Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 331 of 438
Found at i:103777113 original size:11 final size:11
Alignment explanation
Indices: 103777077--103777131 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
103777067 CATGATATGT
103777077 ATGATATGCAC
1 ATGATATGCAC
* *
103777088 ATGACATG--T
1 ATGATATGCAC
103777097 ATGATATGCAC
1 ATGATATGCAC
*
103777108 ATGATATG--T
1 ATGATATGCAC
103777117 ATGATATGCAC
1 ATGATATGCAC
103777128 ATGA
1 ATGA
103777132 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:103777213 original size:23 final size:23
Alignment explanation
Indices: 103777184--103777374 Score: 321
Period size: 23 Copynumber: 8.1 Consensus size: 23
103777174 GGAAGTGTAA
103777184 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
103777207 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
103777230 AAAAGGGCTTATGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
103777254 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTAT--T
103777279 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
103777302 AAAAGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
103777325 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
103777348 AAAAAGGGCTT-TGCCCCAGTTATT
1 --AAAGGGCTTATGCCCCAGTTATT
103777372 AAA
1 AAA
103777375 AGAGGCTAGG
Statistics
Matches: 161, Mismatches: 2, Indels: 11
0.93 0.01 0.06
Matches are distributed among these distances:
22 3 0.02
23 90 0.56
24 36 0.22
25 32 0.20
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:103777251 original size:47 final size:47
Alignment explanation
Indices: 103777183--103777395 Score: 333
Period size: 48 Copynumber: 4.5 Consensus size: 47
103777173 AGGAAGTGTA
103777183 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
*
103777230 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATG
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
*
103777277 ATAAAGGGCTTATGCCCCAGTTATTAAAAGGCTTATGCCCCAGTTATT
1 A-AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
103777325 -AAAGGGCTTATGCCCCAGTTATTAAAAAGGGCTT-TGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT--AAAGGGCTTATGCCCCAGTTATT
*
103777372 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
103777396 ATGATAAAGC
Statistics
Matches: 155, Mismatches: 5, Indels: 10
0.91 0.03 0.06
Matches are distributed among these distances:
46 23 0.15
47 60 0.39
48 61 0.39
49 11 0.07
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.29
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
Found at i:103777363 original size:95 final size:94
Alignment explanation
Indices: 103777183--103777395 Score: 333
Period size: 95 Copynumber: 2.2 Consensus size: 94
103777173 AGGAAGTGTA
*
103777183 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTATGCCCCAGTTATTAAAAGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCA
103777248 GTTATTAAAGGGCTTATGCCCCAGTTATG
66 GTTATTAAAGGGCTTATGCCCCAGTTATG
103777277 ATAAAGGGCTTATGCCCCAGTTATTAAAAGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCC
1 A-AAAGGGCTTATGCCCCAGTTATTAAAAGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCC
*
103777341 AGTTATTAAAAAGGGCTT-TGCCCCAGTTATT
65 AGTTATT--AAAGGGCTTATGCCCCAGTTATG
*
103777372 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
103777396 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 3, Indels: 9
0.90 0.02 0.07
Matches are distributed among these distances:
94 33 0.30
95 69 0.62
96 9 0.08
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.29
Consensus pattern (94 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAAGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCA
GTTATTAAAGGGCTTATGCCCCAGTTATG
Found at i:103777624 original size:31 final size:31
Alignment explanation
Indices: 103777589--103777652 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
103777579 CGTTTACCGT
*
103777589 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
103777620 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
103777651 AA
1 AA
103777653 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:103781493 original size:6 final size:7
Alignment explanation
Indices: 103781477--103781501 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
103781467 CTGTTGGAAG
103781477 TTTTCCT
1 TTTTCCT
103781484 TTTTCCT
1 TTTTCCT
103781491 TTTTCCT
1 TTTTCCT
103781498 TTTT
1 TTTT
103781502 GGCCAAGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTCCT
Found at i:103782222 original size:43 final size:43
Alignment explanation
Indices: 103782188--103782367 Score: 184
Period size: 43 Copynumber: 4.2 Consensus size: 43
103782178 AGGTCATATT
* * *
103782188 TTTAGCGGCGTTTTTAGGAAAAGCGCCGCTAAAAGTCATGACC
1 TTTAGCGGCATTTGTAGGAAAAGCGCCGCTAAAGGTCATGACC
* * *
103782231 TTTCGCGGCGTTTGT-GGTAAAAGCGCCGCTACAGGTCATGACC
1 TTTAGCGGCATTTGTAGG-AAAAGCGCCGCTAAAGGTCATGACC
** * * **
103782274 TTTAGCGGCATTTGGGGGAAAAGCGTCGCTAAAGGTCTTGGTC
1 TTTAGCGGCATTTGTAGGAAAAGCGCCGCTAAAGGTCATGACC
* * * **
103782317 TTTAGCGGCATTTTTA-TAAAAGCGCCGCTAAAGGTCCTGGTC
1 TTTAGCGGCATTTGTAGGAAAAGCGCCGCTAAAGGTCATGACC
103782359 TTTAGCGGC
1 TTTAGCGGC
103782368 GGTGTATATA
Statistics
Matches: 117, Mismatches: 18, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
42 34 0.29
43 81 0.69
44 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (43 bp):
TTTAGCGGCATTTGTAGGAAAAGCGCCGCTAAAGGTCATGACC
Found at i:103784894 original size:18 final size:18
Alignment explanation
Indices: 103784871--103784905 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
103784861 GGCCTTCCCT
*
103784871 TTTTTTTCTTCTTTTTTG
1 TTTTTTTCTTATTTTTTG
*
103784889 TTTTTTTTTTATTTTTT
1 TTTTTTTCTTATTTTTT
103784906 AGTGAAATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.03, C:0.06, G:0.03, T:0.89
Consensus pattern (18 bp):
TTTTTTTCTTATTTTTTG
Found at i:103792973 original size:3 final size:3
Alignment explanation
Indices: 103792965--103793048 Score: 82
Period size: 3 Copynumber: 28.0 Consensus size: 3
103792955 ATGCATAAAC
* * * *
103792965 AAT AAT AAT AAT GAT GAA- AAC GAT AAT -AT AAAT AAC AAT AAT AAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT
* *
103793010 AAT AAT AAT AAT AAT AAC AAT ACT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
103793049 CTAAAATTTG
Statistics
Matches: 66, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
2 4 0.06
3 59 0.89
4 3 0.05
ACGTcount: A:0.63, C:0.05, G:0.04, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:103794227 original size:13 final size:13
Alignment explanation
Indices: 103794209--103794233 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
103794199 TGTTATCCCT
103794209 TTTTTCTTGCTTG
1 TTTTTCTTGCTTG
103794222 TTTTTCTTGCTT
1 TTTTTCTTGCTT
103794234 TGCAGGTGAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.16, G:0.12, T:0.72
Consensus pattern (13 bp):
TTTTTCTTGCTTG
Found at i:103795816 original size:29 final size:29
Alignment explanation
Indices: 103795774--103795857 Score: 132
Period size: 29 Copynumber: 2.9 Consensus size: 29
103795764 TGCCGTATTT
**
103795774 TTTCCAGCTTGCACACTTAGTGCCAAATA
1 TTTCCAGCACGCACACTTAGTGCCAAATA
* *
103795803 TTTCCAGCACGCACATTTAGTGCCATATA
1 TTTCCAGCACGCACACTTAGTGCCAAATA
103795832 TTTCCAGCACGCACACTTAGTGCCAA
1 TTTCCAGCACGCACACTTAGTGCCAA
103795858 TCTCGACACC
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 49 1.00
ACGTcount: A:0.27, C:0.30, G:0.14, T:0.29
Consensus pattern (29 bp):
TTTCCAGCACGCACACTTAGTGCCAAATA
Found at i:103799795 original size:45 final size:45
Alignment explanation
Indices: 103799745--103799833 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
103799735 AAACATGTGT
*
103799745 CACATACATCATGAACTCAGACCATAACTCAATGAGTTCAGATGC
1 CACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGATGC
*
103799790 CACATATATCATGAACTCAGACCACAACTCAATGAGTTCAGATG
1 CACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGATG
103799834 ACATAGTTCC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.38, C:0.26, G:0.13, T:0.22
Consensus pattern (45 bp):
CACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGATGC
Found at i:103799830 original size:21 final size:21
Alignment explanation
Indices: 103799761--103799831 Score: 63
Period size: 21 Copynumber: 3.2 Consensus size: 21
103799751 CATCATGAAC
*
103799761 TCAGACCATAACTCAATGAGT
1 TCAGACCACAACTCAATGAGT
* **
103799782 TCAGATGCCACATATATC-ATGAAC
1 TCAGA--CCACA-A-CTCAATGAGT
103799806 TCAGACCACAACTCAATGAGT
1 TCAGACCACAACTCAATGAGT
103799827 TCAGA
1 TCAGA
103799832 TGACATAGTT
Statistics
Matches: 38, Mismatches: 7, Indels: 10
0.69 0.13 0.18
Matches are distributed among these distances:
20 2 0.05
21 15 0.39
22 5 0.13
23 4 0.11
24 10 0.26
25 2 0.05
ACGTcount: A:0.38, C:0.25, G:0.14, T:0.23
Consensus pattern (21 bp):
TCAGACCACAACTCAATGAGT
Found at i:103806547 original size:30 final size:30
Alignment explanation
Indices: 103806511--103806570 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
103806501 TTCTCGAGCC
*
103806511 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* *
103806541 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
103806571 CGTATTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:103810001 original size:45 final size:45
Alignment explanation
Indices: 103809951--103810039 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
103809941 AAACATGTGT
*
103809951 CACATACATCATGAACTCAGACCATAACTCAATGAGTTCAGATGC
1 CACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGATGC
*
103809996 CACATATATCATGAACTCAGACCACAACTCAATGAGTTCAGATG
1 CACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGATG
103810040 ACATAGTTCC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.38, C:0.26, G:0.13, T:0.22
Consensus pattern (45 bp):
CACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGATGC
Found at i:103810036 original size:21 final size:21
Alignment explanation
Indices: 103809967--103810037 Score: 63
Period size: 21 Copynumber: 3.2 Consensus size: 21
103809957 CATCATGAAC
*
103809967 TCAGACCATAACTCAATGAGT
1 TCAGACCACAACTCAATGAGT
* **
103809988 TCAGATGCCACATATATC-ATGAAC
1 TCAGA--CCACA-A-CTCAATGAGT
103810012 TCAGACCACAACTCAATGAGT
1 TCAGACCACAACTCAATGAGT
103810033 TCAGA
1 TCAGA
103810038 TGACATAGTT
Statistics
Matches: 38, Mismatches: 7, Indels: 10
0.69 0.13 0.18
Matches are distributed among these distances:
20 2 0.05
21 15 0.39
22 5 0.13
23 4 0.11
24 10 0.26
25 2 0.05
ACGTcount: A:0.38, C:0.25, G:0.14, T:0.23
Consensus pattern (21 bp):
TCAGACCACAACTCAATGAGT
Found at i:103811338 original size:24 final size:24
Alignment explanation
