Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 163 of 185
Found at i:48851250 original size:3 final size:3
Alignment explanation
Indices: 48851229--48851277 Score: 53
Period size: 3 Copynumber: 15.7 Consensus size: 3
48851219 TGTACATGAA
* * *
48851229 AAT AAT GAAT AAT ATT AAT AAT AAT AAT AGAC AAT AAT AGT AAT AAT
1 AAT AAT -AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT
48851276 AA
1 AA
48851278 ACAAGTAATA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
3 33 0.87
4 5 0.13
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:48851266 original size:19 final size:20
Alignment explanation
Indices: 48851244--48851287 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
48851234 TGAATAATAT
*
48851244 TAATAATAATAATAGACAA-
1 TAATAATAATAATAAACAAG
*
48851263 TAATAGTAATAATAAACAAG
1 TAATAATAATAATAAACAAG
48851283 TAATA
1 TAATA
48851288 GTACCATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.61, C:0.05, G:0.07, T:0.27
Consensus pattern (20 bp):
TAATAATAATAATAAACAAG
Found at i:48852217 original size:22 final size:22
Alignment explanation
Indices: 48852166--48852222 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 22
48852156 TGTTGAGTGC
* *
48852166 GCGCGATGCGTGGGAGCGACAA
1 GCGCGATGTGCGGGAGCGACAA
* **
48852188 GCGTGATGTGCGGGAGCGACGG
1 GCGCGATGTGCGGGAGCGACAA
48852210 GCGCGATGTGCGG
1 GCGCGATGTGCGG
48852223 TGCTTGCGAG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.16, C:0.21, G:0.51, T:0.12
Consensus pattern (22 bp):
GCGCGATGTGCGGGAGCGACAA
Found at i:48855406 original size:15 final size:15
Alignment explanation
Indices: 48855372--48855406 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
48855362 AATTAAGTTT
*
48855372 AAAAAAAGATAACAG
1 AAAAAAAGATAACAA
*
48855387 CAAAAAAGATAACAA
1 AAAAAAAGATAACAA
48855402 AAAAA
1 AAAAA
48855407 TATAAAGTCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.77, C:0.09, G:0.09, T:0.06
Consensus pattern (15 bp):
AAAAAAAGATAACAA
Found at i:48860551 original size:42 final size:42
Alignment explanation
Indices: 48860472--48860552 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
48860462 TGAATTTTCG
***
48860472 TTTAACCCTAATGGGTTTCCATTTAGCTATTTTGAGCTTCAA
1 TTTAACCCTAATGGGTTTCCATTTAGCTATCACGAGCTTCAA
* * *
48860514 TTTAACCCTTATGGGTTTCCGTTTAGCTCTCACGAGCTT
1 TTTAACCCTAATGGGTTTCCATTTAGCTATCACGAGCTT
48860553 TTGTCCAGTA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.20, C:0.22, G:0.16, T:0.42
Consensus pattern (42 bp):
TTTAACCCTAATGGGTTTCCATTTAGCTATCACGAGCTTCAA
Found at i:48862266 original size:28 final size:26
Alignment explanation
Indices: 48862222--48862279 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
48862212 TAAATTTTTT
48862222 TTAAAAAAAATTCAATTCAATTAATAA
1 TTAAAAAAAATTCAATTCAATTAAT-A
*
48862249 TTAAAAAATTAATT-AATTCGATTAATA
1 TTAAAAAA--AATTCAATTCAATTAATA
48862276 TTAA
1 TTAA
48862280 TTCAGTATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 13 0.46
28 11 0.39
29 4 0.14
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.38
Consensus pattern (26 bp):
TTAAAAAAAATTCAATTCAATTAATA
Found at i:48875809 original size:47 final size:47
Alignment explanation
Indices: 48875737--48875851 Score: 117
Period size: 47 Copynumber: 2.4 Consensus size: 47
48875727 ATCTAAACAA
*
48875737 TACTATAGGATTTG-AGATGAACATTTCCCGA-ACTACAGCATAAAAAG
1 TACTATAAGA-TTGCAGATGAACATTTCCC-ACACTACAGCATAAAAAG
* * * ** *
48875784 TACTATAAGATTGCAGATGAGCATTTTCCACACTATAGTGTAAACAG
1 TACTATAAGATTGCAGATGAACATTTCCCACACTACAGCATAAAAAG
* *
48875831 AACTATAAGATTTCAGATGAA
1 TACTATAAGATTGCAGATGAA
48875852 TATCTTCCAA
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
46 4 0.07
47 52 0.93
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.28
Consensus pattern (47 bp):
TACTATAAGATTGCAGATGAACATTTCCCACACTACAGCATAAAAAG
Found at i:48886156 original size:15 final size:16
Alignment explanation
Indices: 48886129--48886164 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
48886119 CTGAACAATT
48886129 ATTTTATTTTTTAAAC
1 ATTTTATTTTTTAAAC
48886145 ATTTTA-TTTTTAAAC
1 ATTTTATTTTTTAAAC
48886160 -TTTTA
1 ATTTTA
48886165 ACAACGAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 5 0.25
15 9 0.45
16 6 0.30
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.64
Consensus pattern (16 bp):
ATTTTATTTTTTAAAC
Found at i:48890642 original size:43 final size:43
Alignment explanation
Indices: 48890527--48890666 Score: 135
Period size: 43 Copynumber: 3.3 Consensus size: 43
48890517 AGACTAAGAC
* * *
48890527 CTTTAGTGGCGTTTGT-GGTCGA-AGCGCCGCTATAGATCAGGAT
1 CTTTAGCGGCGTTTGTAGG--GACAGAGCCGCTATAGATCAGGGT
* * *
48890570 TTTTTGCGGCGTTTGTAGGGACAGCGCCGCTATAGATCAGGGT
1 CTTTAGCGGCGTTTGTAGGGACAGAGCCGCTATAGATCAGGGT
* * *
48890613 CTTTAGCGGCGTTT-TTGCGG-CAAGAGCCGCTAAAGATTAGGGT
1 CTTTAGCGGCGTTTGTAG-GGAC-AGAGCCGCTATAGATCAGGGT
48890656 CTTTAGCGGCG
1 CTTTAGCGGCG
48890667 CTTCTCCCTA
Statistics
Matches: 83, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
42 5 0.06
43 76 0.92
44 2 0.02
ACGTcount: A:0.18, C:0.19, G:0.34, T:0.29
Consensus pattern (43 bp):
CTTTAGCGGCGTTTGTAGGGACAGAGCCGCTATAGATCAGGGT
Found at i:48890797 original size:86 final size:85
Alignment explanation
Indices: 48890655--48890842 Score: 225
Period size: 86 Copynumber: 2.2 Consensus size: 85
48890645 AAGATTAGGG
* *
48890655 TCTTTAGCGGCGCTTCTCCCTAAAATGCCGCAAAAGACCCTGATCTATAGCAGCGCTTCGACCAC
1 TCTTTAGCGGCGCTT-TCCCCAAAATGCCGCAAAAGACCATGATCTATAGCAGCGCTTCGACCAC
48890720 AAACGCCACTAAAAAACCTAA
65 AAACGCCACTAAAAAACCTAA
* * ** ***
48890741 TCTTTAGCGGCGCTTTCCCCACAAACT-CCGCGAAAGACCATGATCTTTAGGGGCGCTTTTTCCA
1 TCTTTAGCGGCGCTTTCCCCA-AAA-TGCCGCAAAAGACCATGATCTATAGCAGCGCTTCGACCA
* * *
48890805 CAAACGCCGCTAAAGAACCTTA
64 CAAACGCCACTAAAAAACCTAA
*
48890827 TCTTTAGCGACGCTTT
1 TCTTTAGCGGCGCTTT
48890843 TACCAAAAAC
Statistics
Matches: 87, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
85 5 0.06
86 81 0.93
87 1 0.01
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (85 bp):
TCTTTAGCGGCGCTTTCCCCAAAATGCCGCAAAAGACCATGATCTATAGCAGCGCTTCGACCACA
AACGCCACTAAAAAACCTAA
Found at i:48890862 original size:43 final size:43
Alignment explanation
Indices: 48890655--48890862 Score: 168
Period size: 43 Copynumber: 4.8 Consensus size: 43
48890645 AAGATTAGGG
* * * * * * *
48890655 TCTTTAGCGGCGCTTCTCCCTA-AAATGCCGCAAAAGACCCTGA
1 TCTTTAGCGGCGCTTTTACC-ACAAACGCCACTAAAGAACCTAA
* * ** *
48890698 TCTATAGCAGCGCTTCGACCACAAACGCCACTAAAAAACCTAA
1 TCTTTAGCGGCGCTTTTACCACAAACGCCACTAAAGAACCTAA
** * * * *
48890741 TCTTTAGCGGCGCTTTCCCCACAAACTCCGCGAAAG-ACCATGA
1 TCTTTAGCGGCGCTTTTACCACAAACGCCACTAAAGAACC-TAA
* * * *
48890784 TCTTTAGGGGCGCTTTTTCCACAAACGCCGCTAAAGAACCTTA
1 TCTTTAGCGGCGCTTTTACCACAAACGCCACTAAAGAACCTAA
* *
48890827 TCTTTAGCGACGCTTTTACCAAAAACGCCACTAAAG
1 TCTTTAGCGGCGCTTTTACCACAAACGCCACTAAAG
48890863 GCCAACACCT
Statistics
Matches: 131, Mismatches: 31, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
42 4 0.03
43 124 0.95
44 3 0.02
ACGTcount: A:0.30, C:0.31, G:0.16, T:0.23
Consensus pattern (43 bp):
TCTTTAGCGGCGCTTTTACCACAAACGCCACTAAAGAACCTAA
Found at i:48890875 original size:86 final size:86
Alignment explanation
Indices: 48890716--48890887 Score: 200
Period size: 86 Copynumber: 2.0 Consensus size: 86
48890706 AGCGCTTCGA
* * * * *
48890716 CCACAAACGCCACTAAAAAACCTAATCTTTAGCGGCGCTTTCCCCACAAACTCCGCGAAAGACCA
1 CCACAAACGCCACTAAAAAACCTAATCTTTAGCGACGCTTTCACCAAAAACGCCACGAAAGACCA
** *
48890781 TGATCTTTAGGGGCGCTTTTT
66 ACACCTTTAGGGGCGCTTTTT
* * * * * *
48890802 CCACAAACGCCGCTAAAGAACCTTATCTTTAGCGACGCTTTTACCAAAAACGCCACTAAAGGCCA
1 CCACAAACGCCACTAAAAAACCTAATCTTTAGCGACGCTTTCACCAAAAACGCCACGAAAGACCA
* *
48890867 ACACCTTTAGTGGCGTTTTTT
66 ACACCTTTAGGGGCGCTTTTT
48890888 TGAAAAACGA
Statistics
Matches: 70, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
86 70 1.00
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (86 bp):
CCACAAACGCCACTAAAAAACCTAATCTTTAGCGACGCTTTCACCAAAAACGCCACGAAAGACCA
ACACCTTTAGGGGCGCTTTTT
Found at i:48891306 original size:21 final size:21
Alignment explanation
Indices: 48891213--48891308 Score: 111
Period size: 21 Copynumber: 4.6 Consensus size: 21
48891203 TTTGACGCTG
*
48891213 CTCTGCTTCCCTCGCTGTAGC
1 CTCTGCTTCTCTCGCTGTAGC
* *
48891234 CTCTGCTTCCCTCGCTTTAGC
1 CTCTGCTTCTCTCGCTGTAGC
* *
48891255 CTCTACTTCTCTCGCTATAGC
1 CTCTGCTTCTCTCGCTGTAGC
* * **
48891276 CTGTACTTCTCTCGCTGCCGC
1 CTCTGCTTCTCTCGCTGTAGC
48891297 CTCTGCTTCTCT
1 CTCTGCTTCTCT
48891309 TACTGCCGCA
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 65 1.00
ACGTcount: A:0.06, C:0.42, G:0.15, T:0.38
Consensus pattern (21 bp):
CTCTGCTTCTCTCGCTGTAGC
Found at i:48891314 original size:21 final size:21
Alignment explanation
Indices: 48891281--48891325 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
48891271 ATAGCCTGTA
* *
48891281 CTTCTCTCGCTGCCGCCTCTG
1 CTTCTCTCACTGCCGCATCTG
*
48891302 CTTCTCTTACTGCCGCATCTG
1 CTTCTCTCACTGCCGCATCTG
48891323 CTT
1 CTT
48891326 TAAGCTGCTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.04, C:0.42, G:0.16, T:0.38
Consensus pattern (21 bp):
CTTCTCTCACTGCCGCATCTG
Found at i:48891390 original size:66 final size:66
Alignment explanation
Indices: 48891296--48891442 Score: 190
Period size: 66 Copynumber: 2.2 Consensus size: 66
48891286 CTCGCTGCCG
* **
48891296 CCTCTGCTTCTCTTACTGCCGCATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCGTT
1 CCTCAGCTTCTCTCGCTGCCGCATCTGCTTTAAGCTG-TAGCTGGAGTTCTTCATATCTTT-GTT
48891359 GAA
64 GAA
* * * * *
48891362 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTCAGTTGTAGTTGGAGTTCTTCATATCTTTTTTGA
1 CCTCAGCTTCTCTCGCTGCCGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGA
48891427 A
66 A
48891428 CCTCAGCTTCTCTCG
1 CCTCAGCTTCTCTCG
48891443 ATGTTGCCTC
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
65 1 0.01
66 66 0.93
67 4 0.06
ACGTcount: A:0.13, C:0.29, G:0.18, T:0.41
Consensus pattern (66 bp):
CCTCAGCTTCTCTCGCTGCCGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGA
A
Found at i:48891464 original size:66 final size:66
Alignment explanation
Indices: 48891337--48891465 Score: 179
Period size: 66 Copynumber: 2.0 Consensus size: 66
48891327 AAGCTGCTGC
* ** *
48891337 TGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGCTGCTGCATCTGCTTTCAGTTGTAG
1 TGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGATGCTGCATCCACTTTAAGTTGTAG
48891402 T
66 T
* * *
48891403 TGGAGTTCTTCATATCTTT-TTTGAACCTCAGCTTCTCTCGATGTTGCCTCCACTTTAAGTTGT
1 TGGAGTTCTTCATA-CTTTCGTTGAACCTCAGCTTCTCTCGATGCTGCATCCACTTTAAGTTGT
48891466 GTAATTTGCT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
66 51 0.93
67 4 0.07
ACGTcount: A:0.15, C:0.25, G:0.18, T:0.43
Consensus pattern (66 bp):
TGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGATGCTGCATCCACTTTAAGTTGTAG
T
Found at i:48893617 original size:13 final size:15
Alignment explanation
Indices: 48893599--48893638 Score: 57
Period size: 13 Copynumber: 2.7 Consensus size: 15
48893589 ATATAAGTTC
48893599 ATGTAAGTTATG-A-
1 ATGTAAGTTATGTAT
48893612 ATGTAAGTTATGTATT
1 ATGTAAGTTATGTA-T
48893628 ATGTAAGTTAT
1 ATGTAAGTTAT
48893639 TTAAATTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 12 0.50
14 1 0.04
16 11 0.46
ACGTcount: A:0.35, C:0.00, G:0.20, T:0.45
Consensus pattern (15 bp):
ATGTAAGTTATGTAT
Found at i:48893633 original size:16 final size:16
Alignment explanation
Indices: 48893599--48893675 Score: 70
Period size: 16 Copynumber: 4.9 Consensus size: 16
48893589 ATATAAGTTC
48893599 ATGTAAGTTATG-A--
1 ATGTAAGTTATGTATT
48893612 ATGTAAGTTATGTATT
1 ATGTAAGTTATGTATT
*
48893628 ATGTAAGTTATTTAAATT
1 ATGTAAGTTATGT--ATT
