Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 86 of 187
Found at i:25178167 original size:11 final size:11
Alignment explanation
Indices: 25178144--25178176 Score: 57
Period size: 11 Copynumber: 2.9 Consensus size: 11
25178134 TTTTTAATCC
25178144 ATTATTATTATT
1 ATTATT-TTATT
25178156 ATTATTTTATT
1 ATTATTTTATT
25178167 ATTATTTTAT
1 ATTATTTTAT
25178177 ATTCTAAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 15 0.71
12 6 0.29
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (11 bp):
ATTATTTTATT
Found at i:25178251 original size:12 final size:12
Alignment explanation
Indices: 25178234--25178276 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
25178224 TTAAAATAAA
*
25178234 TTAATACTTATC
1 TTAATACTTATT
25178246 TTAATACATTATT
1 TTAATAC-TTATT
25178259 TCTAATA-TTATT
1 T-TAATACTTATT
25178271 TTAATA
1 TTAATA
25178277 TTTAGCTTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
11 5 0.18
12 13 0.46
13 5 0.18
14 5 0.18
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.53
Consensus pattern (12 bp):
TTAATACTTATT
Found at i:25179702 original size:25 final size:26
Alignment explanation
Indices: 25179651--25179702 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
25179641 TGCAAAGTAA
* *
25179651 ACATATTTGATATAAATTATATATAT
1 ACATATGTGATATAAAATATATATAT
25179677 ACATATGTG-TATAAAATAGTAT-TAT
1 ACATATGTGATATAAAATA-TATATAT
25179702 A
1 A
25179703 AGAGCATTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 12 0.52
26 11 0.48
ACGTcount: A:0.46, C:0.04, G:0.08, T:0.42
Consensus pattern (26 bp):
ACATATGTGATATAAAATATATATAT
Found at i:25185497 original size:24 final size:23
Alignment explanation
Indices: 25185437--25185500 Score: 67
Period size: 26 Copynumber: 2.6 Consensus size: 23
25185427 ATGTATGCAT
*
25185437 TATAAAGTATATAAAAATATATG
1 TATAAAGTATATAAAAATATAAG
25185460 TATACAAGGATATATAAATAA-ATAAG
1 TATA-AA-G-TATATAAA-AATATAAG
25185486 ATATAAAGTATATAA
1 -TATAAAGTATATAA
25185501 GTATGTATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
23 4 0.11
24 9 0.26
25 2 0.06
26 14 0.40
27 6 0.17
ACGTcount: A:0.58, C:0.02, G:0.09, T:0.31
Consensus pattern (23 bp):
TATAAAGTATATAAAAATATAAG
Found at i:25187394 original size:84 final size:86
Alignment explanation
Indices: 25187294--25187498 Score: 229
Period size: 87 Copynumber: 2.4 Consensus size: 86
25187284 TTTCTTTTGT
* **
25187294 CTGCTCCGCTACTGCTTAGGGAGATAAGACT-T-GATGCGATC-TGCTCCACTACTGCTTAGGGA
1 CTGCTCCACTACTGCTTAGGGAGATAAGACTGTGGATGAAATCAT-CTCCACTACTGCTTAGGGA
25187356 GATAAG-ATCTACAATCTTCGAC
65 GATAAGAATC-ACAATCTTCGAC
* * * * *
25187378 CTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGTTTAAATCATCTTCACTACTGTTTAGGGA
1 CTGCTCCACTACTGCTTAGGGAGATAAGACT-GTGGATGAAATCATCTCCACTACTGCTTAGGGA
* ** *
25187443 GATAAGAATCGCCGTCTTCGAT
65 GATAAGAATCACAATCTTCGAC
*
25187465 CTGCTCTACTACTGCTTAGGGAGATAAGATCTGT
1 CTGCTCCACTACTGCTTAGGGAGATAAGA-CTGT
25187499 CATCTTCAAT
Statistics
Matches: 101, Mismatches: 14, Indels: 9
0.81 0.11 0.07
Matches are distributed among these distances:
84 29 0.29
86 1 0.01
87 65 0.64
88 6 0.06
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.30
Consensus pattern (86 bp):
CTGCTCCACTACTGCTTAGGGAGATAAGACTGTGGATGAAATCATCTCCACTACTGCTTAGGGAG
ATAAGAATCACAATCTTCGAC
Found at i:25187397 original size:44 final size:44
Alignment explanation
Indices: 25187207--25187403 Score: 154
Period size: 44 Copynumber: 4.6 Consensus size: 44
25187197 TGGATGCGAT
* * * * *
25187207 CTGCTCTACTATTGTTTAGAGAGATAAGATCTACAATCTTCAAC
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCGAC
* * * * * **** * *
25187251 CTACTCCACTGCTTCTCAGGGAGATAGGAT-TGGTTTCTTTTG-T
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATC-TTCGAC
* ** * *
25187294 CTGCTCCGCTACTGCTTAGGGAGATAAGA-CT-TGA--TGCGAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCGAC
25187334 CTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCGAC
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCGAC
25187378 CTGCTCCACTACTGCTTAGGGAGATA
1 CTGCTCCACTACTGCTTAGGGAGATA
25187404 GGACTGGTGG
Statistics
Matches: 114, Mismatches: 32, Indels: 14
0.71 0.20 0.09
Matches are distributed among these distances:
39 2 0.02
40 29 0.25
41 2 0.02
42 1 0.01
43 27 0.24
44 53 0.46
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.31
Consensus pattern (44 bp):
CTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCGAC
Found at i:25187433 original size:127 final size:127
Alignment explanation
Indices: 25187184--25187496 Score: 360
Period size: 127 Copynumber: 2.4 Consensus size: 127
25187174 CTGTAACTTC
* * * *
25187184 AGGGAGATAAGACTGGATGCGATCTGCTCTACTATTGTTTAGAGAGATAAGATCTACAATCTTCA
1 AGGGAGATAAGACTCGATGCGATCTGCTCTACTACTGCTTAGGGAGATAAGATCTACAATCTTCA
* * * * *** *
25187249 ACCTACTCCACTGCTTCTCAGGGAGATAGGATTGGTTTCTTTTGTCTGCTCCGCTACTGCTT
66 ACCTACTCCACTACTGCTCAGGGAGATAGGACTGGTGTCTTAAATCTGCTCCACTACTGCTT
* * *
25187311 AGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCG
1 AGGGAGATAAGACTCGATGCGATCTGCTCTACTACTGCTTAGGGAGATAAGATCTACAATCTTCA
* * * *
25187376 ACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGT-TTAAATCAT-CTTCACTACTGTTT
66 ACCTACTCCACTACTGCTCAGGGAGATAGGACTGGT-GTCTTAAATC-TGCTCCACTACTGCTT
* * *
25187438 AGGGAGATAAGAATCGCCGTCTTCGATCTGCTCTACTACTGCTTAGGGAGATAAGATCT
1 AGGGAGATAAG-A-C-TCG-ATGCGATCTGCTCTACTACTGCTTAGGGAGATAAGATCT
25187497 GTCATCTTCA
Statistics
Matches: 157, Mismatches: 23, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
127 116 0.74
128 3 0.02
129 1 0.01
130 1 0.01
131 36 0.23
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (127 bp):
AGGGAGATAAGACTCGATGCGATCTGCTCTACTACTGCTTAGGGAGATAAGATCTACAATCTTCA
ACCTACTCCACTACTGCTCAGGGAGATAGGACTGGTGTCTTAAATCTGCTCCACTACTGCTT
Found at i:25187505 original size:44 final size:44
Alignment explanation
Indices: 25187293--25187510 Score: 193
Period size: 44 Copynumber: 5.1 Consensus size: 44
25187283 GTTTCTTTTG
* * *
25187293 TCTGCTCCGCTACTGCTTAGGGAGATAAGA-CT-TGA--TGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTCATCTTCGA
*
25187333 TCTGCTCCACTACTGCTTAGGGAGATAAGATCT-ACAATCTTCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTC-ATCTTCGA
* * ** **
25187377 CCTGCTCCACTACTGCTTAGGGAGATAGGA-CTGGTGGT-TTAAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCT-GTCATCTTCGA
* * * *
25187420 TCAT-CTTCACTACTGTTTAGGGAGATAAGAATC-GCCGTCTTCGA
1 TC-TGCTCCACTACTGCTTAGGGAGATAAG-ATCTGTCATCTTCGA
* *
25187464 TCTGCTCTACTACTGCTTAGGGAGATAAGATCTGTCATCTTCAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTCATCTTCGA
25187508 TCT
1 TCT
25187511 ATTCTCTGGG
Statistics
Matches: 141, Mismatches: 25, Indels: 20
0.76 0.13 0.11
Matches are distributed among these distances:
40 29 0.21
41 2 0.01
42 1 0.01
43 35 0.25
44 73 0.52
45 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.31
Consensus pattern (44 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTCATCTTCGA
Found at i:25188432 original size:108 final size:108
Alignment explanation
Indices: 25188259--25188480 Score: 275
Period size: 108 Copynumber: 2.1 Consensus size: 108
25188249 GAGAAATGGT
* * * *
25188259 TGAAAAAGATTATCAAAATGGAGAAGATGGAATTTAATTGAGAATAAGGCTCAAAATGAATAAAT
1 TGAAAAAGATTATCAAAATGGAGAAGATGAAATTTAACTGAGAACAAAGCTCAAAATGAATAAAT
* * *
25188324 TAATCAACATAGA-AAATTTAGCTAAGATTCAAAATGAATAAGA
66 TAATAAAAATA-ACAAATTTAGCTAAGATACAAAATGAATAAGA
* * * * * * *
25188367 TTAAAAGGATTATCACAATGGATAAGATGAAATTTTACTGATAACAAAGCTCGAAATGAATAAAT
1 TGAAAAAGATTATCAAAATGGAGAAGATGAAATTTAACTGAGAACAAAGCTCAAAATGAATAAAT
* * *
25188432 TAGTAAAAATAACAAATTTTGCTAAGATACAAAATGAATTAGA
66 TAATAAAAATAACAAATTTAGCTAAGATACAAAATGAATAAGA
25188475 TGAAAA
1 TGAAAA
25188481 CAGGTGCCCC
Statistics
Matches: 95, Mismatches: 18, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
107 1 0.01
108 94 0.99
ACGTcount: A:0.51, C:0.07, G:0.15, T:0.26
Consensus pattern (108 bp):
TGAAAAAGATTATCAAAATGGAGAAGATGAAATTTAACTGAGAACAAAGCTCAAAATGAATAAAT
TAATAAAAATAACAAATTTAGCTAAGATACAAAATGAATAAGA
Found at i:25199930 original size:24 final size:23
Alignment explanation
Indices: 25199870--25199933 Score: 67
Period size: 26 Copynumber: 2.6 Consensus size: 23
25199860 ATGTATGCAT
*
25199870 TATAAAGTATATAAAAATATATG
1 TATAAAGTATATAAAAATATAAG
25199893 TATACAAGGATATATAAATAA-ATAAG
1 TATA-AA-G-TATATAAA-AATATAAG
25199919 ATATAAAGTATATAA
1 -TATAAAGTATATAA
25199934 GTATGTATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
23 4 0.11
24 9 0.26
25 2 0.06
26 14 0.40
27 6 0.17
ACGTcount: A:0.58, C:0.02, G:0.09, T:0.31
Consensus pattern (23 bp):
TATAAAGTATATAAAAATATAAG
Found at i:25202860 original size:64 final size:64
Alignment explanation
Indices: 25202759--25202886 Score: 247
Period size: 64 Copynumber: 2.0 Consensus size: 64
25202749 AGATTAAAAT
25202759 TATCTAAATTTTGTTTAAAATCGAATTAAATTAATCGAATCGATTTAATTCGATTAATCAATTA
1 TATCTAAATTTTGTTTAAAATCGAATTAAATTAATCGAATCGATTTAATTCGATTAATCAATTA
*
25202823 TATCTAAATTTTGTTTAGAATCGAATTAAATTAATCGAATCGATTTAATTCGATTAATCAATTA
1 TATCTAAATTTTGTTTAAAATCGAATTAAATTAATCGAATCGATTTAATTCGATTAATCAATTA
25202887 ATTAATTGAT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 63 1.00
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.42
Consensus pattern (64 bp):
TATCTAAATTTTGTTTAAAATCGAATTAAATTAATCGAATCGATTTAATTCGATTAATCAATTA
Found at i:25217210 original size:72 final size:72
Alignment explanation
Indices: 25217132--25217275 Score: 279
Period size: 72 Copynumber: 2.0 Consensus size: 72
25217122 ATTATTTTTC
25217132 ACATATAAGTAATAAATTACATCTTATTAAAAATATTTCATATCATCCCTGTTAAATTTTTTAAC
1 ACATATAAGTAATAAATTACATCTTATTAAAAATATTTCATATCATCCCTGTTAAATTTTTTAAC
25217197 AGTACTT
66 AGTACTT
*
25217204 ACATATAAGTATTAAATTACATCTTATTAAAAATATTTCATATCATCCCTGTTAAATTTTTTAAC
1 ACATATAAGTAATAAATTACATCTTATTAAAAATATTTCATATCATCCCTGTTAAATTTTTTAAC
25217269 AGTACTT
66 AGTACTT
25217276 TCATCAAATC
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 71 1.00
ACGTcount: A:0.40, C:0.14, G:0.04, T:0.42
Consensus pattern (72 bp):
ACATATAAGTAATAAATTACATCTTATTAAAAATATTTCATATCATCCCTGTTAAATTTTTTAAC
AGTACTT
Found at i:25217278 original size:35 final size:35
Alignment explanation
Indices: 25217167--25217279 Score: 95
Period size: 35 Copynumber: 3.2 Consensus size: 35
25217157 ATTAAAAATA
25217167 TTTCATATCATCCCTGTTAAATTTTTTAACAGTAC
1 TTTCATATCATCCCTGTTAAATTTTTTAACAGTAC
* * ** * * * * *
25217202 TTACATATAAGT-ATTAAATTACATCTTATTAAAAATA-
1 TTTCATATCA-TCCCT--GTTAAAT-TTTTTAACAGTAC
25217239 TTTCATATCATCCCTGTTAAATTTTTTAACAGTAC
1 TTTCATATCATCCCTGTTAAATTTTTTAACAGTAC
25217274 TTTCAT
1 TTTCAT
25217280 CAAATCTGGA
Statistics
Matches: 54, Mismatches: 18, Indels: 12
0.64 0.21 0.14
Matches are distributed among these distances:
34 9 0.17
35 20 0.37
36 2 0.04
37 14 0.26
38 9 0.17
ACGTcount: A:0.35, C:0.16, G:0.04, T:0.45
Consensus pattern (35 bp):
TTTCATATCATCCCTGTTAAATTTTTTAACAGTAC
Found at i:25217567 original size:75 final size:75
Alignment explanation
Indices: 25217459--25217600 Score: 205
Period size: 75 Copynumber: 1.9 Consensus size: 75
25217449 TTTTTTATCA
* **** *
