Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01020810.1 Corchorus olitorius cultivar O-4 contig20843, whole genome shotgun sequence
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: 144735
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Found at i:20000 original size:32 final size:32
Alignment explanation
Indices: 19950--20055 Score: 194
Period size: 32 Copynumber: 3.3 Consensus size: 32
19940 TACCATAAAT
*
19950 AAATTACCTACCTACCAAATAAACTTAACACAC
1 AAATTA-CAACCTACCAAATAAACTTAACACAC
19983 AAATTACAACCTACCAAATAAACTTAACACAC
1 AAATTACAACCTACCAAATAAACTTAACACAC
20015 AAATTACAACCTACCAAATAAACTTAACACAC
1 AAATTACAACCTACCAAATAAACTTAACACAC
20047 AAATTACAA
1 AAATTACAA
20056 ACAAACTCAC
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
32 66 0.92
33 6 0.08
ACGTcount: A:0.53, C:0.27, G:0.00, T:0.20
Consensus pattern (32 bp):
AAATTACAACCTACCAAATAAACTTAACACAC
Found at i:20119 original size:74 final size:74
Alignment explanation
Indices: 20035--20182 Score: 287
Period size: 74 Copynumber: 2.0 Consensus size: 74
20025 CTACCAAATA
20035 AACTTAACACACAAATTACAAACAAACTCACATTCCGTGAAAGTTGAACCTAAGACCTTATGGTC
1 AACTTAACACACAAATTACAAACAAACTCACATTCCGTGAAAGTTGAACCTAAGACCTTATGGTC
20100 TAGGTAGGC
66 TAGGTAGGC
*
20109 AACTTAACACACAAATTACAAACAAACTCACATTCCGTGAGAGTTGAACCTAAGACCTTATGGTC
1 AACTTAACACACAAATTACAAACAAACTCACATTCCGTGAAAGTTGAACCTAAGACCTTATGGTC
20174 TAGGTAGGC
66 TAGGTAGGC
20183 TGGAACTAAA
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 73 1.00
ACGTcount: A:0.39, C:0.23, G:0.16, T:0.23
Consensus pattern (74 bp):
AACTTAACACACAAATTACAAACAAACTCACATTCCGTGAAAGTTGAACCTAAGACCTTATGGTC
TAGGTAGGC
Found at i:22758 original size:18 final size:19
Alignment explanation
Indices: 22727--22764 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
22717 CGGTCGAGAG
*
22727 AAAGGTCGAGGTCAAACTC
1 AAAGGTCGAAGTCAAACTC
22746 AAAGG-CGAAGTCAAACTC
1 AAAGGTCGAAGTCAAACTC
22764 A
1 A
22765 TCGTCGGTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.42, C:0.21, G:0.24, T:0.13
Consensus pattern (19 bp):
AAAGGTCGAAGTCAAACTC
Found at i:23454 original size:3 final size:3
Alignment explanation
Indices: 23448--23479 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
23438 ACACGAAGAA
*
23448 GAT GAT GAT GAT GAT GAT GAT GAT GAA GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
23480 AGTTATGAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.34, T:0.28
Consensus pattern (3 bp):
GAT
Found at i:36007 original size:6 final size:6
Alignment explanation
Indices: 35996--36020 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
35986 AATTGCTGGG
35996 GAAGAT GAAGAT GAAGAT GAAGAT G
1 GAAGAT GAAGAT GAAGAT GAAGAT G
36021 GTTTCTGAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.36, T:0.16
Consensus pattern (6 bp):
GAAGAT
Found at i:66243 original size:22 final size:22
Alignment explanation
Indices: 66215--66256 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
66205 TGGATGCCTT
66215 AGCTAGAAGGGGTAGTAGCTAG
1 AGCTAGAAGGGGTAGTAGCTAG
66237 AGCTAGAAGGGGTAGTAGCT
1 AGCTAGAAGGGGTAGTAGCT
66257 CCCTATTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.31, C:0.10, G:0.40, T:0.19
Consensus pattern (22 bp):
AGCTAGAAGGGGTAGTAGCTAG
Found at i:85458 original size:15 final size:15
Alignment explanation
Indices: 85434--85464 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
85424 CACCTCAGTT
*
85434 CGAACTAGATTTGGC
1 CGAACCAGATTTGGC
85449 CGAACCAGATTTGGC
1 CGAACCAGATTTGGC
85464 C
1 C
85465 TCATTTGAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.23
Consensus pattern (15 bp):
CGAACCAGATTTGGC
Found at i:99702 original size:3 final size:3
Alignment explanation
Indices: 99687--99720 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
99677 TATGTTCTGT
*
99687 TAG TAG TAT TAG TAG TAG TAG TAG TAG TAG TAG T
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG T
99721 TGCCTTTACT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.32, C:0.00, G:0.29, T:0.38
Consensus pattern (3 bp):
TAG
Found at i:106184 original size:7 final size:7
Alignment explanation
Indices: 106172--106198 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
106162 AAAAAAGGGT
106172 TCATGAA
1 TCATGAA
106179 TCATGAA
1 TCATGAA
106186 TCATGAA
1 TCATGAA
106193 TCATGA
1 TCATGA
106199 TAGTGTTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (7 bp):
TCATGAA
Found at i:117657 original size:319 final size:321
Alignment explanation
Indices: 117072--117987 Score: 1224
Period size: 319 Copynumber: 2.9 Consensus size: 321
117062 AACACTCATT
* * * *
117072 AAAATATATATAATTCAACGCCAAAAAGATTGGA-GGACTTTTCACGCTTTTAAAATCGTTTTTC
1 AAAAAATATATAATTCAACGCCAAAAAGATT-GACGGGCTTTTCACGCTTCTAATATCGTTTTTC
* * * * ** * *
117136 ATATTTTGTTCTGAATTAAATTCTAATTAAATCAAAACAAAATTCTGATGCACGTAAAAACAAAT
65 AT-TTTTTTTCCGAATTAATTTCTAATTAAATCAAAACAAGATTGAGATGCTCGAAAAAACAAAT
* * * * *
117201 CCTTAAATCCAATGTGGCCT-AAATTTGATT-AGACT-AATAA-AGATATTTCAAGGAGTCTTAG
129 CCTTATATCCAATATGG-CTGAGATTTGGTTCA-A-TGAA-AATAGATATTTCAAGGAGTCTTTG
* * * * * * * *
117262 CACCAAAAACCATACAAAACAGAGCCGTGA-TCCCGGAAGGCGTTTTTAGTCATAATCCGTGATG
190 CGCCAAAAATCATGCAAAACTGAGCCGGGACT-CCGGAACGCGTTTTTAGCCATAAACCGTGATG
* * * *
117326 GTTAGTACACGATTTCGGCTGAAAACTGACCC-GAAAGTTTCTCTCAATTTTTTGCCACAATACT
254 GTTAGTACACGATTTCGGCTAAAAACGGACCCAAAAAGTTTCTCTCAAATTTTTGCCACAATACT
117390 CAG
319 CAG
* *
117393 -AAAAATATATAATTTAACTCCAAAAAGATTGACGGGCTTTTCACGCTTCTAATATCGTTTTTCA
1 AAAAAATATATAATTCAACGCCAAAAAGATTGACGGGCTTTTCACGCTTCTAATATCGTTTTTCA
*
117457 TTTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTGAGATGCTCGAAAAAACAAATCC
