Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_pilon, whole genome shotgun sequence
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: 13158977
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 24 of 64
Found at i:4778937 original size:187 final size:186
Alignment explanation
Indices: 4778593--4779153 Score: 589
Period size: 198 Copynumber: 2.9 Consensus size: 186
4778583 GGTTAATTAT
* * * ** *
4778593 AAAATAGGTCAACATAATGTATTGAAACTTGTGGAATTTGTGTCGATACTTATGTCCAGAATGAA
1 AAAATAGGTCAACATAATGTATCGACACTTTTTAAATTTGTGTCGATACTTTTGTCCAGAATGAA
* * *
4778658 TGCCCAAACGGGGTGTACACATAAAGTGTCGATACATTTATTAAAATTATCGATC-CAAAAAACA
66 TG-CCAAACGGGGTGCACACAT-AAGTGTCGATACATTTATTAAAAGTATCGATCTC-AAAAATA
* *
4778722 TCGAAAACGATAATTATAATGTAATAGGTAAATTTACTATGTAACCG-CCGGTTTTATGAG
128 TCG-AAACGATAATTATAATGTAATAGGTAAATTTACAATGT-ACCGACCGATTTTATGAG
* *
4778782 AGAATAGGTCAATATAATGTATCGACACTTTTTAAATTTGTGTCGATACATTTTGTCCAGAATGA
1 AAAATAGGTCAACATAATGTATCGACACTTTTTAAATTTGTGTCGATAC-TTTTGTCCAGAATGA
4778847 ATGCCAAACGGGGTGCACACAT-AGTGTCGATACATTTATTAAAAGTATCGATCTCAAAAATATC
65 ATGCCAAACGGGGTGCACACATAAGTGTCGATACATTTATTAAAAGTATCGATCTCAAAAATATC
* * *
4778911 GAAACTGATAATTACAATATAATAGGTAAATTTACAATGTACGGGGTAGAAATATACCGATTTTA
130 GAAAC-GATAATTATAATGTAATAGGTAAATTTACAATGTAC-----CG------ACCGATTTTA
4778976 TGAG
183 TGAG
* * * * *
4778980 AAAATAGGTCTACATAATATATCGACACGTTTTAAGA-TTGTGTTGATACTTTTTTCCAGAATGA
1 AAAATAGGTCAACATAATGTATCGACACTTTTTAA-ATTTGTGTCGATACTTTTGTCCAGAATGA
* * * * * *
4779044 ATGCCCAACGAGGTGCACGCATAAAGTGTCGATACATTTA--AAATTGTATCTATCCTGAAAACA
65 ATGCCAAACGGGGTGCACACAT-AAGTGTCGATACATTTATTAAA-AGTATCGAT-CTCAAAA-A
*
4779107 T-T-GAAACCGATAATTATAATGTAATAGATAAATTTACAATGTTACCG
126 TATCGAAA-CGATAATTATAATGTAATAGGTAAATTTACAATG-TACCG
4779154 GTATAAATAT
Statistics
Matches: 316, Mismatches: 33, Indels: 41
0.81 0.08 0.11
Matches are distributed among these distances:
186 6 0.02
187 70 0.22
188 1 0.00
189 60 0.19
190 17 0.05
191 1 0.00
194 1 0.00
197 36 0.11
198 94 0.30
199 28 0.09
200 2 0.01
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (186 bp):
AAAATAGGTCAACATAATGTATCGACACTTTTTAAATTTGTGTCGATACTTTTGTCCAGAATGAA
TGCCAAACGGGGTGCACACATAAGTGTCGATACATTTATTAAAAGTATCGATCTCAAAAATATCG
AAACGATAATTATAATGTAATAGGTAAATTTACAATGTACCGACCGATTTTATGAG
Found at i:4780180 original size:20 final size:20
Alignment explanation
Indices: 4780155--4780198 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
4780145 TTCATCACAC
4780155 CAAATCCTCTTAAAACC-TAT
1 CAAATCCT-TTAAAACCATAT
*
4780175 CAAATCCTTTCAAACCATAT
1 CAAATCCTTTAAAACCATAT
4780195 CAAA
1 CAAA
4780199 AATCAAATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.43, C:0.30, G:0.00, T:0.27
Consensus pattern (20 bp):
CAAATCCTTTAAAACCATAT
Found at i:4780214 original size:27 final size:27
Alignment explanation
Indices: 4780173--4780238 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 27
4780163 CTTAAAACCT
* *
4780173 ATCAAATCCTTTCAAACCATATCAAAA
1 ATCAAATTCTCTCAAACCATATCAAAA
4780200 ATCAAATTCTCTCAAACCATATCAAAA
1 ATCAAATTCTCTCAAACCATATCAAAA
*
4780227 ATCAAACTCTCT
1 ATCAAATTCTCT
4780239 TAAAGCTAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.45, C:0.27, G:0.00, T:0.27
Consensus pattern (27 bp):
ATCAAATTCTCTCAAACCATATCAAAA
Found at i:4781708 original size:15 final size:17
Alignment explanation
Indices: 4781682--4781718 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
4781672 CATAATTATT
4781682 AAAAATATATAAA-TAC
1 AAAAATATATAAATTAC
4781698 AAAAATA-ATAAATTAC
1 AAAAATATATAAATTAC
4781714 AAAAA
1 AAAAA
4781719 ACTGAAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 5 0.25
16 15 0.75
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.22
Consensus pattern (17 bp):
AAAAATATATAAATTAC
Found at i:4782152 original size:183 final size:183
Alignment explanation
Indices: 4781905--4782241 Score: 408
Period size: 184 Copynumber: 1.8 Consensus size: 183
4781895 CGTGAATATA
*
4781905 ATTATTTTTTGTGATATTGTTTTATGTAATAATTAATAACACTTATAGTTATAAAATTTGTCACT
1 ATTATTTTTTGTGATATTGTTTTATGTAATAATTAATAACACTTATAGTTATAAAATATGTCACT
* *
4781970 ATATGACTTT-TTGGTGTA-AAAAAATATGGAGGGA-AATC-TTTGTGACA-ATATATTTCGTCA
66 ATATGACTTTATTGGTGTACAAAAAAT-TGGA--GATAATCATATGTGA-ATATACATTTCGTCA
4782030 CTATAATTAAAACATATAA-CAACAAACACTTTTTTTTTTACTAAAAACTGAAATCTC
127 CTATAATTAAAACATATAATC-ACAAACACTTTTTTTTTTACTAAAAACTGAAATCTC
*
4782087 ATTA-TTTTTGTGACATATTGTTTTTTGTAATAA-TAATTATA-ACTTATA-TT-TACAAATCAT
1 ATTATTTTTTGTG--ATATTGTTTTATGTAATAATTAA-TA-ACACTTATAGTTATA-AAAT-AT
* ** * *
4782147 GTCACTATATGATTTTATTTTTGTACCAAAAATTGGAGATAATCATATGTGAATATACATTTTGT
60 GTCACTATATGACTTTATTGGTGTACAAAAAATTGGAGATAATCATATGTGAATATACATTTCGT
*
4782212 CACTATAATTAAAATATATAATCACAAACA
125 CACTATAATTAAAACATATAATCACAAACA
4782242 AAATTTATCA
Statistics
Matches: 133, Mismatches: 10, Indels: 22
0.81 0.06 0.13
Matches are distributed among these distances:
181 10 0.08
182 15 0.11
183 48 0.36
184 53 0.40
185 7 0.05
ACGTcount: A:0.38, C:0.10, G:0.09, T:0.42
Consensus pattern (183 bp):
ATTATTTTTTGTGATATTGTTTTATGTAATAATTAATAACACTTATAGTTATAAAATATGTCACT
ATATGACTTTATTGGTGTACAAAAAATTGGAGATAATCATATGTGAATATACATTTCGTCACTAT
AATTAAAACATATAATCACAAACACTTTTTTTTTTACTAAAAACTGAAATCTC
Found at i:4782658 original size:23 final size:23
Alignment explanation
Indices: 4782630--4782676 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
4782620 CATCCACCAT
4782630 AAAATTCTTAAGTGCCTAATTTA
1 AAAATTCTTAAGTGCCTAATTTA
4782653 AAAATTCTTAAGTGCCTAATTTA
1 AAAATTCTTAAGTGCCTAATTTA
4782676 A
1 A
4782677 GTTGCAGGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
AAAATTCTTAAGTGCCTAATTTA
Found at i:4787785 original size:28 final size:28
Alignment explanation
Indices: 4787745--4787801 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
4787735 AGAAATAAAA
4787745 CTTTGTAAATGGGTTTATAAGTTGAAGG
1 CTTTGTAAATGGGTTTATAAGTTGAAGG
4787773 CTTTGTAAATGGGTTTATAAGTTGAAGG
1 CTTTGTAAATGGGTTTATAAGTTGAAGG
4787801 C
1 C
4787802 AATCGACAAT
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:0.28, C:0.05, G:0.28, T:0.39
Consensus pattern (28 bp):
CTTTGTAAATGGGTTTATAAGTTGAAGG
Found at i:4791179 original size:23 final size:23
Alignment explanation
Indices: 4791153--4791198 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
4791143 GAGTAAACTC
*
4791153 GACTGAGTCAACTCGTTGAATTT
1 GACTGAGTCAACCCGTTGAATTT
4791176 GACTGAGTCAACCCGTTGAATTT
1 GACTGAGTCAACCCGTTGAATTT
4791199 TAACTTTGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.33
Consensus pattern (23 bp):
GACTGAGTCAACCCGTTGAATTT
Found at i:4799263 original size:31 final size:29
Alignment explanation
Indices: 4799228--4799286 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 29
4799218 AAAGTAAACG
4799228 TTTAGTACCTAAA-TTATCAATTTTGTTTCAT
1 TTTAGTACCTAAACTT-TC-A-TTTGTTTCAT
4799259 TTTAGTACCTAAACTTTCATTTGTTTCA
1 TTTAGTACCTAAACTTTCATTTGTTTCA
4799287 AAACCATACA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
29 9 0.33
30 1 0.04
31 15 0.56
32 2 0.07
ACGTcount: A:0.27, C:0.15, G:0.07, T:0.51
Consensus pattern (29 bp):
TTTAGTACCTAAACTTTCATTTGTTTCAT
Found at i:4800704 original size:18 final size:18
Alignment explanation
Indices: 4800675--4800718 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
4800665 GTTTGATCCG
4800675 TTGACTTTGACCCGACCCA
1 TTGAC-TTGACCCGACCCA
* * *
4800694 TTGACTTGACCTGTCCCG
1 TTGACTTGACCCGACCCA
4800712 TTGACTT
1 TTGACTT
4800719 TGACTTTGAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.16, C:0.32, G:0.18, T:0.34
Consensus pattern (18 bp):
TTGACTTGACCCGACCCA
Found at i:4802434 original size:19 final size:19
Alignment explanation
Indices: 4802412--4802476 Score: 85
Period size: 19 Copynumber: 3.4 Consensus size: 19
4802402 CTATGAGCTT
*
4802412 TGATATCTGTTCTGATAAC
1 TGATATCTGTTCTGATATC
* * *
4802431 TGATTTCAGTTATGATATC
1 TGATATCTGTTCTGATATC
*
4802450 TGATATCTGTTCTGATTTC
1 TGATATCTGTTCTGATATC
4802469 TGATATCT
1 TGATATCT
4802477 CTATTTACTG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 38 1.00
ACGTcount: A:0.23, C:0.14, G:0.15, T:0.48
Consensus pattern (19 bp):
TGATATCTGTTCTGATATC
Found at i:4802445 original size:38 final size:38
Alignment explanation
Indices: 4802392--4802465 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 38
4802382 AATATGACCT
* * *
4802392 CTGATTTCTGCTATGAGCTTTGATATCTGTTCTGATAA
1 CTGATTTCAGCTATGAGATCTGATATCTGTTCTGATAA
* *
4802430 CTGATTTCAGTTATGATATCTGATATCTGTTCTGAT
1 CTGATTTCAGCTATGAGATCTGATATCTGTTCTGAT
4802466 TTCTGATATC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 31 1.00
ACGTcount: A:0.22, C:0.15, G:0.18, T:0.46
Consensus pattern (38 bp):
CTGATTTCAGCTATGAGATCTGATATCTGTTCTGATAA
Found at i:4803549 original size:20 final size:20
Alignment explanation
Indices: 4803524--4803656 Score: 230
Period size: 20 Copynumber: 6.7 Consensus size: 20
4803514 AATGCAATTA
4803524 GTGCATCGATGCATCCTGCT
1 GTGCATCGATGCATCCTGCT
4803544 GTGCATCGATGCATCCTGCT
1 GTGCATCGATGCATCCTGCT
4803564 GTGCATCGATGCATCCTGCT
1 GTGCATCGATGCATCCTGCT
*
4803584 GTGCATCGATGCATCTTGCT
1 GTGCATCGATGCATCCTGCT
*
4803604 GTGCATCGATGCATCCTACT
1 GTGCATCGATGCATCCTGCT
*
4803624 GTGCATCGATGCATCCTGAT
1 GTGCATCGATGCATCCTGCT
*
4803644 GTGCATCCATGCA
1 GTGCATCGATGCA
4803657 CCAAGGCTGC
Statistics
Matches: 107, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 107 1.00
ACGTcount: A:0.17, C:0.29, G:0.24, T:0.30
Consensus pattern (20 bp):
GTGCATCGATGCATCCTGCT
Found at i:4803807 original size:20 final size:22
Alignment explanation
Indices: 4803769--4803808 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
4803759 TTTGAGTAGA
4803769 AAAATCATCCCCAAACGGCTCC
1 AAAATCATCCCCAAACGGCTCC
4803791 AAAA-CATCCCC-AACGGCT
1 AAAATCATCCCCAAACGGCT
4803809 ATATTCAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.38, C:0.40, G:0.10, T:0.12
Consensus pattern (22 bp):
AAAATCATCCCCAAACGGCTCC
Found at i:4805612 original size:19 final size:19
Alignment explanation
Indices: 4805588--4805637 Score: 100
Period size: 19 Copynumber: 2.6 Consensus size: 19
4805578 TAAAGATAAT
4805588 TTGATTTTGAAAGCAAAAG
1 TTGATTTTGAAAGCAAAAG
4805607 TTGATTTTGAAAGCAAAAG
1 TTGATTTTGAAAGCAAAAG
4805626 TTGATTTTGAAA
1 TTGATTTTGAAA
4805638 ATCGAAATGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.40, C:0.04, G:0.20, T:0.36
Consensus pattern (19 bp):
TTGATTTTGAAAGCAAAAG
Found at i:4806798 original size:21 final size:21
Alignment explanation
Indices: 4806772--4806811 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
4806762 AAAAAATTGG
4806772 TAACAATTGATATCATTTTGT
1 TAACAATTGATATCATTTTGT
*
4806793 TAACAATTGATATCTTTTT
1 TAACAATTGATATCATTTT
4806812 CATTAAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.10, G:0.07, T:0.50
Consensus pattern (21 bp):
TAACAATTGATATCATTTTGT
Found at i:4807078 original size:20 final size:21
Alignment explanation
Indices: 4807033--4807304 Score: 136
Period size: 20 Copynumber: 12.8 Consensus size: 21
4807023 AGGGTGTCAA
* ***
4807033 AGTGCATCCATGCACCCCACT
1 AGTGCATCGATGCACCATGCT
4807054 AGTGCATCGATGCACCATG-T
1 AGTGCATCGATGCACCATGCT
* ***
4807074 AGTGCATCCATGCACCCCACT
1 AGTGCATCGATGCACCATGCT
*
4807095 AGTACATCGATGCACCATG-T
1 AGTGCATCGATGCACCATGCT
* * *
4807115 AGTGCATCCATGCACTCCATTTCG
1 AGTGCATCGATGCA--CCA-TGCT
* *
4807139 AATGCAAT-TAGTGCATCGATGCATCCTGCT
1 AGTGC-ATCGA-TGCA-C----CAT---GCT
*
4807169 -GTGCATCGATGCATCATGCT
1 AGTGCATCGATGCACCATGCT
*
4807189 -GTGCATCGATGCATCATGCT
1 AGTGCATCGATGCACCATGCT
*
4807209 -GTGCATCGATGCATCATGCT
1 AGTGCATCGATGCACCATGCT
*
4807229 -GTGCATCGATGCATCATGCT
1 AGTGCATCGATGCACCATGCT
*
4807249 -GTGCATTGATGCATCC-TGCT
1 AGTGCATCGATGCA-CCATGCT
4807269 A-TGCATCGATGCATCC-TG-T
1 AGTGCATCGATGCA-CCATGCT
* *
4807288 TGTGCATCCATGCACCA
