Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 122 of 221
Found at i:37470350 original size:23 final size:23
Alignment explanation
Indices: 37470324--37470368 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
37470314 TACAATATAA
37470324 AATATTAAATTAGAATTT-TTATT
1 AATATTAAATTA-AATTTATTATT
37470347 AATATTAAATTAAATTTATTAT
1 AATATTAAATTAAATTTATTAT
37470369 CTTTAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (23 bp):
AATATTAAATTAAATTTATTATT
Found at i:37470607 original size:18 final size:16
Alignment explanation
Indices: 37470586--37470629 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
37470576 TCCATCATAA
37470586 TATTTTACATATTTTAAT
1 TATTTTA-ATA-TTTAAT
*
37470604 TATTTTTAATATTTATT
1 TA-TTTTAATATTTAAT
37470621 TATTTTAAT
1 TATTTTAAT
37470630 TATAAAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 7 0.29
17 7 0.29
18 5 0.21
19 5 0.21
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (16 bp):
TATTTTAATATTTAAT
Found at i:37470618 original size:17 final size:19
Alignment explanation
Indices: 37470588--37470626 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
37470578 CATCATAATA
37470588 TTTTACATATTTTAATTAT
1 TTTTACATATTTTAATTAT
*
37470607 TTTTA-ATA-TTTATTTAT
1 TTTTACATATTTTAATTAT
37470624 TTT
1 TTT
37470627 AATTATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 11 0.58
18 3 0.16
19 5 0.26
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTTACATATTTTAATTAT
Found at i:37470660 original size:20 final size:21
Alignment explanation
Indices: 37470621--37470663 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
37470611 AATATTTATT
37470621 TATTTTAATTATAAAATAAAA
1 TATTTTAATTATAAAATAAAA
37470642 TATTTT-ATT-TAATAATAAAA
1 TATTTTAATTATAA-AATAAAA
37470662 TA
1 TA
37470664 ATTAAATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 3 0.14
20 12 0.57
21 6 0.29
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
TATTTTAATTATAAAATAAAA
Found at i:37471752 original size:94 final size:92
Alignment explanation
Indices: 37471566--37471798 Score: 238
Period size: 94 Copynumber: 2.5 Consensus size: 92
37471556 CATAGTTCAC
* * * * *
37471566 TTCTTCACTATTTTCATGAGAAA-TTAAGTTTAATCCCACATT-AGTAGGGAACACTCTCATGCT
1 TTCTTCACTATTTTCAT-AAAAAGTTAATTTTAATCTCACATTGACTAGAGAACACTCTCATGCT
* **
37471629 CACACTTACCTTATAAATAAGTGTTAAT
65 CACACTTAACTTATAAATAAGTGACAAT
* * *
37471657 TTCTTCATTATTTTCATTAAAAGGTTAATTTTAATCTCATATTGACTAGAGAACACTCTCAAAT-
1 TTCTTCACTATTTTCA-TAAAAAGTTAATTTTAATCTCACATTGACTAGAGAACACTCTC--ATG
* * *
37471721 CTCATATTTAACTTATAAGTAAGTGACAAT
63 CTCACACTTAACTTATAAATAAGTGACAAT
*
37471751 TTCTTCCCTATTTTCATAAAAAAAAAGTTAATTTTAATCTCACATTGA
1 TTCTTCACTATTTTCAT----AAAAAGTTAATTTTAATCTCACATTGA
37471799 TTACAAAATA
Statistics
Matches: 115, Mismatches: 18, Indels: 12
0.79 0.12 0.08
Matches are distributed among these distances:
91 18 0.16
92 17 0.15
93 15 0.13
94 38 0.33
95 2 0.02
97 25 0.22
ACGTcount: A:0.35, C:0.17, G:0.09, T:0.39
Consensus pattern (92 bp):
TTCTTCACTATTTTCATAAAAAGTTAATTTTAATCTCACATTGACTAGAGAACACTCTCATGCTC
ACACTTAACTTATAAATAAGTGACAAT
Found at i:37472060 original size:95 final size:95
Alignment explanation
Indices: 37471881--37472135 Score: 291
Period size: 95 Copynumber: 2.7 Consensus size: 95
37471871 ACACTTATCC
* * * * * *
37471881 TATAAATAAGTGTCAATTTCTTCATTATTTTTATT-TAAAAGTTAATCTTAATCTCACGTTGAGT
1 TATAAATAAGTGACAATTTCTTCACTATTTTCATTAAAAAAATTAATCTTAATCTCACGTTGACT
* * *
37471945 AGAGAACACTCTCATGTCTCATATTTAACT
66 AGAGAACACCCTCATATCTCACATTTAACT
* * * *
37471975 TATAAATAAGTGACAACTTCTTCACTATTTTCATTAAAAAAATTAGTTTTAATCTCACTTTGACT
1 TATAAATAAGTGACAATTTCTTCACTATTTTCATTAAAAAAATTAATCTTAATCTCACGTTGACT
* *
37472040 AGGGAACACCCTCATATCTCACATTTACCT
66 AGAGAACACCCTCATATCTCACATTTAACT
* * * * * * *
37472070 TATAAATAAGTGA-TATTTGTTTACTATTTTCATT-AAAAATTTAATATTAATCTCAGGTTAACT
1 TATAAATAAGTGACAATTTCTTCACTATTTTCATTAAAAAAATTAATCTTAATCTCACGTTGACT
37472133 AGA
66 AGA
37472136 AAGTACTCTT
Statistics
Matches: 134, Mismatches: 26, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
93 25 0.19
94 48 0.36
95 61 0.46
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.41
Consensus pattern (95 bp):
TATAAATAAGTGACAATTTCTTCACTATTTTCATTAAAAAAATTAATCTTAATCTCACGTTGACT
AGAGAACACCCTCATATCTCACATTTAACT
Found at i:37472294 original size:79 final size:80
Alignment explanation
Indices: 37472195--37472366 Score: 211
Period size: 80 Copynumber: 2.1 Consensus size: 80
37472185 ATATTTTAAA
* * * * *
37472195 ATTTTAATTTTAATCCCACATTGACTAGAGAGCACTCTTATG-CTCACACTTACCCTATAAATAA
1 ATTTTAA--TTAATCCCACATTGACTACAAAACACTCTCATGTCTCACACTTACCCTATAAACAA
* *
37472259 GTGTTAATTTCTTTACT
64 GTGATAATTTCTTCACT
* * * **
37472276 ATTTTTATTAATCTCACATTGACTACAAAACACTCTCATGTCTCACATTTACTTTATAAACAAGT
1 ATTTTAATTAATCCCACATTGACTACAAAACACTCTCATGTCTCACACTTACCCTATAAACAAGT
37472341 GATAATTTCTTCACT
66 GATAATTTCTTCACT
37472356 ATTTTAATTAA
1 ATTTTAATTAA
37472367 AAAGTTAATT
Statistics
Matches: 77, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
79 28 0.36
80 43 0.56
81 6 0.08
ACGTcount: A:0.33, C:0.20, G:0.06, T:0.41
Consensus pattern (80 bp):
ATTTTAATTAATCCCACATTGACTACAAAACACTCTCATGTCTCACACTTACCCTATAAACAAGT
GATAATTTCTTCACT
Found at i:37473445 original size:22 final size:22
Alignment explanation
Indices: 37473420--37473470 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
37473410 ATTTTTTAAA
*
37473420 TTATTTTATCAAGATA-ATCTTT
1 TTATTTTATCAAGAAACAT-TTT
* *
37473442 TTATTTGATGAAGAAACATTTT
1 TTATTTTATCAAGAAACATTTT
37473464 TTATTTT
1 TTATTTT
37473471 TATTTTATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 22 0.92
23 2 0.08
ACGTcount: A:0.31, C:0.06, G:0.08, T:0.55
Consensus pattern (22 bp):
TTATTTTATCAAGAAACATTTT
Found at i:37475116 original size:27 final size:26
Alignment explanation
Indices: 37475071--37475122 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
37475061 ACAAATAAAT
37475071 TATAAATAAAAAACCAAAACACATATA
1 TATAAATAAAAAACCAAAA-ACATATA
*
37475098 TATAAATACAAAAA-GAAAAACATAT
1 TATAAATA-AAAAACCAAAAACATAT
37475123 CAAATGATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 6 0.26
27 12 0.52
28 5 0.22
ACGTcount: A:0.67, C:0.12, G:0.02, T:0.19
Consensus pattern (26 bp):
TATAAATAAAAAACCAAAAACATATA
Found at i:37476339 original size:5 final size:6
Alignment explanation
Indices: 37476312--37476346 Score: 52
Period size: 6 Copynumber: 5.5 Consensus size: 6
37476302 CTATTTAATG
37476312 AAATAA AAACTTAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAA--TAA AAATAA AAATAA AAATAA AAA
37476347 GAATAAACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 21 0.78
8 6 0.22
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:37477949 original size:20 final size:20
Alignment explanation
Indices: 37477920--37477966 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
37477910 ATATATCTTG
37477920 AATT-ATTTGATTCTAAT-A
1 AATTAATTTGATTCTAATCA
*
37477938 AATTCAATTTGATTTTAATCA
1 AATT-AATTTGATTCTAATCA
37477959 AATTAATT
1 AATTAATT
37477967 CAATTGCCCC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 4 0.16
20 16 0.64
21 5 0.20
ACGTcount: A:0.40, C:0.06, G:0.04, T:0.49
Consensus pattern (20 bp):
AATTAATTTGATTCTAATCA
Found at i:37477952 original size:25 final size:25
Alignment explanation
Indices: 37477924--37477971 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
37477914 ATCTTGAATT
* *
37477924 ATTTGATTCTAATAAATTCAATTTG
1 ATTTGAATCAAATAAATTCAATTTG
* *
37477949 ATTTTAATCAAATTAATTCAATT
1 ATTTGAATCAAATAAATTCAATT
37477972 GCCCCTTTAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.40, C:0.08, G:0.04, T:0.48
Consensus pattern (25 bp):
ATTTGAATCAAATAAATTCAATTTG
Found at i:37485253 original size:63 final size:63
Alignment explanation
Indices: 37485177--37485513 Score: 164
Period size: 63 Copynumber: 5.2 Consensus size: 63
37485167 AAATAGCTTG
*
37485177 TTGATTTAATATCACAGTTGATATTATTAAGGCTCACTGATTTACGATTACAACCTAAGTTCA
1 TTGATTTAATATCACAGTTGATATTATTAAGGCTCACTGATTTACGATCACAACCTAAGTTCA
* * **** * * * * * * * *
37485240 TTGATTTACTATCATAAACAATCTTTTCTAA-G-TTAGTTAATTTACTATCACTACTCCAAATAG
1 TTGATTTAATATCACAGTTGATATTAT-TAAGGCTCA-CTGATTTACGATCAC-A-ACC-TA-AG
*
37485303 CTT-G
60 -TTCA
* *
37485307 TTGATTTAATATCACAGTTGATATTATTAAGGCTCGCTGATTTACGATCAAAACCTAAGTTCA
1 TTGATTTAATATCACAGTTGATATTATTAAGGCTCACTGATTTACGATCACAACCTAAGTTCA
* * * * * * * * *** * *
37485370 TTGATTTACTATCA-TGAATAATATTCTCTAA-G-TTAGTTGATTTACTATCGTTACTTCAAATA
1 TTGATTTAATATCACAG-TTGATATTAT-TAAGGCTCA-CTGATTTACGATCACAACCT-AAGT-
*
37485432 ACTCG
61 --TCA
* ** * *
37485437 CTGATTTAAGGTCACAATTGATATTATTAAGGCTCGCTGATTTACGATCACAACCTAAGTTCA
1 TTGATTTAATATCACAGTTGATATTATTAAGGCTCACTGATTTACGATCACAACCTAAGTTCA
*
37485500 TTGATTTACTATCA
1 TTGATTTAATATCA
37485514 TGTACAATCT
Statistics
Matches: 183, Mismatches: 71, Indels: 40
0.62 0.24 0.14
Matches are distributed among these distances:
62 6 0.03
63 80 0.44
64 11 0.06
65 4 0.02
66 11 0.06
67 67 0.37
68 4 0.02
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.39
Consensus pattern (63 bp):
TTGATTTAATATCACAGTTGATATTATTAAGGCTCACTGATTTACGATCACAACCTAAGTTCA
Found at i:37485276 original size:130 final size:130
Alignment explanation
Indices: 37485043--37485800 Score: 907
Period size: 130 Copynumber: 5.8 Consensus size: 130
37485033 TGTAAAACAA
* * * * * * *
37485043 CTTGTTGATTTAAGATCATAGATGATATTATTAAGGCTCGTTAATTTATGATCACAGCCTAAGTT
1 CTTGTTGATTTAATATCACAGTTGATATTATTAAGGCTCGCTGATTTACGATCACAACCTAAGTT
37485108 CATTGATTTACTATCATGAACAATCTTTTCTAAGTTAGTTGATTTACTATCTCTACTCCAAATAG
66 CATTGATTTACTATCATGAACAATCTTTTCTAAGTTAGTTGATTTACTATCTCTACTCCAAATAG
* *
37485173 CTTGTTGATTTAATATCACAGTTGATATTATTAAGGCTCACTGATTTACGATTACAACCTAAGTT
1 CTTGTTGATTTAATATCACAGTTGATATTATTAAGGCTCGCTGATTTACGATCACAACCTAAGTT
* * *
37485238 CATTGATTTACTATCATAAACAATCTTTTCTAAGTTAGTTAATTTACTATCACTACTCCAAATAG
66 CATTGATTTACTATCATGAACAATCTTTTCTAAGTTAGTTGATTTACTATCTCTACTCCAAATAG
*
37485303 CTTGTTGATTTAATATCACAGTTGATATTATTAAGGCTCGCTGATTTACGATCAAAACCTAAGTT
1 CTTGTTGATTTAATATCACAGTTGATATTATTAAGGCTCGCTGATTTACGATCACAACCTAAGTT
* * * *
37485368 CATTGATTTACTATCATGAATAATATTCTCTAAGTTAGTTGATTTACTATCGT-TACTTCAAATA
66 CATTGATTTACTATCATGAACAATCTTTTCTAAGTTAGTTGATTTACTATC-TCTACTCCAAATA
*
37485432 A
130 G
* * ** *
37485433 CTCGCTGATTTAAGGTCACAATTGATATTATTAAGGCTCGCTGATTTACGATCACAACCTAAGTT
1 CTTGTTGATTTAATATCACAGTTGATATTATTAAGGCTCGCTGATTTACGATCACAACCTAAGTT
* * * * * * *
37485498 CATTGATTTACTATCATGTACAATCTTCTCTGAGTTAGCTGATTTATTATCGCTACTCCAAACAG
66 CATTGATTTACTATCATGAACAATCTTTTCTAAGTTAGTTGATTTACTATCTCTACTCCAAATAG
