Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 4 of 250
Found at i:1037128 original size:128 final size:133
Alignment explanation
Indices: 1036977--1037294 Score: 425
Period size: 140 Copynumber: 2.4 Consensus size: 133
1036967 AGGTAATTTC
*
1036977 ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GAGACACATTGAG
1 ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG-GACACACTGAG
*
1037041 GT-A-T-TTTCAG-T-TTT-TATTTTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCC
65 GTAATTATTTCAGTTATTTCTATTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
1037100 TTTTA
129 TTTTA
* *
1037105 ATTTCTGTTTTTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGGATACACTGAGG
1 ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGG
* * *
1037170 TAATTTCAATTTCTGTCTTTAATTTCTGTTTTTCAAAAATTAACTCATATTGCGAGAGGTGAGTT
66 TAA-TT--ATTTCAG---TT-ATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTT
1037235 GAGCCTTTTA
124 GAGCCTTTTA
* *
1037245 ATTTCTGTTTTTCAAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCT
1 ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1037295 TTTAATTTCT
Statistics
Matches: 166, Mismatches: 10, Indels: 16
0.86 0.05 0.08
Matches are distributed among these distances:
128 61 0.37
129 2 0.01
131 1 0.01
134 5 0.03
138 1 0.01
140 89 0.54
141 7 0.04
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.38
Consensus pattern (133 bp):
ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGG
TAATTATTTCAGTTATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
TTA
Found at i:1037141 original size:200 final size:199
Alignment explanation
Indices: 1036778--1037407 Score: 796
Period size: 200 Copynumber: 3.2 Consensus size: 199
1036768 GAGCATTTTA
* *
1036778 ATTTCTATTTTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGACACATGGAGG
1 ATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGACACATTGAGG
*
1036843 TATTTTCAGTTTTTATTTTTCAAAAATCAACTTATATTGCGAGATGTGAGTTGAGCCTTTTAATT
66 TATTTTCAGTTTTTATTTTTCAAAAATCAACTTATATTGCGAGAAGTGAGTTGAGCCTTTTAATT
*
1036908 TCTGTTTTTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGGATACGCTGAGGTAA
131 TCTGTTTTTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGGATACACTGAGGTAA
1036973 TTTC
196 TTTC
*
1036977 ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGACACATTGAGG
1 ATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGACACATTGAGG
*
1037042 TATTTTCAGTTTTTATTTTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTTTTAAT
66 TATTTTCAGTTTTTATTTTTC-AAAAATCAACTTATATTGCGAGAAGTGAGTTGAGCCTTTTAAT
1037107 TTCTGTTTTTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGGATACACTGAGGTA
130 TTCTGTTTTTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGGATACACTGAGGTA
1037172 ATTTC
195 ATTTC
*
1037177 AATTTCTGTCTTTAATTTCTGTTTTTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCT-
1 -A--T-T-TC--T-A------TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
* * * *
1037241 --------TT----TA-----A-TTTCTGTTTTTCAAAAATCAACTCATATTGCAAGAAGTGAGT
52 GAGACACATTGAGGTATTTTCAGTTTTTATTTTTCAAAAATCAACTTATATTGCGAGAAGTGAGT
* * *
1037288 TGAGCCTTTTAATTTCTGTTTTTCAAAAATCAACTCATTTTGCGAGAAGTGAGTTGAGCCTC-GA
117 TGAGCCTTTTAATTTCTGTTTTTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAG-
* * *
1037352 GACACATTGAGGTATTTTC
181 GATACACTGAGGTAATTTC
* *
1037371 AGTTTTTATTTTTCAAAAATCAACTTATATTGCGAGA
1 A-TTTCTATTTTTCAAAAATCAACTCATATTGCGAGA
1037408 AATGAGTCGA
Statistics
Matches: 393, Mismatches: 22, Indels: 50
0.85 0.05 0.11
Matches are distributed among these distances:
181 27 0.07
187 1 0.00
188 1 0.00
190 1 0.00
191 1 0.00
192 1 0.00
193 2 0.01
194 102 0.26
195 10 0.03
196 1 0.00
199 83 0.21
200 111 0.28
201 3 0.01
203 1 0.00
204 1 0.00
205 4 0.01
207 1 0.00
214 42 0.11
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.38
Consensus pattern (199 bp):
ATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGACACATTGAGG
TATTTTCAGTTTTTATTTTTCAAAAATCAACTTATATTGCGAGAAGTGAGTTGAGCCTTTTAATT
TCTGTTTTTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGGATACACTGAGGTAA
TTTC
Found at i:1037253 original size:54 final size:54
Alignment explanation
Indices: 1037187--1037348 Score: 288
Period size: 54 Copynumber: 3.0 Consensus size: 54
1037177 AATTTCTGTC
* *
1037187 TTTAATTTCTGTTTTTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 TTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
*
1037241 TTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCT
1 TTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
*
1037295 TTTAATTTCTGTTTTTCAAAAATCAACTCATTTTGCGAGAAGTGAGTTGAGCCT
1 TTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
1037349 CGAGACACAT
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 103 1.00
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.40
Consensus pattern (54 bp):
TTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
Found at i:1041451 original size:131 final size:131
Alignment explanation
Indices: 1041247--1041518 Score: 490
Period size: 131 Copynumber: 2.1 Consensus size: 131
1041237 GATCATGACA
* * *
1041247 AATATGTGTGTTATATGACATTTTTGAATGATCTTTTGATATATTTTAAGTTCTAGAAATGTTTA
1 AATATGTTTGCTATATGACATTTTTGAATGATCTTTTGATATATTTTAAGTTCTAAAAATGTTTA
*
1041312 GAAATGTTATGGGATGATTGGAGATAGTTTGGACTAAATTTTTGGTGATTTGGACTTATATCAAG
66 GAAATGTTATGGAATGATTGGAGATAGTTTGGACTAAATTTTTGGTGATTTGGACTTATATCAAG
1041377 T
131 T
1041378 AATATGTTTGCTATATGACATTTTTGAATGATCTTTTGATATATTTTAAGTTCTAAAAATGTTTA
1 AATATGTTTGCTATATGACATTTTTGAATGATCTTTTGATATATTTTAAGTTCTAAAAATGTTTA
*
1041443 GAAATGTTATGGAATGATTGGAGATAGTTTGGACTTAATTTTTGGTGATTTGGACTTATATCAAG
66 GAAATGTTATGGAATGATTGGAGATAGTTTGGACTAAATTTTTGGTGATTTGGACTTATATCAAG
1041508 T
131 T
*
1041509 AATCTGTTTG
1 AATATGTTTG
1041519 TGGGGTTGCA
Statistics
Matches: 135, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
131 135 1.00
ACGTcount: A:0.30, C:0.05, G:0.20, T:0.45
Consensus pattern (131 bp):
AATATGTTTGCTATATGACATTTTTGAATGATCTTTTGATATATTTTAAGTTCTAAAAATGTTTA
GAAATGTTATGGAATGATTGGAGATAGTTTGGACTAAATTTTTGGTGATTTGGACTTATATCAAG
T
Found at i:1045345 original size:16 final size:16
Alignment explanation
Indices: 1045324--1045354 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1045314 TTTACTATTA
*
1045324 TGTCTTTTGTATTTTT
1 TGTCTTTTATATTTTT
1045340 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
1045355 GTGTGCATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.06, G:0.10, T:0.74
Consensus pattern (16 bp):
TGTCTTTTATATTTTT
Found at i:1046451 original size:13 final size:13
Alignment explanation
Indices: 1046433--1046458 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1046423 AGAATTGTTC
1046433 AATTAAAGAATTT
1 AATTAAAGAATTT
1046446 AATTAAAGAATTT
1 AATTAAAGAATTT
1046459 TCTTGAAATA
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:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (13 bp):
AATTAAAGAATTT
Found at i:1047036 original size:62 final size:58
Alignment explanation
Indices: 1046947--1047079 Score: 151
Period size: 62 Copynumber: 2.2 Consensus size: 58
1046937 TCCAAAAATA
* * *
1046947 ATATTATTTTAAT-AGTCTAGTATTAAATTAAATTTAATGTTTATCTTGTAGATAAACATT
1 ATATTATTTTAATAAGTCTAATATTAAATTAAATCTAATATTTATC-T-TA-ATAAACATT
* * * *
1047007 CTATTATTTTAATAAGATTTAATATTAAATTTAATCTAATATTTATCTTAATAAATATT
1 ATATTATTTTAATAAG-TCTAATATTAAATTAAATCTAATATTTATCTTAATAAACATT
*
1047066 ATATTAATTTAATA
1 ATATTATTTTAATA
1047080 TTAAAGTGAT
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
59 20 0.32
60 14 0.23
61 3 0.05
62 25 0.40
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.50
Consensus pattern (58 bp):
ATATTATTTTAATAAGTCTAATATTAAATTAAATCTAATATTTATCTTAATAAACATT
Found at i:1049214 original size:40 final size:40
Alignment explanation
Indices: 1049153--1049581 Score: 414
Period size: 40 Copynumber: 10.9 Consensus size: 40
1049143 AGGCACTCAA
* ** * *
1049153 GTGCATTCAAGGGTATTGAAGTACAAATAGGAGTACGTAT
1 GTGCATTCAGGGGTACCGAAGTACAAACAGGAGCACGTAT
* * * *
1049193 GTGCATT-TGAAGGTACCGAAGT--ATA-AGGAGCATGTAT
1 GTGCATTCAG-GGGTACCGAAGTACAAACAGGAGCACGTAT
*
1049230 GTGCATTCAGGGGTACCAAAGTACAAACA--AG--C-TA-
1 GTGCATTCAGGGGTACCGAAGTACAAACAGGAGCACGTAT
* **
1049264 -TGCATTCAGCGGTATTGAAGTACAAACAGGAGCACGTAT
1 GTGCATTCAGGGGTACCGAAGTACAAACAGGAGCACGTAT
* * * *
1049303 GTGCATTCAGGGGTTCCAAAGTACAAATAGGAGCACGCAT
1 GTGCATTCAGGGGTACCGAAGTACAAACAGGAGCACGTAT
* *
1049343 GTGCGTTCAAGGGTACCGAAGTACAAACAGGAGCACGTAT
1 GTGCATTCAGGGGTACCGAAGTACAAACAGGAGCACGTAT
* * * * * *
1049383 GTGTATTTAGGGGTACTGAATTACAAACAGGAGCACTTTT
1 GTGCATTCAGGGGTACCGAAGTACAAACAGGAGCACGTAT
* * * *
1049423 TTGCATTCAGGGGTATCGAATTACAAACAGGAGCATGTAT
1 GTGCATTCAGGGGTACCGAAGTACAAACAGGAGCACGTAT
*
1049463 GTGCATTCAGGTGGTACCGAAGTACAAATAGGAGCACGTAT
1 GTGCATTCAGG-GGTACCGAAGTACAAACAGGAGCACGTAT
* * * *
1049504 ATGCGTTCAAGGGTACCGAAGTACAAACAGGAGCACATAT
1 GTGCATTCAGGGGTACCGAAGTACAAACAGGAGCACGTAT
* * *
1049544 GTGCATTCGGGGGTACC-AGAGTACAATCATGAGCACGT
1 GTGCATTCAGGGGTACCGA-AGTACAAACAGGAGCACGT
1049582 CCTTGTTTCC
Statistics
Matches: 312, Mismatches: 63, Indels: 28
0.77 0.16 0.07
Matches are distributed among these distances:
33 24 0.08
35 4 0.01
37 28 0.09
38 7 0.02
39 3 0.01
40 213 0.68
41 33 0.11
ACGTcount: A:0.33, C:0.17, G:0.27, T:0.23
Consensus pattern (40 bp):
GTGCATTCAGGGGTACCGAAGTACAAACAGGAGCACGTAT
Found at i:1049559 original size:161 final size:160
Alignment explanation
Indices: 1049264--1049559 Score: 475
Period size: 161 Copynumber: 1.8 Consensus size: 160
1049254 AAACAAGCTA
* *
1049264 TGCATTCAGCGGTATTGAAGTACAAACAGGAGCACGTATGTGCATTCAGGGGTTCCAAAGTACAA
1 TGCATTCAGCGGTATCGAAGTACAAACAGGAGCACGTATGTGCATTCAGGGGTACCAAAGTACAA
* * * *
1049329 ATAGGAGCACGCATGTGCGTTCAAGGGTACCGAAGTACAAACAGGAGCACGTATGTGTATTTAGG
66 ATAGGAGCACGCATATGCGTTCAAGGGTACCGAAGTACAAACAGGAGCACATATGTGCATTCAGG
1049394 GGTACTGAATTACAAACAGGAGCACTTTTT
131 GGTACTGAATTACAAACAGGAGCACTTTTT
* * * *
1049424 TGCATTCAGGGGTATCGAATTACAAACAGGAGCATGTATGTGCATTCAGGTGGTACCGAAGTACA
1 TGCATTCAGCGGTATCGAAGTACAAACAGGAGCACGTATGTGCATTCAGG-GGTACCAAAGTACA
* *
1049489 AATAGGAGCACGTATATGCGTTCAAGGGTACCGAAGTACAAACAGGAGCACATATGTGCATTCGG
65 AATAGGAGCACGCATATGCGTTCAAGGGTACCGAAGTACAAACAGGAGCACATATGTGCATTCAG
1049554 GGGTAC
130 GGGTAC
1049560 CAGAGTACAA
Statistics
Matches: 123, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
160 46 0.37
161 77 0.63
ACGTcount: A:0.32, C:0.18, G:0.28, T:0.23
Consensus pattern (160 bp):
TGCATTCAGCGGTATCGAAGTACAAACAGGAGCACGTATGTGCATTCAGGGGTACCAAAGTACAA
ATAGGAGCACGCATATGCGTTCAAGGGTACCGAAGTACAAACAGGAGCACATATGTGCATTCAGG
GGTACTGAATTACAAACAGGAGCACTTTTT
Found at i:1054012 original size:95 final size:95
Alignment explanation
Indices: 1053849--1054037 Score: 333
Period size: 95 Copynumber: 2.0 Consensus size: 95
1053839 AATCTTGACC
* * *
1053849 AAACAAATATATTTAGTGTCTTATCTCAATTTGGATATCTCTCAAGACATAAAGCGAATGCTAAA
1 AAACAAATATATTTAGTATATTATCTCAATTTGGATATCTCTCAAGACATAAAGAGAATGCTAAA
1053914 AAACTCAAATAATCTTCTAGACTAATACAA
