Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002662.1 Hibiscus syriacus cultivar Beakdansim tig00005463_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: 218144
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 1 of 2
Found at i:460 original size:18 final size:18
Alignment explanation
Indices: 434--468 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
424 TTAGAGTTTT
434 ATTAATTGTATTTAAATG
1 ATTAATTGTATTTAAATG
*
452 ATTATTTGTATTTAAAT
1 ATTAATTGTATTTAAAT
469 TTTAAATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.54
Consensus pattern (18 bp):
ATTAATTGTATTTAAATG
Found at i:509 original size:22 final size:23
Alignment explanation
Indices: 463--507 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
453 TTATTTGTAT
*
463 TTAAATTTTAAATTTTAATAAAA
1 TTAAATTTTAAAATTTAATAAAA
* *
486 TTAATTTTTAAAATTTATTAAA
1 TTAAATTTTAAAATTTAATAAA
508 TTTATAACGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
TTAAATTTTAAAATTTAATAAAA
Found at i:1536 original size:2 final size:2
Alignment explanation
Indices: 1529--1553 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1519 AAGATTAGAC
1529 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
1554 TCGAGCACAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2909 original size:15 final size:14
Alignment explanation
Indices: 2877--2918 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
2867 ATTTATATTT
*
2877 TAATATAATTA-AA
1 TAATATATTTATAA
*
2890 AAATATATTTTATAA
1 TAATATA-TTTATAA
2905 TAATATATTTATAA
1 TAATATATTTATAA
2919 ATTTATTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
13 6 0.25
14 10 0.42
15 8 0.33
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TAATATATTTATAA
Found at i:3465 original size:20 final size:21
Alignment explanation
Indices: 3420--3489 Score: 81
Period size: 21 Copynumber: 3.4 Consensus size: 21
3410 AGAGCGCTGT
**
3420 CTAAAATGTT-ATTTTTCTAC
1 CTAAAATGTTAATTTAACTAC
*
3440 CGAAAATGTTAATTTAACTA-
1 CTAAAATGTTAATTTAACTAC
*
3460 CTAAAAATGTTAATTTAGCTAC
1 CT-AAAATGTTAATTTAACTAC
3482 CTAAAATG
1 CTAAAATG
3490 AATATTTCCG
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
20 10 0.24
21 30 0.71
22 2 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.39
Consensus pattern (21 bp):
CTAAAATGTTAATTTAACTAC
Found at i:5490 original size:146 final size:147
Alignment explanation
Indices: 5251--5584 Score: 534
Period size: 146 Copynumber: 2.3 Consensus size: 147
5241 TTTTATATCA
* * *
5251 TTTAGGATCGTTTGATTGAAATGAATCAAAAGTTGAGATTAACTCTTTGTTTTTTTCTCAGTGAA
1 TTTAGGATCGTTTGATTGAAAAGAATCAAAAGCTGAGATTAACTCATTGTTTTTTTCTCAGTGAA
* *
5316 TATCTTCTTATTTCCGCTGTTAATCTTAGCATTTGATTTCTCTTAATCCAACGATTCT-AAAAGA
66 GATCTTCTCATTTCCGCTGTTAATCTTAGCATTTGATTTCTCTTAATCCAACGATTCTAAAAAGA
5380 TGTAAGTTTTACATTCT
131 TGTAAGTTTTACATTCT
*
5397 TTTAGGATCTTTTGATTGAAAAGAATCAAAAGCTGAGATTAACTCATTG-TTTTTTCTCAGTGAA
1 TTTAGGATCGTTTGATTGAAAAGAATCAAAAGCTGAGATTAACTCATTGTTTTTTTCTCAGTGAA
5461 GATCTTCTCATTTTCCGCTGTTAATCTTAGCATTTGATTTCTCTTAATCCAACGATTCTAAAAAG
66 GATCTTCTCA-TTTCCGCTGTTAATCTTAGCATTTGATTTCTCTTAATCCAACGATTCTAAAAAG
5526 ATGTAAGTTTTACATTCT
130 ATGTAAGTTTTACATTCT
* *
5544 TTTAGGATCG-TTGAATTGAAGA-AAT-AAAATGCTAAGATTAA
1 TTTAGGATCGTTTG-ATTGAAAAGAATCAAAA-GCTGAGATTAA
5585 GATCCACATT
Statistics
Matches: 175, Mismatches: 9, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
145 27 0.15
146 109 0.62
147 39 0.22
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (147 bp):
TTTAGGATCGTTTGATTGAAAAGAATCAAAAGCTGAGATTAACTCATTGTTTTTTTCTCAGTGAA
GATCTTCTCATTTCCGCTGTTAATCTTAGCATTTGATTTCTCTTAATCCAACGATTCTAAAAAGA
TGTAAGTTTTACATTCT
Found at i:6617 original size:14 final size:14
Alignment explanation
Indices: 6598--6628 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
6588 TGTATTTTAG
6598 ATTTAAATCTTAAT
1 ATTTAAATCTTAAT
6612 ATTTAAATCTTAAT
1 ATTTAAATCTTAAT
6626 ATT
1 ATT
6629 ATATTTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (14 bp):
ATTTAAATCTTAAT
Found at i:7394 original size:16 final size:16
Alignment explanation
Indices: 7373--7407 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
7363 CACTCGGAGA
7373 AACCATGGTTGGGGTT
1 AACCATGGTTGGGGTT
7389 AACCATGGTTGGGGTT
1 AACCATGGTTGGGGTT
7405 AAC
1 AAC
7408 GATGAAAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.23, C:0.14, G:0.34, T:0.29
Consensus pattern (16 bp):
AACCATGGTTGGGGTT
Found at i:9337 original size:2 final size:2
Alignment explanation
Indices: 9330--9369 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
9320 TCCTATAAGG
9330 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
9370 TCCCTCCAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:20572 original size:148 final size:148
Alignment explanation
Indices: 20304--20602 Score: 598
Period size: 148 Copynumber: 2.0 Consensus size: 148
20294 TGGATGGCTA
20304 GAACTTTGTACATGTTTTCATGGTACAATTGGACTTTTTTCCTGCTTTGCTACCCCACAGGGATC
1 GAACTTTGTACATGTTTTCATGGTACAATTGGACTTTTTTCCTGCTTTGCTACCCCACAGGGATC
20369 CCCTCTAAGAAAATGGGCTGAGATCCCTATCAACTAAAGCAATGGAGGAGAGATGAACCCGGAAC
66 CCCTCTAAGAAAATGGGCTGAGATCCCTATCAACTAAAGCAATGGAGGAGAGATGAACCCGGAAC
20434 CGGAAAAAAATGCCAAAT
131 CGGAAAAAAATGCCAAAT
20452 GAACTTTGTACATGTTTTCATGGTACAATTGGACTTTTTTCCTGCTTTGCTACCCCACAGGGATC
1 GAACTTTGTACATGTTTTCATGGTACAATTGGACTTTTTTCCTGCTTTGCTACCCCACAGGGATC
20517 CCCTCTAAGAAAATGGGCTGAGATCCCTATCAACTAAAGCAATGGAGGAGAGATGAACCCGGAAC
66 CCCTCTAAGAAAATGGGCTGAGATCCCTATCAACTAAAGCAATGGAGGAGAGATGAACCCGGAAC
20582 CGGAAAAAAATGCCAAAT
131 CGGAAAAAAATGCCAAAT
20600 GAA
1 GAA
20603 AGGCAGAAGC
Statistics
Matches: 151, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
148 151 1.00
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (148 bp):
GAACTTTGTACATGTTTTCATGGTACAATTGGACTTTTTTCCTGCTTTGCTACCCCACAGGGATC
CCCTCTAAGAAAATGGGCTGAGATCCCTATCAACTAAAGCAATGGAGGAGAGATGAACCCGGAAC
CGGAAAAAAATGCCAAAT
Found at i:26692 original size:21 final size:21
Alignment explanation
Indices: 26666--26705 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
26656 ATTATGACGG
26666 TGTACTATAGAAAAACTAAGA
1 TGTACTATAGAAAAACTAAGA
26687 TGTACTATAGAAAAACTAA
1 TGTACTATAGAAAAACTAA
26706 CTCATTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.53, C:0.10, G:0.12, T:0.25
Consensus pattern (21 bp):
TGTACTATAGAAAAACTAAGA
Found at i:26997 original size:15 final size:15
Alignment explanation
Indices: 26979--27041 Score: 51
Period size: 15 Copynumber: 4.4 Consensus size: 15
26969 GGAAATCGAC
26979 CTCCAGGAGGTGGTG
1 CTCCAGGAGGTGGTG
* ** *
26994 CTCCAGGAGCTCCTC
1 CTCCAGGAGGTGGTG
*
27009 CACCAGGAGGTGGTG
1 CTCCAGGAGGTGGTG
*
27024 GT---GGAGGTGGTG
1 CTCCAGGAGGTGGTG
27036 CTCCAG
1 CTCCAG
27042 ATGAGGGAGG
Statistics
Matches: 33, Mismatches: 12, Indels: 6
0.65 0.24 0.12
Matches are distributed among these distances:
12 11 0.33
15 22 0.67
ACGTcount: A:0.14, C:0.25, G:0.41, T:0.19
Consensus pattern (15 bp):
CTCCAGGAGGTGGTG
Found at i:27078 original size:24 final size:21
Alignment explanation
Indices: 27026--27077 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
27016 AGGTGGTGGT
27026 GGAGGTGGTGCTCCAGATGAG
1 GGAGGTGGTGCTCCAGATGAG
*
27047 GGAGGTGGTGCTCCAGGTGAG
1 GGAGGTGGTGCTCCAGATGAG
*
27068 GGAGGCGGTG
1 GGAGGTGGTG
27078 GAGATGGCAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.15, C:0.13, G:0.54, T:0.17
Consensus pattern (21 bp):
GGAGGTGGTGCTCCAGATGAG
Found at i:27236 original size:27 final size:27
Alignment explanation
Indices: 27201--27284 Score: 81
Period size: 27 Copynumber: 3.3 Consensus size: 27
27191 GGAGGTGGAG
27201 GAGGGGGTGGAGGAGCATTGGACGTTA
1 GAGGGGGTGGAGGAGCATTGGACGTTA
* ** *
27228 GAGGTGGTGCTGGAG--GTGGA-G---
1 GAGGGGGTGGAGGAGCATTGGACGTTA
27249 GAGGGGGTGGAGGAGCATTGGACGTTA
1 GAGGGGGTGGAGGAGCATTGGACGTTA
*
27276 GAGGTGGTG
1 GAGGGGGTG
27285 CTGGAGGTGG
Statistics
Matches: 42, Mismatches: 9, Indels: 12
0.67 0.14 0.19
Matches are distributed among these distances:
21 12 0.29
23 4 0.10
24 2 0.05
25 4 0.10
27 20 0.48
ACGTcount: A:0.19, C:0.06, G:0.56, T:0.19
Consensus pattern (27 bp):
GAGGGGGTGGAGGAGCATTGGACGTTA
Found at i:27251 original size:36 final size:36
Alignment explanation
Indices: 27101--27234 Score: 232
Period size: 36 Copynumber: 3.7 Consensus size: 36
27091 ATGCAGTGGA
27101 GGAGGAGCATTGGACGTTGGAGGTGGAGGAGGGGGT
1 GGAGGAGCATTGGACGTTGGAGGTGGAGGAGGGGGT
*
27137 GTAGGAGCATTGGACGTTGGAGGTGGAGGAGGGGGT
1 GGAGGAGCATTGGACGTTGGAGGTGGAGGAGGGGGT
* *
27173 GGAGCAGCATCGGACGTTGGAGGTGGAGGAGGGGGT
1 GGAGGAGCATTGGACGTTGGAGGTGGAGGAGGGGGT
*
27209 GGAGGAGCATTGGACGTTAGAGGTGG
1 GGAGGAGCATTGGACGTTGGAGGTGG
27235 TGCTGGAGGT
Statistics
Matches: 91, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 91 1.00
ACGTcount: A:0.20, C:0.07, G:0.55, T:0.17
Consensus pattern (36 bp):
GGAGGAGCATTGGACGTTGGAGGTGGAGGAGGGGGT
Found at i:27306 original size:48 final size:48
Alignment explanation
Indices: 27190--27294 Score: 210
Period size: 48 Copynumber: 2.2 Consensus size: 48
27180 CATCGGACGT
27190 TGGAGGTGGAGGAGGGGGTGGAGGAGCATTGGACGTTAGAGGTGGTGC
1 TGGAGGTGGAGGAGGGGGTGGAGGAGCATTGGACGTTAGAGGTGGTGC
27238 TGGAGGTGGAGGAGGGGGTGGAGGAGCATTGGACGTTAGAGGTGGTGC
1 TGGAGGTGGAGGAGGGGGTGGAGGAGCATTGGACGTTAGAGGTGGTGC
27286 TGGAGGTGG
1 TGGAGGTGG
27295 GTTTGGGGGT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 57 1.00
ACGTcount: A:0.18, C:0.06, G:0.57, T:0.19
Consensus pattern (48 bp):
TGGAGGTGGAGGAGGGGGTGGAGGAGCATTGGACGTTAGAGGTGGTGC
Found at i:28053 original size:6 final size:6
Alignment explanation
Indices: 28043--28085 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
28033 AATTTGGGTA
* * * *
28043 GAGGTG TAGGTG GAGGTC GAGGTG GAGGCG GAGGCG GAGGTG G
1 GAGGTG GAGGTG GAGGTG GAGGTG GAGGTG GAGGTG GAGGTG G
28086 CGGCGAGGGT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.16, C:0.07, G:0.63, T:0.14
Consensus pattern (6 bp):
GAGGTG
Found at i:28082 original size:18 final size:18
Alignment explanation
Indices: 28043--28090 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
28033 AATTTGGGTA
* *
28043 GAGGTGTAGGTGGAGGTC
1 GAGGTGGAGGCGGAGGTC
28061 GAGGTGGAGGCGGAGG-C
1 GAGGTGGAGGCGGAGGTC
*
28078 GGAGGTGGCGGCG
1 -GAGGTGGAGGCG
28091 AGGGTGAGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 1 0.04
18 25 0.96
ACGTcount: A:0.15, C:0.10, G:0.62, T:0.12
Consensus pattern (18 bp):
GAGGTGGAGGCGGAGGTC
Found at i:28177 original size:42 final size:42
Alignment explanation
Indices: 28063--28278 Score: 314
Period size: 42 Copynumber: 5.2 Consensus size: 42
28053 TGGAGGTCGA
* *
28063 GGTGGAGGCGGAGGCGGAGGTGGCGGCGAGGGTGAGGATGAT
1 GGTGGAGGTGGAGGAGGAGGTGGCGGCGAGGGTGAGGATGAT
28105 GGTGGAGGTGGA--A-GAGGTGGCGGCGAGGGTGAGGATGAT
1 GGTGGAGGTGGAGGAGGAGGTGGCGGCGAGGGTGAGGATGAT
