Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 225 of 259
Found at i:71097748 original size:186 final size:182
Alignment explanation
Indices: 71097360--71097779 Score: 624
Period size: 186 Copynumber: 2.3 Consensus size: 182
71097350 CTTAACCGGC
* * * * *
71097360 TAGCATCATTATTATTTATATTGTAATTTATTTTATAATAATATTCATATGGTGGATTTAGTTGT
1 TAGCATCATTATTATTTATATTGTGATTTGTTTTATAGTAATATACATATGGTGGATTTAATTGT
* *
71097425 CACATTATTTTATATTAATGGTAGGAAAGTAGGGACATTGAAAATAAATCGTAATGTGTTATTTC
66 CACATTATTTTATACTAATGGTAGGAAAGTAGGGACATTGAAAATAAATCGCAATGTGTTATTTC
* *
71097490 TTACAAAAATTTAATTTCAAATTAGATTAATGCAATATGAGGAGACTTAATT
131 TTACAAAAATTTAATTTCAAATTACATTAATGCAATATGAGGACACTTAATT
* * *
71097542 TAGTATGATTATTATTTATATTGTGATTTGTTTTATAGTAATATACATATGGTGGTTTTATAATT
1 TAGCATCATTATTATTTATATTGTGATTTGTTTTATAGTAATATACATATGGTGG-ATT-TAATT
* * *
71097607 GTTACATTATTTTATACTAATGGTAGGAAAGTAGGGACATTGAAAGTAAATCGCAATGTGTGGTT
64 GTCACATTATTTTATACTAATGGTAGGAAAGTAGGGACATTGAAAATAAATCGCAATGTGT--TA
* * * *
71097672 TTTTTTATAATAATTTAATTTCAAATTACATTATTGCAATATGAGGACACTTAATT
127 TTTCTTACAAAAATTTAATTTCAAATTACATTAATGCAATATGAGGACACTTAATT
*
71097728 TAGCATCATTATTATTTATATTGTGATTTGTTTTATCGTAATATACATATGG
1 TAGCATCATTATTATTTATATTGTGATTTGTTTTATAGTAATATACATATGG
71097780 ATTTATAATT
Statistics
Matches: 212, Mismatches: 22, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
182 49 0.23
183 2 0.01
184 61 0.29
186 100 0.47
ACGTcount: A:0.34, C:0.06, G:0.15, T:0.44
Consensus pattern (182 bp):
TAGCATCATTATTATTTATATTGTGATTTGTTTTATAGTAATATACATATGGTGGATTTAATTGT
CACATTATTTTATACTAATGGTAGGAAAGTAGGGACATTGAAAATAAATCGCAATGTGTTATTTC
TTACAAAAATTTAATTTCAAATTACATTAATGCAATATGAGGACACTTAATT
Found at i:71100227 original size:19 final size:20
Alignment explanation
Indices: 71100192--71100237 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 20
71100182 CGGAAAATGA
71100192 TTTCTGGAAAATAATTTACT
1 TTTCTGGAAAATAATTTACT
*
71100212 TTTCTGG-AAATGATTTACT
1 TTTCTGGAAAATAATTTACT
71100231 TTTCTGG
1 TTTCTGG
71100238 TGTTTGGATG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.26, C:0.11, G:0.15, T:0.48
Consensus pattern (20 bp):
TTTCTGGAAAATAATTTACT
Found at i:71100341 original size:18 final size:18
Alignment explanation
Indices: 71100318--71100355 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
71100308 CTGTTTTTAC
71100318 ATATATTAATAAAATTAT
1 ATATATTAATAAAATTAT
71100336 ATATATTAATAAAATTAT
1 ATATATTAATAAAATTAT
71100354 AT
1 AT
71100356 TTTAAATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATATATTAATAAAATTAT
Found at i:71100360 original size:16 final size:16
Alignment explanation
Indices: 71100318--71100360 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 16
71100308 CTGTTTTTAC
*
71100318 ATATATTAATAAAATT
1 ATATTTTAATAAAATT
71100334 ATATATATTAATAAAATT
1 ATAT-T-TTAATAAAATT
71100352 ATATTTTAA
1 ATATTTTAA
71100361 ATTATTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 8 0.33
17 1 0.04
18 15 0.62
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATATTTTAATAAAATT
Found at i:71105064 original size:6 final size:6
Alignment explanation
Indices: 71105053--71105077 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
71105043 TTTGCAACCT
71105053 AAGGGG AAGGGG AAGGGG AAGGGG A
1 AAGGGG AAGGGG AAGGGG AAGGGG A
71105078 GAAGAATGTG
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:0.36, C:0.00, G:0.64, T:0.00
Consensus pattern (6 bp):
AAGGGG
Found at i:71106157 original size:25 final size:26
Alignment explanation
Indices: 71106114--71106186 Score: 87
Period size: 26 Copynumber: 2.8 Consensus size: 26
71106104 CTTTTTAAAA
*
71106114 AAAATGTTTTATTATTATTATTCAAT-TT
1 AAAATTTTTTA-TA-TATTATTC-ATGTT
71106142 -AAATTTTTTATATATTATTCATGTT
1 AAAATTTTTTATATATTATTCATGTT
*
71106167 AAAACTTTTTATATATTATT
1 AAAATTTTTTATATATTATT
71106187 ATTTATTTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
24 2 0.05
25 10 0.24
26 20 0.49
27 9 0.22
ACGTcount: A:0.36, C:0.04, G:0.03, T:0.58
Consensus pattern (26 bp):
AAAATTTTTTATATATTATTCATGTT
Found at i:71106204 original size:29 final size:25
Alignment explanation
Indices: 71106120--71106205 Score: 84
Period size: 28 Copynumber: 3.2 Consensus size: 25
71106110 AAAAAAAATG
*
71106120 TTTTATTAT-TATTATTCAATTTAAA
1 TTTT-TTATATATTATTCATTTTAAA
*
71106145 TTTTTTATATATTATTCATGTTAAAA
1 TTTTTTATATATTATTCAT-TTTAAA
*
71106171 CTTTTTATATATTATTATTTATTTTAAA
1 -TTTTT-TATA-TATTATTCATTTTAAA
71106199 GTTTTTT
1 -TTTTTT
71106206 TCCACATATT
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
24 4 0.08
25 13 0.25
26 5 0.10
27 6 0.12
28 14 0.27
29 9 0.18
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.63
Consensus pattern (25 bp):
TTTTTTATATATTATTCATTTTAAA
Found at i:71106377 original size:23 final size:24
Alignment explanation
Indices: 71106351--71106396 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
71106341 CTATTCACTC
71106351 TAAACTTAC-TTTATATATTATTT
1 TAAACTTACTTTTATATATTATTT
* *
71106374 TAAACTTGCTTTTATGTATTATT
1 TAAACTTACTTTTATATATTATT
71106397 GTTTTATTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.30, C:0.09, G:0.04, T:0.57
Consensus pattern (24 bp):
TAAACTTACTTTTATATATTATTT
Found at i:71106609 original size:27 final size:27
Alignment explanation
Indices: 71106560--71106614 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 27
71106550 ATTTATTATC
*
71106560 ATTTTAAATTTGTTTTTACATTTTGTTT
1 ATTTTAAATTTGTTTATACATTTT-TTT
71106588 ATTTT-AATTTGCTTTATA-ATTTTTTT
1 ATTTTAAATTTG-TTTATACATTTTTTT
71106614 A
1 A
71106615 ATTGTTATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 4 0.16
27 11 0.44
28 10 0.40
ACGTcount: A:0.24, C:0.04, G:0.05, T:0.67
Consensus pattern (27 bp):
ATTTTAAATTTGTTTATACATTTTTTT
Found at i:71110220 original size:7 final size:7
Alignment explanation
Indices: 71110208--71110233 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
71110198 AATTTAATTT
71110208 TTTAAAA
1 TTTAAAA
71110215 TTTAAAA
1 TTTAAAA
71110222 TTTAAAA
1 TTTAAAA
71110229 TTTAA
1 TTTAA
71110234 GTTTAATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (7 bp):
TTTAAAA
Found at i:71113320 original size:24 final size:24
Alignment explanation
Indices: 71113288--71113335 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
71113278 AAACTTAAAC
71113288 CAGCAGTGATCTGTGACTCAAAGT
1 CAGCAGTGATCTGTGACTCAAAGT
*
71113312 CAGCAGTGATTTGTGACTCAAAGT
1 CAGCAGTGATCTGTGACTCAAAGT
71113336 TTTTGTTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (24 bp):
CAGCAGTGATCTGTGACTCAAAGT
Found at i:71114414 original size:101 final size:102
Alignment explanation
Indices: 71114236--71114422 Score: 252
Period size: 101 Copynumber: 1.8 Consensus size: 102
71114226 AGACATGAGT
* * * *
71114236 TGCTAATGAGATTCTGTTTTTTAACTTACTGTTTCCATGTTGGGGCTTCGTAACCATCTATCTGT
1 TGCTAATGAGATTCTCTCTTTTAACTCACTGTATCCATGTTGGGGCTTCGTAACCATCTATCTGT
* *
71114301 GGTAACACACACTGCCTTTGTGGTAAAACACGCAAGC
66 GGTAAAACACACTGCATTTGTGGTAAAACACGCAAGC
* * *
71114338 TGCTAATGAGATTC-CTCTTTTAACTCACTGATAT-CATGTTGGGGCTTGGTAACCATCTTTTTG
1 TGCTAATGAGATTCTCTCTTTTAACTCACTG-TATCCATGTTGGGGCTTCGTAACCATCTATCTG
* *
71114401 TTGTAAAATACACTGCATTTGT
65 TGGTAAAACACACTGCATTTGT
71114423 TCAGGTTTTC
Statistics
Matches: 73, Mismatches: 11, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
101 57 0.78
102 16 0.22
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.38
Consensus pattern (102 bp):
TGCTAATGAGATTCTCTCTTTTAACTCACTGTATCCATGTTGGGGCTTCGTAACCATCTATCTGT
GGTAAAACACACTGCATTTGTGGTAAAACACGCAAGC
Found at i:71120773 original size:15 final size:15
Alignment explanation
Indices: 71120755--71120810 Score: 64
Period size: 15 Copynumber: 3.9 Consensus size: 15
71120745 ATCCACTGCC
71120755 TCATCATCATCGTCG
1 TCATCATCATCGTCG
*
71120770 TCATCATCATCCTCG
1 TCATCATCATCGTCG
*
71120785 TC--C-TCATCGTCC
1 TCATCATCATCGTCG
*
71120797 TCATCTTCATCGTC
1 TCATCATCATCGTC
71120811 ATCCTCTTCT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
12 9 0.26
13 1 0.03
14 1 0.03
15 24 0.69
ACGTcount: A:0.16, C:0.39, G:0.09, T:0.36
Consensus pattern (15 bp):
TCATCATCATCGTCG
Found at i:71127110 original size:6 final size:6
Alignment explanation
Indices: 71127099--71127124 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
71127089 AAAAAAAAAT
71127099 ATATAA ATATAA ATATAA ATATAA AT
1 ATATAA ATATAA ATATAA ATATAA AT
71127125 CAAAATTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (6 bp):
ATATAA
Found at i:71133950 original size:13 final size:13
Alignment explanation
Indices: 71133934--71133959 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
71133924 TTGAGATAAT
71133934 GCTGTGTAGTGTA
1 GCTGTGTAGTGTA
71133947 GCTGTGTAGTGTA
1 GCTGTGTAGTGTA
71133960 AGTTCACTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.08, G:0.38, T:0.38
Consensus pattern (13 bp):
GCTGTGTAGTGTA
Found at i:71138546 original size:21 final size:20
Alignment explanation
Indices: 71138522--71138560 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
71138512 TATTATAAAA
71138522 TTTATTTATTTTTAATAAAGT
1 TTTA-TTATTTTTAATAAAGT
*
71138543 TTTATTCTTTTTAATAAA
1 TTTATTATTTTTAATAAA
71138561 AAAAACTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (20 bp):
TTTATTATTTTTAATAAAGT
Found at i:71143784 original size:28 final size:28
Alignment explanation
Indices: 71143744--71143807 Score: 119
Period size: 28 Copynumber: 2.2 Consensus size: 28
71143734 AATATACTCC
71143744 TATTTAAGAGTTAAGAAGAACTATCTCT
1 TATTTAAGAGTTAAGAAGAACTATCTCT
71143772 TATTTAAGAGTTAAGAAGAACTATCTCT
1 TATTTAAGAGTTAAGAAGAACTATCTCT
71143800 TATCTTAA
1 TAT-TTAA
71143808 ATAGGAAGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 31 0.89
29 4 0.11
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.38
Consensus pattern (28 bp):
TATTTAAGAGTTAAGAAGAACTATCTCT
Found at i:71145297 original size:66 final size:66
Alignment explanation
Indices: 71145221--71145596 Score: 207
Period size: 66 Copynumber: 5.7 Consensus size: 66
71145211 AGCTGTCACG
* * * *
71145221 TCCTTCGCTTCCTTCGCTTTTTCAGCTGCATAGTCTTTATACTCGGTCGCTTTTTCCATTGTAGT
1 TCCTTTGCTTCCTTAGCTTTCTCAGCTGCATAGTCTTTATACTCGGTCGCTTTTTCCACTGTAGT
71145286 A
66 A
* ** * * * ** * * * * *
71145287 TCTTTTGCTTCCTTAGCTTTCTGTGCTGCGTAGTCTGTAAACTCGGAAGCCTTCTGCGCTGTCGT
1 TCCTTTGCTTCCTTAGCTTTCTCAGCTGCATAGTCTTTATACTCGGTCGCTTTTTCCACTGTAGT
71145352 A
66 A
* * * * * * **
71145353 TCCTTTGCTCCCTTGGCTTTCTCAGCTGCATAGTCCTTATATTCAGTCGC-TTTTCCAATTGCGG
1 TCCTTTGCTTCCTTAGCTTTCTCAGCTGCATAGTCTTTATACTCGGTCGCTTTTTCC-ACTGTAG
*
71145417 CA
65 TA
* ** * * * * ** ***
71145419 TCCTTTGCATCCTTAGCTTTCTGTGCTGCATAATCTGTGTACTCAGAAGCTTTTTGGGCTGTAGT
1 TCCTTTGCTTCCTTAGCTTTCTCAGCTGCATAGTCTTTATACTCGGTCGCTTTTTCCACTGTAGT
71145484 A
66 A
* * * * * * * * * ** *
71145485 TCTCTTT-CCTCCTTGGCTTTCTGAGCTGTATAATCCTTATATTCAGCCGCTTTCCCCATTGTAG
