Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 405 of 444
Found at i:117695566 original size:51 final size:52
Alignment explanation
Indices: 117695501--117695609 Score: 193
Period size: 51 Copynumber: 2.1 Consensus size: 52
117695491 TGATACAAAT
117695501 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTCCA
* *
117695553 TGATAAT-GGTTAGGTAAATGTTTCATGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTCCA
117695604 TGATAA
1 TGATAA
117695610 GAATTCATGT
Statistics
Matches: 55, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
51 48 0.87
52 7 0.13
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.37
Consensus pattern (52 bp):
TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTCCA
Found at i:117701364 original size:26 final size:26
Alignment explanation
Indices: 117701277--117701410 Score: 218
Period size: 26 Copynumber: 5.2 Consensus size: 26
117701267 TGATACAAAT
117701277 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
117701303 TGATAAT-GGTTAGGTAAATGTT-CA
1 TGATAATAGGTTAGGTAAATGTTCCA
117701327 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
117701353 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
117701379 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
117701405 TGATAA
1 TGATAA
117701411 GAATTCATGT
Statistics
Matches: 104, Mismatches: 2, Indels: 4
0.95 0.02 0.04
Matches are distributed among these distances:
24 9 0.09
25 30 0.29
26 65 0.62
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:117704659 original size:11 final size:11
Alignment explanation
Indices: 117704643--117704667 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
117704633 TGACGGAACT
117704643 TTAATACTAGC
1 TTAATACTAGC
117704654 TTAATACTAGC
1 TTAATACTAGC
117704665 TTA
1 TTA
117704668 CTAAATGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (11 bp):
TTAATACTAGC
Found at i:117711815 original size:2 final size:2
Alignment explanation
Indices: 117711808--117711846 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
117711798 AGAGGCAGGC
117711808 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
117711847 CCAAGCCATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:117719298 original size:10 final size:10
Alignment explanation
Indices: 117719278--117719316 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
117719268 TAATTACTAG
*
117719278 TTTTCTGTTT
1 TTTTTTGTTT
*
117719288 TGTTTTGTTT
1 TTTTTTGTTT
*
117719298 TTTTTTTTTT
1 TTTTTTGTTT
117719308 TTTTTTGTT
1 TTTTTTGTT
117719317 AATGAGTAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.00, C:0.03, G:0.10, T:0.87
Consensus pattern (10 bp):
TTTTTTGTTT
Found at i:117721574 original size:12 final size:12
Alignment explanation
Indices: 117721559--117721603 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
117721549 AATTAACGCC
117721559 CCACTAAACCAA
1 CCACTAAACCAA
117721571 CCACTAAACC--
1 CCACTAAACCAA
117721581 CCACTAAACCAA
1 CCACTAAACCAA
**
117721593 TAACTAAACCA
1 CCACTAAACCA
117721604 CCCCACTAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 10 0.34
12 19 0.66
ACGTcount: A:0.49, C:0.40, G:0.00, T:0.11
Consensus pattern (12 bp):
CCACTAAACCAA
Found at i:117721582 original size:22 final size:22
Alignment explanation
Indices: 117721557--117721602 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
117721547 CCAATTAACG
*
117721557 CCCCACTAAACCAACCACTAAA
1 CCCCACTAAACCAACAACTAAA
*
117721579 CCCCACTAAACCAATAACTAAA
1 CCCCACTAAACCAACAACTAAA
117721601 CC
1 CC
117721603 ACCCCACTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.46, C:0.43, G:0.00, T:0.11
Consensus pattern (22 bp):
CCCCACTAAACCAACAACTAAA
Found at i:117721586 original size:10 final size:10
Alignment explanation
Indices: 117721557--117721590 Score: 50
Period size: 10 Copynumber: 3.2 Consensus size: 10
117721547 CCAATTAACG
117721557 CCCCACTAAA
1 CCCCACTAAA
117721567 CCAACCACTAAA
1 CC--CCACTAAA
117721579 CCCCACTAAA
1 CCCCACTAAA
117721589 CC
1 CC
117721591 AATAACTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 12 0.55
12 10 0.45
ACGTcount: A:0.41, C:0.50, G:0.00, T:0.09
Consensus pattern (10 bp):
CCCCACTAAA
Found at i:117722050 original size:3 final size:3
Alignment explanation
Indices: 117722042--117722382 Score: 169
Period size: 3 Copynumber: 114.7 Consensus size: 3
117722032 AGGGAGAGTG
117722042 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
117722090 TTA TTA TTA TTA CTA TTA TT- CTA TATA CTA TTA TTG TT- TTC TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA
* * * * * *
117722133 TT- TTA TTA TTA TTA GTA GTAA CGTA ATA GTG TT- TTA TTA TT- TTA
1 TTA TTA TTA TTA TTA TTA -TTA -TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
117722177 TTA TTA TTA CCTTT TTA TTA TTA TTA TTA TTAA CCTA CTA TTA TTA TTT
1 TTA TTA TTA --TTA TTA TTA TTA TTA TTA TT-A -TTA TTA TTA TTA TTA
* * *
117722226 TTA TTA ATA -TA GTA TTA TT- TTC TT- TT- TTA -TA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
** * * * *
117722269 TTA ACA CGTA -TA TTA TTA TTA TT- GTA TCA TT- TCTA TTT TTA TT-
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
* * *
117722312 TTA TTA TTA CTT- TTA TTA CTA TTG TT- TCTA TTA TTT TTA TT- TTCA
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TT-A
*
117722357 TTA CTTCCA TTA TTA TTA TCA TTA TT
1 TTA -TT--A TTA TTA TTA TTA TTA TT
117722383 TTCAATTCTC
Statistics
Matches: 266, Mismatches: 42, Indels: 60
0.72 0.11 0.16
Matches are distributed among these distances:
2 32 0.12
3 213 0.80
4 15 0.06
5 5 0.02
6 1 0.00
ACGTcount: A:0.28, C:0.07, G:0.03, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:117722204 original size:23 final size:22
Alignment explanation
Indices: 117722167--117722291 Score: 82
Period size: 23 Copynumber: 5.7 Consensus size: 22
117722157 AATAGTGTTT
117722167 TATTATT-TTATTATTATTACC
1 TATTATTATTATTATTATTACC
*
117722188 TTTTTATTATTATTATTATTAACC
1 -TATTATTATTATTATTATT-ACC
* * *
117722212 TACTATTATTATTTTTATTA-A
1 TATTATTATTATTATTATTACC
* *
117722233 TATAGTATTATT-TTCTTTTTTA--
1 TAT--TATTATTATT-ATTATTACC
** *
117722255 TATTATTATTATTATTAACACG
1 TATTATTATTATTATTATTACC
117722277 TA-TATTATTATTATT
1 TATTATTATTATTATT
117722292 GTATCATTTC
Statistics
Matches: 84, Mismatches: 11, Indels: 17
0.75 0.10 0.15
Matches are distributed among these distances:
20 10 0.12
21 17 0.20
22 14 0.17
23 40 0.48
24 3 0.04
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (22 bp):
TATTATTATTATTATTATTACC
Found at i:117722478 original size:20 final size:20
Alignment explanation
Indices: 117722453--117722490 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
117722443 TTATATTTAC
117722453 TTTTTTTAAT-ATTATTACCA
1 TTTTTTT-ATGATTATTACCA
117722473 TTTTTTTATGATTATTAC
1 TTTTTTTATGATTATTAC
117722491 TATTATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.26, C:0.08, G:0.03, T:0.63
Consensus pattern (20 bp):
TTTTTTTATGATTATTACCA
Found at i:117722846 original size:125 final size:127
Alignment explanation
Indices: 117722664--117722925 Score: 341
Period size: 125 Copynumber: 2.1 Consensus size: 127
117722654 ATTTTTCAAG
* * * * * *
117722664 TAAAGGCAATATTTGGTACTTGGAAATTAGAGAAATCGTGTCCTAACGTATTGGGTTTCGGTTTT
1 TAAAGGCAATATTCGGTAATTAGAAATTAGAGAAATCGTGCCCTAACGTACTGGGTTTCGATTTT
* *
117722729 -TCGTTTGATCTAAGTAACCGATTAT-CCTTTT-AAATTAAAATACATGAGTTTTAAATAAAA
66 CT-GTTTGATCTAAATAACCGAATATACCTTTTAAAATTAAAATACATGAGTTTTAAATAAAA
* * * *
117722789 TAAATGCAATATTCGGTAATTAGAAATTCGAGTAGTCGTGCCCTAACGTACTGGGTTTCGATTTT
1 TAAAGGCAATATTCGGTAATTAGAAATTAGAGAAATCGTGCCCTAACGTACTGGGTTTCGATTTT
* * * *
117722854 CTGTTTGATCTAAATATCCGAATATACTTTTTAAAATTTAAATACATGAGTTTTAAATGAAA
66 CTGTTTGATCTAAATAACCGAATATACCTTTTAAAATTAAAATACATGAGTTTTAAATAAAA
117722916 TAGAAGGCAA
1 TA-AAGGCAA
117722926 GCTCATACTC
Statistics
Matches: 116, Mismatches: 17, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
125 75 0.65
126 6 0.05
127 29 0.25
128 6 0.05
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (127 bp):
TAAAGGCAATATTCGGTAATTAGAAATTAGAGAAATCGTGCCCTAACGTACTGGGTTTCGATTTT
CTGTTTGATCTAAATAACCGAATATACCTTTTAAAATTAAAATACATGAGTTTTAAATAAAA
Found at i:117729432 original size:133 final size:133
Alignment explanation
Indices: 117729262--117729686 Score: 663
Period size: 133 Copynumber: 3.2 Consensus size: 133
117729252 AGATATAAGT
* * * *
117729262 CTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAAAATTGCAGACCTTATCTCCTTAAACAGTAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAAATTGCAGATCTTATCTCCCTAAGCAGTAG
*
117729327 TGGAGCAGATCGAATACGGCAAATCTTATCTCCATGTAGCGGCAATAAAGCAGATTTAAGCCACC
66 TGGAGCAGATCGAATACGGCAAATCTTATCTCCATGTAGCGGCAATAGAGCAGATTTAAGCCACC
*
117729392 AAC
131 AGC
* * *
117729395 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAATTGTAGATCTTATGTCCCTAAGCAGTAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAAATTGCAGATCTTATCTCCCTAAGCAGTAG
* *
117729460 TGGAGCAGATCGAAGACGGCAAATCTTATCTCCATGTAGCGGCAATAGAGCAGATTTAAGCTACC
66 TGGAGCAGATCGAATACGGCAAATCTTATCTCCATGTAGCGGCAATAGAGCAGATTTAAGCCACC
117729525 AGC
131 AGC
* * *
117729528 CTTATCTCCCTGAAATTGCAGTGGAGCAGACTAAAAATTACAGATCTTATCTCCCTAAGTAGTAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAAATTGCAGATCTTATCTCCCTAAGCAGTAG
* * * * *
117729593 TGGAGCAGATCG-ATAATGGCGAATCTTATCTCCATATAGCGGCAATAGAGTAGATTTAAGCCTC
66 TGGAGCAGATCGAAT-ACGGCAAATCTTATCTCCATGTAGCGGCAATAGAGCAGATTTAAGCCAC
117729657 CAGC
130 CAGC
117729661 CTTATCTCCCTGAAGTTGCAGTGGAG
1 CTTATCTCCCTGAAGTTGCAGTGGAG
117729687 TAGGTTCAAG
Statistics
Matches: 266, Mismatches: 25, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
132 1 0.00
133 265 1.00
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (133 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAAATTGCAGATCTTATCTCCCTAAGCAGTAG
TGGAGCAGATCGAATACGGCAAATCTTATCTCCATGTAGCGGCAATAGAGCAGATTTAAGCCACC
AGC
Found at i:117729490 original size:177 final size:177
Alignment explanation
Indices: 117729128--117729492 Score: 425
Period size: 177 Copynumber: 2.1 Consensus size: 177
117729118 AAAATTGTAG
*
117729128 ATCTTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGACGACAAATCTTATCTCCATGTAGCGGC
1 ATCTTATCTCCCTAAACAGTAGTGGAACAGATCGAAGACGACAAATCTTATCTCCATGTAGCGGC
** * * * * * *
117729193 AATGGAGCAGATTTAAGCCACTAGCCTTTTCTTCATGAAGTTGCAGTGGAGCAAGTTCAAGATAT
66 AATAAAGCAGATTTAAGCCACCAACCTTATCTCCATGAAGTTGCAGTGGAGCAAGCTCAAAATAT
* ** *
117729258 AAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAAAATTGCAG
131 AAGTCTTATCTCCCTGAAGTCACAGTGGAGCAGACTAAAAACGGCAA
* * * * *
117729305 ACCTTATCTCCTTAAACAGTAGTGGAGCAGATCGAATACGGCAAATCTTATCTCCATGTAGCGGC
1 ATCTTATCTCCCTAAACAGTAGTGGAACAGATCGAAGACGACAAATCTTATCTCCATGTAGCGGC
* *
117729370 AATAAAGCAGATTTAAGCCACCAACCTTATCTCCCTGAAGTTGCAGTGGAGC-AGACTGAAAAT-
66 AATAAAGCAGATTTAAGCCACCAACCTTATCTCCATGAAGTTGCAGTGGAGCAAG-CTCAAAATA
* * * * *
117729433 TGTAGATCTTATGTCCCT-AAG-CAGTAGTGGAGCAGA-TCGAAGACGGCAA
130 T-AAG-TCTTATCTCCCTGAAGTCA-CAGTGGAGCAGACT-AAAAACGGCAA
117729482 ATCTTATCTCC
1 ATCTTATCTCC
117729493 ATGTAGCGGC
Statistics
Matches: 157, Mismatches: 26, Indels: 10
0.81 0.13 0.05
Matches are distributed among these distances:
176 5 0.03
177 141 0.90
178 11 0.07
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.26
Consensus pattern (177 bp):
ATCTTATCTCCCTAAACAGTAGTGGAACAGATCGAAGACGACAAATCTTATCTCCATGTAGCGGC
AATAAAGCAGATTTAAGCCACCAACCTTATCTCCATGAAGTTGCAGTGGAGCAAGCTCAAAATAT
AAGTCTTATCTCCCTGAAGTCACAGTGGAGCAGACTAAAAACGGCAA
Found at i:117729667 original size:177 final size:177
Alignment explanation
Indices: 117729484--117729836 Score: 428
Period size: 177 Copynumber: 2.0 Consensus size: 177
117729474 GACGGCAAAT
* * * * *
117729484 CTTATCTCCATGTAGCGGCAATAGAGCAGATTTAAGCTACCAGCCTTATCTCCCTGAAATTGCAG
1 CTTATCTCCATGAAGCGGCAATAGAGCAGATTCAAGATACAAGCCTTATCACCCTGAAATTGCAG
* *
117729549 TGGAGCAGACTAAAAATTA-C-AGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGATA-A-T
66 TGGAGCAGACTAAAAA-TAGCGA-ATATTATCTCCCTAAGCAGTAGTGGAGCAGATCGA-AGACT
* *
117729610 GGCGAATCTTATCTCCATATAGCGGCAAT-AGAGTAGATTTAAGCCTCCAGC
128 -GCGAATCTTATCTCCATATAGCGGCAATGA-AGCAGATTTAAGCCACCAGC
* ** * * * * * *
117729661 CTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTCAAGATACAAGTCTTATCACCCTGAAGTTGCAG
1 CTTATCTCCATGAAGCGGCAATAGAGCAGATTCAAGATACAAGCCTTATCACCCTGAAATTGCAG
* * *
117729726 TGGAGTAGACTAAAGATAGCGAATATTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACTGCG
66 TGGAGCAGACTAAAAATAGCGAATATTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACTGCG
*
117729791 AATCTTATCTCCATGTAGCGGCAATGAAGCAGATTTAAGCCACCAG
131 AATCTTATCTCCATATAGCGGCAATGAAGCAGATTTAAGCCACCAG
117729837 ATCTTATTTC
Statistics
Matches: 149, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
176 3 0.02
177 143 0.96
178 3 0.02
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (177 bp):
CTTATCTCCATGAAGCGGCAATAGAGCAGATTCAAGATACAAGCCTTATCACCCTGAAATTGCAG
TGGAGCAGACTAAAAATAGCGAATATTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACTGCG
AATCTTATCTCCATATAGCGGCAATGAAGCAGATTTAAGCCACCAGC
Found at i:117729688 original size:44 final size:44
Alignment explanation
Indices: 117729658--117729743 Score: 127
Period size: 44 Copynumber: 2.0 Consensus size: 44
117729648 TTAAGCCTCC
* *
117729658 AGCCTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTCAAGATACA
1 AGCCTTATCACCCTGAAGTTGCAGTGGAGTAGATTCAAGATACA
* * *
117729702 AGTCTTATCACCCTGAAGTTGCAGTGGAGTAGACTAAAGATA
1 AGCCTTATCACCCTGAAGTTGCAGTGGAGTAGATTCAAGATA
117729744 GCGAATATTA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (44 bp):
AGCCTTATCACCCTGAAGTTGCAGTGGAGTAGATTCAAGATACA
Found at i:117729718 original size:310 final size:308
Alignment explanation
Indices: 117729118--117729836 Score: 772
Period size: 310 Copynumber: 2.3 Consensus size: 308
117729108 GCAACACCGA
* *
117729118 AAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGACGACAAATCTTATCTCC
1 AAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTCC
* * * *
117729183 ATGTAGCGGCAATGGAGCAGATTTAAGCCACTAGCCTTTTCTTCATGAAGTTGCAGTGGAGCAAG
66 ATGTAGCGGCAAT-GAGCAGATTTAAGCCACCAGCCTTATCTCCATGAAATTGCAGTGGAGCAAG
* * * *
117729248 TTCAAGATATAAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAAAATTGCAGACCTTATC
130 CTAAAAATATAAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAAAATGGCAGACCTTATC
* * * * * * *
117729313 TCCTTAAACAGTAGTGGAGCAGATCGAATACGGCAAATCTTATCTCCATGTAGCGGCAATAAAGC
195 TCCATAAACAGCAATAGAGCAGATCGAATACCGCAAACCTTATCTCCATGAAGCGGCAATAAAGC
* * *
117729378 AGATTTAAGCCACCAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT
260 AGATTCAAGACACCAACCTTATCACCCTGAAGTTGCAGTGGAGCAGACT
*
117729427 GAAAATTGTAGATCTTATGTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTC
1 -AAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTC
* *
117729492 CATGTAGCGGCAATAGAGCAGATTTAAGCTACCAGCCTTATCTCCCTGAAATTGCAGTGGAGC-A
65 CATGTAGCGGCAAT-GAGCAGATTTAAGCCACCAGCCTTATCTCCATGAAATTGCAGTGGAGCAA
* * *
117729556 GACTAAAAAT-TACAGATCTTATCTCCCT-AAG-TAGTAGTGGAGCAGA-TCGATAATGGC-GAA
129 G-CTAAAAATATA-AG-TCTTATCTCCCTGAAGTTA-CAGTGGAGCAGACT-AAAAATGGCAG-A
* * * * ** * * * * * **
117729616 TCTTATCTCCATATAGCGGCAATAGAGTAGATTTAA-GCCTCCAGCCTTATCTCCCTGAAGTTGC
188 CCTTATCTCCATA-AACAGCAATAGAGCAGATCGAATACCGCAAACCTTATCTCCATGAAGCGGC
* ** * * * * *
117729680 AGTGGAGTAGGTTCAAGATA-CAAGTCTTATCACCCTGAAGTTGCAGTGGAGTAGACT
252 AATAAAGCAGATTCAAGACACCAA-CCTTATCACCCTGAAGTTGCAGTGGAGCAGACT
* * * * * *
117729737 AAAGATAG-CGAATATTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACTGCGAATCTTATCT
1 AAA-ATTGTAG-ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCT
117729801 CCATGTAGCGGCAATGAAGCAGATTTAAGCCACCAG
64 CCATGTAGCGGCAATG-AGCAGATTTAAGCCACCAG
117729837 ATCTTATTTC
Statistics
Matches: 342, Mismatches: 56, Indels: 22
0.81 0.13 0.05
Matches are distributed among these distances:
309 16 0.05
310 300 0.88
311 26 0.08
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.26
Consensus pattern (308 bp):
AAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTCC
ATGTAGCGGCAATGAGCAGATTTAAGCCACCAGCCTTATCTCCATGAAATTGCAGTGGAGCAAGC
TAAAAATATAAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAAAATGGCAGACCTTATCT
CCATAAACAGCAATAGAGCAGATCGAATACCGCAAACCTTATCTCCATGAAGCGGCAATAAAGCA
GATTCAAGACACCAACCTTATCACCCTGAAGTTGCAGTGGAGCAGACT
Found at i:117729748 original size:133 final size:132
Alignment explanation
Indices: 117729262--117729758 Score: 545
Period size: 133 Copynumber: 3.7 Consensus size: 132
117729252 AGATATAAGT
* * * * **
117729262 CTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAAAATTGCAGACCTTATCTCCTTAAACAGTAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAAA-TACAGATCTTATCTCCCTAAGTAGTAG
* * * * * *
117729327 TGGAGCAGA-TCGAATACGGCAAATCTTATCTCCATGTAGCGGCAATAAAGCAGATTTAAGCCAC
65 TGGAGCAGACT-AAAGATGGCGAATCTTATCTCCATGTAGCGGCAATAGAGCAGATTTAAGCCTC
*
117729391 CAAC
129 CAGC
* ** * *
117729395 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAATTGTAGATCTTATGTCCCTAAGCAGTAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAAAATACAGATCTTATCTCCCTAAGTAGTAG
* * *
117729460 TGGAGCAGA-TCGAAGACGGCAAATCTTATCTCCATGTAGCGGCAATAGAGCAGATTTAAG-CTA
65 TGGAGCAGACT-AAAGATGGCGAATCTTATCTCCATGTAGCGGCAATAGAGCAGATTTAAGCCT-
117729523 CCAGC
128 CCAGC
*
117729528 CTTATCTCCCTGAAATTGCAGTGGAGCAGACTAAAAATTACAGATCTTATCTCCCTAAGTAGTAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAAA-TACAGATCTTATCTCCCTAAGTAGTAG
* * * *
117729593 TGGAGCAGATCGATA-ATGGCGAATCTTATCTCCATATAGCGGCAATAGAGTAGATTTAAGCCTC
65 TGGAGCAGA-CTAAAGATGGCGAATCTTATCTCCATGTAGCGGCAATAGAGCAGATTTAAGCCTC
117729657 CAGC
129 CAGC
* ** * * * * *
117729661 CTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTCAAGATACA-AGTCTTATCACCCTGAAGTTGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAAATACAGA-TCTTATCTCCCT-AAGTAGTA
* * *
117729725 GTGGAGTAGACTAAAGATAGCGAATATTATCTCC
64 GTGGAGCAGACTAAAGATGGCGAATCTTATCTCC
117729759 CTAAGCAGTA
Statistics
Matches: 317, Mismatches: 38, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
131 1 0.00
132 23 0.07
133 286 0.90
134 7 0.02
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.26
Consensus pattern (132 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAAATACAGATCTTATCTCCCTAAGTAGTAGT
GGAGCAGACTAAAGATGGCGAATCTTATCTCCATGTAGCGGCAATAGAGCAGATTTAAGCCTCCA
GC
Found at i:117729940 original size:43 final size:45
Alignment explanation
Indices: 117729887--117730097 Score: 126
Period size: 45 Copynumber: 4.8 Consensus size: 45
117729877 AGCAAACCTT
* * *
117729887 ATCTCTCTGAAGTTGCAG-AGAGCAGGTTGAAGTTA-CA-AGTCTC
1 ATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGATAGCAGA-TCTC
* *
117729930 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAGATCTT
1 ATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGATAGCAGATCTC
* ** ** ** * * *
117729975 ATCTCCTTGAAGTTATAGCGGAGCAGATCAAAGATAGTAAATCTT
1 ATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGATAGCAGATCTC
** * ** * *
117730020 ATCTTTCTGAAGTTGCAATAGAATAGGTTGAAG-TAGCA-AGTCTT
1 ATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGATAGCAGA-TCTC
* * * * *
117730064 ATCTCCTTGGAGTTGCAGTGGAGCGGACTGAAGA
1 ATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGA
117730098 CCACAAACCT
Statistics
Matches: 125, Mismatches: 38, Indels: 8
0.73 0.22 0.05
Matches are distributed among these distances:
43 18 0.14
44 44 0.35
45 62 0.50
46 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (45 bp):
ATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGATAGCAGATCTC
Found at i:117729989 original size:133 final size:134
Alignment explanation
Indices: 117729834--117730097 Score: 343
Period size: 133 Copynumber: 2.0 Consensus size: 134
117729824 TTTAAGCCAC
* * * *
117729834 CAGATCTTATTTCCCTAAAGTTATAGCGGAATAGATCGAGGATAGCAAACCTTATCTCTCTGAAG
1 CAGATCTTATCTCCCTAAAGTTATAGCGGAACAGATCAAAGATAGCAAACCTTATCTCTCTGAAG
* *
117729899 TTGC-AGAGAGCAGGTTGAAGTTA-CAAGTCTCATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA
66 TTGCAAGAGAACAGGTTGAAG-TAGCAAGTCTCATCTCCCTGAAGTTGCAGTGGAGCAGACTGAA
117729962 GATAG
130 GATAG
* * * * * *
117729967 CAGATCTTATCTCCTTGAAGTTATAGCGGAGCAGATCAAAGATAGTAAATCTTATCTTTCTGAAG
1 CAGATCTTATCTCCCTAAAGTTATAGCGGAACAGATCAAAGATAGCAAACCTTATCTCTCTGAAG
* * * * * *
117730032 TTGCAATAGAATAGGTTGAAGTAGCAAGTCTTATCTCCTTGGAGTTGCAGTGGAGCGGACTGAAG
66 TTGCAAGAGAACAGGTTGAAGTAGCAAGTCTCATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG
117730097 A
131 A
117730098 CCACAAACCT
Statistics
Matches: 111, Mismatches: 18, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
133 61 0.55
134 50 0.45
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (134 bp):
CAGATCTTATCTCCCTAAAGTTATAGCGGAACAGATCAAAGATAGCAAACCTTATCTCTCTGAAG
TTGCAAGAGAACAGGTTGAAGTAGCAAGTCTCATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG
ATAG
Found at i:117730110 original size:134 final size:133
Alignment explanation
Indices: 117729839--117730121 Score: 336
Period size: 134 Copynumber: 2.1 Consensus size: 133
117729829 GCCACCAGAT
* * * * *
117729839 CTTATTTCCCTAAAGTTATAGCGGAATAGATCGAGGATAGCAAACCTTATCTCTCTGAAGTTGCA
1 CTTATCTCCCTGAAGTTATAGCGGAACAGATCAAAGATAGCAAACCTTATCTCTCTGAAGTTGCA
* * *
117729904 GAGAGCAGGTTGAAGTTACAAGTCTCATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCA
66 GAGAACAGGTTGAAGTTACAAGTCTCATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACAGCA
* *
117729969 GAT
131 AAC
* * * * *
117729972 CTTATCTCCTTGAAGTTATAGCGGAGCAGATCAAAGATAGTAAATCTTATCTTTCTGAAGTTGCA
1 CTTATCTCCCTGAAGTTATAGCGGAACAGATCAAAGATAGCAAACCTTATCTCTCTGAAGTTGC-
* * * * * *
117730037 ATAGAATAGGTTGAAG-TAGCAAGTCTTATCTCCTTGGAGTTGCAGTGGAGCGGACTGAAGACCA
65 AGAGAACAGGTTGAAGTTA-CAAGTCTCATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGA-CA
117730101 -CAAAC
128 GCAAAC
117730106 CTTATCTCCCTGAAGT
1 CTTATCTCCCTGAAGT
117730122 CGTAGTGGAG
Statistics
Matches: 125, Mismatches: 22, Indels: 5
0.82 0.14 0.03
Matches are distributed among these distances:
133 56 0.45
134 68 0.54
135 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.28
Consensus pattern (133 bp):
CTTATCTCCCTGAAGTTATAGCGGAACAGATCAAAGATAGCAAACCTTATCTCTCTGAAGTTGCA
GAGAACAGGTTGAAGTTACAAGTCTCATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACAGCA
AAC
Found at i:117730626 original size:12 final size:12
Alignment explanation