* *
48893646 ATTTAAGTTGTGTATT
1 ATGTAAGTTATGTATT
* *
48893662 ATATAAGTCATGTA
1 ATGTAAGTTATGTA
48893676 GGCTATGTGT
Statistics
Matches: 52, Mismatches: 7, Indels: 7
0.79 0.11 0.11
Matches are distributed among these distances:
13 12 0.23
14 1 0.02
16 26 0.50
18 13 0.25
ACGTcount: A:0.35, C:0.01, G:0.17, T:0.47
Consensus pattern (16 bp):
ATGTAAGTTATGTATT
Found at i:48895146 original size:15 final size:15
Alignment explanation
Indices: 48895126--48895159 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
48895116 CATCAATTGC
*
48895126 AAGACAGCTAGAAAA
1 AAGACAACTAGAAAA
48895141 AAGACAACTAGAAAA
1 AAGACAACTAGAAAA
48895156 AAGA
1 AAGA
48895160 GGTATATATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.65, C:0.12, G:0.18, T:0.06
Consensus pattern (15 bp):
AAGACAACTAGAAAA
Found at i:48895396 original size:11 final size:11
Alignment explanation
Indices: 48895382--48895418 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
48895372 TTGATACTAC
48895382 ATTATAATGAA
1 ATTATAATGAA
48895393 ATTATAATGAA
1 ATTATAATGAA
*
48895404 ATTATAATCAA
1 ATTATAATGAA
48895415 ATTA
1 ATTA
48895419 GAAAAGTCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (11 bp):
ATTATAATGAA
Found at i:48896635 original size:27 final size:27
Alignment explanation
Indices: 48896603--48896654 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
48896593 TCTTACTTTT
* *
48896603 AAATAATTAATTACCAATTTATTTAAC
1 AAATAAATAATTACCAACTTATTTAAC
*
48896630 AAATAAATAATTACTAACTTATTTA
1 AAATAAATAATTACCAACTTATTTA
48896655 TTTGTTTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (27 bp):
AAATAAATAATTACCAACTTATTTAAC
Found at i:48896745 original size:8 final size:10
Alignment explanation
Indices: 48896722--48896758 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
48896712 TAATAACTAT
48896722 ATATATATCC
1 ATATATATCC
*
48896732 ATATATATTC
1 ATATATATCC
48896742 ATATATATCC
1 ATATATATCC
48896752 ATATATA
1 ATATATA
48896759 AGTAAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (10 bp):
ATATATATCC
Found at i:48898626 original size:15 final size:14
Alignment explanation
Indices: 48898606--48898673 Score: 61
Period size: 15 Copynumber: 4.9 Consensus size: 14
48898596 ATGACCGTTG
48898606 AAACCCTAAATCTC
1 AAACCCTAAATCTC
*
48898620 AAAACCCTAAACCTC
1 -AAACCCTAAATCTC
*
48898635 TAACCCCTAAAT-T-
1 -AAACCCTAAATCTC
*
48898648 -AACCTTAAATCTC
1 AAACCCTAAATCTC
*
48898661 AAACCTTAAATCT
1 AAACCCTAAATCT
48898674 ATACCCCGTA
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
11 8 0.18
12 1 0.02
14 13 0.30
15 22 0.50
ACGTcount: A:0.43, C:0.32, G:0.00, T:0.25
Consensus pattern (14 bp):
AAACCCTAAATCTC
Found at i:48899282 original size:41 final size:43
Alignment explanation
Indices: 48899215--48899639 Score: 413
Period size: 41 Copynumber: 10.3 Consensus size: 43
48899205 GCTTACCTAT
*
48899215 AAAACGCCGCTAAA-AGA-CAGAGCATTAGTGGCGCTCAGATA
1 AAAACGCCGCTAAAGATACCAGAGCATTAGTGGCGCTCAGATA
* * * * *
48899256 AAAACGCCACTAAAGATACTA-A-CATTAGCGGCGCTTAGAAA
1 AAAACGCCGCTAAAGATACCAGAGCATTAGTGGCGCTCAGATA
* *
48899297 AAAACGCCGCTAAAG--GCCAGAGAATTAGTGGCGCTCAGATA
1 AAAACGCCGCTAAAGATACCAGAGCATTAGTGGCGCTCAGATA
* * * * *
48899338 AAAACGCCACTAAAGATACTA-A-CATTAGCGGCGCTTAGAAA
1 AAAACGCCGCTAAAGATACCAGAGCATTAGTGGCGCTCAGATA
* *
48899379 AAAACGCCGCTAAAG--GCCAGAGAATTAGTGGCGCTCAGATA
1 AAAACGCCGCTAAAGATACCAGAGCATTAGTGGCGCTCAGATA
* * * *
48899420 AAAACGCCACTAAAGATA-C-GAGCATTAGCGGCGCTTAGAGA
1 AAAACGCCGCTAAAGATACCAGAGCATTAGTGGCGCTCAGATA
* *
48899461 AAAACGCCGCTAAAG--GCCAGAGAATTAGTGGCGCTCAGATA
1 AAAACGCCGCTAAAGATACCAGAGCATTAGTGGCGCTCAGATA
* * * *
48899502 AAAACGCCACTAAAGATA-C-GAGCATTAGCGGCGCTTAGAGA
1 AAAACGCCGCTAAAGATACCAGAGCATTAGTGGCGCTCAGATA
*
48899543 AAAACGCCGCTAAAG--GCCAGAGCATTAGTGGCGCTCAGATA
1 AAAACGCCGCTAAAGATACCAGAGCATTAGTGGCGCTCAGATA
* * ** * *
48899584 AAAACGCCGCTAAAGAT--CGGACCATTAGCAGCGCTAAAATA
1 AAAACGCCGCTAAAGATACCAGAGCATTAGTGGCGCTCAGATA
*
48899625 AAAATGCCGCTAAAG
1 AAAACGCCGCTAAAG
48899640 GTTTAAAAAT
Statistics
Matches: 309, Mismatches: 57, Indels: 36
0.77 0.14 0.09
Matches are distributed among these distances:
39 4 0.01
40 4 0.01
41 292 0.94
42 6 0.02
43 3 0.01
ACGTcount: A:0.39, C:0.22, G:0.23, T:0.15
Consensus pattern (43 bp):
AAAACGCCGCTAAAGATACCAGAGCATTAGTGGCGCTCAGATA
Found at i:48899330 original size:82 final size:82
Alignment explanation
Indices: 48899215--48899640 Score: 685
Period size: 82 Copynumber: 5.2 Consensus size: 82
48899205 GCTTACCTAT
* * * *
48899215 AAAACGCCGCTAAAAGACAGAGCATTAGTGGCGCTCAGATAAAAACGCCACTAAAGATACTAACA
1 AAAACGCCGCTAAAGGCCAGAGAATTAGTGGCGCTCAGATAAAAACGCCACTAAAGATACGAACA
48899280 TTAGCGGCGCTTAGAAA
66 TTAGCGGCGCTTAGAAA
*
48899297 AAAACGCCGCTAAAGGCCAGAGAATTAGTGGCGCTCAGATAAAAACGCCACTAAAGATACTAACA
1 AAAACGCCGCTAAAGGCCAGAGAATTAGTGGCGCTCAGATAAAAACGCCACTAAAGATACGAACA
48899362 TTAGCGGCGCTTAGAAA
66 TTAGCGGCGCTTAGAAA
*
48899379 AAAACGCCGCTAAAGGCCAGAGAATTAGTGGCGCTCAGATAAAAACGCCACTAAAGATACGAGCA
1 AAAACGCCGCTAAAGGCCAGAGAATTAGTGGCGCTCAGATAAAAACGCCACTAAAGATACGAACA
*
48899444 TTAGCGGCGCTTAGAGA
66 TTAGCGGCGCTTAGAAA
*
48899461 AAAACGCCGCTAAAGGCCAGAGAATTAGTGGCGCTCAGATAAAAACGCCACTAAAGATACGAGCA
1 AAAACGCCGCTAAAGGCCAGAGAATTAGTGGCGCTCAGATAAAAACGCCACTAAAGATACGAACA
*
48899526 TTAGCGGCGCTTAGAGA
66 TTAGCGGCGCTTAGAAA
* * *
48899543 AAAACGCCGCTAAAGGCCAGAGCATTAGTGGCGCTCAGATAAAAACGCCGCTAAAGAT-CGGACC
1 AAAACGCCGCTAAAGGCCAGAGAATTAGTGGCGCTCAGATAAAAACGCCACTAAAGATAC-GAAC
* *
48899607 ATTAGCAGCGC-TAAAATA
65 ATTAGCGGCGCTTAGAA-A
*
48899625 AAAATGCCGCTAAAGG
1 AAAACGCCGCTAAAGG
48899641 TTTAAAAATC
Statistics
Matches: 329, Mismatches: 13, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
81 4 0.01
82 325 0.99
ACGTcount: A:0.39, C:0.22, G:0.23, T:0.15
Consensus pattern (82 bp):
AAAACGCCGCTAAAGGCCAGAGAATTAGTGGCGCTCAGATAAAAACGCCACTAAAGATACGAACA
TTAGCGGCGCTTAGAAA
Found at i:48900031 original size:18 final size:19
Alignment explanation
Indices: 48900010--48900046 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
48900000 TTTAGTTGGA
48900010 TTTGAA-TTTTTTCAAGAG
1 TTTGAATTTTTTTCAAGAG
48900028 TTTGAATTTTTTTCAAGAG
1 TTTGAATTTTTTTCAAGAG
48900047 AAAAAAGCTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.27, C:0.05, G:0.16, T:0.51
Consensus pattern (19 bp):
TTTGAATTTTTTTCAAGAG
Found at i:48905125 original size:15 final size:16
Alignment explanation
Indices: 48905105--48905137 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
48905095 TTCTATTTTG
*
48905105 ATAAAAAT-TTAAAAT
1 ATAAAAATGGTAAAAT
48905120 ATAAAAATGGTAAAAT
1 ATAAAAATGGTAAAAT
48905136 AT
1 AT
48905138 CGTGTTATGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (16 bp):
ATAAAAATGGTAAAAT
Found at i:48915000 original size:113 final size:114
Alignment explanation
Indices: 48914864--48915352 Score: 603
Period size: 113 Copynumber: 4.3 Consensus size: 114
48914854 AACAACGCTA
* * * *
48914864 TTTTCTGAGCTTTCGGTGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAAGGCTTTCG
1 TTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAG
* *
48914929 CGGCG-TTTCGAGAAAGCGCCACAAAAAAACCAAAGCCCAACGACACCG
66 CAGCGTTTTTGAGAAAGCGCCACAAAAAAACCAAAGCCCAACGACACCG
* * *
48914977 TTTTTTGAGCTTTAGGGGATTTAGTGGTGTTTTTAAGTAAA-CGCCGCTAATGCTCAGGGCTTTA
1 TTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTTAAG-AAAGCGCCGCTAATGCTCAGGGCTTTA
* * * * *
48915041 GCAGCGTTTTTGGGAAAGCGCTGA-AAAAATACCTAAGCCCAACGACGCCG
65 GCAGCGTTTTTGAGAAAGCGC-CACAAAAAAACCAAAGCCCAACGACACCG
* * * * *
48915091 TTTTCTGAGCTTTCGGGAATTTAGTTGCGTTTTTAAGTAAGCGCCACTAATGTTCAGGGCTTTAG
1 TTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAG
* *
48915156 CAGCGTTTTTGAGAAAGCGCCACAAAAAAACCAAAGCCCAATGACGCCG
66 CAGCGTTTTTGAGAAAGCGCCACAAAAAAACCAAAGCCCAACGACACCG
** * *
48915205 TTTT-TGAGCTTTCAAGGATTTAGTGGTGTTTTTAAGTAAGCGCCGCTAATGCTCAGGGCTTTAG
1 TTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAG
* * * *
48915269 CGGCGTTTTTGAGAAAGCGCCGCAACAAAAA-CTAAGCCCAACTACACCG
66 CAGCGTTTTTGAGAAAGCGCCACAA-AAAAACCAAAGCCCAACGACACCG
* * *
48915318 TTTTCTGA-CAATTCGTGGGCTTTAGCGGCGTTTTT
1 TTTTCTGAGC-TTTCG-GGGATTTAGTGGCGTTTTT
48915353 GTTGAAGCGC
Statistics
Matches: 321, Mismatches: 46, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
113 156 0.49
114 149 0.46
115 16 0.05
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (114 bp):
TTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAG
CAGCGTTTTTGAGAAAGCGCCACAAAAAAACCAAAGCCCAACGACACCG
Found at i:48915234 original size:227 final size:229
Alignment explanation
Indices: 48914838--48915352 Score: 704
Period size: 227 Copynumber: 2.3 Consensus size: 229
48914828 TAAAGTGCCG
* **
48914838 CAAAATACCTAAACCCAACAACGCTATTTTCTGAGCTTTCGGTGATTTAGCGGCGTTTTTAAGAA
1 CAAAATACCTAAGCCCAACAACGCCGTTTTCTGAGCTTTCGGTGATTTAGCGGCGTTTTTAAGAA
* * *
48914903 AGCGCCGCTAATGCTCAAGGCTTTCGCGGCGTTTCGAGAAAGCGCCACAAAAAAACCAAAGCCCA
66 AGCGCCACTAATGCTCAAGGCTTTAGCAGCGTTTCGAGAAAGCGCCACAAAAAAACCAAAGCCCA
*
48914968 ACGACACCGTTTTTTGAGCTTTAGGGGATTTAGTGGTGTTTTTAAGTAAACGCCGCTAATGCTCA
131 ACGACACCGTTTTTTGAGCTTTAGAGGATTTAGTGGTGTTTTTAAGTAAACGCCGCTAATGCTCA
* *
48915033 GGGCTTTAGCAGCGTTTTTGGGAAAGCGCTG-AA
196 GGGCTTTAGCAGCGTTTTTGAGAAAGCGCCGCAA
* ** *
48915066 -AAAATACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGG-GAATTTAGTTGCGTTTTTAAGT
1 CAAAATACCTAAGCCCAACAACGCCGTTTTCTGAGCTTTCGGTG-ATTTAGCGGCGTTTTTAAGA
* * *
48915129 AAGCGCCACTAATGTTCAGGGCTTTAGCAGCGTTTTTGAGAAAGCGCCACAAAAAAACCAAAGCC
65 AAGCGCCACTAATGCTCAAGGCTTTAGCAGCG-TTTCGAGAAAGCGCCACAAAAAAACCAAAGCC
* * *
48915194 CAATGACGCCG-TTTTTGAGCTTTCA-AGGATTTAGTGGTGTTTTTAAGTAAGCGCCGCTAATGC
129 CAACGACACCGTTTTTTGAGCTTT-AGAGGATTTAGTGGTGTTTTTAAGTAAACGCCGCTAATGC
*
48915257 TCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCAA
193 TCAGGGCTTTAGCAGCGTTTTTGAGAAAGCGCCGCAA
* * * * *
48915294 CAAAA-A-CTAAGCCCAACTACACCGTTTTCTGA-CAATTCGTGGGCTTTAGCGGCGTTTTT
1 CAAAATACCTAAGCCCAACAACGCCGTTTTCTGAGC-TTTCG-GTGATTTAGCGGCGTTTTT
48915353 GTTGAAGCGC
Statistics
Matches: 253, Mismatches: 26, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
226 2 0.01
227 188 0.74
228 58 0.23
229 5 0.02
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (229 bp):
CAAAATACCTAAGCCCAACAACGCCGTTTTCTGAGCTTTCGGTGATTTAGCGGCGTTTTTAAGAA
AGCGCCACTAATGCTCAAGGCTTTAGCAGCGTTTCGAGAAAGCGCCACAAAAAAACCAAAGCCCA
ACGACACCGTTTTTTGAGCTTTAGAGGATTTAGTGGTGTTTTTAAGTAAACGCCGCTAATGCTCA
GGGCTTTAGCAGCGTTTTTGAGAAAGCGCCGCAA
Found at i:48915425 original size:73 final size:75
Alignment explanation
Indices: 48915259--48915439 Score: 223
Period size: 74 Copynumber: 2.5 Consensus size: 75
48915249 GCTAATGCTC
*
48915259 AGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCAACAAAAACTAAGCCCAACTACACCGTTTTCT
1 AGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCAACAAAAACTAAGCCCAACGACACCGTTTTCT
48915324 GACAATTCGT
66 GACAATTCGT
* * **
48915334 -GGGCTTTAGCGGCGTTTTTGTTG-AAGCGCCGCAA-AAAAACCTAAGCCCAACGGCGTCGTTTT
1 AGGGCTTTAGCGGCGTTTTTG-AGAAAGCGCCGCAACAAAAA-CTAAGCCCAACGACACCGTTTT
*
48915396 CT-A-AACTT-TT
64 CTGACAA-TTCGT
*
48915406 AGGGCTTTAGCGGCGTTTTT-AAAAAGCGCCGCAA
1 AGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCAA
48915440 AAGCCTTTTA
Statistics
Matches: 93, Mismatches: 8, Indels: 13
0.82 0.07 0.11
Matches are distributed among these distances:
72 14 0.15
73 27 0.29
74 51 0.55
75 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.26
Consensus pattern (75 bp):
AGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCAACAAAAACTAAGCCCAACGACACCGTTTTCT
GACAATTCGT
Found at i:48915792 original size:14 final size:15
Alignment explanation
Indices: 48915766--48915798 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