Indices: 103811311--103811358 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
103811301 GTACAGAGTG
103811311 TATAGAGACTTAAAGCATATTTTA
1 TATAGAGACTTAAAGCATATTTTA
* *
103811335 TATAGGGACTTAGAGCATATTTTA
1 TATAGAGACTTAAAGCATATTTTA
103811359 ATATTTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.38
Consensus pattern (24 bp):
TATAGAGACTTAAAGCATATTTTA
Found at i:103811934 original size:34 final size:34
Alignment explanation
Indices: 103811896--103811967 Score: 130
Period size: 33 Copynumber: 2.2 Consensus size: 34
103811886 GATTATCAAG
103811896 TAATTTTTTTTAATTTCAAAATATCACATTAGAA
1 TAATTTTTTTTAATTTCAAAATATCACATTAGAA
103811930 TAA-TTTTTTTAATTTCAAAATATCACATTAGAA
1 TAATTTTTTTTAATTTCAAAATATCACATTAGAA
103811963 -AATTT
1 TAATTT
103811968 AATAAAAATA
Statistics
Matches: 37, Mismatches: 0, Indels: 3
0.93 0.00 0.08
Matches are distributed among these distances:
32 2 0.05
33 32 0.86
34 3 0.08
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.47
Consensus pattern (34 bp):
TAATTTTTTTTAATTTCAAAATATCACATTAGAA
Found at i:103815461 original size:47 final size:48
Alignment explanation
Indices: 103815388--103815479 Score: 150
Period size: 47 Copynumber: 1.9 Consensus size: 48
103815378 ATGCTATGAA
* * *
103815388 TGCTAAACTTGGTTTTCCACTGTCTACACTCTT-TCACTATTTATATT
1 TGCTAAACTTGGTCTTCCACTATCTACAATCTTATCACTATTTATATT
103815435 TGCTAAACTTGGTCTTCCACTATCTACAATCTTATCACTATTTAT
1 TGCTAAACTTGGTCTTCCACTATCTACAATCTTATCACTATTTAT
103815480 TCCCTCTTGA
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
47 30 0.73
48 11 0.27
ACGTcount: A:0.24, C:0.24, G:0.08, T:0.45
Consensus pattern (48 bp):
TGCTAAACTTGGTCTTCCACTATCTACAATCTTATCACTATTTATATT
Found at i:103816845 original size:20 final size:19
Alignment explanation
Indices: 103816820--103816863 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 19
103816810 CATTTCAAGA
103816820 TTCATATCTCATTTCATCAT
1 TTCATATCTCATTTC-TCAT
103816840 TTCATATCTCATTTCTCAT
1 TTCATATCTCATTTCTCAT
*
103816859 CTCAT
1 TTCAT
103816864 GTTTATTTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.23, C:0.27, G:0.00, T:0.50
Consensus pattern (19 bp):
TTCATATCTCATTTCTCAT
Found at i:103830358 original size:26 final size:27
Alignment explanation
Indices: 103830307--103830358 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
103830297 ATACAAGATG
* *
103830307 GGCCTGAGCCCATTACAGATTCAGTTA
1 GGCCTGAGCCCAATACAGATACAGTTA
*
103830334 GGCCTTAGCCCAAT-CAGATACAGTT
1 GGCCTGAGCCCAATACAGATACAGTT
103830359 GCAGATATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 10 0.45
27 12 0.55
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (27 bp):
GGCCTGAGCCCAATACAGATACAGTTA
Found at i:103830891 original size:19 final size:19
Alignment explanation
Indices: 103830867--103830905 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
103830857 CTCGTGCGGT
103830867 CCACACAACCCAAATTGGC
1 CCACACAACCCAAATTGGC
103830886 CCACACAACCCAAATTGGC
1 CCACACAACCCAAATTGGC
103830905 C
1 C
103830906 TTGGTCGTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.44, G:0.10, T:0.10
Consensus pattern (19 bp):
CCACACAACCCAAATTGGC
Found at i:103834868 original size:93 final size:93
Alignment explanation
Indices: 103834709--103834880 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
103834699 GGATGGTTGA
* *
103834709 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAACGCCCGAACTCGTTGAGT
103834774 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
103834802 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAACGCCCGAACTCGTTGAGT
*
103834867 TGAGTCTGAGTTCG
66 TGAGTCCGAGTTCG
103834881 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:103834887 original size:46 final size:46
Alignment explanation
Indices: 103834713--103834887 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
103834703 GGTTGAGCAT
* * *
103834713 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
103834759 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
103834804 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
103834852 CCGAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
103834888 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
45 3 0.03
46 61 0.56
47 28 0.26
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:103838586 original size:18 final size:18
Alignment explanation
Indices: 103838565--103838601 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
103838555 TTTGTTTCTG
*
103838565 AAAATTATTCATTTTCAA
1 AAAATTATTCAATTTCAA
*
103838583 AAAATTATTGAATTTCAA
1 AAAATTATTCAATTTCAA
103838601 A
1 A
103838602 TCGTTATACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.08, G:0.03, T:0.41
Consensus pattern (18 bp):
AAAATTATTCAATTTCAA
Found at i:103839086 original size:18 final size:18
Alignment explanation
Indices: 103839063--103839113 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
103839053 TGGCCCATTA
*
103839063 CAGTAACAATAAACAGTG
1 CAGTAACAGTAAACAGTG
*
103839081 CAGTAATAGTAAACAGTG
1 CAGTAACAGTAAACAGTG
*
103839099 CGGTAACAGTAAACA
1 CAGTAACAGTAAACA
103839114 ATATGCAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.47, C:0.16, G:0.20, T:0.18
Consensus pattern (18 bp):
CAGTAACAGTAAACAGTG
Found at i:103843955 original size:55 final size:54
Alignment explanation
Indices: 103843882--103844012 Score: 174
Period size: 55 Copynumber: 2.4 Consensus size: 54
103843872 CCCTTAACCT
* * *
103843882 GTGTGCAACACTGACTTTAAAACACGGCCATGACACA-CTCCAGTGTGGCCTGCCC
1 GTGTACAACACTGACTTTAAAACACGACCATGACACATC-CCA-TGTGGCATGCCC
* *
103843937 GTGTACAACACTGGCTTTAAAACACGACCATGACACATGCCCATGTGGCATGTCC
1 GTGTACAACACTGACTTTAAAACACGACCATGACACAT-CCCATGTGGCATGCCC
*
103843992 GTGTACAACACTAACTTTAAA
1 GTGTACAACACTGACTTTAAA
103844013 TTTTAAGTGC
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
55 63 0.94
56 3 0.04
57 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (54 bp):
GTGTACAACACTGACTTTAAAACACGACCATGACACATCCCATGTGGCATGCCC
Found at i:103844849 original size:49 final size:47
Alignment explanation
Indices: 103844781--103845088 Score: 198
Period size: 47 Copynumber: 6.5 Consensus size: 47
103844771 TTGCCGATGC
*
103844781 CATGTCCTAGACATGGTCTTACACTGGCTATCATCATCGAGGCTAATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTATCATCATCGAGGCTAATG
* ** * * * *
103844829 CCATGTCCCAGACATGGTCTTATACTATCTCTCGTCTATACG-TGCTGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTATCATC-AT-CGAGGCTAATG
* * * * * *
103844879 CATGTCCCAGACATGCCTTACACT-AC-AACAAC-TCTTA-GCCAATG
1 CATGTCCCAGACATGTCTTACACTGGCTATCATCATC-GAGGCTAATG
* * * *
103844923 CATGTCCCAGACACGTCTTACAATGGCTATCATCGTCGAGGCCAATG
1 CATGTCCCAGACATGTCTTACACTGGCTATCATCATCGAGGCTAATG
* * ** * * * *
103844970 CATGTCCCAGACGTGTCTTACATTGGCGCTTATTC-TCTACGCTGATG
1 CATGTCCCAGACATGTCTTACACTGGCTATCA-TCATCGAGGCTAATG
* * * * * *
103845017 CCATGTCCCAGACACGGTCTTACATTAGCTATCAT-ATTGTGGCTGATG
1 -CATGTCCCAGACA-TGTCTTACACTGGCTATCATCATCGAGGCTAATG
103845065 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
103845089 AGCACACAAG
Statistics
Matches: 200, Mismatches: 47, Indels: 27
0.73 0.17 0.10
Matches are distributed among these distances:
43 1 0.00
44 27 0.14
45 1 0.00
46 16 0.08
47 57 0.28
48 31 0.16
49 57 0.28
50 8 0.04
51 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.29
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTGGCTATCATCATCGAGGCTAATG
Found at i:103845473 original size:30 final size:30
Alignment explanation
Indices: 103845432--103845489 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
103845422 AAATTCACAT
* *
103845432 CTTTGGTAAAATGACCATTTTGCCCCTAGA
1 CTTTGGCAAAATGACCATTTTACCCCTAGA
103845462 CTTTGGCAAAATGACCATTTTACCCCTA
1 CTTTGGCAAAATGACCATTTTACCCCTA
103845490 TGCTTGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (30 bp):
CTTTGGCAAAATGACCATTTTACCCCTAGA
Found at i:103847772 original size:28 final size:27
Alignment explanation
Indices: 103847747--103847803 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
103847737 TTTGTGGCGG
103847747 ACCCTAAAAGAAATAATGA-GTATGGCAA
1 ACCCT-AAAGAAATAA-GATGTATGGCAA
*
103847775 ACCCTGAAGAAATAAGATGTATGGCAA
1 ACCCTAAAGAAATAAGATGTATGGCAA
103847802 AC
1 AC
103847804 TCGTAAGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 2 0.07
27 20 0.74
28 5 0.19
ACGTcount: A:0.47, C:0.16, G:0.19, T:0.18
Consensus pattern (27 bp):
ACCCTAAAGAAATAAGATGTATGGCAA
Found at i:103851220 original size:45 final size:45
Alignment explanation
Indices: 103851165--103851267 Score: 161
Period size: 45 Copynumber: 2.3 Consensus size: 45
103851155 ATACACCTAC
* *
103851165 AATGTGTAAGACCATAGTTGAAAGATGCTATGGCGTCATAATAGA
1 AATGAGTAAGACCATAGTTGAAAGATGCTATGGCATCATAATAGA
* * *
103851210 AATGAGTAAGACCATGGTTGAAATATGCTATGGCATCATAATATA
1 AATGAGTAAGACCATAGTTGAAAGATGCTATGGCATCATAATAGA
103851255 AATGAGTAAGACC
1 AATGAGTAAGACC
103851268 CTGACTGAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 53 1.00
ACGTcount: A:0.40, C:0.12, G:0.22, T:0.26
Consensus pattern (45 bp):
AATGAGTAAGACCATAGTTGAAAGATGCTATGGCATCATAATAGA
Found at i:103851293 original size:45 final size:45
Alignment explanation
Indices: 103851165--103851281 Score: 146
Period size: 45 Copynumber: 2.6 Consensus size: 45
103851155 ATACACCTAC
* * *
103851165 AATGTGTAAGACCAT-AGTTGAAAGATGCTATGGCGTCATAATAGA
1 AATGAGTAAGACCATGA-CTGAAAGATGCTATGGCATCATAATAGA
** * *
103851210 AATGAGTAAGACCATGGTTGAAATATGCTATGGCATCATAATATA
1 AATGAGTAAGACCATGACTGAAAGATGCTATGGCATCATAATAGA
*
103851255 AATGAGTAAGACCCTGACTGAAAGATG
1 AATGAGTAAGACCATGACTGAAAGATG
103851282 GCATGACATC
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
45 62 1.00
ACGTcount: A:0.39, C:0.12, G:0.23, T:0.26
Consensus pattern (45 bp):
AATGAGTAAGACCATGACTGAAAGATGCTATGGCATCATAATAGA
Found at i:103875253 original size:12 final size:13
Alignment explanation
Indices: 103875225--103875257 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
103875215 TTATTTCTTT
103875225 TTCTCCATCTACC
1 TTCTCCATCTACC
*
103875238 TTCTCC-TCTTCC
1 TTCTCCATCTACC
103875250 TTCTCCAT
1 TTCTCCAT
103875258 AGCCGAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.09, C:0.45, G:0.00, T:0.45
Consensus pattern (13 bp):
TTCTCCATCTACC
Found at i:103876357 original size:28 final size:28
Alignment explanation
Indices: 103876325--103876389 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
103876315 ATTTACTAGA
*
103876325 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
103876353 ATACCCCTATGTGTGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
103876381 ATACCCCTA
1 ATACCCCTA
