Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 81 of 189
Found at i:22498341 original size:25 final size:25
Alignment explanation
Indices: 22498278--22498342 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
22498268 TGATACTCAG
*
22498278 CTCGCATGAGCTTCCCATTATTCAA
1 CTCGCAAGAGCTTCCCATTATTCAA
* * * *
22498303 CTCGCATGACCTTCCCGTTATTCAG
1 CTCGCAAGAGCTTCCCATTATTCAA
22498328 CTCAG-AAGAGCTTCC
1 CTC-GCAAGAGCTTCC
22498343 TATTTACAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
25 33 0.97
26 1 0.03
ACGTcount: A:0.22, C:0.34, G:0.15, T:0.29
Consensus pattern (25 bp):
CTCGCAAGAGCTTCCCATTATTCAA
Found at i:22499349 original size:43 final size:43
Alignment explanation
Indices: 22499251--22499352 Score: 141
Period size: 43 Copynumber: 2.4 Consensus size: 43
22499241 TACATTTAGA
* * * *
22499251 GACACAAGCATGTGTCTCATCCGTGTGTGACACACGGCTAGGT
1 GACACAACCGTGTGTCTCAGCCGTGTGTGACACACGGCCAGGT
**
22499294 GACACGGCCGTGTGTCTCAGCCGTGTGTGACACACGGCCAGGT
1 GACACAACCGTGTGTCTCAGCCGTGTGTGACACACGGCCAGGT
*
22499337 GACACAATCGTGTGTC
1 GACACAACCGTGTGTC
22499353 CTCTGTATCT
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 50 1.00
ACGTcount: A:0.21, C:0.27, G:0.30, T:0.22
Consensus pattern (43 bp):
GACACAACCGTGTGTCTCAGCCGTGTGTGACACACGGCCAGGT
Found at i:22500454 original size:76 final size:76
Alignment explanation
Indices: 22500298--22500456 Score: 189
Period size: 76 Copynumber: 2.1 Consensus size: 76
22500288 CAGATTTGAT
* *
22500298 AAACCATCATTGCTGGGAAATTCAGGGTGGCAAGTCATCGTTGCCGGGCAACCCTAGATAACATG
1 AAACCATCATTGCTGGGAAATCCAGGGTGGCAAGTCATCATTGCCGGGCAACCCTAGATAACATG
*
22500363 AAAAAACTGAG
66 AAAAAACTGAA
** * *
22500374 AAACCATCATTTTTGGGAAATCCGGGGTGGC-AGATCATCATTGCCGGGCAA-CCTGGGATAACA
1 AAACCATCATTGCTGGGAAATCCAGGGTGGCAAG-TCATCATTGCCGGGCAACCCT-AGATAACA
* *
22500437 T-AAATGAGCTGAA
64 TGAAA-AAACTGAA
22500450 AAACCAT
1 AAACCAT
22500457 TGTTGCAAAA
Statistics
Matches: 71, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
75 8 0.11
76 63 0.89
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.21
Consensus pattern (76 bp):
AAACCATCATTGCTGGGAAATCCAGGGTGGCAAGTCATCATTGCCGGGCAACCCTAGATAACATG
AAAAAACTGAA
Found at i:22500555 original size:76 final size:76
Alignment explanation
Indices: 22500392--22500555 Score: 172
Period size: 76 Copynumber: 2.2 Consensus size: 76
22500382 ATTTTTGGGA
* * * * *
22500392 AATCCGGGGTGGCAGATCATCATTGCCGGGCAACCTGGGATAACATAAATGAGCTGAAAAACCAT
1 AATCCGAGGTGGCAAATCATCATTGCCAGACAACCTGGGATAACATAAATGAGATGAAAAACCAT
22500457 TGTTGCAAAAC
66 TGTTGCAAAAC
* * * * *
22500468 AATTC-AGGGTGGCAAATCATCATTGTCAGACAACTTGGGATAACATAAATGA-ATTAAGAAATC
1 AATCCGA-GGTGGCAAATCATCATTGCCAGACAACCTGGGATAACATAAATGAGATGAA-AAACC
* *
22500531 ATCT-TTGCTAAGC
64 AT-TGTTGCAAAAC
22500544 AATCCGAGGTGG
1 AATCCGAGGTGG
22500556 TAGGTCATCG
Statistics
Matches: 71, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
75 3 0.04
76 66 0.93
77 2 0.03
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.23
Consensus pattern (76 bp):
AATCCGAGGTGGCAAATCATCATTGCCAGACAACCTGGGATAACATAAATGAGATGAAAAACCAT
TGTTGCAAAAC
Found at i:22514606 original size:17 final size:18
Alignment explanation
Indices: 22514580--22514618 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
22514570 GCATTTGTGG
22514580 AAAA-TGTTCTC-AATAT
1 AAAATTGTTCTCTAATAT
*
22514596 AAAATTGTTCTCTCATAT
1 AAAATTGTTCTCTAATAT
22514614 AAAAT
1 AAAAT
22514619 CAAAAGCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 7 0.35
18 9 0.45
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (18 bp):
AAAATTGTTCTCTAATAT
Found at i:22518161 original size:15 final size:15
Alignment explanation
Indices: 22518151--22518180 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
22518141 TCCCTTCTTG
22518151 ACCACGACCTTTTCC
1 ACCACGACCTTTTCC
*
22518166 ACCACGACCATTTCC
1 ACCACGACCTTTTCC
22518181 TCGATCTCCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.47, G:0.07, T:0.23
Consensus pattern (15 bp):
ACCACGACCTTTTCC
Found at i:22518948 original size:17 final size:18
Alignment explanation
Indices: 22518922--22518960 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
22518912 CAAATTGTGG
22518922 AAAA-TGTTCTC-AATAT
1 AAAATTGTTCTCTAATAT
*
22518938 AAAATTGTTCTCTCATAT
1 AAAATTGTTCTCTAATAT
22518956 AAAAT
1 AAAAT
22518961 CAAAAGCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 7 0.35
18 9 0.45
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (18 bp):
AAAATTGTTCTCTAATAT
Found at i:22523878 original size:77 final size:77
Alignment explanation
Indices: 22523751--22523912 Score: 288
Period size: 77 Copynumber: 2.1 Consensus size: 77
22523741 TGAGACAATC
** * *
22523751 TTAAAGTGTTATGTGAATAAAATTTTATATATTTCAAGTTCAAAGATTAAAATATATCTAATTGT
1 TTAAAGTGTTATGCCAATAAAATGTTATATATTTCAAGTTCAAAGATTAAAATACATCTAATTGT
22523816 CAAGTTCAATTA
66 CAAGTTCAATTA
22523828 TTAAAGTGTTATGCCAATAAAATGTTATATATTTCAAGTTCAAAGATTAAAATACATCTAATTGT
1 TTAAAGTGTTATGCCAATAAAATGTTATATATTTCAAGTTCAAAGATTAAAATACATCTAATTGT
22523893 CAAGTTCAATTA
66 CAAGTTCAATTA
22523905 TTAAAGTG
1 TTAAAGTG
22523913 GACAAAAAAA
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
77 81 1.00
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.40
Consensus pattern (77 bp):
TTAAAGTGTTATGCCAATAAAATGTTATATATTTCAAGTTCAAAGATTAAAATACATCTAATTGT
CAAGTTCAATTA
Found at i:22524301 original size:24 final size:24
Alignment explanation
Indices: 22524274--22524351 Score: 58
Period size: 26 Copynumber: 3.3 Consensus size: 24
22524264 TATATATTTT
22524274 TTATTAAATTATATTTAATAATAA
1 TTATTAAATTATATTTAATAATAA
* *
22524298 TTATTTTAAATTAT-TATTAA-ATTAT
1 TTA--TTAAATTATAT-TTAATAATAA
* *
22524323 TTATT-ATTTATA-TTAATAAT-C
1 TTATTAAATTATATTTAATAATAA
22524344 TTATTAAA
1 TTATTAAA
22524352 ATTTAATAAC
Statistics
Matches: 42, Mismatches: 6, Indels: 14
0.68 0.10 0.23
Matches are distributed among these distances:
21 9 0.21
22 8 0.19
23 2 0.05
24 3 0.07
25 7 0.17
26 13 0.31
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (24 bp):
TTATTAAATTATATTTAATAATAA
Found at i:22524315 original size:56 final size:57
Alignment explanation
Indices: 22524206--22524338 Score: 155
Period size: 56 Copynumber: 2.3 Consensus size: 57
22524196 TATATTATTA
* *
22524206 TATATTATGATTTTAGTAAATTAATATAAGAATAATTATATTAAGAATTTTATTAAAT
1 TATA-TATTATTTTATTAAATTAATATAAGAATAATTATATTAAGAATTTTATTAAAT
* * *
22524264 TATATATT-TTTTATTAAATTATATTTAATAATAATTAT-TTTA-AATTATTATTAAAT
1 TATATATTATTTTATTAAATTA-ATATAAGAATAATTATATTAAGAATT-TTATTAAAT
*
22524320 TATTTATTATTTATATTAA
1 TATATATTATTT-TATTAA
22524339 TAATCTTATT
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
55 4 0.06
56 31 0.48
57 20 0.31
58 10 0.15
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (57 bp):
TATATATTATTTTATTAAATTAATATAAGAATAATTATATTAAGAATTTTATTAAAT
Found at i:22524323 original size:11 final size:11
Alignment explanation
Indices: 22524296--22524328 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
22524286 ATTTAATAAT
22524296 AATTATT-TTA
1 AATTATTATTA
22524306 AATTATTATTA
1 AATTATTATTA
22524317 AATTATTTATTA
1 AATTA-TTATTA
22524329 TTTATATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 7 0.33
11 8 0.38
12 6 0.29
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
AATTATTATTA
Found at i:22524540 original size:16 final size:16
Alignment explanation
Indices: 22524519--22524557 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
22524509 AATTAAATTG
*
22524519 CTATTACGCCTCTATT
1 CTATTACGCATCTATT
22524535 CTATTACGCATCTATT
1 CTATTACGCATCTATT
*
22524551 CCATTAC
1 CTATTAC
22524558 AGCGAACCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.23, C:0.31, G:0.05, T:0.41
Consensus pattern (16 bp):
CTATTACGCATCTATT
Found at i:22527169 original size:47 final size:48
Alignment explanation
Indices: 22527079--22527177 Score: 137
Period size: 47 Copynumber: 2.1 Consensus size: 48
22527069 GTTTTGTTAA
* * ** *
22527079 TTTAGGTAATATTTATAAAAATTAGATAAAATTATCAATTTTAGT-TT
1 TTTAAGTAATATTTATAAAAATTAGATAAAAATAAAAAATTTAGTGTT
*
22527126 TTTAAGTAATATTTATAAAAATTAGGTAAAAATAAAAAATTTAGTGTT
1 TTTAAGTAATATTTATAAAAATTAGATAAAAATAAAAAATTTAGTGTT
22527174 TTTA
1 TTTA
22527178 TTTCTTTTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
47 39 0.87
48 6 0.13
ACGTcount: A:0.45, C:0.01, G:0.09, T:0.44
Consensus pattern (48 bp):
TTTAAGTAATATTTATAAAAATTAGATAAAAATAAAAAATTTAGTGTT
Found at i:22527221 original size:10 final size:10
Alignment explanation
Indices: 22527206--22527247 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
22527196 TTTTAATTTT
*
22527206 ATTTTTTATA
1 ATTTTTTACA
22527216 A-TTTTTACA
1 ATTTTTTACA
22527225 ATTTTTTACA
1 ATTTTTTACA
22527235 A--TTTTACA
1 ATTTTTTACA
22527243 ATTTT
1 ATTTT
22527248 AAATTATTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
8 8 0.29
9 8 0.29
10 12 0.43
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (10 bp):
ATTTTTTACA
Found at i:22527222 original size:9 final size:9
Alignment explanation
Indices: 22527208--22527247 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
22527198 TTAATTTTAT
*
22527208 TTTTTATAA
1 TTTTTACAA
22527217 TTTTTACAA
1 TTTTTACAA
22527226 TTTTTTACAA
1 -TTTTTACAA
22527236 -TTTTACAA
1 TTTTTACAA
22527244 TTTT
1 TTTT
22527248 AAATTATTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
8 8 0.29
9 11 0.39
10 9 0.32
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.62
Consensus pattern (9 bp):
TTTTTACAA
Found at i:22527229 original size:18 final size:18
Alignment explanation
Indices: 22527206--22527247 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
22527196 TTTTAATTTT
*
22527206 ATTTTTTATAATTTTTACA
1 ATTTTTTACAA-TTTTACA
