Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008426.1 Hibiscus syriacus cultivar Beakdansim tig00111210_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: 4445546
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 18
Found at i:1170403 original size:59 final size:60
Alignment explanation
Indices: 1170310--1170452 Score: 143
Period size: 59 Copynumber: 2.4 Consensus size: 60
1170300 GAAAATATAA
** * *
1170310 ATAGTATATATATTATATGTTATACATATAGTTTTTGAAAA-CAT-TTATATA-ATATATAGT-
1 ATAGTATAT-TATTATA-AATATATATATAGTTTTT-AAAATCATAATATATATATATATA-TC
* *
1170370 ATAGTATATTATTATACAATATATATATTGTTTTTAAAATTATAATATATATATATATATC
1 ATAGTATATTATTATA-AATATATATATAGTTTTTAAAATCATAATATATATATATATATC
*
1170431 ATAATATA-TATTATAAATATAT
1 ATAGTATATTATTATAAATATAT
1170453 TTTTTGAAAA
Statistics
Matches: 71, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
58 4 0.06
59 30 0.42
60 23 0.32
61 14 0.20
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.48
Consensus pattern (60 bp):
ATAGTATATTATTATAAATATATATATAGTTTTTAAAATCATAATATATATATATATATC
Found at i:1170413 original size:55 final size:56
Alignment explanation
Indices: 1170335--1170482 Score: 146
Period size: 55 Copynumber: 2.7 Consensus size: 56
1170325 TATGTTATAC
* * *
1170335 ATATAGTTTTTGAAAACATT-TATATA-ATATATAGTATAGT-ATATTATTATACAATAT
1 ATATATTTTTTGAAAA-ATTATATATATATATATA-TATA-TCATAATA-TATACAATAA
* **
1170392 ATATATTGTTTT-TAAAATTATA-ATATATATATATATATCATAATATATATTATAA
1 ATATATT-TTTTGAAAAATTATATATATATATATATATATCATAATATATACAATAA
*
1170447 ATATATTTTTTGAAAAATTATATATA-AAATATATAT
1 ATATATTTTTTGAAAAATTATATATATATATATATAT
1170483 TATATTCATT
Statistics
Matches: 77, Mismatches: 8, Indels: 14
0.78 0.08 0.14
Matches are distributed among these distances:
54 4 0.05
55 33 0.43
56 18 0.23
57 18 0.23
58 4 0.05
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (56 bp):
ATATATTTTTTGAAAAATTATATATATATATATATATATCATAATATATACAATAA
Found at i:1170457 original size:53 final size:52
Alignment explanation
Indices: 1170357--1170484 Score: 129
Period size: 53 Copynumber: 2.4 Consensus size: 52
1170347 AAAACATTTA
* *
1170357 TATAATATATAGTATAGTATATTATTATACAATATATATATTGTTTTT-AAAAT
1 TATAATATATA-TATA-TATATTAATATACAATATAAATATTGTTTTTAAAAAT
* *
1170410 TATAATATATATATATATATCATAATATATATTATAAATATAT-TTTTTGAAAAAT
1 TATAATATATATATATATAT--TAATATACAATATAAATAT-TGTTTTT-AAAAAT
*
1170465 TAT-ATATA-AAATATATATTA
1 TATAATATATATATATATATTA
1170485 TATTCATTAG
Statistics
Matches: 65, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
51 7 0.11
52 4 0.06
53 40 0.62
54 6 0.09
55 8 0.12
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.48
Consensus pattern (52 bp):
TATAATATATATATATATATTAATATACAATATAAATATTGTTTTTAAAAAT
Found at i:1176832 original size:23 final size:24
Alignment explanation
Indices: 1176806--1176857 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
1176796 TTAAGTTTAG
* *
1176806 TTTTTGTACTATA-TTATTTCTTCT
1 TTTTTGTA-TAAATTTACTTCTTCT
*
1176830 TTTTTGTATAAATTTACTTGTTCT
1 TTTTTGTATAAATTTACTTCTTCT
1176854 TTTT
1 TTTT
1176858 GTTCACCTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 3 0.12
24 21 0.88
ACGTcount: A:0.17, C:0.10, G:0.06, T:0.67
Consensus pattern (24 bp):
TTTTTGTATAAATTTACTTCTTCT
Found at i:1183126 original size:62 final size:63
Alignment explanation
Indices: 1183054--1183178 Score: 243
Period size: 62 Copynumber: 2.0 Consensus size: 63
1183044 CCCATTATGT
1183054 TATGATATGAAGAGTTTGATATGTTGATATATTTGATAATTGAATAATATATAATAA-TAATG
1 TATGATATGAAGAGTTTGATATGTTGATATATTTGATAATTGAATAATATATAATAATTAATG
1183116 TATGATATGAAGAGTTTGATATGTTGATATATTTGATAATTGAATAATATATAATAATTAATG
1 TATGATATGAAGAGTTTGATATGTTGATATATTTGATAATTGAATAATATATAATAATTAATG
1183179 GAAAAGCCCA
Statistics
Matches: 62, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
62 57 0.92
63 5 0.08
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (63 bp):
TATGATATGAAGAGTTTGATATGTTGATATATTTGATAATTGAATAATATATAATAATTAATG
Found at i:1183445 original size:19 final size:19
Alignment explanation
Indices: 1183421--1183493 Score: 76
Period size: 19 Copynumber: 3.8 Consensus size: 19
1183411 TATGCATTGG
*
1183421 GCTATGAATTTGAAAATAA
1 GCTATGAATCTGAAAATAA
*
1183440 GCTATGAATCT-AACAACAA
1 GCTATGAATCTGAA-AATAA
**
1183459 GCTATGCGTCTGAAAATAA
1 GCTATGAATCTGAAAATAA
*
1183478 GTTATGAATCTAGAAA
1 GCTATGAATCT-GAAA
1183494 TAATTTCTGA
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
18 2 0.05
19 35 0.81
20 6 0.14
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.27
Consensus pattern (19 bp):
GCTATGAATCTGAAAATAA
Found at i:1185742 original size:58 final size:56
Alignment explanation
Indices: 1185627--1185803 Score: 150
Period size: 58 Copynumber: 3.1 Consensus size: 56
1185617 TTTTACTCAT
* * *
1185627 TATATATATATATATATATATATTATAGTATATAGTATATATATTATAGTGTTTTA
1 TATATATATATATATATATATATTAAAATATATAGTATATATATTATAGTATTTTA
* *
1185683 TATATATATATATATATAGTTTTTTGAAAATATATA-TAGTATATATTATA-TATTATTA
1 TATATATATATATATATA-TATATT-AAAATATATAGTA-TATATATTATAGTATT-TTA
* * * * *
1185741 TATAGT-T-TTTAAATATATATA-TATATTATATAGTAT-TATATTATAATATATATTA
1 TATA-TATATATATATATATATATTAAAATATATAGTATATATATTATAGTAT-T-TTA
*
1185796 TAAATATA
1 TATATATA
1185804 ATTTTTGAAA
Statistics
Matches: 99, Mismatches: 12, Indels: 20
0.76 0.09 0.15
Matches are distributed among these distances:
53 9 0.09
54 13 0.13
55 12 0.12
56 20 0.20
57 17 0.17
58 27 0.27
59 1 0.01
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (56 bp):
TATATATATATATATATATATATTAAAATATATAGTATATATATTATAGTATTTTA
Found at i:1185823 original size:2 final size:2
Alignment explanation
Indices: 1185627--1185803 Score: 110
Period size: 2 Copynumber: 91.0 Consensus size: 2
1185617 TTTTACTCAT
1185627 TA TA TA TA TA TA TA TA TA TA TA T- TA TA GTA TA TA GTA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA
* * * *
1185670 T- TA TA GTG T- TT TA TA TA TA TA TA TA TA TA TA GT- TT TT TGA
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA T-A
* * *
1185710 -A AA TA TA TA TA GTA TA TA T- TA TA TA T- TA T- TA TA TA GTT TT
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
*
1185750 TA AA TA TA TA TA TA TA T- TA TA TA GTA T- TA TA T- TA TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
*
1185789 TA TA T- TA TA AA TA TA
1 TA TA TA TA TA TA TA TA
1185804 ATTTTTGAAA
Statistics
Matches: 144, Mismatches: 10, Indels: 42
0.73 0.05 0.21
Matches are distributed among these distances:
1 13 0.09
2 120 0.83
3 11 0.08
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1194618 original size:4 final size:4
Alignment explanation
Indices: 1194609--1194634 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
1194599 TGAGCTATCT
1194609 AAGA AAGA AAGA AAGA AAGA AAGA AA
1 AAGA AAGA AAGA AAGA AAGA AAGA AA
1194635 ATGAAATACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:1195355 original size:40 final size:40
Alignment explanation
Indices: 1195278--1195355 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 40
1195268 TGACTAGGCT
* * **
1195278 ATACCGATATTGTTCTTACAATATCGATACCGCATGTACA
1 ATACCGATATTATTCTTACAATATCGAAACCAAATGTACA
** *
1195318 ATACCGATATTATTCTTGTAGTATCGAAACCAAATGTA
1 ATACCGATATTATTCTTACAATATCGAAACCAAATGTA
1195356 AGAGTGATAT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (40 bp):
ATACCGATATTATTCTTACAATATCGAAACCAAATGTACA
Found at i:1214520 original size:2 final size:2
Alignment explanation
Indices: 1214513--1214569 Score: 100
Period size: 2 Copynumber: 29.5 Consensus size: 2
1214503 CATACTAATT
1214513 TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1214554 TA TA TA TA T- TA TA TA T
1 TA TA TA TA TA TA TA TA T
1214570 TATCCCTTCA
Statistics
Matches: 53, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 2 0.04
2 51 0.96
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1214544 original size:23 final size:23
Alignment explanation
Indices: 1214516--1214569 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
1214506 ACTAATTTAT
1214516 ATATATATATATATATATATATA
1 ATATATATATATATATATATATA
1214539 ATATATATATATATATATATATA
1 ATATATATATATATATATATATA
*
1214562 TTATATAT
1 ATATATAT
1214570 TATCCCTTCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
ATATATATATATATATATATATA
Found at i:1214544 original size:25 final size:25
Alignment explanation
Indices: 1214514--1214569 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
1214504 ATACTAATTT
1214514 ATATATATATATATATATATATATA
1 ATATATATATATATATATATATATA
*
1214539 ATATATATATATATATATATATATT
1 ATATATATATATATATATATATATA
1214564 ATATAT
1 ATATAT
1214570 TATCCCTTCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (25 bp):
ATATATATATATATATATATATATA
Found at i:1214793 original size:81 final size:81
Alignment explanation
Indices: 1214645--1214795 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 81
1214635 TCAACAGTGT
* * * *
1214645 TTAACCCTTTATCTAACTGCCATAATTGAAACCTTTTTGCTAATTGCACAGTTAGACCATTATTC
1 TTAACCCTTCATCTAACTGCCATAATTGAAACCTTTTTGCTAATTGCACAGCTAGACCATAAATC
1214710 TTTTACTCAACGCTAC
66 TTTTACTCAACGCTAC
* * * *
1214726 TTAACCGTTCATCTAACTG-CATAATTGATACTTTTTTG-TCAATTGCACAGCTAGGCCATCAAA
1 TTAACCCTTCATCTAACTGCCATAATTGAAACCTTTTTGCT-AATTGCACAGCTAGACCAT-AAA
1214789 TCTTTTA
64 TCTTTTA
1214796 GTTTGGAATA
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
79 1 0.02
80 34 0.57
81 25 0.42
ACGTcount: A:0.28, C:0.23, G:0.10, T:0.38
Consensus pattern (81 bp):
TTAACCCTTCATCTAACTGCCATAATTGAAACCTTTTTGCTAATTGCACAGCTAGACCATAAATC
TTTTACTCAACGCTAC
Found at i:1215230 original size:190 final size:193
Alignment explanation
Indices: 1214905--1215289 Score: 731
Period size: 190 Copynumber: 2.0 Consensus size: 193
1214895 CGTAATTTAC
1214905 CAACTTCTTATTTCTGTTTATTTATTAAGATGTACATGTAGTGCTTATATTGTTATTCCTCAACC
1 CAACTTCTTATTTCTGTTTATTTATTAAGA-GTACATGTAGTGCTTATATTGTTATTCCTCAACC
1214970 ATTTCTATAGCTATGTGGTTGGCATACCCATTACCAATATAAAGATCCATTTCCTTATTATGTAG
65 ATTTCTATAGCTATGTGGTTGGCATACCCATTACCAATATAAAGATCCATTTCCTTATTATGTAG
1215035 TTCTTATGTGTATACCCTTATGTTGCCCATACA-AAACTCATACACATAGTATGAA-TTCTTAT
130 TTCTTATGTGTATACCCTTATGTTGCCCATACATAAACTCATACACATAGTATGAATTTCTTAT
1215097 CAACTTCTTATTTCTGTTTATTTATTAAGA-TACATGTAGTGCTTATATTGTTATTCCTCAACCA
1 CAACTTCTTATTTCTGTTTATTTATTAAGAGTACATGTAGTGCTTATATTGTTATTCCTCAACCA
1215161 TTTCTATAGCTATGTGGTTGGCATACCCATTACCAATATAAAGATCCATTTCCTTATTATGTAGT
66 TTTCTATAGCTATGTGGTTGGCATACCCATTACCAATATAAAGATCCATTTCCTTATTATGTAGT
*
1215226 TCTTATGTGTATACCCTTATGTTTCCCATACATAAACTCATACACATAGTATGAATTTCTTAT
131 TCTTATGTGTATACCCTTATGTTGCCCATACATAAACTCATACACATAGTATGAATTTCTTAT
1215289 C
1 C
1215290 CTTTAGCACC
Statistics
Matches: 190, Mismatches: 1, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
190 130 0.68
191 22 0.12
192 38 0.20
ACGTcount: A:0.28, C:0.19, G:0.11, T:0.42
Consensus pattern (193 bp):
CAACTTCTTATTTCTGTTTATTTATTAAGAGTACATGTAGTGCTTATATTGTTATTCCTCAACCA
TTTCTATAGCTATGTGGTTGGCATACCCATTACCAATATAAAGATCCATTTCCTTATTATGTAGT
TCTTATGTGTATACCCTTATGTTGCCCATACATAAACTCATACACATAGTATGAATTTCTTAT
Found at i:1215382 original size:57 final size:57
Alignment explanation
Indices: 1215316--1216200 Score: 1331
Period size: 57 Copynumber: 15.5 Consensus size: 57
1215306 GTCTAATACA
* * * *
1215316 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGTGTACTAAGCGCCCTCTCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* *
1215373 GAAATTCATACACTTAGTATGATTTCATAACATTTTAGCGTACGAAACGCCCTATTT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* *
1215430 GAAATTCATACACTTAGTATGTTTTCTTAACATTTTAGCGTACGAAACGCCCTATTT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* * * *
1215487 GAAATTCATACACTTAGTATGTTTTCCTAACATTTTAGCGTACGAAACGTCCTATTT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* * * * *
1215544 GAAATTCATACACTTAGTATGATTTATTAACATTTTTGCATAGGAAACGTCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* * *
1215601 GAAATTCATACACTTAGTATGATTTCTTAACATTTTTGCTTACGAAATGCCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* * *
1215658 AAAATTCATACACTTAGTATGATTTCCTAACATTTTAGCGTACGAAATGCCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* * * *
1215715 AAAATTCATAGACTTAGTATGATTTCTTAACATTTTAGCATACGAAACGCCCTATTT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* *
1215772 GAAATTCATACACTTAGTATGATTTCTTAAAATTTTAGCGTACGAAATGCCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* * * *
1215829 AAAATTCATACACTTAGTATGATTTCCTAACATTTTACCGTACGAAATGCCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* * *
1215886 AAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCATACGAAACGCCCTATTT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
*
