Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 295 of 325
Found at i:94028257 original size:36 final size:36
Alignment explanation
Indices: 94028181--94028258 Score: 106
Period size: 36 Copynumber: 2.2 Consensus size: 36
94028171 CATATCTTCT
*
94028181 AAGATTGCATATCATATCTAAGATTATATCATATCT
1 AAGATTGCATATCATATCTAAGATTATATCATATCG
*
94028217 AAGATTGCATATCATATCTCAGATTGCATATCAT-T-G
1 AAGATTGCATATCATATCTAAGATT--ATATCATATCG
94028253 AAGATT
1 AAGATT
94028259 ATATTTCCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
36 30 0.79
37 1 0.03
38 7 0.18
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (36 bp):
AAGATTGCATATCATATCTAAGATTATATCATATCG
Found at i:94038727 original size:26 final size:26
Alignment explanation
Indices: 94038688--94038795 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
94038678 TGGTACAAAT
*
94038688 TGATAATGGGTTAGGTAAATGTTCAA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
94038714 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
94038740 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
94038766 TGATAATGGGTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
94038792 TGAT
1 TGAT
94038796 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:94051632 original size:30 final size:30
Alignment explanation
Indices: 94051596--94051678 Score: 89
Period size: 29 Copynumber: 2.8 Consensus size: 30
94051586 ACGGACTCGG
*
94051596 ATACCAAGTTACTCGTCTGAGCTAGAAATT
1 ATACCAAGTTACTCGTCCGAGCTAGAAATT
* * * *
94051626 ATACCAAGCTGCTCGTCCAAG-TTGAAATT
1 ATACCAAGTTACTCGTCCGAGCTAGAAATT
*
94051655 ATACC-AGATTACTTGTCCGAGCTA
1 ATACCAAG-TTACTCGTCCGAGCTA
94051679 AACCTATATC
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
28 2 0.05
29 21 0.51
30 18 0.44
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (30 bp):
ATACCAAGTTACTCGTCCGAGCTAGAAATT
Found at i:94053302 original size:36 final size:36
Alignment explanation
Indices: 94053262--94053334 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
94053252 TAATTGACTT
94053262 GGTCCAAATTTTCTGTACCTAAAACCAACCAAACTC
1 GGTCCAAATTTTCTGTACCTAAAACCAACCAAACTC
94053298 GGTCCAAATTTTCTGTACCTAAAACCAACCAAACTC
1 GGTCCAAATTTTCTGTACCTAAAACCAACCAAACTC
94053334 G
1 G
94053335 CCCTATCTAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.36, C:0.30, G:0.10, T:0.25
Consensus pattern (36 bp):
GGTCCAAATTTTCTGTACCTAAAACCAACCAAACTC
Found at i:94055626 original size:26 final size:26
Alignment explanation
Indices: 94055597--94055704 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
94055587 TGGTACAAAT
*
94055597 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
94055623 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
94055649 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
94055675 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
94055701 TGAT
1 TGAT
94055705 GGGCATTTAA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.33, C:0.06, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:94061026 original size:20 final size:20
Alignment explanation
Indices: 94061001--94061042 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
94060991 GCAAACTACT
94061001 AACATTCCTGAGTTCCTTCC
1 AACATTCCTGAGTTCCTTCC
94061021 AACATTCCTGAGTTCCTTCC
1 AACATTCCTGAGTTCCTTCC
94061041 AA
1 AA
94061043 AAGACCCTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.24, C:0.33, G:0.10, T:0.33
Consensus pattern (20 bp):
AACATTCCTGAGTTCCTTCC
Found at i:94066057 original size:22 final size:22
Alignment explanation
Indices: 94066029--94066072 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
94066019 TTATGGGGTT
94066029 AGACTTTCAATATCACAATCTG
1 AGACTTTCAATATCACAATCTG
94066051 AGACTTTCAATATCACAATCTG
1 AGACTTTCAATATCACAATCTG
94066073 TGCAGTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.23, G:0.09, T:0.32
Consensus pattern (22 bp):
AGACTTTCAATATCACAATCTG
Found at i:94067170 original size:28 final size:28
Alignment explanation
Indices: 94067138--94067197 Score: 111
Period size: 28 Copynumber: 2.1 Consensus size: 28
94067128 TAACCTACAT
*
94067138 CTCTCATTGGTGGTAGCTCTACTGATGA
1 CTCTCATTGGCGGTAGCTCTACTGATGA
94067166 CTCTCATTGGCGGTAGCTCTACTGATGA
1 CTCTCATTGGCGGTAGCTCTACTGATGA
94067194 CTCT
1 CTCT
94067198 ACAAGCCTCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.35
Consensus pattern (28 bp):
CTCTCATTGGCGGTAGCTCTACTGATGA
Found at i:94085274 original size:21 final size:21
Alignment explanation
Indices: 94085248--94085288 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
94085238 ATCTGCTCAA
* *
94085248 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
94085269 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
94085289 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:94113044 original size:30 final size:32
Alignment explanation
Indices: 94113010--94113074 Score: 89
Period size: 30 Copynumber: 2.1 Consensus size: 32
94113000 AATTTTTATA
* *
94113010 TTTTATAATTTTT-AAATAATTAAATTA-AAT
1 TTTTATAATTTTTAAAACAATTAAAATATAAT
*
94113040 TTTTATTATTTTTAAAACAATTAAAATATAAT
1 TTTTATAATTTTTAAAACAATTAAAATATAAT
94113072 TTT
1 TTT
94113075 ATATTTACAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
30 12 0.40
31 12 0.40
32 6 0.20
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.54
Consensus pattern (32 bp):
TTTTATAATTTTTAAAACAATTAAAATATAAT
Found at i:94113080 original size:30 final size:28
Alignment explanation
Indices: 94113009--94113080 Score: 81
Period size: 31 Copynumber: 2.4 Consensus size: 28
94112999 TAATTTTTAT
* *
94113009 ATTTTATAATTTTTAAATAATTAAATTAA
1 ATTTTAT-ATTTTTAAACAATTAAAATAA
94113038 ATTTTTATTATTTTTAAAACAATTAAAATATA
1 A-TTTTA-TATTTTT-AAACAATTAAAATA-A
94113070 ATTTTATATTT
1 ATTTTATATTT
94113081 ACAAATTTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
29 1 0.03
30 16 0.43
31 18 0.49
32 2 0.05
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.54
Consensus pattern (28 bp):
ATTTTATATTTTTAAACAATTAAAATAA
Found at i:94113102 original size:16 final size:18
Alignment explanation
Indices: 94113078--94113114 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
94113068 TAATTTTATA
94113078 TTTACAAA-TTT-AAATT
1 TTTACAAATTTTAAAATT
*
94113094 TTTATAAATTTTAAAATT
1 TTTACAAATTTTAAAATT
94113112 TTT
1 TTT
94113115 GAATAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 7 0.39
17 3 0.17
18 8 0.44
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTACAAATTTTAAAATT
Found at i:94113640 original size:16 final size:17
Alignment explanation
Indices: 94113602--94113648 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
94113592 GTATTTTCAA
*
94113602 TAAAAATATAAAAATTT