66 TTTTTTTTCCGAATTAATTTCTAATTAAATCAAAACAAGATTGAGATGCTCGAAAAAACAAATCC
117522 TTATATCCAATATGGCTGAGATTTGGTTCAATGAAAATAGATATTTCAAGGAGTCTTTGCGCCAA
131 TTATATCCAATATGGCTGAGATTTGGTTCAATGAAAATAGATATTTCAAGGAGTCTTTGCGCCAA
* * *
117587 AAATCATGCAAAATTGAGCCGGGACTCCGAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTA
196 AAATCATGCAAAACTGAGCCGGGACTCCGGAACGCGTTTTTAGCCATAAACCGTGATGGTTAGTA
* *
117652 CACGATTTCGACTAAAAACGGACCCAAAAAGTTTTTCTCAAATTTTTGCCACAATACTCAG
261 CACGATTTCGGCTAAAAACGGACCCAAAAAGTTTCTCTCAAATTTTTGCCACAATACTCAG
*
117713 AAAAAATATATAATTCAACGCCAAAAAGATTGACGGGCTTTTCACGTTTCTAATATCGTTTTTCA
1 AAAAAATATATAATTCAACGCCAAAAAGATTGACGGGCTTTTCACGCTTCTAATATCGTTTTTC-
*
117778 ATTTTTTTTCCGAATTAATTTCTAATTAAGTCAAAACAAGATTGAGATGCTCGAAAAAACAAATC
65 ATTTTTTTTCCGAATTAATTTCTAATTAAATCAAAACAAGATTGAGATGCTCGAAAAAACAAATC
* * * * * * *
117843 CATATATTCAATATGACTGAGATTTGGTTCGATGAATATAGATATTTCAAGGAGCCTTTACGCCA
130 CTTATATCCAATATGGCTGAGATTTGGTTCAATGAAAATAGATATTTCAAGGAGTCTTTGCGCCA
* * *
117908 AAAATCTTGCAAAACTGAGCCGGGGCTCCGGAACGCGTTTTTAGCCATAAGCCGTGAT-G--AGT
195 AAAATCATGCAAAACTGAGCCGGGACTCCGGAACGCGTTTTTAGCCATAAACCGTGATGGTTAGT
* *
117970 AAACGATTTCGGATAAAA
260 ACACGATTTCGGCTAAAA
117988 TTTTGTAAAA
Statistics
Matches: 528, Mismatches: 58, Indels: 20
0.87 0.10 0.03
Matches are distributed among these distances:
318 5 0.01
319 199 0.38
320 90 0.17
321 61 0.12
322 173 0.33
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.31
Consensus pattern (321 bp):
AAAAAATATATAATTCAACGCCAAAAAGATTGACGGGCTTTTCACGCTTCTAATATCGTTTTTCA
TTTTTTTTCCGAATTAATTTCTAATTAAATCAAAACAAGATTGAGATGCTCGAAAAAACAAATCC
TTATATCCAATATGGCTGAGATTTGGTTCAATGAAAATAGATATTTCAAGGAGTCTTTGCGCCAA
AAATCATGCAAAACTGAGCCGGGACTCCGGAACGCGTTTTTAGCCATAAACCGTGATGGTTAGTA
CACGATTTCGGCTAAAAACGGACCCAAAAAGTTTCTCTCAAATTTTTGCCACAATACTCAG
Found at i:117865 original size:322 final size:321
Alignment explanation
Indices: 117031--117966 Score: 1208
Period size: 322 Copynumber: 2.9 Consensus size: 321
117021 GTAAAAATGA
* * * * *
117031 CCAAAAAGATTTTTCGTC-AATTTTTGGCAAAAACACTCATTAAAATATATATAATTCAACGCCA
1 CCAAAAAG-TTTTTC-TCAAATTTTT-GCCACAATACTCA-GAAAAAATATATAATTCAACGCCA
* * * * *
117095 AAAAGATTGGA-GGACTTTTCACGCTTT-TAAAATCGTTTTTCATATTTTGTTCTGAATTAAATT
62 AAAAGATT-GACGGGCTTTTCACG-TTTCTAATATCGTTTTTCAT-TTTTTTTCCGAATTAATTT
* ** * * * * *
117158 CTAATTAAATCAAAACAAAATTCTGATGCACGTAAAAACAAATCCTTAAATCCAATGTGGCCT-A
124 CTAATTAAATCAAAACAAGATTGAGATGCTCGAAAAAACAAATCCTTATATCCAATAT-GACTGA
* * * * * * *
117222 AATTTGATT-AGACT-AATAA-AGATATTTCAAGGAGTCTTAGCACCAAAAACCATACAAAACAG
188 GATTTGGTTCA-A-TGAA-AATAGATATTTCAAGGAGTCTTTGCGCCAAAAATCATGCAAAACTG
* * * * * *
117284 AGCCGTGA-TCCCGGAAGGCGTTTTTAGTCATAATCCGTGATGGTTAGTACACGATTTCGGCTGA
250 AGCCGGGACT-CCGGAACGCGTTTTTAGCCATAAACCGTGATGGTTAGTACACGATTTCGACTAA
*
117348 AAACTGAC
314 AAACGGAC
* * * * *
117356 CC-GAAAGTTTCTCTCAATTTTTTGCCACAATACTCAG-AAAAATATATAATTTAACTCCAAAAA
1 CCAAAAAGTTTTTCTCAAATTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAA
*
117419 GATTGACGGGCTTTTCACGCTTCTAATATCGTTTTTCATTTTTTTTCCGAATTAATTTCTAATTA
66 GATTGACGGGCTTTTCACGTTTCTAATATCGTTTTTCATTTTTTTTCCGAATTAATTTCTAATTA
* *
117484 AATCGAAACAAGATTGAGATGCTCGAAAAAACAAATCCTTATATCCAATATGGCTGAGATTTGGT
131 AATCAAAACAAGATTGAGATGCTCGAAAAAACAAATCCTTATATCCAATATGACTGAGATTTGGT
*
117549 TCAATGAAAATAGATATTTCAAGGAGTCTTTGCGCCAAAAATCATGCAAAATTGAGCCGGGACTC
196 TCAATGAAAATAGATATTTCAAGGAGTCTTTGCGCCAAAAATCATGCAAAACTGAGCCGGGACTC
* *
117614 CGAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGACTAAAAACGGAC
261 CGGAACGCGTTTTTAGCCATAAACCGTGATGGTTAGTACACGATTTCGACTAAAAACGGAC
117675 CCAAAAAGTTTTTCTCAAATTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAA
1 CCAAAAAGTTTTTCTCAAATTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAA
117740 GATTGACGGGCTTTTCACGTTTCTAATATCGTTTTTCAATTTTTTTTCCGAATTAATTTCTAATT
66 GATTGACGGGCTTTTCACGTTTCTAATATCGTTTTTC-ATTTTTTTTCCGAATTAATTTCTAATT
* * *
117805 AAGTCAAAACAAGATTGAGATGCTCGAAAAAACAAATCCATATATTCAATATGACTGAGATTTGG
130 AAATCAAAACAAGATTGAGATGCTCGAAAAAACAAATCCTTATATCCAATATGACTGAGATTTGG
* * * * * *
117870 TTCGATGAATATAGATATTTCAAGGAGCCTTTACGCCAAAAATCTTGCAAAACTGAGCCGGGGCT
195 TTCAATGAAAATAGATATTTCAAGGAGTCTTTGCGCCAAAAATCATGCAAAACTGAGCCGGGACT
*
117935 CCGGAACGCGTTTTTAGCCATAAGCCGTGATG
260 CCGGAACGCGTTTTTAGCCATAAACCGTGATG
117967 AGTAAACGAT
Statistics
Matches: 537, Mismatches: 63, Indels: 25
0.86 0.10 0.04
Matches are distributed among these distances:
318 6 0.01
319 181 0.34
320 87 0.16
321 60 0.11
322 186 0.35
323 11 0.02
324 4 0.01
325 2 0.00
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (321 bp):
CCAAAAAGTTTTTCTCAAATTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAA
GATTGACGGGCTTTTCACGTTTCTAATATCGTTTTTCATTTTTTTTCCGAATTAATTTCTAATTA
AATCAAAACAAGATTGAGATGCTCGAAAAAACAAATCCTTATATCCAATATGACTGAGATTTGGT
TCAATGAAAATAGATATTTCAAGGAGTCTTTGCGCCAAAAATCATGCAAAACTGAGCCGGGACTC
CGGAACGCGTTTTTAGCCATAAACCGTGATGGTTAGTACACGATTTCGACTAAAAACGGAC
Found at i:119126 original size:331 final size:320
Alignment explanation
Indices: 118427--119683 Score: 1335
Period size: 331 Copynumber: 3.8 Consensus size: 320
118417 TTACGCAAAC
* ** * * * * *
118427 GTACACGATTTCGGCTAAAAATTGAGACGATTTTTTTTTTCTCAATTTTTTGCGACAATAGTCAT
1 GTACACGATTTCGGCTAAAAACTGACCCGA-ATTTTTTTCCTCAATTTTTTGCCACAATACTCAG
* * *
118492 AAAAAATATATAATTTAACGCCCAAAAA-ATTTGA-AGGATTTTTCACACTTCTAATATC-GTTT
65 AAAAAATATATAATTCAACG-CCAAAAAGA-TTGACAGGA-TTTTCACGCTTCTAATATCATTTT
* *
118554 TCCATTTTTTTCCGAATTAATTTCTAATTAAAACGAAACAAGATTCAGATGCTCGTAAAAATAAA
127 TCCATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGT-AAAACAAA
* * *
118619 T-CGTTAAATCGAATTTGGCTGGGATTTGGTTCTATGAATATAGATATTTCAAGGAGTTTTTACG
