Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 19 of 211
Found at i:5116718 original size:34 final size:35
Alignment explanation
Indices: 5116658--5116724 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
5116648 CAAACACCAG
* *
5116658 AAAATATTTTCCAGTAAGTCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
5116693 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
5116725 CATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:5118648 original size:17 final size:17
Alignment explanation
Indices: 5118623--5118656 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
5118613 TAAAAAAAAG
*
5118623 CATGTCATTTTCTTTAA
1 CATGCCATTTTCTTTAA
5118640 CATGCCATTTTCTTTAA
1 CATGCCATTTTCTTTAA
5118657 TCGAATAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.21, G:0.06, T:0.50
Consensus pattern (17 bp):
CATGCCATTTTCTTTAA
Found at i:5121355 original size:15 final size:15
Alignment explanation
Indices: 5121330--5121364 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
5121320 AACTCTATTT
*
5121330 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
5121344 TAATTAATATTAAGA
1 TAATTAATATTAAGA
5121359 TAATTA
1 TAATTA
5121365 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:5129344 original size:16 final size:15
Alignment explanation
Indices: 5129310--5129345 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
5129300 ATGTTATTTC
5129310 AAAATTAAAACAATGA
1 AAAATTAAAACAAT-A
*
5129326 AAACTTAAAACAATA
1 AAAATTAAAACAATA
5129341 AAAAT
1 AAAAT
5129346 ATTATCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.69, C:0.08, G:0.03, T:0.19
Consensus pattern (15 bp):
AAAATTAAAACAATA
Found at i:5140853 original size:15 final size:14
Alignment explanation
Indices: 5140813--5140860 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 14
5140803 AAATTTCAAT
5140813 AAATAAAAAATATA
1 AAATAAAAAATATA
**
5140827 AAATTATTAAATATTA
1 AAA-TAAAAAATA-TA
5140843 AAATAAAAAATA-A
1 AAATAAAAAATATA
5140856 AAATA
1 AAATA
5140861 TATTTTTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
13 6 0.21
14 3 0.11
15 14 0.50
16 5 0.18
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
AAATAAAAAATATA
Found at i:5145995 original size:25 final size:25
Alignment explanation
Indices: 5145967--5146022 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
5145957 CATATAGTAA
*
5145967 GAAGCTCATATAAGCTGTATAACGG
1 GAAGCTCATACAAGCTGTATAACGG
* * **
5145992 GAAGCTTATCCGGGCTGTATAACGG
1 GAAGCTCATACAAGCTGTATAACGG
5146017 GAAGCT
1 GAAGCT
5146023 TATAAGAGCC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (25 bp):
GAAGCTCATACAAGCTGTATAACGG
Found at i:5146097 original size:25 final size:25
Alignment explanation
Indices: 5146067--5146206 Score: 101
Period size: 25 Copynumber: 5.6 Consensus size: 25
5146057 AATAACAGGT
*
5146067 AGCTTCGAAGAGCCATTAATTGGGA
1 AGCTTCGAAGAGCCATTAATCGGGA
* * *
5146092 AGCTTCGGATAGCCA-TATATCAGGA
1 AGCTTCGAAGAGCCATTA-ATCGGGA
*
5146117 AG-TTC-AAGCGAGCCA-T-ATTGGGA
1 AGCTTCGAA--GAGCCATTAATCGGGA
* * *
5146140 AGCTCCAAAGAGCCATTAATCAGGA
1 AGCTTCGAAGAGCCATTAATCGGGA
* * **
5146165 AGCTCACAAAGAGCTTTTAATCGGGA
1 AGCT-TCGAAGAGCCATTAATCGGGA
5146191 AGCTTCGAAGAGCCAT
1 AGCTTCGAAGAGCCAT
5146207 ATTTTGAAAC
Statistics
Matches: 88, Mismatches: 19, Indels: 16
0.72 0.15 0.13
Matches are distributed among these distances:
23 14 0.16
24 8 0.09
25 45 0.51
26 21 0.24
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.21
Consensus pattern (25 bp):
AGCTTCGAAGAGCCATTAATCGGGA
Found at i:5146151 original size:73 final size:73
Alignment explanation
Indices: 5146029--5146168 Score: 174
Period size: 73 Copynumber: 1.9 Consensus size: 73
5146019 AGCTTATAAG
* * * * **
5146029 AGCCATAATCAGGAAGCTCATGCGAGCCAATAACAGGTAGCTTCGAAGAGCCATTAATTGGGAAG
1 AGCCATAATCAGGAAGCTCAAGCGAGCCAATAACAGGAAGCTCCAAAGAGCCATTAATCAGGAAG
5146094 CTTCGGAT
66 CTTCGGAT
* ***
5146102 AGCCATATATCAGGAAGTTCAAGCGAGCC-ATATTGGGAAGCTCCAAAGAGCCATTAATCAGGAA
1 AGCCATA-ATCAGGAAGCTCAAGCGAGCCAATAACAGGAAGCTCCAAAGAGCCATTAATCAGGAA
5146166 GCT
65 GCT
5146169 CACAAAGAGC
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
73 37 0.66
74 19 0.34
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.20
Consensus pattern (73 bp):
AGCCATAATCAGGAAGCTCAAGCGAGCCAATAACAGGAAGCTCCAAAGAGCCATTAATCAGGAAG
CTTCGGAT
Found at i:5146178 original size:26 final size:25
Alignment explanation
Indices: 5146026--5146206 Score: 88
Period size: 25 Copynumber: 7.4 Consensus size: 25
5146016 GGAAGCTTAT
5146026 AAGAGCCA-TAATCAGGAAGCT-CA
1 AAGAGCCATTAATCAGGAAGCTCCA
** * * * *
5146049 TGCGAGCCAATAA-CAGGTAGCTTCG
1 -AAGAGCCATTAATCAGGAAGCTCCA
** * *
5146074 AAGAGCCATTAATTGGGAAGCTTCG
1 AAGAGCCATTAATCAGGAAGCTCCA
* * *
5146099 GATAGCCA-TATATCAGGAAG-TTCA
1 AAGAGCCATTA-ATCAGGAAGCTCCA
* **
5146123 AGCGAGCCA-T-ATTGGGAAGCTCCA
1 A-AGAGCCATTAATCAGGAAGCTCCA
5146147 AAGAGCCATTAATCAGGAAGCTCACA
1 AAGAGCCATTAATCAGGAAGCTC-CA
** * * *
5146173 AAGAGCTTTTAATCGGGAAGCTTCG
1 AAGAGCCATTAATCAGGAAGCTCCA
5146198 AAGAGCCAT
1 AAGAGCCAT
5146207 ATTTTGAAAC
Statistics
Matches: 117, Mismatches: 31, Indels: 17
0.71 0.19 0.10
Matches are distributed among these distances:
23 13 0.11
24 33 0.28
25 50 0.43
26 21 0.18
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (25 bp):
AAGAGCCATTAATCAGGAAGCTCCA
Found at i:5159294 original size:186 final size:186
Alignment explanation
Indices: 5159071--5159439 Score: 720
Period size: 186 Copynumber: 2.0 Consensus size: 186
5159061 TAAAATCATG
5159071 TATATTTATATGAAAATTTTTATGTATTAGTAATATTTTATTAATGAAATAAAAATTTAGTGAAG
1 TATATTTATATGAAAATTTTTATGTATTAGTAATATTTTATTAATGAAATAAAAATTTAGTGAAG
5159136 AAAAATTTTCAGATCTTATTAATTAAGAAAATTTTGACTAAAGATATATTAATATTGTTATGATT
66 AAAAATTTTCAGATCTTATTAATTAAGAAAATTTTGACTAAAGATATATTAATATTGTTATGATT
*
5159201 TTTATAGACATAATCAATGTAAAGTTTTGATTAATTTTTTTTATGAAAATTAATAT
131 TTTATAGACATAATCAATGTAAAGTTTTGATTAAATTTTTTTATGAAAATTAATAT
*
5159257 TATATTTATATGAAATTTTTTATGTATTAGTAATATTTTATTAATGAAATAAAAATTTAGTGAAG
1 TATATTTATATGAAAATTTTTATGTATTAGTAATATTTTATTAATGAAATAAAAATTTAGTGAAG
5159322 AAAAATTTTCAGATCTTATTAATTAAGAAAATTTTGACTAAAGATATATTAATATTGTTATGATT
66 AAAAATTTTCAGATCTTATTAATTAAGAAAATTTTGACTAAAGATATATTAATATTGTTATGATT
5159387 TTTATAGACATAATCAATGTAAAGTTTTGATTAAATTTTTTTATGAAAATTAA
131 TTTATAGACATAATCAATGTAAAGTTTTGATTAAATTTTTTTATGAAAATTAA
5159440 CTATAAATGA
Statistics
Matches: 181, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
186 181 1.00
ACGTcount: A:0.42, C:0.03, G:0.10, T:0.46
Consensus pattern (186 bp):
TATATTTATATGAAAATTTTTATGTATTAGTAATATTTTATTAATGAAATAAAAATTTAGTGAAG
AAAAATTTTCAGATCTTATTAATTAAGAAAATTTTGACTAAAGATATATTAATATTGTTATGATT
TTTATAGACATAATCAATGTAAAGTTTTGATTAAATTTTTTTATGAAAATTAATAT
Found at i:5161099 original size:161 final size:161
Alignment explanation
Indices: 5160834--5161125 Score: 496
Period size: 161 Copynumber: 1.8 Consensus size: 161
5160824 TATATACGAA
* * *
5160834 ATTTTTAATTAATTAAATGTCATACTTTATTTTGTTGAGTAAATTTATATGTAGAATTTGTAAAT
1 ATTTTTAATTAACTAAATGTAATACTTTATTTTGTTGAATAAATTTATATGTAGAATTTGTAAAT
* *
5160899 CAAGTATTGATTTATCTATCTATAAGAAAAATATTAATTTGACTTAAGTTAAAGTCTTGCCTCTA
66 CAAGTATTAATTTATCTATCTATAAGAAAAATATTAATTTGACTGAAGTTAAAGTCTTGCCTCTA
5160964 CCTCATCTTTTTTTTTTCTAGAGTGCTAATT
131 CCTCATCTTTTTTTTTTCTAGAGTGCTAATT
*
5160995 ATTTTTAATTAACTAAATGTAATGCTTTTATTTTGTTGAATAAATTTATATGTAGAATTTGTAAA
1 ATTTTTAATTAACTAAATGTAATAC-TTTATTTTGTTGAATAAATTTATATGTAGAATTTGTAAA
* *
5161060 -CAAGTATTAATTTTTCTATCTATAAGAAAAATATTAATTTGACTGAATTTAAAGTCTTGCCTCT
65 TCAAGTATTAATTTATCTATCTATAAGAAAAATATTAATTTGACTGAAGTTAAAGTCTTGCCTCT
5161124 AC
130 AC
5161126 TTTCTCTCTT
Statistics
Matches: 122, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
161 84 0.69
162 38 0.31
ACGTcount: A:0.34, C:0.09, G:0.10, T:0.46
Consensus pattern (161 bp):
ATTTTTAATTAACTAAATGTAATACTTTATTTTGTTGAATAAATTTATATGTAGAATTTGTAAAT
CAAGTATTAATTTATCTATCTATAAGAAAAATATTAATTTGACTGAAGTTAAAGTCTTGCCTCTA
CCTCATCTTTTTTTTTTCTAGAGTGCTAATT
Found at i:5162409 original size:25 final size:26
Alignment explanation
Indices: 5162359--5162421 Score: 85
Period size: 25 Copynumber: 2.5 Consensus size: 26
5162349 AAAAGGTTCG
*
5162359 AATAAACAATATACAAGAAAACTTAA
1 AATAAATAATATACAAGAAAACTTAA
*
5162385 AATAAATTAATATA-AA-AAAATTTAA
1 AATAAA-TAATATACAAGAAAACTTAA
5162410 AATAAATAATAT
1 AATAAATAATAT
5162422 TATATATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
24 6 0.18
25 14 0.41
26 8 0.24
27 6 0.18
ACGTcount: A:0.67, C:0.05, G:0.02, T:0.27
Consensus pattern (26 bp):
AATAAATAATATACAAGAAAACTTAA
Found at i:5164435 original size:132 final size:132
Alignment explanation
Indices: 5164193--5165043 Score: 1420
Period size: 132 Copynumber: 6.4 Consensus size: 132
5164183 TGCCAGCGTC
* * * * *
5164193 GATCGGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCATCGTCGATCGAC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
* *
5164258 TTCCTACCAATATAGGAAGACAGGACTTGCTGTCTTCGATCTACTTCACGCCAATACATGAAGAT
66 TTCCTACCAATATAGGAAGACAGGACTTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
5164323 AA
131 AA
* *
5164325 GATCTGCTTTCTGCGATCTACTTTGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
* * * *
5164390 TTCCTACCGATATAGGAAGATAGGA-TCTGCTATATTCGATCTACTTCACGTCAATACATGAAGA
66 TTCCTACCAATATAGGAAGACAGGACT-TGCTATCTTCGATCTACTTCACGCCAATACATGAAGA
*
5164454 TAA
130 CAA
* *
5164457 GATCTGCTTTCTGCGATCTACTTTGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
* *
5164522 TTCCTACCAATATAGGAAGATAGGA-TCTGATATCTTCGATCTACTTCACGCCAATACATGAAGA
66 TTCCTACCAATATAGGAAGACAGGACT-TGCTATCTTCGATCTACTTCACGCCAATACATGAAGA
5164586 CAA
130 CAA
5164589 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
* *
5164654 TTCCTACCAATATAGGAAGACAGGACTTGCTGTCTTCGATCTACTTCACGCCAATACATGAAGAT
66 TTCCTACCAATATAGGAAGACAGGACTTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
5164719 AA
131 AA
* *
5164721 GATCTGCTTTCTGCGATCTACTTTGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
* *
5164786 TTCCTACCAATATAGGAAGATAGGA-TCTGATATCTTCGATCTACTTCACGCCAATACATGAAGA
66 TTCCTACCAATATAGGAAGACAGGACT-TGCTATCTTCGATCTACTTCACGCCAATACATGAAGA
5164850 CAA
130 CAA
5164853 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
*
5164918 TTCCTACCAATATAGGAAGACAGGACTTGCTGTCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGACAGGACTTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
5164983 AA
131 AA
5164985 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCAATCTTC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-ATCTTC
5165044 AATCTATTCC
Statistics
Matches: 680, Mismatches: 34, Indels: 9
0.94 0.05 0.01
Matches are distributed among these distances:
131 2 0.00
132 670 0.99
133 8 0.01
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (132 bp):
GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
TTCCTACCAATATAGGAAGACAGGACTTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
AA
Found at i:5165091 original size:45 final size:45
Alignment explanation
Indices: 5165040--5165199 Score: 135
Period size: 45 Copynumber: 3.4 Consensus size: 45
5165030 GATCTGCAAT
*
5165040 CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
* * * * * *
5165085 CTTCAATCTACTCCACTG--TAGTCACAGGGAGGTAAAATCTGCCATCTTTGAT
1 CTTCAATCTACTCCACTGCCAAAT-ACAGGGAGATAGAGT-T---ATC---G-G
* *
5165137 CTTCAATCTATTCCACTGCCAAATGCAGGGAGATAGAGTTATCGG
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
*
5165182 CTTCAATGTACTCCACTG
1 CTTCAATCTACTCCACTG
5165200 TGGTCAGGGA
Statistics
Matches: 87, Mismatches: 17, Indels: 22
0.69 0.13 0.17
Matches are distributed among these distances:
43 2 0.02
44 12 0.14
45 34 0.39
46 1 0.01
48 3 0.03
49 3 0.03
51 1 0.01
52 18 0.21
53 11 0.13
54 2 0.02
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (45 bp):
CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
Found at i:5165152 original size:97 final size:95
Alignment explanation
Indices: 5165038--5165233 Score: 338
Period size: 97 Copynumber: 2.0 Consensus size: 95
5165028 AAGATCTGCA
5165038 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATCTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATCTACTCCACTG
*
5165103 TAGTCACAGGGAGGTAAAATCTGCCATCTTTG
66 TAGT--CAGGGAGGTAAAATCTGCCATCTTCG
* *
5165135 ATCTTCAATCTATTCCACTGCCAAATGCAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATCTACTCCACTG
*
5165200 TGGTCAGGGAGGTAAAATCTGCCATCTTCG
66 TAGTCAGGGAGGTAAAATCTGCCATCTTCG
5165230 ATCT
1 ATCT
5165234 GCTTCGCTGC
Statistics
Matches: 95, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
95 29 0.31
97 66 0.69
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (95 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATCTACTCCACTG
TAGTCAGGGAGGTAAAATCTGCCATCTTCG
Found at i:5165450 original size:84 final size:86
Alignment explanation
Indices: 5165224--5165571 Score: 547
Period size: 86 Copynumber: 4.1 Consensus size: 86
5165214 AAATCTGCCA
* * *
5165224 TCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTGCTA
1 TCTTCGATCTGCTTCGCTGTC-AATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACTA
5165289 CAAACGAGAGAGGCAAGGTTTG
65 CAAACGAGAGAGGCAAGGTTTG
* *
5165311 TCTTCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTACTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACTAC
*
5165376 AAACGAGAGTGGCAAGGTTTG
66 AAACGAGAGAGGCAAGGTTTG
*
5165397 TCTTCGATCTG-TTCGCTGTCAATGCAGG-AGGCAAGATCTGCTATCTTCAACCAGCTCTACTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACTAC
*
5165460 AAACGAGAGTGGCAAGGTTTG
66 AAACGAGAGAGGCAAGGTTTG
* * *
5165481 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATAACTTTAACCAGCTCTGCTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACTAC
* * *
5165546 GACCGAGAGAGGCAAGGTTTA
66 AAACGAGAGAGGCAAGGTTTG
5165567 TCTTC
1 TCTTC
5165572 AATTTTTACT
Statistics
Matches: 244, Mismatches: 15, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
84 67 0.27
85 33 0.14
86 124 0.51
87 20 0.08
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (86 bp):
TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACTAC
AAACGAGAGAGGCAAGGTTTG
Found at i:5165537 original size:170 final size:173
Alignment explanation
Indices: 5165223--5165571 Score: 551
Period size: 170 Copynumber: 2.0 Consensus size: 173
5165213 AAAATCTGCC
*
5165223 ATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTGCT
1 ATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACT
*
5165288 ACAAACGAGAGAGGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTG
66 ACAAACGAGAGAGGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTG
* * *
5165353 CTATCTTCAACCAGCTCTACTACAAACGAGAGTGGCAAGGTTT
131 ATAACTTCAACCAGCTCTACTACAAACGAGAGAGGCAAGGTTT
* * * *
5165396 GTCTTCGATCTG-TTCGCTGTC-AATGCAGG-AGGCAAGATCTGCTATCTTCAACCAGCTCTACT
1 ATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACT
*
5165458 ACAAACGAGAGTGGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTG
66 ACAAACGAGAGAGGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTG
* * * *
5165523 ATAACTTTAACCAGCTCTGCTACGACCGAGAGAGGCAAGGTTT
131 ATAACTTCAACCAGCTCTACTACAAACGAGAGAGGCAAGGTTT
5165566 ATCTTC
1 ATCTTC
5165572 AATTTTTACT
Statistics
Matches: 161, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
170 135 0.84
171 7 0.04
172 8 0.05
173 11 0.07
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.26
Consensus pattern (173 bp):
ATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACT
ACAAACGAGAGAGGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTG
ATAACTTCAACCAGCTCTACTACAAACGAGAGAGGCAAGGTTT
Found at i:5169697 original size:19 final size:20
Alignment explanation
Indices: 5169673--5169716 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
5169663 CGTGAAAGTC
* *
5169673 TAATGCATATG-ATGCAATG
1 TAATGCAAATGCATGAAATG
5169692 TAATGCAAATGCATGAAATG
1 TAATGCAAATGCATGAAATG
5169712 -AATGC
1 TAATGC
5169717 CAAAAGAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.27
Consensus pattern (20 bp):
TAATGCAAATGCATGAAATG
Found at i:5171628 original size:2 final size:2
Alignment explanation
Indices: 5171616--5171655 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
5171606 ATACAACAAA
* *
5171616 AT AT A- AT AT AT AT AT AT AT AT AT AA AT AT AA AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5171656 CAACAATCTA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (2 bp):
AT
Found at i:5171786 original size:25 final size:26
Alignment explanation
Indices: 5171724--5171787 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 26
5171714 AAAAGGTTCG
* *
5171724 AATAAACAATATACAAGAAAACTTAA
1 AATAAATAATATACAAAAAAACTTAA
*
5171750 AATAAATGAATATA-AAAAAAATTTAA
1 AATAAAT-AATATACAAAAAAACTTAA
5171776 AATAAATAATAT
1 AATAAATAATAT
5171788 TATATATATA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
25 5 0.15
26 23 0.68
27 6 0.18
ACGTcount: A:0.67, C:0.05, G:0.03, T:0.25
Consensus pattern (26 bp):
AATAAATAATATACAAAAAAACTTAA
Found at i:5176226 original size:15 final size:15
Alignment explanation
Indices: 5176202--5176235 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
5176192 AACAATTACG
* *
5176202 ATAATGCGAGTAAAA
1 ATAATACGAGCAAAA
5176217 ATAATACGAGCAAAA
1 ATAATACGAGCAAAA
5176232 ATAA
1 ATAA
5176236 CAAAAATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.59, C:0.09, G:0.15, T:0.18
Consensus pattern (15 bp):
ATAATACGAGCAAAA
Found at i:5177243 original size:11 final size:10
Alignment explanation
Indices: 5177225--5177250 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
5177215 TATAAACAGC
5177225 ACAAAAAAAA
1 ACAAAAAAAA
5177235 ACAAAAAAAA
1 ACAAAAAAAA
5177245 ACAAAA
1 ACAAAA
5177251 GAAGTCCCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (10 bp):
ACAAAAAAAA
Found at i:5178480 original size:45 final size:45
Alignment explanation
Indices: 5178420--5178577 Score: 124
Period size: 45 Copynumber: 3.4 Consensus size: 45
5178410 GATCTGTAAT
*
5178420 CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
* * * * * * *
5178465 CTTCAATGTACTCCACTG--TAGT-CAGGGAGGTAAAATCTGCCATCTTCGAT
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGT-T---A---TCG-G
* *
5178515 CTTCAATCTATTCCACTGCCAAATACGGGGAGATAGAGTTATCGG
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
*
5178560 CTTCAATGTACTCCACTG
1 CTTCAATCTACTCCACTG
5178578 TAGTCAGGGA
Statistics
Matches: 83, Mismatches: 19, Indels: 22
0.67 0.15 0.18
Matches are distributed among these distances:
42 11 0.13
43 3 0.04
45 32 0.39
46 4 0.05
49 4 0.05
50 16 0.19
52 3 0.04
53 10 0.12
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (45 bp):
CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
Found at i:5178556 original size:95 final size:95
Alignment explanation
Indices: 5178418--5178645 Score: 429
Period size: 95 Copynumber: 2.4 Consensus size: 95
5178408 AAGATCTGTA
5178418 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
5178483 TAGTCAGGGAGGTAAAATCTGCCATCTTCG
66 TAGTCAGGGAGGTAAAATCTGCCATCTTCG
*
5178513 ATCTTCAATCTATTCCACTGCCAAATACGGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
*
5178578 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
66 TAGTCAGGGAGGTAAAATCTGCCATCTTCG
*
5178608 ATCTTCAATCTATTCCACTGCCAAATACAAGGAGATAG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAG
5178646 GATCTGTTTT
Statistics
Matches: 129, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
95 129 1.00
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (95 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
TAGTCAGGGAGGTAAAATCTGCCATCTTCG
Found at i:5178686 original size:95 final size:94
Alignment explanation
Indices: 5178418--5178706 Score: 316
Period size: 95 Copynumber: 3.0 Consensus size: 94
5178408 AAGATCTGTA
* ** **
5178418 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAAGGAGATAGAG-TATCGGCTTCAATCCACTCCACAA
*
5178483 TAGTCAGGGAGGTAAAATCTGCCATCTTCG
65 TAGTCAGGAAGGTAAAATCTGCCATCTTCG
** ** **
5178513 ATCTTCAATCTATTCCACTGCCAAATACGGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAAGGAGATAGAG-TATCGGCTTCAATCCACTCCACAA
* *
5178578 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
65 TAGTCAGGAAGGTAAAATCTGCCATCTTCG
**
5178608 ATCTTCAATCTATTCCACTGCCAAATACAAGGAGATAG-G-ATCTGTTTTTCAATCCACGTCCTA
1 ATCTTCAATCTATTCCACTGCCAAATACAAGGAGATAGAGTATC-G-GCTTCAATCCAC-TCC-A
** *
5178671 CCAATA-T-AGGAAGGTAGGATCTGCTATCTTCG
62 -CAATAGTCAGGAAGGTAAAATCTGCCATCTTCG
5178703 ATCT
1 ATCT
5178707 ACTTCAAACC
Statistics
Matches: 174, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
92 3 0.02
93 1 0.01
94 9 0.05
95 156 0.90
96 2 0.01
97 3 0.02
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (94 bp):
ATCTTCAATCTATTCCACTGCCAAATACAAGGAGATAGAGTATCGGCTTCAATCCACTCCACAAT
AGTCAGGAAGGTAAAATCTGCCATCTTCG
Found at i:5179987 original size:23 final size:23
Alignment explanation
Indices: 5179961--5180057 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
5179951 ATAAGTGCCA
5179961 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
5179984 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
5180007 CACTG-GATGTAGCC-AAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
5180028 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
5180051 CACTGAT
1 CACTGAT
5180058 CAATAACACT
Statistics
Matches: 69, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
21 12 0.17
22 16 0.23
23 41 0.59
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:5180028 original size:44 final size:45
Alignment explanation
Indices: 5179968--5180055 Score: 160
Period size: 44 Copynumber: 2.0 Consensus size: 45
5179958 CCACACTGAT
*
5179968 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCGAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
5180013 ATGTAGCC-AAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
1 ATGTAGCCGAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
5180056 ATCAATAACA
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
44 34 0.81
45 8 0.19
ACGTcount: A:0.31, C:0.27, G:0.23, T:0.19
Consensus pattern (45 bp):
ATGTAGCCGAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:5181446 original size:44 final size:44
Alignment explanation
Indices: 5181398--5181613 Score: 202
Period size: 44 Copynumber: 4.9 Consensus size: 44
5181388 CACTTCCTAT
* * *
5181398 CAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGC
1 CAATATAGGAAGACAAGACCTGCTATCTTCGATCTACTTCACAC
* * * * *
5181442 CAATACATGAAGACAAGACCTGCTTTCTGCGATCTACTTCGCCAC
1 CAATATAGGAAGACAAGACCTGCTATCTTCGATCTACTTC-ACAC
* * * * *
5181487 CAATATGGGAAGACAAGATCTGC-ATCTTGGATCCACTTC-CTAT
1 CAATATAGGAAGACAAGACCTGCTATCTTCGATCTACTTCAC-AC
* * *
5181530 CAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGC
1 CAATATAGGAAGACAAGACCTGCTATCTTCGATCTACTTCACAC
* * * * * *
5181574 CAATACATGAAGACAAGATCTACTTTCTGCGATCTACTTC
1 CAATATAGGAAGACAAGACCTGCTATCTTCGATCTACTTC
5181614 GCCTGTAACA
Statistics
Matches: 135, Mismatches: 33, Indels: 8
0.77 0.19 0.05
Matches are distributed among these distances:
42 1 0.01
43 20 0.15
44 92 0.68
45 22 0.16
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (44 bp):
CAATATAGGAAGACAAGACCTGCTATCTTCGATCTACTTCACAC
Found at i:5181614 original size:132 final size:132