1 AGTGCATCGATGCACCA
4807305 AGGCTGCAAC
Statistics
Matches: 203, Mismatches: 29, Indels: 39
0.75 0.11 0.14
Matches are distributed among these distances:
19 3 0.01
20 135 0.67
21 31 0.15
22 3 0.01
23 4 0.02
24 7 0.03
25 6 0.03
27 1 0.00
28 8 0.04
29 4 0.02
30 1 0.00
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (21 bp):
AGTGCATCGATGCACCATGCT
Found at i:4807090 original size:41 final size:41
Alignment explanation
Indices: 4807033--4807129 Score: 185
Period size: 41 Copynumber: 2.4 Consensus size: 41
4807023 AGGGTGTCAA
*
4807033 AGTGCATCCATGCACCCCACTAGTGCATCGATGCACCATGT
1 AGTGCATCCATGCACCCCACTAGTACATCGATGCACCATGT
4807074 AGTGCATCCATGCACCCCACTAGTACATCGATGCACCATGT
1 AGTGCATCCATGCACCCCACTAGTACATCGATGCACCATGT
4807115 AGTGCATCCATGCAC
1 AGTGCATCCATGCAC
4807130 TCCATTTCGA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 55 1.00
ACGTcount: A:0.26, C:0.34, G:0.19, T:0.22
Consensus pattern (41 bp):
AGTGCATCCATGCACCCCACTAGTACATCGATGCACCATGT
Found at i:4807195 original size:40 final size:40
Alignment explanation
Indices: 4807149--4807301 Score: 243
Period size: 40 Copynumber: 3.8 Consensus size: 40
4807139 AATGCAATTA
*
4807149 GTGCATCGATGCATCCTGCTGTGCATCGATGCATCATGCT
1 GTGCATCGATGCATCATGCTGTGCATCGATGCATCATGCT
4807189 GTGCATCGATGCATCATGCTGTGCATCGATGCATCATGCT
1 GTGCATCGATGCATCATGCTGTGCATCGATGCATCATGCT
* *
4807229 GTGCATCGATGCATCATGCTGTGCATTGATGCATCCTGCT
1 GTGCATCGATGCATCATGCTGTGCATCGATGCATCATGCT
* * * *
4807269 ATGCATCGATGCATCCTGTTGTGCATCCATGCA
1 GTGCATCGATGCATCATGCTGTGCATCGATGCA
4807302 CCAAGGCTGC
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 105 1.00
ACGTcount: A:0.19, C:0.26, G:0.24, T:0.31
Consensus pattern (40 bp):
GTGCATCGATGCATCATGCTGTGCATCGATGCATCATGCT
Found at i:4807213 original size:60 final size:60
Alignment explanation
Indices: 4807149--4807301 Score: 252
Period size: 60 Copynumber: 2.5 Consensus size: 60
4807139 AATGCAATTA
4807149 GTGCATCGATGCATCCTGCTGTGCATCGATGCATCATGCTGTGCATCGATGCATCATGCT
1 GTGCATCGATGCATCCTGCTGTGCATCGATGCATCATGCTGTGCATCGATGCATCATGCT
* * *
4807209 GTGCATCGATGCATCATGCTGTGCATCGATGCATCATGCTGTGCATTGATGCATCCTGCT
1 GTGCATCGATGCATCCTGCTGTGCATCGATGCATCATGCTGTGCATCGATGCATCATGCT
* * *
4807269 ATGCATCGATGCATCCTGTTGTGCATCCATGCA
1 GTGCATCGATGCATCCTGCTGTGCATCGATGCA
4807302 CCAAGGCTGC
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
60 86 1.00
ACGTcount: A:0.19, C:0.26, G:0.24, T:0.31
Consensus pattern (60 bp):
GTGCATCGATGCATCCTGCTGTGCATCGATGCATCATGCTGTGCATCGATGCATCATGCT
Found at i:4807707 original size:34 final size:32
Alignment explanation
Indices: 4807668--4807737 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 32
4807658 TTTTGTAAAG
* *
4807668 GGGAAAGGTTCTAGCTTATCCCGTGTAAAATCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-G-AAAAACTA
* *
4807702 GGGAAATGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
4807734 GGGA
1 GGGA
4807738 GTTGTAAGGT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 11 0.34
33 1 0.03
34 20 0.62
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.26
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:4810164 original size:46 final size:46
Alignment explanation
Indices: 4810062--4810154 Score: 120
Period size: 46 Copynumber: 2.1 Consensus size: 46
4810052 GTTAACTTTA
* * * *
4810062 ATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
1 ATTTTATTTATAGTATCCTTTCATGCCATAATGCATCCTATCATGC
4810108 ATTTTATTTATAGTATCCTTTCATGCCAATAATGCA-CC-AT-ATGC
1 ATTTTATTTATAGTATCCTTTCATGCC-ATAATGCATCCTATCATGC
4810152 ATT
1 ATT
4810155 ATTCTTTTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
44 7 0.17
45 1 0.02
46 27 0.64
47 7 0.17
ACGTcount: A:0.25, C:0.22, G:0.10, T:0.44
Consensus pattern (46 bp):
ATTTTATTTATAGTATCCTTTCATGCCATAATGCATCCTATCATGC
Found at i:4810228 original size:45 final size:44
Alignment explanation
Indices: 4810169--4810591 Score: 259
Period size: 45 Copynumber: 10.5 Consensus size: 44
4810159 TTTTATGTAG
* *
4810169 ATAATACACGCATATGCATTTCAACTATGGCATCCTTTCATGCCA
1 ATAATGCACCCATATGCATTTCAACT-TGGCATCCTTTCATGCCA
**
4810214 ATAATGCACCCATATGCATTT----TT--C-T--TTT-ATGCTG
1 ATAATGCACCCATATGCATTTCAACTTGGCATCCTTTCATGCCA
* * * *
4810248 ATAATACACCCATATGCATTTCAGCTATGGCATCATTTCATGCTA
1 ATAATGCACCCATATGCATTTCAACT-TGGCATCCTTTCATGCCA
* * *
4810293 ATAAAGCA-CCATATGCA-TT--A-TT--C-T--TTT-AGGCCG
1 ATAATGCACCCATATGCATTTCAACTTGGCATCCTTTCATGCCA
* *
4810326 ATAATGCACCCATATGCATTTCAGCTGTGGCATCCTTTCATTCCA
1 ATAATGCACCCATATGCATTTCAACT-TGGCATCCTTTCATGCCA
* * *
4810371 ATAATGCCCCCATATGCATTTCATCTGTGGCATCCTTTCATTCCA
1 ATAATGCACCCATATGCATTTCAACT-TGGCATCCTTTCATGCCA
* * *
4810416 ATAATGC-CACCATATACA-TT--A-TT--C-T--TTT-AGGCCG
1 ATAATGCAC-CCATATGCATTTCAACTTGGCATCCTTTCATGCCA
* *
4810450 ATAATGCACCCATATGCATTTTATCTATGGCATCCTTTCATGCCA
1 ATAATGCACCCATATGCATTTCAACT-TGGCATCCTTTCATGCCA
*
4810495 A-AATGCACCCATATGCA-TT--A-TT--C-T--TTT-ATGCCG
1 ATAATGCACCCATATGCATTTCAACTTGGCATCCTTTCATGCCA
* *
4810528 ATAATGCA-CCATATGCATTTCAGCTATGACATCCTTTCATGCCA
1 ATAATGCACCCATATGCATTTCAACT-TGGCATCCTTTCATGCCA
4810572 ATAATGCACCCATATGCATT
1 ATAATGCACCCATATGCATT
4810592 ATTCTTTTAT
Statistics
Matches: 297, Mismatches: 32, Indels: 98
0.70 0.07 0.23
Matches are distributed among these distances:
33 25 0.08
34 65 0.22
35 11 0.04
36 2 0.01
37 5 0.02
38 6 0.02
39 5 0.02
40 5 0.02
41 6 0.02
42 3 0.01
43 7 0.02
44 50 0.17
45 107 0.36
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.35
Consensus pattern (44 bp):
ATAATGCACCCATATGCATTTCAACTTGGCATCCTTTCATGCCA
Found at i:4810252 original size:34 final size:34
Alignment explanation
Indices: 4810214--4810346 Score: 106
Period size: 34 Copynumber: 3.6 Consensus size: 34
4810204 TTTCATGCCA
4810214 ATAATGCACCCATATGCATTTTTCTTTTATGCTG
1 ATAATGCACCCATATGCATTTTTCTTTTATGCTG
* *
4810248 ATAATACACCCATATGCATTTCAGCTATGGCATCATTTCATGCTA
1 ATAATGCACCCATATGCATTT----T-T--C-T--TTT-ATGCTG
* * * *
4810293 ATAAAGCA-CCATATGCATTATTCTTTTAGGCCG
1 ATAATGCACCCATATGCATTTTTCTTTTATGCTG
4810326 ATAATGCACCCATATGCATTT
1 ATAATGCACCCATATGCATTT
4810347 CAGCTGTGGC
Statistics
Matches: 77, Mismatches: 10, Indels: 24
0.69 0.09 0.22
Matches are distributed among these distances:
33 10 0.13
34 34 0.44
36 1 0.01
37 1 0.01
38 1 0.01
39 2 0.03
40 1 0.01
41 1 0.01
42 1 0.01
44 14 0.18
45 11 0.14
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (34 bp):
ATAATGCACCCATATGCATTTTTCTTTTATGCTG
Found at i:4810262 original size:79 final size:78
Alignment explanation
Indices: 4810122--4810390 Score: 396
Period size: 78 Copynumber: 3.4 Consensus size: 78
4810112 TATTTATAGT
*
4810122 ATCCTTTCATGCCAATAATGCACCATATGCATTATTCTTTTATG-TAGATAATACACGCATATGC
1 ATCCTTTCATGCCAATAATGCACCATATGCATTATTCTTTTATGCT-GATAATACACCCATATGC
*
4810186 ATTTCAACTATGGC
65 ATTTCAGCTATGGC
*
4810200 ATCCTTTCATGCCAATAATGCACCCATATGCATTTTTCTTTTATGCTGATAATACACCCATATGC
1 ATCCTTTCATGCCAATAATGCA-CCATATGCATTATTCTTTTATGCTGATAATACACCCATATGC
4810265 ATTTCAGCTATGGC
65 ATTTCAGCTATGGC
* * * * * *
4810279 ATCATTTCATGCTAATAAAGCACCATATGCATTATTCTTTTAGGCCGATAATGCACCCATATGCA
1 ATCCTTTCATGCCAATAATGCACCATATGCATTATTCTTTTATGCTGATAATACACCCATATGCA
*
4810344 TTTCAGCTGTGGC
66 TTTCAGCTATGGC
* *
4810357 ATCCTTTCATTCCAATAATGCCCCCATATGCATT
1 ATCCTTTCATGCCAATAATG-CACCATATGCATT
4810391 TCATCTGTGG
Statistics
Matches: 172, Mismatches: 16, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
78 89 0.52
79 82 0.48
80 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (78 bp):
ATCCTTTCATGCCAATAATGCACCATATGCATTATTCTTTTATGCTGATAATACACCCATATGCA
TTTCAGCTATGGC
Found at i:4810409 original size:202 final size:201
Alignment explanation
Indices: 4810169--4810591 Score: 625
Period size: 202 Copynumber: 2.1 Consensus size: 201
4810159 TTTTATGTAG
* * *
4810169 ATAATACACGCATATGCATTTCAACTATGGCATCCTTTCATGCCAATAATG-CACCCATATGCAT
1 ATAATGCACCCATATGCATTTCAACTATGGCATCCTTTCATGCCAATAATGCCA-CCATATACAT
* * * *
4810233 TTTTCTTTTATGCTGATAATACACCCATATGCATTTCAGCTATGGCATCATTTCATGCTAATAAA
65 TATTCTTTTAGGCCGATAATACACCCATATGCATTTCAGCTATGGCATCATTTCATGCCAA-AAA
* *
4810298 GCA-CCATATGCATTATTCTTTTAGGCCGATAATGCACCCATATGCATTTCAGCTGTGGCATCCT
129 GCACCCATATGCATTATTCTTTTAGGCCGATAATGCA-CCATATGCATTTCAGCTATGACATCCT
*
4810362 TTCATTCCA
193 TTCATGCCA
* * * *
4810371 ATAATGCCCCCATATGCATTTCATCTGTGGCATCCTTTCATTCCAATAATGCCACCATATACATT
1 ATAATGCACCCATATGCATTTCAACTATGGCATCCTTTCATGCCAATAATGCCACCATATACATT
* * * * *
4810436 ATTCTTTTAGGCCGATAATGCACCCATATGCATTTTATCTATGGCATCCTTTCATGCCAAAATGC
66 ATTCTTTTAGGCCGATAATACACCCATATGCATTTCAGCTATGGCATCATTTCATGCCAAAAAGC
*
4810501 ACCCATATGCATTATTCTTTTATGCCGATAATGCACCATATGCATTTCAGCTATGACATCCTTTC
131 ACCCATATGCATTATTCTTTTAGGCCGATAATGCACCATATGCATTTCAGCTATGACATCCTTTC
4810566 ATGCCA
196 ATGCCA
4810572 ATAATGCACCCATATGCATT
1 ATAATGCACCCATATGCATT
4810592 ATTCTTTTAT
Statistics
Matches: 198, Mismatches: 21, Indels: 5
0.88 0.09 0.02
Matches are distributed among these distances:
201 57 0.29
202 139 0.70
203 2 0.01
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.35
Consensus pattern (201 bp):
ATAATGCACCCATATGCATTTCAACTATGGCATCCTTTCATGCCAATAATGCCACCATATACATT
ATTCTTTTAGGCCGATAATACACCCATATGCATTTCAGCTATGGCATCATTTCATGCCAAAAAGC
ACCCATATGCATTATTCTTTTAGGCCGATAATGCACCATATGCATTTCAGCTATGACATCCTTTC
ATGCCA
Found at i:4810463 original size:34 final size:34
Alignment explanation
Indices: 4810416--4810625 Score: 147
Period size: 34 Copynumber: 5.6 Consensus size: 34
4810406 TTTCATTCCA
* *
4810416 ATAATGC-CACCATATACATTATTCTTTTAGGCCG
1 ATAATGCAC-CCATATGCATTATTCTTTTATGCCG
4810450 ATAATGCACCCATATGCATTTTATCTATGGCATCCTTTCATGCC-
1 ATAATGCACCCATATGCA--TTA--T-T--C-T--TTT-ATGCCG
*
4810494 AAAATGCACCCATATGCATTATTCTTTTATGCCG
1 ATAATGCACCCATATGCATTATTCTTTTATGCCG
*
4810528 ATAATGCA-CCATATGCATTTCAGCTATGACATCCTTTCATGCCA
1 ATAATGCACCCATATGCA-TT-A--T-T--C-T--TTT-ATGCCG
*
4810572 ATAATGCACCCATATGCATTATTCTTTTATACCG
1 ATAATGCACCCATATGCATTATTCTTTTATGCCG
4810606 ATAATGCACCCATATGCATT
1 ATAATGCACCCATATGCATT
4810626 TCAGCTATGT
Statistics
Matches: 144, Mismatches: 7, Indels: 50
0.72 0.03 0.25
Matches are distributed among these distances:
33 14 0.10
34 51 0.35
35 5 0.03
36 4 0.03
37 3 0.02
38 3 0.02
39 2 0.01
40 3 0.02
41 3 0.02
42 4 0.03
43 4 0.03
44 35 0.24
45 13 0.09
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.35
Consensus pattern (34 bp):
ATAATGCACCCATATGCATTATTCTTTTATGCCG
Found at i:4810467 original size:124 final size:122
Alignment explanation
Indices: 4810254--4810513 Score: 394
Period size: 124 Copynumber: 2.1 Consensus size: 122
4810244 GCTGATAATA
* *
4810254 CACCCATATGCATTTCAGCTATGGCATCATTTCATGCTAATAAAGCACCATATGCATTATTCTTT
1 CACCCATATGCATTTCAGCTATGGCATCATTTCATGCCAATAAAGCACCATATACATTATTCTTT
* *
4810319 TAGGCCGATAATGCACCCATATGCATTTCAGCTGTGGCATCCTTTCATTCCAATAATG
66 TAGGCCGATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAA-AATG
* * * * * *
4810377 CCCCCATATGCATTTCATCTGTGGCATCCTTTCATTCCAATAATGCCACCATATACATTATTCTT
1 CACCCATATGCATTTCAGCTATGGCATCATTTCATGCCAATAAAG-CACCATATACATTATTCTT
* *
4810442 TTAGGCCGATAATGCACCCATATGCATTTTATCTATGGCATCCTTTCATGCCAAAATG
65 TTAGGCCGATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAAAATG
4810500 CACCCATATGCATT
1 CACCCATATGCATT
4810514 ATTCTTTTAT
Statistics
Matches: 123, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
123 55 0.45
124 68 0.55
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.34
Consensus pattern (122 bp):
CACCCATATGCATTTCAGCTATGGCATCATTTCATGCCAATAAAGCACCATATACATTATTCTTT
TAGGCCGATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAAAATG
Found at i:4810526 original size:33 final size:33
Alignment explanation
Indices: 4810484--4810546 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
4810474 CTATGGCATC