191 TAC-TTAAATCGAATGTGGCTGGGATTTGGTTCGATGAATATAGATATTTCAAGGAGTCTTTACG
* * * *
118683 CC-AAAATCATGCAAAACTGAGCCGGGGTCCCGGAACGTGGTTTTA-CCAAAAACCGTGATGGTT
255 CCAAAAATCATGCAAAACTTAGTCGGGGTCCCGGAACGCGGTTTTAGCCAAAAACTGTGATGGTT
118746 A
320 A
* * * *
118747 GTACATGATTTCAGCGAAAATTTGCAAAAACTGACCCAAAAATTTTTTCCTCAATTTTTTTTGCC
1 GTACACGATTTC-G-G-----CT--AAAAACTGACCC-GAATTTTTTTCCTCAA--TTTTTTGCC
* * * * * *
118812 ACAATAGTCAGGAAAAATACACAATTCAACGCCAAAAAAGATTGACA-TATTTTCTCGCTTCTAA
54 ACAATACTCAGAAAAAATATATAATTCAACGCC-AAAAAGATTGACAGGATTTTCACGCTTCTAA
*
118876 TATCATTTTTCTATTTTTTTCCGAATCT-ATTTCTAATTAAATCGAAACAAGATTCAGATGCTCG
118 TATCATTTTTCCATTTTTTTCCGAAT-TAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCG
* * * * *
118940 T-AAATAAATACTTAAATCTAATGTGACTGAGAGCCTGAAATTGGTTAGATGAATATAGATATTT
182 TAAAACAAATACTTAAATCGAATGTGGCT--G-G---G-ATTTGGTTCGATGAATATAGATATTT
* *
119004 CAAGGAGTCTTT-CTGCCAAAAATCATGCAAAACTTAGTCGGGGTCCCTGAAACGCGTTTTTAGC
240 CAAGGAGTCTTTAC-GCCAAAAATCATGCAAAACTTAGTCGGGGTCCC-GGAACGCGGTTTTAG-
* *
119068 CCCAAAACTATGATGGTTA
302 CCAAAAACTGTGATGGTTA
* * *
119087 GCACACGATTTTCGGCTAAAAACTGACCCGAATTTTTTTCTACTGAAATTTTTGCCACAATACTC
1 GTACACGA-TTTCGGCTAAAAACTGACCCGAATTTTTTTC--CTCAATTTTTTGCCACAATACTC
* * * * *
119152 AGAAAAAATATATAATTTAACACCAAAAAGATTGA-TGGTCTTTTCACGCTTTTAATATCATTTT
63 AGAAAAAATATATAATTCAACGCCAAAAAGATTGACAGG-ATTTTCACGCTTCTAATATCATTTT
* * *
119216 TCCAAATTTTTTCCGAATTAATTTCTAATTAAATCGAAACAGGAATCTAGATGCTCGTAAAAACA
127 TCC-ATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTC-AGATGCTCGT-AAAACA
* * * ** * *
119281 AATCCTTATATCCAATGTGGCTGACATTTGGTTTGATGAATATAGATATTTCAAGGAGTCTTTGC
189 AATACTTAAATCGAATGTGGCTGGGATTTGGTTCGATGAATATAGATATTTCAAGGAGTCTTTAC
* *
119346 GCCAAAAATCATGCAACA-TTGAGTCGGGG-CTCGGGAACGGCGGTTTTAGCCAAAAACTGTGAT
254 GCCAAAAATCATGCAAAACTT-AGTCGGGGTC-CCGGAAC-GCGGTTTTAGCCAAAAACTGTGAT
119409 GGTTA
316 GGTTA
* * * *
119414 GTACACAATTTCGGCTAAAAACTGATCGGAAAAGTTTTTT-CTCAATTTTTTGCCACAATACT-A
1 GTACACGATTTCGGCTAAAAACTGACCCG--AATTTTTTTCCTCAATTTTTTGCCACAATACTCA
* * *
119477 -AAAAAATATATAATTCAACGCCAAAAAGATTGACAGGCTTTTCACGCTTCTAATATCGTTTGTC
64 GAAAAAATATATAATTCAACGCCAAAAAGATTGACAGGATTTTCACGCTTCTAATATCATTTTTC
* *
119541 CATTTTTTTCCGAATTAAGTTT-TAATTAAA-CTGAAGCAAGATTCAGATTCTCGTAAAACAAAT
129 CATTTTTTTCCGAATTAA-TTTCTAATTAAATC-GAAACAAGATTCAGATGCTCGTAAAACAAAT
* * * *
119604 ACTTAAATCGAACGTGGCTGGGATTTTGTTCGATGAATATAGATATTTCAAGGAGTATTTACGTC
192 ACTTAAATCGAATGTGGCTGGGATTTGGTTCGATGAATATAGATATTTCAAGGAGTCTTTACGCC
119669 AAAAATCATGCAAAA
257 AAAAATCATGCAAAA
119684 ACAAAAATAT
Statistics
Matches: 785, Mismatches: 103, Indels: 98
0.80 0.10 0.10
Matches are distributed among these distances:
320 88 0.11
321 11 0.01
322 34 0.04
323 59 0.08
324 3 0.00
325 20 0.03
326 19 0.02
327 31 0.04
328 79 0.10
329 43 0.05
330 32 0.04
331 169 0.22
332 54 0.07
333 15 0.02
334 1 0.00
335 24 0.03
336 37 0.05
337 27 0.03
338 11 0.01
339 1 0.00
340 23 0.03
341 4 0.01
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (320 bp):
GTACACGATTTCGGCTAAAAACTGACCCGAATTTTTTTCCTCAATTTTTTGCCACAATACTCAGA
AAAAATATATAATTCAACGCCAAAAAGATTGACAGGATTTTCACGCTTCTAATATCATTTTTCCA
TTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAACAAATACTT
AAATCGAATGTGGCTGGGATTTGGTTCGATGAATATAGATATTTCAAGGAGTCTTTACGCCAAAA
ATCATGCAAAACTTAGTCGGGGTCCCGGAACGCGGTTTTAGCCAAAAACTGTGATGGTTA
Found at i:120053 original size:238 final size:230
Alignment explanation
Indices: 119635--120146 Score: 801
Period size: 238 Copynumber: 2.2 Consensus size: 230
119625 GATTTTGTTC
* * *
119635 GATGAATATAGATATTTCAAGGAGTATTTAC-GTCAAAAATCATGCAAAAACAAAAATATTTTCG
1 GATGAATATAGATATTTCAAGGAGT-TTTTCTG-CAAAAATCATGCAAAAACAAAAAAAATTTCG
119699 GCAAAAAATACACAATTCAACGCAAAAAAAATTGAAATATTTTTCTCGCTTTATATATCATTTTT
64 GCAAAAAATACACAATTCAACGCAAAAAAAATTGAAATATTTTTCTCGCTTTATATATCATTTTT
*
119764 CTATTTTTTCCGAATCTATTTTTAATTAAATCGAAACAATATTTAGATGCTCGTAAAAACAAATC
129 CTATTTTTTCCGAATCTATTTTTAATTAAATCGAAACAATATTCAGATGCTCGTAAAAACAAATC
* *
119829 CTTAAACCTAATATGGCTGAGAGCCTGAGATTGGTTA
194 CTTAAACCTAATATGGCTGAAACCCTGAGATTGGTTA
119866 GATGAATATAGATATTTCAAGGAGTTTTTCTGCAAAAAATCATGCAAAAACAAAAAAAAACAAAT
1 GATGAATATAGATATTTCAAGGAGTTTTTCTGC-AAAAATCATGCAAAAAC----AAAAA-AAAT
119931 TTCGGCAAAAAATACACAATTCAACGCAAAAACAAATTGAAATATTTTTCTCGCTTTATATATCA
60 TTCGGCAAAAAATACACAATTCAACGCAAAAA-AAATTGAAATATTTTTCTCGCTTTATATATCA
* *
119996 TTTTTCTATTTTTTTCCGAATTTATTTTTAATTAAATCGAAACAATATTCAGATGCTCGTAAAAT
124 TTTTTCTA-TTTTTTCCGAATCTATTTTTAATTAAATCGAAACAATATTCAGATGCTCGTAAAAA
* *
120061 CAAATCCTTAAATCTAATTTGGCTGAAACCCTGAGATTGGTTA
188 CAAATCCTTAAACCTAATATGGCTGAAACCCTGAGATTGGTTA
* * *
120104 GATGAATATAGATATTTCATGGAGTCTTTATGCCAAAAATCAT
1 GATGAATATAGATATTTCAAGGAGTTTTTCTG-CAAAAATCAT
120147 AAAAAAAACT
Statistics
Matches: 258, Mismatches: 13, Indels: 13
0.91 0.05 0.05
Matches are distributed among these distances:
230 5 0.02
231 43 0.17
235 5 0.02
236 34 0.13
237 40 0.16
238 130 0.50
239 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.34
Consensus pattern (230 bp):
GATGAATATAGATATTTCAAGGAGTTTTTCTGCAAAAATCATGCAAAAACAAAAAAAATTTCGGC
AAAAAATACACAATTCAACGCAAAAAAAATTGAAATATTTTTCTCGCTTTATATATCATTTTTCT
ATTTTTTCCGAATCTATTTTTAATTAAATCGAAACAATATTCAGATGCTCGTAAAAACAAATCCT
TAAACCTAATATGGCTGAAACCCTGAGATTGGTTA
Found at i:120786 original size:315 final size:319
Alignment explanation
Indices: 119975--120795 Score: 933
Period size: 315 Copynumber: 2.5 Consensus size: 319
119965 AATTGAAATA
* * *
119975 TTTTTCTCGCTTTATATATCATTTTTCTATTTTTTTCCGAATTTATTTTTAATTAAATCGAAACA
1 TTTTTCACGCTTTA-ATATCATTTTTCCA--TTTTTCCGAATTAATTTTTAATTAAATCGAAACA
* **
