Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001279.1 Hibiscus syriacus cultivar Beakdansim tig00002511_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: 6984689
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 29
Found at i:830 original size:20 final size:20
Alignment explanation
Indices: 782--831 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
772 GAAACTTTAA
*
782 ATCGCAACACGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* **
802 ATCACAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
822 ATCGCAACGC
1 ATCGCAACGC
832 AAGAATCGCA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.38, C:0.28, G:0.16, T:0.18
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:1491 original size:20 final size:20
Alignment explanation
Indices: 1468--1634 Score: 226
Period size: 20 Copynumber: 8.3 Consensus size: 20
1458 CAGATTTGCG
*
1468 TTGCGATTAACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
1488 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
* *
1508 TTGCGATTTACGTATTTGTA
1 TTGCGATTTACGTATTCGCA
* *
1528 TTACGATTTACGTATTCACA
1 TTGCGATTTACGTATTCGCA
1548 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
* *
1568 TTGCGATTTACGTAATCTCA
1 TTGCGATTTACGTATTCGCA
* ** *
1588 TTGCGATTTTCCAAATTCGCG
1 TTGCGA-TTTACGTATTCGCA
1609 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
1629 TTGCGA
1 TTGCGA
1635 ATTAGGAAAA
Statistics
Matches: 125, Mismatches: 21, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
20 111 0.89
21 14 0.11
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.40
Consensus pattern (20 bp):
TTGCGATTTACGTATTCGCA
Found at i:1655 original size:21 final size:21
Alignment explanation
Indices: 1631--1676 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
1621 TATTCGCATT
1631 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* *
1652 GCGAATTTGGAAAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
1673 GCGA
1 GCGA
1677 TAGTCAGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.17, G:0.26, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:2285 original size:57 final size:55
Alignment explanation
Indices: 2224--2396 Score: 165
Period size: 57 Copynumber: 3.1 Consensus size: 55
2214 AATATTTATG
* * *
2224 AAAATGTTACCCTTTTAAAAATAATTACAAAACTATCACATTTTTAAAATAATTACG
1 AAAATGTCACCATTTTAAAAATAATTACAAAA-TATCACA-TTTTAAAATAATTACA
* ** *
2281 AAAATATCACTTTTTTAAAAATAATTACGAAAT-T-ATCATTTTAAAA-AATTACA
1 AAAATGTCACCATTTTAAAAATAATTACAAAATATCA-CATTTTAAAATAATTACA
* * *
2334 AAAATAG-CACCATTTTCAAAATAATTACCAAAATACCACCAATTTCAAAATAATTACA
1 AAAAT-GTCACCATTTTAAAAATAATTA-CAAAATATCA-C-ATTTTAAAATAATTACA
2392 AAAAT
1 AAAAT
2397 ACCTCCTGGT
Statistics
Matches: 95, Mismatches: 14, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
53 28 0.29
54 14 0.15
55 3 0.03
56 3 0.03
57 35 0.37
58 12 0.13
ACGTcount: A:0.51, C:0.14, G:0.02, T:0.32
Consensus pattern (55 bp):
AAAATGTCACCATTTTAAAAATAATTACAAAATATCACATTTTAAAATAATTACA
Found at i:2355 original size:53 final size:56
Alignment explanation
Indices: 2236--2397 Score: 170
Period size: 53 Copynumber: 2.9 Consensus size: 56
2226 AATGTTACCC
* * **
2236 TTTTAAAAATAATTACAAAACTATCACATTTTTAAAATAATTACGAAAATATCACTT
1 TTTTAAAAATAATTACAAAACTAT-ACATTTTTAAAATAATTACAAAAATAGCACCA
* *
2293 TTTTAAAAATAATTACGAAATTAT-CA-TTTTAAAA-AATTACAAAAATAGCACCA
1 TTTTAAAAATAATTACAAAACTATACATTTTTAAAATAATTACAAAAATAGCACCA
* * * *
2346 TTTTCAAAATAATTACCAAAA-TACCACCAATTTCAAAATAATTACAAAAATA
1 TTTTAAAAATAATTA-CAAAACTA-TA-CATTTTTAAAATAATTACAAAAATA
2398 CCTCCTGGTC
Statistics
Matches: 89, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
53 31 0.35
54 12 0.13
55 2 0.02
56 2 0.02
57 29 0.33
58 13 0.15
ACGTcount: A:0.52, C:0.14, G:0.02, T:0.33
Consensus pattern (56 bp):
TTTTAAAAATAATTACAAAACTATACATTTTTAAAATAATTACAAAAATAGCACCA
Found at i:2384 original size:82 final size:83
Alignment explanation
Indices: 2236--2390 Score: 206
Period size: 82 Copynumber: 1.9 Consensus size: 83
2226 AATGTTACCC
* * * * * ***
2236 TTTTAAAAATAATTACAAAACTATCACATTTTTAAAATAATTACGAAAATATCACTTTTTTAAAA
1 TTTTAAAAATAATTACAAAAATAGCACATTTTCAAAATAATTACCAAAATACCACCAATTTAAAA
2301 ATAATTACGAAATTATCA
66 ATAATTACGAAATTATCA
*
2319 TTTT-AAAA-AATTACAAAAATAGCACCATTTTCAAAATAATTACCAAAATACCACCAATTTCAA
1 TTTTAAAAATAATTACAAAAATAGCA-CATTTTCAAAATAATTACCAAAATACCACCAATTTAAA
2382 AATAATTAC
65 AATAATTAC
2391 AAAAATACCT
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
81 14 0.23
82 44 0.71
83 4 0.06
ACGTcount: A:0.50, C:0.14, G:0.02, T:0.34
Consensus pattern (83 bp):
TTTTAAAAATAATTACAAAAATAGCACATTTTCAAAATAATTACCAAAATACCACCAATTTAAAA
ATAATTACGAAATTATCA
Found at i:2395 original size:29 final size:29
Alignment explanation
Indices: 2236--2399 Score: 151
Period size: 29 Copynumber: 5.9 Consensus size: 29
2226 AATGTTACCC
* * *
2236 TTTTAAAAATAATTACAAAACTATCA-CA
1 TTTTCAAAATAATTACAAAAATACCACCA
* * * **
2264 TTTTTAAAATAATTACGAAAATATCACTT
1 TTTTCAAAATAATTACAAAAATACCACCA
* * * *
2293 TTTTAAAAATAATTAC-GAAAT--TATCA
1 TTTTCAAAATAATTACAAAAATACCACCA
*
2319 TTTT-AAAA-AATTACAAAAATAGCACCA
1 TTTTCAAAATAATTACAAAAATACCACCA
*
2346 TTTTCAAAATAATTACCAAAATACCACCA
1 TTTTCAAAATAATTACAAAAATACCACCA
*
2375 ATTTCAAAATAATTACAAAAATACC
1 TTTTCAAAATAATTACAAAAATACC
2400 TCCTGGTCAA
Statistics
Matches: 112, Mismatches: 18, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
24 6 0.05
25 8 0.07
26 5 0.04
27 7 0.06
28 31 0.28
29 55 0.49
ACGTcount: A:0.51, C:0.15, G:0.02, T:0.32
Consensus pattern (29 bp):
TTTTCAAAATAATTACAAAAATACCACCA
Found at i:2427 original size:18 final size:18
Alignment explanation
Indices: 2404--2460 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 18
2394 AATACCTCCT
*
2404 GGTCAACGAGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
* * *
2422 GGTCAATGGGTAGGGTCA
1 GGTCAACGGGTCGGGTCG
* *
2440 CGTAAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
2458 GGT
1 GGT
2461 TGGAACCGGT
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.18, C:0.18, G:0.46, T:0.19
Consensus pattern (18 bp):
GGTCAACGGGTCGGGTCG
Found at i:10525 original size:22 final size:23
Alignment explanation
Indices: 10475--10527 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 23
10465 GTCCCGAAAT
10475 CAACATAGGTTTGTCTCCAAGGA
1 CAACATAGGTTTGTCTCCAAGGA
* *
10498 TAACATAGG-TTGTCTCGAAGGA
1 CAACATAGGTTTGTCTCCAAGGA
*
10520 CCACATAG
1 CAACATAG
10528 AACCCTCGAC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 18 0.69
23 8 0.31
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.25
Consensus pattern (23 bp):
CAACATAGGTTTGTCTCCAAGGA
Found at i:18672 original size:3 final size:3
Alignment explanation
Indices: 18659--18746 Score: 162
Period size: 3 Copynumber: 30.0 Consensus size: 3
18649 ATATGCTTTG
18659 TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
18706 TAT TAT TAT TAT TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
18747 GCCTCACTAA
Statistics
Matches: 83, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
2 4 0.05
3 79 0.95
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:23480 original size:9 final size:10
Alignment explanation
Indices: 23464--23500 Score: 51
Period size: 9 Copynumber: 3.9 Consensus size: 10
23454 TGATATGTTT
23464 TGTATTATTA
1 TGTATTATTA
23474 T-TATTATTA
1 TGTATTATTA
*
23483 TGT-TTATTT
1 TGTATTATTA
23492 TGTATTATT
1 TGTATTATT
23501 GATTATGTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
9 17 0.71
10 7 0.29
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (10 bp):
TGTATTATTA
Found at i:28181 original size:36 final size:36
Alignment explanation
Indices: 28131--28204 Score: 105
Period size: 36 Copynumber: 2.1 Consensus size: 36
28121 TCGATGGAAT
*
28131 ATTTATGAGAGAATTAAAATTTGTGAAAAAATTAGA
1 ATTTATGAGAGAATTAAAATCTGTGAAAAAATTAGA
* *
28167 ATTTATGA-AGGAATTAGAATCTGTGAAAGAATTAGA
1 ATTTATGAGA-GAATTAAAATCTGTGAAAAAATTAGA
28203 AT
1 AT
28205 CTGTAGGAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
35 1 0.03
36 33 0.97
ACGTcount: A:0.47, C:0.01, G:0.19, T:0.32
Consensus pattern (36 bp):
ATTTATGAGAGAATTAAAATCTGTGAAAAAATTAGA
Found at i:28205 original size:18 final size:18
Alignment explanation
Indices: 28140--28222 Score: 89
Period size: 18 Copynumber: 4.7 Consensus size: 18
28130 TATTTATGAG
* *
28140 AGAATTAAAATTTGTGAA
1 AGAATTAGAATCTGTGAA
* * *
28158 AAAATTAGAATTTATGAA
1 AGAATTAGAATCTGTGAA
*
28176 GGAATTAGAATCTGTGAA
1 AGAATTAGAATCTGTGAA
28194 AGAATTAGAATCTGT--A
1 AGAATTAGAATCTGTGAA
*
28210 GGAATTAGAATCT
1 AGAATTAGAATCT
28223 AATTCCATAT
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
16 13 0.23
18 43 0.77
ACGTcount: A:0.46, C:0.04, G:0.19, T:0.31
Consensus pattern (18 bp):
AGAATTAGAATCTGTGAA
Found at i:28218 original size:34 final size:35
Alignment explanation
Indices: 28133--28222 Score: 103
Period size: 36 Copynumber: 2.6 Consensus size: 35
28123 GATGGAATAT
* *
28133 TTATG-AGAGAATTAAAATTTGTGAAAAAATTAGAA
1 TTATGAAG-GAATTAGAATCTGTGAAAAAATTAGAA
*
28168 TTTATGAAGGAATTAGAATCTGTGAAAGAATTAGAA
1 -TTATGAAGGAATTAGAATCTGTGAAAAAATTAGAA
* *
28204 -TCTGTAGGAATTAGAATCT
1 TTATGAAGGAATTAGAATCT
28223 AATTCCATAT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
34 17 0.35
36 29 0.60
37 2 0.04
ACGTcount: A:0.44, C:0.03, G:0.20, T:0.32
Consensus pattern (35 bp):
TTATGAAGGAATTAGAATCTGTGAAAAAATTAGAA
Found at i:28825 original size:27 final size:26
Alignment explanation
Indices: 28794--28856 Score: 108
Period size: 27 Copynumber: 2.3 Consensus size: 26
28784 AAACCCGAAC
28794 CCGACCCGAATATCACACTTAAAAAA
1 CCGACCCGAATATCACACTTAAAAAA
28820 CTCGACCCGAATATCACACTTAAAAAA
1 C-CGACCCGAATATCACACTTAAAAAA
28847 CCTGACCCGA
1 CC-GACCCGA
28857 CCCGAACAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
26 2 0.06
27 33 0.94
ACGTcount: A:0.41, C:0.33, G:0.10, T:0.16
Consensus pattern (26 bp):
CCGACCCGAATATCACACTTAAAAAA
Found at i:28828 original size:32 final size:30
Alignment explanation
Indices: 28792--28862 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 30
28782 CTAAACCCGA
28792 ACCCGACCCGAATATCACACTTAAAAAACT
1 ACCCGACCCGAATATCACACTTAAAAAACT
28822 ---CGACCCGAATATCACACTTAAAAAACCT
1 ACCCGACCCGAATATCACACTTAAAAAA-CT
28850 GACCCGACCCGAA
1 -ACCCGACCCGAA
28863 CAAAATAAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
27 25 0.69
28 2 0.06
32 9 0.25
ACGTcount: A:0.41, C:0.35, G:0.10, T:0.14
Consensus pattern (30 bp):
ACCCGACCCGAATATCACACTTAAAAAACT
Found at i:29251 original size:217 final size:214
Alignment explanation
Indices: 28819--29282 Score: 662
Period size: 218 Copynumber: 2.2 Consensus size: 214
28809 CACTTAAAAA
* *
28819 ACTCGACCCGAATATCACACTTAAAAAACCTGACCCGACCCGAACAAAATAAAGTTTCATCCGAC
1 ACTCGACCCGAATATCACACTTAAAAAACCCGACCCAACCCGAACAAAATAAAGTTTCATCCGAC
* * *
28884 CGACCCGAATATATGAATTAGAAATCCGACCCAACCCGAAATAATAAAAAAGTATTTTTATTTAA
66 CGACCCAAATATATGAATTAGAAATCCGACCCAACCCGAAATAATAAAAAAATATTCTTATTTAA
*
28949 TAAAACATTAACTTAATTCGACCCGACCCGAATTATATATATATTCGGGTCGGTCTAATTTTTTT
131 TAAAAAATTAACTTAATT---CCCGACCCGAATTATATATATATTCGGGTCGGTCTAATTTTTTT
29014 CACCTAAACCCGAACCGACCCG
193 CACCTAAACCCGAACCGACCCG
*
29036 ACTCGACCCGAATATCACACTTAAAAAACCCGACCCAACTCGAACAAAATAAAGTTTCATCCGAC
1 ACTCGACCCGAATATCACACTTAAAAAACCCGACCCAACCCGAACAAAATAAAGTTTCATCCGA-
*
29101 CCGACCCAAATATATGAATTAGAAATCCGACCCGACCCGAAATAATAAAAAAATATTCTTATTTA
65 CCGACCCAAATATATGAATTAGAAATCCGACCCAACCCGAAATAATAAAAAAATATTCTTATTTA
* *
29166 ATAAAAAATAGTGACTTAA-T-CCGACCCGAA-T-TATATAT-TTCGGGTCGGT-TCA-TTTTTT
130 ATAAAAAAT--TAACTTAATTCCCGACCCGAATTATATATATATTCGGGTCGGTCTAATTTTTTT
*
29224 CACTCTAAACCC-AA---ACTCG
193 CAC-CTAAACCCGAACCGACCCG
* *
29243 ACCCGACCCGAATATCACACTTAAAAAAACCTGACCCAAC
1 ACTCGACCCGAATATCACACTT-AAAAAACCCGACCCAAC
29283 TCGACCCGAA
Statistics
Matches: 229, Mismatches: 13, Indels: 19
0.88 0.05 0.07
Matches are distributed among these distances:
207 25 0.11
208 16 0.07
