Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold72
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: 5928628
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 261288 characters in sequence are not A, C, G, or T
File 9 of 39
Found at i:1132428 original size:33 final size:33
Alignment explanation
Indices: 1132386--1132451 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
1132376 AACTTCCTAG
* *
1132386 ATGTATCGATACAAAGATTGATGTATCGATACA
1 ATGTATCGATACAAAGAATAATGTATCGATACA
**
1132419 ATGTATCGATACATTGAATAATGTATCGATACA
1 ATGTATCGATACAAAGAATAATGTATCGATACA
1132452 TTTCTTGGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.32
Consensus pattern (33 bp):
ATGTATCGATACAAAGAATAATGTATCGATACA
Found at i:1134646 original size:20 final size:20
Alignment explanation
Indices: 1134623--1134660 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1134613 TACATAGGTA
*
1134623 TTTGTATCGATACATTATGC
1 TTTGTATCGATAAATTATGC
*
1134643 TTTGTATTGATAAATTAT
1 TTTGTATCGATAAATTAT
1134661 ATCGATACAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.08, G:0.13, T:0.50
Consensus pattern (20 bp):
TTTGTATCGATAAATTATGC
Found at i:1134754 original size:13 final size:13
Alignment explanation
Indices: 1134736--1134787 Score: 62
Period size: 13 Copynumber: 4.5 Consensus size: 13
1134726 GATACATAGG
1134736 ACATTGTATCGAT
1 ACATTGTATCGAT
1134749 ACATTGTATCGAT
1 ACATTGTATCGAT
1134762 ACA-TG-AT-G--
1 ACATTGTATCGAT
1134770 A-ATTGTATCGAT
1 ACATTGTATCGAT
1134782 ACATTG
1 ACATTG
1134788 CTTATAATGA
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
7 1 0.03
8 3 0.09
9 2 0.06
10 2 0.06
11 2 0.06
12 3 0.09
13 20 0.61
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (13 bp):
ACATTGTATCGAT
Found at i:1134761 original size:33 final size:33
Alignment explanation
Indices: 1134719--1134787 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
1134709 CTACCACTGT
1134719 TTGTATCGATACAT-AGGACATTGTATCGATACA
1 TTGTATCGATACATGAGGA-ATTGTATCGATACA
*
1134752 TTGTATCGATACATGATGAATTGTATCGATACA
1 TTGTATCGATACATGAGGAATTGTATCGATACA
1134785 TTG
1 TTG
1134788 CTTATAATGA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
33 31 0.91
34 3 0.09
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.36
Consensus pattern (33 bp):
TTGTATCGATACATGAGGAATTGTATCGATACA
Found at i:1137147 original size:13 final size:13
Alignment explanation
Indices: 1137129--1137153 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1137119 CATAAAATGC
1137129 TGTATCGATACAA
1 TGTATCGATACAA
1137142 TGTATCGATACA
1 TGTATCGATACA
1137154 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1137235 original size:13 final size:13
Alignment explanation
Indices: 1137217--1137241 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1137207 ATTACTCAAA
1137217 TGTATCGATACAT
1 TGTATCGATACAT
1137230 TGTATCGATACA
1 TGTATCGATACA
1137242 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1137305 original size:51 final size:52
Alignment explanation
Indices: 1137250--1137377 Score: 204
Period size: 52 Copynumber: 2.5 Consensus size: 52
1137240 CACTGATCTT
*
1137250 TGTATCGATACATGCAGGCAAATTT-CCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
1137301 TGTATCGATACATGCAAGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
1137353 TGTATCGATACATGTAGGTAAATTT
1 TGTATCGATACATGCAGGCAAATTT
1137378 TCATATTTCG
Statistics
Matches: 70, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
51 24 0.34
52 46 0.66
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.31
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1140623 original size:21 final size:20
Alignment explanation
Indices: 1140589--1140631 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
1140579 TATTAAAAAG
*
1140589 TTAGCTAATGAAAATAATGAA
1 TTAGCTAATGAAAACAA-GAA
1140610 TTAGCTAA-GAAAAACAAGAA
1 TTAGCTAATG-AAAACAAGAA
1140630 TT
1 TT
1140632 TGCATGATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.53, C:0.07, G:0.14, T:0.26
Consensus pattern (20 bp):
TTAGCTAATGAAAACAAGAA
Found at i:1140630 original size:20 final size:21
Alignment explanation
Indices: 1140589--1140631 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
1140579 TATTAAAAAG
*
1140589 TTAGCTAATGAAAATAATGAA
1 TTAGCTAATGAAAATAAAGAA
1140610 TTAGCTAA-GAAAA-ACAAGAA
1 TTAGCTAATGAAAATA-AAGAA
1140630 TT
1 TT
1140632 TGCATGATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 11 0.55
21 8 0.40
ACGTcount: A:0.53, C:0.07, G:0.14, T:0.26
Consensus pattern (21 bp):
TTAGCTAATGAAAATAAAGAA
Found at i:1144500 original size:13 final size:13
Alignment explanation
Indices: 1144482--1144507 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1144472 CATTGAAGCA
1144482 TGTATCGATACAT
1 TGTATCGATACAT
1144495 TGTATCGATACAT
1 TGTATCGATACAT
1144508 AGGTTACTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1146409 original size:22 final size:22
Alignment explanation
Indices: 1146384--1146425 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
1146374 TTTTTTAAGA
1146384 TTTGACAAAAGGGGAGAAATGC
1 TTTGACAAAAGGGGAGAAATGC
* *
1146406 TTTGATAAACGGGGAGAAAT
1 TTTGACAAAAGGGGAGAAAT
1146426 ATGTTTATCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.07, G:0.31, T:0.21
Consensus pattern (22 bp):
TTTGACAAAAGGGGAGAAATGC
Found at i:1147118 original size:20 final size:20
Alignment explanation
Indices: 1147093--1147146 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
1147083 CTACCACTGT
1147093 TTGTATCGATACAT-AGGACA
1 TTGTATCGATACATGAGGA-A
*
1147113 TTGTATCGATACATGATGAA
1 TTGTATCGATACATGAGGAA
1147133 TTGTATCGATACAT
1 TTGTATCGATACAT
1147147 TGCTTATAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 29 0.91
21 3 0.09
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (20 bp):
TTGTATCGATACATGAGGAA
Found at i:1149362 original size:52 final size:51
Alignment explanation
Indices: 1149305--1149440 Score: 155
Period size: 53 Copynumber: 2.6 Consensus size: 51
1149295 ATTGCCTTGT
* * *
1149305 ATGTATTGACACTTTGAAGAATGTATCGATATATTTAGGTCAAAAACTCAGA
1 ATGTATTGATAC-ATGAAAAATGTATCGATATATTTAGGTCAAAAACTCAGA
* * * * *
1149357 ATGTATCTCGATACATGAATAATGCATCGATATATTTGGGTCACAAACTTAGA
1 ATGTAT-T-GATACATGAAAAATGTATCGATATATTTAGGTCAAAAACTCAGA
*
1149410 ATGTATCGATACAATGAAAAATGTATCGATA
1 ATGTATTGATAC-ATGAAAAATGTATCGATA
1149441 CATTCTTTTT
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
51 5 0.07
52 22 0.31
53 40 0.56
54 4 0.06
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.32
Consensus pattern (51 bp):
ATGTATTGATACATGAAAAATGTATCGATATATTTAGGTCAAAAACTCAGA
Found at i:1149387 original size:53 final size:52
Alignment explanation
Indices: 1149319--1149440 Score: 165
Period size: 53 Copynumber: 2.3 Consensus size: 52
1149309 ATTGACACTT
*
1149319 TGAAGAATGTATCGATATATTTAGGTCAAAAACTCAGAATGTATCTCGATAC-A
1 TGAAAAATGTATCGATATATTTAGGTCAAAAACTCAGAATGTA--TCGATACAA
* * * * *
1149372 TGAATAATGCATCGATATATTTGGGTCACAAACTTAGAATGTATCGATACAA
1 TGAAAAATGTATCGATATATTTAGGTCAAAAACTCAGAATGTATCGATACAA
1149424 TGAAAAATGTATCGATA
1 TGAAAAATGTATCGATA
1149441 CATTCTTTTT
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
51 7 0.11
52 16 0.26
53 38 0.62
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.30
Consensus pattern (52 bp):
TGAAAAATGTATCGATATATTTAGGTCAAAAACTCAGAATGTATCGATACAA
Found at i:1149528 original size:20 final size:20
Alignment explanation
Indices: 1149481--1149542 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
1149471 TACATGGTCC
***
1149481 TGTATCGATACATTTCAAGCA
1 TGTATCGATACA-TTCACTTA
*
1149502 TGAATCGATACATTCACTTA
1 TGTATCGATACATTCACTTA
*
1149522 TGTATCGATACATTAACTTA
1 TGTATCGATACATTCACTTA
1149542 T
1 T
1149543 TCTATTGATA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
20 24 0.69
21 11 0.31
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.37
Consensus pattern (20 bp):
TGTATCGATACATTCACTTA
Found at i:1149554 original size:21 final size:20
Alignment explanation
Indices: 1149505--1149554 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
1149495 TCAAGCATGA
* *
1149505 ATCGATACATTCACTTATGT
1 ATCGATACATTAACTTATCT
1149525 ATCGATACATTAACTTATTCT
1 ATCGATACATTAACTTA-TCT
*
1149546 ATTGATACA
1 ATCGATACA
1149555 AATTGTTGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.34, C:0.18, G:0.08, T:0.40
Consensus pattern (20 bp):
ATCGATACATTAACTTATCT
Found at i:1160270 original size:19 final size:20
Alignment explanation
Indices: 1160231--1160271 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
1160221 TAGTCATTCC
*
1160231 AAATCTGTTGAATGTAAAGA
1 AAATCTGTTGAATGCAAAGA
*
1160251 AAATCTTTTGAA-GCAAAGA
1 AAATCTGTTGAATGCAAAGA
1160270 AA
1 AA
1160272 CAAAAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.49, C:0.07, G:0.17, T:0.27
Consensus pattern (20 bp):
AAATCTGTTGAATGCAAAGA
Found at i:1165279 original size:21 final size:21
Alignment explanation
Indices: 1165255--1165303 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
1165245 TTTTGCCTAG
*
1165255 ATGTATCGATATATGTCTTTC
1 ATGTATCGATATATGCCTTTC
1165276 ATGTATCGATATATGCCTTTC
1 ATGTATCGATATATGCCTTTC
1165297 ATGTATC
1 ATGTATC
1165304 AATACAAGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.24, C:0.16, G:0.14, T:0.45
Consensus pattern (21 bp):
ATGTATCGATATATGCCTTTC
Found at i:1165371 original size:21 final size:20
Alignment explanation
Indices: 1165347--1165388 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
1165337 TTCTATAATT
*
1165347 TGTATCGATACAATTAGTGAA
1 TGTATCGATAC-ATAAGTGAA
1165368 TGTATCGATACATAAGTGAA
1 TGTATCGATACATAAGTGAA
1165388 T
1 T
1165389 ATATGATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (20 bp):
TGTATCGATACATAAGTGAA
Found at i:1165387 original size:20 final size:21
Alignment explanation
Indices: 1165347--1165396 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
1165337 TTCTATAATT
*
1165347 TGTATCGATACAATTAGTGAA
1 TGTATCGATACAATAAGTGAA
1165368 TGTATCGATAC-ATAAGTGAA
1 TGTATCGATACAATAAGTGAA
*
1165388 TATAT-GATA
1 TGTATCGATA
1165397 TATGTTTCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 4 0.15
20 12 0.44
21 11 0.41
ACGTcount: A:0.40, C:0.08, G:0.18, T:0.34
Consensus pattern (21 bp):
TGTATCGATACAATAAGTGAA
Found at i:1167712 original size:116 final size:116
Alignment explanation
Indices: 1167508--1167740 Score: 385
Period size: 116 Copynumber: 2.0 Consensus size: 116
1167498 TAAACACATA
*
1167508 ATTTAAAAAATTGTCTACTCTACATCCACTCAAAATATTATCTTTTGTGATATCATGAAGTAAGG
1 ATTTAAAAAATTGTCTACTCTACATCCACTCAAAATATTATCTTTTGTGATATCACGAAGTAAGG
* *
1167573 CATTAACATTTAACTTAAATATCTTGCCAATCAAGTTAAGGCGATTTTTTG
66 CATTAACATTTAACCTAAATATCTTGCCAATCAAGTCAAGGCGATTTTTTG
* * *
1167624 ATTTAAAAAATTGTCTACTCTACGTCTACTTAAAATATTATCTTTTGTGATATCACGAAGTAAGG
1 ATTTAAAAAATTGTCTACTCTACATCCACTCAAAATATTATCTTTTGTGATATCACGAAGTAAGG
* **
1167689 CATTGATGTTTAACCTAAATATCTTGCCAATCAAGTCAAGGCGATTTTTTG
66 CATTAACATTTAACCTAAATATCTTGCCAATCAAGTCAAGGCGATTTTTTG
1167740 A
1 A
1167741 CTGTTGGCTA
Statistics
Matches: 108, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
116 108 1.00
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.38
Consensus pattern (116 bp):
ATTTAAAAAATTGTCTACTCTACATCCACTCAAAATATTATCTTTTGTGATATCACGAAGTAAGG
CATTAACATTTAACCTAAATATCTTGCCAATCAAGTCAAGGCGATTTTTTG
Found at i:1172753 original size:19 final size:20
Alignment explanation
Indices: 1172713--1172762 Score: 84
Period size: 19 Copynumber: 2.5 Consensus size: 20
1172703 CAGTTTCATA
*
1172713 GTATCGATACAATTGAGTAT
1 GTATCGATACAATTGAGCAT
1172733 GTATCGATACAA-TGAGCAT
1 GTATCGATACAATTGAGCAT
1172752 GTATCGATACA
1 GTATCGATACA
1172763 TTGTATCGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (20 bp):
GTATCGATACAATTGAGCAT
Found at i:1172769 original size:13 final size:13
Alignment explanation
Indices: 1172751--1172775 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1172741 ACAATGAGCA
1172751 TGTATCGATACAT
1 TGTATCGATACAT
1172764 TGTATCGATACA
1 TGTATCGATACA
1172776 AAACATAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1188901 original size:13 final size:13
Alignment explanation
Indices: 1188883--1188908 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1188873 CATTATTCCA
1188883 TGTATCGATACAT
1 TGTATCGATACAT
1188896 TGTATCGATACAT
1 TGTATCGATACAT
1188909 GGATTTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1189995 original size:88 final size:88
Alignment explanation
Indices: 1189893--1190068 Score: 352
Period size: 88 Copynumber: 2.0 Consensus size: 88
1189883 TTCATGAGTG
1189893 TTATTCATACTCTTCTTGCATGAGCATCCCATTTTTCTTGTCAAAAATGCATGTTTATTGCCTCA
1 TTATTCATACTCTTCTTGCATGAGCATCCCATTTTTCTTGTCAAAAATGCATGTTTATTGCCTCA
1189958 AAACAGATTTTCAAACACCTTCC
66 AAACAGATTTTCAAACACCTTCC
1189981 TTATTCATACTCTTCTTGCATGAGCATCCCATTTTTCTTGTCAAAAATGCATGTTTATTGCCTCA
1 TTATTCATACTCTTCTTGCATGAGCATCCCATTTTTCTTGTCAAAAATGCATGTTTATTGCCTCA
1190046 AAACAGATTTTCAAACACCTTCC
66 AAACAGATTTTCAAACACCTTCC
1190069 CAAGTTAAGT
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
88 88 1.00
ACGTcount: A:0.27, C:0.25, G:0.09, T:0.39