66 AAACTCAAATAATCTTCTAGACTAATACAA
*
1053944 AAACAAATATATTTAGTATATTATCTCAATTTGGATATTTCTCAAGACATAAAGAGAATGCTAAA
1 AAACAAATATATTTAGTATATTATCTCAATTTGGATATCTCTCAAGACATAAAGAGAATGCTAAA
*
1054009 AAACTCAAATAATCTTCTGGACTAATACA
66 AAACTCAAATAATCTTCTAGACTAATACA
1054038 GAGAAGTCAA
Statistics
Matches: 89, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
95 89 1.00
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.31
Consensus pattern (95 bp):
AAACAAATATATTTAGTATATTATCTCAATTTGGATATCTCTCAAGACATAAAGAGAATGCTAAA
AAACTCAAATAATCTTCTAGACTAATACAA
Found at i:1054676 original size:28 final size:28
Alignment explanation
Indices: 1054643--1054699 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
1054633 TTTTTACCAG
1054643 GATAATTATTGTAAATCCTAAAGGATAA
1 GATAATTATTGTAAATCCTAAAGGATAA
1054671 GATAATTATTGTAAATCCTAAAGGATAA
1 GATAATTATTGTAAATCCTAAAGGATAA
1054699 G
1 G
1054700 GATGCATAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.46, C:0.07, G:0.16, T:0.32
Consensus pattern (28 bp):
GATAATTATTGTAAATCCTAAAGGATAA
Found at i:1055959 original size:40 final size:40
Alignment explanation
Indices: 1055904--1055985 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
1055894 CATCTCCTTC
1055904 ATCTACAAGTTTGGAGTGAGCCTTGTGACAAATACGGAAT
1 ATCTACAAGTTTGGAGTGAGCCTTGTGACAAATACGGAAT
1055944 ATCTACAAGTTTGGAGTGAGCCTTGTGACAAATACGGAAT
1 ATCTACAAGTTTGGAGTGAGCCTTGTGACAAATACGGAAT
1055984 AT
1 AT
1055986 TTTTGGGCTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (40 bp):
ATCTACAAGTTTGGAGTGAGCCTTGTGACAAATACGGAAT
Found at i:1058273 original size:32 final size:32
Alignment explanation
Indices: 1058232--1058295 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
1058222 AGGGCCTAAG
1058232 GAGCTATGGTTCGAGGGTCATCATGATGCAAT
1 GAGCTATGGTTCGAGGGTCATCATGATGCAAT
1058264 GAGCTATGGTTCGAGGGTCATCATGATGCAAT
1 GAGCTATGGTTCGAGGGTCATCATGATGCAAT
1058296 CATGAGTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.25, C:0.16, G:0.31, T:0.28
Consensus pattern (32 bp):
GAGCTATGGTTCGAGGGTCATCATGATGCAAT
Found at i:1060154 original size:22 final size:22
Alignment explanation
Indices: 1060126--1060170 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
1060116 GCTCTTACTG
1060126 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
1060148 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
1060170 T
1 T
1060171 TTTTTATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:1064216 original size:22 final size:22
Alignment explanation
Indices: 1064188--1064232 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
1064178 AGGGGGAGTG
1064188 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
1064210 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
1064232 T
1 T
1064233 TTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:1066283 original size:191 final size:192
Alignment explanation
Indices: 1065955--1066318 Score: 579
Period size: 191 Copynumber: 1.9 Consensus size: 192
1065945 AAAAACTGAG
* * * * *
1065955 CAACAAAATTTATTCACACATGCAGAGGTAGCAAGTGTACAACCCAACCATTGGCATGCTCATAC
1 CAACAAAACTCATTCACACATGCAGAGGTAACAAATGTACAACCCAACCAATGGCATGCTCATAC
*
1066020 AAAAATAAACCCAAAAATACATTGAAAGAAATTTGCTGCAGTAGTGTGAGATAACTCTGGTTAAA
66 AAAAATAAACCCAAAAATACATAGAAAGAAATTTGCTGCAGTAGTGTGAGATAACTCTGGTTAAA
* * *
1066085 ACTCATTTAAAAATCATAGAAAGTTTGATAAATAAGAATCACTAGGAAAACAACCAGAAAGC
131 ACTCATTTAAAAATCATAGAAAGCTTGATAAAGAAGAACCACTAGGAAAACAACCAGAAAGC
*
1066147 CAACAAAACTCATTCACACATGCAGAGGTAACAAATGTAC-ACCCAACCACAT-GCCTGCTCATA
1 CAACAAAACTCATTCACACATGCAGAGGTAACAAATGTACAACCCAACCA-ATGGCATGCTCATA
* * *
1066210 CAAAAATAAGCCCAAAAATATATAGGAAGAAATTTGCTGCAGTAGTGTGAGATAACTCTGGTTAA
65 CAAAAATAAACCCAAAAATACATAGAAAGAAATTTGCTGCAGTAGTGTGAGATAACTCTGGTTAA
*
1066275 ATCTCATTTAAAAATCATAGAAAGCTTGATAAAGAAGAACCACT
130 AACTCATTTAAAAATCATAGAAAGCTTGATAAAGAAGAACCACT
1066319 GCGGAAACAG
Statistics
Matches: 157, Mismatches: 14, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
191 120 0.76
192 37 0.24
ACGTcount: A:0.44, C:0.19, G:0.15, T:0.22
Consensus pattern (192 bp):
CAACAAAACTCATTCACACATGCAGAGGTAACAAATGTACAACCCAACCAATGGCATGCTCATAC
AAAAATAAACCCAAAAATACATAGAAAGAAATTTGCTGCAGTAGTGTGAGATAACTCTGGTTAAA
ACTCATTTAAAAATCATAGAAAGCTTGATAAAGAAGAACCACTAGGAAAACAACCAGAAAGC
Found at i:1069694 original size:25 final size:25
Alignment explanation
Indices: 1069642--1069695 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
1069632 ACAACCAAAC
*
1069642 TTTTTCCATTAACCGAAATTTACCT
1 TTTTTCCATTAACCGAAATTTACAT
* * *
1069667 TTTTTTCATTAACTGAAATTTATAT
1 TTTTTCCATTAACCGAAATTTACAT
1069692 TTTT
1 TTTT
1069696 ATGTTAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.54
Consensus pattern (25 bp):
TTTTTCCATTAACCGAAATTTACAT
Found at i:1070489 original size:30 final size:29
Alignment explanation
Indices: 1070455--1070523 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 29
1070445 AAAATTTTAT
* *
1070455 AAATTTATAAAAAATTATAAAAAATATTAG
1 AAATTTATAAAAAATCATAAAAAAAATT-G
** *
1070485 AAATTTATTTAAAATCATAAAAAAAATTT
1 AAATTTATAAAAAATCATAAAAAAAATTG
1070514 AAATTTATAA
1 AAATTTATAA
1070524 CAATTATTAG
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
29 8 0.25
30 24 0.75
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (29 bp):
AAATTTATAAAAAATCATAAAAAAAATTG
Found at i:1070529 original size:107 final size:107
Alignment explanation
Indices: 1070387--1070593 Score: 265
Period size: 107 Copynumber: 1.9 Consensus size: 107
1070377 TAGAAGTATA
1070387 AAAAACATAAAAAATAAATAAATTTTATAAAAATTATTAGAAACTAATTAAAAAGAATAAAATTT
1 AAAAACATAAAAAATAAATAAATTTTATAAAAATTATTAGAAACTAATTAAAAAGAATAAAATTT
* *
1070452 TATAAATTTATAAAAAATTATAAAAAATATTAGAAATTTATTT
66 TAGAAAATT-TAAAAAATTATAAAAAATATTAGAAATTTATTT
* * * * * **
1070495 AAAATCATAAAAAA-AATTTAAA-TTTATAACAATTATTAGAAATTAATTTAAAATCATAAAATT
1 AAAAACATAAAAAATAA-ATAAATTTTATAAAAATTATTAGAAACTAATTAAAAAGAATAAAATT
* * * *
1070558 TTAGAAAATTTAGAAAATTTTATAAACTATTAGAAA
65 TTAGAAAATTTAAAAAATTATAAAAAATATTAGAAA
1070594 CTAATTGAAA
Statistics
Matches: 85, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
106 22 0.26
107 46 0.54
108 17 0.20
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (107 bp):
AAAAACATAAAAAATAAATAAATTTTATAAAAATTATTAGAAACTAATTAAAAAGAATAAAATTT
TAGAAAATTTAAAAAATTATAAAAAATATTAGAAATTTATTT
Found at i:1070545 original size:30 final size:28
Alignment explanation
Indices: 1070509--1070564 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
1070499 TCATAAAAAA
* *
1070509 AATTTAAATTTATAACAATTATTAGAAATT
1 AATTTAAAATCATAA-AATT-TTAGAAATT
1070539 AATTTAAAATCATAAAATTTTAGAAA
1 AATTTAAAATCATAAAATTTTAGAAA
1070565 ATTTAGAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 7 0.29
29 4 0.17
30 13 0.54
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.39
Consensus pattern (28 bp):
AATTTAAAATCATAAAATTTTAGAAATT
Found at i:1070567 original size:49 final size:49
Alignment explanation
Indices: 1070455--1070574 Score: 129
Period size: 49 Copynumber: 2.4 Consensus size: 49
1070445 AAAATTTTAT
* *
1070455 AAATTTATAAAAAATTATAAAAAATATTAGAAATTTATTTAAAATCATAAAA
1 AAATTT-TAAAAATTTATAAAAAATATTAGAAATTAATTTAAAATCAT--AA
* * *
1070507 AAAATTT--AAATTTATAACAATTATTAGAAATTAATTTAAAATCAT-A
1 AAATTTTAAAAATTTATAAAAAATATTAGAAATTAATTTAAAATCATAA
*
1070553 AAATTTTAGAAAATTTAGAAAA
1 AAATTTTA-AAAATTTATAAAA
1070575 TTTTATAAAC
Statistics
Matches: 57, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
46 7 0.12
49 44 0.77
51 1 0.02
52 5 0.09
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (49 bp):
AAATTTTAAAAATTTATAAAAAATATTAGAAATTAATTTAAAATCATAA
Found at i:1070574 original size:19 final size:20
Alignment explanation
Indices: 1070552--1070593 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
1070542 TTAAAATCAT
1070552 AAAATTTTAGAAAAT-TTAG
1 AAAATTTTAGAAAATATTAG
* *
1070571 AAAATTTTATAAACTATTAG
1 AAAATTTTAGAAAATATTAG
1070591 AAA
1 AAA
1070594 CTAATTGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.55, C:0.02, G:0.07, T:0.36
Consensus pattern (20 bp):
AAAATTTTAGAAAATATTAG
Found at i:1072230 original size:62 final size:59
Alignment explanation
Indices: 1072114--1072231 Score: 164
Period size: 62 Copynumber: 1.9 Consensus size: 59
1072104 ATCACTTTAA
* *
1072114 TATTAAATTAATATAATATTTATCAAAATAAATATTACATTAAATTTAAAATTAAATCT
1 TATTAAATTAATAGAATATTTATCAAAATAAATATTAAATTAAATTTAAAATTAAATCT
* * *
1072173 TATTAAATTAATAGAATGTTTATCTACAAGATTAATATTAAATTAAATTTAATATTAAA
1 TATTAAATTAATAGAATATTTATC-A-AA-ATAAATATTAAATTAAATTTAAAATTAAA
1072232 ATAATCACCT
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
59 22 0.43
60 1 0.02
61 2 0.04
62 26 0.51
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (59 bp):
TATTAAATTAATAGAATATTTATCAAAATAAATATTAAATTAAATTTAAAATTAAATCT
Found at i:1073923 original size:14 final size:15
Alignment explanation
Indices: 1073889--1073918 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1073879 TTGTGTATGC
*
1073889 AAAATATGAAAGACA
1 AAAATATAAAAGACA
1073904 AAAATATAAAAGACA
1 AAAATATAAAAGACA
1073919 TAATAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.07, G:0.10, T:0.13
Consensus pattern (15 bp):
AAAATATAAAAGACA
Found at i:1074606 original size:25 final size:26
Alignment explanation
Indices: 1074566--1074615 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
1074556 TTGTAAATTA
1074566 AAAAAATATCTCTAGA-AATTTTCTG
1 AAAAAATATCTCTAGAGAATTTTCTG
* *
1074591 AAAAAATCTCTTTAGAGAATTTTCT
1 AAAAAATATCTCTAGAGAATTTTCT
1074616 CTCTACAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.42, C:0.12, G:0.08, T:0.38
Consensus pattern (26 bp):
AAAAAATATCTCTAGAGAATTTTCTG
Found at i:1074795 original size:59 final size:61
Alignment explanation
Indices: 1074724--1074840 Score: 166
Period size: 62 Copynumber: 1.9 Consensus size: 61
1074714 ATCACTTTAA
* * * * *
1074724 TATTAAATTAATATAATATTTA-T-CAAGATAAATATTAGATTAAATTTAATATTAAATCT
1 TATTAAAATAATAAAATATTTACTACAAAATAAACATTAAATTAAATTTAATATTAAATCT
1074783 TATTAAAATAATAAAATATTTATCTACAAAATAAACATTAAATTAAATTTAATATTAA
1 TATTAAAATAATAAAATATTTA-CTACAAAATAAACATTAAATTAAATTTAATATTAA
1074841 GATATCACTT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 20 0.40
61 1 0.02
62 29 0.58
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (61 bp):
TATTAAAATAATAAAATATTTACTACAAAATAAACATTAAATTAAATTTAATATTAAATCT
Found at i:1080831 original size:47 final size:45
Alignment explanation
Indices: 1080719--1081083 Score: 179
Period size: 47 Copynumber: 7.7 Consensus size: 45
1080709 GTTATGTGAG
* * *
1080719 AGCCAGTGTAAGATCATGTCTGGGACATGGCATCGGCA-TTGAGACA-
1 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGCCACATGA-TCAT
** * *
1080765 AGGGATAGTGTAATACATGTCTGGGACATGCATCAGCCACATTATCAT
1 A--GCCAGTGTAAGACATGTCTGGGACATGCATC-GCCACATGATCAT
* * * * **
1080813 AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATAGAGAGGAGT
1 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGCCACA-TGATCA-T
* * * *
1080862 -GCCAGTGTAAAACATGTCTGGGACATGGATTGGCCACGATGATGAT