210 11 0.05
211 10 0.04
212 11 0.05
213 7 0.03
214 1 0.00
215 10 0.04
217 61 0.27
218 69 0.30
219 1 0.00
220 7 0.03
ACGTcount: A:0.39, C:0.27, G:0.11, T:0.24
Consensus pattern (214 bp):
ACTCGACCCGAATATCACACTTAAAAAACCCGACCCAACCCGAACAAAATAAAGTTTCATCCGAC
CGACCCAAATATATGAATTAGAAATCCGACCCAACCCGAAATAATAAAAAAATATTCTTATTTAA
TAAAAAATTAACTTAATTCCCGACCCGAATTATATATATATTCGGGTCGGTCTAATTTTTTTCAC
CTAAACCCGAACCGACCCG
Found at i:29308 original size:245 final size:250
Alignment explanation
Indices: 29026--29509 Score: 709
Period size: 245 Copynumber: 1.9 Consensus size: 250
29016 CCTAAACCCG
* *
29026 AACCGACCCGACTCGACCCGAATATCACACTTAAAAAACCCGACCCAACTCGAACAAAATAAAGT
1 AACCGACCCAACTCGACCCGAATATCACACTTAAAAAACCCGACCCAACCCGAACAAAATAAAGT
29091 TTCATCCGACCCGACCCAAATATATGAATTAGAAAT-CCGACCCGACCCGAAATAATAAAAAAAT
66 TTCATCCGACCCGACCC-AA-ATATGAATTAGAAATCCCGACCCGACCCGAAATAAT-AAAAAAT
* *
29155 ATTCTTATTTAATAAAAAATAGTGACTT-AATCCG-A-C-CC-GAA-T-TATATATTTCGGGTCG
128 ATTCTTATTTAAT-AAAAACAGTGACTTAAATCCGAACCACCTAAATTCTATATATTTCGGGTCG
* *
29213 GTTC-A-TTTTTTCACTCTAAACCCAAACTCGACCCGACCCGAATATCACACTTAAAAA
192 GTCCGATTTTTTTCACCCTAAACCCAAACTCGACCCGACCCGAATATCACACTTAAAAA
29270 AACCTGACCCAACTCGACCCGAATATCACACTTAAAAAACCCGACCCAACCCGAACAAAATAAAG
1 AACC-GACCCAACTCGACCCGAATATCACACTTAAAAAACCCGACCCAACCCGAACAAAATAAAG
*
29335 TTTCATCCGACCCGACCCGAATATGAATTAGAAATCCAACCCGACCCGACCCGAAATAATAAAAA
65 TTTCATCCGACCCGACCCAAATATGAATTAGAAAT----CCCGACCCGACCCGAAATAATAAAAA
* * * *
29400 TTATTTTTATTTAATAAAACCAGTGACTTAAATCCGAACCGACCTAAATTCTATATTTTTCGGGT
126 ATATTCTTATTTAATAAAAACAGTGACTTAAATCCGAACC-ACCTAAATTCTATATATTTCGGGT
29465 CGGTCCGATTTTTTTCACCCTAAACCCAAACTCGACCCGACCCGA
190 CGGTCCGATTTTTTTCACCCTAAACCCAAACTCGACCCGACCCGA
29510 CCCTACCCGA
Statistics
Matches: 213, Mismatches: 11, Indels: 20
0.87 0.05 0.08
Matches are distributed among these distances:
243 15 0.07
244 5 0.02
245 76 0.36
246 12 0.06
247 24 0.11
248 21 0.10
249 1 0.00
251 2 0.01
252 2 0.01
253 1 0.00
254 18 0.08
255 1 0.00
256 35 0.16
ACGTcount: A:0.38, C:0.29, G:0.11, T:0.23
Consensus pattern (250 bp):
AACCGACCCAACTCGACCCGAATATCACACTTAAAAAACCCGACCCAACCCGAACAAAATAAAGT
TTCATCCGACCCGACCCAAATATGAATTAGAAATCCCGACCCGACCCGAAATAATAAAAAATATT
CTTATTTAATAAAAACAGTGACTTAAATCCGAACCACCTAAATTCTATATATTTCGGGTCGGTCC
GATTTTTTTCACCCTAAACCCAAACTCGACCCGACCCGAATATCACACTTAAAAA
Found at i:29316 original size:37 final size:38
Alignment explanation
Indices: 29246--29319 Score: 132
Period size: 38 Copynumber: 2.0 Consensus size: 38
29236 AAACTCGACC
*
29246 CGACCCGAATATCACACTTAAAAAAACCTGACCCAACT
1 CGACCCGAATATCACACTTAAAAAAACCCGACCCAACT
29284 CGACCCGAATATCACACTT-AAAAAACCCGACCCAAC
1 CGACCCGAATATCACACTTAAAAAAACCCGACCCAAC
29320 CCGAACAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
37 16 0.46
38 19 0.54
ACGTcount: A:0.42, C:0.36, G:0.08, T:0.14
Consensus pattern (38 bp):
CGACCCGAATATCACACTTAAAAAAACCCGACCCAACT
Found at i:30713 original size:161 final size:163
Alignment explanation
Indices: 30422--30743 Score: 470
Period size: 161 Copynumber: 2.0 Consensus size: 163
30412 TGATAAAACC
* * * * *
30422 GGTAAAGCGCTACCTAATATGTTTAAAGTATCGATTCTATTGAAATAAGTATCGACACTTTTGGA
1 GGTAAAGCGCTACCGAATATGTTGAAAGTATCGATACTATTGAAATAAGCATCAACACTTTTGGA
30487 ATTTAAAAGAGAAACAGTAATAGCGCCTATAAAGTGTCGATACTTTACAAAAATATATCGATCCA
66 ATTTAAAAGAGAAACAGTAATAGCGCCTATAAAGTGTCGATACTTTACAAAAATATATCGATCCA
*
30552 TTACAATATAACAGGTAAAAATATGACAAAATT
131 TAACAATATAACAGGTAAAAATATGACAAAATT
* * *
30585 GGTAAAGCGCTATCGGATATGTTGAAAGTGTCGATACT-TT-AATATAAGCATCAACACTTTTGG
1 GGTAAAGCGCTACCGAATATGTTGAAAGTATCGATACTATTGAA-ATAAGCATCAACACTTTTGG
* * * * * *
30648 AATTTAAAAGATAAGCAGTAATA-CGCCTATAAAGTGTCGATACTTTATAAAAATGTTTTGATCC
65 AATTTAAAAGAGAAACAGTAATAGCGCCTATAAAGTGTCGATACTTTACAAAAATATATCGATCC
*
30712 ATAATAATATAACAGGTAAAAATATGACAAAA
130 ATAACAATATAACAGGTAAAAATATGACAAAA
30744 CCGGTCTCGA
Statistics
Matches: 142, Mismatches: 16, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
161 69 0.49
162 41 0.29
163 32 0.23
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.30
Consensus pattern (163 bp):
GGTAAAGCGCTACCGAATATGTTGAAAGTATCGATACTATTGAAATAAGCATCAACACTTTTGGA
ATTTAAAAGAGAAACAGTAATAGCGCCTATAAAGTGTCGATACTTTACAAAAATATATCGATCCA
TAACAATATAACAGGTAAAAATATGACAAAATT
Found at i:30933 original size:181 final size:181
Alignment explanation
Indices: 30585--31170 Score: 844
Period size: 181 Copynumber: 3.2 Consensus size: 181
30575 TGACAAAATT
* * * *
30585 GGTAAAGCGCTATCGGATATGTTGAAAGTGTCGATACTTTAATATAAGCATCAACACTTTTGGAA
1 GGTAAAGCGCTACCAGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTTGGAA
* * *
30650 TTTAAAAGATAAGCAGTAATA-CGCCTATAAAGTGTCGATACTTTATAAAAATGTTTTGATCCAT
66 TTTAAAAGAGAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTTATAAAAATG-TATAATCCAT
*
30714 AATAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGAAAAAACC
130 AACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGAAAAAACC
* * * ** *
30766 GGTAAATCACTACCATATATGTT-AAAGTGTTAATACTTTAATATAAGTATCGACACTTTTAGAA
1 GGTAAAGCGCTACCAGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTTGGAA
* *
30830 TTTAAAAGAGAAGCAGCAGTATAGCGCCTATAAAATGTCGATACTTTATAAAAATGTATCAATCC
66 TTTAAAAGAGAAGCAGTA--ATAGCGCCTATAAAGTGTCGATACTTTATAAAAATGTAT-AATCC
* *
30895 A-AA-AATATAACAAGTAAAAATATGACAAAACCGGTCTCGAAATGATAAAACC
128 ATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGAAAAAACC
30947 GGTAAAGCGCTA-CAGATATGTTGAAAGTGTCGATACTTTAATAT--GTATCGACACTTTTGGAA
1 GGTAAAGCGCTACCAGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTTGGAA
** * *
31009 TTTAAAAGAGAAGCAGTAATAGTACATATAAAGTGTCTATACTTTATAAAAATGTATAGATCCAT
66 TTTAAAAGAGAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTTATAAAAATGTATA-ATCCAT
* *
31074 AACAATATAACAGGTAAAAAATATAACAAAACCGGTCTCGAAATGACAAAACC
130 AACAATATAACAGGT-AAAAATATGACAAAACCGGTCTCGAAATGAAAAAACC
*
31127 GGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATACTTTAATA
1 GGTAAAGCGCTACCAGATATGTTGAAAGTGTCGATACTTTAATA
31171 AGTACGCGTA
Statistics
Matches: 362, Mismatches: 33, Indels: 20
0.87 0.08 0.05
Matches are distributed among these distances:
176 1 0.00
177 39 0.11
178 2 0.01
179 45 0.12
180 108 0.30
181 124 0.34
182 7 0.02
183 36 0.10
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (181 bp):
GGTAAAGCGCTACCAGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTTGGAA
TTTAAAAGAGAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTTATAAAAATGTATAATCCATA
ACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGAAAAAACC
Found at i:37620 original size:18 final size:18
Alignment explanation
Indices: 37597--37688 Score: 59
Period size: 18 Copynumber: 5.2 Consensus size: 18
37587 ACCGGTCACA
37597 ACCCGACCTGACCCGTTG
1 ACCCGACCTGACCCGTTG
* * *
37615 ACCCGA-TTCGACCCATTT
1 ACCCGACCT-GACCCGTTG
37633 ACCCGA-C---CCCGTTG
1 ACCCGACCTGACCCGTTG
* *
37647 ACCCGACCCGACCTGTTG
1 ACCCGACCTGACCCGTTG
*
37665 ACTCGACCCGTTGACCCGTTG
1 ACCCGA-CC--TGACCCGTTG
37686 ACC
1 ACC
37689 GTTGGCCCGT
Statistics
Matches: 55, Mismatches: 11, Indels: 13
0.70 0.14 0.16
Matches are distributed among these distances:
14 11 0.20
15 1 0.02
17 1 0.02
18 30 0.55
19 2 0.04
21 10 0.18
ACGTcount: A:0.17, C:0.43, G:0.20, T:0.20
Consensus pattern (18 bp):
ACCCGACCTGACCCGTTG
Found at i:37659 original size:32 final size:31
Alignment explanation
Indices: 37601--37682 Score: 92
Period size: 32 Copynumber: 2.6 Consensus size: 31
37591 GTCACAACCC
* **
37601 GACCTGACCCGTTGACCCGATTCGACCCATT
1 GACCCGACCCGTTGACCCGACCCGACCCATT
* **
37632 TACCCGACCCCGTTGACCCGACCCGACCTGTT
1 GACCCGA-CCCGTTGACCCGACCCGACCCATT
*
37664 GACTCGACCCGTTGACCCG
1 GACCCGACCCGTTGACCCG
37683 TTGACCGTTG
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
31 17 0.40
32 25 0.60
ACGTcount: A:0.17, C:0.43, G:0.21, T:0.20
Consensus pattern (31 bp):
GACCCGACCCGTTGACCCGACCCGACCCATT
Found at i:37682 original size:8 final size:8
Alignment explanation
Indices: 37669--37723 Score: 58
Period size: 8 Copynumber: 6.5 Consensus size: 8
37659 CTGTTGACTC
37669 GACCCGTT
1 GACCCGTT
37677 GACCCGTT
1 GACCCGTT
37685 GA-CCGTT
1 GACCCGTT
*
37692 GGCCCGTT
1 GACCCGTT
37700 GACCGTCGTT
1 GACC--CGTT
37710 GACCACTGTT
1 GACC-C-GTT
37720 GACC
1 GACC
37724 AAAACTTTGA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
7 6 0.15
8 18 0.45
9 1 0.03
10 15 0.38
ACGTcount: A:0.13, C:0.35, G:0.27, T:0.25
Consensus pattern (8 bp):
GACCCGTT
Found at i:37692 original size:15 final size:15
Alignment explanation
Indices: 37672--37705 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
37662 TTGACTCGAC
37672 CCGTTGACCCGTTGA
1 CCGTTGACCCGTTGA
*
37687 CCGTTGGCCCGTTGA
1 CCGTTGACCCGTTGA
37702 CCGT
1 CCGT
37706 CGTTGACCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.09, C:0.35, G:0.29, T:0.26
Consensus pattern (15 bp):
CCGTTGACCCGTTGA
Found at i:44984 original size:16 final size:16
Alignment explanation
Indices: 44963--44995 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
44953 TTGATTCATA
44963 ATGATC-CTTCACCATT
1 ATGATCACTTCA-CATT
44979 ATGATCACTTCACATT
1 ATGATCACTTCACATT
44995 A
1 A
44996 ATTACTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.30, C:0.27, G:0.06, T:0.36
Consensus pattern (16 bp):
ATGATCACTTCACATT
Found at i:49225 original size:14 final size:15
Alignment explanation
Indices: 49202--49235 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
49192 AAGCATTCAA
*
49202 AAAAATTTTGACTCT
1 AAAAATTTTGACACT
49217 AAAAA-TTTGACACT
1 AAAAATTTTGACACT
49231 AAAAA
1 AAAAA
49236 AACTATTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.53, C:0.12, G:0.06, T:0.29
Consensus pattern (15 bp):
AAAAATTTTGACACT
Found at i:51690 original size:15 final size:15
Alignment explanation
Indices: 51672--51707 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
51662 ATGATGAATT
51672 TAATAAAATTGAAAA
1 TAATAAAATTGAAAA
51687 TAATAAAATTGAAAA
1 TAATAAAATTGAAAA
51702 TAATAA
1 TAATAA
51708 TACTTTTGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.28
Consensus pattern (15 bp):
TAATAAAATTGAAAA
Found at i:52044 original size:54 final size:54
Alignment explanation
Indices: 51968--52661 Score: 724
Period size: 54 Copynumber: 12.9 Consensus size: 54
51958 CATTTACTGA
* * **
51968 ATCGACACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACAATCGT
1 ATCGGCACTAAGTGTGCAACCCACAGAATTCATAATGAGTTTATGAATGATCGT
* * * * * *
52022 ATCGGTACTAAGTGTACAACCCATATAATTCATAATAAGTTTATGAACGAAT-GT
1 ATCGGCACTAAGTGTGCAACCCACAGAATTCATAATGAGTTTATGAATG-ATCGT
** * * * * * *
52076 ATCGATACTAAGTGTGCAA--CACATAATTTATTATAAGTTTACGAATGACCGT
1 ATCGGCACTAAGTGTGCAACCCACAGAATTCATAATGAGTTTATGAATGATCGT
** * * * * * *
52128 ATCGAAACTAAGTATGTAACCCACGGAATTCATAATAAGTTTATGAATAACCGT
1 ATCGGCACTAAGTGTGCAACCCACAGAATTCATAATGAGTTTATGAATGATCGT
52182 ATCGGCACTAAGTGTGCAACCCACAGAATTCATAATGAGTTTATGAATGA-CTGT
1 ATCGGCACTAAGTGTGCAACCCACAGAATTCATAATGAGTTTATGAATGATC-GT
* * * ** *
52236 GTAGGCACTATGTGTGCAACCCATGGAATTCATAATGAGTTTATGAACGATCGT
1 ATCGGCACTAAGTGTGCAACCCACAGAATTCATAATGAGTTTATGAATGATCGT
* * *
52290 ATCGGCACTATGTGTGCAACCCACGGAATTCATAATAAGTTTATGAATGATCGT
1 ATCGGCACTAAGTGTGCAACCCACAGAATTCATAATGAGTTTATGAATGATCGT
* * * *
52344 ATTGACACTAAGTGTGCAACCCACATAATTCATAATGAGTTTATGAATGACCGT
1 ATCGGCACTAAGTGTGCAACCCACAGAATTCATAATGAGTTTATGAATGATCGT
* * * *
52398 ATCGGTACTATGTGTGCAACTCGC-GAAATTCATAATGAGTTTATGAATGATCGT
1 ATCGGCACTAAGTGTGCAACCCACAG-AATTCATAATGAGTTTATGAATGATCGT
* *
52452 ATCGGCAC-AATGTGTGCAACCCA-ATGAATTCATAATGAGTTTATGAATAACCGT
1 ATCGGCACTAA-GTGTGCAACCCACA-GAATTCATAATGAGTTTATGAATGATCGT
* *
52506 ATCGGCACTATGTGTGCAACCCACGGAATTCATAATGAGTTTATGAATGA-CAGT
1 ATCGGCACTAAGTGTGCAACCCACAGAATTCATAATGAGTTTATGAATGATC-GT
* * * * *
52560 ATCGACACTATGTGTGCAACCCAC-GAAATTTACAATGAGTTTATAAATGA-CTGT
1 ATCGGCACTAAGTGTGCAACCCACAG-AATTCATAATGAGTTTATGAATGATC-GT
* ** ** *
52614 ATCGACACTGTGTGTGCAACCCATGGAATTCATAATGAGTTTGTGAAT
