Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008361.1 Hibiscus syriacus cultivar Beakdansim tig00111100_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1124086
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 4
Found at i:1063 original size:21 final size:21
Alignment explanation
Indices: 1016--1078 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
1006 AAAACAATCA
* *
1016 AGAGTCGAAGAGAAACTTGATC
1 AGAGTCGAAGAGAAACTCGA-G
*
1038 A-AGTCGTAGAGAAACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
* *
1058 AGAGTCGAAGATACACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
1079 GGCATAAGGG
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
20 1 0.03
21 32 0.94
22 1 0.03
ACGTcount: A:0.40, C:0.16, G:0.29, T:0.16
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTCGAG
Found at i:1154 original size:33 final size:33
Alignment explanation
Indices: 1112--1177 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
1102 AAATAGATGG
*
1112 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
1145 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
1178 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:2978 original size:19 final size:19
Alignment explanation
Indices: 2954--3002 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
2944 AATGTCGAGT
*
2954 TAATTTTGTTTAAGATTTA
1 TAATTTTGTATAAGATTTA
*
2973 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
2992 TATTTTTGTAT
1 TAATTTTGTAT
3003 GTGAATATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.29, C:0.02, G:0.10, T:0.59
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:3645 original size:199 final size:199
Alignment explanation
Indices: 3121--3762 Score: 1168
Period size: 199 Copynumber: 3.2 Consensus size: 199
3111 CAATATGGCC
* * *
3121 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCAATCCCAAAAACATCGAAA
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCG-AA
* *
3186 ACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAG
64 CCCAAAAGTATAATGTAATAAGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAG
3251 AGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGA
129 AGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGA
3315 ATTAAA
194 ATTAAA
3321 AACAAGGTGCACCCATAAA--GTCGATCC--ATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
3382 CAAAAGTATAATGTAATAAGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATAAGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
3447 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
3512 TAAA
196 TAAA
3516 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
3581 CAAAAGTATAATGTAATAAGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATAAGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
* *
3646 AATATGTCTAAATAATGTGTCCACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
3711 TAAA
196 TAAA
3715 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGAT
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGAT
3763 GATGATGAAG
Statistics
Matches: 430, Mismatches: 7, Indels: 11
0.96 0.02 0.02
Matches are distributed among these distances:
194 113 0.26
195 65 0.15
196 4 0.01
197 8 0.02
198 8 0.02
199 214 0.50
200 18 0.04
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (199 bp):
AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATAAGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
TAAA
Found at i:5562 original size:183 final size:184
Alignment explanation
Indices: 5246--5588 Score: 571
Period size: 183 Copynumber: 1.9 Consensus size: 184
5236 CTTTCAACAT
* *
5246 ATTATAATAAAATAGGTAAATTTGCAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATAAAATAGATAAATTTGCAATATAACCGGTATAAATATACCGGTCTTATGAGCGAATA
* * *
5311 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGATACTTTATGTCCAGATTGGAAGAAA
*
5376 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACCATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
** * * *
5430 ATTATAATGTAATAGATAATTTTGTAATATAACC-GTATAAATATACCGGTTTTATGAGCGAATA
1 ATTATAATAAAATAGATAAATTTGCAATATAACCGGTATAAATATACCGGTCTTATGAGCGAATA
*
5494 GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGATACTTTATGTCCAGATTGGAATAAA
66 GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGATACTTTATGTCCAGATTGGAAGAAA
5559 AATGTGTCGATACCATTTAAAAAAGTGTCG
131 AATGTGTCGATACCATTTAAAAAAGTGTCG
5589 GTAATTTGAA
Statistics
Matches: 147, Mismatches: 12, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
183 118 0.80
184 29 0.20
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (184 bp):
ATTATAATAAAATAGATAAATTTGCAATATAACCGGTATAAATATACCGGTCTTATGAGCGAATA
GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGATACTTTATGTCCAGATTGGAAGAAA
AATGTGTCGATACCATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
Found at i:8084 original size:25 final size:25
Alignment explanation
Indices: 8050--8114 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
8040 TTATCATTAA
8050 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
****
8075 ATTTAGGTATGTTTGTTAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
8100 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
8115 TCTTTTGAGT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:8455 original size:23 final size:23
Alignment explanation
Indices: 8426--8473 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
8416 AAATAGGTAA
*
8426 ATATAAGCGCTACCTATTATATT
1 ATATAAGCGCTACCTAGTATATT
*
8449 ATATAAGCGCTACCTAGTATGTT
1 ATATAAGCGCTACCTAGTATATT
8472 AT
1 AT
8474 TGTACTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (23 bp):
ATATAAGCGCTACCTAGTATATT
Found at i:15232 original size:110 final size:108
Alignment explanation
Indices: 15105--15326 Score: 317
Period size: 112 Copynumber: 2.0 Consensus size: 108
15095 TTATGAAACT
15105 ATGGGAATGCTCGGCGTCTTCAAGCAATT-GG-C-CT-GTGGGATATCTCGGCGTCTTCTGCATG
1 ATGGGAATGCTCGGCGTCTTCAAGCAATTGGGACTCTGGTGGGATATCTCGGCGTCTTCTGCA--
15166 CTACAAGGAATGCCAAGGTGGATCTCTCGGCGTCTTCACCTGTCGTCTG
64 -T---AGGAATGCCAAGGTGGATCTCTCGGCGTCTTCACCTGTCGTCTG
*
15215 ATGGGAATGCTCGGCGTCTTCAAGCAATTGGGATCTCTCGGAGTGGGATCTCTCGGCGTCTTCTG
1 ATGGGAATGCTCGGCGTCTTCAAGCAATTGGGA-CTCT--G-GTGGGATATCTCGGCGTCTTCTG
15280 CATAGGAATGCCAAGGTGGATCTCTCGGCGTCTTCACCTGTCGTCTG
62 CATAGGAATGCCAAGGTGGATCTCTCGGCGTCTTCACCTGTCGTCTG
15327 GCGGAATCTC
Statistics
Matches: 103, Mismatches: 1, Indels: 14
0.87 0.01 0.12
Matches are distributed among these distances:
110 29 0.28
111 2 0.02
112 44 0.43
113 1 0.01
114 2 0.02
115 1 0.01
118 24 0.23
ACGTcount: A:0.17, C:0.25, G:0.30, T:0.28
Consensus pattern (108 bp):
ATGGGAATGCTCGGCGTCTTCAAGCAATTGGGACTCTGGTGGGATATCTCGGCGTCTTCTGCATA
GGAATGCCAAGGTGGATCTCTCGGCGTCTTCACCTGTCGTCTG
Found at i:15613 original size:18 final size:18
Alignment explanation
Indices: 15590--15654 Score: 130
Period size: 18 Copynumber: 3.6 Consensus size: 18
15580 CTTTGTGTTC
15590 GAAGCGTGAGATTCGTCT
1 GAAGCGTGAGATTCGTCT
15608 GAAGCGTGAGATTCGTCT
1 GAAGCGTGAGATTCGTCT
15626 GAAGCGTGAGATTCGTCT
1 GAAGCGTGAGATTCGTCT
15644 GAAGCGTGAGA
1 GAAGCGTGAGA
15655 CTAATAATTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 47 1.00
ACGTcount: A:0.25, C:0.15, G:0.35, T:0.25
Consensus pattern (18 bp):
GAAGCGTGAGATTCGTCT
Found at i:19054 original size:8 final size:8
Alignment explanation
Indices: 19019--19541 Score: 370
Period size: 8 Copynumber: 68.9 Consensus size: 8
19009 AATTATTTAA
*
19019 ATTTAATT
1 ATTTAATG
19027 ACTTTAATG
1 A-TTTAATG
19036 ATTTAA--
1 ATTTAATG
*
19042 CTTTAATG
1 ATTTAATG
19050 ATTTAAT-
1 ATTTAATG
* *
19057 A-ATAATT
1 ATTTAATG
19064 ACTTTAATG
1 A-TTTAATG
19073 ATTTAA--
1 ATTTAATG
*
19079 CTTTAATG
1 ATTTAATG
19087 ATTTAAT-
1 ATTTAATG
* *
19094 A-ATAATT
1 ATTTAATG
19101 ACTTTAATG
1 A-TTTAATG
19110 ATTTAA--
1 ATTTAATG
*
19116 CTTTAATG
1 ATTTAATG
19124 ATTTAAT-
1 ATTTAATG
* *
19131 A-ATAATT
1 ATTTAATG
19138 ACTTTAATG
1 A-TTTAATG
19147 ATTTAATG
1 ATTTAATG
19155 ATTTAATG
1 ATTTAATG
19163 ATTTAAT-
1 ATTTAATG
* *
19170 A-ATAATT
1 ATTTAATG
19177 ATTTTAATG
1 A-TTTAATG
19186 ATTTAATG
1 ATTTAATG
19194 ATTTAATG
1 ATTTAATG
19202 ATTTAATG
1 ATTTAATG
19210 ATTTAAT-
1 ATTTAATG
* *
19217 A-ATAATT
1 ATTTAATG
19224 ACTTTAATG
1 A-TTTAATG
19233 ATTTAATG
1 ATTTAATG
19241 ATTTAATG
1 ATTTAATG
19249 ATTTAAT-
1 ATTTAATG
* *
19256 A-ATAATT
1 ATTTAATG
19263 ACTTTAATG
1 A-TTTAATG
19272 ATTTAATG
1 ATTTAATG
19280 ATTTAATG
1 ATTTAATG
19288 ATTTAATG
1 ATTTAATG
19296 ATTTAAT-
1 ATTTAATG
* *
19303 A-ATAATT
1 ATTTAATG
19310 ACTTTAATG
1 A-TTTAATG
19319 ATTTAA--
1 ATTTAATG
*
19325 CTTTAATG
1 ATTTAATG
19333 ATTTAATG
1 ATTTAATG
19341 ATTTAAT-
1 ATTTAATG
* *
19348 A-ATAATT
1 ATTTAATG
19355 ACTTTAATG
1 A-TTTAATG
19364 ATTTAA--
1 ATTTAATG
*
19370 CTTTAATG
1 ATTTAATG
19378 ATTTAAT-
1 ATTTAATG
* *
19385 A-ATAATT
1 ATTTAATG
19392 ACTTTAATG
1 A-TTTAATG
19401 ATTTAATG
1 ATTTAATG
19409 ATTTAATG
1 ATTTAATG
19417 ATTTAAT-
1 ATTTAATG
* *
19424 A-ATAATT
1 ATTTAATG
19431 ATTTTAATG
1 A-TTTAATG
19440 ATTTAATG
1 ATTTAATG
19448 ATTTAATG
1 ATTTAATG
19456 ATTTAAT-
1 ATTTAATG
* *
19463 A-ATAATT
1 ATTTAATG
19470 ACTTTAATG
1 A-TTTAATG
19479 ATTTAAT-
1 ATTTAATG
*
19486 -TTTAATA
1 ATTTAATG
19493 ATTTAAT-
1 ATTTAATG
* *
19500 A-ATAATT
1 ATTTAATG
*
19507 ACTTAAT-
1 ATTTAATG
19514 -TTTAATG
1 ATTTAATG
19521 ATTTAAT-
1 ATTTAATG
19528 -TTTAATG
1 ATTTAATG
19535 ATTTAAT
1 ATTTAAT
19542 AATAATTACT
Statistics
Matches: 416, Mismatches: 47, Indels: 104
0.73 0.08 0.18
Matches are distributed among these distances:
6 90 0.22
7 24 0.06
8 240 0.58
9 62 0.15
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.50
Consensus pattern (8 bp):
ATTTAATG
Found at i:19171 original size:39 final size:38
Alignment explanation
Indices: 19022--19587 Score: 651
Period size: 37 Copynumber: 14.1 Consensus size: 38
19012 TATTTAAATT
*
19022 TAATTACTTTAATGATTTAA-CTTTAATGATTTAATAA
1 TAATTACTTTAATGATTTAATATTTAATGATTTAATAA
*
19059 TAATTACTTTAATGATTTAA-CTTTAATGATTTAATAA
1 TAATTACTTTAATGATTTAATATTTAATGATTTAATAA
*
19096 TAATTACTTTAATGATTTAA-CTTTAATGATTTAATAA
1 TAATTACTTTAATGATTTAATATTTAATGATTTAATAA
19133 TAATTACTTTAATGATTTAATGATTTAATGATTTAATAA
1 TAATTACTTTAATGATTTAAT-ATTTAATGATTTAATAA
*
19172 TAATTATTTTAATGATTTAATGATTTAATGATTTAATGATTTAATAA
1 T-A--A--TT-A--CTTTAATGATTTAAT-ATTTAATGATTTAATAA
19219 TAATTACTTTAATGATTTAATGATTTAATGATTTAATAA
1 TAATTACTTTAATGATTTAAT-ATTTAATGATTTAATAA
19258 TAATTACTTTAATGATTTAATGATTTAATGATTTAATGATTTAATAA
1 TAATTAC--------TTTAATGATTTAAT-ATTTAATGATTTAATAA
19305 TAATTACTTTAATGATTTAACTTTAATGATTTAATGATTTAATAA
1 TAATTACTTTAATG-----A-TTTAAT-ATTTAATGATTTAATAA
*
19350 TAATTACTTTAATGATTTAA-CTTTAATGATTTAATAA
1 TAATTACTTTAATGATTTAATATTTAATGATTTAATAA
19387 TAATTACTTTAATGATTTAATGATTTAATGATTTAATAA