Consensus pattern (88 bp):
TTATTCATACTCTTCTTGCATGAGCATCCCATTTTTCTTGTCAAAAATGCATGTTTATTGCCTCA
AAACAGATTTTCAAACACCTTCC
Found at i:1193494 original size:53 final size:52
Alignment explanation
Indices: 1193293--1193474 Score: 346
Period size: 52 Copynumber: 3.5 Consensus size: 52
1193283 CGAAATATGA
*
1193293 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1193345 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1193397 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATTCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACA-TCTGGGC
1193450 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
1193475 AAGATCAGTG
Statistics
Matches: 128, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
52 96 0.75
53 32 0.25
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
Found at i:1193501 original size:13 final size:13
Alignment explanation
Indices: 1193483--1193507 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1193473 CAAAGATCAG
1193483 TGTATCGATACAA
1 TGTATCGATACAA
1193496 TGTATCGATACA
1 TGTATCGATACA
1193508 TTTGAGCAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1193563 original size:13 final size:13
Alignment explanation
Indices: 1193545--1193606 Score: 61
Period size: 13 Copynumber: 4.3 Consensus size: 13
1193535 GGCAGTAGCT
1193545 TACATTGTATCGA
1 TACATTGTATCGA
1193558 TACATTGTATCGA
1 TACATTGTATCGA
1193571 TACAACACTTATGTATCGA
1 T---ACA--T-TGTATCGA
*
1193590 TGCATTGTATCGA
1 TACATTGTATCGA
1193603 TACA
1 TACA
1193607 ACACTTTATG
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
13 25 0.61
14 1 0.02
16 5 0.12
18 1 0.02
19 9 0.22
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:1193596 original size:32 final size:33
Alignment explanation
Indices: 1193550--1193626 Score: 138
Period size: 32 Copynumber: 2.4 Consensus size: 33
1193540 TAGCTTACAT
1193550 TGTATCGATACATTGTATCGATACAACAC-TTA
1 TGTATCGATACATTGTATCGATACAACACTTTA
*
1193582 TGTATCGATGCATTGTATCGATACAACACTTTA
1 TGTATCGATACATTGTATCGATACAACACTTTA
1193615 TGTATCGATACA
1 TGTATCGATACA
1193627 AATCGTTGAA
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
32 28 0.67
33 14 0.33
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.35
Consensus pattern (33 bp):
TGTATCGATACATTGTATCGATACAACACTTTA
Found at i:1194386 original size:49 final size:48
Alignment explanation
Indices: 1194315--1194583 Score: 273
Period size: 49 Copynumber: 5.6 Consensus size: 48
1194305 CGAAGAATGA
* * * *
1194315 CAATGTGCTGCTTCATGGCCAGCGACATTGATCTTAAAGATGACGGTGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGA-CTTAAAGATGACGGTGC
* * * * *
1194364 CAATATGCTGATTCAAAGCCAGCAATATCGGACTTAAAGATGAAGATGC
1 CAATATGCTGATTCAAGGCCAGCGATAT-TGACTTAAAGATGACGGTGC
* * * * *
1194413 AAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACGATGC
1 CAATATGCTGATTCAAGGCCAGCGATATT-GACTTAAAGATGACGGTGC
1194462 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT--A-A--A-GGTGC
1 CAATATGCTGATTCAAGGCCAGCGATATT-GACTTAAAGATGACGGTGC
* * *
1194505 CAA-ATTGTTGGTTCAAGGCCAGCGATAATGGACTTAAAGATGACGGTGC
1 CAATA-TGCTGATTCAAGGCCAGCGAT-ATTGACTTAAAGATGACGGTGC
*
1194554 CAATATGTTGATTCAAGGCCAGCGATATTG
1 CAATATGCTGATTCAAGGCCAGCGATATTG
1194584 GATTTAGAAG
Statistics
Matches: 182, Mismatches: 27, Indels: 23
0.78 0.12 0.10
Matches are distributed among these distances:
42 1 0.01
43 31 0.17
44 3 0.02
45 1 0.01
46 2 0.01
47 1 0.01
48 4 0.02
49 136 0.75
50 3 0.02
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (48 bp):
CAATATGCTGATTCAAGGCCAGCGATATTGACTTAAAGATGACGGTGC
Found at i:1194495 original size:98 final size:95
Alignment explanation
Indices: 1194316--1194594 Score: 359
Period size: 98 Copynumber: 2.9 Consensus size: 95
1194306 GAAGAATGAC
* * * *
1194316 AATGTGCTGCTTCATGGCCAGCGACATTGATCTTAAAGATGACGGTGCCAATATGCTGATTCAAA
1 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACGGTGCCAATATGCTGATTCAAG
* *
1194381 GCCAGCAATATCGGACTTAAAGATGAAGATG-CA
66 GCCAGCGATATTGGACTTAAAGA-G--G-TGCCA
*
1194414 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACGATGCCAATATGCTGATTCAAG
1 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACGGTGCCAATATGCTGATTCAAG
1194479 GCCAGCGATATTGGACTT-AA-AGGTGCCA
66 GCCAGCGATATTGGACTTAAAGAGGTGCCA
* * * * * *
1194507 AAT-TGTTGGTTCAAGGCCAGCGATAATGGACTTAAAGATGACGGTGCCAATATGTTGATTCAAG
1 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACGGTGCCAATATGCTGATTCAAG
*
1194571 GCCAGCGATATTGGATTTAGAAGA
66 GCCAGCGATATTGGACTTA-AAGA
1194595 AGATGCCACC
Statistics
Matches: 162, Mismatches: 15, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
92 73 0.45
93 6 0.04
94 2 0.01
95 2 0.01
96 1 0.01
97 2 0.01
98 76 0.47
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (95 bp):
AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACGGTGCCAATATGCTGATTCAAG
GCCAGCGATATTGGACTTAAAGAGGTGCCA
Found at i:1194558 original size:92 final size:97
Alignment explanation
Indices: 1194316--1194594 Score: 347
Period size: 92 Copynumber: 2.9 Consensus size: 97
1194306 GAAGAATGAC
* * *
1194316 AATGTGCTGCTTCATGGCCAGCGAC-ATTGATCTTAAAGATGACGGTGCCAATATGCTGATTCAA
1 AATGTGCTGATTCAAGGCCAGCGACAATGGA-CTTAAAGATGACGGTGCCAATATGCTGATTCAA
* * *
1194380 AGCCAGCAATATCGGACTTAAAGATGAAGATGCA
65 GGCCAGCGATATTGGACTTAAAGATG-AGATGCA
* * *
1194414 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACGATGCCAATATGCTGATTCAAG
1 AATGTGCTGATTCAAGGCCAGCGACAATGGACTTAAAGATGACGGTGCCAATATGCTGATTCAAG
1194479 GCCAGCGATATTGGACTT-AA-A-G-G-TGCCA
66 GCCAGCGATATTGGACTTAAAGATGAGATG-CA
* * * *
1194507 AAT-TGTTGGTTCAAGGCCAGCGATAATGGACTTAAAGATGACGGTGCCAATATGTTGATTCAAG
1 AATGTGCTGATTCAAGGCCAGCGACAATGGACTTAAAGATGACGGTGCCAATATGCTGATTCAAG
*
1194571 GCCAGCGATATTGGATTTAGAAGA
66 GCCAGCGATATTGGACTTA-AAGA
1194595 AGATGCCACC
Statistics
Matches: 159, Mismatches: 17, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
92 73 0.46
93 6 0.04
94 2 0.01
95 2 0.01
96 1 0.01
97 2 0.01
98 71 0.45
99 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (97 bp):
AATGTGCTGATTCAAGGCCAGCGACAATGGACTTAAAGATGACGGTGCCAATATGCTGATTCAAG
GCCAGCGATATTGGACTTAAAGATGAGATGCA
Found at i:1194778 original size:58 final size:58
Alignment explanation
Indices: 1194637--1194943 Score: 433
Period size: 58 Copynumber: 5.3 Consensus size: 58
1194627 GGTTGTACCA
* * * * * *
1194637 ACTTGTGTGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTT-TAAAAAGATACCACTA
1 ACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTG
*
1194694 ACTTGTGGGCTTTTGAAGGTTGCCACTGACTTATGGGCTTTGGAAAAGGGTGCCACTG
1 ACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTG
* *
1194752 ACTTGTGGGCTTTTAAAGGTTGCCACTGACTTGTGGGATTTAGGAAAAGGGTGCCACTG
1 ACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTT-GGAAAAGGGTGCCACTG
* * *
1194811 ATTTGTGGGC-TTTGAAGGTTGCCATTGACTTGTGGGCTTTGAGAGAAGGGTGCCACTG
1 ACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTG-GAAAAGGGTGCCACTG
* * *
1194869 ATTTGTGGGC-TTTGAAGGTTACCACTGACTTGTGGGCTTTGGAAAA-GATGCCACTG
1 ACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTG
1194925 ACTTGTGGGCTTTTGAAGG
1 ACTTGTGGGCTTTTGAAGG
1194944 GTGAGGAATA
Statistics
Matches: 226, Mismatches: 20, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
56 18 0.08
57 52 0.23
58 130 0.58
59 26 0.12
ACGTcount: A:0.21, C:0.16, G:0.31, T:0.33
Consensus pattern (58 bp):
ACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTG
Found at i:1194970 original size:116 final size:114
Alignment explanation
Indices: 1194637--1194957 Score: 339
Period size: 115 Copynumber: 2.8 Consensus size: 114
1194627 GGTTGTACCA
* ** * *
1194637 ACTTGTGTGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTTAAAAAGATACCACTAACTTGTGG
1 ACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGG
*
1194702 GCTTTTGAAGGTTG-CCACTGA-CTTATGGGCTTTG-GAAAAGGGTGCCACTG
66 GCTTTTGAAGGTTGACGACT-ATC-TAT--GCTTTGAGAAAAGGGTGCCACTG
* * * *
1194752 ACTTGTGGGCTTTTAAAGGTTGCCACTGACTTGTGGGATTTAGGAAAAGGGTGCCACTGATTTGT
1 ACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTT-GGAAAA-GATGCCACTGACTTGT
* * ** *
1194817 GGGC-TTTGAAGGTTGCCATTGACT-TGTGGGCTTTGAGAGAAGGGTGCCACTG
64 GGGCTTTTGAAGGTTG--A-CGACTATCTATGCTTTGAGAAAAGGGTGCCACTG
* *
1194869 ATTTGTGGGC-TTTGAAGGTTACCACTGACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGG
1 ACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGG
* * *
1194933 GCTTTTGAAGGGTGAGGAATATCTA
66 GCTTTTGAAGGTTGACGACTATCTA
1194958 ATCCTTAGTG
Statistics
Matches: 170, Mismatches: 26, Indels: 22
0.78 0.12 0.10
Matches are distributed among these distances:
112 3 0.02
113 3 0.02
114 18 0.11
115 54 0.32
116 48 0.28
117 40 0.24
118 1 0.01
120 3 0.02
ACGTcount: A:0.21, C:0.15, G:0.31, T:0.32
Consensus pattern (114 bp):
ACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGG
GCTTTTGAAGGTTGACGACTATCTATGCTTTGAGAAAAGGGTGCCACTG
Found at i:1196395 original size:1 final size:1
Alignment explanation
Indices: 1196391--1196560 Score: 88
Period size: 1 Copynumber: 170.0 Consensus size: 1
1196381 ATTGTTGTTG
* * * * * * ** * * *
1196391 TTTTTGTTTTTGTTTTTTGTTGTTTTTTGTTGTTTTTTTTTTTGCTTTGTTTTTTGTTTTTTGTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * ** * * * * * *
1196456 TTTTTGTTTTTTGTTTTTTTTGCTTTGTTTTTTTGTTTTTTGTTTTTTTGTTTTTTGTTTTTATT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * **
1196521 TTTTTTCTTCTTCTTTTTTTTGTTTATTTGGTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1196561 GGTGGAGGAC
Statistics
Matches: 117, Mismatches: 52, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
1 117 1.00
ACGTcount: A:0.01, C:0.03, G:0.12, T:0.84
Consensus pattern (1 bp):
T
Found at i:1196407 original size:7 final size:7
Alignment explanation
Indices: 1196391--1196557 Score: 144
Period size: 7 Copynumber: 22.7 Consensus size: 7
1196381 ATTGTTGTTG
1196391 TTTTTGT
1 TTTTTGT
*
1196398 TTTTGTTT
1 TTTT-TGT
1196406 TTTGTTGT
1 TTT-TTGT
1196414 TTTTTGT
1 TTTTTGT
1196421 TGTTTT-T
1 T-TTTTGT
1196428 TTTTT-T
1 TTTTTGT
**
1196434 GCTTTGT
1 TTTTTGT
1196441 TTTTTGT
1 TTTTTGT
1196448 TTTTTGTT
1 TTTTTG-T
1196456 TTTTTGT
1 TTTTTGT
1196463 TTTTTGT
1 TTTTTGT
1196470 TTTTT-T
1 TTTTTGT
*
1196476 TGCTTTGTT
1 T-TTTTG-T
1196485 TTTTTGT
1 TTTTTGT
1196492 TTTTTGTT
1 TTTTTG-T
1196500 TTTTTGT
1 TTTTTGT
1196507 TTTTTGT
1 TTTTTGT
*
1196514 TTTTATTT
1 TTTT-TGT
*
1196522 TTTTTCT
1 TTTTTGT
1196529 TCTTCTT-T
1 T-TT-TTGT
1196537 TTTTTGT
1 TTTTTGT
1196544 TTATTTGGT
1 TT-TTT-GT
1196553 TTTTT
1 TTTTT
1196558 TTTGGTGGAG
Statistics
Matches: 135, Mismatches: 10, Indels: 29
0.78 0.06 0.17
Matches are distributed among these distances:
6 12 0.09
7 66 0.49
8 48 0.36
9 9 0.07
ACGTcount: A:0.01, C:0.03, G:0.13, T:0.83
Consensus pattern (7 bp):
TTTTTGT
Found at i:1196441 original size:43 final size:43
Alignment explanation
Indices: 1196393--1196517 Score: 163
Period size: 42 Copynumber: 3.0 Consensus size: 43
1196383 TGTTGTTGTT
1196393 TTTGTTTTTGTTTTTTGTTGTTTTTTGTTGTTTTTTTTTTTGC
1 TTTGTTTTTGTTTTTTGTTGTTTTTTGTTGTTTTTTTTTTTGC
*
1196436 TTTGTTTTTTGTTTTTTG-T-TTTTTTGTTTTTTGTTTTTTTTGC
1 TTTG-TTTTTGTTTTTTGTTGTTTTTTGTTGTTT-TTTTTTTTGC
1196479 TTTGTTTTT-TTGTTTT-TTG-TTTTT-TTGTTTTTTGTTTTT
1 TTTGTTTTTGTT-TTTTGTTGTTTTTTGTTGTTTTTT-TTTTT
1196518 ATTTTTTTTC
Statistics
Matches: 74, Mismatches: 2, Indels: 14
0.82 0.02 0.16
Matches are distributed among these distances:
40 3 0.04
41 12 0.16
42 27 0.36
43 19 0.26
44 13 0.18
ACGTcount: A:0.00, C:0.02, G:0.14, T:0.84
Consensus pattern (43 bp):
TTTGTTTTTGTTTTTTGTTGTTTTTTGTTGTTTTTTTTTTTGC
Found at i:1196539 original size:44 final size:44
Alignment explanation
Indices: 1196391--1196557 Score: 185
Period size: 44 Copynumber: 3.6 Consensus size: 44
1196381 ATTGTTGTTG
1196391 TTTTTG-TTTTTGTTTTTTGTTGTTTTTTGTTGTTTTTTTTTTTGCTTTGT
1 TTTTTGTTTTTTG-TTTTT-TTGTTTTTTGTT-TTTTTTTTTTT-C--T-T
** *
1196441 TTTTTGTTTTTTGTTTTTTTGTTTTTTGTTTTTTTTGCTTTGTT
1 TTTTTGTTTTTTGTTTTTTTGTTTTTTGTTTTTTTTTTTTTCTT
1196485 TTTTTGTTTTTTGTTTTTTTGTTTTTTGTTTTTATTTTTTTTCTT
1 TTTTTGTTTTTTGTTTTTTTGTTTTTTGTTTTT-TTTTTTTTCTT
* *
1196530 CTTCTT-TTTTTTGTTTATTTGGTTTTTT
1 -TTTTTGTTTTTTGTTT-TTTTGTTTTTT
1196558 TTTGGTGGAG
Statistics
Matches: 105, Mismatches: 8, Indels: 12
0.84 0.06 0.10
Matches are distributed among these distances:
44 34 0.32
45 19 0.18
46 14 0.13
48 9 0.09
49 12 0.11
50 11 0.10
51 6 0.06
ACGTcount: A:0.01, C:0.03, G:0.13, T:0.83
Consensus pattern (44 bp):
TTTTTGTTTTTTGTTTTTTTGTTTTTTGTTTTTTTTTTTTTCTT
Found at i:1196555 original size:15 final size:15
Alignment explanation
Indices: 1196385--1196557 Score: 167
Period size: 15 Copynumber: 11.1 Consensus size: 15
1196375 CTTTTTATTG
1196385 TTGTTGTTTTTG-TTT
1 TTGTT-TTTTTGTTTT
1196400 TTGTTTTTTGTTGTTTT
1 TTG-TTTTT-TTGTTTT
1196417 TTGTTGTTTTT-TTTT
1 TTGTT-TTTTTGTTTT
1196432 TTGCTTTGTTTTTTGTTTT
1 TTG---T-TTTTTTGTTTT
1196451 TTGTTTTTTTGTTTT
1 TTGTTTTTTTGTTTT
**
1196466 TTGTTTTTTT-TGCT
1 TTGTTTTTTTGTTTT
1196480 TTGTTTTTTTGTTTT
1 TTGTTTTTTTGTTTT
1196495 TTGTTTTTTTGTTTT
1 TTGTTTTTTTGTTTT
1196510 TTGTTTTTATT-TTTT
1 TTGTTTTT-TTGTTTT
* *
1196525 TTCTTCTTCTT-TTTT
1 TTGTT-TTTTTGTTTT
*