1 AGCCAGTGTAAGACATGTCTGGGACATGCA-TCGCCAC-ATGATCAT
** * * *
1080908 AGCCAGTGTAAGATGTGTCTGGGACATGCATCG--ACTAAGCTTCGT
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCGCCAC-ATG-ATCAT
* * *
1080953 -GCTAGTGTAAGACATGTCTGGGACATGCATCAG-CACGTAT-ACACGAG
1 AGCCAGTGTAAGACATGTCTGGGACATGCATC-GCCAC--ATGA-TC-AT
* * * **
1081000 AGCTAGTGTAAGACTATGTTTGGGACATGGCATCGACCTCGATGAAGAT
1 AGCCAGTGTAAGAC-ATGTCTGGGACAT-GCATCG-CCAC-ATGATCAT
1081049 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCG
1081084 GCAACTTAAC
Statistics
Matches: 244, Mismatches: 50, Indels: 47
0.72 0.15 0.14
Matches are distributed among these distances:
44 32 0.13
45 3 0.01
46 23 0.09
47 84 0.34
48 44 0.18
49 46 0.19
50 9 0.04
51 3 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (45 bp):
AGCCAGTGTAAGACATGTCTGGGACATGCATCGCCACATGATCAT
Found at i:1080839 original size:94 final size:95
Alignment explanation
Indices: 1080719--1081034 Score: 272
Period size: 94 Copynumber: 3.4 Consensus size: 95
1080709 GTTATGTGAG
* * * * *
1080719 AGCCAGTGTAAGATCATGTCTGGGACATGGCATCGGCATTGAGACAAGGGATAGTGTAATACATG
1 AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATAGAGACAAGGGACAGTGTAAAACATG
*
1080784 TCTGGGACATGCATCAGCCAC-ATTATCAT
66 TCTGGGACATGCATCAGCCACGATGATCAT
** * *
1080813 AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATAGAGAGGAGTGCCAGTGTAAAACATG
1 AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATAGAGACAAGGGACAGTGTAAAACATG
* ** *
1080878 TCTGGGACATGGATTGGCCACGATGATGAT
66 TCTGGGACATGCATCAGCCACGATGATCAT
** * * ** * *
1080908 AGCCAGTGTAAGA-TGTGTCTGGGACAT-GCATCGAC-TA-AG-CTTCGTG-CTAGTGTAAGACA
1 AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATAGAGAC-AAGGGAC-AGTGTAAAACA
* *
1080967 TGTCTGGGACATGCATCAG-CACGTAT-ACACGAG
64 TGTCTGGGACATGCATCAGCCACG-ATGA-TC-AT
* * * *
1081000 AGCTAGTGTAAGACTATGTTTGGGACATGGCATCG
1 AGCCAGTGTAAGACCATGTCTAGGACATGGCATCG
1081035 ACCTCGATGA
Statistics
Matches: 183, Mismatches: 31, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
90 6 0.03
91 33 0.18
92 15 0.08
93 19 0.10
94 91 0.50
95 19 0.10
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (95 bp):
AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATAGAGACAAGGGACAGTGTAAAACATG
TCTGGGACATGCATCAGCCACGATGATCAT
Found at i:1081959 original size:55 final size:55
Alignment explanation
Indices: 1081847--1081962 Score: 126
Period size: 55 Copynumber: 2.1 Consensus size: 55
1081837 AAACTCTTAG
* * * * * * * *
1081847 GTCATTATTGTTCACGGTTAGGCCACACGGGCGTGTGCCATAGTCGTGTCTCTAA
1 GTCAGTATTGTCCAAGGGTAGGCCACACGGGCATGTGCCATAGCCGCGTCCCTAA
* *
1081902 GTCAGTATTGTCCAAGGGTAGGCCACACGGGCATGTGTCATGGCCGCG-CCCTAAA
1 GTCAGTATTGTCCAAGGGTAGGCCACACGGGCATGTGCCATAGCCGCGTCCCT-AA
1081957 GTCAGT
1 GTCAGT
1081963 GTTGCACACG
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
54 3 0.06
55 47 0.94
ACGTcount: A:0.20, C:0.25, G:0.29, T:0.26
Consensus pattern (55 bp):
GTCAGTATTGTCCAAGGGTAGGCCACACGGGCATGTGCCATAGCCGCGTCCCTAA
Found at i:1083739 original size:216 final size:216
Alignment explanation
Indices: 1083365--1083798 Score: 868
Period size: 216 Copynumber: 2.0 Consensus size: 216
1083355 CTGAGTGAAT
1083365 AATAGTTGAAGGAGGATTATAAAATAATCCAAAATACCTATTTATATTTTTATAGAAGAATCATG
1 AATAGTTGAAGGAGGATTATAAAATAATCCAAAATACCTATTTATATTTTTATAGAAGAATCATG
1083430 ATTAAAGTTTGCTATGATTATTGTTGAAACTCCTAAAGAGATCAAAATATATTTCACCCAAATTT
66 ATTAAAGTTTGCTATGATTATTGTTGAAACTCCTAAAGAGATCAAAATATATTTCACCCAAATTT
1083495 TCCCTCACTCATGACTTTCAAAAGAATGGTGATATAAATGCCCATTTGAAAAATTAGTATTCAAG
131 TCCCTCACTCATGACTTTCAAAAGAATGGTGATATAAATGCCCATTTGAAAAATTAGTATTCAAG
1083560 ATTGAATATGTAGAATATGAG
196 ATTGAATATGTAGAATATGAG
1083581 AATAGTTGAAGGAGGATTATAAAATAATCCAAAATACCTATTTATATTTTTATAGAAGAATCATG
1 AATAGTTGAAGGAGGATTATAAAATAATCCAAAATACCTATTTATATTTTTATAGAAGAATCATG
1083646 ATTAAAGTTTGCTATGATTATTGTTGAAACTCCTAAAGAGATCAAAATATATTTCACCCAAATTT
66 ATTAAAGTTTGCTATGATTATTGTTGAAACTCCTAAAGAGATCAAAATATATTTCACCCAAATTT
1083711 TCCCTCACTCATGACTTTCAAAAGAATGGTGATATAAATGCCCATTTGAAAAATTAGTATTCAAG
131 TCCCTCACTCATGACTTTCAAAAGAATGGTGATATAAATGCCCATTTGAAAAATTAGTATTCAAG
1083776 ATTGAATATGTAGAATATGAG
196 ATTGAATATGTAGAATATGAG
1083797 AA
1 AA
1083799 AGTATGTGAT
Statistics
Matches: 218, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
216 218 1.00
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.34
Consensus pattern (216 bp):
AATAGTTGAAGGAGGATTATAAAATAATCCAAAATACCTATTTATATTTTTATAGAAGAATCATG
ATTAAAGTTTGCTATGATTATTGTTGAAACTCCTAAAGAGATCAAAATATATTTCACCCAAATTT
TCCCTCACTCATGACTTTCAAAAGAATGGTGATATAAATGCCCATTTGAAAAATTAGTATTCAAG
ATTGAATATGTAGAATATGAG
Found at i:1085597 original size:46 final size:46
Alignment explanation
Indices: 1085547--1085722 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
1085537 TGATTGAGCA
1085547 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
1085593 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
1085638 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
1085686 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1085723 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 61 0.55
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:1085703 original size:93 final size:93
Alignment explanation
Indices: 1085544--1085715 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
1085534 GGATGATTGA
*
1085544 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
1085609 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
1085637 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
1085701 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
1085716 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:1087962 original size:15 final size:16
Alignment explanation
Indices: 1087932--1087965 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
1087922 AAGATATTTA
1087932 ATAAAAATAATTTAATC
1 ATAAAAAT-ATTTAATC
1087949 ATAAAAAT-TTTAATC
1 ATAAAAATATTTAATC
1087964 AT
1 AT
1087966 CCAAATATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
17 8 0.47
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (16 bp):
ATAAAAATATTTAATC
Found at i:1091870 original size:34 final size:34
Alignment explanation
Indices: 1091827--1091950 Score: 140
Period size: 34 Copynumber: 3.6 Consensus size: 34
1091817 TTCTGATATG
* * * *
1091827 ATATGACATTTTGATATGAAATATGCTTCTAAAA
1 ATATGACATTCTGATATGATATATGTTTCTAGAA
* * * *
1091861 ATATGACATTCTAATCTGGTATATGTTTCTGGAA
1 ATATGACATTCTGATATGATATATGTTTCTAGAA
* * *
1091895 ATATGACATTTTGATCTGATATATGTTTCTAGTA
1 ATATGACATTCTGATATGATATATGTTTCTAGAA
*
1091929 ATGTGACATTCTGATATGATAT
1 ATATGACATTCTGATATGATAT
1091951 TTGTATATGT
Statistics
Matches: 74, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 74 1.00
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.42
Consensus pattern (34 bp):
ATATGACATTCTGATATGATATATGTTTCTAGAA
Found at i:1092799 original size:14 final size:15
Alignment explanation
Indices: 1092771--1092799 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1092761 CAGTTAACTG
1092771 TACTTTAGTTACTTT
1 TACTTTAGTTACTTT
1092786 TACTTTAG-TACTTT
1 TACTTTAGTTACTTT
1092800 AGTAAAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.21, C:0.14, G:0.07, T:0.59
Consensus pattern (15 bp):
TACTTTAGTTACTTT
Found at i:1096442 original size:54 final size:54
Alignment explanation
Indices: 1096360--1096503 Score: 227
Period size: 54 Copynumber: 2.7 Consensus size: 54
1096350 TGGAGGAAGC
* *
1096360 GTCCTGGTGGCTATGCCACAATTATCTGATTTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATAACT
1096414 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATAACT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATAACT
* * *
1096468 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCCGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
1096504 AGTTCGTCAC
Statistics
Matches: 84, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
53 6 0.07
54 78 0.93
ACGTcount: A:0.18, C:0.25, G:0.24, T:0.33
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATAACT
Found at i:1096503 original size:27 final size:26
Alignment explanation
Indices: 1096363--1096521 Score: 169
Period size: 27 Copynumber: 5.9 Consensus size: 26
1096353 AGGAAGCGTC
*
1096363 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAA-TATCTGAT
*
1096390 TTGGTGGCTCTGCCACATATATCTG-T
1 CTGGTGGCTCTGCCACA-ATATCTGAT
*
1096416 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAA-TATCTGAT
* *
1096444 CTGGTGGCTCTGCCACATATAACTGTT
1 CTGGTGGCTCTGCCACA-ATATCTGAT
1096471 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTG-AT
* * *
1096498 CCGGTGAGTTC-GTCACAATATCTG
1 CTGGTG-GCTCTGCCACAATATCTG
1096522 GCAGCCTCGC
Statistics
Matches: 113, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
26 8 0.07
27 99 0.88
28 6 0.05
ACGTcount: A:0.19, C:0.25, G:0.23, T:0.33
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACAATATCTGAT
Found at i:1106590 original size:77 final size:77
Alignment explanation
Indices: 1106499--1106675 Score: 225
Period size: 77 Copynumber: 2.3 Consensus size: 77
1106489 GATGAACTAT
*
1106499 TATCATGGCCCGAAGCCAAATT-ATCCAATATGCATGG-CCTGAAGTCAAATCAATAATATACAC
1 TATCATGGCCCGAAGCC-AATTCATCCAATATGCATGGTCC-GAAGCCAAATCAATAATATACAC
* *
1106562 ACCCGAAGTGTTGA
64 ACCCGAAGTGCTAA
* * ** *
1106576 TATCATGGCCCGAAGCCAATTCATCCGATATGTATGGTCCGAAGCCAAATCGGTAATATACGCAC
1 TATCATGGCCCGAAGCCAATTCATCCAATATGCATGGTCCGAAGCCAAATCAATAATATACACAC
1106641 CCGAAGTGCTAA
66 CCGAAGTGCTAA
*
1106653 TATCATGGCTCGATA-CCAATTCA
1 TATCATGGCCCGA-AGCCAATTCA
1106676 ACGTATCACT
Statistics
Matches: 88, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
76 4 0.05
77 81 0.92
78 3 0.03
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (77 bp):
TATCATGGCCCGAAGCCAATTCATCCAATATGCATGGTCCGAAGCCAAATCAATAATATACACAC
CCGAAGTGCTAA
Found at i:1107231 original size:13 final size:14
Alignment explanation
Indices: 1107196--1107234 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
1107186 GAAGATATTT
1107196 ATATATTATATATAA
1 ATATATTAT-TATAA
*
1107211 ATAAATTATTAT-A
1 ATATATTATTATAA
1107224 ATATATTATTA
1 ATATATTATTA
1107235 GTAACTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 11 0.50
14 3 0.14
15 8 0.36
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
ATATATTATTATAA
Found at i:1123289 original size:20 final size:20
Alignment explanation
Indices: 1123264--1123303 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
1123254 ACATAAATGA
1123264 CTTTGAAATTA-ATTTAATTT
1 CTTTG-AATTATATTTAATTT
1123284 CTTTGAATTATTATTTAATT
1 CTTTGAATTA-TATTTAATT
1123304 GAATGTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.28
20 5 0.28
21 8 0.44
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (20 bp):
CTTTGAATTATATTTAATTT
Found at i:1124066 original size:18 final size:19
Alignment explanation
Indices: 1124031--1124068 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
1124021 TATTAATTTT
* *
1124031 AAATTTTATTTTTGAAATA