1 TAATTACTTTAATGATTTAAT-ATTTAATGATTTAATAA
*
19426 TAATTATTTTAATGATTTAATGATTTAATGATTTAATAA
1 TAATTACTTTAATGATTTAAT-ATTTAATGATTTAATAA
*
19465 TAATTACTTTAATGATTTAAT-TTTAATAATTTAATAA
1 TAATTACTTTAATGATTTAATATTTAATGATTTAATAA
19502 TAATTACTTAATTTTAATGATTTAAT-TTTAATGATTTAATAA
1 TAATTAC-----TTTAATGATTTAATATTTAATGATTTAATAA
* *
19544 TAATTACTTGACTTTAATGATTT-ATATTTACTGATATAATAA
1 T-A--A-TT-ACTTTAATGATTTAATATTTAATGATTTAATAA
19586 TA
1 TA
19588 GTAAATATAT
Statistics
Matches: 481, Mismatches: 11, Indels: 70
0.86 0.02 0.12
Matches are distributed among these distances:
37 152 0.32
39 142 0.30
40 2 0.00
41 4 0.01
42 59 0.12
43 1 0.00
44 4 0.01
45 40 0.08
46 3 0.01
47 74 0.15
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.49
Consensus pattern (38 bp):
TAATTACTTTAATGATTTAATATTTAATGATTTAATAA
Found at i:19193 original size:47 final size:46
Alignment explanation
Indices: 19140--19462 Score: 387
Period size: 47 Copynumber: 7.3 Consensus size: 46
19130 TAATAATTAC
19140 TTTAATGATTTAATGATTTAATGATTTAATAATAATTATTTTAATGA
1 TTTAATGATTTAATGATTTAATGATTTAATAATAATTA-TTTAATGA
*
19187 TTTAATGATTTAATGATTTAATGATTTAATAAT-A--A-TT-A--C
1 TTTAATGATTTAATGATTTAATGATTTAATAATAATTATTTAATGA
19226 TTTAATGATTTAATGATTTAATGATTTAATAATAATTACTTTAATGA
1 TTTAATGATTTAATGATTTAATGATTTAATAATAATTA-TTTAATGA
19273 TTTAATGATTTAATGATTTAATGATTTAATAATAATTACTTTAATGA
1 TTTAATGATTTAATGATTTAATGATTTAATAATAATTA-TTTAATGA
* *
19320 TTTAA--CTTTAATGATTTAATGATTTAATAAT-A--A-TT-A--C
1 TTTAATGATTTAATGATTTAATGATTTAATAATAATTATTTAATGA
*
19357 TTTAATGATTTAA--CTTTAATGATTTAATAATAATTACTTTAATGA
1 TTTAATGATTTAATGATTTAATGATTTAATAATAATTA-TTTAATGA
* ** *
19402 TTTAATGATTTAATGATTTAATAATAATT-ATTTTAATGATTTAATGA
1 TTTAATGATTTAATGATTTAATGAT--TTAATAATAATTATTTAATGA
19449 TTTAATGATTTAAT
1 TTTAATGATTTAAT
19463 AATAATTACT
Statistics
Matches: 242, Mismatches: 12, Indels: 44
0.81 0.04 0.15
Matches are distributed among these distances:
37 22 0.09
38 1 0.00
39 39 0.16
40 4 0.02
41 1 0.00
42 6 0.02
43 1 0.00
44 4 0.02
45 39 0.16
46 1 0.00
47 115 0.48
48 7 0.03
49 2 0.01
ACGTcount: A:0.40, C:0.02, G:0.08, T:0.50
Consensus pattern (46 bp):
TTTAATGATTTAATGATTTAATGATTTAATAATAATTATTTAATGA
Found at i:19437 original size:31 final size:30
Alignment explanation
Indices: 19151--19549 Score: 220
Period size: 31 Copynumber: 12.9 Consensus size: 30
19141 TTAATGATTT
19151 AATGATTTAATGATTTAATAATAATTATTTT
1 AATGATTTAATGATTTAATAATAATTA-TTT
*
19182 AATGATTTAATGA--T--T--TAATGATTT
1 AATGATTTAATGATTTAATAATAATTATTT
* * * *
19206 AATGATTTAATAATAATTACT-TTAATGATTT
1 AATGATTTAATGAT--TTAATAATAATTATTT
19237 AATGATTTAATGATTTAATAATAATTACTTT
1 AATGATTTAATGATTTAATAATAATTA-TTT
* *
19268 AATGATTTAATGATTTAATGATTTAATGATTT
1 AATGATTTAATGATTTAAT-A-ATAATTATTT
* * *
19300 AAT-A-ATAATTACTTTAATGAT--TTAACTTT
1 AATGATTTAATGA-TTTAATAATAATT-A-TTT
19329 AATGATTTAATGATTTAATAATAATTACTTT
1 AATGATTTAATGATTTAATAATAATTA-TTT
19360 AATGATTTAACTTTAATGATTTAATAATAATTACTTTAATGATTT
1 AATG-----A-TTTAATGATTTAATAAT-A--A---T--T-ATTT
19405 AATGATTTAATGATTTAATAATAATTATTTT
1 AATGATTTAATGATTTAATAATAATTA-TTT
* *
19436 AATGATTTAATGATTTAATGAT--TTAATAAT
1 AATGATTTAATGATTTAATAATAATT-AT-TT
* ** *
19466 AATTACTTTAATGATTTAATTTTAATAATTT
1 AATGA-TTTAATGATTTAATAATAATTATTT
* * * ** *
19497 AAT-A-ATAATTACTTAATTTTAATGATTT
1 AATGATTTAATGATTTAATAATAATTATTT
19525 AAT--TTTAATGATTTAATAATAATTA
1 AATGATTTAATGATTTAATAATAATTA
19550 CTTGACTTTA
Statistics
Matches: 295, Mismatches: 33, Indels: 83
0.72 0.08 0.20
Matches are distributed among these distances:
24 15 0.05
25 5 0.02
27 2 0.01
28 40 0.14
29 15 0.05
30 28 0.09
31 122 0.41
32 11 0.04
33 7 0.02
36 2 0.01
37 17 0.06
38 2 0.01
39 17 0.06
40 2 0.01
43 1 0.00
45 8 0.03
46 1 0.00
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (30 bp):
AATGATTTAATGATTTAATAATAATTATTT
Found at i:19485 original size:47 final size:47
Alignment explanation
Indices: 19103--19462 Score: 409
Period size: 39 Copynumber: 8.5 Consensus size: 47
19093 TAATAATTAC
*
19103 TTTAATGATTTAA--CTTTAATGATTTAATAATAATTACTTTAATG-
1 TTTAATGATTTAATGATTTAATGATTTAATAATAATTACTTTAATGA
*
19147 -------ATTTAATGATTTAATGATTTAATAATAATTATTTTAATGA
1 TTTAATGATTTAATGATTTAATGATTTAATAATAATTACTTTAATGA
19187 TTTAATGATTTAATGATTTAATGATTTAATAATAATTAC--------
1 TTTAATGATTTAATGATTTAATGATTTAATAATAATTACTTTAATGA
19226 TTTAATGATTTAATGATTTAATGATTTAATAATAATTACTTTAATGA
1 TTTAATGATTTAATGATTTAATGATTTAATAATAATTACTTTAATGA
19273 TTTAATGATTTAATGATTTAATGATTTAATAATAATTACTTTAATGA
1 TTTAATGATTTAATGATTTAATGATTTAATAATAATTACTTTAATGA
*
19320 TTTAA--CTTTAATGATTTAATGATTTAATAATAATTAC--------
1 TTTAATGATTTAATGATTTAATGATTTAATAATAATTACTTTAATGA
*
19357 TTTAATGATTTAA--CTTTAATGATTTAATAATAATTACTTTAATGA
1 TTTAATGATTTAATGATTTAATGATTTAATAATAATTACTTTAATGA
*
19402 -TT--T-----AATGATTTAATGATTTAATAATAATTATTTTAATGA
1 TTTAATGATTTAATGATTTAATGATTTAATAATAATTACTTTAATGA
19441 TTTAATGATTTAATGATTTAAT
1 TTTAATGATTTAATGATTTAAT
19463 AATAATTACT
Statistics
Matches: 270, Mismatches: 8, Indels: 73
0.77 0.02 0.21
Matches are distributed among these distances:
37 36 0.13
39 103 0.38
40 2 0.01
42 2 0.01
44 2 0.01
45 31 0.11
47 94 0.35
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.50
Consensus pattern (47 bp):
TTTAATGATTTAATGATTTAATGATTTAATAATAATTACTTTAATGA
Found at i:19491 original size:23 final size:22
Alignment explanation
Indices: 19080--19541 Score: 273
Period size: 23 Copynumber: 20.3 Consensus size: 22
19070 ATGATTTAAC
**
19080 TTTAATGATTTAATAATAATTA
1 TTTAATGATTTAATTTTAATTA
* *
19102 CTTTAATGATTTAACTTTAATGA
1 -TTTAATGATTTAATTTTAATTA
* * *
19125 TTTAATAATAATT-ACTTTAATGA
1 TTTAATGAT--TTAATTTTAATTA
19148 TTTAATGATTTAATGATTTAA-TA
1 TTTAATGATTTAAT--TTTAATTA
* * *
19171 -ATAATTATTTTAATGATTTAATGA
1 TTTAATGA-TTTAAT--TTTAATTA
19195 TTTAATGATTTAATGATTTAA-TA
1 TTTAATGATTTAAT--TTTAATTA
* * *
19218 -ATAATTACTTTAATGATTTAATGA
1 TTTAATGA-TTTAAT--TTTAATTA
**
19242 TTTAATGATTTAATAATAATTA
1 TTTAATGATTTAATTTTAATTA
*
19264 CTTTAATGATTTAATGATTTAATGA
1 -TTTAATGATTTAAT--TTTAATTA
**
19289 TTTAATGATTTAATAATAATTA
1 TTTAATGATTTAATTTTAATTA
* *
19311 CTTTAATGATTTAACTTTAATGA
1 -TTTAATGATTTAATTTTAATTA
**
19334 TTTAATGATTTAATAATAATTA
1 TTTAATGATTTAATTTTAATTA
* *
19356 CTTTAATGATTTAACTTTAATGA
1 -TTTAATGATTTAATTTTAATTA
* * *
19379 TTTAATAATAATT-ACTTTAATGA
1 TTTAATGAT--TTAATTTTAATTA
19402 TTTAATGATTTAATGATTTAA-TA
1 TTTAATGATTTAAT--TTTAATTA
* * *
19425 -ATAATTATTTTAATGATTTAATGA
1 TTTAATGA-TTTAAT--TTTAATTA
**
19449 TTTAATGATTTAATAATAATTA
1 TTTAATGATTTAATTTTAATTA
*
19471 CTTTAATGATTTAATTTTAATAA
1 -TTTAATGATTTAATTTTAATTA
*
19494 TTTAAT-A-ATAATTACTTAA-T-
1 TTTAATGATTTAATT--TTAATTA
*
19514 TTTAATGATTTAATTTTAATGA
1 TTTAATGATTTAATTTTAATTA
19536 TTTAAT
1 TTTAAT
19542 AATAATTACT
Statistics
Matches: 349, Mismatches: 59, Indels: 63
0.74 0.13 0.13
Matches are distributed among these distances:
20 15 0.04
21 6 0.02
22 87 0.25
23 165 0.47
24 56 0.16
25 20 0.06
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.50
Consensus pattern (22 bp):
TTTAATGATTTAATTTTAATTA
Found at i:19583 original size:115 final size:113
Alignment explanation
Indices: 19273--19567 Score: 382
Period size: 115 Copynumber: 2.5 Consensus size: 113
19263 ACTTTAATGA
*
19273 TTTAATGATTTAATGATTTAATGATTTAATAATAATTACTTTAATGATTTAACTTTAATGATTTA
1 TTTAATGATTTAAT-ATTTAATGATTTAATAATAATTA-TCT-ATG-----ACTTTAATGATTTA
*
19338 ATGATTTAATAATAATTACTTTAATGATTTAACTTTAATGATTTAATAATAATTAC
58 ATGATTTAATAATAATTACTTTAATGATTTAACTTTAATAATTTAATAATAATTAC
*
19394 TTTAATGATTTAATGATTTAATGATTTAATAATAATTATTTTAATGA-TTTAATGATTTAATGAT
1 TTTAATGATTTAAT-ATTTAATGATTTAATAATAATTA-TCT-ATGACTTTAATGATTTAATGAT
*
19458 TTAATAATAATTACTTTAATGATTTAATTTTAATAATTTAATAATAATTAC
63 TTAATAATAATTACTTTAATGATTTAACTTTAATAATTTAATAATAATTAC
19509 TTAATTTTAATGATTTAAT-TTTAATGATTTAATAATAATTA-CT-TGACTTTAATGATTTA
1 -----TTTAATGATTTAATATTTAATGATTTAATAATAATTATCTATGACTTTAATGATTTA
19568 TATTTACTGA
Statistics
Matches: 164, Mismatches: 4, Indels: 18
0.88 0.02 0.10
Matches are distributed among these distances:
114 3 0.02
115 78 0.48
116 2 0.01
118 22 0.13
120 14 0.09
121 45 0.27
ACGTcount: A:0.40, C:0.03, G:0.06, T:0.50
Consensus pattern (113 bp):
TTTAATGATTTAATATTTAATGATTTAATAATAATTATCTATGACTTTAATGATTTAATGATTTA
ATAATAATTACTTTAATGATTTAACTTTAATAATTTAATAATAATTAC
Found at i:21640 original size:172 final size:173
Alignment explanation
Indices: 21345--21703 Score: 569
Period size: 172 Copynumber: 2.1 Consensus size: 173
21335 CATCAAATAT
*
21345 AAAATGATCCCTAATTACTATTTGCTTCTCAACATTTTCAAACTTTGCAATTTAATCACTAAATT
1 AAAATGATCCCTAATTACTATTTGCTTCTCAACATTTTCAAACTTAGCAATTTAATCACTAAATT
*
21410 TATAAATTCTTTCAAATTTAACCAATTAAGCATATTAATACTAAATTCAAGCATAGTATACCAAC
66 TATAAATTCTTTCAAATTTAACCAATTAAGCATACTAATACTAAATTCAAGCATAGTATACCAAC
* * *
21475 TTTTTATAATTTACTCTAATTTCTTAAATTCCTCAAATTTTGC
131 TTTTAATAATTTACTCTAATTCCTTAAATTCCTCAAATTTTAC
* * *
21518 AAAACGATCCCTAATTACTATTTGGTTCTCAACATTTTCAAAGTTAGCAATTTAATC-CATAAAT
1 AAAATGATCCCTAATTACTATTTGCTTCTCAACATTTTCAAACTTAGCAATTTAATCAC-TAAAT
* * *
21582 TT-TAAATTCTTTCTAATTTAACCAATTAAGCATACTAATACTAAATTCCAGCATAGTATAGCAA
65 TTATAAATTCTTTCAAATTTAACCAATTAAGCATACTAATACTAAATTCAAGCATAGTATACCAA
* *
21646 CTTTTAATAATTTACTCTTATTCCTTAAATTCCTTAAATTTTAC
130 CTTTTAATAATTTACTCTAATTCCTTAAATTCCTCAAATTTTAC
*
21690 AAAATGGTCCCTAA
1 AAAATGATCCCTAA
21704 AACTTTACAA
Statistics
Matches: 170, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
172 110 0.65
173 60 0.35
ACGTcount: A:0.37, C:0.18, G:0.05, T:0.40
Consensus pattern (173 bp):
AAAATGATCCCTAATTACTATTTGCTTCTCAACATTTTCAAACTTAGCAATTTAATCACTAAATT
TATAAATTCTTTCAAATTTAACCAATTAAGCATACTAATACTAAATTCAAGCATAGTATACCAAC
TTTTAATAATTTACTCTAATTCCTTAAATTCCTCAAATTTTAC
Found at i:22182 original size:23 final size:23
Alignment explanation
Indices: 22156--22199 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
22146 AGTTGCATGC
22156 CCCCCACATGCAGACGTGCAGGA
1 CCCCCACATGCAGACGTGCAGGA
22179 CCCCCACATGCAGACGTGCAG
1 CCCCCACATGCAGACGTGCAG
22200 CCTTGCAGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.25, C:0.41, G:0.25, T:0.09
Consensus pattern (23 bp):
CCCCCACATGCAGACGTGCAGGA
Found at i:22244 original size:22 final size:22
Alignment explanation
Indices: 22216--22269 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
22206 AGGACCCAGG
22216 ACCCGTGATTTCTCCTTGCAGA
1 ACCCGTGATTTCTCCTTGCAGA
* *
22238 ACCCGTGCTCTCTCCTTGCAGA
1 ACCCGTGATTTCTCCTTGCAGA
22260 ACCCGTGATT
1 ACCCGTGATT
22270 CCCATCAGAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.17, C:0.35, G:0.19, T:0.30
Consensus pattern (22 bp):
ACCCGTGATTTCTCCTTGCAGA
Found at i:27737 original size:21 final size:21
Alignment explanation
Indices: 27723--27848 Score: 125
Period size: 21 Copynumber: 6.0 Consensus size: 21
