Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 48 of 325
Found at i:17725041 original size:9 final size:9
Alignment explanation
Indices: 17725027--17725104 Score: 52
Period size: 9 Copynumber: 8.7 Consensus size: 9
17725017 TTTATACAAA
17725027 TAATTCGGT
1 TAATTCGGT
**
17725036 TAATTCAAT
1 TAATTCGGT
17725045 TAATTCGGT
1 TAATTCGGT
***
17725054 TAATTTAAT
1 TAATTCGGT
* *
17725063 TAA-TCTAGA
1 TAATTC-GGT
*
17725072 TAATTTGAG-
1 TAATTCG-GT
17725081 TAATTCGGT
1 TAATTCGGT
17725090 TAATTCGGT
1 TAATTCGGT
17725099 TAATTC
1 TAATTC
17725105 ATTTAATTTT
Statistics
Matches: 52, Mismatches: 13, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
8 2 0.04
9 48 0.92
10 2 0.04
ACGTcount: A:0.32, C:0.09, G:0.14, T:0.45
Consensus pattern (9 bp):
TAATTCGGT
Found at i:17725093 original size:18 final size:18
Alignment explanation
Indices: 17725027--17725094 Score: 75
Period size: 18 Copynumber: 3.8 Consensus size: 18
17725017 TTTATACAAA
*
17725027 TAATTCGGTTAATTCAAT
1 TAATTCGGTTAATTTAAT
17725045 TAATTCGGTTAATTTAAT
1 TAATTCGGTTAATTTAAT
* * * *
17725063 TAA-TCTAGATAATTTGAG
1 TAATTC-GGTTAATTTAAT
17725081 TAATTCGGTTAATT
1 TAATTCGGTTAATT
17725095 CGGTTAATTC
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
17 2 0.05
18 37 0.90
19 2 0.05
ACGTcount: A:0.34, C:0.07, G:0.13, T:0.46
Consensus pattern (18 bp):
TAATTCGGTTAATTTAAT
Found at i:17741132 original size:23 final size:23
Alignment explanation
Indices: 17741106--17741180 Score: 95
Period size: 21 Copynumber: 3.4 Consensus size: 23
17741096 AGACACTTTA
17741106 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTATTTCAGGCACCTCG
17741129 TGTGTCGTA--TCAGGCACCTCG
1 TGTGTCGTATTTCAGGCACCTCG
* **
17741150 TGTGTCGT-TTT-AGGCACTTTA
1 TGTGTCGTATTTCAGGCACCTCG
17741171 TGTGTCGTAT
1 TGTGTCGTAT
17741181 ACTGATCAGG
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
21 35 0.76
22 2 0.04
23 9 0.20
ACGTcount: A:0.13, C:0.21, G:0.27, T:0.39
Consensus pattern (23 bp):
TGTGTCGTATTTCAGGCACCTCG
Found at i:17746016 original size:20 final size:21
Alignment explanation
Indices: 17745978--17746017 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
17745968 CCCATTTTTC
*
17745978 ATTCTTTTTTACGTTTAAATTT
1 ATTCTTTTATACG-TTAAATTT
17746000 ATTCTTTTATACG-TAAAT
1 ATTCTTTTATACGTTAAAT
17746018 CTAGAGACAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
22 12 0.71
ACGTcount: A:0.28, C:0.10, G:0.05, T:0.57
Consensus pattern (21 bp):
ATTCTTTTATACGTTAAATTT
Found at i:17754697 original size:24 final size:23
Alignment explanation
Indices: 17754616--17754741 Score: 66
Period size: 22 Copynumber: 5.4 Consensus size: 23
17754606 TTAATTCTAT
* * *
17754616 TATATATTTATCTAATCTA-TTA
1 TATATATTTATATATTTTATTTA
*
17754638 TATATATTCTAATATATATTAGTATTA
1 TATATATT-T-ATATATTTTA-T-TTA
* *
17754665 GAATTTATTTATATATTTTATTTA
1 -TATATATTTATATATTTTATTTA
17754689 TA-ATATATTA-ATATTATT-TTTA
1 TATATAT-TTATATATT-TTATTTA
*
17754711 TAT-TATTTATCTATTTCTATTT-
1 TATATATTTATATATTT-TATTTA
*
17754733 TATTTATTT
1 TATATATTT
17754742 CATTGGTATT
Statistics
Matches: 81, Mismatches: 10, Indels: 25
0.70 0.09 0.22
Matches are distributed among these distances:
21 4 0.05
22 33 0.41
23 15 0.19
24 9 0.11
25 1 0.01
26 9 0.11
27 4 0.05
28 6 0.07
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (23 bp):
TATATATTTATATATTTTATTTA
Found at i:17754725 original size:19 final size:19
Alignment explanation
Indices: 17754703--17754739 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
17754693 ATATTAATAT
*
17754703 TATTTTTATATTATTTATC
1 TATTTCTATATTATTTATC
*
17754722 TATTTCTATTTTATTTAT
1 TATTTCTATATTATTTAT
17754740 TTCATTGGTA
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:0.24, C:0.05, G:0.00, T:0.70
Consensus pattern (19 bp):
TATTTCTATATTATTTATC
Found at i:17754725 original size:22 final size:22
Alignment explanation
Indices: 17754669--17754741 Score: 71
Period size: 22 Copynumber: 3.3 Consensus size: 22
17754659 GTATTAGAAT
17754669 TTATTTATATATTTTATTTATA
1 TTATTTATATATTTTATTTATA
*
17754691 ATATATTA-ATATTATT-TTTATA
1 TTAT-TTATATATT-TTATTTATA
*
17754713 TTATTTATCTATTTCTATTT-TA
1 TTATTTATATATTT-TATTTATA
17754735 TTTATTT
1 -TTATTT
17754742 CATTGGTATT
Statistics
Matches: 42, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
21 4 0.10
22 24 0.57
23 14 0.33
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (22 bp):
TTATTTATATATTTTATTTATA
Found at i:17755150 original size:45 final size:45
Alignment explanation
Indices: 17755011--17755149 Score: 233
Period size: 45 Copynumber: 3.1 Consensus size: 45
17755001 AGTTTTTATT
*
17755011 TCAAACAAAAGATTACTAGCTTTAGATGGTAATAAAAATTAAAGC
1 TCAAACAAAAGATTACTAGCTTTAGATGCTAATAAAAATTAAAGC
* *
17755056 TCAAACAAAAGTTTACTAGGTTTAGATGCTAATAAAAATTAAAGC
1 TCAAACAAAAGATTACTAGCTTTAGATGCTAATAAAAATTAAAGC
* *
17755101 TCAATCAAAAGATTACTAGCTTTAGATTCTAATAAAAATTAAAGC
1 TCAAACAAAAGATTACTAGCTTTAGATGCTAATAAAAATTAAAGC
17755146 TCAA
1 TCAA
17755150 TAACCTATTT
Statistics
Matches: 87, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 87 1.00
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.29
Consensus pattern (45 bp):
TCAAACAAAAGATTACTAGCTTTAGATGCTAATAAAAATTAAAGC
Found at i:17764042 original size:20 final size:20
Alignment explanation
Indices: 17764017--17764056 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
17764007 TGGATTCAAA
17764017 CATTAATGCAAATAAATGGT
1 CATTAATGCAAATAAATGGT
17764037 CATTAATGCAAATAAATGGT
1 CATTAATGCAAATAAATGGT
17764057 TTCTCAAACC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.10, G:0.15, T:0.30
Consensus pattern (20 bp):
CATTAATGCAAATAAATGGT
Found at i:17766875 original size:22 final size:22
Alignment explanation
Indices: 17766849--17766891 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
17766839 GAGAATGTTC
17766849 ATTCTTGATTATAGACTTGTAT
1 ATTCTTGATTATAGACTTGTAT
17766871 ATTCTTGATTATAGACTTGTA
1 ATTCTTGATTATAGACTTGTA
17766892 CACCTAGAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.28, C:0.09, G:0.14, T:0.49
Consensus pattern (22 bp):
ATTCTTGATTATAGACTTGTAT
Found at i:17769215 original size:47 final size:47
Alignment explanation
Indices: 17769109--17769298 Score: 202
Period size: 47 Copynumber: 3.9 Consensus size: 47
17769099 ATGTGATTTT
* * * *
17769109 CGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAAATGTGATATGTGCTTC
1 CGTATAAGACCATATCTGGGATATGGCATC-G-G---TGTGATATGTGCTAC
*
17769161 CGTATAAGACCATATCCGGGATATGGCATCGGTGTGATATGTGCTAC
1 CGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGCTAC
* * *
17769208 TGTATAAGACCATATCTGGGATATGGCATCAGTGTGATATGTGAT-C
1 CGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGCTAC
* * * *
17769254 CGTGTAAGACCATAGCTGGGCTATGGCCTCGGTATGTGATATGTG
1 CGTATAAGACCATATCTGGGATATGGCATCGG--TGTGATATGTG
17769299 ACTATGTGCA
Statistics
Matches: 121, Mismatches: 15, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
46 27 0.22
47 55 0.45
48 11 0.09
50 1 0.01
51 1 0.01
52 26 0.21
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (47 bp):
CGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGCTAC
Found at i:17769286 original size:93 final size:97
Alignment explanation
Indices: 17769092--17769317 Score: 237
Period size: 93 Copynumber: 2.3 Consensus size: 97
17769082 CCATGGCAGC
* * * * *
17769092 ATGTGAAATGTGATTTTCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAAATGTGATATGTG
1 ATGTGATATGTGACTAT-GTATAAGACCATAGCTGGGATATGGCATC-GAG--ATGTGATATGTG
* *
17769157 CTTCCGTATAAGACCATATCCGGGATATGGCATCGG
62 CATCCGTATAAGACCATAGCCGGGATATGGCATCGG
*
17769193 -TGTGATATGTG-CTACTGTATAAGACCATATCTGGGATATGGCATC-AG-TGTGATATGTG-AT
1 ATGTGATATGTGACTA-TGTATAAGACCATAGCTGGGATATGGCATCGAGATGTGATATGTGCAT
* * * *
17769253 CCGTGTAAGACCATAGCTGGGCTATGGCCTCGG
65 CCGTATAAGACCATAGCCGGGATATGGCATCGG
**
17769286 TATGTGATATGTGACTATGTGCAAGACCATAG
1 -ATGTGATATGTGACTATGTATAAGACCATAG
17769318 TTTTACTATG
Statistics
Matches: 106, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
93 29 0.27
94 11 0.10
95 23 0.22
96 3 0.03
97 2 0.02
99 27 0.25
100 11 0.10
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (97 bp):
ATGTGATATGTGACTATGTATAAGACCATAGCTGGGATATGGCATCGAGATGTGATATGTGCATC
CGTATAAGACCATAGCCGGGATATGGCATCGG
Found at i:17771206 original size:15 final size:16
Alignment explanation
Indices: 17771179--17771208 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
17771169 GGGGGCGTTA
17771179 CACATATTATGTTAAC
1 CACATATTATGTTAAC
17771195 CACATA-TATGTTAA
1 CACATATTATGTTAA
17771209 GTAGTGATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.37
Consensus pattern (16 bp):
CACATATTATGTTAAC
Found at i:17773677 original size:37 final size:40
Alignment explanation
Indices: 17773603--17773678 Score: 97
Period size: 37 Copynumber: 2.0 Consensus size: 40
17773593 AAATATTTTG
*
17773603 TATAAACACTTTATATAGCCATTTCATATATCTATTTCCA
1 TATAAACACTTTATATAGCCATTTCATATATCCATTTCCA
*
17773643 TATAAACA-TTT-TGTA-CCATTTCATAT-TACCATTTCC
1 TATAAACACTTTATATAGCCATTTCATATAT-CCATTTCC
17773679 GTTTACTCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
36 1 0.03
37 18 0.55
38 3 0.09
39 3 0.09
40 8 0.24
ACGTcount: A:0.33, C:0.21, G:0.03, T:0.43
Consensus pattern (40 bp):
TATAAACACTTTATATAGCCATTTCATATATCCATTTCCA
Found at i:17780993 original size:5 final size:5
Alignment explanation
Indices: 17780983--17781010 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
17780973 TATATATATA
17780983 ATAAT ATAAT ATAAT ATAAT ATAAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATA
17781011 CTTAATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:17781598 original size:46 final size:46
Alignment explanation
Indices: 17781531--17781706 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
17781521 TATTTGGGCA
17781531 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
17781577 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
* * *
17781624 TCCGAGCTCGTTGAGTTGAGTCCGAGTTTACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
17781670 CCCGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