25217459 TTAAAGACTCAACGTGATATAATTTTTTCAAAAACTCAATTGATAATTAAGGGT-GTTTTAAACT
1 TTAAAGACTCAACATGATATAATTTAAAAAAAAACTCAATTGATAATTAAGGGTCCTTTT-AACT
25217523 CTTGAGTATAT
65 CTTGAGTATAT
*
25217534 TTAAAGACTCAACATGATATAATTTAAAAAAAAATTCAATTGATAATTAAGGGTCCTTTTAACTC
1 TTAAAGACTCAACATGATATAATTTAAAAAAAAACTCAATTGATAATTAAGGGTCCTTTTAACTC
25217599 TT
66 TT
25217601 AAGGATATAT
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
75 55 0.93
76 4 0.07
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.37
Consensus pattern (75 bp):
TTAAAGACTCAACATGATATAATTTAAAAAAAAACTCAATTGATAATTAAGGGTCCTTTTAACTC
TTGAGTATAT
Found at i:25218212 original size:19 final size:19
Alignment explanation
Indices: 25218176--25218214 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
25218166 GGTCTTTAGG
*
25218176 TGAAAGCAATTTGTGTTTT
1 TGAAAGCAATTTCTGTTTT
25218195 TGAAAG-AATTTCTGGTTTT
1 TGAAAGCAATTTCT-GTTTT
25218214 T
1 T
25218215 CTTTCTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.26, C:0.05, G:0.21, T:0.49
Consensus pattern (19 bp):
TGAAAGCAATTTCTGTTTT
Found at i:25218213 original size:18 final size:19
Alignment explanation
Indices: 25218176--25218213 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
25218166 GGTCTTTAGG
* *
25218176 TGAAAGCAATTTGTGTTTT
1 TGAAAGCAATTTCTGGTTT
25218195 TGAAAG-AATTTCTGGTTT
1 TGAAAGCAATTTCTGGTTT
25218213 T
1 T
25218214 TCTTTCTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.26, C:0.05, G:0.21, T:0.47
Consensus pattern (19 bp):
TGAAAGCAATTTCTGGTTT
Found at i:25221209 original size:31 final size:32
Alignment explanation
Indices: 25221173--25221237 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
25221163 CTTAGATAAT
25221173 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
25221204 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
25221236 TT
1 TT
25221238 GTAATTTGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 9 0.27
32 24 0.73
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.48
Consensus pattern (32 bp):
TTTAAAGAGTTTTTATTAGGATTCAATTACTC
Found at i:25229467 original size:18 final size:18
Alignment explanation
Indices: 25229444--25229478 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
25229434 TTGAAATGAT
25229444 AAAATAAATATATTATTA
1 AAAATAAATATATTATTA
* *
25229462 AAAATAATTTTATTATT
1 AAAATAAATATATTATT
25229479 TGTGTATTTT
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
AAAATAAATATATTATTA
Found at i:25230279 original size:18 final size:18
Alignment explanation
Indices: 25230258--25230298 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
25230248 TCAAGGGCAA
*
25230258 GAAGATGAAGATAATAGT
1 GAAGACGAAGATAATAGT
*
25230276 GAAGACGAAGATGATAGT
1 GAAGACGAAGATAATAGT
25230294 GAAGA
1 GAAGA
25230299 AGAGTTCAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.49, C:0.02, G:0.32, T:0.17
Consensus pattern (18 bp):
GAAGACGAAGATAATAGT
Found at i:25230280 original size:21 final size:20
Alignment explanation
Indices: 25230256--25230301 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 20
25230246 GTTCAAGGGC
*
25230256 AAGAAGATGAAGATAATAGT
1 AAGAAGACGAAGATAATAGT
*
25230276 --GAAGACGAAGATGATAGT
1 AAGAAGACGAAGATAATAGT
25230294 GAAGAAGA
1 -AAGAAGA
25230302 GTTCAATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 5
0.75 0.07 0.18
Matches are distributed among these distances:
18 16 0.76
21 5 0.24
ACGTcount: A:0.52, C:0.02, G:0.30, T:0.15
Consensus pattern (20 bp):
AAGAAGACGAAGATAATAGT
Found at i:25235681 original size:23 final size:23
Alignment explanation
Indices: 25235625--25235669 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
25235615 TTCTTCTATG
*
25235625 CAAGA-AAGATTAAAGGGTCTTT
1 CAAGAGAATATTAAAGGGTCTTT
25235647 CAAGAGAATATTAAAGGGTCTTT
1 CAAGAGAATATTAAAGGGTCTTT
25235670 TTAGGATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.29
Consensus pattern (23 bp):
CAAGAGAATATTAAAGGGTCTTT
Found at i:25245615 original size:18 final size:17
Alignment explanation
Indices: 25245594--25245643 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 17
25245584 GACTCAACAG
25245594 CTTCTTCTTCTTCTCCTT
1 CTTCTTCTTCTTCTCC-T
25245612 CTTCTTCTTCTTCCTCCT
1 CTTCTTCTTCTT-CTCCT
* *
25245630 CCTCATCTTCTTCT
1 CTTCTTCTTCTTCT
25245644 AACTCATCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 2 0.07
18 23 0.79
19 4 0.14
ACGTcount: A:0.02, C:0.42, G:0.00, T:0.56
Consensus pattern (17 bp):
CTTCTTCTTCTTCTCCT
Found at i:25245656 original size:3 final size:3
Alignment explanation
Indices: 25245594--25245643 Score: 55
Period size: 3 Copynumber: 16.7 Consensus size: 3
25245584 GACTCAACAG
* * * * *
25245594 CTT CTT CTT CTT CTC CTT CTT CTT CTT CTT CCT CCT CCT CAT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
25245642 CT
1 CT
25245644 AACTCATCTT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.02, C:0.42, G:0.00, T:0.56
Consensus pattern (3 bp):
CTT
Found at i:25252639 original size:25 final size:25
Alignment explanation
Indices: 25252611--25252691 Score: 76
Period size: 25 Copynumber: 3.2 Consensus size: 25
25252601 TAAACTCCTC
25252611 CGAGCTAAATATCGATAAGCTCATA
1 CGAGCTAAATATCGATAAGCTCATA
* *
25252636 CGAGCTGAATATCGGTAAGCTC-TCA
1 CGAGCTAAATATCGATAAGCTCAT-A
* * *
25252661 CAAGCTACAA-ATTGATAAGATCATA
1 CGAGCTA-AATATCGATAAGCTCATA
*
25252686 CTAGCT
1 CGAGCT
25252692 GTCGTGAGTC
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
24 1 0.02
25 41 0.91
26 3 0.07
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (25 bp):
CGAGCTAAATATCGATAAGCTCATA
Found at i:25254825 original size:16 final size:16
Alignment explanation
Indices: 25254792--25254837 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
25254782 AAAAACACAC
*
25254792 TTGTTTTAAATATAAG
1 TTGTTTTAAACATAAG
25254808 TTGTTTTAAACA-ACAG
1 TTGTTTTAAACATA-AG
*
25254824 TTGTTCTAAACATA
1 TTGTTTTAAACATA
25254838 GTTATTCCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 1 0.04
16 24 0.92
17 1 0.04
ACGTcount: A:0.37, C:0.09, G:0.11, T:0.43
Consensus pattern (16 bp):
TTGTTTTAAACATAAG
Found at i:25255529 original size:22 final size:20
Alignment explanation
Indices: 25255479--25255530 Score: 59
Period size: 22 Copynumber: 2.5 Consensus size: 20
25255469 AGCCCACTCA
25255479 TATTATTTTATTTTAATATT
1 TATTATTTTATTTTAATATT
* *
25255499 TAATAATTTTATATTTTATATT
1 T-ATTATTTTAT-TTTAATATT
25255521 TATTGATTTT
1 TATT-ATTTT
25255531 TTTATACACT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 1 0.04
21 11 0.42
22 14 0.54
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (20 bp):
TATTATTTTATTTTAATATT
Found at i:25262685 original size:9 final size:9
Alignment explanation
Indices: 25262673--25262807 Score: 69
Period size: 9 Copynumber: 14.4 Consensus size: 9
25262663 TTTCTATATA
25262673 TTTTATAAT
1 TTTTATAAT
*
25262682 TTTTATGAT
1 TTTTATAAT
*
25262691 TTTTATAAAA
1 TTTTAT-AAT
*
25262701 TTTTACAATT
1 TTTTATAA-T
25262711 TTTTATAATTT
1 TTTTATAA--T
*
25262722 TTTTCTAA-
1 TTTTATAAT
25262730 TTTT-TAAT
1 TTTTATAAT
*
25262738 TTTTAATATT
1 TTTT-ATAAT
*
25262748 TTTTATTAAAA
1 TTTTA-T-AAT
* *
25262759 TTTAATCAT
1 TTTTATAAT
*
25262768 TTTTATAAA
1 TTTTATAAT
*
25262777 TTTTATTGAT
1 TTTTA-TAAT
*
25262787 TTTT-TATT
1 TTTTATAAT
*
25262795 TTTTATCAT
1 TTTTATAAT
25262804 TTTT
1 TTTT
25262808 TGCCACATGT
Statistics
Matches: 94, Mismatches: 22, Indels: 20
0.69 0.16 0.15
Matches are distributed among these distances:
7 3 0.03
8 14 0.15
9 35 0.37
10 28 0.30
11 14 0.15
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (9 bp):
TTTTATAAT
Found at i:25262694 original size:18 final size:18
Alignment explanation
Indices: 25262673--25262807 Score: 80
Period size: 18 Copynumber: 7.2 Consensus size: 18
25262663 TTTCTATATA
*
25262673 TTTTATAATTTTTATGAT
1 TTTTATAATTTTTATCAT
*
25262691 TTTTATAAAATTTTA-CAATT
1 TTTTAT-AATTTTTATC-A-T
* *
25262711 TTTTATAATTTTTTTCTAA
1 TTTTATAATTTTTATC-AT
25262730 TTTT-TAATTTTTAAT-ATT
1 TTTTATAATTTTT-ATCA-T
* *
25262748 TTTTATTAAAATTTAATCAT
1 TTTTA-T-AATTTTTATCAT
* *
25262768 TTTTATAAATTTTATTGAT
1 TTTTATAATTTTTA-TCAT
*
25262787 TTTT-TATTTTTTATCAT
1 TTTTATAATTTTTATCAT
25262804 TTTT
1 TTTT
25262808 TGCCACATGT
Statistics
Matches: 91, Mismatches: 15, Indels: 23
0.71 0.12 0.18
Matches are distributed among these distances:
17 8 0.09
18 32 0.35
19 27 0.30
20 18 0.20
21 6 0.07
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (18 bp):
TTTTATAATTTTTATCAT
Found at i:25262713 original size:29 final size:28
Alignment explanation
Indices: 25262635--25262780 Score: 109
Period size: 29 Copynumber: 5.1 Consensus size: 28
25262625 TTCTTACGAC
*
25262635 TTTATAAAATTTTATATTTTTTTCTATATT
1 TTTATAAAATTTTATA-ATTTTT-TATATT
* *
25262665 TCTAT-ATATTTTATAA-TTTTTATGATT
1 TTTATAAAATTTTATAATTTTTTAT-ATT
*
25262692 TTTATAAAATTTTACAATTTTTTATAATT
1 TTTATAAAATTTTATAATTTTTTAT-ATT
* ** *
25262721 TTTTTCTAATTTT-TAATTTTTAATATTT
1 TTTATAAAATTTTATAATTTTTTATA-TT
* * *
25262749 TTTATTAAAATTTAATCATTTTTATAAATT
1 TTTA-TAAAATTTTATAATTTTT-TATATT
25262779 TT
1 TT
25262781 ATTGATTTTT
Statistics
Matches: 90, Mismatches: 19, Indels: 14
0.73 0.15 0.11
Matches are distributed among these distances:
26 3 0.03
27 12 0.13
28 23 0.26
29 35 0.39
30 15 0.17
31 2 0.02
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (28 bp):
TTTATAAAATTTTATAATTTTTTATATT
Found at i:25262713 original size:57 final size:57
Alignment explanation
Indices: 25262635--25262808 Score: 146
Period size: 57 Copynumber: 3.1 Consensus size: 57
25262625 TTCTTACGAC
* * *
25262635 TTTATAAAATTTTATATTTTTTTCTATATTTCTATAT-ATTTTATAATTTTT-ATGA-TT
1 TTTATAAAATTTTACAATTTTTTATA-ATTTCTATATAATTTT-TAATTTTTAAT-ATTT
* * *
25262692 TTTATAAAATTTTACAATTTTTTATAATTTTTTTCTAATTTTTAATTTTTAATATTT
1 TTTATAAAATTTTACAATTTTTTATAATTTCTATATAATTTTTAATTTTTAATATTT
* * * *
25262749 TTTATTAAAATTTAATC-A-TTTTTATAAATTT-TAT-TGATTTTTTATTTTTTATCATTT
1 TTTA-TAAAATTTTA-CAATTTTTTAT-AATTTCTATATAATTTTTAATTTTTAAT-ATTT
25262806 TTT
1 TTT
25262809 GCCACATGTC
Statistics
Matches: 99, Mismatches: 11, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
56 31 0.31
57 52 0.53
58 15 0.15
59 1 0.01
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (57 bp):
TTTATAAAATTTTACAATTTTTTATAATTTCTATATAATTTTTAATTTTTAATATTT
Found at i:25262724 original size:20 final size:19
Alignment explanation
Indices: 25262673--25262723 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
25262663 TTTCTATATA
**
25262673 TTTTATAATTTTTATGA-T
1 TTTTATAATTTTTACAATT
*
25262691 TTTTATAAAATTTTACAATT
1 TTTTAT-AATTTTTACAATT
25262711 TTTTATAATTTTT
1 TTTTATAATTTTT
25262724 TTCTAATTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 6 0.22
19 14 0.52
20 7 0.26
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (19 bp):
TTTTATAATTTTTACAATT
Found at i:25262762 original size:20 final size:21
Alignment explanation
Indices: 25262739--25262794 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 21
25262729 ATTTTTAATT
25262739 TTTAAT-ATTTTTTATTAAAA
1 TTTAATCATTTTTTATTAAAA
*
25262759 TTTAATCA-TTTTTA-TAAAT
1 TTTAATCATTTTTTATTAAAA
* *
25262778 TTTATTGATTTTTTATT
1 TTTAATCATTTTTTATT
