Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008258.1 Hibiscus syriacus cultivar Beakdansim tig00110911_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1617810
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 8
Found at i:159259 original size:25 final size:25
Alignment explanation
Indices: 159232--159279 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
159222 TTGATCGGTT
159232 TTTTTCTTT-TCTTTTTCTCTTTTC
1 TTTTTCTTTCTCTTTTTCTCTTTTC
*
159256 TTTTTCTTTCTTTTTTTCTCTTTT
1 TTTTTCTTTCTCTTTTTCTCTTTT
159280 TTATGTCCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 9 0.41
25 13 0.59
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (25 bp):
TTTTTCTTTCTCTTTTTCTCTTTTC
Found at i:163522 original size:27 final size:27
Alignment explanation
Indices: 163492--163553 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
163482 AATGGTAAAT
163492 AAAGGCAAAAACTGCAAATGCAGATGC
1 AAAGGCAAAAACTGCAAATGCAGATGC
*
163519 AAAGGCAAAAACTGCAAATGCATATGC
1 AAAGGCAAAAACTGCAAATGCAGATGC
*
163546 AAATGCAA
1 AAAGGCAA
163554 TGGAGGGACT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.50, C:0.18, G:0.19, T:0.13
Consensus pattern (27 bp):
AAAGGCAAAAACTGCAAATGCAGATGC
Found at i:165770 original size:16 final size:16
Alignment explanation
Indices: 165739--165783 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
165729 AAACAATTAA
**
165739 AATAAAAATATCAAAT
1 AATAAAAATAAAAAAT
165755 AATAAAAATAAAAAAT
1 AATAAAAATAAAAAAT
*
165771 AGT-AAAATAAAAA
1 AATAAAAATAAAAA
165784 CAACATAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 10 0.38
16 16 0.62
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (16 bp):
AATAAAAATAAAAAAT
Found at i:169389 original size:22 final size:24
Alignment explanation
Indices: 169361--169409 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
169351 TATTTTTACC
169361 TTTTAAAATT-TA-AAAGTTAATT
1 TTTTAAAATTATATAAAGTTAATT
*
169383 TTTTAAAATTATATAAATTTAATT
1 TTTTAAAATTATATAAAGTTAATT
169407 TTT
1 TTT
169410 AATATAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 10 0.42
23 2 0.08
24 12 0.50
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (24 bp):
TTTTAAAATTATATAAAGTTAATT
Found at i:175558 original size:39 final size:39
Alignment explanation
Indices: 175515--175589 Score: 150
Period size: 39 Copynumber: 1.9 Consensus size: 39
175505 ACTACACGAC
175515 CGGTAGATTCGACACCATTTTGATGCCATGAATGCTAGT
1 CGGTAGATTCGACACCATTTTGATGCCATGAATGCTAGT
175554 CGGTAGATTCGACACCATTTTGATGCCATGAATGCT
1 CGGTAGATTCGACACCATTTTGATGCCATGAATGCT
175590 CTTCTTAGTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (39 bp):
CGGTAGATTCGACACCATTTTGATGCCATGAATGCTAGT
Found at i:176232 original size:24 final size:24
Alignment explanation
Indices: 176174--176233 Score: 63
Period size: 22 Copynumber: 2.6 Consensus size: 24
176164 AGATATAGAG
*
176174 AAAATGAGGGAAAAAAACAACACA
1 AAAAAGAGGGAAAAAAACAACACA
* *
176198 AATAAGA--GAAAAAAGAGAA-ACA
1 AAAAAGAGGGAAAAAA-ACAACACA
176220 AAAAAGAGGGAAAA
1 AAAAAGAGGGAAAA
176234 CCCGAGAGCA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
22 16 0.55
23 3 0.10
24 10 0.34
ACGTcount: A:0.70, C:0.07, G:0.20, T:0.03
Consensus pattern (24 bp):
AAAAAGAGGGAAAAAAACAACACA
Found at i:177302 original size:30 final size:29
Alignment explanation
Indices: 177246--177359 Score: 111
Period size: 30 Copynumber: 3.9 Consensus size: 29
177236 TTATTTGTAA
* * *
177246 TTACTATTTAGCCCTTCAAATTTCTATTT
1 TTACTATTTAGTCCTTTAACTTTCTATTT
177275 TTACTATTTAAGTCCTTTAACTTTCTATTT
1 TTACTATTT-AGTCCTTTAACTTTCTATTT
** * * *
177305 TTGTTATTTTGGTCTTTTAACTTTTTATTT
1 TTACTA-TTTAGTCCTTTAACTTTCTATTT
* * *
177335 TTTCAATTTAGTCCTTTAAGTTTCT
1 TTACTATTTAGTCCTTTAACTTTCT
177360 GTTATTTTAT
Statistics
Matches: 68, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
29 24 0.35
30 41 0.60
31 3 0.04
ACGTcount: A:0.20, C:0.15, G:0.06, T:0.59
Consensus pattern (29 bp):
TTACTATTTAGTCCTTTAACTTTCTATTT
Found at i:177350 original size:59 final size:59
Alignment explanation
Indices: 177258--177388 Score: 165
Period size: 58 Copynumber: 2.2 Consensus size: 59
177248 ACTATTTAGC
* * * *
177258 CCTTCAAATTTCTATTTTTACTATTTAAGTCCTTTAACTTTCTATTTTTGTTATTTTGGT
1 CCTTTAAATTTTTATTTTTACAATTTAAGTCCTTTAACTTTCTATTATT-TTATTTTGGT
* * * * *
177318 CTTTTAACTTTTTATTTTTTCAATTT-AGTCCTTTAAGTTTCTGTTATTTTATTTTGGT
1 CCTTTAAATTTTTATTTTTACAATTTAAGTCCTTTAACTTTCTATTATTTTATTTTGGT
177376 CCTTTAAATTTTT
1 CCTTTAAATTTTT
177389 GAATATGTTT
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
58 21 0.35
59 19 0.32
60 20 0.33
ACGTcount: A:0.19, C:0.13, G:0.07, T:0.61
Consensus pattern (59 bp):
CCTTTAAATTTTTATTTTTACAATTTAAGTCCTTTAACTTTCTATTATTTTATTTTGGT
Found at i:177353 original size:29 final size:29
Alignment explanation
Indices: 177251--177386 Score: 103
Period size: 30 Copynumber: 4.6 Consensus size: 29
177241 TGTAATTACT
* * * *
177251 ATTTAGCCCTTCAAATTTCTATTTTTACT
1 ATTTAGTCCTTTAAATTTCTATTTTTTCA
* *
177280 ATTTAAGTCCTTTAACTTTCTATTTTTGTTA
1 ATTT-AGTCCTTTAAATTTCTATTTTT-TCA
* * * * *
177311 TTTTGGTCTTTTAACTTTTTATTTTTTCA
1 ATTTAGTCCTTTAAATTTCTATTTTTTCA
* *
177340 ATTTAGTCCTTTAAGTTTCTGTTATTTT-A
1 ATTTAGTCCTTTAAATTTCTATT-TTTTCA
* *
177369 TTTTGGTCCTTTAAATTT
1 ATTTAGTCCTTTAAATTT
177387 TTGAATATGT
Statistics
Matches: 84, Mismatches: 20, Indels: 6
0.76 0.18 0.05
Matches are distributed among these distances:
29 39 0.46
30 42 0.50
31 3 0.04
ACGTcount: A:0.20, C:0.13, G:0.07, T:0.60
Consensus pattern (29 bp):
ATTTAGTCCTTTAAATTTCTATTTTTTCA
Found at i:182440 original size:19 final size:19
Alignment explanation
Indices: 182413--182450 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
182403 TTTTAACTGT
*
182413 AGCATAATTAAGTTTCCTA
1 AGCAGAATTAAGTTTCCTA
182432 AGCAGAATTAAGTTTCCTA
1 AGCAGAATTAAGTTTCCTA
182451 TAATCCACAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (19 bp):
AGCAGAATTAAGTTTCCTA
Found at i:190447 original size:32 final size:32
Alignment explanation
Indices: 190411--190474 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
190401 TCTTACATGT
* *
190411 ACTAACTAATTTCTTTTCTTTTGTTTGTGTAC
1 ACTAACTAAGTTATTTTCTTTTGTTTGTGTAC
*
190443 ACTAACTTAGTTATTTTCTTTTGTTTGTGTAC
1 ACTAACTAAGTTATTTTCTTTTGTTTGTGTAC
190475 TAACATAATG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.19, C:0.14, G:0.11, T:0.56
Consensus pattern (32 bp):
ACTAACTAAGTTATTTTCTTTTGTTTGTGTAC
Found at i:192303 original size:28 final size:28
Alignment explanation
Indices: 192244--192341 Score: 84
Period size: 28 Copynumber: 3.7 Consensus size: 28
192234 AGATCGAATC
* * *
192244 AAAACAAATAGAAAAGAAGTAAAGGAAA
1 AAAACAAAGAGAAAAGAAGAAAAGCAAA
*
192272 AAAACAAAGAGCAAAGAA-AAAAGCAAA
1 AAAACAAAGAGAAAAGAAGAAAAGCAAA
* *
192299 GAAAA-TAAG-GAAAA-AACAAAAG--AA
1 -AAAACAAAGAGAAAAGAAGAAAAGCAAA
192323 AAAACAAAGA-AAAAGAAGA
1 AAAACAAAGAGAAAAGAAGA
192342 CAAGAAGCAT
Statistics
Matches: 57, Mismatches: 8, Indels: 13
0.73 0.10 0.17
Matches are distributed among these distances:
23 4 0.07
24 9 0.16
25 5 0.09
26 9 0.16
27 10 0.18
28 20 0.35
ACGTcount: A:0.74, C:0.06, G:0.16, T:0.03
Consensus pattern (28 bp):
AAAACAAAGAGAAAAGAAGAAAAGCAAA
Found at i:192324 original size:11 final size:11
Alignment explanation
Indices: 192283--192336 Score: 58
Period size: 12 Copynumber: 4.9 Consensus size: 11
192273 AAACAAAGAG
192283 CAAAGAAAAAA
1 CAAAGAAAAAA
192294 GCAAAG--AAAA
1 -CAAAGAAAAAA
* *
192304 TAAGGAAAAAA
1 CAAAGAAAAAA
192315 CAAAAGAAAAAA
1 C-AAAGAAAAAA
192327 CAAAGAAAAA
1 CAAAGAAAAA
192337 GAAGACAAGA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
9 3 0.09
10 4 0.11
11 13 0.37
12 15 0.43
ACGTcount: A:0.78, C:0.07, G:0.13, T:0.02
Consensus pattern (11 bp):
CAAAGAAAAAA
Found at i:194045 original size:42 final size:40
Alignment explanation
Indices: 193953--194054 Score: 102
Period size: 40 Copynumber: 2.5 Consensus size: 40
193943 GATGGCCTAT
*
193953 CGTCATCATCACGTAGGAACCGTGTCATCCACCAACCAGGC
1 CGTCATCATCACGTAGGAACCATGTCA-CCACCAACCAGGC
* *
193994 C-TCCTCATCACGTAGGAGCCATGTCA-CACCTGATAACCA-GC
1 CGTCATCATCACGTAGGAACCATGTCACCACC----AACCAGGC
*
194035 CGTCATCATCACGTAAGAAC
1 CGTCATCATCACGTAGGAAC
194055 TGTTTTATCA
Statistics
Matches: 50, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
38 4 0.08
40 22 0.44
41 4 0.08
42 20 0.40
ACGTcount: A:0.28, C:0.35, G:0.18, T:0.19
Consensus pattern (40 bp):
CGTCATCATCACGTAGGAACCATGTCACCACCAACCAGGC
Found at i:194115 original size:134 final size:135
Alignment explanation
Indices: 193804--194289 Score: 558
Period size: 134 Copynumber: 3.6 Consensus size: 135
193794 AAAACCAAAA
* * * * * * * * *
193804 TCCCTAAAAATGGCC-TATCATCATCATCGCGTAGGAACCGTGTTATCCCCCGACTAGACCTTCT
1 TCCCTAAAGATGGCCATAAC-TCTTCATCACGTAAGAACCGTGTCATCCACCGACCAGACCTCCT
* *
193868 CGTCACGTAGGAGCCATGTCACCCCTAGATAACCAGCCGTCCTTATCACGTAGGAACTGTGTTAT
65 CATCACGTAGGAGCCATGTCACCCCTAGATAACCAGCCGTCCTCATCACGTAGGAACTGTGTTAT
193933 CA----
130 CACCCT
* * * * *
193935 TCCCTAAAGATGGCC-TATCGTCATCATCACGTAGGAACCGTGTCATCCACCAACCAGGCCTCCT
1 TCCCTAAAGATGGCCATAAC-TCTTCATCACGTAAGAACCGTGTCATCCACCGACCAGACCTCCT
* * * *
193999 CATCACGTAGGAGCCATGTCACACCT-GATAACCAGCCGTCATCATCACGTAAGAACTGTTTTAT
65 CATCACGTAGGAGCCATGTCACCCCTAGATAACCAGCCGTCCTCATCACGTAGGAACTGTGTTAT
194063 CACCCT
130 CACCCT
* * *
194069 TCCCTAAAGATGGCCATAACTCTTCATCACGTAAGAGCCGTGTCATCCATCGACCATACCTCCTC
1 TCCCTAAAGATGGCCATAACTCTTCATCACGTAAGAACCGTGTCATCCACCGACCAGACCTCCTC
** * **
194134 ATCACGTAGGAGCTGTGTCACCCCTAGATAACCAACCGTCCTCATTGCGTAGGAA-TCGTGTTAT
66 ATCACGTAGGAGCCATGTCACCCCTAGATAACCAGCCGTCCTCATCACGTAGGAACT-GTGTTAT
194198 CACCCT
130 CACCCT
* * * * *
194204 T-CCTAAAGATGGCCAGAACTCTTCATCACGTATGAACCGTGTAATCCACCGACCAGATCTCTTC
1 TCCCTAAAGATGGCCATAACTCTTCATCACGTAAGAACCGTGTCATCCACCGACCAGACCTCCTC
** *
194268 ATCAAATAGGAGTCATGTCACC
66 ATCACGTAGGAGCCATGTCACC
194290 TTTAGACGAC
Statistics
Matches: 303, Mismatches: 45, Indels: 11
0.84 0.13 0.03
Matches are distributed among these distances:
130 36 0.12
131 79 0.26
134 148 0.49
135 40 0.13
ACGTcount: A:0.27, C:0.32, G:0.17, T:0.24
Consensus pattern (135 bp):
TCCCTAAAGATGGCCATAACTCTTCATCACGTAAGAACCGTGTCATCCACCGACCAGACCTCCTC
ATCACGTAGGAGCCATGTCACCCCTAGATAACCAGCCGTCCTCATCACGTAGGAACTGTGTTATC
ACCCT
Found at i:194974 original size:21 final size:21
Alignment explanation
Indices: 194948--195024 Score: 127
Period size: 21 Copynumber: 3.7 Consensus size: 21
194938 TCGGTAATTA
194948 GCGTTGTGATTTTGGAGAATC
1 GCGTTGTGATTTTGGAGAATC
194969 GCGTTGTGATTTTGGAGAATC
1 GCGTTGTGATTTTGGAGAATC
* *
194990 GCGTTGCGATTTTGGATAATC
1 GCGTTGTGATTTTGGAGAATC
*
195011 GCGTTGTGAATTTG
1 GCGTTGTGATTTTG
195025 AAAACTGTGT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 52 1.00
ACGTcount: A:0.18, C:0.10, G:0.32, T:0.39
Consensus pattern (21 bp):
GCGTTGTGATTTTGGAGAATC
Found at i:195306 original size:3 final size:3
Alignment explanation
Indices: 195298--195325 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
195288 TCTACAAAAA
195298 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
195326 TTAATATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:196905 original size:29 final size:29
Alignment explanation
Indices: 196828--196920 Score: 109
Period size: 28 Copynumber: 3.2 Consensus size: 29
196818 AATTTTTGTT
196828 TTTTTTCTATTTAAGTCCTTTAACTTTCTA
1 TTTTTTCTATTT-AGTCCTTTAACTTTCTA
* * *
196858 TTTTGTT-TTTTTA-ACCTTTAACATTCTA
1 TTTT-TTCTATTTAGTCCTTTAACTTTCTA
* *
196886 TTTTTTCAATTTAGTCCTTTAAGTTTCTA
1 TTTTTTCTATTTAGTCCTTTAACTTTCTA
196915 TTTTTT
1 TTTTTT
196921 TTTGGTCCTT
Statistics
Matches: 52, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
27 2 0.04
28 21 0.40
29 19 0.37
30 8 0.15
31 2 0.04
ACGTcount: A:0.19, C:0.14, G:0.04, T:0.62
Consensus pattern (29 bp):
TTTTTTCTATTTAGTCCTTTAACTTTCTA
Found at i:197813 original size:22 final size:22
Alignment explanation
Indices: 197788--197831 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
197778 AAATCAATTC
197788 TAAAA-TCACTAATTTTTCAAAA
1 TAAAAGTCA-TAATTTTTCAAAA
*
197810 TAAAAGTCATAATTTTTTAAAA
1 TAAAAGTCATAATTTTTCAAAA
197832 ATAATATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 17 0.85
23 3 0.15
ACGTcount: A:0.50, C:0.09, G:0.02, T:0.39
Consensus pattern (22 bp):
TAAAAGTCATAATTTTTCAAAA
Found at i:197826 original size:23 final size:22
Alignment explanation
Indices: 197788--197835 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 22
197778 AAATCAATTC
*
197788 TAAAATCACTAATTTTTCAAAA
1 TAAAATCACTAATTTTTAAAAA
197810 TAAAAGTCA-TAATTTTTTAAAAA
1 TAAAA-TCACTAA-TTTTTAAAAA
197833 TAA
1 TAA
197836 TATTTAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 8 0.35
23 15 0.65
ACGTcount: A:0.52, C:0.08, G:0.02, T:0.38
Consensus pattern (22 bp):
TAAAATCACTAATTTTTAAAAA
Found at i:206860 original size:3 final size:3
Alignment explanation
Indices: 206847--206908 Score: 85
Period size: 3 Copynumber: 21.3 Consensus size: 3
206837 GACTATAATG
*
206847 TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT TAT TAC TAT TAT TAAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT
206892 T-T TAT T-T TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT T
206909 TTCATAGTAC
Statistics
Matches: 53, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
2 6 0.11
3 44 0.83
4 3 0.06
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:210174 original size:13 final size:13
Alignment explanation
Indices: 210156--210180 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
210146 ACTGACATAA
210156 TTCTATTTTTTGT
1 TTCTATTTTTTGT
210169 TTCTATTTTTTG
