Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 110 of 310
Found at i:35038228 original size:25 final size:25
Alignment explanation
Indices: 35038190--35038237 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
35038180 TATAACCCAG
*
35038190 ATAAGCATCATGTTCCATGGCTCAT
1 ATAAGCATCATGTTACATGGCTCAT
* *
35038215 ATAAGCATCCTGTTATATGGCTC
1 ATAAGCATCATGTTACATGGCTC
35038238 GAGAATGTGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (25 bp):
ATAAGCATCATGTTACATGGCTCAT
Found at i:35039122 original size:14 final size:14
Alignment explanation
Indices: 35039103--35039136 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
35039093 TCTTGGTATA
35039103 TATGGTAAATTAAT
1 TATGGTAAATTAAT
35039117 TATGGTAAATTAAT
1 TATGGTAAATTAAT
35039131 TATGGT
1 TATGGT
35039137 TATAATGGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.18, T:0.44
Consensus pattern (14 bp):
TATGGTAAATTAAT
Found at i:35045225 original size:54 final size:54
Alignment explanation
Indices: 35045152--35045289 Score: 267
Period size: 54 Copynumber: 2.6 Consensus size: 54
35045142 ATTGTCGTTG
35045152 CAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTA
1 CAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTA
*
35045206 CAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTG
1 CAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTA
35045260 CAGGGGATTTAGCCTGGACTGGTAATCCCG
1 CAGGGGATTTAGCCTGGACTGGTAATCCCG
35045290 CTGCAAGGTT
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
54 83 1.00
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (54 bp):
CAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTA
Found at i:35045895 original size:23 final size:23
Alignment explanation
Indices: 35045869--35045913 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
35045859 TGGGTATGTG
*
35045869 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
35045892 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
35045914 TTGAATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:35052122 original size:30 final size:29
Alignment explanation
Indices: 35052074--35052180 Score: 126
Period size: 30 Copynumber: 3.6 Consensus size: 29
35052064 CGATGGTTGC
* * *
35052074 TGTT-GGTGAAATAAACTCGAACCGCCTA
1 TGTTGGGTGATATGAACTCGAACCGCCCA
* *
35052102 TGTTGGGGTTATATGAACTCGAATCGCCCA
1 TGTT-GGGTGATATGAACTCGAACCGCCCA
35052132 TGTCTGGGTGATATGAACTCGAACCGCCCA
1 TGT-TGGGTGATATGAACTCGAACCGCCCA
*
35052162 TGTCCGGGTGATATGAACT
1 TGT-TGGGTGATATGAACT
35052181 ACTCTGTGTC
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
28 4 0.06
30 63 0.93
31 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.27
Consensus pattern (29 bp):
TGTTGGGTGATATGAACTCGAACCGCCCA
Found at i:35054788 original size:21 final size:21
Alignment explanation
Indices: 35054762--35054822 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
35054752 GTGGTCGTTA
35054762 TAATATATATTTTTAATTTTC
1 TAATATATATTTTTAATTTTC
* * *
35054783 TAATATAAATTTTTACTTTTT
1 TAATATATATTTTTAATTTTC
35054804 TAATACATATATATTTTAA
1 TAAT--ATATAT-TTTTAA
35054823 AAATTCATAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
21 22 0.69
23 5 0.16
24 5 0.16
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (21 bp):
TAATATATATTTTTAATTTTC
Found at i:35054878 original size:20 final size:19
Alignment explanation
Indices: 35054832--35054876 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
35054822 AAAATTCATA
35054832 ATTTTTTAACAAATAAATC
1 ATTTTTTAACAAATAAATC
35054851 ATTTTTTAACAAATAAATC
1 ATTTTTTAACAAATAAATC
35054870 ATTTTTT
1 ATTTTTT
35054877 TATTTTTTCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.49
Consensus pattern (19 bp):
ATTTTTTAACAAATAAATC
Found at i:35055044 original size:22 final size:22
Alignment explanation
Indices: 35054997--35055066 Score: 72
Period size: 22 Copynumber: 3.2 Consensus size: 22
35054987 CATAATTTAA
**
35054997 AAAAT-TATATTTAAAA-TTAA
1 AAAATATATATTTAAAATTTTT
35055017 ATAAATATATATTTAAAATTTTT
1 A-AAATATATATTTAAAATTTTT
**
35055040 AAAATATACGTTTAAAATTTTAT
1 AAAATATATATTTAAAATTTT-T
35055063 AAAA
1 AAAA
35055067 CAAATAATAA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
20 1 0.02
21 4 0.10
22 29 0.69
23 8 0.19
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (22 bp):
AAAATATATATTTAAAATTTTT
Found at i:35055151 original size:20 final size:21
Alignment explanation
Indices: 35055128--35055234 Score: 88
Period size: 20 Copynumber: 5.3 Consensus size: 21
35055118 TTTTATATTA
35055128 TTAAAAAAT-TTATTTAAAAT
1 TTAAAAAATATTATTTAAAAT
*
35055148 TT-AAAAATAATATTT-AAAT
1 TTAAAAAATATTATTTAAAAT
35055167 TTAAAAAATA--A--T--AAT
1 TTAAAAAATATTATTTAAAAT
35055182 TTAAAAAATATATATTTAAAATT
1 TTAAAAAATAT-TATTTAAAA-T
*
35055205 TTAAAAAATAATATTATAAAACAT
1 TTAAAAAATATTATT-T-AAA-AT
35055229 TTAAAA
1 TTAAAA
35055235 TATACATTTC
Statistics
Matches: 72, Mismatches: 2, Indels: 22
0.75 0.02 0.23
Matches are distributed among these distances:
15 13 0.18
16 1 0.01
18 2 0.03
19 12 0.17
20 15 0.21
22 6 0.08
23 12 0.17
24 10 0.14
25 1 0.01
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (21 bp):
TTAAAAAATATTATTTAAAAT
Found at i:35055155 original size:19 final size:19
Alignment explanation
Indices: 35055138--35055224 Score: 74
Period size: 23 Copynumber: 4.4 Consensus size: 19
35055128 TTAAAAAATT
35055138 TATTTAAAATTTAAAAATAA
1 TATTT-AAATTTAAAAATAA
35055158 TATTTAAATTT-AAAA-AA
1 TATTTAAATTTAAAAATAA
*
35055175 TA-AT-AATTTAAAAAATATA
1 TATTTAAATTT-AAAAATA-A
35055194 TATTTAAAATTTTAAAAAATAA
1 TATTT-AAA-TTT-AAAAATAA
35055216 TATTATAAA
1 TATT-TAAA
35055225 ACATTTAAAA
Statistics
Matches: 56, Mismatches: 2, Indels: 16
0.76 0.03 0.22
Matches are distributed among these distances:
15 5 0.09
16 1 0.02
17 8 0.14
18 5 0.09
19 9 0.16
20 6 0.11
22 10 0.18
23 12 0.21
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
TATTTAAATTTAAAAATAA
Found at i:35055202 original size:14 final size:15
Alignment explanation
Indices: 35055164--35055202 Score: 62
Period size: 15 Copynumber: 2.6 Consensus size: 15
35055154 ATAATATTTA
35055164 AATTTAAAAAATAAT
1 AATTTAAAAAATAAT
35055179 AATTTAAAAAAT-AT
1 AATTTAAAAAATAAT
35055193 ATATTTAAAA
1 A-ATTTAAAA
35055203 TTTTAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 3 0.13
15 20 0.87
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
AATTTAAAAAATAAT
Found at i:35055208 original size:23 final size:23
Alignment explanation
Indices: 35055181--35055257 Score: 79
Period size: 23 Copynumber: 3.4 Consensus size: 23
35055171 AAAATAATAA
35055181 TTTAAAAAATATATATTTAAAAT
1 TTTAAAAAATATATATTTAAAAT
*
35055204 TTTAAAAAATA-ATATTATAAAACA
1 TTTAAAAAATATATATT-TAAAA-T
* *
35055228 TTT--AAAATATACATTTCAAAT
1 TTTAAAAAATATATATTTAAAAT
*
35055249 TTTATAAAA
1 TTTAAAAAA
35055258 CCAATAATAA
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
21 3 0.07
22 15 0.33
23 24 0.53
24 3 0.07
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (23 bp):
TTTAAAAAATATATATTTAAAAT
Found at i:35055208 original size:38 final size:35
Alignment explanation
Indices: 35055145--35055225 Score: 112
Period size: 38 Copynumber: 2.3 Consensus size: 35
35055135 ATTTATTTAA
35055145 AATTT-AAAAATAATATTTAAATTTAAAAAATAAT
1 AATTTAAAAAATAATATTTAAATTTAAAAAATAAT
35055179 AATTTAAAAAATATATATTTAAAATTTTAAAAAATAAT
1 AATTTAAAAAATA-ATATTT-AAA-TTTAAAAAATAAT
35055217 -ATTATAAAA
1 AATT-TAAAA
35055226 CATTTAAAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.12
35 7 0.17
36 6 0.14
37 6 0.14
38 18 0.43
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (35 bp):
AATTTAAAAAATAATATTTAAATTTAAAAAATAAT
Found at i:35055210 original size:22 final size:22
Alignment explanation
Indices: 35055179--35055257 Score: 72
Period size: 22 Copynumber: 3.5 Consensus size: 22
35055169 AAAAAATAAT
*
35055179 AATTTAAAAAATATATATTTAA
1 AATTTTAAAAATATATATTTAA
35055201 AATTTTAAAAA-ATAATATTATAA
1 AATTTTAAAAATAT-ATATT-TAA
* * *
35055224 AACATTT-AAAATATACATTTCA
1 AA-TTTTAAAAATATATATTTAA
35055246 AATTTTATAAAA
1 AATTTTA-AAAA
35055258 CCAATAATAA
Statistics
Matches: 46, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
21 5 0.11
22 19 0.41
23 17 0.37
24 5 0.11
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (22 bp):
AATTTTAAAAATATATATTTAA
Found at i:35055283 original size:20 final size:19
Alignment explanation
Indices: 35055260--35055320 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 19
35055250 TTATAAAACC
35055260 AATAATAAACAAATAAATAA
1 AATAATAAA-AAATAAATAA
**
35055280 AATAAATAAAGGATAAATAA
1 AAT-AATAAAAAATAAATAA
* *
35055300 AAAAATTAAAAAGTAAATAA
1 AATAA-TAAAAAATAAATAA
35055320 A
1 A
35055321 TAAAAAACTT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
19 2 0.06
20 25 0.76
21 6 0.18
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.20
Consensus pattern (19 bp):
AATAATAAAAAATAAATAA
Found at i:35055297 original size:11 final size:9
Alignment explanation
Indices: 35055270--35055325 Score: 55
Period size: 9 Copynumber: 6.3 Consensus size: 9
35055260 AATAATAAAC
35055270 AAATAAATA
1 AAATAAATA
35055279 AAATAAATA
1 AAATAAATA
35055288 AAGGATAAATA
1 AA--ATAAATA
*
35055299 AAA-AAATT
1 AAATAAATA
*
35055307 AAA-AAGT-
1 AAATAAATA
35055314 AAATAAATA
1 AAATAAATA
35055323 AAA
1 AAA
35055326 AACTTAAAAG
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
7 3 0.08
8 13 0.32
9 15 0.38
11 9 0.22
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (9 bp):
AAATAAATA
Found at i:35055297 original size:24 final size:21
Alignment explanation
Indices: 35055270--35055325 Score: 69
Period size: 20 Copynumber: 2.6 Consensus size: 21
35055260 AATAATAAAC
35055270 AAATAAATAAAATAAATAAAGGAT
1 AAATAAATAAAATAAA-AAA-G-T
*
35055294 AAATAAA-AAAATTAAAAAGT
1 AAATAAATAAAATAAAAAAGT
35055314 AAATAAATAAAA
1 AAATAAATAAAA
35055326 AACTTAAAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
20 8 0.27
21 5 0.17
22 3 0.10
23 7 0.23
24 7 0.23
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (21 bp):
AAATAAATAAAATAAAAAAGT
Found at i:35055345 original size:24 final size:24
Alignment explanation
Indices: 35055294--35055343 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
35055284 AATAAAGGAT
* *
35055294 AAATAAAAAAATTAAAAAGTAAAT
1 AAATAAAAAAATTAAAAAGAAAAA
*
35055318 AAATAAAAAACTT-AAAAGAAAAA