1196540 TTGTTTATTTGGTTTT
1 TTGTTT-TTTTGTTTT
1196556 TT
1 TT
1196558 TTTGGTGGAG
Statistics
Matches: 135, Mismatches: 9, Indels: 27
0.79 0.05 0.16
Matches are distributed among these distances:
14 13 0.10
15 79 0.59
16 20 0.15
17 9 0.07
18 6 0.04
19 8 0.06
ACGTcount: A:0.01, C:0.03, G:0.13, T:0.83
Consensus pattern (15 bp):
TTGTTTTTTTGTTTT
Found at i:1196555 original size:29 final size:25
Alignment explanation
Indices: 1196391--1196557 Score: 114
Period size: 26 Copynumber: 6.5 Consensus size: 25
1196381 ATTGTTGTTG
1196391 TTTTTGTTTTTGT-TTTTTGTTGTTT-T
1 TTTTTGTTTTT-TCTTTTT-TT-TTTGT
* **
1196417 TTGTTGTTTTTT-TTTTTGCTTTGT
1 TTTTTGTTTTTTCTTTTTTTTTTGT
*
1196441 TTTTTGTTTTTTGTTTTTTTGTTT-T
1 TTTTTGTTTTTTCTTTTTTT-TTTGT
*
1196466 TTGTTT-TTTTTGCTTTGTTTTTTTGT
1 TT-TTTGTTTTTTCTTT-TTTTTTTGT
1196492 TTTTTGTTTTTT-TGTTTTTTGTTT-T
1 TTTTTGTTTTTTCT-TTTTTT-TTTGT
* *
1196517 TATTTTTTTTCTTCTTCTTTTTTTTGT
1 T-TTTTGTTTTTTCTT-TTTTTTTTGT
1196544 TTATTTGGTTTTTT
1 TT-TTT-GTTTTTT
1196558 TTTGGTGGAG
Statistics
Matches: 113, Mismatches: 13, Indels: 28
0.73 0.08 0.18
Matches are distributed among these distances:
23 3 0.03
24 12 0.11
25 35 0.31
26 47 0.42
27 11 0.10
28 5 0.04
ACGTcount: A:0.01, C:0.03, G:0.13, T:0.83
Consensus pattern (25 bp):
TTTTTGTTTTTTCTTTTTTTTTTGT
Found at i:1197669 original size:21 final size:21
Alignment explanation
Indices: 1197636--1197676 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1197626 CTAAGTAAAA
1197636 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
1197657 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
1197677 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:1197742 original size:21 final size:20
Alignment explanation
Indices: 1197713--1197769 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 20
1197703 AAAACTCTGA
**
1197713 AAAGTATCGATACACATTTT
1 AAAGTATCGATACACATTGC
*
1197733 AAATGTATCGATACAGATTGC
1 AAA-GTATCGATACACATTGC
*
1197754 ATAGTATCGATACACA
1 AAAGTATCGATACACA
1197770 CAAATATGTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 15 0.48
21 16 0.52
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (20 bp):
AAAGTATCGATACACATTGC
Found at i:1197840 original size:53 final size:53
Alignment explanation
Indices: 1197757--1197893 Score: 229
Period size: 53 Copynumber: 2.6 Consensus size: 53
1197747 AGATTGCATA
* *
1197757 GTATCGATACACACAAATATGTATCGATACAGGACATTGGCATTAGCCAAATTT
1 GTATCGATACACAC-AATATGTATCGATACAGGACACTGGCAGTAGCCAAATTT
*
1197811 GTATCGATACACACAATATGTATCGATACAGGTCACTGGCAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACAGGACACTGGCAGTAGCCAAATTT
*
1197864 GTATCGATACACAAAATATGTATCGATACA
1 GTATCGATACACACAATATGTATCGATACA
1197894 TTGGTAGTAG
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
53 65 0.82
54 14 0.18
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAGGACACTGGCAGTAGCCAAATTT
Found at i:1197936 original size:10 final size:10
Alignment explanation
Indices: 1197917--1197947 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
1197907 AATCTCATTT
1197917 TCACTGTTCA
1 TCACTGTTCA
*
1197927 TCACTATTCA
1 TCACTGTTCA
1197937 TCACTGTTCA
1 TCACTGTTCA
1197947 T
1 T
1197948 GTATCGATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.23, C:0.29, G:0.06, T:0.42
Consensus pattern (10 bp):
TCACTGTTCA
Found at i:1197969 original size:21 final size:22
Alignment explanation
Indices: 1197935--1197988 Score: 101
Period size: 21 Copynumber: 2.5 Consensus size: 22
1197925 CATCACTATT
1197935 CATCACTGTTCATGTATCGATA
1 CATCACTGTTCATGTATCGATA
1197957 CATCACT-TTCATGTATCGATA
1 CATCACTGTTCATGTATCGATA
1197978 CATCACTGTTC
1 CATCACTGTTC
1197989 CTAGGTCACT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 21 0.68
22 10 0.32
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.37
Consensus pattern (22 bp):
CATCACTGTTCATGTATCGATA
Found at i:1198079 original size:13 final size:13
Alignment explanation
Indices: 1198061--1198099 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1198051 TCACTATTCA
1198061 TGTATCGATACAT
1 TGTATCGATACAT
*
1198074 TGTATCGATACAC
1 TGTATCGATACAT
1198087 TGTATCGATACAT
1 TGTATCGATACAT
1198100 CATAAATAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1198632 original size:34 final size:35
Alignment explanation
Indices: 1198569--1198635 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
1198559 CTAAGTGATT
1198569 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
1198605 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
1198636 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:1210392 original size:14 final size:14
Alignment explanation
Indices: 1210373--1210464 Score: 80
Period size: 16 Copynumber: 6.1 Consensus size: 14
1210363 GCATCCCTTG
1210373 AAAAAAAAAAC--A
1 AAAAAAAAAACAAA
*
1210385 AAAAAAAAAGCAAA
1 AAAAAAAAAACAAA
1210399 AAAAACAGACAAACAAA
1 AAAAA-A-A-AAACAAA
1210416 AAAACAAACAAACAAA
1 AAAA-AAA-AAACAAA
*
1210432 AAAAAACAAACAACA
1 AAAAAAAAAACAA-A
1210447 AAAACAAAACAACAAA
1 AAAA-AAAA-AACAAA
1210463 AA
1 AA
1210465 GGGTCCGGAT
Statistics
Matches: 67, Mismatches: 4, Indels: 14
0.79 0.05 0.16
Matches are distributed among these distances:
12 10 0.15
14 12 0.18
15 8 0.12
16 20 0.30
17 16 0.24
18 1 0.01
ACGTcount: A:0.83, C:0.15, G:0.02, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAACAAA
Found at i:1210417 original size:18 final size:18
Alignment explanation
Indices: 1210396--1210462 Score: 88
Period size: 18 Copynumber: 3.9 Consensus size: 18
1210386 AAAAAAAAGC
*
1210396 AAAAAAAACAGACAAAC-
1 AAAAAAAACAAACAAACA
1210413 -AAAAAAACAAACAAACA
1 AAAAAAAACAAACAAACA
1210430 AAAAAAAACAAAC-AACA
1 AAAAAAAACAAACAAACA
1210447 AAAACAAAAC-AACAAA
1 AAAA-AAAACAAACAAA
1210463 AAGGGTCCGG
Statistics
Matches: 45, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
16 15 0.33
17 11 0.24
18 19 0.42
ACGTcount: A:0.81, C:0.18, G:0.01, T:0.00
Consensus pattern (18 bp):
AAAAAAAACAAACAAACA
Found at i:1210442 original size:4 final size:4
Alignment explanation
Indices: 1210401--1210454 Score: 58
Period size: 4 Copynumber: 13.8 Consensus size: 4
1210391 AAAGCAAAAA
* * *
1210401 AAAC AGAC AAAC AAAA AAAC AAAC AAAC AAA- AAA- AAAC AAAC AACAA
1 AAAC AAAC AAAC AAAC AAAC AAAC AAAC AAAC AAAC AAAC AAAC AA-AC
1210448 AAAC AAA
1 AAAC AAA
1210455 ACAACAAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
3 6 0.14
4 33 0.79
5 3 0.07
ACGTcount: A:0.80, C:0.19, G:0.02, T:0.00
Consensus pattern (4 bp):
AAAC
Found at i:1210461 original size:47 final size:43
Alignment explanation
Indices: 1210373--1210464 Score: 105
Period size: 47 Copynumber: 2.0 Consensus size: 43
1210363 GCATCCCTTG
* *
1210373 AAAAAAAAAACAAAAAAAAAAGCAAAAAAAACAGACAAACAAA
1 AAAAAAAAAACAAAAAAAAAAACAAAAAAAACAAACAAACAAA
*
1210416 AAAACAAACAAACAAAAAAAAACAAACAACAAAAACAAA-ACAACAAA
1 AAAA-AAA-AAAC-AAAAAAAA-AAACAAAAAAAACAAACA-AACAAA
1210463 AA
1 AA
1210465 GGGTCCGGAT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
43 4 0.10
44 3 0.07
45 4 0.10
46 9 0.22
47 21 0.51
ACGTcount: A:0.83, C:0.15, G:0.02, T:0.00
Consensus pattern (43 bp):
AAAAAAAAAACAAAAAAAAAAACAAAAAAAACAAACAAACAAA
Found at i:1211995 original size:29 final size:29
Alignment explanation
Indices: 1211899--1212170 Score: 297
Period size: 29 Copynumber: 9.5 Consensus size: 29
1211889 TTCCCCACCC
1211899 TTTCAAAAGCCCACAAGTCAGTGGCAAC-
1 TTTCAAAAGCCCACAAGTCAGTGGCAACT
* *
1211927 CTTCAAAAGCCCACAAGTTAGTGGCAAC-
1 TTTCAAAAGCCCACAAGTCAGTGGCAACT
* * *
1211955 CTTCAAAAGCCCATAAGTCAGTGGCATCT
1 TTTCAAAAGCCCACAAGTCAGTGGCAACT
1211984 TTTCAAAAGCCCACAAGTCTA-TGGCAAC-
1 TTTCAAAAGCCCACAAGTC-AGTGGCAACT
*
1212012 CTTCAAAAGCCCACAAGTCAGTGGC-ACAT
1 TTTCAAAAGCCCACAAGTCAGTGGCAAC-T
*
1212041 TTTCAAAAGCCCACAAGTCAGTGGCATCT
1 TTTCAAAAGCCCACAAGTCAGTGGCAACT
* *
1212070 TTTTAAAAGCCCACAAGTCAGTGGCACCT
1 TTTCAAAAGCCCACAAGTCAGTGGCAACT
* * * * *
1212099 TTTCAAAAGCACACAAGGCAGCGACGAC-
1 TTTCAAAAGCCCACAAGTCAGTGGCAACT
* * ** *
1212127 CTTCAAAAGCACACAAGTTGGT-GCAACCC
1 TTTCAAAAGCCCACAAGTCAGTGGCAA-CT
1212156 TTTCAAAAGCCCACA
1 TTTCAAAAGCCCACA
1212171 CAAGTTGGTG
Statistics
Matches: 207, Mismatches: 29, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
27 5 0.02
28 91 0.44
29 109 0.53
30 2 0.01
ACGTcount: A:0.35, C:0.29, G:0.17, T:0.19
Consensus pattern (29 bp):
TTTCAAAAGCCCACAAGTCAGTGGCAACT
Found at i:1212011 original size:57 final size:57
Alignment explanation
Indices: 1211900--1212170 Score: 311
Period size: 57 Copynumber: 4.7 Consensus size: 57
1211890 TCCCCACCCT
*
1211900 TTCAAAAGCCCACAAGTCAGTGGCAAC-CTTCAAAAGCCCACAAGT-TAGTGGCAACC
1 TTCAAAAGCCCACAAGTCAGTGGC-ACTTTTCAAAAGCCCACAAGTCTAGTGGCAACC
*
1211956 TTCAAAAGCCCATAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTCTA-TGGCAACC
1 TTCAAAAGCCCACAAGTCAGTGGCA-CTTTTCAAAAGCCCACAAGTCTAGTGGCAACC
* *
1212013 TTCAAAAGCCCACAAGTCAGTGGCACATTTTCAAAAGCCCACAAGTC-AGTGGCATCTT
1 TTCAAAAGCCCACAAGTCAGTGGCAC-TTTTCAAAAGCCCACAAGTCTAGTGGCAAC-C
* * * * * *
1212071 TTTAAAAGCCCACAAGTCAGTGGCACCTTTTCAAAAGCACACAAGGC-AGCGACGACC
1 TTCAAAAGCCCACAAGTCAGTGGCA-CTTTTCAAAAGCCCACAAGTCTAGTGGCAACC
* ** *
1212128 TTCAAAAGCACACAAGTTGGT-GCAACCCTTTCAAAAGCCCACA
1 TTCAAAAGCCCACAAGTCAGTGGC-A-CTTTTCAAAAGCCCACA
1212171 CAAGTTGGTG
Statistics
Matches: 188, Mismatches: 19, Indels: 15
0.85 0.09 0.07
Matches are distributed among these distances:
55 1 0.01
56 28 0.15
57 109 0.58
58 49 0.26
59 1 0.01
ACGTcount: A:0.35, C:0.29, G:0.17, T:0.19
Consensus pattern (57 bp):
TTCAAAAGCCCACAAGTCAGTGGCACTTTTCAAAAGCCCACAAGTCTAGTGGCAACC
Found at i:1212234 original size:21 final size:21
Alignment explanation
Indices: 1212210--1212278 Score: 63
Period size: 21 Copynumber: 3.2 Consensus size: 21
1212200 ATATCACTGG
1212210 CCTTGAATCAGCATATTGGCA
1 CCTTGAATCAGCATATTGGCA
* *
1212231 CCTTTAAGCTCA--ATA-TCGCTAA
1 CCTTGAA--TCAGCATATTGGC--A
1212253 CCTTGAATCAGCATATTGGCA
1 CCTTGAATCAGCATATTGGCA
1212274 CCTTG
1 CCTTG
1212279 TCTTTAAGAC
Statistics
Matches: 37, Mismatches: 4, Indels: 14
0.67 0.07 0.25
Matches are distributed among these distances:
20 6 0.16
21 15 0.41
22 10 0.27
23 6 0.16
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (21 bp):
CCTTGAATCAGCATATTGGCA
Found at i:1212344 original size:87 final size:88
Alignment explanation
Indices: 1212209--1212410 Score: 264
Period size: 87 Copynumber: 2.3 Consensus size: 88
1212199 AATATCACTG
* *
1212209 GCCTTGAATCAGCATATTGGCACCTTTAAGCTCAATATCGCTAACCTTGAATCAGCATATTGGCA
1 GCCTTGAATCAGCACATTGGCA-C--TAAGCCCAATATCGCTAACCTTGAATCAGCATATTGGCA
*
1212274 CCTT-GTCTTTAAGACCAATGTCGCTA
63 CCTTCATCTTTAAGACCAATGTCG-TA
* **
1212300 GCCTTGAATCAGCACATTAGCAC-AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCT
1 GCCTTGAATCAGCACATTGGCACTAAGCCCAATATCGCTAACCTTGAATCAGCATATTGGCACCT
* *
1212364 TCATCTTTAAGACCGATGTCGTT
66 TCATCTTTAAGACCAATGTCGTA
*
1212387 GACCTTGAATCAGCGCATTGGCAC
1 G-CCTTGAATCAGCACATTGGCAC
1212411 CTTAACTATC
Statistics
Matches: 99, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
87 41 0.41
88 37 0.37
90 1 0.01
91 20 0.20
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.28
Consensus pattern (88 bp):
GCCTTGAATCAGCACATTGGCACTAAGCCCAATATCGCTAACCTTGAATCAGCATATTGGCACCT
TCATCTTTAAGACCAATGTCGTA
Found at i:1212412 original size:49 final size:49
Alignment explanation
Indices: 1212330--1212659 Score: 320
Period size: 49 Copynumber: 6.6 Consensus size: 49
1212320 CACAAGCCCA
* * * *
1212330 ATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCG
1 ATATCGTTGACCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCG
* * *
1212379 ATGTCGTTGACCTTGAATCAGCGCATTGGCACCTTAACTATCTTTGAAGTCCA
1 ATATCGTTGACCTTGAATCAGCACATTGGCACCTT--C-ATCTTT-AAGTCCG
* ** * * * *
1212432 ATGTCGCCGGCCTTGAATCAACACATTGGCATCTTCATCTTTGAAGTCCA
1 ATATCGTTGACCTTGAATCAGCACATTGGCACCTTCATCTTT-AAGTCCG
* *** ** * *
1212482 ATGTCGCCAACCTTGAATCAATACATTAGCATCTTCATCTTTAAGTCCG
1 ATATCGTTGACCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCG
* * *
1212531 ATATCGTTGGCCTTGAATTAGCACATTGGCATCTTCATCTTTAAGTCCG
1 ATATCGTTGACCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCG
** **
1212580 ATATCGTT-AGCCTTGAATCAGCATTTTGGCACCTTTTTCTTTAAGTCCG
1 ATATCGTTGA-CCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCG
* *
1212629 ATATCGTTGGCCTTGAATCAGCATATTGGCA
1 ATATCGTTGACCTTGAATCAGCACATTGGCA
1212660 TCTTTAACAT
Statistics
Matches: 239, Mismatches: 36, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
49 145 0.61
50 52 0.22
51 2 0.01
52 6 0.03
53 34 0.14
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.34
Consensus pattern (49 bp):
ATATCGTTGACCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCG
Found at i:1212496 original size:50 final size:49
Alignment explanation
Indices: 1212340--1212759 Score: 290
Period size: 49 Copynumber: 8.5 Consensus size: 49
1212330 ATATCGCTGG
* * * * **
1212340 CCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCGATGTCGTTGA
1 CCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCAATGTCGCCGA
* * *
1212389 CCTTGAATCAGCGCATTGGCACCTTAACTATCTTTGAAGTCCAATGTCGCCGG
1 CCTTGAATCAGCACATTGGCATCTT--C-ATCTTT-AAGTCCAATGTCGCCGA