17781707 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 65 0.60
47 31 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:17781686 original size:93 final size:93
Alignment explanation
Indices: 17781527--17781699 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
17781517 GGGATATTTG
* * *
17781527 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
17781592 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * *
17781620 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTTACTTATGGATGCGAACGCCCGAGCTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
17781685 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
17781700 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:17785226 original size:20 final size:21
Alignment explanation
Indices: 17785192--17785245 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
17785182 TGATGATATT
*
17785192 TTATGATTA-TTTAATTAGATA
1 TTAT-ATTATTTTAATGAGATA
17785213 -TATATTATTTTAATGAGATA
1 TTATATTATTTTAATGAGATA
*
17785233 TTTTATTATTTTA
1 TTATATTATTTTA
17785246 TTATTAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 4 0.14
20 14 0.48
21 11 0.38
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (21 bp):
TTATATTATTTTAATGAGATA
Found at i:17790052 original size:54 final size:54
Alignment explanation
Indices: 17789979--17790116 Score: 231
Period size: 54 Copynumber: 2.6 Consensus size: 54
17789969 ATTGTCGTTG
* *
17789979 CAGGGAATTTAGCCTGGACTGGTAATCCTGACAATACTCTATAAGTTTATATTA
1 CAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATAAGTTTATATTA
* *
17790033 TAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTA
1 CAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATAAGTTTATATTA
*
17790087 CAGGGGATTTAGCCTGGACTAGTAATCCCG
1 CAGGGGATTTAGCCTGGACTGGTAATCCCG
17790117 CTGTAAGGAT
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 78 1.00
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.31
Consensus pattern (54 bp):
CAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATAAGTTTATATTA
Found at i:17790205 original size:25 final size:25
Alignment explanation
Indices: 17790177--17790251 Score: 61
Period size: 25 Copynumber: 3.2 Consensus size: 25
17790167 AACCATGGTT
17790177 GAAAGATACAATGGCAACATGATTA
1 GAAAGATACAATGGCAACATGATTA
** * *
17790202 GAAATG-TGTAA--G-ACCATGGTT-
1 GAAA-GATACAATGGCAACATGATTA
*
17790223 GAAAGATACCATGGCAACATGATTA
1 GAAAGATACAATGGCAACATGATTA
17790248 GAAA
1 GAAA
17790252 TGTGTAAGAC
Statistics
Matches: 35, Mismatches: 9, Indels: 12
0.62 0.16 0.21
Matches are distributed among these distances:
20 1 0.03
21 6 0.17
22 7 0.20
23 2 0.06
24 7 0.20
25 11 0.31
26 1 0.03
ACGTcount: A:0.44, C:0.12, G:0.23, T:0.21
Consensus pattern (25 bp):
GAAAGATACAATGGCAACATGATTA
Found at i:17790209 original size:46 final size:46
Alignment explanation
Indices: 17790154--17790518 Score: 513
Period size: 46 Copynumber: 8.0 Consensus size: 46
17790144 GCTCTCTAAA
* *
17790154 ATGAAATGTGTAAAACCATGGTTGAAAGATACAATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
17790200 -TAGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 AT-GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
17790246 -TAGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 AT-GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** *
17790292 ATGAAA-GAATAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
17790337 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
17790383 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*** *
17790429 ATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * * * *
17790475 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
17790519 TCAAAGATAA
Statistics
Matches: 293, Mismatches: 22, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
45 43 0.15
46 249 0.85
47 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:17790414 original size:137 final size:138
Alignment explanation
Indices: 17790168--17790518 Score: 548
Period size: 137 Copynumber: 2.6 Consensus size: 138
17790158 AATGTGTAAA
*
17790168 ACCATGGTTGAAAGATACAATGGCAACATGAT-TAGAAATGTGTAAGACCATGGTTGAAAGATAC
1 ACCATGGTTGAAAGATACCATGGCAACATGATAT-GAAATGTGTAAGACCATGGTTGAAAGATAC
17790232 CATGGCAACATGATTAGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAA
65 CATGGCAACATGATTAGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAA
*
17790297 A-GAATAAG
130 ATGAACAAG
*
17790305 ACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACC
1 ACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACC
* *
17790370 ATGGCAACCTGA-TATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAA
66 ATGGCAACATGATTA-GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAA
17790434 ATGAACAAG
130 ATGAACAAG
* * * *
17790443 ACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACAC
1 ACCATGGTTGAAAGATACCATGGCAACATGATATG-AAATGTGTAAGACCATGGTTGAAAGATAC
* *
17790507 TATGGCATCATG
65 CATGGCAACATG
17790519 TCAAAGATAA
Statistics
Matches: 197, Mismatches: 13, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
136 2 0.01
137 122 0.62
138 73 0.37
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.22
Consensus pattern (138 bp):
ACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACC
ATGGCAACATGATTAGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAA
TGAACAAG
Found at i:17790462 original size:183 final size:184
Alignment explanation
Indices: 17790154--17790513 Score: 557
Period size: 183 Copynumber: 2.0 Consensus size: 184
17790144 GCTCTCTAAA
17790154 ATGAAATGTGTAAAACCATGGTTGAAAGATACAATGGCAACATGATTAGAAATGTGTAAGACCAT
1 ATGAAATGTGTAAAACCATGGTTGAAAGATACAATGGCAACATGATTAGAAATGTGTAAGACCAT
***
17790219 GGTTGAAAGATACCATGGCAACATGATTAGAAATGTGTAAGACCATGGTTGAAAGATACCATGGC
66 GGTTGAAAGATACCATGGCAACATGATTAGAAATGAACAAGACCATGGTTGAAAGATACCATGGC
* * *
17790284 AACGTGACATG-AAA-GAATAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
131 AACATGACA-GAAAATGAATAAGACCATAGTTGAAAGACACCATGGCAACCTGAT
* * *
17790337 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGA-TATGAAATGTGTAAGACCA
1 ATGAAATGTGTAAAACCATGGTTGAAAGATACAATGGCAACATGATTA-GAAATGTGTAAGACCA
*
17790401 TGGTTGAAAGATACCATGGCAACGTGA-TATGAAATGAACAAGACCATGGTTGAAAGATACCATG
65 TGGTTGAAAGATACCATGGCAACATGATTA-GAAATGAACAAGACCATGGTTGAAAGATACCATG
* *
17790465 GCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
129 GCAACATGACAGAAAATGAATAAGACCATAGTTGAAAGACACCATGGCA
17790514 TCATGTCAAA
Statistics
Matches: 161, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
182 5 0.03
183 128 0.80
184 28 0.17
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.22
Consensus pattern (184 bp):
ATGAAATGTGTAAAACCATGGTTGAAAGATACAATGGCAACATGATTAGAAATGTGTAAGACCAT
GGTTGAAAGATACCATGGCAACATGATTAGAAATGAACAAGACCATGGTTGAAAGATACCATGGC
AACATGACAGAAAATGAATAAGACCATAGTTGAAAGACACCATGGCAACCTGAT
Found at i:17793098 original size:47 final size:49
Alignment explanation
Indices: 17792994--17793101 Score: 125
Period size: 49 Copynumber: 2.2 Consensus size: 49
17792984 TATTTAATTA
17792994 AAAATTTTAAAATATAAAAAAGTATTATAAATATATTTTTAGAATTTTT
1 AAAATTTTAAAATATAAAAAAGTATTATAAATATATTTTTAGAATTTTT
** * * *
17793043 AATGTTTTAATATTTAAAAAA-TAGTTTTATAAT-T-TTTTT-GAATTTTT
1 AAAATTTTAAAATATAAAAAAGTA-TTATA-AATATATTTTTAGAATTTTT
17793090 AAAATTTTAAAA
1 AAAATTTTAAAA
17793102 ATTAATTAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
47 17 0.35
48 7 0.14
49 22 0.45
50 3 0.06
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (49 bp):
AAAATTTTAAAATATAAAAAAGTATTATAAATATATTTTTAGAATTTTT
Found at i:17798895 original size:30 final size:30
Alignment explanation
Indices: 17798861--17798921 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
17798851 GGAAGAATAA
17798861 TATCAGCAAAAAAAAACCAAGATATTTCTT
1 TATCAGCAAAAAAAAACCAAGATATTTCTT
17798891 TATCAGCAAAAAAAAACCAAGATATTTCTT
1 TATCAGCAAAAAAAAACCAAGATATTTCTT
17798921 T
1 T
17798922 CTCTTCTTGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.49, C:0.16, G:0.07, T:0.28
Consensus pattern (30 bp):
TATCAGCAAAAAAAAACCAAGATATTTCTT
Found at i:17804767 original size:20 final size:20
Alignment explanation
Indices: 17804720--17804767 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
17804710 GTTTTTTGGG
17804720 TTTCCAAGCTTTTAGCATAA
1 TTTCCAAGCTTTTAGCATAA
* *
17804740 TCTGCCAAG-TTTTTGCATTAA
1 T-TTCCAAGCTTTTAGCA-TAA
17804761 TTTCCAA
1 TTTCCAA
17804768 AGAAGAGTGG
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.27, C:0.21, G:0.10, T:0.42
Consensus pattern (20 bp):
TTTCCAAGCTTTTAGCATAA
Found at i:17814439 original size:8 final size:8
Alignment explanation
Indices: 17814426--17814455 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
17814416 AAAATAGGCT
17814426 TAAAATGA
1 TAAAATGA
17814434 TAAAATGA
1 TAAAATGA
17814442 TAAAATGA
1 TAAAATGA
17814450 TAAAAT
1 TAAAAT
17814456 TCGGTCCCAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.63, C:0.00, G:0.10, T:0.27
Consensus pattern (8 bp):
TAAAATGA
Found at i:17831652 original size:20 final size:22
Alignment explanation
Indices: 17831610--17831652 Score: 54
Period size: 20 Copynumber: 2.0 Consensus size: 22
17831600 TTAATTGAAG
* *
17831610 AAAATAAAATAATTATTTTTTA
1 AAAATAAAATAATTATATGTTA
17831632 AAAAT-AAA-AATTATATGTTA
1 AAAATAAAATAATTATATGTTA
17831652 A
1 A
17831653 TATTAATAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 11 0.58
21 3 0.16
22 5 0.26
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
AAAATAAAATAATTATATGTTA
Found at i:17832709 original size:6 final size:6
Alignment explanation
Indices: 17832698--17832736 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
17832688 AAAAATCCAT
17832698 TCTCCC TCTCCC TCTCCC TCTCCC TCTCCC TCTCCC TCT
1 TCTCCC TCTCCC TCTCCC TCTCCC TCTCCC TCTCCC TCT
17832737 TGTATTATCG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.00, C:0.64, G:0.00, T:0.36
Consensus pattern (6 bp):
TCTCCC
Found at i:17836122 original size:13 final size:13
Alignment explanation
Indices: 17836104--17836129 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
17836094 TCCGTACAGT
17836104 CCACAGCTTCAGA
1 CCACAGCTTCAGA
17836117 CCACAGCTTCAGA