1 TAAAAATATAAAAATCT
94113619 TGAAAAATA-AAAAATCT
1 T-AAAAATATAAAAATCT
*
94113636 TAAAAATTTAAAA
1 TAAAAATATAAAA
94113649 TAAAATTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 6 0.23
17 13 0.50
18 7 0.27
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (17 bp):
TAAAAATATAAAAATCT
Found at i:94124239 original size:15 final size:15
Alignment explanation
Indices: 94124219--94124249 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
94124209 AAGCTACTCA
94124219 AGCAAGTAATTGTCG
1 AGCAAGTAATTGTCG
94124234 AGCAAGTAATTGTCG
1 AGCAAGTAATTGTCG
94124249 A
1 A
94124250 ACCAAGCTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.13, G:0.26, T:0.26
Consensus pattern (15 bp):
AGCAAGTAATTGTCG
Found at i:94137914 original size:17 final size:18
Alignment explanation
Indices: 94137887--94137920 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
94137877 TTCTCCATCT
94137887 TGAAGTATTTTTTGAAAA
1 TGAAGTATTTTTTGAAAA
94137905 TGAA-TATTTTTTGAAA
1 TGAAGTATTTTTTGAAA
94137921 TGTTTCTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.47
Consensus pattern (18 bp):
TGAAGTATTTTTTGAAAA
Found at i:94145344 original size:89 final size:88
Alignment explanation
Indices: 94145115--94145327 Score: 286
Period size: 89 Copynumber: 2.4 Consensus size: 88
94145105 AAAATTAAAT
* * * *
94145115 CTTTATTTTTTTGCACTCAATCGGGTACTTGAATTTTCAAAATGCATAAAAAAGACTCTCAAACT
1 CTTT-TTTTTTTGCACTCAATTGGGTACTTGAACTTTCAAAATGCATAAAAAAAACCCTCAAACT
* *
94145180 TTTTCAAAAAAAGCAATTAAGCCC
65 TTTTCAAAAAAAACAATGAAGCCC
* *
94145204 CTACTTTGTTTTTGCACTCAATTGGGTACTT-AACTTTCAAAATGCATAAAAAAAACCCTTAAAC
1 CT--TTTTTTTTTGCACTCAATTGGGTACTTGAACTTTCAAAATGCATAAAAAAAACCCTCAAAC
94145268 TTTTTCAAAAAAAAAACAATGAAG-CC
64 TTTTTC--AAAAAAAACAATGAAGCCC
*
94145294 CTTTTTTTTTTGCACTCAATTGGGTATTTGAACT
1 CTTTTTTTTTTGCACTCAATTGGGTACTTGAACT
94145328 GTGAAATACA
Statistics
Matches: 109, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
88 25 0.23
89 41 0.38
90 27 0.25
91 16 0.15
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.36
Consensus pattern (88 bp):
CTTTTTTTTTTGCACTCAATTGGGTACTTGAACTTTCAAAATGCATAAAAAAAACCCTCAAACTT
TTTCAAAAAAAACAATGAAGCCC
Found at i:94145462 original size:10 final size:10
Alignment explanation
Indices: 94145447--94145574 Score: 50
Period size: 10 Copynumber: 12.6 Consensus size: 10
94145437 TGACATGTGA
94145447 AAAAAATTAT
1 AAAAAATTAT
94145457 AAAAAATAAATAT
1 AAAAAAT---TAT
94145470 CAATAAAATTTAT
1 -AA-AAAA-TTAT
*
94145483 AAAAAAATAT
1 AAAAAATTAT
* ***
94145493 TAACTTTTAAT
1 AAAAAATT-AT
94145504 AAAAAA-TAT
1 AAAAAATTAT
*
94145513 AAAATATTAT
1 AAAAAATTAT
94145523 --AAAATTAT
1 AAAAAATTAT
*
94145531 -AAAAATCAT
1 AAAAAATTAT
*
94145540 AAAAAATTGT
1 AAAAAATTAT
*** *
94145550 AAACTTTTGT
1 AAAAAATTAT
94145560 -AAAAATTAT
1 AAAAAATTAT
94145569 AAAAAA
1 AAAAAA
94145575 ATTTATTAAA
Statistics
Matches: 85, Mismatches: 22, Indels: 22
0.66 0.17 0.17
Matches are distributed among these distances:
8 7 0.08
9 19 0.22
10 36 0.42
11 8 0.09
12 2 0.02
13 6 0.07
14 2 0.02
15 4 0.05
16 1 0.01
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:94145524 original size:19 final size:19
Alignment explanation
Indices: 94145472--94145546 Score: 66
Period size: 18 Copynumber: 4.0 Consensus size: 19
94145462 ATAAATATCA
94145472 ATAAAAT-TTATAAAAAAAT
1 ATAAAATATTAT-AAAAAAT
* * *
94145491 ATTAACTTTTAATAAAAAAT
1 ATAAAATATT-ATAAAAAAT
*
94145511 ATAAAATATTAT-AAAATT
1 ATAAAATATTATAAAAAAT
*
94145529 ATAAAA-ATCATAAAAAAT
1 ATAAAATATTATAAAAAAT
94145547 TGTAAACTTT
Statistics
Matches: 45, Mismatches: 8, Indels: 7
0.75 0.13 0.12
Matches are distributed among these distances:
17 4 0.09
18 16 0.36
19 7 0.16
20 16 0.36
21 2 0.04
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (19 bp):
ATAAAATATTATAAAAAAT
Found at i:94145547 original size:19 final size:18
Alignment explanation
Indices: 94145502--94145552 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 18
94145492 TTAACTTTTA
94145502 ATAAAAAA-TAT-AAAAT
1 ATAAAAAATTATAAAAAT
*
94145518 ATTATAAAATTATAAAAAT
1 A-TAAAAAATTATAAAAAT
*
94145537 CATAAAAAATTGTAAA
1 -ATAAAAAATTATAAA
94145553 CTTTTGTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
16 1 0.04
17 6 0.21
18 3 0.11
19 17 0.61
20 1 0.04
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (18 bp):
ATAAAAAATTATAAAAAT
Found at i:94145573 original size:9 final size:9
Alignment explanation
Indices: 94145502--94145573 Score: 56
Period size: 9 Copynumber: 7.8 Consensus size: 9
94145492 TTAACTTTTA
*
94145502 ATAAAAAAT
1 ATAAAAATT
94145511 ATAAAATATT
1 ATAAAA-ATT
94145521 AT-AAAATT
1 ATAAAAATT
*
94145529 ATAAAAATC
1 ATAAAAATT
94145538 ATAAAAAATT
1 AT-AAAAATT
* **
94145548 GTAAACTTTT
1 ATAAA-AATT
*
94145558 GTAAAAATT
1 ATAAAAATT
94145567 ATAAAAA
1 ATAAAAA
94145574 AATTTATTAA
Statistics
Matches: 50, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
8 5 0.10
9 27 0.54
10 18 0.36
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (9 bp):
ATAAAAATT
Found at i:94145783 original size:10 final size:10
Alignment explanation
Indices: 94145764--94145928 Score: 64
Period size: 10 Copynumber: 17.2 Consensus size: 10
94145754 TTTTAGTACG
94145764 ATAA-TTTTT
1 ATAATTTTTT
94145773 ATAATTTTTT
1 ATAATTTTTT
* *
94145783 ACAA-ATTTT
1 ATAATTTTTT
94145792 AT-ATTTCTTT
1 ATAATTT-TTT
*
94145802 A-CATTTTTT
1 ATAATTTTTT
94145811 ATAATTTTCTT
1 ATAATTTT-TT
* *
94145822 ATGA--CTTT
1 ATAATTTTTT
**
94145830 ATAAAATTTT
1 ATAATTTTTT
94145840 ATAATTTTTT
1 ATAATTTTTT
* *
94145850 CT-ATATTTCT
1 ATAAT-TTTTT
*
94145860 AT-A-TATTT
1 ATAATTTTTT
94145868 ATAATTTTTT
1 ATAATTTTTT
**
94145878 ACGA-TTTTT
1 ATAATTTTTT
**
94145887 ATAACATTTT
1 ATAATTTTTT
**
94145897 ATAATTTTAA
1 ATAATTTTTT
94145907 AT-ATTTTTT
1 ATAATTTTTT
*
94145916 AAATATTTTTT
1 ATA-ATTTTTT
94145927 AT
1 AT
94145929 TAAAATTTAT
Statistics
Matches: 112, Mismatches: 30, Indels: 26
0.67 0.18 0.15
Matches are distributed among these distances:
8 11 0.10
9 31 0.28
10 57 0.51
11 13 0.12
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.61
Consensus pattern (10 bp):
ATAATTTTTT
Found at i:94145841 original size:29 final size:27
Alignment explanation
Indices: 94145807--94145904 Score: 83
Period size: 29 Copynumber: 3.4 Consensus size: 27
94145797 TCTTTACATT
94145807 TTTTATAATTTTCTTATGACTTTATAAAA
1 TTTTATAATTTT-TTATGA-TTTATAAAA
* *
94145836 TTTTATAATTTTTTCTAT-ATTTCT-ATA
1 TTTTATAA-TTTTT-TATGATTTATAAAA
* *
94145863 TATTTATAATTTTTTACGATTTTTATAACA
1 T-TTTATAATTTTTTATGA--TTTATAAAA
94145893 TTTTATAATTTT
1 TTTTATAATTTT
94145905 AAATATTTTT
Statistics
Matches: 57, Mismatches: 5, Indels: 14
0.75 0.07 0.18