22527225 ATTTTTTACAATTTTACA
1 ATTTTTTACAATTTTACA
22527243 ATTTT
1 ATTTT
22527248 AAATTATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTTTTTACAATTTTACA
Found at i:22527506 original size:89 final size:89
Alignment explanation
Indices: 22527344--22527518 Score: 244
Period size: 89 Copynumber: 2.0 Consensus size: 89
22527334 TATAAAGAAC
** * *
22527344 TTATTTAATATATAAATTAAAAAGTACTAATTAATCCAAATCTTAAACCCTAACCCGACCCCAAA
1 TTATTTAATATATAAATTAAAAAACACTAATTAATCCAAACCTTAAACCATAACCCGACCCCAAA
22527409 TCCCTAACCCCTAACCCCTAAATT
66 TCCCTAACCCCTAACCCCTAAATT
* * * *
22527433 TTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCTTAAACTATAACCCGATCCCTAA
1 TTATTTAATATATAAATTAAAAAACACTAATTAATCCAAACCTTAAACCATAACCCGACCCCAAA
* *
22527498 -CTCTTAACCCTTAACCCCTAA
66 TC-CCTAACCCCTAACCCCTAA
22527519 CCCCTAACCC
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
88 1 0.01
89 74 0.99
ACGTcount: A:0.42, C:0.26, G:0.02, T:0.30
Consensus pattern (89 bp):
TTATTTAATATATAAATTAAAAAACACTAATTAATCCAAACCTTAAACCATAACCCGACCCCAAA
TCCCTAACCCCTAACCCCTAAATT
Found at i:22527510 original size:7 final size:7
Alignment explanation
Indices: 22527492--22527539 Score: 69
Period size: 7 Copynumber: 6.9 Consensus size: 7
22527482 ATAACCCGAT
22527492 CCCTAAC
1 CCCTAAC
* *
22527499 TCTTAAC
1 CCCTAAC
*
22527506 CCTTAAC
1 CCCTAAC
22527513 CCCTAAC
1 CCCTAAC
22527520 CCCTAAC
1 CCCTAAC
22527527 CCCTAAC
1 CCCTAAC
22527534 CCCTAA
1 CCCTAA
22527540 ACCTTATTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.29, C:0.50, G:0.00, T:0.21
Consensus pattern (7 bp):
CCCTAAC
Found at i:22527643 original size:110 final size:110
Alignment explanation
Indices: 22527401--22527649 Score: 270
Period size: 110 Copynumber: 2.3 Consensus size: 110
22527391 CCCTAACCCG
* * * **
22527401 ACCCCAAATCCCTAACCCCTAACCCCTAAATTTTATTTAATATATAAATTAAAAAACACTAATTA
1 ACCCCTAACCCCTAACACCTAACCCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATTA
* * * * *
22527466 ATCTAAACCTTAAACTATAACCCGATCCCTAACTCTTAACCCTTA
66 ACCTAAACCCTAAACTATAACCCGAACCCGAACTCTTAACCCTAA
* *
22527511 ACCCCTAACCCCTAACCCCTAACCCCTAAACCTTATTTAATATAT-AATTAAAACACACTAATTA
1 ACCCCTAACCCCTAACACCTAACCCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATTA
* * * *
22527575 ACCTAAACCCTAAACTCTAA-CCTAACATCGAA-TTTATAAACCCTAA
66 ACCTAAACCCTAAACTATAACCCGAAC-CCGAACTCT-T-AACCCTAA
* * * *
22527621 ATCCCTAACTCTTAACATCTAACCCCTAA
1 ACCCCTAACCCCTAACACCTAACCCCTAA
22527650 CCCCTAACCC
Statistics
Matches: 117, Mismatches: 19, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
108 6 0.05
109 39 0.33
110 72 0.62
ACGTcount: A:0.41, C:0.31, G:0.01, T:0.27
Consensus pattern (110 bp):
ACCCCTAACCCCTAACACCTAACCCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATTA
ACCTAAACCCTAAACTATAACCCGAACCCGAACTCTTAACCCTAA
Found at i:22527649 original size:7 final size:7
Alignment explanation
Indices: 22527639--22527673 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
22527629 CTCTTAACAT
22527639 CTAACCC
1 CTAACCC
22527646 CTAACCC
1 CTAACCC
22527653 CTAACCC
1 CTAACCC
22527660 CTAACCC
1 CTAACCC
*
22527667 TTAACCC
1 CTAACCC
22527674 ATAAACCTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.29, C:0.54, G:0.00, T:0.17
Consensus pattern (7 bp):
CTAACCC
Found at i:22527657 original size:21 final size:21
Alignment explanation
Indices: 22527623--22527681 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 21
22527613 AACCCTAAAT
* * *
22527623 CCCTAACTCTTAACATCTAAC
1 CCCTAACCCCTAACACCTAAC
*
22527644 CCCTAACCCCTAACCCCTAAC
1 CCCTAACCCCTAACACCTAAC
* *
22527665 CCTTAACCCATAA-ACCT
1 CCCTAACCCCTAACACCT
22527682 TAAATCACAT
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 3 0.10
21 28 0.90
ACGTcount: A:0.32, C:0.46, G:0.00, T:0.22
Consensus pattern (21 bp):
CCCTAACCCCTAACACCTAAC
Found at i:22527682 original size:14 final size:14
Alignment explanation
Indices: 22527640--22527684 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
22527630 TCTTAACATC
*
22527640 TAACCCCTAACCCC
1 TAACCCCTAACCCT
22527654 TAACCCCTAACCCT
1 TAACCCCTAACCCT
* *
22527668 TAACCCATAAACCT
1 TAACCCCTAACCCT
22527682 TAA
1 TAA
22527685 ATCACATTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.36, C:0.44, G:0.00, T:0.20
Consensus pattern (14 bp):
TAACCCCTAACCCT
Found at i:22527729 original size:14 final size:15
Alignment explanation
Indices: 22527707--22527740 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
22527697 CTTAAACTAG
*
22527707 AATCCCTAA-TCCAT
1 AATCTCTAATTCCAT
22527721 AATCTCTAATTCCAT
1 AATCTCTAATTCCAT
22527736 AATCT
1 AATCT
22527741 ATAAAACTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.35, C:0.29, G:0.00, T:0.35
Consensus pattern (15 bp):
AATCTCTAATTCCAT
Found at i:22528499 original size:114 final size:114
Alignment explanation
Indices: 22528294--22528957 Score: 947
Period size: 114 Copynumber: 5.8 Consensus size: 114
22528284 TTTTAAATCA
* * *
22528294 CTGAGTATTAGCGGCGCTTACTTAAAAACGCCACTAAATCCCTGAAAGCTCATAAAACGGCGTCG
1 CTGAGCATTAGCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCG
* *
22528359 TTGGGCTTAAGTATTTTTGCGACGCTTTCCCAAAAACGCCGCTAAAGCC
66 TTGGGCTTAAGAATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCC
* * *
22528408 CTGAGCTTTAGCGGCACTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCATCG
1 CTGAGCATTAGCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCG
* *
22528473 TTGGGCTTAAGAATTTTTACGGCGCTTTCCCAAAAACACCGCTAAAGCC
66 TTGGGCTTAAGAATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCC
* * * *
22528522 TTGAGCATTAGCGGCGCTTACATAAAAACACCACTAAATCCCCGAAAGCTCAAAAAACGGCGTCG
1 CTGAGCATTAGCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCG
* * * * * *
22528587 TTGAGCTTAGGCATTTTTGCGGTGCTTTCCCAAAAACGCCACTATAGCC
66 TTGGGCTTAAGAATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCC
* * *
22528636 CTGAGCATTAGCGGCGCTTACTTAAAAACGCCACTAAATCCCCAAAAGCTCAAAAAACGGTGTCG
1 CTGAGCATTAGCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCG
* *
22528701 TTGGGCTT-AGATTTTTTTGCGGCGCTTTCCCAAAAACGTCGCTAAAGCC
66 TTGGGCTTAAGA-ATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCC
*
22528750 CTGAGCATTAGCGGCGTTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCG
1 CTGAGCATTAGCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCG
* ** * *
22528815 TTGGGCTTAGGTTTTTTTGTGGCGCTTCTCTCAAAAACGCCGCTAAAGCC
66 TTGGGCTTAAGAATTTTTGCGGCGCTT-TCCCAAAAACGCCGCTAAAGCC
** *
22528865 CTGAGCATTAGCGGCGCTTTTTTAAAAACGCCACTAAATTCCCGAAAGCTC-GAAAAACGGCGTC
1 CTGAGCATTAGCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAG-AAAACGGCGTC
* * *
22528929 GTTGGGCTTAGGTA-TTTTGTGGCGCTTTC
65 GTTGGGCTTAAGAATTTTTGCGGCGCTTTC
22528958 TGGAAAACGC
Statistics
Matches: 494, Mismatches: 52, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
113 3 0.01
114 399 0.81
115 92 0.19
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (114 bp):
CTGAGCATTAGCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCG
TTGGGCTTAAGAATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCC
Found at i:22530087 original size:6 final size:6
Alignment explanation
Indices: 22530076--22530126 Score: 81
Period size: 6 Copynumber: 9.0 Consensus size: 6
22530066 AATAATTATA
22530076 TATATT TATATT TATATT TATA-T T-TA-T TATATT TATATT TATATT
1 TATATT TATATT TATATT TATATT TATATT TATATT TATATT TATATT
22530121 TATATT
1 TATATT
22530127 AAATTACTAA
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
4 4 0.09
5 4 0.09
6 35 0.81
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TATATT
Found at i:22530111 original size:27 final size:28
Alignment explanation
Indices: 22530071--22530126 Score: 105
Period size: 27 Copynumber: 2.0 Consensus size: 28
22530061 TAAATAATAA
22530071 TTATATATATTTATATTTATATTTATAT
1 TTATATATATTTATATTTATATTTATAT
22530099 TTAT-TATATTTATATTTATATTTATAT
1 TTATATATATTTATATTTATATTTATAT
22530126 T
1 T
22530127 AAATTACTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 24 0.86
28 4 0.14
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (28 bp):
TTATATATATTTATATTTATATTTATAT
Found at i:22540487 original size:14 final size:14
Alignment explanation
Indices: 22540453--22540489 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
22540443 AGTTTGTTTC
22540453 TTTGAAAATGATTT
1 TTTGAAAATGATTT
**
22540467 TCGGAAAATGATTT
1 TTTGAAAATGATTT
22540481 TTTGAAAAT
1 TTTGAAAAT
22540490 AACTTACTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.38, C:0.03, G:0.16, T:0.43
Consensus pattern (14 bp):
TTTGAAAATGATTT
Found at i:22540981 original size:15 final size:15
Alignment explanation
Indices: 22540961--22541012 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
22540951 ACTACAAAAC
22540961 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
22540976 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
22540995 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
22541010 ATT
1 ATT
22541013 AATAAGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:22541063 original size:13 final size:14
Alignment explanation
Indices: 22541045--22541078 Score: 61
Period size: 13 Copynumber: 2.5 Consensus size: 14
22541035 ATATGAAGAA
22541045 TATTATTTAAAA-T
1 TATTATTTAAAATT
22541058 TATTATTTAAAATT
1 TATTATTTAAAATT
22541072 TATTATT
1 TATTATT
22541079 ATAATAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TATTATTTAAAATT
Found at i:22545812 original size:32 final size:32
Alignment explanation
Indices: 22545771--22545835 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
22545761 ATAAAAGCCG
22545771 AAGAGAAAAAACGATACTTATCTTGTTTATCT
1 AAGAGAAAAAACGATACTTATCTTGTTTATCT
22545803 AAGAGAAAAAACGATACTTATCTTGTTTATCT
