Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 70 of 163
Found at i:18456067 original size:23 final size:23
Alignment explanation
Indices: 18456041--18456084 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
18456031 TCACAAGAAA
18456041 GCATATAACTTTAAGGCATTTAT
1 GCATATAACTTTAAGGCATTTAT
*
18456064 GCATATAACTTTGAGGCATTT
1 GCATATAACTTTAAGGCATTT
18456085 CATCACGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.39
Consensus pattern (23 bp):
GCATATAACTTTAAGGCATTTAT
Found at i:18458674 original size:42 final size:42
Alignment explanation
Indices: 18458561--18458750 Score: 165
Period size: 42 Copynumber: 4.5 Consensus size: 42
18458551 TGATGTATAA
* * *
18458561 AAAGGAAGACTCATGTCTCGTGTTA-AGCATGAGAATT-TG-TAT
1 AAAGGAAGACTCATGTCTCGAG-AAGAGAATGAG-ATTATGAT-T
*
18458603 AAATGGAATACTCATGTCTTC-A-AATGAGAATGAGATTATGATT
1 AAA-GGAAGACTCATGTC-TCGAGAA-GAGAATGAGATTATGATT
* *
18458646 AAAGGAAGACTCATGTCTCGAGAAGAGAATAATATTATGATT
1 AAAGGAAGACTCATGTCTCGAGAAGAGAATGAGATTATGATT
* * * * * *
18458688 AAATGAAGACTCATGTCTTGAGATGAGAATGAAAATATAATT
1 AAAGGAAGACTCATGTCTCGAGAAGAGAATGAGATTATGATT
* *
18458730 AAAGGAAGACTTATGACTCGA
1 AAAGGAAGACTCATGTCTCGA
18458751 TAGAGCATAA
Statistics
Matches: 122, Mismatches: 18, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
41 3 0.02
42 88 0.72
43 28 0.23
44 3 0.02
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.28
Consensus pattern (42 bp):
AAAGGAAGACTCATGTCTCGAGAAGAGAATGAGATTATGATT
Found at i:18466309 original size:13 final size:13
Alignment explanation
Indices: 18466287--18466323 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
18466277 TAGAAACATT
*
18466287 AAATTAAAAATAA
1 AAATTTAAAATAA
18466300 AAATTTAAAATAA
1 AAATTTAAAATAA
18466313 AAATTTAAAAT
1 AAATTTAAAAT
18466324 GACTAAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
AAATTTAAAATAA
Found at i:18473137 original size:10 final size:9
Alignment explanation
Indices: 18473118--18473163 Score: 60
Period size: 9 Copynumber: 5.1 Consensus size: 9
18473108 CCAAATTATA
18473118 TAAAAATAT
1 TAAAAATAT
18473127 TAAAAAGTAT
1 TAAAAA-TAT
18473137 TAAAAAT-T
1 TAAAAATAT
18473145 TAAAAAGTA-
1 TAAAAA-TAT
18473154 TAAAAATAT
1 TAAAAATAT
18473163 T
1 T
18473164 TTTAAATATT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
8 9 0.27
9 15 0.45
10 9 0.27
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (9 bp):
TAAAAATAT
Found at i:18473147 original size:18 final size:18
Alignment explanation
Indices: 18473116--18473163 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
18473106 GTCCAAATTA
18473116 TATAAAAATATTAAAAAG
1 TATAAAAATATTAAAAAG
18473134 TATTAAAAAT-TTAAAAAG
1 TA-TAAAAATATTAAAAAG
18473152 TATAAAAATATT
1 TATAAAAATATT
18473164 TTTAAATATT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
17 7 0.25
18 14 0.50
19 7 0.25
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (18 bp):
TATAAAAATATTAAAAAG
Found at i:18473569 original size:19 final size:20
Alignment explanation
Indices: 18473545--18473582 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
18473535 TCTGATGGGA
*
18473545 AAAAGTAAGTAT-AAAAAAT
1 AAAAGTAAATATCAAAAAAT
18473564 AAAAGTAAATATCAAAAAA
1 AAAAGTAAATATCAAAAAA
18473583 ATATTTTGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.71, C:0.03, G:0.08, T:0.18
Consensus pattern (20 bp):
AAAAGTAAATATCAAAAAAT
Found at i:18473976 original size:13 final size:13
Alignment explanation
Indices: 18473958--18473982 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18473948 TAATTAATTT
18473958 AAAATATATCATA
1 AAAATATATCATA
18473971 AAAATATATCAT
1 AAAATATATCAT
18473983 TTTTATCGGA
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:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (13 bp):
AAAATATATCATA
Found at i:18479356 original size:24 final size:25
Alignment explanation
Indices: 18479315--18479363 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
18479305 CAATAAATAT
18479315 TTTTTCTTCTTTTCTTTTCTCTTTC
1 TTTTTCTTCTTTTCTTTTCTCTTTC
*
18479340 TTTTTC-TCATTTT-TTTTCTTTTTC
1 TTTTTCTTC-TTTTCTTTTCTCTTTC
18479364 AAGTGACTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (25 bp):
TTTTTCTTCTTTTCTTTTCTCTTTC
Found at i:18479362 original size:10 final size:11
Alignment explanation
Indices: 18479314--18479362 Score: 55
Period size: 12 Copynumber: 4.2 Consensus size: 11
18479304 GCAATAAATA
18479314 TTTTTTCTTCTT
1 TTTTTTC-TCTT
18479326 TTCTTTTCTCTT
1 TT-TTTTCTCTT
18479338 TCTTTTTCTCATT
1 T-TTTTTCTC-TT
18479351 TTTTTTCT-TT
1 TTTTTTCTCTT
18479361 TT
1 TT
18479363 CAAGTGACTA
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
10 4 0.12
12 21 0.62
13 9 0.26
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTTTTCTCTT
Found at i:18480451 original size:15 final size:15
Alignment explanation
Indices: 18480419--18480467 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
18480409 GGTTCCTTCA
*
18480419 TTTTATTCTCTTCTTCT
1 TTTTCTTCT-TTC-TCT
18480436 TTTTCTTCTTTCTCT
1 TTTTCTTCTTTCTCT
* *
18480451 TCTTCTTCCTTCTCT
1 TTTTCTTCTTTCTCT
18480466 TT
1 TT
18480468 CTGCTGGTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
15 17 0.61
16 3 0.11
17 8 0.29
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTTCTTCTTTCTCT
Found at i:18480466 original size:21 final size:21
Alignment explanation
Indices: 18480424--18480469 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
18480414 CTTCATTTTA
*
18480424 TTCTCTTCTTCTTTTTCTTCT
1 TTCTCTTCTTCTTCTTCTTCT
18480445 TTCTCTTCTTCTTCCTTC-TCT
1 TTCTCTTCTTCTT-CTTCTTCT
18480466 TTCT
1 TTCT
18480470 GCTGGTTATC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 20 0.87
22 3 0.13
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (21 bp):
TTCTCTTCTTCTTCTTCTTCT
Found at i:18492227 original size:39 final size:39
Alignment explanation
Indices: 18492173--18492250 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
18492163 AAAGGGATAG
18492173 AGATGATCTGGAATGACAATTTCATACAATCCCTTCTCT
1 AGATGATCTGGAATGACAATTTCATACAATCCCTTCTCT
* *
18492212 AGATGATGTGGAATGACAATTTCATACAATCCGTTCTCT
1 AGATGATCTGGAATGACAATTTCATACAATCCCTTCTCT
18492251 CCATTTCAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (39 bp):
AGATGATCTGGAATGACAATTTCATACAATCCCTTCTCT
Found at i:18499035 original size:27 final size:27
Alignment explanation
Indices: 18499004--18499057 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
18498994 ACCCAAGACC
18499004 TTCAAGTTTGACAAGAGTCCCCAACAA
1 TTCAAGTTTGACAAGAGTCCCCAACAA
18499031 TTCAAGTTTGACAAGAGTCCCCAACAA
1 TTCAAGTTTGACAAGAGTCCCCAACAA
18499058 AGCATATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.26, G:0.15, T:0.22
Consensus pattern (27 bp):
TTCAAGTTTGACAAGAGTCCCCAACAA
Found at i:18499811 original size:24 final size:24
Alignment explanation
Indices: 18499726--18499812 Score: 104
Period size: 24 Copynumber: 3.6 Consensus size: 24
18499716 TAGACTAATA
* *
18499726 AGAGTTTGACTCAAACAAATAAAC
1 AGAGTTTAACTGAAACAAATAAAC
*
18499750 AGAGTTTAATTGAAACAAATAAAC
1 AGAGTTTAACTGAAACAAATAAAC
* * *
18499774 AGAGTTT-ACTTGAAATAATTAAAT
1 AGAGTTTAAC-TGAAACAAATAAAC
18499798 AGAGTTTAACTGAAA
1 AGAGTTTAACTGAAA
18499813 GATTATTTCT
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
23 1 0.02
24 51 0.94
25 2 0.04
ACGTcount: A:0.49, C:0.09, G:0.14, T:0.28
Consensus pattern (24 bp):
AGAGTTTAACTGAAACAAATAAAC
Found at i:18501766 original size:24 final size:24
Alignment explanation
Indices: 18501750--18501816 Score: 84
Period size: 24 Copynumber: 2.9 Consensus size: 24
18501740 AGTTTGACTC
*
18501750 AAACAAATAAACAGAG--TAATTG
1 AAACAAATAAACAGAGTTTAATTA
* *
18501772 AAATAAATAAACAGAATTTAATTA
1 AAACAAATAAACAGAGTTTAATTA
*
18501796 AAACAATTAAACAGAGTTTAA
1 AAACAAATAAACAGAGTTTAA
18501817 CTGAAAGATT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
22 14 0.38
24 23 0.62
ACGTcount: A:0.60, C:0.07, G:0.09, T:0.24
Consensus pattern (24 bp):
AAACAAATAAACAGAGTTTAATTA
Found at i:18504466 original size:26 final size:24
Alignment explanation
Indices: 18504408--18504455 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 24
18504398 TGGGCAAAAT
*
18504408 GCAAATTAAAGTTTTTTTTAAAGA
1 GCAAATTAAAGTTTTTTTGAAAGA
18504432 GCAAATTAAAGATATTTTTTGAAA
1 GCAAATTAAAG-T-TTTTTTGAAA
18504456 TGGTAAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 11 0.52
25 1 0.05
26 9 0.43
ACGTcount: A:0.44, C:0.04, G:0.12, T:0.40
Consensus pattern (24 bp):
GCAAATTAAAGTTTTTTTGAAAGA
Found at i:18514715 original size:15 final size:15
Alignment explanation
Indices: 18514690--18514726 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
18514680 GATAACCAGC
18514690 AGAAGGAGAAGGAAGA
1 AGAA-GAGAAGGAAGA
18514706 AGAAGAGAAGGAAGA
1 AGAAGAGAAGGAAGA
*
18514721 AAAAGA
1 AGAAGA
18514727 ATAAGAGAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 16 0.80
16 4 0.20
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (15 bp):
AGAAGAGAAGGAAGA
Found at i:18518097 original size:80 final size:79
Alignment explanation
Indices: 18518000--18518230 Score: 324
Period size: 79 Copynumber: 2.9 Consensus size: 79
18517990 AGTTTCTGCT
18518000 AGAAATTAAATTAAACAATTCTATTTTAGGATTTTATTCATGCAATTCAACAGAATTTATTCGAG
1 AGAAATTAAATTAAACAATTCTATTTTAGGATTTTATTCATGC-ATTCAACAGAATTTATTCGAG
18518065 TTTCTGTTTCCAAAC
65 TTTCTGTTTCCAAAC
* * ** * * *
18518080 ATAAATTAAATTAAACAATTCTA-TTCAGGATTTTATTTTTTTTC-TTCAATAGAATTTATTAGA
1 AGAAATTAAATTAAACAATTCTATTTTAGGATTTTA--TTCATGCATTCAACAGAATTTATTCGA
18518143 GTTTCTGTTTCCAAAC
64 GTTTCTGTTTCCAAAC
* *
18518159 AGAAATTAAATTAAACAATTCTGTTTTAGGATTTTATTCCTGTCATTCAACAGAATTTATTCGA-
1 AGAAATTAAATTAAACAATTCTATTTTAGGATTTTATTCATG-CATTCAACAGAATTTATTCGAG
18518223 TTTCTGTT
65 TTTCTGTT
18518231 ATTAACAGTA
Statistics
Matches: 131, Mismatches: 15, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.02
79 74 0.56
80 50 0.38
81 4 0.03
ACGTcount: A:0.34, C:0.13, G:0.10, T:0.44
Consensus pattern (79 bp):
AGAAATTAAATTAAACAATTCTATTTTAGGATTTTATTCATGCATTCAACAGAATTTATTCGAGT
TTCTGTTTCCAAAC
Found at i:18525719 original size:15 final size:15
Alignment explanation
Indices: 18525701--18525731 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
18525691 TTTATTTGGA
*
18525701 TGATATTTTATTATT
1 TGATATTTTACTATT
18525716 TGATATTTTACTATT
1 TGATATTTTACTATT
18525731 T
1 T
18525732 ATTCAAGTGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (15 bp):
TGATATTTTACTATT
Found at i:18528431 original size:21 final size:19
Alignment explanation
Indices: 18528401--18528449 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 19
18528391 TGTCTTTTTC
*
18528401 TTTTTCTTTTTTTTCTCAA
1 TTTTTCTTTTTTTTTTCAA
18528420 TTTTCTCTTTTTTTTTTCAA
1 TTTT-TCTTTTTTTTTTCAA
18528440 TTTTTCTTTT
1 TTTTTCTTTT
18528450 CGACTTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
19 10 0.36
20 18 0.64
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTTCTTTTTTTTTTCAA
Found at i:18535188 original size:6 final size:6
Alignment explanation
Indices: 18535152--18535235 Score: 56
Period size: 6 Copynumber: 15.0 Consensus size: 6
18535142 GACTTTGATT
* * * *
18535152 TTTAAG TTTAAA -TTAAT TTTAAA TTT-TA TTTAGA TTTAAA TTT--A
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* *
18535196 TCATAAA TTT-AC TTTAAA TTTAAA TTT-AA -TTAAA TTTAAA
1 T-TTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
18535236 AATAATATTA
Statistics
Matches: 60, Mismatches: 10, Indels: 16
0.70 0.12 0.19
Matches are distributed among these distances:
4 4 0.07
5 17 0.28
6 37 0.62
7 2 0.03
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (6 bp):
TTTAAA
Found at i:18535189 original size:28 final size:28
Alignment explanation
Indices: 18535152--18535227 Score: 82
Period size: 28 Copynumber: 2.7 Consensus size: 28
18535142 GACTTTGATT
* *
18535152 TTTAAGTTTAAATTAATTTTAAATTTTA-
1 TTTAAATTTAAATTAATTATAAA-TTTAC
* * *
18535180 TTTAGATTTAAATTTATCATAAATTTAC
1 TTTAAATTTAAATTAATTATAAATTTAC
18535208 TTTAAATTTAAATTTAATTA
1 TTTAAATTTAAA-TTAATTA
18535228 AATTTAAAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
27 4 0.11
28 29 0.76
29 5 0.13
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (28 bp):
TTTAAATTTAAATTAATTATAAATTTAC
Found at i:18535228 original size:16 final size:17
Alignment explanation
Indices: 18535199--18535235 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
18535189 AAATTTATCA
*
18535199 TAAATTTACTTTAAATT
1 TAAATTTACATTAAATT
18535216 TAAATTTA-ATTAAATT
1 TAAATTTACATTAAATT
18535232 TAAA
1 TAAA
18535236 AATAATATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (17 bp):
TAAATTTACATTAAATT
Found at i:18537035 original size:161 final size:162
Alignment explanation
Indices: 18536861--18537201 Score: 542
Period size: 162 Copynumber: 2.1 Consensus size: 162
18536851 ATTAGTTTTC
**
18536861 AATTTAATCCTTTGACTGTTTGACTGCACCAGAGGCTGCCACGTGTCATTTTTTGGCTTATTTA-
1 AATTTAATCCTTTGACTGTTTGACTGCACCAGAGGCTGCCACGTGTCACCTTTTGGCTTATTTAT
**
18536925 TCATTTAGTCCCTGACATTTTAAATTTATTTTAATTTAATCCTTAAATCAACTTTTATTTAATTA
66 TCATTTAGTCCCTGACATTTTAAATTTATTTTAATTTAATCCCCAAATCAACTTTTATTTAATTA
*
18536990 TAAAATTAGCCCAACAATTTTTCAAGGTTTATA
131 TAAAATTAGCCCAACAATTTTTCAAAGTTTA-A
* *
18537023 AA-TTAGTCCTTTGACTGTTTGACTGCACCAGGGGCTGCCACGTGTCACCTTTTGGCTTATTTAT
1 AATTTAATCCTTTGACTGTTTGACTGCACCAGAGGCTGCCACGTGTCACCTTTTGGCTTATTTAT
* * *
18537087 TCATTTAGTCCCTGACATTTTGAATTTGTTTTAATTTAATCCCCAAATCTACTTTTATTTAATTA
66 TCATTTAGTCCCTGACATTTTAAATTTATTTTAATTTAATCCCCAAATCAACTTTTATTTAATTA
* *
18537152 TAAAATTAGGCCAAGAATTTTTCAAAGTTTAA
131 TAAAATTAGCCCAACAATTTTTCAAAGTTTAA
*
18537184 AATTTAATCCCTTGACTG
1 AATTTAATCCTTTGACTG
18537202 CTGGATGCCT
Statistics
Matches: 163, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
161 60 0.37
162 103 0.63
ACGTcount: A:0.28, C:0.18, G:0.12, T:0.43
Consensus pattern (162 bp):
AATTTAATCCTTTGACTGTTTGACTGCACCAGAGGCTGCCACGTGTCACCTTTTGGCTTATTTAT
TCATTTAGTCCCTGACATTTTAAATTTATTTTAATTTAATCCCCAAATCAACTTTTATTTAATTA
TAAAATTAGCCCAACAATTTTTCAAAGTTTAA
Found at i:18537313 original size:28 final size:28
Alignment explanation
Indices: 18537260--18537584 Score: 152
