Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 11 of 325
Found at i:3246567 original size:21 final size:20
Alignment explanation
Indices: 3246516--3246569 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
3246506 AAAATAAAAA
*
3246516 TTTAAAATAAAATGTGTAGC
1 TTTAAAATTAAATGTGTAGC
3246536 -TTAATATATTAAATGTGTAGC
1 TTTAA-A-ATTAAATGTGTAGC
*
3246557 TTTTAACATTAAA
1 -TTTAAAATTAAA
3246570 ATTAAGGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
19 4 0.14
20 1 0.04
21 19 0.68
23 4 0.14
ACGTcount: A:0.43, C:0.06, G:0.11, T:0.41
Consensus pattern (20 bp):
TTTAAAATTAAATGTGTAGC
Found at i:3248088 original size:22 final size:22
Alignment explanation
Indices: 3248063--3248109 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
3248053 GGTGTTAAGT
3248063 TTTGGAAGGGTTTAATTAAAAA
1 TTTGGAAGGGTTTAATTAAAAA
*
3248085 TTTGTAAGGGTTTAATTAAAAA
1 TTTGGAAGGGTTTAATTAAAAA
3248107 TTT
1 TTT
3248110 TTAACTTTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.43
Consensus pattern (22 bp):
TTTGGAAGGGTTTAATTAAAAA
Found at i:3248824 original size:9 final size:9
Alignment explanation
Indices: 3248810--3248858 Score: 50
Period size: 9 Copynumber: 5.7 Consensus size: 9
3248800 GTAGACATGA
3248810 TAAAAATAT
1 TAAAAATAT
3248819 TAAAAATA-
1 TAAAAATAT
3248827 -AAAAA-AT
1 TAAAAATAT
* *
3248834 AAAAAATTT
1 TAAAAATAT
3248843 TAAAAATAT
1 TAAAAATAT
3248852 ATAAAAA
1 -TAAAAA
3248859 ATTCATAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
6 1 0.03
7 5 0.15
8 5 0.15
9 16 0.48
10 6 0.18
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (9 bp):
TAAAAATAT
Found at i:3248868 original size:20 final size:20
Alignment explanation
Indices: 3248824--3248881 Score: 54
Period size: 20 Copynumber: 3.0 Consensus size: 20
3248814 AATATTAAAA
3248824 ATAAAAAA--ATAAAAAATT
1 ATAAAAAACTATAAAAAATT
*
3248842 TTAAAAATA-TATAAAAAATT
1 ATAAAAA-ACTATAAAAAATT
3248862 CAT-AAAAACT-TAAAAAATT
1 -ATAAAAAACTATAAAAAATT
3248881 A
1 A
3248882 GTATGAAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
18 7 0.21
19 11 0.32
20 15 0.44
21 1 0.03
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (20 bp):
ATAAAAAACTATAAAAAATT
Found at i:3249701 original size:108 final size:108
Alignment explanation
Indices: 3249512--3249734 Score: 340
Period size: 108 Copynumber: 2.1 Consensus size: 108
3249502 GTTGCGGACT
* * * *
3249512 GATTATCATCAAAATCCTCCTATGGATGGATACCCACCACCGTACCAACAACCTTATGCACTTGG
1 GATTATCATCAAAATCCTCCTATGGATGAATACCCACCACCATACCAACAACCTTATGCACCTCG
3249577 CTATGTAGTTCAAGATTATCCGCCATCTGTT-CCCCTACCACCC
66 CTATGTAGTTCAAGATTATCCGCCATCTGTTACCCC-ACCACCC
* *
3249620 GATTATCATCAAAATCCTCCTATGGATGAATATCCACCACCATACCAACAACCTTATGCGCCTCG
1 GATTATCATCAAAATCCTCCTATGGATGAATACCCACCACCATACCAACAACCTTATGCACCTCG
* * *
3249685 CTATGTAGTTCAAGATTATCCGTCGTCTGTTACCCCGCCACCC
66 CTATGTAGTTCAAGATTATCCGCCATCTGTTACCCCACCACCC
*
3249728 AATTATC
1 GATTATC
3249735 CGTCGTCTGT
Statistics
Matches: 104, Mismatches: 10, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
108 100 0.96
109 4 0.04
ACGTcount: A:0.27, C:0.33, G:0.13, T:0.27
Consensus pattern (108 bp):
GATTATCATCAAAATCCTCCTATGGATGAATACCCACCACCATACCAACAACCTTATGCACCTCG
CTATGTAGTTCAAGATTATCCGCCATCTGTTACCCCACCACCC
Found at i:3249735 original size:30 final size:30
Alignment explanation
Indices: 3249699--3249764 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 30
3249689 GTAGTTCAAG
*
3249699 ATTATCCGTCGTCTGTTACC-CCGCCACCCA
1 ATTATCCGTCGTCTG-TACCTCCACCACCCA
*
3249729 ATTATCCGTCGTCTGTCCCTCCACCACCCA
1 ATTATCCGTCGTCTGTACCTCCACCACCCA
3249759 ATTATC
1 ATTATC
3249765 GACCATCGTG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
29 3 0.09
30 30 0.91
ACGTcount: A:0.18, C:0.42, G:0.11, T:0.29
Consensus pattern (30 bp):
ATTATCCGTCGTCTGTACCTCCACCACCCA
Found at i:3251431 original size:30 final size:30
Alignment explanation
Indices: 3251397--3251456 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
3251387 ACTTAACAAG
*
3251397 CAAATACCTCTAAAATAATAATAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
* *
3251427 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
3251457 TAATAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.58, C:0.13, G:0.02, T:0.27
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:3254014 original size:42 final size:42
Alignment explanation
Indices: 3253953--3254067 Score: 151
Period size: 42 Copynumber: 2.7 Consensus size: 42
3253943 CTTTGTTTTC
** * *
3253953 TCGATGCCATAGTTCAACTATGGTCTTACATATCTTCAGATAA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCAGAT-A
*
3253996 T-GATGCCATAGCCCAACTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCAGATA
* *
3254037 TCAATGCCATAGCCCAGCTATGGTCTTACAC
1 TCGATGCCATAGCCCAACTATGGTCTTACAC
3254068 GTAATCACAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
41 2 0.03
42 61 0.95
43 1 0.02
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (42 bp):
TCGATGCCATAGCCCAACTATGGTCTTACACATATTCAGATA
Found at i:3254179 original size:46 final size:46
Alignment explanation
Indices: 3253996--3254159 Score: 169
Period size: 49 Copynumber: 3.6 Consensus size: 46
3253986 CTTCAGATAA
* *
3253996 TGATGCCATAGCCCA-ACTATGGTCTTACAC-ATAT-TCATATATCA-
1 TGATGCCATAGCCCAGA-TATGGTCTTACACGA-ATCACATATCTCAC
* * * *
3254040 --ATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATAACACATAT
1 TGATGCCATAGCCCAGATATGGTCTTACACG-AATCACATATCTC--AC
*
3254087 TGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCAC
1 TGATGCCATAGCCCAGATATGGTCTTACACGAATCACATATCTCAC
*
3254133 TGATGCCATATCCCAGATATGGTCTTA
1 TGATGCCATAGCCCAGATATGGTCTTA
3254160 TACGGAAATC
Statistics
Matches: 101, Mismatches: 10, Indels: 16
0.80 0.08 0.13
Matches are distributed among these distances:
42 26 0.26
43 2 0.02
44 6 0.06
46 27 0.27
48 11 0.11
49 29 0.29
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (46 bp):
TGATGCCATAGCCCAGATATGGTCTTACACGAATCACATATCTCAC
Found at i:3254216 original size:31 final size:31
Alignment explanation
Indices: 3254181--3254329 Score: 219
Period size: 31 Copynumber: 4.8 Consensus size: 31
3254171 CTTGTCACTT
*
3254181 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
3254212 GTAGCC-AGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGA-AGCTACCACTTTTCACTGATCAG
*
3254243 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
**
3254274 GTAGTAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
3254305 GTAGCCAAAGCTACTACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
3254330 TGTTATTTGT
Statistics
Matches: 105, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
30 1 0.01
31 104 0.99
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:3254405 original size:50 final size:50
Alignment explanation
Indices: 3254305--3254481 Score: 266
Period size: 50 Copynumber: 3.5 Consensus size: 50
3254295 CACTGATCAG
* * * *
3254305 GTAGCCAAAGCTA-CTACTTTTCACTTGTTATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATC-ACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
* *
3254356 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGGTAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
*
3254406 GTAGCCGAAGCTATTACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
3254456 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
3254482 GTTGCCATGG
Statistics
Matches: 115, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
50 92 0.80
51 22 0.19
52 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.36
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:3264956 original size:27 final size:27
Alignment explanation
Indices: 3264873--3264963 Score: 74
Period size: 27 Copynumber: 3.1 Consensus size: 27
3264863 TTCGTCATAT
3264873 CCATATTAATCTCCCAATCATCTATAA
1 CCATATTAATCTCCCAATCATCTATAA
* *** * *
3264900 CCATTATTATTAAACATGATTAAACATCTATAT
1 CC---A-TATTAATC-T-CCCAATCATCTATAA
3264933 CCATATTAATCTCCCAATCATCTATAA
1 CCATATTAATCTCCCAATCATCTATAA
3264960 CCAT
1 CCAT
3264964 CTATAACCAA
Statistics
Matches: 46, Mismatches: 12, Indels: 12
0.66 0.17 0.17
Matches are distributed among these distances:
27 16 0.35
28 1 0.02
29 7 0.15
30 2 0.04
31 7 0.15
32 1 0.02
33 12 0.26
ACGTcount: A:0.38, C:0.25, G:0.01, T:0.35
Consensus pattern (27 bp):
CCATATTAATCTCCCAATCATCTATAA
Found at i:3265203 original size:22 final size:23
Alignment explanation
Indices: 3265178--3265222 Score: 83
Period size: 22 Copynumber: 2.0 Consensus size: 23
3265168 AATTAGTAGG
3265178 ATTTGTCTTTG-TTTGAAGTTGA
1 ATTTGTCTTTGATTTGAAGTTGA
3265200 ATTTGTCTTTGATTTGAAGTTGA
1 ATTTGTCTTTGATTTGAAGTTGA
3265223 TGTAGTAGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.20, C:0.04, G:0.22, T:0.53
Consensus pattern (23 bp):
ATTTGTCTTTGATTTGAAGTTGA
Found at i:3272973 original size:21 final size:22
Alignment explanation
Indices: 3272947--3272993 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
3272937 CTCTGCTCAA
*
3272947 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
3272968 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
3272990 ACTC
1 ACTC
3272994 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:3279800 original size:23 final size:23
Alignment explanation