* *
1212442 CCTTGAATCAACACATTGGCATCTTCATCTTTGAAGTCCAATGTCGCCAA
1 CCTTGAATCAGCACATTGGCATCTTCATCTTT-AAGTCCAATGTCGCCGA
** * * * ** *
1212492 CCTTGAATCAATACATTAGCATCTTCATCTTTAAGTCCGATATCGTTGG
1 CCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCAATGTCGCCGA
* * * **
1212541 CCTTGAATTAGCACATTGGCATCTTCATCTTTAAGTCCGATATCG-TTA
1 CCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCAATGTCGCCGA
** * ** * * ** *
1212589 GCCTTGAATCAGCATTTTGGCACCTTTTTCTTTAAGTCCGATATCGTTGG
1 -CCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCAATGTCGCCGA
* * * * * *
1212639 CCTTGAATCAGCATATTGGCATCTTTAACATTCCTAAGCCCAATGTCGCTGG
1 CCTTGAATCAGCACATTGGCATCTTCATC-TT--TAAGTCCAATGTCGCCGA
** * * * * *
1212691 CCTTGTCTCAGCACATT-ACA--TTCTTCTTCAAGTCTAATGTCGCTGA
1 CCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCAATGTCGCCGA
* *
1212737 CCGTGAATCAGCACATTGACATC
1 CCTTGAATCAGCACATTGGCATC
1212760 CTTTTTCTCA
Statistics
Matches: 303, Mismatches: 56, Indels: 24
0.79 0.15 0.06
Matches are distributed among these distances:
46 28 0.09
47 3 0.01
48 3 0.01
49 142 0.47
50 55 0.18
51 4 0.01
52 34 0.11
53 34 0.11
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (49 bp):
CCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCAATGTCGCCGA
Found at i:1212810 original size:22 final size:22
Alignment explanation
Indices: 1212782--1212829 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
1212772 TTTATGCCCA
1212782 ATATCGTTGGCCGTGAATCAGC
1 ATATCGTTGGCCGTGAATCAGC
*
1212804 ATATCGTTGGCCTTGAATCAGC
1 ATATCGTTGGCCGTGAATCAGC
1212826 ATAT
1 ATAT
1212830 TGGCATCTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (22 bp):
ATATCGTTGGCCGTGAATCAGC
Found at i:1212920 original size:175 final size:175
Alignment explanation
Indices: 1212629--1212982 Score: 690
Period size: 175 Copynumber: 2.0 Consensus size: 175
1212619 TTTAAGTCCG
*
1212629 ATATCGTTGGCCTTGAATCAGCATATTGGCATCTTTAACATTCCTAAGCCCAATGTCGCTGGCCT
1 ATATCGTTGGCCTTGAATCAGCATATTGGCATCTTTAACATTCCTAAGCCCAATGTCACTGGCCT
1212694 TGTCTCAGCACATTACATTCTTCTTCAAGTCTAATGTCGCTGACCGTGAATCAGCACATTGACAT
66 TGTCTCAGCACATTACATTCTTCTTCAAGTCTAATGTCGCTGACCGTGAATCAGCACATTGACAT
1212759 CCTTTTTCTCATCTTTATGCCCAATATCGTTGGCCGTGAATCAGC
131 CCTTTTTCTCATCTTTATGCCCAATATCGTTGGCCGTGAATCAGC
1212804 ATATCGTTGGCCTTGAATCAGCATATTGGCATCTTTAACATTCCTAAGCCCAATGTCACTGGCCT
1 ATATCGTTGGCCTTGAATCAGCATATTGGCATCTTTAACATTCCTAAGCCCAATGTCACTGGCCT
1212869 TGTCTCAGCACATTACATTCTTCTTCAAGTCTAATGTCGCTGACCGTGAATCAGCACATTGACAT
66 TGTCTCAGCACATTACATTCTTCTTCAAGTCTAATGTCGCTGACCGTGAATCAGCACATTGACAT
*
1212934 CCTTTTTGTCATCTTTATGCCCAATATCGTTGGCCGTGAATCAGC
131 CCTTTTTCTCATCTTTATGCCCAATATCGTTGGCCGTGAATCAGC
1212979 ATAT
1 ATAT
1212983 TGGTATCTTT
Statistics
Matches: 177, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
175 177 1.00
ACGTcount: A:0.23, C:0.26, G:0.16, T:0.34
Consensus pattern (175 bp):
ATATCGTTGGCCTTGAATCAGCATATTGGCATCTTTAACATTCCTAAGCCCAATGTCACTGGCCT
TGTCTCAGCACATTACATTCTTCTTCAAGTCTAATGTCGCTGACCGTGAATCAGCACATTGACAT
CCTTTTTCTCATCTTTATGCCCAATATCGTTGGCCGTGAATCAGC
Found at i:1219702 original size:79 final size:80
Alignment explanation
Indices: 1219607--1219754 Score: 219
Period size: 79 Copynumber: 1.9 Consensus size: 80
1219597 TGAAAAATAT
* * *
1219607 AATATTTTGGAGATAAAAACGAGGTTAGAGTATCCCCTCGAAAACAATGGTGTTAGAGTA-TCCC
1 AATATTTTGAAAATAAAAACGAGGTTAGAGTAT-CCCTCGAAAACAATGGGGTTAGAGTATTCCC
1219671 -CGAAGGTGAAAAGTC
65 TCGAAGGTGAAAAGTC
* * *
1219686 AATATTTTGAAAATAAAATCGAGGTTGGAGTATCCCTCGAAAACAATGGGGTTGGAGTATTCCCT
1 AATATTTTGAAAATAAAAACGAGGTTAGAGTATCCCTCGAAAACAATGGGGTTAGAGTATTCCCT
1219751 CGAA
66 CGAA
1219755 AATAATAGGG
Statistics
Matches: 61, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
78 24 0.39
79 33 0.54
80 4 0.07
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.26
Consensus pattern (80 bp):
AATATTTTGAAAATAAAAACGAGGTTAGAGTATCCCTCGAAAACAATGGGGTTAGAGTATTCCCT
CGAAGGTGAAAAGTC
Found at i:1219739 original size:27 final size:27
Alignment explanation
Indices: 1219708--1219779 Score: 110
Period size: 28 Copynumber: 2.7 Consensus size: 27
1219698 ATAAAATCGA
*
1219708 GGTTGGAGTATCCCTCGAAAACAATGG
1 GGTTGGAGTATCCCTCGAAAACAATAG
*
1219735 GGTTGGAGTATTCCCTCGAAAATAATAG
1 GGTTGGAGTA-TCCCTCGAAAACAATAG
1219763 GGTTGGAGTAT-CCTCGA
1 GGTTGGAGTATCCCTCGA
1219780 TGGTGAAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
26 6 0.14
27 11 0.26
28 25 0.60
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (27 bp):
GGTTGGAGTATCCCTCGAAAACAATAG
Found at i:1219823 original size:106 final size:107
Alignment explanation
Indices: 1219624--1219856 Score: 283
Period size: 106 Copynumber: 2.2 Consensus size: 107
1219614 TGGAGATAAA
* * *
1219624 AACGAGGTTAGAGTATCCCCTCGAAAACAATGGTGTTAGAGTATCCCCGAAGGTGAAAAGTCAAT
1 AACGAGGTTGGAGTATTCCCTCGAAAACAATGGTGTTAGAGTATCCCCGAAGGTGAAAAATCAAT
* *
1219689 ATTTTGAAAATAAAATCGAGGTTGGAGTATCCC-TCGAAAAC
66 ATTTTAAAAATAAAATCGAGGTTAGAGTATCCCTTCGAAAAC
* * * * * * **
1219730 AATGGGGTTGGAGTATTCCCTCGAAAATAATAGG-GTTGGAGTATCCTCGATGGTGAAAAATCGG
1 AACGAGGTTGGAGTATTCCCTCGAAAACAAT-GGTGTTAGAGTATCCCCGAAGGTGAAAAATCAA
* * * *
1219794 TGTTTTAAAAATAAAATCGGGGTTAGAGTATCCCTTCGAGAAT
65 TATTTTAAAAATAAAATCGAGGTTAGAGTATCCCTTCGAAAAC
1219837 AACGAGGTTGGAGTA-TCCCT
1 AACGAGGTTGGAGTATTCCCT
1219857 GATGGTGGAA
Statistics
Matches: 106, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
106 85 0.80
107 21 0.20
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.26
Consensus pattern (107 bp):
AACGAGGTTGGAGTATTCCCTCGAAAACAATGGTGTTAGAGTATCCCCGAAGGTGAAAAATCAAT
ATTTTAAAAATAAAATCGAGGTTAGAGTATCCCTTCGAAAAC
Found at i:1219869 original size:79 final size:78
Alignment explanation
Indices: 1219735--1220048 Score: 357
Period size: 79 Copynumber: 4.0 Consensus size: 78
1219725 AAAACAATGG
* *
1219735 GGTTGGAGTATTCCC-TCGAAAATAA-TAGGGTTGGAGTAT-CCTCGATGGTGAAAAATCGGTGT
1 GGTTGGAGTA-TCCCTTCGAAAATAACGA-GGTTGGAGTATCCCT-GATGGTGAAAAATCGATGT
* *
1219797 TTTAAAAATAAAATCGG
63 TTTAGAAATAAAA-CGA
* * *
1219814 GGTTAGAGTATCCCTTCGAGAATAACGAGGTTGGAGTATCCCTGATGGTGGAAAATCGATGTTTT
1 GGTTGGAGTATCCCTTCGAAAATAACGAGGTTGGAGTATCCCTGATGGTGAAAAATCGATGTTTT
1219879 AGAAATAAAACCGA
66 AGAAATAAAA-CGA
* * * ** *
1219893 GGTTGAAGTATCCCCTC-AGAAATAACAAGGTTTAAGTATCCCTGATGGTGAAAAATTGATGTTT
1 GGTTGGAGTATCCCTTCGA-AAATAACGAGGTTGGAGTATCCCTGATGGTGAAAAATCGATGTTT
*
1219957 TAGAAGTAAAACTGA
65 TAGAAATAAAAC-GA
* * * *
1219972 GGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGGAAAATCGATAATTT
1 GGTTGGAGTATCCCTTCGAAAATAACGAGGTTGGAGTATCCCTGATGGTGAAAAATCGAT-GTTT
*
1220037 TAGAAGTAAAAC
65 TAGAAATAAAAC
1220049 ATTAATAAAT
Statistics
Matches: 200, Mismatches: 28, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
78 6 0.03
79 174 0.87
80 20 0.10
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (78 bp):
GGTTGGAGTATCCCTTCGAAAATAACGAGGTTGGAGTATCCCTGATGGTGAAAAATCGATGTTTT
AGAAATAAAACGA
Found at i:1226083 original size:2 final size:2
Alignment explanation
Indices: 1226076--1226102 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1226066 GATTTTCAAA
1226076 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1226103 CCTATAGATA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1232471 original size:20 final size:20
Alignment explanation
Indices: 1232448--1232486 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
1232438 TTTTTGATAA
1232448 AAACTAGAT-TTTAAAAAATG
1 AAACT-GATATTTAAAAAATG
1232468 AAACTGATAATTTAAAAAA
1 AAACTGAT-ATTTAAAAAA
1232487 ATTAATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 3 0.18
20 5 0.29
21 9 0.53
ACGTcount: A:0.59, C:0.05, G:0.08, T:0.28
Consensus pattern (20 bp):
AAACTGATATTTAAAAAATG
Found at i:1235827 original size:6 final size:6
Alignment explanation
Indices: 1235810--1235866 Score: 50
Period size: 7 Copynumber: 9.7 Consensus size: 6
1235800 ATAAAAATGG
*
1235810 AAAAGG AAAAGC AAAAGC TAAAAGC TAAAAGC TAAAA-- AAAAGC -AAAGC
1 AAAAGC AAAAGC AAAAGC -AAAAGC -AAAAGC -AAAAGC AAAAGC AAAAGC
1235858 AAAAG- AAAA
1 AAAAGC AAAA
1235867 AAAAAAGGAA
Statistics
Matches: 46, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
4 4 0.09
5 9 0.20
6 15 0.33
7 18 0.39
ACGTcount: A:0.68, C:0.11, G:0.16, T:0.05
Consensus pattern (6 bp):
AAAAGC
Found at i:1235832 original size:7 final size:7
Alignment explanation
Indices: 1235816--1235846 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
1235806 ATGGAAAAGG
1235816 AAAAGC-
1 AAAAGCT
1235822 AAAAGCT
1 AAAAGCT
1235829 AAAAGCT
1 AAAAGCT
1235836 AAAAGCT
1 AAAAGCT
1235843 AAAA
1 AAAA
1235847 AAAAGCAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.25
7 18 0.75
ACGTcount: A:0.65, C:0.13, G:0.13, T:0.10
Consensus pattern (7 bp):
AAAAGCT
Found at i:1235841 original size:14 final size:13
Alignment explanation
Indices: 1235816--1235862 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 13
1235806 ATGGAAAAGG
1235816 AAAAGCAAAAGCT
1 AAAAGCAAAAGCT
1235829 AAAAGCTAAAAGCT
1 AAAAGC-AAAAGCT
1235843 AAAA--AAAAGC-
1 AAAAGCAAAAGCT
1235853 -AAAGCAAAAG
1 AAAAGCAAAAG
1235863 AAAAAAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
9 3 0.10
11 11 0.35
13 6 0.19
14 11 0.35
ACGTcount: A:0.66, C:0.13, G:0.15, T:0.06
Consensus pattern (13 bp):
AAAAGCAAAAGCT
Found at i:1235861 original size:22 final size:23
Alignment explanation
Indices: 1235830--1235873 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
1235820 GCAAAAGCTA
**
1235830 AAAGCTAAAAGCTAAAAAAAAGC
1 AAAGCTAAAAGAAAAAAAAAAGC
1235853 AAAGC-AAAAGAAAAAAAAAAG
1 AAAGCTAAAAGAAAAAAAAAAG
1235874 GAAAAAAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.73, C:0.09, G:0.14, T:0.05
Consensus pattern (23 bp):
AAAGCTAAAAGAAAAAAAAAAGC
Found at i:1238510 original size:27 final size:27
Alignment explanation
Indices: 1238450--1238501 Score: 88
Period size: 28 Copynumber: 1.9 Consensus size: 27
1238440 AAGCATGATT
1238450 AAAAAAAACAAACAAAAAAATGAAATGA
1 AAAAAAAACAAACAAAAAAATGAAA-GA
1238478 AAAAAAAACAAAC-AAAAAATGAAA
1 AAAAAAAACAAACAAAAAAATGAAA
1238502 AAAGGAAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 11 0.46
28 13 0.54
ACGTcount: A:0.81, C:0.08, G:0.06, T:0.06
Consensus pattern (27 bp):
AAAAAAAACAAACAAAAAAATGAAAGA
Found at i:1239728 original size:41 final size:42
Alignment explanation
Indices: 1239635--1239728 Score: 102
Period size: 41 Copynumber: 2.2 Consensus size: 42
1239625 GCATCATATT
* * *
1239635 ACATGCATTTGTATTATTGACAACCTTTACATTTGTATTATTTA
1 ACATGCATTTGCATTATTGACAA-C-TTACACTTGCATTATTTA
* *
1239679 ATATGCATTTGCATTATTGAC-A-TTAGCACTTGCATTATTTC
1 ACATGCATTTGCATTATTGACAACTTA-CACTTGCATTATTTA
1239720 ACATGCATT
1 ACATGCATT
1239729 CACGTCATTA
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
40 3 0.07
41 20 0.47
43 1 0.02
44 19 0.44
ACGTcount: A:0.29, C:0.16, G:0.11, T:0.45
Consensus pattern (42 bp):
ACATGCATTTGCATTATTGACAACTTACACTTGCATTATTTA
Found at i:1240154 original size:58 final size:59
Alignment explanation
Indices: 1240092--1240258 Score: 160
Period size: 59 Copynumber: 2.8 Consensus size: 59
1240082 GTCCAAACCA
* ** * *
1240092 TTTCTTAGAGCCTTGGTTTAT-TT-GGGTAATATTTAGGTTTCTATTTTCAT-CTAGACTG
1 TTTCTTAGAACCTTGGTTT-TGTTCAAGTAATATTTAGGTTTCTAGTTTCATGCAAG-CTG
* * * *
1240150 TTTCTTAAAACCTTGGTTTTGTTCAAGTAATCTTTATGTTTCTAGTTTCATGCAAGTTG
1 TTTCTTAGAACCTTGGTTTTGTTCAAGTAATATTTAGGTTTCTAGTTTCATGCAAGCTG
** * * * *
1240209 TTTCTTAGAACCTTGGTTTTGTTTGAGTTATCTTTAGGTTTTTAGATTCA
1 TTTCTTAGAACCTTGGTTTTGTTCAAGTAATATTTAGGTTTCTAGTTTCA
1240259 CCCATTCTTT
Statistics
Matches: 90, Mismatches: 16, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
57 1 0.01
58 19 0.21
59 67 0.74
60 3 0.03
ACGTcount: A:0.20, C:0.12, G:0.17, T:0.51
Consensus pattern (59 bp):
TTTCTTAGAACCTTGGTTTTGTTCAAGTAATATTTAGGTTTCTAGTTTCATGCAAGCTG
Found at i:1240199 original size:59 final size:59
Alignment explanation
Indices: 1240117--1240258 Score: 169
Period size: 59 Copynumber: 2.4 Consensus size: 59
1240107 GTTTATTTGG
* * *
1240117 GTAATATTTAGGTTTCTATTTTCAT-CTAGACTGTTTCTTAAAACCTTGGTTTTGTTCAA
1 GTAATCTTTAGGTTTCTAGTTTCATGCAAG-CTGTTTCTTAAAACCTTGGTTTTGTTCAA
* * * **
1240176 GTAATCTTTATGTTTCTAGTTTCATGCAAGTTGTTTCTTAGAACCTTGGTTTTGTTTGA
1 GTAATCTTTAGGTTTCTAGTTTCATGCAAGCTGTTTCTTAAAACCTTGGTTTTGTTCAA
* * *
1240235 GTTATCTTTAGGTTTTTAGATTCA
1 GTAATCTTTAGGTTTCTAGTTTCA
1240259 CCCATTCTTT
Statistics
Matches: 70, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
59 67 0.96
60 3 0.04
ACGTcount: A:0.21, C:0.12, G:0.16, T:0.51
Consensus pattern (59 bp):
GTAATCTTTAGGTTTCTAGTTTCATGCAAGCTGTTTCTTAAAACCTTGGTTTTGTTCAA
Found at i:1242415 original size:13 final size:13
Alignment explanation
Indices: 1242397--1242422 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1242387 ATTCTTGGGG
1242397 ATGTCCAGAAACA
1 ATGTCCAGAAACA
1242410 ATGTCCAGAAACA
1 ATGTCCAGAAACA
1242423 TGATGGAAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.23, G:0.15, T:0.15
Consensus pattern (13 bp):
ATGTCCAGAAACA
Found at i:1245538 original size:16 final size:15
Alignment explanation
