Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 74 of 250
Found at i:23415254 original size:40 final size:40
Alignment explanation
Indices: 23415170--23415394 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
23415160 TTGAATGATG
* * * *
23415170 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
23415210 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
23415250 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
23415289 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
23415329 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
23415370 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
23415395 AACGAGGAGC
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
39 34 0.21
40 121 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:23415416 original size:119 final size:119
Alignment explanation
Indices: 23415170--23415427 Score: 283
Period size: 119 Copynumber: 2.2 Consensus size: 119
23415160 TTGAATGATG
* *
23415170 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* ** *
23415235 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
* * * **
23415289 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
23415352 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTGA-CTAAA
* *
23415409 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
23415428 TACGTGATTT
Statistics
Matches: 117, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 83 0.71
120 31 0.26
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
Found at i:23420932 original size:45 final size:44
Alignment explanation
Indices: 23420883--23421039 Score: 137
Period size: 41 Copynumber: 3.6 Consensus size: 44
23420873 TATGTGTTCT
*
23420883 CGTGTAAGACCATGTCTGGGACGTTGGTATCGATATATGTGGTTA
1 CGTGTAAGACCATGTCTGGGACGTTGGCATCG-TATATGTGGTTA
* * * * * *
23420928 CGTGTAAGACCATGTTTTGGACATCGACATCGTAT-T-TGATT-
1 CGTGTAAGACCATGTCTGGGACGTTGGCATCGTATATGTGGTTA
* * *
23420969 CGTGTAAGACCTTGTCTAGGACAG-TGGCATCG-ATATG-GGATA
1 CGTGTAAGACCATGTCTGGGAC-GTTGGCATCGTATATGTGGTTA
* *
23421011 GCATGTAAGACCACGTCTGGGACGTTGGC
1 -CGTGTAAGACCATGTCTGGGACGTTGGC
23421040 TTTGTACGAT
Statistics
Matches: 87, Mismatches: 19, Indels: 14
0.73 0.16 0.12
Matches are distributed among these distances:
40 2 0.02
41 28 0.32
42 5 0.06
43 23 0.26
44 3 0.03
45 26 0.30
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (44 bp):
CGTGTAAGACCATGTCTGGGACGTTGGCATCGTATATGTGGTTA
Found at i:23421000 original size:41 final size:44
Alignment explanation
Indices: 23420873--23421004 Score: 121
Period size: 45 Copynumber: 3.0 Consensus size: 44
23420863 GGATTTCTGG
* * *
23420873 TATGTGTTCTCGTGTAAGACCATGTCTGGGAC-GTTGGTATCGATA
1 TATGTGAT-TCGTGTAAGACCATGTCTAGGACAG-TGGCATCGATA
* * * *
23420918 TATGTGGTTACGTGTAAGACCATGTTTTGGACA-TCGACATCG-TA
1 TATGTGATT-CGTGTAAGACCATGTCTAGGACAGT-GGCATCGATA
*
23420962 T-T-TGATTCGTGTAAGACCTTGTCTAGGACAGTGGCATCGATA
1 TATGTGATTCGTGTAAGACCATGTCTAGGACAGTGGCATCGATA
23421004 T
1 T
23421005 GGGATAGCAT
Statistics
Matches: 72, Mismatches: 10, Indels: 13
0.76 0.11 0.14
Matches are distributed among these distances:
41 26 0.36
42 8 0.11
43 1 0.01
44 5 0.07
45 32 0.44
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.35
Consensus pattern (44 bp):
TATGTGATTCGTGTAAGACCATGTCTAGGACAGTGGCATCGATA
Found at i:23434218 original size:18 final size:18
Alignment explanation
Indices: 23434195--23434235 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
23434185 GCCATTATTT
23434195 GAGCTTGTTGAGCCACAC
1 GAGCTTGTTGAGCCACAC
*
23434213 GAGCTTGTTGGGCCACAC
1 GAGCTTGTTGAGCCACAC
23434231 GAGCT
1 GAGCT
23434236 GTATTATGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.20, C:0.27, G:0.32, T:0.22
Consensus pattern (18 bp):
GAGCTTGTTGAGCCACAC
Found at i:23442038 original size:93 final size:93
Alignment explanation
Indices: 23441930--23442100 Score: 254
Period size: 93 Copynumber: 1.8 Consensus size: 93
23441920 CCCATAAGTT
*** * *
23441930 AACTCAGACTCAACTCAACGAGCTT-GGGTGTTTGCATCCATAAGTGAACTTAGACTCAACTCAA
1 AACTCAGACTCAACTCAACGAG-TTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
23441994 CGAGCTCGGATGCCTAGTTACATCTCTCG
65 CGAGCTCGGATGCCTAGTTACATCTCTCG
* *
23442023 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
*
23442088 GAGTTCGGATGCC
66 GAGCTCGGATGCC
23442101 CAAACACCCT
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
92 2 0.03
93 67 0.97
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
AACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCTCG
Found at i:23442088 original size:46 final size:45
Alignment explanation
Indices: 23441921--23442096 Score: 158
Period size: 46 Copynumber: 3.8 Consensus size: 45
23441911 TGTAACCCGC
* * ** *
23441921 CCATAAGTTAACTCAGACTCAACTCAACGAGCTTGGGTGTTTGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAG-TTCGGAATTCGCAT
* * *
23441967 CCATAAGTGAACTTAGACTCAACTCAACGAGCTCGG-ATGC-CTAGTT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGAATTCGC-A--T
* *** *
23442013 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCAGACTCAACTCAACGAGTTCGGA-ATTCGCAT
*
23442060 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
23442097 TGCCCAAACA
Statistics
Matches: 104, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
43 1 0.01
44 2 0.02
45 3 0.03
46 63 0.61
47 30 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (45 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGAATTCGCAT
Found at i:23446885 original size:34 final size:34
Alignment explanation
Indices: 23446842--23446910 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
23446832 ATCGAGTTGC
23446842 TTTAGCCGAAATCCCTTTTGTTTTTCCCCTCATT
1 TTTAGCCGAAATCCCTTTTGTTTTTCCCCTCATT
23446876 TTTAGCCGAAATCCCTTTTGTTTTTCCCCTCATT
1 TTTAGCCGAAATCCCTTTTGTTTTTCCCCTCATT
23446910 T
1 T
23446911 GAGTCTTTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.14, C:0.29, G:0.09, T:0.48
Consensus pattern (34 bp):
TTTAGCCGAAATCCCTTTTGTTTTTCCCCTCATT
Found at i:23450219 original size:30 final size:29
Alignment explanation
Indices: 23450176--23450239 Score: 101
Period size: 30 Copynumber: 2.2 Consensus size: 29
23450166 CAGGTATCCG
*
23450176 AAGCTAGTTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTAAATCCCACACTTAGTGCCA
*
23450205 AAGCTAGTTTAAATCCCACATTTAGTGCCA
1 AAGCTAG-TTAAATCCCACACTTAGTGCCA
23450235 AAGCT
1 AAGCT
23450240 TTCGATTCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 7 0.22
30 25 0.78
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (29 bp):
AAGCTAGTTAAATCCCACACTTAGTGCCA
Found at i:23459399 original size:24 final size:23
Alignment explanation
Indices: 23459370--23459432 Score: 81
Period size: 24 Copynumber: 2.7 Consensus size: 23
23459360 AACCGAATTT
* * *
23459370 GCACACATAGTGCTTATTACACTC
1 GCACACATAGTGCATAGTAAAC-C
23459394 GCACACATAGTGCCATAGTAAACC
1 GCACACATAGTG-CATAGTAAACC
23459418 GCACACATAGTGCAT
1 GCACACATAGTGCAT
23459433 TGGATTTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
23 3 0.09
24 25 0.71
25 7 0.20
ACGTcount: A:0.33, C:0.29, G:0.16, T:0.22
Consensus pattern (23 bp):
GCACACATAGTGCATAGTAAACC
Found at i:23461374 original size:33 final size:33
Alignment explanation
Indices: 23461337--23461401 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
23461327 GCCAACTCAA
*
23461337 ATAAGCACTTAAACATCTAGCACACAGCTTTTT
1 ATAAGCACTTAAACATCCAGCACACAGCTTTTT
23461370 ATAAGCACTTAAACATCCAGCACACAGCTTTT
1 ATAAGCACTTAAACATCCAGCACACAGCTTTT
23461402 ACATTTTATG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.37, C:0.26, G:0.09, T:0.28
Consensus pattern (33 bp):
ATAAGCACTTAAACATCCAGCACACAGCTTTTT
Found at i:23465508 original size:5 final size:5
Alignment explanation
Indices: 23465498--23465554 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
23465488 CTCTTGCCTC
*
23465498 TCTTT TCTTT T-TATT TCATTT TCTTT T-TCT TCTTT TGCTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T-C-TTT TCTTT
23465545 TCTTT TCTTT
1 TCTTT TCTTT
23465555 ATTTTCTCTT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 6 0.14
7 5 0.11
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (5 bp):
TCTTT
Found at i:23465538 original size:15 final size:14
Alignment explanation
Indices: 23465498--23465554 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
23465488 CTCTTGCCTC
*
23465498 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-CT
23465513 TCATTTTCTTTTTCT
1 TC-TTTTCTTTTTCT
23465528 TCTTTTGCTTTTTCTTT
1 TCTTTT-CTTTTTC--T
23465545 TCTTTTCTTT
1 TCTTTTCTTT
23465555 ATTTTCTCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
14 4 0.11
15 12 0.32
16 14 0.38
17 7 0.19
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (14 bp):
TCTTTTCTTTTTCT
Found at i:23465564 original size:21 final size:20
Alignment explanation
Indices: 23465496--23465565 Score: 63
Period size: 20 Copynumber: 3.4 Consensus size: 20
23465486 GCCTCTTGCC
23465496 TCTCTTTTCTTTTTATTTCATTT
1 TCTCTTTTC-TTTT-TTT-ATTT
**
23465519 TCT-TTTTCTTCTTTTGCTTT
1 TCTCTTTTCTT-TTTTTATTT
23465539 T-TCTTTTCTTTTCTTTATTT
1 TCTCTTTTCTTTT-TTTATTT
23465559 TCTCTTT
1 TCTCTTT
23465566 ACAAGAATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
19 3 0.08
20 17 0.44
21 9 0.23
22 7 0.18
23 3 0.08
ACGTcount: A:0.04, C:0.19, G:0.01, T:0.76
Consensus pattern (20 bp):
TCTCTTTTCTTTTTTTATTT
Found at i:23466444 original size:11 final size:11
Alignment explanation
Indices: 23466417--23466483 Score: 82
Period size: 13 Copynumber: 5.7 Consensus size: 11
23466407 GCACAAATCT
23466417 TTTTTTTTGAAA
1 TTTTTTTTG-AA
23466429 CTTTTTTTTGAA
1 -TTTTTTTTGAA
23466441 TTTTTTTTTG-A
1 -TTTTTTTTGAA
23466452 TTTTTTTTCCGAA
1 TTTTTTTT--GAA
23466465 TTTTTTTTGAA
1 TTTTTTTTGAA
23466476 TTTTTTTT
1 TTTTTTTT
23466484 ATACTTGTAT
Statistics
Matches: 50, Mismatches: 1, Indels: 8
0.85 0.02 0.14
Matches are distributed among these distances:
10 8 0.16
11 12 0.24
12 12 0.24
13 18 0.36
ACGTcount: A:0.15, C:0.04, G:0.07, T:0.73