25262795 TTTTATCATT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 10 0.33
20 18 0.60
21 2 0.07
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (21 bp):
TTTAATCATTTTTTATTAAAA
Found at i:25263037 original size:92 final size:92
Alignment explanation
Indices: 25262870--25263080 Score: 257
Period size: 92 Copynumber: 2.3 Consensus size: 92
25262860 TTAGGGTCGG
** * * * *
25262870 TTCAAGTATTCAATGGAGTGCAAAAAAAAAAGAGCAAGGGTTTAATTACTTTTTTGAAAAAGTTT
1 TTCAAGTACCCAATTGAGTGCAAAAAAAAAAGAGCAAGGGCTTAACTACTTTTTTAAAAAAGTTT
*
25262935 GAGAGCCTTTTTGATGCATTCTAAAAA
66 AAGAGCCTTTTTGATGCATTCTAAAAA
25262962 TTCAAG-ACCCAATTGAGTGCAAAAAAAAAA-AGCAAGGGCTTAACTACTATTTTTTAAAAAAGT
1 TTCAAGTACCCAATTGAGTGCAAAAAAAAAAGAGCAAGGGCTTAACTAC--TTTTTTAAAAAAGT
* * * * *
25263025 TTAAGGGTCTTTTTGATGCATTGTGAAAG
64 TTAAGAGCCTTTTTGATGCATTCTAAAAA
* *
25263054 TTCAAGTACCCAAGTGAATG-AAAAAAA
1 TTCAAGTACCCAATTGAGTGCAAAAAAA
25263081 GTAGGGACTT
Statistics
Matches: 102, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
90 15 0.15
91 21 0.21
92 55 0.54
93 11 0.11
ACGTcount: A:0.41, C:0.11, G:0.18, T:0.30
Consensus pattern (92 bp):
TTCAAGTACCCAATTGAGTGCAAAAAAAAAAGAGCAAGGGCTTAACTACTTTTTTAAAAAAGTTT
AAGAGCCTTTTTGATGCATTCTAAAAA
Found at i:25265498 original size:29 final size:29
Alignment explanation
Indices: 25265461--25265583 Score: 140
Period size: 29 Copynumber: 4.2 Consensus size: 29
25265451 TTTTTTTAAA
*
25265461 AAAATTGCATTTTGACCCCTCTAATTTTT
1 AAAATTGCATTTTGACCCCTATAATTTTT
* *
25265490 AAAATTGCATTTTGGCCCCTAAAATTTTT
1 AAAATTGCATTTTGACCCCTATAATTTTT
* * * *
25265519 AAAATTTCATTATGACCCTTA-AACTTCTT
1 AAAATTGCATTTTGACCCCTATAA-TTTTT
* *
25265548 GAAATTGCATTTTGACCCCTATACTTTCTT
1 AAAATTGCATTTTGACCCCTATAATTT-TT
25265578 AAAATT
1 AAAATT
25265584 TCACTATGCT
Statistics
Matches: 76, Mismatches: 15, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
28 2 0.03
29 66 0.87
30 8 0.11
ACGTcount: A:0.31, C:0.20, G:0.07, T:0.42
Consensus pattern (29 bp):
AAAATTGCATTTTGACCCCTATAATTTTT
Found at i:25265948 original size:12 final size:12
Alignment explanation
Indices: 25265931--25265956 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
25265921 ACTAGGGTTT
25265931 GAGGAAGAAGAA
1 GAGGAAGAAGAA
25265943 GAGGAAGAAGAA
1 GAGGAAGAAGAA
25265955 GA
1 GA
25265957 AAGAAAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (12 bp):
GAGGAAGAAGAA
Found at i:25265954 original size:15 final size:15
Alignment explanation
Indices: 25265935--25265995 Score: 79
Period size: 15 Copynumber: 4.1 Consensus size: 15
25265925 GGGTTTGAGG
* * *
25265935 AAGAAGAAGAGGAAG
1 AAGAAAAAGAGAAAA
*
25265950 AAGAAGAA-AGAAAA
1 AAGAAAAAGAGAAAA
25265964 AAGAAAAAGAGAAAA
1 AAGAAAAAGAGAAAA
25265979 AAGAAAAAGAGAAAA
1 AAGAAAAAGAGAAAA
25265994 AA
1 AA
25265996 AAATTAAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
14 11 0.26
15 31 0.74
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (15 bp):
AAGAAAAAGAGAAAA
Found at i:25265976 original size:8 final size:7
Alignment explanation
Indices: 25265950--25265995 Score: 65
Period size: 7 Copynumber: 6.3 Consensus size: 7
25265940 GAAGAGGAAG
*
25265950 AAGAAGA
1 AAGAAAA
25265957 AAGAAAA
1 AAGAAAA
25265964 AAGAAAA
1 AAGAAAA
25265971 AGAGAAAA
1 A-AGAAAA
25265979 AAGAAAA
1 AAGAAAA
25265986 AGAGAAAA
1 A-AGAAAA
25265994 AA
1 AA
25265996 AAATTAAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
7 22 0.61
8 14 0.39
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (7 bp):
AAGAAAA
Found at i:25265982 original size:29 final size:28
Alignment explanation
Indices: 25265935--25265998 Score: 76
Period size: 29 Copynumber: 2.3 Consensus size: 28
25265925 GGGTTTGAGG
* * *
25265935 AAGAAGAAGAGGAAGAAGAAGAAAGAAAA
1 AAGAAAAAGAGAAAAAAGAA-AAAGAAAA
*
25265964 AAGAAAAAGAGAAAAAAGAAAAAGAGAA
1 AAGAAAAAGAGAAAAAAGAAAAAGAAAA
25265992 AA-AAAAA
1 AAGAAAAA
25265999 TTAAAATAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 5 0.16
28 9 0.29
29 17 0.55
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (28 bp):
AAGAAAAAGAGAAAAAAGAAAAAGAAAA
Found at i:25266118 original size:8 final size:9
Alignment explanation
Indices: 25266103--25266145 Score: 59
Period size: 10 Copynumber: 4.6 Consensus size: 9
25266093 AGCCCAATCC
25266103 GAAAAAAAA
1 GAAAAAAAA
25266112 GAAAAAAAA
1 GAAAAAAAA
25266121 GAAAAAAAAA
1 G-AAAAAAAA
*
25266131 GCATAAAAAA
1 G-AAAAAAAA
25266141 GAAAA
1 GAAAA
25266146 CAGCCCATAG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
9 13 0.43
10 17 0.57
ACGTcount: A:0.84, C:0.02, G:0.12, T:0.02
Consensus pattern (9 bp):
GAAAAAAAA
Found at i:25266129 original size:20 final size:20
Alignment explanation
Indices: 25266104--25266145 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
25266094 GCCCAATCCG
25266104 AAAAAAAAG-AAAAAAAAGA
1 AAAAAAAAGCAAAAAAAAGA
*
25266123 AAAAAAAAGCATAAAAAAGA
1 AAAAAAAAGCAAAAAAAAGA
25266143 AAA
1 AAA
25266146 CAGCCCATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.86, C:0.02, G:0.10, T:0.02
Consensus pattern (20 bp):
AAAAAAAAGCAAAAAAAAGA
Found at i:25266343 original size:25 final size:25
Alignment explanation
Indices: 25266303--25266375 Score: 55
Period size: 26 Copynumber: 2.9 Consensus size: 25
25266293 TAGCCCAGCA
*
25266303 GAAAAAAAAAAGAAAAGAGAAGAAA-A
1 GAAAAAAGAAAGAAAAGA-AA-AAAGA
25266329 GAAAAAGAGAAA-AAAGAGAAAAAAGA
1 GAAAAA-AGAAAGAAA-AGAAAAAAGA
*
25266355 -AAGAAAAGAAA-AAAGGAAAAA
1 GAA-AAAAGAAAGAAAAGAAAAA
25266376 GGGTCGTGTA
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
24 6 0.15
25 13 0.32
26 15 0.37
27 7 0.17
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (25 bp):
GAAAAAAGAAAGAAAAGAAAAAAGA
Found at i:25266359 original size:33 final size:31
Alignment explanation
Indices: 25266306--25266376 Score: 97
Period size: 32 Copynumber: 2.2 Consensus size: 31
25266296 CCCAGCAGAA
* *
25266306 AAAAAAAAGAAAAGAGAAGAAAAGAAAAAGAG
1 AAAAAAGAGAAAAAAGAAGAAAAGAAAAA-AG
25266338 AAAAAAGAGAAAAAAGAAAGAAAAGAAAAAAG
1 AAAAAAGAGAAAAAAG-AAGAAAAGAAAAAAG
*
25266370 GAAAAAG
1 AAAAAAG
25266377 GGTCGTGTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
32 22 0.63
33 13 0.37
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (31 bp):
AAAAAAGAGAAAAAAGAAGAAAAGAAAAAAG
Found at i:25266368 original size:16 final size:16
Alignment explanation
Indices: 25266310--25266369 Score: 79
Period size: 16 Copynumber: 3.8 Consensus size: 16
25266300 GCAGAAAAAA
*
25266310 AAAAGAAAAGAG-AAG
1 AAAAGAAAAAAGAAAG
25266325 AAAAGAAAAAGAGAAA-
1 AAAAGAAAAA-AGAAAG
25266341 AAAGAGAAAAAAGAAAG
1 AAA-AGAAAAAAGAAAG
25266358 AAAAGAAAAAAG
1 AAAAGAAAAAAG
25266370 GAAAAAGGGT
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
15 9 0.22
16 19 0.47
17 12 0.30
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (16 bp):
AAAAGAAAAAAGAAAG
Found at i:25272279 original size:16 final size:16
Alignment explanation
Indices: 25272243--25272280 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
25272233 AATTATATTC
25272243 AATAATTTTATAGATT
1 AATAATTTTATAGATT
*
25272259 TATAATTTTATTA-ATT
1 AATAATTTTA-TAGATT
25272275 AATAAT
1 AATAAT
25272281 ATATTATGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 17 0.89
17 2 0.11
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
AATAATTTTATAGATT
Found at i:25272358 original size:16 final size:16
Alignment explanation
Indices: 25272337--25272399 Score: 53
Period size: 16 Copynumber: 4.1 Consensus size: 16
25272327 TTAATTAATT
25272337 TCACATTAATATATTA
1 TCACATTAATATATTA
*
25272353 TCACATTAAT-TAATA
1 TCACATTAATATATTA
* *
25272368 TTA-ATT-TTATTATTA
1 TCACATTAATA-TATTA
25272383 TCACA-TAATAATATTA
1 TCACATTAAT-ATATTA
25272399 T
1 T
25272400 TAAATTATTA
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
13 1 0.03
14 3 0.08
15 13 0.36
16 18 0.50
17 1 0.03
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.48
Consensus pattern (16 bp):
TCACATTAATATATTA
Found at i:25272860 original size:17 final size:18
Alignment explanation
Indices: 25272838--25272871 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
25272828 TACTTAGAAT
25272838 TCTATTCAAA-TAATAAC
1 TCTATTCAAATTAATAAC
*
25272855 TCTATTTAAATTAATAA
1 TCTATTCAAATTAATAA
25272872 AATTAGCACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (18 bp):
TCTATTCAAATTAATAAC
Found at i:25276928 original size:17 final size:17
Alignment explanation
Indices: 25276894--25276926 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
25276884 TTTTTAAATT
25276894 TTAAAATATATAAAAAA
1 TTAAAATATATAAAAAA
25276911 TTAAAAT-TATAAAAAA
1 TTAAAATATATAAAAAA
25276927 ATATTTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
TTAAAATATATAAAAAA
Found at i:25278777 original size:23 final size:23
Alignment explanation
Indices: 25278746--25278791 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
25278736 GCCTTTTTTT
*
25278746 CCCTCCAGAAAGTTGAAAGTTCC
1 CCCTACAGAAAGTTGAAAGTTCC
25278769 CCCTACAGAAAGTTGAAAGTTCC
1 CCCTACAGAAAGTTGAAAGTTCC
25278792 ACTTCGACGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.22
Consensus pattern (23 bp):
CCCTACAGAAAGTTGAAAGTTCC
Found at i:25285142 original size:6 final size:6
Alignment explanation
Indices: 25285131--25285173 Score: 68
Period size: 6 Copynumber: 7.2 Consensus size: 6
25285121 GAGGAAGGCT
* *
25285131 TGGGGC TGGGGC TGTGGC TGGGGC TGGGGC TGGGGC TGCGGC T
1 TGGGGC TGGGGC TGGGGC TGGGGC TGGGGC TGGGGC TGGGGC T
25285174 CCTCTTGCTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.00, C:0.19, G:0.60, T:0.21
Consensus pattern (6 bp):
TGGGGC
Found at i:25288480 original size:22 final size:23
Alignment explanation
Indices: 25288449--25288501 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 23
25288439 GTATATAAAC
*
25288449 GTATACTAAAAAACATATGTGCAT
1 GTATA-TAAAAAACATATGCGCAT
*
25288473 -TATATAAAAAACCTATGCGCAT
1 GTATATAAAAAACATATGCGCAT
25288495 GTATATA
1 GTATATA
25288502 CAGCAGTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 16 0.62
23 10 0.38
ACGTcount: A:0.45, C:0.13, G:0.11, T:0.30
Consensus pattern (23 bp):
GTATATAAAAAACATATGCGCAT
Found at i:25290229 original size:44 final size:44
Alignment explanation
Indices: 25290088--25290524 Score: 507
Period size: 44 Copynumber: 9.9 Consensus size: 44
25290078 ACCTGCTATA
* * * *
25290088 TTTGATCTACTTTATGCCAATACATGAAGACAAGATCCGCTTGC
1 TTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC
* * * * *** * *
25290132 TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGATATC
1 TTTGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCTTTC
* *
25290177 TTCGATCTACTTCACGCCAATACATGAAGACAAGATATGCTTTC
1 TTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC
* *
25290221 TTTAATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTGC
1 TTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC
* * * * *** *
25290265 TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATC
1 TTTGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCTTTC
25290310 TTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC
1 TTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC
* *
25290354 TTTGATCTACTTCACGCCAATATATGAAGACAAGATCTGTTTTC