Indices: 3279771--3279815 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
3279761 CTCTTTACAT
3279771 TTTTAAATAAT-ATATTATTATTA
1 TTTTAAATAATAATATT-TTATTA
*
3279794 TTTTAAATATTAATATTTTATT
1 TTTTAAATAATAATATTTTATT
3279816 CTTAACATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
TTTTAAATAATAATATTTTATTA
Found at i:3280801 original size:29 final size:29
Alignment explanation
Indices: 3280759--3280820 Score: 124
Period size: 29 Copynumber: 2.1 Consensus size: 29
3280749 TATTTATTCT
3280759 AATACAAACTATAAAGATTCTAAAAATTA
1 AATACAAACTATAAAGATTCTAAAAATTA
3280788 AATACAAACTATAAAGATTCTAAAAATTA
1 AATACAAACTATAAAGATTCTAAAAATTA
3280817 AATA
1 AATA
3280821 TTCATAATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.60, C:0.10, G:0.03, T:0.27
Consensus pattern (29 bp):
AATACAAACTATAAAGATTCTAAAAATTA
Found at i:3283075 original size:61 final size:62
Alignment explanation
Indices: 3282948--3283077 Score: 176
Period size: 61 Copynumber: 2.1 Consensus size: 62
3282938 CCTTTTTTGA
* * * * *
3282948 ATTTTAAAATTAGAACTAAATTGATAAATTTGATAAATATTGAGGGATAAATTTATTTAACT
1 ATTTTAGAATTAGAACTAAAATGATAAATTTGATAAACATTGAGGGATAAATTTAGTTAAAT
*
3283010 -TTTTAGAATTAGAACTAAAATGATAAATTTTG-TAAACATTGAGGGCTAAATTT-GTTAAAT
1 ATTTTAGAATTAGAACTAAAATGATAAA-TTTGATAAACATTGAGGGATAAATTTAGTTAAAT
3283070 ATTTTAGA
1 ATTTTAGA
3283078 TTTAAGATCG
Statistics
Matches: 60, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
60 5 0.08
61 51 0.85
62 4 0.07
ACGTcount: A:0.43, C:0.04, G:0.13, T:0.40
Consensus pattern (62 bp):
ATTTTAGAATTAGAACTAAAATGATAAATTTGATAAACATTGAGGGATAAATTTAGTTAAAT
Found at i:3283906 original size:22 final size:22
Alignment explanation
Indices: 3283878--3283937 Score: 84
Period size: 22 Copynumber: 2.6 Consensus size: 22
3283868 TGTCGAAACC
3283878 ATTTTTTTGAAAAACAGGGTCG
1 ATTTTTTTGAAAAACAGGGTCG
*
3283900 ATTTTTTTGAAAAACGGGGTCG
1 ATTTTTTTGAAAAACAGGGTCG
3283922 ACTTTATATTTGAAAA
1 A-TTT-T-TTTGAAAA
3283938 GAAAACGAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
22 22 0.65
23 3 0.09
24 1 0.03
25 8 0.24
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.38
Consensus pattern (22 bp):
ATTTTTTTGAAAAACAGGGTCG
Found at i:3287015 original size:44 final size:45
Alignment explanation
Indices: 3286913--3287200 Score: 132
Period size: 44 Copynumber: 6.5 Consensus size: 45
3286903 ATCATCAATG
* * * * *
3286913 TGCTCCACTGCAACTTTAGAGAGATAAGGTTTATAACTTTAATCC
1 TGCTCCACTGCAACTTCAGAGAAATAAGATTTGTAACTTCAATCC
* * *
3286958 -ACTCTACTGCAACTTCAGAAAAATAAGATTTGTAACTTCAA-CC
1 TGCTCCACTGCAACTTCAGAGAAATAAGATTTGTAACTTCAATCC
* * * *
3287001 TGCTCCACTACAACTTCAGAGAAATTATATTTGT---TTTAA-CC
1 TGCTCCACTGCAACTTCAGAGAAATAAGATTTGTAACTTCAATCC
* * * * *
3287042 TGCTCTATTGCAACTCCAGAGAGATAAGATCTATGATTTATAGATTCAAT-C
1 TGCTCCACTGCAACTTCAGAGAAATAAGAT-T-TG---TA-A-CTTCAATCC
* * * * * * *
3287093 TGTTCCACTACAACTCCAGGGGAATAAGACTTGCTATCTTCAATCC
1 TGCTCCACTGCAACTTCAGAGAAATAAGATTTG-TAACTTCAATCC
* * * * * **
3287139 -GTTCCGCTGCAACTTCAGGGAGATAAGACTTGT---TTTGAT-C
1 TGCTCCACTGCAACTTCAGAGAAATAAGATTTGTAACTTCAATCC
*
3287179 TGCTCTACTGCAACTTCAGAGA
1 TGCTCCACTGCAACTTCAGAGA
3287201 GATGAGATCT
Statistics
Matches: 184, Mismatches: 45, Indels: 32
0.70 0.17 0.12
Matches are distributed among these distances:
40 1 0.01
41 50 0.27
42 1 0.01
43 4 0.02
44 61 0.33
45 33 0.18
46 2 0.01
47 2 0.01
49 2 0.01
50 1 0.01
51 27 0.15
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32
Consensus pattern (45 bp):
TGCTCCACTGCAACTTCAGAGAAATAAGATTTGTAACTTCAATCC
Found at i:3287056 original size:41 final size:42
Alignment explanation
Indices: 3286959--3287071 Score: 120
Period size: 41 Copynumber: 2.7 Consensus size: 42
3286949 CTTTAATCCA
*
3286959 CTCTACTGCAACTTCAGAAAAATAAGATTTGTAACTTCAACCTG
1 CTCTACTGCAACTTCAGAGAAATAAGATTTGT-A-TTCAACCTG
* * * * *
3287003 CTCCACTACAACTTCAGAGAAATTATATTTGT-TTTAACCTG
1 CTCTACTGCAACTTCAGAGAAATAAGATTTGTATTCAACCTG
* * *
3287044 CTCTATTGCAACTCCAGAGAGATAAGAT
1 CTCTACTGCAACTTCAGAGAAATAAGAT
3287072 CTATGATTTA
Statistics
Matches: 56, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
41 29 0.52
44 27 0.48
ACGTcount: A:0.35, C:0.22, G:0.12, T:0.31
Consensus pattern (42 bp):
CTCTACTGCAACTTCAGAGAAATAAGATTTGTATTCAACCTG
Found at i:3287182 original size:137 final size:137
Alignment explanation
Indices: 3287031--3287443 Score: 583
Period size: 137 Copynumber: 3.0 Consensus size: 137
3287021 GAAATTATAT
* * * * *
3287031 TTGTTTTAACCTGCTCTATTGCAACTCCAGAGAGATAAGATCTATGATTTATAGATTCAATCTGT
1 TTGTTTTGATCTGCTCTACTGCAACTCCAGAGAGATAAGATCTATAATTTATAGCTTCAATCTGT
* * * *
3287096 TCCACTACAACTCCAGGGGAATAAGACTTGCTATCTTCAATCCGTTCCGCTGCAACTTCAGGGAG
66 TCCACTGCAACTCCAGGGAAATAAGACTTGCTATCTTCAGTCCGCTCCGCTGCAACTTCAGGGAG
3287161 ATAAGAC
131 ATAAGAC
* *
3287168 TTGTTTTGATCTGCTCTACTGCAACTTCAGAGAGATGAGATCTATAATTTATAGCTTCAATCTGT
1 TTGTTTTGATCTGCTCTACTGCAACTCCAGAGAGATAAGATCTATAATTTATAGCTTCAATCTGT
* * * *
3287233 TCTACTGCAACTCCAGGGAAATAAGACTTGCTATCTTCAGCCCGCTCCGCTGCAACTTTAGGAAG
66 TCCACTGCAACTCCAGGGAAATAAGACTTGCTATCTTCAGTCCGCTCCGCTGCAACTTCAGGGAG
3287298 ATAAGAC
131 ATAAGAC
* ** * *
3287305 TTGTTTTGATCTGCTCTACTGTAACTCCAGAGAGATAAGATCTGCAATTTATATCTTCAATATGT
1 TTGTTTTGATCTGCTCTACTGCAACTCCAGAGAGATAAGATCTATAATTTATAGCTTCAATCTGT
* * ** *
3287370 TCCACTGCAACTCCAGGGAAATAAGACTTACTATTTTCCAGTCTACTCCACTGCAACTTCAGGGA
66 TCCACTGCAACTCCAGGGAAATAAGACTTGCTATCTT-CAGTCCGCTCCGCTGCAACTTCAGGGA
*
3287435 GATACGAC
130 GATAAGAC
3287443 T
1 T
3287444 CGTAACTTCA
Statistics
Matches: 243, Mismatches: 32, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
137 214 0.88
138 29 0.12
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (137 bp):
TTGTTTTGATCTGCTCTACTGCAACTCCAGAGAGATAAGATCTATAATTTATAGCTTCAATCTGT
TCCACTGCAACTCCAGGGAAATAAGACTTGCTATCTTCAGTCCGCTCCGCTGCAACTTCAGGGAG
ATAAGAC
Found at i:3287203 original size:41 final size:41
Alignment explanation
Indices: 3287145--3287344 Score: 123
Period size: 41 Copynumber: 4.5 Consensus size: 41
3287135 ATCCGTTCCG
*
3287145 CTGCAACTTCAGGGAGATAAGACTTGTTTTGATCTGCTCTA
1 CTGCAACTTCAGAGAGATAAGACTTGTTTTGATCTGCTCTA
* * *
3287186 CTGCAACTTCAGAGAGATGAGATCTATAATTTATAGCTTCAATCTGTTCTA
1 CTGCAACTTCAGAGAGATAAGA-CT-T-GTTT-T-G-----ATCTGCTCTA
* * * * * * **
3287237 CTGCAACTCCAGGGAAATAAGACTTGCTATCTTCAGCCCGCTCCG
1 CTGCAACTTCAGAGAGATAAGACTTG-T-T-TTGA-TCTGCTCTA
*
3287282 CTGCAACTTTAG-GAAGATAAGACTTGTTTTGATCTGCTCTA
1 CTGCAACTTCAGAG-AGATAAGACTTGTTTTGATCTGCTCTA
* *
3287323 CTGTAACTCCAGAGAGATAAGA
1 CTGCAACTTCAGAGAGATAAGA
3287345 TCTGCAATTT
Statistics
Matches: 117, Mismatches: 26, Indels: 32
0.67 0.15 0.18
Matches are distributed among these distances:
41 42 0.36
42 6 0.05
43 2 0.02
44 6 0.05
45 26 0.22
46 1 0.01
49 2 0.02
50 4 0.03
51 28 0.24
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.30
Consensus pattern (41 bp):
CTGCAACTTCAGAGAGATAAGACTTGTTTTGATCTGCTCTA
Found at i:3287518 original size:44 final size:44
Alignment explanation
Indices: 3287470--3287706 Score: 212
Period size: 44 Copynumber: 5.3 Consensus size: 44
3287460 TCCATCGTAT
*
3287470 CTTCAGGGAA-ATAAGGTTAGTGGCTTCGATCTACTTCACTGCAA
1 CTTCA-GGAAGATAAGGTTAGTGGCTTCGATCTGCTTCACTGCAA
* * * *** *
3287514 CTTCAGAAAGATAAGATTCGCCATCTTC-AGTCTGCTCCACTGCAA
1 CTTCAGGAAGATAAGGTTAG-TGGCTTCGA-TCTGCTTCACTGCAA
* * ** *
3287559 CTTCAGGGAGATAAGGTTACTGGCTTCGATCTATTTCATTGCAA
1 CTTCAGGAAGATAAGGTTAGTGGCTTCGATCTGCTTCACTGCAA
* * ***
3287603 CTTCAGGAAGATAAGATTCGCCATCTTC-AGTCTGCTTCACTGCAA
1 CTTCAGGAAGATAAGGTTAG-TGGCTTCGA-TCTGCTTCACTGCAA
* *
3287648 CTTCAAGG-AGATAAGGTTAGTGGTTTCGATCTGCTTCACTACAA
1 CTTC-AGGAAGATAAGGTTAGTGGCTTCGATCTGCTTCACTGCAA
3287692 CTTCAGGAAGATAAG
1 CTTCAGGAAGATAAG
3287707 ATTTGTCGAA
Statistics
Matches: 147, Mismatches: 37, Indels: 18
0.73 0.18 0.09
Matches are distributed among these distances:
43 6 0.04
44 74 0.50
45 64 0.44
46 3 0.02
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.30
Consensus pattern (44 bp):
CTTCAGGAAGATAAGGTTAGTGGCTTCGATCTGCTTCACTGCAA
Found at i:3287574 original size:89 final size:89
Alignment explanation
Indices: 3287470--3287709 Score: 390
Period size: 89 Copynumber: 2.7 Consensus size: 89
3287460 TCCATCGTAT
* *
3287470 CTTCAGGGAAATAAGGTTAGTGGCTTCGATCTACTTCACTGCAACTTCAGAAAGATAAGATTCGC
1 CTTCAGGGAGATAAGGTTAGTGGCTTCGATCTACTTCACTGCAACTTCAGGAAGATAAGATTCGC
3287535 CATCTTCAGTCTGCTCCACTGCAA
66 CATCTTCAGTCTGCTCCACTGCAA
* * *
3287559 CTTCAGGGAGATAAGGTTACTGGCTTCGATCTATTTCATTGCAACTTCAGGAAGATAAGATTCGC
1 CTTCAGGGAGATAAGGTTAGTGGCTTCGATCTACTTCACTGCAACTTCAGGAAGATAAGATTCGC
*
3287624 CATCTTCAGTCTGCTTCACTGCAA
66 CATCTTCAGTCTGCTCCACTGCAA
* * * *
3287648 CTTCAAGGAGATAAGGTTAGTGGTTTCGATCTGCTTCACTACAACTTCAGGAAGATAAGATT
1 CTTCAGGGAGATAAGGTTAGTGGCTTCGATCTACTTCACTGCAACTTCAGGAAGATAAGATT
3287710 TGTCGAAATT
Statistics
Matches: 138, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
89 138 1.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (89 bp):
CTTCAGGGAGATAAGGTTAGTGGCTTCGATCTACTTCACTGCAACTTCAGGAAGATAAGATTCGC
CATCTTCAGTCTGCTCCACTGCAA
Found at i:3289436 original size:61 final size:61
Alignment explanation
Indices: 3289341--3289462 Score: 244
