 0.00
133 240 1.00
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.29
Consensus pattern (133 bp):
ATTGTAGATCTTGTTTCCCTGAGATTGCAGTGGAGCAGATCGAAGACGGCGAATCTAGGTTTCCT
GATGTTGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAATGGAGTAGGCTG
AAG
Found at i:51912072 original size:131 final size:132
Alignment explanation
Indices: 51911920--51912173 Score: 341
Period size: 131 Copynumber: 1.9 Consensus size: 132
51911910 GGCGAGATTT
* * * *
51911920 GATAGTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGTTTGCAATTTCGTGTTTGCTCAAAA
1 GATAGTTGGCAACTCGCGGAATCGTGCCCTAACGTATTGGGTTGCAATTTCCTGTTTGCTCAAAA
* * *
51911985 TAATCGAACA-TCACTTCAAAATATCACTCATATCTTTTAAAAATCCCTT-AAACGAAGGCGGTA
66 TAATCAAACATTC-CTTCAAAATATCACTCAGATCTTTTAAAAATCCATTAAAACGAAGGCGGTA
51912048 TGC
130 TGC
* * * * *
51912051 GATATTTGGCAACTCGTGGAATTGTGCCCTAACGTATTGGGTTGCAATTTCCTGTTTGTTTAAAA
1 GATAGTTGGCAACTCGCGGAATCGTGCCCTAACGTATTGGGTTGCAATTTCCTGTTTGCTCAAAA
* * * *
51912116 TAATCAAATATTCCTTCAAAATTTCACTTAGGTCTTTTAAAAATCCATTAAAACGAAG
66 TAATCAAACATTCCTTCAAAATATCACTCAGATCTTTTAAAAATCCATTAAAACGAAG
51912174 ATAATACTCG
Statistics
Matches: 105, Mismatches: 16, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
131 95 0.90
132 10 0.10
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.34
Consensus pattern (132 bp):
GATAGTTGGCAACTCGCGGAATCGTGCCCTAACGTATTGGGTTGCAATTTCCTGTTTGCTCAAAA
TAATCAAACATTCCTTCAAAATATCACTCAGATCTTTTAAAAATCCATTAAAACGAAGGCGGTAT
GC
Found at i:51912203 original size:131 final size:131
Alignment explanation
Indices: 51911937--51912262 Score: 327
Period size: 131 Copynumber: 2.5 Consensus size: 131
51911927 GGCAATTCGC
* * * *
51911937 GGAATCGTGCCCTAACGTGTTGGTTTGCAATTTCGTGTTTGCTCAAAATAATCGAACA-TCACTT
1 GGAATCGTGCCCTAACGTGTTGGATTGCAATTTCCTGTTTGTTCAAAATAATCGAATATTC-CTT
* * * ** *
51912001 CAAAATATCACTCATATCTTTTAAAAATCCCTTAAACGAAGGCGGTATGCGATATTTGGCAACTC
65 CAAAATATCACTCAGATCTTTTAAAAATCCATTAAACGAAGACAATATGCGATATTTGACAACTC
**
51912066 GT
130 CA
* * * * *
51912068 GGAATTGTGCCCTAACGTATTGGGTTGCAATTTCCTGTTTGTTTAAAATAATCAAATATTCCTTC
1 GGAATCGTGCCCTAACGTGTTGGATTGCAATTTCCTGTTTGTTCAAAATAATCGAATATTCCTTC
* * * * * *
51912133 AAAATTTCACTTAGGTCTTTTAAAAATCCATTAAAACGAAGATAATACT-CGGTGTTTGACAA-T
66 AAAATATCACTCAGATCTTTTAAAAATCCATT-AAACGAAGACAATA-TGCGATATTTGACAACT
51912196 CCA
129 CCA
* * ** * *
51912199 GGAATCATGCCCTATCGTGTTGGATTGTGATTT-CTCGCTTGTTCAAAACAATCGAATATTCCTT
1 GGAATCGTGCCCTAACGTGTTGGATTGCAATTTCCT-GTTTGTTCAAAATAATCGAATATTCCTT
51912263 TAGGCTTTCG
Statistics
Matches: 158, Mismatches: 33, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
130 2 0.01
131 133 0.84
132 22 0.14
133 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.35
Consensus pattern (131 bp):
GGAATCGTGCCCTAACGTGTTGGATTGCAATTTCCTGTTTGTTCAAAATAATCGAATATTCCTTC
AAAATATCACTCAGATCTTTTAAAAATCCATTAAACGAAGACAATATGCGATATTTGACAACTCC
A
Found at i:51913248 original size:29 final size:31
Alignment explanation
Indices: 51913211--51913268 Score: 93
Period size: 29 Copynumber: 1.9 Consensus size: 31
51913201 CTAGCGCGCT
51913211 TTCTAATTATTAGCACATT-AGTGCTCTCCG
1 TTCTAATTATTAGCACATTAAGTGCTCTCCG
*
51913241 TTCT-ATTATTAGCACGTTAAGTGCTCTC
1 TTCTAATTATTAGCACATTAAGTGCTCTC
51913269 TGTTTAGCAC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 13 0.50
30 13 0.50
ACGTcount: A:0.22, C:0.22, G:0.14, T:0.41
Consensus pattern (31 bp):
TTCTAATTATTAGCACATTAAGTGCTCTCCG
Found at i:51913289 original size:22 final size:22
Alignment explanation
Indices: 51913260--51913316 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
51913250 TAGCACGTTA
51913260 AGTGCTCTCTGTTTAGCACATCT
