Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr2
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: 43198478
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2088848 characters in sequence are not A, C, G, or T
File 30 of 131
Found at i:9731141 original size:4 final size:4
Alignment explanation
Indices: 9731134--9731186 Score: 99
Period size: 4 Copynumber: 13.5 Consensus size: 4
9731124 GAATGAATGA
9731134 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A-GT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
9731181 ATGT AT
1 ATGT AT
9731187 CATTTTAGTA
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 3 0.06
4 45 0.94
ACGTcount: A:0.26, C:0.00, G:0.25, T:0.49
Consensus pattern (4 bp):
ATGT
Found at i:9731196 original size:23 final size:23
Alignment explanation
Indices: 9731134--9731186 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
9731124 GAATGAATGA
*
9731134 ATGTATGTATGTATGTATGTATGT
1 ATGTATATATGTA-GTATGTATGT
*
9731158 ATGTATGTATGTAGTATGTATGT
1 ATGTATATATGTAGTATGTATGT
9731181 ATGTAT
1 ATGTAT
9731187 CATTTTAGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 16 0.55
24 13 0.45
ACGTcount: A:0.26, C:0.00, G:0.25, T:0.49
Consensus pattern (23 bp):
ATGTATATATGTAGTATGTATGT
Found at i:9731327 original size:109 final size:109
Alignment explanation
Indices: 9731237--9732049 Score: 844
Period size: 109 Copynumber: 7.5 Consensus size: 109
9731227 AGTTTTTTTT
* * * * *
9731237 TTTGTATTTAGTTTAGTGAT-TTGTGCTTTGTTATGAATTTAAATTTTTTTATATTTTAAAATTA
1 TTTGTATTTAGTTTAGTGTTATTGTGATTTTTTATGAATGTAAATTTTTTTATATTTTTAAATTA
* *
9731301 TTTTAAAGTTTTTTTGTTAGTAATTTATGATTAGGTTCTAAATTG
66 TTTTAAAGTTATTTTGTTAGTAATTTATGATTA-GTTATAAATTG
* * * * * ** *
9731346 TTTGTGTTTAGTTTAGCGTT-TTGTGAATTTTTATTAATGTAAA-------AAAAATTT-AGTTA
1 TTTGTATTTAGTTTAGTGTTATTGTGATTTTTTATGAATGTAAATTTTTTTATATTTTTAAATTA
* *
9731402 TTTTATAGTTATTTTGTTAGTAATTTATGGTTAGATTATAAATTG
66 TTTTAAAGTTATTTTGTTAGTAATTTATGATTAG-TTATAAATTG
* *
9731447 TTTGTGTTTAGTTTAGTGTT-CTGTGATTTTTTATGAATGT-AATTTTTTTATATTTTTTAAATT
1 TTTGTATTTAGTTTAGTGTTATTGTGATTTTTTATGAATGTAAATTTTTTTATA-TTTTTAAATT
* * *
9731510 ATTTTATAGTCATTTTGTTAGTAATTTATGGTTAGGTTATAAATTG
65 ATTTTAAAGTTATTTTGTTAGTAATTTATGATTA-GTTATAAATTG
* * * * *
9731556 TTTGTGTCTTTAGTTTAATGTTTATTGTGATTTTTTATTAATGTAAATTTATTTT-TGTTTTCTT
1 -TT-TGTATTTAGTTTAGTG-TTATTGTGATTTTTTATGAATGTAAATTT-TTTTATATTTT-TA
* * *
9731620 AATTATTTGAATGTTGTTTTGTTAGTAATTTATGATTAGGTTATAAATTG
61 AATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTA-GTTATAAATTG
* *
9731670 TTTGTATTTAGTTTAGTGTTTATTGTGATCTTTTATGAATGT--ATTTTTTTGT-TTTTTAAAAT
1 TTTGTATTTAGTTTAGTG-TTATTGTGATTTTTTATGAATGTAAATTTTTTTATATTTTT-AAAT
* *
9731732 TATTTTAAAGTTATTTTGTTAGCAATTTATGATTAGATTATAAATTT
64 TATTTTAAAGTTATTTTGTTAGTAATTTATGATTAG-TTATAAATTG
* * * *
9731779 TTTGTATTTAGTTTAGTGTTTATTGTGACTTGTTATAAATGTAAATTTTTCTAT-TTTTTAAATT
1 TTTGTATTTAGTTTAGTG-TTATTGTGATTTTTTATGAATGTAAATTTTTTTATATTTTTAAATT
*
9731843 ATTTTAAATTTATTTTGTTAGTAATTTATGATTAGATTATAAATTG
65 ATTTTAAAGTTATTTTGTTAGTAATTTATGATTAG-TTATAAATTG
* * * * *
9731889 TTTGTGTTTAGTTTAGTATTTATTGTGATTTTTTATGAAT-T--TTTTTTTTGTTTTTTTTAAAT
1 TTTGTATTTAGTTTAGT-GTTATTGTGATTTTTTATGAATGTAAATTTTTTT-ATATTTTTAAAT
* *
9731951 TATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGCTATAAATTA
64 TATTTTAAAGTTATTTTGTTAGTAATTTATGATTA-GTTATAAATTG
* * *
9731998 TTTGTA--CAGTTTAATGTGTATTGTGATTTGTTAT-AATGTAAATTTTATTTAT
1 TTTGTATTTAGTTTAGTGT-TATTGTGATTTTTTATGAATGTAAATTTT-TTTAT
9732050 GATTAAATTT
Statistics
Matches: 597, Mismatches: 75, Indels: 64
0.81 0.10 0.09
Matches are distributed among these distances:
100 3 0.01
101 79 0.13
102 4 0.01
106 4 0.01
107 31 0.05
108 6 0.01
109 232 0.39
110 94 0.16
111 27 0.05
112 38 0.06
113 24 0.04
114 51 0.09
115 4 0.01
ACGTcount: A:0.26, C:0.02, G:0.14, T:0.58
Consensus pattern (109 bp):
TTTGTATTTAGTTTAGTGTTATTGTGATTTTTTATGAATGTAAATTTTTTTATATTTTTAAATTA
TTTTAAAGTTATTTTGTTAGTAATTTATGATTAGTTATAAATTG
Found at i:9731901 original size:219 final size:216
Alignment explanation
Indices: 9731237--9732043 Score: 933
Period size: 219 Copynumber: 3.7 Consensus size: 216
9731227 AGTTTTTTTT
* * * * *
9731237 TTTGTATTTAGTTTAGTGATTTGTGCTTTGTTATGAATTTAAATTTTTTTATATTTTAAAATTAT
1 TTTGTATTTAGTTTAGTGTTTTGTGATTTTTTATGAATGT-AATTTTTTTATTTTTTAAAATTAT
* * * * **
9731302 TTTAAAGTTTTTTTGTTAGTAATTTATGATTAGGTTCTAAATTGTTTGTGTTTAGTTTAGCG-TT
65 TTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTTTTTGTATTTAGTTTAATGTTT
* *** * * *
9731366 -TTGTGAATTT-TTATTAATGTAAA-----AAAAATTTAGTTATTTTATAGTTATTTTGTTAGTA
130 ATTGTG-ATTTGTTATTAATGTAAATTTTTTATTTTTTAATTATTTTAAATTTATTTTGTTAGTA
*
9731424 ATTTATGGTTAGATTATAAATTG
194 ATTTATGATTAGATTATAAATTG
* * *
9731447 TTTGTGTTTAGTTTAGTGTTCTGTGATTTTTTATGAATGTAATTTTTTTATATTTTTTAAATTAT
1 TTTGTATTTAGTTTAGTGTTTTGTGATTTTTTATGAATGTAATTTTTTTAT-TTTTTAAAATTAT
* * * *
9731512 TTTATAGTCATTTTGTTAGTAATTTATGGTTAGGTTATAAATTGTTTGTGTCTTTAGTTTAATGT
65 TTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATT-TTT-TGTATTTAGTTTAATGT
* * * *
9731577 TTATTGTGATTTTTTATTAATGTAAATTTATTTTTGTTTTCTTAATTA-TTTGAATGTTGTTTTG
128 TTATTGTGATTTGTTATTAATGTAAA--T-TTTTTATTTT-TTAATTATTTTAAAT-TTATTTTG
*
9731641 TTAGTAATTTATGATTAGGTTATAAATTG
188 TTAGTAATTTATGATTAGATTATAAATTG
* *
9731670 TTTGTATTTAGTTTAGTGTTTATTGTGATCTTTTATGAATGT-ATTTTTTTGTTTTTTAAAATTA
1 TTTGTATTTAGTTTAGTG-TT-TTGTGATTTTTTATGAATGTAATTTTTTTATTTTTTAAAATTA
* * *
9731734 TTTTAAAGTTATTTTGTTAGCAATTTATGATTAGATTATAAATTTTTTGTATTTAGTTTAGTGTT
64 TTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTTTTTGTATTTAGTTTAATGTT
* *
9731799 TATTGTGACTTGTTATAAATGTAAATTTTTCTATTTTTTAAATTATTTTAAATTTATTTTGTTAG
129 TATTGTGATTTGTTATTAATGTAAATTTTT-TATTTTTT-AATTATTTTAAATTTATTTTGTTAG
9731864 TAATTTATGATTAGATTATAAATTG
192 TAATTTATGATTAGATTATAAATTG
* * * * *
9731889 TTTGTGTTTAGTTTAGTATTTATTGTGATTTTTTATGAAT-T-TTTTTTTTGTTTTTTTTAAATT
1 TTTGTATTTAGTTTAGT-GTT-TTGTGATTTTTTATGAATGTAATTTTTTT-ATTTTTTAAAATT
* * *
9731952 ATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGCTATAAATTATTTGTA--CAGTTTAATGT
63 ATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTTTTTGTATTTAGTTTAATGT
*
9732015 GTATTGTGATTTGTTA-TAATGTAAATTTT
128 TTATTGTGATTTGTTATTAATGTAAATTTT
9732044 ATTTATGATT
Statistics
Matches: 511, Mismatches: 63, Indels: 40
0.83 0.10 0.07
Matches are distributed among these distances:
209 11 0.02
210 83 0.16
211 2 0.00
212 13 0.03
213 6 0.01
214 18 0.04
216 12 0.02
217 23 0.05
218 14 0.03
219 141 0.28
220 6 0.01
221 38 0.07
222 8 0.02
223 107 0.21
224 11 0.02
225 18 0.04
ACGTcount: A:0.26, C:0.02, G:0.14, T:0.58
Consensus pattern (216 bp):
TTTGTATTTAGTTTAGTGTTTTGTGATTTTTTATGAATGTAATTTTTTTATTTTTTAAAATTATT
TTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTTTTTGTATTTAGTTTAATGTTTA
TTGTGATTTGTTATTAATGTAAATTTTTTATTTTTTAATTATTTTAAATTTATTTTGTTAGTAAT
TTATGATTAGATTATAAATTG
Found at i:9732204 original size:49 final size:49
Alignment explanation
Indices: 9732150--9732268 Score: 211
Period size: 49 Copynumber: 2.4 Consensus size: 49
9732140 TTTTATGAGA
9732150 TATTTTTTATTGTGTTTTTTACTGTGTTCTTTGTTACTCACGTATTTAC
1 TATTTTTTATTGTGTTTTTTACTGTGTTCTTTGTTACTCACGTATTTAC
9732199 TATTTTTTATTGTGTTTTTTACTGTGTTCTTTGTTACTCACGTATTTAC
1 TATTTTTTATTGTGTTTTTTACTGTGTTCTTTGTTACTCACGTATTTAC
* *
9732248 TATGTTTTCACTGTGTTTTTT
1 TAT-TTTTTATTGTGTTTTTT
9732269 TGTTTATCAA
Statistics
Matches: 67, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
49 52 0.78
50 15 0.22
ACGTcount: A:0.13, C:0.12, G:0.13, T:0.62
Consensus pattern (49 bp):
TATTTTTTATTGTGTTTTTTACTGTGTTCTTTGTTACTCACGTATTTAC
Found at i:9734048 original size:33 final size:33
Alignment explanation
Indices: 9733987--9734067 Score: 92
Period size: 33 Copynumber: 2.5 Consensus size: 33
9733977 ACTACCATCA
* * * *
9733987 CAGTACTCCACTCCTCTCAGCTCGTATCCACCT
1 CAGTACTCCACTCCTCCCACCTCATATCCACCG
*
9734020 TAGTACTCCACTCCTCCCGACCT-ATATCCACCG
1 CAGTACTCCACTCCTCCC-ACCTCATATCCACCG
*
9734053 CAGTACTTCACTCCT
1 CAGTACTCCACTCCT
9734068 TCGAGCTCAA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
33 37 0.93
34 3 0.08
ACGTcount: A:0.20, C:0.44, G:0.09, T:0.27
Consensus pattern (33 bp):
CAGTACTCCACTCCTCCCACCTCATATCCACCG
Found at i:9734319 original size:29 final size:31
Alignment explanation
Indices: 9734267--9734345 Score: 76
Period size: 29 Copynumber: 2.6 Consensus size: 31
9734257 AAAAATCATA
* *
9734267 AGTTAAAGGCTTATTT-TACTACAAAAATA-G
1 AGTTAAGGGCTTATTTAAACTAC-AAAATAGG
*
9734297 -GTTAAGGGCTTATTTAAAC-ACAATATAGTG
1 AGTTAAGGGCTTATTTAAACTACAAAATAG-G
9734327 AGTTGAAGGGCTTATTTAA
1 AGTT-AAGGGCTTATTTAA
9734346 TTCTGTAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
28 5 0.12
29 16 0.39
30 3 0.07
31 3 0.07
32 14 0.34
ACGTcount: A:0.38, C:0.09, G:0.19, T:0.34
Consensus pattern (31 bp):
AGTTAAGGGCTTATTTAAACTACAAAATAGG
Found at i:9738012 original size:25 final size:26
Alignment explanation
Indices: 9737984--9738032 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
9737974 ATAAACATTA
*
9737984 AACTAA-ACAAATAA-TTTATAATAGT
1 AACTAACA-AAATAACTTTAAAATAGT
9738009 AACTAACAAAATAACTTTAAAATA
1 AACTAACAAAATAACTTTAAAATA
9738033 AATTAAAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 12 0.57
26 9 0.43
ACGTcount: A:0.59, C:0.10, G:0.02, T:0.29
Consensus pattern (26 bp):
AACTAACAAAATAACTTTAAAATAGT
Found at i:9738133 original size:5 final size:6
Alignment explanation
Indices: 9738117--9738142 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
9738107 CATTCTATTT
9738117 TAAAAA TAAAAA TAAAAA TAAAAA TA
1 TAAAAA TAAAAA TAAAAA TAAAAA TA
9738143 CATTATCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
TAAAAA
Found at i:9742363 original size:21 final size:21
Alignment explanation
Indices: 9742337--9742378 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
9742327 TTATTTGTTT
* *
9742337 TAAAATTTATATTTAATTCTA
1 TAAAATCTAGATTTAATTCTA
*
9742358 TAAAATCTAGATTTTATTCTA
1 TAAAATCTAGATTTAATTCTA
9742379 ATTTAAATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.50
Consensus pattern (21 bp):
TAAAATCTAGATTTAATTCTA
Found at i:9748278 original size:19 final size:19
Alignment explanation
Indices: 9748277--9748407 Score: 79
Period size: 19 Copynumber: 6.6 Consensus size: 19
9748267 CATACAAAAT
9748277 TACAAAATTACAATATTCA
1 TACAAAATTACAATATTCA
* *
9748296 TACAAAA-TACTA-ATCCAA
1 TACAAAATTACAATATTC-A
* * *
9748314 AACTATAAA-TACAAAATTAA
1 TAC-A-AAATTACAATATTCA
*
9748334 TTATAAAATAATTACAATATTCA
1 -TACAAAAT--T-ACAATATTCA
*
9748357 TACAAAATTATAATATTCA
1 TACAAAATTACAATATTCA
* *
9748376 CACAAAAAGTTACAATATACA
1 TAC-AAAA-TTACAATATTCA
9748397 TACAAAATTAC
1 TACAAAATTAC
9748408 CATTGGCGCC
Statistics
Matches: 85, Mismatches: 16, Indels: 22
0.69 0.13 0.18
Matches are distributed among these distances:
17 3 0.04
18 7 0.08
19 26 0.31
20 18 0.21
21 15 0.18
22 8 0.09
23 8 0.09
ACGTcount: A:0.56, C:0.15, G:0.01, T:0.29
Consensus pattern (19 bp):
TACAAAATTACAATATTCA
Found at i:9748289 original size:27 final size:27
Alignment explanation
Indices: 9748251--9748303 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
9748241 NNNNNNNNNN
*
9748251 ACAATATTACAATATTCATACAAAATT
1 ACAAAATTACAATATTCATACAAAATT
9748278 ACAAAATTACAATATTCATACAAAAT
1 ACAAAATTACAATATTCATACAAAAT
9748304 ACTAATCCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.30
Consensus pattern (27 bp):
ACAAAATTACAATATTCATACAAAATT
Found at i:9748392 original size:21 final size:20
Alignment explanation
Indices: 9748343--9748407 Score: 80
Period size: 19 Copynumber: 3.3 Consensus size: 20
9748333 ATTATAAAAT
9748343 AATTACAATATTCATAC-AA
1 AATTACAATATTCATACAAA
* *
9748362 AATTATAATATTCACACAAA
1 AATTACAATATTCATACAAA
*
9748382 AAGTTACAATATACATAC-AA
1 AA-TTACAATATTCATACAAA
9748402 AATTAC
1 AATTAC
9748408 CATTGGCGCC
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
19 19 0.49
20 8 0.21
21 12 0.31
ACGTcount: A:0.54, C:0.15, G:0.02, T:0.29
Consensus pattern (20 bp):
AATTACAATATTCATACAAA
Found at i:9754882 original size:3 final size:3
Alignment explanation
Indices: 9754874--9754939 Score: 123
Period size: 3 Copynumber: 22.0 Consensus size: 3
9754864 TCAAGATGAA
*
9754874 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
9754922 AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT
9754940 CATCATCATC
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:9754944 original size:3 final size:3
Alignment explanation
Indices: 9754938--9754996 Score: 109
Period size: 3 Copynumber: 19.7 Consensus size: 3
9754928 AATAATAATA
9754938 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
*
9754986 ATC ATC TTC AT
1 ATC ATC ATC AT
9754997 ATATCATGCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (3 bp):
ATC
Found at i:9755196 original size:15 final size:14
Alignment explanation
Indices: 9755167--9755213 Score: 60
Period size: 13 Copynumber: 3.3 Consensus size: 14
9755157 ATTTAAATCA
9755167 TTTGTAAAAACATAT
1 TTTGTAAAAA-ATAT
9755182 GTTTGTAAAAAATAT
1 -TTTGTAAAAAATAT
*
9755197 ATTG-AAAAAATAT
1 TTTGTAAAAAATAT
9755210 TTTG
1 TTTG
9755214 GAATTGAGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 12 0.41
14 3 0.10
15 4 0.14
16 10 0.34
ACGTcount: A:0.47, C:0.02, G:0.11, T:0.40
Consensus pattern (14 bp):
TTTGTAAAAAATAT
Found at i:9755198 original size:17 final size:16
Alignment explanation
Indices: 9755167--9755196 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9755157 ATTTAAATCA