1 AAGAGAAAAAACGATACTTATCTTGTTTATCT
22545835 A
1 A
22545836 TTCTTTCTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.34
Consensus pattern (32 bp):
AAGAGAAAAAACGATACTTATCTTGTTTATCT
Found at i:22548903 original size:63 final size:63
Alignment explanation
Indices: 22548804--22548936 Score: 257
Period size: 63 Copynumber: 2.1 Consensus size: 63
22548794 TCAGGTATTG
*
22548804 TTTTGTAAAATATCTATGCCCTCAAGCACGCTTCCAATCATTCAAAAGTTAACAGAGGAATTA
1 TTTTGTAAAATATCTATGCCCTCAAGCAAGCTTCCAATCATTCAAAAGTTAACAGAGGAATTA
22548867 TTTTGTAAAATATCTATGCCCTCAAGCAAGCTTCCAATCATTCAAAAGTTAACAGAGGAATTA
1 TTTTGTAAAATATCTATGCCCTCAAGCAAGCTTCCAATCATTCAAAAGTTAACAGAGGAATTA
22548930 TTTTGTA
1 TTTTGTA
22548937 GTTTTCTCCT
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
63 69 1.00
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.32
Consensus pattern (63 bp):
TTTTGTAAAATATCTATGCCCTCAAGCAAGCTTCCAATCATTCAAAAGTTAACAGAGGAATTA
Found at i:22562290 original size:18 final size:19
Alignment explanation
Indices: 22562255--22562290 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
22562245 TGTAATTGGG
*
22562255 TAAAATTTTATCTAATTAT
1 TAAAATTTTATATAATTAT
22562274 TAAAATTTTA-ATAATTA
1 TAAAATTTTATATAATTA
22562291 ATTTAATTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (19 bp):
TAAAATTTTATATAATTAT
Found at i:22567387 original size:42 final size:43
Alignment explanation
Indices: 22567340--22567421 Score: 130
Period size: 42 Copynumber: 1.9 Consensus size: 43
22567330 ATTTACAAGC
* *
22567340 CACACGGCTTGGACACATGCCCGTGCCCT-TGCTCGTGTGGTT
1 CACACGACTTGGACACATGCCCGTGCCCTCTGCTCATGTGGTT
*
22567382 CACACGACTTGGACACATGCCCGTGTCCTCTGCTCATGTG
1 CACACGACTTGGACACATGCCCGTGCCCTCTGCTCATGTG
22567422 TCTCACATGG
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
42 27 0.75
43 9 0.25
ACGTcount: A:0.15, C:0.34, G:0.26, T:0.26
Consensus pattern (43 bp):
CACACGACTTGGACACATGCCCGTGCCCTCTGCTCATGTGGTT
Found at i:22568814 original size:17 final size:17
Alignment explanation
Indices: 22568768--22568814 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 17
22568758 GGCCCTAAAC
*
22568768 AAAAACACAACA-CAAA
1 AAAAACCCAACAGCAAA
* *
22568784 AGAAACCCTA-AGCAAA
1 AAAAACCCAACAGCAAA
22568800 AAAAACCCAACAGCA
1 AAAAACCCAACAGCA
22568815 GCAGCCCCCA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
15 1 0.04
16 19 0.79
17 4 0.17
ACGTcount: A:0.64, C:0.28, G:0.06, T:0.02
Consensus pattern (17 bp):
AAAAACCCAACAGCAAA
Found at i:22570571 original size:11 final size:11
Alignment explanation
Indices: 22570551--22570597 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
22570541 GTCAAATTTT
22570551 TTTA-AAGAAA
1 TTTACAAGAAA
22570561 TTTACAAGAAA
1 TTTACAAGAAA
*
22570572 TCTACAAGAAAA
1 TTTACAAG-AAA
*
22570584 CTTTCCAAGAAA
1 -TTTACAAGAAA
22570596 TT
1 TT
22570598 GTAGGCCATA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
10 4 0.13
11 15 0.48
12 6 0.19
13 6 0.19
ACGTcount: A:0.51, C:0.13, G:0.09, T:0.28
Consensus pattern (11 bp):
TTTACAAGAAA
Found at i:22573711 original size:25 final size:25
Alignment explanation
Indices: 22573665--22573712 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
22573655 CCGGATAAGC
**
22573665 TTCTCGTTAATGGCTCTCAAGAGCT
1 TTCTCGTTAATGGCTCAAAAGAGCT
22573690 TTCT-GTTATATGGCTCAAAAGAG
1 TTCTCGTTA-ATGGCTCAAAAGAG
22573713 GGCTTCTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (25 bp):
TTCTCGTTAATGGCTCAAAAGAGCT
Found at i:22575554 original size:15 final size:15
Alignment explanation
Indices: 22575531--22575570 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
22575521 TAAGATATGA
22575531 ATTGAATTGAATTGT
1 ATTGAATTGAATTGT
* *
22575546 ATTGTATTGTATTGT
1 ATTGAATTGAATTGT
*
22575561 ATTAAATTGA
1 ATTGAATTGA
22575571 GCTAAATTTA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (15 bp):
ATTGAATTGAATTGT
Found at i:22575699 original size:23 final size:22
Alignment explanation
Indices: 22575656--22575700 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
22575646 GTTAAATTGA
* **
22575656 ATTGTATGTATGTGATTGTATT
1 ATTGTATGTATATGAAAGTATT
22575678 ATTGTCATGTATATGAAAGTATT
1 ATTGT-ATGTATATGAAAGTATT
22575701 CACATATCCG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.29, C:0.02, G:0.20, T:0.49
Consensus pattern (22 bp):
ATTGTATGTATATGAAAGTATT
Found at i:22576105 original size:25 final size:25
Alignment explanation
Indices: 22575978--22576105 Score: 63
Period size: 25 Copynumber: 5.2 Consensus size: 25
22575968 GCTCTTCATG
* *
22575978 AGCTT-CTCGATTAAAGGCTCTTTGTG
1 AGCTTCCT-GATTAATGGCTCTTTG-A
* **
22576004 AGCTTCCTAATTAATGGCTCTCCGA
1 AGCTTCCTGATTAATGGCTCTTTGA
*
22576029 AGCTTCCCGA-T-ATGGCT-TGCTTGA
1 AGCTTCCTGATTAATGGCTCT--TTGA
* * * *
22576053 A-CTTCCCGA-TATATGACT-ATTCA
1 AGCTTCCTGATTA-ATGGCTCTTTGA
22576076 GAGCTTCCTGATTAATGGCTCTTTGA
1 -AGCTTCCTGATTAATGGCTCTTTGA
22576102 AGCT
1 AGCT
22576106 ACCCGTTATT
Statistics
Matches: 77, Mismatches: 16, Indels: 19
0.69 0.14 0.17
Matches are distributed among these distances:
22 1 0.01
23 18 0.23
24 5 0.06
25 29 0.38
26 22 0.29
27 2 0.03
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (25 bp):
AGCTTCCTGATTAATGGCTCTTTGA
Found at i:22576154 original size:73 final size:74
Alignment explanation
Indices: 22575957--22576158 Score: 194
Period size: 73 Copynumber: 2.7 Consensus size: 74
22575947 TTATGAGCAT
* * * * * *
22575957 CCCGTTATTTGGCTCTTCATGAGCTTCTCGATTAAAGGCTCTTTGTGAGCTTCCTAATTAATGGC
1 CCCGTTA-TTGGCTC-ACATGAGCTTCCCGATT-ATGGCTATTTATGAGCTTCCTGATTAATGGC
*
22576022 TCTCCGAAGCTT
63 TCTCCGAAGCTA
* ** * * * *
22576034 CCCGATA-TGGCTTGCTTGAACTTCCCGATATATGACTATTCA-GAGCTTCCTGATTAATGGCTC
1 CCCGTTATTGGCTCACATGAGCTTCCCGAT-TATGGCTATTTATGAGCTTCCTGATTAATGGCTC
**
22576097 TTTGAAGCTA
65 TCCGAAGCTA
*
22576107 CCCGTTATTGGCTCACATGAGCTTCCCGATTATGGCT-TTTATTAGCTTCCTG
1 CCCGTTATTGGCTCACATGAGCTTCCCGATTATGGCTATTTATGAGCTTCCTG
22576159 TTATACAGCT
Statistics
Matches: 99, Mismatches: 23, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
72 3 0.03
73 48 0.48
74 36 0.36
75 6 0.06
77 6 0.06
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.37
Consensus pattern (74 bp):
CCCGTTATTGGCTCACATGAGCTTCCCGATTATGGCTATTTATGAGCTTCCTGATTAATGGCTCT
CCGAAGCTA
Found at i:22583403 original size:5 final size:5
Alignment explanation
Indices: 22583393--22583417 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
22583383 GCCTAAGATG
22583393 TGAAT TGAAT TGAAT TGAAT TGAAT
1 TGAAT TGAAT TGAAT TGAAT TGAAT
22583418 AAAATATGAA
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:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (5 bp):
TGAAT
Found at i:22583634 original size:23 final size:22
Alignment explanation
Indices: 22583591--22583635 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
22583581 CTTAAATTAA
* **
22583591 ATTGTATGTATGTGATTGTATT
1 ATTGTATGTATATGAAAGTATT
22583613 ATTGTCATGTATATGAAAGTATT
1 ATTGT-ATGTATATGAAAGTATT
22583636 CACATATCCA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.29, C:0.02, G:0.20, T:0.49
Consensus pattern (22 bp):
ATTGTATGTATATGAAAGTATT
Found at i:22583967 original size:25 final size:26
Alignment explanation
Indices: 22583904--22583986 Score: 98
Period size: 25 Copynumber: 3.2 Consensus size: 26
22583894 TCCTTATATT
* *
22583904 GCTCTTCGTGAGCTTCCCGATTAAAT-
1 GCTCTTTGTGAGCTTCCCAATT-AATG
* * *
22583930 GATTTTTGTGAGCTTCCTAATTAATG
1 GCTCTTTGTGAGCTTCCCAATTAATG
22583956 GCTCTTTG-GAGCTTCCCAATTAATG
1 GCTCTTTGTGAGCTTCCCAATTAATG
22583981 GCTCTT
1 GCTCTT
22583987 AGGATCTACC
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
25 25 0.52
26 23 0.48
ACGTcount: A:0.19, C:0.22, G:0.19, T:0.40
Consensus pattern (26 bp):
GCTCTTTGTGAGCTTCCCAATTAATG
Found at i:22593010 original size:3 final size:3
Alignment explanation
Indices: 22593002--22593026 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
22592992 TACTATTGCT
22593002 TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC T
22593027 CTGCTGCATT
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:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:22599725 original size:23 final size:23
Alignment explanation
Indices: 22599699--22599796 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
22599689 ATAAGTGCCA
22599699 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
22599722 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
22599745 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
22599767 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
22599790 CACTGAT
1 CACTGAT
22599797 CAATAACACT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:22599764 original size:45 final size:45
Alignment explanation
Indices: 22599706--22599794 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
22599696 CCACACTGAT
* *
22599706 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
22599751 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
22599795 ATCAATAACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.19
Consensus pattern (45 bp):
ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:22607092 original size:23 final size:23
Alignment explanation
Indices: 22607066--22607163 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
22607056 ATAAGTGCCA
22607066 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
22607089 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
22607112 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
22607134 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
22607157 CACTGAT
1 CACTGAT
22607164 CAATAACACT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:22607131 original size:45 final size:45
Alignment explanation