Period size: 61 Copynumber: 2.0 Consensus size: 61
3289331 AGTACGTTGA
3289341 AGCATATTATCCTCCTATTTATGGGTTAAGAAAATATATATGTAGAAGCCCAAATTAGCCC
1 AGCATATTATCCTCCTATTTATGGGTTAAGAAAATATATATGTAGAAGCCCAAATTAGCCC
3289402 AGCATATTATCCTCCTATTTATGGGTTAAGAAAATATATATGTAGAAGCCCAAATTAGCCC
1 AGCATATTATCCTCCTATTTATGGGTTAAGAAAATATATATGTAGAAGCCCAAATTAGCCC
3289463 GGGCCTTTTA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (61 bp):
AGCATATTATCCTCCTATTTATGGGTTAAGAAAATATATATGTAGAAGCCCAAATTAGCCC
Found at i:3289510 original size:20 final size:20
Alignment explanation
Indices: 3289474--3289516 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
3289464 GGCCTTTTAC
*
3289474 AAAAATAAACCATTACAACT
1 AAAAATAAACCATTACAAAT
*
3289494 AAAATTAAACCCA-TACAAAT
1 AAAAATAAA-CCATTACAAAT
3289514 AAA
1 AAA
3289517 CCCAAAACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 17 0.85
21 3 0.15
ACGTcount: A:0.63, C:0.19, G:0.00, T:0.19
Consensus pattern (20 bp):
AAAAATAAACCATTACAAAT
Found at i:3290737 original size:21 final size:20
Alignment explanation
Indices: 3290684--3290737 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
3290674 ATTAATATTA
* *
3290684 GTATATGTTTTATTATATAT
1 GTATATATTTAATTATATAT
*
3290704 GTATAAATCTTTAATATATATAT
1 GTAT--ATATTTAAT-TATATAT
3290727 GTATATATTTA
1 GTATATATTTA
3290738 TGTAGTATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 4 0.14
21 6 0.21
22 7 0.25
23 11 0.39
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.54
Consensus pattern (20 bp):
GTATATATTTAATTATATAT
Found at i:3290827 original size:24 final size:24
Alignment explanation
Indices: 3290784--3290846 Score: 76
Period size: 24 Copynumber: 2.6 Consensus size: 24
3290774 TTCTAATATG
3290784 TATATATTATGTA-A-ATATTTTAA
1 TATATATTATGTATACAT-TTTTAA
*
3290807 TACTATATTATGTATACATTTTTTA
1 TA-TATATTATGTATACATTTTTAA
*
3290832 TATATATTACGTATA
1 TATATATTATGTATA
3290847 TATATCTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
23 2 0.06
24 23 0.66
25 8 0.23
26 2 0.06
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.52
Consensus pattern (24 bp):
TATATATTATGTATACATTTTTAA
Found at i:3290877 original size:11 final size:11
Alignment explanation
Indices: 3290784--3290944 Score: 54
Period size: 13 Copynumber: 12.9 Consensus size: 11
3290774 TTCTAATATG
* *
3290784 TATATATTATG
1 TATATATTTTA
*
3290795 TAAATATTTTAA
1 TATATATTTT-A
3290807 TACTATATTATGTA
1 TA-TATATT-T-TA
* *
3290821 TACATTTTTTA
1 TATATATTTTA
3290832 TATATATTACGTATA
1 TATATATT---T-TA
*
3290847 TATATCTTTTTAA
1 TATAT-ATTTT-A
3290860 TATTATATTTTA
1 TA-TATATTTTA
*
3290872 TATATATCATGTA
1 TATATAT--TTTA
3290885 TATAT-TTTTAA
1 TATATATTTT-A
3290896 TACTATATTATTTA
1 TA-TATA-T-TTTA
3290910 TATATATTTTA
1 TATATATTTTA
* *
3290921 CATATTATCTTATG
1 TATA-TAT-TT-TA
3290935 TATATATTTT
1 TATATATTTT
3290945 TTAATAACTA
Statistics
Matches: 114, Mismatches: 15, Indels: 42
0.67 0.09 0.25
Matches are distributed among these distances:
10 2 0.02
11 32 0.28
12 17 0.15
13 34 0.30
14 16 0.14
15 11 0.10
16 2 0.02
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (11 bp):
TATATATTTTA
Found at i:3290887 original size:25 final size:24
Alignment explanation
Indices: 3290863--3290973 Score: 82
Period size: 27 Copynumber: 4.4 Consensus size: 24
3290853 TTTTTAATAT
3290863 TATATTTTATATATATCATGTATA
1 TATATTTTATATATATCATGTATA
* *
3290887 TAT-TTTTAATACTATATTATTTATA
1 TATATTTT-ATA-TATATCATGTATA
*
3290912 TATATTTTACATATTATCTTATGTATA
1 TATATTTTATATA-TATC--ATGTATA
* * *
3290939 TATTTTTTAATAACTATATTATGTATG
1 TATATTTT-AT-A-TATATCATGTATA
3290966 TAT-TTTTA
1 TATATTTTA
3290974 ACGCTATATT
Statistics
Matches: 69, Mismatches: 9, Indels: 17
0.73 0.09 0.18
Matches are distributed among these distances:
23 4 0.06
24 8 0.12
25 20 0.29
26 8 0.12
27 22 0.32
28 1 0.01
29 4 0.06
30 2 0.03
ACGTcount: A:0.34, C:0.05, G:0.04, T:0.58
Consensus pattern (24 bp):
TATATTTTATATATATCATGTATA
Found at i:3290887 original size:38 final size:38
Alignment explanation
Indices: 3290826--3290916 Score: 105
Period size: 36 Copynumber: 2.3 Consensus size: 38
3290816 ATGTATACAT
* *
3290826 TTTTTATATATATTACGTATATATATCTTTTTAATATTATA
1 TTTTTATATATA-TAC--ATATATATATTTTTAATACTATA
*
3290867 -TTTTATATATAT-CATGTATATATTTTTAATACTATA
1 TTTTTATATATATACATATATATATTTTTAATACTATA
3290903 TTATTTATATATAT
1 TT-TTTATATATAT
3290917 TTTACATATT
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
36 20 0.44
37 1 0.02
38 12 0.27
39 1 0.02
40 11 0.24
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.58
Consensus pattern (38 bp):
TTTTTATATATATACATATATATATTTTTAATACTATA
Found at i:3290904 original size:14 final size:12
Alignment explanation
Indices: 3290798--3290919 Score: 61
Period size: 13 Copynumber: 9.6 Consensus size: 12
3290788 TATTATGTAA
*
3290798 ATATTTTAATACT
1 ATATTTTTATA-T
* *
3290811 ATATTATGTATAC
1 ATATT-TTTATAT
3290824 AT-TTTTTATAT
1 ATATTTTTATAT
**
3290835 ATATTACGTATAT
1 ATATT-TTTATAT
3290848 ATATCTTTT-TAAT
1 ATAT-TTTTAT-AT
3290861 ATTATATTTTATAT
1 A-TAT-TTTTATAT
* *
3290875 ATATCATGTATAT
1 ATAT-TTTTATAT
*
3290888 AT-TTTTAATACT
1 ATATTTTTATA-T
3290900 ATATTATTTATAT
1 ATATT-TTTATAT
3290913 ATATTTT
1 ATATTTT
3290920 ACATATTATC
Statistics
Matches: 82, Mismatches: 17, Indels: 21
0.68 0.14 0.17
Matches are distributed among these distances:
11 11 0.13
12 11 0.13
13 39 0.48
14 20 0.24
15 1 0.01
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.57
Consensus pattern (12 bp):
ATATTTTTATAT
Found at i:3290926 original size:36 final size:35
Alignment explanation
Indices: 3290853--3290926 Score: 87
Period size: 36 Copynumber: 2.1 Consensus size: 35
3290843 TATATATATC
* *
3290853 TTTTTAATATTATATTTTATATATATCATGTATATA
1 TTTTTAATACTATATTTTATATATAT-ATGTACATA
*
3290889 TTTTTAATACTATATTATT-TATATATATTTTACATA
1 TTTTTAATACTATATT-TTATATATATA-TGTACATA
3290925 TT
1 TT
3290927 ATCTTATGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
35 1 0.03
36 30 0.91
37 2 0.06
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.59
Consensus pattern (35 bp):
TTTTTAATACTATATTTTATATATATATGTACATA
Found at i:3290936 original size:52 final size:50
Alignment explanation
Indices: 3290863--3291005 Score: 157
Period size: 52 Copynumber: 2.8 Consensus size: 50
3290853 TTTTTAATAT
*
3290863 TATATTTTATATATATC--ATGTATATATTTTTAATACTATATTATTTATA
1 TATATTTTA-ATATATCTTATGTATATATTTTTAATACTATATTATGTATA
*
3290912 TATATTTTACATATTATCTTATGTATATATTTTTTAATAACTATATTATGTATG
1 TATATTTTA-ATA-TATCTTATGTATATA-TTTTTAAT-ACTATATTATGTATA
** * *
3290966 TAT-TTTTAACGCTATATTATGTACATATTTTTAATACTAT
1 TATATTTTAA-TATATCTTATGTATATATTTTTAATACTAT
3291006 GTATATACTT
Statistics
Matches: 81, Mismatches: 7, Indels: 11
0.82 0.07 0.11
Matches are distributed among these distances:
49 12 0.15
50 9 0.11
51 8 0.10
52 23 0.28
53 13 0.16
54 16 0.20
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.55
Consensus pattern (50 bp):
TATATTTTAATATATCTTATGTATATATTTTTAATACTATATTATGTATA
Found at i:3290980 original size:25 final size:25
Alignment explanation
Indices: 3290863--3291060 Score: 157
Period size: 25 Copynumber: 8.1 Consensus size: 25
3290853 TTTTTAATAT
*
3290863 TATA-TTTT-ATA-TATATCATGTA
1 TATATTTTTAATACTATATTATGTA
*
3290885 TATATTTTTAATACTATATTATTTA
1 TATATTTTTAATACTATATTATGTA
* *
3290910 TATATATTTTACATATTATCTTATGTA
1 TATAT-TTTTA-ATACTATATTATGTA
3290937 TATATTTTTTAATAACTATATTATGTA
1 TATA-TTTTTAAT-ACTATATTATGTA
* **
3290964 TGTATTTTTAACGCTATATTATGTA
1 TATATTTTTAATACTATATTATGTA
*
3290989 CATATTTTTAATAC-----TATGTA
1 TATATTTTTAATACTATATTATGTA
* * **
3291009 TATACTTTTTATTCCTATTATTACATA
1 TATA-TTTTTAATACTA-TATTATGTA
3291036 TATA-TTTTAATAC-ATA-TATGTA
1 TATATTTTTAATACTATATTATGTA
3291058 TAT
1 TAT
3291061 TATTATTAGT
Statistics
Matches: 139, Mismatches: 23, Indels: 28
0.73 0.12 0.15
Matches are distributed among these distances:
20 9 0.06
21 8 0.06
22 11 0.08
23 6 0.04
24 4 0.03
25 43 0.31
26 14 0.10
27 43 0.31
28 1 0.01
ACGTcount: A:0.34, C:0.07, G:0.04, T:0.55
Consensus pattern (25 bp):
TATATTTTTAATACTATATTATGTA
Found at i:3293609 original size:6 final size:7
Alignment explanation
Indices: 3293594--3293618 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
3293584 CATATTGTCA
3293594 TTTTCTT
1 TTTTCTT
3293601 TTTTCTT
1 TTTTCTT
3293608 TTTTCTT
1 TTTTCTT
3293615 TTTT
1 TTTT
3293619 AACTTTTATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTCTT
Found at i:3293861 original size:61 final size:61
Alignment explanation
Indices: 3293789--3293918 Score: 190
Period size: 61 Copynumber: 2.1 Consensus size: 61
3293779 CCTTTTTTTA
* * *
3293789 ATTTTAAAATTAGAACTAGATTGATAAATTTTATAAATATTGAGGGATAAATTTATTTAAAT
1 ATTTTAGAATTAGAACTAAAATGATAAATTTTATAAATATTGAGGGATAAATTT-TTTAAAT
* * *
3293851 -TTTTAGAATTAGAACTAAAATGATAAATTTTGTAAATATTGAGGGCTAAATTTTTTGAAT
1 ATTTTAGAATTAGAACTAAAATGATAAATTTTATAAATATTGAGGGATAAATTTTTTAAAT
3293911 ATTTTAGA
1 ATTTTAGA
3293919 TTTAAGATCG
Statistics
Matches: 61, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
60 6 0.10
61 55 0.90
ACGTcount: A:0.42, C:0.02, G:0.13, T:0.42
Consensus pattern (61 bp):
ATTTTAGAATTAGAACTAAAATGATAAATTTTATAAATATTGAGGGATAAATTTTTTAAAT