1 AAATTTTAATATTGAAATA
1124050 AAATTTTAATATT-AAATA
1 AAATTTTAATATTGAAATA
1124068 A
1 A
1124069 TAAATTATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (19 bp):
AAATTTTAATATTGAAATA
Found at i:1125297 original size:169 final size:166
Alignment explanation
Indices: 1125011--1125335 Score: 429
Period size: 169 Copynumber: 1.9 Consensus size: 166
1125001 CACTTTCCAA
*
1125011 GAAAAACTATTGGTGACCGACGGAGTTTTAGCGAACAACAGCCGTCATCTGTCCATCACAACTTG
1 GAAAAACTATTGGTGACCGACGAAGTTTTAGCGAACAACAGCCGTCATCTGTCCATCACAACTTG
* * * *
1125076 TGAAGACAACAAAAATGCCTACAAAATAGATCTGCAAGATGAAAATAGAGAAGACGA-GTAGTAA
66 TGAAGACAACAAAAATACCCACAAAATAGATCTGCAAGATGAAAAGAGAGAAGAC-ATGCAGTAA
*
1125140 ATGAGAAGAAGAAAGCAAGAAATGGTTAATAGGAGGG
130 ATGAGAAGAAGAAAGAAAGAAATGGTTAATAGGAGGG
** ** *
1125177 GAAAAACTATTGGTGACCGGTGAAGTTTTAGCGAATGACATGCACCGTCATCTGTCCATTACAAC
1 GAAAAACTATTGGTGACCGACGAAGTTTTAGCGAACAACA-G--CCGTCATCTGTCCATCACAAC
* * * * *
1125242 TTGTGAAGATAACAAAGATACCCACAATATAGATCTGTAA-ATTGAAACGAGAGAAGACATGCAG
63 TTGTGAAGACAACAAAAATACCCACAAAATAGATCTGCAAGA-TGAAAAGAGAGAAGACATGCAG
* *
1125306 TGAATGAGAAGAAGAAATAAAGAAATGGTT
127 TAAATGAGAAGAAGAAAGAAAGAAATGGTT
1125336 GATGGGAAGG
Statistics
Matches: 136, Mismatches: 18, Indels: 7
0.84 0.11 0.04
Matches are distributed among these distances:
166 35 0.26
167 1 0.01
168 2 0.01
169 98 0.72
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (166 bp):
GAAAAACTATTGGTGACCGACGAAGTTTTAGCGAACAACAGCCGTCATCTGTCCATCACAACTTG
TGAAGACAACAAAAATACCCACAAAATAGATCTGCAAGATGAAAAGAGAGAAGACATGCAGTAAA
TGAGAAGAAGAAAGAAAGAAATGGTTAATAGGAGGG
Found at i:1126201 original size:19 final size:20
Alignment explanation
Indices: 1126158--1126201 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
1126148 AAATACATTT
*
1126158 AAAAACATAAAAACAAATAT
1 AAAAACATAAAAACAAATAA
* *
1126178 TAAAACA-AGAAACAAATAA
1 AAAAACATAAAAACAAATAA
1126197 AAAAA
1 AAAAA
1126202 TGATACTAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.77, C:0.09, G:0.02, T:0.11
Consensus pattern (20 bp):
AAAAACATAAAAACAAATAA
Found at i:1128174 original size:24 final size:24
Alignment explanation
Indices: 1128146--1128194 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
1128136 TGAAGAATGC
1128146 TGGTCCATAATTAAAGAACGAGCA
1 TGGTCCATAATTAAAGAACGAGCA
1128170 TGGTCCATAATTAAAGAACGAGCA
1 TGGTCCATAATTAAAGAACGAGCA
1128194 T
1 T
1128195 TGATGGCCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.41, C:0.16, G:0.20, T:0.22
Consensus pattern (24 bp):
TGGTCCATAATTAAAGAACGAGCA
Found at i:1130187 original size:210 final size:210
Alignment explanation
Indices: 1129915--1130306 Score: 590
Period size: 210 Copynumber: 1.9 Consensus size: 210
1129905 GATTTAAAAG
* *
1129915 ATTGTCCTAATTTAAGTTGGATTCCGGATTTGGAAGGATTTTCCTCTCTTCAAAATCTGTCAATT
1 ATTGTCCTAATTTAAGTTCGATTCCAGATTTGGAAGGATTTTCCTCTCTTCAAAATCTGTCAATT
* ** * * * *
1129980 GATAGCTGCAAGGAATTGGAAGTTCTTCCTATAACCGGAGGTTGTTCATCTCTTGAAAAGCTTAG
66 AATAGCTGCAACAAATTGGAAGTTCTTCCGATAACAGGAAGATGTTCATCTCTTGAAAAGCTTAG
* ** ** *
1130045 GATTTTGGGTTGTGAAAAATTAAGCAAGATCGGAGACGGATTATTTAGCTCCACTTGTCTCAAAG
131 CATTTCCGGTTGCCAAAAATTAAGCAAGATCGGAGACGGATTATTTACCTCCACTTGTCTCAAAG
1130110 AATTATATCTATGTC
196 AATTATATCTATGTC
*
1130125 ATTGTTCTAATTTAAGTTCGATTCCAGATTTGGAAGGATGTTT-CTCTCTT-AAAATTCTGTCAA
1 ATTGTCCTAATTTAAGTTCGATTCCAGATTTGGAAGGAT-TTTCCTCTCTTCAAAA-TCTGTCAA
* *
1130188 TTAATAGCTGCAACAAATTTGAAGTTCTTCCGGTAACAGGAAGATGTTCATCTCTTGAAAAGCTT
64 TTAATAGCTGCAACAAATTGGAAGTTCTTCCGATAACAGGAAGATGTTCATCTCTTGAAAAGCTT
1130253 AGCATTTCCGGTTGCCAAAAATTAAGCAAGATCGGAGACGGATTATTTACCTCC
129 AGCATTTCCGGTTGCCAAAAATTAAGCAAGATCGGAGACGGATTATTTACCTCC
1130307 TCTCTTCAAA
Statistics
Matches: 162, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
209 4 0.02
210 155 0.96
211 3 0.02
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.35
Consensus pattern (210 bp):
ATTGTCCTAATTTAAGTTCGATTCCAGATTTGGAAGGATTTTCCTCTCTTCAAAATCTGTCAATT
AATAGCTGCAACAAATTGGAAGTTCTTCCGATAACAGGAAGATGTTCATCTCTTGAAAAGCTTAG
CATTTCCGGTTGCCAAAAATTAAGCAAGATCGGAGACGGATTATTTACCTCCACTTGTCTCAAAG
AATTATATCTATGTC
Found at i:1130384 original size:138 final size:138
Alignment explanation
Indices: 1130168--1130436 Score: 396
Period size: 138 Copynumber: 1.9 Consensus size: 138
1130158 AAGGATGTTT
* *
1130168 CTCTCTTAAAATTCTGTCAATTAATAGCTGCAACAAATTTGAAGTTCTTCCGGTAACAGGAAGAT
1 CTCTCTTAAAATTCTGTCAATTAATAGCTGCAACAAATTAGAAGTTCTTCCAGTAACAGGAAGAT
1130233 GTTCATCTCTTGAAAAGCTTAGCATTTCCGGTTGCCAAAAATTAAGCAAGATCGGAGACGGATTA
66 GTTCATCTCTTGAAAAGCTTAGCATTTCCGGTTGCCAAAAATTAAGCAAGATCGGAGACGGATTA
1130298 TTTACCTC
131 TTTACCTC
* * * * * * * *
1130306 CTCTCTTCAAAA-TCTGTCAATTGATAGTTGCAACGAATTAGAAGTTCTTTCATTACCTGGAAGG
1 CTCTCTT-AAAATTCTGTCAATTAATAGCTGCAACAAATTAGAAGTTCTTCCAGTAACAGGAAGA
** * *
1130370 TGTTCATCTCTTGAAAAGCTTAGCATTTTTGGTTGCGAAAAATTAAGCAAGATTGGAGACGGATT
65 TGTTCATCTCTTGAAAAGCTTAGCATTTCCGGTTGCCAAAAATTAAGCAAGATCGGAGACGGATT
1130435 AT
130 AT
1130437 CTGCCTGCGC
Statistics
Matches: 116, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
138 112 0.97
139 4 0.03
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (138 bp):
CTCTCTTAAAATTCTGTCAATTAATAGCTGCAACAAATTAGAAGTTCTTCCAGTAACAGGAAGAT
GTTCATCTCTTGAAAAGCTTAGCATTTCCGGTTGCCAAAAATTAAGCAAGATCGGAGACGGATTA
TTTACCTC
Found at i:1130596 original size:348 final size:348
Alignment explanation
Indices: 1129956--1130654 Score: 1021
Period size: 348 Copynumber: 2.0 Consensus size: 348
1129946 GGAAGGATTT
* *
1129956 TCCTCTCTTCAAAATCTGTCAATTGATAGCTGCAAGGAATTGGAAGTTCTTCCTATAACCGGAGG
1 TCCTCTCTTCAAAATCTGTCAATTGATAGCTGCAACGAATTAGAAGTTCTTCCTATAACCGGAGG
* *
1130021 TTGTTCATCTCTTGAAAAGCTTAGGATTTTGGGTTGTGAAAAATTAAGCAAGATCGGAGACGGAT
66 TTGTTCATCTCTTGAAAAGCTTAGCATTTTGGGTTGCGAAAAATTAAGCAAGATCGGAGACGGAT
* * * * *
1130086 TATTTAGCTCCACTTGTCTCAAAGAATTATATCTATGTCATTGTTCTAATTTAAGTTCGATTCCA
131 TATCTAGCTCCACTTGTCTCAAAGAATTAGATCTATATAATTGTCCTAATTTAAGTTCGATTCCA
* ** *
1130151 GATTTGGAAGGATGTTTCTCTCTTAAAATTCTGTCAATTAATAGCTGCAACAAATTTGAAGTTCT
196 AATTTGGAAGGATGTTTCTCTCTTAAAAGCCTGTCAATTAATAGCTGCAACAAATTGGAAGTTCT
** * * *
1130216 TCCGGTAACAGGAAGATGTTCATCTCTTGAAAAGCTTAGCATTTCCGGTTGCCAAAAAT-TAAGC
261 TCCAATAACAGGAAGATGTTCATCTATTGAAAAGCTTAGAATTTCCAGTTG-CAAAAATCTAAGC
*
1130280 AAGATCGGAGACGGATTATTTACC
325 AAGATCGGAGACGGATTATCTACC
* * *
1130304 TCCTCTCTTCAAAATCTGTCAATTGATAGTTGCAACGAATTAGAAGTTCTTTC-ATTACCTGGAA
1 TCCTCTCTTCAAAATCTGTCAATTGATAGCTGCAACGAATTAGAAGTTCTTCCTATAACC-GG-A
* *
1130368 GG-TGTTCATCTCTTGAAAAGCTTAGCATTTTTGGTTGCGAAAAATTAAGCAAGATTGGAGACGG
64 GGTTGTTCATCTCTTGAAAAGCTTAGCATTTTGGGTTGCGAAAAATTAAGCAAGATCGGAGACGG
* * *
1130432 ATTATCT-GCCTGCGCTTGTCTCAAAGAATTAGGTCTATATAATTGTCCTAATTTAAGTTCGATT
129 ATTATCTAG-CTCCACTTGTCTCAAAGAATTAGATCTATATAATTGTCCTAATTTAAGTTCGATT
* * * **
1130496 CCAAATTTGGAAGGAT-TTTCCTCTCTTCAGAGCCTGTCAATTAATAGGTGCAATGAATTGGAAG
193 CCAAATTTGGAAGGATGTTT-CTCTCTTAAAAGCCTGTCAATTAATAGCTGCAACAAATTGGAAG
*
1130560 TTCTTCCAATAACTGGAAGATGTTCATCTATTGAAAAGCTTAGAATTTCCAGTTGCAAAAATCTA
257 TTCTTCCAATAACAGGAAGATGTTCATCTATTGAAAAGCTTAGAATTTCCAGTTGCAAAAATCTA
1130625 AGCAAGATCGGAGACGGATTATCTACC
322 AGCAAGATCGGAGACGGATTATCTACC
1130652 TCC
1 TCC
1130655 ACTTGTCTCA
Statistics
Matches: 313, Mismatches: 33, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
347 16 0.05
348 294 0.94
349 3 0.01
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (348 bp):
TCCTCTCTTCAAAATCTGTCAATTGATAGCTGCAACGAATTAGAAGTTCTTCCTATAACCGGAGG
TTGTTCATCTCTTGAAAAGCTTAGCATTTTGGGTTGCGAAAAATTAAGCAAGATCGGAGACGGAT
TATCTAGCTCCACTTGTCTCAAAGAATTAGATCTATATAATTGTCCTAATTTAAGTTCGATTCCA
AATTTGGAAGGATGTTTCTCTCTTAAAAGCCTGTCAATTAATAGCTGCAACAAATTGGAAGTTCT
TCCAATAACAGGAAGATGTTCATCTATTGAAAAGCTTAGAATTTCCAGTTGCAAAAATCTAAGCA
AGATCGGAGACGGATTATCTACC
Found at i:1130666 original size:210 final size:209
Alignment explanation
Indices: 1130304--1130976 Score: 986
Period size: 210 Copynumber: 3.2 Consensus size: 209
1130294 ATTATTTACC
* * * * *
1130304 TCCTCTCTTCAAAATCTGTCAATTGATAGTTGCAACGAATTAGAAGTTCTTTCATTACCTGGAAG
1 TCCTCTCTTCAAAATCTGTCAATTGATAGCTGCAACGAATTGGAAGTTCTTCCAATAACTGGAAG
* * *** *
1130369 GTGTTCATCTCTTGAAAAGCTTAGCATTTTTGGTTGCGAAAAATTAAGCAAGATTGGAGACGGAT
66 ATGTTCATCTCTTGAAAAGCTTAGAATTTCCAGTTGC-AAAAATTAAGCAAGATCGGAGACGGAT
* * * * ** *
1130434 TATCTGCCTGCGCTTGTCTCAAAGAATTAGGTCTATATAATTGTCCTAATTTAAGTTCGATTCCA
130 TATCTACCTCCACTTGTCTCAAAGAATTAGATCTATATCTTTGTTCTAATTTAAGTTCGATTCCA
*
1130499 AATTTGGAAGGATTT
195 GATTTGGAAGGATTT
* ** * * *
1130514 TCCTCTCTTCAGAGCCTGTCAATTAATAGGTGCAATGAATTGGAAGTTCTTCCAATAACTGGAAG
1 TCCTCTCTTCAAAATCTGTCAATTGATAGCTGCAACGAATTGGAAGTTCTTCCAATAACTGGAAG
*
1130579 ATGTTCATCTATTGAAAAGCTTAGAATTTCCAGTTGCAAAAATCTAAGCAAGATCGGAGACGGAT
66 ATGTTCATCTCTTGAAAAGCTTAGAATTTCCAGTTGCAAAAAT-TAAGCAAGATCGGAGACGGAT
* *
1130644 TATCTACCTCCACTTGTCTCAAAGAATTATATCTATATCTTTGTTCTAATTTAAGTTTGATTCCA
130 TATCTACCTCCACTTGTCTCAAAGAATTAGATCTATATCTTTGTTCTAATTTAAGTTCGATTCCA
1130709 GATTTGGAAGGATTT
195 GATTTGGAAGGATTT
* * *
1130724 TCCTCTCTTCAAAATCTATCAATTGATAGCTGCAACGAATTGGAAGTTCTTCCCATAACAGGAAG
1 TCCTCTCTTCAAAATCTGTCAATTGATAGCTGCAACGAATTGGAAGTTCTTCCAATAACTGGAAG
* *
1130789 ATGTTCATCTCTTGAAAATCTTAGAATTTCCAGTTGCAAAAATATGAGCAAGATCGGAGACGGAT
66 ATGTTCATCTCTTGAAAAGCTTAGAATTTCCAGTTGCAAAAAT-TAAGCAAGATCGGAGACGGAT
* * *
1130854 TATCTACCTCCACTTATCTTAAAGAATTAGATCTATATCTTTGTTCTAATTTAAGTTGGATTCCA
130 TATCTACCTCCACTTGTCTCAAAGAATTAGATCTATATCTTTGTTCTAATTTAAGTTCGATTCCA
1130919 GATTTGGAAGGATTT
195 GATTTGGAAGGATTT
*
1130934 TCCTCTCTTCAAAATCTGTCAATTGATAGCTGCAAGGAATTGG
1 TCCTCTCTTCAAAATCTGTCAATTGATAGCTGCAACGAATTGG
1130977 CGAGTTTTCC
Statistics
Matches: 416, Mismatches: 46, Indels: 2
0.90 0.10 0.00
Matches are distributed among these distances:
209 6 0.01
210 410 0.99
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (209 bp):
TCCTCTCTTCAAAATCTGTCAATTGATAGCTGCAACGAATTGGAAGTTCTTCCAATAACTGGAAG
ATGTTCATCTCTTGAAAAGCTTAGAATTTCCAGTTGCAAAAATTAAGCAAGATCGGAGACGGATT
ATCTACCTCCACTTGTCTCAAAGAATTAGATCTATATCTTTGTTCTAATTTAAGTTCGATTCCAG
ATTTGGAAGGATTT
Found at i:1131595 original size:144 final size:144
Alignment explanation
Indices: 1131344--1131608 Score: 341
Period size: 144 Copynumber: 1.8 Consensus size: 144
1131334 CTGGTTGGGA
* * * * * * *
1131344 AAAGCTTAAGAGTCTTCCCCCCCAACTTCAATTCCTCTCTGCCCTTGAAGAATTGACGATATTAG
1 AAAGCTAAAGAGTCTTCCCCACCAACTCCAACTCCCCACTGCCCTTGAAGAATTGACGATATGAG
* * * * ** *
1131409 AGTTTCAAGGAATAGAAGCCTTTCCAGAGTGGTTGGGAAATCTCTCTTCTTTAAGGCATCTATAT
66 AGTTTCAAGAAATAGAAGCCTTGCCAGACTCGTTCAGAAATCTCTCTTCTCTAAGGCATCTATAT
1131474 TTAAGTGGTTTTGG
131 TTAAGTGGTTTTGG
* * * * *
1131488 AAAGCTAAAGAGTCTTCCTCACCAACTCCAACTCCCCACTGCCCTTGAAGATTTGACTATGTGGG
1 AAAGCTAAAGAGTCTTCCCCACCAACTCCAACTCCCCACTGCCCTTGAAGAATTGACGATATGAG
* *
1131553 GGTTTCATGAAATAGAAGCCTTGCCAGACTCGTTCAGAAATCTCTCTTCTCTAAGG
66 AGTTTCAAGAAATAGAAGCCTTGCCAGACTCGTTCAGAAATCTCTCTTCTCTAAGG
1131609 TGTCTGCGTA
Statistics
Matches: 100, Mismatches: 21, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