48915756 AACGTTTATA
48915766 GATTATGGAATTAGG
1 GATTATGGAATTAGG
48915781 GATTAT-GAATTAGG
1 GATTATGGAATTAGG
48915795 GATT
1 GATT
48915799 CTGGTTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.33, C:0.00, G:0.30, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:48916457 original size:21 final size:20
Alignment explanation
Indices: 48916433--48916483 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
48916423 GGTTTTGACT
* *
48916433 TTTAGGGTTTGGGATTTGGGG
1 TTTAAGGTTT-GGATTTAGGG
*
48916454 TTTAAGGTTTGGTTTTAGGG
1 TTTAAGGTTTGGATTTAGGG
48916474 TTTAAGGTTT
1 TTTAAGGTTT
48916484 AGAATTTATG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 18 0.67
21 9 0.33
ACGTcount: A:0.14, C:0.00, G:0.37, T:0.49
Consensus pattern (20 bp):
TTTAAGGTTTGGATTTAGGG
Found at i:48917556 original size:147 final size:146
Alignment explanation
Indices: 48917363--48917814 Score: 365
Period size: 147 Copynumber: 3.1 Consensus size: 146
48917353 TACGTTGCTA
* * * ** * * *
48917363 TTAGTGACGCTTTACATCAAACGCCGCAAAATTGTAATTATGTTTATTGAAATGTTATCGTTTTG
1 TTAGTGGCGCTTTAC-TCAAACGCCGCAAAATTGTTATAACATTTATTGAAACGCTACCGTTTTG
** * *
48917428 TCTATGATATTAGTGGCGTTTTTAT-GAAAACGCCACAAGCTTGAGTTAACTGTTGGGGAAACGA
65 TAAATGATATTAGTGGCGTTTTT-TCGAAAACGCCACAAGCTTGAGGTAACTGTTGAGGAAACGA
*
48917492 CTTCG-TTTGAGCTTATAG
129 CTGCGTTTTGA-CTTATAG
* * * *
48917510 TTGGTGGCGCTTTACTCAAAACGCCGCAAAATTGTTCTAACATTTATAGAAACGCTGCCGTTTTG
1 TTAGTGGCGCTTTACTC-AAACGCCGCAAAATTGTTATAACATTTATTGAAACGCTACCGTTTTG
* * ** * * * *
48917575 TAAATGTTATTAGTGGCGTTTTTTCGAAAATGCCACGGGTTTGAGGTAAGTGTTGATGAAGCGAC
65 TAAATGATATTAGTGGCGTTTTTTCGAAAACGCCACAAGCTTGAGGTAACTGTTGAGGAAACGAC
*
48917640 TGCGTTTTGATTTATAG
130 TGCGTTTTGACTTATAG
* *** * * ** ***
48917657 TTAGTGGTGCTTCGGTTCAAACGCCGCAAAAATGTTTTAACATTTATTGGTACGAGGCCGTTTTG
1 TTAGTGGCGCTT-TACTCAAACGCCGCAAAATTGTTATAACATTTATTGAAACGCTACCGTTTTG
** * * * * * ** *
48917722 CTGTAT--TATTAGTGGCATTTATTCAAAAACGCCAC-AGGTGTGAGCTATTTGTTGATGAAACG
65 -TAAATGATATTAGTGGCGTTTTTTCGAAAACGCCACAAGCT-TGAGGTAACTGTTGAGGAAACG
* *
48917784 GCTTCGTTTTGACTTATAG
128 ACTGCGTTTTGACTTATAG
48917803 TTAGTGGCGCTT
1 TTAGTGGCGCTT
48917815 ATTTATAAAC
Statistics
Matches: 245, Mismatches: 54, Indels: 13
0.79 0.17 0.04
Matches are distributed among these distances:
145 2 0.01
146 73 0.30
147 160 0.65
148 10 0.04
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.36
Consensus pattern (146 bp):
TTAGTGGCGCTTTACTCAAACGCCGCAAAATTGTTATAACATTTATTGAAACGCTACCGTTTTGT
AAATGATATTAGTGGCGTTTTTTCGAAAACGCCACAAGCTTGAGGTAACTGTTGAGGAAACGACT
GCGTTTTGACTTATAG
Found at i:48917802 original size:146 final size:146
Alignment explanation
Indices: 48917454--48917832 Score: 363
Period size: 146 Copynumber: 2.6 Consensus size: 146
48917444 CGTTTTTATG
* * * ** *
48917454 AAAACGCCACAAGCT-TGAGTTAACTGTTGGGGAAACGACTTCG-TTTGAGCTTATAGTTGGTGG
1 AAAACGCCAC-AGGTGTGAGCTAAGTGTTGATGAAACGACTTCGTTTTGA-CTTATAGTTAGTGG
* * ** *
48917517 CGCTTTACTCAAAACGCCGCAAAATTGTTCTAACATTTATAGAAACGCTGCCGTTTTGTAAATGT
64 CGCTTGACTCAAAACGCCGCAAAAATGTTCTAACATTTATAGAAACGAGGCCGTTTTGT-AATAT
* * *
48917582 TATTAGTGGCGTTTTTTCG
128 TATTAGTGGCATTTATTCA
* * * * * * * *
48917601 AAAATGCCACGGGTTTGAGGTAAGTGTTGATGAAGCGACTGCGTTTTGATTTATAGTTAGTGGTG
1 AAAACGCCACAGGTGTGAGCTAAGTGTTGATGAAACGACTTCGTTTTGACTTATAGTTAGTGGCG
** * * ** *
48917666 CTTCGGTTC-AAACGCCGCAAAAATGTTTTAACATTTATTGGTACGAGGCCGTTTTGCT-GTATT
66 CTT-GACTCAAAACGCCGCAAAAATGTTCTAACATTTATAGAAACGAGGCCGTTTTG-TAATATT
48917729 ATTAGTGGCATTTATTCA
129 ATTAGTGGCATTTATTCA
** *
48917747 AAAACGCCACAGGTGTGAGCTATTTGTTGATGAAACGGCTTCGTTTTGACTTATAGTTAGTGGCG
1 AAAACGCCACAGGTGTGAGCTAAGTGTTGATGAAACGACTTCGTTTTGACTTATAGTTAGTGGCG
* *
48917812 CTT-ATTTATAAACGCCGCAAA
66 CTTGACTCA-AAACGCCGCAAA
48917833 TGGTTAATTT
Statistics
Matches: 186, Mismatches: 40, Indels: 13
0.78 0.17 0.05
Matches are distributed among these distances:
144 2 0.01
146 89 0.48
147 87 0.47
148 8 0.04
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (146 bp):
AAAACGCCACAGGTGTGAGCTAAGTGTTGATGAAACGACTTCGTTTTGACTTATAGTTAGTGGCG
CTTGACTCAAAACGCCGCAAAAATGTTCTAACATTTATAGAAACGAGGCCGTTTTGTAATATTAT
TAGTGGCATTTATTCA
Found at i:48919680 original size:7 final size:7
Alignment explanation
Indices: 48919668--48919693 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
48919658 CAAGTTATTG
48919668 ATTTTCA
1 ATTTTCA
48919675 ATTTTCA
1 ATTTTCA
48919682 ATTTTCA
1 ATTTTCA
48919689 ATTTT
1 ATTTT
48919694 ATGTCAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.12, G:0.00, T:0.62
Consensus pattern (7 bp):
ATTTTCA
Found at i:48919959 original size:20 final size:19
Alignment explanation
Indices: 48919917--48919969 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 19
48919907 ACTTATTAAT
*
48919917 ATATATATTTTAA-AGTTA
1 ATATATATTTTAATATTTA
48919935 ATATATATTTTCAATATTTA
1 ATATATATTTT-AATATTTA
*
48919955 TTATAT-TTTTAATAT
1 ATATATATTTTAATAT
48919970 ATTTTTACAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 16 0.52
19 6 0.19
20 9 0.29
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (19 bp):
ATATATATTTTAATATTTA
Found at i:48920136 original size:13 final size:13
Alignment explanation
Indices: 48920120--48920284 Score: 127
Period size: 13 Copynumber: 12.5 Consensus size: 13
48920110 TTACTAAAAT
*
48920120 TTACTTTAATATA
1 TTACTTAAATATA
*
48920133 TTACTTGAATATA
1 TTACTTAAATATA
*
48920146 TTACTTAAATAAA
1 TTACTTAAATATA
*
48920159 TTACTTAAATACA
1 TTACTTAAATATA
*
48920172 TTACTTACTAAAAT-
1 TTACTTA--AATATA
** *
48920186 TTGGTTAAATTTA
1 TTACTTAAATATA
* *
48920199 TTACGTAAATATG
1 TTACTTAAATATA
*
48920212 TTACTTAAATACA
1 TTACTTAAATATA
*
48920225 TTACTTACTAAAAT-
1 TTACTTA--AATATA
** *
48920239 TTGTTTAAATTTA
1 TTACTTAAATATA
*
48920252 TTACTTAAATATG
1 TTACTTAAATATA
*
48920265 TTACTTAAATACA
1 TTACTTAAATATA
48920278 TTACTTA
1 TTACTTA
48920285 CTAAAATTTA
Statistics
Matches: 116, Mismatches: 30, Indels: 12
0.73 0.19 0.08
Matches are distributed among these distances:
12 6 0.05
13 94 0.81
14 10 0.09
15 6 0.05
ACGTcount: A:0.41, C:0.10, G:0.04, T:0.45
Consensus pattern (13 bp):
TTACTTAAATATA
Found at i:48920201 original size:53 final size:53
Alignment explanation
Indices: 48920144--48920293 Score: 264
Period size: 53 Copynumber: 2.8 Consensus size: 53
48920134 TACTTGAATA
**
48920144 TATTACTTAAATAAATTACTTAAATACATTACTTACTAAAATTTGGTTAAATT
1 TATTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTGGTTAAATT
* *
48920197 TATTACGTAAATATGTTACTTAAATACATTACTTACTAAAATTTGTTTAAATT
1 TATTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTGGTTAAATT
48920250 TATTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTT
1 TATTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTT
48920294 AAGTATATAT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
53 92 1.00
ACGTcount: A:0.41, C:0.10, G:0.04, T:0.45
Consensus pattern (53 bp):
TATTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTGGTTAAATT
Found at i:48920509 original size:16 final size:16
Alignment explanation
Indices: 48920488--48920537 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 16
48920478 CTTATATGTA
48920488 AACTTACATAATACAT
1 AACTTACATAATACAT
*
48920504 AACTTACAT-GT---T
1 AACTTACATAATACAT
48920516 AACTTACATAATACAT
1 AACTTACATAATACAT
48920532 AACTTA
1 AACTTA
48920538 TAAATTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
12 10 0.36
13 1 0.04
15 1 0.04
16 16 0.57
ACGTcount: A:0.46, C:0.18, G:0.02, T:0.34
Consensus pattern (16 bp):
AACTTACATAATACAT
Found at i:48920514 original size:28 final size:28
Alignment explanation
Indices: 48920453--48920537 Score: 107
Period size: 28 Copynumber: 2.9 Consensus size: 28
48920443 AATATTTATA
*
48920453 TAAACTTACATAACTATCACATAAGCTTATATG
1 TAAACTTACAT-A--AT-ACATAA-CTTACATG
48920486 TAAACTTACATAATACATAACTTACATG
1 TAAACTTACATAATACATAACTTACATG
*
48920514 TTAACTTACATAATACATAACTTA
1 TAAACTTACATAATACATAACTTA
48920538 TAAATTTTTT
Statistics
Matches: 50, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
28 30 0.60
29 6 0.12
30 2 0.04
32 1 0.02
33 11 0.22
ACGTcount: A:0.45, C:0.18, G:0.04, T:0.34
Consensus pattern (28 bp):
TAAACTTACATAATACATAACTTACATG
Found at i:48920576 original size:67 final size:67
Alignment explanation
Indices: 48920486--48920722 Score: 260
Period size: 67 Copynumber: 3.6 Consensus size: 67
48920476 AGCTTATATG
*
48920486 TAAACTTACATAATACATAACTTACATGTTAACTTACATAATACATAACTTATAAATTTTTTTTA
1 TAAACTTACATAATACATAACTTACATATTAACTTACATAATACATAACTTATAAATTTTTTTTA
48920551 TA
66 TA
* * * *
48920553 TAAACTTACATAATGCATTACTTACATATT-A---AC-T--TACATAACTTATTAA---TATTTA
1 TAAACTTACATAATACATAACTTACATATTAACTTACATAATACATAACTTATAAATTTTTTTTA
48920608 TA
66 TA
* * *
48920610 TAAACTTACATAACTATCACATAAACTTATATGTAAACTTACATAATACATAACTTATAAATTTT
1 TAAACTTACAT-A--AT-ACAT-AACTTACATATTAACTTACATAATACATAACTTATAAATTTT
48920675 TTTTATA
61 TTTTATA
* * *
48920682 TAAACTTACATAACACATTACTTACATATGAACTTACATAA
1 TAAACTTACATAATACATAACTTACATATTAACTTACATAA
48920723 GTTATCTACA
Statistics
Matches: 138, Mismatches: 17, Indels: 30
0.75 0.09 0.16
Matches are distributed among these distances:
57 18 0.13
58 1 0.01
60 16 0.12
61 3 0.02
62 9 0.07
63 3 0.02
66 3 0.02
67 47 0.34
68 4 0.03
69 15 0.11
71 1 0.01
72 18 0.13
ACGTcount: A:0.44, C:0.15, G:0.02, T:0.40
Consensus pattern (67 bp):
TAAACTTACATAATACATAACTTACATATTAACTTACATAATACATAACTTATAAATTTTTTTTA
TA
Found at i:48920600 original size:28 final size:30
Alignment explanation
Indices: 48920550--48920624 Score: 84
Period size: 28 Copynumber: 2.6 Consensus size: 30
48920540 AATTTTTTTT
*
48920550 ATATAAACTTACATAA-TGCATTACT-TAC
1 ATATAAACTTACATAACTGCATTAATATAC
* * **
48920578 ATATTAACTTACATAACT-TATTAATATTT
1 ATATAAACTTACATAACTGCATTAATATAC
48920607 ATATAAACTTACATAACT
1 ATATAAACTTACATAACT
48920625 ATCACATAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
28 20 0.51
29 19 0.49
ACGTcount: A:0.44, C:0.15, G:0.01, T:0.40
Consensus pattern (30 bp):
ATATAAACTTACATAACTGCATTAATATAC
Found at i:48920654 original size:129 final size:124
Alignment explanation
Indices: 48920486--48920727 Score: 385
Period size: 129 Copynumber: 1.9 Consensus size: 124
48920476 AGCTTATATG
*
48920486 TAAACTTACATAATACATAACTTACATGTTAACTTACATAATACATAACTTATAAATTTTTTTTA
1 TAAACTTACATAATACATAACTTACATGTAAACTTACATAATACATAACTTATAAATTTTTTTTA
** *
48920551 TATAAACTTACATAATGCATTACTTACATATTAACTTACATAACTTATTAATATTTATA
66 TATAAACTTACATAACACATTACTTACATATGAACTTACATAACTTATTAATATTTATA
*
48920610 TAAACTTACATAACTATCACATAAACTTATATGTAAACTTACATAATACATAACTTATAAATTTT
1 TAAACTTACAT-A--AT-ACAT-AACTTACATGTAAACTTACATAATACATAACTTATAAATTTT
*
48920675 TTTTATATAAACTTACATAACACATTACTTACATATGAACTTACATAAGTTAT
61 TTTTATATAAACTTACATAACACATTACTTACATATGAACTTACATAACTTAT
48920728 CTACAAGCTT
Statistics
Matches: 107, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
124 11 0.10
125 1 0.01
127 2 0.02
128 4 0.04
129 89 0.83
ACGTcount: A:0.43, C:0.14, G:0.02, T:0.40
Consensus pattern (124 bp):
TAAACTTACATAATACATAACTTACATGTAAACTTACATAATACATAACTTATAAATTTTTTTTA
TATAAACTTACATAACACATTACTTACATATGAACTTACATAACTTATTAATATTTATA
Found at i:48920778 original size:129 final size:129
Alignment explanation
Indices: 48920516--48920790 Score: 373
Period size: 129 Copynumber: 2.1 Consensus size: 129
48920506 CTTACATGTT
**
48920516 AACTTACATAATACATAACTTATAAATTTTTTTTATATAAACTTACATAATGCATTACTTACATA
1 AACTTACATAATACATAACTTATAAATTTTTTTTATATAAACTTACATAACACATTACTTACATA
* * * *
48920581 TTAACTTACATAACTTATTAATATTTATATAAACTTACATAACTATCACATAAACTTATATGTA
66 TGAACTTACATAACTTATTAATATTTATATAAACTTACATAACTATCACATAAACTAACATGAA
