Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 121 of 427
Found at i:31954491 original size:112 final size:113
Alignment explanation
Indices: 31954293--31954518 Score: 445
Period size: 112 Copynumber: 2.0 Consensus size: 113
31954283 TAACTGTATT
31954293 TTTTCAAGTTCTCCAGAGTTAAAGGCACCTTGCATGGTTAAAGGAAAAAGAACAAATGAATTTCA
1 TTTTCAAGTTCTCCAGAGTTAAAGGCACCTTGCATGGTTAAAGGAAAAAGAACAAATGAATTTCA
31954358 GTAAAATAGTTCATTGAAGTGATAGTATTTCTGATTTACATTGGTTTG
66 GTAAAATAGTTCATTGAAGTGATAGTATTTCTGATTTACATTGGTTTG
31954406 TTTTCAAGTTCTCCAGAGTTAAAGGCACC-TGCATGGTTAAAGGAAAAAGAACAAATGAATTTCA
1 TTTTCAAGTTCTCCAGAGTTAAAGGCACCTTGCATGGTTAAAGGAAAAAGAACAAATGAATTTCA
31954470 GTAAAATAGTTCATTGAAGTGATAGTATTTCTGATTTACATTGGTTTG
66 GTAAAATAGTTCATTGAAGTGATAGTATTTCTGATTTACATTGGTTTG
31954518 T
1 T
31954519 AGGAAGGTAT
Statistics
Matches: 113, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
112 84 0.74
113 29 0.26
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.35
Consensus pattern (113 bp):
TTTTCAAGTTCTCCAGAGTTAAAGGCACCTTGCATGGTTAAAGGAAAAAGAACAAATGAATTTCA
GTAAAATAGTTCATTGAAGTGATAGTATTTCTGATTTACATTGGTTTG
Found at i:31962142 original size:2 final size:2
Alignment explanation
Indices: 31962135--31962159 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
31962125 GATGTATTTA
31962135 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
31962160 GGGAGGTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:31962539 original size:10 final size:10
Alignment explanation
Indices: 31962524--31962575 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
31962514 TAATTTTAGG
31962524 ATTTATTTTT
1 ATTTATTTTT
*
31962534 ATTTATCTTT
1 ATTTATTTTT
* *
31962544 AATTATCTTT
1 ATTTATTTTT
* *
31962554 AATTATTTGT
1 ATTTATTTTT
31962564 ATTTATCTTTT
1 ATTTAT-TTTT
31962575 A
1 A
31962576 GAATTTAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
10 31 0.89
11 4 0.11
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.67
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:31962554 original size:20 final size:20
Alignment explanation
Indices: 31962524--31962573 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
31962514 TAATTTTAGG
* *
31962524 ATTTATTTTTATTTATCTT-T
1 ATTTATCTTTAATTAT-TTGT
*
31962544 AATTATCTTTAATTATTTGT
1 ATTTATCTTTAATTATTTGT
31962564 ATTTATCTTT
1 ATTTATCTTT
31962574 TAGAATTTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 2 0.08
20 23 0.92
ACGTcount: A:0.24, C:0.06, G:0.02, T:0.68
Consensus pattern (20 bp):
ATTTATCTTTAATTATTTGT
Found at i:31963327 original size:17 final size:18
Alignment explanation
Indices: 31963295--31963328 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
31963285 TATTCTCTAT
31963295 TTTAATTTTCGCAATTTA
1 TTTAATTTTCGCAATTTA
31963313 TTTAATTTT-GCAATTT
1 TTTAATTTTCGCAATTT
31963329 CAATTCAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.26, C:0.09, G:0.06, T:0.59
Consensus pattern (18 bp):
TTTAATTTTCGCAATTTA
Found at i:31968958 original size:16 final size:16
Alignment explanation
Indices: 31968937--31968978 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
31968927 AGACAACCTA
*
31968937 ATTTTTATTTCTCTTT
1 ATTTTTATTTATCTTT
* *
31968953 ATTTTTCTTTATTTTT
1 ATTTTTATTTATCTTT
31968969 ATTTTTATTT
1 ATTTTTATTT
31968979 TTATTTTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (16 bp):
ATTTTTATTTATCTTT
Found at i:31968967 original size:10 final size:10
Alignment explanation
Indices: 31968940--31968986 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 10
31968930 CAACCTAATT
*
31968940 TTTATTTCTC
1 TTTATTTTTC
31968950 TTTATTTTTC
1 TTTATTTTTC
*
31968960 TTTATTTTTA
1 TTTATTTTTC
*
31968970 TTT-TTATT-
1 TTTATTTTTC
31968978 TTTATTTTT
1 TTTATTTTT
31968987 TTATTTTAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
8 3 0.09
9 8 0.25
10 21 0.66
ACGTcount: A:0.13, C:0.06, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTATTTTTC
Found at i:31968989 original size:26 final size:26
Alignment explanation
Indices: 31968937--31968993 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
31968927 AGACAACCTA
*
31968937 ATTTTTATTTCTCTTTATTTTTCTTT
1 ATTTTTATTTCTATTTATTTTTCTTT
* *
31968963 ATTTTTATTTTTATTT-TTATTTTTTT
1 ATTTTTATTTCTATTTATT-TTTCTTT
31968989 ATTTT
1 ATTTT
31968994 AATTAATTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 2 0.07
26 25 0.93
ACGTcount: A:0.14, C:0.05, G:0.00, T:0.81
Consensus pattern (26 bp):
ATTTTTATTTCTATTTATTTTTCTTT
Found at i:31969007 original size:36 final size:36
Alignment explanation
Indices: 31968937--31969047 Score: 106
Period size: 36 Copynumber: 3.1 Consensus size: 36
31968927 AGACAACCTA
* * *
31968937 ATTTTTATTTCTCTTTATTTTTCTTTATTTTTATTTTT
1 ATTTTTATTT-T-TTTATTTTACTTAATTATTATTTTT
*
31968975 ATTTTTATTTTTTTATTTTAATTAATTATTA-TTTT
1 ATTTTTATTTTTTTATTTTACTTAATTATTATTTTT
* *
31969010 A-TTTTAATTATTTA--TTACTTAATTATT-TATTTT
1 ATTTTTATTTTTTTATTTTACTTAATTATTAT-TTTT
31969043 ATTTT
1 ATTTT
31969048 GGATATTAAT
Statistics
Matches: 63, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
32 12 0.19
33 5 0.08
34 14 0.22
35 5 0.08
36 16 0.25
37 1 0.02
38 10 0.16
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.74
Consensus pattern (36 bp):
ATTTTTATTTTTTTATTTTACTTAATTATTATTTTT
Found at i:31969026 original size:21 final size:21
Alignment explanation
Indices: 31968965--31969026 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
31968955 TTTTCTTTAT
* *
31968965 TTTTATTTTTATT-TTTATTT
1 TTTTATTTTAATTATTTATTA
*
31968985 TTTTATTTTAATTAATTATTA
1 TTTTATTTTAATTATTTATTA
31969006 TTTTATTTTAATTATTTATTA
1 TTTTATTTTAATTATTTATTA
31969027 CTTAATTATT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 12 0.32
21 25 0.68
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (21 bp):
TTTTATTTTAATTATTTATTA
Found at i:31969038 original size:28 final size:26
Alignment explanation
Indices: 31968979--31969047 Score: 72
Period size: 28 Copynumber: 2.7 Consensus size: 26
31968969 ATTTTTATTT
31968979 TTATTT-TTTT-ATTTTAATTAATTA
1 TTATTTATTTTAATTTTAATTAATTA
* *
31969003 TTATTTTATTTTAATTATTTATTACTTAA
1 TTA-TTTATTTTAATT-TTAATTAATT-A
31969032 TTATTTATTTT-ATTTT
1 TTATTTATTTTAATTTT
31969048 GGATATTAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
24 3 0.08
25 3 0.08
26 6 0.16
27 6 0.16
28 16 0.42
29 4 0.11
ACGTcount: A:0.28, C:0.01, G:0.00, T:0.71
Consensus pattern (26 bp):
TTATTTATTTTAATTTTAATTAATTA
Found at i:31972378 original size:14 final size:13
Alignment explanation
Indices: 31972359--31972396 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
31972349 ATTTAATATT
31972359 TAATTATATTAGGA
1 TAATTAT-TTAGGA
*
31972373 TAATTATTAAGGA
1 TAATTATTTAGGA
31972386 TAATTATTTAG
1 TAATTATTTAG
31972397 ATTTAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (13 bp):
TAATTATTTAGGA
Found at i:31972425 original size:10 final size:10
Alignment explanation
Indices: 31972410--31972461 Score: 59
Period size: 10 Copynumber: 5.1 Consensus size: 10
31972400 TAATTTTAGG
31972410 ATTTATTTTT
1 ATTTATTTTT
*
31972420 ATTTATCTTT
1 ATTTATTTTT
* *
31972430 AATTATCTTT
1 ATTTATTTTT
*
31972440 ATTTATTTAT
1 ATTTATTTTT
31972450 ATTTATCTTTT
1 ATTTAT-TTTT
31972461 A
1 A
31972462 GAATTTAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
10 31 0.89
11 4 0.11
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:31973207 original size:17 final size:18
Alignment explanation
Indices: 31973175--31973208 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
31973165 TATTCTCTAT
31973175 TTTAATTTTCGCAATTTA
1 TTTAATTTTCGCAATTTA
31973193 TTTAATTTT-GCAATTT
1 TTTAATTTTCGCAATTT
31973209 CAATTCAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.26, C:0.09, G:0.06, T:0.59
Consensus pattern (18 bp):
TTTAATTTTCGCAATTTA
Found at i:31973871 original size:40 final size:39
Alignment explanation
Indices: 31973762--31973876 Score: 121
Period size: 40 Copynumber: 3.0 Consensus size: 39
31973752 GTGAATCAGT
* *
31973762 GAACTGTTAGAAAATTGAAAGTCGGGATATTAAATC-AGC
1 GAACTGTTAGAAAATTG-ATGTCGCGATATTAAATCAAGC
* *
31973801 GGACTG-TA-AAAA-TGACTGTCACGATATTAAATCAAGC
1 GAACTGTTAGAAAATTGA-TGTCGCGATATTAAATCAAGC
* *
31973838 GAACCGTTAGAAAATTGATGGTCGCGATCTTAAATCAAG
1 GAACTGTTAGAAAATTGAT-GTCGCGATATTAAATCAAG
31973877 TGAAGCGTAA
Statistics
Matches: 62, Mismatches: 8, Indels: 11
0.77 0.10 0.14
Matches are distributed among these distances:
35 1 0.02
36 16 0.26
37 11 0.18
38 4 0.06
39 10 0.16
40 20 0.32
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.25
Consensus pattern (39 bp):
GAACTGTTAGAAAATTGATGTCGCGATATTAAATCAAGC
Found at i:31973908 original size:77 final size:77
Alignment explanation
Indices: 31973755--31974183 Score: 384
Period size: 77 Copynumber: 5.6 Consensus size: 77
31973745 CATGATCGTG
* * * * * * * *
31973755 AATC-AGTGAACTGTTAGAAAATTGAAAGTCGGGATATTAAATC-AGCGGACTGTAAAAATGACT
1 AATCAAGTGAACTGTTAGAATATCGAAGGTCGCGATCTTAAATCAAGCGAACCGTAAAAATGACA
*
31973818 GTCA-CGATATTA
66 AT-AGCGATATTA
* * * * * * *
31973830 AATCAAGCGAACCGTTAGAAAATTGATGGTCGCGATCTTAAATCAAGTGAAGCGTAAAAATGACA
1 AATCAAGTGAACTGTTAGAATATCGAAGGTCGCGATCTTAAATCAAGCGAACCGTAAAAATGACA
31973895 ATAGCGATATTA
66 ATAGCGATATTA
* * * * * *
31973907 AATCAAGTGAACTATTAGGATATCAAAGGTTG-GTATCTCAAATCGAGCGAACCGTAAAAATGAC
1 AATCAAGTGAACTGTTAGAATATCGAAGGTCGCG-ATCTTAAATCAAGCGAACCGTAAAAATGAC
*
31973971 AATCA-CAATATTA
65 AAT-AGCGATATTA
* * * * *
31973984 AGTCAAGTGAACTGTTAGAATATCGAAGGTTGCGATCTTAAATCGAGTGAACCGTAAAAATGATA
1 AATCAAGTGAACTGTTAGAATATCGAAGGTCGCGATCTTAAATCAAGCGAACCGTAAAAATGACA
*
31974049 ACT-GCAATATTA
66 A-TAGCGATATTA
* * * * * * * *
31974061 AATTAAGTGAACTGTTAGAATATCAAAGGTCACCATCTTAAATCAAGCAAACTGGAAAAATGATA
1 AATCAAGTGAACTGTTAGAATATCGAAGGTCGCGATCTTAAATCAAGCGAACCGTAAAAATGACA
* * *
31974126 GTCGCGATATTT
66 ATAGCGATATTA
* * * *
31974138 AATCAAGCGAATTGTTAGAATATTGAAGGTCACGATCTTAAATCAA
1 AATCAAGTGAACTGTTAGAATATCGAAGGTCGCGATCTTAAATCAA
31974184 ACAAACTACG
Statistics
