Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12
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: 24583705
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1509421 characters in sequence are not A, C, G, or T
File 74 of 75
Found at i:24071123 original size:21 final size:20
Alignment explanation
Indices: 24071079--24071125 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
24071069 AAACATATTT
* * *
24071079 AAAATTTTGTAAAACATATT
1 AAAATTTTATAAAAAATATA
24071099 AAAATTTTATAAAAAATTATA
1 AAAATTTTATAAAAAA-TATA
24071120 AAAATT
1 AAAATT
24071126 AAAAGTATTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 14 0.61
21 9 0.39
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (20 bp):
AAAATTTTATAAAAAATATA
Found at i:24071321 original size:16 final size:15
Alignment explanation
Indices: 24071290--24071324 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
24071280 GGTTGAACCA
*
24071290 ATTTTTTTAATTTTT
1 ATTTTTTTAATCTTT
24071305 ATTTTTTTAATACTTT
1 ATTTTTTTAAT-CTTT
24071321 ATTT
1 ATTT
24071325 AGTCGAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (15 bp):
ATTTTTTTAATCTTT
Found at i:24071595 original size:10 final size:10
Alignment explanation
Indices: 24071580--24071633 Score: 56
Period size: 10 Copynumber: 5.4 Consensus size: 10
24071570 CTAGTTTAAG
*
24071580 TTTTTATGAT
1 TTTTTATAAT
*
24071590 TTTTTATAAA
1 TTTTTATAAT
*
24071600 TTTATATCAA-
1 TTTTTAT-AAT
*
24071610 TTTTTATATT
1 TTTTTATAAT
24071620 TTTTTATAAT
1 TTTTTATAAT
24071630 TTTT
1 TTTT
24071634 ATTGCATTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
9 1 0.03
10 33 0.92
11 2 0.06
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.69
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:24073571 original size:17 final size:18
Alignment explanation
Indices: 24073537--24073574 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
24073527 ATTTTTTTCT
24073537 ATAAAAAAATTTAATTAAA
1 ATAAAAAAA-TTAATTAAA
*
24073556 ATAAAAAAA-TATTTAAA
1 ATAAAAAAATTAATTAAA
24073573 AT
1 AT
24073575 TATGATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 9 0.50
19 9 0.50
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
ATAAAAAAATTAATTAAA
Found at i:24073597 original size:21 final size:23
Alignment explanation
Indices: 24073566--24073607 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
24073556 ATAAAAAAAT
*
24073566 ATTTAAAATTATG-ATATTTTGG
1 ATTTAAAATTAAGTATATTTTGG
24073588 ATTT-AAATTAAGTATATTTT
1 ATTTAAAATTAAGTATATTTT
24073608 ACTTTTTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (23 bp):
ATTTAAAATTAAGTATATTTTGG
Found at i:24075801 original size:36 final size:36
Alignment explanation
Indices: 24075761--24075882 Score: 95
Period size: 36 Copynumber: 3.1 Consensus size: 36
24075751 TTTATGAGTT
24075761 AAAAATACACTATAAATAATTTTAAATATTTCTTTAA
1 AAAAATACACTATAAATAATTTTAAATATTTCTTT-A
* ** *
24075798 AAAAATA-AATATGAATTATTTATATTATTTTATATTTATGAGTT-
1 AAAAATACACTAT-AA--A--TA-ATT-TTAAATATTTCT---TTA
24075842 AAAAATACACTATAAATAATTTTAAATATTTCTTTA
1 AAAAATACACTATAAATAATTTTAAATATTTCTTTA
24075878 AAAAA
1 AAAAA
24075883 ATAAATATGA
Statistics
Matches: 65, Mismatches: 8, Indels: 25
0.66 0.08 0.26
Matches are distributed among these distances:
35 2 0.03
36 9 0.14
37 9 0.14
38 9 0.14
39 4 0.06
40 2 0.03
41 2 0.03
42 4 0.06
43 9 0.14
44 9 0.14
45 4 0.06
46 2 0.03
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (36 bp):
AAAAATACACTATAAATAATTTTAAATATTTCTTTA
Found at i:24075871 original size:81 final size:82
Alignment explanation
Indices: 24075728--24075898 Score: 326
Period size: 81 Copynumber: 2.1 Consensus size: 82
24075718 GAAACTGTAT
24075728 AATTATCTTATATTATTTTTATATTTATGAGTTAAAAATACACTATAAATAATTTTAAATATTTC
1 AATTAT-TTATATTATTTTTATATTTATGAGTTAAAAATACACTATAAATAATTTTAAATATTTC
24075793 TTTAAAAAAATAAATATG
65 TTTAAAAAAATAAATATG
24075811 AATTATTTATATTA-TTTTATATTTATGAGTTAAAAATACACTATAAATAATTTTAAATATTTCT
1 AATTATTTATATTATTTTTATATTTATGAGTTAAAAATACACTATAAATAATTTTAAATATTTCT
24075875 TTAAAAAAATAAATATG
66 TTAAAAAAATAAATATG
24075892 AATTATT
1 AATTATT
24075899 AAAAAAATTA
Statistics
Matches: 88, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
81 74 0.84
82 8 0.09
83 6 0.07
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (82 bp):
AATTATTTATATTATTTTTATATTTATGAGTTAAAAATACACTATAAATAATTTTAAATATTTCT
TTAAAAAAATAAATATG
Found at i:24075872 original size:38 final size:38
Alignment explanation
Indices: 24075748--24075872 Score: 105
Period size: 38 Copynumber: 3.2 Consensus size: 38
24075738 TATTATTTTT
24075748 ATATTTATGAGTTAAAAATACACTATAAATAATTTTAA
1 ATATTTATGAGTTAAAAATACACTATAAATAATTTTAA
* * **
24075786 ATATTTCT---TTAAAAAAATA-AATATGAATTATTTATATTATTTT
1 ATATTTATGAGTT--AAAAATACACTAT-AA--A--TA-ATT-TTAA
24075829 ATATTTATGAGTTAAAAATACACTATAAATAATTTTAA
1 ATATTTATGAGTTAAAAATACACTATAAATAATTTTAA
24075867 ATATTT
1 ATATTT
24075873 CTTTAAAAAA
Statistics
Matches: 66, Mismatches: 8, Indels: 26
0.66 0.08 0.26
Matches are distributed among these distances:
35 2 0.03
36 4 0.06
37 9 0.14
38 15 0.23
39 4 0.06
40 2 0.03
41 2 0.03
42 4 0.06
43 9 0.14
44 9 0.14
45 4 0.06
46 2 0.03
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (38 bp):
ATATTTATGAGTTAAAAATACACTATAAATAATTTTAA
Found at i:24078345 original size:16 final size:18
Alignment explanation
Indices: 24078309--24078347 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
24078299 GAAACATTTA
*
24078309 TTTTAATGTTCTTAGTAT
1 TTTTAATGTTATTAGTAT
24078327 TTTTAATG-TATTA-TAT
1 TTTTAATGTTATTAGTAT
24078343 TTTTA
1 TTTTA
24078348 TTTTTTTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 8 0.40
17 4 0.20
18 8 0.40
ACGTcount: A:0.26, C:0.03, G:0.08, T:0.64
Consensus pattern (18 bp):
TTTTAATGTTATTAGTAT
Found at i:24079757 original size:5 final size:5
Alignment explanation
Indices: 24079718--24079784 Score: 77
Period size: 5 Copynumber: 13.8 Consensus size: 5
24079708 ATGTTTACAT
* * *
24079718 TATAA -ATAT TAT-A TATAA CTATAA -ATCA CATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA -TATAA TATAA TATAA TATAA TATAA TATAA
24079766 TATAA TATAA TATAA TATA
1 TATAA TATAA TATAA TATA
24079785 TTACAAACTT
Statistics
Matches: 53, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
4 9 0.17
5 39 0.74
6 5 0.09
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (5 bp):
TATAA
Found at i:24083263 original size:27 final size:27
Alignment explanation
Indices: 24083233--24083285 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
24083223 CAATTTTACG
*
24083233 TGGAAACCCTTTCGGGATAGTTACAAA
1 TGGAAACCCTTTCGGGATAATTACAAA
24083260 TGGAAACCCTTTCGGGATAATTACAA
1 TGGAAACCCTTTCGGGATAATTACAA
24083286 GGAGTATAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (27 bp):
TGGAAACCCTTTCGGGATAATTACAAA
Found at i:24083799 original size:20 final size:20
Alignment explanation
Indices: 24083774--24083815 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
24083764 TTATTTATTT
24083774 AAATAATAAT-TGTATAAATA
1 AAATAATAATCT-TATAAATA
24083794 AAATAATAATCTTATAAATA
1 AAATAATAATCTTATAAATA
24083814 AA
1 AA
24083816 CAATTCAAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 20 0.95
21 1 0.05
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (20 bp):
AAATAATAATCTTATAAATA
Found at i:24084507 original size:30 final size:28
Alignment explanation
Indices: 24084470--24084551 Score: 76
Period size: 29 Copynumber: 2.8 Consensus size: 28
24084460 AAGAAATAAA
*
24084470 ACTAAATTGATAGAATGTGTAAAGTTGATG
1 ACTAAATTGATAGAATCTGTAAA-TT-ATG
* * * *
24084500 GCTAAATTTG-TAGATTTTTTAGAATTATG
1 ACTAAA-TTGATAGAATCTGTA-AATTATG
24084529 ACTAAATTGATAGAATCTGTAAA
1 ACTAAATTGATAGAATCTGTAAA
24084552 CATTGAAGGG
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
28 5 0.12
29 16 0.39
30 15 0.37
31 5 0.12
ACGTcount: A:0.39, C:0.05, G:0.18, T:0.38
Consensus pattern (28 bp):
ACTAAATTGATAGAATCTGTAAATTATG
Found at i:24085163 original size:20 final size:21
Alignment explanation
Indices: 24085135--24085188 Score: 53
Period size: 20 Copynumber: 2.7 Consensus size: 21
24085125 AAATTTACAT
*
24085135 ATTTTTTTATA-TATTTA-AA
1 ATTTATTTATATTATTTAGAA
*
24085154 ATTTAATTTA-ATTTTTTAGAA
1 ATTT-ATTTATATTATTTAGAA
24085175 ATTTATTTAT-TTAT
1 ATTTATTTATATTAT
24085189 ATTTTGAAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
19 5 0.18
20 17 0.61
21 6 0.21
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (21 bp):
ATTTATTTATATTATTTAGAA
Found at i:24086581 original size:24 final size:26
Alignment explanation
Indices: 24086541--24086611 Score: 83
Period size: 28 Copynumber: 2.7 Consensus size: 26
24086531 AAGGACATTC
* * *
24086541 CTTTCATATTCCGCCACAGGC-TTTT
1 CTTTCATATTACACCACAAGCTTTTT
24086566 -TTTCATATTACACCACAAAAGCTTTTT
1 CTTTCATATTACACCAC--AAGCTTTTT
24086593 CTTTCATATTACACCACAA
1 CTTTCATATTACACCACAA
24086612 ATGAACGAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
24 14 0.36
26 5 0.13
27 4 0.10
28 16 0.41
ACGTcount: A:0.28, C:0.28, G:0.06, T:0.38
Consensus pattern (26 bp):
CTTTCATATTACACCACAAGCTTTTT
Found at i:24086967 original size:25 final size:25
Alignment explanation
Indices: 24086892--24086967 Score: 98
Period size: 26 Copynumber: 3.0 Consensus size: 25
24086882 ATGAATTTTC
* * *
24086892 TCAAAATTTTATCAGTGGTAAAATCG
1 TCAAAATTTTAT-TGGGGTAAAATTG
*
24086918 TCAAAATTTTACTGAGGGTAAAATTG
1 TCAAAATTTTATTG-GGGTAAAATTG
24086944 TCAAAATTTTATTGGGGTAAAATT
1 TCAAAATTTTATTGGGGTAAAATT
24086968 AGGTGAGAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
25 11 0.25
26 33 0.75
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.37
Consensus pattern (25 bp):
TCAAAATTTTATTGGGGTAAAATTG
Found at i:24090371 original size:22 final size:22
Alignment explanation
Indices: 24090346--24090388 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
24090336 ACACCATAAC
*
24090346 AGGCTTTTAGCGGCGCTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
*
24090368 AGGCCTTTAGCGGTGCTTTTT
1 AGGCCTTTAGCGGCGCTTTTT
24090389 AGCGCCGCAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.09, C:0.19, G:0.28, T:0.44
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCTTTTTT
Found at i:24090764 original size:43 final size:43