Found at i:3296828 original size:46 final size:46
Alignment explanation
Indices: 3296743--3296830 Score: 110
Period size: 46 Copynumber: 1.9 Consensus size: 46
3296733 TTAGGTTTTA
* *
3296743 TATATTAAATTATATATATATATTATAATGATTATTATTATAGTTT
1 TATATTAAATTATATATATATATTATAATAATAATTATTATAGTTT
3296789 TATATTAAATTAT-TATGAT-TATT-TAATTAATAATGTATTATA
1 TATATTAAATTATATAT-ATATATTATAA-TAATAAT-TATTATA
3296831 AATAAATTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
44 3 0.08
45 12 0.32
46 22 0.59
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (46 bp):
TATATTAAATTATATATATATATTATAATAATAATTATTATAGTTT
Found at i:3304217 original size:79 final size:79
Alignment explanation
Indices: 3304086--3304242 Score: 242
Period size: 79 Copynumber: 2.0 Consensus size: 79
3304076 AAGATGATGG
* * *
3304086 TTCACAGTAACCCTGGCTCAACCAGTAAGCTAGGTCAAACCAGAGATCAACCACCCAATGATCCG
1 TTCACAGTAACCCTGGCTCAACCAGTAAGCTAGGACAAACAAGAGATCAACCACCCAAAGATCCG
3304151 GACCCGAAGTAGCA
66 GACCCGAAGTAGCA
* * * * *
3304165 TTCACAGTATCCCTGGCTCACCCAGTAAGTTAGGACGAACAAGAGATGAACCACCCAAAGATCCG
1 TTCACAGTAACCCTGGCTCAACCAGTAAGCTAGGACAAACAAGAGATCAACCACCCAAAGATCCG
3304230 GACCCGAAGTAGC
66 GACCCGAAGTAGC
3304243 CAAACCAGCT
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
79 70 1.00
ACGTcount: A:0.34, C:0.31, G:0.20, T:0.15
Consensus pattern (79 bp):
TTCACAGTAACCCTGGCTCAACCAGTAAGCTAGGACAAACAAGAGATCAACCACCCAAAGATCCG
GACCCGAAGTAGCA
Found at i:3310243 original size:17 final size:18
Alignment explanation
Indices: 3310210--3310244 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
3310200 TAAAAAATGA
3310210 TTAGGTCTAATTATGATT
1 TTAGGTCTAATTATGATT
*
3310228 TTAGTTCTAA-TATGATT
1 TTAGGTCTAATTATGATT
3310245 AAATTTAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.29, C:0.06, G:0.14, T:0.51
Consensus pattern (18 bp):
TTAGGTCTAATTATGATT
Found at i:3311077 original size:14 final size:14
Alignment explanation
Indices: 3311058--3311101 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
3311048 AACACTCGAC
3311058 GATTGGTTATAGAT
1 GATTGGTTATAGAT
3311072 GATTGGTTAT--A-
1 GATTGGTTATAGAT
3311083 GA-TGGTTATAGAT
1 GATTGGTTATAGAT
3311096 GATTGG
1 GATTGG
3311102 GAGATTAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
10 7 0.27
11 2 0.08
12 2 0.08
13 2 0.08
14 13 0.50
ACGTcount: A:0.27, C:0.00, G:0.32, T:0.41
Consensus pattern (14 bp):
GATTGGTTATAGAT
Found at i:3320292 original size:31 final size:31
Alignment explanation
Indices: 3320257--3320318 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
3320247 AATGACTTAA
*
3320257 TAAATAAAAACTTCTCAATAGTTTAGTGACT
1 TAAATAAAAACTTCTCAATACTTTAGTGACT
* * *
3320288 TAAATGAAAACTTTTGAATACTTTAGTGACT
1 TAAATAAAAACTTCTCAATACTTTAGTGACT
3320319 ATTTTGTAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.37
Consensus pattern (31 bp):
TAAATAAAAACTTCTCAATACTTTAGTGACT
Found at i:3322178 original size:49 final size:49
Alignment explanation
Indices: 3322103--3322200 Score: 162
Period size: 49 Copynumber: 2.0 Consensus size: 49
3322093 CATGCAAACT
*
3322103 TATTAACTGATAATTAATGCGTACAATGGAGTG-TGTTGCTGTAAATTAG
1 TATTAACTGATAATTAATGCGCACAATGGAGTGCT-TTGCTGTAAATTAG
*
3322152 TATTAACTGCTAATTAATGCGCACAATGGAGTGCTTTGCTGTAAATTAG
1 TATTAACTGATAATTAATGCGCACAATGGAGTGCTTTGCTGTAAATTAG
3322201 AAGCCTAGAT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
49 45 0.98
50 1 0.02
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.36
Consensus pattern (49 bp):
TATTAACTGATAATTAATGCGCACAATGGAGTGCTTTGCTGTAAATTAG
Found at i:3328082 original size:4 final size:4
Alignment explanation
Indices: 3328075--3328101 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
3328065 TAACAGCTCT
3328075 TTTC TTTC TTTC TTTC TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTT
3328102 TTTTTTGGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTC
Found at i:3331196 original size:30 final size:31
Alignment explanation
Indices: 3331144--3331219 Score: 77
Period size: 30 Copynumber: 2.5 Consensus size: 31
3331134 TACCATTTAA
* *
3331144 AAAGTATATTTTTAT-AATTTTTAAAGGA-T
1 AAAGTAAAATTTTATCAATTTTTAAAGGACT
* *
3331173 TAAGTCAAAATTTTATCAA-TTTTAAGGGACT
1 AAAGT-AAAATTTTATCAATTTTTAAAGGACT
*
3331204 AAAGTATAATTTTATC
1 AAAGTAAAATTTTATC
3331220 TTTACTAATT
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
29 4 0.11
30 27 0.71
31 7 0.18
ACGTcount: A:0.41, C:0.05, G:0.11, T:0.43
Consensus pattern (31 bp):
AAAGTAAAATTTTATCAATTTTTAAAGGACT
Found at i:3332043 original size:5 final size:5
Alignment explanation
Indices: 3332033--3332067 Score: 56
Period size: 5 Copynumber: 7.4 Consensus size: 5
3332023 TTACGTGATA
3332033 AAAAT AAAAT AAAAT AAAAT AAAAT --AAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AA
3332068 TTATTTTGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 3 0.11
5 25 0.89
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:3332053 original size:15 final size:13
Alignment explanation
Indices: 3332033--3332067 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 13
3332023 TTACGTGATA
3332033 AAAATAAAATAAAAT
1 AAAATAAAAT--AAT
3332048 AAAATAAAATAAT
1 AAAATAAAATAAT
3332061 AAAATAA
1 AAAATAA
3332068 TTATTTTGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 10 0.50
15 10 0.50
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
AAAATAAAATAAT
Found at i:3341133 original size:85 final size:85
Alignment explanation
Indices: 3341033--3341203 Score: 297
Period size: 85 Copynumber: 2.0 Consensus size: 85
3341023 CTATTAGATA
* *
3341033 TATGATGAAATTTTTTTATGTTAAGCTTATACCTATGTTATCTAAGTTTCGTATAGAAGCTTTAT
1 TATGATGAAATTTTTTTATGTTAAGCTTATACCTATGTCATCTAAGTTTCATATAGAAGCTTTAT
3341098 CCTTTACCCCAAACAAATCT
66 CCTTTACCCCAAACAAATCT
* *
3341118 TATGATGAAATTTTTTTATGTTCAGCTTGTACCTATGTCATCTAAGTTTCATATAGAAGCTTTAT
1 TATGATGAAATTTTTTTATGTTAAGCTTATACCTATGTCATCTAAGTTTCATATAGAAGCTTTAT
*
3341183 CCTTTACCCCGAACAAATCT
66 CCTTTACCCCAAACAAATCT
3341203 T
1 T
3341204 GTCATAAGAA
Statistics
Matches: 81, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
85 81 1.00
ACGTcount: A:0.29, C:0.18, G:0.11, T:0.42
Consensus pattern (85 bp):
TATGATGAAATTTTTTTATGTTAAGCTTATACCTATGTCATCTAAGTTTCATATAGAAGCTTTAT
CCTTTACCCCAAACAAATCT
Found at i:3349202 original size:21 final size:23
Alignment explanation
Indices: 3349164--3349205 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
3349154 TGTTTTTTTC
3349164 TTTTAATCTAAGTGAAAATATTT
1 TTTTAATCTAAGTGAAAATATTT
*
3349187 TTTTAATTTAA-T-AAAATAT
1 TTTTAATCTAAGTGAAAATAT
3349206 CATGTCAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 1 0.06
23 10 0.56
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (23 bp):
TTTTAATCTAAGTGAAAATATTT
Found at i:3355233 original size:21 final size:21
Alignment explanation
Indices: 3355209--3355279 Score: 65
Period size: 21 Copynumber: 3.5 Consensus size: 21
3355199 TTTCAATATT
*
3355209 TATTTTATATATATATGTAAA
1 TATTATATATATATATGTAAA
* * *
3355230 TATTATGTATATATTTTTAAA
1 TATTATATATATATATGTAAA
* * *
3355251 TACTATAT-TGTATATGTATA
1 TATTATATATATATATGTAAA
3355271 TA-TATATAT
1 TATTATATAT
3355280 TCTTAGTACT
Statistics
Matches: 39, Mismatches: 10, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
19 5 0.13
20 11 0.28
21 23 0.59
ACGTcount: A:0.39, C:0.01, G:0.06, T:0.54
Consensus pattern (21 bp):
TATTATATATATATATGTAAA
Found at i:3355258 original size:36 final size:36
Alignment explanation
Indices: 3355218--3355320 Score: 111
Period size: 36 Copynumber: 2.9 Consensus size: 36
3355208 TTATTTTATA
*
3355218 TATATATGTAAATATTATGTATATATTTTTAAATAC
1 TATATATGTATATATTATGTATATATTTTTAAATAC
* * * *
3355254 TATAT-TGTATATGTATATATATATATTCTT-AGTAC
1 TATATATGTATATAT-TATGTATATATTTTTAAATAC
* *
3355289 TATATTACGTATATATTATGTATATATATTTA
1 TATA-TATGTATATATTATGTATATATTTTTA
3355321 TTTTTACCCC
Statistics
Matches: 53, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
35 15 0.28
36 31 0.58
37 7 0.13
ACGTcount: A:0.38, C:0.04, G:0.07, T:0.51
Consensus pattern (36 bp):
TATATATGTATATATTATGTATATATTTTTAAATAC
Found at i:3355313 original size:38 final size:36
Alignment explanation
Indices: 3355244--3355319 Score: 84
Period size: 38 Copynumber: 2.1 Consensus size: 36
3355234 ATGTATATAT
* *
3355244 TTTTAAATACTATATTGTATAT-GTATATATATATA
1 TTTTAAATACTATATTGTATATATTATGTATATATA
*
3355279 TTCTT-AGTACTATATTACGTATATATTATGTATATATA
1 TT-TTAAATACTATATT--GTATATATTATGTATATATA
3355317 TTT
1 TTT
3355320 ATTTTTACCC
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
35 12 0.35
36 2 0.06
37 7 0.21
38 13 0.38
ACGTcount: A:0.36, C:0.05, G:0.07, T:0.53
Consensus pattern (36 bp):
TTTTAAATACTATATTGTATATATTATGTATATATA
Found at i:3356184 original size:109 final size:108
Alignment explanation
Indices: 3356053--3356267 Score: 412
Period size: 109 Copynumber: 2.0 Consensus size: 108
3356043 AAAGGATCGG
*
3356053 TGGCGACTCCCTATTTATTTCAAAATCAAACGTCAAATTTCAAACTTTTTTCCATAAATCGCCAC
1 TGGCGACTCCCTATTTATTTCAAAATCAAACGTCAAATTTCAAACTTTTTTCCATAAATCACCAC
3356118 AATTAGCGACCAAGCTACGCTAAAATTTTTACGTCGCTACAGC
66 AATTAGCGACCAAGCTACGCTAAAATTTTTACGTCGCTACAGC
3356161 TGGCGACTCCACTATTTATTTCAAAATCAAACGTCAAATTTCAAACTTTTTTCCATAAATCACCA
