Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008747.1 Hibiscus syriacus cultivar Beakdansim tig00111837_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: 12616935
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 51
Found at i:2395959 original size:15 final size:17
Alignment explanation
Indices: 2395941--2396148 Score: 81
Period size: 17 Copynumber: 11.8 Consensus size: 17
2395931 TTAATAAATA
2395941 ATATAGTTTATATATAT
1 ATATAGTTTATATATAT
2395958 ATATAGTTTATATACTA-
1 ATATAGTTTATATA-TAT
* *
2395975 ATGA-ACTATATACTATAT
1 AT-ATAGTTTATA-TATAT
*
2395993 AGT-TTGTATATATCATATACT
1 A-TATAGT-T-TAT-ATATA-T
*
2396014 ATATAGGTTATATATACT
1 ATATAGTTTATATATA-T
**
2396032 A-AT-GAACTATATA-AT
1 ATATAG-TTTATATATAT
*
2396047 ATATAGTTCATATATACT
1 ATATAGTTTATATATA-T
**
2396065 A-AT-GAACTATATATAAT
1 ATATAG-TTTATATAT-AT
* * *
2396082 GTATAGATTATATATACC
1 ATATAGTTTATATATA-T
*
2396100 ATATAGTCTATATATAT
1 ATATAGTTTATATATAT
*
2396117 TTATAGTTTATATATACT
1 ATATAGTTTATATATA-T
* *
2396135 AAATAGTATATATA
1 ATATAGTTTATATA
2396149 GGTCATATGT
Statistics
Matches: 142, Mismatches: 27, Indels: 43
0.67 0.13 0.20
Matches are distributed among these distances:
15 2 0.01
16 10 0.07
17 58 0.41
18 53 0.37
19 5 0.04
20 9 0.06
21 5 0.04
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.44
Consensus pattern (17 bp):
ATATAGTTTATATATAT
Found at i:2396003 original size:33 final size:33
Alignment explanation
Indices: 2395951--2396136 Score: 148
Period size: 33 Copynumber: 5.8 Consensus size: 33
2395941 ATATAGTTTA
2395951 TATATA-TATATAG-TT-TATATACTAATGAAC
1 TATATACTATATAGTTTATATATACTAATGAAC
*
2395981 TATATACTATATAG-TT-TGTATA-T-AT---C
1 TATATACTATATAGTTTATATATACTAATGAAC
*
2396007 -ATATACTATATAGGTTATATATACTAATGAAC
1 TATATACTATATAGTTTATATATACTAATGAAC
* *
2396039 TATATAATATATAGTTCATATATACTAATGAAC
1 TATATACTATATAGTTTATATATACTAATGAAC
* * *
2396072 TATATA-TAATGTATAGATTATATATACCATAT-AGTC
1 TATATACT-A--TATAGTTTATATATACTA-ATGA-AC
2396108 TATATA-TATTTATAGTTTATATATACTAA
1 TATATACTA--TATAGTTTATATATACTAA
2396137 ATAGTATATA
Statistics
Matches: 130, Mismatches: 12, Indels: 24
0.78 0.07 0.14
Matches are distributed among these distances:
25 13 0.10
26 3 0.02
27 5 0.04
28 1 0.01
29 4 0.03
30 7 0.05
31 14 0.11
32 2 0.02
33 36 0.28
34 1 0.01
35 34 0.26
36 10 0.08
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.44
Consensus pattern (33 bp):
TATATACTATATAGTTTATATATACTAATGAAC
Found at i:2396012 original size:25 final size:25
Alignment explanation
Indices: 2395982--2396029 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
2395972 CTAATGAACT
* *
2395982 ATATACTATATAGTTTGTATATATC
1 ATATACTATATAGGTTATATATATC
2396007 ATATACTATATAGGTTATATATA
1 ATATACTATATAGGTTATATATA
2396030 CTAATGAACT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.40, C:0.06, G:0.08, T:0.46
Consensus pattern (25 bp):
ATATACTATATAGGTTATATATATC
Found at i:2396061 original size:58 final size:55
Alignment explanation
Indices: 2395952--2396062 Score: 168
Period size: 58 Copynumber: 2.0 Consensus size: 55
2395942 TATAGTTTAT
* **
2395952 ATATATATATAGTTTATATACTAATGAACTATATACTATATAGTTTGTATATATC
1 ATATATATATAGTTTATATACTAATGAACTATATAATATATAGTTCATATATATC
2396007 ATATACTATATAGGTTATATATACTAATGAACTATATAATATATAGTTCATATATA
1 ATATA-TATATA-GTT-TATATACTAATGAACTATATAATATATAGTTCATATATA
2396063 CTAATGAACT
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
55 5 0.10
56 6 0.12
57 3 0.06
58 36 0.72
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.43
Consensus pattern (55 bp):
ATATATATATAGTTTATATACTAATGAACTATATAATATATAGTTCATATATATC
Found at i:2396141 original size:35 final size:34
Alignment explanation
Indices: 2396007--2396136 Score: 147
Period size: 35 Copynumber: 3.8 Consensus size: 34
2395997 TGTATATATC
*
2396007 ATATACTATATAGGTTATATATACTAATGAACTAT
1 ATATA-TATATAGTTTATATATACTAATGAACTAT
*
2396042 ATA-ATATATAGTTCATATATACTAATGAACTAT
1 ATATATATATAGTTTATATATACTAATGAACTAT
* * * *
2396075 ATATAATGTATAGATTATATATACCATAT-AGTCTAT
1 ATAT-ATATATAGTTTATATATACTA-ATGA-ACTAT
*
2396111 ATATATTTATAGTTTATATATACTAA
1 ATATATATATAGTTTATATATACTAA
2396137 ATAGTATATA
Statistics
Matches: 81, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
33 30 0.37
34 2 0.02
35 39 0.48
36 10 0.12
ACGTcount: A:0.43, C:0.08, G:0.07, T:0.42
Consensus pattern (34 bp):
ATATATATATAGTTTATATATACTAATGAACTAT
Found at i:2396173 original size:29 final size:28
Alignment explanation
Indices: 2396141--2396206 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 28
2396131 TACTAAATAG
2396141 TATATATAGGTCATATGTAAACTATAGTTTA
1 TATATATA-GTCA-ATGTAAACTATAG-TTA
*
2396172 TATATATAGTTAATGTAAACTATAGTTA
1 TATATATAGTCAATGTAAACTATAGTTA
2396200 GTATATA
1 -TATATA
2396207 AACTATATAG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
28 3 0.09
29 19 0.58
30 3 0.09
31 8 0.24
ACGTcount: A:0.41, C:0.05, G:0.12, T:0.42
Consensus pattern (28 bp):
TATATATAGTCAATGTAAACTATAGTTA
Found at i:2396174 original size:18 final size:18
Alignment explanation
Indices: 2396153--2396241 Score: 77
Period size: 18 Copynumber: 5.2 Consensus size: 18
2396143 TATATAGGTC
2396153 ATATGTAAACTATAGTTT
1 ATATGTAAACTATAGTTT
2396171 ATA--T--A-TATAG-TT
1 ATATGTAAACTATAGTTT
2396183 A-ATGTAAACTATAG-TT
1 ATATGTAAACTATAGTTT
*
2396199 AGTATATAAACTATATAGTTT
1 A-TATGTAAAC--TATAGTTT
*
2396220 ATATGTAAACTATAGTTC
1 ATATGTAAACTATAGTTT
2396238 ATAT
1 ATAT
2396242 ATTATATAAA
Statistics
Matches: 58, Mismatches: 3, Indels: 20
0.72 0.04 0.25
Matches are distributed among these distances:
11 1 0.02
12 3 0.05
13 6 0.10
14 1 0.02
15 1 0.02
16 9 0.16
18 21 0.36
20 13 0.22
21 3 0.05
ACGTcount: A:0.42, C:0.06, G:0.10, T:0.43
Consensus pattern (18 bp):
ATATGTAAACTATAGTTT
Found at i:2396195 original size:20 final size:20
Alignment explanation
Indices: 2396172--2396233 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
2396162 CTATAGTTTA
2396172 TATATATAGTTAATGTAAAC
1 TATATATAGTTAATGTAAAC
*
2396192 TATAGT-TAG-T-ATATAAAC
1 TATA-TATAGTTAATGTAAAC
2396210 --TATATAGTTTATATGTAAAC
1 TATATATAG-TTA-ATGTAAAC
2396230 TATA
1 TATA
2396234 GTTCATATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 14
0.67 0.04 0.29
Matches are distributed among these distances:
15 1 0.03
16 5 0.16
18 8 0.25
19 1 0.03
20 14 0.44
21 1 0.03
22 2 0.06
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.42
Consensus pattern (20 bp):
TATATATAGTTAATGTAAAC
Found at i:2396227 original size:67 final size:65
Alignment explanation
Indices: 2396143--2396272 Score: 181
Period size: 67 Copynumber: 2.0 Consensus size: 65
2396133 CTAAATAGTA
* * *
2396143 TATATAGGTCATATGTAAACTATAGTTTATATA-TATAGTTAATGTAAACTATAGTTAGTATATA
1 TATATAGGTCATATGTAAACTATAGTTCATATATTATA-TAAATATAAACTATAGTT--TATATA
2396207 AAC
63 AAC
* *
2396210 TATATAGTTTATATGTAAACTATAGTTCATATATTATATAAATATAAACTATAGTTTATATAA
1 TATATAGGTCATATGTAAACTATAGTTCATATATTATATAAATATAAACTATAGTTTATATAA
2396273 TAGTATAAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
65 7 0.12
67 46 0.81
68 4 0.07
ACGTcount: A:0.43, C:0.05, G:0.09, T:0.42
Consensus pattern (65 bp):
TATATAGGTCATATGTAAACTATAGTTCATATATTATATAAATATAAACTATAGTTTATATAAAC
Found at i:2396242 original size:20 final size:19
Alignment explanation
Indices: 2396184--2396243 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 19
2396174 TATATAGTTA
2396184 ATGTAAACTATAGTTAGTAT
1 ATGTAAACTATAGTTA-TAT
2396204 A--TAAACTATATAGTT-TAT
1 ATGTAAAC--TATAGTTATAT
2396222 ATGTAAACTATAGTTCATAT
1 ATGTAAACTATAGTT-ATAT
2396242 AT
1 AT
2396244 TATATAAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
18 16 0.47
20 18 0.53
ACGTcount: A:0.42, C:0.07, G:0.10, T:0.42
Consensus pattern (19 bp):
ATGTAAACTATAGTTATAT
Found at i:2396243 original size:29 final size:29
Alignment explanation
Indices: 2396210--2396286 Score: 84
Period size: 29 Copynumber: 2.6 Consensus size: 29
2396200 GTATATAAAC
* * *
2396210 TATATAGTTTATATGTAAACTATAGTTCA
1 TATATAGTATAAATATAAACTATAGTTCA
*
2396239 TATATTA-TATAAATATAAACTATAGTTTA
1 TATA-TAGTATAAATATAAACTATAGTTCA
2396268 TATAATAGTATAAAATATA
1 TAT-ATAGTAT-AAATATA
2396287 GTATATAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
29 27 0.68
30 6 0.15
31 7 0.17
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (29 bp):
TATATAGTATAAATATAAACTATAGTTCA
Found at i:2396279 original size:24 final size:22
Alignment explanation
Indices: 2396243--2396308 Score: 82
Period size: 22 Copynumber: 3.0 Consensus size: 22
2396233 AGTTCATATA
*
2396243 TTATATAAATATAAACTATAGT
1 TTATATAAATATAAAATATAGT
2396265 TTATATAATAGTATAAAATATAG-
1 TTATATAA-A-TATAAAATATAGT
*
2396288 -TATATAAATATAAATTATAGT
1 TTATATAAATATAAAATATAGT
2396309 ATGTAGTTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
20 11 0.28
21 1 0.03
22 15 0.38
23 1 0.03
24 11 0.28
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.41
Consensus pattern (22 bp):
TTATATAAATATAAAATATAGT
Found at i:2396287 original size:12 final size:13
Alignment explanation
Indices: 2396251--2396299 Score: 57
Period size: 12 Copynumber: 3.8 Consensus size: 13
2396241 TATTATATAA
2396251 ATATAAACTATAGT
1 ATATAAA-TATAGT
* *
2396265 TTATATA-ATAGT
1 ATATAAATATAGT
2396277 ATA-AAATATAGT
1 ATATAAATATAGT
2396289 ATATAAATATA
1 ATATAAATATA
2396300 AATTATAGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
11 2 0.07
12 15 0.52
13 7 0.24
14 5 0.17
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.39
Consensus pattern (13 bp):
ATATAAATATAGT
Found at i:2396291 original size:29 final size:29
Alignment explanation
Indices: 2396225--2396286 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
2396215 AGTTTATATG
*
2396225 TAAACTATAGTTCATATATTATATAAATA
1 TAAACTATAGTTCATATAATATATAAATA
*
2396254 TAAACTATAGTTTATATAATAGTATAAAATA
1 TAAACTATAGTTCATATAATA-TAT-AAATA
2396285 TA
1 TA
2396287 GTATATAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 19 0.66
30 3 0.10
31 7 0.24
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.40
Consensus pattern (29 bp):
TAAACTATAGTTCATATAATATATAAATA
Found at i:2396307 original size:20 final size:20
Alignment explanation
Indices: 2396238--2396310 Score: 83
Period size: 20 Copynumber: 3.5 Consensus size: 20
2396228 ACTATAGTTC
*
2396238 ATATATTATATAAATATAAA
1 ATATAGTATATAAATATAAA
*
2396258 CTATAGTTTATATAATAGTATAAA
1 ATATAG--TATATAA-A-TATAAA
2396282 ATATAGTATATAAATATAAA
1 ATATAGTATATAAATATAAA
*
2396302 TTATAGTAT
1 ATATAGTAT
2396311 GTAGTTTATA
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
20 18 0.40
21 1 0.02
22 14 0.31
23 1 0.02
24 11 0.24
ACGTcount: A:0.52, C:0.01, G:0.05, T:0.41
Consensus pattern (20 bp):
ATATAGTATATAAATATAAA
Found at i:2396458 original size:11 final size:11
Alignment explanation
Indices: 2396367--2396480 Score: 69
Period size: 11 Copynumber: 10.5 Consensus size: 11
2396357 ATATATAACA
2396367 ATATAATTTAT
1 ATATAATTTAT
**
2396378 AT-TAATAAACT
1 ATATAATTTA-T
2396389 ATATAATTTAT
1 ATATAATTTAT
*
2396400 ACA-ATATATTAT
1 ATATA-AT-TTAT
*
2396412 TTATAA-TTAT
1 ATATAATTTAT
* *
2396422 ACATAATATAT
1 ATATAATTTAT
*
2396433 AATATAA-AT-T
1 -ATATAATTTAT
*
2396443 ATATAGTTTAT
1 ATATAATTTAT
*
2396454 ATATAATTCAT
1 ATATAATTTAT
2396465 ATA-AATTTAT
1 ATATAATTTAT
2396475 ATATAA
1 ATATAA
2396481 CTATGTAGTT
Statistics
Matches: 77, Mismatches: 16, Indels: 20
0.68 0.14 0.18
Matches are distributed among these distances:
9 5 0.06
10 25 0.32
11 30 0.39
12 16 0.21
13 1 0.01
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.46
Consensus pattern (11 bp):
ATATAATTTAT
Found at i:2396558 original size:27 final size:28
Alignment explanation
Indices: 2396519--2396577 Score: 93
Period size: 27 Copynumber: 2.1 Consensus size: 28
2396509 CATATATAAC
* *
2396519 TATATAGTATTATAGTTTATACATGATA
1 TATATAGTATTATACTTTATACATAATA
2396547 TATATAGT-TTATACTTTATACATAATA
1 TATATAGTATTATACTTTATACATAATA
2396574 TATA
1 TATA
2396578 AACTATTAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 21 0.72
28 8 0.28
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.47
Consensus pattern (28 bp):
TATATAGTATTATACTTTATACATAATA
Found at i:2396609 original size:18 final size:18
Alignment explanation
Indices: 2396588--2396638 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
2396578 AACTATTAGT
*
2396588 TATATATATACATATTTA
1 TATATATATATATATTTA
*
2396606 TATAAAT-TATATAGTTTA
1 TATATATATATATA-TTTA
2396624 TAT-TATATATATATT
1 TATATATATATATATT
2396639 AGTTGTTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
17 9 0.32
18 19 0.68
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (18 bp):
TATATATATATATATTTA
Found at i:2397243 original size:208 final size:208
Alignment explanation
Indices: 2396660--2397449 Score: 1037
Period size: 208 Copynumber: 3.8 Consensus size: 208
2396650 TTTTTTCTCA
* * * *
2396660 ACTTATTACTTATTTATATTTATT-AATTGGTCC-TAACTTTTTAAA-GAGTATAATTTAGTACA
1 ACTTATTACTTATTTCTATTT-TTAAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACT
* *
2396722 TTTTTGTATTAATTTCAACCTCAAAATTTTAAATTATTTCGATTTGATCCCT-TTGTGTTGTTTA
65 TTTTTGTATTAATTTCAACCTCAAAATTTAAAATTATTTCGATTTGATCCCTAATGTGTTG-TTA
* *
2396786 A--TATTAAATTTTTATATGTAATTTCATATTTATTCAATTTAGTCCTCC-AATTTTATTTGCAC
129 ATTTATTAAATTTTTATTTGTAATTTCATATTTATTCAATTTAGTCCTCCAAATTTTATTTGCAT
*
2396848 CTGAAATTGACCC-T
194 ATGAAATTGACCCAT
2396862 ACTTATTACTTATTTCTATTTTTAAATTGG-CCAT-ACTTTTTAAATGGGTATAA-TTAGTA-TT
1 ACTTATTACTTATTTCTATTTTTAAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACTT
* **
2396923 TTTTGTATTAATTTTAACCTCAAAATTTAAAATTATTTCGATTTGATCCCTTTTGTGTTGTTTAA
66 TTTTGTATTAATTTCAACCTCAAAATTTAAAATTATTTCGATTTGATCCCTAATGTGTTG-TTAA
*
2396988 TATATTTAAA---TT-TTT-TAATTTCATATTTATTCAATTTAGTCCTCCAAATTTTATTTGCAT
130 TTTA-TTAAATTTTTATTTGTAATTTCATATTTATTCAATTTAGTCCTCCAAATTTTATTTGCAT
2397048 ATGAAATTGACCCAT
194 ATGAAATTGACCCAT
2397063 ACTTATTACTTATTTCTATTTTTAAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACTT
1 ACTTATTACTTATTTCTATTTTTAAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACTT
** *
2397128 TTTTGTATT-ATTTCAATATCACAATTTAAAATTATTTC-ATTTGATCCTCATCAATGTGTTG-T
66 TTTTGTATTAATTTCAACCTCAAAATTTAAAATTATTTCGATTTGATCC-C-T-AATGTGTTGTT
*
2397190 AATTTATTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATTTGCA
128 AATTTATTAAATTTTTATTTGTAATTTCATATTTATTCAATTTAGTCCTCCAAATTTTATTTGCA
*
2397255 TATGAAATTGATCCAT
193 TATGAAATTGACCCAT
* * * * *
2397271 ATTTATTACTTAATTCTATTTTTTTAATTGACCCATAACTTTTTAAATGGGTATAATTTAGT-TT