Alignment explanation
Indices: 24090652--24090839 Score: 184
Period size: 43 Copynumber: 4.3 Consensus size: 43
24090642 GTTTTTTTCT
* *
24090652 CAAACGCCGC-AATAGACCCTGATCTATAGCGGCGC-TTCGACCA
1 CAAACGCCACTAA-AGACCCTGATCTTTAGCGGCGCTTTC-ACCA
* * *
24090695 CAAAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCA
1 C-AAACGCCACTAAAGACCCTGATCTTTAGCGGCGCTTTCACCA
* * * **
24090739 CAAACGCCACTAAAGACCATGATCTTTAGGGGTGCTTTTTCCGA
1 CAAACGCCACTAAAGACCCTGATCTTTAGCGGCGCTTTCACC-A
* * * *
24090783 -AAACGCCGCGAAAGACCCTTATCTTTAGCGGCGCTTTTACCA
1 CAAACGCCACTAAAGACCCTGATCTTTAGCGGCGCTTTCACCA
*
24090825 GAAACGCCACTAAAG
1 CAAACGCCACTAAAG
24090840 GCCAACACCT
Statistics
Matches: 119, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
42 1 0.01
43 81 0.68
44 32 0.27
45 5 0.04
ACGTcount: A:0.30, C:0.31, G:0.19, T:0.21
Consensus pattern (43 bp):
CAAACGCCACTAAAGACCCTGATCTTTAGCGGCGCTTTCACCA
Found at i:24090852 original size:86 final size:86
Alignment explanation
Indices: 24090696--24090853 Score: 217
Period size: 86 Copynumber: 1.8 Consensus size: 86
24090686 CTTCGACCAC
* * **
24090696 AAAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCACAAACGCCACTAAAGACCATGA
1 AAAACGCCACGAAAGAACCTAATCTTTAGCGGCGCTTTCACCACAAACGCCACTAAAGACCAACA
*
24090761 TCTTTAGGGGTGCTTTTTCCG
66 CCTTTAGGGGTGCTTTTTCCG
* * * * * *
24090782 AAAACGCCGCGAAAGACCCTTATCTTTAGCGGCGCTTTTACCAGAAACGCCACTAAAGGCCAACA
1 AAAACGCCACGAAAGAACCTAATCTTTAGCGGCGCTTTCACCACAAACGCCACTAAAGACCAACA
24090847 CCTTTAG
66 CCTTTAG
24090854 TGGCTTTTTT
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
86 61 1.00
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (86 bp):
AAAACGCCACGAAAGAACCTAATCTTTAGCGGCGCTTTCACCACAAACGCCACTAAAGACCAACA
CCTTTAGGGGTGCTTTTTCCG
Found at i:24091215 original size:21 final size:21
Alignment explanation
Indices: 24091189--24091279 Score: 101
Period size: 21 Copynumber: 4.3 Consensus size: 21
24091179 TGACTCTGCC
24091189 CTGCTTCCCTCGCTGCAGCCT
1 CTGCTTCCCTCGCTGCAGCCT
** *
24091210 CTGCTTCCCTCGCTTTAGGCT
1 CTGCTTCCCTCGCTGCAGCCT
*
24091231 CTGCTTCCCTCGTTGCAGCCT
1 CTGCTTCCCTCGCTGCAGCCT
* * * * *
24091252 GTACTTCTCTAGCTGCCGCCT
1 CTGCTTCCCTCGCTGCAGCCT
24091273 CTGCTTC
1 CTGCTTC
24091280 TCTTACTGCC
Statistics
Matches: 55, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 55 1.00
ACGTcount: A:0.05, C:0.42, G:0.19, T:0.34
Consensus pattern (21 bp):
CTGCTTCCCTCGCTGCAGCCT
Found at i:24091280 original size:21 final size:21
Alignment explanation
Indices: 24091255--24091299 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
24091245 GCAGCCTGTA
* *
24091255 CTTCTC-TAGCTGCCGCCTCTG
1 CTTCTCTTA-CTGCCACATCTG
24091276 CTTCTCTTACTGCCACATCTG
1 CTTCTCTTACTGCCACATCTG
24091297 CTT
1 CTT
24091300 TAAGCTGCTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.09, C:0.40, G:0.13, T:0.38
Consensus pattern (21 bp):
CTTCTCTTACTGCCACATCTG
Found at i:24091365 original size:66 final size:66
Alignment explanation
Indices: 24091291--24091435 Score: 195
Period size: 66 Copynumber: 2.2 Consensus size: 66
24091281 CTTACTGCCA
*
24091291 CATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCGTTGAACCTCAGCTTCTCTCGCTG
1 CATCTGCTTTAAGCTG-TAGCTGGAGTTCTTCATATCTTT-GTTGAACCTCAGCTTCTCTCGATG
24091354 CTG
64 CTG
* * * *
24091357 CATCTGCTTTCAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGAACCTCAGCTTCTCTCGATGTT
1 CATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGAACCTCAGCTTCTCTCGATGCT
24091422 G
66 G
* *
24091423 CCTCCGCTTTAAG
1 CATCTGCTTTAAG
24091436 TTGTGTAATT
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
65 1 0.01
66 64 0.93
67 4 0.06
ACGTcount: A:0.14, C:0.27, G:0.19, T:0.40
Consensus pattern (66 bp):
CATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGAACCTCAGCTTCTCTCGATGCT
G
Found at i:24102483 original size:47 final size:47
Alignment explanation
Indices: 24102392--24102483 Score: 112
Period size: 47 Copynumber: 2.0 Consensus size: 47
24102382 GTTAATTTCG
* ** *
24102392 GTAATATTTAAAAAAATTAGATAAAATTATCAATCTCAGTTTTTTAA
1 GTAATATTTAAAAAAATTAGATAAAAATAAAAATCTCAGCTTTTTAA
* * * *
24102439 GTAATATTTATAAAAATTAGGTAAAAATAAAAATTTTAGCTTTTT
1 GTAATATTTAAAAAAATTAGATAAAAATAAAAATCTCAGCTTTTT
24102484 TTATTTCTTT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
47 37 1.00
ACGTcount: A:0.47, C:0.04, G:0.08, T:0.41
Consensus pattern (47 bp):
GTAATATTTAAAAAAATTAGATAAAAATAAAAATCTCAGCTTTTTAA
Found at i:24102502 original size:17 final size:18
Alignment explanation
Indices: 24102480--24102520 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
24102470 AATTTTAGCT
*
24102480 TTTTTTA-TTTCTTTTTA
1 TTTTTTATTTTCATTTTA
24102497 TTTTTTATTTTCATTTTA
1 TTTTTTATTTTCATTTTA
24102515 TTTTTT
1 TTTTTT
24102521 GTAATTTTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.12, C:0.05, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTTTTATTTTCATTTTA
Found at i:24102586 original size:16 final size:14
Alignment explanation
Indices: 24102557--24102583 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
24102547 TTTACAATTC
24102557 CAAATTATTATATT
1 CAAATTATTATATT
24102571 CAAATTATTATAT
1 CAAATTATTATAT
24102584 ATTGCATATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.48
Consensus pattern (14 bp):
CAAATTATTATATT
Found at i:24102821 original size:7 final size:7
Alignment explanation
Indices: 24102809--24102905 Score: 97
Period size: 7 Copynumber: 13.9 Consensus size: 7
24102799 ATAACCCAAG
24102809 CCCTAAC
1 CCCTAAC
24102816 CCCTAAC
1 CCCTAAC
24102823 CCCTAAC
1 CCCTAAC
*
24102830 CCTTAAC
1 CCCTAAC
24102837 CCCTAAC
1 CCCTAAC
**
24102844 CTTTAAC
1 CCCTAAC
*
24102851 CCTTAAC
1 CCCTAAC
*
24102858 CCTTAA-
1 CCCTAAC
24102864 CCCTAAAC
1 CCCT-AAC
*
24102872 CCTTAAC
1 CCCTAAC
* *
24102879 CCATGAC
1 CCCTAAC
*
24102886 CTCTAAC
1 CCCTAAC
24102893 CCCTAAC
1 CCCTAAC
24102900 CCCTAA
1 CCCTAA
24102906 AACTTATTTA
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
6 3 0.04
7 69 0.92
8 3 0.04
ACGTcount: A:0.30, C:0.47, G:0.01, T:0.22
Consensus pattern (7 bp):
CCCTAAC
Found at i:24102838 original size:21 final size:21
Alignment explanation
Indices: 24102812--24102905 Score: 109
Period size: 21 Copynumber: 4.5 Consensus size: 21
24102802 ACCCAAGCCC
24102812 TAACCCCTAACCCCTAACCCT
1 TAACCCCTAACCCCTAACCCT
**
24102833 TAACCCCTAACCTTTAACCCT
1 TAACCCCTAACCCCTAACCCT
*
24102854 TAACCCTTAA-CCCTAAACCCT
1 TAACCCCTAACCCCT-AACCCT
* * * *
24102875 TAACCCATGACCTCTAACCCC
1 TAACCCCTAACCCCTAACCCT
24102896 TAACCCCTAA
1 TAACCCCTAA
24102906 AACTTATTTA
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
20 2 0.03
21 55 0.92
22 3 0.05
ACGTcount: A:0.31, C:0.46, G:0.01, T:0.22
Consensus pattern (21 bp):
TAACCCCTAACCCCTAACCCT
Found at i:24102905 original size:14 final size:14
Alignment explanation
Indices: 24102809--24102901 Score: 109
Period size: 14 Copynumber: 6.6 Consensus size: 14
24102799 ATAACCCAAG
*
24102809 CCCTAACCCCTAAC
1 CCCTAACCCTTAAC
24102823 CCCTAACCCTTAAC
1 CCCTAACCCTTAAC
*
24102837 CCCTAACCTTTAAC
1 CCCTAACCCTTAAC
*
24102851 CCTTAACCCTTAA-
1 CCCTAACCCTTAAC
24102864 CCCTAAACCCTTAAC
1 CCCT-AACCCTTAAC
* *
24102879 CCATGA-CCTCTAAC
1 CCCTAACCCT-TAAC
24102893 CCCTAACCC
1 CCCTAACCC
24102902 CTAAAACTTA
Statistics
Matches: 66, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
13 6 0.09
14 55 0.83
15 5 0.08
ACGTcount: A:0.29, C:0.48, G:0.01, T:0.22
Consensus pattern (14 bp):
CCCTAACCCTTAAC
Found at i:24103014 original size:7 final size:7
Alignment explanation
Indices: 24103004--24103036 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
24102994 CTCTTAACAT
24103004 CTAACCC
1 CTAACCC
24103011 CTAA--C
1 CTAACCC
24103016 CTAACCC
1 CTAACCC
24103023 CTAACCC
1 CTAACCC
24103030 CTAACCC
1 CTAACCC
24103037 NNNNNNNNNN
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
5 5 0.21
7 19 0.79
ACGTcount: A:0.30, C:0.55, G:0.00, T:0.15
Consensus pattern (7 bp):
CTAACCC
Found at i:24103021 original size:12 final size:12
Alignment explanation
Indices: 24103004--24103028 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24102994 CTCTTAACAT
24103004 CTAACCCCTAAC
1 CTAACCCCTAAC
24103016 CTAACCCCTAAC
1 CTAACCCCTAAC
24103028 C
1 C
24103029 CCTAACCCNN
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.52, G:0.00, T:0.16
Consensus pattern (12 bp):
CTAACCCCTAAC
Found at i:24103568 original size:113 final size:112
Alignment explanation
Indices: 24103412--24103813 Score: 350
Period size: 113 Copynumber: 3.5 Consensus size: 112
24103402 GCATAAAAAT
* *
24103412 AAACGCCACTAAT-CATGTTCTTTTACGGCGTTTTTCTAAAAACGCCACTAATACTAATCTACCT
1 AAACGCCACTAATAC-TATTCTTTTACGGCGTTTTTATAAAAACGCCACTAATACTAATCTACCT
*
24103476 CAAGACGAAACGGTGCGTTTTCATTAAGATATTTGCGGCGCTTTACCGA
65 CAAGACAAAACGGTGCGTTTTCATTAAGATATTTGCGGCGCTTT-CCGA
* * * *
24103525 AAACGCCGCTAATACTATTCTTTTGCGGCG-TTTTATAGAAAACGCCAC-AATGTCTAATATA-C
1 AAACGCCACTAATACTATTCTTTTACGGCGTTTTTATA-AAAACGCCACTAAT-ACTAATCTACC
* * * ** * * * *
24103587 -AAATTGAACCAAACGCTGCGTTTTGGTTAAGGTATTTTTCGGCGC-ATCCAAA
64 TCAA--G-ACAAAACGGTGCGTTTTCATTAAGATA-TTTGCGGCGCTTTCC-GA
* * * *
24103639 TAAACGCCACTAATTA-TGTTCTTTTACGGCGTTTTTTTAAAAATGCCACTAATATTAATCTACC
1 -AAACGCCACTAA-TACTATTCTTTTACGGCGTTTTTATAAAAACGCCACTAATACTAATCTACC
* * ** *
24103703 TCAAGATAAAACGGTGCGTTTTCCTTAAGATATTTGCGGCGCTTTTTGTT
64 TCAAGACAAAACGGTGCGTTTTCATTAAGATATTTGCGGCGCTTTCCG-A
* ** * *
24103753 AAACGCCGCTAATACTATTCTTTCGCGGCGTTTTTTTATAAAAAACGCCACGAATTCTAAT
1 AAACGCCACTAATACTATTCTTTTACGGCG--TTTTTAT-AAAAACGCCACTAATACTAAT
24103814 ATACAATTGA
Statistics
Matches: 224, Mismatches: 45, Indels: 37
0.73 0.15 0.12
Matches are distributed among these distances:
111 2 0.01
112 12 0.05
113 77 0.34
114 47 0.21
115 55 0.25
116 29 0.13
117 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (112 bp):
AAACGCCACTAATACTATTCTTTTACGGCGTTTTTATAAAAACGCCACTAATACTAATCTACCTC
AAGACAAAACGGTGCGTTTTCATTAAGATATTTGCGGCGCTTTCCGA
Found at i:24103662 original size:115 final size:114
Alignment explanation
Indices: 24103365--24103922 Score: 466
Period size: 115 Copynumber: 4.9 Consensus size: 114
24103355 NNNNNNNNNN
* * *
24103365 AACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGCGCATAAAAATAAACGCCACTAATCATGT