Period size: 30 Copynumber: 11.1 Consensus size: 28
18537250 GTTTATAGGT
* *
18537260 CCCCAAAACTTCCAAAATTACCATTTTA
1 CCCCCAAACTTTCAAAATTACCATTTTA
* * *
18537288 CCCCTAAACCTTTTAAAATT-CTATTTTTAA
1 CCCCCAAA-CTTTCAAAATTACCA-TTTT-A
* *
18537318 CCCCGAAACTTCCAAAATTACCATTTTA
1 CCCCCAAACTTTCAAAATTACCATTTTA
18537346 CCCCCAAACTTTCCAAAATT-CCATTTTTA
1 CCCCCAAACTTT-CAAAATTACCA-TTTTA
* *
18537375 ACCCC-GA-TTTCACCAAAAATTACCATTTTA
1 CCCCCAAACTTT---C-AAAATTACCATTTTA
*
18537405 CCCCCGAACTTTCCAAAATT-CCATCTTTA
1 CCCCCAAACTTT-CAAAATTACCAT-TTTA
* * *
18537434 ACCTC-GA-TTTCACCAAAAATTACCATTTTA
1 CCCCCAAACTTT---C-AAAATTACCATTTTA
* * *
18537464 CCCCCGAACTTCCAAAATT-TCATTTTTA
1 CCCCCAAACTTTCAAAATTACCA-TTTTA
* *
18537492 -ACCCTAA-TTTCACCAAAAATTACCATTTTA
1 CCCCCAAACTTT---C-AAAATTACCATTTTA
18537522 CCCCCTAAACTTTCCAAAATT-CCATTTTTA
1 CCCCC-AAACTTT-CAAAATTACCA-TTTTA
* *
18537552 ACCCC-AATTTCATCAAAAATTACCATTTTA
1 CCCCCAAACTT--TC-AAAATTACCATTTTA
18537582 CCC
1 CCC
18537585 TCGAAGCCTC
Statistics
Matches: 233, Mismatches: 31, Indels: 64
0.71 0.09 0.20
Matches are distributed among these distances:
26 2 0.01
27 13 0.06
28 44 0.19
29 65 0.28
30 80 0.34
31 19 0.08
32 7 0.03
33 3 0.01
ACGTcount: A:0.34, C:0.31, G:0.02, T:0.33
Consensus pattern (28 bp):
CCCCCAAACTTTCAAAATTACCATTTTA
Found at i:18537315 original size:29 final size:29
Alignment explanation
Indices: 18537260--18537556 Score: 119
Period size: 29 Copynumber: 10.1 Consensus size: 29
18537250 GTTTATAGGT
* *
18537260 CCCCAAAACTTCCAAAATTACCA-TTTT-A
1 CCCCCAAACTTTCAAAATT-CCATTTTTAA
* * *
18537288 CCCCTAAACCTTTTAAAATTCTATTTTTAA
1 CCCCCAAA-CTTTCAAAATTCCATTTTTAA
* *
18537318 CCCCGAAACTTCCAAAATTACCA-TTTT-A
1 CCCCCAAACTTTCAAAATT-CCATTTTTAA
18537346 CCCCCAAACTTTCCAAAATTCCATTTTTAA
1 CCCCCAAACTTT-CAAAATTCCATTTTTAA
*
18537376 -CCCC-GA-TTTCACCAAAAATTACCA-TTTT-A
1 CCCCCAAACTTT---C-AAAATT-CCATTTTTAA
* *
18537405 CCCCCGAACTTTCCAAAATTCCATCTTTAA
1 CCCCCAAACTTT-CAAAATTCCATTTTTAA
* *
18537435 -CCTC-GA-TTTCACCAAAAATTACCA-TTTT-A
1 CCCCCAAACTTT---C-AAAATT-CCATTTTTAA
* * *
18537464 CCCCCGAACTTCCAAAATTTCATTTTTAA
1 CCCCCAAACTTTCAAAATTCCATTTTTAA
*
18537493 --CCCTAA-TTTCACCAAAAATTACCA-TTTT-A
1 CCCCCAAACTTT---C-AAAATT-CCATTTTTAA
18537522 CCCCCTAAACTTTCCAAAATTCCATTTTTAA
1 CCCCC-AAACTTT-CAAAATTCCATTTTTAA
18537553 CCCC
1 CCCC
18537557 AATTTCATCA
Statistics
Matches: 209, Mismatches: 24, Indels: 69
0.69 0.08 0.23
Matches are distributed among these distances:
26 2 0.01
27 13 0.06
28 38 0.18
29 66 0.32
30 60 0.29
31 20 0.10
32 7 0.03
33 3 0.01
ACGTcount: A:0.34, C:0.32, G:0.02, T:0.33
Consensus pattern (29 bp):
CCCCCAAACTTTCAAAATTCCATTTTTAA
Found at i:18537417 original size:59 final size:59
Alignment explanation
Indices: 18537273--18537680 Score: 481
Period size: 58 Copynumber: 6.9 Consensus size: 59
18537263 CAAAACTTCC
** * * *
18537273 AAAATTACCATTTTACCCCTAAACCTTT-TAAAATTCTATTTTTAACCCCGAAACTT--CC-
1 AAAATTACCATTTTACCCCCGAA-CTTTCCAAAATTCCATTTTTAACCCCG--ATTTCACCA
*
18537331 AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
1 AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
* *
18537390 AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATCTTTAACCTCGATTTCACCA
1 AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
* **
18537449 AAAATTACCATTTTACCCCCGAAC-TTCCAAAATTTCATTTTTAACCCTAATTTCACCA
1 AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
* * *
18537507 AAAATTACCATTTTACCCCCTAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCATCA
1 AAAATTACCATTTTACCCCC-GAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
* * * **
18537567 AAAATTACCATTTTACCCTCGAAGC-CTCAAAAATTCCATTTTTAACCCTAATTTCACC-
1 AAAATTACCATTTTACCCCCGAA-CTTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
** * * * *
18537625 AAAATTACCATTTTACCCCCG-GGTATCCAAAAGTCCCGTTTTCAACCCCGATTTCA
1 AAAATTACCATTTTACCCCCGAACTTTCCAAAA-TTCCATTTTTAACCCCGATTTCA
18537681 TCGGTTCTTA
Statistics
Matches: 309, Mismatches: 32, Indels: 18
0.86 0.09 0.05
Matches are distributed among these distances:
56 3 0.01
57 10 0.03
58 131 0.42
59 114 0.37
60 51 0.17
ACGTcount: A:0.33, C:0.30, G:0.03, T:0.33
Consensus pattern (59 bp):
AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
Found at i:18537680 original size:58 final size:59
Alignment explanation
Indices: 18537273--18537645 Score: 490
Period size: 59 Copynumber: 6.4 Consensus size: 59
18537263 CAAAACTTCC
** * * *
18537273 AAAATTACCATTTTACCCCTAAACCTTT-TAAAATTCTATTTTTAACCCCGAAACTT--CC-
1 AAAATTACCATTTTACCCCCGAA-CTTTCCAAAATTCCATTTTTAACCCC--AATTTCACCA
* *
18537331 AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
1 AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCAATTTCACCA
* * *
18537390 AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATCTTTAACCTCGATTTCACCA
1 AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCAATTTCACCA
* *
18537449 AAAATTACCATTTTACCCCCGAAC-TTCCAAAATTTCATTTTTAACCCTAATTTCACCA
1 AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCAATTTCACCA
* *
18537507 AAAATTACCATTTTACCCCCTAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCATCA
1 AAAATTACCATTTTACCCCC-GAACTTTCCAAAATTCCATTTTTAACCCCAATTTCACCA
* * * *
18537567 AAAATTACCATTTTACCCTCGAAGC-CTCAAAAATTCCATTTTTAACCCTAATTTCACC-
1 AAAATTACCATTTTACCCCCGAA-CTTTCCAAAATTCCATTTTTAACCCCAATTTCACCA
18537625 AAAATTACCATTTTACCCCCG
1 AAAATTACCATTTTACCCCCG
18537646 GGTATCCAAA
Statistics
Matches: 284, Mismatches: 24, Indels: 14
0.88 0.07 0.04
Matches are distributed among these distances:
56 3 0.01
57 4 0.01
58 112 0.39
59 114 0.40
60 51 0.18
ACGTcount: A:0.34, C:0.30, G:0.02, T:0.34
Consensus pattern (59 bp):
AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCAATTTCACCA
Found at i:18549862 original size:39 final size:40
Alignment explanation
Indices: 18549755--18549866 Score: 112
Period size: 37 Copynumber: 2.9 Consensus size: 40
18549745 CAGACCAAAC
* * *
18549755 AAGATCATTTCCAATCCGCTTGAAATTGAAGTAGAGTGGA
1 AAGATCATTTCCAATCTGCTTGAAATTGAAGTAGAGAGCA
*
18549795 TA-A-CAAGTCTT-C-ATCT-C-TGAAATTGAAGTAG-GAGCA
1 AAGATC-A-T-TTCCAATCTGCTTGAAATTGAAGTAGAGAGCA
18549831 AAGATCATTTCCAATCTGCTTGAAATTGAAGTAGAG
1 AAGATCATTTCCAATCTGCTTGAAATTGAAGTAGAG
18549867 TTGGATAACA
Statistics
Matches: 57, Mismatches: 5, Indels: 20
0.70 0.06 0.24
Matches are distributed among these distances:
35 2 0.04
36 6 0.11
37 20 0.35
38 4 0.07
39 19 0.33
40 4 0.07
41 2 0.04
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.29
Consensus pattern (40 bp):
AAGATCATTTCCAATCTGCTTGAAATTGAAGTAGAGAGCA
Found at i:18549959 original size:68 final size:68
Alignment explanation
Indices: 18549849--18551439 Score: 2300
Period size: 68 Copynumber: 22.8 Consensus size: 68
18549839 TTCCAATCTG
*
18549849 CTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAATGTCA
1 CTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCA
18549914 TCCC
65 TCCC
* * * *
18549918 CTTGAAATTAAAGTAGTGTGGATAACACGTATTTATCTCTGAAATTGAAGTAAGAGCAATGTCAT
1 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCAT
18549983 CCC
66 CCC
*
18549986 CTTGAAATTGAAGTAGAGTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCAT
1 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCAT
*
18550051 CCG
66 CCC
* * * * *
18550054 CTTGAAATTGAAGTAGAGTGGATAACAAGTCTTCATCTTTGAAATTGAAGTAGGAGCAAAGATCA
1 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACG-TCA
18550119 TTTCCAATCC
65 --T-C---CC
*
18550129 GCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAATGTC
1 -CTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTC
*
18550194 ATCCT
64 ATCCC
*
18550199 CTTGAAATTGAAGTAGAGTGGATAACATGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCAT
1 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCAT
*
18550264 CCG
66 CCC
* * * *
18550267 CTTGAAATTGAAGTAGAGTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAGGAGCAAAGATCA
1 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACG-TCA
18550332 TTTCCAATCC
65 --T-C---CC
*
18550342 GCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAATGTC
1 -CTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTC
*
18550407 ATCCT
64 ATCCC
* * *
18550412 CTTGAAATTGAAGTAGAGTGGATAACATGTCTTTATCTTTAAAATTGAAGTAAGAGCAACGTCAT
1 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCAT
*
18550477 CCG
66 CCC
* *
18550480 CTTGAAATTGAAGTAGAGTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAAGAGCAACGTCAT
1 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCAT
18550545 CCC
66 CCC
*
18550548 CTTGAAATTGAAGTAGAGTGGATAACACGTATTTATCTCTGAAATTGAAGTAAGAGCAACGTCAT
1 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCAT
18550613 CCC
66 CCC
* *
18550616 CTTGAAATTGAAGTAGAGTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAAGAGCAACGTCAT
1 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCAT
*
18550681 CCG
66 CCC
* * * *
18550684 CTTGAAATTGAAGTAGAGTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAGGAGCAAAGATCA
1 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACG-TCA
18550749 TTTCCAATCC
65 --T-C---CC
*
18550759 GCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAATGTC
1 -CTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTC
*
18550824 ATCCT
64 ATCCC
* *
18550829 CTTGAAATTGAAGTAGAGTGGATAACATGTCTTTATCTCTGAAATTGAAGTAAGAGCAATGTCAT
1 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCAT
18550894 CCC
66 CCC
18550897 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCAT
1 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCAT
*
18550962 CCG
66 CCC
* *
18550965 CTTGAAATTGAAGTAGAGTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAAGAGCAACGTCAT
1 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCAT
18551030 CCC
66 CCC
*
18551033 CTTGAAATTGAAGTAGAGTGGATAACACGTATTTATCTCTGAAATTGAAGTAAGAGCAACGTCAT
1 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCAT
18551098 CCC
66 CCC
* *
18551101 CTTGAAATTGAAGTAGAGTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAAGAGCAACGTCAT
1 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCAT
18551166 CCC
66 CCC
*
18551169 CTTGAAACTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCAT
1 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCAT
*
18551234 CCG
66 CCC
* *
18551237 TTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAATGTCA
1 CTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCA
*
18551302 TCCT
65 TCCC
* *
18551306 CTTGAAATTGAAGTAGAGTGGATAACACGGCTTTATCTCTGAATTTGAAGTAAGAGCAGGATCAT
1 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCA--A-C--
* *
18551371 TTCCTATCCT
61 GT-C-ATCCC
* * * *
18551381 CTTGAAATTGAAGTAGAGCTGGATATCAAGCCTTTGTCCCTCTGAAATTGAAGTAAGAG
1 CTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTAT--CTCTGAAATTGAAGTAAGAG
18551440 TAAGATGAAG
Statistics
Matches: 1394, Mismatches: 90, Indels: 67
0.90 0.06 0.04
Matches are distributed among these distances:
68 994 0.71
69 144 0.10
70 4 0.00
71 3 0.00
72 3 0.00
73 4 0.00
74 4 0.00
75 26 0.02
76 77 0.06
77 116 0.08
78 19 0.01
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (68 bp):
CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCAT
CCC
Found at i:18549995 original size:31 final size:30
Alignment explanation
Indices: 18549957--18550068 Score: 89
Period size: 31 Copynumber: 3.4 Consensus size: 30
18549947 TATTTATCTC
18549957 TGAAATTGAAGTAAGAGCAATGTCATCCCCT
1 TGAAATTGAAGTAAGAGCAA-GTCATCCCCT
* * ***
18549988 TGAAATTGAAGTAGAGTGGATAACAAGTCTTTATCT
1 TGAAATTGAAGTA-A---G--AGCAAGTCATCCCCT
*
18550024 CTGAAATTGAAGTAAGAGCAACGTCATCCGCT
1 -TGAAATTGAAGTAAGAGCAA-GTCATCCCCT
18550056 TGAAATTGAAGTA
1 TGAAATTGAAGTA
18550069 GAGTGGATAA
Statistics
Matches: 63, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
31 30 0.48
32 7 0.11
33 1 0.02
35 1 0.02
36 7 0.11
37 17 0.27
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (30 bp):
TGAAATTGAAGTAAGAGCAAGTCATCCCCT
Found at i:18550273 original size:281 final size:272
Alignment explanation
Indices: 18549768--18551439 Score: 2408
Period size: 281 Copynumber: 6.0 Consensus size: 272
18549758 ATCATTTCCA
* * *
18549768 ATCCGCTTGAAATTGAAGTAGAGTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAGGAGCAAA
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAAGAGCAAC
18549833 GATCATTTCCAATCTGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGA
66 G-TCA--T-C---C-GCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATTGA
* * * *
18549898 AGTAAGAGCAATGTCATCCCCTTGAAATTAAAGTAGTGTGGATAACACGTATTTATCTCTGAAAT
122 AGTAAGAGCAATGTCATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAAT
*
18549963 TGAAGTAAGAGCAATGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACAAGTCTTTATCTCTGA
187 TGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACAAGTCTTTATCTCTGA
18550028 AATTGAAGTAAGAGCAACGTC
252 AATTGAAGTAAGAGCAACGTC
* * *
18550049 ATCCGCTTGAAATTGAAGTAGAGTGGATAACAAGTCTTCATCTTTGAAATTGAAGTAGGAGCAAA
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAAGAGC--A
*
18550114 GATCATTTCCAATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGA
64 -A-C--GT-C-ATCCGCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATTGA
*
18550179 AGTAAGAGCAATGTCATCCTCTTGAAATTGAAGTAGAGTGGATAACATGTCTTTATCTCTGAAAT
122 AGTAAGAGCAATGTCATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAAT
* *
18550244 TGAAGTAAGAGCAACGTCATCCGCTTGAAATTGAAGTAGAGTGGATAACAAGTCTTCATCTCTGA
187 TGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACAAGTCTTTATCTCTGA
* *
18550309 AATTGAAGTAGGAGCAAAGATC
252 AATTGAAGTAAGAGCAACG-TC
* *
18550331 ATTTCCAATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTA
1 A--T-C---CC-CTTGAAATTGAAGTAGAG-TGGATAACAAGTCTTCATCTCTGAAATTGAAGTA
* * * * *
18550396 AGAGCAATGTCATCCTCTTGAAATTGAAGTAGAGTGGATAACATGTCTTTATCTTTAAAATTGAA
58 AGAGCAACGTCATCCGCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAA
* * * *
18550461 GTAAGAGCAACGTCATCCGCTTGAAATTGAAGTAGAGTGGATAACAAGTCTTCATCTCTGAAATT
123 GTAAGAGCAATGTCATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATT
* *
18550526 GAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTATTTATCTCTGAA
188 GAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACAAGTCTTTATCTCTGAA
18550591 ATTGAAGTAAGAGCAACGTC
253 ATTGAAGTAAGAGCAACGTC
18550611 ATCCCCTTGAAATTGAAGTAGAGTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAAGAGCAAC
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAAGAGCAAC
* * *
18550676 GTCATCCGCTTGAAATTGAAGTAGAGTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAGGAGC
66 GTCATCCGCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGC
*
18550741 AAAGATCATTTCCAATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAAT
131 AATG-TCA--TCC--T---CTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAAT
* * *
18550806 TGAAGTAAGAGCAATGTCATCCTCTTGAAATTGAAGTAGAGTGGATAACATGTCTTTATCTCTGA
187 TGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACAAGTCTTTATCTCTGA
*
18550871 AATTGAAGTAAGAGCAATGTC
252 AATTGAAGTAAGAGCAACGTC
* *
18550892 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAAGAGCAAC
* *
18550957 GTCATCCGCTTGAAATTGAAGTAGAGTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAAGAGC
66 GTCATCCGCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGC
* * *
18551022 AACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTATTTATCTCTGAAATTGAAGTAAG
131 AATGTCATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAG
*
18551087 AGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACAAGTCTTCATCTCTGAAATTGAAGT
196 AGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACAAGTCTTTATCTCTGAAATTGAAGT
18551152 AAGAGCAACGTC
261 AAGAGCAACGTC
* * *
18551164 ATCCCCTTGAAACTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAAGAGCAAC
*
18551229 GTCATCCGTTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAG
66 GTCATCCGCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAG
* *
18551294 CAATGTCATCCTCTTGAAATTGAAGTAGAGTGGATAACACGGCTTTATCTCTGAATTTGAAGTAA
130 CAATGTCATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAA
* * * * *
18551359 GAGCAGGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGCCTTTGTCCCTCT
195 GAGCA--A-C--GT-C-ATCCCCTTGAAATTGAAGTAGAG-TGGATAACAAGTCTTTAT--CTCT
18551424 GAAATTGAAGTAAGAG
250 GAAATTGAAGTAAGAG
18551440 TAAGATGAAG
Statistics
Matches: 1276, Mismatches: 78, Indels: 72
0.89 0.05 0.05
Matches are distributed among these distances:
272 297 0.23
273 140 0.11
274 2 0.00
275 4 0.00
276 1 0.00
277 1 0.00
278 5 0.00
279 1 0.00
280 46 0.04
281 666 0.52
282 26 0.02
283 22 0.02
284 3 0.00
285 2 0.00
286 2 0.00
287 2 0.00
288 3 0.00
289 18 0.01
290 35 0.03
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (272 bp):
ATCCCCTTGAAATTGAAGTAGAGTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAAGAGCAAC
GTCATCCGCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGC
AATGTCATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAG
AGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACAAGTCTTTATCTCTGAAATTGAAGT
AAGAGCAACGTC
Found at i:18551793 original size:6 final size:6
Alignment explanation
Indices: 18551757--18551860 Score: 78
Period size: 6 Copynumber: 18.0 Consensus size: 6
18551747 GACTTTGATT
* * * *
18551757 TTTAAG TTTAAA -TTAAT TTTAAA TTT-TA TTTAGA TTTAAA TTT--A
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* *
18551801 TCTTAAA TTTAAA TTTATTTA TTTAAA TTT-AC TTTAAA TTTAAA TTT-AA
1 T-TTAAA TTTAAA TTTA--AA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
18551850 -TTAAA TTTAAA
1 TTTAAA TTTAAA
18551861 AATAATATTA
Statistics
Matches: 78, Mismatches: 10, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
4 4 0.05
5 18 0.23
6 49 0.63
7 2 0.03
8 5 0.06
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (6 bp):
TTTAAA
Found at i:18551794 original size:17 final size:16
Alignment explanation
Indices: 18551769--18551860 Score: 116
Period size: 17 Copynumber: 5.7 Consensus size: 16
18551759 TAAGTTTAAA
*
18551769 TTAATTTTAAATTTTAT
1 TTAAATTTAAA-TTTAT
*
18551786 TTAGATTTAAATTTAT
1 TTAAATTTAAATTTAT
18551802 CTTAAATTTAAATTTAT
1 -TTAAATTTAAATTTAT
18551819 TT--ATTTAAATTTACT
1 TTAAATTTAAATTTA-T
*
18551834 TTAAATTTAAATTTAA
1 TTAAATTTAAATTTAT
18551850 TTAAATTTAAA
1 TTAAATTTAAA
18551861 AATAATATTA
Statistics
Matches: 67, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
14 11 0.16
15 3 0.04
16 18 0.27
17 35 0.52
ACGTcount: A:0.41, C:0.02, G:0.01, T:0.55
Consensus pattern (16 bp):
TTAAATTTAAATTTAT
Found at i:18551851 original size:11 final size:11
Alignment explanation
Indices: 18551757--18551860 Score: 68
Period size: 11 Copynumber: 9.0 Consensus size: 11
18551747 GACTTTGATT
18551757 TTTAAGTTTAAA
1 TTTAA-TTTAAA
18551769 -TTAATTTTAAA
1 TTTAA-TTTAAA
* *
18551780 TTTTATTTAGA
1 TTTAATTTAAA
**
18551791 TTTAAATTTATC
1 TTT-AATTTAAA
*
18551803 TTAAATTTAAA
1 TTTAATTTAAA
18551814 TTTATTTATTTAAA
1 TTTA---ATTTAAA
*
18551828 TTTACTTTAAA
1 TTTAATTTAAA
18551839 TTTAAATTT-AA
1 TTT-AATTTAAA
*
18551850 TTAAATTTAAA
1 TTTAATTTAAA
18551861 AATAATATTA
Statistics
Matches: 72, Mismatches: 13, Indels: 15
0.72 0.13 0.15
Matches are distributed among these distances:
10 5 0.07
11 42 0.58
12 14 0.19
14 11 0.15
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (11 bp):
TTTAATTTAAA
Found at i:18553761 original size:162 final size:163
Alignment explanation
Indices: 18553483--18553825 Score: 537
Period size: 162 Copynumber: 2.1 Consensus size: 163
18553473 ATTAGTTTTC
**
18553483 AATTAAATCCTTTGACTGTTTGACTGCACCAGAGGCTGCCACGTGTCATTTTTTTGGCTTATTTA
1 AATT-AATCCTTTGACTGTTTGACTGCACCAGAGGCTGCCACGTGTCATCCTTTTGGCTTATTTA
* *
18553548 TTCATTTAGTCCCTGACATTTTTAATTTGTTTTAATTTAATCCCTAAATCAACTTTTATTTAATT
65 TTCATTTAGTCCCTGACATTTTGAATTTGTTTTAATTTAATCCCTAAATCAACTCTTATTTAATT
* *
18553613 ATGAAATTGGCCCAACAATTTTTCAAGGTTTATA
130 ATAAAATTGGCCCAACAATTTTTCAAGGTTTACA
* *
18553647 AATTAGTCCTTTGACTGTTTGACTGCACCAGAGGCTGCCACGTGTCA-CCTTTTGGCTTCTTTAT
1 AATTAATCCTTTGACTGTTTGACTGCACCAGAGGCTGCCACGTGTCATCCTTTTGGCTTATTTAT
*
18553711 TCATTTAGTCCCTGACATTTTGAATTTGTTTTCATTTAATCTCC-AAATCAACTCTTATTTAATT
66 TCATTTAGTCCCTGACATTTTGAATTTGTTTTAATTTAATC-CCTAAATCAACTCTTATTTAATT
* *
18553775 ATAAAATTGGGCCAAGAATTTTTCAAGGTTTACA
130 ATAAAATTGGCCCAACAATTTTTCAAGGTTTACA
* *
18553809 ATTTAATCCCTTGACTG
1 AATTAATCCTTTGACTG
18553826 CTGGATGCCT
Statistics
Matches: 164, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
162 116 0.71
163 44 0.27
164 4 0.02
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.42
Consensus pattern (163 bp):
AATTAATCCTTTGACTGTTTGACTGCACCAGAGGCTGCCACGTGTCATCCTTTTGGCTTATTTAT
TCATTTAGTCCCTGACATTTTGAATTTGTTTTAATTTAATCCCTAAATCAACTCTTATTTAATTA
TAAAATTGGCCCAACAATTTTTCAAGGTTTACA
Found at i:18553958 original size:29 final size:28
Alignment explanation
Indices: 18553884--18554243 Score: 143
Period size: 30 Copynumber: 12.2 Consensus size: 28
18553874 GTTTATAGGT
*
18553884 CCCCGAAACTTCCAAAATTATCATTTT-A
1 CCCCGAAACTTCCAAAATT-CCATTTTAA
* **
18553912 CCCCCAAACCTTTTAAAATTCCATTTTTAA
1 CCCCGAAA-CTTCCAAAATTCCA-TTTTAA
*
18553942 CCCCGAAACTTCCAAAAAATACCATTTT-A
1 CCCCGAAACTTCC--AAAATTCCATTTTAA
* ** *
18553971 CCCTTGAATTTTCTAAAATTCCATTTTTAA
1 CCC-CGAAACTTCCAAAATTCCA-TTTTAA
* *
18554001 CTCCG--ATTTCACCAAAAATTACCATTTT-A
1 CCCCGAAACTT--CC-AAAATT-CCATTTTAA
* *
18554030 CCCCCAAACTTTCAAAAATTCCATCTTTAA
1 CCCCGAAAC-TTCCAAAATTCCAT-TTTAA
*
18554060 CCCCG--ATTTCACTAAAAATTACCATTTT-A
1 CCCCGAAACTTC-C--AAAATT-CCATTTTAA
*
18554089 CCCCTAAACTTTCCAAAATTCCATTTTTAA
1 CCCCGAAAC-TTCCAAAATTCCA-TTTTAA
* *
18554119 CCCCG--ATTTCACCAAAAATTACCATTTTAC
1 CCCCGAAACTT--CC-AAAATT-CCATTTTAA
*
18554149 CCCCTAAACTTTCCAAAATTCCATTTTTAA
1 CCCCGAAAC-TTCCAAAATTCCA-TTTTAA
* *
18554179 CCTCG--ATTTCACCAAAATTTACCATTTT-A
1 CCCCGAAACTT--CCAAAA-TT-CCATTTTAA
* * *
18554208 CCCTCGAAGCCTCAAAAATTCCATTTTTAA
1 CCC-CGAAACTTCCAAAATTCCA-TTTTAA
18554238 CCCCGA
1 CCCCGA
18554244 TTTCACCAAA
Statistics
Matches: 249, Mismatches: 40, Indels: 85
0.67 0.11 0.23
Matches are distributed among these distances:
27 10 0.04
28 30 0.12
29 77 0.31
30 97 0.39
31 26 0.10
32 7 0.03
33 2 0.01
ACGTcount: A:0.34, C:0.30, G:0.03, T:0.34
Consensus pattern (28 bp):
CCCCGAAACTTCCAAAATTCCATTTTAA
Found at i:18553990 original size:59 final size:58
Alignment explanation
Indices: 18553897--18554270 Score: 441
Period size: 59 Copynumber: 6.3 Consensus size: 58
18553887 CGAAACTTCC
* * *
18553897 AAAATTATCATTTTACCCCCAAACCTTT-TAAAATTCCATTTTTAACCCCGAAACTT-CCA
1 AAAATTACCATTTTACCCCCAAA-CTTTCAAAAATTCCATTTTTAACCCCG--ATTTACCA
* *** * * *
18553956 AAAAATACCATTTTACCCTTGAATTTTCTAAAATTCCATTTTTAACTCCGATTTCACCA
1 AAAATTACCATTTTACCCCCAAACTTTCAAAAATTCCATTTTTAACCCCGATTT-ACCA
* *
18554015 AAAATTACCATTTTACCCCCAAACTTTCAAAAATTCCATCTTTAACCCCGATTTCACTA
1 AAAATTACCATTTTACCCCCAAACTTTCAAAAATTCCATTTTTAACCCCGATTT-ACCA
* *
18554074 AAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
1 AAAATTACCATTTTACCCCCAAACTTTCAAAAATTCCATTTTTAACCCCGATTT-ACCA
* *
18554133 AAAATTACCATTTTACCCCCTAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCA
1 AAAATTACCATTTTACCCCC-AAACTTTCAAAAATTCCATTTTTAACCCCGATTT-ACCA
* * * *
18554193 AAATTTACCATTTTACCCTCGAAGC-CTCAAAAATTCCATTTTTAACCCCGATTTCACC-
1 AAAATTACCATTTTACCC-CCAAACTTTCAAAAATTCCATTTTTAACCCCGATTT-ACCA
*
18554251 AAAATTACCATTTTGCCCCC
1 AAAATTACCATTTTACCCCC
18554271 GGGTATCCAA
Statistics
Matches: 278, Mismatches: 32, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
57 4 0.01
58 19 0.07
59 196 0.71
60 58 0.21
61 1 0.00
ACGTcount: A:0.34, C:0.29, G:0.03, T:0.34
Consensus pattern (58 bp):
AAAATTACCATTTTACCCCCAAACTTTCAAAAATTCCATTTTTAACCCCGATTTACCA
Found at i:18554233 original size:119 final size:118
Alignment explanation
Indices: 18553897--18554270 Score: 497
Period size: 118 Copynumber: 3.2 Consensus size: 118
18553887 CGAAACTTCC
* * *
18553897 AAAATTATCATTTTACCCCCAAACCTTT-TAAAATTCCATTTTTAACCCCGAAACTT--CCAAAA
1 AAAATTACCATTTTACCCCCAAA-CTTTCAAAAATTCCATTTTTAACCCCG--ATTTCACCAAAA
* * ** * *
18553959 AATACCATTTTACCCTTGAATTTTCTAAAATTCCATTTTTAACTCCGATTTCACCA
63 ATTACCATTTTACCCTCGAAACTTCAAAAATTCCATTTTTAACCCCGATTTCACCA
* *
18554015 AAAATTACCATTTTACCCCCAAACTTTCAAAAATTCCATCTTTAACCCCGATTTCACTAAAAATT
1 AAAATTACCATTTTACCCCCAAACTTTCAAAAATTCCATTTTTAACCCCGATTTCACCAAAAATT
* *
18554080 ACCATTTTACCC-CTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
66 ACCATTTTACCCTCGAAAC-TTCAAAAATTCCATTTTTAACCCCGATTTCACCA
* * *
18554133 AAAATTACCATTTTACCCCCTAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAATT
1 AAAATTACCATTTTACCCCC-AAACTTTCAAAAATTCCATTTTTAACCCCGATTTCACCAAAAAT
* *
18554198 TACCATTTTACCCTCGAAGCCTCAAAAATTCCATTTTTAACCCCGATTTCACC-
65 TACCATTTTACCCTCGAAACTTCAAAAATTCCATTTTTAACCCCGATTTCACCA
*
18554251 AAAATTACCATTTTGCCCCC
1 AAAATTACCATTTTACCCCC
18554271 GGGTATCCAA
Statistics
Matches: 228, Mismatches: 22, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
116 3 0.01
117 6 0.03
118 132 0.58
119 83 0.36
120 4 0.02
ACGTcount: A:0.34, C:0.29, G:0.03, T:0.34
Consensus pattern (118 bp):
AAAATTACCATTTTACCCCCAAACTTTCAAAAATTCCATTTTTAACCCCGATTTCACCAAAAATT
ACCATTTTACCCTCGAAACTTCAAAAATTCCATTTTTAACCCCGATTTCACCA
Found at i:18566069 original size:39 final size:37
Alignment explanation
Indices: 18565979--18566069 Score: 94
Period size: 39 Copynumber: 2.4 Consensus size: 37
18565969 CTCAATGGAC
*
18565979 ACCTTTTGAAGAGTCACAATCCTTTCAAATTGGATGA
1 ACCTTTTGAAGAGTCACAATCCTTTCAAATTGGATCA
* * *
18566016 ACATTTTTTTAAGAGTCACAATCCTTTTCATATTGGA-CA
1 AC--CTTTTGAAGAGTCACAATCC-TTTCAAATTGGATCA
18566055 TACCTTTTGGAAGAG
1 -ACCTTTT-GAAGAG
18566070 ACTTGTCCCA
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
37 2 0.05
38 4 0.09
39 24 0.56
40 13 0.30
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (37 bp):
ACCTTTTGAAGAGTCACAATCCTTTCAAATTGGATCA
Found at i:18568492 original size:20 final size:20
Alignment explanation
Indices: 18568467--18568513 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
18568457 TTGTTCTCGC
18568467 TATTTTAAATTTAAAATATT
1 TATTTTAAATTTAAAATATT
18568487 TATTTTAAATTTAAAATATT
1 TATTTTAAATTTAAAATATT
18568507 TATTTTA
1 TATTTTA
18568514 CATCATAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TATTTTAAATTTAAAATATT
Found at i:18569169 original size:29 final size:29
Alignment explanation
Indices: 18569085--18569169 Score: 80
Period size: 31 Copynumber: 2.8 Consensus size: 29
18569075 GATTAAATCA
* *
18569085 AAATTAAAGTTTCAAGTATACATTTGAACC
1 AAATTAAA-ATTCAAGTATACAATTGAACC
* * * *
18569115 ACAATTAAAATTTCACGTATAAAATTGCATC
1 A-AATTAAAA-TTCAAGTATACAATTGAACC
*
18569146 AAATTAAAATTCATGTATACAATT
1 AAATTAAAATTCAAGTATACAATT
18569170 ACACATTAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
29 13 0.29
30 9 0.20
31 23 0.51
ACGTcount: A:0.46, C:0.13, G:0.07, T:0.34
Consensus pattern (29 bp):
AAATTAAAATTCAAGTATACAATTGAACC
Found at i:18575902 original size:22 final size:20
Alignment explanation
Indices: 18575873--18575912 Score: 62
Period size: 22 Copynumber: 1.9 Consensus size: 20
18575863 TTCCATACAG
18575873 AATTTTGAATTAAAGAATTTT
1 AATTTTGAATTAAA-AATTTT
18575894 AATTATTGAATTAAAAATT
1 AATT-TTGAATTAAAAATT
18575913 AGTATAAGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
AATTTTGAATTAAAAATTTT
Found at i:18577891 original size:24 final size:25
Alignment explanation
Indices: 18577858--18577914 Score: 80
Period size: 24 Copynumber: 2.3 Consensus size: 25
18577848 ACTCTGTCTA
18577858 GGCTCGTAAGAGCTAA-CCTATTTG
1 GGCTCGTAAGAGCTAATCCTATTTG
* * *
18577882 GGCTCTTAAGAGCTAATTCTGTTTG
1 GGCTCGTAAGAGCTAATCCTATTTG
18577907 GGCTCGTA
1 GGCTCGTA
18577915 TGACCTAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 15 0.54
25 13 0.46
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.33
Consensus pattern (25 bp):
GGCTCGTAAGAGCTAATCCTATTTG
Found at i:18580279 original size:36 final size:38
Alignment explanation
Indices: 18580232--18580309 Score: 124
Period size: 36 Copynumber: 2.1 Consensus size: 38
18580222 AACTCATTGC
* *
18580232 TACTTGGTTTAAATTTTTGTTATTTTTACCT-TTTTT-
1 TACTTGGTTTAAATTGTAGTTATTTTTACCTCTTTTTG
18580268 TACTTGGTTTAAATTGTAGTTATTTTTACCTCTTTTTG
1 TACTTGGTTTAAATTGTAGTTATTTTTACCTCTTTTTG
18580306 TACT
1 TACT