Consensus pattern (11 bp):
TTTTTTTTGAA
Found at i:23466457 original size:13 final size:12
Alignment explanation
Indices: 23466416--23466483 Score: 86
Period size: 12 Copynumber: 5.7 Consensus size: 12
23466406 TGCACAAATC
23466416 TTTTTTTTTGAAA
1 TTTTTTTTTG-AA
*
23466429 CTTTTTTTTGAA
1 TTTTTTTTTGAA
23466441 TTTTTTTTTG-A
1 TTTTTTTTTGAA
*
23466452 TTTTTTTTCCGAA
1 TTTTTTTT-TGAA
23466465 -TTTTTTTTGAA
1 TTTTTTTTTGAA
23466476 TTTTTTTT
1 TTTTTTTT
23466484 ATACTTGTAT
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
11 12 0.25
12 26 0.54
13 10 0.21
ACGTcount: A:0.15, C:0.04, G:0.07, T:0.74
Consensus pattern (12 bp):
TTTTTTTTTGAA
Found at i:23468140 original size:30 final size:30
Alignment explanation
Indices: 23468106--23468182 Score: 91
Period size: 30 Copynumber: 2.6 Consensus size: 30
23468096 TACACTAAAA
* *
23468106 TGAGCTAAGCTTTAGCTCATGAGCTAAAGT
1 TGAGCTAAGATTTAGCTCATAAGCTAAAGT
* * * *
23468136 TGAGCTGAGATTAAACTCCTAAGCTAAAGT
1 TGAGCTAAGATTTAGCTCATAAGCTAAAGT
*
23468166 TGAGCTAAGGTTTAGCT
1 TGAGCTAAGATTTAGCT
23468183 TGTGAGCTGA
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (30 bp):
TGAGCTAAGATTTAGCTCATAAGCTAAAGT
Found at i:23471723 original size:20 final size:20
Alignment explanation
Indices: 23471657--23471723 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
23471647 ATTTTGATAA
*
23471657 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
23471677 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
23471697 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
23471717 ACGTGAT
1 ACATGAT
23471724 GTAATCATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:23471800 original size:24 final size:24
Alignment explanation
Indices: 23471773--23471948 Score: 266
Period size: 24 Copynumber: 7.4 Consensus size: 24
23471763 GAGGAAGTGA
23471773 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
23471797 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
23471821 AAAAGGGCTTATGCCCCAGTTCTC
1 AAAAGGGCTTATGCCCCAGTTATC
23471845 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
23471868 TAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
* *
23471891 TAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
23471915 AAAGGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
23471939 AAAAGAGGCT
1 AAAAG-GGCT
23471949 AGGCCTCCAG
Statistics
Matches: 143, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
23 45 0.31
24 94 0.66
25 4 0.03
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:23472194 original size:31 final size:31
Alignment explanation
Indices: 23472156--23472219 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
23472146 CGTTTACAGT
23472156 AAAGGCTTCAGCCCAGTAATATGAAATATGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
** **
23472187 AAAGGCTTTGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
23472218 AA
1 AA
23472220 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTAATATGAAATATGA
Found at i:23474821 original size:30 final size:29
Alignment explanation
Indices: 23474778--23474841 Score: 110
Period size: 30 Copynumber: 2.2 Consensus size: 29
23474768 CAAGTAGCCG
23474778 AAGCTAGTTAAATCACACACTTAGTGCCA
1 AAGCTAGTTAAATCACACACTTAGTGCCA
*
23474807 AAGCTAGTTTAAATCGCACACTTAGTGCCA
1 AAGCTAG-TTAAATCACACACTTAGTGCCA
23474837 AAGCT
1 AAGCT
23474842 TCTGATTCAT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 7 0.21
30 26 0.79
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.25
Consensus pattern (29 bp):
AAGCTAGTTAAATCACACACTTAGTGCCA
Found at i:23478890 original size:29 final size:29
Alignment explanation
Indices: 23478829--23478917 Score: 126
Period size: 29 Copynumber: 3.1 Consensus size: 29
23478819 ACATACATGT
* *
23478829 ATATGGCCCACTAGGCCC-AATCTCATTC
1 ATATGGCCCATTAGGCCCAAATCACATTC
*
23478857 ATATGGCCCATTAGGCCCAAATCACATTT
1 ATATGGCCCATTAGGCCCAAATCACATTC
* *
23478886 GTATGGCCCATTAGGCCCAAATCACATAC
1 ATATGGCCCATTAGGCCCAAATCACATTC
23478915 ATA
1 ATA
23478918 GTCATGCTTT
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
28 17 0.32
29 36 0.68
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.25
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACATTC
Found at i:23479103 original size:16 final size:16
Alignment explanation
Indices: 23479084--23479118 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
23479074 GTAGCTAAAG
*
23479084 TTTTGGCTTTTCGGCA
1 TTTTAGCTTTTCGGCA
23479100 TTTTAGCTTTTCGGCA
1 TTTTAGCTTTTCGGCA
23479116 TTT
1 TTT
23479119 CGGGATTTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.09, C:0.17, G:0.20, T:0.54
Consensus pattern (16 bp):
TTTTAGCTTTTCGGCA
Found at i:23487256 original size:34 final size:34
Alignment explanation
Indices: 23487218--23487287 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
23487208 GTGAAAGTCT
*
23487218 GAAAACAGTGTCAGATCGTCAGAAATCTTATGTA
1 GAAAACAGTGTCAGATCGTCAAAAATCTTATGTA
*
23487252 GAAAACAGTGTCAGATTGTCAAAAATCTTATGTA
1 GAAAACAGTGTCAGATCGTCAAAAATCTTATGTA
23487286 GA
1 GA
23487288 TTTGAAATGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (34 bp):
GAAAACAGTGTCAGATCGTCAAAAATCTTATGTA
Found at i:23489074 original size:45 final size:43
Alignment explanation
Indices: 23489025--23489123 Score: 123
Period size: 41 Copynumber: 2.3 Consensus size: 43
23489015 ATCCAGGATG
*
23489025 TTGGCATCGATATATATGGTTACGTGTAAGACCATGTCTGGGACA
1 TTGGCATC-ATATATATGATT-CGTGTAAGACCATGTCTGGGACA
* *
23489070 TTGGCATC-T-TATTTGATTCGTGTAAGACCCTGTCTGGGACA
1 TTGGCATCATATATATGATTCGTGTAAGACCATGTCTGGGACA
*
23489111 GTGGCATCA-ATAT
1 TTGGCATCATATAT
23489124 GAGATAGCAT
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
41 29 0.60
42 10 0.21
43 1 0.02
45 8 0.17
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.33
Consensus pattern (43 bp):
TTGGCATCATATATATGATTCGTGTAAGACCATGTCTGGGACA
Found at i:23493710 original size:40 final size:40
Alignment explanation
Indices: 23493666--23493772 Score: 162
Period size: 42 Copynumber: 2.6 Consensus size: 40
23493656 GTGACAAATA
* *
23493666 AGCTATATGTGGCACTTAGTGTGCTATTTGACATAGCTTC
1 AGCTATATATGGCACTTAGTGTGCAATTTGACATAGCTTC
23493706 AGCTATATATATGGCACTTAGTGTGCAATTTGACATAGCTTC
1 AGC--TATATATGGCACTTAGTGTGCAATTTGACATAGCTTC
23493748 -GACTATATATGGCACTTAGTGTGCA
1 AG-CTATATATGGCACTTAGTGTGCA
23493773 GTTTAAGATA
Statistics
Matches: 62, Mismatches: 2, Indels: 6
0.89 0.03 0.09
Matches are distributed among these distances:
40 25 0.40
41 1 0.02
42 36 0.58
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (40 bp):
AGCTATATATGGCACTTAGTGTGCAATTTGACATAGCTTC
Found at i:23495006 original size:28 final size:27
Alignment explanation
Indices: 23494974--23495072 Score: 101
Period size: 28 Copynumber: 3.5 Consensus size: 27
23494964 ATAATAAGCC
23494974 CGCACACTTAGTGCTTA-ATAGTTGAACT
1 CGCACACTTAGTGC-TACATA-TTGAACT
* * *
23495002 CGCACACTTAGTGCTATATAATCAACCT
1 CGCACACTTAGTGCTACATATTGAA-CT
* *
23495030 CGCACACTTAGTGCTACACAATTTGAACC
1 CGCACACTTAGTGCTACA-TA-TTGAACT
23495059 CGCACACTTAGTGC
1 CGCACACTTAGTGC
23495073 CAATCTCATG
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 5 0.08
28 36 0.60
29 16 0.27
30 3 0.05
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATATTGAACT
Found at i:23497491 original size:27 final size:27
Alignment explanation
Indices: 23497440--23497529 Score: 110
Period size: 27 Copynumber: 3.2 Consensus size: 27
23497430 GTGACAGAGT
*
23497440 CACCAGATATAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
23497469 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
23497496 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
23497524 CACCAG
1 CACCAG
23497530 GACGCTTCCT
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
27 24 0.44
28 23 0.43
29 7 0.13
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.21
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:23498900 original size:46 final size:45
Alignment explanation
Indices: 23498850--23499022 Score: 163
Period size: 46 Copynumber: 3.8 Consensus size: 45
23498840 TGGTTGAGCA
* * *
23498850 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT-GATGCAAAAG
* * *
23498896 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATGTAACTAAG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGATGCAA--AAG
* * *
23498941 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGAGTGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGA-TGCAAAAG
* *
23498989 -CCCAAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTA
23499023 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
43 6 0.06
45 8 0.08
46 53 0.50
47 29 0.28
48 4 0.04
49 2 0.02
50 3 0.03
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGATGCAAAAG
Found at i:23499005 original size:93 final size:93
Alignment explanation
Indices: 23498846--23499017 Score: 249
Period size: 93 Copynumber: 1.8 Consensus size: 93
23498836 AGGATGGTTG
* * * * *
23498846 AGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 AGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCCAACTCATTGAG
23498911 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
23498939 AGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTAT-GAGTGCGAACG-CCCAAGCTCATTG
1 AGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGA-TGCAAACGTCCCAA-CTCATTG
23499002 AGTTGAGTCCGAGTTC
64 AGTTGAGTCCGAGTTC
23499018 ACTTAGGGGC
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
92 6 0.09
93 64 0.91
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (93 bp):
AGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCCAACTCATTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:23499284 original size:19 final size:20
Alignment explanation
Indices: 23499247--23499284 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
23499237 ATAAGGTGAT
23499247 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
23499267 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