1 AAATAAAAAAATTAAAAAGAAAAA
35055341 AAA
1 AAA
35055344 ATGAAAAAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 11 0.48
24 12 0.52
ACGTcount: A:0.78, C:0.02, G:0.04, T:0.16
Consensus pattern (24 bp):
AAATAAAAAAATTAAAAAGAAAAA
Found at i:35062855 original size:32 final size:32
Alignment explanation
Indices: 35062794--35062857 Score: 78
Period size: 32 Copynumber: 2.0 Consensus size: 32
35062784 AAGATTAAAA
35062794 ATGAATATGAGATGAGAAATGAAGTATGAATTG
1 ATGAATATGAGATGAGAAATGAAG-ATGAATTG
*
35062827 ATGAA-ATGAGATGTGAATATTGAA-ATGAATT
1 ATGAATATGAGATGAGAA-A-TGAAGATGAATT
35062858 CAAGTATGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
32 18 0.64
33 6 0.21
34 4 0.14
ACGTcount: A:0.45, C:0.00, G:0.25, T:0.30
Consensus pattern (32 bp):
ATGAATATGAGATGAGAAATGAAGATGAATTG
Found at i:35066216 original size:15 final size:15
Alignment explanation
Indices: 35066192--35066221 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
35066182 TGTCCTAGCC
*
35066192 CGTTTGCAAAAACAT
1 CGTTTACAAAAACAT
35066207 CGTTTACAAAAACAT
1 CGTTTACAAAAACAT
35066222 GGACATTCTG
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:0.43, C:0.20, G:0.10, T:0.27
Consensus pattern (15 bp):
CGTTTACAAAAACAT
Found at i:35067313 original size:46 final size:45
Alignment explanation
Indices: 35067259--35067426 Score: 169
Period size: 46 Copynumber: 3.6 Consensus size: 45
35067249 ACATCTCGTA
35067259 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTAAGTCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTT-AGTCTCGAG
* * * * * *
35067305 GCCGATGCATGTCACAGACATGTCTTACACTGGCACTCGACTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC-TTAGTCTCGAG
* * * *
35067351 GCTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCA-TAAT-GTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-T-AGT-CTCGAG
35067399 GCCGATGCATGTCCCAGACATGTCTTAC
1 GCCGATGCATGTCCCAGACATGTCTTAC
35067427 GCTAGCTCAC
Statistics
Matches: 99, Mismatches: 17, Indels: 12
0.77 0.13 0.09
Matches are distributed among these distances:
46 51 0.52
47 28 0.28
48 19 0.19
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.26
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTAGTCTCGAG
Found at i:35084079 original size:22 final size:22
Alignment explanation
Indices: 35084051--35084095 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
35084041 AAATAAGTAA
*
35084051 AAATAAAGCACAAATTTCATCC
1 AAATAAAGCACAAATTTAATCC
35084073 AAATAAAGCACAAATTTAATCC
1 AAATAAAGCACAAATTTAATCC
35084095 A
1 A
35084096 TTCTCATCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.53, C:0.20, G:0.04, T:0.22
Consensus pattern (22 bp):
AAATAAAGCACAAATTTAATCC
Found at i:35091780 original size:49 final size:49
Alignment explanation
Indices: 35091685--35091780 Score: 113
Period size: 49 Copynumber: 2.0 Consensus size: 49
35091675 TTTATTTTAG
* * ** * *
35091685 AATAAGGTTTTTCAACCTTATTGTACTTCATCTATTTGATATTGATTAA
1 AATAAGGTGTTTCAACCTTACTACACTCCATCTATTAGATATTGATTAA
*
35091734 AATAAGGTGTTTCAACCTTACTACACTCCTTCTATTAGA-ATATGATT
1 AATAAGGTGTTTCAACCTTACTACACTCCATCTATTAGATAT-TGATT
35091781 TTACAAGCCT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
48 2 0.05
49 37 0.95
ACGTcount: A:0.31, C:0.16, G:0.10, T:0.43
Consensus pattern (49 bp):
AATAAGGTGTTTCAACCTTACTACACTCCATCTATTAGATATTGATTAA
Found at i:35097625 original size:15 final size:16
Alignment explanation
Indices: 35097592--35097640 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 16
35097582 TATTTATTTA
35097592 AATTATTA-TATT-A-
1 AATTATTATTATTAAT
*
35097605 AATTATTGTTA-TAAT
1 AATTATTATTATTAAT
35097620 AATTATTATTATTAAT
1 AATTATTATTATTAAT
35097636 -ATTAT
1 AATTAT
35097641 CAAATAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
13 8 0.27
14 3 0.10
15 15 0.50
16 4 0.13
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (16 bp):
AATTATTATTATTAAT
Found at i:35107395 original size:33 final size:31
Alignment explanation
Indices: 35107353--35107416 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 31
35107343 GAATGAATAA
35107353 TCTAATCCTTAAACAAATCTACTATTCATAACT
1 TCTAATCCTTAAACAAATCTAC-ATTCA-AACT
*
35107386 TCTAATCCTTAAACAAATTTACATTCAAACT
1 TCTAATCCTTAAACAAATCTACATTCAAACT
35107417 CAAATATCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 4 0.13
32 5 0.17
33 21 0.70
ACGTcount: A:0.41, C:0.23, G:0.00, T:0.36
Consensus pattern (31 bp):
TCTAATCCTTAAACAAATCTACATTCAAACT
Found at i:35112393 original size:21 final size:22
Alignment explanation
Indices: 35112367--35112408 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
35112357 ATTAGTAAGT
35112367 ATGTAT-ATATATTAATTACAA
1 ATGTATAATATATTAATTACAA
*
35112388 ATGTATACATATATTTATTAC
1 ATGTATA-ATATATTAATTAC
35112409 GCATGTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
23 12 0.67
ACGTcount: A:0.43, C:0.07, G:0.05, T:0.45
Consensus pattern (22 bp):
ATGTATAATATATTAATTACAA
Found at i:35112528 original size:23 final size:22
Alignment explanation
Indices: 35112502--35112548 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
35112492 ATAAACTTTC
*
35112502 ACACTTAATTCAA-TTTAATTCTA
1 ACACTCAA-TCAACTTTAATT-TA
35112525 ACACTCAATCAACTTTAATTTA
1 ACACTCAATCAACTTTAATTTA
35112547 AC
1 AC
35112549 TAAATTCACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.40, C:0.21, G:0.00, T:0.38
Consensus pattern (22 bp):
ACACTCAATCAACTTTAATTTA
Found at i:35116177 original size:20 final size:19
Alignment explanation
Indices: 35116151--35116203 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
35116141 AATAAATTTT
35116151 TATTTTTATAATTTGTTT-A
1 TATTTTTATAATTT-TTTAA
*
35116170 TAATTTTTATGATTTTTTAA
1 T-ATTTTTATAATTTTTTAA
35116190 TATTTTTA-AATTTT
1 TATTTTTATAATTTT
35116204 AAAATCGTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
18 5 0.17
19 11 0.37
20 14 0.47
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (19 bp):
TATTTTTATAATTTTTTAA
Found at i:35116203 original size:26 final size:26
Alignment explanation
Indices: 35116143--35116204 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 26
35116133 TAAAAGTTAA
35116143 TAAATTTT-TATTTTTATAATTTGTT
1 TAAATTTTATATTTTTATAATTTGTT
35116168 TATAATTTTTATGATTTTT-TAATATT-TT
1 TA-AA-TTTTAT-ATTTTTATAAT-TTGTT
35116196 TAAATTTTA
1 TAAATTTTA
35116205 AAATCGTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
25 2 0.06
26 7 0.22
27 6 0.19
28 9 0.28
29 8 0.25
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (26 bp):
TAAATTTTATATTTTTATAATTTGTT
Found at i:35116329 original size:17 final size:17
Alignment explanation
Indices: 35116307--35116340 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
35116297 AGTCAAATTA
35116307 AATAAATGTGTAAAGGT
1 AATAAATGTGTAAAGGT
35116324 AATAAATGTGTAAAGGT
1 AATAAATGTGTAAAGGT
35116341 TAAGGATTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.24, T:0.29
Consensus pattern (17 bp):
AATAAATGTGTAAAGGT
Found at i:35116796 original size:16 final size:16
Alignment explanation
Indices: 35116784--35116821 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
35116774 CAAGAAAGGG
35116784 AGAAAAGAAGAAAGAA
1 AGAAAAGAAGAAAGAA
35116800 AGAAAAG-AG-AAGAA
1 AGAAAAGAAGAAAGAA
*
35116814 CGAAAAGA
1 AGAAAAGA
35116822 TATTATTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 11 0.55
15 2 0.10
16 7 0.35
ACGTcount: A:0.71, C:0.03, G:0.26, T:0.00
Consensus pattern (16 bp):
AGAAAAGAAGAAAGAA
Found at i:35120511 original size:12 final size:12
Alignment explanation
Indices: 35120496--35120535 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
35120486 CTGTGGCTTA
35120496 GGCTCAAGCTCG
1 GGCTCAAGCTCG
*
35120508 GGCTCGAGCTCG
1 GGCTCAAGCTCG
* *
35120520 GGCTCTAGCTCT
1 GGCTCAAGCTCG
35120532 GGCT
1 GGCT
35120536 TGGCCTCTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.10, C:0.33, G:0.35, T:0.23
Consensus pattern (12 bp):
GGCTCAAGCTCG
Found at i:35122051 original size:13 final size:13
Alignment explanation
Indices: 35122033--35122058 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
35122023 TATGTAGATT
35122033 TTTTTAAGGGAAC
1 TTTTTAAGGGAAC
35122046 TTTTTAAGGGAAC
1 TTTTTAAGGGAAC
35122059 CCATGATTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.38
Consensus pattern (13 bp):
TTTTTAAGGGAAC
Found at i:35122660 original size:21 final size:23
Alignment explanation
Indices: 35122621--35122664 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
35122611 AATTTCATTT
*
35122621 ATAATATTTATAAATAACATAAA
1 ATAAAATTTATAAATAACATAAA
35122644 ATAAAATTTA-AAA-AACATAAA
1 ATAAAATTTATAAATAACATAAA
35122665 CTCTTATTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 8 0.40
22 3 0.15
23 9 0.45
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.30
Consensus pattern (23 bp):
ATAAAATTTATAAATAACATAAA
Found at i:35122881 original size:16 final size:16
Alignment explanation
Indices: 35122860--35122908 Score: 57
Period size: 18 Copynumber: 3.1 Consensus size: 16
35122850 CCTAAAACAC
35122860 ACATAAAAAATAAATT
1 ACATAAAAAATAAATT
35122876 ACATAAAAAAAATAAA--
1 ACAT--AAAAAATAAATT
*
35122892 ACATTAAAAATAAATT
1 ACATAAAAAATAAATT
35122908 A
1 A
35122909 TGAATGAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
14 9 0.32
16 9 0.32
18 10 0.36
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.22
Consensus pattern (16 bp):
ACATAAAAAATAAATT
Found at i:35123176 original size:43 final size:44
Alignment explanation
Indices: 35123087--35123176 Score: 107
Period size: 44 Copynumber: 2.1 Consensus size: 44
35123077 TATCTTTTCT
* *
35123087 TCTTTTTTTTTCCTTCTCTTTTTCCTTCCCTCTCTCTATTCTCC
1 TCTTTTTTTTTCCTTCTCTTTTTCCTTCCCTCTCCCTACTCTCC
35123131 TCTTTTTTTTT-CTT-TCTTTTTCCCTTCCCTTCTGCCCT-CTC-CC
1 TCTTTTTTTTTCCTTCTCTTTTT-CCTTCCC-TCT-CCCTACTCTCC
35123174 TCT
1 TCT
35123177 CCTTCTCCTT
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
42 7 0.17
43 15 0.37
44 16 0.39
45 3 0.07
ACGTcount: A:0.01, C:0.38, G:0.01, T:0.60
Consensus pattern (44 bp):
TCTTTTTTTTTCCTTCTCTTTTTCCTTCCCTCTCCCTACTCTCC
Found at i:35123185 original size:6 final size:6
Alignment explanation
Indices: 35123153--35123228 Score: 60
Period size: 6 Copynumber: 13.8 Consensus size: 6
35123143 TTTCTTTTTC
* * *
35123153 CCTTC- CCTTCT GCCCTCT CCCTCT CCTTCT CCTTCT TCTTCT -CTTCT
1 CCTTCT CCTTCT -CCTTCT CCTTCT CCTTCT CCTTCT CCTTCT CCTTCT