*** * * * ** *
37485563 CTCACT-AGTTTAATATCACAGCTGATATTATTAATGCTCGTTGATTTACGATCACGGCCTAAAT
1 CTTGTTGA-TTTAATATCACAGTTGATATTATTAAGGCTCGCTGATTTACGATCACAACCTAAGT
* *
37485627 TCATTGATTTAATATCATGAACAATCTTCTT-TAAGTTAGTTGATTTACTAT-TGCTACTTCAAA
65 TCATTGATTTACTATCATGAACAATCTT-TTCTAAGTTAGTTGATTTACTATCT-CTACTCCAAA
*
37485690 CA-
128 TAG
* * * * * * * * * *
37485692 ATTCATAGATTTAATATCATAGCTGATATTATTAAGGCTCACTAATTTACGATAACAGCCGAAGT
1 CTT-GTTGATTTAATATCACAGTTGATATTATTAAGGCTCGCTGATTTACGATCACAACCTAAGT
* * * * * *
37485757 TCATTTATTTACAATCATGAATAATCCTTCCTGAGTT-GTTGATT
65 TCATTGATTTACTATCATGAACAATCTTTTCTAAGTTAGTTGATT
37485801 CATGATAATA
Statistics
Matches: 543, Mismatches: 77, Indels: 17
0.85 0.12 0.03
Matches are distributed among these distances:
129 10 0.02
130 531 0.98
131 2 0.00
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.39
Consensus pattern (130 bp):
CTTGTTGATTTAATATCACAGTTGATATTATTAAGGCTCGCTGATTTACGATCACAACCTAAGTT
CATTGATTTACTATCATGAACAATCTTTTCTAAGTTAGTTGATTTACTATCTCTACTCCAAATAG
Found at i:37485776 original size:390 final size:390
Alignment explanation
Indices: 37485048--37485781 Score: 1010
Period size: 390 Copynumber: 1.9 Consensus size: 390
37485038 AACAACTTGT
* * * *
37485048 TGATTTAAGATCATAGATGATATTATTAAGGCTCGTTAATTTATGATCACAGCCTAAGTTCATTG
1 TGATTTAAGATCACAGATGATATTATTAAGGCTCGCTAATTTACGATCACAACCTAAGTTCATTG
* * * * **
37485113 ATTTACTATCATGAACAATCTTTTCTAAGTTAGTTGATTTACTATCTCTACTCCAAATAGCTTGT
66 ATTTACTATCATGAACAATCTTCTCTAAGTTAGCTGATTTACTATCGCTACTCCAAACAGCTACT
* * * *
37485178 TGATTTAATATCACAGTTGATATTATTAAGGCTCACTGATTTACGATTACAACCTAAGTTCATTG
131 AGATTTAATATCACAGCTGATATTATTAAGGCTCACTGATTTACGATCACAACCTAAATTCATTG
* * * *
37485243 ATTTACTATCATAAACAATCTTTTCTAAGTTAGTTAATTTACTATCACTACTCCAAATAGCTTGT
196 ATTTAATATCATAAACAATCTTTTCTAAGTTAGTTAATTTACTATCACTACTCCAAACAGATTAT
* * * * *
37485308 TGATTTAATATCACAGTTGATATTATTAAGGCTCGCTGATTTACGATCAAAACCTAAGTTCATTG
261 AGATTTAATATCACAGCTGATATTATTAAGGCTCACTAATTTACGATCAAAACCGAAGTTCATTG
*
37485373 ATTTACTATCATGAATAATATTCTCTAAGTTAGTTGATTTACTATCGTTACTTCAAATAACTCGC
326 ATTTACAATCATGAATAATATTCTCTAAGTTAGTTGATTTACTATCGTTACTTCAAATAACTCGC
* *
37485438 TGATTTAAGGTCACA-ATTGATATTATTAAGGCTCGCTGATTTACGATCACAACCTAAGTTCATT
1 TGATTTAAGATCACAGA-TGATATTATTAAGGCTCGCTAATTTACGATCACAACCTAAGTTCATT
* * *
37485502 GATTTACTATCATGTACAATCTTCTCTGAGTTAGCTGATTTATTATCGCTACTCCAAACAGCTCA
65 GATTTACTATCATGAACAATCTTCTCTAAGTTAGCTGATTTACTATCGCTACTCCAAACAGCT-A
* ** **
37485567 CTAG-TTTAATATCACAGCTGATATTATTAATGCTCGTTGATTTACGATCACGGCCTAAATTCAT
129 CTAGATTTAATATCACAGCTGATATTATTAAGGCTCACTGATTTACGATCACAACCTAAATTCAT
* * ** *
37485631 TGATTTAATATCATGAACAATCTTCTT-TAAGTTAGTTGATTTACTATTGCTACTTCAAACA-AT
194 TGATTTAATATCATAAACAATCTT-TTCTAAGTTAGTTAATTTACTATCACTACTCCAAACAGAT
* *
37485694 TCATAGATTTAATATCATAGCTGATATTATTAAGGCTCACTAATTTACGAT-AACAGCCGAAGTT
258 T-ATAGATTTAATATCACAGCTGATATTATTAAGGCTCACTAATTTACGATCAA-AACCGAAGTT
*
37485758 CATTTATTTACAATCATGAATAAT
321 CATTGATTTACAATCATGAATAAT
37485782 CCTTCCTGAG
Statistics
Matches: 297, Mismatches: 42, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
389 5 0.02
390 288 0.97
391 4 0.01
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.39
Consensus pattern (390 bp):
TGATTTAAGATCACAGATGATATTATTAAGGCTCGCTAATTTACGATCACAACCTAAGTTCATTG
ATTTACTATCATGAACAATCTTCTCTAAGTTAGCTGATTTACTATCGCTACTCCAAACAGCTACT
AGATTTAATATCACAGCTGATATTATTAAGGCTCACTGATTTACGATCACAACCTAAATTCATTG
ATTTAATATCATAAACAATCTTTTCTAAGTTAGTTAATTTACTATCACTACTCCAAACAGATTAT
AGATTTAATATCACAGCTGATATTATTAAGGCTCACTAATTTACGATCAAAACCGAAGTTCATTG
ATTTACAATCATGAATAATATTCTCTAAGTTAGTTGATTTACTATCGTTACTTCAAATAACTCGC
Found at i:37489169 original size:14 final size:15
Alignment explanation
Indices: 37489144--37489172 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
37489134 TATACTCATA
37489144 TTTCTATCTCTTTTT
1 TTTCTATCTCTTTTT
37489159 TTTCT-TCTCTTTTT
1 TTTCTATCTCTTTTT
37489173 ACTAGTTCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTCTATCTCTTTTT
Found at i:37489335 original size:73 final size:73
Alignment explanation
Indices: 37489252--37489399 Score: 244
Period size: 73 Copynumber: 2.0 Consensus size: 73
37489242 AAATATTTAT
37489252 TTTTAATACAAAGGAAAGTCGAGG-ATACTTAAAAAAGATGGATGTGTATATATACATGCATGTA
1 TTTTAATACAAAGGAAAGTCG-GGAATACTTAAAAAAGATGGATGTGTATATATACATGCATGTA
*
37489316 AAAATTAGC
65 AAAAATAGC
* * *
37489325 TTTTAATACAAATGAAAGTCGGGAATACTTAAAAAGGATGGATGTGTATATATATATGCATGTAA
1 TTTTAATACAAAGGAAAGTCGGGAATACTTAAAAAAGATGGATGTGTATATATACATGCATGTAA
37489390 AAAATAGC
66 AAAATAGC
37489398 TT
1 TT
37489400 CATCTTTTTA
Statistics
Matches: 70, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
72 2 0.03
73 68 0.97
ACGTcount: A:0.43, C:0.07, G:0.19, T:0.30
Consensus pattern (73 bp):
TTTTAATACAAAGGAAAGTCGGGAATACTTAAAAAAGATGGATGTGTATATATACATGCATGTAA
AAAATAGC
Found at i:37498043 original size:31 final size:31
Alignment explanation
Indices: 37497976--37498043 Score: 73
Period size: 31 Copynumber: 2.2 Consensus size: 31
37497966 CTTAACAACC
* **
37497976 CAATGACTTGAATAAAAACTTTTGAATAATT
1 CAATGACTTAAATAAAAACTTTCAAATAATT
* ** *
37498007 GAATGACTTAAATGCAAACTTTCAAATAGTT
1 CAATGACTTAAATAAAAACTTTCAAATAATT
37498038 CAATGA
1 CAATGA
37498044 TCATTTTGTA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (31 bp):
CAATGACTTAAATAAAAACTTTCAAATAATT
Found at i:37503734 original size:5 final size:5
Alignment explanation
Indices: 37503724--37503803 Score: 151
Period size: 5 Copynumber: 16.0 Consensus size: 5
37503714 AATAAGGAAA
*
37503724 GATAT GATAT GATAT GATAT GATAT GCTAT GATAT GATAT GATAT GATAT
1 GATAT GATAT GATAT GATAT GATAT GATAT GATAT GATAT GATAT GATAT
37503774 GATAT GATAT GATAT GATAT GATAT GATAT
1 GATAT GATAT GATAT GATAT GATAT GATAT
37503804 TGTGCTAATA
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 73 1.00
ACGTcount: A:0.39, C:0.01, G:0.20, T:0.40
Consensus pattern (5 bp):
GATAT
Found at i:37504757 original size:65 final size:65
Alignment explanation
Indices: 37504563--37504761 Score: 256
Period size: 66 Copynumber: 3.0 Consensus size: 65
37504553 ATGAAAGCTC
* * * *
37504563 AGACAAGGACCCCAAAAGGGATTATTAAACCAAGAGGAGGACATTAGAAAATAGAGCAGAACAAA
1 AGACAA-GACCCCAAAAGGGGTTATTAAATCAAGAGGAGGACATTAAAAAATAGAGCAGAACAAG
37504628 G
65 G
* * *
37504629 AGGCAAGACCCCCAAAAGGGGTTATTAAATCAAGAGGAGGACATTAAAAAACAAAGCAGAACAAG
1 AGACAAGA-CCCCAAAAGGGGTTATTAAATCAAGAGGAGGACATTAAAAAATAGAGCAGAACAAG
37504694 G
65 G
** * * *
37504695 AGACAAGACCCCAAAAAGGGGTTATTAAATTGAGAGGAGTATA-TAAAAAATAGAGAAGAACAAG
1 AGACAAGACCCC-AAAAGGGGTTATTAAATCAAGAGGAGGACATTAAAAAATAGAGCAGAACAAG
37504759 G
65 G
37504760 AG
1 AG
37504762 GAGGATGACC
Statistics
Matches: 116, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
65 27 0.23
66 89 0.77
ACGTcount: A:0.50, C:0.14, G:0.25, T:0.12
Consensus pattern (65 bp):
AGACAAGACCCCAAAAGGGGTTATTAAATCAAGAGGAGGACATTAAAAAATAGAGCAGAACAAGG
Found at i:37508788 original size:27 final size:27
Alignment explanation
Indices: 37508758--37508818 Score: 113
Period size: 27 Copynumber: 2.3 Consensus size: 27
37508748 ATTATTTTGT
*
37508758 TTTGAAAAAGTTTTCAAATATATATGG
1 TTTGAAAAAGTTTTCAAATATATATCG
37508785 TTTGAAAAAGTTTTCAAATATATATCG
1 TTTGAAAAAGTTTTCAAATATATATCG
37508812 TTTGAAA
1 TTTGAAA
37508819 CTTATGTGCT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.41, C:0.05, G:0.13, T:0.41
Consensus pattern (27 bp):
TTTGAAAAAGTTTTCAAATATATATCG
Found at i:37519980 original size:19 final size:19
Alignment explanation
Indices: 37519934--37519981 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
37519924 GTATATATTT
37519934 TAAA-TTTATTAAGGTAGA
1 TAAATTTTATTAAGGTAGA
* *
37519952 TAAATCTTATTTAGGTAGA
1 TAAATTTTATTAAGGTAGA
*
37519971 TAAGTTTTATT
1 TAAATTTTATT
37519982 CATATTCTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 4 0.16
19 21 0.84
ACGTcount: A:0.38, C:0.02, G:0.15, T:0.46
Consensus pattern (19 bp):
TAAATTTTATTAAGGTAGA
Found at i:37532598 original size:135 final size:135
Alignment explanation
Indices: 37532331--37532590 Score: 351
Period size: 135 Copynumber: 1.9 Consensus size: 135
37532321 TTTAGTCTTT
* * *
37532331 TAAAGTGGTATGCAACATTTATGACGTGATAAATTGTGCTATGTGGCATCCAAGGATTGATCTAC
1 TAAAGTGGTATGCAACACTTATGACATGATAAATTGTGCCATGTGGCATCCAAGGATTGATCTAC
* *** ** * *
37532396 GCATCAAAAAATGTCATGTCAAATTTTTGTTGGAGATTTTAATATGAGTGATCAAAATGAACAAA
66 ACATCAAAAAATGTCATGTCAAATTTCCATAAGAGATTTTAATAGGAGTGACCAAAATGAACAAA
37532461 CTAAG
131 CTAAG
* * *
37532466 TAAAGTGGTATGCAACACTTATGACATGATAAATTGTGCCATGTGGCATCTAATGATTGGGT-TA
1 TAAAGTGGTATGCAACACTTATGACATGATAAATTGTGCCATGTGGCATCCAAGGATT-GATCTA
** *
37532530 CATGTCAAAAAATGTCATGTCAGATTTCCATAAGAGATTTTAATAGGAGTGACCAAAATGA
65 CACATCAAAAAATGTCATGTCAAATTTCCATAAGAGATTTTAATAGGAGTGACCAAAATGA
37532591 GTGAACTATG
Statistics
Matches: 107, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
135 105 0.98
136 2 0.02
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.31
Consensus pattern (135 bp):
TAAAGTGGTATGCAACACTTATGACATGATAAATTGTGCCATGTGGCATCCAAGGATTGATCTAC
ACATCAAAAAATGTCATGTCAAATTTCCATAAGAGATTTTAATAGGAGTGACCAAAATGAACAAA
CTAAG
Found at i:37533765 original size:32 final size:32
Alignment explanation
Indices: 37533724--37533791 Score: 102
Period size: 32 Copynumber: 2.1 Consensus size: 32
37533714 GAAAGAGATA
*
37533724 CATGTGGCAAAGA-GAGTAATTTTTGAGCAAAG
1 CATGTGGCAAAAAGGAGTAATTTTTGAGC-AAG
*
37533756 CATGTGGCAAAAAGGAGTAATTTTTTAGCAAG
1 CATGTGGCAAAAAGGAGTAATTTTTGAGCAAG
37533788 CATG
1 CATG
37533792 GTTAGATATG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 19 0.58
33 14 0.42
ACGTcount: A:0.37, C:0.10, G:0.26, T:0.26
Consensus pattern (32 bp):
CATGTGGCAAAAAGGAGTAATTTTTGAGCAAG
Found at i:37537179 original size:11 final size:12
Alignment explanation
Indices: 37537153--37537177 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
37537143 TTCATCTATC
37537153 TTCTTTATTTTT
1 TTCTTTATTTTT
37537165 TTCTTTATTTTT
1 TTCTTTATTTTT
37537177 T
1 T
37537178 CTAATATTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (12 bp):
TTCTTTATTTTT
Found at i:37538756 original size:42 final size:43
Alignment explanation
Indices: 37538710--37538797 Score: 133
Period size: 45 Copynumber: 2.0 Consensus size: 43
37538700 TTACCCATTC
37538710 TTTCAC-AAAAAAATGATATCAATGATATCCTTTCTACTATTG
1 TTTCACAAAAAAAATGATATCAATGATATCCTTTCTACTATTG
* *
37538752 TTTCACAAAAAAAAAATTATATCAATGATATTCTTTCTACTATTG
1 TTTCAC--AAAAAAAATGATATCAATGATATCCTTTCTACTATTG
37538797 T
1 T
37538798 CAAATTACAG