1 ACTTATTACTTATTTCTA-TTTTTAAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACT
*
2397335 TTTTTGTATTAATTTCAACCTCACAATTTAAAATTATTTCGATTTGATCCCTCATCAATGTGTGT
65 TTTTTGTATTAATTTCAACCTCAAAATTTAAAATTATTTCGATTTGAT-CC-C-T-AA--TGTGT
* ** *
2397400 TGTTTAATTTATAAAAAAATTTATTTGTAATTTCATATTTGTTCAATTTA
124 TG-TTAATTTAT-TAAATTTTTATTTGTAATTTCATATTTATTCAATTTA
2397450 ATTCTTAAAT
Statistics
Matches: 531, Mismatches: 27, Indels: 46
0.88 0.04 0.08
Matches are distributed among these distances:
199 30 0.06
200 77 0.15
201 66 0.12
202 38 0.07
203 35 0.07
204 43 0.08
205 12 0.02
206 9 0.02
207 3 0.01
208 85 0.16
209 68 0.13
210 7 0.01
211 9 0.02
213 7 0.01
215 8 0.02
216 34 0.06
ACGTcount: A:0.30, C:0.12, G:0.08, T:0.50
Consensus pattern (208 bp):
ACTTATTACTTATTTCTATTTTTAAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACTT
TTTTGTATTAATTTCAACCTCAAAATTTAAAATTATTTCGATTTGATCCCTAATGTGTTGTTAAT
TTATTAAATTTTTATTTGTAATTTCATATTTATTCAATTTAGTCCTCCAAATTTTATTTGCATAT
GAAATTGACCCAT
Found at i:2397778 original size:193 final size:196
Alignment explanation
Indices: 2397445--2397834 Score: 750
Period size: 193 Copynumber: 2.0 Consensus size: 196
2397435 TATTTGTTCA
2397445 ATTTAATTCTTAAATTTGTATTTTTCATAAAATTGAACAATGATTATTTATATTCTTAGTAATTT
1 ATTTAATTCTTAAATTTGTATTTTTCATAAAATTGAACAATGATTATTTATATTCTTA-TAATTT
2397510 ACTCTAAATCATATACAATTACAAATTGCAATTCAACGTTCGCGAAAGACGAAAATAATTAATCC
65 ACTCTAAATCATATACAATTACAAATTGCAATTCAACGTTCGCGAAAGACGAAAATAATTAATCC
2397575 AAAAATAAAAATTAACCCGATTTGAGCTCAATCCGTATTTGATAGAGATCAGACCTGAATTTTAT
130 AAAAATAAAAATTAACCCGATTTGAGCTCAATCCGTATTTGATAGAGATCAGACCTGAATTTTAT
2397640 CT
195 CT
2397642 ATTTAATTCTTAAATTTGTATTTTTCATAAAATTGAACAATGATTATTTATATTC-T-T-ATTTA
1 ATTTAATTCTTAAATTTGTATTTTTCATAAAATTGAACAATGATTATTTATATTCTTATAATTTA
2397704 CTCTAAATCATATACAATTACAAATTGCAATTCAACGTTCGCGAAAGACGAAAATAATTAATCCA
66 CTCTAAATCATATACAATTACAAATTGCAATTCAACGTTCGCGAAAGACGAAAATAATTAATCCA
2397769 AAAATAAAAATTAACCCGATTTGAGCTCAATCCGTATTTGATAGAGATCAGACCTGAATTTTATC
131 AAAATAAAAATTAACCCGATTTGAGCTCAATCCGTATTTGATAGAGATCAGACCTGAATTTTATC
2397834 T
196 T
2397835 GCCAATGATG
Statistics
Matches: 193, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
193 136 0.70
194 1 0.01
196 1 0.01
197 55 0.28
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.37
Consensus pattern (196 bp):
ATTTAATTCTTAAATTTGTATTTTTCATAAAATTGAACAATGATTATTTATATTCTTATAATTTA
CTCTAAATCATATACAATTACAAATTGCAATTCAACGTTCGCGAAAGACGAAAATAATTAATCCA
AAAATAAAAATTAACCCGATTTGAGCTCAATCCGTATTTGATAGAGATCAGACCTGAATTTTATC
T
Found at i:2408002 original size:38 final size:37
Alignment explanation
Indices: 2407951--2408058 Score: 144
Period size: 38 Copynumber: 2.9 Consensus size: 37
2407941 TTTATTACTG
* * *
2407951 AATAAGTTGGAATCTCCAACATTAGTCTTAGGGACTTA
1 AATAAGTTGGAATCTCCAACATTAGT-TTAGGAAATCA
* *
2407989 AATAAGTTGGAATCTCTAACATTAGTTCTAGGAAATCG
1 AATAAGTTGGAATCTCCAACATTAGTT-TAGGAAATCA
*
2408027 AATAAGTTGTAATCTCCAACATTAGTTTAGGA
1 AATAAGTTGGAATCTCCAACATTAGTTTAGGA
2408059 TGATTGCTAT
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
37 6 0.10
38 56 0.90
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (37 bp):
AATAAGTTGGAATCTCCAACATTAGTTTAGGAAATCA
Found at i:2409051 original size:19 final size:20
Alignment explanation
Indices: 2409010--2409051 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
2409000 ACACCATGTG
*
2409010 TTTGTTTAAATGCTTTTTAT
1 TTTGTTTAAATGCTTTATAT
2409030 TTTGTTT-AATG-TTTATAGT
1 TTTGTTTAAATGCTTTATA-T
2409049 TTT
1 TTT
2409052 TGTTCATGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 5 0.25
19 8 0.40
20 7 0.35
ACGTcount: A:0.19, C:0.02, G:0.12, T:0.67
Consensus pattern (20 bp):
TTTGTTTAAATGCTTTATAT
Found at i:2411500 original size:29 final size:29
Alignment explanation
Indices: 2411466--2411524 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
2411456 GCTAAATTAA
2411466 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
2411495 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
2411524 T
1 T
2411525 AGGTGAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.49
Consensus pattern (29 bp):
TTTGATGTCATTGCTTACATCAATTTAGT
Found at i:2416171 original size:29 final size:29
Alignment explanation
Indices: 2416137--2416195 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
2416127 CCTAAATTAA
2416137 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
2416166 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
2416195 T
1 T
2416196 AGGTGAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.49
Consensus pattern (29 bp):
TTTGATGTCATTGCTTACATCAATTTAGT
Found at i:2419787 original size:136 final size:136
Alignment explanation
Indices: 2419529--2419777 Score: 347
Period size: 136 Copynumber: 1.8 Consensus size: 136
2419519 AAACCAGCAC
* * *
2419529 TATCATCAATAACATGCTGCTCACGTAGCCCATTAACAGGGGAGAAAGGCATAACATGGAGCCCT
1 TATCATCAATAACAAGCTGCTCACGTAGCCCATTAACAGAGGAGAAAGGCACAACATGGAGCCCT
* * * * *
2419594 GCACCAAAAGCATTCATGCTTACCACGTTATCAACTATATTCTATCCCTCAACATCCATAGTCAT
66 ACACCAAAAGCATTCATGCTAACCACATTATCAACTACATGCTATCCCTCAACATCCATAGTCAT
2419659 TGATTT
131 TGATTT
* * *
2419665 TATCGTCAATAACAAGCTGCTCGCGTTGCCCATTAACAGAGGAGAAAGGCACAACATGGAGCCCT
1 TATCATCAATAACAAGCTGCTCACGTAGCCCATTAACAGAGGAGAAAGGCACAACATGGAGCCCT
* * * *
2419730 ACACCCAAAGCATTCCTG-TAATCTACATTATCAACTACATGCTGTCCC
66 ACACCAAAAGCATTCATGCTAA-CCACATTATCAACTACATGCTATCCC
2419778 CTATCATCCA
Statistics
Matches: 97, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
135 2 0.02
136 95 0.98
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (136 bp):
TATCATCAATAACAAGCTGCTCACGTAGCCCATTAACAGAGGAGAAAGGCACAACATGGAGCCCT
ACACCAAAAGCATTCATGCTAACCACATTATCAACTACATGCTATCCCTCAACATCCATAGTCAT
TGATTT
Found at i:2434406 original size:27 final size:27
Alignment explanation
Indices: 2434376--2434436 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 27
2434366 TAAAATGTCA
** *
2434376 TTTTTCAAAAATTATGAAAATAACATT
1 TTTTTCAAAAATTACAAAAATAACACT
* *
2434403 TTTTTAAAAAAATTACAAAAATAGCACT
1 TTTTT-CAAAAATTACAAAAATAACACT
2434431 TTTTTC
1 TTTTTC
2434437 GAATTAATTC
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
27 5 0.19
28 22 0.81
ACGTcount: A:0.46, C:0.10, G:0.03, T:0.41
Consensus pattern (27 bp):
TTTTTCAAAAATTACAAAAATAACACT
Found at i:2434407 original size:28 final size:28
Alignment explanation
Indices: 2434382--2434435 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
2434372 GTCATTTTTC
** *
2434382 AAAAATTATGAAAATAACATTTTTTTAA
1 AAAAATTACAAAAATAACACTTTTTTAA
*
2434410 AAAAATTACAAAAATAGCACTTTTTT
1 AAAAATTACAAAAATAACACTTTTTT
2434436 CGAATTAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.52, C:0.07, G:0.04, T:0.37
Consensus pattern (28 bp):
AAAAATTACAAAAATAACACTTTTTTAA
Found at i:2441629 original size:29 final size:30
Alignment explanation
Indices: 2441597--2441654 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
2441587 TTATTTACAA
2441597 AATTACAAAAATAGCACCATTTT-AAAATT
1 AATTACAAAAATAGCACCATTTTCAAAATT
* *
2441626 AATTACCAATATAGCACCATTTTCAAAAT
1 AATTACAAAAATAGCACCATTTTCAAAAT
2441655 ATTTACTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 21 0.81
30 5 0.19
ACGTcount: A:0.48, C:0.17, G:0.03, T:0.31
Consensus pattern (30 bp):
AATTACAAAAATAGCACCATTTTCAAAATT
Found at i:2441683 original size:16 final size:16
Alignment explanation
Indices: 2441662--2441697 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
2441652 AATATTTACT
2441662 AAAATTTAATTTTTCA
1 AAAATTTAATTTTTCA
* *
2441678 AAAATTTCATTTTTTA
1 AAAATTTAATTTTTCA
2441694 AAAA
1 AAAA
2441698 AATTACAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (16 bp):
AAAATTTAATTTTTCA
Found at i:2441810 original size:13 final size:13
Alignment explanation
Indices: 2441792--2441819 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2441782 CGGTCAACGT
2441792 TCAACGGGTCGGG
1 TCAACGGGTCGGG
2441805 TCAACGGGTCGGG
1 TCAACGGGTCGGG
2441818 TC
1 TC
2441820 GGGTTGTAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.25, G:0.43, T:0.18
Consensus pattern (13 bp):
TCAACGGGTCGGG
Found at i:2441857 original size:20 final size:20
Alignment explanation
Indices: 2441832--2441884 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
2441822 GTTGTAACCT
* *
2441832 GTCAAACCTGTTAAAATCCG
1 GTCAAACCGGTCAAAATCCG
2441852 GTCAAACCGGTCAAAATCCG
1 GTCAAACCGGTCAAAATCCG
*
2441872 GTCAAACCAGTCA
1 GTCAAACCGGTCA
2441885 TTTTGACCTT
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:0.36, C:0.28, G:0.17, T:0.19
Consensus pattern (20 bp):
GTCAAACCGGTCAAAATCCG
Found at i:2441874 original size:11 final size:11
Alignment explanation
Indices: 2441844--2441877 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
2441834 CAAACCTGTT
2441844 AAAATCCGGTC
1 AAAATCCGGTC
2441855 -AAA-CCGGTC
1 AAAATCCGGTC
2441864 AAAATCCGGTC
1 AAAATCCGGTC
2441875 AAA
1 AAA
2441878 CCAGTCATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
9 6 0.29
10 6 0.29
11 9 0.43
ACGTcount: A:0.41, C:0.26, G:0.18, T:0.15
Consensus pattern (11 bp):
AAAATCCGGTC
Found at i:2447987 original size:30 final size:31
Alignment explanation
Indices: 2447952--2448010 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
2447942 GGACCAAAAC
* * *
2447952 AAAATT-TTAAAAGTTTGGTGATCAAAGTAT
1 AAAATTGTGAAAAGTTTGGAGACCAAAGTAT
2447982 AAAATTGTGAAAAGTTTGGAGACCAAAGT
1 AAAATTGTGAAAAGTTTGGAGACCAAAGT
2448011 GGTAATTTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 6 0.24
31 19 0.76
ACGTcount: A:0.44, C:0.05, G:0.20, T:0.31
Consensus pattern (31 bp):
AAAATTGTGAAAAGTTTGGAGACCAAAGTAT
Found at i:2450642 original size:30 final size:31
Alignment explanation
Indices: 2450602--2450659 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
2450592 ACCAAAACAT
* * *
2450602 AAATTTTG-AAAGTTTGGTGATCAAAGTATA
1 AAATTATGAAAAGTTTGGAGACCAAAGTATA
2450632 AAATTATGAAAAGTTTGGAGACCAAAGT
1 AAATTATGAAAAGTTTGGAGACCAAAGT
2450660 GGTAATTTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 7 0.29
31 17 0.71
ACGTcount: A:0.43, C:0.05, G:0.21, T:0.31
Consensus pattern (31 bp):
AAATTATGAAAAGTTTGGAGACCAAAGTATA
Found at i:2458588 original size:41 final size:41
Alignment explanation
Indices: 2458527--2458815 Score: 192
Period size: 41 Copynumber: 7.0 Consensus size: 41
2458517 AGTTCGATTT
* * *
2458527 TGGTAGCATGTAATAGTTCATCATTCAACTTGATTCGATCA
1 TGGTAACATGCAATAGTTCATCATTCAACTTAATTCGATCA
* *
2458568 TGGTAACATGCAATAATTCATCATTCAA-TTCAATTCAATCA
1 TGGTAACATGCAATAGTTCATCATTCAACTT-AATTCGATCA
** * * *
2458609 TGG-AAGCATAAAATAGTTCATCATTCAACTTGATTAGATTA
1 TGGTAA-CATGCAATAGTTCATCATTCAACTTAATTCGATCA
* * * * * *
2458650 TGGTAGCATGTAATAATTCACCATTCGA-TTCAATTCAATCA
1 TGGTAACATGCAATAGTTCATCATTCAACTT-AATTCGATCA
* ** * * * * *
2458691 CGACATCATACAATAGTTTATCATTCAGCTTTATTCGATCA
1 TGGTAACATGCAATAGTTCATCATTCAACTTAATTCGATCA
** * * **
2458732 TGGTGGCATGCAATAATTCACCATTCAA-TTAAATTTAATCA
1 TGGTAACATGCAATAGTTCATCATTCAACTT-AATTCGATCA
* * * *
2458773 TGG-AAGCATACAATAGTTCATCTTTCAACTTGATTTGATCA
1 TGGTAA-CATGCAATAGTTCATCATTCAACTTAATTCGATCA
2458814 TG
1 TG
2458816 AAATAATTCA
Statistics
Matches: 183, Mismatches: 56, Indels: 18
0.71 0.22 0.07
Matches are distributed among these distances:
40 8 0.04
41 168 0.92
42 7 0.04
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.35
Consensus pattern (41 bp):
TGGTAACATGCAATAGTTCATCATTCAACTTAATTCGATCA
Found at i:2458668 original size:82 final size:82
Alignment explanation
Indices: 2458538--2458849 Score: 390
Period size: 82 Copynumber: 3.9 Consensus size: 82
2458528 GGTAGCATGT
* *
2458538 AATAGTTCATCATTCAACTTGATTCGATCATGGTAACATGCAATAATTCATCATTCAATTCAATT
1 AATAGTTCATCATTCAACTTGATTCGATCATGGTAGCATGCAATAATTCACCATTCAATTCAATT
*
2458603 CAATCATGGAAGCATAA
66 CAATCATGGAAGCATAC
* * * *
2458620 AATAGTTCATCATTCAACTTGATTAGATTATGGTAGCATGTAATAATTCACCATTCGATTCAATT
1 AATAGTTCATCATTCAACTTGATTCGATCATGGTAGCATGCAATAATTCACCATTCAATTCAATT
* *
2458685 CAATCA-CGACATCATAC
66 CAATCATGGA-AGCATAC
* * * * *
2458702 AATAGTTTATCATTCAGCTTTATTCGATCATGGTGGCATGCAATAATTCACCATTCAATTAAATT
1 AATAGTTCATCATTCAACTTGATTCGATCATGGTAGCATGCAATAATTCACCATTCAATTCAATT
*
2458767 TAATCATGGAAGCATAC
66 CAATCATGGAAGCATAC
* * *
2458784 AATAGTTCATCTTTCAACTTGATTTGATCA---T-G-A---AATAATTCAACATTCAATTCAATT
1 AATAGTTCATCATTCAACTTGATTCGATCATGGTAGCATGCAATAATTCACCATTCAATTCAATT
2458841 CAATCATGG
66 CAATCATGG
2458850 CATAAAGCAA
Statistics
Matches: 199, Mismatches: 29, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
74 30 0.15
77 1 0.01
78 1 0.01
79 1 0.01
81 2 0.01
82 162 0.81
83 2 0.01
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.35
Consensus pattern (82 bp):
AATAGTTCATCATTCAACTTGATTCGATCATGGTAGCATGCAATAATTCACCATTCAATTCAATT
CAATCATGGAAGCATAC
Found at i:2463122 original size:55 final size:55
Alignment explanation
Indices: 2463050--2463208 Score: 210
Period size: 55 Copynumber: 2.9 Consensus size: 55
2463040 GGCACTAAGT
* *
2463050 GTGCAAAAACTTAAGAAATCCATAGTAAGTGTATGTATTTCTGTATGGGCAATTTGA
1 GTGC-AAAAC-TAAGAAATCCATACTAAGTGTATGAATTTCTGTATGGGCAATTTGA
* * * * * *
2463107 GTTCACAACTAAGAAATTCATACTAAGAGTATGAATTTCTGTATGGGCACTTTGT
1 GTGCAAAACTAAGAAATCCATACTAAGTGTATGAATTTCTGTATGGGCAATTTGA
* *
2463162 GTGCAAAACTAAGAAATCCATACTAAGTGTGTGAATTTCCGTATGGG
1 GTGCAAAACTAAGAAATCCATACTAAGTGTATGAATTTCTGTATGGG
2463209 AAATATATGT
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
55 81 0.92
56 4 0.05
57 3 0.03
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (55 bp):
GTGCAAAACTAAGAAATCCATACTAAGTGTATGAATTTCTGTATGGGCAATTTGA
Found at i:2463502 original size:68 final size:68
Alignment explanation
Indices: 2463420--2463606 Score: 284
Period size: 68 Copynumber: 2.8 Consensus size: 68
2463410 AAGATTAATG
* * * *
2463420 GGCCTAACTATGCATTTGACATAAAGGTGTCAATTATGCCATTTAGATGAAAGGCTAAGTGCCTT
1 GGCCTAACTGTGCATTTGACAGAAAGGTGTAAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
2463485 TGA
66 TGA
* ** *
2463488 GGCCTAACTGTGCATTTGACAGAAAAGTGTTTATTATGCCAGTTAGATGATAGGCTAAGTGCCTT
1 GGCCTAACTGTGCATTTGACAGAAAGGTGTAAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
2463553 TGA
66 TGA
* *
2463556 GGCCTAACTGTGCATTTGGCAGAAAGGTGTAAATTATGCCAGTTACATGAA
1 GGCCTAACTGTGCATTTGACAGAAAGGTGTAAATTATGCCAGTTAGATGAA
2463607 CAGTTAAATA
Statistics
Matches: 106, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
68 106 1.00
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (68 bp):
GGCCTAACTGTGCATTTGACAGAAAGGTGTAAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
