Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold115
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: 1475684
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 8 of 10
Found at i:1126384 original size:79 final size:79
Alignment explanation
Indices: 1126235--1126388 Score: 184
Period size: 79 Copynumber: 1.9 Consensus size: 79
1126225 GAAAATCGAT
* * * * ** * *
1126235 GTTTTGAAAATAAAATCAAGGTTGGAGTATCCCCTCAAAAATAACGGGATTGGAGTTTTTCTGAT
1 GTTTCGAAAATAAAATCAAGGTTGGAGTATCCCCTCAAAAATAAAGGGATTAGAGTATCCCCGAC
*
1126300 TGTGAAAAATTAGA
66 GGTGAAAAATTAGA
* * *
1126314 GTTTCGAAAATAAAATCTAGGTTGGAGTATTCCCTCGAAAATAATAGGG-TTAGAGTATCCCCGA
1 GTTTCGAAAATAAAATCAAGGTTGGAGTATCCCCTCAAAAATAA-AGGGATTAGAGTATCCCCGA
1126378 CGGTGAAAAAT
65 CGGTGAAAAAT
1126389 CGGTATTTTA
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
79 59 0.95
80 3 0.05
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.29
Consensus pattern (79 bp):
GTTTCGAAAATAAAATCAAGGTTGGAGTATCCCCTCAAAAATAAAGGGATTAGAGTATCCCCGAC
GGTGAAAAATTAGA
Found at i:1129164 original size:13 final size:13
Alignment explanation
Indices: 1129146--1129170 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1129136 CTATTTATGA
1129146 TGTATCGATACAC
1 TGTATCGATACAC
1129159 TGTATCGATACA
1 TGTATCGATACA
1129171 TAAATAGTGA
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:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:1129248 original size:16 final size:15
Alignment explanation
Indices: 1129221--1129251 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
1129211 GTGATACGTG
1129221 AACAGTATGAACAGT
1 AACAGTATGAACAGT
1129236 AACAGTGATGAACAGT
1 AACAGT-ATGAACAGT
1129252 GATGTATCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.45, C:0.13, G:0.23, T:0.19
Consensus pattern (15 bp):
AACAGTATGAACAGT
Found at i:1134757 original size:13 final size:13
Alignment explanation
Indices: 1134739--1134763 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1134729 CTATTTATGA
1134739 TGTATCGATACAC
1 TGTATCGATACAC
1134752 TGTATCGATACA
1 TGTATCGATACA
1134764 TAAATAGTGA
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:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:1134841 original size:16 final size:15
Alignment explanation
Indices: 1134814--1134844 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
1134804 GTGATACGTG
1134814 AACAGTATGAACAGT
1 AACAGTATGAACAGT
1134829 AACAGTGATGAACAGT
1 AACAGT-ATGAACAGT
1134845 GATGTATCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.45, C:0.13, G:0.23, T:0.19
Consensus pattern (15 bp):
AACAGTATGAACAGT
Found at i:1140350 original size:13 final size:13
Alignment explanation
Indices: 1140332--1140356 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1140322 CTATTTATGA
1140332 TGTATCGATACAC
1 TGTATCGATACAC
1140345 TGTATCGATACA
1 TGTATCGATACA
1140357 TAAATAGTGA
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:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:1140434 original size:16 final size:15
Alignment explanation
Indices: 1140407--1140437 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
1140397 GTGATACGTG
1140407 AACAGTATGAACAGT
1 AACAGTATGAACAGT
1140422 AACAGTGATGAACAGT
1 AACAGT-ATGAACAGT
1140438 GATGTATCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.45, C:0.13, G:0.23, T:0.19
Consensus pattern (15 bp):
AACAGTATGAACAGT
Found at i:1141120 original size:20 final size:21
Alignment explanation
Indices: 1141095--1141135 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
1141085 TGATCAAACC
1141095 AGAATGTATCGATACA-ATGA
1 AGAATGTATCGATACATATGA
*
1141115 AGAATGTATTGATACATATGA
1 AGAATGTATCGATACATATGA
1141136 GTAAAGCCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.44, C:0.07, G:0.20, T:0.29
Consensus pattern (21 bp):
AGAATGTATCGATACATATGA
Found at i:1142261 original size:61 final size:61
Alignment explanation
Indices: 1142185--1142309 Score: 162
Period size: 61 Copynumber: 2.0 Consensus size: 61
1142175 GATGATAAGG
* * * *
1142185 ATGAGAAAAATGCCAATGTGCTAATTCAAGGTCAGCAACAT-TGGACTTAAGGATGCGAAGA
1 ATGAGAAAAATGCCAATATACTAATTCAAGGTCAGCAACATCAGG-CTTAAAGATGCGAAGA
* * * *
1142246 ATGATAAAAGTGCCAATATACTAATTCATGGTCAGCAATATCAGGCTTAAAGATGCGAAGA
1 ATGAGAAAAATGCCAATATACTAATTCAAGGTCAGCAACATCAGGCTTAAAGATGCGAAGA
1142307 ATG
1 ATG
1142310 CCAATGTGCT
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
61 53 0.96
62 2 0.04
ACGTcount: A:0.40, C:0.14, G:0.22, T:0.23
Consensus pattern (61 bp):
ATGAGAAAAATGCCAATATACTAATTCAAGGTCAGCAACATCAGGCTTAAAGATGCGAAGA
Found at i:1143016 original size:32 final size:33
Alignment explanation
Indices: 1142928--1143048 Score: 120
Period size: 32 Copynumber: 3.7 Consensus size: 33
1142918 GTGAAGAAAA
* *
1142928 GTTGCCACCAACTTGTATGGGC-TTAGAGGAAG
1 GTTGCCACCGACTTGTGTGGGCTTTAGAGGAAG
* *
1142960 GTTGCCATCGACTTGTGTAGGCTTTAG-GGAAG
1 GTTGCCACCGACTTGTGTGGGCTTTAGAGGAAG
* * * *
1142992 GTTGCCACCGGCTTGTGTGGGCTTTTGAGAAAA
1 GTTGCCACCGACTTGTGTGGGCTTTAGAGGAAG
* ** *
1143025 GATGTTACCAACTTGTGTGGGCTT
1 GTTGCCACCGACTTGTGTGGGCTT
1143049 AAAAGGATGA
Statistics
Matches: 72, Mismatches: 15, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
32 46 0.64
33 26 0.36
ACGTcount: A:0.20, C:0.17, G:0.32, T:0.31
Consensus pattern (33 bp):
GTTGCCACCGACTTGTGTGGGCTTTAGAGGAAG
Found at i:1144641 original size:16 final size:16
Alignment explanation
Indices: 1144620--1144658 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
1144610 CATCTAGACC
1144620 TTTTTTTTT-ATTT-T
1 TTTTTTTTTGATTTGT
1144634 TTTATTTTTTGATTTGT
1 TTT-TTTTTTGATTTGT
1144651 TTTTTTTT
1 TTTTTTTT
1144659 ATGAATGATG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 3 0.14
15 6 0.27
16 9 0.41
17 4 0.18
ACGTcount: A:0.08, C:0.00, G:0.05, T:0.87
Consensus pattern (16 bp):
TTTTTTTTTGATTTGT
Found at i:1157161 original size:20 final size:20
Alignment explanation
Indices: 1157135--1157192 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
1157125 CTGTTGGACA
*
1157135 CAATGTATCGATACATTTTT
1 CAATGTATCGATACATTTTC
* * *
1157155 TAATGTATCGATACAATGTC
1 CAATGTATCGATACATTTTC
*
1157175 CCATGTATCGATACATTT
1 CAATGTATCGATACATTT
1157193 CACTTAAGGT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (20 bp):
CAATGTATCGATACATTTTC
Found at i:1157263 original size:19 final size:19
Alignment explanation
Indices: 1157218--1157273 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
1157208 TTGCCAATTT
1157218 CATGTATCGATACAATTAAG
1 CATGTATCGATACAA-TAAG
* *
1157238 TATGTATCGATACAATGAG
1 CATGTATCGATACAATAAG
*
1157257 CATGTATTGATACAATA
1 CATGTATCGATACAATA
1157274 TATCGATACA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATAAG
Found at i:1158065 original size:13 final size:13
Alignment explanation
Indices: 1158047--1158073 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1158037 CTTTGTCAAA
1158047 TGCTAAAATTTAT
1 TGCTAAAATTTAT
1158060 TGCTAAAATTTAT
1 TGCTAAAATTTAT
1158073 T
1 T
1158074 TTTCAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.48
Consensus pattern (13 bp):
TGCTAAAATTTAT
Found at i:1161173 original size:78 final size:78
Alignment explanation
Indices: 1161074--1161229 Score: 303
Period size: 78 Copynumber: 2.0 Consensus size: 78
1161064 TACTCATCGG
1161074 TCTTTCACAAGGTTTAACTTGATCCATTTGAAACCCTTTGAGTAACTCCTTTGTATATTTTGCTT
1 TCTTTCACAAGGTTTAACTTGATCCATTTGAAACCCTTTGAGTAACTCCTTTGTATATTTTGCTT
1161139 GATTGATGAAGAT
66 GATTGATGAAGAT
*
1161152 TCTTTCACAAGGTTTAACTTGATCCATTTGAAACCCTTTGAGTAGCTCCTTTGTATATTTTGCTT
1 TCTTTCACAAGGTTTAACTTGATCCATTTGAAACCCTTTGAGTAACTCCTTTGTATATTTTGCTT
1161217 GATTGATGAAGAT
66 GATTGATGAAGAT
1161230 CTTGTCCTTT
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 77 1.00
ACGTcount: A:0.25, C:0.17, G:0.16, T:0.42
Consensus pattern (78 bp):
TCTTTCACAAGGTTTAACTTGATCCATTTGAAACCCTTTGAGTAACTCCTTTGTATATTTTGCTT
GATTGATGAAGAT
Found at i:1166278 original size:19 final size:19
Alignment explanation
Indices: 1166249--1166295 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
1166239 TCATTTAACA
*
1166249 ATACAAATGAGTATGTATAG
1 ATAC-AATGAGCATGTATAG
*
1166269 ATACAATGAGCATGTATCG
1 ATACAATGAGCATGTATAG
1166288 ATACAATG
1 ATACAATG
1166296 CATCGTTACA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 21 0.84
20 4 0.16
ACGTcount: A:0.43, C:0.11, G:0.19, T:0.28
Consensus pattern (19 bp):
ATACAATGAGCATGTATAG
Found at i:1170239 original size:39 final size:39
Alignment explanation
Indices: 1170180--1170261 Score: 155
Period size: 39 Copynumber: 2.1 Consensus size: 39
1170170 GATTTAAAAG
1170180 TTGACTTTGAATGGACTGTTCACTTAAACAAGGCCCATT
1 TTGACTTTGAATGGACTGTTCACTTAAACAAGGCCCATT
*
1170219 TTGACTTTGAATGGATTGTTCACTTAAACAAGGCCCATT
1 TTGACTTTGAATGGACTGTTCACTTAAACAAGGCCCATT
1170258 TTGA
1 TTGA
1170262 AGAAAATGTT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.35
Consensus pattern (39 bp):
TTGACTTTGAATGGACTGTTCACTTAAACAAGGCCCATT
Found at i:1170328 original size:167 final size:167
Alignment explanation
Indices: 1170052--1170389 Score: 649
Period size: 167 Copynumber: 2.0 Consensus size: 167
1170042 GATTTAAAAG
1170052 TTGACTTTGAATGGACTGTTCACTTAAACAAGGCCCATTTTGAAGAAAATGTTGATGATCATACT
1 TTGACTTTGAATGGACTGTTCACTTAAACAAGGCCCATTTTGAAGAAAATGTTGATGATCATACT
* *
1170117 TTACTACTCGATCTACTAAAAATAATTAAGTGAGAGGATGAACGAATGATAACGATTTAAAAGTT
66 TTACTACCCGATCTACTAAAAATAATTAAGTGAGAGGATGAACGAATGATAACAATTTAAAAGTT
1170182 GACTTTGAATGGACTGTTCACTTAAACAAGGCCCATT
131 GACTTTGAATGGACTGTTCACTTAAACAAGGCCCATT
*
1170219 TTGACTTTGAATGGATTGTTCACTTAAACAAGGCCCATTTTGAAGAAAATGTTGATGATCATACT
1 TTGACTTTGAATGGACTGTTCACTTAAACAAGGCCCATTTTGAAGAAAATGTTGATGATCATACT
1170284 TTACTACCCGATCTACTAAAAATAATTAAGTGAGAGGATGAACGAATGATAACAATTTAAAAGTT
66 TTACTACCCGATCTACTAAAAATAATTAAGTGAGAGGATGAACGAATGATAACAATTTAAAAGTT
1170349 GACTTTGAATGGACTGTTCACTTAAACAAGGCCCATT
131 GACTTTGAATGGACTGTTCACTTAAACAAGGCCCATT
1170386 TTGA
1 TTGA
1170390 AGAAACTGTT
Statistics
Matches: 168, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
167 168 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (167 bp):
TTGACTTTGAATGGACTGTTCACTTAAACAAGGCCCATTTTGAAGAAAATGTTGATGATCATACT
TTACTACCCGATCTACTAAAAATAATTAAGTGAGAGGATGAACGAATGATAACAATTTAAAAGTT
GACTTTGAATGGACTGTTCACTTAAACAAGGCCCATT
Found at i:1170338 original size:128 final size:128
Alignment explanation
Indices: 1170219--1170458 Score: 426
Period size: 128 Copynumber: 1.9 Consensus size: 128
1170209 AAGGCCCATT
*
1170219 TTGACTTTGAATGGATTGTTCACTTAAACAAGGCCCATTTTGAAGAAAATGTTGATGATCATACT
1 TTGACTTTGAATGGACTGTTCACTTAAACAAGGCCCATTTTGAAGAAAATGTTGATGATCATACT
***
1170284 TTACTACCCGATCTACTAAAAATAATTAAGTGAGAGGATGAACGAATGATAACAATTTAAAAG
66 TTACTACCCGATCTACTAAAAATAATTAAGTGAGAGGATGAACGAATGATAACAAGGCAAAAG
*
1170347 TTGACTTTGAATGGACTGTTCACTTAAACAAGGCCCATTTTGAAGAAACTGTTGATGATCATACT
1 TTGACTTTGAATGGACTGTTCACTTAAACAAGGCCCATTTTGAAGAAAATGTTGATGATCATACT
*
1170412 TTACTACCCGATCTACTAAAAATAATTGAGTGAGAGGATGAACGAAT
66 TTACTACCCGATCTACTAAAAATAATTAAGTGAGAGGATGAACGAAT
1170459 ACTGCCCTAA
Statistics
Matches: 109, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
128 109 1.00
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (128 bp):
TTGACTTTGAATGGACTGTTCACTTAAACAAGGCCCATTTTGAAGAAAATGTTGATGATCATACT
TTACTACCCGATCTACTAAAAATAATTAAGTGAGAGGATGAACGAATGATAACAAGGCAAAAG
Found at i:1171634 original size:55 final size:55
Alignment explanation
Indices: 1171550--1171660 Score: 222
Period size: 55 Copynumber: 2.0 Consensus size: 55
1171540 GTACCACTTG
1171550 TACCATGATGACCTCTGATTCTATACCTATCAGTAATTGAAAGGTCTATGGGTTA
1 TACCATGATGACCTCTGATTCTATACCTATCAGTAATTGAAAGGTCTATGGGTTA
1171605 TACCATGATGACCTCTGATTCTATACCTATCAGTAATTGAAAGGTCTATGGGTTA
1 TACCATGATGACCTCTGATTCTATACCTATCAGTAATTGAAAGGTCTATGGGTTA
1171660 T
1 T
1171661 GTGTTGAGAT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (55 bp):
TACCATGATGACCTCTGATTCTATACCTATCAGTAATTGAAAGGTCTATGGGTTA
Found at i:1174551 original size:13 final size:13
Alignment explanation
Indices: 1174533--1174557 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1174523 ATATTGCTTA
1174533 GTATCGATACATT
1 GTATCGATACATT
1174546 GTATCGATACAT
1 GTATCGATACAT
1174558 GTTCTTGGTA
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):
GTATCGATACATT
Found at i:1174572 original size:32 final size:33
Alignment explanation
Indices: 1174512--1174576 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
1174502 CACACCTAGA
1174512 TGTACCGATACATATTGCTTAGTATCGATACAT
1 TGTACCGATACATATTGCTTAGTATCGATACAT
* * *
1174545 TGTATCGATACATGTT-CTTGGTATCGATACAT
1 TGTACCGATACATATTGCTTAGTATCGATACAT
1174577 CATGAATTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 15 0.52
33 14 0.48
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (33 bp):
TGTACCGATACATATTGCTTAGTATCGATACAT
Found at i:1174667 original size:24 final size:24
Alignment explanation
Indices: 1174640--1174693 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
1174630 GATACATTAT
*
1174640 TGTTCACATATCACTGTTCATCAA
1 TGTTCACATATCACTATTCATCAA
** *
1174664 TGTTCATGTATCACTATTCATCAC
1 TGTTCACATATCACTATTCATCAA
1174688 TGTTCA
1 TGTTCA
1174694 TCACTGTTCA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.26, C:0.24, G:0.09, T:0.41
Consensus pattern (24 bp):