1 ATCGGCACTAAGTGTGCAACCCACAGAATTCATAATGAGTTTATGAAT
52662 TTCCATATCG
Statistics
Matches: 549, Mismatches: 76, Indels: 30
0.84 0.12 0.05
Matches are distributed among these distances:
51 1 0.00
52 41 0.07
53 4 0.01
54 497 0.91
55 6 0.01
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (54 bp):
ATCGGCACTAAGTGTGCAACCCACAGAATTCATAATGAGTTTATGAATGATCGT
Found at i:52355 original size:162 final size:162
Alignment explanation
Indices: 51968--52661 Score: 856
Period size: 162 Copynumber: 4.3 Consensus size: 162
51958 CATTTACTGA
* * * * *
51968 ATCGACACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACAATCGTATCGGTACTAA
1 ATCGACACTATGTGTGCAACCCACGGAATTCATAATAAGTTTATGAATAACCGTATCGGCACTAA
* * * * * * * *
52033 GTGTACAACCCATATAATTCATAATAAGTTTATGAACGAATGTATCGATACTAAGTGTGCAA--C
66 GTGTGCAACCCACAGAATTCATAATGAGTTTATGAATGACTGTATCGACACTATGTGTGCAACCC
* * * * *
52096 AC-ATAATTTATTATAAGTTTACGAATGACCGT
131 ACGA-AATTCATAATGAGTTTATGAATGATCGT
* * * *
52128 ATCGAAACTAAGTATGTAACCCACGGAATTCATAATAAGTTTATGAATAACCGTATCGGCACTAA
1 ATCGACACTATGTGTGCAACCCACGGAATTCATAATAAGTTTATGAATAACCGTATCGGCACTAA
* * *
52193 GTGTGCAACCCACAGAATTCATAATGAGTTTATGAATGACTGTGTAGGCACTATGTGTGCAACCC
66 GTGTGCAACCCACAGAATTCATAATGAGTTTATGAATGACTGTATCGACACTATGTGTGCAACCC
* * *
52258 ATGGAATTCATAATGAGTTTATGAACGATCGT
131 ACGAAATTCATAATGAGTTTATGAATGATCGT
* * * * *
52290 ATCGGCACTATGTGTGCAACCCACGGAATTCATAATAAGTTTATGAATGATCGTATTGACACTAA
1 ATCGACACTATGTGTGCAACCCACGGAATTCATAATAAGTTTATGAATAACCGTATCGGCACTAA
* * ** *
52355 GTGTGCAACCCACATAATTCATAATGAGTTTATGAATGACCGTATCGGTACTATGTGTGCAACTC
66 GTGTGCAACCCACAGAATTCATAATGAGTTTATGAATGACTGTATCGACACTATGTGTGCAACCC
*
52420 GCGAAATTCATAATGAGTTTATGAATGATCGT
131 ACGAAATTCATAATGAGTTTATGAATGATCGT
* * ** * *
52452 ATCGGCACAATGTGTGCAACCCAATGAATTCATAATGAGTTTATGAATAACCGTATCGGCACTAT
1 ATCGACACTATGTGTGCAACCCACGGAATTCATAATAAGTTTATGAATAACCGTATCGGCACTAA
* *
52517 GTGTGCAACCCACGGAATTCATAATGAGTTTATGAATGACAGTATCGACACTATGTGTGCAACCC
66 GTGTGCAACCCACAGAATTCATAATGAGTTTATGAATGACTGTATCGACACTATGTGTGCAACCC
* * *
52582 ACGAAATTTACAATGAGTTTATAAATGA-CTGT
131 ACGAAATTCATAATGAGTTTATGAATGATC-GT
* * * *
52614 ATCGACACTGTGTGTGCAACCCATGGAATTCATAATGAGTTTGTGAAT
1 ATCGACACTATGTGTGCAACCCACGGAATTCATAATAAGTTTATGAAT
52662 TTCCATATCG
Statistics
Matches: 460, Mismatches: 70, Indels: 6
0.86 0.13 0.01
Matches are distributed among these distances:
160 109 0.24
161 1 0.00
162 350 0.76
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (162 bp):
ATCGACACTATGTGTGCAACCCACGGAATTCATAATAAGTTTATGAATAACCGTATCGGCACTAA
GTGTGCAACCCACAGAATTCATAATGAGTTTATGAATGACTGTATCGACACTATGTGTGCAACCC
ACGAAATTCATAATGAGTTTATGAATGATCGT
Found at i:58334 original size:54 final size:54
Alignment explanation
Indices: 58260--58914 Score: 750
Period size: 54 Copynumber: 12.2 Consensus size: 54
58250 GGACATCATA
* * * *
58260 AGTTTATGAATGACCGTATCGATAGTAAGTGTGCAACCCACAGAATTCATAATA
1 AGTTTATGAATGACCGTATCGACACTAAGTGTGCAACCCACGGAATTCATAATG
* * * *
58314 AGTTTATGAACGACCGTATCGGCACTAAATGTGCAACCCACGGAATTCATAATA
1 AGTTTATGAATGACCGTATCGACACTAAGTGTGCAACCCACGGAATTCATAATG
* * * ** *
58368 AGTTTATGAACGATCGTATCGGCACTAAGTGTGCAACCCACTAAATTCATAATA
1 AGTTTATGAATGACCGTATCGACACTAAGTGTGCAACCCACGGAATTCATAATG
* * * * * * *
58422 AGTTTATAAACGACTGTATTGACACTAA-T-TGCAACCCATGGAAATCATAATA
1 AGTTTATGAATGACCGTATCGACACTAAGTGTGCAACCCACGGAATTCATAATG
* *
58474 AGTTTATGAACT-ACCGTATTGACACTAA-T-TGCAACCCATGGAATTCATAATG
1 AGTTTATGAA-TGACCGTATCGACACTAAGTGTGCAACCCACGGAATTCATAATG
* ** *
58526 AGTTTATGAATGACCGTATCGACACTATA-TGTGCAACCTATAGAATTAATAATG
1 AGTTTATGAATGACCGTATCGACACTA-AGTGTGCAACCCACGGAATTCATAATG
* * *
58580 AGTTTATGAATGACCATGTCGACACTATGTGTGCAACCCACGGAATTCATAATG
1 AGTTTATGAATGACCGTATCGACACTAAGTGTGCAACCCACGGAATTCATAATG
* * * *
58634 AGTTTATGAATGACTGTATTGGCACTAAGTGTGCAACCCATGGAATTCATAATG
1 AGTTTATGAATGACCGTATCGACACTAAGTGTGCAACCCACGGAATTCATAATG
*
58688 AGTTTATGAATGACCGTAT-GAACACTATGTGTGCAACCCACGGAATTCATAATG
1 AGTTTATGAATGACCGTATCG-ACACTAAGTGTGCAACCCACGGAATTCATAATG
* * * * * *
58742 AGTTTATGAATGACCATATCGAAACTATGTGTGCAACCCACGTATTTTATAATG
1 AGTTTATGAATGACCGTATCGACACTAAGTGTGCAACCCACGGAATTCATAATG
** ** *
58796 AGTTTATGAATGACCGTATC-AGCACTCTGTGTGCAACCCACATAATTTATAATG
1 AGTTTATGAATGACCGTATCGA-CACTAAGTGTGCAACCCACGGAATTCATAATG
* * * * *
58850 AGTTTATGAATGACAGTATCGGCACTATGTGTGCAACCCATGGGATTCATAATG
1 AGTTTATGAATGACCGTATCGACACTAAGTGTGCAACCCACGGAATTCATAATG
*
58904 AGTTTGTGAAT
1 AGTTTATGAAT
58915 TTCTATATCG
Statistics
Matches: 527, Mismatches: 65, Indels: 18
0.86 0.11 0.03
Matches are distributed among these distances:
51 1 0.00
52 89 0.17
53 5 0.01
54 431 0.82
55 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (54 bp):
AGTTTATGAATGACCGTATCGACACTAAGTGTGCAACCCACGGAATTCATAATG
Found at i:60286 original size:46 final size:46
Alignment explanation
Indices: 60236--60516 Score: 409
Period size: 46 Copynumber: 6.1 Consensus size: 46
60226 TTAATTTCAT
* * * *
60236 TTATGGCAACTTTTCATGCCTTAATGCATTCTTTCATACATTTTAG
1 TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAG
* * *
60282 TTATGGCATCCTTTCATACGTTAATGCATCGTTTCATGCATTTTAG
1 TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAG
* * *
60328 TTATAGCATCCTTTCATGCTTTAATGCATCCTTTCATGCATTTCAG
1 TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAG
* *
60374 TTATGGCATCCTTTTATGCCTTAATGCATCCTTTCATGTATTTTAG
1 TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAG
* *
60420 TTATGGTACCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAG
1 TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAG
* * *
60466 TTTTGGCATCCTTTCATGCCTTAAGGCATCCTTTCATGCATTTTAC
1 TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAG
60512 TTATG
1 TTATG
60517 AATTCATTTT
Statistics
Matches: 208, Mismatches: 27, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 208 1.00
ACGTcount: A:0.21, C:0.22, G:0.13, T:0.45
Consensus pattern (46 bp):
TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAG
Found at i:60337 original size:26 final size:25
Alignment explanation
Indices: 60259--60516 Score: 152
Period size: 20 Copynumber: 11.1 Consensus size: 25
60249 TCATGCCTTA
* *
60259 ATGCATTCTTTCATACATTTTAGTT
1 ATGCATCCTTTCATGCATTTTAGTT
**
60284 ATGGCATCCTTTCAT--ACGTTA---
1 AT-GCATCCTTTCATGCATTTTAGTT
*
60305 ATGCATCGTTTCATGCATTTTAGTT
1 ATGCATCCTTTCATGCATTTTAGTT
60330 ATAGCATCCTTTCATGC--TTTA---
1 AT-GCATCCTTTCATGCATTTTAGTT
*
60351 ATGCATCCTTTCATGCATTTCAGTT
1 ATGCATCCTTTCATGCATTTTAGTT
* *
60376 ATGGCATCCTTTTATGC--CTTA---
1 AT-GCATCCTTTCATGCATTTTAGTT
*
60397 ATGCATCCTTTCATGTATTTTAGTT
1 ATGCATCCTTTCATGCATTTTAGTT
* * *
60422 ATGGTACCCTTTCATGC--CTTA---
1 AT-GCATCCTTTCATGCATTTTAGTT
60443 ATGCATCCTTTCATGCATTTTAGTT
1 ATGCATCCTTTCATGCATTTTAGTT
* *
60468 TTGGCATCCTTTCATGC--CTTA---
1 AT-GCATCCTTTCATGCATTTTAGTT
* *
60489 AGGCATCCTTTCATGCATTTTACTT
1 ATGCATCCTTTCATGCATTTTAGTT
60514 ATG
1 ATG
60517 AATTCATTTT
Statistics
Matches: 176, Mismatches: 27, Indels: 60
0.67 0.10 0.23
Matches are distributed among these distances:
20 63 0.36
21 8 0.05
22 16 0.09
24 16 0.09
25 11 0.06
26 62 0.35
ACGTcount: A:0.21, C:0.22, G:0.13, T:0.45
Consensus pattern (25 bp):
ATGCATCCTTTCATGCATTTTAGTT
Found at i:67180 original size:46 final size:46
Alignment explanation
Indices: 67130--67405 Score: 426
Period size: 46 Copynumber: 6.0 Consensus size: 46
67120 TTATTCATTA
* * *
67130 ATTTTATTTATGGCATCCTTTCATGCCTTAATGCATTCTTTCATAC
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
* *
67176 ATTTTAGTTATGACATCCTTTCATGCCTTAATGTATCCTTTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
* * *
67222 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCATTTCGTGT
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
* * * * *
67268 ATTTTAGTTACGACATTCTTTCATGCCTTAATGCATCCTTTCGTGT
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
*
67314 ATTTTAGTTATGGCCTCCTTTCATGCCTTAATGCATCCTTTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
67360 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
67406 CTTAATGCAT
Statistics
Matches: 209, Mismatches: 21, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 209 1.00
ACGTcount: A:0.20, C:0.22, G:0.12, T:0.45
Consensus pattern (46 bp):
ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
Found at i:67354 original size:20 final size:20
Alignment explanation
Indices: 67329--67421 Score: 123
Period size: 20 Copynumber: 4.3 Consensus size: 20
67319 AGTTATGGCC
67329 TCCTTTCATGCCTTAATGCA
1 TCCTTTCATGCCTTAATGCA
*
67349 TCCTTTCATGCATTTTAGTTATGGCA
1 TCCTTTCATGC--CTTA---AT-GCA
67375 TCCTTTCATGCCTTAATGCA
1 TCCTTTCATGCCTTAATGCA
67395 TCCTTTCATGCCTTAATGCA
1 TCCTTTCATGCCTTAATGCA
67415 TCCTTTC
1 TCCTTTC
67422 TTGCATTTTA
Statistics
Matches: 65, Mismatches: 2, Indels: 12
0.82 0.03 0.15
Matches are distributed among these distances:
20 41 0.63
21 2 0.03
22 3 0.05
24 3 0.05
25 2 0.03
26 14 0.22
ACGTcount: A:0.18, C:0.28, G:0.11, T:0.43
Consensus pattern (20 bp):
TCCTTTCATGCCTTAATGCA
Found at i:67407 original size:66 final size:66
Alignment explanation
Indices: 67189--67471 Score: 254
Period size: 66 Copynumber: 4.2 Consensus size: 66
67179 TTAGTTATGA
*
67189 CATCCTTTCATGCCTTAATGTATCCTTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAAT
1 CATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAAT
67254 G
66 G
* * ** * * * *
67255 CATCATTTCGTGTATTTTAGTTACGACATTCTTTCATGC--CTTA---AT-GCATCCTTTCGTGT
1 CATCCTTTCATG--CCTTA---ATG-CATCCTTTCATGCATTTTAGTTATGGCATCCTTTCATG-
**
67314 ATTTTAGTTATGG
59 -CCTTA---AT-G
*
67327 CCTCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAAT
1 CATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAAT
67392 G
66 G
* * * *
67393 CATCCTTTCATGCCTTAATGCATCCTTTCTTGCATTTTAGTTATGGTATCATTTCATGCCTTAAG
1 CATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAAT
67458 G
66 G
* *
67459 CATCATTTTATGC
1 CATCCTTTCATGC
67472 ATTTTAGTTA
Statistics
Matches: 170, Mismatches: 29, Indels: 36
0.72 0.12 0.15
Matches are distributed among these distances:
66 107 0.63
67 6 0.04
68 9 0.05
70 9 0.05
71 6 0.04
72 33 0.19
ACGTcount: A:0.19, C:0.23, G:0.13, T:0.45
Consensus pattern (66 bp):
CATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAAT
G
Found at i:67491 original size:46 final size:46
Alignment explanation
Indices: 67398--67492 Score: 131
Period size: 46 Copynumber: 2.1 Consensus size: 46
67388 TAATGCATCC
* * *
67398 TTTCATGCCTTAATGCATCCTTTCTTGCATTTTAGTTATGGTATCA
1 TTTCATGCCTTAAGGCATCATTTCTTGCATTTTAGTTATGATATCA
67444 TTTCATGCCTTAAGGCATCATTT-TATGCATTTTAGTTATGA-ATTCA
1 TTTCATGCCTTAAGGCATCATTTCT-TGCATTTTAGTTATGATA-TCA
67490 TTT
1 TTT
67493 TGGAGCAGTT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
45 2 0.05
46 42 0.95
ACGTcount: A:0.22, C:0.17, G:0.13, T:0.48
Consensus pattern (46 bp):
TTTCATGCCTTAAGGCATCATTTCTTGCATTTTAGTTATGATATCA
Found at i:74987 original size:18 final size:18
Alignment explanation
Indices: 74964--75004 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
74954 GAATTCAACT
74964 AATATCTTTTTGAAGTTC
1 AATATCTTTTTGAAGTTC
74982 AATATCTTTTTGAAGTTC
1 AATATCTTTTTGAAGTTC
75000 AATAT
1 AATAT
75005 TGAAGCTGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.32, C:0.10, G:0.10, T:0.49
Consensus pattern (18 bp):
AATATCTTTTTGAAGTTC
Found at i:75878 original size:29 final size:30
Alignment explanation
Indices: 75821--75890 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
75811 CCTTTTGAAA
*
75821 AAAAAAATCTTTGAGTTTGTTTCTCTTAAC
1 AAAAAAATCTTTGAGTTTATTTCTCTTAAC
* *
75851 AAAAACATTTTTGAGTTTATTTCT-TTAA-
1 AAAAAAATCTTTGAGTTTATTTCTCTTAAC
*
75879 AAACAAAT-TTTG
1 AAAAAAATCTTTG
75891 TCTCTCTTGA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
27 4 0.11
28 6 0.17
29 4 0.11
30 21 0.60
ACGTcount: A:0.37, C:0.10, G:0.09, T:0.44
Consensus pattern (30 bp):
AAAAAAATCTTTGAGTTTATTTCTCTTAAC
Found at i:76156 original size:21 final size:21