35123200 -CTT-T -CTTCT CCTTCT -CTT-T -CTTCT CCTTC
1 CCTTCT CCTTCT CCTTCT CCTTCT CCTTCT CCTTC
35123229 ACTCACTGGC
Statistics
Matches: 62, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
4 8 0.13
5 18 0.29
6 31 0.50
7 5 0.08
ACGTcount: A:0.00, C:0.47, G:0.01, T:0.51
Consensus pattern (6 bp):
CCTTCT
Found at i:35123207 original size:20 final size:19
Alignment explanation
Indices: 35123184--35123221 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
35123174 TCTCCTTCTC
*
35123184 CTTCTTCTTCTCTTCTCTTT
1 CTTCTCCTTCTCTT-TCTTT
35123204 CTTCTCCTTCTCTTTCTT
1 CTTCTCCTTCTCTTTCTT
35123222 CTCCTTCACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (19 bp):
CTTCTCCTTCTCTTTCTTT
Found at i:35123215 original size:15 final size:15
Alignment explanation
Indices: 35123174--35123228 Score: 83
Period size: 15 Copynumber: 3.5 Consensus size: 15
35123164 GCCCTCTCCC
*
35123174 TCTCCTTCTCCTTCT
1 TCTCCTTCTCTTTCT
35123189 TCTTCTCTTCTCTTTCT
1 TC-TC-CTTCTCTTTCT
35123206 TCTCCTTCTCTTTCT
1 TCTCCTTCTCTTTCT
35123221 TCTCCTTC
1 TCTCCTTC
35123229 ACTCACTGGC
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
15 21 0.57
16 4 0.11
17 12 0.32
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (15 bp):
TCTCCTTCTCTTTCT
Found at i:35125091 original size:32 final size:32
Alignment explanation
Indices: 35125052--35125115 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
35125042 CATATTTGAT
35125052 ATATTGATTGGATTAGGATAACTTTAACTATG
1 ATATTGATTGGATTAGGATAACTTTAACTATG
35125084 ATATTGATTGGATTAGGATAACTTTAACTATG
1 ATATTGATTGGATTAGGATAACTTTAACTATG
35125116 TGACAAAAAT
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:0.34, C:0.06, G:0.19, T:0.41
Consensus pattern (32 bp):
ATATTGATTGGATTAGGATAACTTTAACTATG
Found at i:35127219 original size:3 final size:3
Alignment explanation
Indices: 35127211--35127237 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
35127201 AATTGAAACA
35127211 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
35127238 CATCGTCGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:35139749 original size:79 final size:82
Alignment explanation
Indices: 35139638--35139822 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
35139628 GCTACTCGTT
* * *
35139638 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
35139701 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
35139718 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
35139781 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
35139798 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
35139823 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:35139822 original size:40 final size:40
Alignment explanation
Indices: 35139619--35139822 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
35139609 CGGAATTTAA
** *
35139619 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
35139659 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
35139699 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
35139738 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
35139778 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
35139818 CCGGA
1 CCGGA
35139823 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:35144036 original size:20 final size:20
Alignment explanation
Indices: 35144014--35144202 Score: 91
Period size: 20 Copynumber: 9.4 Consensus size: 20
35144004 ATGCACATTA
*
35144014 GTGCCCCTGTTTGCACTTCA
1 GTGCCCCTGTTTGCACTTCT
***
35144034 GTGCCCCTAAATGCACATT-T
1 GTGCCCCTGTTTGCAC-TTCT
* *
35144054 TTGCCCCTATTCT-CACTT-T
1 GTGCCCCTGTT-TGCACTTCT
* * * *
35144073 GGTGCCCCTATATACACTTCG
1 -GTGCCCCTGTTTGCACTTCT
* * *
35144094 GTGTCCTTGTTTGCACGTCT
1 GTGCCCCTGTTTGCACTTCT
* * *
35144114 GTGCCCCTGTTCGTACTACT
1 GTGCCCCTGTTTGCACTTCT
* * * *
35144134 GTGCCCTTGTATACACTTCG
1 GTGCCCCTGTTTGCACTTCT
35144154 GTGTCCCC-GTTTGCACGTT-T
1 GTG-CCCCTGTTTGCAC-TTCT
* * *
35144174 GTGCCCTTGTTCGCACTTCA
1 GTGCCCCTGTTTGCACTTCT
35144194 GTGCCCCTG
1 GTGCCCCTG
35144203 ACTACACGTA
Statistics
Matches: 122, Mismatches: 38, Indels: 18
0.69 0.21 0.10
Matches are distributed among these distances:
19 9 0.07
20 105 0.86
21 8 0.07
ACGTcount: A:0.12, C:0.33, G:0.20, T:0.36
Consensus pattern (20 bp):
GTGCCCCTGTTTGCACTTCT
Found at i:35144071 original size:40 final size:40
Alignment explanation
Indices: 35144002--35144082 Score: 101
Period size: 40 Copynumber: 2.0 Consensus size: 40
35143992 AGTGTTCCTA
*
35144002 AAATGCACATTAGTGCCCCTGTTTGCACTTCAGTGCCCCT
1 AAATGCACATTAGTGCCCCTATTTGCACTTCAGTGCCCCT
** **
35144042 AAATGCACATTTTTGCCCCTATTCT-CACTTTGGTGCCCCT
1 AAATGCACATTAGTGCCCCTATT-TGCACTTCAGTGCCCCT
35144082 A
1 A
35144083 TATACACTTC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
40 34 0.97
41 1 0.03
ACGTcount: A:0.20, C:0.32, G:0.15, T:0.33
Consensus pattern (40 bp):
AAATGCACATTAGTGCCCCTATTTGCACTTCAGTGCCCCT
Found at i:35144209 original size:60 final size:60
Alignment explanation
Indices: 35144074--35144202 Score: 177
Period size: 60 Copynumber: 2.1 Consensus size: 60
35144064 TCTCACTTTG
* ** * *
35144074 GTGCCCCTATATACACTTCGGTGTCCTTGTTTGCACGTCTGTGCCCCTGTTCGTACTACT
1 GTGCCCCTGTATACACTTCGGTGTCCCCGTTTGCACGTCTGTGCCCCTGTTCGCACTACA
* * * *
35144134 GTGCCCTTGTATACACTTCGGTGTCCCCGTTTGCACGTTTGTGCCCTTGTTCGCACTTCA
1 GTGCCCCTGTATACACTTCGGTGTCCCCGTTTGCACGTCTGTGCCCCTGTTCGCACTACA
35144194 GTGCCCCTG
1 GTGCCCCTG
35144203 ACTACACGTA
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.10, C:0.33, G:0.22, T:0.36
Consensus pattern (60 bp):
GTGCCCCTGTATACACTTCGGTGTCCCCGTTTGCACGTCTGTGCCCCTGTTCGCACTACA
Found at i:35148643 original size:31 final size:31
Alignment explanation
Indices: 35148572--35148659 Score: 97
Period size: 31 Copynumber: 2.8 Consensus size: 31
35148562 GCAAAGCCGT
*
35148572 GTAGGCCACACGGGCATGTGGGCCTACACGG
1 GTAGGCCACACGGGCATGTGGGCCCACACGG
* **
35148603 GT-GAACCACACGGGTTTGTGGGCCCACACGG
1 GTAG-GCCACACGGGCATGTGGGCCCACACGG
* * *
35148634 GTAGGCCACATGGGCGTGTGAGCCCA
1 GTAGGCCACACGGGCATGTGGGCCCA
35148660 ATTTTTTGAA
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
30 1 0.02
31 44 0.96
32 1 0.02
ACGTcount: A:0.19, C:0.28, G:0.38, T:0.15
Consensus pattern (31 bp):
GTAGGCCACACGGGCATGTGGGCCCACACGG
Found at i:35152875 original size:13 final size:13
Alignment explanation
Indices: 35152857--35152881 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35152847 CCAAGCACAT
35152857 GCTCGTGTCCTTG
1 GCTCGTGTCCTTG
35152870 GCTCGTGTCCTT
1 GCTCGTGTCCTT
35152882 TACACGGCCT
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:0.00, C:0.32, G:0.28, T:0.40
Consensus pattern (13 bp):
GCTCGTGTCCTTG
Found at i:35170454 original size:7 final size:7
Alignment explanation
Indices: 35170442--35170470 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
35170432 CAGTCATATC
35170442 TTCAAGG
1 TTCAAGG
35170449 TTCAAGG
1 TTCAAGG
35170456 TTCAAGG
1 TTCAAGG
35170463 TTCAAGG
1 TTCAAGG
35170470 T
1 T
35170471 ATGTATATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.31
Consensus pattern (7 bp):
TTCAAGG
Found at i:35179870 original size:21 final size:20
Alignment explanation
Indices: 35179845--35179883 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
35179835 GAGTATTTTG
35179845 ATGTTTCATGATAGATTATGA
1 ATGTTTCATGATAG-TTATGA
*
35179866 ATGTTTGATGATAGTTAT
1 ATGTTTCATGATAGTTAT
35179884 ACAAGTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.31, C:0.03, G:0.21, T:0.46
Consensus pattern (20 bp):
ATGTTTCATGATAGTTATGA
Found at i:35180522 original size:48 final size:48
Alignment explanation
Indices: 35180436--35180623 Score: 254
Period size: 48 Copynumber: 3.9 Consensus size: 48
35180426 TTAGGAGCTT
* *
35180436 CATTGATTTGACTTTC-GGCCAT-ATATTAGCACTGCGGGTGCGAGTTA
1 CATTGATTTGGC-TTCGGGCCATGATATTAGCACTTCGGGTGCGAGTTA
*
35180483 CATTGATTTGGCTTCGGGCCATGATATTAGCACTTCGGGTGCAAGTTA
1 CATTGATTTGGCTTCGGGCCATGATATTAGCACTTCGGGTGCGAGTTA
* * * *
35180531 CATTGATTTGGCTTCAGGTCATGATATTGGCACTTCGGGTGCGAGTTC
1 CATTGATTTGGCTTCGGGCCATGATATTAGCACTTCGGGTGCGAGTTA
* * * *
35180579 CATTGATTTGGCTTCGGGCAATGATATTGGCACCTAGGGTGCGAG
1 CATTGATTTGGCTTCGGGCCATGATATTAGCACTTCGGGTGCGAG
35180624 ACTTCCTAGT
Statistics
Matches: 126, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
46 3 0.02
47 17 0.13
48 106 0.84
ACGTcount: A:0.20, C:0.19, G:0.29, T:0.33
Consensus pattern (48 bp):
CATTGATTTGGCTTCGGGCCATGATATTAGCACTTCGGGTGCGAGTTA
Found at i:35191129 original size:22 final size:22
Alignment explanation
Indices: 35191101--35191145 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
35191091 GTTCTAGACA
*
35191101 TAGTTCCTAATTTATAGGGAAT
1 TAGTTCCTAATTGATAGGGAAT
35191123 TAGTTCCTAATTGATAGGGAAT
1 TAGTTCCTAATTGATAGGGAAT
35191145 T
1 T
35191146 GATATAAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (22 bp):
TAGTTCCTAATTGATAGGGAAT
Found at i:35202356 original size:55 final size:55
Alignment explanation
Indices: 35202277--35202395 Score: 159
Period size: 55 Copynumber: 2.2 Consensus size: 55
35202267 ACGACCTTAA
* * *
35202277 ATGTGGGAAGTCCACCAGGACTATCTTATGT-AGAAGTCAGTAAAGACTATCCAAT
1 ATGTAGGAAATCCACCAGGACTATCTTATATGA-AAGTCAGTAAAGACTATCCAAT
* * *
35202332 ATGTAGGAAATCCGCCAGGACTATCTTATATGAAAGTCCGTAAAGACTATCTAAT
1 ATGTAGGAAATCCACCAGGACTATCTTATATGAAAGTCAGTAAAGACTATCCAAT
*
35202387 ATGTTGGAA
1 ATGTAGGAA
35202396 GTTTGCCAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
55 55 0.98
56 1 0.02
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (55 bp):
ATGTAGGAAATCCACCAGGACTATCTTATATGAAAGTCAGTAAAGACTATCCAAT
Found at i:35202846 original size:6 final size:6
Alignment explanation
Indices: 35202835--35202872 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
35202825 TATTTAGAGG
*
35202835 AATAAA AATAAA TAA-ATA AATAAA AATAAA AATAAA AA
1 AATAAA AATAAA -AATAAA AATAAA AATAAA AATAAA AA
35202873 ATTGAATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
5 2 0.07
6 24 0.86
7 2 0.07
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (6 bp):
AATAAA
Found at i:35205437 original size:25 final size:26
Alignment explanation
Indices: 35205395--35205446 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
35205385 AAGTTGTAAA
35205395 TAAAAAAATATCTCTAG-AAATTTTC
1 TAAAAAAATATCTCTAGAAAATTTTC
* * *
35205420 TAAAATAATTTCTTTAGAAAATTTTC
1 TAAAAAAATATCTCTAGAAAATTTTC