28144 GGTGGAGGTGGAGGAGGAGGTGGCGGCGAGGGTGAGGATGAT
1 GGTGGAGGTGGAGGAGGAGGTGGCGGCGAGGGTGAGGATGAT
* * *
28186 GGTGGAGGTGCAGGAGGAGGTGGCGGCGAGGAG-GAGGCTGTT
1 GGTGGAGGTGGAGGAGGAGGTGGCGGCGAGG-GTGAGGATGAT
* * *
28228 GGTGAAGGTGGAGGAGGAGGTGGCAGCAAGGGTGAGGATGAT
1 GGTGGAGGTGGAGGAGGAGGTGGCGGCGAGGGTGAGGATGAT
*
28270 GGTGAAGGT
1 GGTGGAGGT
28279 AGTGTTCTTG
Statistics
Matches: 158, Mismatches: 11, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
39 38 0.24
41 2 0.01
42 117 0.74
43 1 0.01
ACGTcount: A:0.20, C:0.06, G:0.59, T:0.14
Consensus pattern (42 bp):
GGTGGAGGTGGAGGAGGAGGTGGCGGCGAGGGTGAGGATGAT
Found at i:33181 original size:13 final size:13
Alignment explanation
Indices: 33149--33188 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
33139 AAATTATAAC
*
33149 TAATAATATTAAA
1 TAATTATATTAAA
33162 T-ATTATATTAAA
1 TAATTATATTAAA
33174 TAATTATATTAAA
1 TAATTATATTAAA
33187 TA
1 TA
33189 TATTTATGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 11 0.44
13 14 0.56
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
TAATTATATTAAA
Found at i:36190 original size:8 final size:8
Alignment explanation
Indices: 36177--36217 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
36167 CTCATTTTCA
36177 GAGAATTT
1 GAGAATTT
36185 GAGAATTT
1 GAGAATTT
*
36193 -AGAGTTT
1 GAGAATTT
*
36200 GGGAATTT
1 GAGAATTT
36208 GAGAATTT
1 GAGAATTT
36216 GA
1 GA
36218 AAGATTGTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (8 bp):
GAGAATTT
Found at i:36507 original size:129 final size:129
Alignment explanation
Indices: 36277--36897 Score: 1119
Period size: 129 Copynumber: 4.9 Consensus size: 129
36267 AATAGTGTCT
36277 ATAATCGGTTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGA
1 ATAATCGGTTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGA
36342 GAATATGTTATCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTAC
66 GAATATGTTATCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTAC
36406 ATAATCGGTTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGA
1 ATAATCGGTTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGA
36471 GAATATGTTATCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTAC
66 GAATATGTTATCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTAC
* ***
36535 CT-ATTATTTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTT--TCAGA
1 ATAATCGGTTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGA
36597 GAATATGTTATCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTAC
66 GAATATGTTATCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTAC
36661 ATAATCGGTTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGA
1 ATAATCGGTTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGA
36726 GAATATGTTATCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTAC
66 GAATATGTTATCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTAC
* ***
36790 CT-ATTATTTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTT--TCAGA
1 ATAATCGGTTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGA
*
36852 GAATATGTTATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGA
66 GAATATGTTATCATTGCCCTATTATGTCATTCATGTCCCTCGGGGA
36898 ATAACTTAAA
Statistics
Matches: 476, Mismatches: 13, Indels: 9
0.96 0.03 0.02
Matches are distributed among these distances:
126 120 0.25
127 52 0.11
128 104 0.22
129 200 0.42
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (129 bp):
ATAATCGGTTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGA
GAATATGTTATCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTAC
Found at i:36738 original size:255 final size:255
Alignment explanation
Indices: 36285--36897 Score: 1199
Period size: 255 Copynumber: 2.4 Consensus size: 255
36275 CTATAATCGG
36285 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGT
1 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTT--TCAGAGAATATGT
36350 TATCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACATAATCGGT
64 TATCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACATAATCGGT
36415 TCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTT
129 TCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTT
36480 ATCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
194 ATCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
36542 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTCAGAGAATATGTTA
1 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTCAGAGAATATGTTA
36607 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACATAATCGGTTC
66 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACATAATCGGTTC
36672 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
131 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
36737 CATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
196 CATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
36797 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTCAGAGAATATGTTA
1 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTCAGAGAATATGTTA
*
36862 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGA
66 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGA
36898 ATAACTTAAA
Statistics
Matches: 355, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
255 305 0.86
257 50 0.14
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (255 bp):
TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTCAGAGAATATGTTA
TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACATAATCGGTTC
ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
CATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
Found at i:37346 original size:33 final size:34
Alignment explanation
Indices: 37285--37378 Score: 112
Period size: 27 Copynumber: 3.0 Consensus size: 34
37275 AAATTTAATG
*
37285 TTAAATTTCGAATACTATAATTTATATTTTAAAT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
*
37319 TTAAATTT-GAAT-A-AT-A-TTAT-TTTT-ATT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
*
37346 TTAAATTTCGAATAATATAATTTGTATTTTAAA
1 TTAAATTTCGAATAATATAATTTATATTTTAAA
37379 AACATTTATC
Statistics
Matches: 49, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
27 10 0.20
28 8 0.16
29 5 0.10
30 3 0.06
31 3 0.06
32 3 0.06
33 8 0.16
34 9 0.18
ACGTcount: A:0.40, C:0.03, G:0.04, T:0.52
Consensus pattern (34 bp):
TTAAATTTCGAATAATATAATTTATATTTTAAAT
Found at i:37348 original size:27 final size:28
Alignment explanation
Indices: 37285--37378 Score: 100
Period size: 28 Copynumber: 3.2 Consensus size: 28
37275 AAATTTAATG
*
37285 TTAAATTTCGAATACTATAATTTATATTTTAAAT
1 TTAAATTTCGAATA--AT-A-TTAT-TTTT-ATT
37319 TTAAATTT-GAATAATATTATTTTTATT
1 TTAAATTTCGAATAATATTATTTTTATT
* *
37346 TTAAATTTCGAATAATATAATTTGTATT
1 TTAAATTTCGAATAATATTATTTTTATT
37374 TTAAA
1 TTAAA
37379 AACATTTATC
Statistics
Matches: 56, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
27 10 0.18
28 26 0.46
29 4 0.07
30 1 0.02
31 2 0.04
33 5 0.09
34 8 0.14
ACGTcount: A:0.40, C:0.03, G:0.04, T:0.52
Consensus pattern (28 bp):
TTAAATTTCGAATAATATTATTTTTATT
Found at i:37986 original size:21 final size:22
Alignment explanation
Indices: 37898--37987 Score: 125
Period size: 21 Copynumber: 4.3 Consensus size: 22
37888 TATGGTATAA
*
37898 AACCCT-GCGGGCTAGGCATGT
1 AACCCTGGCGGGCTAGGAATGT
*
37919 AA-CCTGGCGGGCTAGGCATGT
1 AACCCTGGCGGGCTAGGAATGT
37940 AA-CCTGGCGGGCTAGGAATGT
1 AACCCTGGCGGGCTAGGAATGT
*
37961 AACCCT-GCGGGCTCGGAATGT
1 AACCCTGGCGGGCTAGGAATGT
37982 AACCCT
1 AACCCT
37988 ACGGAGATGG
Statistics
Matches: 65, Mismatches: 2, Indels: 4
0.92 0.03 0.06
Matches are distributed among these distances:
20 3 0.05
21 59 0.91
22 3 0.05
ACGTcount: A:0.21, C:0.27, G:0.33, T:0.19
Consensus pattern (22 bp):
AACCCTGGCGGGCTAGGAATGT
Found at i:38021 original size:21 final size:21
Alignment explanation
Indices: 37995--38042 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
37985 CCTACGGAGA
*
37995 TGGCATATAAACTGGTGGGCT
1 TGGCATATAAACTGGAGGGCT
* *
38016 TGGCATATGAAGTGGAGGGCT
1 TGGCATATAAACTGGAGGGCT
*
38037 GGGCAT
1 TGGCAT
38043 GTACTCCTGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.12, G:0.40, T:0.25
Consensus pattern (21 bp):
TGGCATATAAACTGGAGGGCT
Found at i:39810 original size:31 final size:33
Alignment explanation
Indices: 39768--39842 Score: 84
Period size: 31 Copynumber: 2.4 Consensus size: 33
39758 ATAATTCTAA
* * *
39768 ATAAATAATAATTATATAAAT-ATTATTTTAAT
1 ATAAAAAATAATTATATAAATAAATATATTAAT
* *
39800 A-AAAAAATAA-TATTTACATAAATATATTAAT
1 ATAAAAAATAATTATATAAATAAATATATTAAT
39831 ATAAAAAATAAT
1 ATAAAAAATAAT
39843 AACTATTTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
30 7 0.20
31 18 0.51
32 10 0.29
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (33 bp):
ATAAAAAATAATTATATAAATAAATATATTAAT
Found at i:39810 original size:34 final size:31
Alignment explanation
Indices: 39765--39853 Score: 97
Period size: 34 Copynumber: 2.7 Consensus size: 31
39755 TTAATAATTC
*
39765 TAAATAAATAATAATTATATAAATATTATTTTAA
1 TAAAAAAATAATAATTATATAAATA-TA--TTAA
* *
39799 TAAAAAAATAATATTTACATAAATATATTAA
1 TAAAAAAATAATAATTATATAAATATATTAA
* *
39830 TATAAAAAATAATAACTATTTAAA
1 TA-AAAAAATAATAATTATATAAA
39854 AAAATACTAA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
31 6 0.13
32 17 0.36
33 2 0.04
34 22 0.47
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (31 bp):
TAAAAAAATAATAATTATATAAATATATTAA
Found at i:39865 original size:34 final size:34
Alignment explanation
Indices: 39800--39876 Score: 95
Period size: 34 Copynumber: 2.2 Consensus size: 34
39790 TTATTTTAAT
* *
39800 AAAAAAATAATATTTACATAAATATATTAATATA
1 AAAAAAATAATATTTACATAAAAATACTAATATA
39834 AAAAATAATAACTATTTA-A-AAAAATACTAATATA
1 AAAAA-AATAA-TATTTACATAAAAATACTAATATA
39868 AAAATAAAT
1 AAAA-AAAT
39877 TTCTTACCAC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
34 25 0.66
35 7 0.18
36 6 0.16
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (34 bp):
AAAAAAATAATATTTACATAAAAATACTAATATA
Found at i:39869 original size:16 final size:18
Alignment explanation
Indices: 39827--39874 Score: 57
Period size: 16 Copynumber: 2.8 Consensus size: 18
39817 ATAAATATAT
39827 TAATATAAAAAATAATAAC
1 TAATAT-AAAAATAATAAC
*
39846 T-ATTTAAAAA-AAT-AC
1 TAATATAAAAATAATAAC
39861 TAATATAAAAATAA
1 TAATATAAAAATAA
39875 ATTTCTTACC
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
15 3 0.12
16 11 0.44
17 7 0.28
18 3 0.12
19 1 0.04
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (18 bp):
TAATATAAAAATAATAAC
Found at i:40820 original size:14 final size:15
Alignment explanation
Indices: 40784--40821 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
40774 AACAATTGAG
40784 TGATT-AAATTAAAA
1 TGATTAAAATTAAAA
40798 TGAATTAAAATT-AAA
1 TG-ATTAAAATTAAAA
40813 TGATTAAAA
1 TGATTAAAA