1 TGGCGACTCC-CTATTTATTTCAAAATCAAACGTCAAATTTCAAACTTTTTTCCATAAATCACCA
3356226 CAATTAGCGACCAAGCTACGCTAAAATTTTTACGTCGCTACA
65 CAATTAGCGACCAAGCTACGCTAAAATTTTTACGTCGCTACA
3356268 CAAACAATCC
Statistics
Matches: 105, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
108 10 0.10
109 95 0.90
ACGTcount: A:0.33, C:0.26, G:0.10, T:0.31
Consensus pattern (108 bp):
TGGCGACTCCCTATTTATTTCAAAATCAAACGTCAAATTTCAAACTTTTTTCCATAAATCACCAC
AATTAGCGACCAAGCTACGCTAAAATTTTTACGTCGCTACAGC
Found at i:3357252 original size:22 final size:22
Alignment explanation
Indices: 3357227--3357270 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
3357217 TCCGCCAAAG
3357227 TTAAATAAGTGTGGTCAAGCCA
1 TTAAATAAGTGTGGTCAAGCCA
3357249 TTAAATAAGTGTGGTCAAGCCA
1 TTAAATAAGTGTGGTCAAGCCA
3357271 CCAGAATTGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (22 bp):
TTAAATAAGTGTGGTCAAGCCA
Found at i:3362468 original size:4 final size:4
Alignment explanation
Indices: 3362459--3362518 Score: 57
Period size: 4 Copynumber: 15.0 Consensus size: 4
3362449 TAGGTAGCAT
* * * * * *
3362459 CATA CATA CATG CTTA CGTA CATG CATA CATA CATA CATA CATG CATG
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
3362507 CATA TATA CATA
1 CATA CATA CATA
3362519 TATATATGTA
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
4 45 1.00
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.28
Consensus pattern (4 bp):
CATA
Found at i:3362482 original size:12 final size:12
Alignment explanation
Indices: 3362459--3362517 Score: 73
Period size: 12 Copynumber: 4.9 Consensus size: 12
3362449 TAGGTAGCAT
3362459 CATACATACATG
1 CATACATACATG
* *
3362471 CTTACGTACATG
1 CATACATACATG
*
3362483 CATACATACATA
1 CATACATACATG
*
3362495 CATACATGCATG
1 CATACATACATG
*
3362507 CATATATACAT
1 CATACATACAT
3362518 ATATATATGT
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 38 1.00
ACGTcount: A:0.39, C:0.24, G:0.08, T:0.29
Consensus pattern (12 bp):
CATACATACATG
Found at i:3362510 original size:20 final size:20
Alignment explanation
Indices: 3362463--3362518 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
3362453 TAGCATCATA
* * *
3362463 CATACATGCTTACGTACATG
1 CATACATACATACATACATG
3362483 CATACATACATACATACATG
1 CATACATACATACATACATG
* *
3362503 CATGCATATATACATA
1 CATACATACATACATA
3362519 TATATATGTA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.29
Consensus pattern (20 bp):
CATACATACATACATACATG
Found at i:3366163 original size:19 final size:17
Alignment explanation
Indices: 3366131--3366174 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
3366121 ATAAATATTT
3366131 TTAAAATAAAATAATAA
1 TTAAAATAAAATAATAA
3366148 TTAATAATAAATATAATAA
1 TTAA-AATAAA-ATAATAA
*
3366167 TTTAAATA
1 TTAAAATA
3366175 TGTTTTAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 4 0.17
18 10 0.42
19 10 0.42
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
TTAAAATAAAATAATAA
Found at i:3368560 original size:53 final size:53
Alignment explanation
Indices: 3368500--3368608 Score: 218
Period size: 53 Copynumber: 2.1 Consensus size: 53
3368490 TTACGTCTTA
3368500 TTGCTCTTTGCAATGTTCTCTATAAAATTGTAGCCAAAGTTCTTGCCAATAGG
1 TTGCTCTTTGCAATGTTCTCTATAAAATTGTAGCCAAAGTTCTTGCCAATAGG
3368553 TTGCTCTTTGCAATGTTCTCTATAAAATTGTAGCCAAAGTTCTTGCCAATAGG
1 TTGCTCTTTGCAATGTTCTCTATAAAATTGTAGCCAAAGTTCTTGCCAATAGG
3368606 TTG
1 TTG
3368609 AAAGCTATTT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 56 1.00
ACGTcount: A:0.26, C:0.18, G:0.17, T:0.39
Consensus pattern (53 bp):
TTGCTCTTTGCAATGTTCTCTATAAAATTGTAGCCAAAGTTCTTGCCAATAGG
Found at i:3373767 original size:17 final size:17
Alignment explanation
Indices: 3373745--3373780 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
3373735 CTAATTTATT
*
3373745 TGAGCCTTAATTACTTA
1 TGAGCCCTAATTACTTA
3373762 TGAGCCCTAATTACTTA
1 TGAGCCCTAATTACTTA
3373779 TG
1 TG
3373781 TTCAATCATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.39
Consensus pattern (17 bp):
TGAGCCCTAATTACTTA
Found at i:3374550 original size:22 final size:22
Alignment explanation
Indices: 3374525--3374570 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
3374515 GATGAAGGAA
3374525 AAAGAATTAAACGCGACCTTTG
1 AAAGAATTAAACGCGACCTTTG
3374547 AAAGAATTAAACGCGACCTTTG
1 AAAGAATTAAACGCGACCTTTG
3374569 AA
1 AA
3374571 GTGATTTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.43, C:0.17, G:0.17, T:0.22
Consensus pattern (22 bp):
AAAGAATTAAACGCGACCTTTG
Found at i:3374830 original size:27 final size:26
Alignment explanation
Indices: 3374760--3374978 Score: 216
Period size: 26 Copynumber: 8.6 Consensus size: 26
3374750 AAACGAAACA
* *
3374760 AAATAATATATAAAACAATTTGAAGT
1 AAATAATATATAAAACAATTTAAAAT
* *
3374786 AAAT-A-GTACAAAACAATTTAAAAT
1 AAATAATATATAAAACAATTTAAAAT
* *
3374810 AAATAATATGTAAAACAAATTAAAAT
1 AAATAATATATAAAACAATTTAAAAT
* *
3374836 AAATAATATACAAAGCAATTTAAAAT
1 AAATAATATATAAAACAATTTAAAAT
* *
3374862 AAATAATATATAAGACACTTT---A-
1 AAATAATATATAAAACAATTTAAAAT
* * * *
3374884 CAATAACATATAAAAGAATTTAAGAT
1 AAATAATATATAAAACAATTTAAAAT
*
3374910 AAATAATATATAAAATAAATTTAAAAT
1 AAATAATATATAAAA-CAATTTAAAAT
* *
3374937 AAATAATATACAAAACAGTTTAAAAAT
1 AAATAATATATAAAACAATTT-AAAAT
*
3374964 AAATGATATATAAAA
1 AAATAATATATAAAA
3374979 AAAAACCAAT
Statistics
Matches: 155, Mismatches: 30, Indels: 15
0.77 0.15 0.08
Matches are distributed among these distances:
22 16 0.10
23 1 0.01
24 19 0.12
25 3 0.02
26 75 0.48
27 41 0.26
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (26 bp):
AAATAATATATAAAACAATTTAAAAT
Found at i:3374904 original size:48 final size:50
Alignment explanation
Indices: 3374760--3375126 Score: 255
Period size: 50 Copynumber: 7.2 Consensus size: 50
3374750 AAACGAAACA
* * * * * *
3374760 AAATAATATATAAAACAATTTGAAGTAAATAGTACAAAACAATTTAAAAT
1 AAATAATATATAAAACAAATTAAAATAAATAATATAAAAGAATTTAAAAT
*
3374810 AAATAATATGTAAAACAAATTAAAATAAATAATATACAAAGCAATTTAAAAT
1 AAATAATATATAAAACAAATTAAAATAAATAATATA-AAAG-AATTTAAAAT
* ** * * *
3374862 AAATAATATATAAGACACTTTACAAT-AA-CATATAAAAGAATTTAAGAT
1 AAATAATATATAAAACAAATTAAAATAAATAATATAAAAGAATTTAAAAT
*
3374910 AAATAATATATAAAATAAATTTAAAATAAATAATATACAAA-ACAGTTTAAAAAT
1 AAATAATATATAAAACAAA-TTAAAATAAATAATATA-AAAGA-A-TTT-AAAAT
* * *** * * *
3374964 AAATGATATATAAAAAAAAACCAATTCAA-AATGAATAATAG--TTTAAAAT
1 AAATAATATATAAAACAAATTAAAATAAATAAT--ATAAAAGAATTTAAAAT
* * * * * *
3375013 AAATTATATATAAAA-AAATTTAAAATGGATAATACTTTGAAATAGTTTAAAAT
1 AAATAATATATAAAACAAA-TTAAAAT--A-AATAATATAAAAGAATTTAAAAT
* * * * *
3375066 ATATAATATGTGAAA-AACTTAAAATAAATAATAATAAAACAATTTAAAAT
1 AAATAATATATAAAACAAATTAAAATAAATAAT-ATAAAAGAATTTAAAAT
3375116 AAATAATATAT
1 AAATAATATAT
3375127 GAGACAAAAG
Statistics
Matches: 245, Mismatches: 52, Indels: 40
0.73 0.15 0.12
Matches are distributed among these distances:
48 27 0.11
49 37 0.15
50 63 0.26
51 14 0.06
52 47 0.19
53 33 0.13
54 24 0.10
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.30
Consensus pattern (50 bp):
AAATAATATATAAAACAAATTAAAATAAATAATATAAAAGAATTTAAAAT
Found at i:3375038 original size:26 final size:26
Alignment explanation
Indices: 3375005--3375126 Score: 113
Period size: 25 Copynumber: 4.7 Consensus size: 26
3374995 TGAATAATAG
* *
3375005 TTTAAAATAAATTATATATAAAAAAA
1 TTTAAAATAAATAATATATAAAACAA
** * * * *
3375031 TTTAAAATGGATAATACTTTGAAATAG
1 TTTAAAATAAATAATA-TATAAAACAA
* * *
3375058 TTTAAAATATATAATATGTGAAA-AA
1 TTTAAAATAAATAATATATAAAACAA
*
3375083 CTTAAAATAAATAATA-ATAAAACAA
1 TTTAAAATAAATAATATATAAAACAA
3375108 TTTAAAATAAATAATATAT
1 TTTAAAATAAATAATATAT
3375127 GAGACAAAAG
Statistics
Matches: 77, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
24 4 0.05
25 32 0.42
26 21 0.27
27 20 0.26
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.34
Consensus pattern (26 bp):
TTTAAAATAAATAATATATAAAACAA
Found at i:3376363 original size:19 final size:21
Alignment explanation
Indices: 3376327--3376365 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
3376317 TGGACTAGGG
*
3376327 TTAGTTTTGGGTTATTGGGTT
1 TTAGTTTTGGGATATTGGGTT
3376348 TTAG-TTTGGGAT-TTGGGT
1 TTAGTTTTGGGATATTGGGT
3376366 CTGGTATGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 7 0.41
21 4 0.24
ACGTcount: A:0.10, C:0.00, G:0.36, T:0.54
Consensus pattern (21 bp):
TTAGTTTTGGGATATTGGGTT
Found at i:3387019 original size:17 final size:17
Alignment explanation
Indices: 3386997--3387034 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
3386987 TATTTTATAA
*
3386997 TATAATTGTATTGTACT
1 TATAATTATATTGTACT
*
3387014 TATAATTATATTGTATT
1 TATAATTATATTGTACT
3387031 TATA
1 TATA
3387035 CTTGCTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.34, C:0.03, G:0.08, T:0.55
Consensus pattern (17 bp):
TATAATTATATTGTACT
Found at i:3391359 original size:14 final size:14
Alignment explanation
Indices: 3391324--3391364 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
3391314 CCTCAAATGC
* *
3391324 ATATATATATATAT
1 ATATATAAATTTAT
3391338 ATATATAAATTTAT
1 ATATATAAATTTAT
*
3391352 TTATATAAATTTA
1 ATATATAAATTTA
3391365 GTGAGTGCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
ATATATAAATTTAT
Found at i:3408525 original size:21 final size:22