1 TTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC
* * *
25290398 TTTGATCTACTTCACACCAATACATGAAGACACGATCCGCTTGT-
1 TTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT-TC
*
25290442 TTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATC
1 TTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC
* * * * *
25290486 TTTGATCAATTTCACTGCCAGTACAAGAAGATAAGATCT
1 TTTGATCTACTTCAC-GCCAATACATGAAGACAAGATCT
25290525 AATGGCTTCA
Statistics
Matches: 328, Mismatches: 60, Indels: 9
0.83 0.15 0.02
Matches are distributed among these distances:
43 1 0.00
44 238 0.73
45 89 0.27
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30
Consensus pattern (44 bp):
TTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC
Found at i:25290330 original size:133 final size:133
Alignment explanation
Indices: 25290088--25290524 Score: 617
Period size: 133 Copynumber: 3.3 Consensus size: 133
25290078 ACCTGCTATA
* * *
25290088 TTTGATCTACTTTATGCCAATACATGAAGACAAGATCCGCTTGCTTCGATCTACTTCGCCACCAG
1 TTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTGCTTCGATCTACTTCGCCACCAG
* * *
25290153 TATGGGAAGACAAGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATATGCT
66 TATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCT
25290218 TTC
131 TTC
*
25290221 TTTAATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTGCTTCGATCTACTTCGCCACCAG
1 TTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTGCTTCGATCTACTTCGCCACCAG
25290286 TATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCT
66 TATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCT
25290351 TTC
131 TTC
* * * * * *
25290354 TTTGATCTACTTCACGCCAATATATGAAGACAAGATCTGTTTTCTTTGATCTACTTC-ACACCAA
1 TTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTGCTTCGATCTACTTCGCCACCAG
*** * * *
25290418 TACATGAAGACACGATCCGCT-TGTTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
66 TATGGGAAGACAAGATCTGCTAT-CTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
*
25290482 TATC
130 TTTC
* * * * *
25290486 TTTGATCAATTTCACTGCCAGTACAAGAAGATAAGATCT
1 TTTGATCTACTTCAC-GCCAATACATGAAGACAAGATCT
25290525 AATGGCTTCA
Statistics
Matches: 275, Mismatches: 27, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
131 1 0.00
132 77 0.28
133 197 0.72
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30
Consensus pattern (133 bp):
TTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTGCTTCGATCTACTTCGCCACCAG
TATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCT
TTC
Found at i:25291475 original size:132 final size:131
Alignment explanation
Indices: 25290527--25291419 Score: 1224
Period size: 133 Copynumber: 6.7 Consensus size: 131
25290517 TAAGATCTAA
*
25290527 TGGCTTCAATGTACTCCACTGTAACCACATGGAGGTAAAATTCACCATCTTTGATCTGCTCCACT
1 TGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCT-CACT
* *
25290592 ACTGCTTGGGGAGACAAGATCTGAAATCTTCAATCTATTCCATTGTTGCCCAGGGAAGTAGAATT
65 ACTGCTTGGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATT
*
25290657 GC
130 AC
* * * *
25290659 TGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCCTTGATCTGCTCCACT
1 TGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCT-CACT
* * * * *
25290724 ACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTTCACTGCTACCCAGGGAAGTAGAATT
65 ACTGCTTGGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATT
25290789 A-
130 AC
* * *
25290790 TCGGCTTTAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTCGATCTGCT--GT
1 T-GGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCACT
* * *
25290853 ACTGTCTATGCAGGAAGGCAAGATCTAAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAG
65 ACTG-CT-TG--GGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAG
25290918 AATTAC
126 AATTAC
* * *
25290924 CGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTCGATCTGCT--GTA
1 TGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCACTA
* * *
25290987 CTGTCTATGCAGGAAGGCAAGATCTAAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGA
66 CTG-CT-TG--GGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGA
25291052 ATTAC
127 ATTAC
* * *
25291057 CGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTCGATCTGCT--GTA
1 TGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCACTA
* * *
25291120 CTGTCTATGCAGGAAGGCAAGATCTAAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGA
66 CTG-CT-TG--GGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGA
25291185 ATTAC
127 ATTAC
* * *
25291190 CGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATTCACCATCTTTGATCTACTTCACT
1 TGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGC-TCACT
** * * *
25291255 ACTGCTCAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTACCCAGGGAAGTAGAATT
65 ACTGCTTGGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATT
25291320 AC
130 AC
*
25291322 TGGCTTCAATGTACTCCACTGTAACCACAGAGAGGTAAAATTCACCATCTTTGATCTGCTCCACT
1 TGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCT-CACT
25291387 ACTGCTTGGGGAGACAAGATCTGAAATCTTCAA
65 ACTGCTTGGGGAGACAAGATCTGAAATCTTCAA
25291420 CCTGCTCCAC
Statistics
Matches: 701, Mismatches: 50, Indels: 20
0.91 0.06 0.03
Matches are distributed among these distances:
129 5 0.01
130 2 0.00
131 3 0.00
132 312 0.45
133 371 0.53
134 1 0.00
135 2 0.00
136 5 0.01
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (131 bp):
TGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCACTA
CTGCTTGGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTA
C
Found at i:25292744 original size:14 final size:13
Alignment explanation
Indices: 25292725--25292765 Score: 55
Period size: 14 Copynumber: 3.0 Consensus size: 13
25292715 TTAGCCTCTC
*
25292725 CATTTTTACCTTTT
1 CATTTTT-CATTTT
25292739 CATTTTTCATTTT
1 CATTTTTCATTTT
25292752 CATCTTTTCATTTT
1 CAT-TTTTCATTTT
25292766 TCACATCACT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 8 0.32
14 17 0.68
ACGTcount: A:0.15, C:0.20, G:0.00, T:0.66
Consensus pattern (13 bp):
CATTTTTCATTTT
Found at i:25292749 original size:21 final size:21
Alignment explanation
Indices: 25292725--25292768 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
25292715 TTAGCCTCTC
*
25292725 CATTTTTACCTTTTCATTTTT
1 CATTTTCACCTTTTCATTTTT
*
25292746 CATTTTCATCTTTTCATTTTT
1 CATTTTCACCTTTTCATTTTT
25292767 CA
1 CA
25292769 CATCACTTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.20, G:0.00, T:0.64
Consensus pattern (21 bp):
CATTTTCACCTTTTCATTTTT
Found at i:25292751 original size:6 final size:7
Alignment explanation
Indices: 25292735--25292768 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
25292725 CATTTTTACC
25292735 TTTTCAT
1 TTTTCAT
25292742 TTTTCA-
1 TTTTCAT
25292748 TTTTCAT
1 TTTTCAT
25292755 CTTTTCAT
1 -TTTTCAT
25292763 TTTTCA
1 TTTTCA
25292769 CATCACTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 6 0.24
7 12 0.48
8 7 0.28
ACGTcount: A:0.15, C:0.18, G:0.00, T:0.68
Consensus pattern (7 bp):
TTTTCAT
Found at i:25296040 original size:41 final size:41
Alignment explanation
Indices: 25295990--25296209 Score: 334
Period size: 41 Copynumber: 5.4 Consensus size: 41
25295980 TATTCACCAG
* *
25295990 CACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGA
1 CACTTAGCCTGCTAGGTTTATAACCTGATTCAGATCACCGA
*
25296031 CACTTAGCCTGCTAGGTTTATAACCTGATTCAGATCACCGG
1 CACTTAGCCTGCTAGGTTTATAACCTGATTCAGATCACCGA
* * *
25296072 CACTTAGCCTGATAGGTTTATAACTTGATTCAGACCACCGA
1 CACTTAGCCTGCTAGGTTTATAACCTGATTCAGATCACCGA
* *
25296113 AACTTAGTCTGCTAGGTTTATAACCTGATTCAGATCACC-A
1 CACTTAGCCTGCTAGGTTTATAACCTGATTCAGATCACCGA
*
25296153 GCACTTAGCCTGCTAGGTTTATAACCTGATTTAGATCACCGA
1 -CACTTAGCCTGCTAGGTTTATAACCTGATTCAGATCACCGA
*
25296195 CAATTAGCCTGCTAG
1 CACTTAGCCTGCTAG
25296210 ACTTAAAGTC
Statistics
Matches: 161, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
40 1 0.01
41 159 0.99
42 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (41 bp):
CACTTAGCCTGCTAGGTTTATAACCTGATTCAGATCACCGA
Found at i:25299040 original size:26 final size:26
Alignment explanation
Indices: 25299011--25299061 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
25299001 ACAAAGTTAA
25299011 AAATATCTCGTCACATACCATGCCAG
1 AAATATCTCGTCACATACCATGCCAG
* *
25299037 AAATGTCTCGTCTCATACCATGCCA
1 AAATATCTCGTCACATACCATGCCA
25299062 CCAATAGTGC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.31, C:0.31, G:0.12, T:0.25
Consensus pattern (26 bp):
AAATATCTCGTCACATACCATGCCAG
Found at i:25303559 original size:41 final size:41
Alignment explanation
Indices: 25303502--25303687 Score: 309
Period size: 41 Copynumber: 4.5 Consensus size: 41
25303492 TTTAACATAT
* * * *
25303502 TCACCAGCACTTAGCCTGCTAGGCTTATAGCTTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
25303543 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
*
25303584 TCACCGGCACTTAGCCTGCTAGGTTTATAACTTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
*
25303625 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTTAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
*
25303666 TCACCGACACTTAGCCTGCTAG
1 TCACCGGCACTTAGCCTGCTAG
25303688 ACTTAAAGTC
Statistics
Matches: 137, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 137 1.00
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
Found at i:25303723 original size:82 final size:82
Alignment explanation
Indices: 25303509--25303728 Score: 266
Period size: 82 Copynumber: 2.7 Consensus size: 82
25303499 TATTCACCAG
* * * * *
25303509 CACTTAGCCTGCTAGGCTTATAGCTTGATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAAC
1 CACTTAGCCTGCTAGACTTATAACTTAATTCAGATCACCAGCACTAAGCCTGCTAGGTTTATAAC
*
25303574 CTGATTCAGATCACCGG
66 CTGATTCAGATCACCGA
** * * *
25303591 CACTTAGCCTGCTAGGTTTATAACTTGATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAAC
1 CACTTAGCCTGCTAGACTTATAACTTAATTCAGATCACCAGCACTAAGCCTGCTAGGTTTATAAC
*
25303656 CTGATTTAGATCACCGA
66 CTGATTCAGATCACCGA
**
25303673 CACTTAGCCTGCTAGACTTA-AAGTCTTAATT-ATTTCACCAGCA-TCAAGCCTGCTAG
1 CACTTAGCCTGCTAGACTTATAA--CTTAATTCAGATCACCAGCACT-AAGCCTGCTAG
25303729 ACATAAAGTC
Statistics
Matches: 124, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
81 3 0.02
82 115 0.93
83 6 0.05
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.30
Consensus pattern (82 bp):
CACTTAGCCTGCTAGACTTATAACTTAATTCAGATCACCAGCACTAAGCCTGCTAGGTTTATAAC
CTGATTCAGATCACCGA
Found at i:25308982 original size:71 final size:70
Alignment explanation
Indices: 25308877--25309014 Score: 206
Period size: 71 Copynumber: 2.0 Consensus size: 70
25308867 TAAACTGACA
* * *
25308877 ATAGGTGTCCTTGCACTAGTTGAATAAACTGACAATGTTTTGCGCCCAACGCTAGTCAGACAAAT
1 ATAGGTGTCCCTGCACTAGTAGAATAAACCGACAATGTTTTGCGCCCAACGCTAGTCAGACAAAT
25308942 TGGTG
66 TGGTG
* *
25308947 ATAGGTGTGCCCTGCACTAGTCAG-ATAAACCGACAATGTTTTGCGCCCAGCGCTAGTCAGATAA
1 ATAGGTGT-CCCTGCACTAGT-AGAATAAACCGACAATGTTTTGCGCCCAACGCTAGTCAGACAA
25309011 ATTG
64 ATTG
25309015 ACGATATCGA
Statistics
Matches: 61, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
70 8 0.13
71 52 0.85
72 1 0.02
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (70 bp):
ATAGGTGTCCCTGCACTAGTAGAATAAACCGACAATGTTTTGCGCCCAACGCTAGTCAGACAAAT
