Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 58 of 161
Found at i:18134879 original size:35 final size:34
Alignment explanation
Indices: 18134833--18134967 Score: 148
Period size: 34 Copynumber: 3.9 Consensus size: 34
18134823 TAAACACAAA
18134833 AATTATTTTAAAAAAAACTAAACCCTAATTTAATT
1 AATT-TTTTAAAAAAAACTAAACCCTAATTTAATT
**
18134868 AATTTTCTTAAAAATTA-TAAACCCTAATTTAATT
1 AATTTT-TTAAAAAAAACTAAACCCTAATTTAATT
* *** *
18134902 AATTTATTT-TAAACCCCTAAAACCTAATTTAATT
1 AATTT-TTTAAAAAAAACTAAACCCTAATTTAATT
*
18134936 AATTTTTTAAAAAAACTCTAAACCCTAATTTA
1 AATTTTTTAAAAAAA-ACTAAACCCTAATTTA
18134968 TTTTTTAAAA
Statistics
Matches: 83, Mismatches: 12, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
33 6 0.07
34 50 0.60
35 27 0.33
ACGTcount: A:0.46, C:0.14, G:0.00, T:0.40
Consensus pattern (34 bp):
AATTTTTTAAAAAAAACTAAACCCTAATTTAATT
Found at i:18135825 original size:16 final size:17
Alignment explanation
Indices: 18135804--18135841 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
18135794 TTTTCAATAA
18135804 ATTTTAAAT-ATTTTAT
1 ATTTTAAATCATTTTAT
* *
18135820 ATTTTAATTCATTTTCT
1 ATTTTAAATCATTTTAT
18135837 ATTTT
1 ATTTT
18135842 TGCTTTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (17 bp):
ATTTTAAATCATTTTAT
Found at i:18135940 original size:16 final size:16
Alignment explanation
Indices: 18135916--18135966 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 16
18135906 GGGTGGAGTC
* *
18135916 AATGAAATAGGGCTGT
1 AATGGAATAGAGCTGT
**
18135932 AATGGAATAGATATGT
1 AATGGAATAGAGCTGT
18135948 AATGGAATAGAGCTGT
1 AATGGAATAGAGCTGT
18135964 AAT
1 AAT
18135967 CAGTAATTTA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.41, C:0.04, G:0.27, T:0.27
Consensus pattern (16 bp):
AATGGAATAGAGCTGT
Found at i:18140811 original size:41 final size:41
Alignment explanation
Indices: 18140762--18140870 Score: 173
Period size: 41 Copynumber: 2.6 Consensus size: 41
18140752 GACTTTAAGT
*
18140762 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGCTATAAAC
*
18140803 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGCTATAAAC
* *
18140844 CTAGCAGGCTAAGTGCCGTTGAATCTG
1 CTAGCAGGCTACGTGCCGGTG-ATCTG
18140871 TTTAAATTAA
Statistics
Matches: 63, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
41 58 0.92
42 5 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (41 bp):
CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGCTATAAAC
Found at i:18142646 original size:24 final size:23
Alignment explanation
Indices: 18142602--18142647 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
18142592 TATCAAGATA
*
18142602 TCAATCATAATTGCTTGTATATC
1 TCAATCATAATAGCTTGTATATC
18142625 TCAAGTCATCAATAGCTT-TATAT
1 TCAA-TCAT-AATAGCTTGTATAT
18142648 ACAACAGATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 4 0.20
24 9 0.45
25 7 0.35
ACGTcount: A:0.33, C:0.17, G:0.09, T:0.41
Consensus pattern (23 bp):
TCAATCATAATAGCTTGTATATC
Found at i:18149448 original size:40 final size:40
Alignment explanation
Indices: 18149404--18149668 Score: 298
Period size: 40 Copynumber: 6.7 Consensus size: 40
18149394 TTAAGGGTCA
* ** *
18149404 CGAAGTACAAACATGGGCACAAATGTGTAATCAGGGGTAC
1 CGAAGTACAAACAGGGGCACGTATGTGCAATCAGGGGTAC
* * *
18149444 CGAAGTACAGACAGGGGCACATATGTGCAATCAGGGGTAT
1 CGAAGTACAAACAGGGGCACGTATGTGCAATCAGGGGTAC
* * * ** *
18149484 CGAAGTCCAAATAGGGACACGTATGAACAATCA-TGGTAC
1 CGAAGTACAAACAGGGGCACGTATGTGCAATCAGGGGTAC
* * * * ** *
18149523 CGAAGTACAAATAAGGGTATGTATGTGTTATTAGGGGTAC
1 CGAAGTACAAACAGGGGCACGTATGTGCAATCAGGGGTAC
* * * *
18149563 CAAAGTACAAACAAGGGCATGTTTGTGCAATCAGGGGTAC
1 CGAAGTACAAACAGGGGCACGTATGTGCAATCAGGGGTAC
18149603 CGAAGTACAAACAGGGGCACGTATGTGCAATCAGGGGTAC
1 CGAAGTACAAACAGGGGCACGTATGTGCAATCAGGGGTAC
*
18149643 CGAAGTACAAATAGGGGCACGTATGT
1 CGAAGTACAAACAGGGGCACGTATGT
18149669 ACAAATATTT
Statistics
Matches: 187, Mismatches: 37, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
39 27 0.14
40 160 0.86
ACGTcount: A:0.35, C:0.17, G:0.29, T:0.20
Consensus pattern (40 bp):
CGAAGTACAAACAGGGGCACGTATGTGCAATCAGGGGTAC
Found at i:18149569 original size:119 final size:120
Alignment explanation
Indices: 18149426--18149655 Score: 318
Period size: 119 Copynumber: 1.9 Consensus size: 120
18149416 ATGGGCACAA
* * * * *
18149426 ATGTGTAATCAGGGGTACCGAAGTACAGACAGGGGCACATATGTGCAATCAGGGGTATCGAAGTC
1 ATGTGTAATCAGGGGTACCAAAGTACAAACAAGGGCACATATGTGCAATCAGGGGTACCGAAGTA
* *
18149491 CAAATAGGGACACGTATGAACAATCA-TGGTACCGAAGTACAAATAAGGGTATGT
66 CAAACAGGGACACGTATGAACAATCAGGGGTACCGAAGTACAAATAAGGGTATGT
* * ** *
18149545 ATGTGTTATTAGGGGTACCAAAGTACAAACAAGGGCATGTTTGTGCAATCAGGGGTACCGAAGTA
1 ATGTGTAATCAGGGGTACCAAAGTACAAACAAGGGCACATATGTGCAATCAGGGGTACCGAAGTA
* **
18149610 CAAACAGGGGCACGTATGTGCAATCAGGGGTACCGAAGTACAAATA
66 CAAACAGGGACACGTATGAACAATCAGGGGTACCGAAGTACAAATA
18149656 GGGGCACGTA
Statistics
Matches: 95, Mismatches: 15, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
119 77 0.81
120 18 0.19
ACGTcount: A:0.35, C:0.16, G:0.29, T:0.20
Consensus pattern (120 bp):
ATGTGTAATCAGGGGTACCAAAGTACAAACAAGGGCACATATGTGCAATCAGGGGTACCGAAGTA
CAAACAGGGACACGTATGAACAATCAGGGGTACCGAAGTACAAATAAGGGTATGT
Found at i:18149619 original size:20 final size:20
Alignment explanation
Indices: 18149594--18149659 Score: 71
Period size: 20 Copynumber: 3.3 Consensus size: 20
18149584 TTTGTGCAAT
18149594 CAGGGGTACCGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
* * * *
18149614 CAGGGGCA-CGTATGTGCAAT
1 CAGGGGTACCG-AAGTACAAA
18149634 CAGGGGTACCGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
*
18149654 TAGGGG
1 CAGGGG
18149660 CACGTATGTA
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
19 2 0.06
20 31 0.89
21 2 0.06
ACGTcount: A:0.33, C:0.18, G:0.35, T:0.14
Consensus pattern (20 bp):
CAGGGGTACCGAAGTACAAA
Found at i:18149670 original size:20 final size:20
Alignment explanation
Indices: 18149607--18149675 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
18149597 GGGTACCGAA
*
18149607 GTACAAACAGGGGCACGTAT
1 GTACAAATAGGGGCACGTAT
* * *
18149627 GTGC-AATCAGGGGTACCG-AA
1 GTACAAAT-AGGGGCA-CGTAT
18149647 GTACAAATAGGGGCACGTAT
1 GTACAAATAGGGGCACGTAT
18149667 GTACAAATA
1 GTACAAATA
18149676 TTTATAAACA
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
19 4 0.11
20 29 0.76
21 5 0.13
ACGTcount: A:0.36, C:0.17, G:0.29, T:0.17
Consensus pattern (20 bp):
GTACAAATAGGGGCACGTAT
Found at i:18153398 original size:38 final size:38
Alignment explanation
Indices: 18153356--18153547 Score: 192
Period size: 38 Copynumber: 5.1 Consensus size: 38
18153346 ATAGAAACGC
18153356 TGTTATTCGGGCTATGTGCCTAGCAGGCTTTGTGCAGG
1 TGTTATTCGGGCTATGTGCCTAGCAGGCTTTGTGCAGG
* *
18153394 TGTTATTCGGGCTGTGTGCCTAGCAAGCTTTGTGCCA-G
1 TGTTATTCGGGCTATGTGCCTAGCAGGCTTTGTG-CAGG
* * * *
18153432 TTTTATTCAGG-TATGTGCCTAGTAGGCTTTGTGCTGG
1 TGTTATTCGGGCTATGTGCCTAGCAGGCTTTGTGCAGG
* ***
18153469 TGTTAATT-GGGCTCTGTGCCTAGCAGGCTTTGTGTTTG
1 TGTT-ATTCGGGCTATGTGCCTAGCAGGCTTTGTGCAGG
* * * * * * *
18153507 TGTTATTTGGGCTCTATGCTTAGCTGACTTTGTGCCGG
1 TGTTATTCGGGCTATGTGCCTAGCAGGCTTTGTGCAGG
18153545 TGT
1 TGT
18153548 AATGCAAATT
Statistics
Matches: 128, Mismatches: 21, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
36 1 0.01
37 28 0.22
38 97 0.76
39 2 0.02
ACGTcount: A:0.12, C:0.17, G:0.31, T:0.40
Consensus pattern (38 bp):
TGTTATTCGGGCTATGTGCCTAGCAGGCTTTGTGCAGG
Found at i:18153491 original size:75 final size:76
Alignment explanation
Indices: 18153358--18153502 Score: 222
Period size: 75 Copynumber: 1.9 Consensus size: 76
18153348 AGAAACGCTG
* *
18153358 TTATTCGGGCTATGTGCCTAGCAGGCTTTGTGCAGGTGTTATTCGGGCTGTGTGCCTAGCAAGCT
1 TTATTCAGGCTATGTGCCTAGCAGGCTTTGTGCAGGTGTTATTCGGGCTCTGTGCCTAGCAAGCT
18153423 TTGTGCCAGTT
66 TTGTGCCAGTT
* * *
18153434 TTATTCAGG-TATGTGCCTAGTAGGCTTTGTGCTGGTGTTAATT-GGGCTCTGTGCCTAGCAGGC
1 TTATTCAGGCTATGTGCCTAGCAGGCTTTGTGCAGGTGTT-ATTCGGGCTCTGTGCCTAGCAAGC
18153497 TTTGTG
65 TTTGTG
18153503 TTTGTGTTAT
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
75 52 0.83
76 11 0.17
ACGTcount: A:0.13, C:0.18, G:0.32, T:0.37
Consensus pattern (76 bp):
TTATTCAGGCTATGTGCCTAGCAGGCTTTGTGCAGGTGTTATTCGGGCTCTGTGCCTAGCAAGCT
TTGTGCCAGTT
Found at i:18159353 original size:20 final size:20
Alignment explanation
Indices: 18159329--18159385 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 20
18159319 GGGTTACCAG
18159329 AGTATAAACAGGGGCACAT-
1 AGTATAAACAGGGGCACATC
** *
18159348 ATGTATATTCAGGGGTACATC
1 A-GTATAAACAGGGGCACATC
* *
18159369 AGTACAAACATGGGCAC
1 AGTATAAACAGGGGCAC
18159386 GAATGTGCAA
Statistics
Matches: 28, Mismatches: 8, Indels: 3
0.72 0.21 0.08
Matches are distributed among these distances:
19 1 0.04
20 26 0.93
21 1 0.04
ACGTcount: A:0.37, C:0.18, G:0.25, T:0.21
Consensus pattern (20 bp):
AGTATAAACAGGGGCACATC
Found at i:18159554 original size:120 final size:121
Alignment explanation
Indices: 18159329--18159592 Score: 345
Period size: 120 Copynumber: 2.2 Consensus size: 121
18159319 GGGTTACCAG
* * * ** *
18159329 AGTATAAACAGGGGCACATATGT-ATATTCAGGGGTACATCAGTACAAACATGGGCACGAATGTG
1 AGTACAAACAGGGGCACGTATGTGAAATTCAGGGGTACAGAAGTACAAACAAGGGCACGAATGTG
* * *
18159393 CAATCAAGGGTACCAAAGTACAAACAGGGGCACACAAGTGCAATTAGGGGTACCGA
66 CAATCAAGGGTACCAAAGCACAAACAGGGGCACACAAGTGCAATCAAGGGTACCGA
* *
18159449 AGTACAAACATGGGCACGTATGTGAAATT-AGGGGTACAGAAGTACAAACAAGGGCACGTATGTG
1 AGTACAAACAGGGGCACGTATGTGAAATTCAGGGGTACAGAAGTACAAACAAGGGCACGAATGTG
** * * * *
18159513 CAATC-AGAGGTACTGAAGCACAAACTGGGGCACATATGTGCAATCAAGGGTATCGA
66 CAATCAAG-GGTACCAAAGCACAAACAGGGGCACACAAGTGCAATCAAGGGTACCGA
18159569 AGTACAAACAGGGGCACGTATGTG
1 AGTACAAACAGGGGCACGTATGTG
18159593 CAATCATCGA
Statistics
Matches: 124, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
119 2 0.02
120 118 0.95
121 4 0.03
ACGTcount: A:0.37, C:0.17, G:0.28, T:0.18
Consensus pattern (121 bp):
AGTACAAACAGGGGCACGTATGTGAAATTCAGGGGTACAGAAGTACAAACAAGGGCACGAATGTG
CAATCAAGGGTACCAAAGCACAAACAGGGGCACACAAGTGCAATCAAGGGTACCGA
Found at i:18159591 original size:40 final size:39
Alignment explanation
Indices: 18159329--18159598 Score: 256
Period size: 40 Copynumber: 6.8 Consensus size: 39
18159319 GGGTTACCAG
* * ** * *
18159329 AGTATAAACAGGGGCACATATGTATATTCAGGGGTAC-A
1 AGTACAAACAGGGGCACGTATGTGCAATCAAGGGTACGA
* * *
18159367 TCAGTACAAACATGGGCACGAATGTGCAATCAAGGGTACCAA
1 --AGTACAAACAGGGGCACGTATGTGCAATCAAGGGTA-CGA
** * * *
18159409 AGTACAAACAGGGGCACACAAGTGCAATTAGGGGTACCGA
1 AGTACAAACAGGGGCACGTATGTGCAATCAAGGGTA-CGA
* * * *
18159449 AGTACAAACATGGGCACGTATGTGAAATTAGGGGTACAGA
1 AGTACAAACAGGGGCACGTATGTGCAATCAAGGGTAC-GA
*
18159489 AGTACAAACAAGGGCACGTATGTGCAATC-AGAGGTACTGA
1 AGTACAAACAGGGGCACGTATGTGCAATCAAG-GGTAC-GA
* * *
18159529 AGCACAAACTGGGGCACATATGTGCAATCAAGGGTATCGA
1 AGTACAAACAGGGGCACGTATGTGCAATCAAGGGTA-CGA
18159569 AGTACAAACAGGGGCACGTATGTGCAATCA
1 AGTACAAACAGGGGCACGTATGTGCAATCA
18159599 TCGATAAATA
Statistics
Matches: 192, Mismatches: 32, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
39 2 0.01
40 185 0.96
41 4 0.02
42 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.27, T:0.18
Consensus pattern (39 bp):
AGTACAAACAGGGGCACGTATGTGCAATCAAGGGTACGA
Found at i:18173031 original size:14 final size:15
Alignment explanation
Indices: 18172999--18173032 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
18172989 TTATTTTTAC
*
18172999 TTTTTCAATTATAAT
1 TTTTTAAATTATAAT
18173014 TTTTTAAATTATAAT
1 TTTTTAAATTATAAT
18173029 TTTT
1 TTTT
18173033 GCAACAAAAT
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:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (15 bp):
TTTTTAAATTATAAT
Found at i:18173809 original size:109 final size:108
Alignment explanation
Indices: 18173505--18173813 Score: 537
Period size: 108 Copynumber: 2.9 Consensus size: 108