103876390 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.28, G:0.09, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:103876553 original size:27 final size:27
Alignment explanation
Indices: 103876495--103876584 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 27
103876485 AGGAAGCGTC
103876495 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
103876523 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
103876550 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
103876579 CTGGTG
1 CTGGTG
103876585 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 23 0.42
28 25 0.45
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:103876603 original size:55 final size:56
Alignment explanation
Indices: 103876495--103876609 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
103876485 AGGAAGCGTC
* *
103876495 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
103876550 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
103876606 CTGG
1 CTGG
103876610 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.58
56 21 0.40
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:103877681 original size:11 final size:10
Alignment explanation
Indices: 103877653--103877686 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
103877643 AGCCTGTAGG
103877653 TATTCTGAAT
1 TATTCTGAAT
*
103877663 TTTTCTGAAT
1 TATTCTGAAT
103877673 ATATTCTGAAT
1 -TATTCTGAAT
103877684 TAT
1 TAT
103877687 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:103884179 original size:28 final size:28
Alignment explanation
Indices: 103884147--103884211 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
103884137 ATTTACTAGA
*
103884147 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
103884175 ATACCCCTATGTGTGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
103884203 ATACCCCTA
1 ATACCCCTA
103884212 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.28, G:0.09, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:103884374 original size:27 final size:27
Alignment explanation
Indices: 103884316--103884405 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 27
103884306 AGGAAGCGCC
103884316 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
103884344 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
103884371 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
103884400 CTGGTG
1 CTGGTG
103884406 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 23 0.42
28 25 0.45
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:103884424 original size:55 final size:56
Alignment explanation
Indices: 103884316--103884430 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
103884306 AGGAAGCGCC
* *
103884316 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
103884371 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
103884427 CTGG
1 CTGG
103884431 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.58
56 21 0.40
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:103885786 original size:48 final size:47
Alignment explanation
Indices: 103885716--103885949 Score: 229
Period size: 48 Copynumber: 4.9 Consensus size: 47
103885706 GTAAATTGTT
* * *
103885716 GATG-CATGTCCTAGACATGGTCTTACACTGGCTCACATGTCGAGGCC
1 GATGCCATGTCCTAGACATGGTCTTACACTAGCTCACATATC-AAGCC
* * * **
103885763 GATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCGTCTCAATGTT
1 GATGCCATGTCCTAGACATGGTCTTACACTAGCTCACATATCAA-GCC
* * * ** *
103885811 GATGTCATGTCCCAGACATGGTCTTACACTGGCTTTCATAATCTAGCC
1 GATGCCATGTCCTAGACATGGTCTTACACTAGCTCACAT-ATCAAGCC
* *
103885859 GATGCCATAT-CTCAGACATGGTCTTACACTAGCACACATATCAACGCC
1 GATGCCATGTCCT-AGACATGGTCTTACACTAGCTCACATATCAA-GCC
* * * *
103885907 AATGCCATGTCCCAGACATGGCCTTACACTAGCACACATATCA
1 GATGCCATGTCCTAGACATGGTCTTACACTAGCTCACATATCA
103885950 CCCATTTGTC
Statistics
Matches: 153, Mismatches: 28, Indels: 11
0.80 0.15 0.06
Matches are distributed among these distances:
47 10 0.07
48 139 0.91
49 4 0.03
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (47 bp):
GATGCCATGTCCTAGACATGGTCTTACACTAGCTCACATATCAAGCC
Found at i:103885884 original size:96 final size:95
Alignment explanation
Indices: 103885712--103885948 Score: 271
Period size: 96 Copynumber: 2.5 Consensus size: 95
103885702 GAGGGTAAAT
* * *
103885712 TGTTGATGCATGTCCTAGACATGGTCTTACACTGGCTCACATGTCGAGGCCGATGCCATGTCCTA
1 TGTTGATGCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATATCCTA
* * * *
103885777 GACATGGTCTTACACTAGCTCTCGTCTCAA
66 GACATGGTCTTACACTAGCACACATATCAA
** *
103885807 TGTTGATGTCATGTCCCAGACATGGTCTTACACTGGCTTTCATAATCTA-GCCGATGCCATAT-C
1 TGTTGATG-CATGTCCCAGACATGGTCTTACACTGGCTCACAT-ATCGAGGCCGATGCCATATCC
103885870 TCAGACATGGTCTTACACTAGCACACATATCAA
64 T-AGACATGGTCTTACACTAGCACACATATCAA
* *** * * *
103885903 CGCCAATGCCATGTCCCAGACATGGCCTTACACTAGCACACATATC
1 TGTTGATG-CATGTCCCAGACATGGTCTTACACTGGCTCACATATC
103885949 ACCCATTTGT
Statistics
Matches: 119, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
95 13 0.11
96 103 0.87
97 3 0.03
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (95 bp):
TGTTGATGCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATATCCTA
GACATGGTCTTACACTAGCACACATATCAA
Found at i:103894258 original size:40 final size:40
Alignment explanation
Indices: 103894175--103894354 Score: 195
Period size: 40 Copynumber: 4.5 Consensus size: 40
103894165 AATCAAGCAT
** * *
103894175 CTTCGGGT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
103894212 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
103894252 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * * *
103894292 CTTCGGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCAC-TAGCACAAATGC
* * *
103894333 CTTCGGGACCTAGCCTGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
103894355 CATTCGAGTA
Statistics
Matches: 120, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
37 8 0.07
38 4 0.03
39 16 0.13
40 65 0.54
41 27 0.22
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:103896848 original size:16 final size:16
Alignment explanation
Indices: 103896829--103896860 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
103896819 AATTGTTTTA
103896829 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
103896845 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
103896861 ACACCATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:103897135 original size:50 final size:50
Alignment explanation
Indices: 103897071--103897400 Score: 308
Period size: 50 Copynumber: 6.6 Consensus size: 50
103897061 CTGGTATGCA
*
103897071 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTATCAATCTGGTACACG
* * * * * *
103897121 TAGTAGCCTACACTTAGTACTACACACGTGACTTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTATCAATCTGGTACACG
* * ** * * *
103897171 TAGTAGCTTGCACTTAGTACTACACACGTGATCAAAGTTAA-C-GGATACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCTA-TCAATCTGG-TACACG
* *
103897222 TAGTAGCCTGCACTTAGTACTACACATGCGATCTATCAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTATCAATCTGGTACACG
** * * * * * *
103897272 TAGTAGCCCACACTTAGTACTACACACGTGA-TTGAAGTTAA-CGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCT--A-TCAATCTGGTACACG
** *
103897323 TAGTAGCCTGCACTTAGTACTACACATACGACCTATCAATCTGTTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTATCAATCTGGTACACG
* * *
103897373 CAGTAGCATGCACTTAGTATTACACACG
1 TAGTAGCCTGCACTTAGTACTACACACG
103897401 TGACTCACAA
Statistics
Matches: 219, Mismatches: 51, Indels: 20
0.76 0.18 0.07
Matches are distributed among these distances:
49 7 0.03
50 136 0.62
51 71 0.32
52 5 0.02
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCTATCAATCTGGTACACG
Found at i:103897247 original size:101 final size:101
Alignment explanation
Indices: 103897121--103897403 Score: 388
Period size: 101 Copynumber: 2.8 Consensus size: 101
103897111 CTGGTACACG
* * * * * *
103897121 TAGTAGCCTACACTTAGTACTACACACGTGACTTAACCATCTGATACACGTAGTAGCTTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACATGCGACTTATCAATCTGATACACGTAGTAGCATGCACTT
103897186 AGTACTACACACGTGATCAAAGTTAACGGATACGCA
66 AGTACTACACACGTGATCAAAGTTAACGGATACGCA
* ***
103897222 TAGTAGCCTGCACTTAGTACTACACATGCGA-TCTATCAATCTGGTACACGTAGTAGCCCACACT
1 TAGTAGCCTGCACTTAGTACTACACATGCGACT-TATCAATCTGATACACGTAGTAGCATGCACT
** *
103897286 TAGTACTACACACGTGATTGAAGTTAACGGGTACGCA
65 TAGTACTACACACGTGATCAAAGTTAACGGATACGCA
* * * *
103897323 TAGTAGCCTGCACTTAGTACTACACATACGACCTATCAATCTGTTACACGCAGTAGCATGCACTT
1 TAGTAGCCTGCACTTAGTACTACACATGCGACTTATCAATCTGATACACGTAGTAGCATGCACTT
*
103897388 AGTATTACACACGTGA
66 AGTACTACACACGTGA
103897404 CTCACAATGA
Statistics
Matches: 160, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
100 1 0.01
101 159 0.99
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (101 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACTTATCAATCTGATACACGTAGTAGCATGCACTT
AGTACTACACACGTGATCAAAGTTAACGGATACGCA
Found at i:103897378 original size:151 final size:151
Alignment explanation
Indices: 103897072--103897398 Score: 399
Period size: 151 Copynumber: 2.2 Consensus size: 151
103897062 TGGTATGCAT
*
103897072 AGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCCTACACTTA
1 AGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCCCACACTTA
* * * * **
103897137 GTACTACACACGTGACTTAACCATCTGATACACGTAGTAGCTTGCACTTAGTACTACACACGTGA
66 GTACTACACACGTGACTTAACCAACGGATACACATAGTAGCCTGCACTTAGTACTACACACACGA
* * *
103897202 TCAAAGTTAACGGATACGCAT
131 TCAAAGTCAACGGATACACAC
*
103897223 AGTAGCCTGCACTTAGTACTACACATGCGATCTATCAATCTGGTACACGTAGTAGCCCACACTTA
1 AGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCCCACACTTA
** * * *
103897288 GTACTACACACGTGA-TTGAAGTTAACGGGTACGCATAGTAGCCTGCACTTAGTACTACACATAC
66 GTACTACACACGTGACTT-AA-CCAACGGATACACATAGTAGCCTGCACTTAGTACTACACACAC
** * * *
103897352 GA-CCTA-TCAATCTGTTACACGC
129 GATCAAAGTCAA-CGGATACACAC
* *
103897374 AGTAGCATGCACTTAGTATTACACA
1 AGTAGCCTGCACTTAGTACTACACA
103897399 CGTGACTCAC
Statistics
Matches: 150, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
150 5 0.03
151 111 0.74
152 34 0.23
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (151 bp):
AGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCCCACACTTA
GTACTACACACGTGACTTAACCAACGGATACACATAGTAGCCTGCACTTAGTACTACACACACGA
TCAAAGTCAACGGATACACAC
Found at i:103897780 original size:19 final size:20
Alignment explanation
Indices: 103897752--103897798 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
103897742 AAGAACAGGT
103897752 TATATCATCAAAATAATCACA
1 TATAT-ATCAAAATAATCACA
* *
103897773 TA-ATATCAAATTATTCACA
1 TATATATCAAAATAATCACA