4810484 CTTTCATGCC-AAAATGCACCCATATGCATTATT
1 CTTTCATGCCGAAAATGCA-CCATATGCATTATT
* *
4810517 CTTTTATGCCGATAATGCACCATATGCATT
1 CTTTCATGCCGAAAATGCACCATATGCATT
4810547 TCAGCTATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
33 20 0.74
34 7 0.26
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.35
Consensus pattern (33 bp):
CTTTCATGCCGAAAATGCACCATATGCATTATT
Found at i:4810533 original size:78 final size:79
Alignment explanation
Indices: 4810371--4810652 Score: 426
Period size: 79 Copynumber: 3.6 Consensus size: 79
4810361 TTTCATTCCA
* * * * *
4810371 ATAATGCCCCCATATGCATTTCATCTGTGGCATCCTTTCATTCCAATAATGC-CACCATATACAT
1 ATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAATGCAC-CCATATGCAT
*
4810435 TATTCTTTTAGGCCG
65 TATTCTTTTATGCCG
* *
4810450 ATAATGCACCCATATGCATTTTATCTATGGCATCCTTTCATGCCAA-AATGCACCCATATGCATT
1 ATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAATGCACCCATATGCATT
4810514 ATTCTTTTATGCCG
66 ATTCTTTTATGCCG
*
4810528 ATAATGCA-CCATATGCATTTCAGCTATGACATCCTTTCATGCCAATAATGCACCCATATGCATT
1 ATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAATGCACCCATATGCATT
*
4810592 ATTCTTTTATACCG
66 ATTCTTTTATGCCG
* *
4810606 ATAATGCACCCATATGCATTTCAGCTATGTCATCCTTTCATACCAAT
1 ATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAAT
4810653 TTAATTATGA
Statistics
Matches: 188, Mismatches: 12, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
77 34 0.18
78 75 0.40
79 79 0.42
ACGTcount: A:0.28, C:0.27, G:0.11, T:0.35
Consensus pattern (79 bp):
ATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAATGCACCCATATGCATT
ATTCTTTTATGCCG
Found at i:4810576 original size:44 final size:44
Alignment explanation
Indices: 4810528--4810652 Score: 137
Period size: 34 Copynumber: 3.0 Consensus size: 44
4810518 TTTTATGCCG
*
4810528 ATAATGCA-CCATATGCATTTCAGCTATGACATCCTTTCATGCCA
1 ATAATGCACCCATATGCATTTCAGCTATG-CATCCTTTCATACCA
*
4810572 ATAATGCACCCATATGCA-TT-A--T-T-C-T--TTT-ATACCG
1 ATAATGCACCCATATGCATTTCAGCTATGCATCCTTTCATACCA
4810606 ATAATGCACCCATATGCATTTCAGCTATGTCATCCTTTCATACCA
1 ATAATGCACCCATATGCATTTCAGCTATG-CATCCTTTCATACCA
4810651 AT
1 AT
4810653 TTAATTATGA
Statistics
Matches: 66, Mismatches: 3, Indels: 23
0.72 0.03 0.25
Matches are distributed among these distances:
34 22 0.33
35 5 0.08
36 1 0.02
37 1 0.02
38 2 0.03
39 1 0.02
40 1 0.02
41 2 0.03
42 1 0.02
43 1 0.02
44 13 0.20
45 16 0.24
ACGTcount: A:0.30, C:0.26, G:0.10, T:0.34
Consensus pattern (44 bp):
ATAATGCACCCATATGCATTTCAGCTATGCATCCTTTCATACCA
Found at i:4811199 original size:21 final size:21
Alignment explanation
Indices: 4811142--4811214 Score: 71
Period size: 21 Copynumber: 3.6 Consensus size: 21
4811132 CAATGTTGCC
*
4811142 TGGTATCGATACC-CTTACCA
1 TGGTATCGATACCGCCTACCA
** *
4811162 TGGTATCGATATTGCCTACTA
1 TGGTATCGATACCGCCTACCA
* *
4811183 TGGTACCGATACCGCCTTCC-
1 TGGTATCGATACCGCCTACCA
4811203 T-GTATCGATACC
1 TGGTATCGATACC
4811215 AATTATAGAT
Statistics
Matches: 42, Mismatches: 10, Indels: 3
0.76 0.18 0.05
Matches are distributed among these distances:
19 10 0.24
20 12 0.29
21 20 0.48
ACGTcount: A:0.22, C:0.29, G:0.18, T:0.32
Consensus pattern (21 bp):
TGGTATCGATACCGCCTACCA
Found at i:4811211 original size:94 final size:93
Alignment explanation
Indices: 4811085--4811266 Score: 258
Period size: 94 Copynumber: 1.9 Consensus size: 93
4811075 GAATCTTCTA
* * *
4811085 TACTACGGTAACGATACCCACTTCCGGTTCGATACTAATTTTAGCTTCAATGTTGCCTGGTATCG
1 TACTACGGTAACGATACCCACTTCCGGTTCGATACCAATTATAGATTCAATGTTGCCTGGTATCG
4811150 ATACCCTTACCATGGTATCGATATTGCC
66 ATACCCTTACCATGGTATCGATATTGCC
* * * * **
4811178 TACTATGGTACCGATACCGC-CTTCCTGTATCGATACCAATTATAGATTCGATGTTTTCTGGTAT
1 TACTACGGTAACGATACC-CACTTCCGGT-TCGATACCAATTATAGATTCAATGTTGCCTGGTAT
4811242 CGATACCCTTACCATGGTATCGATA
64 CGATACCCTTACCATGGTATCGATA
4811267 CTACCTCATC
Statistics
Matches: 78, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
93 23 0.29
94 55 0.71
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (93 bp):
TACTACGGTAACGATACCCACTTCCGGTTCGATACCAATTATAGATTCAATGTTGCCTGGTATCG
ATACCCTTACCATGGTATCGATATTGCC
Found at i:4812586 original size:102 final size:102
Alignment explanation
Indices: 4812410--4812614 Score: 394
Period size: 102 Copynumber: 2.0 Consensus size: 102
4812400 TAGAAAACCC
4812410 CTTTAAACCAACCCCAAAGACAACCACAAAATACAAACAAAACAAAAAACCTTGTGCTATCATAT
1 CTTTAAACCAACCCCAAAGACAACCACAAAATACAAACAAAACAAAAAACCTTGTGCTATCATAT
4812475 ATCTGATTTAGCTAAACGATTAGCTTTCACATTTATG
66 ATCTGATTTAGCTAAACGATTAGCTTTCACATTTATG
4812512 CTTTAAAACCAACCCCAAAGACAACCAC-AAATACAAACAAAACAAAAAACCTTGTGCTATCATA
1 CTTT-AAACCAACCCCAAAGACAACCACAAAATACAAACAAAACAAAAAACCTTGTGCTATCATA
4812576 TATCTGATTTAGCTAAACGATTAGCTTTCACATTTATG
65 TATCTGATTTAGCTAAACGATTAGCTTTCACATTTATG
4812614 C
1 C
4812615 ATCTATTAAC
Statistics
Matches: 102, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
102 79 0.77
103 23 0.23
ACGTcount: A:0.43, C:0.24, G:0.08, T:0.25
Consensus pattern (102 bp):
CTTTAAACCAACCCCAAAGACAACCACAAAATACAAACAAAACAAAAAACCTTGTGCTATCATAT
ATCTGATTTAGCTAAACGATTAGCTTTCACATTTATG
Found at i:4812775 original size:2 final size:2
Alignment explanation
Indices: 4812768--4812811 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
4812758 ATTAACCATA
4812768 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4812810 AT
1 AT
4812812 CATTCTGTCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4813405 original size:36 final size:36
Alignment explanation
Indices: 4813326--4813464 Score: 183
Period size: 36 Copynumber: 3.9 Consensus size: 36
4813316 ATGAACAATC
* *
4813326 GAATCGAAAGTGCTGACGCTTCCTTCCGTTC-ACTT
1 GAATCGAAAGTGCCGATGCTTCCTTCCGTTCTACTT
* *
4813361 GAATCGAAAGTGCCGATGCTTCCTTTCGTTCTTCTT
1 GAATCGAAAGTGCCGATGCTTCCTTCCGTTCTACTT
*
4813397 GAATCGAAAGTGCCGATGCTTCCTTCCG-TCCACTTT
1 GAATCGAAAGTGCCGATGCTTCCTTCCGTTCTAC-TT
** *
4813433 GAATCGAAAGTGCTAATGCTTCCTTTCGTTCT
1 GAATCGAAAGTGCCGATGCTTCCTTCCGTTCT
4813465 TCTTATTCAC
Statistics
Matches: 90, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
35 31 0.34
36 57 0.63
37 2 0.02
ACGTcount: A:0.19, C:0.27, G:0.19, T:0.35
Consensus pattern (36 bp):
GAATCGAAAGTGCCGATGCTTCCTTCCGTTCTACTT
Found at i:4813462 original size:72 final size:71
Alignment explanation
Indices: 4813326--4813468 Score: 232
Period size: 72 Copynumber: 2.0 Consensus size: 71
4813316 ATGAACAATC
* * *
4813326 GAATCGAAAGTGCTGACGCTTCCTTCCGTTCACTTGAATCGAAAGTGCCGATGCTTCCTTTCGTT
1 GAATCGAAAGTGCCGACGCTTCCTTCCGTCCACTTGAATCGAAAGTGCCAATGCTTCCTTTCGTT
4813391 CTTCTT
66 CTTCTT
* *
4813397 GAATCGAAAGTGCCGATGCTTCCTTCCGTCCACTTTGAATCGAAAGTGCTAATGCTTCCTTTCGT
1 GAATCGAAAGTGCCGACGCTTCCTTCCGTCCAC-TTGAATCGAAAGTGCCAATGCTTCCTTTCGT
4813462 TCTTCTT
65 TCTTCTT
4813469 ATTCACCTTC
Statistics
Matches: 66, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
71 30 0.45
72 36 0.55
ACGTcount: A:0.19, C:0.27, G:0.19, T:0.36
Consensus pattern (71 bp):
GAATCGAAAGTGCCGACGCTTCCTTCCGTCCACTTGAATCGAAAGTGCCAATGCTTCCTTTCGTT
CTTCTT
Found at i:4813478 original size:24 final size:24
Alignment explanation
Indices: 4813451--4813516 Score: 105
Period size: 24 Copynumber: 2.8 Consensus size: 24
4813441 AGTGCTAATG
* *
4813451 CTTCCTTTCGTTCTTCTTATTCAC
1 CTTCATTTCTTTCTTCTTATTCAC
*
4813475 CTTCATTTATTTCTTCTTATTCAC
1 CTTCATTTCTTTCTTCTTATTCAC
4813499 CTTCATTTCTTTCTTCTT
1 CTTCATTTCTTTCTTCTT
4813517 CACCCTCTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.11, C:0.29, G:0.02, T:0.59
Consensus pattern (24 bp):
CTTCATTTCTTTCTTCTTATTCAC
Found at i:4816954 original size:45 final size:45
Alignment explanation
Indices: 4816861--4816956 Score: 106
Period size: 45 Copynumber: 2.1 Consensus size: 45
4816851 ATTCATTTTA
* * * * *
4816861 TTTATGGCATCCTTTCATGCCTTAATGTATCCTTTCATGCATTTT
1 TTTATGGCATCCTTTCATGCCATAATGTACCCATGCATGCATTCT
*
4816906 TTTATGGCATCCTTTCATGCCAATAAT-TCACCCATGCAT-TATTCT
1 TTTATGGCATCCTTTCATGCC-ATAATGT-ACCCATGCATGCATTCT
4816951 TTTATG
1 TTTATG
4816957 CCGATAATGC
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
45 32 0.74
46 11 0.26
ACGTcount: A:0.21, C:0.23, G:0.10, T:0.46
Consensus pattern (45 bp):
TTTATGGCATCCTTTCATGCCATAATGTACCCATGCATGCATTCT
Found at i:4817024 original size:31 final size:32
Alignment explanation
Indices: 4816989--4817054 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 32
4816979 TTCAGCTATA
4816989 GCATTA-TTTCATGCCAATAATGCACCCATAT
1 GCATTATTTTCATGCCAATAATGCACCCATAT
** *
4817020 GCATTATTCTTTTTTGCCGATAATGCACCCATAT
1 GCATTA-T-TTTCATGCCAATAATGCACCCATAT
4817054 G
1 G
4817055 AAATTCAACT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
31 6 0.21
34 23 0.79
ACGTcount: A:0.27, C:0.24, G:0.12, T:0.36
Consensus pattern (32 bp):
GCATTATTTTCATGCCAATAATGCACCCATAT
Found at i:4817040 original size:79 final size:79
Alignment explanation
Indices: 4816908--4817373 Score: 713
Period size: 79 Copynumber: 5.9 Consensus size: 79
4816898 TGCATTTTTT
* *
4816908 TATGGCATCCTTTCATGCCAATAATTCACCC--ATGCATTATTCTTTTATGCCGATAATGCACCC
1 TATGGCATCATTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCC
4816971 ATATGCATTTCAGC
66 ATATGCATTTCAGC
* * *
4816985 TATAGCATTATTTCATGCCAATAATGCACCCATATGCATTATTCTTTTTTGCCGATAATGCACCC
1 TATGGCATCATTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCC
* * *
4817050 ATATGAAATTCAAC
66 ATATGCATTTCAGC
* * *
4817064 TATGGCATCATTTCATGCCAATAATTCACCCATATGCATTATTCTTTTAGGCCAATAATGCACCC
1 TATGGCATCATTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCC
4817129 ATATGCATTTCAGC
66 ATATGCATTTCAGC
* * * *
4817143 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTAGGCGGATAATGCACTC
1 TATGGCATCATTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCC
*
4817208 ATATGCATTTTAGC
66 ATATGCATTTCAGC
* * *
4817222 TATGGCATCATTTCATGCCAATAATGCACCCATATGCATTATTCTCTTAGGCCAATAATGCACCC
1 TATGGCATCATTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCC
*
4817287 ATATGCATTTTAGC
66 ATATGCATTTCAGC
* *
4817301 TATGGCATCCTTTTATGCCAA-AATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCC
1 TATGGCATCATTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCC
4817365 ATATGCATT
66 ATATGCATT
4817374 ATTCTTTTAT
Statistics
Matches: 354, Mismatches: 33, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
77 27 0.08
78 49 0.14
79 278 0.79
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (79 bp):
TATGGCATCATTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCC
ATATGCATTTCAGC
Found at i:4817046 original size:34 final size:34
Alignment explanation
Indices: 4816999--4817441 Score: 339
Period size: 34 Copynumber: 11.8 Consensus size: 34
4816989 GCATTATTTC
4816999 ATGCCAATAATGCACCCATATGCATTATTCTTTT
1 ATGCCAATAATGCACCCATATGCATTATTCTTTT
* * *
4817033 TTGCCGATAATGCACCCATATGAAATTCAACTATGGCATCATTT
1 ATGCCAATAATGCACCCATATG-CATT--A-T-T--C-T--TTT
*
4817077 CATGCCAATAATTCACCCATATGCATTATTCTTTT
1 -ATGCCAATAATGCACCCATATGCATTATTCTTTT
*
4817112 AGGCCAATAATGCACCCATATGCATTTCAGCTATGGCATCCTTT
1 ATGCCAATAATGCACCCATATGCA-TT-A--T-T--C-T--TTT
4817156 CATGCCAATAATGCACCCATATGCATTATTCTTTT
1 -ATGCCAATAATGCACCCATATGCATTATTCTTTT
* ** *
4817191 AGGCGGATAATGCACTCATATGCATTTTAGCTATGGCATCATTT
1 ATGCCAATAATGCACCCATATGCA--TTA--T-T--C-T--TTT
*
4817235 CATGCCAATAATGCACCCATATGCATTATTCTCTT
1 -ATGCCAATAATGCACCCATATGCATTATTCTTTT
*
4817270 AGGCCAATAATGCACCCATATGCATTTTAGCTATGGCATCCTTTT
1 ATGCCAATAATGCACCCATATGCA---T---TAT----T-CTTTT
4817315 ATGCCAA-AATGCACCCATATGCATTATTCTTTT
1 ATGCCAATAATGCACCCATATGCATTATTCTTTT
*
4817348 ATGCCGATAATGCACCCATATGCATTATTCTTTT
1 ATGCCAATAATGCACCCATATGCATTATTCTTTT
**
4817382 ATGCTGATAATGCACCCATATGCATTATTCTTTT
1 ATGCCAATAATGCACCCATATGCATTATTCTTTT
* *
4817416 ATGCCGATAATGTACCCATATGCATT
1 ATGCCAATAATGCACCCATATGCATT
4817442 TCAGCTATGG
Statistics