1 CCACAGCTTCAGA
17836130 TGTTTTACCA
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:0.31, C:0.38, G:0.15, T:0.15
Consensus pattern (13 bp):
CCACAGCTTCAGA
Found at i:17837759 original size:22 final size:23
Alignment explanation
Indices: 17837726--17837773 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 23
17837716 AGGTGTAACT
17837726 TAATAAGCAAATGT-AT-ATAAAA
1 TAATAAGCAAAT-TAATAATAAAA
17837748 TAATAA-CAAAATTAATAATAAAA
1 TAATAAGC-AAATTAATAATAAAA
17837771 TAA
1 TAA
17837774 GAGTTATGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
21 2 0.09
22 12 0.52
23 9 0.39
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.27
Consensus pattern (23 bp):
TAATAAGCAAATTAATAATAAAA
Found at i:17838072 original size:28 final size:26
Alignment explanation
Indices: 17838033--17838090 Score: 80
Period size: 28 Copynumber: 2.2 Consensus size: 26
17838023 TTAAATTAAT
* *
17838033 AAAAATAAATTTTATTTTAATCTTTCTA
1 AAAAACAAATTTTAATTTAAT-TTT-TA
17838061 AAAAACAAATTTTAATTTAATTTTTA
1 AAAAACAAATTTTAATTTAATTTTTA
17838087 AAAA
1 AAAA
17838091 TTATAAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 6 0.21
27 3 0.11
28 19 0.68
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (26 bp):
AAAAACAAATTTTAATTTAATTTTTA
Found at i:17845298 original size:55 final size:55
Alignment explanation
Indices: 17845206--17845325 Score: 206
Period size: 55 Copynumber: 2.2 Consensus size: 55
17845196 TCATCCAATT
*
17845206 AAAATAGA-CAATTTTCATAGATTAATATTTATTAAACACATCTCAATTTGTATG
1 AAAATTGACCAATTTTCATAGATTAATATTTATTAAACACATCTCAATTTGTATG
* *
17845260 GAAATTGACCAATTTTTATAGATTAATATTTATTAAACACATCTCAATTTGTATG
1 AAAATTGACCAATTTTCATAGATTAATATTTATTAAACACATCTCAATTTGTATG
17845315 AAAATTGACCA
1 AAAATTGACCA
17845326 CTCTATTACC
Statistics
Matches: 61, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
54 6 0.10
55 55 0.90
ACGTcount: A:0.42, C:0.12, G:0.08, T:0.38
Consensus pattern (55 bp):
AAAATTGACCAATTTTCATAGATTAATATTTATTAAACACATCTCAATTTGTATG
Found at i:17846524 original size:12 final size:12
Alignment explanation
Indices: 17846484--17846518 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
17846474 CTTTCCGGCT
17846484 ATCCTTCTTCTC
1 ATCCTTCTTCTC
*
17846496 ATCCTTATTCTC
1 ATCCTTCTTCTC
17846508 ATCCTTCTTCT
1 ATCCTTCTTCT
17846519 TCTCCTCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.11, C:0.37, G:0.00, T:0.51
Consensus pattern (12 bp):
ATCCTTCTTCTC
Found at i:17852512 original size:22 final size:21
Alignment explanation
Indices: 17852487--17852536 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 21
17852477 AAATATTTCA
17852487 TTTTATATTGCAATTTT-AATTT
1 TTTTATATT-C-ATTTTAAATTT
17852509 TTTTAATATTCATTTTAAATTT
1 TTTT-ATATTCATTTTAAATTT
17852531 TCTTTA
1 T-TTTA
17852537 ATTATAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
21 5 0.20
22 12 0.48
23 8 0.32
ACGTcount: A:0.28, C:0.06, G:0.02, T:0.64
Consensus pattern (21 bp):
TTTTATATTCATTTTAAATTT
Found at i:17855264 original size:21 final size:21
Alignment explanation
Indices: 17855238--17855292 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
17855228 CACCATTGTT
** *
17855238 TCTAATCTCAGTGCTACAGTA
1 TCTAATCTCACCGCTACAATA
*
17855259 TCTAATCTTACCGCTACAATA
1 TCTAATCTCACCGCTACAATA
*
17855280 ACTAATCTCACCG
1 TCTAATCTCACCG
17855293 TCACCGCTGT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.31, C:0.29, G:0.09, T:0.31
Consensus pattern (21 bp):
TCTAATCTCACCGCTACAATA
Found at i:17860307 original size:43 final size:41
Alignment explanation
Indices: 17860210--17860377 Score: 182
Period size: 43 Copynumber: 4.0 Consensus size: 41
17860200 GTTATTGAGA
17860210 TATGATTACATGTAAGACCATGTCT-GGACATTGGCATTG-
1 TATGATTACATGTAAGACCATGTCTGGGACATTGGCATTGT
17860249 TATTGATATTACATGTAAGACCATGTCTGGGACATTGGCATTGT
1 TA-TG--ATTACATGTAAGACCATGTCTGGGACATTGGCATTGT
* * *
17860293 TAATCGATTTCATGTAAGACCCTGTCTGGGAC-TGTGGCATCGAT
1 T-AT-GATTACATGTAAGACCATGTCTGGGACAT-TGGCATTG-T
* * *
17860337 GTATGATAACATGTAAGACCATATCTGGGATA-TGGCATTGT
1 -TATGATTACATGTAAGACCATGTCTGGGACATTGGCATTGT
17860378 ATAAGCTTAT
Statistics
Matches: 109, Mismatches: 9, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
39 2 0.02
40 2 0.02
41 1 0.01
42 29 0.27
43 67 0.61
44 5 0.05
45 3 0.03
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.33
Consensus pattern (41 bp):
TATGATTACATGTAAGACCATGTCTGGGACATTGGCATTGT
Found at i:17860377 original size:85 final size:84
Alignment explanation
Indices: 17860213--17860377 Score: 212
Period size: 86 Copynumber: 1.9 Consensus size: 84
17860203 ATTGAGATAT
*
17860213 GATTACATGTAAGACCATGTCTGGACATTGGCATTGTATTGATATTACATGTAAGACCATGTCTG
1 GATTACATGTAAGACCATGTCTGGACATTGGCATTGTATTGATA-TACATGTAAGACCATATCTG
17860278 GGACATTGGCATTGTTAATC
65 GGACATTGGCATTGTTAATC
* *
17860298 GATTTCATGTAAGACCCTGTCTGGGAC-TGTGGCATCGATGTA-TGATA-ACATGTAAGACCATA
1 GATTACATGTAAGACCATGTCT-GGACAT-TGGCAT---TGTATTGATATACATGTAAGACCATA
*
17860360 TCTGGGATA-TGGCATTGT
61 TCTGGGACATTGGCATTGT
17860378 ATAAGCTTAT
Statistics
Matches: 71, Mismatches: 4, Indels: 10
0.84 0.05 0.12
Matches are distributed among these distances:
85 30 0.42
86 32 0.45
88 5 0.07
89 4 0.06
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (84 bp):
GATTACATGTAAGACCATGTCTGGACATTGGCATTGTATTGATATACATGTAAGACCATATCTGG
GACATTGGCATTGTTAATC
Found at i:17861278 original size:16 final size:16
Alignment explanation
Indices: 17861257--17861299 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
17861247 ACAACAAGTC
17861257 TTTCATTTTAAACATA
1 TTTCATTTTAAACATA
17861273 TTTCATTTTAAACATA
1 TTTCATTTTAAACATA
*
17861289 TTTCACTTTAA
1 TTTCATTTTAA
17861300 CCAATATCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.35, C:0.14, G:0.00, T:0.51
Consensus pattern (16 bp):
TTTCATTTTAAACATA
Found at i:17863037 original size:46 final size:46
Alignment explanation
Indices: 17862968--17863093 Score: 166
Period size: 46 Copynumber: 2.7 Consensus size: 46
17862958 ATAATCTCAC
*
17862968 CCATAATGAACTCGGAACGCAACTCAACGAGCTTGAG-TG-TTCGCAT
1 CCATAATGAACTCGGAACGCAACTCAACGAG-TTCAGATGCTT-GCAT
*
17863014 CCATAATGAACTCGGAACACAACTCAACGAGTTCAGATGCTTGCAT
1 CCATAATGAACTCGGAACGCAACTCAACGAGTTCAGATGCTTGCAT
* * *
17863060 CTATAGGTGAACTCGAAACGCAACTCAACGAGTT
1 CCATA-ATGAACTCGGAACGCAACTCAACGAGTT
17863094 TGGATTCCTC
Statistics
Matches: 71, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
45 4 0.06
46 40 0.56
47 27 0.38
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAATGAACTCGGAACGCAACTCAACGAGTTCAGATGCTTGCAT
Found at i:17863761 original size:20 final size:21
Alignment explanation
Indices: 17863727--17863780 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
17863717 TGATGATATC
*
17863727 TTATGATTA-TTTAATTAGATA
1 TTAT-ATTATTTTAATGAGATA
17863748 -TATATTATTTTAATGAGATA
1 TTATATTATTTTAATGAGATA
*
17863768 TTTTATTATTTTA
1 TTATATTATTTTA
17863781 TTATTATTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 4 0.14
20 14 0.48
21 11 0.38
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (21 bp):
TTATATTATTTTAATGAGATA
Found at i:17863784 original size:3 final size:3
Alignment explanation
Indices: 17863766--17863814 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
17863756 TTTAATGAGA
*
17863766 TAT T-T TAT TAT T-T TAT TAT TAT T-T CAT TAT TAT T-T TAT TAT TAAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT
17863811 TAT T
1 TAT T
17863815 TAGTATAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
2 7 0.18
3 29 0.74
4 3 0.08
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:17863786 original size:11 final size:11
Alignment explanation
Indices: 17863770--17863808 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
17863760 ATGAGATATT
17863770 TTATTATTTTA
1 TTATTATTTTA
*
17863781 TTATTATTTCA
1 TTATTATTTTA
17863792 TTATTATTTTA
1 TTATTATTTTA
17863803 TTATTA
1 TTATTA
17863809 ATTATTTAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:17863794 original size:19 final size:19
Alignment explanation
Indices: 17863766--17863807 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
17863756 TTTAATGAGA
*
17863766 TATTTTATTATT-TTATTAT
1 TATTTCATTATTATT-TTAT
17863785 TATTTCATTATTATTTTAT
1 TATTTCATTATTATTTTAT
17863804 TATT
1 TATT
17863808 AATTATTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.71
Consensus pattern (19 bp):
TATTTCATTATTATTTTAT
Found at i:17866042 original size:46 final size:46
Alignment explanation
Indices: 17865920--17866231 Score: 493
Period size: 46 Copynumber: 6.8 Consensus size: 46
17865910 GCTCTCTGAA
* * *
17865920 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACGTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** *
17865966 ATGAAA-GAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
17866011 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
17866057 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** *
17866103 ATGAAA-GAATAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * *
17866148 ATGAAATGTGCAAGACCATGGTTGAAAGATACCATGGAAACCTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
17866194 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGC
17866232 TGTAATGACC
Statistics
Matches: 246, Mismatches: 18, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
45 82 0.33
46 164 0.67
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:17866116 original size:91 final size:92
Alignment explanation
Indices: 17865920--17866231 Score: 493
Period size: 91 Copynumber: 3.4 Consensus size: 92
17865910 GCTCTCTGAA
* * * **
17865920 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACGTGACATGAAA-GAATAAGACCAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCAT
*
17865984 GGTTGAAAGATACCATGGCAACGTGAT
66 GGTTGAAAGATACCATGGCAACATGAT
17866011 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCAT
*
17866076 GGTTGAAAGATACCATGGCAACATGAC
66 GGTTGAAAGATACCATGGCAACATGAT
** * *
17866103 ATGAAA-GAATAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGCAAGACCAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCAT
* *
17866167 GGTTGAAAGATACCATGGAAACCTGAT
66 GGTTGAAAGATACCATGGCAACATGAT