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
42 6 0.15
45 35 0.85
ACGTcount: A:0.40, C:0.15, G:0.06, T:0.40
Consensus pattern (43 bp):
TTTCACAAAAAAAATGATATCAATGATATCCTTTCTACTATTG
Found at i:37568203 original size:42 final size:42
Alignment explanation
Indices: 37568143--37568257 Score: 212
Period size: 42 Copynumber: 2.7 Consensus size: 42
37568133 TTGAAAAAGA
*
37568143 GGTTCCAACTGGTTGGTTTACCATTGGATATTTTAAAACATTT
1 GGTT-CAAGTGGTTGGTTTACCATTGGATATTTTAAAACATTT
37568186 GGTTCAAGTGGTTGGTTTACCATTGGATATTTTAAAACATTT
1 GGTTCAAGTGGTTGGTTTACCATTGGATATTTTAAAACATTT
37568228 GGTTCAAGTGGTTGGTTTACCATTGGATAT
1 GGTTCAAGTGGTTGGTTTACCATTGGATAT
37568258 GGCACATAAT
Statistics
Matches: 71, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
42 67 0.94
43 4 0.06
ACGTcount: A:0.24, C:0.11, G:0.23, T:0.42
Consensus pattern (42 bp):
GGTTCAAGTGGTTGGTTTACCATTGGATATTTTAAAACATTT
Found at i:37599459 original size:23 final size:23
Alignment explanation
Indices: 37599432--37599476 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
37599422 TGAAGCTAAA
*
37599432 ATTAATAAAAGAATTTTAAAAAT
1 ATTAATAAAAGAATTTGAAAAAT
**
37599455 ATTAATAATTGAATTTGAAAAA
1 ATTAATAAAAGAATTTGAAAAA
37599477 GTAGAGTGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.36
Consensus pattern (23 bp):
ATTAATAAAAGAATTTGAAAAAT
Found at i:37603037 original size:26 final size:26
Alignment explanation
Indices: 37603008--37603061 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
37602998 ATAATAATGC
37603008 ATAGGATAATTATGGATAACTAACAA
1 ATAGGATAATTATGGATAACTAACAA
37603034 ATAGGATAATTATGGATAACTAACAA
1 ATAGGATAATTATGGATAACTAACAA
37603060 AT
1 AT
37603062 CAAAGTATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.50, C:0.07, G:0.15, T:0.28
Consensus pattern (26 bp):
ATAGGATAATTATGGATAACTAACAA
Found at i:37603579 original size:85 final size:85
Alignment explanation
Indices: 37603350--37603586 Score: 323
Period size: 85 Copynumber: 2.8 Consensus size: 85
37603340 TTATTGGCAT
* * * **
37603350 TTGTTGTGGGTGCACAACATATTTG-AATATTAAACAAACTACCACTTGGTTTATGATCAAACCA
1 TTGTTGTGAGTGCACAACATATTTGCAA-ATTAAACAAACTGCCACTTGGTTCATGATTGAACCA
* *
37603414 CATATTTGCAGTTATTGCCAC
65 CATATTTGCAGTTACTACCAC
* * * *
37603435 TTGTTATGAATGCACAACATATTTGCATATTAAACAAACTGCCACTTAGTTCATGATTGAACCAC
1 TTGTTGTGAGTGCACAACATATTTGCAAATTAAACAAACTGCCACTTGGTTCATGATTGAACCAC
*
37603500 ATATTTGCAGTTACTATCAC
66 ATATTTGCAGTTACTACCAC
* * *
37603520 TTGTTGTGAGTGCACAACATATTTGCAAACTAAACAAACTGTCACTTGGTTCATAATTGAACCAC
1 TTGTTGTGAGTGCACAACATATTTGCAAATTAAACAAACTGCCACTTGGTTCATGATTGAACCAC
37603585 AT
66 AT
37603587 TCTTTGTAGA
Statistics
Matches: 132, Mismatches: 19, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
85 131 0.99
86 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.33
Consensus pattern (85 bp):
TTGTTGTGAGTGCACAACATATTTGCAAATTAAACAAACTGCCACTTGGTTCATGATTGAACCAC
ATATTTGCAGTTACTACCAC
Found at i:37615373 original size:18 final size:18
Alignment explanation
Indices: 37615350--37615408 Score: 68
Period size: 18 Copynumber: 3.4 Consensus size: 18
37615340 TCTTTTTTTA
37615350 TTTTTTTATTTTCTCTTC
1 TTTTTTTATTTTCTCTTC
** *
37615368 TTTTTTCGTTTTCTTTTC
1 TTTTTTTATTTTCTCTTC
*
37615386 TTTTCTTATTTT-TCTT-
1 TTTTTTTATTTTCTCTTC
37615402 TTTTTTT
1 TTTTTTT
37615409 TCAAGTCTAC
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
16 6 0.18
17 3 0.09
18 24 0.73
ACGTcount: A:0.03, C:0.14, G:0.02, T:0.81
Consensus pattern (18 bp):
TTTTTTTATTTTCTCTTC
Found at i:37615379 original size:23 final size:24
Alignment explanation
Indices: 37615353--37615397 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
37615343 TTTTTTATTT
37615353 TTTTATTTTCTCTTCTT-TTTTCG
1 TTTTATTTTCTCTTCTTATTTTCG
* *
37615376 TTTTCTTTTCTTTTCTTATTTT
1 TTTTATTTTCTCTTCTTATTTT
37615398 TCTTTTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.04, C:0.16, G:0.02, T:0.78
Consensus pattern (24 bp):
TTTTATTTTCTCTTCTTATTTTCG
Found at i:37615407 original size:23 final size:23
Alignment explanation
Indices: 37615340--37615407 Score: 63
Period size: 23 Copynumber: 3.0 Consensus size: 23
37615330 CTTTTATACC
* *
37615340 TCTTTTTTTA-TTTT-TTTATTT
1 TCTTTTCTTATTTTTCTTTTTTT
*
37615361 TCTCTTC-T-TTTTTCGTTTTCTTT
1 TCTTTTCTTATTTTTC-TTTT-TTT
37615384 TCTTTTCTTATTTTTCTTTTTTT
1 TCTTTTCTTATTTTTCTTTTTTT
37615407 T
1 T
37615408 TTCAAGTCTA
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
20 5 0.14
21 5 0.14
22 3 0.08
23 13 0.35
24 5 0.14
25 6 0.16
ACGTcount: A:0.04, C:0.13, G:0.01, T:0.81
Consensus pattern (23 bp):
TCTTTTCTTATTTTTCTTTTTTT
Found at i:37616932 original size:21 final size:22
Alignment explanation
Indices: 37616904--37616974 Score: 99
Period size: 22 Copynumber: 3.3 Consensus size: 22
37616894 CGTGGGGTTA
37616904 ACACGCCCATGTGAA-GGAGGC
1 ACACGCCCATGTGAAGGGAGGC
* *
37616925 ACGCGCCCATGTGAAGGGCGGC
1 ACACGCCCATGTGAAGGGAGGC
* *
37616947 ACATGCCTATGTGAAGGGAGGC
1 ACACGCCCATGTGAAGGGAGGC
37616969 ACACGC
1 ACACGC
37616975 TTGTGACCCA
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
21 14 0.33
22 28 0.67
ACGTcount: A:0.25, C:0.28, G:0.35, T:0.11
Consensus pattern (22 bp):
ACACGCCCATGTGAAGGGAGGC
Found at i:37626901 original size:43 final size:43
Alignment explanation
Indices: 37626854--37626953 Score: 166
Period size: 43 Copynumber: 2.3 Consensus size: 43
37626844 TCATGAAATG
37626854 TATGAATGAAATGCTATGTGATTTGAATACTAAATTGAAACAT
1 TATGAATGAAATGCTATGTGATTTGAATACTAAATTGAAACAT
*
37626897 TATGAATGAAATGTTATGTGATTTGAATACTAAATTGAAACAT
1 TATGAATGAAATGCTATGTGATTTGAATACTAAATTGAAACAT
37626940 TCAT-AGATGAAATG
1 T-ATGA-ATGAAATG
37626954 TTAGTTATAT
Statistics
Matches: 54, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
43 44 0.81
44 10 0.19
ACGTcount: A:0.42, C:0.06, G:0.17, T:0.35
Consensus pattern (43 bp):
TATGAATGAAATGCTATGTGATTTGAATACTAAATTGAAACAT
Found at i:37632234 original size:18 final size:18
Alignment explanation
Indices: 37632206--37632249 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
37632196 AGTGAAATTT
*
37632206 ATATGAAAATCCCTGAAGG
1 ATAT-AAAATCCCAGAAGG
*
37632225 ATTTAAAATCCCAGAAGG
1 ATATAAAATCCCAGAAGG
37632243 ATATAAA
1 ATATAAA
37632250 GTTTCTCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 19 0.86
19 3 0.14
ACGTcount: A:0.48, C:0.14, G:0.16, T:0.23
Consensus pattern (18 bp):
ATATAAAATCCCAGAAGG
Found at i:37636460 original size:9 final size:9
Alignment explanation
Indices: 37636442--37636472 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
37636432 TTTAGTTAAA
*
37636442 AATTAACCG
1 AATTACCCG
37636451 AATTACCCG
1 AATTACCCG
37636460 AATTACCCG
1 AATTACCCG
37636469 AATT
1 AATT
37636473 GAATCACTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.39, C:0.26, G:0.10, T:0.26
Consensus pattern (9 bp):
AATTACCCG
Found at i:37636517 original size:37 final size:37
Alignment explanation
Indices: 37636471--37636545 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
37636461 ATTACCCGAA
* *
37636471 TTGAATCACTATATAATTAAAAATATTACATAATTCT
1 TTGAATCACTACATAATTAAAAACATTACATAATTCT
37636508 TTGAATCACTACATAATTAAAAACATTACATAATTCT
1 TTGAATCACTACATAATTAAAAACATTACATAATTCT
37636545 T
1 T
37636546 GAAATTAACA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.45, C:0.13, G:0.03, T:0.39
Consensus pattern (37 bp):
TTGAATCACTACATAATTAAAAACATTACATAATTCT
Found at i:37636729 original size:44 final size:45
Alignment explanation
Indices: 37636679--37636779 Score: 168
Period size: 45 Copynumber: 2.3 Consensus size: 45
37636669 AGAGTTAGAC
37636679 TTTAGTTTTATTTTTATTGGGTT-GGTAATTGGGTAGACTTTAGT
1 TTTAGTTTTATTTTTATTGGGTTGGGTAATTGGGTAGACTTTAGT
* *
37636723 TTTAGTTTTAGTTTTATTGGGTTGGGTGATTGGGTAGACTTTAGT
1 TTTAGTTTTATTTTTATTGGGTTGGGTAATTGGGTAGACTTTAGT
*
37636768 TTTAGCTTTATT
1 TTTAGTTTTATT
37636780 GGGTTGGGTA
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 22 0.42
45 30 0.58
ACGTcount: A:0.17, C:0.03, G:0.26, T:0.54
Consensus pattern (45 bp):
TTTAGTTTTATTTTTATTGGGTTGGGTAATTGGGTAGACTTTAGT
Found at i:37636767 original size:39 final size:39
Alignment explanation
Indices: 37636674--37636796 Score: 158
Period size: 39 Copynumber: 3.0 Consensus size: 39
37636664 ACTTAAGAGT
*
37636674 TAGACTTTAGTTTTATTTTTATTGGGTT-GGTAATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
*
37636712 TAGACTTTAGTTTTAGTTTTAGTTTTATTGGGTTGGGTGATTGGG
1 TAGAC------TTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
*
37636757 TAGACTTTAGTTTTAGCTTTATTGGGTTGGGTAATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
37636796 T
1 T
37636797 TAGGTTGGAT
Statistics
Matches: 74, Mismatches: 4, Indels: 13
0.81 0.04 0.14
Matches are distributed among these distances:
38 5 0.07
39 33 0.45
44 22 0.30
45 14 0.19
ACGTcount: A:0.17, C:0.03, G:0.29, T:0.50
Consensus pattern (39 bp):
TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
Found at i:37642999 original size:31 final size:30
Alignment explanation
Indices: 37642961--37643041 Score: 92
Period size: 31 Copynumber: 2.7 Consensus size: 30
37642951 TTTTAAGGGT
* *
37642961 AGAGTGACTAAAATTAACAACTTATCTAAC
1 AGAGTGACTAAAATTAACAACTCATATAAC
* *
37642991 GAGAGTGACTAAACTTGACAACTCATATAAC
1 -AGAGTGACTAAAATTAACAACTCATATAAC
*
37643022 AGGAATGACTAAAA-TAACAA
1 A-GAGTGACTAAAATTAACAA
37643042 ATTTTTTGTA
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
30 6 0.14
31 36 0.86
ACGTcount: A:0.48, C:0.16, G:0.14, T:0.22
Consensus pattern (30 bp):
AGAGTGACTAAAATTAACAACTCATATAAC
Found at i:37645404 original size:45 final size:45
Alignment explanation
Indices: 37645348--37645456 Score: 139
Period size: 45 Copynumber: 2.4 Consensus size: 45
37645338 GAACTGCTAG
* * **
37645348 TACGGTGTGGATAGACCACAAATT-GGTGCCGATAAAAGTTACTAA
1 TACGATGTGGATAAACCAC-AATTCGGTGCAAATAAAAGTTACTAA
* *
37645393 TACGATGTGGATAAACCACTATTCGGTGCAAATAAAAGTTGCTAA
1 TACGATGTGGATAAACCACAATTCGGTGCAAATAAAAGTTACTAA
*
37645438 TACGATGTGGATTAACCAC
1 TACGATGTGGATAAACCAC
37645457 TAAACAGTGC
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 3 0.05
45 53 0.95
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.26
Consensus pattern (45 bp):
TACGATGTGGATAAACCACAATTCGGTGCAAATAAAAGTTACTAA
Found at i:37645467 original size:45 final size:45
Alignment explanation
Indices: 37645379--37645467 Score: 133
Period size: 45 Copynumber: 2.0 Consensus size: 45
37645369 ATTGGTGCCG
** *
37645379 ATAAAAGTTACTAATACGATGTGGATAAACCACTATTCGGTGCAA
1 ATAAAAGTTACTAATACGATGTGGATAAACCACTAAACAGTGCAA
* *
37645424 ATAAAAGTTGCTAATACGATGTGGATTAACCACTAAACAGTGCA
1 ATAAAAGTTACTAATACGATGTGGATAAACCACTAAACAGTGCA