1 AACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGCGC-TTACAATAAACGCCACTAATTATGT
* * *
24103430 TCTTTTACGGCGTTTTTCTAAAAACGCCACTAATACTAATCTACCTCAAG
65 TCTTTTACGGCGTTTTTATAAAAACGCCACTAATTCTAATATACCTCAAG
* * ** * * *
24103480 -ACGAAACGGTGCGTTTTCATTAAGATA-TTTGCGGCGCTTTACCGA-AAACGCCGCTAA-TACT
1 AACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGCGC-TTA-CAATAAACGCCACTAATTA-T
* * *
24103541 ATTCTTTTGCGGCG-TTTTATAGAAAACGCCAC-AATGTCTAATATA-C-AAATTG
63 GTTCTTTTACGGCGTTTTTATA-AAAACGCCACTAAT-TCTAATATACCTCAA--G
* * *
24103593 AACCAAACGCTGCGTTTTGGTTAAGGTATTTTTCGGCGCATCCAAATAAACGCCACTAATTATGT
1 AACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGCGCTTAC-AATAAACGCCACTAATTATGT
* * *
24103658 TCTTTTACGGCGTTTTTTTAAAAATGCCACTAATAT-TAATCTACCTCAAG
65 TCTTTTACGGCGTTTTTATAAAAACGCCACTAAT-TCTAATATACCTCAAG
* ** * **** *
24103708 ATA--AAACGGTGCGTTTTCCTTAAGATA-TTTGCGGCGCTTTTTGTTAAACGCCGCTAA-TACT
1 A-ACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGCGC-TTACAATAAACGCCACTAATTA-T
* ** *
24103769 ATTCTTTCGCGGCGTTTTTTTATAAAAAACGCCACGAATTCTAATATA---CAATTG
63 GTTCTTTTACGGCG--TTTTTAT-AAAAACGCCACTAATTCTAATATACCTCAA--G
*
24103823 AACC-AACGCTGCGTTTTGGTTAAGGTATTTTGCGGTGCTTACAATAAACGCCACTAATTATGTT
1 AACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGCGCTTACAATAAACGCCACTAATTATGTT
* * * * *
24103887 CTTTTATGACGTTTTTTTAGAAACGCCACTAGTTCT
66 CTTTTACGGCGTTTTTATAAAAACGCCACTAATTCT
24103923 TCAGGTTTTA
Statistics
Matches: 344, Mismatches: 71, Indels: 59
0.73 0.15 0.12
Matches are distributed among these distances:
111 2 0.01
112 28 0.08
113 97 0.28
114 69 0.20
115 102 0.30
116 44 0.13
117 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (114 bp):
AACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGCGCTTACAATAAACGCCACTAATTATGTT
CTTTTACGGCGTTTTTATAAAAACGCCACTAATTCTAATATACCTCAAG
Found at i:24103762 original size:228 final size:228
Alignment explanation
Indices: 24103365--24103917 Score: 846
Period size: 228 Copynumber: 2.4 Consensus size: 228
24103355 NNNNNNNNNN
* *
24103365 AACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGCGCATAAAAATAAACGCCACTAATCATGT
1 AACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGCGCATACAAATAAACGCCACTAATTATGT
* *
24103430 TCTTTTACGGCGTTTTTCTAAAAACGCCACTAATACTAATCTACCTCAAGACGAAACGGTGCGTT
66 TCTTTTACGGCGTTTTTTTAAAAACGCCACTAATACTAATCTACCTCAAGACAAAACGGTGCGTT
*
24103495 TTCATTAAGATATTTGCGGCGCTTTACCGAAAACGCCGCTAATACTATTCTTTTGCGGCG-TTTT
131 TTCATTAAGATATTTGCGGCGCTTTACCGAAAACGCCGCTAATACTATTCTTTCGCGGCGTTTTT
*
24103559 ATAGAAAACGCCAC-AATGTCTAATATACAAATTG
196 ATAAAAAACGCCACGAAT-TCTAATATAC-AATTG
* *
24103593 AACCAAACGCTGCGTTTTGGTTAAGGTATTTTTCGGCGCATCCAAATAAACGCCACTAATTATGT
1 AACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGCGCATACAAATAAACGCCACTAATTATGT
* * *
24103658 TCTTTTACGGCGTTTTTTTAAAAATGCCACTAATATTAATCTACCTCAAGATAAAACGGTGCGTT
66 TCTTTTACGGCGTTTTTTTAAAAACGCCACTAATACTAATCTACCTCAAGACAAAACGGTGCGTT
* ** *
24103723 TTCCTTAAGATATTTGCGGCGCTTT-TTGTTAAACGCCGCTAATACTATTCTTTCGCGGCGTTTT
131 TTCATTAAGATATTTGCGGCGCTTTACCG-AAAACGCCGCTAATACTATTCTTTCGCGGCG--TT
24103787 TTTATAAAAAACGCCACGAATTCTAATATACAATTG
193 TTTATAAAAAACGCCACGAATTCTAATATACAATTG
* *
24103823 AACC-AACGCTGCGTTTTGGTTAAGGTATTTTGCGGTGCTTAC-AATAAACGCCACTAATTATGT
1 AACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGCGCATACAAATAAACGCCACTAATTATGT
* * *
24103886 TCTTTTATGACGTTTTTTTAGAAACGCCACTA
66 TCTTTTACGGCGTTTTTTTAAAAACGCCACTA
24103918 GTTCTTCAGG
Statistics
Matches: 297, Mismatches: 23, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
227 1 0.00
228 223 0.75
229 34 0.11
230 9 0.03
231 27 0.09
232 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (228 bp):
AACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGCGCATACAAATAAACGCCACTAATTATGT
TCTTTTACGGCGTTTTTTTAAAAACGCCACTAATACTAATCTACCTCAAGACAAAACGGTGCGTT
TTCATTAAGATATTTGCGGCGCTTTACCGAAAACGCCGCTAATACTATTCTTTCGCGGCGTTTTT
ATAAAAAACGCCACGAATTCTAATATACAATTG
Found at i:24112686 original size:27 final size:27
Alignment explanation
Indices: 24112648--24112701 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
24112638 AATCTCGAAC
* * *
24112648 TTCAACATGAAGCGAACAACAGTGAGA
1 TTCAACACGAAGCCAACAACAGCGAGA
24112675 TTCAACACGAAGCCAACAACAGCGAGA
1 TTCAACACGAAGCCAACAACAGCGAGA
24112702 AAGTTGCTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.44, C:0.24, G:0.20, T:0.11
Consensus pattern (27 bp):
TTCAACACGAAGCCAACAACAGCGAGA
Found at i:24116837 original size:22 final size:22
Alignment explanation
Indices: 24116796--24116838 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
24116786 TTAAAATTAA
* *
24116796 AAATTTAGTCCTTGTATTTTAG
1 AAATTTAGTCCCTATATTTTAG
*
24116818 AAATTTAGTCCCTATTTTTTA
1 AAATTTAGTCCCTATATTTTA
24116839 TATTTTAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.28, C:0.12, G:0.09, T:0.51
Consensus pattern (22 bp):
AAATTTAGTCCCTATATTTTAG
Found at i:24119854 original size:5 final size:5
Alignment explanation
Indices: 24119841--24119875 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
24119831 TAGTGTACAG
*
24119841 ACAAC ACAAT ACAAT ACAAT ACAAT ACAAT ACAAT
1 ACAAT ACAAT ACAAT ACAAT ACAAT ACAAT ACAAT
24119876 TGCCCCCAGC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.60, C:0.23, G:0.00, T:0.17
Consensus pattern (5 bp):
ACAAT
Found at i:24132285 original size:2 final size:2
Alignment explanation
Indices: 24132278--24132312 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
24132268 AATTAAGTAT
24132278 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
24132313 GAAAGGCAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:24134577 original size:659 final size:659
Alignment explanation
Indices: 24133319--24134636 Score: 2636
Period size: 659 Copynumber: 2.0 Consensus size: 659
24133309 ATATCTTTAT
24133319 CATTTTTAGAGAATTAAATCAAAATTTTATATTTTTTAGGGCCAAAGTACAATTTTACCATTACC
1 CATTTTTAGAGAATTAAATCAAAATTTTATATTTTTTAGGGCCAAAGTACAATTTTACCATTACC
24133384 ATTACCAATTTAAAATTTTATAAATTATAAAGAGTCTAAATAGAAAATTTTCTATTTTAGGAGGA
66 ATTACCAATTTAAAATTTTATAAATTATAAAGAGTCTAAATAGAAAATTTTCTATTTTAGGAGGA
24133449 CCGGGGCCCCTACCAGCCCCCCTCAACTTCGCCACTTCTAGACAACATCATATACTTTCCCTAAA
131 CCGGGGCCCCTACCAGCCCCCCTCAACTTCGCCACTTCTAGACAACATCATATACTTTCCCTAAA
24133514 ATAACAAAAAAAAAATCTTTATATTTATATTATATTTATATTTTAATATTTGGGTTCGTAGATCA
196 ATAACAAAAAAAAAATCTTTATATTTATATTATATTTATATTTTAATATTTGGGTTCGTAGATCA
24133579 AAATAAACTTTAATTATCAATTTACACATATTAAATAAAATTTCATTTGAAATAAAAATTTATTT
261 AAATAAACTTTAATTATCAATTTACACATATTAAATAAAATTTCATTTGAAATAAAAATTTATTT
24133644 CAACCAAACAAATATGAAATTTTATTTTAATATAATATTAATATAATAGCTTATTTTAAAATGAA
326 CAACCAAACAAATATGAAATTTTATTTTAATATAATATTAATATAATAGCTTATTTTAAAATGAA
24133709 ATAATTCATTTTTAAATATTATATCTTTTTTCTATTGGTTACATTATTTCTAATAATCTATATTT
391 ATAATTCATTTTTAAATATTATATCTTTTTTCTATTGGTTACATTATTTCTAATAATCTATATTT
24133774 GTACTATTATTTAAATTGATATAACAAATCAATCAAGTACCAATTTAGTTGAGAAATTATCAAAT
456 GTACTATTATTTAAATTGATATAACAAATCAATCAAGTACCAATTTAGTTGAGAAATTATCAAAT
24133839 GACCAAATTTTTTATCATGCTAACACAACCAAAATCTGATTTTTCTTTCAAAAGAATTATTGTTT
521 GACCAAATTTTTTATCATGCTAACACAACCAAAATCTGATTTTTCTTTCAAAAGAATTATTGTTT
24133904 AATTTTTTGTATACAAGAAACCGATGTTCATTTATGTTCGCTTTATGATTATTTTTTTAATTTTT
586 AATTTTTTGTATACAAGAAACCGATGTTCATTTATGTTCGCTTTATGATTATTTTTTTAATTTTT
24133969 TACATTCAC
651 TACATTCAC
24133978 CATTTTTAGAGAATTAAATCAAAATTTTATATTTTTTAGGGCCAAAGTACAATTTTACCATTACC
1 CATTTTTAGAGAATTAAATCAAAATTTTATATTTTTTAGGGCCAAAGTACAATTTTACCATTACC
24134043 ATTACCAATTTAAAATTTTATAAATTATAAAGAGTCTAAATAGAAAATTTTCTATTTTAGGAGGA
66 ATTACCAATTTAAAATTTTATAAATTATAAAGAGTCTAAATAGAAAATTTTCTATTTTAGGAGGA
24134108 CCGGGGCCCCTACCAGCCCCCCTCAACTTCGCCACTTCTAGACAACATCATATACTTTCCCTAAA
131 CCGGGGCCCCTACCAGCCCCCCTCAACTTCGCCACTTCTAGACAACATCATATACTTTCCCTAAA
24134173 ATAACAAAAAAAAAATCTTTATATTTATATTATATTTATATTTTAATATTTGGGTTCGTAGATCA
196 ATAACAAAAAAAAAATCTTTATATTTATATTATATTTATATTTTAATATTTGGGTTCGTAGATCA
24134238 AAATAAACTTTAATTATCAATTTACACATATTAAATAAAATTTCATTTGAAATAAAAATTTATTT
261 AAATAAACTTTAATTATCAATTTACACATATTAAATAAAATTTCATTTGAAATAAAAATTTATTT
24134303 CAACCAAACAAATATGAAATTTTATTTTAATATAATATTAATATAATAGCTTATTTTAAAATGAA
326 CAACCAAACAAATATGAAATTTTATTTTAATATAATATTAATATAATAGCTTATTTTAAAATGAA
24134368 ATAATTCATTTTTAAATATTATATCTTTTTTCTATTGGTTACATTATTTCTAATAATCTATATTT
391 ATAATTCATTTTTAAATATTATATCTTTTTTCTATTGGTTACATTATTTCTAATAATCTATATTT
24134433 GTACTATTATTTAAATTGATATAACAAATCAATCAAGTACCAATTTAGTTGAGAAATTATCAAAT
456 GTACTATTATTTAAATTGATATAACAAATCAATCAAGTACCAATTTAGTTGAGAAATTATCAAAT
24134498 GACCAAATTTTTTATCATGCTAACACAACCAAAATCTGATTTTTCTTTCAAAAGAATTATTGTTT
521 GACCAAATTTTTTATCATGCTAACACAACCAAAATCTGATTTTTCTTTCAAAAGAATTATTGTTT
24134563 AATTTTTTGTATACAAGAAACCGATGTTCATTTATGTTCGCTTTATGATTATTTTTTTAATTTTT
586 AATTTTTTGTATACAAGAAACCGATGTTCATTTATGTTCGCTTTATGATTATTTTTTTAATTTTT
24134628 TACATTCAC
651 TACATTCAC
24134637 ATTGTTGGAA
Statistics
Matches: 659, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
659 659 1.00
ACGTcount: A:0.38, C:0.13, G:0.07, T:0.41
Consensus pattern (659 bp):
CATTTTTAGAGAATTAAATCAAAATTTTATATTTTTTAGGGCCAAAGTACAATTTTACCATTACC
ATTACCAATTTAAAATTTTATAAATTATAAAGAGTCTAAATAGAAAATTTTCTATTTTAGGAGGA
CCGGGGCCCCTACCAGCCCCCCTCAACTTCGCCACTTCTAGACAACATCATATACTTTCCCTAAA
ATAACAAAAAAAAAATCTTTATATTTATATTATATTTATATTTTAATATTTGGGTTCGTAGATCA
AAATAAACTTTAATTATCAATTTACACATATTAAATAAAATTTCATTTGAAATAAAAATTTATTT
CAACCAAACAAATATGAAATTTTATTTTAATATAATATTAATATAATAGCTTATTTTAAAATGAA
ATAATTCATTTTTAAATATTATATCTTTTTTCTATTGGTTACATTATTTCTAATAATCTATATTT
GTACTATTATTTAAATTGATATAACAAATCAATCAAGTACCAATTTAGTTGAGAAATTATCAAAT
GACCAAATTTTTTATCATGCTAACACAACCAAAATCTGATTTTTCTTTCAAAAGAATTATTGTTT
AATTTTTTGTATACAAGAAACCGATGTTCATTTATGTTCGCTTTATGATTATTTTTTTAATTTTT
TACATTCAC
Found at i:24144429 original size:19 final size:18
Alignment explanation
Indices: 24144387--24144429 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
24144377 TCATGCTTTC
*
24144387 TATTCACATTTTCATATT
1 TATTCACATTTTCAAATT
24144405 TAATTCACATTTTCAAATT
1 T-ATTCACATTTTCAAATT
24144424 ATATTC
1 -TATTC
24144430 CACTTAGTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 20 0.91
