Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 100 of 199
Found at i:34127063 original size:22 final size:21
Alignment explanation
Indices: 34127014--34127068 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 21
34127004 AAACTAATCC
34127014 TCTCTCAAATTTCCTCTCAATT
1 TCTCTCAAA-TTCCTCTCAATT
34127036 TGCTCTCAAATTCCT-TCCAAATT
1 T-CTCTCAAATTCCTCT-C-AATT
34127059 TCTCTCAAAT
1 TCTCTCAAAT
34127069 CCATATTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
21 1 0.03
22 16 0.53
23 13 0.43
ACGTcount: A:0.25, C:0.31, G:0.02, T:0.42
Consensus pattern (21 bp):
TCTCTCAAATTCCTCTCAATT
Found at i:34127067 original size:11 final size:11
Alignment explanation
Indices: 34127014--34127068 Score: 60
Period size: 11 Copynumber: 4.9 Consensus size: 11
34127004 AAACTAATCC
34127014 TCTCTCAAATT
1 TCTCTCAAATT
34127025 TCCTCTC-AATT
1 T-CTCTCAAATT
34127036 TGCTCTCAAATT
1 T-CTCTCAAATT
*
34127048 CCT-TCCAAATT
1 TCTCT-CAAATT
34127059 TCTCTCAAAT
1 TCTCTCAAAT
34127069 CCATATTTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
10 1 0.03
11 26 0.70
12 10 0.27
ACGTcount: A:0.25, C:0.31, G:0.02, T:0.42
Consensus pattern (11 bp):
TCTCTCAAATT
Found at i:34128305 original size:7 final size:7
Alignment explanation
Indices: 34128293--34128318 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
34128283 TAGTCGATTG
34128293 GTATTTA
1 GTATTTA
34128300 GTATTTA
1 GTATTTA
34128307 GTATTTA
1 GTATTTA
34128314 GTATT
1 GTATT
34128319 ATGTATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:34128696 original size:17 final size:17
Alignment explanation
Indices: 34128674--34128709 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
34128664 GTTCCGAAGT
34128674 TAGCGTGCATTCCAGAA
1 TAGCGTGCATTCCAGAA
*
34128691 TAGCGTGCGTTCCAGAA
1 TAGCGTGCATTCCAGAA
34128708 TA
1 TA
34128710 CATGCCATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (17 bp):
TAGCGTGCATTCCAGAA
Found at i:34129493 original size:45 final size:45
Alignment explanation
Indices: 34129444--34129531 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
34129434 ATATTTTGAA
* *
34129444 TATTTTGATATTATTTTATGTAATAAAATAGAAATTTTTTTGAGT
1 TATTTTGATATTATTTGATGTAATAAAATAGAAATTTATTTGAGT
*
34129489 TATTTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGA
1 TATTTTGATATTATTTGATGTAATAAAATAGAAATTTATTTGA
34129532 TGTAATAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.51
Consensus pattern (45 bp):
TATTTTGATATTATTTGATGTAATAAAATAGAAATTTATTTGAGT
Found at i:34129527 original size:25 final size:25
Alignment explanation
Indices: 34129499--34129819 Score: 185
Period size: 25 Copynumber: 13.8 Consensus size: 25
34129489 TATTTTGATA
34129499 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
* *
34129524 TTATTTGATGTAATAAAATATAAAT
1 TTATTTGATGTAATAAAATAGAAGT
** *
34129549 TT-TTTGA-GT--T-ATTTTG-A-T
1 TTATTTGATGTAATAAAATAGAAGT
*
34129567 ATTATTCGATGTAATAAAATAGAAGT
1 -TTATTTGATGTAATAAAATAGAAGT
* * *
34129593 TTATTTGATATAATAAAATATAAAT
1 TTATTTGATGTAATAAAATAGAAGT
* ** *
34129618 TTTTTTGA-GT--T-ATTTTG-A-T
1 TTATTTGATGTAATAAAATAGAAGT
*
34129637 ATTATTTGATGCAATAAAATAGAAGT
1 -TTATTTGATGTAATAAAATAGAAGT
*
34129663 TTATTTGATGTAATAAAAT--AATT
1 TTATTTGATGTAATAAAATAGAAGT
* ** *
34129686 TTTTTTGA-GT--T-ATTTTG-A-T
1 TTATTTGATGTAATAAAATAGAAGT
*
34129705 ATTATTTGATGTATTAAAATAGAAGT
1 -TTATTTGATGTAATAAAATAGAAGT
* *
34129731 TTATTTGATGTAATAAAATATAAAT
1 TTATTTGATGTAATAAAATAGAAGT
** *
34129756 TT-TTTGA-GT--T-ATTTTG-A-T
1 TTATTTGATGTAATAAAATAGAAGT
34129774 ATTATTTGATGTAATAAAATAGAAGT
1 -TTATTTGATGTAATAAAATAGAAGT
34129800 TTATTTGATGTAATAAAATA
1 TTATTTGATGTAATAAAATA
34129820 TAAATTTTTT
Statistics
Matches: 220, Mismatches: 44, Indels: 64
0.67 0.13 0.20
Matches are distributed among these distances:
18 2 0.01
19 10 0.05
20 30 0.14
21 11 0.05
22 3 0.01
23 18 0.08
24 23 0.10
25 119 0.54
26 4 0.02
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.47
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:34129578 original size:69 final size:69
Alignment explanation
Indices: 34129454--34129859 Score: 715
Period size: 69 Copynumber: 5.9 Consensus size: 69
34129444 TATTTTGATA
* *
34129454 TTATTTTATGTAATAAAATAGAAATTTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATA
1 TTATTTGATGTAATAAAATATAAA-TTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATA
34129519 GAAGT
65 GAAGT
*
34129524 TTATTTGATGTAATAAAATATAAATTTTTTGAGTTATTTTGATATTATTCGATGTAATAAAATAG
1 TTATTTGATGTAATAAAATATAAATTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATAG
34129589 AAGT
66 AAGT
* *
34129593 TTATTTGATATAATAAAATATAAATTTTTTTGAGTTATTTTGATATTATTTGATGCAATAAAATA
1 TTATTTGATGTAATAAAATATAAA-TTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATA
34129658 GAAGT
65 GAAGT
** *
34129663 TTATTTGATGTAATAAAATA-ATTTTTTTTGAGTTATTTTGATATTATTTGATGTATTAAAATAG
1 TTATTTGATGTAATAAAATATAAATTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATAG
34129727 AAGT
66 AAGT
34129731 TTATTTGATGTAATAAAATATAAATTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATAG
1 TTATTTGATGTAATAAAATATAAATTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATAG
34129796 AAGT
66 AAGT
34129800 TTATTTGATGTAATAAAATATAAATTTTTTGAGTTATTTTGATATTATTTGATGTAATAA
1 TTATTTGATGTAATAAAATATAAATTTTTTGAGTTATTTTGATATTATTTGATGTAATAA
34129860 CATGTGATTA
Statistics
Matches: 320, Mismatches: 14, Indels: 5
0.94 0.04 0.01
Matches are distributed among these distances:
68 63 0.20
69 173 0.54
70 84 0.26
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (69 bp):
TTATTTGATGTAATAAAATATAAATTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATAG
AAGT
Found at i:34133241 original size:125 final size:125
Alignment explanation
Indices: 34132995--34133365 Score: 566
Period size: 125 Copynumber: 3.0 Consensus size: 125
34132985 CAAACATGCT
* * *
34132995 ACTGTAGCAAAAGCGTGTCCATGTGAGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGGTA
1 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGGTA
*
34133060 GAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCA
66 GAAGCGATTTTATACTATTTGCTCAGAAATGTCAACTCGAAATTATTTCTTCCAGGACCA
* * *
34133120 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCAGAAATTCTTCTCA-AATAGCATCCTGCT
1 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAA-AGCATCCTGGT
* * * * *
34133184 TGAAGCGTTTTTTATACTATTTGCTCAGAAATGTCAACTCGAAATAATTT-TTTCAGGACCT
65 AGAAGCG-ATTTTATACTATTTGCTCAGAAATGTCAACTCGAAATTATTTCTTCCAGGACCA
* *
34133245 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTAACAAATTCTTCTCATAAAGTATCCTGGTA
1 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGGTA
* *
34133310 AAAGCGATTTTATATTATTTGCTCAGAAATGTCAACTCGAAATTATTTCTTCCAGG
66 GAAGCGATTTTATACTATTTGCTCAGAAATGTCAACTCGAAATTATTTCTTCCAGG
34133366 CCCTAAAAAC
Statistics
Matches: 219, Mismatches: 23, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
124 41 0.19
125 137 0.63
126 41 0.19
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (125 bp):
ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGGTA
GAAGCGATTTTATACTATTTGCTCAGAAATGTCAACTCGAAATTATTTCTTCCAGGACCA
Found at i:34136078 original size:15 final size:15
Alignment explanation
Indices: 34136057--34136090 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
34136047 TAATAAGTTA
34136057 AAAAAAAAGAAGAAAG
1 AAAAAAAA-AAGAAAG
*
34136073 AAAAAAAAAAGAATG
1 AAAAAAAAAAGAAAG
34136088 AAA
1 AAA
34136091 TCTTGAAACC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (15 bp):
AAAAAAAAAAGAAAG
Found at i:34138454 original size:91 final size:91
Alignment explanation
Indices: 34138299--34138478 Score: 333
Period size: 91 Copynumber: 2.0 Consensus size: 91
34138289 ACACCGATGT
* *
34138299 GTGTGATTCTATGAAAACTTTGTCTCATGCTCAAAATAGGTACTTTATTTTATTCATTGATGATT
1 GTGTGATCCTATGAAAACTTCGTCTCATGCTCAAAATAGGTACTTTATTTTATTCATTGATGATT
34138364 TAACTCGTATGACATGAGTGTATTCA
66 TAACTCGTATGACATGAGTGTATTCA
34138390 GTGTGATCCTATGAAAACTTCGTCTCATGCTCAAAATAGGTACTTTATTTTATTCATTGATGATT
1 GTGTGATCCTATGAAAACTTCGTCTCATGCTCAAAATAGGTACTTTATTTTATTCATTGATGATT
*
34138455 TAACTTGTATGACATGAGTGTATT
66 TAACTCGTATGACATGAGTGTATT
34138479 TTATGAGATA
Statistics
Matches: 86, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
91 86 1.00
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.42
Consensus pattern (91 bp):
GTGTGATCCTATGAAAACTTCGTCTCATGCTCAAAATAGGTACTTTATTTTATTCATTGATGATT
TAACTCGTATGACATGAGTGTATTCA
Found at i:34148521 original size:19 final size:18
Alignment explanation
Indices: 34148492--34148535 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 18
34148482 TTACAAAATC
34148492 ATATCTTCTAAGATTGCAT
1 ATAT-TTCTAAGATTGCAT
34148511 ATCATTTCTAAGATTGCAT
1 AT-ATTTCTAAGATTGCAT
34148530 ATATTT
1 ATATTT
34148536 GAAGATTATG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.17
19 18 0.75
20 2 0.08
ACGTcount: A:0.32, C:0.14, G:0.09, T:0.45
Consensus pattern (18 bp):
ATATTTCTAAGATTGCAT
Found at i:34148542 original size:17 final size:19
Alignment explanation
Indices: 34148501--34148542 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
34148491 CATATCTTCT
*
34148501 AAGATTGCATATCATTTCT
1 AAGATTGCATATCATTTCG
34148520 AAGATTGCATAT-ATTT-G
1 AAGATTGCATATCATTTCG
34148537 AAGATT
1 AAGATT
34148543 ATGTTTCCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.27
18 4 0.18
19 12 0.55
ACGTcount: A:0.36, C:0.10, G:0.14, T:0.40
Consensus pattern (19 bp):
AAGATTGCATATCATTTCG
Found at i:34149366 original size:131 final size:132
Alignment explanation
Indices: 34148953--34149366 Score: 528
Period size: 131 Copynumber: 3.1 Consensus size: 132
34148943 GAATTGGTAA
* ** * *
34148953 TTTCAACCTGCTCCACTGCAACTTCAGAGAGATAAGG-CTGGTGGCTTAAATCTGCTTCCTTACT
1 TTTCAACCTACTCCACTGCTGC-TCAGGGAGAT-AGGACTGGTGGCTTAAATCTGCTTCCCTACT
* * * *
34149017 ACCTTAGAAAGATAAGACTCGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATATA
64 ACCTTGGGAAGATAAGATTCGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTA
34149082 CAAT
129 CAAT
* * * * * *
34149086 ATTCAACCTACTTCACTACTGCTCAGGGAGATAGGACTGGTGGCTTAAATCCGCTT-CCTATTAT
1 TTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTAC
* * * *
34149150 CTCGGGAATATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACA
66 CTTGGGAAGATAAGATTCGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACA
34149215 AT
131 AT
* * *
34149217 CTTCAACCTACTCTACTGCTGCTCAGGGAGATAGGACT-GTGACTTAAATCTGCTTCCCTACTAC