Indices: 1245519--1245549 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
1245509 TTCATATTAT
1245519 TTTATATATAATTTTG
1 TTTATATA-AATTTTG
1245535 TTTATATAAATTTTG
1 TTTATATAAATTTTG
1245550 ATTTGTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.61
Consensus pattern (15 bp):
TTTATATAAATTTTG
Found at i:1245968 original size:19 final size:18
Alignment explanation
Indices: 1245946--1245981 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
1245936 ACTTGAATAA
1245946 AAAAATTAAATTTAAAAAT
1 AAAAATT-AATTTAAAAAT
*
1245965 AAAAATTTATTTAAAAA
1 AAAAATTAATTTAAAAA
1245982 AATAAATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAAATTAATTTAAAAAT
Found at i:1246335 original size:17 final size:18
Alignment explanation
Indices: 1246315--1246348 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
1246305 ATTTTATCAA
1246315 ATAATTAATT-ATAATTT
1 ATAATTAATTAATAATTT
*
1246332 ATAATTATTTAATAATT
1 ATAATTAATTAATAATT
1246349 ATTTTAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATAATTAATTAATAATTT
Found at i:1251802 original size:32 final size:32
Alignment explanation
Indices: 1251761--1251825 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
1251751 AGCTGACCCA
1251761 ATGTATCAAGAACTCTAGCATGAGCTCCTACT
1 ATGTATCAAGAACTCTAGCATGAGCTCCTACT
* *
1251793 ATGTATCAAGAACTCTGGCATGAGCTTCTACT
1 ATGTATCAAGAACTCTAGCATGAGCTCCTACT
1251825 A
1 A
1251826 AAGAGTCAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (32 bp):
ATGTATCAAGAACTCTAGCATGAGCTCCTACT
Found at i:1255840 original size:3 final size:3
Alignment explanation
Indices: 1255832--1255869 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
1255822 GAAAGACTTT
1255832 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1255870 CTATAATTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:1257793 original size:9 final size:9
Alignment explanation
Indices: 1257775--1257819 Score: 56
Period size: 10 Copynumber: 4.9 Consensus size: 9
1257765 CAAACATTTC
1257775 TTTC-TTTT
1 TTTCTTTTT
1257783 TTTCTTTTT
1 TTTCTTTTT
*
1257792 TTTCCTTCTT
1 TTT-CTTTTT
1257802 TTTCTTTTT
1 TTTCTTTTT
1257811 TATTCTTTT
1 T-TTCTTTT
1257820 AACCTTAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
8 4 0.12
9 13 0.41
10 15 0.47
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (9 bp):
TTTCTTTTT
Found at i:1258020 original size:227 final size:224
Alignment explanation
Indices: 1257594--1258033 Score: 526
Period size: 227 Copynumber: 1.9 Consensus size: 224
1257584 TCCATAATGG
* **
1257594 ACCTTAAATGTATGAACAAGTAAAAATGCATGAAAAAGATATTATTATTCCTCTATTTTCAAACC
1 ACCTTAAATGCATGAACAAGTAAAAATGCATGAAAAAGATATTATTATTCCTAAATTTTCAAACC
* * * * * * **
1257659 ATGAAGATGTCCATGCATGATATGAATATGCATGAAGAAAGAAAAAAATAAATAGGAAACCAAAA
66 ATAAAAATGTCCATACATGAAATAAATATGCATAAAGAAAGAAAAAAATAAATAAAAAACCAAAA
* * * *
1257724 TAAAATATGGAAAGAAAGTATACCTATAAAGAATGATGAAGCAAACATTTCTTTCTTTTTTTCTT
131 CAAAAGATGGAAAGAAAATATACCTATAAAAAATGATGAAGCAAACATTTCTTTC---TTTTCTT
1257789 TTTTTTCCTTCTTTTTCTTTTTTATTCTTTTA
193 TTTTTTCCTTCTTTTTCTTTTTTATTCTTTTA
* * * *
1257821 ACCTTAAATGCATGGACAAG-AAACAATGCATGAAAAATATGTTATTTTTCCTAAATTTTCAAAC
1 ACCTTAAATGCATGAACAAGTAAA-AATGCATGAAAAAGATATTATTATTCCTAAATTTTCAAAC
* ** *
1257885 TATAAAAATGTTTATACATGAAATAAATATGCATAAAGAAAGAAAAGAAAAATGAATAAAAAACC
65 CATAAAAATGTCCATACATGAAATAAATATGCATAAAGAAAG--AA-AAAAATAAATAAAAAACC
**
1257950 ACTACAAAAGATGGAAAGAAAATATACCTATAAAAAAATGATGAAGCAAAGC-TTTGCTTTCTTT
127 AAAACAAAAGATGGAAAGAAAATATACCTAT-AAAAAATGATGAAGCAAA-CATTT-CTTTCTTT
*
1258014 T-TTTTTTTTACTTCTATTTT
189 TCTTTTTTTTCCTTCT-TTTT
1258034 TGTCTTTTTT
Statistics
Matches: 179, Mismatches: 26, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
226 3 0.02
227 86 0.48
228 13 0.07
229 10 0.06
230 41 0.23
231 20 0.11
232 6 0.03
ACGTcount: A:0.43, C:0.12, G:0.11, T:0.34
Consensus pattern (224 bp):
ACCTTAAATGCATGAACAAGTAAAAATGCATGAAAAAGATATTATTATTCCTAAATTTTCAAACC
ATAAAAATGTCCATACATGAAATAAATATGCATAAAGAAAGAAAAAAATAAATAAAAAACCAAAA
CAAAAGATGGAAAGAAAATATACCTATAAAAAATGATGAAGCAAACATTTCTTTCTTTTCTTTTT
TTTCCTTCTTTTTCTTTTTTATTCTTTTA
Found at i:1265135 original size:49 final size:49
Alignment explanation
Indices: 1265074--1265675 Score: 471
Period size: 49 Copynumber: 12.9 Consensus size: 49
1265064 ATGTTAAAGA
* *
1265074 TGCCAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * * *
1265123 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATAAAAG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* *
1265172 TGCCAATATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
*** * * *
1265221 TGCCAATATGCTGATTCAAGGTTGGTGACATTGGACTTGAAGATTGTTAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA-TG--AAGG
* * * * * * * *
1265273 CGCCAATGTGCTAATTCAAGGCCAACGACATCGGTCTTAAAGATAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* *
1265322 TGCCAATATGCTAATTCAAGGCCAGCGATATTGGGC-T-----T----G
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * * * *
1265361 TGCCAATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAAAGA-CAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * * *
1265409 TGGCAATATGCTAATTCAAGGCCATCGATATTGGGC-T-----T----G
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * * *
1265448 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * *
1265496 TGCCAACATGCTGATTCAAGGCCAACGATATTGGGC-T-----T----G
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * * * *
1265535 TGCCAATGTGCTAATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
*
1265583 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-TCAAGATGGTAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT-G--AAGG
* * *
1265634 TGCCAATATGTTGATTCAAAGTCAGCGATATTGGACTTAAAG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
1265676 CTGCCACGGA
Statistics
Matches: 436, Mismatches: 77, Indels: 77
0.74 0.13 0.13
Matches are distributed among these distances:
39 94 0.22
40 3 0.01
43 1 0.00
47 7 0.02
48 96 0.22
49 156 0.36
50 2 0.00
51 38 0.09
52 39 0.09
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (49 bp):
TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
Found at i:1265309 original size:150 final size:147
Alignment explanation
Indices: 1265070--1265675 Score: 425
Period size: 150 Copynumber: 4.3 Consensus size: 147
1265060 AGAAATGTTA
* *
1265070 AAGATGCCAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAGATGAAGGTGCCAATGTGCT
1 AAGATGCCAATATGCTGATTCAAGGCCAACGACATCGGACTTAAAGATGAAGGCGCCAATGTGCT
* * * * *
1265135 GATTCAAGGCCAGCGATATTGGTCTTAAAGATAAAAGTGCCAATATGCTGATTCAAGGCCAGCGA
66 AATTCAAGGCCAACGACATCGGTCTTAAAGATAAAAGTGCCAATATGCTAATTCAAGGCCAGCGA
1265200 TATCGGACTTAAAGATG
131 TATCGGACTTAAAGATG
***** * *
1265217 AAGATGCCAATATGCTGATTCAAGGTTGGTGACATTGGACTTGAAGATTGTTAAGGCGCCAATGT
1 AAGATGCCAATATGCTGATTCAAGGCCAACGACATCGGACTTAAAGA-TG--AAGGCGCCAATGT
*
1265282 GCTAATTCAAGGCCAACGACATCGGTCTTAAAGATAAAGGTGCCAATATGCTAATTCAAGGCCAG
63 GCTAATTCAAGGCCAACGACATCGGTCTTAAAGATAAAAGTGCCAATATGCTAATTCAAGGCCAG
* *
1265347 CGATATTGGGC-T-----T-
128 CGATATCGGACTTAAAGATG
* ** * * * * * *
1265360 --G-TGCCAATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAAAGA-CAAGGTGGCAATATGCT
1 AAGATGCCAATATGCTGATTCAAGGCCAACGACATCGGACTTAAAGATGAAGGCGCCAATGTGCT
* * * * * *
1265421 AATTCAAGGCCATCGATATTGGGC-T-----T----GTGCCAATGTGCTGATTCAAGGCCAGCGA
66 AATTCAAGGCCAACGACATCGGTCTTAAAGATAAAAGTGCCAATATGCTAATTCAAGGCCAGCGA
* * * *
1265476 CATTGGTCTTAAAGA-C
131 TATCGGACTTAAAGATG
* * * * *
1265492 AAGGTGCCAACATGCTGATTCAAGGCCAACGATATTGGGCTT---G-T------GCCAATGTGCT
1 AAGATGCCAATATGCTGATTCAAGGCCAACGACATCGGACTTAAAGATGAAGGCGCCAATGTGCT
* * * * *
1265547 AATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGATTCAAGGCCAGCGA
66 AATTCAAGGCCAACGACATCGGTCTTAAAGATAAAAGTGCCAATATGCTAATTCAAGGCCAGCGA
* *
1265611 TATTGGAC-TCAAGATGG
131 TATCGGACTTAAAGAT-G
* * * * * * *
1265628 TAAAGGTGCCAATATGTTGATTCAAAGTCAGCGATATTGGACTTAAAG
1 --AAGATGCCAATATGCTGATTCAAGGCCAACGACATCGGACTTAAAG
1265676 CTGCCACGGA
Statistics
Matches: 371, Mismatches: 57, Indels: 68
0.75 0.11 0.14
Matches are distributed among these distances:
126 63 0.17
127 2 0.01
130 1 0.00
132 1 0.00
134 6 0.02
135 67 0.18
136 33 0.09
138 36 0.10
140 37 0.10
141 2 0.01
144 1 0.00
147 39 0.11
148 2 0.01
149 1 0.00
150 80 0.22
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.25
Consensus pattern (147 bp):
AAGATGCCAATATGCTGATTCAAGGCCAACGACATCGGACTTAAAGATGAAGGCGCCAATGTGCT
AATTCAAGGCCAACGACATCGGTCTTAAAGATAAAAGTGCCAATATGCTAATTCAAGGCCAGCGA
TATCGGACTTAAAGATG
Found at i:1265378 original size:39 final size:39
Alignment explanation
Indices: 1265321--1265568 Score: 190
Period size: 39 Copynumber: 5.9 Consensus size: 39
1265311 AAAGATAAAG
*
1265321 GTGCCAATATGCTAATTCAAGGCCAGCGATATTGGGCTT
1 GTGCCAATATGCTAATTCAAGGCCAGCGACATTGGGCTT
* * * *
1265360 GTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGTCTT
1 GTGCCAATATGCTAATTCAAGGCCAGCGACATTGGGCTT
* * *
1265399 AAAGACAAGGTGGCAATATGCTAATTCAAGGCCATCGATATTGGGCTT
1 ---------GTGCCAATATGCTAATTCAAGGCCAGCGACATTGGGCTT
* * *
1265447 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT
1 GTGCCAATATGCTAATTCAAGGCCAGCGACATTGGGCTT
* * * *
1265486 AAAGACAAGGTGCCAACATGCTGATTCAAGGCCAACGATATTGGGCTT
1 ---------GTGCCAATATGCTAATTCAAGGCCAGCGACATTGGGCTT
*
1265534 GTGCCAATGTGCTAATTCAAGGCCAGCGACATTGG
1 GTGCCAATATGCTAATTCAAGGCCAGCGACATTGG
1265569 TCTTAAAGAC
Statistics
Matches: 163, Mismatches: 28, Indels: 36
0.72 0.12 0.16
Matches are distributed among these distances:
39 97 0.60
48 66 0.40
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (39 bp):
GTGCCAATATGCTAATTCAAGGCCAGCGACATTGGGCTT
Found at i:1265444 original size:87 final size:87
Alignment explanation
Indices: 1265274--1265616 Score: 569
Period size: 87 Copynumber: 3.9 Consensus size: 87
1265264 TTGTTAAGGC
* * *
1265274 GCCAATGTGCTAATTCAAGGCCAACGACATCGGTCTTAAAGATAAAGGTGCCAATATGCTAATTC
1 GCCAATGTGCTAATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTAATTC
1265339 AAGGCCAGCGATATTGGGCTTGT
65 AAGGCCAGCGATATTGGGCTTGT
* * *
1265362 GCCAATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAAAGACAAGGTGGCAATATGCTAATTCA
1 GCCAATGTGCTAATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTAATTCA
*
1265427 AGGCCATCGATATTGGGCTTGT
66 AGGCCAGCGATATTGGGCTTGT
* * *
1265449 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAACATGCTGATTCA
1 GCCAATGTGCTAATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTAATTCA
*
1265514 AGGCCAACGATATTGGGCTTGT
66 AGGCCAGCGATATTGGGCTTGT
*
1265536 GCCAATGTGCTAATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTCA
1 GCCAATGTGCTAATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTAATTCA
1265601 AGGCCAGCGATATTGG
66 AGGCCAGCGATATTGG
1265617 ACTCAAGATG
Statistics
Matches: 240, Mismatches: 15, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
87 202 0.84
88 38 0.16
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (87 bp):
GCCAATGTGCTAATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTAATTCA
AGGCCAGCGATATTGGGCTTGT
Found at i:1265518 original size:48 final size:47
Alignment explanation
Indices: 1265447--1265675 Score: 222
Period size: 48 Copynumber: 4.9 Consensus size: 47
1265437 TATTGGGCTT
* * *
1265447 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA-AAG
* * *
1265495 GTGCCAACATGCTGATTCAAGGCCAACGATATTGGGCTT--------
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAAAG
* * * *
1265534 GTGCCAATGTGCTAATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA-AAG
*
1265582 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTCAAGATGGTAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAA-A--G-AAAG
* * *
1265633 GTGCCAATATGTTGATTCAAAGTCAGCGATATTGGACTTAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
1265676 CTGCCACGGA
Statistics
Matches: 148, Mismatches: 20, Indels: 26
0.76 0.10 0.13
Matches are distributed among these distances:
39 33 0.22
48 71 0.48
49 1 0.01
50 1 0.01
51 41 0.28
52 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (47 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAAAG
Found at i:1265821 original size:33 final size:32
Alignment explanation
Indices: 1265672--1266189 Score: 396
Period size: 34 Copynumber: 15.9 Consensus size: 32
1265662 TATTGGACTT
*
1265672 AAAGCTGCCACGGAGTTGTGGACTT-ATAGGAA
1 AAAG-TGCCACGGAGTTGTGGACTTAAAAGGAA
* * * *
1265704 AAAGGGATGCCACGAAGGTATGGGCTTAAAAGGGAA
1 AAA--G-TGCCACGGAGTTGTGGACTTAAAA-GGAA
* * * *
1265740 AAGGGTGCCACAGAGTCGTGGACTTAAAAAG-A
1 AA-AGTGCCACGGAGTTGTGGACTTAAAAGGAA
*
1265772 AAAGATGCCACAGAGTTGTGGACTTAAAAGGAA
1 AAAG-TGCCACGGAGTTGTGGACTTAAAAGGAA
* * *
1265805 CAAAGTGCCATGGAGTTGTGGACATAAAAGAAA
1 -AAAGTGCCACGGAGTTGTGGACTTAAAAGGAA
*
1265838 AAAGATGCCACAGAGTTGTGGACTTAAAAGG--
1 AAAG-TGCCACGGAGTTGTGGACTTAAAAGGAA
*
1265869 ---GTGCCACGGAGTTGTAGACTTAAAAGGAAA
1 AAAGTGCCACGGAGTTGTGGACTTAAAAGG-AA
* * * * *
1265899 AAGAGTGCCATGAAGTTATGGGCTTTAAAAAGAAA
1 AA-AGTGCCACGGAGTTGTGGAC-TT-AAAAGGAA
* *
1265934 AAAGTGCCACAGAGTTATGGACTTAAAAGGGAA
1 AAAGTGCCACGGAGTTGTGGACTTAAAA-GGAA
* ** * * *
1265967 AAGGGTGCCACAAAGTCGTAGACTTAAAAAGAA
1 AA-AGTGCCACGGAGTTGTGGACTTAAAAGGAA