1215943 GAAATTCATACACTTAGTATGATTTCTTAAAATTTTAGCGTACGAAACGCCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* * *
1216000 AAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTATGAAACGCCCTATTT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* * *
1216057 GAAATTCATAAACTTAGTATGATTTCTTAACATTTTTGCGTA-GAAAACGCCCTATAT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACG-AAACGCCCTATCT
**
1216114 GAAATTCATACACTTTAGTATGATTTCTTAACATTTTAGCGTGTGAAACGCCCTATCT
1 GAAATTCATACAC-TTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
*
1216172 TAAATTCATACACTTAGTATGATTTCTTA
1 GAAATTCATACACTTAGTATGATTTCTTA
1216201 TCTAAAATTC
Statistics
Matches: 762, Mismatches: 63, Indels: 6
0.92 0.08 0.01
Matches are distributed among these distances:
56 1 0.00
57 709 0.93
58 51 0.07
59 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (57 bp):
GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
Found at i:1216209 original size:32 final size:32
Alignment explanation
Indices: 1216167--1216229 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1216157 TGAAACGCCC
*
1216167 TATCTTAAATTCATACACTTAGTATGATTTCT
1 TATCTAAAATTCATACACTTAGTATGATTTCT
1216199 TATCTAAAATTCATACACTTAGTATGATTTC
1 TATCTAAAATTCATACACTTAGTATGATTTC
1216230 CTAACATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.33, C:0.16, G:0.06, T:0.44
Consensus pattern (32 bp):
TATCTAAAATTCATACACTTAGTATGATTTCT
Found at i:1216235 original size:89 final size:90
Alignment explanation
Indices: 1216115--1216289 Score: 289
Period size: 89 Copynumber: 2.0 Consensus size: 90
1216105 GCCCTATATG
* ** *
1216115 AAATTCATACACTTTAGTATGATTTCTTAACATTTTAGCGTGTGAAACGCCCTATCTTAAATTCA
1 AAATTCATACACTTTAGTATGATTTCCTAACATTTTAGCGTACGAAACGCCCTATCTGAAATTCA
*
1216180 TACACTTAGTATGATTTCTTATCTA
66 TACACTTAGTATGATGTCTTATCTA
*
1216205 AAATTCATACAC-TTAGTATGATTTCCTAACATTTTAGCGTACGAAACGCTCTATCTGAAATTCA
1 AAATTCATACACTTTAGTATGATTTCCTAACATTTTAGCGTACGAAACGCCCTATCTGAAATTCA
1216269 TACACTTAGTATGATGTCTTA
66 TACACTTAGTATGATGTCTTA
1216290 ATATTTTAGT
Statistics
Matches: 79, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
89 67 0.85
90 12 0.15
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (90 bp):
AAATTCATACACTTTAGTATGATTTCCTAACATTTTAGCGTACGAAACGCCCTATCTGAAATTCA
TACACTTAGTATGATGTCTTATCTA
Found at i:1216296 original size:57 final size:57
Alignment explanation
Indices: 1216199--1216517 Score: 467
Period size: 57 Copynumber: 5.6 Consensus size: 57
1216189 TATGATTTCT
* * *
1216199 TATCTAAAATTCATACACTTAGTATGATTTCCTAACATTTTAGCGTACGAAACGCTC
1 TATCTAAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAATGCCC
* * * *
1216256 TATCTGAAATTCATACACTTAGTATGATGTCTTAATATTTTAGTGTACGAAATGCCC
1 TATCTAAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAATGCCC
* * * *
1216313 TATCTGAAATTCATACATTTAGTATGATTTCTTAACATGTTAGTGTACGAAATGCCC
1 TATCTAAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAATGCCC
* * *
1216370 TATCTGAAATTCATACATTTAGTATGATTTCTTAACATTTTAGCGTGCGAAATGCCC
1 TATCTAAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAATGCCC
* * **
1216427 TATCTAAAATTCATACATTTAGTATGATTTCTTAACATTCTAGCGTACGAAACACCC
1 TATCTAAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAATGCCC
*
1216484 TATCTAAAATTCATAAACTTAGTATGATTTCTTA
1 TATCTAAAATTCATACACTTAGTATGATTTCTTA
1216518 TATTTTGCAC
Statistics
Matches: 241, Mismatches: 21, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
57 241 1.00
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.38
Consensus pattern (57 bp):
TATCTAAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAATGCCC
Found at i:1224386 original size:17 final size:17
Alignment explanation
Indices: 1224361--1224400 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
1224351 GATCAAAGAA
1224361 AAGAAAGGAA-TTCAGAG
1 AAGAAAGGAACTT-AGAG
*
1224378 AAGAGAGGAACTTAGAG
1 AAGAAAGGAACTTAGAG
1224395 AAGAAA
1 AAGAAA
1224401 AAGATATTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 18 0.90
18 2 0.10
ACGTcount: A:0.55, C:0.05, G:0.30, T:0.10
Consensus pattern (17 bp):
AAGAAAGGAACTTAGAG
Found at i:1235928 original size:12 final size:12
Alignment explanation
Indices: 1235913--1235947 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
1235903 TTTAGTTACA
1235913 TATTTATTATTT
1 TATTTATTATTT
1235925 TATTTATTATTT
1 TATTTATTATTT
1235937 TATTTA-TATTT
1 TATTTATTATTT
1235948 ATCTATTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 5 0.22
12 18 0.78
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (12 bp):
TATTTATTATTT
Found at i:1235961 original size:22 final size:18
Alignment explanation
Indices: 1235916--1235970 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 18
1235906 AGTTACATAT
1235916 TTATTATTTTATTTATTA
1 TTATTATTTTATTTATTA
1235934 TT-TTATTTATATTTATCTA
1 TTATTATTT-TATTTAT-TA
*
1235953 TTCAATTATTTTTTTTAT
1 TT--ATTATTTTATTTAT
1235971 AAAATTATAC
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
17 6 0.19
18 9 0.29
19 4 0.13
21 6 0.19
22 6 0.19
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (18 bp):
TTATTATTTTATTTATTA
Found at i:1244240 original size:50 final size:50
Alignment explanation
Indices: 1244186--1244298 Score: 120
Period size: 50 Copynumber: 2.3 Consensus size: 50
1244176 AATTTTTTAT
* * * *
1244186 CTCGATGTGATAAATTTTAAT-AAAAATTATATTTTATTGGAACTCATCAC
1 CTCGACGTGATAAATTTGAATAAAAAAATAT-TTTTATTGAAACTCATCAC
* * * * * *
1244236 CTCGAGGTGATGAGTTTGAATAAAAAAATATTTTTATTTAAACTCGTTAC
1 CTCGACGTGATAAATTTGAATAAAAAAATATTTTTATTGAAACTCATCAC
1244286 CTCGACGTGATAA
1 CTCGACGTGATAA
1244299 GTTCTATGAA
Statistics
Matches: 51, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
50 43 0.84
51 8 0.16
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.37
Consensus pattern (50 bp):
CTCGACGTGATAAATTTGAATAAAAAAATATTTTTATTGAAACTCATCAC
Found at i:1246643 original size:23 final size:23
Alignment explanation
Indices: 1246579--1246645 Score: 98
Period size: 23 Copynumber: 2.9 Consensus size: 23
1246569 GTCGATGGTT
* *
1246579 CTATGTGGTCGTTCGGGAAAAAA
1 CTATGTGGTCCTTCGGGACAAAA
* *
1246602 TTATGTGGTCCTTCGGGACAAAC
1 CTATGTGGTCCTTCGGGACAAAA
1246625 CTATGTGGTCCTTCGGGACAA
1 CTATGTGGTCCTTCGGGACAA
1246646 TTATGTGGCA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.28
Consensus pattern (23 bp):
CTATGTGGTCCTTCGGGACAAAA
Found at i:1251536 original size:31 final size:31
Alignment explanation
Indices: 1251501--1251561 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
1251491 CCCGAAGGGC
*
1251501 CTGTCCATATGTCCCGAAGGACGTAGGTAAA
1 CTGTCCATATGTCCCGAAGGACATAGGTAAA
1251532 CTGTCCATATGTCCCGAAGGACATAGGTAA
1 CTGTCCATATGTCCCGAAGGACATAGGTAA
1251562 CCCTCGACTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.30, C:0.23, G:0.25, T:0.23
Consensus pattern (31 bp):
CTGTCCATATGTCCCGAAGGACATAGGTAAA
Found at i:1260822 original size:18 final size:19
Alignment explanation
Indices: 1260799--1260865 Score: 55
Period size: 20 Copynumber: 3.4 Consensus size: 19
1260789 ATGTCAAAAT
1260799 GGTATCGGTACTGAAGGG-
1 GGTATCGGTACTGAAGGGA
*
1260817 GGTATCGATATCATAGAAGGGA
1 GGTATCGGTA-C-T-GAAGGGA
* *
1260839 AGTATCGGTACTGTAGTGGA
1 GGTATCGGTACTGAAG-GGA
*
1260859 AGTATCG
1 GGTATCG
1260866 ATAATACTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
18 9 0.22
19 4 0.10
20 12 0.30
21 7 0.17
22 8 0.20
ACGTcount: A:0.28, C:0.10, G:0.36, T:0.25
Consensus pattern (19 bp):
GGTATCGGTACTGAAGGGA
Found at i:1261452 original size:23 final size:23
Alignment explanation
Indices: 1261399--1261464 Score: 80
Period size: 23 Copynumber: 2.9 Consensus size: 23
1261389 GTCGAGGGTT
* *
1261399 CTATGTGGTCGTTCTGGA-AAAA
1 CTATGTGGTCCTTCGGGACAAAA
* *
1261421 TTATGTGGTCCTTCGGGACAAAC
1 CTATGTGGTCCTTCGGGACAAAA
*
1261444 CTATGTGGTCCTCCGGGACAA
1 CTATGTGGTCCTTCGGGACAA
1261465 TTATGTTGCA
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
22 15 0.41
23 22 0.59
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (23 bp):
CTATGTGGTCCTTCGGGACAAAA
Found at i:1262787 original size:2 final size:2
Alignment explanation
Indices: 1262780--1262836 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
1262770 AAATTATTAG
1262780 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1262822 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
1262837 CACTTACACA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1263020 original size:27 final size:27
Alignment explanation
Indices: 1262990--1263049 Score: 95
Period size: 27 Copynumber: 2.2 Consensus size: 27
1262980 TTATCGTCTC
*
1262990 TCTCTCCTCTTAGATTTGTGT-TTTCTG
1 TCTCTCCTCTTAGATTCGTGTCTTT-TG
1263017 TCTCTCCTCTTAGATTCGTGTCTTTTG
1 TCTCTCCTCTTAGATTCGTGTCTTTTG
1263044 TCTCTC
1 TCTCTC
1263050 TATCTTCTGT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 28 0.90
28 3 0.10
ACGTcount: A:0.07, C:0.27, G:0.13, T:0.53
Consensus pattern (27 bp):
TCTCTCCTCTTAGATTCGTGTCTTTTG
Found at i:1264404 original size:59 final size:59
Alignment explanation
Indices: 1264278--1264391 Score: 142
Period size: 58 Copynumber: 1.9 Consensus size: 59
1264268 AAGTTGGGAT
* * **
1264278 GACCATTTTATGACTTTTAACAATTAGAGACTCAACAAAAGCAGTTTCCTATAGTATAC
1 GACCATTTTATAACTTTTAACAATAAGAGACTCAACAAAAGCAGTCCCCTATAGTATAC
* * *
1264337 GATCATTTTATAAC-TTTAATAGTAATGAGACTCAAC-AAAGCAGTCCCCTATAGTA
1 GACCATTTTATAACTTTTAACAATAA-GAGACTCAACAAAAGCAGTCCCCTATAGTA
1264392 AGTGGACCAT
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
58 25 0.53
59 22 0.47
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.32
Consensus pattern (59 bp):
GACCATTTTATAACTTTTAACAATAAGAGACTCAACAAAAGCAGTCCCCTATAGTATAC
Found at i:1283509 original size:18 final size:19
Alignment explanation
Indices: 1283481--1283519 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
1283471 TTCTCTTATT
*
1283481 TTTACTTTAATTACTTTTA
1 TTTACTTTAATCACTTTTA
*
1283500 TTTA-TTTAATCATTTTTA
1 TTTACTTTAATCACTTTTA
1283518 TT
1 TT
1283520 ACTACTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTACTTTAATCACTTTTA
Found at i:1290474 original size:17 final size:17
Alignment explanation
Indices: 1290450--1290498 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
1290440 TTCATTGAGT
*
1290450 TAGTTCATTAATTAAAT
1 TAGTTCATTAATTAAAC
* * *
1290467 TGGTTCATTCATCAAAC
1 TAGTTCATTAATTAAAC
*
1290484 TAGTTCATTTATTAA
1 TAGTTCATTAATTAA
1290499 GCTAACTCTT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.45
Consensus pattern (17 bp):
TAGTTCATTAATTAAAC
Found at i:1294456 original size:17 final size:17
Alignment explanation
Indices: 1294434--1294468 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
1294424 TTGTTCACTA
1294434 AAGCATGCATTGCATTT
1 AAGCATGCATTGCATTT
* *
1294451 AAGCATGTATTTCATTT
1 AAGCATGCATTGCATTT
1294468 A
1 A
1294469 GGGAAGAAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.40
Consensus pattern (17 bp):
AAGCATGCATTGCATTT
Found at i:1294560 original size:17 final size:17
Alignment explanation
Indices: 1294538--1294586 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
1294528 TTCATTGAGT
1294538 TAGTTCATTAATTAAAC
1 TAGTTCATTAATTAAAC
* *
1294555 TAGTTCATTCATCAAAC
1 TAGTTCATTAATTAAAC
*
1294572 TAGTTCATTTATTAA
1 TAGTTCATTAATTAA
1294587 GCTAACTCTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.37, C:0.14, G:0.06, T:0.43
Consensus pattern (17 bp):
TAGTTCATTAATTAAAC
Found at i:1299082 original size:78 final size:78
Alignment explanation
Indices: 1298870--1299115 Score: 380
Period size: 78 Copynumber: 3.2 Consensus size: 78
1298860 ATGAATGGGA
*
1298870 GTGGGGGATGGTAGAGATGGGGATGGGGATGGATGATGTGATAATGGATTATGTTGAAGT-GAGA
1 GTGGGTGATGGTAGAGATGGGGATGGGGATGGATGATGTGATAATGGATTATGTTGAAGTGGAGA
1298934 TGTATGAGTGGAG
66 TGTATGAGTGGAG
* * *
1298947 GTGGGTGATAGT--AGA----GATGGGGATGGATGATGTGATAATGGACTATGTAGAAGTGGAGA
1 GTGGGTGATGGTAGAGATGGGGATGGGGATGGATGATGTGATAATGGATTATGTTGAAGTGGAGA
*
1299006 TGTATGAGCGGAG
66 TGTATGAGTGGAG
1299019 GTGGGTGATGGTAGAGATGGGGATGGGGATGGATGATGTGATAATGGATTATGTTGAAGTGGAGA
1 GTGGGTGATGGTAGAGATGGGGATGGGGATGGATGATGTGATAATGGATTATGTTGAAGTGGAGA
1299084 TGTATGAGTGGAG
66 TGTATGAGTGGAG
**
1299097 GTGAATGATGGTAGAGATG
1 GTGGGTGATGGTAGAGATG
1299116 AGACTTGATG
Statistics
Matches: 151, Mismatches: 11, Indels: 13
0.86 0.06 0.07
Matches are distributed among these distances:
71 37 0.25
72 27 0.18
74 3 0.02
75 3 0.02
77 10 0.07
78 71 0.47
ACGTcount: A:0.27, C:0.01, G:0.45, T:0.27
Consensus pattern (78 bp):
GTGGGTGATGGTAGAGATGGGGATGGGGATGGATGATGTGATAATGGATTATGTTGAAGTGGAGA
TGTATGAGTGGAG
Found at i:1301433 original size:73 final size:72
Alignment explanation
Indices: 1301326--1301702 Score: 297
Period size: 73 Copynumber: 5.1 Consensus size: 72
1301316 TAAAAATCGT
* *
1301326 TTTTGAAATATATATAATATATGATTTTTAAAAACATTTTGAATATATATATAATATATGATTTT