TGTTCACATATCACTATTCATCAA
Found at i:1174686 original size:10 final size:10
Alignment explanation
Indices: 1174649--1174704 Score: 58
Period size: 10 Copynumber: 5.2 Consensus size: 10
1174639 TTGTTCACAT
1174649 ATCACTGTTC
1 ATCACTGTTC
*
1174659 ATCAATGTTC
1 ATCACTGTTC
*
1174669 ATGTATCACTATTC
1 ----ATCACTGTTC
1174683 ATCACTGTTC
1 ATCACTGTTC
1174693 ATCACTGTTC
1 ATCACTGTTC
1174703 AT
1 AT
1174705 GTATCGATAC
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
10 30 0.79
14 8 0.21
ACGTcount: A:0.25, C:0.25, G:0.09, T:0.41
Consensus pattern (10 bp):
ATCACTGTTC
Found at i:1174694 original size:24 final size:24
Alignment explanation
Indices: 1174648--1174694 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
1174638 ATTGTTCACA
*
1174648 TATCACTGTTCATCAATGTTCATG
1 TATCACTATTCATCAATGTTCATG
*
1174672 TATCACTATTCATCACTGTTCAT
1 TATCACTATTCATCAATGTTCAT
1174695 CACTGTTCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.26, C:0.23, G:0.09, T:0.43
Consensus pattern (24 bp):
TATCACTATTCATCAATGTTCATG
Found at i:1175864 original size:76 final size:76
Alignment explanation
Indices: 1175655--1175866 Score: 189
Period size: 76 Copynumber: 2.8 Consensus size: 76
1175645 TGCTATCAAC
* * *
1175655 TGTTGATGAGAAATTGTAAAAACCACATATTCCCCATCATGTTCTTCTTTTTTAG-TTCATTATC
1 TGTTGATGA-AAATT-TAGAAACCACATATTCTCAATCATGTTCTTCTTTTTTAGCTTCATTATC
* *
1175719 AGTTTGTTTTGAT
64 AGTTTATTTTAAT
* * * * * * * ** *
1175732 TATTAATGGAAATTTTAGAAACCACATAATT-TTAGTTATGCTT-TTCTCTTCCAGCTT-GTTAT
1 TGTTGAT-GAAAATTTAGAAACCACAT-ATTCTCAATCATG-TTCTTCTTTTTTAGCTTCATTAT
*
1175794 CATTTTATTTTAAT
63 CAGTTTATTTTAAT
*
1175808 TGTTGATGAAAAGTTTAGAAACCATATATTCTCAATCATGTTCTTCTTTTTTAGCTTCA
1 TGTTGATGAAAA-TTTAGAAACCACATATTCTCAATCATGTTCTTCTTTTTTAGCTTCA
1175867 AGATGATATT
Statistics
Matches: 100, Mismatches: 27, Indels: 16
0.70 0.19 0.11
Matches are distributed among these distances:
75 9 0.09
76 73 0.73
77 16 0.16
78 2 0.02
ACGTcount: A:0.28, C:0.15, G:0.11, T:0.46
Consensus pattern (76 bp):
TGTTGATGAAAATTTAGAAACCACATATTCTCAATCATGTTCTTCTTTTTTAGCTTCATTATCAG
TTTATTTTAAT
Found at i:1176424 original size:64 final size:64
Alignment explanation
Indices: 1176356--1177179 Score: 257
Period size: 64 Copynumber: 12.9 Consensus size: 64
1176346 GTTAACCCTC
* * * *
1176356 TAAACCTAGGTTACATCATGGTCATCCTTGTTTAACTGTATCGGTCTCACCTTGGTCAATGTTT
1 TAAACCCAGGTTACATCATGGTCATCCTTGTTTAACTGTATCAGTTTCACCTTGGTCAATCTTT
* * * * * * **
1176420 TAAACCCATGTTACATCCTAGTCATCCTTGTTTTACTATATCAGTTTTATTTTGGTCAATCTTT
1 TAAACCCAGGTTACATCATGGTCATCCTTGTTTAACTGTATCAGTTTCACCTTGGTCAATCTTT
* * * * * * * * * *
1176484 TAAACCCAGATTACCTTC-TGGTTATCCTTGTTTGACTGTATCAATTTTACCCTGGTTAACCCTT
1 TAAACCCAGGTTA-CATCATGGTCATCCTTGTTTAACTGTATCAGTTTCACCTTGGTCAATCTTT
* * * ** *
1176548 TAAACCCAGGATTATATCATGGTCA-CCTTTGTTTAACTGTATCAGTTTCACCCTAGTTGACCTT
1 TAAACCCAGG-TTACATCATGGTCATCC-TTGTTTAACTGTATCAGTTTCACCTTGGTCAATCTT
1176612 T
64 T
** * * ** * * * ** * * *
1176613 TAAACATAGGTTACATCCTAGTCATATTTGCTTAATTATATTGGTTTTACCCTGGTCAACCTTT
1 TAAACCCAGGTTACATCATGGTCATCCTTGTTTAACTGTATCAGTTTCACCTTGGTCAATCTTT
* * * * * * * * * * *
1176677 TAGACCTAGGATTATATCTTGGTCA-CTTTTGTTTGATTGTATCAGTTAT-ACCCTAGTCAACCC
1 TAAACCCAGG-TTACATCATGGTCATC-CTTGTTTAACTGTATCAGTT-TCACCTTGGTCAATCT
1176740 TT
63 TT
* * ** * * ** * * *
1176742 TAAAACTAGGTTACAT-ATTGGTCATATTTGCTTGAA-TATATTGGTGTT-GCCTTAGTCAACCT
1 TAAACCCAGGTTACATCA-TGGTCATCCTTG-TTTAACTGTATCAGT-TTCACCTTGGTCAATCT
1176804 TT
63 TT
* * * * * * * *
1176806 TAGACCTAGGTTACATCCTAGTTATCCTTGTTTGACTGTATTAGTTTCA-TTCTGGT---TC---
1 TAAACCCAGGTTACATCATGGTCATCCTTGTTTAACTGTATCAGTTTCACCT-TGGTCAATCTTT
* * * * * ** * * *
1176864 TATACTCTA-ATTATATCATGGCCATCCTTGTTTAACTGTATCAGTTTTGCCCTAGTCAACCTTT
1 TAAAC-CCAGGTTACATCATGGTCATCCTTGTTTAACTGTATCAGTTTCACCTTGGTCAATCTTT
* * * ** ** *
1176928 TAAACCTAAGTTACATCTTGGTCATCTCTAT-TTTGAA-TGTATTGGTTTTGCCCTGGTCAAATC
1 TAAACCCAGGTTACATCATGGTCATC-CT-TGTTT-AACTGTATCAGTTTCACCTTGGTC-AATC
*
1176991 -TA
62 TTT
* ** * * * * * * * * *
1176993 TAGACATAGGTTACATCTTGGTTATCCTAGTTTGATTATATC-GATTTTACCTTGGTCAACCCTT
1 TAAACCCAGGTTACATCATGGTCATCCTTGTTTAACTGTATCAG-TTTCACCTTGGTCAATCTTT
** * ** * * * *
1177057 TAAACTTAGGTTACATCTTGGTCATCCTCATTTGACTGTATCTGTTTCACTTTGGTTAAT-TCTT
1 TAAACCCAGGTTACATCATGGTCATCCTTGTTTAACTGTATCAGTTTCACCTTGGTCAATCT-TT
* * * * * * * * * *
1177121 TAAACCTAAGTTACCTCCTGATCACCCTTGTTTGACTATATCGGTTTTACCTTGGTCAA
1 TAAACCCAGGTTACATCATGGTCATCCTTGTTTAACTGTATCAGTTTCACCTTGGTCAA
1177180 CCCTCTGGAC
Statistics
Matches: 570, Mismatches: 155, Indels: 70
0.72 0.19 0.09
Matches are distributed among these distances:
58 37 0.06
59 3 0.01
61 2 0.00
63 14 0.02
64 358 0.63
65 149 0.26
66 7 0.01
ACGTcount: A:0.23, C:0.21, G:0.14, T:0.42
Consensus pattern (64 bp):
TAAACCCAGGTTACATCATGGTCATCCTTGTTTAACTGTATCAGTTTCACCTTGGTCAATCTTT
Found at i:1176671 original size:193 final size:192
Alignment explanation
Indices: 1176312--1176766 Score: 452
Period size: 193 Copynumber: 2.4 Consensus size: 192
1176302 TTACATCTTA
* * * *
1176312 GTTATCCTTGTTTGATTGTCTCAATTTTGCCCTAGTTAACCCTCTAAACCTAGGTTACATCATGG
1 GTTATCCTTGTTTGACTGTATCAATTTTACCCTAGTTAACCCTCTAAACCCAGGTTACATCATGG
* * * ** * *
1176377 TCATCCTTGTTTAACTGTATCGGTCTCACCTTGGTCAATGTTTTAAACCCATGTTACATCCTAGT
66 TCATCCTTGTTTAACTGTATCAGTCTCACCCTAGTCAACCTTTTAAACACAGGTTACATCCTAGT
* * * *** *
1176442 CATCCTTGTTTTACTATATCAGTTTTATTTTGGTCAATCTTTTAAACCCAGATTACCTTCTG
131 CATACTTGCTTAACTATATCAGTTTTACCCTGGTCAACCTTTTAAACCCAGATTACCTTCTG
* * *
1176504 GTTATCCTTGTTTGACTGTATCAATTTTACCCTGGTTAACCCTTTAAACCCAGGATTATATCATG
1 GTTATCCTTGTTTGACTGTATCAATTTTACCCTAGTTAACCCTCTAAACCCAGG-TTACATCATG
* ** *
1176569 GTCA-CCTTTGTTTAACTGTATCAGTTTCACCCTAGTTGACCTTTTAAACATAGGTTACATCCTA
65 GTCATCC-TTGTTTAACTGTATCAGTCTCACCCTAGTCAACCTTTTAAACACAGGTTACATCCTA
* * ** * *
1176633 GTCATATTTGCTTAATTATATTGGTTTTACCCTGGTCAACCTTTTAGACCTAGGATTA--TATCT
129 GTCATACTTGCTTAACTATATCAGTTTTACCCTGGTCAACCTTTTAAACCCA-GATTACCT-TC-
1176696 TG
191 TG
* * * * * * * * *
1176698 GTCA-CTTTTGTTTGATTGTATCAGTTATACCCTAGTCAACCCTTTAAAACTAGGTTACAT-ATT
1 GTTATC-CTTGTTTGACTGTATCAATTTTACCCTAGTTAACCCTCTAAACCCAGGTTACATCA-T
1176761 GGTCAT
64 GGTCAT
1176767 ATTTGCTTGA
Statistics
Matches: 214, Mismatches: 41, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
192 52 0.24
193 112 0.52
194 50 0.23
ACGTcount: A:0.24, C:0.21, G:0.14, T:0.42
Consensus pattern (192 bp):
GTTATCCTTGTTTGACTGTATCAATTTTACCCTAGTTAACCCTCTAAACCCAGGTTACATCATGG
TCATCCTTGTTTAACTGTATCAGTCTCACCCTAGTCAACCTTTTAAACACAGGTTACATCCTAGT
CATACTTGCTTAACTATATCAGTTTTACCCTGGTCAACCTTTTAAACCCAGATTACCTTCTG
Found at i:1176700 original size:129 final size:129
Alignment explanation
Indices: 1176528--1176854 Score: 376
Period size: 129 Copynumber: 2.5 Consensus size: 129
1176518 ACTGTATCAA
* * * * *
1176528 TTTTACCCTGGTTAACCCTTTAAACCCAGGATTATATCATGGTCACCTTTGTTTAACTGTATCAG
1 TTTTACCCTGGTCAACCTTTTAGACCTAGGATTATATCATGGTCACCTTTGTTTGACTGTATCAG
** * *
1176593 TTTCACCCTAGTTGA-CCTTTTAAACATAGGTTACATCCTAGTCATATTTGCTT-AATTATATTG
66 TTTCACCCTAGTCAACCCTTTAAAAC-TAGGTTACATACTAGTCATATTTGCTTGAA-TATATTG
1176656 G
129 G
* * *
1176657 TTTTACCCTGGTCAACCTTTTAGACCTAGGATTATATCTTGGTCACTTTTGTTTGATTGTATCAG
1 TTTTACCCTGGTCAACCTTTTAGACCTAGGATTATATCATGGTCACCTTTGTTTGACTGTATCAG
* *
1176722 TTAT-ACCCTAGTCAACCCTTTAAAACTAGGTTACATATTGGTCATATTTGCTTGAATATATTGG
66 TT-TCACCCTAGTCAACCCTTTAAAACTAGGTTACATACTAGTCATATTTGCTTGAATATATTGG
* * * * * * * * *
1176786 TGTTGCCTTAGTCAACCTTTTAGACCTAGG-TTACATCCTAGTTATCC-TTGTTTGACTGTATTA
1 TTTTACCCTGGTCAACCTTTTAGACCTAGGATTATATCATGGTCA-CCTTTGTTTGACTGTATCA
1176849 GTTTCA
65 GTTTCA
1176855 TTCTGGTTCT
Statistics
Matches: 168, Mismatches: 25, Indels: 11
0.82 0.12 0.05
Matches are distributed among these distances:
127 1 0.01
128 28 0.17
129 127 0.76
130 12 0.07
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.42
Consensus pattern (129 bp):
TTTTACCCTGGTCAACCTTTTAGACCTAGGATTATATCATGGTCACCTTTGTTTGACTGTATCAG
TTTCACCCTAGTCAACCCTTTAAAACTAGGTTACATACTAGTCATATTTGCTTGAATATATTGG
Found at i:1186731 original size:25 final size:23
Alignment explanation
Indices: 1186701--1186747 Score: 76
Period size: 25 Copynumber: 2.0 Consensus size: 23
1186691 TAATTATAAA
1186701 TATAATAAATATAATTATAATTAAT
1 TATAATAAATATAA--ATAATTAAT
1186726 TATAATAAATATAAATAATTAA
1 TATAATAAATATAAATAATTAA
1186748 AAAAAAAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 8 0.36
25 14 0.64
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (23 bp):
TATAATAAATATAAATAATTAAT
Found at i:1187458 original size:11 final size:11
Alignment explanation
Indices: 1187430--1187498 Score: 65
Period size: 11 Copynumber: 6.4 Consensus size: 11
1187420 TACACAATAC
1187430 AATAACAATATA
1 AATAA-AATATA
1187442 TAA-AAAA-ATA
1 -AATAAAATATA
1187452 AATAAAATAT-
1 AATAAAATATA
*
1187462 AATATAATATA
1 AATAAAATATA
1187473 AA-AATAATATA
1 AATAA-AATATA
*
1187484 AATACAATATA
1 AATAAAATATA
1187495 AATA
1 AATA
1187499 TATCAAAATA
Statistics
Matches: 48, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
9 2 0.04
10 17 0.35
11 24 0.50
12 3 0.06
13 2 0.04
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.28
Consensus pattern (11 bp):
AATAAAATATA
Found at i:1187468 original size:16 final size:16
Alignment explanation
Indices: 1187449--1187509 Score: 72
Period size: 16 Copynumber: 3.8 Consensus size: 16
1187439 ATATAAAAAA
1187449 ATAAATAAAATATAAT
1 ATAAATAAAATATAAT
1187465 ATAATATAAAA-ATAAT
1 ATAA-ATAAAATATAAT
*
1187481 ATAAATACAATATAA-
1 ATAAATAAAATATAAT
*
1187496 ATATATCAAAATAT
1 ATAAAT-AAAATAT
1187510 CAAAATTTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
15 10 0.26
16 23 0.59
17 6 0.15
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (16 bp):
ATAAATAAAATATAAT
Found at i:1187475 original size:27 final size:27
Alignment explanation
Indices: 1187434--1187500 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 27
1187424 CAATACAATA
*
1187434 ACAATAT-ATAAAAAAATAA-ATAAAAT
1 ACAATATAATATAAAAATAATAT-AAAT
*
1187460 ATAATATAATATAAAAATAATATAAAT
1 ACAATATAATATAAAAATAATATAAAT
1187487 ACAATATAAATATA
1 ACAATAT-AATATA
1187501 TCAAAATATC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
26 6 0.17
27 21 0.60
28 8 0.23
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (27 bp):
ACAATATAATATAAAAATAATATAAAT
Found at i:1187508 original size:27 final size:27
Alignment explanation
Indices: 1187425--1187509 Score: 82
Period size: 32 Copynumber: 3.0 Consensus size: 27
1187415 AATCTTACAC
*
1187425 AATACAATA-ACAATATATAAAAAAATA
1 AATACAATATA-AATATATAAAAATATA
*
1187452 AATAAAATATAATATAATATAAAAATAATATA
1 AATACAATATAA-AT-ATAT--AAA-AATATA
*
1187484 AATACAATATAAATATATCAAAATAT
1 AATACAATATAAATATATAAAAATAT
1187510 CAAAATTTAT
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
27 14 0.29
28 5 0.10
29 4 0.08
30 4 0.08
31 5 0.10
32 16 0.33
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (27 bp):
AATACAATATAAATATATAAAAATATA
Found at i:1187610 original size:19 final size:19
Alignment explanation
Indices: 1187554--1187610 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 19
1187544 AAATTTTTAA
*
1187554 AATATATAATATATTAAAAAT
1 AATATA-AATATA-TAAATAT
1187575 AATA-AAATAATATAAATAT
1 AATATAAAT-ATATAAATAT
1187594 AATATAAATATATAAAT
1 AATATAAATATATAAAT
1187611 TTTTTAGATC
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
19 21 0.64
20 8 0.24
21 4 0.12
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
AATATAAATATATAAATAT
Found at i:1189894 original size:10 final size:10
Alignment explanation
Indices: 1189876--1189926 Score: 52
Period size: 10 Copynumber: 5.2 Consensus size: 10
1189866 AAAATTTTTA
1189876 TATTT-ATAT
1 TATTTAATAT
1189885 TATTTAATAT
1 TATTTAATAT
* *
1189895 T-TATAATAA
1 TATTTAATAT
1189904 TATTTAAATAT
1 TATTT-AATAT
*
1189915 TATTTTATAT
1 TATTTAATAT
1189925 TA
1 TA
1189927 ATATTTATAG
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
9 12 0.35
10 13 0.38
11 9 0.26
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
TATTTAATAT
Found at i:1189894 original size:16 final size:16
Alignment explanation
Indices: 1189875--1189935 Score: 61
Period size: 16 Copynumber: 3.6 Consensus size: 16
1189865 AAAAATTTTT
1189875 ATATTTATATTATTTA
1 ATATTTATATTATTTA
1189891 ATATTTATAATAATATTTA
1 ATATTTAT-AT--TATTTA
*
1189910 A-ATATTATTTTATATTA
1 ATAT-TTATATTAT-TTA
1189927 ATATTTATA
1 ATATTTATA
1189936 GATATTGATA
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
16 11 0.30
17 10 0.27
18 5 0.14
19 11 0.30
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
ATATTTATATTATTTA
Found at i:1189906 original size:12 final size:12
Alignment explanation
Indices: 1189889--1189935 Score: 60
Period size: 12 Copynumber: 3.9 Consensus size: 12
1189879 TTATATTATT
1189889 TAATATTTATAA
1 TAATATTTATAA
1189901 TAATATTTA-AA
1 TAATATTTATAA
* *
1189912 TATTATTTTATAT
1 TAATA-TTTATAA
1189925 TAATATTTATA
1 TAATATTTATA
1189936 GATATTGATA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 6 0.20
12 19 0.63
13 5 0.17
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
TAATATTTATAA
Found at i:1190542 original size:18 final size:18
Alignment explanation
Indices: 1190502--1190545 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