Matches: 292, Mismatches: 53, Indels: 16
0.81 0.15 0.04
Matches are distributed among these distances:
75 4 0.01
76 36 0.12
77 249 0.85
78 3 0.01
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.26
Consensus pattern (77 bp):
AATCAAGTGAACTGTTAGAATATCGAAGGTCGCGATCTTAAATCAAGCGAACCGTAAAAATGACA
ATAGCGATATTA
Found at i:31974086 original size:154 final size:152
Alignment explanation
Indices: 31973793--31974183 Score: 460
Period size: 154 Copynumber: 2.5 Consensus size: 152
31973783 TCGGGATATT
* * * * *
31973793 AAATCAGCGGACTGTAAAAATGACTGTCACGATATTAAATCAAGCGAACCGTTAGAAAATTGATG
1 AAATCAGCGAACTGTAAAAATGACAGTCACGATATT-AATCAAGCGAACTGTTAGAATATTGAAG
* *
31973858 GTCGCGATCTTAAATCAAGTGAAGCGTAAAAATGACAATAGCGATATTAAATCAAGTGAACTATT
65 GTCGCGATCTTAAATCAAGTGAACCGTAAAAATGACAATAGCAATATTAAATCAAGTGAACTATT
* ****
31973923 AGGATATCAAAGGTTGGTATCTC
130 AGAATATCAAAGGTCACCATCTC
* * * * *
31973946 AAATCGAGCGAACCGTAAAAATGACAATCACAATATTAAGTCAAGTGAACTGTTAGAATATCGAA
1 AAATC-AGCGAACTGTAAAAATGACAGTCACGATATTAA-TCAAGCGAACTGTTAGAATATTGAA
* * * * *
31974011 GGTTGCGATCTTAAATCGAGTGAACCGTAAAAATGATAACT-GCAATATTAAATTAAGTGAACTG
64 GGTCGCGATCTTAAATCAAGTGAACCGTAAAAATGACAA-TAGCAATATTAAATCAAGTGAACTA
*
31974075 TTAGAATATCAAAGGTCACCATCTT
128 TTAGAATATCAAAGGTCACCATCTC
* * * * *
31974100 AAATCAAGCAAACTGGAAAAATGATAGTCGCGATATTTAATCAAGCGAATTGTTAGAATATTGAA
1 AAATC-AGCGAACTGTAAAAATGACAGTCACGATA-TTAATCAAGCGAACTGTTAGAATATTGAA
*
31974165 GGTCACGATCTTAAATCAA
64 GGTCGCGATCTTAAATCAA
31974184 ACAAACTACG
Statistics
Matches: 197, Mismatches: 37, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
153 7 0.04
154 185 0.94
155 5 0.03
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.26
Consensus pattern (152 bp):
AAATCAGCGAACTGTAAAAATGACAGTCACGATATTAATCAAGCGAACTGTTAGAATATTGAAGG
TCGCGATCTTAAATCAAGTGAACCGTAAAAATGACAATAGCAATATTAAATCAAGTGAACTATTA
GAATATCAAAGGTCACCATCTC
Found at i:31974114 original size:40 final size:40
Alignment explanation
Indices: 31974070--31974190 Score: 104
Period size: 40 Copynumber: 3.1 Consensus size: 40
31974060 AAATTAAGTG
*
31974070 AACTGTTAGAATATCAAAGGTCACCATCTTAAATCAAGCA
1 AACTGTTAGAATATCAAAGGTCACGATCTTAAATCAAGCA
* * * * * * * *
31974110 AACTG-GA-AAAATGATA-GTCGCGATATTTAATCAAGCG
1 AACTGTTAGAATATCAAAGGTCACGATCTTAAATCAAGCA
* ** *
31974147 AATTGTTAGAATATTGAAGGTCACGATCTTAAATCAAACA
1 AACTGTTAGAATATCAAAGGTCACGATCTTAAATCAAGCA
31974187 AACT
1 AACT
31974191 ACGAAAGTCA
Statistics
Matches: 57, Mismatches: 21, Indels: 6
0.68 0.25 0.07
Matches are distributed among these distances:
37 20 0.35
38 7 0.12
39 6 0.11
40 24 0.42
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.26
Consensus pattern (40 bp):
AACTGTTAGAATATCAAAGGTCACGATCTTAAATCAAGCA
Found at i:31974306 original size:262 final size:262
Alignment explanation
Indices: 31973941--31974428 Score: 645
Period size: 262 Copynumber: 1.9 Consensus size: 262
31973931 AAAGGTTGGT
* * * *
31973941 ATCTCAAATCGAGCGAACCGTAAAAATGACAATCACAATATTAAGTCAAGTGAACTGTTAGAATA
1 ATCTCAAATCGAGCAAACCATAAAAATGACAATCACAATATTAAATCAAGCGAACTGTTAGAATA
* * * * *
31974006 TCGAAGGTTGCGATCTTAAATCGAGTGAACCGTAAAAATGATAACT-GCAATATTAAATTAAGTG
66 TCGAAGGTCGCGATCTTAAATCGAGCGAACCATAAAAATGAT-ACTCGCAATATTAAATCAAGCG
* *
31974070 AACTGTTAGAATATCAAAGGTCACCATCTTAAATCAAGCAAACTGGAAAAATGATAGTCGCGATA
130 AACTGTTAGAATATCAAAGGTCACCATCTTAAATCAAGCAAACTGGAAAAATGACAGCCGCGATA
* *
31974135 TTTAATCAAGCGAATTGTTAGAATATTGAAGGTCACGATCTTAAATCAAACAAACTACGAAAGTC
195 TTAAATCAAGCGAATTGTTAGAATATCGAAGGTCACGATCTTAAATCAAACAAACTACGAAAGTC
31974200 ATG
260 ATG
* * * * ** *
31974203 ATCTTAAATCGAGCAAACCATAAAAATGATACTCACATTATTAAATTGAGCGAATTGTTAGAATA
1 ATCTCAAATCGAGCAAACCATAAAAATGACAATCACAATATTAAATCAAGCGAACTGTTAGAATA
* * * * * * * * *
31974268 TTGGATGTCGTGATCTTATATTGAGCGAACCATAAAAATGATAGTCGCGATATTAAATCGAGCGA
66 TCGAAGGTCGCGATCTTAAATCGAGCGAACCATAAAAATGATACTCGCAATATTAAATCAAGCGA
* * * * **
31974333 ACTGTTAGAATATCGAAGGTCACGATCTTAAATCGAGCGAACTTTAAAAATGACAGCCGCGATAT
131 ACTGTTAGAATATCAAAGGTCACCATCTTAAATCAAGCAAACTGGAAAAATGACAGCCGCGATAT
31974398 TAAATCAAGCGAATTGTTAGAATATCGAAGG
196 TAAATCAAGCGAATTGTTAGAATATCGAAGG
31974429 ATTAAATTGA
Statistics
Matches: 190, Mismatches: 35, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
261 2 0.01
262 188 0.99
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (262 bp):
ATCTCAAATCGAGCAAACCATAAAAATGACAATCACAATATTAAATCAAGCGAACTGTTAGAATA
TCGAAGGTCGCGATCTTAAATCGAGCGAACCATAAAAATGATACTCGCAATATTAAATCAAGCGA
ACTGTTAGAATATCAAAGGTCACCATCTTAAATCAAGCAAACTGGAAAAATGACAGCCGCGATAT
TAAATCAAGCGAATTGTTAGAATATCGAAGGTCACGATCTTAAATCAAACAAACTACGAAAGTCA
TG
Found at i:31974331 original size:77 final size:77
Alignment explanation
Indices: 31974192--31974428 Score: 296
Period size: 77 Copynumber: 3.1 Consensus size: 77
31974182 AAACAAACTA
* * * * *
31974192 CGAAAGTCATGATCTTAAATCGAGCAAACCATAAAAATGATACTCAC-ATTATTAAATTGAGCGA
1 CGAAGGTCATGATCTTAAATCGAGCGAACCATAAAAATGATAGTCGCGA-TATTAAATCGAGCGA
31974256 ATTGTTAGAATAT
65 ATTGTTAGAATAT
* * * * * *
31974269 TGGATGTCGTGATCTTATATTGAGCGAACCATAAAAATGATAGTCGCGATATTAAATCGAGCGAA
1 CGAAGGTCATGATCTTAAATCGAGCGAACCATAAAAATGATAGTCGCGATATTAAATCGAGCGAA
*
31974334 CTGTTAGAATAT
66 TTGTTAGAATAT
* ** * * *
31974346 CGAAGGTCACGATCTTAAATCGAGCGAACTTTAAAAATGACAGCCGCGATATTAAATCAAGCGAA
1 CGAAGGTCATGATCTTAAATCGAGCGAACCATAAAAATGATAGTCGCGATATTAAATCGAGCGAA
31974411 TTGTTAGAATAT
66 TTGTTAGAATAT
31974423 CGAAGG
1 CGAAGG
31974429 ATTAAATTGA
Statistics
Matches: 135, Mismatches: 24, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
77 134 0.99
78 1 0.01
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.27
Consensus pattern (77 bp):
CGAAGGTCATGATCTTAAATCGAGCGAACCATAAAAATGATAGTCGCGATATTAAATCGAGCGAA
TTGTTAGAATAT
Found at i:31974367 original size:40 final size:40
Alignment explanation
Indices: 31974315--31974428 Score: 137
Period size: 40 Copynumber: 2.9 Consensus size: 40
31974305 ATGATAGTCG
*
31974315 CGATATTAAATCGAGCGAACTGTTAGAATATCGAAGGTCA
1 CGATATTAAATCGAGCGAACTGTTAGAATATCGAAGGCCA
* * *
31974355 CGATCTTAAATCGAGCGAACT-TTA-AAAAT-GACA-GCCG
1 CGATATTAAATCGAGCGAACTGTTAGAATATCGA-AGGCCA
* *
31974392 CGATATTAAATCAAGCGAATTGTTAGAATATCGAAGG
1 CGATATTAAATCGAGCGAACTGTTAGAATATCGAAGG
31974429 ATTAAATTGA
Statistics
Matches: 61, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
37 22 0.36
38 8 0.13
39 8 0.13
40 23 0.38
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.25
Consensus pattern (40 bp):
CGATATTAAATCGAGCGAACTGTTAGAATATCGAAGGCCA
Found at i:31974410 original size:37 final size:36
Alignment explanation
Indices: 31974290--31974410 Score: 125
Period size: 37 Copynumber: 3.2 Consensus size: 36
31974280 ATCTTATATT
**
31974290 GAGCGAACCATAAAAATGATAGTCGCGATATTAAATC
1 GAGCGAACTTTAAAAATGA-AGTCGCGATATTAAATC
* * *
31974327 GAGCGAACTGTTAGAATATCGAAGGTCACGATCTTAAATC
1 GAGCGAACT-TTA-AAAAT-GAA-GTCGCGATATTAAATC
*
31974367 GAGCGAACTTTAAAAATGACAGCCGCGATATTAAATC
1 GAGCGAACTTTAAAAATGA-AGTCGCGATATTAAATC
*
31974404 AAGCGAA
1 GAGCGAA
31974411 TTGTTAGAAT
Statistics
Matches: 69, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
37 29 0.42
38 7 0.10
39 8 0.12
40 25 0.36
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.21
Consensus pattern (36 bp):
GAGCGAACTTTAAAAATGAAGTCGCGATATTAAATC
Found at i:31977977 original size:21 final size:21
Alignment explanation
Indices: 31977951--31977991 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
31977941 AGACAAGCGA
* *
31977951 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
31977972 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
31977992 TTGAGTAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:31990296 original size:38 final size:38
Alignment explanation
Indices: 31990254--31990330 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
31990244 TAACTATGCA
31990254 TTTCAAACACCGTGCATTTCAAAAATAACATATATCAT
1 TTTCAAACACCGTGCATTTCAAAAATAACATATATCAT
31990292 TTTCAAACACCGTGCATTTCAAAAATAACATATATCAT
1 TTTCAAACACCGTGCATTTCAAAAATAACATATATCAT
31990330 T
1 T
31990331 CAACGTTTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.42, C:0.21, G:0.05, T:0.32
Consensus pattern (38 bp):
TTTCAAACACCGTGCATTTCAAAAATAACATATATCAT
Found at i:31999811 original size:37 final size:37
Alignment explanation
Indices: 31999761--31999834 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
31999751 GTCACAGAGT
31999761 AAGCTTTTTATAGCTTAGTAAGTCATAAGCAAATAGA
1 AAGCTTTTTATAGCTTAGTAAGTCATAAGCAAATAGA
31999798 AAGCTTTTTATAGCTTAGTAAGTCATAAGCAAATAGA
1 AAGCTTTTTATAGCTTAGTAAGTCATAAGCAAATAGA
31999835 CCACTCAGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.32
Consensus pattern (37 bp):
AAGCTTTTTATAGCTTAGTAAGTCATAAGCAAATAGA
Found at i:32003969 original size:76 final size:76
Alignment explanation
Indices: 32003824--32004052 Score: 284
Period size: 76 Copynumber: 3.0 Consensus size: 76
32003814 AAGTTAGTTT
* * * * **
32003824 AAAGTTTATTTATTTAAATTGC-AAAAAAACCATAAAATTGATAATTGAAATAGCGAAAAAGTCA
1 AAAGTTTA-CTATTTAAATTGCAAAAAAAACCATAAAATTGATAACTAAAATGGAAAAAAAGTCA
*
32003888 ATACATAAATAC
65 TTACATAAATAC
32003900 AAAGTTTACTATTTAAATTGCAAAAGAAAACCATAAAATTGATAA-TAAAATGGAAAAAAAGTCA
1 AAAGTTTACTATTTAAATTGCAAAA-AAAACCATAAAATTGATAACTAAAATGGAAAAAAAGTCA
32003964 TTACATAAATAC
65 TTACATAAATAC
* * * * *
32003976 AAAGTTGACTACTTAAATTACAAAAAAAAAATCATAAAATTGATAACTAAAATGGTAAAAAA-TC
1 AAAGTTTACTATTTAAATTGC--AAAAAAAACCATAAAATTGATAACTAAAATGGAAAAAAAGTC
32004040 TATTACATAAATA
64 -ATTACATAAATA
32004053 TGAATTTATT
Statistics
Matches: 136, Mismatches: 11, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
75 12 0.09
76 55 0.40
77 39 0.29
78 30 0.22
ACGTcount: A:0.55, C:0.09, G:0.08, T:0.28
Consensus pattern (76 bp):
AAAGTTTACTATTTAAATTGCAAAAAAAACCATAAAATTGATAACTAAAATGGAAAAAAAGTCAT
TACATAAATAC
Found at i:32004014 original size:77 final size:77
Alignment explanation
Indices: 32003846--32004052 Score: 274
Period size: 77 Copynumber: 2.7 Consensus size: 77