Matches: 338, Mismatches: 26, Indels: 90
0.74 0.06 0.20
Matches are distributed among these distances:
33 11 0.03
34 169 0.50
35 13 0.04
36 4 0.01
37 5 0.01
38 9 0.03
39 3 0.01
40 6 0.02
41 7 0.02
42 4 0.01
43 4 0.01
44 31 0.09
45 72 0.21
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.35
Consensus pattern (34 bp):
ATGCCAATAATGCACCCATATGCATTATTCTTTT
Found at i:4817200 original size:158 final size:156
Alignment explanation
Indices: 4816908--4817486 Score: 813
Period size: 158 Copynumber: 3.8 Consensus size: 156
4816898 TGCATTTTTT
* * * *
4816908 TATGGCATCCTTTCATGCCAATAATTCACCC--ATGCATTATTCTTTTATGCCGATAATGCACCC
1 TATGGCATCATTTCATGCCAATAATGCACCCATATGCATTATTCTTTTAGGCCAATAATGCACCC
* ** *
4816971 ATATGCATTTCAGCTATAGCATTATTTCATGCCAATAATGCACCCATATGCATTATTCTTTTTTG
66 ATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATG
4817036 CCGATAATGCACCCATATGAAATTCAAC
131 CCGATAATGCACCCATATG-AATT-AAC
*
4817064 TATGGCATCATTTCATGCCAATAATTCACCCATATGCATTATTCTTTTAGGCCAATAATGCACCC
1 TATGGCATCATTTCATGCCAATAATGCACCCATATGCATTATTCTTTTAGGCCAATAATGCACCC
*
4817129 ATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTAGG
66 ATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATG
* * * *
4817194 CGGATAATGCACTCATATGCATTTTAGC
131 CCGATAATGCACCCATATG-A-ATTAAC
*
4817222 TATGGCATCATTTCATGCCAATAATGCACCCATATGCATTATTCTCTTAGGCCAATAATGCACCC
1 TATGGCATCATTTCATGCCAATAATGCACCCATATGCATTATTCTTTTAGGCCAATAATGCACCC
* *
4817287 ATATGCATTTTAGCTATGGCATCCTTTTATGCCAA-AATGCACCCATATGCATTATTCTTTTATG
66 ATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATG
*
4817351 CCGATAATGCACCCATATGCATT-A-
131 CCGATAATGCACCCATATGAATTAAC
** * * *
4817375 T-T--C-T--TTT-ATGCTGATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGTACCC
1 TATGGCATCATTTCATGCCAATAATGCACCCATATGCATTATTCTTTTAGGCCAATAATGCACCC
* *
4817433 ATATGCATTTCAGCTATGGCATCCTTTTATACCAATAATGCACCCATATGCATT
66 ATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAATGCACCCATATGCATT
4817487 TCAGCTATGG
Statistics
Matches: 388, Mismatches: 31, Indels: 17
0.89 0.07 0.04
Matches are distributed among these distances:
146 78 0.20
147 21 0.05
149 1 0.00
150 1 0.00
152 1 0.00
153 1 0.00
155 2 0.01
156 30 0.08
157 45 0.12
158 206 0.53
159 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.35
Consensus pattern (156 bp):
TATGGCATCATTTCATGCCAATAATGCACCCATATGCATTATTCTTTTAGGCCAATAATGCACCC
ATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATG
CCGATAATGCACCCATATGAATTAAC
Found at i:4817439 original size:112 final size:111
Alignment explanation
Indices: 4817159--4817486 Score: 274
Period size: 112 Copynumber: 2.9 Consensus size: 111
4817149 ATCCTTTCAT
* * * ***
4817159 GCCAATAATGCACCCATATGCATTATTCTTTTAGGCGGATAATGCACTCATATGCATTTTAGCTA
1 GCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATG-ACCCATATGCACCATAGCTA
4817224 TGGCATCATTTCATGCCAATAATGCACCCATATGCATTATTCTCTTAG
65 T-GCATCATTTCATGCCAATAATGCACCCATATGCATTATTCTCTTAG
** ** * * *
4817272 GCCAATAATGCACCCATATGCATT-TTAGCTATGGCAT-CCTTTTATG-CCAAAATGCACCCATA
1 GCCAATAATGCACCCATATGCATTATT--CT-T-TTATGCCGATAATGACCCATATGCA-CCATA
* * * * *
4817334 TGC-AT-TATTC-TTTTATGCCGATAATGCACCCATATGCATTATTCTTTTAT
61 -GCTATGCA-TCATTTCATGCCAATAATGCACCCATATGCATTATTCTCTTAG
** **
4817384 GCTGATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGTACCCATATGCA-TTTCAGCT
1 GCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATG-ACCCATATGCACCAT-AGCT
* * *
4817448 ATGGCATCCTTTTATACCAATAATGCACCCATATGCATT
64 AT-GCATCATTTCATGCCAATAATGCACCCATATGCATT
4817487 TCAGCTATGG
Statistics
Matches: 167, Mismatches: 32, Indels: 32
0.72 0.14 0.14
Matches are distributed among these distances:
109 2 0.01
110 10 0.06
111 5 0.03
112 71 0.43
113 64 0.38
114 6 0.04
115 8 0.05
116 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (111 bp):
GCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGACCCATATGCACCATAGCTAT
GCATCATTTCATGCCAATAATGCACCCATATGCATTATTCTCTTAG
Found at i:4817958 original size:22 final size:22
Alignment explanation
Indices: 4817927--4817982 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
4817917 ACTACTACCC
*
4817927 TGGTATCGATACTTCTATAATA
1 TGGTACCGATACTTCTATAATA
4817949 TGGTACCGATACTTCTATAATA
1 TGGTACCGATACTTCTATAATA
*
4817971 TGGTACTGATAC
1 TGGTACCGATAC
4817983 CCCCTTCCGG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (22 bp):
TGGTACCGATACTTCTATAATA
Found at i:4818090 original size:95 final size:95
Alignment explanation
Indices: 4817978--4818152 Score: 260
Period size: 95 Copynumber: 1.8 Consensus size: 95
4817968 ATATGGTACT
* * * * *
4817978 GATACCCCCTTCCGGTATCGATACTAATTTTAGCTTCGATATTGCCTGGTATTGATACCCTTACC
1 GATACCCCCTTCCGGTATCGATACCAATTTTAGATTCGATATTGCCTAGTATCGATAACCTTACC
**
4818043 CTGGTATCGATACTACCATACTATAGTATC
66 AAGGTATCGATACTACCATACTATAGTATC
* * *
4818073 GATACCCCCTTCCGGTATCGATACCAATTTTAGATTCGATGTTGTCTAGTATCGATAACCTTTCC
1 GATACCCCCTTCCGGTATCGATACCAATTTTAGATTCGATATTGCCTAGTATCGATAACCTTACC
4818138 AAGGTATCGATACTA
66 AAGGTATCGATACTA
4818153 TGCCATCGGA
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
95 70 1.00
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.34
Consensus pattern (95 bp):
GATACCCCCTTCCGGTATCGATACCAATTTTAGATTCGATATTGCCTAGTATCGATAACCTTACC
AAGGTATCGATACTACCATACTATAGTATC
Found at i:4818696 original size:3 final size:3
Alignment explanation
Indices: 4818690--4818714 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
4818680 ACACCAACGT
4818690 GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA G
4818715 TGTAGGAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:4820836 original size:20 final size:20
Alignment explanation
Indices: 4820811--4820887 Score: 67
Period size: 20 Copynumber: 4.0 Consensus size: 20
4820801 TCAGATTGTT
4820811 CAGGGGGTACAGATTCCCCC
1 CAGGGGGTACAGATTCCCCC
4820831 CAGGGGGTATC-GATT--CCC
1 CAGGGGGTA-CAGATTCCCCC
*
4820849 C---GGGAACAGATTCTCCCC
1 CAGGGGGTACAGATTC-CCCC
*
4820867 TCAGGGGGTACATATTCCCCC
1 -CAGGGGGTACAGATTCCCCC
4820888 AGTATGGTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 17
0.69 0.05 0.26
Matches are distributed among these distances:
14 1 0.02
15 8 0.18
18 7 0.16
19 1 0.02
20 13 0.29
21 5 0.11
22 10 0.22
ACGTcount: A:0.19, C:0.34, G:0.27, T:0.19
Consensus pattern (20 bp):
CAGGGGGTACAGATTCCCCC
Found at i:4820954 original size:21 final size:22
Alignment explanation
Indices: 4820920--4820960 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
4820910 TAACAGATTA
4820920 CTTGAAGGGAACCGATTCCCCC
1 CTTGAAGGGAACCGATTCCCCC
*
4820942 CTTG-AGGGTACCGATTCCC
1 CTTGAAGGGAACCGATTCCC
4820961 TCACTGTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.20, C:0.34, G:0.24, T:0.22
Consensus pattern (22 bp):
CTTGAAGGGAACCGATTCCCCC
Found at i:4822217 original size:19 final size:20
Alignment explanation
Indices: 4822193--4822240 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
4822183 AATGATTTTC
*
4822193 TTTTGAAAACAAAAAT-AGA
1 TTTTGAAAACAAAAATGAAA
* *
4822212 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
4822232 TTTTGAAAA
1 TTTTGAAAA
4822241 AGGATTTAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.29
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:4823692 original size:19 final size:20
Alignment explanation
Indices: 4823653--4823728 Score: 83
Period size: 20 Copynumber: 4.0 Consensus size: 20
4823643 ATCAGATTGT
4823653 CCAGGGGGTACAGATTCCCC
1 CCAGGGGGTACAGATTCCCC
4823673 CCAGGGGGTATC-GATT--CC
1 CCAGGGGGTA-CAGATTCCCC
*
4823691 CC---GGGAACAGATTCCCC
1 CCAGGGGGTACAGATTCCCC
*
4823708 CCAGGAGGTACAGATTCCCC
1 CCAGGGGGTACAGATTCCCC
4823728 C
1 C
4823729 TGTATGGTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 14
0.73 0.05 0.22
Matches are distributed among these distances:
14 1 0.02
15 8 0.17
17 4 0.09
18 4 0.09
20 28 0.61
21 1 0.02
ACGTcount: A:0.21, C:0.36, G:0.28, T:0.16
Consensus pattern (20 bp):
CCAGGGGGTACAGATTCCCC
Found at i:4823865 original size:21 final size:21
Alignment explanation
Indices: 4823839--4823880 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
4823829 TATTTGAATA
4823839 TTATGAAGGGGTA-TCGATTCC
1 TTATGAAGGGGTACT-GATTCC
4823860 TTATGAAGGGGTACTGATTCC
1 TTATGAAGGGGTACTGATTCC
4823881 CCCCATTCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.24, C:0.14, G:0.29, T:0.33
Consensus pattern (21 bp):
TTATGAAGGGGTACTGATTCC
Found at i:4823943 original size:21 final size:21
Alignment explanation
Indices: 4823910--4823949 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
4823900 TGTTTGCAAA
*
4823910 AAAATCATTCCCAAACGGCTCC
1 AAAATCA-TCCCCAACGGCTCC
4823932 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCCAACGGCT
4823950 AGATATGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 2 0.12
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCCAACGGCTCC
Found at i:4825107 original size:19 final size:20
Alignment explanation
Indices: 4825083--4825130 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
4825073 AACGATTTTC
*
4825083 TTTTGAAAGCAAAAAT-AGA
1 TTTTGAAAGCAAAAATGAAA
*
4825102 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAGCAAAAATGAAA
4825122 TTTTGAAAG
1 TTTTGAAAG
4825131 AGGATTTAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 15 0.58
20 11 0.42
ACGTcount: A:0.48, C:0.06, G:0.17, T:0.29
Consensus pattern (20 bp):
TTTTGAAAGCAAAAATGAAA
Found at i:4826188 original size:15 final size:15
Alignment explanation
Indices: 4826170--4826200 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
4826160 AAAAGATTAG
4826170 AGTCTTTTTGATTTA
1 AGTCTTTTTGATTTA
4826185 AGTCTTTTTGATTTA
1 AGTCTTTTTGATTTA
4826200 A
1 A
4826201 CAAAAAGGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.06, G:0.13, T:0.58
Consensus pattern (15 bp):
AGTCTTTTTGATTTA
Found at i:4826635 original size:19 final size:20
Alignment explanation
Indices: 4826596--4826671 Score: 92
Period size: 20 Copynumber: 4.0 Consensus size: 20
4826586 ATCAGATTGT
4826596 CCAGGGGGTACAGATTCCCC
1 CCAGGGGGTACAGATTCCCC
4826616 CCAGGGGGTATC-GATT--CC
1 CCAGGGGGTA-CAGATTCCCC
*
4826634 CC---GGGAACAGATTCCCC
1 CCAGGGGGTACAGATTCCCC
4826651 CCAGGGGGTACAGATTCCCC
1 CCAGGGGGTACAGATTCCCC
4826671 C
1 C
4826672 TGTATGGTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
14 1 0.02
15 8 0.17
17 4 0.09
18 4 0.09
20 29 0.62
21 1 0.02
ACGTcount: A:0.20, C:0.36, G:0.29, T:0.16
Consensus pattern (20 bp):
CCAGGGGGTACAGATTCCCC
Found at i:4826809 original size:21 final size:21
Alignment explanation
Indices: 4826783--4826824 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
4826773 ATTTGAATAT
4826783 TATGAAGGGGTA-TCGATTCCC
1 TATGAAGGGGTACT-GATTCCC
4826804 TATGAAGGGGTACTGATTCCC
1 TATGAAGGGGTACTGATTCCC
4826825 CCCATTCTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.29
Consensus pattern (21 bp):
TATGAAGGGGTACTGATTCCC
Found at i:4829735 original size:21 final size:21
Alignment explanation
Indices: 4829709--4829750 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
4829699 ATTTGAATAT
4829709 TATGAAGGGGTA-TCGATTCCC
1 TATGAAGGGGTACT-GATTCCC
4829730 TATGAAGGGGTACTGATTCCC
1 TATGAAGGGGTACTGATTCCC
4829751 CCCATTCTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.29
Consensus pattern (21 bp):
TATGAAGGGGTACTGATTCCC
Found at i:4832469 original size:20 final size:20
Alignment explanation
Indices: 4832444--4832520 Score: 76
Period size: 20 Copynumber: 4.0 Consensus size: 20
4832434 ATCATATTGT
*
4832444 CCAGGGGGTATAGATTCCCC
1 CCAGGGGGTACAGATTCCCC
4832464 CCAGGGGGTATC-GATT--CC
1 CCAGGGGGTA-CAGATTCCCC
*
4832482 CC---GGGAACAGATTCTCCC
1 CCAGGGGGTACAGATTC-CCC
4832500 CCAGGGGGTACAGATTCCCC
1 CCAGGGGGTACAGATTCCCC
4832520 C
1 C
4832521 TTGTATGGTT
Statistics
Matches: 46, Mismatches: 3, Indels: 16
0.71 0.05 0.25