1 TTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTAC
** * * * * *
34149281 CTTGGGAAGATAAGATTCGCTATCTTTGATTTTCTTCAGTACTGCTTAGGGAGACAAGATCTACA
66 CTTGGGAAGATAAGATTCGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACA
34149346 AT
131 AT
34149348 TTTCAACCTACTCCACTGC
1 TTTCAACCTACTCCACTGC
34149367 AAACTCAGGG
Statistics
Matches: 239, Mismatches: 40, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
130 15 0.06
131 180 0.75
132 28 0.12
133 16 0.07
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (132 bp):
TTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTAC
CTTGGGAAGATAAGATTCGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACA
AT
Found at i:34149456 original size:89 final size:89
Alignment explanation
Indices: 34149358--34149615 Score: 302
Period size: 89 Copynumber: 2.9 Consensus size: 89
34149348 TTTCAACCTA
* * * * *
34149358 CTCCACTGCAAACTCAGGGAGGCAGGGCTGGTGTTTTTGACCTGCTTCACTACTAGTACAGGAAG
1 CTCCACTGCAAACTCAGGGAGGCAAGGCTGGTGTTTTCGACCTACTTCACTACCAATACAGGAAG
* * *
34149423 ACAAGATCTGTTGTTTTCAG-TCTG
66 ACAAGATCTGCTATCTTCAGCT-TG
* * * * ** * *
34149447 CTCCGCTGCAAACTCAGGGAGGCAAGGTTGGTGTCTTCGATCTACTTTGCTGCCAATATAGGAAG
1 CTCCACTGCAAACTCAGGGAGGCAAGGCTGGTGTTTTCGACCTACTTCACTACCAATACAGGAAG
34149512 ACAAGATCTGCTATCTTCAGCTTG
66 ACAAGATCTGCTATCTTCAGCTTG
* * * * * *
34149536 CTCCACTACAAACTCAGGGAGGCAAGGCTGGTGTTTTCAATCTACTTCGCTGCCAATACAAGAAG
1 CTCCACTGCAAACTCAGGGAGGCAAGGCTGGTGTTTTCGACCTACTTCACTACCAATACAGGAAG
34149601 ACAAGATCTGCTATC
66 ACAAGATCTGCTATC
34149616 GTTAGTCTGC
Statistics
Matches: 144, Mismatches: 24, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
89 143 0.99
90 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (89 bp):
CTCCACTGCAAACTCAGGGAGGCAAGGCTGGTGTTTTCGACCTACTTCACTACCAATACAGGAAG
ACAAGATCTGCTATCTTCAGCTTG
Found at i:34149911 original size:11 final size:11
Alignment explanation
Indices: 34149895--34149995 Score: 69
Period size: 11 Copynumber: 9.9 Consensus size: 11
34149885 TAAAAAAATT
34149895 TATTTTAAAAA
1 TATTTTAAAAA
34149906 TATTTT--AAA
1 TATTTTAAAAA
*
34149915 -A--TTAAAAG
1 TATTTTAAAAA
*
34149923 TATTTTTAAAA
1 TATTTTAAAAA
*
34149934 TATTTTTAAAA
1 TATTTTAAAAA
*
34149945 TATTTT-TAAA
1 TATTTTAAAAA
34149955 -A--TTAAAAA
1 TATTTTAAAAA
34149963 -ATTTTAAAAAA
1 TATTTT-AAAAA
*
34149974 GTATTTTAAAAG
1 -TATTTTAAAAA
34149986 TATTTTAAAA
1 TATTTTAAAA
34149996 TTTAAAAAAT
Statistics
Matches: 73, Mismatches: 6, Indels: 22
0.72 0.06 0.22
Matches are distributed among these distances:
6 2 0.03
7 2 0.03
8 7 0.10
9 5 0.07
10 5 0.07
11 43 0.59
12 4 0.05
13 5 0.07
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:34149933 original size:12 final size:11
Alignment explanation
Indices: 34149916--34149956 Score: 73
Period size: 11 Copynumber: 3.6 Consensus size: 11
34149906 TATTTTAAAA
34149916 TTAAAAGTATTT
1 TTAAAA-TATTT
34149928 TTAAAATATTT
1 TTAAAATATTT
34149939 TTAAAATATTT
1 TTAAAATATTT
34149950 TTAAAAT
1 TTAAAAT
34149957 TAAAAAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
11 23 0.79
12 6 0.21
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (11 bp):
TTAAAATATTT
Found at i:34149952 original size:40 final size:37
Alignment explanation
Indices: 34149895--34150005 Score: 132
Period size: 40 Copynumber: 2.8 Consensus size: 37
34149885 TAAAAAAATT
* *
34149895 TATTTTAAAAATATTTTAAAATTAAAAGTATTTTTAAAA
1 TATTTTTAAAATATTTTAAAATTAAAA--AATTTTAAAA
34149934 TATTTTTAAAATATTTTTAAAATTAAAAAATTTTAAAA
1 TATTTTTAAAATA-TTTTAAAATTAAAAAATTTTAAAA
*
34149972 AAGTATTTTAAAAGTATTTTAAAATTTAAAAAAT
1 TA-T-TTTTAAAA-TATTTTAAAA-TTAAAAAAT
34150006 AAAAAAAATA
Statistics
Matches: 64, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
38 10 0.16
39 13 0.20
40 30 0.47
41 11 0.17
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (37 bp):
TATTTTTAAAATATTTTAAAATTAAAAAATTTTAAAA
Found at i:34150012 original size:40 final size:37
Alignment explanation
Indices: 34149880--34150015 Score: 119
Period size: 40 Copynumber: 3.4 Consensus size: 37
34149870 AAATTAAAAC
*
34149880 AAAAATAAAAAAATTTATTTTAAAAATATTTTAAAATTA
1 AAAAATAAAAAAA-ATATTTT-AAAATATTTTAAAATTA
* ****
34149919 AAAGTATTTTTAAAATATTTTTAAAATATTTTTAAAATTA
1 AAA-AATAAAAAAAATA-TTTTAAAATA-TTTTAAAATTA
* *
34149959 AAAAATTTTAAAAAAGTATTTTAAAAGTATTTTAAAATTTA
1 AAAAA--TAAAAAAAATATTTTAAAA-TATTTTAAAA-TTA
34150000 AAAAATAAAAAAAATA
1 AAAAATAAAAAAAATA
34150016 AAAAATTATT
Statistics
Matches: 77, Mismatches: 13, Indels: 14
0.74 0.12 0.13
Matches are distributed among these distances:
39 21 0.27
40 39 0.51
41 17 0.22
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (37 bp):
AAAAATAAAAAAAATATTTTAAAATATTTTAAAATTA
Found at i:34150283 original size:44 final size:44
Alignment explanation
Indices: 34150210--34150832 Score: 250
Period size: 44 Copynumber: 14.0 Consensus size: 44
34150200 GAGTACCTCT
* ** *
34150210 ACTTCAGGGAGATAGGATT-AGTAGATTCAATCTGCTCCACTGTA
1 ACTTCAGGGAGATAAGATTGA-TATTTTCAATCTGCTCCACTGCA
* * * **
34150254 ACTTCAGGGAGATAAGATTGATATTTTCAACCTACTCCATTAAA
1 ACTTCAGGGAGATAAGATTGATATTTTCAATCTGCTCCACTGCA
* * * *
34150298 ACTTCAGGGAGATAAGGTT--TGA-TGT-GATCTGCTCTACTGCA
1 ACTTCAGGGAGATAAGATTGAT-ATTTTCAATCTGCTCCACTGCA
* * * **
34150339 ACTTCAGAGAGATAAGATATTATGATTTATAGCTTTGATCTATTCCACTGCA
1 ACTTCAGGGAGATAAGAT-TGAT-ATTT-T--C---AATCTGCTCCACTGCA
* * * ** * * * * *
34150391 ATATTCAAGGAAACGAGATTTACTATCTTCAGTCTGTTCCACTGTA
1 A-CTTCAGGGAGATAAGATTGA-TATTTTCAATCTGCTCCACTGCA
* * *
34150437 ACTTCAGGGAGATAAGACTT--CA-CTTCAATCCGCTCCACTGCA
1 ACTTCAGGGAGATAAGA-TTGATATTTTCAATCTGCTCCACTGCA
*
34150479 ACTTCAGGGAGAT-AGAATT-AT-TGGCTTT-AATCTGTTCCACTGCA
1 ACTTCAGGGAGATAAG-ATTGATAT---TTTCAATCTGCTCCACTGCA
** * * *
34150523 ACTTCAGGGAGATAAGATTCGCCATCTTT-AGTTTGC-CTCACTGTA
1 ACTTCAGGGAGATAAGATT-GATAT-TTTCAATCTGCTC-CACTGCA
* * * * *
34150568 ACTTCAGGGGGATAAGACTTGCT-TTCTTCAGTTTGCTTCACTGCA
1 ACTTCAGGGAGATAAGA-TTGATATT-TTCAATCTGCTCCACTGCA
* * *
34150613 ACTTCAGGAAGATAAGACTTG-TAACTTT-AATCCGCTCCACTGCA
1 ACTTCAGGGAGATAAGA-TTGAT-ATTTTCAATCTGCTCCACTGCA
* * *
34150657 ACTTTAGGGAGATAGGATT-AT-TGGCTTT-AATCTGTTCCACTGCA
1 ACTTCAGGGAGATAAGATTGATAT---TTTCAATCTGCTCCACTGCA
* ** * * * *
34150701 ACTTCAAGGAGATAAGATTTGCCATTTTTAGTTTGCCCCACTGCA
1 ACTTCAGGGAGATAAGA-TTGATATTTTCAATCTGCTCCACTGCA
* *
34150746 ACTTCAGGG-GAATAAGACTTGCT-TTCTTCAGTCTGCTCCACTGCA
1 ACTTCAGGGAG-ATAAGA-TTGATATT-TTCAATCTGCTCCACTGCA
* *
34150791 ATTTCAGGGAGATAAGACTTG-TAACTTT-AATCTGCTCCACTG
1 ACTTCAGGGAGATAAGA-TTGAT-ATTTTCAATCTGCTCCACTG
34150833 TAACCTAAGA
Statistics
Matches: 444, Mismatches: 89, Indels: 92
0.71 0.14 0.15
Matches are distributed among these distances:
41 29 0.07
42 34 0.08
43 6 0.01
44 167 0.38
45 151 0.34
46 21 0.05
47 2 0.00
49 1 0.00
51 1 0.00
52 20 0.05
53 12 0.03
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (44 bp):
ACTTCAGGGAGATAAGATTGATATTTTCAATCTGCTCCACTGCA
Found at i:34150571 original size:45 final size:45
Alignment explanation
Indices: 34150516--34150811 Score: 205
Period size: 45 Copynumber: 6.6 Consensus size: 45
34150506 TAATCTGTTC
*
34150516 CACTGCAACTTCAGGGAGATAAGA-TTCGCCATCTTTAGTTTGCCT
1 CACTGCAACTTCAGGGAGATAAGACTT-GCCATCTTCAGTTTGCCT
* * ** *
34150561 CACTGTAACTTCAGGGGGATAAGACTTGCTTTCTTCAGTTTGCTT
1 CACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTTTGCCT
* * * * * **
34150606 CACTGCAACTTCAGGAAGATAAGACTTG-TAACTTTAATCCG-CT
1 CACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTTTGCCT
* * * * * * *
34150649 CCACTGCAACTTTAGGGAGATAGGATTATTGGC-T-TT-AATCTG-TT
1 -CACTGCAACTTCAGGGAGATAAGA--CTTGCCATCTTCAGTTTGCCT
* * * * *
34150693 CCACTGCAACTTCAAGGAGATAAGATTTGCCATTTTTAGTTTGCCC
1 -CACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTTTGCCT
** *
34150739 CACTGCAACTTCAGGG-GAATAAGACTTGCTTTCTTCAGTCTG-CT
1 CACTGCAACTTCAGGGAG-ATAAGACTTGCCATCTTCAGTTTGCCT
*
34150783 CCACTGCAATTTCAGGGAGATAAGACTTG
1 -CACTGCAACTTCAGGGAGATAAGACTTG
34150812 TAACTTTAAT
Statistics
Matches: 197, Mismatches: 42, Indels: 24
0.75 0.16 0.09
Matches are distributed among these distances:
42 4 0.02
43 2 0.01
44 60 0.30
45 125 0.63
46 6 0.03
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (45 bp):
CACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTTTGCCT
Found at i:34150652 original size:134 final size:131
Alignment explanation
Indices: 34150430--34150675 Score: 314
Period size: 134 Copynumber: 1.9 Consensus size: 131
34150420 CAGTCTGTTC
*
34150430 CACTGTAACTTCAGGGAGATAAGACTTCACTTCAATCCGCTCCACTGCAACTTCAGGGAGATAGA
1 CACTGTAACTTCAGGGAGATAAGACTTCACTTCAATCCGCTCCACTGCAACTTCAGGAAGATAGA
* ** * *
34150495 ATTATTGGCTTTAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTTAGTTTGCC
66 ATTAGTAACTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTTAGTTTGCC
34150560 T
131 T
* * * ** *
34150561 CACTGTAACTTCAGGGGGATAAGACTTGCTTTCTTCAGTTTGCTTCACTGCAACTTCAGGAAGAT
1 CACTGTAACTTCAGGGAGATAAGACTT-C--ACTTCAATCCGCTCCACTGCAACTTCAGGAAGAT
* * *
34150626 AAGACTT-GTAACTTTAATCCGCTCCACTGCAACTTTAGGGAGATAGGATT
63 -AGAATTAGTAACTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATT
34150676 ATTGGCTTTA
Statistics
Matches: 96, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
131 26 0.27
132 1 0.01
134 64 0.67
135 5 0.05
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (131 bp):
CACTGTAACTTCAGGGAGATAAGACTTCACTTCAATCCGCTCCACTGCAACTTCAGGAAGATAGA
ATTAGTAACTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTTAGTTTGCC
T
Found at i:34150847 original size:44 final size:43
Alignment explanation
Indices: 34150423--34150848 Score: 189
Period size: 45 Copynumber: 9.6 Consensus size: 43
34150413 CTATCTTCAG
* * * * *
34150423 TCTGTTCCACTGTAACTTCAGGGAGATAAGAC-T-TCACTTCAA
1 TCTGCTCCACTGCAACTT-AAGGAGATAAGACTTGTAACTTTAA
* * * * **
34150465 TCCGCTCCACTGCAACTTCAGGGAGAT-AGAATTATTGGCTTTAA
1 TCTGCTCCACTGCAACTT-AAGGAGATAAGACTT-GTAACTTTAA
* * * * *
34150509 TCTGTTCCACTGCAACTTCAGGGAGATAAGA-TTCGCCATCTTTAG
1 TCTGCTCCACTGCAACTT-AAGGAGATAAGACTT-G-TAACTTTAA
* * * * ** * *
34150554 TTTGC-CTCACTGTAACTTCAGGGGGATAAGACTTGCTTTCTTCAG
1 TCTGCTC-CACTGCAACTT-AAGGAGATAAGACTTG-TAACTTTAA
* * *
34150599 TTTGCTTCACTGCAACTTCAGGAAGATAAGACTTGTAACTTTAA
1 TCTGCTCCACTGCAACTTAAGG-AGATAAGACTTGTAACTTTAA
* * * * **
34150643 TCCGCTCCACTGCAACTTTAGGGAGATAGGA-TTATTGGCTTTAA
1 TCTGCTCCACTGCAAC-TTAAGGAGATAAGACTT-GTAACTTTAA
* * * ** *
34150687 TCTGTTCCACTGCAACTTCAAGGAGATAAGATTTGCCATTTTTAG