1 TTCTATTTTTTG
210181 GTATTGTTGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.08, G:0.08, T:0.76
Consensus pattern (13 bp):
TTCTATTTTTTGT
Found at i:219339 original size:20 final size:21
Alignment explanation
Indices: 219301--219339 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
219291 CATCAATGTC
* *
219301 TTTGTTGAGGCCATGAAATCT
1 TTTGTCGAGACCATGAAATCT
219322 TTTGTCGAGACCAT-AAAT
1 TTTGTCGAGACCATGAAAT
219340 TCATGCAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (21 bp):
TTTGTCGAGACCATGAAATCT
Found at i:224515 original size:2 final size:2
Alignment explanation
Indices: 224508--224563 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
224498 TTAGTATTTA
224508 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
224550 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
224564 TATTTTATGC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:228212 original size:21 final size:21
Alignment explanation
Indices: 228186--228329 Score: 74
Period size: 21 Copynumber: 6.7 Consensus size: 21
228176 CATATAAAAT
*
228186 TGTCCCGAAGGACCACATAGA
1 TGTCCCGAAGGACCACATATA
** * *
228207 TGTCCCGAATTACCACGTAGAA
1 TGTCCCGAAGGACCACATA-TA
*
228229 TTGTCTC-ATAGGACCACATATA
1 -TGTCCCGA-AGGACCACATATA
* * * * *
228251 TATTCCAAATGACCAAATATA
1 TGTCCCGAAGGACCACATATA
* *
228272 TATCCCGAAGGACCCCATATA
1 TGTCCCGAAGGACCACATATA
* * * *
228293 TGTTCCAAAAGATCACATATATA
1 TGTCCCGAAGGA-C-CACATATA
*
228316 TATCCCGAAGGACC
1 TGTCCCGAAGGACC
228330 GTGTAGAACC
Statistics
Matches: 88, Mismatches: 29, Indels: 12
0.68 0.22 0.09
Matches are distributed among these distances:
21 55 0.62
22 6 0.07
23 27 0.31
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.24
Consensus pattern (21 bp):
TGTCCCGAAGGACCACATATA
Found at i:228291 original size:42 final size:44
Alignment explanation
Indices: 228238--228329 Score: 134
Period size: 42 Copynumber: 2.1 Consensus size: 44
228228 ATTGTCTCAT
*
228238 AGGACCACATATATATTCCAAATGA-C-CAAATATATATCCCGA
1 AGGACCACATATATATTCCAAAAGATCACAAATATATATCCCGA
* * *
228280 AGGACCCCATATATGTTCCAAAAGATCACATATATATATCCCGA
1 AGGACCACATATATATTCCAAAAGATCACAAATATATATCCCGA
228324 AGGACC
1 AGGACC
228330 GTGTAGAACC
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
42 22 0.50
43 1 0.02
44 21 0.48
ACGTcount: A:0.40, C:0.25, G:0.12, T:0.23
Consensus pattern (44 bp):
AGGACCACATATATATTCCAAAAGATCACAAATATATATCCCGA
Found at i:229648 original size:20 final size:20
Alignment explanation
Indices: 229623--229674 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
229613 GATTCAATCA
229623 GTATCGATACCT-ACAAGGTG
1 GTATCGATACCTGACAAGG-G
* *
229643 GTATCGATATCATGATAAGGG
1 GTATCGATA-CCTGACAAGGG
229664 GTATCGATACC
1 GTATCGATACC
229675 AAGCAATATC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 10 0.37
21 12 0.44
22 5 0.19
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (20 bp):
GTATCGATACCTGACAAGGG
Found at i:230227 original size:54 final size:54
Alignment explanation
Indices: 230169--230453 Score: 381
Period size: 54 Copynumber: 5.3 Consensus size: 54
230159 TTACCAAATA
* * *
230169 GGCACTAAGTTTGCATTTCACAGAATTCATCCTATGTGGATGAATAATCGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
* * *
230223 GGCACTAAGTGTGCATTTCACGGAATCCATCTTATGTGGATGAATAACCATTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
* * * * *
230277 GACACTAACTGTGCATTTGACGGAATTCATTCTATGTGGATGAATAACCATTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
* * * *
230331 AGCACTAAGTGTGCATTTCCCAGAATTCATTCTATGTGGATGAATAACCGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
* * * *
230385 GACACTAAGTGTGTATTTCACGGAATTCATCATATGTGGATGAATAACCGTTTT
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
* *
230439 GACACTATGTGTGCA
1 GGCACTAAGTGTGCA
230454 ACGTATGAAA
Statistics
Matches: 202, Mismatches: 29, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 202 1.00
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (54 bp):
GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
Found at i:233046 original size:60 final size:59
Alignment explanation
Indices: 232954--233110 Score: 167
Period size: 60 Copynumber: 2.6 Consensus size: 59
232944 AGTTTGGGAA
* * * * *
232954 GAAATTGAAATGTTCAAAAAGCTTGGGGACTAATTTAGAATGA-ATGTCATAGTGTAGGGTT
1 GAAATTGAAATGTT-ATAAAG-TTTGGGACTAATTTAGAAAGATAT-TCATAGTGTAAGGAT
*
233015 GAAATT-AAATTGTTATAAAGTTTGTGGACTAATTTAGAAAGATATTCATAGTTTAAGGAT
1 GAAATTGAAA-TGTTATAAAGTTTG-GGACTAATTTAGAAAGATATTCATAGTGTAAGGAT
*
233075 GAAATTGAAATGTT-TAAAAGTTTAGAGACTAATTTA
1 GAAATTGAAATGTTAT-AAAGTTT-GGGACTAATTTA
233111 AAATTAAGAT
Statistics
Matches: 83, Mismatches: 7, Indels: 13
0.81 0.07 0.13
Matches are distributed among these distances:
59 4 0.05
60 63 0.76
61 16 0.19
ACGTcount: A:0.39, C:0.04, G:0.21, T:0.35
Consensus pattern (59 bp):
GAAATTGAAATGTTATAAAGTTTGGGACTAATTTAGAAAGATATTCATAGTGTAAGGAT
Found at i:233229 original size:15 final size:15
Alignment explanation
Indices: 233153--233234 Score: 51
Period size: 15 Copynumber: 5.5 Consensus size: 15
233143 TAATTAACTC
*
233153 ATTT-AATATCAATT
1 ATTTAAATATAAATT
* *
233167 ATTTAAACATAAATG
1 ATTTAAATATAAATT
**
233182 ATTTAACCACT-AATT
1 ATTTAAATA-TAAATT
* * *
233197 GTTTACAATATTATTT
1 ATTTA-AATATAAATT
233213 ATTTAAATATAAATT
1 ATTTAAATATAAATT
*
233228 ATATAAA
1 ATTTAAA
233235 AGAGTTCATT
Statistics
Matches: 51, Mismatches: 13, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
14 4 0.08
15 37 0.73
16 10 0.20
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.44
Consensus pattern (15 bp):
ATTTAAATATAAATT
Found at i:234144 original size:64 final size:66
Alignment explanation
Indices: 234008--234144 Score: 197
Period size: 65 Copynumber: 2.1 Consensus size: 66
233998 GTATGCTAAT
* *
234008 TACATTCGATGTTTCAAAAATAGCCAAGAGTGCATCGATGCATGGTCTGTGCATCAGTACACAAA
1 TACATTCGATGTTTCAAAAATAGCCAAGAGTGCATCAATGCATGGTCAGTGCATCAGTACACAAA
234073 A
66 A
* ** *
234074 TACATTCGATGTTTC-AATATATTCAAGAGTGCATCAATGCATGG-CAGTGCATCGGTACACAAA
1 TACATTCGATGTTTCAAAAATAGCCAAGAGTGCATCAATGCATGGTCAGTGCATCAGTACACAAA
234137 A
66 A
*
234138 TGCATTC
1 TACATTC
234145 AAAATAGGGT
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
64 24 0.38
65 25 0.39
66 15 0.23
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.28
Consensus pattern (66 bp):
TACATTCGATGTTTCAAAAATAGCCAAGAGTGCATCAATGCATGGTCAGTGCATCAGTACACAAA
A
Found at i:236674 original size:23 final size:21
Alignment explanation
Indices: 236642--236720 Score: 61
Period size: 23 Copynumber: 3.6 Consensus size: 21
236632 CAACATAATA
*
236642 CATCGATGCACGTTCAAGGAATG
1 CATCGGTGCAC-TTCAAGG-ATG
*
236665 CATCGGTGCATCTTC-ATGATG
1 CATCGGTGCA-CTTCAAGGATG
* *
236686 TATCGGTACACATTCAAGGGATG
1 CATCGGTGCAC-TTCAA-GGATG
*
236709 CATCGGTACACT
1 CATCGGTGCACT
236721 GTCATAGTGT
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
20 1 0.02
21 14 0.30
22 4 0.09
23 26 0.57
24 1 0.02
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.27
Consensus pattern (21 bp):
CATCGGTGCACTTCAAGGATG
Found at i:240754 original size:117 final size:117
Alignment explanation
Indices: 240534--240754 Score: 311
Period size: 117 Copynumber: 1.9 Consensus size: 117
240524 CTTTCAAATA
* *
240534 GAAATTTTCTTTTTCAATACTTTCAAATTTCATTTTTGAAAGCTCTAAATCCTTCTTCAATATTT
1 GAAAATTTCTTTTTCAATACTTTCAAATTTCATTTTTGAAAGCTCTAAATCCTTCTTCAACATTT
*
240599 CATTTTGATTTTCAAAATCCATTTTAGTTTCTAGAAGAAGTTTGTTTAATTT
66 CATTTTGATTTTCAAAATCCATTTTAGTTTCTAAAAGAAGTTTGTTTAATTT
* * * *
240651 GAAAATTTCTTTTTCAA-AGTTTTCATATTTCATTTTTGAAAGCTCTAACTCCTTTTTCAACATT
1 GAAAATTTCTTTTTCAATA-CTTTCAAATTTCATTTTTGAAAGCTCTAAATCCTTCTTCAACATT
* * **
240715 TCATTTTGATTTTCCAAGTCTGTTTTAGCTTTC-AAAAGAA
65 TCATTTTGATTTTCAAAATCCATTTTAG-TTTCTAAAAGAA
240755 TATCATTTTT
Statistics
Matches: 91, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
116 1 0.01
117 86 0.95
118 4 0.04
ACGTcount: A:0.29, C:0.15, G:0.08, T:0.48
Consensus pattern (117 bp):
GAAAATTTCTTTTTCAATACTTTCAAATTTCATTTTTGAAAGCTCTAAATCCTTCTTCAACATTT
CATTTTGATTTTCAAAATCCATTTTAGTTTCTAAAAGAAGTTTGTTTAATTT
Found at i:243230 original size:4 final size:4
Alignment explanation
Indices: 243221--246858 Score: 5128
Period size: 4 Copynumber: 945.2 Consensus size: 4
243211 TAATTACAAA
243221 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
243269 ATGT ATGT ATGT ATGT ATGT ATGT ATGT A--T ATGT ATGT A-GT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
243314 AT-T ATGT ATGT ATGT ATGT A-GT ATGT ATGT ATGT CTGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
243360 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG-
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
243407 ATGT A-GT ATGT ATGT ATGT ATTT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
243454 AT-T ATGT AATGT ATGT AT-T ATGT ATGT ATGT ATGT ATGT ATGT A--T
1 ATGT ATGT -ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
243499 ATGT ATGT TTGT ATGT ATGT ATGT -TGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* *
243546 ATGT ATTAT ATGT AGGT ATGT ATGT -TGT ATGT AT-T ATGT ATGT ATGT
1 ATGT A-TGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
243593 AT-T ATGT ATGT ATGT ATG- ATGT ATGT ATGT A-GT ATGT A-GT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
243637 AT-T ATGT ATGT ATG- -TGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
243682 ATGGT ATGT ATGT ATGT ATGT TTGT AT-T ATGT ATGT ATGT ATGT ATGT
1 AT-GT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * *
243730 ATGT ATG- ATGG ATGT ATTT GTAT ATGT ATGT ATGT ATGT AT-T ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
243776 ATGT ATGT ATGT ATGT ATGT ATGT -TGT ATGT ATG- -TGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
243821 ATGT A--T ATGT ATGT ATGT ATGT A--T ATGT ATGT ATGT ATGT CTGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
243865 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
243913 ATGT ATGT ATGT ATGT ATGT A--T ATGT AT-T ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
243958 ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT-T A-GT ATGTT ATGT ATTT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG-T ATGT ATGT
*
244005 ATGT ATGT ATGT ATGT ATTT ATGT AT-T ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
244052 ATGT ATGT AATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A-GT ATGT
1 ATGT ATGT -ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
244100 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATTGT ATGT ATGT AT-T
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A-TGT ATGT ATGT ATGT
244148 ATGT ATGT ATGT ATG- ATGT ATGT ATGT A-GT AT-T ATGT ATGT ATGGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT-GT
244194 ATGT ATGT ATGT ATGT ATGT ATGT AT-T AT-T A-GT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
244239 ATGT ATGT AT-T ATGT AATGT ATGT ATGT ATGT ATGT ATGT A--T ATGT
1 ATGT ATGT ATGT ATGT -ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * *
244285 ATGT A--T ATGT CTGT ATGT AT-T -TTT ATGT ATGT ATGT -T-T AGGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
244327 ATGT ATGT ATGT ATGT ATGT ATGT ATGT A--T ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
244373 A-GT AT-T ATGT ATGT A--T ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
244417 ATGT A--T ATGT ATGT ATGT ATGT A--T ATGT ATGT ATGT GTAGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT-GT ATGT
* *
244462 ATGT ATGT ATCT ATGT ATGGT ATGT ATGT -TGT ATGT ATGT ATGT AGGT
1 ATGT ATGT ATGT ATGT AT-GT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
244510 ATGT ATGT ATGT ATGT AGGT ATGT -TGT ATGT ATGT AT-T ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
244556 ATGT ATGT A-GT A-GT ATGT ATGT AT-T ATGT ATGT AT-T AT-T ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
244599 ATGT ATGT ATGT TTGT ATGT ATGT ATGT ATGT AT-T ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
244646 ATGT ATGT ATGT ATGT AT-T ATGGT ATGT AT-T ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT AT-GT ATGT ATGT ATGT ATGT ATGT ATGT
*
244693 A-GT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AGGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
244740 ATGT AT-T ATGT ATGT A-GT ATGT A--T ATGT ATGT ATGT A-GT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
244783 ATGT ATGT -TGT ATGG AT-T AATGT ATGT ATGT ATG- ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT -ATGT ATGT ATGT ATGT ATGT ATGT ATGT
244829 ATGT ATGT A-GT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* *
244876 ATGT ATGT A-GT ATGT ATGT -T-T GTGT ATGT ATGT GTAGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT-GT ATGT ATGT
244922 AT-T ATGT ATGT ATGT ATGT ATGT ATGT A-GTT ATGT ATGT ATGT ATGGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG-T ATGT ATGT ATGT AT-GT
*
244970 ATGT ATG- -TGT ATGGT CTGT ATGT ATGT ATGT AT-T AT-T AATGT ATGT
1 ATGT ATGT ATGT AT-GT ATGT ATGT ATGT ATGT ATGT ATGT -ATGT ATGT
245016 ATGT ATGT ATGT ATGT -TGT AT-T ATGT ATGT ATGT ATGT ATG- ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
245061 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG- ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* *
245108 ATGT ATGT ATTT ATGT ATTGT AT-T ATGT ATTT AGTGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT A-TGT ATGT ATGT ATGT A-TGT ATGT ATGT ATGT
245157 ATGT ATGT ATTGT A-GT ATGT ATGT AT-T ATGT ATG- ATGT ATGT A-GT
1 ATGT ATGT A-TGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