18173495 ATTAAAATTC
** *
18173505 AAAAGGATATTTGGCAATTTGGTTAAACGAGAAAAACGACACCCAGCACCTTAGTGCATGTTTTC
1 AAAAGGATATTAAGCCATTTGGTTAAACGAGAAAAACGACACCCAGCACCTTAGTGCATGTTTTC
* *
18173570 TCGAATTTCCAAATGCAAAACCTTGCCTAACTGTAAACTTTTT
66 TCGAATTTCCAAATGCAAAACATTGCCTAACTGTAAAATTTTT
18173613 AAAAGGATATTAAGCCATTTGGTTAAACGAGAAAAACGACACCCAGCACCTTAGTGCATGTTTTC
1 AAAAGGATATTAAGCCATTTGGTTAAACGAGAAAAACGACACCCAGCACCTTAGTGCATGTTTTC
*
18173678 TCGAATTTCCAAATGCAAAACATTGCCTAATTGTAAAATTTTT
66 TCGAATTTCCAAATGCAAAACATTGCCTAACTGTAAAATTTTT
*
18173721 AAAAGGATATTAAGCCATTTGGTTAAACGAGAAAAAACGACACCCAGCACCTTAGAGCATGTTTT
1 AAAAGGATATTAAGCCATTTGGTTAAACGAG-AAAAACGACACCCAGCACCTTAGTGCATGTTTT
*
18173786 CTCGAATTTTCAAATGCAAAACATTGCC
65 CTCGAATTTCCAAATGCAAAACATTGCC
18173814 CTTTTTGAAA
Statistics
Matches: 192, Mismatches: 8, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
108 133 0.69
109 59 0.31
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.28
Consensus pattern (108 bp):
AAAAGGATATTAAGCCATTTGGTTAAACGAGAAAAACGACACCCAGCACCTTAGTGCATGTTTTC
TCGAATTTCCAAATGCAAAACATTGCCTAACTGTAAAATTTTT
Found at i:18174319 original size:27 final size:28
Alignment explanation
Indices: 18174288--18174342 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 28
18174278 TAAGGAAAAT
* *
18174288 ATATATAG-ATCT-AAATGTATATATAA
1 ATATATAGAATATAAAATATATATATAA
18174314 AT-TATAGAATATAAAATATATATATAA
1 ATATATAGAATATAAAATATATATATAA
18174341 AT
1 AT
18174343 GGGTACATGC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 5 0.20
26 5 0.20
27 15 0.60
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.38
Consensus pattern (28 bp):
ATATATAGAATATAAAATATATATATAA
Found at i:18176097 original size:401 final size:406
Alignment explanation
Indices: 18175345--18176161 Score: 1545
Period size: 401 Copynumber: 2.0 Consensus size: 406
18175335 GATTTTTTTT
18175345 TTCTATTTCTTCAATATTGTTTCAAAAAATCGGACCCTCTTACAAAGATTTTTTGTTGGCTTTAT
1 TTCTATTTCTTCAATATTGTTTCAAAAAATCGGACCCTCTTACAAAGATTTTTTGTTGGCTTTAT
18175410 AGCCGATTTACATGAATTTTTAGTCTATTTTACTTGCTGATGTTTCTTTTCTGTCCTTGCAGGCG
66 AGCCGATTTACATGAATTTTTAGTCTATTTTACTTGCTGATGTTTCTTTTCTGTCCTTGCAGGCG
*
18175475 TGGGCGCACGTGGGTGGAGATGACAGTGGCAGTTGGCGGTGGTTGCTGGCAGAGCAGGTGGGCAG
131 TGGGCGCACGTGGGTGGAGATGACAGTGGCAGGTGGC---GG-TGC-GGCAGAGCAGGTGGGCAG
18175540 AAGACCAAAGGTCAGAAGACCTTAGGAGCGGCGCCTAGGGTTCTTCTGTTTTCTGCTAGGTTTTT
191 AAGACCAAAGGTCAGAAGACCTTAGGAGCGGCGCCTAGGGTTCTTCTGTTTTCTGCTAGGTTTTT
18175605 TTGTTTTGGGTCTAGTGGGCTACTAGGATTTTGGTTATTGGGCTGGTTTTTTATTTGGGTCGTAT
256 TTGTTTTGGGTCTAGTGGGCTACTAGGATTTTGGTTATTGGGCTGGTTTTTTATTTGGGTCGTAT
18175670 CAGGCCCGTTGTACTTGGACTTATAGACTGGTTTTTATTTCTGGTATGGTTTGGTTTATTTGGTA
321 CAGGCCCGTTGTACTTGGACTTATAGACTGGTTTTTATTTCTGGTATGGTTTGGTTTATTTGGTA
18175735 CGGGCCCGGGCAAATTTGGG-
386 CGGGCCCGGGCAAATTTGGGC
18175755 TTCTATTTCTTCAATATTGTTTCAAAAAATCGGACCCTCTTACAAAGATTTTTTGTTGGCTTTAT
1 TTCTATTTCTTCAATATTGTTTCAAAAAATCGGACCCTCTTACAAAGATTTTTTGTTGGCTTTAT
18175820 AGCCGATTTACATGAATTTTTAGTCTATTTTACTTGCTGATGTTTCTTTTCTGTCCTTGCAGGCG
66 AGCCGATTTACATGAATTTTTAGTCTATTTTACTTGCTGATGTTTCTTTTCTGTCCTTGCAGGCG
18175885 TGGGCGCACGTGGGTGGAGATGACAGTGGCAGGTGGC-G-G-GG-AGAGCAGGTGGGCAGAAGAC
131 TGGGCGCACGTGGGTGGAGATGACAGTGGCAGGTGGCGGTGCGGCAGAGCAGGTGGGCAGAAGAC
18175946 CAAAGGTCAGAAGACCTTAGGAGCGGCGCCTAGGGTTCTTCTGTTTTCTGCTAGGTTTTTTTGTT
196 CAAAGGTCAGAAGACCTTAGGAGCGGCGCCTAGGGTTCTTCTGTTTTCTGCTAGGTTTTTTTGTT
18176011 TTGGGTCTAGTGGGCTACTAGGATTTTGGTTATTGGGCTGGTTTTTTATTTGGGTCGTATCAGGC
261 TTGGGTCTAGTGGGCTACTAGGATTTTGGTTATTGGGCTGGTTTTTTATTTGGGTCGTATCAGGC
18176076 CCGTTGTACTTGGACTTATAGACTGGTTTTTATTTCTGGTATGGTTTGGTTTATTTGGTACGGGC
326 CCGTTGTACTTGGACTTATAGACTGGTTTTTATTTCTGGTATGGTTTGGTTTATTTGGTACGGGC
18176141 CCGGGCAAATTTGGGC
391 CCGGGCAAATTTGGGC
18176157 TTCTA
1 TTCTA
18176162 CAATTTATAT
Statistics
Matches: 405, Mismatches: 1, Indels: 10
0.97 0.00 0.02
Matches are distributed among these distances:
401 230 0.57
402 7 0.02
404 1 0.00
406 1 0.00
410 166 0.41
ACGTcount: A:0.18, C:0.16, G:0.28, T:0.38
Consensus pattern (406 bp):
TTCTATTTCTTCAATATTGTTTCAAAAAATCGGACCCTCTTACAAAGATTTTTTGTTGGCTTTAT
AGCCGATTTACATGAATTTTTAGTCTATTTTACTTGCTGATGTTTCTTTTCTGTCCTTGCAGGCG
TGGGCGCACGTGGGTGGAGATGACAGTGGCAGGTGGCGGTGCGGCAGAGCAGGTGGGCAGAAGAC
CAAAGGTCAGAAGACCTTAGGAGCGGCGCCTAGGGTTCTTCTGTTTTCTGCTAGGTTTTTTTGTT
TTGGGTCTAGTGGGCTACTAGGATTTTGGTTATTGGGCTGGTTTTTTATTTGGGTCGTATCAGGC
CCGTTGTACTTGGACTTATAGACTGGTTTTTATTTCTGGTATGGTTTGGTTTATTTGGTACGGGC
CCGGGCAAATTTGGGC
Found at i:18178856 original size:23 final size:22
Alignment explanation
Indices: 18178816--18178858 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
18178806 AAATAAAAGA
18178816 AAAAATAACTTATATATTAATT
1 AAAAATAACTTATATATTAATT
* *
18178838 AAAAATTACTATATTTATTAA
1 AAAAATAACT-TATATATTAA
18178859 ATAGTTTACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (22 bp):
AAAAATAACTTATATATTAATT
Found at i:18178956 original size:5 final size:5
Alignment explanation
Indices: 18178938--18178971 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
18178928 ATGATTAAAT
18178938 TATT- TATTA TTATTA TATTA TATTA TATTA TATT
1 TATTA TATTA -TATTA TATTA TATTA TATTA TATT
18178972 TAATAATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 4 0.14
5 19 0.68
6 5 0.18
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (5 bp):
TATTA
Found at i:18185461 original size:28 final size:28
Alignment explanation
Indices: 18185429--18185528 Score: 155
Period size: 28 Copynumber: 3.6 Consensus size: 28
18185419 TAATGAGATT
18185429 AGCACTAAGTGTGCGAGTTTAATTGTAA
1 AGCACTAAGTGTGCGAGTTTAATTGTAA
*
18185457 AGCACTAAGTGTGCGAGTTTAATGGTAA
1 AGCACTAAGTGTGCGAGTTTAATTGTAA
* * * *
18185485 AGCACTTAGTGTGCGAGTTTGATTATTA
1 AGCACTAAGTGTGCGAGTTTAATTGTAA
18185513 AGCACTAAGTGTGCGA
1 AGCACTAAGTGTGCGA
18185529 ACTTATTAAA
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 65 1.00
ACGTcount: A:0.30, C:0.12, G:0.27, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTAATTGTAA
Found at i:18186624 original size:35 final size:35
Alignment explanation
Indices: 18186585--18186654 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
18186575 GTAAGATTCC
18186585 AATTAAGCTGTATCATGGATGTGATATGGTTAATA
1 AATTAAGCTGTATCATGGATGTGATATGGTTAATA
*
18186620 AATTAAGTTGTATCATGGATGTGATATGGTTAATA
1 AATTAAGCTGTATCATGGATGTGATATGGTTAATA
18186655 TGCTCTACTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.34, C:0.04, G:0.23, T:0.39
Consensus pattern (35 bp):
AATTAAGCTGTATCATGGATGTGATATGGTTAATA
Found at i:18190636 original size:18 final size:19
Alignment explanation
Indices: 18190613--18190651 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
18190603 CTAAACTCTT
18190613 ACCCTAA-TAAAAATAAAA
1 ACCCTAACTAAAAATAAAA
18190631 ACCCTAACTTAAAAATAAAA
1 ACCCTAAC-TAAAAATAAAA
18190651 A
1 A
18190652 AAGCCCTAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.37
20 12 0.63
ACGTcount: A:0.64, C:0.18, G:0.00, T:0.18
Consensus pattern (19 bp):
ACCCTAACTAAAAATAAAA
Found at i:18207134 original size:15 final size:15
Alignment explanation
Indices: 18207114--18207170 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 15
18207104 ATTCAATATT
18207114 AATATTTTAATAATA
1 AATATTTTAATAATA
*
18207129 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
18207148 AATATATTAATAATA
1 AATATTTTAATAATA
18207163 AATATTTT
1 AATATTTT
18207171 GTAGTATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 17 0.50
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.29
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:18210490 original size:9 final size:9
Alignment explanation
Indices: 18210473--18210509 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
18210463 TGAGTTTTCA
18210473 AATTCGAAT
1 AATTCGAAT
*
18210482 AACTCGAAT
1 AATTCGAAT
18210491 AATTCGAAT
1 AATTCGAAT
18210500 AATTCGAAT
1 AATTCGAAT
18210509 A
1 A
18210510 TTAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:18211544 original size:5 final size:5
Alignment explanation
Indices: 18211534--18211559 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
18211524 CTCGAAAATT
18211534 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
18211560 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:18212087 original size:15 final size:15
Alignment explanation
Indices: 18212038--18212092 Score: 53
Period size: 15 Copynumber: 3.9 Consensus size: 15
18212028 AATTCAACAT
18212038 TTAATTTTTCAGTAC
1 TTAATTTTTCAGTAC
* **
18212053 TT-A--TTCCAACAC
1 TTAATTTTTCAGTAC
*
18212065 TTATTTTTTCAGTAC
1 TTAATTTTTCAGTAC
18212080 TTAATTTTTCAGT
1 TTAATTTTTCAGT
18212093 TTATCAAACA
Statistics
Matches: 29, Mismatches: 8, Indels: 6
0.67 0.19 0.14
Matches are distributed among these distances:
12 8 0.28
14 1 0.03
15 20 0.69
ACGTcount: A:0.25, C:0.16, G:0.05, T:0.53
Consensus pattern (15 bp):
TTAATTTTTCAGTAC
Found at i:18216482 original size:35 final size:35
Alignment explanation
Indices: 18216443--18216532 Score: 101
Period size: 35 Copynumber: 2.6 Consensus size: 35
18216433 CATGGTGTCA
* * **
18216443 CTCTGTAGAGCCAGTAGATTATTTCCA-TGATGCTG
1 CTCTGTAGAGCCAATAAACCATTT-CAGTGATGCTG
* *
18216478 CTCTGTAGAGCCAATAAACCATTTTAGTGATTCTG
1 CTCTGTAGAGCCAATAAACCATTTCAGTGATGCTG
*
18216513 CTCTGTAGAGCCACTAAACC
1 CTCTGTAGAGCCAATAAACC
18216533 GTTTATCCAA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
34 1 0.02
35 46 0.98
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (35 bp):
CTCTGTAGAGCCAATAAACCATTTCAGTGATGCTG
Found at i:18218228 original size:61 final size:58
Alignment explanation
Indices: 18218155--18218266 Score: 161
Period size: 61 Copynumber: 1.9 Consensus size: 58
18218145 GTGATTATCT
* * **
18218155 TAATATTTAATTTAATTTAATATTTATCTTGTAGATAAATATTCTATTAATTTAATAGATC
1 TAATATTAAATTTAATCTAATATTTATC-T-TA-ATAAATATAATATTAATTTAATAGATC
18218216 TAATATTAAATTTAATCTAATATTTATCTTAATAAATATAATATTAATTTA
1 TAATATTAAATTTAATCTAATATTTATCTTAATAAATATAATATTAATTTA
18218267 TTATTAAAGT
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
58 18 0.38
59 2 0.04
60 1 0.02
61 26 0.55
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.50
Consensus pattern (58 bp):
TAATATTAAATTTAATCTAATATTTATCTTAATAAATATAATATTAATTTAATAGATC
Found at i:18218282 original size:58 final size:61
Alignment explanation
Indices: 18218061--18218266 Score: 170
Period size: 68 Copynumber: 3.3 Consensus size: 61
18218051 TTAACTATTC
* * * * * * *
18218061 TAAAAATAATATTATTTTAATAAATTTAATATTAAATTTAATTTAATACTTATGTTGATAGCA
1 TAAATATAATATTAATTTAATAGATCTAATATTAAATTTAATCTAATATTTATCTTG-TAG-A
** * * *
18218124 T-TTTATTAAT-TTAATATTTAAGTGATTATCTTAATATTTAATTTAATTTAATATTTATCTTGT
1 TAAATA-TAATATT-A-ATTTAA-T-A-GATC-TAATATTAAATTTAATCTAATATTTATCTTGT
18218187 AGA
59 AGA
**
18218190 TAAATATTCTATTAATTTAATAGATCTAATATTAAATTTAATCTAATATTTATC-T-TA-A
1 TAAATATAATATTAATTTAATAGATCTAATATTAAATTTAATCTAATATTTATCTTGTAGA
18218248 TAAATATAATATTAATTTA
1 TAAATATAATATTAATTTA
18218267 TTATTAAAGT
Statistics
Matches: 116, Mismatches: 18, Indels: 23
0.74 0.11 0.15
Matches are distributed among these distances:
58 18 0.16
59 2 0.02
60 1 0.01
61 26 0.22
62 6 0.05
63 7 0.06
64 6 0.05
65 7 0.06
66 6 0.05
67 9 0.08
68 28 0.24
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.50
Consensus pattern (61 bp):
TAAATATAATATTAATTTAATAGATCTAATATTAAATTTAATCTAATATTTATCTTGTAGA
Found at i:18222043 original size:45 final size:45
Alignment explanation
Indices: 18221977--18222062 Score: 154
Period size: 45 Copynumber: 1.9 Consensus size: 45
18221967 TATACGCCTA
*
18221977 AAATGAGTAAGACCATAGCTAAAAGATGCTATGGCATCATGATGG
1 AAATGAGTAAGACCATAGCTAAAAGACGCTATGGCATCATGATGG
*
18222022 AAATGAGTAAGACCATTGCTAAAAGACGCTATGGCATCATG
1 AAATGAGTAAGACCATAGCTAAAAGACGCTATGGCATCATG