TGGTG
Found at i:25309066 original size:76 final size:76
Alignment explanation
Indices: 25308961--25309161 Score: 262
Period size: 76 Copynumber: 2.6 Consensus size: 76
25308951 GTGTGCCCTG
* * * * *
25308961 CACTAGTCAGATAAACCGACAATGTTTTGCGCCCAGCGCTAGTCAGATAAATTGACGATATCGAA
1 CACTAGTCGGATAGACCGACAATGATTTGCGCCCAGCGCTAGTCAGATAAACTGACGATATCAAA
* *
25309026 TGTGTGTCCAA
66 TGTATGCCCAA
* *
25309037 CACT-GATCGGATAGACCGACAATGATTTGCACCCAGTGCTAGTC-GAATAAACTGACGATATCA
1 CACTAG-TCGGATAGACCGACAATGATTTGCGCCCAGCGCTAGTCAG-ATAAACTGACGATATCA
*
25309100 AATGTATGCCCAG
64 AATGTATGCCCAA
* *
25309113 CACTAGTTGGATAGATCGACAATGATTTGCGCCCAGCGCTAGTCAGATA
1 CACTAGTCGGATAGACCGACAATGATTTGCGCCCAGCGCTAGTCAGATA
25309162 TAACCGACAA
Statistics
Matches: 107, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
75 2 0.02
76 103 0.96
77 2 0.02
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (76 bp):
CACTAGTCGGATAGACCGACAATGATTTGCGCCCAGCGCTAGTCAGATAAACTGACGATATCAAA
TGTATGCCCAA
Found at i:25312157 original size:25 final size:25
Alignment explanation
Indices: 25312123--25312200 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 25
25312113 CATCTTGTAT
*
25312123 GAGCTCACCGATTTACAGCTCGTAA
1 GAGCTTACCGATTTACAGCTCGTAA
* *
25312148 GAGCTTACCGATATT-CAGCTCGGAG
1 GAGCTTACCGAT-TTACAGCTCGTAA
*
25312173 GAGCTTACCG-TTTATC-GCTCGTAT
1 GAGCTTACCGATTTA-CAGCTCGTAA
25312197 GAGC
1 GAGC
25312201 CTACATGTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
23 2 0.04
24 11 0.24
25 30 0.67
26 2 0.04
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (25 bp):
GAGCTTACCGATTTACAGCTCGTAA
Found at i:25329006 original size:44 final size:43
Alignment explanation
Indices: 25328930--25329260 Score: 279
Period size: 44 Copynumber: 7.5 Consensus size: 43
25328920 NNNNNTATCT
* * * * * *
25328930 TTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC
1 TTGATCTACTTCCCACCAGTATAGGAAGACAAGATATGCTTTC
* * * * *
25328973 TTAATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGGTATC
1 TTGATCTACTTC-CCACCAGTATAGGAAGACAAGATATGCTTTC
* * * *
25329017 TTTGATCTACTTCACGCCAGTACATGAAGACAAGATATGCTTT-
1 -TTGATCTACTTCCCACCAGTATAGGAAGACAAGATATGCTTTC
* * *
25329060 TTCAATCTACTTCGCCACCAGTATAGGAAGACAAGATATGGTATC
1 TT-GATCTACTTC-CCACCAGTATAGGAAGACAAGATATGCTTTC
* * * *
25329105 TTTGATCTACTTCACGCCAGTACATGAAGACAAGATATGCTTT-
1 -TTGATCTACTTCCCACCAGTATAGGAAGACAAGATATGCTTTC
* * *
25329148 TTCAATCTACTTCGCCACCAGTATAGGAAGACAAGATATGGTATC
1 TT-GATCTACTTC-CCACCAGTATAGGAAGACAAGATATGCTTTC
* * * * *
25329193 TTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTC
1 -TTGATCTACTTCCCACCAGTATAGGAAGACAAGATATGCTTTC
*
25329237 TTCGATCTACTTCACCATCAGTAT
1 TT-GATCTACTTC-CCACCAGTAT
25329261 GGGCAGGCAA
Statistics
Matches: 225, Mismatches: 51, Indels: 22
0.76 0.17 0.07
Matches are distributed among these distances:
42 4 0.02
43 31 0.14
44 151 0.67
45 35 0.16
46 4 0.02
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.30
Consensus pattern (43 bp):
TTGATCTACTTCCCACCAGTATAGGAAGACAAGATATGCTTTC
Found at i:25329074 original size:88 final size:89
Alignment explanation
Indices: 25328925--25329284 Score: 582
Period size: 88 Copynumber: 4.1 Consensus size: 89
25328915 NNNNNNNNNN
* *
25328925 TATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTT-AATCTACTTCGCCA
1 TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATATGCTTTCTTCAATCTACTTCGCCA
* *
25328989 CCAGTATGGGAAGACAAGATCTGG
66 CCAGTATAGGAAGACAAGATATGG
25329013 TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATATGCTTT-TTCAATCTACTTCGCCA
1 TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATATGCTTTCTTCAATCTACTTCGCCA
25329077 CCAGTATAGGAAGACAAGATATGG
66 CCAGTATAGGAAGACAAGATATGG
25329101 TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATATGCTTT-TTCAATCTACTTCGCCA
1 TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATATGCTTTCTTCAATCTACTTCGCCA
25329165 CCAGTATAGGAAGACAAGATATGG
66 CCAGTATAGGAAGACAAGATATGG
* * *
25329189 TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACCA
1 TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATATGCTTTCTTCAATCTACTTCGCCA
* * * * * *
25329254 TCAGTATGGGCAGGCAAGATCTGT
66 CCAGTATAGGAAGACAAGATATGG
25329278 TATCTTT
1 TATCTTT
25329285 CAACCTACTC
Statistics
Matches: 257, Mismatches: 13, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
87 2 0.01
88 215 0.84
89 40 0.16
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (89 bp):
TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATATGCTTTCTTCAATCTACTTCGCCA
CCAGTATAGGAAGACAAGATATGG
Found at i:25330478 original size:21 final size:20
Alignment explanation
Indices: 25330444--25330486 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
25330434 TTAGCCTCTC
*
25330444 CATTTTTACTTTTCATTCTT
1 CATTTTCACTTTTCATTCTT
*
25330464 CATTTTCATCTTTTCATTTTT
1 CATTTTCA-CTTTTCATTCTT
25330485 CA
1 CA
25330487 CATTACTTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.16, C:0.21, G:0.00, T:0.63
Consensus pattern (20 bp):
CATTTTCACTTTTCATTCTT
Found at i:25333988 original size:334 final size:334
Alignment explanation
Indices: 25333379--25334050 Score: 1335
Period size: 334 Copynumber: 2.0 Consensus size: 334
25333369 ATGCATGAAA
25333379 TGAATGCAAAAAGAGACGTTGATTCATGTTCAATTCTTTACTAGAAAGTTTTACTAGAAAACAAA
1 TGAATGCAAAAAGAGACGTTGATTCATGTTCAATTCTTTACTAGAAAGTTTTACTAGAAAACAAA
25333444 TCTCTTTACATAAAGCGGATATATATATACGGCTTCACCTCCGTACTCCAAGTGAAGGCATCGAC
66 TCTCTTTACATAAAGCGGATATATATATACGGCTTCACCTCCGTACTCCAAGTGAAGGCATCGAC
25333509 CATTCGGATATTAAGATGCACCTCACGAATTTGAACTCTTTTTTGTTTGATCTAGGTCGTAACTC
131 CATTCGGATATTAAGATGCACCTCACGAATTTGAACTCTTTTTTGTTTGATCTAGGTCGTAACTC
25333574 CTTGCTCACTCACGTTCATTAGCTTCTTTACGAGGTTGGGACCTTTGATGACTTTTAATAATCTT
196 CTTGCTCACTCACGTTCATTAGCTTCTTTACGAGGTTGGGACCTTTGATGACTTTTAATAATCTT
25333639 TGACAATTTGAATTCTCAGGTCACGTAGCAAATTCGTATACTCCTCTTGTTAGACCTTTCGTGTC
261 TGACAATTTGAATTCTCAGGTCACGTAGCAAATTCGTATACTCCTCTTGTTAGACCTTTCGTGTC
25333704 ACATTTTTT
326 ACATTTTTT
25333713 TGAATGCAAAAAGAGACGTTGATTCATGTTCAATTCTTTACTAGAAAGTTTTACTAGAAAACAAA
1 TGAATGCAAAAAGAGACGTTGATTCATGTTCAATTCTTTACTAGAAAGTTTTACTAGAAAACAAA
25333778 TCTCTTTACATAAAGCGGATATATATATACGGCTTCACCTCCGTACTCCAAGTGAAGGCATCGAC
66 TCTCTTTACATAAAGCGGATATATATATACGGCTTCACCTCCGTACTCCAAGTGAAGGCATCGAC
25333843 CATTCGGATATTAAGATGCACCTCACGAATTTGAACTCTTTTTTGTTTGATCTAGGTCGTAACTC
131 CATTCGGATATTAAGATGCACCTCACGAATTTGAACTCTTTTTTGTTTGATCTAGGTCGTAACTC
25333908 CTTGCTCACTCACGTTCATTAGCTTCTTTACGAGGTTGGGACCTTTGATGACTTTTAATAATCTT
196 CTTGCTCACTCACGTTCATTAGCTTCTTTACGAGGTTGGGACCTTTGATGACTTTTAATAATCTT
25333973 TGACAATTTGAATTCTCAGGTCACGTAGCAAATTCGTATACTCCTCTTGTTAGACCTTTCGTGTC
261 TGACAATTTGAATTCTCAGGTCACGTAGCAAATTCGTATACTCCTCTTGTTAGACCTTTCGTGTC
*
25334038 ACGTTTTTT
326 ACATTTTTT
25334047 TGAA
1 TGAA
25334051 AACAAAATTT
Statistics
Matches: 337, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
334 337 1.00
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.36
Consensus pattern (334 bp):
TGAATGCAAAAAGAGACGTTGATTCATGTTCAATTCTTTACTAGAAAGTTTTACTAGAAAACAAA
TCTCTTTACATAAAGCGGATATATATATACGGCTTCACCTCCGTACTCCAAGTGAAGGCATCGAC
CATTCGGATATTAAGATGCACCTCACGAATTTGAACTCTTTTTTGTTTGATCTAGGTCGTAACTC
CTTGCTCACTCACGTTCATTAGCTTCTTTACGAGGTTGGGACCTTTGATGACTTTTAATAATCTT
TGACAATTTGAATTCTCAGGTCACGTAGCAAATTCGTATACTCCTCTTGTTAGACCTTTCGTGTC
ACATTTTTT
Found at i:25334834 original size:23 final size:23
Alignment explanation
Indices: 25334802--25334868 Score: 62
Period size: 23 Copynumber: 2.8 Consensus size: 23
25334792 TACATGTACT
* *
25334802 TATAAAATATAAATAAAAATTAG
1 TATAATATATAAATAAAAATGAG
* *
25334825 TATAATATATTAATAAAGTATGAG
1 TATAATATATAAATAAA-AATGAG
* *
25334849 TATATATATGTATATAAAAA
1 TATA-ATATATAAATAAAAA
25334869 AATATGAAAA
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
23 15 0.44
24 9 0.26
25 10 0.29
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (23 bp):
TATAATATATAAATAAAAATGAG
Found at i:25334873 original size:16 final size:16
Alignment explanation
Indices: 25334854--25334897 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
25334844 ATGAGTATAT
25334854 ATATGTATATAAAAAA
1 ATATGTATATAAAAAA
* * *
25334870 ATATGAAAATAAAATA
1 ATATGTATATAAAAAA
25334886 ATAATGTATATA
1 AT-ATGTATATA
25334898 TATATGTAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
16 15 0.68
17 7 0.32
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (16 bp):
ATATGTATATAAAAAA
Found at i:25335840 original size:13 final size:13
Alignment explanation
Indices: 25335822--25335846 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25335812 TTATTTACAT
25335822 AAAATAAATATTA
1 AAAATAAATATTA
25335835 AAAATAAATATT
1 AAAATAAATATT
25335847 TTTTTATTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
AAAATAAATATTA
Found at i:25339989 original size:5 final size:5
Alignment explanation
Indices: 25339981--25340011 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
25339971 AAATAAACTC
25339981 TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT T
1 TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT T
25340012 TAGTCCGGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TCTTT
Found at i:25341067 original size:55 final size:55
Alignment explanation
Indices: 25340936--25341135 Score: 283
Period size: 55 Copynumber: 3.6 Consensus size: 55
25340926 TTCCAAAAAA
* * *
25340936 CGATTGCTTATATGTTTAAATCGATTGTTATGGTGGAATACTTCTTCTTCTTTTGAAT
1 CGATTGTTTATATGTTTAAATCGATTGTTATGTTGGAATAC-T-GT-TTCTTTTGAAT
* * *
25340994 CGATTGTTTATATGTTTAAATTGACTGTTATGTTAGAATACTGTTTCTTTTGAAT
1 CGATTGTTTATATGTTTAAATCGATTGTTATGTTGGAATACTGTTTCTTTTGAAT
* * * *
25341049 CGATTGTTTATAAGTTTAAATCTATTGTTATATTGGAATATTGTTTCTTTTGAAT
1 CGATTGTTTATATGTTTAAATCGATTGTTATGTTGGAATACTGTTTCTTTTGAAT
25341104 CGATTGTTTATATGTTTAAATCGATTGTTATG
1 CGATTGTTTATATGTTTAAATCGATTGTTATG
25341136 CAGTACGTCT
Statistics
Matches: 126, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
55 88 0.70
56 1 0.01
57 1 0.01
58 36 0.29
ACGTcount: A:0.25, C:0.08, G:0.17, T:0.51
Consensus pattern (55 bp):
CGATTGTTTATATGTTTAAATCGATTGTTATGTTGGAATACTGTTTCTTTTGAAT
Found at i:25341111 original size:18 final size:18
Alignment explanation
Indices: 25341035--25341112 Score: 54
Period size: 18 Copynumber: 4.3 Consensus size: 18
25341025 GTTAGAATAC
25341035 TGTTTCTTTTGAATCGAT
1 TGTTTCTTTTGAATCGAT
* * *
25341053 TGTTTATAAGTTTAAATCTAT
1 TGTTTCT---TTTGAATCGAT
* *
25341074 TGTTAT-ATTGGAAT--AT
1 TGTT-TCTTTTGAATCGAT
25341090 TGTTTCTTTTGAATCGAT
1 TGTTTCTTTTGAATCGAT
25341108 TGTTT
1 TGTTT
25341113 ATATGTTTAA
Statistics
Matches: 45, Mismatches: 8, Indels: 14
0.67 0.12 0.21
Matches are distributed among these distances:
15 1 0.02
16 12 0.27
18 18 0.40
21 13 0.29
22 1 0.02
ACGTcount: A:0.23, C:0.06, G:0.15, T:0.55
Consensus pattern (18 bp):
TGTTTCTTTTGAATCGAT
Found at i:25341127 original size:21 final size:20
Alignment explanation
Indices: 25341041--25341132 Score: 61
Period size: 21 Copynumber: 4.8 Consensus size: 20
25341031 ATACTGTTTC
*
25341041 TTTTGAATCGATTGTTTATAA
1 TTTTAAATCGATTGTTTAT-A
* *