37645468 GACAAGCTAC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.26
Consensus pattern (45 bp):
ATAAAAGTTACTAATACGATGTGGATAAACCACTAAACAGTGCAA
Found at i:37651306 original size:17 final size:17
Alignment explanation
Indices: 37651284--37651339 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
37651274 AATGTTTACT
37651284 ATATTATTATTAT-TTTA
1 ATATTA-TATTATATTTA
37651301 ATATTATATTATATTTA
1 ATATTATATTATATTTA
* *
37651318 ATAATACTTTTATTATTTA
1 ATATTA-TATTA-TATTTA
37651337 ATA
1 ATA
37651340 CATTAGCAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
16 6 0.18
17 15 0.44
18 4 0.12
19 9 0.26
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (17 bp):
ATATTATATTATATTTA
Found at i:37651310 original size:19 final size:19
Alignment explanation
Indices: 37651288--37651339 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
37651278 TTTACTATAT
*
37651288 TATTATTATTTTAATATTA-
1 TATTATTA-TTTAATAATAC
37651307 TATTA-TATTTAATAATAC
1 TATTATTATTTAATAATAC
*
37651325 TTTTATTATTTAATA
1 TATTATTATTTAATA
37651340 CATTAGCAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 9 0.31
18 6 0.21
19 14 0.48
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (19 bp):
TATTATTATTTAATAATAC
Found at i:37660456 original size:17 final size:17
Alignment explanation
Indices: 37660428--37660462 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
37660418 TGGTGTCAAG
37660428 AAAAGAGAAATAAAATAA
1 AAAAGAGAAAT-AAATAA
37660446 AAAAGAG-AATAAATAA
1 AAAAGAGAAATAAATAA
37660462 A
1 A
37660463 GAATGGAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 3 0.18
18 7 0.41
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.11
Consensus pattern (17 bp):
AAAAGAGAAATAAATAA
Found at i:37661679 original size:15 final size:16
Alignment explanation
Indices: 37661638--37661681 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 16
37661628 TTAAAATGTT
*
37661638 TAAATATAAAATTTAA
1 TAAATATAAAATATAA
37661654 TAAATA-AAAATATAA
1 TAAATATAAAATATAA
*
37661669 -AAATATTAAATAT
1 TAAATATAAAATAT
37661682 TAATTTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 5 0.20
15 14 0.56
16 6 0.24
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
TAAATATAAAATATAA
Found at i:37661680 original size:21 final size:21
Alignment explanation
Indices: 37661639--37661700 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
37661629 TAAAATGTTT
* *
37661639 AAATATAAAATTTAATAAATAA
1 AAATATAAAA-ATATTAAATAA
*
37661661 AAATATAAAAATATTAAATAT
1 AAATATAAAAATATTAAATAA
* * *
37661682 TAATTTAAAAATATAAAAT
1 AAATATAAAAATATTAAAT
37661701 TTTTAAAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
21 24 0.71
22 10 0.29
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (21 bp):
AAATATAAAAATATTAAATAA
Found at i:37661715 original size:37 final size:37
Alignment explanation
Indices: 37661617--37661700 Score: 102
Period size: 38 Copynumber: 2.3 Consensus size: 37
37661607 ATGTAAATAT
* *
37661617 TAAA-AAAAATATTAAAATGTTTAAATATAAAATTTAA
1 TAAATAAAAATATAAAAAT-ATTAAATATAAAATTTAA
*
37661654 TAAATAAAAATATAAAAATATTAAATAT-TAATTTAA
1 TAAATAAAAATATAAAAATATTAAATATAAAATTTAA
37661690 -AAATATAAAAT
1 TAAATA-AAAAT
37661701 TTTTAAAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
35 5 0.12
36 12 0.29
37 12 0.29
38 13 0.31
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (37 bp):
TAAATAAAAATATAAAAATATTAAATATAAAATTTAA
Found at i:37662438 original size:19 final size:21
Alignment explanation
Indices: 37662397--37662439 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
37662387 TTTAAAAATA
*
37662397 AAAAATTATATAAAAGTAGAT
1 AAAAATGATATAAAAGTAGAT
37662418 AAAAATGATAT-AAAG-AGAT
1 AAAAATGATATAAAAGTAGAT
37662437 AAA
1 AAA
37662440 GTTAGAGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.33
20 4 0.19
21 10 0.48
ACGTcount: A:0.65, C:0.00, G:0.12, T:0.23
Consensus pattern (21 bp):
AAAAATGATATAAAAGTAGAT
Found at i:37670876 original size:87 final size:87
Alignment explanation
Indices: 37670730--37670900 Score: 315
Period size: 87 Copynumber: 2.0 Consensus size: 87
37670720 GATAATTACC
* *
37670730 CTTAATTTAAGTATTTACCATCCTTAGTTAAGAATACCTTTTCGGTCTTATCTTCACTAAGGATT
1 CTTAATTTAAGTATTTACCATCCTTAGTTAAGAATACCTTTTCGATCTCATCTTCACTAAGGATT
*
37670795 ACTACTTAAGATACCCTTTCGG
66 ACCACTTAAGATACCCTTTCGG
37670817 CTTAATTTAAGTATTTACCATCCTTAGTTAAGAATACCTTTTCGATCTCATCTTCACTAAGGATT
1 CTTAATTTAAGTATTTACCATCCTTAGTTAAGAATACCTTTTCGATCTCATCTTCACTAAGGATT
37670882 ACCACTTAAGATACCCTTT
66 ACCACTTAAGATACCCTTT
37670901 TGGTCTCACC
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 81 1.00
ACGTcount: A:0.29, C:0.22, G:0.10, T:0.40
Consensus pattern (87 bp):
CTTAATTTAAGTATTTACCATCCTTAGTTAAGAATACCTTTTCGATCTCATCTTCACTAAGGATT
ACCACTTAAGATACCCTTTCGG
Found at i:37674918 original size:9 final size:8
Alignment explanation
Indices: 37674902--37674936 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
37674892 TGAAAGTTGA
37674902 TATTTTTT
1 TATTTTTT
37674910 TATTTTTT
1 TATTTTTT
37674918 TA-TTTTT
1 TATTTTTT
*
37674925 TATTTATT
1 TATTTTTT
37674933 TATT
1 TATT
37674937 GACAGTAACA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
7 7 0.28
8 18 0.72
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (8 bp):
TATTTTTT
Found at i:37674925 original size:15 final size:15
Alignment explanation
Indices: 37674905--37674936 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
37674895 AAGTTGATAT
*
37674905 TTTTTTATTTTTTTA
1 TTTTTTATTTATTTA
37674920 TTTTTTATTTATTTA
1 TTTTTTATTTATTTA
37674935 TT
1 TT
37674937 GACAGTAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTTTATTTATTTA
Found at i:37675867 original size:102 final size:102
Alignment explanation
Indices: 37675691--37675887 Score: 376
Period size: 102 Copynumber: 1.9 Consensus size: 102
37675681 CCGATCCGAT
37675691 CAACAAACTTTGAACGTTCAAAATCTAAAAGATTAAAGCATTTTAGACGTAAGTATTAATAATAC
1 CAACAAACTTTGAACGTTCAAAATCTAAAAGATTAAAGCATTTTAGACGTAAGTATTAATAATAC
37675756 TTAGTAAGCTCATACAAATTTGATAATTAATATTAAA
66 TTAGTAAGCTCATACAAATTTGATAATTAATATTAAA
* *
37675793 CAACAAACTTTGAACGTTCAAAATCTACAAGATTAAAGCATTTTAGATGTAAGTATTAATAATAC
1 CAACAAACTTTGAACGTTCAAAATCTAAAAGATTAAAGCATTTTAGACGTAAGTATTAATAATAC
37675858 TTAGTAAGCTCATACAAATTTGATAATTAA
66 TTAGTAAGCTCATACAAATTTGATAATTAA
37675888 CTTACTTCAC
Statistics
Matches: 93, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
102 93 1.00
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.32
Consensus pattern (102 bp):
CAACAAACTTTGAACGTTCAAAATCTAAAAGATTAAAGCATTTTAGACGTAAGTATTAATAATAC
TTAGTAAGCTCATACAAATTTGATAATTAATATTAAA
Found at i:37684063 original size:12 final size:13
Alignment explanation
Indices: 37684041--37684074 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
37684031 CCAAATTATG
37684041 AATATTAATTCAT
1 AATATTAATTCAT
37684054 AATA-TAATTCAT
1 AATATTAATTCAT
*
37684066 AATTTTAAT
1 AATATTAAT
37684075 CCAAATTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (13 bp):
AATATTAATTCAT
Found at i:37691440 original size:27 final size:28
Alignment explanation
Indices: 37691372--37691440 Score: 70
Period size: 27 Copynumber: 2.5 Consensus size: 28
37691362 CGAGAGTTAT
* **
37691372 CAGTAGGCCTGG-CAAGTTGAAGTACTT
1 CAGTAGGCCTGGTGAAGTTGAAGTACGC
* * *
37691399 CAGTAGACATAGTGAA-TTGAAGTACGC
1 CAGTAGGCCTGGTGAAGTTGAAGTACGC
37691426 CAGTAGGCCTGGTGA
1 CAGTAGGCCTGGTGA
37691441 GCTAGGGTTC
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
27 30 0.94
28 2 0.06
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.23
Consensus pattern (28 bp):
CAGTAGGCCTGGTGAAGTTGAAGTACGC
Found at i:37692990 original size:12 final size:12
Alignment explanation
Indices: 37692970--37693003 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
37692960 TTCATTATTT
37692970 TTATGTTTTTCC
1 TTATGTTTTTCC
* *
37692982 TTGTGTTTTTCT
1 TTATGTTTTTCC
37692994 TTATGTTTTT
1 TTATGTTTTT
37693004 ATTTGCGAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.06, C:0.09, G:0.12, T:0.74
Consensus pattern (12 bp):
TTATGTTTTTCC
Found at i:37695513 original size:35 final size:35
Alignment explanation
Indices: 37695389--37695546 Score: 120
Period size: 35 Copynumber: 4.5 Consensus size: 35
37695379 TTTTGAGGTG
* * *
37695389 TCGCCCCAAAAGACCTATATATTGTTTACACCGTG
1 TCGCCCCAAAGGACCTATATATTGTTTACACGGTA
* * **
37695424 TCGTCCCGAAGGACCTATATATTAATTACACGGTA
1 TCGCCCCAAAGGACCTATATATTGTTTACACGGTA
* * *
37695459 -CTGTCTCAAAGGACCTATATATTGTTTACATGGTA
1 TC-GCCCCAAAGGACCTATATATTGTTTACACGGTA
* * * * ** *
37695494 TCGCCCCGAATGACTTATATGTCATTTACACGGTG
1 TCGCCCCAAAGGACCTATATATTGTTTACACGGTA
* * *
37695529 TTGCGCCGAAGGACCTAT
1 TCGCCCCAAAGGACCTAT
37695547 TGATAATCTT
Statistics
Matches: 95, Mismatches: 26, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
34 1 0.01
35 93 0.98
36 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.30
Consensus pattern (35 bp):
TCGCCCCAAAGGACCTATATATTGTTTACACGGTA
Found at i:37695513 original size:70 final size:70
Alignment explanation
Indices: 37695395--37695527 Score: 176
Period size: 70 Copynumber: 1.9 Consensus size: 70
37695385 GGTGTCGCCC
* * *
37695395 CAAAAGACCTATATATTGTTTACACCGTGTCGTCCCGAAGGACCTATATATTAATTACACGGTAC
1 CAAAAGACCTATATATTGTTTACACCGTATCGCCCCGAAGGACCTATATATCAATTACACGGTAC
37695460 TGTCT
66 TGTCT
* ** * * * *
37695465 CAAAGGACCTATATATTGTTTACATGGTATCGCCCCGAATGACTTATATGTCATTTACACGGT
1 CAAAAGACCTATATATTGTTTACACCGTATCGCCCCGAAGGACCTATATATCAATTACACGGT
37695528 GTTGCGCCGA
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
70 53 1.00
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (70 bp):
CAAAAGACCTATATATTGTTTACACCGTATCGCCCCGAAGGACCTATATATCAATTACACGGTAC
TGTCT
Found at i:37698843 original size:21 final size:23
Alignment explanation
Indices: 37698819--37698863 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
37698809 TTAAAAAAAC
37698819 TCTAA-TTTA-ATGGAAAACATG
1 TCTAACTTTAGATGGAAAACATG
*
37698840 TCTAACTTTAGATGGAAAAGATG
1 TCTAACTTTAGATGGAAAACATG
37698863 T
1 T
37698864 TTGCTTACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.24
22 4 0.19
23 12 0.57
ACGTcount: A:0.40, C:0.09, G:0.18, T:0.33
Consensus pattern (23 bp):
TCTAACTTTAGATGGAAAACATG
Found at i:37701066 original size:28 final size:28
Alignment explanation
Indices: 37701034--37701099 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 28
37701024 ACATCCTTCG
37701034 TTCTCTTTTCCTTTTTC-CTTTTTCTTGC
1 TTCTCTTTTCCTTTTTCTC-TTTTCTTGC
*
37701062 TTCTCTTTTCCTTTTTCTCTTTTCTTTC
1 TTCTCTTTTCCTTTTTCTCTTTTCTTGC
37701090 TTCTCTTTTC
1 TTCTCTTTTC
37701100 TTTCATCCTA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