32003836 TTTAAATTGC
* * * ** * *
32003846 AAAAAAACCATAAAATTGATAATTGAAATAGCGAAAAAGTCAATACATAAATACAAAGTTTACTA
1 AAAAAAACCATAAAATTGATAACTAAAATGGAAAAAAAGTCATTACATAAATACAAAGTTGACTA
* *
32003911 TTTAAATTGCAA
66 CTTAAATTACAA
*
32003923 AAGAAAACCATAAAATTGATAA-TAAAATGGAAAAAAAGTCATTACATAAATACAAAGTTGACTA
1 AAAAAAACCATAAAATTGATAACTAAAATGGAAAAAAAGTCATTACATAAATACAAAGTTGACTA
32003987 CTTAAATTACAAA
66 CTTAAATTAC-AA
* *
32004000 AAAAAAATCATAAAATTGATAACTAAAATGGTAAAAAA-TCTATTACATAAATA
1 AAAAAAACCATAAAATTGATAACTAAAATGGAAAAAAAGTC-ATTACATAAATA
32004053 TGAATTTATT
Statistics
Matches: 115, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
76 44 0.38
77 45 0.39
78 26 0.23
ACGTcount: A:0.57, C:0.10, G:0.08, T:0.25
Consensus pattern (77 bp):
AAAAAAACCATAAAATTGATAACTAAAATGGAAAAAAAGTCATTACATAAATACAAAGTTGACTA
CTTAAATTACAA
Found at i:32006364 original size:15 final size:16
Alignment explanation
Indices: 32006346--32006382 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
32006336 AATAAATAAA
32006346 ATTAAAT-AAAATTAC
1 ATTAAATAAAAATTAC
*
32006361 ATTATATAAAAATTAC
1 ATTAAATAAAAATTAC
32006377 ATTAAA
1 ATTAAA
32006383 AAATCACAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.35
Consensus pattern (16 bp):
ATTAAATAAAAATTAC
Found at i:32006505 original size:101 final size:103
Alignment explanation
Indices: 32006379--32006756 Score: 533
Period size: 101 Copynumber: 3.7 Consensus size: 103
32006369 AAAATTACAT
32006379 TAAAAAATCACAAAACAC-TAAACTAAACACTAACAATTTATATAACCTAATCATAAATTACTAA
1 TAAAAAATCACAAAACACAT-AACTAAACACTAACAATTTATATAACCTAATCATAAATTACTAA
32006443 CAAAATAACTATAAAATTATTATTTTT-AAATACATTAC
65 CAAAATAACTATAAAATTATTATTTTTAAAATACATTAC
* * * *
32006481 T-AAAAATCACAAAACACATAACTAAACACAAACAACTTATATAATCTAATCATAAATTACTAAA
1 TAAAAAATCACAAAACACATAACTAAACACTAACAATTTATATAACCTAATCATAAATTACTAAC
*
32006545 AAAATAACTATAAAATTATTATTTTTTAAAAATAAATTAC
66 AAAATAACTATAAAATTATTA-TTTTT-AAAATACATTAC
32006585 TAAAAAATCACAAAACACATAACTAAACACTAACAATTTATATAACCTAATCAT---TTACTAAC
1 TAAAAAATCACAAAACACATAACTAAACACTAACAATTTATATAACCTAATCATAAATTACTAAC
*
32006647 AAAATAATTATAAAATTATT-TTTTTAAAATTACATTAC
66 AAAATAACTATAAAATTATTATTTTTAAAA-TACATTAC
* * * *
32006685 TAAAAAATCACAAAAC-CCTATACTAAACACTAACAA-TT-TGTAACCTAGTCCCATAAATTATT
1 TAAAAAATCACAAAACACATA-ACTAAACACTAACAATTTATATAACCTAAT--CATAAATTACT
32006747 AACAAAATAA
63 AACAAAATAA
32006757 ATAACTATAA
Statistics
Matches: 249, Mismatches: 15, Indels: 23
0.87 0.05 0.08
Matches are distributed among these distances:
98 9 0.04
99 9 0.04
100 46 0.18
101 78 0.31
102 33 0.13
103 14 0.06
104 11 0.04
105 49 0.20
ACGTcount: A:0.54, C:0.16, G:0.01, T:0.30
Consensus pattern (103 bp):
TAAAAAATCACAAAACACATAACTAAACACTAACAATTTATATAACCTAATCATAAATTACTAAC
AAAATAACTATAAAATTATTATTTTTAAAATACATTAC
Found at i:32006978 original size:58 final size:56
Alignment explanation
Indices: 32006916--32007039 Score: 128
Period size: 60 Copynumber: 2.1 Consensus size: 56
32006906 ATAATTTTAC
*
32006916 ATTACTAA-AAACTC-ATCAAATACTAA-ACTAAATACAACAATTTATAACATAATCCT
1 ATTACTAATAAACTCGATCAAA-A-TAATAC-AAACACAACAATTTATAACATAATCCT
* * *
32006972 AAATTACTAATAAATTCGTTTTAAAATAATTACAAACACAACAATTTATAACATAATCCT
1 --ATTACTAATAAACTCG-ATCAAAATAA-TACAAACACAACAATTTATAACATAATCCT
32007032 ATTACTAA
1 ATTACTAA
32007040 CAAATTAATT
Statistics
Matches: 57, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
58 16 0.28
59 8 0.14
60 27 0.47
61 6 0.11
ACGTcount: A:0.51, C:0.17, G:0.01, T:0.31
Consensus pattern (56 bp):
ATTACTAATAAACTCGATCAAAATAATACAAACACAACAATTTATAACATAATCCT
Found at i:32007058 original size:58 final size:59
Alignment explanation
Indices: 32006949--32007061 Score: 183
Period size: 58 Copynumber: 1.9 Consensus size: 59
32006939 TAAACTAAAT
* **
32006949 ACAACAATTTATAACATAATCCTAAATTACTAATAAATTCGTTTTAAAATAATTACAAAC
1 ACAACAATTTATAACATAATCCT-AATTACTAACAAATTAATTTTAAAATAATTACAAAC
32007009 ACAACAATTTATAACATAATCCT-ATTACTAACAAATTAATTTTAAAATAATTA
1 ACAACAATTTATAACATAATCCTAATTACTAACAAATTAATTTTAAAATAATTA
32007062 TAAAAAACAA
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
58 27 0.54
60 23 0.46
ACGTcount: A:0.50, C:0.14, G:0.01, T:0.35
Consensus pattern (59 bp):
ACAACAATTTATAACATAATCCTAATTACTAACAAATTAATTTTAAAATAATTACAAAC
Found at i:32007611 original size:23 final size:24
Alignment explanation
Indices: 32007554--32007615 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
32007544 ATATATATTT
32007554 AAATATTTTTAATAAAAATAAAATA
1 AAATA-TTTTAATAAAAATAAAATA
* * *
32007579 ATAATATTTTATTTAAAGTAAAA-A
1 A-AATATTTTAATAAAAATAAAATA
32007603 AAATATTTTAATA
1 AAATATTTTAATA
32007616 TAAGAAAAGT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
23 10 0.32
24 2 0.06
25 15 0.48
26 4 0.13
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (24 bp):
AAATATTTTAATAAAAATAAAATA
Found at i:32028042 original size:40 final size:39
Alignment explanation
Indices: 32027877--32028060 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
32027867 AAATTGAATG
* * *
32027877 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
32027917 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
32027957 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
32027997 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
32028036 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
32028061 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:32028085 original size:80 final size:81
Alignment explanation
Indices: 32027917--32028105 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
32027907 GCTGGAAATT
* * * *
32027917 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
32027982 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
32027998 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
32028061 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
32028077 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
32028106 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:32035008 original size:46 final size:49
Alignment explanation
Indices: 32034957--32035188 Score: 222
Period size: 46 Copynumber: 4.9 Consensus size: 49
32034947 ATGGTTGAGC
*
32034957 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T-G
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACTAG
* * * *
32035004 -TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACTA-G
*
32035049 CATCCGAACTCATTGAGTTGAGTCCGAGTTCACTCATGGATGCGAAC--G
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACTAG
* * * * * *
32035097 -CCCGAGCTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACTA-G
32035142 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAAC
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAAC
32035189 AGCGGGTTAC
Statistics
Matches: 145, Mismatches: 22, Indels: 32
0.73 0.11 0.16
Matches are distributed among these distances:
42 5 0.03
43 7 0.05
45 6 0.04
46 55 0.38
47 55 0.38
48 5 0.03
50 6 0.04
51 6 0.04
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (49 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACTAG
Found at i:32035073 original size:47 final size:47
Alignment explanation
Indices: 32035004--32035172 Score: 213
Period size: 47 Copynumber: 3.6 Consensus size: 47
32034994 GATGCGAATG
32035004 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCA
* * * * *
32035051 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTCATGGATGCGAAC---GC-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGGCA
*
32035098 -CCGAGCTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCA
32035144 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
32035173 ACTCATGGAT
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
45 4 0.04
46 26 0.26
47 55 0.54
48 4 0.04
50 3 0.03
51 3 0.03
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCA
Found at i:32035114 original size:93 final size:93
Alignment explanation
Indices: 32034955--32035188 Score: 423
Period size: 93 Copynumber: 2.5 Consensus size: 93
32034945 GGATGGTTGA
* * *
32034955 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCGTTGAGT
32035020 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
32035048 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCGTTGAGT
32035113 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
32035141 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAAC
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAAC
32035189 AGCGGGTTAC
Statistics
Matches: 135, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 135 1.00
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:32038124 original size:16 final size:17
Alignment explanation
Indices: 32038093--32038125 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
32038083 TTCATAAGTA
*
32038093 TATATTAATCATTTCAT
1 TATATCAATCATTTCAT
32038110 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
32038126 GCTCCATCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.36, C:0.12, G:0.00, T:0.52
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:32038469 original size:46 final size:46
Alignment explanation
Indices: 32038409--32038820 Score: 578
Period size: 46 Copynumber: 9.0 Consensus size: 46
32038399 TTTGACATGA
* * * * *
32038409 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATATCAGGT
* * * *
32038455 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
* *** *
32038501 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
* *
32038547 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
32038593 TGCCATGGTATCTTTCAACCATGGTCTTACAT-ATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTAC-TCATTTCATATCAGGT
* *
32038639 TGCCATGGTATCTTTTAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
*
32038685 TGCCATGGTATCTTTCAACCATGGTCTTA-TACATTTCATATTAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACT-CATTTCATATCAGGT
*
32038731 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
* *