25341062 GTTTAAATCTATTG-TTATA
1 TTTTAAATCGATTGTTTATA
** *
25341081 -TTGGAAT--ATTG-TT-TC
1 TTTTAAATCGATTGTTTATA
*
25341096 TTTTGAATCGATTGTTTATA
1 TTTTAAATCGATTGTTTATA
25341116 TGTTTAAATCGATTGTT
1 T-TTTAAATCGATTGTT
25341133 ATGCAGTACG
Statistics
Matches: 56, Mismatches: 9, Indels: 12
0.73 0.12 0.16
Matches are distributed among these distances:
15 1 0.02
16 12 0.21
18 9 0.16
19 3 0.05
20 6 0.11
21 25 0.45
ACGTcount: A:0.26, C:0.05, G:0.15, T:0.53
Consensus pattern (20 bp):
TTTTAAATCGATTGTTTATA
Found at i:25350391 original size:18 final size:18
Alignment explanation
Indices: 25350368--25350406 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
25350358 ACAATATACA
25350368 AATGGA-ATTAATATAATT
1 AATGGATATTAATA-AATT
*
25350386 AATGGATATTATTAAATT
1 AATGGATATTAATAAATT
25350404 AAT
1 AAT
25350407 TTGTTCGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (18 bp):
AATGGATATTAATAAATT
Found at i:25354881 original size:16 final size:17
Alignment explanation
Indices: 25354860--25354897 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
25354850 TTCTATAGGG
*
25354860 ATTTTACT-TTTATTTT
1 ATTTTACTATGTATTTT
25354876 ATTTTACTACTGTATTTT
1 ATTTTACTA-TGTATTTT
25354894 ATTT
1 ATTT
25354898 AAATAATGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
18 11 0.58
ACGTcount: A:0.21, C:0.08, G:0.03, T:0.68
Consensus pattern (17 bp):
ATTTTACTATGTATTTT
Found at i:25358826 original size:8 final size:8
Alignment explanation
Indices: 25358813--25358846 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
25358803 TATGAATTAA
25358813 ATATTATT
1 ATATTATT
25358821 ATATTATT
1 ATATTATT
* *
25358829 ATAATAAT
1 ATATTATT
25358837 ATATTATT
1 ATATTATT
25358845 AT
1 AT
25358847 TGTTAACATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (8 bp):
ATATTATT
Found at i:25359419 original size:36 final size:35
Alignment explanation
Indices: 25359379--25359471 Score: 98
Period size: 36 Copynumber: 2.5 Consensus size: 35
25359369 TATATGTGTG
* *
25359379 GAATTGAAATGAATAT-TGACTTGAAAATGAAAAAGT
1 GAATTGAATTGAAT-TGTGA-TTGAAAATAAAAAAGT
*
25359415 GAATTTTGAATTGAATTGTGATTGAAAGTAAAAAAGT
1 GAA--TTGAATTGAATTGTGATTGAAAATAAAAAAGT
*
25359452 GAAATTGAATTGAAATGTGA
1 G-AATTGAATTGAATTGTGA
25359472 ATTTGGAGAC
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
36 18 0.37
37 16 0.33
38 15 0.31
ACGTcount: A:0.46, C:0.01, G:0.22, T:0.31
Consensus pattern (35 bp):
GAATTGAATTGAATTGTGATTGAAAATAAAAAAGT
Found at i:25361308 original size:15 final size:16
Alignment explanation
Indices: 25361285--25361315 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
25361275 TTGTAGTTTA
25361285 GTGATTTTTTTTATCC
1 GTGATTTTTTTTATCC
25361301 GTGA-TTTTTTTATCC
1 GTGATTTTTTTTATCC
25361316 TTTTTAGAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.13, C:0.13, G:0.13, T:0.61
Consensus pattern (16 bp):
GTGATTTTTTTTATCC
Found at i:25363710 original size:6 final size:6
Alignment explanation
Indices: 25363699--25363723 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
25363689 AAACAAAAAG
25363699 TATTAA TATTAA TATTAA TATTAA T
1 TATTAA TATTAA TATTAA TATTAA T
25363724 TATAAAAGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TATTAA
Found at i:25369397 original size:89 final size:89
Alignment explanation
Indices: 25369285--25369452 Score: 209
Period size: 89 Copynumber: 1.9 Consensus size: 89
25369275 AGTTAGGCCC
* * * *
25369285 TGACTTGGCAACTTTTCCCACATT-GGGCCTGAACATTTTGTTGTCCGAA-TTAGGTCC-TAAAC
1 TGACTTCGCAACTTTTCCAACATTAGGACCTGAAC-TTTTGTTGTCC-AAGTTAAG-CCTTAAAC
*
25369347 TTGGCAATTGTTCTCACGTTGGGACTT
63 TTGACAATTGTTCTCACGTTGGGACTT
* *
25369374 TGACTTCGCAAC-TTTCTCAACATTAGGACCTGAACTTTTTTTGTCCAAGTTAAGCCTTGAACTT
1 TGACTTCGCAACTTTTC-CAACATTAGGACCTGAACTTTTGTTGTCCAAGTTAAGCCTTAAACTT
25369438 GACAATTGTTCTCAC
65 GACAATTGTTCTCAC
25369453 ATTGAACCCT
Statistics
Matches: 68, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
88 8 0.12
89 51 0.75
90 9 0.13
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (89 bp):
TGACTTCGCAACTTTTCCAACATTAGGACCTGAACTTTTGTTGTCCAAGTTAAGCCTTAAACTTG
ACAATTGTTCTCACGTTGGGACTT
Found at i:25369497 original size:31 final size:31
Alignment explanation
Indices: 25369423--25369499 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 31
25369413 TTTGTCCAAG
* *
25369423 TTAAGCCTTGAACTTGACAATTGTTCTCACA
1 TTAAGCCTTGAACTTAACAATTGTTCCCACA
* *
25369454 TTGAA-CCCTGAACTTAATAATTGTTCCCACA
1 TT-AAGCCTTGAACTTAACAATTGTTCCCACA
*
25369485 TTAAGGCTTGAACTT
1 TTAAGCCTTGAACTT
25369500 TAGGGTTGTC
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
30 2 0.05
31 34 0.89
32 2 0.05
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (31 bp):
TTAAGCCTTGAACTTAACAATTGTTCCCACA
Found at i:25378181 original size:49 final size:49
Alignment explanation
Indices: 25378126--25378271 Score: 229
Period size: 49 Copynumber: 3.0 Consensus size: 49
25378116 TTCGTTTTCT
* *
25378126 CGATGCCATAGTCCAACTATGGTCTTACACGTAATCACAAATCACATAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACAAATCACATAC
* *
25378175 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACATATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACAAATCACATAC
* *
25378224 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCACAT
1 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACA-AATCACAT
25378272 GTTCACATGT
Statistics
Matches: 88, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
49 82 0.93
50 6 0.07
ACGTcount: A:0.33, C:0.29, G:0.14, T:0.24
Consensus pattern (49 bp):
CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACAAATCACATAC
Found at i:25379585 original size:37 final size:37
Alignment explanation
Indices: 25379524--25379669 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
25379514 TACGTATGAT
* *
25379524 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
25379559 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
25379596 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
25379633 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
25379670 TAAAGCTATC
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 92 0.88
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:25379686 original size:46 final size:46
Alignment explanation
Indices: 25379633--25379901 Score: 340
Period size: 46 Copynumber: 5.6 Consensus size: 46
25379623 TAAGTGTAGC
* **
25379633 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
25379679 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
25379725 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
25379777 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
25379823 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
25379875 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
25379902 AGTACTCAAA
Statistics
Matches: 199, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
46 112 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 83 0.42
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:25379752 original size:52 final size:52
Alignment explanation
Indices: 25379676--25379895 Score: 299
Period size: 52 Copynumber: 4.3 Consensus size: 52
25379666 TAGCTAAAGC
* *
25379676 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
25379729 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
25379781 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
25379827 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
25379879 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
25379896 ATCAGAAGTA
Statistics
Matches: 148, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.29
49 1 0.01
52 86 0.58
53 18 0.12
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:25379798 original size:98 final size:98
Alignment explanation
Indices: 25379633--25379901 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
25379623 TAAGTGTAGC
* * *
25379633 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
25379698 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
**
25379732 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
*
25379797 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
25379830 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
25379895 GATCAGA
66 GATCAGA
25379902 AGTACTCAAA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 151 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:25390111 original size:13 final size:13
Alignment explanation
Indices: 25390074--25390115 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
25390064 ACGTCACATT
25390074 AATGAACCAAAAA
1 AATGAACCAAAAA
* *
25390087 AAGTGCA-TAAAAA
1 AA-TGAACCAAAAA
25390100 AATGAACCAAAAA
1 AATGAACCAAAAA
25390113 AAT
1 AAT
25390116 CACGTCATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
12 3 0.13
13 17 0.74
14 3 0.13
ACGTcount: A:0.67, C:0.12, G:0.10, T:0.12
Consensus pattern (13 bp):
AATGAACCAAAAA
Found at i:25390384 original size:2 final size:2
Alignment explanation
Indices: 25390377--25390411 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
25390367 TTATTTAGAG
25390377 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
25390412 TGCTTTGTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:25399138 original size:45 final size:45
Alignment explanation
Indices: 25399088--25399179 Score: 139
Period size: 45 Copynumber: 2.0 Consensus size: 45
25399078 TGCTGGAGGT
* *
25399088 GCTGGAGGTGCCGGAGGAGGCTGGAAGGGGTTCGGGATAAATGGA
1 GCTGGAGGTGCCGGAGGAGGCTGGAAAGGGTTCGGAATAAATGGA
* * *
25399133 GCTGGAGGTGCGGGAGGAGGCTGGAAAGGGTTTGGAATAAGTGGA
1 GCTGGAGGTGCCGGAGGAGGCTGGAAAGGGTTCGGAATAAATGGA
25399178 GC
1 GC
25399180 CGGTGGTGTC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.23, C:0.10, G:0.51, T:0.16
Consensus pattern (45 bp):
GCTGGAGGTGCCGGAGGAGGCTGGAAAGGGTTCGGAATAAATGGA
Found at i:25399297 original size:45 final size:39
Alignment explanation
Indices: 25399233--25399383 Score: 179
Period size: 36 Copynumber: 3.9 Consensus size: 39
25399223 CAAACCCTTG
25399233 GGAGGAGGCTGAAAAGGGTTTGGAATAAGTGGAGCCGGTGGTGCT
1 GGAGGAGGCTGAAAAGGGTTTGGAATAAGTGGA------GGTGCT
*
25399278 GGAGGAGGCTGAAAAGGGTTTGGAATAA---GAGGAGCT
1 GGAGGAGGCTGAAAAGGGTTTGGAATAAGTGGAGGTGCT
*
25399314 GGAGGAGGCTGAAAGGGGTTTGGAATAAGTGGA---GCT
1 GGAGGAGGCTGAAAAGGGTTTGGAATAAGTGGAGGTGCT
*
25399350 GGAGGAGGCTGAAATGGGTTTGGAATAAGTGGAG
1 GGAGGAGGCTGAAAAGGGTTTGGAATAAGTGGAG
25399384 CTGGTGGTGG
Statistics
Matches: 99, Mismatches: 3, Indels: 16
0.84 0.03 0.14
Matches are distributed among these distances:
36 67 0.68
39 2 0.02
42 2 0.02
45 28 0.28
ACGTcount: A:0.28, C:0.06, G:0.46, T:0.19
Consensus pattern (39 bp):
GGAGGAGGCTGAAAAGGGTTTGGAATAAGTGGAGGTGCT
Found at i:25399322 original size:36 final size:36
Alignment explanation
Indices: 25399270--25399387 Score: 200
Period size: 36 Copynumber: 3.3 Consensus size: 36
25399260 AGTGGAGCCG
*
25399270 GTGGTGCTGGAGGAGGCTGAAAAGGGTTTGGAATAA
1 GTGGAGCTGGAGGAGGCTGAAAAGGGTTTGGAATAA
* *
25399306 GAGGAGCTGGAGGAGGCTGAAAGGGGTTTGGAATAA
1 GTGGAGCTGGAGGAGGCTGAAAAGGGTTTGGAATAA
*
25399342 GTGGAGCTGGAGGAGGCTGAAATGGGTTTGGAATAA
1 GTGGAGCTGGAGGAGGCTGAAAAGGGTTTGGAATAA
25399378 GTGGAGCTGG