Matches are distributed among these distances:
14 1 0.02
15 8 0.17
18 8 0.17
20 18 0.39
21 11 0.24
ACGTcount: A:0.19, C:0.34, G:0.29, T:0.18
Consensus pattern (20 bp):
CCAGGGGGTACAGATTCCCC
Found at i:4832737 original size:21 final size:21
Alignment explanation
Indices: 4832704--4832743 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
4832694 TTTTTGCAGA
*
4832704 AAAATCATTCCCAAACGGCTCC
1 AAAATCA-TCCCCAACGGCTCC
4832726 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCCAACGGCT
4832744 AGATATGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 2 0.12
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCCAACGGCTCC
Found at i:4833626 original size:15 final size:16
Alignment explanation
Indices: 4833599--4833629 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
4833589 TTAAGTTAAA
4833599 TAAAATACTTTCATTT
1 TAAAATACTTTCATTT
4833615 TAAAAT-CTTTCATTT
1 TAAAATACTTTCATTT
4833630 CCTTCTTGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.35, C:0.13, G:0.00, T:0.52
Consensus pattern (16 bp):
TAAAATACTTTCATTT
Found at i:4835588 original size:26 final size:26
Alignment explanation
Indices: 4835519--4835591 Score: 86
Period size: 26 Copynumber: 3.0 Consensus size: 26
4835509 CGTTAACTTT
4835519 CATTTTATTTATGGCATCCTTTCATG
1 CATTTTATTTATGGCATCCTTTCATG
* *
4835545 C--CTTA---AT-GCATCATTTCATG
1 CATTTTATTTATGGCATCCTTTCATG
4835565 CATTTTATTTATGGCATCCTTTCATG
1 CATTTTATTTATGGCATCCTTTCATG
4835591 C
1 C
4835592 CAATAATGCA
Statistics
Matches: 37, Mismatches: 4, Indels: 12
0.70 0.08 0.23
Matches are distributed among these distances:
20 13 0.35
21 2 0.05
22 3 0.08
24 3 0.08
25 2 0.05
26 14 0.38
ACGTcount: A:0.21, C:0.22, G:0.11, T:0.47
Consensus pattern (26 bp):
CATTTTATTTATGGCATCCTTTCATG
Found at i:4835626 original size:34 final size:34
Alignment explanation
Indices: 4835583--4836120 Score: 225
Period size: 34 Copynumber: 13.9 Consensus size: 34
4835573 TTATGGCATC
*
4835583 CTTTCATGCCAATAATGCACCCATATGCATTATT
1 CTTTTATGCCAATAATGCACCCATATGCATTATT
*
4835617 CTTTTATGCCAATAATGCACCCATTTGCATTTCAACTAT
1 CTTTTATGCCAATAATGCACCCATATGCA-TT--A-T-T
* **
4835656 GGCATCCTTTCATGACAATAACACACCCATATGCATTATT
1 --C-T--TTT-ATGCCAATAATGCACCCATATGCATTATT
* * *
4835696 CTTTTATGTCGATAATGCACCCATATGTATTTCAGCTAT
1 CTTTTATGCCAATAATGCACCCATATGCA-TT-A--T-T
* *
4835735 GGCACCCTTTCATGCCAATAATGCACCCATTTGCATTATT
1 ------CTTTTATGCCAATAATGCACCCATATGCATTATT
* *
4835775 CTTTTAGGCCGATAATGCACCCATATGCATTTCTACTAT
1 CTTTTATGCCAATAATGCACCCATATGCA--T-TA-T-T
* * * *
4835814 GGCCTCATTTCATTCTAATAATGTACCCATATACATTATT
1 ---CT--TTT-ATGCCAATAATGCACCCATATGCATTATT
* * * *
4835854 CTGTTAAGCCGATAATGCACCCATATTCATTTCAACTAT
1 CTTTTATGCCAATAATGCACCCATATGCA-TT--A-T-T
4835893 GGCATCCTTTCATGCCAATAATGCACCCATATGCATTATT
1 --C-T--TTT-ATGCCAATAATGCACCCATATGCATTATT
*
4835933 CTTTTAGGCCGAA-AATGCACCCATATGCATTTTAGCTAT
1 CTTTTATGCC-AATAATGCACCCATATGCA--TTA--T-T
4835972 GGCATCATTTCATGCCAA-AATGCACCCATATGCATTATT
1 --C-T--TTT-ATGCCAATAATGCACCCATATGCATTATT
* *
4836011 CTTTTATGTCGATAATGCACCCATATGCATTTCAGCTAT
1 CTTTTATGCCAATAATGCACCCATATGCA-TT-A--T-T
4836050 GGCATCCTTTCATGCCAATAATGCACCCATATGCATTATT
1 --C-T--TTT-ATGCCAATAATGCACCCATATGCATTATT
* * *
4836090 CTTTTATGCCGATACTGCATCCATATGCATT
1 CTTTTATGCCAATAATGCACCCATATGCATT
4836121 TTAGCTATGG
Statistics
Matches: 390, Mismatches: 46, Indels: 136
0.68 0.08 0.24
Matches are distributed among these distances:
33 5 0.01
34 151 0.39
35 21 0.05
36 7 0.02
37 10 0.03
38 9 0.02
39 7 0.02
40 6 0.02
41 9 0.02
42 13 0.03
43 3 0.01
44 40 0.10
45 109 0.28
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (34 bp):
CTTTTATGCCAATAATGCACCCATATGCATTATT
Found at i:4835694 original size:79 final size:79
Alignment explanation
Indices: 4835574--4836145 Score: 860
Period size: 79 Copynumber: 7.3 Consensus size: 79
4835564 GCATTTTATT
*
4835574 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCAATAATGCACCC
1 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCC
* *
4835639 ATTTGCATTTCAAC
66 ATATGCATTTCAGC
* ** *
4835653 TATGGCATCCTTTCATGACAATAACACACCCATATGCATTATTCTTTTATGTCGATAATGCACCC
1 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCC
*
4835718 ATATGTATTTCAGC
66 ATATGCATTTCAGC
* * *
4835732 TATGGCACCCTTTCATGCCAATAATGCACCCATTTGCATTATTCTTTTAGGCCGATAATGCACCC
1 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCC
4835797 ATATGCATTTCTA-C
66 ATATGCATTTC-AGC
* * * * * * * *
4835811 TATGGCCTCATTTCATTCTAATAATGTACCCATATACATTATTCTGTTAAGCCGATAATGCACCC
1 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCC
* *
4835876 ATATTCATTTCAAC
66 ATATGCATTTCAGC
* *
4835890 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTAGGCCGAAAATGCACCC
1 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCC
*
4835955 ATATGCATTTTAGC
66 ATATGCATTTCAGC
* *
4835969 TATGGCATCATTTCATGCCAA-AATGCACCCATATGCATTATTCTTTTATGTCGATAATGCACCC
1 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCC
4836033 ATATGCATTTCAGC
66 ATATGCATTTCAGC
* *
4836047 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATACTGCATCC
1 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCC
*
4836112 ATATGCATTTTAGC
66 ATATGCATTTCAGC
4836126 TATGGCATCCTTTCATGCCA
1 TATGGCATCCTTTCATGCCA
4836146 CTTTAATTAT
Statistics
Matches: 441, Mismatches: 49, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
78 74 0.17
79 366 0.83
80 1 0.00
ACGTcount: A:0.27, C:0.26, G:0.12, T:0.35
Consensus pattern (79 bp):
TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCC
ATATGCATTTCAGC
Found at i:4835994 original size:44 final size:43
Alignment explanation
Indices: 4835944--4836145 Score: 156
Period size: 34 Copynumber: 5.0 Consensus size: 43
4835934 TTTTAGGCCG
4835944 AAAATGCACCCATATGCATTTTAGCTATGGCATCATTTCATGCC
1 AAAATGCACCCATATGCATTTTAGCTATGGCATC-TTTCATGCC
*
4835988 AAAATGCACCCATATGCA--TTA--T-T--C-T-TTT-ATGTCG
1 AAAATGCACCCATATGCATTTTAGCTATGGCATCTTTCATG-CC
* *
4836022 ATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCC
1 AAAATGCACCCATATGCATTTTAGCTATGGCAT-CTTTCATGCC
4836066 AATAATGCACCCATATGCA--TTA--T-T--C-T-TTT-ATGCC
1 AA-AATGCACCCATATGCATTTTAGCTATGGCATCTTTCATGCC
* * *
4836100 GATACTGCATCCATATGCATTTTAGCTATGGCATCCTTTCATGCC
1 -AAAATGCACCCATATGCATTTTAGCTATGGCAT-CTTTCATGCC
4836145 A
1 A
4836146 CTTTAATTAT
Statistics
Matches: 124, Mismatches: 9, Indels: 50
0.68 0.05 0.27
Matches are distributed among these distances:
33 3 0.02
34 40 0.32
35 4 0.03
36 6 0.05
37 2 0.02
38 3 0.02
39 3 0.02
40 2 0.02
41 3 0.02
42 5 0.04
43 2 0.02
44 27 0.22
45 24 0.19
ACGTcount: A:0.27, C:0.25, G:0.13, T:0.35
Consensus pattern (43 bp):
AAAATGCACCCATATGCATTTTAGCTATGGCATCTTTCATGCC
Found at i:4836663 original size:20 final size:21
Alignment explanation
Indices: 4836638--4836690 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
4836628 TGATGTTGCC
*
4836638 TGGTATCGATAC-CCTTACCA
1 TGGTATCGATACACCATACCA
* *
4836658 TGGTATTGATACTACCATACTA
1 TGGTATCGATAC-ACCATACCA
4836680 TGGTATCGATA
1 TGGTATCGATA
4836691 ACCCCTTCCG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 11 0.41
22 16 0.59
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (21 bp):
TGGTATCGATACACCATACCA
Found at i:4836683 original size:95 final size:95
Alignment explanation
Indices: 4836569--4836783 Score: 242
Period size: 95 Copynumber: 2.3 Consensus size: 95
4836559 ACCCTGGTAC
* * * * * * * *
4836569 CGATACTTCTATACTATGGTA-CTGAT-ACCCCATTCTGATATTGATTCTAATTTTAGCTTTGAT
1 CGATACTACCATACTATGGTATC-GATAACCCC-TTCCGATATCGATACCAATTTTAGATTCGAT
* *
4836632 GTTGCCTGGTATCGATACCCTTACCATGGTAT
64 GTTGCCTAGTATCGATACCCTTACCATCGTAT
* * *
4836664 TGATACTACCATACTATGGTATCGATAACCCCTTCCGGTATCGGTACCAATTTTAGATTCGATGT
1 CGATACTACCATACTATGGTATCGATAACCCCTTCCGATATCGATACCAATTTTAGATTCGATGT
*
4836729 TGTCTAGTATCGATACCCTTACCATCGTAT
66 TGCCTAGTATCGATACCCTTACCATCGTAT
4836759 CGATACTACC-T-C-ATCGGTATCGATA
1 CGATACTACCATACTAT-GGTATCGATA
4836784 CTACTCAACT
Statistics
Matches: 102, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
92 2 0.02
93 11 0.11
94 1 0.01
95 82 0.80
96 6 0.06
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (95 bp):
CGATACTACCATACTATGGTATCGATAACCCCTTCCGATATCGATACCAATTTTAGATTCGATGT
TGCCTAGTATCGATACCCTTACCATCGTAT
Found at i:4841378 original size:31 final size:32
Alignment explanation
Indices: 4841343--4841409 Score: 91
Period size: 34 Copynumber: 2.1 Consensus size: 32
4841333 TCATGCCTTA
4841343 ATGCATCA-TTTCATGTCGATAATGCACCCAT
1 ATGCATCATTTTCATGTCGATAATGCACCCAT
* *
4841374 ATGCATTATTCTTTTATGTCGATAATGCACCCAT
1 ATGCATCA-T-TTTCATGTCGATAATGCACCCAT
4841408 AT
1 AT
4841410 ACATTTCAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
31 7 0.23
34 24 0.77
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.37
Consensus pattern (32 bp):
ATGCATCATTTTCATGTCGATAATGCACCCAT
Found at i:4841939 original size:20 final size:20
Alignment explanation
Indices: 4841914--4841969 Score: 58
Period size: 22 Copynumber: 2.7 Consensus size: 20
4841904 CGATGTTGCC
*
4841914 TGGTATCGATACCCTTACCA
1 TGGTATCGATACCCATACCA
* *
4841934 TGGTATTGATACTACCATACTA
1 TGGTATCGATAC--CCATACCA
*
4841956 TGGTACCGATACCC
1 TGGTATCGATACCC
4841970 CCTTCCGATA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
20 13 0.45
22 16 0.55
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.30
Consensus pattern (20 bp):
TGGTATCGATACCCATACCA
Found at i:4841986 original size:95 final size:95
Alignment explanation
Indices: 4841821--4842044 Score: 306
Period size: 95 Copynumber: 2.4 Consensus size: 95
4841811 AAGCTCAATA
* * * * * *
4841821 GTATCGATACTAC-TACCCTGGTATCGATACTTCTATACTATGGTATCGATACCCCATTCCGGTA
1 GTATCGATAC-CCTTACCATGGTATCGATACTACCATACTATGGTACCGATACCCCATTCCGATA
* * *
4841885 TTGATACTAAATTTAGCTTCGATGTTGCCTG
65 TCGATACCAAATTTAGATTCGATGTTGCCTG
* *
4841916 GTATCGATACCCTTACCATGGTATTGATACTACCATACTATGGTACCGATACCCCCTTCCGATAT
1 GTATCGATACCCTTACCATGGTATCGATACTACCATACTATGGTACCGATACCCCATTCCGATAT
*
4841981 CGATACCAATTTTAGATTCGATGTTGCCTG
66 CGATACCAAATTTAGATTCGATGTTGCCTG
* *
4842011 GTATTGATACCCTTACCATGATATCGATACTACC
1 GTATCGATACCCTTACCATGGTATCGATACTACC
4842045 TCATCGGTAT
Statistics
Matches: 113, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
94 1 0.01
95 112 0.99
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (95 bp):
GTATCGATACCCTTACCATGGTATCGATACTACCATACTATGGTACCGATACCCCATTCCGATAT
CGATACCAAATTTAGATTCGATGTTGCCTG
Found at i:4843510 original size:84 final size:84
Alignment explanation
Indices: 4843401--4843570 Score: 304
Period size: 84 Copynumber: 2.0 Consensus size: 84
4843391 GTAACAACCT
** **
4843401 TACCTTTGTGCATAAGCACGTTTTCTAAACCGTTGATATATGCATTAGTAAAAACCACATAATCC
1 TACCTTTGTGCATAAGCACACTTTCTAAACAATTGATATATGCATTAGTAAAAACCACATAATCC
4843466 TTACCCAACTCAAGTTGTA
66 TTACCCAACTCAAGTTGTA
4843485 TACCTTTGTGCATAAGCACACTTTCTAAACAATTGATATATGCATTAGTAAAAACCACATAATCC
1 TACCTTTGTGCATAAGCACACTTTCTAAACAATTGATATATGCATTAGTAAAAACCACATAATCC
4843550 TTACCCAACTCAAGTTGTA
66 TTACCCAACTCAAGTTGTA
4843569 TA
1 TA
4843571 AACAAGGTAT
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
84 82 1.00
ACGTcount: A:0.35, C:0.22, G:0.11, T:0.32
Consensus pattern (84 bp):
TACCTTTGTGCATAAGCACACTTTCTAAACAATTGATATATGCATTAGTAAAAACCACATAATCC
TTACCCAACTCAAGTTGTA
Found at i:4846438 original size:21 final size:21
Alignment explanation
Indices: 4846414--4846467 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
4846404 ATACCTTCGT
4846414 TGCATTTGCATTTTTACATTC
1 TGCATTTGCATTTTTACATTC
* *
4846435 TGCATTTGAATATTTACATTC
1 TGCATTTGCATTTTTACATTC
*
4846456 TGAATTTGCATT
1 TGCATTTGCATT
4846468 GCAACTATTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.24, C:0.15, G:0.11, T:0.50
Consensus pattern (21 bp):
TGCATTTGCATTTTTACATTC
