Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009625.1 Hibiscus syriacus cultivar Beakdansim tig00117017_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 6938204
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 23 of 25
Found at i:6499616 original size:21 final size:21
Alignment explanation
Indices: 6499590--6499650 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
6499580 CCCCCTTTGA
*
6499590 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
**
6499611 AGGGGAATTGATACCCCCCAC
1 AGGGGAACCGATACCCCCCAC
**
6499632 AGGGGAATTGATACCCCCC
1 AGGGGAACCGATACCCCCC
6499651 CTGGGGTTCT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.26, C:0.36, G:0.25, T:0.13
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:6500122 original size:15 final size:15
Alignment explanation
Indices: 6500102--6500130 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
6500092 AACTATACAT
6500102 ATATTATTTTTCAAA
1 ATATTATTTTTCAAA
6500117 ATATTATTTTTCAA
1 ATATTATTTTTCAA
6500131 TAGTTTTCAA
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:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (15 bp):
ATATTATTTTTCAAA
Found at i:6501286 original size:12 final size:12
Alignment explanation
Indices: 6501271--6501295 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6501261 GAGCCCGAAT
6501271 AGCCCGAGGAGC
1 AGCCCGAGGAGC
6501283 AGCCCGAGGAGC
1 AGCCCGAGGAGC
6501295 A
1 A
6501296 AGCACAACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.32, G:0.40, T:0.00
Consensus pattern (12 bp):
AGCCCGAGGAGC
Found at i:6505547 original size:11 final size:11
Alignment explanation
Indices: 6505527--6505556 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
6505517 AAATGTTAGA
6505527 TAAA-AAATAT
1 TAAATAAATAT
6505537 TAAATAAATAT
1 TAAATAAATAT
6505548 TAAATAAAT
1 TAAATAAAT
6505557 CAAAGAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.21
11 15 0.79
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
TAAATAAATAT
Found at i:6505592 original size:3 final size:3
Alignment explanation
Indices: 6505569--6505609 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
6505559 AAGAATAAAC
* *
6505569 ATA AGA ATA AAA ATAA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA A
6505610 ATCAAAAGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:6505706 original size:59 final size:58
Alignment explanation
Indices: 6505569--6505709 Score: 137
Period size: 59 Copynumber: 2.4 Consensus size: 58
6505559 AAGAATAAAC
*
6505569 ATAAGAATAAAAATAAATAATAATAATAATAATAATAATAAATCAAAAGAAAAATAAAAAA
1 ATAA-AATAAAAATAAA-AA-AATAAAAATAATAATAATAAATCAAAAGAAAAATAAAAAA
* * **
6505630 AT-AAATCAAAGGAA-AAAAAGATAAAAATAATAATAATAAATC-AATGAAAAA-AACATGTA
1 ATAAAAT-AAA--AATAAAAAAATAAAAATAATAATAATAAATCAAAAGAAAAATAA-A-AAA
6505689 ATAAAATAAAAATAAAAAAAT
1 ATAAAATAAAAATAAAAAAAT
6505710 TTAAAAAACA
Statistics
Matches: 67, Mismatches: 6, Indels: 17
0.74 0.07 0.19
Matches are distributed among these distances:
57 4 0.06
58 16 0.24
59 30 0.45
60 10 0.15
61 5 0.07
62 2 0.03
ACGTcount: A:0.72, C:0.03, G:0.05, T:0.20
Consensus pattern (58 bp):
ATAAAATAAAAATAAAAAAATAAAAATAATAATAATAAATCAAAAGAAAAATAAAAAA
Found at i:6506997 original size:13 final size:13
Alignment explanation
Indices: 6506966--6506998 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
6506956 GGAAAAAATG
*
6506966 AATACTAAATAAA
1 AATAATAAATAAA
6506979 AA-AATAAATAAA
1 AATAATAAATAAA
6506991 AATAATAA
1 AATAATAA
6506999 GAATAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (13 bp):
AATAATAAATAAA
Found at i:6507003 original size:19 final size:18
Alignment explanation
Indices: 6506958--6507008 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
6506948 AAAAGAAAGG
* *
6506958 AAAAAATGAATACTAAATA
1 AAAAAATAAATA-AAAATA
6506977 AAAAAATAAATAAAAATA
1 AAAAAATAAATAAAAATA
*
6506995 ATAAGAATAAATAA
1 A-AAAAATAAATAA
6507009 TATTAATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 6 0.21
19 22 0.79
ACGTcount: A:0.75, C:0.02, G:0.04, T:0.20
Consensus pattern (18 bp):
AAAAAATAAATAAAAATA
Found at i:6507054 original size:36 final size:38
Alignment explanation
Indices: 6507005--6507190 Score: 138
Period size: 38 Copynumber: 4.9 Consensus size: 38
6506995 ATAAGAATAA
*
6507005 ATAATAT-TA-ATATAATATAAAAAA-A-ATT-AAAACT
1 ATAATATATATATAT-ATATAAAAATAATATTCAAAACT
* *
6507039 ATAATATATATATATATTTAAAAATAATTTTCAAAACT
1 ATAATATATATATATATATAAAAATAATATTCAAAACT
* * * *
6507077 AT-ATACTATATATATTTTTAAAAATAATTTTTAAAACT
1 ATAATA-TATATATATATATAAAAATAATATTCAAAACT
* * *
6507115 AT-ATA-ATATATATATTTTCAAAAATTATTTTC-AAACT
1 ATAATATATATATATA-TAT-AAAAATAATATTCAAAACT
* *
6507152 ATAATTTATATATATATATATATATATATATATTCAAAA
1 ATAA--TATATATATATATATAAAAATA-ATATTCAAAA
6507191 TTATTTTCAA
Statistics
Matches: 125, Mismatches: 13, Indels: 21
0.79 0.08 0.13
Matches are distributed among these distances:
34 7 0.06
35 10 0.08
36 13 0.10
37 15 0.12
38 55 0.44
39 4 0.03
40 9 0.07
41 12 0.10
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (38 bp):
ATAATATATATATATATATAAAAATAATATTCAAAACT
Found at i:6507087 original size:38 final size:37
Alignment explanation
Indices: 6507033--6507168 Score: 177
Period size: 38 Copynumber: 3.6 Consensus size: 37
6507023 AAAAAAAATT
6507033 AAAACTATAATATATATATATATTTAAAAATAATTTTC
1 AAAACTAT-ATATATATATATATTTAAAAATAATTTTC
* *
6507071 AAAACTATATACTATATATATTTTTAAAAATAATTTTT
1 AAAACTATATA-TATATATATATTTAAAAATAATTTTC
*
6507109 AAAACTATATA-ATATATATATTTTCAAAAATTATTTTC
1 AAAACTATATATATATATATA-TTT-AAAAATAATTTTC
*
6507147 -AAACTATAATTTATATATATAT
1 AAAACTAT-ATATATATATATAT
6507169 ATATATATAT
Statistics
Matches: 87, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
36 8 0.09
37 13 0.15
38 57 0.66
39 9 0.10
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (37 bp):
AAAACTATATATATATATATATTTAAAAATAATTTTC
Found at i:6507165 original size:2 final size:2
Alignment explanation
Indices: 6507158--6507184 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6507148 AACTATAATT
6507158 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
6507185 TCAAAATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6507189 original size:53 final size:52
Alignment explanation
Indices: 6507114--6507219 Score: 169
Period size: 53 Copynumber: 2.0 Consensus size: 52
6507104 TTTTTAAAAC
* *
6507114 TATATAATATATATATTTTCAAAAATTATTTTC-AAACTATAATTTATATATA
1 TATATAATATATATATATTC-AAAATTATTTTCAAAACTATAATATATATATA
6507166 TATATATATATATATATATTCAAAATTATTTTCAAAACTATAATATATATATA
1 TATATA-ATATATATATATTCAAAATTATTTTCAAAACTATAATATATATATA
6507219 T
1 T
6507220 TCAAAAATAT
Statistics
Matches: 50, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
52 18 0.36
53 32 0.64
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (52 bp):
TATATAATATATATATATTCAAAATTATTTTCAAAACTATAATATATATATA
Found at i:6507241 original size:53 final size:53
Alignment explanation
Indices: 6507119--6507269 Score: 161
Period size: 53 Copynumber: 2.9 Consensus size: 53
6507109 AAAACTATAT
* *
6507119 AATATATATATTTTCAAAAATTATTTTC-AAACTATAATTTATATATATATATA
1 AATATATATATTTTC-AAAATTATTTTCAAAACTATAATATATATATATATAAA
* *
6507172 TATATATATATATTCAAAATTATTTTCAAAACTATAATATATATATAT-TCAAA
1 AATATATATATTTTCAAAATTATTTTCAAAACTATAATATATATATATAT-AAA
* * * *
6507225 AATAT-TTTCATTTTCAAAA-TGTTTTAAAAACCAT-ATAT-TATATAT
1 AATATATAT-ATTTTCAAAATTATTTTCAAAACTATAATATATATATAT
6507270 GTTTTAAAAA
Statistics
Matches: 85, Mismatches: 10, Indels: 9
0.82 0.10 0.09
Matches are distributed among these distances:
50 7 0.08
51 4 0.05
52 27 0.32
53 47 0.55
ACGTcount: A:0.46, C:0.07, G:0.01, T:0.46
Consensus pattern (53 bp):
AATATATATATTTTCAAAATTATTTTCAAAACTATAATATATATATATATAAA
Found at i:6507261 original size:90 final size:89
Alignment explanation
Indices: 6507066--6507279 Score: 211
Period size: 90 Copynumber: 2.4 Consensus size: 89
6507056 TTAAAAATAA
* * * *
6507066 TTTTCAAAACTATATACTATATATATTTTTAAAAATAATTTTTAAAACTATATAATATATATATT
1 TTTTAAAAACTATATA-TATATATATTATTAAAAATAATTTTCAAAAC-ATATAATATATATATA
*
6507131 TTCAAAAATTATTTTCAAACTATAAT
64 TTCAAAAATTATTTTCAAACTAAAAT
* * * * *
6507157 TTATATATA-TATATATATATATATATATTCAAAATTATTTTCAAAAC-TATAATATATATATAT
1 TTTTAAAAACTATATATATATATAT-TATTAAAAATAATTTTCAAAACATATAATATATATATAT
***
6507220 TCAAAAA-TATTTTCATTTTCAAAAT
65 TCAAAAATTATTTTCAAACT-AAAAT
* *
6507245 GTTTTAAAAACCATATAT-TATATATGTTTTAAAAA
1 -TTTTAAAAACTATATATATATATAT-TATTAAAAA
6507280 CCATGTATTA
Statistics
Matches: 99, Mismatches: 20, Indels: 10
0.77 0.16 0.08
Matches are distributed among these distances:
87 9 0.09
88 26 0.26
89 29 0.29
90 30 0.30
91 5 0.05
ACGTcount: A:0.46, C:0.07, G:0.01, T:0.46
Consensus pattern (89 bp):
TTTTAAAAACTATATATATATATATTATTAAAAATAATTTTCAAAACATATAATATATATATATT
CAAAAATTATTTTCAAACTAAAAT
Found at i:6507306 original size:27 final size:25
Alignment explanation
Indices: 6507243--6507294 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
6507233 CATTTTCAAA
6507243 ATGTTTTAAAAACCATATATTATAT
1 ATGTTTTAAAAACCATATATTATAT
*
6507268 ATGTTTTAAAAACCATGTATTATAT
1 ATGTTTTAAAAACCATATATTATAT
6507293 AT
1 AT
6507295 ATGTTTTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.44
Consensus pattern (25 bp):
ATGTTTTAAAAACCATATATTATAT
Found at i:6509573 original size:54 final size:54
Alignment explanation
Indices: 6509483--6509710 Score: 321
Period size: 54 Copynumber: 4.2 Consensus size: 54
6509473 TACCAAATGA
*
6509483 GCACTATGTGTGCAACTTAAGAAATTCATAAGAAGTTTATGAATTTCCATATTG
1 GCACTATGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCCATATTG
* **
6509537 GCATTATGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCTGTATTG
1 GCACTATGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCCATATTG
* *
6509591 GCACTGTTTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCCATATTG
1 GCACTATGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCCATATTG
* ** * * * * *
6509645 GCACTGTGTGTGCAACCCCACGTAATTCATAATAAGTTTGTGAATTACCGTATTG
1 GCACTATGTGTGCAA-CTTAAGAAATTCATAATAAGTTTATGAATTTCCATATTG
6509700 GCACTATGTGT
1 GCACTATGTGT
6509711 ACAAACCATG
Statistics
Matches: 155, Mismatches: 18, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
54 113 0.73
55 42 0.27
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.37
Consensus pattern (54 bp):
GCACTATGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCCATATTG
Found at i:6512475 original size:14 final size:14
Alignment explanation
Indices: 6512456--6512483 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
6512446 TTCTCTAAAA
6512456 AAATTTAAATTCTT
1 AAATTTAAATTCTT
6512470 AAATTTAAATTCTT
1 AAATTTAAATTCTT
6512484 CTATACTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (14 bp):
AAATTTAAATTCTT
Found at i:6519209 original size:60 final size:60
Alignment explanation
Indices: 6519099--6519212 Score: 156
Period size: 60 Copynumber: 1.9 Consensus size: 60
6519089 ATAGTGGTGA
* ** **
6519099 TCATTTTGTAACTTTTAATGGTCGATGGACTTAACAAATTAACATTTTATAGTCAGATGG
1 TCATTTTGTAACTTTTAATAGTCGATGGACTTAACAAAACAACACATTATAGTCAGATGG
* * *
6519159 TCATTTTTTAACTTTTAATAGTCGATGGACTTAATAAAACAATACATTATAGTC
1 TCATTTTGTAACTTTTAATAGTCGATGGACTTAACAAAACAACACATTATAGTC
6519213 GGAGGACCAT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
60 46 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (60 bp):
TCATTTTGTAACTTTTAATAGTCGATGGACTTAACAAAACAACACATTATAGTCAGATGG
Found at i:6520552 original size:16 final size:17
Alignment explanation
Indices: 6520531--6520565 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
6520521 TTACTATTCA
6520531 CGTGAATAGTG-AATTT
1 CGTGAATAGTGAAATTT
6520547 CGTGAATAGTGAAATTT
1 CGTGAATAGTGAAATTT
6520564 CG
1 CG
6520566 GTCGGCGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.31, C:0.09, G:0.26, T:0.34
Consensus pattern (17 bp):
CGTGAATAGTGAAATTT
Found at i:6530945 original size:20 final size:21
Alignment explanation
Indices: 6530920--6530960 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 21
6530910 ACTCTACATA
6530920 ATAGTATCGATACCA-TAGGC
1 ATAGTATCGATACCATTAGGC
6530940 ATAGTATCGATACCATTAGGC
1 ATAGTATCGATACCATTAGGC
6530961 CCCAATAGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.27
Consensus pattern (21 bp):
ATAGTATCGATACCATTAGGC
Found at i:6533030 original size:22 final size:23
Alignment explanation
Indices: 6533004--6533063 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 23
6532994 AGTTAAGTAC
6533004 TATCTAGAAGATAAGA-AAAGAT
1 TATCTAGAAGATAAGATAAAGAT
* **
6533026 TATCTAGTAGATAA-ATCGAGAT
1 TATCTAGAAGATAAGATAAAGAT
*
6533048 TCTCTAGAAGATAAGA
1 TATCTAGAAGATAAGA
6533064 CAACATTTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 1 0.03
22 29 0.94
23 1 0.03
ACGTcount: A:0.47, C:0.08, G:0.18, T:0.27
Consensus pattern (23 bp):
TATCTAGAAGATAAGATAAAGAT
Found at i:6536171 original size:18 final size:18
Alignment explanation
Indices: 6536148--6536187 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
6536138 TAATCAAGAA
6536148 TCCCTTCAGTTGTGTGCT
1 TCCCTTCAGTTGTGTGCT
6536166 TCCCTTCAGTTGTGTGCT
1 TCCCTTCAGTTGTGTGCT
6536184 TCCC
1 TCCC