Alignment explanation
Indices: 3408499--3408543 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
3408489 TGATATTACA
3408499 TTATTATTATTTT-CTTTCTAT
1 TTATTATTATTTTCCTTTCTAT
* *
3408520 TTATTATTTTTTTCCTTTTTAT
1 TTATTATTATTTTCCTTTCTAT
3408542 TT
1 TT
3408544 TATTTTCGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.76
Consensus pattern (22 bp):
TTATTATTATTTTCCTTTCTAT
Found at i:3409263 original size:15 final size:14
Alignment explanation
Indices: 3409237--3409272 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 14
3409227 TATATTTTTG
3409237 TTATACTTATATATA
1 TTATA-TTATATATA
3409252 TGTATATTATATATA
1 T-TATATTATATATA
3409267 TTATAT
1 TTATAT
3409273 AGTATTATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 5 0.25
15 11 0.55
16 4 0.20
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.56
Consensus pattern (14 bp):
TTATATTATATATA
Found at i:3409431 original size:12 final size:12
Alignment explanation
Indices: 3409414--3409470 Score: 53
Period size: 12 Copynumber: 4.5 Consensus size: 12
3409404 TTTTAAATAC
3409414 TATGTATATATG
1 TATGTATATATG
*
3409426 TATGTATATATT
1 TATGTATATATG
3409438 TA-GATATTATATG
1 TATG-TA-TATATG
*
3409451 TATGATATTTATG
1 TATG-TATATATG
3409464 TTATGTA
1 -TATGTA
3409471 CATACTTTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
11 1 0.03
12 15 0.39
13 14 0.37
14 8 0.21
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (12 bp):
TATGTATATATG
Found at i:3409468 original size:14 final size:14
Alignment explanation
Indices: 3409420--3409464 Score: 53
Period size: 13 Copynumber: 3.5 Consensus size: 14
3409410 ATACTATGTA
3409420 TATATGTATG-TA-
1 TATATGTATGATAT
*
3409432 TATATTTA-GATAT
1 TATATGTATGATAT
3409445 TATATGTATGATAT
1 TATATGTATGATAT
3409459 T-TATGT
1 TATATGT
3409465 TATGTACATA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
11 1 0.04
12 9 0.32
13 12 0.43
14 6 0.21
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.53
Consensus pattern (14 bp):
TATATGTATGATAT
Found at i:3409732 original size:24 final size:24
Alignment explanation
Indices: 3409686--3409732 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
3409676 CTTTAATACT
* *
3409686 ATATCATTTTTATTTTTATTTTTC
1 ATATCATTCTTATGTTTATTTTTC
3409710 ATATCA-TCTTATGTTTATGTTTT
1 ATATCATTCTTATGTTTAT-TTTT
3409733 TCAAACTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.21, C:0.09, G:0.04, T:0.66
Consensus pattern (24 bp):
ATATCATTCTTATGTTTATTTTTC
Found at i:3409996 original size:3 final size:3
Alignment explanation
Indices: 3409988--3410035 Score: 62
Period size: 3 Copynumber: 16.3 Consensus size: 3
3409978 AATTTTACTT
* * *
3409988 TTA TTA TTA CTA CTA -TA TTA TTA TTA TCA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
3410035 T
1 T
3410036 CATATTTATA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
2 2 0.05
3 39 0.95
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:3410041 original size:35 final size:33
Alignment explanation
Indices: 3409955--3410041 Score: 81
Period size: 35 Copynumber: 2.5 Consensus size: 33
3409945 ATTAACGTAC
3409955 ATTATTATTATCA-ATTTACTATTAATTTTACTT
1 ATTATTATTATCATA-TTACTATTAATTTTACTT
*
3409988 -TTATTATTACTACTATATTATTATTATCATTATTA-TT
1 ATTATTATTA-T-C-ATATTACTATTA--ATT-TTACTT
3410025 ATTATTATTATCATATT
1 ATTATTATTATCATATT
3410042 TATACTTATA
Statistics
Matches: 45, Mismatches: 1, Indels: 14
0.75 0.02 0.23
Matches are distributed among these distances:
32 9 0.20
33 1 0.02
34 1 0.02
35 14 0.31
36 2 0.04
37 6 0.13
38 12 0.27
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.59
Consensus pattern (33 bp):
ATTATTATTATCATATTACTATTAATTTTACTT
Found at i:3410257 original size:3 final size:3
Alignment explanation
Indices: 3410249--3410302 Score: 60
Period size: 3 Copynumber: 18.3 Consensus size: 3
3410239 TATCTCTAAC
3410249 TAT TAT TAT TAT T-T TA- TAT ATAT TAT TAT CTA- TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT -TAT TAT TAT TAT TAT
*
3410293 TAC TAT TAT T
1 TAT TAT TAT T
3410303 CTTTATTGTC
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
2 6 0.14
3 33 0.75
4 5 0.11
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:3414804 original size:52 final size:52
Alignment explanation
Indices: 3414726--3414829 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
3414716 TATTCAAAAG
3414726 TTAGTTTATTCCAAGTCTCGATCAAGATGACAGACCCATTTTCTGTACTATC
1 TTAGTTTATTCCAAGTCTCGATCAAGATGACAGACCCATTTTCTGTACTATC
3414778 TTAGTTTATTCCAAGTCTCGATCAAGATGACAGACCCATTTTCTGTACTATC
1 TTAGTTTATTCCAAGTCTCGATCAAGATGACAGACCCATTTTCTGTACTATC
3414830 AATAGGATTA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.37
Consensus pattern (52 bp):
TTAGTTTATTCCAAGTCTCGATCAAGATGACAGACCCATTTTCTGTACTATC
Found at i:3423888 original size:25 final size:25
Alignment explanation
Indices: 3423859--3423909 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
3423849 GAGTAGGAGT
3423859 TCACCTACGTGGTGAAGCGAACCCA
1 TCACCTACGTGGTGAAGCGAACCCA
3423884 TCACCTACGTGGTGAAGCGAACCCA
1 TCACCTACGTGGTGAAGCGAACCCA
3423909 T
1 T
3423910 GTAGGCGAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.31, G:0.24, T:0.18
Consensus pattern (25 bp):
TCACCTACGTGGTGAAGCGAACCCA
Found at i:3429373 original size:21 final size:21
Alignment explanation
Indices: 3429347--3429387 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
3429337 AGACGAGCAA
* *
3429347 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
3429368 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
3429388 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:3440392 original size:61 final size:62
Alignment explanation
Indices: 3440295--3440475 Score: 179
Period size: 62 Copynumber: 2.9 Consensus size: 62
3440285 TTAATATAGT
* * *
3440295 AACAAAATTAGCCCTCTAATGTATAC-ACATTCTATCATTTT-GATCCTAAATAT-AAAAAATTC
1 AACAAATTTAGCCCTC-AATGTTTACAAAATT-TATCATTTTAG-TCCTAAATATAAAAAAATTC
** ** *
3440357 AACAAATTTAGCCCTCAATGTTTACAAAATTTATCATTTTAGTTGTACTTCTAAAAAAATTC
1 AACAAATTTAGCCCTCAATGTTTACAAAATTTATCATTTTAGTCCTAAATATAAAAAAATTC
* ** * * * *
3440419 AATAAATTTAGCCCTCAACATTTATAAAATTTATCACTTTAGTCCTAACTCTAAAAA
1 AACAAATTTAGCCCTCAATGTTTACAAAATTTATCATTTTAGTCCTAAATATAAAAA
3440476 TAAAAAAATA
Statistics
Matches: 99, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
61 22 0.22
62 77 0.78
ACGTcount: A:0.41, C:0.18, G:0.05, T:0.36
Consensus pattern (62 bp):
AACAAATTTAGCCCTCAATGTTTACAAAATTTATCATTTTAGTCCTAAATATAAAAAAATTC
Found at i:3441807 original size:2 final size:2
Alignment explanation
Indices: 3441800--3441833 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
3441790 AGAATTTCAG
3441800 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
3441834 ATGTGTGTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:3442916 original size:103 final size:104
Alignment explanation
Indices: 3442737--3442945 Score: 402
Period size: 103 Copynumber: 2.0 Consensus size: 104
3442727 TACCACATTC
3442737 AACCTCAATTTATCTAAACCCCTTATCTTAGCCCATAATTAGATATATATTGTAATTAATAATAA
1 AACCTCAATTTATCTAAACCCCTTATCTTAGCCCATAATTAGATATATATTGTAATTAATAATAA
*
3442802 GTGTTGGTTGCAGTAGTTAAACAAATTGCA-TTTTTAAA
66 GTGTTGGTTGCAGTAATTAAACAAATTGCATTTTTTAAA
3442840 AACCTCAATTTATCTAAACCCCTTATCTTAGCCCATAATTAGATATATATTGTAATTAATAATAA
1 AACCTCAATTTATCTAAACCCCTTATCTTAGCCCATAATTAGATATATATTGTAATTAATAATAA
3442905 GTGTTGGTTGCAGTAATTAAACAAATTGCATTTTTTAAA
66 GTGTTGGTTGCAGTAATTAAACAAATTGCATTTTTTAAA
3442944 AA
1 AA
3442946 GAATGCAGGT
Statistics
Matches: 104, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
103 94 0.90
104 10 0.10
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (104 bp):
AACCTCAATTTATCTAAACCCCTTATCTTAGCCCATAATTAGATATATATTGTAATTAATAATAA
GTGTTGGTTGCAGTAATTAAACAAATTGCATTTTTTAAA
Found at i:3451416 original size:26 final size:24
Alignment explanation
Indices: 3451372--3451421 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
3451362 ATTTGTTTTA
*
3451372 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
3451396 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTTAAAT
3451422 TTTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:3459055 original size:23 final size:23
Alignment explanation
Indices: 3459018--3459061 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
3459008 TTTTCATTTT
* * *
3459018 TTTTTATTTTTAAAAAGTTATAA
1 TTTTTATATTGAAAAAATTATAA
3459041 TTTTTATATTGAAAAAATTAT
1 TTTTTATATTGAAAAAATTAT
3459062 TTTTATGTAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (23 bp):
TTTTTATATTGAAAAAATTATAA
Found at i:3462673 original size:47 final size:47
Alignment explanation
Indices: 3462563--3462732 Score: 151
Period size: 45 Copynumber: 3.7 Consensus size: 47
3462553 GCCCCTAAGT
* * * **
3462563 GAACTCGGACTCAACTCAACGAGCTCGG--G-CGTTCGCATCCATAAAT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCC--AAGC
*
3462609 GAACTAGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACATCTC-A-C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCC-A-TTCACATC-CAAGC
* *
3462656 GAACTCGGACTCAACTCAACGAGTTCGGA---CATTCGCATCCATAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCCA-AGC
