Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 39 of 349
Found at i:10998050 original size:17 final size:18
Alignment explanation
Indices: 10998017--10998051 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
10998007 TTGAATTCTA
10998017 TTTGAAAAGAAACATCAT
1 TTTGAAAAGAAACATCAT
*
10998035 TTTGAATAGAAA-ATCAT
1 TTTGAAAAGAAACATCAT
10998052 GAAGTTGAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.49, C:0.09, G:0.11, T:0.31
Consensus pattern (18 bp):
TTTGAAAAGAAACATCAT
Found at i:11006446 original size:73 final size:73
Alignment explanation
Indices: 11006364--11006622 Score: 500
Period size: 73 Copynumber: 3.5 Consensus size: 73
11006354 ACAACTTGAC
11006364 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
11006429 CACTAACA
66 CACTAACA
*
11006437 AACTTAGTTGGAATACAACTAAGTTTTATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
11006502 CACTAACA
66 CACTAACA
11006510 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
11006575 CACTAACA
66 CACTAACA
*
11006583 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCA
11006623 AAATAATAAT
Statistics
Matches: 183, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
73 183 1.00
ACGTcount: A:0.41, C:0.25, G:0.06, T:0.28
Consensus pattern (73 bp):
AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
CACTAACA
Found at i:11010948 original size:73 final size:73
Alignment explanation
Indices: 11010862--11011120 Score: 491
Period size: 73 Copynumber: 3.5 Consensus size: 73
11010852 ACAACTTGAC
*
11010862 AACTTAGTTGGAATACAACTAAGTTTCATTATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
11010927 CACTAACA
66 CACTAACA
*
11010935 AACTTAGTTGGAATACAACTAAGTTTTATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
11011000 CACTAACA
66 CACTAACA
11011008 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
11011073 CACTAACA
66 CACTAACA
*
11011081 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCA
11011121 AAATAATAAT
Statistics
Matches: 182, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
73 182 1.00
ACGTcount: A:0.41, C:0.24, G:0.06, T:0.29
Consensus pattern (73 bp):
AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
CACTAACA
Found at i:11011130 original size:3 final size:3
Alignment explanation
Indices: 11011122--11011147 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
11011112 TTACATCCAA
11011122 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
11011148 AACATGTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:11013812 original size:32 final size:31
Alignment explanation
Indices: 11013776--11013847 Score: 83
Period size: 32 Copynumber: 2.3 Consensus size: 31
11013766 ATATATATAT
* *
11013776 ATAAATTTAGTGCTGTGCTCTTGAGAAAGAAG
1 ATAAATTTA-TGCTGTACTCCTGAGAAAGAAG
*
11013808 ATAAATTTTATGTTGTACTCCTGAGAAAGAAG
1 ATAAA-TTTATGCTGTACTCCTGAGAAAGAAG
11013840 -TCAAATTT
1 AT-AAATTT
11013848 GTTCGTCACT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
31 4 0.11
32 27 0.77
33 4 0.11
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.35
Consensus pattern (31 bp):
ATAAATTTATGCTGTACTCCTGAGAAAGAAG
Found at i:11026717 original size:3 final size:3
Alignment explanation
Indices: 11026709--11026740 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
11026699 AAAAGGTAAA
11026709 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
11026741 AAGCTTCAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:11027538 original size:44 final size:44
Alignment explanation
Indices: 11027457--11027815 Score: 319
Period size: 44 Copynumber: 8.0 Consensus size: 44
11027447 TCATATTAAC
* * *
11027457 CCACTGCAACTTCAAAG-GTATAGGATTTGTCA-CTTCAATCTGCT
1 CCACTGCAACTTCAGAGAG-ATAAGATTCGT-AGCTTCAATCTGCT
* * *
11027501 CCACTGCAACTTCAGAGAGATAAGATTAGTAGATTCAATCTGTT
1 CCACTGCAACTTCAGAGAGATAAGATTCGTAGCTTCAATCTGCT
**
11027545 CCACTGCAACTTCA-AGGAGATAAGATTTATAGCTTCAATCTGCT
1 CCACTGCAACTTCAGA-GAGATAAGATTCGTAGCTTCAATCTGCT
* * * * * *
11027589 CTACTGCAACTTCAGAGAAATAGGATTCGTGACTTGAAGCTTTAATATGTT
1 CCACTGCAACTTCAGAGAGATAAGATTC--G---T--AGCTTCAATCTGCT
* * * *
11027640 CCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAATCTACT
1 CCACTGCAACTTCAGAGAGATAAGATTCG-TAGCTTCAATCTGCT
* * *
11027685 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTACT
1 CCACTGCAACTTCAGAGAGATAAGATTCGTAGCTTCAATCTGCT
* * * * * *
11027729 CTACTACAACTTCAGAGAGATAAGATTCGATATCTACAATTTACT
1 CCACTGCAACTTCAGAGAGATAAGATTCG-TAGCTTCAATCTGCT
* * *
11027774 CCACTACAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTG
1 CCACTGCAACTTCAGAGAGATAAGATTCGTAGCTTCAATCTG
11027816 TTCTACCATA
Statistics
Matches: 260, Mismatches: 43, Indels: 24
0.80 0.13 0.07
Matches are distributed among these distances:
43 2 0.01
44 143 0.55
45 76 0.29
47 1 0.00
49 2 0.01
51 36 0.14
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.30
Consensus pattern (44 bp):
CCACTGCAACTTCAGAGAGATAAGATTCGTAGCTTCAATCTGCT
Found at i:11027704 original size:140 final size:139
Alignment explanation
Indices: 11027500--11027757 Score: 390
Period size: 140 Copynumber: 1.8 Consensus size: 139
11027490 TTCAATCTGC
* **
11027500 TCCACTGCAACTTCAGAGAGATAAGATTAGTAGATTCAATCTGTTCCACTGCAACTTCAAGGAGA
1 TCCACTGCAACTTCAGAGAAATAAGATTAGTAGATTCAATCTACTCCACTGCAACTTCAAGGAGA
* * *
11027565 TAAGATTTATAGCTTCAATCTGCTCTACTGCAACTTCAGAGAAATAGGATTCGTGACTTGAAGCT
66 TAAGATTTATAGCTTCAATCTACTCTACTACAACTTCAGAGAAATAAGATTCGTGACTTGAAGCT
11027630 TTAATATGT
131 TTAATATGT
* * ** *
11027639 TCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAATCTACTCCACTGCAACTTCAGGGAG
1 TCCACTGCAACTTCAGAGAAATAAGATTAG-TAGATTCAATCTACTCCACTGCAACTTCAAGGAG
* *
11027704 ATAAGATTTGTAGCTTCAATCTACTCTACTACAACTTCAGAGAGATAAGATTCG
65 ATAAGATTTATAGCTTCAATCTACTCTACTACAACTTCAGAGAAATAAGATTCG
11027758 ATATCTACAA
Statistics
Matches: 105, Mismatches: 13, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
139 27 0.26
140 78 0.74
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (139 bp):
TCCACTGCAACTTCAGAGAAATAAGATTAGTAGATTCAATCTACTCCACTGCAACTTCAAGGAGA
TAAGATTTATAGCTTCAATCTACTCTACTACAACTTCAGAGAAATAAGATTCGTGACTTGAAGCT
TTAATATGT
Found at i:11027821 original size:89 final size:89
Alignment explanation
Indices: 11027626--11027821 Score: 284
Period size: 89 Copynumber: 2.2 Consensus size: 89
11027616 CGTGACTTGA
* * * * * * * *
11027626 AGCTTTAATATGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAATCTACTCCACTG
1 AGCTTCAATCTGTTCTACTACAACTTCAGAGAAATAAGATTCGATATCTACAATCTACTCCACTA
11027691 CAACTTCAGGGAGATAAGATTTGT
66 CAACTTCAGGGAGATAAGATTTGT
** * *
11027715 AGCTTCAATCTACTCTACTACAACTTCAGAGAGATAAGATTCGATATCTACAATTTACTCCACTA
1 AGCTTCAATCTGTTCTACTACAACTTCAGAGAAATAAGATTCGATATCTACAATCTACTCCACTA
11027780 CAACTTCAGGGAGATAAGATTTGT
66 CAACTTCAGGGAGATAAGATTTGT
11027804 AGCTTCAATCTGTTCTAC
1 AGCTTCAATCTGTTCTAC
11027822 CATACAGCAA
Statistics
Matches: 93, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
89 93 1.00
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.32
Consensus pattern (89 bp):
AGCTTCAATCTGTTCTACTACAACTTCAGAGAAATAAGATTCGATATCTACAATCTACTCCACTA
CAACTTCAGGGAGATAAGATTTGT
Found at i:11032459 original size:21 final size:21
Alignment explanation
Indices: 11032434--11032476 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
11032424 GCCTAATTAT
*
11032434 TTCAATAGTTAGATTATTAGG
1 TTCAATAGATAGATTATTAGG
*
11032455 TTCAATTGATAGATTATTAGG
1 TTCAATAGATAGATTATTAGG
11032476 T
1 T
11032477 AAATTCAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.05, G:0.19, T:0.44
Consensus pattern (21 bp):
TTCAATAGATAGATTATTAGG
Found at i:11048489 original size:23 final size:22
Alignment explanation
Indices: 11048446--11048503 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
11048436 AAAAGGTATC
* *
11048446 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
11048467 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
11048490 TGCATATCATATCT
1 TACAAATCATATCT
11048504 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:11048506 original size:19 final size:19
Alignment explanation
Indices: 11048482--11048553 Score: 114
Period size: 19 Copynumber: 3.9 Consensus size: 19
11048472 AATCATATCT
11048482 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
11048501 TCTAAGATTGCAT-TTATA
1 TCTAAGATTGCATATCATA
11048519 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
11048536 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
11048554 TGAAGATTAT
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
16 1 0.02
17 14 0.29
18 14 0.29
19 19 0.40
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.40
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:11050855 original size:22 final size:22
Alignment explanation
Indices: 11050830--11050873 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
11050820 ACATGAACAA
11050830 AGCAAGTGCAACCAAACACTCT
1 AGCAAGTGCAACCAAACACTCT
11050852 AGCAAGTGCAACCAAACACTCT
1 AGCAAGTGCAACCAAACACTCT
11050874 TAGGTGAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.32, G:0.14, T:0.14
Consensus pattern (22 bp):
AGCAAGTGCAACCAAACACTCT
Found at i:11053101 original size:3 final size:3
Alignment explanation
Indices: 11053093--11053330 Score: 158
Period size: 3 Copynumber: 80.3 Consensus size: 3
11053083 ATAAACAAGA
* * * * *
11053093 AAT AAT AAT AGT AA- AAA AAT AAT AGT AAT AAT AAT GAT AAT GAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
11053140 AGA- AAT AGA- AAT AGA- AAT AGA- AAT AAT AAT AAT AAT AAT AGT AAT
1 A-AT AAT A-AT AAT A-AT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
11053185 AAT AAT GAA- AAT AAT AAT AA- AAT AAGG AAT AAT AAT AAT AAC AAC
1 AAT AAT -AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT
* *
11053230 AAT AAT -AT AAAT AAT AA- AA- AAC AAT AAT AGT AAT AAT AAT AAT
1 AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
11053273 GAT AGT AA- AAT AAT AGT AAT AAT AGAA AAT AAT AGT AAT AGT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT
11053317 AATT AAT AAT AAT A
1 AA-T AAT AAT AAT A
11053331 GTAAAAATTA
Statistics