6536188 AGTCTTGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.05, C:0.33, G:0.20, T:0.42
Consensus pattern (18 bp):
TCCCTTCAGTTGTGTGCT
Found at i:6539468 original size:63 final size:61
Alignment explanation
Indices: 6539395--6539516 Score: 149
Period size: 63 Copynumber: 2.0 Consensus size: 61
6539385 CTTAAACTTG
* *
6539395 AAGGTTTAATTCTAAA-CTAATAGTTTCTAATTAGT-AGCTAATTTTAAAAGAATCATAAATCAA
1 AAGGCTTAATTCTAAATCTAAAAG-TT-TAATTAGTGA-CTAA-TTTAAAAGAATCATAAATCAA
* * *
6539458 AAGGCTTAATTCTAAATCTAAAAGTTTAATTGGTGACTAATTTAAAAGTATCTTAAATC
1 AAGGCTTAATTCTAAATCTAAAAGTTTAATTAGTGACTAATTTAAAAGAATCATAAATC
6539517 TGAGGTTTGG
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
61 17 0.33
62 11 0.21
63 18 0.35
64 6 0.12
ACGTcount: A:0.43, C:0.10, G:0.11, T:0.37
Consensus pattern (61 bp):
AAGGCTTAATTCTAAATCTAAAAGTTTAATTAGTGACTAATTTAAAAGAATCATAAATCAA
Found at i:6540344 original size:25 final size:25
Alignment explanation
Indices: 6540310--6540358 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
6540300 TGCATGCGTT
* *
6540310 GTGCCATTATTGGGCACCAATAATG
1 GTGCAATTATTGGCCACCAATAATG
*
6540335 GTGCAATTATTGTCCACCAATAAT
1 GTGCAATTATTGGCCACCAATAAT
6540359 TTGGGCACCG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (25 bp):
GTGCAATTATTGGCCACCAATAATG
Found at i:6541041 original size:25 final size:25
Alignment explanation
Indices: 6541009--6541069 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
6540999 ATTTGTAGTA
* *
6541009 GAAAAATAATATTTATTATAATGAT
1 GAAAAATAATATTAATTATAATGAC
*
6541034 GAAAAATAATATTAATTATAATTAC
1 GAAAAATAATATTAATTATAATGAC
*
6541059 AAAAAATAATA
1 GAAAAATAATA
6541070 GCATCAGTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (25 bp):
GAAAAATAATATTAATTATAATGAC
Found at i:6541134 original size:45 final size:45
Alignment explanation
Indices: 6541079--6541168 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 45
6541069 AGCATCAGTA
* *
6541079 ATTAATTATCCATTAATAAGT-CGGGTAGGTTGGTAGTTGGTGGTT
1 ATTAATTATCCATTAATAA-TCCGAGTAGGTTAGTAGTTGGTGGTT
* *
6541124 ATTAGTTATCCATTAATAATCCGAGTAGGTTAGTGGTTGGTGGTT
1 ATTAATTATCCATTAATAATCCGAGTAGGTTAGTAGTTGGTGGTT
6541169 GAACGGGAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 1 0.03
45 39 0.98
ACGTcount: A:0.24, C:0.08, G:0.28, T:0.40
Consensus pattern (45 bp):
ATTAATTATCCATTAATAATCCGAGTAGGTTAGTAGTTGGTGGTT
Found at i:6541393 original size:38 final size:38
Alignment explanation
Indices: 6541341--6541421 Score: 117
Period size: 38 Copynumber: 2.1 Consensus size: 38
6541331 GGTTGGTGGG
* *
6541341 TGGTGGTTAATAATTATTCATTAATAACTCAGGTAGGT
1 TGGTGATTAATAATTATACATTAATAACTCAGGTAGGT
* * *
6541379 TGGTGATTATTAATTATACATTAATATCTCGGGTAGGT
1 TGGTGATTAATAATTATACATTAATAACTCAGGTAGGT
6541417 TGGTG
1 TGGTG
6541422 GTTGCACGGG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.28, C:0.07, G:0.23, T:0.41
Consensus pattern (38 bp):
TGGTGATTAATAATTATACATTAATAACTCAGGTAGGT
Found at i:6544416 original size:27 final size:27
Alignment explanation
Indices: 6544381--6544630 Score: 173
Period size: 27 Copynumber: 8.9 Consensus size: 27
6544371 AAACATATGA
* *
6544381 TGAACAATATCAACAGTTGAATGAATG
1 TGAATAATATCAATAGTTGAATGAATG
6544408 TGAATAATATCAATAGTTGAATGAATG
1 TGAATAATATCAATAGTTGAATGAATG
* *
6544435 TGAATAATGTCAATAGTTGAATTAATG
1 TGAATAATATCAATAGTTGAATGAATG
* * * *
6544462 CGATTAATATCAATAATTGAATTAATATG
1 TGAATAATATCAATAGTTGAA-TGA-ATG
* * * * *
6544491 ATGGATATTTTTTAAT-GATAT-AATTTTAATG
1 -TGAATA-ATATCAATAG-T-TGAA--TGAATG
*
6544522 AATATGATTAATATCAATAGTTGAATGAATG
1 --T--GAATAATATCAATAGTTGAATGAATG
*
6544553 TGAATAATATCAATAGTTGAATTAATG
1 TGAATAATATCAATAGTTGAATGAATG
* * * *
6544580 TGATTAATATCAATATTTGAATTAATA
1 TGAATAATATCAATAGTTGAATGAATG
* *
6544607 TG-ATGGATATTAATAGTTGAATGA
1 TGAAT-AATATCAATAGTTGAATGA
6544631 TGAATACTAA
Statistics
Matches: 177, Mismatches: 33, Indels: 26
0.75 0.14 0.11
Matches are distributed among these distances:
26 1 0.01
27 132 0.75
28 2 0.01
29 4 0.02
30 3 0.02
31 16 0.09
32 7 0.04
33 8 0.05
34 4 0.02
ACGTcount: A:0.42, C:0.04, G:0.16, T:0.38
Consensus pattern (27 bp):
TGAATAATATCAATAGTTGAATGAATG
Found at i:6544482 original size:54 final size:54
Alignment explanation
Indices: 6544381--6544630 Score: 214
Period size: 54 Copynumber: 4.4 Consensus size: 54
6544371 AAACATATGA
* * *
6544381 TGAACAATATCAACAGTTGAATGAATGTGAATAATATCAATAGTTGAATGAATG
1 TGAATAATATCAATAGTTGAATGAATGTGATTAATATCAATAGTTGAATGAATG
* * * * *
6544435 TGAATAATGTCAATAGTTGAATTAATGCGATTAATATCAATAATTGAATTAATATG
1 TGAATAATATCAATAGTTGAATGAATGTGATTAATATCAATAGTTGAA-TGA-ATG
** * * * *
6544491 ATGGATATTTTTTAATGATATAATTTTAATGAATATGATTAATATCAATAGTTGAATGAATG
1 -T-GA-A--TAAT-ATCA-AT-AGTTGAATGAATGTGATTAATATCAATAGTTGAATGAATG
* * * *
6544553 TGAATAATATCAATAGTTGAATTAATGTGATTAATATCAATATTTGAATTAATA
1 TGAATAATATCAATAGTTGAATGAATGTGATTAATATCAATAGTTGAATGAATG
* *
6544607 TG-ATGGATATTAATAGTTGAATGA
1 TGAAT-AATATCAATAGTTGAATGA
6544631 TGAATACTAA
Statistics
Matches: 153, Mismatches: 32, Indels: 22
0.74 0.15 0.11
Matches are distributed among these distances:
53 2 0.01
54 92 0.60
55 4 0.03
56 6 0.04
57 3 0.02
58 2 0.01
59 2 0.01
60 2 0.01
61 3 0.02
62 5 0.03
63 4 0.03
64 28 0.18
ACGTcount: A:0.42, C:0.04, G:0.16, T:0.38
Consensus pattern (54 bp):
TGAATAATATCAATAGTTGAATGAATGTGATTAATATCAATAGTTGAATGAATG
Found at i:6544536 original size:118 final size:118
Alignment explanation
Indices: 6544400--6544617 Score: 391
Period size: 118 Copynumber: 1.8 Consensus size: 118
6544390 TCAACAGTTG
* *
6544400 AATGAATGTGAATAATATCAATAGTTGAATGAATGTGAATAATGTCAATAGTTGAATTAATGCGA
1 AATGAATATGAATAATATCAATAGTTGAATGAATGTGAATAATATCAATAGTTGAATTAATGCGA
6544465 TTAATATCAATAATTGAATTAATATGATGGATATTTTTTAATGATATAATTTT
66 TTAATATCAATAATTGAATTAATATGATGGATATTTTTTAATGATATAATTTT
* *
6544518 AATGAATATGATTAATATCAATAGTTGAATGAATGTGAATAATATCAATAGTTGAATTAATGTGA
1 AATGAATATGAATAATATCAATAGTTGAATGAATGTGAATAATATCAATAGTTGAATTAATGCGA
*
6544583 TTAATATCAATATTTGAATTAATATGATGGATATT
66 TTAATATCAATAATTGAATTAATATGATGGATATT
6544618 AATAGTTGAA
Statistics
Matches: 95, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
118 95 1.00
ACGTcount: A:0.42, C:0.03, G:0.15, T:0.39
Consensus pattern (118 bp):
AATGAATATGAATAATATCAATAGTTGAATGAATGTGAATAATATCAATAGTTGAATTAATGCGA
TTAATATCAATAATTGAATTAATATGATGGATATTTTTTAATGATATAATTTT
Found at i:6553963 original size:14 final size:13
Alignment explanation
Indices: 6553940--6553970 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
6553930 CATAATCGGA
6553940 TTTAGATTTAGGG
1 TTTAGATTTAGGG
6553953 TTTAGGATTTAGGG
1 TTTA-GATTTAGGG
6553967 TTTA
1 TTTA
6553971 TAGTTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.24
14 13 0.76
ACGTcount: A:0.23, C:0.00, G:0.29, T:0.48
Consensus pattern (13 bp):
TTTAGATTTAGGG
Found at i:6554038 original size:11 final size:11
Alignment explanation
Indices: 6554017--6554084 Score: 52
Period size: 11 Copynumber: 6.3 Consensus size: 11
6554007 TAGTTGTATT
6554017 ATATAATTTTTA
1 ATAT-ATTTTTA
6554029 ATATATTTTTA
1 ATATATTTTTA
6554040 A-AT-TTTTATA
1 ATATATTTT-TA
***
6554050 AT-TATAAATA
1 ATATATTTTTA
* *
6554060 GTGTATTTTTA
1 ATATATTTTTA
6554071 ATATATTTTTA
1 ATATATTTTTA
6554082 ATA
1 ATA
6554085 ATGTAATTTT
Statistics
Matches: 43, Mismatches: 9, Indels: 9
0.70 0.15 0.15
Matches are distributed among these distances:
9 4 0.09
10 9 0.21
11 26 0.60
12 4 0.09
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (11 bp):
ATATATTTTTA
Found at i:6554057 original size:16 final size:18
Alignment explanation
Indices: 6554013--6554058 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
6554003 AAGGTAGTTG
6554013 TATTATATAATTTTTAATA
1 TATTATA-AATTTTTAATA
*
6554032 TATTTTTAAATTTTT-ATA
1 TA-TTATAAATTTTTAATA
6554050 -ATTATAAAT
1 TATTATAAAT
6554059 AGTGTATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
16 7 0.29
17 1 0.04
18 3 0.12
19 9 0.38
20 4 0.17
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TATTATAAATTTTTAATA
Found at i:6554093 original size:26 final size:24
Alignment explanation
Indices: 6554040--6554094 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
6554030 TATATTTTTA
*
6554040 AATTTTTATAATTATAAATAGTGT
1 AATTTTTATAATTATAAATAATGT
* *
6554064 -ATTTTTAATATATTTTTAATAATGT
1 AATTTTT-ATA-ATTATAAATAATGT
6554089 AATTTT
1 AATTTT
6554095 AAAAAATCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
23 6 0.24
24 3 0.12
25 11 0.44
26 5 0.20
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (24 bp):
AATTTTTATAATTATAAATAATGT
Found at i:6555372 original size:18 final size:18
Alignment explanation
Indices: 6555341--6555390 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
6555331 GCGTAGAATT
*
6555341 TGTCCCGAAGGACCAATA
1 TGTCCCGAAAGACCAATA
* *
6555359 TGTCCTGAAAGACCACTA
1 TGTCCCGAAAGACCAATA
*
6555377 TGTCCCGAAGGACC
1 TGTCCCGAAAGACC
6555391 TGTAACACCT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.30, C:0.30, G:0.22, T:0.18
Consensus pattern (18 bp):
TGTCCCGAAAGACCAATA
Found at i:6555418 original size:16 final size:16
Alignment explanation
Indices: 6555397--6555429 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
6555387 GACCTGTAAC
6555397 ACCTAAAACCCATATA
1 ACCTAAAACCCATATA
*
6555413 ACCTAAAACCCGTATA
1 ACCTAAAACCCATATA
6555429 A
1 A
6555430 TTATACCTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.48, C:0.30, G:0.03, T:0.18
Consensus pattern (16 bp):
ACCTAAAACCCATATA
Found at i:6559543 original size:21 final size:22
Alignment explanation
Indices: 6559516--6559569 Score: 76
Period size: 21 Copynumber: 2.5 Consensus size: 22
6559506 CGATGTTCCC
6559516 TGGTATCGATACC-CTCCACATA
1 TGGTATCGATACCTCTCC-CATA
*
6559538 -GGTATCGATACCTCTTCCATA
1 TGGTATCGATACCTCTCCCATA
6559559 TGGTATCGATA
1 TGGTATCGATA
6559570 TTGTTCATAC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 16 0.55
22 13 0.45
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (22 bp):
TGGTATCGATACCTCTCCCATA
Found at i:6562231 original size:18 final size:18
Alignment explanation
Indices: 6562208--6562242 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
6562198 ATTAACATGC
*
6562208 TTATCATTACTTATTTTA
1 TTATCATTAATTATTTTA
6562226 TTATCATTAATTATTTT
1 TTATCATTAATTATTTT
6562243 CTATCATATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.63
Consensus pattern (18 bp):
TTATCATTAATTATTTTA
Found at i:6563217 original size:64 final size:67
Alignment explanation
Indices: 6563083--6563237 Score: 208
Period size: 64 Copynumber: 2.4 Consensus size: 67
6563073 ATAAGACTTA
* * * * *
6563083 GTGCATCGGTACACTAATTACATTCGATGTTTCAAATAAGCCTCGAGAGTGCATCGATGCATGGT
1 GTGCATCGGTACACTAAATGCATTAGATGTTTCAAATAAACCTCGAGAGTGAATCGATGCATGGT
*
6563148 CT
66 AT
* * *
6563150 GTGCATTGGTACACAAAATGCATTAGATGTTTC-AATAAACC-C-TGAGTGAATCGATGCATGGT
1 GTGCATCGGTACACTAAATGCATTAGATGTTTCAAATAAACCTCGAGAGTGAATCGATGCATGGT
6563212 AT
66 AT
6563214 GTGCATCGGTACACTAAATGCATT
1 GTGCATCGGTACACTAAATGCATT
6563238 TGAAATAGGG
Statistics
Matches: 77, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
64 41 0.53
65 1 0.01
66 7 0.09
67 28 0.36
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.30
Consensus pattern (67 bp):
GTGCATCGGTACACTAAATGCATTAGATGTTTCAAATAAACCTCGAGAGTGAATCGATGCATGGT
AT
Found at i:6563305 original size:21 final size:21
Alignment explanation
Indices: 6563252--6563292 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
6563242 ATAGGGTGTG
6563252 CATCGATGCATCAAATGAGTA
1 CATCGATGCATCAAATGAGTA
6563273 CATCGATGCATCAAATGAGT
1 CATCGATGCATCAAATGAGT
6563293 GTATCGATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.24
Consensus pattern (21 bp):
CATCGATGCATCAAATGAGTA
Found at i:6565079 original size:57 final size:59
Alignment explanation
Indices: 6565018--6565141 Score: 164
Period size: 57 Copynumber: 2.2 Consensus size: 59
6565008 AATAATTACA
* *
6565018 AAAATAGCAACCT-TTTCAAATTAATTCCCAAAATAGCA-CAATTTCAAATTAATTCCC
1 AAAATAGCAACCTATTTCAAATAAATTCCCAAAATAGCACCAATTTCAAATAAATTCCC
* * * * *
6565075 AAAATAGC-ACCTATTTCGAATAAATTCTCAAAATAGCACCCATTTCGAATAAATTCCT
1 AAAATAGCAACCTATTTCAAATAAATTCCCAAAATAGCACCAATTTCAAATAAATTCCC
6565133 AAAATAGCA
1 AAAATAGCA
6565142 CTGGTCAATG
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
56 4 0.07
57 30 0.53
58 23 0.40
ACGTcount: A:0.44, C:0.22, G:0.06, T:0.28
Consensus pattern (59 bp):
AAAATAGCAACCTATTTCAAATAAATTCCCAAAATAGCACCAATTTCAAATAAATTCCC
Found at i:6565142 original size:29 final size:29
Alignment explanation
Indices: 6565018--6565142 Score: 153
Period size: 29 Copynumber: 4.3 Consensus size: 29
6565008 AATAATTACA
* * *
6565018 AAAATAGCAACCTTTTCAAATTAATTCCC
1 AAAATAGCACCCATTTCAAATAAATTCCC
* *
6565047 AAAATAGCA-CAATTTCAAATTAATTCCC
1 AAAATAGCACCCATTTCAAATAAATTCCC
* * *
6565075 AAAATAGCACCTATTTCGAATAAATTCTC
1 AAAATAGCACCCATTTCAAATAAATTCCC
* *
6565104 AAAATAGCACCCATTTCGAATAAATTCCT
1 AAAATAGCACCCATTTCAAATAAATTCCC
6565133 AAAATAGCAC
1 AAAATAGCAC
6565143 TGGTCAATGG
Statistics
Matches: 86, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
28 26 0.30
29 60 0.70
ACGTcount: A:0.44, C:0.22, G:0.06, T:0.28
Consensus pattern (29 bp):
AAAATAGCACCCATTTCAAATAAATTCCC