9755167 TTTGTAAAAACATATG
1 TTTGTAAAAACATATG
9755183 TTTGTAAAAA-ATAT
1 TTTGTAAAAACATAT
9755197 ATTGAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.47, C:0.03, G:0.10, T:0.40
Consensus pattern (16 bp):
TTTGTAAAAACATATG
Found at i:9761794 original size:67 final size:67
Alignment explanation
Indices: 9761669--9761804 Score: 161
Period size: 67 Copynumber: 2.0 Consensus size: 67
9761659 AAGAGAATAG
* * *
9761669 ATAAAAAAATATAAAATATAAAAATATATATATGTACATATAAGAAAAATATATGTATGTGA-AT
1 ATAAAAAAATATAAAATATAAAAATATACATATGTAAATATAAGAAAAATATAAGTATGT-ATAT
9761733 AAA
65 AAA
* * * *
9761736 ATAAATAAATAT-ATATATAAAAATATACATATTTTAAAATGTAA-AAAAATATAAGTATGTATA
1 ATAAAAAAATATAAAATATAAAAATATACATA-TGT-AAATATAAGAAAAATATAAGTATGTATA
9761799 TAAA
64 TAAA
9761803 AT
1 AT
9761805 TATGAAGCAT
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
66 18 0.31
67 35 0.59
68 6 0.10
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.32
Consensus pattern (67 bp):
ATAAAAAAATATAAAATATAAAAATATACATATGTAAATATAAGAAAAATATAAGTATGTATATA
AA
Found at i:9763613 original size:89 final size:89
Alignment explanation
Indices: 9763488--9763693 Score: 204
Period size: 89 Copynumber: 2.3 Consensus size: 89
9763478 ATCCTCAATT
** * * * ** * *
9763488 TGCTACACTGCAACTTCAGAGAGATAAGGTTTGCTATTTTTAGTTTGCTCCACTTCAACTTCAGG
1 TGCTACACTGCAACTTCAGAGAGATAAGACTCGCTATCTTCAACTTGCCCCACTGCAACTTCAGG
9763553 GAGAT-AGGATTAGTAGCTTCAGTC
66 GAGATAAGG-TTAGTAGCTTCAGTC
* *
9763577 TGCTCCACTGTAACTTCA-ATGAGATAAGACTCGCTATCTTCAACTTGCCCCACTGCAACTTCAG
1 TGCTACACTGCAACTTCAGA-GAGATAAGACTCGCTATCTTCAACTTGCCCCACTGCAACTTCAG
* * **
9763641 GGGGATAAGGTTAGT-GATTTCAACC
65 GGAGATAAGGTTAGTAG-CTTCAGTC
*
9763666 TGCT-CTACTACAACTTCAGAGAGATAAG
1 TGCTAC-ACTGCAACTTCAGAGAGATAAG
9763694 GTTTGATATG
Statistics
Matches: 95, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
88 3 0.03
89 88 0.93
90 4 0.04
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (89 bp):
TGCTACACTGCAACTTCAGAGAGATAAGACTCGCTATCTTCAACTTGCCCCACTGCAACTTCAGG
GAGATAAGGTTAGTAGCTTCAGTC
Found at i:9763807 original size:50 final size:48
Alignment explanation
Indices: 9763747--9764317 Score: 327
Period size: 50 Copynumber: 11.4 Consensus size: 48
9763737 CGGTAATTTA
*
9763747 TAGCTTCAATCTTCTCCACTGCAGCTTCAAGGAAGTAAGATTCGCTGTTG
1 TAGCTTCAATCTT-TCCACTGCA-CTTCAGGGAAGTAAGATTCGCTGTTG
* * ** *
9763797 TAGCTTCAATCTGTTCCATTACACCACTAGGGAAGTAAGATTCGTTGTTG
1 TAGCTTCAATCT-TTCCACTGCACTTC-AGGGAAGTAAGATTCGCTGTTG
** * * * **
9763847 TAGCTTCAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTTACTGTTG
1 TAGCTTCAATC-TTTCCACTGCACT-TCAGGGAAGTAAGATTCGCTGTTG
* * ** * *
9763897 TAGCTTCAATCTGTTCTACTGTACCGCCAGAGAAGTAAGATTCGCCGTTG
1 TAGCTTCAATCT-TTCCACTGCA-CTTCAGGGAAGTAAGATTCGCTGTTG
* ** * * ** *
9763947 TGGCTTCAATCTTTTTAATTGCAGTGTTGGGGAAGCAAGATTCG-TCGTTG
1 TAGCTTCAATC-TTTCCACTGCACT-TCAGGGAAGTAAGATTCGCT-GTTG
* ** *
9763997 TAGCTTCAATATGTTCCACTGCACCGCCAGGGAAGTAAGATTCGCCGTTG
1 TAGCTTCAATCT-TTCCACTGCA-CTTCAGGGAAGTAAGATTCGCTGTTG
* * ** * * * * * *
9764047 TGGCTTTAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTG
1 TAGCTTCAATC-TTTCCACTGCACT-TCAGGGAAGTAAGATTCGCTGTTG
* * * * *
9764097 CAACTTCAATTTGTTCCACTGTACTGCCAGGGAAGTAAGATTCGCTGTTG
1 TAGCTTCAATCT-TTCCACTGCACT-TCAGGGAAGTAAGATTCGCTGTTG
* * * ** * *
9764147 TGGCCTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATTCACCGTTG
1 TAGCTTCAATCT-TTCCACTGCA-CTTCAGGGAAGTAAGATTCGCTGTTG
* * * * *
9764197 TAGCTTTAATCTAATT-AACTGCAATATTAGGGAAGTAAGATTCACTGTTG
1 TAGCTTCAATCT--TTCCACTGCACT-TCAGGGAAGTAAGATTCGCTGTTG
* ** *
9764247 TAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATTCGCCGTTG
1 TAGCTTCAATCT-TTCCACTGCA-CTTCAGGGAAGTAAGATTCGCTGTTG
* *
9764297 TAGTTTTAATCTATTCCACTG
1 TAGCTTCAATCT-TTCCACTG
9764318 TAACACCAAA
Statistics
Matches: 384, Mismatches: 117, Indels: 40
0.71 0.22 0.07
Matches are distributed among these distances:
49 7 0.02
50 370 0.96
51 7 0.02
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (48 bp):
TAGCTTCAATCTTTCCACTGCACTTCAGGGAAGTAAGATTCGCTGTTG
Found at i:9764047 original size:150 final size:150
Alignment explanation
Indices: 9763825--9764317 Score: 400
Period size: 150 Copynumber: 3.3 Consensus size: 150
9763815 TTACACCACT
* * ** ** * * * *
9763825 AGGGAAGTAAGATTCGTTGTTGTAGCTTCAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTT
1 AGGGAAGTAAGATTCGTCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTC
* * * * * * ***
9763890 ACTGTTGTAGCTTCAATCTGTTCT-ACTGTACCGCCAGAGAAGTAAGATTCGCCGTTGTGGCTTC
66 ACCGTTGTAGCTTTAATCT-TTCTAACTGCAACGCCAGAGAAGCAAGATTCACCGTTGCAACTTC
* * * **
9763954 AATCTT-TTTAATTGCAGTGTT
130 AAT-TTGTTCAACTGCACTGCC
* * *
9763975 GGGGAAGCAAGATTCGTCGTTGTAGCTTCAATATGTTCCACTGCACCGCCAGGGAAGTAAGATTC
1 AGGGAAGTAAGATTCGTCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTC
* * * * * * * *
9764040 GCCGTTGTGGCTTTAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGCAACTTCA
66 ACCGTTGTAGCTTTAATCTTTCTAACTGCAACGCCAGAGAAGCAAGATTCACCGTTGCAACTTCA
* *
9764105 ATTTGTTCCACTGTACTGCC
131 ATTTGTTCAACTGCACTGCC
* * *
9764125 AGGGAAGTAAGATTCG-CTGTTGTGGCCTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATT
1 AGGGAAGTAAGATTCGTC-GTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATT
* **** * * * * *
9764189 CACCGTTGTAGCTTTAATCTAAT-TAACTGCAATATTAGGGAAGTAAGATTCACTGTTGTAGCTT
65 CACCGTTGTAGCTTTAATCT-TTCTAACTGCAACGCCAGAGAAGCAAGATTCACCGTTGCAACTT
* * * *
9764253 CAATCTGTTCCACTACACCGCC
129 CAATTTGTTCAACTGCACTGCC
* * * *
9764275 AGGGAAGTAAGATTCGCCGTTGTAGTTTTAATCTATTCCACTG
1 AGGGAAGTAAGATTCGTCGTTGTAGCTTCAATCTGTTCCACTG
9764318 TAACACCAAA
Statistics
Matches: 274, Mismatches: 64, Indels: 10
0.79 0.18 0.03
Matches are distributed among these distances:
149 6 0.02
150 266 0.97
151 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (150 bp):
AGGGAAGTAAGATTCGTCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTC
ACCGTTGTAGCTTTAATCTTTCTAACTGCAACGCCAGAGAAGCAAGATTCACCGTTGCAACTTCA
ATTTGTTCAACTGCACTGCC
Found at i:9764106 original size:200 final size:200
Alignment explanation
Indices: 9763777--9764158 Score: 559
Period size: 200 Copynumber: 1.9 Consensus size: 200
9763767 GCAGCTTCAA
* * * * *
9763777 GGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTCCATTACACCACTAGGGAAGTAAGATTCGT
1 GGAAGCAAGATTCGCTGTTGTAGCTTCAATATGTTCCACTACACCACCAGGGAAGTAAGATTCGC
* * * * *
9763842 TGTTGTAGCTTCAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTTACTGTTGTAGCTTCAAT
66 CGTTGTAGCTTCAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGCAACTTCAAT
* *
9763907 CTGTTCTACTGTACCGCCAGAGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAGT
131 CTGTTCCACTGTACCGCCAGAGAAGTAAGATTCGCCGTTGTGGCCTCAATCTTTTTAATTGCAGT
9763972 GTTGG
196 GTTGG
* *
9763977 GGAAGCAAGATTCG-TCGTTGTAGCTTCAATATGTTCCACTGCACCGCCAGGGAAGTAAGATTCG
1 GGAAGCAAGATTCGCT-GTTGTAGCTTCAATATGTTCCACTACACCACCAGGGAAGTAAGATTCG
* * *
9764041 CCGTTGTGGCTTTAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGCAACTTCAA
65 CCGTTGTAGCTTCAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGCAACTTCAA
* * * *
9764106 TTTGTTCCACTGTACTGCCAGGGAAGTAAGATTCGCTGTTGTGGCCTCAATCT
130 TCTGTTCCACTGTACCGCCAGAGAAGTAAGATTCGCCGTTGTGGCCTCAATCT
9764159 GCTCCACTGC
Statistics
Matches: 160, Mismatches: 21, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
199 1 0.01
200 159 0.99
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.33
Consensus pattern (200 bp):
GGAAGCAAGATTCGCTGTTGTAGCTTCAATATGTTCCACTACACCACCAGGGAAGTAAGATTCGC
CGTTGTAGCTTCAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGCAACTTCAAT
CTGTTCCACTGTACCGCCAGAGAAGTAAGATTCGCCGTTGTGGCCTCAATCTTTTTAATTGCAGT
GTTGG
Found at i:9764180 original size:100 final size:100
Alignment explanation
Indices: 9763777--9764202 Score: 492
Period size: 100 Copynumber: 4.3 Consensus size: 100
9763767 GCAGCTTCAA
* * * * * * * * *
9763777 GGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTCCATTACACCACTAGGGAAGTAAGATTCGT
1 GGAAGCAAGATTCACCGTTGTAGCTTCAATTTGTTCCACTGCACCGCCAGGGAAGTAAGATTCGC
*
9763842 TGTTGTAGCTTCAATCTTTTTAACTGCAATGTCGG
66 TGTTGTGGCTTCAATCTTTTTAACTGCAATGTCGG
* * * * * *
9763877 GGAAGCAAGATTTACTGTTGTAGCTTCAATCTGTTCTACTGTACCGCCAGAGAAGTAAGATTCGC
1 GGAAGCAAGATTCACCGTTGTAGCTTCAATTTGTTCCACTGCACCGCCAGGGAAGTAAGATTCGC
* * * *
9763942 CGTTGTGGCTTCAATCTTTTTAATTGCAGTGTTGG
66 TGTTGTGGCTTCAATCTTTTTAACTGCAATGTCGG
** *
9763977 GGAAGCAAGATTCGTCGTTGTAGCTTCAATATGTTCCACTGCACCGCCAGGGAAGTAAGATTCGC
1 GGAAGCAAGATTCACCGTTGTAGCTTCAATTTGTTCCACTGCACCGCCAGGGAAGTAAGATTCGC
* * *
9764042 CGTTGTGGCTTTAATCTTTTTAATTGCAATGTCGG
66 TGTTGTGGCTTCAATCTTTTTAACTGCAATGTCGG
* * * *
9764077 GGAAGCAAGATTCACCGTTGCAACTTCAATTTGTTCCACTGTACTGCCAGGGAAGTAAGATTCGC
1 GGAAGCAAGATTCACCGTTGTAGCTTCAATTTGTTCCACTGCACCGCCAGGGAAGTAAGATTCGC
* ** ** ** * *
9764142 TGTTGTGGCCTCAATCTGCTCCACTGCACCGCCAG
66 TGTTGTGGCTTCAATCTTTTTAACTGCAATGTCGG
*
9764177 GGAAGTAAGATTCACCGTTGTAGCTT
1 GGAAGCAAGATTCACCGTTGTAGCTT
9764203 TAATCTAATT
Statistics
Matches: 277, Mismatches: 49, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
100 277 1.00
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.32
Consensus pattern (100 bp):
GGAAGCAAGATTCACCGTTGTAGCTTCAATTTGTTCCACTGCACCGCCAGGGAAGTAAGATTCGC
TGTTGTGGCTTCAATCTTTTTAACTGCAATGTCGG
Found at i:9764498 original size:87 final size:87
Alignment explanation
Indices: 9764389--9764627 Score: 352
Period size: 87 Copynumber: 2.7 Consensus size: 87
9764379 TTATTCCACA
* ** *
9764389 TCTTCAGTCTTAACGCTAGGGAGATAAGATTCGCTATTTTCAGCTTTAATCTGCTCCGCTACAAT
1 TCTTCAGTCTTAACGCCAGGGAGATAAGATTCGCTACCTTCAGCTTTAATCTGCTCCGCTACAAC
9764454 GCCAGGGAAAGAAGACTCGCAG
66 GCCAGGGAAAGAAGACTCGCAG
* * * *
9764476 TCTTCGGTCTTAACGCCAGGGAGATAAGATTCTCTACCTTCAACTTTAATCTGCTTCGCTACAAC
1 TCTTCAGTCTTAACGCCAGGGAGATAAGATTCGCTACCTTCAGCTTTAATCTGCTCCGCTACAAC
*
9764541 GCCAGGGAAAGAAGACTCGCTG
66 GCCAGGGAAAGAAGACTCGCAG
* * * * *
9764563 TCTTCAGTCTTAACGTCAGGGAGATAAGATTCGTTGCCTTCAGTTTTAATCTGCTCCGTTACAAC
1 TCTTCAGTCTTAACGCCAGGGAGATAAGATTCGCTACCTTCAGCTTTAATCTGCTCCGCTACAAC
9764628 TTTAAACATT
Statistics
Matches: 134, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
87 134 1.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (87 bp):
TCTTCAGTCTTAACGCCAGGGAGATAAGATTCGCTACCTTCAGCTTTAATCTGCTCCGCTACAAC
GCCAGGGAAAGAAGACTCGCAG
Found at i:9768959 original size:25 final size:26
Alignment explanation
Indices: 9768920--9768994 Score: 82
Period size: 25 Copynumber: 2.8 Consensus size: 26
9768910 ATAAAAAAAT
*
9768920 ATAAAATATAAAAATATATATATGT-A
1 ATAAAAGA-AAAAATATATATATGTGA
* *
9768946 CATATAAG-AAAAATATATGTATGTGA
1 -ATAAAAGAAAAAATATATATATGTGA
9768972 ATAAAAGAAATAAATATATATAT
1 ATAAAAGAAA-AAATATATATAT
9768995 AAATATACAT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
25 21 0.52
26 3 0.08
27 16 0.40
ACGTcount: A:0.59, C:0.01, G:0.08, T:0.32
Consensus pattern (26 bp):
ATAAAAGAAAAAATATATATATGTGA
Found at i:9786952 original size:17 final size:17
Alignment explanation
Indices: 9786926--9786963 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
9786916 TTTCACCCTT
9786926 AAAACCTTAAACTCTAA-
1 AAAACCTT-AACTCTAAC
*
9786943 AAAACTTTAACTCTAAC
1 AAAACCTTAACTCTAAC
9786960 AAAA
1 AAAA
9786964 TTAATAAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.55, C:0.21, G:0.00, T:0.24
Consensus pattern (17 bp):
AAAACCTTAACTCTAAC
Found at i:9793734 original size:17 final size:16
Alignment explanation
Indices: 9793692--9793725 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
9793682 TATATATTTT
9793692 TATTTTTAATCAAATA
1 TATTTTTAATCAAATA
9793708 TACTTTTTAATCAAATA
1 TA-TTTTTAATCAAATA
9793725 T
1 T
9793726 TTATATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 2 0.12
17 15 0.88
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (16 bp):
TATTTTTAATCAAATA
Found at i:9794715 original size:26 final size:26
Alignment explanation
Indices: 9794669--9794720 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
9794659 GGTAAATTTG
*
9794669 CAAACAAAAAAAAGAATGAAATACAT
1 CAAACAAAAAAAAGAATGAAACACAT
* *
9794695 CAAATAAAAAACA-AATAGAAACACAT
1 CAAACAAAAAAAAGAAT-GAAACACAT
9794721 GTAATTAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 3 0.14
26 19 0.86
ACGTcount: A:0.69, C:0.13, G:0.06, T:0.12
Consensus pattern (26 bp):
CAAACAAAAAAAAGAATGAAACACAT
Found at i:9797290 original size:2 final size:2
Alignment explanation
Indices: 9797283--9797319 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
9797273 GAATGTGTAA
*
9797283 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9797320 AAAGGAGAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:9808734 original size:15 final size:15
Alignment explanation
Indices: 9808708--9808750 Score: 68
Period size: 15 Copynumber: 2.8 Consensus size: 15
9808698 CATCCAAATC
9808708 AAAAATGAAAAAAAAG
1 AAAAA-GAAAAAAAAG
*
9808724 AAGAAGAAAAAAAAG
1 AAAAAGAAAAAAAAG
9808739 AAAAAGAAAAAA
1 AAAAAGAAAAAA
9808751 GAGAGGTCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 21 0.84
16 4 0.16
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (15 bp):
AAAAAGAAAAAAAAG
Found at i:9809691 original size:14 final size:13
Alignment explanation
Indices: 9809641--9809691 Score: 50
Period size: 14 Copynumber: 3.8 Consensus size: 13
9809631 TTTGAGTCGT
9809641 AAAA-AAAAAAAG
1 AAAAGAAAAAAAG
*
9809653 AAAAAAGAAAAAAG
1 AAAAGA-AAAAAAG
*
9809667 AAAAAAGAAAAAAG