3462701 GAACTCGGACTCAACTCAACGAGTTCGGATGC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGC
3462733 TCAACCATCC
Statistics
Matches: 103, Mismatches: 8, Indels: 24
0.76 0.06 0.18
Matches are distributed among these distances:
42 3 0.03
43 5 0.05
44 2 0.02
45 29 0.28
46 26 0.25
47 28 0.27
48 2 0.02
49 1 0.01
50 4 0.04
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCCAAGC
Found at i:3462673 original size:93 final size:92
Alignment explanation
Indices: 3462563--3462732 Score: 286
Period size: 93 Copynumber: 1.8 Consensus size: 92
3462553 GCCCCTAAGT
* *
3462563 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTAGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCAT-AATGAACTAGGACTCAACTCAA
3462628 CGAGTTCGGATGCCTAGTTACATCTCAC
65 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
3462656 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAATGAACTAGGACTCAACTCAAC
3462721 GAGTTCGGATGC
66 GAGTTCGGATGC
3462733 TCAACCATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
92 33 0.46
93 39 0.54
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAATGAACTAGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:3468314 original size:93 final size:93
Alignment explanation
Indices: 3468207--3468377 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
3468197 GCCCCTAAGT
* *
3468207 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
3468272 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
3468300 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
3468365 CGAGTTCGGATGC
66 CGAGTTCGGATGC
3468378 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:3468374 original size:46 final size:46
Alignment explanation
Indices: 3468202--3468374 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
3468192 AACCCGCCCC
* * *
3468202 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
3468248 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
3468296 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
3468341 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
3468375 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:3471150 original size:19 final size:19
Alignment explanation
Indices: 3471113--3471153 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
3471103 TGTTTTCATA
* *
3471113 TTTTCTTTCCTTGGTTTTT
1 TTTTCTTTCCTTAGATTTT
*
3471132 TTTTCTTTCTTTAGATTTT
1 TTTTCTTTCCTTAGATTTT
3471151 TTT
1 TTT
3471154 ATTTTATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.05, C:0.12, G:0.07, T:0.76
Consensus pattern (19 bp):
TTTTCTTTCCTTAGATTTT
Found at i:3481288 original size:20 final size:21
Alignment explanation
Indices: 3481253--3481299 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
3481243 AAGCTAATTT
* *
3481253 AAAATT-TAAAAGTTATTAA-
1 AAAATTATAAAAATTATAAAC
3481272 AAAATTATAAAAATTATAAAC
1 AAAATTATAAAAATTATAAAC
3481293 AAAATTA
1 AAAATTA
3481300 CTAATTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 6 0.25
20 11 0.46
21 7 0.29
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (21 bp):
AAAATTATAAAAATTATAAAC
Found at i:3483815 original size:28 final size:28
Alignment explanation
Indices: 3483775--3483853 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
3483765 GCAATCAAAT
* * *
3483775 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
3483803 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
3483831 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
3483854 CGAATGATTC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:3486943 original size:30 final size:31
Alignment explanation
Indices: 3486899--3486972 Score: 89
Period size: 30 Copynumber: 2.4 Consensus size: 31
3486889 AGATGAGAGG
* *
3486899 TAATTTTATTTTATTTTATTTAA-TATTAATT
1 TAATTATATTTTA-TTTATATAATTATTAATT
* *
3486930 TAATTAT-TTTTATTTATATAATTTTTTATT
1 TAATTATATTTTATTTATATAATTATTAATT
3486960 TAATTATATTTTA
1 TAATTATATTTTA
3486973 ATGAGATAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
29 8 0.22
30 18 0.49
31 11 0.30
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (31 bp):
TAATTATATTTTATTTATATAATTATTAATT
Found at i:3486971 original size:15 final size:15
Alignment explanation
Indices: 3486899--3486972 Score: 62
Period size: 15 Copynumber: 4.9 Consensus size: 15
3486889 AGATGAGAGG
*
3486899 TAATTTTATTTTATT
1 TAATTATATTTTATT
* *
3486914 TTATT-TAATATTAATT
1 TAATTAT-AT-TTTATT
3486930 TAATTAT-TTTTATT
1 TAATTATATTTTATT
* *
3486944 TATATAATTTTTTATT
1 TA-ATTATATTTTATT
3486960 TAATTATATTTTA
1 TAATTATATTTTA
3486973 ATGAGATAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
14 8 0.17
15 20 0.43
16 18 0.38
17 1 0.02
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TAATTATATTTTATT
Found at i:3486971 original size:16 final size:17
Alignment explanation
Indices: 3486934--3486971 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
3486924 TTAATTTAAT
3486934 TATTTTTATTTATATAA
1 TATTTTTATTTATATAA
*
3486951 T-TTTTTATTTA-ATTA
1 TATTTTTATTTATATAA
3486966 TATTTT
1 TATTTT
3486972 AATGAGATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 4 0.21
16 14 0.74
17 1 0.05
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TATTTTTATTTATATAA
Found at i:3488868 original size:4 final size:4
Alignment explanation
Indices: 3488854--3488885 Score: 55
Period size: 4 Copynumber: 7.8 Consensus size: 4
3488844 ACTTTAAGTT
3488854 TTTC TTTTC TTTC TTTC TTTC TTTC TTTC TTT
1 TTTC -TTTC TTTC TTTC TTTC TTTC TTTC TTT
3488886 AATGGTGGAC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTC
Found at i:3489102 original size:24 final size:25
Alignment explanation
Indices: 3489055--3489102 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
3489045 CATGGATAAA
* *
3489055 TTTGGTTAATTAATCATTTTGGTCT
1 TTTGGATAATTAATCATTTAGGTCT
*
3489080 TTTGGATAATT-ATTATTTAGGTC
1 TTTGGATAATTAATCATTTAGGTC
3489103 CCTAAGTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.23, C:0.06, G:0.17, T:0.54
Consensus pattern (25 bp):
TTTGGATAATTAATCATTTAGGTCT
Found at i:3490785 original size:19 final size:19
Alignment explanation
Indices: 3490761--3490798 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
3490751 GAAATGAATA
3490761 ATTTCAGGCAAATAGGTTG
1 ATTTCAGGCAAATAGGTTG
3490780 ATTTCAGGCAAATAGGTTG
1 ATTTCAGGCAAATAGGTTG
3490799 GCAATCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.32
Consensus pattern (19 bp):
ATTTCAGGCAAATAGGTTG
Found at i:3498441 original size:50 final size:50
Alignment explanation
Indices: 3498366--3498467 Score: 204
Period size: 50 Copynumber: 2.0 Consensus size: 50
3498356 TTAAATTGGG
3498366 GTTTCATTTAGAACTCTACTCATTATGAGTAAATATATTCTTCTCTTTTA
1 GTTTCATTTAGAACTCTACTCATTATGAGTAAATATATTCTTCTCTTTTA
3498416 GTTTCATTTAGAACTCTACTCATTATGAGTAAATATATTCTTCTCTTTTA
1 GTTTCATTTAGAACTCTACTCATTATGAGTAAATATATTCTTCTCTTTTA
3498466 GT
1 GT
3498468 ATTCTTTTTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.27, C:0.16, G:0.09, T:0.48
Consensus pattern (50 bp):
GTTTCATTTAGAACTCTACTCATTATGAGTAAATATATTCTTCTCTTTTA
Found at i:3513270 original size:18 final size:19
Alignment explanation
Indices: 3513236--3513275 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
3513226 TTCTTACTGT
* *
3513236 TTTAAATAATCATTATATA
1 TTTAAATAATAATTATAAA
3513255 TTTAAA-AATAATTATAAA
1 TTTAAATAATAATTATAAA
3513273 TTT
1 TTT
3513276 GATATAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (19 bp):
TTTAAATAATAATTATAAA
Found at i:3518998 original size:2 final size:2
Alignment explanation
Indices: 3518991--3519022 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
3518981 ATTTGACATA
*
3518991 AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3519023 CAATGCATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:3521479 original size:2 final size:2
Alignment explanation
Indices: 3521468--3521498 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
3521458 ATTAAGTTAT
3521468 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3521499 ATAAAAGGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:3522936 original size:18 final size:19
Alignment explanation
Indices: 3522913--3522961 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
3522903 ATAACCGATC
3522913 AACTGATTGA-TACTGAAT
1 AACTGATTGATTACTGAAT
*
3522931 AACTGATT-ATTATTGAAT
1 AACTGATTGATTACTGAAT
*
3522949 AATTGATTG-TTAC
1 AACTGATTGATTAC
3522962 CGACTGTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 1 0.04
18 25 0.96
ACGTcount: A:0.37, C:0.08, G:0.14, T:0.41
Consensus pattern (19 bp):
AACTGATTGATTACTGAAT
Found at i:3525762 original size:29 final size:28
Alignment explanation
Indices: 3525697--3525762 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
3525687 TTATATTTTT
* * *
3525697 ATAATATTATTAATTAGTTCAATATTTG
1 ATAATGTTATTAATTAGTTCAATAGTTA
*
3525725 ATAATGTTATTACTTAGTTCAAATAGTTA
1 ATAATGTTATTAATTAGTTC-AATAGTTA
*
3525754 ATATTGTTA
1 ATAATGTTA
3525763 GCCTTTAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 18 0.56
29 14 0.44
ACGTcount: A:0.38, C:0.05, G:0.09, T:0.48
Consensus pattern (28 bp):
ATAATGTTATTAATTAGTTCAATAGTTA
Found at i:3533808 original size:21 final size:21
Alignment explanation
Indices: 3533782--3533822 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