48920645 AACTTACATAATACATAACTTATAAATTTTTTTTATATAAACTTACATAACACATTACTTACATA
1 AACTTACATAATACATAACTTATAAATTTTTTTTATATAAACTTACATAACACATTACTTACATA
* * *
48920710 TGAACTTACATAAGTTATCTACA-AGCTTATATATAAACTTGCATAACT-T-ACGT-AA-TAACA
66 TGAACTTACATAACTTAT-TA-ATA--TT-TATATAAACTTACATAACTATCACATAAACTAACA
48920770 T-AA
126 TGAA
48920773 CAACTTACATAATACATA
1 -AACTTACATAATACATA
48920791 GCATACATAA
Statistics
Matches: 131, Mismatches: 9, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
128 1 0.01
129 100 0.76
130 5 0.04
131 4 0.03
132 3 0.02
133 18 0.14
ACGTcount: A:0.44, C:0.15, G:0.03, T:0.38
Consensus pattern (129 bp):
AACTTACATAATACATAACTTATAAATTTTTTTTATATAAACTTACATAACACATTACTTACATA
TGAACTTACATAACTTATTAATATTTATATAAACTTACATAACTATCACATAAACTAACATGAA
Found at i:48920799 original size:16 final size:16
Alignment explanation
Indices: 48920751--48920841 Score: 92
Period size: 16 Copynumber: 5.3 Consensus size: 16
48920741 TATAAACTTG
*
48920751 CATAACTTACGTAATAA
1 CATAACTTACATAAT-A
48920768 CATAACAACTTACATAATA
1 CAT---AACTTACATAATA
* *
48920787 CATAGCATACATAACTTA
1 CATAACTTACATAA--TA
48920805 CATAACTTACATAATA
1 CATAACTTACATAATA
*
48920821 CAAAACTTACATAATA
1 CATAACTTACATAATA
48920837 CATAA
1 CATAA
48920842 TAACTTACAA
Statistics
Matches: 62, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
16 30 0.48
17 3 0.05
18 14 0.23
19 4 0.06
20 11 0.18
ACGTcount: A:0.51, C:0.20, G:0.02, T:0.27
Consensus pattern (16 bp):
CATAACTTACATAATA
Found at i:48920806 original size:9 final size:9
Alignment explanation
Indices: 48920774--48921277 Score: 222
Period size: 9 Copynumber: 57.8 Consensus size: 9
48920764 ATAACATAAC
48920774 AACTTACAT
1 AACTTACAT
48920783 AA--TACAT
1 AACTTACAT
* *
48920790 AGCATACAT
1 AACTTACAT
48920799 AACTTACAT
1 AACTTACAT
48920808 AACTTACAT
1 AACTTACAT
*
48920817 AA--TACAA
1 AACTTACAT
48920824 AACTTACAT
1 AACTTACAT
*
48920833 AATACATA-AT
1 -A-ACTTACAT
48920843 AACTTAC--
1 AACTTACAT
*
48920850 AACTTAAAT
1 AACTTACAT
*
48920859 AACATACAT
1 AACTTACAT
* **
48920868 TACTTTGAT
1 AACTTACAT
*
48920877 AACTTACCT
1 AACTTACAT
48920886 AACTTACAT
1 AACTTACAT
*
48920895 AA--TACAC
1 AACTTACAT
48920902 AACTTACAT
1 AACTTACAT
* *
48920911 AGCTTACTT
1 AACTTACAT
48920920 AA--TACAT
1 AACTTACAT
*
48920927 AACTTACGT
1 AACTTACAT
48920936 AACTT--AT
1 AACTTACAT
*
48920943 ACACGTACAT
1 A-ACTTACAT
48920953 AACTTACAT
1 AACTTACAT
* *
48920962 AATTTACTT
1 AACTTACAT
48920971 AA--TACAT
1 AACTTACAT
* *
48920978 AA-ATATAT
1 AACTTACAT
* * *
48920986 ATCATATGAT
1 AACTTA-CAT
48920996 ATACTTACAT
1 A-ACTTACAT
* * **
48921006 AAATCATTT
1 AACTTACAT
48921015 ATACTTACCACT
1 A-ACTTA-CA-T
* *
48921027 GAAC-AACTT
1 -AACTTACAT
* * *
48921036 ACCGTACAA
1 AACTTACAT
*
48921045 AATTTACAT
1 AACTTACAT
*
48921054 AACTTAAAT
1 AACTTACAT
* * *
48921063 ATCTCACAC
1 AACTTACAT
48921072 AACTTACAT
1 AACTTACAT
*
48921081 AACCTACAT
1 AACTTACAT
48921090 AA--TACATTT
1 AACTTACA--T
48921099 AACTTACAT
1 AACTTACAT
48921108 AACTTACAT
1 AACTTACAT
48921117 AACTTACAT
1 AACTTACAT
48921126 AA--TACAT
1 AACTTACAT
48921133 AACTTACAT
1 AACTTACAT
*
48921142 AATACATA-AT
1 -A-ACTTACAT
48921152 AACTTAC--
1 AACTTACAT
*
48921159 AACTTAAAT
1 AACTTACAT
*
48921168 AACATACAT
1 AACTTACAT
* **
48921177 TACTTTGAT
1 AACTTACAT
*
48921186 AACTTACCT
1 AACTTACAT
48921195 AACTTACAT
1 AACTTACAT
*
48921204 AA--TACAC
1 AACTTACAT
48921211 AACTTACAT
1 AACTTACAT
* *
48921220 AGCTTACTT
1 AACTTACAT
48921229 AA--TACAT
1 AACTTACAT
*
48921236 AACTTACGT
1 AACTTACAT
48921245 AACTT--AT
1 AACTTACAT
*
48921252 ACACGTACAT
1 A-ACTTACAT
48921262 AACTTACAT
1 AACTTACAT
*
48921271 AATTTAC
1 AACTTAC
48921278 TTAATACATA
Statistics
Matches: 361, Mismatches: 91, Indels: 86
0.67 0.17 0.16
Matches are distributed among these distances:
7 69 0.19
8 21 0.06
9 229 0.63
10 22 0.06
11 16 0.04
12 3 0.01
13 1 0.00
ACGTcount: A:0.44, C:0.20, G:0.02, T:0.33
Consensus pattern (9 bp):
AACTTACAT
Found at i:48920841 original size:69 final size:75
Alignment explanation
Indices: 48920754--48920911 Score: 186
Period size: 78 Copynumber: 2.1 Consensus size: 75
48920744 AAACTTGCAT
*
48920754 AACTTACGTAATAACATAACAACTTAC-A-T-AAT-ACATAGCA-TAC-ATAACTTACATAACTT
1 AACTTACATAATAACATAACAACTTACAACTAAATAACATA-CATTACTATAACTTACATAACTT
48920813 ACATAATACAA
65 ACATAATACAA
* *
48920824 AACTTACATAAT-ACATAATAACTTACAACTTAAATAACATACATTACTTTGATAACTTACCTAA
1 AACTTACATAATAACATAACAACTTACAAC-TAAATAACATACATTAC--T-ATAACTTACATAA
*
48920888 CTTACATAATACAC
62 CTTACATAATACAA
48920902 AACTTACATA
1 AACTTACATA
48920912 GCTTACTTAA
Statistics
Matches: 74, Mismatches: 4, Indels: 12
0.82 0.04 0.13
Matches are distributed among these distances:
69 13 0.18
70 12 0.16
72 1 0.01
73 5 0.07
74 8 0.11
78 35 0.47
ACGTcount: A:0.48, C:0.20, G:0.02, T:0.30
Consensus pattern (75 bp):
AACTTACATAATAACATAACAACTTACAACTAAATAACATACATTACTATAACTTACATAACTTA
CATAATACAA
Found at i:48920916 original size:25 final size:25
Alignment explanation
Indices: 48920772--48920938 Score: 108
Period size: 25 Copynumber: 6.6 Consensus size: 25
48920762 TAATAACATA
48920772 ACAACTTACAT-A-ATACATAGCATAC
1 ACAACTTACATAACATACATA--ATAC
* *
48920797 ATAACTTACATAACTTACATAATAC
1 ACAACTTACATAACATACATAATAC
*
48920822 AAAACTTACAT-A-ATACATAATAAC
1 ACAACTTACATAACATACATAAT-AC
* * **
48920846 TTACAACTTAAATAACATACATTACTTTG
1 --ACAACTTACATAACATACA-TA-ATAC
* * *
48920875 ATAACTTACCTAACTTACATAATAC
1 ACAACTTACATAACATACATAATAC
* * *
48920900 ACAACTTACATAGCTTACTTAATAC
1 ACAACTTACATAACATACATAATAC
* *
48920925 ATAACTTACGTAAC
1 ACAACTTACATAAC
48920939 TTATACACGT
Statistics
Matches: 110, Mismatches: 23, Indels: 18
0.73 0.15 0.12
Matches are distributed among these distances:
23 8 0.07
24 3 0.03
25 57 0.52
26 12 0.11
27 22 0.20
28 5 0.05
29 2 0.02
30 1 0.01
ACGTcount: A:0.46, C:0.21, G:0.02, T:0.31
Consensus pattern (25 bp):
ACAACTTACATAACATACATAATAC
Found at i:48920941 original size:25 final size:25
Alignment explanation
Indices: 48920875--48920979 Score: 115
Period size: 25 Copynumber: 4.2 Consensus size: 25
48920865 CATTACTTTG
* *
48920875 ATAACTTACCTAACTTACATAATAC
1 ATAACTTACATAACTTACTTAATAC
* *
48920900 ACAACTTACATAGCTTACTTAATAC
1 ATAACTTACATAACTTACTTAATAC
*
48920925 ATAACTTACGTAACTTA--TACACGTAC
1 ATAACTTACATAACTTACTTA-A--TAC
*
48920951 ATAACTTACATAATTTACTTAATAC
1 ATAACTTACATAACTTACTTAATAC
48920976 ATAA
1 ATAA
48920980 ATATATATCA
Statistics
Matches: 66, Mismatches: 9, Indels: 10
0.78 0.11 0.12
Matches are distributed among these distances:
23 2 0.03
24 1 0.02
25 42 0.64
26 18 0.27
27 1 0.02
28 2 0.03
ACGTcount: A:0.43, C:0.21, G:0.03, T:0.33
Consensus pattern (25 bp):
ATAACTTACATAACTTACTTAATAC
Found at i:48921112 original size:36 final size:34
Alignment explanation
Indices: 48921072--48921250 Score: 123
Period size: 34 Copynumber: 5.2 Consensus size: 34
48921062 TATCTCACAC
48921072 AACTTACATAACCTACATAATACATTTAACTTACAT
1 AACTTACATAACCTACATAATACA--TAACTTACAT
*
48921108 AACTTACATAACTTACATAATACATAACTTACAT
1 AACTTACATAACCTACATAATACATAACTTACAT
* * * * *
48921142 AATACATA-ATAACTTACA-ACTTAAATAACATACAT
1 -A-ACTTACATAACCTACATA-ATACATAACTTACAT
* ** * * *
48921177 TACTTTGATAACTTACCTAACTTACATAA--TACAC
1 AACTTACATAACCTACATAA--TACATAACTTACAT
* * * *
48921211 AACTTACATAGCTTACTTAATACATAACTTACGT
1 AACTTACATAACCTACATAATACATAACTTACAT
48921245 AACTTA
1 AACTTA
48921251 TACACGTACA
Statistics
Matches: 115, Mismatches: 19, Indels: 20
0.75 0.12 0.13
Matches are distributed among these distances:
32 7 0.06
33 3 0.03
34 48 0.42
35 24 0.21
36 33 0.29
ACGTcount: A:0.45, C:0.21, G:0.02, T:0.33
Consensus pattern (34 bp):
AACTTACATAACCTACATAATACATAACTTACAT
Found at i:48921133 original size:16 final size:16
Alignment explanation
Indices: 48921076--48921150 Score: 105
Period size: 16 Copynumber: 4.4 Consensus size: 16
48921066 TCACACAACT
*
48921076 TACATAACCTACATAA
1 TACATAACTTACATAA
48921092 TACATTTAACTTACATAA
1 TACA--TAACTTACATAA
48921110 CTTACATAACTTACATAA
1 --TACATAACTTACATAA
48921128 TACATAACTTACATAA
1 TACATAACTTACATAA
48921144 TACATAA
1 TACATAA
48921151 TAACTTACAA
Statistics
Matches: 54, Mismatches: 1, Indels: 8
0.86 0.02 0.13
Matches are distributed among these distances:
16 27 0.50
18 23 0.43
20 4 0.07
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.32
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:48921140 original size:309 final size:307
Alignment explanation
Indices: 48920778--48921347 Score: 1095
Period size: 309 Copynumber: 1.9 Consensus size: 307
48920768 CATAACAACT
*
48920778 TACATAATACATAGCATACATAACTTACATAACTTACATAATACAAAACTTACATAATACATAAT
1 TACATAATACATAACATACATAACTTACATAACTTACATAATACAAAACTTACATAATACATAAT
48920843 AACTTACAACTTAAATAACATACATTACTTTGATAACTTACCTAACTTACATAATACACAACTTA
66 AACTTACAACTTAAATAACATACATTACTTTGATAACTTACCTAACTTACATAATACACAACTTA
48920908 CATAGCTTACTTAATACATAACTTACGTAACTTATACACGTACATAACTTACATAATTTACTTAA
131 CATAGCTTACTTAATACATAACTTACGTAACTTATACACGTACATAACTTACATAATTTACTTAA
48920973 TACATAAATATATATCATATGATATACTTACATAAATCATTTATACTTACCACTGAACAACTTAC
196 TACATAAATATATATCATATGATATACTTACATAAATCATTTATACTTACCACTGAACAACTTAC
48921038 CGTACAAAATTTACATAACTTAAATATCTCACACAACTTACATAACC
261 CGTACAAAATTTACATAACTTAAATATCTCACACAACTTACATAACC
* *
48921085 TACATAATACATTTAACTTACATAACTTACATAACTTACATAATACATAACTTACATAATACATA
1 TACATAATACA--TAACATACATAACTTACATAACTTACATAATACAAAACTTACATAATACATA
48921150 ATAACTTACAACTTAAATAACATACATTACTTTGATAACTTACCTAACTTACATAATACACAACT
64 ATAACTTACAACTTAAATAACATACATTACTTTGATAACTTACCTAACTTACATAATACACAACT
48921215 TACATAGCTTACTTAATACATAACTTACGTAACTTATACACGTACATAACTTACATAATTTACTT
129 TACATAGCTTACTTAATACATAACTTACGTAACTTATACACGTACATAACTTACATAATTTACTT
48921280 AATACATAAATATATATCATATGATATACTTACATAAATCATTTATACTTACCACTGAACAACTT
194 AATACATAAATATATATCATATGATATACTTACATAAATCATTTATACTTACCACTGAACAACTT
48921345 ACC
259 ACC
48921348 CTTGTAATTT
Statistics
Matches: 258, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
307 11 0.04
309 247 0.96
ACGTcount: A:0.44, C:0.20, G:0.02, T:0.33
Consensus pattern (307 bp):
TACATAATACATAACATACATAACTTACATAACTTACATAATACAAAACTTACATAATACATAAT
AACTTACAACTTAAATAACATACATTACTTTGATAACTTACCTAACTTACATAATACACAACTTA
CATAGCTTACTTAATACATAACTTACGTAACTTATACACGTACATAACTTACATAATTTACTTAA
TACATAAATATATATCATATGATATACTTACATAAATCATTTATACTTACCACTGAACAACTTAC
CGTACAAAATTTACATAACTTAAATATCTCACACAACTTACATAACC
Found at i:48921170 original size:87 final size:85
Alignment explanation
Indices: 48921070--48921237 Score: 205
Period size: 87 Copynumber: 1.9 Consensus size: 85
48921060 AATATCTCAC
* * *
48921070 ACAACTTACATAACCTACATAATACATT-TAACTTACATAACTTACATAACTTACATAA-TACAT
1 ACAACTTAAATAACATACAT--TACATTATAACTTACATAACTTACATAA--TACACAACTACAT
48921133 AACTTACATAATACATAATAACTT
62 AACTTACATAATACATAATAACTT
* * *
48921157 ACAACTTAAATAACATACATTACTTTGATAACTTACCTAACTTACATAATACACAACTTACATAG
1 ACAACTTAAATAACATACATTACATT-ATAACTTACATAACTTACATAATACACAAC-TACATAA
*
48921222 CTTACTTAATACATAA
64 CTTACATAATACATAA
48921238 CTTACGTAAC
Statistics
Matches: 70, Mismatches: 7, Indels: 8
0.82 0.08 0.09
Matches are distributed among these distances:
85 11 0.16
87 59 0.84
ACGTcount: A:0.46, C:0.21, G:0.01, T:0.32
Consensus pattern (85 bp):
ACAACTTAAATAACATACATTACATTATAACTTACATAACTTACATAATACACAACTACATAACT
TACATAATACATAATAACTT
Found at i:48926808 original size:21 final size:21
Alignment explanation
Indices: 48926784--48926849 Score: 78
Period size: 21 Copynumber: 3.1 Consensus size: 21
48926774 CTACAACTTA
*
48926784 AAGCAGAGGCGGCAACGAGGG
1 AAGCAGAGGCGGCAACGAGAG
* *
48926805 AAGCAGAGGCTGCAGCGAGAG
1 AAGCAGAGGCGGCAACGAGAG
* * *
48926826 AAGCAGAGGCTGCAGCGCGAG