1 AAAAGA-AAAAAAG
9809681 AAAATGAAAAA
1 AAAA-GAAAAA
9809692 TGGAAAATGG
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
12 4 0.11
13 1 0.03
14 29 0.83
15 1 0.03
ACGTcount: A:0.86, C:0.00, G:0.12, T:0.02
Consensus pattern (13 bp):
AAAAGAAAAAAAG
Found at i:9809697 original size:14 final size:14
Alignment explanation
Indices: 9809680--9809720 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
9809670 AAAGAAAAAA
9809680 GAAAATGAAAAATG
1 GAAAATGAAAAATG
*
9809694 GAAAATGGAAAATG
1 GAAAATGAAAAATG
*
9809708 GAAAAAGAAAAAT
1 GAAAATGAAAAAT
9809721 TGAAGAGGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.66, C:0.00, G:0.22, T:0.12
Consensus pattern (14 bp):
GAAAATGAAAAATG
Found at i:9809713 original size:8 final size:7
Alignment explanation
Indices: 9809680--9809712 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
9809670 AAAGAAAAAA
9809680 GAAAATG
1 GAAAATG
*
9809687 AAAAATG
1 GAAAATG
9809694 GAAAATG
1 GAAAATG
9809701 GAAAATG
1 GAAAATG
9809708 GAAAA
1 GAAAA
9809713 AGAAAAATTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.64, C:0.00, G:0.24, T:0.12
Consensus pattern (7 bp):
GAAAATG
Found at i:9809719 original size:7 final size:7
Alignment explanation
Indices: 9809641--9809684 Score: 81
Period size: 7 Copynumber: 6.4 Consensus size: 7
9809631 TTTGAGTCGT
9809641 AAAAA-A
1 AAAAAGA
9809647 AAAAAGA
1 AAAAAGA
9809654 AAAAAGA
1 AAAAAGA
9809661 AAAAAGA
1 AAAAAGA
9809668 AAAAAGA
1 AAAAAGA
9809675 AAAAAGA
1 AAAAAGA
9809682 AAA
1 AAA
9809685 TGAAAAATGG
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 5 0.14
7 32 0.86
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:9809720 original size:21 final size:20
Alignment explanation
Indices: 9809646--9809719 Score: 85
Period size: 21 Copynumber: 3.6 Consensus size: 20
9809636 GTCGTAAAAA
*
9809646 AAAAAAGAAAAAAGAAAAAAG
1 AAAAAAGAAAAAAG-AAAATG
9809667 AAAAAAGAAAAAAGAAAATG
1 AAAAAAGAAAAAAGAAAATG
* **
9809687 AAAAATGGAAAATGGAAAATG
1 AAAAA-AGAAAAAAGAAAATG
*
9809708 GAAAAAGAAAAA
1 AAAAAAGAAAAA
9809720 TTGAAGAGGC
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.77, C:0.00, G:0.18, T:0.05
Consensus pattern (20 bp):
AAAAAAGAAAAAAGAAAATG
Found at i:9810938 original size:44 final size:44
Alignment explanation
Indices: 9810829--9811541 Score: 390
Period size: 44 Copynumber: 16.4 Consensus size: 44
9810819 AAACCGCTAG
* * * **
9810829 TCTTATCCCCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGTGAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAGT-AA
* * *
9810874 TCTTATCTCCCTG-AGTTTGTAGTGGAGCAGATTAAAGCCAGTAA
1 TCTTATCTCCCTGAAG-TTGCAGTGGAGCAGATTGAAGACAGTAA
* * * * *
9810918 TCCTATCTCCCTGAAGTTGTAGTGGAG-GGATT-AAAACAATAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAGTA-A
* * * * * * *
9810961 TCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCA-TCAG--G
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAGTAA
** * ** *
9811002 TCTTATCTCCCTGAAGTTGCAGCAGAGTAGACCGAAGA-AGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAG-TAA
** * * ** *
9811046 TCTTATCTCCCT-AAGCAGTAGTGGAGCAGATCGAAGATGGCAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAGTA-A
* * * *
9811090 TCTTATCTCGCTGAGGTTGTAGTGGAGCAGATTGAAG-CTGATAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAG-TAA
* * * *
9811134 TCCTATCTCCCTGAAGTTACAGTGGAGCAGATT-AAAACAATAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAGTA-A
* * * * * * *
9811178 TCTTATCTCTCTGAAGTTGCAGTAGAGTAGATAGCA-TCAG--G
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAGTAA
* * * **
9811219 TCTTATCTCCCT-AAGCTGTAGTGGAGCAGATCGAAGATGGTGAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAGT-AA
* * * * *
9811263 TCTTATCTCTCTG-AGTTTGTAGGGGAGCATATTGAAGCCAGTAA
1 TCTTATCTCCCTGAAG-TTGCAGTGGAGCAGATTGAAGACAGTAA
* * * * * *
9811307 TCCTATCTCCCTGAAGTGGCAGTGGAGAAGATTCAA-ATAATAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAGTA-A
* * * * * *
9811351 TCTTATCTCTCTGAATTTGCAGTAGAGCAGA-TCACA-TCAG--G
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-AGACAGTAA
* * * * * * *
9811392 TCTTATCTCCCTGAGGTTGTAGCGGAGTAGACTG-AGAAAGCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAGTAA
* * * * *
9811435 GTCTTATCCCCCTAAAGTTGCAGTGGGGCAGACTGAAGATAGTGAA
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAGT-AA
*
9811481 TCTTATCTCCCTG-AGTTTGCAGTGGAGCAGATTGAAGCCAGTAA
1 TCTTATCTCCCTGAAG-TTGCAGTGGAGCAGATTGAAGACAGTAA
*
9811525 TCCTATCTCCCTGAAGT
1 TCTTATCTCCCTGAAGT
9811542 GGCAAATAAT
Statistics
Matches: 503, Mismatches: 131, Indels: 69
0.72 0.19 0.10
Matches are distributed among these distances:
40 18 0.04
41 72 0.14
42 7 0.01
43 57 0.11
44 230 0.46
45 117 0.23
46 2 0.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAGTAA
Found at i:9811150 original size:173 final size:170
Alignment explanation
Indices: 9810916--9811377 Score: 473
Period size: 173 Copynumber: 2.7 Consensus size: 170
9810906 TAAAGCCAGT
* * * * * * *
9810916 AATCCTATCTCCCTGAAGTTGTAGTGGAG-GGATTAAAACAATAGATCTTATCTCTCTGAAGTTG
1 AATCTTATCTCCCTGAGGTTGTAGTGGAGCAGATTGAAGCAATA-ATCCTATCTCCCTGAAGTTG
* * ** *
9810980 CAGTAGAGTAGAT-CGC-ATCAGGTCTTATCTCCCTGAAGTTGCAGCAGAGTAGACCGAAGAAGC
65 CAGTGGAGAAGATAAACAAT-AGATCTTATCTCCCTGAAGTTGCAGCAGAGTAGA---AAGAAGC
9811043 AAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAG
126 AAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGG-AG
* * *
9811089 -ATCTTATCTCGCTGAGGTTGTAGTGGAGCAGATTGAAGCTGATAATCCTATCTCCCTGAAGTTA
1 AATCTTATCTCCCTGAGGTTGTAGTGGAGCAGATTGAAGC-AATAATCCTATCTCCCTGAAGTTG
* * * * * * *
9811153 CAGTGGAGCAGATTAAAACAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATAGCATCAG
65 CAGTGGAGAAGA-T-AAACAATAGATCTTATCTCCCTGAAGTTGCAGCAGAGTAGAAAGAAGCAA
* * *
9811218 GTCTTATCTCCCTAAGCTGTAGTGGAGCAGATCGAAGATGGTG
128 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGAG
* * * * * *
9811261 AATCTTATCTCTCTGAGTTTGTAGGGGAGCATATTGAAGCCAGTAATCCTATCTCCCTGAAGTGG
1 AATCTTATCTCCCTGAGGTTGTAGTGGAGCAGATTGAAG-CAATAATCCTATCTCCCTGAAGTTG
* * * *
9811326 CAGTGGAGAAGATTCAAATAATAGATCTTATCTCTCTGAATTTGCAGTAGAG
65 CAGTGGAGAAGA-T-AAACAATAGATCTTATCTCCCTGAAGTTGCAGCAGAG
9811378 CAGATCACAT
Statistics
Matches: 245, Mismatches: 36, Indels: 16
0.82 0.12 0.05
Matches are distributed among these distances:
172 26 0.11
173 180 0.73
174 5 0.02
176 32 0.13
177 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.28
Consensus pattern (170 bp):
AATCTTATCTCCCTGAGGTTGTAGTGGAGCAGATTGAAGCAATAATCCTATCTCCCTGAAGTTGC
AGTGGAGAAGATAAACAATAGATCTTATCTCCCTGAAGTTGCAGCAGAGTAGAAAGAAGCAAATC
TTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGAG
Found at i:9811333 original size:217 final size:217
Alignment explanation
Indices: 9810872--9811545 Score: 686
Period size: 217 Copynumber: 3.1 Consensus size: 217
9810862 GAAGATGGTG
* * * * *
9810872 AATCTTATCTCCCTG-AGTTTGTAGTGGAGCAGATTAAAGCCAGTAATCCTATCTCCCTGAAGTT
1 AATCCTATCTCCCTGAAG-TGGCAGTGGAGCAGATTAAAGCTAATAATCCTATCTCCCTGAAGTT
* * *
9810936 GTAGTGGAG-GGATTAAAACAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCA
65 GCAGTGGAGCAGATTAAAACAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATAGCATCA
* ** * ** * **
9811000 GGTCTTATCTCCCTGAAGTTGCAGCAGAGTAGACCGAAGA-AGCAAATCTTATCTCCCTAAG-CA
130 GGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGA-CGAAGATAGTGAATCTTATCTCCCTGAGTTT
* *** *
9811063 GTAGTGGAGCAGATCGAAGATGGC
194 GTAGTGGAGCAGATTGAAGCCAGT
* * * * * * *
9811087 AGATCTTATCTCGCTGAGGTTGTAGTGGAGCAGATTGAAGCTGATAATCCTATCTCCCTGAAGTT
1 A-ATCCTATCTCCCTGAAGTGGCAGTGGAGCAGATTAAAGCTAATAATCCTATCTCCCTGAAGTT
*
9811152 ACAGTGGAGCAGATTAAAACAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATAGCATCA
65 GCAGTGGAGCAGATTAAAACAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATAGCATCA
* * * *
9811217 GGTCTTATCTCCCT-AAGCTGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTCTCTGAGTTT
130 GGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGA-CGAAGATAGTGAATCTTATCTCCCTGAGTTT
* *
9811281 GTAGGGGAGCATATTGAAGCCAGT
194 GTAGTGGAGCAGATTGAAGCCAGT
* * * *
9811305 AATCCTATCTCCCTGAAGTGGCAGTGGAGAAGATTCAAA--TAATAGATCTTATCTCTCTGAATT
1 AATCCTATCTCCCTGAAGTGGCAGTGGAGCAGATT-AAAGCTAATA-ATCCTATCTCCCTGAAGT
* * * * * * **
9811368 TGCAGTAGAGCAGA-T--CAC-ATCAGGTCTTATCTCCCTGAGGTTGTAGCGGAGTAGACTGAGA
64 TGCAGTGGAGCAGATTAAAACAAT-AGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGA-T-AG-
* * * * *
9811429 AAGCAAGTCTTATCCCCCTAAAGTTGCAGTGGGGCAGACTGAAGATAGTGAATCTTATCTCCCTG
125 CATCAGGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGAC-GAAGATAGTGAATCTTATCTCCCTG
*
9811494 AGTTTGCAGTGGAGCAGATTGAAGCCAGT
189 AGTTTGTAGTGGAGCAGATTGAAGCCAGT
9811523 AATCCTATCTCCCTGAAGTGGCA
1 AATCCTATCTCCCTGAAGTGGCA
9811546 AATAATAGAT
Statistics
Matches: 384, Mismatches: 62, Indels: 23
0.82 0.13 0.05
Matches are distributed among these distances:
213 2 0.01
214 30 0.08
215 2 0.01
216 88 0.23
217 155 0.40
218 107 0.28
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (217 bp):
AATCCTATCTCCCTGAAGTGGCAGTGGAGCAGATTAAAGCTAATAATCCTATCTCCCTGAAGTTG
CAGTGGAGCAGATTAAAACAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATAGCATCAG
GTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACGAAGATAGTGAATCTTATCTCCCTGAGTTTGT
AGTGGAGCAGATTGAAGCCAGT
Found at i:9811391 original size:173 final size:173
Alignment explanation
Indices: 9811046--9811403 Score: 542
Period size: 173 Copynumber: 2.1 Consensus size: 173
9811036 AAGAAGCAAA
9811046 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATCTTATCTCGCTGAGGTTGTA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATCTTATCTCGCTGAGGTTGTA
* * * *
9811111 GTGGAGCAGATTGAAGCTGATAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAATA
66 GGGGAGCAGATTGAAGCAGATAATCCTATCTCCCTGAAGTGACAGTGGAGAAGATTAAAACAATA
*
9811176 GATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATAGCATCAGG
131 GATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATAGCATCAGG
* * * *
9811219 TCTTATCTCCCTAAGCTGTAGTGGAGCAGATCGAAGATGG-TGAATCTTATCTCTCTGAGTTTGT
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAG-ATCTTATCTCGCTGAGGTTGT
* * * *
9811283 AGGGGAGCATATTGAAGCCAG-TAATCCTATCTCCCTGAAGTGGCAGTGGAGAAGATTCAAATAA
65 AGGGGAGCAGATTGAAG-CAGATAATCCTATCTCCCTGAAGTGACAGTGGAGAAGATTAAAACAA
*
9811347 TAGATCTTATCTCTCTGAATTTGCAGTAGAGCAGATCA-CATCAGG
129 TAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGAT-AGCATCAGG
9811392 TCTTATCTCCCT
1 TCTTATCTCCCT
9811404 GAGGTTGTAG
Statistics
Matches: 168, Mismatches: 14, Indels: 6
0.89 0.07 0.03
Matches are distributed among these distances:
172 1 0.01
173 164 0.98
174 3 0.02
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.29
Consensus pattern (173 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATCTTATCTCGCTGAGGTTGTA
GGGGAGCAGATTGAAGCAGATAATCCTATCTCCCTGAAGTGACAGTGGAGAAGATTAAAACAATA
GATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATAGCATCAGG
Found at i:9811707 original size:391 final size:381
Alignment explanation
Indices: 9810862--9811831 Score: 1047
Period size: 391 Copynumber: 2.5 Consensus size: 381
9810852 GGGGCAGACT
* * * * * *
9810862 GAAGATGGTGAATCTTATCTCCCTGAGTTTGTAGTGGAGCAGATTAAAGCCAGTAATCCTATCTC
1 GAAGATAGTCAATCTTATCCCCCTGAGTTAGTAGGGGAGCATATTAAAGCCAGTAATCCTATCTC
* * * * *
9810927 CCTGAAGTTGTAGTGGAGGGATTAAAACAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGA
66 CCTGAAGTGGCAGTGGAGGGATTCAAATAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA
* * * * *
9810992 TCGCATCAGGTCTTATCTCCCTGAAGTTGCAGCAGAGTAGACCGA-AGAAGCAAATCTTATCTCC
131 TCACATCAGGTCTTATCTCCCTGAGGTTGCAGCGGAGTAGACTGAGA-AAGCAAATCTTATCCCC
* * *
9811056 CTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATCTTATCTCGCTGAGGTTGTAGTGGAGCAGA
195 CTAAGCAGCAGTGGAGCAGATCGAAGATGGCAGATCTTATCTCCCTGAGGTTGCAGTGGAGCAGA
*
9811121 TTGAAGCTGATAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAATAGATCTTATCT
260 TTGAAGCAGATAATCCTATCTCCCT--AG-TACAGTGGAGC-----AAAACAATAGATCTTATCT
* * * *
9811186 CTCTGAAGTTGCAGTAGAGTAGATAGCATCAGGTCTTATCTCCCTAAGCTGTAGTGGAGCAGATC
317 CTCTGAAGTTGCAGTAGAGCAGATAGCATCAGGTCTTATCTCCCTAAGCTGCAGCGAAGCAGATC
* * * * * *
9811251 GAAGATGGTGAATCTTATCTCTCTGAGTTTGTAGGGGAGCATATTGAAGCCAGTAATCCTATCTC
1 GAAGATAGTCAATCTTATCCCCCTGAGTTAGTAGGGGAGCATATTAAAGCCAGTAATCCTATCTC
* *
9811316 CCTGAAGTGGCAGTGGAGAAGATTCAAATAATAGATCTTATCTCTCTGAATTTGCAGTAGAGCAG
66 CCTGAAGTGGCAGTGGAG-GGATTCAAATAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAG
* *
9811381 ATCACATCAGGTCTTATCTCCCTGAGGTTGTAGCGGAGTAGACTGAGAAAGCAAGTCTTATCCCC
130 ATCACATCAGGTCTTATCTCCCTGAGGTTGCAGCGGAGTAGACTGAGAAAGCAAATCTTATCCCC
** * *
9811446 CTAAAGTTGCAGTGGGGCAGA-CTGAAGATAGTG-A-ATCTTATCTCCCTGAGTTTGCAGTGGAG
195 CT-AAGCAGCAGTGGAGCAGATC-GAAGAT-G-GCAGATCTTATCTCCCTGAGGTTGCAGTGGAG
*
9811508 CAGATTGAAGCCAG-TAATCCTATCTCCCT-G-A-AGT-G-GC-AAATAATAGATCTTATCTCTC
256 CAGATTGAAG-CAGATAATCCTATCTCCCTAGTACAGTGGAGCAAAACAATAGATCTTATCTCTC
* *
9811566 TGAAGTTGCAGTAGAGCAGATCA-CATCAGGTCTTATCTCCCTGAGGTTGCAGCGAAGCAGA-C
320 TGAAGTTGCAGTAGAGCAGAT-AGCATCAGGTCTTATCTCCCT-AAGCTGCAGCGAAGCAGATC
*
9811628 TGAGGA-AG-CAAGTCTTATCCCCCTGAAGTTGCAGT-GGGGCAGACTGAAGATGGTGAATTAAA
1 -GAAGATAGTCAA-TCTTATCCCCCTG-AGTT--AGTAGGGG-AG-C-----A---T--ATTAAA
* * * *
9811690 GCCAGTAATCCTATCTCCCTAAAGTGGCAGTTGAGTGGAATCAAATAATAGATCTTATCTCCCTG
49 GCCAGTAATCCTATCTCCCTGAAGTGGCAGTGGAG-GGATTCAAATAATAGATCTTATCTCTCTG
* *
9811755 AAGTTGCAGTAGAGCAGATCACATCAAGTCTTATCTCCCTG-GGTTTGCAGCGGAGCAGACTGAA