18580310 AATGTCGCCG
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
36 29 0.76
37 5 0.13
38 4 0.11
ACGTcount: A:0.18, C:0.10, G:0.10, T:0.62
Consensus pattern (38 bp):
TACTTGGTTTAAATTGTAGTTATTTTTACCTCTTTTTG
Found at i:18587034 original size:25 final size:25
Alignment explanation
Indices: 18587000--18587048 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
18586990 CTGGTTAAAC
18587000 TCTGTCTGGGCTCGTA-AGAGCTAAT
1 TCTGTCTGGGCTCGTATA-AGCTAAT
*
18587025 TCTGTTTGGGCTCGTATAAGCTAA
1 TCTGTCTGGGCTCGTATAAGCTAA
18587049 ATTTTTGGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.35
Consensus pattern (25 bp):
TCTGTCTGGGCTCGTATAAGCTAAT
Found at i:18588708 original size:269 final size:272
Alignment explanation
Indices: 18588327--18588963 Score: 772
Period size: 269 Copynumber: 2.3 Consensus size: 272
18588317 AGCTTTTGGA
* * * * * * *
18588327 AGCCACATTTGCAATTCTTCTTACAAACCTAAAGGTAATTGTTTGAAATCAGTCTAAAATA-TTA
1 AGCCATATTTGTAGTTCTTCTTACAAACCCAAAGATAATAGTTTGAAATCAGTATAAAATATTTA
* * * *
18588391 ATATTTTAAGTGAAAGGTAAAAAAAATTAGCATCATTGTTTTTTTGAACTTGTTTGCTAAAACAT
66 ATATTTTAAATGAAAGAT-AAAAAAATTAGCATCATTATTTGTTTGAACTTGTTTGCTAAAACAT
* * * * * *
18588456 ATTTGTATTGATAAATTCAT-GATTCCCTACAAACCCATCGTTCCCAATCGGTCTTCGATGTCTG
130 ATTTGTATTGATAAATACATCGATGCCCTACAAACCCATCGTTCCAAATCGGTCTACGACGTCTA
* * * * * *
18588520 TTCCATCGATAAAG-GCACTTCCTCT-CCCAAGAAACGAGGTTTCG-AAACTCGTGCCTTGTAAT
195 TTCCACCGAT-AAGTACAATTCCTCTACCC-AGAAACGAGGTTCCGAAAACTCGTGCCTTATAAC
18588582 AAAAAGCGTA-T-GGC
258 AAAAAGCG-AGTGGGC
*
18588596 AGCCATATTTGTAGTTCTTCTTACAAACCCAAAGATAATAGTTTGAAATTAGTATAAAATATTTA
1 AGCCATATTTGTAGTTCTTCTTACAAACCCAAAGATAATAGTTTGAAATCAGTATAAAATATTTA
** * *
18588661 ATATTTTAAATGAAAGATAAAAAAATTAGTTTCATTATTTGTTTGAACTTGTTTGTTAAAACCTA
66 ATATTTTAAATGAAAGATAAAAAAATTAGCATCATTATTTGTTTGAACTTGTTTGCTAAAACATA
* * *
18588726 TTTGTCTTGATAAATACATCGATGCCCTAGAAACCCATCGTTCCAAATTGGTCTACGACGTCTAT
131 TTTGTATTGATAAATACATCGATGCCCTACAAACCCATCGTTCCAAATCGGTCTACGACGTCTAT
* **
18588791 TCCACCGATAAGTACAATTCCTTTACCCAGAAACGAGGTTCCGAAAACTCGTGCCTTATAACAGC
196 TCCACCGATAAGTACAATTCCTCTACCCAGAAACGAGGTTCCGAAAACTCGTGCCTTATAACAAA
18588856 AAGCGAGTGGGC
261 AAGCGAGTGGGC
** * *
18588868 AATCATATTTATAGTTCTTCTTACAAACCCAAAGGA-AATCA-TTTGAAATCGGTCA-AAAATAT
1 AGCCATATTTGTAGTTCTTCTTACAAACCCAAA-GATAAT-AGTTTGAAATCAGT-ATAAAATAT
* *
18588930 TTAATATTTTAAATGACAGACAAAAAAAATTAGC
63 TTAATATTTTAAATGAAAGA-TAAAAAAATTAGC
18588964 TCAAGTACTA
Statistics
Matches: 315, Mismatches: 42, Indels: 18
0.84 0.11 0.05
Matches are distributed among these distances:
269 114 0.36
270 88 0.28
271 26 0.08
272 72 0.23
273 15 0.05
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (272 bp):
AGCCATATTTGTAGTTCTTCTTACAAACCCAAAGATAATAGTTTGAAATCAGTATAAAATATTTA
ATATTTTAAATGAAAGATAAAAAAATTAGCATCATTATTTGTTTGAACTTGTTTGCTAAAACATA
TTTGTATTGATAAATACATCGATGCCCTACAAACCCATCGTTCCAAATCGGTCTACGACGTCTAT
TCCACCGATAAGTACAATTCCTCTACCCAGAAACGAGGTTCCGAAAACTCGTGCCTTATAACAAA
AAGCGAGTGGGC
Found at i:18602748 original size:18 final size:18
Alignment explanation
Indices: 18602722--18602760 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
18602712 CATGCATTTC
18602722 TTTTAATTGTCAT-TGCAT
1 TTTTAATTGTC-TCTGCAT
*
18602740 TTTTTATTGTCTCTGCAT
1 TTTTAATTGTCTCTGCAT
18602758 TTT
1 TTT
18602761 ATTTGTTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 1 0.05
18 18 0.95
ACGTcount: A:0.15, C:0.13, G:0.10, T:0.62
Consensus pattern (18 bp):
TTTTAATTGTCTCTGCAT
Found at i:18602766 original size:17 final size:17
Alignment explanation
Indices: 18602722--18602776 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
18602712 CATGCATTTC
*
18602722 TTTTAATTGTCAT-TGCA
1 TTTTATTTGTC-TCTGCA
*
18602739 TTTTTTATTGTCTCTGCA
1 TTTTAT-TTGTCTCTGCA
18602757 TTTTATTTGT-TCTAGCA
1 TTTTATTTGTCTCT-GCA
18602774 TTT
1 TTT
18602777 GAGTTGTAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
16 3 0.09
17 15 0.47
18 14 0.44
ACGTcount: A:0.16, C:0.13, G:0.11, T:0.60
Consensus pattern (17 bp):
TTTTATTTGTCTCTGCA
Found at i:18604945 original size:24 final size:24
Alignment explanation
Indices: 18604905--18604951 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
18604895 ATTCATCTTT
18604905 TATTAATTTGCTCTGAC-ATTTTA
1 TATTAATTTGCTCTGACAATTTTA
18604928 TATTACATTTGCAT-TGACAATTTT
1 TATTA-ATTTGC-TCTGACAATTTT
18604952 TACTCTTAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 5 0.24
24 10 0.48
25 6 0.29
ACGTcount: A:0.28, C:0.13, G:0.09, T:0.51
Consensus pattern (24 bp):
TATTAATTTGCTCTGACAATTTTA
Found at i:18615200 original size:42 final size:43
Alignment explanation
Indices: 18615144--18615293 Score: 162
Period size: 42 Copynumber: 3.5 Consensus size: 43
18615134 CTCTACCAAT
* * *
18615144 ACATAACTATTCC-TTTAAACATAATCTCATGCTCGTCCTGAG
1 ACATAAGTCTTCCATTTAAACATAATCTCATGCTCATCCTGAG
* *
18615186 ACATAAGTCTTCC-TTTAAACAGAATCTCATGCTCAT-TTCGAG
1 ACATAAGTCTTCCATTTAAACATAATCTCATGCTCATCCT-GAG
* ** * *
18615228 TCACGAGTCTTCCATTTATACATAATCTCATGCTCATCCCGAG
1 ACATAAGTCTTCCATTTAAACATAATCTCATGCTCATCCTGAG
* *
18615271 ACATGAGTCTTCCATTTATACAT
1 ACATAAGTCTTCCATTTAAACAT
18615294 CAACTGATTC
Statistics
Matches: 91, Mismatches: 14, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
41 1 0.01
42 45 0.49
43 45 0.49
ACGTcount: A:0.29, C:0.26, G:0.11, T:0.34
Consensus pattern (43 bp):
ACATAAGTCTTCCATTTAAACATAATCTCATGCTCATCCTGAG
Found at i:18615261 original size:43 final size:43
Alignment explanation
Indices: 18615153--18615293 Score: 169
Period size: 43 Copynumber: 3.3 Consensus size: 43
18615143 TACATAACTA
* * * **
18615153 TTCC-TTTAAACATAATCTCATGCTCGTCCTGAGACATAAGTC
1 TTCCATTTATACATAATCTCATGCTCATCCCGAGACACGAGTC
* * ** *
18615195 TTCC-TTTAAACAGAATCTCATGCTCATTTCGAGTCACGAGTC
1 TTCCATTTATACATAATCTCATGCTCATCCCGAGACACGAGTC
*
18615237 TTCCATTTATACATAATCTCATGCTCATCCCGAGACATGAGTC
1 TTCCATTTATACATAATCTCATGCTCATCCCGAGACACGAGTC
18615280 TTCCATTTATACAT
1 TTCCATTTATACAT
18615294 CAACTGATTC
Statistics
Matches: 84, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
42 38 0.45
43 46 0.55
ACGTcount: A:0.28, C:0.26, G:0.11, T:0.35
Consensus pattern (43 bp):
TTCCATTTATACATAATCTCATGCTCATCCCGAGACACGAGTC
Found at i:18623694 original size:18 final size:18
Alignment explanation
Indices: 18623673--18623716 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
18623663 GAGAAAGCTA
18623673 AAGAAGAAAAAG-GAAGTG
1 AAGAAGAAAAAGCGAA-TG
* *
18623691 AAGAAGAGAAGGCGAATG
1 AAGAAGAAAAAGCGAATG
18623709 AAGAAGAA
1 AAGAAGAA
18623717 GAAGAAGGAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 19 0.86
19 3 0.14
ACGTcount: A:0.59, C:0.02, G:0.34, T:0.05
Consensus pattern (18 bp):
AAGAAGAAAAAGCGAATG
Found at i:18623746 original size:12 final size:12
Alignment explanation
Indices: 18623716--18623747 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
18623706 ATGAAGAAGA
*
18623716 AGAAGAAGGACC
1 AGAAGAGGGACC
18623728 AGAAGAGGGACC
1 AGAAGAGGGACC
18623740 AGAAGAGG
1 AGAAGAGG
18623748 AAGAAAACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.47, C:0.12, G:0.41, T:0.00
Consensus pattern (12 bp):
AGAAGAGGGACC
Found at i:18624194 original size:17 final size:17
Alignment explanation
Indices: 18624168--18624205 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
18624158 TCTCACTTAA
18624168 TTGTCATTGCACTTTAC
1 TTGTCATTGCACTTTAC
* *
18624185 TTGTCGTTGCATTTTAC
1 TTGTCATTGCACTTTAC
18624202 TTGT
1 TTGT
18624206 TAGTTCATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.13, C:0.18, G:0.16, T:0.53
Consensus pattern (17 bp):
TTGTCATTGCACTTTAC
Found at i:18624214 original size:17 final size:17
Alignment explanation
Indices: 18624174--18624232 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 17
18624164 TTAATTGTCA
* *
18624174 TTGCACTTTACTTGTCG
1 TTGCATTTTACTTGTAG
18624191 TTGCATTTTACTTGTTAG
1 TTGCATTTTACTTG-TAG
*
18624209 TT-CA-TTTGCATTGTAG
1 TTGCATTTTAC-TTGTAG
18624225 TTGCATTT
1 TTGCATTT
18624233 CCATTCTTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
16 9 0.26
17 20 0.57
18 6 0.17
ACGTcount: A:0.15, C:0.15, G:0.17, T:0.53
Consensus pattern (17 bp):
TTGCATTTTACTTGTAG
Found at i:18624809 original size:15 final size:15
Alignment explanation
Indices: 18624789--18624839 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
18624779 GTCACGTATA
18624789 AAAAAGAAGAAGAAG
1 AAAAAGAAGAAGAAG
*
18624804 AAAAAGAAAGCA-AAG
1 AAAAAG-AAGAAGAAG
* *
18624819 AAAAAGAGAAAAGCAG
1 AAAAAGA-AGAAGAAG
18624835 AAAAA
1 AAAAA
18624840 TGTATTGCTA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
14 1 0.03
15 17 0.59
16 11 0.38
ACGTcount: A:0.75, C:0.04, G:0.22, T:0.00
Consensus pattern (15 bp):
AAAAAGAAGAAGAAG
Found at i:18630574 original size:20 final size:20
Alignment explanation
Indices: 18630548--18630597 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
18630538 AATACAAAAC
18630548 AATTCAAAATAAATTTCAAA
1 AATTCAAAATAAATTTCAAA
* *
18630568 TATTCAAAATAATTTTCAAA
1 AATTCAAAATAAATTTCAAA
18630588 AATTCCAAAA
1 AATT-CAAAA
18630598 ACTTCTTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 21 0.81
21 5 0.19
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (20 bp):
AATTCAAAATAAATTTCAAA
Found at i:18632363 original size:17 final size:17
Alignment explanation
Indices: 18632341--18632374 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
18632331 AAGTAAACTT
18632341 CGTTAAAGAATATTTAA
1 CGTTAAAGAATATTTAA
18632358 CGTTAAAGAATATTTAA
1 CGTTAAAGAATATTTAA
18632375 AAAGTGTGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.06, G:0.12, T:0.35
Consensus pattern (17 bp):
CGTTAAAGAATATTTAA
Found at i:18633734 original size:16 final size:18
Alignment explanation
Indices: 18633713--18633748 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
18633703 GTTTGTAATG
18633713 TTTTATAT-TT-TATTAT
1 TTTTATATATTATATTAT
18633729 TTTTATATATTATATTAT
1 TTTTATATATTATATTAT
18633747 TT
1 TT
18633749 AAAACACATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.44
17 2 0.11
18 8 0.44
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTTATATATTATATTAT
Found at i:18633856 original size:15 final size:16
Alignment explanation
Indices: 18633836--18633865 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
18633826 CAATATATAG
18633836 AATATTAAA-TAAAAA
1 AATATTAAATTAAAAA
18633851 AATATTAAATTAAAA
1 AATATTAAATTAAAA
18633866 TTAATATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
AATATTAAATTAAAAA
Found at i:18633885 original size:17 final size:17
Alignment explanation
Indices: 18633836--18633876 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
18633826 CAATATATAG
*
18633836 AATATTAAA-TAAAA-A
1 AATATTAAATTAAAATT
18633851 AATATTAAATTAAAATT
1 AATATTAAATTAAAATT
18633868 AATA-TAAAT
1 AATATTAAAT
18633877 ATACAATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 9 0.39
16 10 0.43
17 4 0.17
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AATATTAAATTAAAATT
Found at i:18640924 original size:15 final size:15
Alignment explanation
Indices: 18640904--18640933 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18640894 TCATGAATAA
18640904 TTATAAATTTACAAC
1 TTATAAATTTACAAC
*
18640919 TTATAAATTTCCAAC
1 TTATAAATTTACAAC
18640934 AGTTATAACA
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:0.43, C:0.17, G:0.00, T:0.40
Consensus pattern (15 bp):
TTATAAATTTACAAC
Found at i:18641177 original size:16 final size:18
Alignment explanation
Indices: 18641156--18641191 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
18641146 CAATAATTAG
18641156 TAAATA-TTAAAATA-AT
1 TAAATATTTAAAATACAT
18641172 TAAATATTTAAAATACAT
1 TAAATATTTAAAATACAT
18641190 TA
1 TA
18641192 TTTCAAGGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.33
17 8 0.44
18 4 0.22
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAATATTTAAAATACAT
Found at i:18641309 original size:31 final size:31
Alignment explanation
Indices: 18641273--18641349 Score: 77
Period size: 31 Copynumber: 2.5 Consensus size: 31
18641263 TATTTTCAAG
18641273 TTAAATATTTTAAAACGATAATT-TGGTTAAA
1 TTAAATATTTTAAAACGAT-ATTCTGGTTAAA
* * *
18641304 TTAAATGA-TTTAAAATGCTATTCTTGTTAAA
1 TTAAAT-ATTTTAAAACGATATTCTGGTTAAA
* *
18641335 TTAATTATTTGAAAA
1 TTAAATATTTTAAAA
18641350 ATCACTTTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
30 4 0.11
31 33 0.87
32 1 0.03
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.44
Consensus pattern (31 bp):
TTAAATATTTTAAAACGATATTCTGGTTAAA
Found at i:18650528 original size:10 final size:10
Alignment explanation
Indices: 18650513--18650538 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
18650503 TTAAAACGTA
18650513 TAGTTTTGTG
1 TAGTTTTGTG
18650523 TAGTTTTGTG
1 TAGTTTTGTG
18650533 TAGTTT
1 TAGTTT
18650539 AAAGGTTGAG
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:0.12, C:0.00, G:0.27, T:0.62
Consensus pattern (10 bp):
TAGTTTTGTG
Found at i:18651093 original size:36 final size:36
Alignment explanation
Indices: 18651052--18651271 Score: 305
Period size: 36 Copynumber: 6.1 Consensus size: 36
18651042 GAGACAATAT
18651052 ATATGTGGGTATGTTATTCATGCCATGTGACAGTAA
1 ATATGTGGGTATGTTATTCATGCCATGTGACAGTAA
* * *
18651088 ATATGTTGGTATGTTATTCATGTCATCTGACAGTAA
1 ATATGTGGGTATGTTATTCATGCCATGTGACAGTAA
* **
18651124 ATATGTGGGTATGTTATTCATGCCATGAGATGGTAA
1 ATATGTGGGTATGTTATTCATGCCATGTGACAGTAA
* * *
18651160 ATATGTGGGCATGATATTCATGCCATGTGACAATAA
1 ATATGTGGGTATGTTATTCATGCCATGTGACAGTAA
** * * *
18651196 ATATGTAAGTATGTTATTCATGCCATGAGATAGAAA
1 ATATGTGGGTATGTTATTCATGCCATGTGACAGTAA
*
18651232 ATATGTGGGTATGTTATTCATGCCATGTGACAGTGA
1 ATATGTGGGTATGTTATTCATGCCATGTGACAGTAA
18651268 ATAT
1 ATAT
18651272 ATTGTGCTAA
Statistics
Matches: 155, Mismatches: 29, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 155 1.00
ACGTcount: A:0.30, C:0.10, G:0.23, T:0.36
Consensus pattern (36 bp):
ATATGTGGGTATGTTATTCATGCCATGTGACAGTAA
Found at i:18651746 original size:17 final size:17
Alignment explanation
Indices: 18651724--18651756 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
18651714 CCACACAATG
*
