Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 147 of 214
Found at i:44018813 original size:24 final size:24
Alignment explanation
Indices: 44018786--44018837 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
44018776 AATCAAAATC
*
44018786 AAATATATTATA-TTAATAAATGCT
1 AAATATATTATACTT-ATAAATACT
44018810 AAATATATTATACTTATAAATACT
1 AAATATATTATACTTATAAATACT
44018834 AAAT
1 AAAT
44018838 CTTCTAGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 24 0.92
25 2 0.08
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (24 bp):
AAATATATTATACTTATAAATACT
Found at i:44023158 original size:24 final size:24
Alignment explanation
Indices: 44023131--44023182 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
44023121 AATCAAAGTC
* *
44023131 AAATATATTAT-GTTAATAAATGCT
1 AAATATATTATACTT-ATAAATACT
44023155 AAATATATTATACTTATAAATACT
1 AAATATATTATACTTATAAATACT
44023179 AAAT
1 AAAT
44023183 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 23 0.92
25 2 0.08
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (24 bp):
AAATATATTATACTTATAAATACT
Found at i:44025376 original size:25 final size:26
Alignment explanation
Indices: 44025327--44025383 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
44025317 ACCCTTTAAA
*
44025327 GTATATATTAAAATATGCACATATAT
1 GTATATATAAAAATATGCACATATAT
***
44025353 -TATATATAAAAATATGCGTGTATAT
1 GTATATATAAAAATATGCACATATAT
44025378 GTATAT
1 GTATAT
44025384 CAAATACAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 21 0.81
26 5 0.19
ACGTcount: A:0.44, C:0.05, G:0.11, T:0.40
Consensus pattern (26 bp):
GTATATATAAAAATATGCACATATAT
Found at i:44027302 original size:43 final size:43
Alignment explanation
Indices: 44027247--44027402 Score: 171
Period size: 43 Copynumber: 3.7 Consensus size: 43
44027237 AACTCATACA
* *
44027247 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCATATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCAAATATCG
*
44027290 ATGCC-ACTGTCCCAGACAG-GGTCTTACACG-AATAAAATA-CG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAATCAAATATCG
* * * *
44027331 ATGCCAATGTCCCAGACATGGTCTTTCACGT--TCACATAAGTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCAAAT-A-TCG
44027374 ATGCCAACGTCCCAGACGTGGTCTTACAC
1 ATGCCAACGTCCCAGACGTGGTCTTACAC
44027403 AAAAACACAG
Statistics
Matches: 94, Mismatches: 11, Indels: 16
0.78 0.09 0.13
Matches are distributed among these distances:
40 4 0.04
41 27 0.29
42 10 0.11
43 52 0.55
44 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCAAATATCG
Found at i:44027388 original size:84 final size:84
Alignment explanation
Indices: 44027242--44027402 Score: 204
Period size: 84 Copynumber: 1.9 Consensus size: 84
44027232 TCGGAAACTC
* *
44027242 ATACAATGCCAACGTCCCAGACGTGGTCTTACATGTAATCATATATCGATGCCACTGTCCCAGAC
1 ATACAATGCCAACGTCCCAGACATGGTCTTACACGTAATCATATATCGATGCCACTGTCCCAGAC
44027307 AG-GGTCTTACACGAATAAA
66 -GTGGTCTTACACGAATAAA
* * * *
44027326 ATACGATGCCAATGTCCCAGACATGGTCTTTCACGT--TCACATAAGTCGATGCCAAC-GTCCCA
1 ATACAATGCCAACGTCCCAGACATGGTCTTACACGTAATCATAT-A-TCGATGCC-ACTGTCCCA
44027388 GACGTGGTCTTACAC
63 GACGTGGTCTTACAC
44027403 AAAAACACAG
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
82 5 0.07
83 2 0.03
84 58 0.87
85 2 0.03
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (84 bp):
ATACAATGCCAACGTCCCAGACATGGTCTTACACGTAATCATATATCGATGCCACTGTCCCAGAC
GTGGTCTTACACGAATAAA
Found at i:44028574 original size:14 final size:15
Alignment explanation
Indices: 44028555--44028583 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
44028545 TCACGAAACT
44028555 TTCACACAT-ATAAA
1 TTCACACATAATAAA
44028569 TTCACACATAATAAA
1 TTCACACATAATAAA
44028584 CACAGAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:44036896 original size:18 final size:17
Alignment explanation
Indices: 44036863--44036901 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
44036853 TTGTATAAAT
44036863 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
44036881 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
44036898 TGTG
1 TGTG
44036902 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:44037033 original size:8 final size:8
Alignment explanation
Indices: 44037020--44037048 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
44037010 CACTAGAGAC
44037020 CAGTGTTA
1 CAGTGTTA
44037028 CAGTGTTA
1 CAGTGTTA
44037036 CAGTGTTA
1 CAGTGTTA
44037044 CAGTG
1 CAGTG
44037049 AGTCCCGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (8 bp):
CAGTGTTA
Found at i:44037162 original size:23 final size:23
Alignment explanation
Indices: 44037135--44037207 Score: 121
Period size: 23 Copynumber: 3.2 Consensus size: 23
44037125 AGTGTTATTG
44037135 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
44037158 TTCAGTGGTAGCTAT-GGCTACAT
1 ATCAGTGGTAGCT-TCGGCTACAT
44037181 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
44037204 ATCA
1 ATCA
44037208 ATGTGGCACT
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
22 1 0.02
23 44 0.96
24 1 0.02
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:44038826 original size:20 final size:20
Alignment explanation
Indices: 44038778--44038818 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
44038768 ATAAATATGC
*
44038778 AAATATATATATAAAATGTTT
1 AAAT-TATATATAAAATGTAT
44038799 AAATTATATAT-AAATGTAT
1 AAATTATATATAAAATGTAT
44038818 A
1 A
44038819 TATTTATAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
20 7 0.37
21 4 0.21
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (20 bp):
AAATTATATATAAAATGTAT
Found at i:44038892 original size:26 final size:27
Alignment explanation
Indices: 44038863--44038916 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 27
44038853 ATACATATAT
* *
44038863 TATAGGAAACATATGTATA-TATAAAA
1 TATAGAAAACATATATATATTATAAAA
**
44038889 TATAGAAAATGTATATATATTATAAAA
1 TATAGAAAACATATATATATTATAAAA
44038916 T
1 T
44038917 GTATATGCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
26 15 0.65
27 8 0.35
ACGTcount: A:0.54, C:0.02, G:0.09, T:0.35
Consensus pattern (27 bp):
TATAGAAAACATATATATATTATAAAA
Found at i:44039067 original size:3 final size:3
Alignment explanation
Indices: 44039059--44039090 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
44039049 TACGTATAGA
44039059 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
44039091 ATAGTGATAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:44042073 original size:14 final size:14
Alignment explanation
Indices: 44042019--44042075 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 14
44042009 AATGGTCAAA
44042019 TTATAGTTTTAATCCTT
1 TTATA-TTTTAAT-C-T
44042036 TTATATTTTCAA-CT
1 TTATATTTT-AATCT
* *
44042050 TTAAAATTTAATCT
1 TTATATTTTAATCT
44042064 TTATATTTTAAT
1 TTATATTTTAAT
44042076 TTTTGACAGA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
13 2 0.06
14 20 0.59
15 1 0.03
16 4 0.12
17 7 0.21
ACGTcount: A:0.32, C:0.09, G:0.02, T:0.58
Consensus pattern (14 bp):
TTATATTTTAATCT
Found at i:44044959 original size:20 final size:20
Alignment explanation
Indices: 44044934--44044973 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
44044924 CTTAATTAGT
*
44044934 TTATAAAATTTAA-AAAAGGA
1 TTAT-AAATGTAACAAAAGGA
44044954 TTATAAATGTAACAAAAGGA
1 TTATAAATGTAACAAAAGGA
44044974 AATTTAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.57, C:0.03, G:0.12, T:0.28
Consensus pattern (20 bp):
TTATAAATGTAACAAAAGGA
Found at i:44045286 original size:5 final size:5
Alignment explanation
Indices: 44045276--44045304 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
44045266 AAAAAATGAA
44045276 AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
44045305 TAAATAAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:44046949 original size:167 final size:164
Alignment explanation
Indices: 44046459--44047022 Score: 631
Period size: 167 Copynumber: 3.4 Consensus size: 164
44046449 AGTTCGTTGG
* * *
44046459 TTTGTAATTCTCGAATTGAATTTATGTTTGTTACAGATTGGATTTAGATTATTTTTTACATGTT-
1 TTTGTATTTCTCGAATTGAATTTATGTTTGTTACAGATTGGATTTAGATTCTTTTTT--GTGTTG
*
44046523 ACTCTGCTCAGAAATTGTTGTGTCAAATCATTTTGAA---T---TATTCGA-GTAGAGTCATCTG
64 A-TCTGCTCAGAAA-T-TTGTGTCAAAT-ATTTTGAATTTTGAATATTC-ACGTAGTGTCATCTG
* *
44046581 ATCTAAATCTCGGAA--G-TGAGCTCGTTGGTTTGCTCAGA
124 ATCTAAATCTCAGAAGCGATGAGCTTGTTGGTTTGCTCAGA
*
44046619 TTTGTATTTTTCGAATTGAATTTATGTTTGTTACAGATTGGATTTAGATTATCTTCTTTTG-GTT
1 TTTGTATTTCTCGAATTGAATTTATGTTTGTTACAGATTGGATTTAGA-T-TCTT-TTTTGTGTT
* *
44046683 GATCTGCTCAGAAATTGTCGTGTCAAATCTTTTGAATTTTGAATTATTCGCGTAGTGTCATCTGA
63 GATCTGCTCAGAAATT-T-GTGTCAAATATTTTGAATTTTGAA-TATTCACGTAGTGTCATCTGA
* * *
44046748 TCTAATTCTCAGAAGCGTAGTGAG-TTCCTTGGTTTGCTCGGA
125 TCTAAATCTCAGAAGCG-A-TGAGCTT-GTTGGTTTGCTCAGA
* * * *
44046790 TTTGTATTTCTCTATTTGAATTTATGTTTGTTACGGATTGGATTTAGCTTCTTTTTATGTGTTGA
1 TTTGTATTTCTCGAATTGAATTTATGTTTGTTACAGATTGGATTTAGATTCTTTTT-TGTGTTGA
44046855 TCTGCTCAGAAA-TTGTGTCAAATATTTTGAATTTTGAACTATTCACGTAGTGTCATCTGATC-A
65 TCTGCTCAGAAATTTGTGTCAAATATTTTGAATTTTGAA-TATTCACGTAGTGTCATCTGATCTA
44046918 GAATCTCAGAAGCGACTTGAGCTTGTTGGTTTGCTCAGA
129 -AATCTCAGAAGCGA--TGAGCTTGTTGGTTTGCTCAGA
* * * **
44046957 TTTGTATATCTCGAAATGAATTTATGTTTGTTACAGATTGGACTT-GGGT-TTTTTTGTGTTGAT
1 TTTGTATTTCTCGAATTGAATTTATGTTTGTTACAGATTGGATTTAGATTCTTTTTTGTGTTGAT
44047020 CTG
66 CTG
44047023 GTCAATTCTG
Statistics
Matches: 347, Mismatches: 32, Indels: 46
0.82 0.08 0.11
Matches are distributed among these distances:
158 1 0.00
159 9 0.03
160 70 0.20
161 2 0.01
162 4 0.01
163 4 0.01
164 12 0.03
165 5 0.01
166 34 0.10
167 113 0.33
168 7 0.02
169 7 0.02
170 19 0.05
171 60 0.17
ACGTcount: A:0.23, C:0.12, G:0.20, T:0.45
Consensus pattern (164 bp):
TTTGTATTTCTCGAATTGAATTTATGTTTGTTACAGATTGGATTTAGATTCTTTTTTGTGTTGAT
CTGCTCAGAAATTTGTGTCAAATATTTTGAATTTTGAATATTCACGTAGTGTCATCTGATCTAAA
TCTCAGAAGCGATGAGCTTGTTGGTTTGCTCAGA
Found at i:44049323 original size:18 final size:18
Alignment explanation
Indices: 44049291--44049345 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 18
44049281 ATTTAATATT
**
44049291 ATAATTTTATTTTTTATA
1 ATAATTTTAAATTTTATA
44049309 ATAATTTTAAATTTTA-A
1 ATAATTTTAAATTTTATA
44049326 ATAATATTTTAATATTTTAT
1 AT-A-ATTTTAA-ATTTTAT
44049346 TAAAAATATT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
17 3 0.10
18 15 0.48
19 7 0.23
20 6 0.19
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
ATAATTTTAAATTTTATA
Found at i:44049329 original size:20 final size:20
Alignment explanation
Indices: 44049306--44049361 Score: 69
Period size: 22 Copynumber: 2.7 Consensus size: 20
44049296 TTTATTTTTT
44049306 ATAATAATTTTAA-ATTTTAA
1 ATAAT-ATTTTAATATTTTAA
44049326 ATAATATTTTAATATTTTATTA
1 ATAATATTTTAATATTTTA--A
*
44049348 AAAATATTTTAATA
1 ATAATATTTTAATA
44049362 ATAAATATGT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 7 0.22
20 11 0.34
22 14 0.44
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
ATAATATTTTAATATTTTAA
Found at i:44049355 original size:14 final size:15
Alignment explanation