113 AAGTTGCAGTAGAGCAGATCACATCAGGTCTTATCTCCCTGAGG-TTGCAGCGGAGTAGACTG-A
*
9811819 GAAAGCAGATCTT
176 GAAAGCAAATCTT
9811832 GCCTTCCTAT
Statistics
Matches: 501, Mismatches: 52, Indels: 53
0.83 0.09 0.09
Matches are distributed among these distances:
376 2 0.00
377 72 0.14
378 22 0.04
379 4 0.01
380 4 0.01
381 1 0.00
383 2 0.00
384 1 0.00
385 3 0.01
386 2 0.00
388 1 0.00
389 78 0.16
390 102 0.20
391 190 0.38
392 16 0.03
393 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (381 bp):
GAAGATAGTCAATCTTATCCCCCTGAGTTAGTAGGGGAGCATATTAAAGCCAGTAATCCTATCTC
CCTGAAGTGGCAGTGGAGGGATTCAAATAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA
TCACATCAGGTCTTATCTCCCTGAGGTTGCAGCGGAGTAGACTGAGAAAGCAAATCTTATCCCCC
TAAGCAGCAGTGGAGCAGATCGAAGATGGCAGATCTTATCTCCCTGAGGTTGCAGTGGAGCAGAT
TGAAGCAGATAATCCTATCTCCCTAGTACAGTGGAGCAAAACAATAGATCTTATCTCTCTGAAGT
TGCAGTAGAGCAGATAGCATCAGGTCTTATCTCCCTAAGCTGCAGCGAAGCAGATC
Found at i:9811940 original size:89 final size:88
Alignment explanation
Indices: 9811789--9812063 Score: 343
Period size: 89 Copynumber: 3.1 Consensus size: 88
9811779 CAAGTCTTAT
*
9811789 CTCCCTGGGTTTGCAGCGGAGCAGACTGAAGAAAGCAGATCTTGCCTTCCTATACTGACAGCGAA
1 CTCCCTGGG-TTGCAGCGGAGCAGACTGAAGAAAGCAGATCTTGCCTTCCTGTACTGACAGCGAA
* * *
9811854 CCAAATCGAAGACACCAGCGTTGC
65 ACAGATCGAAGACACCAGCCTTGC
* * *
9811878 CTCCCTGGGCTTGCAGTGGAGCAGACTGAAGAAAGTAGATCTCGCCTTCCTGTACTGACAGCGAA
1 CTCCCTGGG-TTGCAGCGGAGCAGACTGAAGAAAGCAGATCTTGCCTTCCTGTACTGACAGCGAA
* *
9811943 GCAGATCGAAGATACCAGCCTTGC
65 ACAGATCGAAGACACCAGCCTTGC
* * * * * * *
9811967 CTCCATGGGTTGCCAGCGGAGTAGACTGAATAAAACAGATTTTGCCTTCTTGTACTGACAGCAAA
1 CTCCCTGGGTTG-CAGCGGAGCAGACTGAAGAAAGCAGATCTTGCCTTCCTGTACTGACAGCGAA
* * *
9812032 ACAGATCGAAAACACCAACCTTGT
65 ACAGATCGAAGACACCAGCCTTGC
*
9812056 GTCCCTGG
1 CTCCCTGG
9812064 CATTACAGCG
Statistics
Matches: 159, Mismatches: 26, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
88 3 0.02
89 156 0.98
ACGTcount: A:0.28, C:0.27, G:0.24, T:0.21
Consensus pattern (88 bp):
CTCCCTGGGTTGCAGCGGAGCAGACTGAAGAAAGCAGATCTTGCCTTCCTGTACTGACAGCGAAA
CAGATCGAAGACACCAGCCTTGC
Found at i:9821745 original size:17 final size:17
Alignment explanation
Indices: 9821723--9821758 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
9821713 TAGAATTCAG
*
9821723 TTGAGAAAATTATTTAA
1 TTGAGAAAATTAATTAA
9821740 TTGAGAAAATTAATTAA
1 TTGAGAAAATTAATTAA
9821757 TT
1 TT
9821759 ATTTAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (17 bp):
TTGAGAAAATTAATTAA
Found at i:9825608 original size:41 final size:41
Alignment explanation
Indices: 9825551--9825704 Score: 222
Period size: 41 Copynumber: 3.8 Consensus size: 41
9825541 ACTATAGTGT
* *
9825551 AAATAGGGGCACGTATGTGCTATTCAGGGGTACCAAAGTAC
1 AAATAGGGGCACGTATGTGCAATTCAAGGGTACCAAAGTAC
* *
9825592 AAATAGAGGCATGTATGTGCAATTCAAGGGTACCAAAGTAC
1 AAATAGGGGCACGTATGTGCAATTCAAGGGTACCAAAGTAC
* *
9825633 AAATAGGGGCATGTATGTGGC-ATTCAAGGGTACCGAAGTAC
1 AAATAGGGGCACGTATGT-GCAATTCAAGGGTACCAAAGTAC
*
9825674 AAACAGGGGCACGTATGTGCAATTC-AGGGTA
1 AAATAGGGGCACGTATGTGCAATTCAAGGGTA
9825705 TAATTAATTA
Statistics
Matches: 103, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
40 8 0.08
41 93 0.90
42 2 0.02
ACGTcount: A:0.34, C:0.16, G:0.29, T:0.21
Consensus pattern (41 bp):
AAATAGGGGCACGTATGTGCAATTCAAGGGTACCAAAGTAC
Found at i:9832956 original size:41 final size:41
Alignment explanation
Indices: 9832890--9833043 Score: 172
Period size: 41 Copynumber: 3.8 Consensus size: 41
9832880 ACTAGAGTGT
*
9832890 AAATAGGGGCACGCATGTGCT-ATTCAAGGGTACTGAAGTAC
1 AAATAGGGGCACGTATGTG-TAATTCAAGGGTACTGAAGTAC
* *
9832931 AAAAAGGGGCACGTATGTGTAATTCAGGGGTA-TCGAAGTAC
1 AAATAGGGGCACGTATGTGTAATTCAAGGGTACT-GAAGTAC
** * *
9832972 AAATAGGGGCACGTATGTGGCATT-TAGGGTTACCGAAGTAC
1 AAATAGGGGCACGTATGTGTAATTCAAGGG-TACTGAAGTAC
* *
9833013 AAATAGGGGCACGTGTGTGCAATTC-AGGGTA
1 AAATAGGGGCACGTATGTGTAATTCAAGGGTA
9833044 TAATTAATTA
Statistics
Matches: 96, Mismatches: 12, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
40 7 0.07
41 89 0.93
ACGTcount: A:0.31, C:0.14, G:0.32, T:0.23
Consensus pattern (41 bp):
AAATAGGGGCACGTATGTGTAATTCAAGGGTACTGAAGTAC
Found at i:9833037 original size:82 final size:82
Alignment explanation
Indices: 9832890--9833041 Score: 218
Period size: 82 Copynumber: 1.9 Consensus size: 82
9832880 ACTAGAGTGT
* *
9832890 AAATAGGGGCACGCATGTGCTATTCAAGGGTACTGAAGTACAAAAAGGGGCACGTATGTGTAATT
1 AAATAGGGGCACGCATGTGCTATTCAAGGGTACCGAAGTACAAAAAGGGGCACGTATGTGCAATT
9832955 CAGGGGTATCGAAGTAC
66 CAGGGGTATCGAAGTAC
* * * *
9832972 AAATAGGGGCACGTATGTGGC-ATT-TAGGGTTACCGAAGTACAAATAGGGGCACGTGTGTGCAA
1 AAATAGGGGCACGCATGT-GCTATTCAAGGG-TACCGAAGTACAAAAAGGGGCACGTATGTGCAA
9833035 TTCAGGG
64 TTCAGGG
9833042 TATAATTAAT
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
81 4 0.06
82 56 0.90
83 2 0.03
ACGTcount: A:0.31, C:0.14, G:0.32, T:0.22
Consensus pattern (82 bp):
AAATAGGGGCACGCATGTGCTATTCAAGGGTACCGAAGTACAAAAAGGGGCACGTATGTGCAATT
CAGGGGTATCGAAGTAC
Found at i:9840420 original size:20 final size:20
Alignment explanation
Indices: 9840379--9840421 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
9840369 TAACCAGAGG
*
9840379 GGGTATGTCACGACATAGGA
1 GGGTATGTCACGACATACGA
9840399 GGGTCATGTCACGACAT-CGA
1 GGGT-ATGTCACGACATACGA
9840419 GGG
1 GGG
9840422 CAGTTTCACT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.26, C:0.19, G:0.37, T:0.19
Consensus pattern (20 bp):
GGGTATGTCACGACATACGA
Found at i:9847482 original size:16 final size:17
Alignment explanation
Indices: 9847463--9847495 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
9847453 TAAATGTAAG
9847463 TAAAAC-TAAAGAAAAT
1 TAAAACATAAAGAAAAT
*
9847479 TAAAACATAATGAAAAT
1 TAAAACATAAAGAAAAT
9847496 ACTTGTATTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.67, C:0.06, G:0.06, T:0.21
Consensus pattern (17 bp):
TAAAACATAAAGAAAAT
Found at i:9852881 original size:5 final size:5
Alignment explanation
Indices: 9852871--9852912 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
9852861 TTTTTCCCTT
* *
9852871 TTTTA TTTTA TATTA TTTTA TATTA -TTTA TTTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA -TTTTA TTTTA TT
9852913 GATCTATTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
4 3 0.10
5 24 0.77
6 4 0.13
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:9852889 original size:15 final size:15
Alignment explanation
Indices: 9852870--9852912 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
9852860 CTTTTTCCCT
9852870 TTTTTATTTTATATTA
1 TTTTTATTTTAT-TTA
*
9852886 -TTTTATATTATTTA
1 TTTTTATTTTATTTA
9852900 TTTTTATTTTATT
1 TTTTTATTTTATT
9852913 GATCTATTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 3 0.12
15 21 0.88
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTTATTTTATTTA
Found at i:9852926 original size:20 final size:20
Alignment explanation
Indices: 9852883--9852932 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
9852873 TTATTTTATA
* *
9852883 TTATTTTATATTATTTATTT
1 TTATTTTATATGATCTATTT
9852903 TTATTTTAT-TGATCTATTT
1 TTATTTTATATGATCTATTT
9852922 CTTATTCTTAT
1 -TTATT-TTAT
9852933 GCTTAGATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 8 0.31
20 14 0.54
21 4 0.15
ACGTcount: A:0.22, C:0.06, G:0.02, T:0.70
Consensus pattern (20 bp):
TTATTTTATATGATCTATTT
Found at i:9854108 original size:6 final size:7
Alignment explanation
Indices: 9854091--9854117 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
9854081 GCTCTTGTAA
9854091 AAAAAAG
1 AAAAAAG
9854098 AAAAAAG
1 AAAAAAG
9854105 AAAAAAG
1 AAAAAAG
9854112 AAAAAA
1 AAAAAA
9854118 AATAATGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:9858562 original size:24 final size:24
Alignment explanation
Indices: 9858535--9858646 Score: 75
Period size: 24 Copynumber: 4.7 Consensus size: 24
9858525 GGTAATCCCG
9858535 AATACGCCACAAAGGCACATACAA
1 AATACGCCACAAAGGCACATACAA
* * *
9858559 AATACGCTACAAAGGC-GATAACTA
1 AATACGCCACAAAGGCACAT-ACAA
* * *** * * **
9858583 GATTCTGCCATGTAGGTA-ATCCCG
1 AATAC-GCCACAAAGGCACATACAA
9858607 AATACGCCACAAAGGCACATACAA
1 AATACGCCACAAAGGCACATACAA
*
9858631 AATACGCTACAAAGGC
1 AATACGCCACAAAGGC
9858647 GTTATAAGTA
Statistics
Matches: 61, Mismatches: 23, Indels: 8
0.66 0.25 0.09
Matches are distributed among these distances:
23 10 0.16
24 43 0.70
25 8 0.13
ACGTcount: A:0.42, C:0.26, G:0.17, T:0.15
Consensus pattern (24 bp):
AATACGCCACAAAGGCACATACAA
Found at i:9858621 original size:72 final size:72
Alignment explanation
Indices: 9858504--9858647 Score: 288
Period size: 72 Copynumber: 2.0 Consensus size: 72
9858494 ACCACATGAA
9858504 ATAACTAGATTCTGCCATGTAGGTAATCCCGAATACGCCACAAAGGCACATACAAAATACGCTAC
1 ATAACTAGATTCTGCCATGTAGGTAATCCCGAATACGCCACAAAGGCACATACAAAATACGCTAC
9858569 AAAGGCG
66 AAAGGCG
9858576 ATAACTAGATTCTGCCATGTAGGTAATCCCGAATACGCCACAAAGGCACATACAAAATACGCTAC
1 ATAACTAGATTCTGCCATGTAGGTAATCCCGAATACGCCACAAAGGCACATACAAAATACGCTAC
9858641 AAAGGCG
66 AAAGGCG
9858648 TTATAAGTAA
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 72 1.00
ACGTcount: A:0.39, C:0.25, G:0.18, T:0.18
Consensus pattern (72 bp):
ATAACTAGATTCTGCCATGTAGGTAATCCCGAATACGCCACAAAGGCACATACAAAATACGCTAC
AAAGGCG
Found at i:9868744 original size:20 final size:20
Alignment explanation
Indices: 9868719--9868785 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
9868709 GGCTTATGCC
*
9868719 AAGTAAGTGGAATGGAAAGT
1 AAGTAAATGGAATGGAAAGT
* *
9868739 AAGTAAATGAAATGAAAAGT
1 AAGTAAATGGAATGGAAAGT
*
9868759 AAGAAAATGGAAT-GATAAGT
1 AAGTAAATGGAATGGA-AAGT
9868779 AAG-AAAT
1 AAGTAAAT
9868786 AGAGTAGTTC
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
19 5 0.12
20 35 0.88
ACGTcount: A:0.55, C:0.00, G:0.25, T:0.19
Consensus pattern (20 bp):
AAGTAAATGGAATGGAAAGT
Found at i:9871751 original size:11 final size:11
Alignment explanation
Indices: 9871735--9871764 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
9871725 TTTTAATTTT
9871735 TAATTTTAAAA
1 TAATTTTAAAA
9871746 TAATTTTAAAA
1 TAATTTTAAAA
*
9871757 TACTTTTA
1 TAATTTTA
9871765 TTTTTATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (11 bp):
TAATTTTAAAA
Found at i:9873006 original size:7 final size:7
Alignment explanation
Indices: 9872994--9873053 Score: 111
Period size: 7 Copynumber: 8.6 Consensus size: 7
9872984 AACATGTAAG
*
9872994 AAAATAA
1 AAAATAT
9873001 AAAATAT
1 AAAATAT
9873008 AAAATAT
1 AAAATAT
9873015 AAAATAT
1 AAAATAT
9873022 AAAATAT
1 AAAATAT
9873029 AAAATAT
1 AAAATAT
9873036 AAAATAT
1 AAAATAT
9873043 AAAATAT
1 AAAATAT
9873050 AAAA
1 AAAA
9873054 NNNNNNNNNN
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
7 52 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (7 bp):
AAAATAT
Found at i:9873007 original size:109 final size:109
Alignment explanation
Indices: 9872812--9873019 Score: 407
Period size: 109 Copynumber: 1.9 Consensus size: 109
9872802 CACCACCCGT
9872812 TTCTAAATTTAATTTTTCGTTTACTCGATTCTCTTGAACGTAAGAAGAGAGTTGAAATCTATTAA
1 TTCTAAATTTAATTTTTCGTTTACTCGATTCTCTTGAACGTAAGAAGAGAGTTGAAATCTATTAA
*
9872877 CATGTAAGAAAATAAAGAATATAAAATATAAAATTTCCCCACCC
66 CATGTAAGAAAATAAAAAATATAAAATATAAAATTTCCCCACCC
9872921 TTCTAAATTTAATTTTTCGTTTACTCGATTCTCTTGAACGTAAGAAGAGAGTTGAAATCTATTAA
1 TTCTAAATTTAATTTTTCGTTTACTCGATTCTCTTGAACGTAAGAAGAGAGTTGAAATCTATTAA
9872986 CATGTAAGAAAATAAAAAATATAAAATATAAAAT
66 CATGTAAGAAAATAAAAAATATAAAATATAAAAT
9873020 ATAAAATATA
Statistics
Matches: 98, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
109 98 1.00
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.35
Consensus pattern (109 bp):
TTCTAAATTTAATTTTTCGTTTACTCGATTCTCTTGAACGTAAGAAGAGAGTTGAAATCTATTAA
CATGTAAGAAAATAAAAAATATAAAATATAAAATTTCCCCACCC
Found at i:9877006 original size:11 final size:11
Alignment explanation
Indices: 9876990--9877019 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
9876980 TTTTAATTTT
9876990 TAATTTTAAAA
1 TAATTTTAAAA
9877001 TAATTTTAAAA
1 TAATTTTAAAA
*
9877012 TACTTTTA
1 TAATTTTA
9877020 TTTTTATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (11 bp):
TAATTTTAAAA
Found at i:9878159 original size:7 final size:7
Alignment explanation
Indices: 9878140--9878232 Score: 124
Period size: 7 Copynumber: 13.7 Consensus size: 7
9878130 AACATGTAAG
9878140 AAAATA-
1 AAAATAT
9878146 AAGAATAT
1 AA-AATAT
9878154 AAAATAT
1 AAAATAT
9878161 AAAATAT
1 AAAATAT
9878168 AAAATAT
1 AAAATAT
9878175 AAAATAT
1 AAAATAT
9878182 AAAATAT
1 AAAATAT
9878189 AAAATAT
1 AAAATAT
*
9878196 AAAAAAAT
1 -AAAATAT
9878204 AAAA-AT
1 AAAATAT
9878210 AAAA-AT
1 AAAATAT
9878216 AAAA-AT
1 AAAATAT
9878222 AAAA-AT
1 AAAATAT
9878228 AAAAT
1 AAAAT
9878233 TGGGTTGCCT
Statistics
Matches: 82, Mismatches: 1, Indels: 7
0.91 0.01 0.08
Matches are distributed among these distances:
6 26 0.32
7 48 0.59
8 8 0.10
ACGTcount: A:0.76, C:0.00, G:0.01, T:0.23
Consensus pattern (7 bp):
AAAATAT
Found at i:9879626 original size:21 final size:21
Alignment explanation
Indices: 9879602--9879644 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
9879592 TTTATAGATG
*
9879602 CCTCTGTTTTCTATTGAAAAT
1 CCTCTATTTTCTATTGAAAAT
*
9879623 CCTCTATTTTCTTTTGAAAAT
1 CCTCTATTTTCTATTGAAAAT
9879644 C
1 C
9879645 AATAGTTTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.23, C:0.21, G:0.07, T:0.49
Consensus pattern (21 bp):
CCTCTATTTTCTATTGAAAAT
Found at i:9885056 original size:21 final size:21
Alignment explanation
Indices: 9885026--9885114 Score: 90
Period size: 21 Copynumber: 4.1 Consensus size: 21