27713 TTGCAACGCA
* *
27723 AACTTCGACTATTGCAATGTG
1 AACTTCGACTATCGCAATGCG
*
27744 AACTTTGACTATCGCAATGCG
1 AACTTCGACTATCGCAATGCG
*
27765 AACTTGGACTATCGCAATGCG
1 AACTTCGACTATCGCAATGCG
*
27786 AA-TAT-GTA-AATCGCAATGCG
1 AACT-TCG-ACTATCGCAATGCG
*
27806 ATA-GTCGACTATCGCAATGCG
1 A-ACTTCGACTATCGCAATGCG
* *
27827 AACTTGGACTATCGCATTGCG
1 AACTTCGACTATCGCAATGCG
27848 A
1 A
27849 TTTACATATT
Statistics
Matches: 89, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
20 17 0.19
21 72 0.81
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.27
Consensus pattern (21 bp):
AACTTCGACTATCGCAATGCG
Found at i:27816 original size:62 final size:62
Alignment explanation
Indices: 27750--27873 Score: 191
Period size: 62 Copynumber: 2.0 Consensus size: 62
27740 TGTGAACTTT
27750 GACTATCGCAATGCGAACTTGGACTATCGCAATGCGAATATGTA-A-A-TCGCAATGCGATAGTC
1 GACTATCGCAATGCGAACTTGGACTATCGCAATGCG-AT-T-TACATATTCGCAATGCGATAGTC
*
27812 GACTATCGCAATGCGAACTTGGACTATCGCATTGCGATTTACATATTCGCAATGCGATAGTC
1 GACTATCGCAATGCGAACTTGGACTATCGCAATGCGATTTACATATTCGCAATGCGATAGTC
27874 CAAGTTCGCA
Statistics
Matches: 58, Mismatches: 1, Indels: 6
0.89 0.02 0.09
Matches are distributed among these distances:
59 2 0.03
60 2 0.03
61 3 0.05
62 51 0.88
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.27
Consensus pattern (62 bp):
GACTATCGCAATGCGAACTTGGACTATCGCAATGCGATTTACATATTCGCAATGCGATAGTC
Found at i:28688 original size:23 final size:22
Alignment explanation
Indices: 28651--28846 Score: 85
Period size: 21 Copynumber: 9.3 Consensus size: 22
28641 ATTTTGGACT
*
28651 ATCGCAA-CGAACTTGGAATAA
1 ATCGCAAGTGAACTTGGAATAA
*
28672 ATCGCAATGTGAACTTGGACT--
1 ATCGCAA-GTGAACTTGGAATAA
*
28693 ATCGCAA-TGAATTTGGAATAA
1 ATCGCAAGTGAACTTGGAATAA
* * * *
28714 ATTGCAACGCGAACTTCGACT--
1 ATCGCAA-GTGAACTTGGAATAA
* *
28735 ATCACAA-CGAACTTGGAATAA
1 ATCGCAAGTGAACTTGGAATAA
* ** *
28756 ATTGCAACGCAAACTTGGACT-A
1 ATCGCAA-GTGAACTTGGAATAA
* *
28778 A-CGCAA-CGAATTTGGAATAA
1 ATCGCAAGTGAACTTGGAATAA
* * *
28798 ATCGCAACGCGAACTTCGACT--
1 ATCGCAA-GTGAACTTGGAATAA
* *
28819 ATTGCAA-CGAACTTGGAATAA
1 ATCGCAAGTGAACTTGGAATAA
28840 ATCGCAA
1 ATCGCAA
28847 CGCGAAATTG
Statistics
Matches: 131, Mismatches: 28, Indels: 32
0.69 0.15 0.17
Matches are distributed among these distances:
19 39 0.30
20 2 0.02
21 51 0.39
22 2 0.02
23 37 0.28
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.22
Consensus pattern (22 bp):
ATCGCAAGTGAACTTGGAATAA
Found at i:28691 original size:42 final size:42
Alignment explanation
Indices: 28644--28867 Score: 322
Period size: 42 Copynumber: 5.3 Consensus size: 42
28634 CGTTGCGATT
* *
28644 TTGGACTATCGCAACGAACTTGGAATAAATCGCAATGTGAAC
1 TTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
* * *
28686 TTGGACTATCGCAATGAATTTGGAATAAATTGCAACGCGAAC
1 TTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
* * * *
28728 TTCGACTATCACAACGAACTTGGAATAAATTGCAACGCAAAC
1 TTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
* *
28770 TTGGACTAACGCAACGAATTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
* * *
28812 TTCGACTATTGCAACGAACTTGGAATAAATCGCAACGCGAAA
1 TTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
28854 TTGGACTATCGCAA
1 TTGGACTATCGCAA
28868 TGCGAATATG
Statistics
Matches: 159, Mismatches: 23, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 159 1.00
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.23
Consensus pattern (42 bp):
TTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
Found at i:28708 original size:19 final size:19
Alignment explanation
Indices: 28644--28709 Score: 69
Period size: 19 Copynumber: 3.3 Consensus size: 19
28634 CGTTGCGATT
*
28644 TTGGACTATCGCAACGAAC
1 TTGGACTATCGCAATGAAC
*
28663 TTGGAATAAATCGCAATGTGAAC
1 TTGGACT--ATCGCAA--TGAAC
*
28686 TTGGACTATCGCAATGAAT
1 TTGGACTATCGCAATGAAC
28705 TTGGA
1 TTGGA
28710 ATAAATTGCA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
19 15 0.38
21 14 0.36
23 10 0.26
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (19 bp):
TTGGACTATCGCAATGAAC
Found at i:28864 original size:21 final size:21
Alignment explanation
Indices: 28759--28873 Score: 69
Period size: 21 Copynumber: 5.5 Consensus size: 21
28749 GGAATAAATT
*
28759 GCAACGC-AAACTTGGACTAAC
1 GCAACGCGAAA-TTGGACTATC
* *
28780 GCAA--CGAATTTGGAATAAATC
1 GCAACGCGAAATTGGACT--ATC
* * *
28801 GCAACGCGAACTTCGACTATT
1 GCAACGCGAAATTGGACTATC
* *
28822 GCAA--CGAACTTGGAATAAATC
1 GCAACGCGAAATTGGACT--ATC
28843 GCAACGCGAAATTGGACTATC
1 GCAACGCGAAATTGGACTATC
*
28864 GCAATGCGAA
1 GCAACGCGAA
28874 TATGTAAATC
Statistics
Matches: 72, Mismatches: 13, Indels: 18
0.70 0.13 0.17
Matches are distributed among these distances:
19 17 0.24
20 2 0.03
21 34 0.47
23 19 0.26
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.19
Consensus pattern (21 bp):
GCAACGCGAAATTGGACTATC
Found at i:39454 original size:2 final size:2
Alignment explanation
Indices: 39447--39485 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
39437 ATCTTATCCC
39447 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
39486 TTGCTCATAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:41650 original size:5 final size:5
Alignment explanation
Indices: 41642--41667 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
41632 TATTATAAAT
41642 ATTAA ATTAA ATTAA ATTAA ATTAA A
1 ATTAA ATTAA ATTAA ATTAA ATTAA A
41668 CTATCCAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
ATTAA
Found at i:50053 original size:338 final size:342
Alignment explanation
Indices: 49619--50298 Score: 1188
Period size: 341 Copynumber: 2.0 Consensus size: 342
49609 ACTCGATAAA
* * * *
49619 TTTGTATTTTTGCATGAAATTACACAATACATATAATTTAGTATAGGAAAACTTTGAGGGTAAAT
1 TTTGTATTTTTGCATGAAATTAAACAATACATATAATCTAATATAGGAAAACTTTAAGGGTAAAT
* *
49684 ATTTTAAAATATGAATAATTTTATAAAAGTTTTATAACTAGTATTTCTTTTACAAAATGATGAT-
66 ATTTTAAAATATGAATAATTTTATAAAAGTTTTATAACCAATATTTCTTTTACAAAATGATGATA
49748 T-ATGATGATAATAAATATTTTATAATTTAAAAAATTATAAATTTCATATATTTTTGAAAAATTT
131 TGATGATGATAATAAATATTTTATAATTTAAAAAATTATAAATTTCATATATTTTTGAAAAATTT
* *
49812 ATTGACTTTTAAAATTAATTGTTTAAAAATATAAAAATTATTAAAATAAACTTTTAATTACAATT
196 ATTGAATTTTAAAATTAATTGTTTAAAAATATAAAAAATATTAAAATAAACTTTTAATTACAATT
* *
49877 GAGGGATCAAATGAATTATTATTCATTAATTATTA-TTTTTAACAACAGCTAATAATGTTTATTT
261 GAGGGATCAAATGAATTATTATTCATTAATTATTATTTTTTAACAACAACTAATAATGTTTATTC
49941 ATTTTTAATAAAATTAT
326 ATTTTTAATAAAATTAT
* *
49958 TTTG-ATTTTTGCATGAAATTAAACAATACGTATAATCTAATATAGGAAAACTTTAAGGGTAAGT
1 TTTGTATTTTTGCATGAAATTAAACAATACATATAATCTAATATAGGAAAACTTTAAGGGTAAAT
50022 ATTTTAAAATATGAATAATTTTATAAAAGTTTTATAACCAATATTTCTTTTACAAAATGATGATG
66 ATTTTAAAATATGAATAATTTTATAAAAGTTTTATAACCAATATTTCTTTTACAAAATGATGAT-
* *
50087 ATGATGATGATAATAAATATTTTATAATTTAAAATATTATAAATTTCATATATTTTTGAAAATTT
130 ATGATGATGATAATAAATATTTTATAATTTAAAAAATTATAAATTTCATATATTTTTGAAAAATT
50152 TATTGAATTTTAAAATTAATTGTTTAAAAATATAAAAAATATTAAAATAAACTTTTAATTACAAT
195 TATTGAATTTTAAAATTAATTGTTTAAAAATATAAAAAATATTAAAATAAACTTTTAATTACAAT
*
50217 TGAGGGATCAAATGAATTATTATTCATTAATTATTATTTTTTAACAACAATTAATAATGTTTATT
260 TGAGGGATCAAATGAATTATTATTCATTAATTATTATTTTTTAACAACAACTAATAATGTTTATT
50282 CATTTTTAATAAAATTA
325 CATTTTTAATAAAATTA
50299 GAATTTATTA
Statistics
Matches: 322, Mismatches: 15, Indels: 5
0.94 0.04 0.01
Matches are distributed among these distances:
338 116 0.36
339 4 0.01
340 1 0.00
341 159 0.49
342 42 0.13
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.44
Consensus pattern (342 bp):
TTTGTATTTTTGCATGAAATTAAACAATACATATAATCTAATATAGGAAAACTTTAAGGGTAAAT
ATTTTAAAATATGAATAATTTTATAAAAGTTTTATAACCAATATTTCTTTTACAAAATGATGATA
TGATGATGATAATAAATATTTTATAATTTAAAAAATTATAAATTTCATATATTTTTGAAAAATTT
ATTGAATTTTAAAATTAATTGTTTAAAAATATAAAAAATATTAAAATAAACTTTTAATTACAATT
GAGGGATCAAATGAATTATTATTCATTAATTATTATTTTTTAACAACAACTAATAATGTTTATTC
ATTTTTAATAAAATTAT
Found at i:50413 original size:21 final size:22
Alignment explanation
Indices: 50389--50449 Score: 65
Period size: 21 Copynumber: 2.9 Consensus size: 22
50379 CATACATTCT
50389 TTTTTATTGATTTTTATTAAC-
1 TTTTTATTGATTTTTATTAACA
* ** *
50410 TTTTAATTCCTTTTTATT-GCA
1 TTTTTATTGATTTTTATTAACA
50431 TTTTTATTGATTTTT-TTAA
1 TTTTTATTGATTTTTATTAA
50450 AAAAGTGAAT
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
20 3 0.10
21 27 0.90
ACGTcount: A:0.21, C:0.07, G:0.05, T:0.67
Consensus pattern (22 bp):
TTTTTATTGATTTTTATTAACA
Found at i:50446 original size:11 final size:10
Alignment explanation
Indices: 50389--50445 Score: 60
Period size: 10 Copynumber: 5.5 Consensus size: 10
50379 CATACATTCT
50389 TTTTTATTGA
1 TTTTTATTGA
*
50399 TTTTTATTAA
1 TTTTTATTGA
* **
50409 CTTTTAATTCC
1 -TTTTTATTGA
50420 TTTTTATTGCA
1 TTTTTATTG-A
50431 TTTTTATTGA
1 TTTTTATTGA
50441 TTTTT
1 TTTTT
50446 TTAAAAAAGT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
10 22 0.58
11 16 0.42
ACGTcount: A:0.19, C:0.07, G:0.05, T:0.68
Consensus pattern (10 bp):
TTTTTATTGA
Found at i:52920 original size:19 final size:21
Alignment explanation
Indices: 52896--52934 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
52886 ATTGTATGTA
52896 TTTATTAT-TTAT-TATTTAC
1 TTTATTATATTATATATTTAC
52915 TTTATTATATTATATATTTA
1 TTTATTATATTATATATTTA
52935 TAATTTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.44
20 4 0.22
21 6 0.33
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTATTATATTATATATTTAC
Found at i:73596 original size:2 final size:2
Alignment explanation
Indices: 73589--73644 Score: 85
Period size: 2 Copynumber: 28.0 Consensus size: 2
73579 CCTTTTTCCC
* *
73589 AT AT AT AT AT AT AT AT AT AC AT AT AT AT AC AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
73631 AT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT
73645 GAGATAAGGG
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (2 bp):
AT
Found at i:74932 original size:27 final size:27
Alignment explanation
Indices: 74876--74941 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
74866 TTTTAGTCAC
* * **
74876 AAATATTTAAAATATTTATTTTTATCT
1 AAATATTTAAAATATTTATATTAAAAT
74903 AAATATTTAAAATATTGT-TATTAAAAT
1 AAATATTTAAAATATT-TATATTAAAAT
74930 AAATATTTAAAA
1 AAATATTTAAAA
74942 ATAAATATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 33 0.97
28 1 0.03
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (27 bp):
AAATATTTAAAATATTTATATTAAAAT
Found at i:74942 original size:14 final size:14
Alignment explanation
Indices: 74925--74954 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
74915 TATTGTTATT
74925 AAAATAAATATTTA
1 AAAATAAATATTTA
74939 AAAATAAATATTTA
1 AAAATAAATATTTA
74953 AA
1 AA
74955 GCATATCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
AAAATAAATATTTA
Found at i:79759 original size:2 final size:2