TGA
Found at i:2463704 original size:81 final size:81
Alignment explanation
Indices: 2463556--2463793 Score: 343
Period size: 81 Copynumber: 2.9 Consensus size: 81
2463546 GTGCCTTTGA
* * *
2463556 GGCCTAACTGTGCATTTGGCAGAAAGGTGTAAATTATGCCAGTTACATGAAC-AGTTAAATACCG
1 GGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGA-TTAAATACCG
*
2463620 TTGAGTAAAAGATTATT
65 TTGAGTAAAAGATTAAT
* * * * * *
2463637 TGCCTTGTTGTGCATTTGGCAGAAAGGTCTCAACTATGCCAGTTAGATGAACGATTAAATACTGT
1 GGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGATTAAATACCGT
2463702 TGAGTAAAAGATTAAT
66 TGAGTAAAAGATTAAT
* * *
2463718 GGCCTAGCTGTGCATTTGACATAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
1 GGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGATTAAATACCGT
2463783 TGAGTAAAAGA
66 TGAGTAAAAGA
2463794 GTGCATTTGG
Statistics
Matches: 137, Mismatches: 19, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
81 136 0.99
82 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (81 bp):
GGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGATTAAATACCGT
TGAGTAAAAGATTAAT
Found at i:2463914 original size:148 final size:151
Alignment explanation
Indices: 2463649--2464262 Score: 655
Period size: 162 Copynumber: 3.9 Consensus size: 151
2463639 CCTTGTTGTG
* * * *
2463649 CATTTGGCAGAAAGGTCTCAACTATGCCAGTTAGATGAACGATTAAATACTGTTGAGTAAAAGAT
1 CATTTGGTAGAAAGGTGTCAATTATGCCAGTTAGATGAACGATTAAATACCGTTGAGTAAAAGAT
*
2463714 TAATGGCCTAGCTGTGCATTTGACATAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATA
66 TAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATA
2463779 CCGTTGAGTAAAAG-AG-TG-
131 CCGTTGAGTAAAAGTAGCTGT
*
2463797 CATTTGGTAGAAATGTGTCAATTATGCCAGTTAGATGAACGATTAAATACCGTTGAGTAAAAGAT
1 CATTTGGTAGAAAGGTGTCAATTATGCCAGTTAGATGAACGATTAAATACCGTTGAGTAAAAGAT
* **
2463862 TAATGGCCTAGCTGTGCATTTGGA-AAAAATATGTCAATTATGCCAGTTAGATGAACGGTTAAAT
66 TAATGGCCTAGCTGTGCATTT-GACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAT
*
2463926 ACCGATGAGTAAAAGATTAACGTCCTAGCTGT
130 ACCGTTGAGT---A-A--AA-G---TAGCTGT
** * * * * * *
2463958 ACATTTCATAGAAAGGTGTCAATTAAGCTAGTTTGATGAACGGTTAAATACTGTTGAGTAAACGA
1 -CATTTGGTAGAAAGGTGTCAATTATGCCAGTTAGATGAACGATTAAATACCGTTGAGTAAAAGA
* * * *
2464023 TTAATGGCCTAGCTATGCATTTGGA-AGAAAGGTGTCAATTATTCTAGATAGATGAACGGTTAAA
65 TTAATGGCCTAGCTGTGCATTT-GACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAA
*
2464087 TACCATTGAGTAAAAGATTAATGGCCTAGCT
129 TACCGTTGAGTAAAAG--T-A--G-CT-G-T
* * * *
2464118 CTGTATTTGGTATAAA-GTGTCAATTATGCCAGTTAGATGAATGGTTAAATACCATTGAGTAAAA
1 C---ATTTGGTAGAAAGGTGTCAATTATGCCAGTTAGATGAACGATTAAATACCGTTGAGTAAAA
* * * * *
2464182 GATTAATGGCCTAGTTTTGCATTTGACAGAAAGGTGTCAATTATGCAAGTTAGATGAAAGGCTAA
63 GATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAA
* * *
2464247 ATGCCTTTGGGTAAAA
128 ATACCGTTGAGTAAAA
2464263 TAATAAAGGA
Statistics
Matches: 392, Mismatches: 49, Indels: 37
0.82 0.10 0.08
Matches are distributed among these distances:
148 127 0.32
149 2 0.01
151 1 0.00
152 1 0.00
154 3 0.01
155 3 0.01
156 2 0.01
157 1 0.00
158 3 0.01
159 5 0.01
160 5 0.01
161 109 0.28
162 130 0.33
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.30
Consensus pattern (151 bp):
CATTTGGTAGAAAGGTGTCAATTATGCCAGTTAGATGAACGATTAAATACCGTTGAGTAAAAGAT
TAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATA
CCGTTGAGTAAAAGTAGCTGT
Found at i:2463929 original size:81 final size:81
Alignment explanation
Indices: 2463794--2464262 Score: 584
Period size: 81 Copynumber: 5.8 Consensus size: 81
2463784 GAGTAAAAGA
* * *
2463794 GTGCATTTGGTAGAAATGTGTCAATTATGCCAGTTAGATGAACGATTAAATACCGTTGAGTAAAA
1 GTGCATTTGGAAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAGTAAAA
2463859 GATTAATGGCCTAGCT
66 GATTAATGGCCTAGCT
* ** *
2463875 GTGCATTTGGAAAAAATATGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGATGAGTAAAA
1 GTGCATTTGGAAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAGTAAAA
* *
2463940 GATTAACGTCCTAGCT
66 GATTAATGGCCTAGCT
* * * * * *
2463956 GTACATTT-CATAGAAAGGTGTCAATTAAGCTAGTTTGATGAACGGTTAAATACTGTTGAGTAAA
1 GTGCATTTGGA-AGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAGTAAA
*
2464020 CGATTAATGGCCTAGCT
65 AGATTAATGGCCTAGCT
* * * * *
2464037 ATGCATTTGGAAGAAAGGTGTCAATTATTCTAGATAGATGAACGGTTAAATACCATTGAGTAAAA
1 GTGCATTTGGAAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAGTAAAA
2464102 GATTAATGGCCTAGCT
66 GATTAATGGCCTAGCT
* * * * * *
2464118 CTGTATTTGGTATAAA-GTGTCAATTATGCCAGTTAGATGAATGGTTAAATACCATTGAGTAAAA
1 GTGCATTTGGAAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAGTAAAA
*
2464182 GATTAATGGCCTAGTT
66 GATTAATGGCCTAGCT
* * * * * * *
2464198 TTGCATTT-GACAGAAAGGTGTCAATTATGCAAGTTAGATGAAAGGCTAAATGCCTTTGGGTAAA
1 GTGCATTTGGA-AGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAGTAAA
2464262 A
65 A
2464263 TAATAAAGGA
Statistics
Matches: 335, Mismatches: 49, Indels: 8
0.85 0.12 0.02
Matches are distributed among these distances:
79 1 0.00
80 70 0.21
81 263 0.79
82 1 0.00
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.31
Consensus pattern (81 bp):
GTGCATTTGGAAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAGTAAAA
GATTAATGGCCTAGCT
Found at i:2463998 original size:310 final size:315
Alignment explanation
Indices: 2463556--2464248 Score: 864
Period size: 310 Copynumber: 2.2 Consensus size: 315
2463546 GTGCCTTTGA
* * * * * *
2463556 GGCCTAACTGTGCATTTGGCAGAAAGGTGTAAATTATGCCAGTTACATGAACAGTTAAATACCGT
1 GGCCTAGCTGTGCATTTGGAAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGA
** * * * ** *
2463621 TGAGTAAAAGATTATTTGCCTTGTTGTGCATTTGGCAGAAAGGTCTCAACTATGCCAGTTAGATG
66 TGAGTAAAAGATTACGTGCCTAGCTGTACATTTCACAGAAAGGTCTCAACTAAGCCAGTTAGATG
* *
2463686 AACGATTAAATACTGTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTT-GACATAAAGGTGTCA
131 AACGATTAAATACTGTTGAGTAAAAGATTAATGGCCTAGCTATGCATTTGGA-AGAAAGGTGTCA
* *
2463750 ATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAGTAAAAG-A-G-T-G-C-ATTTGGTAGAA
195 ATTATGCCAGATAGATGAACGGTTAAATACCATTGAGTAAAAGAAGGCTAGCCTATTTGGTAGAA
*
2463809 ATGTGTCAATTATGCCAGTTAGATGAACGATTAAATACCGTTGAGTAAAAGATTAAT
260 A-GTGTCAATTATGCCAGTTAGATGAACGATTAAATACCATTGAGTAAAAGATTAAT
* **
2463866 GGCCTAGCTGTGCATTTGGAAAAAATATGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGA
1 GGCCTAGCTGTGCATTTGGAAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGA
* * * * *
2463931 TGAGTAAAAGATTAACGT-CCTAGCTGTACATTTCATAGAAAGGTGTCAATTAAGCTAGTTTGAT
66 TGAGTAAAAGATT-ACGTGCCTAGCTGTACATTTCACAGAAAGGTCTCAACTAAGCCAGTTAGAT
* *
2463995 GAACGGTTAAATACTGTTGAGTAAACGATTAATGGCCTAGCTATGCATTTGGAAGAAAGGTGTCA
130 GAACGATTAAATACTGTTGAGTAAAAGATTAATGGCCTAGCTATGCATTTGGAAGAAAGGTGTCA
* *
2464060 ATTATTCTAGATAGATGAACGGTTAAATACCATTGAGTAAAAGATTAATGGCCTAGCTCTGTATT
195 ATTATGCCAGATAGATGAACGGTTAAATACCATTGAGTAAAAG---AA-GG-CTAGC-C--TATT
* * *
2464125 TGGTATAAAGTGTCAATTATGCCAGTTAGATGAATGGTTAAATACCATTGAGTAAAAGATTAAT
252 TGGTAGAAAGTGTCAATTATGCCAGTTAGATGAACGATTAAATACCATTGAGTAAAAGATTAAT
* * * * *
2464189 GGCCTAGTTTTGCATTT-GACAGAAAGGTGTCAATTATGCAAGTTAGATGAAAGGCTAAAT
1 GGCCTAGCTGTGCATTTGGA-AGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAT
2464249 GCCTTTGGGT
Statistics
Matches: 324, Mismatches: 42, Indels: 21
0.84 0.11 0.05
Matches are distributed among these distances:
310 201 0.62
311 4 0.01
314 1 0.00
316 1 0.00
318 1 0.00
319 1 0.00
321 1 0.00
322 2 0.01
323 101 0.31
324 11 0.03
ACGTcount: A:0.34, C:0.12, G:0.23, T:0.31
Consensus pattern (315 bp):
GGCCTAGCTGTGCATTTGGAAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGA
TGAGTAAAAGATTACGTGCCTAGCTGTACATTTCACAGAAAGGTCTCAACTAAGCCAGTTAGATG
AACGATTAAATACTGTTGAGTAAAAGATTAATGGCCTAGCTATGCATTTGGAAGAAAGGTGTCAA
TTATGCCAGATAGATGAACGGTTAAATACCATTGAGTAAAAGAAGGCTAGCCTATTTGGTAGAAA
GTGTCAATTATGCCAGTTAGATGAACGATTAAATACCATTGAGTAAAAGATTAAT
Found at i:2464453 original size:45 final size:45
Alignment explanation
Indices: 2464393--2464636 Score: 281
Period size: 45 Copynumber: 5.4 Consensus size: 45
2464383 TAACAAAAAG
* *
2464393 GCATAAAAAGATGCCATAATTGAAATGCATATGAGTGCATTATCA
1 GCATAAAAGGATGCCATAATTGAAATGCATATGGGTGCATTATCA
* * * * *
2464438 GCATGAAAGGATGCCAAAATTGAAATTCTTATGGGTGCATTATCG
1 GCATAAAAGGATGCCATAATTGAAATGCATATGGGTGCATTATCA
* *** *
2464483 GCATAAAAGGATGCCATAATTGAAATACATATGGGTTTGTTATCG
1 GCATAAAAGGATGCCATAATTGAAATGCATATGGGTGCATTATCA
* *
2464528 GCATAAAATGATGCCATAATTGAAATGCATATGGGTGCATTATTA
1 GCATAAAAGGATGCCATAATTGAAATGCATATGGGTGCATTATCA
* * * ** **
2464573 GCATGAAAGGATGCCATAATTGAATTGCAAATAAGTTTATTATCA
1 GCATAAAAGGATGCCATAATTGAAATGCATATGGGTGCATTATCA
* *
2464618 ACATGAAAGGATGCCATAA
1 GCATAAAAGGATGCCATAA
2464637 ATAATACTCT
Statistics
Matches: 168, Mismatches: 31, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 168 1.00
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.29
Consensus pattern (45 bp):
GCATAAAAGGATGCCATAATTGAAATGCATATGGGTGCATTATCA
Found at i:2464503 original size:90 final size:90
Alignment explanation
Indices: 2464392--2464638 Score: 314
Period size: 90 Copynumber: 2.7 Consensus size: 90
2464382 ATAACAAAAA
* **
2464392 GGCATAAAAAGATGCCATAATTGAAATGCATATGAGTGCATTATCAGCATGAAAGGATGCCAAAA
1 GGCATAAAAGGATGCCATAATTGAAATGCATATGAGTTTATTATCAGCATGAAAGGATGCCAAAA
* *
2464457 TTGAAATTCTTATGGGTGCATTATC
66 TTGAAATGCATATGGGTGCATTATC
* * * * * * *
2464482 GGCATAAAAGGATGCCATAATTGAAATACATATGGGTTTGTTATCGGCATAAAATGATGCCATAA
1 GGCATAAAAGGATGCCATAATTGAAATGCATATGAGTTTATTATCAGCATGAAAGGATGCCAAAA
*
2464547 TTGAAATGCATATGGGTGCATTATT
66 TTGAAATGCATATGGGTGCATTATC
* * * * * *
2464572 AGCATGAAAGGATGCCATAATTGAATTGCAAATAAGTTTATTATCAACATGAAAGGATGCCATAA
1 GGCATAAAAGGATGCCATAATTGAAATGCATATGAGTTTATTATCAGCATGAAAGGATGCCA-AA
2464637 AT
65 AT
2464639 AATACTCTCA
Statistics
Matches: 130, Mismatches: 26, Indels: 1
0.83 0.17 0.01
Matches are distributed among these distances:
90 127 0.98
91 3 0.02
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (90 bp):
GGCATAAAAGGATGCCATAATTGAAATGCATATGAGTTTATTATCAGCATGAAAGGATGCCAAAA
TTGAAATGCATATGGGTGCATTATC
Found at i:2464615 original size:135 final size:135
Alignment explanation
Indices: 2464392--2464636 Score: 357
Period size: 135 Copynumber: 1.8 Consensus size: 135
2464382 ATAACAAAAA
2464392 GGCATAAAAAGATGCCATAATTGAAATGCATATGAGTGCATTATCAGCATGAAAGGATGCCAAAA
1 GGCATAAAAAGATGCCATAATTGAAATGCATATGAGTGCATTATCAGCATGAAAGGATGCCAAAA
** ** **
2464457 TTGAAATTCTTATGGGTGCATTATCGGCATAAAAGGATGCCATAATTGAAATACATATGGGTTTG
66 TTGAAATTCAAATAAGTGCATTATCAACATAAAAGGATGCCATAATTGAAATACATATGGGTTTG
2464522 TTATC
131 TTATC
* * * *
2464527 GGCATAAAATGATGCCATAATTGAAATGCATATGGGTGCATTATTAGCATGAAAGGATGCCATAA
1 GGCATAAAAAGATGCCATAATTGAAATGCATATGAGTGCATTATCAGCATGAAAGGATGCCAAAA
** *
2464592 TTG-AATTGCAAATAAGTTTATTATCAACATGAAAGGATGCCATAA
66 TTGAAATT-CAAATAAGTGCATTATCAACATAAAAGGATGCCATAA
2464637 ATAATACTCT
Statistics
Matches: 96, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
134 4 0.04
135 92 0.96
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (135 bp):
GGCATAAAAAGATGCCATAATTGAAATGCATATGAGTGCATTATCAGCATGAAAGGATGCCAAAA
TTGAAATTCAAATAAGTGCATTATCAACATAAAAGGATGCCATAATTGAAATACATATGGGTTTG
TTATC
Found at i:2469008 original size:68 final size:68
Alignment explanation
Indices: 2468803--2468987 Score: 271
Period size: 68 Copynumber: 2.7 Consensus size: 68
2468793 AAAGATTAAT
* * *
2468803 AGGCTTAACTATGTATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCATAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
2468868 TTG
66 TTG
* * *
2468871 AGGCATAATTGTGCATTTGACAGAAAAGTGTCAATTATGCCAGTTAGATGAAAGCCTAAGTGCCT
1 AGGCATAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
2468936 TTG
66 TTG
* * * * *
2468939 AGGCCTAACTGTGCATTTGGCAGGAAGGTGTCGATTATTCCAGTTAGAT
1 AGGCATAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGAT
2468988 TAATGGTTAA
Statistics
Matches: 104, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
68 104 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (68 bp):
AGGCATAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
TTG
Found at i:2469079 original size:81 final size:81
Alignment explanation
Indices: 2468940--2469464 Score: 648
Period size: 81 Copynumber: 6.5 Consensus size: 81
2468930 GTGCCTTTGA
* ** * * * *
2468940 GGCCTAACTGTGCATTTGGCAGGAAGGTGTCGATTATTCCAGTTAGATTAATGGTTAAATACTGT
1 GGCCTAGCTGTGCATTTGGCATAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACTGT
2469005 TGAGTAAAAGATTAAT
66 TGAGTAAAAGATTAAT
* * *
2469021 AGCCTAGCTGTGCATTTGGCATAAATGTGTCAATTATGCCAGTTAGATGAACGATTAAATACTGT
1 GGCCTAGCTGTGCATTTGGCATAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACTGT
2469086 TGAGTAAAAGATTAAT
66 TGAGTAAAAGATTAAT
* * * * * * * ** *
2469102 GACCTAGTTTTTCATTTTGTAAAAAGGTGTCAATTATG-CATGTTAGATGAACAATTAAACTCCT
1 GGCCTAGCTGTGCATTTGGCATAAAGGTGTCAATTATGCCA-GTTAGATGAACGGTTAAA-TACT
*
2469166 -TTGACTAAAAGATTAAT
64 GTTGAGTAAAAGATTAAT
* *
2469183 GGCCTAGGTGTGCATTTGGCATAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
1 GGCCTAGCTGTGCATTTGGCATAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACTGT
*
2469248 TGAGTTAAAGATTAAT
66 TGAGTAAAAGATTAAT
* * *
2469264 GGCCTAGGTGTGCATTTGGC-TGAAA-GTGTCAATTATGCAAGTTAGATGAACGGGTAAATACTG
1 GGCCTAGCTGTGCATTTGGCAT-AAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACTG
2469327 TTGAGTAAAAGATTAAT
65 TTGAGTAAAAGATTAAT
* * * * *
2469344 GGCCTAGTTGTGCATTTGTCAAAAAGGTGTCAATTATGCCAGTTAGAAGAATGGTTAAATA-TCG
1 GGCCTAGCTGTGCATTTGGCATAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACT-G
2469408 TTGAGTAAAAGATTAAT
65 TTGAGTAAAAGATTAAT
* * *
2469425 GCCCTAGCTGTGCATTTGGCAGAAAGAG-GTTAATTATGCC
1 GGCCTAGCTGTGCATTTGGCATAAAG-GTGTCAATTATGCC
2469465 GAACGATTAA
Statistics
Matches: 384, Mismatches: 51, Indels: 18
0.85 0.11 0.04
Matches are distributed among these distances:
80 78 0.20
81 300 0.78
82 6 0.02
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.32
Consensus pattern (81 bp):
GGCCTAGCTGTGCATTTGGCATAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACTGT
TGAGTAAAAGATTAAT
Found at i:2469374 original size:242 final size:243
Alignment explanation
Indices: 2468942--2469464 Score: 716
Period size: 242 Copynumber: 2.2 Consensus size: 243
2468932 GCCTTTGAGG
* * * * * * *
2468942 CCTAACTGTGCATTTGGCAGGAAGGTGTCGATTATTCCAGTTAGATTAATGGTTAAATACTGTTG
1 CCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTG
*
2469007 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGGCATAAATGTGTCAATTATGCCAGTTAGATGAA