120040 ATATTCAGATGCTCGTAAAATCAAATCCTTAAATCTAATTTGGCTGAAACCCTGAGA-TTGGTTA
63 ATATTCAGATGCTCGTAAAA-CAAATCCTTAAATCCAACGTGGCTG-------G-GATTTGGTTA
* * **
120104 GATGAATATAGATATTTCATGGAGTCTTTATGCCAAAAATCATAAAAAAAACTGAGTCGGGGCCC
119 GATGAATATAGATATTTCAAGGAGTCTTTACGCCAAAAATCAT--GCAAAACTGAGTCGGGGCCC
*
120169 CCGAAACGCGTTTTTAGCCCAAAAACCATGATGGTTAGTACACGATTTCCGGCTAAAAACTGACC
182 CCGAAACGCGTTTTTAGCCCAAAAA-CATGA-GGTGAGTACACGATTTCCGGCTAAAAACTGACC
**
120234 CGAATTTTTTTTCTCCTGAATTTTTCGCCACAATACTCAGAAAAAATATATAATTCAACACCAAA
245 CGAAAGTTTTTTCTCC-GAATTTTTCGCCACAATACTCAGAAAAAATATATAATTCAACACCAAA
*
120299 AAGATTGATGG
309 AAGATTGAGGG
* *
120310 TCTTTTCACGCTTTTAATATCATTTTTCCAATTATTTCCAAATTAATTTCTAATTAAATCGAAAC
1 T-TTTTCACGC-TTTAATATCATTTTTCC-ATT-TTTCCGAATTAATTTTTAATTAAATCGAAAC
* * * ** *
120375 AAGATTCAGATGCTCGTAAAAAAAATCCTTATATCCAACGTGGCTGACATTTGGTTTGATGAATA
62 AATATTCAGATGCTCGTAAAACAAATCCTTAAATCCAACGTGGCTGGGATTTGGTTAGATGAATA
* * * * * * *
120440 TAGATATTTCAAGGAGTCATTGCGCCAAAAATCATGCAAAATTGAGTTGGGG-CTCGGGAACGCG
127 TAGATATTTCAAGGAGTCTTTACGCCAAAAATCATGCAAAACTGAGTCGGGGCCCCCGAAACGCG
* * *
120504 TTTTTAG-CC-AAAA-AT-A-GTGCGTACACGATTT-CGGCTAAAAACTGATCGGAAAAGTTTTT
192 TTTTTAGCCCAAAAACATGAGGTGAGTACACGATTTCCGGCTAAAAACTGACCCG-AAAGTTTTT
* * *
120563 TCT-C-AATTTTTTGCCACAATACTCCGAAAAATATATATAATTCAACGCCAAAAAGATTGACGG
256 TCTCCGAATTTTTCGCCACAATACTCAGAAAAA-ATATATAATTCAACACCAAAAAGATTGA-GG
120626 G
319 G
* * *
120627 TTTTTCACGCTTCTAATATCGTTTTTCCATTTTTCCGAATTAATTTTTAATTAAATTGAAAGAAT
1 TTTTTCACGCTT-TAATATCATTTTTCCATTTTTCCGAATTAATTTTTAATTAAATCGAAACAAT
* * * *
120692 ATTCAGATGCTCGTAAAAGCAAATACTTAAATCGAACGTGGCTGGGATTTTGTTCGATGAATATA
65 ATTCAGATGCTCGTAAAA-CAAATCCTTAAATCCAACGTGGCTGGGATTTGGTTAGATGAATATA
* * *
120757 GATATTTCAAAGAGTGTTTACGTCAAAAATCATGCAAAA
129 GATATTTCAAGGAGTCTTTACGCCAAAAATCATGCAAAA
120796 ACAAAAAAAT
Statistics
Matches: 422, Mismatches: 54, Indels: 40
0.82 0.10 0.08
Matches are distributed among these distances:
314 47 0.11
315 102 0.24
316 50 0.12
317 20 0.05
318 23 0.05
320 1 0.00
321 2 0.00
323 4 0.01
324 2 0.00
325 16 0.04
326 13 0.03
327 1 0.00
328 45 0.11
335 23 0.05
336 68 0.16
337 5 0.01
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (319 bp):
TTTTTCACGCTTTAATATCATTTTTCCATTTTTCCGAATTAATTTTTAATTAAATCGAAACAATA
TTCAGATGCTCGTAAAACAAATCCTTAAATCCAACGTGGCTGGGATTTGGTTAGATGAATATAGA
TATTTCAAGGAGTCTTTACGCCAAAAATCATGCAAAACTGAGTCGGGGCCCCCGAAACGCGTTTT
TAGCCCAAAAACATGAGGTGAGTACACGATTTCCGGCTAAAAACTGACCCGAAAGTTTTTTCTCC
GAATTTTTCGCCACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGATTGAGGG
Found at i:121611 original size:853 final size:857
Alignment explanation
Indices: 119740--121916 Score: 3089
Period size: 853 Copynumber: 2.5 Consensus size: 857
119730 TTGAAATATT
* * * * *
119740 TTTCTCGCTT-TATATATCATTTTTCTATTTTTTCCGAATCT-ATTTTTAATTAAATCGAAACAA
1 TTTCACGCTTCTA-ATATCGTTTTTCCA-TTTTTCCGAAT-TAATTTTTAATTAAATTGAAAGAA
* * * * * * ** * *
119803 TATTTAGATGCTCGTAAAAACAAATCCTTAAACCTAATATGGCTGAGAGCCTGAGATTGGTTAGA
63 GATTCAGATGCTCGTAAAAGCAAATACTTAAATCGAACGTGGCTGAGA---T----TTTGTTCGA
* * *
119868 TGAATATAGATATTTCAAGGAGTTTTTC-TGCAAAAAATCATGCAAAAACAAAAAAAAACAAATT
121 TGAATATAGATATTTCAAGGAGTTTTACGT-C-AAAAATCATGCAAAAAC-AAAAAAAA-TATTT
*
119932 TCGGCAAAAAATACACAATTCAACGCAAAAACAAATTGAAATATTTTTCTCGCTTTATATATCAT
182 TCGGCAAAAAATACACAATTCAACGCAAAAA-AAATTGAAATATTTTTCTCGCTTTAAATATCAT
* * *
119997 TTTTCTATTTTTTTCCGAATTTATTTTTAATTAAATCGAAACAATATTCAGATGCTCGTAAAATC
246 TTTTCTATTTTTTTCCGAATCTATTTCTAATTAAATCGAAACAATATTCAGATGCTCGTAAAATA
* *
120062 AAATCCTTAAATCTAATTTGGCTGAAACCCTGAGATTGGTTAGATGAATATAGATATTTCATGGA
311 AAATCCTTAAATCTAATTTGGCTGAGACCCTGAGATTGGTTAGATGAATATAGATATTTCAAGGA
120127 GTCTTTATGCCAAAAATCATAAAAAAAACTGAGTCGGGGCCCCCGAAACGCGTTTTTAGCCCAAA
376 GTCTTTA-GCCAAAAATCAT--AAAAAACTGAGTCGGGGCCCCCGAAACGCG--TTT---CC---
*
120192 AACCATGATGGTTAGTACACGATTTCCGGCTAAAAACTGACCCGAATTTTTTTTCTCCTGAATTT
430 AACCACGAT-GTTA-T--ACG---TCCGG--AAAAACTGACCCGAATTTTTTTTCTCCTGAATTT
* *
120257 TTCGCCACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGATTGATGGTCTTTTCACGCT
486 TTCGCCACAATACTCAGAAAAAACATATAATTCAACACCAAAAAGATTGATGGTCTTTTCACCCT
*
120322 TTTAATATCATTTTTCCAATTATTTCCAAATTAATTTCTAATTAAATCGAAACAAGATTCAGATG
551 TTTAATATCATTTTTCCAATTATTTCCAAATTAATTTCTAATTAAATCGAAACAAGAATCAGATG
120387 CTCGTAAAAAAAATCCTTATATCCAACGTGGCTGACATTTGGTTTGATGAATATAGATATTTCAA
616 CTCGTAAAAAAAATCCTTATATCCAACGTGGCTGACATTTGGTTTGATGAATATAGATATTTCAA
*
120452 GGAGTCATTGCGCCAAAAATCATGCAAAATTGAGTTGGGGCTCGGGAACGCGTTTTTAGCCAAAA
681 GGAGTCATTGCGCCAAAAATCATGCAAAATTGAGTCGGGGCTCGGGAACGCGTTTTTAGCCAAAA
*
120517 ATAGTGCGTACACGATTTCGGCTAAAAACTGATCGGAAAAGTTTTTTCTCAATTTTTTGCCACAA
746 ATAGTGCGTACACGATTTCGACTAAAAACTGATCGGAAAAGTTTTTTCTCAATTTTTTGCCACAA
* **
120582 TACTCCGAAAAATATATATAATTCAACGCCAAAAAGATTGACGGGTT
811 TACTCAGAAAAATATATATAATTCAACGCCAAAAAGATTGACGGGCA
*
120629 TTTCACGCTTCTAATATCGTTTTTCCATTTTTCCGAATTAATTTTTAATTAAATTGAAAGAATAT
1 TTTCACGCTTCTAATATCGTTTTTCCATTTTTCCGAATTAATTTTTAATTAAATTGAAAGAAGAT
*
120694 TCAGATGCTCGTAAAAGCAAATACTTAAATCGAACGTGGCTGGGATTTTGTTCGATGAATATAGA
66 TCAGATGCTCGTAAAAGCAAATACTTAAATCGAACGTGGCTGAGATTTTGTTCGATGAATATAGA
*
120759 TATTTCAAAGAGTGTTTACGTCAAAAATCATGCAAAAAC-AAAAAAATATTTTCGGCAAAAAATA
131 TATTTCAAGGAGT-TTTACGTCAAAAATCATGCAAAAACAAAAAAAATATTTTCGGCAAAAAATA
120823 CACAATTCAACGC-AAAAAAATTGAAATATTTTTCTCGCTTTAAATATCATTTTTCTATTTTTTT
195 CACAATTCAACGCAAAAAAAATTGAAATATTTTTCTCGCTTTAAATATCATTTTTCTATTTTTTT
*
120887 CCGAATCTATTTCTAATTAAATCGAAACAATATTCAGATACTCGTAAAAT-AAATCCTTAAATCT
260 CCGAATCTATTTCTAATTAAATCGAAACAATATTCAGATGCTCGTAAAATAAAATCCTTAAATCT
* * * *
120951 AATGTGGCTGAGAGCCAGAGATTGGTTAGATGAATATAGATATTTCAAAGAGTCTTTCAGCCAAA