Found at i:4861141 original size:21 final size:20
Alignment explanation
Indices: 4861102--4861142 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
4861092 GAATCACCAA
*
4861102 ATTTCTCCATTTAATTACCT
1 ATTTCTCCATTTAACTACCT
*
4861122 ATTTCGTCCATTTAGCTACCT
1 ATTTC-TCCATTTAACTACCT
4861143 TGTCATTCGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.27, G:0.05, T:0.46
Consensus pattern (20 bp):
ATTTCTCCATTTAACTACCT
Found at i:4862602 original size:12 final size:12
Alignment explanation
Indices: 4862581--4862610 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
4862571 AGGAGTATGC
4862581 GAAAAATAGAGA
1 GAAAAATAGAGA
*
4862593 GAAAACTAGAGA
1 GAAAAATAGAGA
4862605 GAAAAA
1 GAAAAA
4862611 AAAAAGATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.67, C:0.03, G:0.23, T:0.07
Consensus pattern (12 bp):
GAAAAATAGAGA
Found at i:4866445 original size:41 final size:41
Alignment explanation
Indices: 4866400--4866480 Score: 144
Period size: 41 Copynumber: 2.0 Consensus size: 41
4866390 ACCACCTTAA
* *
4866400 ATTTAATTATGATTCAAATTAAGTAATAATATATAAAAACT
1 ATTTAATTACGATTCAAATTAAGTAACAATATATAAAAACT
4866441 ATTTAATTACGATTCAAATTAAGTAACAATATATAAAAAC
1 ATTTAATTACGATTCAAATTAAGTAACAATATATAAAAAC
4866481 ATAAATAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.52, C:0.07, G:0.05, T:0.36
Consensus pattern (41 bp):
ATTTAATTACGATTCAAATTAAGTAACAATATATAAAAACT
Found at i:4867841 original size:28 final size:28
Alignment explanation
Indices: 4867810--4867863 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
4867800 GAATCCATGA
*
4867810 TTATATTATGTATTTCATTTTCCTCTAC
1 TTATATTATGTATTTCATTTGCCTCTAC
4867838 TTATATTATGTATTTCATTTGCCTCT
1 TTATATTATGTATTTCATTTGCCTCT
4867864 GCTTCTATGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.20, C:0.17, G:0.06, T:0.57
Consensus pattern (28 bp):
TTATATTATGTATTTCATTTGCCTCTAC
Found at i:4870668 original size:19 final size:20
Alignment explanation
Indices: 4870644--4870690 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
4870634 AATGCAGTAC
4870644 AGAAAATAGA-AG-AAAAACA
1 AGAAAATA-ATAGAAAAAACA
4870663 AGAAAA-AATAGAAAAAACA
1 AGAAAATAATAGAAAAAACA
4870682 A-AAAATAAT
1 AGAAAATAAT
4870691 TCAAAAAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 1 0.04
18 7 0.28
19 17 0.68
ACGTcount: A:0.77, C:0.04, G:0.11, T:0.09
Consensus pattern (20 bp):
AGAAAATAATAGAAAAAACA
Found at i:4870696 original size:19 final size:19
Alignment explanation
Indices: 4870656--4870698 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
4870646 AAAATAGAAG
*
4870656 AAAAACAAGAAAAAATAGA
1 AAAAACAAGAAAAAATACA
*
4870675 AAAAACAA-AAAATAATTCA
1 AAAAACAAGAAAA-AATACA
4870694 AAAAA
1 AAAAA
4870699 TGTTATTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.79, C:0.07, G:0.05, T:0.09
Consensus pattern (19 bp):
AAAAACAAGAAAAAATACA
Found at i:4872448 original size:17 final size:18
Alignment explanation
Indices: 4872426--4872467 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
4872416 ATACCATAGT
4872426 ATGGTA-GTATCGATACC
1 ATGGTAGGTATCGATACC
4872443 ATGGTAAGGGTATCGATACC
1 ATGGT-A-GGTATCGATACC
4872463 A-GGTA
1 ATGGTA
4872468 ACATCGAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 5 0.23
18 2 0.09
19 3 0.14
20 12 0.55
ACGTcount: A:0.31, C:0.14, G:0.29, T:0.26
Consensus pattern (18 bp):
ATGGTAGGTATCGATACC
Found at i:4872457 original size:20 final size:20
Alignment explanation
Indices: 4872408--4872468 Score: 79
Period size: 22 Copynumber: 3.0 Consensus size: 20
4872398 ATACTTAAAG
* *
4872408 GGGTATCGATACCATAGTAT
1 GGGTATCGATACCATGGTAA
4872428 GGTAGTATCGATACCATGGTAA
1 GG--GTATCGATACCATGGTAA
4872450 GGGTATCGATACCA-GGTAA
1 GGGTATCGATACCATGGTAA
4872469 CATCGAACTT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
19 5 0.14
20 14 0.38
22 18 0.49
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.26
Consensus pattern (20 bp):
GGGTATCGATACCATGGTAA
Found at i:4872502 original size:94 final size:94
Alignment explanation
Indices: 4872336--4872555 Score: 257
Period size: 94 Copynumber: 2.3 Consensus size: 94
4872326 ACCAGCGAGT
* *
4872336 TAGTATCGATACCATGGTAAGGGTAT-GAATACCAGGAAACATCAAATCTAAAATTGGTATCGAT
1 TAGTATCGATACCATGGTAAGGGTATCG-ATACCAGGAAACATCAAATCTAAAATGGGTACCGAT
** *
4872400 ACTTAAAGGGGTATCGATACCATAGTATGG
65 ACCAAAAGGGGTATCGATACCATAGTATAG
* * * *
4872430 TAGTATCGATACCATGGTAAGGGTATCGATACCAGGTAACATCGAA-CTTCAAATGGGTACCGGT
1 TAGTATCGATACCATGGTAAGGGTATCGATACCAGGAAACATCAAATC-TAAAATGGGTACCGAT
* *
4872494 ACCAAAAGGGGTATCGGTACCGTAGTATAG
65 ACCAAAAGGGGTATCGATACCATAGTATAG
* * * *
4872524 AAGTATCGGTACAATGGT-AGTAGTATCGATAC
1 TAGTATCGATACCATGGTAAG-GGTATCGATAC
4872556 TATTAAACTT
Statistics
Matches: 108, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
93 3 0.03
94 104 0.96
95 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (94 bp):
TAGTATCGATACCATGGTAAGGGTATCGATACCAGGAAACATCAAATCTAAAATGGGTACCGATA
CCAAAAGGGGTATCGATACCATAGTATAG
Found at i:4872967 original size:56 final size:56
Alignment explanation
Indices: 4872881--4873396 Score: 658
Period size: 56 Copynumber: 9.2 Consensus size: 56
4872871 CCAAATAGGT
* *
4872881 ACTATGTGTGCAAAACCACAGAATTCATCATGAGTTGATGAATAACCGTATATGGC
1 ACTATGTGTGCAAAACCACAGAATTCATCATGAGTTGATGAATAACCGTACAGGGC
* *
4872937 ACTATGTGTGCAAAACCACAGAATTCATCATGAGTTGATGAATAACTGTATAGGGC
1 ACTATGTGTGCAAAACCACAGAATTCATCATGAGTTGATGAATAACCGTACAGGGC
* * * *
4872993 ACTATGTATGGAAAACCACAAAATTCATCATGAGTTAATGAATAACCGTACCA-GGC
1 ACTATGTGTGCAAAACCACAGAATTCATCATGAGTTGATGAATAACCGTA-CAGGGC
* * * * * *
4873049 ACTATGTGTGGAAAACCACAAAATTCATCATGTGTTGATTAATAACCGTATAGGGA
1 ACTATGTGTGCAAAACCACAGAATTCATCATGAGTTGATGAATAACCGTACAGGGC
* * * ** *
4873105 ACTATGTTTGCAAAACCAAAAAAATTCATCATGAGTTGATGAATAACAATACATGGC
1 ACTATGTGTGCAAAACC-ACAGAATTCATCATGAGTTGATGAATAACCGTACAGGGC
* * *
4873162 AATATCTGTGCAAAACCACAGAATTCATAATGAGTTGATGAATAACCGTACAGGGC
1 ACTATGTGTGCAAAACCACAGAATTCATCATGAGTTGATGAATAACCGTACAGGGC
* * ** * *
4873218 ACTACGTATGCAAAACCATGGAATTCATCATGAGTTGATGAATAACTGTACAGAGC
1 ACTATGTGTGCAAAACCACAGAATTCATCATGAGTTGATGAATAACCGTACAGGGC
* * *
4873274 ACTATGTGTTCAAAACCACCGAATTAATCATGAGTTGATGAATAACCGTACAGGGC
1 ACTATGTGTGCAAAACCACAGAATTCATCATGAGTTGATGAATAACCGTACAGGGC
* * * * *
4873330 ACTATGTGTGCAAATCCACAGAATTTATCATGAATTGATGAATAACCGTATA-GGA
1 ACTATGTGTGCAAAACCACAGAATTCATCATGAGTTGATGAATAACCGTACAGGGC
*
4873385 ACTATGGGTGCA
1 ACTATGTGTGCA
4873397 TCTCAATAAA
Statistics
Matches: 399, Mismatches: 58, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
55 14 0.04
56 339 0.85
57 46 0.12
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.26
Consensus pattern (56 bp):
ACTATGTGTGCAAAACCACAGAATTCATCATGAGTTGATGAATAACCGTACAGGGC
Found at i:4873320 original size:225 final size:224
Alignment explanation
Indices: 4872881--4873375 Score: 695
Period size: 225 Copynumber: 2.2 Consensus size: 224
4872871 CCAAATAGGT
** * * *
4872881 ACTATGTGTGCAAAACCACAGAATTCATCATGAGTTGATGAATAACCGTATATGGCACTATGTGT
1 ACTATGTGTGCAAAACCACAGAATTCATCATGAGTTGATGAATAACAATACATGGCAATATCTGT
* * * * *
4872946 GCAAAACCACAGAATTCATCATGAGTTGATGAATAACTGTATAGGGCACTATGTATGGAAAACCA
66 GCAAAACCACAGAATTCATAATGAGTTGATGAATAACCGTACAGGGCACTACGTATGCAAAACCA
* *
4873011 CAAAATTCATCATGAGTTAATGAATAACCGTACCAGGCACTATGTGTGGAAAACCACAAAATTCA
131 CAAAATTCATCATGAGTTAATGAATAACCGTACCAGGCACTATGTGTGCAAAACCACAAAATTAA
* * *
4873076 TCATGTGTTGATTAATAACCGTATAGGGA
196 TCATGAGTTGATGAATAACCGTACAGGGA
* * *
4873105 ACTATGTTTGCAAAACCAAAAAAATTCATCATGAGTTGATGAATAACAATACATGGCAATATCTG
1 ACTATGTGTGCAAAACC-ACAGAATTCATCATGAGTTGATGAATAACAATACATGGCAATATCTG
4873170 TGCAAAACCACAGAATTCATAATGAGTTGATGAATAACCGTACAGGGCACTACGTATGCAAAACC
65 TGCAAAACCACAGAATTCATAATGAGTTGATGAATAACCGTACAGGGCACTACGTATGCAAAACC
*** * * * **
4873235 ATGGAATTCATCATGAGTTGATGAATAACTGTA-CAGAGCACTATGTGTTCAAAACCACCGAATT
130 ACAAAATTCATCATGAGTTAATGAATAACCGTACCAG-GCACTATGTGTGCAAAACCACAAAATT
*
4873299 AATCATGAGTTGATGAATAACCGTACAGGGC
194 AATCATGAGTTGATGAATAACCGTACAGGGA
* * *
4873330 ACTATGTGTGCAAATCCACAGAATTTATCATGAATTGATGAATAAC
1 ACTATGTGTGCAAAACCACAGAATTCATCATGAGTTGATGAATAAC
4873376 CGTATAGGAA
Statistics
Matches: 236, Mismatches: 33, Indels: 4
0.86 0.12 0.01
Matches are distributed among these distances:
224 44 0.19
225 192 0.81
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.26
Consensus pattern (224 bp):
ACTATGTGTGCAAAACCACAGAATTCATCATGAGTTGATGAATAACAATACATGGCAATATCTGT
GCAAAACCACAGAATTCATAATGAGTTGATGAATAACCGTACAGGGCACTACGTATGCAAAACCA
CAAAATTCATCATGAGTTAATGAATAACCGTACCAGGCACTATGTGTGCAAAACCACAAAATTAA
TCATGAGTTGATGAATAACCGTACAGGGA
Found at i:4878158 original size:94 final size:94
Alignment explanation
Indices: 4877994--4878198 Score: 252
Period size: 94 Copynumber: 2.2 Consensus size: 94
4877984 CAGTGAGATT
* * **
4877994 GTATCGATACCATGGTAAGGGTATGGATACTAGGAAACATCGAATCTAAAACTGGTATCGATAGT
1 GTATCGATACCATGGTAAGGGTATCGATACCAGGAAACATCGAATCTAAAACTGGTATCGATACC
* * *
4878059 GAAAGGGGCATCAATACCATAGTATGGTA
66 AAAAGGGGCATCAATACCATAGTATAGAA
* * *
4878088 GTATCGATACCATGGTAAGGGTATCTATACCA-GATAACATCGAA-CTTAAATTGGGTATCGATA
1 GTATCGATACCATGGTAAGGGTATCGATACCAGGA-AACATCGAATCTAAAACT-GGTATCGATA
* *
4878151 CCAAAAGGGGTATCAGTACCATAGTATAGAA
64 CCAAAAGGGGCATCAATACCATAGTATAGAA
* *
4878182 GTATTGGTACCATGGTA
1 GTATCGATACCATGGTA
4878199 GTAGTATCGA
Statistics
Matches: 95, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
93 8 0.08
94 87 0.92
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.26
Consensus pattern (94 bp):
GTATCGATACCATGGTAAGGGTATCGATACCAGGAAACATCGAATCTAAAACTGGTATCGATACC
AAAAGGGGCATCAATACCATAGTATAGAA
Found at i:4878626 original size:56 final size:56
Alignment explanation
Indices: 4878536--4879152 Score: 778
Period size: 56 Copynumber: 10.9 Consensus size: 56
4878526 CCAAATAGGA
* * * *
4878536 ACTAAGTGTGCAAAATCACAGAATTCATCATGAGTTGATGAATAACCGTACAGGGA
1 ACTATGTGTGCAAAACCAAAGAATTCATCATGAGTTGATGAATAACCGTACAGGGC
* * *
4878592 ACTATGTGTGCAAAACCAAAGAATTCGTCCTGAGTTGATGAATAACCGTACA-AGC
1 ACTATGTGTGCAAAACCAAAGAATTCATCATGAGTTGATGAATAACCGTACAGGGC
4878647 ACTATGTGTGCAAAACCACAA-AATTCATCATGAGTTGATGAATAACCGTACAGGCGTACAGGGC
1 ACTATGTGTGCAAAACCA-AAGAATTCATCATGAGTTGATGAAT-A----AC---CGTACAGGGC
* * *
4878711 ACTATGTTTGCGAAACCATAGAATTCATCATGAGTTGATGAATAACCGTACAGGGC
1 ACTATGTGTGCAAAACCAAAGAATTCATCATGAGTTGATGAATAACCGTACAGGGC
* * * *
4878767 ACTATGTGTGCAAAACC-ACGATATTCATCATAAGTTAATGAATAACCCGTACATGGC
1 ACTATGTGTGCAAAACCAAAGA-ATTCATCATGAGTTGATGAATAA-CCGTACAGGGC
* *
4878824 ACTATGTGTGCAAAACCACAGAATTCATCATGTGTTGATGAATAACCGTACAGGGC
1 ACTATGTGTGCAAAACCAAAGAATTCATCATGAGTTGATGAATAACCGTACAGGGC
*
4878880 ACTATGTGTGCAAAACCACAGAATTCATCATGAGTTGATGAATAACCGTACAGGGC
1 ACTATGTGTGCAAAACCAAAGAATTCATCATGAGTTGATGAATAACCGTACAGGGC
* * *
4878936 ACTATGTGTACAAAGCCACAA-AATTCATCATGAGTAGATGAATAACCGTACAGGGC
1 ACTATGTGTGCAAAACCA-AAGAATTCATCATGAGTTGATGAATAACCGTACAGGGC
* * * * * *
4878992 ACTAAGTGTGCAAAACC-ATGAAATTTATGACGAGTTGATGAATAACCATACAGGGC
1 ACTATGTGTGCAAAACCAAAG-AATTCATCATGAGTTGATGAATAACCGTACAGGGC
* * * *
4879048 ACTATGTGTGCAAAACCACATAATTCATCATGAGTTGATGAATAACCATACAGAGC
1 ACTATGTGTGCAAAACCAAAGAATTCATCATGAGTTGATGAATAACCGTACAGGGC
* **
4879104 ACTATGTGTGCAAATCCACGGAATTCATCATGAGTT-ATGAATAACCGTA
1 ACTATGTGTGCAAAACCAAAGAATTCATCATGAGTTGATGAATAACCGTA
4879153 TAGGAACTAT
Statistics
Matches: 491, Mismatches: 52, Indels: 37
0.85 0.09 0.06
Matches are distributed among these distances:
54 1 0.00
55 53 0.11
56 335 0.68
57 48 0.10
58 2 0.00
59 2 0.00
60 2 0.00
63 8 0.02
64 40 0.08
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (56 bp):
ACTATGTGTGCAAAACCAAAGAATTCATCATGAGTTGATGAATAACCGTACAGGGC
Found at i:4883935 original size:16 final size:15
Alignment explanation
Indices: 4883910--4883939 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