Alignment explanation
Indices: 76132--76192 Score: 53
Period size: 21 Copynumber: 3.2 Consensus size: 21
76122 ATTGTTTCCC
76132 TTGAAATGAATTTTGTCTCAT
1 TTGAAATGAATTTTGTCTCAT
* * *
76153 TTGAGAT--A-GTT-TC-C-C
1 TTGAAATGAATTTTGTCTCAT
76168 TTGAAATGAATTTTGTCTCAT
1 TTGAAATGAATTTTGTCTCAT
76189 TTGA
1 TTGA
76193 GATAGTTTCC
Statistics
Matches: 28, Mismatches: 6, Indels: 12
0.61 0.13 0.26
Matches are distributed among these distances:
15 6 0.21
16 1 0.04
17 3 0.11
18 4 0.14
19 3 0.11
20 1 0.04
21 10 0.36
ACGTcount: A:0.26, C:0.11, G:0.16, T:0.46
Consensus pattern (21 bp):
TTGAAATGAATTTTGTCTCAT
Found at i:76165 original size:36 final size:36
Alignment explanation
Indices: 76116--76209 Score: 161
Period size: 36 Copynumber: 2.6 Consensus size: 36
76106 AACAAACATC
* *
76116 TTTGAAATTGTTTCCCTTGAAATGAATTTTGTCTCA
1 TTTGAGATAGTTTCCCTTGAAATGAATTTTGTCTCA
76152 TTTGAGATAGTTTCCCTTGAAATGAATTTTGTCTCA
1 TTTGAGATAGTTTCCCTTGAAATGAATTTTGTCTCA
*
76188 TTTGAGATAGTTTCCCATGAAA
1 TTTGAGATAGTTTCCCTTGAAA
76210 CACTGATTAT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 55 1.00
ACGTcount: A:0.27, C:0.14, G:0.16, T:0.44
Consensus pattern (36 bp):
TTTGAGATAGTTTCCCTTGAAATGAATTTTGTCTCA
Found at i:76878 original size:3 final size:3
Alignment explanation
Indices: 76833--76866 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
76823 TATTGTTATG
*
76833 TTA TTA TTA TAA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
76867 ATTGTTTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:77425 original size:3 final size:3
Alignment explanation
Indices: 77417--77441 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
77407 GATTAGAATA
77417 AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG A
77442 GAAAGCATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:78436 original size:30 final size:30
Alignment explanation
Indices: 78402--78470 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
78392 AGCCCTTTCG
*
78402 GTTTCTATTAATACCATTTTAGTCCCTTAA
1 GTTTCTATTAATACCAGTTTAGTCCCTTAA
* * *
78432 GTTTCTATTAATATCAGTTTAGTCCTTTAG
1 GTTTCTATTAATACCAGTTTAGTCCCTTAA
*
78462 GTTTTTATT
1 GTTTCTATT
78471 TTTTGCTGTT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.23, C:0.14, G:0.10, T:0.52
Consensus pattern (30 bp):
GTTTCTATTAATACCAGTTTAGTCCCTTAA
Found at i:82104 original size:31 final size:31
Alignment explanation
Indices: 82068--82190 Score: 212
Period size: 31 Copynumber: 4.0 Consensus size: 31
82058 CCCGAAGGAC
* *
82068 CAGTCCATA-GATTCCGAAGAACCTAGGTAAA
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
82099 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
82130 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
82161 CAGTCCATATGTCCCGAAGAACATAGGTAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAA
82191 CCCTCGACCC
Statistics
Matches: 89, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
31 88 0.99
32 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.20
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:83867 original size:31 final size:31
Alignment explanation
Indices: 83829--84013 Score: 318
Period size: 31 Copynumber: 6.0 Consensus size: 31
83819 CCCGAGGGAC
* *
83829 CAGTCCATA-GATTCCGAAGAACCTAGGTAAA
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
83860 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
83891 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
83922 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
83953 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
* *
83984 CAATCAATATGTCCCGAAGAACATAGGTAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAA
84014 CCCTCGACCC
Statistics
Matches: 149, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
31 148 0.99
32 1 0.01
ACGTcount: A:0.39, C:0.22, G:0.19, T:0.19
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:87834 original size:20 final size:20
Alignment explanation
Indices: 87811--87873 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
87801 AGTTTTGATG
* *
87811 CTTTCACAATAGTTTCGAAA
1 CTTTCACAAAAGTTTCAAAA
*
87831 CTTTCATAAAAGTTTCAAAA
1 CTTTCACAAAAGTTTCAAAA
* * *
87851 CTATCCCTAAAGTTTCAAAA
1 CTTTCACAAAAGTTTCAAAA
87871 CTT
1 CTT
87874 CATGTGCATG
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.38, C:0.21, G:0.06, T:0.35
Consensus pattern (20 bp):
CTTTCACAAAAGTTTCAAAA
Found at i:87982 original size:27 final size:27
Alignment explanation
Indices: 87952--88006 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
87942 TAAATGGCTA
*
87952 GCAACTCATATAATTCATAATTATCAT
1 GCAACTCATATAATTCATAATTACCAT
*
87979 GCAACTCATATGATTCATAATTACCAT
1 GCAACTCATATAATTCATAATTACCAT
88006 G
1 G
88007 TAAACAACGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.38, C:0.20, G:0.07, T:0.35
Consensus pattern (27 bp):
GCAACTCATATAATTCATAATTACCAT
Found at i:88696 original size:14 final size:13
Alignment explanation
Indices: 88656--88698 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
88646 ATAAATATTA
88656 AACCTTAAACCAT
1 AACCTTAAACCAT
* *
88669 AACCATAACCCCAT
1 AACCTTAA-ACCAT
88683 AACCTTTAAACCAT
1 AACC-TTAAACCAT
88697 AA
1 AA
88699 ACTCTAAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
13 7 0.29
14 14 0.58
15 3 0.12
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.21
Consensus pattern (13 bp):
AACCTTAAACCAT
Found at i:103372 original size:21 final size:21
Alignment explanation
Indices: 103346--103400 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
103336 AGGGTGTCAA
*
103346 AGTGCATCCATTCACCCCTGC
1 AGTGCATCCATGCACCCCTGC
103367 AGTGCATCCATGCACCCCTGC
1 AGTGCATCCATGCACCCCTGC
103388 AGTGCATCCATGC
1 AGTGCATCCATGC
103401 GCCTGCACTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.20, C:0.40, G:0.18, T:0.22
Consensus pattern (21 bp):
AGTGCATCCATGCACCCCTGC
Found at i:103469 original size:20 final size:20
Alignment explanation
Indices: 103444--103556 Score: 199
Period size: 20 Copynumber: 5.7 Consensus size: 20
103434 AATGTACTTA
* *
103444 GTGCATCGATACATCCTGAT
1 GTGCATCGATGCATCCTGCT
103464 GTGCATCGATGCATCCTGCT
1 GTGCATCGATGCATCCTGCT
103484 GTGCATCGATGCATCCTGCT
1 GTGCATCGATGCATCCTGCT
103504 GTGCATCGATGCATCCTGCT
1 GTGCATCGATGCATCCTGCT
103524 GTGCATCGATGCATCCTGCT
1 GTGCATCGATGCATCCTGCT
*
103544 GTGCATCCATGCA
1 GTGCATCGATGCA
103557 CGAAGGCTGC
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 90 1.00
ACGTcount: A:0.18, C:0.29, G:0.24, T:0.29
Consensus pattern (20 bp):
GTGCATCGATGCATCCTGCT
Found at i:106911 original size:21 final size:21
Alignment explanation
Indices: 106885--106983 Score: 110
Period size: 21 Copynumber: 4.7 Consensus size: 21
106875 AGGGTGTCAA
*
106885 AGTGCATCCTTGCACCCCTGT
1 AGTGCATCCATGCACCCCTGT
106906 AGTGCATCCATGCACCCCTGT
1 AGTGCATCCATGCACCCCTGT
** **
106927 AGTGCATCCATGCACATGCACT
1 AGTGCATCCATGCAC-CCCTGT
* * *
106949 AGTGCATCGATGCA-CCATGC
1 AGTGCATCCATGCACCCCTGT
106969 AGTGCATCCATGCAC
1 AGTGCATCCATGCAC
106984 TCGATTTCAA
Statistics
Matches: 63, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
20 13 0.21
21 35 0.56
22 15 0.24
ACGTcount: A:0.22, C:0.34, G:0.20, T:0.23
Consensus pattern (21 bp):
AGTGCATCCATGCACCCCTGT
Found at i:107029 original size:12 final size:12
Alignment explanation
Indices: 107012--107069 Score: 51
Period size: 12 Copynumber: 5.5 Consensus size: 12
107002 AGTGCATCGA
107012 TGCATCCTGATG
1 TGCATCCTGATG
107024 TGCAT-C-GA--
1 TGCATCCTGATG
107032 TGCATCCTGATG
1 TGCATCCTGATG
107044 TGCAT-C-GA--
1 TGCATCCTGATG
*
107052 TGCATCCTGCTG
1 TGCATCCTGATG
107064 TGCATC
1 TGCATC
107070 GATGCATCCT
Statistics
Matches: 37, Mismatches: 1, Indels: 16
0.69 0.02 0.30
Matches are distributed among these distances:
8 10 0.27
9 2 0.05
10 7 0.19
11 2 0.05
12 16 0.43
ACGTcount: A:0.17, C:0.28, G:0.24, T:0.31
Consensus pattern (12 bp):
TGCATCCTGATG
Found at i:107085 original size:20 final size:20
Alignment explanation
Indices: 107003--107079 Score: 145
Period size: 20 Copynumber: 3.9 Consensus size: 20
106993 AATGCACTTA
107003 GTGCATCGATGCATCCTGAT
1 GTGCATCGATGCATCCTGAT
107023 GTGCATCGATGCATCCTGAT
1 GTGCATCGATGCATCCTGAT
*
107043 GTGCATCGATGCATCCTGCT
1 GTGCATCGATGCATCCTGAT
107063 GTGCATCGATGCATCCT
1 GTGCATCGATGCATCCT
107080 ACTGTGTATC
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 56 1.00
ACGTcount: A:0.18, C:0.27, G:0.25, T:0.30
Consensus pattern (20 bp):
GTGCATCGATGCATCCTGAT
Found at i:110864 original size:2 final size:2
Alignment explanation
Indices: 110857--110889 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
110847 TATACCCATA
110857 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 A
110890 CACAATAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:112819 original size:37 final size:36
Alignment explanation
Indices: 112769--112912 Score: 207
Period size: 36 Copynumber: 4.0 Consensus size: 36
112759 CTTTTAGATT
112769 ATATTTTGTCTCTCTTGAGACAATTTCCCTTGAAAAA
1 ATATTTTGTCTCTCTTGAGACAATTTCCCTTG-AAAA
* *
112806 ATATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAAA
1 ATATTTTGTCTCTCTTGAGACAATTTCCCTTGAAAA
* * *
112842 ATATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAAC
1 ATATTTTGTCTCTCTTGAGACAATTTCCCTTGAAAA
* * *
112878 ATATTTTGTCTCGCTTGAGACCATTTCTCTTGAAA
1 ATATTTTGTCTCTCTTGAGACAATTTCCCTTGAAA
112913 CAAATTATCC
Statistics
Matches: 99, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
36 69 0.70
37 30 0.30
ACGTcount: A:0.25, C:0.19, G:0.13, T:0.43
Consensus pattern (36 bp):
ATATTTTGTCTCTCTTGAGACAATTTCCCTTGAAAA
Found at i:112914 original size:36 final size:36
Alignment explanation
Indices: 112769--112897 Score: 213
Period size: 36 Copynumber: 3.6 Consensus size: 36
112759 CTTTTAGATT
* *
112769 ATATTTTGTCTCTCTTGAGACAATTTCCCTTGAAAAA
1 ATATTTTGTCTCTCTTGAGATAGTTTCCCTTG-AAAA
112806 ATATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAAA
1 ATATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAAA
*
112842 ATATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAAC
1 ATATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAAA
*
112878 ATATTTTGTCTCGCTTGAGA
1 ATATTTTGTCTCTCTTGAGA
112898 CCATTTCTCT
Statistics
Matches: 88, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
36 58 0.66
37 30 0.34
ACGTcount: A:0.25, C:0.18, G:0.14, T:0.43
Consensus pattern (36 bp):
ATATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAAA
Found at i:113077 original size:83 final size:83
Alignment explanation
Indices: 112940--113133 Score: 262
Period size: 83 Copynumber: 2.3 Consensus size: 83
112930 TGGCCAGCTT
* * * *
112940 TCCTCATCACGTAGGAACCGTGTCATCAACTGACCAGATCTCCTCATCACGTAGGAGTCGCGCCA
1 TCCTCATCACATAGGAACCGTGTCATCAACTGACCAGATCTCCTCATCACGTAGGAGCCACACCA
113005 ACCTTAAATAACCAGCCG
66 ACCTTAAATAACCAGCCG
** * * * * *
113023 TCCTCATCACATAGGAATTGTGTCATCCATTGACCAGATTTCCTCATCATGTAGGAGCCACATCA
1 TCCTCATCACATAGGAACCGTGTCATCAACTGACCAGATCTCCTCATCACGTAGGAGCCACACCA
* *
113088 ACCTTAGATAACCAGTCG
66 ACCTTAAATAACCAGCCG
*
113106 TCCTCATCACATAGGAACCGTGTTATCA
1 TCCTCATCACATAGGAACCGTGTCATCA
113134 TCATCCCTAA
Statistics
Matches: 94, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
83 94 1.00
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.25
Consensus pattern (83 bp):
TCCTCATCACATAGGAACCGTGTCATCAACTGACCAGATCTCCTCATCACGTAGGAGCCACACCA
ACCTTAAATAACCAGCCG
Found at i:113344 original size:138 final size:137
Alignment explanation
Indices: 113023--113542 Score: 523
Period size: 138 Copynumber: 3.8 Consensus size: 137
113013 TAACCAGCCG
* ** ** * * *
113023 TCCTCATCACATAGGAATTGTGTCATCCATTGACCAGATTTCCTCATCATGTAGGAGCCACATCA
1 TCCTCATCACGTAGGAACCGTGTCATCCACCGACCAGATATCCTCATCACGTAGGAG-CACGTCA
* *
113088 ACCTTAGATAACCAGTCGTCCTCATCACA-TAGGAACCGTGTTAT---CA-TCATCCCTAAATAT
65 ACCTTAGATAACCAGTCGTCCTCATCA-AGTAGGAACCGTGTTATCACCATTTATCCCTAAAGAT
* * *
113148 GGCCATCCG
129 GGCTAACCA
*