20 1 0.05
ACGTcount: A:0.33, C:0.16, G:0.00, T:0.51
Consensus pattern (18 bp):
TATTCACATTTTCAAATT
Found at i:24149565 original size:19 final size:18
Alignment explanation
Indices: 24149523--24149565 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
24149513 TCATGCTTTC
*
24149523 TATTCACATTTTCATATT
1 TATTCACATTTTCAAATT
24149541 TAATTCACATTTTCAAATT
1 T-ATTCACATTTTCAAATT
24149560 ATATTC
1 -TATTC
24149566 CACTTAGTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 20 0.91
20 1 0.05
ACGTcount: A:0.33, C:0.16, G:0.00, T:0.51
Consensus pattern (18 bp):
TATTCACATTTTCAAATT
Found at i:24149692 original size:44 final size:44
Alignment explanation
Indices: 24149629--24149716 Score: 142
Period size: 44 Copynumber: 2.0 Consensus size: 44
24149619 ACACTTCGGA
24149629 ATAATAACAGATACACGGTGGAATCAGCACATAACAACCACCTT
1 ATAATAACAGATACACGGTGGAATCAGCACATAACAACCACCTT
* *
24149673 ATAATAA-ATGATACTCGGTGGAATCATCACATAACAACCACCTT
1 ATAATAACA-GATACACGGTGGAATCAGCACATAACAACCACCTT
24149717 TATAGTCAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
43 1 0.02
44 40 0.98
ACGTcount: A:0.42, C:0.24, G:0.12, T:0.22
Consensus pattern (44 bp):
ATAATAACAGATACACGGTGGAATCAGCACATAACAACCACCTT
Found at i:24151785 original size:29 final size:27
Alignment explanation
Indices: 24151741--24151794 Score: 72
Period size: 29 Copynumber: 1.9 Consensus size: 27
24151731 AAATAATAAA
*
24151741 AAATTAATTATGAAAATAGGATATATTAT
1 AAATTAATTAT-AAAA-ATGATATATTAT
*
24151770 AAATTATTTATAAAAATGATATATT
1 AAATTAATTATAAAAATGATATATT
24151795 TTTTAAGATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 9 0.39
28 4 0.17
29 10 0.43
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (27 bp):
AAATTAATTATAAAAATGATATATTAT
Found at i:24154764 original size:19 final size:18
Alignment explanation
Indices: 24154722--24154764 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
24154712 TCATGCTTTC
*
24154722 TATTCACATTTTCATATT
1 TATTCACATTTTCAAATT
24154740 TAATTCACATTTTCAAATT
1 T-ATTCACATTTTCAAATT
24154759 ATATTC
1 -TATTC
24154765 CACTTAGTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 20 0.91
20 1 0.05
ACGTcount: A:0.33, C:0.16, G:0.00, T:0.51
Consensus pattern (18 bp):
TATTCACATTTTCAAATT
Found at i:24154891 original size:44 final size:44
Alignment explanation
Indices: 24154828--24154915 Score: 142
Period size: 44 Copynumber: 2.0 Consensus size: 44
24154818 ACACTTCGGA
24154828 ATAATAACAGATACACGGTGGAATCAGCACATAACAACCACCTT
1 ATAATAACAGATACACGGTGGAATCAGCACATAACAACCACCTT
* *
24154872 ATAATAA-ATGATACTCGGTGGAATCATCACATAACAACCACCTT
1 ATAATAACA-GATACACGGTGGAATCAGCACATAACAACCACCTT
24154916 TATAGTCAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
43 1 0.02
44 40 0.98
ACGTcount: A:0.42, C:0.24, G:0.12, T:0.22
Consensus pattern (44 bp):
ATAATAACAGATACACGGTGGAATCAGCACATAACAACCACCTT
Found at i:24155706 original size:54 final size:53
Alignment explanation
Indices: 24155624--24155731 Score: 207
Period size: 54 Copynumber: 2.0 Consensus size: 53
24155614 TTCATGCATG
24155624 CATATCACTTTTACACTTTTCGCATAATGTTTTTACATGCTTTACAATTTAATT
1 CATATCACTTTTACACTTTTCGCATAATGTTTTT-CATGCTTTACAATTTAATT
24155678 CATATCACTTTTACACTTTTCGCATAATGTTTTTCATGCTTTACAATTTAATT
1 CATATCACTTTTACACTTTTCGCATAATGTTTTTCATGCTTTACAATTTAATT
24155731 C
1 C
24155732 TTGTACCAAT
Statistics
Matches: 54, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
53 20 0.37
54 34 0.63
ACGTcount: A:0.27, C:0.19, G:0.06, T:0.48
Consensus pattern (53 bp):
CATATCACTTTTACACTTTTCGCATAATGTTTTTCATGCTTTACAATTTAATT
Found at i:24167437 original size:303 final size:304
Alignment explanation
Indices: 24166879--24167486 Score: 1047
Period size: 303 Copynumber: 2.0 Consensus size: 304
24166869 AGTCAAAATC
* * * *
24166879 GAAACACTAGTGAGCTGCCGTTGGCCAATTTAACTTATATATGTCATTATAACCAGAACCAAAAC
1 GAAACACTAATGAGCTGACGTTGGCCAATTTAACTTATACATGCCATTATAACCAGAACCAAAAC
*
24166944 ATCCAAAACTACCGATAGAATTAATGGATAGTATGATAAACATTCATACATCCATTCAATGCATT
66 ATCCAAAACTACCGATAGAATTAATGGATAGTATGATAAACATTCATACATCCATTCAATACATT
24167009 ATTCCCCTTTTTATCAAATATATCAATGTTTCATCAATTTTCATACAATGAACATTCAAATCATA
131 ATTCCCCTTTTTATCAAATATATCAATGTTTCATCAATTTTCATACAATGAACATTCAAATCATA
* *
24167074 TTCACACCAATAACATACATTTCAAGCATTTAAGAATATAATTTAAGTTACACAAACTTACCAGG
196 TTCACACCAATAACATACATTTCAAGCATTTAAGAATATAATTCAAGTTACACAAACTTACCAGA
* *
24167139 CTAAATTGCAGAAATATC-AAAATTCAGGGACATTTTGGTAATT
261 CTAAATTGCAGAAATACCAAAAATTCAGGGACATTTTGATAATT
* *
24167182 GAAACATTAATGAGCTGACGTTTGCCAATTTAACTTATACATGCCATTATAACCAGAACCAAAAC
1 GAAACACTAATGAGCTGACGTTGGCCAATTTAACTTATACATGCCATTATAACCAGAACCAAAAC
* * *
24167247 ATCCAAAACTACCGATAGAATTAATGGATAGTGTGATAAACATTCGTACATTCATTCAATACATT
66 ATCCAAAACTACCGATAGAATTAATGGATAGTATGATAAACATTCATACATCCATTCAATACATT
*
24167312 ATTCCCCTTTTTATCAAATATATCAATGTTTCATTAATTTTCATACAATGAACATTCAAATCATA
131 ATTCCCCTTTTTATCAAATATATCAATGTTTCATCAATTTTCATACAATGAACATTCAAATCATA
* *
24167377 TTCACACCAATAACATACATTTCAAGCATTTAAGAATATAATTCAAGTTCCACGAACTTACCAGA
196 TTCACACCAATAACATACATTTCAAGCATTTAAGAATATAATTCAAGTTACACAAACTTACCAGA
24167442 CTAAATTGCAGAAATACCAAAAAATTCAGGGACATTTTGATAATT
261 CTAAATTGCAGAAATACC-AAAAATTCAGGGACATTTTGATAATT
24167487 TTCTATTTTC
Statistics
Matches: 286, Mismatches: 17, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
303 262 0.92
305 24 0.08
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (304 bp):
GAAACACTAATGAGCTGACGTTGGCCAATTTAACTTATACATGCCATTATAACCAGAACCAAAAC
ATCCAAAACTACCGATAGAATTAATGGATAGTATGATAAACATTCATACATCCATTCAATACATT
ATTCCCCTTTTTATCAAATATATCAATGTTTCATCAATTTTCATACAATGAACATTCAAATCATA
TTCACACCAATAACATACATTTCAAGCATTTAAGAATATAATTCAAGTTACACAAACTTACCAGA
CTAAATTGCAGAAATACCAAAAATTCAGGGACATTTTGATAATT
Found at i:24168680 original size:352 final size:352
Alignment explanation
Indices: 24168036--24168741 Score: 1367
Period size: 352 Copynumber: 2.0 Consensus size: 352
24168026 AATAAGTACA
24168036 GTTTATTTTTTAAATTCATCTCTATTCTGCTGCCTCACAACTTTGACCCTTCTTCACTAAAAAAA
1 GTTTATTTTTTAAATTCATCTCTATTCTGCTGCCTCACAACTTTGACCCTTCTTCACTAAAAAAA
24168101 AATTATCTTCTCGTACAGAATTCATAATGTTCCTATTCTTTTCTATTGAAAATATACTTTTTCAT
66 AATTATCTTCTCGTACAGAATTCATAATGTTCCTATTCTTTTCTATTGAAAATATACTTTTTCAT
24168166 ACATATAAATTTAAGCCCCTAATCATTTTTCTCCAATTTTTTATGATTTTCCAAATTCCGAACAG
131 ACATATAAATTTAAGCCCCTAATCATTTTTCTCCAATTTTTTATGATTTTCCAAATTCCGAACAG
24168231 GGGAACCCGAAATCATTTTGACCTTATCTCACAAAATTTATTATAACTCGTGATTTAAAATTCCA
196 GGGAACCCGAAATCATTTTGACCTTATCTCACAAAATTTATTATAACTCGTGATTTAAAATTCCA
* * *
24168296 TTACTTACAGTGTTTCTTTTATGAAAAACTAGACTCAATAAGCTTTAATTCAATATTTTGTTCAT
261 TTACTTACACTGTTTCTTTTATGAAAAACTAGACTCAATAAGATTTAATTCAATATTTTATTCAT
24168361 ACTCTAATTCGATTTCCACAATTTATG
326 ACTCTAATTCGATTTCCACAATTTATG
24168388 GTTTATTTTTTAAATTCATCTCTATTCTGCTGCCTCACAACTTTGACCCTTCTTCACTAAAAAAA
1 GTTTATTTTTTAAATTCATCTCTATTCTGCTGCCTCACAACTTTGACCCTTCTTCACTAAAAAAA
24168453 AATTATCTTCTCGTACAGAATTCATAATGTTCCTATTCTTTTCTATTGAAAATATACTTTTTCAT
66 AATTATCTTCTCGTACAGAATTCATAATGTTCCTATTCTTTTCTATTGAAAATATACTTTTTCAT
24168518 ACATATAAATTTAAGCCCCTAATCATTTTTCTCCAATTTTTTATGATTTTCCAAATTCCGAACAG
131 ACATATAAATTTAAGCCCCTAATCATTTTTCTCCAATTTTTTATGATTTTCCAAATTCCGAACAG
24168583 GGGAACCCGAAATCATTTTGACCTTATCTCACAAAATTTATTATAACTCGTGATTTAAAATTCCA
196 GGGAACCCGAAATCATTTTGACCTTATCTCACAAAATTTATTATAACTCGTGATTTAAAATTCCA
24168648 TTACTTACACTGTTTCTTTTATGAAAAACTAGACTCAATAAGATTTAATTCAATATTTTATTCAT
261 TTACTTACACTGTTTCTTTTATGAAAAACTAGACTCAATAAGATTTAATTCAATATTTTATTCAT
* *
24168713 GCTCTAATTTGATTTCCACAATTTATG
326 ACTCTAATTCGATTTCCACAATTTATG
24168740 GT
1 GT
24168742 GAATTTTCAA
Statistics
Matches: 349, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
352 349 1.00
ACGTcount: A:0.31, C:0.19, G:0.08, T:0.42
Consensus pattern (352 bp):
GTTTATTTTTTAAATTCATCTCTATTCTGCTGCCTCACAACTTTGACCCTTCTTCACTAAAAAAA
AATTATCTTCTCGTACAGAATTCATAATGTTCCTATTCTTTTCTATTGAAAATATACTTTTTCAT
ACATATAAATTTAAGCCCCTAATCATTTTTCTCCAATTTTTTATGATTTTCCAAATTCCGAACAG
GGGAACCCGAAATCATTTTGACCTTATCTCACAAAATTTATTATAACTCGTGATTTAAAATTCCA
TTACTTACACTGTTTCTTTTATGAAAAACTAGACTCAATAAGATTTAATTCAATATTTTATTCAT
ACTCTAATTCGATTTCCACAATTTATG
Found at i:24170282 original size:30 final size:31
Alignment explanation
Indices: 24170234--24170292 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
24170224 TACCCTTAAA
*
24170234 ATATTTACACTATTAACCCTTCAAATTTTTT
1 ATATTTACACTATTAACCCCTCAAATTTTTT
*
24170265 ATATTTACA-TTTTAACCCCTCAAATTTT
1 ATATTTACACTATTAACCCCTCAAATTTT
24170293 GAGTATTTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 17 0.65
31 9 0.35
ACGTcount: A:0.32, C:0.20, G:0.00, T:0.47
Consensus pattern (31 bp):
ATATTTACACTATTAACCCCTCAAATTTTTT
Found at i:24170300 original size:30 final size:31
Alignment explanation
Indices: 24170234--24170302 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 31
24170224 TACCCTTAAA
* *
24170234 ATATTTACACTATTAACCCTTCAAATTTTTT
1 ATATTTACACTATTAACCCCTCAAATTTTTG
*
24170265 ATATTTACA-TTTTAACCCCTCAAA-TTTTG
1 ATATTTACACTATTAACCCCTCAAATTTTTG
24170294 AGTATTTAC
1 A-TATTTAC
24170303 TCTTGGGCCA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 5 0.15
30 20 0.59
31 9 0.26
ACGTcount: A:0.32, C:0.19, G:0.03, T:0.46
Consensus pattern (31 bp):
ATATTTACACTATTAACCCCTCAAATTTTTG
Found at i:24183699 original size:13 final size:13
Alignment explanation
Indices: 24183681--24183832 Score: 90
Period size: 13 Copynumber: 11.1 Consensus size: 13
24183671 AGTTTAGCAT
*
24183681 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
*
24183694 TGCTTTTAAAAAG
1 TGCTTTTGAAAAG
* *
24183707 TGCTTTCGAAAAT
1 TGCTTTTGAAAAG
*
24183720 TGATTTTGAGAAAGAAG
1 TGCTTTT--G-AA-AAG
*
24183737 TGCTTTTAAAAAG
1 TGCTTTTGAAAAG
*
24183750 TG-TTTTCGAAAAA
1 TGCTTTT-GAAAAG
*
24183763 TGATTTTGAGAAAGAAG
1 TGCTTTT--G-AA-AAG
* *
24183780 TACTTTTAAAAAG
1 TGCTTTTGAAAAG
*
24183793 TGCTTTTGAAAAA
1 TGCTTTTGAAAAG
* *
24183806 TGATTTTGAGAAG
1 TGCTTTTGAAAAG
*
24183819 TACTTTTGAAAAG
1 TGCTTTTGAAAAG
24183832 T
1 T
24183833 TTGGTTTAAG
Statistics
Matches: 104, Mismatches: 26, Indels: 18
0.70 0.18 0.12
Matches are distributed among these distances:
12 4 0.04
13 71 0.68
14 8 0.08
15 2 0.02
16 4 0.04
17 15 0.14