18222063 GTAAACAAGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (45 bp):
AAATGAGTAAGACCATAGCTAAAAGACGCTATGGCATCATGATGG
Found at i:18222077 original size:45 final size:45
Alignment explanation
Indices: 18221976--18222084 Score: 130
Period size: 45 Copynumber: 2.4 Consensus size: 45
18221966 CTATACGCCT
* *
18221976 AAAATGAGTAAGACCATAGCTAAAAGATGCTATGGCATCATGATG
1 AAAAAGAGTAAGACCATAGCTAAAAGACGCTATGGCATCATGATG
* * * *
18222021 GAAATGAGTAAGACCATTGCTAAAAGACGCTATGGCATCATGGT-
1 AAAAAGAGTAAGACCATAGCTAAAAGACGCTATGGCATCATGATG
* *
18222065 AAACAAGTGTAAGGCCATAG
1 AAA-AAGAGTAAGACCATAG
18222085 TTGGACTATG
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
44 2 0.04
45 52 0.96
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (45 bp):
AAAAAGAGTAAGACCATAGCTAAAAGACGCTATGGCATCATGATG
Found at i:18222334 original size:27 final size:27
Alignment explanation
Indices: 18222304--18222382 Score: 72
Period size: 27 Copynumber: 2.9 Consensus size: 27
18222294 ATGATATCGT
*
18222304 AGATAG-TCTGACAGGATGTTAAACACA
1 AGATAGTTC-GACAGGACGTTAAACACA
* **
18222331 AGATAGTTCGACGGGACGTTAAACATG
1 AGATAGTTCGACAGGACGTTAAACACA
* *
18222358 GGATAGTTTGAC-GGAACGTTAAACA
1 AGATAGTTCGACAGG-ACGTTAAACA
18222383 TGAGAGTATA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
26 2 0.05
27 40 0.91
28 2 0.05
ACGTcount: A:0.37, C:0.14, G:0.27, T:0.23
Consensus pattern (27 bp):
AGATAGTTCGACAGGACGTTAAACACA
Found at i:18222383 original size:27 final size:27
Alignment explanation
Indices: 18222332--18222384 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
18222322 TTAAACACAA
*
18222332 GATAGTTCGACGGGACGTTAAACATGG
1 GATAGTTCGACGGAACGTTAAACATGG
*
18222359 GATAGTTTGACGGAACGTTAAACATG
1 GATAGTTCGACGGAACGTTAAACATG
18222385 AGAGTATAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.25
Consensus pattern (27 bp):
GATAGTTCGACGGAACGTTAAACATGG
Found at i:18232596 original size:15 final size:15
Alignment explanation
Indices: 18232576--18232605 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18232566 CGTATCCGTT
18232576 GCCGAATTTAGGCTA
1 GCCGAATTTAGGCTA
*
18232591 GCCGAATTTGGGCTA
1 GCCGAATTTAGGCTA
18232606 CGGAGTATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (15 bp):
GCCGAATTTAGGCTA
Found at i:18234002 original size:39 final size:39
Alignment explanation
Indices: 18233953--18234222 Score: 306
Period size: 39 Copynumber: 6.9 Consensus size: 39
18233943 CGTAAACACA
* * * *
18233953 GCACGAAAGTGTTATCAAGAGTACCGAAGTACAACAGGG
1 GCACGTAAGTGCTATCAGGGGTACCGAAGTACAACAGGG
* * * *
18233992 GCACATAAGTGGTGTCAGGGGTACCGAAGTACAATAGGG
1 GCACGTAAGTGCTATCAGGGGTACCGAAGTACAACAGGG
* * * * *
18234031 GCACGTAAGTGCGATCAAGGGAACTGAAGTACAACAGTG
1 GCACGTAAGTGCTATCAGGGGTACCGAAGTACAACAGGG
* *
18234070 GCACGTAAGTGCGATCAGGGGTACCAAAGTACAACAGGG
1 GCACGTAAGTGCTATCAGGGGTACCGAAGTACAACAGGG
* *
18234109 GCACGTAAGTGCTGTCAGAGGTACCGAAGTACAACAGGG
1 GCACGTAAGTGCTATCAGGGGTACCGAAGTACAACAGGG
* * ** * *
18234148 GTACGTAAGTACGGTTAGGGGTACTGAAGTACAACAGGG
1 GCACGTAAGTGCTATCAGGGGTACCGAAGTACAACAGGG
* * *
18234187 GCACATAACTGCAATCAGGGGTACCGAAGTACAACA
1 GCACGTAAGTGCTATCAGGGGTACCGAAGTACAACA
18234223 ATTATCTACT
Statistics
Matches: 192, Mismatches: 39, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 192 1.00
ACGTcount: A:0.34, C:0.19, G:0.31, T:0.16
Consensus pattern (39 bp):
GCACGTAAGTGCTATCAGGGGTACCGAAGTACAACAGGG
Found at i:18234040 original size:19 final size:19
Alignment explanation
Indices: 18234018--18234118 Score: 60
Period size: 19 Copynumber: 5.2 Consensus size: 19
18234008 AGGGGTACCG
18234018 AAGTACAATAGGGGCACGT
1 AAGTACAATAGGGGCACGT
* * * *
18234037 AAGTGCGATCAAGGGAAC-T
1 AAGTACAAT-AGGGGCACGT
* *
18234056 GAAGTACAACAGTGGCACGT
1 -AAGTACAATAGGGGCACGT
* * * **
18234076 AAGTGCGATCAGGGGTACCA
1 AAGTACAAT-AGGGGCACGT
*
18234096 AAGTACAACAGGGGCACGT
1 AAGTACAATAGGGGCACGT
18234115 AAGT
1 AAGT
18234119 GCTGTCAGAG
Statistics
Matches: 55, Mismatches: 23, Indels: 8
0.64 0.27 0.09
Matches are distributed among these distances:
19 30 0.55
20 25 0.45
ACGTcount: A:0.36, C:0.18, G:0.32, T:0.15
Consensus pattern (19 bp):
AAGTACAATAGGGGCACGT
Found at i:18234174 original size:117 final size:117
Alignment explanation
Indices: 18233973--18234222 Score: 365
Period size: 117 Copynumber: 2.1 Consensus size: 117
18233963 GTTATCAAGA
* * *
18233973 GTACCGAAGTACAACAGGGGCACATAAGTGGTGTCAGGGGTACCGAAGTACAATAGGGGCACGTA
1 GTACCGAAGTACAACAGGGGCACATAAGTGCTGTCAGAGGTACCGAAGTACAACAGGGGCACGTA
* * * * *
18234038 AGTGCGATCAAGGGAACTGAAGTACAACAGTGGCACGTAAGTGCGATCAGGG
66 AGTACGATCAAGGGAACTGAAGTACAACAGGGGCACATAACTGCAATCAGGG
* * *
18234090 GTACCAAAGTACAACAGGGGCACGTAAGTGCTGTCAGAGGTACCGAAGTACAACAGGGGTACGTA
1 GTACCGAAGTACAACAGGGGCACATAAGTGCTGTCAGAGGTACCGAAGTACAACAGGGGCACGTA
* * * *
18234155 AGTACGGTTAGGGGTACTGAAGTACAACAGGGGCACATAACTGCAATCAGGG
66 AGTACGATCAAGGGAACTGAAGTACAACAGGGGCACATAACTGCAATCAGGG
18234207 GTACCGAAGTACAACA
1 GTACCGAAGTACAACA
18234223 ATTATCTACT
Statistics
Matches: 117, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
117 117 1.00
ACGTcount: A:0.34, C:0.19, G:0.32, T:0.16
Consensus pattern (117 bp):
GTACCGAAGTACAACAGGGGCACATAAGTGCTGTCAGAGGTACCGAAGTACAACAGGGGCACGTA
AGTACGATCAAGGGAACTGAAGTACAACAGGGGCACATAACTGCAATCAGGG
Found at i:18235728 original size:37 final size:37
Alignment explanation
Indices: 18235638--18235810 Score: 177
Period size: 37 Copynumber: 4.6 Consensus size: 37
18235628 AGAAGATCTT
* * * *
18235638 ATTCAATATGATCAGTGGATAATGCTCGTTTGAGCAAAC
1 ATTCAGTATAATCAGTAGATATTGCTCGTTTGAGC--AC
* * *
18235677 ATTCAGTATGATCAGTGGTTATTGCTCGTTTGAGCAC
1 ATTCAGTATAATCAGTAGATATTGCTCGTTTGAGCAC
* *
18235714 ATTCTGTATAATCAGTAGACATTGCTC-TTTGGAGCAC
1 ATTCAGTATAATCAGTAGATATTGCTCGTTT-GAGCAC
* * * *
18235751 ATTCAATATAACCATTAGATATTGCTTGTTTGAGCAC
1 ATTCAGTATAATCAGTAGATATTGCTCGTTTGAGCAC
* *
18235788 ATTCAGTAAAATCAATAGATATT
1 ATTCAGTATAATCAGTAGATATT
18235811 ACTCATTGGA
Statistics
Matches: 114, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
36 3 0.03
37 76 0.67
38 3 0.03
39 32 0.28
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (37 bp):
ATTCAGTATAATCAGTAGATATTGCTCGTTTGAGCAC
Found at i:18238061 original size:15 final size:15
Alignment explanation
Indices: 18238041--18238072 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
18238031 TATACATGCA
18238041 AAATACAAAAGACAT
1 AAATACAAAAGACAT
*
18238056 AAATACAGAAGACAT
1 AAATACAAAAGACAT
18238071 AA
1 AA
18238073 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.66, C:0.12, G:0.09, T:0.12
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:18240263 original size:370 final size:368
Alignment explanation
Indices: 18239577--18240296 Score: 1260
Period size: 370 Copynumber: 2.0 Consensus size: 368
18239567 CAGTGCACAG
* *
18239577 TTAAAGCAGTCTTGGGCCTAAGCCCTTTTTCAGTATCAGTAATAGTTTGGGCCTTATCCCATCTC
1 TTAAAGCAGTCTTGGGCCTAAGCCCTTTTTCAGTATCAGTAATAGTTTGGGCCTTAGCCCATATC
18239642 AGTCAGTATCAAATATGCAGTAGGGCCTTACCCATCACAGTATCAGTAGCAGTCATGCAGTATTC
66 AGTCAGTATCAAATATGCAGTAGGGCCTTACCCATCACAGTATCAGTAGCAGTCATGCAGTATTC
*
18239707 AGTAACAAAGTCCTACCCAACTAGCCTCTACACACCATCTCCGTCCAACCCTACACTCCATGTGG
131 AGTAACAAAGTCCTACCCAACCAGCCTCTACACACCATCTCCGTCCAACCCTACACTCCATGTGG
*
18239772 GGATCAAATCAACCTACCCATCCCTACACTCTAGGTAGTACCAAATTCGGCACAAAATAATAATT
196 GGATCAAATCAACCTACCCATCCCTACACTCTAGGTAGTACAAAATTCGGCACAAAATAATAATT
* *
18239837 TGCAGCTAAACTGCCAGTATGTTAGGCTTAAGAGCATTTCAGTACACTTTCTCCAAATATAATTA
261 TGCAGCTAAACTGCCAGTATGTTAGGCTAAAGAGCATTTCAGTACACTTCCTCCAAATATAATTA
18239902 ACCCAACCCCATGAAATGCAACATAAGCCCTTTTTCAGTATCA
326 ACCCAACCCCATGAAATGCAACATAAGCCCTTTTTCAGTATCA
18239945 TTAAAGCAGTCTTGGGCCTAAGCCCTTTTTCAGTATCAGTAATAGTTTGGGCCTTAGCCCATATC
1 TTAAAGCAGTCTTGGGCCTAAGCCCTTTTTCAGTATCAGTAATAGTTTGGGCCTTAGCCCATATC
18240010 AGTACAGTATCAAATATGCAGTAGGGCCTTAGCCCATCACAGTATCAGTAGCAGTCATGCAGTAT
66 AGT-CAGTATCAAATATGCAGTAGGGCCTTA-CCCATCACAGTATCAGTAGCAGTCATGCAGTAT
* * * *
18240075 TCAGTAACAAAGTGCTACCTAACCGGCCTCTACACACCATCTCCGTCCAACCCTATACTCCATGT
129 TCAGTAACAAAGTCCTACCCAACCAGCCTCTACACACCATCTCCGTCCAACCCTACACTCCATGT
* * *
18240140 GGGGATCAAATCAACCTACCCATCTCTACACTCTAGGTAGTACAAAATTTGGCACAAAATAGTAA
194 GGGGATCAAATCAACCTACCCATCCCTACACTCTAGGTAGTACAAAATTCGGCACAAAATAATAA
* * * *
18240205 TTTGTAGCTGAGCTGCCAGTATGTTAGGCTAAAGATCATTTCAGTACACTTCCTCCAAATATAAT
259 TTTGCAGCTAAACTGCCAGTATGTTAGGCTAAAGAGCATTTCAGTACACTTCCTCCAAATATAAT
*
18240270 TAACCCAACCCCATGCAATGCAACATA
324 TAACCCAACCCCATGAAATGCAACATA
18240297 CAAGTCATGA
Statistics
Matches: 332, Mismatches: 18, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
368 66 0.20
369 27 0.08
370 239 0.72
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (368 bp):
TTAAAGCAGTCTTGGGCCTAAGCCCTTTTTCAGTATCAGTAATAGTTTGGGCCTTAGCCCATATC
AGTCAGTATCAAATATGCAGTAGGGCCTTACCCATCACAGTATCAGTAGCAGTCATGCAGTATTC
AGTAACAAAGTCCTACCCAACCAGCCTCTACACACCATCTCCGTCCAACCCTACACTCCATGTGG
GGATCAAATCAACCTACCCATCCCTACACTCTAGGTAGTACAAAATTCGGCACAAAATAATAATT
TGCAGCTAAACTGCCAGTATGTTAGGCTAAAGAGCATTTCAGTACACTTCCTCCAAATATAATTA
ACCCAACCCCATGAAATGCAACATAAGCCCTTTTTCAGTATCA
Found at i:18245218 original size:43 final size:43
Alignment explanation
Indices: 18245132--18245397 Score: 250
Period size: 43 Copynumber: 6.2 Consensus size: 43
18245122 GGTGTATACA
* * * * * * * *
18245132 ATGATGCATTATATGTGCCAATATAATTGCTTAGGCTTGTCTG
1 ATGATGCACTATGTATGCCAATATATTTTCTTCGGTTTATCTG
* * *
18245175 ATTATGAACTATGTGTGCCAATATATTTTCTTCGGTTTATCTG
1 ATGATGCACTATGTATGCCAATATATTTTCTTCGGTTTATCTG
* * *
18245218 ATGATGCACTATGCATGCCAATATATTTTCTTTGGTTTATCCG
1 ATGATGCACTATGTATGCCAATATATTTTCTTCGGTTTATCTG
*
18245261 ATGATGCACTATGCATGCCAATATATTTTCTTCGGTTTATCTG
1 ATGATGCACTATGTATGCCAATATATTTTCTTCGGTTTATCTG
* * ** * * *
18245304 GT-ATTGCACT-TGTGTGGTAGTATATTTTCTTCGATTTATCCG
1 ATGA-TGCACTATGTATGCCAATATATTTTCTTCGGTTTATCTG
* * * ** *
18245346 ATAATGCACTGTGTATGCCAGTATATTTT-TTTAGTTTATCCG
1 ATGATGCACTATGTATGCCAATATATTTTCTTCGGTTTATCTG
18245388 ATGATGCACT
1 ATGATGCACT
18245398 GTATGTGCTA
Statistics
Matches: 187, Mismatches: 33, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
42 52 0.28
43 135 0.72
ACGTcount: A:0.23, C:0.16, G:0.18, T:0.43
Consensus pattern (43 bp):
ATGATGCACTATGTATGCCAATATATTTTCTTCGGTTTATCTG
Found at i:18245354 original size:42 final size:43
Alignment explanation
Indices: 18245182--18245564 Score: 249
Period size: 43 Copynumber: 9.0 Consensus size: 43
18245172 CTGATTATGA
* * *
18245182 ACTATGTGTGCCAATATATTTTCTTCGGTTTATCTGATGATGC
1 ACTATGTATGCCAGTATATTTTCTTCGGTTTATCCGATGATGC
* * *
18245225 ACTATGCATGCCAATATATTTTCTTTGGTTTATCCGATGATGC
1 ACTATGTATGCCAGTATATTTTCTTCGGTTTATCCGATGATGC
* * * *
18245268 ACTATGCATGCCAATATATTTTCTTCGGTTTATCTGGT-ATTGC
1 ACTATGTATGCCAGTATATTTTCTTCGGTTTATCCGATGA-TGC
* ** * *
18245311 ACT-TGTGTGGTAGTATATTTTCTTCGATTTATCCGATAATGC
1 ACTATGTATGCCAGTATATTTTCTTCGGTTTATCCGATGATGC
* **
18245353 ACTGTGTATGCCAGTATATTTT-TTTAGTTTATCCGATGATGC
1 ACTATGTATGCCAGTATATTTTCTTCGGTTTATCCGATGATGC
* * * * ** * * * *
18245395 ACTGTATGTGCTAGTATACATACTTTGGTTTATCTGATGATAC
1 ACTATGTATGCCAGTATATTTTCTTCGGTTTATCCGATGATGC
* * ** * * *
18245438 ACTGTGTGTGCCAGTATAAATTCTTC---ATATCTGATGATGA
1 ACTATGTATGCCAGTATATTTTCTTCGGTTTATCCGATGATGC
* * * ** ** * * *
18245478 ATTGTGTGTGCTGGTATAGATACTTCGGTATATCTGATGATGC
1 ACTATGTATGCCAGTATATTTTCTTCGGTTTATCCGATGATGC
* * * * *
18245521 ACTGTGTGTGCCAGTATAATTGCGTT-GGTTTATCCAATGATGC
1 ACTATGTATGCCAGTATATTTTC-TTCGGTTTATCCGATGATGC
18245564 A
1 A
18245565 TTTATGTGTT
Statistics
Matches: 278, Mismatches: 54, Indels: 16
0.80 0.16 0.05
Matches are distributed among these distances:
40 32 0.12
42 65 0.23
43 179 0.64
44 2 0.01
ACGTcount: A:0.23, C:0.15, G:0.20, T:0.42
Consensus pattern (43 bp):
ACTATGTATGCCAGTATATTTTCTTCGGTTTATCCGATGATGC