Matches are distributed among these distances:
26 2 0.04
27 9 0.16
28 11 0.19
29 25 0.44
30 10 0.18
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (27 bp):
TTTTATAATTTTTTATGATTTATAAAA
Found at i:94145903 original size:19 final size:19
Alignment explanation
Indices: 94145764--94145913 Score: 78
Period size: 19 Copynumber: 8.0 Consensus size: 19
94145754 TTTTAGTACG
*
94145764 ATAATTTTTATAATTTTTT
1 ATAATTTTTATAATATTTT
* * *
94145783 ACAAATTTTAT-ATTTCTTT
1 ATAATTTTTATAATAT-TTT
* * *
94145802 ACATTTTTTATAATTTTCTT
1 ATAATTTTTATAATATT-TT
* * *
94145822 ATGA-CTTTATAAAATTTT
1 ATAATTTTTATAATATTTT
*
94145840 ATAATTTTT-TCTATATTTCT
1 ATAATTTTTAT-AATATTT-T
* *
94145860 AT-ATATTTATAATTTTTT
1 ATAATTTTTATAATATTTT
** *
94145878 ACGATTTTTATAACATTTT
1 ATAATTTTTATAATATTTT
94145897 ATAA-TTTTA-AATATTTT
1 ATAATTTTTATAATATTTT
94145914 TTAAATATTT
Statistics
Matches: 99, Mismatches: 24, Indels: 18
0.70 0.17 0.13
Matches are distributed among these distances:
17 7 0.07
18 17 0.17
19 64 0.65
20 11 0.11
ACGTcount: A:0.32, C:0.06, G:0.01, T:0.61
Consensus pattern (19 bp):
ATAATTTTTATAATATTTT
Found at i:94145915 original size:11 final size:11
Alignment explanation
Indices: 94145901--94145927 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
94145891 CATTTTATAA
94145901 TTTTAAATATT
1 TTTTAAATATT
94145912 TTTTAAATATT
1 TTTTAAATATT
94145923 TTTTA
1 TTTTA
94145928 TTAAAATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
TTTTAAATATT
Found at i:94148099 original size:23 final size:23
Alignment explanation
Indices: 94148073--94148116 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
94148063 GTAAATAGTA
94148073 AAAATA-AATAAAGTATAACAAGC
1 AAAATATAAT-AAGTATAACAAGC
*
94148096 AAAATATAGTAAGTATAACAA
1 AAAATATAATAAGTATAACAA
94148117 TCTATATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.64, C:0.07, G:0.09, T:0.20
Consensus pattern (23 bp):
AAAATATAATAAGTATAACAAGC
Found at i:94149995 original size:133 final size:133
Alignment explanation
Indices: 94149755--94150193 Score: 700
Period size: 133 Copynumber: 3.3 Consensus size: 133
94149745 GATCTGCTGT
* * *
94149755 AATTTGATCTGCTTTACTCCTACTCAGTAAAGATAAGATCTAGTATGTTTAGCCTGCTCCACTCC
1 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTAGTA--TTTAGCCTGCTCCACTCC
* *
94149820 TGCTTAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGAAGATAAGA-TT
64 TGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGACTT
*
94149884 CACCAA
129 -GCCAA
* * * * *
94149890 AATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTAGTATATAGCCTACTCCACTCCTG
1 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTG
94149955 CTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGACTTGC
66 CTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGACTTGC
94150020 CAA
131 CAA
* * * *
94150023 AATTTGATCTGCTTCACTTCTGCTCAGTGAAGATAAGATTTGGTATTTAGCTTGCTCCACTCCTG
1 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTG
94150088 CTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGACTTGC
66 CTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGACTTGC
94150153 CAA
131 CAA
*
94150156 AATTTGATCTGCTTCACTTCTGCTCAGTGAAGATAAGA
1 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGA
94150194 CTGATGATAT
Statistics
Matches: 283, Mismatches: 20, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
133 242 0.86
134 2 0.01
135 39 0.14
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (133 bp):
AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTG
CTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGACTTGC
CAA
Found at i:94157853 original size:21 final size:21
Alignment explanation
Indices: 94157823--94157866 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
94157813 CTGGCTCATT
94157823 ATGTTGTTCTGTG-ACTCCAGC
1 ATGTTGTTCTG-GAACTCCAGC
*
94157844 ATGTTTTTCTGGAACTCCAGC
1 ATGTTGTTCTGGAACTCCAGC
94157865 AT
1 AT
94157867 TTGATCCCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.18, C:0.23, G:0.20, T:0.39
Consensus pattern (21 bp):
ATGTTGTTCTGGAACTCCAGC
Found at i:94162222 original size:17 final size:16
Alignment explanation
Indices: 94162174--94162228 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
94162164 TAGGAAATTC
*
94162174 TATTTTAAGTTTAT-T
1 TATTTTAATTTTATAT
*
94162189 TATTTTTAATTAT-TAT
1 TA-TTTTAATTTTATAT
94162205 TATTTTAGATTTTATAT
1 TATTTTA-ATTTTATAT
94162222 TAATTTT
1 T-ATTTT
94162229 CTTAAGCTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
15 8 0.25
16 15 0.47
17 4 0.12
18 5 0.16
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (16 bp):
TATTTTAATTTTATAT
Found at i:94163155 original size:19 final size:19
Alignment explanation
Indices: 94163108--94163148 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
94163098 TATTTTGTTA
94163108 TTTTATTTTTATTTCATCT
1 TTTTATTTTTATTTCATCT
*
94163127 TTTTATTTTTGTTTCATCT
1 TTTTATTTTTATTTCATCT
94163146 TTT
1 TTT
94163149 ACTTTTTACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.12, C:0.10, G:0.02, T:0.76
Consensus pattern (19 bp):
TTTTATTTTTATTTCATCT
Found at i:94180240 original size:22 final size:22
Alignment explanation
Indices: 94180215--94180261 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
94180205 TCCACACCCC
*
94180215 ACCTCGTGCCGCGCCACCGTCG
1 ACCTCGTGCCGCACCACCGTCG
*
94180237 ACCTCGTTCCGCACCACCGTCG
1 ACCTCGTGCCGCACCACCGTCG
94180259 ACC
1 ACC
94180262 GCGCGCCCAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.13, C:0.51, G:0.21, T:0.15
Consensus pattern (22 bp):
ACCTCGTGCCGCACCACCGTCG
Found at i:94183348 original size:17 final size:16
Alignment explanation
Indices: 94183300--94183354 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
94183290 TAGGAAATTC
*
94183300 TATTTTAAGTTTAT-T
1 TATTTTAATTTTATAT
*
94183315 TATTTTTAATTAT-TAT
1 TA-TTTTAATTTTATAT
94183331 TATTTTAGATTTTATAT
1 TATTTTA-ATTTTATAT
94183348 TAATTTT
1 T-ATTTT
94183355 CTTAAGCTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
15 8 0.25
16 15 0.47
17 4 0.12
18 5 0.16
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (16 bp):
TATTTTAATTTTATAT
Found at i:94184278 original size:19 final size:19
Alignment explanation
Indices: 94184231--94184270 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
94184221 TATTTTGTTA
94184231 TTTATTTTTATTTCATCTT
1 TTTATTTTTATTTCATCTT
94184250 TTTATTTTTATTTCATCTT
1 TTTATTTTTATTTCATCTT
94184269 TT
1 TT
94184271 ACTTTTTACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.15, C:0.10, G:0.00, T:0.75
Consensus pattern (19 bp):
TTTATTTTTATTTCATCTT
Found at i:94190792 original size:48 final size:48
Alignment explanation
Indices: 94190721--94190815 Score: 190