1 TCTGCTCCACTGCAACTT-AAGGAGATAAGACTTG-TAACTTTAA
* * * * ** * *
34150732 TTTGCCCCACTGCAACTTCAGGGGAATAAGACTTGCTTTCTTCAG
1 TCTGCTCCACTGCAACTTAAGGAG-ATAAGACTTG-TAACTTTAA
* *
34150777 TCTGCTCCACTGCAATTTCAGGGAGATAAGACTTGTAACTTTAA
1 TCTGCTCCACTGCAACTT-AAGGAGATAAGACTTGTAACTTTAA
* *
34150821 TCTGCTCCACTGTAACCTAAGAGAGATA
1 TCTGCTCCACTGCAACTTAAG-GAGATA
34150849 GGATTTGTGG
Statistics
Matches: 293, Mismatches: 74, Indels: 32
0.73 0.19 0.08
Matches are distributed among these distances:
41 3 0.01
42 25 0.09
43 6 0.02
44 122 0.42
45 132 0.45
46 5 0.02
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (43 bp):
TCTGCTCCACTGCAACTTAAGGAGATAAGACTTGTAACTTTAA
Found at i:34150849 original size:178 final size:178
Alignment explanation
Indices: 34150416--34150853 Score: 673
Period size: 178 Copynumber: 2.5 Consensus size: 178
34150406 AGATTTACTA
* * * *
34150416 TCTTCAGTCTGTTCCACTGTAACTTCAGGGAGATAAGAC-T-TCACTTCAATCCGCTCCACTGCA
1 TCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAATCCGCTCCACTGCA
* * *
34150479 ACTTCAGGGAGATAGAATTATTGGCTTTAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTCG
66 ACTTAAGGGAGATAGGATTATTGGCTTTAATCTGTTCCACTGCAACTTCAAGGAGATAAGATTCG
* * *
34150544 CCATCTTTAGTTTGCCTCACTGTAACTTCAGGGGGATAAGACTTGCTT
131 CCATCTTTAGTTTGCCCCACTGCAACTTCAGGGGAATAAGACTTGCTT
* * *
34150592 TCTTCAGTTTGCTTCACTGCAACTTCAGGAAGATAAGACTTGTAACTTTAATCCGCTCCACTGCA
1 TCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAATCCGCTCCACTGCA
* *
34150657 ACTTTAGGGAGATAGGATTATTGGCTTTAATCTGTTCCACTGCAACTTCAAGGAGATAAGATTTG
66 ACTTAAGGGAGATAGGATTATTGGCTTTAATCTGTTCCACTGCAACTTCAAGGAGATAAGATTCG
*
34150722 CCATTTTTAGTTTGCCCCACTGCAACTTCAGGGGAATAAGACTTGCTT
131 CCATCTTTAGTTTGCCCCACTGCAACTTCAGGGGAATAAGACTTGCTT
* * *
34150770 TCTTCAGTCTGCTCCACTGCAATTTCAGGGAGATAAGACTTGTAACTTTAATCTGCTCCACTGTA
1 TCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAATCCGCTCCACTGCA
* *
34150835 ACCTAAGAGAGATAGGATT
66 ACTTAAGGGAGATAGGATT
34150854 TGTGGTTTCA
Statistics
Matches: 236, Mismatches: 24, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
176 34 0.14
177 1 0.00
178 201 0.85
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.32
Consensus pattern (178 bp):
TCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAATCCGCTCCACTGCA
ACTTAAGGGAGATAGGATTATTGGCTTTAATCTGTTCCACTGCAACTTCAAGGAGATAAGATTCG
CCATCTTTAGTTTGCCCCACTGCAACTTCAGGGGAATAAGACTTGCTT
Found at i:34151167 original size:24 final size:24
Alignment explanation
Indices: 34151135--34151212 Score: 138
Period size: 24 Copynumber: 3.2 Consensus size: 24
34151125 GATTGTCCCT
34151135 ACTGTAATCTTCAAGGTTCAATCC
1 ACTGTAATCTTCAAGGTTCAATCC
34151159 ACTGTAATCTTCAAGGTTCAATCC
1 ACTGTAATCTTCAAGGTTCAATCC
* *
34151183 ACTGTAATCTTCAAGGTTTAGTCC
1 ACTGTAATCTTCAAGGTTCAATCC
34151207 ACTGTA
1 ACTGTA
34151213 TTTTTGGGAC
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 52 1.00
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (24 bp):
ACTGTAATCTTCAAGGTTCAATCC
Found at i:34155410 original size:19 final size:20
Alignment explanation
Indices: 34155386--34155432 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
34155376 TGTGAAAATC
*
34155386 TAATGCATATG-ATGCAATG
1 TAATGCAAATGCATGCAATG
*
34155405 TAATGCAAATGCATGGAATG
1 TAATGCAAATGCATGCAATG
34155425 -AATGCAAA
1 TAATGCAAA
34155433 AAGAAATAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.43, C:0.11, G:0.21, T:0.26
Consensus pattern (20 bp):
TAATGCAAATGCATGCAATG
Found at i:34157224 original size:15 final size:16
Alignment explanation
Indices: 34157206--34157238 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
34157196 AAATGTAAAC
34157206 AAATTTAAAAAT-AAT
1 AAATTTAAAAATGAAT
*
34157221 AAATTTGAAAATGAAT
1 AAATTTAAAAATGAAT
34157237 AA
1 AA
34157239 TAAGGGAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (16 bp):
AAATTTAAAAATGAAT
Found at i:34158160 original size:16 final size:17
Alignment explanation
Indices: 34158126--34158164 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
34158116 ATATCTAAGA
34158126 TTTATAAAATATTAAATT
1 TTTATAAAATATT-AATT
*
34158144 TTTATAAAATATTATTT
1 TTTATAAAATATTAATT
34158161 TTTA
1 TTTA
34158165 AGTTATTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTATAAAATATTAATT
Found at i:34158195 original size:9 final size:9
Alignment explanation
Indices: 34158181--34158344 Score: 58
Period size: 9 Copynumber: 19.4 Consensus size: 9
34158171 TATTATTTGA
34158181 AAAATATAT
1 AAAATATAT
34158190 AAAATATAT
1 AAAATATAT
34158199 --AAT-TAT
1 AAAATATAT
*
34158205 -AAATTTAT
1 AAAATATAT
34158213 -AAA-ATAT
1 AAAATATAT
34158220 -AAA-ATAT
1 AAAATATAT
34158227 AAAATATAT
1 AAAATATAT
*
34158236 -ATA-AT-T
1 AAAATATAT
34158242 AAAATATAT
1 AAAATATAT
*
34158251 AAAA-AAAGCCT
1 AAAATATA---T
* *
34158262 ACAATATTTT
1 AAAATA-TAT
34158272 GAAACATATAT
1 -AAA-ATATAT
*
34158283 AAAAT-TTT
1 AAAATATAT
*
34158291 ACAATATAT
1 AAAATATAT
*
34158300 AATATATAT
1 AAAATATAT
34158309 -AAATA-A-
1 AAAATATAT
34158315 AAAAT-TAT
1 AAAATATAT
*
34158323 -AAATTTAT
1 AAAATATAT
34158331 ACAAATATAT
1 A-AAATATAT
34158341 AAAA
1 AAAA
34158345 GAACTAAAAA
Statistics
Matches: 118, Mismatches: 16, Indels: 42
0.67 0.09 0.24
Matches are distributed among these distances:
6 4 0.03
7 30 0.25
8 28 0.24
9 32 0.27
10 12 0.10
11 8 0.07
12 4 0.03
ACGTcount: A:0.60, C:0.04, G:0.01, T:0.35
Consensus pattern (9 bp):
AAAATATAT
Found at i:34158213 original size:23 final size:22
Alignment explanation
Indices: 34158182--34158249 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 22
34158172 ATTATTTGAA
*
34158182 AAATATATAAAATATATAATTAT
1 AAATATATAAAATATA-AAATAT
*
34158205 AAATTTATAAAATATAAAATAT
1 AAATATATAAAATATAAAATAT
*
34158227 AAAATATATATAAT-TAAAATAT
1 -AAATATATAAAATATAAAATAT
34158249 A
1 A
34158250 TAAAAAAAGC
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
21 1 0.03
22 13 0.32
23 26 0.65
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
AAATATATAAAATATAAAATAT
Found at i:34158474 original size:9 final size:9
Alignment explanation
Indices: 34158445--34158491 Score: 55
Period size: 8 Copynumber: 5.6 Consensus size: 9
34158435 TGTAAAAGTT
34158445 TTTTATAT-
1 TTTTATATA
34158453 TTTTAT-TA
1 TTTTATATA
*
34158461 ATTTATATA
1 TTTTATATA
*
34158470 TTTTA-AAA
1 TTTTATATA
34158478 TTTTATATA
1 TTTTATATA
34158487 TTTTA
1 TTTTA
34158492 AATTTAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
7 1 0.03
8 18 0.56
9 13 0.41
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (9 bp):
TTTTATATA
Found at i:34158482 original size:17 final size:17
Alignment explanation
Indices: 34158445--34158493 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
34158435 TGTAAAAGTT
*
34158445 TTTTATAT-TTTTATTAA
1 TTTTATATATTTTA-AAA
34158462 -TTTATATATTTTAAAA
1 TTTTATATATTTTAAAA
34158478 TTTTATATATTTTAAA
1 TTTTATATATTTTAAA
34158494 TTTAAAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 9 0.31
17 20 0.69
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTTATATATTTTAAAA
Found at i:34161218 original size:30 final size:31
Alignment explanation
Indices: 34161182--34161250 Score: 104
Period size: 31 Copynumber: 2.3 Consensus size: 31
34161172 ACTTAACAAC
* *
34161182 TCAATGATTTAAAT-AAAACTTTTGAATATT
1 TCAATGACTTAAATGAAAACTTTTGAATAGT
34161212 TCAATGACTTAAATGAAAACTTTTGAATAGT
1 TCAATGACTTAAATGAAAACTTTTGAATAGT
*
34161243 TCATTGAC
1 TCAATGAC
34161251 CATTTTGTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
30 13 0.37
31 22 0.63
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.39
Consensus pattern (31 bp):
TCAATGACTTAAATGAAAACTTTTGAATAGT
Found at i:34171557 original size:45 final size:44
Alignment explanation
Indices: 34171496--34171631 Score: 141
Period size: 45 Copynumber: 3.0 Consensus size: 44
34171486 ACACATTTGC
* * *
34171496 AGATTAAAGCTGCTAATACGGTTTGTGTAAACCACTAGTCGGTG-A
1 AGATAAAAGCTGCTAATACGGTGTG-GTAAACCACTAAT-GGTGCA
* * *
34171541 AGATAAAAGCTTCTAATATGATGTGGGTAAACCACTAAATGGTGCA
1 AGATAAAAGCTGCTAATACGGTGT-GGTAAACCACT-AATGGTGCA
*
34171587 A-ATAAAAGCTGCTAATACAGTGTGGATAAACCACTAAATGGTGCA
1 AGATAAAAGCTGCTAATACGGTGTGG-TAAACCACT-AATGGTGCA
34171632 GACAAGCTGC
Statistics
Matches: 77, Mismatches: 10, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
44 2 0.03
45 70 0.91
46 5 0.06
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.26
Consensus pattern (44 bp):
AGATAAAAGCTGCTAATACGGTGTGGTAAACCACTAATGGTGCA
Found at i:34172067 original size:27 final size:27
Alignment explanation
Indices: 34172037--34172090 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
34172027 ATAAAATTCT
*
34172037 GGGCAAAACTATAAAATATGAAAATAG
1 GGGCAAAACTATAAAATATAAAAATAG
* * *
34172064 GGGCAAAATTGTAAAATTTAAAAATAG
1 GGGCAAAACTATAAAATATAAAAATAG
34172091 AAAAAAATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.54, C:0.06, G:0.19, T:0.22
Consensus pattern (27 bp):
GGGCAAAACTATAAAATATAAAAATAG
Found at i:34172140 original size:27 final size:26
Alignment explanation
Indices: 34172048--34172141 Score: 75
Period size: 27 Copynumber: 3.5 Consensus size: 26
34172038 GGCAAAACTA
*
34172048 TAAAATATG-AAAATAGGGGCAAAATTG
1 TAAAATTTGAAAAATA-GGG-AAAATTG
** * *
34172075 TAAAATTT-AAAAATAGAAAAAAATA
1 TAAAATTTGAAAAATAGGGAAAATTG
**
34172100 TAAAATCTAAAAAAATAGGGAAAATTTG
1 TAAAAT-TTGAAAAATAGGGAAAA-TTG
34172128 TAAAATTTGAAAAA
1 TAAAATTTGAAAAA
34172142 CAAAGGATGC
Statistics
Matches: 51, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
25 11 0.22
26 2 0.04
27 31 0.61
28 7 0.14
ACGTcount: A:0.61, C:0.02, G:0.13, T:0.24
Consensus pattern (26 bp):
TAAAATTTGAAAAATAGGGAAAATTG
Found at i:34177518 original size:22 final size:23
Alignment explanation
Indices: 34177475--34177518 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
34177465 GCCCCTGCTC
* *
34177475 TTATTAAAAATTAGAAATTTTTT
1 TTATAAAAAATAAGAAATTTTTT
*
34177498 TTATAAAAAATAATAAATTTT
1 TTATAAAAAATAAGAAATTTT
34177519 AGAAAAATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (23 bp):
TTATAAAAAATAAGAAATTTTTT
Found at i:34177544 original size:19 final size:18
Alignment explanation
Indices: 34177496--34177561 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 18
34177486 TAGAAATTTT
34177496 TTTTATAAAAAATAA-TAAA
1 TTTTA-AAAAAA-AATTAAA
**
34177515 TTTTAGAAAAATTATTAAA
1 TTTTA-AAAAAAAATTAAA
34177534 TTTTAATAAAAAAATTAAAA
1 TTTTAA-AAAAAAATT-AAA
34177554 TTTTAAAA
1 TTTTAAAA