9885016 CTCACAAAGA
* *
9885026 AAAAAG-GAAGTGAGTTAGAC
1 AAAAAGAGAAGTAACTTAGAC
* *
9885046 AAAAAGAGAAGCAACTTGGAC
1 AAAAAGAGAAGTAACTTAGAC
*
9885067 AAAAAGAGAAGTAACTTGGAC
1 AAAAAGAGAAGTAACTTAGAC
*
9885088 AAAAAGAAACGAAGTGACTTAGAC
1 AAAAAG--A-GAAGTAACTTAGAC
9885112 AAA
1 AAA
9885115 TCTTTTTTAT
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
20 6 0.10
21 36 0.62
23 1 0.02
24 15 0.26
ACGTcount: A:0.54, C:0.10, G:0.24, T:0.12
Consensus pattern (21 bp):
AAAAAGAGAAGTAACTTAGAC
Found at i:9885107 original size:24 final size:21
Alignment explanation
Indices: 9885026--9885094 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
9885016 CTCACAAAGA
* * *
9885026 AAAAAG-GAAGTGAGTTAGAC
1 AAAAAGAGAAGTAACTTGGAC
*
9885046 AAAAAGAGAAGCAACTTGGAC
1 AAAAAGAGAAGTAACTTGGAC
9885067 AAAAAGAGAAGTAACTTGGAC
1 AAAAAGAGAAGTAACTTGGAC
9885088 AAAAAGA
1 AAAAAGA
9885095 AACGAAGTGA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 6 0.14
21 37 0.86
ACGTcount: A:0.55, C:0.09, G:0.25, T:0.12
Consensus pattern (21 bp):
AAAAAGAGAAGTAACTTGGAC
Found at i:9894730 original size:100 final size:100
Alignment explanation
Indices: 9894546--9895126 Score: 778
Period size: 100 Copynumber: 5.8 Consensus size: 100
9894536 TGCAATGTCG
* * * ** * *
9894546 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATC-TATTAACCGCAATGTCAGGGAAGCGAGATTCG
1 GGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCG
*
9894610 CCGTTGTAGCTTTAATCTATTCCACTGCACCG-CT
66 CCGTTGTAGCTTCAATCTATTCCACTGCACCGCCT
* * * *
9894644 GGGGAAATAAGATTCACCGTTGTGGCATCAATCTTTTTGATTGCAATGTCGGGGAAAG-AAGATT
1 -GGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGG-AAGCAAGATT
* * * * * *
9894708 CGTCGTTCTAGCTTTAACCTATTCTAC-GACACCTCCT
64 CGCCGTTGTAGCTTCAATCTATTCCACTG-CACCGCCT
* * *
9894745 GGGAAGTAAGATTAGCCGTTGTGGCTTCGATCTTTTAAATTGCAATGTCGGGGAGAG-AAGATTC
1 GGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGA-AGCAAGATTC
*
9894809 GCCGTTGTAGCTTCATTCTATTCCACTGCACCGCCT
65 GCCGTTGTAGCTTCAATCTATTCCACTGCACCGCCT
* * *
9894845 -GGAAGTAAGATTTGTCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAGGATTCG
1 GGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCG
9894909 CCGTTGTAGCTTCAATCTATTCCACTGCACCGCCT
66 CCGTTGTAGCTTCAATCTATTCCACTGCACCGCCT
** * *
9894944 AAGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCATGATTCA
1 GGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCG
* * * *
9895009 CCGTTGTAGCTTCAATTTGTTCCACTGTACTGCCT
66 CCGTTGTAGCTTCAATCTATTCCACTGCACCGCCT
*
9895044 GGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAGGATTCG
1 GGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCG
9895109 CCGTTGTAGCTTCAATCT
66 CCGTTGTAGCTTCAATCT
9895127 TTTTAAAAAT
Statistics
Matches: 424, Mismatches: 50, Indels: 15
0.87 0.10 0.03
Matches are distributed among these distances:
98 2 0.00
99 119 0.28
100 297 0.70
101 6 0.01
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (100 bp):
GGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCG
CCGTTGTAGCTTCAATCTATTCCACTGCACCGCCT
Found at i:9895127 original size:50 final size:50
Alignment explanation
Indices: 9894533--9895132 Score: 453
Period size: 50 Copynumber: 12.0 Consensus size: 50
9894523 CATCCTGTTC
* *
9894533 AACTGCAATGTCGGGGAAGTAAGATTCGCTGTTGTAGCTTCAATC-TATT
1 AACTGCAATGTCGGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTT
* * ** * * *
9894582 AACCGCAATGTCAGGGAAGCGAGATTCGCCGTTGTAGCTTTAATCTATTC
1 AACTGCAATGTCGGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTT
* ** * * * *
9894632 CACTGCACCG-CTGGGGAAATAAGATTCACCGTTGTGGCATCAATCTTTTT
1 AACTGCAATGTC-GGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTT
* * * * * * *
9894682 GATTGCAATGTCGGGGAAAG-AAGATTCGTCGTTCTAGCTTTAACCTATTCT
1 AACTGCAATGTCGGGG-AAGTAAGATTCGCCGTTGTAGCTTCAATCT-TTTT
* * * * * * *
9894733 -AC-GACACCT-CCTGGGAAGTAAGATTAGCCGTTGTGGCTTCGATCTTTTA
1 AACTG-CA-ATGTCGGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTT
* * * *
9894782 AATTGCAATGTCGGGGAGAG-AAGATTCGCCGTTGTAGCTTCATTCTATTC
1 AACTGCAATGTCGGGGA-AGTAAGATTCGCCGTTGTAGCTTCAATCTTTTT
* ** ** * * *
9894832 CACTGCACCG-CCTGGAAGTAAGATTTGTCGTTGTGGCTTCAATCTTTTT
1 AACTGCAATGTCGGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTT
* * * * *
9894881 AATTGCAATGTCGGGGAAGCAGGATTCGCCGTTGTAGCTTCAATCTATTC
1 AACTGCAATGTCGGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTT
* ** * *** *
9894931 CACTGCACCGCCTAAGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTT
1 AACTGCAATGTCGGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTT
* * * * *
9894981 AATTGCAATGTCGGGGAAGCATGATTCACCGTTGTAGCTTCAAT-TTGTTC
1 AACTGCAATGTCGGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTT-TTT
* * * * * *
9895031 CACTGTACTGCCTGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTT
1 AACTGCAATGTCGGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTT
* * *
9895081 AATTGCAATGTCGGGGAAGCAGGATTCGCCGTTGTAGCTTCAATCTTTTT
1 AACTGCAATGTCGGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTT
9895131 AA
1 AA
9895133 AAATTCATTA
Statistics
Matches: 405, Mismatches: 130, Indels: 31
0.72 0.23 0.05
Matches are distributed among these distances:
48 2 0.00
49 83 0.20
50 308 0.76
51 12 0.03
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.32
Consensus pattern (50 bp):
AACTGCAATGTCGGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTT
Found at i:9903513 original size:125 final size:125
Alignment explanation
Indices: 9903291--9903540 Score: 500
Period size: 125 Copynumber: 2.0 Consensus size: 125
9903281 GTTTCGACAA
9903291 CTTGGTGACTCCATTGGGGACTGTTGACACCAATTTTTTGGATGAAAACGGGGTCGACTCGGGTT
1 CTTGGTGACTCCATTGGGGACTGTTGACACCAATTTTTTGGATGAAAACGGGGTCGACTCGGGTT
9903356 TTGAAAAATAAAATCGATTGTGGGAGTCGCCACCAATCCTTTTTGATAAGGTGTGATCGG
66 TTGAAAAATAAAATCGATTGTGGGAGTCGCCACCAATCCTTTTTGATAAGGTGTGATCGG
9903416 CTTGGTGACTCCATTGGGGACTGTTGACACCAATTTTTTGGATGAAAACGGGGTCGACTCGGGTT
1 CTTGGTGACTCCATTGGGGACTGTTGACACCAATTTTTTGGATGAAAACGGGGTCGACTCGGGTT
9903481 TTGAAAAATAAAATCGATTGTGGGAGTCGCCACCAATCCTTTTTGATAAGGTGTGATCGG
66 TTGAAAAATAAAATCGATTGTGGGAGTCGCCACCAATCCTTTTTGATAAGGTGTGATCGG
9903541 GTCACCTTGA
Statistics
Matches: 125, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
125 125 1.00
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (125 bp):
CTTGGTGACTCCATTGGGGACTGTTGACACCAATTTTTTGGATGAAAACGGGGTCGACTCGGGTT
TTGAAAAATAAAATCGATTGTGGGAGTCGCCACCAATCCTTTTTGATAAGGTGTGATCGG
Found at i:9904698 original size:2 final size:2
Alignment explanation
Indices: 9904691--9904724 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
9904681 AAAGTGTAGA
9904691 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9904725 GGACAAGCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9905970 original size:50 final size:50
Alignment explanation
Indices: 9905792--9906288 Score: 370
Period size: 50 Copynumber: 10.0 Consensus size: 50
9905782 TCTGTTCAAC
* * ** * *
9905792 TGCAATGTCGGGGAAGTAAGATTTGTTGTTGTAGCTTCAATC-TATTAAC
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTTTTTAAT
* * * * ** *
9905841 TGCAATGTCAGGGAAGCGAGATTCACCGTTGTAGCTTCAATCTGTTCCAC
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTTTTTAAT
** * ** * * * *
9905891 TGCACCG-CTGGGAAATAAGATTCACCGTTGTGGCCTCAATCTTTTTGAT
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTTTTTAAT
* * * ** *
9905940 TGCAATGTCGGGGAGAG-AAGATCCGCCGTTGTAGCTTCATTCTATTCCAC
1 TGCAATGTCGGGGA-AGCAAGATTCGCCGTTGTAGCTTCAATCTTTTTAAT
**** * * * * *
9905990 TGCACCACCTGGGAAGTAAGATTCGCCGTTGTGGCTTCCATATTTTTAAT
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTTTTTAAT
* * * * ** *
9906040 TGCAATGTCGGGGAAGCAGGATTCACCGTTGTAGCTACAATCTGTTCCAC
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTTTTTAAT
** * * * *
9906090 TGCACCGCCTGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAAT
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTTTTTAAT
* * * * ** *
9906140 TGCAATGTCGGGGAAGCAGGATTCACCATTGTAGCTTCAATCTGTTCCAC
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTTTTTAAT
** * * * * *
9906190 TGCACCGCCTGGGAAGTAAGATTCGCCGTTGTGGCTTCAATATTTTTAAT
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTTTTTAAT
* *
9906240 TGCAATGTCGGGGAAGCAGGATTCGCCGTTGTAGCTTCAATATTTTTAA
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTTTTTAA
9906289 AAATTCATTA
Statistics
Matches: 331, Mismatches: 113, Indels: 7
0.73 0.25 0.02
Matches are distributed among these distances:
49 74 0.22
50 256 0.77
51 1 0.00
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.31
Consensus pattern (50 bp):
TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTTTTTAAT
Found at i:9906042 original size:100 final size:100
Alignment explanation
Indices: 9905779--9906280 Score: 697
Period size: 100 Copynumber: 5.0 Consensus size: 100
9905769 CTGCCACCTC
* ** * * * ** * * * *
9905779 CAATCTGTTCAACTGCAATGTCGGGGAAGTAAGATTTGTTGTTGTAGCTTCAAT-CTATTAACTG
1 CAATCTGTTCCACTGCACCGCCTGGGAAGTAAGATTCGCCGTTGTGGCTTCAATATTTTTAATTG
*
9905843 CAATGTCAGGGAAGC-GAGATTCACCGTTGTAGCTT
66 CAATGTCGGGGAAGCAG-GATTCACCGTTGTAGCTT
* * * * *
9905878 CAATCTGTTCCACTGCACCG-CTGGGAAATAAGATTCACCGTTGTGGCCTCAATCTTTTTGATTG
1 CAATCTGTTCCACTGCACCGCCTGGGAAGTAAGATTCGCCGTTGTGGCTTCAATATTTTTAATTG
* * *
9905942 CAATGTCGGGGAGAG-AAGATCCGCCGTTGTAGCTT
66 CAATGTCGGGGA-AGCAGGATTCACCGTTGTAGCTT
* * * *
9905977 CATTCTATTCCACTGCACCACCTGGGAAGTAAGATTCGCCGTTGTGGCTTCCATATTTTTAATTG
1 CAATCTGTTCCACTGCACCGCCTGGGAAGTAAGATTCGCCGTTGTGGCTTCAATATTTTTAATTG
*
9906042 CAATGTCGGGGAAGCAGGATTCACCGTTGTAGCTA
66 CAATGTCGGGGAAGCAGGATTCACCGTTGTAGCTT
*
9906077 CAATCTGTTCCACTGCACCGCCTGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTG
1 CAATCTGTTCCACTGCACCGCCTGGGAAGTAAGATTCGCCGTTGTGGCTTCAATATTTTTAATTG
*
9906142 CAATGTCGGGGAAGCAGGATTCACCATTGTAGCTT
66 CAATGTCGGGGAAGCAGGATTCACCGTTGTAGCTT
9906177 CAATCTGTTCCACTGCACCGCCTGGGAAGTAAGATTCGCCGTTGTGGCTTCAATATTTTTAATTG
1 CAATCTGTTCCACTGCACCGCCTGGGAAGTAAGATTCGCCGTTGTGGCTTCAATATTTTTAATTG
*
9906242 CAATGTCGGGGAAGCAGGATTCGCCGTTGTAGCTT
66 CAATGTCGGGGAAGCAGGATTCACCGTTGTAGCTT
9906277 CAAT
1 CAAT
9906281 ATTTTTAAAA
Statistics
Matches: 356, Mismatches: 42, Indels: 9
0.87 0.10 0.02
Matches are distributed among these distances:
98 25 0.07
99 69 0.19
100 262 0.74
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.31
Consensus pattern (100 bp):
CAATCTGTTCCACTGCACCGCCTGGGAAGTAAGATTCGCCGTTGTGGCTTCAATATTTTTAATTG
CAATGTCGGGGAAGCAGGATTCACCGTTGTAGCTT
Found at i:9908022 original size:159 final size:159
Alignment explanation
Indices: 9907733--9908053 Score: 642
Period size: 159 Copynumber: 2.0 Consensus size: 159
9907723 TGGTCTGATT
9907733 AAACACAATGAGAGAAGGCTGGAAGTTCGTGGAGGAATATACGAATATGCTTCGCTGCTTGAGGA
1 AAACACAATGAGAGAAGGCTGGAAGTTCGTGGAGGAATATACGAATATGCTTCGCTGCTTGAGGA
9907798 TTCAAACTGACAAAGATTATTCGAGAGTTGTCACGTCTCAAAGAAACTAAAGAGCATCGCGGGGT
66 TTCAAACTGACAAAGATTATTCGAGAGTTGTCACGTCTCAAAGAAACTAAAGAGCATCGCGGGGT
9907863 GAGCAATGGGTCATGGCTCGGATCAAACA
131 GAGCAATGGGTCATGGCTCGGATCAAACA
9907892 AAACACAATGAGAGAAGGCTGGAAGTTCGTGGAGGAATATACGAATATGCTTCGCTGCTTGAGGA
1 AAACACAATGAGAGAAGGCTGGAAGTTCGTGGAGGAATATACGAATATGCTTCGCTGCTTGAGGA
9907957 TTCAAACTGACAAAGATTATTCGAGAGTTGTCACGTCTCAAAGAAACTAAAGAGCATCGCGGGGT
66 TTCAAACTGACAAAGATTATTCGAGAGTTGTCACGTCTCAAAGAAACTAAAGAGCATCGCGGGGT
9908022 GAGCAATGGGTCATGGCTCGGATCAAACA
131 GAGCAATGGGTCATGGCTCGGATCAAACA
9908051 AAA
1 AAA
9908054 AGGAGATAGT
Statistics
Matches: 162, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
159 162 1.00
ACGTcount: A:0.35, C:0.17, G:0.27, T:0.21
Consensus pattern (159 bp):
AAACACAATGAGAGAAGGCTGGAAGTTCGTGGAGGAATATACGAATATGCTTCGCTGCTTGAGGA
TTCAAACTGACAAAGATTATTCGAGAGTTGTCACGTCTCAAAGAAACTAAAGAGCATCGCGGGGT
GAGCAATGGGTCATGGCTCGGATCAAACA
Found at i:9917547 original size:180 final size:181
Alignment explanation
Indices: 9917205--9917565 Score: 652
Period size: 180 Copynumber: 2.0 Consensus size: 181
9917195 ACCCAATCGA
* *
9917205 GCTTCCGATAATCTGAAAAGTAGAAGAAAACAAATACATAAGCAATGAATGCTTAGTAAGCTCAT
1 GCTTCCAATAATCTAAAAAGTAGAAGAAAACAAATACATAAGCAATGAATGCTTAGTAAGCTCAT
* *
9917270 ATAAACTTTAATCATAATACTTCCTTTTCAAATATGAAATTTATACTTATCAAGAATAATCTAAT
66 ATAAAATTTAATCATAATACTTCCTATTCAAATATGAAATTTATACTTATCAAGAATAATCTAAT
9917335 GTTGCTGCCACAATATTCATGAAGTTATATTTAACAACTCACTAAGTGAAT
131 GTTGCTGCCACAATATTCATGAAGTTATATTTAACAACTCACTAAGTGAAT
* *
9917386 GCTTCCAATAATCTAAAAAGTAGAAGAAAACAAATACATAAGTAATGAATGCTTAGTAAGCTCGT
1 GCTTCCAATAATCTAAAAAGTAGAAGAAAACAAATACATAAGCAATGAATGCTTAGTAAGCTCAT
9917451 ATAAAATTTAATCATAATACTTCC-ATTCAAATATGAAATTTATACTTATCAAGAATAATCTAAT
66 ATAAAATTTAATCATAATACTTCCTATTCAAATATGAAATTTATACTTATCAAGAATAATCTAAT
*
9917515 GTTGCTGCCACAATATTCATGAAGTTATATTTAGCAACTCACTAAGTGAAT
131 GTTGCTGCCACAATATTCATGAAGTTATATTTAACAACTCACTAAGTGAAT
9917566 AAATCTACAG
Statistics
Matches: 173, Mismatches: 7, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
180 89 0.51
181 84 0.49
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.32
Consensus pattern (181 bp):
GCTTCCAATAATCTAAAAAGTAGAAGAAAACAAATACATAAGCAATGAATGCTTAGTAAGCTCAT
ATAAAATTTAATCATAATACTTCCTATTCAAATATGAAATTTATACTTATCAAGAATAATCTAAT
GTTGCTGCCACAATATTCATGAAGTTATATTTAACAACTCACTAAGTGAAT
Found at i:9918313 original size:24 final size:24
Alignment explanation
Indices: 9918286--9918336 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
9918276 TACTTGGGTA
*
9918286 ATTTGCCGTCAATTCATCCTTTAC
1 ATTTGCCGTCAATTCATCATTTAC