Found at i:6570230 original size:11 final size:11
Alignment explanation
Indices: 6570216--6570257 Score: 57
Period size: 11 Copynumber: 3.5 Consensus size: 11
6570206 GCACAATTTT
6570216 AGAACAAAGAA
1 AGAACAAAGAA
6570227 AGAACACTCAAGAA
1 AGAACA---AAGAA
6570241 AGAACAAAGAA
1 AGAACAAAGAA
6570252 AGAACA
1 AGAACA
6570258 CTCAAGAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
11 17 0.61
14 11 0.39
ACGTcount: A:0.67, C:0.14, G:0.17, T:0.02
Consensus pattern (11 bp):
AGAACAAAGAA
Found at i:6570241 original size:14 final size:14
Alignment explanation
Indices: 6570222--6570265 Score: 67
Period size: 14 Copynumber: 3.4 Consensus size: 14
6570212 TTTTAGAACA
6570222 AAGAAAGAACACTC
1 AAGAAAGAACACTC
6570236 AAGAAAGAACA---
1 AAGAAAGAACACTC
6570247 AAGAAAGAACACTC
1 AAGAAAGAACACTC
6570261 AAGAA
1 AAGAA
6570266 TTTTAGACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
11 11 0.41
14 16 0.59
ACGTcount: A:0.64, C:0.16, G:0.16, T:0.05
Consensus pattern (14 bp):
AAGAAAGAACACTC
Found at i:6570250 original size:25 final size:25
Alignment explanation
Indices: 6570216--6570265 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
6570206 GCACAATTTT
6570216 AGAACAAAGAAAGAACACTCAAGAA
1 AGAACAAAGAAAGAACACTCAAGAA
6570241 AGAACAAAGAAAGAACACTCAAGAA
1 AGAACAAAGAAAGAACACTCAAGAA
6570266 TTTTAGACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.64, C:0.16, G:0.16, T:0.04
Consensus pattern (25 bp):
AGAACAAAGAAAGAACACTCAAGAA
Found at i:6570687 original size:64 final size:65
Alignment explanation
Indices: 6570555--6570710 Score: 224
Period size: 64 Copynumber: 2.4 Consensus size: 65
6570545 ATAAGACTTA
* * * * * **
6570555 GTGCATCGGTACACTAATTACATTCAATGTTTCAAATAAGCCTGGAGTGCATCGATGCATGGTCT
1 GTGCATCAGTACACTAAATGCATTCGATGTTTCAAATAAACCCCGAGTGCATCGATGCATGGTCT
* *
6570620 GTGCATCAGTACACAAAATGCATTCGATGTTTC-AATAAACCCCGAGTGCATCGATGCATGGTGT
1 GTGCATCAGTACACTAAATGCATTCGATGTTTCAAATAAACCCCGAGTGCATCGATGCATGGTCT
6570684 GTGCATCAGTACACTAAATGCATTCGA
1 GTGCATCAGTACACTAAATGCATTCGA
6570711 AATAGGGTGT
Statistics
Matches: 81, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
64 53 0.65
65 28 0.35
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.28
Consensus pattern (65 bp):
GTGCATCAGTACACTAAATGCATTCGATGTTTCAAATAAACCCCGAGTGCATCGATGCATGGTCT
Found at i:6571239 original size:28 final size:28
Alignment explanation
Indices: 6571167--6571241 Score: 96
Period size: 28 Copynumber: 2.7 Consensus size: 28
6571157 GCGTATAATT
* * *
6571167 TGTCTCGAATGACCACATAGAATACATA
1 TGTCCCGAATGACCACGTAGAACACATA
* * *
6571195 TGTCCCAAAGGATCACGTAGAACACATA
1 TGTCCCGAATGACCACGTAGAACACATA
6571223 TGTCCCGAATGACCACGTA
1 TGTCCCGAATGACCACGTA
6571242 AAACTCTCGA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.36, C:0.25, G:0.17, T:0.21
Consensus pattern (28 bp):
TGTCCCGAATGACCACGTAGAACACATA
Found at i:6572220 original size:19 final size:19
Alignment explanation
Indices: 6572174--6572244 Score: 115
Period size: 19 Copynumber: 3.6 Consensus size: 19
6572164 CGATGTTCCC
*
6572174 TGGTATCGATATCCTCCACA
1 TGGTATCGATA-CCTCCATA
6572194 TAGGTATCGATACCTCCATA
1 T-GGTATCGATACCTCCATA
6572214 TGGTATCGATACCTCCATA
1 TGGTATCGATACCTCCATA
6572233 TGGTATCGATAC
1 TGGTATCGATAC
6572245 TGTTCATACA
Statistics
Matches: 49, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
19 30 0.61
20 9 0.18
21 10 0.20
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (19 bp):
TGGTATCGATACCTCCATA
Found at i:6572259 original size:40 final size:39
Alignment explanation
Indices: 6572175--6572270 Score: 115
Period size: 40 Copynumber: 2.4 Consensus size: 39
6572165 GATGTTCCCT
* *
6572175 GGTATCGATATCCTCCACATAGGTATCGATACCTCCATAT
1 GGTATCGATA-CCTCCATATAGGTATCGATACCTCCATAA
* *
6572215 GGTATCGATACCTCCATAT-GGTATCGATACTGTTCATACA
1 GGTATCGATACCTCCATATAGGTATCGATAC-CTCCATA-A
6572255 GGTATCGATACC-CCAT
1 GGTATCGATACCTCCAT
6572271 GCATCACTTC
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
38 11 0.22
39 17 0.34
40 22 0.44
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (39 bp):
GGTATCGATACCTCCATATAGGTATCGATACCTCCATAA
Found at i:6578663 original size:14 final size:14
Alignment explanation
Indices: 6578638--6578688 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
6578628 TTTATGTTCG
*
6578638 TTCATTTAATTTATT
1 TTCATTT-ATTTATA
6578653 TTCATTTATTTATA
1 TTCATTTATTTATA
*
6578667 TTCTTTTATTTATA
1 TTCATTTATTTATA
*
6578681 TTCTTTTA
1 TTCATTTA
6578689 AGAATCTTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
14 27 0.79
15 7 0.21
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.69
Consensus pattern (14 bp):
TTCATTTATTTATA
Found at i:6578741 original size:21 final size:21
Alignment explanation
Indices: 6578715--6578766 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
6578705 TTAATAAAAG
6578715 TTACATTTTATATTCGTGCGT
1 TTACATTTTATATTCGTGCGT
* * *
6578736 TTACA-TTTATTTTTGTTCGT
1 TTACATTTTATATTCGTGCGT
6578756 TTATCATTTTA
1 TTA-CATTTTA
6578767 ACGAACATAC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 15 0.58
21 7 0.27
22 4 0.15
ACGTcount: A:0.19, C:0.12, G:0.10, T:0.60
Consensus pattern (21 bp):
TTACATTTTATATTCGTGCGT
Found at i:6579966 original size:16 final size:17
Alignment explanation
Indices: 6579902--6579970 Score: 63
Period size: 16 Copynumber: 4.2 Consensus size: 17
6579892 CGAAAACAAT
6579902 CCGAACCGAAA-TTAAC
1 CCGAACCGAAATTTAAC
* * **
6579918 CCAAATCGAAA-GAAAC
1 CCGAACCGAAATTTAAC
*
6579934 CCGAACCGAATTTTAAC
1 CCGAACCGAAATTTAAC
*
6579951 CTGAACC-AAATTTAAC
1 CCGAACCGAAATTTAAC
6579967 CCGA
1 CCGA
6579971 CCTGAAAGCA
Statistics
Matches: 40, Mismatches: 12, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
16 31 0.77
17 9 0.22
ACGTcount: A:0.43, C:0.29, G:0.12, T:0.16
Consensus pattern (17 bp):
CCGAACCGAAATTTAAC
Found at i:6580882 original size:24 final size:24
Alignment explanation
Indices: 6580828--6580882 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 24
6580818 CCACAACTCG
** *
6580828 TATAAATTGCACCGAAGTACTGCG
1 TATAAATTGCACCGAAGTACCACA
* * *
6580852 TAGAAATTGCACTGAAGTGCCACA
1 TATAAATTGCACCGAAGTACCACA
6580876 TATAAAT
1 TATAAAT
6580883 GTCCAGAAAA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.25
Consensus pattern (24 bp):
TATAAATTGCACCGAAGTACCACA
Found at i:6580919 original size:23 final size:23
Alignment explanation
Indices: 6580893--6580949 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
6580883 GTCCAGAAAA
**
6580893 ACCACATATTATTGTCCCGAAGG
1 ACCACATAGAATTGTCCCGAAGG
* *
6580916 ACCACGTAGAATTGTCCTGAAGG
1 ACCACATAGAATTGTCCCGAAGG
* *
6580939 ATCACGTAGAA
1 ACCACATAGAA
6580950 CCCTCGACTC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (23 bp):
ACCACATAGAATTGTCCCGAAGG
Found at i:6581088 original size:44 final size:44
Alignment explanation
Indices: 6581039--6581125 Score: 113
Period size: 44 Copynumber: 2.0 Consensus size: 44
6581029 ATTTCATATA
* *
6581039 TCACAT-AAACAAGTAATCACGTAGGTCATGTCACATAGCTTATG
1 TCACATGAAA-AAGTAATCACGTAGATCATATCACATAGCTTATG
** *
6581083 TCACATGTTAATGTAATCACGTAGATCATATCACATAGCTTAT
1 TCACATGAAAAAGTAATCACGTAGATCATATCACATAGCTTAT
6581126 ATCTTGTTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
44 36 0.97
45 1 0.03
ACGTcount: A:0.36, C:0.20, G:0.14, T:0.31
Consensus pattern (44 bp):
TCACATGAAAAAGTAATCACGTAGATCATATCACATAGCTTATG
Found at i:6584498 original size:32 final size:34
Alignment explanation
Indices: 6584438--6584533 Score: 99
Period size: 32 Copynumber: 2.8 Consensus size: 34
6584428 TAATATAATA
*
6584438 TAAATTATATAATATATATATTTCAAAAATA-TTTTT
1 TAAATTATAT-AT-TATATATTTCAAAAA-AGTTTTC
6584474 TAAATTATATATTATAT-TTT-AAAAAAGTTTTC
1 TAAATTATATATTATATATTTCAAAAAAGTTTTC
* *
6584506 AAAACTATATATTATATAGTTTTCAAAA
1 TAAATTATATATTATATA--TTTCAAAA
6584534 TGTTTTAAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
31 1 0.02
32 24 0.46
33 3 0.06
34 5 0.10
35 5 0.10
36 14 0.27
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (34 bp):
TAAATTATATATTATATATTTCAAAAAAGTTTTC
Found at i:6584552 original size:35 final size:36
Alignment explanation
Indices: 6584477--6584851 Score: 133
Period size: 37 Copynumber: 10.0 Consensus size: 36
6584467 TATTTTTTAA
*
6584477 ATTATA-TATTATATTTTAAAAAAGTTTTCAAAACT
1 ATTATATTATTATATTTTAAAAAAGTTTTAAAAACT
* *
6584512 A-TATATTA-TATAGTTTTCAAAATGTTTTAAAAAC-
1 ATTATATTATTATA-TTTTAAAAAAGTTTTAAAAACT
*
6584546 ATTATATAAAATATTATATAAGTTTTCAAAAAATGTTTTTAAAACT
1 ATTATAT----TA-T-TAT-A-TTTT-AAAAAA-GTTTTAAAAACT
* *
6584592 A-TATATTA-TATAATTTTTCCAAAAATGTTTTTAAAACT
1 ATTATATTATTAT-A-TTTT--AAAAAAGTTTTAAAAACT
* *
6584630 A-TATGTTA-TATAATTTTTCAAAAATA-TTTTTAAAACT
1 ATTATATTATTAT-A-TTTT-AAAAA-AGTTTTAAAAACT
6584667 A-TATATTA-TATAATTTTTCAAAAATA-TTTTAAAAAACT
1 ATTATATTATTAT-A-TTTT-AAAAA-AGTTTT-AAAAACT
* *
6584705 ATGTACTA-TA-TA-AGTTTTCAAAATGTTTTAAAAACT
1 AT-TA-TATTATTATA-TTTTAAAAAAGTTTTAAAAACT
* *
6584741 A-TATATTA-TATAAGTTTTCAAAATGTTTTTAAAAACT
1 ATTATATTATTAT-A-TTTTAAAAAAG-TTTTAAAAACT
* * * *
6584778 A-TATAATATATATACATTTTCAAAATGTTTTCAAAACT
1 ATTAT-AT-TAT-TATATTTTAAAAAAGTTTTAAAAACT
*
6584816 A-TATATTACATATATTTTAAAAATA-TTTTCAAAAAC
1 ATTATATTA-TTATATTTTAAAAA-AGTTTT-AAAAAC
6584852 CATAAAATAT
Statistics
Matches: 286, Mismatches: 22, Indels: 62
0.77 0.06 0.17
Matches are distributed among these distances:
33 2 0.01
34 15 0.05
35 26 0.09
36 38 0.13
37 76 0.27
38 66 0.23
39 21 0.07
40 7 0.02
41 6 0.02
42 3 0.01
43 6 0.02
44 4 0.01
45 15 0.05
46 1 0.00
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.45
Consensus pattern (36 bp):
ATTATATTATTATATTTTAAAAAAGTTTTAAAAACT
Found at i:6584552 original size:37 final size:36
Alignment explanation
Indices: 6584490--6584903 Score: 375
Period size: 38 Copynumber: 10.9 Consensus size: 36
6584480 ATATATTATA
* * *
6584490 TTTTAAAAAAGTTTTCAAAACTATATATTATAT-AG
1 TTTTCAAAATGTTTTAAAAACTATATATTATATAAG
6584525 TTTTCAAAATGTTTTAAAAACATTATATAAAATATTATATAAG
1 TTTTCAAAATGTTTTAAAAAC----TAT---ATATTATATAAG
* *
6584568 TTTTCAAAAAATGTTTTTAAAACTATATATTATATAAT
1 TTTTC--AAAATGTTTTAAAAACTATATATTATATAAG
* * *
6584606 TTTTCCAAAAATGTTTTTAAAACTATATGTTATATAAT
1 TTTT-C-AAAATGTTTTAAAAACTATATATTATATAAG
* * *
6584644 TTTTCAAAAATATTTTTAAAACTATATATTATATAAT
1 TTTTC-AAAATGTTTTAAAAACTATATATTATATAAG
* * *
6584681 TTTTCAAAAATATTTTAAAAAACTATGTACTATATAAG
1 TTTTC-AAAATGTTTT-AAAAACTATATATTATATAAG
6584719 TTTTCAAAATGTTTTAAAAACTATATATTATATAAG
1 TTTTCAAAATGTTTTAAAAACTATATATTATATAAG
6584755 TTTTCAAAATGTTTTTAAAAACTATATAATATATATACA-
1 TTTTCAAAATG-TTTTAAAAACTATAT-AT-TATATA-AG
* *
6584794 TTTTCAAAATGTTTTCAAAACTATATATTACATATA-
1 TTTTCAAAATGTTTTAAAAACTATATATTATATA-AG
* * * * * *
6584830 TTTTAAAAATATTTTCAAAAACCATAAAATATATAAA
1 TTTTCAAAATGTTTT-AAAAACTATATATTATATAAG
* *
6584867 TTTTCAAAAATCGTCTTCTGAAAATTATATATTATAT
1 TTTTC-AAAAT-GT-TT-TAAAAACTATATATTATAT
6584904 TTTTTCAAAA
Statistics
Matches: 325, Mismatches: 32, Indels: 39
0.82 0.08 0.10
Matches are distributed among these distances:
35 18 0.06
36 50 0.15
37 91 0.28
38 93 0.29
39 22 0.07
40 16 0.05
41 4 0.01
42 9 0.03
43 7 0.02
45 15 0.05
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.44
Consensus pattern (36 bp):
TTTTCAAAATGTTTTAAAAACTATATATTATATAAG
Found at i:6584585 original size:111 final size:111
Alignment explanation
Indices: 6584443--6584941 Score: 415
Period size: 111 Copynumber: 4.5 Consensus size: 111
6584433 TAATATAAAT
* *
6584443 TATATAATA-TATAT-A-TTTCAAAAATATTTTTTAAATTATATA-T-TAT-A-TTTTAAAAAAG
1 TATATAATATTATATAATTTTCAAAAATATTTTTAAAACTATATACTATATAAGTTTTAAAAAAG
6584501 TTTTCAAAACTATATATTATAT-AGTTTTCAAAATGTTTTAAAAAC
66 TTTTCAAAACTATATATTATATAAGTTTTCAAAATGTTTTAAAAAC
* * *
6584546 ATTATATAAAATATTATATAAGTTTTCAAAAAATGTTTTTAAAACTATATATTATATAATTTTTC
1 --TATAT--AATATTATATAA-TTTTC-AAAAATATTTTTAAAACTATATACTATATAAGTTTT-
* * * * * *
6584611 CAAAAATGTTTTTAAAACTATATGTTATATAATTTTTCAAAAATATTTTTAAAAC
59 -AAAAAAGTTTTCAAAACTATATATTATATAAGTTTTC-AAAATGTTTTAAAAAC
* * *
6584666 --TAT-ATATTATATAATTTTTCAAAAATATTTTAAAAAACTATGTACTATATAAGTTTTCAAAA
1 TATATAATATTATATAA-TTTTCAAAAATATTTT-TAAAACTATATACTATATAAGTTTTAAAAA
* *
6584728 TGTTTTAAAAACTATATATTATATAAGTTTTCAAAATGTTTTTAAAAAC
64 AGTTTTCAAAACTATATATTATATAAGTTTTCAAAATG-TTTTAAAAAC
* * * *
6584777 TATATAATA-TATATACATTTTC-AAAATGTTTTCAAAACTATATATTACATATA-TTTTAAAAA
1 TATATAATATTATATA-ATTTTCAAAAATATTTTTAAAACTATATACTATATA-AGTTTTAAAAA
* * * * *
6584839 TA-TTTTCAAAAACCATAAAATATATAAATTTTCAAAAATCGTCTTCTGAAAA-
64 -AGTTTTC-AAAACTATATATTATATAAGTTTTC-AAAAT-GT-TT-TAAAAAC
* * *
6584891 T-TAT-ATATTATAT-TTTTTCAAAAACATTTTCACAAACTATATTACTATATA
1 TATATAATATTATATAATTTTCAAAAATATTTTTA-AAACTATA-TACTATATA
6584942 CATATATATA
Statistics
Matches: 323, Mismatches: 39, Indels: 55
0.77 0.09 0.13
Matches are distributed among these distances:
105 5 0.02
107 4 0.01
108 5 0.02
109 1 0.00
110 5 0.02
111 78 0.24
112 74 0.23
113 74 0.23
114 18 0.06
115 6 0.02
116 7 0.02
118 26 0.08
119 6 0.02
120 14 0.04
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.44
Consensus pattern (111 bp):
TATATAATATTATATAATTTTCAAAAATATTTTTAAAACTATATACTATATAAGTTTTAAAAAAG
TTTTCAAAACTATATATTATATAAGTTTTCAAAATGTTTTAAAAAC