325 AATTTGGCTGAGACCCTGAGATTGGTTAGATGAATATAGATATTTCAAGGAGTCTTT-AGCCAAA
** *
121016 AATCATGCAAAACTGAGTCGGGGCCCCCGAAACGCGTTT-C-A-CACGAT-TT-T-CG-GCGG-A
389 AATCATAAAAAACTGAGTCGGGGCCCCCGAAACGCGTTTCCAACCACGATGTTATACGTCCGGAA
* *
121073 AAACTTACCCGAA-TTTTTTTCTCCTGAATTTTTTGCCACAATACTCAGAAAAAACATATAATTC
454 AAACTGACCCGAATTTTTTTTCTCCTGAATTTTTCGCCACAATACTCAGAAAAAACATATAATTC
*
121137 AACACCAAAAAGATTGATGGTCTTTTCACCCTTTTAATATCATTTTTCCAATTTTTTTCCAAATT
519 AACACCAAAAAGATTGATGGTCTTTTCACCCTTTTAATATCATTTTTCCAA-TTATTTCCAAATT
*
121202 AATTTCTAATTAAATCGAAACAAGAATCAGATGCTCGTACAAACAAATCCTTATATCCAACGTGG
583 AATTTCTAATTAAATCGAAACAAGAATCAGATGCTCGTA-AAAAAAATCCTTATATCCAACGTGG
*
121267 CTGACATTTGGTTTGATGAATATAGATATTTCAAGGAGTCATTGCGCCAAAAATCATGCAATATT
647 CTGACATTTGGTTTGATGAATATAGATATTTCAAGGAGTCATTGCGCCAAAAATCATGCAAAATT
* * **
121332 GAGTCGGGTCTCGGGAACGCGTTTTTAGCCAAAGACTGTGATGGTTTGTACACGATTTCGACTAA
712 GAGTCGGGGCTCGGGAACGCGTTTTTAGCCAAA-A-----ATAGTGCGTACACGATTTCGACTAA
** *
121397 TGACTGATCGGAAGAGTTTTTTCTCAATTTTTTGCCACAATACTCAG-AAAA-ATATATAATTCA
771 AAACTGATCGGAAAAGTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAATATATATAATTCA
*
121460 ACGCCAAAAAGATTGAGGGGCA
836 ACGCCAAAAAGATTGACGGGCA
* *
121482 TTTCACGCTTCTAATATCG-TTTTCCTTTTTTTTCGAATTAATTTTTAATTAAATTG-AAGCAAG
1 TTTCACGCTTCTAATATCGTTTTTCC-ATTTTTCCGAATTAATTTTTAATTAAATTGAAAG-AAG
* *
121545 ATTCAGATTCTCGTAAAA-CAAATACTTAAATCGAACGTGGTTGAGATTTTTGTTCGATGAATAT
64 ATTCAGATGCTCGTAAAAGCAAATACTTAAATCGAACGTGGCTGAGA-TTTTGTTCGATGAATAT
*
121609 AGATATTTCAAGGAGTATTTACGTCAAAAATCATGCAAAAACAAAAACAATAATATTTTTGGCAA
128 AGATATTTCAAGGAGT-TTTACGTCAAAAATCATGCAAAAAC-AAAA-AA-AATATTTTCGGCAA
*
121674 AAAATACACAATTCAGCGCAAAAGAAAAATTTGAAATATTTTTCTCGCTTTAAATATCATTTTTC
189 AAAATACACAATTCAACGC-AAA-AAAAA-TTGAAATATTTTTCTCGCTTTAAATATCATTTTTC
*
121739 TATTTTTTTCCGAATCTATTTCTAATTAAATCGAAACAATATTCAGATGCTCGTACAATAAAATC
251 TATTTTTTTCCGAATCTATTTCTAATTAAATCGAAACAATATTCAGATGCTCGTAAAATAAAATC
*
121804 CTTAAATCTAATTTGGCTGAGACCCTGAGATTGGTTAGAGGAATATAGATATTTCAAGGAGTCTT
316 CTTAAATCTAATTTGGCTGAGACCCTGAGATTGGTTAGATGAATATAGATATTTCAAGGAGTC-T
* * * *
121869 TTTGCCAAAAATCATAAAAAACTAAGCCAGGGCCCCCGAAACGCGTTT
380 TTAGCCAAAAATCATAAAAAACTGAGTCGGGGCCCCCGAAACGCGTTT
121917 TTAACCCCAA
Statistics
Matches: 1185, Mismatches: 77, Indels: 79
0.88 0.06 0.06
Matches are distributed among these distances:
847 99 0.08
848 63 0.05
849 119 0.10
850 1 0.00
851 3 0.00
852 35 0.03
853 154 0.13
854 4 0.00
855 69 0.06
856 2 0.00
857 31 0.03
858 1 0.00
859 2 0.00
860 7 0.01
861 92 0.08
862 108 0.09
863 4 0.00
867 1 0.00
871 3 0.00
873 28 0.02
875 77 0.06
876 94 0.08
877 4 0.00
878 29 0.02
879 7 0.01
881 46 0.04
882 5 0.00
883 1 0.00
885 1 0.00
887 1 0.00
888 71 0.06
889 21 0.02
890 2 0.00
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (857 bp):
TTTCACGCTTCTAATATCGTTTTTCCATTTTTCCGAATTAATTTTTAATTAAATTGAAAGAAGAT
TCAGATGCTCGTAAAAGCAAATACTTAAATCGAACGTGGCTGAGATTTTGTTCGATGAATATAGA
TATTTCAAGGAGTTTTACGTCAAAAATCATGCAAAAACAAAAAAAATATTTTCGGCAAAAAATAC
ACAATTCAACGCAAAAAAAATTGAAATATTTTTCTCGCTTTAAATATCATTTTTCTATTTTTTTC
CGAATCTATTTCTAATTAAATCGAAACAATATTCAGATGCTCGTAAAATAAAATCCTTAAATCTA
ATTTGGCTGAGACCCTGAGATTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTAGCCAAAAA
TCATAAAAAACTGAGTCGGGGCCCCCGAAACGCGTTTCCAACCACGATGTTATACGTCCGGAAAA
ACTGACCCGAATTTTTTTTCTCCTGAATTTTTCGCCACAATACTCAGAAAAAACATATAATTCAA
CACCAAAAAGATTGATGGTCTTTTCACCCTTTTAATATCATTTTTCCAATTATTTCCAAATTAAT
TTCTAATTAAATCGAAACAAGAATCAGATGCTCGTAAAAAAAATCCTTATATCCAACGTGGCTGA
CATTTGGTTTGATGAATATAGATATTTCAAGGAGTCATTGCGCCAAAAATCATGCAAAATTGAGT
CGGGGCTCGGGAACGCGTTTTTAGCCAAAAATAGTGCGTACACGATTTCGACTAAAAACTGATCG
GAAAAGTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAATATATATAATTCAACGCCAAAAA
GATTGACGGGCA
Found at i:122195 original size:218 final size:218
Alignment explanation
Indices: 121817--122250 Score: 658
Period size: 218 Copynumber: 2.0 Consensus size: 218
121807 AAATCTAATT
* *
121817 TGGCTGAGACCCTGAGATTGGTTAGAGGAATATAGATATTTCAAGGAGTCTTTTTGCCAAAAATC
1 TGGCTGAGACCCTAAGATTGGTTAGAGGAATATAGATATTTCAAAGAGTCTTTTTGCCAAAAATC
*
121882 ATAAAAAACTAAGCCAGGGCCCCCGAAACGCGTTTTTAACCCCAAAACCATGATGGATAGTACAC
66 ATAAAAAACTAAGCCAGGGCCCCCGAAACGCGTTTTTAACCCCAAAACCATGATGGATAGCACAC
* *
121947 GATTTTCGGCTAAAAACTTACCCGAATTTTTTT-TGTCT-AAATTTTTTCCCACAATACTCAGAA
131 GATTTTCGGCTAAAAACTGACCCGAATTTTTTTCT-CCTGAAA-TTTTTCCCACAATACTCAGAA
122010 AAAAGATATAATTTAACACCAAATG
194 AAAAGATATAATTTAACACCAAATG
* * *
122035 TGGCTGAGAGCCTAAGATTGGTTAGATGAATATAGATATTTCAAAGAGTGTTTCTT-CCAAAAAT
1 TGGCTGAGACCCTAAGATTGGTTAGAGGAATATAGATATTTCAAAGAGTCTTT-TTGCCAAAAAT
** * * * * * *
122099 CATGCAAAACTGAGTCGGGGCCCCCGAAACGCGTTTTTAGCCCCAAAACTATGATGGTTAGCACA
65 CATAAAAAACTAAGCCAGGGCCCCCGAAACGCGTTTTTAACCCCAAAACCATGATGGATAGCACA
*
122164 CGATTTTCGGCTAAAAACTGACCCGAATTTTTTTCTCCTGAAATTTTTGCCACAATACTCAGAAA
130 CGATTTTCGGCTAAAAACTGACCCGAATTTTTTTCTCCTGAAATTTTTCCCACAATACTCAGAAA
*
122229 AAATATATAATTTAACACCAAA
195 AAAGATATAATTTAACACCAAA
122251 AAGATTGATG
Statistics
Matches: 195, Mismatches: 18, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
218 189 0.97
219 6 0.03
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.29
Consensus pattern (218 bp):
TGGCTGAGACCCTAAGATTGGTTAGAGGAATATAGATATTTCAAAGAGTCTTTTTGCCAAAAATC
ATAAAAAACTAAGCCAGGGCCCCCGAAACGCGTTTTTAACCCCAAAACCATGATGGATAGCACAC
GATTTTCGGCTAAAAACTGACCCGAATTTTTTTCTCCTGAAATTTTTCCCACAATACTCAGAAAA
AAGATATAATTTAACACCAAATG
Found at i:125381 original size:322 final size:321
Alignment explanation
Indices: 124724--125543 Score: 906
Period size: 318 Copynumber: 2.5 Consensus size: 321
124714 ATTGAAATAT