18651724 GCCACACAGTCGTGTGA
1 GCCACACAGACGTGTGA
18651741 GCCACACAGACGTGTG
1 GCCACACAGACGTGTG
18651757 TGAAGGCGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.30, G:0.30, T:0.15
Consensus pattern (17 bp):
GCCACACAGACGTGTGA
Found at i:18652792 original size:7 final size:7
Alignment explanation
Indices: 18652780--18652806 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
18652770 TAATTTTATT
18652780 TTATTTA
1 TTATTTA
18652787 TTATTTA
1 TTATTTA
18652794 TTATTTA
1 TTATTTA
18652801 TTATTT
1 TTATTT
18652807 TATTTTATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (7 bp):
TTATTTA
Found at i:18652810 original size:31 final size:31
Alignment explanation
Indices: 18652772--18652833 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
18652762 TCCCTTCTTA
*
18652772 ATTTTATTTTATTTATTATT-TATTATTTATT
1 ATTTTATTTTA-TTATCATTGTATTATTTATT
*
18652803 ATTTTATTTTATTATCATTGTTTTATTTATT
1 ATTTTATTTTATTATCATTGTATTATTTATT
18652834 TTATGTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 7 0.25
31 21 0.75
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.73
Consensus pattern (31 bp):
ATTTTATTTTATTATCATTGTATTATTTATT
Found at i:18652815 original size:20 final size:19
Alignment explanation
Indices: 18652772--18652830 Score: 60
Period size: 19 Copynumber: 3.5 Consensus size: 19
18652762 TCCCTTCTTA
18652772 ATTTTATTTTATT-T-ATT
1 ATTTTATTTTATTATCATT
18652789 A-TTTA--TTATT-T-ATT
1 ATTTTATTTTATTATCATT
18652803 ATTTTATTTTATTATCATT
1 ATTTTATTTTATTATCATT
*
18652822 GTTTTATTT
1 ATTTTATTT
18652831 ATTTTATGTT
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
14 10 0.28
15 4 0.11
16 4 0.11
17 6 0.17
18 1 0.03
19 11 0.31
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.73
Consensus pattern (19 bp):
ATTTTATTTTATTATCATT
Found at i:18652817 original size:23 final size:24
Alignment explanation
Indices: 18652775--18652837 Score: 67
Period size: 23 Copynumber: 2.6 Consensus size: 24
18652765 CTTCTTAATT
*
18652775 TTATTTTATTTATTATTTATTATT-TA
1 TTATTTTA-TT-TTA-TTATCATTGTA
*
18652801 TTATTTTATTTTATTATCATTGTT
1 TTATTTTATTTTATTATCATTGTA
18652825 TTA-TTTATTTTAT
1 TTATTTTATTTTAT
18652838 GTTTTAGAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
23 17 0.50
24 7 0.21
25 2 0.06
26 8 0.24
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.73
Consensus pattern (24 bp):
TTATTTTATTTTATTATCATTGTA
Found at i:18654054 original size:23 final size:23
Alignment explanation
Indices: 18654024--18654090 Score: 80
Period size: 23 Copynumber: 2.9 Consensus size: 23
18654014 GGAGGGGTTC
*
18654024 GATTTATGCTTAAATGTTAATAT
1 GATTTATGCTTAAATATTAATAT
*
18654047 GATTTATGCTTAAATATTAATGT
1 GATTTATGCTTAAATATTAATAT
* ** *
18654070 TATAAATGTTTAAATATTAAT
1 GATTTATGCTTAAATATTAAT
18654091 GCAATTATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.39, C:0.03, G:0.10, T:0.48
Consensus pattern (23 bp):
GATTTATGCTTAAATATTAATAT
Found at i:18654136 original size:59 final size:59
Alignment explanation
Indices: 18654066--18654390 Score: 215
Period size: 59 Copynumber: 5.2 Consensus size: 59
18654056 TTAAATATTA
* * *
18654066 ATGTTATAAATGTTTAAATATTAATGCAATTATATGTGATTTAATGTGATTAATATATG
1 ATGTGATAAATGTTGAAATATTAATGTAATTATATGTGATTTAATGTGATTAATATATG
* * * * * *
18654125 ATGTGATAAATGATGATATATT--TGTATGATTAAATGTGACTTAATGTGATTAATTTGTG
1 ATGTGATAAATGTTGAAATATTAATGTA--ATTATATGTGATTTAATGTGATTAATATATG
* *
18654184 ATGTGATAAATGTTGAAATATTAATGTGATTATATGTGATTAAATGTGACTAAATGTTATTAATA
1 ATGTGATAAATGTTGAAATATTAATGTAATTATATGTG-----AT-T---T-AATGTGATTAATA
*
18654249 TGTG
56 TATG
* * * *
18654253 ATGTGATAAATGTTGAAATATTCACGTGACTAATGAGATTAAATGTGACTAAATGTGATTAATAT
1 ATGTGATAAATGTTGAAATATT-A----A-T-GT-A-ATTATATGTGATTTAATGTGATTAATAT
*
18654318 CTG
57 ATG
* * * * * *
18654321 ATGTGATAAATGCTGAAATATTCATGTGACTA-ATGTGATTAAATGTGATTAATATGTG
1 ATGTGATAAATGTTGAAATATTAATGTAATTATATGTGATTTAATGTGATTAATATATG
* *
18654379 TTGTGTTAAATG
1 ATGTGATAAATG
18654391 CTTAAGTACT
Statistics
Matches: 211, Mismatches: 32, Indels: 47
0.73 0.11 0.16
Matches are distributed among these distances:
57 3 0.01
58 34 0.16
59 77 0.36
61 4 0.02
62 1 0.00
63 1 0.00
64 1 0.00
65 1 0.00
68 37 0.18
69 37 0.18
70 1 0.00
72 1 0.00
73 1 0.00
74 1 0.00
75 1 0.00
76 1 0.00
78 9 0.04
ACGTcount: A:0.37, C:0.03, G:0.19, T:0.41
Consensus pattern (59 bp):
ATGTGATAAATGTTGAAATATTAATGTAATTATATGTGATTTAATGTGATTAATATATG
Found at i:18654316 original size:68 final size:68
Alignment explanation
Indices: 18654151--18654378 Score: 348
Period size: 68 Copynumber: 3.3 Consensus size: 68
18654141 TATATTTGTA
* * * *
18654151 TGATTAAATGTGACTTAATGTGATTAATTTGTGATGTGATAAATGTTGAAATATTAATGTGATTA
1 TGATTAAATGTGACTAAATGTGATTAATATGTGATGTGATAAATGTTGAAATATTCATGTGACTA
18654216 TATG
66 -ATG
* *
18654220 TGATTAAATGTGACTAAATGTTATTAATATGTGATGTGATAAATGTTGAAATATTCACGTGACTA
1 TGATTAAATGTGACTAAATGTGATTAATATGTGATGTGATAAATGTTGAAATATTCATGTGACTA
18654285 ATG
66 ATG
* * *
18654288 AGATTAAATGTGACTAAATGTGATTAATATCTGATGTGATAAATGCTGAAATATTCATGTGACTA
1 TGATTAAATGTGACTAAATGTGATTAATATGTGATGTGATAAATGTTGAAATATTCATGTGACTA
18654353 ATG
66 ATG
*
18654356 TGATTAAATGTGATTAATATGTG
1 TGATTAAATGTGACTAA-ATGTG
18654379 TTGTGTTAAA
Statistics
Matches: 145, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
68 81 0.56
69 64 0.44
ACGTcount: A:0.36, C:0.04, G:0.20, T:0.39
Consensus pattern (68 bp):
TGATTAAATGTGACTAAATGTGATTAATATGTGATGTGATAAATGTTGAAATATTCATGTGACTA
ATG
Found at i:18654355 original size:23 final size:25
Alignment explanation
Indices: 18654227--18654359 Score: 76
Period size: 23 Copynumber: 5.7 Consensus size: 25
18654217 ATGTGATTAA
* * *
18654227 ATGTGACTAAATGTTATTAATATGTG
1 ATGTGACTAAATGTGA-TAATATCTC
18654253 ATGTGA-TAAATGTTGA-AATAT-TC
1 ATGTGACTAAATG-TGATAATATCTC
* * *
18654276 ACGTGACT-AATGAGAT--TA---A
1 ATGTGACTAAATGTGATAATATCTC
*
18654295 ATGTGACTAAATGTGATTAATATCTG
1 ATGTGACTAAATGTGA-TAATATCTC
18654321 ATGTGA-TAAATGCTGA-AATAT-TC
1 ATGTGACTAAATG-TGATAATATCTC
18654344 ATGTGACT-AATGTGAT
1 ATGTGACTAAATGTGAT
18654360 TAAATGTGAT
Statistics
Matches: 85, Mismatches: 9, Indels: 29
0.69 0.07 0.24
Matches are distributed among these distances:
19 7 0.08
20 6 0.07
21 3 0.04
22 5 0.06
23 23 0.27
24 12 0.14
25 12 0.14
26 17 0.20
ACGTcount: A:0.37, C:0.07, G:0.20, T:0.37
Consensus pattern (25 bp):
ATGTGACTAAATGTGATAATATCTC
Found at i:18654364 original size:58 final size:58
Alignment explanation
Indices: 18654294--18654420 Score: 173
Period size: 58 Copynumber: 2.2 Consensus size: 58
18654284 AATGAGATTA
* *
18654294 AATGTGACTAAATGTGATTAATATCTGATGTGATAAATGCTGAAATATTCATGTGACT
1 AATGTGATTAAATGTGATTAATATCTGATGTGATAAATGCTGAAATACTCATGTGACT
* * * * * *
18654352 AATGTGATTAAATGTGATTAATATGTGTTGTGTTAAATGCTTAAGTACTCATGTGATT
1 AATGTGATTAAATGTGATTAATATCTGATGTGATAAATGCTGAAATACTCATGTGACT
*
18654410 TATGTGATTAA
1 AATGTGATTAA
18654421 TCTATAAAAG
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.34, C:0.06, G:0.20, T:0.40
Consensus pattern (58 bp):
AATGTGATTAAATGTGATTAATATCTGATGTGATAAATGCTGAAATACTCATGTGACT
Found at i:18662122 original size:446 final size:446
Alignment explanation
Indices: 18661285--18662172 Score: 1490
Period size: 446 Copynumber: 2.0 Consensus size: 446
18661275 AGCTAGGACA
*
18661285 ATTAGCTTCTAGCATGAGCACACGACCACCAGGTGCTTTGCCCAGTAACACTAAAAATCCAAATC
1 ATTAGCTTCTAGCATGAGCACACGACCACCAGGTACTTTGCCCAGTAACACTAAAAATCCAAATC
* * *
18661350 AAAAGGGAAAGGAGCATTGCAAGGTTATTACATTGCGGAGTGGAAAGAAAATTACCGAACAAAGT
66 AAAAGGGAAAGGAGCATTGCAAGGTTATTACATTACGGAGTAGAAAGAAAACTACCGAACAAAGT
* * *
18661415 AGCAGCTCCAACCAAGCACCTGTCGACACAAATGAACAAAAGCCGAGCATTCGTCCTAACTGAAG
131 AGCAGCTCCAACCAAGCACCTGTCGACACAAACGAACAAAAGCCGAGCATTCATCCTAACTAAAG
* *
18661480 AAGACATAGTAGAAGTAAATGAAGAGGAGACATTAGTAGTCACACCTATGCCAAGCATTCGTCCT
196 AAGACATAGCAGAAGTAAATGAAGAGGAGACACTAGTAGTCACACCTATGCCAAGCATTCGTCCT
* * * * * *
18661545 GCGAAGTTATCGATGTAACTGCCCATGTCGACAGAACCGGACATATCATAACAACCCGCTGTGAA
261 GCGAAGTTATCGATGCAACTACCCATGTCGACACAACCGGACATATCACAACAACCCACTATGAA
* *
18661610 CATACCTTTATCATTCCCACAGCGATTCAAGGAGAAAGATCATGACAGAGATTATCAAATGTTTG
326 CATACCTTTATCATTCCCACAGCAATTCAAGGAGAAAGATCATGACAGAGATTATCAAAAGTTTG
* *
18661675 TATTTACCTTAAAACAATTACATATTAATATACCTCTAGTTGAAGCTCTTGTGTAG
391 TATCTACCTTAAAACAATTACATATTAATACACCTCTAGTTGAAGCTCTTGTGTAG
* *
18661731 ATTAGCTTCTAGCATGAGCACACGACCACCAGGTACTTTGCCTAGTGACACTAAAAATCCAAATC
1 ATTAGCTTCTAGCATGAGCACACGACCACCAGGTACTTTGCCCAGTAACACTAAAAATCCAAATC
* *
18661796 AAAA-GGAGAAGGAGCATTGCAAGGTTATTACATTACGGAGTAGAAAGCAAACTGCCGAACAAAG
66 AAAAGGGA-AAGGAGCATTGCAAGGTTATTACATTACGGAGTAGAAAGAAAACTACCGAACAAAG
* *
18661860 TAGCAGCTCCAACCAAGCACCTGTTGACGCAAACGAACAAAAGCCGAGCATTCATCCTAACTAAA
130 TAGCAGCTCCAACCAAGCACCTGTCGACACAAACGAACAAAAGCCGAGCATTCATCCTAACTAAA
**
18661925 GAAGACATAGCAGAAGTAAATGAAGAGGAGACACTAGTAGTCACACCTATGCTGAGCATTCGTCC
195 GAAGACATAGCAGAAGTAAATGAAGAGGAGACACTAGTAGTCACACCTATGCCAAGCATTCGTCC
* *
18661990 TGCGAAGTTGTCGATGCAACTACCCATGTCGACACAACCGGTCATATCACAACAACCCACTATGA
260 TGCGAAGTTATCGATGCAACTACCCATGTCGACACAACCGGACATATCACAACAACCCACTATGA
*
18662055 ACATACCTTTATCATTCCCATAGCAATTCAAGGAGAAAGATCATGACAGAGATTATCAAAAGTTT
325 ACATACCTTTATCATTCCCACAGCAATTCAAGGAGAAAGATCATGACAGAGATTATCAAAAGTTT
18662120 GTATCTACCTTAAAACAATTACATATTAATACACCTCTAGTTGAAGCTCTTGT
390 GTATCTACCTTAAAACAATTACATATTAATACACCTCTAGTTGAAGCTCTTGT
18662173 ACAGATTCCC
Statistics
Matches: 411, Mismatches: 30, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
445 3 0.01
446 408 0.99
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.22
Consensus pattern (446 bp):
ATTAGCTTCTAGCATGAGCACACGACCACCAGGTACTTTGCCCAGTAACACTAAAAATCCAAATC
AAAAGGGAAAGGAGCATTGCAAGGTTATTACATTACGGAGTAGAAAGAAAACTACCGAACAAAGT
AGCAGCTCCAACCAAGCACCTGTCGACACAAACGAACAAAAGCCGAGCATTCATCCTAACTAAAG
AAGACATAGCAGAAGTAAATGAAGAGGAGACACTAGTAGTCACACCTATGCCAAGCATTCGTCCT
GCGAAGTTATCGATGCAACTACCCATGTCGACACAACCGGACATATCACAACAACCCACTATGAA
CATACCTTTATCATTCCCACAGCAATTCAAGGAGAAAGATCATGACAGAGATTATCAAAAGTTTG
TATCTACCTTAAAACAATTACATATTAATACACCTCTAGTTGAAGCTCTTGTGTAG
Found at i:18673778 original size:24 final size:24
Alignment explanation
Indices: 18673750--18673820 Score: 133
Period size: 24 Copynumber: 3.0 Consensus size: 24
18673740 TACGAGATAG
18673750 GATATTCACCGATCGAGAAACTAA
1 GATATTCACCGATCGAGAAACTAA
*
18673774 GATATTCACCGATCAAGAAACTAA
1 GATATTCACCGATCGAGAAACTAA
18673798 GATATTCACCGATCGAGAAACTA
1 GATATTCACCGATCGAGAAACTA
18673821 TGTTGTGCTC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.42, C:0.21, G:0.15, T:0.21
Consensus pattern (24 bp):
GATATTCACCGATCGAGAAACTAA
Found at i:18677216 original size:44 final size:42
Alignment explanation
Indices: 18677174--18677671 Score: 315
Period size: 44 Copynumber: 11.8 Consensus size: 42
18677164 TAAACTATCT
*
18677174 AATCTTTTACCCCAATCCAGAGGGGCAGATTGAAGCCACTATCC
1 AATCTTTTACCCC-ATCCAGA-GGGCAGATTGAAGCCACCATCC
* * *
18677218 AATCTTTTACCCCATCCAAAGGGGCAGATTGAAGTTACACCATCT
1 AATCTTTTACCCCATCCAGA-GGGCAGATTGAAG--CCACCATCC
* * * * *
18677263 AATCTTTTA-CCCATCTAGAGGTCAAATTGAAGCTACCATTC
1 AATCTTTTACCCCATCCAGAGGGCAGATTGAAGCCACCATCC
* * *
18677304 --TCTTTTACCCTATCCAGAGGGTAGATTGAAGCTACCATCC
1 AATCTTTTACCCCATCCAGAGGGCAGATTGAAGCCACCATCC
* * * * * *
18677344 AATGTTTTACCCCATCCGGAGGGTAGATTAAAGTTACACCACCC
1 AATCTTTTACCCCATCCAGAGGGCAGATTGAAG--CCACCATCC
* * * *
18677388 AATCTTTTACCCTATCCAAAGGGCAGATTGAAGTTACATCATCC
1 AATCTTTTACCCCATCCAGAGGGCAGATTGAAG--CCACCATCC
* *
18677432 AATCTTTTACCCCATCC--A--G-AG---GAAGCTACCATCT
1 AATCTTTTACCCCATCCAGAGGGCAGATTGAAGCCACCATCC
* * *
18677466 AATCTTTTACTCCCATCTAGAGGGGTAGATTAAAGCCACCAT-C
1 AATCTTTTAC-CCCATCCAGA-GGGCAGATTGAAGCCACCATCC
* * ** * * * *
18677509 ATACCTTTTACCCTATCCA-AAAGAAAATTGAAGCTATCATCC
1 A-ATCTTTTACCCCATCCAGAGGGCAGATTGAAGCCACCATCC
* * * *
18677551 AACCTTTTACCCCCTTCTTAGAGAGGCAAATTGAAGCCACCATCC
1 AATCTTTTA-CCCCATC-CAGAG-GGCAGATTGAAGCCACCATCC
* * * *
18677596 AATCTTTTGCCCC-TACCTAGAAAGGTAGATTGAAGCCACCGTCC
1 AATCTTTTACCCCAT-CC-AG-AGGGCAGATTGAAGCCACCATCC
* *
18677640 AATCTTTTACCCCCATCCA-AGGGGAAATTGAA
1 AATCTTTTA-CCCCATCCAGAGGGCAGATTGAA
18677672 ATATGAAAGC
Statistics
Matches: 355, Mismatches: 71, Indels: 58
0.73 0.15 0.12
Matches are distributed among these distances:
34 15 0.04
35 6 0.02
36 4 0.01
37 1 0.00
39 9 0.03
40 28 0.08
41 28 0.08
42 46 0.13
43 40 0.11
44 131 0.37
45 46 0.13
46 1 0.00
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.27
Consensus pattern (42 bp):
AATCTTTTACCCCATCCAGAGGGCAGATTGAAGCCACCATCC
Found at i:18677310 original size:39 final size:40
Alignment explanation
Indices: 18677265--18677368 Score: 113
Period size: 40 Copynumber: 2.6 Consensus size: 40
18677255 CACCATCTAA
*
18677265 TCTTTTACCC-ATCTAGA-GGTCAAATTGAAGCTACCATTC
1 TCTTTTACCCTATCCAGAGGGT-AAATTGAAGCTACCATTC
* *
18677304 TCTTTTACCCTATCCAGAGGGTAGATTGAAGCTACCATCC
1 TCTTTTACCCTATCCAGAGGGTAAATTGAAGCTACCATTC
* * *
18677344 AATGTTTTACCCCATCCGGAGGGTA
1 --TCTTTTACCCTATCCAGAGGGTA
18677369 GATTAAAGTT
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
39 10 0.18
40 22 0.40
41 3 0.05
42 20 0.36
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (40 bp):
TCTTTTACCCTATCCAGAGGGTAAATTGAAGCTACCATTC
Found at i:18677352 original size:126 final size:128
Alignment explanation
Indices: 18677175--18677608 Score: 333
Period size: 126 Copynumber: 3.4 Consensus size: 128
18677165 AAACTATCTA
*
18677175 ATCTTTTACCCCAATCCAGAGGGGCAGATTGAAGCCACTATCCAATCTTTTACCCCATCCAAAGG
1 ATCTTTTA-CCCAATCCAGA-GGGCAGATTGAAGCCACCATCCAATCTTTTACCCCATCCAAA-G
* * * * * * *
18677240 GGCAGATTGAAGTTACACCATCTAATCTTTTACCC-ATCTAGAGGTCAAATTGAAGCTAC-CATT
63 GGCAGATTAAAGTTACACCACCCAATCTTTTACCCTATCCAAAGGGCAAATTGAAGCTACACATC
18677303 C
128 C
* * * * ** *
18677304 -TCTTTTACCCTATCCAGAGGGTAGATTGAAGCTACCATCCAATGTTTTACCCCATCCGGAGGGT
1 ATCTTTTACCCAATCCAGAGGGCAGATTGAAGCCACCATCCAATCTTTTACCCCATCCAAAGGGC
* *
18677368 AGATTAAAGTTACACCACCCAATCTTTTACCCTATCCAAAGGGCAGATTGAAGTTACATCATCC
66 AGATTAAAGTTACACCACCCAATCTTTTACCCTATCCAAAGGGCAAATTGAAGCTACA-CATCC
* * * * *
18677432 AATCTTTTACCCCATCC--A--G-AG---GAAGCTACCATCTAATCTTTTACTCCCATCTAGAGG