40822 CAGATTGGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 9 0.41
15 8 0.36
16 5 0.23
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.34
Consensus pattern (15 bp):
TGATTAAAATTAAAA
Found at i:41215 original size:31 final size:31
Alignment explanation
Indices: 41177--41238 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
41167 AAGTGTTCTA
41177 TACGAGCTGTGGCGAGAGGATGAAGCTTTGC
1 TACGAGCTGTGGCGAGAGGATGAAGCTTTGC
*
41208 TACGAGCTGTGGTGAGAGGATGAAGCTTTGC
1 TACGAGCTGTGGCGAGAGGATGAAGCTTTGC
41239 ATGCGCCATA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.15, G:0.39, T:0.24
Consensus pattern (31 bp):
TACGAGCTGTGGCGAGAGGATGAAGCTTTGC
Found at i:41277 original size:22 final size:21
Alignment explanation
Indices: 41249--41293 Score: 81
Period size: 22 Copynumber: 2.1 Consensus size: 21
41239 ATGCGCCATA
41249 CACGTCGGAAGAGGTCGTCATG
1 CACGTCGGAAGAGGTCGTC-TG
41271 CACGTCGGAAGAGGTCGTCTG
1 CACGTCGGAAGAGGTCGTCTG
41292 CA
1 CA
41294 TGCAGTGGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.22, C:0.24, G:0.36, T:0.18
Consensus pattern (21 bp):
CACGTCGGAAGAGGTCGTCTG
Found at i:41410 original size:29 final size:29
Alignment explanation
Indices: 41332--41403 Score: 108
Period size: 29 Copynumber: 2.5 Consensus size: 29
41322 AGGGCGCAGG
*
41332 ACAAGGTCGCCCAGCGTGCATGGCGACCT
1 ACAAGGTCGCCCGGCGTGCATGGCGACCT
* * *
41361 ACCATGTCGCCTGGCGTGCATGGCGACCT
1 ACAAGGTCGCCCGGCGTGCATGGCGACCT
41390 ACAAGGTCGCCCGG
1 ACAAGGTCGCCCGG
41404 AGGGCATAAC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.18, C:0.35, G:0.32, T:0.15
Consensus pattern (29 bp):
ACAAGGTCGCCCGGCGTGCATGGCGACCT
Found at i:44861 original size:2 final size:2
Alignment explanation
Indices: 44854--44890 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
44844 AATAAGATTT
44854 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
44891 TACCCATAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:45182 original size:59 final size:60
Alignment explanation
Indices: 45085--45236 Score: 198
Period size: 59 Copynumber: 2.5 Consensus size: 60
45075 ATTAAGTCAC
* * **
45085 TCGACTATTAAAAGTTACAAAATGTTCATCTAAATATAGAGTGTTGCCTTCTTGAGTCCA
1 TCGACTATTAAAAGTTACAAAATGGTCACCCGAATATAGAGTGTTGCCTTCTTGAGTCCA
* * * * *
45145 TCGACTATT-AAAGTTACACAATGGTCACCCGACTATAGAGTGTTGCTTTGTTGAGTCCC
1 TCGACTATTAAAAGTTACAAAATGGTCACCCGAATATAGAGTGTTGCCTTCTTGAGTCCA
* *
45204 TCAACCATTAAAAGTTACAAAATGGTCACCCGA
1 TCGACTATTAAAAGTTACAAAATGGTCACCCGA
45237 TTATTCACTA
Statistics
Matches: 79, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
59 48 0.61
60 31 0.39
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.31
Consensus pattern (60 bp):
TCGACTATTAAAAGTTACAAAATGGTCACCCGAATATAGAGTGTTGCCTTCTTGAGTCCA
Found at i:49892 original size:16 final size:16
Alignment explanation
Indices: 49865--49910 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
49855 GATATGAGAA
49865 AAATTCAATTTAAATTT
1 AAATT-AATTTAAATTT
*
49882 AAATTAATTTAATTTT
1 AAATTAATTTAAATTT
*
49898 AAAATAATGTTAA
1 AAATTAAT-TTAA
49911 TAAATAATGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
16 17 0.65
17 9 0.35
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (16 bp):
AAATTAATTTAAATTT
Found at i:50197 original size:19 final size:19
Alignment explanation
Indices: 50173--50237 Score: 112
Period size: 19 Copynumber: 3.4 Consensus size: 19
50163 AAAAACATTA
50173 CGATGCGGGCGTTACGCTG
1 CGATGCGGGCGTTACGCTG
*
50192 CGATGCGGGCATTACGCTG
1 CGATGCGGGCGTTACGCTG
50211 CGATGCGGGCGTTACGCTG
1 CGATGCGGGCGTTACGCTG
*
50230 CGTTGCGG
1 CGATGCGG
50238 CCGCAATTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 43 1.00
ACGTcount: A:0.11, C:0.26, G:0.42, T:0.22
Consensus pattern (19 bp):
CGATGCGGGCGTTACGCTG
Found at i:51291 original size:78 final size:78
Alignment explanation
Indices: 51201--51356 Score: 303
Period size: 78 Copynumber: 2.0 Consensus size: 78
51191 GCCATTGGGT
51201 GGTATATTAAATGGTTTTAATTTATATTATTACCATTGATTAGAAAGGTTTGTAATAAAAAAAGA
1 GGTATATTAAATGGTTTTAATTTATATTATTACCATTGATTAGAAAGGTTTGTAATAAAAAAAGA
*
51266 GAGGTAATAATTA
66 GAGATAATAATTA
51279 GGTATATTAAATGGTTTTAATTTATATTATTACCATTGATTAGAAAGGTTTGTAATAAAAAAAGA
1 GGTATATTAAATGGTTTTAATTTATATTATTACCATTGATTAGAAAGGTTTGTAATAAAAAAAGA
51344 GAGATAATAATTA
66 GAGATAATAATTA
51357 ACGTTTAAAT
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 77 1.00
ACGTcount: A:0.43, C:0.03, G:0.16, T:0.38
Consensus pattern (78 bp):
GGTATATTAAATGGTTTTAATTTATATTATTACCATTGATTAGAAAGGTTTGTAATAAAAAAAGA
GAGATAATAATTA
Found at i:52325 original size:23 final size:22
Alignment explanation
Indices: 52294--52341 Score: 78
Period size: 22 Copynumber: 2.1 Consensus size: 22
52284 AGGTTGAACG
52294 GTTTATTAAATAGCTATATAAAT
1 GTTTATT-AATAGCTATATAAAT
*
52317 GTTTGTTAATAGCTATATAAAT
1 GTTTATTAATAGCTATATAAAT
52339 GTT
1 GTT
52342 GGTATTTAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.38, C:0.04, G:0.12, T:0.46
Consensus pattern (22 bp):
GTTTATTAATAGCTATATAAAT
Found at i:55621 original size:31 final size:31
Alignment explanation
Indices: 55583--55645 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
55573 TCCAAGAGTT
* *
55583 TGGGAGTTCTTAATGAGAATGACATATTGAA
1 TGGGAGTTCATAATGAGAAGGACATATTGAA
*
55614 TGGGAGTTCATAGTGAGAAGGACATATTGAA
1 TGGGAGTTCATAATGAGAAGGACATATTGAA
55645 T
1 T
55646 TCACCGAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.35, C:0.06, G:0.29, T:0.30
Consensus pattern (31 bp):
TGGGAGTTCATAATGAGAAGGACATATTGAA
Found at i:59973 original size:22 final size:20
Alignment explanation
Indices: 59948--59991 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
59938 CATTGGTATA
59948 AAATTCTCAAAAAAAAAATATT
1 AAATT-TCAAAAAAAAAAT-TT
* *
59970 AAATTTTAACAAAAAAATTT
1 AAATTTCAAAAAAAAAATTT
59990 AA
1 AA
59992 CGTGCCAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 11 0.55
22 5 0.25
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.30
Consensus pattern (20 bp):
AAATTTCAAAAAAAAAATTT
Found at i:60352 original size:31 final size:32
Alignment explanation
Indices: 60307--60366 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
60297 AGTTTTGGGG
60307 AAAAAATGAAAGTTTATG-TACTAA-AATGAAC
1 AAAAAATGAAAGTTTA-GATACTAAGAATGAAC
* *
60338 AAAAACTGATAGTTTAGATACTAAGAATG
1 AAAAAATGAAAGTTTAGATACTAAGAATG
60367 TTAAGTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 1 0.04
31 20 0.80
32 4 0.16
ACGTcount: A:0.52, C:0.07, G:0.15, T:0.27
Consensus pattern (32 bp):
AAAAAATGAAAGTTTAGATACTAAGAATGAAC
Found at i:62744 original size:30 final size:30
Alignment explanation
Indices: 62708--62772 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
62698 AGTTATTTTA
*
62708 AGAATGTGTTTGAAACTCGGTTTTCCTTAT
1 AGAATGTGTTTGAAACTCGGGTTTCCTTAT
62738 AGAATGTGTTTGAAACTCGGGTTTCCTTAT
1 AGAATGTGTTTGAAACTCGGGTTTCCTTAT
62768 AGAAT
1 AGAAT
62773 CCGACTGCAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.26, C:0.12, G:0.22, T:0.40
Consensus pattern (30 bp):
AGAATGTGTTTGAAACTCGGGTTTCCTTAT
Found at i:62907 original size:105 final size:105
Alignment explanation
Indices: 62731--62932 Score: 266
Period size: 105 Copynumber: 1.9 Consensus size: 105
62721 AACTCGGTTT
* * *
62731 TCCTTATAGAATGTGTTTGAAACTCGGGTTTCCTTATAGAATCCGACTGCAACCCAGATTGGATT
1 TCCTTATAGAATGTGTTTGAAACTCGAGTTTCCTGATAGAATCCGACTGCAACCCAGATTGAATT
*
62796 TCAGAATGGTGTTGAACCTCATG-TTCTTGAACTATAGACA
66 TCAGAATGGTGTTGAACCCCATGATT-TTGAACTATAGACA
* * * * * *
62836 TCCTTATAGAATGAT-TTTGAACCTCGATTTTCCTGATAGAATCTGGCTGCACCCCAGTTTGAAT
1 TCCTTATAGAATG-TGTTTGAAACTCGAGTTTCCTGATAGAATCCGACTGCAACCCAGATTGAAT
62900 CTT-AGAATGGTGTTGAACCCCATGATTTTGAAC
65 -TTCAGAATGGTGTTGAACCCCATGATTTTGAAC
62933 ATCAATGTTA
Statistics
Matches: 84, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
105 79 0.94
106 5 0.06
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (105 bp):
TCCTTATAGAATGTGTTTGAAACTCGAGTTTCCTGATAGAATCCGACTGCAACCCAGATTGAATT
TCAGAATGGTGTTGAACCCCATGATTTTGAACTATAGACA
Found at i:63525 original size:159 final size:159
Alignment explanation
Indices: 62988--64408 Score: 2391
Period size: 159 Copynumber: 8.9 Consensus size: 159
62978 AGAAATTGAT
* * *
62988 CGACTTCGAGAATTCGACTGAAACCCAGGTTGATTGTCGGTTCGGCTTTGAGAATATCGTATGGA
1 CGACTTGGAGAATTTGACTGAAACCCAGGTTGACTGTCGGTTCGGCTTTGAGAATATCGTATGGA
63053 CCCAGATG-ATTGTCGGGACGGTGTTGAACCCCATGATTTTGAGCATCAAAGTTATTTTGAGTAC
66 CCCAGATGAATTGTCGGGACGGTGTTGAACCCCATGATTTTGAGCATCAAAGTTATTTTGAGTAC
* * *
63117 GTCTTATGGATTTGGTTCGCCTTATAGAT
131 GTCTTATGGACTCGGTTCGCCTTATAGAC
63146 CGACTTGGAGAATTTGACTGAAACCCAGGTTGACTGTCGGTTCGGCTTTGAGAATATCGTATGGA
1 CGACTTGGAGAATTTGACTGAAACCCAGGTTGACTGTCGGTTCGGCTTTGAGAATATCGTATGGA
* *
63211 CACAGATGAATTGTTGGGACGGTGTTGAACCCCATG-TTTTGAGCATCAAAGTTATTTTGAGTAC
66 CCCAGATGAATTGTCGGGACGGTGTTGAACCCCATGATTTTGAGCATCAAAGTTATTTTGAGTAC
* *
63275 GTCTTATGGACTTGGTTCGCCTTATAGAT
131 GTCTTATGGACTCGGTTCGCCTTATAGAC
63304 CGACTTGGAGAATTTGACTGAAACCCAGGTTGACTGTCGGTTCGGCTTTGAGAATATCGTATGGA
1 CGACTTGGAGAATTTGACTGAAACCCAGGTTGACTGTCGGTTCGGCTTTGAGAATATCGTATGGA
*
63369 CCCAGATGAATTGTCGGGACGGTGTTGAACCCCATGATTTTGAGCATCAAAGTTATCTTGAGTAC
66 CCCAGATGAATTGTCGGGACGGTGTTGAACCCCATGATTTTGAGCATCAAAGTTATTTTGAGTAC
63434 GTCTTATGGACTCGGTTCGCCTTATAGAC
131 GTCTTATGGACTCGGTTCGCCTTATAGAC
*
63463 CGACTTGGAGAATTTGACTGAAACCCAGGTTGACTGTCGGTTCGGCTTTGAGAATATCGTATGAA
1 CGACTTGGAGAATTTGACTGAAACCCAGGTTGACTGTCGGTTCGGCTTTGAGAATATCGTATGGA
63528 CCCAGATGAATTGTCGGGACGGTGTTGAACCCCATGATTTTGAGCATCAAAGTTATTTTGAGTAC
66 CCCAGATGAATTGTCGGGACGGTGTTGAACCCCATGATTTTGAGCATCAAAGTTATTTTGAGTAC
63593 GTCTTATGGACTCGGTTCGCCTTATAGAC
131 GTCTTATGGACTCGGTTCGCCTTATAGAC
*
63622 CGACTTGGAGAATTTGACTGAAACCCAGGTTGACTGTCGGTTCGGCTTTGAGAATATCGTATGAA
1 CGACTTGGAGAATTTGACTGAAACCCAGGTTGACTGTCGGTTCGGCTTTGAGAATATCGTATGGA
63687 CCCAGATGAATTGTCGGGACGGTGTTGAACCCCATGATTTTGAGCATCAAAGTTATTTTGAGTAC
66 CCCAGATGAATTGTCGGGACGGTGTTGAACCCCATGATTTTGAGCATCAAAGTTATTTTGAGTAC
63752 GTCTTATGGACTCGGTTCGCCTTATAGAC
131 GTCTTATGGACTCGGTTCGCCTTATAGAC
*
63781 CGACTTGGAGAATTTGACTGAAACCCAGGTTGACTGTCGGTTCGGCTTTGAGAATATCGTATGAA
1 CGACTTGGAGAATTTGACTGAAACCCAGGTTGACTGTCGGTTCGGCTTTGAGAATATCGTATGGA
*
63846 CCCAGATGAAATGTCGGGACGGTGTTGAACCCCATGATTTTGAGCATCAAAGTTATTTTGAGTAC
66 CCCAGATGAATTGTCGGGACGGTGTTGAACCCCATGATTTTGAGCATCAAAGTTATTTTGAGTAC
63911 GTCTTATGGACTCGGTTCGCCTTATAGAC
131 GTCTTATGGACTCGGTTCGCCTTATAGAC
*
63940 CGACTTGGAGAATTTGACTGAAACCCAGGTTGACTGTCGGTTCGGCTTTGAGAATATCTTATGGA
1 CGACTTGGAGAATTTGACTGAAACCCAGGTTGACTGTCGGTTCGGCTTTGAGAATATCGTATGGA
*
64005 CCCAGATGAATTGTCGGGACGGTGTTGAACCCCATGATTTTGAGCATCAAAGTTATCTTGAGTAC
66 CCCAGATGAATTGTCGGGACGGTGTTGAACCCCATGATTTTGAGCATCAAAGTTATTTTGAGTAC
* *
64070 GTCTTATGGACTCGGTTGGCCTTATAGAAATTGAT