1 AAGCAGAGGCGGCAACGAGAG
48926847 AAG
1 AAG
48926850 TAGCGAGAGA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.33, C:0.20, G:0.44, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCGGCAACGAGAG
Found at i:48937357 original size:30 final size:30
Alignment explanation
Indices: 48937321--48937378 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
48937311 TCTGTCTCGG
48937321 CATGTTCGCTTCGATGAGACACTCTTTCGC
1 CATGTTCGCTTCGATGAGACACTCTTTCGC
*
48937351 CATGTTCGCTTTGATGAGACACTCTTTC
1 CATGTTCGCTTCGATGAGACACTCTTTC
48937379 CTTTTCAGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.17, C:0.28, G:0.19, T:0.36
Consensus pattern (30 bp):
CATGTTCGCTTCGATGAGACACTCTTTCGC
Found at i:48944093 original size:18 final size:19
Alignment explanation
Indices: 48944061--48944099 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
48944051 TAGCAATTCC
*
48944061 ATGCATGAAATTTCAACAA
1 ATGCATGAAAGTTCAACAA
*
48944080 ATGC-TGAAAGTTCAGCAA
1 ATGCATGAAAGTTCAACAA
48944098 AT
1 AT
48944100 CAAAGTCCAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.26
Consensus pattern (19 bp):
ATGCATGAAAGTTCAACAA
Found at i:48945231 original size:101 final size:101
Alignment explanation
Indices: 48945011--48945249 Score: 345
Period size: 101 Copynumber: 2.4 Consensus size: 101
48945001 TGAATTGACA
* *
48945011 GATAAGACCATAACTAGGTTATGGCTCTATGAATGTAACACCATGGTTGGACCATAACAGTGTTT
1 GATAAGACCATAACTGGGTTATGGCACTATGAATGTAACACCATGGTTGGACCATAACAGTGTTT
48945076 ATATGTAAAACCATAGCTGAGCTATGACATTCTGAT
66 ATATGTAAAACCATAGCTGAGCTATGACATTCTGAT
* * * * *
48945112 GATAAGACCGTAACTGGGTTATGACACTATGAACGTAAGACCATGGTTGGACCATGACAGTGTTT
1 GATAAGACCATAACTGGGTTATGGCACTATGAATGTAACACCATGGTTGGACCATAACAGTGTTT
* * * *
48945177 ATATGTAAGACCATAGTTGGGCTATGGCATTCTGAT
66 ATATGTAAAACCATAGCTGAGCTATGACATTCTGAT
* * *
48945213 GATAAGATCATAATTGGGTTGTGGCACTA-GAATGTAA
1 GATAAGACCATAACTGGGTTATGGCACTATGAATGTAA
48945250 AGGATGAATT
Statistics
Matches: 121, Mismatches: 17, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
100 7 0.06
101 114 0.94
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.29
Consensus pattern (101 bp):
GATAAGACCATAACTGGGTTATGGCACTATGAATGTAACACCATGGTTGGACCATAACAGTGTTT
ATATGTAAAACCATAGCTGAGCTATGACATTCTGAT
Found at i:48948215 original size:3 final size:3
Alignment explanation
Indices: 48948207--48948243 Score: 58
Period size: 3 Copynumber: 12.3 Consensus size: 3
48948197 ATATGTAGGT
48948207 ATA ATA ATA TATA AT- ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA A
48948244 CAAAATTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 27 0.84
4 3 0.09
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:48948677 original size:21 final size:23
Alignment explanation
Indices: 48948654--48948696 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
48948644 GGGTATCTAC
*
48948654 AAATTAAATC-TCTATGATTACA
1 AAATCAAATCTTCTATGATTACA
*
48948676 AAATCATATCTTCTATGATTA
1 AAATCAAATCTTCTATGATTA
48948697 TATATCATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.42, C:0.14, G:0.05, T:0.40
Consensus pattern (23 bp):
AAATCAAATCTTCTATGATTACA
Found at i:48956332 original size:11 final size:11
Alignment explanation
Indices: 48956318--48956361 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
48956308 AGATAAATAT
48956318 TATTTTATTAA
1 TATTTTATTAA
*
48956329 TATTTTAATGATA
1 TATTTT-ATTA-A
*
48956342 TATTTTATTAT
1 TATTTTATTAA
48956353 TATTTTATT
1 TATTTTATT
48956362 TAGTATATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
11 15 0.54
12 6 0.21
13 7 0.25
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:48958305 original size:24 final size:24
Alignment explanation
Indices: 48958273--48958320 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
48958263 TCGTTCTGTG
*
48958273 GCAATGGATGAATTGACGGCAAAT
1 GCAAAGGATGAATTGACGGCAAAT
*
48958297 GCAAAGGATGAATTGATGGCAAAT
1 GCAAAGGATGAATTGACGGCAAAT
48958321 TACCCAAGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.40, C:0.10, G:0.29, T:0.21
Consensus pattern (24 bp):
GCAAAGGATGAATTGACGGCAAAT
Found at i:48958489 original size:42 final size:42
Alignment explanation
Indices: 48958420--48958602 Score: 242
Period size: 42 Copynumber: 4.4 Consensus size: 42
48958410 ATTTCATTTT
* * * ** **
48958420 AACCCTTATGAGTTTCCGTTAAGCTCTTTTGAGCTTTAGTTTC
1 AACCCTTATGGGTTTTCGTTCAGCTCTTACGAGCTTCCG-TTC
** *
48958463 -ACCCTTATGGGTTTTTTTTCAACTCTTACGAGCTTCCGTTC
1 AACCCTTATGGGTTTTCGTTCAGCTCTTACGAGCTTCCGTTC
48958504 AACCCTTATGGGTTTTCGTTCAGCTCTTACGAGCTTCCGTTC
1 AACCCTTATGGGTTTTCGTTCAGCTCTTACGAGCTTCCGTTC
*
48958546 AACCCTTATGGGTTTTCGTTCAGCTCTTATGAGCTTCCGTTC
1 AACCCTTATGGGTTTTCGTTCAGCTCTTACGAGCTTCCGTTC
*
48958588 AGCCCTTATGGGTTT
1 AACCCTTATGGGTTT
48958603 CTGTTTAGCA
Statistics
Matches: 124, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
41 3 0.02
42 121 0.98
ACGTcount: A:0.15, C:0.25, G:0.18, T:0.42
Consensus pattern (42 bp):
AACCCTTATGGGTTTTCGTTCAGCTCTTACGAGCTTCCGTTC
Found at i:48958504 original size:21 final size:21
Alignment explanation
Indices: 48958480--48958597 Score: 110
Period size: 21 Copynumber: 5.6 Consensus size: 21
48958470 TGGGTTTTTT
*
48958480 TTCAACTCTTACGAGCTTCCG
1 TTCAACTCTTATGAGCTTCCG
* * * *
48958501 TTCAACCCTTATGGGTTTTCG
1 TTCAACTCTTATGAGCTTCCG
* *
48958522 TTCAGCTCTTACGAGCTTCCG
1 TTCAACTCTTATGAGCTTCCG
* * * *
48958543 TTCAACCCTTATGGGTTTTCG
1 TTCAACTCTTATGAGCTTCCG
*
48958564 TTCAGCTCTTATGAGCTTCCG
1 TTCAACTCTTATGAGCTTCCG
* *
48958585 TTCAGCCCTTATG
1 TTCAACTCTTATG
48958598 GGTTTCTGTT
Statistics
Matches: 74, Mismatches: 23, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 74 1.00
ACGTcount: A:0.15, C:0.29, G:0.18, T:0.38
Consensus pattern (21 bp):
TTCAACTCTTATGAGCTTCCG
Found at i:48958616 original size:21 final size:21
Alignment explanation
Indices: 48958508--48958618 Score: 73
Period size: 21 Copynumber: 5.3 Consensus size: 21
48958498 CCGTTCAACC
*
48958508 CTTATGGGTTT-TCGTTCAGCT
1 CTTATGGGTTTCT-GTTCAGCA
* * * * * *
48958529 CTTACGAGCTTCCGTTCAACC
1 CTTATGGGTTTCTGTTCAGCA
*
48958550 CTTATGGGTTT-TCGTTCAGCT
1 CTTATGGGTTTCT-GTTCAGCA
* * * *
48958571 CTTATGAGCTTCCGTTCAGCC
1 CTTATGGGTTTCTGTTCAGCA
*
48958592 CTTATGGGTTTCTGTTTAGCA
1 CTTATGGGTTTCTGTTCAGCA
48958613 CTTATG
1 CTTATG
48958619 TGCTTTTGTG
Statistics
Matches: 66, Mismatches: 21, Indels: 6
0.71 0.23 0.06
Matches are distributed among these distances:
21 66 1.00
ACGTcount: A:0.14, C:0.24, G:0.21, T:0.41
Consensus pattern (21 bp):
CTTATGGGTTTCTGTTCAGCA
Found at i:48958617 original size:42 final size:41
Alignment explanation
Indices: 48958420--48958623 Score: 221
Period size: 42 Copynumber: 4.9 Consensus size: 41
48958410 ATTTCATTTT
* * * * **
48958420 AACCCTTATGAGTTTCCGTTAAGCTCTTTTGAGCTTTAGTTTC
1 AACCCTTATGGGTTT-TGTTCAGCTCTTATGAGCTTCCG-TTC
* * *
48958463 -ACCCTTATGGGTTTTTTTTCAACTCTTACGAGCTTCCGTTC
1 AACCCTTATGGG-TTTTGTTCAGCTCTTATGAGCTTCCGTTC
*
48958504 AACCCTTATGGGTTTTCGTTCAGCTCTTACGAGCTTCCGTTC
1 AACCCTTATGGGTTTT-GTTCAGCTCTTATGAGCTTCCGTTC
48958546 AACCCTTATGGGTTTTCGTTCAGCTCTTATGAGCTTCCGTTC
1 AACCCTTATGGGTTTT-GTTCAGCTCTTATGAGCTTCCGTTC
* * * *
48958588 AGCCCTTATGGGTTTCTGTTTAGCACTTATGTGCTT
1 AACCCTTATGGGTTT-TGTTCAGCTCTTATGAGCTT
48958624 TTGTGCAACC
Statistics
Matches: 141, Mismatches: 16, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
41 7 0.05
42 130 0.92
43 4 0.03
ACGTcount: A:0.15, C:0.25, G:0.18, T:0.42
Consensus pattern (41 bp):
AACCCTTATGGGTTTTGTTCAGCTCTTATGAGCTTCCGTTC
Found at i:48964975 original size:8 final size:8
Alignment explanation
Indices: 48964962--48964986 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
48964952 ACGGACACAA
48964962 TCGACTAC
1 TCGACTAC
48964970 TCGACTAC
1 TCGACTAC
48964978 TCGACTAC
1 TCGACTAC
48964986 T
1 T
48964987 TTTGACTTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.36, G:0.12, T:0.28
Consensus pattern (8 bp):
TCGACTAC
Found at i:48974035 original size:72 final size:75
Alignment explanation
Indices: 48973923--48974062 Score: 171
Period size: 72 Copynumber: 1.9 Consensus size: 75
48973913 AGATGTTCTT
* * *
48973923 AGCTTATTATCATGTTGTTTCATTAAGAAAATTGTATGTAATTATGTAAC-C-C-CCAATTTATG
1 AGCTAATTAACATGTTGTTTCATTAAGAAAATTGTATGTAATTATGTAACACACTCAAATTTATG
48973985 ATATCCTTAG
66 ATATCCTTAG
* * ** *
48973995 AGCTAATTAACATGTTGTTTTATTAGGATGATTG-ATTGTAATTGTGTAACACACTCAAATTTAT
1 AGCTAATTAACATGTTGTTTCATTAAGAAAATTGTA-TGTAATTATGTAACACACTCAAATTTAT
48974059 GATA
65 GATA
48974063 AGACATATGG
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
71 1 0.02
72 41 0.73
73 1 0.02
74 1 0.02
75 12 0.21
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.41
Consensus pattern (75 bp):
AGCTAATTAACATGTTGTTTCATTAAGAAAATTGTATGTAATTATGTAACACACTCAAATTTATG
ATATCCTTAG
Found at i:48974806 original size:20 final size:20
Alignment explanation
Indices: 48974777--48974817 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
48974767 AAAATATTTA
48974777 TATTTGAAATAAATT-ATAT
1 TATTTGAAATAAATTAATAT
*
48974796 TATTTGAAAATACATTAATAT
1 TATTTG-AAATAAATTAATAT
48974817 T
1 T
48974818 TTTTATTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 6 0.32
20 8 0.42
21 5 0.26
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.46
Consensus pattern (20 bp):
TATTTGAAATAAATTAATAT
Found at i:48975181 original size:24 final size:24
Alignment explanation
Indices: 48975122--48975169 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
48975112 ATTTTATTTG
48975122 TTATTAT-TAATTAGTTTTAAACAT
1 TTATTATAT-ATTAGTTTTAAACAT
*
48975146 TTATTATATATTATTTTTAAACAT
1 TTATTATATATTAGTTTTAAACAT
48975170 ATTTCTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 21 0.95
25 1 0.05
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (24 bp):
TTATTATATATTAGTTTTAAACAT
Found at i:48981338 original size:16 final size:16
Alignment explanation
Indices: 48981317--48981349 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
48981307 GCTCCTTTGG
48981317 ATGCCCAGTTACTTCC
1 ATGCCCAGTTACTTCC
48981333 ATGCCCAGTTACTTCC
1 ATGCCCAGTTACTTCC
48981349 A
1 A
48981350 GTGAAGCATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.21, C:0.36, G:0.12, T:0.30
Consensus pattern (16 bp):
ATGCCCAGTTACTTCC
Found at i:48981863 original size:21 final size:21
Alignment explanation
Indices: 48981838--48981890 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
48981828 CACCGCTGTT
**
48981838 TCTAATCTCACCGTTACAGTA
1 TCTAATCTCACCACTACAGTA
*
48981859 TCTAATCTCACTACTACAGTA
1 TCTAATCTCACCACTACAGTA
*
48981880 ACTAATCTCAC
1 TCTAATCTCAC
48981891 AGCCACCGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.32, C:0.30, G:0.06, T:0.32
Consensus pattern (21 bp):
TCTAATCTCACCACTACAGTA
Found at i:48982732 original size:20 final size:20
Alignment explanation
Indices: 48982707--48982789 Score: 57
Period size: 20 Copynumber: 4.3 Consensus size: 20
48982697 GTGTAGGACC
48982707 AATAGAGATATTGTTATATA
1 AATAGAGATATTGTTATATA
** *
48982727 AATAGATTTATTGGTATAT-
1 AATAGAGATATTGTTATATA
* *
48982746 ATTATAGAT-TTGTTAT-TCA
1 AATAGAGATATTGTTATAT-A
** *
48982765 TGTA-AGATGTTGTTATATA
1 AATAGAGATATTGTTATATA
48982784 AATAGA
1 AATAGA
48982790 TATGGTGAAC
Statistics
Matches: 46, Mismatches: 12, Indels: 10
0.68 0.18 0.15
Matches are distributed among these distances:
17 1 0.02
18 10 0.22
19 17 0.37
20 18 0.39
ACGTcount: A:0.39, C:0.01, G:0.16, T:0.45
Consensus pattern (20 bp):
AATAGAGATATTGTTATATA
Found at i:48982790 original size:18 final size:18
Alignment explanation
Indices: 48982712--48982792 Score: 58
Period size: 18 Copynumber: 4.3 Consensus size: 18
48982702 GGACCAATAG
48982712 AGATATTGTTATATAAAT
1 AGATATTGTTATATAAAT
* *