Found at i:18245410 original size:85 final size:85
Alignment explanation
Indices: 18245190--18245604 Score: 297
Period size: 85 Copynumber: 4.9 Consensus size: 85
18245180 GAACTATGTG
* *
18245190 TGCCAATATATTTTCTTCGGTTTATCTGATGATGCAC-TATGCATGCCAATATATTTTCTTTGGT
1 TGCCAATATATTTTCTTCGGTTTATCTGATGATGCACTTATG--TGCTAGTATATTTTCTTTGGT
* *
18245254 TTATCCGATGATGCACTATGCA
64 TTATCCGATGATGCACTGTGTA
* * * * *
18245276 TGCCAATATATTTTCTTCGGTTTATCTGGT-ATTGCACTTGTGTGGTAGTATATTTTCTTCGATT
1 TGCCAATATATTTTCTTCGGTTTATCTGATGA-TGCACTTATGTGCTAGTATATTTTCTTTGGTT
*
18245340 TATCCGATAATGCACTGTGTA
65 TATCCGATGATGCACTGTGTA
* ** * ** *
18245361 TGCCAGTATATTTT-TTTAGTTTATCCGATGATGCACTGTATGTGCTAGTATACATACTTTGGTT
1 TGCCAATATATTTTCTTCGGTTTATCTGATGATGCACT-TATGTGCTAGTATATTTTCTTTGGTT
* * *
18245425 TATCTGATGATACACTGTGTG
65 TATCCGATGATGCACTGTGTA
* ** * * * * * ** * * *
18245446 TGCCAGTATAAATTCTTC---ATATCTGATGATGAATTGTGTGTGCTGGTATAGATACTTCGGTA
1 TGCCAATATATTTTCTTCGGTTTATCTGATGATGCACT-TATGTGCTAGTATATTTTCTTTGGTT
* *
18245508 TATCTGATGATGCACTGTGTG
65 TATCCGATGATGCACTGTGTA
* * * ** * * * *
18245529 TGCCAGTATAATTGCGTT-GGTTTATCCAATGATGCATTTATGTGTTAGCATGATTAT-TTTGGT
1 TGCCAATATATTTTC-TTCGGTTTATCTGATGATGCACTTATGTGCTAGTAT-ATTTTCTTTGG-
*
18245592 TTTATCTGATGAT
63 TTTATCCGATGAT
18245605 ACATTACGAT
Statistics
Matches: 263, Mismatches: 55, Indels: 22
0.77 0.16 0.06
Matches are distributed among these distances:
83 68 0.26
84 19 0.07
85 111 0.42
86 62 0.24
87 3 0.01
ACGTcount: A:0.22, C:0.14, G:0.20, T:0.43
Consensus pattern (85 bp):
TGCCAATATATTTTCTTCGGTTTATCTGATGATGCACTTATGTGCTAGTATATTTTCTTTGGTTT
ATCCGATGATGCACTGTGTA
Found at i:18245441 original size:43 final size:42
Alignment explanation
Indices: 18245338--18245607 Score: 147
Period size: 43 Copynumber: 6.4 Consensus size: 42
18245328 TTTTCTTCGA
* * * * * * ** *
18245338 TTTATCCGATAATGCACTGTGTATGCCAGTATATTTTTTTAG
1 TTTATCTGATGATACACTGTGTGTGCTAGTATAATACTTTGG
* * *
18245380 TTTATCCGATGATGCACTGTATGTGCTAGTATACATACTTTGG
1 TTTATCTGATGATACACTGTGTGTGCTAGTATA-ATACTTTGG
*
18245423 TTTATCTGATGATACACTGTGTGTGCCAGTATAA-A-TTCT--
1 TTTATCTGATGATACACTGTGTGTGCTAGTATAATACTT-TGG
* * * *
18245462 TCATATCTGATGATGA-ATTGTGTGTGCTGGTATAGATACTTCGG
1 T-TTATCTGATGAT-ACACTGTGTGTGCTAGTATA-ATACTTTGG
* * * * *
18245506 TATATCTGATGATGCACTGTGTGTGCCAGTATAATTGCGTTGG
1 TTTATCTGATGATACACTGTGTGTGCTAGTATAA-TACTTTGG
** * * * * * * *
18245549 TTTATCCAATGATGCA-TTTATGTGTTAGCATGATTATTTTGG
1 TTTATCTGATGATACACTGTGTGTGCTAGTAT-AATACTTTGG
18245591 TTTTATCTGATGATACA
1 -TTTATCTGATGATACA
18245608 TTACGATGCT
Statistics
Matches: 176, Mismatches: 39, Indels: 25
0.73 0.16 0.10
Matches are distributed among these distances:
39 1 0.01
40 28 0.16
41 4 0.02
42 47 0.27
43 95 0.54
44 1 0.01
ACGTcount: A:0.24, C:0.13, G:0.21, T:0.42
Consensus pattern (42 bp):
TTTATCTGATGATACACTGTGTGTGCTAGTATAATACTTTGG
Found at i:18245463 original size:128 final size:127
Alignment explanation
Indices: 18245186--18245455 Score: 312
Period size: 128 Copynumber: 2.1 Consensus size: 127
18245176 TTATGAACTA
* * * *
18245186 TGTGTGCCAATATATTTTCTTCGGTTTATCTGATGATGCACTATGCATGCCAATATATTTTCTTT
1 TGTGTGCCAGTATATTTTCTTCGATTTATCCGATAATGCACTATGCATGCCAATATATTTTCTTT
* ** * * *
18245251 GGTTTATCCGATGATGCACTATGCATGCCAATATATTTTCTTCGGTTTATCTGGTATTGCACT
66 AGTTTATCCGATGATGCACTATG-ATGCCAATATACATACTTCGGTTTATCTGATATTACACT
** * * *
18245314 TGTGTGGTAGTATATTTTCTTCGATTTATCCGATAATGCACTGTGTATGCCAGTATATTTT-TTT
1 TGTGTGCCAGTATATTTTCTTCGATTTATCCGATAATGCACTATGCATGCCAATATATTTTCTTT
* * *
18245378 AGTTTATCCGATGATGCACTGTATG-TGCTAGTATACATACTTTGGTTTATCTGATGA-TACACT
66 AGTTTATCCGATGATGCAC--TATGATGCCAATATACATACTTCGGTTTATCTGAT-ATTACACT
18245441 GTGTGTGCCAGTATA
1 -TGTGTGCCAGTATA
18245456 AATTCTTCAT
Statistics
Matches: 118, Mismatches: 20, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
127 49 0.42
128 65 0.55
129 4 0.03
ACGTcount: A:0.22, C:0.16, G:0.19, T:0.43
Consensus pattern (127 bp):
TGTGTGCCAGTATATTTTCTTCGATTTATCCGATAATGCACTATGCATGCCAATATATTTTCTTT
AGTTTATCCGATGATGCACTATGATGCCAATATACATACTTCGGTTTATCTGATATTACACT
Found at i:18245502 original size:83 final size:83
Alignment explanation
Indices: 18245382--18245539 Score: 235
Period size: 83 Copynumber: 1.9 Consensus size: 83
18245372 TTTTTTAGTT
* * *
18245382 TATCCGATGATGCACTGTATGTGCTAGTATACATACTTTGGTTTATCTGATGATACACTGTGTGT
1 TATCCGATGATGAACTGTATGTGCTAGTATACATACTTCGGTATATCTGATGATACACTGTGTGT
18245447 GCCAGTATAAATTCTTCA
66 GCCAGTATAAATTCTTCA
* * * * * *
18245465 TATCTGATGATGAATTGTGTGTGCTGGTATAGATACTTCGGTATATCTGATGATGCACTGTGTGT
1 TATCCGATGATGAACTGTATGTGCTAGTATACATACTTCGGTATATCTGATGATACACTGTGTGT
18245530 GCCAGTATAA
66 GCCAGTATAA
18245540 TTGCGTTGGT
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
83 66 1.00
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (83 bp):
TATCCGATGATGAACTGTATGTGCTAGTATACATACTTCGGTATATCTGATGATACACTGTGTGT
GCCAGTATAAATTCTTCA
Found at i:18262731 original size:30 final size:30
Alignment explanation
Indices: 18262697--18262755 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
18262687 TTTTTGAAAA
* * *
18262697 TATTTACAAAAAGAGGCATCTAATTTTTAG
1 TATTTACAAAAAGAGCCACCAAATTTTTAG
18262727 TATTTACAAAAAGAGCCACCAAATTTTTA
1 TATTTACAAAAAGAGCCACCAAATTTTTA
18262756 AAAATAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.42, C:0.14, G:0.10, T:0.34
Consensus pattern (30 bp):
TATTTACAAAAAGAGCCACCAAATTTTTAG
Found at i:18275313 original size:16 final size:17
Alignment explanation
Indices: 18275292--18275325 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
18275282 AAGAAAACCA
18275292 AGCTATAAATC-CTTTG
1 AGCTATAAATCTCTTTG
18275308 AGCTATAAATCTCTTTG
1 AGCTATAAATCTCTTTG
18275325 A
1 A
18275326 ATTCATTATC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (17 bp):
AGCTATAAATCTCTTTG
Found at i:18277802 original size:50 final size:50
Alignment explanation
Indices: 18277691--18278138 Score: 572
Period size: 50 Copynumber: 8.8 Consensus size: 50
18277681 ATTTGGGTAA
* *
18277691 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGTTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATG
* *
18277747 AGAGGTCCCATGTAAGACCATGTCTAGGACATGGTATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * *
18277797 AGAGGTCCCATGTAAGACCATGTTTGGGACAGGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* *
18277847 AGAGGTCCCATGTAAGACAATGTCTGGGACATGGCATTGGCACTGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * *
18277897 AGAGGTTCCATGTAAGACCATTTCTGGGGCATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* *
18277947 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGACACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * *
18277997 AGAGGTACCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* ** * * *
18278047 ACAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * * * *
18278097 AGAACTCTCATGTAAGACCATATCTGCGATATGACATTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
18278139 GTACAAGAAA
Statistics
Matches: 346, Mismatches: 46, Indels: 6
0.87 0.12 0.02
Matches are distributed among these distances:
50 303 0.88
53 3 0.01
55 1 0.00
56 39 0.11
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:18302357 original size:20 final size:20
Alignment explanation
Indices: 18302313--18302358 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
18302303 ACGAGATTTG
* * *
18302313 CACTTTGGTTCCCCTATTTA
1 CACTTCGGTGCCCCTATATA
*
18302333 GACTTCGGTGCCCCTATATA
1 CACTTCGGTGCCCCTATATA
18302353 CACTTC
1 CACTTC
18302359 AGTGTCCCTG
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.17, C:0.33, G:0.13, T:0.37
Consensus pattern (20 bp):
CACTTCGGTGCCCCTATATA
Found at i:18302367 original size:20 final size:20
Alignment explanation
Indices: 18302323--18302367 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
18302313 CACTTTGGTT
* * *
18302323 CCCCTATTTAGACTTCGGTG
1 CCCCTATATACACTTCAGTG
18302343 CCCCTATATACACTTCAGTG
1 CCCCTATATACACTTCAGTG
*
18302363 TCCCT
1 CCCCT
18302368 GTTCACATTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.18, C:0.36, G:0.13, T:0.33
Consensus pattern (20 bp):
CCCCTATATACACTTCAGTG
Found at i:18307221 original size:45 final size:45
Alignment explanation
Indices: 18307193--18307284 Score: 123
Period size: 45 Copynumber: 2.0 Consensus size: 45
18307183 CTTGTATAAA
18307193 AAGAATCATAGATATGGTGGACATATACATACGAATTCATAGAAG
1 AAGAATCATAGATATGGTGGACATATACATACGAATTCATAGAAG
* * * * *
18307238 ATGATTCATAGATATGGTGGAC-TCATAAATGCAAATTCATAGAAG
1 AAGAATCATAGATATGGTGGACAT-ATACATACGAATTCATAGAAG
18307283 AA
1 AA
18307285 ACTTCATGGG
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
44 1 0.03
45 39 0.98
ACGTcount: A:0.43, C:0.11, G:0.20, T:0.26
Consensus pattern (45 bp):
AAGAATCATAGATATGGTGGACATATACATACGAATTCATAGAAG
Found at i:18307395 original size:44 final size:45
Alignment explanation
Indices: 18307310--18307397 Score: 115
Period size: 44 Copynumber: 2.0 Consensus size: 45
18307300 CTGATACAAA
* * **
18307310 CATGCAGATTCATAGAAGAAACTTTATGAACATAGTGGATTCATT
1 CATGCAGATTCATAAAAGAAACTTCATGAACATAGCAGATTCATT
* *
18307355 CATGTAGATTCATAAAAG-AACTTCATGATCATAGCAGATTCAT
1 CATGCAGATTCATAAAAGAAACTTCATGAACATAGCAGATTCAT
18307398 ACATACGGAT
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
44 21 0.57
45 16 0.43
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.31
Consensus pattern (45 bp):
CATGCAGATTCATAAAAGAAACTTCATGAACATAGCAGATTCATT
Found at i:18316767 original size:6 final size:6
Alignment explanation
Indices: 18316756--18316785 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
18316746 TCTTACTTCC
18316756 ATGTGT ATGTGT ATGTGT ATGTGT ATGTGT
1 ATGTGT ATGTGT ATGTGT ATGTGT ATGTGT
18316786 GATTATCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (6 bp):
ATGTGT
Found at i:18320179 original size:27 final size:27
Alignment explanation
Indices: 18320149--18320208 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
18320139 TCATCTCCAA
*
18320149 AGGGTATAACATTTATTTTACCCTATG
1 AGGGTATAACAGTTATTTTACCCTATG
** *
18320176 AGGGTATTTCGGTTATTTTACCCTATG
1 AGGGTATAACAGTTATTTTACCCTATG
18320203 -GGGTAT
1 AGGGTAT
18320209 TTTGGTCATT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 6 0.21
27 23 0.79
ACGTcount: A:0.23, C:0.13, G:0.22, T:0.42
Consensus pattern (27 bp):
AGGGTATAACAGTTATTTTACCCTATG
Found at i:18320266 original size:80 final size:81
Alignment explanation
Indices: 18320163--18320384 Score: 322
Period size: 80 Copynumber: 2.8 Consensus size: 81
18320153 TATAACATTT
* * *
18320163 ATTTTACCCTATGAGGGTATTTCGGTTATTTTACCCTAT-GGGGTATTTTGGTCATTCTACCCTA
1 ATTTTACCCTATGAGGGTATTTCGGTCATTTTACCCTATAGGGGTATTTTGGTTATTTTACCCTA
**
18320227 TAGGGGTATTTTGATC
66 TAGGGGTATTTCAATC
* * * * *
18320243 ATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCGATTATTTTACCCTA
1 ATTTTACCCTATGAGGGTATTTCGGTCATTTTACCCTATAGGGGTATTTTGGTTATTTTACCCTA
*
18320308 TGGGGGTATTTCAATC
66 TAGGGGTATTTCAATC
*
18320324 ATTTTACCCTAT-AGGGTATTTCGGTCATTTTATCCTATAGGGGTATTTTGGTTATTTTACC
1 ATTTTACCCTATGAGGGTATTTCGGTCATTTTACCCTATAGGGGTATTTTGGTTATTTTACC
18320385 TATTTTAGGG
Statistics
Matches: 125, Mismatches: 16, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
80 79 0.63
81 46 0.37
ACGTcount: A:0.19, C:0.16, G:0.20, T:0.44
Consensus pattern (81 bp):
ATTTTACCCTATGAGGGTATTTCGGTCATTTTACCCTATAGGGGTATTTTGGTTATTTTACCCTA
TAGGGGTATTTCAATC
Found at i:18320382 original size:27 final size:27
Alignment explanation
Indices: 18320163--18320371 Score: 271
Period size: 27 Copynumber: 7.8 Consensus size: 27
18320153 TATAACATTT
* *
18320163 ATTTTACCCTAT-GAGGGTATTTCGGTT
1 ATTTTACCCTATAG-GGGTATTTCGATC
* *
18320190 ATTTTACCCTAT-GGGGTATTTTGGTC
1 ATTTTACCCTATAGGGGTATTTCGATC
* *
18320216 ATTCTACCCTATAGGGGTATTTTGATC
1 ATTTTACCCTATAGGGGTATTTCGATC