Found at i:6584664 original size:75 final size:73
Alignment explanation
Indices: 6584556--6584941 Score: 370
Period size: 75 Copynumber: 5.1 Consensus size: 73
6584546 ATTATATAAA
6584556 ATATTATATAAGTTTTCAAAAAATGTTTTTAAAACTATATATTATATAATTTTTCCAAAAATGTT
1 ATATTATATAAGTTTTC--AAAATGTTTTTAAAACTATATATTATATAATTTTT-CAAAAATGTT
6584621 TTTAAAACTAT
63 TTTAAAACTAT
* * * *
6584632 ATGTTATATAATTTTTCAAAAATATTTTTAAAACTATATATTATATAATTTTTCAAAAATATTTT
1 ATATTATATAAGTTTTC-AAAATGTTTTTAAAACTATATATTATATAATTTTTCAAAAATGTTTT
*
6584697 AAAAAACTAT
65 -TAAAACTAT
* * * *
6584707 GTACTATATAAGTTTTCAAAATGTTTTAAAAACTATATATTATATAAGTTTTC-AAAATGTTTTT
1 ATATTATATAAGTTTTCAAAATGTTTTTAAAACTATATATTATATAATTTTTCAAAAATGTTTTT
6584771 AAAAACTAT
66 -AAAACTAT
* * *
6584780 ATAATATATATACA-TTTTCAAAATGTTTTCAAAACTATATATTACAT-ATATTTT-AAAAATAT
1 AT-AT-TATATA-AGTTTTCAAAATGTTTTTAAAACTATATATTATATAAT-TTTTCAAAAATGT
* *
6584842 TTTCAAAAACCAT
62 TTT-TAAAACTAT
* * * * * **
6584855 AAAATATATAAATTTTCAAAAATCGTCTTCTGAAAATTATATATTATAT--TTTTTCAAAAACAT
1 ATATTATATAAGTTTTC-AAAAT-GT-TT-TTAAAACTATATATTATATAATTTTTCAAAAATGT
*
6584918 TTTCACAAACTAT
62 TTTTA-AAACTAT
*
6584931 ATTACTATATA
1 A-TATTATATA
6584942 CATATATATA
Statistics
Matches: 262, Mismatches: 32, Indels: 31
0.81 0.10 0.10
Matches are distributed among these distances:
72 1 0.00
73 29 0.11
74 52 0.20
75 121 0.46
76 36 0.14
77 23 0.09
ACGTcount: A:0.45, C:0.08, G:0.03, T:0.44
Consensus pattern (73 bp):
ATATTATATAAGTTTTCAAAATGTTTTTAAAACTATATATTATATAATTTTTCAAAAATGTTTTT
AAAACTAT
Found at i:6585993 original size:247 final size:245
Alignment explanation
Indices: 6585624--6589357 Score: 3503
Period size: 247 Copynumber: 15.2 Consensus size: 245
6585614 GATAGCCCTA
* * * * *
6585624 CTGCAAATGATGTGTCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTCATAAATAACCC
1 CTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTGGTGACAGATAACCC
* * * *
6585689 TTCTAGCCTTGAGTTATGCTGTAAAAGATGTGCCCTCAAAGCTGAGTGTAATCGAACTCGAAGGT
65 TTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGTCTAATCGAACTCGAAGGT
* * * * * * *** * *
6585754 CTTTGGTCATAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGACACGCCCTCGAAGTTGAG
130 CTTTGG--A-AGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCCTTGAAGCTGAG
* * * *
6585819 TGTAATCGAACTCGAGGGTCTTTGGT-AGATAGCCCTTCTCGACTTAAGTTATG
192 CGTAGTCGAACTCGAAGGTCTTTGGTGAGATAACCCTTCTCGACTTAAGTTATG
*
6585872 CTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTGGTGACAGATAACCTT
1 CTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTGGTGACAGATAACCCT
*
6585937 TCTAGCCTTGAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGTCTAGTCGAACTCGAAGGTC
66 TCTAGCCTTGAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGTCTAATCGAACTCGAAGGTC
* * * * * ** * *
6586002 CTTAGCATATAGCCCTTATCGACTTAAGCTATTATGCAAATGATGTG-CCTTGAAGCAGAGTGTA
131 TTTGGAAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCCTTGAAGCTGAGCGTA
6586066 GTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATG
196 GTCGAACTCGAAGGTCTTTGG-T-G-AGATAACCCTTCTCGACTTAAGTTATG
* * * * *
6586119 TTGTAAATGATATGCCTTGGAGCTGAGTGTAGTCGAACTCGAAGGTTTTGGTGATAGATAACCCT
1 CTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTGGTGACAGATAACCCT
* * ** * * *
6586184 TCTAGCCTCGAGTTATGTTGTAAATGATATATCCTCGAAGCTAAGTGTAATCGAACTCGAGGGTC
66 TCTAGCCTTGAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGTCTAATCGAACTCGAAGGTC
* * ** * * *
6586249 TTTGGAAGATAACCCTTTTTAACTTAAGCTATACTACAAATGACGTG-CCTT-AGAGCTGAGCGT
131 TTTGGAAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCCTTGA-AGCTGAGCGT
**
6586312 AGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACTATTCTCGACTTAAGTTATG
195 AGTCGAACTCGAAGGTCTTTGG-T-G-AGATAACCCTTCTCGACTTAAGTTATG
* * * *
6586366 CTGCAAATGATATGCCTTAGAGTTGAGCGTAGTCAAACTCGAAGGTCTTAGTGACAGATAACCCT
1 CTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTGGTGACAGATAACCCT
* * * *
6586431 TCTAGCCTTGAGTTATGTTGTAAATTATGTGCCCTCGAAGCTGAGTGTAATCAAACTCGAGGGTC
66 TCTAGCCTTGAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGTCTAATCGAACTCGAAGGTC
* * * * *
6586496 TTTGGAAGATAGCCCTTCTTGACTTAAGCTATGTTACAAATGATGTG-CCTTGGAGCTGAGAGTA
131 TTTGGAAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCCTTGAAGCTGAGCGTA
* * * *
6586560 TTCAAAATCGAAGGTCTTTGGTTGGCATATAACCCTTCTCGACTTAAGTTATG
196 GTCGAACTCGAAGGTCTTTGG-T-G-AGATAACCCTTCTCGACTTAAGTTATG
* * * * *
6586613 CTGCAAATGATATGCCTTGGAGATGAGCATAGTCGAACTCAAAGGTCTTCGTAACAGATAACCCT
1 CTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTGGTGACAGATAACCCT
* *
6586678 TCTAGCCTTGAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTC
66 TCTAGCCTTGAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGTCTAATCGAACTCGAAGGTC
* * * *
6586743 TTTGGAAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGACGT-TCCTTGGAGCTGAGCATA
131 TTTGGAAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCCTTGAAGCTGAGCGTA
* ** * *
6586807 GTCAAACT--TTGG---TTGG-CAGATAACCCTTATCGACTTAAGTTATG
196 GTCGAACTCGAAGGTCTTTGGTGAGATAACCCTTCTCGACTTAAGTTATG
* * *
6586851 CTGCAAATGATATGCCTTGGAGTTGAGCGTAGTCGAACTCAAAGGTCTTGGTGGCAGATAACCCT
1 CTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTGGTGACAGATAACCCT
* * * * * * * * *
6586916 TCTAGCCCTGAGCTATGCTGCAAATGATATG-CCTTGGAGCTGAG-CGTAGTTGAACTCGAAGGT
66 TCTAGCCTTGAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGTC-TAATCGAACTCGAAGGT
* * * * * * * * ** * *
6586979 CTTGGTGACATATAACCCTTCTAGCCTTGAGTTATACTATAAATGATGTGCCCTCGAAGCTGAGT
130 CTTTG-GA-AGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCCTTGAAGCTGAGC
* * * * * **
6587044 GTAATCGAACTCGAGGGTCTTTAG-AAGATAGCCCTTCTCGACTTAAGCAATG
193 GTAGTCGAACTCGAAGGTCTTTGGTGAGATAACCCTTCTCGACTTAAGTTATG
* * * *
6587096 TTGCAAATGAT-TACCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTGGTTGGCAGATAACC
1 CTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTGG-TGACAGATAACC
* * * * * ** * * *
6587160 CTTCTCGACTTAAGATATGCTACAAAT-ATTGGTGCCTTTG-AGCTGAGTGC-AATCGAACTCAA
64 CTTCTAGCCTTGAGTTATGTTGTAAATGA-T-GTGCCCTCGAAGCTGAGT-CTAATCGAACTCGA
* * * *
6587222 AGGTCTTTGGCACATAGCCCTTTTCGACTTAAGCTATGCTGTAAATGATGTG-CCTT-AGAGCTG
126 AGGTCTTTGGAAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCCTTGA-AGCTG
* * * *
6587285 AGCGTAGTCGAACTCGAAGGTCTTTGATGACAGATAACCCTTCTAGCCTTGAGTTATG
190 AGCGTAGTCGAACTCGAAGGTCTTTGGTG--AGATAACCCTTCTCGACTTAAGTTATG
* * *** * * * * * *
6587343 CTGTAAATGATGCA-CCCTCAAAGCTGAGTGTAATCAAACTCGAGGGTCTT--TGGCAGATAGCC
1 CTGCAAATGAT--ATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTGGTGACAGATAACC
* * * * * * * * *
6587405 CTTTTCA-ACTTAAGCTATGCTGCAAATGATGTGCCTTGGAA-CTGAG-CGTAGTCGAACTCGAA
64 CTTCT-AGCCTTGAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGTC-TAATCGAACTCGAA
* * * * * * *** * *
6587467 GGTCTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGACACGCCCTCGAAGTT
127 GGTCTTTGG--A-AGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCCTTGAAGCT
* * * *
6587532 GAGTGTAATCGAACTCGAGGGTCTTTGGT-AGATAGCCCTTCTCGACTTAAGTTATG
189 GAGCGTAGTCGAACTCGAAGGTCTTTGGTGAGATAACCCTTCTCGACTTAAGTTATG
* * * *
6587588 CTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCAAACTCAAAAGTCTTGGTGACAGATAACCTT
1 CTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTGGTGACAGATAACCCT
* * **
6587653 TCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTTGAAGCTGAGTCTAGCCGAACTCGAAGGTC
66 TCTAGCCTTGAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGTCTAATCGAACTCGAAGGTC
* * * * * ** *
6587718 CTTAGCATATAGCCCTTATCGACTTAAGCTATTATGCAAATGATGTG-CCTTGAAGCTGAGTGTA
131 TTTGGAAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCCTTGAAGCTGAGCGTA
6587782 GTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATG
196 GTCGAACTCGAAGGTCTTTGG-T-G-AGATAACCCTTCTCGACTTAAGTTATG
* * * * * *
6587835 TTACAAATGATATGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTTTTGGTGATAGATAACCCG
1 CTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTGGTGACAGATAACCCT
* * * * * *
6587900 TCTAGCCTCGAGTTATGTTGTAAATGATATGTCCTCGAAGCTAAGTGTAATCGAACTCGAGGGTC
66 TCTAGCCTTGAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGTCTAATCGAACTCGAAGGTC
* * * * * * *
6587965 TTTGGAAGATAACCCTTTTTGACTTAAGCTATACTGCAAATGACGTG-CCTTGGAGCTGAGCGCA
131 TTTGGAAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCCTTGAAGCTGAGCGTA
*
6588029 GTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCATTCTCGACTTAAGTTATG
196 GTCGAACTCGAAGGTCTTTGG-T-G-AGATAACCCTTCTCGACTTAAGTTATG
** * * * *
6588082 CTGCAAATGATATGCCTTATAGTTGAGCGTTGTCAAACTCGAAGGTCTTAGTGACAGATAACCCT
1 CTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTGGTGACAGATAACCCT
* * * *
6588147 TCTAGCCATGAGTTATATTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTC
66 TCTAGCCTTGAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGTCTAATCGAACTCGAAGGTC
* * * * *
6588212 TTTGGAAGATAGCCCTTCTTGACTTAAGTTATGTTGCAAATGATGTG-CCTTGGAGCTGAGAGTA
131 TTTGGAAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCCTTGAAGCTGAGCGTA
* * * *
6588276 TTCAAAATCGAAGGTCTTTGGTTGGCATATAACCCTTCTCGACTTAAGTTATG
196 GTCGAACTCGAAGGTCTTTGG-T-G-AGATAACCCTTCTCGACTTAAGTTATG
* * * *
6588329 CTACAAATGATATGCCTTGGAGCTGAGCATAGTCGAACTCGAAGGTCTTCGTAACAGATAACCCT
1 CTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTGGTGACAGATAACCCT
* *
6588394 TCTAGCCTTGAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTC
66 TCTAGCCTTGAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGTCTAATCGAACTCGAAGGTC
* *
6588459 TTTGGAAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGACGTG-CCTTGGAGCTGAGCGTA
131 TTTGGAAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCCTTGAAGCTGAGCGTA
* ** * * *
6588523 GTCAAACT--TTGG---TTGG-CAGATGACCCTTCTAGACTTAAGTTATG
196 GTCGAACTCGAAGGTCTTTGGTGAGATAACCCTTCTCGACTTAAGTTATG
* *
6588567 CTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTGGTGGCAGATAACCCT
1 CTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTGGTGACAGATAACCCT
* * * * * * * * *
6588632 TCTAGCCCTGAGCTATGCTGCAAATGATATG-CCTTGGAGCTGAG-CGTAGTTGAACTCGAAGGT
66 TCTAGCCTTGAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGTC-TAATCGAACTCGAAGGT
* * * * * * * * * *
6588695 CTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATACTGTAAATGATGTGCCCTCGAAGCTGAGT
130 CTTTG-GA-AGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCCTTGAAGCTGAGC
* * * **
6588760 GTAATCGAACTC-AAGGGTCTTTGG-AAGATAGCCCTTCTCGACTTAAGCAATG
193 GTAGTCGAACTCGAA-GGTCTTTGGTGAGATAACCCTTCTCGACTTAAGTTATG
* * *
6588812 TTGCAAATGAT-TACCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACC
1 CTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTGG-TGACAGATAACC
* * * * ** * * * *
6588876 CTTCTCA-ACTTAAGATATGCTACAAAT-ATTGGTGCCTTTG-AGCTGAGTGC-AATCAAACTCA
64 CTTCT-AGCCTTGAGTTATGTTGTAAATGA-T-GTGCCCTCGAAGCTGAGT-CTAATCGAACTCG
* * * * *
6588937 AAGGTCTTTGGCACATAGCCCTTTTCGACTTAAGCTATGTTGTAAATGATGTG-CCTT-AGAGCT
125 AAGGTCTTTGGAAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCCTTGA-AGCT
* * * *
6589000 GAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGATTTATG
189 GAGCGTAGTCGAACTCGAAGGTCTTTGGTG--AGATAACCCTTCTCGACTTAAGTTATG
* * *** * * * * * *
6589059 CTGTAAATGATGCA-CCCTCAAAGCTGAGTGTAATCAAACTCGAGGGTCTT--TGGCAGATAGCC
1 CTGCAAATGAT--ATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTGGTGACAGATAACC
* * * * * * * *
6589121 CTTCTCGTCTTAAGCTATGTTGCAAATGATGTGCCTTGGAA-CTGAG-CGTAGTCGAACTCGAAG
64 CTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGTC-TAATCGAACTCGAAG
* * * ** * * *
6589184 GTCTTTGGTTGGTAGATAACCCTTTTTTTACTTAAGTTATACTGCAAATGATATG-CCTT-AGAG
128 GTC--T--TTGGAAGATAGCCC-TTCTCGACTTAAGCTATGCTGCAAATGATGTGCCCTTGA-AG
* * * * * * *
6589247 CTAAACGTAGTAGAACTCGGAGGTCTTTTGGTGGCAGATATCCCTTCTTGACTTAAGCTATG
187 CTGAGCGTAGTCGAACTCGAAGGTC-TTTGGT-G-AGATAACCCTTCTCGACTTAAGTTATG
* * *
6589309 CTGCAAATGATATGCCTTTGAGCTGAGCGTAGTCTAACTTGAAGGTCTT
1 CTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTT
6589358 TTGTTGGAAA
Statistics
Matches: 2911, Mismatches: 487, Indels: 175
0.81 0.14 0.05
Matches are distributed among these distances:
237 58 0.02
238 224 0.08
239 63 0.02
240 39 0.01
242 14 0.00
243 70 0.02
244 269 0.09
245 255 0.09
246 114 0.04
247 1528 0.52
248 101 0.03
249 137 0.05
250 38 0.01
251 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (245 bp):
CTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTGGTGACAGATAACCCT
TCTAGCCTTGAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGTCTAATCGAACTCGAAGGTC
TTTGGAAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCCTTGAAGCTGAGCGTA
GTCGAACTCGAAGGTCTTTGGTGAGATAACCCTTCTCGACTTAAGTTATG
Found at i:6588945 original size:164 final size:163
Alignment explanation
Indices: 6585624--6589357 Score: 2721
Period size: 164 Copynumber: 22.8 Consensus size: 163
6585614 GATAGCCCTA
* * *
6585624 CTGCAAATGATGTGTCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTCATAAATAACCC
1 CTGCAAATGATGTGCCTTGGAGCTGAGTGTAGTCGAACTCGAAGGTCTTTGG--A-AGATAACCC
* * * * * *** * *
6585689 TTCTAGCCTTGAGTTATGCTGTAAAAGATGTGCCCTCAAAGCTGAGTGTAATCGAACTCGAAGGT
63 TTCTCGACTTAAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGT
*** * *
6585754 CTTTGG-TCATAGATAACCCTTCT-AGCCTTGAGTTATG
127 C-TTGGTTGGCAGATAACCCTTCTCA-ACTTAAGTTATG
* *** * * * * * * *
6585791 CTGTAAATGACACGCCCTCGAAGTTGAGTGTAATCGAACTCGAGGGTCTTTGGTAGATAGCCCTT
1 CTGCAAATGATGTG-CCTTGGAGCTGAGTGTAGTCGAACTCGAAGGTCTTTGGAAGATAACCCTT
*
6585856 CTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTT
65 CTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTT
* * * *
6585921 GG-TGACAGATAACCTTTCT-AGCCTTGAGTTATG
130 GGTTGGCAGATAACCCTTCTCA-ACTTAAGTTATG
* * * * * * * * * *
6585954 TTGTAAATGATGTGCCCTCGAAGCTGAGTCTAGTCGAACTCGAAGGTCCTTAGCATATAGCCCTT
1 CTGCAAATGATGTG-CCTTGGAGCTGAGTGTAGTCGAACTCGAAGGTCTTTGGAAGATAACCCTT
* * ** * * *
6586019 ATCGACTTAAGCTATTATGCAAATGATGTGCCTTGAAGCAGAGTGTAGTCGAACTCGAAGGTCTT
65 CTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-T
*
6586084 TGGTTGGCAGATAACCCTTCTCGACTTAAGTTATG
129 TGGTTGGCAGATAACCCTTCTCAACTTAAGTTATG
* * *
6586119 TTGTAAATGATATGCCTTGGAGCTGAGTGTAGTCGAACTCGAAGGT-TTTGGTGATAGATAACCC
1 CTGCAAATGATGTGCCTTGGAGCTGAGTGTAGTCGAACTCGAAGGTCTTT-G-GA-AGATAACCC
* * ** * * * * * * * * * *
6586183 TTCTAGCCTCGAGTTATGTTGTAAATGATATATCCTCGAAGCTAAGTGTAATCGAACTCGAGGGT
63 TTCTCGACTTAAGTTATGCTGCAAATGATGT-GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGT
* * * * *
6586248 C-T--TTGGAAGATAACCCTTTTTAACTTAAGCTATA
127 CTTGGTTGGCAGATAACCCTTCTCAACTTAAGTTATG
* * * * * *
6586282 CTACAAATGACGTGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACT
1 CTGCAAATGATGTGCCTTGGAGCTGAGTGTAGTCGAACTCGAAGGTC--T--TTGGAAGATAACC
* * * * *
6586347 ATTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTAGAGTTGAGCGTAGTCAAACTCGAAGGT
62 CTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGT
* * * *
6586412 CTTAG-TGACAGATAACCCTTCT-AGCCTTGAGTTATG
127 CTTGGTTGGCAGATAACCCTTCTCA-ACTTAAGTTATG
* * * * * * * * *
6586448 TTGTAAATTATGTGCCCTCGAAGCTGAGTGTAATCAAACTCGAGGGTCTTTGGAAGATAGCCCTT
1 CTGCAAATGATGTG-CCTTGGAGCTGAGTGTAGTCGAACTCGAAGGTCTTTGGAAGATAACCCTT
* * * * * * * *
6586513 CTTGACTTAAGCTATGTTACAAATGATGTGCCTTGGAGCTGAGAGTATTCAAAATCGAAGGTCTT
65 CTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-T
* *
6586578 TGGTTGGCATATAACCCTTCTCGACTTAAGTTATG
129 TGGTTGGCAGATAACCCTTCTCAACTTAAGTTATG
* * ** * * *
6586613 CTGCAAATGATATGCCTTGGAGATGAGCATAGTCGAACTCAAAGGTCTTCGTAACAGATAACCCT
1 CTGCAAATGATGTGCCTTGGAGCTGAGTGTAGTCGAACTCGAAGGTCTTTG-GA-AGATAACCCT
* * * * * * * * * *
6586678 TCTAGCCTTGAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTC
64 TCTCGACTTAAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC
* * * *
6586743 -T--TTGGAAGATAGCCCTTCTCGACTTAAGCTATG
128 TTGGTTGGCAGATAACCCTTCTCAACTTAAGTTATG
* * ** * ** * *
6586776 CTGCAAATGACGTTCCTTGGAGCTGAGCATAGTCAAACT--TTGG---TTGGCAGATAACCCTTA
1 CTGCAAATGATGTGCCTTGGAGCTGAGTGTAGTCGAACTCGAAGGTCTTTGGAAGATAACCCTTC
* * *
6586836 TCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGTTGAGCGTAGTCGAACTCAAAGGTCTTG
66 TCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTG
* * * *
6586901 G-TGGCAGATAACCCTTCT-AGCCCTGAGCTATG
131 GTTGGCAGATAACCCTTCTCA-ACTTAAGTTATG
* * * * *
6586933 CTGCAAATGATATGCCTTGGAGCTGAGCGTAGTTGAACTCGAAGGTCTTGGTGACATATAACCCT
1 CTGCAAATGATGTGCCTTGGAGCTGAGTGTAGTCGAACTCGAAGGTCTTTG-GA-AGATAACCCT
* * * * ** * * * * *
6586998 TCTAGCCTTGAGTTATACTATAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTC
64 TCTCGACTTAAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC
* * * * **
6587063 -T--TTAGAAGATAGCCCTTCTCGACTTAAGCAATG
128 TTGGTTGGCAGATAACCCTTCTCAACTTAAGTTATG
* * * * *
6587096 TTGCAAATGAT-TACCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTGGTTGGCAGATAACC
1 CTGCAAATGATGTGCCTTGGAGCTGAGTGTAGTCGAACTCGAAGGTC--T--TTGGAAGATAACC
* * * * * * *
6587160 CTTCTCGACTTAAGATATGCTACAAAT-ATTGGTGCCTTTGAGCTGAGTGCAATCGAACTCAAAG
62 CTTCTCGACTTAAGTTATGCTGCAAATGA-T-GTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAG
* * * * *
6587224 GTC-T--TTGGCACATAGCCCTTTTCGACTTAAGCTATG
125 GTCTTGGTTGGCAGATAACCCTTCTCAACTTAAGTTATG
* * *
6587260 CTGTAAATGATGTGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGATGACAGATAACCC
1 CTGCAAATGATGTGCCTTGGAGCTGAGTGTAGTCGAACTCGAAGGTCTTTG--GA-AGATAACCC
* * * * ** *** * * * *
6587325 TTCTAGCCTTGAGTTATGCTGTAAATGATGCACCCTCAAAGCTGAGTGTAATCAAACTCGAGGGT
63 TTCTCGACTTAAGTTATGCTGCAAATGATG-TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGT
* * *
6587390 C-T--TTGGCAGATAGCCCTTTTCAACTTAAGCTATG
127 CTTGGTTGGCAGATAACCCTTCTCAACTTAAGTTATG
* *
6587424 CTGCAAATGATGTGCCTTGGAACTGAGCGTAGTCGAACTCGAAGGTCTTTGGTCACAGATAACCC
1 CTGCAAATGATGTGCCTTGGAGCTGAGTGTAGTCGAACTCGAAGGTCTTTGG--A-AGATAACCC
* * * * *** * * * * * *
6587489 TTCTAGCCTTGAGTTATGCTGTAAATGACACGCCCTCGAAGTTGAGTGTAATCGAACTCGAGGGT
63 TTCTCGACTTAAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGT
* * *
6587554 C-T--TTGGTAGATAGCCCTTCTCGACTTAAGTTATG
127 CTTGGTTGGCAGATAACCCTTCTCAACTTAAGTTATG
* * * * * * *
6587588 CTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCAAACTCAAAAGTCTTGGTGACAGATAACCTT
1 CTGCAAATGATGTGCCTTGGAGCTGAGTGTAGTCGAACTCGAAGGTCTTTG-GA-AGATAACCCT
* * * * * *
6587653 TCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTTGAAGCTGAGTC-TAGCCGAACTCGAAGGT
64 TCTCGACTTAAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAG-CGTAGTCGAACTCGAAGGT
* * * * * * * *
6587717 C---CTTAGCATATAGCCCTTATCGACTTAAGCTATT
127 CTTGGTTGGCAGATAACCCTTCTCAACTTAAGTTATG
* * *
6587751 ATGCAAATGATGTGCCTTGAAGCTGAGTGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACC
1 CTGCAAATGATGTGCCTTGGAGCTGAGTGTAGTCGAACTCGAAGGTC--T--TTGGAAGATAACC
* * * *
6587816 CTTCTCGACTTAAGTTATGTTACAAATGATATGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGT
62 CTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGT
* ** * * **
6587881 TTTGG-TGATAGATAACCCGTCT-AGCCTCGAGTTATG
127 CTTGGTTGGCAGATAACCCTTCTCA-ACTTAAGTTATG
* * * * * * * *
6587917 TTGTAAATGATATGTCCTCGAAGCTAAGTGTAATCGAACTCGAGGGTCTTTGGAAGATAACCCTT
1 CTGCAAATGATGTG-CCTTGGAGCTGAGTGTAGTCGAACTCGAAGGTCTTTGGAAGATAACCCTT
* * * * * *
6587982 TTTGACTTAAGCTATACTGCAAATGACGTGCCTTGGAGCTGAGCGCAGTCGAACTCGAAGGTCTT
65 CTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-T
* *
6588047 TGGTTGGCAGATAACCATTCTCGACTTAAGTTATG
129 TGGTTGGCAGATAACCCTTCTCAACTTAAGTTATG
* ** * * * * *
6588082 CTGCAAATGATATGCCTTATAGTTGAGCGTTGTCAAACTCGAAGGTCTTAGTGACAGATAACCCT
1 CTGCAAATGATGTGCCTTGGAGCTGAGTGTAGTCGAACTCGAAGGTCTTTG-GA-AGATAACCCT
* * * * ** * * * * * *
6588147 TCTAGCCATGAGTTATATTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTC
64 TCTCGACTTAAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC
* * **
6588212 -T--TTGGAAGATAGCCCTTCTTGACTTAAGTTATG
128 TTGGTTGGCAGATAACCCTTCTCAACTTAAGTTATG
* * * * * * *
6588245 TTGCAAATGATGTGCCTTGGAGCTGAGAGTATTCAAAATCGAAGGTCTTTGGTTGGCATATAACC
1 CTGCAAATGATGTGCCTTGGAGCTGAGTGTAGTCGAACTCGAAGGTC--T--TTGGAAGATAACC
* * *
6588310 CTTCTCGACTTAAGTTATGCTACAAATGATATGCCTTGGAGCTGAGCATAGTCGAACTCGAAGGT
62 CTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGT
* ** * *
6588375 CTTCG-TAACAGATAACCCTTCT-AGCCTTGAGTTATG
127 CTTGGTTGGCAGATAACCCTTCTCA-ACTTAAGTTATG
* * * * * * *
6588411 TTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGAAGATAGCCCTT
1 CTGCAAATGATGTG-CCTTGGAGCTGAGTGTAGTCGAACTCGAAGGTCTTTGGAAGATAACCCTT
* * *
6588476 CTCGACTTAAGCTATGCTGCAAATGACGTGCCTTGGAGCTGAGCGTAGTC--A----AA-CT-TT
65 CTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTT
*
6588533 GGTTGGCAGATGACCCTTCT-AGACTTAAGTTATG
130 GGTTGGCAGATAACCCTTCTCA-ACTTAAGTTATG
* * * *
6588567 CTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTGGTGGCAGATAACCCT
1 CTGCAAATGATGTGCCTTGGAGCTGAGTGTAGTCGAACTCGAAGGTCTT--TGGAAGATAACCCT
* * * * * * *
6588632 TCTAGCCCTGAGCTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTTGAACTCGAAGGTCT
64 TCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCT
* * * *
6588697 TGG-TGACAGATAACCCTTCT-AGCCTTGAGTTATA
129 TGGTTGGCAGATAACCCTTCTCA-ACTTAAGTTATG
* * * * *
6588731 CTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTC-AAGGGTCTTTGGAAGATAGCCCT
1 CTGCAAATGATGTG-CCTTGGAGCTGAGTGTAGTCGAACTCGAA-GGTCTTTGGAAGATAACCCT
** * *
6588795 TCTCGACTTAAGCAATGTTGCAAATGAT-TACCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCT
64 TCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-
*
6588859 TTGGTTGGCAGATAACCCTTCTCAACTTAAGATATG
128 TTGGTTGGCAGATAACCCTTCTCAACTTAAGTTATG
* * * * * * * * *
6588895 CTACAAAT-ATTGGTGCCTTTGAGCTGAGTGCAATCAAACTCAAAGGTCTTTGGCACATAGCCCT
1 CTGCAAATGA-T-GTGCCTTGGAGCTGAGTGTAGTCGAACTCGAAGGTCTTTGGAAGATAACCCT
* * * * *
6588959 TTTCGACTTAAGCTATGTTGTAAATGATGTGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCT
64 TCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-
* * * *
6589024 TTGG-TGACAGATAACCCTTCT-AGCCTTGATTTATG
128 TTGGTTGGCAGATAACCCTTCTCA-ACTTAAGTTATG
* ** *** * * * * *
6589059 CTGTAAATGATGCACCCTCAAAGCTGAGTGTAATCAAACTCGAGGGTCTTTGGCAGATAGCCCTT
1 CTGCAAATGATG-TGCCTTGGAGCTGAGTGTAGTCGAACTCGAAGGTCTTTGGAAGATAACCCTT
* * * *
6589124 CTCGTCTTAAGCTATGTTGCAAATGATGTGCCTTGGAACTGAGCGTAGTCGAACTCGAAGGTCTT
65 CTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-T
* * ** *
6589189 TGGTTGGTAGATAACCCTTTTTTTACTTAAGTTATA
129 TGGTTGGCAGATAACCC-TTCTCAACTTAAGTTATG
* * * ** * * * *
6589225 CTGCAAATGATATGCCTTAGAGCTAAACGTAGTAGAACTCGGAGGTCTTTTGGTGGCAGATATCC
1 CTGCAAATGATGTGCCTTGGAGCTGAGTGTAGTCGAACTCGAAGGTC--TT--TGGAAGATAACC
* * * * * *
6589290 CTTCTTGACTTAAGCTATGCTGCAAATGATATGCCTTTGAGCTGAGCGTAGTCTAACTTGAAGGT
62 CTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGT
6589355 CTT
127 CTT
6589358 TTGTTGGAAA
Statistics
Matches: 2865, Mismatches: 591, Indels: 221
0.78 0.16 0.06
Matches are distributed among these distances:
155 58 0.02
156 73 0.03
157 115 0.04
158 2 0.00
159 3 0.00
161 6 0.00
162 68 0.02
163 738 0.26
164 877 0.31
165 426 0.15
166 216 0.08
167 179 0.06
168 35 0.01
169 69 0.02
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (163 bp):
CTGCAAATGATGTGCCTTGGAGCTGAGTGTAGTCGAACTCGAAGGTCTTTGGAAGATAACCCTTC
TCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTG
GTTGGCAGATAACCCTTCTCAACTTAAGTTATG
Found at i:6593234 original size:6 final size:6
Alignment explanation
Indices: 6593223--6593247 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
6593213 CGAAAATTAG
6593223 AAAATT AAAATT AAAATT AAAATT A
1 AAAATT AAAATT AAAATT AAAATT A
6593248 CCTGATTGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AAAATT
Found at i:6593403 original size:15 final size:14
Alignment explanation
Indices: 6593385--6593431 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 14
6593375 GAGAAAAATT
6593385 AATAAGTGAAAAAGA
1 AATAAGT-AAAAAGA
*
6593400 AATAAATAAAAAGA
1 AATAAGTAAAAAGA
6593414 AATAAGTTAAACAAGA
1 AATAAG-TAAA-AAGA
6593430 AA
1 AA
6593432 GAAAAATATG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 12 0.43
15 10 0.36
16 6 0.21
ACGTcount: A:0.70, C:0.02, G:0.13, T:0.15
Consensus pattern (14 bp):
AATAAGTAAAAAGA
Found at i:6593548 original size:17 final size:17
Alignment explanation
Indices: 6593528--6593581 Score: 53
Period size: 17 Copynumber: 3.3 Consensus size: 17
6593518 AAATAAAGAA
6593528 TAATATGAAGTAAAAAG
1 TAATATGAAGTAAAAAG
*
6593545 TAATA--AAATAAAGAA-
1 TAATATGAAGTAAA-AAG
6593560 TAATATGAAAG-AAAAAG
1 TAATATG-AAGTAAAAAG
6593577 TAATA
1 TAATA
6593582 ATAATAATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
15 11 0.37
16 4 0.13
17 13 0.43
18 2 0.07
ACGTcount: A:0.65, C:0.00, G:0.13, T:0.22
Consensus pattern (17 bp):
TAATATGAAGTAAAAAG
Found at i:6593552 original size:32 final size:32
Alignment explanation
Indices: 6593514--6593588 Score: 125
Period size: 32 Copynumber: 2.3 Consensus size: 32
6593504 AAAGTTTAAA
6593514 AATAAAATAAAGAATAATATG-AAGTAAAAAGT
1 AATAAAATAAAGAATAATATGAAAG-AAAAAGT
6593546 AATAAAATAAAGAATAATATGAAAGAAAAAGT
1 AATAAAATAAAGAATAATATGAAAGAAAAAGT
6593578 AATAATAATAA
1 AATAA-AATAA
6593589 TAACGATAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
32 33 0.80
33 8 0.20
ACGTcount: A:0.68, C:0.00, G:0.11, T:0.21
Consensus pattern (32 bp):
AATAAAATAAAGAATAATATGAAAGAAAAAGT
Found at i:6594562 original size:26 final size:26
Alignment explanation
Indices: 6594512--6594570 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
6594502 TGATAACGGG
* *
6594512 GTTGTTCTCGTGTACTTCACACTAAT
1 GTTGTTCCCGTGTACTTCACACTAAC
***
6594538 GTTGTTCCCGTGTACTTCGTGCTAAC
1 GTTGTTCCCGTGTACTTCACACTAAC
6594564 GTTGTTC
1 GTTGTTC
6594571 ACGTAGCCGG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.14, C:0.24, G:0.20, T:0.42
Consensus pattern (26 bp):
GTTGTTCCCGTGTACTTCACACTAAC
Found at i:6594851 original size:7 final size:7
Alignment explanation
Indices: 6594830--6594871 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
6594820 AAAACAAACA
*
6594830 AATAAAT
1 AATATAT
6594837 AATAATAT
1 AAT-ATAT
6594845 AATATAT
1 AATATAT
*
6594852 ATTATAT
1 AATATAT
6594859 AATATAT
1 AATATAT
6594866 -ATATAT
1 AATATAT
6594872 TTCAAAAGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
6 6 0.19
7 19 0.61
8 6 0.19
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
AATATAT
Found at i:6594951 original size:19 final size:21