Alignment explanation
Indices: 79754--79804 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
79744 TACAAATTCG
79754 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
79796 TA TA TA TA T
1 TA TA TA TA T
79805 GAAAAATATT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:87409 original size:26 final size:26
Alignment explanation
Indices: 87363--87413 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
87353 AGTTTGCGAG
*
87363 TTTAAAATTATTAAATTAAACTCGAA
1 TTTAAAATTATAAAATTAAACTCGAA
87389 TTTAAAATT-TAAAATTAAAACTCGA
1 TTTAAAATTATAAAATT-AAACTCGA
87414 CTCGAGTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 6 0.26
26 17 0.74
ACGTcount: A:0.51, C:0.08, G:0.04, T:0.37
Consensus pattern (26 bp):
TTTAAAATTATAAAATTAAACTCGAA
Found at i:92100 original size:15 final size:16
Alignment explanation
Indices: 92062--92104 Score: 70
Period size: 15 Copynumber: 2.8 Consensus size: 16
92052 ACAGAGCCTC
92062 TGAATCATTCAACATT
1 TGAATCATTCAACATT
92078 TGAATCATTCAAC-TT
1 TGAATCATTCAACATT
*
92093 TTAATCATTCAA
1 TGAATCATTCAA
92105 GTAAACAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
15 13 0.50
16 13 0.50
ACGTcount: A:0.37, C:0.19, G:0.05, T:0.40
Consensus pattern (16 bp):
TGAATCATTCAACATT
Found at i:99850 original size:15 final size:16
Alignment explanation
Indices: 99830--99862 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
99820 CAAAATACAA
99830 TATTCCCAG-TAATCT
1 TATTCCCAGATAATCT
*
99845 TATTCCCTGATAATCT
1 TATTCCCAGATAATCT
99861 TA
1 TA
99863 CATTCTCACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.27, C:0.24, G:0.06, T:0.42
Consensus pattern (16 bp):
TATTCCCAGATAATCT
Found at i:99860 original size:16 final size:16
Alignment explanation
Indices: 99830--99882 Score: 54
Period size: 20 Copynumber: 3.1 Consensus size: 16
99820 CAAAATACAA
*
99830 TATTCCCAG-TAATCT
1 TATTCCCTGATAATCT
99845 TATTCCCTGATAATCT
1 TATTCCCTGATAATCT
99861 TACATTCTCACTGATAATCT
1 T--ATTC-C-CTGATAATCT
99881 TA
1 TA
99883 CATTCCGTGA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
15 8 0.25
16 7 0.22
18 5 0.16
19 1 0.03
20 11 0.34
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.42
Consensus pattern (16 bp):
TATTCCCTGATAATCT
Found at i:107351 original size:21 final size:21
Alignment explanation
Indices: 107327--107393 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
107317 AATGAGAGTA
107327 AAAACTCGAACATGATGGACT
1 AAAACTCGAACATGATGGACT
* * * ** *
107348 AAAAGTCTAAAACCATGG-TT
1 AAAACTCGAACATGATGGACT
*
107368 TAAACTCGAACATGATGGACT
1 AAAACTCGAACATGATGGACT
107389 AAAAC
1 AAAAC
107394 CATGGTTTCT
Statistics
Matches: 31, Mismatches: 14, Indels: 2
0.66 0.30 0.04
Matches are distributed among these distances:
20 13 0.42
21 18 0.58
ACGTcount: A:0.45, C:0.18, G:0.16, T:0.21
Consensus pattern (21 bp):
AAAACTCGAACATGATGGACT
Found at i:107391 original size:20 final size:20
Alignment explanation
Indices: 107328--107391 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
107318 ATGAGAGTAA
107328 AAACTCGAACATGATGGACT
1 AAACTCGAACATGATGGACT
* * * ** **
107348 AAAAGTCTAAAACCATGGTTT
1 -AAACTCGAACATGATGGACT
107369 AAACTCGAACATGATGGACT
1 AAACTCGAACATGATGGACT
107389 AAA
1 AAA
107392 ACCATGGTTT
Statistics
Matches: 29, Mismatches: 14, Indels: 1
0.66 0.32 0.02
Matches are distributed among these distances:
20 16 0.55
21 13 0.45
ACGTcount: A:0.44, C:0.17, G:0.17, T:0.22
Consensus pattern (20 bp):
AAACTCGAACATGATGGACT
Found at i:109069 original size:2 final size:2
Alignment explanation
Indices: 109062--109102 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
109052 AGAAAGTACA
109062 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
109103 ATAGGTTAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:109609 original size:19 final size:20
Alignment explanation
Indices: 109585--109624 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
109575 GCAATGTGTC
*
109585 AAATAAATA-TGAAGGCTAA
1 AAATAAAGAGTGAAGGCTAA
*
109604 AAATAAAGAGTGAAGGTTAA
1 AAATAAAGAGTGAAGGCTAA
109624 A
1 A
109625 TTGAGAGAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.57, C:0.03, G:0.20, T:0.20
Consensus pattern (20 bp):
AAATAAAGAGTGAAGGCTAA
Found at i:115375 original size:30 final size:28
Alignment explanation
Indices: 115308--115376 Score: 68
Period size: 30 Copynumber: 2.4 Consensus size: 28
115298 TGAATTGACT
*
115308 TTTTAAAATTATTTAATTTTTAAAATAA
1 TTTTATAATTATTTAATTTTTAAAATAA
**
115336 TATGAATAATTATTTTAATTTTTAATTAA-AA
1 T-TTTATAATTA-TTTAATTTTTAA--AATAA
115367 TTTTATAATT
1 TTTTATAATT
115377 TTAAGTATTC
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
28 1 0.03
29 7 0.22
30 19 0.59
31 3 0.09
32 2 0.06
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.55
Consensus pattern (28 bp):
TTTTATAATTATTTAATTTTTAAAATAA
Found at i:121096 original size:30 final size:29
Alignment explanation
Indices: 121015--121378 Score: 192
Period size: 30 Copynumber: 12.4 Consensus size: 29
121005 TATTCTTACA
* *
121015 ATATTTTAAAATTGAGAT-A-AA-AAAAT
1 ATATTTTTAAATTAAGATAAGAATAAAAT
* *
121041 AT-TTTTTATAGTTAAGATAAAAATAAAAT
1 ATATTTTTA-AATTAAGATAAGAATAAAAT
*
121070 ATATTTTTAAATTAAAAATAAGAATAAAAT
1 ATATTTTTAAATT-AAGATAAGAATAAAAT
* ** *
121100 ATATTAATATATTTTTAA-ATTAA-AATAAATGT
1 ATATT--TTTA-AATTAAGA-TAAGAATAAA-AT
* *
121132 ATATTTTCAAGTTAAGATAAGAAT-AAAT
1 ATATTTTTAAATTAAGATAAGAATAAAAT
* * * * *
121160 AATATTTAATAATTTAAGGTAAGAATATATT
1 -ATATTT-TTAAATTAAGATAAGAATAAAAT
* * ** *
121191 ATATTTAATAATTTAACTTAAGAATATAAT
1 ATATTT-TTAAATTAAGATAAGAATAAAAT
* * *
121221 ATA-TGTAACAAGTTAAGATAAAAATAAAAT
1 ATATTTTTA-AA-TTAAGATAAGAATAAAAT
* * *
121251 ATATTTTTAAGTTAAGTTAGGAATAAAAT
1 ATATTTTTAAATTAAGATAAGAATAAAAT
* * *
121280 ACATTTTATAAGTTAAGATAAGATTAAAAT
1 ATATTTT-TAAATTAAGATAAGAATAAAAT
* *
121310 ACATTTTTCAATTAAGATAAGAATAAAAT
1 ATATTTTTAAATTAAGATAAGAATAAAAT
* *** *
121339 AAACTCAATAAGTT-A-A-AAGAATAAAAT
1 ATA-TTTTTAAATTAAGATAAGAATAAAAT
121366 ATATTTTTAAATT
1 ATATTTTTAAATT
121379 TTGAGATGTG
Statistics
Matches: 261, Mismatches: 56, Indels: 42
0.73 0.16 0.12
Matches are distributed among these distances:
25 5 0.02
26 15 0.06
27 14 0.05
28 5 0.02
29 70 0.27
30 124 0.48
31 12 0.05
32 14 0.05
33 2 0.01
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.38
Consensus pattern (29 bp):
ATATTTTTAAATTAAGATAAGAATAAAAT
Found at i:121125 original size:61 final size:61
Alignment explanation
Indices: 121060--121174 Score: 146
Period size: 61 Copynumber: 1.9 Consensus size: 61
121050 AGTTAAGATA
*
121060 AAAATAAA-ATATATTTTTAAATTAAAAATAAGAAT-AA-AATATATTAATATATTTTTAAATT
1 AAAATAAATATATATTTTCAAATT-AAAATAAGAATAAATAATAT-TTAATA-ATTTTTAAATT
* * *
121121 AAAATAAATGTATATTTTCAAGTTAAGATAAGAATAAATAATATTTAATAATTT
1 AAAATAAATATATATTTTCAAATTAAAATAAGAATAAATAATATTTAATAATTT
121175 AAGGTAAGAA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
61 22 0.47
62 20 0.43
63 5 0.11
ACGTcount: A:0.55, C:0.01, G:0.04, T:0.40
Consensus pattern (61 bp):
AAAATAAATATATATTTTCAAATTAAAATAAGAATAAATAATATTTAATAATTTTTAAATT
Found at i:121295 original size:59 final size:59
Alignment explanation
Indices: 121036--121375 Score: 262
Period size: 59 Copynumber: 5.8 Consensus size: 59
121026 TTGAGATAAA
* * *
121036 AAAATATTTTTTAT-AGTTAAGATAAAAATAAAATATATTTTTAAATTAAAAATAAGAAT
1 AAAATATATTTTATAAGTTAAGATAAAAATAAAATATATTTTTAAGTT-AAGATAAGAAT
* ** * * *
121095 AAAATATATTAATATATTTTTAA-ATTAAAATAAATGTATATTTTCAAGTTAAGATAAGAAT
1 AAAATATATT-TTATA-AGTTAAGATAAAAATAAA-ATATATTTTTAAGTTAAGATAAGAAT
* * * * * * * * **
121156 -AAATAATATTTAATAATTTAAGGTAAGAATATATTATATTTAATAATTTAACTTAAGAAT
1 AAAAT-ATATTTTATAAGTTAAGATAAAAATAAAATATATTT-TTAAGTTAAGATAAGAAT
* * * * * *
121216 ATAATATATGTAACAAGTTAAGATAAAAATAAAATATATTTTTAAGTTAAGTTAGGAAT
1 AAAATATATTTTATAAGTTAAGATAAAAATAAAATATATTTTTAAGTTAAGATAAGAAT
* * * *
121275 AAAATACATTTTATAAGTTAAGATAAGATTAAAATACATTTTTCAA-TTAAGATAAGAAT
1 AAAATATATTTTATAAGTTAAGATAAAAATAAAATATATTTTT-AAGTTAAGATAAGAAT
* * ** *
121334 AAAATAAACTCAATAAGTT-A-A-AAGAATAAAATATATTTTTAA
1 AAAATATATTTTATAAGTTAAGATAAAAATAAAATATATTTTTAA
121376 ATTTTGAGAT
Statistics
Matches: 222, Mismatches: 50, Indels: 22
0.76 0.17 0.07
Matches are distributed among these distances:
55 2 0.01
56 17 0.08
57 1 0.00
58 1 0.00
59 96 0.43
60 61 0.27
61 28 0.13
62 16 0.07
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.38
Consensus pattern (59 bp):
AAAATATATTTTATAAGTTAAGATAAAAATAAAATATATTTTTAAGTTAAGATAAGAAT
Found at i:121449 original size:2 final size:2
Alignment explanation
Indices: 121442--121473 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
121432 ACTAAGAAAC
121442 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
121474 CTCTTTTATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:122146 original size:60 final size:60
Alignment explanation
Indices: 121995--122174 Score: 184
Period size: 60 Copynumber: 3.0 Consensus size: 60
121985 TTTCCCCTAC
* * * * *
121995 CTATAACCCTCATTTTAAATTGGTACTTAAACTTTTTAATATTCTAATTTGATCCCTAAA
1 CTATGACCCTCATTTTAAATCGGTCCTTAAACTTTTAAATATTCTAATTTTATCCCTAAA
* ** ** * *
122055 CTATGGCTTTCATTTTATAA-CAATCCTTAAACTTTTGAATATTCTAATTTTATCACTAAA
1 CTATGACCCTCATTTTA-AATCGGTCCTTAAACTTTTAAATATTCTAATTTTATCCCTAAA
* * * *
122115 CTATGACCCTC-TTTCTAAATGGGTCCCTAAACTTTTAAATATTCCAATTATATCCCTAAA
1 CTATGACCCTCATTT-TAAATCGGTCCTTAAACTTTTAAATATTCTAATTTTATCCCTAAA
122175 TTCATCCGAA
Statistics
Matches: 95, Mismatches: 22, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
59 5 0.05
60 88 0.93
61 2 0.02
ACGTcount: A:0.33, C:0.20, G:0.06, T:0.42
Consensus pattern (60 bp):
CTATGACCCTCATTTTAAATCGGTCCTTAAACTTTTAAATATTCTAATTTTATCCCTAAA
Found at i:125357 original size:19 final size:19
Alignment explanation
Indices: 125333--125369 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
125323 CTTTAGTTTC
125333 GATGGTTCCAAGATAAAAG
1 GATGGTTCCAAGATAAAAG
*
125352 GATGGTTCCACGATAAAA
1 GATGGTTCCAAGATAAAA
125370 AATGAAGGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.22
Consensus pattern (19 bp):
GATGGTTCCAAGATAAAAG
Found at i:136209 original size:15 final size:16
Alignment explanation
Indices: 136181--136212 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
136171 AAAATCTTTC
136181 TTTCCCGTTCTGGATT
1 TTTCCCGTTCTGGATT
136197 TTTCCCG-TCTGGATT
1 TTTCCCGTTCTGGATT
136212 T
1 T
136213 GGATCTGCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.06, C:0.25, G:0.19, T:0.50
Consensus pattern (16 bp):
TTTCCCGTTCTGGATT
Found at i:136987 original size:16 final size:16
Alignment explanation
Indices: 136963--136996 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
136953 TATCGCCGAC
*
136963 CGAATTTCACTATTCA
1 CGAAATTCACTATTCA
136979 CGAAATTCACTATTCA
1 CGAAATTCACTATTCA
136995 CG