4883900 TATTCTTGAA
4883910 TTATTTTTTAATATT
1 TTATTTTTTAATATT
4883925 TTATATTTTTAATAT
1 TTAT-TTTTTAATAT
4883940 AATATCATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTATTTTTTAATATT
Found at i:4886788 original size:39 final size:39
Alignment explanation
Indices: 4886743--4886834 Score: 157
Period size: 39 Copynumber: 2.4 Consensus size: 39
4886733 ACTTTTAAGA
*
4886743 ACTCTTAAATTCACAGTAAAACACTCTAACTCCCAAAAG
1 ACTCTTAAATTCACAATAAAACACTCTAACTCCCAAAAG
* *
4886782 ACTCTTAAATTCACAATAAAACACTCTAACTCGCAAGAG
1 ACTCTTAAATTCACAATAAAACACTCTAACTCCCAAAAG
4886821 ACTCTTAAATTCAC
1 ACTCTTAAATTCAC
4886835 CCCTAAAATA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 50 1.00
ACGTcount: A:0.42, C:0.27, G:0.05, T:0.25
Consensus pattern (39 bp):
ACTCTTAAATTCACAATAAAACACTCTAACTCCCAAAAG
Found at i:4886807 original size:22 final size:21
Alignment explanation
Indices: 4886743--4886808 Score: 59
Period size: 22 Copynumber: 3.2 Consensus size: 21
4886733 ACTTTTAAGA
4886743 ACTCTTAAATTCACAGTAAAAC
1 ACTCTTAAATTCACA-TAAAAC
* * *
4886765 ACTC-T-AACTC-C-CAAAAG
1 ACTCTTAAATTCACATAAAAC
4886782 ACTCTTAAATTCACAATAAAAC
1 ACTCTTAAATTCAC-ATAAAAC
4886804 ACTCT
1 ACTCT
4886809 AACTCGCAAG
Statistics
Matches: 33, Mismatches: 6, Indels: 10
0.67 0.12 0.20
Matches are distributed among these distances:
17 8 0.24
18 1 0.03
19 5 0.15
20 5 0.15
21 1 0.03
22 13 0.39
ACGTcount: A:0.44, C:0.27, G:0.03, T:0.26
Consensus pattern (21 bp):
ACTCTTAAATTCACATAAAAC
Found at i:4892059 original size:32 final size:32
Alignment explanation
Indices: 4892018--4892155 Score: 190
Period size: 32 Copynumber: 4.4 Consensus size: 32
4892008 TAGTTGGCAT
*
4892018 GACATATGGATATGATTACTTATGTCCTTCGG
1 GACATATGGATATGATTACCTATGTCCTTCGG
* *
4892050 GACATATGGATGTGATTACTTATGTCCTTCGG
1 GACATATGGATATGATTACCTATGTCCTTCGG
* *
4892082 GACATATGGACAGGATTACCTATGTCCTTCGG
1 GACATATGGATATGATTACCTATGTCCTTCGG
* *
4892114 GACATATGGACA--ATTACCTATGTTCTTCGG
1 GACATATGGATATGATTACCTATGTCCTTCGG
*
4892144 AACATATGGATA
1 GACATATGGATA
4892156 GGTCATTCGG
Statistics
Matches: 98, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
30 27 0.28
32 71 0.72
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.33
Consensus pattern (32 bp):
GACATATGGATATGATTACCTATGTCCTTCGG
Found at i:4895284 original size:2 final size:2
Alignment explanation
Indices: 4895277--4895342 Score: 132
Period size: 2 Copynumber: 33.0 Consensus size: 2
4895267 GAATTATTTG
4895277 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4895319 AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT
4895343 GTATGTATGT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 64 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4895955 original size:32 final size:32
Alignment explanation
Indices: 4895914--4896016 Score: 161
Period size: 32 Copynumber: 3.2 Consensus size: 32
4895904 TAGTTGGCAT
*
4895914 GACATATGGATATGATTACTTATGTCCTTCGG
1 GACATATGGATATGATTACCTATGTCCTTCGG
* * *
4895946 GACATATGGATAGGATTACCTATGTCATTCAG
1 GACATATGGATATGATTACCTATGTCCTTCGG
*
4895978 GACATATGGACATGATTACCTATGTCCTTCGG
1 GACATATGGATATGATTACCTATGTCCTTCGG
4896010 GACATAT
1 GACATAT
4896017 AGTATAACTT
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 63 1.00
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.33
Consensus pattern (32 bp):
GACATATGGATATGATTACCTATGTCCTTCGG
Found at i:4896443 original size:32 final size:32
Alignment explanation
Indices: 4896400--4896491 Score: 148
Period size: 32 Copynumber: 2.9 Consensus size: 32
4896390 AAGAGTCAAG
* * * *
4896400 GATTACATATGTCCTTCAGGACATATGGATAT
1 GATTACCTATGTCCTTCGGGACATATGGACAA
4896432 GATTACCTATGTCCTTCGGGACATATGGACAA
1 GATTACCTATGTCCTTCGGGACATATGGACAA
4896464 GATTACCTATGTCCTTCGGGACATATGG
1 GATTACCTATGTCCTTCGGGACATATGG
4896492 GCAGCTACCT
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 56 1.00
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.32
Consensus pattern (32 bp):
GATTACCTATGTCCTTCGGGACATATGGACAA
Found at i:4896456 original size:473 final size:476
Alignment explanation
Indices: 4895530--4896489 Score: 1509
Period size: 473 Copynumber: 2.0 Consensus size: 476
4895520 GATTATATGA
* *
4895530 ACATATAGTATAACTTTATGAGGAAGACTTAGGTGTTATATGATTTAGGTACGGAGATGATATAT
1 ACATATAGTATAACTTTATGAGGAAGACTTAGGTGTAATATGATTTAGGTACGGAAATGATATAT
4895595 GGGTAAGTGAATTACGTAACTATGTGACTATGTGTGAAATAGAGTAAACTATATAATTATAAAGT
66 GGGTAAGTGAATTACGTAACTATGTGACTATGTGTGAAATAGAGTAAACTATATAATTATAAAGT
* * * * *
4895660 ATTTGAATATATGTATATAAGATAAGCCACGTGACAATAAGCTAGGTGAAATTAAGTTATGATAA
131 ATGTGAATATATGTAAATAAGATAAGCCACGTGACAATAAGCTAAGTGAAATTAAGTGATGAGAA
** * * *
4895725 TAATATAACAAGAATTTTTAAGAGCATATGCTTATAAGAAGATATAAGAACAAGTTATAAGCCAT
196 TAATATAACAAGAAGCTATAAAAGCATATGCTTAT----A-ATATAAGAACAAGTTATAAGCAAT
* *
4895790 GTGATATGTGATTTATATGAAAATGTTCTACGTGCAAGTGATCTACATATGTATGTGAATGTGTG
256 GTGATATGTGATTTATATGAAAATGTTCTACGTGCAAGTGATCTACATATGCATGTGAATATGTG
4895855 AAATGATAAAAGATAATGCCCATGTTATGTGTCCTGAGAGCTAGAGGTATAGTTGGCATGACATA
321 AAATGATAAAAGATAATGCCCATGTTATGTGTCCTGAGAGCTAGAGGTATAGTTGGCATGACATA
* * *
4895920 TGGATATGATTACTTATGTCCTTCGGGACATATGGATAGGATTACCTATGTCATTCAGGACATAT
386 TGGATAGGATTACATATGTCCTTCAGGACATATGGATAGGATTACCTATGTCATTCAGGACATAT
*
4895985 GGACATGATTACCTATGTCCTTCGGG
451 GGACAAGATTACCTATGTCCTTCGGG
*
4896011 ACATATAGTATAACTTTATGAGGAAGACTTAGGTGTAATATGATTTAGGTATGGAAATGATATAT
1 ACATATAGTATAACTTTATGAGGAAGACTTAGGTGTAATATGATTTAGGTACGGAAATGATATAT
*
4896076 GGGTAAGTGAATTACGTAACTATGTGACTATGTGTGAAATGGAGTAAACTATATAATTATAAAGT
66 GGGTAAGTGAATTACGTAACTATGTGACTATGTGTGAAATAGAGTAAACTATATAATTATAAAGT
* * * *
4896141 ATGTGTATATATGTAAATAAGATAAGCCACGTGACTATGAGCTAAGTGAAATTAAGTGATTAGAA
131 ATGTGAATATATGTAAATAAGATAAGCCACGTGACAATAAGCTAAGTGAAATTAAGTGATGAGAA
*
4896206 TGATATAACAAGAAGCTATAAAAGCATATG-TT-T-ATATAAGAACAAGTTATAAGCAATGTGAT
196 TAATATAACAAGAAGCTATAAAAGCATATGCTTATAATATAAGAACAAGTTATAAGCAATGTGAT
* * * *
4896268 ATGTGATTTATATGAAAATGTTTTACGTGCAAGTGGTCTACGTGTGCATGTGAATATGTGAAATG
261 ATGTGATTTATATGAAAATGTTCTACGTGCAAGTGATCTACATATGCATGTGAATATGTGAAATG
*
4896333 ATAAAAGATAATGCCCATGTTATGTGTCCTGAGAGCTAGAGGTATAGTTGGCATGCCA-A--GAG
326 ATAAAAGATAATGCCCATGTTATGTGTCCTGAGAGCTAGAGGTATAGTTGGCATGACATATGGA-
* * *
4896395 TCAAGGATTACATATGTCCTTCAGGACATATGGATATGATTACCTATGTCCTTCGGGACATATGG
390 T--AGGATTACATATGTCCTTCAGGACATATGGATAGGATTACCTATGTCATTCAGGACATATGG
4896460 ACAAGATTACCTATGTCCTTCGGG
453 ACAAGATTACCTATGTCCTTCGGG
4896484 ACATAT
1 ACATAT
4896490 GGGCAGCTAC
Statistics
Matches: 443, Mismatches: 33, Indels: 14
0.90 0.07 0.03
Matches are distributed among these distances:
470 2 0.00
471 1 0.00
472 1 0.00
473 229 0.52
479 1 0.00
480 2 0.00
481 207 0.47
ACGTcount: A:0.36, C:0.10, G:0.22, T:0.32
Consensus pattern (476 bp):
ACATATAGTATAACTTTATGAGGAAGACTTAGGTGTAATATGATTTAGGTACGGAAATGATATAT
GGGTAAGTGAATTACGTAACTATGTGACTATGTGTGAAATAGAGTAAACTATATAATTATAAAGT
ATGTGAATATATGTAAATAAGATAAGCCACGTGACAATAAGCTAAGTGAAATTAAGTGATGAGAA
TAATATAACAAGAAGCTATAAAAGCATATGCTTATAATATAAGAACAAGTTATAAGCAATGTGAT
ATGTGATTTATATGAAAATGTTCTACGTGCAAGTGATCTACATATGCATGTGAATATGTGAAATG
ATAAAAGATAATGCCCATGTTATGTGTCCTGAGAGCTAGAGGTATAGTTGGCATGACATATGGAT
AGGATTACATATGTCCTTCAGGACATATGGATAGGATTACCTATGTCATTCAGGACATATGGACA
AGATTACCTATGTCCTTCGGG
Found at i:4901535 original size:39 final size:39
Alignment explanation
Indices: 4901408--4901528 Score: 181
Period size: 39 Copynumber: 3.1 Consensus size: 39
4901398 ACTTTGACGA
* *
4901408 ACTCTTAAATTCACAATAAAACACTATATA-TCCCAAAAG
1 ACTCCTAAATTCACAATAAAACACTCTA-ACTCCCAAAAG
*
4901447 ACTCCTAAATTGACAATAAAAACACTCTAACTCCCAAAAG
1 ACTCCTAAATTCACAAT-AAAACACTCTAACTCCCAAAAG
*
4901487 ACTCCTAAATTCACAATAAAACACTCTAACTCCCAAGAG
1 ACTCCTAAATTCACAATAAAACACTCTAACTCCCAAAAG
4901526 ACT
1 ACT
4901529 GTTAAATCCC
Statistics
Matches: 75, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
39 40 0.53
40 35 0.47
ACGTcount: A:0.46, C:0.27, G:0.04, T:0.22
Consensus pattern (39 bp):
ACTCCTAAATTCACAATAAAACACTCTAACTCCCAAAAG
Found at i:4904700 original size:50 final size:50
Alignment explanation
Indices: 4904645--4904741 Score: 194
Period size: 50 Copynumber: 1.9 Consensus size: 50
4904635 GCACTTCATC
4904645 AAAGTTAAAATCCGTGGTATGAGAGCACTTTAAGAAGGAAAAGATTATCA
1 AAAGTTAAAATCCGTGGTATGAGAGCACTTTAAGAAGGAAAAGATTATCA
4904695 AAAGTTAAAATCCGTGGTATGAGAGCACTTTAAGAAGGAAAAGATTA
1 AAAGTTAAAATCCGTGGTATGAGAGCACTTTAAGAAGGAAAAGATTA
4904742 CCAATGAGTG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.44, C:0.09, G:0.23, T:0.24
Consensus pattern (50 bp):
AAAGTTAAAATCCGTGGTATGAGAGCACTTTAAGAAGGAAAAGATTATCA
Found at i:4911136 original size:5 final size:5
Alignment explanation
Indices: 4911128--4911154 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
4911118 AAATTAAATT
4911128 AATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AA
4911155 AATATGATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:4911343 original size:39 final size:38
Alignment explanation
Indices: 4911271--4911471 Score: 150
Period size: 38 Copynumber: 5.3 Consensus size: 38
4911261 CGTTTTAAAA
*
4911271 ATATTATATAAGTTTTCAAAAAAAATGTTTTTAAAACTAT
1 ATATTATATAA--TTTCACAAAAAATGTTTTTAAAACTAT
4911311 ATATTATATAATTTCACAAAAAATGTTTTTTAAAACTAT
1 ATATTATATAATTTCACAAAAAATG-TTTTTAAAACTAT
* ** *
4911350 ATACTATAT-ATGTTTTC--AAAATGTTTTAAAAACTAT
1 ATATTATATAAT-TTCACAAAAAATGTTTTTAAAACTAT
* *
4911386 ATAATATATAAACGGTTT--C--AAAATGTTTTCAAAACTAT
1 ATATTATAT-AA---TTTCACAAAAAATGTTTTTAAAACTAT
* * **
4911424 ATATTATATATATTTTA-AAAATAT-TTTCAAAAACTAT
1 ATATTATATA-ATTTCACAAAAAATGTTTTTAAAACTAT
*
4911461 ATAATATATAA
1 ATATTATATAA
4911472 ATTTTCGAAA
Statistics
Matches: 137, Mismatches: 12, Indels: 28
0.77 0.07 0.16
Matches are distributed among these distances:
35 3 0.02
36 21 0.15
37 27 0.20
38 48 0.35
39 24 0.18
40 13 0.09
41 1 0.01
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.42
Consensus pattern (38 bp):
ATATTATATAATTTCACAAAAAATGTTTTTAAAACTAT
Found at i:4911371 original size:75 final size:71
Alignment explanation
Indices: 4911291--4911471 Score: 211
Period size: 75 Copynumber: 2.4 Consensus size: 71
4911281 AGTTTTCAAA
* * *
4911291 AAAAATGTTTTTAAAACTATATATTATATAA-TTTCACAAAAAATGTTTTTTAAAACTATATACT
1 AAAAATGTTTTAAAAACTATATAATATATAAGTTT--C--AAAATG-TTTTCAAAACTATATACT
*
4911355 ATATATGTTTT
61 ATATATATTTT
* *
4911366 CAAAATGTTTTAAAAACTATATAATATATAAACGGTTTCAAAATGTTTTCAAAACTATATATTAT
1 AAAAATGTTTTAAAAACTATATAATATAT-AA--GTTTCAAAATGTTTTCAAAACTATATACTAT
4911431 ATATATTTT
63 ATATATTTT
*
4911440 AAAAATATTTTCAAAAACTATATAATATATAA
1 AAAAATGTTTT-AAAAACTATATAATATATAA
4911472 ATTTTCGAAA
Statistics
Matches: 93, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
74 37 0.40
75 50 0.54
76 2 0.02
77 1 0.01
79 3 0.03
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.42
Consensus pattern (71 bp):
AAAAATGTTTTAAAAACTATATAATATATAAGTTTCAAAATGTTTTCAAAACTATATACTATATA
TATTTT
Found at i:4911502 original size:75 final size:72
Alignment explanation
Indices: 4911337--4911537 Score: 201
Period size: 74 Copynumber: 2.7 Consensus size: 72
4911327 CAAAAAATGT
* * * *
4911337 TTTTTAAAACTATATACTATATATGTTTTCAAAATGTTTTAAAAACTATATAATATATAAACGGT
1 TTTTCAAAACTATATA-TATATATATTTTAAAAATATTTTAAAAACTATATAATATATAAAC-GT
*
4911402 TTCAAAATG
64 TTCAAAATA
*
4911411 TTTTCAAAACTATATATTATATATATTTTAAAAATATTTTCAAAAACTATATAATATATAAA-TT
1 TTTTCAAAACTATATA-TATATATATTTTAAAAATATTTT-AAAAACTATATAATATATAAACGT
4911475 TTCGAAAATCA
64 TTC-AAAAT-A
* * *
4911486 TTTTCTGAAAATTATATAT-TATAT-TTTGTCAAAAACATTTTTACAAACTATA
1 TTTTC--AAAACTATATATATATATATTT-T-AAAAATA-TTTTAAAAACTATA
4911538 ATAAAAAACA
Statistics
Matches: 109, Mismatches: 10, Indels: 14
0.82 0.08 0.11
