Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009582.1 Hibiscus syriacus cultivar Beakdansim tig00116959_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: 4978262
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 12 of 24
Found at i:2404167 original size:17 final size:16
Alignment explanation
Indices: 2404145--2404179 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
2404135 AATTATAAAT
*
2404145 TATTATATATAAATATA
1 TATTATACAT-AATATA
2404162 TATTATACATAATATA
1 TATTATACATAATATA
2404178 TA
1 TA
2404180 CATGTAACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (16 bp):
TATTATACATAATATA
Found at i:2404751 original size:27 final size:29
Alignment explanation
Indices: 2404721--2404775 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
2404711 AGTTAAATGG
*
2404721 CACTTGAACTT-A-AAAAAATTAATTTGA
1 CACTCGAACTTGATAAAAAATTAATTTGA
2404748 CACTCGAACTTGATTAAAAAATTAATTT
1 CACTCGAACTTGA-TAAAAAATTAATTT
2404776 AGTCTGTTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 10 0.42
28 1 0.04
30 13 0.54
ACGTcount: A:0.45, C:0.13, G:0.07, T:0.35
Consensus pattern (29 bp):
CACTCGAACTTGATAAAAAATTAATTTGA
Found at i:2405913 original size:67 final size:67
Alignment explanation
Indices: 2405756--2405951 Score: 324
Period size: 67 Copynumber: 3.0 Consensus size: 67
2405746 ATGAATAGTG
* *
2405756 CTTCCAAGTTCCAATAACTGTAGCTTAGCCATGAATGGTAATACCATAATCTTTTGT--CCCCCC
1 CTTCCAAGTTCCAATAACTGTAGCTCAGCCATGAATGGTAATGCCATAATCTTTTGTCCCCCCCC
2405819 AT
66 AT
* * *
2405821 CTTCCAAGTTCCAATAACTCTAGCTCATCCATGAATGGTAATGCCATAGTCTTTTGTCCCCCCCC
1 CTTCCAAGTTCCAATAACTGTAGCTCAGCCATGAATGGTAATGCCATAATCTTTTGTCCCCCCCC
2405886 AT
66 AT
*
2405888 CTTCCAAGTTCCAATAACTGTAGCTCAGCAATGAATGGTAATGCCATAATCTTTTGTCCCCCCC
1 CTTCCAAGTTCCAATAACTGTAGCTCAGCCATGAATGGTAATGCCATAATCTTTTGTCCCCCCC
2405952 TCTAAATCAG
Statistics
Matches: 120, Mismatches: 9, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
65 52 0.43
67 68 0.57
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.31
Consensus pattern (67 bp):
CTTCCAAGTTCCAATAACTGTAGCTCAGCCATGAATGGTAATGCCATAATCTTTTGTCCCCCCCC
AT
Found at i:2406721 original size:16 final size:16
Alignment explanation
Indices: 2406702--2406751 Score: 82
Period size: 16 Copynumber: 3.1 Consensus size: 16
2406692 AATTTTAGCC
2406702 AACCGAAAGTAACCCG
1 AACCGAAAGTAACCCG
*
2406718 AACCGAAAGCAACCCG
1 AACCGAAAGTAACCCG
*
2406734 AACCAAAAGTAACCCG
1 AACCGAAAGTAACCCG
2406750 AA
1 AA
2406752 TTTAATTTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.48, C:0.32, G:0.16, T:0.04
Consensus pattern (16 bp):
AACCGAAAGTAACCCG
Found at i:2410048 original size:117 final size:118
Alignment explanation
Indices: 2409841--2410181 Score: 497
Period size: 117 Copynumber: 2.9 Consensus size: 118
2409831 TTAAAAACCA
*
2409841 ATAATCAAAATAAAATCAAGACTAAATGATAAACTCTAGACCATGAATATTGCTGCCAAGTTCCA
1 ATAATCAAAATAAAATCAAGACTAAATGATAAACTCTAGACCATGAATATTGCTACCAAGTTCCA
* * *
2409906 ATAGATATAGCTCAGCCATGAATGACAATTCCATAATATTGTCTCC-CACAAAT
66 ATAGGTATAGTTCAGCCATGAATGACAATGCCATAATATTGTC-CCTCACAAAT
* **
2409959 -TAATCAAAATAAAATCAAGATTAAATGATAAACTCTAGACTGTGAATATTGCTACCAAGTTCCA
1 ATAATCAAAATAAAATCAAGACTAAATGATAAACTCTAGACCATGAATATTGCTACCAAGTTCCA
* *
2410023 ATAGGTATAGTTCAGCCGTGAATGACAATGCCATAATCTTTTGTCCCTCACAAAT
66 ATAGGTATAGTTCAGCCATGAATGACAATGCCATAA--TATTGTCCCTCACAAAT
* * *
2410078 CAGTAATCAAAAGAAAATCAAGACTAAATGATAAACTCTAGACCATGAATATTGCTCCCAAGTTT
1 -A-TAATCAAAATAAAATCAAGACTAAATGATAAACTCTAGACCATGAATATTGCTACCAAGTTC
* *
2410143 CAATAGGTATGGTTCAGTCATGAATGACAATGCCATAAT
64 CAATAGGTATAGTTCAGCCATGAATGACAATGCCATAAT
2410182 CTTTTGTCCC
Statistics
Matches: 199, Mismatches: 18, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
117 92 0.46
118 2 0.01
119 13 0.07
120 1 0.01
122 91 0.46
ACGTcount: A:0.41, C:0.19, G:0.13, T:0.27
Consensus pattern (118 bp):
ATAATCAAAATAAAATCAAGACTAAATGATAAACTCTAGACCATGAATATTGCTACCAAGTTCCA
ATAGGTATAGTTCAGCCATGAATGACAATGCCATAATATTGTCCCTCACAAAT
Found at i:2410128 original size:122 final size:119
Alignment explanation
Indices: 2409842--2410199 Score: 517
Period size: 122 Copynumber: 3.0 Consensus size: 119
2409832 TAAAAACCAA
*
2409842 TAATCAAAATAAAATCAAGACTAAATGATAAACTCTAGACCATGAATATTGCTGCCAAGTTCCAA
1 TAATCAAAATAAAATCAAGACTAAATGATAAACTCTAGACCATGAATATTGCTACCAAGTTCCAA
* * * *
2409907 TAGATATAGCTCAGCCATGAATGACAATTCCATAA--TATTGTCTCC-CACAAAT
66 TAGGTATAGTTCAGCCATGAATGACAATGCCATAATCTTTTGTC-CCTCACAAAT
* **
2409959 TAATCAAAATAAAATCAAGATTAAATGATAAACTCTAGACTGTGAATATTGCTACCAAGTTCCAA
1 TAATCAAAATAAAATCAAGACTAAATGATAAACTCTAGACCATGAATATTGCTACCAAGTTCCAA
*
2410024 TAGGTATAGTTCAGCCGTGAATGACAATGCCATAATCTTTTGTCCCTCACAAAT
66 TAGGTATAGTTCAGCCATGAATGACAATGCCATAATCTTTTGTCCCTCACAAAT
* * *
2410078 CAGTAATCAAAAGAAAATCAAGACTAAATGATAAACTCTAGACCATGAATATTGCTCCCAAGTTT
1 ---TAATCAAAATAAAATCAAGACTAAATGATAAACTCTAGACCATGAATATTGCTACCAAGTTC
* *
2410143 CAATAGGTATGGTTCAGTCATGAATGACAATGCCATAATCTTTTGTCCCCTCA-AAAT
63 CAATAGGTATAGTTCAGCCATGAATGACAATGCCATAATCTTTTGT-CCCTCACAAAT
2410200 AGTTTATTTA
Statistics
Matches: 216, Mismatches: 18, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
117 92 0.43
118 2 0.01
119 13 0.06
122 103 0.48
123 6 0.03
ACGTcount: A:0.40, C:0.20, G:0.13, T:0.28
Consensus pattern (119 bp):
TAATCAAAATAAAATCAAGACTAAATGATAAACTCTAGACCATGAATATTGCTACCAAGTTCCAA
TAGGTATAGTTCAGCCATGAATGACAATGCCATAATCTTTTGTCCCTCACAAAT
Found at i:2419485 original size:291 final size:288
Alignment explanation
Indices: 2418843--2419424 Score: 1029
Period size: 291 Copynumber: 2.0 Consensus size: 288
2418833 CAAAATAATT
* *
2418843 CCTATGAAAGTTCACGTATTTACAAAGACAAGAGCAAGAACTGGCATGATCAAAATATTTTGCCA
1 CCTATGAAAGTTAACGTATTTACAAAGACAACAGCAAGAACT-GCATGATC--AATATTTTGCCA
2418908 AGGGAATTCATTATTTGACAATATGTGATGTTATTTAATTCAAGACTAAAATTATTCCATGGGAA
63 AGGGAATTCATTATTTGACAATATGTGATGTTATTTAATTCAAGACTAAAATTATTCCATGGGAA
2418973 TTTGCATTCTCGTTGGCCATACCCTTTTGAAGTATTGAAGGTTTCCTTATGGTGCATATTATTGA
128 TTTGCATTCTCGTTGGCCATACCCTTTTGAAGTATTGAAGGTTTCCTTATGGTGCATATTATTGA
2419038 AGAACTTAGATGGAAACACATTTAAAGTCAATGGACAATGTTTAAAGCATTATTACCAACAACAA
193 AGAACTTAGATGGAAACACATTTAAAGTCAATGGACAATGTTTAAAGCATTATTACCAACAACAA
**
2419103 AGCCCTATCATCGCTTCAATCACACTAAATT
258 AGCCCTATCATCGCTTCAATCACACTAAAGA
* *
2419134 CCTATGAAAGTTCACGTATTTACAAAGACAAGAGCAAGAACTGGCATGATCAAAATATTTTGCCA
1 CCTATGAAAGTTAACGTATTTACAAAGACAACAGCAAGAACT-GCATGATC--AATATTTTGCCA
2419199 AGGGAATTCATTATTTGACAATATGTGATGTTATTTAATTCAAGACTAAAATTATTCCATGGGAA
63 AGGGAATTCATTATTTGACAATATGTGATGTTATTTAATTCAAGACTAAAATTATTCCATGGGAA
2419264 TTTGCATTCTCGTTGGCCATACCCTTTTGAAGTTATTGAAGGTTTCCCTTATGGTGCAATATTAT
128 TTTGCATTCTCGTTGGCCATACCCTTTTGAAG-TATTGAAGGTTT-CCTTATGGTGC-ATATTAT
2419329 TGAAGAACTTAGATGGAAACACATTTAAAGTCAATGGACAATGTTTAAAGCATTATTACCAACAA
190 TGAAGAACTTAGATGGAAACACATTTAAAGTCAATGGACAATGTTTAAAGCATTATTACCAACAA
2419394 CAAAGCCCTATCATCGCTTCAATCACACTAA
255 CAAAGCCCTATCATCGCTTCAATCACACTAA
2419425 GCGACCTCAT
Statistics
Matches: 288, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
291 162 0.56
292 12 0.04
293 11 0.04
294 103 0.36
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (288 bp):
CCTATGAAAGTTAACGTATTTACAAAGACAACAGCAAGAACTGCATGATCAATATTTTGCCAAGG
GAATTCATTATTTGACAATATGTGATGTTATTTAATTCAAGACTAAAATTATTCCATGGGAATTT
GCATTCTCGTTGGCCATACCCTTTTGAAGTATTGAAGGTTTCCTTATGGTGCATATTATTGAAGA
ACTTAGATGGAAACACATTTAAAGTCAATGGACAATGTTTAAAGCATTATTACCAACAACAAAGC
CCTATCATCGCTTCAATCACACTAAAGA
Found at i:2420206 original size:24 final size:25
Alignment explanation
Indices: 2420167--2420215 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
2420157 ACATCCGGCG
* *
2420167 AAACCAATCAATAATTAG-TGGGTA
1 AAACCAATAAACAATTAGTTGGGTA
*
2420191 AAACCAATAAACAATTTGTTGGGTA
1 AAACCAATAAACAATTAGTTGGGTA
2420216 TCATCGAGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.45, C:0.12, G:0.16, T:0.27
Consensus pattern (25 bp):
AAACCAATAAACAATTAGTTGGGTA
Found at i:2425752 original size:19 final size:19
Alignment explanation
Indices: 2425711--2425758 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
2425701 TAAAAAACAA
*
2425711 AAAAAAAGAGAAAAGAAAG
1 AAAAAAAGATAAAAGAAAG
* * *
2425730 AAAAATAGATAAAAGGAAT
1 AAAAAAAGATAAAAGAAAG
*
2425749 AAAAACAGAT
1 AAAAAAAGAT
2425759 CAAGTAGTTC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.73, C:0.02, G:0.17, T:0.08
Consensus pattern (19 bp):
AAAAAAAGATAAAAGAAAG
Found at i:2426650 original size:25 final size:24
Alignment explanation
Indices: 2426616--2426702 Score: 115
Period size: 25 Copynumber: 3.6 Consensus size: 24
2426606 AAATAGGGGC
2426616 AACATTTTTCAAAATTATTTCATCG
1 AACATTTTTCAAAATTATTT-ATCG
*
2426641 AACATTTTTCAAAA--CTTTATCG
1 AACATTTTTCAAAATTATTTATCG
*
2426663 AACATTTTTCAAAAATTATTTTATCA
1 AACATTTTTC-AAAATTA-TTTATCG
2426689 AACATTTTTCAAAA
1 AACATTTTTCAAAA
2426703 CTAAAATATG
Statistics
Matches: 55, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
22 14 0.25
23 7 0.13
25 18 0.33
26 16 0.29
ACGTcount: A:0.40, C:0.15, G:0.02, T:0.43
Consensus pattern (24 bp):
AACATTTTTCAAAATTATTTATCG
Found at i:2426692 original size:26 final size:25
Alignment explanation
Indices: 2426616--2426702 Score: 117
Period size: 22 Copynumber: 3.6 Consensus size: 25
2426606 AAATAGGGGC
*
2426616 AACATTTTTCAAAATTATTTCATCG
1 AACATTTTTCAAAATTATTTTATCG
*
2426641 AACATTTTTC-AAA--ACTTTATCG
1 AACATTTTTCAAAATTATTTTATCG
*
2426663 AACATTTTTCAAAAATTATTTTATCA
1 AACATTTTTC-AAAATTATTTTATCG
2426689 AACATTTTTCAAAA
1 AACATTTTTCAAAA
2426703 CTAAAATATG
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
22 17 0.31
24 6 0.11
25 14 0.26
26 17 0.31
ACGTcount: A:0.40, C:0.15, G:0.02, T:0.43
Consensus pattern (25 bp):
AACATTTTTCAAAATTATTTTATCG
Found at i:2435227 original size:16 final size:16
Alignment explanation
Indices: 2435206--2435237 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2435196 AACCAATTTA
2435206 TCTTTAAAATAGTTTT
1 TCTTTAAAATAGTTTT
*
2435222 TCTTTAAAATTGTTTT
1 TCTTTAAAATAGTTTT
2435238 AAACGATATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.06, G:0.06, T:0.59
Consensus pattern (16 bp):
TCTTTAAAATAGTTTT
Found at i:2440509 original size:6 final size:6
Alignment explanation
Indices: 2440498--2440548 Score: 52
Period size: 6 Copynumber: 8.7 Consensus size: 6
2440488 TGCTTGAATG
* * *
2440498 AATAAA AAT-AA AATGAAA CA-AAA AGTAAA GATAAA AATAAA AATAAA
1 AATAAA AATAAA AAT-AAA AATAAA AATAAA AATAAA AATAAA AATAAA
2440545 AATA
1 AATA
2440549 TAACGGAATT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
5 8 0.22
6 25 0.69
7 3 0.08
ACGTcount: A:0.76, C:0.02, G:0.06, T:0.16
Consensus pattern (6 bp):
AATAAA
Found at i:2442986 original size:5 final size:5
Alignment explanation
Indices: 2442976--2443002 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
2442966 TTTGATAAAA
2442976 AACCG AACCG AACCG AACCG AACCG AA
1 AACCG AACCG AACCG AACCG AACCG AA
2443003 TACACCCCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.44, C:0.37, G:0.19, T:0.00
Consensus pattern (5 bp):
AACCG
Found at i:2443848 original size:18 final size:19
Alignment explanation
Indices: 2443827--2443873 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 19
2443817 GTAAAAAGAT
*