Alignment explanation
Indices: 5181377--5181616 Score: 462
Period size: 132 Copynumber: 1.8 Consensus size: 132
5181367 CGGGCTATCA
5181377 CATCTTGGATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGC
1 CATCTTGGATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGC
*
5181442 CAATACATGAAGACAAGACCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATC
66 CAATACATGAAGACAAGACCTACTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATC
5181507 TG
131 TG
5181509 CATCTTGGATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGC
1 CATCTTGGATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGC
*
5181574 CAATACATGAAGACAAGATCTACTTTCTGCGATCTACTTCGCC
66 CAATACATGAAGACAAGACCTACTTTCTGCGATCTACTTCGCC
5181617 TGTAACAGCC
Statistics
Matches: 106, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
132 106 1.00
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (132 bp):
CATCTTGGATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGC
CAATACATGAAGACAAGACCTACTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATC
TG
Found at i:5182023 original size:5 final size:5
Alignment explanation
Indices: 5182013--5182083 Score: 58
Period size: 5 Copynumber: 13.8 Consensus size: 5
5182003 GTGTTAAAAA
* *
5182013 ATATT ATATT ATAGTA ATGATT ATGTTTT ATATT ATATT ATCATT A-A-T
1 ATATT ATATT ATA-TT AT-ATT AT-AT-T ATATT ATATT AT-ATT ATATT
5182061 ATATT ATATT ATATT ATA-T ATAT
1 ATATT ATATT ATATT ATATT ATAT
5182084 ACATAAACAA
Statistics
Matches: 55, Mismatches: 4, Indels: 14
0.75 0.05 0.19
Matches are distributed among these distances:
3 2 0.04
4 6 0.11
5 30 0.55
6 13 0.24
7 4 0.07
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.55
Consensus pattern (5 bp):
ATATT
Found at i:5182063 original size:19 final size:19
Alignment explanation
Indices: 5182041--5182083 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
5182031 GATTATGTTT
5182041 TATATTATATTATCATTA-A
1 TATATTATATTAT-ATTATA
5182060 TATATTATATTATATTATA
1 TATATTATATTATATTATA
5182079 TATAT
1 TATAT
5182084 ACATAAACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
TATATTATATTATATTATA
Found at i:5182067 original size:24 final size:23
Alignment explanation
Indices: 5182013--5182084 Score: 76
Period size: 24 Copynumber: 3.1 Consensus size: 23
5182003 GTGTTAAAAA
* *
5182013 ATATTATATTATAGTAATGATTAT
1 ATATTATATTATA-TTATCATTAT
* *
5182037 GTTTTATATTATATTATCATTAAT
1 ATATTATATTATATTATCATT-AT
5182061 ATATTATATTATATTAT-A-TAT
1 ATATTATATTATATTATCATTAT
5182082 ATA
1 ATA
5182085 CATAAACAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
21 5 0.12
22 1 0.02
23 7 0.17
24 28 0.68
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.54
Consensus pattern (23 bp):
ATATTATATTATATTATCATTAT
Found at i:5182625 original size:29 final size:30
Alignment explanation
Indices: 5182566--5182623 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
5182556 TCCGAGCCTT
*
5182566 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
5182596 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
5182624 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:5183014 original size:46 final size:44
Alignment explanation
Indices: 5182954--5183068 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
5182944 ACAGAACAGA
* *
5182954 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
5183000 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
5183044 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
5183069 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:5183049 original size:44 final size:45
Alignment explanation
Indices: 5182954--5183087 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
5182944 ACAGAACAGA
* *
5182954 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
5183000 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
5183044 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
5183088 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:5184419 original size:44 final size:43
Alignment explanation
Indices: 5184325--5184780 Score: 452
Period size: 44 Copynumber: 10.4 Consensus size: 43
5184315 TGTTACATCG
* **
5184325 CCACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCCCTT
1 CCACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTT
* * *
5184367 CCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTT
1 CC-ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTT
* * * * *
5184411 CACGCCAATACATGAAGACAAGATCTGCTTTCTACGATCTACTT
1 C-CACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTT
* *
5184455 CGCCACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCACTT
1 --CCACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTT
* * *
5184499 CCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTT
1 CC-ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTT
* * * * * *
5184543 CACGCCAATACATGAAGACAAGATCTGCTTTCTGCAATCTACTT
1 C-CACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTT
* * *
5184587 CGCCACCAATATGGGAAGACAAGATCTGC-ATCTTCGGTCCACTT
1 --CCACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTT
* * *
5184631 CCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTT
1 CC-ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTT
* * * *
5184675 CACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTT
1 C-CACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTT
* * *
5184719 CGCCACCAATATGGGAAGACAAGATCTGC-ATCTTTGATCCACTT
1 --CCACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTT
5184763 CCTACCAATATAGGAAGA
1 CC-ACCAATATAGGAAGA
5184781 TAGGACCTAT
Statistics
Matches: 333, Mismatches: 65, Indels: 31
0.78 0.15 0.07
Matches are distributed among these distances:
42 8 0.02
43 80 0.24
44 173 0.52
45 69 0.21
46 3 0.01
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.26
Consensus pattern (43 bp):
CCACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTT
Found at i:5184559 original size:132 final size:132
Alignment explanation
Indices: 5184322--5184785 Score: 874
Period size: 132 Copynumber: 3.5 Consensus size: 132
5184312 GGGTGTTACA
*
5184322 TCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCCCTTCCTACCAATATAGGAAGATA
1 TCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATA
5184387 GGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTACGATCTA
66 GGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTACGATCTA
5184452 CT
131 CT
5184454 TCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATA
1 TCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATA
* *
5184519 GGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCAATCTA
66 GGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTACGATCTA
5184584 CT
131 CT
*
5184586 TCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGGTCCACTTCCTACCAATATAGGAAGATA
1 TCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATA
*
5184651 GGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTA
66 GGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTACGATCTA
5184716 CT
131 CT
*
5184718 TCGCCACCAATATGGGAAGACAAGATCTGCATCTTTGATCCACTTCCTACCAATATAGGAAGATA
1 TCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATA
5184783 GGA
66 GGA
5184786 CCTATTTACG
Statistics
Matches: 324, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
132 324 1.00
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (132 bp):
TCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATA
GGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTACGATCTA
CT
Found at i:5196580 original size:15 final size:15
Alignment explanation
Indices: 5196556--5196589 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
5196546 AACAATTACG
* *
5196556 ATAATGCGAGTAAAA
1 ATAATACGAGCAAAA
5196571 ATAATACGAGCAAAA
1 ATAATACGAGCAAAA
5196586 ATAA
1 ATAA
5196590 CAAAAATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.59, C:0.09, G:0.15, T:0.18
Consensus pattern (15 bp):
ATAATACGAGCAAAA
Found at i:5197955 original size:13 final size:12
Alignment explanation
Indices: 5197930--5197963 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
5197920 TTCGTTTATC
5197930 AAAAATAAAAAA
1 AAAAATAAAAAA
*
5197942 AAACAATAATAAA
1 AAA-AATAAAAAA
5197955 AAAAATAAA
1 AAAAATAAA
5197964 GGTAAAAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.85, C:0.03, G:0.00, T:0.12
Consensus pattern (12 bp):
AAAAATAAAAAA
Found at i:5201824 original size:115 final size:115
Alignment explanation
Indices: 5201705--5202043 Score: 570
Period size: 115 Copynumber: 2.9 Consensus size: 115
5201695 GCTTTCTTAA
* * *
5201705 AAGCGCCGCAATATATATTAACGGAAACGCTGCGTTTAAATCTTGATGTATACTGGAGTTAGTGG
1 AAGCGCCGCAAGATATATTAACCGAAACGCTGCGTTTAAATCTTGATGTATACTGGAATTAGTGG
*
5201770 CGTTCACGAGAAATCGCCGCTAAATCATATTATTAGTGGCGCTTGCTAAG
66 CGTTCACGAGAAATCGCCGCTAAATCATATTATTAGCGGCGCTTGCTAAG
* * *
5201820 AAGCGCCGCAAGATATATTAACCTAAACGCTGCGTTTAGATCTTGACGTATACTGGAATTAGTGG
1 AAGCGCCGCAAGATATATTAACCGAAACGCTGCGTTTAAATCTTGATGTATACTGGAATTAGTGG
* * * *
5201885 CGTTTACGAGAAATCACCGCTAAATCATATTATTAGCGGCGCTTTCTTAG
66 CGTTCACGAGAAATCGCCGCTAAATCATATTATTAGCGGCGCTTGCTAAG
5201935 AAGCGCCGCAAGATATATTAACCGAAACGCTGCGTTTAAATCTTGATGTATACTGGAATTAGTGG
1 AAGCGCCGCAAGATATATTAACCGAAACGCTGCGTTTAAATCTTGATGTATACTGGAATTAGTGG
*
5202000 CGTTCACGAGAAACCGCCGCTAAATCATATTATTAGCGGCGCTT
66 CGTTCACGAGAAATCGCCGCTAAATCATATTATTAGCGGCGCTT
5202044 ATTTGTTAGC
Statistics
Matches: 207, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
115 207 1.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (115 bp):
AAGCGCCGCAAGATATATTAACCGAAACGCTGCGTTTAAATCTTGATGTATACTGGAATTAGTGG
CGTTCACGAGAAATCGCCGCTAAATCATATTATTAGCGGCGCTTGCTAAG
Found at i:5203700 original size:45 final size:45
Alignment explanation
Indices: 5203640--5203730 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 45
5203630 TGTTGCATCC
* *
5203640 TTCTTGCCCAATTTCTTGAATTCCCAAATCCGTAAATCGCCTCCT
1 TTCTTGCCCAATTTCTTGAAATCCCAAATCCCTAAATCGCCTCCT
* *
5203685 TTCTTGCCTAATTTCTTGAAATCCGAAATCCCTAAATCGCCTCCT
1 TTCTTGCCCAATTTCTTGAAATCCCAAATCCCTAAATCGCCTCCT
5203730 T
1 T
5203731 CCTCCTTCCA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.23, C:0.32, G:0.09, T:0.36
Consensus pattern (45 bp):
TTCTTGCCCAATTTCTTGAAATCCCAAATCCCTAAATCGCCTCCT
Found at i:5204251 original size:37 final size:37
Alignment explanation
Indices: 5204201--5204285 Score: 143
Period size: 37 Copynumber: 2.3 Consensus size: 37
5204191 CTGTCGATGA
* *
5204201 GTTACTGTTTTCCTGCATTTTTTTGGCATGCTGGTCT
1 GTTACTGTTTTCCTGCATTTTTTAGGCATACTGGTCT
*
5204238 GTTACTGTTTTCCTGCATTTTTTAGGCATACTGTTCT
1 GTTACTGTTTTCCTGCATTTTTTAGGCATACTGGTCT
5204275 GTTACTGTTTT
1 GTTACTGTTTT
5204286 GTAGAAATCT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.11, C:0.18, G:0.19, T:0.53
Consensus pattern (37 bp):
GTTACTGTTTTCCTGCATTTTTTAGGCATACTGGTCT
Found at i:5204384 original size:23 final size:23
Alignment explanation
Indices: 5204357--5204415 Score: 118
Period size: 23 Copynumber: 2.6 Consensus size: 23
5204347 ATTTTATACA
5204357 TTAAAGTATGCAAAAACATGTAC
1 TTAAAGTATGCAAAAACATGTAC
5204380 TTAAAGTATGCAAAAACATGTAC
1 TTAAAGTATGCAAAAACATGTAC
5204403 TTAAAGTATGCAA
1 TTAAAGTATGCAA
5204416 CAGAGCCTGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.47, C:0.12, G:0.14, T:0.27
Consensus pattern (23 bp):
TTAAAGTATGCAAAAACATGTAC
Found at i:5205442 original size:52 final size:54
Alignment explanation
Indices: 5205393--5205500 Score: 155
Period size: 57 Copynumber: 2.0 Consensus size: 54
5205383 AAATATATTC
5205393 TGTTTTAT-TTTTAATTTACCTAATTAAATAAATTGTATTTAAAGTTATATTTTAAA