17866194 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGC
17866232 TGTAATGACC
Statistics
Matches: 203, Mismatches: 16, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
91 133 0.66
92 70 0.34
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (92 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCAT
GGTTGAAAGATACCATGGCAACATGAT
Found at i:17866166 original size:137 final size:137
Alignment explanation
Indices: 17865920--17866231 Score: 570
Period size: 137 Copynumber: 2.3 Consensus size: 137
17865910 GCTCTCTGAA
* *
17865920 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACGTGACATGAAAGAATAAGACCATG
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAGAATAAGACCATG
* * *
17865985 GTTGAAAGATACCATGGCAACGTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
66 GTTGAAAGATACCATGGCAACCTGATATGAAATGTGCAAGACCATGGTTGAAAGATACCATGGAA
17866050 ACATGAT
131 ACATGAT
17866057 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAGAATAAGACCATG
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAGAATAAGACCATG
17866122 GTTGAAAGATACCATGGCAACCTGATATGAAATGTGCAAGACCATGGTTGAAAGATACCATGGAA
66 GTTGAAAGATACCATGGCAACCTGATATGAAATGTGCAAGACCATGGTTGAAAGATACCATGGAA
*
17866187 ACCTGAT
131 ACATGAT
17866194 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGC
17866232 TGTAATGACC
Statistics
Matches: 169, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 169 1.00
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (137 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAGAATAAGACCATG
GTTGAAAGATACCATGGCAACCTGATATGAAATGTGCAAGACCATGGTTGAAAGATACCATGGAA
ACATGAT
Found at i:17869177 original size:25 final size:25
Alignment explanation
Indices: 17869149--17869282 Score: 150
Period size: 25 Copynumber: 5.5 Consensus size: 25
17869139 TAGCACATTT
17869149 GTGCTCTCTGATATTTAGCACGCCA
1 GTGCTCTCTGATATTTAGCACGCCA
* ****
17869174 GTGCTCACTG--A-TTAGCACATTT
1 GTGCTCTCTGATATTTAGCACGCCA
17869196 GTGCTCTCTGATATTTAGCACGCCA
1 GTGCTCTCTGATATTTAGCACGCCA
* * *
17869221 ATGCTCTCTGAT-TACTAGCACGCTA
1 GTGCTCTCTGATAT-TTAGCACGCCA
*
17869246 GTGCTCTCTGATATTTAGCACGTCA
1 GTGCTCTCTGATATTTAGCACGCCA
17869271 GTGCTCTCTGAT
1 GTGCTCTCTGAT
17869283 TAGCACATTT
Statistics
Matches: 87, Mismatches: 17, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
22 16 0.18
23 1 0.01
24 2 0.02
25 67 0.77
26 1 0.01
ACGTcount: A:0.20, C:0.26, G:0.19, T:0.34
Consensus pattern (25 bp):
GTGCTCTCTGATATTTAGCACGCCA
Found at i:17869197 original size:47 final size:47
Alignment explanation
Indices: 17869128--17869324 Score: 274
Period size: 47 Copynumber: 4.2 Consensus size: 47
17869118 GACTTCAGCA
17869128 TGCTCTCTGATTAGCACATTTGTGCTCTCTGATATTTAGCACGCCAG
1 TGCTCTCTGATTAGCACATTTGTGCTCTCTGATATTTAGCACGCCAG
* *
17869175 TGCTCACTGATTAGCACATTTGTGCTCTCTGATATTTAGCACGCCAA
1 TGCTCTCTGATTAGCACATTTGTGCTCTCTGATATTTAGCACGCCAG
** * *
17869222 TGCTCTCTGATTACTAGCACGCTAGTGCTCTCTGATATTTAGCACGTCAG
1 TGCTCTCTGA-T--TAGCACATTTGTGCTCTCTGATATTTAGCACGCCAG
**
17869272 TGCTCTCTGATTAGCACATTTGTGCTCTCTG-TA--TAGCACTTCAG
1 TGCTCTCTGATTAGCACATTTGTGCTCTCTGATATTTAGCACGCCAG
17869316 TGCTCTCTG
1 TGCTCTCTG
17869325 TTCATTAGTG
Statistics
Matches: 135, Mismatches: 12, Indels: 9
0.87 0.08 0.06
Matches are distributed among these distances:
44 19 0.14
46 2 0.01
47 71 0.53
48 1 0.01
49 1 0.01
50 41 0.30
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.36
Consensus pattern (47 bp):
TGCTCTCTGATTAGCACATTTGTGCTCTCTGATATTTAGCACGCCAG
Found at i:17869325 original size:22 final size:23
Alignment explanation
Indices: 17869119--17869325 Score: 124
Period size: 25 Copynumber: 8.7 Consensus size: 23
17869109 ATGTTAAGGG
17869119 ACTTCAGCATGCTCTCTG-ATTAGC
1 ACTTCAG--TGCTCTCTGTATTAGC
*
17869143 ACATT-TGTGCTCTCTGATATTTAGC
1 AC-TTCAGTGCTCTCTG-TA-TTAGC
** *
17869168 ACGCCAGTGCTCACTG-ATTAGC
1 ACTTCAGTGCTCTCTGTATTAGC
*
17869190 ACATT-TGTGCTCTCTGATATTTAGC
1 AC-TTCAGTGCTCTCTG-TA-TTAGC
** * *
17869215 ACGCCAATGCTCTCTGATTACTAGC
1 ACTTCAGTGCTCTCTG--TATTAGC
*
17869240 AC-GCTAGTGCTCTCTGATATTTAGC
1 ACTTC-AGTGCTCTCTG-TA-TTAGC
*
17869265 ACGTCAGTGCTCTCTG-ATTAGC
1 ACTTCAGTGCTCTCTGTATTAGC
*
17869287 ACATT-TGTGCTCTCTGTA-TAGC
1 AC-TTCAGTGCTCTCTGTATTAGC
17869309 ACTTCAGTGCTCTCTGT
1 ACTTCAGTGCTCTCTGT
17869326 TCATTAGTGC
Statistics
Matches: 143, Mismatches: 23, Indels: 36
0.71 0.11 0.18
Matches are distributed among these distances:
21 2 0.01
22 59 0.41
23 4 0.03
24 8 0.06
25 67 0.47
26 3 0.02
ACGTcount: A:0.20, C:0.26, G:0.18, T:0.36
Consensus pattern (23 bp):
ACTTCAGTGCTCTCTGTATTAGC
Found at i:17871926 original size:53 final size:53
Alignment explanation
Indices: 17871770--17871935 Score: 221
Period size: 53 Copynumber: 3.1 Consensus size: 53
17871760 GACGAAAAAT
* **
17871770 ATGTGATAAGTGTG-C-CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCA
1 ATGTGATAA-TGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
17871822 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
* * *
17871875 ATGTGATAATGTGATTCCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGA
1 ATGTGATAATGTGACTCCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A
17871929 TATGTGA
1 -ATGTGA
17871936 ACCGTGTAAG
Statistics
Matches: 103, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
51 4 0.04
52 11 0.11
53 81 0.79
54 1 0.01
55 6 0.06
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (53 bp):
ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
Found at i:17879033 original size:53 final size:53
Alignment explanation
Indices: 17878877--17879042 Score: 221
Period size: 53 Copynumber: 3.1 Consensus size: 53
17878867 GACGAAAAAT
* **
17878877 ATGTGATAAGTGTG-C-CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCA
1 ATGTGATAA-TGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
17878929 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
* * *
17878982 ATGTGATAATGTGATTCCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGA
1 ATGTGATAATGTGACTCCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A
17879036 TATGTGA
1 -ATGTGA
17879043 ACCGTGTAAG
Statistics
Matches: 103, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
51 4 0.04
52 11 0.11
53 81 0.79
54 1 0.01
55 6 0.06
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (53 bp):
ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
Found at i:17880853 original size:237 final size:237
Alignment explanation
Indices: 17880438--17880911 Score: 948
Period size: 237 Copynumber: 2.0 Consensus size: 237
17880428 GTACTTTGAA
17880438 ATTGTATATAAATGTTTATATCAGATACAGATACCTTTAGAACTGTTACAACTAGAAAGGATTTC
1 ATTGTATATAAATGTTTATATCAGATACAGATACCTTTAGAACTGTTACAACTAGAAAGGATTTC
17880503 AGAATGGAAATGGGATATAATTTCTATGGGTTTGAATTGGAATTATCTCGATCTTCGAAAAAGAA
66 AGAATGGAAATGGGATATAATTTCTATGGGTTTGAATTGGAATTATCTCGATCTTCGAAAAAGAA
17880568 AGACGGTATTTAAATAATCGTCGAAAGTATGGTAAAGTCTGCATATTCTATTCAGGTATGACTAC
131 AGACGGTATTTAAATAATCGTCGAAAGTATGGTAAAGTCTGCATATTCTATTCAGGTATGACTAC
17880633 ATTTCTTACTTAATAATTGTCTAAAATATGGGTTTCTGAGGT
196 ATTTCTTACTTAATAATTGTCTAAAATATGGGTTTCTGAGGT
17880675 ATTGTATATAAATGTTTATATCAGATACAGATACCTTTAGAACTGTTACAACTAGAAAGGATTTC
1 ATTGTATATAAATGTTTATATCAGATACAGATACCTTTAGAACTGTTACAACTAGAAAGGATTTC
17880740 AGAATGGAAATGGGATATAATTTCTATGGGTTTGAATTGGAATTATCTCGATCTTCGAAAAAGAA
66 AGAATGGAAATGGGATATAATTTCTATGGGTTTGAATTGGAATTATCTCGATCTTCGAAAAAGAA
17880805 AGACGGTATTTAAATAATCGTCGAAAGTATGGTAAAGTCTGCATATTCTATTCAGGTATGACTAC
131 AGACGGTATTTAAATAATCGTCGAAAGTATGGTAAAGTCTGCATATTCTATTCAGGTATGACTAC
17880870 ATTTCTTACTTAATAATTGTCTAAAATATGGGTTTCTGAGGT
196 ATTTCTTACTTAATAATTGTCTAAAATATGGGTTTCTGAGGT
17880912 TGTTAGATCA
Statistics
Matches: 237, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
237 237 1.00
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.35
Consensus pattern (237 bp):
ATTGTATATAAATGTTTATATCAGATACAGATACCTTTAGAACTGTTACAACTAGAAAGGATTTC
AGAATGGAAATGGGATATAATTTCTATGGGTTTGAATTGGAATTATCTCGATCTTCGAAAAAGAA
AGACGGTATTTAAATAATCGTCGAAAGTATGGTAAAGTCTGCATATTCTATTCAGGTATGACTAC
ATTTCTTACTTAATAATTGTCTAAAATATGGGTTTCTGAGGT
Found at i:17882121 original size:20 final size:20
Alignment explanation
Indices: 17882096--17882135 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
17882086 ATTTAAGTAT
17882096 TAAAAGATATTTATTAATTA
1 TAAAAGATATTTATTAATTA
17882116 TAAAAGATATTTATTAATTA
1 TAAAAGATATTTATTAATTA
17882136 AATAATTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (20 bp):
TAAAAGATATTTATTAATTA
Found at i:17882380 original size:19 final size:19
Alignment explanation
Indices: 17882350--17882390 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
17882340 GAAAAGAAAG
17882350 AAAGAAAGGAAGAAAGGAGA
1 AAAGAAAGGAAGAAAGG-GA
17882370 AAAGAAA-GAAGAAAGGGA
1 AAAGAAAGGAAGAAAGGGA
17882388 AAA
1 AAA
17882391 TTGAAGGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 5 0.24
19 9 0.43
20 7 0.33
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (19 bp):
AAAGAAAGGAAGAAAGGGA
Found at i:17884003 original size:46 final size:46
Alignment explanation
Indices: 17883929--17884077 Score: 201
Period size: 46 Copynumber: 3.2 Consensus size: 46
17883919 GGGTATTACA
* *
17883929 ATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACC
1 ATGGCAACATGATATGAAATGAGTAAGACCATGGTTGAAAGATACC
**
17883975 ATGGCAACATGATATGAAATGAACAAGACCATGGTTGAAAGATACC
1 ATGGCAACATGATATGAAATGAGTAAGACCATGGTTGAAAGATACC
* * * *
17884021 ATGGCAACATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACT
1 ATGGCAACATGATATG-AAATGAGTAAGACCATGGTTGAAAGATACC
*
17884067 ATGGCATCATG
1 ATGGCAACATG
17884078 CAAAGATAAA
Statistics
Matches: 91, Mismatches: 11, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
45 1 0.01
46 90 0.99
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (46 bp):
ATGGCAACATGATATGAAATGAGTAAGACCATGGTTGAAAGATACC
Found at i:17890172 original size:43 final size:42
Alignment explanation
Indices: 17890089--17890184 Score: 104
Period size: 43 Copynumber: 2.3 Consensus size: 42
17890079 CCATGTTTGA
* * * * **
17890089 GACATTGGCATCGTATTTGATTTCGTTTAAAACCTTGTCTGG
1 GACAGTGGCATCGTATTTGATTACATGTAAAACCACGTCTGG