ACGTcount: A:0.37, C:0.06, G:0.20, T:0.37
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:24183741 original size:43 final size:43
Alignment explanation
Indices: 24183689--24183817 Score: 222
Period size: 43 Copynumber: 3.0 Consensus size: 43
24183679 ATTGCTTTTG
*
24183689 AGAAGTGCTTTTAAAAAGTGCTTTCGAAAATTGATTTTGAGAA
1 AGAAGTGCTTTTAAAAAGTGCTTTCGAAAAATGATTTTGAGAA
*
24183732 AGAAGTGCTTTTAAAAAGTGTTTTCGAAAAATGATTTTGAGAA
1 AGAAGTGCTTTTAAAAAGTGCTTTCGAAAAATGATTTTGAGAA
* *
24183775 AGAAGTACTTTTAAAAAGTGCTTTTGAAAAATGATTTTGAGAA
1 AGAAGTGCTTTTAAAAAGTGCTTTCGAAAAATGATTTTGAGAA
24183818 GTACTTTTGA
Statistics
Matches: 81, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 81 1.00
ACGTcount: A:0.40, C:0.05, G:0.20, T:0.35
Consensus pattern (43 bp):
AGAAGTGCTTTTAAAAAGTGCTTTCGAAAAATGATTTTGAGAA
Found at i:24183878 original size:13 final size:13
Alignment explanation
Indices: 24183860--24183934 Score: 51
Period size: 13 Copynumber: 5.5 Consensus size: 13
24183850 TGTTTAGCAT
* *
24183860 TGCTTTTGAGAAG
1 TGCTTTTAAAAAG
24183873 TGCTTTTAAAAAG
1 TGCTTTTAAAAAG
* *
24183886 TGCTTTCAAAAAA
1 TGCTTTTAAAAAG
**
24183899 TAATTTTGAGAAAGAAG
1 TGCTTTT---AAA-AAG
*
24183916 TGTTTTTAAAAAG
1 TGCTTTTAAAAAG
24183929 TGCTTT
1 TGCTTT
24183935 CGAAAAAAAA
Statistics
Matches: 47, Mismatches: 11, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
13 34 0.72
14 3 0.06
16 3 0.06
17 7 0.15
ACGTcount: A:0.36, C:0.07, G:0.19, T:0.39
Consensus pattern (13 bp):
TGCTTTTAAAAAG
Found at i:24183923 original size:43 final size:43
Alignment explanation
Indices: 24183868--24184039 Score: 247
Period size: 43 Copynumber: 4.0 Consensus size: 43
24183858 ATTGCTTTTG
24183868 AGAAGTGCTTTTAAAAAGTGCTTTCAAAAAATAATTTTGAGAA
1 AGAAGTGCTTTTAAAAAGTGCTTTCAAAAAATAATTTTGAGAA
*
24183911 AGAAGTGTTTTTAAAAAGTGCTTTCGAAAAAA-AATTTTGAGAA
1 AGAAGTGCTTTTAAAAAGTGCTTTC-AAAAAATAATTTTGAGAA
* *
24183954 AGAAGTGCTTTTAAAAAGTGCTTTCGAAAAATGATTTTGAGAA
1 AGAAGTGCTTTTAAAAAGTGCTTTCAAAAAATAATTTTGAGAA
* * * ** *
24183997 AGAAGTTCTTGTAAAAAATGCTTTTGAAAAATGATTTTGAGAA
1 AGAAGTGCTTTTAAAAAGTGCTTTCAAAAAATAATTTTGAGAA
24184040 GTACTTTTGA
Statistics
Matches: 119, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
42 5 0.04
43 108 0.91
44 6 0.05
ACGTcount: A:0.42, C:0.06, G:0.19, T:0.33
Consensus pattern (43 bp):
AGAAGTGCTTTTAAAAAGTGCTTTCAAAAAATAATTTTGAGAA
Found at i:24183972 original size:179 final size:179
Alignment explanation
Indices: 24183672--24183996 Score: 569
Period size: 179 Copynumber: 1.8 Consensus size: 179
24183662 CTTAGGGTTA
* * *
24183672 GTTTAGCATTGCTTTTGAGAAGTGCTTTTAAAAAGTGCTTTCGAAAATTGATTTTGAGAAAGAAG
1 GTTTAGCATTGCTTTTGAGAAGTGCTTTTAAAAAGTGCTTTCAAAAAATAATTTTGAGAAAGAAG
* ** *
24183737 TGCTTTTAAAAAGTGTTTTCGAAAAATGATTTTGAGAAAGAAGTACTTTTAAAAAGTGCTTTTGA
66 TGCTTTTAAAAAGTGCTTTCGAAAAAAAATTTTGAGAAAGAAGTACTTTTAAAAAGTGCTTTCGA
24183802 AAAATGATTTTGAGAAGTACTTTTGAAAAGTTTGGTTTAAGATTTGAGT
131 AAAATGATTTTGAGAAGTACTTTTGAAAAGTTTGGTTTAAGATTTGAGT
24183851 GTTTAGCATTGCTTTTGAGAAGTGCTTTTAAAAAGTGCTTTCAAAAAATAATTTTGAGAAAGAAG
1 GTTTAGCATTGCTTTTGAGAAGTGCTTTTAAAAAGTGCTTTCAAAAAATAATTTTGAGAAAGAAG
* *
24183916 TGTTTTTAAAAAGTGCTTTCGAAAAAAAATTTTGAGAAAGAAGTGCTTTTAAAAAGTGCTTTCGA
66 TGCTTTTAAAAAGTGCTTTCGAAAAAAAATTTTGAGAAAGAAGTACTTTTAAAAAGTGCTTTCGA
24183981 AAAATGATTTTGAGAA
131 AAAATGATTTTGAGAA
24183997 AGAAGTTCTT
Statistics
Matches: 137, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
179 137 1.00
ACGTcount: A:0.37, C:0.06, G:0.20, T:0.37
Consensus pattern (179 bp):
GTTTAGCATTGCTTTTGAGAAGTGCTTTTAAAAAGTGCTTTCAAAAAATAATTTTGAGAAAGAAG
TGCTTTTAAAAAGTGCTTTCGAAAAAAAATTTTGAGAAAGAAGTACTTTTAAAAAGTGCTTTCGA
AAAATGATTTTGAGAAGTACTTTTGAAAAGTTTGGTTTAAGATTTGAGT
Found at i:24184028 original size:13 final size:13
Alignment explanation
Indices: 24183959--24184052 Score: 57
Period size: 13 Copynumber: 6.9 Consensus size: 13
24183949 GAGAAAGAAG
24183959 TGCTTTT-AAAAA
1 TGCTTTTGAAAAA
*
24183971 GTGCTTTCGAAAAA
1 -TGCTTTTGAAAAA
*
24183985 TGATTTTGAGAAAGA
1 TGCTTTTGA-AAA-A
*
24184000 AG-TTCTTGTAAAAAA
1 TGCTT-TTG--AAAAA
24184015 TGCTTTTGAAAAA
1 TGCTTTTGAAAAA
* * *
24184028 TGATTTTGAGAAG
1 TGCTTTTGAAAAA
*
24184041 TACTTTTGAAAA
1 TGCTTTTGAAAA
24184053 GTTTGGTTTA
Statistics
Matches: 63, Mismatches: 11, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
13 37 0.59
14 10 0.16
15 10 0.16
16 5 0.08
17 1 0.02
ACGTcount: A:0.39, C:0.06, G:0.18, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAA
Found at i:24184098 original size:222 final size:222
Alignment explanation
Indices: 24183689--24184100 Score: 707
Period size: 222 Copynumber: 1.9 Consensus size: 222
24183679 ATTGCTTTTG
*** *
24183689 AGAAGTGCTTTTAAAAAGTGCTTTCGAAAATTGATTTTGAGAAAGAAGTGCTTTTAAAAAGTGTT
1 AGAAGTGCTTTTAAAAAGTGCTTTCGAAAAAAAATTTTGAGAAAGAAGTGCTTTTAAAAAGTGCT
* *
24183754 TTCGAAAAATGATTTTGAGAAAGAAGTACTTTTAAAAAGTGCTTTTGAAAAATGATTTTGAGAAG
66 TTCGAAAAATGATTTTGAGAAAGAAGTACTTGTAAAAAATGCTTTTGAAAAATGATTTTGAGAAG
* * ** *
24183819 TACTTTTGAAAAGTTTGGTTTAAGATTTGAGTGTTTAGCATTGCTTTTGAGAAGTGCTTTTAAAA
131 TACTTTTGAAAAGTTTGGTTTAAGATTTGAGTATTTAGCATTGCTATCAAAAAGTGCTTTTAAAA
24183884 AGTGCTTTCAAAAAATAATTTTGAGAA
196 AGTGCTTTCAAAAAATAATTTTGAGAA
*
24183911 AGAAGTGTTTTTAAAAAGTGCTTTCGAAAAAAAATTTTGAGAAAGAAGTGCTTTTAAAAAGTGCT
1 AGAAGTGCTTTTAAAAAGTGCTTTCGAAAAAAAATTTTGAGAAAGAAGTGCTTTTAAAAAGTGCT
*
24183976 TTCGAAAAATGATTTTGAGAAAGAAGTTCTTGTAAAAAATGCTTTTGAAAAATGATTTTGAGAAG
66 TTCGAAAAATGATTTTGAGAAAGAAGTACTTGTAAAAAATGCTTTTGAAAAATGATTTTGAGAAG
24184041 TACTTTTGAAAAGTTTGGTTTAAGATTTGAGTATTTAGCATTGCTATCAAAAAGTGCTTT
131 TACTTTTGAAAAGTTTGGTTTAAGATTTGAGTATTTAGCATTGCTATCAAAAAGTGCTTT
24184101 GAGGAATAAA
Statistics
Matches: 177, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
222 177 1.00
ACGTcount: A:0.37, C:0.06, G:0.20, T:0.37
Consensus pattern (222 bp):
AGAAGTGCTTTTAAAAAGTGCTTTCGAAAAAAAATTTTGAGAAAGAAGTGCTTTTAAAAAGTGCT
TTCGAAAAATGATTTTGAGAAAGAAGTACTTGTAAAAAATGCTTTTGAAAAATGATTTTGAGAAG
TACTTTTGAAAAGTTTGGTTTAAGATTTGAGTATTTAGCATTGCTATCAAAAAGTGCTTTTAAAA
AGTGCTTTCAAAAAATAATTTTGAGAA
Found at i:24184396 original size:21 final size:22
Alignment explanation
Indices: 24184372--24184419 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
24184362 ATATTAACAC
24184372 ATTTTTCTTA-TTTTAA-AAATA
1 ATTTTT-TTATTTTTAATAAATA
*
24184393 ATTTTTTTATTTTTAATTAATA
1 ATTTTTTTATTTTTAATAAATA
24184415 ATTTT
1 ATTTT
24184420 AACACATTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 3 0.12
21 12 0.50
22 9 0.38
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (22 bp):
ATTTTTTTATTTTTAATAAATA
Found at i:24189895 original size:31 final size:29
Alignment explanation
Indices: 24189857--24189918 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
24189847 GTTAATGATC
24189857 AAATTACATATCCCAAAATAATTTGTTGCCA
1 AAATTACA-A-CCCAAAATAATTTGTTGCCA
* *
24189888 AAATTACAACTCAAGATAATTTGTTGCCA
1 AAATTACAACCCAAAATAATTTGTTGCCA
24189917 AA
1 AA
24189919 TTTTGCCAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 20 0.69
30 1 0.03
31 8 0.28
ACGTcount: A:0.44, C:0.18, G:0.08, T:0.31
Consensus pattern (29 bp):
AAATTACAACCCAAAATAATTTGTTGCCA
Found at i:24195260 original size:7 final size:8
Alignment explanation
Indices: 24195232--24195258 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
24195222 CTCTTTCAAG
24195232 TTTTGTTT
1 TTTTGTTT
24195240 TTTTGTTT
1 TTTTGTTT
24195248 TTTTGTTT
1 TTTTGTTT
24195256 TTT
1 TTT
24195259 GTAGAGGCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (8 bp):
TTTTGTTT
Found at i:24203180 original size:12 final size:12
Alignment explanation
Indices: 24203163--24203188 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
24203153 TATTTCTCCA
24203163 GAAAGTTGTACG
1 GAAAGTTGTACG
24203175 GAAAGTTGTACG
1 GAAAGTTGTACG
24203187 GA
1 GA
24203189 CCGAGACAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.35, T:0.23
Consensus pattern (12 bp):
GAAAGTTGTACG
Found at i:24215886 original size:13 final size:12
Alignment explanation
Indices: 24215866--24215891 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
24215856 CGTCATTTTA
24215866 AATTTTTTTGTC
1 AATTTTTTTGTC
24215878 AATTTTTTTGTC
1 AATTTTTTTGTC
24215890 AA
1 AA
24215892 CTTCATATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.08, G:0.08, T:0.62
Consensus pattern (12 bp):
AATTTTTTTGTC
Found at i:24219663 original size:16 final size:15
Alignment explanation
Indices: 24219639--24219689 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 15
24219629 GTTGGGTTAG
24219639 TTTCAAGTTCGAGTCA
1 TTTC-AGTTCGAGTCA
* *
24219655 TTTCGAGTTTGAATCA
1 TTTC-AGTTCGAGTCA
24219671 TTTCATGTTCGAGTCA
1 TTTCA-GTTCGAGTCA
24219687 TTT
1 TTT
24219690 AGGTTTGGTA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
15 1 0.03
16 28 0.97
ACGTcount: A:0.22, C:0.16, G:0.18, T:0.45
Consensus pattern (15 bp):
TTTCAGTTCGAGTCA
Found at i:24219897 original size:19 final size:19
Alignment explanation
Indices: 24219851--24219901 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 19
24219841 TTATTTTTAA
24219851 AATAAAATTATATTAAAGTG
1 AATAAAATTAT-TTAAAGTG
24219871 AA-ACAAATTATTTAAA-TG
1 AATA-AAATTATTTAAAGTG
24219889 AGATAAAATTATT
1 A-ATAAAATTATT
24219902 ATCAATTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
18 3 0.11
19 15 0.54
20 10 0.36
ACGTcount: A:0.55, C:0.02, G:0.08, T:0.35
Consensus pattern (19 bp):
AATAAAATTATTTAAAGTG
Found at i:24226452 original size:23 final size:24
Alignment explanation
Indices: 24226424--24226477 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 24
24226414 AAAACTTTCT
24226424 AAAATTATATTA-TAAATCCTAAA
1 AAAATTATATTATTAAATCCTAAA
*
24226447 AAAATTATATTATTTAAATCTTAAA
1 AAAATTATATTA-TTAAATCCTAAA
24226472 AAAATT
1 AAAATT
24226478 CTAAAATTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
23 12 0.43
25 16 0.57
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.39
Consensus pattern (24 bp):
AAAATTATATTATTAAATCCTAAA
Found at i:24230037 original size:1 final size:1
Alignment explanation
Indices: 24230031--24230082 Score: 104
Period size: 1 Copynumber: 52.0 Consensus size: 1
24230021 CAACAACAAC
24230031 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