1 TGTTTTATATTTTAATTTACCTAATTAAATAAATTGTATTTAAAGTTATA--TT-AA
* * *
5205449 TTTTTTTTATTTTAATTTACCTAATTAAATAAATTGTATTTAAAGTTTTATT
1 TGTTTTATATTTTAATTTACCTAATTAAATAAATTGTATTTAAAGTTATATT
5205501 TTTTTAAATA
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
55 2 0.04
56 6 0.12
57 40 0.83
ACGTcount: A:0.35, C:0.04, G:0.05, T:0.56
Consensus pattern (54 bp):
TGTTTTATATTTTAATTTACCTAATTAAATAAATTGTATTTAAAGTTATATTAA
Found at i:5205447 original size:28 final size:28
Alignment explanation
Indices: 5205416--5205502 Score: 77
Period size: 28 Copynumber: 3.1 Consensus size: 28
5205406 ATTTACCTAA
5205416 TTAAATAAATTGTATTTAAAGTTATATT
1 TTAAATAAATTGTATTTAAAGTTATATT
*** * * * *
5205444 TTAAATTTTTTTTATTTTAATTTACCTA-A
1 TTAAATAAATTGTATTTAAAGTTA--TATT
*
5205473 TTAAATAAATTGTATTTAAAGTTTTATT
1 TTAAATAAATTGTATTTAAAGTTATATT
5205501 TT
1 TT
5205503 TTTAAATATT
Statistics
Matches: 41, Mismatches: 15, Indels: 6
0.66 0.24 0.10
Matches are distributed among these distances:
27 2 0.05
28 20 0.49
29 17 0.41
30 2 0.05
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (28 bp):
TTAAATAAATTGTATTTAAAGTTATATT
Found at i:5205488 original size:29 final size:29
Alignment explanation
Indices: 5205401--5205489 Score: 92
Period size: 29 Copynumber: 3.1 Consensus size: 29
5205391 TCTGTTTTAT
5205401 TTTTAATTTACCTAATTAAATAAATTGTA
1 TTTTAATTTACCTAATTAAATAAATTGTA
* * * *** *
5205430 TTTAAAGTTA--TATTTTAAATTTTTTTTA
1 TTTTAATTTACCTA-ATTAAATAAATTGTA
5205458 TTTTAATTTACCTAATTAAATAAATTGTA
1 TTTTAATTTACCTAATTAAATAAATTGTA
5205487 TTT
1 TTT
5205490 AAAGTTTTAT
Statistics
Matches: 43, Mismatches: 14, Indels: 6
0.68 0.22 0.10
Matches are distributed among these distances:
27 2 0.05
28 18 0.42
29 21 0.49
30 2 0.05
ACGTcount: A:0.37, C:0.04, G:0.03, T:0.55
Consensus pattern (29 bp):
TTTTAATTTACCTAATTAAATAAATTGTA
Found at i:5205595 original size:18 final size:17
Alignment explanation
Indices: 5205567--5205616 Score: 66
Period size: 18 Copynumber: 2.9 Consensus size: 17
5205557 TAAAAGTTCA
*
5205567 AATTTCATATCTTACGT
1 AATTTCATATCTTACAT
5205584 AATTTACATATCTTACAT
1 AATTT-CATATCTTACAT
*
5205602 AA-TTCATAACTTACA
1 AATTTCATATCTTACA
5205617 CAACTTAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
16 10 0.33
17 7 0.23
18 13 0.43
ACGTcount: A:0.38, C:0.18, G:0.02, T:0.42
Consensus pattern (17 bp):
AATTTCATATCTTACAT
Found at i:5205692 original size:19 final size:19
Alignment explanation
Indices: 5205670--5205707 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
5205660 TTATATATAG
5205670 TTTATATATATATTTAAAA
1 TTTATATATATATTTAAAA
*
5205689 TTTATATATATTTTTAAAA
1 TTTATATATATATTTAAAA
5205708 ATTGATACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTATATATATATTTAAAA
Found at i:5205762 original size:23 final size:22
Alignment explanation
Indices: 5205710--5205764 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 22
5205700 TTTTAAAAAT
5205710 TGATACATTACATAACTTACATA
1 TGATACA-TACATAACTTACATA
***
5205733 ACCTACATACATAAGCTTACATA
1 TGATACATACATAA-CTTACATA
5205756 TGATACATA
1 TGATACATA
5205765 ACTTATATAA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
22 7 0.28
23 18 0.72
ACGTcount: A:0.44, C:0.20, G:0.05, T:0.31
Consensus pattern (22 bp):
TGATACATACATAACTTACATA
Found at i:5205820 original size:31 final size:32
Alignment explanation
Indices: 5205729--5205838 Score: 109
Period size: 31 Copynumber: 3.4 Consensus size: 32
5205719 ACATAACTTA
* *
5205729 CATAACCTACATACATAAGCTTA-CATATGATA-
1 CATAACTTACATACATAA-CTTAGCA-ATCATAT
* * *
5205761 CATAACTTATATAACTTAAATTTAGCAATCATAT
1 CATAACTTACAT-ACAT-AACTTAGCAATCATAT
5205795 CATAACTTACATACATAA-TTAGCAATCATAT
1 CATAACTTACATACATAACTTAGCAATCATAT
*
5205826 CACAACTTACATA
1 CATAACTTACATA
5205839 ACCAACATAA
Statistics
Matches: 66, Mismatches: 8, Indels: 9
0.80 0.10 0.11
Matches are distributed among these distances:
31 25 0.38
32 12 0.18
33 14 0.21
34 15 0.23
ACGTcount: A:0.45, C:0.20, G:0.04, T:0.32
Consensus pattern (32 bp):
CATAACTTACATACATAACTTAGCAATCATAT
Found at i:5205860 original size:12 final size:10
Alignment explanation
Indices: 5205843--5205904 Score: 70
Period size: 12 Copynumber: 5.6 Consensus size: 10
5205833 TACATAACCA
5205843 ACATAATGAATT
1 ACATAAT-AA-T
5205855 ACATAATAACCT
1 ACATAATAA--T
5205867 ACATAATAACTT
1 ACATAATAA--T
5205879 ACATAATAAT
1 ACATAATAAT
5205889 ACATAATAAT
1 ACATAATAAT
5205899 ACATAA
1 ACATAA
5205905 CATCCATAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
10 17 0.36
11 2 0.04
12 28 0.60
ACGTcount: A:0.55, C:0.15, G:0.02, T:0.29
Consensus pattern (10 bp):
ACATAATAAT
Found at i:5205870 original size:24 final size:23
Alignment explanation
Indices: 5205836--5205904 Score: 90
Period size: 24 Copynumber: 3.0 Consensus size: 23
5205826 CACAACTTAC
*
5205836 ATAACCAACATAATGAATTACATA
1 ATAACCTACATAAT-AATTACATA
5205860 ATAACCTACATAATAACTTACATA
1 ATAACCTACATAATAA-TTACATA
5205884 ATAA--TACATAATAA-TACATA
1 ATAACCTACATAATAATTACATA
5205904 A
1 A
5205905 CATCCATAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
20 7 0.16
22 10 0.23
23 2 0.05
24 24 0.56
ACGTcount: A:0.55, C:0.16, G:0.01, T:0.28
Consensus pattern (23 bp):
ATAACCTACATAATAATTACATA
Found at i:5205964 original size:117 final size:116
Alignment explanation
Indices: 5205829--5206082 Score: 291
Period size: 117 Copynumber: 2.2 Consensus size: 116
5205819 ATCATATCAC
**
5205829 AACTTACATAACCAACATAATGAAT-TACAT-AATAACCTACATAATAACTTACATAATAATACA
1 AACTTACATAACTTACATAAT--ATCTACATCAAT-ACCTACATAATAACTTACATAATAATACA
* *
5205892 TAATAATACATAA-CATCCATAAATTAAATAAGTTACATAATACACAA-AAACAAA
63 TAAT-ATACATAATAATACATAAATTAAATAAGTTACATAATACACAACAAAC-AA
** *
5205946 AACTTACATAACTTACATAATATCCTACATCCCTACTTACATAATAACTTACATAATAATACATA
1 AACTTACATAACTTACATAATAT-CTACATCAATACCTACATAATAACTTACATAATAATACATA
* * * * * ** *
5206011 CTCTACATAATAATACATAACTTACATAAGTTTCATAATACACAACTTACAC
65 ATATACATAATAATACATAAATTAAATAAGTTACATAATACACAACAAACAA
5206063 AACTTACATAACTTACATAA
1 AACTTACATAACTTACATAA
5206083 CTTATATAAT
Statistics
Matches: 117, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
115 2 0.02
116 7 0.06
117 105 0.90
118 3 0.03
ACGTcount: A:0.50, C:0.20, G:0.01, T:0.29
Consensus pattern (116 bp):
AACTTACATAACTTACATAATATCTACATCAATACCTACATAATAACTTACATAATAATACATAA
TATACATAATAATACATAAATTAAATAAGTTACATAATACACAACAAACAA
Found at i:5205995 original size:12 final size:12
Alignment explanation
Indices: 5205953--5206004 Score: 52
Period size: 12 Copynumber: 4.3 Consensus size: 12
5205943 AAAAACTTAC
5205953 ATAACTTACATA
1 ATAACTTACATA
* * *
5205965 ATATCCTACATCC
1 ATAACTTACAT-A
*
5205978 CT-ACTTACATA
1 ATAACTTACATA
5205989 ATAACTTACATA
1 ATAACTTACATA
5206001 ATAA
1 ATAA
5206005 TACATACTCT
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
11 1 0.03
12 28 0.93
13 1 0.03
ACGTcount: A:0.44, C:0.23, G:0.00, T:0.33
Consensus pattern (12 bp):
ATAACTTACATA
Found at i:5206019 original size:19 final size:19
Alignment explanation
Indices: 5205989--5206039 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
5205979 TACTTACATA
5205989 ATAACTTACATAATAATAC
1 ATAACTTACATAATAATAC
5206008 AT-ACTCTACATAATAATAC
1 ATAACT-TACATAATAATAC
5206027 ATAACTTACATAA
1 ATAACTTACATAA
5206040 GTTTCATAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
18 3 0.10
19 24 0.80
20 3 0.10
ACGTcount: A:0.51, C:0.18, G:0.00, T:0.31
Consensus pattern (19 bp):
ATAACTTACATAATAATAC
Found at i:5206036 original size:9 final size:9
Alignment explanation
Indices: 5205989--5206102 Score: 89
Period size: 9 Copynumber: 12.9 Consensus size: 9
5205979 TACTTACATA
5205989 ATAACTTAC
1 ATAACTTAC
5205998 ATAA-TAATAC
1 ATAACT--TAC
5206008 AT-ACTCTAC
1 ATAACT-TAC
5206017 ATAA-TAATAC
1 ATAACT--TAC
5206027 ATAACTTAC
1 ATAACTTAC
* *
5206036 ATAAGTTTC
1 ATAACTTAC
5206045 ATAA--TAC
1 ATAACTTAC
*
5206052 ACAACTTAC
1 ATAACTTAC
*
5206061 ACAACTTAC
1 ATAACTTAC
5206070 ATAACTTAC
1 ATAACTTAC
*
5206079 ATAACTTAT
1 ATAACTTAC
5206088 ATAA--TAC
1 ATAACTTAC
5206095 ATAACTTA
1 ATAACTTA
5206103 TTCCTAAATC
Statistics
Matches: 86, Mismatches: 9, Indels: 20
0.75 0.08 0.17
Matches are distributed among these distances:
7 11 0.13
8 1 0.01
9 59 0.69
10 14 0.16
11 1 0.01
ACGTcount: A:0.47, C:0.19, G:0.01, T:0.32
Consensus pattern (9 bp):
ATAACTTAC
Found at i:5206062 original size:126 final size:127
Alignment explanation
Indices: 5205853--5206093 Score: 292
Period size: 126 Copynumber: 1.9 Consensus size: 127
5205843 ACATAATGAA
*
5205853 TTACATAATAACCTACATAATAACTTACATAATAATACATAATAATACATAACATCCATAAATTA
1 TTACATAATAACCTACATAATAAC-TACATAATAATACATAATAATACATAACATACATAAATTA
*
5205918 AATAAGTTACATAATACACAA-AAACAAAAACTTACATAACTTACATAATATCCTACATCCCTAC
65 AATAAG-TACACAATACACAACAAAC-AAAACTTACATAACTTACATAATATCCTACATCCCTAC
* * * * * **
5205982 TTACATAATAACTTACATAATAA-TACATACT-CTACATAATAATACATAACTTACATAAGTTTC
1 TTACATAATAACCTACATAATAACTACATAATAATACATAATAATACATAACATACATAAATTAA
** * *
5206045 ATAA-TACACAACTTACACAACTTACATAACTTACATAACTTATATAATA
66 ATAAGTACACAA--TACACAACAAACAAAACTTACATAACTTACATAATA
5206094 CATAACTTAT
Statistics
Matches: 96, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
124 6 0.06
126 59 0.61
127 9 0.09
129 22 0.23
ACGTcount: A:0.49, C:0.20, G:0.01, T:0.30
Consensus pattern (127 bp):
TTACATAATAACCTACATAATAACTACATAATAATACATAATAATACATAACATACATAAATTAA
ATAAGTACACAATACACAACAAACAAAACTTACATAACTTACATAATATCCTACATCCCTAC
Found at i:5206072 original size:25 final size:25
Alignment explanation
Indices: 5206020--5206073 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
5206010 ACTCTACATA
* * * *
5206020 ATAATACATAACTTACATAAGTTTC
1 ATAATACACAACTTACACAACTTAC
5206045 ATAATACACAACTTACACAACTTAC
1 ATAATACACAACTTACACAACTTAC
5206070 ATAA
1 ATAA
5206074 CTTACATAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.48, C:0.20, G:0.02, T:0.30
Consensus pattern (25 bp):
ATAATACACAACTTACACAACTTAC
Found at i:5208726 original size:78 final size:78
Alignment explanation
Indices: 5208642--5208786 Score: 220
Period size: 78 Copynumber: 1.9 Consensus size: 78
5208632 GACCACATTT
* * *
5208642 GAGGTTCAAAGGAAATATGAAGAACTTCAGCAACAACTT-AAAGCAGATGCGGCAGCGAGAGAAG
1 GAGGTTCAAAAGAAATATGAAGAACTACAGCAACAACTTCAAA-AAGATGCGGCAGCGAGAGAAG
5208706 CAGCGATAGAAGCA
65 CAGCGATAGAAGCA
* * *
5208720 GAGGTTCAAAAGAAATATGAAGAACTACAGCTACGACTTCAAAAAGATGCGGCATCGAGAGAAGC
1 GAGGTTCAAAAGAAATATGAAGAACTACAGCAACAACTTCAAAAAGATGCGGCAGCGAGAGAAGC
5208785 AG
66 AG
5208787 AGCAAAGCAA
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
78 57 0.95
79 3 0.05
ACGTcount: A:0.43, C:0.17, G:0.27, T:0.14
Consensus pattern (78 bp):
GAGGTTCAAAAGAAATATGAAGAACTACAGCAACAACTTCAAAAAGATGCGGCAGCGAGAGAAGC
AGCGATAGAAGCA
Found at i:5209288 original size:42 final size:42
Alignment explanation
Indices: 5209141--5209495 Score: 405
Period size: 42 Copynumber: 8.4 Consensus size: 42
5209131 GTTTGTGAAA
**
5209141 TAAGCGCCGCTAAAGAACACT-A-CTTTTAGCGGCGTTTTTGAAC
1 TAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTT-TTC
* * * * *
5209184 -AAGCGCTGCTATAGAACATCA-CTTTTAGAGGCGTTTTCTTCC
1 TAAGCGCCGCTAAAGAACATGATC-TTTAGCGGCGTTTT-TTTC
* *
5209226 AAAGTGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
*
5209268 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT-TTTTC
* *
5209311 TTAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
** * * *
5209353 TAAGCTTCGCTAAAGAACATGGTCTTTAGTGGCGTTTATTTTT
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT-TTTTC
*
5209396 TTAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
* *