23499285 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:23500443 original size:28 final size:28
Alignment explanation
Indices: 23500396--23500457 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
23500386 AAATTAACCC
*
23500396 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
* *
23500424 TAGGGGTATAATGGTAATTTTGCATGCA
1 TAGGGGTATAAAGGTAATTTTGCATACA
23500452 TAGGGG
1 TAGGGG
23500458 CATTCTAGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.29, C:0.08, G:0.31, T:0.32
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:23501546 original size:12 final size:13
Alignment explanation
Indices: 23501527--23501559 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
23501517 GGGTTCGGCT
23501527 ATGGAGAAGGAAG
1 ATGGAGAAGGAAG
*
23501540 A-GGAGAAGGTAG
1 ATGGAGAAGGAAG
23501552 ATGGAGAA
1 ATGGAGAA
23501560 AAAGAAATAA
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:0.45, C:0.00, G:0.45, T:0.09
Consensus pattern (13 bp):
ATGGAGAAGGAAG
Found at i:23511403 original size:19 final size:17
Alignment explanation
Indices: 23511373--23511416 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 17
23511363 ATGAAATTTT
*
23511373 AAATAGTATTATGAGATA
1 AAATATTATTATGAGA-A
*
23511391 AAATTATTATTATTAGAA
1 AAA-TATTATTATGAGAA
23511409 AAATATTA
1 AAATATTA
23511417 CTGTAAGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 5 0.22
18 7 0.30
19 11 0.48
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (17 bp):
AAATATTATTATGAGAA
Found at i:23513720 original size:25 final size:25
Alignment explanation
Indices: 23513691--23513738 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
23513681 TTATAATATG
* * *
23513691 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
23513716 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
23513739 GTTTAAATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:23513805 original size:20 final size:20
Alignment explanation
Indices: 23513782--23513839 Score: 107
Period size: 20 Copynumber: 2.9 Consensus size: 20
23513772 TAAACATGGT
23513782 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
23513802 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
23513822 ATGTATGATATGCACATG
1 ATGTATGATATGCACATG
23513840 GTGTATTCAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:23513822 original size:11 final size:11
Alignment explanation
Indices: 23513786--23513839 Score: 53
Period size: 11 Copynumber: 5.3 Consensus size: 11
23513776 CATGGTATGT
23513786 ATGATATGCAC
1 ATGATATGCAC
* *
23513797 ATGACATG--T
1 ATGATATGCAC
23513806 ATGATATGCAC
1 ATGATATGCAC
*
23513817 ATGATATG--T
1 ATGATATGCAC
23513826 ATGATATGCAC
1 ATGATATGCAC
23513837 ATG
1 ATG
23513840 GTGTATTCAT
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
9 15 0.45
11 18 0.55
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:23513920 original size:23 final size:23
Alignment explanation
Indices: 23513890--23513962 Score: 119
Period size: 23 Copynumber: 3.1 Consensus size: 23
23513880 AAGAAGTACA
23513890 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
23513913 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
23513936 AAAATGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
23513960 AAA
1 AAA
23513963 AGAGGCTAGG
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
23 26 0.55
24 21 0.45
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.32
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:23513979 original size:25 final size:24
Alignment explanation
Indices: 23513889--23513983 Score: 131
Period size: 24 Copynumber: 4.0 Consensus size: 24
23513879 GAAGAAGTAC
23513889 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
23513913 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
23513936 AAAATGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
23513960 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
23513984 ATGATAAAGC
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
23 23 0.37
24 29 0.46
25 11 0.17
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:23516246 original size:33 final size:35
Alignment explanation
Indices: 23516209--23516287 Score: 85
Period size: 38 Copynumber: 2.3 Consensus size: 35
23516199 TTTAGTAGGG
*
23516209 TTATAGTAAAT-ATATAT-ATATATGTTTATTAAA
1 TTATAGTAAATAATATATGATATATGTTAATTAAA
*
23516242 TTATAATACATTATAATATATGATATATGTTAATTAAA
1 TTATAGTA-A--ATAATATATGATATATGTTAATTAAA
23516280 -TA-AGTAAA
1 TTATAGTAAA
23516288 AGAATAAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
33 8 0.21
34 1 0.03
35 1 0.03
36 5 0.13
37 8 0.21
38 15 0.39
ACGTcount: A:0.48, C:0.01, G:0.06, T:0.44
Consensus pattern (35 bp):
TTATAGTAAATAATATATGATATATGTTAATTAAA
Found at i:23516987 original size:21 final size:21
Alignment explanation
Indices: 23516961--23517002 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
23516951 ATATAGCCAG
23516961 GTAAGTTCATAGTATTAAATT
1 GTAAGTTCATAGTATTAAATT
23516982 GTAAGTTCATAGTATTAAATT
1 GTAAGTTCATAGTATTAAATT
23517003 TTATAATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.14, T:0.43
Consensus pattern (21 bp):
GTAAGTTCATAGTATTAAATT
Found at i:23517120 original size:40 final size:40
Alignment explanation
Indices: 23517070--23517225 Score: 208
Period size: 40 Copynumber: 3.9 Consensus size: 40
23517060 GTAAATTCTA
* **
23517070 CCCTGATTGCACTTACGTACCATTGTTTGTACTTCGGTA-
1 CCCTGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTAC
23517109 CCCTGGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTAC
1 CCCT-GATTGCACTTACGTGCCCCTGTTTGTACTTCGGTAC
* **
23517150 CCCTGATTGCACTTACATGCCCCTGTTTGTACTTTAGTAC
1 CCCTGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTAC
* *
23517190 CCCTGATTGCACAT-CGGTGCCCCTGTTTGAACTTCG
1 CCCTGATTGCACTTAC-GTGCCCCTGTTTGTACTTCG
23517226 ATGCTCTTAC
Statistics
Matches: 103, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
39 5 0.05
40 94 0.91
41 4 0.04
ACGTcount: A:0.15, C:0.30, G:0.19, T:0.35
Consensus pattern (40 bp):
CCCTGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTAC
Found at i:23517152 original size:20 final size:20
Alignment explanation
Indices: 23517070--23517225 Score: 95
Period size: 20 Copynumber: 7.8 Consensus size: 20
23517060 GTAAATTCTA
*
23517070 CCCTGATTGCACTTAC-GTAC
1 CCCTGTTTGCACTT-CGGTAC
** *
23517090 CATTGTTTGTACTTCGGTA-
1 CCCTGTTTGCACTTCGGTAC
* *
23517109 CCCTGGATTGCACTTAC-GTGC
1 CCCT-GTTTGCACTT-CGGTAC
*
23517130 CCCTGTTTGTACTTCGGTAC
1 CCCTGTTTGCACTTCGGTAC
* * *
23517150 CCCTGATTGCACTTAC-ATGC
1 CCCTGTTTGCACTT-CGGTAC
* **
23517170 CCCTGTTTGTACTTTAGTAC
1 CCCTGTTTGCACTTCGGTAC
* * *
23517190 CCCTGATTGCACATCGGTGC
1 CCCTGTTTGCACTTCGGTAC
*
23517210 CCCTGTTTGAACTTCG
1 CCCTGTTTGCACTTCG
23517226 ATGCTCTTAC
Statistics
Matches: 99, Mismatches: 30, Indels: 14
0.69 0.21 0.10
Matches are distributed among these distances:
19 4 0.04
20 89 0.90
21 6 0.06
ACGTcount: A:0.15, C:0.30, G:0.19, T:0.35
Consensus pattern (20 bp):
CCCTGTTTGCACTTCGGTAC
Found at i:23518919 original size:29 final size:28
Alignment explanation
Indices: 23518876--23518930 Score: 92
Period size: 29 Copynumber: 1.9 Consensus size: 28
23518866 AGATATACCA
23518876 ATTTGGCTTCGGGCCATGAATATCAGTTG
1 ATTTGGCTTCGGGCCATG-ATATCAGTTG
*
23518905 ATTTGGCTTCTGGCCATGATATCAGT
1 ATTTGGCTTCGGGCCATGATATCAGT
23518931 GCTTCAGATG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 8 0.32
29 17 0.68
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.36
Consensus pattern (28 bp):
ATTTGGCTTCGGGCCATGATATCAGTTG
Found at i:23523191 original size:140 final size:140
Alignment explanation
Indices: 23522952--23523208 Score: 442
Period size: 140 Copynumber: 1.8 Consensus size: 140
23522942 AAAGAATATC
* *
23522952 TTGAATTGAAGCAAGGACGTATGTCAGTCACCGAATATGAAAGAAAGTTTCTACGACTCAGCAAA
1 TTGAATTAAAGCAAGGACGTATGTCAATCACCGAATATGAAAGAAAGTTTCTACGACTCAGCAAA
* *
23523017 TATGTAACGCCCCAATCCCCAAATCCCTGATAAAATTATTTTTTTGTCTTTGCTTCAATTCAAGA
66 TATGTAACACCCCAATCCCCAAATCCCTGATAAAATTATTTTTATGTCTTTGCTTCAATTCAAGA
23523082 AAATAATTTA
131 AAATAATTTA
*
23523092 TTGAATTAAAGCAAGGACGTATGTCAATCACCGAATATGAAAGAAAGTTTGTACGACTCAGCAAA
1 TTGAATTAAAGCAAGGACGTATGTCAATCACCGAATATGAAAGAAAGTTTCTACGACTCAGCAAA
* * *
23523157 TATGTAACACGCCAATCCCTAAATCCCTGATAAAATTATTTTTATGTGTTTG
66 TATGTAACACCCCAATCCCCAAATCCCTGATAAAATTATTTTTATGTCTTTG
23523209 TGATGTGAAA
Statistics
Matches: 109, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
140 109 1.00
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.30
Consensus pattern (140 bp):
TTGAATTAAAGCAAGGACGTATGTCAATCACCGAATATGAAAGAAAGTTTCTACGACTCAGCAAA
TATGTAACACCCCAATCCCCAAATCCCTGATAAAATTATTTTTATGTCTTTGCTTCAATTCAAGA
AAATAATTTA
Found at i:23527851 original size:27 final size:26
Alignment explanation
Indices: 23527807--23527857 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
23527797 CTCGCTGCAA
*
23527807 TCTGGTGGCCTCGCCACATATATCTAT
1 TCTGGTGACCTCGCCACA-ATATCTAT
* *
23527834 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACCTCGCCACAATATCT
23527858 GGTAGCCTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTAT
Found at i:23534934 original size:27 final size:26
Alignment explanation
Indices: 23534890--23534941 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
23534880 CTCGCTGCAA
*
23534890 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
23534917 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
23534942 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:23534979 original size:67 final size:68
Alignment explanation
Indices: 23534871--23535010 Score: 219
Period size: 67 Copynumber: 2.1 Consensus size: 68
23534861 GAGGAAGCGT
* * *
23534871 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCAC-ATATATCTGTTCTGGTGACTTCGTCACA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACAATATATCTGTTCTGGTGACCTAGCCACA
23534935 ATA
66 ATA
* *