1 CG
136997 TGAATAGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.26, G:0.09, T:0.32
Consensus pattern (16 bp):
CGAAATTCACTATTCA
Found at i:145186 original size:27 final size:27
Alignment explanation
Indices: 145155--145208 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
145145 AGAATGAAAG
145155 AAAGTTACTTTAAGAGAATTATGCATA
1 AAAGTTACTTTAAGAGAATTATGCATA
*
145182 AAAGTTACTTTAAGATAATTATGCATA
1 AAAGTTACTTTAAGAGAATTATGCATA
145209 TATTTCTGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.35
Consensus pattern (27 bp):
AAAGTTACTTTAAGAGAATTATGCATA
Found at i:147065 original size:2 final size:2
Alignment explanation
Indices: 147058--147087 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
147048 TCCTGGCTTT
147058 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
147088 TAATTACCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:148695 original size:59 final size:58
Alignment explanation
Indices: 148552--148695 Score: 168
Period size: 59 Copynumber: 2.4 Consensus size: 58
148542 ACATACTAAT
*
148552 TAGTCAAGTGACCATTTTGTAACTTTTAATAGTCGAGGACTCAACAAAGCAACACCCTA
1 TAGTCAAG-GACTATTTTGTAACTTTTAATAGTCGAGGACTCAACAAAGCAACACCCTA
* * * *
148611 TACTCAGATGA-TCATTTTATAACTTTTAATAGTCGAGGGACTCAACAAAGCATCA-CCTA
1 TAGTCA-AGGACT-ATTTTGTAACTTTTAATAGTCGA-GGACTCAACAAAGCAACACCCTA
148670 TAGTCGAAGGACTATTTGTGT-ACTTT
1 TAGTC-AAGGACTATTT-TGTAACTTT
148696 ACCCTAAATA
Statistics
Matches: 71, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
59 49 0.69
60 22 0.31
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.31
Consensus pattern (58 bp):
TAGTCAAGGACTATTTTGTAACTTTTAATAGTCGAGGACTCAACAAAGCAACACCCTA
Found at i:149074 original size:27 final size:27
Alignment explanation
Indices: 149042--149093 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
149032 AATCTATATC
*
149042 ATGTAAA-ATTTAAATTTATAATATTAT
1 ATGTAAATA-TTAAAATTATAATATTAT
*
149069 ATGTAAATATTAAAATTATATTATT
1 ATGTAAATATTAAAATTATAATATT
149094 TTTTTACAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (27 bp):
ATGTAAATATTAAAATTATAATATTAT
Found at i:160499 original size:21 final size:20
Alignment explanation
Indices: 160475--160572 Score: 70
Period size: 21 Copynumber: 4.8 Consensus size: 20
160465 TCAGTTTCCA
*
160475 AAAATCGCAACGCGATTCTTG
1 AAAATCGCAACGCGATT-TTC
* * * *
160496 AAAATCGCGATGCGATAGTAC
1 AAAATCGCAACGCGAT-TTTC
* **
160517 AAATTCGCATTGCGATTTTC
1 AAAATCGCAACGCGATTTTC
* * *
160537 AATAATCGCAACGCGAATATG
1 AA-AATCGCAACGCGATTTTC
160558 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
160573 ACACATAAAT
Statistics
Matches: 59, Mismatches: 16, Indels: 5
0.74 0.20 0.06
Matches are distributed among these distances:
20 17 0.29
21 42 0.71
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.22
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTTC
Found at i:160565 original size:20 final size:20
Alignment explanation
Indices: 160540--160733 Score: 76
Period size: 20 Copynumber: 9.7 Consensus size: 20
160530 GATTTTCAAT
* *
160540 AATCGCAACGCGAATATGA-A
1 AATCGCAACGCGAACA-CATA
160560 AATCGCAACGCGAACACATA
1 AATCGCAACGCGAACACATA
* *
160580 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
160600 AATCGCAACGTGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* ****
160620 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGAACACATA
* * *
160640 AATCGCAATGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
160660 TATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
** *
160680 AATCGCAACGATAATACATAA
1 AATCGCAACGCGAACACAT-A
* *
160701 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
160721 AATCGCAACGCGA
1 AATCGCAACGCGA
160734 TATTTAAAGC
Statistics
Matches: 139, Mismatches: 28, Indels: 15
0.76 0.15 0.08
Matches are distributed among these distances:
19 3 0.02
20 120 0.86
21 15 0.11
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAACACATA
Found at i:160585 original size:40 final size:39
Alignment explanation
Indices: 160540--160733 Score: 199
Period size: 40 Copynumber: 4.8 Consensus size: 39
160530 GATTTTCAAT
* ** *
160540 AATCGCAACGCGAATATGAAAATCGCAACGCGAACACATA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAAC-CATA
* * *
160580 AATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCG-AACCATA
** * * *
160620 AATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCG-AACCATA
* ** *
160660 TATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAA-CCAT-A
160701 AATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGA
160734 TATTTAAAGC
Statistics
Matches: 128, Mismatches: 23, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 94 0.73
41 33 0.26
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (39 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAACCATA
Found at i:160623 original size:60 final size:60
Alignment explanation
Indices: 160540--160732 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
160530 GATTTTCAAT
* ** * *
160540 AATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* * *** *
160600 AATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* **
160660 TATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGTA
160721 AATCGCAACGCG
1 AATCGCAACGCG
160733 ATATTTAAAG
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 80 0.72
61 31 0.28
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
Found at i:161153 original size:33 final size:33
Alignment explanation
Indices: 161114--161184 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
161104 TTCACTTAGA
*
161114 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
161147 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
161180 TTTCA
1 TTTCA
161185 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:161324 original size:14 final size:14
Alignment explanation
Indices: 161305--161359 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
161295 AGAATGACTG
161305 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
*
161319 TCGCAACGCGAAATGAAAA
1 TCGCAA--CG--A-GAGAA
161338 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
161352 TCGCAACG
1 TCGCAACG
161360 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.42, C:0.24, G:0.25, T:0.09
Consensus pattern (14 bp):
TCGCAACGAGAGAA
Found at i:161342 original size:33 final size:33
Alignment explanation
Indices: 161305--161375 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
161295 AGAATGACTG
**
161305 TCGCAACGAGAGAATCGCAACGCGAAATGAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
161338 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
161371 TCGCA
1 TCGCA
161376 TTGCGATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.44, C:0.25, G:0.23, T:0.08
Consensus pattern (33 bp):
TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
Found at i:161393 original size:19 final size:19
Alignment explanation
Indices: 161371--161468 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
161361 GAAACCAAAA
*
161371 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
161390 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
161404 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
161423 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
161437 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATT
161456 TCGCGTTGCGATT
1 TCGCGTTGCGATT
161469 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 6 0.10
19 32 0.51
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:161412 original size:14 final size:14
Alignment explanation
Indices: 161393--161482 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
161383 TTTCATTTCG
161393 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
161407 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
161426 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
161440 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
161457 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
161473 CGTTGCGATT
1 CGTTGCGATT
161483 TTCATTTCAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.09, C:0.26, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:161418 original size:33 final size:33
Alignment explanation
Indices: 161376--161490 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
161366 CAAAATCGCA
161376 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
161409 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
161442 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
161475 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
161491 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:163426 original size:92 final size:93
Alignment explanation
Indices: 163187--163562 Score: 708
Period size: 92 Copynumber: 4.1 Consensus size: 93
163177 TAGATTGCTT
*
163187 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTC-TTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
163251 -TTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
163278 AGTAAA-TTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
163341 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
163369 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
163433 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
163461 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
163526 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
163554 AGTAAATTT
1 AGTAAATTT
163563 ATCCATTCAA
Statistics
Matches: 280, Mismatches: 1, Indels: 6
0.98 0.00 0.02
Matches are distributed among these distances:
90 39 0.14
91 55 0.20
92 147 0.52
93 39 0.14
ACGTcount: A:0.23, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:163647 original size:19 final size:19
Alignment explanation
Indices: 163607--163734 Score: 116
Period size: 19 Copynumber: 7.3 Consensus size: 19
163597 AGTTTTACTT
* *
163607 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
163627 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
163646 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
163665 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
163679 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
163698 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
163712 TCGCAACGCGAAACC-AAA
1 TCGCAACGCGAAACCAAAA
163730 TCGCA
1 TCGCA
163735 TTGCGATTTT
Statistics
Matches: 89, Mismatches: 9, Indels: 22
0.74 0.08 0.18
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 9 0.10
19 38 0.43
20 13 0.15
ACGTcount: A:0.45, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:163686 original size:33 final size:32
Alignment explanation
Indices: 163643--163734 Score: 141
Period size: 33 Copynumber: 2.8 Consensus size: 32
163633 CGCGAAACCA
**
163643 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