28 35 0.97
29 1 0.03
ACGTcount: A:0.00, C:0.29, G:0.02, T:0.70
Consensus pattern (28 bp):
TTCTCTTTTCCTTTTTCTCTTTTCTTGC
Found at i:37701085 original size:7 final size:7
Alignment explanation
Indices: 37701034--37701100 Score: 54
Period size: 7 Copynumber: 9.6 Consensus size: 7
37701024 ACATCCTTCG
37701034 TTCTCTT
1 TTCTCTT
37701041 TTC-CTT
1 TTCTCTT
37701047 TT-TCCTT
1 TTCT-CTT
37701054 TT-TCTT
1 TTCTCTT
37701060 GCTTCTCTT
1 --TTCTCTT
37701069 TTC-CTTT
1 TTCTC-TT
37701076 TTCTCTT
1 TTCTCTT
37701083 TTCT-TT
1 TTCTCTT
37701089 CTTCTCTT
1 -TTCTCTT
37701097 TTCT
1 TTCT
37701101 TTCATCCTAC
Statistics
Matches: 51, Mismatches: 0, Indels: 18
0.74 0.00 0.26
Matches are distributed among these distances:
6 11 0.22
7 31 0.61
8 5 0.10
9 4 0.08
ACGTcount: A:0.00, C:0.28, G:0.01, T:0.70
Consensus pattern (7 bp):
TTCTCTT
Found at i:37701102 original size:14 final size:14
Alignment explanation
Indices: 37701034--37701103 Score: 83
Period size: 14 Copynumber: 5.0 Consensus size: 14
37701024 ACATCCTTCG
37701034 TTCTCTTTTCCTTT-
1 TTCTCTTTT-CTTTC
*
37701048 TTC-CTTTTTCTTGC
1 TTCTC-TTTTCTTTC
37701062 TTCTCTTTTCCTTT-
1 TTCTCTTTT-CTTTC
37701076 TTCTCTTTTCTTTC
1 TTCTCTTTTCTTTC
37701090 TTCTCTTTTCTTTC
1 TTCTCTTTTCTTTC
37701104 ATCCTACCTG
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
13 8 0.16
14 37 0.76
15 4 0.08
ACGTcount: A:0.00, C:0.29, G:0.01, T:0.70
Consensus pattern (14 bp):
TTCTCTTTTCTTTC
Found at i:37727405 original size:21 final size:21
Alignment explanation
Indices: 37727380--37727428 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
37727370 CATGGGATTC
37727380 CCATAACCATTAAGTCAAAAT
1 CCATAACCATTAAGTCAAAAT
* *
37727401 TCATAACCATTGAGTCAAAAT
1 CCATAACCATTAAGTCAAAAT
37727422 CCATAAC
1 CCATAAC
37727429 TTGTATAGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.45, C:0.24, G:0.06, T:0.24
Consensus pattern (21 bp):
CCATAACCATTAAGTCAAAAT
Found at i:37733802 original size:12 final size:12
Alignment explanation
Indices: 37733780--37733809 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
37733770 AACTCTTACG
37733780 GAGAGAGAAGAAA
1 GAGA-AGAAGAAA
37733793 GAGAAGAAGAAA
1 GAGAAGAAGAAA
37733805 GAGAA
1 GAGAA
37733810 CGGTCTGCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (12 bp):
GAGAAGAAGAAA
Found at i:37734054 original size:59 final size:60
Alignment explanation
Indices: 37733981--37734120 Score: 167
Period size: 59 Copynumber: 2.3 Consensus size: 60
37733971 AAATTTTAGT
* *
37733981 TTGTTGGATTTTGAAATTATTATGTCTTGAA-TTTGTTAGATATTG-ATTATGTTTTAAGC
1 TTGTTGGATATTGAAATTATTATGT-TTGAAGCTTGTTAGATATTGTATTATGTTTTAAGC
* * * *
37734040 TTGTTAGATATTGAATTTATTATGTTTTAAGCTTGTTGGATATTGAATTTATTATGTTTTAAGC
1 TTGTTGGATATTGAAATTATTATGTTTGAAGCTTGTTAGATATTG----TATTATGTTTTAAGC
37734104 TTGTTGGATATTGAAAT
1 TTGTTGGATATTGAAAT
37734121 GATTGACAAT
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
58 4 0.06
59 34 0.51
64 29 0.43
ACGTcount: A:0.26, C:0.03, G:0.19, T:0.52
Consensus pattern (60 bp):
TTGTTGGATATTGAAATTATTATGTTTGAAGCTTGTTAGATATTGTATTATGTTTTAAGC
Found at i:37734065 original size:32 final size:32
Alignment explanation
Indices: 37734026--37734118 Score: 177
Period size: 32 Copynumber: 2.9 Consensus size: 32
37734016 TTAGATATTG
*
37734026 ATTATGTTTTAAGCTTGTTAGATATTGAATTT
1 ATTATGTTTTAAGCTTGTTGGATATTGAATTT
37734058 ATTATGTTTTAAGCTTGTTGGATATTGAATTT
1 ATTATGTTTTAAGCTTGTTGGATATTGAATTT
37734090 ATTATGTTTTAAGCTTGTTGGATATTGAA
1 ATTATGTTTTAAGCTTGTTGGATATTGAA
37734119 ATGATTGACA
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 60 1.00
ACGTcount: A:0.27, C:0.03, G:0.18, T:0.52
Consensus pattern (32 bp):
ATTATGTTTTAAGCTTGTTGGATATTGAATTT
Found at i:37735389 original size:14 final size:14
Alignment explanation
Indices: 37735355--37735389 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
37735345 AATAATTTAA
*
37735355 AATATAAATTTATT
1 AATATATATTTATT
37735369 AATATATATTTATT
1 AATATATATTTATT
37735383 AATATAT
1 AATATAT
37735390 GTAAAAATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
AATATATATTTATT
Found at i:37738246 original size:25 final size:25
Alignment explanation
Indices: 37738197--37738249 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 25
37738187 TTTATGTGTT
*
37738197 TATTTTTTAATTTTATTAAATAATA
1 TATTTTTTAATTTTATTAAAAAATA
37738222 TATTTTTATAA-TTT-TTAAGAAAATA
1 TATTTTT-TAATTTTATTAA-AAAATA
37738247 TAT
1 TAT
37738250 ATTTGCTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 4 0.16
25 18 0.72
26 3 0.12
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (25 bp):
TATTTTTTAATTTTATTAAAAAATA
Found at i:37743606 original size:23 final size:23
Alignment explanation
Indices: 37743539--37743608 Score: 79
Period size: 23 Copynumber: 3.0 Consensus size: 23
37743529 TTCGTTTAAG
*
37743539 TTAAATGAACTTGTTTGTGAACA
1 TTAAATGAACATGTTTGTGAACA
* *
37743562 TTAAA-CAATCATGTTTGCGAACA
1 TTAAATGAA-CATGTTTGTGAACA
**
37743585 TTAAATGAACATGTTCATGAACA
1 TTAAATGAACATGTTTGTGAACA
37743608 T
1 T
37743609 ATAGTTGAGC
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
22 2 0.05
23 34 0.89
24 2 0.05
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.34
Consensus pattern (23 bp):
TTAAATGAACATGTTTGTGAACA
Found at i:37744745 original size:7 final size:7
Alignment explanation
Indices: 37744733--37744773 Score: 82
Period size: 7 Copynumber: 5.9 Consensus size: 7
37744723 GCTGTATGTT
37744733 TTATTTA
1 TTATTTA
37744740 TTATTTA
1 TTATTTA
37744747 TTATTTA
1 TTATTTA
37744754 TTATTTA
1 TTATTTA
37744761 TTATTTA
1 TTATTTA
37744768 TTATTT
1 TTATTT
37744774 TTACCTTTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
TTATTTA
Found at i:37757457 original size:8 final size:8
Alignment explanation
Indices: 37757444--37757469 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
37757434 TTATGGCAAA
37757444 AAAAAAAG
1 AAAAAAAG
37757452 AAAAAAAG
1 AAAAAAAG
37757460 AAAAAAAG
1 AAAAAAAG
37757468 AA
1 AA
37757470 GAAGACAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:37758337 original size:17 final size:17
Alignment explanation
Indices: 37758311--37758348 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
37758301 GAAGGTGATT
37758311 TTTTCATTTTCTTTTCC
1 TTTTCATTTTCTTTTCC
* *
37758328 TTTTCCTTTTCTTTTTC
1 TTTTCATTTTCTTTTCC
37758345 TTTT
1 TTTT
37758349 TTATTCTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTCATTTTCTTTTCC
Found at i:37758887 original size:9 final size:9
Alignment explanation
Indices: 37758873--37758957 Score: 125
Period size: 9 Copynumber: 9.4 Consensus size: 9
37758863 TTTAGTTAAA
37758873 AATTAACCG
1 AATTAACCG
37758882 AATTAACCG
1 AATTAACCG
*
37758891 AATTACCCG
1 AATTAACCG
*
37758900 AACTAACCG
1 AATTAACCG
37758909 AATTAACCG
1 AATTAACCG
*
37758918 AATTAATCG
1 AATTAACCG
* *
37758927 GATTACCCG
1 AATTAACCG
37758936 AATTAACCG
1 AATTAACCG
37758945 AATTAACCG
1 AATTAACCG
37758954 AATT
1 AATT
37758958 GAATCACTAC
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 66 1.00
ACGTcount: A:0.41, C:0.24, G:0.12, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:37758916 original size:36 final size:36
Alignment explanation
Indices: 37758873--37758957 Score: 143
Period size: 36 Copynumber: 2.4 Consensus size: 36
37758863 TTTAGTTAAA
37758873 AATTAACCGAATTAACCGAATTACCCGAACTAACCG
1 AATTAACCGAATTAACCGAATTACCCGAACTAACCG
* * *
37758909 AATTAACCGAATTAATCGGATTACCCGAATTAACCG
1 AATTAACCGAATTAACCGAATTACCCGAACTAACCG
37758945 AATTAACCGAATT
1 AATTAACCGAATT
37758958 GAATCACTAC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 46 1.00
ACGTcount: A:0.41, C:0.24, G:0.12, T:0.24
Consensus pattern (36 bp):
AATTAACCGAATTAACCGAATTACCCGAACTAACCG
Found at i:37759659 original size:21 final size:21
Alignment explanation
Indices: 37759635--37759689 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
37759625 TATTAAATTG
*
37759635 ATTAATTTTAATAGTATTACC
1 ATTATTTTTAATAGTATTACC
* * **
37759656 ATTATTTTTACTATTATTATT
1 ATTATTTTTAATAGTATTACC
37759677 ATTATTTTTAATA
1 ATTATTTTTAATA
37759690 TTACTATTAC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (21 bp):
ATTATTTTTAATAGTATTACC
Found at i:37759676 original size:6 final size:6
Alignment explanation
Indices: 37759656--37759871 Score: 150
Period size: 6 Copynumber: 36.0 Consensus size: 6
37759646 TAGTATTACC
* * * * * *
37759656 ATTATT TTTACT ATTATT ATTATT ATTTTT AATATT ACTATT ACTATT
1 ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT
* * * *
37759704 ATT-GT ATTTATT TTTATT ACTTACT -TTATT ATTATT ATTATT ATTATC
1 ATTATT A-TTATT ATTATT A-TTATT ATTATT ATTATT ATTATT ATTATT
* * * * * *
37759752 ATTATT ATAATT AATATT AATATT ATTATT GTTATT ATTACT ATTACT
1 ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT
* * * * *
37759800 ATTACT ATTACT ATTACTT -TTATT ATTACT AATATT ATTATT TTTATT
1 ATTATT ATTATT ATTA-TT ATTATT ATTATT ATTATT ATTATT ATTATT
* ** **
37759848 TTTACC ACAATT ATTATT ATTATT
1 ATTATT ATTATT ATTATT ATTATT
37759872 TTTAAATTGT
Statistics
Matches: 165, Mismatches: 39, Indels: 12
0.76 0.18 0.06
Matches are distributed among these distances:
5 8 0.05
6 151 0.92
7 6 0.04
ACGTcount: A:0.32, C:0.07, G:0.01, T:0.60
Consensus pattern (6 bp):
ATTATT
Found at i:37771286 original size:23 final size:23
Alignment explanation
Indices: 37771260--37771311 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
37771250 CTAAAGAGCT
**
37771260 AGAATGAATTGCACTGTAGTGCC
1 AGAATGAATTGCACCATAGTGCC
*
37771283 AGAATGAGTTGCACCATAGTGCC
1 AGAATGAATTGCACCATAGTGCC
*
37771306 ATAATG
1 AGAATG
37771312 CTCCCACCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (23 bp):
AGAATGAATTGCACCATAGTGCC
Found at i:37774611 original size:31 final size:31
Alignment explanation
Indices: 37774552--37774611 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
37774542 ACAACCCAAT
* *
37774552 GACTTAAATAAAAACTTTCGACTTGTTCAGC
1 GACTTAAATAAAAACTTTCGAATAGTTCAGC
*
37774583 GACTTAAATGAAAACTTTCGAATAGTTCA
1 GACTTAAATAAAAACTTTCGAATAGTTCA
37774612 ATGACCATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (31 bp):
GACTTAAATAAAAACTTTCGAATAGTTCAGC
Found at i:37775031 original size:5 final size:5
Alignment explanation
Indices: 37775023--37775050 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
37775013 AATGAAATTG
37775023 AATAA AATAA AATAA AATAA AATAA AAT
1 AATAA AATAA AATAA AATAA AATAA AAT
37775051 TTATTTTCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AATAA
Found at i:37775035 original size:15 final size:15
Alignment explanation
Indices: 37775012--37775051 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