24230083 GAAGAAACTT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 51 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:24231605 original size:21 final size:21
Alignment explanation
Indices: 24231581--24231624 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
24231571 TTACAAACAC
*
24231581 AAAATTACAATATTCATATAA
1 AAAATTACAATATTCATACAA
24231602 AAAATTACAATATTCATACAA
1 AAAATTACAATATTCATACAA
24231623 AA
1 AA
24231625 TACTAATCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (21 bp):
AAAATTACAATATTCATACAA
Found at i:24231677 original size:19 final size:19
Alignment explanation
Indices: 24231658--24231695 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
24231648 AAATTTAATT
24231658 ATAAAATAATTACAATATTA
1 ATAAAA-AATTACAATATTA
*
24231678 ATACAAAATTACAATATT
1 ATAAAAAATTACAATATT
24231696 CATTGGCGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (19 bp):
ATAAAAAATTACAATATTA
Found at i:24231732 original size:27 final size:27
Alignment explanation
Indices: 24231694--24231760 Score: 125
Period size: 27 Copynumber: 2.5 Consensus size: 27
24231684 AATTACAATA
24231694 TTCATTGGCGCCTCTCTATGAGGCACC
1 TTCATTGGCGCCTCTCTATGAGGCACC
*
24231721 TTCATTGGCGCCTCTCTGTGAGGCACC
1 TTCATTGGCGCCTCTCTATGAGGCACC
24231748 TTCATTGGCGCCT
1 TTCATTGGCGCCT
24231761 ACCTAATAGG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.12, C:0.33, G:0.24, T:0.31
Consensus pattern (27 bp):
TTCATTGGCGCCTCTCTATGAGGCACC
Found at i:24231863 original size:17 final size:17
Alignment explanation
Indices: 24231841--24231873 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
24231831 AAAAAAATAT
24231841 AAAAAAATATT-TTATTC
1 AAAAAAA-ATTATTATTC
24231858 AAAAAAAATTATTATT
1 AAAAAAAATTATTATT
24231874 TTTTTATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (17 bp):
AAAAAAAATTATTATTC
Found at i:24236772 original size:19 final size:20
Alignment explanation
Indices: 24236748--24236787 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
24236738 GACTTCAGTC
*
24236748 TGCAGAATAAAG-AATCATA
1 TGCAGAACAAAGCAATCATA
*
24236767 TGCAGACCAAAGCAATCATA
1 TGCAGAACAAAGCAATCATA
24236787 T
1 T
24236788 TCTACCTTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.47, C:0.17, G:0.15, T:0.20
Consensus pattern (20 bp):
TGCAGAACAAAGCAATCATA
Found at i:24247345 original size:25 final size:25
Alignment explanation
Indices: 24247297--24247386 Score: 65
Period size: 25 Copynumber: 3.6 Consensus size: 25
24247287 TCATATTCAT
* *
24247297 GTATGCTCATACGAGTTATGAATCA
1 GTATGCTCATACGAGCTATAAATCA
* *
24247322 GTATGCTCTTACGAGCTGTAAATCGA
1 GTATGCTCATACGAGCTATAAATC-A
* * ** *
24247348 G-AAGTTCATACGAGCTGCAAATTA
1 GTATGCTCATACGAGCTATAAATCA
* *
24247372 GGAAGCTCATACGAG
1 GTATGCTCATACGAG
24247387 TTGTGGTGTG
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
24 2 0.04
25 49 0.92
26 2 0.04
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (25 bp):
GTATGCTCATACGAGCTATAAATCA
Found at i:24249505 original size:16 final size:18
Alignment explanation
Indices: 24249484--24249517 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
24249474 CTTATAGTTT
24249484 CTTTTA-CAATT-TAATC
1 CTTTTATCAATTCTAATC
24249500 CTTTTATCAATTCTAATC
1 CTTTTATCAATTCTAATC
24249518 AAAATTTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 5 0.31
18 5 0.31
ACGTcount: A:0.29, C:0.21, G:0.00, T:0.50
Consensus pattern (18 bp):
CTTTTATCAATTCTAATC
Found at i:24250621 original size:25 final size:25
Alignment explanation
Indices: 24250588--24250637 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
24250578 AAACTTCAAG
24250588 CATATTCATCAATGGAAAAACCCTA
1 CATATTCATCAATGGAAAAACCCTA
24250613 CATATTCATCAATGGAAAAACCCTA
1 CATATTCATCAATGGAAAAACCCTA
24250638 ATACTTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.24, G:0.08, T:0.24
Consensus pattern (25 bp):
CATATTCATCAATGGAAAAACCCTA
Found at i:24251971 original size:16 final size:15
Alignment explanation
Indices: 24251945--24251974 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
24251935 TCAATTAAAT
24251945 AATTAAACAATATTA
1 AATTAAACAATATTA
24251960 AATTAAATCAATATT
1 AATTAAA-CAATATT
24251975 TAGGGTGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (15 bp):
AATTAAACAATATTA
Found at i:24263214 original size:39 final size:40
Alignment explanation
Indices: 24263174--24263307 Score: 166
Period size: 39 Copynumber: 3.4 Consensus size: 40
24263164 GTTCACTTTT
* * *
24263174 AAGCATATATCACATTACAT-ATATAATCGCATAACATTT
1 AAGCATATATCACAATACATCATATAATCACATAACATTC
* **
24263213 AAGCATATATCACAATA-ATCATATAATTACATAATGTTC
1 AAGCATATATCACAATACATCATATAATCACATAACATTC
*
24263252 AAGCACATATCACAATAC-TCATATAATCACATAACATTC
1 AAGCATATATCACAATACATCATATAATCACATAACATTC
* *
24263291 AAGCATATTTCGCAATA
1 AAGCATATATCACAATA
24263308 TTCAAAAACA
Statistics
Matches: 80, Mismatches: 13, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
38 2 0.03
39 78 0.98
ACGTcount: A:0.45, C:0.19, G:0.05, T:0.31
Consensus pattern (40 bp):
AAGCATATATCACAATACATCATATAATCACATAACATTC
Found at i:24265184 original size:21 final size:20
Alignment explanation
Indices: 24265160--24265204 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
24265150 TTATTTAGCC
*
24265160 ATTTTTAATTTTTAATTTAAT
1 ATTTTTAATATTT-ATTTAAT
24265181 ATTTTTAATATTTATTTAAT
1 ATTTTTAATATTTATTTAAT
24265201 -TTTT
1 ATTTT
24265205 GCATTCTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.17
20 7 0.30
21 12 0.52
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (20 bp):
ATTTTTAATATTTATTTAAT
Found at i:24270249 original size:24 final size:24
Alignment explanation
Indices: 24270186--24270249 Score: 71
Period size: 24 Copynumber: 2.8 Consensus size: 24
24270176 TTCTTTTTCT
*
24270186 TTTTATTA-TTTATTT-TATTTAT
1 TTTTATTATTTTATTTATATTTAG
* *
24270208 TTTTATTATATTCA-TTATATTTGG
1 TTTTATTAT-TTTATTTATATTTAG
24270232 TTTTATTATTTTATTTAT
1 TTTTATTATTTTATTTAT
24270250 TATTATCCTT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
22 8 0.24
23 5 0.15
24 21 0.62
ACGTcount: A:0.23, C:0.02, G:0.03, T:0.72
Consensus pattern (24 bp):
TTTTATTATTTTATTTATATTTAG
Found at i:24270345 original size:17 final size:16
Alignment explanation
Indices: 24270318--24270356 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
24270308 TAGTTAGTTG
*
24270318 TTTATTATTTAGTTTA
1 TTTATTATTTAATTTA
*
24270334 TGTTATTCTTTAATTTA
1 T-TTATTATTTAATTTA
24270351 TTTATT
1 TTTATT
24270357 TTAGTATTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.69
Consensus pattern (16 bp):
TTTATTATTTAATTTA
Found at i:24272735 original size:129 final size:130
Alignment explanation
Indices: 24272494--24272752 Score: 493
Period size: 129 Copynumber: 2.0 Consensus size: 130
24272484 ATCCTAACAC
24272494 ATTTTTCTCTAACCTGTTAATGTTAACTCATAACCCATCTGTATGTAAAATTATATTTAACATAA
1 ATTTTTCTCTAACCTGTTAATGTTAACTCATAACCCATCTGTATGTAAAATTATATTTAACATAA
24272559 TATATTTAACCCGTTGATGCTTTTAAAAACAAAATATATTTAACATAATGATATATATATATATA
66 TATATTTAACCCGTTGATGCTTTTAAAAACAAAATATATTTAACATAATGATATATATATATATA
*
24272624 ATTTTTCTGT-ACCTGTTAATGTTAACTCATAACCCATCTGTATGTAAAATTATATTTAACATAA
1 ATTTTTCTCTAACCTGTTAATGTTAACTCATAACCCATCTGTATGTAAAATTATATTTAACATAA
*
24272688 TATATTTAACCCGTTGATGCTTTTAAAAACCAAATATATTTAACATAATGATATATATATATATA
66 TATATTTAACCCGTTGATGCTTTTAAAAACAAAATATATTTAACATAATGATATATATATATATA
24272753 TAATTATTTT
Statistics
Matches: 127, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
129 118 0.93
130 9 0.07
ACGTcount: A:0.39, C:0.13, G:0.07, T:0.41
Consensus pattern (130 bp):
ATTTTTCTCTAACCTGTTAATGTTAACTCATAACCCATCTGTATGTAAAATTATATTTAACATAA
TATATTTAACCCGTTGATGCTTTTAAAAACAAAATATATTTAACATAATGATATATATATATATA
Found at i:24278395 original size:2 final size:2
Alignment explanation
Indices: 24278388--24278416 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
24278378 CGATTTTATC
24278388 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
24278417 GATAGGAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:24281066 original size:72 final size:70
Alignment explanation
Indices: 24280960--24281097 Score: 195
Period size: 72 Copynumber: 1.9 Consensus size: 70
24280950 TTCCTCATTC
*
24280960 TTAAACTCCGATCAACCCTTCCGAACCTCCGCAAAGCCATTTTTCCACTTCTTCAAAATATCTTC
1 TTAAACTCCGATCAACACTTCCGAACCTCCGCAAAGCCA-TTTTCCACTTCTT-AAAATATCTTC
24281025 CCTTTGT
64 CCTTTGT
** * * * *
24281032 TTAAACTTTGATCAACACTTCTGAACCTCTGCAAAGCCATTTTCCATTTCTTAAATTATCTTCCC
1 TTAAACTCCGATCAACACTTCCGAACCTCCGCAAAGCCATTTTCCACTTCTTAAAATATCTTCCC
24281097 T
66 T
24281098 CTATCAGTCC
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
70 13 0.22
71 12 0.20
72 34 0.58
ACGTcount: A:0.26, C:0.31, G:0.07, T:0.36
Consensus pattern (70 bp):
TTAAACTCCGATCAACACTTCCGAACCTCCGCAAAGCCATTTTCCACTTCTTAAAATATCTTCCC
TTTGT
Found at i:24281481 original size:68 final size:65
Alignment explanation
Indices: 24281322--24281484 Score: 202
Period size: 65 Copynumber: 2.5 Consensus size: 65
24281312 AAACGAAATC
* * ** *
24281322 AATATGTCCTA-CTTTGGACAACATAAATCAGCAAATAAAACAGGGCATTAAACAACAACACCAT
1 AATATGT-CTAGCTTTGGACAACATAAATCAACAAACAAAACAAAGCATTAAACAACAACACCAC
24281386 T
65 T
* * **
24281387 AATATGTCTGGCTTTGGACAACATAAATCAACAAACAAAACAAAGCATTAAATAGTTATTACACC
1 AATATGTCTAGCTTTGGACAACATAAATCAACAAACAAAACAAAGCATTAAACA---ACAACACC
24281452 ACT
63 ACT
24281455 AATATGTCTAGCTTTGGACAACATAAATCA
1 AATATGTCTAGCTTTGGACAACATAAATCA
24281485 GCAGCAATGC
Statistics
Matches: 84, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
64 2 0.02
65 45 0.54
68 37 0.44
ACGTcount: A:0.45, C:0.20, G:0.11, T:0.25
Consensus pattern (65 bp):
AATATGTCTAGCTTTGGACAACATAAATCAACAAACAAAACAAAGCATTAAACAACAACACCACT
Found at i:24293023 original size:23 final size:25
Alignment explanation
Indices: 24292989--24293041 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 25
24292979 TAATCAAAGA
24292989 AAAAAAACTTAAATAA-AAAAATAT
1 AAAAAAACTTAAATAATAAAAATAT
* *
24293013 AAAAAAA-TTAACTAATAAAAATTT
1 AAAAAAACTTAAATAATAAAAATAT
24293037 AAAAA
1 AAAAA
24293042 TTAACTCCTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 7 0.27
24 19 0.73
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.23
Consensus pattern (25 bp):
AAAAAAACTTAAATAATAAAAATAT