245202 ATGT AT-T ATGT ATGT ATG- -TGT ATGT ATGTT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG-T ATGT ATGT ATGT ATGT
245248 ATGT ATGT ATGT ATGT ATGT ATGT ATGT -TGT A--T ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
245293 ATGT AT-T ATGT ATGT ATGT ATGT ATGT ATGT CTGT ATGT ATGT A--T
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
245338 ATGT -TGT AATGT -TGT ATGT ATGT -TGT ATGT -TGT ATGT ATGT ATGT
1 ATGT ATGT -ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
245383 ATGT ATGT ATGT A-GT ATGT ATGT ATTT ATGT A--T ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
245428 ATGT ATG- -TGT ATGT ATGT ATGT ATGT A--T ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
245472 CTGT ATGT ATGT ATGT ATGT A-GT ATGT ATGT ATGT ATGT ATGTT ACTGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG-T A-TGT
245521 ATGT ATGT ATGT ATGT A--T ATGT A-GT ATGT ATGT AT-T ATTGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A-TGT ATGT
* * *
245566 AATGT ATGT ATGT GTAT CTGT ATGT ATGT ATGT ATGT AT-T ATGT ATGT
1 -ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* *
245614 ATGT ATGT ATGT ATGT ATGT ATGT ATTT ATGT ATGT ATGTT TTGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG-T ATGT ATGT
245663 ATGT ATGT ATG- ATGT ATGT ATGT ATGT A--T ATGT ATTGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A-TGT ATGT ATGT
*
245709 ATGT ATGT ATGT ATGT CT-T -TGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
245755 ATGT ATGT ATGT ATGT ATGT ATGT ATGT A--T ATGT ATGT -TGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
245800 ATGT ATGT TTGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT -TGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
245847 ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT-T -TGT ATGT ATGT ATGGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT-GT
245894 ATGT ATGT ATGT AATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT -ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
245943 ATG- -TGT ATGT AT-T A-GT ATGT ATTGT ATGT ATG- -TGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT A-TGT ATGT ATGT ATGT ATGT ATGT
* * *
245986 ATGTCT ATGT ATGT ATGT ATGT ATGTCT ATGT ATGT ATTT ATGT GTCT
1 ATG--T ATGT ATGT ATGT ATGT ATG--T ATGT ATGT ATGT ATGT ATGT
*
246034 GTGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
246082 ATGT ATGT ATGT ATGT ATGT ATG- -TGT ATGT -TGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
246127 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGTT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG-T
*
246176 ATGT ATGT ATGTT ATGT -TGT ATGT ATGT ATGT AGGT -TGT A-GT ATGT
1 ATGT ATGT ATG-T ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
246222 ATGT ATGT ATGT ATG- -TGT ATGT ATGT ATGT -TGT ATGT A-GT ATG-
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
246265 -TGT ATGT ATGT ATGT ATGT ATGT ATGT CTGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
246312 ATGT -TGT ATGT ATGT ATGT AGGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
246359 -TGT ATGT ATGT ATGT ATGT ATGT A-GT ATGT ATGT ATG- ATAGT -TGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT-GT ATGT
*
246404 ATGT ATGT ATGT ATGT TTGT ATGT ATGT ATGT ATGT ATGT AT-T ATG-
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* *
246450 ATGT ATGT ATGT ATGT ATGT ATGT ATGT GTAT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
246498 TTGT A--T ATGGAT ATGT A--T ATGT ATGT ATGT A-GT -TGT A-GT ATGT
1 ATGT ATGT AT-G-T ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
246541 A-GT -TGT ATG- ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
246586 ATGT ATGT ATGT ATGT ATGT ATGT ATG- -TGT ATGT CTGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
246632 ATGT AT-T ATGT ATGT ATGT AGGT ATGT ATGT A-GT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
246678 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A-GT ATGT AT-T
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
246724 ATGT ATGT ATGT ATTGT AT-T ATGT ATGT ATGT ATGT -TGT ATGT ATGT
1 ATGT ATGT ATGT A-TGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
246771 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
246819 ATGT ATGT ATGT ATG- -TGT ATGT ATG- ATGAT ATGT AATGT A
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG-T ATGT -ATGT A
246859 ATGGATATGG
Statistics
Matches: 3315, Mismatches: 94, Indels: 450
0.86 0.02 0.12
Matches are distributed among these distances:
2 71 0.02
3 318 0.10
4 2792 0.84
5 121 0.04
6 13 0.00
ACGTcount: A:0.25, C:0.00, G:0.24, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:246893 original size:8 final size:8
Alignment explanation
Indices: 246880--246906 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
246870 TATGTCTTGG
246880 ATGAAATA
1 ATGAAATA
246888 ATGAAATA
1 ATGAAATA
246896 ATGAAATA
1 ATGAAATA
246904 ATG
1 ATG
246907 CCAGCAAGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.15, T:0.26
Consensus pattern (8 bp):
ATGAAATA
Found at i:249173 original size:4 final size:4
Alignment explanation
Indices: 249156--249216 Score: 58
Period size: 4 Copynumber: 16.0 Consensus size: 4
249146 AATTATAGTC
* *
249156 AATA AATA AGTA AATA AATA AATA TAT- AATA AA-A AATA AATA AA-A
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA
*
249201 ATTTA AA-A AATA AATA
1 A-ATA AATA AATA AATA
249217 TCATCATTAA
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
3 10 0.22
4 34 0.74
5 2 0.04
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (4 bp):
AATA
Found at i:249195 original size:22 final size:19
Alignment explanation
Indices: 249167--249216 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 19
249157 ATAAATAAGT
249167 AAATAAATAAATATATAATAAA
1 AAATAAATAAA-A-AT-ATAAA
*
249189 AAATAAATAAAAATTTAAA
1 AAATAAATAAAAATATAAA
249208 AAATAAATA
1 AAATAAATA
249217 TCATCATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 13 0.48
20 2 0.07
21 1 0.04
22 11 0.41
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (19 bp):
AAATAAATAAAAATATAAA
Found at i:257168 original size:17 final size:17
Alignment explanation
Indices: 257135--257179 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
257125 TATTCAAATA
*
257135 GTTTTTT-TTCTTCTGT
1 GTTTTTTCTTTTTCTGT
*
257151 GTTTTTTCTTTTTTTGT
1 GTTTTTTCTTTTTCTGT
*
257168 GTTTTTACTTTT
1 GTTTTTTCTTTT
257180 AGTTTCGAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
16 7 0.28
17 18 0.72
ACGTcount: A:0.02, C:0.09, G:0.11, T:0.78
Consensus pattern (17 bp):
GTTTTTTCTTTTTCTGT
Found at i:258273 original size:17 final size:16
Alignment explanation
Indices: 258251--258282 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
258241 TGTTCTTTTC
258251 TTTTTTAATTTATTTAT
1 TTTTTTAA-TTATTTAT
258268 TTTTTTAATTATTTA
1 TTTTTTAATTATTTA
258283 GGTTTATTAA
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:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTTTTAATTATTTAT
Found at i:260128 original size:21 final size:21
Alignment explanation
Indices: 260086--260129 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
260076 TTTACATCTG
260086 ATTCTTTAAATTTTTGCTAATT
1 ATTCTTTAAATTTTTGC-AATT
*
260108 ATTCTTTGAATTTTATG-AATT
1 ATTCTTTAAATTTT-TGCAATT
260129 A
1 A
260130 ATCTAATGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 13 0.65
23 2 0.10
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.57
Consensus pattern (21 bp):
ATTCTTTAAATTTTTGCAATT
Found at i:267954 original size:12 final size:12
Alignment explanation
Indices: 267935--267994 Score: 61
Period size: 12 Copynumber: 4.8 Consensus size: 12
267925 TACGCCTAAT
267935 AAAG-AAAGAAA
1 AAAGAAAAGAAA
267946 AAAGAAAAGAAGA
1 AAAGAAAAGAA-A
267959 AAAGAAGAAAGAAA
1 AAAG-A-AAAGAAA
267973 TAAAG-AAAGAAAA
1 -AAAGAAAAG-AAA
267986 AAAGAAAAG
1 AAAGAAAAG
267995 GAGATGAGAG
Statistics
Matches: 42, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
11 4 0.10
12 14 0.33
13 12 0.29
14 2 0.05
15 10 0.24
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (12 bp):
AAAGAAAAGAAA
Found at i:267960 original size:8 final size:8
Alignment explanation
Indices: 267935--267994 Score: 63
Period size: 8 Copynumber: 7.5 Consensus size: 8
267925 TACGCCTAAT
267935 AAAGAAAGA
1 AAAG-AAGA
267944 AAA-AAGA
1 AAAGAAGA
267951 AAAGAAGA
1 AAAGAAGA
267959 AAAGAAG-
1 AAAGAAGA
267966 AAAGAA-A
1 AAAGAAGA
267973 TAAAGAAAGA
1 -AAAG-AAGA
*
267983 AAAAAAGA
1 AAAGAAGA
267991 AAAG
1 AAAG
267995 GAGATGAGAG
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
7 13 0.30
8 22 0.50
9 8 0.18
10 1 0.02
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (8 bp):
AAAGAAGA
Found at i:267964 original size:20 final size:19
Alignment explanation
Indices: 267936--267994 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 19
267926 ACGCCTAATA
267936 AAGAAAGAAAAAAGAAAAG
1 AAGAAAGAAAAAAGAAAAG
*
267955 AAGAAAAGAAGAAAGAAATA-
1 AAG-AAAGAAAAAAGAAA-AG
267975 AAGAAAGAAAAAAAGAAAAG
1 AAGAAAG-AAAAAAGAAAAG
267995 GAGATGAGAG
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
19 8 0.24
20 25 0.74
21 1 0.03
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (19 bp):
AAGAAAGAAAAAAGAAAAG
Found at i:267970 original size:27 final size:27
Alignment explanation
Indices: 267936--267991 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
267926 ACGCCTAATA
*
267936 AAGAAAGAAA-AAAGAAAAGAAGAAAAG
1 AAGAAAGAAATAAAG-AAAGAAAAAAAG
267963 AAGAAAGAAATAAAGAAAGAAAAAAAG
1 AAGAAAGAAATAAAGAAAGAAAAAAAG
267990 AA
1 AA
267992 AAGGAGATGA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 23 0.85
28 4 0.15
ACGTcount: A:0.79, C:0.00, G:0.20, T:0.02
Consensus pattern (27 bp):
AAGAAAGAAATAAAGAAAGAAAAAAAG
Found at i:269184 original size:136 final size:133
Alignment explanation
Indices: 268934--269214 Score: 375
Period size: 136 Copynumber: 2.1 Consensus size: 133
268924 AATATGAATC
* * * *
268934 GATCAACATTTCCAATGGAGAGTTCATAATGAGAATAACTTATCCGACAGAAGTAGAAGTTCATA
1 GATCAACATTTCCAATGGAGACTTCATAATGAGAAGAACTCATCCGACAGAAGAAGAAGTTCATA
* * *
268999 ATGAGAAGAACTTGTTCGACCTATTGCTCGATTCATAACACTTAGAATCAGCAACACCTCGCTTG
66 AAGAGAAGAACTTGTTCGACCTATTGCTCGATTCAAAACACTTAGAATCAACAACACCTCGCTTG
269064 AGG
131 AGG
** * * *
269067 GATTGACATTTCCAATGGAGACTTCATAATGATAAGAGCTCCTCCGACAGAGGGAGAAGAAGTTC
1 GATCAACATTTCCAATGGAGACTTCATAATGAGAAGAACTCATCCGACAGA---AGAAGAAGTTC
* ***
269132 ATAAAGAGAAGAACTTGTTCGACCTATTGCTCGATTCAAAACATTTTA-AATCAATTGCACCTCG
63 ATAAAGAGAAGAACTTGTTCGACCTATTGCTCGATTCAAAACA-CTTAGAATCAACAACACCTCG
269196 CTTGAGG
127 CTTGAGG
269203 GATCAACATTTC
1 GATCAACATTTC
269215 TAGTGGGAAG
Statistics
Matches: 126, Mismatches: 18, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
133 43 0.34
136 80 0.63
137 3 0.02
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.27
Consensus pattern (133 bp):
GATCAACATTTCCAATGGAGACTTCATAATGAGAAGAACTCATCCGACAGAAGAAGAAGTTCATA
AAGAGAAGAACTTGTTCGACCTATTGCTCGATTCAAAACACTTAGAATCAACAACACCTCGCTTG
AGG
Found at i:270891 original size:38 final size:36
Alignment explanation
Indices: 270840--270918 Score: 95
Period size: 38 Copynumber: 2.1 Consensus size: 36
270830 AATTAAGTCC
* *
270840 TTTTATTTATGTTTATGTTTATTTTTTATTTTATATT
1 TTTTTTTTATGTTTATGTTTATTTATTATTTTA-ATT
* * *
270877 GTTTTTTTTCTGTTTTTTTTTATTTATTATTTTAATT
1 -TTTTTTTTATGTTTATGTTTATTTATTATTTTAATT
270914 TTTTT
1 TTTTT
270919 AGGTTTATTA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
36 5 0.14
37 3 0.08
38 28 0.78
ACGTcount: A:0.15, C:0.01, G:0.05, T:0.78
Consensus pattern (36 bp):
TTTTTTTTATGTTTATGTTTATTTATTATTTTAATT
Found at i:270904 original size:28 final size:28
Alignment explanation
Indices: 270840--270909 Score: 67
Period size: 28 Copynumber: 2.6 Consensus size: 28
270830 AATTAAGTCC
270840 TTTTATTTA-TGTTTATGTTTATTTTTTA
1 TTTTATTTATTGTTT-TGTTTATTTTTTA
* *
270868 TTTTA--TATTGTTTTTTTTCTGTTTTT-
1 TTTTATTTATTGTTTTGTTTAT-TTTTTA
*
270894 TTTTATTTATTATTTT
1 TTTTATTTATTGTTTT
270910 AATTTTTTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
26 12 0.34
27 10 0.29
28 13 0.37
ACGTcount: A:0.14, C:0.01, G:0.06, T:0.79
Consensus pattern (28 bp):
TTTTATTTATTGTTTTGTTTATTTTTTA
Found at i:276127 original size:18 final size:16
Alignment explanation
Indices: 276098--276144 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 16
276088 AAACTTAATT
276098 AAAATA-AAAAAAGTA
1 AAAATAGAAAAAAGTA
276113 CAATAATAGAAAAAAGTA
1 -AA-AATAGAAAAAAGTA
276131 AAAATAGTAAAAAA
1 AAAATAG-AAAAAA
276145 AATAAATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
16 7 0.25
17 12 0.43
18 9 0.32
ACGTcount: A:0.74, C:0.02, G:0.09, T:0.15
Consensus pattern (16 bp):
AAAATAGAAAAAAGTA
Found at i:276145 original size:18 final size:19
Alignment explanation
Indices: 276102--276153 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 19
276092 TTAATTAAAA
276102 TAAAAAAAGTACAATAATAG
1 TAAAAAAAGTA-AATAATAG
276122 --AAAAAAGTAAA-AATAG
1 TAAAAAAAGTAAATAATAG
*
276138 TAAAAAAAATAAATAA
1 TAAAAAAAGTAAATAA
276154 AAAACTTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
16 5 0.18
17 2 0.07
18 19 0.68
19 2 0.07
ACGTcount: A:0.73, C:0.02, G:0.08, T:0.17
Consensus pattern (19 bp):
TAAAAAAAGTAAATAATAG
Found at i:279712 original size:59 final size:59
Alignment explanation
Indices: 279587--279699 Score: 163
Period size: 59 Copynumber: 1.9 Consensus size: 59
279577 CGAGCCATAG
** *
279587 GAAATGTTAACCCCTCTGGTAGGGCATTGCTGATTCGAAATGTCATGAATCGAGCAAAT
1 GAAATGTTAACCCCTCTGGTAGGGCATCACTGATTCGAAATGACATGAATCGAGCAAAT
* * * *
279646 GAAATGTTAACCCCTCTGGTGGGGCGTCACTGATTTGAAATGACGTGAATCGAG