Indices: 117730611--117730655 Score: 67
Period size: 12 Copynumber: 3.9 Consensus size: 12
117730601 AATTAACACC
117730611 CCACTAAACCAA
1 CCACTAAACCAA
*
117730623 CCACTACACC--
1 CCACTAAACCAA
117730633 CCACTAAACCAA
1 CCACTAAACCAA
117730645 CCACTAAACCA
1 CCACTAAACCA
117730656 CCCCACTAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 9 0.31
12 20 0.69
ACGTcount: A:0.44, C:0.47, G:0.00, T:0.09
Consensus pattern (12 bp):
CCACTAAACCAA
Found at i:117730631 original size:22 final size:23
Alignment explanation
Indices: 117730604--117730664 Score: 97
Period size: 22 Copynumber: 2.6 Consensus size: 23
117730594 ACAGTCCAAT
117730604 TAACACCCCACTAAACCAACCAC
1 TAACACCCCACTAAACCAACCAC
117730627 T-ACACCCCACTAAACCAACCAC
1 TAACACCCCACTAAACCAACCAC
117730649 TAAACCACCCCACTAA
1 T-AA-CACCCCACTAA
117730665 CTTTATCACC
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
22 22 0.63
23 1 0.03
24 1 0.03
25 11 0.31
ACGTcount: A:0.43, C:0.48, G:0.00, T:0.10
Consensus pattern (23 bp):
TAACACCCCACTAAACCAACCAC
Found at i:117731100 original size:3 final size:3
Alignment explanation
Indices: 117731092--117731451 Score: 128
Period size: 3 Copynumber: 119.7 Consensus size: 3
117731082 TTGTTTTTAA
*
117731092 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA- TAT ATAC TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT
* * * * * * * *
117731137 TAC TAT T-T TCT T-T T-T TAT TAT TAG TAG TAGT AACG TAA TAG TAGT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TA-T TAT TAT TA-T
** * *
117731182 T-T TAT TAT T-T TAT TAT TAT TAT T-T CCT TTT TAT TAC TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
117731227 TAACT TAC TAT TAT TAT TTT TAT TAA TA- TAG TAT TAT T-T TCT T-T
1 T-A-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
117731271 TTT TA- TAT TGT TAT TAT TAT TAG CA- CAT ATAT TAT TAT TAT TAAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT T-AT
* * * * *
117731316 GTAT CAT TGT TAT TTT TAT T-T TAT TAT TACT T-T TAT TAC TAT TGT
1 -TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT
*
117731361 T-T CTAT TAT TAT TAT T-T TCAT TACT TCCAT TAT TAT TAT CAT TAT
1 TAT -TAT TAT TAT TAT TAT T-AT TA-T T--AT TAT TAT TAT TAT TAT
* *
117731406 T-T TCAAT TAT CAT TAA TAT GTCAT T-T GT-T TAT TAT TAT TAT TAT
1 TAT T--AT TAT TAT TAT TAT -T-AT TAT -TAT TAT TAT TAT TAT TAT
117731450 TA
1 TA
117731452 ACACTGTTAT
Statistics
Matches: 275, Mismatches: 46, Indels: 72
0.70 0.12 0.18
Matches are distributed among these distances:
2 34 0.12
3 209 0.76
4 22 0.08
5 9 0.03
6 1 0.00
ACGTcount: A:0.29, C:0.07, G:0.04, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:117731261 original size:23 final size:23
Alignment explanation
Indices: 117731212--117731291 Score: 65
Period size: 23 Copynumber: 3.4 Consensus size: 23
117731202 ATTTCCTTTT
* * *
117731212 TATTACTATTATTATTAACT-TAC
1 TATTATTATTTTTATTAA-TATAG
117731235 TATTATTATTTTTATTAATATAG
1 TATTATTATTTTTATTAATATAG
* * *
117731258 TATTATT-TTCTTTTTTTATATTG
1 TATTATTATT-TTTATTAATATAG
117731281 TTATTATTATT
1 -TATTATTATT
117731292 AGCACATATA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
22 3 0.06
23 35 0.74
24 7 0.15
25 2 0.04
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.64
Consensus pattern (23 bp):
TATTATTATTTTTATTAATATAG
Found at i:117731500 original size:18 final size:17
Alignment explanation
Indices: 117731473--117731527 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 17
117731463 ATCATTATAT
*
117731473 TTACTTTTTTTAATATTA
1 TTACTATTTTT-ATATTA
*
117731491 TTACTATTTTTTTTATTA
1 TTACTA-TTTTTATATTA
117731509 TTACTATTATTTATATTA
1 TTACTATT-TTTATATTA
117731527 T
1 T
117731528 CCGTCCTATT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
17 2 0.06
18 25 0.78
19 5 0.16
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.67
Consensus pattern (17 bp):
TTACTATTTTTATATTA
Found at i:117731501 original size:21 final size:21
Alignment explanation
Indices: 117731477--117731520 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
117731467 TTATATTTAC
*
117731477 TTTTTTTAATATTATTACTAT
1 TTTTTTTAATATTACTACTAT
* *
117731498 TTTTTTTATTATTACTATTAT
1 TTTTTTTAATATTACTACTAT
117731519 TT
1 TT
117731521 ATATTATCCG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTTTTTAATATTACTACTAT
Found at i:117733022 original size:22 final size:23
Alignment explanation
Indices: 117732995--117733040 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
117732985 AGCTATCTAC
117732995 AAATCAAAT-ATCTAAGATTACA
1 AAATCAAATCATCTAAGATTACA
* * *
117733017 AAATCATATCTTCTAAGGTTACA
1 AAATCAAATCATCTAAGATTACA
117733040 A
1 A
117733041 GTAATATTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.48, C:0.15, G:0.07, T:0.30
Consensus pattern (23 bp):
AAATCAAATCATCTAAGATTACA
Found at i:117733555 original size:8 final size:8
Alignment explanation
Indices: 117733537--117733565 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
117733527 TATAAGTAAG
117733537 TATTA-TA
1 TATTATTA
117733544 TATTATTA
1 TATTATTA
117733552 TATTATTA
1 TATTATTA
117733560 TATTAT
1 TATTAT
117733566 ATTAGTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 5 0.24
8 16 0.76
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATTATTA
Found at i:117733565 original size:13 final size:15
Alignment explanation
Indices: 117733537--117733569 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
117733527 TATAAGTAAG
117733537 TATTATATATTATTA
1 TATTATATATTATTA
117733552 TATTAT-TA-TATTA
1 TATTATATATTATTA
117733565 TATTA
1 TATTA
117733570 GTAAAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.56
14 2 0.11
15 6 0.33
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
TATTATATATTATTA
Found at i:117733665 original size:13 final size:14
Alignment explanation
Indices: 117733642--117733680 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
117733632 GACGAAACAG
*
117733642 AGAAGGAAAAAG-A
1 AGAAAGAAAAAGAA
*
117733655 GGAAAGAAAAAGAA
1 AGAAAGAAAAAGAA
117733669 AGAAAGAAAAAG
1 AGAAAGAAAAAG
117733681 GAAAATTTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (14 bp):
AGAAAGAAAAAGAA
Found at i:117737264 original size:24 final size:24
Alignment explanation
Indices: 117737228--117737279 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
117737218 CACAAGCGTA
*
117737228 GCTCTACATGAGCGTCCTGATATAG
1 GCTCTACATGAGCGTCCTGACAT-G
*
117737253 GCTCTA-ATGAGCTTCCTGACATG
1 GCTCTACATGAGCGTCCTGACATG
117737276 GCTC
1 GCTC
117737280 GCTTGAACTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 5 0.20
24 14 0.56
25 6 0.24
ACGTcount: A:0.21, C:0.27, G:0.23, T:0.29
Consensus pattern (24 bp):
GCTCTACATGAGCGTCCTGACATG
Found at i:117737647 original size:16 final size:15
Alignment explanation
Indices: 117737626--117737671 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
117737616 TCTGCCTGAA
117737626 ATACATGAAAATGATG
1 ATACATGAAAAT-ATG
*
117737642 ATACATGATAAT-TG
1 ATACATGAAAATATG
*
117737656 ATATATGAAAATATG
1 ATACATGAAAATATG
117737671 A
1 A
117737672 GATGATGATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
14 12 0.46
15 3 0.12
16 11 0.42
ACGTcount: A:0.50, C:0.04, G:0.15, T:0.30
Consensus pattern (15 bp):
ATACATGAAAATATG
Found at i:117748252 original size:594 final size:597
Alignment explanation
Indices: 117747466--117748663 Score: 2143
Period size: 594 Copynumber: 2.0 Consensus size: 597
117747456 TTGTTTTTCT
117747466 TTTCTAATGCCTCATTGATGTGACTTGAAACCAAATTCAAGGTCTCCCCCTTTCCCCCTTTTCTC
1 TTTCTAATGCCTCATTGATGTGACTTGAAACCAAATTCAAGG---CCCCCTTTCCCCCTTTTCTC
* **
117747531 TTCCTCTGAACATTAAAAAAATCAATGTATAAAATTTATAGTACATAAAAACTGATGTTAATGCG
63 TTCCTCTGAACATTAAAAAAAACAACATATAAAATTTATAGTACATAAAAACTGATGTTAATGCG
117747596 ACCTACCAAATTTATATGGTTAAGACCTCAAAGGAATTGTGTATTATGGATATGGTGAAACACAA
128 ACCTACCAAATTTATATGGTTAAGACCTCAAAGGAATTGTGTATTATGGATATGGTGAAACACAA
* *
117747661 TATAGCATAGCAGGACAGAATCACCTAGGACTCATTTTTTCTCTACATACAAGCTACCTCTTTCC
193 TATAGCATAACAGGACAGAATCACCTAGGAATCATTTTTTCTCTACATACAAGCTACCTCTTTCC
*
117747726 TACCTTTAAAATTTTCCATTTAGCAC-TGTAAAACATTTACTGAAAGAAAGTCTAGATGCTACTG
258 CACCTTTAAAATTTTCCATTTAGC-CTTGTAAAACATTTACTGAAAGAAAGTCTAGATGCTACTG
* *
117747790 GAAAGGTGATGTTTGAAGGGGAAAAGAGCTTATTCTTGAAAACTTGAGAATGCTATTTAAGCTAT
322 GAAAGATGATATTTGAAGGGGAAAAGAGCTTATTCTTGAAAACTTGAGAATGCTATTTAAGCTAT
*
117747855 ACAATCTAGGGGGTTTAGCAATTCATTCTATGAATTTTCTGTTCGTATTGATGTATTTGAGAGCA
387 ACAATCAAGGGGGTTTAGCAATTCATTCTATGAATTTTCTGTTCGTATTGATGTATTTGAGAGCA
*
117747920 TAAAATCCCATGCCCATGCATGGATGTATTTCATCACATTGGAGGTGGGTGGCTCACTTAACTCA
452 TAAAATCCCATGCCCATGCATGGATGTACTTCATCACATTGGAGGTGGGTGGCTCACTTAACTCA
117747985 CTATTTTCAGACTCAGAGTCATGTAGTTATAGATGCTGATTACTACTAACTTCTAGGGTCAATCT
517 CTATTTTCAGACTCAGAGTCATGTAGTTATAGATGCTGATTACTACTAACTTCTAGGGTCAATCT
*
117748050 TAGTTGTTTAAATTTG
582 TAGTTGTTTAAATTGG
117748066 TTTCTAATGCCTCATTGATGTGACTTGAAACCAAATTC-A-G-CCCCTTTCCCCCTTTTCTCTTC
1 TTTCTAATGCCTCATTGATGTGACTTGAAACCAAATTCAAGGCCCCCTTTCCCCCTTTTCTCTTC
*
117748128 CTCTGAACATTAAAAAAAACAACATATAAAATTTATAGTACATAAAAACTGATGTTGATGCGACC
66 CTCTGAACATTAAAAAAAACAACATATAAAATTTATAGTACATAAAAACTGATGTTAATGCGACC
*
117748193 TACCAAATTTATATGGTTAAGACCTCAAAGTAATTGTGTATTATGGATATGGTGAAACACAATAT
131 TACCAAATTTATATGGTTAAGACCTCAAAGGAATTGTGTATTATGGATATGGTGAAACACAATAT
* *
117748258 AGCATAACGGGACAGAATCACCTAGGAATCCTTTTTTCTCTACATACAAGCTACCTCTTTCCCAC
196 AGCATAACAGGACAGAATCACCTAGGAATCATTTTTTCTCTACATACAAGCTACCTCTTTCCCAC
*
117748323 CTTTAATATTTTCCATTTAGCCTTGTAAAACATTTACTGAAAGAAAGTCTAGATGCTACTGGAAA
261 CTTTAAAATTTTCCATTTAGCCTTGTAAAACATTTACTGAAAGAAAGTCTAGATGCTACTGGAAA
117748388 GATGATATTTGAAGGGGAAAAGAGCTTATTCTTGAAAACTTGAGAATGCTATTTAAGCTATACAA
326 GATGATATTTGAAGGGGAAAAGAGCTTATTCTTGAAAACTTGAGAATGCTATTTAAGCTATACAA
*
117748453 TCAAGGGGGTTTAGCAATTCGTTCTATGAATTTTCTGTTCGTATTGATGTATTTGAGAGCATAAA
391 TCAAGGGGGTTTAGCAATTCATTCTATGAATTTTCTGTTCGTATTGATGTATTTGAGAGCATAAA
* *
117748518 ATCCCATGTCCATGCATGGATGTACTTCATCACATTGGAGGTGGGTGGCTCACTTAACTCGCTAT
456 ATCCCATGCCCATGCATGGATGTACTTCATCACATTGGAGGTGGGTGGCTCACTTAACTCACTAT
* *
117748583 TTTCAGACTCAGAGTCGTGTAGTTATAGGTGCTGATTACTACTAACTTCTAGGGTCAATCTTAGT
521 TTTCAGACTCAGAGTCATGTAGTTATAGATGCTGATTACTACTAACTTCTAGGGTCAATCTTAGT
117748648 TGTTTAAATTGG
586 TGTTTAAATTGG
117748660 TTTC
1 TTTC
117748664 ATTAACCTTT
Statistics
Matches: 576, Mismatches: 21, Indels: 8
0.95 0.03 0.01
Matches are distributed among these distances:
593 1 0.00
594 535 0.93
598 1 0.00
599 1 0.00
600 38 0.07
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (597 bp):
TTTCTAATGCCTCATTGATGTGACTTGAAACCAAATTCAAGGCCCCCTTTCCCCCTTTTCTCTTC
CTCTGAACATTAAAAAAAACAACATATAAAATTTATAGTACATAAAAACTGATGTTAATGCGACC
TACCAAATTTATATGGTTAAGACCTCAAAGGAATTGTGTATTATGGATATGGTGAAACACAATAT
AGCATAACAGGACAGAATCACCTAGGAATCATTTTTTCTCTACATACAAGCTACCTCTTTCCCAC
CTTTAAAATTTTCCATTTAGCCTTGTAAAACATTTACTGAAAGAAAGTCTAGATGCTACTGGAAA
GATGATATTTGAAGGGGAAAAGAGCTTATTCTTGAAAACTTGAGAATGCTATTTAAGCTATACAA
TCAAGGGGGTTTAGCAATTCATTCTATGAATTTTCTGTTCGTATTGATGTATTTGAGAGCATAAA
ATCCCATGCCCATGCATGGATGTACTTCATCACATTGGAGGTGGGTGGCTCACTTAACTCACTAT
TTTCAGACTCAGAGTCATGTAGTTATAGATGCTGATTACTACTAACTTCTAGGGTCAATCTTAGT