131 GTCTTATGGACTCGGTTCGCCTTAT----A--GAC
* * * * *
64105 CGACTTGGAGAATTTGACTGAAATCCGGGTTGATTGTCGGATCGGCTTTGAGAATATCTTATGGA
1 CGACTTGGAGAATTTGACTGAAACCCAGGTTGACTGTCGGTTCGGCTTTGAGAATATCGTATGGA
*
64170 CCCAGATGAATTGTCGGAACGGTGTTGAACCCCATGATTTTGAGCATCAAAGTTATTTT-AGTAC
66 CCCAGATGAATTGTCGGGACGGTGTTGAACCCCATGATTTTGAGCATCAAAGTTATTTTGAGTAC
* *
64234 GTCTTATGGACTCGGTTGGCCTTATAGAAATTGAT
131 GTCTTATGGACTCGGTTCGCCTTAT----A--GAC
* * *
64269 CGACTTGGAGAATTTGACTGAAACCCAGGTTGATTGTCGGTTCGGCTTTGAGAATTTCTTATGGA
1 CGACTTGGAGAATTTGACTGAAACCCAGGTTGACTGTCGGTTCGGCTTTGAGAATATCGTATGGA
* * * *
64334 CCCAGATGAATTGTCGGAACTGTGTTGAACCCCATGATTTTGAGCATCAAAGTTA-TTTGAGAAT
66 CCCAGATGAATTGTCGGGACGGTGTTGAACCCCATGATTTTGAGCATCAAAGTTATTTTGAGTAC
*
64398 ATCTTATGGAC
131 GTCTTATGGAC
64409 CCAGTTCCTC
Statistics
Matches: 1220, Mismatches: 34, Indels: 12
0.96 0.03 0.01
Matches are distributed among these distances:
158 224 0.18
159 704 0.58
163 4 0.00
164 168 0.14
165 120 0.10
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.32
Consensus pattern (159 bp):
CGACTTGGAGAATTTGACTGAAACCCAGGTTGACTGTCGGTTCGGCTTTGAGAATATCGTATGGA
CCCAGATGAATTGTCGGGACGGTGTTGAACCCCATGATTTTGAGCATCAAAGTTATTTTGAGTAC
GTCTTATGGACTCGGTTCGCCTTATAGAC
Found at i:67670 original size:19 final size:20
Alignment explanation
Indices: 67646--67690 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
67636 GAAAATGACC
67646 CAATTTC-ACA-TCCTAACAT
1 CAATTTCAACACT-CTAACAT
67665 CAATTTCAACACTCTAACAT
1 CAATTTCAACACTCTAACAT
*
67685 TAATTT
1 CAATTT
67691 ATAACATAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 7 0.30
20 15 0.65
21 1 0.04
ACGTcount: A:0.38, C:0.27, G:0.00, T:0.36
Consensus pattern (20 bp):
CAATTTCAACACTCTAACAT
Found at i:69999 original size:29 final size:29
Alignment explanation
Indices: 69956--70038 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
69946 CTCACCTAAC
69956 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
69986 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
70015 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
70039 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:74763 original size:29 final size:29
Alignment explanation
Indices: 74720--74802 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
74710 CTCACCTAAC
74720 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
74750 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
74779 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
74803 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:84427 original size:292 final size:292
Alignment explanation
Indices: 83903--84480 Score: 1048
Period size: 292 Copynumber: 2.0 Consensus size: 292
83893 CTTTCAAAAA
* *
83903 TTACATTTTGGTCACTAACCAAAGTTTTGGGATGTTACACATAATCTAACTTTTAATTGCTACAA
1 TTACATTTTGGTCACTAACCAAAATTTTGGGATGTTACACATAATCTAACTTTGAATTGCTACAA
* * * *
83968 TAACCATGCTCGATACTCATATCATAATTATTGTATGATGTGTTCGAATTAAACAATCTTAGTAG
66 TAACCAAGCTCGATACTCACATCATAATTATTGTATGATGTGTACGAATTAAACAATCTCAGTAG
*
84033 TTAAAAGAGTGATTTTTATATTTAGAGGTTTTGGATTCGAGCATCATGAGCTATAAAATATTTGA
131 TTAAAAGAGTGATTTTTATATTTAGAGGTTTCGGATTCGAGCATCATGAGCTATAAAATATTTGA
*
84098 GTATTCATTTTCAAATCATTGAAAGTTTTTAAAATATATACTACCAATTATAATCACCCTTAAAT
196 GTATTCATTGTCAAATCATTGAAAGTTTTTAAAATATATACTACCAATTATAATCACCCTTAAAT
84163 TAATAAAAAAAATTATAGTATGACGTATAAAT
261 TAATAAAAAAAATTATAGTATGACGTATAAAT
*
84195 TTACATTTTGGTCACTAACCAAAATTTTGGGATGTTGCACATAATCTAACTTTGAATTGCTACAA
1 TTACATTTTGGTCACTAACCAAAATTTTGGGATGTTACACATAATCTAACTTTGAATTGCTACAA
84260 TAACCAAGCTCGATACTCACATCATAATTATTGTATGATGTGTACGAATTAAACAATCTCAGTAG
66 TAACCAAGCTCGATACTCACATCATAATTATTGTATGATGTGTACGAATTAAACAATCTCAGTAG
*
84325 TTAAAAGAGTGATTTTTATATTTAGAGGTTTCGGATTCGAGCATCATGAGCTATAAGATATTTGA
131 TTAAAAGAGTGATTTTTATATTTAGAGGTTTCGGATTCGAGCATCATGAGCTATAAAATATTTGA
* *
84390 GTATTCATTGTCAAATCATTGAAAGTTTTTAAAATATATATTATCAATTATAATCACCCTTAAAT
196 GTATTCATTGTCAAATCATTGAAAGTTTTTAAAATATATACTACCAATTATAATCACCCTTAAAT
84455 TAATAAAAAAAATTATAGTATGACGT
261 TAATAAAAAAAATTATAGTATGACGT
84481 GTAGATTATC
Statistics
Matches: 274, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
292 274 1.00
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (292 bp):
TTACATTTTGGTCACTAACCAAAATTTTGGGATGTTACACATAATCTAACTTTGAATTGCTACAA
TAACCAAGCTCGATACTCACATCATAATTATTGTATGATGTGTACGAATTAAACAATCTCAGTAG
TTAAAAGAGTGATTTTTATATTTAGAGGTTTCGGATTCGAGCATCATGAGCTATAAAATATTTGA
GTATTCATTGTCAAATCATTGAAAGTTTTTAAAATATATACTACCAATTATAATCACCCTTAAAT
TAATAAAAAAAATTATAGTATGACGTATAAAT
Found at i:87481 original size:15 final size:16
Alignment explanation
Indices: 87453--87482 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
87443 GGGAGTGTAA
87453 GATTACTAGAGAATAG
1 GATTACTAGAGAATAG
87469 GATTACT-GAGAATA
1 GATTACTAGAGAATA
87483 TTGTATTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.43, C:0.07, G:0.23, T:0.27
Consensus pattern (16 bp):
GATTACTAGAGAATAG
Found at i:88280 original size:30 final size:29
Alignment explanation
Indices: 88206--88286 Score: 92
Period size: 30 Copynumber: 2.7 Consensus size: 29
88196 TATTTAAAAT
*
88206 ATGCAATTATTATTTAATA-GTATATGAC
1 ATGCAATTATTATTTAATATGTATATCAC
* * *
88234 ATGCAATGCAACTATTTAATATTTACTATCAC
1 ATGCAAT--TATTATTTAATATGTA-TATCAC
88266 ATGCAATTATTATTTAATATG
1 ATGCAATTATTATTTAATATG
88287 CAACCACCTA
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
28 7 0.17
30 21 0.50
31 2 0.05
32 12 0.29
ACGTcount: A:0.38, C:0.11, G:0.09, T:0.42
Consensus pattern (29 bp):
ATGCAATTATTATTTAATATGTATATCAC
Found at i:93550 original size:55 final size:55
Alignment explanation
Indices: 93470--94592 Score: 285
Period size: 51 Copynumber: 21.4 Consensus size: 55
93460 CCTCCTCTTG
* * *
93470 GAGTATG-GAACTCGAAC-ATCTTCAACAATCATGTCTACTCCCTATTCCTTCAGA
1 GAGTATGAG-ACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGA
* * * * *
93524 GAATATAAGACTTGAACAATCTTCAACAATTGTGTCTGCTCCCTATTTCTTCAAA
1 GAGTATGAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGA
* * * *
93579 GAGTATGAGACTCGAACCATCTTCAATAATCGTGTCTGCTCTCTATTTCTTTAGA
1 GAGTATGAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGA
* **** * * * *
93634 GAGTATGAGACTCGAATAATCTTTTGGAAACGGGT-TCGCTCCCTCTTTCTTCAGG
1 GAGTATGAGACTCGAACAATCTTCAACAATCGTGTCT-GCTCCCTATTTCTTCAGA
* * *
93689 GAGTAT-AGAACTCGAATAATCTTCTGAA-AA-CGGGT-TCGCTCCCTCTTTCTTCATG-
1 GAGTATGAG-ACTCGAACAATCTTC--AACAATCGTGTCT-GCTCCCTATTTCTTCA-GA
* * *
93744 GAGTAT-AGAACTCGAA-AATCTTC-A-AA-CGGGT-TCACTCCCTCTTTCTTCAG-
1 GAGTATGAG-ACTCGAACAATCTTCAACAATCGTGTCT-GCTCCCTATTTCTTCAGA
* * * * * *
93794 GAAGTAT-AGAACTCGAATAATCTT-ATGA-AAACGGGT-TCACTCCCTCTTTCTTCAGG
1 G-AGTATGAG-ACTCGAACAATCTTCA--ACAATCGTGTCT-GCTCCCTATTTCTTCAGA
* * *
93850 GAGTAT-AGAACTCGAA-AATCTTC-A-AA-CGGGT-TCACTCCCTCTTTCTTCAG-
1 GAGTATGAG-ACTCGAACAATCTTCAACAATCGTGTCT-GCTCCCTATTTCTTCAGA
* * *
93900 GAAGTAT-AGAACTCGAA-AATCTTC-A-AA-CGGGT-TCGCTCCCTCTTTCTTTAG-
1 G-AGTATGAG-ACTCGAACAATCTTCAACAATCGTGTCT-GCTCCCTATTTCTTCAGA
* * * *
93951 GAAGTAT-AGAACTC-AAAAATCTTCAAC-A-CGGGT-TCGCTCCCTCTTTCTTCAGG
1 G-AGTATGAG-ACTCGAACAATCTTCAACAATCGTGTCT-GCTCCCTATTTCTTCAGA
* * * * *
94004 GAGTAT-AGAACTCAAAC-ATCTTC-A-AA-CGGGT-TCGCTCTCTCTTTCTTCAGG
1 GAGTATGAG-ACTCGAACAATCTTCAACAATCGTGTCT-GCTCCCTATTTCTTCAGA
* * *
94055 GAGTAT-AGAACTCGAA-AATCTTC-A-AA-CGGGT-TCGCTCCCTCTTTCTTCAGG
1 GAGTATGAG-ACTCGAACAATCTTCAACAATCGTGTCT-GCTCCCTATTTCTTCAGA
* ** * * * * *
94106 GAGTAT-AGAACTCGGAC-ATCTTCTTCAAACGGGT-TCGCTCCCTCTTCCTTCAGG
1 GAGTATGAG-ACTCGAACAATCTTCAACAATCGTGTCT-GCTCCCTATTTCTTCAGA
* * * * *
94160 GAGGAT-AGAACTCGAAC-ATCTTC-A-AA-CGGGT-TCGCTCCTTCTTTCTTTA-A
1 GAGTATGAG-ACTCGAACAATCTTCAACAATCGTGTCT-GCTCCCTATTTCTTCAGA
* * *
94210 GGAGTATG-GAACTCGAA-AATCTTC-A-AA-CGGGT-TCGCTCCCTCTTTATTCATG-
1 -GAGTATGAG-ACTCGAACAATCTTCAACAATCGTGTCT-GCTCCCTATTTCTTCA-GA
* * *
94262 GAGTAT-AGAACTCGAA-AATCTTC-A-AA-CGAGT-TCGCTCCCTCTTTCTTCAGG
1 GAGTATGAG-ACTCGAACAATCTTCAACAATCGTGTCT-GCTCCCTATTTCTTCAGA
* * *
94313 GAGTAT-AGAACTCGAA-AATCTTC-A-AA-CGAGT-TCGCTCCCTCTTTCTTCAGG
1 GAGTATGAG-ACTCGAACAATCTTCAACAATCGTGTCT-GCTCCCTATTTCTTCAGA
* * *
94364 GAGTAT-AGAACTCGAA-AATCTTC-A-AAT-GGGT-TCGCTCCCTCTTTCTTCAGG
1 GAGTATGAG-ACTCGAACAATCTTCAACAATCGTGTCT-GCTCCCTATTTCTTCAGA
* * * * *
94415 GAGTAT-AGAACTCGAAC-ATTTTC-A-AA-CGGGT-TCACTCCCTCTTTC-TCTAGG
1 GAGTATGAG-ACTCGAACAATCTTCAACAATCGTGTCT-GCTCCCTATTTCTTC-AGA
* * * * *
94466 GAGTATGAAACTCGAA-AATCTTC-A-AA-CGGGTTTAGCTCCCTCTTTCTTCAGG
1 GAGTATGAGACTCGAACAATCTTCAACAATCGTGTCT-GCTCCCTATTTCTTCAGA
* *
94518 GAGTAT-AGAACTCGAA-AATCTTC-A-AA-CGTGTTCT-CTCCCTCTTTC-TCTAGG
1 GAGTATGAG-ACTCGAACAATCTTCAACAATCGTG-TCTGCTCCCTATTTCTTC-AGA
*
94569 GAGTATG-GAACTCGAACATTCTTC
1 GAGTATGAG-ACTCGAACAATCTTC
94593 TTACGGGTTC
Statistics
Matches: 955, Mismatches: 67, Indels: 96
0.85 0.06 0.09
Matches are distributed among these distances:
50 10 0.01
51 536 0.56
52 102 0.11
53 9 0.01
54 76 0.08
55 218 0.23
56 4 0.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (55 bp):
GAGTATGAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGA
Found at i:94157 original size:54 final size:51
Alignment explanation
Indices: 93661--95021 Score: 1739
Period size: 51 Copynumber: 26.0 Consensus size: 51
93651 AATCTTTTGG
93661 AAACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAATAATCTTC
1 AAACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAA-AATCTTC
*
93713 TGAAAACGGGTTCGCTCCCTCTTTCTTCATGGAGTATAGAACTCGAAAATCTTC
1 ---AAACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAAAATCTTC
* * *
93767 AAACGGGTTCACTCCCTCTTTCTTCAGGAAGTATAGAACTCGAATAATCTTATGA
1 AAACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAA-AATC-T-T-C
*
93822 AAACGGGTTCACTCCCTCTTTCTTCAGGGAGTATAGAACTCGAAAATCTTC
1 AAACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAAAATCTTC
* *
93873 AAACGGGTTCACTCCCTCTTTCTTCAGGAAGTATAGAACTCGAAAATCTTC
1 AAACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAAAATCTTC
* * *
93924 AAACGGGTTCGCTCCCTCTTTCTTTAGGAAGTATAGAACTCAAAAATCTTC
1 AAACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAAAATCTTC
93975 AACACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTC-AAACATCTTC
1 AA-ACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAAA-ATCTTC
*
94027 AAACGGGTTCGCTCTCTCTTTCTTCAGGGAGTATAGAACTCGAAAATCTTC
1 AAACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAAAATCTTC
**
94078 AAACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGGACATCTTCTTC
1 AAACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTC-GA-A-AATCTTC
* * *
94132 AAACGGGTTCGCTCCCTCTTCCTTCAGGGAGGATAGAACTCGAACATCTTC
1 AAACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAAAATCTTC
* * * *
94183 AAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATGGAACTCGAAAATCTTC
1 AAACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAAAATCTTC
* *
94234 AAACGGGTTCGCTCCCTCTTTATTCATGGAGTATAGAACTCGAAAATCTTC
1 AAACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAAAATCTTC
*
94285 AAACGAGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAAAATCTTC
1 AAACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAAAATCTTC
*
94336 AAACGAGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAAAATCTTC
1 AAACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAAAATCTTC
* * *
94387 AAATGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAACATTTTC
1 AAACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAAAATCTTC
*
94438 AAACGGGTTCACTCCCTCTTTC-TCTAGGGAGTAT-GAAACTCGAAAATCTTC
1 AAACGGGTTCGCTCCCTCTTTCTTC-AGGGAGTATAG-AACTCGAAAATCTTC
*
94489 AAACGGGTTTAGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAAAATCTTC
1 AAACGGG-TTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAAAATCTTC
* * * *
94541 AAACGTGTTCTCTCCCTCTTTC-TCTAGGGAGTATGGAACTCGAACATTCTTC
1 AAACGGGTTCGCTCCCTCTTTCTTC-AGGGAGTATAGAACTCGAA-AATCTTC
** * * *
94593 TTACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATGGAACTCGAACAATTTTC
1 AAACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAA-AATCTTC
** *
94645 AAACGGGTTCGCTCCCTCTTTC-TCTAGGGAGTATAGAACTCGGATATTTTCTGC
1 AAACGGGTTCGCTCCCTCTTTCTTC-AGGGAGTATAGAACTC-GA-A-AATCTTC
* *
94699 GAACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGGAAATCTTC
1 AAACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAAAATCTTC
* * * *
94750 TGTGAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATGGAACTCGAACATCTTCTTC
1 ---AAACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAA-A--ATCTTC
*
94807 AAACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATGGAACTCGAAAATCTTCCTC
1 AAACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAAAATC-T--TC
* * *
94861 TTAA-GGGTTCGCTCCCTCTTTC-TCTAGGGAGTATGGAACTCGAACATCTTATGC
1 -AAACGGGTTCGCTCCCTCTTTCTTC-AGGGAGTATAGAACTCGAAAATC-T-T-C
* * * * * *
94915 GAACGAGTTTGCTTCCTCTTTCTTTCAGGAAGTATAGAACTCGAATATCTTCTTC
1 AAACGGGTTCGCTCCCTCTTTC-TTCAGGGAGTATAGAACTCGAA-A--ATCTTC
** *
94970 TTACGTGTTCGCTCCCTCTTTC-TCTAGGGAGTATAGAACTCGAATAATCTTC
1 AAACGGGTTCGCTCCCTCTTTCTTC-AGGGAGTATAGAACTCGAA-AATCTTC
95022 TTTTGCTTCA
Statistics
Matches: 1169, Mismatches: 96, Indels: 85
0.87 0.07 0.06
Matches are distributed among these distances:
50 5 0.00
51 557 0.48
52 190 0.16
53 20 0.02
54 260 0.22
55 126 0.11
56 3 0.00
57 6 0.01
58 2 0.00
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (51 bp):
AAACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAAAATCTTC
Found at i:95453 original size:36 final size:36
Alignment explanation
Indices: 95366--95568 Score: 171
Period size: 36 Copynumber: 5.6 Consensus size: 36
95356 CTGATGGTCT
* * *
95366 GATGGTTTGCTCCAAC-ACTCTTCTGA-GAAGGCTTAA
1 GATGGTTTGCTTC-ACTACTCTT-TGATGAAGACTCAA
* * * *
95402 AATGGATTTCCTTCACGACTCTTTGATGAAGACACAA
1 GATGG-TTTGCTTCACTACTCTTTGATGAAGACTCAA
* *
95439 GATGGTTTGCTTCACTATTCTTTGGTGAAGACTCAA
1 GATGGTTTGCTTCACTACTCTTTGATGAAGACTCAA
* * * *
95475 GATGGTTTGGTTCACTACTCTTTAATGAAGGCTTAA
1 GATGGTTTGCTTCACTACTCTTTGATGAAGACTCAA
* * *
95511 GATGG-TTGCTTCACTATTATTTGGTGAAGACTTC-A
1 GATGGTTTGCTTCACTACTCTTTGATGAAGAC-TCAA
* *
95546 GATTGATTTGCTTCACTCCTCTT
1 GA-TGGTTTGCTTCACTACTCTT
95569 CGGTGAAGGC
Statistics
Matches: 132, Mismatches: 29, Indels: 11
0.77 0.17 0.06
Matches are distributed among these distances:
35 23 0.17
36 73 0.55
37 36 0.27
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (36 bp):
GATGGTTTGCTTCACTACTCTTTGATGAAGACTCAA
Found at i:95496 original size:72 final size:72
Alignment explanation
Indices: 95406--95568 Score: 204
Period size: 72 Copynumber: 2.3 Consensus size: 72
95396 GCTTAAAATG
* * * *
95406 GATTTCCTTCACGACTCTTTGATGAAGACACAAGATGGTTTGCTTCACTATTCTTTGGTGAAGAC
1 GATTTGCTTCACTACTCTTTAATGAAGACACAAGATGG-TTGCTTCACTATTATTTGGTGAAGAC
95471 -TCAAGA-T
65 TTC-AGATT
* * * **
95478 GGTTTGGTTCACTACTCTTTAATGAAGGCTTAAGATGGTTGCTTCACTATTATTTGGTGAAGACT
1 GATTTGCTTCACTACTCTTTAATGAAGACACAAGATGGTTGCTTCACTATTATTTGGTGAAGACT
95543 TCAGATT
66 TCAGATT
*
95550 GATTTGCTTCACTCCTCTT
1 GATTTGCTTCACTACTCTT
95569 CGGTGAAGGC
Statistics
Matches: 77, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
71 28 0.36
72 49 0.64
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.39
Consensus pattern (72 bp):
GATTTGCTTCACTACTCTTTAATGAAGACACAAGATGGTTGCTTCACTATTATTTGGTGAAGACT
TCAGATT
Found at i:95576 original size:72 final size:72
Alignment explanation
Indices: 95437--95585 Score: 203
Period size: 72 Copynumber: 2.1 Consensus size: 72
95427 ATGAAGACAC
* * * *
95437 AAGATGGTTTGCTTCACTATTCTTTGGTGAAGACTCAAGATGGTTTGGTTCACTACTCTTTAATG
1 AAGATGGTTTGCTTCACTATTATTTGGTGAAGACTCAAGATGATTTGCTTCACTACTCTTCAATG
95502 AAGGCTT
66 AAGGCTT
* **
95509 AAGATGG-TTGCTTCACTATTATTTGGTGAAGACTTC-AGATTGATTTGCTTCACTCCTCTTCGG
1 AAGATGGTTTGCTTCACTATTATTTGGTGAAGAC-TCAAGA-TGATTTGCTTCACTACTCTTCAA
95572 TGAAGGCTT
64 TGAAGGCTT
95581 AAGAT
1 AAGAT
95586 TGACTTTGCT
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
71 28 0.41
72 40 0.59
ACGTcount: A:0.23, C:0.16, G:0.22, T:0.38
Consensus pattern (72 bp):
AAGATGGTTTGCTTCACTATTATTTGGTGAAGACTCAAGATGATTTGCTTCACTACTCTTCAATG
AAGGCTT
Found at i:97048 original size:126 final size:125
Alignment explanation
Indices: 96761--97138 Score: 519
Period size: 126 Copynumber: 3.0 Consensus size: 125
96751 GTGTCGCAAT
* * * * *
96761 ATTATCTTACACTGGTACGGGCCTTCAAAATACCCCAACATCC-CAGATTGTAAGGCTCACTC-T
1 ATTATATTATACTGGTACGGGCCTTCAAAATACCCCATCA-CCTCAAATTGTAAGGCTCATTCTT
* * *
96824 CAATGCCTTCTTGGTCTAAATCTTGTCATCTCAACATGATGTGGGTTCAGTCATGCCCCATC
65 C-ATGCCTCCTTGGTCTGAATCTTGTCATCTCAACATGATGTGGGTTCAGTCATGCCCCAAC
* * * * * *
96886 AGTGTATCATACCGGTACGGGCCTTCAAAATGCCCCATCACCTCAAATTGTAAGGCTAATTCTTC
1 ATTATATTATACTGGTACGGGCCTTCAAAATACCCCATCACCTCAAATTGTAAGGCTCATTCTTC
* *
96951 ATGCCTCCTTGGTCTGAATCTTGTCATCTCAATCATGATGTGGGTTTAGTCGTGCCCCAAC
66 ATGCCTCCTTGGTCTGAATCTTGTCATCTCAA-CATGATGTGGGTTCAGTCATGCCCCAAC
* * *
97012 ATTATGTTATACTGGTACAGGCCTTCAAAATACCCCAAT-ACCTCATATTGTAAGGCTCATTCTT
1 ATTATATTATACTGGTACGGGCCTTCAAAATACCCC-ATCACCTCAAATTGTAAGGCTCATTCTT
*
97076 CATGCCTCCTTGGTCTGAATCTTTTCATCTCAACATGATGTGGGTTCAGTCATGCCCCAAC
65 CATGCCTCCTTGGTCTGAATCTTGTCATCTCAACATGATGTGGGTTCAGTCATGCCCCAAC
97137 AT
1 AT
97139 ATCACAACTT
Statistics
Matches: 221, Mismatches: 28, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
124 2 0.01
125 106 0.48
126 111 0.50
127 2 0.01
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.32
Consensus pattern (125 bp):
ATTATATTATACTGGTACGGGCCTTCAAAATACCCCATCACCTCAAATTGTAAGGCTCATTCTTC
ATGCCTCCTTGGTCTGAATCTTGTCATCTCAACATGATGTGGGTTCAGTCATGCCCCAAC
Found at i:100429 original size:6 final size:6
Alignment explanation
Indices: 100414--100452 Score: 62
Period size: 6 Copynumber: 6.5 Consensus size: 6
100404 AAACAAATAC
100414 ATGC-A ATGCAA ATGCAA ATGCTAA ATGCAA ATGCAA ATG
1 ATGCAA ATGCAA ATGCAA ATGC-AA ATGCAA ATGCAA ATG
100453 GTGTTAATTC
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
5 4 0.12
6 22 0.69
7 6 0.19
ACGTcount: A:0.46, C:0.15, G:0.18, T:0.21
Consensus pattern (6 bp):
ATGCAA
Found at i:100441 original size:13 final size:12
Alignment explanation
Indices: 100414--100452 Score: 62
Period size: 13 Copynumber: 3.2 Consensus size: 12
100404 AAACAAATAC
100414 ATGC-AATGCAA
1 ATGCAAATGCAA
100425 ATGCAAATGCTAA
1 ATGCAAATGC-AA
100438 ATGCAAATGCAA
1 ATGCAAATGCAA
100450 ATG
1 ATG
100453 GTGTTAATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
11 4 0.15
12 10 0.38
13 12 0.46
ACGTcount: A:0.46, C:0.15, G:0.18, T:0.21
Consensus pattern (12 bp):
ATGCAAATGCAA
Found at i:101252 original size:46 final size:46
Alignment explanation
Indices: 101184--101273 Score: 110
Period size: 46 Copynumber: 2.0 Consensus size: 46
101174 CCATGCTTTG
*
101184 TTATTCACAAAAAAAATCCTAACCGCATTATATCTAATTCACATGC
1 TTATTCACAAAAAAAATCCTAACCGCATGATATCTAATTCACATGC
* * * * *
101230 TTATTCAGGAAAATAAA-CCTAACCGTATGATTTCTAGTTCACAT
1 TTATTCA-CAAAAAAAATCCTAACCGCATGATATCTAATTCACAT
101274 ACATTTATTC
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
46 30 0.81
47 7 0.19
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (46 bp):
TTATTCACAAAAAAAATCCTAACCGCATGATATCTAATTCACATGC
Found at i:105312 original size:29 final size:30
Alignment explanation
Indices: 105271--105333 Score: 78
Period size: 29 Copynumber: 2.1 Consensus size: 30
105261 CTTCTTCTGA
105271 TTTTTTTTAA-TTTCTTTTGTTATTT-T-CT
1 TTTTTTTTAATTTTC-TTTGTTATTTATGCT
*
105299 TTTTCTTTTCATTTTCTTTGTTATTTATGCT
1 TTTT-TTTTAATTTTCTTTGTTATTTATGCT
105330 TTTT
1 TTTT
105334 ATCTTGATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
28 4 0.13
29 15 0.50
30 5 0.17
31 6 0.20
ACGTcount: A:0.10, C:0.10, G:0.05, T:0.76
Consensus pattern (30 bp):
TTTTTTTTAATTTTCTTTGTTATTTATGCT
Found at i:107732 original size:21 final size:20
Alignment explanation
Indices: 107646--107803 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
107636 AAATGACCAA
**
107646 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
107665 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
107685 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
107705 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
107726 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
107747 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
107767 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
107788 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
107804 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:107832 original size:20 final size:20
Alignment explanation
Indices: 107770--108039 Score: 260
Period size: 20 Copynumber: 13.5 Consensus size: 20
107760 CGATTTTCCA
* ** *
107770 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
107790 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
107810 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
107830 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
107850 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
107870 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* *
107890 ATATTGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
107910 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
107930 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
107950 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
107970 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
107990 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
108010 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
108030 AAATCACAAC
1 AAATCGCAAC
108040 ACTGAAATTT