Alignment explanation
Indices: 6594911--6594967 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 21
6594901 TATTTTAAAA
*
6594911 AAGTTTTCAAAACTATATATTAT
1 AAGTTTTCAAAAATAT-TA-TAT
6594934 ATAGTTTT-AAAAATATTATAT
1 A-AGTTTTCAAAAATATTATAT
6594955 AAGTTTTCAAAAA
1 AAGTTTTCAAAAA
6594968 ATGTTTTTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
20 6 0.19
21 9 0.29
22 2 0.06
23 8 0.26
24 6 0.19
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (21 bp):
AAGTTTTCAAAAATATTATAT
Found at i:6595042 original size:36 final size:36
Alignment explanation
Indices: 6594946--6595217 Score: 258
Period size: 37 Copynumber: 7.2 Consensus size: 36
6594936 AGTTTTAAAA
*
6594946 ATATTATATAAGTTTTCAAAAAATGTTTTTAAAACTAT
1 ATATTATATAAGTTTTC--AAAATGTTTTAAAAACTAT
* *
6594984 AGATTATATAATTTTTCAAAAATGTTTTAAAAACTAT
1 ATATTATATAAGTTTTC-AAAATGTTTTAAAAACTAT
* *
6595021 ATACTATATAAGTTGTCAAAATGTTTTAAAAACTAT
1 ATATTATATAAGTTTTCAAAATGTTTTAAAAACTAT
6595057 ATATTATATAAGTTTTCAAAATGTTTTAAAAAACTAT
1 ATATTATATAAGTTTTCAAAATGTTTT-AAAAACTAT
* * * *
6595094 ATAATATATAAACATTTTCAAAATGTTTTCAAAGCTAT
1 ATATTATAT-AA-GTTTTCAAAATGTTTTAAAAACTAT
* * * *
6595132 ATATTACATATA-TTTTAAAAATATTTTCAAAAACCAT
1 ATATTATATA-AGTTTTCAAAATGTTTT-AAAAACTAT
* * * * * *
6595169 AAAATATATAAATTTTTTAAAATCGTTTTCTGAAAATTAT
1 ATATTATAT-AAGTTTTCAAAAT-G-TTT-TAAAAACTAT
6595209 ATATTATAT
1 ATATTATAT
6595218 TTTGTCAAAA
Statistics
Matches: 194, Mismatches: 30, Indels: 18
0.80 0.12 0.07
Matches are distributed among these distances:
36 57 0.29
37 63 0.32
38 42 0.22
39 15 0.08
40 16 0.08
41 1 0.01
ACGTcount: A:0.46, C:0.07, G:0.05, T:0.43
Consensus pattern (36 bp):
ATATTATATAAGTTTTCAAAATGTTTTAAAAACTAT
Found at i:6595054 original size:73 final size:74
Alignment explanation
Indices: 6594950--6595217 Score: 274
Period size: 75 Copynumber: 3.6 Consensus size: 74
6594940 TTAAAAATAT
* *
6594950 TATATAAGTTTTCAAAAAATGTTTTTAAAACTATAGATTATATAATTTTTCAAAAATGTTTT-AA
1 TATATAAGTTTTC--AAAATGTTTTAAAAACTATATATTATATAATTTTTCAAAAATGTTTTAAA
*
6595014 AAACTATATAC
64 AAACTATATAA
* *
6595025 TATATAAGTTGTCAAAATGTTTTAAAAACTATATATTATATAAGTTTTC-AAAATGTTTTAAAAA
1 TATATAAGTTTTCAAAATGTTTTAAAAACTATATATTATATAATTTTTCAAAAATGTTTTAAAAA
6595089 ACTATATAA
66 ACTATATAA
* * * * * *
6595098 TATATAAACATTTTCAAAATGTTTTCAAAGCTATATATTACAT-ATATTTT-AAAAATATTTTCA
1 TATAT-AA-GTTTTCAAAATGTTTTAAAAACTATATATTATATAAT-TTTTCAAAAATGTTTTAA
* *
6595161 AAAACCATAAAA
63 AAAACTATATAA
* * * *
6595173 TATATAAATTTTTTAAAATCGTTTTCTGAAAATTATATATTATAT
1 TATAT-AAGTTTTCAAAAT-G-TTT-TAAAAACTATATATTATAT
6595218 TTTGTCAAAA
Statistics
Matches: 164, Mismatches: 21, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
72 10 0.06
73 50 0.30
74 12 0.07
75 74 0.45
76 3 0.02
77 15 0.09
ACGTcount: A:0.46, C:0.07, G:0.05, T:0.43
Consensus pattern (74 bp):
TATATAAGTTTTCAAAATGTTTTAAAAACTATATATTATATAATTTTTCAAAAATGTTTTAAAAA
ACTATATAA
Found at i:6596238 original size:26 final size:26
Alignment explanation
Indices: 6596188--6596246 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
6596178 TGATAACGGG
* *
6596188 GTTGTTCTCGTGTACTTCACACTAAT
1 GTTGTTCCCGTGTACTTCACACTAAC
*
6596214 GTTGTTCCCGTGTACTTCGA-GCTAAC
1 GTTGTTCCCGTGTACTTC-ACACTAAC
6596240 GTTGTTC
1 GTTGTTC
6596247 ACGTAGCCGG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 28 0.97
27 1 0.03
ACGTcount: A:0.15, C:0.24, G:0.20, T:0.41
Consensus pattern (26 bp):
GTTGTTCCCGTGTACTTCACACTAAC
Found at i:6596536 original size:14 final size:14
Alignment explanation
Indices: 6596517--6596543 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6596507 ATAAATAATA
6596517 ATATAATATATATT
1 ATATAATATATATT
6596531 ATATAATATATAT
1 ATATAATATATAT
6596544 ATTTCAAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
ATATAATATATATT
Found at i:6596625 original size:19 final size:21
Alignment explanation
Indices: 6596585--6596641 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 21
6596575 TATTTTAAAA
*
6596585 AAGTTTTCAAAACTATATATTAT
1 AAGTTTTCAAAAATAT-TA-TAT
6596608 ATAGTTTT-AAAAATATTATAT
1 A-AGTTTTCAAAAATATTATAT
6596629 AAGTTTTCAAAAA
1 AAGTTTTCAAAAA
6596642 ATGTTTTTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
20 6 0.19
21 9 0.29
22 2 0.06
23 8 0.26
24 6 0.19
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (21 bp):
AAGTTTTCAAAAATATTATAT
Found at i:6596708 original size:75 final size:73
Alignment explanation
Indices: 6596624--6596929 Score: 287
Period size: 75 Copynumber: 4.1 Consensus size: 73
6596614 TTAAAAATAT
* * *
6596624 TATATAAGTTTTCAAAAAATGTTTTTAAAACTATAGATTATATAATTTTTCAAAAATGTTTT-AA
1 TATATAAATTTTC--AAAATGTTTTTAAAACTATATATTATAT-ATTTTTCAAAAATATTTTCAA
*
6596688 AAACTATATAC
63 AAACTATATAA
* * * * * *
6596699 TATATAAGTTGTCAAAATGTTTTAAAAACTATATATTATATAAGTTTTC-AAAATGTTTTAAAAA
1 TATATAAATTTTCAAAATGTTTTTAAAACTATATATTATAT-ATTTTTCAAAAATATTTTCAAAA
6596763 ACTATATAA
65 ACTATATAA
* * *
6596772 TATATAAACATTTTCAAAATGTTTTCAAAGCTATATATTACATATATTTT-AAAAATATTTTCAA
1 TATAT-AA-ATTTTCAAAATGTTTTTAAAACTATATATTATATAT-TTTTCAAAAATATTTTCAA
* *
6596836 AAACCATAAAA
63 AAACTATATAA
* * * *
6596847 TATATAAATTTTTTAAAATCGTTTTCTGAAAATTATATATTATAT-TTTGTCAAAAACATTTTCA
1 TATATAAA-TTTTCAAAAT-GTTTT-T-AAAACTATATATTATATATTTTTCAAAAATATTTTCA
* *
6596911 CAAACTATATTAC
62 AAAACTATA-TAA
6596924 TATATA
1 TATATA
6596930 CATATATATA
Statistics
Matches: 194, Mismatches: 26, Indels: 20
0.81 0.11 0.08
Matches are distributed among these distances:
72 10 0.05
73 51 0.26
74 14 0.07
75 78 0.40
76 20 0.10
77 21 0.11
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (73 bp):
TATATAAATTTTCAAAATGTTTTTAAAACTATATATTATATATTTTTCAAAAATATTTTCAAAAA
CTATATAA
Found at i:6596716 original size:36 final size:36
Alignment explanation
Indices: 6596620--6596891 Score: 258
Period size: 37 Copynumber: 7.2 Consensus size: 36
6596610 AGTTTTAAAA
*
6596620 ATATTATATAAGTTTTCAAAAAATGTTTTTAAAACTAT
1 ATATTATATAAGTTTTC--AAAATGTTTTAAAAACTAT
* *
6596658 AGATTATATAATTTTTCAAAAATGTTTTAAAAACTAT
1 ATATTATATAAGTTTTC-AAAATGTTTTAAAAACTAT
* *
6596695 ATACTATATAAGTTGTCAAAATGTTTTAAAAACTAT
1 ATATTATATAAGTTTTCAAAATGTTTTAAAAACTAT
6596731 ATATTATATAAGTTTTCAAAATGTTTTAAAAAACTAT
1 ATATTATATAAGTTTTCAAAATGTTTT-AAAAACTAT
* * * *
6596768 ATAATATATAAACATTTTCAAAATGTTTTCAAAGCTAT
1 ATATTATAT-AA-GTTTTCAAAATGTTTTAAAAACTAT
* * * *
6596806 ATATTACATATA-TTTTAAAAATATTTTCAAAAACCAT
1 ATATTATATA-AGTTTTCAAAATGTTTT-AAAAACTAT
* * * * * *
6596843 AAAATATATAAATTTTTTAAAATCGTTTTCTGAAAATTAT
1 ATATTATAT-AAGTTTTCAAAAT-G-TTT-TAAAAACTAT
6596883 ATATTATAT
1 ATATTATAT
6596892 TTTGTCAAAA
Statistics
Matches: 194, Mismatches: 30, Indels: 18
0.80 0.12 0.07
Matches are distributed among these distances:
36 57 0.29
37 63 0.32
38 42 0.22
39 15 0.08
40 16 0.08
41 1 0.01
ACGTcount: A:0.46, C:0.07, G:0.05, T:0.43
Consensus pattern (36 bp):
ATATTATATAAGTTTTCAAAATGTTTTAAAAACTAT
Found at i:6596936 original size:2 final size:2
Alignment explanation
Indices: 6596924--6596962 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
6596914 ACTATATTAC
*
6596924 TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6596963 GTAATAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:6597838 original size:82 final size:82
Alignment explanation
Indices: 6597507--6597887 Score: 354
Period size: 84 Copynumber: 4.6 Consensus size: 82
6597497 CAGAGAGCCC
* ** *
6597507 TGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTATAACTCGAAGGTCTTTGGTCACTGATAAC
1 TGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTGGTCACAGATAAC
*
6597572 CCTTTTAGCCTTGAGTTA
65 CCTTCTAGCCTTGAGTTA
* * * * ** *
6597590 TGCTGTAAATGATATGCCCTCGAAGTTGAGTATAATCGAACTCGAAGGTCTTTGGTCACAGATAA
1 TGCTGTAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTGGTCACAGATAA
*
6597655 CCTTTCTAGCCTTGAGTTA
64 CCCTTCTAGCCTTGAGTTA
* * ** * * * * * * *
6597674 TGTTATAAATGGCGTGCCCTCGAAGCTGAGTGTAATCAAACTCGAGGGTCTTTGG---CAGATAG
1 TGCTGTAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTGGTCACAGATAA
* * *
6597736 CCCTTCTCGACTTAAGTTA
64 CCCTTCTAGCCTTGAGTTA
** * * * *
6597755 TGCTACAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTTGAAGGTCTTGGTGAAAGATAACC
1 TGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTGGTCACAGATAACC
*
6597820 CTTCTAGCCTTGATTTA
66 CTTCTAGCCTTGAGTTA
* * * *
6597837 TGTTGTAAATGATGTGCCTTTGAGTTGAGCGTAGTCGAACTTGAAGGTCTT
1 TGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTT
6597888 TTGTTGGCAA
Statistics
Matches: 243, Mismatches: 51, Indels: 9
0.80 0.17 0.03
Matches are distributed among these distances:
79 4 0.02
80 26 0.11
81 32 0.13
82 65 0.27
83 14 0.06
84 102 0.42
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (82 bp):
TGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTGGTCACAGATAACC
CTTCTAGCCTTGAGTTA
Found at i:6597840 original size:163 final size:167
Alignment explanation
Indices: 6597544--6597847 Score: 391
Period size: 163 Copynumber: 1.8 Consensus size: 167
6597534 AGCGTAGTAT
* * * **
6597544 AACTCGAAGGTCTTTGGTCACTGATAACCCTTTTAGCCTTGAGTTATGCTGTAAATGATATGCCC
1 AACTCGAAGGTCTTTGGTCAC-GATAACCCTTCTAGACTTAAGTTATGCTACAAATGATATGCCC
* * * *
6597609 TCGAAGTTGAGTATAATCGAACTCGAAGGTCTTTGGTCACAGATAACCTTTCTAGCCTTGAGTTA
65 TCGAAGCTGAGCATAATCGAACTCGAAGGTCTTTGGTCAAAGATAACCCTTCTAGCCTTGAGTTA
6597674 TGTTATAAATGGCGTGCCCTCGAAGCTGAGTGTAATCA
130 TGTTATAAATGGCGTGCCCTCGAAGCTGAGTGTAATCA
* * *
6597712 AACTCGAGGGTCTTTGG-CA-GATAGCCCTTCTCGACTTAAGTTATGCTACAAATGATATG-CCT
1 AACTCGAAGGTCTTTGGTCACGATAACCCTTCTAGACTTAAGTTATGCTACAAATGATATGCCCT
* * * * * * *
6597774 TGGAGCTGAGCGTAGTCGAACTTGAAGGTC-TTGGTGAAAGATAACCCTTCTAGCCTTGATTTAT
66 CGAAGCTGAGCATAATCGAACTCGAAGGTCTTTGGTCAAAGATAACCCTTCTAGCCTTGAGTTAT
*
6597838 GTTGTAAATG
131 GTTATAAATG
6597848 ATGTGCCTTT
Statistics
Matches: 116, Mismatches: 20, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
163 39 0.34
164 26 0.22
165 33 0.28
167 2 0.02
168 16 0.14
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (167 bp):
AACTCGAAGGTCTTTGGTCACGATAACCCTTCTAGACTTAAGTTATGCTACAAATGATATGCCCT
CGAAGCTGAGCATAATCGAACTCGAAGGTCTTTGGTCAAAGATAACCCTTCTAGCCTTGAGTTAT
GTTATAAATGGCGTGCCCTCGAAGCTGAGTGTAATCA
Found at i:6600774 original size:15 final size:16
Alignment explanation
Indices: 6600754--6600784 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
6600744 TGCGAATGAT
6600754 GAGAAC-AAAATAAAA
1 GAGAACAAAAATAAAA
6600769 GAGAACAAAAATAAAA
1 GAGAACAAAAATAAAA
6600785 AGAGTTTGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.74, C:0.06, G:0.13, T:0.06
Consensus pattern (16 bp):
GAGAACAAAAATAAAA
Found at i:6601737 original size:6 final size:6
Alignment explanation
Indices: 6601726--6601750 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
6601716 CGAAAATTAG
6601726 AAAATT AAAATT AAAATT AAAATT A
1 AAAATT AAAATT AAAATT AAAATT A
6601751 CCCGATTGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AAAATT
Found at i:6601924 original size:55 final size:54
Alignment explanation
Indices: 6601863--6601970 Score: 125
Period size: 54 Copynumber: 2.0 Consensus size: 54
6601853 AAAACAATAC
6601863 AAGTCAAAAGAGAGAAAAAAATTAATATG-T-GA-AAAAGAAAT-AAATAAAAAGAAAT
1 AAGTC-AAAGAG-GAAAAAAA--AATATGATAGATAAAA-AAATAAAATAAAAAGAAAT
* *
6601918 AAGTCAAAGAGGAAAGAAAAATATGATAGATAAAAAAATAAAATAAAAGGAAA
1 AAGTCAAAGAGGAAAAAAAAATATGATAGATAAAAAAATAAAATAAAAAGAAA
6601971 AAATAAAAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
51 6 0.13
52 1 0.02
53 13 0.28
54 22 0.47
55 5 0.11
ACGTcount: A:0.68, C:0.02, G:0.16, T:0.15
Consensus pattern (54 bp):
AAGTCAAAGAGGAAAAAAAAATATGATAGATAAAAAAATAAAATAAAAAGAAAT
Found at i:6601965 original size:13 final size:13
Alignment explanation
Indices: 6601947--6601987 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
6601937 AATATGATAG
6601947 ATAAAAAAATAAA
1 ATAAAAAAATAAA
*
6601960 ATAAAAGGAA-AAA
1 ATAAAA-AAATAAA
6601973 ATAAAAAAATAAA
1 ATAAAAAAATAAA
6601986 AT
1 AT
6601988 GTGTAAAGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
12 2 0.08
13 20 0.83
14 2 0.08
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.15
Consensus pattern (13 bp):
ATAAAAAAATAAA
Found at i:6603254 original size:9 final size:11
Alignment explanation
Indices: 6603232--6603271 Score: 52
Period size: 10 Copynumber: 4.0 Consensus size: 11
6603222 CAAATAAATA
6603232 ATAATATA-AT
1 ATAATATATAT
6603242 ATAA-AT-TAT
1 ATAATATATAT
6603251 ATAATATATAT
1 ATAATATATAT
6603262 AT-ATATATAT
1 ATAATATATAT
6603272 TTCAAAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 8 0.30
10 14 0.52
11 5 0.19
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
ATAATATATAT
Found at i:6603254 original size:14 final size:15
Alignment explanation
Indices: 6603225--6603268 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
6603215 AAACAAACAA
6603225 ATAAATAATAATATAAT
1 ATAAAT-AT-ATATAAT
6603242 ATAAAT-TATATAAT
1 ATAAATATATATAAT
*
6603256 ATATATATATATA
1 ATAAATATATATA
6603269 TATTTCAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 12 0.48
15 7 0.28
17 6 0.24
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
ATAAATATATATAAT
Found at i:6603296 original size:37 final size:36