* * * * *
124724 TTTTCTCGCTTTAAATATCATTTTTCTATTTTTTTCCGAATTTATTTCTAATTAAATCGAAACAA
1 TTTTCACGCTTTTAATATCGTTTTTCCATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAA
* * * *
124789 TATTCAGATGCTCGTAAAAACAAATCCTTAAATCTAATGTGGCTGAGAGCCTGAGA-TTGGTTAC
66 GATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAA-----C-GAGA--CTGAGATTTGATTAG
* *
124853 ATGAATATAGATATTTCAAAGAGTC-TTTCTGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCT
123 ATGAATATAGATATTTCAAAGAGTCATTAC-GCCAAAAATCATGCAAAACTGAGCCGGGGCCCCG
* *
124917 GAAACGCGTTTTAGCCCCAAAACCATGATGGTTAGTACACGATTTTCGGCTAAAAACTGACCCGA
187 GAAACGCGTTTTAGCCCAAAAACCATGATGG-TAGTACACGATTTTCGACTAAAAACTGACCCGA
** * * * * *
124982 TTTTTTTTCCAGAATTTTTTGCCACATTACTCAGAACAAATATATAATTTAACACCAAAAAGATT
251 AGTTTTTTCCA-AATTTTTTGCCACAATACACAGAAAAAATATATAATTCAACACCAAAAAGAAT
* *
125047 GATGGTC
315 GACGGGC
*
125054 TTTTCACGCTTTTAATATCGTTTTTCCAATTTTTTTCCTGAATTAATTTCTAATTGAATCGAAAC
1 TTTTCACGCTTTTAATATCGTTTTTCC-ATTTTTTTCC-GAATTAATTTCTAATTAAATCGAAAC
* * * * * * *
125119 AAGATTCAGATGCTCATTAAAACAAATCCTTATATCCAACGCGACTGACATTTGCTTTGATGAAT
64 AAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAACGAGACTGAGATTTGATTAGATGAAT
* * * * * * *
125184 ATAGATATTTCAAGGAGTCATTGCGCCAAAAATCATGCAATATTGAGTCGGGG-CTCGGGAACGC
129 ATAGATATTTCAAAGAGTCATTACGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGGAAACGC
** * *
125248 GTTTTTAG-CCAAAAACTGTGATGG-AGTACACGA-TTTCGACTAAAAACTGATCGGAAAAGTTT
194 G-TTTTAGCCCAAAAACCATGATGGTAGTACACGATTTTCGACTAAAAACTGACCCG--AAGTTT
*
125310 TTTCTC-AATTTTTTGCCACAATACACAGAAAAAATATATAATTCAACGCCAAAAAGAATGACGG
256 TTTC-CAAATTTTTTGCCACAATACACAGAAAAAATATATAATTCAACACCAAAAAGAATGACGG
125374 GC
320 GC
* * * *
125376 TTTTCACGCTTCTAATATCGTTTTTCCA-TTTTTT-CGAATTAATTTTTATTTAAATTGAAACAA
1 TTTTCACGCTTTTAATATCGTTTTTCCATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAA
* * * * * * *
125439 GATTCAGATGCTTGTAAAAACAAATACTTAAATCGAAC-ATGGCTGGGATTTTATTCGATGAATA
66 GATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAACGA-GACTGAGATTTGATTAGATGAATA
*
125503 TAGATATTTCAAAGAGT-ATTTACGTCAAAAATCATGCAAAA
130 TAGATATTTCAAAGAGTCA-TTACGCCAAAAATCATGCAAAA
125544 ACACAAAAAA
Statistics
Matches: 418, Mismatches: 62, Indels: 32
0.82 0.12 0.06
Matches are distributed among these distances:
317 1 0.00
318 109 0.26
319 1 0.00
320 6 0.01
321 19 0.05
322 87 0.21
323 8 0.02
324 28 0.07
325 61 0.15
326 6 0.01
327 1 0.00
330 23 0.06
331 10 0.02
332 58 0.14
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (321 bp):
TTTTCACGCTTTTAATATCGTTTTTCCATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAA
GATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAACGAGACTGAGATTTGATTAGATGAATAT
AGATATTTCAAAGAGTCATTACGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGGAAACGCGT
TTTAGCCCAAAAACCATGATGGTAGTACACGATTTTCGACTAAAAACTGACCCGAAGTTTTTTCC
AAATTTTTTGCCACAATACACAGAAAAAATATATAATTCAACACCAAAAAGAATGACGGGC
Found at i:125803 original size:880 final size:878
Alignment explanation
Indices: 124100--127282 Score: 5068
Period size: 880 Copynumber: 3.6 Consensus size: 878
124090 TCAGGATCCT
* *
124100 ATTTTTTTCTCCTGAATATTTTTGCCACAATACTCAG-GAAAATATATAATTTAACACCAAAAAG
1 ATTTTTTT-TCCTGAAT-TTTTTGCCACAATACTCAGAAAAAATATATAATTCAACACCAAAAAG
* *
124164 ATTGATGGTCTTTTCACGCTTTTAATATCATTTTTTCAATTTTTTCCGAATTAATTTCAAATTAA
64 ATTGATGGTCTTTTCACGCTTTTAATATCATTTTTCCAATTTTTTCCGAATTAATTTCTAATTAA
* * *
124229 ATCAAAACAAGAATCAGATGCTCGTAAAAACAAATCCTTATATCCAACGTGGCTGACATTTGGTT
129 ATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTATATCCAACGTGCCTGACATTTGGTT
* *
124294 TGATGAATATAGATATTTCAAGGAGTTATTGCGCCAAAAATCATGCAATATTGAGTCGGGGCTCG
194 TGATGAATATAGATATTTCAAGGAGTCATTGCGCCAAAAATCATGCAAAATTGAGTCGGGGCTCG
*
124359 GGAACGCGTTTTTAGCCAAAAACTGTGATGGTTTGTACACGATTTCGGCTAAAAACTGATCGGAA
259 GGAACGCGTTTTTAGCCAAAAACTGTGATGG--AGTACACGATTTCGGCTAAAAACTGATCGGAA
124424 AAGTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATT
322 AAGTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATT
124489 GACGGGCTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTAATTTTTAATTAAATT
387 GACGGGCTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTAATTTTTAATTAAATT
* *
124554 GATACAAGATTCAGATGCTCGTAAAAACAAATACTTAAATCGAACGTGGCTGGGATTTTGTTCGA
452 GAAACAAGATTCAGATGCTCGTAAAAACAAATACTTAAATCGAACATGGCTGGGATTTTGTTCGA
124619 TGAATATAGATATTTCAAGGAGTATTTACGTCAAAAATCATGC-AAAA-ACAAAAAAATATTTTC
517 TGAATATAGATATTTCAAGGAGTATTTACGTCAAAAATCATGCAAAAACACAAAAAAATATTTTC
*
124682 GGCAAAAATACACAATTCAACGCCAAAAAAAAATTGAAATATTTTTCTCGCTTTAAATATCATTT
582 AGCAAAAATACACAATTCAA-G-CAAAAAAAAATTGAAATA-TTTTCTCGCTTTAAATATCATTT
*
124747 TTCTATTTTTTTCCGAATTTATTTCTAATTAAATCGAAACAATATTCAGATGCTCGTAAAAACAA
644 TTCTATTTTTTTCTGAATTTATTTCTAATTAAATCGAAACAATATTCAGATGCTCGTAAAAACAA
*
124812 ATCCTTAAATCTAATGTGGCTGAGAGCCTGAGATTGGTTACATGAATATAGATATTTCAAAGAGT
709 ATCCTTAAATCTAATGTGGCTGAGAGCCTGAGATTGGTTAGATGAATATAGATATTTCAAAGAGT
* *
124877 CTTTCTGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCTGAAACGCG-TTTTAGCCCCAAAACC
774 CTTTCTGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCCGAAACGCGTTTTTAGCCCAAAAACC
124941 ATGATGGTTAGTACACGATTTTCGGCTAAAAACTGACCCG
839 ATGATGGTTAGTACACGATTTTCGGCTAAAAACTGACCCG
* * * *
124981 ATTTTTTTTCCAGAATTTTTTGCCACATTACTCAGAACAAATATATAATTTAACACCAAAAAGAT
1 ATTTTTTTTCCTGAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGAT
* *
125046 TGATGGTCTTTTCACGCTTTTAATATCGTTTTTCCAATTTTTTTCCTGAATTAATTTCTAATTGA
66 TGATGGTCTTTTCACGCTTTTAATATCATTTTTCCAA-TTTTTTCC-GAATTAATTTCTAATTAA
* * * * *
125111 ATCGAAACAAGATTCAGATGCTCATTAAAACAAATCCTTATATCCAACGCGACTGACATTTGCTT