Matches: 185, Mismatches: 30, Indels: 40
0.73 0.12 0.16
Matches are distributed among these distances:
2 20 0.11
3 151 0.82
4 14 0.08
ACGTcount: A:0.64, C:0.01, G:0.08, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:11053350 original size:18 final size:17
Alignment explanation
Indices: 11053256--11053342 Score: 63
Period size: 18 Copynumber: 4.8 Consensus size: 17
11053246 AAAAACAATA
11053256 ATAGTAATAA-TAATAAT
1 ATAGTAA-AATTAATAAT
*
11053273 GATAGTAAAATAATAGTAAT
1 -ATAGTAAAAT--TAATAAT
*
11053293 AATAG-AAAA-TAATAGT
1 -ATAGTAAAATTAATAAT
11053309 AATAGTAAAATTAATAAT
1 -ATAGTAAAATTAATAAT
11053327 AATAGTAAAAATTAAT
1 -ATAGT-AAAATTAAT
11053343 TAATTAGTTA
Statistics
Matches: 58, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
16 10 0.17
17 6 0.10
18 19 0.33
19 13 0.22
20 10 0.17
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.31
Consensus pattern (17 bp):
ATAGTAAAATTAATAAT
Found at i:11054924 original size:46 final size:46
Alignment explanation
Indices: 11054864--11055119 Score: 173
Period size: 46 Copynumber: 5.7 Consensus size: 46
11054854 GTAATTTCAA
* *
11054864 CCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTGTATTTTTAT
1 CCTGCTCCACTGCAACTTCAGAGAGATAAGGTTTGTGTACTTTTAT
* * * **
11054910 CCTGCTCTACTGCAACTTCAGAGAGATAAGGATTGTG-GCTTCGAT
1 CCTGCTCCACTGCAACTTCAGAGAGATAAGGTTTGTGTACTTTTAT
* * ** * * * * * **
11054955 -CTGTTCCAATATAATTTTAGGGAGA-AGAGATTTGT-AACTTCGAT
1 CCTGCTCCACTGCAACTTCAGAGAGATA-AGGTTTGTGTACTTTTAT
* * * * * ** * *
11054999 -CTACTCTACTGGAACTTCATAGAGGTAAGAATTG-GTAATTTTAA
1 CCTGCTCCACTGCAACTTCAGAGAGATAAGGTTTGTGTACTTTTAT
* * *
11055043 CCTGCTCCACTGCAACTTCAGGGAGATAAAGTTTGTGTATTTTTAT
1 CCTGCTCCACTGCAACTTCAGAGAGATAAGGTTTGTGTACTTTTAT
* *
11055089 CCTACTCTACTGCAACTTCAGAGAGATAAGG
1 CCTGCTCCACTGCAACTTCAGAGAGATAAGG
11055120 ATGGTGCTGC
Statistics
Matches: 154, Mismatches: 50, Indels: 12
0.71 0.23 0.06
Matches are distributed among these distances:
43 1 0.01
44 54 0.35
45 30 0.19
46 69 0.45
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (46 bp):
CCTGCTCCACTGCAACTTCAGAGAGATAAGGTTTGTGTACTTTTAT
Found at i:11055047 original size:179 final size:178
Alignment explanation
Indices: 11054764--11055207 Score: 640
Period size: 179 Copynumber: 2.5 Consensus size: 178
11054754 GTATAGGAAT
* *
11054764 TGGTGCTTCGATCCGTTCCAATATAATTTCAGGGAGAAGAGATTTGTAACTTCGATCTACTCCAC
1 TGGTGCTTCGATCAGTTCCAATATAATTTTAGGGAGAAGAGATTTGTAACTTCGATCTACTCCAC
*
11054829 TGAATCTTCAAGGAGATAAGAATTGGTAATTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAG
66 TGAATCTTCAAGGAGATAAGAATTGGTAATTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAA
*
11054894 GTTTGTGTATTTTTATCCTGCTCTACTGCAACTTCAGAGAGATAAGGA
131 GTTTGTGTATTTTTATCCTACTCTACTGCAACTTCAGAGAGATAAGGA
* * *
11054942 TTGTGGCTTCGATCTGTTCCAATATAATTTTAGGGAGAAGAGATTTGTAACTTCGATCTACTCTA
1 TGGT-GCTTCGATCAGTTCCAATATAATTTTAGGGAGAAGAGATTTGTAACTTCGATCTACTCCA
* *
11055007 CTGGAA-CTTCATA-GAGGTAAGAATTGGTAATTTTAACCTGCTCCACTGCAACTTCAGGGAGAT
65 CT-GAATCTTCA-AGGAGATAAGAATTGGTAATTTCAACCTGCTCCACTGCAACTTCAGGGAGAT
11055070 AAAGTTTGTGTATTTTTATCCTACTCTACTGCAACTTCAGAGAGATAAGGA
128 AAAGTTTGTGTATTTTTATCCTACTCTACTGCAACTTCAGAGAGATAAGGA
* * ** * * * * * *
11055121 TGGTGCTGCGGTCAACTCTAATGTAATTTTAGGAAGAAGAGATTTGTAGCTTCGATCTATTCCGC
1 TGGTGCTTCGATCAGTTCCAATATAATTTTAGGGAGAAGAGATTTGTAACTTCGATCTACTCCAC
* * * *
11055186 CGAAACTTCATGAAGATAAGAA
66 TGAATCTTCAAGGAGATAAGAA
11055208 CCACTGTCTT
Statistics
Matches: 236, Mismatches: 25, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
177 3 0.01
178 65 0.28
179 164 0.69
180 4 0.02
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (178 bp):
TGGTGCTTCGATCAGTTCCAATATAATTTTAGGGAGAAGAGATTTGTAACTTCGATCTACTCCAC
TGAATCTTCAAGGAGATAAGAATTGGTAATTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAA
GTTTGTGTATTTTTATCCTACTCTACTGCAACTTCAGAGAGATAAGGA
Found at i:11055355 original size:88 final size:89
Alignment explanation
Indices: 11055189--11055384 Score: 227
Period size: 88 Copynumber: 2.2 Consensus size: 89
11055179 ATTCCGCCGA
* * ** * *
11055189 AACTTCATGAAGATAAGAACCACTGTCTTCAGTCTACTTCAATGTAACTTTAGGGAAATAGGGCT
1 AACTTCAAGAAGATAAGATCCACCATCTTCAGTCTACTCCAATGTAACTTTAGGGAAATAAGGCT
* * * * *
11055254 GGTGGCTTTAATCTGCTCTACTGC
66 AGTGGCTTCAATCTGATCCACTAC
* * *
11055278 AACTTCAAGAAGATAAGATCCACCATCTT-TGATCTACTCCACTG-AACTTTAGGGAGATAAGGC
1 AACTTCAAGAAGATAAGATCCACCATCTTCAG-TCTACTCCAATGTAACTTTAGGGAAATAAGGC
11055341 TAGTGGCTTCAATCTGATCCACTAC
65 TAGTGGCTTCAATCTGATCCACTAC
11055366 AACTTCAA-AGAGATAAGAT
1 AACTTCAAGA-AGATAAGAT
11055385 TCGCCATAAT
Statistics
Matches: 91, Mismatches: 14, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
87 1 0.01
88 55 0.60
89 35 0.38
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (89 bp):
AACTTCAAGAAGATAAGATCCACCATCTTCAGTCTACTCCAATGTAACTTTAGGGAAATAAGGCT
AGTGGCTTCAATCTGATCCACTAC
Found at i:11055436 original size:54 final size:50
Alignment explanation
Indices: 11055346--11055730 Score: 190
Period size: 54 Copynumber: 7.9 Consensus size: 50
11055336 AAGGCTAGTG
* * * **
11055346 GCTTCAATCTGATCCACTACAACTTCAAAGAGATAAGATTCGCCATAATTTGTA
1 GCTTTAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTCG-C-T-A-TTGTA
* * *
11055400 GCTTTAATCTGTTCCACTGCAACTTTAGGGAAATAAGATTTGCTA-T-T-
1 GCTTTAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTCGCTATTGTA
* * * * *
11055447 --TTTAGTCTGCTCCGCTGCAATTTCAGGGAGATAAGA----C--TTGTG
1 GCTTTAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTCGCTATTGTA
* * *
11055489 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCACCATAATTTGTA
1 GCTTTAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTC-GC-T-A-TTGTA
* * *
11055543 GCTTTAATCTGTTCGACTGCAACTTCAGGGATATAAGA----C--TTGTG
1 GCTTTAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTCGCTATTGTA
* *
11055587 GCTTCAATC--TACCACTGCAACTTCAGGGAGATAAGATTCGTCATAATTTGTA
1 GCTTTAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTCG-C-T-A-TTGTA
* ** *
11055639 GCTTTAATTTGTTCCACTCCGCTGCAACTTTTGGGAGATAAGA--C-TTA-TG--
1 GCTTTAATCTGTTCCA-----CTGCAACTTCAGGGAGATAAGATTCGCTATTGTA
* * *
11055688 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGTTTCGC
1 GCTTTAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTCGC
11055731 CATGATGACT
Statistics
Matches: 254, Mismatches: 42, Indels: 77
0.68 0.11 0.21
Matches are distributed among these distances:
40 1 0.00
41 2 0.01
42 24 0.09
44 63 0.25
45 30 0.12
46 1 0.00
47 1 0.00
48 1 0.00
49 16 0.06
51 3 0.01
52 12 0.05
53 2 0.01
54 77 0.30
57 1 0.00
59 20 0.08
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.32
Consensus pattern (50 bp):
GCTTTAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTCGCTATTGTA
Found at i:11055516 original size:44 final size:44
Alignment explanation
Indices: 11055395--11055724 Score: 196
Period size: 44 Copynumber: 7.0 Consensus size: 44
11055385 TCGCCATAAT
* * * *
11055395 TTGTAGCTTTAATCTGTTCCACTGCAACTTTAGGGAAATAAGAT
1 TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAC
** * * *
11055439 TTGCTATTTTTAGTCTGCTCCGCTGCAATTTCAGGGAGATAAGAC
1 TTG-TAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAC
* *
11055484 TTGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCACC
1 TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG----A-C
* * *
11055533 ATAATTTGTAGCTTTAATCTGTTCGACTGCAACTTCAGGGATATAAGAC
1 -----TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAC
* * *
11055582 TTGTGGCTTCAATCT--ACCACTGCAACTTCAGGGAGATAAGATTCGTC
1 TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-----C
* * **
11055629 ATAATTTGTAGCTTTAATTTGTTCCACTCCGCTGCAACTTTTGGGAGATAAGAC
1 -----TTGTAGCTTTAATCTG-----CTCCACTGCAACTTCAGGGAGATAAGAC
* * *
11055683 TTATGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
1 TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
11055725 TTTCGCCATG
Statistics
Matches: 218, Mismatches: 40, Indels: 56
0.69 0.13 0.18
Matches are distributed among these distances:
42 23 0.11
44 71 0.33
45 35 0.16
47 1 0.00
48 1 0.00
49 14 0.06
50 1 0.00
52 12 0.06
54 38 0.17
59 22 0.10
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (44 bp):
TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAC
Found at i:11055635 original size:96 final size:98
Alignment explanation
Indices: 11055461--11055733 Score: 379
Period size: 96 Copynumber: 2.7 Consensus size: 98
11055451 GTCTGCTCCG
*
11055461 CTGCAATTTCAGGGAGATAAGACTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
1 CTGCAACTTCAGGGAGATAAGACTTGTGGCTTCAATCT-CTCCACTGCAACTTCAGGGAGATAAG
* *
11055526 ATTCACCATAATTTGTAGCTTTAATCTGTTCGA-
65 ATTCGCCATAATTTGTAGCTTTAATCTGTTCCAC
* *
11055559 CTGCAACTTCAGGGATATAAGACTTGTGGCTTCAATCT-ACCACTGCAACTTCAGGGAGATAAGA
1 CTGCAACTTCAGGGAGATAAGACTTGTGGCTTCAATCTCTCCACTGCAACTTCAGGGAGATAAGA
* *
11055623 TTCGTCATAATTTGTAGCTTTAATTTGTTCCACTCC
66 TTCGCCATAATTTGTAGCTTTAATCTGTTCCA---C
** *
11055659 GCTGCAACTTTTGGGAGATAAGACTTATGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA
1 -CTGCAACTTCAGGGAGATAAGACTTGTGGCTTCAATCT-CTCCACTGCAACTTCAGGGAGATAA
*
11055724 GTTTCGCCAT
64 GATTCGCCAT
11055734 GATGACTTAA
Statistics
Matches: 154, Mismatches: 14, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
96 53 0.34
98 36 0.23
101 34 0.22
103 31 0.20
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.32
Consensus pattern (98 bp):
CTGCAACTTCAGGGAGATAAGACTTGTGGCTTCAATCTCTCCACTGCAACTTCAGGGAGATAAGA
TTCGCCATAATTTGTAGCTTTAATCTGTTCCAC
Found at i:11056189 original size:46 final size:46
Alignment explanation
Indices: 11056125--11056266 Score: 160
Period size: 46 Copynumber: 3.1 Consensus size: 46
11056115 ATTTTTGGTT
*
11056125 TCTTCCATCCA-CTCCACTGCAACTCAAGGGTATAAGATTTGTATCA
1 TCTTCAATCCATC-CCACTGCAACTCAAGGGTATAAGATTTGTATCA
* * * * *
11056171 TCTTCAATCTATCCCACTGCAACTCAGGGGTATGAGATTTCTATCG
1 TCTTCAATCCATCCCACTGCAACTCAAGGGTATAAGATTTGTATCA
* ** * * *
11056217 TCTTCAATCCATCCCATTTTAACTCAAGGGTACAGGATTTGTATCT
1 TCTTCAATCCATCCCACTGCAACTCAAGGGTATAAGATTTGTATCA
11056263 TCTT
1 TCTT
11056267 TAATTCACTG
Statistics