23534938 TCTGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATATATCTGTTCTGGTGGCCTAGCCAC
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACA-ATATATCTGTTCTGGTGACCTAGCCAC
23535003 AATA
65 AATA
23535007 TCTG
1 TCTG
23535011 TATCTGGTGA
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
67 35 0.53
69 31 0.47
ACGTcount: A:0.18, C:0.29, G:0.23, T:0.30
Consensus pattern (68 bp):
TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACAATATATCTGTTCTGGTGACCTAGCCACA
ATA
Found at i:23535001 original size:29 final size:27
Alignment explanation
Indices: 23534978--23535037 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
23534968 CGCCACATAT
23534978 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGGCCTAGCCACA
* * * *
23535004 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGGCCTAGCCACA
23535031 ATATCTG
1 ATATCTG
23535038 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGGCCTAGCCACA
Found at i:23541790 original size:15 final size:14
Alignment explanation
Indices: 23541769--23541854 Score: 59
Period size: 15 Copynumber: 5.9 Consensus size: 14
23541759 TTTTTTCACA
23541769 CTCTTTTTCTTTTT
1 CTCTTTTTCTTTTT
23541783 CATCTTTTTC-TTTT
1 C-TCTTTTTCTTTTT
* *
23541797 CTCATTTTCTTTTCA
1 CTCTTTTTCTTTT-T
*
23541812 CTCTCTTTTATTGTTT
1 CTCT-TTTTCTT-TTT
* * *
23541828 TTC-CTCTCTTTTT
1 CTCTTTTTCTTTTT
23541841 CTCATTTTTCTTTT
1 CTC-TTTTTCTTTT
23541855 CTTTTACTTT
Statistics
Matches: 53, Mismatches: 12, Indels: 13
0.68 0.15 0.17
Matches are distributed among these distances:
13 12 0.23
14 13 0.25
15 18 0.34
16 8 0.15
17 2 0.04
ACGTcount: A:0.06, C:0.23, G:0.01, T:0.70
Consensus pattern (14 bp):
CTCTTTTTCTTTTT
Found at i:23541801 original size:16 final size:15
Alignment explanation
Indices: 23541770--23541809 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
23541760 TTTTTCACAC
23541770 TCTTTTTCTTTTTCA
1 TCTTTTTCTTTTTCA
23541785 TCTTTTTC-TTTTC-
1 TCTTTTTCTTTTTCA
*
23541798 TCATTTTCTTTT
1 TCTTTTTCTTTT
23541810 CACTCTCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 7 0.30
14 8 0.35
15 8 0.35
ACGTcount: A:0.05, C:0.20, G:0.00, T:0.75
Consensus pattern (15 bp):
TCTTTTTCTTTTTCA
Found at i:23541806 original size:13 final size:14
Alignment explanation
Indices: 23541773--23541811 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
23541763 TTCACACTCT
*
23541773 TTTTCTTTTTCATCT
1 TTTTC-TTTTCATCA
23541788 TTTTCTTTTC-TCA
1 TTTTCTTTTCATCA
23541801 TTTTCTTTTCA
1 TTTTCTTTTCA
23541812 CTCTCTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 12 0.55
14 5 0.23
15 5 0.23
ACGTcount: A:0.08, C:0.21, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTTCTTTTCATCA
Found at i:23545424 original size:28 final size:27
Alignment explanation
Indices: 23545384--23545476 Score: 123
Period size: 28 Copynumber: 3.3 Consensus size: 27
23545374 ATTTACTAGA
23545384 ATACCCCTATGTATGCAGAATTGCCATT
1 ATACCCCTATGTATGCA-AATTGCCATT
*
23545412 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGC-AAATTGCCATT
* * *
23545440 ATACCCTTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAATTG-CCATT
23545468 ATACCCCTA
1 ATACCCCTA
23545477 GGGTTAATTT
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
27 4 0.07
28 52 0.91
29 1 0.02
ACGTcount: A:0.32, C:0.26, G:0.10, T:0.32
Consensus pattern (27 bp):
ATACCCCTATGTATGCAAATTGCCATT
Found at i:23545682 original size:29 final size:28
Alignment explanation
Indices: 23545595--23545682 Score: 79
Period size: 27 Copynumber: 3.1 Consensus size: 28
23545585 GTGGCTATGA
* * *
23545595 CACAAATTATCTGTTCTGGTGGCCCTGC
1 CACAAAATATCTGTTCTGGTGACACTGC
** *
23545623 CAC-GTATATCTGTTCTGGTGGCACTGC
1 CACAAAATATCTGTTCTGGTGACACTGC
* * *
23545650 CACAAAATATCTGTATTTGGTGACTCTGT
1 CACAAAATATCTGT-TCTGGTGACACTGC
23545679 CACA
1 CACA
23545683 TTTTCTGTAT
Statistics
Matches: 48, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
27 23 0.48
28 11 0.23
29 14 0.29
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (28 bp):
CACAAAATATCTGTTCTGGTGACACTGC
Found at i:23546159 original size:19 final size:19
Alignment explanation
Indices: 23546135--23546173 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
23546125 TTTTAATTAT
* *
23546135 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
23546154 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
23546173 T
1 T
23546174 ATGATGGAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:23553385 original size:47 final size:47
Alignment explanation
Indices: 23553311--23553464 Score: 272
Period size: 47 Copynumber: 3.3 Consensus size: 47
23553301 TCCTTCGGGA
*
23553311 CTTATCACATATATACACTTTCCCATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** *
23553358 CTTATCACATATATACACTTTCACATTCATCACATTTGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23553405 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23553452 CTTATCACATATA
1 CTTATCACATATA
23553465 CATATCTTGT
Statistics
Matches: 100, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 100 1.00
ACGTcount: A:0.29, C:0.30, G:0.07, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:23555334 original size:13 final size:13
Alignment explanation
Indices: 23555316--23555340 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23555306 TACTAAATTT
23555316 TCATGGATTCAAA
1 TCATGGATTCAAA
23555329 TCATGGATTCAA
1 TCATGGATTCAA
23555341 TATACCATTA
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAA
Found at i:23561644 original size:39 final size:39
Alignment explanation
Indices: 23561590--23561668 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
23561580 ACGTTTAACG
*
23561590 AACATGTTCATTGGTACTTGATGATGAAAGTTTTGGAAT
1 AACATGTTCATTGGTACTTAATGATGAAAGTTTTGGAAT
23561629 AACATGTTCATTGGTACTTAATGATGAAAGTTTTGGAAT
1 AACATGTTCATTGGTACTTAATGATGAAAGTTTTGGAAT
23561668 A
1 A
23561669 TGTATGCGAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.33, C:0.08, G:0.22, T:0.38
Consensus pattern (39 bp):
AACATGTTCATTGGTACTTAATGATGAAAGTTTTGGAAT
Found at i:23566334 original size:27 final size:27
Alignment explanation
Indices: 23566304--23566360 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
23566294 TCTGCTCACT
23566304 TTGTTCCAGTTCGTACAAATTACTCGC
1 TTGTTCCAGTTCGTACAAATTACTCGC
*
23566331 TTGTTCCAGTTCGTACAGATTACTCGC
1 TTGTTCCAGTTCGTACAAATTACTCGC
23566358 TTG
1 TTG
23566361 ATAAACTGGC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.19, C:0.25, G:0.18, T:0.39
Consensus pattern (27 bp):
TTGTTCCAGTTCGTACAAATTACTCGC
Found at i:23571602 original size:27 final size:27
Alignment explanation
Indices: 23571583--23571728 Score: 211
Period size: 27 Copynumber: 5.4 Consensus size: 27
23571573 ATTACCAAAG
*
23571583 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
23571610 TACCCTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
*
23571637 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
**
23571664 TACCCTTAATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
* * *
23571691 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
23571718 TACCCTCGATT
1 TACCCTCGATT
23571729 GTGAAATTAC
Statistics
Matches: 107, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 107 1.00
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCATTT
Found at i:23571863 original size:27 final size:26
Alignment explanation
Indices: 23571764--23571967 Score: 115
Period size: 27 Copynumber: 7.5 Consensus size: 26
23571754 AGATAGAATA
23571764 ACCAAAATACCCCT-AGTTTGTAAAATT
1 ACCAAAATA-CCCTGA-TTTGTAAAATT
* * *
23571791 ACCAAAATACCACTGGTTTCTGAAATT
1 ACCAAAATACC-CTGATTTGTAAAATT
* *
23571818 ACCGAAATACCCTCAATTTGTAAAATT
1 ACCAAAATACCCT-GATTTGTAAAATT
** *
23571845 ACCAAAATACCACTGATTTACAAAGTT
1 ACCAAAATACC-CTGATTTGTAAAATT
*
23571872 A-CAGAAATACCCTTGAGTTTCTAAAAATT
1 ACCA-AAATACCC-TGA-TTTGT-AAAATT
*** * **
23571901 ATGGAAATACCATTGATTTACAAAATT
1 ACCAAAATACC-CTGATTTGTAAAATT
* * * *
23571928 ACTAAAATACCCTTGGTTTGTAGATTT
1 ACCAAAATACCC-TGATTTGTAAAATT
*
23571955 ACCAAAACACCCT
1 ACCAAAATACCCT
23571968 TGTAGGATGA
Statistics
Matches: 134, Mismatches: 32, Indels: 23
0.71 0.17 0.12
Matches are distributed among these distances:
26 8 0.06
27 102 0.76
28 8 0.06
29 16 0.12
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (26 bp):
ACCAAAATACCCTGATTTGTAAAATT
Found at i:23571879 original size:54 final size:53
Alignment explanation
Indices: 23571780--23571940 Score: 164
Period size: 54 Copynumber: 2.9 Consensus size: 53
23571770 ATACCCCTAG
* *
23571780 TTTGTAAAATTACCAAAATACCACTGGTTT-CTGAAATTACCGAAATACCCTCAA
1 TTTGTAAAATTACCAAAATACCACTGATTTAC--AAATTACAGAAATACCCTCAA
* *
23571834 TTTGTAAAATTACCAAAATACCACTGATTTACAAAGTTACAGAAATACCCTTGAG
1 TTTGTAAAATTACCAAAATACCACTGATTTACAAA-TTACAGAAATACCC-TCAA
* *** *
23571889 TTTCTAAAAATTATGGAAATACCATTGATTTACAAAATTACTA-AAATACCCT
1 TTTGT-AAAATTACCAAAATACCACTGATTTAC-AAATTAC-AGAAATACCCT
23571941 TGGTTTGTAG
Statistics
Matches: 92, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
53 3 0.03
54 42 0.46
55 8 0.09
56 35 0.38
57 4 0.04
ACGTcount: A:0.42, C:0.19, G:0.09, T:0.31
Consensus pattern (53 bp):
TTTGTAAAATTACCAAAATACCACTGATTTACAAATTACAGAAATACCCTCAA
Found at i:23572893 original size:26 final size:26
Alignment explanation
Indices: 23572864--23572961 Score: 153
Period size: 26 Copynumber: 3.8 Consensus size: 26
23572854 GAGGAAGTGC
* *
23572864 AAAACGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACTG
*
23572890 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
*
23572916 AAAAGGGCTTATACCCCAGTTTACTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
23572942 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
23572962 GTTAAAGAGG
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
25 9 0.14
26 57 0.86
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACTG
Found at i:23573165 original size:42 final size:42
Alignment explanation
Indices: 23573106--23573197 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