66 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGGCATAAATGTGTCAATTATGCAAGTTAGATGAA
* * *
2469072 CGATTAAATACTGTTGAGTAAAAGATTAATGACCTAGTTTTTCATTTTGTAAAAAGGTGTCAATT
131 CGAGTAAATACTGTTGAGTAAAAGATTAATGACCTAGTTGTGCATTTTGTAAAAAGGTGTCAATT
* * *
2469137 ATG-CATGTTAGATGAACAATTAAACT-CCTTTGACTAAAAGATTAATGG
196 ATGCCA-GTTAGAAGAACAATTAAA-TACCGTTGACTAAAAGATTAATGC
* *
2469185 CCTAGGTGTGCATTTGGCATAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTG
1 CCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTG
* * *
2469250 AGTTAAAGATTAATGGCCTAGGTGTGCATTTGGC-TGAAA-GTGTCAATTATGCAAGTTAGATGA
66 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGGCAT-AAATGTGTCAATTATGCAAGTTAGATGA
* *
2469313 ACGGGTAAATACTGTTGAGTAAAAGATTAATGGCCTAGTTGTGCA-TTTGTCAAAAAGGTGTCAA
130 ACGAGTAAATACTGTTGAGTAAAAGATTAATGACCTAGTTGTGCATTTTGT-AAAAAGGTGTCAA
*** * *
2469377 TTATGCCAGTTAGAAGAATGGTTAAATATCGTTGAGTAAAAGATTAATGC
194 TTATGCCAGTTAGAAGAACAATTAAATACCGTTGACTAAAAGATTAATGC
*
2469427 CCTAGCTGTGCATTTGGCAGAAAGAG-GTTAATTATGCC
1 CCTAGCTGTGCATTTGGCAGAAAG-GTGTCAATTATGCC
2469465 GAACGATTAA
Statistics
Matches: 246, Mismatches: 29, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
241 6 0.02
242 147 0.60
243 93 0.38
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.32
Consensus pattern (243 bp):
CCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTG
AGTAAAAGATTAATAGCCTAGCTGTGCATTTGGCATAAATGTGTCAATTATGCAAGTTAGATGAA
CGAGTAAATACTGTTGAGTAAAAGATTAATGACCTAGTTGTGCATTTTGTAAAAAGGTGTCAATT
ATGCCAGTTAGAAGAACAATTAAATACCGTTGACTAAAAGATTAATGC
Found at i:2469567 original size:22 final size:22
Alignment explanation
Indices: 2469495--2469567 Score: 58
Period size: 22 Copynumber: 3.3 Consensus size: 22
2469485 GTAAATGGTA
* *
2469495 CATAAAGGGCATGAAAGGATGC
1 CATAAAAGGCATGAAATGATGC
* ** *
2469517 CATAAATGAAATGTATAATAATG-
1 CATAAAAGGCATG-A-AATGATGC
*
2469540 TATAAAAGGCATGAAATGATGC
1 CATAAAAGGCATGAAATGATGC
2469562 CATAAA
1 CATAAA
2469568 TGAAATGTAT
Statistics
Matches: 37, Mismatches: 11, Indels: 6
0.69 0.20 0.11
Matches are distributed among these distances:
21 6 0.16
22 16 0.43
23 10 0.27
24 5 0.14
ACGTcount: A:0.48, C:0.10, G:0.21, T:0.22
Consensus pattern (22 bp):
CATAAAAGGCATGAAATGATGC
Found at i:2469692 original size:90 final size:90
Alignment explanation
Indices: 2469598--2469772 Score: 262
Period size: 90 Copynumber: 1.9 Consensus size: 90
2469588 AAAAGGCACG
* * * *
2469598 AAATGATGCAATAATTGAAATGCATATGGGTGCATTATCGTCACT-AAAGGATGCCATAATTGAA
1 AAATGATGCAATAATTGAAATACATATGAGTGCATTATCGGCA-TGAAAGGATGACATAATTGAA
**
2469662 ATGCATATGGGTGCATTATCGTAATA
65 ATGCATATGAATGCATTATCGTAATA
* *
2469688 AAATGATGCCATAATTGAAATACATATGAGTGCATTATCGGCATGAAAGGATGACATAATTGAAT
1 AAATGATGCAATAATTGAAATACATATGAGTGCATTATCGGCATGAAAGGATGACATAATTGAAA
2469753 TGCATATGAATGCATTATCG
66 TGCATATGAATGCATTATCG
2469773 GCATGAAAGG
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
89 1 0.01
90 75 0.99
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.30
Consensus pattern (90 bp):
AAATGATGCAATAATTGAAATACATATGAGTGCATTATCGGCATGAAAGGATGACATAATTGAAA
TGCATATGAATGCATTATCGTAATA
Found at i:2469716 original size:23 final size:23
Alignment explanation
Indices: 2469647--2469716 Score: 63
Period size: 23 Copynumber: 3.1 Consensus size: 23
2469637 GTCACTAAAG
*
2469647 GATGCCATAATTGAAATGCATAT
1 GATGCCATAATTGAAATACATAT
* * * * *
2469670 GGGTG-CATTATCGTAATA-AAAT
1 -GATGCCATAATTGAAATACATAT
2469692 GATGCCATAATTGAAATACATAT
1 GATGCCATAATTGAAATACATAT
2469715 GA
1 GA
2469717 GTGCATTATC
Statistics
Matches: 33, Mismatches: 11, Indels: 5
0.67 0.22 0.10
Matches are distributed among these distances:
21 3 0.09
22 13 0.39
23 14 0.42
24 3 0.09
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.30
Consensus pattern (23 bp):
GATGCCATAATTGAAATACATAT
Found at i:2469791 original size:45 final size:45
Alignment explanation
Indices: 2469502--2469791 Score: 228
Period size: 45 Copynumber: 6.4 Consensus size: 45
2469492 GTACATAAAG
* * * * * * **
2469502 GGCATGAAAGGATGCCATAAATGAAATGTATAAT-AATGTATAAAA
1 GGCATGAAAGGATACCATAATTGAAATGCAT-ATGAGTGCATTATC
* * * * * * **
2469547 GGCATGAAATGATGCCATAAATGAAATGTATAAT-AGTGTATAAAA
1 GGCATGAAAGGATACCATAATTGAAATGCAT-ATGAGTGCATTATC
* * * * *
2469592 GGCACGAAATGATGCAATAATTGAAATGCATATGGGTGCATTATC
1 GGCATGAAAGGATACCATAATTGAAATGCATATGAGTGCATTATC
* * *
2469637 GTCACT-AAAGGATGCCATAATTGAAATGCATATGGGTGCATTATC
1 GGCA-TGAAAGGATACCATAATTGAAATGCATATGAGTGCATTATC
** * * * *
2469682 GTAATAAAATGATGCCATAATTGAAATACATATGAGTGCATTATC
1 GGCATGAAAGGATACCATAATTGAAATGCATATGAGTGCATTATC
* *
2469727 GGCATGAAAGGATGA-CATAATTGAATTGCATATGAATGCATTATC
1 GGCATGAAAGGAT-ACCATAATTGAAATGCATATGAGTGCATTATC
2469772 GGCATGAAAGGATACCATAA
1 GGCATGAAAGGATACCATAA
2469792 ATAATGCTCT
Statistics
Matches: 213, Mismatches: 27, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
44 4 0.02
45 209 0.98
ACGTcount: A:0.41, C:0.11, G:0.21, T:0.27
Consensus pattern (45 bp):
GGCATGAAAGGATACCATAATTGAAATGCATATGAGTGCATTATC
Found at i:2471410 original size:2 final size:2
Alignment explanation
Indices: 2471395--2471455 Score: 99
Period size: 2 Copynumber: 31.5 Consensus size: 2
2471385 TTATCATAGC
*
2471395 TA TA TA TG TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2471436 TA TA TA -A TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
2471456 CAATGTTATA
Statistics
Matches: 55, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
1 2 0.04
2 53 0.96
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:2472636 original size:20 final size:21
Alignment explanation
Indices: 2472598--2472642 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
2472588 AAAGGTATTG
2472598 ATACCATGTATAGAAGTATCA
1 ATACCATGTATAGAAGTATCA
* *
2472619 ATACCATG-GTAGAGGTATCA
1 ATACCATGTATAGAAGTATCA
2472639 ATAC
1 ATAC
2472643 TATTGAGCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.27
Consensus pattern (21 bp):
ATACCATGTATAGAAGTATCA
Found at i:2473061 original size:55 final size:55
Alignment explanation
Indices: 2472973--2473408 Score: 613
Period size: 55 Copynumber: 7.9 Consensus size: 55
2472963 TGTCACTATA
* * * *
2472973 TGTGTGCAAAAGCTAAAAAAATT-ATAATGAGTTTATGACTTTTCGTATGGGAACTT
1 TGTGTGCAAAA-CT-AAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTT
*
2473029 TATGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTT
1 TGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTT
* * * *
2473084 TGTGTGCAAAATCTTAGAAATTCATAATGAGTTTATGATTTTTCGTATAGGCACTT
1 TGTGTGCAAAA-CTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTT
*
2473140 TGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTTCGTATGGGCACTT
1 TGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTT
* * * * * * * *
2473195 TATTTGTAAAAGCTAAAAAAATCATAATGAGTTTATGAATTTCCGTGTGGGCACTT
1 TGTGTGCAAAA-CTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTT
2473251 TGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTT
1 TGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTT
* * *
2473306 TGTGTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCATATGGGAACTT
1 TGTGTGC-AAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTT
* *
2473362 TGTGTACAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTAT
1 TGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTAT
2473409 TGGTAGTGGG
Statistics
Matches: 343, Mismatches: 33, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
54 7 0.02
55 176 0.51
56 160 0.47
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (55 bp):
TGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTT
Found at i:2473425 original size:111 final size:111
Alignment explanation
Indices: 2472973--2473408 Score: 649
Period size: 111 Copynumber: 3.9 Consensus size: 111
2472963 TGTCACTATA
* * *
2472973 TGTGTGCAAAAGCTAAAAAAATT-ATAATGAGTTTATGACTTTTCGTATGGGAACTTTATGTGCA
1 TGTGTGCAAAAGCT-AAAAAATTCATAATGAGTTTATGAATTTCCGTATGGGAACTTTGTGTGCA
2473037 AAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTT
65 AAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTT
* * * * * * *
2473084 TGTGTGCAAAATCTTAGAAATTCATAATGAGTTTATGATTTTTCGTATAGGCACTTTGTGTGCAA
1 TGTGTGCAAAAGCTAAAAAATTCATAATGAGTTTATGAATTTCCGTATGGGAACTTTGTGTGCAA
*
2473149 AACTAAGAAATTCATAATGAGTTTATGAATTTTCGTATGGGCACTT
66 AACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTT
* * * * * *
2473195 TATTTGTAAAAGCTAAAAAAATCATAATGAGTTTATGAATTTCCGTGTGGGCACTTTGTGTGCAA
1 TGTGTGCAAAAGCTAAAAAATTCATAATGAGTTTATGAATTTCCGTATGGGAACTTTGTGTGCAA
2473260 AACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTT
66 AACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTT
* * * * *
2473306 TGTGTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCATATGGGAACTTTGTGTACAA
1 TGTGTGCAAAAGCTAAAAAATTCATAATGAGTTTATGAATTTCCGTATGGGAACTTTGTGTGCAA
*
2473371 AACTAAGAAATTCATAATAAGTTTATGAATTTCCGTAT
66 AACTAAGAAATTCATAATAAGTTTATGAATTTTCGTAT
2473409 TGGTAGTGGG
Statistics
Matches: 292, Mismatches: 32, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
110 6 0.02
111 286 0.98
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (111 bp):
TGTGTGCAAAAGCTAAAAAATTCATAATGAGTTTATGAATTTCCGTATGGGAACTTTGTGTGCAA
AACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTT
Found at i:2483735 original size:68 final size:68
Alignment explanation
Indices: 2483626--2483761 Score: 272
Period size: 68 Copynumber: 2.0 Consensus size: 68
2483616 TGCAAGAAGA
2483626 ATAAGGTACCAGAGGATCACTTTGAGGATTACATAAAACCAAATGAGGGTATTACCAAGAAAAAG
1 ATAAGGTACCAGAGGATCACTTTGAGGATTACATAAAACCAAATGAGGGTATTACCAAGAAAAAG
2483691 GTC
66 GTC
2483694 ATAAGGTACCAGAGGATCACTTTGAGGATTACATAAAACCAAATGAGGGTATTACCAAGAAAAAG
1 ATAAGGTACCAGAGGATCACTTTGAGGATTACATAAAACCAAATGAGGGTATTACCAAGAAAAAG
2483759 GTC
66 GTC
2483762 CCTGAGCTGA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.43, C:0.15, G:0.22, T:0.21
Consensus pattern (68 bp):
ATAAGGTACCAGAGGATCACTTTGAGGATTACATAAAACCAAATGAGGGTATTACCAAGAAAAAG
GTC
Found at i:2492037 original size:41 final size:41
Alignment explanation
Indices: 2491983--2492304 Score: 257
Period size: 41 Copynumber: 7.9 Consensus size: 41
2491973 AATCGAGTTT
** *
2491983 GATCATGCCAGCATGCAATAGTTCATCATTCAATTTGATTC
1 GATCATGGTAGCATGCAATAGTTCATCATTCAATTTAATTC
* * * * ** *
2492024 GATCGTGGTAGCATGAAATAATTCACCATTTGATTCAATTC
1 GATCATGGTAGCATGCAATAGTTCATCATTCAATTTAATTC
* * * * * * ** *
2492065 AATCATGGCATCATACAATAGTTCTTCATTCAACTTGTTTT
1 GATCATGGTAGCATGCAATAGTTCATCATTCAATTTAATTC
* * * * *
2492106 GATCATGGTATCATGCAATAGTTTACCATTCGATTCAATTC
1 GATCATGGTAGCATGCAATAGTTCATCATTCAATTTAATTC
* * * * **
2492147 AATCATGGCAGCATACAATAGTTCATCATTCAACTTGTTTC
1 GATCATGGTAGCATGCAATAGTTCATCATTCAATTTAATTC
* * * **
2492188 GATCATGGTAGAATGCAATAATTCACCATTCAATAAAATTC
1 GATCATGGTAGCATGCAATAGTTCATCATTCAATTTAATTC
* * * * * *
2492229 AATCATGGAAGTATACAATAGTTCATCATTCAATTTTATTT
1 GATCATGGTAGCATGCAATAGTTCATCATTCAATTTAATTC
* *
2492270 GATCATAGTAGCATGCAATAATTCATCATTCAATT
1 GATCATGGTAGCATGCAATAGTTCATCATTCAATT
2492305 CAATCATGGC
Statistics
Matches: 205, Mismatches: 76, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
41 205 1.00
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (41 bp):
GATCATGGTAGCATGCAATAGTTCATCATTCAATTTAATTC
Found at i:2492115 original size:82 final size:82
Alignment explanation
Indices: 2491984--2492308 Score: 418
Period size: 82 Copynumber: 4.0 Consensus size: 82
2491974 ATCGAGTTTG
* * * * * *
2491984 ATCATGCCAGCATGCAATAGTTCATCATTCAATTTGATTCGATCGTGGTAGCATGAAATAATTCA
1 ATCATGGCAGCATACAATAGTTCATCATTCAACTTGTTTCGATCATGGTAGCATGCAATAATTCA
**
2492049 CCATTTGATTCAATTCA
66 CCATTCAATTCAATTCA
* * * * * *
2492066 ATCATGGCATCATACAATAGTTCTTCATTCAACTTGTTTTGATCATGGTATCATGCAATAGTTTA
1 ATCATGGCAGCATACAATAGTTCATCATTCAACTTGTTTCGATCATGGTAGCATGCAATAATTCA
*
2492131 CCATTCGATTCAATTCA
66 CCATTCAATTCAATTCA
*
2492148 ATCATGGCAGCATACAATAGTTCATCATTCAACTTGTTTCGATCATGGTAGAATGCAATAATTCA
1 ATCATGGCAGCATACAATAGTTCATCATTCAACTTGTTTCGATCATGGTAGCATGCAATAATTCA
**
2492213 CCATTCAATAAAATTCA
66 CCATTCAATTCAATTCA
* * * * *
2492230 ATCATGGAAGTATACAATAGTTCATCATTCAA-TTTTATTTGATCATAGTAGCATGCAATAATTC
1 ATCATGGCAGCATACAATAGTTCATCATTCAACTTGT-TTCGATCATGGTAGCATGCAATAATTC
*
2492294 ATCATTCAATTCAAT
65 ACCATTCAATTCAAT
2492309 CATGGCAGCA
Statistics
Matches: 210, Mismatches: 32, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
81 3 0.01
82 207 0.99
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.36
Consensus pattern (82 bp):
ATCATGGCAGCATACAATAGTTCATCATTCAACTTGTTTCGATCATGGTAGCATGCAATAATTCA
CCATTCAATTCAATTCA
Found at i:2496222 original size:18 final size:18
Alignment explanation
Indices: 2496199--2496262 Score: 101
Period size: 18 Copynumber: 3.6 Consensus size: 18
2496189 CAACGGTCAA
* *
2496199 CGGGTCAGGTCAACAGGT
1 CGGGTCGGGTCAACGGGT
2496217 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
*
2496235 CGGGTCGGGTAAACGGGT
1 CGGGTCGGGTCAACGGGT
2496253 CGGGTCGGGT
1 CGGGTCGGGT
2496263 TATGACCGGT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 43 1.00
ACGTcount: A:0.14, C:0.20, G:0.48, T:0.17
Consensus pattern (18 bp):
CGGGTCGGGTCAACGGGT
Found at i:2502668 original size:19 final size:19
Alignment explanation
Indices: 2502644--2502681 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
2502634 AAGTTACAAT
2502644 GAGTTATGTATTGGGGTAG
1 GAGTTATGTATTGGGGTAG
2502663 GAGTTATGTATTGGGGTAG
1 GAGTTATGTATTGGGGTAG
2502682 CATGATTAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.00, G:0.42, T:0.37
Consensus pattern (19 bp):
GAGTTATGTATTGGGGTAG
Found at i:2512626 original size:20 final size:19
Alignment explanation
Indices: 2512603--2512663 Score: 54
Period size: 17 Copynumber: 3.3 Consensus size: 19
2512593 TTTTTTGAAA
2512603 TTTTGGCTTTTTTGGCTCTT
1 TTTTGGCTTTTTTGGC-CTT
** *
2512623 TTTTGTTTTTTTTTGCCTT
1 TTTTGGCTTTTTTGGCCTT
* *
2512642 TTTT--TTTTTTTTGCCTT
1 TTTTGGCTTTTTTGGCCTT
2512659 TTTTG
1 TTTTG
2512664 TTTTTTGTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
17 17 0.46
19 7 0.19
20 13 0.35
ACGTcount: A:0.00, C:0.11, G:0.13, T:0.75
Consensus pattern (19 bp):
TTTTGGCTTTTTTGGCCTT
Found at i:2512631 original size:7 final size:7
Alignment explanation
Indices: 2512621--2512684 Score: 53
Period size: 7 Copynumber: 8.9 Consensus size: 7
2512611 TTTTTGGCTC
2512621 TTTTTTG
1 TTTTTTG
2512628 TTTTTT-
1 TTTTTTG
*
2512634 TTTGCCTT-
1 TTT--TTTG
2512642 TTTTTT-
1 TTTTTTG
2512648 TTTTTTG