*
9918310 ATTTTCCGTCAATTCATCATTTAC
1 ATTTGCCGTCAATTCATCATTTAC
9918334 ATT
1 ATT
9918337 CGTAGTGCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.25, G:0.06, T:0.45
Consensus pattern (24 bp):
ATTTGCCGTCAATTCATCATTTAC
Found at i:9919368 original size:5 final size:5
Alignment explanation
Indices: 9919330--9919354 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
9919320 CTAATTTCAC
9919330 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
9919355 ATTTCAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:9919537 original size:17 final size:17
Alignment explanation
Indices: 9919505--9919536 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
9919495 ATAATTAGCA
9919505 AGTTTTGTACCTTTTTC
1 AGTTTTGTACCTTTTTC
9919522 AGTTTTGT-CCTTTTT
1 AGTTTTGTACCTTTTT
9919537 TATTAATTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.09, C:0.16, G:0.12, T:0.62
Consensus pattern (17 bp):
AGTTTTGTACCTTTTTC
Found at i:9924526 original size:19 final size:19
Alignment explanation
Indices: 9924484--9924526 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
9924474 TATGAATATC
*
9924484 TAATGCATATGATGCAATG
1 TAATGCAGATGATGCAATG
*
9924503 TAATGCAGATGCATGGAATG
1 TAATGCAGATG-ATGCAATG
9924523 -AATG
1 TAATG
9924527 TAAAAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.37, C:0.09, G:0.26, T:0.28
Consensus pattern (19 bp):
TAATGCAGATGATGCAATG
Found at i:9941823 original size:13 final size:13
Alignment explanation
Indices: 9941801--9941834 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
9941791 GCGTTTGGAC
*
9941801 AAAAAACGCCGCT
1 AAAAATCGCCGCT
9941814 AAAAATCGCCGCT
1 AAAAATCGCCGCT
9941827 AAAAATCG
1 AAAAATCG
9941835 AGTATTAGCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.47, C:0.26, G:0.15, T:0.12
Consensus pattern (13 bp):
AAAAATCGCCGCT
Found at i:9942037 original size:41 final size:40
Alignment explanation
Indices: 9941947--9942037 Score: 94
Period size: 41 Copynumber: 2.2 Consensus size: 40
9941937 TAAACTTTCG
* * * *
9941947 GGGCTTTAGCGGCGTTTTTGAAAAAGTGCCACTAATGATC
1 GGGCTTTAGCAGCGTTTTTAAAAAAGCGCCACTAATGACC
* *
9941987 GGGCTTTTAGCAGCGTTTTTAAAAAAGCG-TAGCTAATGCCC
1 GGGC-TTTAGCAGCGTTTTTAAAAAAGCGCCA-CTAATGACC
9942028 TGGGCTTTAG
1 -GGGCTTTAG
9942038 TGGTGTTTTC
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
40 5 0.12
41 33 0.79
42 4 0.10
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (40 bp):
GGGCTTTAGCAGCGTTTTTAAAAAAGCGCCACTAATGACC
Found at i:9942166 original size:40 final size:40
Alignment explanation
Indices: 9942051--9942176 Score: 130
Period size: 40 Copynumber: 3.1 Consensus size: 40
9942041 TGTTTTCGCT
* * * *
9942051 GCTAATGCTCAGAGC-TTTAGCGGCGCTTTTGGAAGAGCGTC
1 GCTAATGCTC-G-GCTTTTAGCGGCGTTTTTGAAAAAGCGCC
* * * *
9942092 GCTAATGCTCAGATCTTTAGCGGCATTTTT-AAAAATCGCC
1 GCTAATGCTCGGCT-TTTAGCGGCGTTTTTGAAAAAGCGCC
*
9942132 GCTAATGCTCGGCTTTTAGCGGCGTTTTTGAAAAAGCACC
1 GCTAATGCTCGGCTTTTAGCGGCGTTTTTGAAAAAGCGCC
9942172 GCTAA
1 GCTAA
9942177 AACATTTTAT
Statistics
Matches: 69, Mismatches: 13, Indels: 7
0.78 0.15 0.08
Matches are distributed among these distances:
39 15 0.22
40 31 0.45
41 23 0.33
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.29
Consensus pattern (40 bp):
GCTAATGCTCGGCTTTTAGCGGCGTTTTTGAAAAAGCGCC
Found at i:9942730 original size:67 final size:70
Alignment explanation
Indices: 9942657--9942815 Score: 218
Period size: 67 Copynumber: 2.3 Consensus size: 70
9942647 TTCAGTGTCA
*
9942657 AGTTAGGCTTTAGGGTTTAGATTAATTAGTGTGTTTT-AA-TT-TATATCAAATAAGATTTAGGG
1 AGTTAGGGTTTAGGGTTTAGATTAATTAGTGT-TTTTAAATTTATATATCAAATAAGATTTAGGG
*
9942719 ATTTG-
65 ATTAGT
* * * *
9942724 GGTTAGGGTTTAGGGTTTAGATTAATTAGTGTTTTTAAATTTATATATTAAATAAGGTTTAGGGG
1 AGTTAGGGTTTAGGGTTTAGATTAATTAGTGTTTTTAAATTTATATATCAAATAAGATTTAGGGA
9942789 TTAGT
66 TTAGT
9942794 AGTTAGTGGTTTAGGGTTTAGA
1 AGTTAG-GGTTTAGGGTTTAGA
9942816 GACTCGGGCA
Statistics
Matches: 80, Mismatches: 7, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
66 4 0.05
67 32 0.40
68 2 0.03
69 22 0.28
70 5 0.06
71 15 0.19
ACGTcount: A:0.28, C:0.01, G:0.26, T:0.45
Consensus pattern (70 bp):
AGTTAGGGTTTAGGGTTTAGATTAATTAGTGTTTTTAAATTTATATATCAAATAAGATTTAGGGA
TTAGT
Found at i:9942935 original size:21 final size:21
Alignment explanation
Indices: 9942902--9942949 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
9942892 ATTATAAAAG
* *
9942902 AAGGGTTAGGGGTTAGAGGTT
1 AAGGATTAAGGGTTAGAGGTT
*
9942923 AAGGATTAAGGGTTAGGGGTT
1 AAGGATTAAGGGTTAGAGGTT
*
9942944 ATGGAT
1 AAGGAT
9942950 AGGTAACTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.27, C:0.00, G:0.44, T:0.29
Consensus pattern (21 bp):
AAGGATTAAGGGTTAGAGGTT
Found at i:9943980 original size:17 final size:17
Alignment explanation
Indices: 9943926--9944006 Score: 69
Period size: 17 Copynumber: 4.6 Consensus size: 17
9943916 NNNNNTCTAC
9943926 TATTTATATTATTAAAT
1 TATTTATATTATTAAAT
* *
9943943 TAAATTTCACATT-TTATAT
1 T--ATTT-ATATTATTAAAT
9943962 TATTTATATTATTAAAT
1 TATTTATATTATTAAAT
*
9943979 TATTTAGTCA-TATTGAA-
1 TATTTA-T-ATTATTAAAT
9943996 TATTTATATTA
1 TATTTATATTA
9944007 AAATTGAATT
Statistics
Matches: 52, Mismatches: 5, Indels: 15
0.72 0.07 0.21
Matches are distributed among these distances:
15 1 0.02
16 7 0.13
17 22 0.42
18 7 0.13
19 11 0.21
20 4 0.08
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (17 bp):
TATTTATATTATTAAAT
Found at i:9945052 original size:42 final size:42
Alignment explanation
Indices: 9944993--9945074 Score: 164
Period size: 42 Copynumber: 2.0 Consensus size: 42
9944983 ACTAATCATG
9944993 TAAAAATGTTTTGCTAGAAAATCATCTGCGGATTTTTTTTAT
1 TAAAAATGTTTTGCTAGAAAATCATCTGCGGATTTTTTTTAT
9945035 TAAAAATGTTTTGCTAGAAAATCATCTGCGGATTTTTTTT
1 TAAAAATGTTTTGCTAGAAAATCATCTGCGGATTTTTTTT
9945075 TATGATATCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.45
Consensus pattern (42 bp):
TAAAAATGTTTTGCTAGAAAATCATCTGCGGATTTTTTTTAT
Found at i:9945508 original size:43 final size:43
Alignment explanation
Indices: 9945394--9945543 Score: 146
Period size: 43 Copynumber: 3.5 Consensus size: 43
9945384 TATATATTTT
* * * *
9945394 TAAAGGTTATG-TTTTTAGCGGCGTTTTTG-CGAGAAGCGCCGC
1 TAAAGGTCATGATCTTTAGCGGCGTTTGTGACTA-AAGCGCCGC
* * * **
9945436 TAAAGGT-TTGTTCTTTCGTAGCGTTTGTGACTAAAGCGCCGC
1 TAAAGGTCATGATCTTTAGCGGCGTTTGTGACTAAAGCGCCGC
*
9945478 TAAAGGTCATGATCTTTAGCGGCGTTTGTGA-TAAAAGGGCCGC
1 TAAAGGTCATGATCTTTAGCGGCGTTTGTGACT-AAAGCGCCGC
* *
9945521 TAAAGGTCAAGATATTTAGCGGC
1 TAAAGGTCATGATCTTTAGCGGC
9945544 ATTTTTTCAC
Statistics
Matches: 89, Mismatches: 15, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
41 2 0.02
42 37 0.42
43 50 0.56
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (43 bp):
TAAAGGTCATGATCTTTAGCGGCGTTTGTGACTAAAGCGCCGC
Found at i:9952692 original size:46 final size:45
Alignment explanation
Indices: 9952579--9952741 Score: 168
Period size: 45 Copynumber: 3.6 Consensus size: 45
9952569 TCAGAGTGTA
* * *
9952579 CCATGGTGTCTTTCAACCATGGTCTTATTTATTCTTGTCTTGATG
1 CCATAGTGTCTTTCAACCATGGTCTTATTCATTCTTGTCGTGATG
* * *
9952624 CCATAGTGTCTTTAAACCATGGTCTTATTCATTTTTCGTCGTGTTG
1 CCATAGTGTCTTTCAACCATGGTCTTATTCATTCTT-GTCGTGATG
* * * *
9952670 TCATAGTGTCTTTCAACTATGGTCTTATTC-GT-TTGATTCGTGAAG
1 CCATAGTGTCTTTCAACCATGGTCTTATTCATTCTTG--TCGTGATG
* * *
9952715 CCATAGCGTCTTTCAGCTATGGTCTTA
1 CCATAGTGTCTTTCAACCATGGTCTTA
9952742 CTCAATAGAA
Statistics
Matches: 100, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
43 1 0.01
44 2 0.02
45 63 0.63
46 34 0.34
ACGTcount: A:0.18, C:0.20, G:0.18, T:0.44
Consensus pattern (45 bp):
CCATAGTGTCTTTCAACCATGGTCTTATTCATTCTTGTCGTGATG
Found at i:9952763 original size:45 final size:45
Alignment explanation
Indices: 9952709--9952880 Score: 240
Period size: 45 Copynumber: 3.8 Consensus size: 45
9952699 CGTTTGATTC
*
9952709 GTGAAGCCATAGCGTCTTTCAG-CTATGGTCTTACTCAATAGAATT
1 GTGAAGCCATAACGTCTTTCAGTC-ATGGTCTTACTCAATAGAATT
* **
9952754 GTGACGCCATAACGTCTTTCAGTCATGGTCTTACTTGATA-AATTT
1 GTGAAGCCATAACGTCTTTCAGTCATGGTCTTACTCAATAGAA-TT
* * *
9952799 GTGAAGCCATAACATCTTTCAGTCATGATCTTACTCAATAGAATC
1 GTGAAGCCATAACGTCTTTCAGTCATGGTCTTACTCAATAGAATT
*
9952844 GTGATGCCATAACGTCTTTCAGTCATGGTCTTACTCA
1 GTGAAGCCATAACGTCTTTCAGTCATGGTCTTACTCA
9952881 TTTCTAGTAT
Statistics
Matches: 111, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
44 2 0.02
45 106 0.95
46 3 0.03
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (45 bp):
GTGAAGCCATAACGTCTTTCAGTCATGGTCTTACTCAATAGAATT
Found at i:9952803 original size:90 final size:90
Alignment explanation
Indices: 9952709--9952878 Score: 279
Period size: 90 Copynumber: 1.9 Consensus size: 90
9952699 CGTTTGATTC
* * * *
9952709 GTGAAGCCATAGCGTCTTTCAG-CTATGGTCTTACTCAATAGAATTGTGACGCCATAACGTCTTT
1 GTGAAGCCATAACATCTTTCAGTC-ATGATCTTACTCAATAGAATCGTGACGCCATAACGTCTTT
9952773 CAGTCATGGTCTTACTTGATAAATTT
65 CAGTCATGGTCTTACTTGATAAATTT
*
9952799 GTGAAGCCATAACATCTTTCAGTCATGATCTTACTCAATAGAATCGTGATGCCATAACGTCTTTC
1 GTGAAGCCATAACATCTTTCAGTCATGATCTTACTCAATAGAATCGTGACGCCATAACGTCTTTC
9952864 AGTCATGGTCTTACT
66 AGTCATGGTCTTACT
9952879 CATTTCTAGT
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
90 73 0.99
91 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (90 bp):
GTGAAGCCATAACATCTTTCAGTCATGATCTTACTCAATAGAATCGTGACGCCATAACGTCTTTC
AGTCATGGTCTTACTTGATAAATTT
Found at i:9952921 original size:90 final size:90
Alignment explanation
Indices: 9952710--9952921 Score: 239
Period size: 90 Copynumber: 2.4 Consensus size: 90
9952700 GTTTGATTCG
* *
9952710 TGAAGCCATAGCGTCTTTCAGCTATGGTCTTACTCAATAGAATTGTGACGCCATAACGTCTTTCA
1 TGAAGCCATAGCGTCTTTCAACTATGGTCTTACTCAATAGAATCGTGACGCCATAACGTCTTTCA
* * *
9952775 GTCATGGTCTTACTTGATAAATTTG
66 GTCATGGTCTTACTTCATAAATGTA
* * * * *
9952800 TGAAGCCATAACATCTTTC-AGTCATGATCTTACTCAATAGAATCGTGATGCCATAACGTCTTTC
1 TGAAGCCATAGCGTCTTTCAACT-ATGGTCTTACTCAATAGAATCGTGACGCCATAACGTCTTTC
***
9952864 AGTCATGGTCTTAC-TCATTTCTAGTA
65 AGTCATGGTCTTACTTCATAAAT-GTA
** * *
9952890 TGGTGTCATAGTGTCTTTCAACTATGGTCTTA
1 TGAAGCCATAGCGTCTTTCAACTATGGTCTTA
9952922 TTTATTCTCT
Statistics
Matches: 98, Mismatches: 21, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
89 5 0.05
90 91 0.93
91 2 0.02
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.37
Consensus pattern (90 bp):
TGAAGCCATAGCGTCTTTCAACTATGGTCTTACTCAATAGAATCGTGACGCCATAACGTCTTTCA
GTCATGGTCTTACTTCATAAATGTA
Found at i:9952954 original size:46 final size:45
Alignment explanation
Indices: 9952868--9952974 Score: 133
Period size: 46 Copynumber: 2.4 Consensus size: 45
9952858 TCTTTCAGTC
* * * *
9952868 ATGGTCTTACTCATTTCTAGTATGGTGTCATAGTGTCTTTCAACT
1 ATGGTCTTACTCATTTCTAGTATAGTGCCATAGTGCCTTTCAACG
* * *
9952913 ATGGTCTTATTTATTCTCTGGTATAGTGCCATAGTGCCTTTCAACG
1 ATGGTCTTACTCATT-TCTAGTATAGTGCCATAGTGCCTTTCAACG
*
9952959 ATGGTCTTAATCATTT
1 ATGGTCTTACTCATTT
9952975 TCCTTCAAGA
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
45 14 0.27
46 38 0.73
ACGTcount: A:0.21, C:0.18, G:0.18, T:0.44
Consensus pattern (45 bp):
ATGGTCTTACTCATTTCTAGTATAGTGCCATAGTGCCTTTCAACG
Found at i:9958349 original size:10 final size:10
Alignment explanation
Indices: 9958334--9958391 Score: 55
Period size: 10 Copynumber: 5.4 Consensus size: 10
9958324 ACAAATAAAA
9958334 AAAAAGAAAG
1 AAAAAGAAAG
9958344 AAAAAGGAATAG
1 AAAAA-GAA-AG
9958356 AAAACCA-AAACG
1 AAAA--AGAAA-G
*
9958368 AAACAGAAAG
1 AAAAAGAAAG
9958378 AAAAAGAAAG
1 AAAAAGAAAG
9958388 AAAA
1 AAAA
9958392 GGGATAAAGA
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
10 20 0.50
11 7 0.17
12 12 0.30
14 1 0.03
ACGTcount: A:0.74, C:0.07, G:0.17, T:0.02
Consensus pattern (10 bp):
AAAAAGAAAG
Found at i:9958566 original size:10 final size:10
Alignment explanation
Indices: 9958520--9958572 Score: 54
Period size: 10 Copynumber: 5.0 Consensus size: 10
9958510 TACTCGACTC
9958520 AGAAAGAAAA
1 AGAAAGAAAA
9958530 AGAATAGAAAA
1 AGAA-AGAAAA
*
9958541 CCA-AAACGAAAC
1 --AGAAA-GAAAA
9958553 AGAAAGAAAA
1 AGAAAGAAAA
9958563 AGAAAGAAAA
1 AGAAAGAAAA
9958573 GGGATAAAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
10 19 0.53
11 10 0.28
12 6 0.17
13 1 0.03
ACGTcount: A:0.74, C:0.08, G:0.17, T:0.02
Consensus pattern (10 bp):
AGAAAGAAAA
Found at i:9958654 original size:181 final size:182
Alignment explanation
Indices: 9958338--9958701 Score: 721
Period size: 181 Copynumber: 2.0 Consensus size: 182
9958328 ATAAAAAAAA
9958338 AGAAAGAAAAAGGAATAGAAAACCAAAACGAAACAGAAAGAAAAAGAAAGAAAAGGGATAAAGAA
1 AGAAAGAAAAAGGAATAGAAAACCAAAACGAAACAGAAAGAAAAAGAAAGAAAAGGGATAAAGAA
9958403 GGAGACGAAGGGCTTTAAGGTTTTAAAATTTCCAAGTTCAATTGGTTAGTCAATTTAGTCTCTTT
66 GGAGACGAAGGGCTTTAAGGTTTTAAAATTTCCAAGTTCAATTGGTTAGTCAATTTAGTCTCTTT
9958468 TTCTTGTAATTTTTATGTTTTTGGAATCTCGGTATTAAATACTACTCGACTC
131 TTCTTGTAATTTTTATGTTTTTGGAATCTCGGTATTAAATACTACTCGACTC
9958520 AGAAAGAAAAA-GAATAGAAAACCAAAACGAAACAGAAAGAAAAAGAAAGAAAAGGGATAAAGAA
1 AGAAAGAAAAAGGAATAGAAAACCAAAACGAAACAGAAAGAAAAAGAAAGAAAAGGGATAAAGAA
9958584 GGAGACGAAGGGCTTTAAGGTTTTAAAATTTCCAAGTTCAATTGGTTAGTCAATTTAGTCTCTTT
66 GGAGACGAAGGGCTTTAAGGTTTTAAAATTTCCAAGTTCAATTGGTTAGTCAATTTAGTCTCTTT
9958649 TTCTTGTAATTTTTATGTTTTTGGAATCTCGGTATTAAATACTACTCGACTC
131 TTCTTGTAATTTTTATGTTTTTGGAATCTCGGTATTAAATACTACTCGACTC
9958701 A
1 A
9958702 TGTTGAAATT
Statistics
Matches: 182, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
181 171 0.94
182 11 0.06
ACGTcount: A:0.41, C:0.11, G:0.19, T:0.29
Consensus pattern (182 bp):