Matches: 79, Mismatches: 16, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
46 78 0.99
47 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.14, T:0.35
Consensus pattern (46 bp):
TCTTCAATCCATCCCACTGCAACTCAAGGGTATAAGATTTGTATCA
Found at i:11056754 original size:53 final size:53
Alignment explanation
Indices: 11056670--11056773 Score: 174
Period size: 53 Copynumber: 2.0 Consensus size: 53
11056660 GGGAGCATAG
11056670 CTCGAAATGAATAAGTTAATCAAAGACAGCAAATGCAATAAGAAGGAAATTAA
1 CTCGAAATGAATAAGTTAATCAAAGACAGCAAATGCAATAAGAAGGAAATTAA
* *
11056723 CTCGAAATGAATAAGTTAATCGAAA-ATAGCAAATGTAATAAGAAGGAAATT
1 CTCGAAATGAATAAGTTAATC-AAAGACAGCAAATGCAATAAGAAGGAAATT
11056774 GATTGAAAGC
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
53 45 0.94
54 3 0.06
ACGTcount: A:0.52, C:0.10, G:0.17, T:0.21
Consensus pattern (53 bp):
CTCGAAATGAATAAGTTAATCAAAGACAGCAAATGCAATAAGAAGGAAATTAA
Found at i:11057156 original size:15 final size:15
Alignment explanation
Indices: 11057136--11057166 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
11057126 TCTCTTCCTT
11057136 TTTTGTTTTTTTTTG
1 TTTTGTTTTTTTTTG
11057151 TTTTGTTTTTTTTTG
1 TTTTGTTTTTTTTTG
11057166 T
1 T
11057167 AAAACTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (15 bp):
TTTTGTTTTTTTTTG
Found at i:11060541 original size:19 final size:20
Alignment explanation
Indices: 11060517--11060561 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
11060507 TTGTGACATT
*
11060517 CAATGCATATG-ATGAAATG
1 CAATGCAGATGCATGAAATG
11060536 CAATGCAGATGCATGAAATG
1 CAATGCAGATGCATGAAATG
11060556 -AATGCA
1 CAATGCA
11060562 AAAAGAGACG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.42, C:0.13, G:0.22, T:0.22
Consensus pattern (20 bp):
CAATGCAGATGCATGAAATG
Found at i:11062511 original size:3 final size:3
Alignment explanation
Indices: 11062503--11062780 Score: 180
Period size: 3 Copynumber: 93.7 Consensus size: 3
11062493 ATAAACAAGA
* * * * *
11062503 AAT AAT AAT AGT AA- AAA AAT AGT AAT AAT AAT AAT GAT AAT GAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
11062550 AGT AAT AGA- AAT AAT AAT AAT AAT AAT AGT AAT AAT AAT GAA- AAT
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
* * * * *
11062595 AAT AAT AA- AAA AAT AAGG AAT AAT AAC AAT AAC AAC AAT AAT -AT
1 AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
11062639 AAAT AAT AA- AA- AAC AAT AAT AGT AAT AAT AAT AAT GAT AGT AAT
1 -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * **
11062683 AAT AAT AGT AAT AAT AGAA AAT AAT AGT AAT TGT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * **
11062729 AAT AGT TAT AAT AA- ATT AATT AACT AGT TTT AAT AAT AA- AAT AAT
1 AAT AAT AAT AAT AAT AAT AA-T AA-T AAT AAT AAT AAT AAT AAT AAT
11062774 AA- AAT AA
1 AAT AAT AA
11062781 CTAAAAAAAG
Statistics
Matches: 211, Mismatches: 49, Indels: 30
0.73 0.17 0.10
Matches are distributed among these distances:
2 18 0.09
3 179 0.85
4 14 0.07
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:11062656 original size:22 final size:22
Alignment explanation
Indices: 11062592--11062669 Score: 68
Period size: 22 Copynumber: 3.4 Consensus size: 22
11062582 TAATAATGAA
* * *
11062592 AATAATAATAAAAAAATAAGGAAT
1 AATAATAA-AAAACAATAA-TAGT
*
11062616 AATAACAATAACAACAATAATA-T
1 AATAATAA-AA-AACAATAATAGT
11062639 AAATAATAAAAAACAATAATAGT
1 -AATAATAAAAAACAATAATAGT
11062662 AATAATAA
1 AATAATAA
11062670 TAATGATAGT
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
22 18 0.38
23 4 0.09
24 18 0.38
25 7 0.15
ACGTcount: A:0.69, C:0.05, G:0.04, T:0.22
Consensus pattern (22 bp):
AATAATAAAAAACAATAATAGT
Found at i:11062763 original size:43 final size:42
Alignment explanation
Indices: 11062679--11062774 Score: 110
Period size: 43 Copynumber: 2.3 Consensus size: 42
11062669 ATAATGATAG
11062679 TAATAATAATAGTAATAATAGAAAATAATAGTAATTGTAATAA
1 TAATAATAATAGTAATAATAGAAAATAATAGT-ATTGTAATAA
*
11062722 TAATAATAATAGTTATAATA-AATTAATTAACTAGT-TT-TAATAA
1 TAATAATAATAGTAATAATAGAA--AA-TAA-TAGTATTGTAATAA
11062765 TAA-AATAATA
1 TAATAATAATA
11062775 AAATAACTAA
Statistics
Matches: 48, Mismatches: 1, Indels: 9
0.83 0.02 0.16
Matches are distributed among these distances:
42 9 0.19
43 28 0.58
44 4 0.08
45 3 0.06
46 4 0.08
ACGTcount: A:0.56, C:0.01, G:0.06, T:0.36
Consensus pattern (42 bp):
TAATAATAATAGTAATAATAGAAAATAATAGTATTGTAATAA
Found at i:11069061 original size:76 final size:76
Alignment explanation
Indices: 11068924--11069074 Score: 250
Period size: 76 Copynumber: 2.0 Consensus size: 76
11068914 AAGGTTTTAC
**
11068924 CATTCATGAATGTGTATGTGTTTTGATGTTTGATGGAAGAAATGTATCTTTGTTGATAAATAAAC
1 CATTCATGAATGTGTATGTGTTTTGATGTTTGATGGAAGAAATCAATCTTTGTTGATAAATAAAC
11068989 AAGTTTTGTAT
66 AAGTTTTGTAT
*
11069000 CATTGATGAATGTGTATGTGTTTTGATGTTTGATGGAAGAAAATCAATCTTTGTTGA-AAATAAA
1 CATTCATGAATGTGTATGTGTTTTGATGTTTGATGGAAG-AAATCAATCTTTGTTGATAAATAAA
*
11069064 TAAGTTTTGTA
65 CAAGTTTTGTA
11069075 AAGTGATTTT
Statistics
Matches: 70, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
76 55 0.79
77 15 0.21
ACGTcount: A:0.32, C:0.05, G:0.21, T:0.42
Consensus pattern (76 bp):
CATTCATGAATGTGTATGTGTTTTGATGTTTGATGGAAGAAATCAATCTTTGTTGATAAATAAAC
AAGTTTTGTAT
Found at i:11070942 original size:12 final size:12
Alignment explanation
Indices: 11070925--11070955 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
11070915 CTCCAGTTTT
11070925 CACACGGCCTAG
1 CACACGGCCTAG
*
11070937 CACACGGCCTGG
1 CACACGGCCTAG
11070949 CACACGG
1 CACACGG
11070956 ACGTGTTGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.23, C:0.42, G:0.29, T:0.06
Consensus pattern (12 bp):
CACACGGCCTAG
Found at i:11076676 original size:16 final size:16
Alignment explanation
Indices: 11076657--11076691 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
11076647 CATTAGTAAT
11076657 AAGTAAAATAGAAGTG
1 AAGTAAAATAGAAGTG
11076673 AAGTAAAATAGAAGTG
1 AAGTAAAATAGAAGTG
11076689 AAG
1 AAG
11076692 AGAATAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.26, T:0.17
Consensus pattern (16 bp):
AAGTAAAATAGAAGTG
Found at i:11081277 original size:21 final size:21
Alignment explanation
Indices: 11081253--11081301 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
11081243 ACGACACATA
*
11081253 AAGTGCTTAAAACGGCACACG
1 AAGTGCCTAAAACGGCACACG
* *
11081274 AAGTGCCTGATACGGCACACG
1 AAGTGCCTAAAACGGCACACG
*
11081295 AGGTGCC
1 AAGTGCC
11081302 AGAAATACGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.31, C:0.27, G:0.29, T:0.14
Consensus pattern (21 bp):
AAGTGCCTAAAACGGCACACG
Found at i:11091114 original size:24 final size:24
Alignment explanation
Indices: 11091082--11091130 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
11091072 CAGAGGACCC
11091082 GAATTGCGTCGGCCAGTTGGATTT
1 GAATTGCGTCGGCCAGTTGGATTT
11091106 GAATTGCGTCGGCCAGTTGGATTT
1 GAATTGCGTCGGCCAGTTGGATTT
11091130 G
1 G
11091131 TTCTAGTGCG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.16, C:0.16, G:0.35, T:0.33
Consensus pattern (24 bp):
GAATTGCGTCGGCCAGTTGGATTT
Found at i:11101867 original size:29 final size:28
Alignment explanation
Indices: 11101819--11101876 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 28
11101809 AACTTTGGAG
* *
11101819 TTGGTTGACGTCCAGTTCACAAGAAGGT
1 TTGGTTGACATCCAGTTCACAAAAAGGT
11101847 TTGGTTGACATACCAGTTCACAAAAAGGT
1 TTGGTTGACAT-CCAGTTCACAAAAAGGT
11101876 T
1 T
11101877 ATTGGAGTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 10 0.37
29 17 0.63
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.29
Consensus pattern (28 bp):
TTGGTTGACATCCAGTTCACAAAAAGGT
Found at i:11102784 original size:8 final size:8
Alignment explanation
Indices: 11102770--11102816 Score: 67
Period size: 8 Copynumber: 5.9 Consensus size: 8
11102760 ATTTATGTAA
11102770 ATATTATT
1 ATATTATT
*
11102778 TTATTATT
1 ATATTATT
*
11102786 TTATTATT
1 ATATTATT
11102794 ATATTATT
1 ATATTATT
*
11102802 ATATAATT
1 ATATTATT
11102810 ATATTAT
1 ATATTAT
11102817 ATCAATTAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 35 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
ATATTATT
Found at i:11102785 original size:11 final size:11
Alignment explanation
Indices: 11102774--11102818 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
11102764 ATGTAAATAT
11102774 TATT-TTATTA
1 TATTATTATTA
*
11102784 TTTTATTATTA
1 TATTATTATTA
11102795 TATTATTA-TA
1 TATTATTATTA
11102805 TAATTA-TATTA
1 T-ATTATTATTA
11102816 TAT
1 TAT
11102819 CAATTAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
10 10 0.33
11 20 0.67
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TATTATTATTA
Found at i:11102810 original size:19 final size:19
Alignment explanation
Indices: 11102739--11102811 Score: 67
Period size: 19 Copynumber: 3.8 Consensus size: 19
11102729 TATATTAGTA
*
11102739 ATTATTATATATTTACTTAT
1 ATTATTATATAATTA-TTAT
* * *
11102759 AAT-TTATGTAAATATTAT
1 ATTATTATATAATTATTAT
* * *
11102777 TTTATTATTTTATTATTAT
1 ATTATTATATAATTATTAT
11102796 ATTATTATATAATTAT
1 ATTATTATATAATTAT
11102812 ATTATATCAA
Statistics
Matches: 40, Mismatches: 12, Indels: 3
0.73 0.22 0.05
Matches are distributed among these distances:
18 5 0.12
19 33 0.82
20 2 0.05
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (19 bp):
ATTATTATATAATTATTAT
Found at i:11102951 original size:5 final size:5
Alignment explanation
Indices: 11102930--11102969 Score: 57
Period size: 5 Copynumber: 8.4 Consensus size: 5
11102920 TACGTAAAAG
*
11102930 ATATT ATGTT ATA-- ATATT ATATT ATATT ATATT ATATT AT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT AT
11102970 TATAAACATA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
3 3 0.10
5 28 0.90
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (5 bp):
ATATT
Found at i:11102963 original size:15 final size:13
Alignment explanation
Indices: 11102930--11102969 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 13
11102920 TACGTAAAAG
*
11102930 ATATTATGTTATA
1 ATATTATATTATA
11102943 ATATTATATTATA
1 ATATTATATTATA
11102956 TTATATTATATTAT
1 --ATATTATATTAT
11102970 TATAAACATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 12 0.50