1 TC-CTTTGCTTCCTTAGCTTTCTCAGCTGCATAGTCTTTATACTCGGTCGCTTTTTCCACTGTAG
*
71145549 CA
65 TA
* * ** * *
71145551 TCCTTTGCATCCTTAGTTTTCTGTGCTGCATAGCCTGTATACTCGG
1 TCCTTTGCTTCCTTAGCTTTCTCAGCTGCATAGTCTTTATACTCGG
71145597 AAGCCTTCTG
Statistics
Matches: 222, Mismatches: 84, Indels: 8
0.71 0.27 0.03
Matches are distributed among these distances:
65 8 0.04
66 206 0.93
67 8 0.04
ACGTcount: A:0.14, C:0.27, G:0.18, T:0.41
Consensus pattern (66 bp):
TCCTTTGCTTCCTTAGCTTTCTCAGCTGCATAGTCTTTATACTCGGTCGCTTTTTCCACTGTAGT
A
Found at i:71145372 original size:132 final size:131
Alignment explanation
Indices: 71145221--71145638 Score: 469
Period size: 132 Copynumber: 3.2 Consensus size: 131
71145211 AGCTGTCACG
* * * * * * *
71145221 TCCTTCGCTTCCTTCGCTTTTTCAGCTGCATAGTCTTTATACTCGGTCGCTTTTTCCATTGTAGT
1 TCCTTTGC-TCCTTGGCTTTCTCAGCTGCATAGTCCTTATATTCAGTCGCTTTTTCCATTGTAGC
* * * * *
71145286 ATCTTTTGCTTCCTTAGCTTTCTGTGCTGCGTAGTCTGTAAACTCGGAAGCCTTCTGCGCTGTCG
65 ATCCTTTGCATCCTTAGCTTTCTGTGCTGCATAGTCTGTATACTCGGAAGCCTTCTGCGCTGTAG
71145351 TA
130 TA
**
71145353 TCCTTTGCTCCCTTGGCTTTCTCAGCTGCATAGTCCTTATATTCAGTCGC-TTTTCCAATTGCGG
1 TCCTTTGCT-CCTTGGCTTTCTCAGCTGCATAGTCCTTATATTCAGTCGCTTTTTCC-ATTGTAG
* * * * * *
71145417 CATCCTTTGCATCCTTAGCTTTCTGTGCTGCATAATCTGTGTACTCAGAAGCTTTTTGGGCTGTA
64 CATCCTTTGCATCCTTAGCTTTCTGTGCTGCATAGTCTGTATACTCGGAAGCCTTCTGCGCTGTA
71145482 GTA
129 GTA
* * * * * **
71145485 TCTCTTTCCTCCTTGGCTTTCTGAGCTGTATAATCCTTATATTCAGCCGCTTTCCCCATTGTAGC
1 TC-CTTTGCTCCTTGGCTTTCTCAGCTGCATAGTCCTTATATTCAGTCGCTTTTTCCATTGTAGC
* * * * *
71145550 ATCCTTTGCATCCTTAGTTTTCTGTGCTGCATAGCCTGTATACTCGGAAGCCTTCTGTGCAGTGG
65 ATCCTTTGCATCCTTAGCTTTCTGTGCTGCATAGTCTGTATACTCGGAAGCCTTCTGCGCTGTAG
*
71145615 TG
130 TA
* *
71145617 TCTTTTGCGTCCTTAGCTTTCT
1 TCCTTTGC-TCCTTGGCTTTCT
71145639 GGGTAGCGTA
Statistics
Matches: 238, Mismatches: 43, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
131 11 0.05
132 217 0.91
133 10 0.04
ACGTcount: A:0.13, C:0.27, G:0.19, T:0.41
Consensus pattern (131 bp):
TCCTTTGCTCCTTGGCTTTCTCAGCTGCATAGTCCTTATATTCAGTCGCTTTTTCCATTGTAGCA
TCCTTTGCATCCTTAGCTTTCTGTGCTGCATAGTCTGTATACTCGGAAGCCTTCTGCGCTGTAGT
A
Found at i:71145557 original size:198 final size:199
Alignment explanation
Indices: 71145419--71145864 Score: 643
Period size: 198 Copynumber: 2.3 Consensus size: 199
71145409 AATTGCGGCA
* *
71145419 TCCTTTGCATCCTTAGCTTTCTGTGCT-GCATAATCTGTGTACTCAGAAGCTTTTTGGGCTGTAG
1 TCCTTTGCATCCTTAGCTTTCTG-GCTAGCATAATCTGTATACTCAGAAGCCTTTTGGGCTGTAG
* *
71145483 TATCTCTTTCCTCCTTGGCTTTCT-GAGCTGTATAATCCTTATATTCAGCCGCTTTCCCCATTGT
65 TATCTCTTGCCTCCTTGGCTTTCTCG-GCGGTATAATCCTTATATTCAGCCGCTTTCCCCATTGT
* *
71145547 AGCATCCTTTGCAT-CCTTAGTTTTCTGTGCTGCATAG-CCTGTATACTCGGAAGCCTTCTGTGC
129 AGCATCCTTTGC-TCCCTTAGTTTTCTGTGCTGCATAGTCCTGTATACTCAGAAGCCTTCTGTCC
71145610 AGTGGTG
193 AGTGGTG
* * * * *
71145617 TCTTTTGCGTCCTTAGCTTTCTGGGTAGCGTAATCTGTATACTCAGAAGCCTTTTGGGCTGTGGT
1 TCCTTTGCATCCTTAGCTTTCTGGCTAGCATAATCTGTATACTCAGAAGCCTTTTGGGCTGTAGT
*
71145682 ATCTCTTGCCTCCTTGGCTTTCTCGGCGGTATAATCCTTATATTCAGTCGCTTTCCCCATTGTAG
66 ATCTCTTGCCTCCTTGGCTTTCTCGGCGGTATAATCCTTATATTCAGCCGCTTTCCCCATTGTAG
* * * * *
71145747 CATCCTTTGCACCCTTAGTTTTCTGTGCTGCATAGT-CTGTATACTCGGAAGCCTTTTGTGCTGT
131 CATCCTTTGCTCCCTTAGTTTTCTGTGCTGCATAGTCCTGTATACTCAGAAGCCTTCTGTCCAGT
71145811 GGTG
196 GGTG
* *
71145815 TCTTTTGCGTCCTTAGCTTTCTGGGC-AGCATAATCTGTATACTCAGAAGC
1 TCCTTTGCATCCTTAGCTTTCT-GGCTAGCATAATCTGTATACTCAGAAGC
71145865 TTTACCTGTT
Statistics
Matches: 228, Mismatches: 15, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
197 2 0.01
198 223 0.98
199 3 0.01
ACGTcount: A:0.15, C:0.25, G:0.21, T:0.39
Consensus pattern (199 bp):
TCCTTTGCATCCTTAGCTTTCTGGCTAGCATAATCTGTATACTCAGAAGCCTTTTGGGCTGTAGT
ATCTCTTGCCTCCTTGGCTTTCTCGGCGGTATAATCCTTATATTCAGCCGCTTTCCCCATTGTAG
CATCCTTTGCTCCCTTAGTTTTCTGTGCTGCATAGTCCTGTATACTCAGAAGCCTTCTGTCCAGT
GGTG
Found at i:71145638 original size:66 final size:65
Alignment explanation
Indices: 71145422--71145864 Score: 247
Period size: 66 Copynumber: 6.7 Consensus size: 65
71145412 TGCGGCATCC
* * * * * *
71145422 TTTGCATCCTTAGCTTTCTGTGCTGCATAATCTGTGTACTCAGAAGCTTTTTGGGCTGTAGTATC
1 TTTGCATCCTTAGCTTTCTG-GCTGCATAATCTGTATACTCAGAAGCCTTTTGTGCAGTGGTGTC
71145487 T
65 T
* * * * ** *** *
71145488 CTTT-CCTCCTTGGCTTTCTGAGCTGTATAATCCT-TATATTCAGCCG-C-TTTCCCCA-TTGTA
1 -TTTGCATCCTTAGCTTTCTG-GCTGCATAAT-CTGTATACTCAGAAGCCTTTTGTGCAGTGGT-
*
71145548 GCATCC
62 G--TCT
* ** * *
71145554 TTTGCATCCTTAGTTTTCTGTGCTGCATAGCCTGTATACTCGGAAGCCTTCTGTGCAGTGGTGTC
1 TTTGCATCCTTAGCTTTCTG-GCTGCATAATCTGTATACTCAGAAGCCTTTTGTGCAGTGGTGTC
71145619 T
65 T
* * * * * *
71145620 TTTGCGTCCTTAGCTTTCTGGGTAGCGTAATCTGTATACTCAGAAGCCTTTTGGGCTGTGGTATC
1 TTTGCATCCTTAGCTTTCTGGCT-GCATAATCTGTATACTCAGAAGCCTTTTGTGCAGTGGTGTC
71145685 T
65 T
* * * * * * ** *** *
71145686 CTTGCCTCCTTGGCTTTCTCGGCGGTATAATCCT-TATATTCAGTCG-C-TTTCCCCA-TTGTAG
1 TTTGCATCCTTAGCTTTCT-GGCTGCATAAT-CTGTATACTCAGAAGCCTTTTGTGCAGTGGT-G
*
71145747 CATCC
63 --TCT
* * * * *
71145752 TTTGCACCCTTAGTTTTCTGTGCTGCATAGTCTGTATACTCGGAAGCCTTTTGTGCTGTGGTGTC
1 TTTGCATCCTTAGCTTTCTG-GCTGCATAATCTGTATACTCAGAAGCCTTTTGTGCAGTGGTGTC
71145817 T
65 T
* *
71145818 TTTGCGTCCTTAGCTTTCTGGGCAGCATAATCTGTATACTCAGAAGC
1 TTTGCATCCTTAGCTTTCT-GGCTGCATAATCTGTATACTCAGAAGC
71145865 TTTACCTGTT
Statistics
Matches: 270, Mismatches: 85, Indels: 43
0.68 0.21 0.11
Matches are distributed among these distances:
63 6 0.02
64 8 0.03
65 11 0.04
66 217 0.80
67 12 0.04
68 10 0.04
69 6 0.02
ACGTcount: A:0.15, C:0.24, G:0.21, T:0.40
Consensus pattern (65 bp):
TTTGCATCCTTAGCTTTCTGGCTGCATAATCTGTATACTCAGAAGCCTTTTGTGCAGTGGTGTCT
Found at i:71147317 original size:28 final size:29
Alignment explanation
Indices: 71147277--71147341 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
71147267 ATTTCTCTTC
* *
71147277 TTATTTTCT-TTTTAT-GTTTTT-TAGTT
1 TTATTTTATATTTTATAGTTTTTATAATT
71147303 TTATATTTATATTTTATAGTTTTTATAATT
1 TTAT-TTTATATTTTATAGTTTTTATAATT
71147333 TTATTTTAT
1 TTATTTTAT
71147342 TTAATAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
26 4 0.12
27 4 0.12
28 6 0.18
29 11 0.33
30 8 0.24
ACGTcount: A:0.22, C:0.02, G:0.05, T:0.72
Consensus pattern (29 bp):
TTATTTTATATTTTATAGTTTTTATAATT
Found at i:71147329 original size:22 final size:22
Alignment explanation
Indices: 71147287--71147341 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
71147277 TTATTTTCTT
* *
71147287 TTTATGTTTTTTAGTTTTAT-A
1 TTTATATTTTATAGTTTTATAA
71147308 TTTATATTTTATAGTTTTTATAA
1 TTTATATTTTATAG-TTTTATAA
71147331 TTT-TATTTTAT
1 TTTATATTTTAT
71147342 TTAATAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
21 12 0.40
22 14 0.47
23 4 0.13
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (22 bp):
TTTATATTTTATAGTTTTATAA
Found at i:71147378 original size:17 final size:18
Alignment explanation
Indices: 71147358--71147397 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
71147348 AAAATGGCTA
71147358 AATTATTTAA-ATTTCAT
1 AATTATTTAATATTTCAT
*
71147375 AATT-TTTAATATTTTAT
1 AATTATTTAATATTTCAT
71147392 AATTAT
1 AATTAT
71147398 AAATTTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 5 0.25
17 14 0.70
18 1 0.05
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (18 bp):
AATTATTTAATATTTCAT
Found at i:71147712 original size:20 final size:23
Alignment explanation
Indices: 71147687--71147732 Score: 71
Period size: 20 Copynumber: 2.1 Consensus size: 23
71147677 TCACTATTCT
71147687 AAATATTAAA-AA-AATA-TATA
1 AAATATTAAAGAATAATATTATA
71147707 AAATATTAAAGAATAATATTATA
1 AAATATTAAAGAATAATATTATA
71147730 AAA
1 AAA
71147733 ATAAAACAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 10 0.43
21 2 0.09
22 4 0.17
23 7 0.30
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (23 bp):
AAATATTAAAGAATAATATTATA
Found at i:71165155 original size:33 final size:33
Alignment explanation
Indices: 71165113--71165181 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
71165103 TTGCTTTAAG
*
71165113 AATGTTAATGTAGGTATTGATTAGTTATGTTGT
1 AATGTTAATGCAGGTATTGATTAGTTATGTTGT
71165146 AATGTTAATGCAGGTATTGATTAGTTATGTTGT
1 AATGTTAATGCAGGTATTGATTAGTTATGTTGT
71165179 AAT
1 AAT
71165182 AGCTTATAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.29, C:0.01, G:0.23, T:0.46
Consensus pattern (33 bp):
AATGTTAATGCAGGTATTGATTAGTTATGTTGT
Found at i:71166558 original size:31 final size:31
Alignment explanation
Indices: 71166523--71166586 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
71166513 TTCATCATAG
71166523 AGTAAATTACACCCAAGGTCACTCAAATATT
1 AGTAAATTACACCCAAGGTCACTCAAATATT
* * *
71166554 AGTAAATTGCGCCCAAGGTCACTCAACTATT
1 AGTAAATTACACCCAAGGTCACTCAAATATT
71166585 AG
1 AG
71166587 CAAGTTGATA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.25
Consensus pattern (31 bp):
AGTAAATTACACCCAAGGTCACTCAAATATT
Found at i:71180283 original size:32 final size:32
Alignment explanation
Indices: 71180231--71180311 Score: 105
Period size: 31 Copynumber: 2.6 Consensus size: 32
71180221 AAAAGAAATT
* *
71180231 AATAAAATTAAATTTTAAAAATTAAAAA-AATA
1 AATAAAAATAAATTTTAAAAAATAAAAATAA-A
71180263 AA-AAAAATAAATTTTAAAAAATAAAAATAAA
1 AATAAAAATAAATTTTAAAAAATAAAAATAAA
*
71180294 AATAAAAA-GAATTTTAAA
1 AATAAAAATAAATTTTAAA
71180312 TTTTATTTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
31 35 0.80
32 9 0.20
ACGTcount: A:0.72, C:0.00, G:0.01, T:0.27
Consensus pattern (32 bp):
AATAAAAATAAATTTTAAAAAATAAAAATAAA
Found at i:71190535 original size:46 final size:47
Alignment explanation
Indices: 71190455--71190577 Score: 142
Period size: 46 Copynumber: 2.6 Consensus size: 47
71190445 GTAGACGATG
* * * *
71190455 CATGTCCCAGACGTATCTTATACTGGCTTACGTCTCGAGGCCGA-AA
1 CATGTCCCAGACATATCTTACACTAGCTTACGTCTCAAGGCCGATAA
* **
71190501 CATGTCCCAGACATATCTTACACTAGCATT-CGTCTCAATGCCGATGC
1 CATGTCCCAGACATATCTTACACTAGC-TTACGTCTCAAGGCCGATAA
*
71190548 CATGTCCCAGACATGGTCTTACACTAGCTT
1 CATGTCCCAGACAT-ATCTTACACTAGCTT
71190578 TCAAAATGTG
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
46 36 0.55
47 18 0.27
48 12 0.18
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (47 bp):
CATGTCCCAGACATATCTTACACTAGCTTACGTCTCAAGGCCGATAA
Found at i:71192162 original size:7 final size:7
Alignment explanation
Indices: 71192150--71192182 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
71192140 TCAACTAAAT
71192150 AAATTCC
1 AAATTCC
71192157 AAATTCC
1 AAATTCC
71192164 AAATTCC
1 AAATTCC
71192171 AAATTCC
1 AAATTCC
71192178 AAATT
1 AAATT
71192183 TATTTATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.45, C:0.24, G:0.00, T:0.30
Consensus pattern (7 bp):
AAATTCC
Found at i:71201122 original size:10 final size:10
Alignment explanation
Indices: 71201109--71201158 Score: 59
Period size: 10 Copynumber: 5.2 Consensus size: 10