Period size: 48 Copynumber: 2.0 Consensus size: 48
94190711 GGGTTCATTA
94190721 CTACTACTCTTACTACGGGATGCTTACCTAGCCAACATTTAGATCTAG
1 CTACTACTCTTACTACGGGATGCTTACCTAGCCAACATTTAGATCTAG
94190769 CTACTACTCTTACTACGGGATGCTTACCTAGCCAACATTTAGATCTA
1 CTACTACTCTTACTACGGGATGCTTACCTAGCCAACATTTAGATCTA
94190816 ACTCTACCCA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.32
Consensus pattern (48 bp):
CTACTACTCTTACTACGGGATGCTTACCTAGCCAACATTTAGATCTAG
Found at i:94191762 original size:11 final size:11
Alignment explanation
Indices: 94191746--94191772 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
94191736 TTTTTTATCG
94191746 TCTTCTCTACT
1 TCTTCTCTACT
94191757 TCTTCTCTACT
1 TCTTCTCTACT
94191768 TCTTC
1 TCTTC
94191773 ACCTAGACCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.07, C:0.37, G:0.00, T:0.56
Consensus pattern (11 bp):
TCTTCTCTACT
Found at i:94196110 original size:59 final size:59
Alignment explanation
Indices: 94196018--94196138 Score: 170
Period size: 59 Copynumber: 2.1 Consensus size: 59
94196008 GCAACTCCGA
* * * * * *
94196018 AACAGCTCGCGGACTTATGCTCCCAGCTGATGATTAAAGGTTAGATGAGTTAAGCTCAC
1 AACAGCTCACAGACCTACGCTCCCAACTGATGATTAAAGGTTAGATGAGTAAAGCTCAC
**
94196077 AACAGCTCACAGACCTACGCTCCCAACTGATGATTAAAGGTTATCTGAGTAAAGCTCAC
1 AACAGCTCACAGACCTACGCTCCCAACTGATGATTAAAGGTTAGATGAGTAAAGCTCAC
94196136 AAC
1 AAC
94196139 CTTCAGTTAT
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
59 54 1.00
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (59 bp):
AACAGCTCACAGACCTACGCTCCCAACTGATGATTAAAGGTTAGATGAGTAAAGCTCAC
Found at i:94196267 original size:67 final size:67
Alignment explanation
Indices: 94196153--94196314 Score: 281
Period size: 67 Copynumber: 2.4 Consensus size: 67
94196143 AGTTATTTGA
* *
94196153 GTTAACTGAGTTAAGCTCGCAACTCCAAAATAGCTCGTGGACTTACGC-TCCTAGCTGATGATTA
1 GTTAGCTGAGTTAAGCTCGCAACTCCAAAATAGCTCGTGGACCTACGCTTCC-AGCTGATGATTA
94196217 AAG
65 AAG
94196220 GTTAGCTGAGTTAAGCTCGCAACTCCAAAATAGCTCGTGGACCTACGCTTCCAGCTGATGATTAA
1 GTTAGCTGAGTTAAGCTCGCAACTCCAAAATAGCTCGTGGACCTACGCTTCCAGCTGATGATTAA
94196285 AG
66 AG
94196287 GTTAGCTGAGTTAAGCTCGCAACCTCCA
1 GTTAGCTGAGTTAAGCTCGCAA-CTCCA
94196315 GTTATTTGAG
Statistics
Matches: 91, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
67 83 0.91
68 8 0.09
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (67 bp):
GTTAGCTGAGTTAAGCTCGCAACTCCAAAATAGCTCGTGGACCTACGCTTCCAGCTGATGATTAA
AG
Found at i:94196335 original size:171 final size:164
Alignment explanation
Indices: 94195941--94196408 Score: 607
Period size: 171 Copynumber: 2.8 Consensus size: 164
94195931 AGGTTGCAGT
* * * *
94195941 TGATGATTGAAGGTTAGCTAAGTTAAGCTCACAACTTCCAGTTATTTGAGTTAGCTGAGTTAAGC
1 TGATGATTAAAGGTTAGCTGAGTTAAGCTCACAACCTCCAGTTATTTGAGTTAACTGAGTTAAGC
* * * * * *
94196006 TTGCAACTCCGAAACAGCTCGCGGACTTATGCTCCCAGCTGATGATTAAAGGTTAGATGAGTTAA
66 TCGCAACTCCGAAATAGCTCGTGGACTTACGCTCCTAGCTGATGATTAAAGGTTAGCTGAGTTAA
94196071 GCT-CACAACAGCTCACAGACCTACGCTCCCAAC
131 GCTCCACAACAGCTCACAGACCTACGCTCCCAAC
* * *
94196104 TGATGATTAAAGGTTATCTGAGTAAAGCTCACAACCTTCAGTTATTTGAGTTAACTGAGTTAAGC
1 TGATGATTAAAGGTTAGCTGAGTTAAGCTCACAACCTCCAGTTATTTGAGTTAACTGAGTTAAGC
*
94196169 TCGCAACTCCAAAATAGCTCGTGGACTTACGCTCCTAGCTGATGATTAAAGGTTAGCTGAGTTAA
66 TCGCAACTCCGAAATAGCTCGTGGACTTACGCTCCTAGCTGATGATTAAAGGTTAGCTGAGTTAA
* *** * *
94196234 GCTCGCAACTCCAAAATAGCTCGTGGACCTACGCTTCCAGC
131 GCTC-C-A---C--AACAGCTCACAGACCTACGCTCCCAAC
* *
94196275 TGATGATTAAAGGTTAGCTGAGTTAAGCTCGCAACCTCCAGTTATTTGAGTTACCTGAGTTAAGC
1 TGATGATTAAAGGTTAGCTGAGTTAAGCTCACAACCTCCAGTTATTTGAGTTAACTGAGTTAAGC
* * * * *
94196340 TCGCAACTTCGAAATAGCTCGTGAACCTACGCT-CTCAGCTAATAATTAAAGGTTAGCTGAGTTA
66 TCGCAACTCCGAAATAGCTCGTGGACTTACGCTCCT-AGCTGATGATTAAAGGTTAGCTGAGTTA
94196404 AGCTC
130 AGCTC
94196409 AGAACCTCTA
Statistics
Matches: 265, Mismatches: 31, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
163 119 0.45
165 1 0.00
166 1 0.00
169 1 0.00
170 2 0.01
171 141 0.53
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (164 bp):
TGATGATTAAAGGTTAGCTGAGTTAAGCTCACAACCTCCAGTTATTTGAGTTAACTGAGTTAAGC
TCGCAACTCCGAAATAGCTCGTGGACTTACGCTCCTAGCTGATGATTAAAGGTTAGCTGAGTTAA
GCTCCACAACAGCTCACAGACCTACGCTCCCAAC
Found at i:94196405 original size:104 final size:103
Alignment explanation
Indices: 94196220--94196534 Score: 463
Period size: 104 Copynumber: 3.0 Consensus size: 103
94196210 ATGATTAAAG
* * * *
94196220 GTTAGCTGAGTTAAGCTCGCAACTCCAAAATAGCTCGTGGACCTACGCT-TCCAGCTGATGATTA
1 GTTAACTGAGTTAAGCTCGCAACTTCGAAATAGCTCGTGGACCTACGCTCT-CAGCTAATGATTA
94196284 AAGGTTAGCTGAGTTAAGCTCGCAACCTCCAGTTATTTGA
65 AAGGTTAGCTGAGTTAAGCTCG-AACCTCCAGTTATTTGA
* * *
94196324 GTTACCTGAGTTAAGCTCGCAACTTCGAAATAGCTCGTGAACCTACGCTCTCAGCTAATAATTAA
1 GTTAACTGAGTTAAGCTCGCAACTTCGAAATAGCTCGTGGACCTACGCTCTCAGCTAATGATTAA
*
94196389 AGGTTAGCTGAGTTAAGCTCAGAACCTCTAGTTATTTGA
66 AGGTTAGCTGAGTTAAGCTC-GAACCTCCAGTTATTTGA
* * * *
94196428 GTTAACTGAGTTAAGCTCGCAACTTCGAAATAGCTCATGGACCTATGCTCCCAACTAATGATTAA
1 GTTAACTGAGTTAAGCTCGCAACTTCGAAATAGCTCGTGGACCTACGCTCTCAGCTAATGATTAA
*
94196493 AGGTTAGCTGAGTTAAGCTCGTAACCTCCAATTA-TTGA
66 AGGTTAGCTGAGTTAAGCTCG-AACCTCCAGTTATTTGA
94196531 GTTA
1 GTTA
94196535 GCTAATTTAA
Statistics
Matches: 192, Mismatches: 16, Indels: 7
0.89 0.07 0.03
Matches are distributed among these distances:
103 9 0.05
104 181 0.94
105 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (103 bp):
GTTAACTGAGTTAAGCTCGCAACTTCGAAATAGCTCGTGGACCTACGCTCTCAGCTAATGATTAA
AGGTTAGCTGAGTTAAGCTCGAACCTCCAGTTATTTGA
Found at i:94199595 original size:210 final size:206
Alignment explanation
Indices: 94199353--94199889 Score: 891
Period size: 208 Copynumber: 2.6 Consensus size: 206
94199343 TTAATACTCG
94199353 GTTTTATTAGGTATAAGTATTTAAAATTTTGTTTTTGTAATGTGATACATGCGTAAATATATATA
1 GTTTTATTAGGTATAAGTATTT-AAATTTTGTTTTTGTAATGTGATACATGCGT--ATATATATA
*
94199418 TATAATTATATTAGTGAATTTGCTAATACATACTTCATCCAGGTAAAGTATGCATTATTAAAATT
63 TATAATCATATTAGTGAATTTGCTAATACATACTTCATCCAGGTAAAGTATGCATT-TTAAAATT
*
94199483 AAATTAAAATATTAAATAGGAAATAAAATTATAAAACAATATGTTATTTGGAAAATAACTATTAT
127 AAATTAAAATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTGGAAAATAACTATTAT
94199548 TGTAATGAGATACAT
192 TGTAATGAGATACAT
* * *
94199563 GTTTTATTAGGTATAAGTATTTAAATTTTTGTTTTTGTAATGTGATACATGCTTGTGTATATATA
1 GTTTTATTAGGTATAAGTATTTAAA-TTTTGTTTTTGTAATGTGATACATGCGTATATATATATA
* *
94199628 TAATCATATTAGTGAATTTGCTAATACATACTTCTTCCAGGTAAAATATGCATTGTTAAAATTAA
65 TAATCATATTAGTGAATTTGCTAATACATACTTCATCCAGGTAAAGTATGCATT-TTAAAATTAA
94199693 ATTAAAATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTGGAAAATAACTATTATTG
129 ATTAAAATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTGGAAAATAACTATTATTG
94199758 TAATGAGATACAT
194 TAATGAGATACAT
94199771 GTTTTATTAGGTATAAGTATTTAAATTTT-TTTTTGTAATGTGATACATGCGTA-A-ATATATAT
1 GTTTTATTAGGTATAAGTATTTAAATTTTGTTTTTGTAATGTGATACATGCGTATATATATATAT
* * * * *
94199833 AATCATATTAGTAAATCTGCTAATACATACTTCATCTAGATAAAGTATGTATTTTAA
66 AATCATATTAGTGAATTTGCTAATACATACTTCATCCAGGTAAAGTATGCATTTTAA
94199890 TAACACATGA
Statistics
Matches: 308, Mismatches: 18, Indels: 9
0.92 0.05 0.03
Matches are distributed among these distances:
203 4 0.01
204 54 0.18
206 22 0.07
207 4 0.01
208 172 0.56
209 3 0.01
210 49 0.16
ACGTcount: A:0.40, C:0.06, G:0.12, T:0.42
Consensus pattern (206 bp):
GTTTTATTAGGTATAAGTATTTAAATTTTGTTTTTGTAATGTGATACATGCGTATATATATATAT
AATCATATTAGTGAATTTGCTAATACATACTTCATCCAGGTAAAGTATGCATTTTAAAATTAAAT
TAAAATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTGGAAAATAACTATTATTGTA
ATGAGATACAT
Found at i:94203565 original size:23 final size:23
Alignment explanation
Indices: 94203517--94203582 Score: 75
Period size: 22 Copynumber: 2.9 Consensus size: 23
94203507 AAAATGTATA
* *
94203517 TTTTAAATATTTTATAAA-ATTAT
1 TTTTTAATATTATA-AAATATTAT
94203540 TTTTTAA-ATT-TAAATATATTAT
1 TTTTTAATATTATAAA-ATATTAT
94203562 TTTTTAATATTATAAAATATT
1 TTTTTAATATTATAAAATATT
94203583 TAAAATATAT
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
20 2 0.05
21 3 0.08
22 15 0.39
23 14 0.37
24 4 0.11
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
TTTTTAATATTATAAAATATTAT
Found at i:94203675 original size:20 final size:19
Alignment explanation
Indices: 94203650--94203696 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
94203640 TTTTTAATGC
94203650 ATATTTTAAAAATTTTAAAT
1 ATATTTT-AAAATTTTAAAT
* *
94203670 ATATTTTTAATTTTTAAAT
1 ATATTTTAAAATTTTAAAT
94203689 ATAATTTT
1 AT-ATTTT
94203697 TTAAATTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
ATATTTTAAAATTTTAAAT
Found at i:94203707 original size:12 final size:14
Alignment explanation
Indices: 94203680--94203712 Score: 52
Period size: 12 Copynumber: 2.5 Consensus size: 14
94203670 ATATTTTTAA
94203680 TTTTTAAATATAAT
1 TTTTTAAATATAAT
94203694 TTTTTAAAT-T-AT
1 TTTTTAAATATAAT
94203706 TTTTTAA
1 TTTTTAA
94203713 GAATTGTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 9 0.47
13 1 0.05
14 9 0.47
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTTTAAATATAAT
Found at i:94203740 original size:12 final size:12
Alignment explanation
Indices: 94203679--94203748 Score: 50
Period size: 12 Copynumber: 5.2 Consensus size: 12
94203669 TATATTTTTA
*
94203679 ATTTTTAAATATA
1 ATTTTTAAA-ATT
*
94203692 ATTTTTTAAATT
1 ATTTTTAAAATT
94203704 ATTTTTTAAGAATTGT
1 A-TTTTTAA-AA-T-T
94203720 GATTTTTTAAAATT
1 -A-TTTTTAAAATT
*
94203734 ATTTTTAAAAAT
1 ATTTTTAAAATT
94203746 ATT
1 ATT
94203749 CAAATGATTT
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
12 16 0.33
13 15 0.31
14 3 0.06
15 2 0.04
16 3 0.06
17 9 0.19
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (12 bp):
ATTTTTAAAATT
Found at i:94203907 original size:18 final size:18
Alignment explanation
Indices: 94203865--94203903 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
94203855 AAGATTACAA
*
94203865 ATATATATTAGAAAATTT
1 ATATATATTAGAAAATAT
94203883 ATATATATTA-AAAATAT
1 ATATATATTAGAAAATAT
94203900 ATAT
1 ATAT
94203904 TATAACTGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (18 bp):
ATATATATTAGAAAATAT
Found at i:94204147 original size:17 final size:16
Alignment explanation
Indices: 94204103--94204147 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
94204093 TTTTGTATTT
*
94204103 TTATATTTTATAGTTA
1 TTATATTTAATAGTTA
*
94204119 TTATAATATAATAGTTAA
1 TTAT-ATTTAATAGTT-A
94204137 TTATATTTAAT
1 TTATATTTAAT
94204148 TTATGTATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
16 4 0.17
17 15 0.62
18 5 0.21
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (16 bp):
TTATATTTAATAGTTA
Found at i:94210542 original size:21 final size:21
Alignment explanation
Indices: 94210518--94210586 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 21
94210508 GACACATAAA
* *
94210518 GTGCTTAAAACAACACACGAG
1 GTGCCTAAAACGACACACGAG
* * *
94210539 GTGCCTGATACGGCACACGAG
1 GTGCCTAAAACGACACACGAG
* *
94210560 GTGCCTGATACGACACACGAG
1 GTGCCTAAAACGACACACGAG
94210581 GTGCCT
1 GTGCCT
94210587 TAAATATGAC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.29, C:0.28, G:0.28, T:0.16
Consensus pattern (21 bp):
GTGCCTAAAACGACACACGAG
Found at i:94212080 original size:16 final size:17
Alignment explanation
Indices: 94212045--94212080 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
94212035 CCTAATTCTC
94212045 CCTT-TTTCTTTTCTTT
1 CCTTCTTTCTTTTCTTT
94212061 -CTTCTTTC-TTTCTTT
1 CCTTCTTTCTTTTCTTT
94212076 CCTTC
1 CCTTC
94212081 CCCTGCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (17 bp):
CCTTCTTTCTTTTCTTT
Found at i:94218462 original size:23 final size:23
Alignment explanation
Indices: 94218380--94218466 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
94218370 CCTGATCAGT
*
94218380 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
94218402 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
94218422 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
94218445 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
94218467 CCAGTAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.62
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:94220248 original size:20 final size:19
Alignment explanation
Indices: 94220202--94220249 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 19
94220192 AGTCATTTTT
94220202 ACTAATTACTCTAAATTAA
1 ACTAATTACTCTAAATTAA
*
94220221 ACTAAATTCAC-CTAATTTAA
1 ACT-AATT-ACTCTAAATTAA
94220241 ACCTAATTA
1 A-CTAATTA
94220250 AACACATCGC
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
19 4 0.16
20 17 0.68
21 4 0.16
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (19 bp):
ACTAATTACTCTAAATTAA
Found at i:94220955 original size:19 final size:19
Alignment explanation
Indices: 94220933--94221030 Score: 73
Period size: 21 Copynumber: 5.2 Consensus size: 19
94220923 AATATATTTT
*
94220933 AAATATTTTATAATATT-AA
1 AAATATTTTAAAAT-TTAAA
94220952 AAATAATATTTAAAATTTAAA
1 AAAT-AT-TTTAAAATTTAAA
94220973 AAATA-TTT-AAATTTAAA
1 AAATATTTTAAAATTTAAA
* *
94220990 ATAATA--AT-AATTTTAAA
1 A-AATATTTTAAAATTTAAA
94221007 AAATATATTTAAAATTTTAAA
1 AAATAT-TTTAAAA-TTTAAA
94221028 AAA
1 AAA
94221031 ATAATATTAT
Statistics
Matches: 65, Mismatches: 5, Indels: 16
0.76 0.06 0.19
Matches are distributed among these distances:
16 4 0.06
17 20 0.31
18 7 0.11
19 5 0.08
20 7 0.11
21 22 0.34