32038777 TGTCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAG
32038821 AGAGCACACT
Statistics
Matches: 337, Mismatches: 24, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
45 4 0.01
46 332 0.99
47 1 0.00
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
Found at i:32042376 original size:10 final size:10
Alignment explanation
Indices: 32042361--32042386 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
32042351 AAATTCTCAT
32042361 TTCAATACAA
1 TTCAATACAA
32042371 TTCAATACAA
1 TTCAATACAA
32042381 TTCAAT
1 TTCAAT
32042387 TCACTTTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (10 bp):
TTCAATACAA
Found at i:32051766 original size:21 final size:21
Alignment explanation
Indices: 32051724--32051768 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
32051714 TTGTAAAATT
*
32051724 ATAAAAAATTTATTTTATAAA
1 ATAAAAAATTTATTTTAGAAA
*
32051745 ATAATAAATATTATTTT-GAAA
1 ATAAAAAAT-TTATTTTAGAAA
32051766 ATA
1 ATA
32051769 TTTTATATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (21 bp):
ATAAAAAATTTATTTTAGAAA
Found at i:32053418 original size:16 final size:16
Alignment explanation
Indices: 32053397--32053428 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
32053387 TGTTATTAGT
32053397 ATTTATTTTAAATTAA
1 ATTTATTTTAAATTAA
*
32053413 ATTTATTTTAATTTAA
1 ATTTATTTTAAATTAA
32053429 TTTTTAAGGA
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:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
ATTTATTTTAAATTAA
Found at i:32054846 original size:17 final size:16
Alignment explanation
Indices: 32054804--32054835 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
32054794 AATTGGGTTG
32054804 AGAAAATTATTTAATT
1 AGAAAATTATTTAATT
32054820 AGAAAATTATTTAATT
1 AGAAAATTATTTAATT
32054836 TAATAAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (16 bp):
AGAAAATTATTTAATT
Found at i:32058485 original size:26 final size:26
Alignment explanation
Indices: 32058449--32058532 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
32058439 CATGAAATTC
32058449 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
32058475 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
32058501 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
32058527 TTATCA
1 TTATCA
32058533 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:32069439 original size:30 final size:29
Alignment explanation
Indices: 32069403--32069622 Score: 291
Period size: 30 Copynumber: 7.5 Consensus size: 29
32069393 GACAAGATTG
* * * * *
32069403 GCACTAAGTGTGCGGGTTTAAAATCGTACA
1 GCACTAAGTGTGCGAGCTGAAAAT-ATATA
* *
32069433 GCACTAAGTGTGCGAGTTTG--ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATATATA
32069461 GCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATA
* *
32069490 GCACTAAGTGTGCGAGCTGAAAATTACATG
1 GCACTAAGTGTGCGAGCTGAAAA-TATATA
32069520 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATA
32069550 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATA
*
32069580 GCACTAAGTGCGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATA
32069609 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
32069623 GATTCACTAT
Statistics
Matches: 173, Mismatches: 13, Indels: 9
0.89 0.07 0.05
Matches are distributed among these distances:
27 2 0.01
28 19 0.11
29 51 0.29
30 99 0.57
31 2 0.01
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGCTGAAAATATATA
Found at i:32069620 original size:119 final size:117
Alignment explanation
Indices: 32069401--32069622 Score: 338
Period size: 119 Copynumber: 1.9 Consensus size: 117
32069391 GTGACAAGAT
* * * * *
32069401 TGGCACTAAGTGTGCGGGTTTAAAATCGTACAGCACTAAGTGTGCGAGTTTGATTATATAGCACT
1 TGGCACTAAGTGTGCGAGCTGAAAATCATACAGCACTAAGTGTGCGAGTCTGATTATATAGCACT
*
32069466 AAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATTACA
66 AAGTGCGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATTACA
* *
32069518 TGGCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAG-CTGAAAATTATATAGC
1 TGGCACTAAGTGTGCGAGCTGAAAATCATACAGCACTAAGTGTGCGAGTCTG---ATTATATAGC
32069582 ACTAAGTGCGCGAGCTGAAAATATATAGCACTAAGTGTGCG
63 ACTAAGTGCGCGAGCTGAAAATATATAGCACTAAGTGTGCG
32069623 GATTCACTAT
Statistics
Matches: 94, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
116 2 0.02
117 42 0.45
119 50 0.53
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.26
Consensus pattern (117 bp):
TGGCACTAAGTGTGCGAGCTGAAAATCATACAGCACTAAGTGTGCGAGTCTGATTATATAGCACT
AAGTGCGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATTACA
Found at i:32072170 original size:26 final size:26
Alignment explanation
Indices: 32072132--32072189 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
32072122 TATGAAATTC
32072132 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
32072158 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
32072184 TTATCA
1 TTATCA
32072190 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:32074000 original size:14 final size:14
Alignment explanation
Indices: 32073981--32074008 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
32073971 AATTTATTTC
32073981 ATTTTAATATATAT
1 ATTTTAATATATAT
32073995 ATTTTAATATATAT
1 ATTTTAATATATAT
32074009 TTTAAAATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
ATTTTAATATATAT
Found at i:32074006 original size:12 final size:12
Alignment explanation
Indices: 32073989--32074013 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
32073979 TCATTTTAAT
32073989 ATATATATTTTA
1 ATATATATTTTA
32074001 ATATATATTTTA
1 ATATATATTTTA
32074013 A
1 A
32074014 AATTCTCAAA
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
ATATATATTTTA
Found at i:32076842 original size:133 final size:133
Alignment explanation
Indices: 32076666--32076918 Score: 375
Period size: 133 Copynumber: 1.9 Consensus size: 133
32076656 AAACACGAGT
* *
32076666 GAAAGTCCAAAGGAATATTCGATTATTTTGAACAAACGGGAAATCGCAACCCAGCACGATAGGTC
1 GAAAGTCCAAAGGAACATTCGATTATTTTGAACAAACGGGAAATCGCAACCCAGCACGATAGGGC
* *
32076731 ACTATTC-CCTGAATTGCCAAACACCGAACTTTACCTT-AGTTTTGAAGAATTTTTTTTAAGACA
66 ACAATTCTCC-GAATTGCCAAACACCGAACCTTACCTTCA-TTTTGAAGAATTTTTTTTAAGACA
32076794 TGAGA
129 TGAGA
* *
32076799 GAAATTCCAAAGGAACATTCGATTGTTTTGAACAAACGGGAAATCGCAACCCAGCACGATAGGGC
1 GAAAGTCCAAAGGAACATTCGATTATTTTGAACAAACGGGAAATCGCAACCCAGCACGATAGGGC
* ** * *
32076864 ACAATTCTCCGAATTTCCAAGTATCGAACCTTACCTTCATTTTTAAGAATTTTTT
66 ACAATTCTCCGAATTGCCAAACACCGAACCTTACCTTCATTTTGAAGAATTTTTT
32076919 AAATGAATAA
Statistics
Matches: 107, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
133 104 0.97
134 3 0.03
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (133 bp):
GAAAGTCCAAAGGAACATTCGATTATTTTGAACAAACGGGAAATCGCAACCCAGCACGATAGGGC
ACAATTCTCCGAATTGCCAAACACCGAACCTTACCTTCATTTTGAAGAATTTTTTTTAAGACATG
AGA
Found at i:32077954 original size:2 final size:2
Alignment explanation
Indices: 32077947--32077988 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
32077937 ATGTATAGAT
32077947 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
32077989 CCAATGTTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:32086402 original size:33 final size:30
Alignment explanation
Indices: 32086365--32086448 Score: 96
Period size: 30 Copynumber: 2.7 Consensus size: 30
32086355 TATAATTATT
*
32086365 TTTAAAATTAATTATACATAGAATATTTAAAAA
1 TTTAAAA-TAATGATACAT-G-ATATTTAAAAA
* *
32086398 TTTAAAAATAATGATAAATGATATTTAATAA
1 TTT-AAAATAATGATACATGATATTTAAAAA
*
32086429 TTTAATATAATGATACATGA
1 TTTAAAATAATGATACATGA
32086449 AATATAAATT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
30 15 0.33
31 13 0.29
32 1 0.02
33 12 0.27
34 4 0.09
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.39
Consensus pattern (30 bp):
TTTAAAATAATGATACATGATATTTAAAAA
Found at i:32086424 original size:31 final size:30
Alignment explanation
Indices: 32086295--32086448 Score: 88
Period size: 31 Copynumber: 5.1 Consensus size: 30
32086285 ATTGACTTAG
**
32086295 ATGATATTTAAATAATTTACTATAATGATAA
1 ATGATATTTAAA-AATTTAAAATAATGATAA
* *
32086326 ATGAAATAT-AAAATTT-AAATACAT--TCAA
1 ATGATATTTAAAAATTTAAAATA-ATGAT-AA
* ** * *
32086354 AT-ATAATT--ATTTTTAAAATTAATTATAC
1 ATGATATTTAAAAATTTAAAA-TAATGATAA
32086382 ATAGAATATTTAAAAATTTAAAAATAATGATAA
1 AT-G-ATATTTAAAAATTT-AAAATAATGATAA
* * *
32086415 ATGATATTTAATAATTTAATATAATGATAC
1 ATGATATTTAAAAATTTAAAATAATGATAA
32086445 ATGA
1 ATGA
32086449 AATATAAATT
Statistics
Matches: 93, Mismatches: 18, Indels: 25
0.68 0.13 0.18
Matches are distributed among these distances:
26 4 0.04
27 9 0.10
28 12 0.13
29 8 0.09
30 17 0.18
31 25 0.27
32 1 0.01
33 13 0.14
34 4 0.04
ACGTcount: A:0.52, C:0.03, G:0.05, T:0.40
Consensus pattern (30 bp):
ATGATATTTAAAAATTTAAAATAATGATAA
Found at i:32086428 original size:119 final size:120
Alignment explanation
Indices: 32086295--32086575 Score: 376
Period size: 119 Copynumber: 2.4 Consensus size: 120
32086285 ATTGACTTAG
* *
32086295 ATGATATTTAAATAATTTACTATAATGATAAATGAAATATAAAATTT-AAATACATTCAA-ATAT
1 ATGATATTTAAATAATTTAATATAATGATACATGAAATATAAAATTTCAAATA-ATT-AATATA-
* * * *
32086358 AATTATTTTTAAAATTAATTATACATAGAA-TA-TTTAAAAATTTAAAAATAATGATAA
63 AATTATTTGTAAAATTAATGATACATA-AACTATTTTAAAAATTCAAAAATAAGGATAA
*
32086415 ATGATATTT-AATAATTTAATATAATGATACATGAAATAT-AAATTTCAAGTAATTAATATAAAT
1 ATGATATTTAAATAATTTAATATAATGATACATGAAATATAAAATTTCAAATAATTAATATAAAT
*
32086478 TATTTGTAAAATTAATGATACATAAACTATTTTAAAAATTCAAATATAAGGATAA
66 TATTTGTAAAATTAATGATACATAAACTATTTTAAAAATTCAAAAATAAGGATAA
* * * *
32086533 ATAATATTTGAATAATTTAATATAATTACACATGAAATATAAA
1 ATGATATTTAAATAATTTAATATAATGATACATGAAATATAAA
32086576 TTAATATAAA
Statistics
Matches: 144, Mismatches: 11, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
116 2 0.01
117 29 0.20
118 42 0.29
119 60 0.42
120 11 0.08
ACGTcount: A:0.52, C:0.04, G:0.05, T:0.38
Consensus pattern (120 bp):
ATGATATTTAAATAATTTAATATAATGATACATGAAATATAAAATTTCAAATAATTAATATAAAT
TATTTGTAAAATTAATGATACATAAACTATTTTAAAAATTCAAAAATAAGGATAA