35205446 T
1 T
35205447 CTTTATAACT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 14 0.61
26 9 0.39
ACGTcount: A:0.44, C:0.10, G:0.04, T:0.42
Consensus pattern (26 bp):
TAAAAAAATATCTCTAGAAAATTTTC
Found at i:35205564 original size:11 final size:11
Alignment explanation
Indices: 35205550--35205645 Score: 51
Period size: 11 Copynumber: 8.8 Consensus size: 11
35205540 TTTAATTACT
35205550 TTAATATTAAA
1 TTAATATTAAA
35205561 TTAATA--AAA
1 TTAATATTAAA
*
35205570 -TACTATTAAA
1 TTAATATTAAA
35205580 TTCATCTATAATTAAA
1 TT-A---AT-ATTAAA
* **
35205596 TTTA-ATTACT
1 TTAATATTAAA
35205606 TTAATATTAAA
1 TTAATATTAAA
35205617 TTAATATTAAA
1 TTAATATTAAA
*
35205628 -T-CTATTAAA
1 TTAATATTAAA
*
35205637 ATAATATTA
1 TTAATATTA
35205646 TTTTTGAAAT
Statistics
Matches: 64, Mismatches: 10, Indels: 22
0.67 0.10 0.23
Matches are distributed among these distances:
8 4 0.06
9 10 0.16
10 12 0.19
11 27 0.42
12 2 0.03
15 1 0.02
16 8 0.12
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:35205605 original size:56 final size:56
Alignment explanation
Indices: 35205524--35205636 Score: 192
Period size: 56 Copynumber: 2.0 Consensus size: 56
35205514 GTTTAAAGAG
35205524 TTCAACTATAATTAAATTTAATTACTTTAATATTAAATTAATA-AAATACTATTAAA
1 TTCAACTATAATTAAATTTAATTACTTTAATATTAAATTAATATAAAT-CTATTAAA
*
35205580 TTCATCTATAATTAAATTTAATTACTTTAATATTAAATTAATATTAAATCTATTAAA
1 TTCAACTATAATTAAATTTAATTACTTTAATATTAAATTAATA-TAAATCTATTAAA
35205637 ATAATATTAT
Statistics
Matches: 54, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
56 42 0.78
57 8 0.15
58 4 0.07
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (56 bp):
TTCAACTATAATTAAATTTAATTACTTTAATATTAAATTAATATAAATCTATTAAA
Found at i:35205626 original size:26 final size:26
Alignment explanation
Indices: 35205533--35205620 Score: 90
Period size: 26 Copynumber: 3.2 Consensus size: 26
35205523 GTTCAACTAT
35205533 AATTAAATTTAATTACTTTAATATTA
1 AATTAAATTTAATTACTTTAATATTA
* *
35205559 AATT-AA-TAAAATACTATTAAATTCATCTA
1 AATTAAATTTAATTACT-TT-AA-T-AT-TA
35205588 TAATTAAATTTAATTACTTTAATATTA
1 -AATTAAATTTAATTACTTTAATATTA
35205615 AATTAA
1 AATTAA
35205621 TATTAAATCT
Statistics
Matches: 50, Mismatches: 4, Indels: 16
0.71 0.06 0.23
Matches are distributed among these distances:
24 7 0.14
25 4 0.08
26 12 0.24
27 3 0.06
28 4 0.08
29 3 0.06
30 6 0.12
31 4 0.08
32 7 0.14
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (26 bp):
AATTAAATTTAATTACTTTAATATTA
Found at i:35213521 original size:40 final size:40
Alignment explanation
Indices: 35213463--35213539 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
35213453 CAGTTATTTG
*
35213463 TGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATA
1 TGGCACTTAGTGTACGATTCGACATAGCTTCGGCTATATA
* * *
35213503 TGGCACTTAGTGTACGATTTGAGATAGTTTCGGCTAT
1 TGGCACTTAGTGTACGATTCGACATAGCTTCGGCTAT
35213540 GTACAATACT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.35
Consensus pattern (40 bp):
TGGCACTTAGTGTACGATTCGACATAGCTTCGGCTATATA
Found at i:35214537 original size:14 final size:14
Alignment explanation
Indices: 35214518--35214544 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
35214508 CGGATTATCA
35214518 AACCCAAAGGAACG
1 AACCCAAAGGAACG
35214532 AACCCAAAGGAAC
1 AACCCAAAGGAAC
35214545 CAAGAGTACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.30, G:0.19, T:0.00
Consensus pattern (14 bp):
AACCCAAAGGAACG
Found at i:35235808 original size:22 final size:22
Alignment explanation
Indices: 35235780--35235825 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
35235770 TTTAGTCTAT
35235780 TTATTGGAGTTAGATTTGATAA
1 TTATTGGAGTTAGATTTGATAA
35235802 TTATTGGAGTTAGATTTGATAA
1 TTATTGGAGTTAGATTTGATAA
35235824 TT
1 TT
35235826 TTGAATACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (22 bp):
TTATTGGAGTTAGATTTGATAA
Found at i:35236270 original size:16 final size:16
Alignment explanation
Indices: 35236246--35236282 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
35236236 ACAACAACAT
*
35236246 AAATATATGCAATAAC
1 AAATCTATGCAATAAC
35236262 AAATCTATGCAATAAC
1 AAATCTATGCAATAAC
35236278 AAATC
1 AAATC
35236283 ACAAGACATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.54, C:0.16, G:0.05, T:0.24
Consensus pattern (16 bp):
AAATCTATGCAATAAC
Found at i:35236318 original size:14 final size:15
Alignment explanation
Indices: 35236295--35236327 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
35236285 AAGACATTAA
35236295 ATTT-AAAAAATAT-
1 ATTTAAAAAAATATG
35236308 ATTTAAAAAAATATG
1 ATTTAAAAAAATATG
35236323 ATTTA
1 ATTTA
35236328 TATAGCATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.22
14 9 0.50
15 5 0.28
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (15 bp):
ATTTAAAAAAATATG
Found at i:35241949 original size:47 final size:47
Alignment explanation
Indices: 35241896--35242353 Score: 808
Period size: 47 Copynumber: 9.7 Consensus size: 47
35241886 TTAGGATTCT
35241896 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
35241943 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
35241990 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
35242037 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
35242084 ATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
35242131 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
35242178 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
35242225 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * *
35242272 ATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * * *
35242319 ACGTAATGGATGTGGAAGTGCATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
35242354 TCCCGAAGGG
Statistics
Matches: 396, Mismatches: 15, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 396 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:35242528 original size:37 final size:37
Alignment explanation
Indices: 35242472--35242550 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
35242462 CCGAGCTCTA
* * * *
35242472 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTACGGGT
*
35242509 AAGACCCGATAACTTCGTGTGGAGATTATGTACGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTACGGGT
35242546 AAGAC
1 AAGAC
35242551 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTACGGGT
Found at i:35247576 original size:25 final size:25
Alignment explanation
Indices: 35247542--35247592 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
35247532 GTACACAATG
*
35247542 TGTAACATCCTGAAATAGGGCCTAA
1 TGTAACATCCCGAAATAGGGCCTAA
* *
35247567 TGTAATATCCCGAATTAGGGCCTAA
1 TGTAACATCCCGAAATAGGGCCTAA
35247592 T
1 T
35247593 TGGAATAGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (25 bp):
TGTAACATCCCGAAATAGGGCCTAA
Found at i:35250946 original size:45 final size:45
Alignment explanation
Indices: 35250882--35251187 Score: 567
Period size: 45 Copynumber: 6.8 Consensus size: 45
35250872 ATTGACGGTT
*
35250882 AAGGATCCCGTGTAAGACCATGTCAAGACATGGCATTGGTAAGGG
1 AAGGATCCCTTGTAAGACCATGTCAAGACATGGCATTGGTAAGGG
35250927 AAGGATCCCTTGTAAGACCATGTCAAGACATGGCATTGGTAAGGG
1 AAGGATCCCTTGTAAGACCATGTCAAGACATGGCATTGGTAAGGG
35250972 AAGGATCCCTTGTAAGACCATGTCAAGACATGGCATTGGTAAGGG
1 AAGGATCCCTTGTAAGACCATGTCAAGACATGGCATTGGTAAGGG
35251017 AAGGATCCCTTGTAAGACCATGTCAAGACATGGCATTGGTAAGGG
1 AAGGATCCCTTGTAAGACCATGTCAAGACATGGCATTGGTAAGGG
35251062 AAGGATCCCTTGTAAGACCATGTCAAGACATGGCATTGGTAAGGG
1 AAGGATCCCTTGTAAGACCATGTCAAGACATGGCATTGGTAAGGG
* * *
35251107 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGGC
1 AAGGATCCCTTGTAAGACCATGTCAAGACATGGCATTGGTAAGGG
*
35251152 AAGGATCCCATGTAAGACCATGTCAAGACATGGCAT
1 AAGGATCCCTTGTAAGACCATGTCAAGACATGGCAT
35251188 CAGCATTGAT
Statistics
Matches: 256, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 256 1.00
ACGTcount: A:0.32, C:0.18, G:0.28, T:0.21
Consensus pattern (45 bp):
AAGGATCCCTTGTAAGACCATGTCAAGACATGGCATTGGTAAGGG
Found at i:35251124 original size:135 final size:135
Alignment explanation
Indices: 35250882--35251435 Score: 579
Period size: 135 Copynumber: 4.0 Consensus size: 135
35250872 ATTGACGGTT
*
35250882 AAGGATCCCGTGTAAGACCATGTCAAGACATGGCATTGGTAAGGGAAGGATCCCTTGTAAGACCA
1 AAGGATCCCATGTAAGACCATGTCAAGACATGGCATTGGTAAGGGAAGGATCCCTTGTAAGACCA
* *
35250947 TGTCAAGACATGGCATTGGTAAGGGAAGGATCCCTTGTAAGACCATGTCAAGACATGGCATTGGT
66 TGTCAAGACATGGCATTGGTAAGGGAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGT
*
35251012 AAGGG
131 AAGGC
*
35251017 AAGGATCCCTTGTAAGACCATGTCAAGACATGGCATTGGTAAGGGAAGGATCCCTTGTAAGACCA
1 AAGGATCCCATGTAAGACCATGTCAAGACATGGCATTGGTAAGGGAAGGATCCCTTGTAAGACCA
35251082 TGTCAAGACATGGCATTGGTAAGGGAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGT
66 TGTCAAGACATGGCATTGGTAAGGGAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGT
35251147 AAGGC
131 AAGGC
** * * ** * *
35251152 AAGGATCCCATGTAAGACCATGTCAAGACATGGCATCAGCATTGATTAAAGA-CTCCATGTAAGA
1 AAGGATCCCATGTAAGACCATGTCAAGACATGGCATTGGTA-AG-GGAAGGATC-CCTTGTAAGA
** ** *** * * ***
35251216 CCACATCAAGATGTGGCATTGGCACTAAAATAATGATACCATGTAAGAACATGTTTGGAACATGG
63 CCATGTCAAGACATGGCATTGG---TAAGGGAAGGATACCATGTAAGACCATGTCAAG-ACATGG
*
35251281 CATTTGGTAAGAC
124 CA-TTGGTAAGGC
* *** ** ** *
35251294 AAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGACAAGGATATCATGTAAGAC
1 AAGGATCCCATGTAAGACCATGTCAAG-ACATGGCA-TTGGTAAGGGAAGGATCCCTTGTAAGAC
* * * *
35251359 CATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGATACCACGTAAGACCATGTCAAGACA
64 CATGTCAAGACATGGCA-T--TG-G----TAAGGGAAGGATACCATGTAAGACCATGTCAAGACA
*
35251424 TGGCAATGGTAA
121 TGGCATTGGTAA
35251436 CTTCAAAAAG
Statistics
Matches: 345, Mismatches: 58, Indels: 22
0.81 0.14 0.05
Matches are distributed among these distances:
135 168 0.49
136 2 0.01
137 31 0.09
140 25 0.07
141 8 0.02
142 57 0.17
143 10 0.03
144 3 0.01
145 8 0.02
146 9 0.03
147 24 0.07
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.22
Consensus pattern (135 bp):
AAGGATCCCATGTAAGACCATGTCAAGACATGGCATTGGTAAGGGAAGGATCCCTTGTAAGACCA
TGTCAAGACATGGCATTGGTAAGGGAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGT
AAGGC
Found at i:35251306 original size:47 final size:47
Alignment explanation
Indices: 35251250--35251362 Score: 208
Period size: 47 Copynumber: 2.4 Consensus size: 47
35251240 CTAAAATAAT
*
35251250 GATACCATGTAAGAACATGTTTGGAACATGGCATTTGGTAAGACAAG