71201099 TAATTACCCC
71201109 CTCTCTCTTT
1 CTCTCTCTTT
71201119 CTCTCTC--T
1 CTCTCTCTTT
**
71201127 CTCTCTCTCC
1 CTCTCTCTTT
71201137 CTCTCTCTTT
1 CTCTCTCTTT
*
71201147 CTTTCTCTTT
1 CTCTCTCTTT
71201157 CT
1 CT
71201159 TTGGATTTTG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
8 8 0.24
10 26 0.76
ACGTcount: A:0.00, C:0.44, G:0.00, T:0.56
Consensus pattern (10 bp):
CTCTCTCTTT
Found at i:71201125 original size:4 final size:4
Alignment explanation
Indices: 71201109--71201154 Score: 56
Period size: 4 Copynumber: 11.5 Consensus size: 4
71201099 TAATTACCCC
* * * *
71201109 CTCT CTCT TTCT CTCT CTCT CTCT CTCC CTCT CTCT TTCT TTCT CT
1 CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CT
71201155 TTCTTTGGAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (4 bp):
CTCT
Found at i:71209435 original size:20 final size:20
Alignment explanation
Indices: 71209390--71209441 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
71209380 ATTTTTACAA
71209390 TTTAATTTTTTAATAAAAAT
1 TTTAATTTTTTAATAAAAAT
** **
71209410 GATAATTTTTTAATAAGTAT
1 TTTAATTTTTTAATAAAAAT
71209430 TTTAATTATTTT
1 TTTAATT-TTTT
71209442 TTATTAAGGG
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
20 21 0.84
21 4 0.16
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (20 bp):
TTTAATTTTTTAATAAAAAT
Found at i:71214366 original size:35 final size:35
Alignment explanation
Indices: 71214327--71214422 Score: 149
Period size: 35 Copynumber: 2.8 Consensus size: 35
71214317 CGTTCGTGAC
* *
71214327 CCCTTTGAGAATTGGAGCTAGTGACGTGTATTCAA
1 CCCTTTGAGAATTAGAGCTAGTGACATGTATTCAA
*
71214362 CCCTTTGAGAATTAGAGCTAGTGATATGTATTCAA
1 CCCTTTGAGAATTAGAGCTAGTGACATGTATTCAA
*
71214397 CTCTTTGAGAATTAGAG-TAGTGACAT
1 CCCTTTGAGAATTAGAGCTAGTGACAT
71214423 ATCTAGAGGG
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
34 8 0.14
35 48 0.86
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (35 bp):
CCCTTTGAGAATTAGAGCTAGTGACATGTATTCAA
Found at i:71220754 original size:22 final size:21
Alignment explanation
Indices: 71220729--71220769 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
71220719 CATAAGACAA
*
71220729 AAGAAGACTCAATAACAAATAT
1 AAGAAGAC-CAAAAACAAATAT
*
71220751 AAGAATACCAAAAACAAAT
1 AAGAAGACCAAAAACAAAT
71220770 TAAATTGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.63, C:0.15, G:0.07, T:0.15
Consensus pattern (21 bp):
AAGAAGACCAAAAACAAATAT
Found at i:71226813 original size:30 final size:30
Alignment explanation
Indices: 71226746--71226822 Score: 91
Period size: 30 Copynumber: 2.6 Consensus size: 30
71226736 GGGAATCTTG
* * * * *
71226746 ACCTATCTAATACATTAATGATCTCAAGAA
1 ACCTATCTAATACATGAATAAGCCCAACAA
*
71226776 ACTTATCTAATACATGAATAAGCCCAACAA
1 ACCTATCTAATACATGAATAAGCCCAACAA
*
71226806 GCCTATCTAATACATGA
1 ACCTATCTAATACATGA
71226823 TGGATAGCAA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.43, C:0.22, G:0.08, T:0.27
Consensus pattern (30 bp):
ACCTATCTAATACATGAATAAGCCCAACAA
Found at i:71230143 original size:88 final size:88
Alignment explanation
Indices: 71229983--71230153 Score: 229
Period size: 88 Copynumber: 1.9 Consensus size: 88
71229973 GAAGATAACA
* * *
71229983 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTATAAACCTTGTCTCCCTGAATATG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAACCTTATCTCCCTGAATATG
* *
71230048 TAGTAGAGTAGGAT-GAAGTTACT
66 CAATAGAGT-GGATCGAAGTTACT
* ** *
71230071 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAGTCTTATCTCTCTGAAGT-T
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAACCTTATCTCCCTGAA-TAT
71230135 GCAATAGAGTGGATCGAAG
65 GCAATAGAGTGGATCGAAG
71230154 CAACAATTCC
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
87 4 0.06
88 67 0.93
89 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (88 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAACCTTATCTCCCTGAATATG
CAATAGAGTGGATCGAAGTTACT
Found at i:71230154 original size:44 final size:44
Alignment explanation
Indices: 71229980--71230143 Score: 170
Period size: 44 Copynumber: 3.7 Consensus size: 44
71229970 ACTGAAGATA
* * *
71229980 ACAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGCT
* * * * * *
71230024 ATAAACCTTGTCTCCCTGAA-TATGTAGTAGAGTAGGA-TGAAGTT
1 ACAAATCTTATCTCCCTGAAGT-TGCAGTAGAGCA-GATTGAAGCT
* *
71230068 ACTAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGCT
* * *
71230112 ACAAGTCTTATCTCTCTGAAGTTGCAATAGAG
1 ACAAATCTTATCTCCCTGAAGTTGCAGTAGAG
71230144 TGGATCGAAG
Statistics
Matches: 94, Mismatches: 22, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
43 3 0.03
44 88 0.94
45 3 0.03
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.30
Consensus pattern (44 bp):
ACAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGCT
Found at i:71230175 original size:88 final size:88
Alignment explanation
Indices: 71229983--71230185 Score: 209
Period size: 88 Copynumber: 2.3 Consensus size: 88
71229973 GAAGATAACA
* * *
71229983 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTATAAACCTTGTCTCCCTGAATATG
1 AATCCTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAACCTTATCTCCCTGAATATG
* * **
71230048 TAGTAGAGTAGGATGAAGTTACT
66 CAATAGAGTAGGATGAAGCAACT
* * * ** *
71230071 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAGTCTTATCTCTCTGAAGT-T
1 AATCCTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAACCTTATCTCCCTGAA-TAT
71230135 GCAATAGAGT-GGATCGAAGCAAC-
65 GCAATAGAGTAGGAT-GAAGCAACT
71230158 AATTCCTATAC-CTCTGAA-TATGCAGTGG
1 AA-TCCTAT-CTCTCTGAAGT-TGCAGTGG
71230186 TTTGGAATGG
Statistics
Matches: 97, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
87 7 0.07
88 88 0.91
89 2 0.02
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (88 bp):
AATCCTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAACCTTATCTCCCTGAATATG
CAATAGAGTAGGATGAAGCAACT
Found at i:71231549 original size:4 final size:4
Alignment explanation
Indices: 71231530--71231631 Score: 73
Period size: 4 Copynumber: 25.5 Consensus size: 4
71231520 CTTTAATCAT
* * * * *
71231530 TTTA TTTA CTTC TTTA TTTA TTCA CTTGA -TTA TTTA TTTA TTTA CTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TTTA TTTA
* * ** * *
71231578 TTTA TTTA TTCA CTTGA -TTA TTTA TTCC TTTA TTTG TTTG TTTA TTTA
1 TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
71231626 TTTA TT
1 TTTA TT
71231632 CACATATCAT
Statistics
Matches: 76, Mismatches: 18, Indels: 8
0.75 0.18 0.08
Matches are distributed among these distances:
3 4 0.05
4 66 0.87
5 6 0.08
ACGTcount: A:0.21, C:0.09, G:0.04, T:0.67
Consensus pattern (4 bp):
TTTA
Found at i:71231567 original size:20 final size:20
Alignment explanation
Indices: 71231542--71231603 Score: 87
Period size: 20 Copynumber: 3.3 Consensus size: 20
71231532 TATTTACTTC
71231542 TTTATTTATTCACTTGATTA
1 TTTATTTATTCACTTGATTA
*
71231562 TTTATTTATTTAC----TTA
1 TTTATTTATTCACTTGATTA
71231578 TTTATTTATTCACTTGATTA
1 TTTATTTATTCACTTGATTA
71231598 TTTATT
1 TTTATT
71231604 CCTTTATTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
16 15 0.42
20 21 0.58
ACGTcount: A:0.24, C:0.08, G:0.03, T:0.65
Consensus pattern (20 bp):
TTTATTTATTCACTTGATTA
Found at i:71231570 original size:36 final size:36
Alignment explanation
Indices: 71231530--71231603 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
71231520 CTTTAATCAT
*
71231530 TTTATTTACTTCTTTATTTATTCACTTGATTATTTA
1 TTTATTTACTTATTTATTTATTCACTTGATTATTTA
71231566 TTTATTTACTTATTTATTTATTCACTTGATTATTTA
1 TTTATTTACTTATTTATTTATTCACTTGATTATTTA
71231602 TT
1 TT
71231604 CCTTTATTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.23, C:0.09, G:0.03, T:0.65
Consensus pattern (36 bp):
TTTATTTACTTATTTATTTATTCACTTGATTATTTA
Found at i:71231622 original size:36 final size:36
Alignment explanation
Indices: 71231533--71231623 Score: 128
Period size: 36 Copynumber: 2.5 Consensus size: 36
71231523 TAATCATTTT
* *
71231533 ATTTACTTCTTTATTTATTCACTTGATTATTTATTT
1 ATTTACTTATTTATTTATTCACTTGATTATTTATTC
71231569 ATTTACTTATTTATTTATTCACTTGATTATTTATTC
1 ATTTACTTATTTATTTATTCACTTGATTATTTATTC
* * * *
71231605 CTTTATTTGTTTGTTTATT
1 ATTTACTTATTTATTTATT
71231624 TATTTATTCA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 49 1.00
ACGTcount: A:0.21, C:0.10, G:0.04, T:0.65
Consensus pattern (36 bp):
ATTTACTTATTTATTTATTCACTTGATTATTTATTC
Found at i:71231724 original size:3 final size:3
Alignment explanation
Indices: 71231716--71231762 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
71231706 TGTTTGTGCC
71231716 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
71231763 CAATAGATAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:71231879 original size:4 final size:4
Alignment explanation
Indices: 71231870--71231908 Score: 51
Period size: 4 Copynumber: 9.5 Consensus size: 4
71231860 TTTTTCTTAA
* *
71231870 TATT TATT TATT GTATC TATT TATT TATT CATT TATT TA
1 TATT TATT TATT -TATT TATT TATT TATT TATT TATT TA
71231909 CACATTTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
4 27 0.90
5 3 0.10
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.67
Consensus pattern (4 bp):
TATT
Found at i:71231931 original size:6 final size:6
Alignment explanation
Indices: 71231920--71231959 Score: 71
Period size: 6 Copynumber: 6.7 Consensus size: 6
71231910 ACATTTTTTA
*
71231920 TTATTC TTATTC TTATTC TTATTC TTATTC TTATTG TTAT
1 TTATTC TTATTC TTATTC TTATTC TTATTC TTATTC TTAT
71231960 ATTTTTATCT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.17, C:0.12, G:0.03, T:0.68
Consensus pattern (6 bp):
TTATTC
Found at i:71232042 original size:25 final size:25
Alignment explanation
Indices: 71232009--71232067 Score: 118
Period size: 25 Copynumber: 2.4 Consensus size: 25
71231999 ATTAAAATTT
71232009 TTTTACTTAACATTATGAATATCTA
1 TTTTACTTAACATTATGAATATCTA
71232034 TTTTACTTAACATTATGAATATCTA
1 TTTTACTTAACATTATGAATATCTA
71232059 TTTTACTTA
1 TTTTACTTA
71232068 CTTATTTATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.34, C:0.12, G:0.03, T:0.51
Consensus pattern (25 bp):
TTTTACTTAACATTATGAATATCTA
Found at i:71233729 original size:46 final size:46
Alignment explanation
Indices: 71233677--71233939 Score: 402
Period size: 46 Copynumber: 5.7 Consensus size: 46
71233667 TGTCATAGTG
* * * *
71233677 TCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACA-TTTCATATCAGGTTGCCATGGTA
** * * *
71233723 TCTTTCAACCATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
*
71233769 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGTCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
71233815 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
*
71233861 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATAGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
*
71233907 TCTTTCAACCATAGTCTTACACATTTCATATCA
1 TCTTTCAACCATGGTCTTACACATTTCATATCA