37775002 ATATAATTTT
* *
37775012 AAATGAAATTGAATA
1 AAATAAAATTAAATA
*
37775027 AAATAAAATAAAATA
1 AAATAAAATTAAATA
37775042 AAATAAAATT
1 AAATAAAATT
37775052 TATTTTCTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (15 bp):
AAATAAAATTAAATA
Found at i:37776191 original size:26 final size:26
Alignment explanation
Indices: 37776162--37776215 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
37776152 CAGGTAACCT
* *
37776162 AAGTTAATTTTGTTTTCGTTTTCTTA
1 AAGTTAATTTTCTTTTCATTTTCTTA
37776188 AAGTTAATTTTCTTTTCATTTTCTTA
1 AAGTTAATTTTCTTTTCATTTTCTTA
37776214 AA
1 AA
37776216 AAATAGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.24, C:0.09, G:0.07, T:0.59
Consensus pattern (26 bp):
AAGTTAATTTTCTTTTCATTTTCTTA
Found at i:37790387 original size:39 final size:38
Alignment explanation
Indices: 37790263--37790514 Score: 153
Period size: 36 Copynumber: 6.7 Consensus size: 38
37790253 GAATCTCGCG
*
37790263 GTTTGCTGATTTACAATCATGACATTCGATTTTCTAACA
1 GTTTGCTGATTTACAATCACGACATTC-ATTTTCTAACA
* *
37790302 GTTTGCTAATTTACGATCACGAC-TATCATTTT-T-ACA
1 GTTTGCTGATTTACAATCACGACAT-TCATTTTCTAACA
** * *
37790338 GTCCGCTGATTTACAATCACAACATTCAATTTTCTAATA
1 GTTTGCTGATTTACAATCACGACATTC-ATTTTCTAACA
* * ** ** * *
37790377 GTTTGTTGATTTACGATTGCGAGTTTCATATT-T-ACG
1 GTTTGCTGATTTACAATCACGACATTCATTTTCTAACA
** * * * *
37790413 GTCCGTTGATTTACAATCACAACCTTTGATTTTCTAACA
1 GTTTGCTGATTTACAATCACGA-CATTCATTTTCTAACA
**
37790452 GTTTGCTGATTTATTATCACGAC-TGTCATTTT-TAA-A
1 GTTTGCTGATTTACAATCACGACAT-TCATTTTCTAACA
* * * *
37790488 GCTCGTTGATTTACGATCACGAC-TTCA
1 GTTTGCTGATTTACAATCACGACATTCA
37790515 GTTCATTGAT
Statistics
Matches: 161, Mismatches: 43, Indels: 22
0.71 0.19 0.10
Matches are distributed among these distances:
35 3 0.02
36 60 0.37
37 19 0.12
38 19 0.12
39 60 0.37
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.41
Consensus pattern (38 bp):
GTTTGCTGATTTACAATCACGACATTCATTTTCTAACA
Found at i:37790390 original size:75 final size:75
Alignment explanation
Indices: 37790267--37790507 Score: 277
Period size: 75 Copynumber: 3.2 Consensus size: 75
37790257 CTCGCGGTTT
** *
37790267 GCTGATTTACAATCATGACATTCGATTTTCTAACAGTTTGCTAATTTACGATCACGACTATCATT
1 GCTGATTTACAATCACAACATTCGATTTTCTAACAGTTTGCTGATTTACGATCACGACTATCATT
37790332 TTTACAGTCC
66 TTTACAGTCC
* * * ** * * *
37790342 GCTGATTTACAATCACAACATTCAATTTTCTAATAGTTTGTTGATTTACGATTGCGAGTTTCATA
1 GCTGATTTACAATCACAACATTCGATTTTCTAACAGTTTGCTGATTTACGATCACGACTATCATT
*
37790407 TTTACGGTCC
66 TTTACAGTCC
* * * ** *
37790417 GTTGATTTACAATCACAACCTTTGATTTTCTAACAGTTTGCTGATTTATTATCACGACTGTCATT
1 GCTGATTTACAATCACAACATTCGATTTTCTAACAGTTTGCTGATTTACGATCACGACTATCATT
*
37790482 TTTAAAG-CTC
66 TTTACAGTC-C
* *
37790492 GTTGATTTACGATCAC
1 GCTGATTTACAATCAC
37790508 GACTTCAGTT
Statistics
Matches: 137, Mismatches: 28, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
74 1 0.01
75 136 0.99
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.41
Consensus pattern (75 bp):
GCTGATTTACAATCACAACATTCGATTTTCTAACAGTTTGCTGATTTACGATCACGACTATCATT
TTTACAGTCC
Found at i:37790532 original size:27 final size:27
Alignment explanation
Indices: 37790493--37790560 Score: 118
Period size: 27 Copynumber: 2.5 Consensus size: 27
37790483 TTAAAGCTCG
*
37790493 TTGATTTACGATCACGACTTCAGTTCA
1 TTGATTTATGATCACGACTTCAGTTCA
*
37790520 TTGATTTATGATCACGGCTTCAGTTCA
1 TTGATTTATGATCACGACTTCAGTTCA
37790547 TTGATTTATGATCA
1 TTGATTTATGATCA
37790561 TGAACACTTC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.25, C:0.18, G:0.16, T:0.41
Consensus pattern (27 bp):
TTGATTTATGATCACGACTTCAGTTCA
Found at i:37790925 original size:39 final size:39
Alignment explanation
Indices: 37790584--37791127 Score: 162
Period size: 39 Copynumber: 14.5 Consensus size: 39
37790574 AAGAGTTTGT
* ** *
37790584 TGATTTACGATCACGATCTTCGGCTTTCTAACTA-TTCGC
1 TGATTTACGATCACGACCTTCGATTTTCTAAC-AGTTCAC
* * ** **
37790623 TGATTTACGATCACGATCATC-ATTTT-T-AC-GGCCTGT
1 TGATTTACGATCACGACCTTCGATTTTCTAACAGTTC-AC
* * * **
37790659 TGATTTACTATCACGACCTACAATTTTCTAACAGTTTGC
1 TGATTTACGATCACGACCTTCGATTTTCTAACAGTTCAC
* * * **
37790698 TAATTTACGATCACGA-ATGTC-ATTTT-T-AC-GGTCTGT
1 TGATTTACGATCACGACCT-TCGATTTTCTAACAGTTC-AC
* * * * * * **
37790734 TGATTTATGATCACAACCTTAGACTTCCTAATAGTTCGT
1 TGATTTACGATCACGACCTTCGATTTTCTAACAGTTCAC
* * * *
37790773 TGATTTACGATCACGA-C-T-G-TTATT-TTACGGTCCGC
1 TGATTTACGATCACGACCTTCGATT-TTCTAACAGTTCAC
* * * * * **
37790808 TGATTTATGATTACAACCTTTGATTTTCTAACAATTCGT
1 TGATTTACGATCACGACCTTCGATTTTCTAACAGTTCAC
* * * * *
37790847 TGATTCACGATCAC-AACTGTC-ATTTT-T-ACGGTCCGC
1 TGATTTACGATCACGACCT-TCGATTTTCTAACAGTTCAC
* * * *
37790883 TGATTTATGATAACGACCTTCGATTTTCTAATACTTCAC
1 TGATTTACGATCACGACCTTCGATTTTCTAACAGTTCAC
*
37790922 TGATTTACGATCACGA-CTATC-ATTTT-T-ACGGTTCAC
1 TGATTTACGATCACGACCT-TCGATTTTCTAACAGTTCAC
* *
37790958 TGATTTACGATCATGACCTTTGATTTTCTAACAGTTCAC
1 TGATTTACGATCACGACCTTCGATTTTCTAACAGTTCAC
* * * * * *
37790997 TGATTTACAATTATGA-CTGTC-ATTTT-T-ACGGTCCGC
1 TGATTTACGATCACGACCT-TCGATTTTCTAACAGTTCAC
* * * **
37791033 TAAATTT-CGATCACGACCTTTGATTTTCTAACAATTCGT
1 T-GATTTACGATCACGACCTTCGATTTTCTAACAGTTCAC
* * * **
37791072 TGATTTATGATCATGA-CTGT-TATTTT-T-ATGGTTCAC
1 TGATTTACGATCACGACCT-TCGATTTTCTAACAGTTCAC
*
37791108 TGATTTACGATCATGACCTT
1 TGATTTACGATCACGACCTT
37791128 TAGCTTTCTA
Statistics
Matches: 369, Mismatches: 98, Indels: 79
0.68 0.18 0.14
Matches are distributed among these distances:
35 23 0.06
36 114 0.31
37 45 0.12
38 51 0.14
39 132 0.36
40 4 0.01
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.40
Consensus pattern (39 bp):
TGATTTACGATCACGACCTTCGATTTTCTAACAGTTCAC
Found at i:37790964 original size:36 final size:36
Alignment explanation
Indices: 37790773--37791120 Score: 171
Period size: 36 Copynumber: 9.4 Consensus size: 36
37790763 AATAGTTCGT
* * *
37790773 TGATTTACGATCACGACTGTTA-TTTTACGGTCCGC
1 TGATTTACGATCACGACTGTCATTTTTACGGTTCAC
* * * * * ** **
37790808 TGATTTATGATTACAACCTTTGATTTTCTAACAATTCGT
1 TGATTTACGATCACGA-CTGTCATTTT-T-ACGGTTCAC
* * * *
37790847 TGATTCACGATCACAACTGTCATTTTTACGGTCCGC
1 TGATTTACGATCACGACTGTCATTTTTACGGTTCAC
* * ***
37790883 TGATTTATGATAACGACCT-TCGATTTTCTAATACTTCAC
1 TGATTTACGATCACGA-CTGTC-ATTTT-T-ACGGTTCAC
*
37790922 TGATTTACGATCACGACTATCATTTTTACGGTTCAC
1 TGATTTACGATCACGACTGTCATTTTTACGGTTCAC
* * * *
37790958 TGATTTACGATCATGACCTTTGATTTTCTAACAGTTCAC
1 TGATTTACGATCACGA-CTGTCATTTT-T-ACGGTTCAC
* * * * *
37790997 TGATTTACAATTATGACTGTCATTTTTACGGTCCGC
1 TGATTTACGATCACGACTGTCATTTTTACGGTTCAC
* * * ** **
37791033 TAAATTT-CGATCACGACCTTTGATTTTCTAACAATTCGT
1 T-GATTTACGATCACGA-CTGTCATTTT-T-ACGGTTCAC
* * * *
37791072 TGATTTATGATCATGACTGTTATTTTTATGGTTCAC
1 TGATTTACGATCACGACTGTCATTTTTACGGTTCAC
37791108 TGATTTACGATCA
1 TGATTTACGATCA
37791121 TGACCTTTAG
Statistics
Matches: 232, Mismatches: 64, Indels: 33
0.71 0.19 0.10
Matches are distributed among these distances:
35 13 0.06
36 73 0.31
37 34 0.15
38 39 0.17
39 73 0.31
ACGTcount: A:0.25, C:0.20, G:0.14, T:0.41
Consensus pattern (36 bp):
TGATTTACGATCACGACTGTCATTTTTACGGTTCAC
Found at i:37791088 original size:75 final size:75
Alignment explanation
Indices: 37790584--37791156 Score: 553
Period size: 75 Copynumber: 7.7 Consensus size: 75
37790574 AAGAGTTTGT
* * ** * *
37790584 TGATTTACGATCACGATCTTCGGCTTTCTAACTATTCGCTGATTTACGATCACGA-TCATCATTT
1 TGATTTACGATCACGACCTTTGATTTTCTAACAATTCGCTGATTTACGATCACGACT-GTCATTT
*
37790648 TTACGG-CCTGT
65 TTACGGTCC-GC
* *** * * * *
37790659 TGATTTACTATCACGACCTACAATTTTCTAACAGTTTGCTAATTTACGATCACGAATGTCATTTT
1 TGATTTACGATCACGACCTTTGATTTTCTAACAATTCGCTGATTTACGATCACGACTGTCATTTT
* *
37790724 TACGGTCTGT
66 TACGGTCCGC
* * * * * * * * *
37790734 TGATTTATGATCACAACCTTAGACTTCCTAATAGTTCGTTGATTTACGATCACGACTGTTA-TTT
1 TGATTTACGATCACGACCTTTGATTTTCTAACAATTCGCTGATTTACGATCACGACTGTCATTTT
37790798 TACGGTCCGC
66 TACGGTCCGC
* * * * * *
37790808 TGATTTATGATTACAACCTTTGATTTTCTAACAATTCGTTGATTCACGATCACAACTGTCATTTT
1 TGATTTACGATCACGACCTTTGATTTTCTAACAATTCGCTGATTTACGATCACGACTGTCATTTT
37790873 TACGGTCCGC
66 TACGGTCCGC
* * * * * * *
37790883 TGATTTATGATAACGACCTTCGATTTTCTAATACTTCACTGATTTACGATCACGACTATCATTTT
1 TGATTTACGATCACGACCTTTGATTTTCTAACAATTCGCTGATTTACGATCACGACTGTCATTTT
* *
37790948 TACGGTTCAC
66 TACGGTCCGC
* * * * * *
37790958 TGATTTACGATCATGACCTTTGATTTTCTAACAGTTCACTGATTTACAATTATGACTGTCATTTT
1 TGATTTACGATCACGACCTTTGATTTTCTAACAATTCGCTGATTTACGATCACGACTGTCATTTT
37791023 TACGGTCCGC
66 TACGGTCCGC
* * * * *
37791033 TAAATTT-CGATCACGACCTTTGATTTTCTAACAATTCGTTGATTTATGATCATGACTGTTATTT
1 T-GATTTACGATCACGACCTTTGATTTTCTAACAATTCGCTGATTTACGATCACGACTGTCATTT
* * *
37791097 TTATGGTTCAC
65 TTACGGTCCGC
* * *
37791108 TGATTTACGATCATGACCTTT-AGCTTTCTAACAATTCGCTAATTTACGA
1 TGATTTACGATCACGACCTTTGA-TTTTCTAACAATTCGCTGATTTACGA
37791157 GTACAACCTT
Statistics
Matches: 413, Mismatches: 79, Indels: 12
0.82 0.16 0.02
Matches are distributed among these distances:
74 68 0.16
75 339 0.82
76 6 0.01
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.40
Consensus pattern (75 bp):
TGATTTACGATCACGACCTTTGATTTTCTAACAATTCGCTGATTTACGATCACGACTGTCATTTT
TACGGTCCGC
Found at i:37791114 original size:225 final size:224
Alignment explanation
Indices: 37790608--37791114 Score: 529
Period size: 224 Copynumber: 2.3 Consensus size: 224
37790598 GATCTTCGGC
* * * * * **
37790608 TTTCTAACTATTCGCTGATTTACGATCACGA-TCATCATTTTTACGG-CCTGTTGATTTACT-AT
1 TTTCTAACAATTCGTTGATTCACGATCACAACT-GTCATTTTTACGGTCC-ACTGATTTA-TGAT
* * * * * ** * * **
37790670 CACGACCTACAATTTTCTAACAGTTTGCTAATTTACGATCACGAATGTCATTTTTACGGTCTGTT
63 AACGACCTTCGATTTTCTAATACTTCACTGATTTACGATCACGAATATCATTTTTACGGTCTACT
* * ** * *
37790735 GATTTATGATCACAACCTTAGACTTCCTAATAGTTCGTTGATTTACGATCACGACTGTTATTTTA
128 GATTTACGATCACAACCTTAGACTTCCTAACAGTTCACTGATTTACAATCACGACTGTCATTTTA
* * *
37790800 CGGTCCGCTGATTTATGATTACAACCTTTGAT
193 CGGTCCGCTAATTTACGATCACAACCTTTGAT
*
37790832 TTTCTAACAATTCGTTGATTCACGATCACAACTGTCATTTTTACGGTCCGCTGATTTATGATAAC
1 TTTCTAACAATTCGTTGATTCACGATCACAACTGTCATTTTTACGGTCCACTGATTTATGATAAC
*
37790897 GACCTTCGATTTTCTAATACTTCACTGATTTACGATCACGACTATCATTTTTACGGT-TCACTGA
66 GACCTTCGATTTTCTAATACTTCACTGATTTACGATCACGAATATCATTTTTACGGTCT-ACTGA
** * * * * *
37790961 TTTACGATCATGACCTTTGATTTTCTAACAGTTCACTGATTTACAATTATGACTGTCATTTTTAC
130 TTTACGATCACAACCTTAGACTTCCTAACAGTTCACTGATTTACAATCACGACTGTCA-TTTTAC
*
37791026 GGTCCGCTAAATTT-CGATCACGACCTTTGAT
194 GGTCCGCT-AATTTACGATCACAACCTTTGAT
* * ** * * *
37791057 TTTCTAACAATTCGTTGATTTATGATCATGACTGTTATTTTTATGGTTCACTGATTTA