TGTTTAAATTGG
Found at i:117753376 original size:14 final size:14
Alignment explanation
Indices: 117753356--117753393 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
117753346 CTCTACCAGT
117753356 ATTTTTTTAATTT-
1 ATTTTTTTAATTTA
*
117753369 ATTTTTTTGTATTTA
1 ATTTTTTT-AATTTA
117753384 ATTTTTTTAA
1 ATTTTTTTAA
117753394 AAATAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
13 8 0.38
14 5 0.24
15 8 0.38
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (14 bp):
ATTTTTTTAATTTA
Found at i:117754118 original size:15 final size:15
Alignment explanation
Indices: 117754088--117754117 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
117754078 ATGTTTGAAA
117754088 TGTAAAATTATATTT
1 TGTAAAATTATATTT
117754103 TGTAAAA-TATATTT
1 TGTAAAATTATATTT
117754117 T
1 T
117754118 TTGAATAACG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (15 bp):
TGTAAAATTATATTT
Found at i:117759452 original size:13 final size:13
Alignment explanation
Indices: 117759434--117759463 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
117759424 TTATTCATCT
117759434 TTTTAACATATTA
1 TTTTAACATATTA
*
117759447 TTTTAACATGTTA
1 TTTTAACATATTA
117759460 TTTT
1 TTTT
117759464 GTTCCATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.60
Consensus pattern (13 bp):
TTTTAACATATTA
Found at i:117761741 original size:26 final size:24
Alignment explanation
Indices: 117761699--117761746 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
117761689 TTGTTTTAAA
*
117761699 ATTTGTTTTTATGTTTTTAAATAT
1 ATTTGTTTTTATATTTTTAAATAT
117761723 ATTTGATTTATTATATTTTTAAAT
1 ATTTG-TTT-TTATATTTTTAAAT
117761747 TTTTTTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.24
25 3 0.14
26 13 0.62
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (24 bp):
ATTTGTTTTTATATTTTTAAATAT
Found at i:117767208 original size:46 final size:46
Alignment explanation
Indices: 117767148--117767467 Score: 498
Period size: 46 Copynumber: 7.0 Consensus size: 46
117767138 TTTGACATGA
* * * * * *
117767148 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** *
117767194 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
117767240 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* **
117767286 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATTAGAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
117767332 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
117767378 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
117767424 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
117767468 AGAGCACACT
Statistics
Matches: 255, Mismatches: 18, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
45 4 0.02
46 251 0.98
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:117776037 original size:45 final size:43
Alignment explanation
Indices: 117775936--117776055 Score: 107
Period size: 45 Copynumber: 2.7 Consensus size: 43
117775926 AGCCACCAGC
* * *
117775936 CTTATCTCCCTGAAGTTGTAGTGGAGAAGATTCAAGATATAATT
1 CTTATCTCCCT-AAGTTGTAGTGGAGAAGATGCAAGATACAAAT
* * * *
117775980 CTTATCCCCCCTAAAGTTGTAGTGGAGTATACTGGAA-ATTACAAAT
1 CTTAT-CTCCCT-AAGTTGTAGTGGAGAAGA-TGCAAGA-TACAAAT
* *
117776026 CTTATCTCCCTAAGTAGTAGTGGAGCAGAT
1 CTTATCTCCCTAAGTTGTAGTGGAGAAGAT
117776056 CGAATACGGT
Statistics
Matches: 61, Mismatches: 12, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
43 1 0.02
44 20 0.33
45 27 0.44
46 13 0.21
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (43 bp):
CTTATCTCCCTAAGTTGTAGTGGAGAAGATGCAAGATACAAAT
Found at i:117776137 original size:89 final size:87
Alignment explanation
Indices: 117775848--117776143 Score: 247
Period size: 89 Copynumber: 3.3 Consensus size: 87
117775838 ATTCAAAGAT
* * * *
117775848 CTTATCTCCCTAAGCAGTAGTGGAGCAGATAGAAGATGGCAAATCTTATCTCCATGTATCGGCAA
1 CTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAATA-GGTAAATCTTATCTCCATGTATCGGCAA
*
117775913 TGGAGCAGATTTAAGCCACCAGC
65 TGGAGCAGATTTAAGCCACAAGC
* * * * * * ** *
117775936 CTTATCTCCCTGAAGTTGTAGTGGAGAAGATTCAAGATA--TAATTCTTATCCCCCCTAAAGT-T
1 CTTATCTCCCT-AAGTAGTAGTGGAGCAGA-TCGA-ATAGGTAAATCTTAT-CTCCATGTA-TCG
* * * * ** *** **
117775998 GTAGTGGAGTATACTGGAAATTACAAAT
61 GCAATGGAGCAGA-TTTAAGCCACAAGC
117776026 CTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAATACGGTAAATCTTATCTCCATGTATCGGCAA
1 CTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAATA-GGTAAATCTTATCTCCATGTATCGGCAA
*
117776091 TGGAGCAGATTTAAGCCACTAGC
65 TGGAGCAGATTTAAGCCACAAGC
*
117776114 CTTATCTCCCTGAAGTTGTAGTGGAGCAGA
1 CTTATCTCCCT-AAGTAGTAGTGGAGCAGA
117776144 CTGAAAGTTG
Statistics
Matches: 150, Mismatches: 47, Indels: 21
0.69 0.22 0.10
Matches are distributed among these distances:
87 3 0.02
88 40 0.27
89 76 0.51
90 29 0.19
91 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (87 bp):
CTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAATAGGTAAATCTTATCTCCATGTATCGGCAAT
GGAGCAGATTTAAGCCACAAGC
Found at i:117776168 original size:133 final size:133
Alignment explanation
Indices: 117775988--117776297 Score: 428
Period size: 133 Copynumber: 2.3 Consensus size: 133
117775978 TTCTTATCCC
* * * * *
117775988 CCCTAAAGTTGTAGTGGAGTATACTGGAAATTACAAATCTTATCTCCCTAAGTAGTAGTGGAGCA
1 CCCTGAAGTTGTAGTGGAGCAGACTGGAAATTACAAATCTTATCTCCCTAAGCAGTAGTGGAACA
* * *
117776053 GATCGAATACGGTAAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCACTAGCCTTA
66 GATCGAAGACGGTAAATCTTATCTCCATGTATCGACAATGGAGCAAATTTAAGCCACTAGCCTTA
117776118 TCT
131 TCT
* *
117776121 CCCTGAAGTTGTAGTGGAGCAGACT-GAAAGTTGCAGATCTTATCTCCCTAAGCAGTAGTGGAAC
1 CCCTGAAGTTGTAGTGGAGCAGACTGGAAA-TTACAAATCTTATCTCCCTAAGCAGTAGTGGAAC
* *
117776185 AGATTGAAGACGGTGAATCTTATCTCCATGTATCGACAATGGAGCAAATTTAAGCCACTAGCCTT
65 AGATCGAAGACGGTAAATCTTATCTCCATGTATCGACAATGGAGCAAATTTAAGCCACTAGCCTT
*
117776250 GTCT
130 ATCT
* * * * *
117776254 CCCTGAAATTGCAGTGGAGCAGGCT-CAAA-TACAAGTCTTATCTC
1 CCCTGAAGTTGTAGTGGAGCAGACTGGAAATTACAAATCTTATCTC
117776298 TCTGAAGTTA
Statistics
Matches: 156, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
131 12 0.08
132 4 0.03
133 140 0.90
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.28
Consensus pattern (133 bp):
CCCTGAAGTTGTAGTGGAGCAGACTGGAAATTACAAATCTTATCTCCCTAAGCAGTAGTGGAACA
GATCGAAGACGGTAAATCTTATCTCCATGTATCGACAATGGAGCAAATTTAAGCCACTAGCCTTA
TCT
Found at i:117776205 original size:44 final size:45
Alignment explanation
Indices: 117776023--117776211 Score: 136
Period size: 44 Copynumber: 4.3 Consensus size: 45
117776013 GGAAATTACA
* * * *
117776023 AATCTTATCTCCCT-AAGTAGTAGTGGAGCAGATCGAATACGGTA
1 AATCTTATCTCCCTGAAGCAGTAGTGGAGCAGATTGAAGACGGTG
* * * * * * * * **
117776067 AATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCACT-
1 AATCTTATCTCCCTGAAGCAGTAGTGGAGCAGATTGAAGACGGTG
** ** * *
117776111 AGCCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAA-A-GTTG
1 AATCTTATCTCCCTGAAGCAGTAGTGGAGCAGATTGAAGACGGTG
*
117776154 CAGATCTTATCTCCCT-AAGCAGTAGTGGAACAGATTGAAGACGGTG
1 -A-ATCTTATCTCCCTGAAGCAGTAGTGGAGCAGATTGAAGACGGTG
117776200 AATCTTATCTCC
1 AATCTTATCTCC
117776212 ATGTATCGAC
Statistics
Matches: 105, Mismatches: 34, Indels: 12
0.70 0.23 0.08
Matches are distributed among these distances:
42 1 0.01
44 71 0.68
45 30 0.29
46 3 0.03
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (45 bp):
AATCTTATCTCCCTGAAGCAGTAGTGGAGCAGATTGAAGACGGTG
Found at i:117776228 original size:89 final size:88
Alignment explanation
Indices: 117776135--117776410 Score: 224
Period size: 89 Copynumber: 3.1 Consensus size: 88
117776125 GAAGTTGTAG
*
117776135 TGGAGCAGACTGAAAGTTGCAGATCTTATCTCCCTAAGCAGTAGTGGAACAGATTGAAGACGGTG
1 TGGAGCAGACTGAAAGTTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA-GGTG
117776200 AATCTTATCTCCATGTATCGACAA
65 AATCTTATCTCCATGTATCGACAA
* ** *** * * *** * ** *
117776224 TGGAGCA-AATTTAAGCCACTAG-CCTTGTCTCCCTGAAATTGCAGTGGAGCAGGCTCAA-A--T
1 TGGAGCAGACTGAAAGTTGC-AGATCTTATCTCCCT-AAGCAGTAGTGGAGCAGATTGAAGAGGT
* * *
117776284 ACAAGTCTTATCTCTC-TGAAGT-TACAA
64 -GAA-TCTTATCTC-CATGTA-TCGACAA
* * *
117776311 TGGAGCAGACTGAAAGTTGCAGATCTTATCTCCTTAAGCAATAGTGGAGCAGATCGAAGATGGTG
1 TGGAGCAGACTGAAAGTTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA-GGTG
*
117776376 AATCTTATCTCCATGTATCGATAA
65 AATCTTATCTCCATGTATCGACAA
117776400 TGGAGCAGACT
1 TGGAGCAGACT
117776411 TAAGCCACAG
Statistics
Matches: 132, Mismatches: 41, Indels: 28
0.66 0.20 0.14
Matches are distributed among these distances:
85 1 0.01
86 2 0.02
87 39 0.30
88 37 0.28
89 50 0.38
90 2 0.02
91 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.27
Consensus pattern (88 bp):
TGGAGCAGACTGAAAGTTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGAGGTGA
ATCTTATCTCCATGTATCGACAA
Found at i:117776230 original size:178 final size:178
Alignment explanation
Indices: 117775868--117776408 Score: 479
Period size: 176 Copynumber: 3.1 Consensus size: 178
117775858 TAAGCAGTAG
* * *
117775868 TGGAGCAGATAGAAGATGGCAAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCACC
1 TGGAGCAGATAGAAGACGGTAAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCACA
* ** * ** *
117775933 AGCCTTATCTCCCTGAAGTTGTAGTGGAGAAGA-TTCAAGATATA-ATTCTTATCCCCCCTAAAG
66 AGCCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAAGTTGCAGA-TCTTAT-CTCCCT-AAG
** * * * **** * *
117775996 TTGTAGTGGAGTATACTGGAA-ATTACAAATCTTATCTCCCTAAGTA--G-TAG
128 CAGTAGTGGAGCAGA-TCGAAGATGGTGAATCTTATCT-CC-ATGTATCGATAA
* * *
117776046 TGGAGCAGATCGAATACGGTAAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCACT
1 TGGAGCAGATAGAAGACGGTAAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCACA
117776111 AGCCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAAGTTGCAGATCTTATCTCCCTAAGCAG
66 AGCCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAAGTTGCAGATCTTATCTCCCTAAGCAG
* * * *
117776176 TAGTGGAACAGATTGAAGACGGTGAATCTTATCTCCATGTATCGACAA
131 TAGTGGAGCAGATCGAAGATGGTGAATCTTATCTCCATGTATCGATAA
* ** * ** ** * * * * * ** * **
117776224 TGGAGCAAATTTAAGCCACT-AGCCTTGTCTCCCTGAAAT-TGCAGTGGAGCAGGCTCAA-ATAC
1 TGGAGCAGATAGAAGACGGTAAATCTTATCTCCATG-TATCGGCAATGGAGCAGATTTAAGCCAC
* * ** * *
117776286 AAGTCTTATCTCTCTGAAGTTACAATGGAGCAGACTGAAAGTTGCAGATCTTATCTCCTTAAGCA
65 AAGCCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAAGTTGCAGATCTTATCTCCCTAAGCA
*
117776351 ATAGTGGAGCAGATCGAAGATGGTGAATCTTATCTCCATGTATCGATAA
130 GTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTCCATGTATCGATAA
117776400 TGGAGCAGA
1 TGGAGCAGA
117776409 CTTAAGCCAC
Statistics
Matches: 298, Mismatches: 58, Indels: 16
0.80 0.16 0.04
Matches are distributed among these distances:
175 4 0.01
176 118 0.40
177 50 0.17
178 113 0.38
179 12 0.04
180 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.28
Consensus pattern (178 bp):
TGGAGCAGATAGAAGACGGTAAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCACA
AGCCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAAGTTGCAGATCTTATCTCCCTAAGCAG
TAGTGGAGCAGATCGAAGATGGTGAATCTTATCTCCATGTATCGATAA
Found at i:117776322 original size:176 final size:175
Alignment explanation
Indices: 117776114--117776450 Score: 505
Period size: 176 Copynumber: 1.9 Consensus size: 175
117776104 AGCCACTAGC