1190492 ATTCCAATTG
1190502 TTATA-TAAAAAATAATA
1 TTATATTAAAAAATAATA
* * *
1190519 TAATATTAAAAAATATTT
1 TTATATTAAAAAATAATA
1190537 TTATATTAA
1 TTATATTAA
1190546 TATTTTATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TTATATTAAAAAATAATA
Found at i:1190598 original size:25 final size:27
Alignment explanation
Indices: 1190552--1190616 Score: 73
Period size: 25 Copynumber: 2.5 Consensus size: 27
1190542 TTAATATTTT
1190552 ATATT-TTATAATTAAAATTAAATAAAA
1 ATATTATT-TAATTAAAATTAAATAAAA
*
1190579 ATATTATTTAATT-AAA-TAAATAATA
1 ATATTATTTAATTAAAATTAAATAAAA
* *
1190604 ATATAAATTAATT
1 ATATTATTTAATT
1190617 TAATTTAACT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
25 19 0.56
26 3 0.09
27 10 0.29
28 2 0.06
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (27 bp):
ATATTATTTAATTAAAATTAAATAAAA
Found at i:1190612 original size:21 final size:21
Alignment explanation
Indices: 1190566--1190614 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
1190556 TTTATAATTA
*
1190566 AAATTAAATAAAAATATTATT
1 AAATTAAATAAAAATAATATT
*
1190587 TAATTAAATAAATAATAATA-T
1 AAATTAAATAAA-AATAATATT
1190608 AAATTAA
1 AAATTAA
1190615 TTTAATTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 18 0.75
22 6 0.25
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
AAATTAAATAAAAATAATATT
Found at i:1191942 original size:28 final size:28
Alignment explanation
Indices: 1191861--1191942 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
1191851 TTTTGGAGAT
*
1191861 AATAACGAGGTTGGAGTGTTCCCTCG--GA
1 AATAACGAGGTTGGAGT-AT-CCTCGATGA
* * *
1191889 AGTAACGGGGTTGGAGTATCCCCGATGA
1 AATAACGAGGTTGGAGTATCCTCGATGA
1191917 AATAACGAGGTTGGAGTATCCTCGAT
1 AATAACGAGGTTGGAGTATCCTCGAT
1191943 TGTGAAAAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
26 4 0.09
27 1 0.02
28 40 0.89
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.24
Consensus pattern (28 bp):
AATAACGAGGTTGGAGTATCCTCGATGA
Found at i:1192085 original size:51 final size:51
Alignment explanation
Indices: 1191925--1192095 Score: 198
Period size: 51 Copynumber: 3.3 Consensus size: 51
1191915 GAAATAACGA
* * *
1191925 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTA-TTTTGAAAATAAAATCGG
** * * * * *
1191977 AATTGGAGTATCCCCGATTAAAGGAGAAATTGGTGTTGTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT--ATGAAAAATTGGTATTTTGAAAATAAAATCGG
* * *
1192030 GGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTGAAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
1192081 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
1192096 TCAGAAATAA
Statistics
Matches: 97, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
51 39 0.40
52 16 0.16
53 32 0.33
54 10 0.10
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
Found at i:1192141 original size:27 final size:28
Alignment explanation
Indices: 1192078--1192153 Score: 102
Period size: 27 Copynumber: 2.8 Consensus size: 28
1192068 AAAATAAAGT
*
1192078 CGGGGTTGGAGTATCCCCTCA-GAAATAA
1 CGGGGTTGGAGTATCCCC-GATGAAATAA
*
1192106 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
1192133 CGGGGTTGGAGTGTCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
1192154 TGTGAAGAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 25 0.57
28 19 0.43
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:1194637 original size:13 final size:13
Alignment explanation
Indices: 1194619--1194644 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1194609 ACAAAGATCC
1194619 ATGTATCGATACA
1 ATGTATCGATACA
1194632 ATGTATCGATACA
1 ATGTATCGATACA
1194645 CAGAAAAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1194640 original size:33 final size:33
Alignment explanation
Indices: 1194598--1194664 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1194588 AAAATTTCCA
***
1194598 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
1194631 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
1194664 A
1 A
1194665 TTTCCTTGGC
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:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:1194708 original size:19 final size:18
Alignment explanation
Indices: 1194684--1194751 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
1194674 CAGTAGCTAA
1194684 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
1194703 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
1194718 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
1194735 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
1194752 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:1194724 original size:13 final size:13
Alignment explanation
Indices: 1194706--1194730 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1194696 ACAATACTTA
1194706 TGTATCGATACAT
1 TGTATCGATACAT
1194719 TGTATCGATACA
1 TGTATCGATACA
1194731 AAACTTATGT
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:1194728 original size:32 final size:32
Alignment explanation
Indices: 1194687--1194749 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1194677 TAGCTAATTA
*
1194687 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
1194719 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
1194750 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:1194831 original size:21 final size:21
Alignment explanation
Indices: 1194807--1194863 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
1194797 CATTTGTAGG
1194807 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
1194828 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
1194849 ATGTATCGATACATT
1 ATGTATCGATACATT
1194864 TAAATTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:1194894 original size:16 final size:16
Alignment explanation
Indices: 1194875--1194906 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
1194865 AAATTTTTTT
1194875 TTTTTTTTTTTTTCAA
1 TTTTTTTTTTTTTCAA
1194891 TTTTTTTTTTTTTCAA
1 TTTTTTTTTTTTTCAA
1194907 ACACTTTATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTTTTTTTTTTCAA
Found at i:1195187 original size:20 final size:19
Alignment explanation
Indices: 1195162--1195199 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
1195152 AAATATATAT
*
1195162 ATATATTTTACTAATAAATC
1 ATATATTATACTAA-AAATC
1195182 ATATATTATACTAAAAAT
1 ATATATTATACTAAAAAT
1195200 AAATACTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (19 bp):
ATATATTATACTAAAAATC
Found at i:1195291 original size:18 final size:18
Alignment explanation
Indices: 1195271--1195314 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
1195261 TGTAAAAATA
1195271 AAAAATTATTT-ATTTAT
1 AAAAATTATTTAATTTAT
*
1195288 AAAAATAATTTAATTTAT
1 AAAAATTATTTAATTTAT
*
1195306 TAAAATTAT
1 AAAAATTAT
1195315 AATATATTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 10 0.43
18 13 0.57
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
AAAAATTATTTAATTTAT
Found at i:1201073 original size:15 final size:14
Alignment explanation
Indices: 1201053--1201090 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
1201043 CAACAAATAA
*
1201053 TAAAATTAATTCTTT
1 TAAAATTAAAT-TTT
1201068 TAAAA-TAAATTTT
1 TAAAATTAAATTTT
1201081 TAAAATTAAA
1 TAAAATTAAA
1201091 AAAATCGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 8 0.38
14 8 0.38
15 5 0.24
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (14 bp):
TAAAATTAAATTTT
Found at i:1201594 original size:20 final size:21
Alignment explanation
Indices: 1201557--1201598 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
1201547 ATTTTTTTTT
1201557 TCTTTCTAAATCCTTTCTTTC
1 TCTTTCTAAATCCTTTCTTTC
*
1201578 TCTTTCT-AATTCTTTCTTTC
1 TCTTTCTAAATCCTTTCTTTC
1201598 T
1 T
1201599 TTTTTATCAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.12, C:0.26, G:0.00, T:0.62
Consensus pattern (21 bp):
TCTTTCTAAATCCTTTCTTTC
Found at i:1201903 original size:18 final size:20
Alignment explanation
Indices: 1201870--1201906 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
1201860 AGACTTTTCC
1201870 AATTTATATGTAAAAATTTG
1 AATTTATATGTAAAAATTTG
1201890 AATTT-TAT-TAAAAATTT
1 AATTTATATGTAAAAATTT
1201907 TAAAGTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 3 0.18
20 5 0.29
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (20 bp):
AATTTATATGTAAAAATTTG
Found at i:1203445 original size:26 final size:27
Alignment explanation
Indices: 1203414--1203470 Score: 89
Period size: 26 Copynumber: 2.1 Consensus size: 27
1203404 CTCAATTTAT
* *
1203414 AATTAAGAATTTTAATTTTATTAAAA-
1 AATTAAAAATTTTAATTTAATTAAAAG
1203440 AATTAAAAATTTTAATTTAATTAAAAG
1 AATTAAAAATTTTAATTTAATTAAAAG
1203467 AATT
1 AATT
1203471 TTATAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
26 24 0.86
27 4 0.14
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.44
Consensus pattern (27 bp):
AATTAAAAATTTTAATTTAATTAAAAG
Found at i:1204385 original size:18 final size:18
Alignment explanation
Indices: 1204350--1204388 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
1204340 TCCACTTCTT
*
1204350 AAAAACTATCAATTTTTA
1 AAAAACTATCAATATTTA
1204368 AAAAACTATTCAA-ATTTA
1 AAAAACTA-TCAATATTTA
1204386 AAA
1 AAA
1204389 CAATAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAAACTATCAATATTTA
Found at i:1205097 original size:21 final size:21
Alignment explanation
Indices: 1205071--1205128 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 21
1205061 ACAAATAGCA
*
1205071 GTAGTAATAAGATTAATTATT
1 GTAGTAATAAGATTAAGTATT
* *
1205092 GTAGTAATAAAATTGAGTATT
1 GTAGTAATAAGATTAAGTATT
* **
1205113 ATAGTAACGAGATTAA
1 GTAGTAATAAGATTAA
1205129 AGTTAATGGT
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.45, C:0.02, G:0.17, T:0.36
Consensus pattern (21 bp):
GTAGTAATAAGATTAAGTATT
Found at i:1205404 original size:26 final size:26
Alignment explanation
Indices: 1205373--1205422 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
1205363 ATTTTTAATT
*
1205373 AATTTATA-TTAGTTGTATAATAATAA
1 AATTTATATTTA-TTATATAATAATAA
1205399 AATTTATATTTATTATATAATAAT
1 AATTTATATTTATTATATAATAAT
1205423 TATAAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 19 0.86
27 3 0.14
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (26 bp):
AATTTATATTTATTATATAATAATAA
Found at i:1207400 original size:21 final size:21
Alignment explanation
Indices: 1207362--1207452 Score: 62
Period size: 21 Copynumber: 4.3 Consensus size: 21
1207352 AATATATATT
*
1207362 TTATTATTAAT-TTTAATCTTA
1 TTATTA-TAATATTCAATCTTA
* * *
1207383 TTATTGTATTATTCAATCTCA
1 TTATTATAATATTCAATCTTA
* *
1207404 TCATTATAATATTTAATCTTA
1 TTATTATAATATTCAATCTTA
* *
1207425 ATATTACAATAATT-AAT-TTCA
1 TTATTATAAT-ATTCAATCTT-A
1207446 TTATTAT
1 TTATTAT
1207453 TATTATTTTT
Statistics
Matches: 53, Mismatches: 14, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
20 5 0.09
21 45 0.85
22 3 0.06
ACGTcount: A:0.36, C:0.09, G:0.01, T:0.54
Consensus pattern (21 bp):
TTATTATAATATTCAATCTTA
Found at i:1207452 original size:42 final size:41
Alignment explanation
Indices: 1207362--1207452 Score: 94
Period size: 42 Copynumber: 2.2 Consensus size: 41
1207352 AATATATATT
* ** *
1207362 TTATTATTAATTTTAATCTTATTATTGTATTATTCAATCTCA
1 TTATTA-TAATTTTAATCTTAATATTCAATAATTCAATCTCA
* *
1207404 TCATTATAATATTTAATCTTAATATTACAATAATT-AATTTCA
1 TTATTATAAT-TTTAATCTTAATATT-CAATAATTCAATCTCA
1207446 TTATTAT
1 TTATTAT
1207453 TATTATTTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
41 4 0.10
42 31 0.77
43 5 0.12
ACGTcount: A:0.36, C:0.09, G:0.01, T:0.54
Consensus pattern (41 bp):
TTATTATAATTTTAATCTTAATATTCAATAATTCAATCTCA
Found at i:1213163 original size:2 final size:2
Alignment explanation
Indices: 1213156--1213182 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1213146 ATGATTAGAT
1213156 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1213183 GCTTGATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1218575 original size:32 final size:32
Alignment explanation
Indices: 1218491--1218575 Score: 143
Period size: 32 Copynumber: 2.7 Consensus size: 32
1218481 AATCTCATTT
* *
1218491 TCACTGTTCATCACTGTTCAGGTATCGATATA
1 TCACTGTTCATCACTGTTCATGTATAGATATA
*
1218523 TCACTGTTCATCACGGTTCATGTATAGATATA
1 TCACTGTTCATCACTGTTCATGTATAGATATA
1218555 TCACTGTTCATCACTGTTCAT
1 TCACTGTTCATCACTGTTCAT
1218576 ATATTACTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 49 1.00
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (32 bp):
TCACTGTTCATCACTGTTCATGTATAGATATA
Found at i:1218638 original size:13 final size:13
Alignment explanation
Indices: 1218622--1218646 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1218612 ATTAATATAT
1218622 TGTATCGATACAG
1 TGTATCGATACAG
1218635 TGTATCGATACA
1 TGTATCGATACA
1218647 TTATGAATAG
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:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:1223850 original size:159 final size:156
Alignment explanation
Indices: 1223530--1224000 Score: 529
Period size: 159 Copynumber: 2.9 Consensus size: 156
1223520 ATTTTTTCTT
* * * * *
1223530 GAAAGTATTAATTCAACTTGATTTTATTTATTTTCGAAAACACCATTTCGTACCCTAATGGAAGC
1 GAAAATATTAATTCAATTTAATTTTATTTATTTTCGAAAATACCATTTCGTACCATAATGGAAG-
* * * * * *
1223595 CCGAAA-AGATACAAAATGTTTTTTTTGAAATCTTTTATACCCCTACGGATGCCCCCTAAGAATG