Indices: 44049336--44049369 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
44049326 ATAATATTTT
*
44049336 AATATTTTATTAA-A
1 AATATTTTAATAATA
44049350 AATATTTTAATAATA
1 AATATTTTAATAATA
44049365 AATAT
1 AATAT
44049370 GTAGCTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:44054435 original size:21 final size:21
Alignment explanation
Indices: 44054411--44054453 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
44054401 CTTTTTTTTG
44054411 AAGTTAAAA-GTCAAAACCATT
1 AAGTTAAAAGGT-AAAACCATT
44054432 AAGTTAAAAGGTAAAACCATT
1 AAGTTAAAAGGTAAAACCATT
44054453 A
1 A
44054454 TATTGTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.53, C:0.12, G:0.12, T:0.23
Consensus pattern (21 bp):
AAGTTAAAAGGTAAAACCATT
Found at i:44055946 original size:26 final size:26
Alignment explanation
Indices: 44055916--44055965 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
44055906 TGTTATATGA
*
44055916 TTTCTTCGT-TACTTTTGTTTTGTTTT
1 TTTCTTCATCTAC-TTTGTTTTGTTTT
*
44055942 TTTCTTCATCTTCTTTGTTTTGTT
1 TTTCTTCATCTACTTTGTTTTGTT
44055966 CGAATTATCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 19 0.90
27 2 0.10
ACGTcount: A:0.04, C:0.14, G:0.10, T:0.72
Consensus pattern (26 bp):
TTTCTTCATCTACTTTGTTTTGTTTT
Found at i:44067501 original size:24 final size:25
Alignment explanation
Indices: 44067459--44067507 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
44067449 CGATGGAGGA
*
44067459 CTTTCATATACTTCTTTTT-TTTTT
1 CTTTCATATAATTCTTTTTGTTTTT
44067483 CTTTCATATAATT-TATTTTGTTTTT
1 CTTTCATATAATTCT-TTTTGTTTTT
44067508 ACAAATGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 1 0.05
24 16 0.73
25 5 0.23
ACGTcount: A:0.16, C:0.12, G:0.02, T:0.69
Consensus pattern (25 bp):
CTTTCATATAATTCTTTTTGTTTTT
Found at i:44084809 original size:6 final size:6
Alignment explanation
Indices: 44084798--44084823 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
44084788 GGTTATTGGT
44084798 TTAGGG TTAGGG TTAGGG TTAGGG TT
1 TTAGGG TTAGGG TTAGGG TTAGGG TT
44084824 TTGGTGTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.46, T:0.38
Consensus pattern (6 bp):
TTAGGG
Found at i:44085045 original size:94 final size:93
Alignment explanation
Indices: 44084947--44085263 Score: 376
Period size: 95 Copynumber: 3.4 Consensus size: 93
44084937 TGTTTATTAT
*
44084947 TTTTTAAGAAAAAAAT-AATTAAATTAGGGTTTAGGGTTACTTGAGTAATTTAATTAAAAATTTT
1 TTTTTAAGAAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAATTTAATTAAAAA-TTT
*
44085011 AAAAATCAGATTAGGATTTAGAGTTAAGGG
65 -AAAATCAAATTAGGATTTAGAGTTAAGGG
*
44085041 TTTTTAAG-GAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAATTTAATTAAAAAAAAT
1 TTTTTAAGAAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAATTTAATT---AAAAAT
* *
44085105 TGAAAATCATATTAGGATTTAGAGTTAAGGG
63 TTAAAATCAAATTAGGATTTAGAGTTAAGGG
** * * * * *
44085136 TTTTT-TTAAAAAAATTAAATAAATTAGAGTTCAGGGTTACTTGAGTAAATTAATTATAAATTTA
1 TTTTTAAGAAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAATTTAATTAAAAATTTA
* * * *
44085200 TAAT-AAATTA-G-TTTAGGGTTTATGG
66 AAATCAAATTAGGATTTAGAGTTAAGGG
* * *
44085225 TTTTTAAGTAAAAACTCAAATAAATTAGGGTTTGGGGTT
1 TTTTTAAGAAAAAAATCAAATAAATTAGGGTTTAGGGTT
44085264 TACGGTTACT
Statistics
Matches: 191, Mismatches: 26, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
89 16 0.08
90 26 0.14
91 5 0.03
92 10 0.05
93 6 0.03
94 46 0.24
95 75 0.39
96 2 0.01
97 5 0.03
ACGTcount: A:0.41, C:0.03, G:0.18, T:0.38
Consensus pattern (93 bp):
TTTTTAAGAAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAATTTAATTAAAAATTTA
AAATCAAATTAGGATTTAGAGTTAAGGG
Found at i:44085525 original size:126 final size:126
Alignment explanation
Indices: 44085300--44085723 Score: 663
Period size: 126 Copynumber: 3.4 Consensus size: 126
44085290 TAATTTAAAG
* * * * *
44085300 AAGCTCCCATGTGGACGCGCTTTTGCTACAGTGGCTCCTCAGAAAATAATTTCAAGTAGACGTTT
1 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGTTT
44085365 CTGAGCAAACAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTGAAAA
66 CTGAGCAAACAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTGAAAA
* * * *
44085426 AAGCTCCCACGTGGATGCGTTTTTGCTACAGTAGCTACTGAAAAAATAATTTCGAGTAGACATTT
1 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGTTT
* *
44085491 CTGAGCAAACAGTGTCAAAAAAGCTTTAAGCAGGATGCTTTGTCAGCAGAGGTACTGAAAA
66 CTGAGCAAACAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTGAAAA
*
44085552 AAGCTTCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGTTT
1 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGTTT
*
44085617 CTGAGCAAACAGTGTCAAAAACGCTTTAAGCAGGATGCTTTATCAGCAGAAGTACT-AAAA
66 CTGAGCAAACAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTGAAAA
* * * *
44085677 GAAACTCCCATGTGGACGC-CTTTTTGCTACAGTAACTCCTAAAAAAA
1 -AAGCTCCCACGTGGACGCGC-TTTTGCTACAGTAGCTCCTGAAAAAA
44085724 GCTCTCACGT
Statistics
Matches: 272, Mismatches: 24, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
125 5 0.02
126 267 0.98
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (126 bp):
AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGTTT
CTGAGCAAACAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTGAAAA
Found at i:44089305 original size:18 final size:18
Alignment explanation
Indices: 44089279--44089321 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
44089269 GATTCGAAAA
* *
44089279 AGGAAACATATAAGGGCT
1 AGGATACATAAAAGGGCT
*
44089297 AGGATACATAAAATGGCT
1 AGGATACATAAAAGGGCT
44089315 AGGATAC
1 AGGATAC
44089322 GCACCTCACA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.12, G:0.26, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:44095889 original size:23 final size:23
Alignment explanation
Indices: 44095863--44095906 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
44095853 ACGAGATCGG
*
44095863 GGACGTGGCGCGTACGGAGGCAC
1 GGACGTGGCACGTACGGAGGCAC
44095886 GGACGTGGCACGTACGGAGGC
1 GGACGTGGCACGTACGGAGGC
44095907 GTGCGGTGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.18, C:0.25, G:0.48, T:0.09
Consensus pattern (23 bp):
GGACGTGGCACGTACGGAGGCAC
Found at i:44097760 original size:20 final size:20
Alignment explanation
Indices: 44097737--44097800 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
44097727 TTTTCCCCAA
44097737 AAGTTCTCCAATTTCCTCTC
1 AAGTTCTCCAATTTCCTCTC
* * *
44097757 AAGTTGCTACCCA---CTTCTA
1 AAGTT-CT-CCAATTTCCTCTC
44097776 AAGTTCTCCAATTTCCTCTC
1 AAGTTCTCCAATTTCCTCTC
44097796 AAGTT
1 AAGTT
44097801 GCTACCCACT
Statistics
Matches: 33, Mismatches: 6, Indels: 10
0.67 0.12 0.20
Matches are distributed among these distances:
17 3 0.09
18 2 0.06
19 9 0.27
20 14 0.42
21 2 0.06
22 3 0.09
ACGTcount: A:0.23, C:0.31, G:0.08, T:0.38
Consensus pattern (20 bp):
AAGTTCTCCAATTTCCTCTC
Found at i:44097790 original size:39 final size:39
Alignment explanation
Indices: 44097736--44097831 Score: 192
Period size: 39 Copynumber: 2.5 Consensus size: 39
44097726 GTTTTCCCCA
44097736 AAAGTTCTCCAATTTCCTCTCAAGTTGCTACCCACTTCT
1 AAAGTTCTCCAATTTCCTCTCAAGTTGCTACCCACTTCT
44097775 AAAGTTCTCCAATTTCCTCTCAAGTTGCTACCCACTTCT
1 AAAGTTCTCCAATTTCCTCTCAAGTTGCTACCCACTTCT
44097814 AAAGTTCTCCAATTTCCT
1 AAAGTTCTCCAATTTCCT
44097832 ATCATTATTT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 57 1.00
ACGTcount: A:0.24, C:0.32, G:0.07, T:0.36
Consensus pattern (39 bp):
AAAGTTCTCCAATTTCCTCTCAAGTTGCTACCCACTTCT
Found at i:44101233 original size:40 final size:41
Alignment explanation
Indices: 44101189--44101279 Score: 139
Period size: 40 Copynumber: 2.2 Consensus size: 41
44101179 GGCTTAGCAC
*
44101189 CTAGCAGGCTTATTGCCAGTGAAACAATTCAGACT-TATGT
1 CTAGCAGGCTTAATGCCAGTGAAACAATTCAGACTATATGT
* *
44101229 CTAGCAGGCTTAATGCCGGTGAAACATTTCAGACTATATGT
1 CTAGCAGGCTTAATGCCAGTGAAACAATTCAGACTATATGT
*
44101270 CTGGCAGGCT
1 CTAGCAGGCT
44101280 AAGTGTCGAT
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
40 32 0.70
41 14 0.30
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (41 bp):
CTAGCAGGCTTAATGCCAGTGAAACAATTCAGACTATATGT
Found at i:44103734 original size:12 final size:12
Alignment explanation
Indices: 44103703--44103736 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
44103693 CATCACTTAA
*
44103703 TTTTATAAACGT
1 TTTTATATACGT
*
44103715 TTTTATATATGT
1 TTTTATATACGT
44103727 TTTTATATAC
1 TTTTATATAC
44103737 TATCTTAGCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.59
Consensus pattern (12 bp):
TTTTATATACGT
Found at i:44106398 original size:72 final size:72
Alignment explanation
Indices: 44106280--44106618 Score: 371
Period size: 72 Copynumber: 4.7 Consensus size: 72
44106270 ATTTAATGAC
* * * * * * *
44106280 CGATGGCATGAGATCCGACATATGTTGTGAATTCTCTCAAGTTTGTGTGAGCAGAATAGAATCTT
1 CGATGGCTTGAGATCCGACATATGTTGCGGATTCTCTAAAGTTTGTGTGAGCAGCATCGAATCAT
44106345 TCTTTA-
66 TCTTTAT
* * * * * * *
44106351 CTGATGGATTGAGATCGGACATATGTTGCAGATTCTTTAAAGCTTGTGTGAGAAGCATCGAACCA
1 C-GATGGCTTGAGATCCGACATATGTTGCGGATTCTCTAAAGTTTGTGTGAGCAGCATCGAATCA
44106416 TTCTTTAT
65 TTCTTTAT
** * * * *
44106424 CGATGGCTTGAGATTTGGCATATGTTGC--ATTCTCTGAAGTTTGTGTGAGCATCATGGAATCAT
1 CGATGGCTTGAGATCCGACATATGTTGCGGATTCTCTAAAGTTTGTGTGAGCAGCATCGAATCAT
44106487 TCTTTAT
66 TCTTTAT
* * *
44106494 CTG-TGGCTTGAGATTCAACATATGTTGCGGATTCTCTGAAGTTTGTGTGAGCAGCATCGAATCA
1 C-GATGGCTTGAGATCCGACATATGTTGCGGATTCTCTAAAGTTTGTGTGAGCAGCATCGAATCA
44106558 TTCTTTAT
65 TTCTTTAT
* * * ** *
44106566 CGGTGGCTTGAGATCCAACACATGTTATGGATTCTCTAAAGCTTGTGTGAGCA
1 CGATGGCTTGAGATCCGACATATGTTGCGGATTCTCTAAAGTTTGTGTGAGCA
44106619 ACACCCAATA
Statistics
Matches: 226, Mismatches: 36, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
70 58 0.26
71 3 0.01
72 164 0.73
73 1 0.00
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (72 bp):
CGATGGCTTGAGATCCGACATATGTTGCGGATTCTCTAAAGTTTGTGTGAGCAGCATCGAATCAT
TCTTTAT
Found at i:44106591 original size:142 final size:144
Alignment explanation
Indices: 44106280--44106618 Score: 407
Period size: 142 Copynumber: 2.4 Consensus size: 144
44106270 ATTTAATGAC
* * * *
44106280 CGATGGCATGAGATCCGACATATGTTGTGAATTCTCTCAAGTTTGTGTGAGCAGAATAGAATCTT
1 CGATGGCTTGAGATCCGACATATGTTATGAATTCTCTAAAGTTTGTGTGAGCAGAATAGAATCAT
* *
44106345 TCTTTACTGATGGATTGAGATCGGACATATGTTGCAGATTCTTTAAAGCTTGTGTGAGAAGCATC
66 TCTTTACTGATGGATTGAGATCGAACATATGTTGCAGATTCTCTAAAGCTTGTGTGAGAAGCATC
44106410 GAACCATTCTTTAT
131 GAACCATTCTTTAT
** * * * ** *
44106424 CGATGGCTTGAGATTTGGCATATG-T-TGCATTCTCTGAAGTTTGTGTGAGCATCATGGAATCAT
1 CGATGGCTTGAGATCCGACATATGTTATGAATTCTCTAAAGTTTGTGTGAGCAGAATAGAATCAT
* * * * *
44106487 TCTTTATCTG-TGGCTTGAGATTC-AACATATGTTGCGGATTCTCTGAAGTTTGTGTGAGCAGCA
66 TCTTTA-CTGATGGATTGAGA-TCGAACATATGTTGCAGATTCTCTAAAGCTTGTGTGAGAAGCA
*
44106550 TCGAATCATTCTTTAT
129 TCGAACCATTCTTTAT
* * * * *
44106566 CGGTGGCTTGAGATCCAACACATGTTATGGATTCTCTAAAGCTTGTGTGAGCA
1 CGATGGCTTGAGATCCGACATATGTTATGAATTCTCTAAAGTTTGTGTGAGCA
44106619 ACACCCAATA
Statistics
Matches: 164, Mismatches: 27, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
142 114 0.70
143 7 0.04
144 43 0.26