1 TTTTGAAA-ATATATAATATATGGTTTTTTAAAACATTTTGAA-ATATATATAATATATGATTTT
1301391 TAAAAAATA
64 TAAAAAATA
* *
1301400 TTTTGAAAATATATAATATATGGTTTTTTAAAACATATTGAAA-ACTTATATAATATATGGTTTT
1 TTTTGAAAATATATAATATATGGTTTTTTAAAACATTTTGAAATA--TATATAATATATGATTTT
1301464 TAAAAAATA
64 TAAAAAATA
* * *** * *
1301473 TTTTGAAAACTTATATAATATATGGTTTTTAAAAAAATTGAAAAAACATATATAATATAT-AGTT
1 TTTTGAAAA--TATATAATATATGGTTTTTTAAAACATT-TTGAAATATATATAATATATGATTT
* *
1301537 TT-GAAAACA
63 TTAAAAAATA
* *
1301546 TTTTGAAAATATATATATATAAT-ATATAGTTTTAAAACATTTTTGAAA-ACTATATGAT-TAT-
1 TTTTGAAAATATATA-ATAT-ATGGT-T--TTTTAAAACA-TTTTGAAATA-TATATAATATATG
* *
1301607 AGTTTTAAAAACT-
59 ATTTTTAAAAAATA
** * * *
1301620 TTTAAAAAATATATAATATATAG--TTTTAAAATATTTTTGAAACTATATTATATTATATGATTT
1 TTTTGAAAATATATAATATATGGTTTTTTAAAACA-TTTTGAAA-TATA-TATAATATATGATTT
* *
1301683 TGAAAACAATT
63 TTAAAA-AATA
*
1301694 TTTTTAAAA
1 TTTTGAAAA
1301703 AGCGCATATA
Statistics
Matches: 246, Mismatches: 35, Indels: 44
0.76 0.11 0.14
Matches are distributed among these distances:
68 18 0.07
69 2 0.01
70 5 0.02
71 10 0.04
72 16 0.07
73 89 0.36
74 42 0.17
75 58 0.24
76 5 0.02
77 1 0.00
ACGTcount: A:0.46, C:0.03, G:0.07, T:0.44
Consensus pattern (72 bp):
TTTTGAAAATATATAATATATGGTTTTTTAAAACATTTTGAAATATATATAATATATGATTTTTA
AAAAATA
Found at i:1301770 original size:4 final size:4
Alignment explanation
Indices: 1301731--1301815 Score: 52
Period size: 4 Copynumber: 21.0 Consensus size: 4
1301721 AGTTTTAAAA
* * *
1301731 ATTT ATTT -TTT A-TT ATAT ATTAT ATTA ATATT ATTT ATTT A-CT ATTTT
1 ATTT ATTT ATTT ATTT ATTT ATT-T ATTT AT-TT ATTT ATTT ATTT A-TTT
* *
1301779 ATTA ATAT ATTT -TTT ATTT GATTTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT -A-TTT ATTT ATTT ATTT
1301816 TTTTCCTTTG
Statistics
Matches: 62, Mismatches: 10, Indels: 18
0.69 0.11 0.20
Matches are distributed among these distances:
3 11 0.18
4 37 0.60
5 11 0.18
6 3 0.05
ACGTcount: A:0.29, C:0.01, G:0.01, T:0.68
Consensus pattern (4 bp):
ATTT
Found at i:1301802 original size:25 final size:24
Alignment explanation
Indices: 1301734--1301818 Score: 82
Period size: 25 Copynumber: 3.3 Consensus size: 24
1301724 TTTAAAAATT
1301734 TATTTTTTATTATATATTATATTAATA
1 TATTTTTTATT-TAT-TT-TATTAATA
*
1301761 TTATTTATTTA-CTATTTTATTAATA
1 -TATTT-TTTATTTATTTTATTAATA
* *
1301786 TATTTTTTATTTGATTTTATTTATT
1 TATTTTTTATTT-ATTTTATTAATA
1301811 TATTTTTT
1 TATTTTTT
1301819 TCCTTTGTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
23 4 0.08
24 6 0.12
25 26 0.52
26 2 0.04
27 3 0.06
28 5 0.10
29 4 0.08
ACGTcount: A:0.28, C:0.01, G:0.01, T:0.69
Consensus pattern (24 bp):
TATTTTTTATTTATTTTATTAATA
Found at i:1301808 original size:14 final size:13
Alignment explanation
Indices: 1301731--1301816 Score: 54
Period size: 13 Copynumber: 6.7 Consensus size: 13
1301721 AGTTTTAAAA
*
1301731 ATTTATTTTTTATT
1 ATTTATTTTAT-TT
* * *
1301745 ATATATTATATTA
1 ATTTATTTTATTT
1301758 ATATTA-TTTATTT
1 AT-TTATTTTATTT
* *
1301771 A-CTATTTTATTA
1 ATTTATTTTATTT
*
1301783 ATATA-TTT-TTT
1 ATTTATTTTATTT
1301794 ATTTGATTTTATTT
1 ATTT-ATTTTATTT
1301808 ATTTATTTT
1 ATTTATTTT
1301817 TTTCCTTTGT
Statistics
Matches: 54, Mismatches: 12, Indels: 13
0.68 0.15 0.16
Matches are distributed among these distances:
11 7 0.13
12 11 0.20
13 19 0.35
14 17 0.31
ACGTcount: A:0.29, C:0.01, G:0.01, T:0.69
Consensus pattern (13 bp):
ATTTATTTTATTT
Found at i:1303012 original size:41 final size:42
Alignment explanation
Indices: 1302967--1303049 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
1302957 TTTTATTACT
* *
1302967 TTTAAAATTTA-ACATTTTTTTATTTTTTTTCCTTTGATTTA
1 TTTAAAATTTATACAATTTTTTAATTTTTTTCCTTTGATTTA
* **
1303008 TTTAATATTTATTTAATTTTTTAATTTTTTTCCTTTGATTTA
1 TTTAAAATTTATACAATTTTTTAATTTTTTTCCTTTGATTTA
1303050 CTATTTTATT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 10 0.28
42 26 0.72
ACGTcount: A:0.24, C:0.06, G:0.02, T:0.67
Consensus pattern (42 bp):
TTTAAAATTTATACAATTTTTTAATTTTTTTCCTTTGATTTA
Found at i:1303067 original size:6 final size:6
Alignment explanation
Indices: 1303053--1303091 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
1303043 TGATTTACTA
*
1303053 TTTTAT TTTTTT TTTTAT TTTTAT TTTTAT GTTTT-T TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT -TTTTAT TTT
1303092 CGATTTATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
5 3 0.10
6 23 0.77
7 4 0.13
ACGTcount: A:0.10, C:0.00, G:0.03, T:0.87
Consensus pattern (6 bp):
TTTTAT
Found at i:1303068 original size:12 final size:12
Alignment explanation
Indices: 1303053--1303091 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
1303043 TGATTTACTA
1303053 TTTTATTTTTTT
1 TTTTATTTTTTT
*
1303065 TTTTATTTTTAT
1 TTTTATTTTTTT
1303077 TTTTATGTTTTTT
1 TTTTAT-TTTTTT
1303090 TT
1 TT
1303092 CGATTTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 17 0.71
13 7 0.29
ACGTcount: A:0.10, C:0.00, G:0.03, T:0.87
Consensus pattern (12 bp):
TTTTATTTTTTT
Found at i:1305440 original size:14 final size:14
Alignment explanation
Indices: 1305421--1305449 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1305411 GGCAGGGTGA
1305421 GGAACTGGTAGAGT
1 GGAACTGGTAGAGT
1305435 GGAACTGGTAGAGT
1 GGAACTGGTAGAGT
1305449 G
1 G
1305450 TGGGTTGACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.07, G:0.45, T:0.21
Consensus pattern (14 bp):
GGAACTGGTAGAGT
Found at i:1305873 original size:67 final size:66
Alignment explanation
Indices: 1305821--1306075 Score: 339
Period size: 66 Copynumber: 3.8 Consensus size: 66
1305811 TATCCTTGGT
* *
1305821 GAGACGAAACTTTATTTCGAGAGAAACAATCTCAAAGGTTTATGTTTCAAGAGAATTTGTCTCAA
1 GAGAC-AAACTTTATTTCAAGAGAAACAATCTCAAAGGTTTATGTTTCAAGAGAAATTGTCTCAA
1305886 GC
65 GC
* * * * * *
1305888 GAAACAAATTTTATATCAAGAGAAACAATCTCAAAGTTTTATGTTTCAAGAGAAAATGTCTCAAC
1 GAGACAAACTTTATTTCAAGAGAAACAATCTCAAAGGTTTATGTTTCAAGAGAAATTGTCTCAAG
1305953 C
66 C
* * * *
1305954 GAGACGAAACTTTATTTCAAGAGAAACAATCTCAAAGTTTTATGTTTCAAGAGAATTTGTTTGAA
1 GAGAC-AAACTTTATTTCAAGAGAAACAATCTCAAAGGTTTATGTTTCAAGAGAAATTGTCTCAA
*
1306019 GT
65 GC
** * *
1306021 GAGACAAAAATTATTTCAAGAGAAACAATCTCAAAAGTTTTTGTTTCAAGAGAAA
1 GAGACAAACTTTATTTCAAGAGAAACAATCTCAAAGGTTTATGTTTCAAGAGAAA
1306076 CAATTTCAAA
Statistics
Matches: 164, Mismatches: 23, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
66 102 0.62
67 62 0.38
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.30
Consensus pattern (66 bp):
GAGACAAACTTTATTTCAAGAGAAACAATCTCAAAGGTTTATGTTTCAAGAGAAATTGTCTCAAG
C
Found at i:1305938 original size:30 final size:30
Alignment explanation
Indices: 1305903--1306008 Score: 83
Period size: 30 Copynumber: 3.3 Consensus size: 30
1305893 AAATTTTATA
1305903 TCAAGAGAAACAATCTCAAAGTTTTATGTT
1 TCAAGAGAAACAATCTCAAAGTTTTATGTT
* *
1305933 TCAAGAGAAA-ATGTCTCAACCGAGACGAAACTTTA--TT
1 TCAAGAGAAACA-ATCTC-A---A-A-G---TTTTATGTT
1305970 TCAAGAGAAACAATCTCAAAGTTTTATGTT
1 TCAAGAGAAACAATCTCAAAGTTTTATGTT
1306000 TCAAGAGAA
1 TCAAGAGAA
1306009 TTTGTTTGAA
Statistics
Matches: 59, Mismatches: 4, Indels: 26
0.66 0.04 0.29
Matches are distributed among these distances:
28 4 0.07
29 1 0.02
30 25 0.42
31 2 0.03
32 1 0.02
33 1 0.02
34 1 0.02
35 1 0.02
36 2 0.03
37 16 0.27
38 1 0.02
39 4 0.07
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (30 bp):
TCAAGAGAAACAATCTCAAAGTTTTATGTT
Found at i:1306040 original size:133 final size:133
Alignment explanation
Indices: 1305821--1306075 Score: 413
Period size: 133 Copynumber: 1.9 Consensus size: 133
1305811 TATCCTTGGT
*
1305821 GAGACGAAACTTTATTTCGAGAGAAACAATCTCAAAGGTTTATGTTTCAAGAGAATTTGTCTCAA
1 GAGACGAAACTTTATTTCAAGAGAAACAATCTCAAAGGTTTATGTTTCAAGAGAATTTGTCTCAA
**
1305886 GCGAAACAAATTTTATATCAAGAGAAACAATCTC-AAAGTTTTATGTTTCAAGAGAAAATGTCTC
66 GCGAAACAAAAATTATATCAAGAGAAACAATCTCAAAAGTTTT-TGTTTCAAGAGAAAATGTCTC
1305950 AACC
130 AACC
* * *
1305954 GAGACGAAACTTTATTTCAAGAGAAACAATCTCAAAGTTTTATGTTTCAAGAGAATTTGTTTGAA
1 GAGACGAAACTTTATTTCAAGAGAAACAATCTCAAAGGTTTATGTTTCAAGAGAATTTGTCTCAA
* * *
1306019 GTGAGACAAAAATTATTTCAAGAGAAACAATCTCAAAAGTTTTTGTTTCAAGAGAAA
66 GCGAAACAAAAATTATATCAAGAGAAACAATCTCAAAAGTTTTTGTTTCAAGAGAAA
1306076 CAATTTCAAA
Statistics
Matches: 112, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
133 104 0.93
134 8 0.07
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.30
Consensus pattern (133 bp):
GAGACGAAACTTTATTTCAAGAGAAACAATCTCAAAGGTTTATGTTTCAAGAGAATTTGTCTCAA
GCGAAACAAAAATTATATCAAGAGAAACAATCTCAAAAGTTTTTGTTTCAAGAGAAAATGTCTCA
ACC
Found at i:1306068 original size:30 final size:29
Alignment explanation
Indices: 1306034--1306114 Score: 99
Period size: 30 Copynumber: 2.7 Consensus size: 29
1306024 ACAAAAATTA
**
1306034 TTTCAAGAGAAACAATCTCAAAAGTTTTTG
1 TTTCAAGAGAAACAATCTCAAAA-TTTAAG
*
1306064 TTTCAAGAGAAACAATTTCAAAATTTAAG
1 TTTCAAGAGAAACAATCTCAAAATTTAAG
* *
1306093 TTTCAAGGGAAAACTATCTCAA
1 TTTCAAGAG-AAACAATCTCAA
1306115 GTGAGACAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
29 12 0.27
30 32 0.73
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.31
Consensus pattern (29 bp):
TTTCAAGAGAAACAATCTCAAAATTTAAG
Found at i:1306117 original size:96 final size:96
Alignment explanation
Indices: 1305968--1306151 Score: 219
Period size: 96 Copynumber: 1.9 Consensus size: 96
1305958 CGAAACTTTA
* * ** * * *
1305968 TTTCAAGAGAAACAATCTCAAAGTTTTATGTTTCAAGAGAATTTGTTTGAAGTGAGACAAAAATT
1 TTTCAAGAGAAACAATCTCAAAGATTTAAGTTTCAAGAGAAACTATCTCAAGTGAGACAAAAATT
1306033 ATTTCAA-GAGAAACAATCTCAAAAGTTTTTG
66 ATTTCAAGGA-AAACAATCTCAAAAGTTTTTG
* * *
1306064 TTTCAAGAGAAACAATTTCAAA-ATTTAAGTTTCAAGGGAAAACTATCTCAAGTGAGACAAAATT
1 TTTCAAGAGAAACAATCTCAAAGATTTAAGTTTCAAGAG-AAACTATCTCAAGTGAGACAAAAAT
* **
1306128 TGTTTTTAGGAAAACAATCTCAAA
65 TATTTCAAGGAAAACAATCTCAAA
1306152 TGAGTTCAAT
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
95 13 0.18
96 58 0.79
97 2 0.03
ACGTcount: A:0.42, C:0.11, G:0.15, T:0.32
Consensus pattern (96 bp):
TTTCAAGAGAAACAATCTCAAAGATTTAAGTTTCAAGAGAAACTATCTCAAGTGAGACAAAAATT
ATTTCAAGGAAAACAATCTCAAAAGTTTTTG
Found at i:1318493 original size:28 final size:28
Alignment explanation
Indices: 1318461--1318516 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
1318451 AATATCACAA
1318461 TCCTTCATGTTAACATAAGACTCTTTTT
1 TCCTTCATGTTAACATAAGACTCTTTTT
1318489 TCCTTCATGTTAACATAAGACTCTTTTT
1 TCCTTCATGTTAACATAAGACTCTTTTT
1318517 CGTTAGAGGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.21, G:0.07, T:0.46
Consensus pattern (28 bp):
TCCTTCATGTTAACATAAGACTCTTTTT
Found at i:1324217 original size:6 final size:6
Alignment explanation
Indices: 1324206--1324237 Score: 55
Period size: 6 Copynumber: 5.2 Consensus size: 6
1324196 AATTCTGTTA
1324206 TATTTT TATTTT TATTTT TATTTTT TATTTT T
1 TATTTT TATTTT TATTTT TA-TTTT TATTTT T
1324238 TTTCCGATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 19 0.76
7 6 0.24
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TATTTT
Found at i:1324221 original size:12 final size:13
Alignment explanation
Indices: 1324206--1324237 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
1324196 AATTCTGTTA
1324206 TATTTTTA-TTTT
1 TATTTTTATTTTT
1324218 TATTTTTATTTTT
1 TATTTTTATTTTT
1324231 TATTTTT
1 TATTTTT
1324238 TTTCCGATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
TATTTTTATTTTT
Found at i:1328943 original size:14 final size:16
Alignment explanation
Indices: 1328918--1328952 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
1328908 TAACATAATC
1328918 TAATTCTGATAAAATA
1 TAATTCTGATAAAATA
1328934 -AATTCT-ATAAAATA
1 TAATTCTGATAAAATA
1328948 TAATT
1 TAATT
1328953 GAATCAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.51, C:0.06, G:0.03, T:0.40
Consensus pattern (16 bp):
TAATTCTGATAAAATA
Found at i:1332015 original size:37 final size:37
Alignment explanation
Indices: 1331965--1332069 Score: 115
Period size: 37 Copynumber: 2.8 Consensus size: 37
1331955 GTGCTTGTGG
* * * *
1331965 ATCCTATCTTTAGGAATTTAAATCTTAGTAGAACTCT-
1 ATCCTATTTTTAGGAGTTTGAATC-TAGTAGAAATCTA
* *
1332002 ATCCTATTTTTAGGAGTTTGAATACTAG-CGAAATTTA
1 ATCCTATTTTTAGGAGTTTGAAT-CTAGTAGAAATCTA
1332039 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTGAAT-CTAGTAG
1332070 GACGAAAATG
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
36 5 0.09
37 50 0.88
38 2 0.04
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.41
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCTAGTAGAAATCTA
Found at i:1332920 original size:105 final size:105
Alignment explanation
Indices: 1332612--1333242 Score: 896
Period size: 105 Copynumber: 6.0 Consensus size: 105
1332602 GCATTGTTCC
* * ** *
1332612 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTG-GAACCGGGAAATTGTTTGTTGACA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAG-ATTGGGAAGTTG-TTGTTGACA