Statistics
Matches: 208, Mismatches: 34, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 204 0.98
21 2 0.01
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:107856 original size:40 final size:40
Alignment explanation
Indices: 107809--108039 Score: 288
Period size: 40 Copynumber: 5.8 Consensus size: 40
107799 CGCGAACACA
* * *
107809 TAAATCGCAACGCGTATCCGTAAATCGCAACG-TGTATCCG
1 TAAATCGCAACGAGAATCCGTAAATCGCAACGAT-AATCCG
* * *
107849 TATATCGCAACGCGTATCCGTAAATCGCAATGCG-T-ATCCG
1 TAAATCGCAACGAGAATCCGTAAATCGCAA--CGATAATCCG
* * * *
107889 TATATTGCAACGCGTATCCGTAAATCGCAACGATAATCCG
1 TAAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCG
*
107929 TAAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCG
1 TAAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCG
*
107969 TAAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCG
1 TAAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCG
* *
108009 TAAATCGCAACGAGAATCTGTAAATCACAAC
1 TAAATCGCAACGAGAATCCGTAAATCGCAAC
108040 ACTGAAATTT
Statistics
Matches: 179, Mismatches: 8, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
38 2 0.01
39 1 0.01
40 173 0.97
42 3 0.02
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (40 bp):
TAAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCG
Found at i:108761 original size:24 final size:24
Alignment explanation
Indices: 108722--108768 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
108712 AAATTTGGTC
108722 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
108746 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
108769 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:111247 original size:33 final size:34
Alignment explanation
Indices: 111196--111373 Score: 211
Period size: 33 Copynumber: 5.2 Consensus size: 34
111186 CGGAAATTAC
* *
111196 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACAATGAAAATCGCAATGCGAAATGAA
*
111229 AATCCCAAC-ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAACAATGAAAATCGCAATGC-GAAATGAA
111263 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--C--AATGAAAATCGCAATGCGAAATGAA
* *
111301 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACAATGAAAATCGCAATGCGAAATGAA
* * *
111334 AATCGCAA-AAAGAGAATCGCAATGCGAAATTAA
1 AATCGCAACAATGAAAATCGCAATGCGAAATGAA
111367 AATCGCA
1 AATCGCA
111374 TTGCGATTCT
Statistics
Matches: 130, Mismatches: 7, Indels: 16
0.85 0.05 0.10
Matches are distributed among these distances:
32 2 0.02
33 78 0.60
34 16 0.12
36 2 0.02
38 16 0.12
39 16 0.12
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (34 bp):
AATCGCAACAATGAAAATCGCAATGCGAAATGAA
Found at i:111279 original size:19 final size:19
Alignment explanation
Indices: 111210--111379 Score: 181
Period size: 19 Copynumber: 9.7 Consensus size: 19
111200 GCAACGAGAG
111210 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
111229 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
111243 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
111263 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
111282 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
111301 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
111315 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
111334 AATCGCAA----AAA-GAG
1 AATCGCAATGCGAAATGAA
*
111348 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
111367 AATCGCATTGCGA
1 AATCGCAATGCGA
111380 TTCTCCCGTT
Statistics
Matches: 127, Mismatches: 8, Indels: 32
0.76 0.05 0.19
Matches are distributed among these distances:
14 32 0.25
15 4 0.03
16 3 0.02
17 3 0.02
18 4 0.03
19 65 0.51
20 16 0.13
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:111303 original size:72 final size:66
Alignment explanation
Indices: 111196--111370 Score: 217
Period size: 72 Copynumber: 2.6 Consensus size: 66
111186 CGGAAATTAC
** *
111196 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAAC-ATGAAAATCGCAATGCGGAAAT
1 AATCGCAAAAAGAAAATCGCAATGCGAAATGAAAATCCCAACGA-GAAAATCGCAATGC-GAAAT
111260 GAA
64 GAA
* *
111263 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGA
1 AATCGCAA----AAA-GAAAATCGCAATGCGAAATGAAAATCCCAACGAGAAAATCGCAATGCGA
111328 AATGAA
61 AATGAA
* *
111334 AATCGCAAAAAGAGAATCGCAATGCGAAATTAAAATC
1 AATCGCAAAAAGAAAATCGCAATGCGAAATGAAAATC
111371 GCATTGCGAT
Statistics
Matches: 95, Mismatches: 7, Indels: 13
0.83 0.06 0.11
Matches are distributed among these distances:
66 24 0.25
67 11 0.12
71 17 0.18
72 42 0.44
73 1 0.01
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (66 bp):
AATCGCAAAAAGAAAATCGCAATGCGAAATGAAAATCCCAACGAGAAAATCGCAATGCGAAATGA
A
Found at i:111428 original size:19 final size:19
Alignment explanation
Indices: 111388--111485 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
111378 GATTCTCCCG
111388 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
111408 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
111427 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
111441 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
111460 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
111479 TTGCGAT
1 TTGCGAT
111486 AGTCAATTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 36 0.51
20 15 0.21
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:111482 original size:52 final size:53
Alignment explanation
Indices: 111369--111485 Score: 218
Period size: 53 Copynumber: 2.2 Consensus size: 53
111359 GAAATTAAAA
111369 TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
*
111422 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
111474 TCGCATTGCGAT
1 TCGCATTGCGAT
111486 AGTCAATTTT
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
52 30 0.48
53 33 0.52
ACGTcount: A:0.14, C:0.25, G:0.18, T:0.44
Consensus pattern (53 bp):
TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
Found at i:111611 original size:14 final size:14
Alignment explanation
Indices: 111592--111628 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
111582 CATCAATTAC
111592 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
111606 ACAAATCATCTTTT
1 ACAAATCAACTTTT
111620 ACAAATCAA
1 ACAAATCAA
111629 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:113624 original size:14 final size:14
Alignment explanation
Indices: 113605--113661 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
113595 GCGAAATGAA
*
113605 AATCGCAACGACAG
1 AATCGCAACGAAAG
113619 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
113636 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
113652 AATCGCAACG
1 AATCGCAACG
113662 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:113632 original size:33 final size:33
Alignment explanation
Indices: 113586--113678 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
113576 GCGAAACCAA
*
113586 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
113619 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
113652 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
113679 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:113643 original size:19 final size:19
Alignment explanation
Indices: 113549--113683 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
113539 TAGTTTACTT
* *
113549 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
113569 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
113588 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
113607 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
113621 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
113640 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
113654 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
113673 TCGCAATGCGA
1 TCGCAACGCGA
113684 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:113701 original size:19 final size:19
Alignment explanation
Indices: 113679--113807 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
113669 AAAATCGCAA
113679 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
113698 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
113712 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
113731 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
113745 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
113764 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
113783 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
113803 TGCGA
1 TGCGA
113808 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:113721 original size:33 final size:33
Alignment explanation
Indices: 113679--113770 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
113669 AAAATCGCAA
113679 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
113712 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
113745 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
113771 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:114002 original size:92 final size:93
Alignment explanation
Indices: 113855--114136 Score: 541
Period size: 92 Copynumber: 3.1 Consensus size: 93
113845 ATGGATTGCA
113855 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
113919 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
113947 TTACTTTCAACCAAAAGACAAAACAAAGAC-AATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
114011 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
114039 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
114104 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
114132 TTACT
1 TTACT
114137 AAGCAATCTA
Statistics
Matches: 187, Mismatches: 1, Indels: 3
0.98 0.01 0.02
Matches are distributed among these distances:
92 96 0.51
93 91 0.49
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:115854 original size:14 final size:14
Alignment explanation
Indices: 115835--115924 Score: 63
Period size: 14 Copynumber: 5.7 Consensus size: 14
115825 TTGAAATGAA
115835 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
115849 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
*
115868 AATCGCAACTAGAG
1 AATCGCAACGAGAG
*
115882 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
115901 AATCGCAACGAGAG
1 AATCGCAACGAGAG
115915 AATCGCAACG
1 AATCGCAACG
115925 CGAAATGAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 20
0.70 0.07 0.23
Matches are distributed among these distances:
14 30 0.50
15 2 0.03
16 3 0.05
17 3 0.05
18 2 0.03
19 20 0.33
ACGTcount: A:0.44, C:0.22, G:0.23, T:0.10
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:115867 original size:33 final size:33
Alignment explanation
Indices: 115827--115941 Score: 221
Period size: 33 Copynumber: 3.5 Consensus size: 33
115817 TCTTTTGGTT
115827 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
115860 GAAATGAAAATCGCAACTAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
115893 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
115926 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
115942 TGTGATTTTG
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 80 1.00
ACGTcount: A:0.47, C:0.20, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:115873 original size:19 final size:19
Alignment explanation
Indices: 115849--115941 Score: 89
Period size: 19 Copynumber: 5.4 Consensus size: 19
115839 GCAACGAGAG
115849 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
* *
115868 AATCGCAA--C--TA-GAG
1 AATCGCAACGCGAAATGAA
115882 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
115901 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
115915 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
115934 AATCGCAA
1 AATCGCAA
115942 TGTGATTTTG
Statistics
Matches: 58, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
14 20 0.34
15 2 0.03
16 3 0.05
17 3 0.05
18 2 0.03
19 28 0.48
ACGTcount: A:0.46, C:0.22, G:0.22, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:115977 original size:14 final size:14
Alignment explanation
Indices: 115958--116014 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
115948 TTTGGTTTCG
115958 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
115972 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
115991 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
116005 CGTTGCGATT
1 CGTTGCGATT
116015 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:115990 original size:33 final size:33
Alignment explanation
Indices: 115953--116022 Score: 140
Period size: 33 Copynumber: 2.1 Consensus size: 33
115943 GTGATTTTGG
115953 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
115986 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
116019 TTTC
1 TTTC
116023 TCTCGTTGCG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.09, C:0.24, G:0.20, T:0.47
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
Found at i:116025 original size:21 final size:21
Alignment explanation
Indices: 115999--116074 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
115989 CGCGTTGCGA
115999 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
116020 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
116040 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
116061 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
116075 CTCTTCTGCA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.36
21 30 0.64
ACGTcount: A:0.12, C:0.25, G:0.17, T:0.46
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:116055 original size:41 final size:41
Alignment explanation
Indices: 115998--116075 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
115988 TCGCGTTGCG
*
115998 ATTCTCTCGTTGCGATTTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
116039 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
116076 TCTTCTGCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.13, C:0.26, G:0.17, T:0.45
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
Found at i:116196 original size:33 final size:33
Alignment explanation
Indices: 116154--116224 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
116144 AATACTAACT
*
116154 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
116187 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
116220 TGAAA
1 TGAAA
116225 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:116457 original size:22 final size:22
Alignment explanation
Indices: 116405--116459 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
116395 TGGTTGTGAG
**
116405 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
116427 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
116449 GGATTTCTTCG
1 GGATTTCTTCG
116460 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:116632 original size:20 final size:20
Alignment explanation
Indices: 116606--116759 Score: 159
Period size: 20 Copynumber: 7.7 Consensus size: 20
116596 CTTTAAATAT
116606 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* * *
116626 TGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
116648 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
116667 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
*
116687 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
116707 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
116727 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
116747 CGCGTTGCGATTT
1 CGCGTTGCGATTT
116760 TGGAAAATCG
Statistics
Matches: 112, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
19 2 0.02
20 93 0.83
21 15 0.13
22 2 0.02
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.38
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:116733 original size:40 final size:40
Alignment explanation
Indices: 116605--116759 Score: 177
Period size: 40 Copynumber: 3.9 Consensus size: 40
116595 GCTTTAAATA
* *
116605 TCGCGTTGCGATTTACGGATATGCGTTGCGATTTTATGTAT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTGT
** * *
116646 TATCGTTGCGATTTACGGATACGCGTTGCGATATACG-GAT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTG-T
* *
116686 ACACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTGT
* ** *
116726 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTT
116760 TGGAAAATCG
Statistics
Matches: 95, Mismatches: 17, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
40 66 0.69
41 29 0.31
ACGTcount: A:0.18, C:0.17, G:0.26, T:0.38
Consensus pattern (40 bp):
TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTGT
Found at i:116776 original size:21 final size:21
Alignment explanation
Indices: 116746--116828 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
116736 ATTTTCATAT
*
116746 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
116767 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
116788 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
116809 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
116829 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:116819 original size:42 final size:43
Alignment explanation
Indices: 116726--116824 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
116716 ATTTATGTGT
* *
116726 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
116767 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
116809 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
116825 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:120191 original size:35 final size:35
Alignment explanation
Indices: 120145--120220 Score: 116
Period size: 35 Copynumber: 2.2 Consensus size: 35
120135 TTCTTTAACT
*
120145 AAACACGATAATCTTACATTCATGTTAAACCAACC
1 AAACACGATAATCTTACATTCATGCTAAACCAACC
* * *
120180 AAACATGATAATCTTACATTCCTGCTAAATCAACC
1 AAACACGATAATCTTACATTCATGCTAAACCAACC
120215 AAACAC
1 AAACAC
120221 AAAATACAAC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.43, C:0.26, G:0.05, T:0.25
Consensus pattern (35 bp):
AAACACGATAATCTTACATTCATGCTAAACCAACC
Found at i:120539 original size:30 final size:29
Alignment explanation
Indices: 120465--120544 Score: 81
Period size: 30 Copynumber: 2.7 Consensus size: 29
120455 TATTTAAAAT
*
120465 ATGCAATTATTATTTAATA-GTATATGAC
1 ATGCAATTATTATTTAATATGTATATCAC
* * * *
120493 ATGCAATGCAACTATTTAATATTTAATTTCAC
1 ATGCAAT--TATTATTTAATATGT-ATATCAC
120525 ATGCAATTATTATTTAATAT
1 ATGCAATTATTATTTAATAT
120545 ACAACCACCT
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
28 7 0.17
30 21 0.51
31 1 0.02
32 12 0.29
ACGTcount: A:0.39, C:0.10, G:0.07, T:0.44
Consensus pattern (29 bp):
ATGCAATTATTATTTAATATGTATATCAC
Found at i:125389 original size:18 final size:18
Alignment explanation
Indices: 125352--125414 Score: 71
Period size: 18 Copynumber: 3.7 Consensus size: 18
125342 AGGTGCCGGA
125352 GAAGAAGGAAGA-G--CC
1 GAAGAAGGAAGAGGAACC
*
125367 AAAGAAGGAAGAGGAACTC
1 GAAGAAGGAAGAGGAAC-C
*
125386 -AAGAAGGAAGAGGAGCC
1 GAAGAAGGAAGAGGAACC
125403 GAAGAAGGAAGA
1 GAAGAAGGAAGA
125415 ACAGAAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
15 11 0.27
16 1 0.02
17 1 0.02
18 27 0.66
19 1 0.02
ACGTcount: A:0.51, C:0.10, G:0.38, T:0.02
Consensus pattern (18 bp):
GAAGAAGGAAGAGGAACC
Found at i:125700 original size:34 final size:34
Alignment explanation
Indices: 125657--125726 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
125647 CTACTCAATG
125657 TAAAATAAATTTAAATAAAAACCCCGAAGATTTT
1 TAAAATAAATTTAAATAAAAACCCCGAAGATTTT
125691 TAAAATAAATTTAAATAAAAACCCCGAAGATTTT
1 TAAAATAAATTTAAATAAAAACCCCGAAGATTTT
125725 TA
1 TA
125727 GGCTAAACTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.53, C:0.11, G:0.06, T:0.30
Consensus pattern (34 bp):
TAAAATAAATTTAAATAAAAACCCCGAAGATTTT
Found at i:135118 original size:82 final size:82
Alignment explanation
Indices: 134975--135140 Score: 260
Period size: 82 Copynumber: 2.0 Consensus size: 82
134965 CGAAAGCGAT
* * * *
134975 GACGACAACACTGTGGGTGCTAGATGAAGCGAAACAACGGGAGGAGAACGATGGTGTTGGCGGTG
1 GACGACAACACTGTGAGTGCCAGATGAAGCGAAACAACGGGAGGAGAACGATAGTGCTGGCGGTG
* *
135040 TCTCTCCTCAGTGATCG
66 TCGCTCCCCAGTGATCG
* *
135057 GACGACAACACTGTGAGTGCCAGATGAAGTGAAACAGCGGGAGGAGAACGATAGTGCTGGCGGTG
1 GACGACAACACTGTGAGTGCCAGATGAAGCGAAACAACGGGAGGAGAACGATAGTGCTGGCGGTG
135122 TCGCTCCCCAGTGATCG
66 TCGCTCCCCAGTGATCG
135139 GA
1 GA
135141 TGGCAAAGGA
Statistics
Matches: 76, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
82 76 1.00
ACGTcount: A:0.27, C:0.20, G:0.36, T:0.17
Consensus pattern (82 bp):
GACGACAACACTGTGAGTGCCAGATGAAGCGAAACAACGGGAGGAGAACGATAGTGCTGGCGGTG
TCGCTCCCCAGTGATCG
Found at i:135862 original size:31 final size:31
Alignment explanation
Indices: 135804--135862 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 31
135794 ACCAAGAGAT
* **
135804 TAAAATCGAACAGATCAATGATGTTAGGGAC
1 TAAAATCGAACAGATCAATAACATTAGGGAC
* *
135835 TAAAATCGAATATATCAATAACATTAGG
1 TAAAATCGAACAGATCAATAACATTAGG
135863 AACCATTCTC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 23 1.00
ACGTcount: A:0.46, C:0.12, G:0.17, T:0.25
Consensus pattern (31 bp):
TAAAATCGAACAGATCAATAACATTAGGGAC
Found at i:143098 original size:24 final size:24
Alignment explanation
Indices: 143071--143118 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
143061 GTCTTGAGGG
143071 AGCTGGTAGAAACGTGGACTGTTC
1 AGCTGGTAGAAACGTGGACTGTTC
143095 AGCTGGTAGAAACGTGGACTGTTC
1 AGCTGGTAGAAACGTGGACTGTTC
143119 GGTGGAGAAG
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:0.17, G:0.33, T:0.25
Consensus pattern (24 bp):
AGCTGGTAGAAACGTGGACTGTTC
Found at i:149857 original size:32 final size:32
Alignment explanation
Indices: 149816--149881 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