1 TTTCTAACAATTCGTTGATTCACGATCACAACTGTCATTTTTACGGTCCACTGATTTA
37791115 CGATCATGAC
Statistics
Matches: 234, Mismatches: 43, Indels: 11
0.81 0.15 0.04
Matches are distributed among these distances:
223 2 0.01
224 147 0.63
225 81 0.35
226 4 0.02
ACGTcount: A:0.25, C:0.20, G:0.14, T:0.41
Consensus pattern (224 bp):
TTTCTAACAATTCGTTGATTCACGATCACAACTGTCATTTTTACGGTCCACTGATTTATGATAAC
GACCTTCGATTTTCTAATACTTCACTGATTTACGATCACGAATATCATTTTTACGGTCTACTGAT
TTACGATCACAACCTTAGACTTCCTAACAGTTCACTGATTTACAATCACGACTGTCATTTTACGG
TCCGCTAATTTACGATCACAACCTTTGAT
Found at i:37791293 original size:23 final size:23
Alignment explanation
Indices: 37791220--37791303 Score: 71
Period size: 23 Copynumber: 3.6 Consensus size: 23
37791210 ATTCGCAATA
* *
37791220 TTCTACAATGCATTTCGTAGCAT
1 TTCTACAATACAGTTCGTAGCAT
* * * *
37791243 TTCTGTA-AATATAGTTCGCAGTAA
1 TTC--TACAATACAGTTCGTAGCAT
37791267 TTCTACAATACAGTTCGTAGCAT
1 TTCTACAATACAGTTCGTAGCAT
*
37791290 TTCTTCAAATACAG
1 TTCTAC-AATACAG
37791304 CTTGCATAAT
Statistics
Matches: 46, Mismatches: 11, Indels: 7
0.72 0.17 0.11
Matches are distributed among these distances:
22 2 0.04
23 21 0.46
24 21 0.46
25 2 0.04
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (23 bp):
TTCTACAATACAGTTCGTAGCAT
Found at i:37791845 original size:15 final size:15
Alignment explanation
Indices: 37791801--37791845 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
37791791 CAGATTGTAC
*
37791801 TATATACAATATAAT
1 TATACACAATATAAT
* *
37791816 TATACATAATGTAAT
1 TATACACAATATAAT
*
37791831 TATACACATTATAAT
1 TATACACAATATAAT
37791846 ATCAATAATT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.49, C:0.09, G:0.02, T:0.40
Consensus pattern (15 bp):
TATACACAATATAAT
Found at i:37794327 original size:18 final size:18
Alignment explanation
Indices: 37794281--37794341 Score: 68
Period size: 18 Copynumber: 3.4 Consensus size: 18
37794271 AGCTCTCAGG
37794281 CATTCTTCTCCCTTCATC
1 CATTCTTCTCCCTTCATC
* ***
37794299 CAGTAAGCTCCCTTCATC
1 CATTCTTCTCCCTTCATC
* *
37794317 CATTCTTCTCCCTTCCTT
1 CATTCTTCTCCCTTCATC
37794335 CATTCTT
1 CATTCTT
37794342 TCAAATTTCC
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.13, C:0.41, G:0.03, T:0.43
Consensus pattern (18 bp):
CATTCTTCTCCCTTCATC
Found at i:37796474 original size:4 final size:4
Alignment explanation
Indices: 37796467--37796496 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
37796457 GTGTATATAT
*
37796467 ATAC ATAC ATAC ATAC ATAC ATAC GTAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
37796497 GGTTAGTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.47, C:0.23, G:0.03, T:0.27
Consensus pattern (4 bp):
ATAC
Found at i:37797543 original size:35 final size:35
Alignment explanation
Indices: 37797489--37797556 Score: 102
Period size: 35 Copynumber: 1.9 Consensus size: 35
37797479 CAAACACCAG
*
37797489 AAAATATTTTTCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTTCAGTAAATCATTTTACAGAAAAGT
*
37797524 AAAACATTTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTT-CAGTAAATCATTTTACAGAAAA
37797557 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
35 27 0.90
36 3 0.10
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.34
Consensus pattern (35 bp):
AAAACATTTTTCAGTAAATCATTTTACAGAAAAGT
Found at i:37798013 original size:31 final size:31
Alignment explanation
Indices: 37797950--37798013 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 31
37797940 TTTAAGCCCC
* * *
37797950 AATGTGGAAAAAATTGTCAAGTCCAGGTCCT
1 AATGTGGAAAAAACTGCCAAGTCCAGGACCT
* **
37797981 AATGTGGAAACAACTGCCAAGTTTAGGACCT
1 AATGTGGAAAAAACTGCCAAGTCCAGGACCT
37798012 AA
1 AA
37798014 CTTGTACAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (31 bp):
AATGTGGAAAAAACTGCCAAGTCCAGGACCT
Found at i:37799590 original size:20 final size:20
Alignment explanation
Indices: 37799565--37799616 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
37799555 TAAAAATTCT
37799565 AAAAAATATTAAAATTTAT-A
1 AAAAAATATTAAAATTT-TCA
*
37799585 AAAAAA-ATCAAAATTTTCA
1 AAAAAATATTAAAATTTTCA
*
37799604 AAAAAATTTTAAA
1 AAAAAATATTAAA
37799617 GTTATTACAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 1 0.04
19 16 0.59
20 10 0.37
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (20 bp):
AAAAAATATTAAAATTTTCA
Found at i:37800273 original size:30 final size:31
Alignment explanation
Indices: 37800237--37800300 Score: 112
Period size: 30 Copynumber: 2.1 Consensus size: 31
37800227 CTCAAATCTA
37800237 TTTTTTAAAATAATTATAA-TTTTTTTATAT
1 TTTTTTAAAATAATTATAATTTTTTTTATAT
*
37800267 TTTTTTAAAATAATTTTAATTTTTTTTATAT
1 TTTTTTAAAATAATTATAATTTTTTTTATAT
37800298 TTT
1 TTT
37800301 CATCAATGGC
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 18 0.56
31 14 0.44
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (31 bp):
TTTTTTAAAATAATTATAATTTTTTTTATAT
Found at i:37800413 original size:15 final size:16
Alignment explanation
Indices: 37800393--37800423 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
37800383 TTTGTAATCA
37800393 TTATTTAAG-ATTTTT
1 TTATTTAAGTATTTTT
37800408 TTATTTAAGTATTTTT
1 TTATTTAAGTATTTTT
37800424 AGATAATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (16 bp):
TTATTTAAGTATTTTT
Found at i:37801394 original size:7 final size:7
Alignment explanation
Indices: 37801382--37801406 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
37801372 AGTCGATTGA
37801382 TATTTAG
1 TATTTAG
37801389 TATTTAG
1 TATTTAG
37801396 TATTTAG
1 TATTTAG
37801403 TATT
1 TATT
37801407 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:37803830 original size:125 final size:126
Alignment explanation
Indices: 37803537--37803883 Score: 547
Period size: 125 Copynumber: 2.8 Consensus size: 126
37803527 CCCAAACTTG
* *
37803537 CTACTGTAGCAAAATCGA-GTCCACGAAGGCGCGATTTCACAACTTCTTCTCAAATAGCATCCTG
1 CTACTGTAGCAAAATC-ACGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTG
** *
37803601 GTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACAAAAAAATTATTTCTTACATGAC
65 GTAGAAGCGATTTTATACTATTTGCTCAGAAAAATCAACAAAAAAATTATTTCTTACATAAC
* * * * *
37803663 CTACTATAGCAAAATCGCATCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATTCTCG
1 CTACTGTAGCAAAATCACGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
* *
37803728 TAGAAACGATTTTATACTATTTGCTCAGAAAAATC-AGAAAAAAATTATTTCTTACATAAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAAAATCAACAAAAAAATTATTTCTTACATAAC
37803788 CTACTGTAGCAAAATCACGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCACGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
37803853 TAGAAGCGATTTTATACTATTTGAC-CAGAAA
66 TAGAAGCGATTTTATACTATTTG-CTCAGAAA
37803884 CGTCAACTCG
Statistics
Matches: 201, Mismatches: 18, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
125 111 0.55
126 90 0.45
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (126 bp):
CTACTGTAGCAAAATCACGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
TAGAAGCGATTTTATACTATTTGCTCAGAAAAATCAACAAAAAAATTATTTCTTACATAAC
Found at i:37807162 original size:69 final size:69
Alignment explanation
Indices: 37807043--37807172 Score: 170
Period size: 69 Copynumber: 1.9 Consensus size: 69
37807033 ATTGCATTCG
* * * * * *
37807043 TACATAAGACCATAGCAAGGCTATGGCAATTGTTCGGATATAAGATCATGGTTGGACCATGGCAA
1 TACATAAGACCATAGCAAGACTATGACAATTGTTCAGACATAAAACCATGGTTGGACCATGGCAA
37807108 TATA
66 TATA
* * * *
37807112 TACATAAGACCATAGCGAGACTATGACATTTGTTTAGACGTAAAACCATGGTTGGACCATG
1 TACATAAGACCATAGCAAGACTATGACAATTGTTCAGACATAAAACCATGGTTGGACCATG
37807173 ACAGTGTATA
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
69 51 1.00
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (69 bp):
TACATAAGACCATAGCAAGACTATGACAATTGTTCAGACATAAAACCATGGTTGGACCATGGCAA
TATA
Found at i:37809696 original size:43 final size:43
Alignment explanation
Indices: 37809561--37809795 Score: 204
Period size: 43 Copynumber: 5.5 Consensus size: 43
37809551 TCTGGTACCT
* * * * *
37809561 CAGTGCATCATCGGATAAATTGAAA-AAATATATTGGCACACA
1 CAGTGCATCATTGGATAAACTGAAACAATTATACTAGCACACA
** ** * * * *
37809603 TGGTGCATCATCAGACAAAC-CAAAGCATTTATACTGGCACACA
1 CAGTGCATCATTGGATAAACTGAAA-CAATTATACTAGCACACA
* * * * *
37809646 TAATGCATCATTGGATAAATTGAAACAATTACACTAGCATACA
1 CAGTGCATCATTGGATAAACTGAAACAATTATACTAGCACACA
* **
37809689 CAGTGCATCATTGGATATACTGAAGTAATTATACTAGCACACA
1 CAGTGCATCATTGGATAAACTGAAACAATTATACTAGCACACA
* * * * *
37809732 TAGTGCATCAATGGATATACCGAAACAATTATACTGGCACACA
1 CAGTGCATCATTGGATAAACTGAAACAATTATACTAGCACACA
*
37809775 CTGTGCATCATTGGATAAACT
1 CAGTGCATCATTGGATAAACT
37809796 AAAGTATAAC
Statistics
Matches: 151, Mismatches: 39, Indels: 5
0.77 0.20 0.03
Matches are distributed among these distances:
41 3 0.02
42 15 0.10
43 130 0.86
44 3 0.02
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.26
Consensus pattern (43 bp):
CAGTGCATCATTGGATAAACTGAAACAATTATACTAGCACACA
Found at i:37809729 original size:86 final size:86
Alignment explanation
Indices: 37809631--37809801 Score: 234
Period size: 86 Copynumber: 2.0 Consensus size: 86
37809621 ACCAAAGCAT
* * ** *
37809631 TTATACTGGCACACATAATGCATCATTGGATAAATTGAAACAATTACACTAGCATACACAGTGCA
1 TTATACTAGCACACATAATGCATCAATGGATAAACCGAAACAATTACACTAGCACACACAGTGCA
* *
37809696 TCATTGGATATACTGAAGTAA
66 TCATTGGATAAACTAAAGTAA
* * * * *
37809717 TTATACTAGCACACATAGTGCATCAATGGATATACCGAAACAATTATACTGGCACACACTGTGCA
1 TTATACTAGCACACATAATGCATCAATGGATAAACCGAAACAATTACACTAGCACACACAGTGCA
37809782 TCATTGGATAAACTAAAGTA
66 TCATTGGATAAACTAAAGTA
37809802 TAACCTGTAC
Statistics
Matches: 73, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
86 73 1.00
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.27
Consensus pattern (86 bp):
TTATACTAGCACACATAATGCATCAATGGATAAACCGAAACAATTACACTAGCACACACAGTGCA
TCATTGGATAAACTAAAGTAA
Found at i:37809741 original size:129 final size:128
Alignment explanation
Indices: 37809561--37809793 Score: 292
Period size: 129 Copynumber: 1.8 Consensus size: 128
37809551 TCTGGTACCT
* * * *
37809561 CAGTGCATCATCGGATAAATTGAAAAAATATATTGGCACACATGGTGCATC-ATCAGACAAACC-
1 CAGTGCATCATCGGATAAACTGAAAAAATATACTAGCACACATAGTGCATCAAT-AGACAAACCG
*
37809624 AAAGCATTTATACTGGCACACA-TAATGCATCATTGGATAAATTGAAACAATTACACTAGCATAC
65 AAA-CAATTATACTGGCACACACT-ATGCATCATTGGATAAATTGAAACAATTACACTAGCATAC
37809688 A
128 A
* * * * * * *
37809689 CAGTGCATCATTGGATATACTGAAGTAATTATACTAGCACACATAGTGCATCAATGGATATACCG
1 CAGTGCATCATCGGATAAACTGAA-AAAATATACTAGCACACATAGTGCATCAATAGACAAACCG
*
37809754 AAACAATTATACTGGCACACACTGTGCATCATTGGATAAA
65 AAACAATTATACTGGCACACACTATGCATCATTGGATAAA
37809794 CTAAAGTATA