* * * * * *
1332676 ACCAGCCGTCCCTTCGTTGTGAAATTGAACTTGTGTTGTCTC
64 AGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
1332718 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGA-A-T--GAAATT-TTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
* * *
1332778 TAGCGGTCCCTTCGTCGTGGAGTTGAACTTGCATTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
1332818 GAGTCCAATATCCTTCGTTGTGAAGTTAAAATTGGCTCTGAGATTGGGAAGTTGTTATTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
*
1332883 CAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
1332923 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
*
1332988 CAGCGGTCCCTTTGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
1333028 AAGTCCAATATCCTTCGTTGGGAAGTTGAAAATGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
1333093 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
1333133 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTG-TTGTTGACAA
* * * * *
1333198 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
65 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
1333239 GAGT
1 GAGT
1333243 GTCACGATAT
Statistics
Matches: 477, Mismatches: 41, Indels: 14
0.90 0.08 0.03
Matches are distributed among these distances:
100 80 0.17
101 1 0.00
102 7 0.01
104 5 0.01
105 298 0.62
106 86 0.18
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.33
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:1333489 original size:36 final size:36
Alignment explanation
Indices: 1333442--1333517 Score: 116
Period size: 36 Copynumber: 2.1 Consensus size: 36
1333432 TGTTTGGAGA
* **
1333442 GAAACTGTCTCAAGGGAGACAAAATTCATTTCAAGG
1 GAAACTATCTCAAGCAAGACAAAATTCATTTCAAGG
*
1333478 GAAACTATCTCAAGCAAGATAAAATTCATTTCAAGG
1 GAAACTATCTCAAGCAAGACAAAATTCATTTCAAGG
1333514 GAAA
1 GAAA
1333518 TGTTTTCAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.43, C:0.16, G:0.18, T:0.22
Consensus pattern (36 bp):
GAAACTATCTCAAGCAAGACAAAATTCATTTCAAGG
Found at i:1333641 original size:105 final size:105
Alignment explanation
Indices: 1333417--1333735 Score: 486
Period size: 105 Copynumber: 3.1 Consensus size: 105
1333407 TTCGTTAAAT
* ** * *
1333417 TGTTTTCAAAGTTTATGTTTGGAGAGAAACTGTCTCAAGGGAGACAAAA--TTC-ATTTCAAGGG
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
* *
1333479 AAACTATCTCAAG-CAAGATAAAATTCATTTCAAGGGAAA
66 AAACTATCTCAAGAGAAGAAAAAATTCATTTCAAGGGAAA
1333518 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
* * *
1333583 AAACTATCTCAAGAGAAAAAAAAAATCATCTCAAGGGAAA
66 AAACTATCTCAAGAGAAGAAAAAATTCATTTCAAGGGAAA
*
1333623 TGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
* *
1333688 AAACTATCTCAGGAG-AGAAAAAATTAATTTCAAGGGAAA
66 AAACTATCTCAAGAGAAGAAAAAATTCATTTCAAGGGAAA
1333727 TGTTTTCAA
1 TGTTTTCAA
1333736 GAGAAACTGT
Statistics
Matches: 198, Mismatches: 16, Indels: 5
0.90 0.07 0.02
Matches are distributed among these distances:
101 46 0.23
103 3 0.02
104 50 0.25
105 99 0.50
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (105 bp):
TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
AAACTATCTCAAGAGAAGAAAAAATTCATTTCAAGGGAAA
Found at i:1333692 original size:39 final size:39
Alignment explanation
Indices: 1333638--1333712 Score: 107
Period size: 39 Copynumber: 1.9 Consensus size: 39
1333628 TCAATGTTTA
*
1333638 TGTTTCAAGAGAAACTATCTCAAGG-GAGACAAAATTTTC
1 TGTTTCAAGAGAAACTATCTC-AGGAGAGAAAAAATTTTC
* *
1333677 TGTTTCGAGGGAAACTATCTCAGGAGAGAAAAAATT
1 TGTTTCAAGAGAAACTATCTCAGGAGAGAAAAAATT
1333713 AATTTCAAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
38 3 0.09
39 29 0.91
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.27
Consensus pattern (39 bp):
TGTTTCAAGAGAAACTATCTCAGGAGAGAAAAAATTTTC
Found at i:1333911 original size:36 final size:36
Alignment explanation
Indices: 1333866--1333980 Score: 108
Period size: 36 Copynumber: 3.2 Consensus size: 36
1333856 GGTATCAAGC
*
1333866 GAGACAAATCTTGTTTTAAGAAAAACAATCTTGAGT
1 GAGATAAATCTTGTTTTAAGAAAAACAATCTTGAGT
* * ** * **
1333902 GAAATAAATCTTCTTTCGAGAAAAACAGTCTCAAGT
1 GAGATAAATCTTGTTTTAAGAAAAACAATCTTGAGT
* *
1333938 GAGACAAAGT-ATGTTTTAAGAAAAACAAAT-TTGAGT
1 GAGATAAA-TCTTGTTTTAAGAAAAAC-AATCTTGAGT
1333974 GAGATAA
1 GAGATAA
1333981 TCATCTGCAT
Statistics
Matches: 59, Mismatches: 18, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
36 56 0.95
37 3 0.05
ACGTcount: A:0.44, C:0.10, G:0.17, T:0.28
Consensus pattern (36 bp):
GAGATAAATCTTGTTTTAAGAAAAACAATCTTGAGT
Found at i:1333945 original size:72 final size:75
Alignment explanation
Indices: 1333819--1333980 Score: 208
Period size: 72 Copynumber: 2.2 Consensus size: 75
1333809 AAAAAATAGC
* * *
1333819 CTTGAGTGAAATGAAATGCCTTCTTTCGAGTGAAAACGGTATCAAGCGAGACAAA-TCTTGTTTT
1 CTTGAGTGAAAT-AAAT-CCTTCTTTCGAGTAAAAACAGTATCAAGCGAGACAAAGT-ATGTTTT
1333883 AAGAAAAAC-AAT
63 AAGAAAAACAAAT
* *
1333895 CTTGAGTGAAATAAAT-CTTCTTTCGAG-AAAAACAGTCTCAAGTGAGACAAAGTATGTTTTAAG
1 CTTGAGTGAAATAAATCCTTCTTTCGAGTAAAAACAGTATCAAGCGAGACAAAGTATGTTTTAAG
1333958 AAAAACAAAT
66 AAAAACAAAT
*
1333968 -TTGAGTGAGATAA
1 CTTGAGTGAAATAA
1333981 TCATCTGCAT
Statistics
Matches: 78, Mismatches: 6, Indels: 8
0.85 0.07 0.09
Matches are distributed among these distances:
72 47 0.60
73 15 0.19
75 4 0.05
76 12 0.15
ACGTcount: A:0.41, C:0.12, G:0.19, T:0.28
Consensus pattern (75 bp):
CTTGAGTGAAATAAATCCTTCTTTCGAGTAAAAACAGTATCAAGCGAGACAAAGTATGTTTTAAG
AAAAACAAAT
Found at i:1335417 original size:183 final size:183
Alignment explanation
Indices: 1335109--1335645 Score: 905
Period size: 183 Copynumber: 2.9 Consensus size: 183
1335099 ATCAGGTTTA
* ** *
1335109 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGATCTGACAAAAGCAGTAGAGCAAACACCGAATT
1 ACTGAAGGATTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
* ** *
1335174 GCCAAGTGTCCGAGCAATGTCAT-GATTTGAATGTAATCTATTCATAAAGTCAGGGCTTTCGAGT
66 GCCAAGTGTCCGAGCAGTGTCATAG-TTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGT
*
1335238 TTCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGTGGGACAAATC
130 TTCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
*
1335292 ACTGAAGGATTCGTCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
1 ACTGAAGGATTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
* *
1335357 GCCAAGTTTCCGAGCAGTGTCATAGTTTGGACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
66 GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
*
1335422 TCCTCTATAACCAATTACCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
131 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
*
1335475 ACTGAAGGACTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
1 ACTGAAGGATTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
*
1335540 GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCCTAAAGCCAGGGCTTTCGAGTT
66 GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
* *
1335605 TCCTCTATAACCAATTGTCTTAGTGGAATAACTCAGCTTTA
131 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
1335646 CGGATTTAAT
Statistics
Matches: 332, Mismatches: 21, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
183 331 1.00
184 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.28
Consensus pattern (183 bp):
ACTGAAGGATTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
Found at i:1339902 original size:8 final size:8
Alignment explanation
Indices: 1339818--1339916 Score: 50
Period size: 8 Copynumber: 12.5 Consensus size: 8
1339808 ATATTAAAGA
1339818 AATAT-AT
1 AATATAAT
1339825 ATATATAAT
1 A-ATATAAT
1339834 AATAATAA-
1 AAT-ATAAT
*
1339842 AATATAGT
1 AATATAAT
*
1339850 AA-A-AAA
1 AATATAAT
1339856 AATA-AAT
1 AATATAAT
*
1339863 GA-A-AAT
1 AATATAAT
*
1339869 AATTTAAT
1 AATATAAT
1339877 ATATATATAT
1 A-ATATA-AT
1339887 ATATATAAT
1 A-ATATAAT
1339896 AATATAAT
1 AATATAAT
*
1339904 AACATGAAT
1 AATAT-AAT
1339913 AATA
1 AATA
1339917 AAAATAAATG
Statistics
Matches: 72, Mismatches: 10, Indels: 18
0.72 0.10 0.18
Matches are distributed among these distances:
6 8 0.11
7 9 0.12
8 26 0.36
9 20 0.28
10 9 0.12
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (8 bp):
AATATAAT
Found at i:1339915 original size:17 final size:17
Alignment explanation
Indices: 1339891--1339931 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 17
1339881 ATATATATAT
1339891 ATAATAATATAATAACATGA
1 ATAATAA-A-AATAA-ATGA
1339911 ATAATAAAAATAAATGA
1 ATAATAAAAATAAATGA
1339928 ATAA
1 ATAA
1339932 AATATCCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.38
18 5 0.24
19 1 0.05
20 7 0.33
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (17 bp):
ATAATAAAAATAAATGA
Found at i:1339943 original size:62 final size:62
Alignment explanation
Indices: 1339819--1339936 Score: 150
Period size: 62 Copynumber: 1.9 Consensus size: 62
1339809 TATTAAAGAA
* * * *
1339819 ATATATATATATAATAATAATAAAATATAGTAAAAAAAATAAATGAAAATAATTTAATATAT
1 ATATATATATATAATAATAATAAAACATAATAAAAAAAATAAATGAAAATAATATAACATAT
*
1339881 ATATATATATATAATAAT-ATAATAACATGAATAATAAAAATAAATGAATAA-AATAT
1 ATATATATATATAATAATAATAA-AACAT-AATAAAAAAAATAAATGAA-AATAATAT
1339937 CCATATAATA
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
61 4 0.08
62 22 0.45
63 21 0.43
64 2 0.04
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (62 bp):
ATATATATATATAATAATAATAAAACATAATAAAAAAAATAAATGAAAATAATATAACATAT
Found at i:1340341 original size:37 final size:37
Alignment explanation
Indices: 1340291--1340391 Score: 130
Period size: 37 Copynumber: 2.7 Consensus size: 37
1340281 GTGCTTGTGG
* * * * *
1340291 ATCCTATCTTTAGGAATTTAAATCTTAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTAAATCCTAGCAAAACTCT
* *
1340328 ATCCTATTTTTAGGAGTTTAAATCCTAGCAAAATTTT
1 ATCCTATTTTTAGGAGTTTAAATCCTAGCAAAACTCT
*
1340365 ATCCTATTTTTAGGAGTTTGAATCCTA
1 ATCCTATTTTTAGGAGTTTAAATCCTA
1340392 ATAGGACGAA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.43
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTAAATCCTAGCAAAACTCT
Found at i:1347485 original size:39 final size:39
Alignment explanation
Indices: 1347430--1347850 Score: 632
Period size: 39 Copynumber: 10.8 Consensus size: 39
1347420 ATTTTTTTAA
* * * * * *
1347430 AGAATATTTTATCTCACTTGAGATGGTTTCTCTTGAAAC
1 AGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAAC
* *
1347469 AAAAGATTTTGTCTCACTTGAGATAGTTTCCCTCGAAAC
1 AGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAAC
* *
1347508 AGAAGA-TTTATCTCGCTTGAGATAGTTTCCCTCAAAAC
1 AGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAAC
* *
1347546 AGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTTGAAAT
1 AGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAAC
*
1347585 AGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTTGAAAC
1 AGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAAC
* * *
1347624 AGAAGA-TTTATCTTGCTTGAGATAGTTTTCCTCGAAAC
1 AGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAAC
1347662 AGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAAC
1 AGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAAC
1347701 AGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAAC
1 AGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAAC
*
1347740 AGAAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAAC
1 AGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAAC
1347779 AGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAAC
1 AGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAAC
* * *
1347818 AGAA-AGTTTTGTCTCCCTTGAGACAATTTCCCT
1 AGAAGA-TTTTGTCTCGCTTGAGATAGTTTCCCT
1347851 TAAAAAAATT
Statistics
Matches: 352, Mismatches: 27, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
38 70 0.20
39 282 0.80
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.35
Consensus pattern (39 bp):
AGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAAC
Found at i:1347642 original size:116 final size:116
Alignment explanation
Indices: 1347430--1347850 Score: 664
Period size: 116 Copynumber: 3.6 Consensus size: 116
1347420 ATTTTTTTAA
* * * * * * * *
1347430 AGAATATTTTATCTCACTTGAGATGGTTTCTCTTGAAACAAAAGATTTTGTCTCACTTGAGATAG
1 AGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAACAGAAGATTTTGTCTCGCTTGAGATAG
*
1347495 TTTCCCTCGAAACAGAAGATTTATCTCGCTTGAGATAGTTTCCCTCAAAAC
66 TTTCCCTCGAAACAGAAGATTTATCTCGCTTGAGATAGTTTCCCTCGAAAC
* *
1347546 AGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTTGAAATAGAAGATTTTGTCTCGCTTGAGATAG
1 AGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAACAGAAGATTTTGTCTCGCTTGAGATAG
* * *
1347611 TTTCCCTTGAAACAGAAGATTTATCTTGCTTGAGATAGTTTTCCTCGAAAC
66 TTTCCCTCGAAACAGAAGATTTATCTCGCTTGAGATAGTTTCCCTCGAAAC
1347662 AGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAACAGAAGATTTTGTCTCGCTTGAGATAG