1 TTTTTTG
2512655 CCTTTTTTG
1 --TTTTTTG
2512664 TTTTTTG
1 TTTTTTG
2512671 TTTTTTTG
1 -TTTTTTG
2512679 TTTTTT
1 TTTTTT
2512685 TGAAAAAAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
6 11 0.22
7 19 0.39
8 12 0.24
9 7 0.14
ACGTcount: A:0.00, C:0.06, G:0.09, T:0.84
Consensus pattern (7 bp):
TTTTTTG
Found at i:2512631 original size:17 final size:16
Alignment explanation
Indices: 2512631--2512684 Score: 74
Period size: 15 Copynumber: 3.4 Consensus size: 16
2512621 TTTTTTGTTT
*
2512631 TTTTTTGCCTTTTTTTT
1 TTTTTTGCC-TTTTTTG
2512648 TTTTTTGCCTTTTTTG
1 TTTTTTGCCTTTTTTG
*
2512664 TTTTTTG-TTTTTTTG
1 TTTTTTGCCTTTTTTG
2512679 TTTTTT
1 TTTTTT
2512685 TGAAAAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.37
16 13 0.37
17 9 0.26
ACGTcount: A:0.00, C:0.07, G:0.09, T:0.83
Consensus pattern (16 bp):
TTTTTTGCCTTTTTTG
Found at i:2512647 original size:16 final size:16
Alignment explanation
Indices: 2512623--2512686 Score: 76
Period size: 16 Copynumber: 3.9 Consensus size: 16
2512613 TTTGGCTCTT
2512623 TTTTGTTTTTTTTTGCC
1 TTTT-TTTTTTTTTGCC
2512640 TTTTTTTTTTTTTTGCC
1 -TTTTTTTTTTTTTGCC
* *
2512657 TTTTTTGTTTTTTG-T
1 TTTTTTTTTTTTTGCC
2512672 TTTTTTGTTTTTTTG
1 TTTTTT-TTTTTTTG
2512687 AAAAAAAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
15 6 0.14
16 20 0.48
17 12 0.29
18 4 0.10
ACGTcount: A:0.00, C:0.06, G:0.11, T:0.83
Consensus pattern (16 bp):
TTTTTTTTTTTTTGCC
Found at i:2512683 original size:36 final size:36
Alignment explanation
Indices: 2512610--2512686 Score: 97
Period size: 36 Copynumber: 2.2 Consensus size: 36
2512600 AAATTTTGGC
2512610 TTTTTTGGCTCTTTTTTGTTTTTTTTTGCCTTTTTTT
1 TTTTTTGGCTCTTTTTTGTTTTTTTTT-CCTTTTTTT
* * *
2512647 TTTTTTTGC-CTTTTTTGTTTTTTGTT--TTTTTGT
1 TTTTTTGGCTCTTTTTTGTTTTTTTTTCCTTTTTTT
2512680 TTTTTTG
1 TTTTTTG
2512687 AAAAAAAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
33 12 0.33
36 16 0.44
37 8 0.22
ACGTcount: A:0.00, C:0.08, G:0.12, T:0.81
Consensus pattern (36 bp):
TTTTTTGGCTCTTTTTTGTTTTTTTTTCCTTTTTTT
Found at i:2512685 original size:17 final size:18
Alignment explanation
Indices: 2512610--2512685 Score: 88
Period size: 17 Copynumber: 4.3 Consensus size: 18
2512600 AAATTTTGGC
*
2512610 TTTTTTGGCTCTTTTTTGTT
1 TTTTTTTGC-CTTTTTTG-T
2512630 TTTTTTTGCCTTTTTT-T
1 TTTTTTTGCCTTTTTTGT
2512647 TTTTTTTGCCTTTTTTG-
1 TTTTTTTGCCTTTTTTGT
*
2512664 -TTTTTTG-TTTTTTTGT
1 TTTTTTTGCCTTTTTTGT
2512680 TTTTTT
1 TTTTTT
2512686 GAAAAAAAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
15 7 0.14
16 7 0.14
17 22 0.43
19 7 0.14
20 8 0.16
ACGTcount: A:0.00, C:0.08, G:0.11, T:0.82
Consensus pattern (18 bp):
TTTTTTTGCCTTTTTTGT
Found at i:2526251 original size:14 final size:15
Alignment explanation
Indices: 2526232--2526260 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
2526222 TTCTCTTTGC
2526232 TTAATTTTA-TTTTT
1 TTAATTTTACTTTTT
2526246 TTAATTTTACTTTTT
1 TTAATTTTACTTTTT
2526261 ATTCTCATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (15 bp):
TTAATTTTACTTTTT
Found at i:2526455 original size:21 final size:21
Alignment explanation
Indices: 2526402--2526470 Score: 59
Period size: 22 Copynumber: 3.1 Consensus size: 21
2526392 AACCGACCTT
*
2526402 TTTTGTTTATTAATTTATCTTA
1 TTTTGTTTATT-ACTTATCTTA
*
2526424 TTTTATGTTATT-CTTATCTTTA
1 TTTTGT-TTATTACTTATC-TTA
* *
2526446 TTTTGTTTATATATTTATTTTA
1 TTTTGTTTAT-TACTTATCTTA
2526468 TTT
1 TTT
2526471 CAATTGATTT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
21 9 0.24
22 20 0.53
23 9 0.24
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.71
Consensus pattern (21 bp):
TTTTGTTTATTACTTATCTTA
Found at i:2526818 original size:7 final size:7
Alignment explanation
Indices: 2526806--2526843 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
2526796 GTACCATATC
2526806 ATATTAT
1 ATATTAT
2526813 ATATTAT
1 ATATTAT
2526820 ATATTAT
1 ATATTAT
2526827 ATATTAT
1 ATATTAT
2526834 ATATTAT
1 ATATTAT
2526841 ATA
1 ATA
2526844 CATATATTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (7 bp):
ATATTAT
Found at i:2528350 original size:24 final size:24
Alignment explanation
Indices: 2528323--2528370 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
2528313 TTTTTTTGGC
2528323 ACTGATAAACTTGTTTTCTTAGGT
1 ACTGATAAACTTGTTTTCTTAGGT
2528347 ACTGATAAACTTGTTTTCTTAGGT
1 ACTGATAAACTTGTTTTCTTAGGT
2528371 TTCATTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.12, G:0.17, T:0.46
Consensus pattern (24 bp):
ACTGATAAACTTGTTTTCTTAGGT
Found at i:2529439 original size:35 final size:35
Alignment explanation
Indices: 2529393--2529467 Score: 132
Period size: 35 Copynumber: 2.1 Consensus size: 35
2529383 CGTCACGAAC
*
2529393 AGTAAGGCCCTGAACACAAAGCCGAGGAGCCTGCA
1 AGTAAGGCCCTGAACACAAAGCCGAGGAGCCTCCA
*
2529428 AGTAAGGCCCTGAGCACAAAGCCGAGGAGCCTCCA
1 AGTAAGGCCCTGAACACAAAGCCGAGGAGCCTCCA
2529463 AGTAA
1 AGTAA
2529468 TCTTCCTCCA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.35, C:0.28, G:0.28, T:0.09
Consensus pattern (35 bp):
AGTAAGGCCCTGAACACAAAGCCGAGGAGCCTCCA
Found at i:2529578 original size:24 final size:23
Alignment explanation
Indices: 2529550--2529636 Score: 93
Period size: 24 Copynumber: 3.7 Consensus size: 23
2529540 ATTCAAGTCA
* *
2529550 AGTATCATATCAGAATCCATATC
1 AGTATCAGATCAGAATCCATGTC
*
2529573 ATGTATCAGATTAGAATCCATGTC
1 A-GTATCAGATCAGAATCCATGTC
* *
2529597 AATATCAGATCAGAATCCAGGTC
1 AGTATCAGATCAGAATCCATGTC
* *
2529620 AGGTATCATAACAGAAT
1 A-GTATCAGATCAGAAT
2529637 TCAAATTTGA
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
23 21 0.40
24 32 0.60
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.28
Consensus pattern (23 bp):
AGTATCAGATCAGAATCCATGTC
Found at i:2529636 original size:47 final size:48
Alignment explanation
Indices: 2529546--2529636 Score: 112
Period size: 47 Copynumber: 1.9 Consensus size: 48
2529536 CATAATTCAA
* * * **
2529546 GTCAAGTATCATATCAGAATCCATATCATGTATCAGATTAGAATCCAT
1 GTCAAGTATCAGATCAGAATCCAGATCAGGTATCAGAACAGAATCCAT
* *
2529594 GTCAA-TATCAGATCAGAATCCAGGTCAGGTATCATAACAGAAT
1 GTCAAGTATCAGATCAGAATCCAGATCAGGTATCAGAACAGAAT
2529637 TCAAATTTGA
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
47 31 0.86
48 5 0.14
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.27
Consensus pattern (48 bp):
GTCAAGTATCAGATCAGAATCCAGATCAGGTATCAGAACAGAATCCAT
Found at i:2532153 original size:13 final size:13
Alignment explanation
Indices: 2532135--2532200 Score: 84
Period size: 13 Copynumber: 5.3 Consensus size: 13
2532125 TCGGGTCAAC
2532135 GGTCAACGGGTCG
1 GGTCAACGGGTCG
2532148 GGTCAACGGGTCG
1 GGTCAACGGGTCG
* *
2532161 GGTAAATGGGTCG
1 GGTCAACGGGTCG
*
2532174 GGT---TGGGTCG
1 GGTCAACGGGTCG
2532184 GGTCAACGGGTCG
1 GGTCAACGGGTCG
2532197 GGTC
1 GGTC
2532201 GGGTTGTGAC
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
10 10 0.21
13 37 0.79
ACGTcount: A:0.14, C:0.18, G:0.48, T:0.20
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:2532159 original size:21 final size:21
Alignment explanation
Indices: 2532113--2532156 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
2532103 TGGTCAACTC
2532113 CGGTCAACGGTCTCGGGTCAA
1 CGGTCAACGGTCTCGGGTCAA
*
2532134 CGGTCAACGG-GTCGGGTCAA
1 CGGTCAACGGTCTCGGGTCAA
2532154 CGG
1 CGG
2532157 GTCGGGTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.18, C:0.27, G:0.39, T:0.16
Consensus pattern (21 bp):
CGGTCAACGGTCTCGGGTCAA
Found at i:2532185 original size:23 final size:23
Alignment explanation
Indices: 2532139--2532204 Score: 78
Period size: 23 Copynumber: 2.7 Consensus size: 23
2532129 GTCAACGGTC
2532139 AACGGGTCGGGTCAACGGGTCGGGTA
1 AACGGGTCGGGT---CGGGTCGGGTA
* * *
2532165 AATGGGTCGGGTTGGGTCGGGTC
1 AACGGGTCGGGTCGGGTCGGGTA
2532188 AACGGGTCGGGTCGGGT
1 AACGGGTCGGGTCGGGT
2532205 TGTGACCGGT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
23 24 0.69
26 11 0.31
ACGTcount: A:0.14, C:0.17, G:0.50, T:0.20
Consensus pattern (23 bp):
AACGGGTCGGGTCGGGTCGGGTA
Found at i:2536367 original size:46 final size:46
Alignment explanation
Indices: 2536283--2536370 Score: 124
Period size: 46 Copynumber: 1.9 Consensus size: 46
2536273 GTACTAACAA
*
2536283 TTGCATTATGTACATAGTAATGTGATTTTGGAACTATTGTATGCAG
1 TTGCATTATGTACATAGTAATGTGATATTGGAACTATTGTATGCAG
* * *
2536329 TTGCATT-TGATACATAGTAATTTGATATTGGTATTATTGTAT
1 TTGCATTATG-TACATAGTAATGTGATATTGGAACTATTGTAT
2536371 TCCTGATTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
45 2 0.05
46 35 0.95
ACGTcount: A:0.28, C:0.07, G:0.19, T:0.45
Consensus pattern (46 bp):
TTGCATTATGTACATAGTAATGTGATATTGGAACTATTGTATGCAG
Found at i:2536698 original size:16 final size:18
Alignment explanation
Indices: 2536670--2536703 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
2536660 CTGAACTATG
2536670 ATATATGTGATAT-TTTT
1 ATATATGTGATATGTTTT
2536687 ATATAT-TGATATGTTTT
1 ATATATGTGATATGTTTT
2536704 TCTTGAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.29, C:0.00, G:0.12, T:0.59
Consensus pattern (18 bp):
ATATATGTGATATGTTTT
Found at i:2538665 original size:31 final size:30
Alignment explanation
Indices: 2538628--2538692 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 30
2538618 AAAAGATTAA
2538628 AAAATTTTAGGGATCAAAAG-GATAATTTTC
1 AAAATTTTAGGGATCAAAAGTG-TAATTTTC
2538658 TAAAATTTTAGGGATCAAAAGTGTAATTTTC
1 -AAAATTTTAGGGATCAAAAGTGTAATTTTC
2538689 AAAA
1 AAAA
2538693 GTTATGTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
30 4 0.12
31 28 0.85
32 1 0.03
ACGTcount: A:0.45, C:0.06, G:0.15, T:0.34
Consensus pattern (30 bp):
AAAATTTTAGGGATCAAAAGTGTAATTTTC
Found at i:2539901 original size:19 final size:20
Alignment explanation
Indices: 2539853--2539902 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
2539843 TGTTTTACTA
* *
2539853 TGTTGGAAATTTATTTTAGAG
1 TGTT-GAAATTGATGTTAGAG
*
2539874 TGTTGAAATTGATGTTAGAT
1 TGTTGAAATTGATGTTAGAG
2539894 TG-TGAAATT
1 TGTTGAAATT
2539903 CGATCATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 7 0.27
20 15 0.58
21 4 0.15
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.46
Consensus pattern (20 bp):
TGTTGAAATTGATGTTAGAG
Found at i:2543760 original size:72 final size:72
Alignment explanation
Indices: 2543677--2543821 Score: 281
Period size: 72 Copynumber: 2.0 Consensus size: 72
2543667 AAAACATAGC
2543677 ATTTGGTACCATTATTGCATGCTAATTTTACTTGAGTCCAAATATCCCAAATTCCAAGTTTATGT
1 ATTTGGTACCATTATTGCATGCTAATTTTACTTGAGTCCAAATATCCCAAATTCCAAGTTTATGT
2543742 TCATATT
66 TCATATT
*
2543749 ATTTGGTACCATTATTGCATGCTAATTTTACTTGAGTCCAAATATCTCAAATTCCAAGTTTATGT
1 ATTTGGTACCATTATTGCATGCTAATTTTACTTGAGTCCAAATATCCCAAATTCCAAGTTTATGT
2543814 TCATATT
66 TCATATT
2543821 A
1 A
2543822 GGGTTTTAAG
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 72 1.00
ACGTcount: A:0.30, C:0.17, G:0.11, T:0.42
Consensus pattern (72 bp):
ATTTGGTACCATTATTGCATGCTAATTTTACTTGAGTCCAAATATCCCAAATTCCAAGTTTATGT
TCATATT
Found at i:2557192 original size:114 final size:114
Alignment explanation
Indices: 2556990--2557210 Score: 406
Period size: 114 Copynumber: 1.9 Consensus size: 114
2556980 CGAATAACGG
*
2556990 ATCTTAAGTGAAAAGATGAAAAATTTGTGCTTGTGAAAGATAGAGCAAGCAGGAAAAGGAGAAAC
1 ATCTTAAGTGAAAAGATGAAAAATTTGTGCTTGTGAAAGATAGAACAAGCAGGAAAAGGAGAAAC
2557055 TAAAGATTTAAGTCTGATGAATGTTTATATTATCAAAGAAAGAGTTTAT
66 TAAAGATTTAAGTCTGATGAATGTTTATATTATCAAAGAAAGAGTTTAT
* *
2557104 ATCTTAAGTGAAAAGATGAAAATTTTGTGCTTGTGAAAGATAGAACAAGCAGGAAAATGAGAAAC
1 ATCTTAAGTGAAAAGATGAAAAATTTGTGCTTGTGAAAGATAGAACAAGCAGGAAAAGGAGAAAC
*
2557169 TAAAGATTTAAGTCTGATTAATGTTTATATTATCAAAGAAAG
66 TAAAGATTTAAGTCTGATGAATGTTTATATTATCAAAGAAAG
2557211 TTTATAAACA
Statistics
Matches: 103, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
114 103 1.00
ACGTcount: A:0.44, C:0.06, G:0.21, T:0.29
Consensus pattern (114 bp):
ATCTTAAGTGAAAAGATGAAAAATTTGTGCTTGTGAAAGATAGAACAAGCAGGAAAAGGAGAAAC
TAAAGATTTAAGTCTGATGAATGTTTATATTATCAAAGAAAGAGTTTAT
Found at i:2560230 original size:8 final size:8
Alignment explanation
Indices: 2560217--2560266 Score: 55
Period size: 8 Copynumber: 6.0 Consensus size: 8
2560207 TCTTTATGTA
2560217 TATATTAT
1 TATATTAT
2560225 TATATTAT
1 TATATTAT
*
2560233 AATATTAT
1 TATATTAT
2560241 TAATATTAT
1 T-ATATTAT
*
2560250 TACTTTTAT
1 TA-TATTAT
*
2560259 TAAATTAT
1 TATATTAT
2560267 CAAAATTTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
8 20 0.57
9 15 0.43
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (8 bp):
TATATTAT
Found at i:2560246 original size:9 final size:9
Alignment explanation
Indices: 2560218--2560266 Score: 59
Period size: 9 Copynumber: 5.8 Consensus size: 9
2560208 CTTTATGTAT
2560218 ATATTATT-
1 ATATTATTA
2560226 ATATTA-TA
1 ATATTATTA
2560234 ATATTATTA
1 ATATTATTA
2560243 ATATTATTA
1 ATATTATTA
* *
2560252 CTTTTATTA
1 ATATTATTA
2560261 A-ATTAT
1 ATATTAT
2560267 CAAAATTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
7 1 0.03
8 16 0.46
9 18 0.51
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (9 bp):
ATATTATTA
Found at i:2574267 original size:3 final size:3
Alignment explanation
Indices: 2574259--2574375 Score: 171
Period size: 3 Copynumber: 39.0 Consensus size: 3
2574249 CCATATTGAT
* * *
2574259 TTA TTA TTA TTT TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA CTA TAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
2574307 TTA TTA TTA TTA TTA TTA TTA CTA TAA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
2574355 TAA ATA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA
2574376 AATATATATA
Statistics
Matches: 100, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 100 1.00
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:2574384 original size:2 final size:2
Alignment explanation
Indices: 2574377--2574401 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2574367 TTATTATTAA
2574377 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
2574402 CATAAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2574388 original size:27 final size:26
Alignment explanation
Indices: 2574260--2574388 Score: 137
Period size: 24 Copynumber: 5.1 Consensus size: 26
2574250 CATATTGATT
* *
2574260 TATTATTATTTTTATTATTAT-TAT-
1 TATTATTATTATTATTAATATATATA
*
2574284 TATTATTATTATTATTACTATA-AT-
1 TATTATTATTATTATTAATATATATA
2574308 TATTATTATTATTATT-AT-TACTATA
1 TATTATTATTATTATTAATATA-TATA
* *
2574333 -ATTATTATTATTATTATTATTATAAA
1 TATTATTATTATTATTAATA-TATATA
2574359 TATTATTATTATTATTAAATATATATA
1 TATTATTATTATTATT-AATATATATA
2574386 TAT
1 TAT
2574389 ATATATATAT