2443827 ATTAAAAT-AATAAAAGTG
1 ATTAAAATAAATAAAAGTA
2443845 ATT-AAATAAATAAAAGTA
1 ATTAAAATAAATAAAAGTA
*
2443863 ATTAAAGTAAA
1 ATTAAAATAAA
2443874 AATAAGAAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 4 0.16
18 15 0.60
19 6 0.24
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.28
Consensus pattern (19 bp):
ATTAAAATAAATAAAAGTA
Found at i:2454914 original size:20 final size:20
Alignment explanation
Indices: 2454889--2454928 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
2454879 TTTTGGTGCA
*
2454889 GAGGGAATTGATCCCCCCTT
1 GAGGGAACTGATCCCCCCTT
*
2454909 GAGGGAACTGATTCCCCCTT
1 GAGGGAACTGATCCCCCCTT
2454929 TGAAGGGGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.20, C:0.30, G:0.25, T:0.25
Consensus pattern (20 bp):
GAGGGAACTGATCCCCCCTT
Found at i:2454958 original size:21 final size:21
Alignment explanation
Indices: 2454932--2454971 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2454922 CCCCCTTTGA
*
2454932 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
2454953 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
2454972 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:2463300 original size:16 final size:15
Alignment explanation
Indices: 2463261--2463304 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
2463251 ATATATTAAA
*
2463261 ATAA-AATAAATAAT
1 ATAATAATAAATATT
2463275 ATAATAATAAATATT
1 ATAATAATAAATATT
*
2463290 AATAGTAATAAATAT
1 -ATAATAATAAATAT
2463305 AAAAGAGGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
14 4 0.15
15 9 0.35
16 13 0.50
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (15 bp):
ATAATAATAAATATT
Found at i:2463858 original size:12 final size:12
Alignment explanation
Indices: 2463843--2463872 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
2463833 AAAAGTATGT
2463843 GAAAAATAGAGA
1 GAAAAATAGAGA
*
2463855 GAAAACTAGAGA
1 GAAAAATAGAGA
2463867 GAAAAA
1 GAAAAA
2463873 GAAGATTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.67, C:0.03, G:0.23, T:0.07
Consensus pattern (12 bp):
GAAAAATAGAGA
Found at i:2468329 original size:22 final size:21
Alignment explanation
Indices: 2468274--2468330 Score: 55
Period size: 22 Copynumber: 2.7 Consensus size: 21
2468264 CTAGGATGAT
2468274 GGTATCGATACT-CATAGTTG
1 GGTATCGATACTACATAGTTG
**
2468294 GAGTATCGGGACTAGCAT-GTTAG
1 G-GTATCGATACTA-CATAGTT-G
2468317 GGTATCGATACTAC
1 GGTATCGATACTAC
2468331 CCTTAGTATC
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
20 1 0.03
21 10 0.34
22 13 0.45
23 5 0.17
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (21 bp):
GGTATCGATACTACATAGTTG
Found at i:2474837 original size:24 final size:24
Alignment explanation
Indices: 2474791--2474843 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
2474781 TTAACTACTT
* ** *
2474791 AACTGCTACCTAACTCCGCGAGTC
1 AACTGCAACCTAACTCCAAGAGTA
*
2474815 AACTGCAACTTAACTCCAAGAGTA
1 AACTGCAACCTAACTCCAAGAGTA
2474839 AACTG
1 AACTG
2474844 ACGACACAAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.34, C:0.30, G:0.15, T:0.21
Consensus pattern (24 bp):
AACTGCAACCTAACTCCAAGAGTA
Found at i:2477250 original size:16 final size:16
Alignment explanation
Indices: 2477229--2477262 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
2477219 TCATTCAGCA
2477229 CACATGGGATCAACTT
1 CACATGGGATCAACTT
*
2477245 CACATGTGATCAACTT
1 CACATGGGATCAACTT
2477261 CA
1 CA
2477263 TTCCCAATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.26
Consensus pattern (16 bp):
CACATGGGATCAACTT
Found at i:2478816 original size:35 final size:35
Alignment explanation
Indices: 2478767--2478875 Score: 118
Period size: 35 Copynumber: 3.2 Consensus size: 35
2478757 TCCCATTATC
* *
2478767 ATTTTT-AACAAACATCTACCAAACTTT-AAAACT
1 ATTTTTAAAAAAACATTTACCAAACTTTGAAAACT
* * *
2478800 ATTTTTCAAAGAAACATTTACAAAACTTTGAAAACC
1 ATTTTT-AAAAAAACATTTACCAAACTTTGAAAACT
*
2478836 A-TTTTAAAAAAATATTTACCAAACTTTGAAAA-T
1 ATTTTTAAAAAAACATTTACCAAACTTTGAAAACT
2478869 CATTTTT
1 -ATTTTT
2478876 TCGAAGTTGG
Statistics
Matches: 63, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
33 6 0.10
34 25 0.40
35 26 0.41
36 6 0.10
ACGTcount: A:0.46, C:0.16, G:0.03, T:0.36
Consensus pattern (35 bp):
ATTTTTAAAAAAACATTTACCAAACTTTGAAAACT
Found at i:2478860 original size:34 final size:35
Alignment explanation
Indices: 2478776--2478874 Score: 121
Period size: 34 Copynumber: 2.9 Consensus size: 35
2478766 CATTTTTAAC
* * *
2478776 AAACATCTACCAAACTTT-AAAACTATTTTTCAAAG
1 AAACATTTACCAAACTTTGAAAACCA-TTTTCAAAA
*
2478811 AAACATTTACAAAACTTTGAAAACCATTTT-AAAA
1 AAACATTTACCAAACTTTGAAAACCATTTTCAAAA
* *
2478845 AAATATTTACCAAACTTTGAAAATCATTTT
1 AAACATTTACCAAACTTTGAAAACCATTTT
2478875 TTCGAAGTTG
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
34 30 0.54
35 20 0.36
36 6 0.11
ACGTcount: A:0.47, C:0.16, G:0.03, T:0.33
Consensus pattern (35 bp):
AAACATTTACCAAACTTTGAAAACCATTTTCAAAA
Found at i:2483443 original size:37 final size:35
Alignment explanation
Indices: 2483384--2483497 Score: 158
Period size: 35 Copynumber: 3.2 Consensus size: 35
2483374 ATCCTATTAT
*
2483384 CATTTTTCAAAAAACATCTACCAAACTTTGAAATAC
1 CATTTTTCAAAAAACATTTACCAAACTTTGAAA-AC
*
2483420 TATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAA-AAACATTTACCAAACTTTGAAAAC
* *
2483456 CA-TTTTCAAAAAAATATTTACCAAACTTTGAAAAT
1 CATTTTTC-AAAAAACATTTACCAAACTTTGAAAAC
2483491 CATTTTT
1 CATTTTT
2483498 TCAATGTTGG
Statistics
Matches: 70, Mismatches: 5, Indels: 6
0.86 0.06 0.07
Matches are distributed among these distances:
35 29 0.41
36 20 0.29
37 21 0.30
ACGTcount: A:0.44, C:0.18, G:0.04, T:0.35
Consensus pattern (35 bp):
CATTTTTCAAAAAACATTTACCAAACTTTGAAAAC
Found at i:2483495 original size:21 final size:21
Alignment explanation
Indices: 2483435--2483495 Score: 55
Period size: 20 Copynumber: 3.2 Consensus size: 21
2483425 TTCAAAGAAA
*
2483435 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAT
*
2483456 CATTT-TCAAA-----AAAAT
1 CATTTACCAAACTTTGAAAAT
2483471 -ATTTACCAAACTTTGAAAAT
1 CATTTACCAAACTTTGAAAAT
2483491 CATTT
1 CATTT
2483496 TTTCAATGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 14
0.64 0.06 0.30
Matches are distributed among these distances:
14 4 0.13
15 8 0.27
20 9 0.30
21 9 0.30
ACGTcount: A:0.44, C:0.18, G:0.03, T:0.34
Consensus pattern (21 bp):
CATTTACCAAACTTTGAAAAT
Found at i:2502931 original size:66 final size:65
Alignment explanation
Indices: 2502769--2502928 Score: 171
Period size: 66 Copynumber: 2.4 Consensus size: 65
2502759 CCATTCAACA
* * *
2502769 GGTATCGATACCCTCTCAAACGAAAAGAATTATAGAATGTCATAAGGGTACCGATACCCCCCAGT
1 GGTATCGATACCCCCT-AAA-GAAAAAAATGATAGAATGTCATAAGGGTACCGATACCCCCCAGT
*
2502834 TG
64 GG
* * * * * *
2502836 GGTACCGATACCCTCCTGAACAGAAAAATGGTAGAATGTCGTAAGGGTACCGATA-CCCCCAG-G
1 GGTATCGATACCC-CCTAAAGAAAAAAATGATAGAATGTCATAAGGGTACCGATACCCCCCAGTG
2502899 G
65 G
2502900 GTGTATCGATACCCCCTAAAGGAAAAAAA
1 G-GTATCGATACCCCCTAAA-GAAAAAAA
2502929 ATGAATATTG
Statistics
Matches: 76, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
64 7 0.09
65 24 0.32
66 29 0.38
67 14 0.18
68 2 0.03
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.19
Consensus pattern (65 bp):
GGTATCGATACCCCCTAAAGAAAAAAATGATAGAATGTCATAAGGGTACCGATACCCCCCAGTGG
Found at i:2509438 original size:18 final size:17
Alignment explanation
Indices: 2509410--2509449 Score: 62
Period size: 18 Copynumber: 2.3 Consensus size: 17
2509400 TAATATAAAA
2509410 TTATATATAAACTATAT
1 TTATATATAAACTATAT
2509427 TTATATTATAAACTATAT
1 TTATA-TATAAACTATAT
*
2509445 ATATA
1 TTATA
2509450 AATTATATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (17 bp):
TTATATATAAACTATAT
Found at i:2509517 original size:20 final size:19
Alignment explanation
Indices: 2509487--2509538 Score: 72
Period size: 18 Copynumber: 2.8 Consensus size: 19
2509477 AAACTATGTA
*
2509487 TATAAACTATATTTA-TAT
1 TATAAACTATATATATTAT
2509505 TATAAACTATATA-ATTAT
1 TATAAACTATATATATTAT
*
2509523 TATAAGCTATATATAT
1 TATAAACTATATATAT
2509539 AAATTATGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
17 1 0.03
18 27 0.90
19 2 0.07
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (19 bp):
TATAAACTATATATATTAT
Found at i:2509524 original size:90 final size:89
Alignment explanation
Indices: 2509409--2509610 Score: 293
Period size: 90 Copynumber: 2.3 Consensus size: 89
2509399 ATAATATAAA
* *
2509409 ATTATATATAAACTATAT-TTATATTATAAACTATATATATAAATTATATTTATGTGCACTATAT
1 ATTATATATAAACTATATAATATATTATAAACTATATATATAAATTATATTTATGTGAACTATAT
*
2509473 ATATAAACTATGTATATAAACTAT
66 AAATAAACTATGTATATAAACTAT
* * *
2509497 ATTTATATTATAAACTATATAAT-TATTATAAGCTATATATATAAATTATGTTTATTTGAACTAT
1 A-TTATA-TATAAACTATATAATATATTATAAACTATATATATAAATTATATTTATGTGAACTAT
2509561 ATAAATAAACTATGTATATAAACTAT
64 ATAAATAAACTATGTATATAAACTAT
* *
2509587 A-TATGTATAAACTATATAAAATAT
1 ATTATATATAAACTATATAATATAT
2509611 ATAGTTTATA
Statistics
Matches: 102, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
87 14 0.14
88 7 0.07
89 5 0.05
90 75 0.74
91 1 0.01
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.44
Consensus pattern (89 bp):
ATTATATATAAACTATATAATATATTATAAACTATATATATAAATTATATTTATGTGAACTATAT
AAATAAACTATGTATATAAACTAT
Found at i:2509544 original size:20 final size:18
Alignment explanation
Indices: 2509487--2509545 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
2509477 AAACTATGTA
*
2509487 TATAAACTATAT-TTATAT
1 TATAAACTATATAATA-AT
*
2509505 TATAAACTATATAATTAT
1 TATAAACTATATAATAAT
*
2509523 TATAAGCTATATATATAAAT
1 TATAAACTATATA-AT-AAT
2509543 TAT
1 TAT
2509546 GTTTATTTGA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
18 26 0.76
19 3 0.09
20 5 0.15
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.46
Consensus pattern (18 bp):
TATAAACTATATAATAAT
Found at i:2509580 original size:17 final size:17
Alignment explanation
Indices: 2509558--2509595 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
2509548 TTATTTGAAC
2509558 TATATAAA-TAAACTATG
1 TATATAAACTAAA-TATG
*
2509575 TATATAAACTATATATG
1 TATATAAACTAAATATG
2509592 TATA
1 TATA
2509596 AACTATATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 16 0.84
18 3 0.16
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.39
Consensus pattern (17 bp):
TATATAAACTAAATATG
Found at i:2509589 original size:2 final size:2
Alignment explanation
Indices: 2509584--2509705 Score: 53
Period size: 2 Copynumber: 62.5 Consensus size: 2
2509574 GTATATAAAC
* * * * *
2509584 TA TA TA TG TA TA AA CTA TA TA -A AA TA TA TA GTT TA TA TG T- TA
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA TA TA
* * * *
2509626 TA -A TT TA TA TT TA TA TA GTA TA TA TA TG TA TG TA TA -A CTA -A
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA
*
2509667 TA TA -A GTA -A TA CA TA TA -A 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 TA TA T
2509706 TAAAGAAATA
Statistics
Matches: 89, Mismatches: 18, Indels: 26
0.67 0.14 0.20
Matches are distributed among these distances:
1 8 0.09
2 75 0.84
3 6 0.07
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (2 bp):
TA
Found at i:2509589 original size:28 final size:28
Alignment explanation
Indices: 2509468--2509601 Score: 105
Period size: 28 Copynumber: 4.6 Consensus size: 28