23573096 TAGTCTCCCA
* ** *
23573106 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
*
23573148 AAATGGGCTTGCATACATCCGTTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
23573190 AAATGGGC
1 AAATGGGC
23573198 CTAAGGGCCA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:23573258 original size:31 final size:31
Alignment explanation
Indices: 23573221--23573297 Score: 127
Period size: 31 Copynumber: 2.5 Consensus size: 31
23573211 CGTTTGCAGT
* *
23573221 AAAGGCTTCGGCCTAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAATGATATAATTTATGA
23573252 AAAGGCTTCGGCCCAATGATATAATTTATGA
1 AAAGGCTTCGGCCCAATGATATAATTTATGA
*
23573283 AAAGGCTTCAGCCCA
1 AAAGGCTTCGGCCCA
23573298 GTAACCGTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAATGATATAATTTATGA
Found at i:23573963 original size:27 final size:27
Alignment explanation
Indices: 23573932--23573992 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
23573922 ACCCCTAATA
23573932 GGTAAAAAGACCGTAA-AGCCCTTGTA-
1 GGTAAAAAGACCGTAATA-CCCTTGTAT
**
23573958 GAGTAAAGTGACCGTAATACCCTTGTAT
1 G-GTAAAAAGACCGTAATACCCTTGTAT
23573986 GGTAAAA
1 GGTAAAA
23573993 TGATGAATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
26 1 0.03
27 26 0.90
28 2 0.07
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (27 bp):
GGTAAAAAGACCGTAATACCCTTGTAT
Found at i:23576053 original size:39 final size:39
Alignment explanation
Indices: 23575999--23576309 Score: 471
Period size: 39 Copynumber: 8.0 Consensus size: 39
23575989 AAGACACTGA
*
23575999 AAATGTATCCGGGCTAAAATCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* *
23576038 AAATGTATCCGGGCTAAAGTCCCGCAAGCTTCATGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* * *
23576077 AAATATATCCGGGCTAAAGTCTCGCAGGCTTCGTGCTAG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* *
23576116 AAATATATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
*
23576155 AAATGTATCCGGACTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
*
23576194 AAATGTATCCGGGCCAAAGT-CCGACAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCG-CAGGCTTCGTGCTGG
* * *
23576233 AAATGTATCCGGGCCAAAGTCCGGCAGGCTTTGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* *
23576272 AAATGTATCCGGGTTAAAGTCCCGCAGGCTTTGTGCTG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
23576310 ATAATATAAT
Statistics
Matches: 249, Mismatches: 21, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
38 3 0.01
39 244 0.98
40 2 0.01
ACGTcount: A:0.23, C:0.25, G:0.29, T:0.23
Consensus pattern (39 bp):
AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
Found at i:23578956 original size:42 final size:42
Alignment explanation
Indices: 23578891--23578982 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
23578881 TAGTCTCCCC
* ** *
23578891 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
*
23578933 AACTGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
23578975 AAATGGGC
1 AAATGGGC
23578983 CTAAGGGCAA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:23581309 original size:27 final size:27
Alignment explanation
Indices: 23581290--23581435 Score: 193
Period size: 27 Copynumber: 5.4 Consensus size: 27
23581280 ATTACCAAAG
*
23581290 TACCCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
23581317 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
**
23581344 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
23581371 TACCCTTGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * * *
23581398 TACCCTTGATTTATAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
23581425 TACCCTCGATT
1 TACCCTCGATT
23581436 GTGAAATTAC
Statistics
Matches: 107, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 107 1.00
ACGTcount: A:0.27, C:0.22, G:0.09, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:23581337 original size:54 final size:54
Alignment explanation
Indices: 23581290--23581435 Score: 229
Period size: 54 Copynumber: 2.7 Consensus size: 54
23581280 ATTACCAAAG
* *
23581290 TACCCTCGATTTACAGAATTACTATTTTACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTATAGAATTACCATTT
*
23581344 TACCCTCGATTTACAGAATTACTGTTTTACCCTTGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTATAGAATTACCATTT
* * * *
23581398 TACCCTTGATTTATAAAATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATT
23581436 GTGAAATTAC
Statistics
Matches: 84, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 84 1.00
ACGTcount: A:0.27, C:0.22, G:0.09, T:0.42
Consensus pattern (54 bp):
TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTATAGAATTACCATTT
Found at i:23581457 original size:27 final size:27
Alignment explanation
Indices: 23581427--23581565 Score: 106
Period size: 27 Copynumber: 5.1 Consensus size: 27
23581417 TACCGTTTTA
**
23581427 CCCTCGATTGTGAAATTACTGAAATAC
1 CCCTCGATTGTGAAATTACCAAAATAC
*
23581454 CCCT-G-TAG-GATAGAATTACCAAAATAC
1 CCCTCGATTGTG--A-AATTACCAAAATAC
* * *
23581481 CCCTAGTTTGTAAAATTACCAAAATAC
1 CCCTCGATTGTGAAATTACCAAAATAC
* * * *
23581508 CACTGGTTTGTGAAATTACCGAAATA-
1 CCCTCGATTGTGAAATTACCAAAATAC
* *
23581534 CCCTCAATTTGTAAAATTACCAAAATAC
1 CCCTCGA-TTGTGAAATTACCAAAATAC
23581562 CCCT
1 CCCT
23581566 AATTTACAAA
Statistics
Matches: 89, Mismatches: 15, Indels: 15
0.75 0.13 0.13
Matches are distributed among these distances:
24 1 0.01
25 2 0.02
26 5 0.06
27 73 0.82
28 6 0.07
29 2 0.02
ACGTcount: A:0.37, C:0.23, G:0.12, T:0.28
Consensus pattern (27 bp):
CCCTCGATTGTGAAATTACCAAAATAC
Found at i:23581508 original size:54 final size:54
Alignment explanation
Indices: 23581425--23581565 Score: 146
Period size: 54 Copynumber: 2.6 Consensus size: 54
23581415 ATTACCGTTT
* * **
23581425 TACCCTCGA-TTGTGAAATTACTGAAATACCCCT-GTAGGAT-AGAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTGGTAGG-TGA-AATTACCAAAA
* * ** *
23581478 TACCC-CTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAA
1 TACCCTC-AATTTGTAAAATTACCAAAATACCCCTGGTAGGTGAAATTACCAAAA
23581532 TACCCTCAATTTGTAAAATTACCAAAATACCCCT
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCT
23581566 AATTTACAAA
Statistics
Matches: 72, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
52 1 0.01
53 5 0.07
54 61 0.85
55 5 0.07
ACGTcount: A:0.38, C:0.23, G:0.11, T:0.28
Consensus pattern (54 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCCTGGTAGGTGAAATTACCAAAA
Found at i:23581580 original size:27 final size:27
Alignment explanation
Indices: 23581467--23581570 Score: 138
Period size: 27 Copynumber: 3.9 Consensus size: 27
23581457 TGTAGGATAG
*
23581467 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAATTTGTAA
* ** *
23581494 AATTACCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAATTTGTAA
*
23581521 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AATTTGTAA
23581548 AATTACCAAAATACCCCTAATTT
1 AATTACCAAAATACCCCTAATTT
23581571 ACAAAGTTAC
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
26 3 0.05
27 59 0.89
28 4 0.06
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAATTTGTAA
Found at i:23581586 original size:54 final size:54
Alignment explanation
Indices: 23581487--23581591 Score: 140
Period size: 54 Copynumber: 1.9 Consensus size: 54
23581477 ATACCCCTAG
** ** *
23581487 TTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAA
1 TTTGTAAAATTACCAAAATACCACTAATTTGACAAATTACAGAAATACCCTCAA
*
23581541 TTTGTAAAATTACCAAAATACCCCTAATTT-ACAAAGTTACAGAAATACCCT
1 TTTGTAAAATTACCAAAATACCACTAATTTGACAAA-TTACAGAAATACCCT
23581592 TGACTTTCTA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
53 3 0.07
54 41 0.93
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.30
Consensus pattern (54 bp):
TTTGTAAAATTACCAAAATACCACTAATTTGACAAATTACAGAAATACCCTCAA
Found at i:23581636 original size:27 final size:27
Alignment explanation
Indices: 23581602--23581653 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
23581592 TGACTTTCTA
23581602 AAAATTATGGAAATACCATTGGTTTAC
1 AAAATTATGGAAATACCATTGGTTTAC
* *
23581629 AAAATTATTGAAATACCCTTGGTTT
1 AAAATTATGGAAATACCATTGGTTT
23581654 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.37
Consensus pattern (27 bp):
AAAATTATGGAAATACCATTGGTTTAC
Found at i:23582668 original size:25 final size:26
Alignment explanation
Indices: 23582571--23582668 Score: 162
Period size: 26 Copynumber: 3.8 Consensus size: 26
23582561 GAGGAAGTGC
*
23582571 AAAAGGGCTTATGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
23582597 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
23582623 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
23582649 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
23582669 GTTAAAAAGG
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
25 10 0.15
26 57 0.85
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:23582872 original size:42 final size:42
Alignment explanation
Indices: 23582812--23582904 Score: 123
Period size: 42 Copynumber: 2.2 Consensus size: 42
23582802 GTAGTCTCCC
* ** *
23582812 CAAATGGGCTTCCATACATTCATTGGTATTTCATGTGATATT
1 CAAATGGGCTTCCATACATCCATTGACATTACATGTGATATT
* * *
23582854 GAAATGGGCTTGCATACATCCATTGACATTACATGTGATGTT
1 CAAATGGGCTTCCATACATCCATTGACATTACATGTGATATT
23582896 CAAATGGGC
1 CAAATGGGC
23582905 CTAAGGGCCA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.34
Consensus pattern (42 bp):
CAAATGGGCTTCCATACATCCATTGACATTACATGTGATATT
Found at i:23582990 original size:27 final size:30
Alignment explanation
Indices: 23582928--23582997 Score: 101
Period size: 27 Copynumber: 2.4 Consensus size: 30
23582918 CGTTTGCAGT
23582928 AAAGGCTTCGGCCTAATGATATGATTTATGA
1 AAAGGCTTCGG-CTAATGATATGATTTATGA
*
23582959 AAAGGCTTCGGC-AGTGATAT-ATTTAT-A
1 AAAGGCTTCGGCTAATGATATGATTTATGA
23582986 AAAGGCTTCGGC
1 AAAGGCTTCGGC
23582998 CAGTAACCTT
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
27 13 0.34
28 6 0.16
29 7 0.18
30 1 0.03
31 11 0.29
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.30