144 100 1.00
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.31
Consensus pattern (144 bp):
AAAGCTAAAGAGTCTTCCCCACCAACTCCAACTCCCCACTGCCCTTGAAGAATTGACGATATGAG
AGTTTCAAGAAATAGAAGCCTTGCCAGACTCGTTCAGAAATCTCTCTTCTCTAAGGCATCTATAT
TTAAGTGGTTTTGG
Found at i:1134961 original size:25 final size:25
Alignment explanation
Indices: 1134933--1134981 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
1134923 TTATTTATTA
*
1134933 ATTTCTAATACTTTTTATAAATTTT
1 ATTTCTAATAATTTTTATAAATTTT
* *
1134958 ATTTTTTATAATTTTTATAAATTT
1 ATTTCTAATAATTTTTATAAATTT
1134982 ATAAATTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (25 bp):
ATTTCTAATAATTTTTATAAATTTT
Found at i:1134971 original size:10 final size:10
Alignment explanation
Indices: 1134958--1135048 Score: 50
Period size: 9 Copynumber: 9.6 Consensus size: 10
1134948 TATAAATTTT
1134958 ATTTTTTATA
1 ATTTTTTATA
1134968 A-TTTTTATA
1 ATTTTTTATA
*
1134977 A--ATTTATA
1 ATTTTTTATA
*
1134985 A-ATTTTATA
1 ATTTTTTATA
** *
1134994 AAATTTTATG
1 ATTTTTTATA
*
1135004 ATTTTTAATTA
1 ATTTTTTA-TA
* *
1135015 ATTTCTAATA
1 ATTTTTTATA
1135025 A-TTTTTAT-
1 ATTTTTTATA
1135033 ATTTTTTATA
1 ATTTTTTATA
*
1135043 CTTTTT
1 ATTTTT
1135049 AGAATGAACC
Statistics
Matches: 65, Mismatches: 11, Indels: 10
0.76 0.13 0.12
Matches are distributed among these distances:
8 8 0.12
9 28 0.43
10 21 0.32
11 8 0.12
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.63
Consensus pattern (10 bp):
ATTTTTTATA
Found at i:1134982 original size:8 final size:9
Alignment explanation
Indices: 1134903--1135002 Score: 71
Period size: 9 Copynumber: 10.9 Consensus size: 9
1134893 GTTTACCCTT
1134903 AATTTTATAA
1 AATTTTAT-A
*
1134913 AATTTTATG
1 AATTTTATA
* *
1134922 ATTATTTATT
1 AAT-TTTATA
1134932 AATTTCTAATA
1 AATTT-T-ATA
**
1134943 CTTTTTATA
1 AATTTTATA
1134952 AATTTTAT-
1 AATTTTATA
*
1134960 -TTTTTATA
1 AATTTTATA
*
1134968 ATTTTTATA
1 AATTTTATA
1134977 AA-TTTATA
1 AATTTTATA
1134985 AATTTTATAA
1 AATTTTAT-A
1134995 AATTTTAT
1 AATTTTAT
1135003 GATTTTTAAT
Statistics
Matches: 72, Mismatches: 11, Indels: 14
0.74 0.11 0.14
Matches are distributed among these distances:
7 6 0.08
8 8 0.11
9 27 0.38
10 26 0.36
11 5 0.07
ACGTcount: A:0.38, C:0.02, G:0.01, T:0.59
Consensus pattern (9 bp):
AATTTTATA
Found at i:1134982 original size:17 final size:17
Alignment explanation
Indices: 1134962--1135033 Score: 63
Period size: 19 Copynumber: 3.9 Consensus size: 17
1134952 AATTTTATTT
1134962 TTTATAATTTTTATAAA
1 TTTATAATTTTTATAAA
*
1134979 TTTATAAATTTTATAAAA
1 TTTATAATTTTTAT-AAA
* *
1134997 TTTTATGATTTTTAATTAAT
1 -TTTATAATTTTT-A-TAAA
1135017 TTCTAATAATTTTTATA
1 TT-T-ATAATTTTTATA
1135034 TTTTTTATAC
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
17 13 0.30
18 3 0.07
19 14 0.32
20 5 0.11
21 9 0.20
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.58
Consensus pattern (17 bp):
TTTATAATTTTTATAAA
Found at i:1139978 original size:69 final size:69
Alignment explanation
Indices: 1139867--1140005 Score: 269
Period size: 69 Copynumber: 2.0 Consensus size: 69
1139857 GATAGGAAAA
*
1139867 ACAGGTTCCAAAACAGGAATAACAGTGGCTGTAGGATTTTCAGCAGGTTTTGTAGTTGTGGTAGG
1 ACAGGTTCCAAAACAGGAATAACAGTGGCTGTAGGATTTTCAGCAGGTTTTGTAGTGGTGGTAGG
1139932 GCTG
66 GCTG
1139936 ACAGGTTCCAAAACAGGAATAACAGTGGCTGTAGGATTTTCAGCAGGTTTTGTAGTGGTGGTAGG
1 ACAGGTTCCAAAACAGGAATAACAGTGGCTGTAGGATTTTCAGCAGGTTTTGTAGTGGTGGTAGG
1140001 GCTG
66 GCTG
1140005 A
1 A
1140006 TAGAGTCTTG
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.27, C:0.13, G:0.32, T:0.28
Consensus pattern (69 bp):
ACAGGTTCCAAAACAGGAATAACAGTGGCTGTAGGATTTTCAGCAGGTTTTGTAGTGGTGGTAGG
GCTG
Found at i:1150077 original size:18 final size:19
Alignment explanation
Indices: 1150035--1150085 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
1150025 AAATAATTCG
*
1150035 AAAAAAAAAAAG-AAAAGA
1 AAAAAAAAAAAGTTAAAGA
1150053 AAGAAAAAAAAAGTTAAA-A
1 AA-AAAAAAAAAGTTAAAGA
*
1150072 AAAAAATAAAAGTT
1 AAAAAAAAAAAGTT
1150086 TGATGATTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 13 0.45
19 13 0.45
20 3 0.10
ACGTcount: A:0.80, C:0.00, G:0.10, T:0.10
Consensus pattern (19 bp):
AAAAAAAAAAAGTTAAAGA
Found at i:1158303 original size:17 final size:17
Alignment explanation
Indices: 1158283--1158315 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
1158273 AAAAAAAAAG
*
1158283 AAAATAAAA-AAAAGTT
1 AAAAAAAAATAAAAGTT
1158299 AAAAAAAAATAAAAGTT
1 AAAAAAAAATAAAAGTT
1158316 TGATGATTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (17 bp):
AAAAAAAAATAAAAGTT
Found at i:1162431 original size:24 final size:24
Alignment explanation
Indices: 1162404--1162455 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
1162394 TTCGTAGGTC
*
1162404 AAATAAATTATACTAATAAATGTT
1 AAATAAATTATACTAATAAATATT
* *
1162428 AAATATATTATACTAATGAATATT
1 AAATAAATTATACTAATAAATATT
1162452 AAAT
1 AAAT
1162456 CTTCTAGAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATATT
Found at i:1167232 original size:4 final size:4
Alignment explanation
Indices: 1167218--1167289 Score: 81
Period size: 4 Copynumber: 18.0 Consensus size: 4
1167208 ATAATTTTGG
* * * * *
1167218 GAGA AAGA GAGA GAGG GAGA GAAA GAAA GAGA GAGA GAGA GAGA GAGG
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
* *
1167266 GAGA GAAA GAGA AAGA GAGA GAGA
1 GAGA GAGA GAGA GAGA GAGA GAGA
1167290 TAGACGTGTT
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
4 56 1.00
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (4 bp):
GAGA
Found at i:1167232 original size:6 final size:6
Alignment explanation
Indices: 1167218--1167289 Score: 81
Period size: 6 Copynumber: 12.0 Consensus size: 6
1167208 ATAATTTTGG
* * * * *
1167218 GAGAAA GAGAGA GAGGGA GAGAAA GAAAGA GAGAGA GAGAGA GAGAGG
1 GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA
* *
1167266 GAGAGA AAGAGA AAGAGA GAGAGA
1 GAGAGA GAGAGA GAGAGA GAGAGA
1167290 TAGACGTGTT
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 55 1.00
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (6 bp):
GAGAGA
Found at i:1167237 original size:10 final size:10
Alignment explanation
Indices: 1167218--1167289 Score: 81
Period size: 10 Copynumber: 7.2 Consensus size: 10
1167208 ATAATTTTGG
*
1167218 GAGAAAGAGA
1 GAGAGAGAGA
*
1167228 GAGAGGGAGA
1 GAGAGAGAGA
* *
1167238 GAAAGAAAGA
1 GAGAGAGAGA
1167248 GAGAGAGAGA
1 GAGAGAGAGA
*
1167258 GAGAGAGGGA
1 GAGAGAGAGA
*
1167268 GAGAAAGAGA
1 GAGAGAGAGA
*
1167278 AAGAGAGAGA
1 GAGAGAGAGA
1167288 GA
1 GA
1167290 TAGACGTGTT
Statistics
Matches: 49, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
10 49 1.00
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (10 bp):
GAGAGAGAGA
Found at i:1167264 original size:32 final size:32
Alignment explanation
Indices: 1167218--1167289 Score: 119
Period size: 32 Copynumber: 2.2 Consensus size: 32
1167208 ATAATTTTGG
*
1167218 GAGAAAGAGAGAGAGGGAGAGAAAGA-AAGAGA
1 GAGAGAGAGAGAGAGGGAGAGAAAGAGAA-AGA
1167250 GAGAGAGAGAGAGAGGGAGAGAAAGAGAAAGA
1 GAGAGAGAGAGAGAGGGAGAGAAAGAGAAAGA
1167282 GAGAGAGA
1 GAGAGAGA
1167290 TAGACGTGTT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
32 36 0.95
33 2 0.05
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (32 bp):
GAGAGAGAGAGAGAGGGAGAGAAAGAGAAAGA
Found at i:1167901 original size:124 final size:124
Alignment explanation
Indices: 1167681--1167928 Score: 460
Period size: 124 Copynumber: 2.0 Consensus size: 124
1167671 TCGGCCACCA
*
1167681 ATCCGGTTTAAAAAACATTGAGATTAATATTTTATGCATTAATATTTTATATAGGATGGAAATTT
1 ATCCGGTTTAAAAAACATTGAGATTAATATTTTATGCATTAATATTTTATATAAGATGGAAATTT
1167746 GAAGTGTATAATTCTATGTACCATCAATCAATTTGATTATTCCCAATCACTAAGGCTTT
66 GAAGTGTATAATTCTATGTACCATCAATCAATTTGATTATTCCCAATCACTAAGGCTTT
1167805 ATCCGGTTTAAAAAACATTGAGATTAATATTTTATGCATTAATATTTTATATAAGATGGAAATTT
1 ATCCGGTTTAAAAAACATTGAGATTAATATTTTATGCATTAATATTTTATATAAGATGGAAATTT
* * *
1167870 GAAGTGTATAATTCTATGTACCATTAATCAATTTGATTATTCTCAATCATTAAGGCTTT
66 GAAGTGTATAATTCTATGTACCATCAATCAATTTGATTATTCCCAATCACTAAGGCTTT
1167929 GCTTGGTAAA
Statistics
Matches: 120, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
124 120 1.00
ACGTcount: A:0.36, C:0.11, G:0.12, T:0.41
Consensus pattern (124 bp):
ATCCGGTTTAAAAAACATTGAGATTAATATTTTATGCATTAATATTTTATATAAGATGGAAATTT
GAAGTGTATAATTCTATGTACCATCAATCAATTTGATTATTCCCAATCACTAAGGCTTT
Found at i:1174112 original size:77 final size:77
Alignment explanation
Indices: 1173985--1174138 Score: 299
Period size: 77 Copynumber: 2.0 Consensus size: 77
1173975 TAGACGGTTT
*
1173985 GAAATTGGGGTTGTTCTGTTGGCTAGGTCTAAGGATTCAATCTGCCATCCATGCTTGAGTTCAAG
1 GAAATTGGGGTTGTTCTATTGGCTAGGTCTAAGGATTCAATCTGCCATCCATGCTTGAGTTCAAG
1174050 ATTATTAGCTTC
66 ATTATTAGCTTC
1174062 GAAATTGGGGTTGTTCTATTGGCTAGGTCTAAGGATTCAATCTGCCATCCATGCTTGAGTTCAAG
1 GAAATTGGGGTTGTTCTATTGGCTAGGTCTAAGGATTCAATCTGCCATCCATGCTTGAGTTCAAG
1174127 ATTATTAGCTTC
66 ATTATTAGCTTC
1174139 AACCATGCTG
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 76 1.00
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.36
Consensus pattern (77 bp):
GAAATTGGGGTTGTTCTATTGGCTAGGTCTAAGGATTCAATCTGCCATCCATGCTTGAGTTCAAG
ATTATTAGCTTC
Found at i:1175493 original size:21 final size:21
Alignment explanation
Indices: 1175469--1175511 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
1175459 TGTGGATGCA
1175469 TTTG-AGTATGCTGATTGTAAT
1 TTTGTAGT-TGCTGATTGTAAT
* *
1175490 TTTGTTGTTGTTGATTGTAAT
1 TTTGTAGTTGCTGATTGTAAT
1175511 T
1 T
1175512 CCCTTATCTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.19, C:0.02, G:0.23, T:0.56
Consensus pattern (21 bp):
TTTGTAGTTGCTGATTGTAAT
Found at i:1186078 original size:13 final size:13
Alignment explanation
Indices: 1186060--1186123 Score: 76
Period size: 13 Copynumber: 4.9 Consensus size: 13
1186050 AGTTTGGCAA
1186060 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
1186073 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
*
1186086 TG-TTGTGGAAAAG
1 TGCTT-TTGAAAAG
* *
1186099 TACTTTTGAGAAG
1 TGCTTTTGAAAAG
1186112 TGCTTTTGAAAA
1 TGCTTTTGAAAA
1186124 ATTTGGTTTA
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
12 2 0.05
13 37 0.90
14 2 0.05
ACGTcount: A:0.30, C:0.06, G:0.27, T:0.38
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:1186122 original size:26 final size:26
Alignment explanation
Indices: 1186060--1186123 Score: 94
Period size: 26 Copynumber: 2.5 Consensus size: 26
1186050 AGTTTGGCAA
*
1186060 TGCTTTTGAAAAGTGCTTTTGAGAAG
1 TGCTTTTGAAAAGTACTTTTGAGAAG
*
1186086 TG-TTGTGGAAAAGTACTTTTGAGAAG
1 TGCTT-TTGAAAAGTACTTTTGAGAAG
1186112 TGCTTTTGAAAA
1 TGCTTTTGAAAA
1186124 ATTTGGTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 2 0.06
26 29 0.88
27 2 0.06
ACGTcount: A:0.30, C:0.06, G:0.27, T:0.38
Consensus pattern (26 bp):
TGCTTTTGAAAAGTACTTTTGAGAAG
Found at i:1186587 original size:13 final size:13
Alignment explanation
Indices: 1186569--1186593 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1186559 TTTAGAAGTG