129 ATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTATATCCAACGTGCCTGACATTTGGTT
*
125176 TGATGAATATAGATATTTCAAGGAGTCATTGCGCCAAAAATCATGCAATATTGAGTCGGGGCTCG
194 TGATGAATATAGATATTTCAAGGAGTCATTGCGCCAAAAATCATGCAAAATTGAGTCGGGGCTCG
*
125241 GGAACGCGTTTTTAGCCAAAAACTGTGATGGAGTACACGATTTCGACTAAAAACTGATCGGAAAA
259 GGAACGCGTTTTTAGCCAAAAACTGTGATGGAGTACACGATTTCGGCTAAAAACTGATCGGAAAA
* *
125306 GTTTTTTCTCAATTTTTTGCCACAATACACAGAAAAAATATATAATTCAACGCCAAAAAGAATGA
324 GTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGA
*
125371 CGGGCTTTTCACGCTTCTAATATCGTTTTTCCA-TTTTTT-CGAATTAATTTTTATTTAAATTGA
389 CGGGCTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTAATTTTTAATTAAATTGA
* *
125434 AACAAGATTCAGATGCTTGTAAAAACAAATACTTAAATCGAACATGGCTGGGATTTTATTCGATG
454 AACAAGATTCAGATGCTCGTAAAAACAAATACTTAAATCGAACATGGCTGGGATTTTGTTCGATG
* *
125499 AATATAGATATTTCAAAGAGTATTTACGTCAAAAATCATGCAAAAACACAAAAAAATATTTTCAT
519 AATATAGATATTTCAAGGAGTATTTACGTCAAAAATCATGCAAAAACACAAAAAAATATTTTCAG
125564 CAAAAAATACACAATTCAAAGCAAAAAAAAATTGAAATATTTTCTCGCTTTAAATATCATTTTTC
584 C-AAAAATACACAATTC-AAGCAAAAAAAAATTGAAATATTTTCTCGCTTTAAATATCATTTTTC
*
125629 TATTTCTTTTCTGAATTTATTTCGAATTAAATCGAAACAATATTCAGATGCTCGTAAAAACAAAT
647 TATTT-TTTTCTGAATTTATTTCTAATTAAATCGAAACAATATTCAGATGCTCGTAAAAACAAAT
* *
125694 CCTTAAATCTATTGTGGCTGAGAGCCTGAGATTGGTTAGATGAATATTGATATTTCAAAGAGTCT
711 CCTTAAATCTAATGTGGCTGAGAGCCTGAGATTGGTTAGATGAATATAGATATTTCAAAGAGTCT
* *
125759 TTCTGCCAAAAATCATGCAAAACTGAGTCAGGGCCCCCGAAACGCGTTTTTAGCCCAAAAACCAT
776 TTCTGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCCGAAACGCGTTTTTAGCCCAAAAACCAT
* * *
125824 GATAGTTAGTACACGATTTTCGGCTAAAAACTTACCTG
841 GATGGTTAGTACACGATTTTCGGCTAAAAACTGACCCG
* * * *
125862 AATTTTTTTTTGTCTGCATTTTTTCCCATAATACTCA-AAAAAATATATAATTCAACACCAAAAA
1 -A-TTTTTTTT-CCTGAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACACCAAAAA
125926 GATTGATGGTCTTTTCACGCTTTTAATATCATTTTTCC-ATTTTTTCCGAATTAATTTCTAATTA
63 GATTGATGGTCTTTTCACGCTTTTAATATCATTTTTCCAATTTTTTCCGAATTAATTTCTAATTA
* * *
125990 AATCGAAACAAGATTCCGATGCTCGTAAAAATAAATCCTTATATCCAATGTGCCTGACATTTGGT
128 AATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTATATCCAACGTGCCTGACATTTGGT
* * * * * *
126055 TTGATGAATAAAAATATTTCAAGGAGTCTTTGCGTCAAAAATCATGCAAAATTGACTCGGTGCTC
193 TTGATGAATATAGATATTTCAAGGAGTCATTGCGCCAAAAATCATGCAAAATTGAGTCGGGGCTC
* * *
126120 GGGAACGCGTTTTTAGCCAAAAACCGTGATGGTGTACACGATTTCGGCTAAAAACTAATCGGAAA
258 GGGAACGCGTTTTTAGCCAAAAACTGTGATGGAGTACACGATTTCGGCTAAAAACTGATCGGAAA
126185 AGTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTG
323 AGTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTG
* *
126250 ACGGGCTTTTCACGCTTCTAATATCGTTTTTCCA-TTTTTTCTGAATTAATTTTTAATTAATTTG
388 ACGGGCTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTAATTTTTAATTAAATTG
126314 AAACAAGATTCAGATGCTCGTAAAAACAAATACTTAAATCGAACATGG--GGG-TTTTGTTCGAT
453 AAACAAGATTCAGATGCTCGTAAAAACAAATACTTAAATCGAACATGGCTGGGATTTTGTTCGAT
* *
126376 GAATATAGTTATTTCAACGAGTATTTACGTCAAAAATCATGCAAAAACA-AAAAAAATATTTTCA
518 GAATATAGATATTTCAAGGAGTATTTACGTCAAAAATCATGCAAAAACACAAAAAAATATTTTCA
* *
126440 GCAAAAA-A-A-AATT---G-------AAA-T---AT-TTTTCTCGCTTCAAATATCATTTTACT
583 GCAAAAATACACAATTCAAGCAAAAAAAAATTGAAATATTTTCTCGCTTTAAATATCATTTTTCT
* * *
126487 ATTTTTTTTCTGAATCTATTTCTAATTAAATCGAAACGATATTCAGGTGCTCGTAAAAACAAATC
648 A-TTTTTTTCTGAATTTATTTCTAATTAAATCGAAACAATATTCAGATGCTCGTAAAAACAAATC
* *
126552 CTTAAATCTAATGTGGCTGAGAGCCTGAGATTGATTAGATGAATATAGATATTTCAAGGAGTCTT
712 CTTAAATCTAATGTGGCTGAGAGCCTGAGATTGGTTAGATGAATATAGATATTTCAAAGAGTCTT
* *
126617 TCTGCAAAAAAAACATGCAAAACTGAGCCGGGGCCCCCGAAACGCGTTTTTAGCCCAAAAACCAT
777 TCTGC-CAAAAATCATGCAAAACTGAGCCGGGGCCCCCGAAACGCGTTTTTAGCCCAAAAACCAT
* * *
126682 GATGGTTAGTACATGATTTTTGGCTAAAATCTGACCCG
841 GATGGTTAGTACACGATTTTCGGCTAAAAACTGACCCG
*
126720 A-TTTTTTT-CTGAATTTTTTGTCACAATACTCAGAAAAAATATATAATTCAACACC-AAAAGAT
1 ATTTTTTTTCCTGAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGAT
126782 TGATGGTCTTTTCACGCTTTTAATATCATTTTTCCAATTTTTTTCCGAATTAATTTCTAATTAAA
66 TGATGGTCTTTTCACGCTTTTAATATCATTTTTCCAA-TTTTTTCCGAATTAATTTCTAATTAAA
*
126847 TCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTATATCCAATGTGCCTGACATTTGGTTT
130 TCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTATATCCAACGTGCCTGACATTTGGTTT
* * * * * *
126912 GATGAATATAGATATTGCAAGGAGTCTTTGCGTCAAAAATCATGCAAAATTGAGTTGGGTCTCGA
195 GATGAATATAGATATTTCAAGGAGTCATTGCGCCAAAAATCATGCAAAATTGAGTCGGGGCTCGG
* * * *
126977 GAATGCGTTTTTAGCCAAAAACTGTGATTGTTAGTACATGATTTCGGCTAAAAACTTATCGGAAA
260 GAACGCGTTTTTAGCCAAAAACTGTGA-TG-GAGTACACGATTTCGGCTAAAAACTGATCGGAAA
*
127042 AGTTTTTTCTCAATTTTTTGCCACAATACTCAG-AAAAATATACAATTCAACGCCAAAAAGATTG
323 AGTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTG
127106 ACGGGCTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTAATTTTTAATTAAATTG
388 ACGGGCTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTAATTTTTAATTAAATTG
* * * * *
127171 AAACAAGATTCAGATGCCTCGTAAAAACAAATACTTAAATCGAACGTGGATTGGATTTTTTTCTA
453 AAACAAGATTCAGATG-CTCGTAAAAACAAATACTTAAATCGAACATGGCTGGGATTTTGTTCGA
*
127236 TAAATATAGATATTTCAAGGAGTATTTACGTCAAAAATCATGCAAAA
517 TGAATATAGATATTTCAAGGAGTATTTACGTCAAAAATCATGCAAAA
127283 CTGAGTCAGT
Statistics
Matches: 2148, Mismatches: 129, Indels: 70
0.92 0.05 0.03
Matches are distributed among these distances:
853 62 0.03
854 23 0.01
855 179 0.08
856 66 0.03
857 256 0.12
858 123 0.06
860 2 0.00
861 53 0.02
862 3 0.00
869 1 0.00
873 4 0.00
874 1 0.00
875 1 0.00
876 5 0.00
877 16 0.01
878 181 0.08
879 62 0.03
880 689 0.32
881 159 0.07
882 173 0.08
883 70 0.03
884 19 0.01
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.34