48982730 AGATTTATTGGTATATATTAT
1 AGA--TATTGTTATATA-AAT
**
48982751 AGAT-TTGTTAT-TCATGT
1 AGATATTGTTATAT-AAAT
*
48982768 AAGATGTTGTTATATAAAT
1 -AGATATTGTTATATAAAT
48982787 AGATAT
1 AGATAT
48982793 GGTGAACAAT
Statistics
Matches: 49, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
17 3 0.06
18 19 0.39
19 10 0.20
20 12 0.24
21 5 0.10
ACGTcount: A:0.37, C:0.01, G:0.15, T:0.47
Consensus pattern (18 bp):
AGATATTGTTATATAAAT
Found at i:48986207 original size:15 final size:16
Alignment explanation
Indices: 48986187--48986216 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
48986177 AACCAGTATT
48986187 TTTAATT-TTTTTAAA
1 TTTAATTATTTTTAAA
48986202 TTTAATTATTTTTAA
1 TTTAATTATTTTTAA
48986217 TTGGACCGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTAATTATTTTTAAA
Found at i:48987495 original size:25 final size:26
Alignment explanation
Indices: 48987462--48987511 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
48987452 ATTATTTGGA
48987462 AATGCTTAAATATT-ATTTATAATTAT
1 AATGCTTAAATATTAATTT-TAATTAT
48987488 AATG-TTAAATATTAATTTTAATTA
1 AATGCTTAAATATTAATTTTAATTA
48987512 GTATACAGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (26 bp):
AATGCTTAAATATTAATTTTAATTAT
Found at i:48988495 original size:24 final size:24
Alignment explanation
Indices: 48988465--48988521 Score: 64
Period size: 22 Copynumber: 2.4 Consensus size: 24
48988455 AGCTTATCAA
48988465 TTCAAATATTATAATAAAAAAATT
1 TTCAAATATTATAATAAAAAAATT
* *
48988489 TTCAAATA--ATAATTAAAACATT
1 TTCAAATATTATAATAAAAAAATT
*
48988511 TTAAACATATT
1 TTCAA-ATATT
48988522 CAACATACAA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
22 16 0.59
23 3 0.11
24 8 0.30
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (24 bp):
TTCAAATATTATAATAAAAAAATT
Found at i:48995483 original size:180 final size:180
Alignment explanation
Indices: 48995181--48995716 Score: 1000
Period size: 180 Copynumber: 3.0 Consensus size: 180
48995171 TCAGTATAAT
* *
48995181 GTTTTACAAATTGTAACATAACCTGCTAGTATGAAACTAGTATCGGTGTAGACAGTGTGGTTTTT
1 GTTTTACAAATTGTAACATAATCTGCTAGTATGAAACTAGTATCAGTGTAGACAGTGTGGTTTTT
* *
48995246 CAACTCTGATATTATAAAATTTTACCATTAACACTTGGAAAGATCAATATAAAATTTGTGGGAGT
66 GAACTCTAATATTATAAAATTTTACCATTAACACTTGGAAAGATCAATATAAAATTTGTGGGAGT
48995311 AAAGATGGCTTGTATCCTACAACCACACTACATGTGGAATTAAGCTTGAA
131 AAAGATGGCTTGTATCCTACAACCACACTACATGTGGAATTAAGCTTGAA
*
48995361 GTTTTACAAATTGTAACATGATCTGCTAGTATGAAACTAGTATCAGTGTAGACAGTGTGGTTTTT
1 GTTTTACAAATTGTAACATAATCTGCTAGTATGAAACTAGTATCAGTGTAGACAGTGTGGTTTTT
48995426 GAACTCTAATATTATAAAATTTTACCATTAACACTTGGAAAGATCAATATAAAATTTGTGGGAGT
66 GAACTCTAATATTATAAAATTTTACCATTAACACTTGGAAAGATCAATATAAAATTTGTGGGAGT
48995491 AAAGATGGCTTGTATCCTACAACCACACTACATGTGGAATTAAGCTTGAA
131 AAAGATGGCTTGTATCCTACAACCACACTACATGTGGAATTAAGCTTGAA
48995541 GTTTTACAAATTGTAACATAATCTGCTAGTATGAAACTAGTATCAGTGTAGACAGTGTGGTTTTT
1 GTTTTACAAATTGTAACATAATCTGCTAGTATGAAACTAGTATCAGTGTAGACAGTGTGGTTTTT
* *
48995606 GAACTCTAATATTATAAAATTTTACCATTAACACTCGGAAAGATCAAGATAAAATTTGTGGGAGT
66 GAACTCTAATATTATAAAATTTTACCATTAACACTTGGAAAGATCAATATAAAATTTGTGGGAGT
*
48995671 AAAGATGGCATGTATCCTACAACCACACTACATGTGGAATTAAGCT
131 AAAGATGGCTTGTATCCTACAACCACACTACATGTGGAATTAAGCT
48995717 CGAAATCTCC
Statistics
Matches: 347, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
180 347 1.00
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.33
Consensus pattern (180 bp):
GTTTTACAAATTGTAACATAATCTGCTAGTATGAAACTAGTATCAGTGTAGACAGTGTGGTTTTT
GAACTCTAATATTATAAAATTTTACCATTAACACTTGGAAAGATCAATATAAAATTTGTGGGAGT
AAAGATGGCTTGTATCCTACAACCACACTACATGTGGAATTAAGCTTGAA
Found at i:49000529 original size:12 final size:11
Alignment explanation
Indices: 49000506--49000546 Score: 55
Period size: 12 Copynumber: 3.5 Consensus size: 11
49000496 ATCAAAATAA
49000506 TTATTTTCATAT
1 TTATTTT-ATAT
49000518 TTATATTTATAT
1 TTAT-TTTATAT
49000530 TTATTTTATAT
1 TTATTTTATAT
49000541 ATTATT
1 -TTATT
49000547 AAATTTTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 7 0.26
12 17 0.63
13 3 0.11
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.68
Consensus pattern (11 bp):
TTATTTTATAT
Found at i:49002659 original size:5 final size:5
Alignment explanation
Indices: 49002624--49002652 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
49002614 TTATTTCTTT
49002624 TATAA TATAA TATAA TATAA TATAA TATA
1 TATAA TATAA TATAA TATAA TATAA TATA
49002653 TAATATATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:49003397 original size:28 final size:27
Alignment explanation
Indices: 49003341--49003429 Score: 62
Period size: 28 Copynumber: 3.3 Consensus size: 27
49003331 TACGCAATGA
*
49003341 AAATTTTAAAATTATATAAATATTGTTT
1 AAATTTTAAAATTATATAAATA-TATTT
*
49003369 AAATTTTGAATAATTGTATAAATA-ATTT
1 AAATTTT-AA-AATTATATAAATATATTT
* *
49003397 --A-TTAAAAATTCA-ATAAAAAATATTT
1 AAATTTTAAAATT-ATAT-AAATATATTT
49003422 AAATTTTA
1 AAATTTTA
49003430 TTAGTTAATA
Statistics
Matches: 47, Mismatches: 6, Indels: 16
0.68 0.09 0.23
Matches are distributed among these distances:
23 6 0.13
24 6 0.13
25 6 0.13
26 1 0.02
27 1 0.02
28 13 0.28
29 2 0.04
30 12 0.26
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (27 bp):
AAATTTTAAAATTATATAAATATATTT
Found at i:49004549 original size:30 final size:28
Alignment explanation
Indices: 49004515--49004594 Score: 79
Period size: 29 Copynumber: 2.7 Consensus size: 28
49004505 AATATTAATA
* *
49004515 TAAAATTTAAATTTATTATTATACTTTTTT
1 TAAAATTTATATTTATTATTATA--TATTT
* *
49004545 TAAAATTATTTATTTATTTTTATATATTT
1 TAAAATT-TATATTTATTATTATATATTT
*
49004574 TAAATTTTATATATTATTATT
1 TAAAATTTATAT-TTATTATT
49004595 TATTGTCACT
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
28 4 0.10
29 17 0.41
30 7 0.17
31 13 0.32
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.62
Consensus pattern (28 bp):
TAAAATTTATATTTATTATTATATATTT
Found at i:49004557 original size:24 final size:21
Alignment explanation
Indices: 49004520--49004565 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 21
49004510 TAATATAAAA
*
49004520 TTTAAATTTATTATTATACTTTT
1 TTTAAAATTATTATT-TA-TTTT
49004543 TTTAAAATTATTTATTTATTTT
1 TTTAAAATTA-TTATTTATTTT
49004565 T
1 T
49004566 ATATATTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 5 0.24
23 11 0.52
24 5 0.24
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTAAAATTATTATTTATTTT
Found at i:49004577 original size:52 final size:51
Alignment explanation
Indices: 49004520--49004683 Score: 161
Period size: 52 Copynumber: 3.1 Consensus size: 51
49004510 TAATATAAAA
* *
49004520 TTTAAATTTATTATTATACTTTTTTTAAAATTATTTATTTATTTTTATATA-T
1 TTTAAATTTATTATTATA-TTTTTTCAAAA-TATTTATTTATTTATATATACT
* * * *
49004572 TTTAAATTTTATATATTATTATTTATTGTCACTAATATTT-TTTATTTGTATTTATT
1 TTTAAA-TTTAT-TATTA-TATTT-TT-TCA-AAATATTTATTTATTTATATATACT
* *
49004628 TCTTAAATTTATTATTATATTTTTTGAAAATATTTATATATTTATATATACT
1 T-TTAAATTTATTATTATATTTTTTCAAAATATTTATTTATTTATATATACT
49004680 TTTA
1 TTTA
49004684 TTTCTTTTAG
Statistics
Matches: 93, Mismatches: 10, Indels: 19
0.76 0.08 0.16
Matches are distributed among these distances:
51 10 0.11
52 21 0.23
53 7 0.08
54 13 0.14
55 21 0.23
56 14 0.15
57 7 0.08
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (51 bp):
TTTAAATTTATTATTATATTTTTTCAAAATATTTATTTATTTATATATACT
Found at i:49004637 original size:26 final size:25
Alignment explanation
Indices: 49004552--49004649 Score: 65
Period size: 26 Copynumber: 3.6 Consensus size: 25
49004542 TTTTAAAATT
*
49004552 ATTTATTTATTTT-TATATATT-TTAA
1 ATTT-TTTATTTTATTTAT-TTCTTAA
*
49004577 ATTTTATATATTATTATTTATTGTCACTAA
1 ATTTT-T-TATT-TTATTTATT-TC-TTAA
49004607 TATTTTTTATTTGTATTTATTTCTTAA
1 -ATTTTTTATTT-TATTTATTTCTTAA
* *
49004634 ATTTATTATTATATTT
1 ATTTTTTATTTTATTT
49004650 TTTGAAAATA
Statistics
Matches: 59, Mismatches: 5, Indels: 18
0.72 0.06 0.22
Matches are distributed among these distances:
24 1 0.02
25 10 0.17
26 13 0.22
27 6 0.10
28 8 0.14
29 12 0.20
30 4 0.07
31 5 0.08
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.65
Consensus pattern (25 bp):
ATTTTTTATTTTATTTATTTCTTAA
Found at i:49006132 original size:9 final size:9
Alignment explanation
Indices: 49006118--49006154 Score: 74
Period size: 9 Copynumber: 4.1 Consensus size: 9
49006108 TATAGTTTGA
49006118 TATTCGAAT
1 TATTCGAAT
49006127 TATTCGAAT
1 TATTCGAAT
49006136 TATTCGAAT
1 TATTCGAAT
49006145 TATTCGAAT
1 TATTCGAAT
49006154 T
1 T
49006155 CGAAAACTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:49006225 original size:9 final size:9
Alignment explanation
Indices: 49006208--49006238 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
49006198 TCGAGTTGAT
49006208 TCGAATAAC
1 TCGAATAAC
*
49006217 TCGATTAAC
1 TCGAATAAC
49006226 TCGAATAAC
1 TCGAATAAC
49006235 TCGA
1 TCGA
49006239 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:49008701 original size:23 final size:23
Alignment explanation
Indices: 49008669--49008712 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
49008659 ACTACCATTT
49008669 TCTAAATAAAATAATAATAAATA
1 TCTAAATAAAATAATAATAAATA
* *
49008692 TCTAAGTAAAATATTAATAAA
1 TCTAAATAAAATAATAATAAA
49008713 ATAATTGTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (23 bp):
TCTAAATAAAATAATAATAAATA
Found at i:49008705 original size:13 final size:11
Alignment explanation
Indices: 49008673--49008715 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
49008663 CCATTTTCTA
*
49008673 AATAAAATAAT
1 AATAAAATATT
49008684 AAT-AAATATCT
1 AATAAAATAT-T
49008695 AAGTAAAATATT
1 AA-TAAAATATT
49008707 AATAAAATA
1 AATAAAATA
49008716 ATTGTTAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 5 0.18
11 13 0.46
12 4 0.14
13 6 0.21
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (11 bp):
AATAAAATATT
Found at i:49011294 original size:2 final size:2
Alignment explanation
Indices: 49011287--49011311 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
49011277 TTTTATTTAG
49011287 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 T
49011312 GGAATAAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:49014538 original size:16 final size:16
Alignment explanation
Indices: 49014517--49014584 Score: 102
Period size: 16 Copynumber: 4.2 Consensus size: 16
49014507 TTTGGTTCGC
49014517 TGTATTGGATTAGAGA
1 TGTATTGGATTAGAGA
49014533 TGTATTGGATTAGA-A
1 TGTATTGGATTAGAGA
*
49014548 GTGTATTGGATTAGAGG
1 -TGTATTGGATTAGAGA
*
49014565 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGA
49014581 TGTA
1 TGTA
49014585 ATAGCAAATC
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
15 1 0.02
16 48 0.98
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGA
Found at i:49014556 original size:32 final size:32
Alignment explanation
Indices: 49014517--49014584 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
49014507 TTTGGTTCGC
49014517 TGTATTGGATTAGAGATGTATTGGATTAGAAG
1 TGTATTGGATTAGAGATGTATTGGATTAGAAG
* *
49014549 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGATGTATTGGATTAGAAG
49014581 TGTA
1 TGTA
49014585 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGATGTATTGGATTAGAAG
Found at i:49014921 original size:157 final size:157
Alignment explanation
Indices: 49014714--49015023 Score: 530
Period size: 157 Copynumber: 2.0 Consensus size: 157
49014704 CCCTTAGCAT
*
49014714 AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATTATCAA
1 AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
* * *
49014779 TAATGAATATTTTAATCATATTTAAACATAATTATTATTAAACATATTTTAATTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAA
49014844 TTTAATAAAATTCTTAATAATTACCAA
131 TTTAATAAAATTCTTAATAATTACCAA
* * * *