*
18320243 ATTTTACCCTATGGGGGTATTTCGATC
1 ATTTTACCCTATAGGGGTATTTCGATC
* *
18320270 ATTTTACCCTATGGGGGTATTTCGATT
1 ATTTTACCCTATAGGGGTATTTCGATC
* *
18320297 ATTTTACCCTATGGGGGTATTTCAATC
1 ATTTTACCCTATAGGGGTATTTCGATC
*
18320324 ATTTTACCCTATA-GGGTATTTCGGTC
1 ATTTTACCCTATAGGGGTATTTCGATC
*
18320350 ATTTTATCCTATAGGGGTATTT
1 ATTTTACCCTATAGGGGTATTT
18320372 TGGTTATTTT
Statistics
Matches: 166, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
26 45 0.27
27 121 0.73
ACGTcount: A:0.20, C:0.16, G:0.21, T:0.44
Consensus pattern (27 bp):
ATTTTACCCTATAGGGGTATTTCGATC
Found at i:18325276 original size:21 final size:22
Alignment explanation
Indices: 18325229--18325270 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
18325219 TTTAGTTTTT
*
18325229 CCAACCAAGAGAAAAGAAAAAA
1 CCAAACAAGAGAAAAGAAAAAA
18325251 CCAAACAAGAGAAAA-AAAAA
1 CCAAACAAGAGAAAAGAAAAA
18325271 GTCAAAATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.71, C:0.17, G:0.12, T:0.00
Consensus pattern (22 bp):
CCAAACAAGAGAAAAGAAAAAA
Found at i:18333617 original size:39 final size:39
Alignment explanation
Indices: 18333560--18333777 Score: 294
Period size: 39 Copynumber: 5.6 Consensus size: 39
18333550 ACATGGTTTT
* *
18333560 GAGTACTGTGATATATGCTTGAATGTTATGTGATTATAA
1 GAGTATTGTGATATATGCTTAAATGTTATGTGATTATAA
* * * * *
18333599 GAGTATTGTGATACATGCTTGAGTGTTATGTAATTATAT
1 GAGTATTGTGATATATGCTTAAATGTTATGTGATTATAA
* * *
18333638 GAGTATTATGATATACGCTTAAATGTTATGTGATTATAT
1 GAGTATTGTGATATATGCTTAAATGTTATGTGATTATAA
* *
18333677 TAGTATTGTGATATATGTTTAAATGTTATGTGATTATAA
1 GAGTATTGTGATATATGCTTAAATGTTATGTGATTATAA
18333716 GAGTATTGTGATATATGCTTAAATGTTATGTGATTATATA
1 GAGTATTGTGATATATGCTTAAATGTTATGTGATTATA-A
* *
18333756 -TGTAATGTGATATATGCTTAAA
1 GAGTATTGTGATATATGCTTAAA
18333778 AGTGAATATG
Statistics
Matches: 158, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
39 157 0.99
40 1 0.01
ACGTcount: A:0.32, C:0.04, G:0.20, T:0.44
Consensus pattern (39 bp):
GAGTATTGTGATATATGCTTAAATGTTATGTGATTATAA
Found at i:18333775 original size:117 final size:117
Alignment explanation
Indices: 18333561--18333777 Score: 328
Period size: 117 Copynumber: 1.9 Consensus size: 117
18333551 CATGGTTTTG
* * *
18333561 AGTACTGTGATATATGCTTGAATGTTATGTGATTATAAGAGTATTGTGATACATGCTTGAGTGTT
1 AGTACTGTGATATATGCTTAAATGTTATGTGATTATAAGAGTATTGTGATACATGCTTAAATGTT
*
18333626 ATGTAATTATATGAGTATTATGATATACGCTTAAATGTTATGTGATTATATT
66 ATGTAATTATATGAGTAATATGATATACGCTTAAATGTTATGTGATTATATT
* * *
18333678 AGTATTGTGATATATGTTTAAATGTTATGTGATTATAAGAGTATTGTGATATATGCTTAAATGTT
1 AGTACTGTGATATATGCTTAAATGTTATGTGATTATAAGAGTATTGTGATACATGCTTAAATGTT
* * *
18333743 ATGTGATTATAT-ATGTAATGTGATATATGCTTAAA
66 ATGTAATTATATGA-GTAATATGATATACGCTTAAA
18333778 AGTGAATATG
Statistics
Matches: 89, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
116 1 0.01
117 88 0.99
ACGTcount: A:0.32, C:0.04, G:0.20, T:0.44
Consensus pattern (117 bp):
AGTACTGTGATATATGCTTAAATGTTATGTGATTATAAGAGTATTGTGATACATGCTTAAATGTT
ATGTAATTATATGAGTAATATGATATACGCTTAAATGTTATGTGATTATATT
Found at i:18333798 original size:39 final size:39
Alignment explanation
Indices: 18333646--18333799 Score: 107
Period size: 39 Copynumber: 3.9 Consensus size: 39
18333636 ATGAGTATTA
* * * * * *
18333646 TGATATACGCTTAAATGTTATGTGATTATA-TTAGTATTG
1 TGATATATGCTTAAAAGTAATATGATTATACAT-GTAATG
* * * * * *
18333685 TGATATATGTTTAAATGTTATGTGATTATA-AGAGTATTG
1 TGATATATGCTTAAAAGTAATATGATTATACA-TGTAATG
* * * *
18333724 TGATATATGCTTAAATGTTATGTGATTATATATGTAATG
1 TGATATATGCTTAAAAGTAATATGATTATACATGTAATG
*
18333763 TGATATATGCTTAAAAGTGAATATGATTA-CCATGTAA
1 TGATATATGCTTAAAAGT-AATATGATTATACATGTAA
18333800 ATGAACTAGT
Statistics
Matches: 100, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
39 91 0.91
40 9 0.09
ACGTcount: A:0.34, C:0.04, G:0.18, T:0.44
Consensus pattern (39 bp):
TGATATATGCTTAAAAGTAATATGATTATACATGTAATG
Found at i:18333888 original size:22 final size:22
Alignment explanation
Indices: 18333859--18333901 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
18333849 AACTATTGAG
18333859 GTTGTGCTAT-AT-GATTGTTTT
1 GTTGTGCT-TGATGGATTGTTTT
18333880 GTTGATGCTTGATGGATTGTTT
1 GTTG-TGCTTGATGGATTGTTT
18333902 GCATTGTGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 5 0.26
22 6 0.32
23 8 0.42
ACGTcount: A:0.14, C:0.05, G:0.28, T:0.53
Consensus pattern (22 bp):
GTTGTGCTTGATGGATTGTTTT
Found at i:18345721 original size:17 final size:17
Alignment explanation
Indices: 18345699--18345732 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
18345689 AGTTTATACG
18345699 CCATTTGACTTATACTT
1 CCATTTGACTTATACTT
18345716 CCATTTGACTTATACTT
1 CCATTTGACTTATACTT
18345733 TACTTTAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.06, T:0.47
Consensus pattern (17 bp):
CCATTTGACTTATACTT
Found at i:18347184 original size:24 final size:26
Alignment explanation
Indices: 18347134--18347185 Score: 65
Period size: 24 Copynumber: 2.1 Consensus size: 26
18347124 ACTTTTTTAT
*
18347134 TTTTTAAATATATTTAATTTTATGAA
1 TTTTTAAATATATTTAATTTAATGAA
18347160 TTTTT-AATA-ATTT-ATTTAATAGAA
1 TTTTTAAATATATTTAATTTAAT-GAA
18347184 TT
1 TT
18347186 GGATGGATTG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 6 0.25
24 9 0.38
25 4 0.17
26 5 0.21
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (26 bp):
TTTTTAAATATATTTAATTTAATGAA
Found at i:18348442 original size:29 final size:30
Alignment explanation
Indices: 18348410--18348468 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
18348400 TATGGTTTAA
18348410 TGTGCAATTGCATATATG-AACTTTGATTT
1 TGTGCAATTGCATATATGAAACTTTGATTT
* ** *
18348439 TGTGTAATTTTATATATGAAATTTTGATTT
1 TGTGCAATTGCATATATGAAACTTTGATTT
18348469 GATCCAATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 15 0.60
30 10 0.40
ACGTcount: A:0.29, C:0.05, G:0.15, T:0.51
Consensus pattern (30 bp):
TGTGCAATTGCATATATGAAACTTTGATTT
Found at i:18349233 original size:102 final size:102
Alignment explanation
Indices: 18349125--18349443 Score: 358
Period size: 102 Copynumber: 3.0 Consensus size: 102
18349115 AATTAAAAAA
*
18349125 ATTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAATACACAGTACTAAATTTTTTTTTTTA
1 ATTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTAC-AAATTTTTTTTTTTA
* *
18349190 TTTTTTTTGTGTCAGAATCAGATATAAAATTACGAATT
65 TTTTTTTCGTGTCAGAATCAGATATAAAAATACGAATT
*
18349228 -TTTTTTTGGGTGCTGGCCTGTCAATGGCTGGCACCCAGTACACAGTACAAAAAAAATTTTTTTC
1 ATTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTAC-----AAATTTTTTT-
18349292 TTTTATTTTTTTCGTGTCAGAATCAGATATAAAAATACGAAAAAAAATT
60 TTTTATTTTTTTCGTGTCAGAATCAGATATAAAAATACG------AATT
* * * * *
18349341 AAAAAAAATTTTTTGGGTGCTGGCCTGTCAATGGTCGGCACCCTGTACACAATACAAA---ATTT
1 ------ATTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAATTTTTTT
18349403 TTTTATTTTTTTCGTGTCAGAATCAGATATAAAAATACGAA
60 TTTTATTTTTTTCGTGTCAGAATCAGATATAAAAATACGAA
18349444 AAAAATAAAA
Statistics
Matches: 187, Mismatches: 11, Indels: 34
0.81 0.05 0.15
Matches are distributed among these distances:
102 46 0.25
105 2 0.01
106 10 0.05
107 37 0.20
111 39 0.21
112 3 0.02
113 4 0.02
115 3 0.02
120 43 0.23
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.37
Consensus pattern (102 bp):
ATTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAATTTTTTTTTTTAT
TTTTTTCGTGTCAGAATCAGATATAAAAATACGAATT
Found at i:18349353 original size:120 final size:113
Alignment explanation
Indices: 18348998--18349507 Score: 592
Period size: 112 Copynumber: 4.6 Consensus size: 113
18348988 ATACGAAAAA
* * * *
18348998 GAAAAAATTAAAAAAAAATTTTTGGGTGCTGACCTGTCAATGGCCGGCACCCAGTACACAGTAC-
1 GAAAAAAATAAAAAAAATTTTTTGGGTGCTGGCCTGTCAATGGCTGGCACCCAGTACACAGTACA
*
18349062 --AAAATTTTTTTTATTTTTTTCGTGTCAGAATCAGATATAAAAATAC
66 AAAAAAATTTTTTTATTTTTTTCGTGTCAGAATCAGATATAAAAATAC
* * *
18349108 GAAAAGAAATTAAAAAAATTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAATACACAGTA
1 GAAAA-AAA-TAAAAAAAATTTTTTGGGTGCTGGCCTGTCAATGGCTGGCACCCAGTACACAGTA
* **** * *
18349173 CTAAATTTTTTTTTTTATTTTTTTTGTGTCAGAATCAGATATAAAATTAC
64 CAAAAAAAATTTTTTTATTTTTTTCGTGTCAGAATCAGATATAAAAATAC
**
18349223 G-----AAT------TTTTTTTTGGGTGCTGGCCTGTCAATGGCTGGCACCCAGTACACAGTACA
1 GAAAAAAATAAAAAAAATTTTTTGGGTGCTGGCCTGTCAATGGCTGGCACCCAGTACACAGTACA
18349277 AAAAAAATTTTTTTCTTTTATTTTTTTCGTGTCAGAATCAGATATAAAAATAC
66 AAAAAAA----TTT-TTTTATTTTTTTCGTGTCAGAATCAGATATAAAAATAC
* *
18349330 GAAAAAAAATTAAAAAAAATTTTTTGGGTGCTGGCCTGTCAATGG-TCGGCACCCTGTACACAAT
1 G-AAAAAAA-TAAAAAAAATTTTTTGGGTGCTGGCCTGTCAATGGCT-GGCACCCAGTACACAGT
18349394 AC----AAAATTTTTTTATTTTTTTCGTGTCAGAATCAGATATAAAAATAC
63 ACAAAAAAAATTTTTTTATTTTTTTCGTGTCAGAATCAGATATAAAAATAC
** *
18349441 GAAAAAAATAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGTC-GGCACCCAGTACACAGTACA
1 GAAAAAAATAAAAAAAATTTTTTGGGTGCTGGCCTGTCAATGGCTGGCACCCAGTACACAGTACA
18349505 AAA
66 AAA
18349508 TTTTTTTTTC
Statistics
Matches: 342, Mismatches: 29, Indels: 56
0.80 0.07 0.13
Matches are distributed among these distances:
102 49 0.14
106 3 0.01
107 37 0.11
108 18 0.05
109 34 0.10
110 12 0.04
111 41 0.12
112 55 0.16
113 2 0.01
114 1 0.00
115 42 0.12
116 4 0.01
119 1 0.00
120 43 0.13
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.33
Consensus pattern (113 bp):
GAAAAAAATAAAAAAAATTTTTTGGGTGCTGGCCTGTCAATGGCTGGCACCCAGTACACAGTACA
AAAAAAATTTTTTTATTTTTTTCGTGTCAGAATCAGATATAAAAATAC
Found at i:18349361 original size:222 final size:210
Alignment explanation
Indices: 18349016--18349443 Score: 649
Period size: 222 Copynumber: 2.0 Consensus size: 210
18349006 TAAAAAAAAA
18349016 TTTTTGGGTGCTGACCTGTCAATGGCCGGCACCCAGTACACAGTACAAAATTTTTTTTATTTTTT
1 TTTTTGGGTGCTGACCTGTCAATGGCCGGCACCCAGTACACAGTACAAAATTTTTTTTATTTTTT
* *
18349081 TCGTGTCAGAATCAGATATAAAAATACGAAAAGAAATTAAAAAAATTTTTTTGGGTGCTGGCCTG
66 TCGTGTCAGAATCAGATATAAAAATACGAAAAAAAATTAAAAAAAATTTTTTGGGTGCTGGCCTG
* * *
18349146 TCAATGGCCGGCACCCAATACACAGTACTAAATTTTTTTTTTTATTTTTTTTGTGTCAGAATCAG
131 TCAATGGCCGGCACCCAATACACAATAC-AAA---ATTTTTTTATTTTTTTCGTGTCAGAATCAG
*
18349211 ATATAAAATTACGAATTTT
192 ATATAAAAATACGAATTTT
* *
18349230 TTTTTGGGTGCTGGCCTGTCAATGGCTGGCACCCAGTACACAGTACAAAAAAAATTTTTTTCTTT
1 TTTTTGGGTGCTGACCTGTCAATGGCCGGCACCCAGTACACAGTAC----AAAA---TTTT-TTT
18349295 TATTTTTTTCGTGTCAGAATCAGATATAAAAATACGAAAAAAAATTAAAAAAAATTTTTTGGGTG
58 TATTTTTTTCGTGTCAGAATCAGATATAAAAATACGAAAAAAAATTAAAAAAAATTTTTTGGGTG
* **
18349360 CTGGCCTGTCAATGGTCGGCACCCTGTACACAATACAAAATTTTTTTATTTTTTTCGTGTCAGAA
123 CTGGCCTGTCAATGGCCGGCACCCAATACACAATACAAAATTTTTTTATTTTTTTCGTGTCAGAA
18349425 TCAGATATAAAAATACGAA
188 TCAGATATAAAAATACGAA
18349444 AAAAATAAAA
Statistics
Matches: 195, Mismatches: 11, Indels: 12
0.89 0.05 0.06
Matches are distributed among these distances:
214 44 0.23
218 46 0.24
221 7 0.04
222 98 0.50
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.36
Consensus pattern (210 bp):
TTTTTGGGTGCTGACCTGTCAATGGCCGGCACCCAGTACACAGTACAAAATTTTTTTTATTTTTT
TCGTGTCAGAATCAGATATAAAAATACGAAAAAAAATTAAAAAAAATTTTTTGGGTGCTGGCCTG
TCAATGGCCGGCACCCAATACACAATACAAAATTTTTTTATTTTTTTCGTGTCAGAATCAGATAT
AAAAATACGAATTTT
Found at i:18356755 original size:29 final size:29
Alignment explanation
Indices: 18356713--18356770 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
18356703 AAAGCATAAA
*
18356713 TAAAATAAAGTTTTACTTTTAATGGACAT
1 TAAAATAAAGTTTTACTTTTAATGAACAT
18356742 TAAAATAAAGTTTTACTTTTAATGAACAT
1 TAAAATAAAGTTTTACTTTTAATGAACAT
18356771 CAGAATCTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.43, C:0.07, G:0.09, T:0.41
Consensus pattern (29 bp):
TAAAATAAAGTTTTACTTTTAATGAACAT
Found at i:18356843 original size:25 final size:26
Alignment explanation
Indices: 18356815--18356863 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
18356805 TTGCAATAAT
*