1 AGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAACAGAAGATTTTGTCTCGCTTGAGATAG
1347727 TTTCCCTCGAAACAGAAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAAC
66 TTTCCCTCGAAACAGAAGA-TTTATCTCGCTTGAGATAGTTTCCCTCGAAAC
* *
1347779 AGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAACAGAA-AGTTTTGTCTCCCTTGAGACA
1 AGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAACAGAAGA-TTTTGTCTCGCTTGAGATA
*
1347843 ATTTCCCT
65 GTTTCCCT
1347851 TAAAAAAATT
Statistics
Matches: 283, Mismatches: 20, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
116 186 0.66
117 97 0.34
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.35
Consensus pattern (116 bp):
AGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAACAGAAGATTTTGTCTCGCTTGAGATAG
TTTCCCTCGAAACAGAAGATTTATCTCGCTTGAGATAGTTTCCCTCGAAAC
Found at i:1347983 original size:36 final size:36
Alignment explanation
Indices: 1347943--1348143 Score: 132
Period size: 36 Copynumber: 5.7 Consensus size: 36
1347933 ATCATTTCCC
**
1347943 CTTGAAATGAATTTTGTCTCTCTTGAAACAGTTTCT
1 CTTGAAACAAATTTTGTCTCTCTTGAAACAGTTTCT
* *
1347979 CTTGAAACAAATTTTGTCTCTCTTGAGATAGTTTCT
1 CTTGAAACAAATTTTGTCTCTCTTGAAACAGTTTCT
** * *
1348015 CTTGAAACACAA-----AATCT-TTGAATA-TGTTTCC
1 CTTGAAACA-AATTTTGTCTCTCTTGAA-ACAGTTTCT
** * *
1348046 CTTGAAAC-AATATTCATCTCCCTTGAGACAGTTTCT
1 CTTGAAACAAAT-TTTGTCTCTCTTGAAACAGTTTCT
** *
1348082 CTTGAAACAAAGTTTTGTCTCTCTAT-AGTCAGTTTCC
1 CTTGAAACAAA-TTTTGTCTCTCT-TGAAACAGTTTCT
* * *
1348119 CTCGAAACAAATTTTATCTCACTTG
1 CTTGAAACAAATTTTGTCTCTCTTG
1348144 GGATAGTGAA
Statistics
Matches: 128, Mismatches: 23, Indels: 28
0.72 0.13 0.16
Matches are distributed among these distances:
29 2 0.02
31 17 0.13
32 4 0.03
35 4 0.03
36 68 0.53
37 31 0.24
38 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.40
Consensus pattern (36 bp):
CTTGAAACAAATTTTGTCTCTCTTGAAACAGTTTCT
Found at i:1348035 original size:103 final size:104
Alignment explanation
Indices: 1347906--1348127 Score: 301
Period size: 103 Copynumber: 2.1 Consensus size: 104
1347896 CTTTGAAAAT
* ** *
1347906 GTTTCCCTTGAAACACAAAATCTTTGAATCAT-TTCCCCTTGAAATGAAT-TTTGTCTCTCTTGA
1 GTTTCCCTTGAAACACAAAATCTTTGAAT-ATGTTCCCCTTGAAA-CAATATTCATCTCCCTTGA
1347969 AACAGTTTCTCTTGAAACAAA-TTTTGTCTCTCTTGAGATA
64 AACAGTTTCTCTTGAAACAAAGTTTTGTCTCTCTTGAGATA
* * *
1348009 GTTTCTCTTGAAACACAAAATCTTTGAATATGTTTCCCTTGAAACAATATTCATCTCCCTTGAGA
1 GTTTCCCTTGAAACACAAAATCTTTGAATATGTTCCCCTTGAAACAATATTCATCTCCCTTGAAA
1348074 CAGTTTCTCTTGAAACAAAGTTTTGTCTCTCTAT-AG-TCA
66 CAGTTTCTCTTGAAACAAAGTTTTGTCTCTCT-TGAGAT-A
*
1348113 GTTTCCCTCGAAACA
1 GTTTCCCTTGAAACA
1348128 AATTTTATCT
Statistics
Matches: 105, Mismatches: 9, Indels: 9
0.85 0.07 0.07
Matches are distributed among these distances:
102 5 0.05
103 71 0.68
104 28 0.27
105 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.38
Consensus pattern (104 bp):
GTTTCCCTTGAAACACAAAATCTTTGAATATGTTCCCCTTGAAACAATATTCATCTCCCTTGAAA
CAGTTTCTCTTGAAACAAAGTTTTGTCTCTCTTGAGATA
Found at i:1348497 original size:92 final size:92
Alignment explanation
Indices: 1348340--1348508 Score: 286
Period size: 92 Copynumber: 1.8 Consensus size: 92
1348330 AAATTTCAAA
* *
1348340 TGGAGAGTTCATAATGAGAAGAACTTATCTAATGAGGGAGAAGAAGTTCATAATGAGAAGAACTT
1 TGGAGAGTTCATAATGAGAAAAACTCATCTAATGAGGGAGAAGAAGTTCATAATGAGAAGAACTT
*
1348405 GTTCGACCTTGGATTAACATTTTCCAG
66 GTTCAACCTTGGATTAACATTTTCCAG
*
1348432 TGGAGAGTTCATAATGAGAAAAACTCAT-TCGATGAGGGAGAAGAAGTTCATAATGAGAAGAACT
1 TGGAGAGTTCATAATGAGAAAAACTCATCT-AATGAGGGAGAAGAAGTTCATAATGAGAAGAACT
1348496 TGTTCAACCTTGG
65 TGTTCAACCTTGG
1348509 TTCAATTCCA
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
91 1 0.01
92 71 0.99
ACGTcount: A:0.37, C:0.12, G:0.25, T:0.27
Consensus pattern (92 bp):
TGGAGAGTTCATAATGAGAAAAACTCATCTAATGAGGGAGAAGAAGTTCATAATGAGAAGAACTT
GTTCAACCTTGGATTAACATTTTCCAG
Found at i:1348655 original size:90 final size:91
Alignment explanation
Indices: 1348555--1348807 Score: 409
Period size: 91 Copynumber: 2.8 Consensus size: 91
1348545 CCAATGGGAG
* * * * * *
1348555 AGTTCATAATGAGAAGAACTCGTTTAACCTTGGCTCAACATTTCTAGTAGAGAGTTCATAATGAG
1 AGTTCATAATGAGAAGAACTTGTTCAACCTTGGCTCAGCATTTCCAATGGAGAGTTCATAATGAG
1348620 AAGAACTCATCCAACAA-GGAGAAGA
66 AAGAACTCATCCAACAAGGGAGAAGA
*
1348645 AGTTCATAATGAGAAGAACTTGTTCAACCTGGGCTCAGCATTTCCAATGGAGAGTTCATAATGAG
1 AGTTCATAATGAGAAGAACTTGTTCAACCTTGGCTCAGCATTTCCAATGGAGAGTTCATAATGAG
1348710 AAGAACTCATCCAACAAGGGAGAAGA
66 AAGAACTCATCCAACAAGGGAGAAGA
* * *
1348736 AGTTCATAATGAGAAGAACTTGTTCAACCTTGGTTCGGTATTTCCAATGGAGAGTTCATAATGAG
1 AGTTCATAATGAGAAGAACTTGTTCAACCTTGGCTCAGCATTTCCAATGGAGAGTTCATAATGAG
1348801 AAGAACT
66 AAGAACT
1348808 TATTCAACCT
Statistics
Matches: 151, Mismatches: 11, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
90 75 0.50
91 76 0.50
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (91 bp):
AGTTCATAATGAGAAGAACTTGTTCAACCTTGGCTCAGCATTTCCAATGGAGAGTTCATAATGAG
AAGAACTCATCCAACAAGGGAGAAGA
Found at i:1349006 original size:88 final size:86
Alignment explanation
Indices: 1348910--1349075 Score: 246
Period size: 88 Copynumber: 1.9 Consensus size: 86
1348900 CAACTTTTAG
* *
1348910 CTCGATTCTATCACAGAATGAGGTAGATTAGCACCGAA-ATCTTGTTCGATTCCATAACGGAATG
1 CTCGATTCTATCACAGAATGAGGTAGATCAGCACC-AATATC--GTTCGATTCCATAACAGAATG
*
1348974 AGAG-GGATCGACATTTTCATTTCA
63 AG-GTGGATCAACATTTTCATTTCA
*
1348998 CTCGATTCTATCACAGAATGAGGTAGATCAGCACCAATATCGTTCGATTCCATCACAGAATGAGG
1 CTCGATTCTATCACAGAATGAGGTAGATCAGCACCAATATCGTTCGATTCCATAACAGAATGAGG
1349063 TGGATCAACATTT
66 TGGATCAACATTT
1349076 CAATATAATG
Statistics
Matches: 72, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
85 1 0.01
86 32 0.44
87 2 0.03
88 37 0.51
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.28
Consensus pattern (86 bp):
CTCGATTCTATCACAGAATGAGGTAGATCAGCACCAATATCGTTCGATTCCATAACAGAATGAGG
TGGATCAACATTTTCATTTCA
Found at i:1350295 original size:25 final size:25
Alignment explanation
Indices: 1350250--1350314 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
1350240 TTTTATTTTA
* ** *
1350250 TATTTTTAATTGTTTTTATTATCTT
1 TATTTTTAATTATTTCAATTAACTT
*
1350275 T-TGTTTTAATTATTTCAATTAAGTT
1 TAT-TTTTAATTATTTCAATTAACTT
1350300 TATTTTTAATTATTT
1 TATTTTTAATTATTT
1350315 TGTTTCATAG
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
24 1 0.03
25 31 0.94
26 1 0.03
ACGTcount: A:0.25, C:0.03, G:0.05, T:0.68
Consensus pattern (25 bp):
TATTTTTAATTATTTCAATTAACTT
Found at i:1354384 original size:591 final size:591
Alignment explanation
Indices: 1352813--1354589 Score: 3511
Period size: 591 Copynumber: 3.0 Consensus size: 591
1352803 GGAGGGCCTG
*
1352813 GGAAGCGCTTCGATGTAAGCAGGCCAAGGTTTATTGGTTCAAAGTTGTCTGGGGGACTTTATATT
1 GGAAGCGCTTCGATGTAAGCGGGCCAAGGTTTATTGGTTCAAAGTTGTCTGGGGGACTTTATATT
*
1352878 CCTAAACACTCGTTCATCTCTTGGCTTGCTCTCCTTGATCGTTTGCCAACTAAGGTACGTATGAT
66 CCTAAACACTCGTTCATCTCTTGGCTTGCTCTCCTTGATCGTTTGCCAACTAAGGTACGTATGCT
1352943 CTGTTGGGGGTAGTGTTGAACCTATTTGTATTCTTTGTAACATTGATGCGGAGGTAGAGATTATT
131 CTGTTGGGGGTAGTGTTGAACCTATTTGTATTCTTTGTAACATTGATGCGGAGGTAGAGATTATT
1353008 GTTTTGTTGTTTGTAGATTTTCTAGTCAGATTTGGTCTGAAATTTTACGAGCCTGTCATATTGGT
196 GTTTTGTTGTTTGTAGATTTTCTAGTCAGATTTGGTCTGAAATTTTACGAGCCTGTCATATTGGT
1353073 TTGACTATGGTTTTTTGTTTGGATATTGTTAGATGGGTTTGTGCTCAGGGTTGTGGTAAGTCTTT
261 TTGACTATGGTTTTTTGTTTGGATATTGTTAGATGGGTTTGTGCTCAGGGTTGTGGTAAGTCTTT
1353138 GAATGCTGCTGTCATTCAGACATCTTTGTATTGCTATCTCTATTTTGTTTGGCAGGAGAGAAATA
326 GAATGCTGCTGTCATTCAGACATCTTTGTATTGCTATCTCTATTTTGTTTGGCAGGAGAGAAATA
1353203 ATTTGTTACACGAGAATGGTATTGTTATGCAGGTGAAGTTTGTTGTTCAATCGAGGTTGAAGGGG
391 ATTTGTTACACGAGAATGGTATTGTTATGCAGGTGAAGTTTGTTGTTCAATCGAGGTTGAAGGGG
* *
1353268 AGTGTAAGGGTTACTTCCTCCTCCTTTAGGCTAGCTGCAGAATGGGATGTATTATAAGATTTTGT
456 AGTGTAAGGGTTACTTCCTCCTCCTTTAGGCTAGCTGCAGAATGGGATCTATTATAAGCTTTTGT
1353333 TTTATTCCTTATAAGTTTGTTTATAGTTATTTTATA-TTTTTTGTTGATTTGGGGGCTTTTGCTT
521 TTTATTCCTTATAAGTTTGTTTATAGTTATTTTATAGTTTTTTGTTGATTTGGGGGCTTTTGCTT
1353397 TGTCAT
586 TGTCAT
1353403 GGAAGCGCTTCGATGTAAGCGGGCCAAGGTTTATTGGTTCAAAGTTGTCTGGGGGACTTTATATT
1 GGAAGCGCTTCGATGTAAGCGGGCCAAGGTTTATTGGTTCAAAGTTGTCTGGGGGACTTTATATT
1353468 CCTAAACACTCGTTCATCTCTTGGCTTGCTCTCCTTGATCGTTTGCCAACTAAGGTACGTATGCT
66 CCTAAACACTCGTTCATCTCTTGGCTTGCTCTCCTTGATCGTTTGCCAACTAAGGTACGTATGCT
1353533 CTGTTGGGGGTAGTGTTGAACCTATTTGTATTCTTTGTAACATTGATGCGGAGGTAGAGATTATT
131 CTGTTGGGGGTAGTGTTGAACCTATTTGTATTCTTTGTAACATTGATGCGGAGGTAGAGATTATT
1353598 GTTTTGTTGTTTGTAGATTTTCTAGTCAGATTTGGTCTGAAATTTTACGAGCCTGTCATATTGGT
196 GTTTTGTTGTTTGTAGATTTTCTAGTCAGATTTGGTCTGAAATTTTACGAGCCTGTCATATTGGT
1353663 TTGACTATGGTTTTTTGTTTGGATATTGTTAGATGGGTTTGTGCTCAGGGTTGTGGTAAGTCTTT
261 TTGACTATGGTTTTTTGTTTGGATATTGTTAGATGGGTTTGTGCTCAGGGTTGTGGTAAGTCTTT
1353728 GAATGCTGCTGTCATTCAGACATCTTTGTATTGCTATCTCTATTTTGTTTGGCAGGAGAGAAATA
326 GAATGCTGCTGTCATTCAGACATCTTTGTATTGCTATCTCTATTTTGTTTGGCAGGAGAGAAATA
1353793 ATTTGTTACACGAGAATGGTATTGTTATGCAGGTGAAGTTTGTTGTTCAATCGAGGTTGAAGGGG
391 ATTTGTTACACGAGAATGGTATTGTTATGCAGGTGAAGTTTGTTGTTCAATCGAGGTTGAAGGGG
1353858 AGTGTAAGGGTTACTTCCTCCTCCTTTAGGCTAGCTGCAGAATGGGATCTATTATAAGCTTTTGT
456 AGTGTAAGGGTTACTTCCTCCTCCTTTAGGCTAGCTGCAGAATGGGATCTATTATAAGCTTTTGT
1353923 TTTATTCCTTATAAGTTTGTTTATAGTTATTTTATAGTTTTTTGTTGATTTGGGGGCTTTTGCTT
521 TTTATTCCTTATAAGTTTGTTTATAGTTATTTTATAGTTTTTTGTTGATTTGGGGGCTTTTGCTT
1353988 TGTCAT
586 TGTCAT
1353994 GGAAGCGCTTCGATGTAAGCGGGCCAAGGTTTATTGGTTCAAAGTTGTCTGGGGGACTTTATATT
1 GGAAGCGCTTCGATGTAAGCGGGCCAAGGTTTATTGGTTCAAAGTTGTCTGGGGGACTTTATATT
1354059 CCTAAACACTCGTTCATCTCTTGGCTTGCTCTCCTTGATCGTTTGCCAACTAAGGTACGTATGCT
66 CCTAAACACTCGTTCATCTCTTGGCTTGCTCTCCTTGATCGTTTGCCAACTAAGGTACGTATGCT
1354124 CTGTTGGGGGTAGTGTTGAACCTATTTGTATTCTTTGTAACATTGATGCGGAGGTAGAGATTATT
131 CTGTTGGGGGTAGTGTTGAACCTATTTGTATTCTTTGTAACATTGATGCGGAGGTAGAGATTATT
1354189 GTTTTGTTGTTTGTAGATTTTCTAGTCAGATTTGGTCTGAAATTTTACGAGCCTGTCATATTGGT
196 GTTTTGTTGTTTGTAGATTTTCTAGTCAGATTTGGTCTGAAATTTTACGAGCCTGTCATATTGGT
1354254 TTGACTATGGTTTTTTGTTTGGATATTGTTAGATGGGTTTGTGCTCAGGGTTGTGGTAAGTCTTT
261 TTGACTATGGTTTTTTGTTTGGATATTGTTAGATGGGTTTGTGCTCAGGGTTGTGGTAAGTCTTT
1354319 GAATGCTGCTGTCATTCAGACATCTTTGTATTGCTATCTCTATTTTGTTTGGCAGGAGAGAAATA
326 GAATGCTGCTGTCATTCAGACATCTTTGTATTGCTATCTCTATTTTGTTTGGCAGGAGAGAAATA
1354384 ATTTGTTACACGAGAATGGTATTGTTATGCAGGTGAAGTTTGTTGTTCAATCGAGGTTGAAGGGG
391 ATTTGTTACACGAGAATGGTATTGTTATGCAGGTGAAGTTTGTTGTTCAATCGAGGTTGAAGGGG
1354449 AGTGTAAGGGTTACTTCCTCCTCCTTTAGGCTAGCTGCAGAATGGGATCTATTATAAGCTTTTGT
456 AGTGTAAGGGTTACTTCCTCCTCCTTTAGGCTAGCTGCAGAATGGGATCTATTATAAGCTTTTGT
1354514 TTTATTCCTTATAAGTTTGTTTATAGTTATTTTATAGTTTTTTGTTGATTTGGGGGCTTTTGCTT
521 TTTATTCCTTATAAGTTTGTTTATAGTTATTTTATAGTTTTTTGTTGATTTGGGGGCTTTTGCTT
1354579 TGTCAT
586 TGTCAT
1354585 GGAAG
1 GGAAG
1354590 GTTCTTTTTA
Statistics
Matches: 1182, Mismatches: 4, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
590 552 0.47
591 630 0.53
ACGTcount: A:0.20, C:0.13, G:0.25, T:0.42
Consensus pattern (591 bp):
GGAAGCGCTTCGATGTAAGCGGGCCAAGGTTTATTGGTTCAAAGTTGTCTGGGGGACTTTATATT
CCTAAACACTCGTTCATCTCTTGGCTTGCTCTCCTTGATCGTTTGCCAACTAAGGTACGTATGCT
CTGTTGGGGGTAGTGTTGAACCTATTTGTATTCTTTGTAACATTGATGCGGAGGTAGAGATTATT
GTTTTGTTGTTTGTAGATTTTCTAGTCAGATTTGGTCTGAAATTTTACGAGCCTGTCATATTGGT
TTGACTATGGTTTTTTGTTTGGATATTGTTAGATGGGTTTGTGCTCAGGGTTGTGGTAAGTCTTT
GAATGCTGCTGTCATTCAGACATCTTTGTATTGCTATCTCTATTTTGTTTGGCAGGAGAGAAATA
ATTTGTTACACGAGAATGGTATTGTTATGCAGGTGAAGTTTGTTGTTCAATCGAGGTTGAAGGGG
AGTGTAAGGGTTACTTCCTCCTCCTTTAGGCTAGCTGCAGAATGGGATCTATTATAAGCTTTTGT
TTTATTCCTTATAAGTTTGTTTATAGTTATTTTATAGTTTTTTGTTGATTTGGGGGCTTTTGCTT
TGTCAT
Found at i:1356769 original size:35 final size:36
Alignment explanation
Indices: 1356718--1356814 Score: 108
Period size: 36 Copynumber: 2.7 Consensus size: 36
1356708 AACACAATTA
* *
1356718 TCAATTACATTCTAAACCCCAAATTTC-AAAATGA-T
1 TCAATTACATTTTAAACCCCAAATTCCAAAAAT-ACT
*
1356753 TCAATTACATTTTAAACCTCAAATTCCAAAAATACT
1 TCAATTACATTTTAAACCCCAAATTCCAAAAATACT
* ** *
1356789 TAAATTACATTTCCAACCCTAAATTC
1 TCAATTACATTTTAAACCCCAAATTC
1356815 ATAATCCATT
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
35 25 0.48
36 27 0.52
ACGTcount: A:0.42, C:0.24, G:0.01, T:0.33
Consensus pattern (36 bp):
TCAATTACATTTTAAACCCCAAATTCCAAAAATACT
Found at i:1357578 original size:140 final size:140
Alignment explanation
Indices: 1357326--1357588 Score: 436
Period size: 140 Copynumber: 1.9 Consensus size: 140
1357316 TTATAGTATT
*
1357326 ATAAATATTTATAATTAAATTTAAACATAAACTCAAAAATTCAATTCAATTCGACTTGATTTAAA
1 ATAAATATTTATAATTAAATTTAAACAGAAACTCAAAAATTCAATTCAATTCGACTTGATTTAAA
* * *** *
1357391 TTTTATAAACTCAAATCGAAGAACTTTTGAGTCAACTATTTTATAAACTGAACTGAATTAGAATC