1 GTGGAGCTGG
25399388 TGGTGGCAGT
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 77 1.00
ACGTcount: A:0.27, C:0.06, G:0.47, T:0.20
Consensus pattern (36 bp):
GTGGAGCTGGAGGAGGCTGAAAAGGGTTTGGAATAA
Found at i:25401963 original size:11 final size:10
Alignment explanation
Indices: 25401932--25401977 Score: 67
Period size: 10 Copynumber: 4.6 Consensus size: 10
25401922 GGAAGAGAAT
25401932 AGAAAAT-AA
1 AGAAAATAAA
25401941 AGAAAATAAA
1 AGAAAATAAA
*
25401951 AGAAAGTTAAA
1 AGAAA-ATAAA
25401962 AGAAAATAAA
1 AGAAAATAAA
25401972 AGAAAA
1 AGAAAA
25401978 AAATAAATTG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
9 7 0.21
10 17 0.52
11 9 0.27
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (10 bp):
AGAAAATAAA
Found at i:25403098 original size:30 final size:30
Alignment explanation
Indices: 25403062--25403122 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
25403052 TATATAAAAG
*
25403062 TATGAGTCAAAAAAATAAATTTGTTTATTA
1 TATGAGTCAAAAAAATAAATTTATTTATTA
* *
25403092 TATGAGTCATAAAAGTAAATTTATTTATTA
1 TATGAGTCAAAAAAATAAATTTATTTATTA
25403122 T
1 T
25403123 GTAAACGAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.44, C:0.03, G:0.10, T:0.43
Consensus pattern (30 bp):
TATGAGTCAAAAAAATAAATTTATTTATTA
Found at i:25408178 original size:33 final size:33
Alignment explanation
Indices: 25408136--25408203 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
25408126 TATCATGTGA
25408136 AACTCAAACATTAGCCTGGAGGAGATGGGATGC
1 AACTCAAACATTAGCCTGGAGGAGATGGGATGC
25408169 AACTCAAACATTAGCCTGGAGGAGATGGGATGC
1 AACTCAAACATTAGCCTGGAGGAGATGGGATGC
25408202 AA
1 AA
25408204 TGGAAATGAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.35, C:0.18, G:0.29, T:0.18
Consensus pattern (33 bp):
AACTCAAACATTAGCCTGGAGGAGATGGGATGC
Found at i:25410369 original size:20 final size:19
Alignment explanation
Indices: 25410346--25410415 Score: 79
Period size: 20 Copynumber: 3.6 Consensus size: 19
25410336 TTGGTAAAAG
25410346 AAATTCAAAATCATTTTCAA
1 AAATTCAAAATCATTTT-AA
* *
25410366 AAATTTAAAATCATTTTTA
1 AAATTCAAAATCATTTTAA
*
25410385 AAATTCAAAAT-ATTAATAA
1 AAATTCAAAATCATT-TTAA
25410404 AAATTTCAAAAT
1 AAA-TTCAAAAT
25410416 TTATATTTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
18 3 0.07
19 16 0.37
20 24 0.56
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (19 bp):
AAATTCAAAATCATTTTAA
Found at i:25410460 original size:20 final size:20
Alignment explanation
Indices: 25410420--25410460 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
25410410 CAAAATTTAT
*
25410420 ATTTTTAAAAAATTATGAAA
1 ATTTTTAAAAAATTATAAAA
25410440 ATTTTTAAAAAATTATAAAA
1 ATTTTTAAAAAATTATAAAA
25410460 A
1 A
25410461 ATATATAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (20 bp):
ATTTTTAAAAAATTATAAAA
Found at i:25410467 original size:11 final size:10
Alignment explanation
Indices: 25410425--25410469 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
25410415 TTTATATTTT
25410425 TAAAAAATTA
1 TAAAAAATTA
* * *
25410435 TGAAAATTTT
1 TAAAAAATTA
25410445 TAAAAAATTA
1 TAAAAAATTA
25410455 TAAAAAATATA
1 TAAAAAAT-TA
25410466 TAAA
1 TAAA
25410470 GAAAGTTAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
10 22 0.79
11 6 0.21
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:25415423 original size:75 final size:74
Alignment explanation
Indices: 25415324--25415469 Score: 240
Period size: 75 Copynumber: 2.0 Consensus size: 74
25415314 TTGGACTTTT
25415324 GAACTCCTCAATGGTTCATGCACTAGTGCAGTTAACAGACGTGATTAAATGGTTTCTTAAGTTTT
1 GAACTCCTCAATGGTTCATGCACTAGTGCAGTTAACAGACGTGATTAAATGGTTTCTTAAG-TTT
25415389 TGTTTTCCCC
65 TGTTTTCCCC
* * *
25415399 GAACTCCTTAAT-GTTCCGTGCACTAGTGCAGTTAATAGACGTGATTAAATGGTTTCTTAAGTTT
1 GAACTCCTCAATGGTT-CATGCACTAGTGCAGTTAACAGACGTGATTAAATGGTTTCTTAAGTTT
25415463 TGTTTTC
65 TGTTTTC
25415470 TCTATAGGTT
Statistics
Matches: 67, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
74 13 0.19
75 54 0.81
ACGTcount: A:0.24, C:0.18, G:0.19, T:0.39
Consensus pattern (74 bp):
GAACTCCTCAATGGTTCATGCACTAGTGCAGTTAACAGACGTGATTAAATGGTTTCTTAAGTTTT
GTTTTCCCC
Found at i:25419327 original size:33 final size:33
Alignment explanation
Indices: 25419285--25419350 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
25419275 CACTCTTTAC
25419285 ACATCAACTTCTAGATGGATCTAAATAAAAATA
1 ACATCAACTTCTAGATGGATCTAAATAAAAATA
*
25419318 ACATCAACTTCTAGTTGGATCTAAATAAAAATA
1 ACATCAACTTCTAGATGGATCTAAATAAAAATA
25419351 TCTTCTCCCC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.47, C:0.15, G:0.09, T:0.29
Consensus pattern (33 bp):
ACATCAACTTCTAGATGGATCTAAATAAAAATA
Found at i:25426999 original size:20 final size:20
Alignment explanation
Indices: 25426974--25427015 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
25426964 AAAAACTAAG
25426974 AAAATAGTATAATTTAGCTT
1 AAAATAGTATAATTTAGCTT
25426994 AAAATAGTATAATTTAGCTT
1 AAAATAGTATAATTTAGCTT
25427014 AA
1 AA
25427016 TCATTAGTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.48, C:0.05, G:0.10, T:0.38
Consensus pattern (20 bp):
AAAATAGTATAATTTAGCTT
Found at i:25427032 original size:18 final size:19
Alignment explanation
Indices: 25427009--25427047 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
25426999 AGTATAATTT
25427009 AGCTTAA-T-CATTAGTAAA
1 AGCTTAATTACATTA-TAAA
25427027 AGCTTAATTACATTATAAA
1 AGCTTAATTACATTATAAA
25427046 AG
1 AG
25427048 AAAACTAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.37
19 7 0.37
20 5 0.26
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.33
Consensus pattern (19 bp):
AGCTTAATTACATTATAAA
Found at i:25427395 original size:312 final size:312
Alignment explanation
Indices: 25426812--25428034 Score: 1692
Period size: 312 Copynumber: 3.9 Consensus size: 312
25426802 ATTTCTCAAG
* * * * *
25426812 TTCATCATTTCGCCTTCAATTATAATATTTTTCTCATTTCCATAATCCAGGTTTATGACTGCCTT
1 TTCATCATTTCACCTTCAACTATACTATTTTTCTCATTTTCATAATCCAGGTTTATGACTGCCCT
* * * * * * **
25426877 CCCAACAATTTCGTCTCCAGCATTCATACCTCCTTTAAATTGATAAATGACTAAATGAAATGTAA
66 ACCAACAATGTCATCTCCAACAGTCGTACCTCCCCTAAATTGATAAATGACTAAATGAAATGTAA
* * * * * **
25426942 CTTTAAATATCAAAGTGGTTAAAAAAACTAAGAAAATAGTATAATTTAGCTTAAAATAGTATAAT
131 CTTTAGATATAAAAGTGGTT-AAAAAA-T--TAACACA--AT-A---AG---AAAACGGTATAAT
* *
25427007 TTAGCTTAATCATTAGTAAAAGCTTAATTACATTATAAAAGAAAACTAAACCTCCAACTATACCA
183 TTAGCTTAATCATTAGTAAAAGCTTAATTATATTATAAAGGAAAACTAAACCTCCAACTATACCA
25427072 AAAATAACATCCATAACATCACATGATAAGTTCAAAATTCAAATTTTACAAGTCCATGGATAACA
248 AAAATAACATCCATAACATCACATGATAAGTTCAAAATTCAAATTTTACAAGTCCATGGATAACA
*
25427137 TTCATCATTTCACCTTCAACTATACTATTTTTCTCATTTTGATAATCCAGGTTTAT-ACCTGCCC
1 TTCATCATTTCACCTTCAACTATACTATTTTTCTCATTTTCATAATCCAGGTTTATGA-CTGCCC
*
25427201 TACCAACAATGTCATCTCCAACAGTCGTACCTCCCCTCAATTGATAAATGACTAAATGAAATGTA
65 TACCAACAATGTCATCTCCAACAGTCGTACCTCCCCTAAATTGATAAATGACTAAATGAAATGTA
25427266 ACTTTAGATATAAAAGTGGTTAAAAAATTAACACAATAAGAAAACGGTATAATTTAGCTTAATCA
130 ACTTTAGATATAAAAGTGGTTAAAAAATTAACACAATAAGAAAACGGTATAATTTAGCTTAATCA
*
25427331 TTAG-AAAAGGCTTAATTATATTATAAAGGAAAACTAAACCTCCAATTATACCAAAAATAACATC
195 TTAGTAAAA-GCTTAATTATATTATAAAGGAAAACTAAACCTCCAACTATACCAAAAATAACATC
25427395 CATAACATCACATGATAAGTTCAAAATTCAAATTTTACAAGTCCATGGATAACA
259 CATAACATCACATGATAAGTTCAAAATTCAAATTTTACAAGTCCATGGATAACA
*
25427449 TTCATCATTTCACCTTCAACTATACTATTTTTCTCATTTTGATAATCCAGGTTTAT-ACCTGCCC
1 TTCATCATTTCACCTTCAACTATACTATTTTTCTCATTTTCATAATCCAGGTTTATGA-CTGCCC
*
25427513 TACCAACAATGTCATCTCCAACAGTCGTACCTCCCCTCAATTGATAAATGACTAAATGAAATGTA
65 TACCAACAATGTCATCTCCAACAGTCGTACCTCCCCTAAATTGATAAATGACTAAATGAAATGTA
25427578 ACTTTAGATATAAAAGTGGTTAAAAAATTAACACAATAAGAAAACGGTATAATTTAGCTTAATCA
130 ACTTTAGATATAAAAGTGGTTAAAAAATTAACACAATAAGAAAACGGTATAATTTAGCTTAATCA
*
25427643 TTAG-AAAAGGCTTAATTATATTATAAAGGAAAACTAAACCTCCAATTATACCAAAAATAACATC
195 TTAGTAAAA-GCTTAATTATATTATAAAGGAAAACTAAACCTCCAACTATACCAAAAATAACATC
** * * * *
25427707 CATAACATCACATGATAAGTTTGAAATTCAAATTTCACAATTCCTTAGATAACA
259 CATAACATCACATGATAAGTTCAAAATTCAAATTTTACAAGTCCATGGATAACA
** * ** * *
25427761 TTCATCATTTTGCCTTCAATTATACT-TCTTTTCTCATTTTCATAATCCAAATTTATGACTACTC
1 TTCATCATTTCACCTTCAACTATACTAT-TTTTCTCATTTTCATAATCCAGGTTTATGACTGCCC
** * *** *
25427825 TACCAACAATGTTGTCTCCAACATTCGTACCTCCCCTAAACCAATAAATGACTAAATGAAAAGTA
65 TACCAACAATGTCATCTCCAACAGTCGTACCTCCCCTAAATTGATAAATGACTAAATGAAATGTA
* ** *
25427890 ACTTTAGATATCAAAGTGGTTTTCAAAATTAACACAATAA-AAAA--GTACAATTTAGCTTAATC
130 ACTTTAGATATAAAAGTGG-TTAAAAAATTAACACAATAAGAAAACGGTATAATTTAGCTTAATC
*
25427952 ATTAGTAAAA-CTTTAATTATATTATAATA-GAAAACTAAACTTCCAACTATACCAAAAATAACA
194 ATTAGTAAAAGC-TTAATTATATTATAA-AGGAAAACTAAACCTCCAACTATACCAAAAATAACA
* *
25428015 TCGATAACATCACATAATAA
257 TCCATAACATCACATGATAA
25428035 TGTCATTTTT
Statistics
Matches: 835, Mismatches: 55, Indels: 31
0.91 0.06 0.03
Matches are distributed among these distances:
309 1 0.00
310 87 0.10
311 10 0.01
312 570 0.68
313 19 0.02
315 2 0.00
318 1 0.00
319 2 0.00
321 4 0.00
323 1 0.00
324 7 0.01
325 131 0.16
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (312 bp):
TTCATCATTTCACCTTCAACTATACTATTTTTCTCATTTTCATAATCCAGGTTTATGACTGCCCT
ACCAACAATGTCATCTCCAACAGTCGTACCTCCCCTAAATTGATAAATGACTAAATGAAATGTAA
CTTTAGATATAAAAGTGGTTAAAAAATTAACACAATAAGAAAACGGTATAATTTAGCTTAATCAT
TAGTAAAAGCTTAATTATATTATAAAGGAAAACTAAACCTCCAACTATACCAAAAATAACATCCA
TAACATCACATGATAAGTTCAAAATTCAAATTTTACAAGTCCATGGATAACA
Found at i:25431047 original size:12 final size:13
Alignment explanation
Indices: 25431024--25431050 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
25431014 GATGAGAGGC
25431024 TTAGATTTTTTTT
1 TTAGATTTTTTTT
25431037 TTAGATTTTTTTT
1 TTAGATTTTTTTT
25431050 T
1 T
25431051 GTTTGAGGGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (13 bp):
TTAGATTTTTTTT
Found at i:25431322 original size:25 final size:25
Alignment explanation
Indices: 25431291--25431417 Score: 148
Period size: 26 Copynumber: 5.0 Consensus size: 25
25431281 TTTTATCATC
25431291 ATTTATTTTAAGTTTTATATATATT
1 ATTTATTTTAAGTTTTATATATATT
25431316 ATTTATTTTAAGTTTTATATATATT
1 ATTTATTTTAAGTTTTATATATATT
*
25431341 ATTTATTTTAAGCTGTTT-TACATATT
1 ATTTATTTTAAG-T-TTTATATATATT
* * * *
25431367 ATTTATTTAAATTTCTTTTATATGTT
1 ATTTATTTTAAGTT-TTATATATATT
* *
25431393 ATTTATTGTAAATTATTATATATAT
1 ATTTATTTTAAGTT-TTATATATAT
25431418 ATCTTTCAAA
Statistics
Matches: 87, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
24 1 0.01
25 40 0.46
26 43 0.49
27 3 0.03
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.61
Consensus pattern (25 bp):
ATTTATTTTAAGTTTTATATATATT
Found at i:25431505 original size:38 final size:39
Alignment explanation
Indices: 25431463--25431560 Score: 93
Period size: 33 Copynumber: 2.6 Consensus size: 39
25431453 TATATGTTAT
*
25431463 TTTTTATTATTTATTTTAAATTGTTTTATTGT-TTTG-TA-
1 TTTTTATTATTTATTTT-AATTGTTTTATT-TATTTGAAAC
* *
25431501 TTTTTAGT-TTT-TTTT-A-TGTTTTGTTTATTTGAAAC
1 TTTTTATTATTTATTTTAATTGTTTTATTTATTTGAAAC
25431536 TTTTTATTATTTATTTTGAATTGTT
1 TTTTTATTATTTATTTT-AATTGTT
25431561 CTTACAAATC
Statistics
Matches: 48, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