113157 TCCTCATCACGTAGGAACCGTGTCATCCACCGACCAGATCTCCTCATCACGTAGGAGTCACGTCA
1 TCCTCATCACGTAGGAACCGTGTCATCCACCGACCAGATATCCTCATCACGTAGGAG-CACGTCA
* * ** *
113222 ACCTTAGATAATCAGCCGTCCTCATCAAGTAAAAATCGTGTTATCACCATTTATCCCTAAAGATG
65 ACCTTAGATAACCAGTCGTCCTCATCAAGTAGGAACCGTGTTATCACCATTTATCCCTAAAGATG
* *
113287 GGTAGCCA
130 GCTAACCA
* * * * * * *
113295 TCTTCATCATGTAGGAACCGTGTCATCCACCGACCATATATCCTTATCACATAGGAGCCCTGTAA
1 TCCTCATCACGTAGGAACCGTGTCATCCACCGACCAGATATCCTCATCACGTAGGAGCAC-GTCA
* * * *
113360 ACCTTAGGTAACCAGTCGTCCTCATCACGTAGGAACCATATTATCACCATTTATCCCTAAAGAT-
65 ACCTTAGATAACCAGTCGTCCTCATCAAGTAGGAACCGTGTTATCACCATTTATCCCTAAAGATG
* *
113424 GTTCAACAA
130 GCT-AACCA
* * ** * * *
113433 TCCTCATCACGTAGGAACCGTGTCATCCATCGACCAGATCTGTTCATCACGTATGAGAAGCATCA
1 TCCTCATCACGTAGGAACCGTGTCATCCACCGACCAGATATCCTCATCACGTAGGAGCA-CGTCA
* * * *
113498 CCCTTAGATAATCAGAT-TTCCTCATCATGTAGGAACCGTGTTATC
65 ACCTTAGATAACCAG-TCGTCCTCATCAAGTAGGAACCGTGTTATC
113543 TCCAAATTTA
Statistics
Matches: 316, Mismatches: 61, Indels: 14
0.81 0.16 0.04
Matches are distributed among these distances:
133 1 0.00
134 93 0.29
137 6 0.02
138 214 0.68
139 2 0.01
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.27
Consensus pattern (137 bp):
TCCTCATCACGTAGGAACCGTGTCATCCACCGACCAGATATCCTCATCACGTAGGAGCACGTCAA
CCTTAGATAACCAGTCGTCCTCATCAAGTAGGAACCGTGTTATCACCATTTATCCCTAAAGATGG
CTAACCA
Found at i:113814 original size:3 final size:3
Alignment explanation
Indices: 113806--113839 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
113796 TTAGTTACTT
113806 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
113840 AAATTAATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:116940 original size:19 final size:19
Alignment explanation
Indices: 116892--116943 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
116882 TTTTAAAGGA
*
116892 GTGCATCGATACACTTCAG
1 GTGCATCGATGCACTTCAG
116911 GTGCATCGATGCACTTCAG
1 GTGCATCGATGCACTTCAG
116930 GTGCATCGATGCAC
1 GTGCATCGATGCAC
116944 ATTGAACAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.25
Consensus pattern (19 bp):
GTGCATCGATGCACTTCAG
Found at i:128127 original size:18 final size:19
Alignment explanation
Indices: 128084--128128 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
128074 AAATAAAATA
*
128084 ATCCCAAAGATAATTGTTT
1 ATCCTAAAGATAATTGTTT
128103 ATCCTAAAGATAATT-TTT
1 ATCCTAAAGATAATTGTTT
*
128121 TTCCTAAA
1 ATCCTAAA
128129 TTCAAACTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 10 0.42
19 14 0.58
ACGTcount: A:0.38, C:0.16, G:0.07, T:0.40
Consensus pattern (19 bp):
ATCCTAAAGATAATTGTTT
Found at i:130155 original size:19 final size:20
Alignment explanation
Indices: 130133--130170 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
130123 AATAAAGTCA
130133 TAATT-ATTTTTTAAAACAT
1 TAATTGATTTTTTAAAACAT
*
130152 TAATTGTTTTTTTAAAACA
1 TAATTGATTTTTTAAAACA
130171 ATATTTAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.39, C:0.05, G:0.03, T:0.53
Consensus pattern (20 bp):
TAATTGATTTTTTAAAACAT
Found at i:137469 original size:21 final size:21
Alignment explanation
Indices: 137432--137488 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
137422 ACAGTTTCCA
*
137432 AATTCGCAATAC-GAATTTGG
1 AATTCGCAACACAGAATTTGG
*
137452 AATTCTCAACACAGAATTTGG
1 AATTCGCAACACAGAATTTGG
*
137473 AATTCGCAACATAGAA
1 AATTCGCAACACAGAA
137489 GTCAAATTCG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 10 0.31
21 22 0.69
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.26
Consensus pattern (21 bp):
AATTCGCAACACAGAATTTGG
Found at i:137541 original size:20 final size:20
Alignment explanation
Indices: 137516--137653 Score: 70
Period size: 20 Copynumber: 6.9 Consensus size: 20
137506 AATTTGACAA
137516 TTTCGCAACACGAATTTCTT
1 TTTCGCAACACGAATTTCTT
*
137536 TTTCGCAACTCG-ATTT-TT
1 TTTCGCAACACGAATTTCTT
* *
137554 AAATTCGCAACAC-AAGTTTCCT
1 --TTTCGCAACACGAA-TTTCTT
* * *
137576 TTTCGCAACAAGATTTTCTA
1 TTTCGCAACACGAATTTCTT
* ** **
137596 ATTCGCAA-AGCGCGTTTCAA
1 TTTCGCAACA-CGAATTTCTT
* *
137616 ATTCGAAACACGAATTT-TAT
1 TTTCGCAACACGAATTTCT-T
*
137636 TTTCGCAACACGATTTTC
1 TTTCGCAACACGAATTTC
137654 GTCGAATTCG
Statistics
Matches: 86, Mismatches: 22, Indels: 19
0.68 0.17 0.15
Matches are distributed among these distances:
18 2 0.02
19 5 0.06
20 73 0.85
21 5 0.06
22 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (20 bp):
TTTCGCAACACGAATTTCTT
Found at i:137541 original size:42 final size:40
Alignment explanation
Indices: 137495--137584 Score: 110
Period size: 40 Copynumber: 2.2 Consensus size: 40
137485 AGAAGTCAAA
* *
137495 TTCGCAACTTGAATTTGACAATTTCGCAACACGAA-TTTCTTT
1 TTCGCAACTCGAATTTGA-AA-TTCGCAACAC-AAGTTTCCTT
* *
137537 TTCGCAACTCGATTTTTAAATTCGCAACACAAGTTTCCTT
1 TTCGCAACTCGAATTTGAAATTCGCAACACAAGTTTCCTT
137577 TTCGCAAC
1 TTCGCAAC
137585 AAGATTTTCT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
39 2 0.05
40 24 0.56
41 2 0.05
42 15 0.35
ACGTcount: A:0.28, C:0.24, G:0.11, T:0.37
Consensus pattern (40 bp):
TTCGCAACTCGAATTTGAAATTCGCAACACAAGTTTCCTT
Found at i:137601 original size:60 final size:60
Alignment explanation
Indices: 137516--137671 Score: 152
Period size: 60 Copynumber: 2.5 Consensus size: 60
137506 AATTTGACAA
* ** ** * * * *
137516 TTTCGCAACACGAATTTCTTTTTCGCAACTCGATTTTTAAATTCGCAACAC-AAGTTTCCT
1 TTTCGCAACACGATTTTCTAATTCGCAAAGCGAGTTTCAAATTCGAAACACGAA-TTTCAT
* * *
137576 TTTCGCAACAAGATTTTCTAATTCGCAAAGCGCGTTTCAAATTCGAAACACGAATTTTAT
1 TTTCGCAACACGATTTTCTAATTCGCAAAGCGAGTTTCAAATTCGAAACACGAATTTCAT
*
137636 TTTCGCAACACGATTTTCGTCGAATTCGCAAGGCGA
1 TTTCGCAACACGATTTTC-T--AATTCGCAAAGCGA
137672 ATGTAAATTT
Statistics
Matches: 77, Mismatches: 15, Indels: 5
0.79 0.15 0.05
Matches are distributed among these distances:
60 62 0.81
61 3 0.04
63 12 0.16
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (60 bp):
TTTCGCAACACGATTTTCTAATTCGCAAAGCGAGTTTCAAATTCGAAACACGAATTTCAT
Found at i:137613 original size:40 final size:40
Alignment explanation
Indices: 137517--137603 Score: 115
Period size: 40 Copynumber: 2.2 Consensus size: 40
137507 ATTTGACAAT
* **
137517 TTCGCAACACGAA-TTTCTTTTTCGCAACTCGATTTTTAAA
1 TTCGCAACAC-AAGTTTCCTTTTCGCAACAAGATTTTTAAA
137557 TTCGCAACACAAGTTTCCTTTTCGCAACAAGATTTTCT-AA
1 TTCGCAACACAAGTTTCCTTTTCGCAACAAGATTTT-TAAA
137597 TTCGCAA
1 TTCGCAA
137604 AGCGCGTTTC
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
39 2 0.05
40 39 0.93
41 1 0.02
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.37
Consensus pattern (40 bp):
TTCGCAACACAAGTTTCCTTTTCGCAACAAGATTTTTAAA
Found at i:137819 original size:22 final size:22
Alignment explanation
Indices: 137794--137914 Score: 215
Period size: 22 Copynumber: 5.5 Consensus size: 22
137784 TCTCTCACTC
*
137794 TCTCCGACGACATCCGTCCCCA
1 TCTCCGGCGACATCCGTCCCCA
137816 TCTCCGGCGACATCCGTCCCCA
1 TCTCCGGCGACATCCGTCCCCA
137838 TCTCCGGCGACATCCGTCCCCA
1 TCTCCGGCGACATCCGTCCCCA
137860 TCTCCGGCGACATCCGTCCCCA
1 TCTCCGGCGACATCCGTCCCCA
*
137882 TCTCCGGAGACATCCGTCCCCA
1 TCTCCGGCGACATCCGTCCCCA
*
137904 TATCCGGCGAC
1 TCTCCGGCGAC
137915 CCCCTCCATC
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 95 1.00
ACGTcount: A:0.16, C:0.48, G:0.18, T:0.18
Consensus pattern (22 bp):
TCTCCGGCGACATCCGTCCCCA
Found at i:138311 original size:28 final size:28
Alignment explanation
Indices: 138259--138312 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
138249 CTTAAATTCA
* *
138259 CAACACGAAAATTGCAACACGAAAATCG
1 CAACACGAAAATCGCAACACAAAAATCG
*
138287 CAACACGAAAATCGCAACTCAAAAAT
1 CAACACGAAAATCGCAACACAAAAAT
138313 GAAATTCGCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.52, C:0.26, G:0.11, T:0.11
Consensus pattern (28 bp):
CAACACGAAAATCGCAACACAAAAATCG
Found at i:138312 original size:14 final size:14
Alignment explanation
Indices: 138259--138304 Score: 83
Period size: 14 Copynumber: 3.3 Consensus size: 14
138249 CTTAAATTCA
*
138259 CAACACGAAAATTG
1 CAACACGAAAATCG
138273 CAACACGAAAATCG
1 CAACACGAAAATCG
138287 CAACACGAAAATCG
1 CAACACGAAAATCG
138301 CAAC
1 CAAC
138305 TCAAAAATGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
14 31 1.00
ACGTcount: A:0.50, C:0.28, G:0.13, T:0.09
Consensus pattern (14 bp):
CAACACGAAAATCG
Found at i:138321 original size:20 final size:20
Alignment explanation
Indices: 138293--138394 Score: 99
Period size: 20 Copynumber: 5.4 Consensus size: 20
138283 ATCGCAACAC
*
138293 GAAAATCGCAACTCAAAAAT
1 GAAATTCGCAACTCAAAAAT
**
138313 GAAATTCGCAA--C-ACGA-
1 GAAATTCGCAACTCAAAAAT
* *
138329 G-AA-TCGCAACTCGAAAAC
1 GAAATTCGCAACTCAAAAAT
*
138347 GAAATTCGCAACGCAAAAAT
1 GAAATTCGCAACTCAAAAAT
*
138367 GAAATTCGCAACTCGAAAAT
1 GAAATTCGCAACTCAAAAAT
138387 GAAATTCG
1 GAAATTCG
138395 ACTTGCAAAT
Statistics
Matches: 66, Mismatches: 10, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
14 6 0.09
15 2 0.03
16 2 0.03
17 4 0.06
18 2 0.03
19 2 0.03
20 48 0.73
ACGTcount: A:0.47, C:0.22, G:0.16, T:0.16
Consensus pattern (20 bp):
GAAATTCGCAACTCAAAAAT
Found at i:138327 original size:34 final size:34
Alignment explanation
Indices: 138277--138358 Score: 128
Period size: 34 Copynumber: 2.4 Consensus size: 34
138267 AAATTGCAAC
*
138277 ACGAAAATCGCAACACGAAAATCGCAACTCAAAA
1 ACGAAATTCGCAACACGAAAATCGCAACTCAAAA
* * *
138311 ATGAAATTCGCAACACGAGAATCGCAACTCGAAA
1 ACGAAATTCGCAACACGAAAATCGCAACTCAAAA
138345 ACGAAATTCGCAAC
1 ACGAAATTCGCAAC
138359 GCAAAAATGA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 43 1.00
ACGTcount: A:0.48, C:0.26, G:0.15, T:0.12
Consensus pattern (34 bp):
ACGAAATTCGCAACACGAAAATCGCAACTCAAAA
Found at i:141472 original size:53 final size:53
Alignment explanation
Indices: 141345--141511 Score: 275
Period size: 52 Copynumber: 3.2 Consensus size: 53
141335 CTATGTGTAC
*
141345 TATCGACACTATGTGTGCAACCATGGAATTCATAATGAGTTTGTGAA-TACCA
1 TATCGGCACTATGTGTGCAACCATGGAATTCATAATGAGTTTGTGAATTACCA
*
141397 TATCGGCACTATGTGTGCAACCATGGAATTCATAATGAGTTTATGAATTACCA
1 TATCGGCACTATGTGTGCAACCATGGAATTCATAATGAGTTTGTGAATTACCA
* *
141450 TATTGGCACTATGTGTTCAACCATGGAATTCATAATGAGTTTGTGAATTA-CA
1 TATCGGCACTATGTGTGCAACCATGGAATTCATAATGAGTTTGTGAATTACCA
*
141502 TATCGACACT
1 TATCGGCACT
141512 TAGGTGCAAC
Statistics
Matches: 107, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
52 55 0.51
53 52 0.49
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.33
Consensus pattern (53 bp):
TATCGGCACTATGTGTGCAACCATGGAATTCATAATGAGTTTGTGAATTACCA
Found at i:146110 original size:16 final size:16
Alignment explanation
Indices: 146089--146141 Score: 97
Period size: 16 Copynumber: 3.3 Consensus size: 16
146079 ATTTGGTACT
146089 CGACTAAATTTCAGCA
1 CGACTAAATTTCAGCA
146105 CGACTAAATTTCAGCA
1 CGACTAAATTTCAGCA
146121 CGACTAAATTTCAGCA
1 CGACTAAATTTCAGCA
*
146137 TGACT
1 CGACT
146142 TTTCATCCAC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.36, C:0.25, G:0.13, T:0.26
Consensus pattern (16 bp):
CGACTAAATTTCAGCA
Found at i:148571 original size:30 final size:30
Alignment explanation
Indices: 148537--148624 Score: 73
Period size: 30 Copynumber: 3.2 Consensus size: 30
148527 TTTGTGTGCA
148537 ACCATGGAATTCATAATGAGTTTGTGAATT
1 ACCATGGAATTCATAATGAGTTTGTGAATT
*** * * *
148567 ACCAT---A-TCGGCATTA-TGTGTGCA--
1 ACCATGGAATTCATAATGAGTTTGTGAATT
148590 ACCATGGAATTCATAATGAGTTTGTGAATT
1 ACCATGGAATTCATAATGAGTTTGTGAATT
148620 ACCAT
1 ACCAT
148625 ATCGGCACTA
Statistics
Matches: 39, Mismatches: 12, Indels: 14
0.60 0.18 0.22
Matches are distributed among these distances:
23 5 0.13
25 6 0.15
26 6 0.15
27 6 0.15
28 6 0.15
30 10 0.26
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (30 bp):
ACCATGGAATTCATAATGAGTTTGTGAATT
Found at i:148609 original size:53 final size:53
Alignment explanation
Indices: 148518--148792 Score: 415
Period size: 53 Copynumber: 5.2 Consensus size: 53
148508 CTATGTGTAC
* *
148518 TATCAGCACTTTGTGTGCAACCATGGAATTCATAATGAGTTTGTGAATTACCA