Matches are distributed among these distances:
73 4 0.04
74 43 0.39
75 32 0.29
76 16 0.15
77 14 0.13
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.43
Consensus pattern (72 bp):
TTTTCAAAACTATATATATATATATTTTAAAAATATTTTAAAAACTATATAATATATAAACGTTT
CAAAATA
Found at i:4912656 original size:20 final size:20
Alignment explanation
Indices: 4912633--4912680 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
4912623 GAATATGTAA
*
4912633 ATCGCATCGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
4912653 ATCGCAACGGGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
4912673 GTCGCAAC
1 ATCGCAAC
4912681 ACTGAATTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:4915812 original size:18 final size:18
Alignment explanation
Indices: 4915789--4915828 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
4915779 AGAAAAAGGT
*
4915789 AATCAAAATCGCAATCAA
1 AATCAAAATCCCAATCAA
*
4915807 AATCAAAATCCCAATCAC
1 AATCAAAATCCCAATCAA
4915825 AATC
1 AATC
4915829 GGCTTCACCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.53, C:0.28, G:0.03, T:0.17
Consensus pattern (18 bp):
AATCAAAATCCCAATCAA
Found at i:4916023 original size:20 final size:20
Alignment explanation
Indices: 4916000--4916089 Score: 144
Period size: 20 Copynumber: 4.5 Consensus size: 20
4915990 TTCATTTTAA
*
4916000 TATCGCAACACGAATTTGAC
1 TATCGCAACGCGAATTTGAC
4916020 TATCGCAACGCGAATTTGAC
1 TATCGCAACGCGAATTTGAC
* *
4916040 TATCGCAACGTGAATTTGAT
1 TATCGCAACGCGAATTTGAC
*
4916060 TATCGCAACGGGAATTTGAC
1 TATCGCAACGCGAATTTGAC
4916080 TATCGCAACG
1 TATCGCAACG
4916090 AGAAAATCGC
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 65 1.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (20 bp):
TATCGCAACGCGAATTTGAC
Found at i:4916191 original size:20 final size:20
Alignment explanation
Indices: 4916128--4916205 Score: 102
Period size: 20 Copynumber: 3.9 Consensus size: 20
4916118 GCAACGCGAA
*
4916128 TTGACTTTCGCGTTGCGATT
1 TTGACTTTCGCATTGCGATT
*
4916148 TTGGCTTTCGCATTGCGATT
1 TTGACTTTCGCATTGCGATT
*
4916168 TTGACTTTCGCATTGTGATT
1 TTGACTTTCGCATTGCGATT
* * *
4916188 TTGAGTTTAGCGTTGCGA
1 TTGACTTTCGCATTGCGA
4916206 AAGTGTGCCT
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.13, C:0.17, G:0.26, T:0.45
Consensus pattern (20 bp):
TTGACTTTCGCATTGCGATT
Found at i:4917740 original size:21 final size:21
Alignment explanation
Indices: 4917683--4917743 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
4917673 CCTCTTCAAC
*
4917683 GATGATAGAGGCCTCTTGAACG
1 GATGATAGGGGCCTCTTG-ACG
* * * *
4917705 G-TGAGAGGTGACTCTTGAGG
1 GATGATAGGGGCCTCTTGACG
4917725 GATGATAGGGGCCTCTTGA
1 GATGATAGGGGCCTCTTGA
4917744 ACGATAGGAG
Statistics
Matches: 30, Mismatches: 8, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
20 3 0.10
21 26 0.87
22 1 0.03
ACGTcount: A:0.23, C:0.15, G:0.38, T:0.25
Consensus pattern (21 bp):
GATGATAGGGGCCTCTTGACG
Found at i:4918276 original size:20 final size:20
Alignment explanation
Indices: 4918251--4918294 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
4918241 AATAGTTTCT
*
4918251 GAAACTTATAATCGCAACAC
1 GAAACTTAAAATCGCAACAC
*
4918271 GAAACTTAAAATCGCAACGC
1 GAAACTTAAAATCGCAACAC
4918291 GAAA
1 GAAA
4918295 ATGACTATCG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.48, C:0.23, G:0.14, T:0.16
Consensus pattern (20 bp):
GAAACTTAAAATCGCAACAC
Found at i:4918304 original size:20 final size:20
Alignment explanation
Indices: 4918281--4918348 Score: 91
Period size: 20 Copynumber: 3.4 Consensus size: 20
4918271 GAAACTTAAA
4918281 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* * *
4918301 ATCGCGATGCGGAAATGACT
1 ATCGCAACGCGAAAATGACT
**
4918321 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
4918341 ATCGCAAC
1 ATCGCAAC
4918349 AAGATAATCG
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.34, C:0.25, G:0.22, T:0.19
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:4918378 original size:19 final size:20
Alignment explanation
Indices: 4918354--4918392 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
4918344 GCAACAAGAT
*
4918354 AATCGCAATGCGAAA-TAAA
1 AATCGCAACGCGAAACTAAA
4918373 AATCGCAACGCGAAACTAAA
1 AATCGCAACGCGAAACTAAA
4918393 TTCGCGTTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.51, C:0.21, G:0.15, T:0.13
Consensus pattern (20 bp):
AATCGCAACGCGAAACTAAA
Found at i:4918459 original size:33 final size:34
Alignment explanation
Indices: 4918397--4918469 Score: 94
Period size: 33 Copynumber: 2.2 Consensus size: 34
4918387 ACTAAATTCG
* * *
4918397 CGTTGCGATTTTCATTATCGCATTGCGATTTTCA
1 CGTTGCAATTTTCATTATCACATTGCGATTATCA
* *
4918431 CGTTGCAATTTTTATT-TCACATTGCGATTATCC
1 CGTTGCAATTTTCATTATCACATTGCGATTATCA
4918464 CGTTGC
1 CGTTGC
4918470 GATAGTCAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 20 0.59
34 14 0.41
ACGTcount: A:0.18, C:0.22, G:0.16, T:0.44
Consensus pattern (34 bp):
CGTTGCAATTTTCATTATCACATTGCGATTATCA
Found at i:4918489 original size:20 final size:20
Alignment explanation
Indices: 4918464--4918512 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
4918454 GCGATTATCC
4918464 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
** *
4918484 CGTTGCGATAGTCATTTTTG
1 CGTTGCGATAGTCAAATTCG
4918504 CGTTGCGAT
1 CGTTGCGAT
4918513 TTTAAGTTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.37
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:4920432 original size:20 final size:20
Alignment explanation
Indices: 4920409--4920464 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
4920399 TCTGAAACTT
4920409 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
*
4920429 AAAATCGCAACACAAAAATG
1 AAAATCGCAACACGAAAATG
** *
4920449 ACTATCGCAACGCGAA
1 AAAATCGCAACACGAA
4920465 TTTGACTATC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.52, C:0.23, G:0.14, T:0.11
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:4920905 original size:20 final size:21
Alignment explanation
Indices: 4920880--4920922 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
4920870 TCTGAGAGAT
4920880 GGAGAT-AGACGGATTTCGCC
1 GGAGATGAGACGGATTTCGCC
*
4920900 GGAGATGGGGACGGATTTCGCC
1 GGAGAT-GAGACGGATTTCGCC
4920922 G
1 G
4920923 TAGAGAGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 6 0.30
22 14 0.70
ACGTcount: A:0.21, C:0.19, G:0.42, T:0.19
Consensus pattern (21 bp):
GGAGATGAGACGGATTTCGCC
Found at i:4921113 original size:20 final size:20
Alignment explanation
Indices: 4921090--4921134 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
4921080 TTATCGCAAC
4921090 GCGATAGTCAGAATCGCGTT
1 GCGATAGTCAGAATCGCGTT
4921110 GCGATAGTCAGAATCGCGTT
1 GCGATAGTCAGAATCGCGTT
4921130 GCGAT
1 GCGAT
4921135 TTACATATTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.24
Consensus pattern (20 bp):
GCGATAGTCAGAATCGCGTT
Found at i:4921265 original size:19 final size:19
Alignment explanation
Indices: 4921241--4921277 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
4921231 TGCGATACTG
* *
4921241 GAGATCGCGTTGCGATTTA
1 GAGATCGCATTACGATTTA
4921260 GAGATCGCATTACGATTT
1 GAGATCGCATTACGATTT
4921278 TGTTGGTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.32
Consensus pattern (19 bp):
GAGATCGCATTACGATTTA
Found at i:4923023 original size:23 final size:23
Alignment explanation
Indices: 4922977--4923082 Score: 146
Period size: 23 Copynumber: 4.7 Consensus size: 23
4922967 ATAAATTGCA
4922977 CCGAAGTG-CCACATA--TTTGTC
1 CCGAAG-GACCACATAGTTTTGTC
**
4922998 CCGAAGGACCACATAGGATTGTC
1 CCGAAGGACCACATAGTTTTGTC
4923021 CCGAAGGACCACATAGTTTTGTC
1 CCGAAGGACCACATAGTTTTGTC
* *
4923044 CTGAAGGACCACATAATTTTGTC
1 CCGAAGGACCACATAGTTTTGTC
4923067 CCGAAGGACCACATAG
1 CCGAAGGACCACATAG
4923083 AACCCTTGAC
Statistics
Matches: 75, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
20 1 0.01
21 13 0.17
23 61 0.81
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.23
Consensus pattern (23 bp):
CCGAAGGACCACATAGTTTTGTC
Found at i:4923051 original size:46 final size:45
Alignment explanation
Indices: 4922964--4923082 Score: 147
Period size: 46 Copynumber: 2.7 Consensus size: 45
4922954 TACCATTTCT
4922964 CACATAA-ATTG-CACCGAAGTG-CCACATA-TTTGTCCCGAAGGAC
1 CACATAAGATTGTC-CCGAAG-GACCACATAGTTTGTCCCGAAGGAC
* *
4923007 CACATAGGATTGTCCCGAAGGACCACATAGTTTTGTCCTGAAGGAC
1 CACATAAGATTGTCCCGAAGGACCACATAG-TTTGTCCCGAAGGAC
**
4923053 CACATAATTTTGTCCCGAAGGACCACATAG
1 CACATAAGATTGTCCCGAAGGACCACATAG
4923083 AACCCTTGAC
Statistics
Matches: 66, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
43 7 0.11
44 17 0.26
45 1 0.02
46 41 0.62
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (45 bp):
CACATAAGATTGTCCCGAAGGACCACATAGTTTGTCCCGAAGGAC
Found at i:4929729 original size:23 final size:22
Alignment explanation
Indices: 4929649--4929731 Score: 80
Period size: 23 Copynumber: 3.7 Consensus size: 22
4929639 ATAAATTGCA
4929649 CCGAAGTG-CCACATA-TTTGTC
1 CCGAA-TGACCACATAGTTTGTC
* * *
4929670 CCGAAAGACCACACAGGATTGTC
1 CCGAATGACCACATA-GTTTGTC
* *
4929693 CCGAAGGATCACATAGTTTTGTC
1 CCGAATGACCACATAG-TTTGTC
4929716 CCGAATGACCACATAG
1 CCGAATGACCACATAG
4929732 AACCCTCGAC
Statistics
Matches: 49, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
20 1 0.02
21 11 0.22
22 1 0.02
23 36 0.73
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (22 bp):
CCGAATGACCACATAGTTTGTC
Found at i:4938328 original size:25 final size:25
Alignment explanation
Indices: 4938277--4938353 Score: 79
Period size: 25 Copynumber: 3.1 Consensus size: 25
4938267 AATTGCACCA
** *
4938277 AAGTGCCGCGTAGAGTTTTG-CATCG
1 AAGTGCCGCGTAGAAATTTGTC-CCG
4938302 AAGTGCCGCGTAGAAATTTGTCCCG
1 AAGTGCCGCGTAGAAATTTGTCCCG
*
4938327 AAG-GACCGCATAG-AATTTGTCCCG
1 AAGTG-CCGCGTAGAAATTTGTCCCG
4938351 AAG
1 AAG
4938354 GACCACATAT
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
24 15 0.33
25 30 0.65
26 1 0.02
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.23
Consensus pattern (25 bp):
AAGTGCCGCGTAGAAATTTGTCCCG
Found at i:4938348 original size:24 final size:25
Alignment explanation
Indices: 4938307--4938362 Score: 87
Period size: 24 Copynumber: 2.3 Consensus size: 25
4938297 CATCGAAGTG
*
4938307 CCGCGTAGAAATTTGTCCCGAAGGA
1 CCGCATAGAAATTTGTCCCGAAGGA
4938332 CCGCATAG-AATTTGTCCCGAAGGA
1 CCGCATAGAAATTTGTCCCGAAGGA
*
4938356 CCACATA
1 CCGCATA
4938363 TAAACTCCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
24 22 0.76
25 7 0.24
ACGTcount: A:0.30, C:0.27, G:0.23, T:0.20
Consensus pattern (25 bp):
CCGCATAGAAATTTGTCCCGAAGGA
Found at i:4938595 original size:30 final size:31
Alignment explanation
Indices: 4938546--4938616 Score: 108
Period size: 31 Copynumber: 2.3 Consensus size: 31
4938536 ACATAATTTA
* *
4938546 TATCGCATAGACATATCA-TTTCCATACCTT
1 TATCACATAAACATATCATTTTCCATACCTT
*
4938576 TATCACATAAACATTTCATTTTCCATACCTT
1 TATCACATAAACATATCATTTTCCATACCTT
4938607 TATCACATAA
1 TATCACATAA
4938617 TTCATATAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
30 15 0.41
31 22 0.59
ACGTcount: A:0.34, C:0.25, G:0.03, T:0.38
Consensus pattern (31 bp):
TATCACATAAACATATCATTTTCCATACCTT
Found at i:4939052 original size:63 final size:63
Alignment explanation
Indices: 4938985--4939104 Score: 152
Period size: 63 Copynumber: 1.9 Consensus size: 63
4938975 ACATAAATGT
* ** *
4938985 CATTCGATGTTTGT-ATTTAAGGGGGTGCATCGATGCACTACCTGTGCATCGATACACGGATTA
1 CATTCGATGTTT-TCATTTAAAGGAATGCATCGATGCACTACATGTGCATCGATACACGGATTA
* ** *
4939048 CATTCGATGTTTTCTTTTAAATTAATGCATCGATGCACTTCATGTGCATCGATACAC
1 CATTCGATGTTTTCATTTAAAGGAATGCATCGATGCACTACATGTGCATCGATACAC
4939105 CTAGCACAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
62 1 0.02
63 47 0.98
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (63 bp):
CATTCGATGTTTTCATTTAAAGGAATGCATCGATGCACTACATGTGCATCGATACACGGATTA
Done.