49014871 AAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTGATAAGATTATTAATATGAA
1 AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
* *
49014936 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATACTTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAA
49015001 TTTAATAAAATTCTTAATAATTA
131 TTTAATAAAATTCTTAATAATTA
49015024 ATATTCTTAT
Statistics
Matches: 143, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
157 143 1.00
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (157 bp):
AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAA
TTTAATAAAATTCTTAATAATTACCAA
Found at i:49031529 original size:100 final size:103
Alignment explanation
Indices: 49031340--49031529 Score: 280
Period size: 101 Copynumber: 1.9 Consensus size: 103
49031330 AGATAAGGGT
* *
49031340 TTAATGTTGATTTTTTTAATTTTTATTATTTTATTTTATTTTTAACGTTATCTTTAAAATAATTT
1 TTAATGTTGATTTTTTAAATTTTTATTATTTTA--TTATTTTTAACATTATCTTTAAAATAATTT
* *
49031405 ACTTTTTAAAATTTTAAAACTTACACATATTACTTATCGC
64 ACTCTTTAAAATTTTAAAAATTACACATATTACTTATCGC
*
49031445 TTAATGTTGA-TTTTTAAATTTTTTATTATTTTA-T-TTTTTAACATTATCTTTTAAATAATTTA
1 TTAATGTTGATTTTTTAAA-TTTTTATTATTTTATTATTTTTAACATTATCTTTAAAATAATTTA
49031507 C-CTTTAAAATTTTAAAAATTACA
65 CTCTTTAAAATTTTAAAAATTACA
49031530 TGTGTAATAA
Statistics
Matches: 79, Mismatches: 5, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
100 20 0.25
101 27 0.34
102 1 0.01
104 7 0.09
105 24 0.30
ACGTcount: A:0.33, C:0.07, G:0.03, T:0.56
Consensus pattern (103 bp):
TTAATGTTGATTTTTTAAATTTTTATTATTTTATTATTTTTAACATTATCTTTAAAATAATTTAC
TCTTTAAAATTTTAAAAATTACACATATTACTTATCGC
Found at i:49036935 original size:42 final size:42
Alignment explanation
Indices: 49036889--49036975 Score: 174
Period size: 42 Copynumber: 2.1 Consensus size: 42
49036879 GCAATTAAAG
49036889 AACTAAATTAATTCAACTATTGTATTATATTCTTATGCCAAT
1 AACTAAATTAATTCAACTATTGTATTATATTCTTATGCCAAT
49036931 AACTAAATTAATTCAACTATTGTATTATATTCTTATGCCAAT
1 AACTAAATTAATTCAACTATTGTATTATATTCTTATGCCAAT
49036973 AAC
1 AAC
49036976 GTAGACCAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.39, C:0.15, G:0.05, T:0.41
Consensus pattern (42 bp):
AACTAAATTAATTCAACTATTGTATTATATTCTTATGCCAAT
Found at i:49037611 original size:26 final size:26
Alignment explanation
Indices: 49037580--49037633 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
49037570 ATATAATTAA
49037580 CTTAAAACATTGATAAAATAAAATAC
1 CTTAAAACATTGATAAAATAAAATAC
49037606 CTTAAAACATTGATAAAATAAAATAC
1 CTTAAAACATTGATAAAATAAAATAC
49037632 CT
1 CT
49037634 ATATTACAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.56, C:0.13, G:0.04, T:0.28
Consensus pattern (26 bp):
CTTAAAACATTGATAAAATAAAATAC
Found at i:49045123 original size:61 final size:61
Alignment explanation
Indices: 49045028--49045147 Score: 204
Period size: 61 Copynumber: 2.0 Consensus size: 61
49045018 CACATACAAA
* *
49045028 AACAACACACATGCACAATAAGCACACCCTTACACTAACACCAACACCCATAAATTCATCC
1 AACAACACACATGCACAATAAACACACCCTTACACAAACACCAACACCCATAAATTCATCC
* *
49045089 AACAACACATATGCACAATAAATACACCCTTACACAAACACCAACACCCATAAATTCAT
1 AACAACACACATGCACAATAAACACACCCTTACACAAACACCAACACCCATAAATTCAT
49045148 GCATATACAG
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 55 1.00
ACGTcount: A:0.47, C:0.35, G:0.03, T:0.16
Consensus pattern (61 bp):
AACAACACACATGCACAATAAACACACCCTTACACAAACACCAACACCCATAAATTCATCC
Found at i:49049688 original size:13 final size:13
Alignment explanation
Indices: 49049670--49049696 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
49049660 TCGATAGCTA
49049670 AGGCATACTTCAG
1 AGGCATACTTCAG
49049683 AGGCATACTTCAG
1 AGGCATACTTCAG
49049696 A
1 A
49049697 CTAAGGAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.22
Consensus pattern (13 bp):
AGGCATACTTCAG
Found at i:49056721 original size:883 final size:883
Alignment explanation
Indices: 49055016--49056783 Score: 3536
Period size: 883 Copynumber: 2.0 Consensus size: 883
49055006 CTAGATGTCA
49055016 AAAAGGGTAAATATAAGCTAAATAAGAGCACCTAATTATTCTACCTGGTTAAGAAGCTCTTGGTC
1 AAAAGGGTAAATATAAGCTAAATAAGAGCACCTAATTATTCTACCTGGTTAAGAAGCTCTTGGTC
49055081 AAAATCATGTCCCATTTTCATCAGTGGAATAAACCCTTTCCATAAAAAAGATTGCAGCTCTTCAC
66 AAAATCATGTCCCATTTTCATCAGTGGAATAAACCCTTTCCATAAAAAAGATTGCAGCTCTTCAC
49055146 GACCAATATCTGCTTAGAAATTGCCATTAGTAATGAACTTCATAATAAATAAAGAAAGGATAAAA
131 GACCAATATCTGCTTAGAAATTGCCATTAGTAATGAACTTCATAATAAATAAAGAAAGGATAAAA
49055211 GTCTCATTCGTTTCAGCTCAACAGATAAAACCTATTTATTAAATTACAAATCTCAGAATCACCCA
196 GTCTCATTCGTTTCAGCTCAACAGATAAAACCTATTTATTAAATTACAAATCTCAGAATCACCCA
49055276 AGGTGACAATTAATTCAGCCACTACAGTCTCTTAGCAAGGTAAACAGGAACCCAACTTCACCTTA
261 AGGTGACAATTAATTCAGCCACTACAGTCTCTTAGCAAGGTAAACAGGAACCCAACTTCACCTTA
49055341 TCCTCAAACGAACCTTTAAGTTCTCTATGAGATTGGCCAGAGTCACCCGACTTTTCTTCGCAACA
326 TCCTCAAACGAACCTTTAAGTTCTCTATGAGATTGGCCAGAGTCACCCGACTTTTCTTCGCAACA
49055406 TTTTAAAACGGTGGAAATAAACAACAAATGAAAACAAACTACCGTAAAGAAACGCAGGACTAGGT
391 TTTTAAAACGGTGGAAATAAACAACAAATGAAAACAAACTACCGTAAAGAAACGCAGGACTAGGT
49055471 TTACATTTTCTTCTGAAAAGTGTCAATGGAAAAAAGCAAAGGAAAATATAACTGACTCGCTTTAG
456 TTACATTTTCTTCTGAAAAGTGTCAATGGAAAAAAGCAAAGGAAAATATAACTGACTCGCTTTAG
49055536 TAAGAAGATGGCATAACGCTCCAATCATTGACGCAATACTGTTCCGACGATCAGAATCCAATTTC
521 TAAGAAGATGGCATAACGCTCCAATCATTGACGCAATACTGTTCCGACGATCAGAATCCAATTTC
49055601 CCATCTCTGTTACCACTCTACACAAAAAAAAATGCACAAGTTGCTATAAAAAATATGGAAAAGAA
586 CCATCTCTGTTACCACTCTACACAAAAAAAAATGCACAAGTTGCTATAAAAAATATGGAAAAGAA
49055666 AATAACTAATAGTAGAGTTTACTTCTTTTACATAAAATAAGAAAAAAACTAATTGCGATTTTCCG
651 AATAACTAATAGTAGAGTTTACTTCTTTTACATAAAATAAGAAAAAAACTAATTGCGATTTTCCG
49055731 ATTAGGGTTTAGTATAGTAGAAGAAGAAATTTACCTCAATGAGATCGGGGAGATCGTCGAGAAGA
716 ATTAGGGTTTAGTATAGTAGAAGAAGAAATTTACCTCAATGAGATCGGGGAGATCGTCGAGAAGA
49055796 GAAGAGAAAAGTGACGACGAAGATACGGCAGTTGAGGTCAATATACAATCCAACATAGGTGGAAT
781 GAAGAGAAAAGTGACGACGAAGATACGGCAGTTGAGGTCAATATACAATCCAACATAGGTGGAAT
49055861 GGCCGACGGAGGAATTTGTCCAAAGCTCTTTGACAGTG
846 GGCCGACGGAGGAATTTGTCCAAAGCTCTTTGACAGTG
49055899 AAAAGGGTAAATATAAGCTAAATAAGAGCACCTAATTATTCTACCTGGTTAAGAAGCTCTTGGTC
1 AAAAGGGTAAATATAAGCTAAATAAGAGCACCTAATTATTCTACCTGGTTAAGAAGCTCTTGGTC
49055964 AAAATCATGTCCCATTTTCATCAGTGGAATAAACCCTTTCCATAAAAAAGATTGCAGCTCTTCAC
66 AAAATCATGTCCCATTTTCATCAGTGGAATAAACCCTTTCCATAAAAAAGATTGCAGCTCTTCAC
49056029 GACCAATATCTGCTTAGAAATTGCCATTAGTAATGAACTTCATAATAAATAAAGAAAGGATAAAA
131 GACCAATATCTGCTTAGAAATTGCCATTAGTAATGAACTTCATAATAAATAAAGAAAGGATAAAA
49056094 GTCTCATTCGTTTCAGCTCAACAGATAAAACCTATTTATTAAATTACAAATCTCAGAATCACCCA
196 GTCTCATTCGTTTCAGCTCAACAGATAAAACCTATTTATTAAATTACAAATCTCAGAATCACCCA
49056159 AGGTGACAATTAATTCAGCCACTACAGTCTCTTAGCAAGGTAAACAGGAACCCAACTTCACCTTA
261 AGGTGACAATTAATTCAGCCACTACAGTCTCTTAGCAAGGTAAACAGGAACCCAACTTCACCTTA
49056224 TCCTCAAACGAACCTTTAAGTTCTCTATGAGATTGGCCAGAGTCACCCGACTTTTCTTCGCAACA
326 TCCTCAAACGAACCTTTAAGTTCTCTATGAGATTGGCCAGAGTCACCCGACTTTTCTTCGCAACA
49056289 TTTTAAAACGGTGGAAATAAACAACAAATGAAAACAAACTACCGTAAAGAAACGCAGGACTAGGT
391 TTTTAAAACGGTGGAAATAAACAACAAATGAAAACAAACTACCGTAAAGAAACGCAGGACTAGGT
49056354 TTACATTTTCTTCTGAAAAGTGTCAATGGAAAAAAGCAAAGGAAAATATAACTGACTCGCTTTAG
456 TTACATTTTCTTCTGAAAAGTGTCAATGGAAAAAAGCAAAGGAAAATATAACTGACTCGCTTTAG
49056419 TAAGAAGATGGCATAACGCTCCAATCATTGACGCAATACTGTTCCGACGATCAGAATCCAATTTC
521 TAAGAAGATGGCATAACGCTCCAATCATTGACGCAATACTGTTCCGACGATCAGAATCCAATTTC
49056484 CCATCTCTGTTACCACTCTACACAAAAAAAAATGCACAAGTTGCTATAAAAAATATGGAAAAGAA
586 CCATCTCTGTTACCACTCTACACAAAAAAAAATGCACAAGTTGCTATAAAAAATATGGAAAAGAA
49056549 AATAACTAATAGTAGAGTTTACTTCTTTTACATAAAATAAGAAAAAAACTAATTGCGATTTTCCG
651 AATAACTAATAGTAGAGTTTACTTCTTTTACATAAAATAAGAAAAAAACTAATTGCGATTTTCCG
49056614 ATTAGGGTTTAGTATAGTAGAAGAAGAAATTTACCTCAATGAGATCGGGGAGATCGTCGAGAAGA
716 ATTAGGGTTTAGTATAGTAGAAGAAGAAATTTACCTCAATGAGATCGGGGAGATCGTCGAGAAGA
49056679 GAAGAGAAAAGTGACGACGAAGATACGGCAGTTGAGGTCAATATACAATCCAACATAGGTGGAAT
781 GAAGAGAAAAGTGACGACGAAGATACGGCAGTTGAGGTCAATATACAATCCAACATAGGTGGAAT
49056744 GGCCGACGGAGGAATTTGTCCAAAGCTCTTTGACAGTG
846 GGCCGACGGAGGAATTTGTCCAAAGCTCTTTGACAGTG
49056782 AA
1 AA
49056784 GAGATAACGG
Statistics
Matches: 885, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
883 885 1.00
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.26
Consensus pattern (883 bp):
AAAAGGGTAAATATAAGCTAAATAAGAGCACCTAATTATTCTACCTGGTTAAGAAGCTCTTGGTC
AAAATCATGTCCCATTTTCATCAGTGGAATAAACCCTTTCCATAAAAAAGATTGCAGCTCTTCAC
GACCAATATCTGCTTAGAAATTGCCATTAGTAATGAACTTCATAATAAATAAAGAAAGGATAAAA
GTCTCATTCGTTTCAGCTCAACAGATAAAACCTATTTATTAAATTACAAATCTCAGAATCACCCA
AGGTGACAATTAATTCAGCCACTACAGTCTCTTAGCAAGGTAAACAGGAACCCAACTTCACCTTA
TCCTCAAACGAACCTTTAAGTTCTCTATGAGATTGGCCAGAGTCACCCGACTTTTCTTCGCAACA
TTTTAAAACGGTGGAAATAAACAACAAATGAAAACAAACTACCGTAAAGAAACGCAGGACTAGGT
TTACATTTTCTTCTGAAAAGTGTCAATGGAAAAAAGCAAAGGAAAATATAACTGACTCGCTTTAG
TAAGAAGATGGCATAACGCTCCAATCATTGACGCAATACTGTTCCGACGATCAGAATCCAATTTC
CCATCTCTGTTACCACTCTACACAAAAAAAAATGCACAAGTTGCTATAAAAAATATGGAAAAGAA
AATAACTAATAGTAGAGTTTACTTCTTTTACATAAAATAAGAAAAAAACTAATTGCGATTTTCCG
ATTAGGGTTTAGTATAGTAGAAGAAGAAATTTACCTCAATGAGATCGGGGAGATCGTCGAGAAGA
GAAGAGAAAAGTGACGACGAAGATACGGCAGTTGAGGTCAATATACAATCCAACATAGGTGGAAT
GGCCGACGGAGGAATTTGTCCAAAGCTCTTTGACAGTG
Found at i:49063632 original size:19 final size:18
Alignment explanation
Indices: 49063587--49063632 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
49063577 CCCGAATAAT
**
49063587 AAATATTTTTATTTTTTA
1 AAATATTTTTAACTTTTA
*
49063605 AAATTTTTTTAACTTTTA
1 AAATATTTTTAACTTTTA
*
49063623 AAATACTTTT
1 AAATATTTTT
49063633 GAAATACTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (18 bp):
AAATATTTTTAACTTTTA
Found at i:49063654 original size:32 final size:32
Alignment explanation
Indices: 49063608--49063677 Score: 104
Period size: 32 Copynumber: 2.2 Consensus size: 32
49063598 TTTTTTAAAA
* *
49063608 TTTTTTTAACTTTTAAAATACTTTTGAAATAC
1 TTTTTTTAAATTTTAAAATACTTTTAAAATAC
**
49063640 TTTTTTTAAATTTTAAAATTTTTTTAAAATAC
1 TTTTTTTAAATTTTAAAATACTTTTAAAATAC
49063672 TTTTTT
1 TTTTTT
49063678 AATTTTTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.33, C:0.06, G:0.01, T:0.60
Consensus pattern (32 bp):
TTTTTTTAAATTTTAAAATACTTTTAAAATAC
Found at i:49063684 original size:39 final size:39
Alignment explanation
Indices: 49063618--49063723 Score: 140
Period size: 39 Copynumber: 2.6 Consensus size: 39
49063608 TTTTTTTAAC
* *
49063618 TTTTAAAATACTTTTGAAATACTTTTTTTAAATTTTAAAATTT
1 TTTTAAAATACTTTT-TAA-A--TTTTTTAAATTTTAAAATAT
* *
49063661 TTTTAAAATACTTTTTTAATTTTTTTAATTTTAAAATAT
1 TTTTAAAATACTTTTTAAATTTTTTAAATTTTAAAATAT
49063700 TTTTAAAATACTTTTTAAATTTTT
1 TTTTAAAATACTTTTTAAATTTTT
49063724 GTTTTAATTT
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
39 41 0.71
41 1 0.02
42 1 0.02
43 15 0.26
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.59
Consensus pattern (39 bp):
TTTTAAAATACTTTTTAAATTTTTTAAATTTTAAAATAT
Found at i:49063714 original size:28 final size:28
Alignment explanation
Indices: 49063661--49063714 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
49063651 TTTAAAATTT
* **
49063661 TTTTAAAATACTTTTTTAATTTTTTTAA
1 TTTTAAAATACTTTTTAAATACTTTTAA
49063689 TTTTAAAATA-TTTTTAAAATACTTTT
1 TTTTAAAATACTTTTT-AAATACTTTT
49063715 TAAATTTTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 5 0.23
28 17 0.77
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (28 bp):
TTTTAAAATACTTTTTAAATACTTTTAA
Found at i:49063716 original size:12 final size:11
Alignment explanation
Indices: 49063618--49063718 Score: 56
Period size: 11 Copynumber: 9.6 Consensus size: 11
49063608 TTTTTTTAAC
*
49063618 TTTTAAAATAC
1 TTTTAAAATAT
*
49063629 TTTTGAAATACT
1 TTTTAAAATA-T