163675 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
163708 AAGATCGCAACGCGAAACC-AAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
163735 TTGCGATTTT
Statistics
Matches: 56, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
32 10 0.18
33 46 0.82
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:163757 original size:19 final size:19
Alignment explanation
Indices: 163730--163864 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
163720 CGAAACCAAA
*
163730 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
163749 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
163765 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
163782 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
163798 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
163815 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
163834 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
163854 TCGTGTTGCGA
1 TCGCGTTGCGA
163865 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 46 0.48
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:163771 original size:14 final size:14
Alignment explanation
Indices: 163752--163808 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
163742 TTTCATTTCG
163752 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
163766 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
163783 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
163799 CGTTGCGATT
1 CGTTGCGATT
163809 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:163777 original size:33 final size:33
Alignment explanation
Indices: 163735--163827 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
163725 CCAAATCGCA
*
163735 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
163768 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
163801 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
163828 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:164369 original size:21 final size:21
Alignment explanation
Indices: 164313--164375 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
164303 TTCCTCGAGA
*
164313 GTCCCTCCCACCGTTCAAGAG
1 GTCCCTCCCACCATTCAAGAG
** * *
164334 G-CCACTGTCATCATTGAAGAG
1 GTCC-CTCCCACCATTCAAGAG
164355 GTCCCTCCCACCATTCAAGAG
1 GTCCCTCCCACCATTCAAGAG
164376 CCCGATTCAC
Statistics
Matches: 31, Mismatches: 9, Indels: 4
0.70 0.20 0.09
Matches are distributed among these distances:
20 2 0.06
21 27 0.87
22 2 0.06
ACGTcount: A:0.24, C:0.37, G:0.19, T:0.21
Consensus pattern (21 bp):
GTCCCTCCCACCATTCAAGAG
Found at i:165772 original size:14 final size:14
Alignment explanation
Indices: 165753--165788 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
165743 TTGCGATAAT
165753 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
165767 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
165781 TGATTTGT
1 TGATTTGT
165789 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:165963 original size:20 final size:19
Alignment explanation
Indices: 165895--165977 Score: 113
Period size: 19 Copynumber: 4.6 Consensus size: 19
165885 AAAAATGACT
165895 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
165914 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
165928 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
165947 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
165967 ATCGCAATGCG
1 ATCGCAATGCG
165978 TTTATAATTT
Statistics
Matches: 56, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
14 10 0.18
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 21 0.38
20 19 0.34
ACGTcount: A:0.43, C:0.18, G:0.24, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:166030 original size:19 final size:19
Alignment explanation
Indices: 166006--166279 Score: 363
Period size: 19 Copynumber: 15.4 Consensus size: 19
165996 GATTATCTCG
166006 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
166025 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
166044 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
166058 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
166077 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
166096 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
166115 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
166134 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
166153 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
166167 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
166186 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
166205 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
166219 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
166239 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
166253 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
166272 TTGCGATT
1 TTGCGATT
166280 GTATTTTCCG
Statistics
Matches: 228, Mismatches: 6, Indels: 42
0.83 0.02 0.15
Matches are distributed among these distances:
14 29 0.13
16 24 0.11
17 21 0.09
18 3 0.01
19 139 0.61
20 12 0.05
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:166046 original size:52 final size:52
Alignment explanation
Indices: 165984--166251 Score: 455
Period size: 52 Copynumber: 5.0 Consensus size: 52
165974 TGCGTTTATA
*
165984 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
166036 ATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
166088 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCATTGCGATTTTC
166145 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
166197 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTC
166250 AT
1 AT
166252 GTTGGGATTT
Statistics
Matches: 207, Mismatches: 3, Indels: 11
0.94 0.01 0.05
Matches are distributed among these distances:
52 131 0.63
53 17 0.08
54 7 0.03
55 8 0.04
57 44 0.21
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.47
Consensus pattern (52 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:166135 original size:109 final size:102
Alignment explanation
Indices: 166006--166246 Score: 185
Period size: 109 Copynumber: 2.3 Consensus size: 102
165996 GATTATCTCG
166006 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA-TTC-TTTCG-TTGCGATTTT
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TTTCG--TTGCGATTTCATTTCGATTGCGATTTT
*
166068 CATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
61 CATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCA
*
166115 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA-TTC-TCTCG-TTGCGATTTT
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TTTCG--TTGCGATTTCATTTCGATTGCGATTTT
* * * * *
166177 CATTTCGCATTGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCG
61 CATTTCGCATTGCGATTCTCTCGTTGCG-ATTTTC-ATT-TCGCA
166219 TTGCGATTTTCATTTCCGCATTGCGATT
1 TTGCGATTTTCATTT-CGCATTGCGATT
166247 TTCATGTTGG
Statistics
Matches: 122, Mismatches: 6, Indels: 14
0.86 0.04 0.10
Matches are distributed among these distances:
102 7 0.06
103 6 0.05
104 20 0.16
105 11 0.09
107 2 0.02
109 76 0.62
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.47
Consensus pattern (102 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTCATTTCGATTGCGATTTTCATTT
CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
Found at i:168785 original size:24 final size:24
Alignment explanation
Indices: 168751--168796 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
168741 CTGAAACATC
168751 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
168775 ATCAAAGTCCGGATATTGACCA
1 ATCAAAATCCGGATATTGACCA
168797 GACCAAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:169500 original size:20 final size:20
Alignment explanation
Indices: 169472--169861 Score: 457
Period size: 20 Copynumber: 19.4 Consensus size: 20
169462 AAATTTCAGT
* * * *
169472 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
169492 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
169512 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
169532 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
169552 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
169572 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
169592 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
169612 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
169632 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
169652 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
169672 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* * *
169692 GTTGCGATTTTATGTATTA-TC
1 GTTGCGA-TTTACGGA-TACGC
169713 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
169733 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
169753 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
169773 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
169793 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
169813 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
169833 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
169853 GTTGCGATT
1 GTTGCGATT
169862 ATTGAAAATC
Statistics
Matches: 323, Mismatches: 36, Indels: 22
0.85 0.09 0.06
Matches are distributed among these distances:
19 7 0.02
20 295 0.91
21 19 0.06
22 2 0.01
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.36
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:175714 original size:25 final size:25
Alignment explanation
Indices: 175685--175732 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
175675 TTAAATAGCG
175685 TTATGTTACTAGAGTAGTGATCGAT
1 TTATGTTACTAGAGTAGTGATCGAT
*
175710 TTATGTTACTAGAGTATTGATCG
1 TTATGTTACTAGAGTAGTGATCG
175733 TTATATAACG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.27, C:0.08, G:0.23, T:0.42
Consensus pattern (25 bp):
TTATGTTACTAGAGTAGTGATCGAT
Found at i:178600 original size:15 final size:15
Alignment explanation
Indices: 178555--178600 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 15
178545 ATATTATCTT
178555 TTTCTTATTTTGAT-
1 TTTCTTATTTTGATA
* * *
178569 TTTATT-TTTTAAAA
1 TTTCTTATTTTGATA
178583 TTTCTTATTTTGATA
1 TTTCTTATTTTGATA
178598 TTT
1 TTT
178601 AAAGTTTCTT
Statistics
Matches: 24, Mismatches: 6, Indels: 3
0.73 0.18 0.09
Matches are distributed among these distances:
13 5 0.21
14 10 0.42
15 9 0.38
ACGTcount: A:0.22, C:0.04, G:0.04, T:0.70
Consensus pattern (15 bp):
TTTCTTATTTTGATA
Found at i:178910 original size:2 final size:2
Alignment explanation
Indices: 178867--178892 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
178857 TTTATCTTAG
178867 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
178893 TAAAATTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:179616 original size:20 final size:22
Alignment explanation
Indices: 179567--179613 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