1 GAAATGTTAACCCCTCTGGTAGGGCATCACTGATTCGAAATGACATGAATCGAG
279700 TGAAGAAAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
59 47 1.00
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.27
Consensus pattern (59 bp):
GAAATGTTAACCCCTCTGGTAGGGCATCACTGATTCGAAATGACATGAATCGAGCAAAT
Found at i:279846 original size:42 final size:41
Alignment explanation
Indices: 279751--279846 Score: 122
Period size: 42 Copynumber: 2.3 Consensus size: 41
279741 ATGGTCGAAA
*
279751 GACTTATCATCTTGCTCGAAAGACTTATAGATGACCTGAAG
1 GACTTATCATCATGCTCGAAAGACTTATAGATGACCTGAAG
* * *
279792 GATTTAAACATCATGCTCGAAAGACTTACT-GATGGCCTGAAG
1 GACTT-ATCATCATGCTCGAAAGACTTA-TAGATGACCTGAAG
279834 GACTTACTCATCA
1 GACTTA-TCATCA
279847 AGAAACCTTT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
41 5 0.11
42 40 0.87
43 1 0.02
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (41 bp):
GACTTATCATCATGCTCGAAAGACTTATAGATGACCTGAAG
Found at i:279869 original size:15 final size:15
Alignment explanation
Indices: 279849--279880 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
279839 ACTCATCAAG
279849 AAACCTTTAAAAATC
1 AAACCTTTAAAAATC
279864 AAACCTTTAAAAATC
1 AAACCTTTAAAAATC
279879 AA
1 AA
279881 GCTTAGTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.19, G:0.00, T:0.25
Consensus pattern (15 bp):
AAACCTTTAAAAATC
Found at i:280147 original size:20 final size:20
Alignment explanation
Indices: 280117--280169 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
280107 ACATCATGCT
*
280117 CGAAAGACTTACTAGTGGCC
1 CGAAGGACTTACTAGTGGCC
*
280137 CGATGGACTTACTAGTGGCC
1 CGAAGGACTTACTAGTGGCC
280157 CGAAGGACTTACT
1 CGAAGGACTTACT
280170 CATCAAGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (20 bp):
CGAAGGACTTACTAGTGGCC
Found at i:280467 original size:42 final size:41
Alignment explanation
Indices: 280354--280467 Score: 140
Period size: 42 Copynumber: 2.7 Consensus size: 41
280344 TCCTGAAGGT
* *
280354 CTTATGGATGGCCCGAAGGACTTATCATCTTGCTTAAAAGA
1 CTTATAGATGGCCCGAAGGACTTATCATCATGCTTAAAAGA
* * * *
280395 CTTATAGATGACCCGAAGGATTTAAGCATCATGCTTGAAAGA
1 CTTATAGATGGCCCGAAGGACTT-ATCATCATGCTTAAAAGA
280437 CTTACT-GATGGCCCGAAGGACTTACTCATCA
1 CTTA-TAGATGGCCCGAAGGACTTA-TCATCA
280468 AGAAACCCTT
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
41 21 0.34
42 39 0.64
43 1 0.02
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (41 bp):
CTTATAGATGGCCCGAAGGACTTATCATCATGCTTAAAAGA
Found at i:280678 original size:293 final size:293
Alignment explanation
Indices: 280142--280929 Score: 1231
Period size: 293 Copynumber: 2.7 Consensus size: 293
280132 TGGCCCGATG
* *
280142 GACTTACT-AGTGGCCCGAAGGACTTACTCATCAAGAAACCCTTAAAAATCAAGCTTAGTTTCTT
1 GACTTACTGA-TGGCCCGAAGGACTTACTCATCAAGAAACCCTTGAAAATCAAGCTTAATTTCTT
* * *
280206 AAAATCTTTCGTTTTCAGTTGTCATCAAGGAACCCTTAAAAATTAGGCTTAGTTTCCATTAAAAA
65 AAAATCTTTCATTTTCAGTTGTCATCAAGGAACCCTTAAAAATTAGGCTTAGCTTCCTTTAAAAA
* *
280271 TTCTTTGGAGATAATGATCAAGAAACCCCAGAAAATCAGGCTTAGTTTCTAAAAACTCATTTGAA
130 TTCTTTGGAGATAATCATCAAGAAACCCCTGAAAATCAGGCTTAGTTTCTAAAAACTCATTTGAA
* * * * *
280336 AACATCATTCCTGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTTAAAAGACTTATA
195 AACATCATGCCCGAAGGTCTTATGGATGGCCCGAAGAACTTACCATCTTGCTCAAAAGACTTATA
*
280401 GATGACCCGAAGGATTTAAGCATCATGCTTGAAA
260 GATGACCCGAAGGATTTAAGCATCATGCTCGAAA
*
280435 GACTTACTGATGGCCCGAAGGACTTACTCATCAAGAAACCCTTGAAAATCAAGCTTACTTTCTTA
1 GACTTACTGATGGCCCGAAGGACTTACTCATCAAGAAACCCTTGAAAATCAAGCTTAATTTCTTA
*
280500 AAATCTTTCATTTTCAGTTGTCATCAAGGAACCCTTAAAAATTAGGCTTAGCTTCCTTTAAAAAA
66 AAATCTTTCATTTTCAGTTGTCATCAAGGAACCCTTAAAAATTAGGCTTAGCTTCCTTTAAAAAT
* * * *
280565 TATTTGGACATAATCATCATGAAACCCCTGAAAATCAGGCTTAGTTTCTAAAAACTCATTTAAAA
131 TCTTTGGAGATAATCATCAAGAAACCCCTGAAAATCAGGCTTAGTTTCTAAAAACTCATTTGAAA
* * *
280630 ACATCCTGCCCGAAGGTCTTATGGATGGCCCGAAGAACTTACCATCTTGCTCGAAAGTCTTATAG
196 ACATCATGCCCGAAGGTCTTATGGATGGCCCGAAGAACTTACCATCTTGCTCAAAAGACTTATAG
280695 ATGACCCGAAGGATTTAAGCATCATGCTCGAAA
261 ATGACCCGAAGGATTTAAGCATCATGCTCGAAA
* * * * *
280728 GACTTACCGATGACCCGAAGGACTTACTCATAAAAAAACCCTTGAAAATCAAGCTTAATTTGTTA
1 GACTTACTGATGGCCCGAAGGACTTACTCATCAAGAAACCCTTGAAAATCAAGCTTAATTTCTTA
*
280793 AAAT-TATTCATATTT-AGTTGTCATCAAGGAACCCCTAAAAATTAGGCTTAGCTTCCTTTAAAA
66 AAATCT-TTCAT-TTTCAGTTGTCATCAAGGAACCCTTAAAAATTAGGCTTAGCTTCCTTTAAAA
* * **
280856 ATTCTTTGGAGATAATCATTAAGAAACCCCTAAAAATCATACTTAGTTTCTAAAAAACTCATTTG
129 ATTCTTTGGAGATAATCATCAAGAAACCCCTGAAAATCAGGCTTAGTTTCT-AAAAACTCATTTG
280921 AAAACATCA
193 AAAACATCA
280930 AGAAACCCCT
Statistics
Matches: 453, Mismatches: 38, Indels: 7
0.91 0.08 0.01
Matches are distributed among these distances:
292 1 0.00
293 428 0.94
294 24 0.05
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.30
Consensus pattern (293 bp):
GACTTACTGATGGCCCGAAGGACTTACTCATCAAGAAACCCTTGAAAATCAAGCTTAATTTCTTA
AAATCTTTCATTTTCAGTTGTCATCAAGGAACCCTTAAAAATTAGGCTTAGCTTCCTTTAAAAAT
TCTTTGGAGATAATCATCAAGAAACCCCTGAAAATCAGGCTTAGTTTCTAAAAACTCATTTGAAA
ACATCATGCCCGAAGGTCTTATGGATGGCCCGAAGAACTTACCATCTTGCTCAAAAGACTTATAG
ATGACCCGAAGGATTTAAGCATCATGCTCGAAA
Found at i:280703 original size:41 final size:41
Alignment explanation
Indices: 280631--280754 Score: 131
Period size: 42 Copynumber: 3.0 Consensus size: 41
280621 CATTTAAAAA
* * * * * *
280631 CATCCTGCCCGAAGGTCTTATGGATGGCCCGAAGAACTTAC
1 CATCATGCTCGAAAGTCTTATAGATGACCCGAAGGACTTAC
* * *
280672 CATCTTGCTCGAAAGTCTTATAGATGACCCGAAGGATTTAAG
1 CATCATGCTCGAAAGTCTTATAGATGACCCGAAGGACTT-AC
* **
280714 CATCATGCTCGAAAGACTTACCGATGACCCGAAGGACTTAC
1 CATCATGCTCGAAAGTCTTATAGATGACCCGAAGGACTTAC
280755 TCATAAAAAA
Statistics
Matches: 68, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
41 33 0.49
42 35 0.51
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.23
Consensus pattern (41 bp):
CATCATGCTCGAAAGTCTTATAGATGACCCGAAGGACTTAC
Found at i:280964 original size:111 final size:112
Alignment explanation
Indices: 280814--281041 Score: 305
Period size: 111 Copynumber: 2.0 Consensus size: 112
280804 ATTTAGTTGT
* * * * *
280814 CATCAAGGAACCCCTAAAAATTAGGCTTAGCTTCCTTTAAAAATTCTTTGGAGATAATCATTAAG
1 CATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCCTTTAAAAATTCATTGAAAATAATCACTAAG
*
280879 AAACCCCTAAAAATCATACTTAGTTTC-TAAAAAACTCATTTGAAAA
66 AAACCCCTAAAAATCAGACTTAGTTTCTTAAAAAACTCATTTGAAAA
* * *
280925 CATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTTAAGAATTCATTGAAAATCATCACTAAG
1 CATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCCTTTAAAAATTCATTGAAAATAATCACTAAG
* * * * * *
280990 AAACCCCTGAAAATTAGGCTTAGTTTCTTTAAAAATTCTTTTGAAAA
66 AAACCCCTAAAAATCAGACTTAGTTTCTTAAAAAACTCATTTGAAAA
*
281037 TATCA
1 CATCA
281042 TGTTGTTTGG
Statistics
Matches: 100, Mismatches: 16, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
111 80 0.80
112 20 0.20
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.31
Consensus pattern (112 bp):
CATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCCTTTAAAAATTCATTGAAAATAATCACTAAG
AAACCCCTAAAAATCAGACTTAGTTTCTTAAAAAACTCATTTGAAAA
Found at i:281034 original size:58 final size:57
Alignment explanation
Indices: 280822--281041 Score: 236
Period size: 58 Copynumber: 3.9 Consensus size: 57
280812 GTCATCAAGG
* * * * *
280822 AACCCCTAAAAATTAGGCTTAGCTTCCTTTAAAAATTCTTTGGAGATAATCATTAAGA
1 AACCCCTAAAAATTAGGCTTAG-TTTCTTTAAAAATTCTTTGAAAATCATCACTAAGA
* ** * *
280880 AACCCCTAAAAATCATACTTAGTTTC-TAAAAAACTCATTTGAAAA-CAT--C-AAGA
1 AACCCCTAAAAATTAGGCTTAGTTTCTTTAAAAATTC-TTTGAAAATCATCACTAAGA
* * *
280933 AACCCCTAAAAATTAGGCTTAGCTTCTTTTAAGAATTCATTGAAAATCATCACTAAGA
1 AACCCCTAAAAATTAGGCTTAGTTTC-TTTAAAAATTCTTTGAAAATCATCACTAAGA
*
280991 AACCCCTGAAAATTAGGCTTAGTTTCTTTAAAAATTCTTTTGAAAAT-ATCA
1 AACCCCTAAAAATTAGGCTTAGTTTCTTTAAAAATTC-TTTGAAAATCATCA
281042 TGTTGTTTGG
Statistics
Matches: 132, Mismatches: 22, Indels: 17
0.77 0.13 0.10
Matches are distributed among these distances:
53 26 0.20
54 7 0.05
55 10 0.08
56 10 0.08
57 24 0.18
58 55 0.42
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (57 bp):
AACCCCTAAAAATTAGGCTTAGTTTCTTTAAAAATTCTTTGAAAATCATCACTAAGA
Found at i:283004 original size:10 final size:10
Alignment explanation
Indices: 282989--283023 Score: 61
Period size: 10 Copynumber: 3.4 Consensus size: 10
282979 ATTTGATCGG
282989 TTTTTTTCTT
1 TTTTTTTCTT
282999 TTTTTTTCTTT
1 TTTTTTTC-TT
283010 TTTTTTTCTT
1 TTTTTTTCTT
283020 TTTT
1 TTTT
283024 CTATATCACT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 14 0.58
11 10 0.42
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:283005 original size:11 final size:11
Alignment explanation
Indices: 282989--283023 Score: 63
Period size: 11 Copynumber: 3.3 Consensus size: 11
282979 ATTTGATCGG
282989 TTTTTTTC-TT
1 TTTTTTTCTTT
282999 TTTTTTTCTTT
1 TTTTTTTCTTT
283010 TTTTTTTCTTT
1 TTTTTTTCTTT
283021 TTT
1 TTT
283024 CTATATCACT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 8 0.33
11 16 0.67
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (11 bp):
TTTTTTTCTTT
Found at i:287088 original size:25 final size:24
Alignment explanation
Indices: 287036--287084 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
287026 AAAAAAATAG
287036 TAAAAAAGTAAAACAAACAATAAA
1 TAAAAAAGTAAAACAAACAATAAA
* *
287060 TAAAAAACTTAAAATAAAC-ATAAA
1 TAAAAAA-GTAAAACAAACAATAAA
287084 T
1 T
287085 TAAAGGACCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 13 0.59
25 9 0.41
ACGTcount: A:0.71, C:0.08, G:0.02, T:0.18
Consensus pattern (24 bp):
TAAAAAAGTAAAACAAACAATAAA
Found at i:291434 original size:16 final size:16
Alignment explanation
Indices: 291392--291436 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
291382 TTACCCGACC
291392 TGTTTTCAACCTAACA
1 TGTTTTCAACCTAACA
* * *
291408 TGTTATGAACCTGACA
1 TGTTTTCAACCTAACA
291424 TGTTTTCAACCTA
1 TGTTTTCAACCTA
291437 CCTTTAAATG
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.29, C:0.22, G:0.11, T:0.38
Consensus pattern (16 bp):
TGTTTTCAACCTAACA
Found at i:291649 original size:21 final size:21
Alignment explanation
Indices: 291597--291669 Score: 57
Period size: 21 Copynumber: 3.7 Consensus size: 21
291587 TTTAAATGTT
* * *
291597 ATAA-TAAAATATTATTTATG
1 ATAATTAATATATTAATAATG
291617 ATAATT-A-A-ATTAATAAAT-
1 ATAATTAATATATTAAT-AATG
* *
291635 ATACTTAATATATTAATTATG
1 ATAATTAATATATTAATAATG
291656 ATAATTAATATATT
1 ATAATTAATATATT
291670 TTATATTTAA
Statistics
Matches: 42, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
18 10 0.24
19 4 0.10
20 8 0.19
21 20 0.48
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (21 bp):
ATAATTAATATATTAATAATG
Found at i:291698 original size:14 final size:13
Alignment explanation
Indices: 291670--291755 Score: 64
Period size: 14 Copynumber: 7.2 Consensus size: 13
291660 TTAATATATT
291670 TTATATTTAATAC
1 TTATATTTAATAC
291683 TTATATTT-ATA-
1 TTATATTTAATAC
*
291694 -TA-CTTTAATAC
1 TTATATTTAATAC
*
291705 TTTAAATTTAATAC
1 -TTATATTTAATAC
291719 TTATA-TT-ATA-
1 TTATATTTAATAC
*
291729 -TA-GTTTAATAC
1 TTATATTTAATAC
291740 TTAATATTTAATAC
1 TT-ATATTTAATAC
291754 TT
1 TT
291756 TAGTACTTAT
Statistics
Matches: 57, Mismatches: 5, Indels: 21
0.69 0.06 0.25
Matches are distributed among these distances:
9 7 0.12
10 8 0.14
11 3 0.05
12 6 0.11
13 15 0.26
14 18 0.32
ACGTcount: A:0.38, C:0.07, G:0.01, T:0.53
Consensus pattern (13 bp):
TTATATTTAATAC
Found at i:291700 original size:22 final size:23
Alignment explanation
Indices: 291664--291720 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 23
291654 TGATAATTAA
291664 TATATTT-TATA-TTTAATAC-T
1 TATATTTATATACTTTAATACTT
291684 TATATTTATATACTTTAATACTT
1 TATATTTATATACTTTAATACTT
*
291707 TAAATTTA-ATACTT
1 TATATTTATATACTT
291721 ATATTATATA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 7 0.21
21 4 0.12
22 14 0.42
23 8 0.24
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (23 bp):
TATATTTATATACTTTAATACTT
Found at i:291736 original size:35 final size:36
Alignment explanation
Indices: 291669--291755 Score: 133
Period size: 35 Copynumber: 2.4 Consensus size: 36
291659 ATTAATATAT
*
291669 TTTATATTTAATACTTATATTTATATACTTTAATAC
1 TTTAAATTTAATACTTATATTTATATACTTTAATAC
*
291705 TTTAAATTTAATACTTATA-TTATATAGTTTAATAC
1 TTTAAATTTAATACTTATATTTATATACTTTAATAC
291740 -TTAATATTTAATACTT
1 TTTAA-ATTTAATACTT
291756 TAGTACTTAT
Statistics
Matches: 48, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
34 4 0.08
35 26 0.54
36 18 0.38
ACGTcount: A:0.38, C:0.07, G:0.01, T:0.54
Consensus pattern (36 bp):
TTTAAATTTAATACTTATATTTATATACTTTAATAC
Found at i:291757 original size:22 final size:22
Alignment explanation
Indices: 291677--291778 Score: 72
Period size: 22 Copynumber: 4.6 Consensus size: 22
291667 ATTTTATATT
291677 TAATACTT-ATA-TTTATATACTT
1 TAATACTTAATACTTTA-ATAC-T
291699 TAATACTTTAA-A-TTTAATACT
1 TAATAC-TTAATACTTTAATACT
*
291720 T-ATA-TTATATAGTTTAATACT
1 TAATACTTA-ATACTTTAATACT
* *
291741 TAATATTTAATACTTTAGTACT
1 TAATACTTAATACTTTAATACT
*
291763 TATGTACTTATATACT
1 TA-ATACTTA-ATACT
291779 GTATATTTAT
Statistics
Matches: 67, Mismatches: 4, Indels: 16
0.77 0.05 0.18
Matches are distributed among these distances:
18 3 0.04
19 1 0.01
20 4 0.06
21 12 0.18
22 26 0.39
23 15 0.22
24 6 0.09
ACGTcount: A:0.37, C:0.09, G:0.03, T:0.51
Consensus pattern (22 bp):
TAATACTTAATACTTTAATACT
Found at i:291789 original size:23 final size:22
Alignment explanation
Indices: 291746--291806 Score: 70
Period size: 23 Copynumber: 2.6 Consensus size: 22
291736 ATACTTAATA
*
291746 TTTAATACTTTAGTACTTATGTAC
1 TTTAATAC-TTA-TATTTATGTAC
291770 -TTATATACTGTATATTTATGTAC