* **
1266000 AAGGTGCCATAGAGTTGTGGACTTAAAAGGAA
1 AAAGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
1266032 GAAGGTGCCATGGAGTTGTGGACTTAAAAGGAA
1 -AAAGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
1266065 AAA-TATCCCCGGAGTTGTGGACTTAAAAGG--
1 AAAGT-GCCACGGAGTTGTGGACTTAAAAGGAA
*
1266095 ---GTGCCACAGAGTTGTGGACTTAAAAGGAAA
1 AAAGTGCCACGGAGTTGTGGACTTAAAAGG-AA
* * * *
1266125 AAGAGTACCACGAAGTTGTGGGCTTTAAAAAGAA
1 AA-AGTGCCACGGAGTTGTGGAC-TTAAAAGGAA
1266159 AAAGGTGCCACGGAGTTGTGGACTTAAAAGG
1 AAA-GTGCCACGGAGTTGTGGACTTAAAAGG
1266190 GTGCCACAGA
Statistics
Matches: 388, Mismatches: 66, Indels: 63
0.75 0.13 0.12
Matches are distributed among these distances:
27 46 0.12
28 2 0.01
31 2 0.01
32 87 0.22
33 99 0.26
34 125 0.32
35 16 0.04
36 11 0.03
ACGTcount: A:0.38, C:0.13, G:0.30, T:0.19
Consensus pattern (32 bp):
AAAGTGCCACGGAGTTGTGGACTTAAAAGGAA
Found at i:1265874 original size:27 final size:27
Alignment explanation
Indices: 1265843--1265895 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
1265833 AGAAAAAAGA
*
1265843 TGCCACAGAGTTGTGGACTTAAAAGGG
1 TGCCACAGAGTTGTAGACTTAAAAGGG
*
1265870 TGCCACGGAGTTGTAGACTTAAAAGG
1 TGCCACAGAGTTGTAGACTTAAAAGG
1265896 AAAAAGAGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.30, C:0.15, G:0.32, T:0.23
Consensus pattern (27 bp):
TGCCACAGAGTTGTAGACTTAAAAGGG
Found at i:1266106 original size:27 final size:28
Alignment explanation
Indices: 1266076--1266207 Score: 99
Period size: 27 Copynumber: 4.4 Consensus size: 28
1266066 AATATCCCCG
1266076 GAGTTGTGGACTTAAAAG-GGTGCCACA
1 GAGTTGTGGACTTAAAAGAGGTGCCACA
*
1266103 GAGTTGTGGACTTAAAAGGAAAAAGAGTACCAC-
1 GAGTTGTGGACTTAAAA-G----AG-GTGCCACA
* *
1266136 GAAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACG
1 G-AGTTGTGGAC-TT-AAAAG----AGGTGCCACA
1266171 GAGTTGTGGACTTAAAAG-GGTGCCACA
1 GAGTTGTGGACTTAAAAGAGGTGCCACA
1266198 GAGTTGTGGA
1 GAGTTGTGGA
1266208 ATTTGAAAAA
Statistics
Matches: 89, Mismatches: 5, Indels: 22
0.77 0.04 0.19
Matches are distributed among these distances:
27 35 0.39
28 1 0.01
32 5 0.06
33 4 0.04
34 30 0.34
35 10 0.11
36 4 0.04
ACGTcount: A:0.34, C:0.12, G:0.33, T:0.21
Consensus pattern (28 bp):
GAGTTGTGGACTTAAAAGAGGTGCCACA
Found at i:1266107 original size:59 final size:64
Alignment explanation
Indices: 1266012--1266189 Score: 195
Period size: 59 Copynumber: 2.8 Consensus size: 64
1266002 GGTGCCATAG
* * * *
1266012 AGTTGTGGACTTAAAAGGAAGAAGGTGCCATGGAGTTGTGGACTTAAAAGGAAAAATA-T-CCCC
1 AGTTGTGGACTTTAAA--AAG-AGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTACCAC
*
1266075 GG
63 GA
*
1266077 AGTTGTGGAC-TT-AAAAG-GGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTACCACGA
1 AGTTGTGGACTTTAAAAAGAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTACCACGA
*
1266138 AGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
1 AGTTGTGGACTTTAAAAAG----AGGTGCCACGGAGTTGTGGACTTAAAAGG
1266190 GTGCCACAGA
Statistics
Matches: 96, Mismatches: 8, Indels: 15
0.81 0.07 0.13
Matches are distributed among these distances:
59 32 0.33
60 1 0.01
61 16 0.17
62 2 0.02
63 7 0.07
64 1 0.01
65 10 0.10
68 27 0.28
ACGTcount: A:0.36, C:0.12, G:0.31, T:0.21
Consensus pattern (64 bp):
AGTTGTGGACTTTAAAAAGAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTACCACGA
Found at i:1266183 original size:226 final size:227
Alignment explanation
Indices: 1265701--1266190 Score: 757
Period size: 227 Copynumber: 2.2 Consensus size: 227
1265691 GGACTTATAG
* * * * *
1265701 GAAAAAGGGATGCCACGAAGGTATGGGCTTAAAAGGGAAAAGGGTGCCACAGAGTCGTGGACTTA
1 GAAAAA-GG-TGCCACGGAGTTATGGACTTAAAAGGGAAAAGGGTGCCACAAAGTCGTAGACTTA
1265766 AAAAGAAAAGATGCCACAGAGTTGTGGACTTAAAAGGAACAAAGTGCCATGGAGTTGTGGACATA
64 AAAAGAAAAGATGCCACAGAGTTGTGGACTTAAAAGGAACAAAGTGCCATGGAGTTGTGGACATA
*
1265831 AAAGAAAAAAGATGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTAGACTTAAAAGG
129 AAAGAAAAAAGATGCCACAGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTAGACTTAAAAGG
* *
1265896 AAAAAGAGTGCCATGAAGTTATGGGCTTTAAAAA
194 AAAAAGAGTACCACGAAGTTATGGGCTTTAAAAA
* *
1265930 GAAAAAAGTGCCACAGAGTTATGGACTTAAAAGGGAAAAGGGTGCCACAAAGTCGTAGACTTAAA
1 GAAAAAGGTGCCACGGAGTTATGGACTTAAAAGGGAAAAGGGTGCCACAAAGTCGTAGACTTAAA
* * * * *
1265995 AAGAAAAGGTGCCATAGAGTTGTGGACTTAAAAGGAAGAAGGTGCCATGGAGTTGTGGACTTAAA
66 AAGAAAAGATGCCACAGAGTTGTGGACTTAAAAGGAACAAAGTGCCATGGAGTTGTGGACATAAA
* * * * *
1266060 AGGAAAAATAT-CCCCGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAA
131 AGAAAAAAGATGCCACAGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTAGACTTAAAAGGAA
*
1266124 AAAGAGTACCACGAAGTTGTGGGCTTTAAAAA
196 AAAGAGTACCACGAAGTTATGGGCTTTAAAAA
*
1266156 GAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGG
1 GAAAAAGGTGCCACGGAGTTATGGACTTAAAAGGG
1266191 TGCCACAGAG
Statistics
Matches: 237, Mismatches: 24, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
226 110 0.46
227 120 0.51
228 1 0.00
229 6 0.03
ACGTcount: A:0.39, C:0.12, G:0.30, T:0.19
Consensus pattern (227 bp):
GAAAAAGGTGCCACGGAGTTATGGACTTAAAAGGGAAAAGGGTGCCACAAAGTCGTAGACTTAAA
AAGAAAAGATGCCACAGAGTTGTGGACTTAAAAGGAACAAAGTGCCATGGAGTTGTGGACATAAA
AGAAAAAAGATGCCACAGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTAGACTTAAAAGGAA
AAAGAGTACCACGAAGTTATGGGCTTTAAAAA
Found at i:1266188 original size:61 final size:59
Alignment explanation
Indices: 1266123--1266242 Score: 134
Period size: 61 Copynumber: 2.0 Consensus size: 59
1266113 CTTAAAAGGA
** * *
1266123 AAAAGAGTACCAC-GAAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTT
1 AAAAGAGTACCACAG-AGTTGTGGAATTTAAAAA-AAAAA-GTGCCACAGAGTCGTGGACTT
* * * *
1266184 AAAAGGGTGCCACAGAGTTGTGGAATTTGAAAAAAAAAGTGTCACAGAGTCGTGGACTT
1 AAAAGAGTACCACAGAGTTGTGGAATTTAAAAAAAAAAGTGCCACAGAGTCGTGGACTT
1266243 TGGGAAGAGA
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
59 18 0.36
60 5 0.10
61 26 0.52
62 1 0.02
ACGTcount: A:0.37, C:0.12, G:0.29, T:0.22
Consensus pattern (59 bp):
AAAAGAGTACCACAGAGTTGTGGAATTTAAAAAAAAAAGTGCCACAGAGTCGTGGACTT
Found at i:1266192 original size:95 final size:92
Alignment explanation
Indices: 1265998--1266207 Score: 296
Period size: 95 Copynumber: 2.3 Consensus size: 92
1265988 ACTTAAAAAG
* * * * * *
1265998 AAAA-GGTGCCATAGAGTTGTGGACTTAAAAGGAAGAAGGTGCCATGGAGTTGTGGACTTAAAAG
1 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGGTACCACGAAGTTGTGGACTTAAAAA
* *
1266062 GAAAAATATCCCCGGAGTTGTGGACTT
66 GAAAAAGATCCACGGAGTTGTGGACTT
*
1266089 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTACCACGAAGTTGTGGGCTTTAAA
1 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAG-GTACCACGAAGTTGTGGAC-TTAAA
*
1266154 AAGAAAAAGGTGCCACGGAGTTGTGGACTT
64 AAGAAAAAGAT-CCACGGAGTTGTGGACTT
1266184 AAAAGGGTGCCACAGAGTTGTGGA
1 AAAAGGGTGCCACAGAGTTGTGGA
1266208 ATTTGAAAAA
Statistics
Matches: 105, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
91 4 0.04
92 32 0.30
93 15 0.14
94 13 0.12
95 41 0.39
ACGTcount: A:0.35, C:0.12, G:0.31, T:0.21
Consensus pattern (92 bp):
AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGGTACCACGAAGTTGTGGACTTAAAAA
GAAAAAGATCCACGGAGTTGTGGACTT
Found at i:1266273 original size:30 final size:30
Alignment explanation
Indices: 1266230--1266813 Score: 420
Period size: 30 Copynumber: 18.8 Consensus size: 30
1266220 AAGTGTCACA
* *
1266230 GAGTCGTGGACTTTGGGAAGAGATACCACT
1 GAGTCATGGACTTTGGGAAGAGATGCCACT
* *
1266260 GAGTCATGAACTTTGAGAAGAGATTGCCACT
1 GAGTCATGGACTTTGGGAAGAGA-TGCCACT
* * * *
1266291 GAGTTATGGGCTTTGAAGAAAAGATGCCACT
1 GAGTCATGGACTTTG-GGAAGAGATGCCACT
** * * * *
1266322 GAGTCATAAACTTTGGGAAGAAATTCAATT
1 GAGTCATGGACTTTGGGAAGAGATGCCACT
** * * *
1266352 GAGTTGTTGACTTTGAAGAAAATAGATGCCACT
1 GAGTCATGGACTTTG--G-GAAGAGATGCCACT
* * * *
1266385 GTGTCATGAAC-TTGGAAGAAAAGGATACCACT
1 GAGTCATGGACTTTGG--GAAGA-GATGCCACT
* * **
1266417 GAGTCGTGGACTTAGAAAAGAGATGCCACT
1 GAGTCATGGACTTTGGGAAGAGATGCCACT
** *
1266447 GAGTTGTGGACTTTGAGAAGAGATTGCCACT
1 GAGTCATGGACTTTGGGAAGAGA-TGCCACT
* *
1266478 GAGTCATGGACTTTGAAGAAAAGATGCCACT
1 GAGTCATGGACTTTG-GGAAGAGATGCCACT
* *
1266509 GAGTCGTGAACTTTGGGAAGAGATGCCACT
1 GAGTCATGGACTTTGGGAAGAGATGCCACT
* *
1266539 GAGTCATGGACTTTGAAGAAAAAAGATGCCACT
1 GAGTCATGGACTTTG--G-GAAGAGATGCCACT
* *
1266572 -ACGTTATGGAC-TTGGAAGAAAAGGATGCCACT
1 GA-GTCATGGACTTTGG--GAAGA-GATGCCACT
* * **
1266604 GAGTCGTGGACTTAGAAAAGAGATGCCACT
1 GAGTCATGGACTTTGGGAAGAGATGCCACT
** *
1266634 GAGTTGTGGACTTTGAGAAGAGATGCCACT
1 GAGTCATGGACTTTGGGAAGAGATGCCACT
*
1266664 GAGTCATGCACTTTGGGAAGAGATTGCCACT
1 GAGTCATGGACTTTGGGAAGAGA-TGCCACT
* * *
1266695 GAGTCATGGACTTTGAAGAAAAAAGATGCTACT
1 GAGTCATGGACTTTG--G-GAAGAGATGCCACT
* *
1266728 GAGTCATGGAC-TTGGAAGAAAAGGATGCTACT
1 GAGTCATGGACTTTGG--GAAGA-GATGCCACT
* **
1266760 GAGTCATGGACTTAGAAAAGAGATGCCACT
1 GAGTCATGGACTTTGGGAAGAGATGCCACT
* *
1266790 GAGTTATGGACTTTGAGAAGAGAT
1 GAGTCATGGACTTTGGGAAGAGAT
1266814 ATTTGAAGAA
Statistics
Matches: 443, Mismatches: 86, Indels: 50
0.77 0.15 0.09
Matches are distributed among these distances:
30 181 0.41
31 120 0.27
32 78 0.18
33 59 0.13
34 5 0.01
ACGTcount: A:0.33, C:0.14, G:0.28, T:0.24
Consensus pattern (30 bp):
GAGTCATGGACTTTGGGAAGAGATGCCACT
Found at i:1266402 original size:61 final size:61
Alignment explanation
Indices: 1266236--1266813 Score: 352
Period size: 62 Copynumber: 9.3 Consensus size: 61
1266226 CACAGAGTCG
* * * * *
1266236 TGGACTTTG-GGAAGAGATACCACTGAGTCATGAACTTTGAGAAGAGATTGCCACTGAGTTA
1 TGGACTTTGAAGAAAAGATGCCACTGAGTCATGAACTTTG-GAAGAAATTGCAACTGAGTTA
* * * *
1266297 TGGGCTTTGAAGAAAAGATGCCACTGAGTCATAAACTTTGGGAAGAAATT-CAATTGAGTTG
1 TGGACTTTGAAGAAAAGATGCCACTGAGTCATGAACTTT-GGAAGAAATTGCAACTGAGTTA
* * * * * *
1266358 TTGACTTTGAAGAAAATAGATGCCACTGTGTCATGAAC-TTGGAAGAAAAGGATACCACTGAGTC
1 TGGACTTTGAAG-AAA-AGATGCCACTGAGTCATGAACTTTGGAAG-AAA--TTGCAACTGAGTT
*
1266422 G
61 A
* * ** * * * *
1266423 TGGACTTAGAA-AAGAGATGCCACTGAGTTGTGGACTTTGAGAAGAGATTGCCACTGAGTCA
1 TGGACTTTGAAGAAAAGATGCCACTGAGTCATGAACTTTG-GAAGAAATTGCAACTGAGTTA
* * * *
1266484 TGGACTTTGAAGAAAAGATGCCACTGAGTCGTGAACTTTGGGAAGAGA-TGCCACTGAGTCA
1 TGGACTTTGAAGAAAAGATGCCACTGAGTCATGAACTTT-GGAAGAAATTGCAACTGAGTTA
* * * *
1266545 TGGACTTTGAAGAAAAAAGATGCCACT-ACGTTATGGAC-TTGGAAGAAAAGGATGCCACTGAGT
1 TGGACTTTGAAG--AAAAGATGCCACTGA-GTCATGAACTTTGGAAG-AAA--TTGCAACTGAGT
**
1266608 CG
60 TA
* * ** * * * *
1266610 TGGACTTAGAA-AAGAGATGCCACTGAGTTGTGGACTTTGAGAAGAGA-TGCCACTGAGTCA
1 TGGACTTTGAAGAAAAGATGCCACTGAGTCATGAACTTTG-GAAGAAATTGCAACTGAGTTA
* * * * * * * *
1266670 TGCACTTTG-GGAAGAGATTGCCACTGAGTCATGGACTTTGAAGAAAAAAGATGCTACTGAGTCA
1 TGGACTTTGAAGAAAAGA-TGCCACTGAGTCATGAACTTTG--GAAGAAA-TTGCAACTGAGTTA
* * * * * * *
1266734 TGGACTTGGAAGAAAAGGATGCTACTGAGTCATGGACTTAGAAAAGAGA-TGCCACTGAGTTA
1 TGGACTTTGAAGAAAA-GATGCCACTGAGTCATGAACTTTG-GAAGAAATTGCAACTGAGTTA
*
1266796 TGGACTTTG-AGAAGAGAT
1 TGGACTTTGAAGAAAAGAT
1266814 ATTTGAAGAA
Statistics
Matches: 425, Mismatches: 63, Indels: 59
0.78 0.12 0.11
Matches are distributed among these distances:
60 28 0.07
61 107 0.25
62 139 0.33
63 53 0.12
64 33 0.08
65 63 0.15
66 2 0.00
ACGTcount: A:0.33, C:0.14, G:0.28, T:0.24
Consensus pattern (61 bp):
TGGACTTTGAAGAAAAGATGCCACTGAGTCATGAACTTTGGAAGAAATTGCAACTGAGTTA
Found at i:1266553 original size:187 final size:186
Alignment explanation
Indices: 1266230--1266813 Score: 730
Period size: 187 Copynumber: 3.1 Consensus size: 186
1266220 AAGTGTCACA
* ** * ** *
1266230 GAGTCGTGGACTTTGGGAAGAGATACCACTGAGTCATGAACTTTGAGAAGAGATTGCCACTGAGT
1 GAGTCGTGGACTTAGAAAAGAGATGCCACTGAGTTGTGGACTTTGAGAAGAGATTGCCACTGAGT
* * * * * * ** *
1266295 TATGGGCTTTGAAGAAAAGATGCCACTGAGTCATAAACTTTGGGAAGAAATTCAATTGAGTTGTT
66 CATGGACTTTGAAGAAAAGATGCCACTGAGTCATGAACTTTGGGAAGAGATGCAACTGAGTCATG
* * *
1266360 GACTTTGAAGAAAATAGATGCCACTGTGTCATGAACTTGGAAGAAAAGGATACCACT
131 GACTTTGAAGAAAA-AGATGCCACTGAGTCATGGACTTGGAAGAAAAGGATGCCACT
1266417 GAGTCGTGGACTTAGAAAAGAGATGCCACTGAGTTGTGGACTTTGAGAAGAGATTGCCACTGAGT
1 GAGTCGTGGACTTAGAAAAGAGATGCCACTGAGTTGTGGACTTTGAGAAGAGATTGCCACTGAGT
* *
1266482 CATGGACTTTGAAGAAAAGATGCCACTGAGTCGTGAACTTTGGGAAGAGATGCCACTGAGTCATG
66 CATGGACTTTGAAGAAAAGATGCCACTGAGTCATGAACTTTGGGAAGAGATGCAACTGAGTCATG
*
1266547 GACTTTGAAGAAAAAAGATGCCACT-ACGTTATGGACTTGGAAGAAAAGGATGCCACT
131 GACTTTGAAG-AAAAAGATGCCACTGA-GTCATGGACTTGGAAGAAAAGGATGCCACT
1266604 GAGTCGTGGACTTAGAAAAGAGATGCCACTGAGTTGTGGACTTTGAGAAGAGA-TGCCACTGAGT
1 GAGTCGTGGACTTAGAAAAGAGATGCCACTGAGTTGTGGACTTTGAGAAGAGATTGCCACTGAGT
* * * * * * *
1266668 CATGCACTTTG-GGAAGAGATTGCCACTGAGTCATGGACTTTGAAGAAAAAAGATGCTACTGAGT
66 CATGGACTTTGAAGAAAAGA-TGCCACTGAGTCATGAACTTTG--G-GAAGAGATGCAACTGAGT
* * *
1266732 CATGGACTTGGAAGAAAAGGATGCTACTGAGTCATGGACTT---AGAAAAGAGATGCCACT
127 CATGGACTTTGAAGAAAAAGATGCCACTGAGTCATGGACTTGGAAGAAAAG-GATGCCACT
** * *
1266790 GAGTTATGGACTTTGAGAAGAGAT
1 GAGTCGTGGACTTAGAAAAGAGAT
1266814 ATTTGAAGAA
Statistics
Matches: 351, Mismatches: 38, Indels: 17
0.86 0.09 0.04
Matches are distributed among these distances:
185 13 0.04
186 70 0.20
187 212 0.60
188 27 0.08
189 29 0.08
ACGTcount: A:0.33, C:0.14, G:0.28, T:0.24
Consensus pattern (186 bp):
GAGTCGTGGACTTAGAAAAGAGATGCCACTGAGTTGTGGACTTTGAGAAGAGATTGCCACTGAGT