2509458 TTATGTGCAC
2509468 TATATATATAAACTATGTATATAAACTA
1 TATATATATAAACTATGTATATAAACTA
*
2509496 TATTTATATTATAAACTATATAATTATTATAAGC--
1 TA--TATA-TATAAACTATGT-A-TA-TA-AA-CTA
* * *
2509530 TATATATATAAATTATGTTTATTTGAACTA
1 TATATATATAAACTATG--TATATAAACTA
2509560 TATA-A-ATAAACTATGTATATAAACTA
1 TATATATATAAACTATGTATATAAACTA
*
2509586 TATATGTATAAACTAT
1 TATATATATAAACTAT
2509602 ATAAAATATA
Statistics
Matches: 83, Mismatches: 9, Indels: 28
0.69 0.08 0.23
Matches are distributed among these distances:
26 13 0.16
28 21 0.25
29 3 0.04
30 9 0.11
31 21 0.25
32 6 0.07
33 3 0.04
34 4 0.05
35 2 0.02
36 1 0.01
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.43
Consensus pattern (28 bp):
TATATATATAAACTATGTATATAAACTA
Found at i:2509604 original size:15 final size:13
Alignment explanation
Indices: 2509396--2509604 Score: 106
Period size: 13 Copynumber: 15.5 Consensus size: 13
2509386 ATATAATATA
*
2509396 TATATAATATAAAA
1 TATAT-ATATAAAC
2509410 T-TATATATAAAC
1 TATATATATAAAC
2509422 TATATTTATATTATAAAC
1 --TA--TATA-TATAAAC
*
2509440 TATATATATAAAT
1 TATATATATAAAC
* **
2509453 TATATTTATGTGCAC
1 TATA--TATATAAAC
2509468 TATATATATAAAC
1 TATATATATAAAC
*
2509481 TATGTATATAAAC
1 TATATATATAAAC
* *
2509494 TATAT-T-TATAT
1 TATATATATAAAC
*
2509505 TATAAACTATATAA-
1 TATATA-TATA-AAC
*
2509519 T-TAT-TATAAGC
1 TATATATATAAAC
*
2509530 TATATATATAAAT
1 TATATATATAAAC
* * *
2509543 TATGTTTATTTGAAC
1 TA--TATATATAAAC
*
2509558 TATATAAATAAAC
1 TATATATATAAAC
*
2509571 TATGTATATAAAC
1 TATATATATAAAC
2509584 TATATATGTATAAAC
1 TATATA--TATAAAC
2509599 TATATA
1 TATATA
2509605 AAATATATAG
Statistics
Matches: 146, Mismatches: 30, Indels: 37
0.69 0.14 0.17
Matches are distributed among these distances:
10 1 0.01
11 12 0.08
12 11 0.08
13 68 0.47
14 9 0.06
15 32 0.22
16 2 0.01
17 4 0.03
18 7 0.05
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.44
Consensus pattern (13 bp):
TATATATATAAAC
Found at i:2510074 original size:20 final size:20
Alignment explanation
Indices: 2510045--2510095 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
2510035 GTATTATATA
2510045 AAACCCTAAACCAAAACCCT
1 AAACCCTAAACCAAAACCCT
* *
2510065 AAACCTTAAACTAAAACCCT
1 AAACCCTAAACCAAAACCCT
*
2510085 AAACTCTAAAC
1 AAACCCTAAAC
2510096 TTTAGACTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.51, C:0.33, G:0.00, T:0.16
Consensus pattern (20 bp):
AAACCCTAAACCAAAACCCT
Found at i:2510088 original size:13 final size:13
Alignment explanation
Indices: 2510044--2510069 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2510034 TGTATTATAT
2510044 AAAACCCTAAACC
1 AAAACCCTAAACC
2510057 AAAACCCTAAACC
1 AAAACCCTAAACC
2510070 TTAAACTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.38, G:0.00, T:0.08
Consensus pattern (13 bp):
AAAACCCTAAACC
Found at i:2510226 original size:37 final size:37
Alignment explanation
Indices: 2510163--2510233 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 37
2510153 ATAGTTAATA
*
2510163 TATATAATGTAACCTATGATATATGTATACATGTAAAC
1 TATATAATGTAACCTATGATACATGTAT-CATGTAAAC
*
2510201 TATA-AATGTAACTTAT-AGTACATGTATCATGTA
1 TATATAATGTAACCTATGA-TACATGTATCATGTA
2510234 TGTATAAACT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
36 7 0.23
37 19 0.63
38 4 0.13
ACGTcount: A:0.41, C:0.10, G:0.11, T:0.38
Consensus pattern (37 bp):
TATATAATGTAACCTATGATACATGTATCATGTAAAC
Found at i:2510261 original size:20 final size:19
Alignment explanation
Indices: 2510222--2510298 Score: 84
Period size: 20 Copynumber: 3.8 Consensus size: 19
2510212 CTTATAGTAC
2510222 ATGTATCATGTATGTATAAACT
1 ATGTAT-ATGTA--TATAAACT
2510244 ATGTATAGTGTATATAAACT
1 ATGTATA-TGTATATAAACT
*
2510264 ATGTATATATATA-AAACCT
1 ATGTATATGTATATAAA-CT
2510283 ATAGTATATGTATATA
1 AT-GTATATGTATATA
2510299 TACAATCTAT
Statistics
Matches: 49, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
18 3 0.06
19 9 0.18
20 25 0.51
21 2 0.04
22 10 0.20
ACGTcount: A:0.42, C:0.06, G:0.12, T:0.40
Consensus pattern (19 bp):
ATGTATATGTATATAAACT
Found at i:2510296 original size:24 final size:23
Alignment explanation
Indices: 2510269--2510324 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
2510259 AAACTATGTA
2510269 TATATATAAAACCTATAGTATATG
1 TATATATAAAACCTAT-GTATATG
* * *
2510293 TATATATACAATCTATTTATATG
1 TATATATAAAACCTATGTATATG
2510316 T-TATATAAA
1 TATATATAAA
2510325 TTATATATGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 7 0.25
23 7 0.25
24 14 0.50
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (23 bp):
TATATATAAAACCTATGTATATG
Found at i:2510427 original size:21 final size:21
Alignment explanation
Indices: 2510375--2510427 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
2510365 TAGTGTACTA
* *
2510375 TATAGTTTATACTTTATAACC
1 TATAGTTTATAATTTATAAAC
* * *
2510396 AATGGTATATAATTTATAAAC
1 TATAGTTTATAATTTATAAAC
2510417 TATAGTTTATA
1 TATAGTTTATA
2510428 TTAATGTACT
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.45
Consensus pattern (21 bp):
TATAGTTTATAATTTATAAAC
Found at i:2510505 original size:6 final size:6
Alignment explanation
Indices: 2510494--2510636 Score: 50
Period size: 6 Copynumber: 23.3 Consensus size: 6
2510484 CATATAATTT
* * * *
2510494 ATATTA ATATTA ATATTA ATGTTA TAGACT- ATATTTT ATATTA ATATTA
1 ATATTA ATATTA ATATTA ATATTA -ATATTA ATA-TTA ATATTA ATATTA
* * *
2510543 AT-TATA A-ATTA TAAACT- ATATTA TATTTTA ATATT- A-ATT- ATATTA
1 ATAT-TA ATATTA -ATATTA ATATTA -ATATTA ATATTA ATATTA ATATTA
* *
2510588 ATTTTA AT-TATA ATATTA ATTATTATA ATATTA ATTATAA ATAGTTA
1 ATATTA ATAT-TA ATATTA A-TA-T-TA ATATTA A-TATTA ATA-TTA
2510635 AT
1 AT
2510637 TAATAAAAAT
Statistics
Matches: 104, Mismatches: 15, Indels: 35
0.68 0.10 0.23
Matches are distributed among these distances:
4 4 0.04
5 13 0.12
6 56 0.54
7 25 0.24
8 3 0.03
9 3 0.03
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.51
Consensus pattern (6 bp):
ATATTA
Found at i:2510594 original size:15 final size:15
Alignment explanation
Indices: 2510529--2510638 Score: 79
Period size: 15 Copynumber: 7.2 Consensus size: 15
2510519 AGACTATATT
2510529 TTATATTAATATTAA
1 TTATATTAATATTAA
* *
2510544 TTATAAATTATAAACTATA
1 TTAT--ATTA-ATATTA-A
2510563 TTATATTTTAATATTAA
1 TTATA--TTAATATTAA
*
2510580 TTATATTAATTTTAA
1 TTATATTAATATTAA
2510595 -T-TA-TAATATTAA
1 TTATATTAATATTAA
2510607 TTAT-TATAATATTAA
1 TTATAT-TAATATTAA
2510622 TTATA--AATAGTTAA
1 TTATATTAATA-TTAA
2510636 TTA
1 TTA
2510639 ATAAAAATTA
Statistics
Matches: 77, Mismatches: 6, Indels: 25
0.71 0.06 0.23
Matches are distributed among these distances:
12 8 0.10
13 7 0.09
14 9 0.12
15 26 0.34
17 11 0.14
18 8 0.10
19 8 0.10
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (15 bp):
TTATATTAATATTAA
Found at i:2510604 original size:27 final size:27
Alignment explanation
Indices: 2510486--2510638 Score: 113
Period size: 27 Copynumber: 5.5 Consensus size: 27
2510476 ATTTATAACA
2510486 TATAAT-TTATATTAATATTAATATTAATGT
1 TATAATATTA-ATT-ATATTAATATTAA--T
*
2510516 TATAGACTA-TATTTTATATTAATATTAAT
1 TATA-A-TATTA-ATTATATTAATATTAAT
* *
2510545 TATAA-ATT-A-TAAACT-ATATTATAT
1 TATAATATTAATTATATTAATATTA-AT
* *
2510569 TTTAATATTAATTATATTAATTTTAAT
1 TATAATATTAATTATATTAATATTAAT
2510596 TATAATATTAATTAT-TATAATATTAAT
1 TATAATATTAATTATAT-TAATATTAAT
2510623 TATAAATAGTTAATTA
1 TAT-AATA-TTAATTA
2510639 ATAAAAATTA
Statistics
Matches: 101, Mismatches: 10, Indels: 25
0.74 0.07 0.18
Matches are distributed among these distances:
23 6 0.06
24 10 0.10
25 3 0.03
26 3 0.03
27 33 0.33
28 10 0.10
29 12 0.12
30 4 0.04
31 14 0.14
32 6 0.06
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.52
Consensus pattern (27 bp):
TATAATATTAATTATATTAATATTAAT
Found at i:2510642 original size:15 final size:13
Alignment explanation
Indices: 2510572--2510648 Score: 75
Period size: 15 Copynumber: 5.5 Consensus size: 13
2510562 ATTATATTTT
2510572 AATATTAATTATA
1 AATATTAATTATA
*
2510585 TTAATTTTAATTAT-
1 --AATATTAATTATA
2510599 AATATTAATTATTA
1 AATATTAATTA-TA
2510613 TAATATTAATTATA
1 -AATATTAATTATA
2510627 AATAGTTAATTAATA
1 AATA-TTAATT-ATA
*
2510642 AAAATTA
1 AATATTA
2510649 TATAGAGATG
Statistics
Matches: 54, Mismatches: 3, Indels: 11
0.79 0.04 0.16
Matches are distributed among these distances:
12 10 0.19
13 5 0.09
14 11 0.20
15 28 0.52
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (13 bp):
AATATTAATTATA
Found at i:2511506 original size:40 final size:40
Alignment explanation
Indices: 2511461--2511556 Score: 156
Period size: 40 Copynumber: 2.4 Consensus size: 40
2511451 TGTATGAATT
* *
2511461 TGATATAATTTGTATACATGTATGTTTGTGTACCTATGTA
1 TGATATAATTTGTATACATGTATGTGTGTGTACCTATGCA
2511501 TGATATAATTTGTATACATGTATGTGTGTGTACCTATGCA
1 TGATATAATTTGTATACATGTATGTGTGTGTACCTATGCA
* *
2511541 TAATATAATTTATATA
1 TGATATAATTTGTATA
2511557 TAATGGAGAT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.31, C:0.07, G:0.16, T:0.46
Consensus pattern (40 bp):
TGATATAATTTGTATACATGTATGTGTGTGTACCTATGCA
Found at i:2511521 original size:22 final size:22
Alignment explanation
Indices: 2511461--2511524 Score: 66
Period size: 22 Copynumber: 3.1 Consensus size: 22
2511451 TGTATGAATT
2511461 TGATATAATTTGTATACATGTA
1 TGATATAATTTGTATACATGTA
* *
2511483 TG-T-T--TGTGTA-CCTATGTA
1 TGATATAATTTGTATAC-ATGTA
2511501 TGATATAATTTGTATACATGTA
1 TGATATAATTTGTATACATGTA
2511523 TG
1 TG
2511525 TGTGTGTACC
Statistics
Matches: 32, Mismatches: 4, Indels: 12
0.67 0.08 0.25
Matches are distributed among these distances:
17 1 0.03
18 12 0.38
19 1 0.03
20 2 0.06
21 1 0.03
22 14 0.44
23 1 0.03
ACGTcount: A:0.30, C:0.06, G:0.17, T:0.47
Consensus pattern (22 bp):
TGATATAATTTGTATACATGTA
Found at i:2513630 original size:23 final size:22
Alignment explanation
Indices: 2513587--2513630 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
2513577 CGTTTAATAC
* *
2513587 TAATATTCATTTATTATCAAAT
1 TAATAATCATTTATTACCAAAT
*
2513609 TAATAATCATTTTATTGCCAAA
1 TAATAATCA-TTTATTACCAAA
2513631 ATTATTTATG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.41, C:0.11, G:0.02, T:0.45
Consensus pattern (22 bp):
TAATAATCATTTATTACCAAAT
Found at i:2513718 original size:20 final size:20
Alignment explanation
Indices: 2513702--2513742 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
2513692 AATATTATTT
2513702 TTTCTTTATATAAATTAAAC
1 TTTCTTTATATAAATTAAAC
2513722 TTTCTTTATATAAATTAAAC
1 TTTCTTTATATAAATTAAAC
2513742 T
1 T
2513743 ATATAATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTCTTTATATAAATTAAAC
Found at i:2513756 original size:23 final size:23
Alignment explanation
Indices: 2513706--2513775 Score: 83
Period size: 23 Copynumber: 3.1 Consensus size: 23
2513696 TTATTTTTTC
*
2513706 TTTATATAAATTAAACT-T-T-C
1 TTTATATAAATTAAACTATATAA
2513726 TTTATATAAATTAAACTATATAA
1 TTTATATAAATTAAACTATATAA
* *
2513749 TTTATATATATCAAACTATATTAA
1 TTTATATAAATTAAACTATA-TAA
2513773 TTT
1 TTT
2513776 TCTTTTGCAT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
20 17 0.40
21 1 0.02
22 1 0.02
23 18 0.42
24 6 0.14
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (23 bp):
TTTATATAAATTAAACTATATAA
Found at i:2513968 original size:19 final size:19
Alignment explanation
Indices: 2513944--2513980 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