** * *
117776114 CTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAAGTTGCAGATCTTATCTCCCTAAGCAGTAG
1 CTTATCTCCCTGAAGTTACAATGGAGCAGACTGAAAGTTGCAGATCTTATCTCCCTAAGCAATAG
* *
117776179 TGGAACAGATTGAAGACGGTGAATCTTATCTCCATGTATCGACAATGGAGCAAATTTAAGCCACT
66 TGGAACAGATCGAAGACGGTGAATCTTATCTCCATGTATCGACAATGGAGCAAACTTAAGCCAC-
* *
117776244 A-GCCTTGTCTCCCTGAAATTGCAGTGGAGCAGGCTCAAATACAAGT
130 AGGCCTTATCT-CCTGAAATTGCAGTAGAGCAGGCTCAAATACAAGT
* *
117776290 CTTATCTCTCTGAAGTTACAATGGAGCAGACTGAAAGTTGCAGATCTTATCTCCTTAAGCAATAG
1 CTTATCTCCCTGAAGTTACAATGGAGCAGACTGAAAGTTGCAGATCTTATCTCCCTAAGCAATAG
* * * *
117776355 TGGAGCAGATCGAAGATGGTGAATCTTATCTCCATGTATCGATAATGGAGCAGACTTAAGCCACA
66 TGGAACAGATCGAAGACGGTGAATCTTATCTCCATGTATCGACAATGGAGCAAACTTAAGCCACA
* *
117776420 GGTCTTATCTCCTGAAGTTGCAGTAGAGCAG
131 GGCCTTATCTCCTGAAATTGCAGTAGAGCAG
117776451 ACTGAAAATA
Statistics
Matches: 144, Mismatches: 16, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
175 20 0.14
176 124 0.86
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (175 bp):
CTTATCTCCCTGAAGTTACAATGGAGCAGACTGAAAGTTGCAGATCTTATCTCCCTAAGCAATAG
TGGAACAGATCGAAGACGGTGAATCTTATCTCCATGTATCGACAATGGAGCAAACTTAAGCCACA
GGCCTTATCTCCTGAAATTGCAGTAGAGCAGGCTCAAATACAAGT
Found at i:117784486 original size:10 final size:10
Alignment explanation
Indices: 117784455--117784489 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
117784445 GTTTGAATAA
*
117784455 AAAATATTAT
1 AAAACATTAT
117784465 AAAACATT-T
1 AAAACATTAT
117784474 AAAACATTAT
1 AAAACATTAT
117784484 AAAACA
1 AAAACA
117784490 AATAATAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 9 0.39
10 14 0.61
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.29
Consensus pattern (10 bp):
AAAACATTAT
Found at i:117785956 original size:3 final size:3
Alignment explanation
Indices: 117785950--117785974 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
117785940 TACCACCACT
117785950 ATC ATC ATC ATC ATC ATC ATC ATC A
1 ATC ATC ATC ATC ATC ATC ATC ATC A
117785975 CTCTCTTTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.32, G:0.00, T:0.32
Consensus pattern (3 bp):
ATC
Found at i:117791898 original size:3 final size:3
Alignment explanation
Indices: 117791890--117791928 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
117791880 GTTAAAACAA
117791890 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
117791929 CTTAAAGAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:117792539 original size:16 final size:18
Alignment explanation
Indices: 117792511--117792547 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
117792501 GAAAAGTTGT
117792511 TTTAAGAAATTTA-TATA
1 TTTAAGAAATTTATTATA
117792528 TTTAAG-AATTTATTATA
1 TTTAAGAAATTTATTATA
117792545 TTT
1 TTT
117792548 TCATTATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (18 bp):
TTTAAGAAATTTATTATA
Found at i:117793878 original size:32 final size:32
Alignment explanation
Indices: 117793837--117793897 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
117793827 TGTCAATTAT
117793837 TTCAATATCTAACAAGCTTAAAACATAATAAA
1 TTCAATATCTAACAAGCTTAAAACATAATAAA
*
117793869 TTCAATATCTAACAAGCTTGAAACATAAT
1 TTCAATATCTAACAAGCTTAAAACATAAT
117793898 CAATATGTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.49, C:0.16, G:0.05, T:0.30
Consensus pattern (32 bp):
TTCAATATCTAACAAGCTTAAAACATAATAAA
Found at i:117793908 original size:27 final size:30
Alignment explanation
Indices: 117793837--117793910 Score: 91
Period size: 32 Copynumber: 2.5 Consensus size: 30
117793827 TGTCAATTAT
117793837 TTCAATATCTAACAAGCTTAAAACATAATAAA
1 TTCAATATCTAACAAGCTTAAAAC--AATAAA
*
117793869 TTCAATATCTAACAAGCTTGAAAC-AT-AA
1 TTCAATATCTAACAAGCTTAAAACAATAAA
*
117793897 -TCAATATGTAACAA
1 TTCAATATCTAACAA
117793911 ATTCAAGACA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
27 13 0.32
28 2 0.05
29 2 0.05
32 23 0.57
ACGTcount: A:0.50, C:0.16, G:0.05, T:0.28
Consensus pattern (30 bp):
TTCAATATCTAACAAGCTTAAAACAATAAA
Found at i:117800266 original size:15 final size:15
Alignment explanation
Indices: 117800246--117800285 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
117800236 TTCTCAAGCA
*
117800246 ATGACTAAAGTTACT
1 ATGACTAAAGTTACC
117800261 ATGACTAAAGTTACC
1 ATGACTAAAGTTACC
*
117800276 ATGATTAAAG
1 ATGACTAAAG
117800286 GGAATGAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (15 bp):
ATGACTAAAGTTACC
Found at i:117808756 original size:55 final size:54
Alignment explanation
Indices: 117808688--117808803 Score: 196
Period size: 55 Copynumber: 2.1 Consensus size: 54
117808678 AAGGAAAAAG
* *
117808688 GGAAGAAATTTGAAGAACGGAAGAAGAAGAAGACTTACCTGGATGAAGAAGGAGAT
1 GGAA-AAAGTTGAAGAACGGAAGAAAAAGAAGACTTACCTGGATGAAG-AGGAGAT
117808744 GGAAAAAGTTGAAGAACGGAAGAAAAAGAAGACTTACCTGGATGAAGAGGAGAT
1 GGAAAAAGTTGAAGAACGGAAGAAAAAGAAGACTTACCTGGATGAAGAGGAGAT
117808798 GGAAAA
1 GGAAAA
117808804 TGCCTTACAG
Statistics
Matches: 58, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
54 13 0.22
55 41 0.71
56 4 0.07
ACGTcount: A:0.48, C:0.07, G:0.32, T:0.13
Consensus pattern (54 bp):
GGAAAAAGTTGAAGAACGGAAGAAAAAGAAGACTTACCTGGATGAAGAGGAGAT
Found at i:117809316 original size:22 final size:22
Alignment explanation
Indices: 117809291--117809333 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
117809281 TAATCATATA
117809291 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
117809313 ATAATTTATTATTTTAATAAA
1 ATAAATTATTAATATAATAAA
117809334 ATTATTCAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:117809372 original size:14 final size:15
Alignment explanation
Indices: 117809355--117809395 Score: 59
Period size: 14 Copynumber: 2.8 Consensus size: 15
117809345 TTTTAATTTT
117809355 ATTTTAATAATAA-A
1 ATTTTAATAATAATA
117809369 ATTTTAA-AATAATA
1 ATTTTAATAATAATA
117809383 ATTTTAAATAATA
1 ATTTT-AATAATA
117809396 TTGATCACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 5 0.21
14 13 0.54
15 2 0.08
16 4 0.17
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATTTTAATAATAATA
Found at i:117809391 original size:13 final size:14
Alignment explanation
Indices: 117809355--117809395 Score: 59
Period size: 13 Copynumber: 3.0 Consensus size: 14
117809345 TTTTAATTTT
117809355 ATTTTAATAATAA-A
1 ATTTTAA-AATAATA
117809369 ATTTTAAAATAATA
1 ATTTTAAAATAATA
117809383 ATTTT-AAATAATA
1 ATTTTAAAATAATA
117809396 TTGATCACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
13 13 0.50
14 13 0.50
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
ATTTTAAAATAATA
Found at i:117809427 original size:7 final size:7
Alignment explanation
Indices: 117809415--117809441 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
117809405 TATTATTAAA
117809415 AATATTC
1 AATATTC
117809422 AATATTC
1 AATATTC
117809429 AATATTC
1 AATATTC
117809436 AATATT
1 AATATT
117809442 TTAATAATAA
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:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (7 bp):
AATATTC
Found at i:117809454 original size:15 final size:15
Alignment explanation
Indices: 117809436--117809479 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
117809426 TTCAATATTC
117809436 AATATTTTAATAATA
1 AATATTTTAATAATA
117809451 AATA-TTT-AT--TA
1 AATATTTTAATAATA
*
117809462 AATATATTAATAATA
1 AATATTTTAATAATA
117809477 AAT
1 AAT
117809480 GTTCTGCAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 8
0.73 0.03 0.24
Matches are distributed among these distances:
11 6 0.25
12 2 0.08
13 4 0.17
14 3 0.12
15 9 0.38
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:117809952 original size:14 final size:14
Alignment explanation
Indices: 117809933--117809973 Score: 66
Period size: 14 Copynumber: 2.9 Consensus size: 14
117809923 TTCTAGAAAA
117809933 GTAAATCATTTTCC
1 GTAAATCATTTTCC
117809947 GTAAATCATTTTCC
1 GTAAATCATTTTCC
117809961 G-AAAGTCATTTTC
1 GTAAA-TCATTTTC
117809974 AATGAAACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 3 0.12
14 23 0.88
ACGTcount: A:0.29, C:0.20, G:0.10, T:0.41
Consensus pattern (14 bp):
GTAAATCATTTTCC
Found at i:117811192 original size:14 final size:15
Alignment explanation
Indices: 117811143--117811196 Score: 60
Period size: 14 Copynumber: 3.6 Consensus size: 15
117811133 ATACATCAAC
117811143 AAAAAT-AT-TTTAA
1 AAAAATAATATTTAA
117811156 AAAAAGTAATCTATTTAA
1 AAAAA-TAA--TATTTAA
117811174 AAAAATAATATTT-A
1 AAAAATAATATTTAA
117811188 AAAAATAAT
1 AAAAATAAT
117811197 TTATTGCAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
13 5 0.14
14 11 0.31
15 6 0.17
17 4 0.11
18 10 0.28
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (15 bp):
AAAAATAATATTTAA
Found at i:117813871 original size:76 final size:78
Alignment explanation
Indices: 117813735--117813943 Score: 205
Period size: 76 Copynumber: 2.7 Consensus size: 78
117813725 AAACCCAAAC
* * * *
117813735 ATAACACCAGCACGAAGCCTACGAGACTTTAAACTCAGATATAATACCAGCACTAGGCCTGAGGG
1 ATAATACCAGCACGAAGCCTACGAGACTTTAAACCCAGATATAATACCAGCACAAAGCCTGAGGG
117813800 ATTTAACC-CGGAT
66 ATTTAACCAC-GAT
* * * *
117813813 ATAATACCAGCACGAAGCCTGC-AGGA-TTT-AACCCGGATATATTACCAGCACAAAGCCTGCGG
1 ATAATACCAGCACGAAGCCTACGA-GACTTTAAACCCAGATATAATACCAGCACAAAGCCTGAGG
117813875 GATTTAACCACGAT
65 GATTTAACCACGAT
* * * * * * *
117813889 ATAATTCCAGCA-TATAGCCTGCGGGTCTTTAAGCCCAGATACAAT-CTCAGCACAA
1 ATAATACCAGCACGA-AGCCTACGAGACTTTAAACCCAGATATAATAC-CAGCACAA
117813944 TTTATTTTAT
Statistics
Matches: 108, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
75 1 0.01
76 58 0.54
77 9 0.08
78 40 0.37
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.21
Consensus pattern (78 bp):
ATAATACCAGCACGAAGCCTACGAGACTTTAAACCCAGATATAATACCAGCACAAAGCCTGAGGG
ATTTAACCACGAT
Found at i:117813910 original size:38 final size:38
Alignment explanation
Indices: 117813735--117813913 Score: 191
Period size: 38 Copynumber: 4.7 Consensus size: 38
117813725 AAACCCAAAC
* * * * * *
117813735 ATAACACCAGCACGAAGCCTACGAGACTTTAAACTCAGAT
1 ATAATACCAGCACTAAGCCTGCGGGA-TTT-AACCCGGAT
* *
117813775 ATAATACCAGCACTAGGCCTGAGGGATTTAACCCGGAT
1 ATAATACCAGCACTAAGCCTGCGGGATTTAACCCGGAT
* *
117813813 ATAATACCAGCACGAAGCCTGCAGGATTTAACCCGGAT
1 ATAATACCAGCACTAAGCCTGCGGGATTTAACCCGGAT
* *
117813851 ATATTACCAGCACAAAGCCTGCGGGATTTAACCAC-GAT
1 ATAATACCAGCACTAAGCCTGCGGGATTTAACC-CGGAT
*
117813889 ATAATTCCAGCA-TATAGCCTGCGGG
1 ATAATACCAGCACTA-AGCCTGCGGG
117813914 TCTTTAAGCC
Statistics
Matches: 119, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
37 1 0.01
38 94 0.79
39 4 0.03
40 20 0.17
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.20
Consensus pattern (38 bp):
ATAATACCAGCACTAAGCCTGCGGGATTTAACCCGGAT
Found at i:117815430 original size:48 final size:48
Alignment explanation
Indices: 117815372--117815469 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
117815362 TCGAAAGTAT
117815372 ATATATTTATATATCACATATACTAAAACTTTATTCTATATTCATTTA
1 ATATATTTATATATCACATATACTAAAACTTTATTCTATATTCATTTA
117815420 ATATATTTATATATCACATATACTAAAACTTTATTCTATATTCATTTA
1 ATATATTTATATATCACATATACTAAAACTTTATTCTATATTCATTTA
117815468 AT
1 AT
117815470 CTTTACACAC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.48
Consensus pattern (48 bp):