Statistics
Matches: 88, Mismatches: 13, Indels: 7
0.81 0.12 0.06
Matches are distributed among these distances:
128 21 0.24
129 61 0.69
130 6 0.07
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.25
Consensus pattern (128 bp):
CAGTGCATCATCGGATAAACTGAAAAAATATACTAGCACACATAGTGCATCAATAGACAAACCGA
AACAATTATACTGGCACACACTATGCATCATTGGATAAATTGAAACAATTACACTAGCATACA
Found at i:37811895 original size:25 final size:25
Alignment explanation
Indices: 37811837--37811898 Score: 115
Period size: 25 Copynumber: 2.5 Consensus size: 25
37811827 GAAGCTAAAT
*
37811837 AGGACAAGAAACAACCAACAAGCAG
1 AGGACAAGCAACAACCAACAAGCAG
37811862 AGGACAAGCAACAACCAACAAGCAG
1 AGGACAAGCAACAACCAACAAGCAG
37811887 AGGACAAGCAAC
1 AGGACAAGCAAC
37811899 TTTTTTCTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.53, C:0.26, G:0.21, T:0.00
Consensus pattern (25 bp):
AGGACAAGCAACAACCAACAAGCAG
Found at i:37826878 original size:24 final size:25
Alignment explanation
Indices: 37826825--37826878 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 25
37826815 AGAGGTAGGA
*
37826825 TATGATTATGCATCTAAATATGTAT
1 TATGATTATGCATCTAAACATGTAT
* * *
37826850 T-TGATTCTGCATCTATACCTG-AT
1 TATGATTATGCATCTAAACATGTAT
37826873 TATGAT
1 TATGAT
37826879 AATACATCCG
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
23 3 0.12
24 20 0.83
25 1 0.04
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.44
Consensus pattern (25 bp):
TATGATTATGCATCTAAACATGTAT
Found at i:37830607 original size:30 final size:30
Alignment explanation
Indices: 37830561--37830654 Score: 152
Period size: 30 Copynumber: 3.1 Consensus size: 30
37830551 TTTTATTATG
*
37830561 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
*
37830592 CCAATATTTGATACCCATATATTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
*
37830622 CCAATATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
37830652 CCA
1 CCA
37830655 TAAATATGGA
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
30 52 0.88
31 7 0.12
ACGTcount: A:0.28, C:0.24, G:0.06, T:0.41
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:37830613 original size:15 final size:15
Alignment explanation
Indices: 37830571--37830648 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
37830561 CCAATATCTC
*
37830571 GATACCCATATCTTT
1 GATACCCATATATTT
**
37830586 GACTTTCCA-ATATTT
1 GA-TACCCATATATTT
37830601 GATACCCATATATTT
1 GATACCCATATATTT
**
37830616 GACTTTCCA-ATATTT
1 GA-TACCCATATATTT
*
37830631 GATACCCATATCTTT
1 GATACCCATATATTT
37830646 GAT
1 GAT
37830649 TTTCCATAAA
Statistics
Matches: 49, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
14 8 0.16
15 33 0.67
16 8 0.16
ACGTcount: A:0.28, C:0.22, G:0.08, T:0.42
Consensus pattern (15 bp):
GATACCCATATATTT
Found at i:37835244 original size:30 final size:30
Alignment explanation
Indices: 37835194--37835287 Score: 152
Period size: 30 Copynumber: 3.1 Consensus size: 30
37835184 TTTAATTATG
* *
37835194 CCAATATCTCGATACTCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
37835225 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
*
37835255 CCAATATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
37835285 CCA
1 CCA
37835288 TAAATATGGA
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
30 53 0.88
31 7 0.12
ACGTcount: A:0.27, C:0.24, G:0.06, T:0.43
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:37835249 original size:15 final size:15
Alignment explanation
Indices: 37835204--37835281 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
37835194 CCAATATCTC
*
37835204 GATACTCATATCTTT
1 GATACCCATATCTTT
** *
37835219 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
37835234 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
37835249 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
37835264 GATACCCATATCTTT
1 GATACCCATATCTTT
37835279 GAT
1 GAT
37835282 TTTCCATAAA
Statistics
Matches: 46, Mismatches: 13, Indels: 8
0.69 0.19 0.12
Matches are distributed among these distances:
14 8 0.17
15 31 0.67
16 7 0.15
ACGTcount: A:0.27, C:0.22, G:0.08, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:37837240 original size:7 final size:7
Alignment explanation
Indices: 37837228--37837259 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
37837218 TTGATTCTTA
37837228 AAAATTC
1 AAAATTC
37837235 AAAATTC
1 AAAATTC
37837242 AAAATTC
1 AAAATTC
37837249 AAAATTC
1 AAAATTC
37837256 AAAA
1 AAAA
37837260 AATAAATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.25
Consensus pattern (7 bp):
AAAATTC
Found at i:37838190 original size:18 final size:18
Alignment explanation
Indices: 37838167--37838201 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
37838157 TCAAATCCAA
*
37838167 CTCTCTCTATTCTCTCAG
1 CTCTCTCAATTCTCTCAG
37838185 CTCTCTCAATTCTCTCA
1 CTCTCTCAATTCTCTCA
37838202 ATTTTCTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.14, C:0.40, G:0.03, T:0.43
Consensus pattern (18 bp):
CTCTCTCAATTCTCTCAG
Found at i:37838208 original size:11 final size:9
Alignment explanation
Indices: 37838168--37838211 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
37838158 CAAATCCAAC
*
37838168 TCTCTCTAT
1 TCTCTCAAT
**
37838177 TCTCTCAGC
1 TCTCTCAAT
37838186 TCTCTCAAT
1 TCTCTCAAT
37838195 TCTCTCAAT
1 TCTCTCAAT
*
37838204 TTTCTCAA
1 TCTCTCAA
37838212 GTTTTGTTTG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.18, C:0.34, G:0.02, T:0.45
Consensus pattern (9 bp):
TCTCTCAAT
Found at i:37841532 original size:12 final size:12
Alignment explanation
Indices: 37841515--37841544 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
37841505 CTCAGTTGCT
37841515 TCTTCATTGTCA
1 TCTTCATTGTCA
37841527 TCTTCATTGTCA
1 TCTTCATTGTCA
37841539 TCTTCA
1 TCTTCA
37841545 ACCAAAGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.17, C:0.27, G:0.07, T:0.50
Consensus pattern (12 bp):
TCTTCATTGTCA
Found at i:37843221 original size:51 final size:51
Alignment explanation
Indices: 37843157--37843383 Score: 228
Period size: 51 Copynumber: 4.5 Consensus size: 51
37843147 TATCGATGAA
* * * *
37843157 CACGTGTGCAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATGTTGGT
* * * * * * * *
37843208 CACATGTGTAGTACAAAGTGAAGGCTACAATGTGTACCGAGAAGCT-TTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAA-ATGTTGGT
* * *
37843259 CACGTGTGTAGTACTGTGTGAAGGCTACTATGTGTACCGA-AAA-GCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATG--TTGGT
* ** *
37843310 CACGTGTGTAGTACTATGTAAAGGCTACTACGTGAACCG-TAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATGTTGGT
37843360 CACGTGTGTAGTACTATGTGAAGG
1 CACGTGTGTAGTACTATGTGAAGG
37843384 ATTCTACATG
Statistics
Matches: 145, Mismatches: 25, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
50 29 0.20
51 115 0.79
52 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (51 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATGTTGGT
Found at i:37843334 original size:102 final size:101
Alignment explanation
Indices: 37843157--37843383 Score: 262
Period size: 102 Copynumber: 2.2 Consensus size: 101
37843147 TATCGATGAA
* *
37843157 CACGTGTGCAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAACCGATAAATGATGGTCACATGTGTAGTAC
* * * * *
37843222 AAAGTGAAGGCTACAATGTGTACCG-AGAAGCTTTGGT
66 AAAGTAAAGGCTACAACGTGAACCGTA-AAAC-TTGAT
* * * *
37843259 CACGTGTGTAGTACTGTGTGAAGGCTACTATGTGTACCGA-AAA-GCTTTGGTCACGTGTGTAGT
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAACCGATAAATG--ATGGTCACATGTGTAGT
* * *
37843322 ACTATGTAAAGGCTACTACGTGAACCGTAAAACTTGAT
64 ACAAAGTAAAGGCTACAACGTGAACCGTAAAACTTGAT
*
37843360 CACGTGTGTAGTACTATGTGAAGG
1 CACGTGTGTAGTACTGTGTGAAGG
37843384 ATTCTACATG
Statistics
Matches: 107, Mismatches: 15, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
100 1 0.01
101 30 0.28
102 75 0.70
103 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (101 bp):
CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAACCGATAAATGATGGTCACATGTGTAGTAC
AAAGTAAAGGCTACAACGTGAACCGTAAAACTTGAT
Found at i:37843611 original size:12 final size:12
Alignment explanation
Indices: 37843590--37843649 Score: 50
Period size: 12 Copynumber: 4.9 Consensus size: 12
37843580 TATGTGTGGA
37843590 ATTGAATTGAAT
1 ATTGAATTGAAT
* *
37843602 ATTGACTTGAAA
1 ATTGAATTGAAT
* *
37843614 ATGGCAAAGTGAAT
1 ATTG--AATTGAAT
37843628 ATTGAATTGAAT
1 ATTGAATTGAAT
*
37843640 AGTG-ATTGAA
1 ATTGAATTGAA
37843650 AGTGAAAAAG
Statistics
Matches: 37, Mismatches: 9, Indels: 5
0.73 0.18 0.10
Matches are distributed among these distances:
11 6 0.16
12 23 0.62
14 8 0.22
ACGTcount: A:0.42, C:0.03, G:0.22, T:0.33
Consensus pattern (12 bp):
ATTGAATTGAAT
Found at i:37848204 original size:26 final size:25
Alignment explanation
Indices: 37848173--37848250 Score: 75
Period size: 27 Copynumber: 3.0 Consensus size: 25
37848163 ACGAATTTTC
37848173 TCAAAATTTTATCAGGGGTAAAATTG
1 TCAAAATTTTA-CAGGGGTAAAATTG
* * **
37848199 TCAAAACTTTACCGGATGGTAAAATCA
1 TCAAAATTTTACAGG--GGTAAAATTG
* *
37848226 TCAAAATTTTACTGCGGTAAAATTG
1 TCAAAATTTTACAGGGGTAAAATTG
37848251 GGATGAGAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
25 11 0.27
26 10 0.24
27 20 0.49
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (25 bp):
TCAAAATTTTACAGGGGTAAAATTG
Found at i:37850395 original size:42 final size:42
Alignment explanation
Indices: 37850339--37850501 Score: 184
Period size: 42 Copynumber: 3.9 Consensus size: 42
37850329 GAGGAGCACA
* * * *
37850339 ATCACTTAAACTCACATGGGGAGCTTCACTGATACACAACTT
1 ATCACTTAAGCTCACATAGGGAGCTTCGCTAATACACAACTT
*
37850381 ATCACTTAAGCTCACATAGGGAGCTTCGCTAATACACAATTT
1 ATCACTTAAGCTCACATAGGGAGCTTCGCTAATACACAACTT
* * * * ** * *
37850423 AACATTTAAGCTTACGTAAAGAGCTTTGCTAATA-ACAGCTT
1 ATCACTTAAGCTCACATAGGGAGCTTCGCTAATACACAACTT
* *
37850464 ATCACTTAAGCTCACGTAGGGAGCTTCGCTGATACACA
1 ATCACTTAAGCTCACATAGGGAGCTTCGCTAATACACA
37850502 TCTTGTAAAA
Statistics
Matches: 99, Mismatches: 21, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
41 32 0.32
42 67 0.68
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (42 bp):
ATCACTTAAGCTCACATAGGGAGCTTCGCTAATACACAACTT
Found at i:37868467 original size:21 final size:21
Alignment explanation
Indices: 37868420--37868468 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
37868410 CAGATGCCGT
* *
37868420 ACCGGAAGAACCAGAATCCCC
1 ACCGGAAGAACAACAATCCCC
*
37868441 ATCGGAAGAACAACAA-CCGCC
1 ACCGGAAGAACAACAATCC-CC
37868462 ACCGGAA
1 ACCGGAA
37868469 TCTAGACAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.41, C:0.35, G:0.20, T:0.04
Consensus pattern (21 bp):
ACCGGAAGAACAACAATCCCC
Done.