1 TATCGGCACTATGTGTGCAACCATGGAATTCATAATGAGTTTGTGAATTACCA
*
148571 TATCGGCATTATGTGTGCAACCATGGAATTCATAATGAGTTTGTGAATTACCA
1 TATCGGCACTATGTGTGCAACCATGGAATTCATAATGAGTTTGTGAATTACCA
* * *
148624 TATCGGCACTATGTGTGTAACTATGGAATTCACAATGAGTTTGTGAATTACCA
1 TATCGGCACTATGTGTGCAACCATGGAATTCATAATGAGTTTGTGAATTACCA
* * *
148677 TATCGGCACTATGTGTGCAACCATGAAATTCATAATAAGTTTTTGAATTACCA
1 TATCGGCACTATGTGTGCAACCATGGAATTCATAATGAGTTTGTGAATTACCA
* * * * *
148730 TATCGACACTATGTGTACAACCACGAAATTCATAATGAGTTTGTGAGTTACCA
1 TATCGGCACTATGTGTGCAACCATGGAATTCATAATGAGTTTGTGAATTACCA
*
148783 TATCGACACT
1 TATCGGCACT
148793 TAGGTACAAC
Statistics
Matches: 203, Mismatches: 19, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
53 203 1.00
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (53 bp):
TATCGGCACTATGTGTGCAACCATGGAATTCATAATGAGTTTGTGAATTACCA
Found at i:150149 original size:13 final size:13
Alignment explanation
Indices: 150091--150155 Score: 76
Period size: 13 Copynumber: 5.0 Consensus size: 13
150081 TTCATAAATC
*
150091 TATGACGCGTATT
1 TATGACGCGCATT
* * *
150104 GATGACACACATT
1 TATGACGCGCATT
* *
150117 TATGACTCACATT
1 TATGACGCGCATT
150130 TATGACGCGCATT
1 TATGACGCGCATT
150143 TATGACGCGCATT
1 TATGACGCGCATT
150156 GAGCGTCATT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 44 1.00
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (13 bp):
TATGACGCGCATT
Found at i:150220 original size:85 final size:85
Alignment explanation
Indices: 150127--150294 Score: 212
Period size: 85 Copynumber: 2.0 Consensus size: 85
150117 TATGACTCAC
* * * * *
150127 ATTTATGACGCGCATTTATGACGCGCATTGAGCGTCATTGAAGCCCCCGTCA-TAAATGAAGATG
1 ATTTATGACACGCATGTATGACGCACATTGAGCGTCATTGAAGCACCCGTCATTAAA-AAAGATG
*
150191 ACACACATTTGTGTGTCATAA
65 ACACACATTCGTGTGTCATAA
* * * * * *
150212 ATTTATGACATGCATGTATGACTCATATTGCGTGTCATTGAAGCACGCGTCATTAAAAAAGATGA
1 ATTTATGACACGCATGTATGACGCACATTGAGCGTCATTGAAGCACCCGTCATTAAAAAAGATGA
150277 CACACATTCGTGTGTCAT
66 CACACATTCGTGTGTCAT
150295 GATTGTATTT
Statistics
Matches: 70, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
85 66 0.94
86 4 0.06
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (85 bp):
ATTTATGACACGCATGTATGACGCACATTGAGCGTCATTGAAGCACCCGTCATTAAAAAAGATGA
CACACATTCGTGTGTCATAA
Found at i:150395 original size:2 final size:2
Alignment explanation
Indices: 150388--150420 Score: 50
Period size: 2 Copynumber: 16.5 Consensus size: 2
150378 ATAATACTTA
150388 AT AT AT AT AT AT AT AT AT AT CAT AT -T AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT A
150421 AGCAATCCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 1 0.03
2 26 0.90
3 2 0.07
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:152007 original size:19 final size:19
Alignment explanation
Indices: 151983--152025 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
151973 CGTCAAAGCA
151983 AAATGGTACGCGTTCATGG
1 AAATGGTACGCGTTCATGG
152002 AAATGGTACGCGTTCATGG
1 AAATGGTACGCGTTCATGG
152021 AAATG
1 AAATG
152026 CCATCATTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.30, C:0.14, G:0.30, T:0.26
Consensus pattern (19 bp):
AAATGGTACGCGTTCATGG
Found at i:164787 original size:20 final size:21
Alignment explanation
Indices: 164750--164788 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
164740 GATGGTCTTG
*
164750 ATGAAGGATGTTGATGATGGA
1 ATGAAGGATGGTGATGATGGA
*
164771 ATGAA-GATGGTGGTGATG
1 ATGAAGGATGGTGATGATG
164789 TTGTATCTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.31, C:0.00, G:0.41, T:0.28
Consensus pattern (21 bp):
ATGAAGGATGGTGATGATGGA
Found at i:165167 original size:19 final size:20
Alignment explanation
Indices: 165126--165176 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
165116 GAAACCCCTT
*
165126 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTTAA
165146 TGAAAATACATGA-TTTTAA
1 TGAAAATACATGATTTTTAA
*
165165 TGAAGATACATG
1 TGAAAATACATG
165177 CTCTTGGCCG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.43, C:0.06, G:0.16, T:0.35
Consensus pattern (20 bp):
TGAAAATACATGATTTTTAA
Found at i:166112 original size:30 final size:31
Alignment explanation
Indices: 166072--166131 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
166062 ACATGCTGCC
**
166072 ATGATATCTAAATGAAATGCAAACATAATAA
1 ATGATATCTAAAACAAATGCAAACATAATAA
* *
166103 ATGA-ATCTAAAACATATGTAAACATAATA
1 ATGATATCTAAAACAAATGCAAACATAATA
166132 TAAAGCTAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.55, C:0.10, G:0.08, T:0.27
Consensus pattern (31 bp):
ATGATATCTAAAACAAATGCAAACATAATAA
Found at i:168347 original size:21 final size:20
Alignment explanation
Indices: 168321--168386 Score: 78
Period size: 21 Copynumber: 3.1 Consensus size: 20
168311 TCTCCATAGT
168321 GTTACATTCCTAGCCCGCAGG
1 GTTACATTCCTAGCCCGCA-G
*
168342 GTTACATTCCTATCCCGCCAG
1 GTTACATTCCTAGCCCG-CAG
* *
168363 GTTATATGCCTAGCCCGCAAG
1 GTTACATTCCTAGCCCGC-AG
168384 GTT
1 GTT
168387 TTATGACACC
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
20 1 0.03
21 36 0.92
22 2 0.05
ACGTcount: A:0.20, C:0.32, G:0.21, T:0.27
Consensus pattern (20 bp):
GTTACATTCCTAGCCCGCAG
Found at i:168970 original size:34 final size:34
Alignment explanation
Indices: 168904--168976 Score: 137
Period size: 34 Copynumber: 2.1 Consensus size: 34
168894 TTAAATGTTT
*
168904 TTAAAATACAAATTATAGTATTTGAAATTTAACA
1 TTAAAATACAAATTATAGTATTCGAAATTTAACA
168938 TTAAAATACAAATTATAGTATTCGAAATTTAACA
1 TTAAAATACAAATTATAGTATTCGAAATTTAACA
168972 TTAAA
1 TTAAA
168977 TTCAACTTAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.51, C:0.07, G:0.05, T:0.37
Consensus pattern (34 bp):
TTAAAATACAAATTATAGTATTCGAAATTTAACA
Found at i:169799 original size:139 final size:138
Alignment explanation
Indices: 169177--169933 Score: 930
Period size: 138 Copynumber: 5.5 Consensus size: 138
169167 AACATTTCTC
* * * * * * *** *
169177 ACATAATAAGGTAATGATAGCATATTCTCTGACATATCAATCGAAGGCGTGTCCCCCAAAAATGC
1 ACATAATAGGGCAATGATAACATATTCTCTGACAAAACAATCGAAGGCGCG-CCCCCGGGAACGC
*
169242 GCTTTCACCACTTTGCCAAGTCCCCTCAAACATAATAGGTACTGACATGAATAGTGCCCCGAGGG
65 GCTTTCACCACTTTGCCAAGTCCCCTCAAACATAATAGGTACTGACATGAATAGTGCCCCGGGGG
169307 TCATGAGTG
130 TCATGAGTG
* * * * *
169316 ACATAATAGGGCAATGATAACATATTATCTAACAAAACAATCGAAGGCGCACCTCCGGAAACGCG
1 ACATAATAGGGCAATGATAACATATTCTCTGACAAAACAATCGAAGGCGCGCCCCCGGGAACGCG
* * * *
169381 TTTTCACCACTTTGCCAAGTCCCCTCAAACATATTAGGTACTGACATGAATAGTTCCCCGGGGGA
66 CTTTCACCACTTTGCCAAGTCCCCTCAAACATAATAGGTACTGACATGAATAGTGCCCCGGGGGT
169446 CATGAGTG
131 CATGAGTG
* * * *
169454 ACATAATAGGGAAATGATAACATATTCTTTGA-AATAACAATCGAAGGCGCGCCCCCAGGAACGT
1 ACATAATAGGGCAATGATAACATATTCTCTGACAA-AACAATCGAAGGCGCGCCCCCGGGAACGC
* * * *
169518 GCTTTCACCACTTTGCCAAGTCCTCTCAAACATAATAGGTACTGACATAAATAGTTCCCCTGGGG
65 GCTTTCACCACTTTGCCAAGTCCCCTCAAACATAATAGGTACTGACATGAATAGTGCCCCGGGGG
*
169583 ACATGAGTG
130 TCATGAGTG
* *
169592 ACATAATAAGGCAATGATAACATATTCTCTGACATAACAATCGAAGGCGCGCCCCCGGGAACGCG
1 ACATAATAGGGCAATGATAACATATTCTCTGACAAAACAATCGAAGGCGCGCCCCCGGGAACGCG
* * * * *
169657 CTTTCACCACTTTTCCAAGTCCCCTCAAACATAATAGGTACTTACATAAATAGTGCCTTCGGAGG
66 CTTTCACCACTTTGCCAAGTCCCCTCAAACATAATAGGTACTGACATGAATAGTGCC-CCGGGGG
* * *
169722 T-TTAGGGTT
130 TCAT-GAGTG
* * * * * *
169731 ACATAATAGGGAAATGATAACATATTCTCTGACAAAATAATGGAAGGCACACCCCCGGGAACGTG
1 ACATAATAGGGCAATGATAACATATTCTCTGACAAAACAATCGAAGGCGCGCCCCCGGGAACGCG
** *
169796 CTTTCACCACTTTGCCAAGTCCCCTCAAACATAATAGGTACTGGTATGAAT--TGCCCCCAGGGG
66 CTTTCACCACTTTGCCAAGTCCCCTCAAACATAATAGGTACTGACATGAATAGTG-CCCCGGGGG
* * *
169859 T-TTAGGGTT
130 TCAT-GAGTG
* * * *
169868 ATATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCGCCCACGGGAACGCG
1 ACATAATAGGGCAATGATAACATATTCTCTGACAAAACAATCGAAGGCGCGCCCCCGGGAACGCG
169933 C
66 C
169934 CTTTATGTGA
Statistics
Matches: 542, Mismatches: 71, Indels: 12
0.87 0.11 0.02
Matches are distributed among these distances:
137 77 0.14
138 312 0.58
139 153 0.28
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (138 bp):
ACATAATAGGGCAATGATAACATATTCTCTGACAAAACAATCGAAGGCGCGCCCCCGGGAACGCG
CTTTCACCACTTTGCCAAGTCCCCTCAAACATAATAGGTACTGACATGAATAGTGCCCCGGGGGT
CATGAGTG
Found at i:183393 original size:57 final size:57
Alignment explanation
Indices: 183332--183455 Score: 230
Period size: 57 Copynumber: 2.2 Consensus size: 57
183322 ATCCGGGTAG
*
183332 GGTTTGGGTCGGATCAGGTCATACGGGTTTATATTTTATTTGGGTCTATAATAAGTC
1 GGTTTGGGTCGGATCAGGTCATACGGGTTTATATTTTATTCGGGTCTATAATAAGTC
183389 GGTTTGGGTCGGATCAGGTCATACGGGTTTATATTTTATTCGGGTCTATAATAAGTC
1 GGTTTGGGTCGGATCAGGTCATACGGGTTTATATTTTATTCGGGTCTATAATAAGTC
*
183446 GGATTGGGTC
1 GGTTTGGGTC
183456 CAGGTCAGGT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 65 1.00
ACGTcount: A:0.20, C:0.11, G:0.30, T:0.39
Consensus pattern (57 bp):
GGTTTGGGTCGGATCAGGTCATACGGGTTTATATTTTATTCGGGTCTATAATAAGTC
Found at i:183561 original size:30 final size:30
Alignment explanation
Indices: 183525--183595 Score: 115
Period size: 30 Copynumber: 2.4 Consensus size: 30
183515 GGTTCGGGTA
* *
183525 TCGGGTCATATCGGATCGGTTGATTTCGGG
1 TCGGGTCAAATCGAATCGGTTGATTTCGGG
183555 TCGGGTCAAATCGAATCGGTTGATTTCGGG
1 TCGGGTCAAATCGAATCGGTTGATTTCGGG
*
183585 TCGGGACAAAT
1 TCGGGTCAAAT
183596 TGGATCAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.20, C:0.17, G:0.34, T:0.30
Consensus pattern (30 bp):
TCGGGTCAAATCGAATCGGTTGATTTCGGG
Found at i:183608 original size:30 final size:30
Alignment explanation
Indices: 183544--183610 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
183534 ATCGGATCGG
* **
183544 TTGATTTCGGGTCGGGTCAAATCGAATCGG
1 TTGATTTCGGGTCGGGACAAATCGAATCAA
* *
183574 TTGATTTCGGGTCGGGACAAATTGGATCAA
1 TTGATTTCGGGTCGGGACAAATCGAATCAA
183604 TTGATTT
1 TTGATTT
183611 TTGGGTCATG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.22, C:0.13, G:0.30, T:0.34
Consensus pattern (30 bp):
TTGATTTCGGGTCGGGACAAATCGAATCAA
Found at i:183799 original size:16 final size:16
Alignment explanation
Indices: 183775--183814 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
183765 TTCGGTTTAA
*
183775 TTTCAGTTCAGGTTAT
1 TTTCAGTTCAGGTTAC
* *
183791 TTTCGGTTCGGGTTAC
1 TTTCAGTTCAGGTTAC
183807 TTTCAGTT
1 TTTCAGTT
183815 TAATTAAATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.12, C:0.15, G:0.23, T:0.50
Consensus pattern (16 bp):
TTTCAGTTCAGGTTAC
Found at i:183887 original size:21 final size:21
Alignment explanation
Indices: 183858--183903 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
183848 GGTTACTTTC
* *
183858 GGTTCAAATTAATTTCGATTT
1 GGTTAAAATTAATGTCGATTT
* *
183879 GGTTAAAATTCATGTCGTTTT
1 GGTTAAAATTAATGTCGATTT
183900 GGTT
1 GGTT
183904 CAATTTGGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.09, G:0.20, T:0.48
Consensus pattern (21 bp):
GGTTAAAATTAATGTCGATTT
Found at i:187176 original size:20 final size:20
Alignment explanation
Indices: 187151--187191 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
187141 CGAATGGCTT
187151 TCTCCCTTCTGAATCAGGTA
1 TCTCCCTTCTGAATCAGGTA
*
187171 TCTCCCTTTTGAATCAGGTA
1 TCTCCCTTCTGAATCAGGTA
187191 T
1 T
187192 ATCCTCTCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.27, G:0.15, T:0.39
Consensus pattern (20 bp):
TCTCCCTTCTGAATCAGGTA
Found at i:188362 original size:134 final size:134
Alignment explanation
Indices: 188133--188598 Score: 603
Period size: 134 Copynumber: 3.5 Consensus size: 134
188123 ACTTCGTTTC
* * * ** * *
188133 TCTTTAGGGAAGATTGAATCAAACGTGATTTGCTTCACAACTTTTCAGGAAGACTAAATCTGAAA
1 TCTTCAGGGAAGATTGAATCAAACTTGATTTGCTTCGCTGCTCTTCAGGAAGACCAAATCTGAAA
* * * * *
188198 GGAGAAGAATATGCTCCACTACTCTTTAGGGGAGATCAAACACGAGAAAATTTTTATCCACTTTG
66 GAAGAAGAATATGCTCCACTACTCTTTAGGGGAGATCAGACTCGAGAAAATTTTGATCCACTTCG
188263 CTGT
131 CTGT
* **
188267 TCTTCAGGGAAGATTGAATCGAACTTGATTTATTTCGCTGCTCTTCAGGAAGACCAAATCTGAAA
1 TCTTCAGGGAAGATTGAATCAAACTTGATTTGCTTCGCTGCTCTTCAGGAAGACCAAATCTGAAA
* * * *
188332 GAAGAAGAATTTACTCCACTACTCTTTA-GGG-GATCAGACTCGAGAAGATTTTGATCCACTTCA