66 TTTTATAAACTCAAATCAAAAAAAAATTAAGTCAACTATTTTATAAACTGAACTGAATTAGAATC
1357456 AACTAATATA
131 AACTAATATA
* *
1357466 ATAAATATTTATAATTAAGTTTAAACAGAAACTCGAAAATTCAATTCAATTCGACTTGATTTAAA
1 ATAAATATTTATAATTAAATTTAAACAGAAACTCAAAAATTCAATTCAATTCGACTTGATTTAAA
*
1357531 TTTTATAAACTCAAATCAAAAAAAAATTAAGTCAACTATTTTATAAACTGAATTGAAT
66 TTTTATAAACTCAAATCAAAAAAAAATTAAGTCAACTATTTTATAAACTGAACTGAAT
1357589 ATTTAGGTCC
Statistics
Matches: 113, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
140 113 1.00
ACGTcount: A:0.47, C:0.11, G:0.06, T:0.35
Consensus pattern (140 bp):
ATAAATATTTATAATTAAATTTAAACAGAAACTCAAAAATTCAATTCAATTCGACTTGATTTAAA
TTTTATAAACTCAAATCAAAAAAAAATTAAGTCAACTATTTTATAAACTGAACTGAATTAGAATC
AACTAATATA
Found at i:1359019 original size:25 final size:24
Alignment explanation
Indices: 1358966--1359024 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 24
1358956 TTTAAATTGT
* **
1358966 ATTAAAAATTTTAGAAGATGTGGA
1 ATTATAAATTTTAGAAGATGTAAA
* *
1358990 GTTATGAAATTTTAGGAGATGTAAA
1 ATTAT-AAATTTTAGAAGATGTAAA
1359015 ATTATAAATT
1 ATTATAAATT
1359025 AAATAAAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
24 8 0.29
25 20 0.71
ACGTcount: A:0.44, C:0.00, G:0.19, T:0.37
Consensus pattern (24 bp):
ATTATAAATTTTAGAAGATGTAAA
Found at i:1360591 original size:37 final size:38
Alignment explanation
Indices: 1360522--1360594 Score: 103
Period size: 37 Copynumber: 1.9 Consensus size: 38
1360512 AGGCAAAGAG
*
1360522 TTTGTAAAAGCATAACTTTGCCACAATGGTACTATGAA
1 TTTGTAAAAGCATAACTTTGCCACAATAGTACTATGAA
* **
1360560 TTTGTAAAAGTATAAC-TTGCCTGAATAGTACTATG
1 TTTGTAAAAGCATAACTTTGCCACAATAGTACTATG
1360595 TGCAAGAAGC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 16 0.52
38 15 0.48
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (38 bp):
TTTGTAAAAGCATAACTTTGCCACAATAGTACTATGAA
Found at i:1360866 original size:12 final size:12
Alignment explanation
Indices: 1360838--1360874 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
1360828 TTTGGTAATC
1360838 CCCGCCCCGATTA
1 CCCGCCCCGA-TA
1360851 CCCGCCCCGATA
1 CCCGCCCCGATA
*
1360863 CCCGACCCGATA
1 CCCGCCCCGATA
1360875 AATATTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 13 0.57
13 10 0.43
ACGTcount: A:0.19, C:0.54, G:0.16, T:0.11
Consensus pattern (12 bp):
CCCGCCCCGATA
Found at i:1360927 original size:32 final size:32
Alignment explanation
Indices: 1360875--1360971 Score: 110
Period size: 32 Copynumber: 3.0 Consensus size: 32
1360865 CGACCCGATA
*
1360875 AATATTAA-AAATAATT-ATTTATATATATATAT
1 AATATTAATAAAT--TTAATTTAAATATATATAT
*
1360907 AATATTAATAAATTTAATTTAAATA-AAATAT
1 AATATTAATAAATTTAATTTAAATATATATAT
* *
1360938 ATATATTTATATATTTAATTTAAATATATATAT
1 A-ATATTAATAAATTTAATTTAAATATATATAT
1360971 A
1 A
1360972 TACCCGACCC
Statistics
Matches: 56, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
31 8 0.14
32 38 0.68
33 10 0.18
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (32 bp):
AATATTAATAAATTTAATTTAAATATATATAT
Found at i:1361014 original size:12 final size:12
Alignment explanation
Indices: 1360971--1361023 Score: 74
Period size: 11 Copynumber: 4.6 Consensus size: 12
1360961 ATATATATAT
1360971 ATACCCGACCCA
1 ATACCCGACCCA
* *
1360983 AT-TCCGGCCCA
1 ATACCCGACCCA
1360994 ATA-CCGACCCA
1 ATACCCGACCCA
1361005 ATACCCGACCCA
1 ATACCCGACCCA
1361017 ATACCCG
1 ATACCCG
1361024 TTTAAATAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
11 19 0.53
12 17 0.47
ACGTcount: A:0.30, C:0.47, G:0.11, T:0.11
Consensus pattern (12 bp):
ATACCCGACCCA
Found at i:1373246 original size:13 final size:14
Alignment explanation
Indices: 1373223--1373251 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
1373213 GCCAATTTTC
1373223 TTTTCTCTTTGTTT
1 TTTTCTCTTTGTTT
1373237 TTTTCT-TTTGTTT
1 TTTTCTCTTTGTTT
1373250 TT
1 TT
1373252 AATAAGAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.00, C:0.10, G:0.07, T:0.83
Consensus pattern (14 bp):
TTTTCTCTTTGTTT
Found at i:1373442 original size:21 final size:21
Alignment explanation
Indices: 1373416--1373459 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
1373406 CTTACTCGAA
1373416 ATCTTGTTGATCTTCCCTGCT
1 ATCTTGTTGATCTTCCCTGCT
1373437 ATCTTGTTGATCTTCCCTGCT
1 ATCTTGTTGATCTTCCCTGCT
1373458 AT
1 AT
1373460 GGACGTTGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.11, C:0.27, G:0.14, T:0.48
Consensus pattern (21 bp):
ATCTTGTTGATCTTCCCTGCT
Found at i:1374270 original size:30 final size:31
Alignment explanation
Indices: 1374236--1374294 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
1374226 TTTATTATAT
1374236 TTCT-ATAAATTTAA-TTTTTTAAAAATAATC
1 TTCTAATAAA-TTAATTTTTTTAAAAATAATC
*
1374266 TTCTAATAAATTAATTTTTTTTAAAATAA
1 TTCTAATAAATTAATTTTTTTAAAAATAA
1374295 CTTATTCAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 8 0.31
31 18 0.69
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (31 bp):
TTCTAATAAATTAATTTTTTTAAAAATAATC
Found at i:1374306 original size:32 final size:30
Alignment explanation
Indices: 1374236--1374308 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 30
1374226 TTTATTATAT
*
1374236 TTCT-ATAAATTTAATTTTTTAAAAATAATC
1 TTCTAATAAA-TTAATTTTTTAAAAATAATA
*
1374266 TTCTAATAAATTAATTTTTTTTAAAATAACTTA
1 TTCTAATAAATTAA-TTTTTTAAAAATAA--TA
1374299 TTC-AATAAAT
1 TTCTAATAAAT
1374309 GAAGTGAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
30 8 0.22
31 18 0.49
32 7 0.19
33 4 0.11
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (30 bp):
TTCTAATAAATTAATTTTTTAAAAATAATA
Found at i:1377379 original size:18 final size:18
Alignment explanation
Indices: 1377358--1377393 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1377348 GGGGGTTTTG
*
1377358 GTAAAATGAGAGTAAATA
1 GTAAAAAGAGAGTAAATA
*
1377376 GTAAAAAGAGATTAAATA
1 GTAAAAAGAGAGTAAATA
1377394 AATAAAAGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.19, T:0.22
Consensus pattern (18 bp):
GTAAAAAGAGAGTAAATA
Found at i:1384254 original size:18 final size:19
Alignment explanation
Indices: 1384222--1384257 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
1384212 AAAGTCAATC
*
1384222 TTTGATTTTTGAAAACTAT
1 TTTGATTTTTAAAAACTAT
1384241 TTTGA-TTTTAAAAACTA
1 TTTGATTTTTAAAAACTA
1384258 GGAACAGAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.36, C:0.06, G:0.08, T:0.50
Consensus pattern (19 bp):
TTTGATTTTTAAAAACTAT
Found at i:1385496 original size:38 final size:38
Alignment explanation
Indices: 1385428--1385581 Score: 147
Period size: 39 Copynumber: 4.1 Consensus size: 38
1385418 AATCAAAGTG
1385428 TTGTCTCGCTAGAGACAATTTTTTTCTTAAAAACAAATT
1 TTGTCTCGCTAGAGAC-ATTTTTTTCTTAAAAACAAATT
* *
1385467 TTGTCTCGCTAGAGTCATTTTTTTCTTAAAAAACAAGTT
1 TTGTCTCGCTAGAGACATTTTTTTCTT-AAAAACAAATT
* * * * *
1385506 TTATCTCACTTA-AGACAGTTTTCT-TTAAAAATAAATT
1 TTGTCTCGC-TAGAGACATTTTTTTCTTAAAAACAAATT
* *
1385543 TTGTCTCGCTTA-AGACA-ATTTTTC-TCAAAACAAAGTT
1 TTGTCTCGC-TAGAGACATTTTTTTCTTAAAAACAAA-TT
1385580 TT
1 TT
1385582 TTTTTCTTGA
Statistics
Matches: 96, Mismatches: 15, Indels: 10
0.79 0.12 0.08
Matches are distributed among these distances:
36 12 0.12
37 28 0.29
38 13 0.14
39 41 0.43
40 2 0.02
ACGTcount: A:0.32, C:0.16, G:0.10, T:0.42
Consensus pattern (38 bp):
TTGTCTCGCTAGAGACATTTTTTTCTTAAAAACAAATT
Found at i:1385536 original size:37 final size:37
Alignment explanation
Indices: 1385487--1385581 Score: 102
Period size: 37 Copynumber: 2.6 Consensus size: 37
1385477 AGAGTCATTT
* *
1385487 TTTTCTTAAAAAACAAGTTTTATCTCACTTAAGACAG
1 TTTTCTTTAAAAACAAGTTTTATCTCACTTAAGACAA
* * * *
1385524 TTTTCTTTAAAAATAAATTTTGTCTCGCTTAAGACAA
1 TTTTCTTTAAAAACAAGTTTTATCTCACTTAAGACAA
* *
1385561 TTTT-TCTCAAAACAAAGTTTT
1 TTTTCTTTAAAAAC-AAGTTTT
1385582 TTTTTCTTGA
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
36 6 0.13
37 41 0.87
ACGTcount: A:0.36, C:0.15, G:0.07, T:0.42
Consensus pattern (37 bp):
TTTTCTTTAAAAACAAGTTTTATCTCACTTAAGACAA
Found at i:1385667 original size:65 final size:65
Alignment explanation
Indices: 1385586--1385916 Score: 491
Period size: 65 Copynumber: 5.1 Consensus size: 65
1385576 AGTTTTTTTT
* *
1385586 TCTTGAGACAGTTTCTCTTGAAACATCATCTTTGAGATCGTTTCTCTTGAAATGAATTTTGTCTC
1 TCTTGAGACAGTTTCTCTTGAAACATCATCTTTGAGATCGTTTCCCTTAAAATGAATTTTGTCTC
* * * *
1385651 TCTTGAGACAATTTCTCTTGAAACATCATCTGTGAGATCATTTCCCTCAAAATGAATTTTGTCTC
1 TCTTGAGACAGTTTCTCTTGAAACATCATCTTTGAGATCGTTTCCCTTAAAATGAATTTTGTCTC
* * **
1385716 ACTTGATACAGTTTCTCTTGAAACATCATCTTTGAGATTATTTCCCTTAAAATGAATTTTGTCTC
1 TCTTGAGACAGTTTCTCTTGAAACATCATCTTTGAGATCGTTTCCCTTAAAATGAATTTTGTCTC
* * * *
1385781 TCTTGAGACAGTTTCTCTTGAAACATCATCTTTGAAATCGTTTCCCTTTAAATGAATCTTGTCTA
1 TCTTGAGACAGTTTCTCTTGAAACATCATCTTTGAGATCGTTTCCCTTAAAATGAATTTTGTCTC
* * * * *
1385846 TCTTGAGACAATTTCTCTTGAAAAATCATCTTTGAGATCGTTTCCCTTTAAACGAATTTTGTCCC
1 TCTTGAGACAGTTTCTCTTGAAACATCATCTTTGAGATCGTTTCCCTTAAAATGAATTTTGTCTC
1385911 TCTTGA
1 TCTTGA
1385917 AACATAATCT
Statistics
Matches: 239, Mismatches: 27, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
65 239 1.00
ACGTcount: A:0.26, C:0.20, G:0.13, T:0.41
Consensus pattern (65 bp):
TCTTGAGACAGTTTCTCTTGAAACATCATCTTTGAGATCGTTTCCCTTAAAATGAATTTTGTCTC
Found at i:1386213 original size:134 final size:133
Alignment explanation
Indices: 1385952--1386297 Score: 392
Period size: 134 Copynumber: 2.6 Consensus size: 133
1385942 TTGAAACATT
*** * *
1385952 ATCCCTAAAGATGGCCAGTCATCCTCATCGCGTAGGAATCATGTCATCCACCGACCAGATCTCCT
1 ATCCCTAAAGATGATAAGCCATCCTCATCACGTAGGAAT-ATGTCATCCACCGACCAGATCTCCT
** * * *
1386017 CATCACGTAGGAGTTGCGTCACCCTTAGATAACCAGCCGTCCTCATCACATAGGAACAGTGTTAT
65 CATCACGTAGGAGCCGCGTCAACCTTAGATAACCAGCCATCCTCATCACATAGAAACAGTGTTAT
1386082 CATC
130 CATC
* ** * *
1386086 ATCCCTTAAA-ATGGCTAA-CCATTTTCATCACGTAGGAACTGTGTCATCCACCAACCAGATCTC
1 ATCCC-TAAAGAT-GATAAGCCATCCTCATCACGTAGGAA-TATGTCATCCACCGACCAGATCTC
*** * **
1386149 CTCATCACGTAGGAGCCGCGTCAACCTTAGATAACCATTTATCCTTATCGTATAGAAATC-GTGT
63 CTCATCACGTAGGAGCCGCGTCAACCTTAGATAACCAGCCATCCTCATCACATAGAAA-CAGTGT
1386213 TATCATC
127 TATCATC
* * *
1386220 ATCCCTAAAGATGATAAGCCATCCTCATCATGTAGGAAATATGTTATCCATCGACCAGATCTCCT
1 ATCCCTAAAGATGATAAGCCATCCTCATCACGTAGG-AATATGTCATCCACCGACCAGATCTCCT
*
1386285 CATCACATAGGAG
65 CATCACGTAGGAG
1386298 ACGTGTCACC
Statistics
Matches: 176, Mismatches: 29, Indels: 14
0.80 0.13 0.06
Matches are distributed among these distances:
133 8 0.05
134 158 0.90
135 10 0.06
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (133 bp):
ATCCCTAAAGATGATAAGCCATCCTCATCACGTAGGAATATGTCATCCACCGACCAGATCTCCTC
ATCACGTAGGAGCCGCGTCAACCTTAGATAACCAGCCATCCTCATCACATAGAAACAGTGTTATC
ATC
Found at i:1386503 original size:3 final size:3
Alignment explanation
Indices: 1386495--1386545 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
1386485 TGTCTTAAAA
1386495 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1386543 ATT
1 ATT
1386546 TACATATTTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:1391010 original size:3 final size:3
Alignment explanation
Indices: 1390988--1391036 Score: 52
Period size: 3 Copynumber: 17.7 Consensus size: 3
1390978 GTCCCTTTTA
* *
1390988 TAT T-T TAT TAT T-T TAA TAT TAT TAT TAT TA- TGT TA- TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1391032 TAT TA
1 TAT TA
1391037 AATAATTACA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
2 7 0.18
3 31 0.82
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:1391016 original size:25 final size:25
Alignment explanation
Indices: 1390988--1391036 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
1390978 GTCCCTTTTA
* *
1390988 TATTTTATTATTTTAATATTATTAT
1 TATTATATTATATTAATATTATTAT
* *
1391013 TATTATGTTATATTATTATTATTA
1 TATTATATTATATTAATATTATTA
1391037 AATAATTACA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (25 bp):
TATTATATTATATTAATATTATTAT
Found at i:1391025 original size:19 final size:18
Alignment explanation
Indices: 1390984--1391036 Score: 74
Period size: 19 Copynumber: 3.0 Consensus size: 18
1390974 TTTTGTCCCT
1390984 TTTATATT-TTATTATT-
1 TTTATATTATTATTATTA
*
1391000 TTAATATTATTATTATTA
1 TTTATATTATTATTATTA
1391018 TGTTATATTATTATTATTA
1 T-TTATATTATTATTATTA
1391037 AATAATTACA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
16 7 0.22
17 8 0.25
18 1 0.03
19 16 0.50
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (18 bp):
TTTATATTATTATTATTA
Found at i:1399288 original size:13 final size:13
Alignment explanation
Indices: 1399271--1399302 Score: 57
Period size: 12 Copynumber: 2.5 Consensus size: 13
1399261 AAGAAAAAAA
1399271 GAAAAAAGAAA-T
1 GAAAAAAGAAATT
1399283 GAAAAAAGAAATT
1 GAAAAAAGAAATT
1399296 GAAAAAA
1 GAAAAAA
1399303 AAAGAAATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.75, C:0.00, G:0.16, T:0.09