ATATATTTATATATCACATATACTAAAACTTTATTCTATATTCATTTA
Found at i:117817942 original size:45 final size:45
Alignment explanation
Indices: 117817824--117818092 Score: 206
Period size: 45 Copynumber: 5.8 Consensus size: 45
117817814 TATCGAAATT
* * *
117817824 GAGGCCGACGCCATGTCCCAGACATAGTCTTACACTAGCTCTCACATATCC
1 GAGGCCGATG-CATGTCCCAGACAT-GTCTTACACT-GC-AT-ACATCT-C
* *
117817875 G-TGCCGATGTCATGTCCCAGACATGGTCTTACATTG-ATACATCTC
1 GAGGCCGATG-CATGTCCCAGACAT-GTCTTACACTGCATACATCTC
*
117817920 GTA-GCCGATGCATGTCCCAGACATGTCTTACACTGCTTACATCTC
1 G-AGGCCGATGCATGTCCCAGACATGTCTTACACTGCATACATCTC
* * * *
117817965 GAGGCCGATGCATGTCCCAGATATGTCTTACACTAGCTTTCGTCTC
1 GAGGCCGATGCATGTCCCAGACATGTCTTACACT-GCATACATCTC
* * * * *
117818011 AATGCCGACGCCATGTCCCAGACATGGTCTTACACTGGC-TCTCATAAT-
1 GAGGCCGATG-CATGTCCCAGACAT-GTCTTACACT-GCAT-ACAT-CTC
* * *
117818059 GTGGTCGATGCATGTCCTAGACATGTCTTACACT
1 GAGGCCGATGCATGTCCCAGACATGTCTTACACT
117818093 AGCACACAAA
Statistics
Matches: 184, Mismatches: 25, Indels: 23
0.79 0.11 0.10
Matches are distributed among these distances:
44 11 0.06
45 55 0.30
46 38 0.21
47 28 0.15
48 20 0.11
49 2 0.01
50 29 0.16
51 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (45 bp):
GAGGCCGATGCATGTCCCAGACATGTCTTACACTGCATACATCTC
Found at i:117818081 original size:139 final size:142
Alignment explanation
Indices: 117817778--117818092 Score: 340
Period size: 139 Copynumber: 2.2 Consensus size: 142
117817768 AGGGTATAAT
*
117817778 GTCGATGCCATGTCCTAGACATAGTCTTACGCTGACTATCGAAATTGAGGCCGACGCCATGTCCC
1 GTCGATG-CATGTCCTAGACAT-GTCTTACACTGACTATC-AAATTGAGGCCGACGCCATGTCCC
** * *
117817843 AGACATAGTCTTACACTAGCTCTCACATATCCGTGCCGATGTCATGTCCCAGACATGGTCTTACA
63 AGACATAGTCTTACACTAGCTCTCACATATCAATGCCGACGCCATGTCCCAGACATGGTCTTACA
* *
117817908 TTGATACATCTCGTA
128 TGGATACATATCGTA
* * * *
117817923 GCCGATGCATGTCCCAGACATGTCTTACACTG-CT-T-ACATCTCGAGGCCGATG-CATGTCCCA
1 GTCGATGCATGTCCTAGACATGTCTTACACTGACTATCAAAT-T-GAGGCCGACGCCATGTCCCA
* * * *
117817984 GATAT-GTCTTACACTAGCT-T-TCGTCTCAATGCCGACGCCATGTCCCAGACATGGTCTTACAC
64 GACATAGTCTTACACTAGCTCTCACATATCAATGCCGACGCCATGTCCCAGACATGGTCTTACA-
* * *
117818046 TGGCTCTCATAAT-GTG
128 TGGAT-ACAT-ATCGTA
117818062 GTCGATGCATGTCCTAGACATGTCTTACACT
1 GTCGATGCATGTCCTAGACATGTCTTACACT
117818093 AGCACACAAA
Statistics
Matches: 145, Mismatches: 20, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
137 34 0.23
138 4 0.03
139 51 0.35
140 15 0.10
141 10 0.07
142 2 0.01
143 10 0.07
144 13 0.09
145 6 0.04
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (142 bp):
GTCGATGCATGTCCTAGACATGTCTTACACTGACTATCAAATTGAGGCCGACGCCATGTCCCAGA
CATAGTCTTACACTAGCTCTCACATATCAATGCCGACGCCATGTCCCAGACATGGTCTTACATGG
ATACATATCGTA
Found at i:117818085 original size:94 final size:93
Alignment explanation
Indices: 117817827--117818096 Score: 286
Period size: 94 Copynumber: 2.9 Consensus size: 93
117817817 CGAAATTGAG
*
117817827 GCCGACGCCATGTCCCAGACATAGTCTTACACTAGCTCTCACATATCCGT-GCCGATGTCATGTC
1 GCCGACGCCATGTCCCAGACAT-GTCTTACACT-GCTCTCATA-AT-CGTGGCCGATG-CATGTC
* *
117817891 CCAGACATGGTCTTACA-TTG-ATACATCTCGTA
61 CCAGACAT-GTCTTACACTAGCATACATCTCATA
* * *
117817923 GCCGATG-CATGTCCCAGACATGTCTTACACTGCT-TACAT-CTCGAGGCCGATGCATGTCCCAG
1 GCCGACGCCATGTCCCAGACATGTCTTACACTGCTCT-CATAATCGTGGCCGATGCATGTCCCAG
* * * *
117817985 ATATGTCTTACACTAGCTTTCGTCTCA-A
65 ACATGTCTTACACTAGCATACATCTCATA
* *
117818013 TGCCGACGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGTCGATGCATGTCCT
1 -GCCGACGCCATGTCCCAGACAT-GTCTTACACT-GCTCTCATAATCGTGGCCGATGCATGTCCC
117818077 AGACATGTCTTACACTAGCA
63 AGACATGTCTTACACTAGCA
117818097 CACAAATAAC
Statistics
Matches: 147, Mismatches: 17, Indels: 22
0.79 0.09 0.12
Matches are distributed among these distances:
89 8 0.05
90 18 0.12
91 20 0.14
92 15 0.10
93 15 0.10
94 49 0.33
95 16 0.11
96 6 0.04
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (93 bp):
GCCGACGCCATGTCCCAGACATGTCTTACACTGCTCTCATAATCGTGGCCGATGCATGTCCCAGA
CATGTCTTACACTAGCATACATCTCATA
Found at i:117821712 original size:5 final size:5
Alignment explanation
Indices: 117821702--117821726 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
117821692 TTTATAAATT
117821702 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
117821727 CTCTAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:117822756 original size:15 final size:16
Alignment explanation
Indices: 117822738--117822772 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
117822728 TTAATTTCAA
*
117822738 TTTAATTTTAT-TTAT
1 TTTAATATTATATTAT
117822753 TTTAATATTATATTAT
1 TTTAATATTATATTAT
117822769 TTTA
1 TTTA
117822773 TAAAAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTAATATTATATTAT
Found at i:117823857 original size:6 final size:6
Alignment explanation
Indices: 117823846--117823882 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
117823836 GTTTCATCAA
117823846 CCAAAC CCAAAC CCAAAC CCAAAC CCAAAC CCAAAC C
1 CCAAAC CCAAAC CCAAAC CCAAAC CCAAAC CCAAAC C
117823883 TAAATCCAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.49, C:0.51, G:0.00, T:0.00
Consensus pattern (6 bp):
CCAAAC
Found at i:117829460 original size:1 final size:1
Alignment explanation
Indices: 117829454--117829478 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
117829444 TCTTTCCTTC
117829454 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
117829479 GTAATATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:117832682 original size:33 final size:33
Alignment explanation
Indices: 117832640--117832705 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
117832630 TGAGGGGGTT
117832640 ATGGACATCTATTTATCAATGGATTTACAACAC
1 ATGGACATCTATTTATCAATGGATTTACAACAC
117832673 ATGGACATCTATTTATCAATGGATTTACAACAC
1 ATGGACATCTATTTATCAATGGATTTACAACAC
117832706 TCCCCCTTGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.33
Consensus pattern (33 bp):
ATGGACATCTATTTATCAATGGATTTACAACAC
Found at i:117834111 original size:18 final size:18
Alignment explanation
Indices: 117834088--117834139 Score: 95
Period size: 18 Copynumber: 2.9 Consensus size: 18
117834078 GAAACTCTAT
117834088 ATCCTTCAAGGATTTTAA
1 ATCCTTCAAGGATTTTAA
117834106 ATCCTTCAAGGATTTTAA
1 ATCCTTCAAGGATTTTAA
*
117834124 ATCCTTCAGGGATTTT
1 ATCCTTCAAGGATTTT
117834140 CATATAAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.40
Consensus pattern (18 bp):
ATCCTTCAAGGATTTTAA
Found at i:117839334 original size:7 final size:7
Alignment explanation
Indices: 117839322--117839346 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
117839312 AACCCAAGCC
117839322 AAAATAT
1 AAAATAT
117839329 AAAATAT
1 AAAATAT
117839336 AAAATAT
1 AAAATAT
117839343 AAAA
1 AAAA
117839347 ATTATATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (7 bp):
AAAATAT
Found at i:117841254 original size:31 final size:31
Alignment explanation
Indices: 117841216--117841274 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
117841206 TAAACTGTAT
117841216 GCATTAGGGGATAGT-TCCAGTTATGCATTCA
1 GCATTAGGGGATAGTAT-CAGTTATGCATTCA
117841247 GCATTAGGGGATAGTATCAGTTATGCAT
1 GCATTAGGGGATAGTATCAGTTATGCAT
117841275 CTAGGTTTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
31 26 0.96
32 1 0.04
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.32
Consensus pattern (31 bp):
GCATTAGGGGATAGTATCAGTTATGCATTCA
Found at i:117843281 original size:29 final size:29
Alignment explanation
Indices: 117843248--117843308 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
117843238 GCCACTGGGA
117843248 TAATGTATTTGCTACATGGAAAACATGAC
1 TAATGTATTTGCTACATGGAAAACATGAC
117843277 TAATGTATTTGCTACATGGAAAACATGAC
1 TAATGTATTTGCTACATGGAAAACATGAC
117843306 TAA
1 TAA
117843309 CACTCAGCAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.31
Consensus pattern (29 bp):
TAATGTATTTGCTACATGGAAAACATGAC
Found at i:117858284 original size:21 final size:21
Alignment explanation
Indices: 117858260--117858300 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
117858250 TTTTTGGCAT
117858260 CGTTGTCGGGGACTATTTTAC
1 CGTTGTCGGGGACTATTTTAC
117858281 CGTTGTCGGGGACTATTTTA
1 CGTTGTCGGGGACTATTTTA
117858301 GTCATTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.15, C:0.17, G:0.29, T:0.39
Consensus pattern (21 bp):
CGTTGTCGGGGACTATTTTAC
Found at i:117860711 original size:17 final size:17
Alignment explanation
Indices: 117860685--117860722 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
117860675 TAACCTTATA
*
117860685 GGTTTTCATACATCATG
1 GGTTTGCATACATCATG
*
117860702 GGTTTGCATATATCATG
1 GGTTTGCATACATCATG
117860719 GGTT
1 GGTT
117860723 CCCATATAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.21, C:0.13, G:0.24, T:0.42
Consensus pattern (17 bp):
GGTTTGCATACATCATG
Found at i:117860728 original size:17 final size:17
Alignment explanation
Indices: 117860691--117860739 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
117860681 TATAGGTTTT
* **
117860691 CATACATCATGGGTTTG
1 CATATATCATGGGTTCC
117860708 CATATATCATGGGTTCC
1 CATATATCATGGGTTCC
*
117860725 CATATAACATGGGTT
1 CATATATCATGGGTT
117860740 TTGCACAACA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (17 bp):
CATATATCATGGGTTCC
Found at i:117860871 original size:23 final size:23
Alignment explanation
Indices: 117860845--117860894 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
117860835 CATATATCAA
*
117860845 AACAAGATTCACACATGTTGTAT
1 AACAAGATTCACACATGTAGTAT
* * **
117860868 AACAGGTTTTGCACATGTAGTAT
1 AACAAGATTCACACATGTAGTAT
117860891 AACA
1 AACA
117860895 GGGTTCATAC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (23 bp):
AACAAGATTCACACATGTAGTAT
Found at i:117860906 original size:23 final size:23
Alignment explanation
Indices: 117860852--117860914 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 23
117860842 CAAAACAAGA
* *
117860852 TTCACACATGTTGTATAACAGGT
1 TTCACACATGTAGTATAACAGGG
**
117860875 TTTGCACATGTAGTATAACAGGG
1 TTCACACATGTAGTATAACAGGG
* *
117860898 TTCATACATTTA-TATAA
1 TTCACACATGTAGTATAA
117860915 GTTTCACACA
Statistics
Matches: 32, Mismatches: 8, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
22 5 0.16
23 27 0.84
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (23 bp):
TTCACACATGTAGTATAACAGGG
Found at i:117864868 original size:42 final size:42
Alignment explanation
Indices: 117864821--117864917 Score: 108
Period size: 42 Copynumber: 2.3 Consensus size: 42
117864811 ATAGCCCAGT
* *
117864821 TATGGTGTTACACGAAATATCATA-TCGATGCAATATCCT-AGA
1 TATGGTCTTACACGAAATATCATACT-GATGCAAT-GCCTCAGA
* * * *
117864863 TATGGTCTTACAAGAAGTCTCATACTGATGCCATGCCTCAGA
1 TATGGTCTTACACGAAATATCATACTGATGCAATGCCTCAGA
117864905 TATGGTCTTACAC
1 TATGGTCTTACAC
117864918 ATAAACTTAG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
41 3 0.07
42 42 0.91
43 1 0.02
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.31
Consensus pattern (42 bp):
TATGGTCTTACACGAAATATCATACTGATGCAATGCCTCAGA
Found at i:117869772 original size:40 final size:40
Alignment explanation
Indices: 117869705--117869909 Score: 270
Period size: 40 Copynumber: 5.2 Consensus size: 40
117869695 TCTTCAGAGT
** * *
117869705 TTAG-CCGGATATAGCCACTAGCTCAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* *