103897792 TATATAT
1 TATATAT
103897799 ACTTACAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (20 bp):
TATATATCAAAATAATCACA
Found at i:103899310 original size:17 final size:16
Alignment explanation
Indices: 103899273--103899311 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
103899263 AATAAACAAC
103899273 TAAA-TAAATTGGAAA
1 TAAATTAAATTGGAAA
103899288 TAAAATTAAATTGGAAAA
1 T-AAATTAAATTGG-AAA
103899306 TAAATT
1 TAAATT
103899312 TGTTTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 1 0.05
16 3 0.14
17 13 0.62
18 4 0.19
ACGTcount: A:0.59, C:0.00, G:0.10, T:0.31
Consensus pattern (16 bp):
TAAATTAAATTGGAAA
Found at i:103902226 original size:29 final size:29
Alignment explanation
Indices: 103902164--103902266 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
103902154 GTGACGAGAT
* * *
103902164 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
103902193 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
103902222 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
103902251 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
103902267 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:103910238 original size:29 final size:29
Alignment explanation
Indices: 103910176--103910278 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
103910166 GTGACGAGAT
* * *
103910176 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
103910205 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
103910234 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
103910263 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
103910279 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:103912303 original size:40 final size:40
Alignment explanation
Indices: 103912245--103912346 Score: 145
Period size: 40 Copynumber: 2.6 Consensus size: 40
103912235 ATTGTCAGAT
*
103912245 CAATCG-AACACACCAGACAGAAGCTCAAAAGAGGTAATC
1 CAATCGAAACACACCAGACAGAAGCTCAAAAGAGCTAATC
* **
103912284 CAATCGAAACACACTAGACAGAAGCTCGTAAGAGCTAATC
1 CAATCGAAACACACCAGACAGAAGCTCAAAAGAGCTAATC
*
103912324 CAACCGAAACACACCAGAC-GAAG
1 CAATCGAAACACACCAGACAGAAG
103912347 AGTATAACAC
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
39 10 0.18
40 46 0.82
ACGTcount: A:0.45, C:0.27, G:0.18, T:0.10
Consensus pattern (40 bp):
CAATCGAAACACACCAGACAGAAGCTCAAAAGAGCTAATC
Found at i:103915952 original size:77 final size:78
Alignment explanation
Indices: 103915794--103915984 Score: 266
Period size: 77 Copynumber: 2.5 Consensus size: 78
103915784 CTTGGTTTAG
* * * * *
103915794 GAAATTACTTAATTCCTTAAA-ACTCTTTAAAGTTTT-AGTGACCTTTAATAAATTAAGTATTTT
1 GAAATTACTTAATTTCTTAAACACACTTTAAGGTTTTAAGTAACCCTTAATAAATTAAGTATTTT
*
103915857 TCCCATGATTTAT
66 TCCCATGATGTAT
*
103915870 G-AATTACTTAATTTCTTAAACACACTTTAAGGTTTTAAGTAACCCTTCATAAATTAAGTATTTT
1 GAAATTACTTAATTTCTTAAACACACTTTAAGGTTTTAAGTAACCCTTAATAAATTAAGTA-TTT
*
103915934 TTTCCA-GATGTA-
65 TTCCCATGATGTAT
103915946 GAAATTACTTAATTTCTTAAACACACTTTAAGGTTTTAA
1 GAAATTACTTAATTTCTTAAACACACTTTAAGGTTTTAA
103915985 TCATCTTTAT
Statistics
Matches: 103, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
75 18 0.17
76 15 0.15
77 62 0.60
78 8 0.08
ACGTcount: A:0.35, C:0.14, G:0.08, T:0.43
Consensus pattern (78 bp):
GAAATTACTTAATTTCTTAAACACACTTTAAGGTTTTAAGTAACCCTTAATAAATTAAGTATTTT
TCCCATGATGTAT
Found at i:103920336 original size:31 final size:31
Alignment explanation
Indices: 103920298--103920362 Score: 112
Period size: 31 Copynumber: 2.1 Consensus size: 31
103920288 GGAGGAATAC
*
103920298 ATATAATACCATAATTCTTAAAAGCTATTCA
1 ATATAATACCATAATTCTTAAAAGCTACTCA
*
103920329 ATATAATACCATAATTCTTAAAAGGTACTCA
1 ATATAATACCATAATTCTTAAAAGCTACTCA
103920360 ATA
1 ATA
103920363 AATCGTATTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.46, C:0.15, G:0.05, T:0.34
Consensus pattern (31 bp):
ATATAATACCATAATTCTTAAAAGCTACTCA
Found at i:103922518 original size:46 final size:46
Alignment explanation
Indices: 103922455--103922634 Score: 188
Period size: 46 Copynumber: 3.9 Consensus size: 46
103922445 TACACTGACA
*
103922455 CATCTCGTAGCCAATGCATATCCCAGACATGTCTTACACTGGCT-T
1 CATCTCGCAGCCAATGCATATCCCAGACATGTCTTACACTGGCTCT
* * * *
103922500 ACATCTCG-AGGCCGATGCATGTCCCGGACATGTCTTACACTAGCTCT
1 -CATCTCGCA-GCCAATGCATATCCCAGACATGTCTTACACTGGCTCT
* *
103922547 CGTCTC-AATGCCAATGCCATATCCCAGACATGGTCTTACACTGGCTCT
1 CATCTCGCA-GCCAATG-CATATCCCAGACAT-GTCTTACACTGGCTCT
* * *
103922595 CATAAT-GCAGCCGATGCATGTCCCAGACATGTCTTACACT
1 CAT-CTCGCAGCCAATGCATATCCCAGACATGTCTTACACT
103922635 AGTACACAAA
Statistics
Matches: 112, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
45 1 0.01
46 60 0.54
47 26 0.23
48 23 0.21
49 2 0.02
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.27
Consensus pattern (46 bp):
CATCTCGCAGCCAATGCATATCCCAGACATGTCTTACACTGGCTCT
Found at i:103922608 original size:94 final size:92
Alignment explanation
Indices: 103922464--103922636 Score: 262
Period size: 94 Copynumber: 1.9 Consensus size: 92
103922454 ACATCTCGTA
* *
103922464 GCCAATGCATATCCCAGACATGTCTTACACTGGCTTACATCTCGAGGCCGATGCATGTCCCGGAC
1 GCCAATGCATATCCCAGACATGTCTTACACTGGCTTACATATCGAGGCCGATGCATGTCCCAGAC
103922529 ATGTCTTACACTAGCTCTCGTCTCAAT
66 ATGTCTTACACTAGCTCTCGTCTCAAT
103922556 GCCAATGCCATATCCCAGACATGGTCTTACACTGGCTCT-CATAAT-GCA-GCCGATGCATGTCC
1 GCCAATG-CATATCCCAGACAT-GTCTTACACTGGCT-TACAT-ATCG-AGGCCGATGCATGTCC
103922618 CAGACATGTCTTACACTAG
61 CAGACATGTCTTACACTAG
103922637 TACACAAATA
Statistics
Matches: 74, Mismatches: 2, Indels: 8
0.88 0.02 0.10
Matches are distributed among these distances:
92 7 0.09
93 14 0.19
94 50 0.68
95 3 0.04
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.26
Consensus pattern (92 bp):
GCCAATGCATATCCCAGACATGTCTTACACTGGCTTACATATCGAGGCCGATGCATGTCCCAGAC
ATGTCTTACACTAGCTCTCGTCTCAAT
Found at i:103927611 original size:46 final size:46
Alignment explanation
Indices: 103927388--103927743 Score: 199
Period size: 46 Copynumber: 7.5 Consensus size: 46
103927378 GCTGATGCCT
* * *
103927388 TGTCCCAGACATGGTCTTACATTGGCTCATC-CATCAA-GTCGATGCCA
1 TGTCCCAGACAT-GTCTTACACTAGCTC-TCATATCAAGGTCGATG-CA
* * * * ** *
103927435 TGTCCCAGACATGGTCTTACACT-GACTATCGAAATCGAGGCCGACACTC
1 TGTCCCAGACAT-GTCTTACACTAG-CTCTC-ATATCAAGGTCGATGC-A
* * * * ***
103927484 TGTCCTAAACATGGCCTTACACTAGCTTTCATATATCCTTGTCGATGCCA
1 TGTCCCAGACAT-GTCTTACACTAGCTCTC--ATATCAAGGTCGATG-CA
* * * * *
103927534 TGTCCTAGACATGGTCTTACACTA--ACGCATCTCGTA-GTCGATGCA
1 TGTCCCAGACAT-GTCTTACACTAGCTCTCATATC-AAGGTCGATGCA
* * *
103927579 TGTCCCAGACATGTCTTACACTGGCT-TACATCTCAAGGCCGATGCA
1 TGTCCCAGACATGTCTTACACTAGCTCT-CATATCAAGGTCGATGCA
* * *
103927625 TGTCCCAGACATGTCTTACACTAGCTCTCGTATCAATGTCGATTCCA
1 TGTCCCAGACATGTCTTACACTAGCTCTCATATCAAGGTCGA-TGCA
* *
103927672 TGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-ATA-GCCGATGCA
1 TGTCCCAGACAT-GTCTTACACTAGCTCTCAT-ATCA-AGGTCGATGCA
* *
103927719 TGTCTCAGACATGTCTGACACTAGC
1 TGTCCCAGACATGTCTTACACTAGC
103927744 ACACAAATAG
Statistics
Matches: 243, Mismatches: 48, Indels: 37
0.74 0.15 0.11
Matches are distributed among these distances:
44 10 0.04
45 14 0.06
46 74 0.30
47 54 0.22
48 28 0.12
49 31 0.13
50 31 0.13
51 1 0.00
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.28
Consensus pattern (46 bp):
TGTCCCAGACATGTCTTACACTAGCTCTCATATCAAGGTCGATGCA
Found at i:103933718 original size:22 final size:20
Alignment explanation
Indices: 103933683--103933730 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
103933673 TTTAAATTTC
103933683 AAATTTCAAAAATATAATATA
1 AAATTTCAAAAATATAA-ATA
*
103933704 AAATTATCATAAATATAAATA
1 AAATT-TCAAAAATATAAATA
*
103933725 ATATTT
1 AAATTT
103933731 ATCGTAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 1 0.04
21 12 0.50
22 11 0.46
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (20 bp):
AAATTTCAAAAATATAAATA
Found at i:103933740 original size:21 final size:22
Alignment explanation
Indices: 103933683--103933725 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
103933673 TTTAAATTTC
*
103933683 AAATT-TCAAAAATATAATATA
1 AAATTATCATAAATATAATATA
103933704 AAATTATCATAAATATAA-ATA
1 AAATTATCATAAATATAATATA
103933725 A
1 A
103933726 TATTTATCGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.33
Consensus pattern (22 bp):
AAATTATCATAAATATAATATA
Found at i:103934754 original size:22 final size:23
Alignment explanation
Indices: 103934728--103934772 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
103934718 TCAAAGTGAA
*
103934728 ATTTATTTTT-TTATTAAAAATT
1 ATTTATTTTTACTATTAAAAATT
103934750 ATTTATTTTTACTATTAAAAATT
1 ATTTATTTTTACTATTAAAAATT
103934773 GATATAATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (23 bp):
ATTTATTTTTACTATTAAAAATT
Found at i:103938057 original size:41 final size:41
Alignment explanation
Indices: 103938000--103938081 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
103937990 AAATATGTTG
103938000 GAATTTTATTCAAACAGATCAAATACAAGGCACAATCAACA
1 GAATTTTATTCAAACAGATCAAATACAAGGCACAATCAACA
103938041 GAATTTTATTCAAACAGATCAAATACAAGGCACAATCAACA
1 GAATTTTATTCAAACAGATCAAATACAAGGCACAATCAACA
103938082 AAACATCCAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.49, C:0.20, G:0.10, T:0.22
Consensus pattern (41 bp):
GAATTTTATTCAAACAGATCAAATACAAGGCACAATCAACA
Found at i:103941144 original size:17 final size:18
Alignment explanation
Indices: 103941110--103941144 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
103941100 TTTTTGTTCA
*
103941110 GTTTTTGATAATTTTTAC
1 GTTTTTGATAATTGTTAC
103941128 GTTTTTGAT-ATTGTTAC
1 GTTTTTGATAATTGTTAC
103941145 TTCGAATACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.20, C:0.06, G:0.14, T:0.60
Consensus pattern (18 bp):
GTTTTTGATAATTGTTAC
Found at i:103941986 original size:41 final size:41
Alignment explanation
Indices: 103941875--103941986 Score: 111
Period size: 41 Copynumber: 2.7 Consensus size: 41
103941865 GATATTCGGG
* * * ***
103941875 CTTTGAGCCTAGCAAGCCTTGTGCTGGTGAATTAAATCGGG
1 CTTTGAGCCTAGCAGGCCTTGTGCTGGTGTATAAAATCAAA
* *
103941916 CTTT-ATGCCTAGCAGG-CTTATTGCCGGTGTATAAAATCAAA
1 CTTTGA-GCCTAGCAGGCCTT-GTGCTGGTGTATAAAATCAAA
*
103941957 CTTTGAGTCTAGCAGGCCTTGTGCTGGTGT
1 CTTTGAGCCTAGCAGGCCTTGTGCTGGTGT
103941987 GTGATACAGG
Statistics
Matches: 56, Mismatches: 11, Indels: 8
0.75 0.15 0.11
Matches are distributed among these distances:
40 4 0.07
41 48 0.86
42 4 0.07
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.32
Consensus pattern (41 bp):
CTTTGAGCCTAGCAGGCCTTGTGCTGGTGTATAAAATCAAA
Found at i:103949885 original size:39 final size:40
Alignment explanation
Indices: 103949739--103949888 Score: 117