1 GATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGACAAG
35251297 GATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGACAAG
1 GATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGACAAG
*
35251344 GATATCATGTAAGACCATG
1 GATACCATGTAAGACCATG
35251363 CCAAGGCATG
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 64 1.00
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (47 bp):
GATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGACAAG
Found at i:35276717 original size:47 final size:47
Alignment explanation
Indices: 35276660--35276781 Score: 217
Period size: 47 Copynumber: 2.6 Consensus size: 47
35276650 GTATTGGCAC
*
35276660 TAAGATAAGGATACCATGTAAAACCATGTTTGGAACATGGCATTTGG
1 TAAGATAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
*
35276707 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGATAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
*
35276754 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGATAAGGATACCATGTAAGACCATG
35276782 CCAAGGCATG
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.37, C:0.13, G:0.24, T:0.26
Consensus pattern (47 bp):
TAAGATAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
Found at i:35276824 original size:54 final size:54
Alignment explanation
Indices: 35276760--35276954 Score: 234
Period size: 54 Copynumber: 3.6 Consensus size: 54
35276750 TTGGTAAGAT
* *
35276760 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
* * *
35276814 AAGGAAATCATGTAAGACCATGCCAAGACATGGCATTGATGAA-TTACTATAAGGAA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGAT-AAGTT-CTATAAGG-C
* * * * *
35276870 AAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-AAAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
* *
35276922 AAGGATACCACGTAAGACCATGTCAAGACATGG
1 AAGGATACCATGTAAGACCATGCCAAGACATGG
35276955 AAATGTTAAG
Statistics
Matches: 121, Mismatches: 15, Indels: 11
0.82 0.10 0.07
Matches are distributed among these distances:
52 4 0.03
53 29 0.24
54 42 0.35
55 42 0.35
56 4 0.03
ACGTcount: A:0.37, C:0.18, G:0.25, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
Found at i:35276889 original size:55 final size:54
Alignment explanation
Indices: 35276760--35276954 Score: 234
Period size: 55 Copynumber: 3.6 Consensus size: 54
35276750 TTGGTAAGAT
* *
35276760 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGAT-AAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAA-TTCTATAAGGC
* * *
35276814 AAGGAAATCATGTAAGACCATGCCAAGACATGGCATTGATGAATTACTATAAGGAA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAATT-CTATAAGG-C
* * * * *
35276870 AAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-AAAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAATTCTATAAGGC
* *
35276922 AAGGATACCACGTAAGACCATGTCAAGACATGG
1 AAGGATACCATGTAAGACCATGCCAAGACATGG
35276955 AAATGTTAAG
Statistics
Matches: 122, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
52 4 0.03
53 29 0.24
54 41 0.34
55 44 0.36
56 4 0.03
ACGTcount: A:0.37, C:0.18, G:0.25, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAATTCTATAAGGC
Found at i:35283369 original size:131 final size:131
Alignment explanation
Indices: 35283135--35283414 Score: 560
Period size: 131 Copynumber: 2.1 Consensus size: 131
35283125 TGAATGAAAA
35283135 GGGCACTATGTGTGCGAATAGGGCAGCACTATGTGTGCGTATGGAAAAGCTAGTACTATGTGTGC
1 GGGCACTATGTGTGCGAATAGGGCAGCACTATGTGTGCGTATGGAAAAGCTAGTACTATGTGTGC
35283200 GAATGAATATATGCACTATGTGTACGAATTTATTAACCGAGCACTATGTGTGCGAGATTGGTTGT
66 GAATGAATATATGCACTATGTGTACGAATTTATTAACCGAGCACTATGTGTGCGAGATTGGTTGT
35283265 G
131 G
35283266 GGGCACTATGTGTGCGAATAGGGCAGCACTATGTGTGCGTATGGAAAAGCTAGTACTATGTGTGC
1 GGGCACTATGTGTGCGAATAGGGCAGCACTATGTGTGCGTATGGAAAAGCTAGTACTATGTGTGC
35283331 GAATGAATATATGCACTATGTGTACGAATTTATTAACCGAGCACTATGTGTGCGAGATTGGTTGT
66 GAATGAATATATGCACTATGTGTACGAATTTATTAACCGAGCACTATGTGTGCGAGATTGGTTGT
35283396 G
131 G
35283397 GGGCACTATGTGTGCGAA
1 GGGCACTATGTGTGCGAA
35283415 ATGATTAAGG
Statistics
Matches: 149, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
131 149 1.00
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.29
Consensus pattern (131 bp):
GGGCACTATGTGTGCGAATAGGGCAGCACTATGTGTGCGTATGGAAAAGCTAGTACTATGTGTGC
GAATGAATATATGCACTATGTGTACGAATTTATTAACCGAGCACTATGTGTGCGAGATTGGTTGT
G
Found at i:35287278 original size:30 final size:30
Alignment explanation
Indices: 35287190--35287278 Score: 115
Period size: 30 Copynumber: 3.0 Consensus size: 30
35287180 ACACGGGTTG
* * * *
35287190 TCACTTGGGCATGTGTCCAGCTCATGTGAC
1 TCACATGGGCATGTGCCCAGCCCATGTGGC
* *
35287220 TCATATGGGCATGTGCCTAGCCCATGTGGC
1 TCACATGGGCATGTGCCCAGCCCATGTGGC
*
35287250 TCACATGGGCATGTGCCCAGCCCGTGTGG
1 TCACATGGGCATGTGCCCAGCCCATGTGG
35287279 TCCTAAAATC
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.16, C:0.28, G:0.30, T:0.26
Consensus pattern (30 bp):
TCACATGGGCATGTGCCCAGCCCATGTGGC
Found at i:35290990 original size:42 final size:43
Alignment explanation
Indices: 35290944--35291109 Score: 187
Period size: 42 Copynumber: 3.9 Consensus size: 43
35290934 TCTGAATTCA
* * * *
35290944 TTCACTGGCATT-TCGCCTGCTAGACTTGAAGCCCGATATCAT
1 TTCACCGGCATTATAGCCTGCTAGGCCTGAAGCCCGATATCAT
** * *
35290986 TTCACTAGCATTATAGCCTGCTAGGCC-CAAGGCCCGATATTAT
1 TTCACCGGCATTATAGCCTGCTAGGCCTGAA-GCCCGATATCAT
* * *
35291029 CTCACCGGCATTATATCCTGCTAGGCCTAAAG-CCGATATCAT
1 TTCACCGGCATTATAGCCTGCTAGGCCTGAAGCCCGATATCAT
*
35291071 TTCACCGGTATTATAGCCTGCTAGGCCTGAAGCCC-ATAT
1 TTCACCGGCATTATAGCCTGCTAGGCCTGAAGCCCGATAT
35291110 ATCACATTTC
Statistics
Matches: 104, Mismatches: 16, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
42 54 0.52
43 48 0.46
44 2 0.02
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (43 bp):
TTCACCGGCATTATAGCCTGCTAGGCCTGAAGCCCGATATCAT
Found at i:35291021 original size:43 final size:43
Alignment explanation
Indices: 35290972--35291097 Score: 173
Period size: 43 Copynumber: 3.0 Consensus size: 43
35290962 GCTAGACTTG
**
35290972 AAGCCCGATATCATTTCACTAGCATTATAGCCTGCTAGGCCCA
1 AAGCCCGATATCATTTCACCGGCATTATAGCCTGCTAGGCCCA
* * * * *
35291015 AGGCCCGATATTATCTCACCGGCATTATATCCTGCTAGGCCTA
1 AAGCCCGATATCATTTCACCGGCATTATAGCCTGCTAGGCCCA
*
35291058 AAG-CCGATATCATTTCACCGGTATTATAGCCTGCTAGGCC
1 AAGCCCGATATCATTTCACCGGCATTATAGCCTGCTAGGCC
35291098 TGAAGCCCAT
Statistics
Matches: 71, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
42 33 0.46
43 38 0.54
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.27
Consensus pattern (43 bp):
AAGCCCGATATCATTTCACCGGCATTATAGCCTGCTAGGCCCA
Found at i:35292003 original size:70 final size:70
Alignment explanation
Indices: 35291886--35292020 Score: 225
Period size: 70 Copynumber: 1.9 Consensus size: 70
35291876 TAGCACATAA
* * * * *
35291886 CACCATGATTTTGTCTTAATTTGGACAGCCAATAATTTACAGTATTACAGCAGCATATTAATTAG
1 CACCATAAATTTGTCCTAATTTGGACAGCCAATAATTTACAGCATTACAGCAGCAAATTAATTAG
35291951 CTAAG
66 CTAAG
35291956 CACCATAAATTTGTCCTAATTTGGACAGCCAATAATTTACAGCATTACAGCAGCAAATTAATTAG
1 CACCATAAATTTGTCCTAATTTGGACAGCCAATAATTTACAGCATTACAGCAGCAAATTAATTAG
35292021 TAATAAACTA
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
70 60 1.00
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.32
Consensus pattern (70 bp):
CACCATAAATTTGTCCTAATTTGGACAGCCAATAATTTACAGCATTACAGCAGCAAATTAATTAG
CTAAG
Found at i:35295892 original size:47 final size:45
Alignment explanation
Indices: 35295817--35296033 Score: 179
Period size: 47 Copynumber: 4.7 Consensus size: 45
35295807 AATTTCTTGT
* * *
35295817 GTGCCAGTGTAAGACATGTTTGGGACATGCATCGGCCACATTATGA
1 GTGCCAATGTAAGACATGTCTGGGACATGCATCGGCCACA-GATGA
* ***
35295863 GTGCCAATGTAAGACTATGTTTGGGACATGGCATCGGCGTGGAGATGA
1 GTGCCAATGTAAGAC-ATGTCTGGGACAT-GCATCGGC-CACAGATGA
** * * *
35295911 GTGTTAGTGTAAGACATGTCTGGGACATGCATTGGCCTCGACGATGA
1 GTGCCAATGTAAGACATGTCTGGGACATGCATCGGCCAC-A-GATGA
* *
35295958 -TAGCCAATGTAAGACATGTCTGGGACATGCATCGGCTA-AGA-GTT
1 GT-GCCAATGTAAGACATGTCTGGGACATGCATCGGCCACAGATG-A
* * * *
35296002 TTGCTATTGTACGACATGTCTGGGACATGCAT
1 GTGCCAATGTAAGACATGTCTGGGACATGCAT
35296034 TAGCACGTAT
Statistics
Matches: 140, Mismatches: 23, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
43 1 0.01
44 29 0.21
45 2 0.01
46 23 0.16
47 60 0.43
48 24 0.17
49 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (45 bp):
GTGCCAATGTAAGACATGTCTGGGACATGCATCGGCCACAGATGA
Found at i:35295983 original size:94 final size:93
Alignment explanation
Indices: 35295822--35295993 Score: 249
Period size: 94 Copynumber: 1.8 Consensus size: 93
35295812 CTTGTGTGCC
* ** *
35295822 AGTGTAAGACATGTTTGGGACATGCATCGGCCACATTATGAGTGCCAATGTAAGACTATGTTTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACACGATGAGTGCCAATGTAAGACTATGTCTGG
35295887 GACATGGCATCGGCGTGGAGATGAGTGTT
66 GACAT-GCATCGGCGTGGAGATGAGTGTT
* *
35295916 AGTGTAAGACATGTCTGGGACATGCATTGGCCTCGACGATGA-TAGCCAATGTAAGAC-ATGTCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ACGATGAGT-GCCAATGTAAGACTATGTCT
35295979 GGGACATGCATCGGC
64 GGGACATGCATCGGC
35295994 TAAGAGTTTT
Statistics
Matches: 70, Mismatches: 6, Indels: 5
0.86 0.07 0.06
Matches are distributed among these distances:
93 8 0.11
94 44 0.63
95 18 0.26
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (93 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACACGATGAGTGCCAATGTAAGACTATGTCTGG
GACATGCATCGGCGTGGAGATGAGTGTT
Found at i:35301479 original size:13 final size:14
Alignment explanation
Indices: 35301454--35301484 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
35301444 GTAATAGACA
35301454 TTGGACATTAAATT
1 TTGGACATTAAATT
35301468 TTGGAC-TTAAATT
1 TTGGACATTAAATT
35301481 TTGG
1 TTGG
35301485 TGATTTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.29, C:0.06, G:0.19, T:0.45
Consensus pattern (14 bp):
TTGGACATTAAATT
Found at i:35303419 original size:49 final size:48
Alignment explanation
Indices: 35303320--35303496 Score: 149
Period size: 49 Copynumber: 3.6 Consensus size: 48
35303310 TGTGTTGGAC
* * * * * *
35303320 CACTAGTAAGGCCTGCTAGTTGCTAACCAG-GTGGGAAAATAAGATGGGT
1 CACTAGTAAGGCATGATAGTTGCTAACCAGATTGGCAGAAT--GATAGGT
*
35303369 CACTAGTAAGGCATGTTAGTTGCTAACCAGATTGGCATGAATGATAGGT
1 CACTAGTAAGGCATGATAGTTGCTAACCAGATTGGCA-GAATGATAGGT
* * * * * * * *
35303418 CACTGGTACGGTATCATAGTTACTAACCAGATTGACATGAGTGCTAGGT