71233940 AAAAGCACAC
Statistics
Matches: 203, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 4 0.02
46 199 0.98
ACGTcount: A:0.23, C:0.24, G:0.13, T:0.40
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
Found at i:71235480 original size:27 final size:27
Alignment explanation
Indices: 71235445--71235501 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
71235435 GTGCAAGATA
* * * *
71235445 TATATATATATAATATGATGTTAAGAG
1 TATACATATAAAATATAATGTTAAAAG
71235472 TATACATATAAAATATAATGTTAAAAG
1 TATACATATAAAATATAATGTTAAAAG
71235499 TAT
1 TAT
71235502 GTATGCATAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.49, C:0.02, G:0.11, T:0.39
Consensus pattern (27 bp):
TATACATATAAAATATAATGTTAAAAG
Found at i:71235983 original size:34 final size:32
Alignment explanation
Indices: 71235897--71236004 Score: 89
Period size: 31 Copynumber: 3.3 Consensus size: 32
71235887 CTATACGTGT
* *
71235897 AAATATATACATATATACTAGAACAAATATATATA
1 AAATACATACATATATA-TATAACAAA-ATAT-TA
71235932 ATAATA-ATA-ATA-A-ATATAACAACAATATTGA
1 A-AATACATACATATATATATAACAA-AATATT-A
*
71235963 AAATACATACATATATATATAACATAATATTTA
1 AAATACATACATATATATATAACAAAATA-TTA
*
71235996 AAAGACATA
1 AAATACATA
71236005 TAATAAATAC
Statistics
Matches: 62, Mismatches: 3, Indels: 18
0.75 0.04 0.22
Matches are distributed among these distances:
30 5 0.08
31 16 0.26
32 5 0.08
33 15 0.24
34 13 0.21
35 4 0.06
36 4 0.06
ACGTcount: A:0.58, C:0.08, G:0.03, T:0.31
Consensus pattern (32 bp):
AAATACATACATATATATATAACAAAATATTA
Found at i:71236042 original size:18 final size:17
Alignment explanation
Indices: 71236021--71236054 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
71236011 ATACATTTAA
71236021 TATAACAAATATAAATAT
1 TATAACAAATA-AAATAT
71236039 TATAACAAATAAAATA
1 TATAACAAATAAAATA
71236055 CAGAAAAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (17 bp):
TATAACAAATAAAATAT
Found at i:71238410 original size:55 final size:56
Alignment explanation
Indices: 71238329--71238503 Score: 273
Period size: 57 Copynumber: 3.1 Consensus size: 56
71238319 TAAAAGCAGA
* * *
71238329 TTTTGAAAAATA-GAAATTAAAGGGCTCAACTCACCTTTCGCAATATGAGTTGA-T
1 TTTTGAAAAACATGAATTTAAAGGGCTCAACTCACCTCTCGCAATATGAGTTGATT
*
71238383 TTTTGAAAAACATGAATTTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 TTTTGAAAAACATGAATTTAAAGGGCTCAACTCACCTCTCGCAATATGAGTTGA-TT
* *
71238440 TTTTGAAAAACATAAATTGAAAGGGCTCAACTCACCTCTCGCAATATGAGTTGATT
1 TTTTGAAAAACATGAATTTAAAGGGCTCAACTCACCTCTCGCAATATGAGTTGATT
71238496 TTTTGAAA
1 TTTTGAAA
71238504 GGTAGAAATT
Statistics
Matches: 111, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
54 11 0.10
55 38 0.34
56 10 0.09
57 52 0.47
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (56 bp):
TTTTGAAAAACATGAATTTAAAGGGCTCAACTCACCTCTCGCAATATGAGTTGATT
Found at i:71238652 original size:170 final size:167
Alignment explanation
Indices: 71238440--71238758 Score: 451
Period size: 167 Copynumber: 1.9 Consensus size: 167
71238430 GAGTTGATTT
* * * *
71238440 TTTTGAAAAACATAAATTGAAAGGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAG
1 TTTTGAAAAACAGAAATTGAAAAGCCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAA
* * * * * * *
71238505 GTAGAAATTGAAAAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTCG
65 ATAGAAACTG--AAAACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCA
* * *
71238570 CAATGTGAGTTGATTTTTTGAAACTTGATTTGAAAAGTAGA
128 CAATATGAATTGA-CTTTTGAAACTTGATTTGAAAAGTAGA
71238611 TTTTGAAAAACAGAAATT-AAAAGCCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
1 TTTTGAAAAACAGAAATTGAAAAGCCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
* *
71238675 TAGAAACTGAAAACAGAAATTGAAAATACTTCAGCGTGCCCCGAGGCTCAACTCACCTCTCACAA
66 TAGAAACTGAAAACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCACAA
71238740 TATGAATTGACTTTTGAAA
131 TATGAATTGACTTTTGAAA
71238759 AACAGAAATT
Statistics
Matches: 132, Mismatches: 16, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
166 8 0.06
167 57 0.43
169 17 0.13
170 33 0.25
171 17 0.13
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (167 bp):
TTTTGAAAAACAGAAATTGAAAAGCCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
TAGAAACTGAAAACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCACAA
TATGAATTGACTTTTGAAACTTGATTTGAAAAGTAGA
Found at i:71238698 original size:81 final size:83
Alignment explanation
Indices: 71238442--71238700 Score: 213
Period size: 81 Copynumber: 3.1 Consensus size: 83
71238432 GTTGATTTTT
* * * **
71238442 TTGAAAAACATAAATTGAAAGGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGGT
1 TTGAAAAACAGAAATTCAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAT
*
71238507 AGAAATTGAAAAAACAAAAA
66 AGAAATTG--AAAACAGAAA
* ** *** * *
71238527 TTGAAATTACCTCAG-CGTGTCCTGAGGCTCAACTCATCTCTCGCAATGTGAGTTGATTTTTTG-
1 TTGAAA--A--ACAGAAAT-TCAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGA
* * * * **
71238590 AAACTTG-ATTTGAAAAGTAGATT
61 AAAATAGAAATTGAAAA-CAGAAA
*
71238613 TTGAAAAACAGAAATT-AAAAGCCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAAT
1 TTGAAAAACAGAAATTCAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAT
*
71238676 AGAAACTGAAAACAGAAA
66 AGAAATTGAAAACAGAAA
71238694 TTGAAAA
1 TTGAAAA
71238701 TACTTCAGCG
Statistics
Matches: 130, Mismatches: 35, Indels: 22
0.70 0.19 0.12
Matches are distributed among these distances:
80 6 0.05
81 44 0.34
82 11 0.08
83 1 0.01
84 1 0.01
85 10 0.08
86 8 0.06
87 5 0.04
88 5 0.04
89 39 0.30
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.29
Consensus pattern (83 bp):
TTGAAAAACAGAAATTCAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAT
AGAAATTGAAAACAGAAA
Found at i:71238741 original size:86 final size:85
Alignment explanation
Indices: 71238463--71238772 Score: 260
Period size: 86 Copynumber: 3.7 Consensus size: 85
71238453 AAATTGAAAG
** *
71238463 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGGTAGAAATTGAAAAAACAAAAAT
1 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAGAAATTG--AAAACAGAAAT
* *
71238528 TGAAATTACCTCAGCGTGTCCTGA
64 TGAAAATA-CTCAGCGTG-CCAGA
* * * * * * **
71238552 GGCTCAACTCATCTCTCGCAATGTGAGTTGATTTTTTG-AAACTTG-ATTTGAAAAGTAGATTTT
1 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAGAAATTGAAAA-CAGAAATT
** ** *
71238615 GAAAA-A--CAGAAAT-TAAAA
65 GAAAATACTCAG-CGTGCCAGA
* *
71238633 GCCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAATAGAAACTGAAAACAGAAATTG
1 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAGAAATTGAAAACAGAAATTG
*
71238697 AAAATACTTCAGCGTGCCCCGA
66 AAAATAC-TCAGCGTG-CCAGA
* * * *
71238719 GGCTCAACTCACCTCTCACAATATGAATTGA-CTTTTGAAAAACAGAAATT-AAAA
1 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAGAAATTGAAAA
71238773 GGCTCAACTC
Statistics
Matches: 172, Mismatches: 39, Indels: 24
0.73 0.17 0.10
Matches are distributed among these distances:
80 6 0.03
81 44 0.26
82 11 0.06
83 1 0.01
84 1 0.01
85 12 0.07
86 53 0.31
87 4 0.02
88 4 0.02
89 36 0.21
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (85 bp):
GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAGAAATTGAAAACAGAAATTG
AAAATACTCAGCGTGCCAGA
Found at i:71238781 original size:54 final size:54
Alignment explanation
Indices: 71238718--71238825 Score: 189
Period size: 54 Copynumber: 2.0 Consensus size: 54
71238708 GCGTGCCCCG
71238718 AGGCTCAACTCACCTCTCACAATATGAATTGACTTTTGAAAAACAGAAATTAAA
1 AGGCTCAACTCACCTCTCACAATATGAATTGACTTTTGAAAAACAGAAATTAAA
* * *
71238772 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
1 AGGCTCAACTCACCTCTCACAATATGAATTGACTTTTGAAAAACAGAAATTAAA
71238826 GACAGAAATT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.41, C:0.19, G:0.13, T:0.27
Consensus pattern (54 bp):
AGGCTCAACTCACCTCTCACAATATGAATTGACTTTTGAAAAACAGAAATTAAA
Found at i:71238798 original size:140 final size:140
Alignment explanation
Indices: 71238611--71239054 Score: 617
Period size: 140 Copynumber: 3.1 Consensus size: 140
71238601 GAAAAGTAGA
*
71238611 TTTTGAAAAACAGAAATTAAAAGCCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAT
1 TTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAT
* * * * *
71238676 AGAAACTGAAAACAGAAATTGAAAATACTTCAGCGTGCCCCGAGGCTCAACTCACCTCTCACAAT
66 AGAAACTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAAT
* *
71238741 ATGAATTGAC
131 ATGAGTTGAT
*
71238751 TTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC
1 TTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAT
* * ** *
71238816 AGAAA-TTAAAGACAGAAATTGAAATTACCTCAGCGTATATTGAGGCTCAACTCACCTCTCGTAA
66 AGAAACTGAAA-ACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAA
71238880 TATGAGTTGAT
130 TATGAGTTGAT
* *
71238891 TTTTGACAAACAGAAATTAAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGAAGAA
1 TTTTGAAAAACAGAAATT-AAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
*
71238955 TAAAAACACAATTTGAAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCT
65 T-AGAA-AC----TG-AAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCT
71239020 CTCGCAATATGAGTCT-AT
123 CTCGCAATATGAGT-TGAT
71239038 TTTTG-AAAACAGAAATT
1 TTTTGAAAAACAGAAATT
71239055 TGAAAAATAG
Statistics
Matches: 269, Mismatches: 24, Indels: 16
0.87 0.08 0.05
Matches are distributed among these distances:
139 4 0.01
140 147 0.55
141 38 0.14
142 1 0.00
146 11 0.04
147 64 0.24
148 4 0.01
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.27
Consensus pattern (140 bp):
TTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAT
AGAAACTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAAT
ATGAGTTGAT
Found at i:71239086 original size:87 final size:88
Alignment explanation
Indices: 71238913--71239140 Score: 334
Period size: 87 Copynumber: 2.6 Consensus size: 88
71238903 GAAATTAAAA
* * *
71238913 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAGAATAAAAACACAATTTGAAAAACAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT--TGAA-AAACAGA-AATTTGAAAAACAG
*
71238978 AAATTGAAATTACCTCAGCGTGTCCTG
62 AAATTGAAAATACCTCAGCGTGTCCTG
*
71239005 AGGCTCAACTCACCTCTCGCAATATGAGTCT-ATTTTTG-AAAACAGAAATTTGAAAAATAGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGT-TGATTTTTGAAAAACAGAAATTTGAAAAACAGAAA
**
71239068 TTGAAAATACCTCAGCGTGTGTTG
65 TTGAAAATACCTCAGCGTGTCCTG
71239092 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA
71239141 CTAAAACATC
Statistics
Matches: 126, Mismatches: 7, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
86 1 0.01
87 73 0.58
88 15 0.12
89 1 0.01
90 1 0.01
92 34 0.27
93 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (88 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTGAAAAACAGAAAT
TGAAAATACCTCAGCGTGTCCTG
Found at i:71251225 original size:27 final size:27
Alignment explanation
Indices: 71251186--71251246 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
71251176 AATTTTGTGC