1186569 CTTTTGAAAAGCA
1 CTTTTGAAAAGCA
1186582 CTTTTGAAAAGC
1 CTTTTGAAAAGC
1186594 TAAAAATTTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
CTTTTGAAAAGCA
Found at i:1213045 original size:9 final size:9
Alignment explanation
Indices: 1213026--1213071 Score: 56
Period size: 9 Copynumber: 4.9 Consensus size: 9
1213016 ATCACGTCAA
1213026 TAAATAATTT
1 TAAA-AATTT
1213036 TAAAAATTT
1 TAAAAATTT
*
1213045 TAAAAATAT
1 TAAAAATTT
1213054 TAGAAAATTT
1 TA-AAAATTT
*
1213064 TCAAAATT
1 TAAAAATT
1213072 CAAAAAATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
9 21 0.66
10 11 0.34
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (9 bp):
TAAAAATTT
Found at i:1214798 original size:29 final size:29
Alignment explanation
Indices: 1214728--1214799 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 29
1214718 GTTACAATTC
* *
1214728 GGACTTATTTGATTCATTTTAATAATATAA
1 GGACTGATTTGA-TCATTTTAATAATAGAA
*
1214758 GGACTGAATTGATCATTTTAATAATAGAA
1 GGACTGATTTGATCATTTTAATAATAGAA
*
1214787 TGACT-AGTTTGAT
1 GGACTGA-TTTGAT
1214800 ACGGTCCCTA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
28 1 0.03
29 25 0.69
30 10 0.28
ACGTcount: A:0.36, C:0.07, G:0.15, T:0.42
Consensus pattern (29 bp):
GGACTGATTTGATCATTTTAATAATAGAA
Found at i:1215012 original size:12 final size:12
Alignment explanation
Indices: 1214995--1215036 Score: 66
Period size: 12 Copynumber: 3.5 Consensus size: 12
1214985 TTTTAATCAT
*
1214995 CACATGGCAGCC
1 CACATGGCAACC
1215007 CACATGGCAACC
1 CACATGGCAACC
*
1215019 CACATGGCAATC
1 CACATGGCAACC
1215031 CACATG
1 CACATG
1215037 TATTTTCATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.31, C:0.38, G:0.19, T:0.12
Consensus pattern (12 bp):
CACATGGCAACC
Found at i:1217844 original size:59 final size:60
Alignment explanation
Indices: 1217731--1217854 Score: 151
Period size: 59 Copynumber: 2.1 Consensus size: 60
1217721 ATATTGTCTC
* * ** ** * * * *
1217731 AATTTAGTACCTAAACTTGATGCTTTTTCTTAATTTGGTATTTAAGCTTTTTTTA-TTTT
1 AATTTAATACCTAAAATTGACACTTTTTCTTAATTTAATATCTAAACTTGTTTTACGTTT
1217790 AATTTAATACCTAAAATTGACACTTTTTCTTAATTTAATATCTAAACTTGTTTTACGTTT
1 AATTTAATACCTAAAATTGACACTTTTTCTTAATTTAATATCTAAACTTGTTTTACGTTT
1217850 AATTT
1 AATTT
1217855 CGTATCTAAC
Statistics
Matches: 54, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
59 46 0.85
60 8 0.15
ACGTcount: A:0.29, C:0.11, G:0.07, T:0.52
Consensus pattern (60 bp):
AATTTAATACCTAAAATTGACACTTTTTCTTAATTTAATATCTAAACTTGTTTTACGTTT
Found at i:1218731 original size:46 final size:46
Alignment explanation
Indices: 1218679--1218774 Score: 147
Period size: 46 Copynumber: 2.1 Consensus size: 46
1218669 AAAGCTAGAT
*
1218679 TAAAATGTTGATTAAGCTCAAAGAATTTATGCAAACCCCTACACAA
1 TAAAATGTTGATTAAGCTCAAAGAACTTATGCAAACCCCTACACAA
* * * *
1218725 TAAAATGTTGATTCAGCTCAAAGAACTTATGCTATCCCCTACTCAA
1 TAAAATGTTGATTAAGCTCAAAGAACTTATGCAAACCCCTACACAA
1218771 TAAA
1 TAAA
1218775 GCCAAGACCC
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.28
Consensus pattern (46 bp):
TAAAATGTTGATTAAGCTCAAAGAACTTATGCAAACCCCTACACAA
Found at i:1222667 original size:17 final size:16
Alignment explanation
Indices: 1222627--1222670 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
1222617 TTTTTCGGTT
1222627 TTTCTTCTTCCCTGCC
1 TTTCTTCTTCCCTGCC
* *
1222643 TTTCCTTCTTCCATTGTC
1 TTT-CTTCTTCC-CTGCC
1222661 TTTCTTCTTC
1 TTTCTTCTTC
1222671 TTTTTTCGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 3 0.12
17 15 0.62
18 6 0.25
ACGTcount: A:0.02, C:0.36, G:0.05, T:0.57
Consensus pattern (16 bp):
TTTCTTCTTCCCTGCC
Found at i:1238807 original size:17 final size:18
Alignment explanation
Indices: 1238770--1238813 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
1238760 AATCAAAATT
*
1238770 TATTTTATAATAAGATAA
1 TATTTTATAACAAGATAA
*
1238788 TATTTTATAACAA-TTAA
1 TATTTTATAACAAGATAA
*
1238805 TATCTTATA
1 TATTTTATA
1238814 TAAACTTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 11 0.48
18 12 0.52
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (18 bp):
TATTTTATAACAAGATAA
Found at i:1239433 original size:20 final size:20
Alignment explanation
Indices: 1239410--1239447 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1239400 ATTTTTTAAA
1239410 ATTAAAATTAA-AATTTTATT
1 ATTAAAA-TAATAATTTTATT
*
1239430 ATTAATATAATAATTTTA
1 ATTAAAATAATAATTTTA
1239448 AACTTGATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATTAAAATAATAATTTTATT
Found at i:1241732 original size:28 final size:30
Alignment explanation
Indices: 1241700--1241756 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 30
1241690 TTATTTTTAT
*
1241700 ATATTATATAAT-TTATAA-ATATATATTA
1 ATATTATATAATATTATAATATAAATATTA
*
1241728 ATATTATATATTATTATAATATAAATATT
1 ATATTATATAATATTATAATATAAATATT
1241757 TAAAAAATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 11 0.44
29 6 0.24
30 8 0.32
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (30 bp):
ATATTATATAATATTATAATATAAATATTA
Found at i:1242194 original size:45 final size:44
Alignment explanation
Indices: 1242135--1242229 Score: 118
Period size: 45 Copynumber: 2.1 Consensus size: 44
1242125 TTTGGTTCGC
* * * *
1242135 TGTATTGGATTAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
1242180 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
1242224 TGTAAT
1 TGTAAT
1242230 AGAGGTGTAA
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
44 18 0.42
45 25 0.58
ACGTcount: A:0.33, C:0.05, G:0.27, T:0.35
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:1242412 original size:18 final size:17
Alignment explanation
Indices: 1242391--1242425 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
1242381 TTATTATTTA
*
1242391 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
1242409 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
1242426 GGTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:1242419 original size:28 final size:27
Alignment explanation
Indices: 1242349--1242421 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
1242339 TTTATTATCA
*
1242349 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
1242377 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
1242404 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
1242422 AAATGGTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:1242538 original size:144 final size:147
Alignment explanation
Indices: 1242310--1242581 Score: 469
Period size: 144 Copynumber: 1.9 Consensus size: 147
1242300 ATGATTATTG
1242310 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTA--TATTATCAAAAATAAATAATTTAATCATATTTAA
* *
1242375 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATGGTTAATAATTAGC
64 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATGCTTAATAATTAGC
1242440 AGAAATTTGTTTTGGTAAA
129 AGAAATTTGTTTTGGTAAA
*
1242459 TTATT-TTATTTAAATTTTAATAAGATTA-A-TATCAATAATAAATAATTTAATCATATTTAAAC
1 TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
*
1242521 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATGCTTAATAATTA
1242582 ATATTCTTAT
Statistics
Matches: 119, Mismatches: 4, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
144 90 0.76
145 1 0.01
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.47
Consensus pattern (147 bp):
TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATGCTTAATAATTAGCAG
AAATTTGTTTTGGTAAA
Found at i:1242556 original size:18 final size:17
Alignment explanation
Indices: 1242535--1242569 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
1242525 TTATTATTAA
*
1242535 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
1242553 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
1242570 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:1248588 original size:130 final size:130
Alignment explanation
Indices: 1248337--1248810 Score: 393
Period size: 130 Copynumber: 3.6 Consensus size: 130
1248327 AAAATTCTTC
* * * * *
1248337 AAAACGAAGGCGAAATTTGATGTTCGGCGATTCGCGGAATCGTGCCCTAATGTGTTGGGTTGCAA
1 AAAACGAAGACGAGATTTGATGTTCGGCAATTCGAGGAATCGTGCCCTAACGTGTTGGGTTGCAA
* * * * * * *
1248402 TTTCGTATTTGCTCAAAATAATCAAATTTCCCTTCGAAATTTTATTCATATTTTTTAAAAT-TCC
66 TTTCGCATTTGTTCAAAATAATCAAATATCACTTCAAAATTTTACTCATATCTTTTAAAATCT-C
1248466 T
130 T
* * * * * * *
1248467 TAAATGAAGATGAGATTTGATGTTTGGCAATTCGTGGAATTGTGTCCTAACGTGTTGGGTTGCAA
1 AAAACGAAGACGAGATTTGATGTTCGGCAATTCGAGGAATCGTGCCCTAACGTGTTGGGTTGCAA
* * * * * *
1248532 TTTCGCATTTGTTCAAAATAATCGAATATCATTTTAAAATTTTGCTCGTGTCTTTTAAAATCTCT
66 TTTCGCATTTGTTCAAAATAATCAAATATCACTTCAAAATTTTACTCATATCTTTTAAAATCTCT
* * * * *
1248597 AAAACGAAGGCGATATGTGATATTCGGCAATTCGCAGG-ATCGTGCCCTAACGTGTTGGGTAGCA
1 AAAACGAAGACGAGATTTGATGTTCGGCAATTCG-AGGAATCGTGCCCTAACGTGTTGGGTTGCA
* * * * * *
1248661 ATTTCCCGA-TTGTTTAAAATAATCAAATATCCCTTCAAAATTTCACTCGA-CTCTTCTAAAAAT
65 ATTTCGC-ATTTGTTCAAAATAATCAAATATCACTTCAAAATTTTACTC-ATATCTT-TTAAAAT
*
1248724 CCTTT
127 -CTCT
* * * ** * * * * * **
1248729 AAAACGAA-AGCAATATTCGGCGTTTGACAATTCGA-GAATCATGCCCTATCGTGCTGGGTTGTG
1 AAAACGAAGA-CGAGATTTGATGTTCGGCAATTCGAGGAATCGTGCCCTAACGTGTTGGGTTGCA
*
1248792 ATTTCTCATTTGTTCAAAA
65 ATTTCGCATTTGTTCAAAA
1248811 CGATCGAATA
Statistics
Matches: 270, Mismatches: 65, Indels: 17
0.77 0.18 0.05
Matches are distributed among these distances:
130 197 0.73
131 46 0.17
132 27 0.10
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.35
Consensus pattern (130 bp):
AAAACGAAGACGAGATTTGATGTTCGGCAATTCGAGGAATCGTGCCCTAACGTGTTGGGTTGCAA
TTTCGCATTTGTTCAAAATAATCAAATATCACTTCAAAATTTTACTCATATCTTTTAAAATCTCT
Found at i:1250026 original size:28 final size:29
Alignment explanation
Indices: 1249995--1250072 Score: 70
Period size: 28 Copynumber: 2.7 Consensus size: 29
1249985 TATTATTATT
*
1249995 TATATAAATATATAAATTA-ATTATAAAG
1 TATATAAATAAATAAATTACATTATAAAG
* * *
1250023 TATATTATTAAATTAATTACATTATAAA-
1 TATATAAATAAATAAATTACATTATAAAG
*
1250051 TATTATATTAAGAAATAAATTA
1 TA-TATA--AATAAATAAATTA
1250073 AATAAAGACA
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
28 17 0.45
29 11 0.29
31 10 0.26
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (29 bp):
TATATAAATAAATAAATTACATTATAAAG
Found at i:1250072 original size:31 final size:28
Alignment explanation
Indices: 1250006--1250073 Score: 73
Period size: 31 Copynumber: 2.3 Consensus size: 28
1249996 ATATAAATAT
**
1250006 ATAAATTAATTATAAAGTATATTATTAA
1 ATAAATTAATTATAAAGTATATTAAGAA
* *
1250034 ATTAATTACATTATAAATATTATATTAAGAA
1 ATAAATTA-ATTAT-AA-AGTATATTAAGAA
1250065 ATAAATTAA
1 ATAAATTAA
1250074 ATAAAGACAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
28 7 0.22
29 5 0.16
30 3 0.09
31 17 0.53
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.41
Consensus pattern (28 bp):
ATAAATTAATTATAAAGTATATTAAGAA
Found at i:1250971 original size:18 final size:18
Alignment explanation
Indices: 1250948--1250990 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
1250938 ATGTGAGGTA
1250948 AGTATTAATATTAGTATT
1 AGTATTAATATTAGTATT
*
1250966 AGTATTATTATTAGTATT