2513934 CATCATAAGC
2513944 TTAAAAACTCATAATTTTA
1 TTAAAAACTCATAATTTTA
* *
2513963 TTAAAATCTTATAATTTT
1 TTAAAAACTCATAATTTT
2513981 GTCCATGGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49
Consensus pattern (19 bp):
TTAAAAACTCATAATTTTA
Found at i:2514064 original size:16 final size:16
Alignment explanation
Indices: 2514043--2514113 Score: 115
Period size: 16 Copynumber: 4.4 Consensus size: 16
2514033 CGGATCATTT
*
2514043 ACAGGTCAAGTTAAAA
1 ACAGGTCAGGTTAAAA
2514059 ACAGGTCAGGTTAAAA
1 ACAGGTCAGGTTAAAA
2514075 ACAGGTCAGGTTAAAA
1 ACAGGTCAGGTTAAAA
* *
2514091 ACAGATCAGGTTGAAA
1 ACAGGTCAGGTTAAAA
2514107 ACAGGTC
1 ACAGGTC
2514114 GGGTAATACC
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 51 1.00
ACGTcount: A:0.44, C:0.14, G:0.24, T:0.18
Consensus pattern (16 bp):
ACAGGTCAGGTTAAAA
Found at i:2514971 original size:27 final size:28
Alignment explanation
Indices: 2514926--2514981 Score: 96
Period size: 27 Copynumber: 2.0 Consensus size: 28
2514916 TAACTTAAAC
*
2514926 TCAACCTTAAAGAAAATTATAGTTTTTT
1 TCAACCTTAAAGAAAATTATAGTGTTTT
2514954 TCAACCTT-AAGAAAATTATAGTGTTTT
1 TCAACCTTAAAGAAAATTATAGTGTTTT
2514981 T
1 T
2514982 AAACAGACTC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
27 19 0.70
28 8 0.30
ACGTcount: A:0.38, C:0.11, G:0.09, T:0.43
Consensus pattern (28 bp):
TCAACCTTAAAGAAAATTATAGTGTTTT
Found at i:2519190 original size:15 final size:15
Alignment explanation
Indices: 2519170--2519201 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
2519160 ACTACTTGTA
2519170 CTCAATTGTATTATT
1 CTCAATTGTATTATT
2519185 CTCAATTGTATTATT
1 CTCAATTGTATTATT
2519200 CT
1 CT
2519202 TGAGTGTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.25, C:0.16, G:0.06, T:0.53
Consensus pattern (15 bp):
CTCAATTGTATTATT
Found at i:2523148 original size:2 final size:2
Alignment explanation
Indices: 2523141--2523191 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
2523131 TGAACACTGC
2523141 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2523183 AT AT AT AT A
1 AT AT AT AT A
2523192 AAACGTTCAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2523539 original size:2 final size:2
Alignment explanation
Indices: 2523534--2523564 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2523524 ATTTTATACT
2523534 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 T
2523565 TAGTTTACAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2523622 original size:38 final size:37
Alignment explanation
Indices: 2523580--2523828 Score: 159
Period size: 38 Copynumber: 6.9 Consensus size: 37
2523570 TACAAACGGT
2523580 TTTTGAAAATGTATATAATATATAGTTTTTTAAAACAC
1 TTTTGAAAAT-TATATAATATATAGTTTTTTAAAACAC
* * * ** *
2523618 TTTTGAGAACTATAAAATATATAG-TTTAGAAAATA-
1 TTTTGAAAATTATATAATATATAGTTTTTTAAAACAC
*
2523653 -TTT----A-TATAT--TATATAGTTTTTTAAAA-ATTA
1 TTTTGAAAATTATATAATATATAGTTTTTTAAAACA--C
* *
2523683 TTTTGAAAA-TATATAATATATAATTTTTTAAAACAT
1 TTTTGAAAATTATATAATATATAGTTTTTTAAAACAC
* * ***
2523719 TTTTAAAAATATATATATTATATAGTTTTTTAAAATGT
1 TTTTGAAAAT-TATATAATATATAGTTTTTTAAAACAC
*
2523757 TTTTGAAAA-TACGTATAATATATAG-TTTTTAAAAAAC
1 TTTTGAAAATTA--TATAATATATAGTTTTTTAAAACAC
* * *
2523794 ATTTTGGAAATTTATATATTATAT-GTTTTTGAAAA
1 -TTTT-GAAAATTATATAATATATAGTTTTTTAAAA
2523829 TATGTTTATA
Statistics
Matches: 167, Mismatches: 24, Indels: 40
0.72 0.10 0.17
Matches are distributed among these distances:
27 8 0.05
28 7 0.04
29 4 0.02
30 1 0.01
31 3 0.02
34 3 0.02
35 6 0.04
36 18 0.11
37 39 0.23
38 72 0.43
39 4 0.02
40 2 0.01
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.47
Consensus pattern (37 bp):
TTTTGAAAATTATATAATATATAGTTTTTTAAAACAC
Found at i:2523860 original size:3 final size:3
Alignment explanation
Indices: 2523852--2523888 Score: 58
Period size: 3 Copynumber: 12.3 Consensus size: 3
2523842 ATATATAGTA
2523852 TAT TAT TAT TAT TAT TAT TAT TAT CT-T TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT T
2523889 TATTTTGATT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 1 0.03
3 30 0.94
4 1 0.03
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:2525114 original size:16 final size:18
Alignment explanation
Indices: 2525090--2525130 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
2525080 TTTATTTTTT
2525090 TATTATTTAT-TTA-ATAC
1 TATT-TTTATGTTATATAC
2525107 TATTTTTATGTTATATAC
1 TATTTTTATGTTATATAC
2525125 -ATTTTT
1 TATTTTT
2525131 TATTATTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 5 0.23
17 13 0.59
18 4 0.18
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.63
Consensus pattern (18 bp):
TATTTTTATGTTATATAC
Found at i:2525310 original size:33 final size:31
Alignment explanation
Indices: 2525260--2525339 Score: 83
Period size: 33 Copynumber: 2.5 Consensus size: 31
2525250 ATTCTTATTC
* *
2525260 TTATTT-TTATTTCATTTTTCCCTTATAT-TAT
1 TTATTTATTTTTTTATTTTTCCCTTAT-TGT-T
*
2525291 TTATATTATTTTTTTATTTTTCTCTTATTGTT
1 TTAT-TTATTTTTTTATTTTTCCCTTATTGTT
2525323 TTATTTATTATTTTTAT
1 TTATTTATT-TTTTTAT
2525340 ATTTAGCATT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
31 9 0.21
32 15 0.36
33 18 0.43
ACGTcount: A:0.19, C:0.07, G:0.01, T:0.72
Consensus pattern (31 bp):
TTATTTATTTTTTTATTTTTCCCTTATTGTT
Found at i:2528332 original size:29 final size:31
Alignment explanation
Indices: 2528296--2528355 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
2528286 CAATTTTGAA
*
2528296 TAAATTCAATT-AAGTCCAAATA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
2528325 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
2528356 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 10 0.36
31 7 0.25
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.35
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:2530598 original size:194 final size:194
Alignment explanation
Indices: 2530303--2530746 Score: 748
Period size: 194 Copynumber: 2.3 Consensus size: 194
2530293 CATATACACA
* * *
2530303 AGATTCGATTTCAACTTCACGATGAAGGATATCTAATTCAAAGCTTAACTTCACGGCGAAAGATA
1 AGATTGGATTTCAACTTCACGACGAAGGATATCTAATTCAAAGCTCAACTTCACGGCGAAAGATA
*
2530368 TTAGACTCGAAACAATACAAGCTTGGATTTCAACTTCATGACGAAGGATATTCAAGTCAAGGCTC
66 TTAGACTCGAAACAATACAAGCTTGGATTGCAACTTCATGACGAAGGATATTCAAGTCAAGGCTC
* *
2530433 AACTTCACAACGAAGGGGCCATCCATGATTTCAACTTCACAACGAAGGATATCGT-TCCAACTCT
131 AACTTCACAACGAAGGGGCCATCCATGATTTCAACTTCACAACGAAAGATATCGTAT-AAACTCT
* *
2530497 AGATTGGATTTCAACTTCACGACGAAGGATATCCAATTTAAAGCTCAACTTCACGGC-AAAGGAT
1 AGATTGGATTTCAACTTCACGACGAAGGATATCTAATTCAAAGCTCAACTTCACGGCGAAA-GAT
*
2530561 ATTGGACTCGAAACAATACAAGCTTGGATTGCAACTTCATGACGAAGGATATTCAAGTCAAGGCT
65 ATTAGACTCGAAACAATACAAGCTTGGATTGCAACTTCATGACGAAGGATATTCAAGTCAAGGCT
*
2530626 CAACTTCACAACGAAGGGGCCATCCATGATTTCAACTTCACGACGAAAGATATCGTATAAACTCT
130 CAACTTCACAACGAAGGGGCCATCCATGATTTCAACTTCACAACGAAAGATATCGTATAAACTCT
* *
2530691 AGATTGGATTTCAACTTCATGACAAAGGATATCTAATTCAAAGCTCAACTTCACGG
1 AGATTGGATTTCAACTTCACGACGAAGGATATCTAATTCAAAGCTCAACTTCACGG
2530747 AGAAGGGGCT
Statistics
Matches: 234, Mismatches: 14, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
193 3 0.01
194 230 0.98
195 1 0.00
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (194 bp):
AGATTGGATTTCAACTTCACGACGAAGGATATCTAATTCAAAGCTCAACTTCACGGCGAAAGATA
TTAGACTCGAAACAATACAAGCTTGGATTGCAACTTCATGACGAAGGATATTCAAGTCAAGGCTC
AACTTCACAACGAAGGGGCCATCCATGATTTCAACTTCACAACGAAAGATATCGTATAAACTCT
Found at i:2531068 original size:123 final size:125
Alignment explanation
Indices: 2530814--2531173 Score: 546
Period size: 123 Copynumber: 2.9 Consensus size: 125
2530804 GGACCTGAAG
* * * * * *
2530814 CAACATTTATCTTTTGATTGGATTTCAACTTTACGACGAAGGATATCTAATTCAAGGCTCAACTT
1 CAACATTCATCTTTAGATTGGATTTCAACTTCACGATGAAGGATATCCAATTCAAGGATCAACTT
* *
2530879 CACAACGAATGGGTCATCCACGGTTTCAACTTCACGACGAAGGGAATCGTGCTCACCAGA
66 CACAACGAATGGGCCATCCACGGTTTCAACTTCACGACGAAAGGAATCGTGCTCACCAGA
*
2530939 -AACATTCATATTTAGATTGGATTTCAACTTCACGATGAAGGATATCCAATTCAAGGATCAACTT
1 CAACATTCATCTTTAGATTGGATTTCAACTTCACGATGAAGGATATCCAATTCAAGGATCAACTT
* *
2531003 CGCAACGAA-GGGCCATCCACGGTTTCAACTTCACGACGAATGGAATCGTGCTCACCA-A
66 CACAACGAATGGGCCATCCACGGTTTCAACTTCACGACGAAAGGAATCGTGCTCACCAGA
* *
2531061 CAACATTCATCTTTAGATTGGATTTCAACTTCACGATGAAGGATATTCAATTCAAGGTTCAACTT
1 CAACATTCATCTTTAGATTGGATTTCAACTTCACGATGAAGGATATCCAATTCAAGGATCAACTT
* * * *
2531126 CACAACGAATGGGCCATCCATGTTTTCAATTTCACGATGAAAGGAATC
66 CACAACGAATGGGCCATCCACGGTTTCAACTTCACGACGAAAGGAATC
2531174 ATGCCCACAA
Statistics
Matches: 214, Mismatches: 19, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
122 1 0.00
123 115 0.54
124 98 0.46
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (125 bp):
CAACATTCATCTTTAGATTGGATTTCAACTTCACGATGAAGGATATCCAATTCAAGGATCAACTT
CACAACGAATGGGCCATCCACGGTTTCAACTTCACGACGAAAGGAATCGTGCTCACCAGA
Found at i:2531522 original size:164 final size:163
Alignment explanation
Indices: 2531234--2531971 Score: 521
Period size: 169 Copynumber: 4.4 Consensus size: 163
2531224 TTTCGTGTTT
* *
2531234 ATTTGTAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAAACCTTTGAGTTCGACTATG
1 ATTTGTAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGAA-CTTTGAGTTCGACTACG
* * * *
2531299 CTCAGCTCAATGGCATAACATTTGCAGCATAACTTAAGGCGAGAAGGGTTATATGCCAAAGACCC
65 CTCAGCTCAACGACACAACATTTGCAGCATAACTTAAGGCGAGAAGGGCTATATGCCAAAGACCC
* ** *
2531364 TCGAGTTTGACTACACTCAACTTTGAGGGCACATC
130 TCGAGTTCGACTACACTCAAC-TCAAGGACACATC
*
2531399 ATTTGTAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAGAACTTTGAGTTCGACTACGC
1 ATTTGTAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGAACTTTGAGTTCGACTACGC
* * * * * *
2531464 TCAGCTCAACGACACATCATTTGTAGCATAGCTTAAGGTGAGAAGGGCTATTTGCCAAAGACCTT
66 TCAGCTCAACGACACAACATTTGCAGCATAACTTAAGGCGAGAAGGGCTATATGCCAAAGACCCT
* * * *
2531529 TGAGTTCGACTACGCTCAGCTCAATGACACATC
131 CGAGTTCGACTACACTCAACTCAAGGACACATC
* * * * * * * * * *
2531562 ATTTGTAACATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCCTTGAGTTCGATTACA
1 ATTTGTAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAA-CAAAGAACTTTGAGTTCGACTACG
* * * * * * * * * * * * *
2531627 CTCAGTGTCGAGGGCACATCATTTGTAACAAAACTCAAGGCTAGAAGGGTTATCTACCAACAAAA
65 CTCAG-CTCAACGACACAACATTTGCAGCATAACTTAAGGCGAGAAGGGCTATAT-GC--C-AAA
* * * * * * *
2531692 GACCTTTGAGTTTGACTACGCTCAGCTCAACGACACCTC
125 GACCCTCGAGTTCGACTACACTCAACTCAAGGACACATC
* * * * * * * ** * *
2531731 ATTTGCAGTATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCCTCAAGTTCGATTACA
1 ATTTGTAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAA-CAAAGAACTTTGAGTTCGACTACG
* * * * * * *
2531796 CTCAGCTTCGAGGGCACACCATTTGCAGCATAACTCAAGGCTAG-AGGGTTATCTAT-CAACAAA
65 CTCAGC-TCAACGACACAACATTTGCAGCATAACTTAAGGCGAGAAGGGCTA--TATGC--CAAA
* ** * * **
2531859 TACATTTGAGTTCGACTACGCTCAGTTCCAAGG-CACATC
125 GACCCTCGAGTTCGACTACACTCAACT-CAAGGACACATC
* * * * * * * * *
2531898 ATTTGTAGCATAGCTTAAGTCGAGAAGGGCTATCTGCTAACCAATG-ACATTCGAGTTCGATTAC
1 ATTTGTAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAA-CAAAGAAC-TTTGAGTTCGACTAC
*
2531962 ACTCAGCTCA
64 GCTCAGCTCA
2531972 GAGACAAAAT
Statistics
Matches: 485, Mismatches: 77, Indels: 21
0.83 0.13 0.04
Matches are distributed among these distances:
163 42 0.09