Period size: 41 Copynumber: 3.7 Consensus size: 40
103949729 GATATTCGGG
* * * * * * *
103949739 CTTTGAGCCTAGCAAGCCTTGTGCTGGTGAATTAAATCGGG
1 CTTTGAGCCTAGC-AGGCTTATGCCGGTGTATAAAATCAGA
103949780 CTTT-ATGCCTAGCAGGCTTATTGCCGGTGTATAAAATCAGA
1 CTTTGA-GCCTAGCAGGCTTA-TGCCGGTGTATAAAATCAGA
* * * * * *
103949821 CTTTGAGTCTAGCAGGCCTTGTGCCGGTGTGTGATA-CAGG
1 CTTTGAGCCTAGCAGG-CTTATGCCGGTGTATAAAATCAGA
103949861 CTTTG-GCCTAGCAGGCTTTATGCCGGTG
1 CTTTGAGCCTAGCAGGC-TTATGCCGGTG
103949889 AATTATTATA
Statistics
Matches: 89, Mismatches: 15, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
38 1 0.01
39 19 0.21
40 14 0.16
41 51 0.57
42 4 0.04
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.31
Consensus pattern (40 bp):
CTTTGAGCCTAGCAGGCTTATGCCGGTGTATAAAATCAGA
Found at i:103951182 original size:2 final size:2
Alignment explanation
Indices: 103951175--103951210 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
103951165 TTACCTTAAG
103951175 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
103951211 AACATGATGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:103953778 original size:51 final size:51
Alignment explanation
Indices: 103953710--103953821 Score: 188
Period size: 51 Copynumber: 2.2 Consensus size: 51
103953700 ATCACATTTA
*
103953710 TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
1 TCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
* *
103953761 TCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCACTTG
1 TCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
*
103953812 TCACTGATCA
1 TCACTTATCA
103953822 GAAGTACTCA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (51 bp):
TCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
Found at i:103960088 original size:51 final size:51
Alignment explanation
Indices: 103960020--103960131 Score: 179
Period size: 51 Copynumber: 2.2 Consensus size: 51
103960010 ATCACATTTA
* *
103960020 TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
1 TCACTTATCACTAATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
* *
103960071 TCACTTATCACTAATCAGATAAGTGTAGCTGAGGCTACCACTTATCACTTG
1 TCACTTATCACTAATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
*
103960122 TCACTGATCA
1 TCACTTATCA
103960132 GAAGTACTCA
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.31
Consensus pattern (51 bp):
TCACTTATCACTAATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
Found at i:103962999 original size:30 final size:28
Alignment explanation
Indices: 103962928--103962999 Score: 81
Period size: 30 Copynumber: 2.5 Consensus size: 28
103962918 AATGGGAAGT
103962928 AATTTTATATTAATTATTAACGAAAAAA
1 AATTTTATATTAATTATTAACGAAAAAA
* * *
103962956 TATGTTTATATTAATTATATTATGAAAAACA
1 AAT-TTTATATTAATTAT-TAACGAAAAA-A
*
103962987 AATTTTACATTAA
1 AATTTTATATTAA
103963000 GTACATAATG
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
28 2 0.06
29 14 0.39
30 17 0.47
31 3 0.08
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (28 bp):
AATTTTATATTAATTATTAACGAAAAAA
Found at i:103963601 original size:24 final size:23
Alignment explanation
Indices: 103963565--103963612 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
103963555 ATTACATAGC
103963565 ATTTATTATAAATAATTTATACT
1 ATTTATTATAAATAATTTATACT
* *
103963588 ATTTTTTATGAAATTATTTATACT
1 ATTTATTAT-AAATAATTTATACT
103963612 A
1 A
103963613 ATGGATCACA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 8 0.36
24 14 0.64
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (23 bp):
ATTTATTATAAATAATTTATACT
Found at i:103974902 original size:126 final size:126
Alignment explanation
Indices: 103974496--103975003 Score: 716
Period size: 126 Copynumber: 4.0 Consensus size: 126
103974486 TTTTTGCAAG
* *
103974496 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAAACGCTTCAAGCAGGATGCAATGT
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCG-AAAACGCTTCAAGCAAGATGCACTGT
* * * *
103974561 CAGTAAAATTTCTAG-AAAAAGCTCCCACATGGACGCTATTTTACTACAGTAGTTCGTTTGAAA
65 CAGTAAAATTTC-AGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCG-TAGAAA
* *
103974624 AATAATTCTGAGTAGATGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACTGTC
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAAGATGCACTGTC
* * ** * * *
103974689 AGTAAAATTT-TGGAAAAAGCTCTTACGTGAATGCTCTTTTGCTACAGTAGTTCATAGAAA
66 AGTAAAATTTCAGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
* * *
103974749 AATAATTATGAGTAGACATTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAAGATGCATTGTC
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAAGATGCACTGTC
* * * *
103974814 AGCAAAATTTCAGAAAAAAGCTTCCATGTGGACGCTCTTTTGCTATAGTAGTTCGTAGAAA
66 AGTAAAATTTCAGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
* * *
103974875 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACACTTTAAGC-AGAATGCACTAT
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAAG-ATGCACTGT
* *
103974939 CAGTAAAATTTCAGAAAAAAGCTCCCACGTGGACTCTCTTTTGCTACAGTACTTCGTAGAAA
65 CAGTAAAATTTCAGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
103975001 AAT
1 AAT
103975004 GAGGCTATAA
Statistics
Matches: 337, Mismatches: 40, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
125 77 0.23
126 187 0.55
127 36 0.11
128 37 0.11
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.29
Consensus pattern (126 bp):
AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAAGATGCACTGTC
AGTAAAATTTCAGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
Found at i:103978518 original size:18 final size:18
Alignment explanation
Indices: 103978492--103978534 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
103978482 GACTAAGAAA
*
103978492 AGGAAACATATAAGAGCT
1 AGGATACATATAAGAGCT
*
103978510 AGGATACATATAAGGGCT
1 AGGATACATATAAGAGCT
103978528 AGGATAC
1 AGGATAC
103978535 GCACCTAGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.44, C:0.12, G:0.26, T:0.19
Consensus pattern (18 bp):
AGGATACATATAAGAGCT
Found at i:103980218 original size:48 final size:48
Alignment explanation
Indices: 103980122--103980255 Score: 139
Period size: 48 Copynumber: 2.8 Consensus size: 48
103980112 ATGCAAACAT
* ** * *
103980122 CATAAATGAAAAAAA-ATCAAGCAGCATTG-ACATTGTAATTATAATTG
1 CATAAATGAAAAAAATACCAAATAGTATTGAAAATT-TAATTATAATTG
* *
103980169 CATAAATGAATAAAATACCAAATAGTATTGCAAATTTAATTA-AATTTG
1 CATAAATGAAAAAAATACCAAATAGTATTGAAAATTTAATTATAA-TTG
* * *
103980217 CATAAATTAAAAAAATATCGAATAGTATTGAAAATTTAA
1 CATAAATGAAAAAAATACCAAATAGTATTGAAAATTTAA
103980256 AATTATCACT
Statistics
Matches: 73, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
47 16 0.22
48 53 0.73
49 4 0.05
ACGTcount: A:0.51, C:0.08, G:0.10, T:0.31
Consensus pattern (48 bp):
CATAAATGAAAAAAATACCAAATAGTATTGAAAATTTAATTATAATTG
Found at i:103980407 original size:11 final size:11
Alignment explanation
Indices: 103980391--103980445 Score: 60
Period size: 11 Copynumber: 5.1 Consensus size: 11
103980381 TTAAACAAAC
103980391 AAATTTGATAG
1 AAATTTGATAG
103980402 AAATTTGATAG
1 AAATTTGATAG
* *
103980413 AATTTTGAGA-
1 AAATTTGATAG
*
103980423 AAATTTCA-ATG
1 AAATTTGATA-G
103980434 AAATTTGATAG
1 AAATTTGATAG
103980445 A
1 A
103980446 TTTTTGAAGG
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
9 1 0.03
10 6 0.17
11 28 0.78
12 1 0.03
ACGTcount: A:0.45, C:0.02, G:0.16, T:0.36
Consensus pattern (11 bp):
AAATTTGATAG
Found at i:103981813 original size:66 final size:68
Alignment explanation
Indices: 103981737--103981923 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
103981727 TAGTACCACT
*
103981737 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
103981799 CACG
65 CACG
103981803 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
103981868 ATCACG
63 ATCACG
103981874 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
103981924 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:103981848 original size:71 final size:71
Alignment explanation
Indices: 103981760--103981923 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
103981750 CGATTTGTCT
103981760 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
103981825 CTTTCA
66 CTTTCA
103981831 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
103981896 CTTTCA
66 CTTTCA
103981902 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
103981924 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:103981961 original size:71 final size:70
Alignment explanation
Indices: 103981760--103981957 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
103981750 CGATTTGTCT
* * *
103981760 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
103981825 CTTTCA
65 CTTTCA
* * *
103981831 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
103981896 CTTTCA
65 CTTTCA
* *
103981902 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
103981958 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:103989381 original size:66 final size:68
Alignment explanation
Indices: 103989305--103989491 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
103989295 TAGTACCACT
*
103989305 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
103989367 CACG
65 CACG
103989371 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
103989436 ATCACG
63 ATCACG
103989442 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
103989492 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:103989416 original size:71 final size:71
Alignment explanation
Indices: 103989328--103989491 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
103989318 CGATTTGTCT
103989328 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
103989393 CTTTCA
66 CTTTCA
103989399 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
103989464 CTTTCA
66 CTTTCA
103989470 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
103989492 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:103989529 original size:71 final size:70
Alignment explanation
Indices: 103989328--103989525 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
103989318 CGATTTGTCT
* * *
103989328 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
103989393 CTTTCA
65 CTTTCA
* * *
103989399 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
103989464 CTTTCA
65 CTTTCA
* *
103989470 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
103989526 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:103992582 original size:11 final size:11
Alignment explanation
Indices: 103992551--103992576 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
103992541 AATGCTCTCT
103992551 CCATAGCTTCC
1 CCATAGCTTCC