66 GAAGAAGAATATGCTCCACTACTCTTTAGGGGAGATCAGACTCGAGAAAATTTTGATCCACTTCG
*
188395 CTGA
131 CTGT
* * * *
188399 TCTTCAGGGAAGATTGAATCGAATTTGATTTGCTTCGCTGCTCTTTAGGAAGATCAAATCTGAAA
1 TCTTCAGGGAAGATTGAATCAAACTTGATTTGCTTCGCTGCTCTTCAGGAAGACCAAATCTGAAA
* * * * *
188464 GAAGAAGAATCTGCTCCATTACTCTTTAGGTGAAATTAGACTCGAGAAAATTTTGATCCACTTCG
66 GAAGAAGAATATGCTCCACTACTCTTTAGGGGAGATCAGACTCGAGAAAATTTTGATCCACTTCG
*
188529 ATGT
131 CTGT
* * * * *
188533 TCTTTAGAGAAGATTGAATCAAACTTGATTTTCTTCGCTGCTCTTTAAGAAGACCAAATCTGAAA
1 TCTTCAGGGAAGATTGAATCAAACTTGATTTGCTTCGCTGCTCTTCAGGAAGACCAAATCTGAAA
188598 G
66 G
188599 TCAAACATTA
Statistics
Matches: 288, Mismatches: 42, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
132 114 0.40
133 5 0.02
134 169 0.59
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (134 bp):
TCTTCAGGGAAGATTGAATCAAACTTGATTTGCTTCGCTGCTCTTCAGGAAGACCAAATCTGAAA
GAAGAAGAATATGCTCCACTACTCTTTAGGGGAGATCAGACTCGAGAAAATTTTGATCCACTTCG
CTGT
Found at i:189255 original size:51 final size:51
Alignment explanation
Indices: 189199--189314 Score: 169
Period size: 51 Copynumber: 2.3 Consensus size: 51
189189 CTTCTCTATA
* * * *
189199 CGAGAAAGTCAAGTTGAGGAATGATACTAGTAAAAAGTTGACTCTTCTCCG
1 CGAGAAAGTCAAGTTGAGAAAGGATACTACTAAAAAGTTGACTCCTCTCCG
*
189250 CGAGAAAGTCAAGTTGAGAAAGGATACTACTGAAAAGTTGACTCCTCTCCG
1 CGAGAAAGTCAAGTTGAGAAAGGATACTACTAAAAAGTTGACTCCTCTCCG
* *
189301 TGAGAAAATCAAGT
1 CGAGAAAGTCAAGT
189315 ACAGAATGAC
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.23
Consensus pattern (51 bp):
CGAGAAAGTCAAGTTGAGAAAGGATACTACTAAAAAGTTGACTCCTCTCCG
Found at i:189393 original size:45 final size:45
Alignment explanation
Indices: 189317--189745 Score: 392
Period size: 44 Copynumber: 9.7 Consensus size: 45
189307 AATCAAGTAC
* * * *
189317 AGAATGACATCACTAAAAGGTTGACTCCTCTTTC-TGAGAAAATCA
1 AGAATGACAACACTGAAAGATTGACTCCTC-TTCATGAGAAAGTCA
* * * * *
189362 AGAATCACAACATTGAAAGATTGACTTCTCTTTAAGAGAAAGTCA
1 AGAATGACAACACTGAAAGATTGACTCCTCTTCATGAGAAAGTCA
* * * * * * *
189407 AGAATCACAATATTGAAAGATTAACTCCTGTTTATGAGAAAGTTA
1 AGAATGACAACACTGAAAGATTGACTCCTCTTCATGAGAAAGTCA
* * * * *
189452 AGAA-GACAACACTAAAAAATTAACTCATCTTCGTGAGAAAGTCA
1 AGAATGACAACACTGAAAGATTGACTCCTCTTCATGAGAAAGTCA
* * * *
189496 AGGAA-GACAACACTAAAAGATTGAATCCTCTTCACGAGAAAGTTA
1 A-GAATGACAACACTGAAAGATTGACTCCTCTTCATGAGAAAGTCA
* * * *
189541 AG-TTGACAATACTGAAAGATTGATTGCTCTTCATGA-AAAGTCA
1 AGAATGACAACACTGAAAGATTGACTCCTCTTCATGAGAAAGTCA
*
189584 AGAATGACAACACT-AAAGATTGACTCCTCTTCATGAGGAAGTCA
1 AGAATGACAACACTGAAAGATTGACTCCTCTTCATGAGAAAGTCA
* * * *
189628 AGAATGACATCACT-AAATATTGAATCCTCTTCATGAGAAAATCA
1 AGAATGACAACACTGAAAGATTGACTCCTCTTCATGAGAAAGTCA
* * * * ** *
189672 AGAATAACAACACT-AAATATTGATTCATCTTCACAAAAAAGTCA
1 AGAATGACAACACTGAAAGATTGACTCCTCTTCATGAGAAAGTCA
*
189716 AGAATGACAA-ACT-AAAAATTGACTCCTCTT
1 AGAATGACAACACTGAAAGATTGACTCCTCTT
189746 TCAATATGTT
Statistics
Matches: 318, Mismatches: 61, Indels: 12
0.81 0.16 0.03
Matches are distributed among these distances:
43 45 0.14
44 160 0.50
45 113 0.36
ACGTcount: A:0.43, C:0.17, G:0.14, T:0.26
Consensus pattern (45 bp):
AGAATGACAACACTGAAAGATTGACTCCTCTTCATGAGAAAGTCA
Found at i:189636 original size:88 final size:88
Alignment explanation
Indices: 189317--189737 Score: 372
Period size: 89 Copynumber: 4.8 Consensus size: 88
189307 AATCAAGTAC
* * * * * *
189317 AGAATGACATCACTAAAAGGTTGACTCCTCTTTC-TGAGAAAATCAAGAATCACAACATTGAAAG
1 AGAATGACAACACTAAAAGATTGACTCCTC-TTCATGAGAAAGTCAAGAATGACAACACT-AAAA
* *
189381 ATTGACTTCTCTTTAAGAGAAAGTCA
64 ATTGA-TTCTCTTCATGAGAAAGTCA
* * * * * * * *
189407 AGAATCACAATATTGAAAGATTAACTCCTGTTTATGAGAAAGTTAAGAA-GACAACACTAAAAAA
1 AGAATGACAACACTAAAAGATTGACTCCTCTTCATGAGAAAGTCAAGAATGACAACACT-AAAAA
* * *
189471 TTAACTCATCTTCGTGAGAAAGTCA
65 TTGATTC-TCTTCATGAGAAAGTCA
* * * * * *
189496 AGGAA-GACAACACTAAAAGATTGAATCCTCTTCACGAGAAAGTTAAG-TTGACAATACTGAAAG
1 A-GAATGACAACACTAAAAGATTGACTCCTCTTCATGAGAAAGTCAAGAATGACAACACT-AAAA
189559 ATTGATTGCTCTTCATGA-AAAGTCA
64 ATTGATT-CTCTTCATGAGAAAGTCA
* * *
189584 AGAATGACAACACT-AAAGATTGACTCCTCTTCATGAGGAAGTCAAGAATGACATCACTAAATAT
1 AGAATGACAACACTAAAAGATTGACTCCTCTTCATGAGAAAGTCAAGAATGACAACACTAAAAAT
* *
189648 TGAATCCTCTTCATGAGAAAATCA
66 TG-ATTCTCTTCATGAGAAAGTCA
* * * * ** *
189672 AGAATAACAACACT-AAATATTGATTCATCTTCACAAAAAAGTCAAGAATGACAA-ACTAAAAAT
1 AGAATGACAACACTAAAAGATTGACTCCTCTTCATGAGAAAGTCAAGAATGACAACACTAAAAAT
189735 TGA
66 TGA
189738 CTCCTCTTTC
Statistics
Matches: 266, Mismatches: 56, Indels: 22
0.77 0.16 0.06
Matches are distributed among these distances:
86 1 0.00
87 58 0.22
88 80 0.30
89 88 0.33
90 39 0.15
ACGTcount: A:0.43, C:0.17, G:0.15, T:0.25
Consensus pattern (88 bp):
AGAATGACAACACTAAAAGATTGACTCCTCTTCATGAGAAAGTCAAGAATGACAACACTAAAAAT
TGATTCTCTTCATGAGAAAGTCA
Found at i:190104 original size:41 final size:42
Alignment explanation
Indices: 190059--190138 Score: 126
Period size: 42 Copynumber: 1.9 Consensus size: 42
190049 AAGGTCTTAT
*
190059 AGATGGCCCGAAGGACTT-ATCATCATGCTCGAAAGACTCAA
1 AGATGACCCGAAGGACTTAATCATCATGCTCGAAAGACTCAA
* *
190100 AGATGACCCGAAGGATTTAATCATCATGCTTGAAAGACT
1 AGATGACCCGAAGGACTTAATCATCATGCTCGAAAGACT
190139 TACTAATGGA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
41 16 0.46
42 19 0.54
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (42 bp):
AGATGACCCGAAGGACTTAATCATCATGCTCGAAAGACTCAA
Found at i:190483 original size:258 final size:257
Alignment explanation
Indices: 189907--190661 Score: 893
Period size: 258 Copynumber: 2.9 Consensus size: 257
189897 TGATGGTTCG
*
189907 ATTTTGGAAATAGTTTACT-GGTAAGAAA-TTTGGAAATTGCTTTCTTACTTTTCAAAAATTTCA
1 ATTTTGGAAATAGTTTACTGGGTAAGAAACTTTGGAAA-TGCTTTCTTACTCTTCAAAAATTTCA
* * *
189970 TTTTCTAAAAAGATTAAATGAGAAACTTTGAAAATCGTTTTCTCATATTTTTTT-AAATCATGTG
65 TTTTCTGAAAATATTAAATGAGAAACTTTGAAAATCGCTTTCTCAT-TTTTTTTAAAATCATGT-
* * *
190034 AAAACATCATGCCCGAAGGTCTTATAGATGGCCCGAAGGACTTATCATCATGCTCGAAAGACTCA
128 AAAACATCATGCCCGAAGGTCTTATAAATGGCCCGAATGACTTATCATCTTGCTCGAAAGACTCA
* * * * **
190099 AAGATGACCCGAAGGATTTAATCATCATGCTTGAAAGACTTACTAATGGACTGAAGGACTTCTCA
193 CAGATGACCTGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGACCAAAGGACTTCTCA
* * * *
190164 ATTTTGGAAATAGTTTACTGAGTAAGAAGCTTTGGAAATCACTTTCTTACTCCTT-AAAAATTTT
1 ATTTTGGAAATAGTTTACTGGGTAAGAAACTTTGGAAAT-GCTTTCTTACT-CTTCAAAAATTTC
* *
190228 ATTTTCTGAAAATACTAAATGAGAAACTTTGAAAACCGCTTTCTCATTTTTTTTTGAAAATCATG
64 ATTTTCTGAAAATATTAAATGAGAAACTTTGAAAATCGCTTTCTCA-TTTTTTTT-AAAATCATG
* * * * * *
190293 T-AAACATCTTGCCCGAATGTCTTATAAATGACCCGAATGACTTATCATCTTGCT-AAAAAACTG
127 TAAAACATCATGCCCGAAGGTCTTATAAATGGCCCGAATGACTTATCATCTTGCTCGAAAGACTC
* * * * *
190356 ACAGATGACCTGAAGGATTTAATTATCATGCTCGGAAGACTTATTGATGGCCCAAAGGGCTTAC-
192 ACAGATGACCTGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGACCAAAGGACTT-CT
*
190420 CT
256 CA
*
190422 ATTTTGGAAA-ATGATTACTGGGTAAGAAACTTTGGAAACTGCTTTCTTACTCTTCAAAAATTTC
1 ATTTTGGAAATA-GTTTACTGGGTAAGAAACTTTGGAAA-TGCTTTCTTACTCTTCAAAAATTTC
* * * * *
190486 ATTTTCTGATAATATTAAATG-GAAAACTTTGAAAATTGCTTTCCCA--TTTTTCAAATTCATGT
64 ATTTTCTGAAAATATTAAATGAG-AAACTTTGAAAATCGCTTTCTCATTTTTTTTAAAATCATGT
* * * * ** * *
190548 GAAAACATCCTACCTGAAGGTGTTACGAATGGCCAGAATGACTTATCATCTTGCTCGAAAGACTT
128 -AAAACATCATGCCCGAAGGTCTTATAAATGGCCCGAATGACTTATCATCTTGCTCGAAAGACTC
* * *
190613 ACAGATGACCTGAAGGATGTAATCATTATCCTCGAAAGACTTACTGATG
192 ACAGATGACCTGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATG
190662 ACCCGAATGA
Statistics
Matches: 422, Mismatches: 61, Indels: 30
0.82 0.12 0.06
Matches are distributed among these distances:
254 9 0.02
255 5 0.01
256 44 0.10
257 73 0.17
258 156 0.37
259 123 0.29
260 3 0.01
261 9 0.02
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (257 bp):
ATTTTGGAAATAGTTTACTGGGTAAGAAACTTTGGAAATGCTTTCTTACTCTTCAAAAATTTCAT
TTTCTGAAAATATTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTTTTTAAAATCATGTAAA
ACATCATGCCCGAAGGTCTTATAAATGGCCCGAATGACTTATCATCTTGCTCGAAAGACTCACAG
ATGACCTGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGACCAAAGGACTTCTCA
Found at i:192871 original size:74 final size:75
Alignment explanation
Indices: 192729--192915 Score: 270
Period size: 74 Copynumber: 2.5 Consensus size: 75
192719 TAAATAGGGA
* *
192729 GGTACTGATACCCCTCATAGGGTGTACTGATACCCCTATGCCAATTTTTGGCTCCGAGAAAAGCA
1 GGTACCGATACCCCTCATA-GG-GTACTGATACCCCTATGCCAATTTTTGGCTCCGAGAAAAACA
192794 GAATGCCAAATG
64 GAATGCCAAATG
* *
192806 GGTACCGATACCCCTCATAGGGTACCGATACCCCTATGCCAA-TTTTGGCTTCGAGAAAAACAGA
1 GGTACCGATACCCCTCATAGGGTACTGATACCCCTATGCCAATTTTTGGCTCCGAGAAAAACAGA
*
192870 ATGCCCAATG
66 ATGCCAAATG
* *
192880 GGTATCGATACCCC-CTTAGAGGTACTGATACCCCTA
1 GGTACCGATACCCCTCATAG-GGTACTGATACCCCTA
192916 GTTATTTAAC
Statistics
Matches: 101, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
73 4 0.04
74 57 0.56
75 20 0.20
76 2 0.02
77 18 0.18
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (75 bp):
GGTACCGATACCCCTCATAGGGTACTGATACCCCTATGCCAATTTTTGGCTCCGAGAAAAACAGA
ATGCCAAATG
Found at i:198628 original size:21 final size:23
Alignment explanation
Indices: 198604--198682 Score: 69
Period size: 21 Copynumber: 3.7 Consensus size: 23
198594 TGTGCAACAG
198604 GTATCGATACCC-C-TTCAACGT
1 GTATCGATACCCTCTTTCAACGT
* * *
198625 GTATCGGTACCCTCTTTGAATGT
1 GTATCGATACCCTCTTTCAACGT
* *
198648 GTATCGATA-CCTCTAT-AA-GG
1 GTATCGATACCCTCTTTCAACGT
*
198668 GTAGCGATACCCTCT
1 GTATCGATACCCTCT
198683 GTCAGGTTTA
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
20 9 0.19
21 18 0.38
22 7 0.15
23 14 0.29
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.32
Consensus pattern (23 bp):
GTATCGATACCCTCTTTCAACGT
Found at i:200946 original size:14 final size:14
Alignment explanation
Indices: 200914--200975 Score: 78
Period size: 12 Copynumber: 4.7 Consensus size: 14
200904 AAGGGGAGTA
*
200914 ATTTTTCAAAATTG
1 ATTTTTCAAAAATG
200928 A--TTTCAAAAATG
1 ATTTTTCAAAAATG
*
200940 ATTTTTCAAAATTG
1 ATTTTTCAAAAATG
200954 A--TTTCAAAAATG
1 ATTTTTCAAAAATG
200966 ATTTTTCAAA
1 ATTTTTCAAA
200976 GAAAATCTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
12 22 0.54
14 19 0.46
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.44
Consensus pattern (14 bp):
ATTTTTCAAAAATG
Found at i:200950 original size:26 final size:26
Alignment explanation
Indices: 200914--200975 Score: 124
Period size: 26 Copynumber: 2.4 Consensus size: 26
200904 AAGGGGAGTA
200914 ATTTTTCAAAATTGATTTCAAAAATG
1 ATTTTTCAAAATTGATTTCAAAAATG
200940 ATTTTTCAAAATTGATTTCAAAAATG
1 ATTTTTCAAAATTGATTTCAAAAATG
200966 ATTTTTCAAA
1 ATTTTTCAAA
200976 GAAAATCTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.44
Consensus pattern (26 bp):
ATTTTTCAAAATTGATTTCAAAAATG
Found at i:201356 original size:75 final size:75
Alignment explanation
Indices: 201273--201480 Score: 319
Period size: 75 Copynumber: 2.8 Consensus size: 75
201263 GTACATATAA
*
201273 CCCTATGCCAATTTTTGGCTCCGAGAAAAATAGAATACCAAATGGGTACCAATACCCCTCATAGG
1 CCCTATGCCAATTTTTGGCTCCGAGAAAAATAGAATACCAAATGGGTACCGATACCCCTCATAGG
201338 GTACCGATAC
66 GTACCGATAC
* * * *
201348 CCCTATGCCAATTTTTGGCTACGAGAAAAACATAATAACAAATGGGTACCGATACCCCTCATAGG
1 CCCTATGCCAATTTTTGGCTCCGAGAAAAATAGAATACCAAATGGGTACCGATACCCCTCATAGG
*
201413 GTACCGATAG
66 GTACCGATAC
* * * *
201423 CCCTATGCCAA-TTTTGGCTCCAAGAAAAATAGAATGCCCAATGGGTACTGATACCCCT
1 CCCTATGCCAATTTTTGGCTCCGAGAAAAATAGAATACCAAATGGGTACCGATACCCCT
201481 AGTCATTTAA
Statistics
Matches: 119, Mismatches: 14, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
74 39 0.33
75 80 0.67
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (75 bp):
CCCTATGCCAATTTTTGGCTCCGAGAAAAATAGAATACCAAATGGGTACCGATACCCCTCATAGG
GTACCGATAC
Found at i:201811 original size:50 final size:50
Alignment explanation
Indices: 201757--201856 Score: 182
Period size: 50 Copynumber: 2.0 Consensus size: 50
201747 CCTTCAATAT