1 AGTATTAATATTAGTATT
*
1250984 ATTATTA
1 AGTATTA
1250991 TTATGAGTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.53
Consensus pattern (18 bp):
AGTATTAATATTAGTATT
Found at i:1250976 original size:3 final size:3
Alignment explanation
Indices: 1250950--1250994 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
1250940 GTGAGGTAAG
* * * *
1250950 TAT TAA TAT TAG TAT TAG TAT TAT TAT TAG TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1250995 GAGTGGGAAT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:1251189 original size:24 final size:24
Alignment explanation
Indices: 1251135--1251206 Score: 67
Period size: 24 Copynumber: 2.9 Consensus size: 24
1251125 TGTGTGAAGT
*
1251135 TGTGAAATAATTATTG-ATTG-AAA
1 TGTGAAA-AATGATTGAATTGAAAA
*
1251158 GGTGGAAAAATGATTGAATTGAAAA
1 TGT-GAAAAATGATTGAATTGAAAA
1251183 TGTGAAAAATTGTAATTGAATTGA
1 TGTGAAAAA-TG--ATTGAATTGA
1251207 GAATATATGT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
23 9 0.22
24 14 0.35
25 7 0.17
27 10 0.25
ACGTcount: A:0.44, C:0.00, G:0.22, T:0.33
Consensus pattern (24 bp):
TGTGAAAAATGATTGAATTGAAAA
Found at i:1251409 original size:37 final size:39
Alignment explanation
Indices: 1251350--1251445 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
1251340 CGGATAGATT
* * * *
1251350 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
1251387 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
1251426 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
1251446 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:1255365 original size:17 final size:17
Alignment explanation
Indices: 1255326--1255368 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
1255316 ACTATCAATA
1255326 TAAATAATAAATTTAAT
1 TAAATAATAAATTTAAT
* *
1255343 TTAATATTAAATTT-AT
1 TAAATAATAAATTTAAT
1255359 TAAAATAATA
1 T-AAATAATA
1255369 TTGTTTTTAG
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
16 3 0.14
17 18 0.86
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TAAATAATAAATTTAAT
Found at i:1255608 original size:25 final size:25
Alignment explanation
Indices: 1255580--1255635 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
1255570 TGTTGCTGGT
*
1255580 TCGGTTCAAGCCTGTGACAACCCAA
1 TCGGTTCAAGCCAGTGACAACCCAA
* **
1255605 TCGGTTCAGGCCAGTGATGACCCAA
1 TCGGTTCAAGCCAGTGACAACCCAA
*
1255630 CCGGTT
1 TCGGTT
1255636 TGGTCCAGCC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.21
Consensus pattern (25 bp):
TCGGTTCAAGCCAGTGACAACCCAA
Found at i:1270140 original size:26 final size:24
Alignment explanation
Indices: 1270111--1270159 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
1270101 ATAAAAAAAG
*
1270111 TTTAAAAATATAATAAATCAAATATA
1 TTTAAAAACATAA-AAA-CAAATATA
1270137 TTTAAAAACATAAAAACAAATAT
1 TTTAAAAACATAAAAACAAATAT
1270160 TAAAACAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (24 bp):
TTTAAAAACATAAAAACAAATATA
Found at i:1270179 original size:21 final size:21
Alignment explanation
Indices: 1270130--1270188 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
1270120 ATAATAAATC
*
1270130 AAAT-ATATTTAAAA-ACATAA
1 AAATAATA-TTAAAACAAATAA
*
1270150 AAACAAATATTAAAACAAATAA
1 AAA-TAATATTAAAACAAATAA
*
1270172 AAATAATACTAAAACAA
1 AAATAATATTAAAACAA
1270189 TTCTTAAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
20 3 0.09
21 18 0.56
22 11 0.34
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.22
Consensus pattern (21 bp):
AAATAATATTAAAACAAATAA
Found at i:1271938 original size:27 final size:27
Alignment explanation
Indices: 1271908--1271962 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
1271898 GAGGATAATG
1271908 TAAGGATATTAGGGATTGAATCAAAGT
1 TAAGGATATTAGGGATTGAATCAAAGT
1271935 TAAGGATATTAGGGATTGAATCAAAGT
1 TAAGGATATTAGGGATTGAATCAAAGT
1271962 T
1 T
1271963 CTTTTTTCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.40, C:0.04, G:0.25, T:0.31
Consensus pattern (27 bp):
TAAGGATATTAGGGATTGAATCAAAGT
Found at i:1272416 original size:17 final size:17
Alignment explanation
Indices: 1272396--1272432 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
1272386 TAAAAGTAAC
* *
1272396 AAAATAATAAAATTATT
1 AAAAAAATAAAAATATT
1272413 AAAAAAATAAAAATATT
1 AAAAAAATAAAAATATT
1272430 AAA
1 AAA
1272433 TTTTATAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (17 bp):
AAAAAAATAAAAATATT
Found at i:1272798 original size:10 final size:10
Alignment explanation
Indices: 1272783--1272829 Score: 53
Period size: 10 Copynumber: 4.7 Consensus size: 10
1272773 TATTTTATTA
1272783 TTTTTATAAC
1 TTTTTATAAC
1272793 TTTTTA-ATAC
1 TTTTTATA-AC
1272803 -TTTTATTAAC
1 TTTTTA-TAAC
*
1272813 TTTTTATAAA
1 TTTTTATAAC
1272823 TTTTTAT
1 TTTTTAT
1272830 GTACAACTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
9 6 0.19
10 20 0.62
11 6 0.19
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (10 bp):
TTTTTATAAC
Found at i:1272944 original size:10 final size:10
Alignment explanation
Indices: 1272900--1272989 Score: 73
Period size: 10 Copynumber: 9.3 Consensus size: 10
1272890 TCTAAATTTA
*
1272900 TTTATAGTAT
1 TTTATAATAT
1272910 TTATATAATAT
1 TT-TATAATAT
1272921 TTTCAT-AT-T
1 TTT-ATAATAT
*
1272930 TTTATAACAT
1 TTTATAATAT
1272940 TTTATAATAT
1 TTTATAATAT
* *
1272950 TTAAAAATAT
1 TTTATAATAT
*
1272960 CTTATAATAT
1 TTTATAATAT
*
1272970 TGTAT-A-AT
1 TTTATAATAT
1272978 TTTATAA-AT
1 TTTATAATAT
1272987 TTT
1 TTT
1272990 CTTTGTAATG
Statistics
Matches: 64, Mismatches: 11, Indels: 11
0.74 0.13 0.13
Matches are distributed among these distances:
8 8 0.12
9 12 0.19
10 33 0.52
11 11 0.17
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.56
Consensus pattern (10 bp):
TTTATAATAT
Found at i:1275680 original size:16 final size:16
Alignment explanation
Indices: 1275658--1275712 Score: 83
Period size: 16 Copynumber: 3.4 Consensus size: 16
1275648 GTTTGGTTCA
1275658 CTGTAATAGAATAGAG
1 CTGTAATAGAATAGAG
* *
1275674 TTGTAATTGAATAGAG
1 CTGTAATAGAATAGAG
*
1275690 CTGTAATGGAATAGAG
1 CTGTAATAGAATAGAG
1275706 CTGTAAT
1 CTGTAAT
1275713 CAGTAATTCA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.38, C:0.05, G:0.25, T:0.31
Consensus pattern (16 bp):
CTGTAATAGAATAGAG
Found at i:1275780 original size:44 final size:46
Alignment explanation
Indices: 1275694--1275787 Score: 138
Period size: 44 Copynumber: 2.1 Consensus size: 46
1275684 ATAGAGCTGT
1275694 AATGGAATAGAGCTGTAATCAGTAATTCAACTGTTTGGTTGAATGG
1 AATGGAATAGAGCTGTAATCAGTAATTCAACTGTTTGGTTGAATGG
* ***
1275740 AATGGAGTAGAGCTGTAAT-AG-AATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAGCTGTAATCAGTAATTCAACTGTTTGGTTGAATGG
1275784 AATG
1 AATG
1275788 ATGTTGTAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 24 0.55
45 2 0.05
46 18 0.41
ACGTcount: A:0.31, C:0.06, G:0.29, T:0.34
Consensus pattern (46 bp):
AATGGAATAGAGCTGTAATCAGTAATTCAACTGTTTGGTTGAATGG
Found at i:1275902 original size:25 final size:25
Alignment explanation
Indices: 1275858--1275908 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 25
1275848 ATTGATAGAT
1275858 GATTATTGTTATTAAA-TTTTAATAA
1 GATTATTGTTA-TAAATTTTTAATAA
1275883 GATTATTGTTA-AATATTTTTTAATAA
1 GATTATTGTTATAA-A-TTTTTAATAA
1275909 AAATAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
23 2 0.09
24 1 0.04
25 11 0.48
26 9 0.39
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (25 bp):
GATTATTGTTATAAATTTTTAATAA
Found at i:1275969 original size:24 final size:21
Alignment explanation
Indices: 1275948--1276006 Score: 75
Period size: 20 Copynumber: 2.8 Consensus size: 21
1275938 TAACATAATT
1275948 ATTATTAAATATAATTTAATAA
1 ATTATT-AATATAATTTAATAA
* *
1275970 AATAAT-ATATAATTTAATAA
1 ATTATTAATATAATTTAATAA
1275990 CATTATTAATATAATTT
1 -ATTATTAATATAATTT
1276007 TTAATAATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
20 14 0.45
21 4 0.13
22 13 0.42
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (21 bp):
ATTATTAATATAATTTAATAA
Found at i:1275970 original size:55 final size:54
Alignment explanation
Indices: 1275910--1276030 Score: 127
Period size: 57 Copynumber: 2.2 Consensus size: 54
1275900 TTTTAATAAA
* * *
1275910 AATAAAAATAAATAATTTAATCATATT-TTAACATAATTATTATTAAATATAATTT
1 AATAAAAATAAATAATTTAATAACATTATTAACATAATTATTAAT-AATA-AATTT
* * * *
1275965 AATAAAATAATATATAATTTAATAACATTATTAATATAATTTTTAATAATAATTTT
1 AAT-AAA-AATAAATAATTTAATAACATTATTAACATAATTATTAATAATAAATTT
1276021 AATATAAAAT
1 AATA-AAAAT
1276031 TATTATTATG
Statistics
Matches: 55, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
55 7 0.13
56 12 0.22
57 22 0.40
58 14 0.25
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (54 bp):
AATAAAAATAAATAATTTAATAACATTATTAACATAATTATTAATAATAAATTT
Found at i:1276009 original size:24 final size:24
Alignment explanation
Indices: 1275982--1276027 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
1275972 TAATATATAA
*
1275982 TTTAATAA-CATTATTAATATAATT
1 TTTAATAATAATT-TTAATATAATT
1276006 TTTAATAATAATTTTAATATAA
1 TTTAATAATAATTTTAATATAA
1276028 AATTATTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 17 0.85
25 3 0.15
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (24 bp):
TTTAATAATAATTTTAATATAATT
Found at i:1278518 original size:40 final size:40
Alignment explanation
Indices: 1278474--1278551 Score: 156
Period size: 40 Copynumber: 1.9 Consensus size: 40
1278464 GTTATACTGT
1278474 AGATACTCAAGCAAATAAGTTATTTTGCCAATTTAGATGC
1 AGATACTCAAGCAAATAAGTTATTTTGCCAATTTAGATGC
1278514 AGATACTCAAGCAAATAAGTTATTTTGCCAATTTAGAT
1 AGATACTCAAGCAAATAAGTTATTTTGCCAATTTAGAT
1278552 AGAGTTCCAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.33
Consensus pattern (40 bp):
AGATACTCAAGCAAATAAGTTATTTTGCCAATTTAGATGC
Found at i:1279985 original size:71 final size:73
Alignment explanation
Indices: 1279896--1280049 Score: 217
Period size: 71 Copynumber: 2.1 Consensus size: 73
1279886 CATGAAAATC
* *
1279896 TTTTATTTTTATTGTAATGACTATGTCTTTTAATTTT-AA-AAATTTATTTTTTTAATGGCTCAT
1 TTTT-TTTTTATTGTAATGACTAAGTCTATTAATTTTCAACAAA-TTATTTTTTT-ATGGCTCAT
1279959 TCATATGCATG
63 TCATATGCATG
*
1279970 TTTTTTTTT-TT-TAATGATTAAGTCTATTAATTTTCAACAAATTATTTTTTTATGGCTCATTCA
1 TTTTTTTTTATTGTAATGACTAAGTCTATTAATTTTCAACAAATTATTTTTTTATGGCTCATTCA
1280033 TATGCATG
66 TATGCATG
*
1280041 TTGTTTTTT
1 TTTTTTTTT
1280050 GATTTTAGGA
Statistics
Matches: 74, Mismatches: 4, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
71 48 0.65
72 14 0.19
73 8 0.11
74 4 0.05
ACGTcount: A:0.25, C:0.08, G:0.09, T:0.57
Consensus pattern (73 bp):
TTTTTTTTTATTGTAATGACTAAGTCTATTAATTTTCAACAAATTATTTTTTTATGGCTCATTCA
TATGCATG
Found at i:1280779 original size:21 final size:20
Alignment explanation
Indices: 1280746--1280784 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
1280736 GATATAATGC
*
1280746 ATTTTAAACATATAATTTACT
1 ATTTGAAACATAT-ATTTACT
*
1280767 ATTTGAAATATATATTTA
1 ATTTGAAACATATATTTA
1280785 ATTTAGTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.49
Consensus pattern (20 bp):
ATTTGAAACATATATTTACT