164 113 0.23
165 82 0.17
166 4 0.01
167 91 0.19
168 16 0.03
169 135 0.28
170 2 0.00
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (163 bp):
ATTTGTAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGAACTTTGAGTTCGACTACGC
TCAGCTCAACGACACAACATTTGCAGCATAACTTAAGGCGAGAAGGGCTATATGCCAAAGACCCT
CGAGTTCGACTACACTCAACTCAAGGACACATC
Found at i:2531711 original size:169 final size:166
Alignment explanation
Indices: 2531519--2531969 Score: 636
Period size: 169 Copynumber: 2.7 Consensus size: 166
2531509 GGCTATTTGC
*
2531519 CAAAGACCTTTGAGTTCGACTACGCTCAGCTCAATGACACATCATTTGTAACATAGCTTAAGTCG
1 CAAAGACCTTTGAGTTCGACTACGCTCAGCTCAA-GACACATCATTTGTAGCATAGCTTAAGTCG
*
2531584 AGAAGGGCTATCTGCCAACCAAAGACCCTTGAGTTCGATTACACTCAG-TGTCGAGGGCACATCA
65 AGAAGGGCTATCTGCCAACCAAAGACCCTTGAGTTCGATTACACTCAGCT-TCGAGGGCACACCA
*
2531648 TTTGTAACAAAACTCAAGGCTAGAAGGGTTATCTACCAA
129 TTTGCAACAAAACTCAAGGCTAG-AGGGTTATCTACCAA
* * * * *
2531687 CAAAAGACCTTTGAGTTTGACTACGCTCAGCTCAACGACACCTCATTTGCAGTATAACTTAAGTC
1 C-AAAGACCTTTGAGTTCGACTACGCTCAGCTCAA-GACACATCATTTGTAGCATAGCTTAAGTC
* **
2531752 GAGAAGGGTTATCTGCCAACCAAAGACCCTCAAGTTCGATTACACTCAGCTTCGAGGGCACACCA
64 GAGAAGGGCTATCTGCCAACCAAAGACCCTTGAGTTCGATTACACTCAGCTTCGAGGGCACACCA
* * *
2531817 TTTGCAGCATAACTCAAGGCTAGAGGGTTATCTATCAA
129 TTTGCAACAAAACTCAAGGCTAGAGGGTTATCTACCAA
* * * *
2531855 CAAATACATTTGAGTTCGACTACGCTCAGTTCCAAGGCACATCATTTGTAGCATAGCTTAAGTCG
1 CAAAGACCTTTGAGTTCGACTACGCTCAGCT-CAAGACACATCATTTGTAGCATAGCTTAAGTCG
* * *
2531920 AGAAGGGCTATCTGCTAACCAATGA-CATTCGAGTTCGATTACACTCAGCT
65 AGAAGGGCTATCTGCCAACCAAAGACCCTT-GAGTTCGATTACACTCAGCT
2531970 CAGAGACAAA
Statistics
Matches: 249, Mismatches: 30, Indels: 9
0.86 0.10 0.03
Matches are distributed among these distances:
166 2 0.01
167 92 0.37
168 19 0.08
169 135 0.54
170 1 0.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.25
Consensus pattern (166 bp):
CAAAGACCTTTGAGTTCGACTACGCTCAGCTCAAGACACATCATTTGTAGCATAGCTTAAGTCGA
GAAGGGCTATCTGCCAACCAAAGACCCTTGAGTTCGATTACACTCAGCTTCGAGGGCACACCATT
TGCAACAAAACTCAAGGCTAGAGGGTTATCTACCAA
Found at i:2531771 original size:84 final size:83
Alignment explanation
Indices: 2531234--2531971 Score: 682
Period size: 84 Copynumber: 8.9 Consensus size: 83
2531224 TTTCGTGTTT
* * * *
2531234 ATTTGTAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAAACCTTTGAGTTCGACTATG
1 ATTTGTAGCATAACTTAAGGCGAGAAGGGTTATCTGCCAAC-AAAGACCTTTGAGTTCGACTACG
* * *
2531299 CTCAGCTCAATGGCATAAC
65 CTCAGCTCAAGGGCACATC
* * * * * *
2531318 ATTTGCAGCATAACTTAAGGCGAGAAGGGTTATATG-C--CAAAGACCCTCGAGTTTGACTACAC
1 ATTTGTAGCATAACTTAAGGCGAGAAGGGTTATCTGCCAACAAAGACCTTTGAGTTCGACTACGC
* **
2531380 TCAACTTTGAGGGCACATC
66 TCAGC-TCAAGGGCACATC
* * * *
2531399 ATTTGTAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAGAACTTTGAGTTCGACTACGC
1 ATTTGTAGCATAACTTAAGGCGAGAAGGGTTATCTGCCAACAAAGACCTTTGAGTTCGACTACGC
* *
2531464 TCAGCTCAACGACACATC
66 TCAGCTCAAGGGCACATC
* * * *
2531482 ATTTGTAGCATAGCTTAAGGTGAGAAGGGCTATTTG-C--CAAAGACCTTTGAGTTCGACTACGC
1 ATTTGTAGCATAACTTAAGGCGAGAAGGGTTATCTGCCAACAAAGACCTTTGAGTTCGACTACGC
* *
2531544 TCAGCTCAATGACACATC
66 TCAGCTCAAGGGCACATC
* * * * * * *
2531562 ATTTGTAACATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCCTTGAGTTCGATTACA
1 ATTTGTAGCATAACTTAAGGCGAGAAGGGTTATCTGCCAA-CAAAGACCTTTGAGTTCGACTACG
* *
2531627 CTCAGTGTCGAGGGCACATC
65 CTCAG-CTCAAGGGCACATC
* * * * * *
2531647 ATTTGTAACAAAACTCAAGGCTAGAAGGGTTATCTACCAACAAAAGACCTTTGAGTTTGACTACG
1 ATTTGTAGCATAACTTAAGGCGAGAAGGGTTATCTGCCAAC-AAAGACCTTTGAGTTCGACTACG
* * *
2531712 CTCAGCTCAACGACACCTC
65 CTCAGCTCAAGGGCACATC
* * * * ** * *
2531731 ATTTGCAGTATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCCTCAAGTTCGATTACA
1 ATTTGTAGCATAACTTAAGGCGAGAAGGGTTATCTGCCAA-CAAAGACCTTTGAGTTCGACTACG
* *
2531796 CTCAGCTTCGAGGGCACACC
65 CTCAGC-TCAAGGGCACATC
* * * ** * *
2531816 ATTTGCAGCATAACTCAAGGCTAG-AGGGTTATCTATCAACAAATACATTTGAGTTCGACTACGC
1 ATTTGTAGCATAACTTAAGGCGAGAAGGGTTATCTGCCAACAAAGACCTTTGAGTTCGACTACGC
*
2531880 TCAGTTCCAA-GGCACATC
66 TCAGCT-CAAGGGCACATC
* * * * * * * * *
2531898 ATTTGTAGCATAGCTTAAGTCGAGAAGGGCTATCTGCTAACCAATGACATTCGAGTTCGATTACA
1 ATTTGTAGCATAACTTAAGGCGAGAAGGGTTATCTGCCAA-CAAAGACCTTTGAGTTCGACTACG
2531963 CTCAGCTCA
65 CTCAGCTCA
2531972 GAGACAAAAT
Statistics
Matches: 524, Mismatches: 115, Indels: 31
0.78 0.17 0.05
Matches are distributed among these distances:
80 95 0.18
81 42 0.08
82 29 0.06
83 77 0.15
84 185 0.35
85 96 0.18
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (83 bp):
ATTTGTAGCATAACTTAAGGCGAGAAGGGTTATCTGCCAACAAAGACCTTTGAGTTCGACTACGC
TCAGCTCAAGGGCACATC
Found at i:2532649 original size:36 final size:34
Alignment explanation
Indices: 2532591--2532889 Score: 239
Period size: 37 Copynumber: 8.6 Consensus size: 34
2532581 TGCAAACGGT
2532591 TTTTGAAAATGTATATAATATATAGTTTTTAAAACA
1 TTTTGAAAA--TATATAATATATAGTTTTTAAAACA
*
2532627 CTTTTGAAAACTATATAATATATAGTTTTTAAAATA
1 -TTTTGAAAA-TATATAATATATAGTTTTTAAAACA
2532663 TTTTAGAAAATATATATAATATATAGTTTTTAAAATCA
1 TTTT-G-AAA-ATATATAATATATAGTTTTTAAAA-CA
*
2532701 TTTTGAAAACTTATATAATATATAGTTTTGAAAACA
1 TTTTGAAAA--TATATAATATATAGTTTTTAAAACA
*
2532737 TTTTTGAAAAT-T-T-ATATA-AGTTTTGAAAACA
1 -TTTTGAAAATATATAATATATAGTTTTTAAAACA
* *
2532768 -TTT----ATATATTATATA-ATTTTTTAAAACAA
1 TTTTGAAAATATATAATATATAGTTTTTAAAAC-A
2532797 TTTTGAAAATACGTATAATATATAGTTTTTAAAAAACA
1 TTTTGAAAATA--TATAATATATAGTTTTT--AAAACA
* * * *
2532835 TTTTGGAATTTTAT-ATATTATATGTTTTTGAAAATA
1 TTTTGAAAATATATAATA-TATA-GTTTTT-AAAACA
*
2532871 TTTT---TATATATAATATATA
1 TTTTGAAAATATATAATATATA
2532890 TTATTATTAT
Statistics
Matches: 222, Mismatches: 16, Indels: 52
0.77 0.06 0.18
Matches are distributed among these distances:
25 2 0.01
26 1 0.00
27 1 0.00
28 15 0.07
29 4 0.02
30 3 0.01
31 13 0.06
32 5 0.02
33 9 0.04
34 7 0.03
35 9 0.04
36 54 0.24
37 79 0.36
38 15 0.07
39 5 0.02
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.46
Consensus pattern (34 bp):
TTTTGAAAATATATAATATATAGTTTTTAAAACA
Found at i:2532672 original size:73 final size:74
Alignment explanation
Indices: 2532572--2532875 Score: 270
Period size: 73 Copynumber: 4.3 Consensus size: 74
2532562 ATATATATGT
* * *
2532572 TATATAG-TTTGCAAACGGTTTTTGAAAATGTATATAATATATAGTTTTTAAAA-CACTTTTGAA
1 TATATAGTTTTGAAAAC-ATTTTTGAAAATATATATAATATATAGTTTTTAAAATCA-TTTTGAA
2532635 AAC-TATATAA
64 AACTTATATAA
* * *
2532645 TATATAGTTTTTAAAATATTTTAGAAAATATATATAATATATAGTTTTTAAAATCATTTTGAAAA
1 TATATAGTTTTGAAAACATTTTTGAAAATATATATAATATATAGTTTTTAAAATCATTTTGAAAA
2532710 CTTATATAA
66 CTTATATAA
* *
2532719 TATATAGTTTTGAAAACATTTTTG-AAA-AT-T-T-ATATA-AGTTTTGAAAA-CA-TTT-ATAT
1 TATATAGTTTTGAAAACATTTTTGAAAATATATATAATATATAGTTTTTAAAATCATTTTGA-AA
2532775 A-TTATAT-A
65 ACTTATATAA
* ** * *
2532783 -AT-T--TTTT-AAAACAATTTTGAAAATACGTATAATATATAGTTTTTAAAAAACATTTTGGAA
1 TATATAGTTTTGAAAACATTTTTGAAAATATATATAATATATAGTTTTT-AAAATCATTTTGAAA
** *
2532843 TTTTATATAT
65 ACTTATATAA
*
2532853 TATAT-GTTTTTGAAAATATTTTT
1 TATATAG-TTTTGAAAACATTTTT
2532876 ATATATAATA
Statistics
Matches: 190, Mismatches: 20, Indels: 40
0.76 0.08 0.16
Matches are distributed among these distances:
59 11 0.06
60 7 0.04
61 1 0.01
62 2 0.01
63 3 0.02
64 6 0.03
65 13 0.07
66 9 0.05
67 4 0.02
68 14 0.07
69 11 0.06
70 1 0.01
71 3 0.02
72 3 0.02
73 53 0.28
74 40 0.21
75 9 0.05
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.46
Consensus pattern (74 bp):
TATATAGTTTTGAAAACATTTTTGAAAATATATATAATATATAGTTTTTAAAATCATTTTGAAAA
CTTATATAA
Found at i:2532814 original size:59 final size:56
Alignment explanation
Indices: 2532701--2532814 Score: 138
Period size: 59 Copynumber: 2.0 Consensus size: 56
2532691 TTTAAAATCA
* **
2532701 TTTTGAAAACTTATATAATATATAGTTTTGAAAACATTTTTGAAAATTTATATAAG
1 TTTTGAAAACTTATATAATATATAGTTTTGAAAACAATTTTGAAAATACATATAAG
* * * *
2532757 TTTTGAAAACATTTATATATTATATAATTTTTTAAAACAATTTTGAAAATACGTATAA
1 TTTTGAAAAC--TTATATAATATAT-AGTTTTGAAAACAATTTTGAAAATACATATAA
2532815 TATATAGTTT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
56 10 0.21
58 12 0.25
59 26 0.54
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.45
Consensus pattern (56 bp):
TTTTGAAAACTTATATAATATATAGTTTTGAAAACAATTTTGAAAATACATATAAG
Found at i:2532845 original size:96 final size:97
Alignment explanation
Indices: 2532673--2532889 Score: 228
Period size: 96 Copynumber: 2.2 Consensus size: 97
2532663 TTTTAGAAAA
*
2532673 TATATATAATATATAGTTTTTAAAATCATTTTGAAAACTTATATAATATATAGTTTTGAAAACAT
1 TATATATAATATATAGTTTTTAAAATCATTTTGAAAAC-TATATAATATATAGTTTTAAAAACAT
2532738 TTTTGAAAA-TTTATATAAGTTTTGAAAACATT
65 TTTTGAAAATTTTATATAAGTTTTGAAAACATT
* *
2532770 TATATATTATATA-ATTTTTTAAAA-CAATTTTGAAAA-TACGTATAATATATAGTTTTTAAAAA
1 TATATATAATATATAGTTTTTAAAATC-ATTTTGAAAACTA--TATAATATATAG-TTTT-AAAA
* * *
2532832 ACA-TTTTGGAATTTTATATATTATATGTTTTTGAAAATATTTT
61 ACATTTTTGAAAATTT-TATA-TA-A-G-TTTTGAAAACA--TT
2532875 TATATATAATATATA
1 TATATATAATATATA
2532890 TTATTATTAT
Statistics
Matches: 99, Mismatches: 7, Indels: 19
0.79 0.06 0.15
Matches are distributed among these distances:
94 2 0.02
95 1 0.01
96 32 0.32
97 23 0.23
98 8 0.08
99 4 0.04
100 2 0.02
101 1 0.01
102 1 0.01
103 10 0.10
105 14 0.14
106 1 0.01
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.47
Consensus pattern (97 bp):
TATATATAATATATAGTTTTTAAAATCATTTTGAAAACTATATAATATATAGTTTTAAAAACATT
TTTGAAAATTTTATATAAGTTTTGAAAACATT
Found at i:2532857 original size:38 final size:38
Alignment explanation
Indices: 2532757--2532868 Score: 102
Period size: 38 Copynumber: 2.9 Consensus size: 38
2532747 TTTATATAAG
* *
2532757 TTTTGAAAACATTTATATATTATATAATTTTTTAAAACAA
1 TTTTG-AAA-ATTTATATATTATATAGTTTTTAAAAACAA
*** *
2532797 TTTTGAAAATACGTATAATATATAGTTTTTAAAAA-ACA
1 TTTTGAAAATTTATATATTATATAGTTTTTAAAAACA-A
* * *
2532835 TTTTGGAATTTTATATATTATAT-GTTTTTGAAAA
1 TTTTGAAAATTTATATATTATATAGTTTTTAAAAA
2532869 TATTTTTATA
Statistics
Matches: 58, Mismatches: 13, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
37 11 0.19
38 39 0.67
39 3 0.05
40 5 0.09
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.47
Consensus pattern (38 bp):
TTTTGAAAATTTATATATTATATAGTTTTTAAAAACAA
Found at i:2532896 original size:3 final size:3
Alignment explanation
Indices: 2532888--2532924 Score: 58
Period size: 3 Copynumber: 12.3 Consensus size: 3
2532878 ATATAATATA
2532888 TAT TAT TAT TAT TAT TAT TAT TAT CT-T TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT T
2532925 TATTTTGTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 1 0.03
3 30 0.94
4 1 0.03
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:2534132 original size:17 final size:18
Alignment explanation
Indices: 2534110--2534147 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
2534100 TTCAGTCCTT
2534110 TTTTATGCTTTATT-TTA
1 TTTTATGCTTTATTATTA
**
2534127 TTTTATTTTTTATTATTA
1 TTTTATGCTTTATTATTA
2534145 TTT
1 TTT
2534148 ATTTAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (18 bp):
TTTTATGCTTTATTATTA
Found at i:2534148 original size:17 final size:17
Alignment explanation
Indices: 2534118--2534165 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
2534108 TTTTTTATGC
2534118 TTTATT-TTATTTTATTT
1 TTTATTATTA-TTTATTT
2534135 TTTATTATTATTTATTT
1 TTTATTATTATTTATTT