15 12 0.50
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (13 bp):
ATATTATATTATA
Found at i:11106950 original size:44 final size:43
Alignment explanation
Indices: 11106853--11107047 Score: 277
Period size: 43 Copynumber: 4.5 Consensus size: 43
11106843 AAAAATGCCA
11106853 CTAAAAGTCGA-GGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCG
1 CTAAAAGTC-ATGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCG
* * *
11106896 CTAAAAGTCATGGCTTTTAGCGGCGTTTGTGGTAAAAAGGGCTG
1 CTAAAAGTCATGGCTTTTAGCGGCGTTTGTGG-GAAAAGCGCCG
* *
11106940 CTAAAGGTCATGGCTTTTAGCGGCGTTTGTGGGAAAAGAGCCG
1 CTAAAAGTCATGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCG
* *
11106983 CTAAAAGTCATGGC-TTTAGTGGCGTTTTTGGGAAAAGCGCCG
1 CTAAAAGTCATGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCG
* *
11107025 CTAAAAGTCACGTCTTTTAGCGG
1 CTAAAAGTCATGGCTTTTAGCGG
11107048 TGCTTTTTCT
Statistics
Matches: 135, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
42 38 0.28
43 58 0.43
44 39 0.29
ACGTcount: A:0.24, C:0.17, G:0.32, T:0.27
Consensus pattern (43 bp):
CTAAAAGTCATGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCG
Found at i:11106957 original size:87 final size:85
Alignment explanation
Indices: 11106853--11107047 Score: 275
Period size: 87 Copynumber: 2.3 Consensus size: 85
11106843 AAAAATGCCA
*
11106853 CTAAAAGTCGA-GGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGGCTTTTAGC
1 CTAAAAGTC-ACGGCTTTTAGCGGCGTTTGTGGGAAAAGAGCCGCTAAAAGTCATGGC-TTTAGC
* *
11106917 GGCGTTTGTGGTAAAAAGGGCTG
64 GGCGTTTGTGG-AAAAAGCGCCG
* * *
11106940 CTAAAGGTCATGGCTTTTAGCGGCGTTTGTGGGAAAAGAGCCGCTAAAAGTCATGGCTTTAGTGG
1 CTAAAAGTCACGGCTTTTAGCGGCGTTTGTGGGAAAAGAGCCGCTAAAAGTCATGGCTTTAGCGG
* *
11107005 CGTTTTTGGGAAAAGCGCCG
66 CGTTTGTGGAAAAAGCGCCG
*
11107025 CTAAAAGTCACGTCTTTTAGCGG
1 CTAAAAGTCACGGCTTTTAGCGG
11107048 TGCTTTTTCT
Statistics
Matches: 97, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
85 28 0.29
86 16 0.16
87 53 0.55
ACGTcount: A:0.24, C:0.17, G:0.32, T:0.27
Consensus pattern (85 bp):
CTAAAAGTCACGGCTTTTAGCGGCGTTTGTGGGAAAAGAGCCGCTAAAAGTCATGGCTTTAGCGG
CGTTTGTGGAAAAAGCGCCG
Found at i:11107200 original size:32 final size:31
Alignment explanation
Indices: 11107123--11107202 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 31
11107113 CTTCCTGCAT
* * *
11107123 TAAAATCCAACCAAATACAACAAATATAGTA
1 TAAAATACAACCAAAAACAACAAATATAGCA
* * * *
11107154 TAAAATGCAGCCAAAAACAGCAAATTTAGCA
1 TAAAATACAACCAAAAACAACAAATATAGCA
11107185 TAAAAATACAACCAAAAA
1 T-AAAATACAACCAAAAA
11107203 ATTAATTCTA
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
31 26 0.65
32 14 0.35
ACGTcount: A:0.59, C:0.19, G:0.06, T:0.16
Consensus pattern (31 bp):
TAAAATACAACCAAAAACAACAAATATAGCA
Found at i:11107958 original size:46 final size:46
Alignment explanation
Indices: 11107905--11107999 Score: 181
Period size: 46 Copynumber: 2.1 Consensus size: 46
11107895 TGATGAATTG
11107905 AATTAAACAATTATAATTAAAGATTATAAATATTTAGAATAAATCA
1 AATTAAACAATTATAATTAAAGATTATAAATATTTAGAATAAATCA
*
11107951 AATTAAACAATTATCATTAAAGATTATAAATATTTAGAATAAATCA
1 AATTAAACAATTATAATTAAAGATTATAAATATTTAGAATAAATCA
11107997 AAT
1 AAT
11108000 ATTATTAAGT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.56, C:0.05, G:0.04, T:0.35
Consensus pattern (46 bp):
AATTAAACAATTATAATTAAAGATTATAAATATTTAGAATAAATCA
Found at i:11113141 original size:9 final size:9
Alignment explanation
Indices: 11113129--11113187 Score: 82
Period size: 9 Copynumber: 6.6 Consensus size: 9
11113119 TCCGTAAGTT
*
11113129 GTTATGTAC
1 GTTATGTAA
*
11113138 GTTATGTGA
1 GTTATGTAA
11113147 GTTATGTAA
1 GTTATGTAA
*
11113156 ATTATGTAA
1 GTTATGTAA
*
11113165 GTTATGTGA
1 GTTATGTAA
11113174 GTTATGTAA
1 GTTATGTAA
11113183 GTTAT
1 GTTAT
11113188 TTTTTAAGAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 43 1.00
ACGTcount: A:0.29, C:0.02, G:0.24, T:0.46
Consensus pattern (9 bp):
GTTATGTAA
Found at i:11113161 original size:27 final size:27
Alignment explanation
Indices: 11113130--11113187 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
11113120 CCGTAAGTTG
*
11113130 TTATGTACGTTATGTGAGTTATGTAAA
1 TTATGTAAGTTATGTGAGTTATGTAAA
*
11113157 TTATGTAAGTTATGTGAGTTATGTAAG
1 TTATGTAAGTTATGTGAGTTATGTAAA
11113184 TTAT
1 TTAT
11113188 TTTTTAAGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.29, C:0.02, G:0.22, T:0.47
Consensus pattern (27 bp):
TTATGTAAGTTATGTGAGTTATGTAAA
Found at i:11113685 original size:33 final size:33
Alignment explanation
Indices: 11113643--11113709 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
11113633 ATTCATACTT
*
11113643 AAGAACATACGCATTGGAACCAGTAGCAATGAG
1 AAGAACATACGCATTGGAACCAGTAGCAAAGAG
*
11113676 AAGAACATACGCATTGGAACTAGTAGCAAAGAG
1 AAGAACATACGCATTGGAACCAGTAGCAAAGAG
11113709 A
1 A
11113710 TCCAAAGGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.45, C:0.16, G:0.24, T:0.15
Consensus pattern (33 bp):
AAGAACATACGCATTGGAACCAGTAGCAAAGAG
Found at i:11116936 original size:39 final size:40
Alignment explanation
Indices: 11116865--11116974 Score: 161
Period size: 39 Copynumber: 2.8 Consensus size: 40
11116855 TAAATTACTT
*
11116865 TTTTGCGGCATTTTTATCATAAATGCCGCTATTGCTTGCC
1 TTTTGCGGCGTTTTTATCATAAATGCCGCTATTGCTTGCC
* *
11116905 TTTTGCAGCGTTTTTAT-ATAAACT-CCGCTATTTCTTGCC
1 TTTTGCGGCGTTTTTATCATAAA-TGCCGCTATTGCTTGCC
*
11116944 TTTTGCGGCGTTTTTATCATAAAAGCCGCTA
1 TTTTGCGGCGTTTTTATCATAAATGCCGCTA
11116975 ATGTTTGACT
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
39 35 0.56
40 27 0.44
ACGTcount: A:0.19, C:0.22, G:0.16, T:0.43
Consensus pattern (40 bp):
TTTTGCGGCGTTTTTATCATAAATGCCGCTATTGCTTGCC
Found at i:11116987 original size:40 final size:40
Alignment explanation
Indices: 11116865--11116987 Score: 142
Period size: 40 Copynumber: 3.1 Consensus size: 40
11116855 TAAATTACTT
* * * *
11116865 TTTTGCGGCATTTTTATCATAAATGCCGCTATTGCTTGCC
1 TTTTGCGGCGTTTTTATCATAAAAGCCGCTAATGTTTGCC
* ** *
11116905 TTTTGCAGCGTTTTTAT-ATAAACTCCGCT-ATTTCTTGCC
1 TTTTGCGGCGTTTTTATCATAAAAGCCGCTAATGT-TTGCC
*
11116944 TTTTGCGGCGTTTTTATCATAAAAGCCGCTAATGTTTGAC
1 TTTTGCGGCGTTTTTATCATAAAAGCCGCTAATGTTTGCC
11116984 TTTT
1 TTTT
11116988 TTATAATTTT
Statistics
Matches: 68, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
38 1 0.01
39 31 0.46
40 33 0.49
41 3 0.04
ACGTcount: A:0.19, C:0.20, G:0.16, T:0.45
Consensus pattern (40 bp):
TTTTGCGGCGTTTTTATCATAAAAGCCGCTAATGTTTGCC
Found at i:11117013 original size:22 final size:20
Alignment explanation
Indices: 11116986--11117042 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 20
11116976 TGTTTGACTT
11116986 TTTTATAATTTTTATATTGAA
1 TTTTATAATTTTTATATT-AA
11117007 TTATTAT-ATCTTTTATATTAA
1 TT-TTATAAT-TTTTATATTAA
11117028 TTTTAAATAATTTTT
1 TTTT--ATAATTTTT
11117043 TTAAAAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
20 2 0.06
21 8 0.26
22 19 0.61
23 2 0.06
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (20 bp):
TTTTATAATTTTTATATTAA
Found at i:11117425 original size:14 final size:14
Alignment explanation
Indices: 11117402--11117452 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
11117392 ATAACCCTTA
*
11117402 AACCCATAACCCAT
1 AACCCCTAACCCAT
11117416 AACCCCTAACCCAT
1 AACCCCTAACCCAT
* *
11117430 ACCCCCTAACCCCT
1 AACCCCTAACCCAT
*
11117444 AACACCTAA
1 AACCCCTAA
11117453 ACCTTAAACC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.37, C:0.49, G:0.00, T:0.14
Consensus pattern (14 bp):
AACCCCTAACCCAT
Found at i:11117428 original size:21 final size:21
Alignment explanation
Indices: 11117391--11117446 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
11117381 AATCATACAA
*
11117391 CATAACCCTTAAACCCATAACC
1 CATAACCCCT-AACCCATAACC
*
11117413 CATAACCCCTAACCCATACCC
1 CATAACCCCTAACCCATAACC
*
11117434 CCTAACCCCTAAC
1 CATAACCCCTAAC
11117447 ACCTAAACCT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
21 22 0.71
22 9 0.29
ACGTcount: A:0.36, C:0.48, G:0.00, T:0.16
Consensus pattern (21 bp):
CATAACCCCTAACCCATAACC
Found at i:11117464 original size:21 final size:21
Alignment explanation
Indices: 11117402--11117482 Score: 54
Period size: 21 Copynumber: 3.9 Consensus size: 21
11117392 ATAACCCTTA
* * *
11117402 AACCCATAACCCATAACCCCT
1 AACCCTTAAACCATAAACCCT
* ** * *
11117423 AACCCATACCCCCTAACCCCT
1 AACCCTTAAACCATAAACCCT
* * *
11117444 AACACCTAAACCTTAAACCCT
1 AACCCTTAAACCATAAACCCT
*
11117465 AGCCCTTAAACCATAAAC
1 AACCCTTAAACCATAAAC
11117483 TATAAACCAT
Statistics
Matches: 48, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 48 1.00
ACGTcount: A:0.38, C:0.44, G:0.01, T:0.16
Consensus pattern (21 bp):
AACCCTTAAACCATAAACCCT
Found at i:11117465 original size:14 final size:14
Alignment explanation
Indices: 11117450--11117531 Score: 58
Period size: 14 Copynumber: 5.8 Consensus size: 14
11117440 CCCTAACACC
*
11117450 TAAACCTTAAACCC
1 TAAACCTTAAACCA
**
11117464 TAGCCCTTAAACCA
1 TAAACCTTAAACCA
11117478 TAAA-CTATAAACCA
1 TAAACCT-TAAACCA
* *
11117492 TAATCCATAAACCTA
1 TAAACCTTAAACC-A
* * *
11117507 TAATCCATAATCCA
1 TAAACCTTAAACCA
*
11117521 TGAACCTTAAA
1 TAAACCTTAAA
11117532 ATAGTAACTC
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
13 2 0.04
14 37 0.70
15 14 0.26
ACGTcount: A:0.45, C:0.28, G:0.02, T:0.24
Consensus pattern (14 bp):
TAAACCTTAAACCA
Found at i:11117481 original size:7 final size:7
Alignment explanation
Indices: 11117471--11117531 Score: 59
Period size: 7 Copynumber: 8.6 Consensus size: 7
11117461 CCCTAGCCCT
11117471 TAAACCA
1 TAAACCA
*
11117478 TAAACTA
1 TAAACCA
11117485 TAAACCA
1 TAAACCA
*
11117492 TAATCCA
1 TAAACCA
11117499 TAAACCTA
1 TAAACC-A
*
11117507 TAATCCA
1 TAAACCA
*
11117514 TAATCCA
1 TAAACCA
* *
11117521 TGAACCT
1 TAAACCA
11117528 TAAA
1 TAAA
11117532 ATAGTAACTC
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
7 38 0.86
8 6 0.14
ACGTcount: A:0.49, C:0.25, G:0.02, T:0.25
Consensus pattern (7 bp):
TAAACCA
Found at i:11117511 original size:15 final size:14
Alignment explanation
Indices: 11117471--11117521 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