* * *
71251186 AAGA-TATATATATATAATATGATGTT
1 AAGAGTATACATATAAAATATAATGTT
71251212 AAGAGTATACATATAAAATATAATGTT
1 AAGAGTATACATATAAAATATAATGTT
*
71251239 AAAAGTAT
1 AAGAGTAT
71251247 GTATGCATAG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 4 0.13
27 26 0.87
ACGTcount: A:0.51, C:0.02, G:0.11, T:0.36
Consensus pattern (27 bp):
AAGAGTATACATATAAAATATAATGTT
Found at i:71251793 original size:18 final size:17
Alignment explanation
Indices: 71251772--71251805 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
71251762 ATACATTTAA
71251772 TATAACAAATATAAATAT
1 TATAACAAATA-AAATAT
71251790 TATAACAAATAAAATA
1 TATAACAAATAAAATA
71251806 CAAAAAAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (17 bp):
TATAACAAATAAAATAT
Found at i:71254951 original size:27 final size:26
Alignment explanation
Indices: 71254921--71254973 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
71254911 TATATACTAA
*
71254921 TAAAATAATAATAATATAATATCTTAT
1 TAAAATAATAATAAAATAATAT-TTAT
**
71254948 TAAAATTTTAATAAAATAATATTTAT
1 TAAAATAATAATAAAATAATATTTAT
71254974 CTAATTAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 4 0.17
27 19 0.83
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (26 bp):
TAAAATAATAATAAAATAATATTTAT
Found at i:71255541 original size:25 final size:25
Alignment explanation
Indices: 71255512--71255565 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
71255502 ACAAGATGCA
*
71255512 CATATATAAATATCACCACCTAATG
1 CATATACAAATATCACCACCTAATG
*
71255537 CATATGCAAATATCACCACCTAATG
1 CATATACAAATATCACCACCTAATG
71255562 CATA
1 CATA
71255566 GGCATAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.43, C:0.26, G:0.06, T:0.26
Consensus pattern (25 bp):
CATATACAAATATCACCACCTAATG
Found at i:71255747 original size:23 final size:23
Alignment explanation
Indices: 71255716--71255760 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
71255706 CATTTATTCA
*
71255716 TTATTTATACATA-AAACACCAAT
1 TTATATATA-ATACAAACACCAAT
*
71255739 TTATATATAATACTAACACCAA
1 TTATATATAATACAAACACCAA
71255761 ACACATTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.49, C:0.18, G:0.00, T:0.33
Consensus pattern (23 bp):
TTATATATAATACAAACACCAAT
Found at i:71265522 original size:22 final size:22
Alignment explanation
Indices: 71265490--71265540 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
71265480 TTTAAATAAA
*
71265490 TTAAT-TTATGATAAT-TTATTG
1 TTAATATTATGA-AATATAATTG
*
71265511 TTAATATTATGAAATATAATTT
1 TTAATATTATGAAATATAATTG
71265533 TTAATATT
1 TTAATATT
71265541 TTTAAATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 8 0.31
22 18 0.69
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (22 bp):
TTAATATTATGAAATATAATTG
Found at i:71265589 original size:29 final size:30
Alignment explanation
Indices: 71265550--71265616 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 30
71265540 TTTTAAATTA
*
71265550 TTAA-ATATAAAT-TATTTACAAATTTA-AT
1 TTAATATATAAATATATTTA-AAATTTATAG
*
71265578 TTAATATATAAATCATATTTATAATTTATAG
1 TTAATATATAAAT-ATATTTAAAATTTATAG
71265609 TTAATATA
1 TTAATATA
71265617 AATATTCTGA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
28 4 0.12
29 8 0.24
30 6 0.18
31 15 0.45
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.48
Consensus pattern (30 bp):
TTAATATATAAATATATTTAAAATTTATAG
Found at i:71267700 original size:20 final size:20
Alignment explanation
Indices: 71267675--71267714 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
71267665 CTGTTTTTAC
* *
71267675 ATATATTAATGAATTTATAT
1 ATATATTAATAAACTTATAT
71267695 ATATATTAATAAACTTATAT
1 ATATATTAATAAACTTATAT
71267715 TTTAAATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (20 bp):
ATATATTAATAAACTTATAT
Found at i:71268849 original size:12 final size:12
Alignment explanation
Indices: 71268832--71268871 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
71268822 AACAGTAATT
*
71268832 AGTAACGGTAGC
1 AGTAACAGTAGC
*
71268844 AGTAACAGTAAC
1 AGTAACAGTAGC
71268856 AGTAACAGTAGC
1 AGTAACAGTAGC
71268868 AGTA
1 AGTA
71268872 TTCAACACAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.42, C:0.15, G:0.25, T:0.17
Consensus pattern (12 bp):
AGTAACAGTAGC
Found at i:71268854 original size:6 final size:6
Alignment explanation
Indices: 71268822--71268871 Score: 55
Period size: 6 Copynumber: 8.2 Consensus size: 6
71268812 ACAGTACCTA
* * * *
71268822 AACAGT AATTAGT AACGGT AGCAGT AACAGT AACAGT AACAGT AGCAGT
1 AACAGT AA-CAGT AACAGT AACAGT AACAGT AACAGT AACAGT AACAGT
71268871 A
1 A
71268872 TTCAACACAC
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
6 31 0.86
7 5 0.14
ACGTcount: A:0.44, C:0.14, G:0.22, T:0.20
Consensus pattern (6 bp):
AACAGT
Found at i:71268952 original size:45 final size:45
Alignment explanation
Indices: 71268851--71268958 Score: 146
Period size: 45 Copynumber: 2.4 Consensus size: 45
71268841 AGCAGTAACA
* * *
71268851 GTAACAGTAACAGTAGCAGTATTCAACACACAAAGTGCTGAATCT
1 GTAACAGTAACGGTAACAGTATTCAACACACAAAGTGCTGAATCG
* *
71268896 GTAATAGTAACGGTAACAGTATTCGACACACAAAGTG-TCGAATCG
1 GTAACAGTAACGGTAACAGTATTCAACACACAAAGTGCT-GAATCG
*
71268941 GTAACAGTAACGATAACA
1 GTAACAGTAACGGTAACA
71268959 ATAACAGTAG
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 1 0.02
45 54 0.98
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.21
Consensus pattern (45 bp):
GTAACAGTAACGGTAACAGTATTCAACACACAAAGTGCTGAATCG
Found at i:71268964 original size:51 final size:51
Alignment explanation
Indices: 71268845--71268967 Score: 127
Period size: 45 Copynumber: 2.5 Consensus size: 51
71268835 AACGGTAGCA
* *
71268845 GTAACAGTAAC-AGTAACAGTAGCAGTATTCAACACACAAAGTGCTGAATCT
1 GTAACAGTAACGA-TAACAGTAACAGTATTCAACACACAAAGTGCTGAATCG
* *
71268896 GT-A-A-T-A-G-TAACGGTAACAGTATTCGACACACAAAGTG-TCGAATCG
1 GTAACAGTAACGATAACAGTAACAGTATTCAACACACAAAGTGCT-GAATCG
*
71268941 GTAACAGTAACGATAACAATAACAGTA
1 GTAACAGTAACGATAACAGTAACAGTA
71268968 GTCGGCATAT
Statistics
Matches: 58, Mismatches: 6, Indels: 16
0.73 0.08 0.20
Matches are distributed among these distances:
44 1 0.02
45 34 0.59
46 1 0.02
47 2 0.03
48 2 0.03
49 2 0.03
50 2 0.03
51 14 0.24
ACGTcount: A:0.42, C:0.18, G:0.19, T:0.21
Consensus pattern (51 bp):
GTAACAGTAACGATAACAGTAACAGTATTCAACACACAAAGTGCTGAATCG
Found at i:71269221 original size:40 final size:40
Alignment explanation
Indices: 71269172--71269257 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
71269162 ATTCGTTTCA
* *
71269172 TCAGAAATTTTACAGTTAAATGCAGTATACATAACAATAT
1 TCAGTAATTTTACAGTTAAATGCAGTATACAAAACAATAT
* * * * *
71269212 TCAGTAATTTTATAGTTCAATTCGGTATTCAAAACAATAT
1 TCAGTAATTTTACAGTTAAATGCAGTATACAAAACAATAT
71269252 TCAGTA
1 TCAGTA
71269258 TCCCATAATT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.41, C:0.13, G:0.10, T:0.36
Consensus pattern (40 bp):
TCAGTAATTTTACAGTTAAATGCAGTATACAAAACAATAT
Found at i:71270381 original size:20 final size:20
Alignment explanation
Indices: 71270358--71270414 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
71270348 TTAATTTATT
71270358 TTTAATAATAATAATCATAA
1 TTTAATAATAATAATCATAA
*
71270378 TTTAATAAT-ATAAATTATAA
1 TTTAATAATAAT-AATCATAA
*
71270398 TTTGATAGAATAATAAT
1 TTT-A-ATAATAATAAT
71270415 AATGATAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
19 2 0.06
20 19 0.61
21 1 0.03
22 7 0.23
23 2 0.06
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.42
Consensus pattern (20 bp):
TTTAATAATAATAATCATAA
Found at i:71270432 original size:17 final size:17
Alignment explanation
Indices: 71270380--71270429 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 17
71270370 AATCATAATT
*
71270380 TAATAAT-ATA-AATTA
1 TAATAATGATAGAATAA
*
71270395 TAAT-TTGATAGAATAA
1 TAATAATGATAGAATAA
71270411 TAATAATGATA-AATAA
1 TAATAATGATAGAATAA
71270427 TAA
1 TAA
71270430 ATATCTATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
14 1 0.03
15 7 0.24
16 16 0.55
17 5 0.17
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (17 bp):
TAATAATGATAGAATAA
Found at i:71270595 original size:25 final size:26
Alignment explanation
Indices: 71270543--71270634 Score: 77
Period size: 25 Copynumber: 3.5 Consensus size: 26
71270533 AATTCAATTC
71270543 ATAATATGATATTTATAATTAATTAATTTA
1 ATAATAT-AT-TTTATAATTAA--AATTTA
71270573 ATAATATATTTTATAATT-AAA-TT-
1 ATAATATATTTTATAATTAAAATTTA
* *
71270596 ATATATATATTTACATAATTAAAATCTA
1 ATA-ATATATTT-TATAATTAAAATTTA
71270624 A-AA-ATATTTTA
1 ATAATATATTTTA
71270635 GATTTTAACA
Statistics
Matches: 54, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
23 3 0.06
24 11 0.20
25 14 0.26
26 4 0.07
27 3 0.06
28 10 0.19
29 2 0.04
30 7 0.13
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.48
Consensus pattern (26 bp):
ATAATATATTTTATAATTAAAATTTA
Found at i:71270603 original size:24 final size:25
Alignment explanation
Indices: 71270562--71270618 Score: 73
Period size: 24 Copynumber: 2.3 Consensus size: 25
71270552 TATTTATAAT
* *
71270562 TAATTAATTTAATAATATATTT-TA
1 TAATTAAATTAATAATATATTTACA
71270586 TAATTAAATT-ATATATATATTTACA
1 TAATTAAATTAATA-ATATATTTACA
71270611 TAATTAAA
1 TAATTAAA
71270619 ATCTAAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 3 0.10
24 17 0.59
25 9 0.31
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (25 bp):
TAATTAAATTAATAATATATTTACA
Found at i:71273754 original size:25 final size:25
Alignment explanation
Indices: 71273726--71273775 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
71273716 GGAAGAGAAG
* *
71273726 ATGAAGAACGGATGAAGGAAAAGGA
1 ATGAAAAACGGAAGAAGGAAAAGGA
*
71273751 ATGAAAAACGGAAGAAGGAGAAGGA
1 ATGAAAAACGGAAGAAGGAAAAGGA
71273776 GCCTTACCTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.54, C:0.04, G:0.36, T:0.06
Consensus pattern (25 bp):
ATGAAAAACGGAAGAAGGAAAAGGA
Found at i:71274036 original size:14 final size:14
Alignment explanation
Indices: 71274013--71274042 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
71274003 AAAAAAGCCT
71274013 GAAAACCTTTTACA
1 GAAAACCTTTTACA
*
71274027 GAAAAGCTTTTACA
1 GAAAACCTTTTACA
71274041 GA
1 GA
71274043 TTACCAGATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.27
Consensus pattern (14 bp):
GAAAACCTTTTACA
Found at i:71274149 original size:27 final size:24
Alignment explanation
Indices: 71274110--71274177 Score: 70
Period size: 24 Copynumber: 2.8 Consensus size: 24
71274100 TTAATTCAGT
*
71274110 ATTAATTTA-TTTAAGTAATAATAA
1 ATTATTTTATTTTAA-TAATAATAA
71274134 ATATATTTTTATTTT-ATAA-AATAA
1 AT-TA-TTTTATTTTAATAATAATAA
*
71274158 ATTATATTATTTTAATAATA
1 ATTATTTTATTTTAATAATA
71274178 TTTTTATCTT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
22 8 0.22
23 6 0.16
24 10 0.27
25 5 0.14
26 5 0.14
27 3 0.08
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (24 bp):
ATTATTTTATTTTAATAATAATAA
Found at i:71274152 original size:22 final size:21