103992562 CCATAGCTTCC
1 CCATAGCTTCC
103992573 CCAT
1 CCAT
103992577 TTCTTCACCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.19, C:0.46, G:0.08, T:0.27
Consensus pattern (11 bp):
CCATAGCTTCC
Found at i:103992594 original size:2 final size:2
Alignment explanation
Indices: 103992587--103992619 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
103992577 TTCTTCACCA
103992587 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
103992620 TTAACCTTTT
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:103992696 original size:2 final size:2
Alignment explanation
Indices: 103992689--103992713 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
103992679 ATACCTCATT
103992689 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
103992714 GTTTTCAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:103993392 original size:31 final size:31
Alignment explanation
Indices: 103993354--103993415 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
103993344 CATGAAATCA
103993354 TAATTGATTTTATGACACAAAGCTCTCTGCT
1 TAATTGATTTTATGACACAAAGCTCTCTGCT
103993385 TAATTGATTTTATGACACAAAGCTCTCTGCT
1 TAATTGATTTTATGACACAAAGCTCTCTGCT
103993416 CTATCTTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (31 bp):
TAATTGATTTTATGACACAAAGCTCTCTGCT
Found at i:103997243 original size:24 final size:24
Alignment explanation
Indices: 103997215--103997281 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
103997205 CTCCTTAAAT
* *
103997215 CTCTCCATAAATCACTCCTTGATT
1 CTCTCCATAAATCACTCCATGATA
* *
103997239 TTCTCC-TAATATCTCTCCATGATA
1 CTCTCCATAA-ATCACTCCATGATA
*
103997263 CACTCCATAAATCACTCCA
1 CTCTCCATAAATCACTCCA
103997282 ACCTCCCATT
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
23 3 0.09
24 28 0.82
25 3 0.09
ACGTcount: A:0.28, C:0.34, G:0.03, T:0.34
Consensus pattern (24 bp):
CTCTCCATAAATCACTCCATGATA
Found at i:103998344 original size:46 final size:46
Alignment explanation
Indices: 103998291--103998461 Score: 163
Period size: 46 Copynumber: 3.7 Consensus size: 46
103998281 TTGAGCATCC
103998291 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAATGTCT
* * *
103998337 GAACTCGTTGAGTTGAGTCCGAGTT--C-GAGAGATG-TAACTAGGCATCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAA-T--G--TCT
* * * * *
103998384 GAGCTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAATGTCT
* *
103998430 GAGCTCATTGAGTTGAGTCC-AGGTTCACTTAT
1 GAACTCGTTGAGTTGAGTCCGA-GTTCACTTAT
103998462 GGGCGGGTTA
Statistics
Matches: 102, Mismatches: 13, Indels: 20
0.76 0.10 0.15
Matches are distributed among these distances:
42 2 0.02
43 7 0.07
44 1 0.01
45 2 0.02
46 54 0.53
47 26 0.25
48 1 0.01
49 1 0.01
50 6 0.06
51 2 0.02
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAATGTCT
Found at i:104001396 original size:15 final size:15
Alignment explanation
Indices: 104001376--104001442 Score: 80
Period size: 15 Copynumber: 4.5 Consensus size: 15
104001366 GTATCTTGGG
104001376 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
104001391 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
104001406 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
104001421 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
104001436 TTTCTTT
1 TTTCTTT
104001443 TCGGTTTTCT
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 43 1.00
ACGTcount: A:0.10, C:0.18, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:104001410 original size:30 final size:30
Alignment explanation
Indices: 104001367--104001442 Score: 91
Period size: 30 Copynumber: 2.5 Consensus size: 30
104001357 CATAGTATCG
* *
104001367 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATCCTGGATCTCTC
* * *
104001397 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATCCTGGATCTCTC
104001427 TATCTTGGATTTCTTT
1 TATCTTGGATTTCTTT
104001443 TCGGTTTTCT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
29 1 0.03
30 37 0.95
31 1 0.03
ACGTcount: A:0.11, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATCCTGGATCTCTC
Found at i:104003533 original size:93 final size:93
Alignment explanation
Indices: 104003364--104003534 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
104003354 TGATGGTTGA
* *
104003364 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGCCCGAACTCGTTGAGT
**
104003429 TGAGTTTGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* * * *
104003457 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGCCCGAACTCGTTGAGT
104003522 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
104003535 ACTTATGGGC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:104003541 original size:46 final size:46
Alignment explanation
Indices: 104003368--104003542 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
104003358 GGTTGAGCAT
* * * *
104003368 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGC
** *
104003414 CCGAACTCGTTGAGTTGAGTTTGAGTT--C-GA-GAGATGT-AACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGTGAAC---GC
*
104003459 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGC
*
104003507 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
104003543 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 11, Indels: 22
0.76 0.08 0.16
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 1 0.01
45 1 0.01
46 61 0.57
47 24 0.22
48 2 0.02
49 1 0.01
50 6 0.06
51 4 0.04
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGC
Found at i:104005727 original size:40 final size:40
Alignment explanation
Indices: 104005682--104005848 Score: 142
Period size: 40 Copynumber: 4.2 Consensus size: 40
104005672 CGGAATATAA
104005682 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
104005722 CCGGATAAAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
104005762 CCGGATGTAGCCACTAGCGCAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
104005802 CCGGATA-AATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
104005841 CCGGATAT
1 CCGGATAT
104005849 CATTCAATTT
Statistics
Matches: 99, Mismatches: 25, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
39 29 0.29
40 70 0.71
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:104011937 original size:888 final size:889
Alignment explanation
Indices: 104010196--104011981 Score: 2394
Period size: 888 Copynumber: 2.0 Consensus size: 889
104010186 ATTTACCCAC
* * * * *
104010196 AAGGGCAAAACAATCATTTTACCCTATAGAGGTATTTCAATAATTTAAATAGTTTGGCCTAAACA
1 AAGGGCAAAACAACCATTTTACCCTACAGAGGTATTTCAATAATCTAAACAATTTGGCCTAAACA
* * *
104010261 TGCTTATCGGCCCATCCGAAGGTTTATAGTCACCCCGAGTGACTTTTACAACCCTAACGATCCTA
66 TGCTTATCGACCCATCCGAAGGTTTACAGTCACCCCGAGCGACTTTTACAACCCTAACGATCCTA
* * * *
104010326 TCACTAAAAATAGGCCCAAGGCCCATTGTTCGACCCAAATGGGCCCACACGCTCGTGTGGCCCAA
131 TCACTAAAAATAGGCCCAAGGCCCATTATTCAACCCAAATGGGCCCACACGCTCGTATGACCCAA
* * *** *
104010391 TTAGCCCAGGATTATCCACGGTTATGCATACTACACAGCCCTGTCCAAAGTTTGTCACATATAAA
196 TTAGCCCAAGATTAGCCACAACTATGCATACTACACAGCCCAGTCCAAAGTTTGTCACATATAAA
* * * *
104010456 AGATTTTATCTGTGCGGGACCCATGAGCCCATTGTGCCCACACGACCCACTTTAGCCCATTGAGG
261 AGATTTTATCTGTGAGGGACCCACGAGCCCATTGGGCCCACACAACCCACTTTAGCCCATTGAGG
* ** * * *
104010521 CCCAGAATGGTCTTTGCCATGTGTGCGACATGACAAGCCCCACTATTTTCCACTTAACAGTCAGA
326 CCCAGAATGGCCCATACCATGTGCGCGACATGACAAGCCCCACTATTTTCCACCTAACAGTCAGA
104010586 TTTACACAAGCGGGCTCACAGTTCCATTCGGCCCATTCGGCCCATTATGGCCTAAGCCCATGAAT
391 TTTACACAAGCGGGCTCACAG---C-TT----CCA-TC-GCCCATTATGGCCTAAGCCCATGAAT
*
104010651 TCGTTCATGGCGGCCTTTTCCACCGTACACCCACGTTTCGTGGGCACGATTTACCGTGCGTGCGA
446 TCGTTCATGGCGGCCTTTTCCACCGTACACCCACGTTTCGTGGGCACGATTTACCGTGCGTGCAA
* * ** * *
104010716 TCGTACGCTCTAAGCCCCTCCTTTCGACTTTTCTACTTCTCGATATTTTAGCATTTTGGCATTTG
511 TCGCACGCTCTAAGCCCCTCCTTTCGACTTTTCGACTTCAAGATATTTCAGCATTTTGACATTTG
* *
104010781 CCGACCTATGGTTAAATTAATGTATGTGGATTCACACACTCTTTCGGCTTTTGACCGATATCAAA
576 CCAACCTATGGTCAAATTAATGTATGTGGATTCACACACTCTTTCGGCTTTTGACCGATATCAAA
* * * *
104010846 TACGATACTACTACACACTTGATGCGATTTGCTGTAAAACACTATCGAGCACTCTGGGACCTGCA
641 TACGATACTACTACACACATGATGCGATTTGCTGTAAAACACTATCAAGCACTCCGGAACCTGCA
* * *
104010911 GATCCGAACAAGATAGTTCACTACTCCATAATTCATCGCGGATAATTCTGTAAAAACCTAATACC
706 GATCCGAACAAGATAGTTCACTACTCCACAATTCATCGCGGAAAATTCTGTAAAAACCCAATACC
*
104010976 AACATCAATTCACATTTCATATCCAAGGGAAAAAGAAAAACTTTCCTTTAACACCACCAAAATAT
771 AACATCAATTCACATTTCATACCCAAGGGAAAAAGAAAAACTTTCCTTTAACACCACCAAAATAT
104011041 AACCACTTTACCTACCAACCGCATAACAGTAGAGTCGCACTACTCCAACGCTAT
836 AACCACTTTACCTACCAACCGCATAACAGTAGAGTCGCACTACTCCAACGCTAT
* ***
104011095 AAGGGCAAAACAACCATTTTACCCTACAGGGGTATTTTGGTAATCTAAACAATTTGGCCTAAACA
1 AAGGGCAAAACAACCATTTTACCCTACAGAGGTATTTCAATAATCTAAACAATTTGGCCTAAACA
* * * *
104011160 TGCTTATCGACTCATCTGAAGGTTTACAGTCACCTCGAGCGACTTTTACACCCCTAAC-AGTCCT
66 TGCTTATCGACCCATCCGAAGGTTTACAGTCACCCCGAGCGACTTTTACAACCCTAACGA-TCCT
* * * *
104011224 ATCAGTGAAAAT-GAGCCCAAGGCCCATTATTCAACCCAAATGGGCCTATACGCTCGTATGACCC
130 ATCACTAAAAATAG-GCCCAAGGCCCATTATTCAACCCAAATGGGCCCACACGCTCGTATGACCC
104011288 AATTAGCCCAAGATTAGCCACAACTATGCATACTACACAACACAGCCCAGTCCAAAGTTTGTCAC
194 AATTAGCCCAAGATTAGCCACAACTATGCATACT-----ACACAGCCCAGTCCAAAGTTTGTCAC
* ** * ** * *
104011353 TTATCGAGGATTTTAT-TCGTGAGGGGTCCACGAGTCCATTGGGCCCACATAACCCACTTTAGCC
254 ATATAAAAGATTTTATCT-GTGAGGGACCCACGAGCCCATTGGGCCCACACAACCCACTTTAGCC
*
104011417 TATTGAGGCCCAGAATGGCCCATACCATGTGCGCGACATGACAAGCCCCACTATTTTCCACCTAA
318 CATTGAGGCCCAGAATGGCCCATACCATGTGCGCGACATGACAAGCCCCACTATTTTCCACCTAA
*
104011482 GAGTCAGATTTACACAAGCGGGC-C-C-G-TT-C-T-GCCCATTATGGCCTAAGCCCATGAATTC
383 CAGTCAGATTTACACAAGCGGGCTCACAGCTTCCATCGCCCATTATGGCCTAAGCCCATGAATTC
* * * * *
104011540 GTTCATGGCTGCCTTTTCCGCTGTACACCCACGTTTCGTGGGCTC-AGTTTACCATTG-GTGCAA
448 GTTCATGGCGGCCTTTTCCACCGTACACCCACGTTTCGTGGGCACGA-TTTACC-GTGCGTGCAA
* * * * * * *
104011603 TTGCACGCTCTCAGCCCCTCCTTTTGACTTTTCGGCTTCAA-AGTATTTCGGTATTTTGATATTT
511 TCGCACGCTCTAAGCCCCTCCTTTCGACTTTTCGACTTCAAGA-TATTTCAGCATTTTGACATTT
* * * *
104011667 TCTAACCTATGGTCAAATTAATGTGTGTGGATTCACACACTCTTTCGGCTTTTGACTGATTATCA
575 GCCAACCTATGGTCAAATTAATGTATGTGGATTCACACACTCTTTCGGCTTTTGACCGA-TATCA
* *
104011732 AATACGGTACTACTACACACATGATGCGATTTGCTGTAAAACACTATTAAGCACTCCGGAACCTG
639 AATACGATACTACTACACACATGATGCGATTTGCTGTAAAACACTATCAAGCACTCCGGAACCTG
* * * * *
104011797 CAGATCCGAACAAGATAGTTCATTACTCCACAATTC-GCTGTGGAAAATTTTGTAAAGACCCAAT
704 CAGATCCGAACAAGATAGTTCACTACTCCACAATTCATC-GCGGAAAATTCTGTAAAAACCCAAT
* * *
104011861 ACCAACATCAATTCACATTTCATACCCAAGGGAAAAAGAAAAACTTTCTTTTAACAGCACCAAAG
768 ACCAACATCAATTCACATTTCATACCCAAGGGAAAAAGAAAAACTTTCCTTTAACACCACCAAAA
* * * *
104011926 TATAGCCACTTTACCTACGAGCCGCGTAACAGTAGAGTCGCACTACTCCAACGCTA