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (144 bp):
CGATGGCTTGAGATCCGACATATGTTATGAATTCTCTAAAGTTTGTGTGAGCAGAATAGAATCAT
TCTTTACTGATGGATTGAGATCGAACATATGTTGCAGATTCTCTAAAGCTTGTGTGAGAAGCATC
GAACCATTCTTTAT
Found at i:44115005 original size:9 final size:9
Alignment explanation
Indices: 44114991--44115027 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
44114981 TATAGTTTGA
44114991 TATTCGAAT
1 TATTCGAAT
44115000 TATTCGAAT
1 TATTCGAAT
*
44115009 TATTCGAGT
1 TATTCGAAT
44115018 TATTCGAAT
1 TATTCGAAT
44115027 T
1 T
44115028 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:44119617 original size:12 final size:12
Alignment explanation
Indices: 44119600--44119627 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
44119590 TCTAAATAAC
44119600 ATTAAACCAACA
1 ATTAAACCAACA
44119612 ATTAAACCAACA
1 ATTAAACCAACA
44119624 ATTA
1 ATTA
44119628 TACATACACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.57, C:0.21, G:0.00, T:0.21
Consensus pattern (12 bp):
ATTAAACCAACA
Found at i:44119688 original size:51 final size:51
Alignment explanation
Indices: 44119612--44119726 Score: 205
Period size: 51 Copynumber: 2.3 Consensus size: 51
44119602 TAAACCAACA
44119612 ATTAAACCAACAATTATACATACACCAACAATGTTTTTTAGGGTA-AATAAC
1 ATTAAACCAACAATTATACATACACCAACAATGTTTTTTAGGG-ACAATAAC
*
44119663 ATTAAACCAACAATTATACGTACACCAACAATGTTTTTTAGGGACAATAAC
1 ATTAAACCAACAATTATACATACACCAACAATGTTTTTTAGGGACAATAAC
44119714 ATTAAACCAACAA
1 ATTAAACCAACAA
44119727 GTAATTTTAG
Statistics
Matches: 62, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
50 1 0.02
51 61 0.98
ACGTcount: A:0.46, C:0.19, G:0.08, T:0.27
Consensus pattern (51 bp):
ATTAAACCAACAATTATACATACACCAACAATGTTTTTTAGGGACAATAAC
Found at i:44119735 original size:33 final size:34
Alignment explanation
Indices: 44119672--44119782 Score: 106
Period size: 33 Copynumber: 3.4 Consensus size: 34
44119662 CATTAAACCA
* * *
44119672 ACAATTATACGTACACCAACAATGT-TTTTTAGGG
1 ACAATTATACATAAACCAACAA-GTAATTTTAGGG
44119706 ACAA-TA-ACATTAAACCAACAAGTAATTTTA-GG
1 ACAATTATACA-TAAACCAACAAGTAATTTTAGGG
* * *
44119738 TCAATTATACATACACCAACAATTAATTTTA-GG
1 ACAATTATACATAAACCAACAAGTAATTTTAGGG
*
44119771 TCAATTATACAT
1 ACAATTATACAT
44119783 GCTTTATAAT
Statistics
Matches: 67, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
32 9 0.13
33 51 0.76
34 7 0.10
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.32
Consensus pattern (34 bp):
ACAATTATACATAAACCAACAAGTAATTTTAGGG
Found at i:44123004 original size:120 final size:120
Alignment explanation
Indices: 44122807--44123189 Score: 730
Period size: 120 Copynumber: 3.2 Consensus size: 120
44122797 TTTTCAAGTT
44122807 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
* *
44122872 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
44122927 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
44122992 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
*
44123047 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
44123112 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
*
44123167 ATATATTCAATAATAATTATGTT
1 ATATATTTAATAATAATTATGTT
44123190 TAAATATGAT
Statistics
Matches: 259, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 259 1.00
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (120 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
Found at i:44123046 original size:18 final size:17
Alignment explanation
Indices: 44123018--44123052 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
44123008 ATTATTAAGA
*
44123018 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
44123035 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
44123053 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:44123166 original size:18 final size:17
Alignment explanation
Indices: 44123138--44123172 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
44123128 ATTATTAAGA
*
44123138 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
44123155 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
44123173 TCAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:44123386 original size:44 final size:45
Alignment explanation
Indices: 44123337--44123427 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
44123327 ACCTCTATTC
* * *
44123337 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
44123381 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
44123426 CA
1 CA
44123428 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:44123429 original size:16 final size:16
Alignment explanation
Indices: 44123408--44123476 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
44123398 GATTAGCTAT
44123408 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
44123424 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
44123441 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
44123457 TACGCCTCTAATCCAA
1 TACACCTCTAATCCAA
44123473 TACA
1 TACA
44123477 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:44123450 original size:33 final size:32
Alignment explanation
Indices: 44123408--44123476 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
44123398 GATTAGCTAT
44123408 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
*
44123441 TACACCTCTAATCCAATACGCCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
44123473 TACA
1 TACA
44123477 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 8 0.23
33 27 0.77
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:44124446 original size:17 final size:16
Alignment explanation
Indices: 44124424--44124456 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
44124414 ACATGAATAC
44124424 TATAAAAATTTATAAAT
1 TATAAAAATTT-TAAAT
44124441 TATAAAAATTTTAAAT
1 TATAAAAATTTTAAAT
44124457 AGATATAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TATAAAAATTTTAAAT
Found at i:44131509 original size:30 final size:30
Alignment explanation
Indices: 44131473--44131535 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
44131463 ACTTATTTTA
44131473 TTGTTAATTTTATTATTATTTTAAAGACAT
1 TTGTTAATTTTATTATTATTTTAAAGACAT
* *
44131503 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTATTATTATTTTAAAGACAT
44131533 TTG
1 TTG
44131536 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.29, C:0.03, G:0.11, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTATTATTATTTTAAAGACAT
Found at i:44132728 original size:30 final size:28
Alignment explanation
Indices: 44132657--44132730 Score: 76
Period size: 30 Copynumber: 2.5 Consensus size: 28
44132647 TTATTAGAAT
44132657 TAAAATGTAATTTTATCATTTTAATAAC
1 TAAAATGTAATTTTATCATTTTAATAAC
* ** * *
44132685 TTAAATCAAAATTTTATCAATTTTGGATAGC
1 TAAAAT-GTAATTTTATC-ATTTT-AATAAC
44132716 TAAAATGTAATTTTA
1 TAAAATGTAATTTTA
44132731 CCATGTACTA
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
28 5 0.14
29 9 0.26
30 12 0.34
31 9 0.26
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.45
Consensus pattern (28 bp):
TAAAATGTAATTTTATCATTTTAATAAC
Found at i:44133939 original size:16 final size:16
Alignment explanation
Indices: 44133901--44133943 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
44133891 TATATCATCT
44133901 TTATTAA-AAAAATTA
1 TTATTAATAAAAATTA
44133916 --ATTAAATAAAAATTA
1 TTATT-AATAAAAATTA
44133931 TTATTAATAAAAA
1 TTATTAATAAAAA
44133944 ATTTAAACTC
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
13 3 0.12
14 2 0.08
15 8 0.33
16 8 0.33
17 3 0.12
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
TTATTAATAAAAATTA
Found at i:44136834 original size:24 final size:24
Alignment explanation
Indices: 44136802--44136872 Score: 88
Period size: 24 Copynumber: 3.0 Consensus size: 24
44136792 AAGGGTTTAC
*
44136802 AAGAAGATGAAAAGTTAAAGGTTA
1 AAGAAGATGAAAAGTGAAAGGTTA
* *
44136826 AAGAAGATGAAATGTGGAAGGTTA
1 AAGAAGATGAAAAGTGAAAGGTTA
* * *
44136850 AGGGAGATGAAAGGTGAAAGGTT
1 AAGAAGATGAAAAGTGAAAGGTT
44136873 GAATATCCAC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.46, C:0.00, G:0.34, T:0.20
Consensus pattern (24 bp):
AAGAAGATGAAAAGTGAAAGGTTA
Found at i:44151842 original size:3 final size:3
Alignment explanation
Indices: 44151834--44151858 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
44151824 GAATATGTCC
44151834 ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG A
44151859 CAGCTTGTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:44155359 original size:31 final size:31
Alignment explanation
Indices: 44155298--44155361 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
44155288 CTTAAGAGCC
* *
44155298 CAGTGACTTAAACAAAAACTTTTGAATAATT
1 CAGTAACTTAAACAAAAACTTTTCAATAATT
**
44155329 CAGTAACTTAAATGAAAAC-TTTCAATTAATT
1 CAGTAACTTAAACAAAAACTTTTCAA-TAATT
44155360 CA
1 CA
44155362 ATGACCATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 5 0.18
31 23 0.82
ACGTcount: A:0.45, C:0.14, G:0.08, T:0.33
Consensus pattern (31 bp):
CAGTAACTTAAACAAAAACTTTTCAATAATT
Found at i:44162235 original size:34 final size:35
Alignment explanation
Indices: 44162180--44162246 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
44162170 CAAACACCAG
*
44162180 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
44162215 AAAACATTTTCCCG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
44162247 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.45, C:0.15, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:44165719 original size:27 final size:27
Alignment explanation
Indices: 44165681--44165734 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
44165671 ATATGGTGGA
*
44165681 TCAATACCCATCGACGAGTAGGAAAAC
1 TCAATACCCATCAACGAGTAGGAAAAC
44165708 TCAATACCCATCAACGAGTAGGAAAAC
1 TCAATACCCATCAACGAGTAGGAAAAC
44165735 ATACTTTAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.43, C:0.26, G:0.17, T:0.15
Consensus pattern (27 bp):
TCAATACCCATCAACGAGTAGGAAAAC
Found at i:44166930 original size:13 final size:13
Alignment explanation
Indices: 44166912--44166936 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44166902 TCCAGCAACT
44166912 ATGAATTTATTCC
1 ATGAATTTATTCC
44166925 ATGAATTTATTC
1 ATGAATTTATTC
44166937 GATGTTGATT
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:0.32, C:0.12, G:0.08, T:0.48
Consensus pattern (13 bp):
ATGAATTTATTCC
Found at i:44167143 original size:50 final size:50
Alignment explanation
Indices: 44167036--44167284 Score: 302
Period size: 50 Copynumber: 4.8 Consensus size: 50
44167026 ATCTGGGTAA
* *
44167036 AGAGATCCCATGTAAGACCATGTCTGGGACATGACATTGGCATCCTTGAGGTCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GA-G--ACG
* *
44167092 AGAGGTCTCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
*
44167142 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
* * * *
44167192 AGAGGTCTCC-TATAAGACCATGTCTGGGACATGGCATGGGCACCGACATG
1 AGAGGTC-CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
** * *
44167242 AGAACATCCCATGTAAGACCATGTCTGGGGCATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
44167285 TGTTATTATC
Statistics