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
AAATATTTTAAAATTTAAA
Found at i:94220963 original size:21 final size:20
Alignment explanation
Indices: 94220933--94221033 Score: 81
Period size: 18 Copynumber: 5.2 Consensus size: 20
94220923 AATATATTTT
94220933 AAATATTTTATAATATTAAAA
1 AAATA-TTTATAATATTAAAA
*
94220954 ATAATATTTA-AA-ATTTAAA
1 A-AATATTTATAATATTAAAA
94220973 AAATATTTA-AAT-TTAAAA
1 AAATATTTATAATATTAAAA
* *
94220991 TAATA---ATAATTTTAAAA
1 AAATATTTATAATATTAAAA
* *
94221008 AATATATTTAAAATTTTAAAA
1 AA-ATATTTATAATATTAAAA
94221029 AAATA
1 AAATA
94221034 ATATTATAAA
Statistics
Matches: 67, Mismatches: 5, Indels: 17
0.75 0.06 0.19
Matches are distributed among these distances:
15 1 0.01
16 3 0.04
17 7 0.10
18 22 0.33
19 7 0.10
20 5 0.07
21 18 0.27
22 4 0.06
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
AAATATTTATAATATTAAAA
Found at i:94220986 original size:17 final size:18
Alignment explanation
Indices: 94220951--94221033 Score: 80
Period size: 17 Copynumber: 4.5 Consensus size: 18
94220941 TATAATATTA
94220951 AAAATAATATTTAAAATTT
1 AAAATAATATTT-AAATTT
94220970 AAAA-AATATTTAAATTT
1 AAAATAATATTTAAATTT
* *
94220987 AAAATAATA-ATAATTTT
1 AAAATAATATTTAAATTT
*
94221004 AAAAAATATATTTAAAATTTT
1 AAAATA-ATATTT-AAA-TTT
*
94221025 AAAAAAATA
1 AAAATAATA
94221034 ATATTATAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
17 21 0.39
18 14 0.26
19 5 0.09
20 5 0.09
21 9 0.17
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
AAAATAATATTTAAATTT
Found at i:94221001 original size:16 final size:15
Alignment explanation
Indices: 94220918--94221021 Score: 52
Period size: 17 Copynumber: 6.3 Consensus size: 15
94220908 CATATCTTTA
*
94220918 AAAATAATATATTTT
1 AAAATAATATAATTT
**
94220933 AAATATTTTATAATATT
1 AAA-ATAATATAAT-TT
94220950 AAAAATAATATTTAAAATTT
1 -AAAATAATA--T--AATTT
94220970 AAAA-AATATTTAAATTT
1 AAAATAATA--T-AATTT
94220987 AAAATAATAATAATTTT
1 AAAATAAT-ATAA-TTT
94221004 AAAA-AATAT-ATTT
1 AAAATAATATAATTT
94221017 AAAAT
1 AAAAT
94221022 TTTAAAAAAA
Statistics
Matches: 73, Mismatches: 5, Indels: 23
0.72 0.05 0.23
Matches are distributed among these distances:
13 7 0.10
14 1 0.01
15 5 0.07
16 12 0.16
17 24 0.33
18 13 0.18
19 6 0.08
20 2 0.03
21 3 0.04
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
AAAATAATATAATTT
Found at i:94221015 original size:36 final size:36
Alignment explanation
Indices: 94220970--94221044 Score: 100
Period size: 38 Copynumber: 2.1 Consensus size: 36
94220960 TTTAAAATTT
* *
94220970 AAAAAATATTT-AAA-TTTAAAATAATAATAATTTTA
1 AAAAAATATTTAAAATTTTAAAAAAATAAT-ATTATA
94221005 AAAAATATATTTAAAATTTTAAAAAAATAATATTATA
1 AAAAA-ATATTTAAAATTTTAAAAAAATAATATTATA
94221042 AAA
1 AAA
94221045 CATTTCAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
35 5 0.14
36 6 0.17
37 11 0.31
38 13 0.37
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (36 bp):
AAAAAATATTTAAAATTTTAAAAAAATAATATTATA
Found at i:94221032 original size:22 final size:23
Alignment explanation
Indices: 94220993--94221044 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 23
94220983 ATTTAAAATA
94220993 ATAATAATTTTAAAAAAT-ATATT
1 ATAA-AATTTTAAAAAATAATATT
94221016 -TAAAATTTTAAAAAAATAATATT
1 ATAAAATTTT-AAAAAATAATATT
94221039 ATAAAA
1 ATAAAA
94221045 CATTTCAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
21 6 0.23
22 10 0.38
23 5 0.19
24 5 0.19
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
ATAAAATTTTAAAAAATAATATT
Found at i:94221151 original size:22 final size:23
Alignment explanation
Indices: 94221126--94221169 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
94221116 AATAAAGCAC
94221126 AAATAAAT-AAAACTTAAAAAGT
1 AAATAAATAAAAACTTAAAAAGT
94221148 AAATAAATAAAAAACTTAAAAA
1 AAATAAAT-AAAAACTTAAAAA
94221170 AACAAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 8 0.40
24 12 0.60
ACGTcount: A:0.73, C:0.05, G:0.02, T:0.20
Consensus pattern (23 bp):
AAATAAATAAAAACTTAAAAAGT
Found at i:94221817 original size:16 final size:20
Alignment explanation
Indices: 94221783--94221827 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 20
94221773 TTAAGTCTAA
94221783 ATTAATAAAATCTATAAA-T
1 ATTAATAAAATCTATAAATT
94221802 ATTAA-AAAA-CTA-AAATT
1 ATTAATAAAATCTATAAATT
*
94221819 ATTATTAAA
1 ATTAATAAA
94221828 CAAATAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 7 0.30
19 5 0.22
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (20 bp):
ATTAATAAAATCTATAAATT
Found at i:94233243 original size:56 final size:57
Alignment explanation
Indices: 94233178--94233295 Score: 220
Period size: 56 Copynumber: 2.1 Consensus size: 57
94233168 GTGAAAATGT
94233178 TAAAGGTTAATTTTTTGAAATTAATACTAAATTGACATAATGTATAATGTTTAGTGC
1 TAAAGGTTAATTTTTTGAAATTAATACTAAATTGACATAATGTATAATGTTTAGTGC
*
94233235 -AAAGGTTAATTTTTTGGAATTAATACTAAATTGACATAATGTATAATGTTTAGTGC
1 TAAAGGTTAATTTTTTGAAATTAATACTAAATTGACATAATGTATAATGTTTAGTGC
94233291 TAAAG
1 TAAAG
94233296 TTGTTATTAT
Statistics
Matches: 59, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
56 55 0.93
57 4 0.07
ACGTcount: A:0.39, C:0.05, G:0.15, T:0.41
Consensus pattern (57 bp):
TAAAGGTTAATTTTTTGAAATTAATACTAAATTGACATAATGTATAATGTTTAGTGC
Found at i:94238581 original size:173 final size:172
Alignment explanation
Indices: 94238292--94238629 Score: 613
Period size: 173 Copynumber: 2.0 Consensus size: 172
94238282 GAACGTAAAT
*
94238292 GCTTTGTGCTGGGTCAATACAGGTTTCAATAACCACCCGAAGACAGTTCACAATGACCTTAGCTA
1 GCTTTGTGCTGGGTCAATACAGGTTTCAATAACCACCCGAAGACAGATCACAATGACCTTAGCTA
*
94238357 TCAACTTATAAATAACCTTGCATAGGCTTATGGGGCGAAAATAAGTAATATTTGAAGGGTTTTTG
66 TCAACTTATAAATAACATTGCATAGGCTTATGGGGCGAAAATAAGTAATATTTGAAGGG-TTTTG
94238422 AATATTTGGGATCAGAACTATATTAGTCGTATTAATAAAAAAC
130 AATATTTGGGATCAGAACTATATTAGTCGTATTAATAAAAAAC
* *
94238465 GCTTTGTGCTGGGTCAATACAGGTTTCAATTACCACCCGAAGACAGATCACAATGGCCTTAGCTA
1 GCTTTGTGCTGGGTCAATACAGGTTTCAATAACCACCCGAAGACAGATCACAATGACCTTAGCTA
94238530 TCAACTTATAAATAACATTGCATAGGCTTATGGGGCGAAAATAAGTAATATTTGAAGGGTTTTGA
66 TCAACTTATAAATAACATTGCATAGGCTTATGGGGCGAAAATAAGTAATATTTGAAGGGTTTTGA
* *
94238595 ATTTTTGGGATCTGAACTATATTAGTCGTATTAAT
131 ATATTTGGGATCAGAACTATATTAGTCGTATTAAT
94238630 TAAACCAATA
Statistics
Matches: 159, Mismatches: 6, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
172 39 0.25
173 120 0.75
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (172 bp):
GCTTTGTGCTGGGTCAATACAGGTTTCAATAACCACCCGAAGACAGATCACAATGACCTTAGCTA
TCAACTTATAAATAACATTGCATAGGCTTATGGGGCGAAAATAAGTAATATTTGAAGGGTTTTGA
ATATTTGGGATCAGAACTATATTAGTCGTATTAATAAAAAAC
Found at i:94241533 original size:24 final size:23
Alignment explanation