11117461 CCCTAGCCCT
* *
11117471 TAAACCATAAACTA
1 TAAACCATAATCCA
11117485 TAAACCATAATCCA
1 TAAACCATAATCCA
11117499 TAAACCTATAATCCA
1 TAAACC-ATAATCCA
*
11117514 TAATCCAT
1 TAAACCAT
11117522 GAACCTTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
14 20 0.61
15 13 0.39
ACGTcount: A:0.49, C:0.25, G:0.00, T:0.25
Consensus pattern (14 bp):
TAAACCATAATCCA
Found at i:11117514 original size:22 final size:22
Alignment explanation
Indices: 11117475--11117531 Score: 82
Period size: 22 Copynumber: 2.7 Consensus size: 22
11117465 AGCCCTTAAA
11117475 CCATAAA-CTATAAACCATAAT
1 CCATAAACCTATAAACCATAAT
*
11117496 CCATAAACCTATAATCCATAAT
1 CCATAAACCTATAAACCATAAT
*
11117518 CCATGAACCT-TAAA
1 CCATAAACCTATAAA
11117532 ATAGTAACTC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
21 10 0.31
22 22 0.69
ACGTcount: A:0.47, C:0.26, G:0.02, T:0.25
Consensus pattern (22 bp):
CCATAAACCTATAAACCATAAT
Found at i:11118556 original size:40 final size:40
Alignment explanation
Indices: 11118447--11118573 Score: 143
Period size: 41 Copynumber: 3.1 Consensus size: 40
11118437 AGTTATATGA
**
11118447 TTTTTAGCGGCGTTTTATCAAAAGCGCCGCTAAAGCTCT-G
1 TTTTTAGCGGCGTTTT-TCAAAAGCGCCGCTATTGCTCTAG
*
11118487 TCTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCT-TAG
1 T-TTTTAGCGGCGTTTT-TCAAAAGCGCCGCTATTGCTCTAG
*
11118528 TTTTTAGCGGCGTTTTTGGTAAAA-CGCCGCTATTGCTCTATG
1 TTTTTAGCGGCGTTTTT--CAAAAGCGCCGCTATTGCTCTA-G
11118570 TTTT
1 TTTT
11118574 ACAATTTTTG
Statistics
Matches: 76, Mismatches: 5, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
40 30 0.39
41 41 0.54
42 5 0.07
ACGTcount: A:0.19, C:0.21, G:0.22, T:0.38
Consensus pattern (40 bp):
TTTTTAGCGGCGTTTTTCAAAAGCGCCGCTATTGCTCTAG
Found at i:11123991 original size:21 final size:21
Alignment explanation
Indices: 11123962--11124012 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
11123952 GTAACTATAT
*
11123962 TAGTTAGTTAGTATTTTGTTA
1 TAGTCAGTTAGTATTTTGTTA
11123983 TAGTCAGTTAGTATTTTGTTA
1 TAGTCAGTTAGTATTTTGTTA
11124004 TAGTCAGTT
1 TAGTCAGTT
11124013 GCTAATCTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.24, C:0.04, G:0.20, T:0.53
Consensus pattern (21 bp):
TAGTCAGTTAGTATTTTGTTA
Found at i:11124023 original size:21 final size:21
Alignment explanation
Indices: 11123962--11124026 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
11123952 GTAACTATAT
* * *
11123962 TAGTTAGTTAGTATTTTGTTA
1 TAGTCAGTTAGTAATCTGTTA
* *
11123983 TAGTCAGTTAGTATTTTGTTA
1 TAGTCAGTTAGTAATCTGTTA
11124004 TAGTCAGTT-GCTAATCTGTTA
1 TAGTCAGTTAG-TAATCTGTTA
11124025 TA
1 TA
11124027 AAGCATACTG
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 1 0.03
21 39 0.98
ACGTcount: A:0.25, C:0.06, G:0.18, T:0.51
Consensus pattern (21 bp):
TAGTCAGTTAGTAATCTGTTA
Found at i:11124325 original size:25 final size:28
Alignment explanation
Indices: 11124265--11124328 Score: 71
Period size: 25 Copynumber: 2.4 Consensus size: 28
11124255 TAACATTCTA
*
11124265 CTGTTGCTTTCTTGCTTTTAAGAATTAGT
1 CTGTTGC-TTCTTGATTTTAAGAATTAGT
* *
11124294 CTTTTGCTTC-TGATTTTAATAA-T-GT
1 CTGTTGCTTCTTGATTTTAAGAATTAGT
11124319 CTGTTGCTTC
1 CTGTTGCTTC
11124329 ACCAAGGGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
25 11 0.35
26 1 0.03
27 10 0.32
28 3 0.10
29 6 0.19
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.53
Consensus pattern (28 bp):
CTGTTGCTTCTTGATTTTAAGAATTAGT
Found at i:11128536 original size:13 final size:13
Alignment explanation
Indices: 11128518--11128544 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
11128508 ACAAATCACA
11128518 AGAATTAATGCAC
1 AGAATTAATGCAC
11128531 AGAATTAATGCAC
1 AGAATTAATGCAC
11128544 A
1 A
11128545 AGCTAACTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.15, G:0.15, T:0.22
Consensus pattern (13 bp):
AGAATTAATGCAC
Found at i:11130374 original size:17 final size:18
Alignment explanation
Indices: 11130354--11130387 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
11130344 GTTTGAGTTT
11130354 TATTTACTTT-TTTTTAA
1 TATTTACTTTATTTTTAA
*
11130371 TATTTGCTTTATTTTTA
1 TATTTACTTTATTTTTA
11130388 TTTTTTTGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.21, C:0.06, G:0.03, T:0.71
Consensus pattern (18 bp):
TATTTACTTTATTTTTAA
Found at i:11135134 original size:8 final size:8
Alignment explanation
Indices: 11135116--11135160 Score: 54
Period size: 8 Copynumber: 5.4 Consensus size: 8
11135106 ATTATATACT
*
11135116 TTATTTTA
1 TTATTATA
*
11135124 TTATTACA
1 TTATTATA
11135132 TTACATTATA
1 TT--ATTATA
11135142 TTATTATA
1 TTATTATA
11135150 TTATTATA
1 TTATTATA
11135158 TTA
1 TTA
11135161 ATTTCTTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
8 25 0.78
10 7 0.22
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (8 bp):
TTATTATA
Found at i:11142290 original size:13 final size:13
Alignment explanation
Indices: 11142272--11142301 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
11142262 CTGGTACTAC
11142272 ATTAGGTACGGAA
1 ATTAGGTACGGAA
11142285 ATTAGGTACGGAA
1 ATTAGGTACGGAA
11142298 ATTA
1 ATTA
11142302 AACAACTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.07, G:0.27, T:0.27
Consensus pattern (13 bp):
ATTAGGTACGGAA
Found at i:11142475 original size:16 final size:16
Alignment explanation
Indices: 11142422--11142487 Score: 62
Period size: 16 Copynumber: 3.8 Consensus size: 16
11142412 ATCTCTTTTA
11142422 TATTTTATTATATACTT
1 TATTTTATTAT-TACTT
11142439 TATTTTATTATTACTTCACTT
1 TA--TT-TTATTA-TT-ACTT
11142460 TATTTTATTATTACTT
1 TATTTTATTATTACTT
*
11142476 TATATTA-TATTA
1 TATTTTATTATTA
11142488 ATTTCTTAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
15 5 0.12
16 10 0.23
17 4 0.09
18 6 0.14
19 4 0.09
20 7 0.16
21 7 0.16
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.64
Consensus pattern (16 bp):
TATTTTATTATTACTT
Found at i:11142483 original size:21 final size:21
Alignment explanation
Indices: 11142435--11142475 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
11142425 TTTATTATAT
11142435 ACTTTATTTTATTATTACTTC
1 ACTTTATTTTATTATTACTTC
11142456 ACTTTATTTTATTATTACTT
1 ACTTTATTTTATTATTACTT
11142476 TATATTATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.63
Consensus pattern (21 bp):
ACTTTATTTTATTATTACTTC
Found at i:11147655 original size:21 final size:21
Alignment explanation
Indices: 11147629--11147669 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
11147619 ATCTGCTCAA
* *
11147629 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
11147650 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
11147670 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:11151452 original size:21 final size:22
Alignment explanation
Indices: 11151408--11151461 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
11151398 TCACAAAAAT
*
11151408 AATTTGAAAATGACCCCATAAA
1 AATTTGAAAAGGACCCCATAAA
*
11151430 AATTTGAAAAGGA-TCCATCAAA
1 AATTTGAAAAGGACCCCAT-AAA
*
11151452 ATTTTGAAAA
1 AATTTGAAAA
11151462 AAAGAACTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 4 0.14
22 24 0.86
ACGTcount: A:0.50, C:0.13, G:0.11, T:0.26
Consensus pattern (22 bp):
AATTTGAAAAGGACCCCATAAA
Found at i:11151756 original size:17 final size:18
Alignment explanation
Indices: 11151726--11151759 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
11151716 GACTTAGTTT
*
11151726 TTTTTTATTGAATGATTC
1 TTTTTTATTAAATGATTC
11151744 TTTTTT-TTAAATGATT
1 TTTTTTATTAAATGATT
11151760 TTGAGACTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.24, C:0.03, G:0.09, T:0.65
Consensus pattern (18 bp):
TTTTTTATTAAATGATTC
Found at i:11153089 original size:14 final size:14
Alignment explanation
Indices: 11153070--11153108 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
11153060 CTGAAATGAC
11153070 ATGTTCCAAAAATT
1 ATGTTCCAAAAATT
11153084 ATGTTCCAAAAATT
1 ATGTTCCAAAAATT
*
11153098 ATGTACCAAAA
1 ATGTTCCAAAA
11153109 TGGTACATTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (14 bp):
ATGTTCCAAAAATT
Found at i:11153520 original size:27 final size:27
Alignment explanation
Indices: 11153456--11153540 Score: 82
Period size: 27 Copynumber: 3.1 Consensus size: 27
11153446 GGGGGAAAAA
*
11153456 ACCACTGGTGCCACCTATCAGATAGGC
1 ACCACTGGTGCCGCCTATCAGATAGGC
** * *
11153483 ACCACCAGTGCTGCCTATCAGATAGGG
1 ACCACTGGTGCCGCCTATCAGATAGGC
** *
11153510 GTCACTGGTGCCGCCTAT-GGTATAGGC
1 ACCACTGGTGCCGCCTATCAG-ATAGGC
11153537 ACCA
1 ACCA
11153541 TACCCCTATA
Statistics
Matches: 43, Mismatches: 14, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
26 1 0.02
27 42 0.98
ACGTcount: A:0.24, C:0.31, G:0.26, T:0.20
Consensus pattern (27 bp):
ACCACTGGTGCCGCCTATCAGATAGGC
Found at i:11156833 original size:16 final size:16
Alignment explanation
Indices: 11156800--11156833 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11156790 TGTATGTGTT
* *
11156800 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
11156816 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
11156832 AA
1 AA
11156834 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:11160680 original size:40 final size:40
Alignment explanation
Indices: 11160608--11160782 Score: 244
Period size: 40 Copynumber: 4.4 Consensus size: 40
11160598 CGGATGTAAC
* *
11160608 AACCAGCACGAATGCCTTC-GAGACTTAACCCGGTAATAAT
1 AACCCGCACGAATGCCTTCGGA-ACTTAACCCGGTTATAAT
* * *
11160648 AACTCGCACGAATGCCTTCGGAATTTAGCCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGAACTTAACCCGGTTATAAT
* * *
11160688 AACCCGCACGAATGCCTTTGGGACTTAGCCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGAACTTAACCCGGTTATAAT
* *
11160728 AACCCGCACGAATGCCTTCGGGACTTAACTCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGAACTTAACCCGGTTATAAT
11160768 AACCCGCACGAATGC
1 AACCCGCACGAATGC
11160783 TGTGCACATA
Statistics
Matches: 122, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
40 120 0.98
41 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGAACTTAACCCGGTTATAAT
Found at i:11163187 original size:21 final size:21
Alignment explanation