65 CCGAAAGA-ATACAGAATG---TTTTTGAAATC-TTTATACCTCTACGAATG-CCCATAGGAATA
* * *
1223659 TAAAACATAAAAAAAATAATTAAAATTTATCCC
124 TAAAAGATTAAAAAAATAATTAAAACTTATCCC
* * * *
1223692 GAAAATATTAATTCAATTTTATTTTATTTATTTTTGAAAATGCCATTTCGTACCTTAATGGAAGC
1 GAAAATATTAATTCAATTTAATTTTATTTATTTTCGAAAATACCATTTCGTACCATAATGGAAGC
*
1223757 TCGAAAGAATACAGACTGTTTTTGAAATCTTTGATACCTCTACGAATGCCCATAGGAATATAAAA
66 -CGAAAGAATACAGAATGTTTTTGAAATCTTT-ATACCTCTACGAATGCCCATAGGAATATAAAA
1223822 GATTAAAAATAATAATTAAAACTTATCCC
129 GATTAAAAA-AATAATTAAAACTTATCCC
* *
1223851 -AAAAGTATTAATTCAATTTAATTTTATTTATTTTCAAAAATACCATTTTGTACCATAATGGAAG
1 GAAAA-TATTAATTCAATTTAATTTTATTTATTTTCGAAAATACCATTTCGTACCATAATGGAAG
* * * *
1223915 CCTAAAGGATA-TGAAATGTTTTTGAAATCCTTTATA-CTCCTAC-AGATGCCCATAGGAATACA
65 CCGAAAGAATACAG-AATGTTTTTGAAAT-CTTTATACCT-CTACGA-ATGCCCATAGGAATATA
*
1223977 AAAGATTAGAAAAAATAATAAAAA
126 AAAGATTA-AAAAAATAATTAAAA
1224001 TTTAATTTTA
Statistics
Matches: 270, Mismatches: 29, Indels: 24
0.84 0.09 0.07
Matches are distributed among these distances:
157 4 0.01
158 90 0.33
159 104 0.39
161 1 0.00
162 70 0.26
163 1 0.00
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.34
Consensus pattern (156 bp):
GAAAATATTAATTCAATTTAATTTTATTTATTTTCGAAAATACCATTTCGTACCATAATGGAAGC
CGAAAGAATACAGAATGTTTTTGAAATCTTTATACCTCTACGAATGCCCATAGGAATATAAAAGA
TTAAAAAAATAATTAAAACTTATCCC
Found at i:1226090 original size:165 final size:165
Alignment explanation
Indices: 1225577--1226188 Score: 759
Period size: 165 Copynumber: 3.7 Consensus size: 165
1225567 TCAAACACAA
*
1225577 ATGAAAATGAATGAAATTTTT-AAAAATGATTTAATATGAAATAAATAATAATATTTTATGAATT
1 ATGAAAATGAATG-AATTTTTGAAAAATGATTTAATATGAAATAAATAATAATATTTGATGAATT
* * * * * *
1225641 TAAAAAATTAAAAACCAAGAAAAATTCCTCTGAAAATGATTACGGAGTAAAAAACTTTATTTTTC
65 TAAAAAATTAAAAACCAATAAAAATCCCTCCGAAAA-AATTACGGAGTAGAAAACTCTATTTTTC
* * *
1225706 GAAAATAAGGGAATTTTAAGAAAAAAATTAAAAACTC
129 GAAAATAAGAGAATTTCAAGAAAAAATTTAAAAACTC
* * * *
1225743 ATGAAAATGAATGACTTTTTGAAAAATTATTTATTATGAAATAAATTATAATATTTGATGAATTT
1 ATGAAAATGAATGAATTTTTGAAAAATGATTTAATATGAAATAAATAATAATATTTGATGAATTT
* * * * ** *
1225808 -AGAAATTAAAAACCAA-GAAAATCTCTCCAAAAAAAATTACGGAGTAGAAAACTCCGTTTTTTG
66 AAAAAATTAAAAACCAATAAAAATCCCTCC-GAAAAAATTACGGAGTAGAAAACTCTATTTTTCG
* *
1225871 AAAATAGGAGAATTTCAAGAAAAAATTCAAAAACTC
130 AAAATAAGAGAATTTCAAGAAAAAATTTAAAAACTC
* * * *
1225907 GTGAAAAAGAATGAATTTTTGAAAATTGATTTAATATGAAATAAATAATAATATTTGATGGATTT
1 ATGAAAATGAATGAATTTTTGAAAAATGATTTAATATGAAATAAATAATAATATTTGATGAATTT
* *
1225972 AAAAAATT-AAAACCAATAAAAATCCCTCCGAAAAAATTCACGAAGTAGAAAACTCTATTTTTCA
66 AAAAAATTAAAAACCAATAAAAATCCCTCCGAAAAAATT-ACGGAGTAGAAAACTCTATTTTTCG
* *
1226036 AAAACAAGAGAATTTCAAGGAAAAATTTAAAAACTC
130 AAAATAAGAGAATTTCAAGAAAAAATTTAAAAACTC
* * * *
1226072 TTGAAAATGAAAGAATTTTTTAAAAATGATTTAATATGAAATAAATAATAATATTTGGTGAATTT
1 ATGAAAATGAATGAATTTTTGAAAAATGATTTAATATGAAATAAATAATAATATTTGATGAATTT
* ** * * *
1226137 TAAAAATTTTAAACCCATAAAAAT-CCTCTC-AAAAAATTTACAGAGAAGAAAA
66 AAAAAATTAAAAACCAATAAAAATCCCTC-CGAAAAAA-TTACGGAGTAGAAAA
1226189 TCCCGTAATT
Statistics
Matches: 382, Mismatches: 56, Indels: 17
0.84 0.12 0.04
Matches are distributed among these distances:
164 135 0.35
165 178 0.47
166 69 0.18
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.31
Consensus pattern (165 bp):
ATGAAAATGAATGAATTTTTGAAAAATGATTTAATATGAAATAAATAATAATATTTGATGAATTT
AAAAAATTAAAAACCAATAAAAATCCCTCCGAAAAAATTACGGAGTAGAAAACTCTATTTTTCGA
AAATAAGAGAATTTCAAGAAAAAATTTAAAAACTC
Found at i:1226136 original size:329 final size:330
Alignment explanation
Indices: 1225578--1226234 Score: 864
Period size: 329 Copynumber: 2.0 Consensus size: 330
1225568 CAAACACAAA
* *
1225578 TGAAAATGAATGAAATTTTTAAAAATGATTTAATATGAAATAAATAATAATATTTTATGAATTTA
1 TGAAAAAGAATGAAATTTTTAAAAATGATTTAATATGAAATAAATAATAATATTTGATGAATTTA
* * * * * *
1225643 AAAAATTAAAAACCAAGAAAAATTCCTCTGAAAATGATTACGGAGTAAAAAACTTTATTTTTCGA
66 AAAAATTAAAAACCAAGAAAAATCCCTCCGAAAATAATTACGAAGTAAAAAACTCTATTTTTCAA
* * * * * *
1225708 AAATAAGGGAATTTTAAGAAAAAAATTAAAAACTCATGAAAATGAATGACTTTTTGAAAAATTAT
131 AAACAAGAGAATTTCAAGAAAAAAATTAAAAACTCATGAAAATGAAAGAATTTTTGAAAAATGAT
* * *
1225773 TTATTATGAAATAAATTATAATATTTGATGAA-TTTAGAAA-TTAAAAACCA-AGAAAAT-CTCT
196 TTAATATGAAATAAATAATAATATTTGATGAATTTTAAAAATTTAAAAACCATA-AAAATCCTCT
* * **
1225834 CCAAAAAAAATTACGGAGTAGAAAA-CTCCGTTTTTTGAAAATAGGA-GAATTTCAAGAAAAAAT
260 -C-AAAAAAATTACAGAGAAGAAAATC-CCGTAATTTGAAAATAGGAGGAATTTCAA-AAAAAA-
1225897 TCAAAAACTCG
320 TCAAAAACTCG
* *
1225908 TGAAAAAGAATG-AATTTTTGAAAATTGATTTAATATGAAATAAATAATAATATTTGATGGATTT
1 TGAAAAAGAATGAAATTTTT-AAAAATGATTTAATATGAAATAAATAATAATATTTGATGAATTT
* *
1225972 AAAAAATT-AAAACCAATAAAAATCCCTCCGAAAA-AATTCACGAAGTAGAAAACTCTATTTTTC
65 AAAAAATTAAAAACCAAGAAAAATCCCTCCGAAAATAATT-ACGAAGTAAAAAACTCTATTTTTC
* * * *
1226035 AAAAACAAGAGAATTTCAAGGAAAAATTTAAAAACTCTTGAAAATGAAAGAATTTTTTAAAAATG
129 AAAAACAAGAGAATTTCAAGAAAAAAATTAAAAACTCATGAAAATGAAAGAATTTTTGAAAAATG
* * *
1226100 ATTTAATATGAAATAAATAATAATATTTGGTGAATTTTAAAAATTTTAAACCCATAAAAATCCTC
194 ATTTAATATGAAATAAATAATAATATTTGATGAATTTTAAAAATTTAAAAACCATAAAAATCCTC
* *
1226165 TCAAAAAATTTACAGAGAAGAAAATCCCGTAATTTGAAAATAGGAGGAATTTTAAAAAAAATCAA
259 TCAAAAAAATTACAGAGAAGAAAATCCCGTAATTTGAAAATAGGAGGAATTTCAAAAAAAATCAA
*
1226230 TAACT
324 AAACT
1226235 TAAAAAAATA
Statistics
Matches: 284, Mismatches: 35, Indels: 17
0.85 0.10 0.05
Matches are distributed among these distances:
328 3 0.01
329 144 0.51
330 109 0.38
331 23 0.08
332 5 0.02
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.30
Consensus pattern (330 bp):
TGAAAAAGAATGAAATTTTTAAAAATGATTTAATATGAAATAAATAATAATATTTGATGAATTTA
AAAAATTAAAAACCAAGAAAAATCCCTCCGAAAATAATTACGAAGTAAAAAACTCTATTTTTCAA
AAACAAGAGAATTTCAAGAAAAAAATTAAAAACTCATGAAAATGAAAGAATTTTTGAAAAATGAT
TTAATATGAAATAAATAATAATATTTGATGAATTTTAAAAATTTAAAAACCATAAAAATCCTCTC
AAAAAAATTACAGAGAAGAAAATCCCGTAATTTGAAAATAGGAGGAATTTCAAAAAAAATCAAAA
ACTCG
Found at i:1226252 original size:165 final size:166
Alignment explanation
Indices: 1225577--1226301 Score: 669
Period size: 165 Copynumber: 4.4 Consensus size: 166
1225567 TCAAACACAA
* *
1225577 ATGAAAATGAATGAAATTTTT-AAAAATGATTTAATATGAAATAAATAATAATATTTTATGAATT
1 ATGAAAATGAAAG-AATTTTTGAAAAATGATTTAATATGAAATAAATAATAATATTTGATGAATT
* * * ** **
1225641 TAAAAAATTAAAAACCAAGAAAAATTCCTCT-GAAAATGA-TTACGGAGTAA-AAAA-CTTTATT
65 T-AAAAATTTAAAACCAATAAAAA-TCCTCTCCAAAAAAATTTACGGAG-AAGAAAACCCGTATT
* * *
1225702 TTTCGAAAATAAG-GGAATTTTAAGAAAAAAATTAAAAACTC
127 TTT-GAAAATAGGAGGAATTTCAAG-AAAAAATCAAAAACTC
* * * * *
1225743 ATGAAAATGAATGACTTTTTGAAAAATTATTTATTATGAAATAAATTATAATATTTGATGAATTT
1 ATGAAAATGAAAGAATTTTTGAAAAATGATTTAATATGAAATAAATAATAATATTTGATGAATTT
* * * * *
1225808 AGAAATTAAAAACCAA-GAAAAT-CTCTCCAAAAAAAATTACGGAGTAGAAAACTCCGT-TTTTT
66 AAAAATTTAAAACCAATAAAAATCCTCTCCAAAAAAATTTACGGAGAAGAAAAC-CCGTATTTTT
1225870 GAAAATAGGA-GAATTTCAAGAAAAAATTCAAAAACTC
130 GAAAATAGGAGGAATTTCAAGAAAAAA-TCAAAAACTC
* * * * *
1225907 GTGAAAAAGAATGAATTTTTGAAAATTGATTTAATATGAAATAAATAATAATATTTGATGGATTT
1 ATGAAAATGAAAGAATTTTTGAAAAATGATTTAATATGAAATAAATAATAATATTTGATGAATTT
* * * * * * *
1225972 AAAAAATTAAAACCAATAAAAATCC-CTCCGAAAAAATTCACGAAGTAGAAAACTC-TATTTTTC
66 AAAAATTTAAAACCAATAAAAATCCTCTCCAAAAAAATTTACGGAGAAGAAAACCCGTATTTTTG
** * *
1226035 AAAA-ACAAGAGAATTTCAAGGAAAAATTTAAAAACTC
131 AAAATAGGAG-GAATTTCAA-GAAAAAATCAAAAACTC
* * *
1226072 TTGAAAATGAAAGAATTTTTTAAAAATGATTTAATATGAAATAAATAATAATATTTGGTGAATTT
1 ATGAAAATGAAAGAATTTTTGAAAAATGATTTAATATGAAATAAATAATAATATTTGATGAA-TT
* * * *
1226137 TAAAAATTTTAAACCCATAAAAATCCTCT-C-AAAAAATTTACAGAGAAGAAAATCCCGTA-ATT
65 TAAAAATTTAAAACCAATAAAAATCCTCTCCAAAAAAATTTACGGAGAAGAAAA-CCCGTATTTT
* * *
1226199 TGAAAATAGGAGGAATTTTAA-AAAAAATCAATAACTT
129 TGAAAATAGGAGGAATTTCAAGAAAAAATCAAAAACTC
** * ** * ** *
1226236 AAAAAAATAAAAAGAATTTTCCAAATATGATTTAATGA-GATTTAAA-AGATAATATTTGAAGAA
1 ATGAAAAT-GAAAGAATTTTTGAAAAATGATTTAAT-ATGAAATAAATA-ATAATATTTGATGAA
1226299 TTT
63 TTT
1226302 TGATGCATAA
Statistics
Matches: 464, Mismatches: 73, Indels: 46
0.80 0.13 0.08
Matches are distributed among these distances:
162 4 0.01
163 16 0.03
164 143 0.31
165 188 0.41
166 106 0.23
167 7 0.02
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.31
Consensus pattern (166 bp):
ATGAAAATGAAAGAATTTTTGAAAAATGATTTAATATGAAATAAATAATAATATTTGATGAATTT
AAAAATTTAAAACCAATAAAAATCCTCTCCAAAAAAATTTACGGAGAAGAAAACCCGTATTTTTG
AAAATAGGAGGAATTTCAAGAAAAAATCAAAAACTC
Found at i:1227480 original size:44 final size:44
Alignment explanation
Indices: 1227429--1227892 Score: 377
Period size: 44 Copynumber: 10.6 Consensus size: 44
1227419 AAGAAGGCAG
* * *
1227429 ATTTGACCAGGGTGATAACCGTATGTCAAATCAGAATGAAAAGA
1 ATTTGACCAGGGTGGTAACCATACGTCAAATCAGAATGAAAAGA
* * * * * **
1227473 ATCTGACCAAGGTGGTAACCATAAGTCAGA-CAAGAAAGAGGCAG-
1 ATTTGACCAGGGTGGTAACCATACGTCAAATC-AGAATGA-AAAGA
* *
1227517 ATTTGTCCAGGGTGGT-ACCATATGTCAAATCAGAATGAAAAGA
1 ATTTGACCAGGGTGGTAACCATACGTCAAATCAGAATGAAAAGA
* * * * * *
1227560 ATCTGACCAGGGTGGTAACTATACGTCAGACCTGAAATGAGAAGA
1 ATTTGACCAGGGTGGTAACCATACGTCAAATCAG-AATGAAAAGA
* * * *
1227605 GTTTGACTAGGGTGGTAACCATACGTCAAAT-AG-ACGAAAGCAAA
1 ATTTGACCAGGGTGGTAACCATACGTCAAATCAGAATGAAA--AGA
* *
1227649 ATTTGACCAGGGTGGTAACCATACGTCAAATCAAAATAAAAAGA
1 ATTTGACCAGGGTGGTAACCATACGTCAAATCAGAATGAAAAGA
* * * * *
1227693 ATCTGACCAGGGTGGTAACCATACATTAGA-CAGAAAGAAAA-A
1 ATTTGACCAGGGTGGTAACCATACGTCAAATCAGAATGAAAAGA
* ** *
1227735 GATTTGACTAGGGTGGTAACCATATATCAAATCAAAATGAAAAGA
1 -ATTTGACCAGGGTGGTAACCATACGTCAAATCAGAATGAAAAGA
* * * * * * *
1227780 ATTTGACCAGGGTAGTAACCATATGTTAGATAAAAAAGAAAAG-
1 ATTTGACCAGGGTGGTAACCATACGTCAAATCAGAATGAAAAGA
* * * * * *
1227823 ACTTGACCAAGGTGGTGACCAAACATCAAATCATAATGAAAAGA
1 ATTTGACCAGGGTGGTAACCATACGTCAAATCAGAATGAAAAGA
* * *
1227867 ATCTGACCAAGGTGGTAACTATACGT
1 ATTTGACCAGGGTGGTAACCATACGT
1227893 TAGATAGAAA
Statistics
Matches: 326, Mismatches: 80, Indels: 28
0.75 0.18 0.06
Matches are distributed among these distances:
42 7 0.02
43 96 0.29
44 181 0.56
45 38 0.12
46 4 0.01
ACGTcount: A:0.41, C:0.15, G:0.22, T:0.21
Consensus pattern (44 bp):
ATTTGACCAGGGTGGTAACCATACGTCAAATCAGAATGAAAAGA
Found at i:1227574 original size:87 final size:88
Alignment explanation
Indices: 1227401--1227758 Score: 329
Period size: 87 Copynumber: 4.1 Consensus size: 88
1227391 TCAAGGTGAC
* * * *
1227401 AACCATATGTCAAACAAG-AAGAAGGCAGATTTGACCAGGGTGATAACCGTATGTCAAATCAGAA
1 AACCATACGTCAGACAAGAAAG-AGGCAGATTTGACCAGGGTGGTAACCATATGTCAAATCAGAA
*
1227465 TGAAAAGAATCTGACCAAGGTGGT
65 TGAAAAGAATCTGACCAGGGTGGT
* *
1227489 AACCATAAGTCAGACAAGAAAGAGGCAGATTTGTCCAGGGTGGT-ACCATATGTCAAATCAGAAT
1 AACCATACGTCAGACAAGAAAGAGGCAGATTTGACCAGGGTGGTAACCATATGTCAAATCAGAAT
1227553 GAAAAGAATCTGACCAGGGTGGT
66 GAAAAGAATCTGACCAGGGTGGT
* ** * * *
1227576 AACTATACGTCAGACCTGAAATGA-GAAGAGTTTGACTAGGGTGGTAACCATACGTCAAAT-AG-
1 AACCATACGTCAGACAAGAAA-GAGGCAGA-TTTGACCAGGGTGGTAACCATATGTCAAATCAGA
* * *
1227638 ACGAAAGCAAAATTTGACCAGGGTGGT
64 ATGAAA--AGAATCTGACCAGGGTGGT
* * * * * ** * *
1227665 AACCATACGTCAAATCAAAATAAAAAG-A-ATCTGACCAGGGTGGTAACCATACATTAGA-CAGA
1 AACCATACGTCAGA-CAAGA-AAGAGGCAGATTTGACCAGGGTGGTAACCATATGTCAAATCAGA
* * *
1227727 AAGAAAA-AGATTTGACTAGGGTGGT
64 ATGAAAAGA-ATCTGACCAGGGTGGT
1227752 AACCATA
1 AACCATA
1227759 TATCAAATCA
Statistics
Matches: 228, Mismatches: 30, Indels: 25
0.81 0.11 0.09
Matches are distributed among these distances:
86 1 0.00
87 90 0.39
88 79 0.35
89 51 0.22
90 4 0.02
91 3 0.01
ACGTcount: A:0.41, C:0.16, G:0.24, T:0.20
Consensus pattern (88 bp):
AACCATACGTCAGACAAGAAAGAGGCAGATTTGACCAGGGTGGTAACCATATGTCAAATCAGAAT
GAAAAGAATCTGACCAGGGTGGT
Found at i:1227790 original size:131 final size:132
Alignment explanation
Indices: 1227517--1227890 Score: 368
Period size: 131 Copynumber: 2.9 Consensus size: 132
1227507 AAAGAGGCAG
* * * * *
1227517 ATTTGTCCAGGGTGGT-ACCATATGTCAAATCAGAATGAAAAGAATCTGACCAGGGTGGTAACTA
1 ATTTGACCAGGGTGGTAACCATACGTCAAATCAAAATAAAAAGAATCTGACCAGGGTGGTAACCA
* * * * *
1227581 TACGTCAGACCTGAAATGAGAAGAGTTTGACTAGGGTGGTAACCATACGTCAAATAGACGAAAGC
66 TACATCAGACCAGAAATGAAAAGAGTTTGACTAGGGTGGTAACCATACATCAAATAAACGAAA-C
1227646 AAA
130 AAA
1227649 ATTTGACCAGGGTGGTAACCATACGTCAAATCAAAATAAAAAGAATCTGACCAGGGTGGTAACCA
1 ATTTGACCAGGGTGGTAACCATACGTCAAATCAAAATAAAAAGAATCTGACCAGGGTGGTAACCA
* * *
1227714 TACATTAGA-CAGAAA-GAAAA-AGATTTGACTAGGGTGGTAACCATATATCAAATCAAAATGAA
66 TACATCAGACCAGAAATGAAAAGAG-TTTGACTAGGGTGGTAACCATACATCAAAT--AAACGAA
*
1227776 A-AGA
128 ACAAA
* * * * * * * *
1227780 ATTTGACCAGGGTAGTAACCATATGTTAGAT-AAAAAAGAAAAGACT-TGACCAAGGTGGTGACC
1 ATTTGACCAGGGTGGTAACCATACGTCAAATCAAAATA-AAAAGAATCTGACCAGGGTGGTAACC
* * * * * * * * *
1227843 AAACATCAAATCA-TAATGAAAAGAATCTGACCAAGGTGGTAACTATAC
65 ATACATCAGACCAGAAATGAAAAGAGTTTGACTAGGGTGGTAACCATAC
1227891 GTTAGATAGA
Statistics
Matches: 202, Mismatches: 32, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
130 31 0.15
131 93 0.46
132 21 0.10
133 57 0.28
ACGTcount: A:0.42, C:0.15, G:0.22, T:0.21
Consensus pattern (132 bp):
ATTTGACCAGGGTGGTAACCATACGTCAAATCAAAATAAAAAGAATCTGACCAGGGTGGTAACCA
TACATCAGACCAGAAATGAAAAGAGTTTGACTAGGGTGGTAACCATACATCAAATAAACGAAACA
AA
Found at i:1227909 original size:87 final size:87