179557 GAAACAGTAT
179567 ATATAAAAGTTATTTTTATTAA
1 ATATAAAAGTTATTTTTATTAA
179589 ATATAAAAGTTATTTTTATTAA
1 ATATAAAAGTTATTTTTATTAA
179611 ATA
1 ATA
179614 AAATAAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (22 bp):
ATATAAAAGTTATTTTTATTAA
Found at i:191097 original size:29 final size:29
Alignment explanation
Indices: 191055--191134 Score: 128
Period size: 29 Copynumber: 2.8 Consensus size: 29
191045 CAGTGTTGGC
191055 TGTAGGTCGCCATGC-CTTCCGGGCGACCT
1 TGTAGGTCGCCATGCAC-TCCGGGCGACCT
191084 TGTAGGTCGCCATGCACTCCGGGCGACCT
1 TGTAGGTCGCCATGCACTCCGGGCGACCT
*
191113 TGTAGGTCGCCA-ACACTCCGGG
1 TGTAGGTCGCCATGCACTCCGGG
191135 ACCTACCCTT
Statistics
Matches: 49, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
28 9 0.18
29 39 0.80
30 1 0.02
ACGTcount: A:0.14, C:0.34, G:0.31, T:0.21
Consensus pattern (29 bp):
TGTAGGTCGCCATGCACTCCGGGCGACCT
Found at i:191241 original size:29 final size:28
Alignment explanation
Indices: 191208--191292 Score: 125
Period size: 29 Copynumber: 2.9 Consensus size: 28
191198 TCATAACACA
*
191208 TAGGTCGCCATGCCCTCCGGACGACCTTG
1 TAGGTCGCCATGCACTCCGG-CGACCTTG
*
191237 TAGGTCGCCATACACTCCGGGCGACCTTG
1 TAGGTCGCCATGCACTCC-GGCGACCTTG
191266 TAGGTCGCCATGCACTCCTGGCGACCT
1 TAGGTCGCCATGCACTCC-GGCGACCT
191293 ACCCTCGCTC
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
29 49 0.96
30 2 0.04
ACGTcount: A:0.15, C:0.36, G:0.27, T:0.21
Consensus pattern (28 bp):
TAGGTCGCCATGCACTCCGGCGACCTTG
Found at i:191337 original size:33 final size:33
Alignment explanation
Indices: 191296--191380 Score: 109
Period size: 33 Copynumber: 2.6 Consensus size: 33
191286 GCGACCTACC
*
191296 CTCGCTCGGCTT-CCCTCGGATTCCCTCGCATAG
1 CTCGCTCGG-TTGCCCTCGGATGCCCTCGCATAG
*
191329 CTCGCTCGGTTGTCCTCGGATGCCCTCGCATAG
1 CTCGCTCGGTTGCCCTCGGATGCCCTCGCATAG
* * *
191362 CTCGTTCGGATGGCCTCGG
1 CTCGCTCGGTTGCCCTCGG
191381 TCGGATGGCC
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
32 2 0.04
33 44 0.96
ACGTcount: A:0.08, C:0.38, G:0.27, T:0.27
Consensus pattern (33 bp):
CTCGCTCGGTTGCCCTCGGATGCCCTCGCATAG
Found at i:191384 original size:14 final size:14
Alignment explanation
Indices: 191362--191393 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
191352 CCTCGCATAG
*
191362 CTCGTTCGGATGGC
1 CTCGGTCGGATGGC
191376 CTCGGTCGGATGGC
1 CTCGGTCGGATGGC
191390 CTCG
1 CTCG
191394 ATGCCCAACG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.06, C:0.31, G:0.38, T:0.25
Consensus pattern (14 bp):
CTCGGTCGGATGGC
Found at i:191659 original size:18 final size:20
Alignment explanation
Indices: 191636--191678 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
191626 TTTATGATAT
191636 GTTTTT-AT-TTTTTGACAC
1 GTTTTTGATGTTTTTGACAC
*
191654 GTTTTTGTTGTTTTTGACAC
1 GTTTTTGATGTTTTTGACAC
191674 GTTTT
1 GTTTT
191679 CGGTCGTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.27
19 1 0.05
20 15 0.68
ACGTcount: A:0.12, C:0.09, G:0.16, T:0.63
Consensus pattern (20 bp):
GTTTTTGATGTTTTTGACAC
Found at i:193162 original size:2 final size:2
Alignment explanation
Indices: 193151--193192 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
193141 TATCATAAGC
193151 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
193192 T
1 T
193193 CAATTATTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:193522 original size:21 final size:21
Alignment explanation
Indices: 193496--193672 Score: 139
Period size: 21 Copynumber: 8.6 Consensus size: 21
193486 GCGCTGCATT
193496 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
193517 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* ** **
193538 TCGCGTTGCGAT-TTTCTATT
1 TCGCGTTGCGATAGTTGAAAA
193558 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* *****
193579 TCGCGTTGCGAT-TTTCCTTT
1 TCGCGTTGCGATAGTTGAAAA
* *
193599 TCGCGTTGCGATAGTCT-ACAG
1 TCGCGTTGCGATAGT-TGAAAA
* ** **
193620 T-GTCGTTGCGAT-TTTCCATT
1 TCG-CGTTGCGATAGTTGAAAA
193640 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
193661 TCGCGTTGCGAT
1 TCGCGTTGCGAT
193673 TATCCATTTC
Statistics
Matches: 118, Mismatches: 31, Indels: 14
0.72 0.19 0.09
Matches are distributed among these distances:
19 1 0.01
20 41 0.35
21 75 0.64
22 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.36
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTGAAAA
Found at i:193563 original size:20 final size:20
Alignment explanation
Indices: 193538--193692 Score: 98
Period size: 20 Copynumber: 7.6 Consensus size: 20
193528 TAGTTGAAAA
193538 TCGCGTTGCGATTTTCTATT
1 TCGCGTTGCGATTTTCTATT
* ** **
193558 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-TTTCTATT
193579 TCGCGTTGCGATTTTCCT-TT
1 TCGCGTTGCGATTTT-CTATT
** **
193599 TCGCGTTGCGATAGTCTACAG
1 TCGCGTTGCGATTTTCTA-TT
*
193620 T-GTCGTTGCGATTTTCCATT
1 TCG-CGTTGCGATTTTCTATT
* ** **
193640 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-TTTCTATT
* *
193661 TCGCGTTGCGATTATCCATT
1 TCGCGTTGCGATTTTCTATT
193681 TCGCGTTGCGAT
1 TCGCGTTGCGAT
193693 AGTGTACAGT
Statistics
Matches: 98, Mismatches: 30, Indels: 14
0.69 0.21 0.10
Matches are distributed among these distances:
19 2 0.02
20 52 0.53
21 44 0.45
ACGTcount: A:0.16, C:0.21, G:0.25, T:0.39
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCTATT
Found at i:193569 original size:41 final size:41
Alignment explanation
Indices: 193517--193722 Score: 285
Period size: 41 Copynumber: 5.0 Consensus size: 41
193507 TAGTTGAAAA
*
193517 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCTATT
1 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATT
*
193558 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCTTT
1 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATT
* *
193599 TCGCGTTGCGATAGTCT-ACAGT-GTCGTTGCGATTTTCCATT
1 TCGCGTTGCGATAGT-TGAAAATCG-CGTTGCGATTTTCCATT
*
193640 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTATCCATT
1 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATT
* *
193681 TCGCGTTGCGATAG-TGTACAGT-GTCGTTGCGATTTTCCATT
1 TCGCGTTGCGATAGTTG-AAAATCG-CGTTGCGATTTTCCATT
193722 T
1 T
193723 TCAACTATCG
Statistics
Matches: 148, Mismatches: 11, Indels: 12
0.87 0.06 0.07
Matches are distributed among these distances:
40 5 0.03
41 141 0.95
42 2 0.01
ACGTcount: A:0.17, C:0.19, G:0.25, T:0.38
Consensus pattern (41 bp):
TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATT
Found at i:193775 original size:21 final size:21
Alignment explanation
Indices: 193749--193819 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 21
193739 GAAATGGAAA
*
193749 ATCGCAACGACACTGTAGACT
1 ATCGCAACGACAATGTAGACT
** * **
193770 ATCGCAAC-ACAAAATGGAAA
1 ATCGCAACGACAATGTAGACT
* *
193790 ATCGCAACGGCATTGTAGACT
1 ATCGCAACGACAATGTAGACT
193811 ATCGCAACG
1 ATCGCAACG
193820 CGATTTTCAA
Statistics
Matches: 36, Mismatches: 13, Indels: 2
0.71 0.25 0.04
Matches are distributed among these distances:
20 14 0.39
21 22 0.61
ACGTcount: A:0.38, C:0.25, G:0.20, T:0.17
Consensus pattern (21 bp):
ATCGCAACGACAATGTAGACT
Found at i:193785 original size:41 final size:41
Alignment explanation
Indices: 193726--193818 Score: 150
Period size: 41 Copynumber: 2.3 Consensus size: 41
193716 TCCATTTTCA
* *
193726 ACTATCGCAACGCGAAATGGAAAATCGCAACGACACTGTAG
1 ACTATCGCAACACAAAATGGAAAATCGCAACGACACTGTAG
* *
193767 ACTATCGCAACACAAAATGGAAAATCGCAACGGCATTGTAG
1 ACTATCGCAACACAAAATGGAAAATCGCAACGACACTGTAG
193808 ACTATCGCAAC
1 ACTATCGCAAC
193819 GCGATTTTCA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.40, C:0.25, G:0.19, T:0.16
Consensus pattern (41 bp):
ACTATCGCAACACAAAATGGAAAATCGCAACGACACTGTAG
Found at i:193795 original size:20 final size:20
Alignment explanation
Indices: 193729--193797 Score: 57
Period size: 20 Copynumber: 3.4 Consensus size: 20
193719 ATTTTCAACT
* *
193729 ATCGCAACGCGAAATGGAAA
1 ATCGCAACACAAAATGGAAA
*** * **
193749 ATCGCAACGACACTGTAGACT
1 ATCGCAAC-ACAAAATGGAAA
193770 ATCGCAACACAAAATGGAAA
1 ATCGCAACACAAAATGGAAA
193790 ATCGCAAC
1 ATCGCAAC
193798 GGCATTGTAG
Statistics
Matches: 34, Mismatches: 14, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
20 22 0.65
21 12 0.35
ACGTcount: A:0.43, C:0.25, G:0.19, T:0.13
Consensus pattern (20 bp):
ATCGCAACACAAAATGGAAA
Found at i:194437 original size:18 final size:17
Alignment explanation
Indices: 194400--194433 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
194390 CACCACAATA
*
194400 ATTAATTATGATATTTT
1 ATTAAATATGATATTTT
*
194417 ATTAAATATTATATTTT
1 ATTAAATATGATATTTT
194434 TATTTTATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (17 bp):
ATTAAATATGATATTTT
Found at i:194455 original size:24 final size:23
Alignment explanation
Indices: 194411--194455 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
194401 TTAATTATGA
* *
194411 TATTTTATTAAATATTATATTTT
1 TATTTTATTAAAGATCATATTTT
*
194434 TATTTTATTTAAAGATCGTATT
1 TATTTTA-TTAAAGATCATATT
194456 AAATATAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 7 0.39
24 11 0.61
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.60
Consensus pattern (23 bp):
TATTTTATTAAAGATCATATTTT
Found at i:218625 original size:21 final size:21
Alignment explanation
Indices: 218601--218661 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
218591 AACTTTGAAA
218601 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
*
218622 AAAT-G-TTTC----TTT-GA
1 AAATGGTTTTCAAAGTTTGGT
218636 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
218657 AAATG
1 AAATG
218662 TTTCTTTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 4 0.13
16 4 0.13
19 4 0.13
20 4 0.13
21 10 0.32
ACGTcount: A:0.31, C:0.05, G:0.21, T:0.43
Consensus pattern (21 bp):
AAATGGTTTTCAAAGTTTGGT
Found at i:218707 original size:36 final size:36
Alignment explanation
Indices: 218593--218709 Score: 166
Period size: 35 Copynumber: 3.2 Consensus size: 36
218583 TGGCAACCAA
218593 CTTTGAAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTG-AAAAATGGTTTTCAAAGTTTGGTAAATGTTT
218630 CTTTG-AAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
* * *
218665 CTTTGAAAAATAGTTTTTCAAAGTTTAGTAGATGTTT
1 CTTTGAAAAAT-GGTTTTCAAAGTTTGGTAAATGTTT
*
218702 -GTTGAAAA
1 CTTTGAAAA
218710 TTGATAATGG
Statistics
Matches: 74, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
35 35 0.47
36 12 0.16
37 27 0.36
ACGTcount: A:0.32, C:0.05, G:0.19, T:0.44
Consensus pattern (36 bp):
CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
Found at i:223236 original size:35 final size:35
Alignment explanation
Indices: 223197--223307 Score: 152
Period size: 35 Copynumber: 3.1 Consensus size: 35
223187 CAACTTTGAA
223197 AAAATGGTTTTCAAAGTTTAGTAAATGTTTCTTTG
1 AAAATGGTTTTCAAAGTTTAGTAAATGTTTCTTTG
*
223232 AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTTG
1 AAAATGGTTTTCAAAGTTTAGTAAATGTTTC-TTTG