Indices: 11163161--11163201 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
11163151 AGACGAGCGA
* *
11163161 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
11163182 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
11163202 TTGAGCATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:11165143 original size:16 final size:16
Alignment explanation
Indices: 11165110--11165143 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11165100 GGAGATTGTT
* *
11165110 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
11165126 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
11165142 AA
1 AA
11165144 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:11177893 original size:2 final size:2
Alignment explanation
Indices: 11177886--11177912 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
11177876 TGGTAGGATT
11177886 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
11177913 CACTATTACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11182612 original size:42 final size:42
Alignment explanation
Indices: 11182552--11182661 Score: 150
Period size: 42 Copynumber: 2.6 Consensus size: 42
11182542 CGTTTTCTCA
** * *
11182552 ATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAAT-G
1 ATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-ATCG
* *
11182594 ATGCCATAGCCCAGCTATGGTATTACACATATTCATATATCG
1 ATGCCATAGCCCAGCTATGGTCTTACACATATTCACATATCG
11182636 ATGCCATAGCCCAGCTATGGTCTTAC
1 ATGCCATAGCCCAGCTATGGTCTTAC
11182662 GCGAATCACA
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
41 2 0.03
42 58 0.97
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (42 bp):
ATGCCATAGCCCAGCTATGGTCTTACACATATTCACATATCG
Found at i:11182818 original size:31 final size:32
Alignment explanation
Indices: 11182775--11182892 Score: 154
Period size: 31 Copynumber: 3.8 Consensus size: 32
11182765 CTTGTCACTT
*
11182775 GTAGCC-GAAGCTACCACTATTCACTGATCAG
1 GTAGCCAGAAGCTACCACTTTTCACTGATCAG
* *
11182806 GTAGCCAG-AGCTACCATTTTTCACTAATCAG
1 GTAGCCAGAAGCTACCACTTTTCACTGATCAG
* *
11182837 GTAGCC-GGAGCTACCACTTTTCACTGATCAA
1 GTAGCCAGAAGCTACCACTTTTCACTGATCAG
*
11182868 GTAG-CAGAAGCTACTACTTTTCACT
1 GTAGCCAGAAGCTACCACTTTTCACT
11182893 TGTCATTTGT
Statistics
Matches: 76, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
30 2 0.03
31 73 0.96
32 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (32 bp):
GTAGCCAGAAGCTACCACTTTTCACTGATCAG
Found at i:11182872 original size:62 final size:62
Alignment explanation
Indices: 11182775--11182892 Score: 175
Period size: 62 Copynumber: 1.9 Consensus size: 62
11182765 CTTGTCACTT
* *
11182775 GTAGCCGAAGCTACCACTATTCACTGATCAGGTAGCCAG-AGCTACCATTTTTCACTAATCAG
1 GTAGCCGAAGCTACCACTATTCACTGATCAAGTAG-CAGAAGCTACCACTTTTCACTAATCAG
* * *
11182837 GTAGCCGGAGCTACCACTTTTCACTGATCAAGTAGCAGAAGCTACTACTTTTCACT
1 GTAGCCGAAGCTACCACTATTCACTGATCAAGTAGCAGAAGCTACCACTTTTCACT
11182893 TGTCATTTGT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
61 3 0.06
62 47 0.94
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (62 bp):
GTAGCCGAAGCTACCACTATTCACTGATCAAGTAGCAGAAGCTACCACTTTTCACTAATCAG
Found at i:11182972 original size:50 final size:49
Alignment explanation
Indices: 11182868--11183044 Score: 228
Period size: 50 Copynumber: 3.5 Consensus size: 49
11182858 CACTGATCAA
* * * * *
11182868 GTAGCAGAAGCTACTACTTTTCACTTGTCATTTGTCCCTGATCAGATAGGT
1 GTAGCCGAAGCTTC-ACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
* * *
11182919 GTAGCCGAAGCTGTCACTTATCACTTTCACTTGTCATTGATCAGATAACT
1 GTAGCCGAAGCT-TCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
*
11182969 GTAGCCGAAGCTACTACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTTC-ACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
11183019 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCT-TCACTTATCACTT
11183045 GTTGCCATGG
Statistics
Matches: 110, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 86 0.78
51 22 0.20
52 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.34
Consensus pattern (49 bp):
GTAGCCGAAGCTTCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:11185392 original size:13 final size:14
Alignment explanation
Indices: 11185369--11185408 Score: 64
Period size: 13 Copynumber: 2.9 Consensus size: 14
11185359 GAAGATATTA
11185369 TTTTATTTTATTTAG
1 TTTTA-TTTATTTAG
11185384 TTTTA-TTATTTAG
1 TTTTATTTATTTAG
11185397 TTTTATTTATTT
1 TTTTATTTATTT
11185409 TATTATTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 13 0.54
14 6 0.25
15 5 0.21
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.75
Consensus pattern (14 bp):
TTTTATTTATTTAG
Found at i:11185393 original size:23 final size:23
Alignment explanation
Indices: 11185364--11185419 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
11185354 AAATAGAAGA
11185364 TATTATTTTA-TTTTATTTAGTTT
1 TATTATTTTAGTTTTATTTA-TTT
11185387 TATTA-TTTAGTTTTATTTATTT
1 TATTATTTTAGTTTTATTTATTT
11185409 TATTATTTTAG
1 TATTATTTTAG
11185420 GATTAAGCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
22 12 0.39
23 19 0.61
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.71
Consensus pattern (23 bp):
TATTATTTTAGTTTTATTTATTT
Found at i:11186778 original size:17 final size:17
Alignment explanation
Indices: 11186753--11186786 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
11186743 GTACTTGTGT
11186753 AAAACATTAAAATAATA
1 AAAACATTAAAATAATA
*
11186770 AAAATATTAAAATAATA
1 AAAACATTAAAATAATA
11186787 CTTTAATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (17 bp):
AAAACATTAAAATAATA
Found at i:11198279 original size:5 final size:5
Alignment explanation
Indices: 11198265--11198294 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
11198255 TTAGTTTGCC
*
11198265 TTATT CTATT TTATT TTATT TTATT TTATT
1 TTATT TTATT TTATT TTATT TTATT TTATT
11198295 CTTCTATACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (5 bp):
TTATT
Found at i:11198857 original size:21 final size:20
Alignment explanation
Indices: 11198824--11198867 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
11198814 CCTAGAGGCT
11198824 ATTTTATAGATATGTTT-TGA
1 ATTTTATAGATAT-TTTATGA
*
11198844 ATTTATATATATATTTTATGA
1 ATTT-TATAGATATTTTATGA
11198865 ATT
1 ATT
11198868 AAATCTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (20 bp):
ATTTTATAGATATTTTATGA
Found at i:11198935 original size:10 final size:12
Alignment explanation
Indices: 11198902--11198928 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
11198892 TAACACTTCT
11198902 TTTATTTTAATA
1 TTTATTTTAATA
11198914 TTTATTTTAATA
1 TTTATTTTAATA
11198926 TTT
1 TTT
11198929 TTTAATACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TTTATTTTAATA
Found at i:11199358 original size:18 final size:19
Alignment explanation
Indices: 11199335--11199370 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
11199325 ATAGACTCGT
*
11199335 AATTAAAA-AATTGAAAAA
1 AATTAAAAGAATTCAAAAA
11199353 AATTAAAAGAATTCAAAA
1 AATTAAAAGAATTCAAAA
11199371 TAATAGACCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.69, C:0.03, G:0.06, T:0.22
Consensus pattern (19 bp):
AATTAAAAGAATTCAAAAA
Found at i:11199384 original size:48 final size:47
Alignment explanation
Indices: 11199311--11199405 Score: 172
Period size: 48 Copynumber: 2.0 Consensus size: 47
11199301 AAAGCATTCT
*
11199311 AAGAATTCAAAATAATAGACTCGTAATTAAAAAATTGAAAAAAATTAA
1 AAGAATTCAAAATAATAGACCCGTAATT-AAAAATTGAAAAAAATTAA
11199359 AAGAATTCAAAATAATAGACCCGTAATTAAAAATTGAAAAAAATTAA
1 AAGAATTCAAAATAATAGACCCGTAATTAAAAATTGAAAAAAATTAA
11199406 CTTCGGAAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
47 19 0.41
48 27 0.59
ACGTcount: A:0.60, C:0.07, G:0.08, T:0.24
Consensus pattern (47 bp):
AAGAATTCAAAATAATAGACCCGTAATTAAAAATTGAAAAAAATTAA
Found at i:11199908 original size:18 final size:18
Alignment explanation
Indices: 11199877--11199911 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
11199867 TTTAAAAAAT
11199877 AAAATTAAAGTATTTTAA
1 AAAATTAAAGTATTTTAA
11199895 AAAATATAAA-TATTTTA
1 AAAAT-TAAAGTATTTTA
11199912 TATTATTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (18 bp):
AAAATTAAAGTATTTTAA
Found at i:11204103 original size:21 final size:21
Alignment explanation
Indices: 11204077--11204117 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
11204067 ATCTGCTCAA
* *
11204077 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
11204098 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
11204118 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:11209230 original size:19 final size:20
Alignment explanation
Indices: 11209189--11209236 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
11209179 TATTTAAATA
*
11209189 ATAATTT-TTTAAACTTGTG
1 ATAATTTATTTAAAATTGTG
11209208 -TAATTTATTTAAAATT-TG
1 ATAATTTATTTAAAATTGTG
*
11209226 ATAATGTATTT
1 ATAATTTATTT
11209237 TTTTATTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 8 0.32
19 17 0.68
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.54
Consensus pattern (20 bp):
ATAATTTATTTAAAATTGTG
Found at i:11210061 original size:43 final size:43
Alignment explanation
Indices: 11210000--11210088 Score: 178
Period size: 43 Copynumber: 2.1 Consensus size: 43
11209990 CAATAACAAC
11210000 AAAATGCTATACCAATAACATTAAAACCAGCGGCGAAGCCAGA
1 AAAATGCTATACCAATAACATTAAAACCAGCGGCGAAGCCAGA
11210043 AAAATGCTATACCAATAACATTAAAACCAGCGGCGAAGCCAGA
1 AAAATGCTATACCAATAACATTAAAACCAGCGGCGAAGCCAGA
11210086 AAA
1 AAA
11210089 TCTTTTTAGG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.48, C:0.22, G:0.16, T:0.13
Consensus pattern (43 bp):
AAAATGCTATACCAATAACATTAAAACCAGCGGCGAAGCCAGA
Found at i:11211330 original size:185 final size:185
Alignment explanation
Indices: 11211018--11211387 Score: 740
Period size: 185 Copynumber: 2.0 Consensus size: 185
11211008 GACATTATAC
11211018 TAGAAATAATCTAATTATCATCACATATAATACTAAGAGATCGAGAAGCTTTGGATTCGTTCAAC
1 TAGAAATAATCTAATTATCATCACATATAATACTAAGAGATCGAGAAGCTTTGGATTCGTTCAAC
11211083 TCAAAAGAATGACGATCAAAATGTAGTAGACTCCAAGGCTCACATGGAATGACCTATCCTTTTTC
66 TCAAAAGAATGACGATCAAAATGTAGTAGACTCCAAGGCTCACATGGAATGACCTATCCTTTTTC