*
17890131 GACAGTGGCATCGATATTTGATTACATGTAATACCACGTCTGG
1 GACAGTGGCATCG-TATTTGATTACATGTAAAACCACGTCTGG
17890174 GAC-GTTGGCAT
1 GACAG-TGGCAT
17890185 TGTACGAGCT
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
42 13 0.29
43 32 0.71
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (42 bp):
GACAGTGGCATCGTATTTGATTACATGTAAAACCACGTCTGG
Found at i:17892057 original size:46 final size:46
Alignment explanation
Indices: 17891999--17892166 Score: 200
Period size: 46 Copynumber: 3.6 Consensus size: 46
17891989 TACATCTCAC
* *
17891999 GAACTCAGACTCAACTCAATGAGTTCAGACGTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCATCCATAAGT
* * * * *
17892045 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT-C-TCA-C
1 GAACTCGGACTCAACTCAACGAGTTC--A-GAC--GTTCGCATCCATAAGT
17892092 GAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCATCCATAAGT
17892138 GAACTCGGACTCAACTCAACGAGTTCAGA
1 GAACTCGGACTCAACTCAACGAGTTCAGA
17892167 TGCCCAAATA
Statistics
Matches: 101, Mismatches: 12, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
42 3 0.03
43 3 0.03
44 3 0.03
45 3 0.03
46 52 0.51
47 25 0.25
48 3 0.03
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCATCCATAAGT
Found at i:17892059 original size:93 final size:93
Alignment explanation
Indices: 17891944--17892172 Score: 404
Period size: 93 Copynumber: 2.5 Consensus size: 93
17891934 TGTAACGCGC
*
17891944 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGATGCCCAGTTACATCTCACGAACTCAGAC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCCAGTTACATCTCACGAACTCAGAC
*
17892009 TCAACTCAATGAGTTCAGACGTTCGCAT
66 TCAACTCAACGAGTTCAGACGTTCGCAT
* *
17892037 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCACGAACTCGGAC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCCAGTTACATCTCACGAACTCAGAC
17892102 TCAACTCAACGAGTTCAGACGTTCGCAT
66 TCAACTCAACGAGTTCAGACGTTCGCAT
* *
17892130 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGATGCCCA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCCA
17892173 AATATCCGAA
Statistics
Matches: 129, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 129 1.00
ACGTcount: A:0.30, C:0.31, G:0.19, T:0.21
Consensus pattern (93 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCCAGTTACATCTCACGAACTCAGAC
TCAACTCAACGAGTTCAGACGTTCGCAT
Found at i:17892103 original size:47 final size:46
Alignment explanation
Indices: 17891951--17892114 Score: 183
Period size: 47 Copynumber: 3.5 Consensus size: 46
17891941 CGCCCATAAG
17891951 CGAACTCGGACTCAACTCAACGAGCTCGGATGCCCAGTTACATCTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGATG-CCAGTTACATCTCA
* * * * * *
17891998 CGAACTCAGACTCAACTCAATGAGTTC--A-GAC-GTTCGCATCCATAA
1 CGAACTCGGACTCAACTCAACGAGCTCGGATGCCAGTT-ACAT-C-TCA
*
17892043 GTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCA
1 -CGAACTCGGACTCAACTCAACGAGCTCGGATGCC-AGTTACATCTCA
17892091 CGAACTCGGACTCAACTCAACGAG
1 CGAACTCGGACTCAACTCAACGAG
17892115 TTCAGACGTT
Statistics
Matches: 94, Mismatches: 14, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
44 2 0.02
45 3 0.03
46 23 0.24
47 47 0.50
48 3 0.03
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.31, G:0.19, T:0.20
Consensus pattern (46 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGATGCCAGTTACATCTCA
Found at i:17892500 original size:27 final size:27
Alignment explanation
Indices: 17892444--17892501 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 27
17892434 AAATGGTCAT
* *
17892444 TTTTACCATTTTGTCCATAATTTGGTA
1 TTTTACCATTTTGCCCATAATTTAGTA
17892471 TTTTACCGATTTTAGCCCA-AATTTAG-A
1 TTTTACC-ATTTT-GCCCATAATTTAGTA
17892498 TTTT
1 TTTT
17892502 TCTTGCTCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 12 0.44
28 11 0.41
29 4 0.15
ACGTcount: A:0.24, C:0.16, G:0.10, T:0.50
Consensus pattern (27 bp):
TTTTACCATTTTGCCCATAATTTAGTA
Found at i:17892502 original size:28 final size:26
Alignment explanation
Indices: 17892442--17892502 Score: 61
Period size: 28 Copynumber: 2.2 Consensus size: 26
17892432 GAAAATGGTC
*
17892442 ATTTTTACCATTTTGTCCATAATTTG
1 ATTTTTACCATTTTGCCCATAATTTG
*
17892468 GTATTTTACCGATTTTAGCCCA-AATTTAG
1 AT-TTTTACC-ATTTT-GCCCATAATTT-G
17892497 ATTTTT
1 ATTTTT
17892503 CTTGCTCTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
26 1 0.04
27 7 0.25
28 14 0.50
29 6 0.21
ACGTcount: A:0.25, C:0.15, G:0.10, T:0.51
Consensus pattern (26 bp):
ATTTTTACCATTTTGCCCATAATTTG
Found at i:17898620 original size:13 final size:13
Alignment explanation
Indices: 17898602--17898628 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
17898592 AGTTTATCGG
17898602 AATTATTATAATT
1 AATTATTATAATT
17898615 AATTATTATAATT
1 AATTATTATAATT
17898628 A
1 A
17898629 TGATTTTGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
AATTATTATAATT
Found at i:17899471 original size:28 final size:28
Alignment explanation
Indices: 17899439--17899497 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
17899429 TAAATTATTG
17899439 ATAGTTGAATGTTAGTTTTAAAGAATGA
1 ATAGTTGAATGTTAGTTTTAAAGAATGA
17899467 ATAGTTGAATGTTAGTTTTAAAGAATGA
1 ATAGTTGAATGTTAGTTTTAAAGAATGA
17899495 ATA
1 ATA
17899498 ATTGTGATTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.41, C:0.00, G:0.20, T:0.39
Consensus pattern (28 bp):
ATAGTTGAATGTTAGTTTTAAAGAATGA
Found at i:17901873 original size:38 final size:38
Alignment explanation
Indices: 17901828--17901992 Score: 183
Period size: 38 Copynumber: 4.3 Consensus size: 38
17901818 GGCTTAAAGA
*
17901828 CCCGCAGGCTAT-ATGCTGGAATTATATCTGGGTTAAAT
1 CCCGCAGGCT-TCATGCTGGAATTATATCCGGGTTAAAT
*
17901866 CCCGCAGGCTTCGTGCTGGTAA-TATATCCGGGTTAAAT
1 CCCGCAGGCTTCATGCTGG-AATTATATCCGGGTTAAAT
* *
17901904 CCCGCAGGCTTCATGCTGGTATTATATCCGGGCTAAAT
1 CCCGCAGGCTTCATGCTGGAATTATATCCGGGTTAAAT
* * * *
17901942 CCCGCAGGCCT-AGTGCTGGTATTATATCTGAGTTTAAAGT
1 CCCGCAGGCTTCA-TGCTGGAATTATATCCG-GGTTAAA-T
*
17901982 CCCGTAGGCTT
1 CCCGCAGGCTT
17901993 TGTGCTAGTG
Statistics
Matches: 110, Mismatches: 11, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
37 3 0.03
38 90 0.82
39 7 0.06
40 10 0.09
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.30
Consensus pattern (38 bp):
CCCGCAGGCTTCATGCTGGAATTATATCCGGGTTAAAT
Found at i:17901922 original size:76 final size:77
Alignment explanation
Indices: 17901821--17901992 Score: 222
Period size: 76 Copynumber: 2.2 Consensus size: 77
17901811 GTATTCGGGC
* * * * *
17901821 TTAAAGACCCGCAGGCTATATGCTGGAATTATATCTGGGTTAAATCCCGCAGGCTTCGTGCTGGT
1 TTAAAGTCCCGCAGGCT-TATGCTGGAATTATATCCGGGCTAAATCCCGCAGGCCTAGTGCTGGT
17901886 AATATATCCG-GG
65 AATATATCCGAGG
*
17901898 TTAAA-TCCCGCAGGCTTCATGCTGGTATTATATCCGGGCTAAATCCCGCAGGCCTAGTGCTGGT
1 TTAAAGTCCCGCAGGCTT-ATGCTGGAATTATATCCGGGCTAAATCCCGCAGGCCTAGTGCTGGT
* * *
17901962 ATTATATCTGAGT
65 AATATATCCGAGG
*
17901975 TTAAAGTCCCGTAGGCTT
1 TTAAAGTCCCGCAGGCTT
17901993 TGTGCTAGTG
Statistics
Matches: 82, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
75 1 0.01
76 59 0.72
77 11 0.13
78 11 0.13
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.30
Consensus pattern (77 bp):
TTAAAGTCCCGCAGGCTTATGCTGGAATTATATCCGGGCTAAATCCCGCAGGCCTAGTGCTGGTA
ATATATCCGAGG
Found at i:17907907 original size:75 final size:76
Alignment explanation
Indices: 17907729--17907908 Score: 229
Period size: 75 Copynumber: 2.4 Consensus size: 76
17907719 TGGGCACACA
* *
17907729 ACCGTCGGTTAATCCGACTAGCGCTGGGCGCAATTCACCGTTGGTTTATCCAACTAGAGCTGGAC
1 ACCGTCGGTTAATCCGACTAGCGCTGGGCACAAATCACCGTTGGTTTATCCAACTAGAGCTGGAC
17907794 TCACAATTCTT
66 TCACAATTCTT
* * * * * * ** *
17907805 ATCGTAGGTTAACCCGGCTAGCACTGGGTACAAAT-ATTGTTGGTTTATCCAACTAGAGCTGGGC
1 ACCGTCGGTTAATCCGACTAGCGCTGGGCACAAATCACCGTTGGTTTATCCAACTAGAGCTGGAC
17907869 TCAC-ATTCATT
66 TCACAATTC-TT
*
17907880 ACCGTCGGTTAATCCGACTAGTGCTGGGC
1 ACCGTCGGTTAATCCGACTAGCGCTGGGC
17907909 GCAACCTCTT
Statistics
Matches: 85, Mismatches: 18, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
74 4 0.05
75 54 0.64
76 27 0.32
ACGTcount: A:0.23, C:0.25, G:0.24, T:0.28
Consensus pattern (76 bp):
ACCGTCGGTTAATCCGACTAGCGCTGGGCACAAATCACCGTTGGTTTATCCAACTAGAGCTGGAC
TCACAATTCTT
Found at i:17912161 original size:60 final size:62
Alignment explanation
Indices: 17912049--17912171 Score: 180
Period size: 61 Copynumber: 2.0 Consensus size: 62
17912039 TCAATTTGTA
* *
17912049 TTAGATATTATAATTATTTAAATTTATTTTTATCTAATTAATATTTAGATACTA-TTTATAT
1 TTAGATATTATAATTATTTAAATTTATTTTTATCCAAATAATATTTAGATACTATTTTATAT
* *
17912110 TTAGATATTGTAATTA-TTAAATTTTATTTTTA-CCAAATAATATTTATATACTATTTTATAT
1 TTAGATATTATAATTATTTAAA-TTTATTTTTATCCAAATAATATTTAGATACTATTTTATAT
17912171 T
1 T
17912172 ATTTGACTAA
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
60 23 0.41
61 33 0.59
ACGTcount: A:0.37, C:0.04, G:0.03, T:0.55
Consensus pattern (62 bp):
TTAGATATTATAATTATTTAAATTTATTTTTATCCAAATAATATTTAGATACTATTTTATAT
Found at i:17914000 original size:58 final size:60
Alignment explanation
Indices: 17913935--17914060 Score: 166
Period size: 58 Copynumber: 2.1 Consensus size: 60
17913925 AATATAAATA
* * * *
17913935 AATTACCTTATTACAACCATACCTTTGGAAACAAATC-A-AAGGTTTCCTCGTCCTCACT
1 AATTACCTTATTACAACCACAACTTTGGAAACAAATCAATAAAGTTTCCTCGGCCTCACT
* *
17913993 AATTACCTTATTACACCCACAATTTTGGAAACAAATCAAATTAAAGTTTCCTCGGCCTCACT
1 AATTACCTTATTACAACCACAACTTTGGAAACAAATC-AA-TAAAGTTTCCTCGGCCTCACT
17914055 AATTAC
1 AATTAC
17914061 TCAGTAAGTC
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
58 33 0.57
60 1 0.02
62 24 0.41
ACGTcount: A:0.35, C:0.26, G:0.08, T:0.31
Consensus pattern (60 bp):
AATTACCTTATTACAACCACAACTTTGGAAACAAATCAATAAAGTTTCCTCGGCCTCACT
Found at i:17919732 original size:25 final size:25
Alignment explanation
Indices: 17919704--17919752 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
17919694 CAACAAAAAT
* *
17919704 AAAATCTATTCTAGAAAGAAAAAGG
1 AAAATCTAATCTAAAAAGAAAAAGG
*
17919729 AAAATCTAATCTAAAAATAAAAAG
1 AAAATCTAATCTAAAAAGAAAAAG
17919753 AATATAAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.61, C:0.08, G:0.10, T:0.20
Consensus pattern (25 bp):
AAAATCTAATCTAAAAAGAAAAAGG
Found at i:17923849 original size:69 final size:69