1 TTTA-ATACT-TATATTTATGTAC
291793 TTTAATACTTATAT
1 TTTAATACTTATAT
291807 CCAAACACTT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
22 5 0.15
23 19 0.58
24 9 0.27
ACGTcount: A:0.31, C:0.10, G:0.07, T:0.52
Consensus pattern (22 bp):
TTTAATACTTATATTTATGTAC
Found at i:291842 original size:7 final size:7
Alignment explanation
Indices: 291822--291863 Score: 59
Period size: 7 Copynumber: 6.0 Consensus size: 7
291812 CACTTTATTG
291822 CTTTATA
1 CTTTATA
291829 -TTATATA
1 CTT-TATA
*
291836 ATTTATA
1 CTTTATA
291843 CTTTATA
1 CTTTATA
291850 CTTTATA
1 CTTTATA
291857 CTTTATA
1 CTTTATA
291864 TATGTATATA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
6 2 0.06
7 28 0.88
8 2 0.06
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.57
Consensus pattern (7 bp):
CTTTATA
Found at i:292365 original size:20 final size:20
Alignment explanation
Indices: 292324--292370 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
292314 TATAATGATC
292324 ATTATATATACATGCATCAT
1 ATTATATATACATGCATCAT
* *
292344 ATTATCATA-ACATTCATTAT
1 ATTAT-ATATACATGCATCAT
292364 A-TATATA
1 ATTATATA
292371 ATGAATGTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 3 0.12
19 3 0.12
20 15 0.62
21 3 0.12
ACGTcount: A:0.43, C:0.13, G:0.02, T:0.43
Consensus pattern (20 bp):
ATTATATATACATGCATCAT
Found at i:292877 original size:18 final size:16
Alignment explanation
Indices: 292854--292892 Score: 51
Period size: 18 Copynumber: 2.3 Consensus size: 16
292844 TACAAAGAAG
292854 AATAATAAAGATAATAAA
1 AATAATAAAG-TAA-AAA
*
292872 AATAATGAAGTAAAAA
1 AATAATAAAGTAAAAA
292888 AATAA
1 AATAA
292893 ATAATAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 8 0.40
17 3 0.15
18 9 0.45
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.21
Consensus pattern (16 bp):
AATAATAAAGTAAAAA
Found at i:294043 original size:3 final size:3
Alignment explanation
Indices: 294035--294101 Score: 57
Period size: 3 Copynumber: 21.0 Consensus size: 3
294025 AAAAAGAAAT
*
294035 TAA TAA TAA TAA TAA TAA TAA TAA TAA -AGA AAA TAAA TAA TAAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA T-AA TAA T-AA TAA
294082 -AA TAAA TAAA TAA TATA TAA
1 TAA T-AA T-AA TAA TA-A TAA
294102 ATATATAAAA
Statistics
Matches: 56, Mismatches: 1, Indels: 14
0.79 0.01 0.20
Matches are distributed among these distances:
2 3 0.05
3 36 0.64
4 17 0.30
ACGTcount: A:0.70, C:0.00, G:0.01, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:294074 original size:4 final size:4
Alignment explanation
Indices: 294065--294110 Score: 51
Period size: 4 Copynumber: 11.8 Consensus size: 4
294055 ATAATAAAGA
* *
294065 AAAT AAAT -AAT AAAT AAAAT AAAT AAAT -AAT ATAT AAAT ATAT AAA
1 AAAT AAAT AAAT AAAT -AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
294111 AATATTTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
3 6 0.17
4 25 0.71
5 4 0.11
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (4 bp):
AAAT
Found at i:294082 original size:20 final size:20
Alignment explanation
Indices: 294035--294114 Score: 75
Period size: 20 Copynumber: 4.2 Consensus size: 20
294025 AAAAAGAAAT
294035 TAAT-AATAATAAT-AAT-AA
1 TAATAAATAA-AATAAATAAA
294053 TAAT-AATAAAGA-AAATAAA
1 TAATAAATAAA-ATAAATAAA
294072 TAATAAATAAAATAAATAAA
1 TAATAAATAAAATAAATAAA
* *
294092 TAATATAT-AAATATATAAA
1 TAATAAATAAAATAAATAAA
294111 -AATA
1 TAATA
294115 TTTTTAAAAA
Statistics
Matches: 55, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
17 1 0.02
18 17 0.31
19 17 0.31
20 20 0.36
ACGTcount: A:0.70, C:0.00, G:0.01, T:0.29
Consensus pattern (20 bp):
TAATAAATAAAATAAATAAA
Found at i:294115 original size:16 final size:16
Alignment explanation
Indices: 294054--294090 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
294044 TAATAATAAT
294054 AATAATAAAGAAAATA
1 AATAATAAAGAAAATA
*
294070 AATAATAAATAAAATA
1 AATAATAAAGAAAATA
294086 AATAA
1 AATAA
294091 ATAATATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.22
Consensus pattern (16 bp):
AATAATAAAGAAAATA
Found at i:294273 original size:74 final size:72
Alignment explanation
Indices: 294195--294438 Score: 223
Period size: 74 Copynumber: 3.3 Consensus size: 72
294185 TGTTTTAAAA
294195 ATTATATATTATATACTTTCAAAATAATTTTAAAAATTATATAT-TATATTTTCAAAATGTTTTT
1 ATTATATA-TATATA-TTTCAAAAT-ATTTTAAAAATTATATATATATATTTTCAAAATGTTTTT
* *
294259 CAAAAACCGT
63 AAAAAACCAT
*
294269 ATTATATAT-T-T-TTTCAAAATATTTTAAAAACTACATATTATATATATTTTTTCAAAATGGTT
1 ATTATATATATATATTTCAAAATATTTTAAAAA-T---TA-TATATATATATTTTCAAAAT-GTT
*
294331 TTAAAAAAACCAT
60 TTTAAAAAACCAT
* * * *
294344 ATAATATATATATATTT--AAATGTTTTTCAAAAACTATATAATATATATTTTCAAAAAGTTTTT
1 ATTATATATATATATTTCAAAAT-ATTTT-AAAAATTATAT-ATATATATTTTCAAAATGTTTTT
* *
294407 TAAAAACTAT
63 AAAAAACCAT
*
294417 A-TATTATATATATTTTTCAAAA
1 ATTA-TATATATATATTTCAAAA
294439 CTATATATAT
Statistics
Matches: 140, Mismatches: 14, Indels: 31
0.76 0.08 0.17
Matches are distributed among these distances:
68 10 0.07
69 10 0.07
71 1 0.01
72 4 0.03
73 35 0.25
74 38 0.27
75 24 0.17
76 5 0.04
77 5 0.04
78 8 0.06
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.46
Consensus pattern (72 bp):
ATTATATATATATATTTCAAAATATTTTAAAAATTATATATATATATTTTCAAAATGTTTTTAAA
AAACCAT
Found at i:294351 original size:37 final size:35
Alignment explanation
Indices: 294109--294438 Score: 224
Period size: 36 Copynumber: 9.1 Consensus size: 35
294099 TAAATATATA
* * *
294109 AAAATATTTTTAAAAATTATATAATATATATTTTC
1 AAAATGTTTTTAAAAACTATATAATATATTTTTTC
** * ***
294144 CCAATTTTTTTTTTAA-TATATAATATATATTTTTTC
1 AAAATGTTTTTAAAAACTATAT-A-ATATATTTTTTC
* * **
294180 AAAAATG-TTTTAAAAATTATATATTATATACTTTC
1 -AAAATGTTTTTAAAAACTATATAATATATTTTTTC
** * *
294215 AAAATAATTTTAAAAATTATAT-AT-TATATTTTC
1 AAAATGTTTTTAAAAACTATATAATATATTTTTTC
** *
294248 AAAATGTTTTTCAAAAACCGTATTATATATTTTTTC
1 AAAATGTTTTT-AAAAACTATATAATATATTTTTTC
*
294284 AAAAT-ATTTTAAAAACTACATATTATATATATTTTTTC
1 AAAATGTTTTTAAAAACT--ATA-TA-ATATATTTTTTC
* *
294322 AAAATGGTTTTAAAAAAACCATATAATATATATATATTT-
1 AAAAT-GTTTT-TAAAAACTATATAATATAT-T-T-TTTC
*
294361 -AAATGTTTTTCAAAAACTATATAATATATATTTTC
1 AAAATGTTTTT-AAAAACTATATAATATATTTTTTC
*
294396 AAAAAGTTTTTTAAAAACTATATATTATATATATTTTTC
1 AAAATG-TTTTTAAAAACTATATA--ATATAT-TTTTTC
294435 AAAA
1 AAAA
294439 CTATATATAT
Statistics
Matches: 233, Mismatches: 37, Indels: 46
0.74 0.12 0.15
Matches are distributed among these distances:
33 17 0.07
34 28 0.12
35 42 0.18
36 49 0.21
37 42 0.18
38 30 0.13
39 13 0.06
40 6 0.03
41 6 0.03
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.47
Consensus pattern (35 bp):
AAAATGTTTTTAAAAACTATATAATATATTTTTTC
Found at i:294436 original size:63 final size:61
Alignment explanation
Indices: 294352--294489 Score: 181
Period size: 61 Copynumber: 2.2 Consensus size: 61
294342 ATATAATATA
* * * *
294352 TATATATT-TAAATGTTTTTCAAAAACTATATA-ATATATATTTTCAAAAAGTTTTTTAAAAAC
1 TATATATTATATATATTTTTC-AAAACTATATATATATATATATTC-AAAA-TATTTTAAAAAC
294414 TATATATTATATATATTTTTCAAAACTATATATATATATATATTCAAAATATTTTAAAAAC
1 TATATATTATATATATTTTTCAAAACTATATATATATATATATTCAAAATATTTTAAAAAC
* *
294475 CATTTATTATATATA
1 TATATATTATATATA
294490 AGTTTTTGAA
Statistics
Matches: 68, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
61 24 0.35
62 23 0.34
63 21 0.31
ACGTcount: A:0.46, C:0.07, G:0.01, T:0.46
Consensus pattern (61 bp):
TATATATTATATATATTTTTCAAAACTATATATATATATATATTCAAAATATTTTAAAAAC
Found at i:294439 original size:26 final size:27
Alignment explanation
Indices: 294403--294457 Score: 94
Period size: 26 Copynumber: 2.1 Consensus size: 27
294393 TTCAAAAAGT
294403 TTTTTAAAAACTATATAT-TATATATA
1 TTTTTAAAAACTATATATATATATATA
*
294429 TTTTTCAAAACTATATATATATATATA
1 TTTTTAAAAACTATATATATATATATA
294456 TT
1 TT
294458 CAAAATATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
26 17 0.63
27 10 0.37
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (27 bp):
TTTTTAAAAACTATATATATATATATA
Found at i:294496 original size:63 final size:63
Alignment explanation
Indices: 294353--294501 Score: 182
Period size: 63 Copynumber: 2.4 Consensus size: 63
294343 TATAATATAT
* * * *
294353 ATATATT-TAAAT-GTTTTTCAAAAACTATATAATATATATTTTCAAAAAGTTTTTTAAAAACT
1 ATATATTATATATAGTTTTTC-AAAACTATATAATATATATATTCAAAAAGTATTTTAAAAACC
294415 ATATATTATATATA-TTTTTCAAAACTATATATATATATATATTC-AAAA-TATTTTAAAAACC
1 ATATATTATATATAGTTTTTCAAAACTATATA-ATATATATATTCAAAAAGTATTTTAAAAACC
* *
294476 ATTTATTATATATAAGTTTTTGAAAA
1 ATATATTATATAT-AGTTTTTCAAAA
294502 ATATTTTTTT
Statistics
Matches: 76, Mismatches: 6, Indels: 9
0.84 0.07 0.10
Matches are distributed among these distances:
61 23 0.30
62 23 0.30
63 30 0.39
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.46
Consensus pattern (63 bp):
ATATATTATATATAGTTTTTCAAAACTATATAATATATATATTCAAAAAGTATTTTAAAAACC
Found at i:295305 original size:80 final size:80
Alignment explanation
Indices: 295150--295774 Score: 958
Period size: 80 Copynumber: 7.9 Consensus size: 80
295140 TGACAGATAT
* * *
295150 CCCTTCTCGCCTTGAGCTATGCTACAAATGATGTACCTTT--G--GAGTGTAATCGAACTCGAAG
1 CCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAG
*
295211 GTCTTTGGTAGGTAG
66 GTCTTTGGCAGGTAG
* * *
295226 TCCTTCTTGCCTTGAGCTATACTGCAAATGATGTGCCTTTGAACTGAGTGTAATCGAACTCGAAG
1 CCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAG
295291 GTCTTTGGCAGGTAG
66 GTCTTTGGCAGGTAG
* * * *
295306 CCTTTCTTGCCTTGAGCTATGTTGCAAATGACGT-CTCTTTGACCT--GTGTAATCGAACTCGAA
1 CCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGC-CTTTGAGCTGAGTGTAATCGAACTCGAA
*
295368 GGTCTTTGGCAGATAG
65 GGTCTTTGGCAGGTAG
* *
295384 CCCTTCTTGCCTTGAGCTATGCTGCAAATGATATGCCTTTGAGCTGAGTGTAATTGAACTCGAAG
1 CCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAG
295449 GTCTTTGGCAGGTAG
66 GTCTTTGGCAGGTAG
* * * *
295464 CCATTCTTGCCTTGAGCTATACTGCAAATGATGTGCCTTTGAGCTCAGTGTAATCGAACTCGACG
1 CCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAG
295529 GTCTTTGGCAGGTAG
66 GTCTTTGGCAGGTAG
*
295544 CCCTTCTTGCCTTGAGCTATACTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAG
1 CCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAG
**
295609 GTCTTTTCCAGGTAG
66 GTCTTTGGCAGGTAG
* * * *
295624 CCCTTCTTGCCTTGAGCTATGCTGCAAATGATCTGCCTTTGAGTTGAGTGTAATCAAACTCGAAA
1 CCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAG
295689 GTCTTTGGCAGGTAG
66 GTCTTTGGCAGGTAG
*
295704 CCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGTCTTTGAGCTGAGTGTAATCGAACTCGAAG
1 CCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAG
295769 GTCTTT
66 GTCTTT
295775 TGATGGAGGT
Statistics
Matches: 497, Mismatches: 44, Indels: 12
0.90 0.08 0.02
Matches are distributed among these distances:
76 35 0.07
78 70 0.14
79 2 0.00
80 390 0.78
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.33
Consensus pattern (80 bp):
CCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAG
GTCTTTGGCAGGTAG
Found at i:296745 original size:95 final size:95
Alignment explanation
Indices: 296550--296812 Score: 375
Period size: 95 Copynumber: 2.7 Consensus size: 95
296540 GGCTAGTTAG
* * * * * *
296550 ATCCATAAACCCGGGGCATTTAACCAATTGCTCTAGAGGGACAACTCAATATCATTGTATAG-AT
1 ATCCATAAAGCCAGGGCGTTTAACCAATTGCTTTAGAGGGACAACTC-A-AGC-TT-TATTGTAT
296614 ATTATAATCACCTTTATCAGGCTAGCTGAATATT
62 ATTATAATCACCTTTATCAGGCTAGCTGAATATT
*
296648 ATCCATAAAGCCAGGGCGTTTAACTAATTGCTTTAGAGGGACAACTCAAGCTTTATTGTATATTA
1 ATCCATAAAGCCAGGGCGTTTAACCAATTGCTTTAGAGGGACAACTCAAGCTTTATTGTATATTA
*
296713 TAATCACCTTTATCAGGCTAGCTGAATCTT
66 TAATCACCTTTATCAGGCTAGCTGAATATT
* * *
296743 ATCCATAAAGTCAGGGCGTTTAACCAATTGCTTTAGAGGGATATCTCAAGCTTTATTGTATATAT
1 ATCCATAAAGCCAGGGCGTTTAACCAATTGCTTTAGAGGGACAACTCAAGCTTTATTGTATAT-T
296808 ATAAT
65 ATAAT
296813 ATTATAATCT
Statistics
Matches: 151, Mismatches: 12, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
94 4 0.03
95 96 0.64
96 8 0.05
97 1 0.01
98 42 0.28
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.33
Consensus pattern (95 bp):
ATCCATAAAGCCAGGGCGTTTAACCAATTGCTTTAGAGGGACAACTCAAGCTTTATTGTATATTA
TAATCACCTTTATCAGGCTAGCTGAATATT
Found at i:298672 original size:12 final size:11
Alignment explanation
Indices: 298651--298719 Score: 52
Period size: 12 Copynumber: 5.9 Consensus size: 11
298641 AAAAGAAATT
*
298651 AATAATAATAA
1 AATAAAAATAA
298662 CAATAAAAATAAA
1 -AATAAAAAT-AA
298675 AATAATAAAT-A
1 AATAA-AAATAA
298686 AATAAATAAATAA
1 AAT-AA-AAATAA
298699 AATAAAAA-ATA
1 AATAAAAATA-A
*
298710 TATAAAAATA
1 AATAAAAATA
298720 TTTTCAAAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
10 1 0.02
11 15 0.31
12 23 0.47
13 10 0.20
ACGTcount: A:0.75, C:0.01, G:0.00, T:0.23
Consensus pattern (11 bp):
AATAAAAATAA
Found at i:298687 original size:4 final size:4
Alignment explanation
Indices: 298668--298715 Score: 53
Period size: 4 Copynumber: 11.8 Consensus size: 4
298658 ATAACAATAA
* *
298668 AAAT AAAA ATAAT AAAT AAAT AAAT AAAT AAAAT AAA- AAAT ATAT AAA
1 AAAT AAAT A-AAT AAAT AAAT AAAT AAAT -AAAT AAAT AAAT AAAT AAA
298716 AATATTTTCA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
3 3 0.08
4 27 0.73
5 7 0.19
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:298700 original size:24 final size:25
Alignment explanation
Indices: 298668--298715 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
298658 ATAACAATAA
*
298668 AAATAAAAATAATAAATAAATAAAT
1 AAATAAAAATAAAAAATAAATAAAT
*
298693 AAAT-AAAATAAAAAATATATAAA
1 AAATAAAAATAAAAAATAAATAAA
298716 AATATTTTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (25 bp):
AAATAAAAATAAAAAATAAATAAAT