34177562 TTTATTAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
18 2 0.05
19 28 0.72
20 9 0.23
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (18 bp):
TTTTAAAAAAAAATTAAA
Found at i:34179453 original size:38 final size:39
Alignment explanation
Indices: 34179352--34179481 Score: 133
Period size: 38 Copynumber: 3.4 Consensus size: 39
34179342 GTGGAGATGT
* * * **
34179352 TTAACATG-TATTCAGTCCAATAGTAGAAATTTACATGC
1 TTAACATGCAATTCAGTTCAATAGTAGCAATAGACATGC
* *
34179390 TTAACATG-TATTCAGTTCAACAGTAGCAATAGACATGC
1 TTAACATGCAATTCAGTTCAATAGTAGCAATAGACATGC
* * *
34179428 TTAACATGCAATT-AGTTTAATAGTAGCAGTAGGCATGC
1 TTAACATGCAATTCAGTTCAATAGTAGCAATAGACATGC
*
34179466 TGAACATGCAA-TCAGT
1 TTAACATGCAATTCAGT
34179482 AATACAAAAG
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
37 1 0.01
38 75 0.95
39 3 0.04
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (39 bp):
TTAACATGCAATTCAGTTCAATAGTAGCAATAGACATGC
Found at i:34182933 original size:21 final size:22
Alignment explanation
Indices: 34182887--34182939 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 22
34182877 CAATCATTTT
34182887 AAAACATTT-GTCTATTTTGGTAG
1 AAAAC-TTTAGTCTATTTT-GTAG
34182910 AAAACTTTAGTCTATTTT-TAG
1 AAAACTTTAGTCTATTTTGTAG
*
34182931 AAAAGTTTA
1 AAAACTTTA
34182940 CAAGTTTATC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 11 0.39
22 3 0.11
23 14 0.50
ACGTcount: A:0.36, C:0.08, G:0.13, T:0.43
Consensus pattern (22 bp):
AAAACTTTAGTCTATTTTGTAG
Found at i:34183712 original size:21 final size:18
Alignment explanation
Indices: 34183682--34183736 Score: 65
Period size: 21 Copynumber: 2.9 Consensus size: 18
34183672 CTTTACACCA
*
34183682 TGTTGCGGATAAACCACT
1 TGTTGTGGATAAACCACT
*
34183700 CATCGTTGTGGATGAACCACT
1 --T-GTTGTGGATAAACCACT
34183721 TGTTGTGGATAAACCA
1 TGTTGTGGATAAACCA
34183737 TTAGTGATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
18 14 0.45
19 1 0.03
20 1 0.03
21 15 0.48
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (18 bp):
TGTTGTGGATAAACCACT
Found at i:34185782 original size:26 final size:26
Alignment explanation
Indices: 34185753--34185819 Score: 82
Period size: 26 Copynumber: 2.6 Consensus size: 26
34185743 TGAAATGCTA
*
34185753 TAAAATTAAATATATTTGAATTTAAT
1 TAAAATTAAATATATTTAAATTTAAT
*
34185779 TAAAATTAAATAT-TTTAAATTTATT
1 TAAAATTAAATATATTTAAATTTAAT
**
34185804 TTTAATTCAAATATAT
1 TAAAATT-AAATATAT
34185820 ATTATCCTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
25 15 0.43
26 19 0.54
27 1 0.03
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (26 bp):
TAAAATTAAATATATTTAAATTTAAT
Found at i:34189689 original size:9 final size:9
Alignment explanation
Indices: 34189612--34189688 Score: 64
Period size: 9 Copynumber: 8.4 Consensus size: 9
34189602 AAAATAAAAA
34189612 AATTCGGGT
1 AATTCGGGT
*
34189621 AATTAGGGT
1 AATTCGGGT
* **
34189630 ATTTTTTGGT
1 A-ATTCGGGT
*
34189640 AATTCGGTT
1 AATTCGGGT
*
34189649 AATTCGGTT
1 AATTCGGGT
*
34189658 AATTCGGTT
1 AATTCGGGT
*
34189667 AATTTGGGT
1 AATTCGGGT
*
34189676 AATTTGGGT
1 AATTCGGGT
34189685 AATT
1 AATT
34189689 TTTAACCAAA
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
9 51 0.89
10 6 0.11
ACGTcount: A:0.23, C:0.05, G:0.26, T:0.45
Consensus pattern (9 bp):
AATTCGGGT
Found at i:34193600 original size:18 final size:18
Alignment explanation
Indices: 34193577--34193619 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
34193567 ATTCAAGATG
34193577 TAATTAATTTAAAATT-TT
1 TAATTAA-TTAAAATTATT
*
34193595 TAATTAATTAAATTTATT
1 TAATTAATTAAAATTATT
34193613 TAATTAA
1 TAATTAA
34193620 AAGCCTTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATTAATTAAAATTATT
Found at i:34199183 original size:25 final size:25
Alignment explanation
Indices: 34199154--34199206 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
34199144 TCAAGTATGG
34199154 AATTATCTGCCAAAGACAGAGAAGA
1 AATTATCTGCCAAAGACAGAGAAGA
*
34199179 AATTATCTGCCAAAGATAGAGAAGA
1 AATTATCTGCCAAAGACAGAGAAGA
34199204 AAT
1 AAT
34199207 CCAAAATCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.49, C:0.13, G:0.19, T:0.19
Consensus pattern (25 bp):
AATTATCTGCCAAAGACAGAGAAGA
Found at i:34202611 original size:50 final size:50
Alignment explanation
Indices: 34202546--34202650 Score: 131
Period size: 50 Copynumber: 2.1 Consensus size: 50
34202536 AATTTCCCTC
* * * * *
34202546 ACACGGCCTGGACATATGCCCGTGTGACC-CTAAATCTAAAACAGTGACTT
1 ACACGACCTAGACATATGCCCGTATG-CCTCTAAATCAAAAACAATGACTT
* *
34202596 ACACGACCTAGACATATGCCCGTATGCCTCTAATTCAAAAACAATGAGTT
1 ACACGACCTAGACATATGCCCGTATGCCTCTAAATCAAAAACAATGACTT
34202646 ACACG
1 ACACG
34202651 GCCTGGCACA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
49 2 0.04
50 45 0.96
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.22
Consensus pattern (50 bp):
ACACGACCTAGACATATGCCCGTATGCCTCTAAATCAAAAACAATGACTT
Found at i:34206146 original size:22 final size:22
Alignment explanation
Indices: 34206121--34206170 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
34206111 TGGACAAGCC
*
34206121 ACCACTAATTTGCAGTTAAACT
1 ACCACTAATTTGCAGATAAACT
34206143 ACCACTAATTTGCAGATAAACT
1 ACCACTAATTTGCAGATAAACT
*
34206165 GCCACT
1 ACCACT
34206171 GATAACACTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.36, C:0.26, G:0.10, T:0.28
Consensus pattern (22 bp):
ACCACTAATTTGCAGATAAACT
Found at i:34216271 original size:23 final size:23
Alignment explanation
Indices: 34216245--34216289 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
34216235 CTCTGTGATG
* *
34216245 CCTTTGTGGCGTATTTCGTAATA
1 CCTTTGTGACATATTTCGTAATA
*
34216268 CCTTTGTGACATATTTTGTAAT
1 CCTTTGTGACATATTTCGTAAT
34216290 GCTTCTGTGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.16, G:0.18, T:0.47
Consensus pattern (23 bp):
CCTTTGTGACATATTTCGTAATA
Found at i:34220133 original size:23 final size:22
Alignment explanation
Indices: 34220107--34220149 Score: 52
Period size: 22 Copynumber: 1.9 Consensus size: 22
34220097 TAGATCTCAT
34220107 AATAAGATGTA-AATCCCTAATCG
1 AATAAG-TGTATAA-CCCTAATCG
*
34220130 AATATGTGTATAACCCTAAT
1 AATAAGTGTATAACCCTAAT
34220150 AACATGTCGT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.30
Consensus pattern (22 bp):
AATAAGTGTATAACCCTAATCG
Found at i:34220683 original size:14 final size:14
Alignment explanation
Indices: 34220664--34220703 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
34220654 TTGATTGGCA
34220664 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
34220678 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
34220692 GGAAAATGTTTT
1 GTAAAATGTTTT
34220704 ACTTTGTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:34225905 original size:24 final size:24
Alignment explanation
Indices: 34225878--34225950 Score: 110
Period size: 24 Copynumber: 3.0 Consensus size: 24
34225868 TGCAATCGAT
*
34225878 AGGGTGAATAGAGGAGCTGTGGAA
1 AGGGTGAAGAGAGGAGCTGTGGAA
* *
34225902 AGGGTGAAGAGAGGAACAGTGGAA
1 AGGGTGAAGAGAGGAGCTGTGGAA
*
34225926 AAGGTGAAGAGAGGAGCTGTGGAA
1 AGGGTGAAGAGAGGAGCTGTGGAA
34225950 A
1 A
34225951 ATGTCTTACC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.38, C:0.04, G:0.45, T:0.12
Consensus pattern (24 bp):
AGGGTGAAGAGAGGAGCTGTGGAA
Found at i:34233042 original size:208 final size:208
Alignment explanation
Indices: 34232684--34233103 Score: 822
Period size: 208 Copynumber: 2.0 Consensus size: 208
34232674 TGATAGCATG
34232684 AATGTTTGATTGAGTTTGTAATTGCATATTTGAGTTATGAGATATGAAAATGTTTGACTGAATGA
1 AATGTTTGATTGAGTTTGTAATTGCATATTTGAGTTATGAGATATGAAAATGTTTGACTGAATGA
*
34232749 TATAATGTGGTGAGATATTAAGCTTATGTATGATTTAAATGCATGAGATATTTGTTATATTGTGT
66 TATAATGTGGTGAGATATTAAGCTTATGTATGATTTAAATGCATGAGATATTTATTATATTGTGT
34232814 ACTGAAAATGGTGCTATTTATGCACAATGAAAATTTCTAAAGTATGTGAAATTGAACGATATTGA
131 ACTGAAAATGGTGCTATTTATGCACAATGAAAATTTCTAAAGTATGTGAAATTGAACGATATTGA
34232879 TTGATACCAACAC
196 TTGATACCAACAC
34232892 AATGTTTGATTGAGTTTGTAATTGCATATTTGAGTTATGAGATATGAAAATGTTTGACTGAATGA
1 AATGTTTGATTGAGTTTGTAATTGCATATTTGAGTTATGAGATATGAAAATGTTTGACTGAATGA
34232957 TATAATGTGGTGAGATATTAAGCTTATGTATGATTTAAATGCATGAGATATTTATTATATTGTGT
66 TATAATGTGGTGAGATATTAAGCTTATGTATGATTTAAATGCATGAGATATTTATTATATTGTGT
*
34233022 ACTGAAAATGGTGCTATTTATGCACAATGAAAATTTCTAAAGTATGTGAAATTGAATGATATTGA
131 ACTGAAAATGGTGCTATTTATGCACAATGAAAATTTCTAAAGTATGTGAAATTGAACGATATTGA
34233087 TTGATACCAACAC
196 TTGATACCAACAC
34233100 AATG
1 AATG
34233104 GTAATTTGAA
Statistics
Matches: 210, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
208 210 1.00
ACGTcount: A:0.35, C:0.06, G:0.20, T:0.39
Consensus pattern (208 bp):
AATGTTTGATTGAGTTTGTAATTGCATATTTGAGTTATGAGATATGAAAATGTTTGACTGAATGA
TATAATGTGGTGAGATATTAAGCTTATGTATGATTTAAATGCATGAGATATTTATTATATTGTGT
ACTGAAAATGGTGCTATTTATGCACAATGAAAATTTCTAAAGTATGTGAAATTGAACGATATTGA
TTGATACCAACAC
Found at i:34244012 original size:21 final size:23
Alignment explanation
Indices: 34243968--34244017 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
34243958 ATCGATTATT
* *
34243968 TTTAGTTTTTATATTTTTTCAAA
1 TTTATTTTTTATATGTTTTCAAA
34243991 TTTATTTTTTATA-GTTTT-AAA
1 TTTATTTTTTATATGTTTTCAAA
34244012 TTTATT
1 TTTATT
34244018 ATTGATAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 9 0.36
22 4 0.16
23 12 0.48
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (23 bp):
TTTATTTTTTATATGTTTTCAAA
Found at i:34256699 original size:3 final size:3
Alignment explanation
Indices: 34256693--34256739 Score: 53
Period size: 3 Copynumber: 15.7 Consensus size: 3
34256683 TTTAGCCACT
*
34256693 TTA TTA TT- TTG TTTA TT- TTA TTA TTA TTA TTA TTA TTA TTA CTTA
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
34256738 TT
1 TT
34256740 TGTTTATGTT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
2 4 0.10
3 30 0.77
4 5 0.13
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:34257292 original size:16 final size:16
Alignment explanation
Indices: 34257273--34257303 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34257263 TACACCCATA
*
34257273 TATATGTACATATTTT
1 TATATATACATATTTT
34257289 TATATATACATATTT
1 TATATATACATATTT
34257304 ATCGTTTCTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATATACATATTTT
Found at i:34269561 original size:46 final size:44
Alignment explanation
Indices: 34269508--34269837 Score: 186
Period size: 46 Copynumber: 7.6 Consensus size: 44
34269498 ATAATACAGG
* *
34269508 TCTTATCTCCCTAAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAG-A-TTCAGA
* *
34269554 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGA-T-AGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCAG--A
* * * * * *
34269598 TCCTATCTCCTTGAGATTACAATGGAGCGGATTAAAG-----GA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCAGA
* * * * *
34269637 TCGTATCTCTCTGA-AGTTACAGTAGAGA-AGATC--ACA-TCAGG
1 TCTTATCTCCCTGAGA-TTACAGTGGA-ACAGATCAAAGATTCAGA
*
34269678 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAG-A-TTCAGA
* * ** ****
34269724 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCAGA
* * * * * *
34269768 TCTCATCTCCCTGAGATTACAGCGGAGCAAATCGAAGA--CACTA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCA-GA
*
34269811 TCCTATCTCCCTGA-AGTTACAGTGGAA
1 TCTTATCTCCCTGAGA-TTACAGTGGAA
34269838 TGGATTAAAA
Statistics
Matches: 220, Mismatches: 47, Indels: 37
0.72 0.15 0.12
Matches are distributed among these distances:
37 1 0.00
38 1 0.00
39 23 0.10
40 1 0.00
41 27 0.12
42 5 0.02
43 24 0.11
44 68 0.31
45 1 0.00
46 69 0.31
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (44 bp):
TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCAGA
Found at i:34269831 original size:43 final size:43
Alignment explanation
Indices: 34269721--34269832 Score: 111
Period size: 44 Copynumber: 2.6 Consensus size: 43
34269711 AAAGAATTTC
* * * * *
34269721 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
1 AGATC-TATCTCCCTGAAGTTACAGCGGAGCAAATCGAAGACAG
34269765 AGATCTCATCTCCCTG-AGATTACAGCGGAGCAAATCGAAGACA-
1 AGATCT-ATCTCCCTGAAG-TTACAGCGGAGCAAATCGAAGACAG
**
34269808 CTATCCTATCTCCCTGAAGTTACAG
1 AGAT-CTATCTCCCTGAAGTTACAG
34269833 TGGAATGGAT
Statistics
Matches: 57, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
43 19 0.33
44 38 0.67
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.24
Consensus pattern (43 bp):
AGATCTATCTCCCTGAAGTTACAGCGGAGCAAATCGAAGACAG
Found at i:34271486 original size:3 final size:3
Alignment explanation
Indices: 34271480--34271511 Score: 55
Period size: 3 Copynumber: 10.3 Consensus size: 3
34271470 TGTTTATTTA
34271480 TAT TAT TAT TAT TAT TAT TAT TAT TACT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT T
34271512 TGTTTATGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:34272064 original size:16 final size:16
Alignment explanation
Indices: 34272045--34272075 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34272035 TACACCCATA
*
34272045 TATATGTACATATTTT
1 TATATATACATATTTT
34272061 TATATATACATATTT
1 TATATATACATATTT
34272076 ATCGTTTCTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATATACATATTTT
Found at i:34276838 original size:9 final size:9
Alignment explanation
Indices: 34276820--34276871 Score: 50
Period size: 9 Copynumber: 5.6 Consensus size: 9
34276810 AAATATTTTT
*
34276820 TAAAACTTA
1 TAAAAATTA
*
34276829 TAAAATTTA
1 TAAAAATTA
34276838 TTAAAAATTA
1 -TAAAAATTA
*
34276848 TAAATACTTA
1 TAAA-AATTA
*
34276858 AAAAAATTA
1 TAAAAATTA
34276867 TAAAA
1 TAAAA
34276872 TATAACTACT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
9 20 0.57
10 15 0.43
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (9 bp):
TAAAAATTA
Found at i:34276841 original size:19 final size:19
Alignment explanation
Indices: 34276814--34276872 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
34276804 ATAATAAAAT
* *
34276814 ATTTTTTAAAACTTATAAA
1 ATTTATTAAAAATTATAAA
34276833 ATTTATTAAAAATTATAAA
1 ATTTATTAAAAATTATAAA
* *
34276852 TACTTA-AAAAAATTATAAA
1 -ATTTATTAAAAATTATAAA
34276871 AT
1 AT
34276873 ATAACTACTT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
18 1 0.03
19 29 0.85
20 4 0.12
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTTATTAAAAATTATAAA
Found at i:34278188 original size:19 final size:20
Alignment explanation
Indices: 34278156--34278194 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
34278146 AGAGACTAAA
34278156 ATGTATAAAATTTGAAATTG
1 ATGTATAAAATTTGAAATTG
* *
34278176 ATGT-TAAATTTTGTAATTG
1 ATGTATAAAATTTGAAATTG
34278195 TAGATAATAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (20 bp):
ATGTATAAAATTTGAAATTG
Found at i:34278597 original size:51 final size:51
Alignment explanation
Indices: 34278521--34278622 Score: 204
Period size: 51 Copynumber: 2.0 Consensus size: 51
34278511 GAAACTTACT
34278521 ATATTATTTGTATTATGTTTGAATCATATTATAATATCAGTTTAGGTTAAG
1 ATATTATTTGTATTATGTTTGAATCATATTATAATATCAGTTTAGGTTAAG
34278572 ATATTATTTGTATTATGTTTGAATCATATTATAATATCAGTTTAGGTTAAG
1 ATATTATTTGTATTATGTTTGAATCATATTATAATATCAGTTTAGGTTAAG
34278623 TGTAATTTGA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.33, C:0.04, G:0.14, T:0.49
Consensus pattern (51 bp):
ATATTATTTGTATTATGTTTGAATCATATTATAATATCAGTTTAGGTTAAG
Found at i:34282020 original size:41 final size:41
Alignment explanation
Indices: 34281975--34282136 Score: 200
Period size: 41 Copynumber: 4.0 Consensus size: 41
34281965 TTGTATAAAA
* * * * * *
34281975 CACCGGCATAAAGCCTACTAGGCACAAAGCCCGATACATTC
1 CACCGGCACAAAGCCTACTAGACATAAAGTCTGATACATTT
34282016 CACCGGCACAAAGCCTACTAGACATAAAGTCTGATACATTT
1 CACCGGCACAAAGCCTACTAGACATAAAGTCTGATACATTT
* *
34282057 CATCGGCACAAAGCCTGCTAGACATAAAGTCTGATACATTT
1 CACCGGCACAAAGCCTACTAGACATAAAGTCTGATACATTT
* * * *
34282098 TACCGGCATC-AAGCCTGCTAGACGTAAAGTCTGAAACAT
1 CACCGGCA-CAAAGCCTACTAGACATAAAGTCTGATACAT
34282137 CTTATTTTCA
Statistics
Matches: 108, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
41 107 0.99
42 1 0.01
ACGTcount: A:0.35, C:0.28, G:0.17, T:0.20
Consensus pattern (41 bp):
CACCGGCACAAAGCCTACTAGACATAAAGTCTGATACATTT
Found at i:34282809 original size:16 final size:17
Alignment explanation
Indices: 34282788--34282822 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
34282778 ATCTAATAAT
34282788 TTATACAT-GTATATAC
1 TTATACATCGTATATAC
*
34282804 TTATACATCGTTTATAC
1 TTATACATCGTATATAC
34282821 TT
1 TT
34282823 CAACTAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.49
Consensus pattern (17 bp):
TTATACATCGTATATAC
Found at i:34286032 original size:42 final size:42
Alignment explanation
Indices: 34285973--34286150 Score: 162
Period size: 42 Copynumber: 4.2 Consensus size: 42
34285963 AGCCAAGTCA
* * * **
34285973 TATGAGTTTCAGTTTAACCCTTTTACGTTTCAGTTCAGCTCT
1 TATGAGCTTCAATTTAACCCTTATGGGTTTCAGTTCAGCTCT
* * * *
34286015 TTTGAGCTTCAATTTAACCCTAATGGGTTTCAGTTTAGCCCT
1 TATGAGCTTCAATTTAACCCTTATGGGTTTCAGTTCAGCTCT
* * *
34286057 TCTGAGCTTC-ATATTAACCCTTATGGGTTTCTGTTCAGCTCC
1 TATGAGCTTCAAT-TTAACCCTTATGGGTTTCAGTTCAGCTCT
* * * * *
34286099 TATGAGCTTCTATTCAACCCTTACGGGTTTTC-GTTTAGCACT
1 TATGAGCTTCAATTTAACCCTTATGGG-TTTCAGTTCAGCTCT
*
34286141 TATGTGCTTC
1 TATGAGCTTC
34286151 TGTGCAACCT
Statistics
Matches: 111, Mismatches: 22, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
41 2 0.02
42 103 0.93
43 6 0.05
ACGTcount: A:0.19, C:0.23, G:0.16, T:0.42
Consensus pattern (42 bp):
TATGAGCTTCAATTTAACCCTTATGGGTTTCAGTTCAGCTCT
Found at i:34286051 original size:21 final size:20
Alignment explanation
Indices: 34286026--34286087 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 20
34286016 TTGAGCTTCA
*
34286026 ATTTAACCCTAATGGGTTTC
1 ATTTAACCCTTATGGGTTTC
* * * *
34286046 AGTTTAGCCCTTCTGAGCTTC
1 A-TTTAACCCTTATGGGTTTC
34286067 ATATTAACCCTTATGGGTTTC
1 AT-TTAACCCTTATGGGTTTC
34286088 TGTTCAGCTC
Statistics
Matches: 31, Mismatches: 9, Indels: 3
0.72 0.21 0.07
Matches are distributed among these distances:
20 2 0.06
21 29 0.94
ACGTcount: A:0.21, C:0.23, G:0.16, T:0.40
Consensus pattern (20 bp):
ATTTAACCCTTATGGGTTTC
Found at i:34286159 original size:42 final size:42
Alignment explanation
Indices: 34286059--34286173 Score: 103
Period size: 42 Copynumber: 2.8 Consensus size: 42
34286049 TTAGCCCTTC
* * *
34286059 TGAGCTTCATAT-TAACCCTTATGGGTTTCTGTTCAGCTCCTA
1 TGAGCTTC-TATGCAACCCTTACGGGTTTCTGTTCAGCACCTA
* * *
34286101 TGAGCTTCTATTCAACCCTTACGGGTTT-TCGTTTAGCACTTA
1 TGAGCTTCTATGCAACCCTTACGGGTTTCT-GTTCAGCACCTA
* * *
34286143 TGTGCTTCTGTGCAA-CCTT-CGGGCTTCTGTT
1 TGAGCTTCTATGCAACCCTTACGGGTTTCTGTT
34286174 TACGATGTAC
Statistics
Matches: 61, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
40 9 0.15
41 9 0.15
42 43 0.70
ACGTcount: A:0.16, C:0.24, G:0.19, T:0.41
Consensus pattern (42 bp):
TGAGCTTCTATGCAACCCTTACGGGTTTCTGTTCAGCACCTA
Found at i:34293363 original size:42 final size:41
Alignment explanation
Indices: 34293316--34293427 Score: 134
Period size: 42 Copynumber: 2.7 Consensus size: 41
34293306 TGAGTTTTAG
* ** *
34293316 TTTAACCCTTTTACGTTTCAGTTCAGCTATTTTGAGCTTCAA
1 TTTAACCCTTATGGGTTTCAGTTCAGCTATTCTGAGCTTC-A
* * *
34293358 TTTAACCCTAATGGGTTTCAGTTTAGCTCTTCTGAGCTTCA
1 TTTAACCCTTATGGGTTTCAGTTCAGCTATTCTGAGCTTCA
*
34293399 TATTAACCCTTATGGGTTTCTGTTCAGCT
1 T-TTAACCCTTATGGGTTTCAGTTCAGCT
34293428 CCTATGAGCT
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
41 2 0.03
42 57 0.97
ACGTcount: A:0.20, C:0.21, G:0.15, T:0.44
Consensus pattern (41 bp):
TTTAACCCTTATGGGTTTCAGTTCAGCTATTCTGAGCTTCA
Found at i:34293428 original size:42 final size:42
Alignment explanation
Indices: 34293330--34293452 Score: 142
Period size: 42 Copynumber: 2.9 Consensus size: 42
34293320 ACCCTTTTAC
* * *
34293330 GTTTCAGTTCAGCTATTTTGAGCTTCA-ATTTAACCCTAATGG
1 GTTTCAGTTCAGCTCTTATGAGCTTCATA-TTAACCCTTATGG
* *
34293372 GTTTCAGTTTAGCTCTTCTGAGCTTCATATTAACCCTTATGG
1 GTTTCAGTTCAGCTCTTATGAGCTTCATATTAACCCTTATGG
* * *
34293414 GTTTCTGTTCAGCTCCTATGAGCTTC-TGTTCAACCCTTA
1 GTTTCAGTTCAGCTCTTATGAGCTTCATATT-AACCCTTA
34293453 CGAGTTGTCG
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
41 3 0.04
42 66 0.94
43 1 0.01
ACGTcount: A:0.20, C:0.23, G:0.16, T:0.41
Consensus pattern (42 bp):
GTTTCAGTTCAGCTCTTATGAGCTTCATATTAACCCTTATGG
Found at i:34297108 original size:24 final size:24
Alignment explanation
Indices: 34297081--34297178 Score: 99
Period size: 25 Copynumber: 4.0 Consensus size: 24
34297071 GTTATTAGGG
*
34297081 TTACTGATTACAGCTCTTATGAGC
1 TTACTGATTACAGCTCGTATGAGC
* * *
34297105 TTACTGATTCTCAGCTTGCATGAGC
1 TTACTGATT-ACAGCTCGTATGAGC
*
34297130 TTACTG-TTATTCAGCTCGTAGGAGC
1 TTACTGATTA--CAGCTCGTATGAGC
* *
34297155 TTACCGTTTACAGCTCGTATGAGC
1 TTACTGATTACAGCTCGTATGAGC
34297179 ATACATGTAT
Statistics
Matches: 60, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
24 24 0.40
25 33 0.55
26 3 0.05
ACGTcount: A:0.21, C:0.22, G:0.20, T:0.36
Consensus pattern (24 bp):
TTACTGATTACAGCTCGTATGAGC