Matches: 174, Mismatches: 16, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
50 98 0.56
51 33 0.19
52 1 0.01
53 2 0.01
55 2 0.01
56 38 0.22
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
Found at i:44167223 original size:100 final size:104
Alignment explanation
Indices: 44167036--44167285 Score: 337
Period size: 100 Copynumber: 2.4 Consensus size: 104
44167026 ATCTGGGTAA
*
44167036 AGAGATCCCATGTAAGACCATGTCTGGGACATGACATTGGCATCCTTGAGGTCACGAGAGGTCTC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC-TGAGG-CACGAGAGGTCTC
* * * *
44167101 ATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGACG
64 ATATAAGACCATGTCTGGGACATGGCATGGGCACCGACACG
* * *
44167142 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC-GA-G-ATGAGAGGTCTCCT
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTGAGGCACGAGAGGTCTCAT
*
44167203 ATAAGACCATGTCTGGGACATGGCATGGGCACCGACATG
66 ATAAGACCATGTCTGGGACATGGCATGGGCACCGACACG
* * *
44167242 AGAACATCCCATGTAAGACCATGTCTGGGGCATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
44167286 GTTATTATCA
Statistics
Matches: 129, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
100 48 0.37
101 36 0.28
102 1 0.01
103 2 0.02
105 2 0.02
106 40 0.31
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.22
Consensus pattern (104 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTGAGGCACGAGAGGTCTCAT
ATAAGACCATGTCTGGGACATGGCATGGGCACCGACACG
Found at i:44179840 original size:13 final size:13
Alignment explanation
Indices: 44179820--44179855 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
44179810 TCAAAGTTAT
44179820 CCTAGCCCAAATA
1 CCTAGCCCAAATA
*
44179833 CTTAGCCCAAATA
1 CCTAGCCCAAATA
44179846 CCTAGCCCAA
1 CCTAGCCCAA
44179856 TTGCTAAACC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.36, C:0.39, G:0.08, T:0.17
Consensus pattern (13 bp):
CCTAGCCCAAATA
Found at i:44180710 original size:10 final size:10
Alignment explanation
Indices: 44180703--44180727 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
44180693 ACTTTTTTTT
44180703 ATTTTTTTGA
1 ATTTTTTTGA
44180713 ATTTTTTTGA
1 ATTTTTTTGA
44180723 ATTTT
1 ATTTT
44180728 GGCTCTGCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.00, G:0.08, T:0.72
Consensus pattern (10 bp):
ATTTTTTTGA
Found at i:44184956 original size:35 final size:35
Alignment explanation
Indices: 44184910--44185062 Score: 238
Period size: 35 Copynumber: 4.3 Consensus size: 35
44184900 ACTCTCTGTT
44184910 TTGGTGTGTTTC-GATTGGACTAGCTCTTATGAGCA
1 TTGGTGTGTTTCAGA-TGGACTAGCTCTTATGAGCA
*
44184945 TTGGTGTGTTTCAGATGGATTAGCTCTTATGAGCA
1 TTGGTGTGTTTCAGATGGACTAGCTCTTATGAGCA
44184980 TTGGTGTGTTTC-GAATGGACTAGCTCTTATGAGCA
1 TTGGTGTGTTTCAG-ATGGACTAGCTCTTATGAGCA
*
44185015 TTTGGTGTGTTTCAGATGGACTAGATCTTATGAGCA
1 -TTGGTGTGTTTCAGATGGACTAGCTCTTATGAGCA
44185051 TCTGGTGTGTTT
1 T-TGGTGTGTTT
44185063 AATGGGATTG
Statistics
Matches: 110, Mismatches: 3, Indels: 9
0.90 0.02 0.07
Matches are distributed among these distances:
34 1 0.01
35 64 0.58
36 44 0.40
37 1 0.01
ACGTcount: A:0.18, C:0.12, G:0.29, T:0.41
Consensus pattern (35 bp):
TTGGTGTGTTTCAGATGGACTAGCTCTTATGAGCA
Found at i:44186846 original size:28 final size:28
Alignment explanation
Indices: 44186786--44186851 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 28
44186776 CGACATGACC
* **
44186786 AACCATATATCATTCAGGTGGTAGAGCC
1 AACCATATATCATTCAGGCGGTAGAGAA
* * *
44186814 GACCATATATCATTCATGCGGTATAGAA
1 AACCATATATCATTCAGGCGGTAGAGAA
44186842 AACCATATAT
1 AACCATATAT
44186852 AAAAGCTAAC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (28 bp):
AACCATATATCATTCAGGCGGTAGAGAA
Found at i:44188966 original size:3 final size:3
Alignment explanation
Indices: 44188958--44188986 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
44188948 TAATTATTTA
44188958 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
44188987 CATCATCATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:44189690 original size:109 final size:109
Alignment explanation
Indices: 44189499--44189807 Score: 491
Period size: 109 Copynumber: 2.9 Consensus size: 109
44189489 TTTCTAATTG
* * *
44189499 AGGCAATATTTAGCGTTTGGAAATTTGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
* *
44189564 CGTTCAACCAAATAGCTAAATATCCTTTTAAAAATTTTAAAATA
66 CGTTTAACCAAATAGCTAAATATCCTCTTAAAAATTTTAAAATA
*
44189608 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGTCCTAAGGTGCTGGGTGTCGATTTTTCT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
44189673 CGTTTAACCAAATAGCTAAATATCCTCTTAAAAATTTTAAAATA
66 CGTTTAACCAAATAGCTAAATATCCTCTTAAAAATTTTAAAATA
* * *
44189717 AGGCAATGTTTTGCGTTTGGAAATTCGAG-GAACGTGCCCTAAGGTGCTGGGTTTCGA--TTTCT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
*
44189779 CGTTTAACCAAATTA-CCAAATATCCTCTT
66 CGTTTAACCAAA-TAGCTAAATATCCTCTT
44189808 GAATTTTAAT
Statistics
Matches: 188, Mismatches: 11, Indels: 5
0.92 0.05 0.02
Matches are distributed among these distances:
106 30 0.16
107 2 0.01
108 24 0.13
109 132 0.70
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.34
Consensus pattern (109 bp):
AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
CGTTTAACCAAATAGCTAAATATCCTCTTAAAAATTTTAAAATA
Found at i:44193875 original size:21 final size:21
Alignment explanation
Indices: 44193845--44193888 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
44193835 AGTCAAAATG
* *
44193845 AAAATGAAAATGAAAAAATAA
1 AAAATGAAAATAAAAAAACAA
*
44193866 AAAATTAAAATAAAAAAACAA
1 AAAATGAAAATAAAAAAACAA
44193887 AA
1 AA
44193889 CAAAAAGAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.80, C:0.02, G:0.05, T:0.14
Consensus pattern (21 bp):
AAAATGAAAATAAAAAAACAA
Found at i:44194819 original size:6 final size:6
Alignment explanation
Indices: 44194794--44194852 Score: 50
Period size: 6 Copynumber: 9.7 Consensus size: 6
44194784 CTAAGTCAAA
* * *
44194794 AAAATG AGAATG AAAA-- AAAATG AAAAATG AGAATG AAAAATG AAAAAG
1 AAAATG AAAATG AAAATG AAAATG -AAAATG AAAATG -AAAATG AAAATG
44194842 AAAAATG AAAA
1 -AAAATG AAAA
44194853 ATGGAGAGGC
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
4 4 0.10
6 22 0.52
7 16 0.38
ACGTcount: A:0.71, C:0.00, G:0.17, T:0.12
Consensus pattern (6 bp):
AAAATG
Found at i:44194821 original size:7 final size:7
Alignment explanation
Indices: 44194809--44194855 Score: 71
Period size: 7 Copynumber: 7.0 Consensus size: 7
44194799 GAGAATGAAA
44194809 AAAAATG
1 AAAAATG
44194816 AAAAATG
1 AAAAATG
*
44194823 -AGAATG
1 AAAAATG
44194829 AAAAATG
1 AAAAATG
44194836 AAAAA-G
1 AAAAATG
44194842 AAAAATG
1 AAAAATG
44194849 AAAAATG
1 AAAAATG
44194856 GAGAGGCTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
6 11 0.31
7 25 0.69
ACGTcount: A:0.70, C:0.00, G:0.17, T:0.13
Consensus pattern (7 bp):
AAAAATG
Found at i:44194828 original size:13 final size:13
Alignment explanation
Indices: 44194793--44194849 Score: 75
Period size: 13 Copynumber: 4.6 Consensus size: 13
44194783 TCTAAGTCAA
44194793 AAAAATGAGAATG
1 AAAAATGAGAATG
44194806 AAAAA--A-AATG
1 AAAAATGAGAATG
44194816 AAAAATGAGAATG
1 AAAAATGAGAATG
* *
44194829 AAAAATGAAAAAG
1 AAAAATGAGAATG
44194842 AAAAATGA
1 AAAAATGA
44194850 AAAATGGAGA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
10 9 0.23
11 1 0.03
12 1 0.03
13 28 0.72
ACGTcount: A:0.70, C:0.00, G:0.18, T:0.12
Consensus pattern (13 bp):
AAAAATGAGAATG
Found at i:44194834 original size:20 final size:20
Alignment explanation
Indices: 44194793--44194855 Score: 74
Period size: 20 Copynumber: 3.0 Consensus size: 20
44194783 TCTAAGTCAA
44194793 AAAAATGAGAATGAAAAAAAATG
1 AAAAATGAGAATG---AAAAATG
44194816 AAAAATGAGAATGAAAAATG
1 AAAAATGAGAATGAAAAATG
*
44194836 AAAAA-GAAAAATGAAAAATG
1 AAAAATG-AGAATGAAAAATG
44194856 GAGAGGCTAA
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
19 1 0.03
20 24 0.63
23 13 0.34
ACGTcount: A:0.70, C:0.00, G:0.17, T:0.13
Consensus pattern (20 bp):
AAAAATGAGAATGAAAAATG
Found at i:44196278 original size:46 final size:45
Alignment explanation
Indices: 44196094--44196730 Score: 286
Period size: 44 Copynumber: 14.6 Consensus size: 45
44196084 AATATTAGAA
* * * * * *
44196094 ATCTTATCTTCTTGAGATTACAGCGGAGCAGATCCAATACA--CACT
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGA-ATTCA-G
* * * **
44196139 ATCCTATCTCCCTGAGATTACAGTGGAGCGGAT-TAAG-ATAAAGG
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAATTCA-G
* * * ** *
44196183 ATTTTGTCTCTCTGA-AGTTACAGCAGAGCAGATC---GCA-TCAG
1 ATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCGAAGAATTCAG
* * *
44196224 GTCTTATCTCCCTGAGATTACAGTGGGGCAGACCGAAGAATTTCAG
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAA-TTCAG
* * * * * *
44196270 ATCTTATCTCCCTGGGATTACAGCGGAGCAAATTGAAGCTAGT-A-
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAG-AATTCAG
** ** * * **
44196314 ATCCGATCTCTATGAGATTACAGTGGAGCGGAT-TAA-AATAAAGG
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAATTCA-G
* ** *
44196358 ATCTTATCTCTCTGA-AGTTACAGCAGAGCAGATC---GCA-TCAG
1 ATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCGAAGAATTCAG
* * *
44196399 GTCTTATCTCCCTGAGATTACAGTGGAGTAGACCGAAGAATTTCAG
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAA-TTCAG
* * * * *
44196445 ATCTTATCTCCCTGAGGTTACAGTAGAGCAGATTGAAGCCA--GAG
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAG-AATTCAG
* *
44196489 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAG-A--CACT
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAATTCA-G
* * * * *
44196532 ATCCTATCTCCCTGA-AGTTACAGCGGAGCGGAT--TA-AA---GG
1 ATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCGAAGAATTCAG
* * * *
44196571 ATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATC---GTA-TCAG
1 ATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCGAAGAATTCAG
* * * *
44196612 GTCTTACCTCCCTGAGATTACAGTGGAACAGACCGAAGAATTGCAG
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAATT-CAG
* * *
44196658 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGT-A-
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGA-ATTCAG
* *
44196702 ATCCTATCTCCCTAAGATTACAGTGGAGC
1 ATCTTATCTCCCTGAGATTACAGTGGAGC
44196731 GGATTAAGGG
Statistics
Matches: 443, Mismatches: 110, Indels: 79
0.70 0.17 0.12
Matches are distributed among these distances:
39 28 0.06
41 81 0.18
42 11 0.02
43 35 0.08
44 145 0.33
45 31 0.07
46 108 0.24
47 4 0.01
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.26
Consensus pattern (45 bp):
ATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAATTCAG
Found at i:44196507 original size:175 final size:175
Alignment explanation
Indices: 44196139--44196517 Score: 600
Period size: 175 Copynumber: 2.2 Consensus size: 175
44196129 AATACACACT
* * *
44196139 ATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAGATAAAGGATTTTGTCTCTCTGAAGTTAC
1 ATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTAC
*
44196204 AGCAGAGCAGATCGCATCAGGTCTTATCTCCCTGAGATTACAGTGGGGCAGACCGAAGAATTTCA
66 AGCAGAGCAGATCGCATCAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTTCA
* *
44196269 GATCTTATCTCCCTGGGATTACAGCGGAGCAAATTGAAGCTAGTA
131 GATCTTATCTCCCTGGGATTACAGCAGAGCAAATTGAAGCCAGTA
* **
44196314 ATCCGATCTCTATGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTAC
1 ATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTAC
*
44196379 AGCAGAGCAGATCGCATCAGGTCTTATCTCCCTGAGATTACAGTGGAGTAGACCGAAGAATTTCA
66 AGCAGAGCAGATCGCATCAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTTCA
* *
44196444 GATCTTATCTCCCTGAGG-TTACAGTAGAGCAGATTGAAGCCAG-A
131 GATCTTATCTCCCTG-GGATTACAGCAGAGCAAATTGAAGCCAGTA
* *
44196488 GATCTTATCTCCCTGAGATTACAGCGGAGC
1 -ATCCTATCTCCCTGAGATTACAGTGGAGC
44196518 AGATCGAAGA
Statistics
Matches: 185, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
174 1 0.01
175 182 0.98
176 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (175 bp):
ATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTAC
AGCAGAGCAGATCGCATCAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTTCA
GATCTTATCTCCCTGGGATTACAGCAGAGCAAATTGAAGCCAGTA
Found at i:44196540 original size:87 final size:84
Alignment explanation
Indices: 44196189--44196735 Score: 252
Period size: 87 Copynumber: 6.3 Consensus size: 84
44196179 AAGGATTTTG
* * ** * * * *
44196189 TCTCTCTGAAGTTACAGCAGAGCAGATCGCATCAGG-TCTTATCTCCCTGAGATTACAGTGGGGC
1 TCTCCCTGAGGTTACAGTGGAGCAGATTG-AACAGGATCTTATCTCCCTGAGATTACAGCGGAGC
* *
44196253 AGACCGAAGA-ATTTCAGATCTTA
65 AGATCGAAGACA---C-GATCCTA
* * * ** ** *
44196276 TCTCCCTG-GGATTACAGCGGAGCAAATTGAAGCTAGTAATCCGATCTCTATGAGATTACAGTGG
1 TCTCCCTGAGG-TTACAGTGGAGCAGATTGAA-C-AG-GATCTTATCTCCCTGAGATTACAGCGG
* ** * * * *
44196340 AGCGGATTAAAATAAAGGATCTTA
62 AGCAGA-TCGAAGACACGATCCTA
* * ** * * * *
44196364 TCTCTCTGAAGTTACAGCAGAGCAGATCGCATCAGG-TCTTATCTCCCTGAGATTACAGTGGAGT
1 TCTCCCTGAGGTTACAGTGGAGCAGATTG-AACAGGATCTTATCTCCCTGAGATTACAGCGGAGC
* *
44196428 AGACCGAAGA-ATTTCAGATCTTA
65 AGATCGAAGACA---C-GATCCTA
*
44196451 TCTCCCTGAGGTTACAGTAGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGA
1 TCTCCCTGAGGTTACAGTGGAGCAGATTGAA--CAG-GATCTTATCTCCCTGAGATTACAGCGGA
*
44196516 GCAGATCGAAGACACTATCCTA
63 GCAGATCGAAGACACGATCCTA
* * * * ** *
44196538 TCTCCCTGAAGTTACAGCGGAGCGGATT-AA-AGGATCTTATCTCTCTGA-AGTTACAGTAGAGT
1 TCTCCCTGAGGTTACAGTGGAGCAGATTGAACAGGATCTTATCTCCCTGAGA-TTACAGCGGAGC
* * * *
44196600 AGATCGTA-TCA-GGTCTTA
65 AGATCGAAGACACGATCCTA
* * * ** *
44196618 CCTCCCTGAGATTACAGTGGAACAGACCGAAGAATTGCAGATCTTATCTCCCTGAGATTACAGCG
1 TCTCCCTGAGGTTACAGTGGAGCAGATTGAA-CA--G--GATCTTATCTCCCTGAGATTACAGCG
* *
44196683 GAGCAGATCAAAGATA-GTAATCCTA
61 GAGCAGATCGAAGACACG--ATCCTA
* * *
44196708 TCTCCCTAAGATTACAGTGGAGCGGATT
1 TCTCCCTGAGGTTACAGTGGAGCAGATT
44196736 AAGGGAGCTT
Statistics
Matches: 347, Mismatches: 83, Indels: 57
0.71 0.17 0.12
Matches are distributed among these distances:
80 24 0.07
81 5 0.01
82 31 0.09
83 4 0.01
84 3 0.01
85 26 0.07
86 5 0.01
87 116 0.33
88 39 0.11
89 3 0.01
90 86 0.25
91 4 0.01
92 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (84 bp):
TCTCCCTGAGGTTACAGTGGAGCAGATTGAACAGGATCTTATCTCCCTGAGATTACAGCGGAGCA
GATCGAAGACACGATCCTA
Found at i:44196613 original size:213 final size:217
Alignment explanation
Indices: 44196225--44196730 Score: 614
Period size: 213 Copynumber: 2.3 Consensus size: 217
44196215 TCGCATCAGG
** * * * * *
44196225 TCTTATCTCCCTGAGATTACAGTGGGGCAGACCGAAGA-ATTTCAGATCTTATCTCCCTGGGATT
1 TCTTATCTCCCTGAGATTACAGCAGAGCAGATCAAAGACA-GT-AGATCTTATCTCCCTGAGATT
* * * *
44196289 ACAGCGGAGCAAATTGAAGCTAGTAATCCGATCTCTATGAGATTACAGTGGAGCGGATTAAAATA
64 ACAGCGGAGCAAATCGAAGCTACTAATCCGATCTCCATGAGATTACAGCGGAGCGGATT---ATA
*
44196354 AAGGATCTTATCTCTCTGAAGTTACAGCAGAGCAGATCGCATCAGGTCTTATCTCCCTGAGATTA
126 AAGGATCTTATCTCTCTGAAGTTACAGCAGAGCAGATCGCATCAGGTCTTACCTCCCTGAGATTA
** *
44196419 CAGTGGAGTAGACCGAAGAATTTCAGA
191 CAGTGGAACAGACCGAAGAATTGCAGA
* * ** *
44196446 TCTTATCTCCCTGAGGTTACAGTAGAGCAGATTGAAGCCAG-AGATCTTATCTCCCTGAGATTAC
1 TCTTATCTCCCTGAGATTACAGCAGAGCAGATCAAAGACAGTAGATCTTATCTCCCTGAGATTAC
* * *
44196510 AGCGGAGCAGATCGAAGAC-ACT-ATCCTATCTCCCTGA-AGTTACAGCGGAGCGGA-T-TAAAG
66 AGCGGAGCAAATCGAAG-CTACTAATCCGATCTCCATGAGA-TTACAGCGGAGCGGATTATAAAG
* * *
44196570 GATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGGTCTTACCTCCCTGAGATTACAG
129 GATCTTATCTCTCTGAAGTTACAGCAGAGCAGATCGCATCAGGTCTTACCTCCCTGAGATTACAG
44196635 TGGAACAGACCGAAGAATTGCAGA
194 TGGAACAGACCGAAGAATTGCAGA
* * * *
44196659 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTA-ATCCTATCTCCCTAAGATTAC
1 TCTTATCTCCCTGAGATTACAGCAGAGCAGATCAAAGACAGTAGATCTTATCTCCCTGAGATTAC
*
44196723 AGTGGAGC
66 AGCGGAGC
44196731 GGATTAAGGG
Statistics
Matches: 249, Mismatches: 32, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
213 147 0.59
214 1 0.00
217 2 0.01
218 26 0.10
219 39 0.16
220 1 0.00
221 32 0.13
222 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (217 bp):
TCTTATCTCCCTGAGATTACAGCAGAGCAGATCAAAGACAGTAGATCTTATCTCCCTGAGATTAC
AGCGGAGCAAATCGAAGCTACTAATCCGATCTCCATGAGATTACAGCGGAGCGGATTATAAAGGA
TCTTATCTCTCTGAAGTTACAGCAGAGCAGATCGCATCAGGTCTTACCTCCCTGAGATTACAGTG
GAACAGACCGAAGAATTGCAGA
Found at i:44196667 original size:126 final size:126
Alignment explanation
Indices: 44196444--44196695 Score: 298
Period size: 126 Copynumber: 2.0 Consensus size: 126
44196434 AAGAATTTCA
* * *
44196444 GATCTTATCTCCCTGAGGTTACAGTAGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTA
1 GATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCGAAGCCAGAGATCTTACCTCCCTGAGATTA
* * * * *
44196509 CAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGA-AGTTACAGCGGAGCGGATTAAAG
66 CAGCGGAACAGACCGAAGACACGATCCTATCTCCCTGAGA-TTACAGCGGAGCAGATCAAAG
* * * *
44196570 GATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTA-TCAG-G-TCTTACCTCCCTGAGATTA
1 GATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCGAAGCCAGAGATCTTACCTCCCTGAGATTA
* *
44196632 CAGTGGAACAGACCGAAGA-ATTGCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAG
66 CAGCGGAACAGACCGAAGACA---C-GATCCTATCTCCCTGAGATTACAGCGGAGCAGATCAAAG
44196696 ATAGTAATCC
Statistics
Matches: 107, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
122 1 0.01
123 34 0.32
124 1 0.01
125 4 0.04
126 66 0.62
127 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (126 bp):
GATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCGAAGCCAGAGATCTTACCTCCCTGAGATTA
CAGCGGAACAGACCGAAGACACGATCCTATCTCCCTGAGATTACAGCGGAGCAGATCAAAG
Found at i:44196678 original size:169 final size:170
Alignment explanation
Indices: 44196487--44196814 Score: 518
Period size: 170 Copynumber: 1.9 Consensus size: 170
44196477 TTGAAGCCAG
*
44196487 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACT-ATCCTATCTCCCTGAAG-T
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGACACTAATCCTATCTCCCT-AAGAT
*
44196550 TACAGCGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGGTC
65 TACAGCGGAGCGGATTAAAGGAGCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGGTC
*
44196615 TTACCTCCCTGA-GATTACAGTGGAACAGACCGAAGAATTGC
130 TTACATCCCTGATG-TTACAGTGGAACAGACCGAAGAATTGC
* *
44196656 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCCTAAGATT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGACACTAATCCTATCTCCCTAAGATT
* * *
44196721 ACAGTGGAGCGGATTAAGGGAGCTTATCTCTCTGAAGTTACAGTAGAGTGGATCGTATCAGGTCT
66 ACAGCGGAGCGGATTAAAGGAGCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGGTCT
* **
44196786 TATATCCCTGATGTTGTAGTGGAACAGAC
131 TACATCCCTGATGTTACAGTGGAACAGAC
44196815 TGAAAACGTA
Statistics
Matches: 145, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
169 45 0.31
170 99 0.68
171 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (170 bp):
AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGACACTAATCCTATCTCCCTAAGATT
ACAGCGGAGCGGATTAAAGGAGCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGGTCT
TACATCCCTGATGTTACAGTGGAACAGACCGAAGAATTGC
Found at i:44197532 original size:10 final size:9
Alignment explanation
Indices: 44197517--44197541 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
44197507 TACTCTAAGG
44197517 TTTTTTTCT
1 TTTTTTTCT
44197526 TTTTTTTCT
1 TTTTTTTCT
44197535 TTTTTTT
1 TTTTTTT
44197542 AATTTCGCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:44198149 original size:15 final size:17
Alignment explanation
Indices: 44198119--44198167 Score: 61
Period size: 15 Copynumber: 3.1 Consensus size: 17
44198109 AATTTAATTA
44198119 ATTAATTAATTAATATT
1 ATTAATTAATTAATATT
44198136 ATTAA-TAA-TAATATT
1 ATTAATTAATTAATATT
*
44198151 ATT-ATT-ATTATTATT
1 ATTAATTAATTAATATT
44198166 AT
1 AT
44198168 CATCATTGGT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
14 2 0.07
15 19 0.66
16 3 0.10
17 5 0.17
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTAATTAATTAATATT
Found at i:44198866 original size:109 final size:109
Alignment explanation
Indices: 44198675--44198983 Score: 491
Period size: 109 Copynumber: 2.9 Consensus size: 109
44198665 TTTCTAATTG
* * *
44198675 AGGCAATATTTAGCGTTTGGAAATTTGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
44198740 CGTTTAACCAAATAGCTAAATATCCTCTTAAAAATTTTAAAATA
66 CGTTTAACCAAATAGCTAAATATCCTCTTAAAAATTTTAAAATA
* *
44198784 AGGCAATGTTTTGCGTTTGAAAATTCGAGAAAACATGTCCTAAGGTGCTGGGTGTCGATTTTTCT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
*
44198849 CGTTCAACCAAATAGCTAAATATCCTCTTAAAAATTTTAAAATA
66 CGTTTAACCAAATAGCTAAATATCCTCTTAAAAATTTTAAAATA
* * *
44198893 AGGCAATGTTTTGCGTTTGGAAATTCGAG-GAACGTGCCCTAAGGTGCTGGGTTTCGA--TTTCT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
*
44198955 CGTTTAACCAAATTA-CCAAATATCCTCTT
66 CGTTTAACCAAA-TAGCTAAATATCCTCTT
44198984 GAATTTTAAT
Statistics
Matches: 186, Mismatches: 13, Indels: 5
0.91 0.06 0.02
Matches are distributed among these distances:
106 29 0.16
107 2 0.01
108 24 0.13
109 131 0.70
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.34
Consensus pattern (109 bp):
AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
CGTTTAACCAAATAGCTAAATATCCTCTTAAAAATTTTAAAATA
Found at i:44206455 original size:14 final size:14
Alignment explanation
Indices: 44206432--44206464 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
44206422 AGTTTGGGGC
*
44206432 AAGTGGCAGTTAAT
1 AAGTGACAGTTAAT
44206446 AAGTGACAGTTAAT
1 AAGTGACAGTTAAT
44206460 AAGTG
1 AAGTG
44206465 GAGTCCAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.39, C:0.06, G:0.27, T:0.27
Consensus pattern (14 bp):
AAGTGACAGTTAAT
Found at i:44207506 original size:19 final size:20
Alignment explanation
Indices: 44207482--44207525 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
44207472 TAAAAATTCT
*
44207482 AAAATT-TATAATTTTTAAA
1 AAAATTATAAAATTTTTAAA
*
44207501 AAAATTATAAAATTTTTTAA
1 AAAATTATAAAATTTTTAAA
44207521 AAAAT
1 AAAAT
44207526 CTGAAAGTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
AAAATTATAAAATTTTTAAA
Found at i:44214592 original size:19 final size:19
Alignment explanation
Indices: 44214568--44214605 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
44214558 AAGGGTTGGA
44214568 GAAAGACTATGTGCAGTTC