11211148 GAAAATGATATTGCAACTATTGCCTTTTGCTTTTCTCTCTCGCTTGAATTTGGTT
131 GAAAATGATATTGCAACTATTGCCTTTTGCTTTTCTCTCTCGCTTGAATTTGGTT
11211203 TAGAAATAATCTAATTATCATCACATATAATACTAAGAGATCGAGAAGCTTTGGATTCGTTCAAC
1 TAGAAATAATCTAATTATCATCACATATAATACTAAGAGATCGAGAAGCTTTGGATTCGTTCAAC
11211268 TCAAAAGAATGACGATCAAAATGTAGTAGACTCCAAGGCTCACATGGAATGACCTATCCTTTTTC
66 TCAAAAGAATGACGATCAAAATGTAGTAGACTCCAAGGCTCACATGGAATGACCTATCCTTTTTC
11211333 GAAAATGATATTGCAACTATTGCCTTTTGCTTTTCTCTCTCGCTTGAATTTGGTT
131 GAAAATGATATTGCAACTATTGCCTTTTGCTTTTCTCTCTCGCTTGAATTTGGTT
11211388 AAGTGTTCAT
Statistics
Matches: 185, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
185 185 1.00
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (185 bp):
TAGAAATAATCTAATTATCATCACATATAATACTAAGAGATCGAGAAGCTTTGGATTCGTTCAAC
TCAAAAGAATGACGATCAAAATGTAGTAGACTCCAAGGCTCACATGGAATGACCTATCCTTTTTC
GAAAATGATATTGCAACTATTGCCTTTTGCTTTTCTCTCTCGCTTGAATTTGGTT
Found at i:11213592 original size:30 final size:30
Alignment explanation
Indices: 11213558--11213615 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
11213548 TTAAATTCTA
*
11213558 AAAGATAAATACA-ATTAAATAAAGATAATT
1 AAAGATAAATA-AGAATAAATAAAGATAATT
*
11213588 AAAGATACATAAGAATAAATAAAGATAA
1 AAAGATAAATAAGAATAAATAAAGATAA
11213616 AAGCTAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.66, C:0.03, G:0.09, T:0.22
Consensus pattern (30 bp):
AAAGATAAATAAGAATAAATAAAGATAATT
Found at i:11213616 original size:10 final size:10
Alignment explanation
Indices: 11213558--11213616 Score: 59
Period size: 10 Copynumber: 5.9 Consensus size: 10
11213548 TTAAATTCTA
11213558 AAAGATAAAT
1 AAAGATAAAT
*
11213568 ACAA-TTAAAT
1 A-AAGATAAAT
*
11213578 AAAGATAATT
1 AAAGATAAAT
*
11213588 AAAGATACAT
1 AAAGATAAAT
11213598 -AAGAATAAAT
1 AAAG-ATAAAT
11213608 AAAGATAAA
1 AAAGATAAA
11213617 AGCTAAAATT
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
9 5 0.13
10 29 0.74
11 5 0.13
ACGTcount: A:0.66, C:0.03, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:11225371 original size:46 final size:45
Alignment explanation
Indices: 11225317--11225580 Score: 325
Period size: 46 Copynumber: 5.8 Consensus size: 45
11225307 AGTGTGCTCT
* **
11225317 CTGATATGAAATGTGTAAGACTATGGTTGAAAGATACCATAACAA
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
*
11225362 CTAGATATGAAATGTTTAAGACCATGGTTGAAAGATACCATGGCAA
1 CT-GATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
11225408 CCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
1 -CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
** *
11225454 CTTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATTGCAA
1 C-TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
* ** *
11225500 CATGACA-GAAAATGAATAAGACCATCGTTGAAAGATACCATGGCAA
1 C-TGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
* * *
11225546 CATGACA-GAAAATGAGTAAGACCATAGTTGAAAGA
1 C-TGATATG-AAATGTGTAAGACCATGGTTGAAAGA
11225581 CACTATGGTA
Statistics
Matches: 201, Mismatches: 14, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
45 4 0.02
46 195 0.97
47 2 0.01
ACGTcount: A:0.42, C:0.14, G:0.21, T:0.23
Consensus pattern (45 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
Found at i:11225566 original size:138 final size:138
Alignment explanation
Indices: 11225318--11225580 Score: 361
Period size: 138 Copynumber: 1.9 Consensus size: 138
11225308 GTGTGCTCTC
** * * **
11225318 TGATATGAAATGTGTAAGACTATGGTTGAAAGATACCATAACAACTAGATATGAAATGTTTAAGA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATAACAACTAGACATGAAATGAATAAGA
* * * * *
11225383 CCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCA
66 CCATCGTTGAAAGATACCATGGCAACATGACATGAAATGAGTAAGACCATAGTTGAAAGATACCA
11225448 TGGCAACT
131 TGGCAACT
**
11225456 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATTGCAAC-ATGACA-GAAAATGAATAA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATAACAACTA-GACATG-AAATGAATAA
11225519 GACCATCGTTGAAAGATACCATGGCAACATGACA-GAAAATGAGTAAGACCATAGTTGAAAGA
64 GACCATCGTTGAAAGATACCATGGCAACATGACATG-AAATGAGTAAGACCATAGTTGAAAGA
11225581 CACTATGGTA
Statistics
Matches: 109, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
137 3 0.03
138 106 0.97
ACGTcount: A:0.42, C:0.13, G:0.21, T:0.23
Consensus pattern (138 bp):
TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATAACAACTAGACATGAAATGAATAAGA
CCATCGTTGAAAGATACCATGGCAACATGACATGAAATGAGTAAGACCATAGTTGAAAGATACCA
TGGCAACT
Found at i:11225897 original size:16 final size:17
Alignment explanation
Indices: 11225876--11225907 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
11225866 ATGATGGTGC
11225876 ATGAAAT-ATTGATATA
1 ATGAAATAATTGATATA
11225892 ATGAAATAATTGATAT
1 ATGAAATAATTGATAT
11225908 GTACTTATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (17 bp):
ATGAAATAATTGATATA
Found at i:11228062 original size:13 final size:13
Alignment explanation
Indices: 11228044--11228070 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
11228034 GAAGTAATCG
11228044 CACACGGGCGTGT
1 CACACGGGCGTGT
11228057 CACACGGGCGTGT
1 CACACGGGCGTGT
11228070 C
1 C
11228071 CCTGCCGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:11229358 original size:14 final size:14
Alignment explanation
Indices: 11229339--11229367 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
11229329 TTAATGTCAA
11229339 AAAATTTGGTTTCG
1 AAAATTTGGTTTCG
11229353 AAAATTTGGTTTCG
1 AAAATTTGGTTTCG
11229367 A
1 A
11229368 GGAAAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.31, C:0.07, G:0.21, T:0.41
Consensus pattern (14 bp):
AAAATTTGGTTTCG
Found at i:11231002 original size:26 final size:26
Alignment explanation
Indices: 11230972--11231043 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 26
11230962 TAAACCAAAA
* *
11230972 TTTTCAAAAGCACTTCTTAAAAGTAT
1 TTTTCAAAAGCACTTCTCAAAAGTAC
*
11230998 TTTTCCACAA-CACTTCTCAAAAGTAC
1 TTTT-CAAAAGCACTTCTCAAAAGTAC
*
11231024 TTTTCAAAAGCA-TTGTCAAA
1 TTTTCAAAAGCACTTCTCAAA
11231044 CTAGCCCTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
25 11 0.28
26 24 0.62
27 4 0.10
ACGTcount: A:0.38, C:0.21, G:0.07, T:0.35
Consensus pattern (26 bp):
TTTTCAAAAGCACTTCTCAAAAGTAC
Found at i:11231030 original size:13 final size:13
Alignment explanation
Indices: 11230972--11231035 Score: 51
Period size: 13 Copynumber: 4.9 Consensus size: 13
11230962 TAAACCAAAA
11230972 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
* *
11230985 TTCTT-AAAAGTAT
1 TT-TTCAAAAGCAC
*
11230998 TTTTCCACAA-CAC
1 TTTT-CAAAAGCAC
* *
11231011 TTCTCAAAAGTAC
1 TTTTCAAAAGCAC
11231024 TTTTCAAAAGCA
1 TTTTCAAAAGCA
11231036 TTGTCAAACT
Statistics
Matches: 37, Mismatches: 10, Indels: 8
0.67 0.18 0.15
Matches are distributed among these distances:
12 6 0.16
13 26 0.70
14 5 0.14
ACGTcount: A:0.38, C:0.22, G:0.06, T:0.34
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:11241605 original size:11 final size:12
Alignment explanation
Indices: 11241584--11241621 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
11241574 TTTGAAACAT
11241584 TATATAAAATAA
1 TATATAAAATAA
11241596 TATA-AAAATAA
1 TATATAAAATAA
*
11241607 TATTTAATAATAA
1 TATATAA-AATAA
11241620 TA
1 TA
11241622 AAAGTACTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
11 10 0.43
12 6 0.26
13 7 0.30
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
TATATAAAATAA
Found at i:11243981 original size:55 final size:55
Alignment explanation
Indices: 11243915--11244025 Score: 222
Period size: 55 Copynumber: 2.0 Consensus size: 55
11243905 ATTTTTAAGA
11243915 ATTAAGATTAAATTGATAGAATGTATAAAAGTTAAATGTTAGATTTATTGAACTT
1 ATTAAGATTAAATTGATAGAATGTATAAAAGTTAAATGTTAGATTTATTGAACTT
11243970 ATTAAGATTAAATTGATAGAATGTATAAAAGTTAAATGTTAGATTTATTGAACTT
1 ATTAAGATTAAATTGATAGAATGTATAAAAGTTAAATGTTAGATTTATTGAACTT
11244025 A
1 A
11244026 CTTTAAAATC
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.44, C:0.02, G:0.14, T:0.40
Consensus pattern (55 bp):
ATTAAGATTAAATTGATAGAATGTATAAAAGTTAAATGTTAGATTTATTGAACTT
Found at i:11246703 original size:60 final size:60
Alignment explanation
Indices: 11246624--11246748 Score: 155
Period size: 60 Copynumber: 2.1 Consensus size: 60
11246614 TTTTCTTTTA
* * * * *
11246624 AATTTTTAGAATTAGAACTAAATTAACATATTTTGTAAATGTTGAA-ACTTAAATTTATTG
1 AATTTATAGAATTAGAACTAAAATAACAAATTTTGTAAATATTAAAGAC-TAAATTTATTG
* *
11246684 AATTTATAGAATTCA-AACTAAAATAATAAATTTTGTAAATATTAAAGACTAAATTTGTTG
1 AATTTATAGAATT-AGAACTAAAATAACAAATTTTGTAAATATTAAAGACTAAATTTATTG
11246744 AATTT
1 AATTT
11246749 TTTTATTAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
60 53 0.95
61 3 0.05
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.42
Consensus pattern (60 bp):
AATTTATAGAATTAGAACTAAAATAACAAATTTTGTAAATATTAAAGACTAAATTTATTG
Found at i:11247471 original size:14 final size:15
Alignment explanation
Indices: 11247452--11247481 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
11247442 GACCCATAAA
11247452 CCTTGAA-CCCAAAC
1 CCTTGAAGCCCAAAC
11247466 CCTTGAAGCCCAAAC
1 CCTTGAAGCCCAAAC
11247481 C
1 C
11247482 TGAACCTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.33, C:0.43, G:0.10, T:0.13
Consensus pattern (15 bp):
CCTTGAAGCCCAAAC
Found at i:11247485 original size:13 final size:13
Alignment explanation
Indices: 11247449--11247487 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
11247439 TCCGACCCAT
11247449 AAACCTTGAACCC
1 AAACCTTGAACCC
11247462 AAACCCTTGAAGCCC
1 AAA-CCTTGAA-CCC
11247477 AAACC-TGAACC
1 AAACCTTGAACC
11247488 TTGAACCCCG
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 2 0.08
13 7 0.29
14 9 0.38
15 6 0.25
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.13
Consensus pattern (13 bp):
AAACCTTGAACCC
Found at i:11248909 original size:25 final size:23
Alignment explanation
Indices: 11248864--11248913 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 23
11248854 CAAGAAGACA
11248864 AAAAACAATAGCAAACAACAAAG
1 AAAAACAATAGCAAACAACAAAG
11248887 AAAAACAATGAAG-AAACAGACAAAG
1 AAAAACAAT--AGCAAACA-ACAAAG
11248912 AA
1 AA