**
49063641 TTTTTTAA-A-
1 TTTTAAAATAT
*
49063650 TTTTAAAATTT
1 TTTTAAAATAT
49063661 TTTTAAAATACT
1 TTTTAAAATA-T
*
49063673 TTTT-TAAT-T
1 TTTTAAAATAT
*
49063682 TTTT----TAA
1 TTTTAAAATAT
49063689 TTTTAAAATAT
1 TTTTAAAATAT
49063700 TTTTAAAATACT
1 TTTTAAAATA-T
49063712 TTTTAAA
1 TTTTAAA
49063719 TTTTTGTTTT
Statistics
Matches: 69, Mismatches: 11, Indels: 19
0.70 0.11 0.19
Matches are distributed among these distances:
6 1 0.01
7 4 0.06
9 11 0.16
11 34 0.49
12 19 0.28
ACGTcount: A:0.38, C:0.04, G:0.01, T:0.57
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:49066354 original size:20 final size:20
Alignment explanation
Indices: 49066329--49066373 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
49066319 CGGCGTTTAG
*
49066329 TTTTAATAAT-ATATATTAAT
1 TTTTAA-AATGATAAATTAAT
49066349 TTTTAAAATGATAAATTAAT
1 TTTTAAAATGATAAATTAAT
49066369 TTTTA
1 TTTTA
49066374 TACAATTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 3 0.13
20 20 0.87
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (20 bp):
TTTTAAAATGATAAATTAAT
Found at i:49072094 original size:86 final size:86
Alignment explanation
Indices: 49071949--49072122 Score: 303
Period size: 86 Copynumber: 2.0 Consensus size: 86
49071939 CATGAGACTC
*
49071949 TGAGAAAGTTGTGTCTACTAATTTGACGAGTTTGTTACTGCTAAATATGCTCATCTATATTTGGA
1 TGAGAAAGTTGTGTCTACTAATTTGAAGAGTTTGTTACTGCTAAATATGCTCATCTATATTTGGA
*
49072014 CCCTTTATTATTATAAATGTT
66 CCCTCTATTATTATAAATGTT
*
49072035 TGAGAAAGTTGTGTCTACTAATTTGAAGAGTTTGTTACTGCTAAATATGCTTATCTATATTTGGA
1 TGAGAAAGTTGTGTCTACTAATTTGAAGAGTTTGTTACTGCTAAATATGCTCATCTATATTTGGA
* *
49072100 CTCTCTATTGTTATAAATGTT
66 CCCTCTATTATTATAAATGTT
49072121 TG
1 TG
49072123 TGTCCGATTT
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
86 83 1.00
ACGTcount: A:0.28, C:0.11, G:0.17, T:0.44
Consensus pattern (86 bp):
TGAGAAAGTTGTGTCTACTAATTTGAAGAGTTTGTTACTGCTAAATATGCTCATCTATATTTGGA
CCCTCTATTATTATAAATGTT
Found at i:49089203 original size:9 final size:9
Alignment explanation
Indices: 49089189--49089237 Score: 73
Period size: 9 Copynumber: 5.6 Consensus size: 9
49089179 AATTTTTGGG
49089189 TAATTCGGT
1 TAATTCGGT
49089198 TAATTCGGT
1 TAATTCGGT
49089207 TAATTCGGT
1 TAATTCGGT
*
49089216 TAA-TCGGG
1 TAATTCGGT
*
49089224 TAATTCGGG
1 TAATTCGGT
49089233 TAATT
1 TAATT
49089238 TTTAACCAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
8 7 0.18
9 31 0.82
ACGTcount: A:0.24, C:0.10, G:0.24, T:0.41
Consensus pattern (9 bp):
TAATTCGGT
Found at i:49089212 original size:18 final size:18
Alignment explanation
Indices: 49089186--49089237 Score: 79
Period size: 17 Copynumber: 2.9 Consensus size: 18
49089176 GGTAATTTTT
49089186 GGGTAATTCGGTTAATTC
1 GGGTAATTCGGTTAATTC
*
49089204 GGTTAATTCGGTTAA-TC
1 GGGTAATTCGGTTAATTC
*
49089221 GGGTAATTCGGGTAATT
1 GGGTAATTCGGTTAATT
49089238 TTTAACCAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
17 15 0.50
18 15 0.50
ACGTcount: A:0.23, C:0.10, G:0.29, T:0.38
Consensus pattern (18 bp):
GGGTAATTCGGTTAATTC
Found at i:49092400 original size:52 final size:48
Alignment explanation
Indices: 49092381--49092583 Score: 265
Period size: 46 Copynumber: 4.3 Consensus size: 48
49092371 TGACAAGTGG
* *
49092381 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
49092427 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
49092479 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
49092525 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
49092571 AAAGTGATAAGTG
1 AAAGTGATAAGTG
49092584 GCTACACTTA
Statistics
Matches: 144, Mismatches: 7, Indels: 12
0.88 0.04 0.07
Matches are distributed among these distances:
46 100 0.69
52 44 0.31
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:49092435 original size:98 final size:98
Alignment explanation
Indices: 49092315--49092583 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
49092305 TTTGAGTACT
*
49092315 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
49092380 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
49092413 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
49092478 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
49092511 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
49092576 GATAAGTG
65 GAAAAGTG
49092584 GCTACACTTA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 149 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:49092591 original size:37 final size:37
Alignment explanation
Indices: 49092547--49092692 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
49092537 GATAGCTTTA
*
49092547 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
49092584 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
49092621 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
49092658 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
49092693 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:49098223 original size:42 final size:43
Alignment explanation
Indices: 49098162--49098324 Score: 135
Period size: 42 Copynumber: 3.8 Consensus size: 43
49098152 AAAAAACTCG
* *
49098162 TACAATGCCAAC-GTCCCAGACGTGGTCTTACATGTAATCAACA
1 TACAATGCCAACTGTCCCAGACGTGGTCTTACACGAAATCAA-A
49098205 T-CAATGCC-ACTGTCCCAGACAG-GGTCTTACACGAAATCAAA
1 TACAATGCCAACTGTCCCAGAC-GTGGTCTTACACGAAATCAAA
* * * * * *
49098246 TATAATGCCGA-TGTCACAGACATGGTCTTATACATAAATCTCAAA
1 TACAATGCCAACTGTCCCAGACGTGGTCTTACAC-GAAA--TCAAA
*
49098291 T-CGAA-GCCAAC-GTCCCAGACGTGGTCTTATACGA
1 TAC-AATGCCAACTGTCCCAGACGTGGTCTTACACGA
49098325 TAACACATAT
Statistics
Matches: 98, Mismatches: 12, Indels: 20
0.75 0.09 0.15
Matches are distributed among these distances:
41 4 0.04
42 56 0.57
43 7 0.07
44 23 0.23
45 8 0.08
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.23
Consensus pattern (43 bp):
TACAATGCCAACTGTCCCAGACGTGGTCTTACACGAAATCAAA
Found at i:49101626 original size:12 final size:12
Alignment explanation
Indices: 49101596--49101625 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
49101586 TACTAGGAGA
49101596 TTCTTTTCTTTT
1 TTCTTTTCTTTT
49101608 TTCTTTTCTTTT
1 TTCTTTTCTTTT
49101620 TT-TTTT
1 TTCTTTT
49101626 TAAAAGTGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.22
12 14 0.78
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (12 bp):
TTCTTTTCTTTT
Found at i:49104366 original size:50 final size:47
Alignment explanation
Indices: 49104259--49104418 Score: 166
Period size: 47 Copynumber: 3.3 Consensus size: 47
49104249 ACTCTAGCGC
* *
49104259 GCTCTCTGA-TATTTAGCACGTCACTGCTCTCTGT-TTAGCACATATGT
1 GCTCTCTGATTA-TTAGCACGTCAGTGCTCTCTGTATTAGCACTTA-GT
* *
49104306 GCTATCTGATTATTAGCACATCAGTGCTCTCTGATTATTAGCACGTTAGT
1 GCTCTCTGATTATTAGCACGTCAGTGCTCTCTG--TATTAGCAC-TTAGT
* * *
49104356 GCTCTTTGATTACTAGCACGTCTGTGCTCTCTGTA-TAGCACTTCAGT
1 GCTCTCTGATTATTAGCACGTCAGTGCTCTCTGTATTAGCACTT-AGT
49104403 GCTCTCTG-TTCATTAG
1 GCTCTCTGATT-ATTAG
49104419 TGCATAACAA
Statistics
Matches: 95, Mismatches: 11, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
46 4 0.04
47 47 0.49
48 4 0.04
49 1 0.01
50 37 0.39
51 2 0.02
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.39
Consensus pattern (47 bp):
GCTCTCTGATTATTAGCACGTCAGTGCTCTCTGTATTAGCACTTAGT
Found at i:49104395 original size:72 final size:71
Alignment explanation
Indices: 49104259--49104418 Score: 175
Period size: 72 Copynumber: 2.2 Consensus size: 71
49104249 ACTCTAGCGC
49104259 GCTCTCTGA-TATTTAGCACGTCACTGCTCTCTGTTTAGCACATATGTGCTATCTGATTATTAGC
1 GCTCTCTGATTA-TTAGCACGTCACTGCTCTCTGTTTAGCACATATGTGCTATCTGA-TATTAGC
49104323 ACATCAGT
64 ACATCAGT
* * * * * *
49104331 GCTCTCTGATTATTAGCACGTTAGTGCTCTTTGATTACTAGCACGTCTGTGCTCTCTG-TA-TAG
1 GCTCTCTGATTATTAGCACGTCACTGCTCTCTG-TT--TAGCACATATGTGCTATCTGATATTAG
*
49104394 CACTTCAGT
63 CACATCAGT
49104403 GCTCTCTG-TTCATTAG
1 GCTCTCTGATT-ATTAG
49104419 TGCATAACAA
Statistics
Matches: 76, Mismatches: 7, Indels: 10
0.82 0.08 0.11
Matches are distributed among these distances:
71 2 0.03
72 51 0.67
73 6 0.08
75 17 0.22
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.39
Consensus pattern (71 bp):
GCTCTCTGATTATTAGCACGTCACTGCTCTCTGTTTAGCACATATGTGCTATCTGATATTAGCAC
ATCAGT
Found at i:49104411 original size:22 final size:24
Alignment explanation
Indices: 49104259--49104410 Score: 134
Period size: 25 Copynumber: 6.3 Consensus size: 24
49104249 ACTCTAGCGC
* *
49104259 GCTCTCTGATATTTAGCACGTCACT
1 GCTCTCTGATA-TTAGCACATCAGT
49104284 GCTCTCTG-T-TTAGCACAT-ATGT
1 GCTCTCTGATATTAGCACATCA-GT
*
49104306 GCTATCTGATTATTAGCACATCAGT
1 GCTCTCTGA-TATTAGCACATCAGT
* *
49104331 GCTCTCTGATTATTAGCACGTTAGT
1 GCTCTCTGA-TATTAGCACATCAGT
* * * *
49104356 GCTCTTTGATTACTAGCACGTCTGT
1 GCTCTCTGA-TATTAGCACATCAGT
*
49104381 GCTCTCTG-TA-TAGCACTTCAGT
1 GCTCTCTGATATTAGCACATCAGT
49104403 GCTCTCTG
1 GCTCTCTG
49104411 TTCATTAGTG
Statistics
Matches: 109, Mismatches: 13, Indels: 13
0.81 0.10 0.10
Matches are distributed among these distances:
21 1 0.01
22 34 0.31
23 2 0.02
24 2 0.02
25 69 0.63
26 1 0.01
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.38
Consensus pattern (24 bp):
GCTCTCTGATATTAGCACATCAGT
Found at i:49104560 original size:31 final size:31
Alignment explanation
Indices: 49104502--49104560 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
49104492 AAGAATATGA
* * *
49104502 GATAGTGAATTGAAAATAGAATGTGAAAAAC
1 GATAGTGAATTGAAAACAAAATATGAAAAAC
49104533 GATAGTGAATTGAAAACAAAATATGAAA
1 GATAGTGAATTGAAAACAAAATATGAAA
49104561 TATGTTATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.54, C:0.03, G:0.20, T:0.22
Consensus pattern (31 bp):
GATAGTGAATTGAAAACAAAATATGAAAAAC
Found at i:49109158 original size:8 final size:8
Alignment explanation
Indices: 49109147--49109171 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
49109137 CCACCTACCC
49109147 CCCACTTG
1 CCCACTTG
49109155 CCCACTTG
1 CCCACTTG
49109163 CCCACTTG
1 CCCACTTG
49109171 C
1 C
49109172 GCCGAACACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.52, G:0.12, T:0.24
Consensus pattern (8 bp):
CCCACTTG
Found at i:49109435 original size:13 final size:12
Alignment explanation
Indices: 49109399--49109436 Score: 60
Period size: 11 Copynumber: 3.2 Consensus size: 12
49109389 CCTTTCCCCC
49109399 TCCCTTCTCTC-
1 TCCCTTCTCTCT
49109410 TCCCTTCTCTCT
1 TCCCTTCTCTCT
49109422 TCCCTCTCTCTCT
1 TCCCT-TCTCTCT
49109435 TC
1 TC
49109437 TTTTTTTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 11 0.44
12 5 0.20
13 9 0.36
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (12 bp):
TCCCTTCTCTCT
Found at i:49109966 original size:23 final size:25
Alignment explanation
Indices: 49109923--49109972 Score: 77
Period size: 23 Copynumber: 2.1 Consensus size: 25
49109913 TTATTAGTAC
49109923 TATTAGTATCACTATTATTATTATG
1 TATTAGTATCACTATTATTATTATG
*
49109948 TATTAGTAT-A-TATTTTTATTATG
1 TATTAGTATCACTATTATTATTATG
49109971 TA
1 TA
49109973 CGTGTATACA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 14 0.58
24 1 0.04
25 9 0.38
ACGTcount: A:0.32, C:0.04, G:0.08, T:0.56
Consensus pattern (25 bp):
TATTAGTATCACTATTATTATTATG
Found at i:49109979 original size:23 final size:23
Alignment explanation
Indices: 49109909--49109980 Score: 58
Period size: 23 Copynumber: 3.1 Consensus size: 23
49109899 TTGTTATTTT
* * *
49109909 TATATTATTAGTA-CTATTAGTA
1 TATATTATTATTATGTAGTAGTA
*
49109931 TCACTATTATTATTATGTATTAGTA
1 T-A-TATTATTATTATGTAGTAGTA
*
49109956 TATATTTTTATTATGTACGT-GTA
1 TATATTATTATTATGTA-GTAGTA
49109979 TA
1 TA
49109981 CATATATATA
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
22 1 0.02
23 20 0.48
24 12 0.29
25 9 0.21
ACGTcount: A:0.32, C:0.06, G:0.10, T:0.53
Consensus pattern (23 bp):
TATATTATTATTATGTAGTAGTA
Done.