1 GAAAGACTATGTGCAGTTC
44214587 GAAAGACTATGTGCAGTTC
1 GAAAGACTATGTGCAGTTC
44214606 TAGGCATTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (19 bp):
GAAAGACTATGTGCAGTTC
Found at i:44224390 original size:3 final size:3
Alignment explanation
Indices: 44224384--44224434 Score: 50
Period size: 3 Copynumber: 16.7 Consensus size: 3
44224374 ACTATTATTG
* * *
44224384 TAT TAT TAAT TAT TGT TAT TAT AAT TAT AAT TA- TAT TAT ATAT TAT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT
44224430 TAT TA
1 TAT TA
44224435 CACCTATAGG
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
2 2 0.05
3 31 0.79
4 6 0.15
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:44224397 original size:15 final size:15
Alignment explanation
Indices: 44224377--44224411 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
44224367 ATTTTTCACT
44224377 ATTATTG-TATTATTA
1 ATTATTGTTATTA-TA
44224392 ATTATTGTTATTATA
1 ATTATTGTTATTATA
44224407 ATTAT
1 ATTAT
44224412 AATTATATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (15 bp):
ATTATTGTTATTATA
Found at i:44236524 original size:44 final size:42
Alignment explanation
Indices: 44236458--44236996 Score: 294
Period size: 44 Copynumber: 12.8 Consensus size: 42
44236448 GAAACTTCAG
44236458 TCTTATCTCCCTGAAGTTGCAGTGAAGCAGACAGAAGAAAT-CAA
1 TCTTATCTCCCTGAAGTTGCAGTG-AG-AG-CAGAAGAAATCCAA
* * **
44236502 TCCTATCTCCCTGAAGTTGCAGTG-GAGCGGATTAACATCCAGA
1 TCTTATCTCCCTGAAGTTGCAGTGAGAGCAGAAGAA-ATCCA-A
** * * * *
44236545 TCTTATCTTTCTGAGGTTGCA--GAGAGCAGATCG-CATCCAG
1 TCTTATCTCCCTGAAGTTGCAGTGAGAGCAGA-AGAAATCCAA
44236585 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAAT-CAA
1 TCTTATCTCCCTGAAGTTGCAGT-GAG-AG-CAGAAGAAATCCAA
* * * **
44236629 TCCTATCTCCCTAAAGTTGCAGTG-GAGCGGATTAACATCCAGA
1 TCTTATCTCCCTGAAGTTGCAGTGAGAGCAGAAGAA-ATCCA-A
** * * * * *
44236672 TCTTATCTTTCTGAGGTTGTA--GAGAGCAGATCG-CATCCAG
1 TCTTATCTCCCTGAAGTTGCAGTGAGAGCAGA-AGAAATCCAA
44236712 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAAT-CAA
1 TCTTATCTCCCTGAAGTTGCAGT-GAG-AG-CAGAAGAAATCCAA
* * **
44236756 T-TCTATCTCCTTGAAGTTGCAGTG-GAGCGGATTAACATCCAGA
1 TCT-TATCTCCCTGAAGTTGCAGTGAGAGCAGAAGAA-ATCCA-A
** * * * *
44236799 TCTTATCTTTCTGAGGTTGCA--GAGAGCAGATCG-CATCCAG
1 TCTTATCTCCCTGAAGTTGCAGTGAGAGCAGA-AGAAATCCAA
*
44236839 TCTTATCTCCTTGAAGTTGCAGTGGAGCAGACAGAAGAAAT-CAA
1 TCTTATCTCCCTGAAGTTGCAGT-GAG-AG-CAGAAGAAATCCAA
* * * ** *
44236883 TCCTATCTCCCTGAAGTTGCAATG-GAGCGGATTTACATCCAGA
1 TCTTATCTCCCTGAAGTTGCAGTGAGAGCAGA-AGAAATCCA-A
** * * * *
44236926 TCTTATCTTTCTGAGGTTGCA--GAGAGCAGATCG-CATCCAG
1 TCTTATCTCCCTGAAGTTGCAGTGAGAGCAGA-AGAAATCCAA
44236966 TCTTATCTCCCTGAAGTTGCAGTG-GAGCAGA
1 TCTTATCTCCCTGAAGTTGCAGTGAGAGCAGA
44236997 CTAAAAATAG
Statistics
Matches: 374, Mismatches: 80, Indels: 85
0.69 0.15 0.16
Matches are distributed among these distances:
40 88 0.24
41 49 0.13
42 38 0.10
43 81 0.22
44 100 0.27
45 18 0.05
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (42 bp):
TCTTATCTCCCTGAAGTTGCAGTGAGAGCAGAAGAAATCCAA
Found at i:44236602 original size:83 final size:83
Alignment explanation
Indices: 44236505--44236996 Score: 305
Period size: 83 Copynumber: 5.8 Consensus size: 83
44236495 AAATCAATCC
** *
44236505 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGA
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAACATCCAGATCTTATCTCCCTGAAGTTGCAGAGA
*
44236570 GCAGATCGCATCCAGTCT
66 GCAGATAGCATCCAGTCT
** * *
44236588 TATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAA-AT-CA-ATCCTATCTCCCTAAAGTTGCA
1 TATCTCCCTGAAGTTGCAGTGGAGC-G---GATTAACATCCAGATCTTATCTCCCTGAAGTTGCA
* * *
44236650 GTGGAGCGGATTAACATCCAGATCT
62 G-AGAGCAGA-TAGCATCCAG-TCT
** * * * * **
44236675 TATCTTTCTGAGGTTGTAG-AGAGCAGA-TCGCATCCAG-TCTTATCTCCCTGAAGTTGCAGTGG
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAACATCCAGATCTTATCTCCCTGAAGTTGCA---G
* * *
44236737 AGCAGACAGA-AGAAATCAATTC-
63 AG-AG-CAGATAG-CATCCAGTCT
* ** *
44236759 TATCTCCTTGAAGTTGCAGTGGAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGA
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAACATCCAGATCTTATCTCCCTGAAGTTGCAGAGA
*
44236824 GCAGATCGCATCCAGTCT
66 GCAGATAGCATCCAGTCT
* ** *
44236842 TATCTCCTTGAAGTTGCAGTGGAGCAGACAGAAGAA-AT-CA-ATCCTATCTCCCTGAAGTTGCA
1 TATCTCCCTGAAGTTGCAGTGGAGC-G---GATTAACATCCAGATCTTATCTCCCTGAAGTTGCA
*
44236904 -ATGGAGCGGATTTA-CATCCAGATCT
62 GA--GAGCAGA--TAGCATCCAG-TCT
** * * * ** *
44236929 TATCTTTCTGAGGTTGCAG-AGAGCAGA-TCGCATCCAG-TCTTATCTCCCTGAAGTTGCAGTGG
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAACATCCAGATCTTATCTCCCTGAAGTTGCAG-AG
44236991 AGCAGA
65 AGCAGA
44236997 CTAAAAATAG
Statistics
Matches: 310, Mismatches: 64, Indels: 70
0.70 0.14 0.16
Matches are distributed among these distances:
82 18 0.06
83 103 0.33
84 55 0.18
85 26 0.08
86 42 0.14
87 66 0.21
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (83 bp):
TATCTCCCTGAAGTTGCAGTGGAGCGGATTAACATCCAGATCTTATCTCCCTGAAGTTGCAGAGA
GCAGATAGCATCCAGTCT
Found at i:44236681 original size:127 final size:127
Alignment explanation
Indices: 44236455--44236997 Score: 1014
Period size: 127 Copynumber: 4.3 Consensus size: 127
44236445 GGTGAAACTT
*
44236455 CAGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGACAGAAGAAATCAATCCTATCTCCCTGAAGTT
1 CAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATCAATCCTATCTCCCTGAAGTT
44236520 GCAGTGGAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCGCATC
66 GCAGTGGAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCGCATC
*
44236582 CAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATCAATCCTATCTCCCTAAAGTT
1 CAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATCAATCCTATCTCCCTGAAGTT
*
44236647 GCAGTGGAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTGTAGAGAGCAGATCGCATC
66 GCAGTGGAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCGCATC
* *
44236709 CAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATCAATTCTATCTCCTTGAAGTT
1 CAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATCAATCCTATCTCCCTGAAGTT
44236774 GCAGTGGAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCGCATC
66 GCAGTGGAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCGCATC
*
44236836 CAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACAGAAGAAATCAATCCTATCTCCCTGAAGTT
1 CAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATCAATCCTATCTCCCTGAAGTT
* *
44236901 GCAATGGAGCGGATTTACATCCAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCGCATC
66 GCAGTGGAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCGCATC
44236963 CAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
1 CAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
44236998 TAAAAATAGC
Statistics
Matches: 403, Mismatches: 13, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
127 403 1.00
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (127 bp):
CAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATCAATCCTATCTCCCTGAAGTT
GCAGTGGAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCGCATC
Found at i:44238308 original size:3 final size:3
Alignment explanation
Indices: 44238302--44238352 Score: 50
Period size: 3 Copynumber: 16.7 Consensus size: 3
44238292 ACTATTATTG
* * *
44238302 TAT TAT TAAT TAT TGT TAT TAT AAT TAT AAT TA- TAT TAT ATAT TAT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT
44238348 TAT TA
1 TAT TA
44238353 CACCTATAGG
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
2 2 0.05
3 31 0.79
4 6 0.15
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:44238315 original size:15 final size:15
Alignment explanation
Indices: 44238295--44238329 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
44238285 ATTTTTCACT
44238295 ATTATTG-TATTATTA
1 ATTATTGTTATTA-TA
44238310 ATTATTGTTATTATA
1 ATTATTGTTATTATA
44238325 ATTAT
1 ATTAT
44238330 AATTATATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (15 bp):
ATTATTGTTATTATA
Found at i:44238532 original size:9 final size:8
Alignment explanation
Indices: 44238500--44238543 Score: 54
Period size: 9 Copynumber: 5.4 Consensus size: 8
44238490 GTACACGTAC
*
44238500 ATATATTT
1 ATATTTTT
44238508 ATA-TTTT
1 ATATTTTT
44238515 ATATTTTT
1 ATATTTTT
44238523 ATAGTTTTT
1 ATA-TTTTT
44238532 ATATATTTT
1 ATAT-TTTT
44238541 ATA
1 ATA
44238544 ATCCAAATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
7 6 0.19
8 11 0.34
9 15 0.47
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (8 bp):
ATATTTTT
Found at i:44244334 original size:5 final size:5
Alignment explanation
Indices: 44244324--44244354 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
44244314 GGATGTATGG
44244324 ATGTT ATGTT ATGTT ATGTT ATGTT ATGTT A
1 ATGTT ATGTT ATGTT ATGTT ATGTT ATGTT A
44244355 ATGTATGGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.19, T:0.58
Consensus pattern (5 bp):
ATGTT
Found at i:44246275 original size:7 final size:7
Alignment explanation
Indices: 44246263--44246290 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
44246253 AAATGGTTGC
44246263 TTGAAAG
1 TTGAAAG
44246270 TTGAAAG
1 TTGAAAG
44246277 TTGAAAG
1 TTGAAAG
44246284 TTGAAAG
1 TTGAAAG
44246291 GTTTAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.29, T:0.29
Consensus pattern (7 bp):
TTGAAAG
Found at i:44250552 original size:57 final size:56
Alignment explanation
Indices: 44250465--44250575 Score: 168
Period size: 57 Copynumber: 2.0 Consensus size: 56
44250455 GTATAAATTC
* * * * *
44250465 AAAATTGGTCCTCCGAAATCTATATGTCGGTGGATTAATTGCTGAATTTTGCCTCT
1 AAAATTGGTCCTCCAAAATCTATACGTCGGTGGATTAATTCCTCAACTTTGCCTCT
44250521 AAAATTGGTCCTCCAAAAATCTATACGTCGGTGGATTAATTCCTCAACTTTGCCT
1 AAAATTGGTCCTCC-AAAATCTATACGTCGGTGGATTAATTCCTCAACTTTGCCT
44250576 TTGGATAATC
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
56 14 0.29
57 35 0.71
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (56 bp):
AAAATTGGTCCTCCAAAATCTATACGTCGGTGGATTAATTCCTCAACTTTGCCTCT
Found at i:44251510 original size:39 final size:39
Alignment explanation
Indices: 44251467--44251590 Score: 151
Period size: 39 Copynumber: 3.1 Consensus size: 39
44251457 AATAATAAAT
*
44251467 ATTTTTTTATTTTAAAATACTTTTAAAATATTTTTTTTA
1 ATTTTTTTATTTTAAAATATTTTTAAAATATTTTTTTTA
* * * *
44251506 ATTTTAATTTTTTTTTAAATTTTTTTAAAA-ATACTTTTTTA
1 ATTTT--TTTATTTTAAAATATTTTTAAAATAT-TTTTTTTA
* *
44251547 ATTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
1 ATTTTTTTATTTTAAAATATTTTTAAAATATTTTTTTTA
44251586 ATTTT
1 ATTTT
44251591 AATTTTAATT
Statistics
Matches: 70, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
39 36 0.51
40 3 0.04
41 31 0.44
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (39 bp):
ATTTTTTTATTTTAAAATATTTTTAAAATATTTTTTTTA
Found at i:44252539 original size:20 final size:20
Alignment explanation
Indices: 44252498--44252539 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
44252488 ATTAAAGGAC
*
44252498 AAAATATAAATAATGAATTA
1 AAAATATAAATAATGAAATA
*
44252518 AAAATACTAAA-AATTAAATA
1 AAAATA-TAAATAATGAAATA