117869744 TTAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* * *
117869784 TTAGCCCGG-TATAATAACTCGCACAAACGCCTTTGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* *
117869823 TTAGCCCGGATATAGTAGCTCGCACGAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* * *
117869863 TTATCCCGGATATAGTAGCTCGCACGAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
117869903 TTAGCCC
1 TTAGCCC
117869910 AAAATTAGCC
Statistics
Matches: 148, Mismatches: 16, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
39 39 0.26
40 109 0.74
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
Found at i:117869837 original size:79 final size:80
Alignment explanation
Indices: 117869728--117869909 Score: 267
Period size: 79 Copynumber: 2.3 Consensus size: 80
117869718 GCCACTAGCT
* *
117869728 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
117869793 -TATAATAACTCGCA
66 ATATAATAACTCGCA
* * * * *
117869807 CAAACGCCTTTGGGACTTAGCCCGGATATAGTAGCTCGCACGAATGCCTTCGGGACTTATCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
* *
117869872 ATATAGTAGCTCGCA
66 ATATAATAACTCGCA
*
117869887 CGAATGCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
117869910 AAAATTAGCC
Statistics
Matches: 90, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
79 58 0.64
80 32 0.36
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
ATATAATAACTCGCA
Found at i:117869933 original size:80 final size:79
Alignment explanation
Indices: 117869728--117869950 Score: 218
Period size: 79 Copynumber: 2.8 Consensus size: 79
117869718 GCCACTAGCT
* *** * * *
117869728 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAACGCCTTCGGGACTTAGCCCAAATATAGCAGCTAGCACAAATGCCTTCGGGACTTAGCCCGG
117869793 TATAATAACTCGCA
66 TATAATAACTCGCA
* ** * * * *
117869807 CAAACGCCTTTGGGACTTAGCCCGGATATAGTAGCTCGCACGAATGCCTTCGGGACTTATCCCGG
1 CAAACGCCTTCGGGACTTAGCCCAAATATAGCAGCTAGCACAAATGCCTTCGGGACTTAGCCCGG
* *
117869872 ATATAGTAGCTCGCA
66 -TATAATAACTCGCA
* * *
117869887 CGAATGCCTTCGGGACTTAGCCCAAA-ATTAGCCA-CTAGCTCAAATG-CTCTCGGGACTTAGCC
1 CAAACGCCTTCGGGACTTAGCCCAAATA-TAG-CAGCTAGCACAAATGCCT-TCGGGACTTAGCC
117869949 CG
63 CG
117869951 ATTATCATCC
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
79 61 0.50
80 59 0.49
81 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (79 bp):
CAAACGCCTTCGGGACTTAGCCCAAATATAGCAGCTAGCACAAATGCCTTCGGGACTTAGCCCGG
TATAATAACTCGCA
Found at i:117873676 original size:18 final size:17
Alignment explanation
Indices: 117873644--117873677 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
117873634 CAATTCACAT
*
117873644 ATCATCATTCTCAATTC
1 ATCATCATTCGCAATTC
117873661 ATCATCAATTCGCAATT
1 ATCATC-ATTCGCAATT
117873678 TTCTCATATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.32, C:0.26, G:0.03, T:0.38
Consensus pattern (17 bp):
ATCATCATTCGCAATTC
Found at i:117876927 original size:2 final size:2
Alignment explanation
Indices: 117876884--117876919 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
117876874 TGTATACATG
117876884 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
117876920 GTTATATAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:117890593 original size:9 final size:9
Alignment explanation
Indices: 117890581--117890618 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
117890571 TCATGTGAAT
117890581 CATACGGCC
1 CATACGGCC
117890590 CATACGGCC
1 CATACGGCC
* *
117890599 CGTAGGGCC
1 CATACGGCC
117890608 CATACGGCC
1 CATACGGCC
117890617 CA
1 CA
117890619 ATTTGGTCTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.21, C:0.42, G:0.26, T:0.11
Consensus pattern (9 bp):
CATACGGCC
Found at i:117892154 original size:93 final size:93
Alignment explanation
Indices: 117891995--117892166 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
117891985 CGCCCATAAG
* * * *
117891995 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTTCATCCATGAGTGAACTCGGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
117892060 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
117892088 TGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
117892153 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
117892167 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (93 bp):
TGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:117892163 original size:46 final size:46
Alignment explanation
Indices: 117891988--117892163 Score: 223
Period size: 46 Copynumber: 3.8 Consensus size: 46
117891978 TGTAACCCGC
* * * *
117891988 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTTCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTACAT
* *
117892034 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTACAT
* *
117892084 -C-TCA-TGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTACAT
117892127 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
117892164 TGCTCAACCA
Statistics
Matches: 113, Mismatches: 10, Indels: 14
0.82 0.07 0.10
Matches are distributed among these distances:
43 6 0.05
44 2 0.02
45 2 0.02
46 64 0.57
47 30 0.27
48 2 0.02
49 2 0.02
50 5 0.04
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTACAT
Found at i:117898121 original size:42 final size:42
Alignment explanation
Indices: 117898069--117898156 Score: 149
Period size: 42 Copynumber: 2.1 Consensus size: 42
117898059 TCTCGATATA
* *
117898069 ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
1 ATATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTAGTAAT
*
117898111 ATATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTAGTACT
1 ATATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTAGTAAT
117898153 ATAT
1 ATAT
117898157 CCGGACTTAG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (42 bp):
ATATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTAGTAAT
Found at i:117902774 original size:28 final size:27
Alignment explanation
Indices: 117902711--117902780 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
117902701 ATAGTGAGTC
117902711 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
* *
117902738 TGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
117902766 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
117902781 GTACAAGTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 21 0.54
28 18 0.46
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:117910803 original size:28 final size:27
Alignment explanation
Indices: 117910740--117910809 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
117910730 ATAGTGAGTC
117910740 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
117910767 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
117910795 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
117910810 GTACAAGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:117927255 original size:18 final size:18
Alignment explanation
Indices: 117927234--117927272 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
117927224 TTTCATCAAG
*
117927234 TTTTTGAGATTCAATTGT
1 TTTTTAAGATTCAATTGT
*
117927252 TTTTTAAGATTCATTTGT
1 TTTTTAAGATTCAATTGT
117927270 TTT
1 TTT
117927273 CCTTTTAAAA
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:0.21, C:0.05, G:0.13, T:0.62
Consensus pattern (18 bp):
TTTTTAAGATTCAATTGT
Found at i:117960348 original size:5 final size:5
Alignment explanation
Indices: 117960338--117960423 Score: 72
Period size: 5 Copynumber: 17.0 Consensus size: 5
117960328 ATATGTCTTT
* *
117960338 TAAAA TAAAA T--AA TAAAA TTGAAA TGAAAA TAGAAA TTAAA -AAAA
1 TAAAA TAAAA TAAAA TAAAA -TAAAA T-AAAA TA-AAA TAAAA TAAAA
*
117960383 TAAAA TAAGAA T-AAA TAAAA TAGAA TAAAA TAAGAA TAAAA
1 TAAAA TAA-AA TAAAA TAAAA TAAAA TAAAA TAA-AA TAAAA
117960424 AGATAGGAGG
Statistics
Matches: 66, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
3 3 0.05
4 6 0.09
5 37 0.56
6 20 0.30
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (5 bp):
TAAAA
Found at i:117960422 original size:25 final size:25
Alignment explanation
Indices: 117960338--117960422 Score: 85
Period size: 25 Copynumber: 3.6 Consensus size: 25
117960328 ATATGTCTTT
*
117960338 TAAAATAA-AAT-AATAAAATTGAAA
1 TAAAATAAGAATAAATAAAATAG-AA
*
117960362 TGAAAAT-AG-A-AATTAAAA-A-AA
1 T-AAAATAAGAATAAATAAAATAGAA
117960383 TAAAATAAGAATAAATAAAATAGAA
1 TAAAATAAGAATAAATAAAATAGAA
117960408 TAAAATAAGAATAAA
1 TAAAATAAGAATAAA
117960423 AAGATAGGAG
Statistics
Matches: 50, Mismatches: 3, Indels: 15
0.74 0.04 0.22
Matches are distributed among these distances:
20 5 0.10
21 5 0.10
22 1 0.02
23 7 0.14
24 10 0.20
25 22 0.44
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (25 bp):
TAAAATAAGAATAAATAAAATAGAA
Found at i:117965796 original size:22 final size:23
Alignment explanation
Indices: 117965771--117965817 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
117965761 GGATTTGTTT
*
117965771 ATTAAGCTAA-TTATTTAAA-CAA
1 ATTAA-CTAATTTAATTAAAGCAA
117965793 ATTAACTAATTTAATTAAAGCAA
1 ATTAACTAATTTAATTAAAGCAA
117965816 AT
1 AT
117965818 AGAAAAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 4 0.18
22 13 0.59
23 5 0.23
ACGTcount: A:0.51, C:0.09, G:0.04, T:0.36
Consensus pattern (23 bp):
ATTAACTAATTTAATTAAAGCAA
Found at i:117976778 original size:46 final size:48
Alignment explanation
Indices: 117976674--117976793 Score: 154
Period size: 48 Copynumber: 2.5 Consensus size: 48
117976664 TGTCTTCGAC
** * *
117976674 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAAT
* * *
117976722 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCCATATA-A-CTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAAT
*
117976768 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
117976794 CTGTCCTGTC
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
46 27 0.43
47 1 0.02
48 35 0.56
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.35
Consensus pattern (48 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAAT
Found at i:117989974 original size:30 final size:30
Alignment explanation
Indices: 117989921--117989977 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
117989911 CTAGGCATTT
* *
117989921 CCACACGGGCTGGCGAGACGCCCATGTAAG
1 CCACACGGGCTGGCCACACGCCCATGTAAG
*
117989951 CCACACGGGCTGGCCACATGCCCATGT
1 CCACACGGGCTGGCCACACGCCCATGT
117989978 GCCAGTCTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.21, C:0.37, G:0.30, T:0.12
Consensus pattern (30 bp):
CCACACGGGCTGGCCACACGCCCATGTAAG
Found at i:117994305 original size:198 final size:198
Alignment explanation
Indices: 117993942--117994310 Score: 571
Period size: 198 Copynumber: 1.9 Consensus size: 198
117993932 GTTTTTGTCC
* * * **
117993942 TACATGACCTGGCCACACGGGTGTGTCTAGCACATGGCCTGGCCACACAGGCGTGTGGGATCTCA
1 TACACGACCTGGCCACACGGGTGTATCGAGCACACAGCCTGGCCACACAGGCGTGTGGGATCTCA
* *
117994007 CATGGGCGTAGGAGAAGCGAAAGAAAACACACACGGCCTGGTGACATGGCCATGTGACCCACATG
66 CATGGGCGTAGGAGAAGCGAAAGAAAACACACACGGCCTGGCGACATGGCCATGTGACCCACACG
* * *
117994072 GCCTGGACACACGGGCGTGTCCTAAGCCGTGTGAAACCTGGACCTAATTTTTTTCAAAGTTAGAT
131 GCCTGGACACACGGGCATGTCCTAAGCCATGTGAAAACTGGACCTAATTTTTTTCAAAGTTAGAT
117994137 AGT
196 AGT
* *
117994140 TACACGACCTGGCCACACGGGTGTATGGAGCACACAGCCTGGCCACGA-GGGCGTGTGGGATCTC