149806 CCAAAGTTCA
149816 TCTTTGTTTTCTAGTCAACTTATGTACTACAC
1 TCTTTGTTTTCTAGTCAACTTATGTACTACAC
149848 TCTTTGTTTTCTAGTCAACTTATGTACTACAC
1 TCTTTGTTTTCTAGTCAACTTATGTACTACAC
149880 TC
1 TC
149882 GATAATCACC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.21, C:0.23, G:0.09, T:0.47
Consensus pattern (32 bp):
TCTTTGTTTTCTAGTCAACTTATGTACTACAC
Found at i:152033 original size:22 final size:23
Alignment explanation
Indices: 152005--152049 Score: 83
Period size: 22 Copynumber: 2.0 Consensus size: 23
151995 AAAAGTGCCA
152005 AAAGATAGAGATAAAC-TGTCAT
1 AAAGATAGAGATAAACATGTCAT
152027 AAAGATAGAGATAAACATGTCAT
1 AAAGATAGAGATAAACATGTCAT
152050 TAAAACGTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.51, C:0.09, G:0.18, T:0.22
Consensus pattern (23 bp):
AAAGATAGAGATAAACATGTCAT
Found at i:161246 original size:18 final size:18
Alignment explanation
Indices: 161223--161262 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
161213 AAAGGTAATG
* *
161223 GCGGCATCATATATGGTT
1 GCGGCATCATAAATGGCT
161241 GCGGCATCATAAATGGCT
1 GCGGCATCATAAATGGCT
161259 GCGG
1 GCGG
161263 TGGCTGTTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.25
Consensus pattern (18 bp):
GCGGCATCATAAATGGCT
Found at i:162971 original size:17 final size:18
Alignment explanation
Indices: 162928--162968 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
162918 AAATTATATT
162928 AGTAAAATA-TTAAATAA
1 AGTAAAATACTTAAATAA
162945 AGTAAAATACTTAAATAA
1 AGTAAAATACTTAAATAA
*
162963 ATTAAA
1 AGTAAA
162969 TACATAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.29
Consensus pattern (18 bp):
AGTAAAATACTTAAATAA
Found at i:164243 original size:21 final size:21
Alignment explanation
Indices: 164205--164254 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
164195 TGAGCTCATA
*
164205 AATTATTAGACCAATATAATG
1 AATTATTACACCAATATAATG
* * *
164226 AATTATTACATCAGTATAATT
1 AATTATTACACCAATATAATG
*
164247 AATAATTA
1 AATTATTA
164255 TGTTATTATA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.48, C:0.08, G:0.06, T:0.38
Consensus pattern (21 bp):
AATTATTACACCAATATAATG
Found at i:172775 original size:3 final size:3
Alignment explanation
Indices: 172767--172820 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
172757 TTGCCAACTC
172767 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
172815 ATA ATA
1 ATA ATA
172821 TTTAAGCCTA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:182327 original size:19 final size:19
Alignment explanation
Indices: 182290--182327 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
182280 CTACTCCAAA
*
182290 AAATAATTAGTTAATAAAT
1 AAATAATAAGTTAATAAAT
182309 AAATAATAATGTTAA-AAAT
1 AAATAATAA-GTTAATAAAT
182328 GTGTAAGCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (19 bp):
AAATAATAAGTTAATAAAT
Found at i:190288 original size:15 final size:15
Alignment explanation
Indices: 190268--190311 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
190258 GCAGAACGAC
*
190268 GTGGTGGTGCCGGAA
1 GTGGTGGAGCCGGAA
*
190283 GTGGTGGAGCCGGAC
1 GTGGTGGAGCCGGAA
190298 GTGGTGGAGCCGGA
1 GTGGTGGAGCCGGA
190312 GGCAGAGGCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.14, C:0.16, G:0.55, T:0.16
Consensus pattern (15 bp):
GTGGTGGAGCCGGAA
Found at i:192487 original size:21 final size:21
Alignment explanation
Indices: 192449--192488 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
192439 AACGCCCAAT
*
192449 AATAATATTTATGGTAGAAAA
1 AATAATATTTATGATAGAAAA
192470 AATAATATTT-TCGATAGAA
1 AATAATATTTAT-GATAGAA
192489 TTTTTCCTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.50, C:0.03, G:0.12, T:0.35
Consensus pattern (21 bp):
AATAATATTTATGATAGAAAA
Found at i:197579 original size:21 final size:22
Alignment explanation
Indices: 197545--197585 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
197535 GTAAAAATTA
*
197545 TAAAGGAAGTACCGATACTCAT
1 TAAAGCAAGTACCGATACTCAT
197567 TAAAGCAA-TACCGATACTC
1 TAAAGCAAGTACCGATACTC
197586 CCTGTCATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.41, C:0.22, G:0.15, T:0.22
Consensus pattern (22 bp):
TAAAGCAAGTACCGATACTCAT
Found at i:202079 original size:21 final size:18
Alignment explanation
Indices: 202040--202087 Score: 51
Period size: 20 Copynumber: 2.5 Consensus size: 18
202030 TTAATTTTAA
* *
202040 AAAAAAAAACAGGTCTTT
1 AAAAAAAATCAGCTCTTT
202058 AATTAAAAAATCAGCTCATTT
1 AA--AAAAAATCAGCTC-TTT
202079 AAAAAAAAT
1 AAAAAAAAT
202088 TATGATCGCG
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
18 2 0.08
19 7 0.28
20 11 0.44
21 5 0.20
ACGTcount: A:0.58, C:0.10, G:0.06, T:0.25
Consensus pattern (18 bp):
AAAAAAAATCAGCTCTTT
Found at i:202922 original size:9 final size:9
Alignment explanation
Indices: 202905--202957 Score: 70
Period size: 9 Copynumber: 5.7 Consensus size: 9
202895 CTGCTGGAAA
202905 ACCGGTTTG
1 ACCGGTTTG
*
202914 ACCGTTTTG
1 ACCGGTTTG
202923 AACCGGTTTG
1 -ACCGGTTTG
*
202933 ACCGGTCTG
1 ACCGGTTTG
202942 AACCGGTTTG
1 -ACCGGTTTG
202952 ACCGGT
1 ACCGGT
202958 CTGAACCAGG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
9 22 0.58
10 16 0.42
ACGTcount: A:0.15, C:0.25, G:0.30, T:0.30
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:202928 original size:19 final size:19
Alignment explanation
Indices: 202904--202973 Score: 106
Period size: 19 Copynumber: 3.7 Consensus size: 19
202894 GCTGCTGGAA
* *
202904 AACCGGTTTGACCGTTTTG
1 AACCGGTTTGACCGGTCTG
202923 AACCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTCTG
202942 AACCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTCTG
202961 AACCAGG-TTGACC
1 AACC-GGTTTGACC
202974 CGACCCGACT
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
19 46 0.96
20 2 0.04
ACGTcount: A:0.19, C:0.26, G:0.29, T:0.27
Consensus pattern (19 bp):
AACCGGTTTGACCGGTCTG
Found at i:202989 original size:17 final size:17
Alignment explanation
Indices: 202967--203023 Score: 96
Period size: 17 Copynumber: 3.4 Consensus size: 17
202957 TCTGAACCAG
202967 GTTGACCCGACCCGACT
1 GTTGACCCGACCCGACT
202984 GTTGACCCGACCCGACT
1 GTTGACCCGACCCGACT
* *
203001 GTTGACCAGACCCGACC
1 GTTGACCCGACCCGACT
203018 GTTGAC
1 GTTGAC
203024 TGGACCGTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 38 1.00
ACGTcount: A:0.19, C:0.39, G:0.25, T:0.18
Consensus pattern (17 bp):
GTTGACCCGACCCGACT
Found at i:203994 original size:32 final size:31
Alignment explanation
Indices: 203947--204034 Score: 88
Period size: 32 Copynumber: 2.8 Consensus size: 31
203937 ATCATTCTCG
** *
203947 GGTAGGCCCTGCGGCCCTAAGATGTGTTCTTA
1 GGTAGGCCCCACGGCCCTAAGATGT-ATCTTA
* * *
203979 GGTAGGCCCCACGGCCCCAAAATCTATCTTA
1 GGTAGGCCCCACGGCCCTAAGATGTATCTTA
*
204010 GGTAGGCTCTCA-GGCCCTAAGATGT
1 GGTAGGC-CCCACGGCCCTAAGATGT
204035 TCCCTTAGGG
Statistics
Matches: 45, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
31 22 0.49
32 23 0.51
ACGTcount: A:0.20, C:0.28, G:0.27, T:0.24
Consensus pattern (31 bp):
GGTAGGCCCCACGGCCCTAAGATGTATCTTA
Found at i:208434 original size:2 final size:2
Alignment explanation
Indices: 208427--208469 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
208417 ATTTAAACAA
* *
208427 AT AT AT AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT AT TT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
208469 A
1 A
208470 AGACTAAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:208500 original size:23 final size:22
Alignment explanation
Indices: 208474--208562 Score: 108
Period size: 23 Copynumber: 3.9 Consensus size: 22
208464 TTTATAAGAC
208474 TAAAATAATAATAAAATAATAAT
1 TAAAATAATAATAAAATAAT-AT
*
208497 TAAAGTAATAATTAAAAT-ATAT
1 TAAAATAATAA-TAAAATAATAT
208519 TAAAAGTAATAATAAAATAATAT
1 TAAAA-TAATAATAAAATAATAT
*
208542 TACAAATAAATAATGAAATAA
1 TA-AAAT-AATAATAAAATAA
208563 AATAAATAAA
Statistics
Matches: 58, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
22 12 0.21
23 25 0.43
24 21 0.36
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.30
Consensus pattern (22 bp):
TAAAATAATAATAAAATAATAT
Found at i:208548 original size:12 final size:11
Alignment explanation
Indices: 208474--208550 Score: 84
Period size: 12 Copynumber: 6.7 Consensus size: 11
208464 TTTATAAGAC
*
208474 TAAAATAATAA
1 TAAAATAATAT
208485 TAAAATAATAAT
1 TAAAATAAT-AT
*
208497 TAAAGTAATAAT
1 TAAAATAAT-AT
208509 TAAAAT-ATAT
1 TAAAATAATAT
*
208519 TAAAAGTAATAA
1 TAAAA-TAATAT
208531 TAAAATAATAT
1 TAAAATAATAT
208542 TACAAATAA
1 TA-AAATAA
208551 ATAATGAAAT
Statistics
Matches: 57, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
10 7 0.12
11 19 0.33
12 31 0.54
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (11 bp):
TAAAATAATAT
Found at i:209671 original size:15 final size:16
Alignment explanation
Indices: 209651--209681 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
209641 GATTTTTTCC
209651 TTTTCTTCT-GTTTTT
1 TTTTCTTCTGGTTTTT
209666 TTTTCTTCTGGTTTTT
1 TTTTCTTCTGGTTTTT
209682 GTGTTGTTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.00, C:0.13, G:0.10, T:0.77
Consensus pattern (16 bp):
TTTTCTTCTGGTTTTT
Found at i:210045 original size:39 final size:39
Alignment explanation
Indices: 209984--210061 Score: 120
Period size: 39 Copynumber: 2.0 Consensus size: 39
209974 ACCTGGCAGT
*
209984 GCTGGAAGCTGCTGCAACTGATGCGTGGAGGGGATGCTC
1 GCTGGAAGCTGCTGCAAATGATGCGTGGAGGGGATGCTC
* * *
210023 GCTGGAAGCTGCTGGAAATGATGTGTGGAGGGGCTGCTC
1 GCTGGAAGCTGCTGCAAATGATGCGTGGAGGGGATGCTC
210062 AGGTAAAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.18, C:0.18, G:0.42, T:0.22
Consensus pattern (39 bp):
GCTGGAAGCTGCTGCAAATGATGCGTGGAGGGGATGCTC
Found at i:210409 original size:113 final size:113
Alignment explanation
Indices: 210284--210505 Score: 381
Period size: 113 Copynumber: 2.0 Consensus size: 113
210274 GATGAAATCT
* *
210284 AGCAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTTTTCCTTCTTCAGATGAGTTCTTCT
1 AGCAAAAAGTTGAACAAACTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
*
210349 CATTATGAACTTTCTCTGGAAATGCTGATCCATCAAGTGATGGATTTG
66 CATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTG
* *
210397 AGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
1 AGCAAAAAGTTGAACAAACTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
* *
210462 CATTATGAACTTTCTCTGGAAAAGTTGATCCATCGAGTGATGGA
66 CATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGA
210506 AATTTATGTT
Statistics
Matches: 102, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
113 102 1.00
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.37
Consensus pattern (113 bp):
AGCAAAAAGTTGAACAAACTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
CATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTG
Done.