44252538 AA
1 AA
44252540 TAAAAAAGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.26
Consensus pattern (20 bp):
AAAATATAAATAATGAAATA
Found at i:44254007 original size:21 final size:21
Alignment explanation
Indices: 44253968--44254013 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
44253958 TTTTTGGACT
44253968 TTTATTAATTTTCTGGTTTA-
1 TTTATTAATTTTCTGGTTTAG
* *
44253988 TTTATTTATTTATTTGGTTTAG
1 TTTATTAATTT-TCTGGTTTAG
44254010 TTTA
1 TTTA
44254014 GTTTGGGTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 10 0.45
21 8 0.36
22 4 0.18
ACGTcount: A:0.20, C:0.02, G:0.11, T:0.67
Consensus pattern (21 bp):
TTTATTAATTTTCTGGTTTAG
Found at i:44254689 original size:20 final size:21
Alignment explanation
Indices: 44254664--44254707 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
44254654 TTAGTGGGAG
44254664 TTAGTGGGGATATGAGTGG-T
1 TTAGTGGGGATATGAGTGGCT
*
44254684 TTAGTGGGGATATGGGTGGCT
1 TTAGTGGGGATATGAGTGGCT
44254705 TTA
1 TTA
44254708 AAAAATTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.18, C:0.02, G:0.43, T:0.36
Consensus pattern (21 bp):
TTAGTGGGGATATGAGTGGCT
Found at i:44255266 original size:25 final size:23
Alignment explanation
Indices: 44255242--44255339 Score: 116
Period size: 23 Copynumber: 4.5 Consensus size: 23
44255232 TATATTAAAT
*
44255242 ATATATATTTTATTTTTAATCAA
1 ATATATATATTATTTTTAATCAA
44255265 ATATATATATTATTTTTAATC-A
1 ATATATATATTATTTTTAATCAA
*
44255287 A-ATATATATTATATTTAATCAA
1 ATATATATATTATTTTTAATCAA
* * *
44255309 ATGTATATA-TA-TTAT-ATTAA
1 ATATATATATTATTTTTAATCAA
44255329 ATATATATATT
1 ATATATATATT
44255340 TAATATGGGC
Statistics
Matches: 65, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
20 12 0.18
21 21 0.32
22 6 0.09
23 26 0.40
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.52
Consensus pattern (23 bp):
ATATATATATTATTTTTAATCAA
Found at i:44255345 original size:20 final size:19
Alignment explanation
Indices: 44255267--44255341 Score: 62
Period size: 21 Copynumber: 3.7 Consensus size: 19
44255257 TTAATCAAAT
*
44255267 ATATATATTATTTTTAATCAA
1 ATATATA-TATTTAT-ATCAA
44255288 ATATATATTATATT-TAATCAA
1 ATATATA-TAT-TTAT-ATCAA
* *
44255309 ATGTATATATATTATATTAA
1 ATATATATAT-TTATATCAA
44255329 ATATATATATTTA
1 ATATATATATTTA
44255342 ATATGGGCTA
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
19 3 0.06
20 19 0.39
21 25 0.51
22 2 0.04
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (19 bp):
ATATATATATTTATATCAA
Found at i:44255982 original size:6 final size:6
Alignment explanation
Indices: 44255971--44256012 Score: 75
Period size: 6 Copynumber: 7.0 Consensus size: 6
44255961 ATAAATTAAT
*
44255971 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AGAAAC
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC
44256013 CTATTTTGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.81, C:0.17, G:0.02, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:44256987 original size:35 final size:35
Alignment explanation
Indices: 44256925--44257048 Score: 169
Period size: 35 Copynumber: 3.5 Consensus size: 35
44256915 TTCTGTTTTG
*
44256925 GTGTGTTTCAGATGGA-TAGCTCTTATGAGCATTA
1 GTGTGTTTCGGATGGATTAGCTCTTATGAGCATTA
* *
44256959 GTGTGTTTTGGATGGATTAGCTCTTATGAACATTA
1 GTGTGTTTCGGATGGATTAGCTCTTATGAGCATTA
* *
44256994 GTGTGTTCCGGATGGATTAGCTCTTATGAGCATCTG
1 GTGTGTTTCGGATGGATTAGCTCTTATGAGCAT-TA
* *
44257030 GTGTGTTTTGGTTGGATTA
1 GTGTGTTTCGGATGGATTA
44257049 TTGATGTACT
Statistics
Matches: 78, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
34 14 0.18
35 47 0.60
36 17 0.22
ACGTcount: A:0.19, C:0.10, G:0.29, T:0.41
Consensus pattern (35 bp):
GTGTGTTTCGGATGGATTAGCTCTTATGAGCATTA
Found at i:44259416 original size:21 final size:22
Alignment explanation
Indices: 44259369--44259424 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
44259359 TGGCCAATTA
* *
44259369 GGCCGTGTGGGCCACACAGGCT
1 GGCCATGTGGGCCACACAGGAT
44259391 GGCCATGTGGGCCACAC-GGAT
1 GGCCATGTGGGCCACACAGGAT
*
44259412 GGCCATGTAGGCC
1 GGCCATGTGGGCC
44259425 CAAAAACTGG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
21 15 0.48
22 16 0.52
ACGTcount: A:0.16, C:0.30, G:0.39, T:0.14
Consensus pattern (22 bp):
GGCCATGTGGGCCACACAGGAT
Found at i:44261109 original size:11 final size:10
Alignment explanation
Indices: 44261065--44261116 Score: 54
Period size: 10 Copynumber: 5.2 Consensus size: 10
44261055 AAACTCTTTT
44261065 AAAATTTT-A
1 AAAATTTTAA
*
44261074 AAAATATTAA
1 AAAATTTTAA
*
44261084 AAAATTATAA
1 AAAATTTTAA
44261094 GAAAATTTTATA
1 -AAAATTTTA-A
44261106 AAAA-TTTAA
1 AAAATTTTAA
44261115 AA
1 AA
44261117 TTTCTTTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
9 10 0.28
10 13 0.36
11 12 0.33
12 1 0.03
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (10 bp):
AAAATTTTAA
Found at i:44261256 original size:20 final size:20
Alignment explanation
Indices: 44261220--44261282 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
44261210 TATTGTTATT
*
44261220 TTTTAATAA-AAAATTTATAA
1 TTTT-ATAATAAATTTTATAA
* * *
44261240 TTTTTTTATAAATTTTATGA
1 TTTTATAATAAATTTTATAA
*
44261260 TTTTATAATAAATTTTAAAA
1 TTTTATAATAAATTTTATAA
44261280 TTT
1 TTT
44261283 AAAAAGGCTT
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
19 2 0.06
20 32 0.94
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (20 bp):
TTTTATAATAAATTTTATAA
Found at i:44262002 original size:39 final size:39
Alignment explanation
Indices: 44261938--44262061 Score: 139
Period size: 37 Copynumber: 3.3 Consensus size: 39
44261928 GGTAACCACT
** *
44261938 CAAAACACACCTGAACGCTCAAACGAGCTATATACTATC
1 CAAAACACACCTGATGGCTCGAACGAGCTATATACTATC
* *
44261977 CAGAACACACCTGATGGCTCGAACGAGCTATAT--TAAC
1 CAAAACACACCTGATGGCTCGAACGAGCTATATACTATC
* * * *
44262014 CAAAACACACCTAATGGCTCGAATGAAC--TATACCATC
1 CAAAACACACCTGATGGCTCGAACGAGCTATATACTATC
44262051 CAAAACACACC
1 CAAAACACACC
44262062 AGGGCACTAA
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
35 3 0.04
37 40 0.56
39 29 0.40
ACGTcount: A:0.40, C:0.31, G:0.12, T:0.17
Consensus pattern (39 bp):
CAAAACACACCTGATGGCTCGAACGAGCTATATACTATC
Found at i:44268205 original size:27 final size:27
Alignment explanation
Indices: 44268161--44268213 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
44268151 TCATCACCTA
*
44268161 AATTTTTATAATTTC-TTTATGATTTTT
1 AATTTTTATAATTACTTTTA-GATTTTT
44268188 AATTTTT-TAATATACTTTTAGATTTT
1 AATTTTTATAAT-TACTTTTAGATTTT
44268214 ATATAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 4 0.17
27 15 0.65
28 4 0.17
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.64
Consensus pattern (27 bp):
AATTTTTATAATTACTTTTAGATTTTT
Found at i:44271916 original size:30 final size:29
Alignment explanation
Indices: 44271882--44271964 Score: 85
Period size: 30 Copynumber: 2.8 Consensus size: 29
44271872 CCAACACCTA
***
44271882 CACCAGCACTAACACTGGCACCACCTCCGG
1 CACCAGCACT-ACACCAACACCACCTCCGG
*
44271912 CACCAGCACCTGCACCAACACCACCTCCGG
1 CACCAGCA-CTACACCAACACCACCTCCGG
* *
44271942 CACCAGCACCAGCACCAGCACCA
1 CACCAGCACTA-CACCAACACCA
44271965 GCACCTGCAC
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
29 1 0.02
30 41 0.93
31 2 0.05
ACGTcount: A:0.29, C:0.51, G:0.14, T:0.06
Consensus pattern (29 bp):
CACCAGCACTACACCAACACCACCTCCGG
Found at i:44271926 original size:6 final size:6
Alignment explanation
Indices: 44271911--44272008 Score: 88
Period size: 6 Copynumber: 16.3 Consensus size: 6
44271901 ACCACCTCCG
* * * * *
44271911 GCACCA GCACCT GCACCA ACACCA CCTCCG GCACCA GCACCA GCACCA
1 GCACCA GCACCA GCACCA GCACCA GCACCA GCACCA GCACCA GCACCA
* * * * * * *
44271959 GCACCA GCACCT GCACCC GCTCCA GCACCT CCACCA ACACCA CCACCA
1 GCACCA GCACCA GCACCA GCACCA GCACCA GCACCA GCACCA GCACCA
44272007 GC
1 GC
44272009 TCCTACCCCT
Statistics
Matches: 72, Mismatches: 20, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
6 72 1.00
ACGTcount: A:0.28, C:0.54, G:0.13, T:0.05
Consensus pattern (6 bp):
GCACCA
Found at i:44272023 original size:24 final size:24
Alignment explanation
Indices: 44271996--44272046 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
44271986 CCTCCACCAA
* * *
44271996 CACCACCACCAGCTCCTACCCCTC
1 CACCACCACCAGCCCCAACACCTC
* *
44272020 CACCTCCACTAGCCCCAACACCTC
1 CACCACCACCAGCCCCAACACCTC
44272044 CAC
1 CAC
44272047 TTGCTGCAGC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.24, C:0.61, G:0.04, T:0.12
Consensus pattern (24 bp):
CACCACCACCAGCCCCAACACCTC
Found at i:44272094 original size:24 final size:23
Alignment explanation
Indices: 44272048--44272116 Score: 66
Period size: 24 Copynumber: 2.9 Consensus size: 23
44272038 CACCTCCACT
* * *
44272048 TGCTGCAGCACTTCCTCCTGCACC
1 TGCTGCAGCACCTCCACCAGCA-C
*
44272072 TGCTGCAACACCTCCACCAGCAC
1 TGCTGCAGCACCTCCACCAGCAC
* *
44272095 TACCTCCAGCACCTCCACCAGC
1 T-GCTGCAGCACCTCCACCAGC
44272117 TCCTACCCCT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
23 2 0.05
24 35 0.95
ACGTcount: A:0.20, C:0.49, G:0.13, T:0.17
Consensus pattern (23 bp):
TGCTGCAGCACCTCCACCAGCAC
Found at i:44272184 original size:12 final size:12
Alignment explanation
Indices: 44272169--44272212 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
44272159 ACCCGTTCCG
*
44272169 GCACCTCCTCCT
1 GCACCTCCTCCA
*
44272181 GCACCTCCGCCA
1 GCACCTCCTCCA
* *
44272193 ACACCACCTCCA
1 GCACCTCCTCCA
44272205 GCACCTCC
1 GCACCTCC
44272213 ACCTCCACTA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.18, C:0.59, G:0.09, T:0.14
Consensus pattern (12 bp):
GCACCTCCTCCA
Found at i:44272202 original size:15 final size:15
Alignment explanation
Indices: 44272182--44272263 Score: 60
Period size: 15 Copynumber: 5.5 Consensus size: 15
44272172 CCTCCTCCTG
44272182 CACCTCCGCCAACAC
1 CACCTCCGCCAACAC
* *
44272197 CACCTCCAG-CACCTC
1 CACCTCC-GCCAACAC
* * *
44272212 CACCTCCACTAACTC
1 CACCTCCGCCAACAC
* * *
44272227 CTA-CTCCTCCACCAG
1 C-ACCTCCGCCAACAC
44272242 CACCTCCGCCAACAC
1 CACCTCCGCCAACAC
44272257 CACCTCC
1 CACCTCC
44272264 TACACCTCCA
Statistics
Matches: 50, Mismatches: 13, Indels: 8
0.70 0.18 0.11
Matches are distributed among these distances:
14 1 0.02
15 47 0.94
16 2 0.04
ACGTcount: A:0.23, C:0.59, G:0.05, T:0.13
Consensus pattern (15 bp):
CACCTCCGCCAACAC
Found at i:44272218 original size:30 final size:29
Alignment explanation
Indices: 44272182--44272275 Score: 91
Period size: 30 Copynumber: 3.1 Consensus size: 29
44272172 CCTCCTCCTG
44272182 CACCTCCGCCAACACCACCTCCAGCACCTC
1 CACCTCCGCCAACACCACCTCCA-CACCTC
* * * * **
44272212 CACCTCCACTAACTCCTA-CTCCTCCACCAG
1 CACCTCCGCCAACACC-ACCTCC-ACACCTC
44272242 CACCTCCGCCAACACCACCTCCTACACCTC
1 CACCTCCGCCAACACCACCTCC-ACACCTC
44272272 CACC
1 CACC
44272276 ACTACCACCA
Statistics
Matches: 49, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
29 1 0.02
30 47 0.96
31 1 0.02
ACGTcount: A:0.23, C:0.59, G:0.04, T:0.14
Consensus pattern (29 bp):
CACCTCCGCCAACACCACCTCCACACCTC
Found at i:44272242 original size:36 final size:36
Alignment explanation
Indices: 44272104--44272359 Score: 113