18356815 AAAATGTTTATAACACTT-TTTGATG
1 AAAATATTTATAACACTTCTTTGATG
*
18356840 AAAATATTTATAGCACTTCTTTGA
1 AAAATATTTATAACACTTCTTTGA
18356864 ATGTCCATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.43
Consensus pattern (26 bp):
AAAATATTTATAACACTTCTTTGATG
Found at i:18364165 original size:28 final size:29
Alignment explanation
Indices: 18364090--18364171 Score: 85
Period size: 28 Copynumber: 2.9 Consensus size: 29
18364080 TGGTATCCAC
* * *
18364090 CACCGGTACATAGTACCTAGAACTATAAA
1 CACCAGTACATAGTACCTGGAACTAGAAA
* * * *
18364119 CACCAGCATAGAGTGCCTGGAACT-GAAA
1 CACCAGTACATAGTACCTGGAACTAGAAA
*
18364147 CACTAGTACATAGTACCTGGAACTA
1 CACCAGTACATAGTACCTGGAACTA
18364172 TAATTACCAA
Statistics
Matches: 40, Mismatches: 12, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
28 22 0.55
29 18 0.45
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.20
Consensus pattern (29 bp):
CACCAGTACATAGTACCTGGAACTAGAAA
Found at i:18393395 original size:39 final size:40
Alignment explanation
Indices: 18393300--18393561 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
18393290 TTGAATGATG
*
18393300 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
18393338 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
18393379 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
18393418 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
18393457 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
18393496 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
18393535 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
18393562 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:18402322 original size:40 final size:40
Alignment explanation
Indices: 18402233--18402496 Score: 360
Period size: 40 Copynumber: 6.7 Consensus size: 40
18402223 TTGAATGATG
* *
18402233 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * *
18402272 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
18402312 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
18402351 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
18402391 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
18402431 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
18402472 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
18402497 AACGAGGAGC
Statistics
Matches: 206, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
39 53 0.26
40 143 0.69
41 10 0.05
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:18402514 original size:120 final size:118
Alignment explanation
Indices: 18402233--18402529 Score: 338
Period size: 119 Copynumber: 2.5 Consensus size: 118
18402223 TTGAATGATG
* *
18402233 TCCGGGCTAAGTCCCGAAGGC-TTGTG--CTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
1 TCCGGGCTAAGTCCCGAAGGCATT-TGAAC-GAGTGACTAA-ATCCGG-TTAA-ATCCCGAAGGC
* *
18402293 ATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
61 ATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
* ** * *
18402351 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAATCCCGAAGGCATTT
* *
18402416 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
65 GTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAATTACTA-AA
* * *
18402472 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAATCCCGAAGG
18402530 TACGTGATTT
Statistics
Matches: 153, Mismatches: 17, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
118 23 0.15
119 64 0.42
120 64 0.42
121 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (118 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATCCCGAAGGCATTTG
TGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
Found at i:18407215 original size:9 final size:9
Alignment explanation
Indices: 18407189--18407233 Score: 51
Period size: 9 Copynumber: 5.2 Consensus size: 9
18407179 TTTTCCTTAA
18407189 ATATATTTT
1 ATATATTTT
*
18407198 GT-T-TTTT
1 ATATATTTT
18407205 ATATATTTT
1 ATATATTTT
18407214 ATATATTTT
1 ATATATTTT
18407223 ACTAT-TTTT
1 A-TATATTTT
18407232 AT
1 AT
18407234 TTATCCATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
7 5 0.16
8 3 0.10
9 20 0.65
10 3 0.10
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (9 bp):
ATATATTTT
Found at i:18409321 original size:9 final size:9
Alignment explanation
Indices: 18409307--18409350 Score: 54
Period size: 9 Copynumber: 4.8 Consensus size: 9
18409297 CGCCTCTTTT
*
18409307 TTGCATTTA
1 TTGCATTCA
18409316 TTGCATTCA
1 TTGCATTCA
18409325 TTGCATTCA
1 TTGCATTCA
18409334 -TGCATTAGCA
1 TTGCATT--CA
18409344 TTGCATT
1 TTGCATT
18409351 GCATCAAATG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
8 6 0.19
9 17 0.55
10 2 0.06
11 6 0.19
ACGTcount: A:0.23, C:0.18, G:0.14, T:0.45
Consensus pattern (9 bp):
TTGCATTCA
Found at i:18409349 original size:5 final size:5
Alignment explanation
Indices: 18409315--18409354 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
18409305 TTTTGCATTT
18409315 ATTGC ATT-C ATTGC ATT-C A-TGC ATTAGC ATTGC ATTGC AT
1 ATTGC ATTGC ATTGC ATTGC ATTGC ATT-GC ATTGC ATTGC AT
18409355 CAAATGCATT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
3 1 0.03
4 8 0.26
5 17 0.55
6 5 0.16
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.40
Consensus pattern (5 bp):
ATTGC
Found at i:18411981 original size:10 final size:11
Alignment explanation
Indices: 18411930--18411983 Score: 51
Period size: 10 Copynumber: 4.9 Consensus size: 11
18411920 TACTTCACTT
18411930 AAAAA-AAAG-
1 AAAAAGAAAGA
*
18411939 AAAAAGAGAGA
1 AAAAAGAAAGA
18411950 AAAAAGATAAAAGA
1 AAAAAG---AAAGA
18411964 AAAAAGAAAG-
1 AAAAAGAAAGA
18411974 AAAAAGAAAG
1 AAAAAGAAAG
18411984 GGAGAGGCCA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
9 5 0.13
10 13 0.34
11 10 0.26
14 10 0.26
ACGTcount: A:0.80, C:0.00, G:0.19, T:0.02
Consensus pattern (11 bp):
AAAAAGAAAGA
Found at i:18411981 original size:17 final size:16
Alignment explanation
Indices: 18411930--18411982 Score: 70
Period size: 17 Copynumber: 3.1 Consensus size: 16
18411920 TACTTCACTT
18411930 AAAAAAAAGAAAAAGA
1 AAAAAAAAGAAAAAGA
*
18411946 GAGAAAAAAGATAAAAGA
1 -AAAAAAAAGA-AAAAGA
18411964 AAAAAGAAAGAAAAAGA
1 AAAAA-AAAGAAAAAGA
18411981 AA
1 AA
18411983 GGGAGAGGCC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 21 0.66
18 11 0.34
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (16 bp):
AAAAAAAAGAAAAAGA
Found at i:18413224 original size:143 final size:143
Alignment explanation
Indices: 18412844--18413647 Score: 1085
Period size: 143 Copynumber: 5.6 Consensus size: 143
18412834 GTCATTATAG
* *
18412844 CGAATCTTATTTCCCTGGCATTGTAGTGGAACAGATTAAAGCTACAAATTCTGGCAGATCTTATC
1 CGAATCTTATTTCCCTGGCATTGCAGTGGAACAGATTAAAGCTACAAATTATGGCAGATCTTATC
* * * *
18412909 TTCATGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTAAAATTGCAGCGGAGC
66 TTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGTAGCGGAGC
18412974 AGACTGAAGACAA
131 AGACTGAAGACAA
* * * * *
18412987 CGAATCTTATTTTTCCCTGGCGTTGCAGTGGAATAGATTAAACCTATAAATTATGGCGGATCTTA
1 CGAATCTTA--TTTCCCTGGCATTGCAGTGGAACAGATTAAAGCTACAAATTATGGCAGATCTTA
* * *
18413052 TCTTCCTGAAGTTGCAGTGGAGCAAATTGAAGCCACCAGCCTTATTTCCCTGAAGTTGCAGCGGA
64 TCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGTAGCGGA
*
18413117 GCAGACTGAAGACAG
129 GCAGACTGAAGACAA
** *
18413132 CGAATCTTATTTCCCTGGCATTGCAGTGGAACAGATTAAAAATACAAATTATGGTAGATCTTATC
1 CGAATCTTATTTCCCTGGCATTGCAGTGGAACAGATTAAAGCTACAAATTATGGCAGATCTTATC
* * * * *
18413197 TTCCTGAAGTTGAAGTGGAGCAGATTGAAGCCACTAGCCTTATCTCCTTGAAGTTGTAGCAGAGT
66 TTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGTAGCGGAGC
*
18413262 AGACTGAAGAAAA
131 AGACTGAAGACAA
* * **
18413275 TGAATCTTATTTCCCTGGCATTGCAGTGGAACACATTAAAGCTACAAATTATTACAGATCTTATC
1 CGAATCTTATTTCCCTGGCATTGCAGTGGAACAGATTAAAGCTACAAATTATGGCAGATCTTATC
* * * * *
18413340 TTCCTGAAGTTGTAATGGAGCAGATTGAATCCACCATCCTTATCTCCCTGAAGTTGTAGCGAAGC
66 TTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGTAGCGGAGC
18413405 AGACTGAAGACAA
131 AGACTGAAGACAA
* * * * *
18413418 CGAATCTTATTTCTCTGGCGTTGCAGTGGAACAGATTAAATCTACAAATTATGACGGATCTTATC
1 CGAATCTTATTTCCCTGGCATTGCAGTGGAACAGATTAAAGCTACAAATTATGGCAGATCTTATC
* *** *
18413483 TTCCTGAAGTTGCAGTGGAGCAGGTTGAAGCCACCAGCCTTATCTTTTTGAAGTTGTAGTGGAGC
66 TTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGTAGCGGAGC
* *
18413548 AGACTGAAGATAG
131 AGACTGAAGACAA
* * *
18413561 CGAATCTTATTTCCCT-GAAGTTGCAATGGAACAGATTAAAGCTATAAATTA---CAGATCTTAT
1 CGAATCTTATTTCCCTGGCA-TTGCAGTGGAACAGATTAAAGCTACAAATTATGGCAGATCTTAT
* * * *
18413622 CTCCCTAAAGTTGCAGTAGAGTAGAT
65 CTTCCTGAAGTTGCAGTGGAGCAGAT
18413648 CATATCAAAA
Statistics
Matches: 580, Mismatches: 78, Indels: 9
0.87 0.12 0.01
Matches are distributed among these distances:
140 30 0.05
142 1 0.00
143 419 0.72
145 130 0.22
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.29
Consensus pattern (143 bp):
CGAATCTTATTTCCCTGGCATTGCAGTGGAACAGATTAAAGCTACAAATTATGGCAGATCTTATC
TTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGTAGCGGAGC
AGACTGAAGACAA
Found at i:18413736 original size:44 final size:43
Alignment explanation
Indices: 18413616--18413908 Score: 136
Period size: 44 Copynumber: 6.9 Consensus size: 43
18413606 AAATTACAGA
* * *
18413616 TCTTATCTCCCTAAAGTTGCAGTAGAGTAGA-T-CA-TATCAAA
1 TCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTGAAGTA-CAAG
* * * * * * *
18413657 ACTTATCTCCTTAATGTTGCAATTGAATAGGTTGAAGTTACAAG
1 TCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTGAAG-TACAAG
* *
18413701 TCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTGAAGCCACCAG
1 TCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTGAAG-TACAAG
* * * * * * *
18413745 CCTTATCTCCCTGAAGTTGCAGCGGAGCATACTGAA-AACAACG
1 TCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTGAAGTACAA-G
* * * * * *
18413788 AATCCTATTTCCCTGAAGTTACAGTGGA-TA-A---AACTACAAA
1 --TCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTGAAGTACAAG
* * ** **
18413828 TCTTGTCCCCCTAAAGTTGTGGCAGAGTAGATTGAAGCTACAAG
1 TCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTGAAG-TACAAG
* * * * *
18413872 TCGTATCTCTCTGAAGTTGCAGTGGAGTGGATCGAAG
1 TCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTGAAG
18413909 CAACAAGACG
Statistics
Matches: 180, Mismatches: 58, Indels: 25
0.68 0.22 0.10
Matches are distributed among these distances:
38 16 0.09
39 2 0.01
40 3 0.02
41 28 0.16
42 4 0.02
43 5 0.03
44 99 0.55
45 23 0.13
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (43 bp):
TCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTGAAGTACAAG
Found at i:18415145 original size:17 final size:17
Alignment explanation
Indices: 18415126--18415157 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
18415116 TTTTTGTTGT
18415126 TTTTTA-TATTTTTATA
1 TTTTTACTATTTTTATA
18415142 TTTTTACTATTTTTAT
1 TTTTTACTATTTTTAT
18415158 TTATCCATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTTTACTATTTTTATA
Found at i:18415156 original size:9 final size:8
Alignment explanation
Indices: 18415126--18415157 Score: 55
Period size: 8 Copynumber: 3.9 Consensus size: 8
18415116 TTTTTGTTGT
18415126 TTTTTATA
1 TTTTTATA
18415134 TTTTTATA
1 TTTTTATA
18415142 TTTTTACTA
1 TTTTTA-TA
18415151 TTTTTAT
1 TTTTTAT
18415158 TTATCCATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 15 0.65
9 8 0.35
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (8 bp):
TTTTTATA
Found at i:18419866 original size:15 final size:15
Alignment explanation
Indices: 18419846--18419885 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
18419836 TTTACAACAG
*
18419846 TAAACCCTATTAGCC
1 TAAACCCAATTAGCC
18419861 TAAACCCAATTAGCC
1 TAAACCCAATTAGCC
*
18419876 TAAGCCCAAT
1 TAAACCCAAT
18419886 ACCCCTAGCC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.38, C:0.33, G:0.07, T:0.23
Consensus pattern (15 bp):