Indices: 22607073--22607161 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
22607063 CCACACTGAT
* *
22607073 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
22607118 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
22607162 ATCAATAACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.19
Consensus pattern (45 bp):
ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:22617975 original size:5 final size:5
Alignment explanation
Indices: 22617965--22617992 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
22617955 ATACATAGAT
22617965 ATAAA ATAAA ATAAA ATAAA ATAAA ATA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATA
22617993 TACAACTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
ATAAA
Found at i:22621888 original size:32 final size:32
Alignment explanation
Indices: 22621841--22621909 Score: 84
Period size: 32 Copynumber: 2.2 Consensus size: 32
22621831 TTATTAAAAA
* * * * *
22621841 TGAACCTAGACAAATGGTTGTCTAGATATATC
1 TGAATCTAGACAAATGATTATCCAAATATATC
*
22621873 TGAATCTAGATAAATGATTATCCAAATATATC
1 TGAATCTAGACAAATGATTATCCAAATATATC
22621905 TGAAT
1 TGAAT
22621910 TTGGACACGC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.33
Consensus pattern (32 bp):
TGAATCTAGACAAATGATTATCCAAATATATC
Found at i:22622151 original size:2 final size:2
Alignment explanation
Indices: 22622144--22622177 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
22622134 CTTTTTAGTT
*
22622144 TA TA TA TA TA TA TA AA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
22622178 TTGTATATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:22622232 original size:12 final size:12
Alignment explanation
Indices: 22622215--22622239 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
22622205 TTCTAGTTCT
22622215 TTTATATATATA
1 TTTATATATATA
22622227 TTTATATATATA
1 TTTATATATATA
22622239 T
1 T
22622240 ATAATTTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TTTATATATATA
Found at i:22622674 original size:23 final size:23
Alignment explanation
Indices: 22622648--22622701 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
22622638 TGATTTTTAA
*
22622648 ATTTTGAATTATTTAGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
*
22622671 ATTTAGGATTATTTAGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
*
22622694 ACTTAGAA
1 ATTTAGAA
22622702 AAAATCTACC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.37, C:0.02, G:0.15, T:0.46
Consensus pattern (23 bp):
ATTTAGAATTATTTAGTGATAAT
Found at i:22622675 original size:13 final size:13
Alignment explanation
Indices: 22622657--22622699 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
22622647 AATTTTGAAT
22622657 TATTTAGTGATAA
1 TATTTAGTGATAA
22622670 TATTTAG-GAT--
1 TATTTAGTGATAA
22622680 TATTTAGTGATAA
1 TATTTAGTGATAA
*
22622693 TACTTAG
1 TATTTAG
22622700 AAAAAATCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
10 7 0.27
11 3 0.12
12 3 0.12
13 13 0.50
ACGTcount: A:0.35, C:0.02, G:0.16, T:0.47
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:22623600 original size:25 final size:23
Alignment explanation
Indices: 22623555--22623619 Score: 67
Period size: 25 Copynumber: 2.7 Consensus size: 23
22623545 TTATTTATCC
* *
22623555 ATTTATTTTATTTTCTATTTTTGA
1 ATTT-TTTTATTTTATTTTTTTGA
*
22623579 ATTTGTTTTTATTTTATTTTTTTGT
1 A-TT-TTTTTATTTTATTTTTTTGA
*
22623604 ATTTTCTTATTTTATT
1 ATTTTTTTATTTTATT
22623620 ATCTTAATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
23 12 0.34
24 3 0.09
25 19 0.54
26 1 0.03
ACGTcount: A:0.17, C:0.03, G:0.05, T:0.75
Consensus pattern (23 bp):
ATTTTTTTATTTTATTTTTTTGA
Found at i:22627248 original size:44 final size:43
Alignment explanation
Indices: 22627074--22627287 Score: 186
Period size: 43 Copynumber: 4.9 Consensus size: 43
22627064 CGTATAATAC
* * * * **
22627074 ATACAATGTCATATCTCAGATATGGTCTTACATGTTATCACAT
1 ATACGATGCCATATCCCAGATATGGTCTTACACGAAATCACAT
* *
22627117 AT-CGGTGCCAATAGCCCA-ACTATGGTCTTACACGAAATCACAT
1 ATACGATGCC-ATATCCCAGA-TATGGTCTTACACGAAATCACAT
* * *
22627160 A-ACGATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAT
1 ATACGATGCC-ATATCCCAGATATGGTCTTACACGAAATCACAT
* *
22627203 ATATCGATGTCATATCCCAGATATGGTCTTACAC-AAAGTCTCAT
1 ATA-CGATGCCATATCCCAGATATGGTCTTACACGAAA-TCACAT
* * *
22627247 ATAACGATGCCATAGCCCA-ACTATGATCTTATACGAAATCA
1 AT-ACGATGCCATATCCCAGA-TATGGTCTTACACGAAATCA
22627288 TGTAATGTCA
Statistics
Matches: 138, Mismatches: 23, Indels: 19
0.77 0.13 0.11
Matches are distributed among these distances:
42 5 0.04
43 67 0.49
44 56 0.41
45 10 0.07
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (43 bp):
ATACGATGCCATATCCCAGATATGGTCTTACACGAAATCACAT
Found at i:22641049 original size:23 final size:23
Alignment explanation
Indices: 22640979--22641064 Score: 110
Period size: 21 Copynumber: 4.0 Consensus size: 23
22640969 CCTGATCAGT
22640979 ATACGACACAT-AAGTGCCTGA-
1 ATACGACACATAAAGTGCCTGAG
** *
22641000 A-ACGACACACGAGGTGCCT--G
1 ATACGACACATAAAGTGCCTGAG
22641020 ATACGACACATAAAGTGCCTGAG
1 ATACGACACATAAAGTGCCTGAG
22641043 ATACGACACATAAAGTGCCTGA
1 ATACGACACATAAAGTGCCTGA
22641065 TCGGCAAAGC
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
20 9 0.16
21 23 0.42
23 23 0.42
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.16
Consensus pattern (23 bp):
ATACGACACATAAAGTGCCTGAG
Found at i:22641061 original size:44 final size:41
Alignment explanation
Indices: 22640979--22641065 Score: 120
Period size: 44 Copynumber: 2.0 Consensus size: 41
22640969 CCTGATCAGT
* *
22640979 ATACGACACATAAGTGCCTGAAACGACACACGAGGTGCCTG
1 ATACGACACATAAGTGCCTGAAACGACACACAAAGTGCCTG
*
22641020 ATACGACACATAAAGTGCCTGAGATACGACACATAAAGTGCCTG
1 ATACGACACAT-AAGTGCCTGA-A-ACGACACACAAAGTGCCTG
22641064 AT
1 AT
22641066 CGGCAAAGCC
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
41 11 0.28
42 10 0.25
43 1 0.03
44 18 0.45
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (41 bp):
ATACGACACATAAGTGCCTGAAACGACACACAAAGTGCCTG
Found at i:22641386 original size:3 final size:3
Alignment explanation
Indices: 22641378--22641409 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
22641368 TAATTCACAC
22641378 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
22641410 CTTACCTCAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:22642368 original size:14 final size:14
Alignment explanation
Indices: 22642312--22642359 Score: 87
Period size: 14 Copynumber: 3.4 Consensus size: 14
22642302 TATTTATATT
22642312 ATAATAATAATTTA
1 ATAATAATAATTTA
*
22642326 ATAATACTAATTTA
1 ATAATAATAATTTA
22642340 ATAATAATAATTTA
1 ATAATAATAATTTA
22642354 ATAATA
1 ATAATA
22642360 TTTTTTTAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (14 bp):
ATAATAATAATTTA
Found at i:22647455 original size:15 final size:16
Alignment explanation
Indices: 22647435--22647468 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
22647425 TCTTATGAAT
22647435 TTTATA-ATTTTAAAA
1 TTTATATATTTTAAAA
*
22647450 TTTATATATTTTAATA
1 TTTATATATTTTAAAA
22647466 TTT
1 TTT
22647469 CAGATAATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TTTATATATTTTAAAA
Found at i:22648110 original size:28 final size:28
Alignment explanation
Indices: 22648079--22648134 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
22648069 AATCTAATTA
*
22648079 AATA-AAAAAATATATTAACATTTATATT
1 AATATAAAAAAT-TAATAACATTTATATT
* *
22648107 AATATTAAAAATTAATGACATTTATATT
1 AATATAAAAAATTAATAACATTTATATT
22648135 TAATGTAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 18 0.75
29 6 0.25
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.41
Consensus pattern (28 bp):
AATATAAAAAATTAATAACATTTATATT
Found at i:22648199 original size:31 final size:29
Alignment explanation
Indices: 22648131--22648199 Score: 75
Period size: 31 Copynumber: 2.3 Consensus size: 29
22648121 ATGACATTTA
*
22648131 TATTTAATGTAATATTAATATAATTTTTT
1 TATTTAATATAATATTAATATAATTTTTT
* * *
22648160 AATATTAATATAAATATTATTATTAGTTTTTT
1 TAT-TTAATAT-AATATTAATA-TAATTTTTT
22648192 TATTTAAT
1 TATTTAAT
22648200 TAGATTTTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
29 2 0.06
30 6 0.19
31 14 0.44
32 10 0.31
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (29 bp):
TATTTAATATAATATTAATATAATTTTTT
Found at i:22654350 original size:29 final size:29
Alignment explanation
Indices: 22654289--22654350 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 29
22654279 TAACAAGGGT
* **
22654289 TCAAAAGGACACTCTCACTATCAGTTCTA
1 TCAAAAAGACACTCTCACTATCAGTTAAA
22654318 -CAAAAAGACACTCTCACTATCAGTTAAA
1 TCAAAAAGACACTCTCACTATCAGTTAAA
22654346 TCAAA
1 TCAAA
22654351 TAATACTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 25 0.86
29 4 0.14
ACGTcount: A:0.42, C:0.26, G:0.08, T:0.24
Consensus pattern (29 bp):
TCAAAAAGACACTCTCACTATCAGTTAAA
Found at i:22655138 original size:7 final size:7
Alignment explanation
Indices: 22655122--22655163 Score: 59
Period size: 7 Copynumber: 6.1 Consensus size: 7
22655112 CAGATGCACG
22655122 GGGAAAT
1 GGGAAAT
*
22655129 GGGGAAT
1 GGGAAAT
*
22655136 GGGGAA-
1 GGGAAAT
22655142 GGGAAAT
1 GGGAAAT
22655149 GGGAAAT
1 GGGAAAT
22655156 GGGAAAT
1 GGGAAAT
22655163 G
1 G
22655164 TATTTTAGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
6 5 0.16
7 27 0.84
ACGTcount: A:0.38, C:0.00, G:0.50, T:0.12
Consensus pattern (7 bp):
GGGAAAT
Found at i:22656258 original size:109 final size:105
Alignment explanation
Indices: 22656099--22656657 Score: 467
Period size: 98 Copynumber: 5.5 Consensus size: 105
22656089 AAGAAAAAGG
* *
22656099 AAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCTAGTAC------AAAAAAAAATTCT
1 AAAAAAAATTTTAGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAAAAATTCT
22656158 TTTTTTTCGTGTCAGAATCAGATATCAATATACGAAAAACGA
66 TTTTTTTCGTGTCAGAATCAGATATCAATATACGAAAAA--A
*
22656200 AAAAAAAATTTTAGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTTAAAAAAAAATTTC
1 AAAAAAAATTTTAGGTGCTGGCCTGTCAATGGCCGGCACCCAGTAC-AATTTAAAAAAAAAATTC
*
22656265 TTTTTTTTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAA
65 -TTTTTTTTCGTGTCAGAATCAGATATCAATATACG-AAAAAA
* * * * *
22656308 TAAAAAAAATTTTTGGGTGCTGGCCTTTAAATGGCCGACACCCAATACAATTT-AAAAAAAAA--
1 -AAAAAAAA-TTTTAGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAAAAATT
*
22656370 ------TTT-GTGTCAAAATCAGATATCAATATACGAAAAAA
64 CTTTTTTTTCGTGTCAGAATCAGATATCAATATACGAAAAAA
* ** *
22656405 ATTTAAAATTTCTTTTGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAA-TT-AAAAAAAAA-
1 A--AAAAAAAT-TTTAGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAAAAAT
* *
22656467 -------TTTCGTGTCAAAATCAGATATCAGTATACGAATAAAA
63 TCTTTTTTTTCGTGTCAGAATCAGATATCAATATACGAA-AAAA
** * * *
22656504 TTAAAAAATATATA--T--T----T-T--TTGGGCCGGCACCCAGTACAAATT--AAAAAAAATT
1 AAAAAAAAT-TTTAGGTGCTGGCCTGTCAAT-GGCCGGCACCCAGTACAATTTAAAAAAAAAATT
*
22656556 CTTTTTTTTTCGTGTCAGAATCAGATATCAGTATACGAAAAATATA
64 C-TTTTTTTTCGTGTCAGAATCAGATATCAATATACG-AAAA-A-A
* * *
22656602 AAAAAAAATTTTGGGTGCTGACCTGTCAATGGCCGGCACCCAGTACAATTTTAAAA
1 AAAAAAAATTTTAGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAA
22656658 CAATTTTTTT
Statistics
Matches: 380, Mismatches: 35, Indels: 78
0.77 0.07 0.16
Matches are distributed among these distances:
86 1 0.00
87 26 0.07
88 3 0.01
89 1 0.00
93 1 0.00
95 1 0.00
96 32 0.08
97 34 0.09
98 97 0.26
99 8 0.02
101 45 0.12
105 1 0.00
106 1 0.00
107 20 0.05
108 21 0.06
109 50 0.13
110 38 0.10
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (105 bp):
AAAAAAAATTTTAGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAAAAATTCT
TTTTTTTCGTGTCAGAATCAGATATCAATATACGAAAAAA
Found at i:22657012 original size:222 final size:220
Alignment explanation
Indices: 22656722--22657467 Score: 913
Period size: 222 Copynumber: 3.4 Consensus size: 220
22656712 TTTTTTTTTA
* * *
22656722 TTTTTTTCGTATACTGATATCTGATTTTGACATGAAAAAAAAAAGATTTTTTTTTAA-TTGTACT
1 TTTTTTTCGTATACTGATATCTGATTTTGACACGAAAAAAAAGA-ATTTTTTTTAAATTTGTACT
*
22656786 GGGTGTCGGCCATTGACAGGCCAGCACCCAAAAATTTTTTAAAATTTTTTTCGTATACTGATATC
65 GGGTGCCGGCCATTGACAGGCCAGCACCCAAAAATTTTTTAAAATTTTTTTCGTATACTGATATC
22656851 TGATTTTGACTCGAAAAAAAAAAGAAAGTTTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACA
130 TGATTTTGACTCG--AAAAAAAAGAAA-TTTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACA
22656916 GACCAGCACCCAAAAATTTTTTTAAAATT
192 GACCAGCACCCAAAAATTTTTTTAAAATT
22656945 TTTTTTTCGTATACTGATATCTGATTTTGACACGAAAAAAAAGAATTTTTTTTAAA-TTGTACTG
1 TTTTTTTCGTATACTGATATCTGATTTTGACACGAAAAAAAAGAATTTTTTTTAAATTTGTACTG
** * *** * *
22657009 GGTGCCGGCCATTGGTAGGCCAGCACCC-AAATTTTTTTTTTACTTTTTTCCTATACTGATATCT
66 GGTGCCGGCCATTGACAGGCCAGCACCCAAAAATTTTTTAAAATTTTTTTCGTATACTGATATCT
* *
22657073 GATTCTGACAT-GAAAAAAAAGAAA-TTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAAAC
131 GATTTTGAC-TCGAAAAAAAAGAAATTTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAGAC
*
22657136 CAGCACCCAAAAAATTTTTTTTACAA--
195 CAGCACCC-AAAAA-TTTTTTTAAAATT
*
22657162 TTTTTTTCGTATACTAATATCTGATTTTGACACGAAAAAACAAAGAATTTTTTTTTTAAATTTGT
1 TTTTTTTCGTATACTGATATCTGATTTTGACACG-AAAAA-AAAGAA--TTTTTTTTAAATTTGT
* *
22657227 ACTGGGTGCCGGCCATTGACAAGCCAGCACCCAAAAATATTTTTTAAAATTTTTTTTCGTATATT
62 ACTGGGTGCCGGCCATTGACAGGCCAGCACCC-AAAA-ATTTTTTAAAA-TTTTTTTCGTATACT
* * * * * *
22657292 AATATCTGATTTTGACACGAAAAAAATG-AATTTTTTTTAAAATTATATTGGGTGCCGGCCATTG
124 GATATCTGATTTTGACTCGAAAAAAAAGAAATTTTTTTTTAAATTGTACTGGGTGCCGGCCATTG
* * **
22657356 ACAGGCCAACA-CC--AAA-TTTTTT-ATTTT
189 ACAGACCAGCACCCAAAAATTTTTTTAAAATT
* * * *
22657383 TATTTTTTCGTATACTGATATTTGATTCTGACAC-------AA-ATTTTTTTTTAAATTTGTACC
1 T-TTTTTTCGTATACTGATATCTGATTTTGACACGAAAAAAAAGAATTTTTTTTAAATTTGTACT
*
22657440 GGGTGCCGGCCATTGATAGGCCAGCACC
65 GGGTGCCGGCCATTGACAGGCCAGCACC
22657468 AAATTTTTTT
Statistics
Matches: 460, Mismatches: 46, Indels: 47
0.83 0.08 0.08
Matches are distributed among these distances:
210 44 0.10
212 1 0.00
213 2 0.00
217 79 0.17
218 10 0.02
219 28 0.06
220 6 0.01
221 51 0.11
222 110 0.24
223 42 0.09
224 3 0.01
225 11 0.02
226 73 0.16
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.39
Consensus pattern (220 bp):
TTTTTTTCGTATACTGATATCTGATTTTGACACGAAAAAAAAGAATTTTTTTTAAATTTGTACTG
GGTGCCGGCCATTGACAGGCCAGCACCCAAAAATTTTTTAAAATTTTTTTCGTATACTGATATCT
GATTTTGACTCGAAAAAAAAGAAATTTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAGACC
AGCACCCAAAAATTTTTTTAAAATT
Found at i:22657289 original size:332 final size:329
Alignment explanation
Indices: 22656689--22657415 Score: 1106
Period size: 332 Copynumber: 2.2 Consensus size: 329
22656679 TCGTGTCAAA
* * *
22656689 ATTGATAGGCCAATATCCAAATTTTTTTTTTTATTTTTTTCGTATACTGATATCTGATTTTGACA
1 ATTGACAGGCCAACA-CCAAATTTTTTTTTTTA-TTTTTTCGTATACTGATATCTGATTCTGACA
* * **
22656754 TGAAAAAAAAAAGATTTTTTTTTAATTGTACTGGGTGTCGGCCATTGACAGGCCAGCACCCAAAA
64 TGAAAAAAAAAAGATTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAAACCAGCACCCAAAA
* *
22656819 ATTTTTTAAAATTTTTTTCGTATACTGATATCTGATTTTGACTCGAAAAAAAAAAGAAAGTTTTT
129 ATTTTTTAAAATTTTTTTCGTATACTAATATCTGATTTTGACACGAAAAAAAAAAGAAAGTTTTT
22656884 TTTTAAATTGTACTGGGTGCCGGCCATTGACAGACCAGCACCCAAAAATTTTTTTAAAATTTTTT
194 TTTTAAATTGTACTGGGTGCCGGCCATTGACAGACCAGCACCCAAAAATTTTTTTAAAATTTTTT
* *
22656949 TTTCGTATACTGATATCTGATTTTGACACGAAAAAAAAGAATTTTTTTT-AAATTGTACTGGGTG
259 TTTCGTATACTAATATCTGATTTTGACACGAAAAAAAAGAATTTTTTTTAAAATTATACTGGGTG
22657013 CCGGCC
324 CCGGCC
** * *
22657019 ATTGGTAGGCCAGCACCCAAA-TTTTTTTTTTACTTTTTTCCTATACTGATATCTGATTCTGACA
1 ATTGACAGGCCAACA-CCAAATTTTTTTTTTTA-TTTTTTCGTATACTGATATCTGATTCTGACA
22657083 TGAAAAAAAAGAA-ATTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAAACCAGCACCCAAA
64 TGAAAAAAAA-AAGATTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAAACCAGCACCC-AA
* * *
22657147 AAATTTTTTTTACAATTTTTTTCGTATACTAATATCTGATTTTGACACGAAAAAACAAAG-AATT
127 AAA--TTTTTTAAAATTTTTTTCGTATACTAATATCTGATTTTGACACGAAAAAAAAAAGAAAGT
22657211 TTTTTTTTAAATTTGTACTGGGTGCCGGCCATTGACA-AGCCAGCACCCAAAAATATTTTTTAAA
190 TTTTTTTTAAA-TTGTACTGGGTGCCGGCCATTGACAGA-CCAGCACCCAAAAAT-TTTTTTAAA
* *
22657275 A-TTTTTTTTCGTATATTAATATCTGATTTTGACACGAAAAAAATGAATTTTTTTTAAAATTATA
252 ATTTTTTTTTCGTATACTAATATCTGATTTTGACACGAAAAAAAAGAATTTTTTTTAAAATTATA
*
22657339 TTGGGTGCCGGCC
317 CTGGGTGCCGGCC
*
22657352 ATTGACAGGCCAACACCAAATTTTTTATTTTTATTTTTTCGTATACTGATATTTGATTCTGACA
1 ATTGACAGGCCAACACCAAATTTTTT-TTTTTATTTTTTCGTATACTGATATCTGATTCTGACA
22657416 CAAATTTTTT
Statistics
Matches: 361, Mismatches: 26, Indels: 17
0.89 0.06 0.04
Matches are distributed among these distances:
329 94 0.26
330 24 0.07
331 15 0.04
332 147 0.41
333 75 0.21
334 6 0.02
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (329 bp):
ATTGACAGGCCAACACCAAATTTTTTTTTTTATTTTTTCGTATACTGATATCTGATTCTGACATG
AAAAAAAAAAGATTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAAACCAGCACCCAAAAAT
TTTTTAAAATTTTTTTCGTATACTAATATCTGATTTTGACACGAAAAAAAAAAGAAAGTTTTTTT
TTAAATTGTACTGGGTGCCGGCCATTGACAGACCAGCACCCAAAAATTTTTTTAAAATTTTTTTT
TCGTATACTAATATCTGATTTTGACACGAAAAAAAAGAATTTTTTTTAAAATTATACTGGGTGCC
GGCC
Found at i:22657495 original size:16 final size:16
Alignment explanation
Indices: 22657474--22657504 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22657464 CACCAAATTT
22657474 TTTTTTTCATTTTTCA
1 TTTTTTTCATTTTTCA
*
22657490 TTTTTTTCCTTTTTC
1 TTTTTTTCATTTTTC
22657505 GTATATCAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.06, C:0.16, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTTTTCATTTTTCA
Found at i:22660443 original size:22 final size:22
Alignment explanation
Indices: 22660408--22660450 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
22660398 TATTAGTTAC
*
22660408 ATTTTAATTTTTAAT-AATTAT
1 ATTTTAAGTTTTAATGAATTAT
22660429 ATTTTACAGTTTTAATGAATTA
1 ATTTTA-AGTTTTAATGAATTA
22660451 ATTGAACTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 8 0.42
23 5 0.26
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (22 bp):
ATTTTAAGTTTTAATGAATTAT
Found at i:22663207 original size:69 final size:70
Alignment explanation
Indices: 22663132--22663261 Score: 192
Period size: 70 Copynumber: 1.9 Consensus size: 70
22663122 TATTAAAAAA
* * * * *
22663132 TATATTAAAATTTTTAAATTTGGTTATACTTAA-ATTTT-TTTAATATGTTTAAAATTTTAATAT
1 TATATTAAAA-ATTTAAAATTGGTTATACTCAACATTTTCTTTAACATATTTAAAATTTTAATAT
22663195 ATTAAG
65 ATTAAG
22663201 TATATTAAAAATTTAAAATTGGTTATACTCAACATTTTCTTTAACATATTTAAAATTTTAA
1 TATATTAAAAATTTAAAATTGGTTATACTCAACATTTTCTTTAACATATTTAAAATTTTAA
22663262 AATTTTTTAA
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
68 19 0.35
69 15 0.28
70 20 0.37
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.50
Consensus pattern (70 bp):
TATATTAAAAATTTAAAATTGGTTATACTCAACATTTTCTTTAACATATTTAAAATTTTAATATA
TTAAG
Found at i:22663288 original size:17 final size:16
Alignment explanation
Indices: 22663240--22663290 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 16
22663230 CAACATTTTC
22663240 TTTAACATATTTAAAAT
1 TTTAA-ATATTTAAAAT
*
22663257 TTTAAAATTTTTTAAAAT
1 TTT-AAA-TATTTAAAAT
22663275 TTTAAATATATTAAAA
1 TTTAAATAT-TTAAAA
22663291 AAAATTCTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
16 2 0.07
17 13 0.45
18 14 0.48
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (16 bp):
TTTAAATATTTAAAAT
Found at i:22663291 original size:18 final size:17
Alignment explanation
Indices: 22663240--22663290 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