Period size: 36 Copynumber: 7.1 Consensus size: 36
44272094 CTACCTCCAG
* * * **
44272104 CACCTCCACCAGCTCCTACCCCTCCACCAGCCCCAA
1 CACCTCCACCAACTCCTACACCTCCACCAGCACCTC
* * * ** *
44272140 TACCACCACCAACACCTACACC-CGTTCCGGCACCTC
1 CACCTCCACCAACTCCTACACCTC-CACCAGCACCTC
* * ** * * * *
44272176 CTCCTGCACCTCCGCCAACACCACCTCCAGCACCTC
1 CACCTCCACCAACTCCTACACCTCCACCAGCACCTC
* *
44272212 CACCTCCACTAACTCCTACTCCTCCACCAGCACCTC
1 CACCTCCACCAACTCCTACACCTCCACCAGCACCTC
* ** * *
44272248 CGCCAACACCACCTCCTACACCTCCACCA-CTACCAC
1 CACCTCCACCAACTCCTACACCTCCACCAGC-ACCTC
* * * * * * *
44272284 CACCTCCTCCTACACCT-CTACCACCACTAGCTCCTA
1 CACCTCCACCAACTCCTAC-ACCTCCACCAGCACCTC
* * * * * *
44272320 CTCCTCCACCAACCCCAACACCACCACCAACACCTG
1 CACCTCCACCAACTCCTACACCTCCACCAGCACCTC
44272356 CACC
1 CACC
44272360 CACTCCAGCA
Statistics
Matches: 154, Mismatches: 60, Indels: 12
0.68 0.27 0.05
Matches are distributed among these distances:
35 3 0.02
36 148 0.96
37 3 0.02
ACGTcount: A:0.24, C:0.57, G:0.05, T:0.14
Consensus pattern (36 bp):
CACCTCCACCAACTCCTACACCTCCACCAGCACCTC
Found at i:44272275 original size:18 final size:18
Alignment explanation
Indices: 44272212--44272277 Score: 51
Period size: 18 Copynumber: 3.7 Consensus size: 18
44272202 CCAGCACCTC
* *
44272212 CACCTCCACTAACTCCTA
1 CACCTCCACCACCTCCTA
* * * *
44272230 CTCCTCCACCAGCACCTC
1 CACCTCCACCACCTCCTA
* **
44272248 CGCCAACACCACCTCCTA
1 CACCTCCACCACCTCCTA
44272266 CACCTCCACCAC
1 CACCTCCACCAC
44272278 TACCACCACC
Statistics
Matches: 34, Mismatches: 14, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.24, C:0.58, G:0.03, T:0.15
Consensus pattern (18 bp):
CACCTCCACCACCTCCTA
Found at i:44272294 original size:60 final size:60
Alignment explanation
Indices: 44272172--44272404 Score: 166
Period size: 60 Copynumber: 3.8 Consensus size: 60
44272162 CGTTCCGGCA
* * * * *
44272172 CCTCCTCCTGCACCTCCGCCAACACCACCTCCAGCACCTCCACCTCCACTAACTCCTACT
1 CCTCCACCAGCACCTCCGCCAACACCACCTCCAGCACCTCCACCACCACCAACACCTACT
* * *
44272232 CCTCCACCAGCACCTCCGCCAACACCACCTCCTA-CACCTCCACCACTACCACCACCTCCT
1 CCTCCACCAGCACCTCCGCCAACACCACCTCC-AGCACCTCCACCACCACCAACACCTACT
* * * * * * * * * *
44272292 CCTACACC-TCTACCACCACTAGCTCCTACTCCTCCACCAACCCCAACACCACCACCAACACCTG
1 CCTCCACCAGC-ACCTCCGCCAACACC-A--CCTCCAGC-ACCTC--CACCACCACCAACACCTA
*
44272356 CA
59 CT
* * *
44272358 CC-CACTCCAGCACCTCCACCAACACCACCTCCAGCATCTCCACCACC
1 CCTC-CACCAGCACCTCCGCCAACACCACCTCCAGCACCTCCACCACC
44272405 CCTAGCACCT
Statistics
Matches: 132, Mismatches: 30, Indels: 22
0.72 0.16 0.12
Matches are distributed among these distances:
59 1 0.01
60 74 0.56
61 2 0.02
62 4 0.03
63 13 0.10
64 4 0.03
65 1 0.01
66 32 0.24
67 1 0.01
ACGTcount: A:0.24, C:0.58, G:0.04, T:0.14
Consensus pattern (60 bp):
CCTCCACCAGCACCTCCGCCAACACCACCTCCAGCACCTCCACCACCACCAACACCTACT
Found at i:44272299 original size:24 final size:25
Alignment explanation
Indices: 44272254--44272310 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 25
44272244 CCTCCGCCAA
*
44272254 CACCACCTCCTACACCTCCACCACTAC
1 CACCACCTCCT--ACCTACACCACTAC
*
44272281 CACCACCTCCT-CCTACACCTCTAC
1 CACCACCTCCTACCTACACCACTAC
44272305 CACCAC
1 CACCAC
44272311 TAGCTCCTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 17 0.61
27 11 0.39
ACGTcount: A:0.25, C:0.60, G:0.00, T:0.16
Consensus pattern (25 bp):
CACCACCTCCTACCTACACCACTAC
Found at i:44272324 original size:30 final size:30
Alignment explanation
Indices: 44272206--44272347 Score: 81
Period size: 30 Copynumber: 4.7 Consensus size: 30
44272196 CCACCTCCAG
* * * * *
44272206 CACCTCCACCTCCACTAACTCCTACTCCTC
1 CACCTCCACCACCACCACCACCTACTCCTA
** * * *
44272236 CACCAGCACCTCCGCCAACACC-ACCTCCTA
1 CACCTCCACCACCACCACCACCTA-CTCCTA
* *
44272266 CACCTCCACCACTACCACCACCTCCTCCTA
1 CACCTCCACCACCACCACCACCTACTCCTA
* * * * *
44272296 CACCTCTACCACCACTAGCTCCTACTCCTC
1 CACCTCCACCACCACCACCACCTACTCCTA
* *
44272326 CACCAACC-CCAACACCACCACC
1 CACC-TCCACCACCACCACCACC
44272348 AACACCTGCA
Statistics
Matches: 83, Mismatches: 26, Indels: 6
0.72 0.23 0.05
Matches are distributed among these distances:
29 1 0.01
30 81 0.98
31 1 0.01
ACGTcount: A:0.25, C:0.58, G:0.02, T:0.15
Consensus pattern (30 bp):
CACCTCCACCACCACCACCACCTACTCCTA
Found at i:44272365 original size:42 final size:42
Alignment explanation
Indices: 44272319--44272557 Score: 95
Period size: 42 Copynumber: 5.1 Consensus size: 42
44272309 ACTAGCTCCT
44272319 ACTCCTCCACCAACCCCAACACCACCACCAACACCTGCACCC
1 ACTCCTCCACCAACCCCAACACCACCACCAACACCTGCACCC
** * * * **
44272361 ACTCCAGCACC-TCCACCAACACCACCTCCAGCATCTCCACCACCCC
1 ACTCCTCCACCAACC-CCAACACCACCACCA--A-CACCTGCA-CCC
*
44272407 TAGCACCTCCACCACCCCCAGCCCCAACACCACCACCAACACCTGCACCC
1 -A-CTCCTCCACCA-----A-CCCCAACACCACCACCAACACCTGCACCC
* * * * *
44272457 ACTCCAGCACCTCCACTAACACCACCTCCAGCACCTCCACCACCA-CTAGCTCCT
1 ACT------CCTCCAC---CA--ACC-CCAACACCACCACCAACACCT-GCACCC
* *
44272511 ACTCCTCCACCAACCCCACCACCACCACCAATACCTGCACCC
1 ACTCCTCCACCAACCCCAACACCACCACCAACACCTGCACCC
44272553 ACTCC
1 ACTCC
44272558 AGCACCTCCT
Statistics
Matches: 144, Mismatches: 27, Indels: 52
0.65 0.12 0.23
Matches are distributed among these distances:
41 2 0.01
42 46 0.32
43 5 0.03
44 1 0.01
45 7 0.05
46 3 0.02
47 1 0.01
48 15 0.10
49 1 0.01
50 3 0.02
51 5 0.03
52 1 0.01
53 4 0.03
54 46 0.32
55 2 0.01
57 2 0.01
ACGTcount: A:0.28, C:0.58, G:0.04, T:0.10
Consensus pattern (42 bp):
ACTCCTCCACCAACCCCAACACCACCACCAACACCTGCACCC
Found at i:44272377 original size:24 final size:25
Alignment explanation
Indices: 44272350--44272497 Score: 69
Period size: 24 Copynumber: 6.2 Consensus size: 25
44272340 CCACCACCAA
44272350 CACCTGCACCCA-CTCCAGCACCTC
1 CACCTGCACCCACCTCCAGCACCTC
** *
44272374 CACCAACA-CCACCTCCAGCATCTC
1 CACCTGCACCCACCTCCAGCACCTC
* * * ** *
44272398 CACC-AC-CCCTAGCACCTCCACCAC
1 CACCTGCACCC-ACCTCCAGCACCTC
* * * * * **
44272422 CCCCAGC-CCCAACACCACCACCAA
1 CACCTGCACCCACCTCCAGCACCTC
44272446 CACCTGCACCCA-CTCCAGCACCTC
1 CACCTGCACCCACCTCCAGCACCTC
*
44272470 CA-CT-AACACCACCTCCAGCACCTC
1 CACCTGCAC-CCACCTCCAGCACCTC
44272494 CACC
1 CACC
44272498 ACCACTAGCT
Statistics
Matches: 95, Mismatches: 21, Indels: 15
0.73 0.16 0.11
Matches are distributed among these distances:
22 2 0.02
23 12 0.13
24 72 0.76
25 9 0.09
ACGTcount: A:0.26, C:0.59, G:0.05, T:0.09
Consensus pattern (25 bp):
CACCTGCACCCACCTCCAGCACCTC
Found at i:44272384 original size:54 final size:53
Alignment explanation
Indices: 44272326--44272599 Score: 171
Period size: 54 Copynumber: 5.5 Consensus size: 53
44272316 CCTACTCCTC
44272326 CACCAACCCCAACACCACCACCAACACCTGCACCCACTCCAGCACCTCCACCAA
1 CACC-ACCCCAACACCACCACCAACACCTGCACCCACTCCAGCACCTCCACCAA
* * * * *
44272380 CACCACCTC--CAGCATC-TC--CA-C--CACCC-CT--AGCACCTCCACCAC
1 CACCACCCCAACACCACCACCAACACCTGCACCCACTCCAGCACCTCCACCAA
* *
44272422 CCCCAGCCCCAACACCACCACCAACACCTGCACCCACTCCAGCACCTCCACTAA
1 CACCA-CCCCAACACCACCACCAACACCTGCACCCACTCCAGCACCTCCACCAA
* * * * *
44272476 CACCACCTCCAGCACCTCCACCACCA-CT--A---GCTCCTA-CTCCTCCA-C--
1 CACCACC-CCAACACCACCACCAACACCTGCACCCACTCC-AGCACCTCCACCAA
* * * *
44272521 CA--ACCCCACCACCACCACCAATACCTGCACCCACTCCAGCACCTCCTCCTA
1 CACCACCCCAACACCACCACCAACACCTGCACCCACTCCAGCACCTCCACCAA
* * *
44272572 CACCTCCGCCAACACCACCTCCACCACC
1 CACCACC-CCAACACCACCACCAACACC
44272600 CCTAGCACCT
Statistics
Matches: 162, Mismatches: 31, Indels: 54
0.66 0.13 0.22
Matches are distributed among these distances:
42 31 0.19
43 8 0.05
44 2 0.01
45 13 0.08
46 1 0.01
47 2 0.01
48 25 0.15
49 3 0.02
50 1 0.01
51 13 0.08
52 2 0.01
53 10 0.06
54 51 0.31
ACGTcount: A:0.27, C:0.58, G:0.04, T:0.10
Consensus pattern (53 bp):
CACCACCCCAACACCACCACCAACACCTGCACCCACTCCAGCACCTCCACCAA
Found at i:44272410 original size:96 final size:96
Alignment explanation
Indices: 44272176--44272620 Score: 454
Period size: 96 Copynumber: 4.7 Consensus size: 96
44272166 CCGGCACCTC
* * * * * *
44272176 CTCCTGCACCTCCGCCAACACCACCTCCAGCACCTCCACCTCCACTAACTCCTACTCCTCCACCA
1 CTCCAGCACCTCCACCAACACCACCTCCAGCACCTCCACCACCACTAGCACCTACACCTCCACCA
* * ** * * * * *
44272241 GCACCTCCGCCAACACCACCTCCT--ACAC-
66 ACCCCAACACCACCACCAACACCTGCACCCA
* * * * * *
44272269 CTCCACCA-CT--ACCACCACCTCCTCCTA-CACCTCTACCACCACTAGCTCCTACTCCTCCACC
1 CTCCAGCACCTCCACCAACACCACCTCC-AGCACCTCCACCACCACTAGCACCTACACCTCCACC
44272330 AACCCCAACACCACCACCAACACCTGCACCCA
65 AACCCCAACACCACCACCAACACCTGCACCCA
* * * * *
44272362 CTCCAGCACCTCCACCAACACCACCTCCAGCATCTCCACCACCCCTAGCACCTCCACCACCCCCA
1 CTCCAGCACCTCCACCAACACCACCTCCAGCACCTCCACCACCACTAGCACCTACACCTCCACCA
*
44272427 GCCCCAACACCACCACCAACACCTGCACCCA
66 ACCCCAACACCACCACCAACACCTGCACCCA
* * *
44272458 CTCCAGCACCTCCACTAACACCACCTCCAGCACCTCCACCACCACTAGCTCCTACTCCTCCACCA
1 CTCCAGCACCTCCACCAACACCACCTCCAGCACCTCCACCACCACTAGCACCTACACCTCCACCA
* *
44272523 ACCCCACCACCACCACCAATACCTGCACCCA
66 ACCCCAACACCACCACCAACACCTGCACCCA
* * * * * * *
44272554 CTCCAGCACCTCCTCCTACACCTCCGCCAACACCACCTCCACCACCCCTAGCACCTCCACCTCCA
1 CTCCAGCACCTCCACCAACACCACC-TC--CAGCACCTCCACCACCACTAGCACCTACACCTCCA
44272619 CC
63 CC
44272621 TCCACCTCCA
Statistics
Matches: 291, Mismatches: 50, Indels: 16
0.82 0.14 0.04
Matches are distributed among these distances:
90 60 0.21
91 1 0.00
92 5 0.02
93 13 0.04
94 2 0.01
95 1 0.00
96 176 0.60
97 1 0.00
99 32 0.11
ACGTcount: A:0.25, C:0.58, G:0.04, T:0.13
Consensus pattern (96 bp):
CTCCAGCACCTCCACCAACACCACCTCCAGCACCTCCACCACCACTAGCACCTACACCTCCACCA
ACCCCAACACCACCACCAACACCTGCACCCA
Found at i:44272499 original size:18 final size:18
Alignment explanation
Indices: 44272380--44272500 Score: 84
Period size: 18 Copynumber: 6.4 Consensus size: 18
44272370 CCTCCACCAA
*
44272380 CACCACCTCCAGCATCTC
1 CACCACCTCCAGCACCTC
44272398 CACCACC-CCTAGCACCTC
1 CACCACCTCC-AGCACCTC
* * **
44272416 CACCACCCCCAGCCCCAA
1 CACCACCTCCAGCACCTC
* * *
44272434 CACCACCACCAACACCTG
1 CACCACCTCCAGCACCTC
44272452 CACC-CACTCCAGCACCTCCAC
1 CACCAC-CTCCAGCACCT---C
44272473 TAACACCACCTCCAGCACCTC
1 ---CACCACCTCCAGCACCTC
44272494 CACCACC
1 CACCACC
44272501 ACTAGCTCCT
Statistics
Matches: 81, Mismatches: 12, Indels: 20
0.72 0.11 0.18
Matches are distributed among these distances:
17 3 0.04
18 59 0.73
19 2 0.02
21 1 0.01
24 15 0.19
25 1 0.01
ACGTcount: A:0.26, C:0.60, G:0.05, T:0.09
Consensus pattern (18 bp):
CACCACCTCCAGCACCTC
Found at i:44272509 original size:24 final size:24
Alignment explanation
Indices: 44272362--44272449 Score: 73
Period size: 24 Copynumber: 3.9 Consensus size: 24
44272352 CCTGCACCCA
44272362 CTCCAGCACCTCCACCAACACCAC
1 CTCCAGCACCTCCACCAACACCAC
*
44272386 CTCCAGCATCTCCA-C--CACC-C
1 CTCCAGCACCTCCACCAACACCAC
* *
44272406 CT--AGCACCTCCACCACCCCCAGC
1 CTCCAGCACCTCCACCAACACCA-C
* *
44272429 C-CCAACACCACCACCAACACC
1 CTCCAGCACCTCCACCAACACC
44272450 TGCACCCACT
Statistics
Matches: 50, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
18 9 0.18
19 1 0.02
20 3 0.06
21 7 0.14
23 3 0.06
24 27 0.54
ACGTcount: A:0.27, C:0.60, G:0.05, T:0.08
Consensus pattern (24 bp):
CTCCAGCACCTCCACCAACACCAC
Done.