TAAACCCAATTAGCC
Found at i:18420394 original size:27 final size:27
Alignment explanation
Indices: 18420363--18420430 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
18420353 AGGCCAATCA
*
18420363 CATTGGCGGCACCAAAGGTGCCAATGT
1 CATTGGCGGCACCAAAGGTGCCAAAGT
* * * *
18420390 GATTGGCAGCACCGATGGTGCCAAAGT
1 CATTGGCGGCACCAAAGGTGCCAAAGT
18420417 CATTGGCGGCACCA
1 CATTGGCGGCACCA
18420431 GTATTATAAT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.25, C:0.26, G:0.31, T:0.18
Consensus pattern (27 bp):
CATTGGCGGCACCAAAGGTGCCAAAGT
Found at i:18420483 original size:4 final size:4
Alignment explanation
Indices: 18420474--18420619 Score: 60
Period size: 4 Copynumber: 36.0 Consensus size: 4
18420464 GAAGGAGAGG
* * *
18420474 GAAA GAAA GAAA GAAA GGAAT GAAG GAAAA CAAA GGGAAA GAAA GAAA
1 GAAA GAAA GAAA GAAA -GAAA GAAA G-AAA GAAA --GAAA GAAA GAAA
* *
18420522 GAAA GGAAT GAAG GAAA -ACAA -AAA -AAA GGAAA G-AA GAAA -AAA GAAA
1 GAAA -GAAA GAAA GAAA GA-AA GAAA GAAA -GAAA GAAA GAAA GAAA GAAA
*
18420568 G-AA -AAA GAAG GAAA GAAAA GGAAA GGAGAA GAGAA -AAA -AAA GAAA
1 GAAA GAAA GAAA GAAA G-AAA -GAAA -GA-AA GA-AA GAAA GAAA GAAA
18420613 G-AA GAAA
1 GAAA GAAA
18420620 AGGGAAGGAA
Statistics
Matches: 115, Mismatches: 10, Indels: 34
0.72 0.06 0.21
Matches are distributed among these distances:
3 24 0.21
4 60 0.52
5 25 0.22
6 6 0.05
ACGTcount: A:0.70, C:0.01, G:0.27, T:0.01
Consensus pattern (4 bp):
GAAA
Found at i:18420518 original size:36 final size:36
Alignment explanation
Indices: 18420471--18420543 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
18420461 GGAGAAGGAG
18420471 AGGGAAAGAAAGAAAGAAAGGAATGAAGGAAAACAA
1 AGGGAAAGAAAGAAAGAAAGGAATGAAGGAAAACAA
18420507 AGGGAAAGAAAGAAAGAAAGGAATGAAGGAAAACAA
1 AGGGAAAGAAAGAAAGAAAGGAATGAAGGAAAACAA
18420543 A
1 A
18420544 AAAAAGGAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.64, C:0.03, G:0.30, T:0.03
Consensus pattern (36 bp):
AGGGAAAGAAAGAAAGAAAGGAATGAAGGAAAACAA
Found at i:18420553 original size:40 final size:36
Alignment explanation
Indices: 18420473--18420648 Score: 141
Period size: 36 Copynumber: 5.3 Consensus size: 36
18420463 AGAAGGAGAG
*
18420473 GGAAAGAAAGAAAGAAAGGAATGAAGGAAAACAAAG
1 GGAAAGAAAGAAAGAAAGGAATGAAGGAAAACAAAA
18420509 GGAAAGAAAGAAAGAAAGGAATGAAGGAAAACAAAA
1 GGAAAGAAAGAAAGAAAGGAATGAAGGAAAACAAAA
* * * *
18420545 -AAAAGGAAAG-AAGAAA--AAAGAAAGAAAA-AGAA
1 GGAAA-GAAAGAAAGAAAGGAATGAAGGAAAACAAAA
*
18420577 GGAAAG-AA-AAGGAAAGG-A-GAAGAGAAAA-AAAA
1 GGAAAGAAAGAAAGAAAGGAATGAAG-GAAAACAAAA
* *
18420609 -GAAAG-AAG-AA-AAGGGAAGGAAGGAAAA-AAAA
1 GGAAAGAAAGAAAGAAAGGAATGAAGGAAAACAAAA
*
18420640 -GAAAAAAAG
1 GGAAAGAAAG
18420649 GTACTTTTTA
Statistics
Matches: 118, Mismatches: 12, Indels: 24
0.77 0.08 0.16
Matches are distributed among these distances:
30 4 0.03
31 32 0.27
32 20 0.17
33 13 0.11
35 9 0.08
36 40 0.34
ACGTcount: A:0.69, C:0.01, G:0.28, T:0.01
Consensus pattern (36 bp):
GGAAAGAAAGAAAGAAAGGAATGAAGGAAAACAAAA
Found at i:18420567 original size:14 final size:13
Alignment explanation
Indices: 18420541--18420647 Score: 72
Period size: 14 Copynumber: 7.3 Consensus size: 13
18420531 GAAGGAAAAC
18420541 AAAAAAAAGGAAAG
1 AAAAAAAA-GAAAG
18420555 AAGAAAAAAGAAAG
1 AA-AAAAAAGAAAG
*
18420569 AAAAAGAAGGAAAG
1 AAAAA-AAAGAAAG
18420583 AAAAGGAAAGGAGAAGAG
1 AAAA--AAA--AGAA-AG
18420601 AAAAAAAAGAAAG
1 AAAAAAAAGAAAG
*
18420614 AAGAAAAGGGAAGGAAGG
1 AA-AAAA---AA-GAAAG
18420632 AAAAAAAAGAAA-
1 AAAAAAAAGAAAG
18420644 AAAA
1 AAAA
18420648 GGTACTTTTT
Statistics
Matches: 77, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
12 4 0.05
13 10 0.13
14 30 0.39
15 8 0.10
16 4 0.05
17 9 0.12
18 12 0.16
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (13 bp):
AAAAAAAAGAAAG
Found at i:18420578 original size:43 final size:47
Alignment explanation
Indices: 18420510--18420639 Score: 126
Period size: 43 Copynumber: 2.8 Consensus size: 47
18420500 AAAACAAAGG
18420510 GAAAGAAAGAAAGAAAGGAATGAAGGAAA-ACAAAAAAAAGGA-AAGA-A
1 GAAA-AAAGAAAGAAA-GAATGAAGGAAAGA-AAAAAAAAGGAGAAGAGA
**
18420557 GAAAAAAGAAAGAAA-AA-GAAGGAAAGAAAAGGAAAGGAGAAGAGA
1 GAAAAAAGAAAGAAAGAATGAAGGAAAGAAAAAAAAAGGAGAAGAGA
* * * *
18420602 AAAAAAAGAAAGAAGAAAAGGGAAGGAAGGAAAAAAAA
1 GAAAAAAGAAAGAA-AGAA-TGAAGGAAAGAAAAAAAA
18420640 GAAAAAAAGG
Statistics
Matches: 70, Mismatches: 6, Indels: 12
0.80 0.07 0.14
Matches are distributed among these distances:
43 17 0.24
44 7 0.10
45 14 0.20
46 12 0.17
47 6 0.09
49 14 0.20
ACGTcount: A:0.71, C:0.01, G:0.28, T:0.01
Consensus pattern (47 bp):
GAAAAAAGAAAGAAAGAATGAAGGAAAGAAAAAAAAAGGAGAAGAGA
Found at i:18420635 original size:31 final size:35
Alignment explanation
Indices: 18420545--18420648 Score: 108
Period size: 31 Copynumber: 3.0 Consensus size: 35
18420535 GAAAACAAAA
* * *
18420545 AAAAGGAAAGAAGAAAAAAGAAAGAAAAAGAAGGAAAG
1 AAAAGGAAAG--GAGAAGAGAAA-AAAAAGAAAGAAAG
18420583 AAAAGGAAAGGAGAAGAGAAAAAAAAGAAAG-AAG
1 AAAAGGAAAGGAGAAGAGAAAAAAAAGAAAGAAAG
* *
18420617 AAAAGGGAA-G-GAAG-GAAAAAAAAGAAAAAAAG
1 AAAAGGAAAGGAGAAGAGAAAAAAAAGAAAGAAAG
18420649 GTACTTTTTA
Statistics
Matches: 60, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
31 13 0.22
32 7 0.12
33 1 0.02
34 11 0.18
35 9 0.15
36 9 0.15
38 10 0.17
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (35 bp):
AAAAGGAAAGGAGAAGAGAAAAAAAAGAAAGAAAG
Found at i:18421391 original size:27 final size:27
Alignment explanation
Indices: 18421361--18421416 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
18421351 AAAAGAGGCT
18421361 AATGGAGGGGAATAAAAAGGCGGCACC
1 AATGGAGGGGAATAAAAAGGCGGCACC
18421388 AATGGAGGGGAATAAAAAGGCGGCACC
1 AATGGAGGGGAATAAAAAGGCGGCACC
18421415 AA
1 AA
18421417 AATGTGGCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.43, C:0.14, G:0.36, T:0.07
Consensus pattern (27 bp):
AATGGAGGGGAATAAAAAGGCGGCACC
Found at i:18430537 original size:25 final size:24
Alignment explanation
Indices: 18430509--18430592 Score: 89
Period size: 25 Copynumber: 3.4 Consensus size: 24
18430499 TCCTGTACAT
18430509 GTATGCTCATACGAGCTGTGAATCG
1 GTATGCTCATACGAGCTGT-AATCG
* *
18430534 GTATGCTCATTCGAGTTGTAGATCG
1 GTATGCTCATACGAGCTGTA-ATCG
* *
18430559 GTATGCTC-TCACGAGCTATAAATCA
1 GTATGCTCAT-ACGAGCTGT-AATCG
18430584 GTATGCTCA
1 GTATGCTCA
18430593 CAAGAGTTGT
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
24 2 0.04
25 46 0.94
26 1 0.02
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (24 bp):
GTATGCTCATACGAGCTGTAATCG
Found at i:18431562 original size:12 final size:12
Alignment explanation
Indices: 18431545--18431598 Score: 51
Period size: 12 Copynumber: 4.7 Consensus size: 12
18431535 GTTTTATTTT
18431545 ATTTAATTTATC
1 ATTTAATTTATC
*
18431557 ATTTAA-TTATTT
1 ATTTAATTTA-TC
*
18431569 ATTTTATTT-T-
1 ATTTAATTTATC
*
18431579 ATTTCATTTATC
1 ATTTAATTTATC
18431591 ATTTAATT
1 ATTTAATT
18431599 ATTTAATTAC
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
10 8 0.24
11 5 0.15
12 19 0.56
13 2 0.06
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.65
Consensus pattern (12 bp):
ATTTAATTTATC
Found at i:18431568 original size:20 final size:20
Alignment explanation
Indices: 18431543--18431606 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
18431533 TTGTTTTATT
18431543 TTATTTAATTTATCATTTAA
1 TTATTTAATTTATCATTTAA
18431563 TTATTT-ATTT-T-A-TT--
1 TTATTTAATTTATCATTTAA
*
18431577 TTATTTCATTTATCATTTAA
1 TTATTTAATTTATCATTTAA
18431597 TTATTTAATT
1 TTATTTAATT
18431607 ACCTAAAATA
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
14 6 0.16
15 4 0.11
16 3 0.08
17 2 0.05
18 3 0.08
19 4 0.11
20 15 0.41
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.66
Consensus pattern (20 bp):
TTATTTAATTTATCATTTAA
Found at i:18431579 original size:34 final size:34
Alignment explanation
Indices: 18431536--18431603 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
18431526 TGAAAGCTTG
18431536 TTTTATTTTATTTAATTTATCATTTAATTATTTA
1 TTTTATTTTATTTAATTTATCATTTAATTATTTA
*
18431570 TTTTATTTTATTTCATTTATCATTTAATTATTTA
1 TTTTATTTTATTTAATTTATCATTTAATTATTTA
18431604 ATTACCTAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (34 bp):
TTTTATTTTATTTAATTTATCATTTAATTATTTA
Found at i:18434831 original size:4 final size:4
Alignment explanation
Indices: 18434814--18434866 Score: 52
Period size: 4 Copynumber: 13.2 Consensus size: 4
18434804 CCAATTTTAA
* * ** * *
18434814 TCAT TCAC TCAT TCAT TCAT TCAT TCAT CCAT TCGC TCAT CCAT TCAC
1 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
18434862 TCAT T
1 TCAT T
18434867 TGTTTATTCA
Statistics
Matches: 37, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.23, C:0.34, G:0.02, T:0.42
Consensus pattern (4 bp):
TCAT
Found at i:18440340 original size:42 final size:42
Alignment explanation
Indices: 18440273--18440657 Score: 529
Period size: 42 Copynumber: 9.2 Consensus size: 42
18440263 TCTCAAATCA
* * *
18440273 TTCATTGCATTTAGAGGCTCGGGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTCACTT
*
18440315 TTTATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTCACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTCACTT
*
18440357 TTCATTGCATTTAGAGGCCCAGGTTTGGAGGTCCATTCACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTCACTT
*
18440399 TTCATTGCATTTAGAGGCCCAGGTTTGGAGGTCCATTCACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTCACTT
* **
18440441 TTCATTGTATTTAGAACCCCAGGTGTGGAGGTCCATTCACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTCACTT
*
18440483 TTCATTAG-ATTTAGAGGCCCAGGTGTGGAGGTTCATTCACTT
1 TTCATT-GCATTTAGAGGCCCAGGTGTGGAGGTCCATTCACTT
* * * * * * *
18440525 TTCATCGCATTTAGAGACTCAAGTGTGCAGGTCTATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTCACTT
* * * *
18440567 TTCGTTGCATTTAGAGGCCCAAGTGTGGAGGTCTATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTCACTT
* * * *
18440609 TTCATTGCATTTAAAGGCCTAGGTGTAGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTCACTT
18440651 TTCATTG
1 TTCATTG
18440658 TATTGTATAT
Statistics
Matches: 309, Mismatches: 32, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
41 1 0.00
42 307 0.99
43 1 0.00
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.37
Consensus pattern (42 bp):
TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTCACTT
Found at i:18441718 original size:147 final size:143
Alignment explanation
Indices: 18441423--18441724 Score: 387
Period size: 145 Copynumber: 2.1 Consensus size: 143
18441413 CCTTTTTTAT
*
18441423 TTTTTTAAAAGAGAGTTTAGATTTTAAAAATAAAAATATATTTTTTTTAGTCATTTTAAAGGAAA
1 TTTTTTAAAAGAGAGTTTAGATTTTAAAAATAAAAATATATGTTTTTTAGTCATTTTAAAGGAAA
18441488 GTTTAAAATTTTAAAACAAAGTTTTGATTTTTTTTTTCAACTATTTCAAAATAAAAGCTTTGATC
66 GTTTAAAATTTTAAAACAAAGTTTTGA-TTTTTTTTTCAACTATTTCAAAATAAAAGCTTTGATC
*
18441553 TTTAAGAAAAATAT
130 TTTAAGAAAAATAA
* *
18441567 TTTTTTAAAACGAGAAAGTTTAGATTTTTAAAAT-AAAA-ATCTGTTTTTTAGTCATTTTAAAGG
1 TTTTTTAAAA-GAG--AGTTTAGATTTTAAAAATAAAAATATATGTTTTTTAGTCATTTTAAAGG
** * ** *
18441630 AAAAGTTTAAGTTTTTTAAAACAATGTTTTGA-TTTTTTTTCAACTATTTTGAAATAAAA-TTTT
63 -AAAGTTTAA-AATTTTAAAACAAAGTTTTGATTTTTTTTTCAACTATTTCAAAATAAAAGCTTT
*
18441693 GATTTTTAAGAAAAGTAGTAA
126 GATCTTTAAGAAAA--A-TAA
*
18441714 TTTTTTTAAAG
1 TTTTTTAAAAG
18441725 GAAAATTTGA
Statistics
Matches: 138, Mismatches: 12, Indels: 14
0.84 0.07 0.09
Matches are distributed among these distances:
144 26 0.19
145 51 0.37
146 15 0.11
147 46 0.33
ACGTcount: A:0.40, C:0.04, G:0.10, T:0.46
Consensus pattern (143 bp):
TTTTTTAAAAGAGAGTTTAGATTTTAAAAATAAAAATATATGTTTTTTAGTCATTTTAAAGGAAA
GTTTAAAATTTTAAAACAAAGTTTTGATTTTTTTTTCAACTATTTCAAAATAAAAGCTTTGATCT
TTAAGAAAAATAA
Found at i:18443060 original size:23 final size:23
Alignment explanation
Indices: 18443029--18443074 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
18443019 GATGAGAAAA