Alignment explanation
Indices: 71274125--71274177 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
71274115 TTTATTTAAG
*
71274125 TAATAATAAATATATTTTTATTT
1 TAATAATAAAT-TA-TATTATTT
*
71274148 TATAAAATAAATTATATTATTT
1 TA-ATAATAAATTATATTATTT
71274170 TAATAATA
1 TAATAATA
71274178 TTTTTATCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 5 0.19
22 9 0.35
23 4 0.15
24 8 0.31
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TAATAATAAATTATATTATTT
Found at i:71275340 original size:21 final size:20
Alignment explanation
Indices: 71275314--71275495 Score: 96
Period size: 20 Copynumber: 8.9 Consensus size: 20
71275304 AAATGTTTTA
71275314 TAAATATATTTTTACAAATTT
1 TAAATATATTTTTA-AAATTT
71275335 TAAATATATATTTTTAAAATTT
1 T-AA-ATATATTTTTAAAATTT
*
71275357 TAAATATATTTTTAATAA-TA
1 TAAATATATTTTTAA-AATTT
*
71275377 TAAA-A-A-ATTTAAATATTT
1 TAAATATATTTTTAAA-ATTT
* *
71275395 TAAATATATGACATTTGAAA-TT
1 TAAATATAT---TTTTAAAATTT
* *
71275417 T-ATTATTAGTTTTATAATATTT
1 TAAATA-TA-TTTT-TAAAATTT
*
71275439 TAAATGTATATTTT-AAATTT
1 TAAATATAT-TTTTAAAATTT
71275459 TAAATAT-TTTTT--AATTT
1 TAAATATATTTTTAAAATTT
* *
71275476 TACATATAATTTTTTAAATT
1 TAAATAT-ATTTTTAAAATT
71275496 ATGATTTTTT
Statistics
Matches: 127, Mismatches: 13, Indels: 42
0.70 0.07 0.23
Matches are distributed among these distances:
16 1 0.01
17 17 0.13
18 10 0.08
19 8 0.06
20 31 0.24
21 17 0.13
22 22 0.17
23 15 0.12
24 6 0.05
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (20 bp):
TAAATATATTTTTAAAATTT
Found at i:71278956 original size:13 final size:14
Alignment explanation
Indices: 71278914--71278958 Score: 51
Period size: 13 Copynumber: 3.3 Consensus size: 14
71278904 TAATAATGAT
71278914 TAAAGTATATTATAA
1 TAAAGTA-ATTATAA
71278929 TAATA-TAA-TATAA
1 TAA-AGTAATTATAA
71278942 TAAAGTAATTA-AA
1 TAAAGTAATTATAA
71278955 TAAA
1 TAAA
71278959 ATAAAAGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
12 1 0.04
13 17 0.63
14 3 0.11
15 5 0.19
16 1 0.04
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (14 bp):
TAAAGTAATTATAA
Found at i:71278990 original size:13 final size:13
Alignment explanation
Indices: 71278957--71278981 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
71278947 TAATTAAATA
71278957 AAATAAAAGAAAC
1 AAATAAAAGAAAC
71278970 AAATAAAAGAAA
1 AAATAAAAGAAA
71278982 GAATGAAAAA
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:0.80, C:0.04, G:0.08, T:0.08
Consensus pattern (13 bp):
AAATAAAAGAAAC
Found at i:71281675 original size:13 final size:13
Alignment explanation
Indices: 71281657--71281707 Score: 50
Period size: 13 Copynumber: 3.7 Consensus size: 13
71281647 TTTGAATATC
71281657 TTTAAAATTAAAT
1 TTTAAAATTAAAT
71281670 TTTAAAATTAATAAT
1 TTTAAAATT-A-AAT
*
71281685 TTATAAAAATTATA-
1 TT-T-AAAATTAAAT
71281699 TTTAAAATT
1 TTTAAAATT
71281708 TAAAATATAC
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
12 6 0.18
13 10 0.30
14 3 0.09
15 6 0.18
16 2 0.06
17 6 0.18
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
TTTAAAATTAAAT
Found at i:71281821 original size:30 final size:30
Alignment explanation
Indices: 71281774--71281857 Score: 107
Period size: 31 Copynumber: 2.8 Consensus size: 30
71281764 CAAAAATAAT
*
71281774 ATATTTTAAAA-AAATTAAAAATACTAAAA
1 ATATTATAAAACAAATTAAAAATACTAAAA
* **
71281803 ATATTATAAAACAAATTAAAAAATATTGTAA
1 ATATTATAAAACAAATT-AAAAATACTAAAA
*
71281834 ATATTACAAAACAAATTAAAAATA
1 ATATTATAAAACAAATTAAAAATA
71281858 TTTAAAATTT
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
29 10 0.21
30 12 0.25
31 26 0.54
ACGTcount: A:0.64, C:0.05, G:0.01, T:0.30
Consensus pattern (30 bp):
ATATTATAAAACAAATTAAAAATACTAAAA
Found at i:71281871 original size:16 final size:16
Alignment explanation
Indices: 71281846--71281894 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
71281836 ATTACAAAAC
*
71281846 AAATTAAAAATATTTA
1 AAATTTAAAATATTTA
71281862 AAATTTAAAATA--T-
1 AAATTTAAAATATTTA
*
71281875 ACATTTAAAATATTATA
1 AAATTTAAAATATT-TA
71281892 AAA
1 AAA
71281895 CTAATAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 7
0.72 0.08 0.19
Matches are distributed among these distances:
13 11 0.42
14 1 0.04
16 12 0.46
17 2 0.08
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (16 bp):
AAATTTAAAATATTTA
Found at i:71281908 original size:41 final size:40
Alignment explanation
Indices: 71281702--71281912 Score: 106
Period size: 41 Copynumber: 5.3 Consensus size: 40
71281692 AATTATATTT
*
71281702 AAAATTTAAAATATACATTTAAAATATTATAAAACAAATA
1 AAAATTTAAAATATACATTTAAAATATTATAAAACTAATA
* * ***
71281742 ATAAATTTGAAAGT-T-CATTTTTCAAAA-ATAATATATTTTAA-A
1 A-AAATTT-AAAATATACA--TTT-AAAATATTATA-AAACTAATA
* *
71281784 AAAA-TTAAAA-ATAC--TAAAAATATTATAAAACAAATTAA
1 AAAATTTAAAATATACATTTAAAATATTATAAAACTAA-T-A
* * * *
71281822 AAAATATTGTAAATATTACA---AAACAAATTA-AAAA-TATTT
1 AAAAT-TT-AAAATA-TACATTTAAA-ATATTATAAAACTAATA
71281861 AAAATTTAAAATATACATTTAAAATATTATAAAACTAATA
1 AAAATTTAAAATATACATTTAAAATATTATAAAACTAATA
71281901 ATAAATTTAAAA
1 A-AAATTTAAAA
71281913 GGTCATATCT
Statistics
Matches: 124, Mismatches: 22, Indels: 49
0.64 0.11 0.25
Matches are distributed among these distances:
35 7 0.06
36 10 0.08
37 5 0.04
38 12 0.10
39 16 0.13
40 13 0.10
41 24 0.19
42 22 0.18
43 15 0.12
ACGTcount: A:0.60, C:0.05, G:0.01, T:0.34
Consensus pattern (40 bp):
AAAATTTAAAATATACATTTAAAATATTATAAAACTAATA
Found at i:71281967 original size:21 final size:21
Alignment explanation
Indices: 71281943--71282060 Score: 78
Period size: 21 Copynumber: 6.0 Consensus size: 21
71281933 TAAATGTTTT
71281943 ATATTATTAAAAATATATTTA
1 ATATTATTAAAAATATATTTA
71281964 ATATT-TTAAAAATAATATTTA
1 ATATTATTAAAAAT-ATATTTA
*
71281985 AAATTA--AAAAATA-ATTT-
1 ATATTATTAAAAATATATTTA
*
71282002 A-A--A--AAATATATATTTA
1 ATATTATTAAAAATATATTTA
* *
71282018 AAATTTTTAAAAATATATTATAAA
1 ATATTATTAAAAATATATT-T--A
*
71282042 ATATT-TTAAATATATATTT
1 ATATTATTAAAAATATATTT
71282061 CAAGTTTTTT
Statistics
Matches: 79, Mismatches: 6, Indels: 23
0.73 0.06 0.21
Matches are distributed among these distances:
14 7 0.09
15 4 0.05
16 2 0.03
17 2 0.03
18 4 0.05
19 1 0.01
20 14 0.18
21 26 0.33
22 2 0.03
23 12 0.15
24 5 0.06
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
ATATTATTAAAAATATATTTA
Found at i:71282033 original size:23 final size:23
Alignment explanation
Indices: 71281987--71282059 Score: 85
Period size: 23 Copynumber: 3.1 Consensus size: 23
71281977 AATATTTAAA
* *
71281987 ATTAAAAAATAATTTAAAAAATAT
1 ATTATAAAAT-ATTTTAAAAATAT
*
71282011 ATATTTAAAAT-TTTTAAAAATAT
1 AT-TATAAAATATTTTAAAAATAT
*
71282034 ATTATAAAATATTTTAAATATAT
1 ATTATAAAATATTTTAAAAATAT
71282057 ATT
1 ATT
71282060 TCAAGTTTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
22 7 0.17
23 27 0.64
24 2 0.05
25 6 0.14
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
ATTATAAAATATTTTAAAAATAT
Found at i:71282069 original size:21 final size:21
Alignment explanation
Indices: 71282005--71282069 Score: 85
Period size: 21 Copynumber: 3.0 Consensus size: 21
71281995 ATAATTTAAA
71282005 AAATATATATTTAAAATTTTT
1 AAATATATATTTAAAATTTTT
*
71282026 AAAAATATATTATAAAATATTTT
1 AAATATATATT-TAAAAT-TTTT
* *
71282049 AAATATATATTTCAAGTTTTT
1 AAATATATATTTAAAATTTTT
71282070 TTAAATCAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
21 14 0.37
22 10 0.26
23 14 0.37
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (21 bp):
AAATATATATTTAAAATTTTT
Found at i:71282104 original size:4 final size:4
Alignment explanation
Indices: 71282071--71282156 Score: 63
Period size: 4 Copynumber: 21.0 Consensus size: 4
71282061 CAAGTTTTTT
* * *
71282071 TAAA TCAA T-AA TAAA -AAA TTAA TAAAA TAAA TAAGGA CAAA TAAA -AAA
1 TAAA TAAA TAAA TAAA TAAA TAAA T-AAA TAAA TAA--A TAAA TAAA TAAA
71282119 CTTTAAA -AAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 --T-AAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
71282157 AAGTAATAGG
Statistics
Matches: 67, Mismatches: 5, Indels: 20
0.73 0.05 0.22
Matches are distributed among these distances:
3 12 0.18
4 46 0.69
5 3 0.04
6 3 0.04
7 3 0.04
ACGTcount: A:0.71, C:0.03, G:0.02, T:0.23
Consensus pattern (4 bp):
TAAA
Found at i:71283106 original size:13 final size:13
Alignment explanation
Indices: 71283090--71283114 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
71283080 AATATGGCAT
71283090 GAAAATTTTTATA
1 GAAAATTTTTATA
71283103 GAAAATTTTTAT
1 GAAAATTTTTAT
71283115 CGATTATGTG
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
GAAAATTTTTATA
Found at i:71283592 original size:21 final size:23
Alignment explanation
Indices: 71283568--71283614 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 23
71283558 AATATGTTGT
* *
71283568 AAATTTAAAGTTTA-TGATAGA-
1 AAATTAAAAGGTTATTGATAGAG
71283589 AAA-TAAAAGGTTATTGATAGAG
1 AAATTAAAAGGTTATTGATAGAG
71283611 AAAT
1 AAAT
71283615 CACTTTTACA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
20 8 0.38
21 10 0.48
22 3 0.14
ACGTcount: A:0.51, C:0.00, G:0.17, T:0.32
Consensus pattern (23 bp):
AAATTAAAAGGTTATTGATAGAG
Found at i:71283597 original size:20 final size:22
Alignment explanation
Indices: 71283574--71283614 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
71283564 TTGTAAATTT
*
71283574 AAAGTTTA-TGATAGA-AAATA
1 AAAGGTTATTGATAGAGAAATA
71283594 AAAGGTTATTGATAGAGAAAT
1 AAAGGTTATTGATAGAGAAAT
71283615 CACTTTTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.51, C:0.00, G:0.20, T:0.29
Consensus pattern (22 bp):
AAAGGTTATTGATAGAGAAATA
Found at i:71285026 original size:21 final size:23
Alignment explanation
Indices: 71285002--71285048 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 23
71284992 TATATGTTGT
* *
71285002 AAATTTAAAGTTTA-TGATAGA-
1 AAATTAAAAGGTTATTGATAGAG
71285023 AAA-TAAAAGGTTATTGATAGAG
1 AAATTAAAAGGTTATTGATAGAG
71285045 AAAT
1 AAAT
71285049 CACTTTTACA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
20 8 0.38
21 10 0.48
22 3 0.14
ACGTcount: A:0.51, C:0.00, G:0.17, T:0.32
Consensus pattern (23 bp):
AAATTAAAAGGTTATTGATAGAG
Found at i:71285031 original size:20 final size:22
Alignment explanation
Indices: 71285008--71285048 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
71284998 TTGTAAATTT
*
71285008 AAAGTTTA-TGATAGA-AAATA
1 AAAGGTTATTGATAGAGAAATA
71285028 AAAGGTTATTGATAGAGAAAT
1 AAAGGTTATTGATAGAGAAAT
71285049 CACTTTTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.51, C:0.00, G:0.20, T:0.29
Consensus pattern (22 bp):
AAAGGTTATTGATAGAGAAATA
Found at i:71291370 original size:44 final size:44
Alignment explanation
Indices: 71291320--71291404 Score: 134
Period size: 44 Copynumber: 1.9 Consensus size: 44
71291310 CATGCATCGT
* *
71291320 ATCCATAATGAACTCGGATCAACTCAATGAGCTCGGATGCCCGC
1 ATCCATAATGAACTCGGACCAACTCAACGAGCTCGGATGCCCGC
**
71291364 ATCCATAATGAACTTTGACCAACTCAACGAGCTCGGATGCC