1 TACACGACCTGGCCACACGGGTGTATCGAGCACACAGCCTGGCCAC-ACAGGCGTGTGGGATCTC
* *
117994204 ACATGGGCGTAGGAGAAGCGAAGGAAAACACACACGGCCTGGCGATATGGCCATGTGACCCACAC
65 ACATGGGCGTAGGAGAAGCGAAAGAAAACACACACGGCCTGGCGACATGGCCATGTGACCCACAC
*
117994269 GGCCTGGACACACGGGCATGTCC-ATGGCCATGTGAAAACTGG
130 GGCCTGGACACACGGGCATGTCCTA-AGCCATGTGAAAACTGG
117994311 GTTAATCACC
Statistics
Matches: 154, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
197 1 0.01
198 152 0.99
199 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.31, T:0.17
Consensus pattern (198 bp):
TACACGACCTGGCCACACGGGTGTATCGAGCACACAGCCTGGCCACACAGGCGTGTGGGATCTCA
CATGGGCGTAGGAGAAGCGAAAGAAAACACACACGGCCTGGCGACATGGCCATGTGACCCACACG
GCCTGGACACACGGGCATGTCCTAAGCCATGTGAAAACTGGACCTAATTTTTTTCAAAGTTAGAT
AGT
Found at i:117994345 original size:4 final size:5
Alignment explanation
Indices: 117994324--117994375 Score: 54
Period size: 5 Copynumber: 10.2 Consensus size: 5
117994314 AATCACCCCA
*
117994324 ATTTT ATTTT ATTTT A-TTT ATTTT AATTGTT ATATT A-TTT ATTTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT -ATT-TT ATTTT ATTTT A-TTTT
117994370 ATTTT A
1 ATTTT A
117994376 CAAATTAATT
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
4 7 0.17
5 22 0.55
6 9 0.22
7 2 0.05
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (5 bp):
ATTTT
Found at i:117994361 original size:21 final size:19
Alignment explanation
Indices: 117994324--117994375 Score: 68
Period size: 21 Copynumber: 2.6 Consensus size: 19
117994314 AATCACCCCA
*
117994324 ATTTTATTTTATTTTATTT
1 ATTTTATTTTATATTATTT
117994343 ATTTTAATTGTTATATTATTT
1 ATTTT-ATT-TTATATTATTT
117994364 ATTTTTATTTTA
1 A-TTTTATTTTA
117994376 CAAATTAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 5 0.17
20 6 0.21
21 14 0.48
22 4 0.14
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (19 bp):
ATTTTATTTTATATTATTT
Found at i:117994436 original size:17 final size:16
Alignment explanation
Indices: 117994414--117994472 Score: 66
Period size: 17 Copynumber: 3.6 Consensus size: 16
117994404 ATACTTATGT
117994414 TTTTAATTTTTTTTATA
1 TTTT-ATTTTTTTTATA
* *
117994431 TTTTAATTTTTATATA
1 TTTTATTTTTTTTATA
*
117994447 CTTTTATTATTTTTAT-
1 -TTTTATTTTTTTTATA
117994463 TTTTATTTTT
1 TTTTATTTTT
117994473 CTATTTGTAT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
15 9 0.26
16 10 0.29
17 16 0.46
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTATTTTTTTTATA
Found at i:117994488 original size:23 final size:22
Alignment explanation
Indices: 117994462--117994512 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
117994452 ATTATTTTTA
*
117994462 TTTTTATTTTTCTATTTGTATTT
1 TTTTTATTTTTCT-TTCGTATTT
117994485 TTTTCT-TTTTTCTTTCGTATTT
1 TTTT-TATTTTTCTTTCGTATTT
117994507 TTTTTA
1 TTTTTA
117994513 CTATTATCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 1 0.04
22 12 0.48
23 11 0.44
24 1 0.04
ACGTcount: A:0.10, C:0.08, G:0.04, T:0.78
Consensus pattern (22 bp):
TTTTTATTTTTCTTTCGTATTT
Found at i:117994505 original size:28 final size:29
Alignment explanation
Indices: 117994451--117994506 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
117994441 TATATACTTT
*
117994451 TATTATTTTTATTTTTATTTTTCTATTTG
1 TATTATTTTTATTTTTATCTTTCTATTTG
*
117994480 TATT-TTTTTCTTTTT-TCTTTCGTATTT
1 TATTATTTTTATTTTTATCTTTC-TATTT
117994507 TTTTTACTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 5 0.21
28 15 0.62
29 4 0.17
ACGTcount: A:0.12, C:0.07, G:0.04, T:0.77
Consensus pattern (29 bp):
TATTATTTTTATTTTTATCTTTCTATTTG
Found at i:117994567 original size:3 final size:3
Alignment explanation
Indices: 117994559--117994604 Score: 65
Period size: 3 Copynumber: 15.3 Consensus size: 3
117994549 ATCATTGAGT
* * *
117994559 TTA TTA TTA TTA TTA TTA TTA TTT TTA TTA TTT TTA TTA TTT TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
117994605 CTTTCTTTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (3 bp):
TTA
Found at i:117994571 original size:9 final size:9
Alignment explanation
Indices: 117994559--117994604 Score: 74
Period size: 9 Copynumber: 5.1 Consensus size: 9
117994549 ATCATTGAGT
*
117994559 TTATTATTA
1 TTATTTTTA
*
117994568 TTATTATTA
1 TTATTTTTA
117994577 TTATTTTTA
1 TTATTTTTA
117994586 TTATTTTTA
1 TTATTTTTA
117994595 TTATTTTTA
1 TTATTTTTA
117994604 T
1 T
117994605 CTTTCTTTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (9 bp):
TTATTTTTA
Found at i:117995610 original size:13 final size:14
Alignment explanation
Indices: 117995592--117995625 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
117995582 CTATTGTTCT
117995592 AAAAAAA-ATGAAA
1 AAAAAAAGATGAAA
*
117995605 AAAAAAAGGTGAAA
1 AAAAAAAGATGAAA
117995619 AAAAAAA
1 AAAAAAA
117995626 CACTTATGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.06
Consensus pattern (14 bp):
AAAAAAAGATGAAA
Found at i:117996502 original size:30 final size:30
Alignment explanation
Indices: 117996466--117996523 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
117996456 TTGGGCATTT
117996466 CCACACGAGCTGGCCACACGACCATGTGAG
1 CCACACGAGCTGGCCACACGACCATGTGAG
* * * *
117996496 CCACACGGGCTTGCCACATGCCCATGTG
1 CCACACGAGCTGGCCACACGACCATGTG
117996524 CTAGACCGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.22, C:0.38, G:0.26, T:0.14
Consensus pattern (30 bp):
CCACACGAGCTGGCCACACGACCATGTGAG
Found at i:118002623 original size:20 final size:22
Alignment explanation
Indices: 118002590--118002630 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
118002580 AAATATAAAT
118002590 ATTTATATACTTTTATAATTAA
1 ATTTATATACTTTTATAATTAA
*
118002612 ATTTA-ATA-TTTTTTAATTA
1 ATTTATATACTTTTATAATTA
118002631 TTTAAATCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 3 0.17
22 5 0.28
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (22 bp):
ATTTATATACTTTTATAATTAA
Found at i:118012785 original size:8 final size:8
Alignment explanation
Indices: 118012759--118012798 Score: 55
Period size: 8 Copynumber: 5.1 Consensus size: 8
118012749 TTAATTTAAT
118012759 TTTAATT-
1 TTTAATTA
* *
118012766 TTCAAATA
1 TTTAATTA
118012774 TTTAATTA
1 TTTAATTA
118012782 TTTAATTA
1 TTTAATTA
118012790 TTTAATTA
1 TTTAATTA
118012798 T
1 T
118012799 AATTAAATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
7 5 0.18
8 23 0.82
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (8 bp):
TTTAATTA
Found at i:118014439 original size:51 final size:51
Alignment explanation
Indices: 118014363--118014464 Score: 186
Period size: 51 Copynumber: 2.0 Consensus size: 51
118014353 AAAATTGAGA
118014363 TAGCCTCTCATACCAAGCTCGATGGCCTTGTTTCAGGCCATACAACGCATT
1 TAGCCTCTCATACCAAGCTCGATGGCCTTGTTTCAGGCCATACAACGCATT
* *
118014414 TAGCCTCTCATACCAAGCTCGATGGCCTTGTTTCAGTCCATACAAGGCATT
1 TAGCCTCTCATACCAAGCTCGATGGCCTTGTTTCAGGCCATACAACGCATT
118014465 ACTCAATTTG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (51 bp):
TAGCCTCTCATACCAAGCTCGATGGCCTTGTTTCAGGCCATACAACGCATT
Found at i:118015981 original size:27 final size:26
Alignment explanation
Indices: 118015933--118015984 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
118015923 GCGAGGCTGC
*
118015933 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
118015959 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
118015985 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:118016625 original size:27 final size:26
Alignment explanation
Indices: 118016578--118016631 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
118016568 ATCACACAAG
* *
118016578 TTAGTCATTTACGCACGAGGGGCAAA
1 TTAGTCATTTACCCACCAGGGGCAAA
* *
118016604 TTAGTCATTTTACCCTCCAGGGGTAAA
1 TTAGTCA-TTTACCCACCAGGGGCAAA
118016631 T
1 T
118016632 CGGTAGTACT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (26 bp):
TTAGTCATTTACCCACCAGGGGCAAA
Found at i:118022486 original size:27 final size:26
Alignment explanation
Indices: 118022438--118022497 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
118022428 ACGAGGCTGC
*
118022438 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
118022465 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
118022491 CATATAT
1 CAGATAT
118022498 ATATATATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:118022499 original size:2 final size:2
Alignment explanation
Indices: 118022492--118022523 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
118022482 CCACCAGAAC
118022492 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
118022524 GTGGCGAAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:118023229 original size:26 final size:27
Alignment explanation
Indices: 118023200--118023253 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
118023190 ATCACACAAG
* *
118023200 TTAGTCA-TTTACGCACGAGGGGTAAA
1 TTAGTCATTTTACCCACCAGGGGTAAA
*
118023226 TTAGTCATTTTACCCTCCAGGGGTAAA
1 TTAGTCATTTTACCCACCAGGGGTAAA
118023253 T
1 T
118023254 CGGTAGTCCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 7 0.29
27 17 0.71
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (27 bp):
TTAGTCATTTTACCCACCAGGGGTAAA
Found at i:118028423 original size:26 final size:26
Alignment explanation
Indices: 118028386--118028455 Score: 97
Period size: 26 Copynumber: 2.7 Consensus size: 26
118028376 TTCTACATAA
*
118028386 TTGCTCACACGAGTTGTGAAATGAG-
1 TTGCTCACACGAGCTGTGAAATGAGC
* *
118028411 TATGCTCACACGAGCTATGAAATGGGC
1 T-TGCTCACACGAGCTGTGAAATGAGC
118028438 TTGCTCACACGAGCTGTG
1 TTGCTCACACGAGCTGTG
118028456 GAGTATCCGC
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
25 1 0.03
26 37 0.95
27 1 0.03
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (26 bp):
TTGCTCACACGAGCTGTGAAATGAGC
Found at i:118034608 original size:32 final size:32
Alignment explanation
Indices: 118034572--118034691 Score: 86
Period size: 32 Copynumber: 3.6 Consensus size: 32
118034562 GTTTTTAATC
118034572 TTATTTTTATATTATATTATATAATTATTTTA
1 TTATTTTTATATTATATTATATAATTATTTTA
* *
118034604 TTATTTATTAT-TCATATTATTTATATATATTATATA
1 TTATTT-TTATATTATATTATATA-AT-TATT-T-TA
* *
118034640 TTATTTTTACATATATACTT-TCAT-ATTA-TATA
1 TTATTTTTATAT-TATA-TTAT-ATAATTATTTTA
* *
118034672 TTATATTTATTTTATATTAT
1 TTATTTTTATATTATATTAT
118034692 TATGTCATTT
Statistics
Matches: 69, Mismatches: 9, Indels: 21
0.70 0.09 0.21
Matches are distributed among these distances:
30 2 0.03
31 5 0.07
32 27 0.39
33 6 0.09
34 5 0.07
35 6 0.09
36 11 0.16
37 4 0.06
38 3 0.04
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (32 bp):
TTATTTTTATATTATATTATATAATTATTTTA
Found at i:118034623 original size:9 final size:9
Alignment explanation
Indices: 118034578--118034645 Score: 63
Period size: 9 Copynumber: 7.7 Consensus size: 9
118034568 AATCTTATTT
118034578 TTATATTATA
1 TTAT-TTATA
*
118034588 TTATATA-A
1 TTATTTATA
118034596 TTATTT-TA
1 TTATTTATA
118034604 TTA-TT-TA
1 TTATTTATA
*
118034611 TTATTCATA
1 TTATTTATA
118034620 TTATTTATA
1 TTATTTATA
118034629 TATATTATATA
1 T-TATT-TATA
118034640 TTATTT
1 TTATTT
118034646 TTACATATAT
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
7 7 0.14
8 11 0.22
9 14 0.29
10 12 0.24
11 5 0.10
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.63
Consensus pattern (9 bp):
TTATTTATA
Done.