AGAAAGAAAAAGGAATAGAAAACCAAAACGAAACAGAAAGAAAAAGAAAGAAAAGGGATAAAGAA
GGAGACGAAGGGCTTTAAGGTTTTAAAATTTCCAAGTTCAATTGGTTAGTCAATTTAGTCTCTTT
TTCTTGTAATTTTTATGTTTTTGGAATCTCGGTATTAAATACTACTCGACTC
Found at i:9959162 original size:21 final size:20
Alignment explanation
Indices: 9959120--9959162 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
9959110 ACTTATAATG
* * *
9959120 ATGATTTGAATGATGTTTTA
1 ATGATATGAATGATGATATA
9959140 ATGATATGAAATGATGATATA
1 ATGATATG-AATGATGATATA
9959161 AT
1 AT
9959163 TGTGGTACCT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.40, C:0.00, G:0.19, T:0.42
Consensus pattern (20 bp):
ATGATATGAATGATGATATA
Found at i:9961918 original size:58 final size:58
Alignment explanation
Indices: 9961848--9961961 Score: 228
Period size: 58 Copynumber: 2.0 Consensus size: 58
9961838 TCTTCTGTAT
9961848 TGAGAATACGACATGTAAGCTGAACATTTGACAATAGTTCCCATTTCTTTCTTTTGGC
1 TGAGAATACGACATGTAAGCTGAACATTTGACAATAGTTCCCATTTCTTTCTTTTGGC
9961906 TGAGAATACGACATGTAAGCTGAACATTTGACAATAGTTCCCATTTCTTTCTTTTG
1 TGAGAATACGACATGTAAGCTGAACATTTGACAATAGTTCCCATTTCTTTCTTTTG
9961962 AGGGCCAGTA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (58 bp):
TGAGAATACGACATGTAAGCTGAACATTTGACAATAGTTCCCATTTCTTTCTTTTGGC
Found at i:9962822 original size:44 final size:46
Alignment explanation
Indices: 9962755--9962847 Score: 145
Period size: 44 Copynumber: 2.1 Consensus size: 46
9962745 TTACAACTCT
*
9962755 ATTCCATTCAACCAAACACAAGAA-TAC-CATCACGCCTCTATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACTCATCACGCCTCTATTCC
* *
9962799 ATTCCATTCAACCAAACAAAAGAATTACTTATTACGCCTCTATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACTCATCACGCCTCTATTCC
9962845 ATT
1 ATT
9962848 ACGCATCTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 23 0.52
45 3 0.07
46 18 0.41
ACGTcount: A:0.37, C:0.31, G:0.04, T:0.28
Consensus pattern (46 bp):
ATTCCATTCAACCAAACAAAAGAATTACTCATCACGCCTCTATTCC
Found at i:9962850 original size:16 final size:16
Alignment explanation
Indices: 9962829--9962881 Score: 88
Period size: 16 Copynumber: 3.3 Consensus size: 16
9962819 AGAATTACTT
9962829 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
9962845 ATTACGCATCTATTCC
1 ATTACGCCTCTATTCC
*
9962861 ATTACACCTCTATTCC
1 ATTACGCCTCTATTCC
9962877 ATTAC
1 ATTAC
9962882 AGCGAACCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.25, C:0.34, G:0.04, T:0.38
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:9963825 original size:32 final size:32
Alignment explanation
Indices: 9963788--9964620 Score: 1657
Period size: 32 Copynumber: 26.0 Consensus size: 32
9963778 AACTAAAACC
9963788 ACATTTAGTTTTCATATCAATTTTTTTTTTTT
1 ACATTTAGTTTTCATATCAATTTTTTTTTTTT
9963820 ACATTTAGTTTTCATATCAATTTTTTTTTTTT
1 ACATTTAGTTTTCATATCAATTTTTTTTTTTT
9963852 ACATTTAGTTTTCATATCAATTTTTTTTTTTT
1 ACATTTAGTTTTCATATCAATTTTTTTTTTTT
9963884 ACATTTAGTTTTCATATCAATTTTTTTTTTTT
1 ACATTTAGTTTTCATATCAATTTTTTTTTTTT
9963916 ACATTTAGTTTTCATATCAATTTTTTTTTTTT
1 ACATTTAGTTTTCATATCAATTTTTTTTTTTT
9963948 ACATTTAGTTTTCATATCAATTTTTTTTTTTT
1 ACATTTAGTTTTCATATCAATTTTTTTTTTTT
9963980 ACATTTAGTTTTCATATCAATTTTTTTTTTTT
1 ACATTTAGTTTTCATATCAATTTTTTTTTTTT
9964012 ACATTTAGTTTTCATATCAATTTTTTTTTTTT
1 ACATTTAGTTTTCATATCAATTTTTTTTTTTT
9964044 ACATTTAGTTTTCATATCAATTTTTTTTTTTT
1 ACATTTAGTTTTCATATCAATTTTTTTTTTTT
9964076 ACATTTAGTTTTCATATCAATTTTTTTTTTTT
1 ACATTTAGTTTTCATATCAATTTTTTTTTTTT
9964108 ACATTTAGTTTTCATATCAATTTTTTTTTTTT
1 ACATTTAGTTTTCATATCAATTTTTTTTTTTT
9964140 ACATTTAGTTTTCATATCAATTTTTTTTTTTT
1 ACATTTAGTTTTCATATCAATTTTTTTTTTTT
9964172 ACATTTAGTTTTCATATCAATTTTTTTTTTTT
1 ACATTTAGTTTTCATATCAATTTTTTTTTTTT
9964204 ACATTTAGTTTTCATATCAATTTTTTTTTTTT
1 ACATTTAGTTTTCATATCAATTTTTTTTTTTT
9964236 ACATTTAGTTTTCATATCAATTTTTTTTTTTT
1 ACATTTAGTTTTCATATCAATTTTTTTTTTTT
9964268 ACATTTAGTTTTCATATCAATTTTTTTTTTTT
1 ACATTTAGTTTTCATATCAATTTTTTTTTTTT
9964300 ACATTTAGTTTTCATATCAATTTTTTTTTTTT
1 ACATTTAGTTTTCATATCAATTTTTTTTTTTT
9964332 ACATTTAGTTTTCATATCAATTTTTTTTTTTT
1 ACATTTAGTTTTCATATCAATTTTTTTTTTTT
9964364 ACATTTAGTTTTCATATCAATTTTTTTTTTTT
1 ACATTTAGTTTTCATATCAATTTTTTTTTTTT
9964396 ACATTTAGTTTTCATATCAATTTTTTTTTTTT
1 ACATTTAGTTTTCATATCAATTTTTTTTTTTT
9964428 ACATTTAGTTTTCATATCAATTTTTTTTTTTT
1 ACATTTAGTTTTCATATCAATTTTTTTTTTTT
9964460 ACATTTAGTTTTCATATCAATTTTTTTTTTTT
1 ACATTTAGTTTTCATATCAATTTTTTTTTTTT
9964492 ACATTTAGTTTTCATATCAATTTTTTTTTTTT
1 ACATTTAGTTTTCATATCAATTTTTTTTTTTT
9964524 ACATTTAGTTTTCATATCAATTTTTTTTTTTT
1 ACATTTAGTTTTCATATCAATTTTTTTTTTTT
9964556 ACATTTAGTTTTCATATCAATTTTTTTTTTTT
1 ACATTTAGTTTTCATATCAATTTTTTTTTTTT
*
9964588 ACATTTAGTTTTCATATCAATTTTTTTTATTT
1 ACATTTAGTTTTCATATCAATTTTTTTTTTTT
9964620 A
1 A
9964621 TAAATTTATT
Statistics
Matches: 800, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 800 1.00
ACGTcount: A:0.22, C:0.09, G:0.03, T:0.65
Consensus pattern (32 bp):
ACATTTAGTTTTCATATCAATTTTTTTTTTTT
Found at i:9966332 original size:19 final size:18
Alignment explanation
Indices: 9966308--9966353 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
9966298 NACGTCTTTT
*
9966308 TTTGCATTCATTTCATGCA
1 TTTGCATTCATTGCAT-CA
9966327 TTTGCATTTCATTGCATCA
1 TTTGCA-TTCATTGCATCA
*
9966346 TATGCATT
1 TTTGCATT
9966354 AAACACCTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 2 0.08
19 13 0.54
20 9 0.38
ACGTcount: A:0.22, C:0.20, G:0.11, T:0.48
Consensus pattern (18 bp):
TTTGCATTCATTGCATCA
Found at i:9970093 original size:7 final size:7
Alignment explanation
Indices: 9970068--9970109 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
9970058 AGTGATGTGA
9970068 AAAAATG
1 AAAAATG
9970075 AAAAGATG
1 AAAA-ATG
9970083 -AAAATG
1 AAAAATG
9970089 AAAAATG
1 AAAAATG
9970096 AAAAA-G
1 AAAAATG
9970102 TAAAAATG
1 -AAAAATG
9970110 GAGAGGCTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
6 4 0.13
7 23 0.74
8 4 0.13
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (7 bp):
AAAAATG
Found at i:9970107 original size:21 final size:21
Alignment explanation
Indices: 9970068--9970109 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
9970058 AGTGATGTGA
*
9970068 AAAAATGAAAAGATGAAAATG
1 AAAAATGAAAAGATAAAAATG
9970089 AAAAATGAAAA-AGTAAAAATG
1 AAAAATGAAAAGA-TAAAAATG
9970110 GAGAGGCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (21 bp):
AAAAATGAAAAGATAAAAATG
Found at i:9971425 original size:45 final size:45
Alignment explanation
Indices: 9971367--9971522 Score: 129
Period size: 45 Copynumber: 3.5 Consensus size: 45
9971357 CCTCCCTCGG
* * *
9971367 AGACAGTGGAGCAGGTTGAAGATTACATATTTTACCTTCCTGCAT
1 AGACAGCGGAGCAGATCGAAGATTACATATTTTACCTTCCTGCAT
* * *** ** * **
9971412 AGACAGCGAAGCAGATCGAAGA-CACCA-CCCTCGCCTCCCT-CGG
1 AGACAGCGGAGCAGATCGAAGATTA-CATATTTTACCTTCCTGCAT
* * *
9971455 AGACAGTGGAGCAGGTTGAAGATTACATATTTTACCTTCCTGCAT
1 AGACAGCGGAGCAGATCGAAGATTACATATTTTACCTTCCTGCAT
*
9971500 AGACAGCGCAGCAGATCGAAGAT
1 AGACAGCGGAGCAGATCGAAGAT
9971523 GGCGGATTTT
Statistics
Matches: 77, Mismatches: 30, Indels: 8
0.67 0.26 0.07
Matches are distributed among these distances:
43 21 0.27
44 16 0.21
45 40 0.52
ACGTcount: A:0.30, C:0.24, G:0.24, T:0.22
Consensus pattern (45 bp):
AGACAGCGGAGCAGATCGAAGATTACATATTTTACCTTCCTGCAT
Found at i:9971462 original size:88 final size:88
Alignment explanation
Indices: 9971313--9971521 Score: 382
Period size: 88 Copynumber: 2.4 Consensus size: 88
9971303 ACAGATCTTG
* *
9971313 CCTTCCTGCATCGACAGTGAAGCAGATCGAAGACACCAACCTCGCCTCCCTCGGAGACAGTGGAG
1 CCTTCCTGCATAGACAGCGAAGCAGATCGAAGACACCAACCTCGCCTCCCTCGGAGACAGTGGAG
9971378 CAGGTTGAAGATTACATATTTTA
66 CAGGTTGAAGATTACATATTTTA
*
9971401 CCTTCCTGCATAGACAGCGAAGCAGATCGAAGACACCACCCTCGCCTCCCTCGGAGACAGTGGAG
1 CCTTCCTGCATAGACAGCGAAGCAGATCGAAGACACCAACCTCGCCTCCCTCGGAGACAGTGGAG
9971466 CAGGTTGAAGATTACATATTTTA
66 CAGGTTGAAGATTACATATTTTA
*
9971489 CCTTCCTGCATAGACAGCGCAGCAGATCGAAGA
1 CCTTCCTGCATAGACAGCGAAGCAGATCGAAGA
9971522 TGGCGGATTT
Statistics
Matches: 117, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
88 117 1.00
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.20
Consensus pattern (88 bp):
CCTTCCTGCATAGACAGCGAAGCAGATCGAAGACACCAACCTCGCCTCCCTCGGAGACAGTGGAG
CAGGTTGAAGATTACATATTTTA
Found at i:9971476 original size:43 final size:43
Alignment explanation
Indices: 9971325--9971468 Score: 128
Period size: 43 Copynumber: 3.3 Consensus size: 43
9971315 TTCCTGCATC
9971325 GACAGTGAAGCAGATCGAAGACACCAACCTCGCCTCCCTCGGA
1 GACAGTGAAGCAGATCGAAGACACCAACCTCGCCTCCCTCGGA
* * * * ** ** * **
9971368 GACAGTGGAGCAGGTTGAAGATTA-CATATTTTACCTTCCTGCATA
1 GACAGTGAAGCAGATCGAAGA-CACCA-ACCTCGCCTCCCT-CGGA
* *
9971413 GACAGCGAAGCAGATCGAAGACACCACCCTCGCCTCCCTCGGA
1 GACAGTGAAGCAGATCGAAGACACCAACCTCGCCTCCCTCGGA
*
9971456 GACAGTGGAGCAG
1 GACAGTGAAGCAG
9971469 GTTGAAGATT
Statistics
Matches: 71, Mismatches: 26, Indels: 8
0.68 0.25 0.08
Matches are distributed among these distances:
43 33 0.46
44 17 0.24
45 21 0.30
ACGTcount: A:0.29, C:0.29, G:0.25, T:0.17
Consensus pattern (43 bp):
GACAGTGAAGCAGATCGAAGACACCAACCTCGCCTCCCTCGGA
Found at i:9971957 original size:263 final size:263
Alignment explanation
Indices: 9971489--9972716 Score: 1491
Period size: 263 Copynumber: 4.7 Consensus size: 263
9971479 ACATATTTTA
* *
9971489 CCTTCCTGCATAGACAGCGCAGCAGATCGAAGATGGCGGATTTTACCTCCTCGTAGTTACAGTGG
1 CCTTCCTGCATAGACAGCGAAGCAGATCGAAGATGGCGGATTTTACCTCCTCGTGGTTACAGTGG
*
9971554 AGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGCAGAATAGATTGAAGATTTTAGATC
66 AGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGCAGAATAGATTGAAGATTTCAGATC
*
9971619 TTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAGATTTTACCTCC-CTGTGGTTACAG
131 TTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTACCTCCTC-GTGGTTACAG
** *
9971683 AGGAGTACATTGAAACCAGTAATTCTA-CTTCCCTAGGCGCCA-GGAATAGATCAAAAATAGCAG
195 AGGAGTACATTGAAACC-GTAATTCTATC-TCCCTAGGCAACAGGGAATAGATCAAAGATAGCAG
9971746 ATCTTG
258 ATCTTG
* *
9971752 TCTTCCTGCATAGACAGCGAAGCAGATCGAGGATGGCGGATTTTACCTCCTCGTGGTTACAGTGG
1 CCTTCCTGCATAGACAGCGAAGCAGATCGAAGATGGCGGATTTTACCTCCTCGTGGTTACAGTGG
*
9971817 AGTACGTTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGCAGAATAGATTGAAGATTTCAGATC
66 AGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGCAGAATAGATTGAAGATTTCAGATC
* * *
9971882 TTGCCTCCATAAGCAGTAGTGGAGCAGATCAAAGATGG-TGAATTTTACCTCCAT-GTGGTTACA
131 TTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAG-ATTTTACCTCC-TCGTGGTTACA
* **
9971945 GAGGAGTACATTGACACCAGTAATTCTA-CTTCCCTAGGCGTCA-GGAATAGATCAAAGATAGCA
194 GAGGAGTACATTGAAACC-GTAATTCTATC-TCCCTAGGCAACAGGGAATAGATCAAAGATAGCA
9972008 GATCTTG
257 GATCTTG
* **
9972015 CCTTCCTGCATAGACAGCGAAGCAGATCGAGGATGGTAGATTTTACCTCCTCGTGGTTACAGTGG
1 CCTTCCTGCATAGACAGCGAAGCAGATCGAAGATGGCGGATTTTACCTCCTCGTGGTTACAGTGG
*
9972080 AGTACGTTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGCAGAATAGATTGAAGATTTCAGATC
66 AGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGCAGAATAGATTGAAGATTTCAGATC
* * *
9972145 TTGTCTCCTTAAGCAGTAGTGGGGCAGATC-AATATGGCAGATTTTACCTCCTCGTGGTTACAGT
131 TTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTACCTCCTCGTGGTTACAG-
* * ** **
9972209 A-GAGTACATTGAAGCCGATAATTCTATCTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAG
195 AGGAGTACATTGAAACCG-TAATTCTATCTCCCTAGGCAACAG-GGAATAGATCAAAGATAGCAG
9972273 ATCTTG
258 ATCTTG
* * * * ** * *
9972279 TC-TCCT-TA-AGCAGTAGTGGGGCAGATC-AATATGGCAGATTTTACCTCCTCGTGGTTACAGT
1 CCTTCCTGCATAG-A-CAGCGAAGCAGATCGAAGATGGCGGATTTTACCTCCTCGTGGTTACAGT
* **
9972340 AGAGTACATTGAAGCC-GATAATTCTATCTCCCT--G-AGCAGTGGAATAGATTGAAGATTTCAG
64 GGAGTACATTGAAGCCAG-TAATTCTATCTCCCTGGGCAGCAGCAGAATAGATTGAAGATTTCAG
* * * *
9972401 ATCTTGTCTCCTTAAGCAGTAGTGGGGCAGATCAAATATGGCGGATTTTACCTCCTCGTGGTTAC
128 ATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTACCTCCTCGTGGTTAC
* * * * * ** **
9972466 AGTGGAGTACATTGAAGCC--AATACTATCTCCTTGGGCAACAGTGGAATAGATTGAAGATTTCA
193 AGAGGAGTACATTGAAACCGTAATTCTATCTCCCTAGGCAACAG-GGAATAGATCAAAGATAGCA
9972529 GATCTTG
257 GATCTTG
* * * * * *
9972536 CCTCCCTAAGCAGTAG--TG-G-AGCAGATCAAAGATGGTGAATTTTACTTCC-CTGTGGTTACA
1 CCTTCCT--GCA-TAGACAGCGAAGCAGATCGAAGATGGCGGATTTTACCTCCTC-GTGGTTACA
* * * *
9972596 GTGGAGTACATTGAAGCC-GATAATCCTATCTCCCTGGGCAACAGTAGAATAGATTGAAGATTAC
62 GTGGAGTACATTGAAGCCAG-TAATTCTATCTCCCTGGGCAGCAGCAGAATAGATTGAAGATTTC
* * * *
9972660 -GAATTTTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAGGATGGCAGATTTTACCTCC
126 AG-ATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTACCTCC
9972717 CTGAAGTTGC
Statistics
Matches: 868, Mismatches: 70, Indels: 56
0.87 0.07 0.06
Matches are distributed among these distances:
257 58 0.07
258 62 0.07
259 59 0.07
260 50 0.06
261 75 0.09
262 121 0.14
263 419 0.48
264 24 0.03
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.27
Consensus pattern (263 bp):
CCTTCCTGCATAGACAGCGAAGCAGATCGAAGATGGCGGATTTTACCTCCTCGTGGTTACAGTGG
AGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGCAGAATAGATTGAAGATTTCAGATC
TTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTACCTCCTCGTGGTTACAGA
GGAGTACATTGAAACCGTAATTCTATCTCCCTAGGCAACAGGGAATAGATCAAAGATAGCAGATC
TTG
Found at i:9972734 original size:132 final size:132
Alignment explanation
Indices: 9971509--9972716 Score: 1391
Period size: 131 Copynumber: 9.2 Consensus size: 132
9971499 TAGACAGCGC
* * *
9971509 AGCAGATCGAAGATGGCGGATTTTACCTCCTCGTAGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCAAAGATGGCAGATTTTACCTCCTCGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* *