Found at i:32086458 original size:59 final size:58
Alignment explanation
Indices: 32086298--32086592 Score: 150
Period size: 59 Copynumber: 4.9 Consensus size: 58
32086288 GACTTAGATG
* *
32086298 ATATTTAAATAATTTACTATAATGATAAATGAAATATAAAATTT--AAATACAT--TCAAAT
1 ATATTT-AATAATTTAATATAATGATACATGAAATAT-AAATTTAAAAATA-ATGAT-AAAT
* * * * *
32086356 ATAATT-AT-TTTTAAAATTAATTATACATAGAATATTTAAAAATTTAAAAATAATGATAAAT
1 ATATTTAATAATTTAATA-TAATGATACAT-GAA-A--TATAAATTTAAAAATAATGATAAAT
*
32086417 GATATTTAATAATTTAATATAATGATACATGAAATATAAATTTCAAGTAATTAAT-ATAAAT
1 -ATATTTAATAATTTAATATAATGATACATGAAATATAAATTT-AA--AAATAATGATAAAT
* * * *
32086478 -TATTT-GTAA---AAT-TAATGATACAT-AAACTATTTTAAAAATTCAAATATAAGGATAAAT
1 ATATTTAATAATTTAATATAATGATACATGAAA-TA---T--AAATTTAAAAATAATGATAAAT
* * *
32086535 AATATTTGAATAATTTAATATAATTACACATGAAATATAAATTAATATAAATAATGAT
1 -ATATTT-AATAATTTAATATAATGATACATGAAATATAAATT--TAAAAATAATGAT
32086593 CCTTTGATAA
Statistics
Matches: 179, Mismatches: 25, Indels: 62
0.67 0.09 0.23
Matches are distributed among these distances:
53 3 0.02
54 13 0.07
55 8 0.04
56 15 0.08
57 10 0.06
58 11 0.06
59 29 0.16
60 11 0.06
61 19 0.11
62 25 0.14
63 12 0.07
64 9 0.05
65 11 0.06
66 3 0.02
ACGTcount: A:0.53, C:0.04, G:0.05, T:0.39
Consensus pattern (58 bp):
ATATTTAATAATTTAATATAATGATACATGAAATATAAATTTAAAAATAATGATAAAT
Found at i:32087106 original size:10 final size:11
Alignment explanation
Indices: 32087091--32087120 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
32087081 TCGTGTGTCC
32087091 TTTATTTTA-T
1 TTTATTTTATT
32087101 TTTATTTTATT
1 TTTATTTTATT
32087112 TTTATTTTA
1 TTTATTTTA
32087121 CTTTCACAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTATTTTATT
Found at i:32087116 original size:6 final size:5
Alignment explanation
Indices: 32087091--32087120 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
32087081 TCGTGTGTCC
32087091 TTTAT TTTAT TTTAT TTTATT TTTAT TTTA
1 TTTAT TTTAT TTTAT TTTA-T TTTAT TTTA
32087121 CTTTCACAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTAT
Found at i:32091007 original size:11 final size:11
Alignment explanation
Indices: 32090987--32091015 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
32090977 CTATGTGTTC
32090987 TTTA-TTTTAT
1 TTTATTTTTAT
32090997 TTTATTTTTAT
1 TTTATTTTTAT
32091008 TTTATTTT
1 TTTATTTT
32091016 CACAGGAGCG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.22
11 14 0.78
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTATTTTTAT
Found at i:32092783 original size:2 final size:2
Alignment explanation
Indices: 32092776--32092807 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
32092766 GCTCTTGCAG
32092776 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
32092808 GTTTGCACAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32093610 original size:40 final size:41
Alignment explanation
Indices: 32093516--32093660 Score: 172
Period size: 40 Copynumber: 3.6 Consensus size: 41
32093506 TACTCGAATG
* * *
32093516 ATATCCGGGCT-AGGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCT-AGAGACT
* *
32093557 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGAGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGAGACT
* * *
32093597 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGAGACT
*
32093637 ATATCCGGGCTAAGA-CCTGAAGGC
1 ATATCCGGGCTAAGATCCCGAAGGC
32093661 CTTGTGCGAG
Statistics
Matches: 90, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
39 1 0.01
40 61 0.68
41 25 0.28
42 3 0.03
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (41 bp):
ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGAGACT
Found at i:32100042 original size:57 final size:56
Alignment explanation
Indices: 32099959--32100111 Score: 216
Period size: 57 Copynumber: 2.7 Consensus size: 56
32099949 CCTCTCGAGT
*
32099959 ATATGTTACAATTAGGATTTAGCCTGGACTGGTAATCCTAATTGAGCTCTTCTGAGC
1 ATATGTTACAA-TAGGATTTAGCCTGGACTGGTAATCCTAATTAAGCTCTTCTGAGC
* * * *
32100016 ATATGTTACATAAAGGATTTAACCTGGACTGATAATCCTAATTAAGCTCTTGTGAGC
1 ATATGTTACA-ATAGGATTTAGCCTGGACTGGTAATCCTAATTAAGCTCTTCTGAGC
**
32100073 ATATGTTGGAGATAGGATTTAGCCTGGACTGGTAATCCT
1 ATATGTTACA-ATAGGATTTAGCCTGGACTGGTAATCCT
32100112 GTTATATGAT
Statistics
Matches: 84, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
57 83 0.99
58 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.34
Consensus pattern (56 bp):
ATATGTTACAATAGGATTTAGCCTGGACTGGTAATCCTAATTAAGCTCTTCTGAGC
Found at i:32101469 original size:13 final size:13
Alignment explanation
Indices: 32101451--32101484 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
32101441 AGCACATGGG
32101451 CGTGTGACTTGGC
1 CGTGTGACTTGGC
32101464 CGTGTGACTTGGC
1 CGTGTGACTTGGC
32101477 CGTGTGAC
1 CGTGTGAC
32101485 GCAAGTCAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.09, C:0.24, G:0.38, T:0.29
Consensus pattern (13 bp):
CGTGTGACTTGGC
Found at i:32105422 original size:22 final size:21
Alignment explanation
Indices: 32105360--32105422 Score: 54
Period size: 21 Copynumber: 3.0 Consensus size: 21
32105350 AAAAAACAAC
* * *
32105360 GTAGGTATCGATACCAAATAA
1 GTAGGCATCGATACTAAATGA
* * * *
32105381 GTAGCCATTGATATTTAATGA
1 GTAGGCATCGATACTAAATGA
32105402 GTTAGGCATCGATACTAAATG
1 G-TAGGCATCGATACTAAATG
32105423 TAAAAATCGA
Statistics
Matches: 30, Mismatches: 11, Indels: 1
0.71 0.26 0.02
Matches are distributed among these distances:
21 15 0.50
22 15 0.50
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.30
Consensus pattern (21 bp):
GTAGGCATCGATACTAAATGA
Found at i:32109451 original size:127 final size:125
Alignment explanation
Indices: 32109223--32109477 Score: 456
Period size: 127 Copynumber: 2.0 Consensus size: 125
32109213 ACGATTTGTG
*
32109223 TGTCTTTTTTGGGAAGCAAACTGATGAAAAACATTGTGTTTTTGTCCCCCAATTAGCCAGTTTGC
1 TGTCTCTTTTGGGAAGCAAACTGATGAAAAACATTGTGTTTTTGTCCCCCAATTAGCCAGTTTGC
*
32109288 TCTTTCCTTTTGCTCCCAATACCTCTCTTCCTTTTCAATTTCTATATTAAGATTCAATTT
66 TCTTTCCCTTTGCTCCCAATACCTCTCTTCCTTTTCAATTTCTATATTAAGATTCAATTT
*
32109348 TGTCTCTTTTGGGAAGCAAACTGATGAAAAACATTGTGTTTTTGTCCCCCAATTTTAGCTAGTTT
1 TGTCTCTTTTGGGAAGCAAACTGATGAAAAACATTGTGTTTTTGTCCCCCAA--TTAGCCAGTTT
*
32109413 GCTCTTTCCCTTTGCTCCTAATACCTCTCTTCCTTTTCAATTTCTATATTAAGATTCAATTT
64 GCTCTTTCCCTTTGCTCCCAATACCTCTCTTCCTTTTCAATTTCTATATTAAGATTCAATTT
32109475 TGT
1 TGT
32109478 TTCCATAAGC
Statistics
Matches: 124, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
125 51 0.41
127 73 0.59
ACGTcount: A:0.22, C:0.22, G:0.12, T:0.44
Consensus pattern (125 bp):
TGTCTCTTTTGGGAAGCAAACTGATGAAAAACATTGTGTTTTTGTCCCCCAATTAGCCAGTTTGC
TCTTTCCCTTTGCTCCCAATACCTCTCTTCCTTTTCAATTTCTATATTAAGATTCAATTT
Found at i:32110907 original size:18 final size:20
Alignment explanation
Indices: 32110864--32110912 Score: 66
Period size: 18 Copynumber: 2.5 Consensus size: 20
32110854 AAGCCTAAAA
*
32110864 TAAATAAATAATTTTTTCCT
1 TAAATAAATAATTTTGTCCT
32110884 TAAATAAA-AATTTTGT-CT
1 TAAATAAATAATTTTGTCCT
*
32110902 TTAATAAATAA
1 TAAATAAATAA
32110913 CCGAACATGT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 9 0.35
19 9 0.35
20 8 0.31
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (20 bp):
TAAATAAATAATTTTGTCCT
Found at i:32116096 original size:2 final size:2
Alignment explanation
Indices: 32116089--32116119 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
32116079 ACATGCGTAA
32116089 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
32116120 ATCATATTAG
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:32119739 original size:2 final size:2
Alignment explanation
Indices: 32119734--32119762 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
32119724 AGATGAAAAA
32119734 AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32119763 TACAGAAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:32119751 original size:13 final size:13
Alignment explanation
Indices: 32119733--32119759 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
32119723 AAGATGAAAA
32119733 AATATATATATAT
1 AATATATATATAT
32119746 AATATATATATAT
1 AATATATATATAT
32119759 A
1 A
32119760 TATTACAGAA
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
AATATATATATAT
Found at i:32123497 original size:36 final size:36
Alignment explanation
Indices: 32123457--32123528 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 36
32123447 CATCAACATA
* * *
32123457 AAGACGTGGAATACGTCATGGATACGGTCTAACTCT
1 AAGACATGAAATACGTCATGAATACGGTCTAACTCT
*
32123493 AAGACATGAAATACGTCATGAATATGGTCTAACTCT
1 AAGACATGAAATACGTCATGAATACGGTCTAACTCT
32123529 GAAGTTAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (36 bp):
AAGACATGAAATACGTCATGAATACGGTCTAACTCT
Found at i:32130656 original size:13 final size:13
Alignment explanation
Indices: 32130638--32130662 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32130628 CTTAGTGTGA
32130638 TTTGAATTCTGAT
1 TTTGAATTCTGAT
32130651 TTTGAATTCTGA
1 TTTGAATTCTGA
32130663 GTTGATAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.08, G:0.16, T:0.52
Consensus pattern (13 bp):
TTTGAATTCTGAT
Found at i:32140569 original size:18 final size:19
Alignment explanation
Indices: 32140546--32140588 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
32140536 GAATTTTGGG
32140546 AAATAATAA-AAATTTAA-A
1 AAATAATAAGAAA-TTAAGA
32140564 AAATAA-AAGAAATTAAGA
1 AAATAATAAGAAATTAAGA
32140582 AAATAAT
1 AAATAAT
32140589 CCCAACTCCC
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (19 bp):
AAATAATAAGAAATTAAGA
Found at i:32141655 original size:19 final size:19
Alignment explanation
Indices: 32141631--32141668 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
32141621 TTTGGTTCAG
32141631 GAACTAAATTGTAA-AAATT
1 GAACTAAATT-TAATAAATT
32141650 GAACTAAATTTAATAAATT
1 GAACTAAATTTAATAAATT
32141669 TCAAAACTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 3 0.17
19 15 0.83
ACGTcount: A:0.53, C:0.05, G:0.08, T:0.34
Consensus pattern (19 bp):
GAACTAAATTTAATAAATT