Consensus pattern (878 bp):
ATTTTTTTTCCTGAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGAT
TGATGGTCTTTTCACGCTTTTAATATCATTTTTCCAATTTTTTCCGAATTAATTTCTAATTAAAT
CGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTATATCCAACGTGCCTGACATTTGGTTTG
ATGAATATAGATATTTCAAGGAGTCATTGCGCCAAAAATCATGCAAAATTGAGTCGGGGCTCGGG
AACGCGTTTTTAGCCAAAAACTGTGATGGAGTACACGATTTCGGCTAAAAACTGATCGGAAAAGT
TTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGACG
GGCTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTAATTTTTAATTAAATTGAAA
CAAGATTCAGATGCTCGTAAAAACAAATACTTAAATCGAACATGGCTGGGATTTTGTTCGATGAA
TATAGATATTTCAAGGAGTATTTACGTCAAAAATCATGCAAAAACACAAAAAAATATTTTCAGCA
AAAATACACAATTCAAGCAAAAAAAAATTGAAATATTTTCTCGCTTTAAATATCATTTTTCTATT
TTTTTCTGAATTTATTTCTAATTAAATCGAAACAATATTCAGATGCTCGTAAAAACAAATCCTTA
AATCTAATGTGGCTGAGAGCCTGAGATTGGTTAGATGAATATAGATATTTCAAAGAGTCTTTCTG
CCAAAAATCATGCAAAACTGAGCCGGGGCCCCCGAAACGCGTTTTTAGCCCAAAAACCATGATGG
TTAGTACACGATTTTCGGCTAAAAACTGACCCG
Found at i:127118 original size:322 final size:320
Alignment explanation
Indices: 126460--127288 Score: 929
Period size: 322 Copynumber: 2.5 Consensus size: 320
126450 ATTGAAATAT
* * * * * *
126460 TTTTCTCGCTTCAAATATCATTTTACTATTTTTTTTCTGAATCT-ATTTCTAATTAAATCGAAAC
1 TTTTCACGCTTCTAATATCATTTTTCCAATTTTTTTCCGAAT-TAATTTCTAATTAAATCGAAAC
* * * * * * *
126524 GATATTCAGGTGCTCGTAAAAACAAATCCTTAAATCTAATGTGGCTGAGAGCCTGAGATTGATTA
65 AAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGACT--GA--C--A-TTTGATTT
* *
126589 GATGAATATAGATATTTCAAGGAGTCTTTC-TGCAAAAAAAACATGCAAAACTGAGCCGGGGCCC
123 GATGAATATAGATATTTCAAGGAGTCTTTCGT-C--AAAAATCATGCAAAACTGAG-TGGGGCCC
* *
126653 CCGAAACGCGTTTTTAGCCCAAAAACCATGATGGTTAGTACATGATTTTTGGCTAAAATCTGACC
184 CCGAAACGCGTTTTTAGCCCAAAAACCATGATGGTTAGTACATGATTTTCGGCTAAAAACTGACC
* * * *
126718 CGATTTTTTTCTGAATTTTTTGTCACAATACTCAGAAAAAATATATAATTCAACACCAAAAGATT
249 CGAGTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATACAATTCAACACCAAAAGATT
* *
126783 GATGGTC
314 GACGGGC
*
126790 TTTTCACGCTTTTAATATCATTTTTCCAATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACA
1 TTTTCACGCTTCTAATATCATTTTTCCAATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACA
* * *
126855 AGATTCAGATGCTCGTAAAAACAAATCCTTATATCCAATGTGCCTGACATTTGGTTTGATGAATA
66 AGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGACTGACATTTGATTTGATGAATA
* * * * * *
126920 TAGATATTGCAAGGAGTCTTTGCGTCAAAAATCATGCAAAATTGAGTTGGG-TCTCGAGAATGCG
131 TAGATATTTCAAGGAGTCTTT-CGTCAAAAATCATGCAAAACTGAGTGGGGCCCCCGA-AACGCG
** * * * *
126984 TTTTTAG-CCAAAAACTGTGATTGTTAGTACATGA-TTTCGGCTAAAAACTTATCGGAAAAGTTT
194 TTTTTAGCCCAAAAACCATGATGGTTAGTACATGATTTTCGGCTAAAAACTGACCCG---AGTTT
*
127047 TTTCTCAATTTTTTGCCACAATACTCAG-AAAAATATACAATTCAACGCCAAAAAGATTGACGGG
256 TTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATACAATTCAACACC-AAAAGATTGACGGG
127111 C
320 C
* * *
127112 TTTTCACGCTTCTAATATCGTTTTTCC-ATTTTTTTCCGAATTAATTTTTAATTAAATTGAAACA
1 TTTTCACGCTTCTAATATCATTTTTCCAATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACA
* * * * * * * *
127176 AGATTCAGATGCCTCGTAAAAACAAATACTTAAATCGAACGTGGATTG-GATTT-TTTTCTATAA
66 AGATTCAGATG-CTCGTAAAAACAAATCCTTAAATCCAATGT-GACTGACATTTGATTT-GATGA
*
127239 ATATAGATATTTCAAGGAGTATTTACGTCAAAAATCATGCAAAACTGAGT
128 ATATAGATATTTCAAGGAGTCTTT-CGTCAAAAATCATGCAAAACTGAGT
127289 CAGTGCTAAA
Statistics
Matches: 431, Mismatches: 57, Indels: 30
0.83 0.11 0.06
Matches are distributed among these distances:
319 16 0.04
320 28 0.06
321 83 0.19
322 165 0.38
323 36 0.08
324 3 0.01
325 1 0.00
326 1 0.00
328 2 0.00
329 1 0.00
330 95 0.22
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (320 bp):
TTTTCACGCTTCTAATATCATTTTTCCAATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACA
AGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGACTGACATTTGATTTGATGAATA
TAGATATTTCAAGGAGTCTTTCGTCAAAAATCATGCAAAACTGAGTGGGGCCCCCGAAACGCGTT
TTTAGCCCAAAAACCATGATGGTTAGTACATGATTTTCGGCTAAAAACTGACCCGAGTTTTTTCT
CAATTTTTTGCCACAATACTCAGAAAAAATATACAATTCAACACCAAAAGATTGACGGGC
Found at i:127634 original size:15 final size:15
Alignment explanation
Indices: 127613--127648 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
127603 TTTAAATTAT
*
127613 AATAATATAATTAAA
1 AATAATATAATAAAA
*
127628 CATAATATAATAAAA
1 AATAATATAATAAAA
127643 AATAAT
1 AATAAT
127649 TATTAGAAGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (15 bp):
AATAATATAATAAAA
Found at i:129893 original size:20 final size:20
Alignment explanation
Indices: 129868--129907 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
129858 TGTAGCAATA
129868 TTAAAATTGTTTACGTAGTT
1 TTAAAATTGTTTACGTAGTT
129888 TTAAAATTGTTTACGTAGTT
1 TTAAAATTGTTTACGTAGTT
129908 GAAACTTTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.05, G:0.15, T:0.50
Consensus pattern (20 bp):
TTAAAATTGTTTACGTAGTT
Found at i:130215 original size:6 final size:6
Alignment explanation
Indices: 130194--130227 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
130184 TTTTCTAGGG
130194 AAACAA ACAA-AA AAACAA AAACAA AAACAA AAAC
1 AAACAA A-AACAA AAACAA AAACAA AAACAA AAAC
130228 CCCCCACTCC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 2 0.08
6 22 0.85
7 2 0.08
ACGTcount: A:0.82, C:0.18, G:0.00, T:0.00
Consensus pattern (6 bp):
AAACAA
Found at i:136192 original size:12 final size:12
Alignment explanation
Indices: 136175--136199 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
136165 AAAAAGAAGG
136175 AAAACAACAAAA
1 AAAACAACAAAA
136187 AAAACAACAAAA
1 AAAACAACAAAA
136199 A
1 A
136200 TTTGAACTTC
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:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAACAACAAAA
Done.