Consensus pattern (13 bp):
GAAAAAAGAAATT
Found at i:1399305 original size:16 final size:16
Alignment explanation
Indices: 1399284--1399314 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
1399274 AAAAGAAATG
1399284 AAAAAAGAAATTGAAA
1 AAAAAAGAAATTGAAA
1399300 AAAAAAGAAATTGAA
1 AAAAAAGAAATTGAA
1399315 TCAAGACGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.74, C:0.00, G:0.13, T:0.13
Consensus pattern (16 bp):
AAAAAAGAAATTGAAA
Found at i:1406993 original size:41 final size:42
Alignment explanation
Indices: 1406892--1406993 Score: 134
Period size: 42 Copynumber: 2.5 Consensus size: 42
1406882 ATTTGTAAGT
* * * * *
1406892 CCTTCGGGCCATCTGTAAGTCTTTCGACCATGATGCTTAAAT
1 CCTTCGGGTCATCTATAAGTCTTTCGACCAAGATGCATAAAG
*
1406934 CCTTCGGGTCATCTATAAGTCTTTCGAGCAAGATG-ATAAAG
1 CCTTCGGGTCATCTATAAGTCTTTCGACCAAGATGCATAAAG
*
1406975 CCTTCGGGTCATCCATAAG
1 CCTTCGGGTCATCTATAAG
1406994 ACCTTCAGTG
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
41 22 0.42
42 31 0.58
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.30
Consensus pattern (42 bp):
CCTTCGGGTCATCTATAAGTCTTTCGACCAAGATGCATAAAG
Found at i:1407582 original size:3 final size:3
Alignment explanation
Indices: 1407563--1407596 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
1407553 GTCCCATTTT
1407563 TTA TT- TTA TTA TT- TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1407597 AATAATAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.14
3 25 0.86
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:1407596 original size:9 final size:8
Alignment explanation
Indices: 1407558--1407592 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
1407548 TTTTTGTCCC
1407558 ATTTT-TT
1 ATTTTATT
1407565 ATTTTATT
1 ATTTTATT
1407573 ATTTTATT
1 ATTTTATT
1407581 ATTATTATT
1 ATT-TTATT
1407590 ATT
1 ATT
1407593 ATTAAATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 5 0.19
8 13 0.50
9 8 0.31
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (8 bp):
ATTTTATT
Found at i:1407771 original size:41 final size:40
Alignment explanation
Indices: 1407721--1407799 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 40
1407711 CATTCGGGCC
* * *
1407721 ATCTGTAAGTCTTTCGAGCATGATGCTTAAAGCCTTCGGTT
1 ATCTATAAGTCTTTCGAGCAAGATG-ATAAAGCCTTCGGTT
*
1407762 ATCTATAAGTCTTTCGAGTAAGATGATAAAGCCTTCGG
1 ATCTATAAGTCTTTCGAGCAAGATGATAAAGCCTTCGG
1407800 GTCATCCATG
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
40 12 0.35
41 22 0.65
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.34
Consensus pattern (40 bp):
ATCTATAAGTCTTTCGAGCAAGATGATAAAGCCTTCGGTT
Found at i:1408103 original size:173 final size:171
Alignment explanation
Indices: 1407788--1408162 Score: 536
Period size: 173 Copynumber: 2.2 Consensus size: 171
1407778 AGTAAGATGA
* * * * *
1407788 TAAAGCCTTCGGGTCATCCATGAGACCTTCAGTGCATGATGTTTTCAAATGAGATTTTAGAAACT
1 TAAATCCTACGGGTCATCCATAAGACCTTCAGTACATGATGTTTTCAAATGAGATTTTAGAAACC
* *** *
1407853 ATGCCTTCGGGGGTTTACTAATTATCTCAAAGTTGTTAAAGGAAGCTAAGCCTAACAAGGGGTTC
66 AAGCCTTCGGGGGTTTACTAATTATCTCAAAAAAGTTAAAGGAAACTAAGCCTAACAAGGGGTTC
* * * *
1407918 ATTGATAACTAAGAAACTAAGCCTTCGGGGGTTTCTTGATTT
131 ATTGACAACTAAGAAACCAAGCCTTCGCGGGTTTCTT-AATT
* *
1407960 GTAAGTCCTACGGGCCATCCATAAGACCTTCAGTACATGATGTTTTC-AATGAGATTTTAGAAAC
1 -TAAATCCTACGGGTCATCCATAAGACCTTCAGTACATGATGTTTTCAAATGAGATTTTAGAAAC
1408024 CAAGCCTTCGGGGGTTTACTAATTATCTCAAAAAAGTTAAAGGAAACTAAGCCTAACAAAGGGGT
65 CAAGCCTTCGGGGGTTTACTAATTATCTCAAAAAAGTTAAAGGAAACTAAGCCTAAC-AAGGGGT
*
1408089 TCCTTGACAACTAAGAAACCAAGCCTTCGCGGGTTTCTTAATT
129 TCATTGACAACTAAGAAACCAAGCCTTCGCGGGTTTCTTAATT
* **
1408132 TAAATCCTTCGGGTCATCTGTAAGACCTTCA
1 TAAATCCTACGGGTCATCCATAAGACCTTCA
1408163 ATGCAAGATG
Statistics
Matches: 179, Mismatches: 22, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
171 26 0.15
172 71 0.40
173 82 0.46
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (171 bp):
TAAATCCTACGGGTCATCCATAAGACCTTCAGTACATGATGTTTTCAAATGAGATTTTAGAAACC
AAGCCTTCGGGGGTTTACTAATTATCTCAAAAAAGTTAAAGGAAACTAAGCCTAACAAGGGGTTC
ATTGACAACTAAGAAACCAAGCCTTCGCGGGTTTCTTAATT
Found at i:1408214 original size:41 final size:42
Alignment explanation
Indices: 1408131--1408215 Score: 118
Period size: 41 Copynumber: 2.0 Consensus size: 42
1408121 GTTTCTTAAT
* *
1408131 TTAAATCCTTCGGGTCATCTGTAAGACCTTCAATGCAAGATG
1 TTAAAACCTTCGGGTCATCTATAAGACCTTCAATGCAAGATG
* * *
1408173 TTAAAACCTTTGGGTCATC-ATAAGACCTTCAGTGCAGGATG
1 TTAAAACCTTCGGGTCATCTATAAGACCTTCAATGCAAGATG
1408214 TT
1 TT
1408216 TTCCAATGAG
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
41 21 0.55
42 17 0.45
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (42 bp):
TTAAAACCTTCGGGTCATCTATAAGACCTTCAATGCAAGATG
Found at i:1411503 original size:617 final size:606
Alignment explanation
Indices: 1409682--1411353 Score: 2495
Period size: 595 Copynumber: 2.8 Consensus size: 606
1409672 TATTTTTACC
1409682 TTTTATGTTTCAATA-TTTAAATAT-A-ACTT-A--ATTATTTTATTTCATAATTTAATTAAATA
1 TTTTATGTTTCAATATTTTAAATATAATACTTAATTATTATTTTATTTCATAATTTAATTAAATA
1409741 TTTTTATAT-TTTATTTA-TTTTTATATATTAAATGGGCTATCTTAAAGCAACTAGATGTCC-TT
66 TTTTTATATATTTATTTATTTTTTATATATTAAATGGGCTATCTTAAAGCAACTAGATGTCCTTT
1409803 TTTGATATTTTTAAATAAATAAAATACTATA-TTAATTTAGTTTTATTTAAATTATTTTTTAGAA
131 TTTGATATTTTTAAATAAATAAAATACTATATTTAATTTAGTTTTATTTAAATTATTTTTTAGAA
1409867 AAAATTAACATATTCTTACTAATATTTATTA-TTTTT-TATTAAAGAAA-GGGTTGTCTTAAAGT
196 AAAATTAACATATTCTTACTAATATTTATTATTTTTTATATTAAAGAAAGGGGTTGTCTTAAAGT
1409929 AACTAATGTCA-TTT-TATA-TTTTAAATAAATAAATAAATAAT-CTATTTATAAAACCCTAAAA
261 AACTAATGTCATTTTCTATATTTTTAAATAAATAAATAAAT-ATCCTATTTATAAAACCCTAAAA
1409990 TG--TATTTTTACATTAG-TTT-T-AAAATTATTTTTATATATTTTTCCTTAGAATTATCCGATT
325 TGTATATTTTTACATTAGTTTTATAAAAATTATTTTTATATATTTTTCCTTAGAATTATCCGATT
1410050 GAATCTGAAATAACAAGATTGTAAATTAAA-TT-TATTAGAATTCTTATATTTCCACTAATA-AG
390 GAATCTGAAATAACAAGATTGTAAATTAAATTTATATTAGAATTCTTATATTTCCACTAATAGAG
*
1410112 ACAATTTATAATCACGAGTATAATTTTGGGCGTTGTGGGGGTGCTAATCATTCCCCAAACGTAAC
455 ACAATTTATAATAACGAGTATAA-TTT----GTTGT--GGGTGC-AAT-A-T-CCCAAACGTAAC
1410177 CGACCACAATCCCTTTTTATAACTAAAAAGAATGAATTTTGGTTA-TACG-CAACTAATTATCTT
509 CGACCA-AAT-CCTTTTTATAACTAAAAAGAATGAA-TTT--TTAGTA-GTCAACTAATTATCTT
*
1410240 TTAAATAATTTTTCTTAAAACTCT-CTT-AAAAATGA-T
568 TTAAATAATTTTTCTTAAAAATCTCCTTAAAAAATGATT
1410276 TTTTAT-TTTCAATATTTTAAATATAATACTTAATTATTATTTTATTTCATAATTTAATTAAATA
1 TTTTATGTTTCAATATTTTAAATATAATACTTAATTATTATTTTATTTCATAATTTAATTAAATA
1410340 -TTTT-TATATTTA--T-TTTTTT-TATATTAAATGGGCTATCTTAAAGCAACTAGATGT-CTTT
66 TTTTTATATATTTATTTATTTTTTATATATTAAATGGGCTATCTTAAAGCAACTAGATGTCCTTT
1410398 TTTGATATTTTTAAATAAATAAAATACTAT-TTTAATTTAGTTTTATTTAAATTATTTTTTAGAA
131 TTTGATATTTTTAAATAAATAAAATACTATATTTAATTTAGTTTTATTTAAATTATTTTTTAGAA
1410462 AAAATTAACATATTCTTACTAATATTTATTATTTTTTATATTAAAGAAAGGGGTTGTCTTAAAGT
196 AAAATTAACATATTCTTACTAATATTTATTATTTTTTATATTAAAGAAAGGGGTTGTCTTAAAGT
1410527 AACTAATGTCATTTTCTATATTTTTAAATAAATAAATAAATATCCTATTTAT-AAACCCTAAAAT
261 AACTAATGTCATTTTCTATATTTTTAAATAAATAAATAAATATCCTATTTATAAAACCCTAAAAT
1410591 GTATA--TTTACATTAGTTTTATAAAAAAATTA-TTTTATATA-TTTTCCTTAGAATTATCCGAT
326 GTATATTTTTACATTAGTTTTAT--AAAAATTATTTTTATATATTTTTCCTTAGAATTATCCGAT
1410652 TGAATCTGAAATAACAAGATTGT-AATTAAATTTATATTAGAATTCTTAT-TTTCCACTAATAGA
389 TGAATCTGAAATAACAAGATTGTAAATTAAATTTATATTAGAATTCTTATATTTCCACTAATAGA
*
1410715 GACAATTTATAATCAACGAGTACCAATTTTGGGCGTTGTGGGGGTGCTAATTATTCCCCAAACGT
454 GACAATTTATAAT-AACGAGTA-TAA-TTT----GTTGT--GGGTGC-AA-TA-T-CCCAAACGT
*
1410780 AACCGACCACGAATCCCCTTTTTATAACTAAAAAGAATGAATTTTTGGTTA-TACGCAGACTAAT
506 AACCGACCA--AAT--CCTTTTTATAACTAAAAAGAATGAATTTTTAG-TAGT---CA-ACTAA-
1410844 TTATCTTTTAAATAATTTTTTCTTAAAAA-CTCTCTTAAAAAATGATT
561 TTATCTTTTAAATAA-TTTTTCTTAAAAATCTC-CTTAAAAAATGATT
1410891 TTTATATGTTTCAATATTTTAAATATAATACTTAATTATTATTTTATTTCATAATTTAATTAAAT
1 TTT-TATGTTTCAATATTTTAAATATAATACTTAATTATTATTTTATTTCATAATTTAATTAAAT
** *
1410956 ATTTTTTATATATTTATTTATTTTTTATATATTAAATGGATTATCTTAAAGCAATTAGATGTCCT
65 A-TTTTTATATATTTATTTATTTTTTATATATTAAATGGGCTATCTTAAAGCAACTAGATGTCCT
1411021 TTTTTGATATTTTTAAATAAATAAAATACTATATTTAATTTAGTTTTATTTAAATTATTTTTTAG
129 TTTTTGATATTTTTAAATAAATAAAATACTATATTTAATTTAGTTTTATTTAAATTATTTTTTAG
1411086 AAAAAATTAACATATTCTTACTAATATTTATTTATTTTTTATATTAAAGAAAGGGGTTGTCTTAA
194 AAAAAATTAACATATTCTTACTAATATTTA-TTATTTTTTATATTAAAGAAAGGGGTTGTCTTAA
1411151 AGTAACTAGATGTCATTTTCTGATATTTTTAAATAAATAAATAAATATCCTATTTATAAAACCCT
258 AGTAACTA-ATGTCATTTTCT-ATATTTTTAAATAAATAAATAAATATCCTATTTATAAAACCCT
1411216 AAAATGTATATTTTTACATTAGTTTTATAAAAATTATTTTTATATATTTTTCCTTAGAATTATCC
321 AAAATGTATATTTTTACATTAGTTTTATAAAAATTATTTTTATATATTTTTCCTTAGAATTATCC
1411281 GATTGAATCTGAAATAACAAGATTGTAAATTAAATTTATATTAGAATTCTTATATTTCCACTAAT
386 GATTGAATCTGAAATAACAAGATTGTAAATTAAATTTATATTAGAATTCTTATATTTCCACTAAT
1411346 AGAGACAA
451 AGAGACAA
1411354 CCATTTTTAT
Statistics
Matches: 1004, Mismatches: 8, Indels: 92
0.91 0.01 0.08
Matches are distributed among these distances:
593 8 0.01
594 16 0.02
595 132 0.13
596 15 0.01
597 15 0.01
598 34 0.03
599 32 0.03
600 29 0.03
601 31 0.03
602 10 0.01
603 58 0.06
604 38 0.04
605 16 0.02
606 48 0.05
607 9 0.01
608 26 0.03
609 2 0.00
610 5 0.00
611 17 0.02
612 12 0.01
613 3 0.00
614 8 0.01
615 4 0.00
616 3 0.00
617 58 0.06
619 4 0.00
620 8 0.01
622 1 0.00
623 6 0.01
624 32 0.03
625 34 0.03
626 62 0.06
627 42 0.04
628 12 0.01
629 35 0.03
630 25 0.02
631 9 0.01
632 60 0.06
633 26 0.03
634 19 0.02
ACGTcount: A:0.38, C:0.09, G:0.08, T:0.46
Consensus pattern (606 bp):
TTTTATGTTTCAATATTTTAAATATAATACTTAATTATTATTTTATTTCATAATTTAATTAAATA
TTTTTATATATTTATTTATTTTTTATATATTAAATGGGCTATCTTAAAGCAACTAGATGTCCTTT
TTTGATATTTTTAAATAAATAAAATACTATATTTAATTTAGTTTTATTTAAATTATTTTTTAGAA
AAAATTAACATATTCTTACTAATATTTATTATTTTTTATATTAAAGAAAGGGGTTGTCTTAAAGT
AACTAATGTCATTTTCTATATTTTTAAATAAATAAATAAATATCCTATTTATAAAACCCTAAAAT
GTATATTTTTACATTAGTTTTATAAAAATTATTTTTATATATTTTTCCTTAGAATTATCCGATTG
AATCTGAAATAACAAGATTGTAAATTAAATTTATATTAGAATTCTTATATTTCCACTAATAGAGA
CAATTTATAATAACGAGTATAATTTGTTGTGGGTGCAATATCCCAAACGTAACCGACCAAATCCT
TTTTATAACTAAAAAGAATGAATTTTTAGTAGTCAACTAATTATCTTTTAAATAATTTTTCTTAA
AAATCTCCTTAAAAAATGATT
Found at i:1412802 original size:23 final size:23
Alignment explanation
Indices: 1412751--1412810 Score: 61
Period size: 23 Copynumber: 2.5 Consensus size: 23
1412741 GCGTTATATA
1412751 TTATTATTTTTTTGATTTTTGGTTT
1 TTATT-TTTTTTTGATTTTT-GTTT
1412776 TTATTTTTTTTT-ATTTTT-TTT
1 TTATTTTTTTTTGATTTTTGTTT
*
1412797 GGTTATTTTCTTTT
1 --TTATTTTTTTTT
1412811 CTTTGTTACA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
21 3 0.09
23 17 0.53
24 7 0.22
25 5 0.16
ACGTcount: A:0.10, C:0.02, G:0.08, T:0.80
Consensus pattern (23 bp):
TTATTTTTTTTTGATTTTTGTTT
Found at i:1413932 original size:22 final size:22
Alignment explanation
Indices: 1413907--1413949 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
1413897 GTTCACCATA
1413907 ATTTTTGCCTTCTTTTTCTTAC
1 ATTTTTGCCTTCTTTTTCTTAC
*
1413929 ATTTTTGCCTTGTTTTTCTTA
1 ATTTTTGCCTTCTTTTTCTTA
1413950 TATATATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.09, C:0.19, G:0.07, T:0.65
Consensus pattern (22 bp):
ATTTTTGCCTTCTTTTTCTTAC
Found at i:1417254 original size:13 final size:13
Alignment explanation
Indices: 1417236--1417293 Score: 73
Period size: 13 Copynumber: 4.2 Consensus size: 13
1417226 GAGAGATGAA
1417236 TTATTGATATATT
1 TTATTGATATATT
1417249 TTATTGATATATT
1 TTATTGATATATT
1417262 TTACGTATG-TATATAT
1 TTA--T-TGATATAT-T
1417278 TTATTGATATATT
1 TTATTGATATATT
1417291 TTA
1 TTA
1417294 CGTAAAAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
13 22 0.55
14 6 0.15
15 6 0.15
16 6 0.15
ACGTcount: A:0.31, C:0.02, G:0.09, T:0.59
Consensus pattern (13 bp):
TTATTGATATATT
Found at i:1419748 original size:20 final size:21
Alignment explanation
Indices: 1419723--1419764 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
1419713 CCAACTTACA
1419723 ATGCATTATG-AACCATTATT
1 ATGCATTATGTAACCATTATT
*
1419743 ATGCATTATGTAACTATTATT
1 ATGCATTATGTAACCATTATT
1419764 A
1 A
1419765 GTTGCATGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.43
Consensus pattern (21 bp):
ATGCATTATGTAACCATTATT
Found at i:1424411 original size:21 final size:20
Alignment explanation
Indices: 1424371--1424412 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
1424361 CCAACTTACA
1424371 ATGCATTAAGAACCATTATT
1 ATGCATTAAGAACCATTATT
* *
1424391 ATGCATTATGTAACTATTATT
1 ATGCATTAAG-AACCATTATT
1424412 A
1 A
1424413 GTTGCATGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (20 bp):
ATGCATTAAGAACCATTATT
Found at i:1436897 original size:20 final size:21
Alignment explanation