5209437 TAAGCGCCGCTAAAGAACATGATCTTTAGGGGCATTTTTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
*
5209479 TGTAAGCGCCGCAAAAG
1 --TAAGCGCCGCTAAAG
5209496 TTTGCGACGT
Statistics
Matches: 269, Mismatches: 34, Indels: 17
0.84 0.11 0.05
Matches are distributed among these distances:
41 36 0.13
42 115 0.43
43 103 0.38
44 15 0.06
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.32
Consensus pattern (42 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
Found at i:5209487 original size:85 final size:85
Alignment explanation
Indices: 5209141--5209495 Score: 420
Period size: 85 Copynumber: 4.2 Consensus size: 85
5209131 GTTTGTGAAA
* * *
5209141 TAAGCGCCGCTAAAGAACACT-A-CTTTTAGCGGCGTTTTTGAAC-AAGCGCTGCTATAGAACAT
1 TAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTT--TCTAAGCGCCGCTAAAGAACAT
* * *
5209203 CA-CTTTTAGAGGCGTTT-TCTTCC
62 GATC-TTTAGAGGCGTTTATTTTCT
* *
5209226 AAAGTGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGAT
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTCTAAGCGCCGCTAAAGAACATGAT
* *
5209291 CTTTAGCGGCGTTTATTTCCT
65 CTTTAGAGGCGTTTATTTTCT
** *
5209312 T-AGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTCTAAGCTTCGCTAAAGAACATGGT
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT-TTTCTAAGCGCCGCTAAAGAACATGAT
*
5209376 CTTTAGTGGCGTTTATTTT-T
65 CTTTAGAGGCGTTTATTTTCT
*
5209396 TTAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCTAAGCGCCGCTAAAGAACATGATC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCTAAGCGCCGCTAAAGAACATGATC
* *
5209461 TTTAGGGGCATTT-TTTTCT
66 TTTAGAGGCGTTTATTTTCT
*
5209480 GTAAGCGCCGCAAAAG
1 -TAAGCGCCGCTAAAG
5209496 TTTGCGACGT
Statistics
Matches: 236, Mismatches: 24, Indels: 20
0.84 0.09 0.07
Matches are distributed among these distances:
83 4 0.02
84 44 0.19
85 178 0.75
86 10 0.04
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.32
Consensus pattern (85 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCTAAGCGCCGCTAAAGAACATGATC
TTTAGAGGCGTTTATTTTCT
Found at i:5209525 original size:128 final size:125
Alignment explanation
Indices: 5209231--5209495 Score: 329
Period size: 128 Copynumber: 2.1 Consensus size: 125
5209221 CTTCCAAAGT
* * *
5209231 GCCGCTAAAGAACATGATCTTTAGCGGCGT-TTTTTTCTAAGCGCCGCTAAAGAACATGATCTTT
1 GCCGCAAAAGAACATGGTCGTTAGCGGC-TATTTTTT-T-AGCGCCGCTAAAGAACATGATCTTT
* *
5209295 AGCGGCGTTTATTTCCTTAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTCTAAGC
63 AGCGGCGTTTATTTCCTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTATTTCTAAGC
** * * *
5209358 TTCGCTAAAGAACATGGTCTTTAGTGGCGTTTATTTTTTTAGCGCCGCTAAAGAACATGATCTTT
1 GCCGCAAAAGAACATGGTCGTTAGCGGC---TATTTTTTTAGCGCCGCTAAAGAACATGATCTTT
* *
5209423 AGCGGCGTTT-TTT-CTAAGCGCCGCTAAAGAACATGATCTTTAGGGGCATTTTTTTCTGTAAGC
63 AGCGGCGTTTATTTCCTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTATTTC--TAAGC
5209486 GCCGCAAAAG
1 GCCGCAAAAG
5209496 TTTGCGACGT
Statistics
Matches: 121, Mismatches: 12, Indels: 9
0.85 0.08 0.06
Matches are distributed among these distances:
126 39 0.32
127 27 0.22
128 47 0.39
129 2 0.02
130 6 0.05
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (125 bp):
GCCGCAAAAGAACATGGTCGTTAGCGGCTATTTTTTTAGCGCCGCTAAAGAACATGATCTTTAGC
GGCGTTTATTTCCTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTATTTCTAAGC
Found at i:5211187 original size:31 final size:31
Alignment explanation
Indices: 5211152--5211211 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
5211142 AACTTAAAAT
*
5211152 ATATATAAATCGAAATTGAAAATAA-AAAAGA
1 ATATATAAATCGAAAAT-AAAATAACAAAAGA
*
5211183 ATATATAAATTGAAAATAAAATAACAAAA
1 ATATATAAATCGAAAATAAAATAACAAAA
5211212 TTAGTGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 7 0.27
31 19 0.73
ACGTcount: A:0.67, C:0.03, G:0.07, T:0.23
Consensus pattern (31 bp):
ATATATAAATCGAAAATAAAATAACAAAAGA
Found at i:5211497 original size:22 final size:21
Alignment explanation
Indices: 5211453--5211497 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
5211443 AATTTGACTA
* **
5211453 TTTTTTATATTTTTTTATTTT
1 TTTTTTATATATTTTTAGATT
5211474 TTTTGTTATATATTTTTAGATT
1 TTTT-TTATATATTTTTAGATT
5211496 TT
1 TT
5211498 AAAATTTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.18, C:0.00, G:0.04, T:0.78
Consensus pattern (21 bp):
TTTTTTATATATTTTTAGATT
Found at i:5211523 original size:8 final size:8
Alignment explanation
Indices: 5211451--5211525 Score: 62
Period size: 8 Copynumber: 9.2 Consensus size: 8
5211441 AAAATTTGAC
5211451 TATTTTTT
1 TATTTTTT
5211459 ATATTTTTT
1 -TATTTTTT
5211468 TATTTTTT
1 TATTTTTT
* *
5211476 T-TGTTATA
1 TAT-TTTTT
*
5211484 TATTTTTA
1 TATTTTTT
* **
5211492 GATTTTAA
1 TATTTTTT
*
5211500 AATTTTTT
1 TATTTTTT
5211508 TATTTTTT
1 TATTTTTT
5211516 TATTTTTT
1 TATTTTTT
5211524 TA
1 TA
5211526 AGTTGAATTT
Statistics
Matches: 55, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
7 1 0.02
8 45 0.82
9 9 0.16
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (8 bp):
TATTTTTT
Found at i:5215604 original size:19 final size:19
Alignment explanation
Indices: 5215584--5215619 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
5215574 TTACTAATTA
*
5215584 AAAAAT-AATAATTATATT
1 AAAAATAAATAATAATATT
5215602 AAAAATAAATAATAATAT
1 AAAAATAAATAATAATAT
5215620 AATATATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAAATAAATAATAATATT
Found at i:5219759 original size:19 final size:20
Alignment explanation
Indices: 5219737--5219774 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
5219727 TTTAAAAACC
5219737 TTAAAATTT-TGAAAAAAAA
1 TTAAAATTTGTGAAAAAAAA
*
5219756 TTAAAATTTGTTAAAAAAA
1 TTAAAATTTGTGAAAAAAA
5219775 TAAGAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (20 bp):
TTAAAATTTGTGAAAAAAAA
Found at i:5219860 original size:20 final size:20
Alignment explanation
Indices: 5219837--5219878 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
5219827 ATAAAATAAC
5219837 AAAATTAGTTAAAAAGTCAA
1 AAAATTAGTTAAAAAGTCAA
* * *
5219857 AAAATTTGTTTAAAATTCAA
1 AAAATTAGTTAAAAAGTCAA
5219877 AA
1 AA
5219879 TAAATAAATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.31
Consensus pattern (20 bp):
AAAATTAGTTAAAAAGTCAA
Found at i:5231722 original size:18 final size:17
Alignment explanation
Indices: 5231695--5231728 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
5231685 GACCTAAGTG
*
5231695 GGGGGTGTTATTGTTGTT
1 GGGGGAGTTATT-TTGTT
5231713 GGGGGAGTTATTTTGT
1 GGGGGAGTTATTTTGT
5231729 GAACTACTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.09, C:0.00, G:0.44, T:0.47
Consensus pattern (17 bp):
GGGGGAGTTATTTTGTT
Found at i:5244703 original size:21 final size:23
Alignment explanation
Indices: 5244679--5244720 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
5244669 TTCGCCCCTG
5244679 TTTAGAT-TA-ATTAGAGTTTTA
1 TTTAGATGTACATTAGAGTTTTA
*
5244700 TTTAGATGTACTTTAGAGTTT
1 TTTAGATGTACATTAGAGTTT
5244721 AGAGTTAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 2 0.11
23 9 0.50
ACGTcount: A:0.29, C:0.02, G:0.17, T:0.52
Consensus pattern (23 bp):
TTTAGATGTACATTAGAGTTTTA
Found at i:5251125 original size:26 final size:26
Alignment explanation
Indices: 5251088--5251139 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
5251078 AAAAAGTGAT
* *
5251088 AAATTCAAGTACTAATTTAGACAAAAA
1 AAATTCAAGTACCAAATTAGA-AAAAA
5251115 AAATT-AAGTACCAAATTAGAAAAAA
1 AAATTCAAGTACCAAATTAGAAAAAA
5251140 TTCAAGTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 5 0.22
26 13 0.57
27 5 0.22
ACGTcount: A:0.60, C:0.10, G:0.08, T:0.23
Consensus pattern (26 bp):
AAATTCAAGTACCAAATTAGAAAAAA
Found at i:5254578 original size:44 final size:44
Alignment explanation
Indices: 5254529--5254842 Score: 174
Period size: 44 Copynumber: 7.2 Consensus size: 44
5254519 TACTGCTTAA
*
5254529 GGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCCAG
1 GGAGATAAGATCTGTAATCTTCAATCTACTCCACTGTTGCCCAG
* * * **
5254573 GGAGAT-AGA-AT-TACTGGCTTCAATGTACTCCACTGTAACCTCAG
1 GGAGATAAGATCTGTAAT--CTTCAATCTACTCCACTGTTGCC-CAG
* * * * * * ** **
5254617 GGAGGTAAAATCCGTCATCTTCGATCTGCTCCACTACTGCTTAG
1 GGAGATAAGATCTGTAATCTTCAATCTACTCCACTGTTGCCCAG
* *
5254661 GGAGATAAGATCTGTAATCTTCAATCTATTCCACTATT-CCCAG
1 GGAGATAAGATCTGTAATCTTCAATCTACTCCACTGTTGCCCAG
* * * **
5254704 GGAGAT-AGA-AT-TACTGGCTTCAATGTACTCCACTGTAACCTCAG
1 GGAGATAAGATCTGTAAT--CTTCAATCTACTCCACTGTTGCC-CAG
* * **** * ** * * ** **
5254748 GGAGGTAAAATCCACCATATTTGATCTGCTCCGCTACTGCTTAG
1 GGAGATAAGATCTGTAATCTTCAATCTACTCCACTGTTGCCCAG
*
5254792 GGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCCAG
1 GGAGATAAGATCTGTAATCTTCAATCTACTCCACTGTTGCCCAG
5254836 GGAGATA
1 GGAGATA
5254843 GAATTACTGG
Statistics
Matches: 185, Mismatches: 72, Indels: 26
0.65 0.25 0.09
Matches are distributed among these distances:
40 3 0.02
41 4 0.02
42 20 0.11
43 33 0.18
44 91 0.49
45 31 0.17
47 3 0.02
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (44 bp):
GGAGATAAGATCTGTAATCTTCAATCTACTCCACTGTTGCCCAG
Found at i:5254751 original size:263 final size:263
Alignment explanation
Indices: 5254441--5254951 Score: 916
Period size: 263 Copynumber: 1.9 Consensus size: 263
5254431 ACAACTTCAA
*
5254441 GGAGATAGGAATACTGGCTTCAATGTACTCCACTGTATCCTCAGGGAGGTAAAATCCACCATATT
1 GGAGATAGGAATACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATATT
5254506 TGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCC
66 TGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCC
* **
5254571 AGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGTCATC
131 AGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACATCAGGGAGGTAAAATCCACCATC
5254636 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTATTCC
196 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTATTCC
5254701 CAG
261 CAG
5254704 GGAGATA-GAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATAT
1 GGAGATAGGAA-TACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATAT
* *
5254768 TTGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCC
65 TTGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCC
*
5254833 CAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACATTAGGGAGGTAAAATCCACCAT
130 CAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACATCAGGGAGGTAAAATCCACCAT
* * *
5254898 TTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCGATCTA
195 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTA
5254952 CTTCACGCCA
Statistics
Matches: 237, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
262 3 0.01
263 234 0.99
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (263 bp):
GGAGATAGGAATACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATATT
TGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCC
AGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACATCAGGGAGGTAAAATCCACCATC
TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTATTCC
CAG
Found at i:5254774 original size:131 final size:132
Alignment explanation
Indices: 5254441--5254951 Score: 891
Period size: 132 Copynumber: 3.9 Consensus size: 132
5254431 ACAACTTCAA
*
5254441 GGAGATAGGAA-TACTGGCTTCAATGTACTCCACTGTATCCTCAGGGAGGTAAAATCCACCATAT
1 GGAGATA-GAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATAT
*
5254505 TTGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCC
65 TTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCC
5254570 CAG
130 CAG
** *
5254573 GGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGTCATCTT
1 GGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATATT
* *
5254638 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTATT-CCC