Consensus pattern (30 bp):
AAAGGCTTCGGCTAATGATATGATTTATGA
Found at i:23585313 original size:27 final size:27
Alignment explanation
Indices: 23585269--23585413 Score: 202
Period size: 27 Copynumber: 5.4 Consensus size: 27
23585259 ATTTCCAAAG
*
23585269 TACCCTC-ATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
**
23585295 TACCCTCGATTTATTGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
23585322 TATCCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
23585349 TACCCTTGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
23585376 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
23585403 TACCCTCGATT
1 TACCCTCGATT
23585414 GTGAAATTAC
Statistics
Matches: 103, Mismatches: 15, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
26 7 0.07
27 96 0.93
ACGTcount: A:0.28, C:0.23, G:0.07, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:23585341 original size:54 final size:54
Alignment explanation
Indices: 23585269--23585413 Score: 229
Period size: 54 Copynumber: 2.7 Consensus size: 54
23585259 ATTTCCAAAG
*
23585269 TACCCTC-ATTTACAGAATTACTATTTTACCCTCGATTTATTGAATTACCATTT
1 TACCCTCGATTTACAGAATTACTATTTTACCCTCGATTTATAGAATTACCATTT
* *
23585322 TATCCTCGATTTACAGAATTACTATTTTACCCTTGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACTATTTTACCCTCGATTTATAGAATTACCATTT
* **
23585376 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACTATTTTACCCTCGATT
23585414 GTGAAATTAC
Statistics
Matches: 83, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
53 6 0.07
54 77 0.93
ACGTcount: A:0.28, C:0.23, G:0.07, T:0.42
Consensus pattern (54 bp):
TACCCTCGATTTACAGAATTACTATTTTACCCTCGATTTATAGAATTACCATTT
Found at i:23585548 original size:27 final size:27
Alignment explanation
Indices: 23585445--23585543 Score: 137
Period size: 27 Copynumber: 3.7 Consensus size: 27
23585435 TATAGGATAG
23585445 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * *
23585472 AATTACCTAAATACCACTAGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
23585499 AATTACTAAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
23585526 AATTACCAAAATACCCCT
1 AATTACCAAAATACCCCT
23585544 GATTTTCAAA
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
26 3 0.05
27 54 0.89
28 4 0.07
ACGTcount: A:0.41, C:0.22, G:0.06, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:23585558 original size:27 final size:26
Alignment explanation
Indices: 23585412--23585548 Score: 130
Period size: 27 Copynumber: 5.1 Consensus size: 26
23585402 TTACCCTCGA
* **
23585412 TTGTGAAATTACTGAAATACCCCTAT
1 TTGTAAAATTACCAAAATACCCCTAT
** *
23585438 AGGATAGAATTACCAAAATACCCCTAGT
1 TTG-TAAAATTACCAAAATACCCCTA-T
* *
23585466 TTGTAAAATTACCTAAATACCACTAGT
1 TTGTAAAATTACCAAAATACCCCTA-T
* * *
23585493 TTGTGAAATTACTAAAATACCCTCAAT
1 TTGTAAAATTACCAAAATACCC-CTAT
23585520 TTGTAAAATTACCAAAATACCCCTGAT
1 TTGTAAAATTACCAAAATACCCCT-AT
23585547 TT
1 TT
23585549 TCAAAGTTAC
Statistics
Matches: 88, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
26 2 0.02
27 82 0.93
28 4 0.05
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.31
Consensus pattern (26 bp):
TTGTAAAATTACCAAAATACCCCTAT
Found at i:23585565 original size:54 final size:54
Alignment explanation
Indices: 23585445--23585569 Score: 141
Period size: 54 Copynumber: 2.3 Consensus size: 54
23585435 TATAGGATAG
* * * *
23585445 AATTACCAAAATACCC-CTAGTTTGTAAAATTACCTAAATACCACTAGTTTGTGA
1 AATTACTAAAATACCCTC-AATTTGTAAAATTACCAAAATACCACTAGTTTGTCA
*
23585499 AATTACTAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCT-GATTT-TCA
1 AATTACTAAAATACCCTCAATTTGTAAAATTACCAAAATACCACTAG-TTTGTCA
23585552 AAGTTAC-AGAAATACCCT
1 AA-TTACTA-AAATACCCT
23585570 TGACTTTCTA
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
53 6 0.10
54 55 0.89
55 1 0.02
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.30
Consensus pattern (54 bp):
AATTACTAAAATACCCTCAATTTGTAAAATTACCAAAATACCACTAGTTTGTCA
Found at i:23585565 original size:81 final size:81
Alignment explanation
Indices: 23585412--23585567 Score: 192
Period size: 81 Copynumber: 1.9 Consensus size: 81
23585402 TTACCCTCGA
* * *
23585412 TTGTGAAATTACTGAAATACCCCTATAGGATAGAATTACCAAAATACCCCTAGTTTGTAAAATTA
1 TTGTGAAATTACTAAAATACCCCAATAGGATAAAATTACCAAAATACCCCTAGTTTGTAAAATTA
**
23585477 CCTAAATACCACTAGT
66 CAGAAATACCACTAGT
** *
23585493 TTGTGAAATTACTAAAATACCCTCAATTTG-TAAAATTACCAAAATACCCCT-GATTT-TCAAAG
1 TTGTGAAATTACTAAAATACCC-CAATAGGATAAAATTACCAAAATACCCCTAG-TTTGT-AAAA
23585555 TTACAGAAATACC
63 TTACAGAAATACC
23585568 CTTGACTTTC
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
80 2 0.03
81 58 0.91
82 4 0.06
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (81 bp):
TTGTGAAATTACTAAAATACCCCAATAGGATAAAATTACCAAAATACCCCTAGTTTGTAAAATTA
CAGAAATACCACTAGT
Found at i:23585614 original size:27 final size:27
Alignment explanation
Indices: 23585580--23585631 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
23585570 TGACTTTCTA
23585580 AAAATTATGGAAATACCATTGGTTTAC
1 AAAATTATGGAAATACCATTGGTTTAC
* *
23585607 AAAATTATTGAAATACCCTTGGTTT
1 AAAATTATGGAAATACCATTGGTTT
23585632 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.37
Consensus pattern (27 bp):
AAAATTATGGAAATACCATTGGTTTAC
Found at i:23586657 original size:25 final size:26
Alignment explanation
Indices: 23586552--23586673 Score: 160
Period size: 26 Copynumber: 4.8 Consensus size: 26
23586542 GAGGAAGTGC
* *
23586552 AAAAGGGCTTACGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
23586578 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
23586604 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
23586630 AAAAGGGCTT-TGCTCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
23586655 AAAA-GGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
23586674 ATTAAAGAGG
Statistics
Matches: 88, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
24 14 0.16
25 16 0.18
26 58 0.66
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:23586877 original size:42 final size:42
Alignment explanation
Indices: 23586818--23586905 Score: 131
Period size: 42 Copynumber: 2.1 Consensus size: 42
23586808 TAGTCTCCCC
* ** * *
23586818 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATACTG
23586860 AAATGGGCTTGCATACATCCATTGACATTACATGTGATACTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATACTG
23586902 AAAT
1 AAAT
23586906 TGGCCTAAGG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATACTG
Found at i:23586968 original size:31 final size:31
Alignment explanation
Indices: 23586933--23587009 Score: 118
Period size: 31 Copynumber: 2.5 Consensus size: 31
23586923 CATTTGCAGT
*
23586933 AAAGGCTTCGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAATGATATGACTTATGA
* *
23586964 AAAGGCTTCGGCCTAGTGATATGACTTATGA
1 AAAGGCTTCGGCCCAATGATATGACTTATGA
*
23586995 AAAGGCTTCAGCCCA
1 AAAGGCTTCGGCCCA
23587010 GTAACCGTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.26
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAATGATATGACTTATGA
Found at i:23590073 original size:41 final size:40
Alignment explanation
Indices: 23589974--23590077 Score: 109
Period size: 40 Copynumber: 2.6 Consensus size: 40
23589964 CTGTTATCAA
** *
23589974 ATCACCGGCAATTAGCCTGCTAGGTTTTAAACCTGAATTC
1 ATCACCGGCAATTAGCCTGCTAGACTTTAAACCTAAATTC
*** * *
23590014 ATCACCGGCACGAAGCCTGCTAGACTTTAAGCTTAAATTC
1 ATCACCGGCAATTAGCCTGCTAGACTTTAAACCTAAATTC
* *
23590054 ATTCACCGGCATTTTGCCTGCTAG
1 A-TCACCGGCAATTAGCCTGCTAG
23590078 GCTCGAAGCC
Statistics
Matches: 51, Mismatches: 12, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
40 33 0.65
41 18 0.35
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (40 bp):
ATCACCGGCAATTAGCCTGCTAGACTTTAAACCTAAATTC
Found at i:23590126 original size:43 final size:43
Alignment explanation
Indices: 23590055--23590216 Score: 236
Period size: 43 Copynumber: 3.8 Consensus size: 43
23590045 CTTAAATTCA
*
23590055 TTCACCGGCATT-TTGCCTGCTAGGCTCGAAGCCTGATATTAT
1 TTCACCGGCATTATAGCCTGCTAGGCTCGAAGCCTGATATTAT
* * *
23590097 TTCACCGGCATTATAGCTTGCTAGGCTCGAGGCCTGACATTAT
1 TTCACCGGCATTATAGCCTGCTAGGCTCGAAGCCTGATATTAT
* * * * *
23590140 TTCACTGGTATTATAACCTGCTAGGCTCGAGGCCCGATATTAT
1 TTCACCGGCATTATAGCCTGCTAGGCTCGAAGCCTGATATTAT
23590183 TTCACCGGCATTATAGCCTGCTAGGCTCGAAGCC
1 TTCACCGGCATTATAGCCTGCTAGGCTCGAAGCC
23590217 CGAATGGTAC
Statistics
Matches: 105, Mismatches: 14, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
42 12 0.11
43 93 0.89
ACGTcount: A:0.21, C:0.27, G:0.22, T:0.30
Consensus pattern (43 bp):
TTCACCGGCATTATAGCCTGCTAGGCTCGAAGCCTGATATTAT
Found at i:23598733 original size:30 final size:30
Alignment explanation
Indices: 23598699--23598759 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
23598689 TCCTTAACTC
23598699 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
23598729 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
23598759 A
1 A
23598760 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:23603173 original size:30 final size:30
Alignment explanation
Indices: 23603139--23603199 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
23603129 TCCTTAACTC
23603139 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
23603169 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
23603199 A
1 A
23603200 GGCTCAGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:23612955 original size:27 final size:27
Alignment explanation
Indices: 23612918--23612991 Score: 130
Period size: 27 Copynumber: 2.7 Consensus size: 27
23612908 GTCATACATA
* *
23612918 TCATAAGGGTATATCAGTCAATTTACC
1 TCATAGGGGTATAACAGTCAATTTACC
23612945 TCATAGGGGTATAACAGTCAATTTACC
1 TCATAGGGGTATAACAGTCAATTTACC
23612972 TCATAGGGGTATAACAGTCA
1 TCATAGGGGTATAACAGTCA
23612992 TTTCATCAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.30
Consensus pattern (27 bp):
TCATAGGGGTATAACAGTCAATTTACC
Found at i:23613008 original size:27 final size:27