Alignment explanation
Indices: 6603255--6603731 Score: 301
Period size: 37 Copynumber: 13.4 Consensus size: 36
6603245 AATTATATAA
*
6603255 TATATATATATATATATTTCAAAAATATTTTTTAAAC
1 TATATATATATATAT-TTTCAAAAATATTTTTAAAAC
*
6603292 --TATATAT-TATATTTT-AAAAA-AGTTTTCAAAAC
1 TATATATATATATATTTTCAAAAATA-TTTTTAAAAC
*
6603324 TATATAT-TATATAGTTTTC-AAAAT-GTTTTAAAA-
1 TATATATATATATA-TTTTCAAAAATATTTTTAAAAC
*
6603357 -ATAT-TATATA-AGTTTTCAAAAAATGTTTTTAAAAC
1 TATATATATATATA-TTTTC-AAAAATATTTTTAAAAC
* * * *
6603392 TATATTTTATATAATTTTTTCAAAAAAAATTTTAAAAC
1 TATA-TATATAT-ATATTTTCAAAAATATTTTTAAAAC
*
6603430 TATATAT-TATATAATTTTTCAAAAATGTTTTTAAAAC
1 TATATATATATAT-A-TTTTCAAAAATATTTTTAAAAC
*
6603467 TATATAT-TATATAATTTTTCAAAAATATTTTAAAAAAC
1 TATATATATATAT-A-TTTTCAAAAATATTTT-TAAAAC
* *
6603505 TATATACTATATA-AGTTTTC-AAAATGTTTTAAAAAC
1 TATATA-TATATATA-TTTTCAAAAATATTTTTAAAAC
* *
6603541 TATATATTATATAAATTTTC-AAAAT-GTTTTAAAA-
1 TATATA-TATATATATTTTCAAAAATATTTTTAAAAC
* * *
6603575 -A-ACTATATA-ATA---T-ATAAATGTTTTCAAAAC
1 TATA-TATATATATATTTTCAAAAATATTTTTAAAAC
*
6603605 TATATATTATATATATTTT-AAAAATATTTTCAAAAAC
1 TATATA-TATATATATTTTCAAAAATATTTT-TAAAAC
* * * * * *
6603642 TATAAAATATATAAATGTTCGAAAATCGTTTTCTAAAAA
1 TAT-ATATATATATATTTTCAAAAAT-ATTTT-TAAAAC
* *
6603681 T-TATATATTATATTTTTTCAAAAATATTTTCACAAAC
1 TATATATA-TATATATTTTCAAAAATATTTTTA-AAAC
6603718 TATAT-TACTATATA
1 TATATATA-TATATA
6603732 CATATATATA
Statistics
Matches: 354, Mismatches: 45, Indels: 82
0.74 0.09 0.17
Matches are distributed among these distances:
28 5 0.01
29 7 0.02
31 14 0.04
32 31 0.09
33 15 0.04
34 29 0.08
35 24 0.07
36 45 0.13
37 99 0.28
38 64 0.18
39 17 0.05
40 4 0.01
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.45
Consensus pattern (36 bp):
TATATATATATATATTTTCAAAAATATTTTTAAAAC
Found at i:6603305 original size:32 final size:32
Alignment explanation
Indices: 6603259--6603478 Score: 117
Period size: 32 Copynumber: 6.4 Consensus size: 32
6603249 ATATAATATA
**
6603259 TATATATATATATTTCAAAAATA-TTTTTTAAAC
1 TATATAT-TATATTTCAAAAA-AGTTTTCAAAAC
*
6603292 TATATATTATATTTTAAAAAAGTTTTCAAAAC
1 TATATATTATATTTCAAAAAAGTTTTCAAAAC
* *
6603324 TATATATTATATAGTTTTC-AAAATGTTTT-AAAAA
1 TATATA-T-TATA--TTTCAAAAAAGTTTTCAAAAC
* *
6603358 TATTATATAAGT-TTTCAAAAAATGTTTTTAAAAC
1 TA-TATATTA-TATTTCAAAAAA-GTTTTCAAAAC
* *
6603392 TATATTTTATATAATTTTTTCAAAAAAAATTTT-AAAAC
1 TATA---TAT-T-A-TATTTC-AAAAAAGTTTTCAAAAC
* *
6603430 TATATATTATATAATTTTTCAAAAATGTTTTTAAAAC
1 TATATA-T-TAT-A--TTTCAAAAAAGTTTTCAAAAC
6603467 TATATATTATAT
1 TATATATTATAT
6603479 AATTTTTCAA
Statistics
Matches: 150, Mismatches: 15, Indels: 45
0.71 0.07 0.21
Matches are distributed among these distances:
31 5 0.03
32 31 0.21
33 16 0.11
34 20 0.13
35 19 0.13
36 19 0.13
37 15 0.10
38 11 0.07
39 8 0.05
40 6 0.04
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (32 bp):
TATATATTATATTTCAAAAAAGTTTTCAAAAC
Found at i:6603405 original size:38 final size:38
Alignment explanation
Indices: 6603254--6603603 Score: 325
Period size: 38 Copynumber: 9.6 Consensus size: 38
6603244 AAATTATATA
*
6603254 ATATATATATATATA-TATTTCAAAAATAT-TTTT-TAAACT
1 ATATAT-TATATA-AGT-TTTCAAAAA-ATGTTTTAAAAACT
*
6603293 ATATA-T-TAT-A-TTTT-AAAAAA-GTTTTCAAAACT
1 ATATATTATATAAGTTTTCAAAAAATGTTTTAAAAACT
6603325 ATATATTATAT-AGTTTTC--AAAATGTTTT--AAA--
1 ATATATTATATAAGTTTTCAAAAAATGTTTTAAAAACT
*
6603356 A-ATATTATATAAGTTTTCAAAAAATGTTTTTAAAACT
1 ATATATTATATAAGTTTTCAAAAAATGTTTTAAAAACT
* * **
6603393 ATATTTTATATAATTTTTTCAAAAAAAATTTT-AAAACT
1 ATATATTATATAA-GTTTTCAAAAAATGTTTTAAAAACT
* *
6603431 ATATATTATATAATTTTTC-AAAAATGTTTTTAAAACT
1 ATATATTATATAAGTTTTCAAAAAATGTTTTAAAAACT
* *
6603468 ATATATTATATAATTTTTCAAAAATAT-TTTAAAAAACT
1 ATATATTATATAAGTTTTCAAAAA-ATGTTTTAAAAACT
*
6603506 ATATACTATATAAGTTTTC--AAAATGTTTTAAAAACT
1 ATATATTATATAAGTTTTCAAAAAATGTTTTAAAAACT
*
6603542 ATATATTATATAAATTTTC--AAAATGTTTTAAAAAACT
1 ATATATTATATAAGTTTTCAAAAAATGTTTT-AAAAACT
*
6603579 ATATAATATATAAATGTTTTCAAAA
1 ATATATTATAT-AA-GTTTTCAAAA
6603604 CTATATATTA
Statistics
Matches: 269, Mismatches: 17, Indels: 48
0.81 0.05 0.14
Matches are distributed among these distances:
30 9 0.03
31 13 0.05
32 15 0.06
33 17 0.06
34 10 0.04
35 14 0.05
36 52 0.19
37 50 0.19
38 60 0.22
39 27 0.10
41 2 0.01
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (38 bp):
ATATATTATATAAGTTTTCAAAAAATGTTTTAAAAACT
Found at i:6603464 original size:75 final size:73
Alignment explanation
Indices: 6603254--6603731 Score: 412
Period size: 75 Copynumber: 6.7 Consensus size: 73
6603244 AAATTATATA
* * *
6603254 ATATATATATATATATATTTCAAAAATATTTTTTAAACTATATA-T-TAT-A-TTTT-AAAAAAG
1 ATATAT-TATATA-ATTTTTCAAAAATA-TTTTAAAACTATATATTATATAAGTTTTCAAAAATG
*
6603314 TTTTCAAAACT
63 TTTTTAAAACT
* *
6603325 ATATATTATAT-AGTTTTC-AAAATGTTTT-AAA--A-ATATTATATAAGTTTTCAAAAAATGTT
1 ATATATTATATAATTTTTCAAAAATATTTTAAAACTATATATTATATAAGTTTTC-AAAAATGTT
6603384 TTTAAAACT
65 TTTAAAACT
* * *
6603393 ATATTTTATATAATTTTTTCAAAAAAAATTTTAAAACTATATATTATATAATTTTTCAAAAATGT
1 ATATATTATATAA-TTTTTC-AAAAATATTTTAAAACTATATATTATATAAGTTTTCAAAAATGT
6603458 TTTTAAAACT
64 TTTTAAAACT
*
6603468 ATATATTATATAATTTTTCAAAAATATTTTAAAAAACTATATACTATATAAGTTTTC-AAAATGT
1 ATATATTATATAATTTTTCAAAAATATTTT--AAAACTATATATTATATAAGTTTTCAAAAATGT
*
6603532 TTTAAAAACT
64 TTTTAAAACT
* * * * *
6603542 ATATATTATATAAATTTTC-AAAATGTTTT-AAA--A-A-ACTATATAA--TAT-ATAAATGTTT
1 ATATATTATATAATTTTTCAAAAATATTTTAAAACTATATATTATATAAGTTTTCAAAAATGTTT
*
6603598 TCAAAACT
66 TTAAAACT
* * * * *
6603606 ATATATTATATATA-TTTT-AAAAATATTTTCAAAAACTATAAAATATATAAATGTTCGAAAATC
1 ATATATTATATA-ATTTTTCAAAAATATTTT--AAAACTATATATTATATAAGTTTTCAAAAAT-
*
6603669 GTTTTCTAAAAATT
62 GTTTT-T-AAAACT
*
6603683 ATATATTATAT--TTTTTCAAAAATATTTTCACAAACTATATTACTATATA
1 ATATATTATATAATTTTTCAAAAATATTTT-A-AAACTATA-TATTATATA
6603732 CATATATATA
Statistics
Matches: 340, Mismatches: 31, Indels: 66
0.78 0.07 0.15
Matches are distributed among these distances:
62 3 0.01
63 2 0.01
64 45 0.13
65 5 0.01
66 17 0.05
67 9 0.03
68 32 0.09
69 2 0.01
70 14 0.04
71 14 0.04
72 8 0.02
73 23 0.07
74 44 0.13
75 64 0.19
76 35 0.10
77 23 0.07
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.45
Consensus pattern (73 bp):
ATATATTATATAATTTTTCAAAAATATTTTAAAACTATATATTATATAAGTTTTCAAAAATGTTT
TTAAAACT
Found at i:6603598 original size:64 final size:64
Alignment explanation
Indices: 6603526--6603660 Score: 216
Period size: 64 Copynumber: 2.1 Consensus size: 64
6603516 TAAGTTTTCA
* * *
6603526 AAATGTTTTAAAAACTATATATTATATAAATTTTCAAAATGTTTTAAAAAACTATATAATATAT
1 AAATGTTTTAAAAACTATATATTATATAAATTTTAAAAATATTTTAAAAAACTATAAAATATAT
* * *
6603590 AAATGTTTTCAAAACTATATATTATATATATTTTAAAAATATTTTCAAAAACTATAAAATATAT
1 AAATGTTTTAAAAACTATATATTATATAAATTTTAAAAATATTTTAAAAAACTATAAAATATAT
6603654 AAATGTT
1 AAATGTT
6603661 CGAAAATCGT
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 65 1.00
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (64 bp):
AAATGTTTTAAAAACTATATATTATATAAATTTTAAAAATATTTTAAAAAACTATAAAATATAT
Found at i:6603619 original size:29 final size:28
Alignment explanation
Indices: 6603562--6603617 Score: 87
Period size: 27 Copynumber: 2.0 Consensus size: 28
6603552 TAAATTTTCA
6603562 AAATGTTTTAAAAAACTATATAATATAT
1 AAATGTTTTAAAAAACTATATAATATAT
* *
6603590 AAATGTTTT-CAAAACTATATATTATAT
1 AAATGTTTTAAAAAACTATATAATATAT
6603617 A
1 A
6603618 TATTTTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 17 0.65
28 9 0.35
ACGTcount: A:0.50, C:0.05, G:0.04, T:0.41
Consensus pattern (28 bp):
AAATGTTTTAAAAAACTATATAATATAT
Found at i:6603623 original size:25 final size:27
Alignment explanation
Indices: 6603562--6603628 Score: 75
Period size: 25 Copynumber: 2.5 Consensus size: 27
6603552 TAAATTTTCA
*
6603562 AAATGTTTTAAAAAACTATATAATATAT
1 AAATATTTT-AAAAACTATATAATATAT
* *
6603590 AAATGTTTTCAAAACTATAT-AT-TAT
1 AAATATTTTAAAAACTATATAATATAT
*
6603615 ATATATTTTAAAAA
1 AAATATTTTAAAAA
6603629 TATTTTCAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
25 14 0.40
26 2 0.06
27 10 0.29
28 9 0.26
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (27 bp):
AAATATTTTAAAAACTATATAATATAT
Found at i:6603738 original size:2 final size:2
Alignment explanation
Indices: 6603726--6603767 Score: 52
Period size: 2 Copynumber: 22.0 Consensus size: 2
6603716 ACTATATTAC
* *
6603726 TA TA TA CA TA TA TA TA TA TA TA TA -A TA -A AA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6603766 TA
1 TA
6603768 AAAATAACTC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
1 2 0.06
2 33 0.94
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (2 bp):
TA
Found at i:6605445 original size:3 final size:3
Alignment explanation
Indices: 6605437--6605494 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
6605427 CTTATGTGAC
6605437 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
6605485 AAT AAT AAT A
1 AAT AAT AAT A
6605495 CATCATAGAA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:6610436 original size:2 final size:2
Alignment explanation
Indices: 6610431--6610461 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6610421 ATGTTTTTTA
6610431 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6610462 ATCTTCACCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6614204 original size:17 final size:17
Alignment explanation
Indices: 6614182--6614250 Score: 111
Period size: 17 Copynumber: 3.9 Consensus size: 17
6614172 AACGGTCAAC
6614182 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
6614199 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
*
6614216 GGTCAACAGTCGGGTCG
1 GGTCAACGGTCGGGTCG
6614233 GGTCAGACGGGTCGGGTC
1 GGTCA-AC-GGTCGGGTC
6614251 AGACCGGTCA
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
17 38 0.79
18 2 0.04
19 8 0.17
ACGTcount: A:0.13, C:0.23, G:0.46, T:0.17
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:6614245 original size:14 final size:14
Alignment explanation
Indices: 6614226--6614259 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
6614216 GGTCAACAGT
6614226 CGGGTCGGGTCAGA
1 CGGGTCGGGTCAGA
6614240 CGGGTCGGGTCAGA
1 CGGGTCGGGTCAGA
*
6614254 CCGGTC
1 CGGGTC
6614260 AAACCGGTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.12, C:0.26, G:0.47, T:0.15
Consensus pattern (14 bp):
CGGGTCGGGTCAGA
Found at i:6614259 original size:9 final size:9
Alignment explanation
Indices: 6614247--6614306 Score: 66
Period size: 9 Copynumber: 6.3 Consensus size: 9
6614237 AGACGGGTCG
*
6614247 GGTCAGACC
1 GGTCAAACC
6614256 GGTCAAACC
1 GGTCAAACC
*
6614265 GGTCCAGACC
1 GGT-CAAACC
6614275 GGTCAAACC
1 GGTCAAACC
*
6614284 GGTTCAAAACT
1 GG-TC-AAACC
6614295 GGTCAAACC
1 GGTCAAACC
6614304 GGT
1 GGT
6614307 TTTCCAGCAG
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
9 25 0.58
10 12 0.28
11 6 0.14
ACGTcount: A:0.28, C:0.30, G:0.27, T:0.15
Consensus pattern (9 bp):
GGTCAAACC
Found at i:6614274 original size:19 final size:19
Alignment explanation
Indices: 6614250--6614306 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
6614240 CGGGTCGGGT
6614250 CAGACCGGTCAAACCGGTC
1 CAGACCGGTCAAACCGGTC
6614269 CAGACCGGTCAAACCGGTTC
1 CAGACCGGTCAAACCGG-TC
* * *
6614289 AAAACTGGTCAAACCGGT
1 CAGACCGGTCAAACCGGT
6614307 TTTCCAGCAG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 18 0.53
20 16 0.47
ACGTcount: A:0.30, C:0.32, G:0.25, T:0.14
Consensus pattern (19 bp):
CAGACCGGTCAAACCGGTC
Found at i:6614300 original size:20 final size:20
Alignment explanation
Indices: 6614253--6614307 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
6614243 GTCGGGTCAG
* *
6614253 ACCGGTCAAACCGG-TCCAG
1 ACCGGTCAAACCGGTTCAAA
6614272 ACCGGTCAAACCGGTTCAAA
1 ACCGGTCAAACCGGTTCAAA
*
6614292 ACTGGTCAAACCGGTT
1 ACCGGTCAAACCGGTT
6614308 TTCCAGCAGC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 14 0.44
20 18 0.56
ACGTcount: A:0.29, C:0.31, G:0.24, T:0.16
Consensus pattern (20 bp):
ACCGGTCAAACCGGTTCAAA
Found at i:6617992 original size:21 final size:21
Alignment explanation
Indices: 6617966--6618007 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
6617956 TTGTCCTTTC
6617966 AACTAATTACCTTTTAAATAA
1 AACTAATTACCTTTTAAATAA
6617987 AACTAATTACCTTTTAAATAA
1 AACTAATTACCTTTTAAATAA
6618008 GGTACCCCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (21 bp):
AACTAATTACCTTTTAAATAA
Found at i:6620344 original size:317 final size:317
Alignment explanation
Indices: 6619769--6620397 Score: 1114
Period size: 317 Copynumber: 2.0 Consensus size: 317
6619759 ATGGTAAATC
* *
6619769 GAGACATATGCGTTGTCGACATAATACCATTAGATTAGTAATCTCAAATAAAGTTATCTCTATTG
1 GAGACATATACGTTGTCGACATAATACCATTAGAATAGTAATCTCAAATAAAGTTATCTCTATTG
* *
6619834 ATTTTATAAGGTCAAAGGATAACATCATGGATCCACTAACCAAAGGGTTAAATCGAGATCAAGTT
66 ATTTTATAAGGTCAAAGGATAACATCATGGATCCACTAACCAAAGGGTTAAACCAAGATCAAGTT
* * *
6619899 GAGAAAACATCTAAAGGAATGAGACTCAAGCACATGAAATTTAAAGGTGTTTTATGAAGGAAAAC
131 CACAAAACATCTAAAGGAATGAGACTAAAGCACATGAAATTTAAAGGTGTTTTATGAAGGAAAAC
*
6619964 CTTACCTTGTTGACTGAAGATCCAAAGATCTAGGTATAAAGGGACAACCTAAATTCATAACCCAT
196 CTTACCTTGTTGACTGAAGATCCAAAGATCTAGGTACAAAGGGACAACCTAAATTCATAACCCAT