22663230 CAACATTTTC
*
22663240 TTTAACATATTTAAAAT
1 TTTAAAATATTTAAAAT
*
22663257 TTTAAAATTTTTTAAAAT
1 TTTAAAA-TATTTAAAAT
22663275 TTT-AAATATATTAAAA
1 TTTAAAATAT-TTAAAA
22663291 AAAATTCTCT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 2 0.07
17 15 0.52
18 12 0.41
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (17 bp):
TTTAAAATATTTAAAAT
Found at i:22663343 original size:8 final size:8
Alignment explanation
Indices: 22663330--22663386 Score: 53
Period size: 8 Copynumber: 7.0 Consensus size: 8
22663320 ATTAAATATA
22663330 TTAAAATT
1 TTAAAATT
22663338 TTAAAA-T
1 TTAAAATT
* *
22663345 ATATATATT
1 TTA-AAATT
22663354 TTAAAAATT
1 TT-AAAATT
* *
22663363 TTAACATA
1 TTAAAATT
22663371 TTAAAATT
1 TTAAAATT
22663379 TTAAAATT
1 TTAAAATT
22663387 GATTATACTT
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
7 3 0.08
8 26 0.68
9 8 0.21
10 1 0.03
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (8 bp):
TTAAAATT
Found at i:22663360 original size:25 final size:25
Alignment explanation
Indices: 22663318--22663384 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 25
22663308 TTAAAAAAAT
*
22663318 ATATTAAATATATT-AAAATTTTAAA
1 ATATTAAA-ATTTTAAAAATTTTAAA
* *
22663343 ATA-TATATATTTTAAAAATTTTAAC
1 ATATTA-AAATTTTAAAAATTTTAAA
22663368 ATATTAAAATTTTAAAA
1 ATATTAAAATTTTAAAA
22663385 TTGATTATAC
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
24 6 0.17
25 27 0.77
26 2 0.06
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (25 bp):
ATATTAAAATTTTAAAAATTTTAAA
Found at i:22663375 original size:33 final size:31
Alignment explanation
Indices: 22663303--22663377 Score: 80
Period size: 33 Copynumber: 2.4 Consensus size: 31
22663293 AATTCTCTTT
*
22663303 ACATATTAAAA-AAATATATTAAATATATTA
1 ACATATTAAAATAAATATATTAAAAATATTA
* * * *
22663333 AAATTTTAAAATATATATATTTTAAAAATTTTA
1 ACATATTAAAATA-A-ATATATTAAAAATATTA
22663366 ACATATTAAAAT
1 ACATATTAAAAT
22663378 TTTAAAATTG
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
30 9 0.26
31 1 0.03
32 1 0.03
33 24 0.69
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (31 bp):
ACATATTAAAATAAATATATTAAAAATATTA
Found at i:22663518 original size:165 final size:164
Alignment explanation
Indices: 22663202--22663517 Score: 429
Period size: 165 Copynumber: 1.9 Consensus size: 164
22663192 TATATTAAGT
*
22663202 ATATTAAAAATTTAAAATTGGTTATACTCAACATTTTCTTTAACATATTTAAAATTTTAAAATTT
1 ATATTAAAAATTTAAAATTGATTATACTCAACATTTTCTTTAACATATTTAAAATTTTAAAATTT
22663267 TTTAAAATTTTAAATATATTAAAAAAAATTCTCTTTACATATTAAAAAAATATATTAAATATATT
66 TTTAAAATTTTAAATATATTAAAAAAAATTCTCTTTACATATTAAAAAAATATATTAAATATATT
22663332 AAAATTTTAAAATATATATATTTTAAAAATTTTAAC
131 AAAATTTT--AATATATATATTTTAAAAATTTTAAC
* * * ** * *
22663368 ATATTAAAATTTTAAAATTGATTATACTTAACATTTT-TTTAATATATTTAATTTTTTTAAGTTT
1 ATATTAAAAATTTAAAATTGATTATACTCAACATTTTCTTTAACATATTTAAAATTTTAAAATTT
** * * * *
22663432 TTTAAAATTTTAAATATATTAAGAAAACCTTTTTTGACTTTACCTATTAAAAATATATATTAAGT
66 TTTAAAATTTTAAATATATTAA-AAAA--AATTCT--CTTTACATATTAAAAAAATATATTAAAT
22663497 ATATTAAAATTTTAA-ATATAT
126 ATATTAAAATTTTAATATATAT
22663518 TAAAATTTTA
Statistics
Matches: 131, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
165 44 0.34
166 38 0.29
167 6 0.05
168 5 0.04
170 38 0.29
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.47
Consensus pattern (164 bp):
ATATTAAAAATTTAAAATTGATTATACTCAACATTTTCTTTAACATATTTAAAATTTTAAAATTT
TTTAAAATTTTAAATATATTAAAAAAAATTCTCTTTACATATTAAAAAAATATATTAAATATATT
AAAATTTTAATATATATATTTTAAAAATTTTAAC
Found at i:22663537 original size:18 final size:17
Alignment explanation
Indices: 22663491--22663529 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
22663481 AAAATATATA
*
22663491 TTAAGTATATTAAAATT
1 TTAAATATATTAAAATT
22663508 TTAAATATATTAAAATT
1 TTAAATATATTAAAATT
22663525 TTAAA
1 TTAAA
22663530 ATTAATTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (17 bp):
TTAAATATATTAAAATT
Found at i:22663564 original size:20 final size:21
Alignment explanation
Indices: 22663531--22663570 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
22663521 AATTTTAAAA
*
22663531 TTAATTATACTTAATATTTTT
1 TTAATTATACTTAAAATTTTT
*
22663552 TTAA-TATATTTAAAATTTT
1 TTAATTATACTTAAAATTTT
22663571 AGAAAACTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (21 bp):
TTAATTATACTTAAAATTTTT
Found at i:22664416 original size:28 final size:28
Alignment explanation
Indices: 22664349--22664409 Score: 108
Period size: 28 Copynumber: 2.2 Consensus size: 28
22664339 AAAAATAACT
22664349 AAAATATTAT--AATTTTTTTATTTACC
1 AAAATATTATAAAATTTTTTTATTTACC
22664375 AAAATATTATAAAATTTTTTTATTTACC
1 AAAATATTATAAAATTTTTTTATTTACC
22664403 AAAATAT
1 AAAATAT
22664410 ATCAAAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
26 10 0.30
28 23 0.70
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (28 bp):
AAAATATTATAAAATTTTTTTATTTACC
Found at i:22664481 original size:27 final size:27
Alignment explanation
Indices: 22664451--22664502 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
22664441 GGCCAATCAC
22664451 ATTGGCGGCACCAAAGGTGCCAAAGAG
1 ATTGGCGGCACCAAAGGTGCCAAAGAG
*
22664478 ATTGGCGGCACCAATGGTGCCAAAG
1 ATTGGCGGCACCAAAGGTGCCAAAG
22664503 GACTAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.31, C:0.23, G:0.33, T:0.13
Consensus pattern (27 bp):
ATTGGCGGCACCAAAGGTGCCAAAGAG
Found at i:22664817 original size:18 final size:19
Alignment explanation
Indices: 22664788--22664924 Score: 136
Period size: 18 Copynumber: 7.2 Consensus size: 19
22664778 TCTAATTAAG
* *
22664788 TAATAACTCTATTTTAATT
1 TAATAACACTATTTTCATT
* *
22664807 TAATAA-ACTATTCTCGTT
1 TAATAACACTATTTTCATT
22664825 TAATAACTCACTCTATTTTCATT
1 TAATAA--CA--CTATTTTCATT
*
22664848 TAATAA-ACTATTCTCATT
1 TAATAACACTATTTTCATT
* *
22664866 TAATAACTCTATTTTAATT
1 TAATAACACTATTTTCATT
*
22664885 TAATAA-ACTATTCTCATT
1 TAATAACACTATTTTCATT
*
22664903 TAATAACTCTATTTTCATT
1 TAATAACACTATTTTCATT
22664922 TAA
1 TAA
22664925 AATATAAAAT
Statistics
Matches: 96, Mismatches: 15, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
18 45 0.47
19 34 0.35
20 1 0.01
21 1 0.01
23 15 0.16
ACGTcount: A:0.36, C:0.15, G:0.01, T:0.48
Consensus pattern (19 bp):
TAATAACACTATTTTCATT
Found at i:22664829 original size:37 final size:37
Alignment explanation
Indices: 22664788--22664924 Score: 211
Period size: 37 Copynumber: 3.6 Consensus size: 37
22664778 TCTAATTAAG
*
22664788 TAATAACTCTATTTTAATTTAATAAACTATTCTCGTT
1 TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
*
22664825 TAATAACTCACTCTATTTTCATTTAATAAACTATTCTCATT
1 TAAT-A---ACTCTATTTTAATTTAATAAACTATTCTCATT
22664866 TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
1 TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
*
22664903 TAATAACTCTATTTTCATTTAA
1 TAATAACTCTATTTTAATTTAA
22664925 AATATAAAAT
Statistics
Matches: 92, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
37 56 0.61
38 1 0.01
40 1 0.01
41 34 0.37
ACGTcount: A:0.36, C:0.15, G:0.01, T:0.48
Consensus pattern (37 bp):
TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
Found at i:22665153 original size:19 final size:19
Alignment explanation
Indices: 22665131--22665194 Score: 85
Period size: 19 Copynumber: 3.4 Consensus size: 19
22665121 TAATTCTTTA
22665131 AAATTAAAATAGAGTTATT
1 AAATTAAAATAGAGTTATT
* * *
22665150 AAATGAGAATAG-TTTATT
1 AAATTAAAATAGAGTTATT
*
22665168 ATATTAAAATAGAGTTATT
1 AAATTAAAATAGAGTTATT
22665187 AAATTAAA
1 AAATTAAA
22665195 CTATTTTAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
18 14 0.39
19 22 0.61
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.38
Consensus pattern (19 bp):
AAATTAAAATAGAGTTATT
Found at i:22665558 original size:27 final size:27
Alignment explanation
Indices: 22665472--22665559 Score: 113
Period size: 27 Copynumber: 3.3 Consensus size: 27
22665462 CATTTTAGTC
*
22665472 CATTGGCACCATTGGTGCCGCCAATCA
1 CATTGGCACCATTGGTGCCGCCAATCT
22665499 CATTGGCACCATTGGTGCCGCCAATCT
1 CATTGGCACCATTGGTGCCGCCAATCT
** * * *
22665526 TTTTGGCACCTTTGATGCCGCCAATGT
1 CATTGGCACCATTGGTGCCGCCAATCT
*
22665553 GATTGGC
1 CATTGGC
22665560 CTGATCAGGC
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.18, C:0.30, G:0.24, T:0.28
Consensus pattern (27 bp):
CATTGGCACCATTGGTGCCGCCAATCT
Found at i:22665629 original size:27 final size:27
Alignment explanation
Indices: 22665599--22665652 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
22665589 CTGTTTTTTG
22665599 TTTTTTTGAT-ATATTTTAATAAATAAA
1 TTTTTTT-ATAATATTTTAATAAATAAA
*
22665626 TTTTTTTATAATATTTTGATAAATAAA
1 TTTTTTTATAATATTTTAATAAATAAA
22665653 AAAATTATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 2 0.08
27 23 0.92
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.56
Consensus pattern (27 bp):
TTTTTTTATAATATTTTAATAAATAAA
Found at i:22670010 original size:29 final size:29
Alignment explanation
Indices: 22669976--22670031 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
22669966 AATAAAAATC
* *
22669976 ATAGGTTAATAGCTTATTTAACTACAAAA
1 ATAGGTTAAGAGCTTATTTAAATACAAAA
* *
22670005 ATAGGTTGAGGGCTTATTTAAATACAA
1 ATAGGTTAAGAGCTTATTTAAATACAA
22670032 TGTAGTGAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.34
Consensus pattern (29 bp):
ATAGGTTAAGAGCTTATTTAAATACAAAA
Found at i:22672711 original size:103 final size:104
Alignment explanation
Indices: 22672527--22672738 Score: 399
Period size: 103 Copynumber: 2.0 Consensus size: 104
22672517 CAGAGAAAAA
*
22672527 AAAAGACAGAATTTGAGCTTTTGAATGAATGAAACAAAAATGACAAAGTTTAATGATACACTCAT
1 AAAATACAGAATTTGAGCTTTTGAATGAATGAAACAAAAATGACAAAGTTTAATGATACACTCAT
22672592 AAACTCTATACAAGATGGAAA-CCCCCCCCCCCCCCCAG