*
18443029 ATATGGAATTAAATATTATTAAG
1 ATATAGAATTAAATATTATTAAG
*
18443052 ATATAGAATTAAATCTTATTAAG
1 ATATAGAATTAAATATTATTAAG
18443075 TCTAGTTTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.48, C:0.02, G:0.11, T:0.39
Consensus pattern (23 bp):
ATATAGAATTAAATATTATTAAG
Found at i:18446294 original size:20 final size:20
Alignment explanation
Indices: 18446269--18446308 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
18446259 TTTTTTTTGG
18446269 ATCTTGCCAAATAT-TTGATA
1 ATCTTGCCAAA-ATCTTGATA
18446289 ATCTTGCCAAAATCTTGATA
1 ATCTTGCCAAAATCTTGATA
18446309 TCAACTGTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (20 bp):
ATCTTGCCAAAATCTTGATA
Found at i:18446318 original size:97 final size:98
Alignment explanation
Indices: 18446217--18446412 Score: 367
Period size: 99 Copynumber: 2.0 Consensus size: 98
18446207 GTAACTTTGT
*
18446217 TGTACGAATATCCAACGTTAATCTTTTAGTTCACTTAATCA-TTTTTTTTTGGATCTTGCCAAAT
1 TGTACGAATATCCAACGTTAATCTTTCAGTTCACTTAATCATTTTTTTTTTGGATCTTGCCAAAT
18446281 ATTTGATAATCTTGCCAAAATCTTGATATCAAC
66 ATTTGATAATCTTGCCAAAATCTTGATATCAAC
18446314 TGTACGAATATCCAACGTTAATCTTTCAGTTCACTTAATCATTTTTTTTTTTGGATCTTGCCAAA
1 TGTACGAATATCCAACGTTAATCTTTCAGTTCACTTAATCA-TTTTTTTTTTGGATCTTGCCAAA
18446379 TATTTGATAATCTTGCCAAAATCTTGATATCAAC
65 TATTTGATAATCTTGCCAAAATCTTGATATCAAC
18446413 CGTTAATTCG
Statistics
Matches: 96, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
97 40 0.42
99 56 0.58
ACGTcount: A:0.30, C:0.18, G:0.10, T:0.42
Consensus pattern (98 bp):
TGTACGAATATCCAACGTTAATCTTTCAGTTCACTTAATCATTTTTTTTTTGGATCTTGCCAAAT
ATTTGATAATCTTGCCAAAATCTTGATATCAAC
Found at i:18446393 original size:20 final size:20
Alignment explanation
Indices: 18446368--18446407 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
18446358 TTTTTTTTGG
18446368 ATCTTGCCAAATAT-TTGATA
1 ATCTTGCCAAA-ATCTTGATA
18446388 ATCTTGCCAAAATCTTGATA
1 ATCTTGCCAAAATCTTGATA
18446408 TCAACCGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (20 bp):
ATCTTGCCAAAATCTTGATA
Found at i:18446951 original size:171 final size:171
Alignment explanation
Indices: 18446659--18446999 Score: 637
Period size: 171 Copynumber: 2.0 Consensus size: 171
18446649 TGGTTGTTAG
18446659 ACGACCTGGCCACACGACCGTGTACCCTTTTCCACACGATCATGTGGCCTCTACTTTGAAATTTT
1 ACGACCTGGCCACACGACCGTGTACCCTTTTCCACACGATCATGTGGCCTCTACTTTGAAATTTT
*
18446724 ACCCAGAATTTAGTGATATGTTTAATTTAATCCCCGTACAAATCACAATCTGTTTCCCAAGCTTA
66 ACCCAGAATTTAGTGATATGTTTAATTTAATCCCCGTACAAATCACAATATGTTTCCCAAGCTTA
18446789 GTAAATTCAATTGAATACCTGATATTATGACTACCCTAAAC
131 GTAAATTCAATTGAATACCTGATATTATGACTACCCTAAAC
* *
18446830 ACGACCTGGCCACATGACCGTGTACCCTTTTTCACACGATCATGTGGCCTCTACTTTGAAATTTT
1 ACGACCTGGCCACACGACCGTGTACCCTTTTCCACACGATCATGTGGCCTCTACTTTGAAATTTT
* *
18446895 ACCCAGAATTTAGTGATATGTTTAATTTAATCTCCGTACAAATCTCAATATGTTTCCCAAGCTTA
66 ACCCAGAATTTAGTGATATGTTTAATTTAATCCCCGTACAAATCACAATATGTTTCCCAAGCTTA
18446960 GTAAATTCAATTGAATACCTGATATTATGACTACCCTAAA
131 GTAAATTCAATTGAATACCTGATATTATGACTACCCTAAA
18447000 ATCTATGATC
Statistics
Matches: 165, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
171 165 1.00
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.33
Consensus pattern (171 bp):
ACGACCTGGCCACACGACCGTGTACCCTTTTCCACACGATCATGTGGCCTCTACTTTGAAATTTT
ACCCAGAATTTAGTGATATGTTTAATTTAATCCCCGTACAAATCACAATATGTTTCCCAAGCTTA
GTAAATTCAATTGAATACCTGATATTATGACTACCCTAAAC
Found at i:18450101 original size:13 final size:13
Alignment explanation
Indices: 18450084--18450161 Score: 78
Period size: 13 Copynumber: 6.5 Consensus size: 13
18450074 AGATTTTTCT
*
18450084 TAAATATTATCAT
1 TAAATATTATCAC
*
18450097 TAAATA--AT-TC
1 TAAATATTATCAC
18450107 TAAATATTATCAC
1 TAAATATTATCAC
18450120 TAAATATTATCAC
1 TAAATATTATCAC
*
18450133 TAAATA--AT-TC
1 TAAATATTATCAC
*
18450143 TAAATATTATTAC
1 TAAATATTATCAC
18450156 TAAATA
1 TAAATA
18450162 ATTTAAAATT
Statistics
Matches: 54, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
10 13 0.24
11 4 0.07
12 4 0.07
13 33 0.61
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (13 bp):
TAAATATTATCAC
Found at i:18450124 original size:36 final size:36
Alignment explanation
Indices: 18450084--18450161 Score: 138
Period size: 36 Copynumber: 2.2 Consensus size: 36
18450074 AGATTTTTCT
*
18450084 TAAATATTATCATTAAATAATTCTAAATATTATCAC
1 TAAATATTATCACTAAATAATTCTAAATATTATCAC
*
18450120 TAAATATTATCACTAAATAATTCTAAATATTATTAC
1 TAAATATTATCACTAAATAATTCTAAATATTATCAC
18450156 TAAATA
1 TAAATA
18450162 ATTTAAAATT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (36 bp):
TAAATATTATCACTAAATAATTCTAAATATTATCAC
Found at i:18450170 original size:23 final size:23
Alignment explanation
Indices: 18450119--18450168 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
18450109 AATATTATCA
18450119 CTAAATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
*
18450142 CTAAATATTATTACTAAATAATT
1 CTAAATATTATCACTAAATAATT
18450165 -TAAA
1 CTAAA
18450169 ATTTAAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 4 0.15
23 22 0.85
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (23 bp):
CTAAATATTATCACTAAATAATT
Found at i:18450966 original size:25 final size:24
Alignment explanation
Indices: 18450913--18450970 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 24
18450903 ATTTCTATTT
18450913 TATAATTTATTCAATATTATTAAA
1 TATAATTTATTCAATATTATTAAA
* *
18450937 AATAATTTATT-ATTATTATTTTAAA
1 TATAATTTATTCAATATTA--TTAAA
18450962 TATAATTTA
1 TATAATTTA
18450971 CATTTTAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
23 6 0.21
24 10 0.34
25 13 0.45
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (24 bp):
TATAATTTATTCAATATTATTAAA
Found at i:18451375 original size:31 final size:31
Alignment explanation
Indices: 18451316--18451375 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
18451306 ACACACAGAG
* * *
18451316 ACTTATCACAGAGAGCTCGTATAGGGAGCAT
1 ACTTATCACAGAAAGCTCGCATAAGGAGCAT
*
18451347 ACTTATCACAGAAATCTCGCATAAGGAGC
1 ACTTATCACAGAAAGCTCGCATAAGGAGC
18451376 TTGCTTGAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.22
Consensus pattern (31 bp):
ACTTATCACAGAAAGCTCGCATAAGGAGCAT
Found at i:18454144 original size:17 final size:17
Alignment explanation
Indices: 18454122--18454155 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
18454112 CACTAACATG
*
18454122 AAAATGTAATGACAATA
1 AAAATGCAATGACAATA
18454139 AAAATGCAATGACAATA
1 AAAATGCAATGACAATA
18454156 TATATTTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.59, C:0.09, G:0.12, T:0.21
Consensus pattern (17 bp):
AAAATGCAATGACAATA
Found at i:18454648 original size:18 final size:18
Alignment explanation
Indices: 18454627--18454663 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
18454617 ATTCTTCAGC
18454627 AACAACTTCCTCTTCTGT
1 AACAACTTCCTCTTCTGT
* *
18454645 AACAACTTTCTTTTCTGT
1 AACAACTTCCTCTTCTGT
18454663 A
1 A
18454664 GCAGCAACTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.24, C:0.27, G:0.05, T:0.43
Consensus pattern (18 bp):
AACAACTTCCTCTTCTGT
Found at i:18457005 original size:21 final size:21
Alignment explanation
Indices: 18456981--18457024 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
18456971 CCATAAAGCG
18456981 TCATCCAATCGGCAAGACCAA
1 TCATCCAATCGGCAAGACCAA
18457002 TCATCCAATCGGCAAGACCAA
1 TCATCCAATCGGCAAGACCAA
18457023 TC
1 TC
18457025 TTTCCTCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.36, C:0.34, G:0.14, T:0.16
Consensus pattern (21 bp):
TCATCCAATCGGCAAGACCAA
Found at i:18461997 original size:23 final size:23
Alignment explanation
Indices: 18461970--18462091 Score: 174
Period size: 23 Copynumber: 5.3 Consensus size: 23
18461960 AATGTTATTA
18461970 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* * *
18461993 TTCAGTGGTAGCTACAGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
18462016 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* **
18462039 TTCAGTGGTAGCTAT-GGCTACGC
1 ATCAGTGGTAGCT-TCGGCTACAT
18462062 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
18462085 ATCAGTG
1 ATCAGTG
18462092 TGGCACTTAT
Statistics
Matches: 85, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
22 1 0.01
23 83 0.98
24 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:18462022 original size:46 final size:46
Alignment explanation
Indices: 18461970--18462091 Score: 199
Period size: 46 Copynumber: 2.7 Consensus size: 46
18461960 AATGTTATTA
*
18461970 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTACAGCTACAT
1 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTACAGCTACAC
** *
18462016 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTATGGCTACGC
1 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTACAGCTACAC
*
18462062 ATCAGTGGTAGCTTCGGCTACATATCAGTG
1 ATCAGTGGTAGCTTCGGCTACATTTCAGTG
18462092 TGGCACTTAT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 71 1.00
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.30
Consensus pattern (46 bp):
ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTACAGCTACAC
Found at i:18462230 original size:23 final size:22
Alignment explanation
Indices: 18462187--18462233 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 22
18462177 ATGTAACGAT
18462187 TAAGTGTAATTGAATGATGAATA
1 TAAGTGTAATTGAAT-ATGAATA
18462210 TAAGTGTGGAATTGAAT-TGAATA
1 TAAGTGT--AATTGAATATGAATA
18462233 T
1 T
18462234 TGATCGAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 14 0.64
25 8 0.36
ACGTcount: A:0.40, C:0.00, G:0.23, T:0.36
Consensus pattern (22 bp):
TAAGTGTAATTGAATATGAATA
Found at i:18476393 original size:49 final size:49
Alignment explanation
Indices: 18476285--18476418 Score: 160
Period size: 49 Copynumber: 2.7 Consensus size: 49
18476275 ACATGCTTAT
* * * * * * *
18476285 CTTATCAAAACGGCTAAAAAACATAAAATATGTTCTCGCACTTAACACA
1 CTTATCAGAATGGCTGAAGAACATAAAATATGTTCACACACCTAACACA
*
18476334 CTTATGAGAATGGCTGAAGAACATAAAATATGTTCACACACCTAACACA
1 CTTATCAGAATGGCTGAAGAACATAAAATATGTTCACACACCTAACACA
* * * *
18476383 CTTATCAGAATGGTTGAGGAGCATAAGATATGTTCA
1 CTTATCAGAATGGCTGAAGAACATAAAATATGTTCA
18476419 AGCCCACCCT
Statistics
Matches: 72, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
49 72 1.00
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.25
Consensus pattern (49 bp):
CTTATCAGAATGGCTGAAGAACATAAAATATGTTCACACACCTAACACA
Found at i:18476791 original size:31 final size:31
Alignment explanation
Indices: 18476701--18476783 Score: 112
Period size: 31 Copynumber: 2.7 Consensus size: 31
18476691 GCACAGAGAC
*
18476701 TTATCATAGAGAGCTCACATAGAGAGCTTAT
1 TTATCACAGAGAGCTCACATAGAGAGCTTAT
* * *
18476732 TTATCACAAAGAGCTCGCATAGGGAGCTTAT
1 TTATCACAGAGAGCTCACATAGAGAGCTTAT
* *
18476763 TTATCACAGAGAACTCTCATA
1 TTATCACAGAGAGCTCACATA
18476784 AAAAGCTTTC
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (31 bp):
TTATCACAGAGAGCTCACATAGAGAGCTTAT
Found at i:18482368 original size:24 final size:26
Alignment explanation
Indices: 18482347--18482394 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
18482337 AGAAAAATAC
18482347 AAAAACA-TTTA-ATTTGTCAAATCT
1 AAAAACATTTTATATTTGTCAAATCT
*
18482371 AAAAACATTTTATATTTTTCAAAT
1 AAAAACATTTTATATTTGTCAAAT
18482395 TCATTACTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.33
25 4 0.19
26 10 0.48
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.42
Consensus pattern (26 bp):
AAAAACATTTTATATTTGTCAAATCT
Found at i:18488760 original size:6 final size:6
Alignment explanation
Indices: 18488751--18488776 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
18488741 ATTCCACTTA
18488751 CAGTTC CAGTTC CAGTTC CAGTTC CA
1 CAGTTC CAGTTC CAGTTC CAGTTC CA
18488777 ATTATAATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.35, G:0.15, T:0.31
Consensus pattern (6 bp):
CAGTTC
Done.