**
2534152 AATATTATT-TTTAT
1 TTTATTATTATTTAT
2534166 GTCATATACA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 5 0.18
17 20 0.71
18 3 0.11
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTATTATTATTTATTT
Found at i:2534190 original size:9 final size:9
Alignment explanation
Indices: 2534176--2534227 Score: 50
Period size: 9 Copynumber: 5.7 Consensus size: 9
2534166 GTCATATACA
2534176 TTTTTTATT
1 TTTTTTATT
2534185 TTTTTTATT
1 TTTTTTATT
*
2534194 TTTATTATT
1 TTTTTTATT
** *
2534203 ACTGTTATT
1 TTTTTTATT
*
2534212 ATTTTTATT
1 TTTTTTATT
2534221 TTATTTT
1 TT-TTTT
2534228 TCTAATTTTT
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
9 31 0.89
10 4 0.11
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (9 bp):
TTTTTTATT
Found at i:2534389 original size:32 final size:32
Alignment explanation
Indices: 2534331--2534391 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
2534321 TCATATTATT
** *
2534331 TTTATTATTTTTATTTTTTCTCTTTTTTTTTG
1 TTTATTATTTTTATTTTAGCTATTTTTTTTTG
2534363 TTTATTATTTTTATATTTAGC-ATTTTTTT
1 TTTATTATTTTTAT-TTTAGCTATTTTTTT
2534392 ATATGATTCG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
32 21 0.84
33 4 0.16
ACGTcount: A:0.15, C:0.05, G:0.03, T:0.77
Consensus pattern (32 bp):
TTTATTATTTTTATTTTAGCTATTTTTTTTTG
Found at i:2539334 original size:23 final size:23
Alignment explanation
Indices: 2539308--2539368 Score: 59
Period size: 23 Copynumber: 2.7 Consensus size: 23
2539298 CACCATAGCT
* *
2539308 CATATAAATGCAGCGAAGTGCCA
1 CATAGAAATGCACCGAAGTGCCA
* * *
2539331 CATAGAATTGCACCGTAGTGCCG
1 CATAGAAATGCACCGAAGTGCCA
* *
2539354 CGTAGAATTGCACCG
1 CATAGAAATGCACCG
2539369 TAGTTCCATA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.31, C:0.25, G:0.25, T:0.20
Consensus pattern (23 bp):
CATAGAAATGCACCGAAGTGCCA
Found at i:2539369 original size:23 final size:23
Alignment explanation
Indices: 2539324--2539372 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
2539314 AATGCAGCGA
2539324 AGTGCCACATAGAATTGCACCGT
1 AGTGCCACATAGAATTGCACCGT
* *
2539347 AGTGCCGCGTAGAATTGCACCGT
1 AGTGCCACATAGAATTGCACCGT
2539370 AGT
1 AGT
2539373 TCCATATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (23 bp):
AGTGCCACATAGAATTGCACCGT
Found at i:2539510 original size:18 final size:18
Alignment explanation
Indices: 2539487--2539522 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
2539477 GAATATGTAT
2539487 ATGTCCCGAAGGACCACA
1 ATGTCCCGAAGGACCACA
2539505 ATGTCCCGAAGGACCACA
1 ATGTCCCGAAGGACCACA
2539523 TATCATTCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.22, T:0.11
Consensus pattern (18 bp):
ATGTCCCGAAGGACCACA
Found at i:2539597 original size:121 final size:121
Alignment explanation
Indices: 2539395--2539766 Score: 654
Period size: 121 Copynumber: 3.1 Consensus size: 121
2539385 TGTCCATAAG
* *
2539395 GACCACATATCATTCCTTAAGAATCATATACATATAGTAGGGATCAAGTATGCGTCTCACCAGAC
1 GACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCAGAC
** *
2539460 TTCACACATGTTCCAAAGAATATGTATATGTCCCGAAGGACCACAATGTCCCGAAG
66 TTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCACAATGTCCCGAAA
2539516 GACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCAGAC
1 GACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCAGAC
*
2539581 TTCACACATGTTCCAAAGAATACATATATGTCCCGAAAGACCACAATGTCCCGAAA
66 TTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCACAATGTCCCGAAA
* * *
2539637 GACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCAGAC
1 GACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCAGAC
*
2539702 TTCACACATATTCCAAAGAATACATATATGTCCCGAAGGACCACAATGTCCCGAAA
66 TTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCACAATGTCCCGAAA
2539758 GACCACATA
1 GACCACATA
2539767 GACCCTCGAC
Statistics
Matches: 240, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
121 240 1.00
ACGTcount: A:0.37, C:0.25, G:0.14, T:0.24
Consensus pattern (121 bp):
GACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCAGAC
TTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCACAATGTCCCGAAA
Found at i:2539631 original size:18 final size:18
Alignment explanation
Indices: 2539608--2539643 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
2539598 GAATACATAT
2539608 ATGTCCCGAAAGACCACA
1 ATGTCCCGAAAGACCACA
2539626 ATGTCCCGAAAGACCACA
1 ATGTCCCGAAAGACCACA
2539644 TATCATTCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.33, G:0.17, T:0.11
Consensus pattern (18 bp):
ATGTCCCGAAAGACCACA
Found at i:2539741 original size:62 final size:62
Alignment explanation
Indices: 2539435--2539741 Score: 175
Period size: 62 Copynumber: 5.0 Consensus size: 62
2539425 CATATAGTAG
* * **
2539435 GGATCAAGTATGCGTCTCACCAGACTTCACACATGTTCCAAAGAATATGTATATGTCCCGAA
1 GGATCAAGTATGTGTCTCACCAGACTTCACACATATTCCAAAGAATACATATATGTCCCGAA
* * * * * *
2539497 GGACCACA--A--TGTC-C-CGAAGGAC--CACATATCATTCCTTAAGAAT-CATATACATAT-A
1 GGATCA-AGTATGTGTCTCAC-CA-GACTTCACACAT-ATTCC-AAAGAATACATAT--ATGTCC
* *
2539552 CTAG
59 CGAA
*
2539556 GGATCAAGTATGTGTCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAA
1 GGATCAAGTATGTGTCTCACCAGACTTCACACATATTCCAAAGAATACATATATGTCCCGAA
* * * * * * * *
2539618 AGACCACA--A--TGTCCCGA-AAGAC--CACATATCATTCCTTAAGAAT-CATATACATATGCC
1 GGATCA-AGTATGTGTCTC-ACCAGACTTCACACAT-ATTCC-AAAGAATACATAT--ATGTCCC
2539675 -AA
60 GAA
2539677 GGATCAAGTATGTGTCTCACCAGACTTCACACATATTCCAAAGAATACATATATGTCCCGAA
1 GGATCAAGTATGTGTCTCACCAGACTTCACACATATTCCAAAGAATACATATATGTCCCGAA
2539739 GGA
1 GGA
2539742 CCACAATGTC
Statistics
Matches: 175, Mismatches: 38, Indels: 64
0.63 0.14 0.23
Matches are distributed among these distances:
57 13 0.07
58 20 0.11
59 40 0.23
60 11 0.06
61 11 0.06
62 44 0.25
63 23 0.13
64 13 0.07
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.24
Consensus pattern (62 bp):
GGATCAAGTATGTGTCTCACCAGACTTCACACATATTCCAAAGAATACATATATGTCCCGAA
Found at i:2539752 original size:18 final size:18
Alignment explanation
Indices: 2539729--2539764 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
2539719 GAATACATAT
*
2539729 ATGTCCCGAAGGACCACA
1 ATGTCCCGAAAGACCACA
2539747 ATGTCCCGAAAGACCACA
1 ATGTCCCGAAAGACCACA
2539765 TAGACCCTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.33, G:0.19, T:0.11
Consensus pattern (18 bp):
ATGTCCCGAAAGACCACA
Found at i:2540928 original size:21 final size:21
Alignment explanation
Indices: 2540902--2540945 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
2540892 ATTTTATTCG
* *
2540902 CTTGAAAGGGTATCGGTTCCC
1 CTTGAAAGGGTACCGATTCCC
*
2540923 CTTGAATGGGTACCGATTCCC
1 CTTGAAAGGGTACCGATTCCC
2540944 CT
1 CT
2540946 AGCCCAGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.18, C:0.27, G:0.25, T:0.30
Consensus pattern (21 bp):
CTTGAAAGGGTACCGATTCCC
Found at i:2544713 original size:23 final size:23
Alignment explanation
Indices: 2544695--2544755 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
2544685 CTCATATAAA
*
2544695 TGCACCGAAGTGCCACATAGAAT
1 TGCACCGTAGTGCCACATAGAAT
* *
2544718 TGCACCGTAGTGCCGCGTAGAAT
1 TGCACCGTAGTGCCACATAGAAT
2544741 TGCACCGTAGTGCCA
1 TGCACCGTAGTGCCA
2544756 TATAATAATG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.26, C:0.28, G:0.26, T:0.20
Consensus pattern (23 bp):
TGCACCGTAGTGCCACATAGAAT
Found at i:2544889 original size:18 final size:18
Alignment explanation
Indices: 2544866--2544901 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
2544856 GAATACATAT
*
2544866 ATGTCCCGAAGGACCACA
1 ATGTCCCAAAGGACCACA
2544884 ATGTCCCAAAGGACCACA
1 ATGTCCCAAAGGACCACA
2544902 TATCATTCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.33, G:0.19, T:0.11
Consensus pattern (18 bp):
ATGTCCCAAAGGACCACA
Found at i:2544976 original size:121 final size:121
Alignment explanation
Indices: 2544762--2545145 Score: 698
Period size: 121 Copynumber: 3.2 Consensus size: 121
2544752 GCCATATAAT
2544762 AATGT-CCATAAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATG
1 AATGTCCCA-AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATG
*
2544826 CGTCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCAC
65 TGTCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCAC
2544883 AATGTCCCAAAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGT
1 AATGTCCCAAAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGT
2544948 GTCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCAC
66 GTCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCAC
* * * *
2545004 AATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGT
1 AATGTCCCAAAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGT
2545069 GTCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCAC
66 GTCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCAC
*
2545125 AATGTCCCGAAGGACCACATA
1 AATGTCCCAAAGGACCACATA
2545146 GACCCTCGAC
Statistics
Matches: 257, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
121 254 0.99
122 3 0.01
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.24
Consensus pattern (121 bp):
AATGTCCCAAAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGT
GTCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCAC
Found at i:2545010 original size:18 final size:18
Alignment explanation
Indices: 2544987--2545022 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
2544977 GAATACATAT
2544987 ATGTCCCGAAGGACCACA
1 ATGTCCCGAAGGACCACA
2545005 ATGTCCCGAAGGACCACA
1 ATGTCCCGAAGGACCACA
2545023 TATCATTCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.22, T:0.11
Consensus pattern (18 bp):
ATGTCCCGAAGGACCACA
Found at i:2545120 original size:62 final size:62
Alignment explanation
Indices: 2544814--2545120 Score: 202
Period size: 62 Copynumber: 5.0 Consensus size: 62
2544804 CATATACTAG
*
2544814 GGATCAAGTATGCGTCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAA
1 GGATCAAGTATGTGTCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAA
* * * * * * * *
2544876 GGACCACA--A--TGTCCCA-AAGGAC--CACATATCATTCCTTAAGAAT-CATATACATAT-AC
1 GGATCA-AGTATGTGTCTCACCA-GACTTCACACAT-GTTCC-AAAGAATACATAT--ATGTCCC
* *
2544932 TAG
60 GAA
2544935 GGATCAAGTATGTGTCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAA
1 GGATCAAGTATGTGTCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAA
* * * * * * *
2544997 GGACCACA--A--TGTC-C-CGAAGGAC--CACATATCATTCCTTAAGAAT-CATATACATATGC
1 GGATCA-AGTATGTGTCTCAC-CA-GACTTCACACAT-GTTCC-AAAGAATACATAT--ATGTCC
2545053 C-AA
59 CGAA
2545056 GGATCAAGTATGTGTCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAA
1 GGATCAAGTATGTGTCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAA
2545118 GGA
1 GGA
2545121 CCACAATGTC
Statistics
Matches: 178, Mismatches: 35, Indels: 64
0.64 0.13 0.23
Matches are distributed among these distances:
57 13 0.07
58 23 0.13
59 41 0.23
60 10 0.06
61 10 0.06
62 45 0.25
63 23 0.13
64 13 0.07
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.24
Consensus pattern (62 bp):
GGATCAAGTATGTGTCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAA
Found at i:2545131 original size:18 final size:18
Alignment explanation
Indices: 2545108--2545143 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
2545098 GAATACATAT
2545108 ATGTCCCGAAGGACCACA
1 ATGTCCCGAAGGACCACA
2545126 ATGTCCCGAAGGACCACA