Found at i:298716 original size:16 final size:15
Alignment explanation
Indices: 298667--298716 Score: 59
Period size: 16 Copynumber: 3.3 Consensus size: 15
298657 AATAACAATA
298667 AAAAT-AAAAATAAT
1 AAAATAAAAAATAAT
298681 -AAATAAATAAATAAAT
1 AAAATAAA-AAAT-AAT
298697 AAAATAAAAAATATAT
1 AAAATAAAAAATA-AT
298713 AAAA
1 AAAA
298717 ATATTTTCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
13 4 0.13
14 2 0.06
15 5 0.16
16 13 0.42
17 7 0.23
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (15 bp):
AAAATAAAAAATAAT
Found at i:298754 original size:23 final size:23
Alignment explanation
Indices: 298702--298745 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
298692 TAAATAAAAT
298702 AAAAAATATATAAAAATATTTTC
1 AAAAAATATATAAAAATATTTTC
*
298725 AAAAAATATAT-AATATATTTT
1 AAAAAATATATAAAAATATTTT
298746 TCCCAAAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (23 bp):
AAAAAATATATAAAAATATTTTC
Found at i:298808 original size:33 final size:30
Alignment explanation
Indices: 298771--298878 Score: 119
Period size: 33 Copynumber: 3.4 Consensus size: 30
298761 TTAAAAATTA
298771 TATATTATATACTTTCAAAATAATTTTAAAAAC
1 TATA-TATATA-TTTCAAAAT-ATTTTAAAAAC
*
298804 TATATATTATATTATCAAAATGTTTTTCAAAAAC
1 TATATA-TATATT-TCAAAAT-ATTTT-AAAAAC
*
298838 CATATAT-TATTTCAAAATATTTTAAAAAC
1 TATATATATATTTCAAAATATTTTAAAAAC
298867 TATATATTATAT
1 TATATA-TATAT
298879 ATATTTTTTC
Statistics
Matches: 65, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
29 11 0.17
30 5 0.08
31 10 0.15
32 8 0.12
33 20 0.31
34 11 0.17
ACGTcount: A:0.46, C:0.08, G:0.01, T:0.44
Consensus pattern (30 bp):
TATATATATATTTCAAAATATTTTAAAAAC
Found at i:298864 original size:29 final size:30
Alignment explanation
Indices: 298783--298876 Score: 118
Period size: 29 Copynumber: 3.0 Consensus size: 30
298773 TATTATATAC
298783 TTTCAAAATAATTTTAAAAACTATATATTATA
1 TTTCAAAATAATTTTAAAAACTATATA-T-TA
** *
298815 TTATCAAAATGTTTTTCAAAAACCATATATTA
1 TT-TCAAAATAATTTT-AAAAACTATATATTA
298847 TTTCAAAAT-ATTTTAAAAACTATATATTA
1 TTTCAAAATAATTTTAAAAACTATATATTA
298876 T
1 T
298877 ATATATTTTT
Statistics
Matches: 55, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
29 15 0.27
30 4 0.07
31 7 0.13
32 6 0.11
33 12 0.22
34 11 0.20
ACGTcount: A:0.47, C:0.09, G:0.01, T:0.44
Consensus pattern (30 bp):
TTTCAAAATAATTTTAAAAACTATATATTA
Found at i:298881 original size:38 final size:38
Alignment explanation
Indices: 298839--299078 Score: 208
Period size: 38 Copynumber: 6.2 Consensus size: 38
298829 TTCAAAAACC
298839 ATATATTATTTCAAAATATTTT-AAAAACTATATATTAT
1 ATATATT-TTTCAAAATATTTTAAAAAACTATATATTAT
* * *
298877 ATATATTTTTTCAAAATTGTTTTCAAAAAAACCATATAATAT
1 ATATA-TTTTTCAAAA-TATTTT--AAAAAACTATATATTAT
** * *
298919 ATAT-TTTTTTTAAATGTTTTTCAAAAACTATATA--AT
1 ATATATTTTTCAAAAT-ATTTTAAAAAACTATATATTAT
*
298955 ATATATTTTT-AAAACGT-TTTTTAAAAACTATATATTAT
1 ATATATTTTTCAAAA--TATTTTAAAAAACTATATATTAT
298993 ATATATTTTTCAAAAATATTTTAAAAAAC-ATATATTAT
1 ATATATTTTTC-AAAATATTTTAAAAAACTATATATTAT
* * * *
299031 ATATAAGTTTTTGAAAAATATTTTTAAAAACCATGTATTAT
1 ATAT-A-TTTTT-CAAAATATTTTAAAAAACTATATATTAT
299072 ATA-ATTT
1 ATATATTT
299079 CCAAAATGAT
Statistics
Matches: 170, Mismatches: 14, Indels: 36
0.77 0.06 0.16
Matches are distributed among these distances:
36 25 0.15
37 5 0.03
38 54 0.32
39 20 0.12
40 37 0.22
41 11 0.06
42 18 0.11
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.47
Consensus pattern (38 bp):
ATATATTTTTCAAAATATTTTAAAAAACTATATATTAT
Found at i:299763 original size:80 final size:80
Alignment explanation
Indices: 299644--299938 Score: 403
Period size: 80 Copynumber: 3.7 Consensus size: 80
299634 ACAATTTTGC
* * * * ** * *
299644 TGGCAGATAGCCCTTCTCGCCTTGAGGTATGCTTAAAATGATGTGCTTTTGAGCTGAGTGTAATC
1 TGGCAGGTAGTCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTAAGTGTAATC
299709 GAACTCGAAGGTCTT
66 GAACTCGAAGGTCTT
* * * * *
299724 TGGTAGGGAGTCCTTCTTGCCTTGAGCTATACTGCAAATGATGTGCCTTTGAGCTTAGTGTAATT
1 TGGCAGGTAGTCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTAAGTGTAATC
* *
299789 GAACTTGAATGTCTT
66 GAACTCGAAGGTCTT
* * *
299804 TGGCAGGTAGTCCTTCTTGCCTTGAGTTATGTTCCAAATGATGTGCCTTTGAGCTAAGTGTAATC
1 TGGCAGGTAGTCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTAAGTGTAATC
299869 GAACTCGAAGGTCTT
66 GAACTCGAAGGTCTT
*
299884 TGGCAGGTAG-CCATTCTTGCCTTGAGCTATGCTGCAAATGATATGCCTTTGAGCT
1 TGGCAGGTAGTCC-TTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCT
299939 TGCTGAGTTA
Statistics
Matches: 186, Mismatches: 28, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
79 2 0.01
80 184 0.99
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (80 bp):
TGGCAGGTAGTCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTAAGTGTAATC
GAACTCGAAGGTCTT
Found at i:299933 original size:160 final size:160
Alignment explanation
Indices: 299644--299939 Score: 461
Period size: 160 Copynumber: 1.9 Consensus size: 160
299634 ACAATTTTGC
* *
299644 TGGCAGATAGCCCTTCTCGCCTTGAGGTATGCTTAAAATGATGTGCTTTTGAGCTGAGTGTAATC
1 TGGCAGATAGCCCTTCTCGCCTTGAGGTATGCTTAAAATGATGTGCCTTTGAGCTAAGTGTAATC
* *
299709 GAACTCGAAGGTCTTTGGTAGGGAGTCCTTCTTGCCTTGAGCTATACTGCAAATGATGTGCCTTT
66 GAACTCGAAGGTCTTTGGCAGGGAGTCCTTCTTGCCTTGAGCTATACTGCAAATGATATGCCTTT
299774 GAGCTTAGTGTAATTGAACTTGAATGTCTT
131 GAGCTTAGTGTAATTGAACTTGAATGTCTT
* * * * *
299804 TGGCAGGTAGTCCTTCTTGCCTTGAGTTATG-TTCCAAATGATGTGCCTTTGAGCTAAGTGTAAT
1 TGGCAGATAGCCCTTCTCGCCTTGAGGTATGCTT-AAAATGATGTGCCTTTGAGCTAAGTGTAAT
* *
299868 CGAACTCGAAGGTCTTTGGCAGGTAG-CCATTCTTGCCTTGAGCTATGCTGCAAATGATATGCCT
65 CGAACTCGAAGGTCTTTGGCAGGGAGTCC-TTCTTGCCTTGAGCTATACTGCAAATGATATGCCT
299932 TTGAGCTT
129 TTGAGCTT
299940 GCTGAGTTAA
Statistics
Matches: 123, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
159 4 0.03
160 119 0.97
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (160 bp):
TGGCAGATAGCCCTTCTCGCCTTGAGGTATGCTTAAAATGATGTGCCTTTGAGCTAAGTGTAATC
GAACTCGAAGGTCTTTGGCAGGGAGTCCTTCTTGCCTTGAGCTATACTGCAAATGATATGCCTTT
GAGCTTAGTGTAATTGAACTTGAATGTCTT
Found at i:300814 original size:65 final size:64
Alignment explanation
Indices: 300663--300819 Score: 210
Period size: 65 Copynumber: 2.4 Consensus size: 64
300653 TGCACTAAGT
* * * *
300663 GTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAAAGTATGAGTGCATCGATGCATGGTAT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAAAGCACGAGTGCATCGATGCATGGTAA
*
300727 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATTAAAA-CCCGAGTGCATCGATGCATGG-A
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCA--AAAAGCACGAGTGCATCGATGCATGGTA
300790 GA
64 -A
* *
300792 GTGCATCGATGCATGAACTGCATTCGAT
1 GTGCATCGATGCATCAAATGCATTCGAT
300820 ATTCAATTAA
Statistics
Matches: 83, Mismatches: 7, Indels: 5
0.87 0.07 0.05
Matches are distributed among these distances:
64 35 0.42
65 44 0.53
66 4 0.05
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (64 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAAAGCACGAGTGCATCGATGCATGGTAA
Found at i:300861 original size:65 final size:65
Alignment explanation
Indices: 300663--300863 Score: 182
Period size: 64 Copynumber: 3.1 Consensus size: 65
300653 TGCACTAAGT
* * * *
300663 GTGCATCGATGCATCAAATGCATTCGATGTTTTGA--AAAAGTATGAGTGCATCGATGCATGG-T
1 GTGCATCGATGCATCAAATGCATTCGA-GTATTCATTAAAA-CACGAGTGCATCGATGCATGGAT
300725 AT-
64 -TG
* *
300727 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATTAAAACCCGAGTGCATCGATGCATGGA--
1 GTGCATCGATGCATCAAATGCATTCGA-GTATTCATTAAAACACGAGTGCATCGATGCATGGATT
300790 G
65 G
* * ** ** *
300791 AGTGCATCGATGCATGAACTGCATTCGA-TATTCAATTAATTCATTAGTGCATCGATGTATGGAT
1 -GTGCATCGATGCATCAAATGCATTCGAGTATTC-ATTAAAACACGAGTGCATCGATGCATGGAT
300855 TG
64 TG
300857 GTGCATC
1 GTGCATC
300864 CCTTTGAAAA
Statistics
Matches: 116, Mismatches: 13, Indels: 15
0.81 0.09 0.10
Matches are distributed among these distances:
63 4 0.03
64 57 0.49
65 50 0.43
66 5 0.04
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.31
Consensus pattern (65 bp):
GTGCATCGATGCATCAAATGCATTCGAGTATTCATTAAAACACGAGTGCATCGATGCATGGATTG
Found at i:302315 original size:432 final size:432
Alignment explanation
Indices: 301512--302354 Score: 1596
Period size: 432 Copynumber: 2.0 Consensus size: 432
301502 AACAAACGTC
301512 AAACTAAAGAAAACAATCCCAAATCATTAAAAATGTTTTAACAATTAAAGTTCTAAGTTGTTCCA
1 AAACTAAAGAAAACAATCCCAAATCATTAAAAATGTTTTAACAATTAAAGTTCTAAGTTGTTCCA
*
301577 AAACAAAACAAAGTCTACTTGTCCATAGAAGGATCGGGAGGAGGAGGAGGAAATTGTGCTTGCAT
66 AAACAAAACAAAGTCTACTTGTCCATAGAAGGATCGAGAGGAGGAGGAGGAAATTGTGCTTGCAT
301642 CTAAAGAGTAAGAGCATCCATACGTGCAAGCATCTCCCTTTGAAACTCCATCTGTCGAGCTTCCA
131 CTAAAGAGTAAGAGCATCCATACGTGCAAGCATCTCCCTTTGAAACTCCATCTGTCGAGCTTCCA
301707 AATTGTCTAAGAAATAATTTACCACCTCGTGAGTAGCAGTCAAGTGGGATTCAATGAAAGCATAC
196 AATTGTCTAAGAAATAATTTACCACCTCGTGAGTAGCAGTCAAGTGGGATTCAATGAAAGCATAC
301772 CGTAGATCAAATGTCTCCAAAAACGAACGAAAATATGGAGGCAATTGATCCTCTTGTGGAGCTGG
261 CGTAGATCAAATGTCTCCAAAAACGAACGAAAATATGGAGGCAATTGATCCTCTTGTGGAGCTGG
301837 TTCCGGTGCAGGCTCATCGTCTGGTACGTGATCATCGATATCTTACATAAGCTGTTGAAGTTCGG
326 TTCCGGTGCAGGCTCATCGTCTGGTACGTGATCATCGATATCTTACATAAGCTGTTGAAGTTCGG
301902 GATCATTGTCAGCAGCCGGAGGAGGAGGAAGAGCATGAGAGG
391 GATCATTGTCAGCAGCCGGAGGAGGAGGAAGAGCATGAGAGG
*
301944 AAACTAAAGAAAACAATCCCAAATCATTCAAAATGTTTTAACAATTAAAGTTCTAAGTTGTTCCA
1 AAACTAAAGAAAACAATCCCAAATCATTAAAAATGTTTTAACAATTAAAGTTCTAAGTTGTTCCA
*
302009 AAACAAAACAAAGTCTACTTGTCCATAGAAGGATCGAGAGGAGGATGAGGAAATTGTGCTTGCAT
66 AAACAAAACAAAGTCTACTTGTCCATAGAAGGATCGAGAGGAGGAGGAGGAAATTGTGCTTGCAT
* * *
302074 CTAAAGAGTAAGATCATCCATACGTGCAAGCATCTCCCTTTGAAACTCTATCTGTCGAGCTTCTA
131 CTAAAGAGTAAGAGCATCCATACGTGCAAGCATCTCCCTTTGAAACTCCATCTGTCGAGCTTCCA
* * *
302139 AATTGTCTAAGCAATAATTTACCACCTCGTGAGTAGCAGTCAAGTGGGATTCGATGGAAGCATAC
196 AATTGTCTAAGAAATAATTTACCACCTCGTGAGTAGCAGTCAAGTGGGATTCAATGAAAGCATAC
302204 CGTAGATCAAATGTCTCCAAAAACGAACGAAAATATGGAGGCAATTGATCCTCTTGTGGAGCTGG
261 CGTAGATCAAATGTCTCCAAAAACGAACGAAAATATGGAGGCAATTGATCCTCTTGTGGAGCTGG
*
302269 TTCCGGTGCAGGCTCATCGTCTGGTACGTGATCGTCGATATCTTACATAAGCTGTTGAAGTTCGG
326 TTCCGGTGCAGGCTCATCGTCTGGTACGTGATCATCGATATCTTACATAAGCTGTTGAAGTTCGG
302334 GATCATTGTCAGCAGCCGGAG
391 GATCATTGTCAGCAGCCGGAG
302355 CCGGAGGAGG
Statistics
Matches: 401, Mismatches: 10, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
432 401 1.00
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (432 bp):
AAACTAAAGAAAACAATCCCAAATCATTAAAAATGTTTTAACAATTAAAGTTCTAAGTTGTTCCA
AAACAAAACAAAGTCTACTTGTCCATAGAAGGATCGAGAGGAGGAGGAGGAAATTGTGCTTGCAT
CTAAAGAGTAAGAGCATCCATACGTGCAAGCATCTCCCTTTGAAACTCCATCTGTCGAGCTTCCA
AATTGTCTAAGAAATAATTTACCACCTCGTGAGTAGCAGTCAAGTGGGATTCAATGAAAGCATAC
CGTAGATCAAATGTCTCCAAAAACGAACGAAAATATGGAGGCAATTGATCCTCTTGTGGAGCTGG
TTCCGGTGCAGGCTCATCGTCTGGTACGTGATCATCGATATCTTACATAAGCTGTTGAAGTTCGG
GATCATTGTCAGCAGCCGGAGGAGGAGGAAGAGCATGAGAGG
Found at i:303967 original size:23 final size:23
Alignment explanation
Indices: 303937--304013 Score: 65
Period size: 21 Copynumber: 3.5 Consensus size: 23
303927 GCATGTCCTT
303937 GTGCATCGATGTGCATTCAAGGA
1 GTGCATCGATGTGCATTCAAGGA
*
303960 GTGCATCG--GTGCACCTTC-ATG-
1 GTGCATCGATGTGCA--TTCAAGGA
* **
303981 GTGTATCGATGCACATTCAAGGA
1 GTGCATCGATGTGCATTCAAGGA
304004 -TGCATCGATG
1 GTGCATCGATG
304014 CACTGTTAAG
Statistics
Matches: 42, Mismatches: 6, Indels: 13
0.69 0.10 0.21
Matches are distributed among these distances:
21 15 0.36
22 13 0.31
23 14 0.33
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (23 bp):
GTGCATCGATGTGCATTCAAGGA
Found at i:307939 original size:207 final size:209
Alignment explanation
Indices: 307570--307985 Score: 727
Period size: 208 Copynumber: 2.0 Consensus size: 209
307560 CTTTCAAGCT
307570 CATTGTTCGTTTTGGACATAGGACTATTTTTGTTTTTCAATTTGAAACATCAATTTTTATTTTGA
1 CATTGTTCGTTTTGGACATAGGACTATTTTTGTTTTTCAATTTGAAACATCAATTTTTATTTTGA
*
307635 AAATAGAGTCTTATAATCCGAAGCCAACCCATTATAATCCTCTAATATGATCATAAGATAATTCA
66 AAATAGAGTCTTATAATCCGAAGCCAACCCATTATAATCCTCTAATATCATCATAAGATAATTCA
307700 TCTGAATCAAATGAGTTAGAGGTTACCTAAGAG-TTTTCCCCAATGGCCATCAAACACAAGTTGG
131 TCTGAATCAAATGAGTTAGAGGTTACCTAAGAGTTTTTCCCCAATGGCCATCAAACACAAGTTGG
307764 CTACTTCTTGTTCC
196 CTACTTCTTGTTCC
* *
307778 CATTGTTGGTTTTGGACATAGGACTATTTTTG-TTTTCAATTTTGAAACATCATTTTTATATTTT
1 CATTGTTCGTTTTGGACATAGGACTATTTTTGTTTTTCAA-TTTGAAACATCAATTTT-TATTTT
307842 GAAAATAGAGTCTTAT-ATCCGAAGCCAACCCA-T-T-ATCCTCTAATATCTCATCATAAGATAA
64 GAAAATAGAGTCTTATAATCCGAAGCCAACCCATTATAATCCTCTAATA--TCATCATAAGATAA
307903 TTCATCTGAATCAAATGAGTTAGAGGTTACCTAAGAGTTTTTCCCCAATGGCCATCAAACACAAG
127 TTCATCTGAATCAAATGAGTTAGAGGTTACCTAAGAGTTTTTCCCCAATGGCCATCAAACACAAG
307968 TTGGCTACTTCTTGTTCC
192 TTGGCTACTTCTTGTTCC
307986 TCTTCATCGA
Statistics
Matches: 200, Mismatches: 3, Indels: 10
0.94 0.01 0.05
Matches are distributed among these distances:
205 11 0.05
206 1 0.00
207 58 0.29
208 108 0.54
209 22 0.11
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.37
Consensus pattern (209 bp):
CATTGTTCGTTTTGGACATAGGACTATTTTTGTTTTTCAATTTGAAACATCAATTTTTATTTTGA
AAATAGAGTCTTATAATCCGAAGCCAACCCATTATAATCCTCTAATATCATCATAAGATAATTCA
TCTGAATCAAATGAGTTAGAGGTTACCTAAGAGTTTTTCCCCAATGGCCATCAAACACAAGTTGG
CTACTTCTTGTTCC
Found at i:309828 original size:64 final size:63
Alignment explanation
Indices: 309756--309935 Score: 202
Period size: 65 Copynumber: 2.8 Consensus size: 63
309746 TGGAACACTT
* * *
309756 AGTGCATCGGTGCACTAAGTGTGCAACGATGCATCAAATGCATTCGATGTTTT-A-AAAAATTCT
1 AGTGCATCGATGCA-T-AGTGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAAA-CCT
309819 G
63 G
* *
309820 AGTGCATCGATGCATGGTATGTGCATCGATGCATCAAATGCATTCGATGTTTTCATTAAAACCTG