Alignment explanation
Indices: 23612917--23612999 Score: 116
Period size: 27 Copynumber: 3.1 Consensus size: 27
23612907 AGTCATACAT
* *
23612917 ATCATAAGGGTATATCAGTCAATTTAC
1 ATCATAGGGGTATAACAGTCAATTTAC
*
23612944 CTCATAGGGGTATAACAGTCAATTTAC
1 ATCATAGGGGTATAACAGTCAATTTAC
*
23612971 CTCATAGGGGTATAACAGTC-ATTT-C
1 ATCATAGGGGTATAACAGTCAATTTAC
23612996 ATCA
1 ATCA
23613000 AATTGGGGTC
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
25 4 0.08
26 4 0.08
27 44 0.85
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (27 bp):
ATCATAGGGGTATAACAGTCAATTTAC
Found at i:23617797 original size:50 final size:50
Alignment explanation
Indices: 23617738--23617837 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
23617728 AAAAGAAGAA
23617738 AACTAAAGTGGAAACTAGAGATGTAAGGAAGAGACATGCGAGTAAATCAT
1 AACTAAAGTGGAAACTAGAGATGTAAGGAAGAGACATGCGAGTAAATCAT
23617788 AACTAAAGTGGAAACTAGAGATGTAAGGAAGAGACATGCGAGTAAATCAT
1 AACTAAAGTGGAAACTAGAGATGTAAGGAAGAGACATGCGAGTAAATCAT
23617838 TTCCAACACA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.46, C:0.10, G:0.26, T:0.18
Consensus pattern (50 bp):
AACTAAAGTGGAAACTAGAGATGTAAGGAAGAGACATGCGAGTAAATCAT
Found at i:23620414 original size:55 final size:53
Alignment explanation
Indices: 23620294--23620494 Score: 150
Period size: 53 Copynumber: 3.7 Consensus size: 53
23620284 AGGGTTTAAG
* * * * * * ** *
23620294 GATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTATAAGGCAAG
1 GATACCATGTAAGACCATGTCAAGACATGGCAATGATAA-CTACATAAGGCAAA
* * * *
23620348 GAAATCATGTAAGACAATGTCAAGACATGGCATTGATAAACTACTATAAGGCAAA
1 GATACCATGTAAGACCATGTCAAGACATGGCAATGAT-AACTAC-ATAAGGCAAA
* * ** * * * * * *
23620403 TATCCCATGTAAGACCATCCCAAGGCATGGCAATGGTGAGTTCATAAGGCAAG
1 GATACCATGTAAGACCATGTCAAGACATGGCAATGATAACTACATAAGGCAAA
* *
23620456 GATACCACGTAAGACCATGTCAAGACATGGCAATCATAA
1 GATACCATGTAAGACCATGTCAAGACATGGCAATGATAA
23620495 GTTTAAACAG
Statistics
Matches: 111, Mismatches: 34, Indels: 5
0.74 0.23 0.03
Matches are distributed among these distances:
53 39 0.35
54 34 0.31
55 38 0.34
ACGTcount: A:0.38, C:0.19, G:0.22, T:0.21
Consensus pattern (53 bp):
GATACCATGTAAGACCATGTCAAGACATGGCAATGATAACTACATAAGGCAAA
Found at i:23620471 original size:53 final size:53
Alignment explanation
Indices: 23620291--23620489 Score: 191
Period size: 55 Copynumber: 3.7 Consensus size: 53
23620281 ATTAGGGTTT
* * * *
23620291 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAG-TTCATAAGGC
* * * * * * * *
23620345 AAGGAAATCATGTAAGACAATGTCAAGACATGGCATTGATAAACTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGC
** * * * *
23620400 AAATATCCCATGTAAGACCATCCCAAGGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
* *
23620453 AAGGATACCACGTAAGACCATGTCAAGACATGGCAAT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAAT
23620490 CATAAGTTTA
Statistics
Matches: 112, Mismatches: 31, Indels: 5
0.76 0.21 0.03
Matches are distributed among these distances:
53 37 0.33
54 37 0.33
55 38 0.34
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:23628180 original size:15 final size:15
Alignment explanation
Indices: 23628160--23628190 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
23628150 GAATGTGAGC
*
23628160 AAATTAATTTTTTTT
1 AAATTAATTATTTTT
23628175 AAATTAATTATTTTT
1 AAATTAATTATTTTT
23628190 A
1 A
23628191 TGCCCCGAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
AAATTAATTATTTTT
Found at i:23631568 original size:43 final size:43
Alignment explanation
Indices: 23631464--23631611 Score: 165
Period size: 43 Copynumber: 3.4 Consensus size: 43
23631454 TATCTTAGAT
* * * *
23631464 ATGGTCTTACATGTTATCACATACCGATGCCACTGTCCCGGAC
1 ATGGTCTTACATGTAATCACATAACGATGCCAATGTCCCAGAC
* * * * *
23631507 A-GTGTCTCACACGAAATCATATAACGGTGCCAATGTCCCAGAC
1 ATG-GTCTTACATGTAATCACATAACGATGCCAATGTCCCAGAC
* *
23631550 ATGGTCTTACATGTAATCACA-ATACAATGCTAATGTCCCAGAC
1 ATGGTCTTACATGTAATCACATA-ACGATGCCAATGTCCCAGAC
23631593 ATGGTCTTACATGTAATCA
1 ATGGTCTTACATGTAATCA
23631612 TATCTCGATA
Statistics
Matches: 86, Mismatches: 16, Indels: 6
0.80 0.15 0.06
Matches are distributed among these distances:
42 2 0.02
43 83 0.97
44 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (43 bp):
ATGGTCTTACATGTAATCACATAACGATGCCAATGTCCCAGAC
Found at i:23635380 original size:28 final size:28
Alignment explanation
Indices: 23635348--23635412 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
23635338 ATTTACTAGA
*
23635348 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
23635376 ATACCTCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
23635404 ATACCCCTA
1 ATACCCCTA
23635413 GGGTTAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.34, C:0.26, G:0.08, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:23635575 original size:27 final size:27
Alignment explanation
Indices: 23635527--23635605 Score: 104
Period size: 27 Copynumber: 2.8 Consensus size: 27
23635517 CTGGTGGCTA
*
23635527 TGCCACAAATTATCTGTTCTGGTCGCCC
1 TGCCACAAA-TATCTGTTCTGGTCGCAC
* *
23635555 TGCCACATATATCTGTTCTGGTGGCAC
1 TGCCACAAATATCTGTTCTGGTCGCAC
23635582 TGCCACAAAATATCTGTATCTGGT
1 TGCCAC-AAATATCTGT-TCTGGT
23635606 GACTCTGTCA
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
27 22 0.49
28 17 0.38
29 6 0.13
ACGTcount: A:0.22, C:0.27, G:0.19, T:0.33
Consensus pattern (27 bp):
TGCCACAAATATCTGTTCTGGTCGCAC
Found at i:23635625 original size:55 final size:56
Alignment explanation
Indices: 23635517--23635631 Score: 139
Period size: 55 Copynumber: 2.1 Consensus size: 56
23635507 AGGAAGCGTC
*
23635517 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTCGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTCGCCCTGCCACATATATCTGTAT
* * *
23635572 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGT-GACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTCG-CCCTGCCACATATATCTGTAT
23635628 CTGG
1 CTGG
23635632 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
54 1 0.02
55 31 0.60
56 20 0.38
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTCGCCCTGCCACATATATCTGTAT
Found at i:23642082 original size:28 final size:28
Alignment explanation
Indices: 23642050--23642104 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
23642040 TAGAAGACCC
*
23642050 CTATGTATGCAAAATTACCATTATACCT
1 CTATGTATGCAAAATGACCATTATACCT
*
23642078 CTATGTATGCAAAATGACCTTTATACC
1 CTATGTATGCAAAATGACCATTATACC
23642105 CCTAGGGTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.35, C:0.22, G:0.09, T:0.35
Consensus pattern (28 bp):
CTATGTATGCAAAATGACCATTATACCT
Found at i:23642272 original size:27 final size:27
Alignment explanation
Indices: 23642214--23642303 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 27
23642204 AGGAAGCGTC
23642214 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
23642242 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
23642269 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
23642298 CTGGTG
1 CTGGTG
23642304 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:23642322 original size:55 final size:56
Alignment explanation
Indices: 23642214--23642328 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
23642204 AGGAAGCGTC
* *
23642214 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
23642269 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
23642325 CTGG
1 CTGG
23642329 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:23643697 original size:20 final size:20
Alignment explanation
Indices: 23643672--23643709 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
23643662 AAATTTATGT
23643672 TAAGTAAATGG-AATGGTAAG
1 TAAGTAAA-GGAAATGGTAAG
23643692 TAAGTAAAGGAAATGGTA
1 TAAGTAAAGGAAATGGTA
23643710 CACAGTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.47, C:0.00, G:0.29, T:0.24
Consensus pattern (20 bp):
TAAGTAAAGGAAATGGTAAG
Found at i:23644891 original size:20 final size:20
Alignment explanation
Indices: 23644857--23644897 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
23644847 CCCTGCAATT
*
23644857 TGAAAAATTTCATATTTTTC
1 TGAAAAATTTCATATGTTTC
23644877 TGAAAAA-TTCTATATGTTTC
1 TGAAAAATTTC-ATATGTTTC
23644897 T
1 T
23644898 AACTTAGTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 3 0.16
20 16 0.84
ACGTcount: A:0.34, C:0.10, G:0.07, T:0.49
Consensus pattern (20 bp):
TGAAAAATTTCATATGTTTC
Found at i:23646925 original size:96 final size:96
Alignment explanation
Indices: 23646752--23647073 Score: 339
Period size: 96 Copynumber: 3.4 Consensus size: 96
23646742 GGTGACATGT
* ** * *
23646752 GAGCCAGTGTAAGACCATGTTTGAAACATGGCATCGACAATGTA-ATGAGAGCTAGTGTAAGATC
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTG-AGATGAGAGCTAGTGTAAGACC
*
23646816 ATGTT-TGGAACATGGCATCGGCAATGTAATGA
65 AT-TTCTGGGACATGGCATCGGCAATGTAATGA
* * * * * * * * *
23646848 GAGTCAGTGCAAGGCCATGTCTAGGACATGGTATCGGCATTGATATGTGCGCTAGTGTAAGACCA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGATGAGAGCTAGTGTAAGACCA
*
23646913 TTTCTGGGACATGGCATCAGCCACAT-T-ATGA
66 TTTCTGGGACATGGCATC-GGCA-ATGTAATGA
* * *
23646944 GAGCCAGTGTAAGACCATGTATGGGACATGGCATCTACATTGAGATGAGAGCTAGAGTAAGACCA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGATGAGAGCTAGTGTAAGACCA
* * * * * *
23647009 TGTCTAGGACATGGCATTGGC-CTCGAAATGT
66 TTTCTGGGACATGGCATCGGCAAT-GTAATGA
23647040 GAGCCAGTGTAAGACCATGTCTGGGACATGGCAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCAT
23647074 TGGCAAATTC
Statistics
Matches: 184, Mismatches: 35, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
93 1 0.01
95 5 0.03
96 172 0.93
97 4 0.02
98 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.24
Consensus pattern (96 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGATGAGAGCTAGTGTAAGACCA
TTTCTGGGACATGGCATCGGCAATGTAATGA
Found at i:23647010 original size:144 final size:144
Alignment explanation
Indices: 23646748--23647073 Score: 383
Period size: 144 Copynumber: 2.3 Consensus size: 144