1 CACTAGTAAGGCATGATAGTTGCTAACCAGATTGGCA-GAATGATAGGT
** *
35303467 TTCTGGTAAGGCATGATAGTTGCTAACCAG
1 CACTAGTAAGGCATGATAGTTGCTAACCAG
35303497 CATAGTGACA
Statistics
Matches: 105, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
49 98 0.93
50 4 0.04
51 3 0.03
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.27
Consensus pattern (48 bp):
CACTAGTAAGGCATGATAGTTGCTAACCAGATTGGCAGAATGATAGGT
Found at i:35305932 original size:12 final size:12
Alignment explanation
Indices: 35305915--35305940 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
35305905 TCCTTATCTA
35305915 TTAAGATTATTT
1 TTAAGATTATTT
35305927 TTAAGATTATTT
1 TTAAGATTATTT
35305939 TT
1 TT
35305941 TTATATTTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (12 bp):
TTAAGATTATTT
Found at i:35308635 original size:16 final size:17
Alignment explanation
Indices: 35308595--35308641 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
35308585 AATATTCGGG
35308595 CTATAACTATTTATGAA
1 CTATAACTATTTATGAA
*
35308612 C-A-AGACTAATTATG-A
1 CTATA-ACTATTTATGAA
35308627 CTATAACTATTTATG
1 CTATAACTATTTATG
35308642 GGCCGAGTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
15 3 0.12
16 20 0.80
17 2 0.08
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (17 bp):
CTATAACTATTTATGAA
Found at i:35310128 original size:9 final size:9
Alignment explanation
Indices: 35310090--35310167 Score: 54
Period size: 9 Copynumber: 8.6 Consensus size: 9
35310080 GGTGTGGCAA
35310090 AAAAATTAT
1 AAAAATTAT
35310099 AAAAA--AT
1 AAAAATTAT
*
35310106 AAAAA-TAA
1 AAAAATTAT
35310114 ATAAAATTAT
1 A-AAAATTAT
*
35310124 AAAAACTATT
1 AAAAATTA-T
**
35310134 AAATTTTAAT
1 AAAAATT-AT
35310144 AAAAATTAT
1 AAAAATTAT
*
35310153 AAAATTTATT
1 AAAAATTA-T
35310163 AAAAA
1 AAAAA
35310168 ATAAGAAAAA
Statistics
Matches: 53, Mismatches: 10, Indels: 11
0.72 0.14 0.15
Matches are distributed among these distances:
7 7 0.13
8 2 0.04
9 24 0.45
10 19 0.36
11 1 0.02
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.32
Consensus pattern (9 bp):
AAAAATTAT
Found at i:35310147 original size:20 final size:20
Alignment explanation
Indices: 35310122--35310159 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
35310112 AAATAAAATT
*
35310122 ATAAAAACTATTAAATTTTA
1 ATAAAAACTATAAAATTTTA
*
35310142 ATAAAAATTATAAAATTT
1 ATAAAAACTATAAAATTT
35310160 ATTAAAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (20 bp):
ATAAAAACTATAAAATTTTA
Found at i:35310155 original size:19 final size:20
Alignment explanation
Indices: 35310122--35310167 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
35310112 AAATAAAATT
*
35310122 ATAAAAACTATTAAATTTTA
1 ATAAAAACTATTAAAATTTA
*
35310142 ATAAAAATTA-TAAAATTTA
1 ATAAAAACTATTAAAATTTA
*
35310161 TTAAAAA
1 ATAAAAA
35310168 ATAAGAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 14 0.61
20 9 0.39
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (20 bp):
ATAAAAACTATTAAAATTTA
Found at i:35310176 original size:29 final size:28
Alignment explanation
Indices: 35310106--35310186 Score: 81
Period size: 29 Copynumber: 2.8 Consensus size: 28
35310096 TATAAAAAAT
*
35310106 AAAAATAAATAAAATTATAAAAACTATTA
1 AAAAATAAA-AAAATTATAAAATCTATTA
*** *
35310135 AATTTTAATAAAAATTATAAAATTTATTA
1 AAAAATAA-AAAAATTATAAAATCTATTA
*
35310164 AAAAATAAGAAAAAATATAAAAT
1 AAAAATAA-AAAAATTATAAAAT
35310187 GACCAAAAAG
Statistics
Matches: 41, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
29 40 0.98
30 1 0.02
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.31
Consensus pattern (28 bp):
AAAAATAAAAAAATTATAAAATCTATTA
Found at i:35310381 original size:20 final size:20
Alignment explanation
Indices: 35310356--35310417 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
35310346 GTACGATAAT
35310356 TTTTATAATTCTTTTACCAA
1 TTTTATAATTCTTTTACCAA
* *
35310376 TTTTATATTTC-TTTA-CATT
1 TTTTATAATTCTTTTACCA-A
* *
35310395 TTTTATAATTTTTTTACGAA
1 TTTTATAATTCTTTTACCAA
35310415 TTT
1 TTT
35310418 GTAAAATTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
18 2 0.06
19 13 0.39
20 17 0.52
21 1 0.03
ACGTcount: A:0.26, C:0.10, G:0.02, T:0.63
Consensus pattern (20 bp):
TTTTATAATTCTTTTACCAA
Found at i:35310437 original size:39 final size:39
Alignment explanation
Indices: 35310353--35310437 Score: 93
Period size: 39 Copynumber: 2.2 Consensus size: 39
35310343 TTAGTACGAT
* *
35310353 AATTTTTATAATTCTTTTACCAATTTTATATTTCTTTAC
1 AATTTTTATAATTCTTTTACCAATTTTAAATTTCTATAC
* * *
35310392 ATTTTTTATAATTTTTTTACGAATTTGTAAAATTT-TATA-
1 AATTTTTATAATTCTTTTACCAATTT-T-AAATTTCTATAC
35310431 AATTTTT
1 AATTTTT
35310438 TCTATATTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
39 29 0.76
40 4 0.11
41 5 0.13
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (39 bp):
AATTTTTATAATTCTTTTACCAATTTTAAATTTCTATAC
Found at i:35310446 original size:20 final size:20
Alignment explanation
Indices: 35310423--35310477 Score: 60
Period size: 19 Copynumber: 2.7 Consensus size: 20
35310413 AATTTGTAAA
35310423 ATTTTATAAATTTTTTCT-AT
1 ATTTTATAAATTTTTT-TAAT
*
35310443 ATTTTCT-AATTTTTTTAAT
1 ATTTTATAAATTTTTTTAAT
35310462 ATTTTTATAAAATTTT
1 A-TTTTAT-AAATTTT
35310478 ACAATTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
18 1 0.03
19 11 0.38
20 11 0.38
22 6 0.21
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (20 bp):
ATTTTATAAATTTTTTTAAT
Found at i:35310516 original size:50 final size:50
Alignment explanation
Indices: 35310395--35310518 Score: 123
Period size: 50 Copynumber: 2.5 Consensus size: 50
35310385 TCTTTACATT
* * *
35310395 TTTTATAATTTTTTTACGAA--TTTGTAAAATTTTATAAATTTTTTCTATA
1 TTTTATAATTTTTTT-CAAATTTTTATAAAATTTTACAAATTTTTTCTATA
* *
35310444 TTTTCTAATTTTTTT-AATATTTTTATAAAATTTTACAATTTTTTTGC-A-A
1 TTTTATAATTTTTTTCAA-ATTTTTATAAAATTTTACAAATTTTTT-CTATA
*
35310493 CTTTTATAATTTTTTTCTAATTTTTA
1 -TTTTATAATTTTTTTCAAATTTTTA
35310519 ATTTTTTTTA
Statistics
Matches: 62, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
47 1 0.02
48 1 0.02
49 15 0.24
50 43 0.69
51 2 0.03
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (50 bp):
TTTTATAATTTTTTTCAAATTTTTATAAAATTTTACAAATTTTTTCTATA
Found at i:35310517 original size:20 final size:20
Alignment explanation
Indices: 35310444--35310535 Score: 77
Period size: 20 Copynumber: 4.8 Consensus size: 20
35310434 TTTTTCTATA
* *
35310444 TTTTCTAATTTTTTTAATAT
1 TTTTCTAATTTTTATAATTT
* * *
35310464 TTTTATAAAATTTTACAATTT
1 TTTTCT-AATTTTTATAATTT
*
35310485 TTTTGC-AACTTTTATAATTT
1 TTTT-CTAATTTTTATAATTT
35310505 TTTTCTAA-TTTT-TAATTT
1 TTTTCTAATTTTTATAATTT
35310523 TTTT-T-ATTTTTAT
1 TTTTCTAATTTTTAT
35310536 TAAAATTTAA
Statistics
Matches: 59, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
16 1 0.02
17 5 0.08
18 11 0.19
19 5 0.08
20 23 0.39
21 14 0.24
ACGTcount: A:0.26, C:0.05, G:0.01, T:0.67
Consensus pattern (20 bp):
TTTTCTAATTTTTATAATTT
Found at i:35310538 original size:19 final size:19
Alignment explanation
Indices: 35310480--35310538 Score: 52
Period size: 18 Copynumber: 3.1 Consensus size: 19
35310470 AAAATTTTAC
*
35310480 AATTTTTTTGCAACTTTTA-T
1 AATTTTTTT-CTA-TTTTATT
*
35310500 AATTTTTTTCTAATTT-TT
1 AATTTTTTTCTATTTTATT
35310518 AATTTTTTT-TATTTTTATT
1 AATTTTTTTCTA-TTTTATT
35310537 AA
1 AA
35310539 AATTTAATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
17 2 0.06
18 16 0.48
19 6 0.18
20 9 0.27
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.68
Consensus pattern (19 bp):
AATTTTTTTCTATTTTATT
Found at i:35317504 original size:47 final size:47
Alignment explanation
Indices: 35317411--35317504 Score: 134
Period size: 47 Copynumber: 2.0 Consensus size: 47
35317401 TCAGGCTTCT
* * * * *
35317411 GAGATGGATCAATAGGCTTTCCTTGAGTAGTTCCCTGTTTCTTTCCC
1 GAGATGGATCAATAGGCTTTCCTTGAGCAATTACCTATTTCCTTCCC
*
35317458 GAGATGGATCAATTGGCTTTCCTTGAGCAATTACCTATTTCCTTCCC
1 GAGATGGATCAATAGGCTTTCCTTGAGCAATTACCTATTTCCTTCCC
35317505 TATGGCCCCT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 41 1.00
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.37
Consensus pattern (47 bp):
GAGATGGATCAATAGGCTTTCCTTGAGCAATTACCTATTTCCTTCCC
Found at i:35319336 original size:24 final size:24
Alignment explanation
Indices: 35319288--35319437 Score: 230
Period size: 24 Copynumber: 6.1 Consensus size: 24
35319278 GCCTAGCCTC
35319288 TTTAATAACTGGGGCA-AAGCCCT
1 TTTAATAACTGGGGCATAAGCCCT
35319311 TTTAATAACTGGGGCATAAGCCCT
1 TTTAATAACTGGGGCATAAGCCCT
35319335 TTTAATAACTGGGGCATAAGCCCT
1 TTTAATAACTGGGGCATAAGCCCT
* *
35319359 TTTAGTAACTGGAGCATAAGCCCTCT
1 TTTAATAACTGGGGCATAAG-CC-CT
35319385 TTTAATAACTGGGGCATAAGCCCTTT
1 TTTAATAACTGGGGCATAAGCCC--T
*
35319411 TTTAATAACTGGGGCATAAACCCT
1 TTTAATAACTGGGGCATAAGCCCT
35319435 TTT
1 TTT
35319438 GCACTTCCTT
Statistics
Matches: 117, Mismatches: 5, Indels: 9
0.89 0.04 0.07
Matches are distributed among these distances:
23 16 0.14
24 54 0.46
25 4 0.03
26 43 0.37
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (24 bp):
TTTAATAACTGGGGCATAAGCCCT
Found at i:35319437 original size:50 final size:48
Alignment explanation
Indices: 35319288--35319437 Score: 221
Period size: 50 Copynumber: 3.1 Consensus size: 48
35319278 GCCTAGCCTC
*
35319288 TTTAATAACTGGGGCA-AAGCCCTTTTAATAACTGGGGCATAAGCCCT
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAACCCT
* * *
35319335 TTTAATAACTGGGGCATAAGCCCTTTTAGTAACTGGAGCATAAGCCCTCT
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAA-ACC-CT
35319385 TTTAATAACTGGGGCATAAGCCCTTTTTTAATAACTGGGGCATAAACCCT
1 TTTAATAACTGGGGCATAAGCCC--TTTTAATAACTGGGGCATAAACCCT
35319435 TTT
1 TTT
35319438 GCACTTCCTT
Statistics
Matches: 92, Mismatches: 6, Indels: 7
0.88 0.06 0.07
Matches are distributed among these distances:
47 16 0.17
48 24 0.26
49 2 0.02
50 30 0.33
51 2 0.02
52 18 0.20
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (48 bp):
TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAACCCT
Found at i:35319513 original size:20 final size:20
Alignment explanation
Indices: 35319488--35319554 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
35319478 TTATGAATAC
35319488 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
35319508 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
35319528 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
35319548 ACCATGT
1 ATCATGT