CATGGACTTTGAAGAAAAGATGCCACTGAGTCATGAACTTTGGGAAGAGATGCAACTGAGTCATG
GACTTTGAAGAAAAAGATGCCACTGAGTCATGGACTTGGAAGAAAAGGATGCCACT
Found at i:1266703 original size:156 final size:155
Alignment explanation
Indices: 1266375--1266813 Score: 636
Period size: 156 Copynumber: 2.8 Consensus size: 155
1266365 TGAAGAAAAT
* * * * * *
1266375 AGATGCCACTGTGTCATGAACTTGGAAG-AAAAGGATACCACTGAGTCGTGGACTT---AGAAAA
1 AGATGCCACTGAGTCATGGACTTTGAAGAAAAAAGATGCCACTGAGTCATGGACTTGGAAGAAAA
* * * * *
1266436 GAGATGCCACTGAGTTGTGGACTTTGAGAAGAGATTGCCACTGAGTCATGGACTTTGAAGAAAAG
66 G-GATGCCACTGAGTCGTGGACTTAGAAAAGAGA-TGCCACTGAGTTATGGACTTTG-AGAAGAG
*
1266501 ATGCCACTGAGTCGTGAACTTTGGGAAG
128 ATGCCACTGAGTCATGAACTTTGGGAAG
*
1266529 AGATGCCACTGAGTCATGGACTTTGAAGAAAAAAGATGCCACT-ACGTTATGGACTTGGAAGAAA
1 AGATGCCACTGAGTCATGGACTTTGAAGAAAAAAGATGCCACTGA-GTCATGGACTTGGAAGAAA
*
1266593 AGGATGCCACTGAGTCGTGGACTTAGAAAAGAGATGCCACTGAGTTGTGGACTTTGAGAAGAGAT
65 AGGATGCCACTGAGTCGTGGACTTAGAAAAGAGATGCCACTGAGTTATGGACTTTGAGAAGAGAT
*
1266658 GCCACTGAGTCATGCACTTTGGGAAG
130 GCCACTGAGTCATGAACTTTGGGAAG
*
1266684 AGATTGCCACTGAGTCATGGACTTTGAAGAAAAAAGATGCTACTGAGTCATGGACTTGGAAGAAA
1 AGA-TGCCACTGAGTCATGGACTTTGAAGAAAAAAGATGCCACTGAGTCATGGACTTGGAAGAAA
* *
1266749 AGGATGCTACTGAGTCATGGACTTAGAAAAGAGATGCCACTGAGTTATGGACTTTGAGAAGAGAT
65 AGGATGCCACTGAGTCGTGGACTTAGAAAAGAGATGCCACTGAGTTATGGACTTTGAGAAGAGAT
1266814 ATTTGAAGAA
Statistics
Matches: 258, Mismatches: 20, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
154 26 0.10
155 56 0.22
156 139 0.54
157 30 0.12
158 7 0.03
ACGTcount: A:0.33, C:0.15, G:0.29, T:0.23
Consensus pattern (155 bp):
AGATGCCACTGAGTCATGGACTTTGAAGAAAAAAGATGCCACTGAGTCATGGACTTGGAAGAAAA
GGATGCCACTGAGTCGTGGACTTAGAAAAGAGATGCCACTGAGTTATGGACTTTGAGAAGAGATG
CCACTGAGTCATGAACTTTGGGAAG
Found at i:1270156 original size:13 final size:13
Alignment explanation
Indices: 1270138--1270163 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1270128 CAAGGTAGCT
1270138 TTGTATCGATACA
1 TTGTATCGATACA
1270151 TTGTATCGATACA
1 TTGTATCGATACA
1270164 ACACTTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1270981 original size:18 final size:19
Alignment explanation
Indices: 1270944--1270981 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
1270934 ATTTATTTTA
*
1270944 TAAATATATTTAAAATATG
1 TAAATATATATAAAATATG
*
1270963 TAAATA-ATATAATATATG
1 TAAATATATATAAAATATG
1270981 T
1 T
1270982 TAGTTAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (19 bp):
TAAATATATATAAAATATG
Found at i:1274428 original size:33 final size:33
Alignment explanation
Indices: 1274391--1274457 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1274381 TTCAACGATT
1274391 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
1274424 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
1274457 T
1 T
1274458 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:1274429 original size:13 final size:13
Alignment explanation
Indices: 1274411--1274435 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1274401 CATAAAATGT
1274411 TGTATCGATACAA
1 TGTATCGATACAA
1274424 TGTATCGATACA
1 TGTATCGATACA
1274436 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1274587 original size:52 final size:52
Alignment explanation
Indices: 1274531--1274650 Score: 222
Period size: 52 Copynumber: 2.3 Consensus size: 52
1274521 CACTGATCTT
*
1274531 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
1274583 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1274635 TGTATCGATACATGCA
1 TGTATCGATACATGCA
1274651 AGTAACTTTT
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 66 1.00
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1281519 original size:1 final size:1
Alignment explanation
Indices: 1281513--1281600 Score: 68
Period size: 1 Copynumber: 88.0 Consensus size: 1
1281503 AGAAGTGATG
* * * * * * * * *
1281513 AAAAAAAAACAAACAAACAAAAAAAAAACACACAAAAAAAAACAAAAAACAAAAAAAAACAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * *
1281578 ACAAAAAAAAAACACAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAA
1281601 GTGCAAAGGC
Statistics
Matches: 63, Mismatches: 24, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 63 1.00
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:1281534 original size:17 final size:17
Alignment explanation
Indices: 1281514--1281600 Score: 96
Period size: 17 Copynumber: 5.3 Consensus size: 17
1281504 GAAGTGATGA
1281514 AAAAAAAACAAACAAAC
1 AAAAAAAACAAACAAAC
*
1281531 -AAAAAAA-AAACACAC
1 AAAAAAAACAAACAAAC
1281546 AAAAAAAAACAAA-AAAC
1 -AAAAAAAACAAACAAAC
1281563 AAAAAAAAACAAA-AAAC
1 -AAAAAAAACAAACAAAC
1281580 AAAAAAAA-AACACAAA-
1 AAAAAAAACAA-ACAAAC
1281596 AAAAA
1 AAAAA
1281601 GTGCAAAGGC
Statistics
Matches: 63, Mismatches: 2, Indels: 11
0.83 0.03 0.14
Matches are distributed among these distances:
15 9 0.14
16 21 0.33
17 30 0.48
18 3 0.05
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (17 bp):
AAAAAAAACAAACAAAC
Found at i:1281537 original size:19 final size:17
Alignment explanation
Indices: 1281513--1281588 Score: 111
Period size: 17 Copynumber: 4.5 Consensus size: 17
1281503 AGAAGTGATG
1281513 AAAAAAAAACAAACAAAC
1 AAAAAAAAACAAA-AAAC
* *
1281531 -AAAAAAAA-AACACAC
1 AAAAAAAAACAAAAAAC
1281546 AAAAAAAAACAAAAAAC
1 AAAAAAAAACAAAAAAC
1281563 AAAAAAAAACAAAAAAC
1 AAAAAAAAACAAAAAAC
1281580 AAAAAAAAA
1 AAAAAAAAA
1281589 ACACAAAAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
15 3 0.06
16 10 0.19
17 39 0.75
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (17 bp):
AAAAAAAAACAAAAAAC
Found at i:1281566 original size:29 final size:28
Alignment explanation
Indices: 1281513--1281600 Score: 106
Period size: 29 Copynumber: 2.9 Consensus size: 28
1281503 AGAAGTGATG
1281513 AAAAAAAAACAAACAAACAAAAAAAAAACACA
1 AAAAAAAAACAAA-AAAC--AAAAAAAA-ACA
1281545 CAAAAAAAAACAAAAAACAAAAAAAAACA
1 -AAAAAAAAACAAAAAACAAAAAAAAACA
1281574 AAAAACAAAA-AAAAAACACAAAAAAAA
1 AAAAA-AAAACAAAAAACA-AAAAAAAA
1281601 GTGCAAAGGC
Statistics
Matches: 53, Mismatches: 0, Indels: 8
0.87 0.00 0.13
Matches are distributed among these distances:
28 13 0.25
29 15 0.28
30 8 0.15
32 4 0.08
33 13 0.25
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (28 bp):
AAAAAAAAACAAAAAACAAAAAAAAACA
Found at i:1281589 original size:19 final size:19
Alignment explanation
Indices: 1281516--1281598 Score: 100
Period size: 20 Copynumber: 4.3 Consensus size: 19
1281506 AGTGATGAAA
1281516 AAAAAACAAACAAACAAAAA-
1 AAAAAACAAA-AAA-AAAAAC
*
1281536 AAAAACACACAAAAAAAAAC
1 AAAAA-ACAAAAAAAAAAAC
1281556 AAAAAAC--AAAAAAAAAC
1 AAAAAACAAAAAAAAAAAC
1281573 AAAAAACAAAAAAAAAACAC
1 AAAAAACAAAAAAAAAA-AC
1281593 AAAAAA
1 AAAAAA
1281599 AAGTGCAAAG
Statistics
Matches: 57, Mismatches: 1, Indels: 10
0.84 0.01 0.15
Matches are distributed among these distances:
17 17 0.30
19 15 0.26
20 21 0.37
21 4 0.07
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (19 bp):
AAAAAACAAAAAAAAAAAC
Found at i:1282933 original size:31 final size:31
Alignment explanation
Indices: 1282895--1283039 Score: 190
Period size: 31 Copynumber: 4.7 Consensus size: 31
1282885 TTTTAAAAAA
1282895 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
*
1282926 AAAGTCCACGACTCAGTGGCAATCTCTGCTC
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
*
1282957 AAAGTCCACGACGCAGTGGC-ATC-CTTCTC
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
* *
1282986 TTTAAAGTCCATGACTCAGTGGC-AT-TTTGTCTC
1 ---AAAGTCCACGACTCAGTGGCAATCTCT-TCTC
1283019 AAAGTCCACGACTCAGTGGCA
1 AAAGTCCACGACTCAGTGGCA
1283040 TTTTTTCTTT
Statistics
Matches: 101, Mismatches: 7, Indels: 12
0.84 0.06 0.10
Matches are distributed among these distances:
29 5 0.05
30 22 0.22
31 49 0.49
32 21 0.21
33 4 0.04
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.26
Consensus pattern (31 bp):
AAAGTCCACGACTCAGTGGCAATCTCTTCTC
Found at i:1283040 original size:62 final size:63
Alignment explanation
Indices: 1282895--1283070 Score: 211
Period size: 62 Copynumber: 2.8 Consensus size: 63
1282885 TTTTAAAAAA
1282895 AAAGTCCACGACTCAGTGGCAATCTCTTCTC---AAAGTCCACGACTCAGTGGCAATCTCTGCTC
1 AAAGTCCACGACTCAGTGGC-ATC-CTTCTCTTTAAAGTCCACGACTCAGTGGCAATCTCTGCTC
* * *
1282957 AAAGTCCACGACGCAGTGGCATCCTTCTCTTTAAAGTCCATGACTCAGTGGC-AT-TTTGTCTC
1 AAAGTCCACGACTCAGTGGCATCCTTCTCTTTAAAGTCCACGACTCAGTGGCAATCTCTG-CTC
* * * * *
1283019 AAAGTCCACGACTCAGTGGCAT-TTTTTCTTTAAAGCCCACAACTCCGTGGCA
1 AAAGTCCACGACTCAGTGGCATCCTTCTCTTTAAAGTCCACGACTCAGTGGCA
1283071 CCTTGTTCCT
Statistics
Matches: 99, Mismatches: 10, Indels: 10
0.83 0.08 0.08
Matches are distributed among these distances:
60 6 0.06
61 29 0.29
62 45 0.45
63 19 0.19
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (63 bp):
AAAGTCCACGACTCAGTGGCATCCTTCTCTTTAAAGTCCACGACTCAGTGGCAATCTCTGCTC
Found at i:1283069 original size:93 final size:93
Alignment explanation
Indices: 1282895--1283074 Score: 222
Period size: 93 Copynumber: 1.9 Consensus size: 93
1282885 TTTTAAAAAA
1282895 AAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCAATCTCTGCTCAAA
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCAATCTCTGCTCAAA
* *
1282960 GTCCACGACGCAGTGGCATCCTTCTCTTT
66 GCCCACAACGCAGTGGCA-CCTTCTCTTT
* * * * * *
1282989 AAAGTCCATGACTCAGTGGC-AT-TTTGTCTCAAAGTCCACGACTCAGTGGC-ATTTTTTCTTTA
1 AAAGTCCACGACTCAGTGGCAATCTCT-TCTCAAAGTCCACGACTCAGTGGCAATCTCTGC-TCA
* *
1283051 AAGCCCACAACTCCGTGGCACCTT
64 AAGCCCACAACGCAGTGGCACCTT
1283075 GTTCCTTTTA
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
92 11 0.15
93 44 0.59
94 19 0.26
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (93 bp):
AAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCAATCTCTGCTCAAA
GCCCACAACGCAGTGGCACCTTCTCTTT
Found at i:1283086 original size:34 final size:33
Alignment explanation
Indices: 1283047--1283710 Score: 472
Period size: 34 Copynumber: 20.4 Consensus size: 33
1283037 GCATTTTTTC
1283047 TTTAAAGCCCACAACTCCGTGGCACCTTGTTCCT
1 TTTAAAGCCCACAACTCCGTGGCACCTT-TTCCT
*
1283081 TTTAAA-TCCACAACTCCGTGGCA-C----CCT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTCCT
* * *
1283108 TTTAAAGCCCACAATTCCGTGGCACTTTTTTCAT
1 TTTAAAGCCCACAACTCCGTGGCAC-CTTTTCCT
*
1283142 CTTT-AAGTCCACAACTCCGTGGCA-C----CCT
1 -TTTAAAGCCCACAACTCCGTGGCACCTTTTCCT
* * *
1283170 TTTAAAGCCCACAATTCCGTGGCACTTTTTTCAT
1 TTTAAAGCCCACAACTCCGTGGCAC-CTTTTCCT
*
1283204 CTTT-AAGTCCACAACTCCGTGGCA-C----CCT
1 -TTTAAAGCCCACAACTCCGTGGCACCTTTTCCT
* * * *
1283232 CTTAAAGCCCACAATTCCGTGGCACTTTTTTCAT
1 TTTAAAGCCCACAACTCCGTGGCAC-CTTTTCCT
* *
1283266 CTTT-AAGTCCACAACTCCGTGGCA-C----CCG
1 -TTTAAAGCCCACAACTCCGTGGCACCTTTTCCT
* * *
1283294 TTT-AAGCCCGCAACTCCGTAGCACCTTTTTCTT
1 TTTAAAGCCCACAACTCCGTGGCACC-TTTTCCT
*
1283327 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTCCT
1283360 GTTTAAAGCCCACAACTCCGTGGCACTCTTTTACCCT
1 -TTTAAAGCCCACAACTCCGTGGCAC-CTTTT--CCT
**
1283397 TTTCAAAGCCCACGGCTCCGTGGCA-C---T-C-
1 TTT-AAAGCCCACAACTCCGTGGCACCTTTTCCT
1283425 TTTAAAGCCCACAACTCCGTGGCACCTTCTT-CT
1 TTTAAAGCCCACAACTCCGTGGCACCTT-TTCCT
*
1283458 TTTCAAAGCCCACAACTCTGTGGCACCTTCTT-CT
1 TTT-AAAGCCCACAACTCCGTGGCACCTT-TTCCT
* *
1283492 TTTCAAAGCCCACGACTCCGTGGCA-C---TCTT
1 TTT-AAAGCCCACAACTCCGTGGCACCTTTTCCT
1283522 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCT
1 TTTAAAGCCCACAACTCCGTGGCAC-C-TTTTCCT
* * *
1283557 TCT-AAGCCCACAACTCCGTGGCACTTTTTTTCAT
1 TTTAAAGCCCACAACTCCGTGGCAC--CTTTTCCT
* *
1283591 CTTT-AAGTCCACAACTCCGTGGCACCTTTTTTTTCT
1 -TTTAAAGCCCACAACTCCGTGGCACC---TTTTCCT
*
1283627 TTTAAAGCCCAAAACTCCGTGGCACTCTTTTTCCCT
1 TTTAAAGCCCACAACTCCGTGGCAC-C-TTTT-CCT
* *
1283663 TTT-AAGTCCACAACTCCGTGGCATCTTTCTCTCT
1 TTTAAAGCCCACAACTCCGTGGCACCTTT-TC-CT
*
1283697 TCCTAAAGCCCACA
1 T-TTAAAGCCCACA
1283711 CAAGTCGGTG
Statistics
Matches: 504, Mismatches: 64, Indels: 122
0.73 0.09 0.18
Matches are distributed among these distances:
27 53 0.11
28 61 0.12
29 22 0.04
30 4 0.01
31 1 0.00
32 4 0.01
33 33 0.07
34 195 0.39
35 69 0.14
36 40 0.08
37 22 0.04
ACGTcount: A:0.21, C:0.34, G:0.13, T:0.32
Consensus pattern (33 bp):
TTTAAAGCCCACAACTCCGTGGCACCTTTTCCT
Found at i:1283167 original size:62 final size:62
Alignment explanation
Indices: 1283047--1283685 Score: 577
Period size: 62 Copynumber: 9.9 Consensus size: 62
1283037 GCATTTTTTC
* * * *
1283047 TTTAAAGCCCACAACTCCGTGGCACCTTGTTCCT-TTTAAATCCACAACTCCGTGGCACCCT
1 TTTAAAGCCCACAACTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCCT
*
1283108 TTTAAAGCCCACAATTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCCT
1 TTTAAAGCCCACAACTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCCT
*
1283170 TTTAAAGCCCACAATTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCCT
1 TTTAAAGCCCACAACTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCCT
* * *
1283232 CTTAAAGCCCACAATTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCCG
1 TTTAAAGCCCACAACTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCCT
* * * * *
1283294 TTT-AAGCCCGCAACTCCGTAGCACCTTTTTC-TTTTTAAAGCCCACAACTCCGTGGCACCTTTT
1 TTTAAAGCCCACAACTCCGTGGCACTTTTTTCATCTTT-AAGTCCACAACTCCGTGGCACC----