23646738 TTTGGGTGAC
** *
23646748 ATGTGAGCCAGTGTAAGACCATGTT-TGAAACATGGCATCGACAATGTAATGAGAGCTAGTGTAA
1 ATGTGAGCCAGTGTAAGACCAT-TTCTGGGACATGGCATCGACAATGTAATGAGAGCCAGTGTAA
* * * * *
23646812 GATCATGTTTGGAACATGGCATCGGCAATGTAATGAGAGTCAGTGCAAGGCCATGTCTAGGACAT
65 GACCATGTATGGAACATGGCATCGACAATGTAATGAGAGTCAGAGCAAGACCATGTCTAGGACAT
* * *
23646877 GGTATCGGCATTGAT
130 GGCATCGGCATCGAA
* * *
23646892 ATGTGCGCTAGTGTAAGACCATTTCTGGGACATGGCATCAGCCACAT-T-ATGAGAGCCAGTGTA
1 ATGTGAGCCAGTGTAAGACCATTTCTGGGACATGGCATC-GACA-ATGTAATGAGAGCCAGTGTA
* * * *
23646955 AGACCATGTATGGGACATGGCATCTACATTG-AGATGAGAG-CTAGAGTAAGACCATGTCTAGGA
64 AGACCATGTATGGAACATGGCATCGACAATGTA-ATGAGAGTC-AGAGCAAGACCATGTCTAGGA
* *
23647018 CATGGCATTGGCCTCGAA
127 CATGGCATCGGCATCGAA
*
23647036 ATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCAT
1 ATGTGAGCCAGTGTAAGACCATTTCTGGGACATGGCAT
23647074 TGGCAAATTC
Statistics
Matches: 154, Mismatches: 23, Indels: 10
0.82 0.12 0.05
Matches are distributed among these distances:
143 4 0.03
144 144 0.94
145 4 0.03
146 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (144 bp):
ATGTGAGCCAGTGTAAGACCATTTCTGGGACATGGCATCGACAATGTAATGAGAGCCAGTGTAAG
ACCATGTATGGAACATGGCATCGACAATGTAATGAGAGTCAGAGCAAGACCATGTCTAGGACATG
GCATCGGCATCGAA
Found at i:23647074 original size:48 final size:47
Alignment explanation
Indices: 23646752--23647078 Score: 278
Period size: 48 Copynumber: 6.8 Consensus size: 47
23646742 GGTGACATGT
* ** * *
23646752 GAGCCAGTGTAAGACCATGTTTGAAACATGGCATCGACAATGTAATGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ATGAAATGA
* * * * *
23646800 GAGCTAGTGTAAGATCATGTTTGGAACATGGCATCGGCAATGTAATGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ATGAAATGA
* * * * * * *
23646848 GAGTCAGTGCAAGGCCATGTCTAGGACATGGTATCGGCATTGATATGT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA-TGAAATGA
* * * * * *
23646896 GCGCTAGTGTAAGACCATTTCTGGGACATGGCATCAGCCA-CATTATGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GGCATGA-AATGA
* ** *
23646944 GAGCCAGTGTAAGACCATGTATGGGACATGGCATCTACATTGAGATGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA-TGAAATGA
* * * * * *
23646992 GAGCTAGAGTAAGACCATGTCTAGGACATGGCATTGGCCTCGAAATGT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-GAAATGA
*
23647040 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
23647079 AATTCACCCT
Statistics
Matches: 224, Mismatches: 49, Indels: 12
0.79 0.17 0.04
Matches are distributed among these distances:
47 5 0.02
48 215 0.96
49 4 0.02
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (47 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATGAAATGA
Found at i:23649089 original size:40 final size:40
Alignment explanation
Indices: 23649032--23649249 Score: 323
Period size: 40 Copynumber: 5.5 Consensus size: 40
23649022 CGGATGATAA
23649032 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
23649072 TCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
23649112 CCGGGCTAAGTCCCGAAGGAATTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
23649152 CCGAGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
23649192 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
23649232 -CTGGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
23649250 TACTTGGTTT
Statistics
Matches: 160, Mismatches: 17, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 18 0.11
40 142 0.89
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:23657157 original size:40 final size:40
Alignment explanation
Indices: 23657102--23657315 Score: 342
Period size: 40 Copynumber: 5.4 Consensus size: 40
23657092 TGATAACCGA
23657102 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
23657142 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
* *
23657182 GCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATCCAG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
* *
23657222 GTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
* *
23657262 GCTAAGTCCCAAAGGCATTTGAGCGAG-TAGCTATATCC-G
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGG
*
23657301 GCTAAATCCCGAAGG
1 GCTAAGTCCCGAAGG
23657316 TACTTGGTTT
Statistics
Matches: 161, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 16 0.10
40 145 0.90
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
Found at i:23660166 original size:22 final size:23
Alignment explanation
Indices: 23660123--23660166 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
23660113 TATTGATCAA
*
23660123 ATCACAACATATAGCATACATTT
1 ATCACAACATAAAGCATACATTT
* *
23660146 ATCA-AACATAAATCATTCATT
1 ATCACAACATAAAGCATACATT
23660167 CTCATAAATC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.45, C:0.20, G:0.02, T:0.32
Consensus pattern (23 bp):
ATCACAACATAAAGCATACATTT
Found at i:23661528 original size:48 final size:48
Alignment explanation
Indices: 23661473--23661605 Score: 162
Period size: 48 Copynumber: 2.8 Consensus size: 48
23661463 CTCAATCGAT
*
23661473 AAGTACCTATACCATGGCCCGAAACCAAATCAAGGTAACTTATCCT-CG
1 AAGTACCTATACCATGGCCCGAAACCAAATCAAGGTAACTCA-CCTCCG
* * * * *
23661521 AAGTACCTATAACATGGCTCGTAGCCAAATTAAGGTAACTCACCTCCG
1 AAGTACCTATACCATGGCCCGAAACCAAATCAAGGTAACTCACCTCCG
* *
23661569 AAATACCTATACCGTGGCCC-AAAGCCAAATCAAGGTA
1 AAGTACCTATACCATGGCCCGAAA-CCAAATCAAGGTA
23661606 TAATTCACAC
Statistics
Matches: 70, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
47 4 0.06
48 66 0.94
ACGTcount: A:0.36, C:0.28, G:0.16, T:0.20
Consensus pattern (48 bp):
AAGTACCTATACCATGGCCCGAAACCAAATCAAGGTAACTCACCTCCG
Found at i:23670369 original size:27 final size:26
Alignment explanation
Indices: 23670294--23670389 Score: 77
Period size: 27 Copynumber: 3.6 Consensus size: 26
23670284 CTATGCTACA
* *
23670294 AATATCTGTTTCTGGAGGCTAC-ACCAC
1 AATATCTG-TTCTGGTGACT-CTACCAC
* * * *
23670321 AAATATCTATTCTAGTGGCTCTACCAT
1 -AATATCTGTTCTGGTGACTCTACCAC
**
23670348 AATATCTGTGTCTGGTGACTCTGTCAC
1 AATATCTGT-TCTGGTGACTCTACCAC
23670375 AATATCTGTTCTGGT
1 AATATCTGTTCTGGT
23670390 AGCCATGCTG
Statistics
Matches: 56, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
26 15 0.27
27 34 0.61
28 7 0.12
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (26 bp):
AATATCTGTTCTGGTGACTCTACCAC
Found at i:23674232 original size:28 final size:28
Alignment explanation
Indices: 23674188--23674277 Score: 114
Period size: 28 Copynumber: 3.3 Consensus size: 28
23674178 GGAGGAAGCG
*
23674188 TTCTGGTGGCTATGCCACAAATATCTGT
1 TTCTGGTGGCTACGCCACAAATATCTGT
23674216 TTCTGGTGGCTACGCCACAAATATCTG-
1 TTCTGGTGGCTACGCCACAAATATCTGT
* *
23674243 TTCTGGTGG-TTCTGCCAC-AATATTTGT
1 TTCTGGTGGCTAC-GCCACAAATATCTGT
*
23674270 ATCTGGTG
1 TTCTGGTG
23674278 ACTCTGTTAC
Statistics
Matches: 56, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
26 9 0.16
27 21 0.38
28 26 0.46
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.37
Consensus pattern (28 bp):
TTCTGGTGGCTACGCCACAAATATCTGT
Found at i:23674259 original size:27 final size:26
Alignment explanation
Indices: 23674187--23674301 Score: 124
Period size: 27 Copynumber: 4.3 Consensus size: 26
23674177 TGGAGGAAGC
*
23674187 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
23674214 GTTTCTGGTGGCTAC-GCCACAAATATCT
1 G-TTCTGGTGGCT-CTGCCAC-AATATCT
* *
23674242 GTTCTGGTGGTTCTGCCACAATATTT
1 GTTCTGGTGGCTCTGCCACAATATCT
* **
23674268 GTATCTGGTGACTCTGTTACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
23674295 GTTCTGG
1 GTTCTGG
23674302 CAGCCATGCT
Statistics
Matches: 76, Mismatches: 8, Indels: 9
0.82 0.09 0.10
Matches are distributed among these distances:
26 14 0.18
27 37 0.49
28 25 0.33
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:23680512 original size:40 final size:39
Alignment explanation
Indices: 23680423--23680518 Score: 111
Period size: 40 Copynumber: 2.4 Consensus size: 39
23680413 ATAAATCGGT
*
23680423 ATCGCACACTTAGTGCCTTCTATAGCCGAAGCTATACCAA
1 ATCGCACACTTAGTG-CTTCTATAGCCAAAGCTATACCAA
* * * ***
23680463 CTCGTACACTTAGTGCTATTTATAGCCAAAGCTATTTTAA
1 ATCGCACACTTAGTGCT-TCTATAGCCAAAGCTATACCAA
23680503 ATCGCACACTTAGTGC
1 ATCGCACACTTAGTGC
23680519 CAATCATAGT
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
39 2 0.04
40 44 0.96
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (39 bp):
ATCGCACACTTAGTGCTTCTATAGCCAAAGCTATACCAA
Found at i:23683275 original size:20 final size:19
Alignment explanation
Indices: 23683243--23683366 Score: 79
Period size: 20 Copynumber: 6.2 Consensus size: 19
23683233 CCCCATTTGT
23683243 ACTTCAGTACCCCTGATTGC
1 ACTTCA-TACCCCTGATTGC
* *
23683263 ACTTACATGCCCCTG-TTTC
1 ACTT-CATACCCCTGATTGC
* * *
23683282 TATTTCAGTACCCCTAATTAC
1 -ACTTCA-TACCCCTGATTGC
* * *
23683303 ACTTACATGCCCCTGTTTGT
1 ACTT-CATACCCCTGATTGC
23683323 ACTTCAGTACCCCTGATTGC
1 ACTTCA-TACCCCTGATTGC
* * *
23683343 ACATCGATGCCCCTGTTTGC
1 ACTTC-ATACCCCTGATTGC
23683363 ACTT
1 ACTT
23683367 TGGTGCCCCT
Statistics
Matches: 78, Mismatches: 19, Indels: 14
0.70 0.17 0.13
Matches are distributed among these distances:
19 7 0.09
20 63 0.81
21 8 0.10
ACGTcount: A:0.19, C:0.33, G:0.13, T:0.35
Consensus pattern (19 bp):
ACTTCATACCCCTGATTGC
Found at i:23683361 original size:40 final size:40
Alignment explanation
Indices: 23683214--23683366 Score: 202
Period size: 40 Copynumber: 3.9 Consensus size: 40
23683204 GTAAATTATA
* * *
23683214 CCCTGATTGCACTTACGTTCCCC-ATTTGTACTTCAGTAC
1 CCCTGATTGCACTTACATGCCCCTGTTTGTACTTCAGTAC
* *
23683253 CCCTGATTGCACTTACATGCCCCTGTTTCTATTTCAGTAC
1 CCCTGATTGCACTTACATGCCCCTGTTTGTACTTCAGTAC
* *
23683293 CCCTAATTACACTTACATGCCCCTGTTTGTACTTCAGTAC
1 CCCTGATTGCACTTACATGCCCCTGTTTGTACTTCAGTAC
* *
23683333 CCCTGATTGCACAT-CGATGCCCCTGTTTGCACTT
1 CCCTGATTGCACTTAC-ATGCCCCTGTTTGTACTT
23683367 TGGTGCCCCT
Statistics
Matches: 99, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
39 22 0.22
40 77 0.78
ACGTcount: A:0.18, C:0.33, G:0.13, T:0.35
Consensus pattern (40 bp):
CCCTGATTGCACTTACATGCCCCTGTTTGTACTTCAGTAC
Done.