Alignment explanation
Indices: 1227523--1227911 Score: 381
Period size: 87 Copynumber: 4.4 Consensus size: 87
1227513 GCAGATTTGT
* * * * * * *
1227523 CCAGGGTGGT-ACCATATGTCAAATCAG-AATGAAAAGAATCTGACCAGGGTGGTAACTATACGT
1 CCAGGGTGGTAACCATACGTTAGAT-AGAAAAGAAAAGACT-TGACCAGGGTGGTAACCATACAT
* * * * * *
1227586 CAGACCTGAAATGAGAAGAGTTTGA
64 CAAATC-AAAATGAAAAGAATCTGA
* * * * * *
1227611 CTAGGGTGGTAACCATACGTCAAATAGACGAAAGCAAA-ATTTGACCAGGGTGGTAACCATACGT
1 CCAGGGTGGTAACCATACGTTAGATAGA--AAAGAAAAGACTTGACCAGGGTGGTAACCATACAT
*
1227675 CAAATCAAAATAAAAAGAATCTGA
64 CAAATCAAAATGAAAAGAATCTGA
* * * * *
1227699 CCAGGGTGGTAACCATACATTAGACAG-AAAGAAAAAGATTTGACTAGGGTGGTAACCATATATC
1 CCAGGGTGGTAACCATACGTTAGATAGAAAAG-AAAAGACTTGACCAGGGTGGTAACCATACATC
*
1227763 AAATCAAAATGAAAAGAATTTGA
65 AAATCAAAATGAAAAGAATCTGA
* * * * * *
1227786 CCAGGGTAGTAACCATATGTTAGATAAAAAAGAAAAGACTTGACCAAGGTGGTGACCAAACATCA
1 CCAGGGTGGTAACCATACGTTAGATAGAAAAGAAAAGACTTGACCAGGGTGGTAACCATACATCA
*
1227851 AATCATAATGAAAAGAATCTGA
66 AATCAAAATGAAAAGAATCTGA
* *
1227873 CCAAGGTGGTAACTATACGTTAGATAGAAAAGAAAAGAC
1 CCAGGGTGGTAACCATACGTTAGATAGAAAAGAAAAGAC
1227912 ACTTGGCTGG
Statistics
Matches: 252, Mismatches: 42, Indels: 15
0.82 0.14 0.05
Matches are distributed among these distances:
85 4 0.02
86 3 0.01
87 148 0.59
88 50 0.20
89 39 0.15
90 2 0.01
91 6 0.02
ACGTcount: A:0.43, C:0.15, G:0.22, T:0.20
Consensus pattern (87 bp):
CCAGGGTGGTAACCATACGTTAGATAGAAAAGAAAAGACTTGACCAGGGTGGTAACCATACATCA
AATCAAAATGAAAAGAATCTGA
Found at i:1231663 original size:20 final size:20
Alignment explanation
Indices: 1231638--1231692 Score: 110
Period size: 20 Copynumber: 2.8 Consensus size: 20
1231628 GGTTTTTCCA
1231638 AATGTATCGATACATCATTC
1 AATGTATCGATACATCATTC
1231658 AATGTATCGATACATCATTC
1 AATGTATCGATACATCATTC
1231678 AATGTATCGATACAT
1 AATGTATCGATACAT
1231693 ATACATTCTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATCATTC
Found at i:1233522 original size:19 final size:19
Alignment explanation
Indices: 1233498--1233547 Score: 100
Period size: 19 Copynumber: 2.6 Consensus size: 19
1233488 AAATAGTAAA
1233498 TGTATCGATACATAAATGT
1 TGTATCGATACATAAATGT
1233517 TGTATCGATACATAAATGT
1 TGTATCGATACATAAATGT
1233536 TGTATCGATACA
1 TGTATCGATACA
1233548 ATGTATCGCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (19 bp):
TGTATCGATACATAAATGT
Found at i:1233617 original size:13 final size:13
Alignment explanation
Indices: 1233599--1233626 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1233589 CATTATTCAA
1233599 TGTATCGATACAT
1 TGTATCGATACAT
1233612 TGTATCGATACAT
1 TGTATCGATACAT
1233625 TG
1 TG
1233627 ATTTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1233621 original size:33 final size:33
Alignment explanation
Indices: 1233579--1233644 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1233569 GCCAAGGAAA
1233579 TGTATCGATACATT-ATTCAATGTATCGATACAT
1 TGTATCGATACATTGATT-AATGTATCGATACAT
**
1233612 TGTATCGATACATTGATTTTTGTATCGATACAT
1 TGTATCGATACATTGATTAATGTATCGATACAT
1233645 CTGGGAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 27 0.90
34 3 0.10
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATTGATTAATGTATCGATACAT
Found at i:1240671 original size:11 final size:12
Alignment explanation
Indices: 1240655--1240695 Score: 52
Period size: 11 Copynumber: 3.7 Consensus size: 12
1240645 AGTAAAGACT
1240655 CAAAAAAAA-AA
1 CAAAAAAAACAA
1240666 CAAAAAAAACAA
1 CAAAAAAAACAA
*
1240678 C-AAAAACAC-A
1 CAAAAAAAACAA
1240688 CAAAAAAA
1 CAAAAAAA
1240696 GTGCAAAGGC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
10 2 0.08
11 21 0.81
12 3 0.12
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (12 bp):
CAAAAAAAACAA
Found at i:1242075 original size:61 final size:61
Alignment explanation
Indices: 1241972--1242206 Score: 228
Period size: 61 Copynumber: 3.9 Consensus size: 61
1241962 ATCTCTCTTC
** * * *
1241972 TCAAAGTCCACGACTCAGTGGCATCTCTTCCTAAAGTTCACGACTTAGTGGCATCTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTCTTTTTTAAGTCCACGACTCAGTGGCATCTTTTCT
* * *
1242033 TCAAAGTCTACAACTCAGTGGCATCTCTTTTTTAAGTCCACGACTCAATGGCATCCTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTCTTTTTTAAGTCCACGACTCAGTGGCAT-CTTTTCT
* * * * *
1242095 TCCAAGTCCACGACTTAGTGACAT-TTTTTTCTTCAAAGTCCACGACTCAGTGGCATCTCTTC-
1 TCAAAGTCCACGACTCAGTGGCATCTCTTTT-TT--AAGTCCACGACTCAGTGGCATCTTTTCT
* ** * * *
1242157 CCAAAGTCCACGACTTTGTGGCA-C-C-CTTTTAAGTCCACAACTCTGTGGCA
1 TCAAAGTCCACGACTCAGTGGCATCTCTTTTTTAAGTCCACGACTCAGTGGCA
1242207 CCCTTTTAAG
Statistics
Matches: 145, Mismatches: 24, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
57 18 0.12
59 2 0.01
60 2 0.01
61 51 0.35
62 47 0.32
63 5 0.03
64 20 0.14
ACGTcount: A:0.23, C:0.29, G:0.15, T:0.32
Consensus pattern (61 bp):
TCAAAGTCCACGACTCAGTGGCATCTCTTTTTTAAGTCCACGACTCAGTGGCATCTTTTCT
Found at i:1242179 original size:30 final size:30
Alignment explanation
Indices: 1241965--1242171 Score: 209
Period size: 30 Copynumber: 6.7 Consensus size: 30
1241955 TCTTTAAATC
1241965 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
* *
1241995 TCTCTTC-CTAAAGTTCACGACTTAGTGGCA
1 TCTCTTCTC-AAAGTCCACGACTCAGTGGCA
* * *
1242025 TCTTTTCTTCAAAGTCTACAACTCAGTGGCA
1 TCTCTTC-TCAAAGTCCACGACTCAGTGGCA
* ** *
1242056 TCTCTTTTTTAAGTCCACGACTCAATGGCA
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
* * * *
1242086 TCCTTTTCTTCCAAGTCCACGACTTAGTGACA
1 T-CTCTTC-TCAAAGTCCACGACTCAGTGGCA
* *
1242118 TTTTTTTCTTCAAAGTCCACGACTCAGTGGCA
1 -TCTCTTC-TCAAAGTCCACGACTCAGTGGCA
*
1242150 TCTCTTCCCAAAGTCCACGACT
1 TCTCTTCTCAAAGTCCACGACT
1242172 TTGTGGCACC
Statistics
Matches: 143, Mismatches: 28, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
29 1 0.01
30 65 0.45
31 31 0.22
32 45 0.31
33 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.14, T:0.33
Consensus pattern (30 bp):
TCTCTTCTCAAAGTCCACGACTCAGTGGCA
Found at i:1242179 original size:94 final size:92
Alignment explanation
Indices: 1241965--1242186 Score: 275
Period size: 94 Copynumber: 2.4 Consensus size: 92
1241955 TCTTTAAATC
* * *
1241965 TCTCTTCTCAAAGTCCACGACTCAGTGGCAT-CTCTTCCTAAAGTTCACGACTTAGTGGCATCTT
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCATCCTTTTCCTAAAGTCCACGACTTAGTGACATCTT
*
1242029 TTCTTCAAAGTCTACAACTCAGTGGCA
66 TTCTTCAAAGTCCACAACTCAGTGGCA
* ** * * * *
1242056 TCTCTTTTTTAAGTCCACGACTCAATGGCATCCTTTTCTTCCAAGTCCACGACTTAGTGACATTT
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCATCCTTTTCCT-AAAGTCCACGACTTAGTGACA-TC
*
1242121 TTTTCTTCAAAGTCCACGACTCAGTGGCA
64 TTTTCTTCAAAGTCCACAACTCAGTGGCA
* ** *
1242150 TCTCTTCCCAAAGTCCACGACTTTGTGGCACCCTTTT
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCATCCTTTT
1242187 AAGTCCACAA
Statistics
Matches: 108, Mismatches: 20, Indels: 3
0.82 0.15 0.02
Matches are distributed among these distances:
91 27 0.25
92 6 0.06
93 18 0.17
94 57 0.53
ACGTcount: A:0.22, C:0.29, G:0.14, T:0.34
Consensus pattern (92 bp):
TCTCTTCTCAAAGTCCACGACTCAGTGGCATCCTTTTCCTAAAGTCCACGACTTAGTGACATCTT
TTCTTCAAAGTCCACAACTCAGTGGCA
Found at i:1242250 original size:33 final size:33
Alignment explanation
Indices: 1242181--1242714 Score: 495
Period size: 33 Copynumber: 16.8 Consensus size: 33
1242171 TTTGTGGCAC
*
1242181 CCTTTTAAGTCCACAACTCTGTGGCA-C-----
1 CCTTTTAAGTCCACAACTCCGTGGCATCTTTTT
* *
1242208 CCTTTTAAGTCCATAACTCTGTGGCATCTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCATCTTTTT
* * *
1242241 CCTTTTAAGTCCACAACTCCATGGCACCATTTT
1 CCTTTTAAGTCCACAACTCCGTGGCATCTTTTT
* * * * *
1242274 CTTTTTAAAGCCCATAACTCCATGGCACTCTTTTA
1 CCTTTT-AAGTCCACAACTCCGTGGCA-TCTTTTT
* * * *
1242309 CCTTTTAAGTCCACGACTCCATGGCACCCTTTTC
1 CCTTTTAAGTCCACAACTCCGTGGCA-TCTTTTT
* * *
1242343 CCTTTTAAGCCCACAACTCTGTGGCACTCTTTAT
1 CCTTTTAAGTCCACAACTCCGTGGCA-TCTTTTT
1242377 CCTTTTAAGTCCACAACTCCGTGGCA-C-----
1 CCTTTTAAGTCCACAACTCCGTGGCATCTTTTT
*
1242404 CCTTTTAAGTCCACAACTCCGTGGCATCTTGTT
1 CCTTTTAAGTCCACAACTCCGTGGCATCTTTTT
* * *
1242437 ACTTTTAGGTCCACAACTCTGTGGCATCTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCATCTTTTT
* **
1242470 CCTTTTAAGTCCACAACTCCGTGGCACCTTGCT
1 CCTTTTAAGTCCACAACTCCGTGGCATCTTTTT
*
1242503 CCTTTTAAGTCCACAACTCCTTGGCA-C-----
1 CCTTTTAAGTCCACAACTCCGTGGCATCTTTTT
* * *
1242530 CCTTTTAAGTCCACAATTCTGTGGCATCTTGTT
1 CCTTTTAAGTCCACAACTCCGTGGCATCTTTTT
* *
1242563 CCTTTTAAGTCCACAACTCCATGGCATCCTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCATCTTTTT
* * **
1242596 CCTTTTAAGTCTACAACTCCGTGGCACCTTGCT
1 CCTTTTAAGTCCACAACTCCGTGGCATCTTTTT
* *
1242629 CCTTTTAAGTCCACAACTTCGTGG-AAC-----
1 CCTTTTAAGTCCACAACTCCGTGGCATCTTTTT
*
1242656 CCTTTTAAGTCCACAACTCCGTGGCATCTTTCT
1 CCTTTTAAGTCCACAACTCCGTGGCATCTTTTT
* * *
1242689 CCTTTTAAGCCCACAAGTCAGTGGCA
1 CCTTTTAAGTCCACAACTCCGTGGCA
1242715 CCCTTTTCAA
Statistics
Matches: 421, Mismatches: 60, Indels: 46
0.80 0.11 0.09
Matches are distributed among these distances:
27 97 0.23
28 5 0.01
32 4 0.01
33 214 0.51
34 92 0.22
35 9 0.02
ACGTcount: A:0.21, C:0.32, G:0.13, T:0.34
Consensus pattern (33 bp):
CCTTTTAAGTCCACAACTCCGTGGCATCTTTTT
Found at i:1242253 original size:60 final size:60
Alignment explanation
Indices: 1242181--1242721 Score: 521
Period size: 60 Copynumber: 8.6 Consensus size: 60
1242171 TTTGTGGCAC
* * * *
1242181 CCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCATAACTCTGTGGCATCTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCTTGTT
* * * *
1242241 CCTTTTAAGTCCACAACTCCATGGCACCATTTTCTTTTTAAAGCCCATAACTCCATGGCACTCTT
1 CCTTTTAAGTCCACAACTCCGTGGCACC-----C-TTTT-AAGTCCACAACTCCGTGGCA-TCTT
1242306 -TT
58 GTT
* * * *
1242308 ACCTTTTAAGTCCACGACTCCATGGCACCCTTTTCCCTTTTAAGCCCACAACTCTGTGGCACTCT
1 -CCTTTTAAGTCCACAACTCCGTGGCA-------CCCTTTTAAGTCCACAACTCCGTGGCA-TCT
1242373 T-TAT
57 TGT-T
1242377 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCTTGTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCTTGTT
* * * * *
1242437 ACTTTTAGGTCCACAACTCTGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTGC
1 CCTTTTAAGTCCACAACTCCGTGGCA-C-----CCTTTTAAGTCCACAACTCCGTGGCATCTTGT
1242502 T
60 T
* * *
1242503 CCTTTTAAGTCCACAACTCCTTGGCACCCTTTTAAGTCCACAATTCTGTGGCATCTTGTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCTTGTT
* * * *
1242563 CCTTTTAAGTCCACAACTCCATGGCATCCTTTTCCTTTTAAGTCTACAACTCCGTGGCACCTTGC
1 CCTTTTAAGTCCACAACTCCGTGGCA--C----CCTTTTAAGTCCACAACTCCGTGGCATCTTGT
1242628 T
60 T
* *
1242629 CCTTTTAAGTCCACAACTTCGTGGAACCCTTTTAAGTCCACAACTCCGTGGCATCTT-TCT
1 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCTTGT-T
* * *
1242689 CCTTTTAAGCCCACAAGTCAGTGGCACCCTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
1242722 CAAAACCCAC
Statistics
Matches: 407, Mismatches: 43, Indels: 62
0.79 0.08 0.12
Matches are distributed among these distances:
60 165 0.41
61 27 0.07
62 1 0.00
64 1 0.00
65 2 0.00
66 108 0.27
67 19 0.05
68 76 0.19
69 5 0.01
70 1 0.00
75 2 0.00
ACGTcount: A:0.21, C:0.32, G:0.13, T:0.35
Consensus pattern (60 bp):
CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCTTGTT
Found at i:1242279 original size:155 final size:154
Alignment explanation
Indices: 1241972--1242259 Score: 363
Period size: 155 Copynumber: 1.9 Consensus size: 154
1241962 ATCTCTCTTC
* * **
1241972 TCAAAGTCCACGACTCAGTGGCATCTCTTCCTAAAGTTCACGACTTAGTGGCATCTTTTCTTCAA
1 TCAAAGTCCACGACTCAGTGGCATCTCTTCCCAAAGTCCACGACTTAGTGGCATCCCTTCTT-AA
* * *
1242037 AGTCTACAACTCAGTGGCATCTCTTTTTTAAGTCCACGACTCAATGGCATCCTTTTCTTCCAAGT
65 AGTCCACAACTCAGTGGCATCTCTCTTTTAAGTCCACAACTCAATGGCATCCTTTTCTTCCAAGT
* *
1242102 CCACGACTTAGTGACATTTTTTTCT
130 CCACAACTCAGTGACATTTTTTTCT
*
1242127 TCAAAGTCCACGACTCAGTGGCATCTCTTCCCAAAGTCCACGACTTTGTGGCA-CCCTT-TT-AA
1 TCAAAGTCCACGACTCAGTGGCATCTCTTCCCAAAGTCCACGACTTAGTGGCATCCCTTCTTAAA
* * ** * **
1242189 GTCCACAACTCTGTGGCA-C-C-CTTTTAAGTCCATAACTCTGTGGCATCTTTTTCCTTTTAAGT
66 GTCCACAACTCAGTGGCATCTCTCTTTTAAGTCCACAACTCAATGGCATCCTTTT-CTTCCAAGT
1242251 CCACAACTC
130 CCACAACTC
1242260 CATGGCACCA
Statistics
Matches: 115, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
148 26 0.23
149 15 0.13
150 1 0.01
151 18 0.16
153 2 0.02
154 3 0.03
155 50 0.43
ACGTcount: A:0.23, C:0.29, G:0.14, T:0.34
Consensus pattern (154 bp):
TCAAAGTCCACGACTCAGTGGCATCTCTTCCCAAAGTCCACGACTTAGTGGCATCCCTTCTTAAA
GTCCACAACTCAGTGGCATCTCTCTTTTAAGTCCACAACTCAATGGCATCCTTTTCTTCCAAGTC
CACAACTCAGTGACATTTTTTTCT
Found at i:1242714 original size:126 final size:126
Alignment explanation
Indices: 1242208--1242722 Score: 631
Period size: 126 Copynumber: 4.0 Consensus size: 126
1242198 TCTGTGGCAC
* * * ** *
1242208 CCTTTTAAGTCCATAACTCTGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCATGGCACCATTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTGCTCCTTTTAAGTCCACAACTCCGTGGCACC----
* * * *
1242273 TCTTTTTAAAGCCCATAACTCCATGGCACTCTT-TTACCTTTTAAGTCCACGACTCCATGGCACC
62 -C-TTTT-AAGTCCACAACTCCGTGGCA-TCTTGTT-CCTTTTAAGTCCACAACTCCATGGCACC
1242337 CTTTT
122 CTTTT
* * **
1242342 CCCTTTTAAGCCCACAACTCTGTGGCACTCTTTATCCTTTTAAGTCCACAACTCCGTGGCACCCT
1 -CCTTTTAAGTCCACAACTCCGTGGCAC-CTTGCTCCTTTTAAGTCCACAACTCCGTGGCACCCT
* * ** * *
1242407 TTTAAGTCCACAACTCCGTGGCATCTTGTTACTTTTAGGTCCACAACTCTGTGGCATCTTTTT
64 TTTAAGTCCACAACTCCGTGGCATCTTGTTCCTTTTAAGTCCACAACTCCATGGCACCCTTTT
*