1283357 TCT
61 -CT
* * * ** *
1283360 GTTTAAAGCCCACAACTCCGTGGCACTCTTTT-ACCCTTTTCAAAGCCCACGGCTCCGTGGCACT
1 -TTTAAAGCCCACAACTCCGTGGCACTTTTTTCA-TC-TTT--AAGTCCACAACTCCGTGGCACC
1283424 C-
61 CT
* * * *
1283425 TTTAAAGCCCACAACTCCGTGGCACCTTCTTC-T-TTTCAAAGCCCACAACTCTGTGGCACCTTC
1 TTTAAAGCCCACAACTCCGTGGCACTTTTTTCATCTTT--AAGTCCACAACTCCGTGGCA-C--C
1283488 TTCT
61 --CT
* *
1283492 TTTCAAAGCCCACGACTCCGTGGCACTCTTTTT-A-----AAGCCCACAACTCCGTGGCACTCTT
1 TTT-AAAGCCCACAACTCCGTGGCACT-TTTTTCATCTTTAAGTCCACAACTCCGTGGCAC-C--
*
1283551 TT
61 CT
*
1283553 TCCTTCTAAGCCCACAACTCCGTGGCACTTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCT
1 T--TT-AAAGCCCACAACTCCGTGGCAC-TTTTTTCATCTTTAAGTCCACAACTCCGTGGCACC-
1283618 TTTTTTTCT
61 -------CT
* *
1283627 TTTAAAGCCCAAAACTCCGTGGCACTCTTTTTC-CCTTTTAAGTCCACAACTCCGTGGCA
1 TTTAAAGCCCACAACTCCGTGGCACT-TTTTTCATC-TTTAAGTCCACAACTCCGTGGCA
1283686 TCTTTCTCTC
Statistics
Matches: 494, Mismatches: 44, Indels: 70
0.81 0.07 0.12
Matches are distributed among these distances:
60 4 0.01
61 103 0.21
62 152 0.31
63 47 0.10
64 30 0.06
66 3 0.01
67 6 0.01
68 45 0.09
69 24 0.05
70 5 0.01
71 69 0.14
72 2 0.00
74 4 0.01
ACGTcount: A:0.21, C:0.34, G:0.13, T:0.31
Consensus pattern (62 bp):
TTTAAAGCCCACAACTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCCT
Found at i:1283307 original size:27 final size:27
Alignment explanation
Indices: 1283267--1283318 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
1283257 TTTTTTCATC
* *
1283267 TTTAAGTCCACAACTCCGTGGCACCCG
1 TTTAAGCCCACAACTCCGTAGCACCCG
*
1283294 TTTAAGCCCGCAACTCCGTAGCACC
1 TTTAAGCCCACAACTCCGTAGCACC
1283319 TTTTTCTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.23, C:0.38, G:0.17, T:0.21
Consensus pattern (27 bp):
TTTAAGCCCACAACTCCGTAGCACCCG
Found at i:1283450 original size:132 final size:128
Alignment explanation
Indices: 1283047--1283690 Score: 646
Period size: 132 Copynumber: 5.0 Consensus size: 128
1283037 GCATTTTTTC
* *
1283047 TTTAAAGCCCACAACTCCGTGGCACCTTGTTCCTTTTAAA-TCCACAACTCCGTGGCACC----C
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGTCCACAACTCCGTGGCACCTTTTC
* * *
1283107 TTTTAAAGCCCACAATTCCGTGGCACT-TTTTTCATCTTTAAGTCCACAACTCCGTGGCACCCT
66 TTTTAAAGCCCACAACTCCGTGGCACTCTTTTCCAT-TTTAAGTCCACAACTCCGTGGCACTCT
* * *
1283170 TTTAAAGCCCACAATTCCGTGGCACTTTTTTCATCTTT-AAGTCCACAACTCCGTGGCACC----
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTC-TTTTTAAAGTCCACAACTCCGTGGCACCTTTT
* * * * *
1283230 CTCTTAAAGCCCACAATTCCGTGGCACT-TTTTTCATCTTTAAGTCCACAACTCCGTGGCACCCG
65 CTTTTAAAGCCCACAACTCCGTGGCACTCTTTTCCAT-TTTAAGTCCACAACTCCGTGGCACTCT
* * *
1283294 TTT-AAGCCCGCAACTCCGTAGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGTCCACAACTCCGTGGCACC-TTTT
* * **
1283358 CTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTACCCTTTTCAAAGCCCACGGCTCCGTGGCAC
65 CT-TTTAAAGCCCACAACTCCGTGGCACTCTTTT-CCATTTT--AAGTCCACAACTCCGTGGCAC
1283423 TC-
126 TCT
* * * *
1283425 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCTGTGGCACCTTCTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGTCCACAACTCCGTGGCACCTT-TT
* * *
1283490 CTTTTCAAAGCCCACGACTCCGTGGCACTC--TT---TTTAAAGCCCACAACTCCGTGGCACTCT
65 CTTTT-AAAGCCCACAACTCCGTGGCACTCTTTTCCATTTTAAGTCCACAACTCCGTGGCACTC-
1283550 TTT
128 --T
* * *
1283553 TCCTTCTAAGCCCACAACTCCGTGGCACTTTTTTTCATCTTT-AAGTCCACAACTCCGTGGCACC
1 T--TT-AAAGCCCACAACTCCGTGGCAC-CTTTTTC-TTTTTAAAGTCCACAACTCCGTGGCACC
* *
1283617 TTTTTTTTCTTTTAAAGCCCAAAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCACAACTCCGT
61 ----TTTTCTTTTAAAGCCCACAACTCCGTGGCACTC-TTTTCCATTTTAAGTCCACAACTCCGT
1283682 GGCA-TCT
121 GGCACTCT
1283689 TT
1 TT
1283691 CTCTCTTCCT
Statistics
Matches: 445, Mismatches: 41, Indels: 59
0.82 0.08 0.11
Matches are distributed among these distances:
122 4 0.01
123 76 0.17
124 108 0.24
126 3 0.01
128 3 0.01
129 24 0.05
130 11 0.02
131 31 0.07
132 122 0.27
133 3 0.01
134 23 0.05
135 7 0.02
136 4 0.01
137 2 0.00
139 2 0.00
140 22 0.05
ACGTcount: A:0.21, C:0.34, G:0.13, T:0.32
Consensus pattern (128 bp):
TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGTCCACAACTCCGTGGCACCTTTTC
TTTTAAAGCCCACAACTCCGTGGCACTCTTTTCCATTTTAAGTCCACAACTCCGTGGCACTCT
Found at i:1283534 original size:63 final size:64
Alignment explanation
Indices: 1283323--1283659 Score: 311
Period size: 63 Copynumber: 5.1 Consensus size: 64
1283313 AGCACCTTTT
1283323 TCTTTTT-AAAGCCCACAACTCCGTGGCACCTTTTTCTGTTT-AAAGCCCACAACTCCGTGGCAC
1 TCTTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCT-TTTCAAAGCCCACAACTCCGTGGCAC
**
1283386 TCTTTTACCCTTTTCAAAGCCCACGGCTCCGTGGCA-C----TC-TTT-AAAGCCCACAACTCCG
1 TC---T----TTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCG
1283444 TGGCACC
59 TGGCA-C
* * *
1283451 TTCTTCTTTTCAAAGCCCACAACTCTGTGGCACCTTCTTCTTTTCAAAGCCCACGACTCCGTGGC
1 -TC-T-TTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTGGC
1283516 AC
63 AC
* *
1283518 TCTTTTT-AAAGCCCACAACTCCGTGGCACTCTTTTTC-CTTCTAAGCCCACAACTCCGTGGCAC
1 TCTTTTTCAAAGCCCACAACTCCGTGGCAC-CTTTTTCTTTTCAAAGCCCACAACTCCGTGGCAC
* * *
1283581 TTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCTTTTTTTTCTTTT-AAAGCCCAAAACTCC
1 TCTTTTTCA-----AAGCCCACAACTCCGTGGCACC---TTTTTCTTTTCAAAGCCCACAACTCC
1283645 GTGGCAC
58 GTGGCAC
1283652 TCTTTTTC
1 TCTTTTTC
1283660 CCTTTTAAGT
Statistics
Matches: 229, Mismatches: 17, Indels: 48
0.78 0.06 0.16
Matches are distributed among these distances:
61 24 0.10
62 1 0.00
63 52 0.23
64 37 0.16
65 2 0.01
66 9 0.04
67 4 0.02
68 21 0.09
69 20 0.09
70 5 0.02
71 52 0.23
72 2 0.01
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.33
Consensus pattern (64 bp):
TCTTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCAC
Found at i:1283604 original size:35 final size:35
Alignment explanation
Indices: 1283521--1283690 Score: 211
Period size: 35 Copynumber: 4.8 Consensus size: 35
1283511 GTGGCACTCT
*
1283521 TTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC-C
1 TTTT-AAGCCCACAACTCCGTGGCACTTTTTTTCTC
*
1283556 TTCTAAGCCCACAACTCCGTGGCACTTTTTTTCATC
1 TTTTAAGCCCACAACTCCGTGGCACTTTTTTTC-TC
*
1283592 -TTTAAGTCCACAACTCCGTGGCACCTTTTTTT-TC
1 TTTTAAGCCCACAACTCCGTGGCA-CTTTTTTTCTC
* * *
1283626 TTTTAAAGCCCAAAACTCCGTGGCACTCTTTTTCCC
1 TTTT-AAGCCCACAACTCCGTGGCACTTTTTTTCTC
*
1283662 TTTTAAGTCCACAACTCCGTGGCATCTTT
1 TTTTAAGCCCACAACTCCGTGGCA-CTTT
1283691 CTCTCTTCCT
Statistics
Matches: 117, Mismatches: 11, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
34 30 0.26
35 52 0.44
36 35 0.30
ACGTcount: A:0.20, C:0.32, G:0.12, T:0.36
Consensus pattern (35 bp):
TTTTAAGCCCACAACTCCGTGGCACTTTTTTTCTC
Found at i:1283731 original size:32 final size:32
Alignment explanation
Indices: 1283695--1283803 Score: 168
Period size: 32 Copynumber: 3.4 Consensus size: 32
1283685 ATCTTTCTCT
1283695 CTTCCTAAAGCCCACACAAGTCGGTGGCAACC
1 CTTCCTAAAGCCCACACAAGTCGGTGGCAACC
* *
1283727 CTTCCCAAAGCCCACACAAGTTGGTGGCAACC
1 CTTCCTAAAGCCCACACAAGTCGGTGGCAACC
*
1283759 ATTCTCTAAAGCCCACACAAGTCGGTGGCAACC
1 CTTC-CTAAAGCCCACACAAGTCGGTGGCAACC
1283792 CTT-CT-AAGCCCA
1 CTTCCTAAAGCCCA
1283804 ATATAGCTGG
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
30 7 0.10
31 2 0.03
32 33 0.47
33 28 0.40
ACGTcount: A:0.28, C:0.37, G:0.17, T:0.17
Consensus pattern (32 bp):
CTTCCTAAAGCCCACACAAGTCGGTGGCAACC
Found at i:1283732 original size:71 final size:70
Alignment explanation
Indices: 1283326--1283708 Score: 260
Period size: 71 Copynumber: 5.7 Consensus size: 70
1283316 ACCTTTTTCT
* * *
1283326 TTTTAAAGCCCACAACTCCGTGGCACCTTTT-TCTGTT-TAAAGCCCACAACTCCGTGGCACTCT
1 TTTT-AAGTCCACAACTCCGTGGCACCTTTTCTCTCTTCTAAAGCCCAAAACTCCGTGGCACTCT
*
1283389 TTTACCC
65 CTT-CCC
* ** *
1283396 TTTTCAAAGCCCACGGCTCCGTGGCA--------CTCTT-TAAAGCCCACAACTCCGTGGCAC-C
1 TTTT--AAGTCCACAACTCCGTGGCACCTTTTCTCTCTTCTAAAGCCCAAAACTCCGTGGCACTC
1283451 TTCTT--C
64 -TCTTCCC
* * **
1283457 TTTTCAAAGCCCACAACTCTGTGGCACCTTCTTCT-T-TTC-AAAGCCCACGACTCCGTGGCA--
1 TTTT--AAGTCCACAACTCCGTGGCACCTT-TTCTCTCTTCTAAAGCCCAAAACTCCGTGGCACT
1283517 CTCTT---
63 CTCTTCCC
* * * *
1283522 TTTAAAGCCCACAACTCCGTGGCACTCTTTT-TC-CTTCT-AAGCCCACAACTCCGTGGCACTTT
1 TTTTAAGTCCACAACTCCGTGGCAC-CTTTTCTCTCTTCTAAAGCCCAAAACTCCGTGGCACTCT
* * *
1283584 TTTTCA
65 CTTCCC
* * *
1283590 TCTTTAAGTCCACAACTCCGTGGCACCTTTTTTTTCTTTTAAAGCCCAAAACTCCGTGGCACTCT
1 T-TTTAAGTCCACAACTCCGTGGCACCTTTTCTCTCTTCTAAAGCCCAAAACTCCGTGGCACTC-
*
1283655 TTTTCCC
64 TCTTCCC
*
1283662 TTTTAAGTCCACAACTCCGTGGCATC-TTTCTCTCTTCCTAAAGCCCA
1 TTTTAAGTCCACAACTCCGTGGCACCTTTTCTCTCTT-CTAAAGCCCA
1283709 CACAAGTCGG
Statistics
Matches: 261, Mismatches: 25, Indels: 53
0.77 0.07 0.16
Matches are distributed among these distances:
61 24 0.09
62 1 0.00
63 45 0.17
64 33 0.13
65 6 0.02
66 4 0.02
67 1 0.00
68 28 0.11
69 24 0.09
70 16 0.06
71 73 0.28
72 6 0.02
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.32
Consensus pattern (70 bp):
TTTTAAGTCCACAACTCCGTGGCACCTTTTCTCTCTTCTAAAGCCCAAAACTCCGTGGCACTCTC
TTCCC
Found at i:1283860 original size:49 final size:49
Alignment explanation
Indices: 1283796--1284418 Score: 792
Period size: 49 Copynumber: 12.7 Consensus size: 49
1283786 GCAACCCTTC
* * * * *
1283796 TAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGACACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
1283845 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
1283893 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* **
1283936 TAAGTCCAATATAGCTGGCCTTGAATCAGCATGTTGGCACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
* * * *
1283988 TAAATCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
1284037 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
1284086 TAAGACCAATGTAGCTGGCCTTGACTCAGGACATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
1284135 TAAGTCCAATGTAGCTGGCCTTGACTTAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
1284184 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
1284233 TAAGACCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
1284282 TAAGTCCAATGTAGCTGGCCTTGACTCAGCATATTGGCACCTTCACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
1284331 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
* *
1284383 TAAGTTCAATGTAGCTGGCCTTGAATCAACACATTG
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
1284419 ACATCCTTTT
Statistics
Matches: 504, Mismatches: 58, Indels: 21
0.86 0.10 0.04
Matches are distributed among these distances:
43 39 0.08
45 1 0.00
48 45 0.09
49 338 0.67
50 3 0.01
51 2 0.00
52 76 0.15
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (49 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:1284178 original size:147 final size:147
Alignment explanation
Indices: 1283796--1284427 Score: 909
Period size: 147 Copynumber: 4.3 Consensus size: 147
1283786 GCAACCCTTC
* * * * * *
1283796 TAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGACACCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGACCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
* * * * *
1283861 GGCCTTGAATCAGCACATTGGCACC-TCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
66 GGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGCCCAATATAGCTGGCCTTGAATCAGCAT
1283925 ATTGGCA-C-----CTT
131 ATTGGCACCTTTATCTT
* * ** *
1283936 TAAGTCCAATATAGCTGGCCTTGAATCAGCATGTTGGCACCTTTTCCATCTTTAAATCCAATGTA
1 TAAGACCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TTT--ATCTTTAAGTCCAATGTA
1284001 GCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGCCCAATATAGCTGGCCTTGAATCAG
63 GCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGCCCAATATAGCTGGCCTTGAATCAG
1284066 CATATTGGCACCTTTATCTT
128 CATATTGGCACCTTTATCTT
* *
1284086 TAAGACCAATGTAGCTGGCCTTGACTCAGGACATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
1 TAAGACCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
*
1284151 GGCCTTGACTTAGCACATTGGCACCTTCACCATTAAGCCCAATATAGCTGGCCTTGAATCAGCAT
66 GGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGCCCAATATAGCTGGCCTTGAATCAGCAT
1284216 ATTGGCACCTTTATCTT
131 ATTGGCACCTTTATCTT
*
1284233 TAAGACCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
1 TAAGACCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
* * *
1284298 GGCCTTGACTCAGCATATTGGCACCTTCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAT
66 GGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGCCCAATATAGCTGGCCTTGAATCAGCAT
1284363 ATTGGCACCTTTTCCATCTT
131 ATTGGCACC-TTT--ATCTT
** * *
1284383 TAAGTTCAATGTAGCTGGCCTTGAATCAACACATTGACATCCTTT
1 TAAGACCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CCTTT
1284428 TTCTCATCTT
Statistics
Matches: 449, Mismatches: 29, Indels: 17
0.91 0.06 0.03
Matches are distributed among these distances:
140 37 0.08
141 2 0.00
143 44 0.10
144 42 0.09
145 1 0.00
147 235 0.52
148 3 0.01
149 3 0.01
150 77 0.17
151 5 0.01
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.31
Consensus pattern (147 bp):
TAAGACCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
GGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGCCCAATATAGCTGGCCTTGAATCAGCAT
ATTGGCACCTTTATCTT
Done.