Found at i:34298980 original size:45 final size:45
Alignment explanation
Indices: 34298926--34299057 Score: 183
Period size: 45 Copynumber: 2.9 Consensus size: 45
34298916 TTATTTCTTT
* *
34298926 AATTCGTGATGCCATAGCATCTTTTAGCTATGGTCTTACTCGATAG
1 AATT-GTGATGCCATAACATCTTTTAGCCATGGTCTTACTCGATAG
* * *
34298972 AATTGTGATGCCATAACTTCTTTCAGCCATGGTCTTACTCGATTG
1 AATTGTGATGCCATAACATCTTTTAGCCATGGTCTTACTCGATAG
* * *
34299017 AATCGTGATTCCATAATATCTTTTAGCCATGGTCTTACTCG
1 AATTGTGATGCCATAACATCTTTTAGCCATGGTCTTACTCG
34299058 TTTCTGGTAT
Statistics
Matches: 76, Mismatches: 10, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
45 72 0.95
46 4 0.05
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.38
Consensus pattern (45 bp):
AATTGTGATGCCATAACATCTTTTAGCCATGGTCTTACTCGATAG
Found at i:34299198 original size:15 final size:15
Alignment explanation
Indices: 34299169--34299202 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
34299159 CCAACAAACT
34299169 CAATTCATATATAAA
1 CAATTCATATATAAA
34299184 CAATT-ATATATTAAA
1 CAATTCATATA-TAAA
34299199 CAAT
1 CAAT
34299203 CAAAAACACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (15 bp):
CAATTCATATATAAA
Found at i:34300799 original size:23 final size:24
Alignment explanation
Indices: 34300754--34300801 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
34300744 GAGTAAAGAA
** *
34300754 TTTTATTTTTTTATTTCATTTAGT
1 TTTTATTTTTCAATTTCAATTAGT
34300778 TTTTATTTTTCAATTT-AATTAGT
1 TTTTATTTTTCAATTTCAATTAGT
34300801 T
1 T
34300802 AAAGTTGACG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.71
Consensus pattern (24 bp):
TTTTATTTTTCAATTTCAATTAGT
Found at i:34305204 original size:27 final size:28
Alignment explanation
Indices: 34305165--34305245 Score: 94
Period size: 27 Copynumber: 3.0 Consensus size: 28
34305155 ACACGTCAGG
*
34305165 AAAGAAAAACCTTTATGGCAAACTCT-A
1 AAAGAAAAGCCTTTATGGCAAACTCTGA
* *
34305192 AAAGAAAAGCCTTTGTGGCGAACTCTGA
1 AAAGAAAAGCCTTTATGGCAAACTCTGA
* **
34305220 AAA-AAGAGCCTTTATGGTGAACTCTG
1 AAAGAAAAGCCTTTATGGCAAACTCTG
34305246 TATGGACTGT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
27 43 0.91
28 4 0.09
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.23
Consensus pattern (28 bp):
AAAGAAAAGCCTTTATGGCAAACTCTGA
Found at i:34306085 original size:20 final size:20
Alignment explanation
Indices: 34306060--34306108 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
34306050 CTAGAAACTT
*
34306060 ACAGAAACCTTTCAAATTTG
1 ACAGAAACCTTTCAAATATG
**
34306080 ACAGAAATTTTTCAAATATG
1 ACAGAAACCTTTCAAATATG
34306100 ACAGAAACC
1 ACAGAAACC
34306109 GTTACCTTCT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.45, C:0.18, G:0.10, T:0.27
Consensus pattern (20 bp):
ACAGAAACCTTTCAAATATG
Found at i:34309868 original size:3 final size:3
Alignment explanation
Indices: 34309860--34309931 Score: 144
Period size: 3 Copynumber: 24.0 Consensus size: 3
34309850 TTAAGCCTTT
34309860 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
34309908 TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC
34309932 ACACCACCGC
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 69 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:34320954 original size:21 final size:20
Alignment explanation
Indices: 34320915--34320954 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
34320905 TCCATTATAA
*
34320915 TTATGTCTCTGTATCTGTGG
1 TTATGTCTCTGTATATGTGG
*
34320935 TTATGTGCTCTGTTTATGTG
1 TTATGT-CTCTGTATATGTG
34320955 TTTGAGGTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.10, C:0.12, G:0.25, T:0.53
Consensus pattern (20 bp):
TTATGTCTCTGTATATGTGG
Found at i:34323120 original size:129 final size:129
Alignment explanation
Indices: 34322880--34323123 Score: 407
Period size: 129 Copynumber: 1.9 Consensus size: 129
34322870 GATTGTTGAA
*
34322880 TTATCGACTGGGTTTTTATGATTGTTATAATCTGTCAGATGGTTTTTAACTGTGTTTATAAAAGT
1 TTATCGACTGAGTTTTTATGATTGTTATAATCTGTCAGATGGTTTTTAACTGTGTTTATAAAAGT
*
34322945 TGGATTTTTTTTATAATAACGTTACTGTAACTTTTCAGACTGGGTCTTAACATCTAGGTCGAGT
66 TGGATTTTTTTTATAATAACGTTAATGTAACTTTTCAGACTGGGTCTTAACATCTAGGTCGAGT
*
34323009 TTATCGACTGAGTTTTTATGATTGTTATAATCTGTCAGATGGTTTTTAACTGTGTTTATACAAGT
1 TTATCGACTGAGTTTTTATGATTGTTATAATCTGTCAGATGGTTTTTAACTGTGTTTATAAAAGT
* * * * * *
34323074 TGGTTTTTTTTTCTAATAATGTTAATGTAACTTTTTAGAGTTGGTCTTAA
66 TGGATTTTTTTTATAATAACGTTAATGTAACTTTTCAGACTGGGTCTTAA
34323124 TGTCTAGGCT
Statistics
Matches: 106, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
129 106 1.00
ACGTcount: A:0.25, C:0.09, G:0.18, T:0.48
Consensus pattern (129 bp):
TTATCGACTGAGTTTTTATGATTGTTATAATCTGTCAGATGGTTTTTAACTGTGTTTATAAAAGT
TGGATTTTTTTTATAATAACGTTAATGTAACTTTTCAGACTGGGTCTTAACATCTAGGTCGAGT
Found at i:34323320 original size:6 final size:6
Alignment explanation
Indices: 34323309--34323336 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
34323299 TCCACTCCAT
34323309 ATTTAA ATTTAA ATTTAA ATTTAA ATTT
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTT
34323337 TCAATCAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (6 bp):
ATTTAA
Found at i:34325905 original size:13 final size:13
Alignment explanation
Indices: 34325887--34325934 Score: 62
Period size: 13 Copynumber: 3.8 Consensus size: 13
34325877 CCACTCGCTC
34325887 TATTATTAAATTT
1 TATTATTAAATTT
* *
34325900 TATTATTAGA-TA
1 TATTATTAAATTT
*
34325912 TAATATTAAATTT
1 TATTATTAAATTT
34325925 TATTATTAAA
1 TATTATTAAA
34325935 ATTTCCCTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
12 9 0.32
13 19 0.68
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (13 bp):
TATTATTAAATTT
Found at i:34326925 original size:22 final size:23
Alignment explanation
Indices: 34326899--34326942 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
34326889 GTGATGAGGT
**
34326899 TATCTTATGAATATGTT-AAATC
1 TATCTTAAAAATATGTTGAAATC
34326921 TATCTTAAAAATATGTTGAAAT
1 TATCTTAAAAATATGTTGAAAT
34326943 AGATTGGTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (23 bp):
TATCTTAAAAATATGTTGAAATC
Found at i:34335954 original size:13 final size:13
Alignment explanation
Indices: 34335936--34335961 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
34335926 TCTGTTGCTG
34335936 CACAAAACTTTAT
1 CACAAAACTTTAT
34335949 CACAAAACTTTAT
1 CACAAAACTTTAT
34335962 TTTGTTTATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (13 bp):
CACAAAACTTTAT
Found at i:34336211 original size:5 final size:5
Alignment explanation
Indices: 34336203--34336228 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
34336193 TAACTAAGAT
34336203 AAATA AAATA AAATA AAATA AAATA A
1 AAATA AAATA AAATA AAATA AAATA A
34336229 TAAATCAAAG
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:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:34344803 original size:25 final size:25
Alignment explanation
Indices: 34344775--34344822 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
34344765 AGTCTAAGTA
* *
34344775 TATACTACCTATAATAGTTTCAGGC
1 TATACTACCAAAAATAGTTTCAGGC
*
34344800 TATACTATCAAAAATAGTTTCAG
1 TATACTACCAAAAATAGTTTCAG
34344823 AAAACTTACG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.35
Consensus pattern (25 bp):
TATACTACCAAAAATAGTTTCAGGC
Found at i:34345995 original size:18 final size:18
Alignment explanation
Indices: 34345956--34345991 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
34345946 CATGATGTTC
*
34345956 GCCCGTGTGGGCCGACAT
1 GCCCGTGTGGGCCCACAT
34345974 GCCCGTGT-GGCCCACAT
1 GCCCGTGTGGGCCCACAT
34345991 G
1 G
34345992 GCCCAAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.11, C:0.36, G:0.36, T:0.17
Consensus pattern (18 bp):
GCCCGTGTGGGCCCACAT
Found at i:34348621 original size:20 final size:20
Alignment explanation
Indices: 34348598--34348662 Score: 71
Period size: 20 Copynumber: 3.2 Consensus size: 20
34348588 CACTTACGTG
34348598 CCCCTATTTGTACTTCGGTA
1 CCCCTATTTGTACTTCGGTA
* *
34348618 CCCCTGA-TTGCACTTAC-GTG
1 CCCCT-ATTTGTACTT-CGGTA
*
34348638 CCCCTATTTGTACTTCGATA
1 CCCCTATTTGTACTTCGGTA
34348658 CCCCT
1 CCCCT
34348663 GAATGTACAT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
19 2 0.06
20 32 0.89
21 2 0.06
ACGTcount: A:0.15, C:0.35, G:0.14, T:0.35
Consensus pattern (20 bp):
CCCCTATTTGTACTTCGGTA
Found at i:34348639 original size:40 final size:40
Alignment explanation
Indices: 34348584--34348685 Score: 159
Period size: 40 Copynumber: 2.5 Consensus size: 40
34348574 TTATTGAATT
*
34348584 ATTGCACTTACGTGCCCCTATTTGTACTTCGGTACCCCTG
1 ATTGCACTTACGTGCCCCTATTTGTACTTCGATACCCCTG
34348624 ATTGCACTTACGTGCCCCTATTTGTACTTCGATACCCCTG
1 ATTGCACTTACGTGCCCCTATTTGTACTTCGATACCCCTG
* * * *
34348664 AATGTACATATGTGCCCCTATT
1 ATTGCACTTACGTGCCCCTATT
34348686 GCACTTTGAT
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 57 1.00
ACGTcount: A:0.19, C:0.30, G:0.16, T:0.35
Consensus pattern (40 bp):
ATTGCACTTACGTGCCCCTATTTGTACTTCGATACCCCTG
Found at i:34348669 original size:20 final size:19
Alignment explanation
Indices: 34348605--34348670 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 19
34348595 GTGCCCCTAT
34348605 TTGTACTTCGGTACCCCTGA
1 TTGTACTTC-GTACCCCTGA
* *
34348625 TTGCACTTACGTGCCCCT-A
1 TTGTACTT-CGTACCCCTGA
34348644 TTTGTACTTCGATACCCCTGA
1 -TTGTACTTCG-TACCCCTGA
*
34348665 ATGTAC
1 TTGTAC
34348671 ATATGTGCCC
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
19 3 0.08
20 32 0.86
21 2 0.05
ACGTcount: A:0.18, C:0.30, G:0.17, T:0.35
Consensus pattern (19 bp):
TTGTACTTCGTACCCCTGA
Found at i:34355069 original size:27 final size:28
Alignment explanation
Indices: 34355007--34355072 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 28
34354997 AAGGCCTATA
* *
34355007 GGCCAATTTTTTTTTAAATTAAGGTTTTG
1 GGCCAA-TTTTTTTTAAATTAAGATATTG
*
34355036 GGTCAATTTTTTTT-AATTAGAGATATT-
1 GGCCAATTTTTTTTAAATTA-AGATATTG
34355063 GGCCAATTTT
1 GGCCAATTTT
34355073 ATTGGGATGC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
27 14 0.44
28 13 0.41
29 5 0.16
ACGTcount: A:0.26, C:0.08, G:0.17, T:0.50
Consensus pattern (28 bp):
GGCCAATTTTTTTTAAATTAAGATATTG
Found at i:34356802 original size:9 final size:9
Alignment explanation
Indices: 34356790--34356840 Score: 50
Period size: 9 Copynumber: 5.6 Consensus size: 9
34356780 ATTAAAAAGA
34356790 AGAGAGTTG
1 AGAGAGTTG
*
34356799 AGAGACTTG
1 AGAGAGTTG
*
34356808 AGAGGGTTTG
1 AGAGAG-TTG
34356818 AGAG-GATTG
1 AGAGAG-TTG
*
34356827 AGAGACTTG