1 -ATCTTTTACCCAATCCAGAGGGCAGATTGAAGCCACCATCCAATCTTTTAC-CCCATCCA-AAG
* * * * * * *
18677489 GGTAGATTAAAG--CCACCA-TCATACCTTTTACCCTATCCAAA-AGAAAATTGAAGCTA-TCAT
63 GGCAGATTAAAGTTACACCACCCA-ATCTTTTACCCTATCCAAAGGGCAAATTGAAGCTACACAT
18677549 CC
127 CC
* ** * * *
18677551 AACCTTTTACCCCCTTCTTAGAGAGGCAAATTGAAGCCACCATCCAATCTTTTGCCCC
1 -ATCTTTTA-CCCAATC-CAGAG-GGCAGATTGAAGCCACCATCCAATCTTTTACCCC
18677609 TACCTAGAAA
Statistics
Matches: 247, Mismatches: 39, Indels: 38
0.76 0.12 0.12
Matches are distributed among these distances:
119 13 0.05
120 6 0.02
121 13 0.05
122 44 0.18
123 7 0.03
124 13 0.05
125 34 0.14
126 57 0.23
127 11 0.04
128 12 0.05
129 3 0.01
130 34 0.14
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (128 bp):
ATCTTTTACCCAATCCAGAGGGCAGATTGAAGCCACCATCCAATCTTTTACCCCATCCAAAGGGC
AGATTAAAGTTACACCACCCAATCTTTTACCCTATCCAAAGGGCAAATTGAAGCTACACATCC
Found at i:18677506 original size:122 final size:118
Alignment explanation
Indices: 18677331--18677563 Score: 281
Period size: 122 Copynumber: 1.9 Consensus size: 118
18677321 AGGGTAGATT
* * *
18677331 GAAGCTACCATCCAATGTTTTACCCCATCCGGAGGGTAGATTAAAGTTACACCACCCA-ATCTTT
1 GAAGCTACCATCCAATCTTTTACCCCATCCAGAGGGTAGATTAAAG-TACACCA-CCATACCTTT
* * * * *
18677395 TACCCTATCCAAAGGGCAGATTGAAGTTACATCATCCAATCTTTTACCCCATCCAGAG
64 TACCCTATCCAAA-AGAAAATTGAAGCT--ATCATCCAACCTTTTACCCCATCCAGAG
* * * *
18677453 GAAGCTACCATCTAATCTTTTACTCCCATCTAGAGGGGTAGATTAAAG-CCACCATCATACCTTT
1 GAAGCTACCATCCAATCTTTTAC-CCCATCCAGA-GGGTAGATTAAAGTACACCACCATACCTTT
18677517 TACCCTATCCAAAAGAAAATTGAAGCTATCATCCAACCTTTTACCCC
64 TACCCTATCCAAAAGAAAATTGAAGCTATCATCCAACCTTTTACCCC
18677564 CTTCTTAGAG
Statistics
Matches: 96, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
119 19 0.20
121 12 0.12
122 44 0.46
123 8 0.08
124 13 0.14
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (118 bp):
GAAGCTACCATCCAATCTTTTACCCCATCCAGAGGGTAGATTAAAGTACACCACCATACCTTTTA
CCCTATCCAAAAGAAAATTGAAGCTATCATCCAACCTTTTACCCCATCCAGAG
Found at i:18677903 original size:101 final size:99
Alignment explanation
Indices: 18677679--18677913 Score: 258
Period size: 101 Copynumber: 2.4 Consensus size: 99
18677669 GAAATATGAA
* **
18677679 AGCAAATCTTTATCTCCCTGAAGTTGTAGTGGAGCAAGATAAGCTACAACACCAATACTATATCC
1 AGCAAATCTTTATCTCCCTAAAGTTGTAGTGGAATAAGATAAGCTACAACACCAATACTATATCC
*
18677744 CTAAAGTTGTAAGGATCAAATTAAAACTAATAGT
66 CTAAAGTTGTAAGGATCAAATTAAAACTAAGAGT
* * * * * * * *
18677778 GGCAAGTTTTTATCTCTCTTAAGTTATAGTGGAATAAGATAAAGCTACAGCACCAAATCCTATAT
1 AGCAAATCTTTATCTCCCTAAAGTTGTAGTGGAATAAGAT-AAGCTACAACACC-AATACTATAT
* * * *
18677843 -CCTATAGTTGTAGTGGATCGAATTTAAAACTACGA-T
64 CCCTAAAGTTGTA-AGGATC-AAATTAAAACTAAGAGT
**
18677879 AGCAAATCTCAATCTCCCTAAAGTTGTAGTGGAAT
1 AGCAAATCTTTATCTCCCTAAAGTTGTAGTGGAAT
18677914 GGAGTAAAGA
Statistics
Matches: 109, Mismatches: 23, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
99 32 0.29
100 23 0.21
101 42 0.39
102 12 0.11
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30
Consensus pattern (99 bp):
AGCAAATCTTTATCTCCCTAAAGTTGTAGTGGAATAAGATAAGCTACAACACCAATACTATATCC
CTAAAGTTGTAAGGATCAAATTAAAACTAAGAGT
Found at i:18680003 original size:20 final size:19
Alignment explanation
Indices: 18679980--18680024 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
18679970 ATTTTTGTTT
18679980 TTTTATTAGC-ATCATTGTCA
1 TTTTATTA-CTATCATTG-CA
*
18680000 TTTTTTTACTATCATTGCA
1 TTTTATTACTATCATTGCA
18680019 TTTTAT
1 TTTTAT
18680025 ATTTTTGTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.22, C:0.13, G:0.07, T:0.58
Consensus pattern (19 bp):
TTTTATTACTATCATTGCA
Found at i:18683183 original size:64 final size:64
Alignment explanation
Indices: 18683069--18683193 Score: 164
Period size: 64 Copynumber: 2.0 Consensus size: 64
18683059 AAAAAAGGTG
* ** *
18683069 AAAAAGAAAGAGAGAAAGAAAAAGGTCGAGATGAAATCTTGTAAAAGGCATCTTGAAACCCCCA
1 AAAAAGAAAGAGAGAAAGAAAAAGGTCGAGATGAAAACCCGCAAAAGGCATCTTGAAACCCCCA
* *
18683133 AAAAAGAAA-AGA-AAAGAAAAAGAGGTCGAGATGAAAACCCGCCAAGGGCATCTTGAAACCC
1 AAAAAGAAAGAGAGAAAG-AAAA-AGGTCGAGATGAAAACCCGCAAAAGGCATCTTGAAACCC
18683194 AAGGGAAGAA
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
62 4 0.08
63 7 0.13
64 42 0.79
ACGTcount: A:0.50, C:0.16, G:0.22, T:0.11
Consensus pattern (64 bp):
AAAAAGAAAGAGAGAAAGAAAAAGGTCGAGATGAAAACCCGCAAAAGGCATCTTGAAACCCCCA
Found at i:18683217 original size:13 final size:14
Alignment explanation
Indices: 18683199--18683227 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
18683189 AACCCAAGGG
18683199 AAGAAAAGAA-AAA
1 AAGAAAAGAAGAAA
18683212 AAGAAAAGAAGAAA
1 AAGAAAAGAAGAAA
18683226 AA
1 AA
18683228 AGTCAAGATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (14 bp):
AAGAAAAGAAGAAA
Found at i:18684087 original size:25 final size:25
Alignment explanation
Indices: 18684042--18684105 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
18684032 TTTCACCAAA
*
18684042 AAAATAGAAAAGAAGAGAAAAGAAACG
1 AAAA-AGAAAA-AAGAAAAAAGAAACG
* * *
18684069 ATAAGGAAAAAAGAAAAAAGAAATG
1 AAAAAGAAAAAAGAAAAAAGAAACG
18684094 AAAAAGAAAAAA
1 AAAAAGAAAAAA
18684106 AATGAAAGGT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
25 23 0.74
26 5 0.16
27 3 0.10
ACGTcount: A:0.75, C:0.02, G:0.19, T:0.05
Consensus pattern (25 bp):
AAAAAGAAAAAAGAAAAAAGAAACG
Found at i:18685108 original size:42 final size:42
Alignment explanation
Indices: 18685006--18685512 Score: 508
Period size: 42 Copynumber: 11.9 Consensus size: 42
18684996 GGTCCAGTAA
* *
18685006 ACCATCCAATCTTTTACCCCGATCCAGAGGGGTAGATTGAAGCCAC
1 ACCATCCAATCTTTTACCCC-ATCCAGA-GGGCAGATTGAAG-C-T
*
18685052 ACCATCCAAACTTTTACCCCATCCAGAGGGCAGATTGAAGCT
1 ACCATCCAATCTTTTACCCCATCCAGAGGGCAGATTGAAGCT
* * * * * * *
18685094 ACCATCCGATCTTTTATCCCATCTAGAGGTCAAATTGCAGTT
1 ACCATCCAATCTTTTACCCCATCCAGAGGGCAGATTGAAGCT
* * *
18685136 ACCATCCAATCTTTTACCCCATCCAAAGGGCAGGTTAAAGCT
1 ACCATCCAATCTTTTACCCCATCCAGAGGGCAGATTGAAGCT
* * * *
18685178 ACCATCTAATCTTTTACCCCATCTAGAGGGTAGATTGAAGTT
1 ACCATCCAATCTTTTACCCCATCCAGAGGGCAGATTGAAGCT
* * *
18685220 ACACCATTCAATCTTTTACCCCATTCAGAGGTCAGATTGAAGCT
1 --ACCATCCAATCTTTTACCCCATCCAGAGGGCAGATTGAAGCT
* *
18685264 ACCATCTAATCTTTTACCACCA-CGTAGAGGGGCAGATTGAAG-T
1 ACCATCCAATCTTTTACC-CCATC-CAGA-GGGCAGATTGAAGCT
* * *
18685307 CATCATCCAATCTTTTACCCCATCCAAAGGGCAGATTAAAGCT
1 -ACCATCCAATCTTTTACCCCATCCAGAGGGCAGATTGAAGCT
* * * *
18685350 ATCATCCAATCTTTTACCCTCATCCAGAGGGGCAAATTAAAGCC
1 ACCATCCAATCTTTTACCC-CATCCAGA-GGGCAGATTGAAGCT
* *
18685394 ACCATCCAATCTTTTACCCCATCTAGAGGGTAGATTGAAG--
1 ACCATCCAATCTTTTACCCCATCCAGAGGGCAGATTGAAGCT
* *
18685434 -CCAT--GATATTTTACCCCTATCCAGATGGGCAGATTGAAG-T
1 ACCATCCAATCTTTTACCCC-ATCCAGA-GGGCAGATTGAAGCT
18685474 CACCATCCAATCTTTTAACCCCATCCAGAGGGGCAGATT
1 -ACCATCCAATCTTTT-ACCCCATCCAGA-GGGCAGATT
18685513 TAAATATGAA
Statistics
Matches: 383, Mismatches: 60, Indels: 38
0.80 0.12 0.08
Matches are distributed among these distances:
37 11 0.03
38 6 0.02
39 16 0.04
42 162 0.42
43 28 0.07
44 129 0.34
45 12 0.03
46 19 0.05
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.27
Consensus pattern (42 bp):
ACCATCCAATCTTTTACCCCATCCAGAGGGCAGATTGAAGCT
Found at i:18685267 original size:86 final size:85
Alignment explanation
Indices: 18685006--18685512 Score: 562
Period size: 86 Copynumber: 5.9 Consensus size: 85
18684996 GGTCCAGTAA
* * *
18685006 ACCATCCAATCTTTTACCCCGATCCAGAGGGGTAGATTGAAGCCACACCATCCAAACTTTTACCC
1 ACCATCCAATCTTTTACCCC-ATCCAGAGGGGCAGATTGAAG--TCACCATCCAATCTTTTACCC
18685071 CATCCAGAGGGCAGATTGAAGCT
63 CATCCAGAGGGCAGATTGAAGCT
* * * * * * *
18685094 ACCATCCGATCTTTTATCCCATCTAGA-GGTCAAATTGCAGTTACCATCCAATCTTTTACCCCAT
1 ACCATCCAATCTTTTACCCCATCCAGAGGGGCAGATTGAAGTCACCATCCAATCTTTTACCCCAT
* * *
18685158 CCAAAGGGCAGGTTAAAGCT
66 CCAGAGGGCAGATTGAAGCT
* * * *
18685178 ACCATCTAATCTTTTACCCCATCTAGA-GGGTAGATTGAAGTTACACCATTCAATCTTTTACCCC
1 ACCATCCAATCTTTTACCCCATCCAGAGGGGCAGATTGAAG-T-CACCATCCAATCTTTTACCCC
* *
18685242 ATTCAGAGGTCAGATTGAAGCT
64 ATCCAGAGGGCAGATTGAAGCT
* * *
18685264 ACCATCTAATCTTTTACCACCA-CGTAGAGGGGCAGATTGAAGTCATCATCCAATCTTTTACCCC
1 ACCATCCAATCTTTTACC-CCATC-CAGAGGGGCAGATTGAAGTCACCATCCAATCTTTTACCCC
* *
18685328 ATCCAAAGGGCAGATTAAAGCT
64 ATCCAGAGGGCAGATTGAAGCT
* * * *
18685350 ATCATCCAATCTTTTACCCTCATCCAGAGGGGCAAATTAAAGCCACCATCCAATCTTTTACCCCA
1 ACCATCCAATCTTTTACCC-CATCCAGAGGGGCAGATTGAAGTCACCATCCAATCTTTTACCCCA
* *
18685415 TCTAGAGGGTAGATTGAAG--
65 TCCAGAGGGCAGATTGAAGCT
* * *
18685434 -CCAT--GATATTTTACCCCTATCCAGATGGGCAGATTGAAGTCACCATCCAATCTTTTAACCCC
1 ACCATCCAATCTTTTACCCC-ATCCAGAGGGGCAGATTGAAGTCACCATCCAATCTTTT-ACCCC
18685496 ATCCAGAGGGGCAGATT
64 ATCCAGA-GGGCAGATT
18685513 TAAATATGAA
Statistics
Matches: 355, Mismatches: 54, Indels: 25
0.82 0.12 0.06
Matches are distributed among these distances:
80 1 0.00
81 44 0.12
82 11 0.03
83 11 0.03
84 71 0.20
85 2 0.01
86 170 0.48
87 15 0.04
88 30 0.08
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.27
Consensus pattern (85 bp):
ACCATCCAATCTTTTACCCCATCCAGAGGGGCAGATTGAAGTCACCATCCAATCTTTTACCCCAT
CCAGAGGGCAGATTGAAGCT
Found at i:18686377 original size:17 final size:18
Alignment explanation
Indices: 18686347--18686381 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
18686337 ATTTGTTTAA
*
18686347 TTTCATTGTTTATTTATT
1 TTTCATTGTGTATTTATT
18686365 TTTCATT-TGTATTTATT
1 TTTCATTGTGTATTTATT
18686382 ATGTTCATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.17, C:0.06, G:0.06, T:0.71
Consensus pattern (18 bp):
TTTCATTGTGTATTTATT
Found at i:18688839 original size:40 final size:40
Alignment explanation
Indices: 18688777--18688988 Score: 225
Period size: 40 Copynumber: 5.3 Consensus size: 40
18688767 GCTTTAAGGA
* *
18688777 TAAAAGATTGGATTG-CTTCAATCTGCCCCATGGTCGGGG
1 TAAAAGATTAGATGGTCTTCAATCTGCCCCATGGTCGGGG
* * * **
18688816 TAAGAGATCAGATGGTCTTCAATCTACCCTC-TGGTTAGGG
1 TAAAAGATTAGATGGTCTTCAATCTGCCC-CATGGTCGGGG
* *
18688856 TAAAAGATTAGATTG-CTTCAATCTGGCCCATGGTCGGGG
1 TAAAAGATTAGATGGTCTTCAATCTGCCCCATGGTCGGGG
* * * * **
18688895 TAAAAAATTAGATGGTCTTCAATCTACCTTC-TGATTAGGG
1 TAAAAGATTAGATGGTCTTCAATCTGCC-CCATGGTCGGGG
*
18688935 TAAAAGATTTGATGGTCTTCAATCTGCCCCATGGTCGGGG
1 TAAAAGATTAGATGGTCTTCAATCTGCCCCATGGTCGGGG
*
18688975 TAAAAGATTGGATG
1 TAAAAGATTAGATG
18688989 TGGTGACTTT
Statistics
Matches: 137, Mismatches: 30, Indels: 11
0.77 0.17 0.06
Matches are distributed among these distances:
38 1 0.01
39 43 0.31
40 91 0.66
41 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.30
Consensus pattern (40 bp):
TAAAAGATTAGATGGTCTTCAATCTGCCCCATGGTCGGGG
Found at i:18688886 original size:79 final size:79
Alignment explanation
Indices: 18688777--18688982 Score: 322
Period size: 79 Copynumber: 2.6 Consensus size: 79
18688767 GCTTTAAGGA
* *
18688777 TAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCGGGGTAAGAGATCAGATGGTCTTCAATCTA
1 TAAAAGATTAGATTGCTTCAATCTGCCCCATGGTCGGGGTAAAAGATCAGATGGTCTTCAATCTA
*
18688842 CCCTCTGGTTAGGG
66 CCCTCTGATTAGGG
* * *
18688856 TAAAAGATTAGATTGCTTCAATCTGGCCCATGGTCGGGGTAAAAAATTAGATGGTCTTCAATCTA
1 TAAAAGATTAGATTGCTTCAATCTGCCCCATGGTCGGGGTAAAAGATCAGATGGTCTTCAATCTA
*
18688921 CCTTCTGATTAGGG
66 CCCTCTGATTAGGG
* *
18688935 TAAAAGATTTGATGGTCTTCAATCTGCCCCATGGTCGGGGTAAAAGAT
1 TAAAAGATTAGATTG-CTTCAATCTGCCCCATGGTCGGGGTAAAAGAT
18688983 TGGATGTGGT
Statistics
Matches: 115, Mismatches: 11, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
79 85 0.74
80 30 0.26
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (79 bp):
TAAAAGATTAGATTGCTTCAATCTGCCCCATGGTCGGGGTAAAAGATCAGATGGTCTTCAATCTA
CCCTCTGATTAGGG
Found at i:18692053 original size:24 final size:24
Alignment explanation
Indices: 18692017--18692087 Score: 133
Period size: 24 Copynumber: 3.0 Consensus size: 24
18692007 GAGCACAACA
18692017 TAGTTTCTCGATCGGTGAATATCT
1 TAGTTTCTCGATCGGTGAATATCT
*
18692041 TAGTTTCTTGATCGGTGAATATCT
1 TAGTTTCTCGATCGGTGAATATCT
18692065 TAGTTTCTCGATCGGTGAATATC
1 TAGTTTCTCGATCGGTGAATATC
18692088 CTATCTCGTA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.21, C:0.15, G:0.21, T:0.42
Consensus pattern (24 bp):
TAGTTTCTCGATCGGTGAATATCT
Found at i:18715967 original size:29 final size:26
Alignment explanation
Indices: 18715924--18716171 Score: 147
Period size: 29 Copynumber: 8.5 Consensus size: 26
18715914 TGCAGGGGGC
18715924 AAAATGGTAATTTTTGGTGAAATCGGGGTT
1 AAAATGG-AA-TTTT-G-GAAATCGGGGTT
* *
18715954 AAAAATAGAATTTTGGAAAGTTCGGGGGT
1 -AAAATGGAATTTTGGAAA--TCGGGGTT
18715983 AAAATGGTAATTTTTGATGAAATC-GGGTT
1 AAAATGG-AA-TTTTG--GAAATCGGGGTT
*
18716012 AAAATGGAATTTTGGAAAGTTCGGGGGT
1 AAAATGGAATTTTGGAAA--TCGGGGTT
* *
18716040 AAAATGGTAATTTTTTGTTAAATCAGGGTT
1 AAAATGG-AA--TTTTG-GAAATCGGGGTT
* *
18716070 AAAAATGGAACTTTGGAAAGTTCGGGGGT
1 -AAAATGGAATTTTGGAAA--TCGGGGTT
18716099 AAAATGGTAATTTTTGGAGAAATCGGGGTT
1 AAAATGG-AA-TTTT-G-GAAATCGGGGTT
* * *
18716129 AAAAATGGAATTTTAGAAAGTTTGGGGGT
1 -AAAATGGAATTTTGGAAA--TCGGGGTT
18716158 AAAATGGTAATTTT
1 AAAATGG-AATTTT
18716172 TGGACAGTCT
Statistics
Matches: 176, Mismatches: 17, Indels: 50
0.72 0.07 0.21
Matches are distributed among these distances:
25 4 0.02
27 18 0.10
28 38 0.22
29 50 0.28
30 29 0.16
31 26 0.15
32 11 0.06
ACGTcount: A:0.35, C:0.03, G:0.29, T:0.33
Consensus pattern (26 bp):
AAAATGGAATTTTGGAAATCGGGGTT
Found at i:18716069 original size:116 final size:118
Alignment explanation
Indices: 18715918--18716174 Score: 412
Period size: 116 Copynumber: 2.2 Consensus size: 118
18715908 ATAAAATGCA
* * *
18715918 GGGGGCAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATAGAATTTTGGAAAGTTCGGGGGT
1 GGGGGTAAAATGGTAATTTTTGGTGAAATCAGGGTTAAAAATAGAACTTTGGAAAGTTCGGGGGT
*
18715983 AAAATGGTAATTTTT-GATGAAATC-GGGTT-AAAATGGAATTTTGGAAAGTTC
66 AAAATGGTAATTTTTGGA-GAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTC
* * *
18716034 GGGGGTAAAATGGTAATTTTTTGTTAAATCAGGGTTAAAAATGGAACTTTGGAAAGTTCGGGGGT
1 GGGGGTAAAATGGTAATTTTTGGTGAAATCAGGGTTAAAAATAGAACTTTGGAAAGTTCGGGGGT
*
18716099 AAAATGGTAATTTTTGGAGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTT
66 AAAATGGTAATTTTTGGAGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTC
18716152 GGGGGTAAAATGGTAATTTTTGG
1 GGGGGTAAAATGGTAATTTTTGG
18716175 ACAGTCTAGG
Statistics
Matches: 129, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
116 80 0.62
117 7 0.05
118 42 0.33
ACGTcount: A:0.33, C:0.04, G:0.30, T:0.33
Consensus pattern (118 bp):
GGGGGTAAAATGGTAATTTTTGGTGAAATCAGGGTTAAAAATAGAACTTTGGAAAGTTCGGGGGT
AAAATGGTAATTTTTGGAGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTC
Found at i:18716104 original size:59 final size:59
Alignment explanation
Indices: 18715918--18716174 Score: 410
Period size: 59 Copynumber: 4.4 Consensus size: 59
18715908 ATAAAATGCA
* *
18715918 GGGGGCAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATAGAATTTTGGAAAGTTC
1 GGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTC
*
18715977 GGGGGTAAAATGGTAATTTTTGATGAAATC-GGGTT-AAAATGGAATTTTGGAAAGTTC
1 GGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTC
* * * *
18716034 GGGGGTAAAATGGTAATTTTTTGTTAAATCAGGGTTAAAAATGGAACTTTGGAAAGTTC
1 GGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTC
* * *
18716093 GGGGGTAAAATGGTAATTTTTGGAGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTT
1 GGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTC
18716152 GGGGGTAAAATGGTAATTTTTGG
1 GGGGGTAAAATGGTAATTTTTGG
18716175 ACAGTCTAGG
Statistics
Matches: 182, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
57 48 0.26
58 10 0.05
59 124 0.68
ACGTcount: A:0.33, C:0.04, G:0.30, T:0.33
Consensus pattern (59 bp):
GGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTC
Found at i:18716433 original size:162 final size:162
Alignment explanation
Indices: 18716241--18716744 Score: 812
Period size: 162 Copynumber: 3.1 Consensus size: 162
18716231 CACAGGCATC
** * *
18716241 CAAA-AGTCAAAGGACGAATTTGTAAATCTTGAAAAATTCTCGGGCCAATTTTGTAATTAAGCAG
1 CAAACAGTCAAAGGATTAATTTATAAATCTTGAAAAATTCTTGGGCCAATTTTGTAATTAAGCAG
18716305 AAGTTGATTTGAAGATTAAATTAAAACAAATTAAAAATGACAGGGACTAGATACATAAATAAACC
66 AAGTTGATTTGAAGATTAAATTAAAACAAATTAAAAATGACAGGGACTAGATACATAAATAAACC
* * *
18716370 AAAAAGTGACACATGGCGGCCTCTGGTGCATT
131 AAAAAGTGACACGTGGCAGCCTCTGGTGCAGT
*
18716402 CAAACAGTCAAAGGATTAATTTATAAATCTTGAAAAATTCTTGGGCCAATTTTATAATTAAGCAG
1 CAAACAGTCAAAGGATTAATTTATAAATCTTGAAAAATTCTTGGGCCAATTTTGTAATTAAGCAG
*
18716467 AAGTTGATTTGAAGATTAAATTAAAACAAATTAAAAATGACAGGGACCAGATACATAAATAAACC
66 AAGTTGATTTGAAGATTAAATTAAAACAAATTAAAAATGACAGGGACTAGATACATAAATAAACC
18716532 AAAAAGTGACACGTGGCAGCCTCTGGTGCAGT
131 AAAAAGTGACACGTGGCAGCCTCTGGTGCAGT
*
18716564 CAAACAGTCAAAGGATTAATTTATAAATCTTAAAAAATTCTTGGGCCAATTTTGTAATTAAGCAG
1 CAAACAGTCAAAGGATTAATTTATAAATCTTGAAAAATTCTTGGGCCAATTTTGTAATTAAGCAG
* * * * * * * *
18716629 AAGTTTATTTGAGGATTAAATTAAAACAAATTAAAAATAAAAAGGATTAAATGCATAAATAAACC
66 AAGTTGATTTGAAGATTAAATTAAAACAAATTAAAAATGACAGGGACTAGATACATAAATAAACC
* *
18716694 AGAAAGTGACACGTGGCAGCCTCCGGTGCAGT
131 AAAAAGTGACACGTGGCAGCCTCTGGTGCAGT
*
18716726 CCAACAGTCAAAGGATTAA
1 CAAACAGTCAAAGGATTAA
18716745 ATTGAAAACC
Statistics
Matches: 319, Mismatches: 23, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
161 4 0.01
162 315 0.99
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.26
Consensus pattern (162 bp):
CAAACAGTCAAAGGATTAATTTATAAATCTTGAAAAATTCTTGGGCCAATTTTGTAATTAAGCAG
AAGTTGATTTGAAGATTAAATTAAAACAAATTAAAAATGACAGGGACTAGATACATAAATAAACC
AAAAAGTGACACGTGGCAGCCTCTGGTGCAGT
Found at i:18718387 original size:17 final size:16
Alignment explanation
Indices: 18718361--18718438 Score: 79
Period size: 17 Copynumber: 4.8 Consensus size: 16
18718351 AATTTAATTT
18718361 ATAAATTTAAATTTATA
1 ATAAA-TTAAATTTATA
*
18718378 ATAAACTTAAATTTTTA
1 ATAAA-TTAAATTTATA
*
18718395 AGTAAATTTAAATTTAAA
1 A-TAAA-TTAAATTTATA
*
18718413 ATAAATTTAATTT-TA
1 ATAAATTAAATTTATA
18718428 A-AAATTAAATT
1 ATAAATTAAATT
18718439 ATCTCATTGG
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
14 9 0.17
15 2 0.04
16 7 0.13
17 20 0.38
18 14 0.27
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (16 bp):
ATAAATTAAATTTATA
Found at i:18718909 original size:76 final size:76
Alignment explanation
Indices: 18718783--18719408 Score: 1002
Period size: 76 Copynumber: 8.2 Consensus size: 76
18718773 GCTTTGTCTA
* *
18718783 GCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAG
1 GCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAG
18718848 GAAATGATGTT
66 GAAATGATGTT
* *
18718859 GCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGCGGATAG
1 GCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAG
*
18718924 GAAATGACGTT
66 GAAATGATGTT
* *
18718935 GCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAG
1 GCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAG
18719000 GAAATGATGTT
66 GAAATGATGTT
* * *
18719011 GTTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGCGGATAG
1 GCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAG
*
18719076 GAAATGACGTT
66 GAAATGATGTT
* *
18719087 GCTCTTACTTAAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAG
1 GCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAG
* *
18719152 GAAATGATCTG
66 GAAATGATGTT
* * *
18719163 GCTCTTACTTCAATTTCAGAGGTAAAGACTTGATATTCAGCT-TGACTTCAATTTCAAGAGGATA
1 GCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCT-ACTTCAATTTCAAGAGGATA
18719227 GGAAATGATGTT
65 GGAAATGATGTT
* * * *
18719239 GCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTTAATTTCAAGCGAATAG
1 GCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAG
*
18719304 GAAATGACGTT
66 GAAATGATGTT
* *
18719315 GCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAG
1 GCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAG
*
18719380 GAAATGATCTT
66 GAAATGATGTT
18719391 GCTCTTACTTCAATTTCA
1 GCTCTTACTTCAATTTCA
18719409 AGAGGATAGG
Statistics
Matches: 503, Mismatches: 45, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
75 1 0.00
76 501 1.00
77 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.34
Consensus pattern (76 bp):
GCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAG
GAAATGATGTT
Found at i:18719403 original size:32 final size:34
Alignment explanation
Indices: 18719367--18719435 Score: 102
Period size: 38 Copynumber: 1.9 Consensus size: 34
18719357 TTACTTCAAT
18719367 TTCAAGAGGATAGGAAATGATCTTGCTCTTACTTCAA
1 TTCAAGAGGATAGGAAATGATCTTGCTCTTA--TC-A
18719404 TTTCAAGAGGATAGGAAATGATCTTGCTCTTA
1 -TTCAAGAGGATAGGAAATGATCTTGCTCTTA
18719436 CTTCAATTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 31 1.00
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.33
Consensus pattern (34 bp):
TTCAAGAGGATAGGAAATGATCTTGCTCTTATCA
Found at i:18719476 original size:152 final size:149
Alignment explanation
Indices: 18718783--18719484 Score: 756
Period size: 152 Copynumber: 4.6 Consensus size: 149
18718773 GCTTTGTCTA
*
18718783 GCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCT-TTACTTCAATTTCAAGAGGATA
1 GCTCTTACTTCAATTTCAGAGATAAAGACTTG-TATCCAGCTCTTACTTCAATTTC-AGA-GAAA
* * * * * *
18718847 GGAAATGATGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATT
63 AGAAATGAT-ATCCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATT
*
18718912 TCAAGCGGATAGGAAATGA-CGTT
127 TCAAGAGGATAGGAAATGATC-TT
*
18718935 GCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCT-TTACTTCAATTTCAAGAGGATA
1 GCTCTTACTTCAATTTCAGAGATAAAGACTTG-TATCCAGCTCTTACTTCAATTTC-AGA-GAAA
* * ** * * *
18718999 GGAAATGATGTTGTTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATT
63 AGAAATGAT-ATCCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATT
*
18719064 TCAAGCGGATAGGAAATGA-CGTT
127 TCAAGAGGATAGGAAATGATC-TT
* * *
18719087 GCTCTTACTTAAATTTCAGAGATAAAGACTTGTTATCCAACTC-TACTTCAATTTCAAGAGGATA
1 GCTCTTACTTCAATTTCAGAGATAAAGACTTG-TATCCAGCTCTTACTTCAATTTC-AGA-GAAA
* * * * * *
18719151 GGAAATGATCTGGCTCTTACTTCAATTTCAGAGGTAAAGACTTGATATTCAGCTTGACTTCAATT
63 AGAAATGATAT-CCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATT
*
18719216 TCAAGAGGATAGGAAATGATGTT
127 TCAAGAGGATAGGAAATGATCTT
* * *
18719239 GCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTC-TACTTTAATTTCAAGCGAATA
1 GCTCTTACTTCAATTTCAGAGATAAAGACTTG-TATCCAGCTCTTACTTCAATTTC-AGAGAA-A
* *
18719303 GGAAATGACGT-TGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAAT
63 AGAAATGA--TATCCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAAT
18719367 TTCAAGAGGATAGGAAATGATCTT
126 TTCAAGAGGATAGGAAATGATCTT
* ** **
18719391 GCTCTTACTTCAATTTCAAGAGGAT-AGGAAATG-ATCTTGCTCTTACTTCAATTTCAGAGACAA
1 GCTCTTACTTCAATTTC-AGA-GATAAAGACTTGTATCCAGCTCTTACTTCAATTTCAGAGA-AA
** * *
18719454 AGACCTGATATCCAATCCTACTTCAACTTCA
63 AGAAATGATATCC--TCTTACTTCAATTTCA
18719485 AGAGGATAGG
Statistics
Matches: 501, Mismatches: 36, Indels: 26
0.89 0.06 0.05
Matches are distributed among these distances:
149 1 0.00
150 2 0.00
151 19 0.04
152 466 0.93
153 9 0.02
154 4 0.01
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (149 bp):
GCTCTTACTTCAATTTCAGAGATAAAGACTTGTATCCAGCTCTTACTTCAATTTCAGAGAAAAGA
AATGATATCCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAA
GAGGATAGGAAATGATCTT
Found at i:18719522 original size:228 final size:227
Alignment explanation
Indices: 18718785--18719484 Score: 851
Period size: 228 Copynumber: 3.1 Consensus size: 227
18718775 TTTGTCTAGC
** * *
18718785 TCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGA
1 TCTTACTTCAATTTCAGAGATAAAGAAATG-TATCCAACTCTACTTCAATTTCAAGAGGATAGGA
*
18718850 AATGATGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCA
65 AATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCA
* ** **
18718915 AGCGGATAGGAAATGA-CGTTGCTCTTACTTCAATTTCAGA-GATAAAGACTTGATATCCAGCTT
130 AGAGGATAGGAAATGATC-TTGCTCTTACTTCAATTTCAGAGGATAAAGAAATG--ATCTTGCTT
* * * ***
18718978 TACTTCAATTTCAAGAGGATAGGAAATGATGT-TGT
192 TACTTCAATTTCAAGAGGAAAAGAAATGATATCCAA
** *
18719013 TCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGCGGATAGGA
1 TCTTACTTCAATTTCAGAGATAAAGAAATG-TATCCAACTCTACTTCAATTTCAAGAGGATAGGA
*
18719078 AATGACGTTGCTCTTACTTAAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCA
65 AATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCA
* ** * *
18719143 AGAGGATAGGAAATGATCTGGCTCTTACTTCAATTTCAGAGG-TAAAGACTTGATATTCAGCTTG
130 AGAGGATAGGAAATGATCTTGCTCTTACTTCAATTTCAGAGGATAAAGAAATGATCTT--GCTTT
* * * *
18719207 ACTTCAATTTCAAGAGGATAGGAAATGATGTTGC--
193 ACTTCAATTTCAAGAGGAAAAGAAATGAT-ATCCAA
** * * *
18719241 TCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTTAATTTCAAGCGAATAGGA
1 TCTTACTTCAATTTCAGAGATAAAGAAATG-TATCCAACTCTACTTCAATTTCAAGAGGATAGGA
* * *
18719306 AATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCA
65 AATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCA
*
18719371 AGAGGATAGGAAATGATCTTGCTCTTACTTCAATTTCAAGAGGAT-AGGAAATGATCTTGCTCTT
130 AGAGGATAGGAAATGATCTTGCTCTTACTTCAATTTC-AGAGGATAAAGAAATGATCTTGCT-TT
**
18719435 ACTTCAATTTC-AGA-GACAAAGACCTGATATCCAA
193 ACTTCAATTTCAAGAGGA-AAAGAAATGATATCCAA
* *
18719469 TCCTACTTCAACTTCA
1 TCTTACTTCAATTTCA
18719485 AGAGGATAGG
Statistics
Matches: 426, Mismatches: 34, Indels: 24
0.88 0.07 0.05
Matches are distributed among these distances:
226 6 0.01
227 13 0.03
228 389 0.91
229 17 0.04
230 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.34
Consensus pattern (227 bp):
TCTTACTTCAATTTCAGAGATAAAGAAATGTATCCAACTCTACTTCAATTTCAAGAGGATAGGAA
ATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAA
GAGGATAGGAAATGATCTTGCTCTTACTTCAATTTCAGAGGATAAAGAAATGATCTTGCTTTACT
TCAATTTCAAGAGGAAAAGAAATGATATCCAA
Found at i:18719580 original size:151 final size:151
Alignment explanation
Indices: 18719396--18719730 Score: 557
Period size: 151 Copynumber: 2.2 Consensus size: 151
18719386 ATCTTGCTCT
18719396 TACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTTACTTCAATTTCAGAGACAAAGACCTG
1 TACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTTACTTCAATTTCAGAGACAAAGACCTG
18719461 ATATCCAATCCTACTTCAACTTCAAGAGGATAGGAAAAGATCTTGCTCTTACTTCAATTTCAGAG
66 ATATCCAAT-CTACTTCAACTTCAAGAGGATAGGAAAAGATCTTGCTCTTACTTCAATTTCAGAG
18719526 ATAAAGACGT-GTTATCC-ACTC
130 ATAAAGACGTAG-TATCCAACTC
* *
18719547 TACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTG
1 TACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTTACTTCAATTTCAGAGACAAAGACCTG
* * * *
18719612 TTATCCACTCTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGTTCTTACTTCAATTTCAGAGA
66 ATATCCAATCTACTTCAACTTCAAGAGGATAGGAAAAGATCTTGCTCTTACTTCAATTTCAGAGA
* *
18719677 TAAAGACTTAGTATCCAACTT
131 TAAAGACGTAGTATCCAACTC
*
18719698 TACTTCAATTTCAAGAGGATAGGAAAGGATCTT
1 TACTTCAATTTCAAGAGGATAGGAAATGATCTT
18719731 AGTACGGTCT
Statistics
Matches: 173, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
150 67 0.39
151 106 0.61
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (151 bp):
TACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTTACTTCAATTTCAGAGACAAAGACCTG
ATATCCAATCTACTTCAACTTCAAGAGGATAGGAAAAGATCTTGCTCTTACTTCAATTTCAGAGA
TAAAGACGTAGTATCCAACTC
Found at i:18719587 original size:75 final size:75
Alignment explanation
Indices: 18719396--18719730 Score: 537
Period size: 75 Copynumber: 4.4 Consensus size: 75
18719386 ATCTTGCTCT
* * *
18719396 TACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTTACTTCAATTTCAGAGACAAAGACCTG
1 TACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTG
* *
18719461 ATATCCAATCC
66 TTATCCACT-C
*
18719472 TACTTCAACTTCAAGAGGATAGGAAAAGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTG
1 TACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTG
18719537 TTATCCACTC
66 TTATCCACTC
*
18719547 TACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTG
1 TACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTG
18719612 TTATCCACTC
66 TTATCCACTC
* *
18719622 TACTTCAATTTCAAGAGGATAGGAAAAGATCTTGTTCTTACTTCAATTTCAGAGATAAAGACTTA
1 TACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGT-
*
18719687 G-TATCCAACTT
65 GTTATCC-ACTC
*
18719698 TACTTCAATTTCAAGAGGATAGGAAAGGATCTT
1 TACTTCAATTTCAAGAGGATAGGAAAAGATCTT
18719731 AGTACGGTCT
Statistics
Matches: 244, Mismatches: 13, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