35319555 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:35319519 original size:11 final size:11
Alignment explanation
Indices: 35319488--35319543 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
35319478 TTATGAATAC
35319488 ATCATGTGCAT
1 ATCATGTGCAT
*
35319499 ATCA--TACAT
1 ATCATGTGCAT
35319508 ATCATGTGCAT
1 ATCATGTGCAT
*
35319519 ATCA--TACAT
1 ATCATGTGCAT
*
35319528 GTCATGTGCAT
1 ATCATGTGCAT
35319539 ATCAT
1 ATCAT
35319544 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:35319637 original size:25 final size:25
Alignment explanation
Indices: 35319591--35319638 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
35319581 ATATATAAAC
* * *
35319591 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
*
35319616 CCTAGGGGCAAAACGGTTATTTT
1 CCTAGGGGCAAAACGGTCATTTT
35319639 CATATTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:35326295 original size:42 final size:43
Alignment explanation
Indices: 35326230--35326339 Score: 123
Period size: 42 Copynumber: 2.6 Consensus size: 43
35326220 TTCCGGTATG
* * * *
35326230 TGATTTTGTGTAAGACCAAGTCTGGGACATTGGCATC-ATATA
1 TGATTTCGTGTAAGACCATGTCTGGGACAGTGACATCGATATA
* * *
35326272 TGATTTCGTGTAAGACCCTGTCTGAGACAGTGACATCGATATT
1 TGATTTCGTGTAAGACCATGTCTGGGACAGTGACATCGATATA
** *
35326315 TGATAACATGTAAGACCATGTCTGG
1 TGATTTCGTGTAAGACCATGTCTGG
35326340 AATGTTGGTA
Statistics
Matches: 55, Mismatches: 12, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
42 31 0.56
43 24 0.44
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (43 bp):
TGATTTCGTGTAAGACCATGTCTGGGACAGTGACATCGATATA
Found at i:35326979 original size:10 final size:10
Alignment explanation
Indices: 35326964--35326989 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
35326954 TATGGTAATC
35326964 TTGGTATGAT
1 TTGGTATGAT
35326974 TTGGTATGAT
1 TTGGTATGAT
35326984 TTGGTA
1 TTGGTA
35326990 GTTAAAATGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.31, T:0.50
Consensus pattern (10 bp):
TTGGTATGAT
Found at i:35332813 original size:13 final size:13
Alignment explanation
Indices: 35332795--35332819 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35332785 AATGAGATAT
35332795 GTGTGAAAATTTC
1 GTGTGAAAATTTC
35332808 GTGTGAAAATTT
1 GTGTGAAAATTT
35332820 TATCATTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:35336938 original size:18 final size:17
Alignment explanation
Indices: 35336896--35336936 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
35336886 AAAAATATTA
35336896 ATAAAAATAGAATTTAG
1 ATAAAAATAGAATTTAG
*
35336913 ATAGAAATAGAATTTTAG
1 ATAAAAATAGAA-TTTAG
35336931 -TAAAAA
1 ATAAAAA
35336937 ATTTAAGAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.59, C:0.00, G:0.12, T:0.29
Consensus pattern (17 bp):
ATAAAAATAGAATTTAG
Found at i:35339517 original size:20 final size:20
Alignment explanation
Indices: 35339471--35339517 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
35339461 TGTTGGTCCT
* * *
35339471 ATGAATAATGAGGTTAAATT
1 ATGAACAATAAGGTTAAATC
*
35339491 ATAAACAATAAGGTTAAATC
1 ATGAACAATAAGGTTAAATC
35339511 ATGAACA
1 ATGAACA
35339518 GTGATAATAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.51, C:0.06, G:0.15, T:0.28
Consensus pattern (20 bp):
ATGAACAATAAGGTTAAATC
Found at i:35342000 original size:10 final size:9
Alignment explanation
Indices: 35341975--35342010 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
35341965 ATGAAAACAC
35341975 TTAAATAATA
1 TTAAA-AATA
35341985 TTAAAAATA
1 TTAAAAATA
35341994 TTAAAAATA
1 TTAAAAATA
*
35342003 TTGAAAAT
1 TTAAAAAT
35342011 TATATAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
9 20 0.80
10 5 0.20
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (9 bp):
TTAAAAATA
Found at i:35342396 original size:660 final size:665
Alignment explanation
Indices: 35341329--35342939 Score: 1697
Period size: 660 Copynumber: 2.4 Consensus size: 665
35341319 TATAAATTAA
* * * * * *
35341329 ATAAAAATTATTAAAAATATTGAAAATTATGTAATGATACTAAATTATTGTTTTTTAAAAAATGT
1 ATAAAAA-TATTAAAAATATTGAAAATTATATAATAATGCTAAATTATTATTTTTTAAAAATTCT
* * *
35341394 AGAATGATAAATTTAAAGTCTTAAATAAGTAAACTATCAATTCAAGTCTATCATTCTAATTATCT
65 AGAATGATAAATTTGAAGCCTTAAACAAGTAAACTATCAATTCAAGTCTATCATTCTAATTATCT
* * *
35341459 TAGTTTTTACTCTTATTTTGTTTCTAAAAGAGTTCTTAAATTTATATGGTATTTATATTAATTAA
130 TAGTTTTTTCTCTTATTTTGTTT-TAAAAGAGTTCTTAAATTT-TATGGTATTTATGTTATTTAA
* * * *
35341524 CTTGGAATTTAGTC--ATTGCCAACAATAA-TT--ATAAGATTGGTTTAATTTTTTTTAAAATTT
193 CTTGGAATTTAGTCATATTGTCAACAA-AATTTCAATAAGACTAGTTTAATTTCTTTT--AATTT
* * * **
35341584 GACTCAAACAAATTTATTTGATTGTACTTTTGGATTCTATTAATTAGAGGTAAAGTAATTATCTT
255 GACTCAAACAAATTTATTCGATTATACTTTTGGATTCTATTAAATAGAGGTAAAGTAACAATCTT
** ** * * * *
35341649 ATCCCCATTTTTAGATTACTAAGTAATCAATTCATCATAATCTACATACTTTTGGCTAGAGGAGA
320 ATCCCCATTTAAAGAAAACTAAGTAATCAACTCATCAGAAGCTACATACTTTTGACTAGAGGAGA
* *
35341714 GCAAAACTCAAATTGATTGAAGAATAG-A-AATTTTCTTCGAATTT-TAATTTAATCAATTTTTT
385 GCAAAACTCAAATTGATTGAAGAAT-GTATAA-TTTCTTCAAATTTCT-AGTTAATCAATTTTTT
*
35341776 T-AATCAA-C-T-TGATTCAATTTTAT-GAGTTTCGAGTTGAGTTGAATTTCACAACTTGGATAA
447 TGAATCAACCATATGATTC-ATTTTATCGAGTTT-GAGTT-AGTTGAATTTCACAACTTGAATAA
* * * * * * * *
35341836 TAAATTGATGTAAGTAATCATTAGG-TCCTTGGCAGTTTTGAAAATGTGCAAATTAA-TCTTTCT
509 CAAACTGAGGTAAATAACCATTAGGTTCC-TGACAGTTTTGAAAATGTGCAAA-TAAGCCTCTCT
* * *
35341899 CAAAA-AAAA-TC-CAA-AAAAAATTCAAAATATTTAT-AATGTTTTCCCAAAA-TTTATAAATA
572 AAAAACAAAATTCACAATAAAAAATTCAAAATATTTATAAACGTTTTCACAAAATTTTATAAATA
* *
35341958 CATATAAA-TGAAAACACTTAAATAATAT
637 CATATAAATTAAAAAAACTTAAATAATAT
35341986 -TAAAAATATTAAAAATATTGAAAATTATATAATAATGCTAAATTATTATTATTATTTTAAAAAT
1 ATAAAAATATTAAAAATATTGAAAATTATATAATAATGCT-AA--ATTATTATT-TTTTAAAAAT
* * * ** * *
35342050 TCTAAAATGATAAATTTGAAGCCTTAAACAAGTAAACTATCCATTTAAACCTATCATTCGAAATA
62 TCTAGAATGATAAATTTGAAGCCTTAAACAAGTAAACTATCAATTCAAGTCTATCATTCTAATTA
* * * *
35342115 TCTTTGTGTTTTTCTCTTATTTTGTTTTATAAAGAGTTCTTAGACTTTTATGATATTTATGTTCT
127 TCTTAGT-TTTTTCTCTTATTTTGTTTTA-AAAGAGTTCTTA-AATTTTATGGTATTTATGTTAT
* * * * *
35342180 TTAACTTAGAATTTAATCATATTGTTAACAAAATTTCAATATGACTAGTTTACTTTCTTTT-ATT
189 TTAACTTGGAATTTAGTCATATTGTCAACAAAATTTCAATAAGACTAGTTTAATTTCTTTTAATT
* *
35342244 TGACTCTAACAAATTT-TTCGATTATA-TTTGTGGATTCTGTTAAATAGAGGTAAAGTAACAATC
254 TGACTCAAACAAATTTATTCGATTATACTTT-TGGATTCTATTAAATAGAGGTAAAGTAACAATC
* * * *
35342307 TTATTCCCATTTAAAGAAAAC-ATAGTAATCAACTCATC-GAAGCTACATTCTTTTGATTAGTGG
318 TTATCCCCATTTAAAGAAAACTA-AGTAATCAACTCATCAGAAGCTACATACTTTTGACTAGAGG
* * * *
35342370 TGAGCAAAACTCAATTTGATTTGAAGAATGTATAATTTCTTTAAATTTCTAGTTAATCGATTTTT
382 AGAGCAAAACTCAAATTGA-TTGAAGAATGTATAATTTCTTCAAATTTCTAGTTAATCAATTTTT
*
35342435 TTGAATCAACTCGAATAAGTGATTCATTTTTTCGAGTTTGAGTTAGTTGAATTTCACAACTTGAA
446 TTGAATCAAC-C--AT-A-TGATTCATTTTATCGAGTTTGAGTTAGTTGAATTTCACAACTTGAA
* * * * * *
35342500 TAACAAACTGAGGTAAATACCCCTTGGGTTGCTGATAGTTTTGAAAATGTGCAAATAAGCCTCTG
506 TAACAAACTGAGGTAAATAACCATTAGGTTCCTGACAGTTTTGAAAATGTGCAAATAAGCCTCTC
* * *
35342565 TAAAAACAAAATTCAAATAATCTTAAAAAATTCAACATTTTTATAAAACGTTTTCACAAAATTTT
571 TAAAAACAAAATTC--ACAA---TAAAAAATTCAAAATATTTAT-AAACGTTTTCACAAAATTTT
* *
35342630 ATAAATATATATAAATTAAAAAAACTTAAATATTAT
630 ATAAATACATATAAATTAAAAAAACTTAAATAATAT
* * * *
35342666 ATAAAAATATTTAAAATTCTTGAAAATTATATAATAAAGCT-AA--ATTATTTTTTAAAATTTC-
1 ATAAAAATA-TTAAAAATATTGAAAATTATATAATAATGCTAAATTATTATTTTTTAAAAATTCT
* * *
35342727 AGAATGATAAATTCGTAGCCTTAAACAAGTAAACTATCAATTCAAGTTTATCATTCTAATTATCT
65 AGAATGATAAATTTGAAGCCTTAAACAAGTAAACTATCAATTCAAGTCTATCATTCTAATTATCT
* * *
35342792 TGGTTTTTTTCTCTTATTTTGTTCTAAAATGAGTTCTTAAATTCATATGGTATTTATGTTATTTA
130 TAG-TTTTTTCTCTTATTTTGTTTTAAAA-GAGTTCTTAAATT-TTATGGTATTTATGTTATTTA
** * * *
35342857 ACTTGGAA-TTAGTCATATTGTCAACAAGTTTTCAAT-AGCGCCAGTTTAAATTTTTTTTTTAAT
192 ACTTGGAATTTAGTCATATTGTCAACAAAATTTCAATAAG-ACTAGTTT-AA--TTTCTTTTAAT
* *
35342920 TTGACTCGAATAAATTTATT
253 TTGACTCAAACAAATTTATT
35342940 TAATTATATT
Statistics
Matches: 785, Mismatches: 115, Indels: 87
0.80 0.12 0.09
Matches are distributed among these distances:
655 30 0.04
656 8 0.01
658 8 0.01
659 112 0.14
660 162 0.21
661 33 0.04
662 11 0.01
663 1 0.00
664 18 0.02
666 4 0.01
667 69 0.09
668 17 0.02
669 14 0.02
672 3 0.00
673 36 0.05
674 112 0.14
675 12 0.02
676 31 0.04
677 17 0.02
678 16 0.02
679 17 0.02
680 18 0.02
681 8 0.01
682 28 0.04
ACGTcount: A:0.38, C:0.11, G:0.10, T:0.41
Consensus pattern (665 bp):
ATAAAAATATTAAAAATATTGAAAATTATATAATAATGCTAAATTATTATTTTTTAAAAATTCTA
GAATGATAAATTTGAAGCCTTAAACAAGTAAACTATCAATTCAAGTCTATCATTCTAATTATCTT
AGTTTTTTCTCTTATTTTGTTTTAAAAGAGTTCTTAAATTTTATGGTATTTATGTTATTTAACTT
GGAATTTAGTCATATTGTCAACAAAATTTCAATAAGACTAGTTTAATTTCTTTTAATTTGACTCA
AACAAATTTATTCGATTATACTTTTGGATTCTATTAAATAGAGGTAAAGTAACAATCTTATCCCC
ATTTAAAGAAAACTAAGTAATCAACTCATCAGAAGCTACATACTTTTGACTAGAGGAGAGCAAAA
CTCAAATTGATTGAAGAATGTATAATTTCTTCAAATTTCTAGTTAATCAATTTTTTTGAATCAAC
CATATGATTCATTTTATCGAGTTTGAGTTAGTTGAATTTCACAACTTGAATAACAAACTGAGGTA
AATAACCATTAGGTTCCTGACAGTTTTGAAAATGTGCAAATAAGCCTCTCTAAAAACAAAATTCA
CAATAAAAAATTCAAAATATTTATAAACGTTTTCACAAAATTTTATAAATACATATAAATTAAAA
AAACTTAAATAATAT
Found at i:35344954 original size:13 final size:13
Alignment explanation
Indices: 35344936--35344967 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
35344926 TTACGTAAGC
35344936 ATTTAATATAAAT
1 ATTTAATATAAAT
35344949 ATTTAATATAAAT
1 ATTTAATATAAAT
35344962 ATTTAA
1 ATTTAA
35344968 GGGTTTCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
ATTTAATATAAAT
Found at i:35348578 original size:28 final size:29
Alignment explanation
Indices: 35348529--35348750 Score: 100
Period size: 28 Copynumber: 8.0 Consensus size: 29
35348519 ATATAAGAGG
*
35348529 ACGTAGGTTTTGAGTATGATGAAGTATAT
1 ACGTAGGTTTTAAGTATGATGAAGTATAT
35348558 ACGTAGG-TTTAAGTATGATGAAGTATAT
1 ACGTAGGTTTTAAGTATGATGAAGTATAT
** * ** * *
35348586 A---A--TTTTATTTTTTTTG-GGCGAT-T
1 ACGTAGGTTTTAAGTATGATGAAG-TATAT
* *
35348609 AGGTTTAGGTTTTGAGTATGATGAAGTATAT
1 ACG--TAGGTTTTAAGTATGATGAAGTATAT
35348640 ACGTAGG-TTTAAGTATGATGAAGTATAT
1 ACGTAGGTTTTAAGTATGATGAAGTATAT
** * ** * *
35348668 A---A--TTTTATTTTTTTTG-GGCGAT-T
1 ACGTAGGTTTTAAGTATGATGAAG-TATAT
* *
35348691 AGGTTTAGGTTTTGAGTATGATGAAGTATAT
1 ACG--TAGGTTTTAAGTATGATGAAGTATAT
35348722 ACGTAGG-TTTAAGTATGATGAAGTATAT