1 AGAGAGTTG
34356836 AGAGA
1 AGAGA
34356841 AGAATGTGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
9 28 0.80
10 7 0.20
ACGTcount: A:0.33, C:0.04, G:0.41, T:0.22
Consensus pattern (9 bp):
AGAGAGTTG
Found at i:34358477 original size:3 final size:3
Alignment explanation
Indices: 34358469--34358506 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
34358459 GAGTGAAAAA
34358469 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
34358507 CGACAAGGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:34359114 original size:3 final size:3
Alignment explanation
Indices: 34359106--34359143 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
34359096 AACATTTTTG
34359106 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
34359144 GAGTTTAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:34360015 original size:6 final size:6
Alignment explanation
Indices: 34360000--34360033 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
34359990 ATCTACCCAA
* *
34360000 CCCTGT CCCTGC CCCTGC CCCTGC CTCTGC CCCT
1 CCCTGC CCCTGC CCCTGC CCCTGC CCCTGC CCCT
34360034 TTTCTCCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.62, G:0.15, T:0.24
Consensus pattern (6 bp):
CCCTGC
Found at i:34362380 original size:3 final size:3
Alignment explanation
Indices: 34362372--34362402 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
34362362 CCATGATCTT
34362372 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
34362403 CATCATCAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:34373921 original size:46 final size:46
Alignment explanation
Indices: 34373834--34373923 Score: 117
Period size: 46 Copynumber: 2.0 Consensus size: 46
34373824 GTTGCAATTA
* *
34373834 TAGTGGCTCGACCACACATATCTGTTTTGGTAACTTGACTGCAATG
1 TAGTGGCTCGACCACACATATCTGATTTGGTAACTTAACTGCAATG
* * * **
34373880 TAGTGGCTTGACCACATATATTTGATTTGGTAGTTTAACTGCAA
1 TAGTGGCTCGACCACACATATCTGATTTGGTAACTTAACTGCAA
34373924 CTTTGGTGGC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.36
Consensus pattern (46 bp):
TAGTGGCTCGACCACACATATCTGATTTGGTAACTTAACTGCAATG
Found at i:34374753 original size:29 final size:30
Alignment explanation
Indices: 34374710--34374787 Score: 95
Period size: 29 Copynumber: 2.6 Consensus size: 30
34374700 AAATTGAATC
* *
34374710 AAATCAAATTTTCATGTATAAAATCGCACA-
1 AAATCAAA-GTTCATGTACAAAATCGCACAT
* *
34374740 AAATCAAAGTTCATGTACAACATTGCACATT
1 AAATCAAAGTTCATGTACAAAATCGCACA-T
34374771 AAATCAAAGTTCATGTA
1 AAATCAAAGTTCATGTA
34374788 AATATTCATC
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
29 17 0.40
30 8 0.19
31 17 0.40
ACGTcount: A:0.45, C:0.17, G:0.09, T:0.29
Consensus pattern (30 bp):
AAATCAAAGTTCATGTACAAAATCGCACAT
Found at i:34376984 original size:18 final size:18
Alignment explanation
Indices: 34376958--34377002 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
34376948 CGTTCGTTTG
34376958 CAAAACATTATTC-ATTT
1 CAAAACATTATTCAATTT
*
34376975 ACAAATCATTATTCAATTT
1 -CAAAACATTATTCAATTT
34376994 CAAAACATT
1 CAAAACATT
34377003 TTCTTATTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 20 0.83
19 4 0.17
ACGTcount: A:0.44, C:0.18, G:0.00, T:0.38
Consensus pattern (18 bp):
CAAAACATTATTCAATTT
Found at i:34380766 original size:39 final size:38
Alignment explanation
Indices: 34380711--34380889 Score: 196
Period size: 39 Copynumber: 4.6 Consensus size: 38
34380701 GAAAGTACTA
* *
34380711 TCAGGAGTACCAAAGTACAACAAGGGCACGTAAGTGCGT
1 TCAGG-GTACCGAAGTACAACAAGGGCACGTAAGTGCAT
*
34380750 TCAGGGATACCGAAGTACAACAAGGGTACGTAAGTGCAT
1 TCAGGG-TACCGAAGTACAACAAGGGCACGTAAGTGCAT
* * *
34380789 TCAGTGGTACTGAAGTACAATAGGGGCACGTAAGTGCAT
1 TCAG-GGTACCGAAGTACAACAAGGGCACGTAAGTGCAT
* * * * *
34380828 TTAGGGGTACCGAAGTACAATAGGGGCATGTACGTGCAT
1 TCA-GGGTACCGAAGTACAACAAGGGCACGTAAGTGCAT
* *
34380867 TCAAAGGTACTGAAGTACAACAA
1 TC-AGGGTACCGAAGTACAACAA
34380890 TTTTTCTACA
Statistics
Matches: 120, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
38 1 0.01
39 115 0.96
40 4 0.03
ACGTcount: A:0.35, C:0.17, G:0.28, T:0.20
Consensus pattern (38 bp):
TCAGGGTACCGAAGTACAACAAGGGCACGTAAGTGCAT
Found at i:34380853 original size:19 final size:19
Alignment explanation
Indices: 34380752--34380853 Score: 64
Period size: 19 Copynumber: 5.3 Consensus size: 19
34380742 AAGTGCGTTC
* *
34380752 AGGGATACCGAAGTACAAC
1 AGGGGTACCGAAGTACAAT
* * *
34380771 AAGGGTA-CGTAAGTGCATT
1 AGGGGTACCG-AAGTACAAT
* *
34380790 CAGTGGTACTGAAGTACAAT
1 -AGGGGTACCGAAGTACAAT
* * *
34380810 AGGGGCA-CGTAAGTGCATTT
1 AGGGGTACCG-AAGTACA-AT
34380830 AGGGGTACCGAAGTACAAT
1 AGGGGTACCGAAGTACAAT
34380849 AGGGG
1 AGGGG
34380854 CATGTACGTG
Statistics
Matches: 59, Mismatches: 18, Indels: 12
0.66 0.20 0.13
Matches are distributed among these distances:
18 3 0.05
19 28 0.47
20 25 0.42
21 3 0.05
ACGTcount: A:0.33, C:0.15, G:0.32, T:0.20
Consensus pattern (19 bp):
AGGGGTACCGAAGTACAAT
Found at i:34380865 original size:78 final size:78
Alignment explanation
Indices: 34380723--34380889 Score: 226
Period size: 78 Copynumber: 2.1 Consensus size: 78
34380713 AGGAGTACCA
* *
34380723 AAGTACAACAAGGGCACGTAAGTGCGTTCAGGGATACCGAAGTACAACAAGGGTACGTAAGTGCA
1 AAGTACAACAAGGGCACGTAAGTGCATTCAGGGATACCGAAGTACAACAAGGGCACGTAAGTGCA
**
34380788 TTCAGTGGTACTG
66 TTCAAAGGTACTG
* * * * * * * *
34380801 AAGTACAATAGGGGCACGTAAGTGCATTTAGGGGTACCGAAGTACAATAGGGGCATGTACGTGCA
1 AAGTACAACAAGGGCACGTAAGTGCATTCAGGGATACCGAAGTACAACAAGGGCACGTAAGTGCA
34380866 TTCAAAGGTACTG
66 TTCAAAGGTACTG
34380879 AAGTACAACAA
1 AAGTACAACAA
34380890 TTTTTCTACA
Statistics
Matches: 75, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
78 75 1.00
ACGTcount: A:0.35, C:0.17, G:0.29, T:0.20
Consensus pattern (78 bp):
AAGTACAACAAGGGCACGTAAGTGCATTCAGGGATACCGAAGTACAACAAGGGCACGTAAGTGCA
TTCAAAGGTACTG
Found at i:34388459 original size:25 final size:24
Alignment explanation
Indices: 34388427--34388476 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 24
34388417 ACCCTTATCA
34388427 TCTCTTCACTT-CTCTCTCATTTTTC
1 TCTCTTCA-TTCCTCTC-CATTTTTC
*
34388452 TCTCTTCATTCCTTTCCATTTTTC
1 TCTCTTCATTCCTCTCCATTTTTC
34388476 T
1 T
34388477 TCATTTCCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 11 0.48
25 12 0.52
ACGTcount: A:0.08, C:0.34, G:0.00, T:0.58
Consensus pattern (24 bp):
TCTCTTCATTCCTCTCCATTTTTC
Found at i:34388476 original size:24 final size:25
Alignment explanation
Indices: 34388427--34388476 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 25
34388417 ACCCTTATCA
34388427 TCTCTTCACTTCTCTCTCATTTTTC
1 TCTCTTCACTTCTCTCTCATTTTTC
*
34388452 TCTCTTCA-TTC-CTTTCCATTTTTC
1 TCTCTTCACTTCTCTCT-CATTTTTC
34388476 T
1 T
34388477 TCATTTCCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 3 0.13
24 12 0.52
25 8 0.35
ACGTcount: A:0.08, C:0.34, G:0.00, T:0.58
Consensus pattern (25 bp):
TCTCTTCACTTCTCTCTCATTTTTC
Found at i:34398228 original size:26 final size:27
Alignment explanation
Indices: 34398199--34398335 Score: 170
Period size: 27 Copynumber: 5.1 Consensus size: 27
34398189 TATAAAGATC
*
34398199 ATTTTACCCTTAG-GGGTATTACGGTA
1 ATTTTACCCTTAGAGGGTATTTCGGTA
**
34398225 ATTTTACCCTTAG-GGGTATTTTAGTA
1 ATTTTACCCTTAGAGGGTATTTCGGTA
* * *
34398251 ATTTTAACCTTTGAGGGTATTTCGATA
1 ATTTTACCCTTAGAGGGTATTTCGGTA
* *
34398278 ATTTTACCCTTCGAGGGTATTTCAGTA
1 ATTTTACCCTTAGAGGGTATTTCGGTA
* *
34398305 ATTTTACCCTTTGAGGGTATTTCGATA
1 ATTTTACCCTTAGAGGGTATTTCGGTA
34398332 ATTT
1 ATTT
34398336 ACTCATGAAT
Statistics
Matches: 95, Mismatches: 15, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
26 34 0.36
27 61 0.64
ACGTcount: A:0.23, C:0.14, G:0.19, T:0.44
Consensus pattern (27 bp):
ATTTTACCCTTAGAGGGTATTTCGGTA
Found at i:34398316 original size:54 final size:53
Alignment explanation
Indices: 34398199--34398335 Score: 204
Period size: 54 Copynumber: 2.6 Consensus size: 53
34398189 TATAAAGATC
* * * *
34398199 ATTTTACCCTTAG-GGGTATTACGGTAATTTTACCCTTAGGGGTATTTTAGTA
1 ATTTTACCCTTTGAGGGTATTTCGATAATTTTACCCTTAGGGGTATTTCAGTA
* *
34398251 ATTTTAACCTTTGAGGGTATTTCGATAATTTTACCCTTCGAGGGTATTTCAGTA
1 ATTTTACCCTTTGAGGGTATTTCGATAATTTTACCCTTAG-GGGTATTTCAGTA
34398305 ATTTTACCCTTTGAGGGTATTTCGATAATTT
1 ATTTTACCCTTTGAGGGTATTTCGATAATTT
34398336 ACTCATGAAT
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
52 11 0.14
53 23 0.30
54 42 0.55
ACGTcount: A:0.23, C:0.14, G:0.19, T:0.44
Consensus pattern (53 bp):
ATTTTACCCTTTGAGGGTATTTCGATAATTTTACCCTTAGGGGTATTTCAGTA
Found at i:34399498 original size:571 final size:571
Alignment explanation
Indices: 34398416--34399558 Score: 1905
Period size: 571 Copynumber: 2.0 Consensus size: 571
34398406 ACGGCTTTTT
* * *
34398416 GGCTTTTCGCCGATCTACGGTTGCAGTGGGTGATTACACACTTGATTACGAGAAACGCGCCAACC
1 GGCTTTTCGCCGATCTACGATTGCAGTGGGTGATTACACACCTGATTACGAGAAACGCGCAAACC
* * *
34398481 TCCACAGACACCAACCTAGATTTCATCAACTCACAAGTCAGCCCTTAAAGTAATACACCCTATTA
66 TCCACAGACACCAACCTAGATTTCATCAAATCACAAGTCAGCCCTTAAAGCAAGACACCCTATTA
* *
34398546 ATAACACTTAAACCACACACCATCCTTACCTTGCTTGATAGAGGGTAACTTAACTCCTTCAAGAC
131 ATAACACTTAAACCACACACCATCCTTACCTTGCTTGATAGAAGGTAACTTAACTCCTTAAAGAC
* ** *
34398611 TCCCAACCGAAAATGGTCACCCACTTAATGATTACCTGTACCACAACACAGATCTTCATAAACTA
196 TCCCAACCGAAAATGGTCACCCACCTAATGATTACCAATACCACAACACAAATCTTCATAAACTA
* *
34398676 ACTTGGCCAAAATAGTGGCCAAGAGGAGTATTCAATTTTAATGAAAAAGAAAGAAAGAGAACCAA
261 ACTAGGACAAAATAGTGGCCAAGAGGAGTATTCAATTTTAATGAAAAAGAAAGAAAGAGAACCAA
*
34398741 TTTTAAACAAAAAGTGAAGAGTATTCAAACTTTACCGATAACTAGGAATACTTGCAGCACCGAGA
326 TTTTAAACAAAAAGTGAAGAGTATTCAAACTTTACCAATAACTAGGAATACTTGCAGCACCGAGA
* *
34398806 CAGTAAAAATAGTGAAGAGAAGATCGGCGCAGAGGAATAGAGCAAAAGGTGATAATCGGCTGAAC
391 CAGTAAAAATAGCGAAGAGAAGATCGGCGCAGAGGAATAAAGCAAAAGGTGATAATCGGCTGAAC
34398871 CACACTCCAAATAGAGAGATCGCTCTCAGTCAAAAAGAGAAGAAAATAATAAAAGGTAAAATAAA
456 CACACTCCAAATAGAGAGATCGCTCTCAGTCAAAAAGAGAAGAAAATAATAAAAGGTAAAATAAA
34398936 ATCAGAATAGAAAGAAAGAGAGGGATAACATGCCAAAGAAAAAGAGGAGGA
521 ATCAGAATAGAAAGAAAGAGAGGGATAACATGCCAAAGAAAAAGAGGAGGA
* *
34398987 GGCTTTTCGTCGATCTACGATTGCAGTGGGTGATTACACACCTGATTACGAGAAATGCGCAAACC
1 GGCTTTTCGCCGATCTACGATTGCAGTGGGTGATTACACACCTGATTACGAGAAACGCGCAAACC
* *
34399052 TCCA-TGCACACCAACCTAGATTTCATCAAATCACAAGTCAGCCCTTAAAGCAAGACACCCTTTT
66 TCCACAG-ACACCAACCTAGATTTCATCAAATCACAAGTCAGCCCTTAAAGCAAGACACCCTATT
* *
34399116 AATAACACTTAAACCACACACCATCCTTAGCTTGCTTGATAGAAGGTGACTTAACTCCTTAAAGA