1 AGTGCATCGATGCATAG--TGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAAACCTG
* * * *
309885 AGTGCATTGATGCATGGAGAGTGCATCGATGCATGAACTGCATTCGATGTT
1 AGTGCATCGATGCAT--AGTGTGCATCGATGCATCAAATGCATTCGATGTT
309936 CAATTAATTC
Statistics
Matches: 100, Mismatches: 10, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
62 1 0.01
63 1 0.01
64 46 0.46
65 47 0.47
66 4 0.04
67 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (63 bp):
AGTGCATCGATGCATAGTGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAAACCTG
Found at i:309912 original size:65 final size:64
Alignment explanation
Indices: 309776--309935 Score: 216
Period size: 65 Copynumber: 2.5 Consensus size: 64
309766 TGCACTAAGT
* * *
309776 GTGCAACGATGCATCAAATGCATTCGATGTTTTAAAAAATTCTGAGTGCATCGATGCATGGTAT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTAAAAAATCCTGAGTGCATCGATGCATGGTAA
* *
309840 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATTAAAA-CCTGAGTGCATTGATGCATGG-A
1 GTGCATCGATGCATCAAATGCATTCGATGTTTT-A-AAAAATCCTGAGTGCATCGATGCATGGTA
309903 GA
64 -A
* *
309905 GTGCATCGATGCATGAACTGCATTCGATGTT
1 GTGCATCGATGCATCAAATGCATTCGATGTT
309936 CAATTAATTC
Statistics
Matches: 86, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
64 33 0.38
65 49 0.57
66 4 0.05
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (64 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTTAAAAAATCCTGAGTGCATCGATGCATGGTAA
Found at i:309975 original size:64 final size:63
Alignment explanation
Indices: 309756--309983 Score: 226
Period size: 64 Copynumber: 3.5 Consensus size: 63
309746 TGGAACACTT
* * * * * **
309756 AGTGCATCGGTGCACTAAGTGTGCAACGATGCATCAAATGCATTCGATGTTTTAAAAAATTCTG
1 AGTGCATCGATGCA-TGATTGTGCATCGATGCATCAAATGCATTCGATGTTTCAATTAATTCTG
* **
309820 AGTGCATCGATGCATGGTATGTGCATCGATGCATCAAATGCATTCGATGTTTTC-ATTAAAACCT
1 AGTGCATCGATGCATGAT-TGTGCATCGATGCATCAAATGCATTCGATG-TTTCAATT-AATTCT
309884 G
63 G
* ** * * *
309885 AGTGCATTGATGCATGGAGAGTGCATCGATGCATGAACTGCATTCGATG-TTCAATTAATTCATT
1 AGTGCATCGATGCAT-GATTGTGCATCGATGCATCAAATGCATTCGATGTTTCAATTAATTC-TG
*
309949 AGTGCATCGATGCATGATTGGTGCATCGTTGCATC
1 AGTGCATCGATGCATGATT-GTGCATCGATGCATC
309984 CCTTTGAAAA
Statistics
Matches: 133, Mismatches: 24, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
63 9 0.07
64 74 0.56
65 49 0.37
66 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.32
Consensus pattern (63 bp):
AGTGCATCGATGCATGATTGTGCATCGATGCATCAAATGCATTCGATGTTTCAATTAATTCTG
Found at i:310494 original size:80 final size:80
Alignment explanation
Indices: 310229--310497 Score: 407
Period size: 80 Copynumber: 3.4 Consensus size: 80
310219 GTTTTCAACA
* * * *
310229 GAGCTGAGTGTAATCGAACTCGAAGATTTTTGGCAGGTAACCCTTCTTGCCTTGAGCTA--CTAC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGGTAGCCCTTCTTGCCTTGAGCTATGCTGC
*
310292 AAATGATGTTCCTTT
66 AAATGATGTACCTTT
* * *
310307 GAGCTGAGTGTAATCGAACTCGAAGGTATTTGCCTGGTAGCCCTTCTTGCCTTGAGCTATGCTGC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGGTAGCCCTTCTTGCCTTGAGCTATGCTGC
*
310372 AAATGATGTGCCTTT
66 AAATGATGTACCTTT
* **
310387 GAGCTGAGTGTAATCAAACTCGAAGGTCTTTGGCAGGTAGCCCTTCTTTTCTTGAGCTATGCTGC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGGTAGCCCTTCTTGCCTTGAGCTATGCTGC
*
310452 AAATGATGCACCTTT
66 AAATGATGTACCTTT
310467 GAGCTGAGTGTAATCGAACTCGAAGGTCTTT
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTT
310498 TGTTGGAGGT
Statistics
Matches: 173, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
78 54 0.31
80 119 0.69
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (80 bp):
GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGGTAGCCCTTCTTGCCTTGAGCTATGCTGC
AAATGATGTACCTTT
Found at i:315084 original size:8 final size:8
Alignment explanation
Indices: 314969--315086 Score: 54
Period size: 8 Copynumber: 15.2 Consensus size: 8
314959 AAATGTTAAT
314969 ATAAT-AA
1 ATAATAAA
*
314976 ATAATATA
1 ATAATAAA
314984 ATAATAAA
1 ATAATAAA
*
314992 GA-AAT-AG
1 -ATAATAAA
314999 ATAAGTAAAA
1 ATAA-T-AAA
315009 ATAAATAAA
1 AT-AATAAA
* *
315018 ATTATTAA
1 ATAATAAA
* *
315026 A-AAGAAG
1 ATAATAAA
*
315033 ATAATAAG
1 ATAATAAA
315041 ATAATAAA
1 ATAATAAA
* *
315049 ATATTGAA
1 ATAATAAA
*
315057 GT-A-AAA
1 ATAATAAA
315063 A-AAT-AA
1 ATAATAAA
315069 ATAATAAA
1 ATAATAAA
315077 ATAATAAA
1 ATAATAAA
315085 AT
1 AT
315087 CGTTAAGAAA
Statistics
Matches: 81, Mismatches: 18, Indels: 23
0.66 0.15 0.19
Matches are distributed among these distances:
6 7 0.09
7 14 0.17
8 48 0.59
9 6 0.07
10 4 0.05
11 2 0.02
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.25
Consensus pattern (8 bp):
ATAATAAA
Found at i:316366 original size:36 final size:35
Alignment explanation
Indices: 316296--316707 Score: 264
Period size: 34 Copynumber: 11.7 Consensus size: 35
316286 ATATAAAATA
*
316296 TTTTCAAAACTTATATAATATATATTTTCCCAAAATGTT
1 TTTTAAAAAC-TATATAATATATATTTT--CAAAATG-T
*
316335 TTTTTAAAACTATATAATATATATTTTCAAAATG-
1 TTTTAAAAACTATATAATATATATTTTCAAAATGT
* * **
316369 TTTTAAAAA-TGATATATTATATACTTTC-AAATAA
1 TTTTAAAAACT-ATATAATATATATTTTCAAAATGT
316403 TTTTAAAAACTATAT-AT-TATATTTTCAAAATGT
1 TTTTAAAAACTATATAATATATATTTTCAAAATGT
* * *
316436 TTTTCAAAACCATATTATATATATTTTTCAAAA--T
1 TTTTAAAAACTATATAATATATA-TTTTCAAAATGT
* *
316470 TTTT--AAACTATATATTATACATTTTTTCAAAATGT
1 TTTTAAAAACTATATA--ATATATATTTTCAAAATGT
* * * *
316505 TATTGAAAAAAAACCATATAATATATATATTTTAAAATAT
1 T-TT---TAAAAACTATATAATATATAT-TTTCAAAATGT
* *
316545 TTTTCAAGAAC--TAT-ATATAT-TTTTCAAAACGT
1 TTTT-AAAAACTATATAATATATATTTTCAAAATGT
* * *
316577 TTTTAAAAACTATTATTATATATTTTTTCAAAAT-A
1 TTTTAAAAACTA-TATAATATATATTTTCAAAATGT
* * *
316612 TTTTAAAAATCATATATTATATATAAGTTTCAAAAATAT
1 TTTTAAAAA-C-TATATAATATAT-ATTTTC-AAAATGT
* * * *
316651 TTTGAAAAACCATATATTATATAATTTCCAAAATG-
1 TTTTAAAAACTATATAATATAT-ATTTTCAAAATGT
* *
316686 ATTT-CAAACTATAT-ATATATAT
1 TTTTAAAAACTATATAATATATAT
316708 CTAAAAATCG
Statistics
Matches: 300, Mismatches: 44, Indels: 65
0.73 0.11 0.16
Matches are distributed among these distances:
31 5 0.02
32 30 0.10
33 38 0.13
34 65 0.22
35 27 0.09
36 43 0.14
37 25 0.08
38 23 0.08
39 25 0.08
40 10 0.03
41 9 0.03
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.45
Consensus pattern (35 bp):
TTTTAAAAACTATATAATATATATTTTCAAAATGT
Found at i:316666 original size:105 final size:102
Alignment explanation
Indices: 316452--316667 Score: 242
Period size: 105 Copynumber: 2.1 Consensus size: 102
316442 AAACCATATT
*
316452 ATATATATTTTTCAAAATTTTTAAACTATATATTATACATTTTTTCAAAATGTTATTGAAAAAAA
1 ATATATATTTTTCAAAATTTTTAAACTATATATTATACATTTTTTCAAAATATTATT---AAAAA
* * *
316517 ACCATATAATATATATATTTTAAAATATTTTTCAAGAACT
63 ACCATATAATATATATATTTAAAAATATTTTTCAAAAACC
*
316557 ATATATATTTTTCAAAACGTTTTTAAAAACTAT-TATTATATATTTTTTCAAAATATT-TT-AAA
1 ATATATATTTTTCAAAA--TTTTT--AAACTATATATTATACATTTTTTCAAAATATTATTAAAA
* * *
316619 AATCATATATTATATATAAGTTTCAAAAATA-TTTTGAAAAACC
62 AACCATATAATATATAT-A-TTT-AAAAATATTTTTCAAAAACC
316662 ATATAT
1 ATATAT
316668 TATATAATTT
Statistics
Matches: 96, Mismatches: 8, Indels: 14
0.81 0.07 0.12
Matches are distributed among these distances:
103 18 0.19
104 1 0.01
105 35 0.36
106 6 0.06
107 7 0.07
108 22 0.23
109 7 0.07
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.45
Consensus pattern (102 bp):
ATATATATTTTTCAAAATTTTTAAACTATATATTATACATTTTTTCAAAATATTATTAAAAAACC
ATATAATATATATATTTAAAAATATTTTTCAAAAACC
Found at i:316720 original size:142 final size:136
Alignment explanation
Indices: 316335--316727 Score: 385
Period size: 142 Copynumber: 2.8 Consensus size: 136
316325 CCAAAATGTT
** *
316335 TTTTTAAAACTATATA--ATATATATTTTCAAAATGTTTT-AAAAATGATATATTATATACTTTC
1 TTTTTAAAA-TATATATTATATATATTTTCAAAATGTTTTGAAAAACCATATATTATATAATTTC
* *
316397 -AAATAATTTTAAAAACTATATAT-TATATTTTCAAAAT-GTTTTTCAAAACCATATTATATATA
65 AAAAT-ATTTT-CAAACTATATATATATA-TTTCAAAATCGTTTTTAAAAACCATATTATATATA
316459 TTTTTCAAAA
127 TTTTTCAAAA
* * * *
316469 TTTTTAAACTATATATTATACATTTTTTCAAAATGTTATTGAAAAAAAACCATATAATATATATA
1 TTTTTAAAATATATATTATATATATTTTCAAAATGTT-TTG---AAAAACCATATATTATATA-A
* *
316534 TTTTAAAATATTTTTCAAGAACTATATATAT-T-TTTCAAAA-CGTTTTTAAAAACTATTATTAT
61 TTTCAAAATA-TTTTC-A-AACTATATATATATATTTCAAAATCGTTTTTAAAAACCA-TATTAT
316596 ATAT-TTTTTCAAAA
122 ATATATTTTTCAAAA
* *
316610 TATTTTAAAAATCATATATTATATATAAGTTTCAAAAATATTTTGAAAAACCATATATTATATAA
1 T-TTTT-AAAAT-ATATATTATATAT-ATTTTC-AAAATGTTTTGAAAAACCATATATTATATAA
* * *
316675 TTTCCAAAATGA-TTTCAAACTATATATATATATCTAAAAATCGTTTTAAAAAA
61 TTT-CAAAAT-ATTTTCAAACTATATATATATATTTCAAAATCGTTTTTAAAAA
316728 ATCGGACGAA
Statistics
Matches: 213, Mismatches: 21, Indels: 42
0.77 0.08 0.15
Matches are distributed among these distances:
133 6 0.03
134 8 0.04
135 18 0.08
136 2 0.01
139 12 0.06
140 18 0.08
141 49 0.23
142 57 0.27
143 16 0.08
144 13 0.06
145 7 0.03
146 7 0.03
ACGTcount: A:0.45, C:0.08, G:0.03, T:0.44
Consensus pattern (136 bp):
TTTTTAAAATATATATTATATATATTTTCAAAATGTTTTGAAAAACCATATATTATATAATTTCA
AAATATTTTCAAACTATATATATATATTTCAAAATCGTTTTTAAAAACCATATTATATATATTTT
TCAAAA
Found at i:317332 original size:25 final size:25
Alignment explanation
Indices: 317286--317349 Score: 60
Period size: 29 Copynumber: 2.5 Consensus size: 25
317276 AATATGATGC
317286 ATGTATATATAATGTACATTATACTTAGT
1 ATGTATATAT-A--TACATTATACTTA-T
*
317315 ATGTATATATATAC-TTATATTTAT
1 ATGTATATATATACATTATACTTAT
*
317339 A-GTTTATATAT
1 ATGTATATATAT
317350 GTAATAATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
23 9 0.27
24 2 0.06
25 8 0.24
26 3 0.09
28 1 0.03
29 10 0.30
ACGTcount: A:0.38, C:0.05, G:0.08, T:0.50
Consensus pattern (25 bp):
ATGTATATATATACATTATACTTAT
Found at i:317346 original size:19 final size:19
Alignment explanation
Indices: 317304--317346 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
317294 ATAATGTACA
317304 TTATACTTAGTATGTATAT
1 TTATACTTAGTATGTATAT
* *
317323 ATATACTTA-TATTTATAGT
1 TTATACTTAGTATGTATA-T
317342 TTATA
1 TTATA
317347 TATGTAATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.35, C:0.05, G:0.07, T:0.53
Consensus pattern (19 bp):
TTATACTTAGTATGTATAT
Found at i:317782 original size:2 final size:2
Alignment explanation
Indices: 317771--317810 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
317761 TTAACACAAT
317771 TA TA -A TA TA TA TA TA TA TA TA TA TA T- TA TA TA TA TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
317810 T
1 T
317811 GTAAATATGA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
1 3 0.09
2 32 0.91
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:317879 original size:25 final size:25
Alignment explanation
Indices: 317847--317907 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 25
317837 AATGATGCCG
*
317847 TATATATA-ATGTACATTATACTTTA
1 TATATATATATATAC-TTATACTTTA
*
317872 TATATATATATATACTTATTCTTTA
1 TATATATATATATACTTATACTTTA
317897 TACT-TATATAT
1 TA-TATATATAT
317908 GTATATAAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 26 0.81
26 6 0.19
ACGTcount: A:0.38, C:0.08, G:0.02, T:0.52
Consensus pattern (25 bp):
TATATATATATATACTTATACTTTA
Found at i:318002 original size:560 final size:563
Alignment explanation
Indices: 316765--318307 Score: 2082
Period size: 558 Copynumber: 2.8 Consensus size: 563
316755 CATATACGTT
* * * *
316765 TATACTTATACTCTATAGTTTATATATGTAT-TAAAGTACCAAATTGAACAAATATTAAATTGGA
1 TATACTTATTCTTTATAGTTTATATATGTATATAAAGTACCAAATTGAACAAACATGAAATTGGA
* * * *
316829 AATAAAAATTGAATAATTAAG-AAACACATTGATGATGGATGAAATTGAATTAATTATAAAATGG
66 AATAAAAATTGAATAATTAAGCACACACATTGATGAGGGATGAAATTGAATTAATTATAAATTAG
* * * *
316893 AAGTTGGTATTAATATAAAAAAATAGACTAAATTGCATACATTTAAAAAGTTGGTTAACATAATT
131 AAGCTGATATTAATAT-AAAAAATGGACTAAATTGCATACATTTAAAAAGTTGGTGAACATAATT
* **
316958 TGAAAAGAAATTTATTATGTGATTTACATTTTATAGGGTTTGTTTTAAACAAATTA-AAAAATA-
195 TGAAAATAAATTTATTATGTGATTTACATTTTATAGGGTTTGTTTTAAGTAAATTACAAAAATAT
*
317021 AAATAAGTATGGGTCAATTTTAGATAAAAATATAATTTGAAGGACTAAATTGAACAAATATGAAA
260 AAATAAGTATGGGTCAATTTAAGATAAAAATATAATTTGAAGGACTAAATTGAACAAATATGAAA
* *
317086 TTAAAATTTAAAATTTAAATACAATAAAC-CATAAAGGATCAAATCAAAAAAATTAT-AAATGTG
325 TTAAAA-ATAAAATTTAAATACAATAAACACATAAAGGATC-AATCAAAAAAATTGTAAAATGTG
* * *
317149 A-AAAAATTTGTAAAATGGACTAAATTACATT-ATTTCAGAAGTT-GGGAAGATTAGAAAATTAT
388 AGGAAAA-TTGTAAAAT-GACTGAATTACATTAATTTCAAAAGTTGGGGAAGATTAGAAAATTAT
* *
317211 ATATATTACAAATATTTTATATATATGTATATAATACATATAATATGTATAATGAATGTTATGAT
451 ATATATTACAAATATTATATATATATATATATAATACATATAATATGTATAATGAATGTTATGAT
* *
317276 AATATGATGCATGTATATATAATGTACATTATACTTAGTATGTATATA
516 AATATGATGCACGTATATATAATGTACATTATACTTAGTATATATATA
* *
317324 TATACTTA-TATTTATAGTTTATATATGTA-ATAATGTACCAAATTGAACAAACATGAAATTGGA
1 TATACTTATTCTTTATAGTTTATATATGTATATAAAGTACCAAATTGAACAAACATGAAATTGGA
* * * * * * *
317387 AATACAAATTGAATAATTAAACAACACAAATTGATAAGGGATGAAACTAAATTAATTATAAATTT
66 AATAAAAATTGAATAATTAAGC-ACACACATTGATGAGGGATGAAATTGAATTAATTATAAATTA
* *
317452 CAAGCTGATATTAATATAAAAAATGGAC-AAATTGCATACATTTAAAAAGTTGATGAACATAATT
130 GAAGCTGATATTAATATAAAAAATGGACTAAATTGCATACATTTAAAAAGTTGGTGAACATAATT
**
317516 TGAAAATAAAAGTATTATGTGATTTACATTTTATAGGGTTTGTTTTAAGTAAATTACAAAAATAT
195 TGAAAATAAATTTATTATGTGATTTACATTTTATAGGGTTTGTTTTAAGTAAATTACAAAAATAT
317581 AAATAAGTATGGGTCAATTTAAGATAAAAATATAATTTGAAGGACTAAATTGAACAAATATGAAA
260 AAATAAGTATGGGTCAATTTAAGATAAAAATATAATTTGAAGGACTAAATTGAACAAATATGAAA
*
317646 TTAAAAAATAAAATTTAAATACAATAAACAACATACAA-TATCAAGTCAAAAAAATTGTAAAATG
325 TT-AAAAATAAAATTTAAATACAATAAAC-ACATA-AAGGATCAA-TCAAAAAAATTGTAAAATG