833 TATAACCACTTTACCTACCAACCGCATAACAGTAGAGTCGCACTACTCCAACGCTA
104011982 ACTGAGTCGT
Statistics
Matches: 777, Mismatches: 97, Indels: 37
0.85 0.11 0.04
Matches are distributed among these distances:
886 2 0.00
887 183 0.24
888 233 0.30
889 1 0.00
891 1 0.00
896 2 0.00
898 2 0.00
899 194 0.25
901 1 0.00
902 1 0.00
903 2 0.00
904 155 0.20
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.27
Consensus pattern (889 bp):
AAGGGCAAAACAACCATTTTACCCTACAGAGGTATTTCAATAATCTAAACAATTTGGCCTAAACA
TGCTTATCGACCCATCCGAAGGTTTACAGTCACCCCGAGCGACTTTTACAACCCTAACGATCCTA
TCACTAAAAATAGGCCCAAGGCCCATTATTCAACCCAAATGGGCCCACACGCTCGTATGACCCAA
TTAGCCCAAGATTAGCCACAACTATGCATACTACACAGCCCAGTCCAAAGTTTGTCACATATAAA
AGATTTTATCTGTGAGGGACCCACGAGCCCATTGGGCCCACACAACCCACTTTAGCCCATTGAGG
CCCAGAATGGCCCATACCATGTGCGCGACATGACAAGCCCCACTATTTTCCACCTAACAGTCAGA
TTTACACAAGCGGGCTCACAGCTTCCATCGCCCATTATGGCCTAAGCCCATGAATTCGTTCATGG
CGGCCTTTTCCACCGTACACCCACGTTTCGTGGGCACGATTTACCGTGCGTGCAATCGCACGCTC
TAAGCCCCTCCTTTCGACTTTTCGACTTCAAGATATTTCAGCATTTTGACATTTGCCAACCTATG
GTCAAATTAATGTATGTGGATTCACACACTCTTTCGGCTTTTGACCGATATCAAATACGATACTA
CTACACACATGATGCGATTTGCTGTAAAACACTATCAAGCACTCCGGAACCTGCAGATCCGAACA
AGATAGTTCACTACTCCACAATTCATCGCGGAAAATTCTGTAAAAACCCAATACCAACATCAATT
CACATTTCATACCCAAGGGAAAAAGAAAAACTTTCCTTTAACACCACCAAAATATAACCACTTTA
CCTACCAACCGCATAACAGTAGAGTCGCACTACTCCAACGCTAT
Found at i:104012490 original size:24 final size:24
Alignment explanation
Indices: 104012463--104012538 Score: 73
Period size: 24 Copynumber: 3.2 Consensus size: 24
104012453 CCATATTTTT
104012463 CTCCTTAATTCTCTCCATAAATCA
1 CTCCTTAATTCTCTCCATAAATCA
* * * *
104012487 CTCCTTGATTTTATCC-TAATATCT
1 CTCCTTAATTCTCTCCATAA-ATCA
* * *
104012511 CTCCATAATACACTCCATAAATCA
1 CTCCTTAATTCTCTCCATAAATCA
104012535 CTCC
1 CTCC
104012539 AACCTCCCAT
Statistics
Matches: 39, Mismatches: 11, Indels: 4
0.72 0.20 0.07
Matches are distributed among these distances:
23 3 0.08
24 33 0.85
25 3 0.08
ACGTcount: A:0.29, C:0.33, G:0.01, T:0.37
Consensus pattern (24 bp):
CTCCTTAATTCTCTCCATAAATCA
Found at i:104015928 original size:40 final size:40
Alignment explanation
Indices: 104015799--104015929 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
104015789 TATGCTGGAA
* * *
104015799 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * *
104015839 GCTATATCCGGGCTAAGGCCCGAAGGCATTCGTGCGAGTT
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
104015879 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
*
104015919 ATTAAATCCGG
1 ATTATATCCGG
104015930 TTATATTCCA
Statistics
Matches: 74, Mismatches: 16, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:104023879 original size:40 final size:40
Alignment explanation
Indices: 104023750--104023880 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
104023740 TATGCTGGAA
* * *
104023750 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * *
104023790 GCTATATCCGGGCTAAGGCCCGAAGGCATTCGTGCGAGTT
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
104023830 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
*
104023870 ATTAAATCCGG
1 ATTATATCCGG
104023881 TTATATTCCG
Statistics
Matches: 74, Mismatches: 16, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:104026140 original size:40 final size:40
Alignment explanation
Indices: 104026080--104026282 Score: 286
Period size: 40 Copynumber: 5.1 Consensus size: 40
104026070 CGGAATTTAG
* *
104026080 CCGGATATAACCAC-AGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* * *
104026119 CCGGGTAT-AGCAACTCGCACAAATGCCTTCGGGTCTTAAC
1 CCGGATATAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
*
104026159 CCGGATATAA-CAACTCGCACAAATGCCTTCGGGTCTTAAC
1 CCGGATATAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
* *
104026199 CCGGATATAATCACTAGCATAAATGCCTTCAGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAAC
*
104026239 CCGGATATAATCACTAGCATAAATGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAAC
104026279 CCGG
1 CCGG
104026283 GTATCATTCA
Statistics
Matches: 151, Mismatches: 9, Indels: 7
0.90 0.05 0.04
Matches are distributed among these distances:
38 2 0.01
39 9 0.06
40 138 0.91
41 2 0.01
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.24
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:104029540 original size:8 final size:8
Alignment explanation
Indices: 104029527--104029561 Score: 70
Period size: 8 Copynumber: 4.4 Consensus size: 8
104029517 ATGTGAGAGG
104029527 ATTCAAAA
1 ATTCAAAA
104029535 ATTCAAAA
1 ATTCAAAA
104029543 ATTCAAAA
1 ATTCAAAA
104029551 ATTCAAAA
1 ATTCAAAA
104029559 ATT
1 ATT
104029562 TTCCCGTTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.60, C:0.11, G:0.00, T:0.29
Consensus pattern (8 bp):
ATTCAAAA
Found at i:104030415 original size:22 final size:22
Alignment explanation
Indices: 104030380--104030424 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
104030370 AACAGTAAAT
104030380 ATTTGTAGACAAA-CTGCTAGTA
1 ATTTGTAGACAAACCT-CTAGTA
**
104030402 ATTTGTAGTTAAACCTCTAGTA
1 ATTTGTAGACAAACCTCTAGTA
104030424 A
1 A
104030425 AAAGTTTGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 18 0.90
23 2 0.10
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.36
Consensus pattern (22 bp):
ATTTGTAGACAAACCTCTAGTA
Found at i:104033204 original size:28 final size:28
Alignment explanation
Indices: 104033173--104033251 Score: 131
Period size: 28 Copynumber: 2.8 Consensus size: 28
104033163 GACATCAAAT
104033173 ATGGCACTTAGTGTGCGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
104033201 ATGGCACATAGTGTGCGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
104033229 ATGACACTTAGTGTGGGAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
104033252 CGAATGATTC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 47 1.00
ACGTcount: A:0.34, C:0.10, G:0.28, T:0.28
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:104035306 original size:21 final size:22
Alignment explanation
Indices: 104035282--104035324 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
104035272 ATTCACTAAC
104035282 TTTGGCTAATT-AAGATTAATT
1 TTTGGCTAATTAAAGATTAATT
* *
104035303 TTTGGTTAATTAAAGTTTAATT
1 TTTGGCTAATTAAAGATTAATT
104035325 GATTAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.33, C:0.02, G:0.14, T:0.51
Consensus pattern (22 bp):
TTTGGCTAATTAAAGATTAATT
Found at i:104042629 original size:16 final size:16
Alignment explanation
Indices: 104042590--104042643 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
104042580 AAAATTGAAA
* *
104042590 AACTAAGTCCCGTCTG
1 AACTAAATCCCATCTG
* *
104042606 -AGTAAATCTCATCTG
1 AACTAAATCCCATCTG
*
104042621 AACTAAATCCCGTCTG
1 AACTAAATCCCATCTG
104042637 AACTAAA
1 AACTAAA
104042644 AGCTAAATCC
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
15 11 0.37
16 19 0.63
ACGTcount: A:0.35, C:0.26, G:0.13, T:0.26
Consensus pattern (16 bp):
AACTAAATCCCATCTG
Found at i:104044003 original size:24 final size:24
Alignment explanation
Indices: 104043972--104044033 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
104043962 TCAGCTCGTA
104043972 AGAGCTTACTGTTCTCAACTC-AT
1 AGAGCTTACTGTTCTCAACTCGAT
* * * *
104043995 CAGAGCTTACTATTTTTAGCTCGAT
1 -AGAGCTTACTGTTCTCAACTCGAT
104044020 AGAGCTTACTGTTC
1 AGAGCTTACTGTTC
104044034 ATCAGCTTAG
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
24 29 0.94
25 2 0.06
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.37
Consensus pattern (24 bp):
AGAGCTTACTGTTCTCAACTCGAT
Found at i:104044066 original size:50 final size:48
Alignment explanation
Indices: 104043947--104044073 Score: 114
Period size: 50 Copynumber: 2.6 Consensus size: 48
104043937 TAGCTTGTAT
*
104043947 GAGCTTACCGATACATCAGCTCG-TAAGAGCTTACTGTTCTCAACTCATCA
1 GAGCTTACCGAT-CAT-AGCTCGAT-AGAGCTTACTGTTCTCAACTCAGCA
* ** * * *
104043997 GAGCTTA-CTATTTTTAGCTCGATAGAGCTTACTGTTCATCAGCTTAGGA
1 GAGCTTACCGA-TCATAGCTCGATAGAGCTTACTGTTC-TCAACTCAGCA
*
104044046 GGAGCTTACCGATCATAGCTCGAAAGAG
1 -GAGCTTACCGATCATAGCTCGATAGAG
104044074 TGAATATAAT
Statistics
Matches: 61, Mismatches: 11, Indels: 10
0.74 0.13 0.12
Matches are distributed among these distances:
48 20 0.33
49 11 0.18
50 28 0.46
51 2 0.03
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (48 bp):
GAGCTTACCGATCATAGCTCGATAGAGCTTACTGTTCTCAACTCAGCA
Found at i:104044291 original size:24 final size:24
Alignment explanation
Indices: 104044260--104044307 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
104044250 TGTTATACAT
104044260 GTTACATGAATTTGGTATGGTATA
1 GTTACATGAATTTGGTATGGTATA
104044284 GTTACATGAATTTGGTATGGTATA
1 GTTACATGAATTTGGTATGGTATA
104044308 ATACATTGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.04, G:0.25, T:0.42
Consensus pattern (24 bp):
GTTACATGAATTTGGTATGGTATA
Found at i:104052325 original size:30 final size:30
Alignment explanation
Indices: 104052289--104052350 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
104052279 AATCGAAAGT
104052289 TTTGGCACTAAGTGTGCAATTTAAACTAGC
1 TTTGGCACTAAGTGTGCAATTTAAACTAGC
* *
104052319 TTTGGCAGTAAGTGTGCGATTTAAACTAGC
1 TTTGGCACTAAGTGTGCAATTTAAACTAGC
104052349 TT
1 TT
104052351 CGGCTACTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (30 bp):
TTTGGCACTAAGTGTGCAATTTAAACTAGC
Found at i:104060434 original size:142 final size:145
Alignment explanation
Indices: 104060198--104060480 Score: 369
Period size: 142 Copynumber: 2.0 Consensus size: 145
104060188 AAATCACTAA
* * * *
104060198 TTTTCCTAAAAATCAAAGTTTTTTTTCAAAATAGTTGAAAAAGATCAAAATTTTGTTTTAAAAAT
1 TTTTCCTAAAAATCAAAGGTTTATTTCAAAATAGTTGAAAAAGATCAAAACTTTATTTTAAAAAT
* *
104060263 TTAAACTTTTGCTTTAAAACGACAAAAAAACTA-AATTTTATTTTAAAAGTCTAAAATT-TC-TC
66 TTAAACTTTTGCTTTAAAACGACAAAAAAAATAGAATTTTATTTTAAAAATCTAAAATTCTCTTC
104060325 TTTTAAAAAAATTAT
131 TTTTAAAAAAATTAT
* * * *
104060340 TTTTCTTAAAATTCAAAGGTTTATTTCGAAATAGTTGAAAAAGATCAATACTTTATTTTAAAAAA
1 TTTTCCTAAAAATCAAAGGTTTATTTCAAAATAGTTGAAAAAGATCAAAACTTTATTTT-AAAAA
* * * * *
104060405 TTTAAACTTTT-CTTTTAAAATGAC-TAAAAAATAGATTTTTATTTTAAAAATTTAAACTTCTCT
65 TTTAAACTTTTGC-TTTAAAACGACAAAAAAAATAGAATTTTATTTTAAAAATCTAAAATTCTCT
*
104060468 TTTTTTAAAAAAA
129 TCTTTTAAAAAAA
104060481 ATCAAAACTT
Statistics
Matches: 120, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
142 59 0.49
143 47 0.39
144 2 0.02
145 12 0.10
ACGTcount: A:0.43, C:0.08, G:0.06, T:0.42
Consensus pattern (145 bp):
TTTTCCTAAAAATCAAAGGTTTATTTCAAAATAGTTGAAAAAGATCAAAACTTTATTTTAAAAAT
TTAAACTTTTGCTTTAAAACGACAAAAAAAATAGAATTTTATTTTAAAAATCTAAAATTCTCTTC
TTTTAAAAAAATTAT
Found at i:104060688 original size:22 final size:22