1242470 CCTTTTAAGTCCACAACTCCGTGGCACCTTGCTCCTTTTAAGTCCACAACTCCTTGGCACCCTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTGCTCCTTTTAAGTCCACAACTCCGTGGCACCCTTT
* * *
1242535 TAAGTCCACAATTCTGTGGCATCTTGTTCCTTTTAAGTCCACAACTCCATGGCATCCTTTT
66 TAAGTCCACAACTCCGTGGCATCTTGTTCCTTTTAAGTCCACAACTCCATGGCACCCTTTT
* * *
1242596 CCTTTTAAGTCTACAACTCCGTGGCACCTTGCTCCTTTTAAGTCCACAACTTCGTGGAACCCTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTGCTCCTTTTAAGTCCACAACTCCGTGGCACCCTTT
* *
1242661 TAAGTCCACAACTCCGTGGCATCTT-TCTCCTTTTAAGCCCACAAGT-CAGTGGCACCCTTTT
66 TAAGTCCACAACTCCGTGGCATCTTGT-TCCTTTTAAGTCCACAACTCCA-TGGCACCCTTTT
1242722 C
1 C
1242723 AAAACCCACA
Statistics
Matches: 340, Mismatches: 36, Indels: 17
0.87 0.09 0.04
Matches are distributed among these distances:
125 3 0.01
126 202 0.59
127 25 0.07
128 30 0.09
129 19 0.06
130 4 0.01
131 1 0.00
135 24 0.07
136 32 0.09
ACGTcount: A:0.20, C:0.32, G:0.13, T:0.35
Consensus pattern (126 bp):
CCTTTTAAGTCCACAACTCCGTGGCACCTTGCTCCTTTTAAGTCCACAACTCCGTGGCACCCTTT
TAAGTCCACAACTCCGTGGCATCTTGTTCCTTTTAAGTCCACAACTCCATGGCACCCTTTT
Found at i:1242764 original size:58 final size:57
Alignment explanation
Indices: 1242695--1242818 Score: 162
Period size: 58 Copynumber: 2.2 Consensus size: 57
1242685 TTCTCCTTTT
* * *
1242695 AAGCCCACAAGTCAGTGGCACCCTTTTCAAAA-CCCACAAGTCGGTGGCACCCCTTTC-A
1 AAGCCCACAAGTCAGTGGCAACC--TTCAAAAGCACACAAGTCGGT-GCAACCCTTTCAA
* *
1242753 AAGCCCACAAGTCAGTGGCAACCTTCAAAAGCACATAAGTTGGTGCAACCCTTTCAA
1 AAGCCCACAAGTCAGTGGCAACCTTCAAAAGCACACAAGTCGGTGCAACCCTTTCAA
1242810 AAGCCCACA
1 AAGCCCACA
1242819 CAAGTTGGTG
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
56 17 0.29
57 20 0.34
58 22 0.37
ACGTcount: A:0.32, C:0.33, G:0.17, T:0.18
Consensus pattern (57 bp):
AAGCCCACAAGTCAGTGGCAACCTTCAAAAGCACACAAGTCGGTGCAACCCTTTCAA
Found at i:1242792 original size:28 final size:29
Alignment explanation
Indices: 1242695--1242818 Score: 139
Period size: 29 Copynumber: 4.3 Consensus size: 29
1242685 TTCTCCTTTT
1242695 AAGCCCACAAGTCAGTGGCACCCTTTTCAA
1 AAGCCCACAAGTCAGTGGCACCC-TTTCAA
*
1242725 AA-CCCACAAGTCGGTGGCACCCCTTTC-A
1 AAGCCCACAAGTCAGTGGCA-CCCTTTCAA
*
1242753 AAGCCCACAAGTCAGTGGCAACC-TTCAA
1 AAGCCCACAAGTCAGTGGCACCCTTTCAA
* * **
1242781 AAGCACATAAGTTGGT-GCAACCCTTTCAA
1 AAGCCCACAAGTCAGTGGC-ACCCTTTCAA
1242810 AAGCCCACA
1 AAGCCCACA
1242819 CAAGTTGGTG
Statistics
Matches: 79, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
27 5 0.06
28 21 0.27
29 48 0.61
30 5 0.06
ACGTcount: A:0.32, C:0.33, G:0.17, T:0.18
Consensus pattern (29 bp):
AAGCCCACAAGTCAGTGGCACCCTTTCAA
Found at i:1242907 original size:48 final size:48
Alignment explanation
Indices: 1242845--1243595 Score: 426
Period size: 48 Copynumber: 16.7 Consensus size: 48
1242835 TCTTTTAAAC
* * *
1242845 CCAATATCGCTGGCCCTAAATCAGCATATTGGCACCTCATCTTTAAGA
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCATCTGTAAGA
** * **
1242893 CCAATATCATTGGCCTTGAATCAGCATATTAGCACCTTGTCTGTAAGA
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCATCTGTAAGA
* * *
1242941 CCAATGTCGCTGGCCTTGAATCAGCACATTGG-----GA-C---AAG-
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCATCTGTAAGA
* * *
1242979 CCTAATATCGCTGGCCTTGAATCAGCATATTGGTACCTCCATCT-TGAGT
1 CC-AATATCGCTGGCCTTGAATCAGCATATTGGCACCT-CATCTGTAAGA
** * ** *
1243028 CCAATATCTTTAGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGA
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCATCTGTAAGA
* * *
1243076 CCAATGTCGCTGGCCTTGAATCAGCACATTGG-----CA----TAAGC
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCATCTGTAAGA
* * * * ** *
1243115 CCAATATCTCTAGCCATAAATCAGCATATTGGCACCTTGTCTTTAAGA
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCATCTGTAAGA
* * *
1243163 CCAATGTCGCTGGCCTTGAATCAGCACATTGG-----CA-C---AAGT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCATCTGTAAGA
* *
1243202 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGA
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TCATCTGTAAGA
* * * * * * *
1243251 CCAATGTTGCTGGCCTTGCATCCGCACATT---A--GCA-C---AAGT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCATCTGTAAGA
* * ** *
1243290 CCAATGTCGTTGGCCTTGAATCAGCATATTGGCACCTTTGTCTCTAAGA
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TCATCTGTAAGA
* * *
1243339 CCAATGTCGCTGGCCTTGAATCAGCACATTGG-----CA----TAAGC
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCATCTGTAAGA
* ** *
1243378 CCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGA
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCATCTGTAAGA
* * * * *
1243426 CCAATGTCGTTGGCCTTAAATCAGCACATTGG----T-A----TAAGC
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCATCTGTAAGA
* * ** * *
1243465 CCAATATCGTTGGCCTTGAATCAACATATTGGCACCTTGTTTTTAAGA
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCATCTGTAAGA
* * * * *
1243513 CCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TCATCTGTAAGA
*
1243562 CCAATATCGTTGGCCTTGAATCAGCATATTGGCA
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCA
1243596 TCTTTAACAT
Statistics
Matches: 534, Mismatches: 109, Indels: 119
0.70 0.14 0.16
Matches are distributed among these distances:
38 2 0.00
39 187 0.35
42 4 0.01
43 2 0.00
44 1 0.00
45 2 0.00
46 4 0.01
47 3 0.01
48 228 0.43
49 101 0.19
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.30
Consensus pattern (48 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCATCTGTAAGA
Found at i:1243089 original size:135 final size:134
Alignment explanation
Indices: 1242844--1243595 Score: 629
Period size: 135 Copynumber: 5.6 Consensus size: 134
1242834 TTCTTTTAAA
* * *
1242844 CCCAATATCGCTGGCCCTAAATCAGCATATTGGCACCTCATCTTTAAGACCAATATCATTGGCCT
1 CCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCATCTTTAAGACCAATATCGTTGGCCT
* *
1242909 TGAATCAGCATATTAGCACCTTGTCTGTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGG
66 TGAATCAGCATATTGGCACCTTGTCT-TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGC
1242974 ACAAG
130 ACAAG
* * * * * *
1242979 CCTAATATCGCTGGCCTTGAATCAGCATATTGGTACCTCCATC-TTGAGTCCAATATCTTTAGCC
1 CCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCT-CATCTTTAAGACCAATATCGTTGGCC
1243043 TTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGG
65 TTGAATCAGCATATTGGCACCTTGTC-TTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGG
*
1243108 CATAAG
129 CACAAG
* * * * ** * *
1243114 CCCAATATCTCTAGCCATAAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCT
1 CCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCATCTTTAAGACCAATATCGTTGGCCT
* * * *
1243179 TGAATCAGCACATTGGCA------C--AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
66 TGAATCAGCATATTGGCACCTTGTCTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGG--
1243236 CCTTTATCTTTAAG
129 -C---A-C---AAG
* * * * * * * * *
1243250 ACCAATGTTGCTGGCCTTGCATCCGCACATT---A--GCA-C---AAGTCCAATGTCGTTGGCCT
1 CCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCATCTTTAAGACCAATATCGTTGGCCT
1243306 TGAATCAGCATATTGGCACCTTTGTCTCTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGG
66 TGAATCAGCATATTGGCACC-TTGTCT-TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGG
*
1243371 CATAAG
129 CACAAG
* ** * *
1243377 CCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGTTGGCCT
1 CCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCATCTTTAAGACCAATATCGTTGGCCT
* * * * * * * *
1243442 TAAATCAGCACATT-G------GT-ATAAGCCCAATATCGTTGGCCTTGAATCAACATATTGGCA
66 TGAATCAGCATATTGGCACCTTGTCTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
1243499 CCTTGTTTTTAAG
131 -C--------AAG
* * * * *
1243512 ACCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGTTGGCC
1 CCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TCATCTTTAAGACCAATATCGTTGGCC
1243577 TTGAATCAGCATATTGGCA
65 TTGAATCAGCATATTGGCA
1243596 TCTTTAACAT
Statistics
Matches: 490, Mismatches: 82, Indels: 86
0.74 0.12 0.13
Matches are distributed among these distances:
126 67 0.14
127 62 0.13
128 2 0.00
129 2 0.00
130 2 0.00
131 1 0.00
132 1 0.00
133 2 0.00
134 4 0.01
135 218 0.44
136 95 0.19
137 34 0.07
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.30
Consensus pattern (134 bp):
CCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCATCTTTAAGACCAATATCGTTGGCCT
TGAATCAGCATATTGGCACCTTGTCTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
CAAG
Found at i:1243129 original size:87 final size:87
Alignment explanation
Indices: 1243028--1243648 Score: 796
Period size: 87 Copynumber: 7.0 Consensus size: 87
1243018 CATCTTGAGT
* *
1243028 CCAATATCTTTAGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTT
1 CCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTT
1243093 GAATCAGCACATTGGCATAAGC
66 GAATCAGCACATTGGCATAAGC
* * *
1243115 CCAATATC-TCTAGCCATAAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCT
1 CCAATATCGT-TGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCT
* *
1243179 TGAATCAGCACATTGGCACAAGT
65 TGAATCAGCACATTGGCATAAGC
* * *
1243202 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTTGCTGGCCT
1 CCAATATCGTTGGCCTTGAATCAGCATATTGGCACC-TTGTCTTTAAGACCAATGTCGCTGGCCT
* * * * *
1243267 TGCATCCGCACATTAGCACAAGT
65 TGAATCAGCACATTGGCATAAGC
* *
1243290 CCAATGTCGTTGGCCTTGAATCAGCATATTGGCACCTTTGTCTCTAAGACCAATGTCGCTGGCCT
1 CCAATATCGTTGGCCTTGAATCAGCATATTGGCACC-TTGTCTTTAAGACCAATGTCGCTGGCCT
1243355 TGAATCAGCACATTGGCATAAGC
65 TGAATCAGCACATTGGCATAAGC
* *
1243378 CCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGTTGGCCTT
1 CCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTT
* *
1243443 AAATCAGCACATTGGTATAAGC
66 GAATCAGCACATTGGCATAAGC
* * *
1243465 CCAATATCGTTGGCCTTGAATCAACATATTGGCACCTTGTTTTTAAGACCAATGTTGCTGGCCTT
1 CCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTT
*
1243530 GAATCAGCACATTGGCACCTTCATCTTTAAGT
66 GAATCAGCACATTGG------CA----TAAGC
* *
1243562 CCAATATCGTTGGCCTTGAATCAGCATATTGGCATCTT-TAACATTCCTAAGCCCAATGTCGCTG
1 CCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTGT--C-TT--TAAGACCAATGTCGCTG
** *
1243626 GCCTTGTCTCAACACATTGGCAT
61 GCCTTGAATCAGCACATTGGCAT
1243649 TCTTCTTCAA
Statistics
Matches: 473, Mismatches: 43, Indels: 32
0.86 0.08 0.06
Matches are distributed among these distances:
86 1 0.00
87 234 0.49
88 159 0.34
91 1 0.00
93 1 0.00
95 2 0.00
96 1 0.00
97 40 0.08
99 2 0.00
101 32 0.07
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.30
Consensus pattern (87 bp):
CCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTT
GAATCAGCACATTGGCATAAGC
Found at i:1243217 original size:39 final size:39
Alignment explanation
Indices: 1243159--1243547 Score: 211
Period size: 39 Copynumber: 9.0 Consensus size: 39
1243149 CCTTGTCTTT
1243159 AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
1 AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
* * *
1243198 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
1 AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGG---C---A-C
* * * *
1243244 TTTAAGACCAATGTTGCTGGCCTTGCATCCGCACATTAGCAC
1 ---AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
* * *
1243286 AAGTCCAATGTCGTTGGCCTTGAATCAGCATATTGGCACCTTTGTCTC
1 AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA---------C
*
1243334 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCAT
1 -AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
* * * *
1243374 AAGCCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTGTCTC
1 AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA--------C
* * * *
1243421 TAAGACCAATGTCGTTGGCCTTAAATCAGCACATTGGTAT
1 -AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
* * * * *
1243461 AAGCCCAATATCGTTGGCCTTGAATCAACATATTGGCACC
1 AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-C
*
1243501 TTGTTTTTAAGACCAATGTTGCTGGCCTTGAATCAGCACATTGGCAC
1 --------AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
1243548 CTTCATCTTT
Statistics
Matches: 267, Mismatches: 45, Indels: 68
0.70 0.12 0.18
Matches are distributed among these distances:
39 130 0.49
42 2 0.01
43 1 0.00
45 1 0.00
46 2 0.01
47 1 0.00
48 66 0.25
49 64 0.24
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (39 bp):
AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:1243415 original size:263 final size:266
Alignment explanation
Indices: 1242988--1243648 Score: 868
Period size: 263 Copynumber: 2.4 Consensus size: 266
1242978 GCCTAATATC
* * * * *
1242988 GCTGGCCTTGAATCAGCATATTGGTACCTCCATCTTGAGTCCAATATCTTTAGCCTTGAATCAGC
1 GCTGGCCTTGAATCAGCACATT-G-A-C-GCATC-TAAGTCCAATATCGTTGGCCTTGAATCAGC
*
1243053 ATATTGGCACC-TTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATAAGCCC
61 ATATTGGCACCTTTGTCTCTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATAAGCCC
* *
1243117 AATATCTCTAGCCATAAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTTGA
126 AATATCTCTAGCCATAAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTGGCCTTAA
* *
1243182 ATCAGCACATTGGCACAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-TATCTT
191 ATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTGT-T-TT
1243246 TAAGACCAATGTT
254 TAAGACCAATGTT
* * *
1243259 GCTGGCCTTGCATCCGCACATT-A-GCA-C-AAGTCCAATGTCGTTGGCCTTGAATCAGCATATT
1 GCTGGCCTTGAATCAGCACATTGACGCATCTAAGTCCAATATCGTTGGCCTTGAATCAGCATATT
1243320 GGCACCTTTGTCTCTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATAT
66 GGCACCTTTGTCTCTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATAT
* * * *
1243385 CGT-TGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGTTGGCCTTAAATCA
131 C-TCTAGCCATAAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTGGCCTTAAATCA
* * *
1243449 GCACATTGGTATAAGCCCAATATCGTTGGCCTTGAATCAACATATTGGCACCTTGTTTTTAAGAC
195 GCACATTGGCACAAGCCCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTGTTTTTAAGAC
1243514 CAATGTT
260 CAATGTT
*
1243521 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGTTGGCCTTGAATCAG
1 GCTGGCCTTGAATCAGCACATT-G-A-C-GCATC--TAAGTCCAATATCGTTGGCCTTGAATCAG
* ** * ** *
1243586 CATATTGGCATCTTTAACATTCCTAAGCCCAATGTCGCTGGCCTTGTCTCAACACATTGGCAT
60 CATATTGGCACCTTTGTC--T-CTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCAT
1243649 TCTTCTTCAA
Statistics
Matches: 343, Mismatches: 31, Indels: 28
0.85 0.08 0.07
Matches are distributed among these distances:
262 71 0.21
263 163 0.48
264 3 0.01
265 3 0.01
268 3 0.01
269 1 0.00
271 19 0.06
272 42 0.12
274 1 0.00
275 37 0.11
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (266 bp):
GCTGGCCTTGAATCAGCACATTGACGCATCTAAGTCCAATATCGTTGGCCTTGAATCAGCATATT
GGCACCTTTGTCTCTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATAT
CTCTAGCCATAAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTGGCCTTAAATCAG
CACATTGGCACAAGCCCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTGTTTTTAAGACC
AATGTT
Found at i:1243645 original size:52 final size:49
Alignment explanation
Indices: 1243460--1243700 Score: 157
Period size: 49 Copynumber: 4.9 Consensus size: 49
1243450 CACATTGGTA
* * * * * * ***
1243460 TAAGCCCAATATCGTTGGCCTTGAATCAACATATTGGCACCTT-GTTTT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCAACTT
* * *
1243508 TAAGACCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCAACTT
* * * * *
1243557 TAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCATCTTTAACATT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCAAC-TT
* ** *
1243607 CCTAAGCCCAATGTCGCTGGCCTTGTCTCAACACATTGGCATTCTT---CTT
1 --TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-TCTTCAACTT
* * * * * * *
1243656 CAAGTCTAATGTCGCTGGCCATGACTCAACACATTGTCATTCTTC
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-TCTTC
1243701 GCATCTTCGA
Statistics
Matches: 158, Mismatches: 29, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
47 38 0.24
48 37 0.23
49 44 0.28
50 3 0.02
52 32 0.20
53 4 0.03
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (49 bp):
TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCAACTT
Found at i:1246451 original size:236 final size:236
Alignment explanation
Indices: 1246038--1246469 Score: 810
Period size: 236 Copynumber: 1.8 Consensus size: 236
1246028 CCAAGCTATC
*
1246038 CAGATCCCTAGGTTCAGCCAAATGCATTCTATTTGGGCCATTCAGGCCTAGCAGACTGTTTTTTC
1 CAGATCCCTAGGTTCAGCCAAATGCATTCTATTTGGGCCATTCAGGCCTAGCACACTGTTTTTTC
*
1246103 AAATTTTCCAACATTTTTAATAAAAAGCTCATGAAATTCCCTTTTTGAAGAGGTATCGTTTGTAA
66 AAATTTTCCAACATTTTTAATAAAAAGCTCATGAAATTCCCTTTCTGAAGAGGTATCGTTTGTAA
* *
1246168 TTTTTTGATACTAAACGTGTGCAAGATGATTTTTCAAAATTGGACACATCTTTTTCTACATGTGC
131 TTTTTTGATACTAAACGTGTCCAAGATAATTTTTCAAAATTGGACACATCTTTTTCTACATGTGC
1246233 TTTTTATTTGGGCCATTCATTCTATTTGGGTTCAACAGGGA
196 TTTTTATTTGGGCCATTCATTCTATTTGGGTTCAACAGGGA
* *
1246274 CAGATCCCTGGGTTTAGCCAAATGCATTCTATTTGGGCCATTCAGGCCTAGCACACTGTTTTTTC
1 CAGATCCCTAGGTTCAGCCAAATGCATTCTATTTGGGCCATTCAGGCCTAGCACACTGTTTTTTC
1246339 AAATTTTCCAACATTTTTAATAAAAAGCTCATGAAATTCCCTTTCTGAAGAGGTATCGTTTGTAA
66 AAATTTTCCAACATTTTTAATAAAAAGCTCATGAAATTCCCTTTCTGAAGAGGTATCGTTTGTAA
1246404 TTTTTTGATACTAAACGTGTCCAAGATAATTTTTCAAAATTGGACACATCTTTTTCTACATGTGC
131 TTTTTTGATACTAAACGTGTCCAAGATAATTTTTCAAAATTGGACACATCTTTTTCTACATGTGC
1246469 T
196 T
1246470 CTACCAGCAA
Statistics
Matches: 190, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
236 190 1.00
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (236 bp):
CAGATCCCTAGGTTCAGCCAAATGCATTCTATTTGGGCCATTCAGGCCTAGCACACTGTTTTTTC
AAATTTTCCAACATTTTTAATAAAAAGCTCATGAAATTCCCTTTCTGAAGAGGTATCGTTTGTAA
TTTTTTGATACTAAACGTGTCCAAGATAATTTTTCAAAATTGGACACATCTTTTTCTACATGTGC
TTTTTATTTGGGCCATTCATTCTATTTGGGTTCAACAGGGA
Found at i:1253318 original size:13 final size:13
Alignment explanation
Indices: 1253300--1253326 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1253290 ACAATAACCA
1253300 AAATCCTTATAGT
1 AAATCCTTATAGT
1253313 AAATCCTTATAGT
1 AAATCCTTATAGT
1253326 A
1 A
1253327 CTAGTACTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.07, T:0.37
Consensus pattern (13 bp):
AAATCCTTATAGT
Found at i:1254317 original size:15 final size:15
Alignment explanation
Indices: 1254293--1254331 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
1254283 GTCAGGTTGC
*
1254293 TTTTGAGTTGAGTCA
1 TTTTGGGTTGAGTCA
*
1254308 TTTTGGGTTGGGTCA
1 TTTTGGGTTGAGTCA
*
1254323 TTTCGGGTT
1 TTTTGGGTT
1254332 TCAAAATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.10, C:0.08, G:0.33, T:0.49
Consensus pattern (15 bp):
TTTTGGGTTGAGTCA
Found at i:1254347 original size:41 final size:41
Alignment explanation
Indices: 1254302--1254409 Score: 135
Period size: 41 Copynumber: 2.6 Consensus size: 41
1254292 CTTTTGAGTT
*
1254302 GAGTCATTTTGGGTTGGGTCATTTCGGGTTTCAAAATTTTC
1 GAGTCATTTTGGGTTGGGTCATTTCGAGTTTCAAAATTTTC
* * * *
1254343 GAGTCATTTTGGGTTGAGTTATTTCGAGTTTTAAAATTTTT
1 GAGTCATTTTGGGTTGGGTCATTTCGAGTTTCAAAATTTTC
* *
1254384 GGGTCATTTTCGAGTTCGGGTCATTT
1 GAGTCATTTT-GGGTT-GGGTCATTT
1254410 TAGGTTCAGC
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
41 45 0.80
42 4 0.07
43 7 0.12
ACGTcount: A:0.18, C:0.10, G:0.26, T:0.46
Consensus pattern (41 bp):
GAGTCATTTTGGGTTGGGTCATTTCGAGTTTCAAAATTTTC
Found at i:1260601 original size:148 final size:152
Alignment explanation
Indices: 1260389--1260931 Score: 415
Period size: 158 Copynumber: 3.5 Consensus size: 152
1260379 GTACCTTATC
* * * * * * * *
1260389 AGAAGCCCGAAAAGATATAAAA-AATTTTTGAAATCTTTTATACCTCGACGAACGCCAATAGGAA
1 AGAAGCCCGAAAAGATACAAAATGATTTTTAAAATCTTTTATACCCCTACGGATGCCCATAGGAA
* *
1260453 TATAAAAGATTAAAAT-TT-TTTCTC-G-AAAGTA-TAATTCAACTTAATTTTATTTATTTTTGA
66 TATAAAAGATTAAAATATTATTTATCTGAAAAGTATTAATTCAACTTAATTTTATTTATTTTCGA
**
1260513 AAACACCATTTTGTACCCCAAT
131 AAACACCATTTCATACCCCAAT
* * *
1260535 AGAAGCCCGAAAAGATACGAAATGTATTTTTAAAATCTTTTATACCCCTAAGGATGCCCCTAGGA
1 AGAAGCCCGAAAAGATACAAAATG-ATTTTTAAAATCTTTTATACCCCTACGGATGCCCATAGGA
* *
1260600 ATGTAAAAGATTAGAAAAAAATAATTAAAATTTATCTGAAAAGTATTAATTCAATTTAATTTTAT
65 ATATAAAAGATT-----AAAAT-ATT---ATTTATCTGAAAAGTATTAATTCAACTTAATTTTAT
* * * *
1260665 TTATTTTCGAAAATATCATTTCATACTCTAAT
121 TTATTTTCGAAAACACCATTTCATACCCCAAT
* * * *
1260697 AGAAACCCG-AAAGATACAAAATG-TTTTTAAAATATTTTATACCCTTACGGATGCCCATACGAA
1 AGAAGCCCGAAAAGATACAAAATGATTTTTAAAATCTTTTATACCCCTACGGATGCCCATAGGAA
* * ** * *
1260760 TATAAAACATTAGAAAAAAGAATTAAAATTTATCCCAAAAGTATTAATTCAATTTTATTTTATTT
66 TATAAAAGATT----AAAA-TATT---ATTTATCTGAAAAGTATTAATTCAACTTAATTTTATTT
* * * * *
1260825 ATTTTTGAAAATACTATTTCGTACCCTAAT
123 ATTTTCGAAAACACCATTTCATACCCCAAT
* * * * * * * *
1260855 GGAAGCCTGAAAGGATACAAAACG-TTTTTGAAAACCGTTATTAT--CCCTACGGATACCCAGAA
1 AGAAGCCCGAAAAGATACAAAATGATTTTT-AAAATC-TT-TTATACCCCTACGGATGCCCATAG
*
1260917 GAATACAAAAGATTA
63 GAATATAAAAGATTA
1260932 GAAAAAATAA
Statistics
Matches: 322, Mismatches: 54, Indels: 32
0.79 0.13 0.08
Matches are distributed among these distances:
146 20 0.06
148 43 0.13
153 5 0.02
155 2 0.01
156 1 0.00
158 78 0.24
159 66 0.20
160 31 0.10
161 21 0.07
162 55 0.17
ACGTcount: A:0.42, C:0.14, G:0.11, T:0.33
Consensus pattern (152 bp):
AGAAGCCCGAAAAGATACAAAATGATTTTTAAAATCTTTTATACCCCTACGGATGCCCATAGGAA
TATAAAAGATTAAAATATTATTTATCTGAAAAGTATTAATTCAACTTAATTTTATTTATTTTCGA
AAACACCATTTCATACCCCAAT
Found at i:1260812 original size:158 final size:156
Alignment explanation
Indices: 1260456--1260951 Score: 566
Period size: 158 Copynumber: 3.1 Consensus size: 156
1260446 ATAGGAATAT
* * * *
1260456 AAAAG-ATTAAAATTTTTTCTCGAAAGTA-TAATTCAACTTAATTTTATTTATTTTTGAAAACAC
1 AAAAGAATTAAAA-TTTATCTCAAAAGTATTAATTCAATTTAATTTTATTTATTTTTGAAAATA-
* * * *
1260519 CATTTTGTACCCCAATAGAAGCCCGAAAAGATACGAAATGTATTTTTAAAATCTTTTATACCCCT
64 CATTTCGTACCCTAATAGAAGCCCG-AAAGATACAAAATG--TTTTTAAAATATTTTATA-CCCT
* * * *
1260584 AAGGATGCCCCTAGGAATGTAAAAGATTAGAAA
125 ACGGATGCCCATAAGAATATAAAAGATTAG-AA
* * *
1260617 AAAATAATTAAAATTTATCTGAAAAGTATTAATTCAATTTAATTTTATTTATTTTCGAAAATATC
1 AAAAGAATTAAAATTTATCTCAAAAGTATTAATTCAATTTAATTTTATTTATTTTTGAAAATA-C
* * *
1260682 ATTTCATACTCTAATAGAAACCCGAAAGATACAAAATGTTTTTAAAATATTTTATACCCTTACGG
65 ATTTCGTACCCTAATAGAAGCCCGAAAGATACAAAATGTTTTTAAAATATTTTATACCC-TACGG
* *
1260747 ATGCCCATACGAATATAAAACATTAGAA
129 ATGCCCATAAGAATATAAAAGATTAGAA
* *
1260775 AAAAGAATTAAAATTTATCCCAAAAGTATTAATTCAATTTTATTTTATTTATTTTTGAAAATACT
1 AAAAGAATTAAAATTTATCTCAAAAGTATTAATTCAATTTAATTTTATTTATTTTTGAAAATAC-
* * * **
1260840 ATTTCGTACCCTAATGGAAGCCTGAAAGGATACAAAACGTTTTTGAAAACCGTTATTAT-CCCTA
65 ATTTCGTACCCTAATAGAAGCCCGAAA-GATACAAAATGTTTTT-AAAA-TATT-TTATACCCTA
* * *
1260904 CGGATACCCAGAAGAATACAAAAGATTAGAA
126 CGGATGCCCATAAGAATATAAAAGATTAGAA
*
1260935 AAAATAATTAAAATTTA
1 AAAAGAATTAAAATTTA
1260952 ATTTTATCAC
Statistics
Matches: 288, Mismatches: 39, Indels: 17
0.84 0.11 0.05
Matches are distributed among these distances:
157 1 0.00
158 85 0.30
159 58 0.20
160 48 0.17
161 34 0.12
162 62 0.22
ACGTcount: A:0.42, C:0.14, G:0.10, T:0.34
Consensus pattern (156 bp):
AAAAGAATTAAAATTTATCTCAAAAGTATTAATTCAATTTAATTTTATTTATTTTTGAAAATACA
TTTCGTACCCTAATAGAAGCCCGAAAGATACAAAATGTTTTTAAAATATTTTATACCCTACGGAT
GCCCATAAGAATATAAAAGATTAGAA
Found at i:1262261 original size:2 final size:2
Alignment explanation
Indices: 1262254--1262281 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1262244 ATGAGTTGTT
1262254 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1262282 AATATTTGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1262887 original size:166 final size:166
Alignment explanation
Indices: 1262520--1263141 Score: 649
Period size: 166 Copynumber: 3.8 Consensus size: 166
1262510 GGGACTTTTA
* * * **
1262520 AAAAAAATTCAAAAACTAATGGAAATGAATTAATTTTTTAAAAAAAATTTAATATAAAATAAATA
1 AAAAAAATTCAAAAACTAATGAAAATGAATGAATTTTTGAAAACTAATTTAATATAAAATAAATA
* * ** *
1262585 ATAACATTTTATGGATTTAAAAAATTAAAAACTAAGAAAAATCCCTCCGAAAAAAA-TTACA-GA
66 ATAATATTTGATAAATTTAAAAAATTAAAAA-TAAGAAAAAT-CCTCCCAAAAAAATTTA-AGGA
**
1262648 GTAGAAAACT-TCATTTTTTAAAAATA-GGATAATTTTAAG
128 GTAGAAAACTCT-ATTTTTCGAAAATAGGGA-AATTTTAAG
* * * * * * *
1262687 GAAAAGATTCAAAAACTTATGAAAATGAATGAATTTTTGAAAATTGATTTATTATGAAATAAATA
1 AAAAAAATTCAAAAACTAATGAAAATGAATGAATTTTTGAAAACTAATTTAATATAAAATAAATA
* *
1262752 ATAATATTTGATAAATTTAAAAAATTAAAAATAATAAAAATCCTCTCAAAAAAATTTAAGGAGTA
66 ATAATATTTGATAAATTTAAAAAATTAAAAATAAGAAAAATCCTCCCAAAAAAATTTAAGGAGTA
* * *
1262817 GAAAACTCTATTTTTCGGAAGTAGGGAAATTTCAAG
131 GAAAACTCTATTTTTCGAAAATAGGGAAATTTTAAG
* *
1262853 AAAAAAATTTAAAAA-TGAATGAAAATGAATGAATTTTTGAAAACTAATTCAATATAAAATAAAT
1 AAAAAAATTCAAAAACT-AATGAAAATGAATGAATTTTTGAAAACTAATTTAATATAAAATAAAT
** * * * *
1262917 AATAATATTTGATGGATTTAAAAAATTGAAACTAAGAAAAAT-CTCCCGAAAAAATTTACGGAGT
65 AATAATATTTGATAAATTTAAAAAATTAAAAATAAGAAAAATCCTCCCAAAAAAATTTAAGGAGT
*
1262981 -----ACTCTATTTTTCGAAAACAGGGAAATTTTAAG
130 AGAAAACTCTATTTTTCGAAAATAGGGAAATTTTAAG
* * * ** *
1263013 GAAAAAATTCAAAAACTTATGAAAATGAATAAATTTTTGAAAACCGATTTAATATGAAATAAATA
1 AAAAAAATTCAAAAACTAATGAAAATGAATGAATTTTTGAAAACTAATTTAATATAAAATAAATA
* * * *** * *
1263078 ATCATATTTTG-TGAATTTTAAAAATTTTAAACCCATG-AAAATCCTCCCAAAAAAATTTACGGA
66 ATAATA-TTTGAT-AAATTTAAAAA-ATTAAAAATAAGAAAAATCCTCCCAAAAAAATTTAAGGA
1263141 G
128 G
1263142 AAAAAAATCT
Statistics
Matches: 383, Mismatches: 62, Indels: 25
0.81 0.13 0.05
Matches are distributed among these distances:
160 89 0.23
161 18 0.05
162 27 0.07
165 32 0.08
166 132 0.34
167 85 0.22
ACGTcount: A:0.51, C:0.08, G:0.10, T:0.31
Consensus pattern (166 bp):
AAAAAAATTCAAAAACTAATGAAAATGAATGAATTTTTGAAAACTAATTTAATATAAAATAAATA
ATAATATTTGATAAATTTAAAAAATTAAAAATAAGAAAAATCCTCCCAAAAAAATTTAAGGAGTA
GAAAACTCTATTTTTCGAAAATAGGGAAATTTTAAG
Found at i:1263073 original size:326 final size:333
Alignment explanation
Indices: 1262520--1263141 Score: 843
Period size: 326 Copynumber: 1.9 Consensus size: 333
1262510 GGGACTTTTA
* * * *
1262520 AAAAAAATTCAAAAACTAATGGAAATGAATTAATTTTTTAAAAAAAATTTAATATAAAATAAATA
1 AAAAAAATTCAAAAACTAATGAAAATGAATGAATTTTTGAAAAAAAATTCAATATAAAATAAATA
*
1262585 ATAACATTTTATGGATTTAAAAAATTAAAAACTAAGAAAAATCCCTCCGAAAAAAATTACAGAGT
66 ATAACATTTGATGGATTTAAAAAATTAAAAACTAAGAAAAATCCCTCCGAAAAAAATTACAGAGT
* * *
1262650 AGAAAACTTCATTTTTTAAAAATAGGATAATTTTAAGGAAAAGATTCAAAAACTTATGAAAATGA
131 AG-AAACTTCATTTTTCAAAAACAGGATAATTTTAAGGAAAAAATTCAAAAACTTATGAAAATGA
* ** *
1262715 ATGAATTTTTGAAAATTGATTTATTATGAAATAAATAATAATA-TTTGAT-AAATTTAAAAAATT
195 ATAAATTTTTGAAAACCGATTTAATATGAAATAAATAATAATATTTTG-TGAAATTTAAAAAATT
* *
1262778 AAAAATAATAAAAATCCTCTCAAAAAAATTTAAGGAGTAGAAAACTCTATTTTTCGGAAGTAGGG
259 AAAAACAATAAAAATCCTCCCAAAAAAATTTAAGGAGTAGAAAACTCTATTTTTCGGAAGTAGGG
1262843 AAATTTCAAG
324 AAATTTCAAG