9971574 TCTATCTCCCTGGGCAGCAGCAGAATAGATTGAAGATTTTAGATCTTGTCTCCCTAAGCAGTAGT
66 TCTATCTCCCTGGGCAGCAGTAGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGT
9971639 GG
131 GG
* * *
9971641 AGCAGATCAAAGACGGCAGATTTTACCTCC-CTGTGGTTACAGAGGAGTACATTGAAACCAGTAA
1 AGCAGATCAAAGATGGCAGATTTTACCTCCTC-GTGGTTACAGTGGAGTACATTGAAGCCAGTAA
* ** * ** *
9971705 TTCTA-CTTCCCTAGGC-GCCAG--GAATAGATCAAAAATAGCAGATCTTGTCTTCCT--GCA-T
65 TTCTATC-TCCCTGGGCAG-CAGTAGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGT
*
9971763 AGACAGCG
128 AG--TG-G
* * * *
9971771 AAGCAGATCGAGGATGGCGGATTTTACCTCCTCGTGGTTACAGTGGAGTACGTTGAAGCCAGTAA
1 -AGCAGATCAAAGATGGCAGATTTTACCTCCTCGTGGTTACAGTGGAGTACATTGAAGCCAGTAA
* * *
9971836 TTCTATCTCCCTGGGCAGCAGCAGAATAGATTGAAGATTTCAGATCTTGCCTCCATAAGCAGTAG
65 TTCTATCTCCCTGGGCAGCAGTAGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAG
9971901 TGG
130 TGG
* *
9971904 AGCAGATCAAAGATGG-TGAATTTTACCTCCAT-GTGGTTACAGAGGAGTACATTGACA-CCAGT
1 AGCAGATCAAAGATGGCAG-ATTTTACCTCC-TCGTGGTTACAGTGGAGTACATTGA-AGCCAGT
* ** ** * *
9971966 AATTCTA-CTTCCCTAGGC-GTCAG--GAATAGATCAAAGATAGCAGATCTTGCCTTCCT--GCA
63 AATTCTATC-TCCCTGGGCAG-CAGTAGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCA
*
9972025 -TAGACAGCG
126 GTAG--TG-G
* * * *
9972034 AAGCAGATCGAGGATGGTAGATTTTACCTCCTCGTGGTTACAGTGGAGTACGTTGAAGCCAGTAA
1 -AGCAGATCAAAGATGGCAGATTTTACCTCCTCGTGGTTACAGTGGAGTACATTGAAGCCAGTAA
* *
9972099 TTCTATCTCCCTGGGCAGCAGCAGAATAGATTGAAGATTTCAGATCTTGTCTCCTTAAGCAGTAG
65 TTCTATCTCCCTGGGCAGCAGTAGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAG
9972164 TGG
130 TGG
* * *
9972167 GGCAGATC-AATATGGCAGATTTTACCTCCTCGTGGTTACAGTAGAGTACATTGAAGCC-GATAA
1 AGCAGATCAAAGATGGCAGATTTTACCTCCTCGTGGTTACAGTGGAGTACATTGAAGCCAG-TAA
* * *
9972230 TTCTATCTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCTTAAGCAGTAG
65 TTCTATCTCCCTGGGCAGCAGTAGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAG
9972295 TGG
130 TGG
* * *
9972298 GGCAGATC-AATATGGCAGATTTTACCTCCTCGTGGTTACAGTAGAGTACATTGAAGCC-GATAA
1 AGCAGATCAAAGATGGCAGATTTTACCTCCTCGTGGTTACAGTGGAGTACATTGAAGCCAG-TAA
* *
9972361 TTCTATCTCCCT--G-AGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCTTAAGCAGTAG
65 TTCTATCTCCCTGGGCAGCAGTAGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAG
9972423 TGG
130 TGG
* * *
9972426 GGCAGATCAAATATGGCGGATTTTACCTCCTCGTGGTTACAGTGGAGTACATTGAAGCC---AAT
1 AGCAGATCAAAGATGGCAGATTTTACCTCCTCGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * * * *
9972488 ACTATCTCCTTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTGCCTCCCTAAGCAGTAGT
66 TCTATCTCCCTGGGCAGCAGTAGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGT
9972553 GG
131 GG
* *
9972555 AGCAGATCAAAGATGG-TGAATTTTACTTCC-CTGTGGTTACAGTGGAGTACATTGAAGCC-GAT
1 AGCAGATCAAAGATGGCAG-ATTTTACCTCCTC-GTGGTTACAGTGGAGTACATTGAAGCCAG-T
* * * * *
9972617 AATCCTATCTCCCTGGGCAACAGTAGAATAGATTGAAGATTAC-GAATTTTATCTCCCTAAGCAG
63 AATTCTATCTCCCTGGGCAGCAGTAGAATAGATTGAAGATTTCAG-ATCTTGTCTCCCTAAGCAG
9972681 TAGTGG
127 TAGTGG
* *
9972687 AGCAGGTCAAGGATGGCAGATTTTACCTCC
1 AGCAGATCAAAGATGGCAGATTTTACCTCC
9972717 CTGAAGTTGC
Statistics
Matches: 939, Mismatches: 91, Indels: 92
0.84 0.08 0.08
Matches are distributed among these distances:
126 12 0.01
127 6 0.01
128 68 0.07
129 151 0.16
130 58 0.06
131 335 0.36
132 239 0.25
133 56 0.06
134 2 0.00
135 6 0.01
136 6 0.01
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (132 bp):
AGCAGATCAAAGATGGCAGATTTTACCTCCTCGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
TCTATCTCCCTGGGCAGCAGTAGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGT
GG
Found at i:9972759 original size:49 final size:50
Alignment explanation
Indices: 9972684--9972783 Score: 175
Period size: 49 Copynumber: 2.0 Consensus size: 50
9972674 TAAGCAGTAG
9972684 TGGAGCAGGTCAAGGATGGCAGATTTTACCTCCCTGAAGTTGCAGTGGAGT
1 TGGAGCAGGT-AAGGATGGCAGATTTTACCTCCCTGAAGTTGCAGTGGAGT
*
9972735 TGGAGCAGGT-AGGATGGCAGATTTTCCCTCCCTGAAGTTGCAGTGGAGT
1 TGGAGCAGGTAAGGATGGCAGATTTTACCTCCCTGAAGTTGCAGTGGAGT
9972784 ACATTGAAGC
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
49 38 0.79
51 10 0.21
ACGTcount: A:0.22, C:0.18, G:0.34, T:0.26
Consensus pattern (50 bp):
TGGAGCAGGTAAGGATGGCAGATTTTACCTCCCTGAAGTTGCAGTGGAGT
Found at i:9973525 original size:10 final size:11
Alignment explanation
Indices: 9973510--9973539 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
9973500 TATATATATT
9973510 TTTTATTTTC-
1 TTTTATTTTCA
9973520 TTTTATTTTCA
1 TTTTATTTTCA
9973531 TTTTATTTT
1 TTTTATTTT
9973540 TCCTAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.13, C:0.07, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTTATTTTCA
Found at i:9974140 original size:3 final size:3
Alignment explanation
Indices: 9974134--9974192 Score: 66
Period size: 3 Copynumber: 19.3 Consensus size: 3
9974124 GTTTTTTTAA
* *
9974134 ATT ATT ATT ATT ATT ATC ATTT ATT ATC ATT ATT ATT A-T ATT ATAT
1 ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT AT-T
*
9974180 ATT ATC ATT ATT A
1 ATT ATT ATT ATT A
9974193 CTGTTACTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
2 2 0.04
3 40 0.85
4 5 0.11
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:9974187 original size:24 final size:25
Alignment explanation
Indices: 9974137--9974192 Score: 87
Period size: 24 Copynumber: 2.3 Consensus size: 25
9974127 TTTTTAAATT
*
9974137 ATTATTATTATTATCATTTATTATC
1 ATTATTATTATTATCATATATTATC
*
9974162 ATTATTATTA-TATTATATATTATC
1 ATTATTATTATTATCATATATTATC
9974186 ATTATTA
1 ATTATTA
9974193 CTGTTACTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
24 19 0.66
25 10 0.34
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (25 bp):
ATTATTATTATTATCATATATTATC
Found at i:9974302 original size:2 final size:2
Alignment explanation
Indices: 9974297--9974324 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
9974287 TTTTACAAAC
9974297 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9974325 TTTTTTTTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9975890 original size:16 final size:16
Alignment explanation
Indices: 9975851--9975896 Score: 65
Period size: 16 Copynumber: 2.9 Consensus size: 16
9975841 GAAATTACTA
* * *
9975851 ATTACAACTCTATTCT
1 ATTACAATTTTATTCC
9975867 ATTACAATTTTATTCC
1 ATTACAATTTTATTCC
9975883 ATTACAATTTTATT
1 ATTACAATTTTATT
9975897 AGCTAAAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.33, C:0.17, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTACAATTTTATTCC
Found at i:9975926 original size:90 final size:89
Alignment explanation
Indices: 9975824--9975996 Score: 310
Period size: 90 Copynumber: 1.9 Consensus size: 89
9975814 CTATTTCATT
*
9975824 CCATTCAATCAAATAACGAAATTACTAATTACAACTCTATTCTATTACAATTTTATTCCATTACA
1 CCATTCAATCAAATAACGAAACTACTAATTACAACTCTATTCTATTA-AATTTTATTCCATTACA
*
9975889 ATTTTATTAGCTAAAAGTTTTAGAA
65 ATTTTATTACCTAAAAGTTTTAGAA
*
9975914 CCATTCAATCAAATAATGAAACTACTAATTACAACTCTATTCTATTAAATTTTATTCCATTACAA
1 CCATTCAATCAAATAACGAAACTACTAATTACAACTCTATTCTATTAAATTTTATTCCATTACAA
9975979 TTTTATTACCTAAAAGTT
66 TTTTATTACCTAAAAGTT
9975997 GAACAGCAAT
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
89 35 0.44
90 45 0.56
ACGTcount: A:0.40, C:0.17, G:0.03, T:0.39
Consensus pattern (89 bp):
CCATTCAATCAAATAACGAAACTACTAATTACAACTCTATTCTATTAAATTTTATTCCATTACAA
TTTTATTACCTAAAAGTTTTAGAA
Found at i:9975982 original size:16 final size:16
Alignment explanation
Indices: 9975941--9975985 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
9975931 GAAACTACTA
* * *
9975941 ATTACAACTCTATTCT
1 ATTACAATTTTATTCC
9975957 ATTA-AATTTTATTCC
1 ATTACAATTTTATTCC
9975972 ATTACAATTTTATT
1 ATTACAATTTTATT
9975986 ACCTAAAAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.33, C:0.16, G:0.00, T:0.51
Consensus pattern (16 bp):
ATTACAATTTTATTCC
Found at i:9977250 original size:19 final size:19
Alignment explanation
Indices: 9977228--9977274 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
9977218 TTTTAATTAA
*
9977228 ATAAAAATATTTTATATAT
1 ATAAAAATATTTTATAAAT
*
9977247 ATAAATACT-TTTTATAAAT
1 ATAAA-AATATTTTATAAAT
*
9977266 TTAAAAATA
1 ATAAAAATA
9977275 ATTATAATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 4
0.73 0.13 0.13
Matches are distributed among these distances:
18 2 0.09
19 18 0.82
20 2 0.09
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (19 bp):
ATAAAAATATTTTATAAAT
Found at i:9977592 original size:191 final size:188
Alignment explanation
Indices: 9977378--9977756 Score: 661
Period size: 192 Copynumber: 2.0 Consensus size: 188
9977368 AATAGAATTG
*
9977378 TTATTTAAATAGAACTCTAAGCATAAAATATAGGAAAAAGACAAAAATA-TTGTGATAATTATAA
1 TTATTTAAATAGAACTCTAAGCATAAAATATAGGAAAAAGACAAAAAAATTTGTGATAATTATAA
*
9977442 TTATAAATTATTGTTATTAGTTAAAAAATTTGACGATGCTACTTTTATTAAAGTAAAATAGAGTT
66 TTATAAATTATTGTTAGTAGTTAAAAAATTTGACGATGCTACTTTTATTAAAGTAAAATAGAGTT
9977507 ATTACTTAATTAGAATTCTAAGTATCTTAATTATCACTTAACTAATATTAGATTTAATTAAA
131 ATTACTTAATTAGAATTCTAAGTATCTTAA-T-T--CTTAACTAATATTAGATTTAATTAAA
* *
9977569 TTATTTAAATAGAACTCTAAGCATAAAATATATGAAAAAGATAAAAAAATTTGTGATAATTATAA
1 TTATTTAAATAGAACTCTAAGCATAAAATATAGGAAAAAGACAAAAAAATTTGTGATAATTATAA
* *
9977634 TTATAATTTATTGTTAGTAGTTAAAAAATTTGACGATGCTACTTTTATTAAAGTAAAGTAGAGTT
66 TTATAAATTATTGTTAGTAGTTAAAAAATTTGACGATGCTACTTTTATTAAAGTAAAATAGAGTT
9977699 ATTACTTAATTAGAATTCTAAGTATCTTAATTCTTAACTAATATTAGATTTAATTAAA
131 ATTACTTAATTAGAATTCTAAGTATCTTAATTCTTAACTAATATTAGATTTAATTAAA
9977757 AATTAATAGA
Statistics
Matches: 181, Mismatches: 6, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
188 26 0.14
190 1 0.01
191 47 0.26
192 107 0.59
ACGTcount: A:0.45, C:0.06, G:0.10, T:0.39
Consensus pattern (188 bp):
TTATTTAAATAGAACTCTAAGCATAAAATATAGGAAAAAGACAAAAAAATTTGTGATAATTATAA
TTATAAATTATTGTTAGTAGTTAAAAAATTTGACGATGCTACTTTTATTAAAGTAAAATAGAGTT
ATTACTTAATTAGAATTCTAAGTATCTTAATTCTTAACTAATATTAGATTTAATTAAA
Found at i:9978710 original size:17 final size:17
Alignment explanation
Indices: 9978688--9978727 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
9978678 AAATTTTATT
* *
9978688 TTAAAAATATTTTAAAA
1 TTAAAAAAAATTTAAAA
9978705 TTAAAAAAAATTTAAAA
1 TTAAAAAAAATTTAAAA
*
9978722 GTAAAA
1 TTAAAA
9978728 CTCATATTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (17 bp):
TTAAAAAAAATTTAAAA
Found at i:9986211 original size:24 final size:24
Alignment explanation
Indices: 9986160--9986214 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
9986150 CGTCTTCATG
* *
9986160 ATCATCATCTTCATCATCAGAAAT
1 ATCATCATCTTCATCACCAGAAAC
*
9986184 ATCATCATCTTCAATCACCA-AAGC
1 ATCATCATCTTC-ATCACCAGAAAC
9986208 ATCATCA
1 ATCATCA
9986215 ATCTCCACAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 21 0.78
25 6 0.22
ACGTcount: A:0.38, C:0.29, G:0.04, T:0.29
Consensus pattern (24 bp):
ATCATCATCTTCATCACCAGAAAC
Found at i:9990783 original size:6 final size:6
Alignment explanation
Indices: 9990772--9990817 Score: 65
Period size: 6 Copynumber: 7.7 Consensus size: 6
9990762 TTGTCTCTAT
* * *
9990772 TATCCC TATCCC TATCTC TATCCC TATCTC TATCTC TATCTC TATC
1 TATCTC TATCTC TATCTC TATCTC TATCTC TATCTC TATCTC TATC
9990818 GCGAGCACTT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.17, C:0.39, G:0.00, T:0.43
Consensus pattern (6 bp):
TATCTC
Found at i:9990792 original size:12 final size:12
Alignment explanation
Indices: 9990772--9990817 Score: 74
Period size: 12 Copynumber: 3.8 Consensus size: 12
9990762 TTGTCTCTAT
*
9990772 TATCCCTATCCC
1 TATCTCTATCCC
9990784 TATCTCTATCCC
1 TATCTCTATCCC
*
9990796 TATCTCTATCTC
1 TATCTCTATCCC
9990808 TATCTCTATC
1 TATCTCTATC
9990818 GCGAGCACTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.17, C:0.39, G:0.00, T:0.43
Consensus pattern (12 bp):
TATCTCTATCCC
Found at i:9990795 original size:18 final size:18
Alignment explanation
Indices: 9990772--9990817 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
9990762 TTGTCTCTAT
9990772 TATCCCTATCCCTATCTC
1 TATCCCTATCCCTATCTC
*
9990790 TATCCCTATCTCTATCTC
1 TATCCCTATCCCTATCTC
*
9990808 TATCTCTATC
1 TATCCCTATC
9990818 GCGAGCACTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.17, C:0.39, G:0.00, T:0.43
Consensus pattern (18 bp):
TATCCCTATCCCTATCTC
Found at i:9991978 original size:31 final size:31
Alignment explanation
Indices: 9991916--9991978 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
9991906 AAAATGCAAT
* *
9991916 TTAAATGAAAATTTTTAAATAGTTTAATGAC
1 TTAAATGAAAATTTTTAAATAATTCAATGAC
*
9991947 TTAAATGAAAATTTTTAAATAATTCAGTGAC
1 TTAAATGAAAATTTTTAAATAATTCAATGAC
9991978 T
1 T
9991979 ATTTTGTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (31 bp):
TTAAATGAAAATTTTTAAATAATTCAATGAC
Found at i:10005369 original size:48 final size:48
Alignment explanation
Indices: 10005298--10005397 Score: 157
Period size: 48 Copynumber: 2.1 Consensus size: 48
10005288 CAGTTGAAAA
*
10005298 CATTTAAACCTCATATGATTCAACATGTTAAT-GTAATCATAAACCAAT
1 CATTTAAACCTCATATGATTCAACATGTTAATACT-ATCATAAACCAAT
* *
10005346 CATTTAAACCTCATATTATTCAACATGTTAATACTATTATAAACCAAT
1 CATTTAAACCTCATATGATTCAACATGTTAATACTATCATAAACCAAT
10005394 CATT
1 CATT
10005398 CACATGCATA
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
48 47 0.98
49 1 0.02
ACGTcount: A:0.41, C:0.19, G:0.04, T:0.36
Consensus pattern (48 bp):
CATTTAAACCTCATATGATTCAACATGTTAATACTATCATAAACCAAT
Done.