Found at i:24296869 original size:24 final size:20
Alignment explanation
Indices: 24296818--24296857 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
24296808 CATTTCATTT
24296818 ATGCAATTGCTTTATCCATA
1 ATGCAATTGCTTTATCCATA
24296838 ATGCAATTGCTTTATCCATA
1 ATGCAATTGCTTTATCCATA
24296858 CCATATTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.40
Consensus pattern (20 bp):
ATGCAATTGCTTTATCCATA
Found at i:24297056 original size:40 final size:40
Alignment explanation
Indices: 24297001--24297135 Score: 143
Period size: 40 Copynumber: 3.4 Consensus size: 40
24296991 ACCAGTTTGG
*
24297001 CACCCAGTGCCTCATCGGATAATTTGAAGTAATAAATTGA
1 CACCCAGTGCCTCATCGGATAATATGAAGTAATAAATTGA
* * *
24297041 CACCCAGTGTCTCATCGGTTAA-ACTGAAG---TAAATTGG
1 CACCCAGTGCCTCATCGGATAATA-TGAAGTAATAAATTGA
** *
24297078 CACCCAGTGCCTCATCAAATTAATACGAAGTAATAAATTGA
1 CACCCAGTGCCTCATCGGA-TAATATGAAGTAATAAATTGA
* *
24297119 TACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
24297136 ACTCGACGTC
Statistics
Matches: 76, Mismatches: 13, Indels: 11
0.76 0.13 0.11
Matches are distributed among these distances:
37 22 0.29
38 7 0.09
39 1 0.01
40 25 0.33
41 21 0.28
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (40 bp):
CACCCAGTGCCTCATCGGATAATATGAAGTAATAAATTGA
Found at i:24297994 original size:17 final size:17
Alignment explanation
Indices: 24297970--24298018 Score: 73
Period size: 17 Copynumber: 2.9 Consensus size: 17
24297960 CTTTCTTTTC
24297970 TTTC-TTTCCTTCTCTA
1 TTTCGTTTCCTTCTCTA
*
24297986 TTTCGTTTCCTTCTCTG
1 TTTCGTTTCCTTCTCTA
*
24298003 TTTCGTTTCTTTCTCT
1 TTTCGTTTCCTTCTCT
24298019 CCTTCTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 4 0.13
17 26 0.87
ACGTcount: A:0.02, C:0.29, G:0.06, T:0.63
Consensus pattern (17 bp):
TTTCGTTTCCTTCTCTA
Found at i:24298473 original size:136 final size:133
Alignment explanation
Indices: 24298227--24298495 Score: 430
Period size: 136 Copynumber: 2.0 Consensus size: 133
24298217 TTTAATCTAT
*
24298227 AATTCAACTTTCACCCTTTATACAATTTAATCCTTTTGCCTAATTACTCTTAATTCATGCAATTT
1 AATTCAACTTTCACCCTTTATACAATTTAATCCTTTTACCTAATTACTCTTAATTCATGCAATTT
*
24298292 CACCTAACCAAAACCTAATTAACTACACAAATAACTTCGTAAATATTTTTAGTAAATATTTACGA
66 CACCTAACCAAAACCTAATTAACTACACAAATAACTTCGTAAATATTTTTAATAAATATTTACGA
24298357 GTC
131 GTC
* * * * *
24298360 AATTCAACTTTCACCTTTTATACAATTTAGTCTTTTTTTTACGTAGTTACTCTTAATTCATGCAA
1 AATTCAACTTTCACCCTTTATACAATTTAATC---CTTTTACCTAATTACTCTTAATTCATGCAA
* *
24298425 TTTCACCTAACCAAAACCTAATTAACTACACAACTAACTTCGTCAATATTTTTAATAAATATTTA
63 TTTCACCTAACCAAAACCTAATTAACTACACAAATAACTTCGTAAATATTTTTAATAAATATTTA
24298490 CGAGTC
128 CGAGTC
24298496 TGATTTACGG
Statistics
Matches: 124, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
133 30 0.24
136 94 0.76
ACGTcount: A:0.35, C:0.21, G:0.05, T:0.39
Consensus pattern (133 bp):
AATTCAACTTTCACCCTTTATACAATTTAATCCTTTTACCTAATTACTCTTAATTCATGCAATTT
CACCTAACCAAAACCTAATTAACTACACAAATAACTTCGTAAATATTTTTAATAAATATTTACGA
GTC
Found at i:24300120 original size:15 final size:15
Alignment explanation
Indices: 24300102--24300136 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
24300092 GGTTTAAATC
*
24300102 TTAATTCATTAAACA
1 TTAATTAATTAAACA
24300117 TTAATTAATTAAACA
1 TTAATTAATTAAACA
24300132 TTAAT
1 TTAAT
24300137 CAAAATTAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.43
Consensus pattern (15 bp):
TTAATTAATTAAACA
Found at i:24306145 original size:12 final size:12
Alignment explanation
Indices: 24306128--24306154 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
24306118 GATTCTTATT
24306128 TGGTTAAAGAAG
1 TGGTTAAAGAAG
24306140 TGGTTAAAGAAG
1 TGGTTAAAGAAG
24306152 TGG
1 TGG
24306155 AAGATTACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.00, G:0.37, T:0.26
Consensus pattern (12 bp):
TGGTTAAAGAAG
Found at i:24309783 original size:6 final size:6
Alignment explanation
Indices: 24309772--24309807 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
24309762 ACTATGCTAT
24309772 GTTGGG GTTGGG GTTGGG GTTGGG GTTGGG GTTGGG
1 GTTGGG GTTGGG GTTGGG GTTGGG GTTGGG GTTGGG
24309808 CCATGGTACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.67, T:0.33
Consensus pattern (6 bp):
GTTGGG
Found at i:24312431 original size:49 final size:49
Alignment explanation
Indices: 24312355--24312449 Score: 181
Period size: 49 Copynumber: 1.9 Consensus size: 49
24312345 AGTCAATTCA
24312355 TCGGGCACACTTTTGGACCAGCACCCTAAGCATTGCTTGCAAACCCGCC
1 TCGGGCACACTTTTGGACCAGCACCCTAAGCATTGCTTGCAAACCCGCC
*
24312404 TCGGGCACACTTTTGGACCAGCTCCCTAAGCATTGCTTGCAAACCC
1 TCGGGCACACTTTTGGACCAGCACCCTAAGCATTGCTTGCAAACCC
24312450 ATGCGAGCTG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.22, C:0.36, G:0.20, T:0.22
Consensus pattern (49 bp):
TCGGGCACACTTTTGGACCAGCACCCTAAGCATTGCTTGCAAACCCGCC
Found at i:24312535 original size:20 final size:20
Alignment explanation
Indices: 24312512--24312550 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
24312502 TCCAGCTCGC
24312512 TCGAGCTCAAGTCAGCTCAT
1 TCGAGCTCAAGTCAGCTCAT
* * *
24312532 TCGAGTTGAATTCAGCTCA
1 TCGAGCTCAAGTCAGCTCA
24312551 ACCTCAACCC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.28
Consensus pattern (20 bp):
TCGAGCTCAAGTCAGCTCAT
Found at i:24317753 original size:12 final size:12
Alignment explanation
Indices: 24317738--24317774 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
24317728 AAAAAAAATC
*
24317738 AAAATTTAAAAA
1 AAAATTGAAAAA
24317750 AAAATTGAAAAA
1 AAAATTGAAAAA
24317762 AAAA--GAAAAA
1 AAAATTGAAAAA
24317772 AAA
1 AAA
24317775 GTGAGCAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 9 0.38
12 15 0.62
ACGTcount: A:0.81, C:0.00, G:0.05, T:0.14
Consensus pattern (12 bp):
AAAATTGAAAAA
Found at i:24317770 original size:21 final size:22
Alignment explanation
Indices: 24317746--24317788 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
24317736 TCAAAATTTA
*
24317746 AAAAAAAATTGA-AAAAAAAAG
1 AAAAAAAAGTGACAAAAAAAAG
24317767 AAAAAAAAGTGAGCAAAAAAAA
1 AAAAAAAAGTGA-CAAAAAAAA
24317789 AGAGTAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 11 0.58
23 8 0.42
ACGTcount: A:0.79, C:0.02, G:0.12, T:0.07
Consensus pattern (22 bp):
AAAAAAAAGTGACAAAAAAAAG
Found at i:24317812 original size:14 final size:13
Alignment explanation
Indices: 24317744--24317804 Score: 56
Period size: 13 Copynumber: 4.9 Consensus size: 13
24317734 AATCAAAATT
**
24317744 TAAAAAAAAATTG
1 TAAAAAAAAAGAG
24317757 -AAAAAAAAAGA-
1 TAAAAAAAAAGAG
**
24317768 -AAAAAAAGTGAG
1 TAAAAAAAAAGAG
*
24317780 CAAAAAAAAAGAG
1 TAAAAAAAAAGAG
24317793 TAAAAAAAAAGA
1 TAAAAAAAAAGA
24317805 AGTGAAAAGT
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
11 9 0.23
12 9 0.23
13 21 0.54
ACGTcount: A:0.77, C:0.02, G:0.13, T:0.08
Consensus pattern (13 bp):
TAAAAAAAAAGAG
Found at i:24318874 original size:15 final size:15
Alignment explanation
Indices: 24318849--24318895 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
24318839 AGAAAAGAAT
24318849 AAAGAAAATGAAAATG
1 AAAG-AAATGAAAATG
*
24318865 AAAGAAATGAAAAAG
1 AAAGAAATGAAAATG
24318880 AAA-AATATGAAAATG
1 AAAGAA-ATGAAAATG
24318895 A
1 A
24318896 GATTTCAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 2 0.07
15 22 0.79
16 4 0.14
ACGTcount: A:0.70, C:0.00, G:0.17, T:0.13
Consensus pattern (15 bp):
AAAGAAATGAAAATG
Found at i:24318942 original size:12 final size:12
Alignment explanation
Indices: 24318925--24319000 Score: 50
Period size: 12 Copynumber: 6.3 Consensus size: 12
24318915 AGTGAAAAGC
24318925 AAAAAGAGATTG
1 AAAAAGAGATTG
*
24318937 AAAAAGAAATTG
1 AAAAAGAGATTG
*
24318949 --AAAGAGA-AG
1 AAAAAGAGATTG
*
24318958 AAAAAGAAAGAGTGG
1 AAAAAG--AGA-TTG
*
24318973 AAAAAGAAATTG
1 AAAAAGAGATTG
* *
24318985 AAAGAGAGCTTG
1 AAAAAGAGATTG
24318997 AAAA
1 AAAA
24319001 GAAATCGAGT
Statistics
Matches: 48, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
9 1 0.02
10 6 0.12
11 4 0.08
12 25 0.52
13 5 0.10
15 7 0.15
ACGTcount: A:0.62, C:0.01, G:0.25, T:0.12
Consensus pattern (12 bp):
AAAAAGAGATTG
Found at i:24318966 original size:15 final size:15
Alignment explanation
Indices: 24318948--24318981 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
24318938 AAAAGAAATT
24318948 GAAAGAGAAGAAAAA
1 GAAAGAGAAGAAAAA
**
24318963 GAAAGAGTGGAAAAA
1 GAAAGAGAAGAAAAA
24318978 GAAA
1 GAAA
24318982 TTGAAAGAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.29, T:0.03
Consensus pattern (15 bp):
GAAAGAGAAGAAAAA
Found at i:24326776 original size:15 final size:16
Alignment explanation
Indices: 24326756--24326785 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
24326746 TATAACGAAA
24326756 ATAATAAAA-TCAAAG
1 ATAATAAAATTCAAAG
24326771 ATAATAAAATTCAAA
1 ATAATAAAATTCAAA
24326786 AAAGAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.67, C:0.07, G:0.03, T:0.23
Consensus pattern (16 bp):
ATAATAAAATTCAAAG
Found at i:24327985 original size:14 final size:14
Alignment explanation
Indices: 24327962--24327995 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
24327952 TGGTATGAGT
24327962 TTAT-GGGTTTTGA
1 TTATAGGGTTTTGA
*
24327975 TTATAGGGTTTTGG
1 TTATAGGGTTTTGA
24327989 TTATAGG
1 TTATAGG
24327996 CAAATGATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 4 0.21
14 15 0.79
ACGTcount: A:0.18, C:0.00, G:0.32, T:0.50
Consensus pattern (14 bp):
TTATAGGGTTTTGA
Found at i:24328151 original size:24 final size:25
Alignment explanation
Indices: 24328124--24328171 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
24328114 AGAAGAAAGT
*
24328124 TTAAAGAACATAAAA-GAAAAAAAA
1 TTAAACAACATAAAATGAAAAAAAA
* *
24328148 TTAAACTACTTAAAATGAAAAAAA
1 TTAAACAACATAAAATGAAAAAAA
24328172 TATAGGGATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.19
Consensus pattern (25 bp):
TTAAACAACATAAAATGAAAAAAAA
Found at i:24328320 original size:15 final size:15
Alignment explanation
Indices: 24328300--24328350 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
24328290 ACAGCATGAT
24328300 AACGTAAATGACTAA
1 AACGTAAATGACTAA
* *
24328315 AACGTAACAT--TTCA
1 AACGTAA-ATGACTAA
*
24328329 AACATAAATGACTAA
1 AACGTAAATGACTAA
24328344 AACGTAA
1 AACGTAA
24328351 CCTAAGGTAC
Statistics
Matches: 27, Mismatches: 6, Indels: 6