1 ATGTCCCGAAGGACCACA
2545144 TAGACCCTCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.22, T:0.11
Consensus pattern (18 bp):
ATGTCCCGAAGGACCACA
Found at i:2546347 original size:21 final size:21
Alignment explanation
Indices: 2546321--2546364 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
2546311 ATTTTATTCG
* *
2546321 CTTGAAGGGGTATCGGTTCCC
1 CTTGAAGGGGTACCGATTCCC
*
2546342 CTTGAATGGGTACCGATTCCC
1 CTTGAAGGGGTACCGATTCCC
2546363 CT
1 CT
2546365 AGCCCAGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.27, G:0.27, T:0.30
Consensus pattern (21 bp):
CTTGAAGGGGTACCGATTCCC
Found at i:2549886 original size:17 final size:18
Alignment explanation
Indices: 2549856--2549894 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
2549846 AAATTGTCCT
* *
2549856 TATTATATATTTGTATAA
1 TATTACATATTTGTAAAA
2549874 TATTACATA-TTGTAAAA
1 TATTACATATTTGTAAAA
2549891 TATT
1 TATT
2549895 TATATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (18 bp):
TATTACATATTTGTAAAA
Found at i:2549901 original size:18 final size:17
Alignment explanation
Indices: 2549856--2549902 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
2549846 AAATTGTCCT
*
2549856 TATTATATATTTGTATAA
1 TATTATATA-TTGTAAAA
*
2549874 TATTACATATTGTAAAA
1 TATTATATATTGTAAAA
2549891 TATTTATATATT
1 TA-TTATATATT
2549903 TTCTTTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 9 0.36
18 16 0.64
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.53
Consensus pattern (17 bp):
TATTATATATTGTAAAA
Found at i:2551068 original size:31 final size:31
Alignment explanation
Indices: 2551027--2551086 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
2551017 CAGTTACGTC
*
2551027 AGGGATCATATTGAAAACGGACTAAATGTTG
1 AGGGACCATATTGAAAACGGACTAAATGTTG
2551058 AGGGACCATATTGAAAACGGACTAAATGT
1 AGGGACCATATTGAAAACGGACTAAATGT
2551087 CGGGGATTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.40, C:0.12, G:0.25, T:0.23
Consensus pattern (31 bp):
AGGGACCATATTGAAAACGGACTAAATGTTG
Found at i:2555465 original size:37 final size:37
Alignment explanation
Indices: 2555395--2555465 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
2555385 TGGAGTCGAG
*
2555395 TTTATGAAATTACAACGCGAAGTAAATTTGAGTCATA
1 TTTATGAAATTACAACGCGAAATAAATTTGAGTCATA
* *
2555432 TTTATGAAATTACAACTC-AAATTAATTTCGAGTC
1 TTTATGAAATTACAACGCGAAATAAATTT-GAGTC
2555466 GAGTCAAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
36 8 0.27
37 22 0.73
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (37 bp):
TTTATGAAATTACAACGCGAAATAAATTTGAGTCATA
Found at i:2557016 original size:48 final size:48
Alignment explanation
Indices: 2556959--2557057 Score: 189
Period size: 48 Copynumber: 2.1 Consensus size: 48
2556949 TAGTCATATA
*
2556959 TGTATGATTGTTTTATATGTGTGTGGTGATTACCAAATAGACACTAAG
1 TGTATGATTGTTTAATATGTGTGTGGTGATTACCAAATAGACACTAAG
2557007 TGTATGATTGTTTAATATGTGTGTGGTGATTACCAAATAGACACTAAG
1 TGTATGATTGTTTAATATGTGTGTGGTGATTACCAAATAGACACTAAG
2557055 TGT
1 TGT
2557058 GTAACCCACA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.29, C:0.08, G:0.23, T:0.39
Consensus pattern (48 bp):
TGTATGATTGTTTAATATGTGTGTGGTGATTACCAAATAGACACTAAG
Found at i:2559568 original size:17 final size:17
Alignment explanation
Indices: 2559548--2559603 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
2559538 ATACATAGAT
2559548 TTTTTTAATGCATAACA
1 TTTTTTAATGCATAACA
** * *
2559565 TTTTCAAAATTACAT-AGA
1 TTTT-TTAA-TGCATAACA
2559583 TTTTTTAATGCATAACA
1 TTTTTTAATGCATAACA
2559600 TTTT
1 TTTT
2559604 CACAAACTTT
Statistics
Matches: 28, Mismatches: 8, Indels: 6
0.67 0.19 0.14
Matches are distributed among these distances:
16 4 0.14
17 12 0.43
18 8 0.29
19 4 0.14
ACGTcount: A:0.36, C:0.11, G:0.05, T:0.48
Consensus pattern (17 bp):
TTTTTTAATGCATAACA
Found at i:2562852 original size:23 final size:23
Alignment explanation
Indices: 2562820--2562872 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
2562810 TTAGTGCAGA
* *
2562820 GGGAATCGATAGCCCCATTGAAG
1 GGGAACCGATACCCCCATTGAAG
* * *
2562843 GGGAACCGATTCCCCCTTTGAAT
1 GGGAACCGATACCCCCATTGAAG
2562866 GGGAACC
1 GGGAACC
2562873 AGGGAATCGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.26, C:0.26, G:0.28, T:0.19
Consensus pattern (23 bp):
GGGAACCGATACCCCCATTGAAG
Found at i:2565574 original size:93 final size:93
Alignment explanation
Indices: 2565415--2565600 Score: 372
Period size: 93 Copynumber: 2.0 Consensus size: 93
2565405 GCAAATCAAA
2565415 CCAATTTTCCTTTCAATATTCATTTTGCTTTCAAGAACACCATTTGTGCTCATTTGTAATTATTT
1 CCAATTTTCCTTTCAATATTCATTTTGCTTTCAAGAACACCATTTGTGCTCATTTGTAATTATTT
2565480 TTGAGTGTTCTTTTCTTGTTCTAGAATT
66 TTGAGTGTTCTTTTCTTGTTCTAGAATT
2565508 CCAATTTTCCTTTCAATATTCATTTTGCTTTCAAGAACACCATTTGTGCTCATTTGTAATTATTT
1 CCAATTTTCCTTTCAATATTCATTTTGCTTTCAAGAACACCATTTGTGCTCATTTGTAATTATTT
2565573 TTGAGTGTTCTTTTCTTGTTCTAGAATT
66 TTGAGTGTTCTTTTCTTGTTCTAGAATT
2565601 GTGCAAACAT
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 93 1.00
ACGTcount: A:0.22, C:0.17, G:0.11, T:0.51
Consensus pattern (93 bp):
CCAATTTTCCTTTCAATATTCATTTTGCTTTCAAGAACACCATTTGTGCTCATTTGTAATTATTT
TTGAGTGTTCTTTTCTTGTTCTAGAATT
Found at i:2566677 original size:54 final size:54
Alignment explanation
Indices: 2565940--2566678 Score: 876
Period size: 54 Copynumber: 13.7 Consensus size: 54
2565930 AACACTACAG
* * *
2565940 AATTTATCATATGTTAATGAATAACCGTTTCGGCACTAAGAGTGCAACCCACGA
1 AATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGTGTGCAACCCACGA
* * * * * *
2565994 AATTCATAATATGTTGATGAATAATCATTTTGGAACTAAGTGTGCAACCCACAA
1 AATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGTGTGCAACCCACGA
* * * * *
2566048 AATTCATCATATGTTGTTGAA-ACATCATTTCGGCACTAAGTATGCAACCCACGG
1 AATTCATCATATGTTGATGAATA-ACCGTTTCGGCACTAAGTGTGCAACCCACGA
* *
2566102 AATTCATCATATGTTGATGAATAACCGTTTCAGCACTAAATGTGCAACCCAC-A
1 AATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGTGTGCAACCCACGA
* ** * *
2566155 GAATTCATCATATGTTGATGAATAACCATTTCAACACTAAGTGTGCAACCCATGG
1 -AATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGTGTGCAACCCACGA
* * *
2566210 AATTCATCTTATGTTGATGAATAACCGTTTCGGCACTAAGTGTCCAACCTAC-A
1 AATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGTGTGCAACCCACGA
* * *
2566263 AATTCATCATATGTTGATGAATAACCGTTTCGGTACTAAGTGTGCAATCCACGG
1 AATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGTGTGCAACCCACGA
* * * * * * *
2566317 AATTCATCATATGTTGATGAATAACCATTTCGACAATAAATGTGCAATCTACGG
1 AATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGTGTGCAACCCACGA
* * *
2566371 AATTCATCATATGTTGATGAATAACCATTTCGACACTAAGTGTGCAACCCACGG
1 AATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGTGTGCAACCCACGA
** * *
2566425 AATTCATCATATAATGATGAATAATCGTTTCGGCACTAAGTGTGCAACTCAC-A
1 AATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGTGTGCAACCCACGA
* * * *
2566478 GAATTCATCATATGTTGATGAATAACTGTTTCAGCACTAAGTGTACAACCCACGG
1 -AATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGTGTGCAACCCACGA
** * *
2566533 AATTCATCATATAATGATGAATAATCGTTTCGGCACTAAGTGTGCAACTCAC-A
1 AATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGTGTGCAACCCACGA
** * * **
2566586 TAATTCATCATATGTTGATGAATAACTATTTCAGCACTAAGTGTACAAATCACGA
1 -AATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGTGTGCAACCCACGA
* * * *
2566641 AATTCATAATATGTTTATGAATAACCGTATGGGCACTA
1 AATTCATCATATGTTGATGAATAACCGTTTCGGCACTA
2566679 CGAGTGCATT
Statistics
Matches: 586, Mismatches: 90, Indels: 18
0.84 0.13 0.03
Matches are distributed among these distances:
53 48 0.08
54 536 0.91
55 2 0.00
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (54 bp):
AATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGTGTGCAACCCACGA
Found at i:2567097 original size:6 final size:6
Alignment explanation
Indices: 2567088--2567146 Score: 82
Period size: 6 Copynumber: 9.8 Consensus size: 6
2567078 AAGTTCAAGT
* * *
2567088 AATAGC AATAGC AATAGC AAAAGC AAAAGC AAAAGC AATAGC AATAGC
1 AATAGC AATAGC AATAGC AATAGC AATAGC AATAGC AATAGC AATAGC
*
2567136 AATAGT AATAG
1 AATAGC AATAG
2567147 ATGCAAACAA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 50 1.00
ACGTcount: A:0.56, C:0.14, G:0.17, T:0.14
Consensus pattern (6 bp):
AATAGC
Found at i:2569534 original size:5 final size:5
Alignment explanation
Indices: 2569524--2569595 Score: 121
Period size: 5 Copynumber: 14.8 Consensus size: 5
2569514 GTTACCCAAT
2569524 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA -T-TA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
*
2569572 TTATT TTATA TTATA TTATA TTAT
1 TTATA TTATA TTATA TTATA TTAT
2569596 TTCACTCTAA
Statistics
Matches: 63, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
3 2 0.03
4 2 0.03
5 59 0.94
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TTATA
Found at i:2569685 original size:39 final size:39
Alignment explanation
Indices: 2569591--2569693 Score: 113
Period size: 39 Copynumber: 2.6 Consensus size: 39
2569581 ATTATATTAT
* * *
2569591 ATTATTTCAC-TCTAACGTTCCAAATTTTTATTTTCTTAA
1 ATTATTTCACAT-TAACATTCTAAATTTTTAATTTCTTAA
* *
2569630 ATT-TTGCTACCA-TAACATTCTAAGTTTTTAATTTCTTAA
1 ATTATTTC-A-CATTAACATTCTAAATTTTTAATTTCTTAA
2569669 ATTATTTCACATTAACATTCTAAAT
1 ATTATTTCACATTAACATTCTAAAT
2569694 AATTTTTAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 10
0.75 0.10 0.14
Matches are distributed among these distances:
38 5 0.10
39 43 0.83
40 4 0.08
ACGTcount: A:0.32, C:0.17, G:0.03, T:0.49
Consensus pattern (39 bp):
ATTATTTCACATTAACATTCTAAATTTTTAATTTCTTAA
Found at i:2572468 original size:7 final size:8
Alignment explanation
Indices: 2572443--2572470 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
2572433 TATAATCCTC
2572443 AAATTCAA
1 AAATTCAA
2572451 AAATTCAA
1 AAATTCAA
2572459 AAATTCAA
1 AAATTCAA
2572467 AAAT
1 AAAT
2572471 AATAACAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.64, C:0.11, G:0.00, T:0.25
Consensus pattern (8 bp):
AAATTCAA
Found at i:2576157 original size:256 final size:257
Alignment explanation
Indices: 2575668--2576187 Score: 963
Period size: 256 Copynumber: 2.0 Consensus size: 257
2575658 CTTCATACTA
2575668 ACATTATGAAGCTTTATATAGAGAAGACGTTCTTAAATTTTTTAGTGGAAAAAATACAGACTTTG
1 ACATTATGAAGCTTTATATAGAGAAGACGTTCTTAAATTTTTTAGTGGAAAAAATACAGACTTTG
2575733 ATCTACATTTATTGAAGCAAGTGGCCGATGGAGGTTATGTAACATCCCAAAAACCAGGCGAGTGA
66 ATCTACATTTATTGAAGCAAGTGGCCGATGGAGGTTATGTAACATCCCAAAAACCAGGCGAG-G-
2575798 CCAAATTGTAAGATTTTAAAACTTCGTGACTGATTTCAAAAACTGAAAAATTCAGGGAGTTAAAT
129 ----ATTGTAAGATTTTAAAACTTCGTGACTGATTTCAAAAACTGAAAAATTCAGGGAGTTAAAT
2575863 TGGAATTTTGGTGTAGGTTGATTAGTAAAGTTTGAAAGAGGAAGGTGTATAATGGTCATTTAGCA
190 TGGAATTTTGGTGTAGGTTGATTAGTAAAGTTTGAAAGAGGAAGGTGTATAATGGTCATTTAGCA
2575928 AGG
255 AGG
2575931 ACATTATGAAGCTTTATATAGAGAAGACGTTTCTTAAATTTTTTAGTGGAAAAAATACAGACTTT
1 ACATTATGAAGCTTTATATAGAGAAGACG-TTCTTAAATTTTTTAGTGGAAAAAATACAGACTTT
2575996 GATCTACATTTATTGAAGCAAGTGGCCGATGGAGGTTATGTAACATCCCAAAAACCAGGCGA-G-
65 GATCTACATTTATTGAAGCAAGTGGCCGATGGAGGTTATGTAACATCCCAAAAACCAGGCGAGGA
2576059 TTGTAAGATTTTAAAACTTCGTGACTGATTTCAAAAACTGAAAAATTCAGGGAGTTAAATTGGAA
130 TTGTAAGATTTTAAAACTTCGTGACTGATTTCAAAAACTGAAAAATTCAGGGAGTTAAATTGGAA
2576124 TTTTGGTGTAGGTTGATTAGTAAAGTTTGAAAGAGGAAGGTGTATAATGGTCATTTAGCAAGG