317710 TGAGGAAAATTGTAAAAT-ACTGAATTACATTAATTTCAAAAGTTGGGGAA-ATTA-ACACAATT
386 TGAGGAAAATTGTAAAATGACTGAATTACATTAATTTCAAAAGTTGGGGAAGATTAGA-A-AATT
* * **
317772 ATA-ATA-TATATATATATATATATATTATATATATAATATGTA-AATATG-ATAATGAATGTTA
449 ATATATATTACAAATAT-TATATATA-TATATATATAATACATATAATATGTATAATGAATGTTA
317833 TGAT-A-ATGATGC-CGTATATATAATGTACATTATACTTTA-TATATATATA
512 TGATAATATGATGCACGTATATATAATGTACATTATAC-TTAGTATATATATA
*
317882 TATACTTATTCTTTATA-CTTATATATGTATATAAAGTACCAAATTGAACAAACATGAAATTGGA
1 TATACTTATTCTTTATAGTTTATATATGTATATAAAGTACCAAATTGAACAAACATGAAATTGGA
317946 AATAAAAAAAATTGAATAAATTAAGCACACACATTGATGA-GGATG-AATTGAATTAATTATAAA
66 AAT---AAAAATTGAAT-AATTAAGCACACACATTGATGAGGGATGAAATTGAATTAATTAT-AA
* * *
318009 ATGAGAAGCTGATATTAATAT-AAAAATGGACTAATTTGCATACATTTAAAACGTTGGTGAACAT
126 ATTAGAAGCTGATATTAATATAAAAAATGGACTAAATTGCATACATTTAAAAAGTTGGTGAACAT
*
318073 AATCTG-AAATAAATTTATTATGTGATTTACATTTTATA-GGTTTGTTTTAAGTAAATTACAAAA
191 AATTTGAAAATAAATTTATTATGTGATTTACATTTTATAGGGTTTGTTTTAAGTAAATTACAAAA
* * * * * *
318136 ATATAAATAAGTATGGGTTAATTTCATATACAACTATAATTTGAAGGACTAAATTGAAAAAATAT
256 ATATAAATAAGTATGGGTCAATTTAAGATAAAAATATAATTTGAAGGACTAAATTGAACAAATAT
* *
318201 GAAATT----A-CAAA-TTAAATACAATAAACACATAAAAGGATCAATC-AAAAAAGTGTAAAAA
321 GAAATTAAAAATAAAATTTAAATACAATAAACACAT-AAAGGATCAATCAAAAAAATTGT-AAAA
* * *
318259 TGTGAGGAAAATTATAAAATGGACTGAA-TGCATTAATTTCAAAGGTTGG
384 TGTGAGGAAAATTGTAAAAT-GACTGAATTACATTAATTTCAAAAGTTGG
318308 TAAAAAAATT
Statistics
Matches: 880, Mismatches: 72, Indels: 71
0.86 0.07 0.07
Matches are distributed among these distances:
550 9 0.01
551 31 0.04
552 40 0.05
553 9 0.01
554 1 0.00
558 202 0.23
559 168 0.19
560 189 0.21
561 102 0.12
562 73 0.08
563 52 0.06
564 4 0.00
ACGTcount: A:0.48, C:0.06, G:0.12, T:0.34
Consensus pattern (563 bp):
TATACTTATTCTTTATAGTTTATATATGTATATAAAGTACCAAATTGAACAAACATGAAATTGGA
AATAAAAATTGAATAATTAAGCACACACATTGATGAGGGATGAAATTGAATTAATTATAAATTAG
AAGCTGATATTAATATAAAAAATGGACTAAATTGCATACATTTAAAAAGTTGGTGAACATAATTT
GAAAATAAATTTATTATGTGATTTACATTTTATAGGGTTTGTTTTAAGTAAATTACAAAAATATA
AATAAGTATGGGTCAATTTAAGATAAAAATATAATTTGAAGGACTAAATTGAACAAATATGAAAT
TAAAAATAAAATTTAAATACAATAAACACATAAAGGATCAATCAAAAAAATTGTAAAATGTGAGG
AAAATTGTAAAATGACTGAATTACATTAATTTCAAAAGTTGGGGAAGATTAGAAAATTATATATA
TTACAAATATTATATATATATATATATAATACATATAATATGTATAATGAATGTTATGATAATAT
GATGCACGTATATATAATGTACATTATACTTAGTATATATATA
Found at i:318583 original size:2 final size:2
Alignment explanation
Indices: 318578--318932 Score: 114
Period size: 2 Copynumber: 181.0 Consensus size: 2
318568 ATAAAGTGTG
* * *
318578 TA TA TA TA TA TA AA TA TA AA CA TA TA TA T- TA T- TA GTA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
* * * * * * *
318619 TA TA TA AA TT TA TA -A AA TA TA TA CTT TA TA CA -A AA CTT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA TA TA
*
318661 TA TA TA TA TA CT- TT TA TCA TA TA CT- TA TA TA TA TA TA TA TA
1 TA TA TA TA TA -TA TA TA T-A TA TA -TA TA TA TA TA TA TA TA TA
* *
318702 TA TA TA TA GT- TT TA -A TA TA -A GTA TA TA TA CA TA TA TGA TA
1 TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA TA T-A TA
* *
318742 -A TA TA AA GTA TA -A GTA TA T- TA TA TA TA TA AA GTA TA -A TA
1 TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA TA TA
* * *
318781 TA -A GA CTA -A TA TA TA -A GTA TA TA -A TA CA -A TA TA TA -A GA
1 TA TA TA -TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
318819 T- TA AA GTA TA TA TA CA TA TA AA GTA CA -A GTA TA TA TA TA TA
1 TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA
* * *
318860 TA T- TA TA TA TA TA TA TA TA -A T- TT TA GTA TA AA TA TA TA CA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA
* *
318900 TA TA TA -A TA -A TA TA AA GTT TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
318933 ACTATAAGTA
Statistics
Matches: 265, Mismatches: 43, Indels: 90
0.67 0.11 0.23
Matches are distributed among these distances:
1 26 0.10
2 218 0.82
3 21 0.08
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.43
Consensus pattern (2 bp):
TA
Found at i:318673 original size:29 final size:30
Alignment explanation
Indices: 318622--318701 Score: 96
Period size: 31 Copynumber: 2.7 Consensus size: 30
318612 GTATATATAT
*
318622 ATAAA-TTTATA-AAATATATAC-TTTATAC
1 ATAAACTTTATATATATATATACTTTTAT-C
318650 A-AAACTTTATATATATATATACTTTTATC
1 ATAAACTTTATATATATATATACTTTTATC
*
318679 ATATACTTATATATATATATATA
1 ATAAACTT-TATATATATATATA
318702 TATATATAGT
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 3 0.07
28 7 0.16
29 11 0.24
30 10 0.22
31 14 0.31
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.46
Consensus pattern (30 bp):
ATAAACTTTATATATATATATACTTTTATC
Found at i:318692 original size:31 final size:29
Alignment explanation
Indices: 318627--318701 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
318617 TATATATAAA
*
318627 TTTATA-AAATATATACTTTATACAAAAC
1 TTTATATATATATATACTTTATACAAAAC
*
318655 TTTATATATATATATACTTT-TATCATATAC
1 TTTATATATATATATACTTTATA-CA-AAAC
318685 TTATATATATATATATA
1 TT-TATATATATATATA
318702 TATATATAGT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
28 8 0.20
29 14 0.34
30 5 0.12
31 14 0.34
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (29 bp):
TTTATATATATATATACTTTATACAAAAC
Found at i:318715 original size:39 final size:37
Alignment explanation
Indices: 318657--318746 Score: 110
Period size: 37 Copynumber: 2.4 Consensus size: 37
318647 TACAAAACTT
** *
318657 TATATATATATATACTTTTATCATATACTTATATATATA
1 TATATATATATATACTTTTA--ATATAAGTATATATACA
*
318696 TATATATATATATAGTTTTAATATAAGTATATATACA
1 TATATATATATATACTTTTAATATAAGTATATATACA
318733 TATATGATA-ATATA
1 TATAT-ATATATATA
318747 AAGTATAAGT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
37 24 0.52
38 3 0.07
39 19 0.41
ACGTcount: A:0.44, C:0.04, G:0.03, T:0.48
Consensus pattern (37 bp):
TATATATATATATACTTTTAATATAAGTATATATACA
Found at i:318750 original size:27 final size:26
Alignment explanation
Indices: 318696--319064 Score: 143
Period size: 24 Copynumber: 15.0 Consensus size: 26
318686 TATATATATA
* *
318696 TATATATATATATAGTTTTAATAT-AAG
1 TATATATACATATA--TATAATATAAAG
318723 TATATATACATATATGATAATATAAAG
1 TATATATACATATAT-ATAATATAAAG
*
318750 TATA-AGTATAT-TATAT-ATATAAAG
1 TATATA-TACATATATATAATATAAAG
*
318774 TATA-AT--ATA-AGACTAATATATAAG
1 TATATATACATATATA-TAATATA-AAG
*
318798 TATATAATACA-ATATATAAGATTAAAG
1 TATAT-ATACATATATATAATA-TAAAG
* *
318825 TATATATACATATA-A-AGTA-CAAG
1 TATATATACATATATATAATATAAAG
* *
318848 TATATAT--ATATATATTATATATA-
1 TATATATACATATATATAATATAAAG
*
318871 TATATATA-AT-T-T-TAGTAT-AA-
1 TATATATACATATATATAATATAAAG
318891 -ATATATACATATATAATAATATAAAG
1 TATATATACATATAT-ATAATATAAAG
*
318917 T-T-TATATATATATATAACTAT-AAG
1 TATATATACATATATATAA-TATAAAG
*
318941 TATAAATA-ATATATA-AAGTTTTAGTATAAG
1 TATATATACATATATATAA----TA-TA-AAG
*
318971 TATATATAC-TATATACTAATA-AAAC
1 TATATATACATATATA-TAATATAAAG
*
318996 TATATA-A-GTAT-TA-AATAT-AAG
1 TATATATACATATATATAATATAAAG
* *
319017 TATATGTACATA-A-A-AGTAT-AAG
1 TATATATACATATATATAATATAAAG
319039 TATATATA-ATATA-ATTAATTATAAAG
1 TATATATACATATATA-TAA-TATAAAG
319065 ACTAAAATAT
Statistics
Matches: 266, Mismatches: 28, Indels: 97
0.68 0.07 0.25
Matches are distributed among these distances:
19 7 0.03
20 3 0.01
21 28 0.11
22 22 0.08
23 30 0.11
24 43 0.16
25 39 0.15
26 26 0.10
27 42 0.16
28 8 0.03
30 16 0.06
32 2 0.01
ACGTcount: A:0.51, C:0.03, G:0.07, T:0.40
Consensus pattern (26 bp):
TATATATACATATATATAATATAAAG
Found at i:318759 original size:23 final size:23
Alignment explanation
Indices: 318732--319052 Score: 148
Period size: 25 Copynumber: 13.6 Consensus size: 23
318722 GTATATATAC
318732 ATATATGATAATATAAAGTATAAGT
1 ATATAT-AT-ATATAAAGTATAAGT
318757 ATATTATATATATAAAGTATAA-T
1 ATA-TATATATATAAAGTATAAGT
*
318780 ATA-AGACTAATATATAAGTAT-A-T
1 ATATATA-T-ATATA-AAGTATAAGT
* *
318803 A-ATACAATATATAAGATTA-AAGT
1 ATATA-TATATATAA-AGTATAAGT
* *
318826 ATATATACATATAAAGTACAAGT
1 ATATATATATATAAAGTATAAGT
*
318849 ATATATATATAT--ATTAT-A-T
1 ATATATATATATAAAGTATAAGT
** *
318868 ATATATATATAATTTTAGTATAAAT
1 ATATATATAT-A-TAAAGTATAAGT
* *
318893 ATATACATATATAATAATATAAAGT
1 ATATATATATATAA-AGTAT-AAGT
* *
318918 TTATATATATATATAACTATAAGT
1 ATATATATATATA-AAGTATAAGT
* * *
318942 ATAAATAATATATAAAGTTTTAGT
1 ATATAT-ATATATAAAGTATAAGT
*
318966 ATAAGTATATATACTATA-TACTAA-T
1 AT-A-TATATATA-TAAAGTA-TAAGT
* * *
318991 AAAACTATATAAGTATTAAATATAAGT
1 -ATA-TATAT-A-TATAAAGTATAAGT
* *
319018 ATATGTACATA-AAAGTATAAGT
1 ATATATATATATAAAGTATAAGT
319040 ATATATA-ATATAA
1 ATATATATATATAA
319053 TTAATTATAA
Statistics
Matches: 228, Mismatches: 37, Indels: 65
0.69 0.11 0.20
Matches are distributed among these distances:
19 11 0.05
20 2 0.01
21 10 0.04
22 31 0.14
23 45 0.20
24 47 0.21
25 57 0.25
26 20 0.09
27 5 0.02
ACGTcount: A:0.52, C:0.03, G:0.07, T:0.39
Consensus pattern (23 bp):
ATATATATATATAAAGTATAAGT
Found at i:318765 original size:75 final size:76
Alignment explanation
Indices: 318680--318828 Score: 182
Period size: 75 Copynumber: 2.0 Consensus size: 76
318670 ACTTTTATCA
* ** *
318680 TATACTTATATATATATA-TATATATATATAGTTTTA-ATATAAGTATAT-ATACATATATGATA
1 TATACTTATATATATAAAGTATA-ATATA-AGACTAATATATAAGTATATAATACA-ATAT-ATA
*
318742 ATA-TAAAGTATAAG
62 AGATTAAAGTATAAG
318756 TATA-TTATATATATAAAGTATAATATAAGACTAATATATAAGTATATAATACAATATATAAGAT
1 TATACTTATATATATAAAGTATAATATAAGACTAATATATAAGTATATAATACAATATATAAGAT
318820 TAAAGTATA
66 TAAAGTATA
318829 TATACATATA
Statistics
Matches: 64, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
74 9 0.14
75 42 0.66
76 13 0.20
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (76 bp):
TATACTTATATATATAAAGTATAATATAAGACTAATATATAAGTATATAATACAATATATAAGAT
TAAAGTATAAG
Found at i:318783 original size:29 final size:30
Alignment explanation
Indices: 318692--318985 Score: 130
Period size: 30 Copynumber: 9.5 Consensus size: 30
318682 TACTTATATA
* *
318692 TATATATATATATATATAGTTTTAATATAAG
1 TATATATATATATATAAAG-TATAATATAAG
*
318723 TATATATACATATATGATAA-TATAAAGTATAAG
1 TATATATATATATAT-A-AAGTAT-AA-TATAAG
318756 TATAT-TATATATATAAAGTATAATATAAG
1 TATATATATATATATAAAGTATAATATAAG
* *
318785 ACTAATATATAAGTATATAATACAATATATAAGATTAAAG
1 --T-ATATAT-A-TATAT-ATA-AA-GTATAATA-T-AAG
*
318825 TATATATACATATAAAGTACAAGTAT-ATAT-A-
1 TATATAT--ATATATA-TA-AAGTATAATATAAG
* * *
318856 TATATATTATATATATATA-TATAATTTTAG
1 TATATA-TATATATATAAAGTATAATATAAG
* * *
318886 TATAAATATATACATATA-TAATAATATAAAG
1 TATATATATATATATAAAGT-ATAATAT-AAG
*
318917 T-T-TATATATATAT--A-TA-ACTATAAG
1 TATATATATATATATAAAGTATAATATAAG
* * *
318941 TATAAATA-ATATATAAAGTTTTAGTATAAG
1 TATATATATATATATAAAG-TATAATATAAG
318971 TATATATACTATATA
1 TATATATA-TATATA
318986 CTAATAAAAC
Statistics
Matches: 206, Mismatches: 24, Indels: 65
0.70 0.08 0.22
Matches are distributed among these distances:
24 4 0.02
25 11 0.05
26 4 0.02
27 6 0.03
28 4 0.02
29 31 0.15
30 36 0.17
31 30 0.15
32 22 0.11
33 13 0.06
34 2 0.01
35 7 0.03
36 7 0.03
37 17 0.08
38 8 0.04
39 1 0.00
40 3 0.01
ACGTcount: A:0.50, C:0.03, G:0.06, T:0.41
Consensus pattern (30 bp):
TATATATATATATATAAAGTATAATATAAG
Found at i:318868 original size:75 final size:78
Alignment explanation
Indices: 318696--318880 Score: 192
Period size: 75 Copynumber: 2.4 Consensus size: 78
318686 TATATATATA
* * *
318696 TATATATATATATAGTTTTAATATAAGTATAT-ATACATATATGATAATATAAAGTATAAGTATA
1 TATATATATATATACTTAT-ATATAAGTATATAATACATATATGATAAGATAAAGTATAAGTATA
* *
318760 TTATATATATAAAG
65 TCATATAAATAAAG
* *
318774 TATA-ATATA-AGACTAATATATAAGTATATAATACA-ATAT-ATAAGATTAAAGTAT-A-TATA
1 TATATATATATATACTTATATATAAGTATATAATACATATATGATAAGA-TAAAGTATAAGTATA
318833 -CATATAAAGTACAAG
65 TCATATAAA-TA-AAG
318848 TATATATATATATA-TTATATATATA-TATATAAT
1 TATATATATATATACTTATATATA-AGTATATAAT
318881 TTTAGTATAA
Statistics
Matches: 91, Mismatches: 9, Indels: 17
0.78 0.08 0.15
Matches are distributed among these distances:
72 6 0.07
73 6 0.07
74 13 0.14
75 45 0.49
76 12 0.13
77 5 0.05
78 4 0.04
ACGTcount: A:0.51, C:0.03, G:0.06, T:0.40
Consensus pattern (78 bp):
TATATATATATATACTTATATATAAGTATATAATACATATATGATAAGATAAAGTATAAGTATAT
CATATAAATAAAG
Found at i:318931 original size:102 final size:100
Alignment explanation
Indices: 318657--318955 Score: 228
Period size: 102 Copynumber: 2.9 Consensus size: 100
318647 TACAAAACTT
* * *
318657 TATATATATATATACTTTTA-TCATATACT-TATATATATATATATATATATATAGTTT-TAATA
1 TATATATATATATAATTTTAGT-ATA-AATATATA-ATATATA-ATA-ATATAAAGTTTAT-ATA
* *
318719 TAAGTATATATACATATATG-ATAATATAAAGTATAAGTATATTA
60 T-A-TATATATACATATAAGTATAATATATA-TAT-AGTATATTA
* * * *
318763 TATATATAAAGTATAATATAAG-ACT-AATATATAAGTATATAATACAATATATAAGATTA-A-A
1 TATATATATA-TATAATTTTAGTA-TAAATATATAA-TATATAAT--AATATA-AAGTTTATATA
* *
318824 -GTATATATACATATAAAGTACAAGTATATATATA-TATATTA
60 TATATATATACATAT-AAGTATAA-TATATATATAGTATATTA
318865 TATATATATATATAATTTTAGTATAAATATATACATATATAATAATATAAAGTTTATATATATAT
1 TATATATATATATAATTTTAGTATAAATATATA-ATATATAATAATATAAAGTTTATATATATAT
318930 ATA-AC-TATAAGTATAA-ATAATATATA
65 ATATACATATAAGTATAATAT-ATATATA
318956 AAGTTTTAGT
Statistics
Matches: 157, Mismatches: 17, Indels: 46
0.71 0.08 0.21
Matches are distributed among these distances:
97 2 0.01
98 7 0.04
99 13 0.08
100 10 0.06
101 13 0.08
102 52 0.33
103 4 0.03
104 6 0.04
105 11 0.07
106 26 0.17
107 13 0.08
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (100 bp):
TATATATATATATAATTTTAGTATAAATATATAATATATAATAATATAAAGTTTATATATATATA
TATACATATAAGTATAATATATATATAGTATATTA
Done.