Alignment explanation
Indices: 104060658--104060699 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
104060648 TGGCTAAGGC
104060658 AAAAAAAAAAAA-AAGATAGATG
1 AAAAAAAAAAAAGAA-ATAGATG
*
104060680 AAAAGAAAAAAAGAAATAGA
1 AAAAAAAAAAAAGAAATAGA
104060700 ATACTTGTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.79, C:0.00, G:0.14, T:0.07
Consensus pattern (22 bp):
AAAAAAAAAAAAGAAATAGATG
Found at i:104060915 original size:12 final size:12
Alignment explanation
Indices: 104060900--104060933 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
104060890 AAAAGGAAAG
*
104060900 AAAAAGAAAGGA
1 AAAAACAAAGGA
104060912 AAAAACAAAGG-
1 AAAAACAAAGGA
104060923 AAAAACAAAGG
1 AAAAACAAAGG
104060934 CCTCCAATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.74, C:0.06, G:0.21, T:0.00
Consensus pattern (12 bp):
AAAAACAAAGGA
Found at i:104061335 original size:249 final size:233
Alignment explanation
Indices: 104060987--104061588 Score: 731
Period size: 249 Copynumber: 2.5 Consensus size: 233
104060977 TATATTAATT
* * * * *
104060987 ATTATCATATATTATTGTTTATTATTAGAGTGGTTAAAAATATGCTCTAAGTCTCTATA-TTATT
1 ATTATTATATATTATTGTTTATTATTATACTAGTT-AAAATATGCTCTAAGTCCCTATACTT-TT
* *
104061051 CGTACATTTGAAAGTTAACACTCGTACTATATTATATAATGTTATATAATATCATATAGTATACA
64 CGTACATTTGAAAGTTAAC-CTCCTACTATATTATATAATGTTATATCATATCATATAGTATACA
*
104061116 ATATATTAATAATTTATATATATTCATCAATAATTTAACATTATAATATCATGCAATACTATATC
128 ATATATTAATAATTTATATATA--CATCAATAATTAAACATTATAATATCATGCAATACTATATC
*
104061181 TTTTTTTATAATTTATAATATAATAGTTATATATAATAATAGTTCATTACATATTA
191 ----TTT-T-A-TTAT-A-AT-ATA--TA-ATATAATAATAGTACATTACATATTA
* * * * * *
104061237 ATTATTATACATTATTGTTTATTATTATACTAGTTGAAATAGGTTTTAAGTCCCTATACTTTTCA
1 ATTATTATATATTATTGTTTATTATTATACTAGTTAAAATATGCTCTAAGTCCCTATACTTTTCG
* * * *
104061302 TACATTTGAATGTTAACCTTCCTACTATATTATATAATGCTATATCATATCATGTAGTATATAAT
66 TACATTTGAAAGTTAACC-TCCTACTATATTATATAATGTTATATCATATCATATAGTATACAAT
* * * *
104061367 GTATTAATAGTTTATATATACATCAATGATTAAACATTATAATATCATGTAATACTATATCTTTT
130 ATATTAATAATTTATATATACATCAATAATTAAACATTATAATATCATGCAATACTATATCTTTT
* *
104061432 ATTATAATCTATAATATAATAATAGTACATTATATATTA
195 ATTATAATATATAATATAATAATAGTACATTACATATTA
* * * *
104061471 ATTTTTATATATTATTGTTTATTATTATATTAGTTAAAATATGCTCTAAGTCCTTATACTTTTTG
1 ATTATTATATATTATTGTTTATTATTATACTAGTTAAAATATGCTCTAAGTCCCTATACTTTTCG
* *
104061536 TACATTTGAAAGTTAGCC-CCTTACTATATTATACAATGTTATATCATATCATA
66 TACATTTGAAAGTTAACCTCC-TACTATATTATATAATGTTATATCATATCATA
104061589 CTTTTTATTG
Statistics
Matches: 309, Mismatches: 40, Indels: 23
0.83 0.11 0.06
Matches are distributed among these distances:
232 2 0.01
233 29 0.09
234 95 0.31
235 2 0.01
237 2 0.01
238 2 0.01
239 1 0.00
240 4 0.01
241 1 0.00
242 1 0.00
243 3 0.01
247 38 0.12
248 1 0.00
249 96 0.31
250 32 0.10
ACGTcount: A:0.37, C:0.10, G:0.07, T:0.46
Consensus pattern (233 bp):
ATTATTATATATTATTGTTTATTATTATACTAGTTAAAATATGCTCTAAGTCCCTATACTTTTCG
TACATTTGAAAGTTAACCTCCTACTATATTATATAATGTTATATCATATCATATAGTATACAATA
TATTAATAATTTATATATACATCAATAATTAAACATTATAATATCATGCAATACTATATCTTTTA
TTATAATATATAATATAATAATAGTACATTACATATTA
Found at i:104061480 original size:14 final size:15
Alignment explanation
Indices: 104061461--104061497 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
104061451 TAATAGTACA
104061461 TTATATATTAATT-T
1 TTATATATTAATTGT
104061475 TTATATATT-ATTGT
1 TTATATATTAATTGT
104061489 TTAT-TATTA
1 TTATATATTA
104061498 TATTAGTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 7 0.33
14 14 0.67
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (15 bp):
TTATATATTAATTGT
Found at i:104065159 original size:18 final size:19
Alignment explanation
Indices: 104065124--104065163 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
104065114 GCTTTCTACA
*
104065124 TATCTCTCTTATAATTTAT
1 TATCCCTCTTATAATTTAT
104065143 TATCCCTCTTA-AATTTAT
1 TATCCCTCTTATAATTTAT
104065161 TAT
1 TAT
104065164 GATGTTTCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.28, C:0.17, G:0.00, T:0.55
Consensus pattern (19 bp):
TATCCCTCTTATAATTTAT
Found at i:104068045 original size:2 final size:2
Alignment explanation
Indices: 104068038--104068075 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
104068028 ATCATACATC
104068038 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
104068076 ACAAGCTACA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:104070459 original size:2 final size:2
Alignment explanation
Indices: 104070454--104070482 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
104070444 CATATATAGG
104070454 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
104070483 GCCTTATGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:104071717 original size:48 final size:48
Alignment explanation
Indices: 104071645--104071750 Score: 158
Period size: 48 Copynumber: 2.2 Consensus size: 48
104071635 CAAGATAAAT
* * *
104071645 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
**
104071693 ATATGTATATGTGGTAAATTCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
104071741 ATGTGTATAT
1 ATATGTATAT
104071751 ATTGTGGCCG
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 52 1.00
ACGTcount: A:0.34, C:0.05, G:0.26, T:0.35
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:104071936 original size:37 final size:37
Alignment explanation
Indices: 104071884--104071955 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
104071874 GAAATATATT
* * *
104071884 CCGGGTAAGAGCCGATGGCTACGTGTGGAGATTATGC
1 CCGGGTAAGACCCGATGACTACGTATGGAGATTATGC
*
104071921 CCGGGTAAGACCCGATGACTACGTATGGGGATTAT
1 CCGGGTAAGACCCGATGACTACGTATGGAGATTAT
104071956 TCGAGCTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTATGGAGATTATGC
Found at i:104076632 original size:24 final size:24
Alignment explanation
Indices: 104076587--104076635 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
104076577 TTGTAATCTG
*
104076587 TAAAATGCTAACACGAACACAGAT
1 TAAAATGCTAACACAAACACAGAT
* * *
104076611 TAAAATGTTAACGCAAAGACAGAT
1 TAAAATGCTAACACAAACACAGAT
104076635 T
1 T
104076636 TTATGCCTGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.14, T:0.20
Consensus pattern (24 bp):
TAAAATGCTAACACAAACACAGAT
Found at i:104080520 original size:14 final size:14
Alignment explanation
Indices: 104080501--104080532 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
104080491 GGGGTTTGAA
104080501 AGCTCAAAATTTTT
1 AGCTCAAAATTTTT
104080515 AGCTCAAAATTTTT
1 AGCTCAAAATTTTT
104080529 AGCT
1 AGCT
104080533 ACTTAGTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.34, C:0.16, G:0.09, T:0.41
Consensus pattern (14 bp):
AGCTCAAAATTTTT
Found at i:104080961 original size:30 final size:30
Alignment explanation
Indices: 104080904--104080961 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
104080894 TTGTCAAGCA
* **
104080904 TAGGGGTAAAATGGTCATTATGTCAAAGTC
1 TAGGGGCAAAATGGTCATTATACCAAAGTC
*
104080934 TAGGGGCAAAATGGTCATTTTACCAAAG
1 TAGGGGCAAAATGGTCATTATACCAAAG
104080962 ATGTGAATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTATACCAAAGTC
Found at i:104081453 original size:46 final size:46
Alignment explanation
Indices: 104081305--104081562 Score: 186
Period size: 46 Copynumber: 5.5 Consensus size: 46
104081295 TGTGTGAACT
* * * **
104081305 AGTGTAAGACATGTCTAGGACATGCATCGGCCA-C-ATTATGAGAGTC
1 AGTGTAAGACATGTCTAGGACATGCATTGG-CATCGA-GACGAGACCC
* * * *
104081351 AGTGTAAGACCATGTCTGGGACATGGCATTGGCATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTAGGACAT-GCATTGGCATCGAGACGAGACCC
* *
104081399 AGTGTAAGACATGTCTAAGACATGCATTGGCCTCGAGACGTA-ACCC
1 AGTGTAAGACATGTCTAGGACATGCATTGGCATCGAGACG-AGACCC
* * * * **
104081445 AGTATAAGACATGTCTAGGACATGCATCGGC-TACGAGATGATAGTC
1 AGTGTAAGACATGTCTAGGACATGCATTGGCAT-CGAGACGAGACCC
* * * * *
104081491 AGTGTAAGACCATGTCTGGGACATGGCATTGAC-TTGAGA-TATGAGCC
1 AGTGTAAGA-CATGTCTAGGACAT-GCATTGGCATCGAGACGA-GACCC
104081538 AGTGTAAGACCATGTCTAGGACATG
1 AGTGTAAGA-CATGTCTAGGACATG
104081563 GCATCGGTAC
Statistics
Matches: 174, Mismatches: 28, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
45 2 0.01
46 72 0.41
47 71 0.41
48 28 0.16
49 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTAGGACATGCATTGGCATCGAGACGAGACCC
Found at i:104081530 original size:47 final size:47
Alignment explanation
Indices: 104081305--104081566 Score: 227
Period size: 47 Copynumber: 5.6 Consensus size: 47
104081295 TGTGTGAACT
* * * * *
104081305 AGTGTAAGA-CATGTCTAGGACAT-GCATCGGC-CACATTATGAGAGTC
1 AGTGTAAGACCATGTCTAGGACATGGCATTGGCTC-GA-GATGATAGCC
* * * * *
104081351 AGTGTAAGACCATGTCTGGGACATGGCATTGGCATTGAGACGAGAGCT
1 AGTGTAAGACCATGTCTAGGACATGGCATTGGC-TCGAGATGATAGCC
* * *
104081399 AGTGTAAGA-CATGTCTAAGACAT-GCATTGGCCTCGAGACG-TAACCC
1 AGTGTAAGACCATGTCTAGGACATGGCATTGG-CTCGAGATGAT-AGCC
* * *
104081445 AGTATAAGA-CATGTCTAGGACAT-GCATCGGCTACGAGATGATAGTC
1 AGTGTAAGACCATGTCTAGGACATGGCATTGGCT-CGAGATGATAGCC
* * *
104081491 AGTGTAAGACCATGTCTGGGACATGGCATTGACTTGAGAT-ATGAGCC
1 AGTGTAAGACCATGTCTAGGACATGGCATTGGCTCGAGATGAT-AGCC
104081538 AGTGTAAGACCATGTCTAGGACATGGCAT
1 AGTGTAAGACCATGTCTAGGACATGGCAT
104081567 CGGTACCTTA
Statistics
Matches: 178, Mismatches: 27, Indels: 21
0.79 0.12 0.09
Matches are distributed among these distances:
45 2 0.01
46 70 0.39
47 76 0.43
48 29 0.16
49 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTAGGACATGGCATTGGCTCGAGATGATAGCC
Found at i:104081561 original size:140 final size:140
Alignment explanation
Indices: 104081309--104081562 Score: 397
Period size: 140 Copynumber: 1.8 Consensus size: 140
104081299 TGAACTAGTG
*
104081309 TAAGACATGTCTAGGACATGCATCGGCCACATTATGAGAGTCAGTGTAAGACCATGTCTGGGACA
1 TAAGACATGTCTAGGACATGCATCGGCCACATGATGAGAGTCAGTGTAAGACCATGTCTGGGACA
* *
104081374 TGGCATTGGCATTGAGACGAGAGCTAGTGTAAGACATGTCTAAGACATGCATTGGCCTCGAGACG
66 TGGCATTGACATTGAGACGAGAGCCAGTGTAAGACATGTCTAAGACATGCATTGGCCTCGAGACG
104081439 TAACCCAGTA
131 TAACCCAGTA
* *
104081449 TAAGACATGTCTAGGACATGCATCGGCTACGA-GATGATAGTCAGTGTAAGACCATGTCTGGGAC
1 TAAGACATGTCTAGGACATGCATCGGCCAC-ATGATGAGAGTCAGTGTAAGACCATGTCTGGGAC
* *
104081513 ATGGCATTGAC-TTGAGA-TATGAGCCAGTGTAAGACCATGTCTAGGACATG
65 ATGGCATTGACATTGAGACGA-GAGCCAGTGTAAGA-CATGTCTAAGACATG
104081563 GCATCGGTAC
Statistics
Matches: 104, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
138 1 0.01
139 19 0.18
140 83 0.80
141 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.24
Consensus pattern (140 bp):
TAAGACATGTCTAGGACATGCATCGGCCACATGATGAGAGTCAGTGTAAGACCATGTCTGGGACA
TGGCATTGACATTGAGACGAGAGCCAGTGTAAGACATGTCTAAGACATGCATTGGCCTCGAGACG
TAACCCAGTA
Done.