Alignment explanation
Indices: 17923738--17923867 Score: 251
Period size: 69 Copynumber: 1.9 Consensus size: 69
17923728 TGGGATGCTA
*
17923738 AAACTATGCTATGATCATGTAGAATAATGATTTCAAGCTATAACCAAAGTTTGCATGAAGCCGAG
1 AAACTATGCTATGATCATGTAGAATAATGATTCCAAGCTATAACCAAAGTTTGCATGAAGCCGAG
17923803 ATAG
66 ATAG
17923807 AAACTATGCTATGATCATGTAGAATAATGATTCCAAGCTATAACCAAAGTTTGCATGAAGC
1 AAACTATGCTATGATCATGTAGAATAATGATTCCAAGCTATAACCAAAGTTTGCATGAAGC
17923868 ATATCTGAAG
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
69 60 1.00
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (69 bp):
AAACTATGCTATGATCATGTAGAATAATGATTCCAAGCTATAACCAAAGTTTGCATGAAGCCGAG
ATAG
Found at i:17929284 original size:15 final size:15
Alignment explanation
Indices: 17929264--17929293 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
17929254 CATATTTTAT
*
17929264 TTAATATTATATAAA
1 TTAATATAATATAAA
17929279 TTAATATAATATAAA
1 TTAATATAATATAAA
17929294 AATTATTTGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TTAATATAATATAAA
Found at i:17933922 original size:61 final size:61
Alignment explanation
Indices: 17933856--17933983 Score: 159
Period size: 61 Copynumber: 2.1 Consensus size: 61
17933846 TAAAATAAAA
** * * ** *
17933856 TTTTTAGAGTTAGGACTAAATTGACAAATTTTGTAAATGTTGAGAG-CTAAATTTATTGATT
1 TTTTTAGAACTAGAACTAAAATGACAAATTTTGTAAACATTGAG-GTCTAAATTTATTAATT
* *
17933917 TTTTTAGAACTAGAACTAAAATGATAAATTTTGTAAACATTGAGGTCTAAATTTGTTAATT
1 TTTTTAGAACTAGAACTAAAATGACAAATTTTGTAAACATTGAGGTCTAAATTTATTAATT
17933978 TTTTTA
1 TTTTTA
17933984 ATATTTAGGA
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
60 1 0.02
61 56 0.98
ACGTcount: A:0.36, C:0.05, G:0.15, T:0.44
Consensus pattern (61 bp):
TTTTTAGAACTAGAACTAAAATGACAAATTTTGTAAACATTGAGGTCTAAATTTATTAATT
Found at i:17939104 original size:26 final size:26
Alignment explanation
Indices: 17939075--17939128 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
17939065 TTACTTGAAT
17939075 TTCTTGGAATTAGGATCATTTGTAAA
1 TTCTTGGAATTAGGATCATTTGTAAA
17939101 TTCTTGGAATTAGGATCATTTGTAAA
1 TTCTTGGAATTAGGATCATTTGTAAA
17939127 TT
1 TT
17939129 TTGAGGGTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.30, C:0.07, G:0.19, T:0.44
Consensus pattern (26 bp):
TTCTTGGAATTAGGATCATTTGTAAA
Found at i:17942619 original size:25 final size:25
Alignment explanation
Indices: 17942578--17942631 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
17942568 TTACATATAC
* * *
17942578 AAATAATTTTATTTATTTAATACAA
1 AAATAATTTGATGTATTTAATAAAA
17942603 AAATAATTTGATGTATTTAATAAAA
1 AAATAATTTGATGTATTTAATAAAA
17942628 AAAT
1 AAAT
17942632 TCATATATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.43
Consensus pattern (25 bp):
AAATAATTTGATGTATTTAATAAAA
Found at i:17942662 original size:31 final size:30
Alignment explanation
Indices: 17942627--17942690 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
17942617 ATTTAATAAA
17942627 AAAATTCATATATATATAATT-ATACTAAATT
1 AAAATTCATA-ATATA-AATTCATACTAAATT
* *
17942658 AAAATTTATAATATAAATTGCATATTAAATT
1 AAAATTCATAATATAAATT-CATACTAAATT
17942689 AA
1 AA
17942691 CACTCAGAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 4 0.14
30 5 0.17
31 20 0.69
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.41
Consensus pattern (30 bp):
AAAATTCATAATATAAATTCATACTAAATT
Found at i:17952578 original size:14 final size:15
Alignment explanation
Indices: 17952530--17952584 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
17952520 ATTTTTTTTA
*
17952530 AAAAAATATTTGTTC-
1 AAAAATTATTT-TTCG
*
17952545 AAATAA-TATTTTTTG
1 AAA-AATTATTTTTCG
*
17952560 TAAAATTATTTTTCG
1 AAAAATTATTTTTCG
17952575 AAAAATTATT
1 AAAAATTATT
17952585 CAAATGGAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
14 4 0.12
15 27 0.82
16 2 0.06
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (15 bp):
AAAAATTATTTTTCG
Found at i:17959131 original size:6 final size:6
Alignment explanation
Indices: 17959120--17959161 Score: 84
Period size: 6 Copynumber: 7.0 Consensus size: 6
17959110 TTATTCTTCC
17959120 CCATTT CCATTT CCATTT CCATTT CCATTT CCATTT CCATTT
1 CCATTT CCATTT CCATTT CCATTT CCATTT CCATTT CCATTT
17959162 ATATTTTTTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.17, C:0.33, G:0.00, T:0.50
Consensus pattern (6 bp):
CCATTT
Found at i:17959167 original size:18 final size:18
Alignment explanation
Indices: 17959120--17959167 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
17959110 TTATTCTTCC
*
17959120 CCATTTCCATTTCCATTT
1 CCATTTACATTTCCATTT
*
17959138 CCATTTCCATTTCCATTT
1 CCATTTACATTTCCATTT
*
17959156 CCATTTATATTT
1 CCATTTACATTT
17959168 TTTCTTTTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.19, C:0.29, G:0.00, T:0.52
Consensus pattern (18 bp):
CCATTTACATTTCCATTT
Found at i:17976522 original size:18 final size:18
Alignment explanation
Indices: 17976499--17976584 Score: 109
Period size: 18 Copynumber: 4.7 Consensus size: 18
17976489 GAATGATAAT
*
17976499 TTATTCAGTAACAATCAG
1 TTATTCAGTAACAATCAA
*
17976517 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAATCAA
* * *
17976535 TTATTCAATAATAATCAG
1 TTATTCAGTAACAATCAA
*
17976553 TTATTCAGTAACAATTAAA
1 TTATTCAGTAACAA-TCAA
17976572 TTATTCAGTAACA
1 TTATTCAGTAACA
17976585 GTCGATCTTT
Statistics
Matches: 57, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
18 42 0.74
19 15 0.26
ACGTcount: A:0.42, C:0.14, G:0.08, T:0.36
Consensus pattern (18 bp):
TTATTCAGTAACAATCAA
Found at i:17976540 original size:36 final size:37
Alignment explanation
Indices: 17976499--17976584 Score: 129
Period size: 36 Copynumber: 2.4 Consensus size: 37
17976489 GAATGATAAT
* *
17976499 TTATTCAGTAACAATCAGTTATTCGGTAACAA-TCAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATTAAA
* *
17976535 TTATTCAATAATAATCAGTTATTCAGTAACAATTAAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATTAAA
17976572 TTATTCAGTAACA
1 TTATTCAGTAACA
17976585 GTCGATCTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
36 29 0.67
37 14 0.33
ACGTcount: A:0.42, C:0.14, G:0.08, T:0.36
Consensus pattern (37 bp):
TTATTCAGTAACAATCAGTTATTCAGTAACAATTAAA
Found at i:17976827 original size:45 final size:45
Alignment explanation
Indices: 17976764--17976873 Score: 139
Period size: 45 Copynumber: 2.4 Consensus size: 45
17976754 TCCGGAACAG
* * *
17976764 TAACAGCAACAATAACAGTATTCAACACACAAAGTGCTGAATCGA
1 TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGA
* * ** *
17976809 TAACGGTTACAGTAACAGTATTTGACACACAAAGTGCCGAATCGG
1 TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGA
*
17976854 TAACAGTAACGGTAACAGTA
1 TAACAGTAACAGTAACAGTA
17976874 ACGGTAGTCG
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 54 1.00
ACGTcount: A:0.42, C:0.20, G:0.18, T:0.20
Consensus pattern (45 bp):
TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGA
Found at i:17976868 original size:12 final size:12
Alignment explanation
Indices: 17976851--17976879 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
17976841 AGTGCCGAAT
17976851 CGGTAACAGTAA
1 CGGTAACAGTAA
17976863 CGGTAACAGTAA
1 CGGTAACAGTAA
17976875 CGGTA
1 CGGTA
17976880 GTCGGCACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.38, C:0.17, G:0.28, T:0.17
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:17977645 original size:15 final size:15
Alignment explanation
Indices: 17977622--17977674 Score: 65
Period size: 15 Copynumber: 3.5 Consensus size: 15
17977612 TTGCTCTCTG
*
17977622 TTTCGTTTCATTCTT
1 TTTCTTTTCATTCTT
17977637 TTTCTTTTC-TATCTT
1 TTTCTTTTCAT-TCTT
17977652 TTT-TTTTCATTTCTT
1 TTTCTTTTCA-TTCTT
17977667 TTTCTTTT
1 TTTCTTTT
17977675 GTTTTACTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
14 6 0.18
15 22 0.67
16 5 0.15
ACGTcount: A:0.06, C:0.17, G:0.02, T:0.75
Consensus pattern (15 bp):
TTTCTTTTCATTCTT
Found at i:17977838 original size:31 final size:32
Alignment explanation
Indices: 17977782--17977844 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
17977772 CACACTTGTC
*
17977782 ATAATTTAATATATTTATTACATAAAAATCTT
1 ATAATATAATATATTTATTACATAAAAATCTT
*
17977814 ATAATATAAT-TATTTAATTA-ATAAATATCTT
1 ATAATATAATATATTT-ATTACATAAAAATCTT
17977845 TTATAAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 15 0.54
32 13 0.46
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (32 bp):
ATAATATAATATATTTATTACATAAAAATCTT
Found at i:17980542 original size:33 final size:31
Alignment explanation
Indices: 17980481--17980544 Score: 76
Period size: 33 Copynumber: 2.0 Consensus size: 31
17980471 CAAAGATCTT
*
17980481 TTTTAGGTTTTATATATTATAATGATTATTA
1 TTTTAGGTTTTATATATTATAATAATTATTA
*
17980512 TTTT-GGTTTTATATTAAATTATTATAATTATTA
1 TTTTAGGTTTTATA-T--ATTATAATAATTATTA
17980545 ATTAACATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 9 0.32
31 5 0.18
33 14 0.50
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (31 bp):
TTTTAGGTTTTATATATTATAATAATTATTA
Found at i:17980575 original size:21 final size:20
Alignment explanation
Indices: 17980508--17980576 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 20
17980498 TATAATGATT
*
17980508 ATTATTTTGGTTTTATATTAA
1 ATTATTATGGTTTTATATT-A
**
17980529 ATTATTATAATTATTA-ATTA
1 ATTATTATGGTT-TTATATTA
*
17980549 A-CATTATGGTTTTATATTA
1 ATTATTATGGTTTTATATTA
17980568 GATTATTAT
1 -ATTATTAT
17980577 TAGCATTATT
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
18 3 0.08
19 11 0.30
20 3 0.08
21 17 0.46
22 3 0.08
ACGTcount: A:0.35, C:0.01, G:0.07, T:0.57
Consensus pattern (20 bp):
ATTATTATGGTTTTATATTA
Found at i:17980984 original size:12 final size:12
Alignment explanation
Indices: 17980967--17980997 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
17980957 GAAGCAGGGG
17980967 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
17980979 AGAAAAAGGGAA
1 AGAAAAAGAGAA
17980991 AGAAAAA
1 AGAAAAA
17980998 AAAGAGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:17985734 original size:49 final size:49
Alignment explanation
Indices: 17985662--17985849 Score: 232
Period size: 49 Copynumber: 3.8 Consensus size: 49
17985652 TAGCCGAATC
* *