Found at i:1285224 original size:19 final size:19
Alignment explanation
Indices: 1285209--1285244 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1285199 AAAAAAATTA
1285209 TAAAAAAT-ATTTAAAAAT
1 TAAAAAATCATTTAAAAAT
*
1285227 TCAAAAATCATTTAAAAA
1 TAAAAAATCATTTAAAAA
1285245 ATTTAGAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.31
Consensus pattern (19 bp):
TAAAAAATCATTTAAAAAT
Found at i:1285254 original size:9 final size:9
Alignment explanation
Indices: 1285190--1285255 Score: 60
Period size: 10 Copynumber: 6.8 Consensus size: 9
1285180 TAAAATTTTG
1285190 TAAAAAATT
1 TAAAAAATT
*
1285199 AAAAAAATT
1 TAAAAAATT
1285208 ATAAAAAATAT
1 -TAAAAAAT-T
*
1285219 TTAAAAATT
1 TAAAAAATT
*
1285228 CAAAAATCATT
1 TAAAAA--ATT
1285239 TAAAAAATT
1 TAAAAAATT
1285248 TAGAAAAA
1 TA-AAAAA
1285256 AAATTAAAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
9 18 0.39
10 19 0.41
11 9 0.20
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.29
Consensus pattern (9 bp):
TAAAAAATT
Found at i:1291179 original size:19 final size:19
Alignment explanation
Indices: 1291155--1291195 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
1291145 CAAACTCAAC
1291155 AAACAAA-CGGTTTTCTCTA
1 AAACAAAGCGGTTTTC-CTA
*
1291174 AAACAAAGGGGTTTTCCTA
1 AAACAAAGCGGTTTTCCTA
1291193 AAA
1 AAA
1291196 TGGTTGGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.27
Consensus pattern (19 bp):
AAACAAAGCGGTTTTCCTA
Found at i:1292741 original size:136 final size:136
Alignment explanation
Indices: 1292484--1292751 Score: 448
Period size: 136 Copynumber: 2.0 Consensus size: 136
1292474 CCCAAAAATT
1292484 CCCCTTACTCATGACTTTCAAAAGAATAGTGATATAAATGCTTAGCAAATACATTCAAATAGTCA
1 CCCCTTACTCATGACTTTCAAAAGAATAGTGATATAAATGCTTAGCAAATACATTCAAATAGTCA
* *
1292549 TTTGAAAGACTAGTGTTCAAGATTGAATACGTAGAATATGAGAAAGTATGTAATGTTTTCATGAG
66 TTTGAAAGACTAGTATTCAAGATTGAATACGTAGAATATGAGAAAGCATGTAATGTTTTCATGAG
1292614 GGGGAG
131 GGGGAG
* *
1292620 CCCCTTCCTCATGACTTTCAAAAGAATGGTGATATAAATGCTTAGCAAATACATTCAAATAGTCA
1 CCCCTTACTCATGACTTTCAAAAGAATAGTGATATAAATGCTTAGCAAATACATTCAAATAGTCA
* * * *
1292685 TTTGAAATATTAGTATTCAAGATTGAATATGTAGAATATGA-ATAAGCATGTGATGTTTTCATGA
66 TTTGAAAGACTAGTATTCAAGATTGAATACGTAGAATATGAGA-AAGCATGTAATGTTTTCATGA
1292749 GGG
130 GGG
1292752 AGAGTAAATA
Statistics
Matches: 123, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
135 1 0.01
136 122 0.99
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (136 bp):
CCCCTTACTCATGACTTTCAAAAGAATAGTGATATAAATGCTTAGCAAATACATTCAAATAGTCA
TTTGAAAGACTAGTATTCAAGATTGAATACGTAGAATATGAGAAAGCATGTAATGTTTTCATGAG
GGGGAG
Found at i:1293816 original size:22 final size:22
Alignment explanation
Indices: 1293774--1293816 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
1293764 TACTGTTTAA
1293774 TATAGTTAATAATTATAAAATTT
1 TATAGTTAATAA-TATAAAATTT
1293797 TATAGTTCAATAA-ATAAAAT
1 TATAGTT-AATAATATAAAAT
1293817 AATTTTTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 7 0.37
23 7 0.37
24 5 0.26
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.42
Consensus pattern (22 bp):
TATAGTTAATAATATAAAATTT
Found at i:1310885 original size:40 final size:40
Alignment explanation
Indices: 1310839--1310987 Score: 183
Period size: 40 Copynumber: 3.7 Consensus size: 40
1310829 TACATATGTA
* *
1310839 ATTGTCGGTTTATCCCACTACTGCTGGGCACATATTTGAT
1 ATTGTCGGTTTATCCAACTACTGCTGGGCACACATTTGAT
* * ** * *
1310879 GTTGTCGGCTTATCTGACTAGTGATGGGCACACATTTGAT
1 ATTGTCGGTTTATCCAACTACTGCTGGGCACACATTTGAT
* * *
1310919 ATTGTAGGTTTATCCAACTAGTGCTGGGCCCACATTTGAT
1 ATTGTCGGTTTATCCAACTACTGCTGGGCACACATTTGAT
1310959 ATTGTCGGTTTATCCAACTAGC-GCTGGGC
1 ATTGTCGGTTTATCCAACTA-CTGCTGGGC
1310988 GCAAAACATT
Statistics
Matches: 92, Mismatches: 16, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
40 92 1.00
ACGTcount: A:0.20, C:0.21, G:0.24, T:0.35
Consensus pattern (40 bp):
ATTGTCGGTTTATCCAACTACTGCTGGGCACACATTTGAT
Found at i:1323211 original size:23 final size:25
Alignment explanation
Indices: 1323153--1323215 Score: 66
Period size: 23 Copynumber: 2.7 Consensus size: 25
1323143 AATCTAAAAT
1323153 TAAATATTAATAATT-TTAGTTAAAC
1 TAAATATTAATAATTATTAG-TAAAC
1323178 -ATAAT-TT-ATAATTATTA-T-AAC
1 TA-AATATTAATAATTATTAGTAAAC
1323199 TAAATATTAATAATTAT
1 TAAATATTAATAATTAT
1323216 CGGATTTAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
21 6 0.18
22 4 0.12
23 14 0.42
24 6 0.18
25 3 0.09
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (25 bp):
TAAATATTAATAATTATTAGTAAAC
Found at i:1323279 original size:21 final size:21
Alignment explanation
Indices: 1323253--1323294 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
1323243 TTGGATTTAA
1323253 GAGTTTAGAATCTTAG-GTTTT
1 GAGTTTAGAAT-TTAGAGTTTT
1323274 GAGTTTAGAATTTAGAGTTTT
1 GAGTTTAGAATTTAGAGTTTT
1323295 AGCATTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.26, C:0.02, G:0.24, T:0.48
Consensus pattern (21 bp):
GAGTTTAGAATTTAGAGTTTT
Found at i:1326836 original size:33 final size:33
Alignment explanation
Indices: 1326799--1326976 Score: 96
Period size: 33 Copynumber: 5.3 Consensus size: 33
1326789 GGCCTTGCCG
* *
1326799 TGGTCTTACATTC-GTAGTGCCATAACCCAATTA
1 TGGTCTTACATTCAG-AATGCCATAACCCAACTA
* *
1326832 TGGTCTTGTCA-TCAGAATGCCATAGCCCAACTA
1 TGGTCTT-ACATTCAGAATGCCATAACCCAACTA
*** *
1326865 TGGTCTTACATAT-AGATACTGCCATGGTCCAACCA
1 TGGTCTTACAT-TCAGA-A-TGCCATAACCCAACTA
* * * **
1326900 TGGTCTTACGTTTA-AGGTGCCATAACCCAGTTA
1 TGGTCTTACATTCAGA-ATGCCATAACCCAACTA
* * * * *
1326933 TGGTATTTTCATT-AAAATGCCATAGCCCAGCTA
1 TGGT-CTTACATTCAGAATGCCATAACCCAACTA
1326966 TGGTCTTACAT
1 TGGTCTTACAT
1326977 ATAAATACTG
Statistics
Matches: 111, Mismatches: 25, Indels: 19
0.72 0.16 0.12
Matches are distributed among these distances:
32 7 0.06
33 67 0.60
34 13 0.12
35 24 0.22
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (33 bp):
TGGTCTTACATTCAGAATGCCATAACCCAACTA
Found at i:1326897 original size:35 final size:33
Alignment explanation
Indices: 1326849--1327008 Score: 115
Period size: 35 Copynumber: 4.7 Consensus size: 33
1326839 GTCATCAGAA
1326849 TGCCATAGCCCAACTATGGTCTTACATATAGATAC
1 TGCCATAGCCCAACTATGGTCTTACATATA-A-AC
* * * * * **
1326884 TGCCATGGTCCAACCATGGTCTTACGTTTAAGG
1 TGCCATAGCCCAACTATGGTCTTACATATAAAC
* ** * * *
1326917 TGCCATAACCCAGTTATGGTATTTTCAT-TAAAA
1 TGCCATAGCCCAACTATGGT-CTTACATATAAAC
*
1326950 TGCCATAGCCCAGCTATGGTCTTACATATAAATAC
1 TGCCATAGCCCAACTATGGTCTTACATAT-AA-AC
* * *
1326985 TGCCATGGTCCAACCATGGTCTTA
1 TGCCATAGCCCAACTATGGTCTTA
1327009 AGCTCAATTC
Statistics
Matches: 94, Mismatches: 27, Indels: 8
0.73 0.21 0.06
Matches are distributed among these distances:
32 5 0.05
33 36 0.38
34 7 0.07
35 46 0.49
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (33 bp):
TGCCATAGCCCAACTATGGTCTTACATATAAAC
Found at i:1326923 original size:101 final size:101
Alignment explanation
Indices: 1326815--1327008 Score: 325
Period size: 101 Copynumber: 1.9 Consensus size: 101
1326805 TACATTCGTA
* * *
1326815 GTGCCATAACCCAATTATGGTCTTGTCATCAGAATGCCATAGCCCAACTATGGTCTTACATATAG
1 GTGCCATAACCCAATTATGGTATTGTCATCAAAATGCCATAGCCCAACTATGGTCTTACATATAA
1326880 ATACTGCCATGGTCCAACCATGGTCTTACGTTTAAG
66 ATACTGCCATGGTCCAACCATGGTCTTACGTTTAAG
* * * *
1326916 GTGCCATAACCCAGTTATGGTATTTTCATTAAAATGCCATAGCCCAGCTATGGTCTTACATATAA
1 GTGCCATAACCCAATTATGGTATTGTCATCAAAATGCCATAGCCCAACTATGGTCTTACATATAA
1326981 ATACTGCCATGGTCCAACCATGGTCTTA
66 ATACTGCCATGGTCCAACCATGGTCTTA
1327009 AGCTCAATTC
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
101 86 1.00
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.30
Consensus pattern (101 bp):
GTGCCATAACCCAATTATGGTATTGTCATCAAAATGCCATAGCCCAACTATGGTCTTACATATAA
ATACTGCCATGGTCCAACCATGGTCTTACGTTTAAG
Found at i:1329978 original size:33 final size:33
Alignment explanation
Indices: 1329925--1330002 Score: 88
Period size: 33 Copynumber: 2.4 Consensus size: 33
1329915 TGGCCCTGCC
1329925 ATGGTCTTACATTCGTAATGCCATAACCCAATT
1 ATGGTCTTACATTCGTAATGCCATAACCCAATT
* **
1329958 ATGGTCTTATCA-TCAG-AATGCCATAGCCCAGCT
1 ATGGTCTTA-CATTC-GTAATGCCATAACCCAATT
*
1329991 ATGGTTTTACAT
1 ATGGTCTTACAT
1330003 ATAGATACTG
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
32 2 0.05
33 33 0.87
34 3 0.08
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.33
Consensus pattern (33 bp):
ATGGTCTTACATTCGTAATGCCATAACCCAATT
Found at i:1330087 original size:101 final size:101
Alignment explanation
Indices: 1329943--1330136 Score: 307
Period size: 101 Copynumber: 1.9 Consensus size: 101
1329933 ACATTCGTAA
* * *
1329943 TGCCATAACCCAATTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGTTTTACATATAGA
1 TGCCATAACCCAATTATGGTCTTATCATCAAAATGCCATAGCCCAGCTATGGTCTTACATATAAA
* * *
1330008 TACTGCCATGGTCTAACCATGGTTTTACGTTTAAGG
66 TACTACCATGGTCCAACCATGGTCTTACGTTTAAGG
* * *
1330044 TGCCATAACCCAGTTATGGTCTTTTCATTAAAATGCCATAGCCCAGCTATGGTCTTACATATAAA
1 TGCCATAACCCAATTATGGTCTTATCATCAAAATGCCATAGCCCAGCTATGGTCTTACATATAAA
1330109 TACTACCATGGTCCAACCATGGTCTTAC
66 TACTACCATGGTCCAACCATGGTCTTAC
1330137 ACTCAATTCA
Statistics
Matches: 84, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
101 84 1.00
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (101 bp):
TGCCATAACCCAATTATGGTCTTATCATCAAAATGCCATAGCCCAGCTATGGTCTTACATATAAA
TACTACCATGGTCCAACCATGGTCTTACGTTTAAGG
Found at i:1331721 original size:22 final size:21
Alignment explanation
Indices: 1331695--1331735 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1331685 TGGAAGGTGT
1331695 TTAAACTCTCTTTAAGGTTTCA
1 TTAAA-TCTCTTTAAGGTTTCA
* *
1331717 TTAAATGTTTTTAAGGTTT
1 TTAAATCTCTTTAAGGTTT
1331736 TGTTGAGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.27, C:0.10, G:0.12, T:0.51
Consensus pattern (21 bp):
TTAAATCTCTTTAAGGTTTCA
Found at i:1336988 original size:46 final size:46
Alignment explanation
Indices: 1336912--1337271 Score: 497
Period size: 46 Copynumber: 7.8 Consensus size: 46
1336902 TGATGTCATA
* * * * *
1336912 GTATCTTTCAACTATGGTTTTACTCGTTTTC-TGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTC-ATTTCATATCAGGTTGCCATG
* ** *
1336958 GTATCTTTCAACCATGGTCTTATTCATTTTCCCATCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCA-TTTCATATCAGGTTGCCATG
* *
1337005 GTACCTTTCAACCATGGTCTTACTCATTTCATGTCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
* *
1337051 GTATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
* ** *
1337097 GTATCTTTCAACCATGGTCTTACACATTTCATATCACATTTCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
*
1337143 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
*
1337189 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
* * *
1337235 GTATCTTTCAACCATTGTCTTACACATTCCATATCAG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAG
1337272 AGAGCACACT
Statistics
Matches: 287, Mismatches: 25, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
46 250 0.87
47 37 0.13
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (46 bp):
GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
Done.