1 AGTGCTCTCTGTTTAGCAC-TCT
* *
51913283 -GTGCTCTCTGTATAGCACTTT
1 AGTGCTCTCTGTTTAGCACTCT
51913304 AGTGCTCTCTGTT
1 AGTGCTCTCTGTT
51913317 CGTTTGTGCA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 2 0.07
22 28 0.93
ACGTcount: A:0.14, C:0.25, G:0.19, T:0.42
Consensus pattern (22 bp):
AGTGCTCTCTGTTTAGCACTCT
Found at i:51914230 original size:157 final size:157
Alignment explanation
Indices: 51913944--51914254 Score: 543
Period size: 157 Copynumber: 2.0 Consensus size: 157
51913934 ATTCCGTTCC
* *
51913944 ACTCCTTATATGTATTTTGGGCCTCGAGGGTCTTTTATAAAGACTTAAAAGTTAAACTATGCTAT
1 ACTCCTAATACGTATTTTGGGCCTCGAGGGTCTTTTATAAAGACTTAAAAGTTAAACTATGCTAT
* *
51914009 GAATGTTATTTATTTATGAATTATTTTTAAGTTGTTCAATATGTCCGATAATGCTCCGTAACCCT
66 GAATGTGATTTATTTATGAATTATTTCTAAGTTGTTCAATATGTCCGATAATGCTCCGTAACCCT
*
51914074 AATCCGGCGACGGTTTAGGGTTAAGGG
131 AATCCGACGACGGTTTAGGGTTAAGGG
*
51914101 ACTCCTAATACGTATTTTGGGCCTCGAGGGTCTTTTATAAAGACTTCAAAGTTAAACTATGCTAT
1 ACTCCTAATACGTATTTTGGGCCTCGAGGGTCTTTTATAAAGACTTAAAAGTTAAACTATGCTAT
51914166 -AATTGTGATTTATTTATGAATTATTTCTAAGTTGTTCAATATGTCCGATAATGCTCCGTAACCC
66 GAA-TGTGATTTATTTATGAATTATTTCTAAGTTGTTCAATATGTCCGATAATGCTCCGTAACCC
*
51914230 TAATCCGACGATGGTTTAGGGTTAA
130 TAATCCGACGACGGTTTAGGGTTAA
51914255 AGGGGTGTTA
Statistics
Matches: 146, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
156 2 0.01
157 144 0.99
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (157 bp):
ACTCCTAATACGTATTTTGGGCCTCGAGGGTCTTTTATAAAGACTTAAAAGTTAAACTATGCTAT
GAATGTGATTTATTTATGAATTATTTCTAAGTTGTTCAATATGTCCGATAATGCTCCGTAACCCT
AATCCGACGACGGTTTAGGGTTAAGGG
Found at i:51915164 original size:17 final size:17
Alignment explanation
Indices: 51915142--51915175 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
51915132 GTTAAAAAGG
51915142 TAAACGATTTTCATTAT
1 TAAACGATTTTCATTAT
51915159 TAAACGATTTTCATTAT
1 TAAACGATTTTCATTAT
51915176 AAGGTAAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.12, G:0.06, T:0.47
Consensus pattern (17 bp):
TAAACGATTTTCATTAT
Found at i:51917031 original size:21 final size:20
Alignment explanation
Indices: 51916991--51917032 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
51916981 AAGATTCGAA
51916991 AGAGAATTGAAGAATGAATTG
1 AGAGAATTGAAGAA-GAATTG
51917012 AGAGAATTTGAACGAA-AATTG
1 AGAGAA-TTGAA-GAAGAATTG
51917033 TTTCGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 11 0.58
22 5 0.26
23 3 0.16
ACGTcount: A:0.48, C:0.02, G:0.26, T:0.24
Consensus pattern (20 bp):
AGAGAATTGAAGAAGAATTG
Found at i:51936904 original size:15 final size:15
Alignment explanation
Indices: 51936852--51936907 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
51936842 ACCATTAAAA
*
51936852 TAAATTTTAAAT-TT
1 TAAATATTAAATATT
* * * *
51936866 TAAAAAATAAAAAAT
1 TAAATATTAAATATT
51936881 TATAATATTAAATATT
1 TA-AATATTAAATATT
51936897 TAAATATTAAA
1 TAAATATTAAA
51936908 AAGTATCTTT
Statistics
Matches: 31, Mismatches: 9, Indels: 3
0.72 0.21 0.07
Matches are distributed among these distances:
14 8 0.26
15 12 0.39
16 11 0.35
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TAAATATTAAATATT
Found at i:51937141 original size:8 final size:8
Alignment explanation
Indices: 51937128--51937172 Score: 58
Period size: 8 Copynumber: 5.9 Consensus size: 8
51937118 AAATATTTTT
51937128 TTATAAAA
1 TTATAAAA
51937136 TTATAAAA
1 TTATAAAA
*
51937144 -TATATAA
1 TTATAAAA
*
51937151 TTATAAAT
1 TTATAAAA
51937159 TTA-AAAA
1 TTATAAAA
51937166 TTATAAA
1 TTATAAA
51937173 TAATATATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
7 12 0.39
8 19 0.61
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
TTATAAAA
Done.