66 AAACTCTATACAAGATGGAAATCCCCCCCCCCCCCCCAG
22672630 AAAATACAGAATTTGAGCTTTTGAATGAATGAAACAAAAATGACAAAGTTTAATGATACACTCAT
1 AAAATACAGAATTTGAGCTTTTGAATGAATGAAACAAAAATGACAAAGTTTAATGATACACTCAT
*
22672695 AAACTCTATACAAGATGGAAATCCCCCCCCCCCTCCCAG
66 AAACTCTATACAAGATGGAAATCCCCCCCCCCCCCCCAG
22672734 AAAAT
1 AAAAT
22672739 TTGGGCACAG
Statistics
Matches: 106, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
103 85 0.80
104 21 0.20
ACGTcount: A:0.42, C:0.23, G:0.13, T:0.22
Consensus pattern (104 bp):
AAAATACAGAATTTGAGCTTTTGAATGAATGAAACAAAAATGACAAAGTTTAATGATACACTCAT
AAACTCTATACAAGATGGAAATCCCCCCCCCCCCCCCAG
Found at i:22676615 original size:3 final size:3
Alignment explanation
Indices: 22676609--22676636 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
22676599 ACTTAAATTT
22676609 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
22676637 ACCTTCCCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:22679932 original size:66 final size:65
Alignment explanation
Indices: 22679850--22680034 Score: 192
Period size: 66 Copynumber: 2.8 Consensus size: 65
22679840 GTTAGTAGCC
*
22679850 TCACACGGCCTAGCACACGGGCGTGTGGCTTGACCATGTAACACAAATCAGTATAAC-CTCCAAT
1 TCACACGGCCTAGCACACGGGCGTGTGGCTTG-CCATGTAACACAAATCAGTAT-ACTCACCAAT
22679914 TT
64 TT
* * * *** * * *
22679916 TCACACGGCCTAGCACATGGGCATGTGGCTTGGCAGTGTCTTACAAGTCAGTATGCTCACCATTT
1 TCACACGGCCTAGCACACGGGCGTGTGGCTTGCCA-TGTAACACAAATCAGTATACTCACCAATT
22679981 T
65 T
* * * * *
22679982 TCACATGGCCTAGCACACGAGCGTGTAGCTTGGCCATGTGACCCAAATCAGTA
1 TCACACGGCCTAGCACACGGGCGTGTGGCTT-GCCATGTAACACAAATCAGTA
22680035 ATCTTACTAG
Statistics
Matches: 95, Mismatches: 21, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
65 3 0.03
66 89 0.94
67 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (65 bp):
TCACACGGCCTAGCACACGGGCGTGTGGCTTGCCATGTAACACAAATCAGTATACTCACCAATTT
Found at i:22682352 original size:23 final size:23
Alignment explanation
Indices: 22682321--22682396 Score: 134
Period size: 23 Copynumber: 3.3 Consensus size: 23
22682311 AGTGTTATTG
22682321 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
22682344 TTCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
22682367 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
22682390 ATCAGTG
1 ATCAGTG
22682397 TGGCACTTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:22698658 original size:18 final size:18
Alignment explanation
Indices: 22698626--22698697 Score: 69
Period size: 18 Copynumber: 4.1 Consensus size: 18
22698616 TTGGAGAACA
*
22698626 CGCAGTCTTGAGTGAGCT
1 CGCAGTTTTGAGTGAGCT
* *
22698644 TGCAGTTTTGGGTGAGCT
1 CGCAGTTTTGAGTGAGCT
*
22698662 CGCAGCTTT--GTAGAGCT
1 CGCAGTTTTGAGT-GAGCT
*
22698679 CGCACTTTTG-GTGAGCT
1 CGCAGTTTTGAGTGAGCT
22698696 CG
1 CG
22698698 TAGTCTTGCA
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
16 2 0.04
17 19 0.42
18 24 0.53
ACGTcount: A:0.14, C:0.21, G:0.33, T:0.32
Consensus pattern (18 bp):
CGCAGTTTTGAGTGAGCT
Found at i:22698688 original size:17 final size:17
Alignment explanation
Indices: 22698595--22698697 Score: 70
Period size: 17 Copynumber: 5.9 Consensus size: 17
22698585 GAGACTTCGT
*
22698595 AGCTTTGATGAGCTCGC
1 AGCTTTGGTGAGCTCGC
* * *
22698612 A-CTATTGGAGAACACGC
1 AGCT-TTGGTGAGCTCGC
*
22698629 AG-TCTTGAGTGAGCTTGC
1 AGCT-TTG-GTGAGCTCGC
*
22698647 AGTTTTGGGTGAGCTCGC
1 AGCTTT-GGTGAGCTCGC
22698665 AGCTTT-GTAGAGCTCGC
1 AGCTTTGGT-GAGCTCGC
22698682 A-CTTTTGGTGAGCTCG
1 AGC-TTTGGTGAGCTCG
22698698 TAGTCTTGCA
Statistics
Matches: 67, Mismatches: 11, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
16 5 0.07
17 34 0.51
18 26 0.39
19 2 0.03
ACGTcount: A:0.18, C:0.20, G:0.31, T:0.30
Consensus pattern (17 bp):
AGCTTTGGTGAGCTCGC
Found at i:22698697 original size:34 final size:34
Alignment explanation
Indices: 22698571--22698697 Score: 98
Period size: 34 Copynumber: 3.7 Consensus size: 34
22698561 TCACCTAACA
* *
22698571 AGCTTGCACTTTTGGAGA-CTTCGTAGCTTTG-ATG
1 AGCTCGCACTTTTGGAGAGC-TCGCAGCTTTGTA-G
* * * *
22698605 AGCTCGCACTATTGGAGAACACGCAGTCTTGAGT-G
1 AGCTCGCACTTTTGGAGAGCTCGCAG-CTT-TGTAG
* * *
22698640 AGCTTGCAGTTTTGGGTGAGCTCGCAGCTTTGTAG
1 AGCTCGCACTTTT-GGAGAGCTCGCAGCTTTGTAG
*
22698675 AGCTCGCACTTTTGGTGAGCTCG
1 AGCTCGCACTTTTGGAGAGCTCG
22698698 TAGTCTTGCA
Statistics
Matches: 73, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
34 32 0.44
35 30 0.41
36 11 0.15
ACGTcount: A:0.18, C:0.20, G:0.30, T:0.31
Consensus pattern (34 bp):
AGCTCGCACTTTTGGAGAGCTCGCAGCTTTGTAG
Found at i:22706937 original size:19 final size:19
Alignment explanation
Indices: 22706913--22706949 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
22706903 AATGAAATCC
22706913 ATTTTTAAAAAATAAAATT
1 ATTTTTAAAAAATAAAATT
*
22706932 ATTTTTAGAAAATAAAAT
1 ATTTTTAAAAAATAAAAT
22706950 AAAAAATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (19 bp):
ATTTTTAAAAAATAAAATT
Found at i:22708504 original size:11 final size:11
Alignment explanation
Indices: 22708484--22708513 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
22708474 ATTTTTTTAA
22708484 AAAAAGTATTTT
1 AAAAA-TATTTT
22708496 AAAAATATTTT
1 AAAAATATTTT
22708507 AAAAATA
1 AAAAATA
22708514 AAAAAATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:22710716 original size:28 final size:28
Alignment explanation
Indices: 22710666--22710721 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
22710656 ATACATGTTA
* * *
22710666 TTAATTGTGTTACTACCTTCATGGTATT
1 TTAATCGTGTTACTACCTCCATGATATT
*
22710694 TTAATCGTGTTACTATCTCCATGATATT
1 TTAATCGTGTTACTACCTCCATGATATT
22710722 AATTGTGCAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.23, C:0.16, G:0.12, T:0.48
Consensus pattern (28 bp):
TTAATCGTGTTACTACCTCCATGATATT
Found at i:22713100 original size:18 final size:18
Alignment explanation
Indices: 22713077--22713114 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
22713067 TGCCAAGTGC
* *
22713077 GTATCCTATCCCTTTTAT
1 GTATCCTAACCCTTATAT
22713095 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
22713113 GT
1 GT
22713115 TTCATTTTCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.26, G:0.08, T:0.45
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:22713706 original size:27 final size:27
Alignment explanation
Indices: 22713665--22713754 Score: 74
Period size: 33 Copynumber: 3.1 Consensus size: 27
22713655 CCCTAACCCT
*
22713665 AACCC-AACCCTAACCTTTAACTTAAA
1 AACCCTAACCATAACCTTTAACTTAAA
*
22713691 AACCCTAACTATAACCCTAACCATTAACTTAAA
1 AACCCTAACCATAA-CCT-----TTAACTTAAA
* * *
22713724 AACTCTAACCCTAACCCTTAACTTAAA
1 AACCCTAACCATAACCTTTAACTTAAA
22713751 AACC
1 AACC
22713755 TTTAACTTAA
Statistics
Matches: 50, Mismatches: 7, Indels: 13
0.71 0.10 0.19
Matches are distributed among these distances:
26 5 0.10
27 19 0.38
28 3 0.06
32 2 0.04
33 21 0.42
ACGTcount: A:0.43, C:0.33, G:0.00, T:0.23
Consensus pattern (27 bp):
AACCCTAACCATAACCTTTAACTTAAA
Found at i:22713711 original size:33 final size:29
Alignment explanation
Indices: 22713670--22713754 Score: 102
Period size: 27 Copynumber: 2.9 Consensus size: 29
22713660 ACCCTAACCC
*
22713670 AACCCTAACCTTTAACTTAAAAACCCTAACTAT
1 AACCCTAACCATTAACTTAAAAACCCT--C--T
22713703 AACCCTAACCATTAACTTAAAAA--CTCT
1 AACCCTAACCATTAACTTAAAAACCCTCT
*
22713730 AACCCTAACCCTTAACTTAAAAACC
1 AACCCTAACCATTAACTTAAAAACC
22713755 TTTAACTTAA
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
27 23 0.48
29 1 0.02
31 2 0.04
33 22 0.46
ACGTcount: A:0.44, C:0.32, G:0.00, T:0.25
Consensus pattern (29 bp):
AACCCTAACCATTAACTTAAAAACCCTCT
Found at i:22713766 original size:14 final size:15
Alignment explanation
Indices: 22713736--22713768 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
22713726 CTCTAACCCT
22713736 AACCCTTAACTTAAA
1 AACCCTTAACTTAAA
*
22713751 AACCTTTAACTTAAA
1 AACCCTTAACTTAAA
22713766 AAC
1 AAC
22713769 ACCAAAACCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.27
Consensus pattern (15 bp):
AACCCTTAACTTAAA
Found at i:22713852 original size:107 final size:107
Alignment explanation
Indices: 22713728--22713949 Score: 293
Period size: 107 Copynumber: 2.1 Consensus size: 107
22713718 CTTAAAAACT
* *
22713728 CTAACCCTAACCCTTAACTTAAAAACCTTTAACTTAAAAACACCAAAACCCTAACAAAAACCAAA
1 CTAACCCTAACCCTTAACTTAAAAACCCTTAAATTAAAAACACCAAAACCCTAACAAAAACCAAA
** * *
22713793 GCCCTGGCCCTAACCCTTAATTTAAAAATCCTAACCATAACC
66 GCCCTAACCCTAACCCTTAACTTAAAAACCCTAACCATAACC
* * **
22713835 CTAACTCC-AACCCTTAACTTAAAAACCCTTAAATTAATAACACTAAAACCCTAACAAAAACCCT
1 CTAAC-CCTAACCCTTAACTTAAAAACCCTTAAATTAAAAACACCAAAACCCTAACAAAAACCAA
** ** *
22713899 AGCCCTAATTCTAACCCTTAACTTATTAACCCTAACCCTAACC
65 AGCCCTAACCCTAACCCTTAACTTAAAAACCCTAACCATAACC
22713942 CTAACCCT
1 CTAACCCT
22713950 TAACTTAAAA
Statistics
Matches: 98, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
106 2 0.02
107 94 0.96
108 2 0.02
ACGTcount: A:0.42, C:0.34, G:0.02, T:0.23
Consensus pattern (107 bp):
CTAACCCTAACCCTTAACTTAAAAACCCTTAAATTAAAAACACCAAAACCCTAACAAAAACCAAA
GCCCTAACCCTAACCCTTAACTTAAAAACCCTAACCATAACC
Found at i:22713936 original size:6 final size:6
Alignment explanation
Indices: 22713925--22713949 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
22713915 CTTAACTTAT
22713925 TAACCC TAACCC TAACCC TAACCC T
1 TAACCC TAACCC TAACCC TAACCC T
22713950 TAACTTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.48, G:0.00, T:0.20
Consensus pattern (6 bp):
TAACCC
Found at i:22713938 original size:33 final size:33
Alignment explanation
Indices: 22713893--22713956 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
22713883 CCCTAACAAA
* **
22713893 AACCCTAGCCCTAATTCTAACCCTTAACTTATT
1 AACCCTAACCCTAACCCTAACCCTTAACTTATT