66 TGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCC
5254702 AG
131 AG
5254704 GGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATATT
1 GGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATATT
*
5254769 TGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCC
66 TGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCC
5254834 AG
131 AG
* * *
5254836 GGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACATTAGGGAGGTAAAATCCACCATTTT
1 GGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATATT
*
5254901 TGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCGATCTA
66 TGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTA
5254952 CTTCACGCCA
Statistics
Matches: 359, Mismatches: 18, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
131 128 0.36
132 231 0.64
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (132 bp):
GGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATATT
TGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCC
AG
Found at i:5254989 original size:44 final size:44
Alignment explanation
Indices: 5254941--5255353 Score: 494
Period size: 44 Copynumber: 9.3 Consensus size: 44
5254931 AGATCTGTAA
* *
5254941 TCTTCGATCTACTTCACGCCAGTACATGAAGACAATATCTGCTT
1 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTT
* * * *** *
5254985 TCTTCGATCTACTTCGCCACCAGTATGGGAAAACAAGATCTGCTT
1 TCTTTGATCTACTTC-ACGCCAGTACATGAAGACAAGATCTGCTT
* *
5255030 TCTTTGATCTACTTCATGCCAATACATGAAGACAAGATCTG-TT
1 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTT
* * * *
5255073 ATCTTTGATCTACTTCGCCGCCAGTATAGGAAGACAATATCTGCTAT
1 -TCTTTGATCTACTTC-ACGCCAGTACATGAAGACAAGATCTGCT-T
*
5255120 T-TTTGATCTACTTCACGCTAGTACATGAAGACAAGATCTGCTT
1 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTT
* *
5255163 TCTTCGATCTTCTTCACGCCAGTACATGAAGACAAGATCTGCTT
1 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTT
* * * *
5255207 TCTTCGATCTACTCCACCACCAGT--ATGGGAGACAAGATCTG-TT
1 TCTTTGATCTACTTCA-CGCCAGTACAT-GAAGACAAGATCTGCTT
* *
5255250 GTCTTTGATCTACTTCACGTCAGTACATGAAGACAAGATTTGCTT
1 -TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTT
*
5255295 TCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
1 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTT
*
5255339 TCTTTGATCCACTTC
1 TCTTTGATCTACTTC
5255354 GCTACCAATA
Statistics
Matches: 313, Mismatches: 44, Indels: 24
0.82 0.12 0.06
Matches are distributed among these distances:
43 13 0.04
44 218 0.70
45 79 0.25
46 2 0.01
47 1 0.00
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.33
Consensus pattern (44 bp):
TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTT
Found at i:5255083 original size:89 final size:89
Alignment explanation
Indices: 5254941--5255394 Score: 510
Period size: 89 Copynumber: 5.1 Consensus size: 89
5254931 AGATCTGTAA
* * * * *
5254941 TCTTCGATCTACTTCACGCCAGTACATGAAGACAATATCTGCTTTCTTCGATCTACTTCGCCACC
1 TCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTTGATCTACTTCGCCGCC
* *
5255006 AGTATGGGAAAACAAGATCTGCTT
66 AGTATAGGAAGACAAGATCTGCTT
*
5255030 TCTTTGATCTACTTCATGCCAATACATGAAGACAAGATCTG-TTATCTTTGATCTACTTCGCCGC
1 TCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT-TCTTTGATCTACTTCGCCGC
*
5255094 CAGTATAGGAAGACAATATCTGCTAT
65 CAGTATAGGAAGACAAGATCTGCT-T
* * * * *
5255120 T-TTTGATCTACTTCACGCTAGTACATGAAGACAAGATCTGCTTTCTTCGATCTTCTTC-ACGCC
1 TCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTTGATCTACTTCGCCGCC
* *
5255183 AGTACATGAAGACAAGATCTGCTT
66 AGTATAGGAAGACAAGATCTGCTT
* * * * * *
5255207 TCTTCGATCTACTCCACCACCAGT--ATGGGAGACAAGATCTG-TTGTCTTTGATCTACTTC-AC
1 TCTTTGATCTACTTCA-CGCCAATACAT-GAAGACAAGATCTGCTT-TCTTTGATCTACTTCGCC
* * * *
5255268 GTCAGTACATGAAGACAAGATTTGCTT
63 GCCAGTATAGGAAGACAAGATCTGCTT
* **
5255295 TCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTTGATCCACTTCGCTACC
1 TCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTTGATCTACTTCGCCGCC
* *
5255360 AATATAGGAAGACAATATCTG-TT
66 AGTATAGGAAGACAAGATCTGCTT
*
5255383 ATCTTTAATCTA
1 -TCTTTGATCTA
5255395 TTCCACTGCT
Statistics
Matches: 310, Mismatches: 43, Indels: 24
0.82 0.11 0.06
Matches are distributed among these distances:
87 11 0.04
88 134 0.43
89 161 0.52
90 4 0.01
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (89 bp):
TCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTTGATCTACTTCGCCGCC
AGTATAGGAAGACAAGATCTGCTT
Found at i:5255304 original size:132 final size:133
Alignment explanation
Indices: 5254941--5255394 Score: 558
Period size: 133 Copynumber: 3.4 Consensus size: 133
5254931 AGATCTGTAA
* * * * * * * *
5254941 TCTTCGATCTACTTC-ACGCCAGTACATGAAGACAATATCTGCTT-TCTTCGATCTACTTCGCCA
1 TCTTTGATCTACTTCGCCACCAGTATAGGAAGACAATATCTG-TTATCTTTGATCTACTTC-ACG
* *** * *
5255004 CCAGTATGGGAAAACAAGATCTGCTTTCTTTGATCTACTTCATGCCAATACATGAAGACAAGATC
64 CTAGTACATGAAGACAAGATCTGCTTTCTTTGATCTACTTCACGCCAATACATGAAGACAAGATC
5255069 TG-TT
129 TGCTT
* * *
5255073 ATCTTTGATCTACTTCGCCGCCAGTATAGGAAGACAATATCTGCTATTTTTGATCTACTTCACGC
1 -TCTTTGATCTACTTCGCCACCAGTATAGGAAGACAATATCTGTTATCTTTGATCTACTTCACGC
* * *
5255138 TAGTACATGAAGACAAGATCTGCTTTCTTCGATCTTCTTCACGCCAGTACATGAAGACAAGATCT
65 TAGTACATGAAGACAAGATCTGCTTTCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCT
5255203 GCTT
130 GCTT
* * * * * *
5255207 TCTTCGATCTACTCCACCACCAGTAT-GGGAGACAAGATCTGTTGTCTTTGATCTACTTCACG-T
1 TCTTTGATCTACTTCGCCACCAGTATAGGAAGACAATATCTGTTATCTTTGATCTACTTCACGCT
*
5255270 CAGTACATGAAGACAAGATTTGCTTTCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCT
66 -AGTACATGAAGACAAGATCTGCTTTCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCT
5255335 GCTT
130 GCTT
* * * *
5255339 TCTTTGATCCACTTCGCTACCAATATAGGAAGACAATATCTGTTATCTTTAATCTA
1 TCTTTGATCTACTTCGCCACCAGTATAGGAAGACAATATCTGTTATCTTTGATCTA
5255395 TTCCACTGCT
Statistics
Matches: 275, Mismatches: 41, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
131 1 0.00
132 115 0.42
133 121 0.44
134 38 0.14
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (133 bp):
TCTTTGATCTACTTCGCCACCAGTATAGGAAGACAATATCTGTTATCTTTGATCTACTTCACGCT
AGTACATGAAGACAAGATCTGCTTTCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTG
CTT
Found at i:5255840 original size:43 final size:43
Alignment explanation
Indices: 5255785--5255973 Score: 107
Period size: 44 Copynumber: 4.3 Consensus size: 43
5255775 TGAAATCTTT
* * *
5255785 AATCTATTCCACTGCTGCCCAGGGAAGTAGAATTTCTGGCTTC
1 AATCTACTCCACTGCTACCCAGGGAAGTAGAATTACTGGCTTC
* * * *** *
5255828 AATGTACTCCACTG-TAACCACAGGGAGGTAAAATTCACCATCTTT
1 AATCTACTCCACTGCT-ACC-CAGGGAAGTAGAATT-ACTGGCTTC
* * * * ** * *
5255873 GATCTGCTCCACTACTGCTTAGGG-AG-ACAA-TATCTGAAATCTTC
1 AATCTACTCCACTGCTACCCAGGGAAGTAGAATTA-CTG---GCTTC
*
5255917 AATCTATTCCACTGCTACCCAGGGAAGTAGAATTACTGGCTTC
1 AATCTACTCCACTGCTACCCAGGGAAGTAGAATTACTGGCTTC
*
5255960 AATGTACTCCACTG
1 AATCTACTCCACTG
5255974 TAACCACGGA
Statistics
Matches: 102, Mismatches: 33, Indels: 22
0.65 0.21 0.14
Matches are distributed among these distances:
40 1 0.01
41 2 0.02
42 4 0.04
43 31 0.30
44 38 0.37
45 17 0.17
46 7 0.07
47 2 0.02
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (43 bp):
AATCTACTCCACTGCTACCCAGGGAAGTAGAATTACTGGCTTC
Found at i:5256094 original size:132 final size:132
Alignment explanation
Indices: 5255364--5256050 Score: 1153
Period size: 132 Copynumber: 5.2 Consensus size: 132
5255354 GCTACCAATA
* * ** * *
5255364 TAGGAAGACAATATCTGTTATCTTTAATCTATTCCACTGCTGCCCAGGG-AGATAGAATTATTGG
1 TAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAG-TAGAATTACTGG
* * *
5255428 TTTCAATATACTCCACTGTAATCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACT
65 CTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACT
5255493 GCT
130 GCT
5255496 TAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGC
1 TAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGC
5255561 TTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTG
66 TTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTG
5255626 CT
131 CT
* *
5255628 TAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCTAGGGAAGTAGAATTACTGGC
1 TAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGC
* *
5255693 TTCAATGTACTCCACTGTAACTACAGGGAGGTAAAATTCACCATCTTTGATCTGCTTCACTACTG
66 TTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTG
5255758 CT
131 CT
* * * *
5255760 TGGGGAGATAAGATCTGAAATCTTTAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTTCTGGC
1 TAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGC
5255825 TTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTG
66 TTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTG
5255890 CT
131 CT
* *
5255892 TAGGGAGACAATATCTGAAATCTTCAATCTATTCCACTGCTACCCAGGGAAGTAGAATTACTGGC
1 TAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGC
*
5255957 TTCAATGTACTCCACTGTAACCAC-GGAGAGATAAAATTCACCATCTTTGATCTGCTCCACTACT
66 TTCAATGTACTCCACTGTAACCACAGG-GAGGTAAAATTCACCATCTTTGATCTGCTCCACTACT
5256021 GCT
130 GCT
*
5256024 TAGGGAGACAATATCTGAAATCTTCAA
1 TAGGGAGACAAGATCTGAAATCTTCAA
5256051 CCTGCTCCAC
Statistics
Matches: 525, Mismatches: 28, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
131 2 0.00
132 521 0.99
133 2 0.00
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.29
Consensus pattern (132 bp):
TAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGC
TTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTG
CT
Found at i:5257377 original size:7 final size:7
Alignment explanation
Indices: 5257361--5257400 Score: 66
Period size: 7 Copynumber: 6.0 Consensus size: 7
5257351 AGCCTCTCTA
5257361 TTTT-AT
1 TTTTCAT
5257367 TTTTCAT
1 TTTTCAT
5257374 TTTTCAT
1 TTTTCAT
5257381 TTTTCA-
1 TTTTCAT
5257387 TTTTCAT
1 TTTTCAT
5257394 TTTTCAT
1 TTTTCAT
5257401 CTCGTCAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 10 0.31
7 22 0.69
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTTCAT
Found at i:5257383 original size:13 final size:13
Alignment explanation
Indices: 5257360--5257400 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
5257350 TAGCCTCTCT
5257360 ATTTT-ATTTTTC
1 ATTTTCATTTTTC
5257372 ATTTTTCATTTTTC
1 A-TTTTCATTTTTC
5257386 ATTTTCATTTTTC
1 ATTTTCATTTTTC
5257399 AT
1 AT
5257401 CTCGTCAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 1 0.04
13 18 0.67
14 8 0.30
ACGTcount: A:0.17, C:0.12, G:0.00, T:0.71
Consensus pattern (13 bp):
ATTTTCATTTTTC
Found at i:5260708 original size:16 final size:16
Alignment explanation
Indices: 5260687--5260717 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
5260677 TTCTATAATG
5260687 AAATGCCATGCAGTCT
1 AAATGCCATGCAGTCT
5260703 AAATGCCATGCAGTC
1 AAATGCCATGCAGTC
5260718 AAAGTGAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (16 bp):
AAATGCCATGCAGTCT
Found at i:5269953 original size:19 final size:18
Alignment explanation
Indices: 5269929--5269974 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 18
5269919 TAAAAATTCA
*
5269929 AAAAATATTAAATTATTTT
1 AAAAATATTAAAAT-TTTT
5269948 AAAAATTATTAAAATTTTT
1 AAAAA-TATTAAAATTTTT
5269967 AAAAATAT
1 AAAAATAT
5269975 ATAATTAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 3 0.12
19 14 0.56
20 8 0.32
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AAAAATATTAAAATTTTT
Found at i:5269957 original size:20 final size:19
Alignment explanation
Indices: 5269928--5269972 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
5269918 TTAAAAATTC
* *
5269928 AAAAAATATTAAATTATTTT
1 AAAAATTATTAAAAT-TTTT
5269948 AAAAATTATTAAAATTTTT
1 AAAAATTATTAAAATTTTT
5269967 AAAAAT
1 AAAAAT
5269973 ATATAATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