Indices: 1436858--1436898 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
1436848 TAAATAAATG
*
1436858 ATAAATATTGTAATTTATATT
1 ATAAATATTGTAATTGATATT
*
1436879 ATAAGTATT-TAATTGATATT
1 ATAAATATTGTAATTGATATT
1436899 TAATTTGAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.51
Consensus pattern (21 bp):
ATAAATATTGTAATTGATATT
Found at i:1440823 original size:42 final size:42
Alignment explanation
Indices: 1440751--1440849 Score: 121
Period size: 42 Copynumber: 2.4 Consensus size: 42
1440741 TTATGGATGG
* * *
1440751 CCCGAAGTAC-TAATCATCTTGCTCGAAAGACTTA-TAAGTGA
1 CCCGAAGGACTTAAGCATCATGCTCGAAAGACTTACTAA-TGA
* * *
1440792 CCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGG
1 CCCGAAGGACTTAAGCATCATGCTCGAAAGACTTACTAATGA
1440834 CCCGAAGGACTTAAGC
1 CCCGAAGGACTTAAGC
1440850 TGATTCGAAG
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
41 8 0.16
42 39 0.80
43 2 0.04
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.23
Consensus pattern (42 bp):
CCCGAAGGACTTAAGCATCATGCTCGAAAGACTTACTAATGA
Found at i:1440960 original size:59 final size:59
Alignment explanation
Indices: 1440852--1441001 Score: 203
Period size: 59 Copynumber: 2.5 Consensus size: 59
1440842 ACTTAAGCTG
* *
1440852 ATTCGAAGTGTTGTGAATCGAGC-AATAGGAAATGTTAACCCCTCTGGTGAGGCGTTGCTA
1 ATTCGAAGTGTTGTGAATCGAGCAAATA--AAATGTTAACCCCTATGGTGAGGCGTTACTA
* * *
1440912 ATTTGAAGTGTTGTGAATTGAGCAAATAAAATGTTAACCCCTATGGTGAGGCGTTACTG
1 ATTCGAAGTGTTGTGAATCGAGCAAATAAAATGTTAACCCCTATGGTGAGGCGTTACTA
* *
1440971 ATTCGAAGTGTAGTTAATCGAGCAAAGTAAA
1 ATTCGAAGTGTTGTGAATCGAGCAAA-TAAA
1441002 TATTGAAAAT
Statistics
Matches: 79, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
59 50 0.63
60 25 0.32
61 4 0.05
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.29
Consensus pattern (59 bp):
ATTCGAAGTGTTGTGAATCGAGCAAATAAAATGTTAACCCCTATGGTGAGGCGTTACTA
Found at i:1441072 original size:41 final size:40
Alignment explanation
Indices: 1441013--1441133 Score: 118
Period size: 41 Copynumber: 2.9 Consensus size: 40
1441003 ATTGAAAATG
* * * * *
1441013 TCTTGCCCAAAGGTCTTATGGATGGCCCGAATGACTTATCA
1 TCTTGCTCAAAAGACTTAT-GATGGCCCGAAGGACTTAGCA
* *
1441054 TCTTGCTCAAAAGACTTATAGATGACCCGAAGGATTTAAGCA
1 TCTTGCTCAAAAGACTTAT-GATGGCCCGAAGGACTT-AGCA
*
1441096 TCATGCTCGAAAA-ACTTACTGATGGCCCGAAGGACTTA
1 TCTTGCTC-AAAAGACTTA-TGATGGCCCGAAGGACTTA
1441134 AGCTGATTCG
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 31 0.47
42 30 0.45
43 5 0.08
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (40 bp):
TCTTGCTCAAAAGACTTATGATGGCCCGAAGGACTTAGCA
Found at i:1441113 original size:42 final size:42
Alignment explanation
Indices: 1441033--1441136 Score: 115
Period size: 42 Copynumber: 2.5 Consensus size: 42
1441023 AGGTCTTATG
* * * *
1441033 GATGGCCCGAATGACTT-ATCATCTTGCTCAAAAGACTTA-T
1 GATGACCCGAAGGACTTAAGCATCATGCTCAAAAGACTTACT
*
1441073 AGATGACCCGAAGGATTTAAGCATCATGCTCGAAAA-ACTTACT
1 -GATGACCCGAAGGACTTAAGCATCATGCTC-AAAAGACTTACT
*
1441116 GATGGCCCGAAGGACTTAAGC
1 GATGACCCGAAGGACTTAAGC
1441137 TGATTCGAAG
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
41 14 0.26
42 34 0.64
43 5 0.09
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (42 bp):
GATGACCCGAAGGACTTAAGCATCATGCTCAAAAGACTTACT
Found at i:1441147 original size:287 final size:286
Alignment explanation
Indices: 1440717--1441419 Score: 1059
Period size: 287 Copynumber: 2.5 Consensus size: 286
1440707 AAAGGAAACG
* * *
1440717 TTGAAAACATCCTGCCCGAACGTCTTATGGATGGCCCGAAGTACTAATCATCTTGCTCGAAAGAC
1 TTGAAAATATCCTGCCCGAAGGTCTTATGGATGGCCCGAAG-ACTTATCATCTTGCTCGAAAGAC
1440782 TTATA-AGTGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTT
65 TTATAGA-TGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTT
*
1440846 AAGCTGATTCGAAGTGTTGTGAATCGAGCAATAGGAAATGTTAACCCCTCTGGTGAGGCGTTGCT
129 AAGCTGATTCGAAGTGTTGTGAATCGAGCAATAGGAAATGTTAACCCCTCTGGTGAGGCATTGCT
* * * * * *
1440911 AATTTGAAGTGTTGTGAATTGAGCAAATAAAATGTTAACCCCTATGGTGAGGCGTTACTGATTCG
194 AATTTGAAGTGTTATGAATCGAGCAAAGAAAATGTTAAACACTATAGTGAGGCGTTACTGATTCG
* *
1440976 AAGTGTAGTTAATCGAGCAAAGTAAATA
259 AAGTGTAGTGAATCGAGCAAAGAAAATA
* * * *
1441004 TTGAAAATGTCTTGCCCAAAGGTCTTATGGATGGCCCGAATGACTTATCATCTTGCTCAAAAGAC
1 TTGAAAATATCCTGCCCGAAGGTCTTATGGATGGCCCGAA-GACTTATCATCTTGCTCGAAAGAC
*
1441069 TTATAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAAACTTACTGATGGCCCGAAGGACTTA
65 TTATAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTA
* *
1441134 AGCTGATTCGAAGTGTTGTGAATCGAGCAATAGGAAATGTTAACCCCTCTGGTGGGGTATTGCTA
130 AGCTGATTCGAAGTGTTGTGAATCGAGCAATAGGAAATGTTAACCCCTCTGGTGAGGCATTGCTA
* * * **
1441199 ATTTGAAGTGTTATGAATCGAGCAAAGAAAATGTTAAACACTCTAGTGGGGTGTTGTTGATTCGA
195 ATTTGAAGTGTTATGAATCGAGCAAAGAAAATGTTAAACACTATAGTGAGGCGTTACTGATTCGA
* *
1441264 AGTGTTGTGAATCGAGCAAAGAAAATG
260 AGTGTAGTGAATCGAGCAAAGAAAATA
* *
1441291 TTGAAAATATCCT-CCCGATGGTCTTATGGATGGTCCGAAGGACTTATCATCTTGCTCGAAAGAC
1 TTGAAAATATCCTGCCCGAAGGTCTTATGGATGGCCCGAA-GACTTATCATCTTGCTCGAAAGAC
*** * *
1441355 TTATAGATGAATTGAAGGATTTAAGCATCATGTTCGAAAGACTTACTGATGGCCTGAAGGACTTA
65 TTATAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTA
1441420 CTCATCAAGA
Statistics
Matches: 375, Mismatches: 39, Indels: 5
0.89 0.09 0.01
Matches are distributed among these distances:
286 105 0.28
287 268 0.71
288 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (286 bp):
TTGAAAATATCCTGCCCGAAGGTCTTATGGATGGCCCGAAGACTTATCATCTTGCTCGAAAGACT
TATAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTAA
GCTGATTCGAAGTGTTGTGAATCGAGCAATAGGAAATGTTAACCCCTCTGGTGAGGCATTGCTAA
TTTGAAGTGTTATGAATCGAGCAAAGAAAATGTTAAACACTATAGTGAGGCGTTACTGATTCGAA
GTGTAGTGAATCGAGCAAAGAAAATA
Found at i:1441266 original size:59 final size:59
Alignment explanation
Indices: 1441135--1441292 Score: 226
Period size: 59 Copynumber: 2.7 Consensus size: 59
1441125 AAGGACTTAA
* * * *
1441135 GCTGATTCGAAGTGTTGTGAATCGAGCAATAGGAAATGTTAACCCCTCTGGTGGGGTATT
1 GCTGATTCGAAGTGTTGTGAATCGAGCAA-AGAAAATGTTAAACACTCTAGTGGGGTATT
* * * *
1441195 GCTAATTTGAAGTGTTATGAATCGAGCAAAGAAAATGTTAAACACTCTAGTGGGGTGTT
1 GCTGATTCGAAGTGTTGTGAATCGAGCAAAGAAAATGTTAAACACTCTAGTGGGGTATT
*
1441254 GTTGATTCGAAGTGTTGTGAATCGAGCAAAGAAAATGTT
1 GCTGATTCGAAGTGTTGTGAATCGAGCAAAGAAAATGTT
1441293 GAAAATATCC
Statistics
Matches: 86, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
59 60 0.70
60 26 0.30
ACGTcount: A:0.30, C:0.11, G:0.28, T:0.30
Consensus pattern (59 bp):
GCTGATTCGAAGTGTTGTGAATCGAGCAAAGAAAATGTTAAACACTCTAGTGGGGTATT
Found at i:1441426 original size:42 final size:41
Alignment explanation
Indices: 1441313--1441426 Score: 106
Period size: 42 Copynumber: 2.7 Consensus size: 41
1441303 TCCCGATGGT
* *
1441313 CTTATGGATGGTCC-GAAGGACTTATCATCTTGCTCGAAAGA
1 CTTATAGATGG-CCTGAAGGACTTATCATCATGCTCGAAAGA
*** * * *
1441354 CTTATAGATGAATTGAAGGATTTAAGCATCATGTTCGAAAGA
1 CTTATAGATGGCCTGAAGGACTT-ATCATCATGCTCGAAAGA
1441396 CTTACT-GATGGCCTGAAGGACTTACTCATCA
1 CTTA-TAGATGGCCTGAAGGACTTA-TCATCA
1441427 AGAAACCCAT
Statistics
Matches: 56, Mismatches: 13, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
41 18 0.32
42 37 0.66
43 1 0.02
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.30
Consensus pattern (41 bp):
CTTATAGATGGCCTGAAGGACTTATCATCATGCTCGAAAGA
Found at i:1441557 original size:57 final size:58
Alignment explanation
Indices: 1441421--1441564 Score: 143
Period size: 57 Copynumber: 2.5 Consensus size: 58
1441411 AAGGACTTAC
* ** *** *
1441421 TCATCAAGAAACCCATGAAAATCAAGCTTAGTTTCTTAAAATCTTTCATTTTTAGATA
1 TCATCAAGAAACCCATGAAAATCAGGCTTAACTTCTTAAAATCTTTCATTCAAAAATA
* * *
1441479 TCATCAAGAAGCTCC-TAAAAATTAGGCTTAACTTCTTTAAAA-C-TTC-TTCAAAAATAA
1 TCATCAAGAAAC-CCATGAAAATCAGGCTTAACTTC-TTAAAATCTTTCATTCAAAAAT-A
1441536 TCATCAAGAAACCCATGAAAATCAGGCTT
1 TCATCAAGAAACCCATGAAAATCAGGCTT
1441565 TGTTTCTAAA
Statistics
Matches: 69, Mismatches: 13, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
56 7 0.10
57 27 0.39
58 27 0.39
59 8 0.12
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.31
Consensus pattern (58 bp):
TCATCAAGAAACCCATGAAAATCAGGCTTAACTTCTTAAAATCTTTCATTCAAAAATA
Found at i:1441623 original size:109 final size:109
Alignment explanation
Indices: 1441421--1441746 Score: 377
Period size: 110 Copynumber: 2.9 Consensus size: 109
1441411 AAGGACTTAC
* * *
1441421 TCATCAAGAAACCCATGAAAATCAAGCTTAGTTTCTTAAAATCTTTCATTTTTAGATATCATCAA
1 TCATCAAGAAACCCATGAAAATCAGGCTTAGTTTC-TAAAATC--TCA--TTT-GAAAACATCAA
* * * * *
1441486 GAAGCTCCTAAAAATTAGGCTTAACTTCT-TTAAAACTTC-TTCAAAAATAA
60 GAAACCCCT-AAAATTAGGCTTAGCTTCTGCTAAAAATTCATT-AAAAATAA
* *
1441536 TCATCAAGAAACCCATGAAAATCAGGCTTTGTTTCTAAAAACTCATTTGAAAACATCAAGAAACC
1 TCATCAAGAAACCCATGAAAATCAGGCTTAGTTTCTAAAATCTCATTTGAAAACATCAAGAAACC
** *
1441601 CCTAAAAGTTAGGCTTAGCTTCTGCTAAAAATTCATTGGAAATCA
66 CCTAAAA-TTAGGCTTAGCTTCTGCTAAAAATTCATTAAAAATAA
* * *
1441646 TCATCAAGAAGCCCCTGAAAATCAGGCTTAGTTTCTAAAATCTCATTTGAAAACATCAAAAAACC
1 TCATCAAGAAACCCATGAAAATCAGGCTTAGTTTCTAAAATCTCATTTGAAAACATCAAGAAACC
* * **
1441711 CCTAAAATTAGGCTTAGTTTATTTTAAAAATTCATT
66 CCTAAAATTAGGCTTAGCTTCTGCTAAAAATTCATT
1441747 TGAAAACCTC
Statistics
Matches: 186, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
108 4 0.02
109 55 0.30
110 83 0.45
111 2 0.01
112 3 0.02
114 6 0.03
115 33 0.18
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (109 bp):
TCATCAAGAAACCCATGAAAATCAGGCTTAGTTTCTAAAATCTCATTTGAAAACATCAAGAAACC
CCTAAAATTAGGCTTAGCTTCTGCTAAAAATTCATTAAAAATAA
Found at i:1443456 original size:435 final size:435
Alignment explanation
Indices: 1442646--1443515 Score: 1722
Period size: 435 Copynumber: 2.0 Consensus size: 435
1442636 TTGAGATATC
1442646 AGAAAATCTCTATGTAAGTTGCACCCCTCCTTGTTCAGCTCGTTGCCTCAACATTTCCTCATCAC
1 AGAAAATCTCTATGTAAGTTGCACCCCTCCTTGTTCAGCTCGTTGCCTCAACATTTCCTCATCAC
1442711 TCATCTATTCACTTTAGCTTGAGCCTTGTTGAGTTCAAGGACCTCTTCCTCGAGGGATAGTCTTG
66 TCATCTATTCACTTTAGCTTGAGCCTTGTTGAGTTCAAGGACCTCTTCCTCGAGGGATAGTCTTG
1442776 TTTGAAAGCATTTTTTCCTTTCTCTTATTTAAAAAACCAAAGAACGAATGAATTTTGTAAAGGAT
131 TTTGAAAGCATTTTTTCCTTTCTCTTATTTAAAAAACCAAAGAACGAATGAATTTTGTAAAGGAT
1442841 TGCTCCTTAATTAAGGCTAACAATTGAAGCAAATCATAAAAATGAGTTCACGGAATATTAAAAGA
196 TGCTCCTTAATTAAGGCTAACAATTGAAGCAAATCATAAAAATGAGTTCACGGAATATTAAAAGA
1442906 ATCAACAACCCTTTTAATATTTTCAAAGTTATAGGTCTTTGACAATCGTCAAAATTGATGGGTTG
261 ATCAACAACCCTTTTAATATTTTCAAAGTTATAGGTCTTTGACAATCGTCAAAATTGATGGGTTG
1442971 GCTTCAGGTTGGCTTTTTATTTTCTGAGGTTTCGGTCATCACATATGTCTTTTTCTTTCTTGGTT
326 GCTTCAGGTTGGCTTTTTATTTTCTGAGGTTTCGGTCATCACATATGTCTTTTTCTTTCTTGGTT
1443036 TATAACATGCCCATTCTTTCTTTGGCTTGGTATTTTAATCGGATG
391 TATAACATGCCCATTCTTTCTTTGGCTTGGTATTTTAATCGGATG
1443081 AGAAAATCTCTATGTAAGTTGCACCCCTCCTTGTTCAGCTCGTTGCCTCAACATTTCCTCATCAC
1 AGAAAATCTCTATGTAAGTTGCACCCCTCCTTGTTCAGCTCGTTGCCTCAACATTTCCTCATCAC
1443146 TCATCTATTCACTTTAGCTTGAGCCTTGTTGAGTTCAAGGACCTCTTCCTCGAGGGATAGTCTTG
66 TCATCTATTCACTTTAGCTTGAGCCTTGTTGAGTTCAAGGACCTCTTCCTCGAGGGATAGTCTTG
1443211 TTTGAAAGCATTTTTTCCTTTCTCTTATTTAAAAAACCAAAGAACGAATGAATTTTGTAAAGGAT
131 TTTGAAAGCATTTTTTCCTTTCTCTTATTTAAAAAACCAAAGAACGAATGAATTTTGTAAAGGAT
*
1443276 TGCTCCTTAATTAAGGCTAACAATTGAAGTAAATCATAAAAATGAGTTCACGGAATATTAAAAGA
196 TGCTCCTTAATTAAGGCTAACAATTGAAGCAAATCATAAAAATGAGTTCACGGAATATTAAAAGA
1443341 ATCAACAACCCTTTTAATATTTTCAAAGTTATAGGTCTTTGACAATCGTCAAAATTGATGGGTTG
261 ATCAACAACCCTTTTAATATTTTCAAAGTTATAGGTCTTTGACAATCGTCAAAATTGATGGGTTG
1443406 GCTTCAGGTTGGCTTTTTATTTTCTGAGGTTTCGGTCATCACATATGTCTTTTTCTTTCTTGGTT
326 GCTTCAGGTTGGCTTTTTATTTTCTGAGGTTTCGGTCATCACATATGTCTTTTTCTTTCTTGGTT
*
1443471 TATAACATGCCCCTTCTTTCTTTGGCTTGGTATTTTAATCGGATG
391 TATAACATGCCCATTCTTTCTTTGGCTTGGTATTTTAATCGGATG
1443516 CGAACAAAAT
Statistics
Matches: 433, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
435 433 1.00
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (435 bp):
AGAAAATCTCTATGTAAGTTGCACCCCTCCTTGTTCAGCTCGTTGCCTCAACATTTCCTCATCAC
TCATCTATTCACTTTAGCTTGAGCCTTGTTGAGTTCAAGGACCTCTTCCTCGAGGGATAGTCTTG
TTTGAAAGCATTTTTTCCTTTCTCTTATTTAAAAAACCAAAGAACGAATGAATTTTGTAAAGGAT
TGCTCCTTAATTAAGGCTAACAATTGAAGCAAATCATAAAAATGAGTTCACGGAATATTAAAAGA
ATCAACAACCCTTTTAATATTTTCAAAGTTATAGGTCTTTGACAATCGTCAAAATTGATGGGTTG
GCTTCAGGTTGGCTTTTTATTTTCTGAGGTTTCGGTCATCACATATGTCTTTTTCTTTCTTGGTT
TATAACATGCCCATTCTTTCTTTGGCTTGGTATTTTAATCGGATG
Found at i:1451818 original size:12 final size:12
Alignment explanation
Indices: 1451801--1451829 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
1451791 AATACTCAAA
1451801 ATCTCTCGTTCT
1 ATCTCTCGTTCT
1451813 ATCTCTCGTTCT
1 ATCTCTCGTTCT
1451825 ATCTC
1 ATCTC
1451830 CCTAAACACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.10, C:0.34, G:0.07, T:0.48
Consensus pattern (12 bp):
ATCTCTCGTTCT
Done.