Indices: 94241506--94241550 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
94241496 TAATAGATAA
94241506 TATACATTTTCAAGTTTTTAAAGT
1 TATACATTTTCAA-TTTTTAAAGT
** *
94241530 TATATTTTTTGAATTTTTAAA
1 TATACATTTTCAATTTTTAAA
94241551 ATTTGGAGTA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 8 0.44
24 10 0.56
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.56
Consensus pattern (23 bp):
TATACATTTTCAATTTTTAAAGT
Found at i:94244985 original size:35 final size:35
Alignment explanation
Indices: 94244946--94245038 Score: 132
Period size: 35 Copynumber: 2.7 Consensus size: 35
94244936 CCATGGAAAA
*
94244946 TTGTGAAACGTAGGTATGGTATTAACCATACTGAG
1 TTGTGAAACGTAGGTATGGTATTAACCATACTAAG
* * * *
94244981 TTGTGAAACGTAGGTGTGATATCATCCATACTAAG
1 TTGTGAAACGTAGGTATGGTATTAACCATACTAAG
*
94245016 TTGTGAAATGTAGGTATGGTATT
1 TTGTGAAACGTAGGTATGGTATT
94245039 TCAAGGAGGA
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 49 1.00
ACGTcount: A:0.30, C:0.10, G:0.26, T:0.34
Consensus pattern (35 bp):
TTGTGAAACGTAGGTATGGTATTAACCATACTAAG
Found at i:94246270 original size:24 final size:24
Alignment explanation
Indices: 94246243--94246291 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
94246233 ACAAGGTAAG
*
94246243 TAAGCGCAACAGGAAGTAGGTTGA
1 TAAGCGCAACAAGAAGTAGGTTGA
* *
94246267 TAAGCGCAATAAGAAGTGGGTTGA
1 TAAGCGCAACAAGAAGTAGGTTGA
94246291 T
1 T
94246292 CAGAATTGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.37, C:0.10, G:0.33, T:0.20
Consensus pattern (24 bp):
TAAGCGCAACAAGAAGTAGGTTGA
Found at i:94250548 original size:23 final size:23
Alignment explanation
Indices: 94250522--94250570 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
94250512 TAAATTAATA
94250522 AAATGTATAAATATTAAAGAGCT
1 AAATGTATAAATATTAAAGAGCT
*
94250545 AAATGTATAAATATTAAAGGGCT
1 AAATGTATAAATATTAAAGAGCT
94250568 AAA
1 AAA
94250571 CTTATTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.53, C:0.04, G:0.14, T:0.29
Consensus pattern (23 bp):
AAATGTATAAATATTAAAGAGCT
Found at i:94259466 original size:26 final size:27
Alignment explanation
Indices: 94259437--94259494 Score: 75
Period size: 25 Copynumber: 2.2 Consensus size: 27
94259427 TACTCCACTG
*
94259437 AAATTTTTGACAATTTTATCC-CGGTA
1 AAATTTTTGACAATTTTACCCTCGGTA
**
94259463 AAA-TTTTGATGATTTTACCCTCGGTA
1 AAATTTTTGACAATTTTACCCTCGGTA
94259489 AAATTT
1 AAATTT
94259495 CGAGAAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 14 0.52
26 11 0.41
27 2 0.07
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.43
Consensus pattern (27 bp):
AAATTTTTGACAATTTTACCCTCGGTA
Found at i:94272470 original size:15 final size:16
Alignment explanation
Indices: 94272445--94272474 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
94272435 TTAAATCAAT
94272445 TTATAAATTATATTAA
1 TTATAAATTATATTAA
94272461 TTAT-AATTATATTA
1 TTATAAATTATATTA
94272475 TGAAATAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTATAAATTATATTAA
Found at i:94277195 original size:41 final size:41
Alignment explanation
Indices: 94277088--94277205 Score: 141
Period size: 40 Copynumber: 2.9 Consensus size: 41
94277078 AATACTCGAT
* * * *
94277088 ATCTCGCACACTAAGTACCGTACATAGCTGAAGCTATCTCAA
1 ATCT-GCACACTAAGTGCCATATATAGCCGAAGCTATCTCAA
* *
94277130 ATC-ACACACTAAGTGCTATATATAGCCGAAGCTATCTC-A
1 ATCTGCACACTAAGTGCCATATATAGCCGAAGCTATCTCAA
*
94277169 ATCTTGCACCCTAAGTGCCATATATAGCCGAAGCTAT
1 ATC-TGCACACTAAGTGCCATATATAGCCGAAGCTAT
94277206 GTTGAATAGT
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
39 4 0.06
40 29 0.45
41 29 0.45
42 3 0.05
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.25
Consensus pattern (41 bp):
ATCTGCACACTAAGTGCCATATATAGCCGAAGCTATCTCAA
Found at i:94288539 original size:11 final size:9
Alignment explanation
Indices: 94288488--94288545 Score: 70
Period size: 9 Copynumber: 6.7 Consensus size: 9
94288478 AACTAAAAAG
94288488 TTGAGAGAA
1 TTGAGAGAA
94288497 TTGAGAGAA
1 TTGAGAGAA
94288506 -T-AGATGAA
1 TTGAGA-GAA
94288514 TTGAGAGAA
1 TTGAGAGAA
94288523 TTGAGAGAA
1 TTGAGAGAA
94288532 TT-AGGAGAA
1 TTGA-GAGAA
94288541 -TGAGA
1 TTGAGA
94288546 TTTGAATGCA
Statistics
Matches: 44, Mismatches: 0, Indels: 11
0.80 0.00 0.20
Matches are distributed among these distances:
7 3 0.07
8 8 0.18
9 30 0.68
10 3 0.07
ACGTcount: A:0.45, C:0.00, G:0.33, T:0.22
Consensus pattern (9 bp):
TTGAGAGAA
Found at i:94292508 original size:13 final size:13
Alignment explanation
Indices: 94292490--94292515 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
94292480 TTATACATTC
94292490 TAAAATTTTTTGG
1 TAAAATTTTTTGG
94292503 TAAAATTTTTTGG
1 TAAAATTTTTTGG
94292516 AGGCCCGACC
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:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (13 bp):
TAAAATTTTTTGG
Found at i:94293599 original size:24 final size:24
Alignment explanation
Indices: 94293584--94293635 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
94293574 AATTAGTGTC
*
94293584 AAATATATTATGCTAATAAATGCT
1 AAATATATTATACTAATAAATGCT
94293608 AAATATATTATACTAATAAATGCT
1 AAATATATTATACTAATAAATGCT
94293632 AAAT
1 AAAT
94293636 CTTCTAGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.50, C:0.08, G:0.06, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATGCT
Found at i:94293761 original size:29 final size:29
Alignment explanation
Indices: 94293715--94293799 Score: 125
Period size: 29 Copynumber: 2.9 Consensus size: 29
94293705 TCTACATTGA
* *
94293715 CACGAATTCTCAACGAACATGTTCTCCAC
1 CACGAACTCTCAACGAACAAGTTCTCCAC
*
94293744 CACGAACTCTCAATGAACAAGTTCTCCAC
1 CACGAACTCTCAACGAACAAGTTCTCCAC
* *
94293773 AACGAACTCTCAACAAACAAGTTCTCC
1 CACGAACTCTCAACGAACAAGTTCTCC
94293800 TCCTCTTTCA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 50 1.00
ACGTcount: A:0.35, C:0.34, G:0.09, T:0.21
Consensus pattern (29 bp):
CACGAACTCTCAACGAACAAGTTCTCCAC
Found at i:94296740 original size:30 final size:28
Alignment explanation
Indices: 94296706--94296761 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
94296696 TGGTTATAAA
94296706 AAAAATCAATAGATTCGATTATGAAATGAG
1 AAAAATCAATAGATT--ATTATGAAATGAG
* *
94296736 AAAAATGAATATATTATTATGAAATG
1 AAAAATCAATAGATTATTATGAAATG
94296762 TCAAATGATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 11 0.46
30 13 0.54
ACGTcount: A:0.52, C:0.04, G:0.14, T:0.30
Consensus pattern (28 bp):
AAAAATCAATAGATTATTATGAAATGAG
Found at i:94296813 original size:23 final size:23
Alignment explanation
Indices: 94296766--94296814 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
94296756 GAAATGTCAA
*
94296766 ATGATACATATGATTGAGATGAT
1 ATGATACATATGATTGAAATGAT
94296789 ATGATACAATAT-ATT-AAATGAAT
1 ATGATAC-ATATGATTGAAATG-AT