195 TTTTGGTGTAGGTTGATTAGTAAAGTTTGAAAGAGGAAGGTGTATAATGGTCATTTAGCAAGG
2576187 A
1 A
2576188 AATGAATTTA
Statistics
Matches: 256, Mismatches: 0, Indels: 9
0.97 0.00 0.03
Matches are distributed among these distances:
256 129 0.50
262 1 0.00
263 29 0.11
264 97 0.38
ACGTcount: A:0.36, C:0.10, G:0.23, T:0.31
Consensus pattern (257 bp):
ACATTATGAAGCTTTATATAGAGAAGACGTTCTTAAATTTTTTAGTGGAAAAAATACAGACTTTG
ATCTACATTTATTGAAGCAAGTGGCCGATGGAGGTTATGTAACATCCCAAAAACCAGGCGAGGAT
TGTAAGATTTTAAAACTTCGTGACTGATTTCAAAAACTGAAAAATTCAGGGAGTTAAATTGGAAT
TTTGGTGTAGGTTGATTAGTAAAGTTTGAAAGAGGAAGGTGTATAATGGTCATTTAGCAAGG
Found at i:2577456 original size:20 final size:20
Alignment explanation
Indices: 2577428--2577473 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
2577418 TATGTGACTA
*
2577428 TATGAAAATGAGAGATAAGC
1 TATGTAAATGAGAGATAAGC
*
2577448 TATGTAAATGTGAGATAAGC
1 TATGTAAATGAGAGATAAGC
2577468 TATGTA
1 TATGTA
2577474 GCATTGATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.43, C:0.04, G:0.24, T:0.28
Consensus pattern (20 bp):
TATGTAAATGAGAGATAAGC
Found at i:2577661 original size:23 final size:23
Alignment explanation
Indices: 2577627--2577687 Score: 88
Period size: 23 Copynumber: 2.7 Consensus size: 23
2577617 GAGTCGAGGG
2577627 TTCTACGCGGTCCTTC-AGGACAA
1 TTCTACGCGGTCCTTCGA-GACAA
* *
2577650 TTCTACGTGGTCCTTCGAGACAT
1 TTCTACGCGGTCCTTCGAGACAA
2577673 TTCTACGCGGTCCTT
1 TTCTACGCGGTCCTT
2577688 AGGGATAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
23 33 0.97
24 1 0.03
ACGTcount: A:0.16, C:0.30, G:0.21, T:0.33
Consensus pattern (23 bp):
TTCTACGCGGTCCTTCGAGACAA
Found at i:2577685 original size:46 final size:46
Alignment explanation
Indices: 2577627--2577723 Score: 124
Period size: 46 Copynumber: 2.1 Consensus size: 46
2577617 GAGTCGAGGG
* * *
2577627 TTCTACGCGGTCCTTCA-GGACAATTCTACGTGGTCCTTCGAGACAT
1 TTCTACGCGGTCCTT-AGGGACAATACTACGTAGTCATTCGAGACAT
* * *
2577673 TTCTACGCGGTCCTTAGGGATAATACTATGTAGTCATTCGGGACAT
1 TTCTACGCGGTCCTTAGGGACAATACTACGTAGTCATTCGAGACAT
2577719 TTCTA
1 TTCTA
2577724 TGTGGCACTT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
45 1 0.02
46 43 0.98
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.33
Consensus pattern (46 bp):
TTCTACGCGGTCCTTAGGGACAATACTACGTAGTCATTCGAGACAT
Found at i:2579553 original size:38 final size:39
Alignment explanation
Indices: 2579494--2579584 Score: 148
Period size: 40 Copynumber: 2.3 Consensus size: 39
2579484 ATGATTTAAG
* *
2579494 ATACGATGCACCTTTCTTATACATAC-ATATATATATAC
1 ATACAATGCACCTTTCCTATACATACAATATATATATAC
2579532 ATACAATGCACCTTTCCTATACATACATATATATATATAC
1 ATACAATGCACCTTTCCTATACATACA-ATATATATATAC
2579572 ATACAATGCACCT
1 ATACAATGCACCT
2579585 GAATCATACA
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
38 24 0.49
40 25 0.51
ACGTcount: A:0.38, C:0.23, G:0.04, T:0.34
Consensus pattern (39 bp):
ATACAATGCACCTTTCCTATACATACAATATATATATAC
Found at i:2579593 original size:36 final size:39
Alignment explanation
Indices: 2579494--2579601 Score: 109
Period size: 38 Copynumber: 2.8 Consensus size: 39
2579484 ATGATTTAAG
* **
2579494 ATACGATGCACCTTTCTTATACATAC--ATATATATATAC
1 ATACAATGCACC-TTCCAATACATACAAATATATATATAC
* *
2579532 ATACAATGCACCTTTCCTATACATACATATATATATATAC
1 ATACAATGCACC-TTCCAATACATACAAATATATATATAC
*
2579572 ATACAATGCACC-T-GAAT-CATACAAATATAT
1 ATACAATGCACCTTCCAATACATACAAATATAT
2579602 TATTTTGCTA
Statistics
Matches: 63, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
36 12 0.19
37 2 0.03
38 25 0.40
40 24 0.38
ACGTcount: A:0.41, C:0.21, G:0.05, T:0.33
Consensus pattern (39 bp):
ATACAATGCACCTTCCAATACATACAAATATATATATAC
Found at i:2583320 original size:21 final size:21
Alignment explanation
Indices: 2583291--2583332 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2583281 TATCGAGCCA
2583291 TTAACTGAGGTGATCAAACCG
1 TTAACTGAGGTGATCAAACCG
* * *
2583312 TTAATTGAGTTGATCGAACCG
1 TTAACTGAGGTGATCAAACCG
2583333 AGCCGACAGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.29
Consensus pattern (21 bp):
TTAACTGAGGTGATCAAACCG
Found at i:2584991 original size:13 final size:14
Alignment explanation
Indices: 2584975--2585009 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
2584965 ATATTTAAAA
2584975 TATTTAAAT-TTTT
1 TATTTAAATGTTTT
2584988 TATTTAAATGTTTT
1 TATTTAAATGTTTT
*
2585002 TAATTAAA
1 TATTTAAA
2585010 ACAATTACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 9 0.45
14 11 0.55
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (14 bp):
TATTTAAATGTTTT
Found at i:2599668 original size:40 final size:40
Alignment explanation
Indices: 2599607--2599700 Score: 104
Period size: 39 Copynumber: 2.4 Consensus size: 40
2599597 TTATTTCACT
* *
2599607 ATAACATTCTAAATCGCTAATTTTTTTAAAAT-TTTC-TACC
1 ATAACATTCTAAATTGCTAA-TTTCTTAAAATATTTCATA-C
** *
2599647 ATAACATTCTAAATTTTTAATTTCTTAAATTATTTCATAC
1 ATAACATTCTAAATTGCTAATTTCTTAAAATATTTCATAC
2599687 -TAACATTCTAAATT
1 ATAACATTCTAAATT
2599701 ATTTTTAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
39 23 0.49
40 22 0.47
41 2 0.04
ACGTcount: A:0.37, C:0.15, G:0.01, T:0.47
Consensus pattern (40 bp):
ATAACATTCTAAATTGCTAATTTCTTAAAATATTTCATAC
Found at i:2600200 original size:3 final size:3
Alignment explanation
Indices: 2600192--2600235 Score: 54
Period size: 3 Copynumber: 14.7 Consensus size: 3
2600182 CGTCTCGTTG
* *
2600192 TTA TTA TTA TTA TTA TTA TTA TTAA TTA CTA TTA ATA TT- TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TT
2600236 CTTTTTATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
2 2 0.06
3 30 0.86
4 3 0.09
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:2604193 original size:55 final size:56
Alignment explanation
Indices: 2604127--2604269 Score: 193
Period size: 55 Copynumber: 2.6 Consensus size: 56
2604117 CATTCAAATG
* *
2604127 ATTCATGAAGAAGGACATTCAATGAATGAAGAAAAT-TGAAACTGATTGAAGAACA
1 ATTCATGAAGAAGGACATCCGATGAATGAAGAAAATCTGAAACTGATTGAAGAACA
* *
2604182 ATTCATGAAGAAGGACATCCGAT-AACTGAAG-AAATCTGAAACTGATTGAAGACCG
1 ATTCATGAAGAAGGACATCCGATGAA-TGAAGAAAATCTGAAACTGATTGAAGAACA
* * *
2604237 ATCCATAAAGAAAGACATCCGATGAATGAAGAA
1 ATTCATGAAGAAGGACATCCGATGAATGAAGAA
2604270 GTTTGAAGTT
Statistics
Matches: 77, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
54 6 0.08
55 68 0.88
56 3 0.04
ACGTcount: A:0.47, C:0.13, G:0.20, T:0.20
Consensus pattern (56 bp):
ATTCATGAAGAAGGACATCCGATGAATGAAGAAAATCTGAAACTGATTGAAGAACA
Found at i:2610931 original size:134 final size:134
Alignment explanation
Indices: 2610252--2610910 Score: 1016
Period size: 134 Copynumber: 4.9 Consensus size: 134
2610242 ATCCCAATTC
* * * *
2610252 AATGGATCAACTCATCCATATTTGATATTCCCTTCAGAAGAAGTGGAACAGATCATTCTCTTTCA
1 AATGGATCAACTCATCCAGATCTGATATTCCCTTCAGAAGAAGTGGAACAGATCACTCTTTTTCA
*
2610317 AGATTTGATATTCCCTGAGTGACAGCAGAACAAGTCTACCATGATTCAATCTTCCCTGAGTGACA
66 AGATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTACCATGATTCAATCTTCCCTGAGTGACA
2610382 GCGG
131 GCGG
* * * *
2610386 AATGGATCAACTCATTCAAATATGATATTCCCTTTAGAAGAAGTGGAACAGATCAC-CTTTTTCA
1 AATGGATCAACTCATCCAGATCTGATATTCCCTTCAGAAGAAGTGGAACAGATCACTCTTTTTCA
* * *
2610450 AGATTTGACATTCCCTTAGTGATAGCGGAACAAGTCTACCATGATTCAATCTTCCCTGAGTGACA
66 AGATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTACCATGATTCAATCTTCCCTGAGTGACA
2610515 GCGG
131 GCGG
** *
2610519 AATGGATCAACTCATCCAGATCTGATATTTTCTTTAGAAGAAGTGGAACAGATCACTCTTTTTCA
1 AATGGATCAACTCATCCAGATCTGATATTCCCTTCAGAAGAAGTGGAACAGATCACTCTTTTTCA
*
2610584 AGATTTGATATTCCCTGAGTTACAGCGGAACAAGTCTACCATGATTCAATCTTCCCTGAGTGACA
66 AGATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTACCATGATTCAATCTTCCCTGAGTGACA
2610649 GCGG
131 GCGG
* *
2610653 AATGGATCAACTCATCCAGATATGATATTCCCTTCAGATGAAGTGGAACAGATCACTCTTTTTCA
1 AATGGATCAACTCATCCAGATCTGATATTCCCTTCAGAAGAAGTGGAACAGATCACTCTTTTTCA
* *
2610718 AGATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTACCACGATTTAATCTTCCCTGAGTGACA
66 AGATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTACCATGATTCAATCTTCCCTGAGTGACA
*
2610783 GCGA
131 GCGG
** * * * * *
2610787 AATAAATCAACTCATCCAGATCTGATATTCCCTTCAGAAAAAGCGGAACAAATTACTCTCTTTCA
1 AATGGATCAACTCATCCAGATCTGATATTCCCTTCAGAAGAAGTGGAACAGATCACTCTTTTTCA
* * *
2610852 AGATTTGATATTCCCCGAGTGACAGCGGAATAAGTCTTCCCA-GATTCAATCTTCCCTGA
66 AGATTTGATATTCCCTGAGTGACAGCGGAACAAGTC-TACCATGATTCAATCTTCCCTGA
2610911 AGAATAGTAA
Statistics
Matches: 482, Mismatches: 41, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
133 123 0.26
134 355 0.74
135 4 0.01
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.29
Consensus pattern (134 bp):
AATGGATCAACTCATCCAGATCTGATATTCCCTTCAGAAGAAGTGGAACAGATCACTCTTTTTCA
AGATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTACCATGATTCAATCTTCCCTGAGTGACA
GCGG
Found at i:2614307 original size:22 final size:22
Alignment explanation
Indices: 2614275--2614325 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
2614265 TCAACCGGTC
*
2614275 GAATCGATCCGACCGATCGAAA
1 GAATCGGTCCGACCGATCGAAA
2614297 GAATCGGTCCGACCGATCGAAA
1 GAATCGGTCCGACCGATCGAAA
2614319 GAATCGG
1 GAATCGG
2614326 ACGACGTCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.33, C:0.25, G:0.27, T:0.14
Consensus pattern (22 bp):
GAATCGGTCCGACCGATCGAAA
Found at i:2616677 original size:17 final size:17
Alignment explanation
Indices: 2616624--2616678 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 17
2616614 ATTCATCCTT
2616624 CTAGTTCATTGAATAAA
1 CTAGTTCATTGAATAAA
* * * *
2616641 GTTAGTTCATTCATTTAA
1 -CTAGTTCATTGAATAAA
2616659 CTAGTTCATTGAATAAA
1 CTAGTTCATTGAATAAA
2616676 CTA
1 CTA
2616679 AAATTTAAAT
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
17 16 0.55
18 13 0.45
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (17 bp):
CTAGTTCATTGAATAAA
Found at i:2619008 original size:134 final size:134
Alignment explanation
Indices: 2618800--2619045 Score: 336
Period size: 134 Copynumber: 1.8 Consensus size: 134
2618790 TTGACCGTTG
* * * *
2618800 ACTTTGACCAAAAAGTCAAAATTTTCGAAATGTCATATTTTATGTTTTTCGACGTCCTGAGTTTA
1 ACTTTGACCAAAAAGTCAAAATTTTCGAAAAGTCATATTTTACGTTTTTCGACGTCCTGAATCTA
* **
2618865 AATCTGAAGTCTGTTTT-CCAAATTC-GAACCCGAAATCCTCCAAATCGTAAGTCAAACCCGTTG
66 AATCCGAAGTCCATTTTGCCAAATTCTG-ACCCGAAATCC-CCAAATCGTAAGTCAAACCCGTTG
2618928 ACTTTA
129 ACTTTA
*
2618934 ACTTTGACCAAAAAGTCAAAAATTTT-GAAAAGTCATATTTTACGTTTTTCGATGTCCTGAATCT
1 ACTTTGACCAAAAAGTC-AAAATTTTCGAAAAGTCATATTTTACGTTTTTCGACGTCCTGAATCT
* * * *
2618998 GATTCCGAAGTCCATTTTGCCAAATTCTGACCTGAAATCCCCGAATCG
65 AAATCCGAAGTCCATTTTGCCAAATTCTGACCCGAAATCCCCAAATCG
2619046 AGCTCGTTAG
Statistics
Matches: 97, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
134 70 0.72
135 26 0.27
136 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.34
Consensus pattern (134 bp):
ACTTTGACCAAAAAGTCAAAATTTTCGAAAAGTCATATTTTACGTTTTTCGACGTCCTGAATCTA
AATCCGAAGTCCATTTTGCCAAATTCTGACCCGAAATCCCCAAATCGTAAGTCAAACCCGTTGAC
TTTA
Found at i:2620114 original size:2 final size:2
Alignment explanation
Indices: 2620107--2620133 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2620097 TGTAGTATTT
2620107 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 T
2620134 GTGTGTGTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Done.