* * *
223268 AAAAATAGTTTTTCAAAGTTTAGTAGATGTTT-GTTG
1 -AAAAT-GGTTTTCAAAGTTTAGTAAATGTTTCTTTG
223304 AAAA
1 AAAA
223308 ATGATAATGG
Statistics
Matches: 68, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
35 34 0.50
36 7 0.10
37 5 0.07
38 22 0.32
ACGTcount: A:0.33, C:0.05, G:0.18, T:0.44
Consensus pattern (35 bp):
AAAATGGTTTTCAAAGTTTAGTAAATGTTTCTTTG
Found at i:228065 original size:6 final size:6
Alignment explanation
Indices: 228054--228104 Score: 102
Period size: 6 Copynumber: 8.5 Consensus size: 6
228044 TCTCGTCTCG
228054 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
228102 GGT
1 GGT
228105 AATACGTGTC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.00, C:0.16, G:0.51, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:228267 original size:25 final size:20
Alignment explanation
Indices: 228207--228249 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
228197 CTCATTTTCT
228207 GAATCGCGTTGCGATTCTTG
1 GAATCGCGTTGCGATTCTTG
228227 GAATCGCGTTGCGATTCTTG
1 GAATCGCGTTGCGATTCTTG
228247 GAA
1 GAA
228250 GAATATCGCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.19, C:0.19, G:0.30, T:0.33
Consensus pattern (20 bp):
GAATCGCGTTGCGATTCTTG
Found at i:228321 original size:20 final size:19
Alignment explanation
Indices: 228298--228348 Score: 75
Period size: 19 Copynumber: 2.6 Consensus size: 19
228288 TTCTTTTCAA
228298 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTT-TAAATCG
**
228318 CGTTGCGATTTTTATTTCG
1 CGTTGCGATTTTTAAATCG
228337 CGTTGCGATTTT
1 CGTTGCGATTTT
228349 GTTGGTCATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.14, C:0.18, G:0.22, T:0.47
Consensus pattern (19 bp):
CGTTGCGATTTTTAAATCG
Found at i:228339 original size:19 final size:19
Alignment explanation
Indices: 228255--228348 Score: 102
Period size: 20 Copynumber: 4.8 Consensus size: 19
228245 TGGAAGAATA
228255 TCGCGTTGCGATTTTCTTT
1 TCGCGTTGCGATTTTCTTT
228274 T-GACCGTTGCGATTTTCTTT
1 TCG--CGTTGCGATTTTCTTT
* **
228294 TCAACGTTGCGATTTTCTAAA
1 TC-GCGTTGCGATTTTCT-TT
228315 TCGCGTTGCGATTTT-TATT
1 TCGCGTTGCGATTTTCT-TT
228334 TCGCGTTGCGATTTT
1 TCGCGTTGCGATTTT
228349 GTTGGTCATT
Statistics
Matches: 64, Mismatches: 6, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
18 1 0.02
19 18 0.28
20 43 0.67
21 2 0.03
ACGTcount: A:0.13, C:0.19, G:0.20, T:0.48
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCTTT
Found at i:230275 original size:2 final size:2
Alignment explanation
Indices: 230268--230303 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
230258 ACCATATAAG
230268 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
230304 TCATTTTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:241444 original size:21 final size:21
Alignment explanation
Indices: 241418--241473 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
241408 ATTTATTGTG
* *
241418 ATTGCGCCCGTCGCGGGCGCT
1 ATTGCGACCGTCGCGGACGCT
241439 ATTGCGACCGTCGCGGACGCT
1 ATTGCGACCGTCGCGGACGCT
*
241460 ATTGCGGCCGTCGC
1 ATTGCGACCGTCGC
241474 AGGTAACTCG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.09, C:0.36, G:0.36, T:0.20
Consensus pattern (21 bp):
ATTGCGACCGTCGCGGACGCT
Found at i:245845 original size:14 final size:15
Alignment explanation
Indices: 245821--245849 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
245811 TCAAAAAATG
245821 TTATAAAAAATATTT
1 TTATAAAAAATATTT
245836 TTAT-AAAAATATTT
1 TTATAAAAAATATTT
245850 CGAGGTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TTATAAAAAATATTT
Found at i:249324 original size:31 final size:31
Alignment explanation
Indices: 249289--249413 Score: 78
Period size: 31 Copynumber: 4.0 Consensus size: 31
249279 TGATATAACA
249289 AGTTTAACAAATTTAATGATC-ATTTGATAAT
1 AGTTTAACAAATTTAATGATCAATTTG-TAAT
* * * * *
249320 AGTTTGATAAATTTAATAATTATTTTGTAATT
1 AGTTTAACAAATTTAATGATCAATTTGTAA-T
** * * * *
249352 A-TTTATTAACTTTAATCA-CTATTTTATAAT
1 AGTTTAACAAATTTAATGATC-AATTTGTAAT
*
249382 AACTTT-ACAAATTTAATGATCAATTTGTAAT
1 -AGTTTAACAAATTTAATGATCAATTTGTAAT
249413 A
1 A
249414 TTTTGTGAAG
Statistics
Matches: 71, Mismatches: 17, Indels: 13
0.70 0.17 0.13
Matches are distributed among these distances:
30 2 0.03
31 59 0.83
32 10 0.14
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.47
Consensus pattern (31 bp):
AGTTTAACAAATTTAATGATCAATTTGTAAT
Found at i:255311 original size:15 final size:15
Alignment explanation
Indices: 255293--255335 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
255283 TGGGCGGGTG
*
255293 GATGTGGGGCGGGCA
1 GATGCGGGGCGGGCA
* * *
255308 GATGCGGGACGAGCG
1 GATGCGGGGCGGGCA
255323 GATGCGGGGCGGG
1 GATGCGGGGCGGG
255336 TAAGGTATCA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.14, C:0.16, G:0.60, T:0.09
Consensus pattern (15 bp):
GATGCGGGGCGGGCA
Found at i:259940 original size:11 final size:12
Alignment explanation
Indices: 259915--259940 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
259905 TCGAGTTATC
259915 TTTTAAAATATT
1 TTTTAAAATATT
259927 TTTTAAAATATT
1 TTTTAAAATATT
259939 TT
1 TT
259941 ATTATTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TTTTAAAATATT
Found at i:270011 original size:16 final size:19
Alignment explanation
Indices: 269976--270013 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
269966 GTTTATGCTT
269976 TTATTTATATTATGATTTA
1 TTATTTATATTATGATTTA
269995 TTATTTA-A-TATGA-TTA
1 TTATTTATATTATGATTTA
270011 TTA
1 TTA
270014 ATGATAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 6 0.32
17 5 0.26
18 1 0.05
19 7 0.37
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (19 bp):
TTATTTATATTATGATTTA
Found at i:270188 original size:36 final size:36
Alignment explanation
Indices: 270117--270294 Score: 234
Period size: 36 Copynumber: 5.0 Consensus size: 36
270107 CACCTGGGTG
* * *
270117 GACTTGAATCGAAAGTG-CGACGCCTCCTTCCGTTC
1 GACTTGAATCGAAAGTGCCGATGCTTCCTTTCGTTC
* *
270152 GACTTGAATCGAAAGTGCCAATGTTTCCTTTCGTTC
1 GACTTGAATCGAAAGTGCCGATGCTTCCTTTCGTTC
* *
270188 GAATTGAATCGAAAGTACCGATGCTTCCTTTCGTTC
1 GACTTGAATCGAAAGTGCCGATGCTTCCTTTCGTTC
* *
270224 GACTTGAATCGAAAGTACCGATGCTTCCTTCCGTTC
1 GACTTGAATCGAAAGTGCCGATGCTTCCTTTCGTTC
* * *
270260 -ACTTGAATCGAATGTGTCGATGCTTCATTTCGTTC
1 GACTTGAATCGAAAGTGCCGATGCTTCCTTTCGTTC
270295 TTCTTATTCA
Statistics
Matches: 126, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
35 47 0.37
36 79 0.63
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (36 bp):
GACTTGAATCGAAAGTGCCGATGCTTCCTTTCGTTC
Found at i:271885 original size:36 final size:36
Alignment explanation
Indices: 271815--271955 Score: 214
Period size: 35 Copynumber: 4.0 Consensus size: 36
271805 AAAGATGAAC
* *
271815 ACTTGAATCGAAAGTG-CGACGCCTCCTTCCGTTCG
1 ACTTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCG
* *
271850 ACTTGAATCGAAAGTGTCGATGCTTCCTTTCGTTCG
1 ACTTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCG
*
271886 ACTTGAATCGAAAGTACCGATGCTTCCTTCCGTTC-
1 ACTTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCG
*
271921 ACTTGAATCGAAAGTGCCGATGCTTCCTTTCGTTC
1 ACTTGAATCGAAAGTGCCGATGCTTCCTTCCGTTC
271956 TTCTTATTCA
Statistics
Matches: 97, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
35 49 0.51
36 48 0.49
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.32
Consensus pattern (36 bp):
ACTTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCG
Found at i:271931 original size:71 final size:71
Alignment explanation
Indices: 271815--271955 Score: 230
Period size: 71 Copynumber: 2.0 Consensus size: 71
271805 AAAGATGAAC
* *
271815 ACTTGAATCGAAAGTGCGACGCCTCCTTCCGTTCGACTTGAATCGAAAGTGTCGATGCTTCCTTT
1 ACTTGAATCGAAAGTCCGACGCCTCCTTCCGTTCGACTTGAATCGAAAGTGCCGATGCTTCCTTT
271880 CGTTCG
66 CGTTCG
* *
271886 ACTTGAATCGAAAGTACCGATGCTTCCTTCCGTTC-ACTTGAATCGAAAGTGCCGATGCTTCCTT
1 ACTTGAATCGAAAGT-CCGACGCCTCCTTCCGTTCGACTTGAATCGAAAGTGCCGATGCTTCCTT
271950 TCGTTC
65 TCGTTC
271956 TTCTTATTCA
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
71 49 0.75
72 16 0.25
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.32
Consensus pattern (71 bp):
ACTTGAATCGAAAGTCCGACGCCTCCTTCCGTTCGACTTGAATCGAAAGTGCCGATGCTTCCTTT
CGTTCG
Found at i:271982 original size:20 final size:20
Alignment explanation
Indices: 271953--271998 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
271943 CTTCCTTTCG
*
271953 TTCTTCTTATTCACATTCAT
1 TTCTTTTTATTCACATTCAT
*
271973 TTCTTTTTATTCACCTTCAT
1 TTCTTTTTATTCACATTCAT
271993 TTCTTT
1 TTCTTT
271999 CTTCTTAACC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.15, C:0.24, G:0.00, T:0.61
Consensus pattern (20 bp):
TTCTTTTTATTCACATTCAT
Found at i:273431 original size:21 final size:20
Alignment explanation
Indices: 273406--273461 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 20
273396 GTGTTAGAGT
*
273406 TTGTTATGGTTTGTTATTAGC
1 TTGTTATAG-TTGTTATTAGC
*
273427 TTGTTATTAGTTGTTATTAGT
1 TTGTTA-TAGTTGTTATTAGC
273448 TTGTTATAGTTGTT
1 TTGTTATAGTTGTT
273462 GGTTACTTGG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
20 8 0.25
21 22 0.69
22 2 0.06
ACGTcount: A:0.16, C:0.02, G:0.21, T:0.61
Consensus pattern (20 bp):
TTGTTATAGTTGTTATTAGC
Found at i:273432 original size:11 final size:10
Alignment explanation
Indices: 273416--273461 Score: 67
Period size: 11 Copynumber: 4.5 Consensus size: 10
273406 TTGTTATGGT
273416 TTGTTATTAG
1 TTGTTATTAG
273426 CTTGTTATTAG
1 -TTGTTATTAG
273437 TTGTTATTAG
1 TTGTTATTAG
273447 TTTGTTA-TAG
1 -TTGTTATTAG
273457 TTGTT
1 TTGTT
273462 GGTTACTTGG
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
9 5 0.15
10 13 0.38
11 16 0.47
ACGTcount: A:0.17, C:0.02, G:0.20, T:0.61
Consensus pattern (10 bp):
TTGTTATTAG
Found at i:273457 original size:10 final size:11
Alignment explanation
Indices: 273403--273458 Score: 73
Period size: 10 Copynumber: 5.4 Consensus size: 11
273393 TATGTGTTAG
273403 AGTTTGTTA-T
1 AGTTTGTTATT
*
273413 GGTTTGTTATT
1 AGTTTGTTATT
*
273424 AGCTTGTTATT
1 AGTTTGTTATT
273435 AG-TTGTTATT
1 AGTTTGTTATT
273445 AGTTTGTTA-T
1 AGTTTGTTATT
273455 AGTT
1 AGTT
273459 GTTGGTTACT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
10 23 0.56
11 18 0.44
ACGTcount: A:0.18, C:0.02, G:0.21, T:0.59
Consensus pattern (11 bp):
AGTTTGTTATT
Found at i:275064 original size:21 final size:20
Alignment explanation
Indices: 275039--275094 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 20
275029 ATGTTAGAGT
*
275039 TTGTTATGGTTTGTTATTAGC
1 TTGTTATAG-TTGTTATTAGC
*
275060 TTGTTATTAGTTGTTATTAGT
1 TTGTTA-TAGTTGTTATTAGC
275081 TTGTTATAGTTGTT
1 TTGTTATAGTTGTT
275095 GGTTACTTGG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
20 8 0.25
21 22 0.69
22 2 0.06
ACGTcount: A:0.16, C:0.02, G:0.21, T:0.61
Consensus pattern (20 bp):
TTGTTATAGTTGTTATTAGC
Done.