1 ACGTAGGTTTTAAGTATGATGAAGTATAT
35348750 A
1 A
35348751 ATTTTATTTT
Statistics
Matches: 136, Mismatches: 35, Indels: 45
0.63 0.16 0.21
Matches are distributed among these distances:
23 6 0.04
24 20 0.15
25 2 0.01
28 65 0.48
29 15 0.11
30 20 0.15
31 8 0.06
ACGTcount: A:0.30, C:0.03, G:0.25, T:0.43
Consensus pattern (29 bp):
ACGTAGGTTTTAAGTATGATGAAGTATAT
Found at i:35348669 original size:82 final size:82
Alignment explanation
Indices: 35348532--35348779 Score: 487
Period size: 82 Copynumber: 3.0 Consensus size: 82
35348522 TAAGAGGACG
35348532 TAGGTTTTGAGTATGATGAAGTATATACGTAGGTTTAAGTATGATGAAGTATATAATTTTATTTT
1 TAGGTTTTGAGTATGATGAAGTATATACGTAGGTTTAAGTATGATGAAGTATATAATTTTATTTT
35348597 TTTTGGGCGATTAGGTT
66 TTTTGGGCGATTAGGTT
35348614 TAGGTTTTGAGTATGATGAAGTATATACGTAGGTTTAAGTATGATGAAGTATATAATTTTATTTT
1 TAGGTTTTGAGTATGATGAAGTATATACGTAGGTTTAAGTATGATGAAGTATATAATTTTATTTT
35348679 TTTTGGGCGATTAGGTT
66 TTTTGGGCGATTAGGTT
35348696 TAGGTTTTGAGTATGATGAAGTATATACGTAGGTTTAAGTATGATGAAGTATATAATTTTATTTT
1 TAGGTTTTGAGTATGATGAAGTATATACGTAGGTTTAAGTATGATGAAGTATATAATTTTATTTT
*
35348761 TTTTGGACGATTAGGTT
66 TTTTGGGCGATTAGGTT
35348778 TA
1 TA
35348780 TTGTATTAGA
Statistics
Matches: 165, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 165 1.00
ACGTcount: A:0.29, C:0.02, G:0.24, T:0.45
Consensus pattern (82 bp):
TAGGTTTTGAGTATGATGAAGTATATACGTAGGTTTAAGTATGATGAAGTATATAATTTTATTTT
TTTTGGGCGATTAGGTT
Found at i:35350893 original size:7 final size:7
Alignment explanation
Indices: 35350881--35350907 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
35350871 AATCTTTTGG
35350881 TCCCAAT
1 TCCCAAT
35350888 TCCCAAT
1 TCCCAAT
35350895 TCCCAAT
1 TCCCAAT
35350902 TCCCAA
1 TCCCAA
35350908 ACCCCAAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.44, G:0.00, T:0.26
Consensus pattern (7 bp):
TCCCAAT
Found at i:35353619 original size:20 final size:20
Alignment explanation
Indices: 35353585--35353626 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
35353575 AACTATTTAA
* *
35353585 ATAATATTACTTGAATAGTT
1 ATAATATTACATGAATAATT
*
35353605 ATAATATTAGATGAATAATT
1 ATAATATTACATGAATAATT
35353625 AT
1 AT
35353627 GTGTCTTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.45, C:0.02, G:0.10, T:0.43
Consensus pattern (20 bp):
ATAATATTACATGAATAATT
Found at i:35355224 original size:19 final size:19
Alignment explanation
Indices: 35355200--35355238 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
35355190 ATACCAGAAG
35355200 TTAGGAAGAATTTAGTGTA
1 TTAGGAAGAATTTAGTGTA
35355219 TTAGGAAGAATTTAGTGTA
1 TTAGGAAGAATTTAGTGTA
35355238 T
1 T
35355239 GAAAGTCTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.26, T:0.38
Consensus pattern (19 bp):
TTAGGAAGAATTTAGTGTA
Found at i:35360935 original size:74 final size:74
Alignment explanation
Indices: 35360851--35361001 Score: 293
Period size: 74 Copynumber: 2.0 Consensus size: 74
35360841 ATAAAATTAG
35360851 TAAAATTATATATATTTTTATATTTTTAACAAAAAATTGGAATCATTTGGTTCATTTTCATCATC
1 TAAAATTATATATATTTTTATATTTTTAACAAAAAATTGGAATCATTTGGTTCATTTTCATCATC
*
35360916 GTTTTTTTA
66 GGTTTTTTA
35360925 TAAAATTATATATATTTTTATATTTTTAACAAAAAATTGGAATCATTTGGTTCATTTTCATCATC
1 TAAAATTATATATATTTTTATATTTTTAACAAAAAATTGGAATCATTTGGTTCATTTTCATCATC
35360990 GGTTTTTTA
66 GGTTTTTTA
35360999 TAA
1 TAA
35361002 CTATAATTTG
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 76 1.00
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.50
Consensus pattern (74 bp):
TAAAATTATATATATTTTTATATTTTTAACAAAAAATTGGAATCATTTGGTTCATTTTCATCATC
GGTTTTTTA
Found at i:35367610 original size:46 final size:48
Alignment explanation
Indices: 35367509--35367784 Score: 282
Period size: 47 Copynumber: 5.9 Consensus size: 48
35367499 GGCACATTAT
* * *
35367509 GAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCAGCATTGAGAC
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAC
* * * *
35367557 GAGAGCTAGTGTAAGA-TATGTCTGAGACAT-GCATCGGCCTTGAGTC
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAC
*
35367603 GTA-AGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGAGAC
1 G-AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAC
* * * *
35367651 GAGAGTTAGTGTAAGA-TATGTCTGGGACAT-GCATCGGC-TACGAGAT
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-TGAGAC
* * *
35367697 GATAG-TCAGTGTAAGACCATGTCTAGGACATGGCATCGAC-TTGAGA-
1 GAGAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAC
* * * *
35367743 TATAAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCA
1 GA-GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
35367785 CTTTACCCAC
Statistics
Matches: 191, Mismatches: 26, Indels: 22
0.80 0.11 0.09
Matches are distributed among these distances:
45 2 0.01
46 53 0.28
47 86 0.45
48 50 0.26
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (48 bp):
GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAC
Found at i:35367708 original size:94 final size:93
Alignment explanation
Indices: 35367467--35367783 Score: 335
Period size: 94 Copynumber: 3.4 Consensus size: 93
35367457 GTTATTGTTG
* * *
35367467 GCTAGTGTAAGACATGT-TCGGGACATGCATCAGGC-AC-ATTATGAGAGCCAGTGTAAGACCAT
1 GCTAGTGTAAGATATGTCT-GGGACATGCATC-GGCTACGA-GATGATAG-CAGTGTAAGACCAT
*
35367529 GTTTGGGACATGGCATCAGCATTGAGACGAGA
62 GTTTGGGACATGGCATCGGCATTGAGACGAGA
* *
35367561 GCTAGTGTAAGATATGTCTGAGACATGCATCGGCCT-TGAG-TCG-TAAGCTAGTGTAAGACCAT
1 GCTAGTGTAAGATATGTCTGGGACATGCATCGG-CTACGAGAT-GAT-AGC-AGTGTAAGACCAT
35367623 GTTTGGGACATGGCATCGGCATTGAGACGAGA
62 GTTTGGGACATGGCATCGGCATTGAGACGAGA
* *
35367655 GTTAGTGTAAGATATGTCTGGGACATGCATCGGCTACGAGATGATAGTCAGTGTAAGACCATGTC
1 GCTAGTGTAAGATATGTCTGGGACATGCATCGGCTACGAGATGATAG-CAGTGTAAGACCATGTT
* * * *
35367720 TAGGACATGGCATCGAC-TTGAGA-TATAA
65 TGGGACATGGCATCGGCATTGAGACGA-GA
* * *
35367748 GCCAGTGTAAGACCATGTCTAGGACATGGCATCGGC
1 GCTAGTGTAAGA-TATGTCTGGGACAT-GCATCGGC
35367784 ACTTTACCCA
Statistics
Matches: 191, Mismatches: 18, Indels: 27
0.81 0.08 0.11
Matches are distributed among these distances:
92 1 0.01
93 23 0.12
94 154 0.81
95 13 0.07
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (93 bp):
GCTAGTGTAAGATATGTCTGGGACATGCATCGGCTACGAGATGATAGCAGTGTAAGACCATGTTT
GGGACATGGCATCGGCATTGAGACGAGA
Found at i:35371669 original size:90 final size:90
Alignment explanation
Indices: 35371492--35371659 Score: 214
Period size: 90 Copynumber: 1.9 Consensus size: 90
35371482 TGCATAAGTC
* * *
35371492 TATGTGGTAGAGACCCATGGCATTATATGAAAACTAAAACACTCATGGTGTTACCTTCAGTGAGA
1 TATGTGGTAGAGACCCATGGCATAATATGAAAACTAAAACACTCATGGTGATACCTTCAGTAAGA
35371557 TGAATATTGGACTGAAAGATCATTA
66 TGAATATTGGACTGAAAGATCATTA
* * * * * * *
35371582 TATGTGGTTGAGACCCATGGTATAATATGATAA-TAAGAATACTCATGGTGATGCCTTCTGTAAT
1 TATGTGGTAGAGACCCATGGCATAATATGAAAACTAA-AACACTCATGGTGATACCTTCAGTAAG
35371646 ATGTAA-ATTGGACT
65 ATG-AATATTGGACT
35371660 TGCAAATCAT
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
89 3 0.05
90 61 0.92
91 2 0.03
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (90 bp):
TATGTGGTAGAGACCCATGGCATAATATGAAAACTAAAACACTCATGGTGATACCTTCAGTAAGA
TGAATATTGGACTGAAAGATCATTA
Found at i:35374286 original size:65 final size:65
Alignment explanation
Indices: 35374166--35374331 Score: 174
Period size: 65 Copynumber: 2.6 Consensus size: 65
35374156 AAGAAGCATG
* * *
35374166 TTACTTTAAAGAGGTAAAGCCACTTTAAAGAAGTGTGCAACACAACTTTAATTTAAAAAAGTGTA
1 TTACCTTAAAGAGGTAAAGCCACTTTAAAGAAGTGTGCAACACAACTTCAATTTAAAAAACTGTA
* * * ** *
35374231 TTACCTTATAA-AGGTAAAGCCACTTTAAAGAAGTGTGTAATA-AAGGTTCGCTTTAAAGAACTG
1 TTACCTTA-AAGAGGTAAAGCCACTTTAAAGAAGTGTGCAACACAA-CTTCAATTTAAAAAACTG
*
35374294 TG
64 TA
****
35374296 TTACCTTAAAGAGGTAAATTTGCTTTAAAGAAGTGT
1 TTACCTTAAAGAGGTAAAGCCACTTTAAAGAAGTGT
35374332 ATAACATAGG
Statistics
Matches: 84, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
64 4 0.05
65 78 0.93
66 2 0.02
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.31
Consensus pattern (65 bp):
TTACCTTAAAGAGGTAAAGCCACTTTAAAGAAGTGTGCAACACAACTTCAATTTAAAAAACTGTA
Found at i:35374387 original size:64 final size:65
Alignment explanation
Indices: 35374231--35374388 Score: 160
Period size: 65 Copynumber: 2.4 Consensus size: 65
35374221 AAAAAGTGTA
* * * * * *
35374231 TTACCTTATAA-AGGTAAAGCCACTTTAAAGAAGTGTGTAATAAAGGTTCGCTTTAAAGAACTGT
1 TTACCTTA-AAGAAGTAAAGTCACTTTAAAGAAGTGTATAACAAAGGTTCGCTTCAAAGAACTAT
35374295 G
65 G
* * ** *
35374296 TTACCTTAAAGAGGTAAATTTGCTTTAAAGAAGTGTATAACATAGGTT-GCTTCAAAGAAAC-AT
1 TTACCTTAAAGAAGTAAAGTCACTTTAAAGAAGTGTATAACAAAGGTTCGCTTCAAAG-AACTAT
35374359 G
65 G
* *
35374360 TTACCTTAAAGAATTAAAGTCATTTTAAA
1 TTACCTTAAAGAAGTAAAGTCACTTTAAA
35374389 AAACTGTGGA
Statistics
Matches: 76, Mismatches: 15, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
64 35 0.46
65 41 0.54
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.32
Consensus pattern (65 bp):
TTACCTTAAAGAAGTAAAGTCACTTTAAAGAAGTGTATAACAAAGGTTCGCTTCAAAGAACTATG
Found at i:35378338 original size:22 final size:22
Alignment explanation
Indices: 35378313--35378358 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
35378303 AAATAATAAA
*
35378313 ATAAAAT-TTTATATTTGTTCAT
1 ATAAAATATTTAAATTTGTT-AT
35378335 ATAAAATATTTAAATTTGTTAT
1 ATAAAATATTTAAATTTGTTAT
35378357 AT
1 AT
35378359 CCCTCCACTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.52
Consensus pattern (22 bp):
ATAAAATATTTAAATTTGTTAT
Found at i:35383980 original size:49 final size:49
Alignment explanation
Indices: 35383915--35384152 Score: 349
Period size: 49 Copynumber: 4.9 Consensus size: 49
35383905 TAGTATGGCG
*
35383915 TAATGGCTGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
* * *
35383964 TAATAGCCGATGTGATGAATGTGAAAGTATGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
35384013 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
* *
35384062 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGACAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
* * * * *
35384109 GAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
35384153 TTCCGAAGGG
Statistics
Matches: 171, Mismatches: 16, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
47 48 0.28
48 1 0.01
49 122 0.71
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (49 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
Done.