Statistics
Matches: 89, Mismatches: 7, Indels: 15
0.80 0.06 0.14
Matches are distributed among these distances:
22 2 0.02
23 1 0.01
24 54 0.61
25 1 0.01
26 3 0.03
27 25 0.28
28 3 0.03
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (26 bp):
TATTATTATTATTATTAATATATATA
Found at i:2575764 original size:13 final size:13
Alignment explanation
Indices: 2575748--2575787 Score: 55
Period size: 12 Copynumber: 3.1 Consensus size: 13
2575738 ATATAATAAA
2575748 TAAATATTTATTT
1 TAAATATTTATTT
*
2575761 TAAATAAATTATTT
1 TAAAT-ATTTATTT
2575775 T-AATATTTATTT
1 TAAATATTTATTT
2575787 T
1 T
2575788 TCAATATCGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 8 0.33
13 8 0.33
14 8 0.33
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TAAATATTTATTT
Found at i:2576011 original size:12 final size:12
Alignment explanation
Indices: 2575994--2576018 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2575984 AAATTAAATA
2575994 TATTTTGAATTT
1 TATTTTGAATTT
2576006 TATTTTGAATTT
1 TATTTTGAATTT
2576018 T
1 T
2576019 TAATAATAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (12 bp):
TATTTTGAATTT
Found at i:2587153 original size:6 final size:6
Alignment explanation
Indices: 2587135--2587212 Score: 56
Period size: 6 Copynumber: 13.0 Consensus size: 6
2587125 ATTATGCTTG
* * * *
2587135 AAGAAA ATA-AAA AAG-AA AAGAAGA AA-AAA GAGAGA GAGAAA GAGAAA
1 AAGAAA A-AGAAA AAGAAA AAGAA-A AAGAAA AAGAAA AAGAAA AAGAAA
2587182 AAGAAAA AAGAAA AAGAAA AA-AAA GAAGAAA
1 AAG-AAA AAGAAA AAGAAA AAGAAA -AAGAAA
2587213 GGAAAAAAGG
Statistics
Matches: 60, Mismatches: 4, Indels: 15
0.76 0.05 0.19
Matches are distributed among these distances:
5 11 0.18
6 36 0.60
7 13 0.22
ACGTcount: A:0.78, C:0.00, G:0.21, T:0.01
Consensus pattern (6 bp):
AAGAAA
Found at i:2587163 original size:15 final size:15
Alignment explanation
Indices: 2587143--2587221 Score: 62
Period size: 15 Copynumber: 5.5 Consensus size: 15
2587133 TGAAGAAAAT
2587143 AAAAAAGAAAAGAAG
1 AAAAAAGAAAAGAAG
*
2587158 AAAAAAG-AGAG-AG
1 AAAAAAGAAAAGAAG
*
2587171 -AGAAAGAGAAA-AAG
1 AAAAAAGA-AAAGAAG
2587185 AAAAAAGAAAAAGAA-
1 AAAAAAG-AAAAGAAG
*
2587200 AAAAAAGAAGAA-AGG
1 AAAAAAGAA-AAGAAG
2587215 AAAAAAG
1 AAAAAAG
2587222 GGGTCAAGGT
Statistics
Matches: 51, Mismatches: 5, Indels: 16
0.71 0.07 0.22
Matches are distributed among these distances:
12 5 0.10
13 2 0.04
14 10 0.20
15 31 0.61
16 3 0.06
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (15 bp):
AAAAAAGAAAAGAAG
Found at i:2588442 original size:83 final size:83
Alignment explanation
Indices: 2588193--2588442 Score: 398
Period size: 83 Copynumber: 3.0 Consensus size: 83
2588183 CAATAGAAAA
*
2588193 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATTATTGAATTTA
1 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATTATTGAATTTG
2588258 GAAGATGAATTTGC-CAAT
66 GAAGATGAATTTGCTC-AT
* * *
2588276 AGCATCTTCTGGAAATGTTCTTTGAGTTATCTGATCTGGTTTGG-TA-AACCAATCATTGAATTT
1 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGACAGAACCAATTATTGAATTT
*
2588339 GGAAGATGAATGTGCTCAT
65 GGAAGATGAATTTGCTCAT
* *
2588358 AGCGTCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTGGACAGAACCAATTATTGAATTTG
1 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATTATTGAATTTG
2588423 GAAGATGAATTTGCTCAT
66 GAAGATGAATTTGCTCAT
2588441 AG
1 AG
2588443 TATAAATAAG
Statistics
Matches: 152, Mismatches: 11, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
81 4 0.03
82 68 0.45
83 76 0.50
84 4 0.03
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (83 bp):
AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATTATTGAATTTG
GAAGATGAATTTGCTCAT
Found at i:2589406 original size:113 final size:113
Alignment explanation
Indices: 2589275--2590121 Score: 1457
Period size: 113 Copynumber: 7.5 Consensus size: 113
2589265 GTCAGTTAAA
* *
2589275 TTCATAATGAGAATAACTCATTTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAA
1 TTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAA
* *
2589340 CCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTGCCAGAGAAGG
66 CCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTTCCAGAGAAAG
*
2589388 TTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAG
1 TTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAA
* *
2589453 CCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAG
66 CCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTTCCAGAGAAAG
2589501 TTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAA
1 TTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAA
2589566 CCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTTCCAGAGAAAG
66 CCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTTCCAGAGAAAG
2589614 TTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAA
1 TTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAA
* *
2589679 CCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTGCCAGAGAAGG
66 CCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTTCCAGAGAAAG
*
2589727 TTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAG
1 TTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAA
*
2589792 CCTTTTGCTCAAATCCATCA-TTGGATGGATCAGCTTTTCCAGAGAAAG
66 CCTTTTGCTCAAATCCATCACTT-GATGGATTAGCTTTTCCAGAGAAAG
2589840 TTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAA
1 TTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAA
* *
2589905 CCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTGCCAGAGAAGG
66 CCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTTCCAGAGAAAG
**
2589953 TTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA-AAAGTTCATAATGAGAAGAGCTTGTTCA
1 TTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAA-TTCATAATGAGAAGAATTTGTTCA
* * * *
2590017 ACCTTTTGCTCAAATCCATCACTCGATGGATCAACTTTTACAGAGAAAG
65 ACCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTTCCAGAGAAAG
* *
2590066 TTCATAATGAGAAGAACTCATC-GAAAGAAGGATGAAGAAGTTCATAATGAGAAGAA
1 TTCATAATGAGAAGAACTCATCTG-AAGAAGGAAGAAGAAATTCATAATGAGAAGAA
2590122 CTCATCAAGA
Statistics
Matches: 698, Mismatches: 31, Indels: 10
0.94 0.04 0.01
Matches are distributed among these distances:
112 6 0.01
113 688 0.99
114 4 0.01
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.27
Consensus pattern (113 bp):
TTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAA
CCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTTCCAGAGAAAG
Found at i:2590389 original size:3 final size:3
Alignment explanation
Indices: 2590381--2590503 Score: 174
Period size: 3 Copynumber: 41.0 Consensus size: 3
2590371 CCATATTGAT
* * *
2590381 TTA TTA TTA TTA TTT TTA TTA TTA TTA TTA TTA TTA TTA TTA CTA TAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
2590429 TTA TTA TTA TTA TTA TTA TTA ATA TAA ATA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
2590477 TTA TAA ATA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
2590504 AAAATATATA
Statistics
Matches: 104, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 104 1.00
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:2590419 original size:27 final size:27
Alignment explanation
Indices: 2590381--2590503 Score: 192
Period size: 27 Copynumber: 4.6 Consensus size: 27
2590371 CCATATTGAT
* * *
2590381 TTATTATTATTATTTTTATTATTATTA
1 TTATTATTATTATTATTATAAATATTA
* *
2590408 TTATTATTATTATTACTATAATTATTA
1 TTATTATTATTATTATTATAAATATTA
*
2590435 TTATTATTATTATTAATATAAATATTA
1 TTATTATTATTATTATTATAAATATTA
2590462 TTATTATTATTATTATTATAAATATTA
1 TTATTATTATTATTATTATAAATATTA
2590489 TTATTATTATTATTA
1 TTATTATTATTATTA
2590504 AAAATATATA
Statistics
Matches: 90, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 90 1.00
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (27 bp):
TTATTATTATTATTATTATAAATATTA
Found at i:2591901 original size:22 final size:21
Alignment explanation
Indices: 2591860--2591902 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
2591850 AAATATATAA
*
2591860 TAAATAAATATTTATTTATTT
1 TAAATAAATATTTATATATTT
2591881 TAAATAAATTATTT-TAATATTT
1 TAAATAAA-TATTTAT-ATATTT
2591903 ATTTTTCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TAAATAAATATTTATATATTT
Found at i:2592132 original size:12 final size:12
Alignment explanation
Indices: 2592115--2592139 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2592105 AAATTAAATA
2592115 TATTTTGAATTT
1 TATTTTGAATTT
2592127 TATTTTGAATTT
1 TATTTTGAATTT
2592139 T
1 T
2592140 TAATAATAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (12 bp):
TATTTTGAATTT
Found at i:2600412 original size:19 final size:21
Alignment explanation
Indices: 2600375--2600417 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
2600365 TAACTTTTTC
*
2600375 TTTTCTCTTTCTTTATTAA-T
1 TTTTCTCTTTCATTATTAACT
2600395 TTTTCTCTTTCATT-TTAACT
1 TTTTCTCTTTCATTATTAACT
2600415 TTT
1 TTT
2600418 ACTTTTTCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTTCTCTTTCATTATTAACT
Found at i:2613012 original size:54 final size:54
Alignment explanation
Indices: 2612900--2613228 Score: 410
Period size: 54 Copynumber: 6.1 Consensus size: 54
2612890 AATGCACTCG
* * * * * * *
2612900 TAGTGCCCATACGGTCATTCATAAACATATTATGAATT-TCGTGGTTTGCACACA
1 TAGTGCCGAAACGGTTATTCATCAACATATGATGAATTCT-GTGATTTGCACACT
* * *
2612954 TAGTGCCAAAACGGTTATTCATCAACATATGATGAATTCTGTGATTTGTAAACT
1 TAGTGCCGAAACGGTTATTCATCAACATATGATGAATTCTGTGATTTGCACACT
* * * * *
2613008 TAGTGTCAAAACGGTTATTTATCAATATATGATGAATTAC-ATGATTTGCACACT
1 TAGTGCCGAAACGGTTATTCATCAACATATGATGAATT-CTGTGATTTGCACACT
** * *
2613062 TAGTTTCGAAACGATTATTCATCAACATATGATGAATTCCGTGATTTGCACACT
1 TAGTGCCGAAACGGTTATTCATCAACATATGATGAATTCTGTGATTTGCACACT
* *
2613116 TAGTGCCGAAACAGTTATTCATCAACATATGATGAATTCCGTGATTTGCACACT
1 TAGTGCCGAAACGGTTATTCATCAACATATGATGAATTCTGTGATTTGCACACT
* **
2613170 TAGTGCTGAAACGAATATTCATCAACATATGATGAATTCTGTGATTTGCACACT
1 TAGTGCCGAAACGGTTATTCATCAACATATGATGAATTCTGTGATTTGCACACT
2613224 TAGTG
1 TAGTG
2613229 TCTATTTGGT
Statistics
Matches: 242, Mismatches: 30, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
53 1 0.00
54 239 0.99
55 2 0.01
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.34
Consensus pattern (54 bp):
TAGTGCCGAAACGGTTATTCATCAACATATGATGAATTCTGTGATTTGCACACT
Found at i:2613304 original size:15 final size:15
Alignment explanation
Indices: 2613284--2613316 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
2613274 TGACTAGTAT
2613284 AATATATAGTTACAC
1 AATATATAGTTACAC
2613299 AATATATAGTTACAC
1 AATATATAGTTACAC
2613314 AAT
1 AAT
2613317 TAAAGCTCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.48, C:0.12, G:0.06, T:0.33
Consensus pattern (15 bp):
AATATATAGTTACAC
Found at i:2617032 original size:46 final size:49
Alignment explanation
Indices: 2616976--2617080 Score: 119
Period size: 46 Copynumber: 2.2 Consensus size: 49
2616966 TTCATTTGGG
* * * *
2616976 CATCCTTTCATAACAATTATGTATAGTT-TACATTTT-TCCT-T-TATGA
1 CATCCATTCATAACAAATATGCATAGTTGTACATTTTAT-ATGTCTATGA
* *
2617022 CATCCATTCATACCAAATATGCATTGTTGTACATTTTATATGTCTATGA
1 CATCCATTCATAACAAATATGCATAGTTGTACATTTTATATGTCTATGA
2617071 CATCCATTCA
1 CATCCATTCA
2617081 CACCACTTAT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
46 23 0.47
47 9 0.18
48 2 0.04
49 15 0.31
ACGTcount: A:0.30, C:0.20, G:0.08, T:0.43
Consensus pattern (49 bp):
CATCCATTCATAACAAATATGCATAGTTGTACATTTTATATGTCTATGA
Found at i:2617257 original size:81 final size:81
Alignment explanation
Indices: 2617156--2618254 Score: 1319
Period size: 81 Copynumber: 13.6 Consensus size: 81
2617146 TTACTTTTCA
* * * * * *
2617156 TCTAACTTGCATGATTGACACTTTTCTGCCAAATGCACAGCTAGGTCATTTATATTTTACT-ACA
1 TCTAACTGGCATAATTGACACATTTCTACCAAATGCACAGCTAGGCCATTTATCTTTTACTCA-A
*
2617220 TGGTCTTTAACCATTCG
65 CGGTCTTTAACCATTCG
* * * *
2617237 TCTAACTGGCATAATTGACACATTTATGCCAAATGCAAAGCTAGGCCAATTATCTTTTACTCAAC
1 TCTAACTGGCATAATTGACACATTTCTACCAAATGCACAGCTAGGCCATTTATCTTTTACTCAAC
2617302 GGTCTTTAACCATTCG
66 GGTCTTTAACCATTCG
*
2617318 TCTAACTGGCATAATTGACACATTTCTACCAAATGCACAGCTAGGCCATTTCTCTTTTACTCAAC
1 TCTAACTGGCATAATTGACACATTTCTACCAAATGCACAGCTAGGCCATTTATCTTTTACTCAAC
* **
2617383 GATCTTTAACTGTTCG
66 GGTCTTTAACCATTCG
* * ** * *
2617399 TCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCT-GGGGAATTATTTTTTACT-AAC
1 TCTAACTGGCATAATTGACACATTTCTACCAAATGCACAGCTAGGCCATTTATCTTTTACTCAAC
* *
2617462 GGACTTTAACCTTTCG
66 GGTCTTTAACCATTCG
* * * * * * *
2617478 TCTAACTGGCATATTTGACACATTTCTACTAAATGAACAACTAGGTCATTTATATTTTACTCCAC
1 TCTAACTGGCATAATTGACACATTTCTACCAAATGCACAGCTAGGCCATTTATCTTTTACTCAAC
* * *
2617543 GATTTTTAACCGTTCG
66 GGTCTTTAACCATTCG
* * * * * *
2617559 TCTACCTGACATAATTGACACATTTCTTCCAAATGCAAAGCTAGGACAATTATCTTTTACTCAAC
1 TCTAACTGGCATAATTGACACATTTCTACCAAATGCACAGCTAGGCCATTTATCTTTTACTCAAC
* *
2617624 GGTCTTTAACCGTTCA
66 GGTCTTTAACCATTCG
* *
2617640 TCTAATTGGAATAATTGACATC-TTTCTACCAAATGCACAGCTAGGCCATTTTATCTTTTACTCA
1 TCTAACTGGCATAATTGACA-CATTTCTACCAAATGCACAGCTAGGCCA-TTTATCTTTTACTCA
* *
2617704 ACGATCTTTAATCATTCG
64 ACGGTCTTTAACCATTCG
* * * *
2617722 TCTAACTGGCATAATTGACACCTTTC-AGCCAAATGCACAACTAGGGCATTTATTTTTTACTCAA
1 TCTAACTGGCATAATTGACACATTTCTA-CCAAATGCACAGCTAGGCCATTTATCTTTTACTCAA
*
2617786 CGGTCTTTAACCATTCA
65 CGGTCTTTAACCATTCG
* * * * *
2617803 TCTAACTTGTATAATTGACACATTTCTGCCAAATGCATAGTTAGGCCATTTATCTTTTACTCAAC
1 TCTAACTGGCATAATTGACACATTTCTACCAAATGCACAGCTAGGCCATTTATCTTTTACTCAAC
* *
2617868 GGTCTTTAACCGTTCA
66 GGTCTTTAACCATTCG
* * *
2617884 TCTAACTGGCATAATTGACACATTTCTACCAAATGTACAGCTAGTCCATTTATCTTTTACACAAC
1 TCTAACTGGCATAATTGACACATTTCTACCAAATGCACAGCTAGGCCATTTATCTTTTACTCAAC
* *
2617949 GATCTTTAACCGTTCG
66 GGTCTTTAACCATTCG
* * * *
2617965 TCTAACTGGCATAATTGACACCTTTCTACCAAATGCATAACTAGGCCATTTATCCTTTACTCAAC
1 TCTAACTGGCATAATTGACACATTTCTACCAAATGCACAGCTAGGCCATTTATCTTTTACTCAAC
* *
2618030 GGTCTTAAACCATTCC
66 GGTCTTTAACCATTCG
* * ** *
2618046 TCTAACTGGCATAATTGACATC-TTTCTACCAAATGTACATCTAATCTATTTATCTTTTACTCAA
1 TCTAACTGGCATAATTGACA-CATTTCTACCAAATGCACAGCTAGGCCATTTATCTTTTACTCAA
*
2618110 CGGTCTTTAACCATTCC
65 CGGTCTTTAACCATTCG
* * * **
2618127 TCTAACTGGCATAATTGACACCTTTATACCAAATGCACAACTAGGCCATTTATCTTTTACAAAAC
1 TCTAACTGGCATAATTGACACATTTCTACCAAATGCACAGCTAGGCCATTTATCTTTTACTCAAC
* ** *
2618192 GGTATTTAACTGTTCA
66 GGTCTTTAACCATTCG
* * ** *
2618208 TCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAGTTAGGCC
1 TCTAACTGGCATAATTGACACATTTCTACCAAATGCACAGCTAGGCC
2618255 TCAAAGGAAC
Statistics
Matches: 873, Mismatches: 135, Indels: 20
0.85 0.13 0.02