Found at i:32163011 original size:26 final size:26
Alignment explanation
Indices: 32162975--32163081 Score: 187
Period size: 26 Copynumber: 4.1 Consensus size: 26
32162965 GAAATGCCCG
*
32162975 TCATGGAACATTTACCTAAACCATTA
1 TCATGGAACATTTACCTAACCCATTA
32163001 TCATGGAACATTTACCTAACCCATTA
1 TCATGGAACATTTACCTAACCCATTA
* *
32163027 TCATGGAATATTTACCTAATCCATTA
1 TCATGGAACATTTACCTAACCCATTA
32163053 TCATGGAACATTTACCTAACCCATTA
1 TCATGGAACATTTACCTAACCCATTA
32163079 TCA
1 TCA
32163082 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
TCATGGAACATTTACCTAACCCATTA
Found at i:32164361 original size:21 final size:22
Alignment explanation
Indices: 32164332--32164377 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
32164322 TATTCAGACA
* *
32164332 AGTGATACTCCACAGCAGGTGG
1 AGTGATACTCCAAAACAGGTGG
32164354 AGTG-TACTCCAAAACAGGTGG
1 AGTGATACTCCAAAACAGGTGG
32164375 AGT
1 AGT
32164378 TTGAGTAGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.30, C:0.20, G:0.30, T:0.20
Consensus pattern (22 bp):
AGTGATACTCCAAAACAGGTGG
Found at i:32166306 original size:22 final size:22
Alignment explanation
Indices: 32166278--32166319 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
32166268 AAAGGTGGAG
*
32166278 ATTGTTGACAATTACATGGTAA
1 ATTGTTGAAAATTACATGGTAA
*
32166300 ATTGTTGAAAATTGCATGGT
1 ATTGTTGAAAATTACATGGT
32166320 TTTGCAGCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.07, G:0.21, T:0.38
Consensus pattern (22 bp):
ATTGTTGAAAATTACATGGTAA
Found at i:32167116 original size:41 final size:41
Alignment explanation
Indices: 32167059--32167142 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
32167049 AACATTTAGT
32167059 CTGTATTTCATTATTGACCTCTATAAATCGGGAATAATGAC
1 CTGTATTTCATTATTGACCTCTATAAATCGGGAATAATGAC
32167100 CTGTATTTCATTATTGACCTCTATAAATCGGGAATAATGAC
1 CTGTATTTCATTATTGACCTCTATAAATCGGGAATAATGAC
32167141 CT
1 CT
32167143 TCTTATTCTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (41 bp):
CTGTATTTCATTATTGACCTCTATAAATCGGGAATAATGAC
Found at i:32173451 original size:15 final size:15
Alignment explanation
Indices: 32173427--32173467 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
32173417 TAAAAAAATT
*
32173427 TGATAGTAATAGTAA
1 TGATAATAATAGTAA
*
32173442 TGATAATAATATTAA
1 TGATAATAATAGTAA
*
32173457 TGGTAATAATA
1 TGATAATAATA
32173468 AACATAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.49, C:0.00, G:0.15, T:0.37
Consensus pattern (15 bp):
TGATAATAATAGTAA
Found at i:32173561 original size:2 final size:2
Alignment explanation
Indices: 32173509--32173550 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
32173499 TATAAAAATG
32173509 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
32173551 AAGAATATAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:32173626 original size:3 final size:3
Alignment explanation
Indices: 32173620--32173923 Score: 236
Period size: 3 Copynumber: 102.0 Consensus size: 3
32173610 TAAAAAAAAA
* *
32173620 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT GAT AAT GAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
32173668 AAT GAT AA- ATAT AGT AAT AAT AAT AGT AAT AA- AA- AAT -AG AAC
1 AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
32173710 AACA AAT AAT AAT AAT AAT AAT AAT AAT ACATT AAT AAA AAT AAT AAG
1 AA-T AAT AAT AAT AAT AAT AAT AAT AAT A-A-T AAT AAT AAT AAT AAT
** *
32173758 AAT -AT GTT AAT AAT AAT AA- ATT AAT GAATT AAT AAT AA- AAT GAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AA-T AAT AAT AAT AAT -AAT
* * * * *
32173803 AAAT AAAT AA- ACAC AAA AAT AA- AAT -AT AAT TAT AAT AGT AAT ATT
1 -AAT -AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
32173848 AAC AA- AAT AGT AGT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
32173894 AAT AAT AAT AAT AAT AAT AAT AAT GAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
32173924 GTGATAAAAC
Statistics
Matches: 245, Mismatches: 37, Indels: 38
0.77 0.12 0.12
Matches are distributed among these distances:
2 20 0.08
3 202 0.82
4 20 0.08
5 3 0.01
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:32173792 original size:16 final size:17
Alignment explanation
Indices: 32173771--32173813 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
32173761 ATGTTAATAA
*
32173771 TAATAAAT-TAATGAAT
1 TAATAAATAAAATGAAT
32173787 TAAT-AATAAAATGAAT
1 TAATAAATAAAATGAAT
*
32173803 AAATAAATAAA
1 TAATAAATAAA
32173814 CACAAAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 3 0.13
16 14 0.61
17 6 0.26
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (17 bp):
TAATAAATAAAATGAAT
Found at i:32174545 original size:2 final size:2
Alignment explanation
Indices: 32174538--32174564 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
32174528 TATGTTTTTA
32174538 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
32174565 CATGAGAAAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:32181906 original size:2 final size:2
Alignment explanation
Indices: 32181899--32181927 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
32181889 AACCTTACCT
32181899 TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
32181928 AAACCCAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:32182411 original size:16 final size:17
Alignment explanation
Indices: 32182379--32182418 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 17
32182369 ATTAAGAGTA
32182379 ATTTTTTAATTTATTTT
1 ATTTTTTAATTTATTTT
*
32182396 ATTTTTTATATTTTTTATT
1 ATTTTTTA-ATTTATT-TT
32182415 ATTT
1 ATTT
32182419 CTACATGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 8 0.40
18 6 0.30
19 6 0.30
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.78
Consensus pattern (17 bp):
ATTTTTTAATTTATTTT
Found at i:32187841 original size:21 final size:21
Alignment explanation
Indices: 32187817--32187875 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
32187807 GTAAGGGTTT
32187817 ACACGCCCATGTGGAGGCCAC
1 ACACGCCCATGTGGAGGCCAC
* * *
32187838 ACACGCCTATGTGAAGGCCCC
1 ACACGCCCATGTGGAGGCCAC
* *
32187859 ACAAGCCCATGTAGAGG
1 ACACGCCCATGTGGAGG
32187876 GGACACATGC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.27, C:0.34, G:0.27, T:0.12
Consensus pattern (21 bp):
ACACGCCCATGTGGAGGCCAC
Found at i:32190044 original size:37 final size:37
Alignment explanation
Indices: 32189981--32190089 Score: 164
Period size: 37 Copynumber: 2.9 Consensus size: 37
32189971 AGCTCAGACG
* * *
32189981 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGGCA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
32190018 AAATCTCTACACGTAGTCATCAGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
32190055 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
32190090 ATATATTTCC
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:32190359 original size:48 final size:48
Alignment explanation
Indices: 32190235--32190419 Score: 273
Period size: 48 Copynumber: 3.8 Consensus size: 48
32190225 GCACATCGCC
* * *
32190235 TACATATTTCACACTAGCCATTCGGTTTTACCATATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
32190285 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
32190333 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
32190381 TACACATTTCACATTAGCCATTTGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
32190420 TGCATGTTCA
Statistics
Matches: 124, Mismatches: 9, Indels: 6
0.89 0.06 0.04
Matches are distributed among these distances:
48 82 0.66
49 2 0.02
50 40 0.32
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.37
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:32190424 original size:98 final size:97
Alignment explanation
Indices: 32190235--32190418 Score: 282
Period size: 98 Copynumber: 1.9 Consensus size: 97
32190225 GCACATCGCC
* * * *
32190235 TACATATTTCACACTAGCCATTCGGTTTTACCATATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA-ATACACATTTCACATT
32190300 GACCATTCGGCTTTACCACATATGCATATCTCA
65 GACCATTCGGCTTTACCACATATGCATATCTCA
*
32190333 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC-ATACACATTTCACATT-
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAATACACATTTCACATTG
*
32190396 AGCCATTTGGCTTTACCACATAT
66 A-CCATTCGGCTTTACCACATAT
32190419 ATGCATGTTC
Statistics
Matches: 79, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
95 1 0.01
96 34 0.43
98 44 0.56
ACGTcount: A:0.30, C:0.26, G:0.07, T:0.37
Consensus pattern (97 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAATACACATTTCACATTG
ACCATTCGGCTTTACCACATATGCATATCTCA
Found at i:32190468 original size:47 final size:47
Alignment explanation
Indices: 32190389--32190629 Score: 365
Period size: 47 Copynumber: 5.1 Consensus size: 47
32190379 CATACACATT
* * * * *
32190389 TCACATTAGCCATTTGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
32190436 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
32190483 TCACACTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
32190530 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
32190577 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
32190624 TCACAT
1 TCACAT
32190630 AAAATCCTAA
Statistics
Matches: 177, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 177 1.00
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:32190557 original size:22 final size:22
Alignment explanation
Indices: 32190529--32190600 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
32190519 GTTCACATTC
32190529 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
32190551 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
32190575 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
32190598 ATC
1 ATC
32190601 TCATATATAC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 13 0.35
23 7 0.19
24 7 0.19
25 10 0.27
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:32198956 original size:46 final size:46
Alignment explanation
Indices: 32198889--32199150 Score: 398
Period size: 46 Copynumber: 5.7 Consensus size: 46
32198879 GGCAACCTGA
*