*
6620029 GTACGATCACTATGGGGGGCTAGTTATACCAAGTTCGTTCCTATGATGTAAAGGAAT
261 GTACGATCACTATAGGGGGCTAGTTATACCAAGTTCGTTCCTATGATGTAAAGGAAT
6620086 GAGACATATACGTTGTCGACATAATACCATTAGAATAGTAATCTCAAATAAAGTTATCTCTATTG
1 GAGACATATACGTTGTCGACATAATACCATTAGAATAGTAATCTCAAATAAAGTTATCTCTATTG
*
6620151 ATTTTATAAGGTCAAAGGATAGCATCATGGATCCACTAACCAAAGGGTTAAACCAAGATCAAGTT
66 ATTTTATAAGGTCAAAGGATAACATCATGGATCCACTAACCAAAGGGTTAAACCAAGATCAAGTT
* *
6620216 CACAAAACATCTAAAGGAATGAGACTAAAGCACATGAGATTTAAAGGTGTTTTGTGAAGGAAAAC
131 CACAAAACATCTAAAGGAATGAGACTAAAGCACATGAAATTTAAAGGTGTTTTATGAAGGAAAAC
*
6620281 CTTACCTTGTTGACTGAAGATTCAAAGATCTAGGTACAAAGGGACAACCTAAATTCATAACCCAT
196 CTTACCTTGTTGACTGAAGATCCAAAGATCTAGGTACAAAGGGACAACCTAAATTCATAACCCAT
** *
6620346 GTACGATCACTATAGGGGTTTAGTTATACCAAGTTCGTTCCTATGATTTAAA
261 GTACGATCACTATAGGGGGCTAGTTATACCAAGTTCGTTCCTATGATGTAAA
6620398 TAGTGATCAA
Statistics
Matches: 296, Mismatches: 16, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
317 296 1.00
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28
Consensus pattern (317 bp):
GAGACATATACGTTGTCGACATAATACCATTAGAATAGTAATCTCAAATAAAGTTATCTCTATTG
ATTTTATAAGGTCAAAGGATAACATCATGGATCCACTAACCAAAGGGTTAAACCAAGATCAAGTT
CACAAAACATCTAAAGGAATGAGACTAAAGCACATGAAATTTAAAGGTGTTTTATGAAGGAAAAC
CTTACCTTGTTGACTGAAGATCCAAAGATCTAGGTACAAAGGGACAACCTAAATTCATAACCCAT
GTACGATCACTATAGGGGGCTAGTTATACCAAGTTCGTTCCTATGATGTAAAGGAAT
Found at i:6624762 original size:27 final size:25
Alignment explanation
Indices: 6624701--6624761 Score: 95
Period size: 25 Copynumber: 2.4 Consensus size: 25
6624691 TTTGAAAATA
*
6624701 TTTTTCAAAACATATAATATATAGT
1 TTTTTAAAAACATATAATATATAGT
*
6624726 TTTTTGAAAACATATAATATATAGT
1 TTTTTAAAAACATATAATATATAGT
6624751 TCTTTTAAAAA
1 T-TTTTAAAAA
6624762 ATCGATTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
25 25 0.76
26 8 0.24
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (25 bp):
TTTTTAAAAACATATAATATATAGT
Found at i:6624831 original size:37 final size:37
Alignment explanation
Indices: 6624726--6624875 Score: 146
Period size: 37 Copynumber: 3.9 Consensus size: 37
6624716 AATATATAGT
*
6624726 TTTTTGAAAACATATA-ATATATAGTTCTTTTAAAA-AATCGA
1 TTTTTGAAAACATATATA-ATATAG-T-TTTGAAAACAA---A
*
6624767 TTTTTGAAAACATATATAATATGGTTTTGAAAACAAA
1 TTTTTGAAAACATATATAATATAGTTTTGAAAACAAA
* *
6624804 TTTTTGAAAACGTATA-ATATATAGTTTT-AAAAAACAA
1 TTTTTGAAAACATATATA-ATATAGTTTTGAAAACA-AA
* *
6624841 TTTTTGTAAACGTATATAATATAGTTTTGAAAACA
1 TTTTTGAAAACATATATAATATAGTTTTGAAAACA
6624876 CACATATATA
Statistics
Matches: 96, Mismatches: 7, Indels: 15
0.81 0.06 0.13
Matches are distributed among these distances:
36 6 0.06
37 52 0.54
38 6 0.06
39 7 0.07
40 3 0.03
41 21 0.22
42 1 0.01
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.40
Consensus pattern (37 bp):
TTTTTGAAAACATATATAATATAGTTTTGAAAACAAA
Found at i:6624868 original size:74 final size:76
Alignment explanation
Indices: 6624726--6624875 Score: 223
Period size: 74 Copynumber: 2.0 Consensus size: 76
6624716 AATATATAGT
* *
6624726 TTTTTGAAAACATATAATATATAGTTCTTTTAAAAAATCGATTTTTGAAAACATATATAATATGG
1 TTTTTGAAAACATATAATATATAG-T-TTTTAAAAAATCAATTTTTGAAAACATATATAATATAG
6624791 TTTTGAAAACAAA
64 TTTTGAAAACAAA
* * *
6624804 TTTTTGAAAACGTATAATATATAG-TTTTAAAAAA-CAATTTTTGTAAACGTATATAATATAGTT
1 TTTTTGAAAACATATAATATATAGTTTTTAAAAAATCAATTTTTGAAAACATATATAATATAGTT
6624867 TTGAAAACA
66 TTGAAAACA
6624876 CACATATATA
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
74 34 0.51
75 10 0.15
78 23 0.34
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.40
Consensus pattern (76 bp):
TTTTTGAAAACATATAATATATAGTTTTTAAAAAATCAATTTTTGAAAACATATATAATATAGTT
TTGAAAACAAA
Found at i:6624910 original size:40 final size:41
Alignment explanation
Indices: 6624865--6624943 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 41
6624855 TATAATATAG
*
6624865 TTTTGAAAACACACAT-ATATATATAGTTTTTT-AAAACAGT
1 TTTTGAAAACACACATAATATATA-AATTTTTTGAAAACAGT
* *
6624905 TTTTGAAAACATATATAATATATAAATTTTTTGAAAACA
1 TTTTGAAAACACACATAATATATAAATTTTTTGAAAACA
6624944 TATTATATAG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
40 21 0.62
41 13 0.38
ACGTcount: A:0.46, C:0.08, G:0.06, T:0.41
Consensus pattern (41 bp):
TTTTGAAAACACACATAATATATAAATTTTTTGAAAACAGT
Found at i:6624996 original size:5 final size:5
Alignment explanation
Indices: 6624986--6625072 Score: 78
Period size: 5 Copynumber: 18.2 Consensus size: 5
6624976 ATTGTGTGCG
* *
6624986 TATTA TATTA TATATA TATTA TA-TA TAAT- TATTA TTATT- TATTA TTTTA
1 TATTA TATTA TAT-TA TATTA TATTA TATTA TATTA -TATTA TATTA TATTA
* *
6625035 TAAT- TATTA TATTA TATTA TATTA GATTA T-TTA T-TTA T
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA T
6625073 TTAATTTCAT
Statistics
Matches: 69, Mismatches: 7, Indels: 13
0.78 0.08 0.15
Matches are distributed among these distances:
4 22 0.32
5 38 0.55
6 9 0.13
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (5 bp):
TATTA
Found at i:6625019 original size:24 final size:24
Alignment explanation
Indices: 6624991--6625065 Score: 93
Period size: 24 Copynumber: 3.2 Consensus size: 24
6624981 GTGCGTATTA
6624991 TATTATATATATATTATATATAAT
1 TATTATATATATATTATATATAAT
* *
6625015 TATTAT-TATTTATTATTTTATAAT
1 TATTATATATATATTA-TATATAAT
6625039 TATTATAT-TATATTATAT-TAGAT
1 TATTATATATATATTATATATA-AT
6625062 TATT
1 TATT
6625066 TATTTATTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
22 2 0.05
23 16 0.36
24 25 0.57
25 1 0.02
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (24 bp):
TATTATATATATATTATATATAAT
Found at i:6625065 original size:37 final size:39
Alignment explanation
Indices: 6624986--6625070 Score: 97
Period size: 37 Copynumber: 2.2 Consensus size: 39
6624976 ATTGTGTGCG
* *
6624986 TATTATATTATATATATATTATATATAATTATTATTATT
1 TATTATTTTATATATATATTATATATAATTATTATTAAT
6625025 TATTATTTTATA-AT-TATTATAT-TATATTA-TATTAGAT
1 TATTATTTTATATATATATTATATATA-ATTATTATTA-AT
6625062 TATTTATTT
1 TA-TTATTT
6625071 ATTTAATTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
36 7 0.17
37 15 0.37
38 8 0.20
39 11 0.27
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (39 bp):
TATTATTTTATATATATATTATATATAATTATTATTAAT
Found at i:6630010 original size:24 final size:24
Alignment explanation
Indices: 6629960--6630018 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
6629950 GACTCATCTA
* * **
6629960 CTGCAAAAGAACAAGCTTTATTTG
1 CTGCAAAAGCACAAGCTTCATCGG
*
6629984 CTGCAAAAGCACAAGCTTCGTCGG
1 CTGCAAAAGCACAAGCTTCATCGG
6630008 CTGCAAAAGCA
1 CTGCAAAAGCA
6630019 TAGGCTTGTG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.20
Consensus pattern (24 bp):
CTGCAAAAGCACAAGCTTCATCGG
Found at i:6632599 original size:26 final size:27
Alignment explanation
Indices: 6632560--6632618 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 27
6632550 TCCGACAAAC
6632560 ATTTCTTTCATATATAATTTTATTT-T
1 ATTTCTTTCATATATAATTTTATTTCT
*
6632586 ATTTCTTTCGTATATAATTTTATTTCT
1 ATTTCTTTCATATATAATTTTATTTCT
6632613 -TTTCTT
1 ATTTCTT
6632619 CATTCTATGT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 30 0.97
27 1 0.03
ACGTcount: A:0.22, C:0.10, G:0.02, T:0.66
Consensus pattern (27 bp):
ATTTCTTTCATATATAATTTTATTTCT
Found at i:6637244 original size:32 final size:32
Alignment explanation
Indices: 6637165--6637247 Score: 105
Period size: 32 Copynumber: 2.6 Consensus size: 32
6637155 CAATTTGGAC
** * *
6637165 TCAACTTCACGAAAAATGAGTCACCTATGATT
1 TCAACTTCACGACGAAGGAGTCACCTACGATT
*
6637197 TCAACTTCACTACGAAGGAGTCATCC-ACGATT
1 TCAACTTCACGACGAAGGAGTCA-CCTACGATT
6637229 TCAACTTCACGACGAAGGA
1 TCAACTTCACGACGAAGGA
6637248 TATCGTGCCC
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
32 42 0.95
33 2 0.05
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (32 bp):
TCAACTTCACGACGAAGGAGTCACCTACGATT
Found at i:6638008 original size:37 final size:38
Alignment explanation
Indices: 6637871--6638054 Score: 160
Period size: 38 Copynumber: 4.8 Consensus size: 38
6637861 ATAGTTTCTG
* * * *
6637871 AAAATATTTCTGAAAACATATA-ATATATAGTTTTTAGA
1 AAAACATTTTTGAAAACATATATATATATAG-TTTAAAA
*** * *
6637909 AAATGGTTTTTGAAAACATATAATATATATATTTTTTAAA
1 AAAACATTTTTGAAAACATAT-ATATATATA-GTTTAAAA
* * *
6637949 AAATCGATTTTTGAAAACATATATA-ATATGGTCTT-GAA
1 AAAAC-ATTTTTGAAAACATATATATATATAGT-TTAAAA
* *
6637987 AACACATTTTTGAAAATATATA-ATATATAGTTTAAAA
1 AAAACATTTTTGAAAACATATATATATATAGTTTAAAA
6638024 AAAACAGTTTTTGAAAACATATATATATATA
1 AAAACA-TTTTTGAAAACATATATATATATA
6638055 TATATATATA
Statistics
Matches: 119, Mismatches: 18, Indels: 17
0.77 0.12 0.11
Matches are distributed among these distances:
36 3 0.03
37 29 0.24
38 38 0.32
39 14 0.12
40 20 0.17
41 15 0.13
ACGTcount: A:0.47, C:0.05, G:0.08, T:0.39
Consensus pattern (38 bp):
AAAACATTTTTGAAAACATATATATATATAGTTTAAAA
Found at i:6638049 original size:2 final size:2
Alignment explanation
Indices: 6638042--6638070 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
6638032 TTTTGAAAAC
6638042 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6638071 GTTTTTTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6638050 original size:35 final size:35
Alignment explanation
Indices: 6637944--6638050 Score: 99
Period size: 37 Copynumber: 2.9 Consensus size: 35
6637934 TATATATTTT
*
6637944 TTAAAAAATCGATTTTTGAAAACATATATAATATGGTC
1 TTAAAAAAAC-ATTTTTGAAAACATATAT-ATA-GGTC
* * * *
6637982 TTGAAAACACATTTTTGAAAATATATAATATATAGT-
1 TTAAAAAAACATTTTTGAAAACATAT-ATATA-GGTC
6638018 TTAAAAAAAACAGTTTTTGAAAACATATATATA
1 TT-AAAAAAACA-TTTTTGAAAACATATATATA
6638051 TATATATATA
Statistics
Matches: 58, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
36 2 0.03
37 33 0.57
38 23 0.40
ACGTcount: A:0.49, C:0.07, G:0.08, T:0.36
Consensus pattern (35 bp):
TTAAAAAAACATTTTTGAAAACATATATATAGGTC
Found at i:6638176 original size:5 final size:5
Alignment explanation
Indices: 6638166--6638230 Score: 70
Period size: 5 Copynumber: 13.8 Consensus size: 5
6638156 ATAGTTTTTG
6638166 TATTA TATTA TA--A TATTA TTATT- TATTA TATTA TATT- TATTA TATTA
1 TATTA TATTA TATTA TATTA -TATTA TATTA TATTA TATTA TATTA TATTA
6638213 TATTA TTATT- TATT- TATT
1 TATTA -TATTA TATTA TATT
6638231 TAATTTCATT
Statistics
Matches: 54, Mismatches: 0, Indels: 13
0.81 0.00 0.19
Matches are distributed among these distances:
3 3 0.06
4 16 0.30
5 27 0.50
6 8 0.15
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (5 bp):
TATTA
Found at i:6638188 original size:14 final size:14
Alignment explanation
Indices: 6638166--6638225 Score: 81
Period size: 14 Copynumber: 4.4 Consensus size: 14
6638156 ATAGTTTTTG
*
6638166 TATTATA-TTATAA
1 TATTATATTTATTA
6638179 TATTATTATTTATTA
1 TATTA-TATTTATTA
6638194 TATTATATTTATTA
1 TATTATATTTATTA
6638208 TATTATA-TTATTA
1 TATTATATTTATTA
6638221 T-TTAT
1 TATTAT
6638226 TTATTTAATT
Statistics
Matches: 44, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
12 4 0.09
13 12 0.27
14 18 0.41
15 10 0.23
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
TATTATATTTATTA
Found at i:6638221 original size:34 final size:32
Alignment explanation
Indices: 6638166--6638230 Score: 96
Period size: 34 Copynumber: 2.0 Consensus size: 32
6638156 ATAGTTTTTG
6638166 TATTATATTATAATATTATTATTTATTATATTA
1 TATTATATTATAATATTATTATTTATT-TATTA
6638199 TATT-TATTATATTATATTATTATTTATTTATT
1 TATTATATTATA--ATATTATTATTTATTTATT
6638231 TAATTTCATT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
32 7 0.23
33 8 0.27
34 15 0.50
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (32 bp):
TATTATATTATAATATTATTATTTATTTATTA
Found at i:6638230 original size:14 final size:12
Alignment explanation
Indices: 6638182--6638230 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 12
6638172 ATTATAATAT
6638182 TATTATTTATTA
1 TATTATTTATTA
6638194 TATTATATTTATTA
1 TA-T-TATTTATTA
6638208 TATTATATTATTA
1 TATTAT-TTATTA
6638221 T-TTATTTATT
1 TATTATTTATT
6638231 TAATTTCATT
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
11 5 0.15
12 9 0.26
13 9 0.26
14 11 0.32
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
TATTATTTATTA
Found at i:6642853 original size:38 final size:38
Alignment explanation
Indices: 6642783--6642985 Score: 143
Period size: 37 Copynumber: 5.3 Consensus size: 38
6642773 TATAATAATA
* *
6642783 AATAGTATAGTTTCT-GAAAAT-ATTTTTGAAAACATAT
1 AATA-TATAGTTTTTAGAAAATGGTTTTTGAAAACATAT
*
6642820 AATATATAGTTTTTAGAAAATGGTTTTTGAAAACATCT
1 AATATATAGTTTTTAGAAAATGGTTTTTGAAAACATAT
* *
6642858 AATATATA-TATATATATTAAAATCGGTTTTTGAAAACATAT
1 AATATATAGT-T-TTTA-GAAAAT-GGTTTTTGAAAACATAT
* * *** **
6642899 -ATA-ATATGGTCTT-GAAAACACATTTTTGAAAATGTAT
1 AATATATA-GTTTTTAGAAAA-TGGTTTTTGAAAACATAT
* **
6642936 AATATATAG-TTTTAAAAAACAGTTTTTGAAAACATAT
1 AATATATAGTTTTTAGAAAATGGTTTTTGAAAACATAT
6642973 -ATATTATAGTTTT
1 AATA-TATAGTTTT
6642986 GAAAACACAC
Statistics
Matches: 130, Mismatches: 22, Indels: 27
0.73 0.12 0.15
Matches are distributed among these distances:
36 12 0.09
37 49 0.38
38 34 0.26
39 10 0.08
40 9 0.07
41 16 0.12
ACGTcount: A:0.43, C:0.05, G:0.10, T:0.41
Consensus pattern (38 bp):
AATATATAGTTTTTAGAAAATGGTTTTTGAAAACATAT
Done.