3533772 ATCTGCTCAA
* *
3533782 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
3533803 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
3533823 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:3538296 original size:17 final size:17
Alignment explanation
Indices: 3538274--3538313 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
3538264 GGAATTCATA
3538274 GAATCCAAAATATATTT
1 GAATCCAAAATATATTT
3538291 GAATCCAAAATATATTT
1 GAATCCAAAATATATTT
3538308 GAATCC
1 GAATCC
3538314 TATTGGTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.33
Consensus pattern (17 bp):
GAATCCAAAATATATTT
Found at i:3544511 original size:21 final size:22
Alignment explanation
Indices: 3544486--3544527 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
3544476 CTTCCTATAA
* *
3544486 AAATATTTAAAA-ATTTAAAAG
1 AAATATATAAAATACTTAAAAG
3544507 AAATATATAAAATACTTAAAA
1 AAATATATAAAATACTTAAAA
3544528 TTTAACACTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (22 bp):
AAATATATAAAATACTTAAAAG
Found at i:3544590 original size:102 final size:103
Alignment explanation
Indices: 3544434--3544635 Score: 388
Period size: 102 Copynumber: 2.0 Consensus size: 103
3544424 CACACAGCAT
3544434 TTTTAGGTTGTGACATGTGGCACTGAGATGCCATAATCTATTCTTCCTATAAAAATATTTAAAAA
1 TTTTAGGTTGTGACATGTGGCACTGAGATGCCATAATCTATTCTTCCTATAAAAATATTTAAAAA
3544499 TTTAAAAGAAATATAT-AAAATACTTAAAATTTAACAC
66 TTTAAAAGAAATATATAAAAATACTTAAAATTTAACAC
*
3544536 TTTTAGGTTGTGACATGTGGCACTGAGATGCCATAATCTATTCTTTCTATAAAAATATTTAAAAA
1 TTTTAGGTTGTGACATGTGGCACTGAGATGCCATAATCTATTCTTCCTATAAAAATATTTAAAAA
3544601 TTTAAAAGAAATATATAAAAATACTTAAAATTTAA
66 TTTAAAAGAAATATATAAAAATACTTAAAATTTAA
3544636 GGAAACCTGG
Statistics
Matches: 98, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
102 80 0.82
103 18 0.18
ACGTcount: A:0.43, C:0.10, G:0.11, T:0.36
Consensus pattern (103 bp):
TTTTAGGTTGTGACATGTGGCACTGAGATGCCATAATCTATTCTTCCTATAAAAATATTTAAAAA
TTTAAAAGAAATATATAAAAATACTTAAAATTTAACAC
Found at i:3545031 original size:10 final size:10
Alignment explanation
Indices: 3544991--3545034 Score: 52
Period size: 10 Copynumber: 4.2 Consensus size: 10
3544981 GTTTATCAAC
*
3544991 ATTTAATTGT
1 ATTTAATTAT
*
3545001 GTTTAATTAT
1 ATTTAATTAT
3545011 AATTATAATTAT
1 -ATT-TAATTAT
3545023 ATTTAATTAT
1 ATTTAATTAT
3545033 AT
1 AT
3545035 GTGTTTGAGG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
10 17 0.59
11 5 0.17
12 7 0.24
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (10 bp):
ATTTAATTAT
Found at i:3545233 original size:27 final size:27
Alignment explanation
Indices: 3545195--3545249 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
3545185 ATTAACCATT
3545195 TAACAGAGGTGACCAAAATAGAAACTA
1 TAACAGAGGTGACCAAAATAGAAACTA
3545222 TAACAGAGGTGACCAAAATAGAAACTA
1 TAACAGAGGTGACCAAAATAGAAACTA
3545249 T
1 T
3545250 CTAAAACATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.51, C:0.15, G:0.18, T:0.16
Consensus pattern (27 bp):
TAACAGAGGTGACCAAAATAGAAACTA
Found at i:3545540 original size:4 final size:4
Alignment explanation
Indices: 3545524--3545554 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
3545514 TTGGAAATGG
*
3545524 AATT AAGT AATT AATT AATT AATT AATT AAT
1 AATT AATT AATT AATT AATT AATT AATT AAT
3545555 ATTAGTACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (4 bp):
AATT
Found at i:3547057 original size:31 final size:31
Alignment explanation
Indices: 3547019--3547080 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
3547009 GATATTATAC
3547019 ATACAAAGGTATTTTAATAATTATTCTAGGA
1 ATACAAAGGTATTTTAATAATTATTCTAGGA
3547050 ATACAAAGGTATTTTAATAATTATTCTAGGA
1 ATACAAAGGTATTTTAATAATTATTCTAGGA
3547081 CTAAGCGGGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.42, C:0.06, G:0.13, T:0.39
Consensus pattern (31 bp):
ATACAAAGGTATTTTAATAATTATTCTAGGA
Found at i:3550718 original size:18 final size:18
Alignment explanation
Indices: 3550691--3550737 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
3550681 TGCAGCCACC
*
3550691 TGAGCTTTGTACCAAGCT
1 TGAGCCTTGTACCAAGCT
3550709 TGAGCCTTGTACCAAGCT
1 TGAGCCTTGTACCAAGCT
3550727 TGAGCCTTGTA
1 TGAGCCTTGTA
3550738 GAGCAAGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.32
Consensus pattern (18 bp):
TGAGCCTTGTACCAAGCT
Found at i:3555275 original size:21 final size:21
Alignment explanation
Indices: 3555233--3555276 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
3555223 CACATCGTTT
* *
3555233 CCTCCTCTTTCTCCGCCACCG
1 CCTCCTCTGTCTACGCCACCG
* *
3555254 CCTCCTCTGTCTACTCCGCCG
1 CCTCCTCTGTCTACGCCACCG
3555275 CC
1 CC
3555277 ACCGCCAGAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.05, C:0.57, G:0.11, T:0.27
Consensus pattern (21 bp):
CCTCCTCTGTCTACGCCACCG
Found at i:3556390 original size:14 final size:15
Alignment explanation
Indices: 3556371--3556399 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
3556361 TTATTAAATG
3556371 AATGAATTA-AATAT
1 AATGAATTATAATAT
3556385 AATGAATTATAATAT
1 AATGAATTATAATAT
3556400 TTTTTTTCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (15 bp):
AATGAATTATAATAT
Found at i:3559402 original size:22 final size:22
Alignment explanation
Indices: 3559358--3559412 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
3559348 TTGGGTTTTC
* *
3559358 TTTGAAGAGAAAAATATTGGGT
1 TTTGAAGAGAAAAATAATAGGT
* *
3559380 TTTGATGAGAAAATTAATAGG-
1 TTTGAAGAGAAAAATAATAGGT
*
3559401 TTTGAAGGGAAA
1 TTTGAAGAGAAA
3559413 TTTGGGATCT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 10 0.37
22 17 0.63
ACGTcount: A:0.42, C:0.00, G:0.27, T:0.31
Consensus pattern (22 bp):
TTTGAAGAGAAAAATAATAGGT
Found at i:3561039 original size:18 final size:18
Alignment explanation
Indices: 3561016--3561067 Score: 86
Period size: 18 Copynumber: 2.9 Consensus size: 18
3561006 AAAATGCGAG
*
3561016 AAATGATGTTTACATTTC
1 AAATGATGTTCACATTTC
*
3561034 AAATGATATTCACATTTC
1 AAATGATGTTCACATTTC
3561052 AAATGATGTTCACATT
1 AAATGATGTTCACATT
3561068 GATGAAAATG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.40
Consensus pattern (18 bp):
AAATGATGTTCACATTTC
Found at i:3563635 original size:26 final size:26
Alignment explanation
Indices: 3563583--3563635 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
3563573 CTTAAATCAA
* * *
3563583 ACTTTTCAAAAATATTTTTCTACAGC
1 ACTTTTCAAAAACATTTTTCAAAAGC
*
3563609 ACTTTTCTAAAACATTTTTCAAAAGC
1 ACTTTTCAAAAACATTTTTCAAAAGC
3563635 A
1 A
3563636 ATACTAAACT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.38, C:0.19, G:0.04, T:0.40
Consensus pattern (26 bp):
ACTTTTCAAAAACATTTTTCAAAAGC
Found at i:3574597 original size:26 final size:26
Alignment explanation
Indices: 3574568--3574753 Score: 309
Period size: 26 Copynumber: 7.2 Consensus size: 26
3574558 TGGTACAAAT
3574568 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
3574594 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
3574620 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
3574646 TGATAATTGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
3574672 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
3574698 TGATAATGGCTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
3574724 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
3574750 TGAT
1 TGAT
3574754 GGGCATTTCA
Statistics
Matches: 148, Mismatches: 12, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
26 148 1.00
ACGTcount: A:0.33, C:0.08, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:3581773 original size:26 final size:26
Alignment explanation
Indices: 3581718--3581809 Score: 152
Period size: 25 Copynumber: 3.6 Consensus size: 26
3581708 CATGATAATA
3581718 GTAAATGTTCCATGATAAT-GGTTAG
1 GTAAATGTTCCATGATAATGGGTTAG
*
3581743 GTAAATATTCCATGATAATGGGTTAG
1 GTAAATGTTCCATGATAATGGGTTAG
*
3581769 GTAAATGTTCCATGATAA-GGTTTAG
1 GTAAATGTTCCATGATAATGGGTTAG
3581794 GTAAATGTTCCATGAT
1 GTAAATGTTCCATGAT
3581810 GGGCATTTCA
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
25 40 0.63
26 23 0.37
ACGTcount: A:0.33, C:0.09, G:0.23, T:0.36
Consensus pattern (26 bp):
GTAAATGTTCCATGATAATGGGTTAG
Found at i:3583315 original size:25 final size:26
Alignment explanation
Indices: 3583287--3583338 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
3583277 TTTACAGTTT
3583287 TACCCCTAGAGATAAATT-ACCGAAA
1 TACCCCTAGAGATAAATTGACCGAAA
* * *
3583312 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGAGATAAATTGACCGAAA
3583338 T
1 T
3583339 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.25
Consensus pattern (26 bp):
TACCCCTAGAGATAAATTGACCGAAA
Found at i:3610250 original size:29 final size:30
Alignment explanation
Indices: 3610190--3610251 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 30
3610180 AAAAAAAATA
* *
3610190 AATAAGCATGTTATTTTCATGTTTTTAATT
1 AATAAACATGTTATTTTCAAGTTTTTAATT
*
3610220 AATAAACATGTT-TTTT-AAGTTATTTATTT
1 AATAAACATGTTATTTTCAAGTT-TTTAATT
3610249 AAT
1 AAT
3610252 TTTAATTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 4 0.14
29 13 0.46
30 11 0.39
ACGTcount: A:0.34, C:0.05, G:0.08, T:0.53
Consensus pattern (30 bp):
AATAAACATGTTATTTTCAAGTTTTTAATT
Done.