0.69 0.15 0.15
Matches are distributed among these distances:
13 2 0.07
14 8 0.30
15 15 0.56
16 2 0.07
ACGTcount: A:0.53, C:0.16, G:0.10, T:0.22
Consensus pattern (15 bp):
AACGTAAATGACTAA
Found at i:24333476 original size:51 final size:52
Alignment explanation
Indices: 24333409--24333508 Score: 132
Period size: 51 Copynumber: 1.9 Consensus size: 52
24333399 TTCTTTTTCT
* * *
24333409 TTTTCTTTTTCGAGAAAATCA-AATTAATTTCCAAATGATTCA-ATTTCTTCA
1 TTTTCATTTTAGAGAAAACCATAA-TAATTTCCAAATGATTCATATTTCTTCA
* *
24333460 TTTTCATTTTAGAGAAAACCATAATCATTTCCAAATGTTTCATATTTCT
1 TTTTCATTTTAGAGAAAACCATAATAATTTCCAAATGATTCATATTTCT
24333509 CTATTTCACA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
51 34 0.81
52 8 0.19
ACGTcount: A:0.33, C:0.16, G:0.06, T:0.45
Consensus pattern (52 bp):
TTTTCATTTTAGAGAAAACCATAATAATTTCCAAATGATTCATATTTCTTCA
Found at i:24351497 original size:2 final size:2
Alignment explanation
Indices: 24351492--24351527 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
24351482 GTTCTCTCAG
*
24351492 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CG CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
24351528 ATCCATCTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.03, T:0.47
Consensus pattern (2 bp):
CT
Found at i:24355684 original size:18 final size:19
Alignment explanation
Indices: 24355650--24355687 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
24355640 AATAATTTTC
24355650 AAAAATTCTAAATATTTAT
1 AAAAATTCTAAATATTTAT
*
24355669 AAAAATTTTAAA-ATTTAT
1 AAAAATTCTAAATATTTAT
24355687 A
1 A
24355688 TTTTAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (19 bp):
AAAAATTCTAAATATTTAT
Found at i:24355753 original size:9 final size:10
Alignment explanation
Indices: 24355693--24355751 Score: 50
Period size: 9 Copynumber: 5.8 Consensus size: 10
24355683 TTATATTTTA
24355693 AAAAAAAGTAT
1 AAAAAAA-TAT
* *
24355704 AACAAAATCT
1 AAAAAAATAT
24355714 AAAAAATATAT
1 AAAAAA-ATAT
*
24355725 AAAGAAAGT-T
1 AAA-AAAATAT
24355735 AAAAAAAT-T
1 AAAAAAATAT
24355744 AAAAAAAT
1 AAAAAAAT
24355752 TAGAATAATA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
9 13 0.32
10 11 0.28
11 13 0.32
12 3 0.08
ACGTcount: A:0.71, C:0.03, G:0.05, T:0.20
Consensus pattern (10 bp):
AAAAAAATAT
Found at i:24362682 original size:61 final size:61
Alignment explanation
Indices: 24362605--24362747 Score: 157
Period size: 61 Copynumber: 2.4 Consensus size: 61
24362595 AAAGTTGATA
* * ** * *
24362605 TTAAATTTA-AAATTTTAATAAGTTTAGCCTAT-AATGTTTATAAAATTTGTCA-TTTAATT
1 TTAAATTTAGAAGTTTTAAAAAACTTAG-CTATAAATATTTATAAAATTTGCCATTTTAATT
* * *
24362664 TTAATTTTAAGTAGTTTTAAAAAACTTAGCTTTAAATATTTATAAAATTTGCCATTTTAATT
1 TTAAATTT-AGAAGTTTTAAAAAACTTAGCTATAAATATTTATAAAATTTGCCATTTTAATT
*
24362726 TTAAATTTAGAAGTTTTGAAAA
1 TTAAATTTAGAAGTTTTAAAAA
24362748 GGAAAAATAT
Statistics
Matches: 68, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
59 7 0.10
60 4 0.06
61 43 0.63
62 14 0.21
ACGTcount: A:0.40, C:0.05, G:0.08, T:0.48
Consensus pattern (61 bp):
TTAAATTTAGAAGTTTTAAAAAACTTAGCTATAAATATTTATAAAATTTGCCATTTTAATT
Found at i:24362888 original size:20 final size:20
Alignment explanation
Indices: 24362850--24362888 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
24362840 CAACCATACT
*
24362850 TATTAAAAAAAGTATATTAG
1 TATTAAAAAAAGTAAATTAG
24362870 TATTAAATAAAA-TAAATTA
1 TATTAAA-AAAAGTAAATTA
24362889 TAAACATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (20 bp):
TATTAAAAAAAGTAAATTAG
Found at i:24363231 original size:24 final size:24
Alignment explanation
Indices: 24363197--24363277 Score: 85
Period size: 24 Copynumber: 3.2 Consensus size: 24
24363187 GCCCGGCCCT
24363197 TTTTTTAATTAAAATTAAAATTATA
1 TTTTTT-ATTAAAATTAAAATTATA
*
24363222 TTTTTTATTAAAATTAAAACTA-A
1 TTTTTTATTAAAATTAAAATTATA
*
24363245 -TTGTTATTAAAATTATATCAAATTATA
1 TTTTTTATTAAAA-T-TA--AAATTATA
24363272 TTTTTT
1 TTTTTT
24363278 TGTACCAGTC
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
22 11 0.24
23 2 0.04
24 17 0.37
25 6 0.13
26 5 0.11
27 1 0.02
28 4 0.09
ACGTcount: A:0.43, C:0.02, G:0.01, T:0.53
Consensus pattern (24 bp):
TTTTTTATTAAAATTAAAATTATA
Found at i:24363268 original size:22 final size:22
Alignment explanation
Indices: 24363226--24363268 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
24363216 ATTATATTTT
*
24363226 TTATTAAAATTAAAACTAATTG
1 TTATTAAAATTAAAACAAATTG
* *
24363248 TTATTAAAATTATATCAAATT
1 TTATTAAAATTAAAACAAATT
24363269 ATATTTTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (22 bp):
TTATTAAAATTAAAACAAATTG
Found at i:24375576 original size:12 final size:12
Alignment explanation
Indices: 24375559--24375583 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24375549 ACGTTCTAAT
24375559 AAATTTTCATGA
1 AAATTTTCATGA
24375571 AAATTTTCATGA
1 AAATTTTCATGA
24375583 A
1 A
24375584 TATGTTAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (12 bp):
AAATTTTCATGA
Found at i:24387858 original size:21 final size:22
Alignment explanation
Indices: 24387829--24387879 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
24387819 TCTCTCTCGC
*
24387829 TTTCCTTTTCGCCTTTTTCA-T
1 TTTCATTTTCGCCTTTTTCACT
**
24387850 TTTCATTTTCTTCTTTTTCACT
1 TTTCATTTTCGCCTTTTTCACT
24387872 TTT-ATTTT
1 TTTCATTTT
24387880 TCTCTTCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.08, C:0.22, G:0.02, T:0.69
Consensus pattern (22 bp):
TTTCATTTTCGCCTTTTTCACT
Found at i:24397017 original size:52 final size:53
Alignment explanation
Indices: 24396932--24397042 Score: 170
Period size: 52 Copynumber: 2.1 Consensus size: 53
24396922 TAAGACACAA
* * *
24396932 TTAAGAAGTCTGACTTAATAACATGCATTGATGTTGTCCGAACTAGAGCATAG
1 TTAATAAGTCTGACTTAATAACATGCATTGATGTTGTCCGAACTAGAACATAC
* *
24396985 TTAATAAGTCTGACTTAA-AGCATGCATTGATGTTGTCCGAATTAGAACATAC
1 TTAATAAGTCTGACTTAATAACATGCATTGATGTTGTCCGAACTAGAACATAC
24397037 TTAATA
1 TTAATA
24397043 GACATAAATC
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
52 36 0.68
53 17 0.32
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.32
Consensus pattern (53 bp):
TTAATAAGTCTGACTTAATAACATGCATTGATGTTGTCCGAACTAGAACATAC
Found at i:24402973 original size:32 final size:33
Alignment explanation
Indices: 24402925--24402998 Score: 123
Period size: 32 Copynumber: 2.2 Consensus size: 33
24402915 AATTAAGAGA
24402925 GAAGTGAAGAAATGAATGGGTTTGAGATGTATTT
1 GAAGTG-AGAAATGAATGGGTTTGAGATGTATTT
*
24402959 GAAGTGAG-AATGAATGGGTTTGAGATGTGTTT
1 GAAGTGAGAAATGAATGGGTTTGAGATGTATTT
24402991 GAAGTGAG
1 GAAGTGAG
24402999 TAGCCAAGGG
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
32 31 0.79
33 2 0.05
34 6 0.15
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.31
Consensus pattern (33 bp):
GAAGTGAGAAATGAATGGGTTTGAGATGTATTT
Found at i:24403539 original size:9 final size:10
Alignment explanation
Indices: 24403513--24403538 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
24403503 TGCAAATATG
24403513 TCAAAAATAA
1 TCAAAAATAA
24403523 TCAAAAATAA
1 TCAAAAATAA
24403533 TCAAAA
1 TCAAAA
24403539 TTTTATGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.69, C:0.12, G:0.00, T:0.19
Consensus pattern (10 bp):
TCAAAAATAA
Found at i:24406088 original size:42 final size:42
Alignment explanation
Indices: 24406005--24406094 Score: 117
Period size: 42 Copynumber: 2.1 Consensus size: 42
24405995 CATCATGTGC
** **
24406005 CAGACCGTGTAACTCACTGACTTGGTACACATGGCTGTGTCT
1 CAGACCGTGTAACTCACTGACTTGGTACACACAGCCATGTCT
* *
24406047 CAGACCGTGTAATTCATTGACTTGGTACACACAGCCATGTCT
1 CAGACCGTGTAACTCACTGACTTGGTACACACAGCCATGTCT
*
24406089 TAGACC
1 CAGACC
24406095 CTGTGCTAGA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (42 bp):
CAGACCGTGTAACTCACTGACTTGGTACACACAGCCATGTCT
Found at i:24414647 original size:26 final size:25
Alignment explanation
Indices: 24414605--24414657 Score: 79
Period size: 26 Copynumber: 2.1 Consensus size: 25
24414595 AATGTTCACG
*
24414605 AAAAACAACAAATATTAAACAACAA
1 AAAAACAACAAACATTAAACAACAA
*
24414630 AAAAACCAATAAACATTAAACAACAA
1 AAAAA-CAACAAACATTAAACAACAA
24414656 AA
1 AA
24414658 GCAAAAAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 5 0.20
26 20 0.80
ACGTcount: A:0.72, C:0.17, G:0.00, T:0.11
Consensus pattern (25 bp):
AAAAACAACAAACATTAAACAACAA
Found at i:24414889 original size:13 final size:13
Alignment explanation
Indices: 24414871--24414920 Score: 66
Period size: 13 Copynumber: 3.8 Consensus size: 13
24414861 AGTTCTTCAT
24414871 TGCTTTTGAAATG
1 TGCTTTTGAAATG
24414884 TGCTTTTGAAATG
1 TGCTTTTGAAATG
* *
24414897 TG-TTGTGGAAAAG
1 TGCTT-TTGAAATG
24414910 TGCTTTTGAAA
1 TGCTTTTGAAA
24414921 AGTTTGGTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
12 2 0.06
13 28 0.88
14 2 0.06
ACGTcount: A:0.26, C:0.06, G:0.26, T:0.42
Consensus pattern (13 bp):
TGCTTTTGAAATG
Found at i:24416860 original size:29 final size:28
Alignment explanation
Indices: 24416828--24416885 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 28
24416818 CGAATAAATG
24416828 TAAAAAAAAATATGT-GAATAGGCCAATTT
1 TAAAAAAAAATAT-TAGAATAGGCC-ATTT
* *
24416857 TAAACAAAATTATTAGAATAGGCCATTT
1 TAAAAAAAAATATTAGAATAGGCCATTT
24416885 T
1 T
24416886 CTGAAAAACG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 6 0.23
29 20 0.77
ACGTcount: A:0.48, C:0.09, G:0.12, T:0.31
Consensus pattern (28 bp):
TAAAAAAAAATATTAGAATAGGCCATTT
Found at i:24425491 original size:82 final size:82
Alignment explanation
Indices: 24425354--24425510 Score: 314
Period size: 82 Copynumber: 1.9 Consensus size: 82
24425344 GTACATGGAT
24425354 ATAACATTCATTCAGTCAACTAGGGGTTTAGGTAAGCTTACCGACCCGTACAACCTTAGCAAATA
1 ATAACATTCATTCAGTCAACTAGGGGTTTAGGTAAGCTTACCGACCCGTACAACCTTAGCAAATA
24425419 AACAGTAAAATCGTACA
66 AACAGTAAAATCGTACA
24425436 ATAACATTCATTCAGTCAACTAGGGGTTTAGGTAAGCTTACCGACCCGTACAACCTTAGCAAATA
1 ATAACATTCATTCAGTCAACTAGGGGTTTAGGTAAGCTTACCGACCCGTACAACCTTAGCAAATA
24425501 AACAGTAAAA
66 AACAGTAAAA
24425511 ATAGGCCTGC
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 75 1.00
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.24
Consensus pattern (82 bp):
ATAACATTCATTCAGTCAACTAGGGGTTTAGGTAAGCTTACCGACCCGTACAACCTTAGCAAATA
AACAGTAAAATCGTACA
Done.