* **
1262853 AAAAAAATTTAAAAA-TGAATGAAAATGAATGAATTTTTGAAAACTAATTCAATATAAAATAAAT
1 AAAAAAATTCAAAAACT-AATGAAAATGAATGAATTTTTGAAAAAAAATTCAATATAAAATAAAT
* * * *
1262917 AATAATATTTGATGGATTTAAAAAATT-GAAACTAAGAAAAATCTC-CCGAAAAAATTTAC-G-G
65 AATAACATTTGATGGATTTAAAAAATTAAAAACTAAGAAAAATCCCTCCGAAAAAAATTACAGAG
* *
1262978 -AG-TAC-TCTATTTTTCGAAAACAGGGA-AATTTTAAGGAAAAAATTCAAAAACTTATGAAAAT
130 TAGAAACTTC-ATTTTTCAAAAACA-GGATAATTTTAAGGAAAAAATTCAAAAACTTATGAAAAT
* * *
1263039 GAATAAATTTTTGAAAACCGATTTAATATGAAATAAATAATCATATTTTGTGAATTTTAAAAATT
193 GAATAAATTTTTGAAAACCGATTTAATATGAAATAAATAATAATATTTTGTGAAATTTAAAAAAT
* * * * *
1263104 TTAAACCCATGAAAATCCTCCCAAAAAAATTTACGGAG
258 TAAAAACAATAAAAATCCTCCCAAAAAAATTTAAGGAG
1263142 AAAAAAATCT
Statistics
Matches: 253, Mismatches: 31, Indels: 16
0.84 0.10 0.05
Matches are distributed among these distances:
325 2 0.01
326 88 0.35
327 49 0.19
328 2 0.01
329 1 0.00
330 1 0.00
331 13 0.05
332 17 0.07
333 80 0.32
ACGTcount: A:0.51, C:0.08, G:0.10, T:0.31
Consensus pattern (333 bp):
AAAAAAATTCAAAAACTAATGAAAATGAATGAATTTTTGAAAAAAAATTCAATATAAAATAAATA
ATAACATTTGATGGATTTAAAAAATTAAAAACTAAGAAAAATCCCTCCGAAAAAAATTACAGAGT
AGAAACTTCATTTTTCAAAAACAGGATAATTTTAAGGAAAAAATTCAAAAACTTATGAAAATGAA
TAAATTTTTGAAAACCGATTTAATATGAAATAAATAATAATATTTTGTGAAATTTAAAAAATTAA
AAACAATAAAAATCCTCCCAAAAAAATTTAAGGAGTAGAAAACTCTATTTTTCGGAAGTAGGGAA
ATTTCAAG
Found at i:1263215 original size:326 final size:332
Alignment explanation
Indices: 1262551--1263223 Score: 773
Period size: 326 Copynumber: 2.0 Consensus size: 332
1262541 GAAATGAATT
** * *
1262551 AATTTTTTAAAAAAAATTTAATATAAAATAAATAATAACATTTTATGGATTTAAAAAATTAAAAA
1 AATTTTTTAAAACTAATTCAATATAAAATAAATAATAACATTTGATGGATTTAAAAAATTAAAAA
* *
1262616 CTAAGAAAAATCCCTCCGAAAAAAATTACAGAGTAGAAAACTTCATTTTTTAAAAATAGGATAAT
66 CTAAGAAAAATCCCTCCGAAAAAAATTACAGAGTAG-AAACTTCATTTTTCAAAAACAGGATAAT
* * ** *
1262681 TTTAAGGAAAAGATTCAAAAACTTATGAAAATGAATGAATTTTTGAAAATTGATTTATTATGAAA
130 TTTAAGGAAAAAATTCAAAAACTTATGAAAATGAATAAATTTTTGAAAACCGATTTAATATGAAA
* *
1262746 TAAATAATAATATTTGATAAATTTAAAAAATTAAAAATAATAAAAATCCTCTCAAAAAAATTTAA
195 TAAATAATAATATTTGATAAATTTAAAAAATTAAAAACAATAAAAATCCTCCCAAAAAAATTTAA
* * ***** * * *
1262811 GGAGTAGAAAACTCTATTTTTCGGAAGTAGGGAAATTTCAAGAAAAAAATTTAAAAATGAATGAA
260 GGAGAAAAAAACTCTATTTAAAAAAAGTAGAGAAATTTCAAGAAAAAAATTTAAAAATCAATAAA
* *
1262876 AATGAATG
325 AATAAAAG
* * *
1262884 AATTTTTGAAAACTAATTCAATATAAAATAAATAATAATATTTGATGGATTTAAAAAATT-GAAA
1 AATTTTTTAAAACTAATTCAATATAAAATAAATAATAACATTTGATGGATTTAAAAAATTAAAAA
* * * *
1262948 CTAAGAAAAATCTC-CCGAAAAAATTTAC-G-G-AG-TAC-TCTATTTTTCGAAAACAGGGA-AA
66 CTAAGAAAAATCCCTCCGAAAAAAATTACAGAGTAGAAACTTC-ATTTTTCAAAAACA-GGATAA
1263006 TTTTAAGGAAAAAATTCAAAAACTTATGAAAATGAATAAATTTTTGAAAACCGATTTAATATGAA
129 TTTTAAGGAAAAAATTCAAAAACTTATGAAAATGAATAAATTTTTGAAAACCGATTTAATATGAA
* * * * * * *
1263071 ATAAATAATCATATTTTG-TGAATTTTAAAAATTTTAAACCCATGAAAATCCTCCCAAAAAAATT
194 ATAAATAATAATA-TTTGAT-AAATTTAAAAAATTAAAAACAATAAAAATCCTCCCAAAAAAATT
* * *
1263135 TACGGAGAAAAAAATCTCATAATTTAAAAAAAG-A-AG-AATTTCAA-AAGAAAA-TTAATAACT
257 TAAGGAGAAAAAAA-CTC-T-ATTTAAAAAAAGTAGAGAAATTTCAAGAAAAAAATTTAA-AAAT
1263195 CAA-AAAAATAAAAAG
318 CAATAAAAAT-AAAAG
1263210 AATTTTTTAAAACT
1 AATTTTTTAAAACT
1263224 GATTTAATGA
Statistics
Matches: 288, Mismatches: 43, Indels: 25
0.81 0.12 0.07
Matches are distributed among these distances:
325 11 0.04
326 115 0.40
327 62 0.22
328 6 0.02
329 3 0.01
330 8 0.03
331 13 0.05
332 16 0.06
333 54 0.19
ACGTcount: A:0.52, C:0.08, G:0.10, T:0.31
Consensus pattern (332 bp):
AATTTTTTAAAACTAATTCAATATAAAATAAATAATAACATTTGATGGATTTAAAAAATTAAAAA
CTAAGAAAAATCCCTCCGAAAAAAATTACAGAGTAGAAACTTCATTTTTCAAAAACAGGATAATT
TTAAGGAAAAAATTCAAAAACTTATGAAAATGAATAAATTTTTGAAAACCGATTTAATATGAAAT
AAATAATAATATTTGATAAATTTAAAAAATTAAAAACAATAAAAATCCTCCCAAAAAAATTTAAG
GAGAAAAAAACTCTATTTAAAAAAAGTAGAGAAATTTCAAGAAAAAAATTTAAAAATCAATAAAA
ATAAAAG
Found at i:1263966 original size:16 final size:16
Alignment explanation
Indices: 1263945--1263977 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
1263935 TGGATCGTCT
1263945 TACTCATTTTAAGTTC
1 TACTCATTTTAAGTTC
1263961 TACTCATTTTAAGTTC
1 TACTCATTTTAAGTTC
1263977 T
1 T
1263978 TTTACTTATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.06, T:0.52
Consensus pattern (16 bp):
TACTCATTTTAAGTTC
Found at i:1266521 original size:24 final size:22
Alignment explanation
Indices: 1266476--1266523 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
1266466 TAACTTAGGT
*
1266476 ATTTTTTTTAAGTTATATAAAC
1 ATTTTTTTTAAGTTATAGAAAC
*
1266498 ATTTATTTTTAAGTTTTAAGAAAC
1 ATTT-TTTTTAAGTTAT-AGAAAC
1266522 AT
1 AT
1266524 AATAATTGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 4 0.18
23 11 0.50
24 7 0.32
ACGTcount: A:0.38, C:0.04, G:0.06, T:0.52
Consensus pattern (22 bp):
ATTTTTTTTAAGTTATAGAAAC
Found at i:1268925 original size:21 final size:21
Alignment explanation
Indices: 1268896--1268943 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
1268886 GGTCCTAAAA
*
1268896 TATCAACACATCTAGTC-AATG
1 TATCAACACAT-TACTCAAATG
*
1268917 TATCGACACATTACTCAAATG
1 TATCAACACATTACTCAAATG
1268938 TATCAA
1 TATCAA
1268944 TACTTTGATC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.29
Consensus pattern (21 bp):
TATCAACACATTACTCAAATG
Found at i:1275660 original size:27 final size:27
Alignment explanation
Indices: 1275598--1275677 Score: 106
Period size: 27 Copynumber: 3.0 Consensus size: 27
1275588 TAAAAATTAG
* *
1275598 CTACCATTTTTTACAAACAAAAAGGAA
1 CTACCATTTTTGACAAACACAAAGGAA
* **
1275625 CCATTATTTTTGACAAACACAAAGGAA
1 CTACCATTTTTGACAAACACAAAGGAA
*
1275652 CTACCATTTTTGATAAACACAAAGGA
1 CTACCATTTTTGACAAACACAAAGGA
1275678 TGATTTTTGT
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.45, C:0.19, G:0.10, T:0.26
Consensus pattern (27 bp):
CTACCATTTTTGACAAACACAAAGGAA
Found at i:1277598 original size:21 final size:22
Alignment explanation
Indices: 1277559--1277604 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
1277549 ATTTGTTGAA
* *
1277559 ACTCCACCTGTTTTAGAGTA-T
1 ACTCCACCTGCTGTAGAGTACT
*
1277580 ACTCCACCTGCTGTGGAGTACT
1 ACTCCACCTGCTGTAGAGTACT
1277602 ACT
1 ACT
1277605 TATCTAAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.22, C:0.28, G:0.17, T:0.33
Consensus pattern (22 bp):
ACTCCACCTGCTGTAGAGTACT
Found at i:1280186 original size:27 final size:27
Alignment explanation
Indices: 1280126--1280241 Score: 91
Period size: 27 Copynumber: 4.5 Consensus size: 27
1280116 TAAAAATTAG
* *
1280126 CTACCATTTTTTACAAATAATAA-G--
1 CTACCATTTTTGACAAATAAAAAGGAA
*
1280150 CCACCATTTTTGACAAATAAAAAGGAA
1 CTACCATTTTTGACAAATAAAAAGGAA
* * *
1280177 CTACCATTTTTGACAAACACAAATGAA
1 CTACCATTTTTGACAAATAAAAAGGAA
* *
1280204 -T-CACA-TTTTGACAAATACAAAGAAA
1 CTAC-CATTTTTGACAAATAAAAAGGAA
* *
1280229 CCACTATTTTTGA
1 CTACCATTTTTGA
1280242 TAAACACAAA
Statistics
Matches: 73, Mismatches: 12, Indels: 11
0.76 0.12 0.11
Matches are distributed among these distances:
24 20 0.27
25 19 0.26
26 4 0.05
27 30 0.41
ACGTcount: A:0.44, C:0.19, G:0.08, T:0.29
Consensus pattern (27 bp):
CTACCATTTTTGACAAATAAAAAGGAA
Found at i:1280250 original size:27 final size:26
Alignment explanation
Indices: 1280150--1280251 Score: 100
Period size: 27 Copynumber: 3.9 Consensus size: 26
1280140 AAATAATAAG
* *
1280150 CCACCATTTTTGACAAATAAAAAGGAA
1 CCACCATTTTTGACAAACACAAA-GAA
*
1280177 CTACCATTTTTGACAAACACAAATGAA
1 CCACCATTTTTGACAAACACAAA-GAA
* *
1280204 TCA-CA-TTTTGACAAATACAAAGAAA
1 CCACCATTTTTGACAAACACAAAG-AA
* *
1280229 CCACTATTTTTGATAAACACAAA
1 CCACCATTTTTGACAAACACAAA
1280252 AGTAACTTTT
Statistics
Matches: 61, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
24 1 0.02
25 19 0.31
26 3 0.05
27 38 0.62
ACGTcount: A:0.47, C:0.20, G:0.08, T:0.25
Consensus pattern (26 bp):
CCACCATTTTTGACAAACACAAAGAA
Found at i:1281891 original size:17 final size:16
Alignment explanation
Indices: 1281856--1281887 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1281846 TATTTATAAT
1281856 TAAATTTAAATAAAAA
1 TAAATTTAAATAAAAA
*
1281872 TAAATTTTAATAAAAA
1 TAAATTTAAATAAAAA
1281888 ATAACTCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
TAAATTTAAATAAAAA
Found at i:1282435 original size:6 final size:6
Alignment explanation
Indices: 1282398--1282448 Score: 54
Period size: 6 Copynumber: 8.5 Consensus size: 6
1282388 ATAAATTAGA
1282398 TTAAA- TTATAAT TTAAA- -TAAATT TTAAAAT TTAAAT TTAAAT TTAAAT
1 TTAAAT TTA-AAT TTAAAT TTAAA-T TT-AAAT TTAAAT TTAAAT TTAAAT
1282446 TTA
1 TTA
1282449 TTTTAGCTGA
Statistics
Matches: 40, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
4 4 0.10
5 3 0.08
6 23 0.57
7 7 0.17
8 3 0.08
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (6 bp):
TTAAAT
Found at i:1282441 original size:12 final size:11
Alignment explanation
Indices: 1282389--1282448 Score: 52
Period size: 12 Copynumber: 5.2 Consensus size: 11
1282379 TTATCGTTCA
*
1282389 TAAATTAGA-T
1 TAAATTAAATT
1282399 TAAATTATAATT
1 TAAATTA-AATT
1282411 TAAA-TAAATTT
1 TAAATTAAA-TT
1282422 TAAAATTTAAATT
1 T-AAA-TTAAATT
1282435 TAAATTTAAATT
1 TAAA-TTAAATT
1282447 TA
1 TA
1282449 TTTTAGCTGA
Statistics
Matches: 43, Mismatches: 1, Indels: 10
0.80 0.02 0.19
Matches are distributed among these distances:
10 9 0.21
11 6 0.14
12 21 0.49
13 3 0.07
14 4 0.09
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (11 bp):
TAAATTAAATT
Found at i:1282512 original size:19 final size:19
Alignment explanation
Indices: 1282488--1282535 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
1282478 AAAAAATAAA
1282488 ATATTAAAAAAT-TATTTTT
1 ATATTAAAAAATATA-TTTT
* *
1282507 ATATTAATATATATATTTT
1 ATATTAAAAAATATATTTT
1282526 ATAATTAAAA
1 AT-ATTAAAA
1282536 TTAAATAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
ATATTAAAAAATATATTTT
Found at i:1283182 original size:21 final size:21
Alignment explanation
Indices: 1283134--1283173 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
1283124 ATGTAAAAAT
1283134 AAAA-AATTTATTTATTTATA
1 AAAATAATTTATTTATTTATA
1283154 AAAATAATTTAATTTATTTA
1 AAAATAATTT-ATTTATTTA
1283174 AATTATAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.22
21 5 0.28
22 9 0.50
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
AAAATAATTTATTTATTTATA
Found at i:1283363 original size:14 final size:15
Alignment explanation
Indices: 1283330--1283364 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
1283320 TTTTTCCACC
1283330 CAAAAAATAATAAAG
1 CAAAAAATAATAAAG
*
1283345 AAAAAAATAAT-AAG
1 CAAAAAATAATAAAG
1283359 CAAAAA
1 CAAAAA
1283365 TCCATATAGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.77, C:0.06, G:0.06, T:0.11
Consensus pattern (15 bp):
CAAAAAATAATAAAG
Found at i:1283546 original size:21 final size:20
Alignment explanation
Indices: 1283507--1283546 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
1283497 AACATCAAAA
*
1283507 TTTTAAAATCAATAAATTAT
1 TTTTAAAATCAAAAAATTAT
*
1283527 TTTTAAAATTATAAAAATTA
1 TTTTAAAATCA-AAAAATTA
1283547 CAATAATTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (20 bp):
TTTTAAAATCAAAAAATTAT
Found at i:1284561 original size:125 final size:125
Alignment explanation
Indices: 1284333--1284591 Score: 509
Period size: 125 Copynumber: 2.1 Consensus size: 125
1284323 AGCTTCATCC
1284333 AAAATCGATACTTTTTTCACCATTCAAGTATCATTCTTGGAAAACTTAGAAAGATATTTTTAAAA
1 AAAAT-GATACTTTTTTCACCATTCAAGTATCATTCTTGGAAAACTTAGAAAGATATTTTTAAAA
1284398 GAAATAATAATAAAGAATTAAACAAGGGAATTTGCTTTTGAAAATGGATAATTTTAAGTGA
65 GAAATAATAATAAAGAATTAAACAAGGGAATTTGCTTTTGAAAATGGATAATTTTAAGTGA
1284459 AAAATGATACTTTTTTCACCATTCAAGTATCATTCTTGGAAAACTTAGAAAGATATTTTTAAAAG
1 AAAATGATACTTTTTTCACCATTCAAGTATCATTCTTGGAAAACTTAGAAAGATATTTTTAAAAG
1284524 AAATAATAATAAAGAATTAAACAAGGGAATTTGCTTTTGAAAATGGATAATTTTAAGTGA
66 AAATAATAATAAAGAATTAAACAAGGGAATTTGCTTTTGAAAATGGATAATTTTAAGTGA
1284584 AAAATGAT
1 AAAATGAT
1284592 TTTGCGATTT
Statistics
Matches: 133, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
125 128 0.96
126 5 0.04
ACGTcount: A:0.44, C:0.08, G:0.14, T:0.34
Consensus pattern (125 bp):
AAAATGATACTTTTTTCACCATTCAAGTATCATTCTTGGAAAACTTAGAAAGATATTTTTAAAAG
AAATAATAATAAAGAATTAAACAAGGGAATTTGCTTTTGAAAATGGATAATTTTAAGTGA
Found at i:1290183 original size:27 final size:26
Alignment explanation
Indices: 1290132--1290183 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
1290122 ATTTTATTCA
* *
1290132 TAGGGATACTCCAGCCCTGACCTTTC
1 TAGGGATACTCCAACCCTCACCTTTC
1290158 TAGGGAATACTCCAACCC-CACTCTTT
1 TAGGG-ATACTCCAACCCTCAC-CTTT
1290184 GAAATTTGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.23, C:0.35, G:0.15, T:0.27
Consensus pattern (26 bp):
TAGGGATACTCCAACCCTCACCTTTC
Found at i:1293901 original size:52 final size:52
Alignment explanation
Indices: 1293823--1293947 Score: 232
Period size: 52 Copynumber: 2.4 Consensus size: 52
1293813 ATATGAAAAC
*
1293823 TTGCCTGCATGTATCGATACATTTCATGGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGCAAAT
*
1293875 TTGCCTGTATGTATCGATACATTTCATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGCAAAT
1293927 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
1293948 AAGATCAGTG
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGCAAAT
Done.