32 1 0.02
33 12 0.25
34 2 0.04
35 7 0.15
36 7 0.15
37 7 0.15
38 7 0.15
39 1 0.02
40 4 0.08
ACGTcount: A:0.19, C:0.01, G:0.09, T:0.70
Consensus pattern (39 bp):
TTTTTATTATTTATTTTAATTGTTTTATTTATTTGAAAC
Found at i:25432185 original size:15 final size:16
Alignment explanation
Indices: 25432167--25432201 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
25432157 AAAATATTTC
*
25432167 AAAAAAA-AGGAAAAG
1 AAAAAAAGAGAAAAAG
25432182 AAAAAAAGAGAAAAAG
1 AAAAAAAGAGAAAAAG
25432198 AAAA
1 AAAA
25432202 GGAAAGATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (16 bp):
AAAAAAAGAGAAAAAG
Found at i:25433165 original size:44 final size:44
Alignment explanation
Indices: 25433102--25433318 Score: 123
Period size: 44 Copynumber: 4.7 Consensus size: 44
25433092 CATGGTGAAT
* *
25433102 CTTATTTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGC
* * * * * * **
25433146 CTTATCTTCCTGAAGTTGCAGCGGAGCAAACTGAAGACAGCGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-CCAGC
* * * * **
25433191 CTTATGTCCCTGACGTTGCAGTGGAACAGATTAAAGCTACAAATTATGGC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC--C--ACCA--GC
* * *
25433241 GGATCTTATCTTCCTGAAGTTACAGTGGAGTAGATTGAAGCCACCAG-
1 ----CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGC
*
25433288 CTTAATCTCCCT-ACAGTTGCAGCGGAGCAGA
1 CTT-ATCTCCCTGA-AGTTGCAGTGGAGCAGA
25433319 CTAAGGACAG
Statistics
Matches: 124, Mismatches: 36, Indels: 26
0.67 0.19 0.14
Matches are distributed among these distances:
43 4 0.03
44 53 0.43
45 30 0.24
47 1 0.01
48 2 0.02
49 1 0.01
50 2 0.02
52 1 0.01
54 30 0.24
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.25
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGC
Found at i:25433358 original size:143 final size:141
Alignment explanation
Indices: 25433100--25433555 Score: 595
Period size: 143 Copynumber: 3.2 Consensus size: 141
25433090 ATCATGGTGA
*
25433100 ATCTTAT-TTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTTCCTGAAGTTG
1 ATCTTATCTT-CCTAAAGTTGCAGTGGAGCAGATTGAAGCCACCAG-CTTATCTCCCT-AAGTTG
* * * * *
25433164 CAGCGGAGCAAACTGAAGACAGCGAATCTTATGTCCCTGACGTTGCAGTGGAACAGATTAAAGCT
63 CAGCGGAGCAGACTGAAGACAGTGAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAGCT
25433229 ACAAATTATGGCGG
128 ACAAATTATGGCGG
* * *
25433243 ATCTTATCTTCCTGAAGTTACAGTGGAGTAGATTGAAGCCACCAGCTTAATCTCCCTACAGTTGC
1 ATCTTATCTTCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCTT-ATCTCCCTA-AGTTGC
* ** *
25433308 AGCGGAGCAGACT-AAGGACAGTGAATCTCATTTCCCTGGTGTTGTAGTGGAACATATTAAAGCT
64 AGCGGAGCAGACTGAA-GACAGTGAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAGCT
25433372 ACAAATTATGGCGG
128 ACAAATTATGGCGG
* *
25433386 ATCTTATCTTCCTTAAGTTGCAGTGGAGCAGATTGAAGCCAGC--CTTATCTCCCTAAAGTTGCA
1 ATCTTATCTTCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCTTATCTCCCT-AAGTTGCA
* * * *
25433449 GCGGAGTAGACTGAAGACAGTAAATCTTATTTCCTTGAAGTTGTAGTGGAACAGATTAAAGCTAT
65 GCGGAGCAGACTGAAGACAGTGAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAGCTAC
25433514 AAATTA---CGG
130 AAATTATGGCGG
**
25433523 ATCTTATC-TCTCTAAAGTTGCAGTAAAGCAGAT
1 ATCTTATCTTC-CTAAAGTTGCAGTGGAGCAGAT
25433556 CATATCAAAC
Statistics
Matches: 279, Mismatches: 27, Indels: 20
0.86 0.08 0.06
Matches are distributed among these distances:
136 2 0.01
137 30 0.11
140 75 0.27
141 6 0.02
142 6 0.02
143 158 0.57
144 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (141 bp):
ATCTTATCTTCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCTTATCTCCCTAAGTTGCAG
CGGAGCAGACTGAAGACAGTGAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAGCTACA
AATTATGGCGG
Found at i:25433718 original size:44 final size:44
Alignment explanation
Indices: 25433612--25433826 Score: 191
Period size: 44 Copynumber: 4.8 Consensus size: 44
25433602 ATAAACCAAT
* * *
25433612 CTTATCTCCCTGAAGTTGTAGTGGAGCAGATAGAAGATGGGCTACAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGAT-TAA-A---GCTACAAAC
* *
25433661 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCACAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAAC
* * * * *
25433705 CTTATCTCCCTGAAGTT-CAGTAGAGCAGGTTAAAGATACCAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAAC
* * * * *
25433748 CTTATCTCTCTAAAGTTGTAGTGGAGCAGATTGAAGCTACTAATC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTAC-AAAC
* * * *
25433793 C-TATTTTCTTGAAGTTGCAGTGGAGCAGACTAAA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
25433827 ACAGTGAATC
Statistics
Matches: 134, Mismatches: 30, Indels: 9
0.77 0.17 0.05
Matches are distributed among these distances:
43 34 0.25
44 66 0.49
45 2 0.01
47 1 0.01
48 2 0.01
49 29 0.22
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAAC
Found at i:25433806 original size:87 final size:88
Alignment explanation
Indices: 25433658--25433820 Score: 204
Period size: 87 Copynumber: 1.9 Consensus size: 88
25433648 ATGGGCTACA
* *
25433658 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCACAAACCTTATCTCCCTGAAGTT-
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCACAAACCTTATCTCCCTGAAGTTG
25433722 CAGTAGAGCAGGTTAAAGATACC
66 CAGTAGAGCAGGTTAAAGATACC
* * * * * * * *
25433745 AATCTTATCTCTCTAAAGTTGTAGTGGAGCAGATTGAAGCTACTAATCC-TATTTTCTTGAAGTT
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCAC-AAACCTTATCTCCCTGAAGTT
*
25433809 GCAGTGGAGCAG
65 GCAGTAGAGCAG
25433821 ACTAAAACAG
Statistics
Matches: 63, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
87 49 0.78
88 14 0.22
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (88 bp):
AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCACAAACCTTATCTCCCTGAAGTTG
CAGTAGAGCAGGTTAAAGATACC
Found at i:25435441 original size:26 final size:26
Alignment explanation
Indices: 25435392--25435460 Score: 66
Period size: 26 Copynumber: 2.6 Consensus size: 26
25435382 AGTTTTATAT
* * *
25435392 ATATTATTTATTTTAAGCTGTTTTCC
1 ATATTATTTATTTAAAGCTCTTTTAC
** *
25435418 ATATTATTTATTTAAATTTCTTTTAT
1 ATATTATTTATTTAAAGCTCTTTTAC
*
25435444 ATGTTATTTATTGTAAA
1 ATATTATTTATT-TAAA
25435461 CTATTATATA
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
26 31 0.89
27 4 0.11
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.59
Consensus pattern (26 bp):
ATATTATTTATTTAAAGCTCTTTTAC
Found at i:25435491 original size:17 final size:17
Alignment explanation
Indices: 25435469--25435502 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
25435459 AACTATTATA
*
25435469 TATATATCTTTCAAATT
1 TATATATATTTCAAATT
*
25435486 TATATATATTTTAAATT
1 TATATATATTTCAAATT
25435503 GTTTTATATG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (17 bp):
TATATATATTTCAAATT
Found at i:25435491 original size:19 final size:17
Alignment explanation
Indices: 25435467--25435502 Score: 54
Period size: 19 Copynumber: 2.0 Consensus size: 17
25435457 TAAACTATTA
25435467 TATATATATCTTTCAAATT
1 TATATATAT-TTT-AAATT
25435486 TATATATATTTTAAATT
1 TATATATATTTTAAATT
25435503 GTTTTATATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 3 0.18
19 9 0.53
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.56
Consensus pattern (17 bp):
TATATATATTTTAAATT
Found at i:25435532 original size:25 final size:24
Alignment explanation
Indices: 25435504--25435567 Score: 69
Period size: 25 Copynumber: 2.7 Consensus size: 24
25435494 TTTTAAATTG
*
25435504 TTTTATATGTTTTTTTCTTTATTTA
1 TTTTATATGTTTTTTT-GTTATTTA
* *
25435529 TTTTAAATTGTTTTATTGTTATTTA
1 TTTTATA-TGTTTTTTTGTTATTTA
25435554 TTTT-TA-GTTTTTTT
1 TTTTATATGTTTTTTT
25435568 ATATTTTGTT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
22 7 0.21
24 1 0.03
25 17 0.52
26 8 0.24
ACGTcount: A:0.17, C:0.02, G:0.06, T:0.75
Consensus pattern (24 bp):
TTTTATATGTTTTTTTGTTATTTA
Found at i:25435568 original size:25 final size:25
Alignment explanation
Indices: 25435522--25435612 Score: 73
Period size: 25 Copynumber: 3.8 Consensus size: 25
25435512 GTTTTTTTCT
25435522 TTATTTATTTTAAATTGTTTTATTG
1 TTATTTATTTTAAATTGTTTTATTG
* * * *
25435547 TTATTTATTTTTAGTTTTTTTATATT
1 TTATTTATTTTAAATTGTTTTAT-TG
* * *
25435573 TTGTTTATTTGAAACT-TTTTA---
1 TTATTTATTTTAAATTGTTTTATTG
*
25435594 TTATTTATTTTGAATTGTT
1 TTATTTATTTTAAATTGTT
25435613 CTTACAAATC
Statistics
Matches: 51, Mismatches: 13, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
21 12 0.24
22 2 0.04
25 25 0.49
26 12 0.24
ACGTcount: A:0.22, C:0.01, G:0.08, T:0.69
Consensus pattern (25 bp):
TTATTTATTTTAAATTGTTTTATTG
Found at i:25438889 original size:99 final size:98
Alignment explanation
Indices: 25438646--25438939 Score: 295
Period size: 99 Copynumber: 3.0 Consensus size: 98
25438636 CATCTTCGAG
* * * * * *
25438646 GCTACTTCCAACATGACCGTT-AAGTGTTTTTTCTTGAAGTGAGTTAACCTTACACTCCTAGTAA
1 GCTACTTCCAATATGACCGTTAAATTG-ATTTTCTTGAACTGAGTTAACCCTACACTCCAAGTAA
* * * *
25438710 ACCGATTTAGCTATATAAACTCCATCTTTTGGGAG
65 ACCGATTAAG-TTTATAAACTCCATCTTTTGGAAA
* * *** * ** *
25438745 GCTACTTCCAATATGACCATTGAGATT-ATTGAATTGAACTAAGTTAACCCTACGTTTCAAGTAA
1 GCTACTTCCAATATGACCGTT-AAATTGATTTTCTTGAACTGAGTTAACCCTACACTCCAAGTAA
* * *
25438809 ATCGATTGAGTTGTATATACTCCATCTTTTGGAAA
65 ACCGATTAAGTT-TATAAACTCCATCTTTTGGAAA
* * * *
25438844 GCTACTTCCAATATGACTGTTAAATTGATTTTCTTCAACTGAGTTAACCCTGCACTCCGAGTAAA
1 GCTACTTCCAATATGACCGTTAAATTGATTTTCTTGAACTGAGTTAACCCTACACTCCAAGTAAA
25438909 CCGATTAAGTCTTATAAACTCCATCTTTTGG
66 CCGATTAAGT-TTATAAACTCCATCTTTTGG
25438940 GAGCATTTCT
Statistics
Matches: 153, Mismatches: 37, Indels: 10
0.76 0.19 0.05
Matches are distributed among these distances:
98 5 0.03
99 145 0.95
100 1 0.01
101 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.35
Consensus pattern (98 bp):
GCTACTTCCAATATGACCGTTAAATTGATTTTCTTGAACTGAGTTAACCCTACACTCCAAGTAAA
CCGATTAAGTTTATAAACTCCATCTTTTGGAAA
Found at i:25445199 original size:38 final size:38
Alignment explanation
Indices: 25445157--25445233 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
25445147 AGCTACTAGG
*
25445157 GAAAGTATCAGCAGAGGAGGGAAAAAAGATAAGAAAAT
1 GAAAGAATCAGCAGAGGAGGGAAAAAAGATAAGAAAAT
25445195 GAAAGAATCAGCAGAGGAGGGAAAAAAGATAAGAAAAT
1 GAAAGAATCAGCAGAGGAGGGAAAAAAGATAAGAAAAT
25445233 G
1 G
25445234 TCAGAAAAAG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.56, C:0.05, G:0.30, T:0.09
Consensus pattern (38 bp):
GAAAGAATCAGCAGAGGAGGGAAAAAAGATAAGAAAAT
Found at i:25447272 original size:4 final size:4
Alignment explanation
Indices: 25447258--25447289 Score: 55
Period size: 4 Copynumber: 7.8 Consensus size: 4
25447248 TTAATTGAGA
25447258 AATT AATTT AATT AATT AATT AATT AATT AAT
1 AATT AA-TT AATT AATT AATT AATT AATT AAT
25447290 ATTTTTGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
AATT
Found at i:25448089 original size:21 final size:21
Alignment explanation
Indices: 25448065--25448108 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
25448055 GAGGTCAAGG
* *
25448065 GGCATTAGAAGAGCTAGTCTA
1 GGCATAAGAAGAGCTAGGCTA
*
25448086 GGCATAAGAGGAGCTAGGCTA
1 GGCATAAGAAGAGCTAGGCTA
25448107 GG
1 GG
25448109 TTAATTGAAT
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:0.32, C:0.14, G:0.36, T:0.18
Consensus pattern (21 bp):
GGCATAAGAAGAGCTAGGCTA
Done.