Matches are distributed among these distances:
79 51 0.06
80 28 0.03
81 723 0.83
82 71 0.08
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (81 bp):
TCTAACTGGCATAATTGACACATTTCTACCAAATGCACAGCTAGGCCATTTATCTTTTACTCAAC
GGTCTTTAACCATTCG
Found at i:2618444 original size:67 final size:68
Alignment explanation
Indices: 2618204--2618457 Score: 420
Period size: 68 Copynumber: 3.8 Consensus size: 68
2618194 TATTTAACTG
* *
2618204 TTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGAACTTAG
1 TTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
2618269 CCT
66 CCT
* ** *
2618272 TTCATCTAACTAGCATAATTGACATATTTCTGTCAAATGCACAGTTTGGCCTCAAAGGCACTTAG
1 TTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
2618337 CCT
66 CCT
*
2618340 TTCATCTAACTGGCATAATTGACACCTTTCTTTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
1 TTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
2618405 -CT
66 CCT
* *
2618407 TTTATCTAACTGGCATAATTGACACCTTTCTGACAAATGCACAGTTAGGCC
1 TTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCC
2618458 ATGTATCTTT
Statistics
Matches: 172, Mismatches: 14, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
67 50 0.29
68 122 0.71
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (68 bp):
TTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
CCT
Found at i:2620428 original size:54 final size:55
Alignment explanation
Indices: 2620358--2620506 Score: 230
Period size: 55 Copynumber: 2.7 Consensus size: 55
2620348 TATATTTCCT
* * *
2620358 ATACGAAAATTAATACACTTAGTATGTATTTCTTAGTTT-GTACACATAGTGCCC
1 ATACGAAAATTCATACACTTAGTATGAATTTCTTAGTTTCGCACACATAGTGCCC
2620412 ATACGAAAATTCATACACTTAGTATGAATTTCTTAGTTTCGCACACATAGTGCCC
1 ATACGAAAATTCATACACTTAGTATGAATTTCTTAGTTTCGCACACATAGTGCCC
*
2620467 ATACTG-AAATTCATACATTTAGTATGAATTTCTTAAGTTT
1 ATAC-GAAAATTCATACACTTAGTATGAATTTCTT-AGTTT
2620507 TTGCATGCTT
Statistics
Matches: 88, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
54 37 0.42
55 45 0.51
56 6 0.07
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.38
Consensus pattern (55 bp):
ATACGAAAATTCATACACTTAGTATGAATTTCTTAGTTTCGCACACATAGTGCCC
Found at i:2623162 original size:12 final size:12
Alignment explanation
Indices: 2623145--2623171 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
2623135 GGAGGGAAAC
2623145 AATTTGGGCATT
1 AATTTGGGCATT
2623157 AATTTGGGCATT
1 AATTTGGGCATT
2623169 AAT
1 AAT
2623172 GAGAAATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.41
Consensus pattern (12 bp):
AATTTGGGCATT
Found at i:2626346 original size:20 final size:21
Alignment explanation
Indices: 2626316--2626355 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
2626306 TAATAAATTA
*
2626316 TTTAAATAAATCAATTCATAT
1 TTTAAATAAATCAATCCATAT
2626337 TTTAAA-AAATCAATCCATA
1 TTTAAATAAATCAATCCATA
2626356 CTAATAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (21 bp):
TTTAAATAAATCAATCCATAT
Found at i:2626444 original size:18 final size:18
Alignment explanation
Indices: 2626367--2626454 Score: 60
Period size: 18 Copynumber: 4.9 Consensus size: 18
2626357 TAATAAATTA
2626367 TTTAAAATAAATCATCCATAT
1 TTTAAAATAAATCA---ATAT
2626388 TTTAAAATAAAATCAAT-T
1 TTTAAAAT-AAATCAATAT
** *
2626406 CATACTAATAAAT---TA-
1 TTTA-AAATAAATCAATAT
2626421 TTTAAAATAAATCAATAT
1 TTTAAAATAAATCAATAT
*
2626439 TTTAAAAAAAATCAAT
1 TTTAAAATAAATCAAT
2626455 CCATACTAAT
Statistics
Matches: 53, Mismatches: 7, Indels: 17
0.69 0.09 0.22
Matches are distributed among these distances:
14 7 0.13
15 3 0.06
17 2 0.04
18 22 0.42
19 5 0.09
21 8 0.15
22 6 0.11
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (18 bp):
TTTAAAATAAATCAATAT
Found at i:2626527 original size:27 final size:27
Alignment explanation
Indices: 2626497--2627031 Score: 195
Period size: 22 Copynumber: 20.5 Consensus size: 27
2626487 CATATTTTAA
*
2626497 AAATAAATCCATACTAAATTTTAAAAT
1 AAATCAATCCATACTAAATTTTAAAAT
2626524 AAATCAATCC--A-T--ATTTTAAAAT
1 AAATCAATCCATACTAAATTTTAAAAT
2626546 AAATCAATCCATACTATAAAGTATTTAAAAT
1 AAATCAATCCATAC--TAAA-T-TTTAAAAT
* * **
2626577 AAATCAATTCATAC--AACTACAATAAT
1 AAATCAATCCATACTAAATTTTAA-AAT
2626603 AAATCAATCC--A-T--ATTTTAAAAT
1 AAATCAATCCATACTAAATTTTAAAAT
* * *
2626625 CAATTCCTAAT--AAAGT--A-TTTAAAAT
1 -AAAT-C-AATCCATACTAAATTTTAAAAT
* **
2626650 AAATCAATCCATAC--AACTACAATAAT
1 AAATCAATCCATACTAAATTTTAA-AAT
2626676 AAATCAATCC--A-T--ATTTTAAAAT
1 AAATCAATCCATACTAAATTTTAAAAT
* *
2626698 AAATCAATCC-TAATAAATTATTTAAAT
1 AAATCAATCCATACTAAATT-TTAAAAT
2626725 AAATCAATCC--A-T--ATTTTAAAAT
1 AAATCAATCCATACTAAATTTTAAAAT
*
2626747 AAATCAAT-AATACTAATAAATTATTTAAAAT
1 AAATCAATCCATAC---TAAA-T-TTTAAAAT
2626778 AAATCAATCC--A-T--ATTTTAAAAT
1 AAATCAATCCATACTAAATTTTAAAAT
*
2626800 AAATCTATCCATACTATAAATTACTTAAAAT
1 AAATCAATCCATAC--TAAATT--TTAAAAT
2626831 AAATCAATCC--A-T--ATTTTAAAAT
1 AAATCAATCCATACTAAATTTTAAAAT
2626853 AAATCAATCCATACTAATAAAGTATTTAAAAT
1 AAATCAATCCATAC---TAAA-T-TTTAAAAT
* * **
2626885 AATTCAATCCATAC--AACTACAATAAT
1 AAATCAATCCATACTAAATTTTAA-AAT
2626911 AAATCAATCC--A-T--ATTTTAAAAT
1 AAATCAATCCATACTAAATTTTAAAAT
2626933 AAATCAATCCATACTAATAAATTATTTAAAAT
1 AAATCAATCCATAC---TAAA-T-TTTAAAAT
*
2626965 AAATCAAT---T-C-ATATTTTAAAAT
1 AAATCAATCCATACTAAATTTTAAAAT
*
2626987 AAATCAATACATACTAATAAATTATTTAAAAT
1 AAATCAATCCATAC---TAAA-T-TTTAAAAT
2627019 AAATCAATCCATA
1 AAATCAATCCATA
2627032 TTTTAAAAAA
Statistics
Matches: 393, Mismatches: 35, Indels: 155
0.67 0.06 0.27
Matches are distributed among these distances:
22 116 0.30
23 23 0.06
24 22 0.06
25 24 0.06
26 46 0.12
27 32 0.08
28 3 0.01
29 7 0.02
30 7 0.02
31 56 0.14
32 57 0.15
ACGTcount: A:0.52, C:0.14, G:0.01, T:0.34
Consensus pattern (27 bp):
AAATCAATCCATACTAAATTTTAAAAT
Found at i:2626774 original size:201 final size:203
Alignment explanation
Indices: 2626305--2626872 Score: 598
Period size: 201 Copynumber: 2.8 Consensus size: 203
2626295 TACAACTACA
*
2626305 ATAATAAATTATTTAAATAAATCAATTCATATTTT-AAA-AAATCAATCCATACTAATAAATTAT
1 ATAATAAATTATTTAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
*** * * *
2626368 TTAAAATAAATC-ATCCATATTTTAAAATAAAATCAATTCATACTAATAAATTATTTAAAATAAA
66 TTAAAATAAATCAATCCATAAACTAAAATAAAATCAATCCATACTAATAAATAATTCAAAATAAA
*
2626432 TCAATATTTTAAAAAAAATCAATCCATACTAATAAAGTAATTAAATAAATAAATCCATATTTTAA
131 -CAATATTTTAAAAAAAATCAATCCATACTAAT-AAGCAATTAAATAAATAAATCCATATTTTAA
2626497 AAATAAATCC
194 AAATAAATCC
* * *
2626507 ATACTAAATT-TTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACT-ATAAAGTAT
1 ATAATAAATTATTTAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
* * ** **
2626570 TTAAAATAAATCAATTCATACAACTACAATAATAAATCAATCCATA-TTTTAAAATCAATTCCTA
66 TTAAAATAAATCAATCCATA-AACTAAAAT-A-AAATCAATCCATACTAAT-AAAT-AATTCAAA
* * *
2626634 AT-AA-AGTA-TTTAAAATAAATCAATCCATAC-AACT-A-CAA-T-AATAAATCAATCCATATT
126 ATAAACAATATTTTAAAAAAAATCAATCCATACTAA-TAAGCAATTAAATAAATAAATCCATATT
2626691 TT-AAAATAAATCAATC
190 TTAAAAATAAATC---C
* *
2626707 CTAATAAATTATTTAAATAAATCAATCCATATTTTAAAATAAATCAAT-AATACTAATAAATTAT
1 ATAATAAATTATTTAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
*** * *
2626771 TTAAAATAAATCAATCCATATTTTAAAAT-AAATCTATCCATACT-ATAAATTACTT-AAAATAA
66 TTAAAATAAATCAATCCATAAACTAAAATAAAATCAATCCATACTAATAAA-TAATTCAAAATAA
*
2626833 ATCAATCCATATTTTAAAATAAATCAATCCATACTAATAA
130 A-C-A---ATATTTTAAAAAAAATCAATCCATACTAATAA
2626873 AGTATTTAAA
Statistics
Matches: 304, Mismatches: 36, Indels: 50
0.78 0.09 0.13
Matches are distributed among these distances:
195 3 0.01
196 8 0.03
197 24 0.08
198 20 0.07
199 2 0.01
200 21 0.07
201 86 0.28
202 36 0.12
203 66 0.22
204 11 0.04
205 3 0.01
206 18 0.06
207 6 0.02
ACGTcount: A:0.52, C:0.13, G:0.01, T:0.34
Consensus pattern (203 bp):
ATAATAAATTATTTAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
TTAAAATAAATCAATCCATAAACTAAAATAAAATCAATCCATACTAATAAATAATTCAAAATAAA
CAATATTTTAAAAAAAATCAATCCATACTAATAAGCAATTAAATAAATAAATCCATATTTTAAAA
ATAAATCC
Found at i:2626801 original size:53 final size:54
Alignment explanation
Indices: 2626306--2626897 Score: 616
Period size: 53 Copynumber: 11.6 Consensus size: 54
2626296 ACAACTACAA
*
2626306 TAATAAATTATTT-AAATAAATCAATTCATATTTT-AAA-AAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*
2626357 TAATAAATTATTTAAAATAAATC-ATCCATATTTTAAAATAAAATCAATTCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAAT-AAATCAATCCATAC
*
2626411 TAATAAATTATTTAAAATAAATC-A---ATATTTTAAAAAAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* * * *
2626461 TAATAAAGTAATT-AAATAAATAAATCCATATTTT--AA-AAATAAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
2626511 ---TAAA-T-TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* * *** * * *
2626560 T-ATAAAGTATTTAAAATAAATCAATTCATACAACTACAAT-AATAAATCAAT-C
1 TAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAAATCAATCCATAC
* * **
2626612 -CAT--A-T-TTTAAAATCAATTCCTAATAAAGTA-TTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAAT-AAAT-C-AATCCA-TATTTTAAAATAAATCAATCCATAC
*
2626664 -AACTACA--A--T--AATAAATCAATCCATATTTTAAAATAAATCAAT-C---C
1 TAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*
2626708 TAATAAATTATTT-AAATAAATCAATCCATATTTTAAAATAAATCAAT-AATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*
2626760 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCTATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*
2626814 T-ATAAATTACTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* *
2626867 TAATAAAGTATTTAAAATAATTCAATCCATA
1 TAATAAATTATTTAAAATAAATCAATCCATA
2626898 CAACTACAAT
Statistics
Matches: 461, Mismatches: 39, Indels: 79
0.80 0.07 0.14
Matches are distributed among these distances:
44 4 0.01
45 4 0.01
46 22 0.05
47 7 0.02
48 31 0.07
49 59 0.13
50 48 0.10
51 56 0.12
52 34 0.07
53 122 0.26
54 73 0.16
55 1 0.00
ACGTcount: A:0.52, C:0.13, G:0.01, T:0.34
Consensus pattern (54 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
Found at i:2626882 original size:32 final size:31
Alignment explanation
Indices: 2626845--2627076 Score: 143
Period size: 32 Copynumber: 8.4 Consensus size: 31
2626835 CAATCCATAT
2626845 TTTAAAATAAATCAATCCATACTAATAAAGTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
* *
2626877 TTTAAAATAATTCAATCCATAC-AACTACA-A
1 TTTAAAATAAATCAATCCATACTAA-TAAATA
2626907 --T--AATAAATCAATCC--A-T-AT-----
1 TTTAAAATAAATCAATCCATACTAATAAATA
2626925 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
2626957 TTTAAAATAAATCAAT---T-C--AT--AT-
1 TTTAAAATAAATCAATCCATACTAATAAATA
*
2626979 TTTAAAATAAATCAATACATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
2627011 TTTAAAATAAATCAAT-C---C--AT--AT-
1 TTTAAAATAAATCAATCCATACTAATAAATA
* *
2627033 TTTAAAAAAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
2627065 TTTAAAATAAAT
1 TTTAAAATAAAT
2627077 TATTTTAAAA
Statistics
Matches: 159, Mismatches: 5, Indels: 72
0.67 0.02 0.31
Matches are distributed among these distances:
20 1 0.01
22 45 0.28
23 4 0.03
24 4 0.03
25 2 0.01
26 20 0.13
28 7 0.04
29 1 0.01
30 3 0.02
31 5 0.03
32 67 0.42
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.34
Consensus pattern (31 bp):
TTTAAAATAAATCAATCCATACTAATAAATA
Found at i:2626978 original size:54 final size:54
Alignment explanation
Indices: 2626908--2627076 Score: 302
Period size: 54 Copynumber: 3.1 Consensus size: 54
2626898 CAACTACAAT
*
2626908 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATACATACTAATAAATTATTTAA
*
2626962 AATAAATCAATTCATATTTTAAAATAAATCAATACATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATACATACTAATAAATTATTTAA
* *
2627016 AATAAATCAATCCATATTTTAAAAAAAATCAATTCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATACATACTAATAAATTATTTAA
2627070 AATAAAT
1 AATAAAT
2627077 TATTTTAAAA
Statistics
Matches: 110, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 110 1.00
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.36
Consensus pattern (54 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATACATACTAATAAATTATTTAA
Found at i:2626990 original size:134 final size:133
Alignment explanation
Indices: 2626775--2627031 Score: 451
Period size: 134 Copynumber: 1.9 Consensus size: 133
2626765 AATTATTTAA
*
2626775 AATAAATCAATCCATATTTTAAAATAAATCTATCCATACTATAAATTACTTAAAATAAATCAATC
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTATAAATTACTTAAAATAAATCAATC
* *
2626840 CATATTTTAAAATAAATCAATCCATACTAATAAAGTATTTAAAATAATTCAATCCATACAACTAC
66 CATATTTTAAAATAAATCAATACATACTAATAAAGTATTTAAAATAAATCAATCCATACAACTAC
2626905 AAT
131 AAT
*
2626908 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACT-ATAAATTACTTAAAATAAATCAAT
* *
2626973 TCATATTTTAAAATAAATCAATACATACTAATAAATTATTTAAAATAAATCAATCCATA
65 CCATATTTTAAAATAAATCAATACATACTAATAAAGTATTTAAAATAAATCAATCCATA
2627032 TTTTAAAAAA
Statistics
Matches: 117, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
133 39 0.33
134 78 0.67
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (133 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTATAAATTACTTAAAATAAATCAATC
CATATTTTAAAATAAATCAATACATACTAATAAAGTATTTAAAATAAATCAATCCATACAACTAC
AAT
Found at i:2627037 original size:22 final size:22
Alignment explanation
Indices: 2627011--2627111 Score: 76
Period size: 22 Copynumber: 4.5 Consensus size: 22
2627001 TAATAAATTA
2627011 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
* *
2627033 TTTAAAAAAAATCAATTCATACT
1 TTTAAAATAAATCAATCCATA-T
** * ** * **
2627056 AATAAATTATTTAAAATAAATTAT
1 TTTAAAATAAAT-CAATCCA-TAT
2627080 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
2627102 TTTATAATAA
1 TTTAAAATAA
2627112 TTTATTTTAA
Statistics
Matches: 56, Mismatches: 20, Indels: 6
0.68 0.24 0.07
Matches are distributed among these distances:
22 31 0.55
23 11 0.20
24 12 0.21
25 2 0.04
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:2627083 original size:235 final size:231
Alignment explanation
Indices: 2626631--2627100 Score: 766
Period size: 235 Copynumber: 2.0 Consensus size: 231
2626621 AAATCAATTC
2626631 CTAATAAAGTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAA
1 CTAATAAAGTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAA
2626696 ATAAATCAATCCTAATAAATTATTTAAATAAATCAATCCATATTTTAAAATAAATCAATAATACT
66 ATAAATCAATCCTAATAAATTATTTAAATAAATCAATCCATATTTTAAAATAAATCAATAATACT
* *
2626761 AATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCTATCCATACTATAAATTACTT
131 AATAAATTATTTAAAATAAATCAATCCATATTTTAAAAAAAATCAATCCATACTATAAATTACTT
2626826 AAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA
196 AAAAT-AA-CAAT-C-TATTTTAAAATAAATCAATCCATA
*
2626866 CTAATAAAGTATTTAAAATAATTCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAA
1 CTAATAAAGTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAA
*
2626931 ATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATA
66 ATAAATCAAT-C---CTAATAAATTATTT-AAATAAATCAATCCATATTTTAAAATAAATCAATA
*
2626996 CATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAAAAAATCAATTCATACTAATAA
126 -ATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAAAAAATCAATCCATACT-ATAA
*
2627061 ATTATTTAAAAT-A-AAT-TATTTTAAAATAAATCAATCCATA
189 ATTACTTAAAATAACAATCTATTTTAAAATAAATCAATCCATA
2627101 TTTTATAATA
Statistics
Matches: 222, Mismatches: 6, Indels: 14
0.92 0.02 0.06
Matches are distributed among these distances:
235 98 0.44
236 1 0.00
238 3 0.01
239 14 0.06
240 35 0.16
241 56 0.25
242 15 0.07
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.34
Consensus pattern (231 bp):
CTAATAAAGTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAA
ATAAATCAATCCTAATAAATTATTTAAATAAATCAATCCATATTTTAAAATAAATCAATAATACT
AATAAATTATTTAAAATAAATCAATCCATATTTTAAAAAAAATCAATCCATACTATAAATTACTT
AAAATAACAATCTATTTTAAAATAAATCAATCCATA
Found at i:2627085 original size:15 final size:15
Alignment explanation
Indices: 2627056--2627139 Score: 66
Period size: 15 Copynumber: 5.3 Consensus size: 15
2627046 AATTCATACT
2627056 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
2627070 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
2627085 AATAAATCAATCCATATTTTAT
1 AAT--A--AAT---TATTTTAA
*
2627107 AATAATTTATTTTAA
1 AATAAATTATTTTAA
2627122 AATAAA-T-TTTTAA
1 AATAAATTATTTTAA
2627135 AATAA
1 AATAA
2627140 TAACCTTATT
Statistics
Matches: 58, Mismatches: 4, Indels: 17
0.73 0.05 0.22
Matches are distributed among these distances:
13 11 0.19
14 10 0.17
15 20 0.34
17 1 0.02
18 2 0.03
19 3 0.05
20 1 0.02
22 10 0.17
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:2627587 original size:54 final size:55
Alignment explanation
Indices: 2627523--2627665 Score: 198
Period size: 55 Copynumber: 2.6 Consensus size: 55
2627513 TCCTATACAA
* * * *
2627523 AAATTAATACACTTAGTATGTATTTCTTAGTTT-GTACATATAGTGCCCATACGG
1 AAATTCATACACTTAGTATGAATTTCTTAGTTTCATACACATAGTGCCCATACGG
*
2627577 AAATTCATACACTTAGTATGAATTTCTTAGTTTCATACACATAGTGCCCATACTG
1 AAATTCATACACTTAGTATGAATTTCTTAGTTTCATACACATAGTGCCCATACGG
* * *
2627632 AAATTCATACATTTAGAATGAATATCTTAAGTTT
1 AAATTCATACACTTAGTATGAATTTCTT-AGTTT
2627666 TTGAACGCTT
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
54 31 0.39
55 43 0.54
56 5 0.06
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.38
Consensus pattern (55 bp):
AAATTCATACACTTAGTATGAATTTCTTAGTTTCATACACATAGTGCCCATACGG
Found at i:2632385 original size:81 final size:81
Alignment explanation
Indices: 2632215--2634313 Score: 2523
Period size: 81 Copynumber: 26.2 Consensus size: 81
2632205 GCATTTACTT
* * * * *
2632215 TTCATCTAACTTGCATGATTGACACTTTTCTGCCAAATGCATAGCTAGACCA-TTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
2632279 CAACGGTCTTTAACCG
66 CAACGGTCTTTAACCG
* ** * *
2632295 TTCGTCTAACTCTCATAATTGACACCTTTCTGCCAAATGCATAGCTAGGCCAATTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
* *
2632360 CAACGGTCTTTAATCA
66 CAACGGTCTTTAACCG
** * *
2632376 TTTGTCTAACTGGCATAATTGACATCTTTCTGCCAAATGCACAGCTATGCCATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
* * *
2632441 CAAAGGTCATTAATCG
66 CAACGGTCTTTAACCG
* * * *
2632457 TTCGTCTAA-TATGCATAATTGACACCTTTCTGTCAAATGCATAGCTAGGCCATTTATCTTTTAC
1 TTCATCTAACT-GGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTAC
* * * *
2632521 TCAACAGTTTTTAATCA
65 TCAACGGTCTTTAACCG
** *
2632538 TTCGCCTAAGTGGCATAATTGACACCTTTCTGCCAAAT--ACA---AGGCCATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
2632598 CAACGGTCTTTAACCG
66 CAACGGTCTTTAACCG
* * ** * * * *
2632614 TTCATCTAACTAGCATAATTGACAGCTTTCTATCAATTGCACATCTATGCCATTTATCATTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
*
2632679 CAACGGTCTTTAATCG
66 CAACGGTCTTTAACCG
* *
2632695 TTCATCTAACTGGAATAATTAACACCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
*
2632760 CAACAGTCTTTAACCG
66 CAACGGTCTTTAACCG
* * * *
2632776 TTCATCTAACT-GCATAATTGACACATTTCTGTCAAATTCACAGCTAGGCCAATTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
*
2632840 CAATGGTCTTTAACCG
66 CAACGGTCTTTAACCG
* * *
2632856 TTCGTCTAA-T----TAATTGACACCATTCTGCCAAATGCATAGCTAGGCCATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
* *
2632916 CATCAGTCTTTAACCG
66 CAACGGTCTTTAACCG
* * * * * *
2632932 TTCATCTAACTGTCTTAATTGACACATTTATGCCAAATGCATAGCTAGGCCTTTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
* *
2632997 CGACGGTCTTTAACCA
66 CAACGGTCTTTAACCG
*** ** * * * *
2633013 TTTGCCTAACTGGCATAATTGACATATTTATGCCAAATGCACAACTAGGTCATTTATTTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
* *
2633078 CAACAGTCTTTAATCG
66 CAACGGTCTTTAACCG
* * *
2633094 TTCATCTAACTGACATAATTGACACCTTTCTACCAAATG-A-A---AGGCCATTTATCTTTTACC
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
*
2633154 CAACGGTCTTTAACCA
66 CAACGGTCTTTAACCG
* ** * * * *
2633170 TTCGTCTAACTACCATAATTG--ACCTTTCTACCAAATGCATAGCTAGGCCATTTATATTATACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
*
2633233 CAACGGACTTTAACCG
66 CAACGGTCTTTAACCG
* * * *
2633249 TTCGTCTAACTGGCATAATTGACACATTTATACCAAATGCACAGCTAGGCCATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
* *
2633314 CAACAGTCTTTAACCA
66 CAACGGTCTTTAACCG
* * * * *
2633330 TTCATCTAACTAGCATAATTGACACATTTCTTCCAAATGCACAACTAGGCCATTTATATTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
** *
2633395 CAATTGTCTTTAACCA
66 CAACGGTCTTTAACCG
* * * * * *
2633411 TTCATCTAACTGACATAATTGACACATTTCTACCAAATACATAGCTAGGCCATTTATCCTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
2633476 CAACGGTCTTTAACCG
66 CAACGGTCTTTAACCG
2633492 TTCATCTAACTGGCATAATTGACACCTTTCTG-CAAATGCACAGCTAGGCCATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
*
2633556 CAACGGTCTGTAACCG
66 CAACGGTCTTTAACCG
* * * * * *
2633572 TTCATCTAACTAGCATATTTGACACCTTTCTACCAAATGCGCAGCTAGGGCATTTATCTTTTAAT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
*
2633637 CAACGGACTTTAACCG
66 CAACGGTCTTTAACCG
* *
2633653 TTCGTCTAACTGGCATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
*
2633718 CAACGGTCTTTAACAG
66 CAACGGTCTTTAACCG
* * * *
2633734 TTCATCTAACTGGCATAATTGACACATTTCTACCAAATTCATAGCTAGGCCATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
* *
2633799 CAACAGTCTTTAACCA
66 CAACGGTCTTTAACCG
* * * * *
2633815 TGCATCTAACTGTCATAATTGACACCTTTCTTCCAAATGCACAGGTAGGCCATTTATTTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
2633880 CAACGGTCTTTAACCG
66 CAACGGTCTTTAACCG
* * * * ** *
2633896 TTCGTATAACTGGCATAATTGACACCTTTCTGTCAAATGCATGCACACCTAGGTTATTTATATTT
1 TTCATCTAACTGGCATAATTGACACCTTTCTG-CCAA---ATGCACAGCTAGGCCATTTATCTTT
**
2633961 TACTCAACAATCTTTAACCG
62 TACTCAACGGTCTTTAACCG
** * * *
2633981 TTCATCTAACTATCATATTTGACACCTTTCTTCCAAATGCACAGCTAAGCCATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
2634046 CAACGGTCTTTAACCG
66 CAACGGTCTTTAACCG
** * * * * * * *
2634062 TTCGCCTAGCTGGCATAATTTACACCGTTCTGCCAAATGTATAGCTAGGTCATTTATCTTTTTCT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
*
2634127 CAACGGTTTTTAACCG
66 CAACGGTCTTTAACCG
* *
2634143 TTCATCTAACTGGCATAATTGACACATTTCTGCTAAATG--CA---AGGCCATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
*
2634203 CAACGGTCTTTAACTG
66 CAACGGTCTTTAACCG
* * *
2634219 TTCGTCTAA-T----TAATTGACACCTTTCTGCCAAATGCACAGCTAGGTCACTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
*
2634279 CAACGCTCTTTAACCG
66 CAACGGTCTTTAACCG
*
2634295 TTCATCTAACTGTCATAAT
1 TTCATCTAACTGGCATAAT
2634314 CGATACTCCC
Statistics
Matches: 1727, Mismatches: 257, Indels: 69
0.84 0.13 0.03
Matches are distributed among these distances:
71 22 0.01
73 2 0.00
74 16 0.01
75 2 0.00
76 252 0.15
77 2 0.00
78 3 0.00
79 54 0.03
80 190 0.11
81 1113 0.64
82 4 0.00
84 3 0.00
85 64 0.04
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36
Consensus pattern (81 bp):
TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
CAACGGTCTTTAACCG
Found at i:2633650 original size:323 final size:321
Alignment explanation
Indices: 2632215--2634313 Score: 2508
Period size: 323 Copynumber: 6.6 Consensus size: 321
2632205 GCATTTACTT
* * * * *
2632215 TTCATCTAACTTGCATGATTGACACTTTTCTGCCAAATGCATAGCTAGACCA-TTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTG-CAAATGCACAGCTAGGCCATTTATCTTTTACT
* *
2632279 CAACGGTCTTTAACCGTTCGTCTAACTCTCATAATTGACACCTTTCTGCCAAATGCATAGCTAGG
65 CAACGGTCTTTAACCGTTCGTCTAACT-GCATAATTGACACCTTTCTGCCAAATGCACAGCTAGG
* * * **
2632344 CCAATTATCTTTTACTCAACGGTCTTTAATCATTTGTCTAACTGGCATAATTGACATC-TTTCTG
129 CCATTTATCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACA-CATTTCTG
* * * * * *
2632408 CCAAATGCACAGCTATGCCATTTATCTTTTACTCAAAGGTCATTAATCGTTCGTCTAATATGCAT
193 CCAAATGCACAGCTAGGCCATTTATCTTTTACTCAACGGTCTTTAACCGTTCATCTAA-CTGCAT
* ** * * *
2632473 AATTGACACCTTTCTGTCAAATGCATAGCTAGGCCATTTATCTTTTACTCAACAGTTTTTAATCA
257 AATTGACACATTTCTACCAAATGCATAGCTAGGCCATTTATCTTTTACTCAACGGTCTTTAACCA
** *
2632538 TTCGCCTAAGTGGCATAATTGACACCTTTCTGCCAAAT--ACA---AGGCCATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTG-CAAATGCACAGCTAGGCCATTTATCTTTTACT
* * ** * * *
2632598 CAACGGTCTTTAACCGTTCATCTAACTAGCATAATTGACAGCTTTCTATCAATTGCACATCTATG
65 CAACGGTCTTTAACCGTTCGTCTAACT-GCATAATTGACACCTTTCTGCCAAATGCACAGCTAGG
* * * * *
2632663 CCATTTATCATTTACTCAACGGTCTTTAATCGTTCATCTAACTGGAATAATTAACACCTTTCTGC
129 CCATTTATCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTGC
*
2632728 CAAATGCACAGCTAGGCCATTTATCTTTTACTCAACAGTCTTTAACCGTTCATCTAACTGCATAA
194 CAAATGCACAGCTAGGCCATTTATCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGCATAA
** * * * * *
2632793 TTGACACATTTCTGTCAAATTCACAGCTAGGCCAATTATCTTTTACTCAATGGTCTTTAACCG
259 TTGACACATTTCTACCAAATGCATAGCTAGGCCATTTATCTTTTACTCAACGGTCTTTAACCA
* * *
2632856 TTCGTCTAA-T----TAATTGACACCATTCTGCCAAATGCATAGCTAGGCCATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTG-CAAATGCACAGCTAGGCCATTTATCTTTTACT
* * * * * * *
2632916 CATCAGTCTTTAACCGTTCATCTAACTGTCTTAATTGACACATTTATGCCAAATGCATAGCTAGG
65 CAACGGTCTTTAACCGTTCGTCTAACTG-CATAATTGACACCTTTCTGCCAAATGCACAGCTAGG
* * * *** * *
2632981 CCTTTTATCTTTTACTCGACGGTCTTTAACCATTTGCCTAACTGGCATAATTGACATATTTATGC
129 CCATTTATCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTGC
* * * * *
2633046 CAAATGCACAACTAGGTCATTTATTTTTTACTCAACAGTCTTTAATCGTTCATCTAACTGACATA
194 CAAATGCACAGCTAGGCCATTTATCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTG-CATA
* *
2633111 ATTGACACCTTTCTACCAAATG-A-A---AGGCCATTTATCTTTTACCCAACGGTCTTTAACCA
258 ATTGACACATTTCTACCAAATGCATAGCTAGGCCATTTATCTTTTACTCAACGGTCTTTAACCA
* ** * * * *
2633170 TTCGTCTAACTACCATAATTG--ACCTTTCTACCAAATGCATAGCTAGGCCATTTATATTATACT
1 TTCATCTAACTGGCATAATTGACACCTTTCT-GCAAATGCACAGCTAGGCCATTTATCTTTTACT
* * * *
2633233 CAACGGACTTTAACCGTTCGTCTAACTGGCATAATTGACACATTTATACCAAATGCACAGCTAGG
65 CAACGGTCTTTAACCGTTCGTCTAACT-GCATAATTGACACCTTTCTGCCAAATGCACAGCTAGG
* * * *
2633298 CCATTTATCTTTTACTCAACAGTCTTTAACCATTCATCTAACTAGCATAATTGACACATTTCTTC
129 CCATTTATCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTGC
* * ** *
2633363 CAAATGCACAACTAGGCCATTTATATTTTACTCAATTGTCTTTAACCATTCATCTAACTGACATA
194 CAAATGCACAGCTAGGCCATTTATCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTG-CATA
* * *
2633428 ATTGACACATTTCTACCAAATACATAGCTAGGCCATTTATCCTTTACTCAACGGTCTTTAACCG
258 ATTGACACATTTCTACCAAATGCATAGCTAGGCCATTTATCTTTTACTCAACGGTCTTTAACCA
2633492 TTCATCTAACTGGCATAATTGACACCTTTCTGCAAATGCACAGCTAGGCCATTTATCTTTTACTC
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCAAATGCACAGCTAGGCCATTTATCTTTTACTC
* * * * * *
2633557 AACGGTCTGTAACCGTTCATCTAACTAGCATATTTGACACCTTTCTACCAAATGCGCAGCTAGGG
66 AACGGTCTTTAACCGTTCGTCTAACT-GCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGC
* * *
2633622 CATTTATCTTTTAATCAACGGACTTTAACCGTTCGTCTAACTGGCATAATTGACACATTTCTGCC
130 CATTTATCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTGCC
*
2633687 AAATGCACAGCTAGGCCATTTATCTTTTACTCAACGGTCTTTAACAGTTCATCTAACTGGCATAA
195 AAATGCACAGCTAGGCCATTTATCTTTTACTCAACGGTCTTTAACCGTTCATCTAACT-GCATAA
* *
2633752 TTGACACATTTCTACCAAATTCATAGCTAGGCCATTTATCTTTTACTCAACAGTCTTTAACCA
259 TTGACACATTTCTACCAAATGCATAGCTAGGCCATTTATCTTTTACTCAACGGTCTTTAACCA
* * * * *
2633815 TGCATCTAACTGTCATAATTGACACCTTTCTTCCAAATGCACAGGTAGGCCATTTATTTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTC-TGCAAATGCACAGCTAGGCCATTTATCTTTTACT
* * *
2633880 CAACGGTCTTTAACCGTTCGTATAACTGGCATAATTGACACCTTTCTGTCAAATGCATGCACACC
65 CAACGGTCTTTAACCGTTCGTCTAACT-GCATAATTGACACCTTTCTG-CCAA---ATGCACAGC
** * ** ** * *
2633945 TAGGTTATTTATATTTTACTCAACAATCTTTAACCGTTCATCTAACTATCATATTTGACACCTTT
125 TAGGCCATTTATCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACATTT
* * ** *
2634010 CTTCCAAATGCACAGCTAAGCCATTTATCTTTTACTCAACGGTCTTTAACCGTTCGCCTAGCTGG
190 CTGCCAAATGCACAGCTAGGCCATTTATCTTTTACTCAACGGTCTTTAACCGTTCATCTAACT-G
* ** * * * * *
2634075 CATAATTTACACCGTTCTGCCAAATGTATAGCTAGGTCATTTATCTTTTTCTCAACGGTTTTTAA
254 CATAATTGACACATTTCTACCAAATGCATAGCTAGGCCATTTATCTTTTACTCAACGGTCTTTAA
*
2634140 CCG
319 CCA
*
2634143 TTCATCTAACTGGCATAATTGACACATTTCTGCTAAATG--CA---AGGCCATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGC-AAATGCACAGCTAGGCCATTTATCTTTTACT
* *
2634203 CAACGGTCTTTAACTGTTCGTCTAA-T---TAATTGACACCTTTCTGCCAAATGCACAGCTAGGT
65 CAACGGTCTTTAACCGTTCGTCTAACTGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGC
* * *
2634264 CACTTATCTTTTACTCAACGCTCTTTAACCGTTCATCTAACTGTCATAAT
130 CATTTATCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAAT
2634314 CGATACTCCC
Statistics
Matches: 1541, Mismatches: 205, Indels: 69
0.85 0.11 0.04
Matches are distributed among these distances:
313 22 0.01
314 96 0.06
315 3 0.00
317 233 0.15
318 273 0.18
319 203 0.13
321 2 0.00
322 51 0.03
323 361 0.23
324 82 0.05
325 3 0.00
326 2 0.00
327 2 0.00
328 208 0.13
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36
Consensus pattern (321 bp):
TTCATCTAACTGGCATAATTGACACCTTTCTGCAAATGCACAGCTAGGCCATTTATCTTTTACTC
AACGGTCTTTAACCGTTCGTCTAACTGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCC
ATTTATCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTGCCA
AATGCACAGCTAGGCCATTTATCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGCATAATT
GACACATTTCTACCAAATGCATAGCTAGGCCATTTATCTTTTACTCAACGGTCTTTAACCA
Done.