1 ATCCATAATGAACTCGGACCAACTCAACGAGCTCGGATGCC
71291405 TCACATATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (44 bp):
ATCCATAATGAACTCGGACCAACTCAACGAGCTCGGATGCCCGC
Found at i:71294901 original size:3 final size:3
Alignment explanation
Indices: 71294893--71295035 Score: 65
Period size: 3 Copynumber: 49.3 Consensus size: 3
71294883 GGGGAGAGTG
* * *
71294893 TTA TTA TTA TTA TGT- TTA TTA -TA TTA -TA TTTA CT- TTA TTA CTG
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA
* **
71294936 TTA CTA TTA TT- TTA -TA TATA TTTA TTA CCA TTA TTTA TT- TT- TTA
1 TTA TTA TTA TTA TTA TTA T-TA -TTA TTA TTA TTA -TTA TTA TTA TTA
* **
71294980 TTA TTA TTA GTA ACA -TA TTA TTA GTT- TTA TTA TT- TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
*
71295023 TTC TTA TTA TTA T
1 TTA TTA TTA TTA T
71295036 CATGGTACTA
Statistics
Matches: 106, Mismatches: 18, Indels: 32
0.68 0.12 0.21
Matches are distributed among these distances:
2 19 0.18
3 74 0.70
4 12 0.11
5 1 0.01
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:71295018 original size:20 final size:20
Alignment explanation
Indices: 71294995--71295033 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
71294985 ATTAGTAACA
71294995 TATTATTAGTT-TTATTATTT
1 TATTATTA-TTCTTATTATTT
71295015 TATTATTATTCTTATTATT
1 TATTATTATTCTTATTATT
71295034 ATCATGGTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.11
20 16 0.89
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.69
Consensus pattern (20 bp):
TATTATTATTCTTATTATTT
Found at i:71295029 original size:12 final size:11
Alignment explanation
Indices: 71294896--71295035 Score: 56
Period size: 14 Copynumber: 11.9 Consensus size: 11
71294886 GAGAGTGTTA
71294896 TTATTATTATGT
1 TTATTATTAT-T
71294908 TTATTATATTATAT
1 TTA-T-TATTAT-T
*
71294922 TTACTTTATTACTG
1 TTA--TTATTA-TT
*
71294936 TTACTATTATT
1 TTATTATTATT
71294947 TTA-TA-TATAT
1 TTATTATTAT-T
**
71294957 TTATTACCATT
1 TTATTATTATT
*
71294968 AT-TTATT-TT
1 TTATTATTATT
71294977 TTATTATTATT
1 TTATTATTATT
* *
71294988 AGTAACATATTATT
1 --TTA-TTATTATT
71295002 AGTT-TTATTATT
1 --TTATTATTATT
71295014 TTATTATTATT
1 TTATTATTATT
71295025 CTTATTATTAT
1 -TTATTATTAT
71295036 CATGGTACTA
Statistics
Matches: 101, Mismatches: 13, Indels: 28
0.71 0.09 0.20
Matches are distributed among these distances:
9 6 0.06
10 16 0.16
11 18 0.18
12 27 0.27
13 3 0.03
14 28 0.28
15 3 0.03
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.63
Consensus pattern (11 bp):
TTATTATTATT
Found at i:71296228 original size:24 final size:23
Alignment explanation
Indices: 71296184--71296228 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
71296174 AGATCGGTGG
* **
71296184 CGACTCCATTTTTTATTTTAAGT
1 CGACTCCATTTTTCAAATTAAGT
71296207 CGACTCCCATTTTTCAAATTAA
1 CGACT-CCATTTTTCAAATTAA
71296229 AAATGGTTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 5 0.28
24 13 0.72
ACGTcount: A:0.27, C:0.22, G:0.07, T:0.44
Consensus pattern (23 bp):
CGACTCCATTTTTCAAATTAAGT
Found at i:71299612 original size:3 final size:3
Alignment explanation
Indices: 71299604--71299632 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
71299594 ATCACATGTT
71299604 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
71299633 TGGGTGTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:71299756 original size:73 final size:73
Alignment explanation
Indices: 71299637--71299818 Score: 337
Period size: 73 Copynumber: 2.5 Consensus size: 73
71299627 ATTATTTGGG
*
71299637 TGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTAGTGATTTATTT
1 TGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTAGTGATTTATTT
71299702 TAAGTGGA
66 TAAGTGGA
*
71299710 TGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTTATTT
1 TGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTAGTGATTTATTT
71299775 TAAGTGGA
66 TAAGTGGA
*
71299783 TGTAATGATGAAACTTAGTTGTATTCAAACTAAGTT
1 TGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
71299819 GTCAAGTTGT
Statistics
Matches: 106, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 106 1.00
ACGTcount: A:0.29, C:0.06, G:0.24, T:0.41
Consensus pattern (73 bp):
TGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTAGTGATTTATTT
TAAGTGGA
Found at i:71304044 original size:3 final size:3
Alignment explanation
Indices: 71304036--71304073 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
71304026 ATCACATGTT
71304036 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
71304074 TGGATGTAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:71304155 original size:73 final size:73
Alignment explanation
Indices: 71304074--71304259 Score: 363
Period size: 73 Copynumber: 2.5 Consensus size: 73
71304064 TATTATTATT
*
71304074 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
71304139 ATTTTAAG
66 ATTTTAAG
71304147 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
71304212 ATTTTAAG
66 ATTTTAAG
71304220 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
71304260 GTCAAGTTGT
Statistics
Matches: 112, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 112 1.00
ACGTcount: A:0.28, C:0.06, G:0.25, T:0.41
Consensus pattern (73 bp):
TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
ATTTTAAG
Found at i:71308410 original size:7 final size:7
Alignment explanation
Indices: 71308393--71308426 Score: 59
Period size: 7 Copynumber: 4.7 Consensus size: 7
71308383 ATACATATAT
71308393 TTTTATTA
1 TTTT-TTA
71308401 TTTTTTA
1 TTTTTTA
71308408 TTTTTTA
1 TTTTTTA
71308415 TTTTTTA
1 TTTTTTA
71308422 TTTTT
1 TTTTT
71308427 ATAATTGGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 22 0.85
8 4 0.15
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTTTA
Found at i:71310551 original size:22 final size:21
Alignment explanation
Indices: 71310508--71310559 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 21
71310498 ATAACATGAA
* *
71310508 ATATAAATACATAAAAAAATT
1 ATATAAAAAAATAAAAAAATT
71310529 AT-TAAAAAAATAATAAAACATT
1 ATATAAAAAAATAA-AAAA-ATT
71310551 ATATAAAAA
1 ATATAAAAA
71310560 CATTATATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 9 0.35
21 6 0.23
22 5 0.19
23 6 0.23
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (21 bp):
ATATAAAAAAATAAAAAAATT
Found at i:71310561 original size:13 final size:13
Alignment explanation
Indices: 71310518--71310567 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
71310508 ATATAAATAC
*
71310518 ATAAAAAAATTAT
1 ATAAAAACATTAT
*
71310531 -TAAAAA-AATA-
1 ATAAAAACATTAT
71310541 AT-AAAACATTAT
1 ATAAAAACATTAT
71310553 ATAAAAACATTAT
1 ATAAAAACATTAT
71310566 AT
1 AT
71310568 TAAATATGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
10 4 0.13
11 7 0.23
12 8 0.26
13 12 0.39
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (13 bp):
ATAAAAACATTAT
Found at i:71315916 original size:10 final size:10
Alignment explanation
Indices: 71315901--71315950 Score: 55
Period size: 11 Copynumber: 4.6 Consensus size: 10
71315891 CAGTGGAGAC
71315901 AAAAAAAGAA
1 AAAAAAAGAA
71315911 AAAAAAAGTAA
1 AAAAAAAG-AA
71315922 AAAAAACGAGAA
1 AAAAAA--AGAA
*
71315934 AATAAAAATAA
1 AA-AAAAAGAA
71315945 AAAAAA
1 AAAAAA
71315951 CCAAATAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
10 12 0.34
11 13 0.37
12 4 0.11
13 6 0.17
ACGTcount: A:0.84, C:0.02, G:0.08, T:0.06
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:71315933 original size:23 final size:23
Alignment explanation
Indices: 71315907--71315951 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
71315897 AGACAAAAAA
71315907 AGAAAA-AAAAAGTAAAAAAAACG
1 AGAAAATAAAAA-TAAAAAAAACG
71315930 AGAAAATAAAAATAAAAAAAAC
1 AGAAAATAAAAATAAAAAAAAC
71315952 CAAATAAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.80, C:0.04, G:0.09, T:0.07
Consensus pattern (23 bp):
AGAAAATAAAAATAAAAAAAACG
Found at i:71316404 original size:20 final size:21
Alignment explanation
Indices: 71316379--71316417 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
71316369 TTCACTTGAA
71316379 AAAAAAACG-AAAAGAAAAAT
1 AAAAAAACGAAAAAGAAAAAT
*
71316399 AAAAAAATGAAAAAGAAAA
1 AAAAAAACGAAAAAGAAAA
71316418 GAAGAAAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.82, C:0.03, G:0.10, T:0.05
Consensus pattern (21 bp):
AAAAAAACGAAAAAGAAAAAT
Found at i:71316417 original size:26 final size:28
Alignment explanation
Indices: 71316381--71316432 Score: 81
Period size: 27 Copynumber: 1.9 Consensus size: 28
71316371 CACTTGAAAA
*
71316381 AAAAACGAAAAGAA-AAATAAAAAAATG
1 AAAAACGAAAAGAAGAAAGAAAAAAATG
71316408 AAAAA-GAAAAGAAGAAAGAAAAAAA
1 AAAAACGAAAAGAAGAAAGAAAAAAA
71316433 AAAGGAGAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 8 0.35
27 15 0.65
ACGTcount: A:0.81, C:0.02, G:0.13, T:0.04
Consensus pattern (28 bp):
AAAAACGAAAAGAAGAAAGAAAAAAATG
Found at i:71317535 original size:86 final size:86
Alignment explanation
Indices: 71317390--71317824 Score: 658
Period size: 86 Copynumber: 5.1 Consensus size: 86
71317380 AGTAAAAATT
* * * * * *
71317390 GAAGATAAACCTTGCCTCTCTCAG-TCGTAGCAGAGCTGGTTGAAGTTATCAGATCTTGCCTTCC
1 GAAGACAAACCTTGCCACTCTC-GTTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCC
71317454 TGCATTGACAGCGAAGCAGATC
65 TGCATTGACAGCGAAGCAGATC
71317476 GAAGACAAACCTTGCCACTCTCGTTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
1 GAAGACAAACCTTGCCACTCTCGTTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
71317541 GCATTGACAGCGAAGCAGATC
66 GCATTGACAGCGAAGCAGATC
** *
71317562 GAAGACAAACCTTGCCACTCTTTTTTTTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
1 GAAGACAAACCTTGCCACTCTCGTTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
71317627 GCATTGACAGCGAAGCAGATC
66 GCATTGACAGCGAAGCAGATC
* * *
71317648 GAAGACAAACTTTGCCACTCT-TTTTTTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
1 GAAGACAAACCTTGCCACTCTCGTTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
*
71317712 GCACTGACAGCGAAGCAGATC
66 GCATTGACAGCGAAGCAGATC
* * * * *
71317733 GAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATATCAGATCTTGCTTTTCT
1 GAAGACAAACCTTGCCACTCTCGTTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
* *
71317798 GTATTTGGCAGCGAAGCAGATC
66 GCA-TTGACAGCGAAGCAGATC
71317820 GAAGA
1 GAAGA
71317825 TGGCAGATTT
Statistics
Matches: 324, Mismatches: 22, Indels: 5
0.92 0.06 0.01
Matches are distributed among these distances:
85 83 0.26
86 220 0.68
87 21 0.06
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.28
Consensus pattern (86 bp):
GAAGACAAACCTTGCCACTCTCGTTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
GCATTGACAGCGAAGCAGATC
Found at i:71317577 original size:42 final size:42
Alignment explanation
Indices: 71317444--71317577 Score: 105
Period size: 42 Copynumber: 3.1 Consensus size: 42
71317434 GTTATCAGAT
71317444 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAAC
1 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAAC
* * * * * * * * *
71317486 CTTGCC-ACTCT-CGTTTG-TAG-TAGAGCTGGTTGAAGATAGCAGAT
1 CTTGCCTTC-CTGC-ATTGACAGCGA-AGCAGATCGAAG--A-CAAAC
71317530 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAAC
1 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAAC
71317572 CTTGCC
1 CTTGCC
71317578 ACTCTTTTTT
Statistics
Matches: 64, Mismatches: 18, Indels: 20
0.63 0.18 0.20
Matches are distributed among these distances:
40 1 0.02
41 13 0.20
42 20 0.31
43 2 0.03
44 14 0.22
45 13 0.20
46 1 0.02
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (42 bp):
CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAAC
Found at i:71317770 original size:171 final size:172
Alignment explanation
Indices: 71317390--71317824 Score: 685
Period size: 171 Copynumber: 2.5 Consensus size: 172
71317380 AGTAAAAATT
* * *
71317390 GAAGATAAACCTTGCCTCTCTCAG-TCGTAGCAGAGCTGGTTGAAGTTATCAGATCTTGCCTTCC
1 GAAGACAAACCTTGCCTCTCTC-GTTTGTAGCAGAGCTGGTTGAAGATATCAGATCTTGCCTTCC
71317454 TGCATTGACAGCGAAGCAGATCGAAGACAAACCTTGCCACTCTCGTTTGTAGTAGAGCTGGTTGA
65 TGCATTGACAGCGAAGCAGATCGAAGACAAACCTTGCCACTCTCGTTTGTAGTAGAGCTGGTTGA
*
71317519 AGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATC
130 AGATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATC
* ** * * *
71317562 GAAGACAAACCTTGCCACTCTTTTTTTTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
1 GAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATATCAGATCTTGCCTTCCT
* * *
71317627 GCATTGACAGCGAAGCAGATCGAAGACAAACTTTGCCACTCT-TTTTTTAGTAGAGCTGGTTGAA
66 GCATTGACAGCGAAGCAGATCGAAGACAAACCTTGCCACTCTCGTTTGTAGTAGAGCTGGTTGAA
71317691 GATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATC
131 GATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATC
* *
71317733 GAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATATCAGATCTTGCTTTTCT
1 GAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATATCAGATCTTGCCTTCCT
* *
71317798 GTATTTGGCAGCGAAGCAGATCGAAGA
66 GCA-TTGACAGCGAAGCAGATCGAAGA
71317825 TGGCAGATTT
Statistics
Matches: 238, Mismatches: 23, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
171 120 0.50
172 118 0.50
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.28
Consensus pattern (172 bp):
GAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATATCAGATCTTGCCTTCCT
GCATTGACAGCGAAGCAGATCGAAGACAAACCTTGCCACTCTCGTTTGTAGTAGAGCTGGTTGAA
GATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATC
Found at i:71318013 original size:134 final size:134
Alignment explanation
Indices: 71317772--71318047 Score: 491
Period size: 134 Copynumber: 2.1 Consensus size: 134
71317762 GCAGAGCTGG
* * *
71317772 TTGAAGATATCAGATCTTGCTTTTCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTA
1 TTGAAGATATCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
*
71317837 CCTCCCTGACAACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAA
66 CCTCCCTGACAACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAA
71317902 TAGA
131 TAGA
71317906 TTGAAGAT-TGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTT
1 TTGAAGATAT-CAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTT
*
71317970 ACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGA
65 ACCTCCCTGACAACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGA
71318035 ATAGA
130 ATAGA
71318040 TTGAAGAT
1 TTGAAGAT
71318048 CGAAGATGGC
Statistics
Matches: 136, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
133 1 0.01
134 135 0.99
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.30
Consensus pattern (134 bp):
TTGAAGATATCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
CCTCCCTGACAACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAA
TAGA
Found at i:71318034 original size:45 final size:45
Alignment explanation
Indices: 71317983--71318140 Score: 133
Period size: 45 Copynumber: 3.4 Consensus size: 45
71317973 TCCCTGACCA
* *
71317983 CAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
1 CAGTGGAATACATTGAAGCCGATAATTCTATCTCCCTGTATTTGG
* * * * * *
71318028 CAGTGGAATAGATTGAAGATCGAAGATGGCAGATTTTACCTCCCTG-A-CT-A
1 CAGTGGAATACATTGAAG--C--CGAT---A-ATTCTATCTCCCTGTATTTGG
*
71318078 CAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGG
1 CAGTGGAATACATTGAAGCCGATAATTCTATCTCCCTGTATTTGG
*
71318123 CAGTGGAATAGATTGAAG
1 CAGTGGAATACATTGAAG
71318141 ATTGCAGATC
Statistics
Matches: 85, Mismatches: 17, Indels: 22
0.69 0.14 0.18
Matches are distributed among these distances:
42 12 0.14
43 2 0.02
44 1 0.01
45 32 0.38
46 3 0.04
47 1 0.01
48 1 0.01
49 3 0.04
50 16 0.19
51 1 0.01
52 2 0.02
53 11 0.13
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.29
Consensus pattern (45 bp):
CAGTGGAATACATTGAAGCCGATAATTCTATCTCCCTGTATTTGG
Found at i:71318047 original size:88 final size:88
Alignment explanation
Indices: 71317929--71318149 Score: 300
Period size: 95 Copynumber: 2.4 Consensus size: 88
71317919 ATCTTGCCTT
* * **
71317929 CCTGTATTTGGCAG-CGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTA
1 CCTGTATTTGGCAGTGGAA-TAGATTGAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTA
71317993 CATTGAAGCCGATAACTCTATCTC
65 CATTGAAGCCGATAACTCTATCTC
*
71318017 CCTGTATTTGGCAGTGGAATAGATTGAAGATCGAAGATGGCAGATTTTACCTCCCTGACTACAGT
1 CCTGTATTTGGCAGTGGAATAGA-T-----T-GAAGATGGCAGATTTTACCTCCCTGACCACAGT
*
71318082 GGAGTACATTGAAGCCGATAATTCTATCTC
59 GGAGTACATTGAAGCCGATAACTCTATCTC
*
71318112 CCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGAT
1 CCTGTATTTGGCAGTGGAATAGATTGAAGATGGCAGAT
71318150 CTTGCCTTCC
Statistics
Matches: 118, Mismatches: 7, Indels: 16
0.84 0.05 0.11
Matches are distributed among these distances:
88 29 0.25
89 5 0.04
94 1 0.01
95 83 0.70
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.28
Consensus pattern (88 bp):
CCTGTATTTGGCAGTGGAATAGATTGAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTAC
ATTGAAGCCGATAACTCTATCTC
Found at i:71318063 original size:95 final size:95
Alignment explanation
Indices: 71317949--71318142 Score: 361
Period size: 95 Copynumber: 2.0 Consensus size: 95
71317939 GCAGCGAAGC
71317949 AGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
71318014 CTCCCTGTATTTGGCAGTGGAATAGATTGA
66 CTCCCTGTATTTGGCAGTGGAATAGATTGA
* * *
71318044 AGATCGAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
71318109 CTCCCTGTATTTGGCAGTGGAATAGATTGA
66 CTCCCTGTATTTGGCAGTGGAATAGATTGA
71318139 AGAT
1 AGAT
71318143 TGCAGATCTT
Statistics
Matches: 96, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
95 96 1.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (95 bp):
AGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
CTCCCTGTATTTGGCAGTGGAATAGATTGA
Found at i:71318083 original size:229 final size:229
Alignment explanation
Indices: 71317815--71318505 Score: 1301
Period size: 229 Copynumber: 3.0 Consensus size: 229
71317805 GCAGCGAAGC
*
71317815 AGATCGAAGATGGCAGATTTTACCTCCCTGACAACAGTGGAGTACATTGAAGCCGATAATTCTAT
1 AGATCGAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
71317880 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
66 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
71317945 AAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACT
131 AAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACT
71318010 CTATCTCCCTGTATTTGGCAGTGGAATAGATTGA
196 CTATCTCCCTGTATTTGGCAGTGGAATAGATTGA
71318044 AGATCGAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
1 AGATCGAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
71318109 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
66 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
*
71318174 AAGCAGATCAAAGATGGCAGATTTTACCTCCTTGACCACAGTGGAGTACATTGAAGCCGATAACT
131 AAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACT
71318239 CTATCTCCCTGTATTTGGCAGTGGAATAGATTGA
196 CTATCTCCCTGTATTTGGCAGTGGAATAGATTGA
*
71318273 AGATCGAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCGAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
* *
71318338 CTCCCTGTATTTGGCAGTGGGATAGATTGAAAATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
66 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
* *
71318403 AAGCAGATCGAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACT
131 AAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACT
* *
71318468 CTATCTCCTTGTATCTGGCAGTGGAATAGATTGA
196 CTATCTCCCTGTATTTGGCAGTGGAATAGATTGA
71318502 AGAT
1 AGAT
71318506 TGCAGATCTT
Statistics
Matches: 452, Mismatches: 10, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
229 452 1.00
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (229 bp):
AGATCGAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
AAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACT
CTATCTCCCTGTATTTGGCAGTGGAATAGATTGA
Found at i:71318292 original size:95 final size:95
Alignment explanation
Indices: 71318178--71318734 Score: 349
Period size: 95 Copynumber: 6.0 Consensus size: 95
71318168 GCAGCGAAGC
*
71318178 AGATCAAAGATGGCAGATTTTACCTCCTTGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
71318243 CTCCCTGTATTTGGCAGTGGAATAGATTGA
66 CTCCCTGTATTTGGCAGTGGAATAGATTGA
* *
71318273 AGATCGAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
*
71318338 CTCCCTGTATTTGGCAGTGGGATAGATT--
66 CTCCCTGTATTTGGCAGTGGAATAGATTGA
* * * * *** * * * * * ** ** *
71318366 -G---AAA-ATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATT
1 AGATCAAAGATGGCAGATTTTACCTCCCTG-A--CCACAGTGGAGTACATTGAAGCCGATA-ACT
* * * * * *
71318426 TTACCTCCCTG-A-CT-ACAGTGGAGTACATTGA
62 CTATCTCCCTGTATTTGGCAGTGGAATAGATTGA
* * * * * ** * * ** * *
71318457 AG--C--CGAT---A-ACTCTATCTCCTTGTATCTGGCAGTGGAATAGATTGAAGATTGCAGATC
1 AGATCAAAGATGGCAGATTTTACCTCCCTG-A-C-CACAGTGGAGTACATTGAAG-CCG-ATAAC
** * * * * *
71318514 T-TGCCTTCCTGTAATTGGAAG-CG---A-A--GC
61 TCTATCTCCCTGTATTTGGCAGTGGAATAGATTGA
* * *
71318541 AGATCAAATATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTAAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
*
71318606 CTCCCTGCATTTGGCAGTGGAATAGATTGA
66 CTCCCTGTATTTGGCAGTGGAATAGATTGA
* *
71318636 AGATCAAAGATGGCAGATTTTACTTCCCTGACTACA-TGGGAGTACATTGAAGCCGATAACTCTA
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGT-GGAGTACATTGAAGCCGATAACTCTA
*
71318700 TCTCCCTGTATCTGGCAGTGGAATAGATTGA
65 TCTCCCTGTATTTGGCAGTGGAATAGATTGA
71318731 AGAT
1 AGAT
71318735 TGTAGATCTT
Statistics
Matches: 347, Mismatches: 83, Indels: 64
0.70 0.17 0.13
Matches are distributed among these distances:
84 3 0.01
86 2 0.01
87 6 0.02
88 66 0.19
89 35 0.10
90 5 0.01
91 20 0.06
92 26 0.07
93 1 0.00
94 1 0.00
95 182 0.52
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.29
Consensus pattern (95 bp):
AGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
CTCCCTGTATTTGGCAGTGGAATAGATTGA
Done.