32198889 GTGTAAGACCATGGTTGAAAGATACTATGGCAACCTGATATAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
32198935 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
*
32198981 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
* *
32199027 GTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
*** * * *
32199073 GAACAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
* * * *
32199119 GAGTAAGACCATAGTTGAAAGACACTATGGCA
1 GTGTAAGACCATGGTTGAAAGATACCATGGCA
32199151 TCATATCAAA
Statistics
Matches: 201, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 201 1.00
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (46 bp):
GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
Found at i:32199081 original size:138 final size:130
Alignment explanation
Indices: 32198839--32199150 Score: 426
Period size: 138 Copynumber: 2.3 Consensus size: 130
32198829 AGTGTGCTCT
*
32198839 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGTAAGACCATGGT
1 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGTAAGACCATGGT
* ***
32198904 TGAAAGATACTATGGCAACCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAACCTGATATAAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
32198969 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAG
1 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----TG--A-GTGTAAG
* *
32199034 ACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAACAAGACCATGGTTGAAAGATACC
58 ACCATGGTTGAAAGATACCATGGCAACCTGATATAAAATGAACAAGACCATGGTTGAAAGATACC
32199099 ATGGCAAC
123 ATGGCAAC
* * * * * * *
32199107 ATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
32199151 TCATATCAAA
Statistics
Matches: 160, Mismatches: 14, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
130 46 0.29
135 2 0.01
137 1 0.01
138 111 0.69
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.22
Consensus pattern (130 bp):
CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGTAAGACCATGGT
TGAAAGATACCATGGCAACCTGATATAAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:32202967 original size:26 final size:26
Alignment explanation
Indices: 32202930--32203035 Score: 176
Period size: 26 Copynumber: 4.1 Consensus size: 26
32202920 GTACAAATTA
32202930 ATAATGGGTTAGGTAAATGTTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
* *
32202956 ATAATGGATTAGGTAAATATTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
*
32202982 ATAATGGGTTAGGTAAATGTTCTATG
1 ATAATGGGTTAGGTAAATGTTCCATG
*
32203008 ATAATGGTTTAGGTAAATGTTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
32203034 AT
1 AT
32203036 GGGTATTTCA
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.37
Consensus pattern (26 bp):
ATAATGGGTTAGGTAAATGTTCCATG
Found at i:32207200 original size:3 final size:3
Alignment explanation
Indices: 32207192--32207216 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
32207182 GTGAGATTAA
32207192 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
32207217 GAAGAAGAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:32218813 original size:2 final size:2
Alignment explanation
Indices: 32218806--32218839 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
32218796 GCCTGTCTTC
32218806 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
32218840 CTGTCACTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32225664 original size:17 final size:16
Alignment explanation
Indices: 32225640--32225672 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
32225630 AAAAAATTTT
32225640 AAAATTATAAAATATA
1 AAAATTATAAAATATA
32225656 AAAATTTATAAAATATA
1 AAAA-TTATAAAATATA
32225673 TTTGGTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AAAATTATAAAATATA
Found at i:32226587 original size:17 final size:18
Alignment explanation
Indices: 32226565--32226599 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
32226555 GATATGATAC
*
32226565 TAAAAT-TATTAAAAAAT
1 TAAAATATATAAAAAAAT
32226582 TAAAATATATAAAAAAAT
1 TAAAATATATAAAAAAAT
32226600 CAGGGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAATATATAAAAAAAT
Found at i:32226913 original size:19 final size:19
Alignment explanation
Indices: 32226889--32226925 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
32226879 AATCATATCC
32226889 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
32226908 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
32226926 TGAAGATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:32226933 original size:17 final size:19
Alignment explanation
Indices: 32226892--32226933 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
32226882 CATATCCTCT
*
32226892 AAGATTGCATATCATATCT
1 AAGATTGCATATCATATCG
32226911 AAGATTGCATATCAT-T-G
1 AAGATTGCATATCATATCG
32226928 AAGATT
1 AAGATT
32226934 ATATTTCCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.27
18 1 0.05
19 15 0.68
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (19 bp):
AAGATTGCATATCATATCG
Found at i:32227334 original size:45 final size:45
Alignment explanation
Indices: 32227279--32227476 Score: 240
Period size: 44 Copynumber: 4.5 Consensus size: 45
32227269 GGAAGGCGAT
* * * *
32227279 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATATAGAGACGTCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
*
32227324 ATCTGTTATCTTCGATCTTCTCCCCGTCTAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* * *
32227369 ATCTGCT-TCTTCAATCTGCTCCCCGTCTAATACAGA-ATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* * * * *
32227412 ATCTGTTATCTCCGATTTGCT-CCCGTCTAATATAGAGATGGCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* *
32227456 ATCTGTCATCTTGGATCTGCT
1 ATCTGTTATCTTCGATCTGCT
32227477 TCGATGTAAA
Statistics
Matches: 132, Mismatches: 19, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
43 26 0.20
44 60 0.45
45 46 0.35
ACGTcount: A:0.24, C:0.28, G:0.15, T:0.33
Consensus pattern (45 bp):
ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
Found at i:32227395 original size:44 final size:45
Alignment explanation
Indices: 32227279--32227550 Score: 234
Period size: 44 Copynumber: 6.1 Consensus size: 45
32227269 GGAAGGCGAT
* * *
32227279 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATATAGAGACGTCAA
1 ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* *
32227324 ATCTGTTATCTTCGATCTTCTCCCCGTCTAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* *
32227369 ATCTGCT-TCTTCAATCTGCTCCCCGTCTAATACAGA-ATGCCAA
1 ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* * * * * *
32227412 ATCTGTTATCTCCGATTTGCT-CCCGTCTAATATAGAGATGGCAA
1 ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* * * * * * *
32227456 ATCTG-TCATCTTGGATCTGCT--TCGATGTAA-ACACATGAAGGTCAG
1 ATCTGCT-ATCTTCGATCTGCTCCCCG-TCTAATACAGA-G-ACGCCAA
* * *
32227501 ATCTGCTATGTCTTCAATCTGCTCCCCGTTTAATACAGAGATGCCAA
1 ATCTGCTA--TCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
32227548 ATC
1 ATC
32227551 ATCTTGGATC
Statistics
Matches: 182, Mismatches: 33, Indels: 22
0.77 0.14 0.09
Matches are distributed among these distances:
43 32 0.18
44 64 0.35
45 56 0.31
46 1 0.01
47 18 0.10
48 5 0.03
49 6 0.03
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.32
Consensus pattern (45 bp):
ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
Found at i:32227457 original size:87 final size:90
Alignment explanation
Indices: 32227279--32227460 Score: 246
Period size: 87 Copynumber: 2.1 Consensus size: 90
32227269 GGAAGGCGAT
** * * *
32227279 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATATAGAGACGTCAAATCTGTTATCTTCGATCTTC
1 ATCTGCTATCTTCAATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTCCGATCTTC
32227344 TCCCCGTCTAATACAGAGACGCCAA
66 TCCCCGTCTAATACAGAGACGCCAA
*
32227369 ATCTGCT-TCTTCAATCTGCTCCCCGTCTAATACAGA-ATGCCAAATCTGTTATCTCCGAT-TTG
1 ATCTGCTATCTTCAATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTCCGATCTT-
* * *
32227431 CT-CCCGTCTAATATAGAGATGGCAA
65 CTCCCCGTCTAATACAGAGACGCCAA
32227456 ATCTG
1 ATCTG
32227461 TCATCTTGGA
Statistics
Matches: 82, Mismatches: 9, Indels: 5
0.85 0.09 0.05
Matches are distributed among these distances:
87 27 0.33
88 22 0.27
89 26 0.32
90 7 0.09
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.32
Consensus pattern (90 bp):
ATCTGCTATCTTCAATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTCCGATCTTC
TCCCCGTCTAATACAGAGACGCCAA
Found at i:32227619 original size:78 final size:78
Alignment explanation
Indices: 32227490--32227784 Score: 448
Period size: 78 Copynumber: 3.8 Consensus size: 78
32227480 ATGTAAACAC
* *
32227490 ATGAAGGTCAGATCTGCTATGTCTTCAATCTGCTCCCCGTTTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
32227555 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * *
32227568 ATGAAGGTCCA-ATCTGTTATATCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
1 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
32227632 TTGGATCTGCTTCA
65 TTGGATCTGCTTCA
* * *
32227646 ATAAAGGTCAGATCTGATGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
32227711 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * * * **
32227724 ATGAAGGTCAGATCTGCTGTGTCTTTGATCTGCTCTCCGTCGAATATGGAGATGCCAAATC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
32227785 TGTTTCTCCG
Statistics
Matches: 198, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
77 2 0.01
78 194 0.98
79 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:32239579 original size:17 final size:18
Alignment explanation
Indices: 32239557--32239591 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
32239547 GATATGATAC
*
32239557 TAAAAT-TATTAAAAAAT
1 TAAAATATATAAAAAAAT
32239574 TAAAATATATAAAAAAAT
1 TAAAATATATAAAAAAAT
32239592 CAGGGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAATATATAAAAAAAT
Found at i:32239932 original size:17 final size:17
Alignment explanation
Indices: 32239879--32239942 Score: 83
Period size: 17 Copynumber: 3.6 Consensus size: 17
32239869 AATCATATCT
*
32239879 TCTAAGATTGCATATTATA