17985662 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTATACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * * * *
17985711 AATCTGGTACACGTAGTAGCCTGCACTTAGTACTACATATGTGATCACAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAAT
* * * *
17985762 TTTCAGGTACACATAGTAGCTTGCACTTAGTACTACACATGCGACTAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* **
17985811 TATCCGGTACATGTAGTAGCCTGCACTTAGTACTACACA
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
17985850 CGTGACCTCA
Statistics
Matches: 116, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
49 74 0.64
50 2 0.02
51 40 0.34
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.29
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
Found at i:17985787 original size:100 final size:100
Alignment explanation
Indices: 17985667--17985847 Score: 299
Period size: 100 Copynumber: 1.8 Consensus size: 100
17985657 GAATCTATCT
* * *
17985667 GGTACGCATAGTAGCCTGCACTTAGTACTATACATGCGACCAATAATCTGGTACACGTAGTAGCC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
17985732 TGCACTTAGTACTACATATGTGATCACAGTTTTCA
66 TGCACTTAGTACTACATATGTGATCACAGTTTTCA
* * * *
17985767 GGTACACATAGTAGCTTGCACTTAGTACTACACATGCGACTAATTATCCGGTACATGTAGTAGCC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
17985832 TGCACTTAGTACTACA
66 TGCACTTAGTACTACA
17985848 CACGTGACCT
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
100 74 1.00
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (100 bp):
GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
TGCACTTAGTACTACATATGTGATCACAGTTTTCA
Found at i:17992595 original size:18 final size:18
Alignment explanation
Indices: 17992572--17992657 Score: 100
Period size: 18 Copynumber: 4.7 Consensus size: 18
17992562 GAACGATTAT
* *
17992572 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAATCAA
*
17992590 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAATCAA
* * *
17992608 TTATTCAATAATAATCAG
1 TTATTCAGTAACAATCAA
*
17992626 TTATTCAGTAACAATTAAA
1 TTATTCAGTAACAA-TCAA
17992645 TTATTCAGTAACA
1 TTATTCAGTAACA
17992658 GCCGATCTTT
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
18 41 0.73
19 15 0.27
ACGTcount: A:0.41, C:0.14, G:0.09, T:0.36
Consensus pattern (18 bp):
TTATTCAGTAACAATCAA
Found at i:17992626 original size:36 final size:37
Alignment explanation
Indices: 17992538--17992657 Score: 120
Period size: 36 Copynumber: 3.3 Consensus size: 37
17992528 CAATCAGTAA
* * * * *
17992538 TATTCATTAACAATCAGTCAATCAG-AACGATT-ATT
1 TATTCAATAACAATCAGTTATTCAGTAACAATTAAAT
* * * *
17992573 TATTCAGTAACAGTCAGTTATTCGGTAACAA-TCAAT
1 TATTCAATAACAATCAGTTATTCAGTAACAATTAAAT
*
17992609 TATTCAATAATAATCAGTTATTCAGTAACAATTAAAT
1 TATTCAATAACAATCAGTTATTCAGTAACAATTAAAT
*
17992646 TATTCAGTAACA
1 TATTCAATAACA
17992658 GCCGATCTTT
Statistics
Matches: 68, Mismatches: 14, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
35 21 0.31
36 33 0.49
37 14 0.21
ACGTcount: A:0.41, C:0.15, G:0.09, T:0.35
Consensus pattern (37 bp):
TATTCAATAACAATCAGTTATTCAGTAACAATTAAAT
Found at i:17992843 original size:6 final size:6
Alignment explanation
Indices: 17992832--17992862 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
17992822 ACAAATCCGG
*
17992832 AACAGT AACAGT AACAGT AACAAT AACAGT A
1 AACAGT AACAGT AACAGT AACAGT AACAGT A
17992863 TTCAACACAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.55, C:0.16, G:0.13, T:0.16
Consensus pattern (6 bp):
AACAGT
Found at i:17992905 original size:45 final size:45
Alignment explanation
Indices: 17992843--17992949 Score: 142
Period size: 45 Copynumber: 2.4 Consensus size: 45
17992833 ACAGTAACAG
* * *
17992843 TAACAGTAACAATAACAGTATTCAACACACAAATTGCTGAATCGA
1 TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGA
* * ** *
17992888 TAACGGTTACAGTAACAGTATTTGACACACAAAGTGCCGAATCGG
1 TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGA
17992933 TAACAGTAACAGTAACA
1 TAACAGTAACAGTAACA
17992950 ATAACGGTAG
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 52 1.00
ACGTcount: A:0.43, C:0.20, G:0.16, T:0.21
Consensus pattern (45 bp):
TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGA
Found at i:17993911 original size:31 final size:32
Alignment explanation
Indices: 17993855--17993917 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
17993845 CACACTTGTC
*
17993855 ATAATTTAATATATTTATTACATAAAAATCTT
1 ATAATATAATATATTTATTACATAAAAATCTT
*
17993887 ATAATATAAT-TATTTAATTA-ATAAATATCTT
1 ATAATATAATATATTT-ATTACATAAAAATCTT
17993918 TTATAAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 15 0.54
32 13 0.46
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (32 bp):
ATAATATAATATATTTATTACATAAAAATCTT
Found at i:17995262 original size:96 final size:96
Alignment explanation
Indices: 17995093--17995282 Score: 258
Period size: 96 Copynumber: 2.0 Consensus size: 96
17995083 GTGTTCGAGG
* *
17995093 AAGTTTGTCATCGAAGGGAACGATGGAACAGACAAGGAGCCCAAGAAGCTTAGTTCGAGCAAGGA
1 AAGTCTGTCATCGAAGGGAACGATGGAACAGACAAGGAGCCCAAGAAGCCTAGTTCGAGCAAGGA
* *
17995158 AAGAGCCGAAGCTAAGGGGGCAAAGAGGAAC
66 AAGAGCCGAAGCCAAGAGGGCAAAGAGGAAC
* ** * * *
17995189 AAGTCTGTCATTGAAGGGAACGATGGAGTAGACGAA-GAGCCTAAGAAGCCTGGTTCGAGTAAGG
1 AAGTCTGTCATCGAAGGGAACGATGGAACAGAC-AAGGAGCCCAAGAAGCCTAGTTCGAGCAA-G
17995253 GAAA-AGCCGAAGCCAAGAGGGCAAAGAGGA
64 GAAAGAGCCGAAGCCAAGAGGGCAAAGAGGA
17995283 GCAAAAAGAA
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
96 75 0.91
97 7 0.09
ACGTcount: A:0.38, C:0.16, G:0.34, T:0.12
Consensus pattern (96 bp):
AAGTCTGTCATCGAAGGGAACGATGGAACAGACAAGGAGCCCAAGAAGCCTAGTTCGAGCAAGGA
AAGAGCCGAAGCCAAGAGGGCAAAGAGGAAC
Found at i:17996837 original size:10 final size:11
Alignment explanation
Indices: 17996798--17996839 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
17996788 TATTTACAAA
*
17996798 GTTAATTGAGTG
1 GTTAATT-AGAG
17996810 GTTAATTAGAG
1 GTTAATTAGAG
*
17996821 TTTAATTA-AG
1 GTTAATTAGAG
17996831 GTTAATTAG
1 GTTAATTAG
17996840 GTATAAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
10 9 0.35
11 10 0.38
12 7 0.27
ACGTcount: A:0.33, C:0.00, G:0.24, T:0.43
Consensus pattern (11 bp):
GTTAATTAGAG
Found at i:17997282 original size:24 final size:23
Alignment explanation
Indices: 17997255--17997307 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 23
17997245 TATGTATTTG
17997255 TTATTAAATAGATATT-TATTATAA
1 TTATTAAATAG-TATTATATTA-AA
*
17997279 TTATT--ATAGTTTTATATTAAA
1 TTATTAAATAGTATTATATTAAA
17997300 TTATTAAA
1 TTATTAAA
17997308 ATGAATACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 10 0.40
22 9 0.36
23 1 0.04
24 5 0.20
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (23 bp):
TTATTAAATAGTATTATATTAAA
Found at i:17997429 original size:3 final size:3
Alignment explanation
Indices: 17997421--17997466 Score: 60
Period size: 3 Copynumber: 15.7 Consensus size: 3
17997411 ATGAATTAAA
*
17997421 TAT TAT TA- TAT TA- TAT TAT TAT TAT GTAT TAT TAT TAA TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT
17997465 TA
1 TA
17997467 ACTAATAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 4 0.11
3 31 0.82
4 3 0.08
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:17997438 original size:13 final size:13
Alignment explanation
Indices: 17997420--17997464 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 13
17997410 TATGAATTAA
17997420 ATATTATTATATT
1 ATATTATTATATT
17997433 ATATTATTATTATGT
1 ATATTATTA-TAT-T
17997448 ATTATTATTAATATT
1 A-TATTATT-ATATT
17997463 AT
1 AT
17997465 TAACTAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
13 9 0.32
14 4 0.14
15 4 0.14
16 10 0.36
17 1 0.04
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (13 bp):
ATATTATTATATT
Found at i:17997442 original size:16 final size:17
Alignment explanation
Indices: 17997421--17997466 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 17
17997411 ATGAATTAAA
17997421 TATTATTA-TATTATAT
1 TATTATTATTATTATAT
17997437 TATTATTATGTATTATTAT
1 TATTATTAT-TATTA-TAT
*
17997456 TAATATTATTA
1 TATTATTATTA
17997467 ACTAATAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
16 8 0.31
18 7 0.27
19 11 0.42
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (17 bp):
TATTATTATTATTATAT
Found at i:18006976 original size:26 final size:26
Alignment explanation
Indices: 18006940--18006995 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
18006930 CCTTCTTAAA
18006940 ACAACAAGGACTTAGTTAATGACATC
1 ACAACAAGGACTTAGTTAATGACATC
18006966 ACAACAAGGACTTAGTTAATGACATC
1 ACAACAAGGACTTAGTTAATGACATC
18006992 ACAA
1 ACAA
18006996 GCTTTTTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.45, C:0.20, G:0.14, T:0.21
Consensus pattern (26 bp):
ACAACAAGGACTTAGTTAATGACATC
Found at i:18011673 original size:51 final size:51
Alignment explanation
Indices: 18011597--18011759 Score: 229
Period size: 51 Copynumber: 3.2 Consensus size: 51
18011587 TATCCTGATA
* *
18011597 AAATATGAAGCTCTTGTTGAAGCTAGAGTAATAAAGTAATTATTCTGGATG
1 AAATATGAAGCTCTTGTTGAAGCTAGAGTAACAAAGTAATTATTCCGGATG
* **
18011648 AAATATGAAGCTCTTGTTGAAGCTAGA-TCAACAAAGTAATTAATCCAAATG
1 AAATATGAAGCTCTTGTTGAAGCTAGAGT-AACAAAGTAATTATTCCGGATG
* * * *
18011699 AAATATGAAGCTCTTGTTGAAGTTAGAGCAACAAGGTAATAATTCCGGATG
1 AAATATGAAGCTCTTGTTGAAGCTAGAGTAACAAAGTAATTATTCCGGATG
18011750 AAATATGAAG
1 AAATATGAAG
18011760 TAAGTTTGAG
Statistics
Matches: 98, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
50 1 0.01
51 97 0.99
ACGTcount: A:0.40, C:0.10, G:0.20, T:0.29
Consensus pattern (51 bp):
AAATATGAAGCTCTTGTTGAAGCTAGAGTAACAAAGTAATTATTCCGGATG
Found at i:18013481 original size:35 final size:37
Alignment explanation
Indices: 18013403--18013493 Score: 123
Period size: 40 Copynumber: 2.4 Consensus size: 37
18013393 TCCAATTTCT
*
18013403 AGCACAAAACCTGCGGGATTTAACCCGGATATCTATTACC
1 AGCACAAAGCCTGCGGGATTTAACCCGG--A-CTATTACC
18013443 AGCACAAAGCCTGCGGGATTTAACCC-G-CTATTACC
1 AGCACAAAGCCTGCGGGATTTAACCCGGACTATTACC
*
18013478 AGCACAAAGCTTGCGG
1 AGCACAAAGCCTGCGG
18013494 ACTATAAGTC
Statistics
Matches: 49, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
35 23 0.47
39 1 0.02
40 25 0.51
ACGTcount: A:0.31, C:0.29, G:0.21, T:0.20