11248914 TAGAAACAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
23 9 0.38
24 5 0.21
25 10 0.42
ACGTcount: A:0.70, C:0.14, G:0.12, T:0.04
Consensus pattern (23 bp):
AAAAACAATAGCAAACAACAAAG
Found at i:11249870 original size:27 final size:26
Alignment explanation
Indices: 11249822--11249873 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
11249812 ACGTCTTATG
11249822 TATTTTAAATTATTATAAATTTTAAA
1 TATTTTAAATTATTATAAATTTTAAA
* **
11249848 TATTTTACATATATTATTTATTTTAA
1 TATTTTAAAT-TATTATAAATTTTAA
11249874 CTACTATACA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 9 0.41
27 13 0.59
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (26 bp):
TATTTTAAATTATTATAAATTTTAAA
Found at i:11250185 original size:27 final size:27
Alignment explanation
Indices: 11250128--11250201 Score: 71
Period size: 25 Copynumber: 2.7 Consensus size: 27
11250118 TTTAAATTTC
* * **
11250128 TCTTTTACATATTAT-TTTATTTCAAA
1 TCTTTTATATATTTTATTTATGCCAAA
11250154 T-TTTTATATATTTTATTTATGCCAAA
1 TCTTTTATATATTTTATTTATGCCAAA
11250180 TCTTTTTCATATATTGTTATTT
1 TC-TTTT-ATATATT-TTATTT
11250202 TGAACCATTC
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
25 11 0.28
26 11 0.28
28 4 0.10
29 7 0.18
30 6 0.15
ACGTcount: A:0.27, C:0.09, G:0.03, T:0.61
Consensus pattern (27 bp):
TCTTTTATATATTTTATTTATGCCAAA
Found at i:11264824 original size:46 final size:47
Alignment explanation
Indices: 11264677--11264935 Score: 191
Period size: 46 Copynumber: 5.6 Consensus size: 47
11264667 TTATTTGTGT
** *
11264677 GCCAGTGTAAGA-CATGTCTGGGACATGCATCGGCC-ACATTATG-AGA
1 GCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCTTGA-GATGTA-A
* *** * *
11264723 GCCAGTGTAAGACCATATCTGGGGTGTGGCATCGGCATTGAAATG-AGA
1 GCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTTGAGATGTA-A
* * *
11264771 GCTAGTGTAAGA-CATGTCTGGGACATGCATCAGCCTCGAGATGTAA
1 GCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCTTGAGATGTAA
* * *
11264817 GCCAGTGTGAGA-CATGTTTGGGACATGCATTGG-CTATGAGATGT--
1 GCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCT-TGAGATGTAA
* * *
11264861 GTCAGTGTAAGACCATGTCTGGGACATGGCAT-TGACTTGATGCATGT--
1 GCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTTGA-G-ATGTAA
*
11264908 GCCAATGTAAGACCATGTCTGGGACATG
1 GCCAGTGTAAGACCATGTCTGGGACATG
11264936 GAATCGGCAT
Statistics
Matches: 174, Mismatches: 29, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
44 10 0.06
45 19 0.11
46 69 0.40
47 50 0.29
48 25 0.14
49 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (47 bp):
GCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCTTGAGATGTAA
Found at i:11266178 original size:14 final size:15
Alignment explanation
Indices: 11266154--11266188 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
11266144 TATATATATT
11266154 ACCATATAAATACTA
1 ACCATATAAATACTA
11266169 ACCATA-AAATACTA
1 ACCATATAAATACTA
11266183 ATCCAT
1 A-CCAT
11266189 GATTAAAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (15 bp):
ACCATATAAATACTA
Found at i:11266885 original size:41 final size:41
Alignment explanation
Indices: 11266854--11267135 Score: 361
Period size: 41 Copynumber: 6.9 Consensus size: 41
11266844 CTATATAAAA
* * * * * *
11266854 CACCGGCATAAAGCCTGCTAGGCACAAAGCCCG-ATTCATTT
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAAAT-AATC
* * * * *
11266895 CACCGGCA-CAAAGCCTGCTAGACATAAAGTCGGAATTAATT
1 CACCGGCATC-AAGCCTGCTAGGCATAAAGCCTGAAATAATC
* * * *
11266936 CACCGGCATCAAGCCTGCTAGACATAAAGTCTAAAATAATT
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAAATAATC
*
11266977 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATC
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAAATAATC
*
11267018 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATC
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAAATAATC
*
11267059 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATC
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAAATAATC
*
11267100 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAA
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAAA
11267136 ATCTCATATA
Statistics
Matches: 224, Mismatches: 14, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
41 220 0.98
42 4 0.02
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.20
Consensus pattern (41 bp):
CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAAATAATC
Found at i:11267368 original size:64 final size:63
Alignment explanation
Indices: 11267250--11267430 Score: 262
Period size: 64 Copynumber: 2.9 Consensus size: 63
11267240 GCAAACAAAC
*
11267250 ATTCGAACCACATATGT-AT-AATTTACA-ACATTAAAATTCAGCTCAAAGAA-TTTGTAACCTA
1 ATTCGAACCACATATGTAATAAAATT-CATACATT-AAATTCAGCTC-AAGAACTTTGTAACCTA
11267311 T
63 T
11267312 ATTCGAACCACATATGTAAGTAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTAT
1 ATTCGAACCACATATGTAA-TAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTAT
* *
11267376 ATTTGAACCACATATGTATATAAAATTCATACATTAAATACAGCTCAAGAACTTT
1 ATTCGAACCACATATGTA-ATAAAATTCATACATTAAATTCAGCTCAAGAACTTT
11267431 AAATATATAT
Statistics
Matches: 110, Mismatches: 3, Indels: 10
0.89 0.02 0.08
Matches are distributed among these distances:
62 17 0.15
63 6 0.05
64 77 0.70
65 10 0.09
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (63 bp):
ATTCGAACCACATATGTAATAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTAT
Found at i:11273152 original size:14 final size:15
Alignment explanation
Indices: 11273128--11273162 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
11273118 TATATATATT
11273128 ACCATATAAATACTA
1 ACCATATAAATACTA
11273143 ACCATA-AAATACTA
1 ACCATATAAATACTA
11273157 ATCCAT
1 A-CCAT
11273163 GATTAAAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (15 bp):
ACCATATAAATACTA
Found at i:11273861 original size:41 final size:41
Alignment explanation
Indices: 11273830--11274070 Score: 297
Period size: 41 Copynumber: 5.9 Consensus size: 41
11273820 CTATATAAAA
* * * * *
11273830 CACCGGCATAAAGCCTGCTAGGCACAAAGCCCG-ATTCATTT
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAAAT-AATT
* * * *
11273871 CACCGGCA-CAAAGCCTGCTAGACATAAAGTCGGAATTAATT
1 CACCGGCATC-AAGCCTGCTAGGCATAAAGCCTGAAATAATT
* * *
11273912 CACCGGCATCAAGCCTGCTAGACATAAAGTCTAAAATAATT
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAAATAATT
* *
11273953 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATC
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAAATAATT
* *
11273994 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATC
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAAATAATT
*
11274035 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAA
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAAA
11274071 ATCTCATATA
Statistics
Matches: 183, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
41 179 0.98
42 4 0.02
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.20
Consensus pattern (41 bp):
CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAAATAATT
Found at i:11274303 original size:64 final size:63
Alignment explanation
Indices: 11274185--11274365 Score: 262
Period size: 64 Copynumber: 2.9 Consensus size: 63
11274175 GCAAACAAAC
*
11274185 ATTCGAACCACATATGT-AT-AATTTACA-ACATTAAAATTCAGCTCAAAGAA-TTTGTAACCTA
1 ATTCGAACCACATATGTAATAAAATT-CATACATT-AAATTCAGCTC-AAGAACTTTGTAACCTA
11274246 T
63 T
11274247 ATTCGAACCACATATGTAAGTAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTAT
1 ATTCGAACCACATATGTAA-TAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTAT
* *
11274311 ATTTGAACCACATATGTATATAAAATTCATACATTAAATACAGCTCAAGAACTTT
1 ATTCGAACCACATATGTA-ATAAAATTCATACATTAAATTCAGCTCAAGAACTTT
11274366 AAATATATAT
Statistics
Matches: 110, Mismatches: 3, Indels: 10
0.89 0.02 0.08
Matches are distributed among these distances:
62 17 0.15
63 6 0.05
64 77 0.70
65 10 0.09
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (63 bp):
ATTCGAACCACATATGTAATAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTAT
Found at i:11277753 original size:12 final size:13
Alignment explanation
Indices: 11277727--11277782 Score: 53
Period size: 13 Copynumber: 4.2 Consensus size: 13
11277717 AAGTTTTGTT
11277727 TTTATCTTTATTTTA
1 TTTAT-TTTA-TTTA
11277742 TTTA-TTTATTTA
1 TTTATTTTATTTA
*
11277754 TTTATTTTACTTA
1 TTTATTTTATTTA
*
11277767 TTT-TTATTATTAA
1 TTTATT-TTATTTA
11277780 TTT
1 TTT
11277783 TAAAAAATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
12 10 0.28
13 22 0.61
15 4 0.11
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.73
Consensus pattern (13 bp):
TTTATTTTATTTA
Found at i:11277814 original size:45 final size:47
Alignment explanation
Indices: 11277764--11277869 Score: 118
Period size: 46 Copynumber: 2.4 Consensus size: 47
11277754 TTTATTTTAC
*
11277764 TTATTTTTATTAT-TA-ATTTTAAAAAATTTAAA-ATGAATATTTGAAA
1 TTATTTTTATAATATATATTTTAAAAAATTTAAATAT-AAT-TTTGAAA
* *
11277810 -TA-TTTTATAATATATATTTTTAAAATTTTAAATATAATTTTGAAA
1 TTATTTTTATAATATATATTTTAAAAAATTTAAATATAATTTTGAAA
11277855 TTATTTTT-TAA-ATAT
1 TTATTTTTATAATATAT
11277870 TAAATATATA
Statistics
Matches: 52, Mismatches: 3, Indels: 11
0.79 0.05 0.17
Matches are distributed among these distances:
44 8 0.15
45 15 0.29
46 23 0.44
47 6 0.12
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (47 bp):
TTATTTTTATAATATATATTTTAAAAAATTTAAATATAATTTTGAAA
Found at i:11277860 original size:23 final size:22
Alignment explanation
Indices: 11277777--11277861 Score: 77
Period size: 23 Copynumber: 3.8 Consensus size: 22
11277767 TTTTTATTAT
* *
11277777 TAATTTT-AAAAAATTTAAA-A
1 TAATTTTGAAATATTTTAAATA
11277797 TGAATATTTGAAATATTTTATAATA
1 T-AAT-TTTGAAATATTTTA-AATA
*
11277822 TATATTTTTAAA-ATTTTAAATA
1 TA-ATTTTGAAATATTTTAAATA
11277844 TAATTTTGAAATTATTTT
1 TAATTTTGAAA-TATTTT
11277862 TTAAATATTA
Statistics
Matches: 53, Mismatches: 4, Indels: 13
0.76 0.06 0.19
Matches are distributed among these distances:
20 1 0.02
21 11 0.21
22 9 0.17
23 19 0.36
24 9 0.17
25 4 0.08
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.51
Consensus pattern (22 bp):
TAATTTTGAAATATTTTAAATA
Done.