130 AATAACACTTAAACCACACACCATCCTTACCTTGCTTGATAGAAGGTAACTTAACTCCTTAAAGA
34399181 CTCCCAACCGAAAATGGTCACCCACCTAACT-ATTACCAATACCACAACACAAATCTTCATAAAC
195 CTCCCAACCGAAAATGGTCACCCACCTAA-TGATTACCAATACCACAACACAAATCTTCATAAAC
* *
34399245 TAACTAGGACAAAATAGTGGCTAAGAGGAGTATTCGATTTTAATGAAAAAGAAAGAAAGAGAACC
259 TAACTAGGACAAAATAGTGGCCAAGAGGAGTATTCAATTTTAATGAAAAAGAAAGAAAGAGAACC
* *
34399310 GATTTTAAACAAAAAGTGAAGAGTATTCAAACTTTACCAATAA-TCAGGAATACTTGTAGCACCG
324 AATTTTAAACAAAAAGTGAAGAGTATTCAAACTTTACCAATAACT-AGGAATACTTGCAGCACCG
* * * * * *
34399374 AGATAGTAAAAATAGCGAGGAGAATATCGGCTCAGAGGAATAAAGCAAAAGGTGATAATCTGTTG
388 AGACAGTAAAAATAGCGAAGAGAAGATCGGCGCAGAGGAATAAAGCAAAAGGTGATAATCGGCTG
* *
34399439 AACTACACTCCAAATAGAGAGATCGCTCTCAGTCAACAAGAGAAGAAAATAATAAAAGGTAAAAT
453 AACCACACTCCAAATAGAGAGATCGCTCTCAGTCAAAAAGAGAAGAAAATAATAAAAGGTAAAAT
* *
34399504 AAAATCAGAATAGAAAGAAAGAGAGGGATAACCTGTCAAAGAAAAAGAGGAGGA
518 AAAATCAGAATAGAAAGAAAGAGAGGGATAACATGCCAAAGAAAAAGAGGAGGA
34399558 G
1 G
34399559 AGGTCAGAGA
Statistics
Matches: 532, Mismatches: 37, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
570 2 0.00
571 529 0.99
572 1 0.00
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.20
Consensus pattern (571 bp):
GGCTTTTCGCCGATCTACGATTGCAGTGGGTGATTACACACCTGATTACGAGAAACGCGCAAACC
TCCACAGACACCAACCTAGATTTCATCAAATCACAAGTCAGCCCTTAAAGCAAGACACCCTATTA
ATAACACTTAAACCACACACCATCCTTACCTTGCTTGATAGAAGGTAACTTAACTCCTTAAAGAC
TCCCAACCGAAAATGGTCACCCACCTAATGATTACCAATACCACAACACAAATCTTCATAAACTA
ACTAGGACAAAATAGTGGCCAAGAGGAGTATTCAATTTTAATGAAAAAGAAAGAAAGAGAACCAA
TTTTAAACAAAAAGTGAAGAGTATTCAAACTTTACCAATAACTAGGAATACTTGCAGCACCGAGA
CAGTAAAAATAGCGAAGAGAAGATCGGCGCAGAGGAATAAAGCAAAAGGTGATAATCGGCTGAAC
CACACTCCAAATAGAGAGATCGCTCTCAGTCAAAAAGAGAAGAAAATAATAAAAGGTAAAATAAA
ATCAGAATAGAAAGAAAGAGAGGGATAACATGCCAAAGAAAAAGAGGAGGA
Found at i:34401729 original size:28 final size:28
Alignment explanation
Indices: 34401672--34401729 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 28
34401662 TATAAAATAA
* *
34401672 TTAATTTGTACTTAAATTATTAGAATTT
1 TTAATTTGTACTTAAATTATAAGAAATT
* *
34401700 TTAATTT-TACTTAATTTTATAATAAATT
1 TTAATTTGTACTTAA-ATTATAAGAAATT
34401728 TT
1 TT
34401730 GATTAATTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
27 7 0.28
28 18 0.72
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.57
Consensus pattern (28 bp):
TTAATTTGTACTTAAATTATAAGAAATT
Found at i:34410029 original size:13 final size:14
Alignment explanation
Indices: 34410010--34410047 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
34410000 CAATGGCATA
34410010 GAAATAATATAAAC
1 GAAATAATATAAAC
34410024 -AAATAA-ATAAAC
1 GAAATAATATAAAC
34410036 GAAATTAATATA
1 GAAA-TAATATA
34410048 CAAAAAAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 6 0.29
13 9 0.43
14 3 0.14
15 3 0.14
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.24
Consensus pattern (14 bp):
GAAATAATATAAAC
Found at i:34410659 original size:17 final size:17
Alignment explanation
Indices: 34410599--34410671 Score: 60
Period size: 17 Copynumber: 4.3 Consensus size: 17
34410589 AAATAAAAAA
*
34410599 ATATAAAAGTGTATATGC
1 ATATAAAA-TGTATATGT
* *
34410617 ATATAAAA-GT-TAGGAA
1 ATATAAAATGTATATG-T
*
34410633 ATAAAAAATGTATATGT
1 ATATAAAATGTATATGT
* *
34410650 ATATAAAATGTAAATAT
1 ATATAAAATGTATATGT
34410667 ATATA
1 ATATA
34410672 TGTATATAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 7
0.75 0.14 0.12
Matches are distributed among these distances:
15 3 0.07
16 9 0.20
17 21 0.48
18 11 0.25
ACGTcount: A:0.53, C:0.01, G:0.12, T:0.33
Consensus pattern (17 bp):
ATATAAAATGTATATGT
Found at i:34411174 original size:24 final size:23
Alignment explanation
Indices: 34411128--34411174 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
34411118 AAATTAAATA
34411128 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTACAAAATCATATCT
* *
34411151 TCTAAGATTGCATATATCATATCT
1 TCTAAGATTACA-AAATCATATCT
34411175 AAGATTACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.38, C:0.17, G:0.06, T:0.38
Consensus pattern (23 bp):
TCTAAGATTACAAAATCATATCT
Found at i:34411177 original size:21 final size:21
Alignment explanation
Indices: 34411125--34411186 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 21
34411115 TACAAATTAA
*
34411125 ATATCTAAGATTACA-AAATC
1 ATATCTAAGATTACATATATC
*
34411145 ATATCTTCTAAGATTGCATATATC
1 ATA---TCTAAGATTACATATATC
34411169 ATATCTAAGATTACATAT
1 ATATCTAAGATTACATAT
34411187 CCTTGAAGAT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
20 3 0.09
21 14 0.40
23 11 0.31
24 7 0.20
ACGTcount: A:0.42, C:0.15, G:0.06, T:0.37
Consensus pattern (21 bp):
ATATCTAAGATTACATATATC
Found at i:34415978 original size:29 final size:30
Alignment explanation
Indices: 34415936--34415998 Score: 94
Period size: 29 Copynumber: 2.1 Consensus size: 30
34415926 ACAATATCAA
*
34415936 AAATAATTTGATCTTTATCCAGCCAA-TTT
1 AAATAATTTAATCTTTATCCAGCCAACTTT
34415965 CAAAT-ATTTAATCTTTATCCAGCCAACTTT
1 -AAATAATTTAATCTTTATCCAGCCAACTTT
34415995 AAAT
1 AAAT
34415999 CTCCAATCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
29 24 0.77
30 7 0.23
ACGTcount: A:0.37, C:0.19, G:0.05, T:0.40
Consensus pattern (30 bp):
AAATAATTTAATCTTTATCCAGCCAACTTT
Found at i:34416006 original size:29 final size:29
Alignment explanation
Indices: 34415946--34416009 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
34415936 AAATAATTTG
**
34415946 ATCTTTATCCAGCCAATTTCAAATATTTA
1 ATCTTTATCCAGCCAATTTCAAATATCCA
*
34415975 ATCTTTATCCAGCCAACTTT-AAATCTCCA
1 ATCTTTATCCAGCCAA-TTTCAAATATCCA
34416004 ATCTTT
1 ATCTTT
34416010 CAATCTACTC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
29 28 0.90
30 3 0.10
ACGTcount: A:0.31, C:0.25, G:0.03, T:0.41
Consensus pattern (29 bp):
ATCTTTATCCAGCCAATTTCAAATATCCA
Found at i:34416886 original size:28 final size:26
Alignment explanation
Indices: 34416835--34416888 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
34416825 CGAGCCGATA
* *
34416835 TATATTTAGCAAGTTTTGTGCCAGTG
1 TATATTTAGCAAGTTATGTACCAGTG
34416861 TATATTTAGCAAGTACTATGTACCAGTG
1 TATATTTAGCAAGT--TATGTACCAGTG
34416889 ATGGATTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 14 0.58
28 10 0.42
ACGTcount: A:0.28, C:0.13, G:0.20, T:0.39
Consensus pattern (26 bp):
TATATTTAGCAAGTTATGTACCAGTG
Found at i:34424886 original size:37 final size:38
Alignment explanation
Indices: 34424817--34424891 Score: 125
Period size: 37 Copynumber: 1.9 Consensus size: 38
34424807 GTAAGTATTT
34424817 ATTTTGAGTACCTATTAGAATTAATAAAATAAATAAATAA
1 ATTTTGAGTACCTATT--AATTAATAAAATAAATAAATAA
34424857 ATTTTGAGTACCTATT-ATTAATAAAATAAATAAAT
1 ATTTTGAGTACCTATTAATTAATAAAATAAATAAAT
34424892 TTCACAGTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
37 19 0.54
40 16 0.46
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.37
Consensus pattern (38 bp):
ATTTTGAGTACCTATTAATTAATAAAATAAATAAATAA
Found at i:34430789 original size:50 final size:50
Alignment explanation
Indices: 34430714--34430900 Score: 177
Period size: 50 Copynumber: 3.8 Consensus size: 50
34430704 TATTAAGGTT
* *
34430714 ATGAGAAGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAAGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAG
* ** ** *
34430764 ATGAGAGGTCCCCCGTAAGACCATGTCTATGACATGGCATGGGCACCGAT
1 ATGAGAAGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAG
* * * * *
34430814 ATGAGAACTCCCATGTAAGACCATATCTGGGATATGACAATGGTAGTA-C-AG
1 ATGAGAAGTCCCATGTAAGACCATGTCTGGGACATGGC-ATGG--GCACCGAG
*
34430865 --GA-AACATCCCATGTAAGACCATGTCTGGGACATGGC
1 ATGAGAA-GTCCCATGTAAGACCATGTCTGGGACATGGC
34430901 TTTGGCATGT
Statistics
Matches: 110, Mismatches: 23, Indels: 9
0.77 0.16 0.06
Matches are distributed among these distances:
48 2 0.02
49 29 0.26
50 71 0.65
51 5 0.05
52 1 0.01
53 2 0.02
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.21
Consensus pattern (50 bp):
ATGAGAAGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAG
Found at i:34431135 original size:20 final size:20
Alignment explanation
Indices: 34431110--34431148 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
34431100 TGAGTTATTT
34431110 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
34431130 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
34431149 GAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:34448388 original size:26 final size:26
Alignment explanation
Indices: 34448353--34448404 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
34448343 TAGACATAGC
34448353 TTTTGCAGTGAGCTTAGTGGGTCAAT
1 TTTTGCAGTGAGCTTAGTGGGTCAAT
34448379 TTTTGCAGTGAGCTTAGTGGGTCAAT
1 TTTTGCAGTGAGCTTAGTGGGTCAAT
34448405 ATACTTGAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.19, C:0.12, G:0.31, T:0.38
Consensus pattern (26 bp):
TTTTGCAGTGAGCTTAGTGGGTCAAT
Found at i:34454147 original size:38 final size:38
Alignment explanation
Indices: 34454096--34454171 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
34454086 GCATTGTTGC
34454096 AATACAAGTCACTTCAAAGCTGCCAAGAGAGTTCTCAG
1 AATACAAGTCACTTCAAAGCTGCCAAGAGAGTTCTCAG
34454134 AATACAAGTCACTTCAAAGCTGCCAAGAGAGTTCTCAG
1 AATACAAGTCACTTCAAAGCTGCCAAGAGAGTTCTCAG
34454172 GTACATCAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.37, C:0.24, G:0.18, T:0.21
Consensus pattern (38 bp):
AATACAAGTCACTTCAAAGCTGCCAAGAGAGTTCTCAG
Found at i:34457197 original size:21 final size:23
Alignment explanation
Indices: 34457139--34457199 Score: 81
Period size: 25 Copynumber: 2.7 Consensus size: 23
34457129 CATATGTATC
34457139 TTATTATATATATTTTATTTATTT
1 TTATTATATATATTTTA-TTATTT
*
34457163 TTATATATACATATTTTA-TATTT
1 TTAT-TATATATATTTTATTATTT
34457186 TTATTAT-TATATTT
1 TTATTATATATATTT
34457200 ATGCATATAC
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
21 6 0.18
22 3 0.09
23 9 0.26
24 4 0.12
25 12 0.35
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (23 bp):
TTATTATATATATTTTATTATTT
Found at i:34461421 original size:19 final size:19
Alignment explanation
Indices: 34461390--34461435 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
34461380 GATTCAATGC
*
34461390 AAAAAA-AAGGAAAAA-AA
1 AAAAAAGAACGAAAAACAA
34461407 GAAAAAAGAACGAAAAACAA
1 -AAAAAAGAACGAAAAACAA
34461427 AAAAAAGAA
1 AAAAAAGAA
34461436 ACAAAAAACC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 6 0.24
19 17 0.68
20 2 0.08
ACGTcount: A:0.83, C:0.04, G:0.13, T:0.00
Consensus pattern (19 bp):
AAAAAAGAACGAAAAACAA
Done.