75 140 0.57
76 104 0.43
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (75 bp):
TACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTG
TTATCCACTC
Found at i:18731912 original size:58 final size:57
Alignment explanation
Indices: 18731848--18732008 Score: 168
Period size: 58 Copynumber: 2.8 Consensus size: 57
18731838 GTAAAATCGT
* *
18731848 AATTTTGG-ACTTGCAGGGGCAAAATGGTAATTTTTGGTGAAATCGAGGTCGAAAATGG
1 AATTTTGGAACTTGC-GGGGTAAAATGGTAATTTTTGGTGAAATCGAGGT-GAAAATAG
* * * *
18731906 AGTTTTGGAAAATTTG-GGGGTAAAATGGTGA-TTTTGGTGAAATCGAGGTTAAAATAG
1 AATTTTGG--AACTTGCGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTGAAAATAG
* *
18731963 AATTTTGGAAAGTT-CGAGGGTAAAATGGTAATTTTTGGTGGAATCG
1 AATTTTGG-AACTTGCG-GGGTAAAATGGTAATTTTTGGTGAAATCG
18732009 GGGGTAAAAT
Statistics
Matches: 87, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
56 6 0.07
57 26 0.30
58 38 0.44
59 13 0.15
61 4 0.05
ACGTcount: A:0.32, C:0.05, G:0.31, T:0.32
Consensus pattern (57 bp):
AATTTTGGAACTTGCGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTGAAAATAG
Found at i:18732014 original size:30 final size:29
Alignment explanation
Indices: 18731832--18732085 Score: 179
Period size: 28 Copynumber: 8.8 Consensus size: 29
18731822 TTTTGGATAC
* **
18731832 TCGGGGGTAAAATCGTAATTTT-G-GACT
1 TCGGGGGTAAAATGGTAATTTTGGTGAAA
* *
18731859 TGCAGGGGCAAAATGGTAATTTTTGGTGAAA
1 T-CGGGGGTAAAATGGTAA-TTTTGGTGAAA
* * *
18731890 TC-GAGGTCGAAAATGG-AGTTTTGG-AAAA
1 TCGGGGGT--AAAATGGTAATTTTGGTGAAA
* *
18731918 TTTGGGGGTAAAATGGTGATTTTGGTGAAA
1 -TCGGGGGTAAAATGGTAATTTTGGTGAAA
* * *
18731948 TCGAGGTTAAAATAG-AATTTT-G-GAAA
1 TCGGGGGTAAAATGGTAATTTTGGTGAAA
* *
18731974 GTTCGAGGGTAAAATGGTAATTTTTGGTGGAA
1 --TCGGGGGTAAAATGGTAA-TTTTGGTGAAA
*
18732006 TCGGGGGTAAAATGGTAATTTTTGGTGGAA
1 TCGGGGGTAAAATGGTAA-TTTTGGTGAAA
*
18732036 TCGGGGTTAAAATGG-AATTTT-G-GAAA
1 TCGGGGGTAAAATGGTAATTTTGGTGAAA
18732062 GTTCGGGGGTAAAATGGTAATTTT
1 --TCGGGGGTAAAATGGTAATTTT
18732086 TGGATAGTCC
Statistics
Matches: 182, Mismatches: 26, Indels: 36
0.75 0.11 0.15
Matches are distributed among these distances:
26 7 0.04
27 3 0.02
28 60 0.33
29 41 0.23
30 57 0.31
31 11 0.06
32 3 0.02
ACGTcount: A:0.31, C:0.05, G:0.32, T:0.32
Consensus pattern (29 bp):
TCGGGGGTAAAATGGTAATTTTGGTGAAA
Found at i:18732055 original size:88 final size:87
Alignment explanation
Indices: 18731921--18732088 Score: 282
Period size: 88 Copynumber: 1.9 Consensus size: 87
18731911 TGGAAAATTT
*
18731921 GGGGGTAAAATGGTGATTTTGGTGAAATCGAGGTTAAAATAGAATTTTGGAAAGTTCGAGGGTAA
1 GGGGGTAAAATGGTAATTTTGGTGAAATCGAGGTTAAAATAGAATTTTGGAAAGTTCGAGGGTAA
18731986 AATGGTAATTTTTGGTGGAATC
66 AATGGTAATTTTTGGTGGAATC
* * * *
18732008 GGGGGTAAAATGGTAATTTTTGGTGGAATCGGGGTTAAAATGGAATTTTGGAAAGTTCGGGGGTA
1 GGGGGTAAAATGGTAA-TTTTGGTGAAATCGAGGTTAAAATAGAATTTTGGAAAGTTCGAGGGTA
18732073 AAATGGTAATTTTTGG
65 AAATGGTAATTTTTGG
18732089 ATAGTCCAGG
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
87 15 0.20
88 60 0.80
ACGTcount: A:0.30, C:0.03, G:0.34, T:0.33
Consensus pattern (87 bp):
GGGGGTAAAATGGTAATTTTGGTGAAATCGAGGTTAAAATAGAATTTTGGAAAGTTCGAGGGTAA
AATGGTAATTTTTGGTGGAATC
Found at i:18732089 original size:30 final size:28
Alignment explanation
Indices: 18731822--18732089 Score: 165
Period size: 30 Copynumber: 9.2 Consensus size: 28
18731812 AAAACGGGAC
* *
18731822 TTTTGGATACTCGGGGGTAAAATCGTAA-
1 TTTTGGA-AATCGGGGGTAAAATGGTAAT
** * *
18731850 TTTTGGACTTGCAGGGGCAAAATGGTAAT
1 TTTTGGAAAT-CGGGGGTAAAATGGTAAT
* *
18731879 TTTTGGTGAAATC-GAGGTCGAAAATGG--AG
1 TTTT-G-GAAATCGGGGGT--AAAATGGTAAT
* *
18731908 TTTTGGAAAATTTGGGGGTAAAATGGTGAT
1 TTTTGG-AAA-TCGGGGGTAAAATGGTAAT
* * * *
18731938 TTTGGTGAAATCGAGGTTAAAATAG-AA-
1 TTTTG-GAAATCGGGGGTAAAATGGTAAT
*
18731965 TTTTGGAAAGTTCGAGGGTAAAATGGTAAT
1 TTTTGGAAA--TCGGGGGTAAAATGGTAAT
*
18731995 TTTTGGTGGAATCGGGGGTAAAATGGTAAT
1 TTTT-G-GAAATCGGGGGTAAAATGGTAAT
* *
18732025 TTTTGGTGGAATCGGGGTTAAAATGG-AA-
1 TTTT-G-GAAATCGGGGGTAAAATGGTAAT
18732053 TTTTGGAAAGTTCGGGGGTAAAATGGTAAT
1 TTTTGGAAA--TCGGGGGTAAAATGGTAAT
18732083 TTTTGGA
1 TTTTGGA
18732090 TAGTCCAGGG
Statistics
Matches: 191, Mismatches: 27, Indels: 42
0.73 0.10 0.16
Matches are distributed among these distances:
26 7 0.04
27 7 0.04
28 64 0.34
29 30 0.16
30 68 0.36
31 12 0.06
32 3 0.02
ACGTcount: A:0.30, C:0.05, G:0.32, T:0.33
Consensus pattern (28 bp):
TTTTGGAAATCGGGGGTAAAATGGTAAT
Found at i:18732352 original size:162 final size:162
Alignment explanation
Indices: 18732159--18732658 Score: 793
Period size: 162 Copynumber: 3.1 Consensus size: 162
18732149 AGTATCCAGA
** * * * *
18732159 AGTCAAAGGACGAATTTGTAAATCATGAAAAATTCTCGGGCCAATTTTGTAATTAAGCCGAAGTT
1 AGTCAAAGGATTAATTTATAAATCTTGAAAAATTCTTGGGCCAATTTTGTAATTAAGCAGAAGTT
*
18732224 GATTTGAAGATTAAATTAAAACAAATTAAAAATGACAGGGACTAGATACAGAAATAAACCAAAAA
66 GATTTGAAGATTAAATTAAAACAAATTAAAAATGACAGGGACTAGATACATAAATAAACCAAAAA
*
18732289 GTGACACGTGGCGGCCTCTGGTGCAGTCAAAC
131 GTGACACGTGGCAGCCTCTGGTGCAGTCAAAC
*
18732321 AGTCAAAGGATTAATTTATAAATCTTGAAAAATTCTTGGGCTAATTTTGTAATTAAGCAGAAGTT
1 AGTCAAAGGATTAATTTATAAATCTTGAAAAATTCTTGGGCCAATTTTGTAATTAAGCAGAAGTT
* *
18732386 GGTTTGAAGATTAATTTAAAACAAATTAAAAATGACAGGGACTAGATACATAAATAAACCAAAAA
66 GATTTGAAGATTAAATTAAAACAAATTAAAAATGACAGGGACTAGATACATAAATAAACCAAAAA
18732451 GTGACACGTGGCAGCCTCTGGTGCAGTCAAAC
131 GTGACACGTGGCAGCCTCTGGTGCAGTCAAAC
*
18732483 AGTCAAAGGATTAATTTATAAATCTTGAAAAATTCTTGGGCCAATTTTGTAATTAAACAGAAGTT
1 AGTCAAAGGATTAATTTATAAATCTTGAAAAATTCTTGGGCCAATTTTGTAATTAAGCAGAAGTT
* * * * * * * *
18732548 GATTTGAGGATTAAATTAAAACAAATTAAGAATAAAAAGGACTAAATGCATTAATAAACCAAAAA
66 GATTTGAAGATTAAATTAAAACAAATTAAAAATGACAGGGACTAGATACATAAATAAACCAAAAA
* * *
18732613 GTGACACGTGGCAGCCTCCGATGCAGTCCAAC
131 GTGACACGTGGCAGCCTCTGGTGCAGTCAAAC
18732645 AGTCAAAGGATTAA
1 AGTCAAAGGATTAA
18732659 ATTAAAAACC
Statistics
Matches: 312, Mismatches: 26, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
162 312 1.00
ACGTcount: A:0.42, C:0.13, G:0.19, T:0.26
Consensus pattern (162 bp):
AGTCAAAGGATTAATTTATAAATCTTGAAAAATTCTTGGGCCAATTTTGTAATTAAGCAGAAGTT
GATTTGAAGATTAAATTAAAACAAATTAAAAATGACAGGGACTAGATACATAAATAAACCAAAAA
GTGACACGTGGCAGCCTCTGGTGCAGTCAAAC
Found at i:18734243 original size:17 final size:16
Alignment explanation
Indices: 18734217--18734294 Score: 79
Period size: 17 Copynumber: 4.8 Consensus size: 16
18734207 AATTTAATTT
18734217 ATAAATTTAAATTTATA
1 ATAAA-TTAAATTTATA
*
18734234 ATAAACTTAAATTTTTA
1 ATAAA-TTAAATTTATA
*
18734251 AGTAAATTTAAATTTAAA
1 A-TAAA-TTAAATTTATA
*
18734269 ATAAATTTAATTT-TA
1 ATAAATTAAATTTATA
18734284 A-AAATTAAATT
1 ATAAATTAAATT
18734295 ATCTCATTGG
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
14 9 0.17
15 2 0.04
16 7 0.13
17 20 0.38
18 14 0.27
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (16 bp):
ATAAATTAAATTTATA
Found at i:18747303 original size:25 final size:25
Alignment explanation
Indices: 18747273--18747326 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
18747263 AAAATCTGTT
18747273 TTATATTAATATTAAAGA-TAAATAA
1 TTATATTAATATTAAAGATTAAAT-A
*
18747298 TTATATTAATATTAAATATTAAATA
1 TTATATTAATATTAAAGATTAAATA
18747323 TTAT
1 TTAT
18747327 TTTTGACCAC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 22 0.81
26 5 0.19
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (25 bp):
TTATATTAATATTAAAGATTAAATA
Found at i:18749269 original size:36 final size:36
Alignment explanation
Indices: 18749229--18749305 Score: 127
Period size: 36 Copynumber: 2.1 Consensus size: 36
18749219 TGATGACTAT
*
18749229 TGTGAAAGAGAATATGTGGGTATGTTCTTCACGCCA
1 TGTGAAAGAAAATATGTGGGTATGTTCTTCACGCCA
* *
18749265 TGTGATAGAAAATATGTGGGTATGTTCTTCATGCCA
1 TGTGAAAGAAAATATGTGGGTATGTTCTTCACGCCA
18749301 TGTGA
1 TGTGA
18749306 CTGATTATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.34
Consensus pattern (36 bp):
TGTGAAAGAAAATATGTGGGTATGTTCTTCACGCCA
Found at i:18758027 original size:40 final size:40
Alignment explanation
Indices: 18757966--18758085 Score: 143
Period size: 40 Copynumber: 3.0 Consensus size: 40
18757956 GGCGTTTGGA
** *
18757966 TAAA-AAACGCCGTAAAAGGTAAATCAATAGCGGCGTTTT
1 TAAATAAACGCCACAAAAGGTAAAGCAATAGCGGCGTTTT
** * * *
18758005 TTGATAAACTCCACAAAAGGTAAAGCAATAGCTGCATTTT
1 TAAATAAACGCCACAAAAGGTAAAGCAATAGCGGCGTTTT
* *
18758045 TAAATAAACGCCGCAAAAGGTAAAGCAATAGCGGCGCTTT
1 TAAATAAACGCCACAAAAGGTAAAGCAATAGCGGCGTTTT
18758085 T
1 T
18758086 CCACAAGCAC
Statistics
Matches: 65, Mismatches: 15, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
39 2 0.03
40 63 0.97
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.23
Consensus pattern (40 bp):
TAAATAAACGCCACAAAAGGTAAAGCAATAGCGGCGTTTT
Found at i:18758119 original size:41 final size:41
Alignment explanation
Indices: 18758060--18758206 Score: 170
Period size: 41 Copynumber: 3.6 Consensus size: 41
18758050 AAACGCCGCA
* * * *
18758060 AAAGGT-AAAGCAATAGCGGCGCTTTTCCACAAGCACTGCT
1 AAAGGTCAAGGCATTAGCGGCGCTTTCCCACAAGCGCTGCT
* * * *
18758100 AAAGGTCAAGCCATTAGCGGCGCTTTCCCAAAAACGCCGCT
1 AAAGGTCAAGGCATTAGCGGCGCTTTCCCACAAGCGCTGCT
* * *
18758141 AAAAGTCAGGGCATTAGCGGCACTTTCCCACAAGCGCTGCT
1 AAAGGTCAAGGCATTAGCGGCGCTTTCCCACAAGCGCTGCT
* *
18758182 AAAGGTCAGGGCATTCGCGGCGCTT
1 AAAGGTCAAGGCATTAGCGGCGCTT
18758207 CCTCATAAAC
Statistics
Matches: 88, Mismatches: 18, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
40 6 0.07
41 82 0.93
ACGTcount: A:0.28, C:0.28, G:0.25, T:0.19
Consensus pattern (41 bp):
AAAGGTCAAGGCATTAGCGGCGCTTTCCCACAAGCGCTGCT
Found at i:18758172 original size:82 final size:82
Alignment explanation
Indices: 18758073--18758224 Score: 225
Period size: 82 Copynumber: 1.9 Consensus size: 82
18758063 GGTAAAGCAA
* *
18758073 TAGCGGCGCTTTTCCACAAGCACTGCTAAAGGTCAAGCCATTAGCGGCGCTTTCC-CAAAAACGC
1 TAGCGGCACTTTCCCACAAGCACTGCTAAAGGTCAAGCCATTAGCGGCGC-TTCCTCAAAAACGC
18758137 CGCTAAAAGTCAGGGCAT
65 CGCTAAAAGTCAGGGCAT
* * * * *
18758155 TAGCGGCACTTTCCCACAAGCGCTGCTAAAGGTCAGGGCATTCGCGGCGCTTCCTCATAAACGCC
1 TAGCGGCACTTTCCCACAAGCACTGCTAAAGGTCAAGCCATTAGCGGCGCTTCCTCAAAAACGCC
18758220 GCTAA
66 GCTAA
18758225 TGCTCTGACT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
81 4 0.06
82 58 0.94
ACGTcount: A:0.26, C:0.31, G:0.24, T:0.20
Consensus pattern (82 bp):
TAGCGGCACTTTCCCACAAGCACTGCTAAAGGTCAAGCCATTAGCGGCGCTTCCTCAAAAACGCC
GCTAAAAGTCAGGGCAT
Found at i:18758224 original size:41 final size:41
Alignment explanation
Indices: 18758050--18758224 Score: 165
Period size: 41 Copynumber: 4.3 Consensus size: 41
18758040 ATTTTTAAAT
* ** * * *
18758050 AAACGCCGCAAAAGGT-AAAGCAATAGCGGCGCTTTTCCAC
1 AAACGCCGCTAAAGGTCAGGGCATTAGCGGCGCTTTCCCAA
* * * * *
18758090 AAGCACTGCTAAAGGTCAAGCCATTAGCGGCGCTTTCCCAA
1 AAACGCCGCTAAAGGTCAGGGCATTAGCGGCGCTTTCCCAA
* * *
18758131 AAACGCCGCTAAAAGTCAGGGCATTAGCGGCACTTTCCCAC
1 AAACGCCGCTAAAGGTCAGGGCATTAGCGGCGCTTTCCCAA
* * * *
18758172 AAGCGCTGCTAAAGGTCAGGGCATTCGCGGCGC-TTCCTCAT
1 AAACGCCGCTAAAGGTCAGGGCATTAGCGGCGCTTTCC-CAA
18758213 AAACGCCGCTAA
1 AAACGCCGCTAA
18758225 TGCTCTGACT
Statistics
Matches: 108, Mismatches: 25, Indels: 3
0.79 0.18 0.02
Matches are distributed among these distances:
40 16 0.15
41 92 0.85
ACGTcount: A:0.29, C:0.30, G:0.23, T:0.18
Consensus pattern (41 bp):
AAACGCCGCTAAAGGTCAGGGCATTAGCGGCGCTTTCCCAA
Found at i:18758243 original size:41 final size:42
Alignment explanation
Indices: 18758198--18758308 Score: 118
Period size: 42 Copynumber: 2.7 Consensus size: 42
18758188 CAGGGCATTC
* * *
18758198 GCGGCGCTTCCTCAT-AAA-CGCCGCTAATGCTCTGACTTTTA
1 GCGGCG-TTCATCATAAAAGCGCCGCTAATGATCTGACCTTTA
* *
18758239 GCGGCGTTTATTATAAAAGCGCCGCTAATGATCTGACCTTTA
1 GCGGCGTTCATCATAAAAGCGCCGCTAATGATCTGACCTTTA
* ** *
18758281 GCGGCGTTTATTTTAAAAACGCCGCTAA
1 GCGGCGTTCATCATAAAAGCGCCGCTAA
18758309 AAGTTAAGCA
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
40 5 0.08
41 9 0.15
42 47 0.77
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (42 bp):
GCGGCGTTCATCATAAAAGCGCCGCTAATGATCTGACCTTTA
Found at i:18758265 original size:42 final size:42
Alignment explanation
Indices: 18758213--18758308 Score: 156
Period size: 42 Copynumber: 2.3 Consensus size: 42
18758203 GCTTCCTCAT
* *
18758213 AAACGCCGCTAATGCTCTGACTTTTAGCGGCGTTTATTATAA
1 AAACGCCGCTAATGATCTGACCTTTAGCGGCGTTTATTATAA
* *
18758255 AAGCGCCGCTAATGATCTGACCTTTAGCGGCGTTTATTTTAA
1 AAACGCCGCTAATGATCTGACCTTTAGCGGCGTTTATTATAA
18758297 AAACGCCGCTAA
1 AAACGCCGCTAA
18758309 AAGTTAAGCA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (42 bp):
AAACGCCGCTAATGATCTGACCTTTAGCGGCGTTTATTATAA
Found at i:18758856 original size:41 final size:40
Alignment explanation
Indices: 18758799--18759218 Score: 538
Period size: 41 Copynumber: 10.2 Consensus size: 40
18758789 GCATTCGCGG
* * * *
18758799 CGCTAAAGGTC-GGGTCATTAGCGGCGCTTTTCTATAAGCGC
1 CGCTAAAGGTCAGAG-CAATAGCGGCGCTTAT-GATAAGCGC
* * *
18758840 CGCTAAAGGTC-GGGTCATTAGCGGCGCTTATGAGCAAGCGC
1 CGCTAAAGGTCAGAG-CAATAGCGGCGCTTATGA-TAAGCGC
**
18758881 CGCTAAAGGTCAGAGCAATAGCGGCGCTTATGATCAAATGC
1 CGCTAAAGGTCAGAGCAATAGCGGCGCTTATGAT-AAGCGC
*
18758922 CGCTAAAGGTCAGAGCAATAGCGGCGCTTATGGTCAAGCGC
1 CGCTAAAGGTCAGAGCAATAGCGGCGCTTATGAT-AAGCGC
*
18758963 CGCTAAAGGTCAGAGCAATAGCGGCGCTTATGGAAAAGCGC
1 CGCTAAAGGTCAGAGCAATAGCGGCGCTTAT-GATAAGCGC
* *
18759004 CGCTAAAGGTCAGATCAATAGCGGGGCTTATGAGTAAGCGC
1 CGCTAAAGGTCAGAGCAATAGCGGCGCTTATGA-TAAGCGC
*
18759045 CGCTAAAGGTCAGAGCAATAGCGGCGCTTATGGAAAAGCGC
1 CGCTAAAGGTCAGAGCAATAGCGGCGCTTAT-GATAAGCGC
* *
18759086 CGCTAAAGGTCAGATCAATAGCGGGGCTTATGAGTAAGCGC
1 CGCTAAAGGTCAGAGCAATAGCGGCGCTTATGA-TAAGCGC
* * *
18759127 CGCTAAAGGTCAGAGCAATAGCGGCACTTATGGTCAAGCAC
1 CGCTAAAGGTCAGAGCAATAGCGGCGCTTATGAT-AAGCGC
*
18759168 CGCTAAAGGTCAGAGCAATAGCGGCGCTTATGAGCAAGCGC
1 CGCTAAAGGTCAGAGCAATAGCGGCGCTTATGA-TAAGCGC
18759209 CGCTAAAGGT
1 CGCTAAAGGT
18759219 TAAAGCAGAA
Statistics
Matches: 339, Mismatches: 31, Indels: 18
0.87 0.08 0.05
Matches are distributed among these distances:
40 6 0.02
41 328 0.97
42 5 0.01
ACGTcount: A:0.28, C:0.23, G:0.31, T:0.18
Consensus pattern (40 bp):
CGCTAAAGGTCAGAGCAATAGCGGCGCTTATGATAAGCGC
Done.