AAAAATTATTAAAATTTTT
Found at i:5270510 original size:16 final size:16
Alignment explanation
Indices: 5270489--5270519 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
5270479 AGAGATCAAG
*
5270489 AATTTTCAATTTAAAA
1 AATTTTAAATTTAAAA
5270505 AATTTTAAATTTAAA
1 AATTTTAAATTTAAA
5270520 TCATAACAGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (16 bp):
AATTTTAAATTTAAAA
Found at i:5274096 original size:24 final size:24
Alignment explanation
Indices: 5274031--5274098 Score: 84
Period size: 23 Copynumber: 2.9 Consensus size: 24
5274021 ATTTTTACAG
*
5274031 AAAATGATAATTATGTAATTTTTT
1 AAAATGATAATTATGTAATTTTTA
* ** *
5274055 AAACT-ATAAAAATATAATTTTTA
1 AAAATGATAATTATGTAATTTTTA
5274078 AAAATGATAATTATGTAATTT
1 AAAATGATAATTATGTAATTT
5274099 CATCCTAGCA
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
23 18 0.53
24 16 0.47
ACGTcount: A:0.49, C:0.01, G:0.06, T:0.44
Consensus pattern (24 bp):
AAAATGATAATTATGTAATTTTTA
Found at i:5279506 original size:20 final size:19
Alignment explanation
Indices: 5279481--5279521 Score: 73
Period size: 20 Copynumber: 2.1 Consensus size: 19
5279471 ATTTAAAAAA
5279481 TAAAAATTATTAAATTATTT
1 TAAAAATTATTAAATT-TTT
5279501 TAAAAATTATTAAATTTTT
1 TAAAAATTATTAAATTTTT
5279520 TA
1 TA
5279522 GAATATGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TAAAAATTATTAAATTTTT
Found at i:5287337 original size:18 final size:18
Alignment explanation
Indices: 5287298--5287339 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
5287288 TAAATAAGTG
*
5287298 TAATAATAGTACCAATAA
1 TAATAATAGTAACAATAA
* *
5287316 TAATAATAGTAACAGTAC
1 TAATAATAGTAACAATAA
5287334 TAATAA
1 TAATAA
5287340 CAATAATAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.55, C:0.10, G:0.07, T:0.29
Consensus pattern (18 bp):
TAATAATAGTAACAATAA
Found at i:5288818 original size:27 final size:27
Alignment explanation
Indices: 5288780--5288834 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
5288770 AAAATAGTCA
5288780 AAGCTATTACTAAGTCAGTTAGCAGTT
1 AAGCTATTACTAAGTCAGTTAGCAGTT
*
5288807 AAGCTATTACTAAGTCCGTTAGCAGTT
1 AAGCTATTACTAAGTCAGTTAGCAGTT
5288834 A
1 A
5288835 GAAAGTTAGC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (27 bp):
AAGCTATTACTAAGTCAGTTAGCAGTT
Found at i:5291092 original size:268 final size:268
Alignment explanation
Indices: 5290615--5291151 Score: 1065
Period size: 268 Copynumber: 2.0 Consensus size: 268
5290605 TGAGCACGAC
5290615 ATCTTCTTCTCCTAGTGATGTTTCCTCTAACATACATGCAACGATGGCGTTTGAATGCTGGCGAA
1 ATCTTCTTCTCCTAGTGATGTTTCCTCTAACATACATGCAACGATGGCGTTTGAATGCTGGCGAA
5290680 TAGCGGTTCACAGTGAATTGCAAGCTTTGGTTCGTAATAATATGTGGACTCTTTGTTCTCTCCCT
66 TAGCGGTTCACAGTGAATTGCAAGCTTTGGTTCGTAATAATATGTGGACTCTTTGTTCTCTCCCT
5290745 GAAAATGGACGAGCAGTCGGGTACAAGTGGCTCTTTAAAATTAAAAGGAAGGCTGATGGGTCCAT
131 GAAAATGGACGAGCAGTCGGGTACAAGTGGCTCTTTAAAATTAAAAGGAAGGCTGATGGGTCCAT
*
5290810 CGACAGGTACAAAGCAAGATTAGTTGCGAAAGGGTTCTCTCAACATACAGGGCTTGACTTTCTTG
196 CGACAGGTACAAAGCAAGATTAGTTGCGAAAGGGTTCTCTCAACATACAGGGCTTGACTTTCATG
5290875 ACACATTT
261 ACACATTT
5290883 ATCTTCTTCTCCTAGTGATGTTTCCTCTAACATACATGCAACGATGGCGTTTGAATGCTGGCGAA
1 ATCTTCTTCTCCTAGTGATGTTTCCTCTAACATACATGCAACGATGGCGTTTGAATGCTGGCGAA
5290948 TAGCGGTTCACAGTGAATTGCAAGCTTTGGTTCGTAATAATATGTGGACTCTTTGTTCTCTCCCT
66 TAGCGGTTCACAGTGAATTGCAAGCTTTGGTTCGTAATAATATGTGGACTCTTTGTTCTCTCCCT
5291013 GAAAATGGACGAGCAGTCGGGTACAAGTGGCTCTTTAAAATTAAAAGGAAGGCTGATGGGTCCAT
131 GAAAATGGACGAGCAGTCGGGTACAAGTGGCTCTTTAAAATTAAAAGGAAGGCTGATGGGTCCAT
5291078 CGACAGGTACAAAGCAAGATTAGTTGCGAAAGGGTTCTCTCAACATACAGGGCTTGACTTTCATG
196 CGACAGGTACAAAGCAAGATTAGTTGCGAAAGGGTTCTCTCAACATACAGGGCTTGACTTTCATG
5291143 ACACATTT
261 ACACATTT
5291151 A
1 A
5291152 GTCCACTAGT
Statistics
Matches: 268, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
268 268 1.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.30
Consensus pattern (268 bp):
ATCTTCTTCTCCTAGTGATGTTTCCTCTAACATACATGCAACGATGGCGTTTGAATGCTGGCGAA
TAGCGGTTCACAGTGAATTGCAAGCTTTGGTTCGTAATAATATGTGGACTCTTTGTTCTCTCCCT
GAAAATGGACGAGCAGTCGGGTACAAGTGGCTCTTTAAAATTAAAAGGAAGGCTGATGGGTCCAT
CGACAGGTACAAAGCAAGATTAGTTGCGAAAGGGTTCTCTCAACATACAGGGCTTGACTTTCATG
ACACATTT
Found at i:5292453 original size:27 final size:27
Alignment explanation
Indices: 5292422--5292476 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
5292412 AAAATAGTCA
5292422 AAGCTGTTACTAAGTCAGTTAGCAGTT
1 AAGCTGTTACTAAGTCAGTTAGCAGTT
5292449 AAGCTGTTACTAAGTCAGTTAGCAGTT
1 AAGCTGTTACTAAGTCAGTTAGCAGTT
5292476 A
1 A
5292477 GAAAGTTAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.33
Consensus pattern (27 bp):
AAGCTGTTACTAAGTCAGTTAGCAGTT
Found at i:5292484 original size:27 final size:27
Alignment explanation
Indices: 5292427--5292484 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 27
5292417 AGTCAAAGCT
**
5292427 GTTACTAAGTCAGTTAGCAGTTAAGCT
1 GTTACTAAGTCAGTTAGCAGTTAAGAA
5292454 GTTACTAAGTCAGTTAGCAGTT-AGAAA
1 GTTACTAAGTCAGTTAGCAGTTAAG-AA
5292481 GTTA
1 GTTA
5292485 GCTACAACGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 2 0.07
27 26 0.93
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.33
Consensus pattern (27 bp):
GTTACTAAGTCAGTTAGCAGTTAAGAA
Found at i:5293336 original size:15 final size:15
Alignment explanation
Indices: 5293316--5293345 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
5293306 CTTTTTTGGC
5293316 CGATTTGCTCTCTGT
1 CGATTTGCTCTCTGT
5293331 CGATTTGCTCTCTGT
1 CGATTTGCTCTCTGT
5293346 TTCACCCTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.07, C:0.27, G:0.20, T:0.47
Consensus pattern (15 bp):
CGATTTGCTCTCTGT
Found at i:5296229 original size:59 final size:57
Alignment explanation
Indices: 5296163--5296351 Score: 152
Period size: 59 Copynumber: 3.2 Consensus size: 57
5296153 ATTTTATTAA
5296163 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTT-AAATTAT-TTTTATAGT
* * ** * *
5296222 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATT-TTATTA-A--
1 ATCATATATT-TTAATT-A--AAA-T-ATAT-TTAATATTAATTATTTA-AATTATTTTTATAGT
* * * *
5296283 ATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAATTAT-TTTTATAGT
5296342 ATCATATATT
1 ATCATATATT
5296352 ATTATTTGAG
Statistics
Matches: 99, Mismatches: 17, Indels: 28
0.69 0.12 0.19
Matches are distributed among these distances:
54 14 0.14
55 7 0.07
56 5 0.05
57 3 0.03
59 20 0.20
60 8 0.08
61 10 0.10
63 4 0.04
64 5 0.05
65 6 0.06
66 17 0.17
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (57 bp):
ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTAAATTATTTTTATAGT
Found at i:5296260 original size:66 final size:64
Alignment explanation
Indices: 5296190--5296388 Score: 186
Period size: 66 Copynumber: 3.2 Consensus size: 64
5296180 AAATATATTT
*
5296190 AATATTAATTATTTCAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTT-AAATTAT-TTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAA
5296255 G
64 G
* * * * **
5296256 AATATTAATTATTAAGAATT-TTATTA-A--ATTATATATT-TTAATT-A-T-AA-T-ATAT-TT
1 AATATTAATTATTTA-AATTATTTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAAG
* *
5296310 AATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAA
1 AATATTAATTAT-TTAAATTAT-TTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAA
5296375 G
64 G
*
5296376 AATATTGATTATT
1 AATATTAATTATT
5296389 AAGAATTTTA
Statistics
Matches: 102, Mismatches: 17, Indels: 29
0.69 0.11 0.20
Matches are distributed among these distances:
54 14 0.14
55 7 0.07
56 5 0.05
57 3 0.03
58 1 0.01
59 10 0.10
60 9 0.09
61 10 0.10
62 1 0.01
63 3 0.03
64 5 0.05
65 7 0.07
66 27 0.26
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (64 bp):
AATATTAATTATTTAAATTATTTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAAG
Found at i:5296282 original size:120 final size:120
Alignment explanation
Indices: 5296152--5296449 Score: 483
Period size: 120 Copynumber: 2.5 Consensus size: 120
5296142 AATTATTTTA
* * *
5296152 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTTT
1 AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATAATTATGTT-AAATTATATTT
5296216 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
5296272 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
* *
5296337 ATAGTATCATATATTATTATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
5296392 AATTTTATTAAATTC-TATATTTTAATTATAATATATCTAATAATAATTATGTTTAAAT
1 AATTTTATTAAA-TCATATATTTTAATTATAATATATTTAATAATAATTATG-TTAAAT
5296450 ATGATTAAAT
Statistics
Matches: 165, Mismatches: 10, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
120 157 0.95
121 8 0.05
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:5296292 original size:61 final size:61
Alignment explanation
Indices: 5296225--5296412 Score: 183
Period size: 61 Copynumber: 3.1 Consensus size: 61
5296215 TTATAGTATC
*
5296225 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATTATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
* * * * * * *
5296286 ATATATT-TTAATT-A-T-AATAT-ATTTAATAATAATTATGTTAATTTA-TATTTTA-TAGTAT
1 ATATATTATTATTTGAGTAAAT-TCATATAAGAAT-ATTA-ATT-ATTAAGAATTTTATTA-AAT
*
5296344 C
61 T
*
5296345 ATATATTATTATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATTATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
*
5296406 CTATATT
1 ATATATT
5296413 TTAATTATAA
Statistics
Matches: 96, Mismatches: 19, Indels: 24
0.69 0.14 0.17
Matches are distributed among these distances:
57 11 0.11
58 8 0.08
59 18 0.19
60 17 0.18
61 24 0.25
62 7 0.07
63 11 0.11
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.49
Consensus pattern (61 bp):
ATATATTATTATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
Found at i:5296312 original size:15 final size:15
Alignment explanation
Indices: 5296277--5296328 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
5296267 TTAAGAATTT
*
5296277 TATTAAATTAT-ATA
1 TATTTAATTATAATA
5296291 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
5296305 TATTTAATAATAAT-
1 TATTTAATTATAATA
5296319 TATGTTAATT
1 TAT-TTAATT
5296329 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:5296684 original size:16 final size:16
Alignment explanation
Indices: 5296663--5296698 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
5296653 GATTTGCTAT
5296663 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
5296679 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
5296695 TACA
1 TACA
5296699 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:5300354 original size:15 final size:15
Alignment explanation
Indices: 5300334--5300362 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
5300324 CTTAAATAAC
5300334 TTTGATACTGTGAAA
1 TTTGATACTGTGAAA
5300349 TTTGATACTGTGAA
1 TTTGATACTGTGAA
5300363 TTTTTAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.07, G:0.21, T:0.41
Consensus pattern (15 bp):
TTTGATACTGTGAAA
Found at i:5300606 original size:6 final size:6
Alignment explanation
Indices: 5300595--5300621 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
5300585 ATATTTTGAT
5300595 TGCATA TGCATA TGCATA TGCATA TGC
1 TGCATA TGCATA TGCATA TGCATA TGC
5300622 CTTTCATTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.33
Consensus pattern (6 bp):
TGCATA
Found at i:5301240 original size:13 final size:13
Alignment explanation
Indices: 5301222--5301248 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
5301212 CTTTTATCTG
5301222 TTTATATGGCTTT
1 TTTATATGGCTTT
5301235 TTTATATGGCTTT
1 TTTATATGGCTTT
5301248 T
1 T
5301249 CTTGATGTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.07, G:0.15, T:0.63