1 TCTAAGATTG--TATCATA
*
32239898 TTTAAGATTGTAATCATA
1 TCTAAGATTGT-ATCATA
32239916 TCTAAGATTGTATCATA
1 TCTAAGATTGTATCATA
32239933 TCTAAGATTG
1 TCTAAGATTG
32239943 CATATCATTG
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
17 17 0.41
18 15 0.37
19 9 0.22
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.42
Consensus pattern (17 bp):
TCTAAGATTGTATCATA
Found at i:32239948 original size:14 final size:15
Alignment explanation
Indices: 32239911--32239948 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
32239901 AAGATTGTAA
32239911 TCATATCTAAGATTG
1 TCATATCTAAGATTG
32239926 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
32239943 -CATATC
1 TCATATC
32239949 ATTGAAGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.29
17 15 0.71
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:32240109 original size:21 final size:21
Alignment explanation
Indices: 32240070--32240110 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
32240060 TGCACTTCGT
* **
32240070 TTTTTTTTTTTGGGTTTATTA
1 TTTTTGTTTTTGGACTTATTA
32240091 TTTTTGTTTTTGGACTTATT
1 TTTTTGTTTTTGGACTTATT
32240111 TCTGGGCCCG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.02, G:0.15, T:0.73
Consensus pattern (21 bp):
TTTTTGTTTTTGGACTTATTA
Found at i:32240405 original size:69 final size:69
Alignment explanation
Indices: 32240283--32240423 Score: 167
Period size: 69 Copynumber: 2.0 Consensus size: 69
32240273 GACTCTTCTT
* * * * * *
32240283 GAGGATTCCATCATAAAGAAGGTCCGTTTCAAGGAATCAGACGTGAATACTAAAGATGCGATGG-
1 GAGGACTCCAACACAAAGAAGGTCCATTTCAAGGAATCAGACGAGAATACTAAAAATGCGATGGT
32240347 CTGTG
66 C-GTG
* ** * *
32240352 GAGGACTCCAACACAAAGAAGGTCTATTTCAAGGAATCAGACGAGTCTCCTAAAAATGTGATGGT
1 GAGGACTCCAACACAAAGAAGGTCCATTTCAAGGAATCAGACGAGAATACTAAAAATGCGATGGT
32240417 CGTG
66 CGTG
32240421 GAG
1 GAG
32240424 TCATCACCAA
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
69 59 0.98
70 1 0.02
ACGTcount: A:0.34, C:0.17, G:0.27, T:0.22
Consensus pattern (69 bp):
GAGGACTCCAACACAAAGAAGGTCCATTTCAAGGAATCAGACGAGAATACTAAAAATGCGATGGT
CGTG
Found at i:32242975 original size:30 final size:31
Alignment explanation
Indices: 32242950--32243008 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
32242940 ATAAATACTC
* *
32242950 AAAATTTGAGGGATTAA-AGTGTAAATATAA
1 AAAATTTGAAGGACTAATAGTGTAAATATAA
*
32242980 AAAATTTGAAGGACTAATAGTGAAAATAT
1 AAAATTTGAAGGACTAATAGTGTAAATAT
32243009 TTTAAGGGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.51, C:0.02, G:0.19, T:0.29
Consensus pattern (31 bp):
AAAATTTGAAGGACTAATAGTGTAAATATAA
Found at i:32249150 original size:31 final size:31
Alignment explanation
Indices: 32249098--32249173 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 31
32249088 TTTTAGATTT
* *
32249098 CTTAAAAGTT-G-AAGAAAAAAATTAG-ATC
1 CTTAAAAGTTGGTAAAAAAAAAATTAGAACC
*
32249126 CTTAAAATGTTGGTAAAAAAAAAATTTGAACC
1 CTTAAAA-GTTGGTAAAAAAAAAATTAGAACC
32249158 CTTAAAAGTTGGTAAA
1 CTTAAAAGTTGGTAAA
32249174 TTTTTTTTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
28 7 0.17
29 3 0.07
30 1 0.02
31 21 0.51
32 9 0.22
ACGTcount: A:0.50, C:0.08, G:0.14, T:0.28
Consensus pattern (31 bp):
CTTAAAAGTTGGTAAAAAAAAAATTAGAACC
Found at i:32253509 original size:9 final size:8
Alignment explanation
Indices: 32253488--32253517 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
32253478 AAATTTAAAA
32253488 TAAAAATT
1 TAAAAATT
32253496 TAAAAATT
1 TAAAAATT
32253504 TAAAAA-T
1 TAAAAATT
32253511 TAAAAAT
1 TAAAAAT
32253518 ACCACTTATG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (8 bp):
TAAAAATT
Found at i:32253509 original size:16 final size:15
Alignment explanation
Indices: 32253488--32253517 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
32253478 AAATTTAAAA
32253488 TAAAAATTTAAAAATT
1 TAAAAA-TTAAAAATT
32253504 TAAAAATTAAAAAT
1 TAAAAATTAAAAAT
32253518 ACCACTTATG
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
TAAAAATTAAAAATT
Found at i:32255942 original size:39 final size:39
Alignment explanation
Indices: 32255888--32255966 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
32255878 CAAATAAATG
32255888 AAATTTGTGGGCTGCTAGAGACACTAGTGATATTCTTCT
1 AAATTTGTGGGCTGCTAGAGACACTAGTGATATTCTTCT
32255927 AAATTTGTGGGCTGCTAGAGACACTAGTGATATTCTTCT
1 AAATTTGTGGGCTGCTAGAGACACTAGTGATATTCTTCT
32255966 A
1 A
32255967 TAGTAGAATT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (39 bp):
AAATTTGTGGGCTGCTAGAGACACTAGTGATATTCTTCT
Found at i:32256540 original size:28 final size:28
Alignment explanation
Indices: 32256503--32256581 Score: 113
Period size: 28 Copynumber: 2.8 Consensus size: 28
32256493 GCAATCAAAT
* *
32256503 ATGGTACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
32256531 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
32256559 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
32256582 CGAATGATTC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.34, C:0.10, G:0.25, T:0.30
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:32261367 original size:28 final size:28
Alignment explanation
Indices: 32261298--32261398 Score: 103
Period size: 28 Copynumber: 3.5 Consensus size: 28
32261288 GACAAGATTG
* * * *
32261298 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
*
32261328 GCACTAAGTGTGCGAGTTTGATTCTATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
* * *
32261356 GCACTAAGTGTGCGAGCTGGAAATATATA
1 GCACTAAGTGTGCGAGTTTG-ATTATATA
32261385 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
32261399 GATTCACTAT
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
28 24 0.39
29 20 0.32
30 18 0.29
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.29
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:32261394 original size:29 final size:28
Alignment explanation
Indices: 32261327--32261398 Score: 99
Period size: 29 Copynumber: 2.5 Consensus size: 28
32261317 AAAATTGTAC
* * * *
32261327 AGCACTAAGTGTGCGAGTTTGATTCTAT
1 AGCACTAAGTGTGCGAGCTGGAATATAT
32261355 AGCACTAAGTGTGCGAGCTGGAAATATAT
1 AGCACTAAGTGTGCGAGCTGG-AATATAT
32261384 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
32261399 GATTCACTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
28 19 0.49
29 20 0.51
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGCTGGAATATAT
Found at i:32263225 original size:21 final size:21
Alignment explanation
Indices: 32263182--32263225 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
32263172 TACACTATAT
* ** *
32263182 TTTATATTTTTTTACTTAGAG
1 TTTAAATTTTTTTACAAAAAG
32263203 TTTAAATTTTTTTACAAAAAG
1 TTTAAATTTTTTTACAAAAAG
32263224 TT
1 TT
32263226 AACATTTGTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.05, G:0.07, T:0.57
Consensus pattern (21 bp):
TTTAAATTTTTTTACAAAAAG
Found at i:32265847 original size:141 final size:140
Alignment explanation
Indices: 32265678--32266040 Score: 374
Period size: 141 Copynumber: 2.6 Consensus size: 140
32265668 TAATTAGTTT
* * ** * * * *
32265678 TTTGGTTAGATAGTTAAATGTTAGTGGTTTTATTTTTGAGTCTTAAGTTTGATACAT-T-TTCCG
1 TTTGATTAAATAGTTAAATAATAATGGTTTTATCTTTGAGTCTTAAGTTTAATACATCTCTTCCA
** * * * *
32265741 CTCATATTTGTATTTTTTATTCCATGTTGTTTTAAGCTTTTTATTATTTTTAATAAATTTTTTTA
66 AACATATTTGTA---ATTATTCCATATTGTTTTAAACTTTTTATTATTTTTAATAAATATTTTTA
32265806 ACATATTAGCTGC-
128 ACATATTAGCT-CA
* ** * * *
32265819 TTTGATTAAATAGTTAAATAATAATGGTTTTATCATTGAGTCCCAAGTTTAATTCCTCCTCTTCT
1 TTTGATTAAATAGTTAAATAATAATGGTTTTATCTTTGAGTCTTAAGTTTAATACAT-CTCTTCC
* *
32265884 AAACATATTTGTAATTATTTCATATTGTTTTAAACTTTTTATTATTTTTAATTAATATTTTTAAC
65 AAACATATTTGTAATTATTCCATATTGTTTTAAACTTTTTATTATTTTTAATAAATATTTTTAAC
32265949 ATATTAGCTCA
130 ATATTAGCTCA
** * *
32265960 TTT-AGTTAAATAGTTAAATAATAATTATTTTATCTTTGAGTCTTAAGTTTAATTCCTCGTCTTC
1 TTTGA-TTAAATAGTTAAATAATAATGGTTTTATCTTTGAGTCTTAAGTTTAATACATC-TCTTC
* * *
32266024 TAAATACATTTGTAATT
64 CAAACATATTTGTAATT
32266041 TTTTATTAAA
Statistics
Matches: 187, Mismatches: 29, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
140 3 0.02
141 170 0.91
143 1 0.01
144 13 0.07
ACGTcount: A:0.29, C:0.10, G:0.10, T:0.52
Consensus pattern (140 bp):
TTTGATTAAATAGTTAAATAATAATGGTTTTATCTTTGAGTCTTAAGTTTAATACATCTCTTCCA
AACATATTTGTAATTATTCCATATTGTTTTAAACTTTTTATTATTTTTAATAAATATTTTTAACA
TATTAGCTCA
Found at i:32266187 original size:2 final size:2
Alignment explanation
Indices: 32266180--32266222 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
32266170 ATCTGTGATA
32266180 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32266221 AT
1 AT
32266223 TATTTTATTT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:32272091 original size:27 final size:25
Alignment explanation
Indices: 32272052--32272131 Score: 70
Period size: 29 Copynumber: 3.0 Consensus size: 25
32272042 TTTCTATAAC
*
32272052 TTTTTAATATTTTAATACATTTTTTG
1 TTTTTAAAATTTTAATA-ATTTTTTG
* *
32272078 TTTTATAAAATTTTATTAATTTTTAATAAT
1 TTTT-TAAAATTTTAATAATTTTT--T--G
*
32272108 TTTTTACAATTTTAATAATTTTTT
1 TTTTTAAAATTTTAATAATTTTTT
32272132 TAAAATATTT
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
26 10 0.23
27 12 0.27
28 1 0.02
29 17 0.39
30 4 0.09
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.64
Consensus pattern (25 bp):
TTTTTAAAATTTTAATAATTTTTTG
Found at i:32272108 original size:19 final size:18
Alignment explanation
Indices: 32272047--32272131 Score: 84
Period size: 19 Copynumber: 4.6 Consensus size: 18
32272037 AAAATTTTCT
*
32272047 ATAACTTTTTAATATTTTA
1 ATAATTTTTTAAT-TTTTA
*
32272066 ATACATTTTTT-GTTTTATA
1 ATA-ATTTTTTAATTTT-TA
32272085 A-AATTTTATTAATTTTTA
1 ATAATTTT-TTAATTTTTA
*
32272103 ATAATTTTTTACAATTTTA
1 ATAATTTTTTA-ATTTTTA
32272122 ATAATTTTTT
1 ATAATTTTTT
32272132 TAAAATATTT
Statistics
Matches: 56, Mismatches: 4, Indels: 12
0.78 0.06 0.17
Matches are distributed among these distances:
17 5 0.09
18 12 0.21
19 33 0.59
20 6 0.11
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (18 bp):
ATAATTTTTTAATTTTTA
Done.