22713926 AACCCTAACCCTAACCCTAACCCTTAACTTA
1 AACCCTAACCCTAACCCTAACCCTTAACTTA
22713957 AAAACATCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.33, C:0.38, G:0.02, T:0.28
Consensus pattern (33 bp):
AACCCTAACCCTAACCCTAACCCTTAACTTATT
Found at i:22713998 original size:18 final size:18
Alignment explanation
Indices: 22713965--22713999 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
22713955 TAAAAACATC
**
22713965 AAAACCCTAATGCTAACA
1 AAAACCCTAACCCTAACA
22713983 AAAACCCTAACCCTAAC
1 AAAACCCTAACCCTAAC
22714000 CCTAATATGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.34, G:0.03, T:0.14
Consensus pattern (18 bp):
AAAACCCTAACCCTAACA
Found at i:22714059 original size:35 final size:36
Alignment explanation
Indices: 22714019--22714181 Score: 102
Period size: 35 Copynumber: 4.4 Consensus size: 36
22714009 ATATAATTTG
22714019 ATAATTTTACTAACAATTAATATAATTA-ACAATTA
1 ATAATTTTACTAACAATTAATATAATTACACAATTA
* * * *
22714054 ATAATTTGACTAACAA--AATGTTAGATTTTACAAAATGTT
1 ATAATTTTACTAACAATTAAT-ATA-A--TTACACAAT-TA
* * ** * * * *
22714093 TTGACTGGTACTAACAATTAATA-ATTTGATATAATTTG
1 AT-AATTTTACTAACAATTAATATAATT-ACACAA-TTA
*
22714131 ATAATTTTACTAACAATTAATACAATTA-ACAATTA
1 ATAATTTTACTAACAATTAATATAATTACACAATTA
22714166 ATAATTTTACTAACAA
1 ATAATTTTACTAACAA
22714182 AATGTTAGAT
Statistics
Matches: 95, Mismatches: 21, Indels: 24
0.68 0.15 0.17
Matches are distributed among these distances:
33 3 0.03
34 2 0.02
35 34 0.36
36 3 0.03
37 23 0.24
38 13 0.14
39 3 0.03
40 11 0.12
42 3 0.03
ACGTcount: A:0.46, C:0.09, G:0.06, T:0.39
Consensus pattern (36 bp):
ATAATTTTACTAACAATTAATATAATTACACAATTA
Found at i:22714067 original size:19 final size:19
Alignment explanation
Indices: 22714019--22714069 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 19
22714009 ATATAATTTG
*
22714019 ATAATTTTACTAACAATTA
1 ATAATTTAACTAACAATTA
*
22714038 AT-A--TAATTAACAATTA
1 ATAATTTAACTAACAATTA
*
22714054 ATAATTTGACTAACAA
1 ATAATTTAACTAACAA
22714070 AATGTTAGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 6
0.71 0.11 0.17
Matches are distributed among these distances:
16 13 0.52
17 1 0.04
18 1 0.04
19 10 0.40
ACGTcount: A:0.51, C:0.10, G:0.02, T:0.37
Consensus pattern (19 bp):
ATAATTTAACTAACAATTA
Found at i:22714207 original size:112 final size:110
Alignment explanation
Indices: 22714002--22714239 Score: 395
Period size: 112 Copynumber: 2.1 Consensus size: 110
22713992 ACCCTAACCC
* *
22714002 TAATATGATATAATTTGATAATTTTACTAACAATTAATATAATTAACAATTAATAATTTGACTAA
1 TAATTTGATATAATTTGATAATTTTACTAACAATTAATACAATTAACAATTAATAATTTGACTAA
* * *
22714067 CAAAATGTTAGATTTTACAAAATGTTTTGACTGGTACTAACAATTAA
66 CAAAATGTTAGATTTTACAAAATATTTTGACTGGTAC-AAAAAAT-A
*
22714114 TAATTTGATATAATTTGATAATTTTACTAACAATTAATACAATTAACAATTAATAATTTTACTAA
1 TAATTTGATATAATTTGATAATTTTACTAACAATTAATACAATTAACAATTAATAATTTGACTAA
*
22714179 CAAAATGTTAGATTTTACAAAATATTTTGATTGGTACAAAAAATA
66 CAAAATGTTAGATTTTACAAAATATTTTGACTGGTACAAAAAATA
22714224 TAATTTGATATAATTT
1 TAATTTGATATAATTT
22714240 TAATAACAAT
Statistics
Matches: 119, Mismatches: 7, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
110 17 0.14
111 5 0.04
112 97 0.82
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (110 bp):
TAATTTGATATAATTTGATAATTTTACTAACAATTAATACAATTAACAATTAATAATTTGACTAA
CAAAATGTTAGATTTTACAAAATATTTTGACTGGTACAAAAAATA
Found at i:22714253 original size:16 final size:16
Alignment explanation
Indices: 22714234--22714275 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
22714224 TAATTTGATA
22714234 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
22714250 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
22714266 TAGTTTTAAT
1 TAATTTTAAT
22714276 TTTAATAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:22714259 original size:22 final size:23
Alignment explanation
Indices: 22714249--22714298 Score: 75
Period size: 22 Copynumber: 2.2 Consensus size: 23
22714239 TTAATAACAA
* *
22714249 TTAATTTTAATAACAAT-TAGTT
1 TTAATTTTAATAAAAATATAATT
22714271 TTAATTTTAATAAAAATATAATT
1 TTAATTTTAATAAAAATATAATT
22714294 TTAAT
1 TTAAT
22714299 AAACCAGGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 16 0.64
23 9 0.36
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (23 bp):
TTAATTTTAATAAAAATATAATT
Found at i:22714792 original size:29 final size:29
Alignment explanation
Indices: 22714760--22714820 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
22714750 TTTAATAAAT
*
22714760 AAATACATATTCTTTA-TTTTTTAATTTTA
1 AAATAC-TATTATTTATTTTTTTAATTTTA
* *
22714789 AAATACTTTTATTTATTTTTTTTATTTTA
1 AAATACTATTATTTATTTTTTTAATTTTA
22714818 AAA
1 AAA
22714821 ATAATTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 7 0.25
29 21 0.75
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (29 bp):
AAATACTATTATTTATTTTTTTAATTTTA
Found at i:22714822 original size:30 final size:28
Alignment explanation
Indices: 22714772--22714828 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
22714762 ATACATATTC
*
22714772 TTTATTTTTTAATTTTAAAATACTTTTA
1 TTTATTTTTTAATTTTAAAATAATTTTA
*
22714800 TTTATTTTTTTTATTTTAAAAATAATTTT
1 TTTA-TTTTTTAATTTT-AAAATAATTTT
22714829 TTCGGTGTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.16
29 11 0.44
30 10 0.40
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (28 bp):
TTTATTTTTTAATTTTAAAATAATTTTA
Found at i:22717269 original size:44 final size:44
Alignment explanation
Indices: 22717204--22717308 Score: 135
Period size: 44 Copynumber: 2.4 Consensus size: 44
22717194 GATTTAATTT
* * * *
22717204 TTAAATTTTTAGTTT-AA-TAGATTTCTAGATCTTTTAGCTGAA
1 TTAAGTTTTAAGTTTAAATTAGATTTCTAAATCTTTTAGCTCAA
*
22717246 TTAAGTTTTAAGTTTAAATTAGATTTTTAAATCTTTTAGCTCAA
1 TTAAGTTTTAAGTTTAAATTAGATTTCTAAATCTTTTAGCTCAA
22717290 TTAGAG-TTTAAGTTTAAAT
1 TTA-AGTTTTAAGTTTAAAT
22717309 CTTTAATTTA
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
42 13 0.24
43 2 0.04
44 38 0.69
45 2 0.04
ACGTcount: A:0.33, C:0.06, G:0.11, T:0.50
Consensus pattern (44 bp):
TTAAGTTTTAAGTTTAAATTAGATTTCTAAATCTTTTAGCTCAA
Found at i:22718674 original size:24 final size:24
Alignment explanation
Indices: 22718645--22718692 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
22718635 TTTGAAATTC
*
22718645 TCTCGAATCGAGTCGAGTGAAATG
1 TCTCGAATCAAGTCGAGTGAAATG
*
22718669 TCTCGAATCAAGTTGAGTGAAATG
1 TCTCGAATCAAGTCGAGTGAAATG
22718693 GAATTCTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (24 bp):
TCTCGAATCAAGTCGAGTGAAATG
Found at i:22720641 original size:21 final size:23
Alignment explanation
Indices: 22720599--22720644 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 23
22720589 AGTATAAATA
22720599 CCCCCTTTTTATGTGTAATTTGC
1 CCCCCTTTTTATGTGTAATTTGC
*
22720622 CCCCCTTTTT-TG-GTATTTTGC
1 CCCCCTTTTTATGTGTAATTTGC
22720643 CC
1 CC
22720645 TTAATAATAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 10 0.45
22 2 0.09
23 10 0.45
ACGTcount: A:0.09, C:0.30, G:0.13, T:0.48
Consensus pattern (23 bp):
CCCCCTTTTTATGTGTAATTTGC
Found at i:22721709 original size:18 final size:18
Alignment explanation
Indices: 22721683--22721741 Score: 59
Period size: 18 Copynumber: 3.2 Consensus size: 18
22721673 AAGGGTTAAT
*
22721683 TTTATTTTTTA-AATATTA
1 TTTAATTTTTATAAT-TTA
22721701 TTTAATTTTTATAATTTAA
1 TTTAATTTTTATAATTT-A
*
22721720 TTAATATTTTTATAATTT-
1 TTTA-ATTTTTATAATTTA
22721738 TTTA
1 TTTA
22721742 TAATAGTCGG
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
18 15 0.43
19 7 0.20
20 13 0.37
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTAATTTTTATAATTTA
Found at i:22722681 original size:7 final size:7
Alignment explanation
Indices: 22722666--22722703 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
22722656 AACATAGTCG
*
22722666 ATTTCGT
1 ATTTAGT
22722673 ATTTAGT
1 ATTTAGT
22722680 ATTTAGT
1 ATTTAGT
22722687 ATTTAGT
1 ATTTAGT
22722694 ATTTAGT
1 ATTTAGT
22722701 ATT
1 ATT
22722704 ATGTATATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.26, C:0.03, G:0.13, T:0.58
Consensus pattern (7 bp):
ATTTAGT
Found at i:22732974 original size:13 final size:12
Alignment explanation
Indices: 22732942--22732978 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
22732932 GTTTTGATTA
*
22732942 GTTGAAAAGGAT
1 GTTGAAAAAGAT
22732954 GTTGAAAAAGAT
1 GTTGAAAAAGAT
22732966 GTTGAAAAAGAT
1 GTTGAAAAAGAT
22732978 G
1 G
22732979 GGTGCACCGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.46, C:0.00, G:0.30, T:0.24
Consensus pattern (12 bp):
GTTGAAAAAGAT
Found at i:22736172 original size:42 final size:42
Alignment explanation
Indices: 22736039--22736172 Score: 126
Period size: 42 Copynumber: 3.2 Consensus size: 42
22736029 TTAACTCATA
* * * *
22736039 TGAGTTTCCGTTTAACCCTAATGGGTTTTTCTTTAGCTCTTT
1 TGAGCTTCCGTTTAACCCTTATGGGTTTCTATTTAGCTCTTT
* * * * * * * *
22736081 TGAGCTT-CATTTCAACCGTTAAGGGTTTCCATTCAACTCCTA
1 TGAGCTTCCGTTT-AACCCTTATGGGTTTCTATTTAGCTCTTT
*
22736123 TGAGCTTCCGTTTAACCCTTATGGGTTTCTATTTAGCACTTT
1 TGAGCTTCCGTTTAACCCTTATGGGTTTCTATTTAGCTCTTT
*
22736165 TGTGCTTC
1 TGAGCTTC
22736173 TATGCAACCT
Statistics
Matches: 68, Mismatches: 22, Indels: 4
0.72 0.23 0.04
Matches are distributed among these distances:
41 4 0.06
42 60 0.88
43 4 0.06
ACGTcount: A:0.17, C:0.22, G:0.16, T:0.44
Consensus pattern (42 bp):
TGAGCTTCCGTTTAACCCTTATGGGTTTCTATTTAGCTCTTT
Found at i:22737960 original size:3 final size:3
Alignment explanation
Indices: 22737952--22737999 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
22737942 TAGACTGAGG
*
22737952 GAA GAA GAA GAA GAA GAA AAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
22738000 ATTTGGAGGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
GAA
Done.