Consensus pattern (13 bp):
TTTATATGGCTTT
Found at i:5305887 original size:27 final size:23
Alignment explanation
Indices: 5305853--5305904 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 23
5305843 GAATTTTCAG
5305853 AACTCTTTAAAGAAAATCGAGAAGAA
1 AACTCTTTAAAG--AATC-AGAAGAA
*
5305879 AACTACTTTTAAGAATCAGAAGAA
1 AACT-CTTTAAAGAATCAGAAGAA
5305903 AA
1 AA
5305905 AAATCTTACA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 9 0.38
25 4 0.17
26 4 0.17
27 7 0.29
ACGTcount: A:0.54, C:0.12, G:0.13, T:0.21
Consensus pattern (23 bp):
AACTCTTTAAAGAATCAGAAGAA
Found at i:5307074 original size:25 final size:24
Alignment explanation
Indices: 5307037--5307086 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 24
5307027 GTGTAAATAA
*
5307037 TTTTTATATATAATAATTATTTTTAT
1 TTTTTATAAATAATAA--ATTTTTAT
5307063 TTTTTA-AAATAATAAATTTTTAT
1 TTTTTATAAATAATAAATTTTTAT
5307086 T
1 T
5307087 CGCATTTGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 9 0.39
25 8 0.35
26 6 0.26
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (24 bp):
TTTTTATAAATAATAAATTTTTAT
Found at i:5313637 original size:16 final size:16
Alignment explanation
Indices: 5313616--5313646 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
5313606 AGAGATCAAG
*
5313616 AATTTTCAATTTAAAA
1 AATTTTAAATTTAAAA
5313632 AATTTTAAATTTAAA
1 AATTTTAAATTTAAA
5313647 TCATAACAGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (16 bp):
AATTTTAAATTTAAAA
Found at i:5314161 original size:22 final size:22
Alignment explanation
Indices: 5314133--5314180 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
5314123 AATCCTATCT
5314133 TCAATTTCCTTCCAAAATTCTC
1 TCAATTTCCTTCCAAAATTCTC
5314155 TCAATTTCCTTCCAAAATTCTC
1 TCAATTTCCTTCCAAAATTCTC
5314177 TCAA
1 TCAA
5314181 ACCCATATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.29, C:0.31, G:0.00, T:0.40
Consensus pattern (22 bp):
TCAATTTCCTTCCAAAATTCTC
Found at i:5314216 original size:51 final size:51
Alignment explanation
Indices: 5314152--5314263 Score: 197
Period size: 51 Copynumber: 2.2 Consensus size: 51
5314142 TTCCAAAATT
*
5314152 CTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATTTC
1 CTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATTAC
*
5314203 CTCTCAATTTCCTTCCAAAATTCTCTCAAATCCATATTTAATTTCAATTAC
1 CTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATTAC
*
5314254 CCCTCAATTT
1 CTCTCAATTT
5314264 TATTTTTTAA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.41
Consensus pattern (51 bp):
CTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATTAC
Found at i:5314300 original size:30 final size:30
Alignment explanation
Indices: 5314264--5314328 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 30
5314254 CCCTCAATTT
*
5314264 TATTTTTT-AAAATAATTTT-TATATTTTTA
1 TATTTTTTAAAAATAATTTTAAAT-TTTTTA
5314293 TATTTTTTAAAAATAATTTTAAATTTTTTA
1 TATTTTTTAAAAATAATTTTAAATTTTTTA
5314323 TATTTT
1 TATTTT
5314329 CATCAATGGC
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
29 8 0.24
30 23 0.70
31 2 0.06
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (30 bp):
TATTTTTTAAAAATAATTTTAAATTTTTTA
Found at i:5315422 original size:7 final size:7
Alignment explanation
Indices: 5315410--5315434 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
5315400 AGTCGATTGA
5315410 TATTTAG
1 TATTTAG
5315417 TATTTAG
1 TATTTAG
5315424 TATTTAG
1 TATTTAG
5315431 TATT
1 TATT
5315435 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:5316111 original size:18 final size:18
Alignment explanation
Indices: 5316085--5316119 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
5316075 AGGTGTGTTT
* *
5316085 CCTAGCCCTTATATGTAC
1 CCTAACCCTTACATGTAC
5316103 CCTAACCCTTACATGTA
1 CCTAACCCTTACATGTA
5316120 TCCTTTTCCG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.34, G:0.09, T:0.31
Consensus pattern (18 bp):
CCTAACCCTTACATGTAC
Found at i:5316552 original size:25 final size:25
Alignment explanation
Indices: 5316523--5316708 Score: 85
Period size: 25 Copynumber: 7.7 Consensus size: 25
5316513 TTTAAATTTA
5316523 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
** *
5316548 TTATTTGATGTAATACGTATAGAAAT
1 TTATTTGATGTAATA-AAATAGAAGT
** *
5316574 TT-TTTCGA-GT--T-ATTTTG-A-T
1 TTATTT-GATGTAATAAAATAGAAGT
5316593 ATTATTTGATGTAATAAAATAGAAGT
1 -TTATTTGATGTAATAAAATAGAAGT
* ** *
5316619 TTATTTGATATAATAGGCATAGAAAT
1 TTATTTGATGTAATA-AAATAGAAGT
** *
5316645 TT-TTTCGA-GT--T-ATTTTG-A-T
1 TTATTT-GATGTAATAAAATAGAAGT
*
5316664 ATTATTTGATATAATAAAATAGAAGT
1 -TTATTTGATGTAATAAAATAGAAGT
5316690 TCTATTTGATGTAATAAAA
1 T-TATTTGATGTAATAAAA
5316709 ACCATAATTT
Statistics
Matches: 117, Mismatches: 23, Indels: 41
0.65 0.13 0.23
Matches are distributed among these distances:
19 2 0.02
20 10 0.09
21 14 0.12
23 4 0.03
24 6 0.05
25 41 0.35
26 40 0.34
ACGTcount: A:0.38, C:0.03, G:0.15, T:0.45
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:5316641 original size:71 final size:71
Alignment explanation
Indices: 5316521--5316705 Score: 325
Period size: 71 Copynumber: 2.6 Consensus size: 71
5316511 TATTTAAATT
*
5316521 TATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATACGTATAGAAATTTTTTCGAGTTA
1 TATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATACGCATAGAAATTTTTTCGAGTTA
5316586 TTTTGA
66 TTTTGA
* *
5316592 TATTATTTGATGTAATAAAATAGAAGTTTATTTGATATAATAGGCATAGAAATTTTTTCGAGTTA
1 TATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATACGCATAGAAATTTTTTCGAGTTA
5316657 TTTTGA
66 TTTTGA
*
5316663 TATTATTTGATATAATAAAATAGAAGTTCTATTTGATGTAATA
1 TATTATTTGATGTAATAAAATAGAAGTT-TATTTGATGTAATA
5316706 AAAACCATAA
Statistics
Matches: 108, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
71 95 0.88
72 13 0.12
ACGTcount: A:0.37, C:0.03, G:0.15, T:0.45
Consensus pattern (71 bp):
TATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATACGCATAGAAATTTTTTCGAGTTA
TTTTGA
Found at i:5316759 original size:29 final size:29
Alignment explanation
Indices: 5316708--5316888 Score: 301
Period size: 29 Copynumber: 6.2 Consensus size: 29
5316698 ATGTAATAAA
* *
5316708 AACCATAATTTAATTAAAAACCCTAACCAT
1 AACC-TAACTTAATTAAAAACCCTAACCCT
5316738 AACCTAACTTAATTAAAAACCCTAACCCT
1 AACCTAACTTAATTAAAAACCCTAACCCT
*
5316767 AACCTAATTTAATT-AAAACCCTAACCCT
1 AACCTAACTTAATTAAAAACCCTAACCCT
5316795 AACCTAACTTAATTAAAAACCCTAACCCT
1 AACCTAACTTAATTAAAAACCCTAACCCT
*
5316824 AACCAAACTTAATTAAAAACCCTAACCCT
1 AACCTAACTTAATTAAAAACCCTAACCCT
*
5316853 AACCTAACTTAATTAAAAACCCTAGCCCT
1 AACCTAACTTAATTAAAAACCCTAACCCT
5316882 AACCTAA
1 AACCTAA
5316889 TTTTACATAA
Statistics
Matches: 143, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
28 27 0.19
29 112 0.78
30 4 0.03
ACGTcount: A:0.46, C:0.29, G:0.01, T:0.24
Consensus pattern (29 bp):
AACCTAACTTAATTAAAAACCCTAACCCT
Found at i:5316865 original size:86 final size:87
Alignment explanation
Indices: 5316708--5316888 Score: 301
Period size: 86 Copynumber: 2.1 Consensus size: 87
5316698 ATGTAATAAA
* *
5316708 AACCATAATTTAATTAAAAACCCTAACCATAACCTAACTTAATTAAAAACCCTAACCCTAACCTA
1 AACC-TAACTTAATTAAAAACCCTAACCATAACCAAACTTAATTAAAAACCCTAACCCTAACCTA
*
5316773 ATTTAATT-AAAACCCTAACCCT
65 ACTTAATTAAAAACCCTAACCCT
*
5316795 AACCTAACTTAATTAAAAACCCTAACCCTAACCAAACTTAATTAAAAACCCTAACCCTAACCTAA
1 AACCTAACTTAATTAAAAACCCTAACCATAACCAAACTTAATTAAAAACCCTAACCCTAACCTAA
*
5316860 CTTAATTAAAAACCCTAGCCCT
66 CTTAATTAAAAACCCTAACCCT
5316882 AACCTAA
1 AACCTAA
5316889 TTTTACATAA
Statistics
Matches: 88, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
86 64 0.73
87 24 0.27
ACGTcount: A:0.46, C:0.29, G:0.01, T:0.24
Consensus pattern (87 bp):
AACCTAACTTAATTAAAAACCCTAACCATAACCAAACTTAATTAAAAACCCTAACCCTAACCTAA
CTTAATTAAAAACCCTAACCCT
Found at i:5316947 original size:55 final size:55
Alignment explanation
Indices: 5316886--5317065 Score: 317
Period size: 55 Copynumber: 3.2 Consensus size: 55
5316876 AGCCCTAACC
5316886 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
1 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
5316941 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
1 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
*
5316996 TAATTTTACATAATTTGATAATTTTACTAACCATTAACAAAAATTTTTTTGG-CTTAA
1 TAATTTTACATAATTTGATAATTTTACTAACCATTAAC-ACAA--TTTTTGGACTTAA
5317053 TAATTTTACATAA
1 TAATTTTACATAA
5317066 ATTTACATAA
Statistics
Matches: 121, Mismatches: 1, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
55 93 0.77
56 3 0.02
57 18 0.15
58 7 0.06
ACGTcount: A:0.39, C:0.12, G:0.05, T:0.44
Consensus pattern (55 bp):
TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
Found at i:5320478 original size:123 final size:124
Alignment explanation
Indices: 5320182--5320530 Score: 612
Period size: 123 Copynumber: 2.8 Consensus size: 124
5320172 CTCAAACTTG
* *
5320182 CTACTGCAGCAAAATCGCGTCCACGAGGGCGTGATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
* *
5320247 TACAAGCGATTTTATACTATTTACTCAGAAACGTCAAAAAAATTTATTTCTTACATGAC
66 TACAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGAC
*
5320306 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCATGG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
*
5320371 TACTAGCGATTTTATACTATTTGCTCAGAAACGT-AAAAAAAATTATTTCTTACATGAC
66 TACAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGAC
5320429 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
*
5320494 TAGAAGCGATTTTATACTATTTGAC-CAGAAACGTCAA
66 TACAAGCGATTTTATACTATTTG-CTCAGAAACGTCAA
5320531 CTTAAAATAA
Statistics
Matches: 214, Mismatches: 9, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
123 117 0.55
124 97 0.45
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (124 bp):
CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
TACAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGAC
Found at i:5322732 original size:17 final size:15
Alignment explanation
Indices: 5322702--5322748 Score: 58
Period size: 15 Copynumber: 3.0 Consensus size: 15
5322692 GTTTGTGAGG
5322702 TTTTTTTAAAAAATA
1 TTTTTTTAAAAAATA
5322717 TTTTATTTATAAAAATA
1 TTTT-TTTA-AAAAATA
* *
5322734 TTATTTTAAGAAATA
1 TTTTTTTAAAAAATA
5322749 AATGTTATGT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 10 0.36
16 8 0.29
17 10 0.36
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (15 bp):
TTTTTTTAAAAAATA
Found at i:5322741 original size:16 final size:15
Alignment explanation
Indices: 5322705--5322748 Score: 52
Period size: 17 Copynumber: 2.8 Consensus size: 15
5322695 TGTGAGGTTT
*
5322705 TTTTAAAAAATATTT
1 TTTTAAAAAATATTA
5322720 TATTTATAAAAATATTA
1 T-TTTA-AAAAATATTA
*
5322737 TTTTAAGAAATA
1 TTTTAAAAAATA
5322749 AATGTTATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
15 7 0.28
16 8 0.32
17 10 0.40
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (15 bp):
TTTTAAAAAATATTA
Found at i:5322828 original size:20 final size:20
Alignment explanation
Indices: 5322803--5322841 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
5322793 TATAATTGTG
5322803 TTATGTATTGTTATAAAAAT
1 TTATGTATTGTTATAAAAAT
* *
5322823 TTATGTGTTTTTATAAAAA
1 TTATGTATTGTTATAAAAA
5322842 AAACTTTACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.51
Consensus pattern (20 bp):
TTATGTATTGTTATAAAAAT
Found at i:5323766 original size:15 final size:16
Alignment explanation
Indices: 5323739--5323770 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
5323729 CATAATTTAT
5323739 TAAAAAATATTAAAAA
1 TAAAAAATATTAAAAA
5323755 TAAAAAAT-TTAAAAA
1 TAAAAAATATTAAAAA
5323770 T
1 T
5323771 TTATTTATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
TAAAAAATATTAAAAA
Done.