Consensus pattern (37 bp):
AGCACAAAGCCTGCGGGATTTAACCCGGACTATTACC
Found at i:18024479 original size:21 final size:19
Alignment explanation
Indices: 18024440--18024479 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
18024430 TGAACATGTG
*
18024440 TTTATTGTGAAATTGAATA
1 TTTATTGTGAAAGTGAATA
18024459 TTTATTAGTGAAAAGTGAATA
1 TTTATT-GTG-AAAGTGAATA
18024480 GAATTATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 3 0.17
21 9 0.50
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.42
Consensus pattern (19 bp):
TTTATTGTGAAAGTGAATA
Found at i:18024688 original size:12 final size:12
Alignment explanation
Indices: 18024671--18024695 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18024661 GCCGACTACT
18024671 GTTACTGTTACC
1 GTTACTGTTACC
18024683 GTTACTGTTACC
1 GTTACTGTTACC
18024695 G
1 G
18024696 ATTCGGCACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:18024945 original size:18 final size:18
Alignment explanation
Indices: 18024924--18025114 Score: 158
Period size: 18 Copynumber: 10.6 Consensus size: 18
18024914 TAACTGATTA
18024924 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
* *
18024942 TTACCGGATAATTGACTG
1 TTACTGAATAATTGACTG
*
18024960 TTACTGGAT-ATTAGACTG
1 TTACTGAATAATT-GACTG
* * *
18024978 TTACTGAATAACTGAATA
1 TTACTGAATAATTGACTG
*
18024996 TTACTGAATAATTGA-TCA
1 TTACTGAATAATTGACT-G
* *
18025014 TTACTGAATAACTGATTG
1 TTACTGAATAATTGACTG
*
18025032 TCACTGAATGAA-TGACTG
1 TTACTGAAT-AATTGACTG
* * * *
18025050 CTACTAAATAACTTAATTG
1 TTACTGAATAA-TTGACTG
*
18025069 TTACTGAAT-ATCTGA-TT
1 TTACTGAATAAT-TGACTG
18025086 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
*
18025104 TTACTGGATAA
1 TTACTGAATAA
18025115 CCGATTAATT
Statistics
Matches: 140, Mismatches: 23, Indels: 20
0.77 0.13 0.11
Matches are distributed among these distances:
17 20 0.14
18 104 0.74
19 16 0.11
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (18 bp):
TTACTGAATAATTGACTG
Found at i:18025000 original size:36 final size:36
Alignment explanation
Indices: 18024912--18025194 Score: 148
Period size: 36 Copynumber: 7.6 Consensus size: 36
18024902 AAAGGTATAA
* *
18024912 AATAACTGATTATTACTGAATAATTGACTGTTACCG
1 AATAACTGAATATTACTGAATAATTGACTGTTACTG
* * * * *
18024948 GATAATTGACTGTTACTGGAT-ATTAGACTGTTACTG
1 AATAACTGAATATTACTGAATAATT-GACTGTTACTG
*
18024984 AATAACTGAATATTACTGAATAATTGA-TCATTACTG
1 AATAACTGAATATTACTGAATAATTGACT-GTTACTG
* * * * *
18025020 AATAACTGATTGTCACTGAATGAA-TGACTGCTACTA
1 AATAACTGAATATTACTGAAT-AATTGACTGTTACTG
* * *
18025056 AATAACTTAATTGTTACTGAAT-ATCTGA-TTTTACTG
1 AATAACTGAA-TATTACTGAATAAT-TGACTGTTACTG
* * * *
18025092 AATAATTGACTGTTACTGGATAACCGATTAATTGA-TCGATACTG
1 AATAACTGAATATTACT-G---A---A-TAATTGACT-GTTACTG
** * *
18025136 AATAACTGGTTATTATTGAATAATTGATTGTTA-TCG
1 AATAACTGAATATTACTGAATAATTGACTGTTACT-G
* *
18025172 AATAACTGACTGTTACTGAATAA
1 AATAACTGAATATTACTGAATAA
18025195 ATAATTGTTC
Statistics
Matches: 188, Mismatches: 39, Indels: 40
0.70 0.15 0.15
Matches are distributed among these distances:
35 13 0.07
36 126 0.67
37 21 0.11
39 1 0.01
40 1 0.01
42 1 0.01
43 6 0.03
44 19 0.10
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (36 bp):
AATAACTGAATATTACTGAATAATTGACTGTTACTG
Found at i:18025049 original size:72 final size:72
Alignment explanation
Indices: 18024911--18025114 Score: 191
Period size: 72 Copynumber: 2.8 Consensus size: 72
18024901 TAAAGGTATA
* * * * * * * *
18024911 AAATAACTGATTATTACTGAATAATTGA-CTGTTACCGGATAATTGACTGTTACTGGATATTAGA
1 AAATAACTGAATATTACTGAATAATTGATC-ATTACTGAATAACTGACTGTCACTGAATAATAGA
*
18024975 CTGTTACT
65 CTGCTACT
* *
18024983 GAATAACTGAATATTACTGAATAATTGATCATTACTGAATAACTGATTGTCACTGAATGAAT-GA
1 AAATAACTGAATATTACTGAATAATTGATCATTACTGAATAACTGACTGTCACTGAAT-AATAGA
18025047 CTGCTACT
65 CTGCTACT
* * * * * *
18025055 AAATAACTTAATTGTTACTGAAT-ATCTGAT-TTTACTGAATAATTGACTGTTACTGGATAA
1 AAATAACTGAA-TATTACTGAATAAT-TGATCATTACTGAATAACTGACTGTCACTGAATAA
18025115 CCGATTAATT
Statistics
Matches: 109, Mismatches: 19, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
71 2 0.02
72 90 0.83
73 17 0.16
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (72 bp):
AAATAACTGAATATTACTGAATAATTGATCATTACTGAATAACTGACTGTCACTGAATAATAGAC
TGCTACT
Found at i:18025157 original size:18 final size:18
Alignment explanation
Indices: 18025134--18025194 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 18
18025124 TGATCGATAC
*
18025134 TGAATAACTGGTTATTAT
1 TGAATAACTGATTATTAT
* *
18025152 TGAATAATTGATTGTTAT
1 TGAATAACTGATTATTAT
* * * *
18025170 CGAATAACTGACTGTTAC
1 TGAATAACTGATTATTAT
18025188 TGAATAA
1 TGAATAA
18025195 ATAATTGTTC
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.39
Consensus pattern (18 bp):
TGAATAACTGATTATTAT
Found at i:18026403 original size:23 final size:23
Alignment explanation
Indices: 18026321--18026407 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
18026311 ACTGATCAGT
*
18026321 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
18026343 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
18026363 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
18026386 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
18026408 TCGATAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.62
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:18026804 original size:15 final size:15
Alignment explanation
Indices: 18026779--18026836 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
18026769 TCATATATAT
18026779 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
18026795 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
18026810 AATAATTTCAATCAA
1 TATAAATTCAATCAA
18026825 TATAAATTCAAT
1 TATAAATTCAAT
18026837 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:18028115 original size:5 final size:5
Alignment explanation
Indices: 18028107--18028158 Score: 104
Period size: 5 Copynumber: 10.4 Consensus size: 5
18028097 TCTTTAGTTT
18028107 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
18028157 AT
1 AT
18028159 TAAAACATAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 47 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:18028194 original size:8 final size:8
Alignment explanation
Indices: 18028181--18028209 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
18028171 TATCTTTATT
18028181 ATATAATA
1 ATATAATA
18028189 ATATAATA
1 ATATAATA
18028197 ATATAATA
1 ATATAATA
18028205 ATATA
1 ATATA
18028210 CTAAACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:18033223 original size:5 final size:6
Alignment explanation
Indices: 18033207--18033264 Score: 55
Period size: 6 Copynumber: 9.0 Consensus size: 6
18033197 ATATTTTATA
*
18033207 ATTTTT ATTTTT ATTTTT -TTATCAAT ATTTTAT AATTTTT ATTTTT ATTTTT
1 ATTTTT ATTTTT ATTTTT ATT-T--TT ATTTT-T -ATTTTT ATTTTT ATTTTT
18033259 ATTTTT
1 ATTTTT
18033265 TTATACTTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
5 2 0.05
6 31 0.70
7 2 0.05
8 7 0.16
9 2 0.05
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (6 bp):
ATTTTT
Found at i:18033265 original size:14 final size:14
Alignment explanation
Indices: 18033208--18033268 Score: 63
Period size: 14 Copynumber: 4.5 Consensus size: 14
18033198 TATTTTATAA
18033208 TTTTTATTTTTATT
1 TTTTTATTTTTATT
***
18033222 TTTTTATCAATATT
1 TTTTTATTTTTATT
* *
18033236 TTATAATTTTTA--
1 TTTTTATTTTTATT
18033248 TTTTTATTTTTATT
1 TTTTTATTTTTATT
18033262 TTTTTAT
1 TTTTTAT
18033269 ACTTTTTCAA
Statistics
Matches: 35, Mismatches: 10, Indels: 4
0.71 0.20 0.08
Matches are distributed among these distances:
12 10 0.29
14 25 0.71
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTTATTTTTATT
Found at i:18033274 original size:8 final size:8
Alignment explanation
Indices: 18033200--18033275 Score: 52
Period size: 8 Copynumber: 9.5 Consensus size: 8
18033190 AGAAGCAATA
*
18033200 TTTTATAA
1 TTTTATAT
18033208 TTTT-TAT
1 TTTTATAT
*
18033215 TTTTATTT
1 TTTTATAT
18033223 TTTTATCAAT
1 TTTTAT--AT
*
18033233 ATTTTATAA
1 -TTTTATAT
18033242 TTTT-TA-
1 TTTTATAT
18033248 TTTT-TAT
1 TTTTATAT
*
18033255 TTTTATTT
1 TTTTATAT
18033263 TTTTATACT
1 TTTTATA-T
18033272 TTTT
1 TTTT
18033276 CAAAATTTGT
Statistics
Matches: 55, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
6 6 0.11
7 12 0.22
8 24 0.44
9 6 0.11
10 1 0.02
11 6 0.11
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (8 bp):
TTTTATAT
Found at i:18037607 original size:65 final size:67
Alignment explanation
Indices: 18037524--18037655 Score: 153
Period size: 69 Copynumber: 2.0 Consensus size: 67
18037514 TAATCAACAG
*
18037524 AGAAAAAAAAAAGATTA-TTCTAGAAAT-AA-GAATAAAAAATAATCAAGACGATTAATGGAAAA
1 AGAAAAAAAAAAGATTATTTCTAGAAATAAAGGAA-AAAAAACAATCAAGACGATTAATGGAAAA
18037586 CGT
65 CGT
* * * * * *
18037589 AGAAAAAAATATGCTTATTTTCTGGAAATAAATGGAAAAAAAACAATCAAGCCGATTAATGGCAA
1 AGAAAAAAAAAAGATTA-TTTCTAGAAATAAA-GGAAAAAAAACAATCAAGACGATTAATGGAAA
18037654 AC
64 AC
18037656 ACTAAAGGAA
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
65 14 0.25
67 9 0.16
68 2 0.04
69 27 0.49
70 3 0.05
ACGTcount: A:0.55, C:0.09, G:0.14, T:0.21
Consensus pattern (67 bp):
AGAAAAAAAAAAGATTATTTCTAGAAATAAAGGAAAAAAAACAATCAAGACGATTAATGGAAAAC
GT
Found at i:18051998 original size:6 final size:7
Alignment explanation
Indices: 18051982--18052006 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
18051972 ACGGAACTTG
18051982 TTTTAAT
1 TTTTAAT
18051989 TTTTAAT
1 TTTTAAT
18051996 TTTTAAT
1 TTTTAAT
18052003 TTTT
1 TTTT
18052007 TTTTGTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTAAT
Found at i:18055086 original size:23 final size:22
Alignment explanation
Indices: 18055053--18055101 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 22
18055043 ACAGATACGC
18055053 GAATTCCACCCAAACACACC-A
1 GAATTCCACCCAAACACACCTA
18055074 GAATGTCCAACCCAAACACACCTA
1 GAAT-TCC-ACCCAAACACACCTA
18055098 GAAT
1 GAAT
18055102 ATTATAAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 4 0.16
22 3 0.12
23 13 0.52
24 5 0.20
ACGTcount: A:0.43, C:0.37, G:0.08, T:0.12
Consensus pattern (22 bp):
GAATTCCACCCAAACACACCTA
Done.