201757 TCATTTTGCTTTCAAGAACACATATTATGCTCATTTATAATCATATTTGA
1 TCATTTTGCTTTCAAGAACACATATTATGCTCATTTATAATCATATTTGA
* *
201807 TCATTTTGCTTTCAAGAACACATATTGTGCTCATTTGTAATCATATTTGA
1 TCATTTTGCTTTCAAGAACACATATTATGCTCATTTATAATCATATTTGA
201857 GTGTTCTTTT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.30, C:0.16, G:0.10, T:0.44
Consensus pattern (50 bp):
TCATTTTGCTTTCAAGAACACATATTATGCTCATTTATAATCATATTTGA
Found at i:210709 original size:23 final size:23
Alignment explanation
Indices: 210646--210715 Score: 97
Period size: 23 Copynumber: 3.1 Consensus size: 23
210636 GGTTCCATGC
* *
210646 GGTCCTTCGGGATAATTCTATGT
1 GGTCCTTCGGGACATTTCTATGT
* *
210669 GGTCC-TCCGAACATTTCTATGT
1 GGTCCTTCGGGACATTTCTATGT
210691 GGTCCTTCGGGACATTTCTATGT
1 GGTCCTTCGGGACATTTCTATGT
210714 GG
1 GG
210716 CACTTCAGTG
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
22 18 0.45
23 22 0.55
ACGTcount: A:0.16, C:0.21, G:0.26, T:0.37
Consensus pattern (23 bp):
GGTCCTTCGGGACATTTCTATGT
Found at i:210721 original size:23 final size:23
Alignment explanation
Indices: 210679--210747 Score: 79
Period size: 23 Copynumber: 3.0 Consensus size: 23
210669 GGTCCTCCGA
210679 ACATTTCTATGTGGTC-CTTCGGG
1 ACATTTCTATGTGG-CACTTCGGG
*
210702 ACATTTCTATGTGGCACTTCAGTG
1 ACATTTCTATGTGGCACTTC-GGG
*
210726 -CATATTCTATGTGACACTTCGG
1 ACAT-TTCTATGTGGCACTTCGG
210748 TGTAATTCTA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
22 1 0.03
23 22 0.55
24 17 0.43
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.38
Consensus pattern (23 bp):
ACATTTCTATGTGGCACTTCGGG
Found at i:210738 original size:24 final size:23
Alignment explanation
Indices: 210706--210760 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 23
210696 TTCGGGACAT
*
210706 TTCTATGTGGCACTTCAGTGCATA
1 TTCTATGTGACACTTCAGTGCA-A
* *
210730 TTCTATGTGACACTTCGGTGTAA
1 TTCTATGTGACACTTCAGTGCAA
210753 TTCTATGT
1 TTCTATGT
210761 TGTAGTTTCG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 9 0.32
24 19 0.68
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (23 bp):
TTCTATGTGACACTTCAGTGCAA
Found at i:216848 original size:74 final size:72
Alignment explanation
Indices: 216760--216895 Score: 191
Period size: 72 Copynumber: 1.9 Consensus size: 72
216750 GCATTAGATT
* ** ** * *
216760 GAACAAGTTCTTCTCATTATGAACTTCTTTTCTCTTGTTGGATGAGTTCTTCTCATTATGAACTT
1 GAACAAGTTATTCTCATTATGAAC-TCTCCTCTCTT-ACGAACGAGTTCTTCTCATTATGAACTT
216825 TCTCCTTTA
64 TCTCCTTTA
216834 GAACAAGTTATTCTCATTATGAACTCTCCTCTCTTACGAACGAGTTCTTCTCATTATGAACT
1 GAACAAGTTATTCTCATTATGAACTCTCCTCTCTTACGAACGAGTTCTTCTCATTATGAACT
216896 CTTCACTGAA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
72 23 0.42
73 9 0.16
74 23 0.42
ACGTcount: A:0.24, C:0.22, G:0.12, T:0.43
Consensus pattern (72 bp):
GAACAAGTTATTCTCATTATGAACTCTCCTCTCTTACGAACGAGTTCTTCTCATTATGAACTTTC
TCCTTTA
Found at i:216893 original size:37 final size:36
Alignment explanation
Indices: 216760--216899 Score: 149
Period size: 37 Copynumber: 3.8 Consensus size: 36
216750 GCATTAGATT
* *
216760 GAACAAGTTCTTCTCATTATGAACTTCTTTTCTCTTGTT
1 GAACAAGTTCTTCTCATTATGAAC-TCTTCTCTC-T-TA
* **
216799 GGATGAGTTCTTCTCATTATGAACT-TTCTC-CTTTA
1 GAACAAGTTCTTCTCATTATGAACTCTTCTCTC-TTA
* *
216834 GAACAAGTTATTCTCATTATGAACTCTCCTCTCTTA
1 GAACAAGTTCTTCTCATTATGAACTCTTCTCTCTTA
*
216870 CGAACGAGTTCTTCTCATTATGAACTCTTC
1 -GAACAAGTTCTTCTCATTATGAACTCTTC
216900 ACTGAAAATG
Statistics
Matches: 85, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
35 22 0.26
36 10 0.12
37 31 0.36
38 1 0.01
39 21 0.25
ACGTcount: A:0.23, C:0.23, G:0.11, T:0.43
Consensus pattern (36 bp):
GAACAAGTTCTTCTCATTATGAACTCTTCTCTCTTA
Found at i:217530 original size:73 final size:73
Alignment explanation
Indices: 217434--217573 Score: 244
Period size: 73 Copynumber: 1.9 Consensus size: 73
217424 CTCTCTCGAG
* *
217434 TGAGATAAATTTTGTTTCGAATGAAAATTGTCTCAAGCAAGACGAAGTAAGTTTTAAGAAAAACC
1 TGAGATAAATTTTGTTTCAAATGAAAACTGTCTCAAGCAAGACGAAGTAAGTTTTAAGAAAAACC
217499 ATATCAAT
66 ATATCAAT
* *
217507 TGAGATAAATTTTGTTTCAAATGAAAACTGTCTCAAGCCAGACGAAGTAGGTTTTAAGAAAAACC
1 TGAGATAAATTTTGTTTCAAATGAAAACTGTCTCAAGCAAGACGAAGTAAGTTTTAAGAAAAACC
217572 AT
66 AT
217574 TTTAAGGGAG
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
73 63 1.00
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.29
Consensus pattern (73 bp):
TGAGATAAATTTTGTTTCAAATGAAAACTGTCTCAAGCAAGACGAAGTAAGTTTTAAGAAAAACC
ATATCAAT
Found at i:217612 original size:73 final size:72
Alignment explanation
Indices: 217435--217615 Score: 204
Period size: 73 Copynumber: 2.5 Consensus size: 72
217425 TCTCTCGAGT
* *
217435 GAGATAAATTTTGTTTCGAATGA-AAATTGTCTCAAGCAAGACGAAGTAAGTTTTAAGAAAAACC
1 GAGAAAAACTTTGTTTC-AA-GAGAAATTGTCTCAAGCAAGACGAAGTAAGTTTTAAGAAAAACC
**
217499 ATATCAATT
64 ATATCAAGG
* * * * *
217508 GAGATAAATTTTGTTTCAA-ATGAAAACTGTCTCAAGCCAGACGAAGTAGGTTTTAAGAAAAACC
1 GAGAAAAACTTTGTTTCAAGA-G-AAATTGTCTCAAGCAAGACGAAGTAAGTTTTAAGAAAAACC
* *
217572 ATTTTAAGG
64 ATATCAAGG
217581 GAGACAAAACTTTGTTTCAAGAGAAATTGTCTCAA
1 GAGA-AAAACTTTGTTTCAAGAGAAATTGTCTCAA
217616 AAACTTGTTT
Statistics
Matches: 93, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
70 1 0.01
72 2 0.02
73 75 0.81
74 14 0.15
75 1 0.01
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (72 bp):
GAGAAAAACTTTGTTTCAAGAGAAATTGTCTCAAGCAAGACGAAGTAAGTTTTAAGAAAAACCAT
ATCAAGG
Found at i:217718 original size:101 final size:100
Alignment explanation
Indices: 217615--217809 Score: 266
Period size: 102 Copynumber: 1.9 Consensus size: 100
217605 AATTGTCTCA
* * *
217615 AAAACTTGTTTCAAGAAAAACTG-TCAAGGGAGACAAAATTTGTTTCAAGGGAAACGTTTTTAAA
1 AAAACTTGTTTCAAGAAAAACTGCTCAAGAGAGACAAAATTTATTTCAAGGGAAACGTTTTCAAA
* * * *
217679 GTTCTGTGTTTCAAGATAAACTATCTCAAGGGACAC
66 GTT-TATATCTCAAGAGAAACTATCTCAAGGGACAC
* ** *
217715 AAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTATTTTAAGGGAAACGTTTTCAA
1 AAAACTTGTTTCAAGAAAAACTG-CTCAAGAGAGACAAAATTTATTTCAAGGGAAACGTTTTCAA
217780 AGTTTATATCTCAAGAGAAACTATCTCAAG
65 AGTTTATATCTCAAGAGAAACTATCTCAAG
217810 CGAAATAAAA
Statistics
Matches: 82, Mismatches: 11, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
100 20 0.24
101 22 0.27
102 40 0.49
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (100 bp):
AAAACTTGTTTCAAGAAAAACTGCTCAAGAGAGACAAAATTTATTTCAAGGGAAACGTTTTCAAA
GTTTATATCTCAAGAGAAACTATCTCAAGGGACAC
Found at i:217736 original size:36 final size:36
Alignment explanation
Indices: 217685--217771 Score: 111
Period size: 36 Copynumber: 2.4 Consensus size: 36
217675 TAAAGTTCTG
** *
217685 TGTTTCAAGATAAACTATCTCAAGGGACACAAAATT
1 TGTTTCAAGGGAAACTATCTCAAGAGACACAAAATT
* *
217721 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTATCTCAAGAGACACAAAATT
* *
217757 TATTTTAAGGGAAAC
1 TGTTTCAAGGGAAAC
217772 GTTTTCAAAG
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 44 1.00
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.28
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTATCTCAAGAGACACAAAATT
Found at i:217858 original size:40 final size:40
Alignment explanation
Indices: 217814--218130 Score: 487
Period size: 40 Copynumber: 7.9 Consensus size: 40
217804 CTCAAGCGAA
*
217814 ATAAAATCTTTTGTTTCAAGGAAAAACAATCTTAAGTGAG
1 ATAAAATCTTCTGTTTCAAGGAAAAACAATCTTAAGTGAG
217854 ATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAA-TGAG
1 ATAAAATCTTCTGTTTCAAGGAAAAACAATCTT-AAGTGAG
*
217894 ATAAAATCTTCTGTTTCAAGGAAAAATAATCTTGAA-TGAG
1 ATAAAATCTTCTGTTTCAAGGAAAAACAATCTT-AAGTGAG
* *
217934 ATAGAATCTTCTGTTTCAAGGAAAAACAATCTTGAGTGAG
1 ATAAAATCTTCTGTTTCAAGGAAAAACAATCTTAAGTGAG
*
217974 ATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGTGAG
1 ATAAAATCTTCTGTTTCAAGGAAAAACAATCTTAAGTGAG
* *
218014 ATAAAATATTCTGTTTCAAGGAAAAACAATCTTGAGTGAG
1 ATAAAATCTTCTGTTTCAAGGAAAAACAATCTTAAGTGAG
* *
218054 ATAAAATCTTCCGTTTCAAGGAAAAACAATCTTTAA-TGGG
1 ATAAAATCTTCTGTTTCAAGGAAAAACAATC-TTAAGTGAG
* *
218094 ATAAAAGCTTTTGTTTCAAGGAAAAACAATCTTAAGT
1 ATAAAATCTTCTGTTTCAAGGAAAAACAATCTTAAGT
218131 CAAATGAAAT
Statistics
Matches: 259, Mismatches: 14, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
39 5 0.02
40 249 0.96
41 5 0.02
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (40 bp):
ATAAAATCTTCTGTTTCAAGGAAAAACAATCTTAAGTGAG
Found at i:218004 original size:23 final size:23
Alignment explanation
Indices: 217938--218006 Score: 60
Period size: 23 Copynumber: 3.3 Consensus size: 23
217928 AATGAGATAG
217938 AATCTTCTGTTTCAAGGAAAAAC
1 AATCTTCTGTTTCAAGGAAAAAC
** * *
217961 AATC-T-TGAGT-GA-G-ATAA-
1 AATCTTCTGTTTCAAGGAAAAAC
217978 AATCTTCTGTTTCAAGGAAAAAC
1 AATCTTCTGTTTCAAGGAAAAAC
218001 AATCTT
1 AATCTT
218007 GAGTGAGATA
Statistics
Matches: 32, Mismatches: 8, Indels: 12
0.62 0.15 0.23
Matches are distributed among these distances:
17 4 0.12
18 4 0.12
19 4 0.12
20 2 0.06
21 4 0.12
22 4 0.12
23 10 0.31
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.32
Consensus pattern (23 bp):
AATCTTCTGTTTCAAGGAAAAAC
Found at i:218151 original size:40 final size:39
Alignment explanation
Indices: 217814--218173 Score: 424
Period size: 40 Copynumber: 9.0 Consensus size: 39
217804 CTCAAGCGAA
*
217814 ATAAAATCTTTTGTTTCAAGGAAAAACAATCTTAAGTGAG
1 ATAAAATC-TTCGTTTCAAGGAAAAACAATCTTAAGTGAG
217854 ATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAA-TGAG
1 ATAAAATCTTC-GTTTCAAGGAAAAACAATCTT-AAGTGAG
*
217894 ATAAAATCTTCTGTTTCAAGGAAAAATAATCTTGAA-TGAG
1 ATAAAATCTTC-GTTTCAAGGAAAAACAATCTT-AAGTGAG
* *
217934 ATAGAATCTTCTGTTTCAAGGAAAAACAATCTTGAGTGAG
1 ATAAAATCTTC-GTTTCAAGGAAAAACAATCTTAAGTGAG
*
217974 ATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGTGAG
1 ATAAAATCTTC-GTTTCAAGGAAAAACAATCTTAAGTGAG
* *
218014 ATAAAATATTCTGTTTCAAGGAAAAACAATCTTGAGTGAG
1 ATAAAATCTTC-GTTTCAAGGAAAAACAATCTTAAGTGAG
*
218054 ATAAAATCTTCCGTTTCAAGGAAAAACAATCTTTAA-TGGG
1 ATAAAATCTT-CGTTTCAAGGAAAAACAATC-TTAAGTGAG
* * * *
218094 ATAAAAGCTTTTGTTTCAAGGAAAAACAATCTTAAGTCAA
1 ATAAAATC-TTCGTTTCAAGGAAAAACAATCTTAAGTGAG
* * * *
218134 ATGAAATGTCTTC-TTTCAA-GTAAAACAGTCTCAAGTGAG
1 AT-AAA-ATCTTCGTTTCAAGGAAAAACAATCTTAAGTGAG
218173 A
1 A
218174 CAAAGTATGT
Statistics
Matches: 288, Mismatches: 23, Indels: 19
0.87 0.07 0.06
Matches are distributed among these distances:
39 23 0.08
40 251 0.87
41 13 0.05
42 1 0.00
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (39 bp):
ATAAAATCTTCGTTTCAAGGAAAAACAATCTTAAGTGAG
Found at i:219452 original size:53 final size:52
Alignment explanation
Indices: 219382--219497 Score: 214
Period size: 53 Copynumber: 2.2 Consensus size: 52
219372 GATGCGTTCA
*
219382 ACATGTATCATTTCTGTCTTTTTCATGCTGATGTGAACCTTCATGATGCCCCC
1 ACATGGATCATTTCTGTCTTTTTCATGCTGATGTGAACCTTCATGATG-CCCC
219435 ACATGGATCATTTCTGTCTTTTTCATGCTGATGTGAACCTTCATGATGCCCC
1 ACATGGATCATTTCTGTCTTTTTCATGCTGATGTGAACCTTCATGATGCCCC
219487 ACATGGATCAT
1 ACATGGATCAT
219498 ATGAACCTCT
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
52 15 0.24
53 47 0.76
ACGTcount: A:0.21, C:0.25, G:0.16, T:0.38
Consensus pattern (52 bp):
ACATGGATCATTTCTGTCTTTTTCATGCTGATGTGAACCTTCATGATGCCCC
Found at i:227592 original size:19 final size:19
Alignment explanation
Indices: 227555--227591 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
227545 TAAATTAATA
227555 AATATTAATAATATATTTT
1 AATATTAATAATATATTTT
*
227574 AATATTTATAATAT-TTTT
1 AATATTAATAATATATTTT
227592 TTAAGTACGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
AATATTAATAATATATTTT
Found at i:230610 original size:30 final size:30
Alignment explanation
Indices: 230574--230630 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
230564 TGTTTTGTGA
*
230574 ACAGTAACATGAACAATGTACCGATGCGCT
1 ACAGTAACATGAACAATGCACCGATGCGCT
*
230604 ACAGTAACATGAACAGTGCACCGATGC
1 ACAGTAACATGAACAATGCACCGATGC
230631 ATAAAACATC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.37, C:0.25, G:0.21, T:0.18
Consensus pattern (30 bp):
ACAGTAACATGAACAATGCACCGATGCGCT
Done.