94296812 ATG
1 ATG
94296815 TATAAATGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 4 0.17
23 15 0.65
24 4 0.17
ACGTcount: A:0.45, C:0.04, G:0.16, T:0.35
Consensus pattern (23 bp):
ATGATACATATGATTGAAATGAT
Found at i:94298575 original size:47 final size:47
Alignment explanation
Indices: 94298524--94298613 Score: 162
Period size: 47 Copynumber: 1.9 Consensus size: 47
94298514 ATTTGTTCAC
*
94298524 TCCATTCAAAGAAGTTTAACACATTAAATAATGTAACAGTTGATCAT
1 TCCATTCAAAGAAGTATAACACATTAAATAATGTAACAGTTGATCAT
*
94298571 TCCATTCAGAGAAGTATAACACATTAAATAATGTAACAGTTGA
1 TCCATTCAAAGAAGTATAACACATTAAATAATGTAACAGTTGA
94298614 AGCTTGTGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 41 1.00
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.30
Consensus pattern (47 bp):
TCCATTCAAAGAAGTATAACACATTAAATAATGTAACAGTTGATCAT
Found at i:94301187 original size:29 final size:29
Alignment explanation
Indices: 94301103--94301187 Score: 80
Period size: 31 Copynumber: 2.8 Consensus size: 29
94301093 GATTAAATCA
* * *
94301103 AAATTAAAGTTTCAAGTATACATTTGAACT
1 AAATTAAAG-TTCATGTATACAATTGAACC
* * * *
94301133 ATAATTAGAATTTCATGTGTATAATTGCACC
1 A-AATTA-AAGTTCATGTATACAATTGAACC
94301164 AAATTAAAGTTCATGTATACAATT
1 AAATTAAAGTTCATGTATACAATT
94301188 ACGCATTAAA
Statistics
Matches: 43, Mismatches: 10, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
29 15 0.35
30 6 0.14
31 20 0.47
32 2 0.05
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.38
Consensus pattern (29 bp):
AAATTAAAGTTCATGTATACAATTGAACC
Found at i:94304942 original size:26 final size:26
Alignment explanation
Indices: 94304912--94304964 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
94304902 TTTATAATTT
94304912 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* * *
94304938 TACCCGTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
94304964 T
1 T
94304965 GCTTGTTTGG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:94307387 original size:131 final size:132
Alignment explanation
Indices: 94307126--94307465 Score: 496
Period size: 131 Copynumber: 2.6 Consensus size: 132
94307116 GTCCAACGAA
* * * * *
94307126 AAAATCGAAACCCAGCACAATAGGGCACGATTCCTCGAATTTCTAAACATCGAACATTGCCTT-A
1 AAAATCGCAACCCAGCACGATAGGGCACGATTCCTCGAATTGCCAAACATCGAACATTGCCTTCG
* * * *
94307190 TTTT--AG-AA-TTTAGAGAACATGAGTGAAATTCTAAAGGGATATTCGATTATTTTGAACAAAT
66 TTTTAAAGAAATTTTAAAGAACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAAC
94307251 AG
131 AG
**
94307253 AAAATCGCAACCCAGCACGATAGGGCACGATTCCTCGAATTGCCAAACATCGAACATTATCTTCG
1 AAAATCGCAACCCAGCACGATAGGGCACGATTCCTCGAATTGCCAAACATCGAACATTGCCTTCG
94307318 TTTTAAAGAAATTTTAAAG-ACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAAC
66 TTTTAAAGAAATTTTAAAGAACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAAC
*
94307382 GG
131 AG
*
94307384 AAAATCGCAACCCAGCACGATAGGGCACGATTCC-CGAATTGCCAAACATCGAGCATTGCCTTCG
1 AAAATCGCAACCCAGCACGATAGGGCACGATTCCTCGAATTGCCAAACATCGAACATTGCCTTCG
* *
94307448 TTTTAAATAATTTTTAAA
66 TTTTAAAGAAATTTTAAA
94307466 TGAATAATTA
Statistics
Matches: 191, Mismatches: 17, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
127 57 0.30
128 4 0.02
130 45 0.24
131 79 0.41
132 6 0.03
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.27
Consensus pattern (132 bp):
AAAATCGCAACCCAGCACGATAGGGCACGATTCCTCGAATTGCCAAACATCGAACATTGCCTTCG
TTTTAAAGAAATTTTAAAGAACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAAC
AG
Found at i:94310006 original size:131 final size:132
Alignment explanation
Indices: 94309746--94310084 Score: 476
Period size: 131 Copynumber: 2.6 Consensus size: 132
94309736 CCAATGAAAA
* * * * * *
94309746 AAATCGGAACCCAGCACAATAGAGCACGATTCCTCGAATTTCTAAACATCGAACATTGCCTT-AT
1 AAATCGCAACCCAGCACGATAGGGCACGATTCCTCGAATTGCCAAACATCGAACATTGCCTTCGT
** ** * *
94309810 TTT--AG-AA-TTTAGGGAACATGAGTGAAATTTTAAAGGGATATTCGATTATTTTGAACAAATA
66 TTTAAAGAAATTTTAAAGAACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACA
94309871 GG
131 GG
*
94309873 AAATCGCAACCCAGCACGATAGGGCACGATTCCTCGAATTGCCAAACATCGAACATTACCTTCGT
1 AAATCGCAACCCAGCACGATAGGGCACGATTCCTCGAATTGCCAAACATCGAACATTGCCTTCGT
*
94309938 TTTAAAGAAATTTTAAAG-ACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACG
66 TTTAAAGAAATTTTAAAGAACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACA
94310002 GG
131 GG
* *
94310004 AAATCGCAACCCAGCACGATAGGGCACAATTCC-CGAATTGCCAAACATCGAGCATTGCCTTCGT
1 AAATCGCAACCCAGCACGATAGGGCACGATTCCTCGAATTGCCAAACATCGAACATTGCCTTCGT
*
94310068 TTTAAAGAATTTTTAAA
66 TTTAAAGAAATTTTAAA
94310085 TGAATAATTA
Statistics
Matches: 189, Mismatches: 18, Indels: 7
0.88 0.08 0.03
Matches are distributed among these distances:
127 56 0.30
128 4 0.02
130 47 0.25
131 77 0.41
132 5 0.03
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (132 bp):
AAATCGCAACCCAGCACGATAGGGCACGATTCCTCGAATTGCCAAACATCGAACATTGCCTTCGT
TTTAAAGAAATTTTAAAGAACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACA
GG
Found at i:94313198 original size:133 final size:133
Alignment explanation
Indices: 94312946--94313516 Score: 829
Period size: 133 Copynumber: 4.3 Consensus size: 133
94312936 CACATCCTTT
* * * * * * *
94312946 GATCTGTTCCACTACAACTTCAGGGAGACGAGATCTGCAATCTTCAGCCTACTCTACTACGACTT
1 GATCTGCTCCACTGCAACTTCAGGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTT
94313011 TAGGGAGA-TAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACTAGATTCGCCGT
66 TAGGGA-ACTAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACTAGATTCGCCGT
94313075 CTTC
130 CTTC
* * *
94313079 GATTTGCTCTACTGCAACTTTAGGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTT
1 GATCTGCTCCACTGCAACTTCAGGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTT
*
94313144 TAAGGAACTAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACTAGATTCGCCGTC
66 TAGGGAACTAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACTAGATTCGCCGTC
94313209 TTC
131 TTC
* * * *
94313212 GATCTCCTCCACTGTAACTTTAAGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTT
1 GATCTGCTCCACTGCAACTTCAGGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTT
** * * * *
94313277 TAGGGAGTTAGGATGGTGGCTTAAATCTGTTTCATTGCAACTTCAGGAAGATTAGATTCGCTGTC
66 TAGGGAACTAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACTAGATTCGCCGTC
94313342 TTC
131 TTC
*
94313345 GATCTGCTCCACTGCAACTTCAGGGAAACAAGATCTACAATTTTCAGCCTACTCCACTACAACTT
1 GATCTGCTCCACTGCAACTTCAGGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTT
* * * ** * * *
94313410 TAGGGAGCTAGGATGATGGCTTAAATCTGTTTCACTATAACTTTAGGAAGACTAGATTCACCGTA
66 TAGGGAACTAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACTAGATTCGCCGTC
*
94313475 TTT
131 TTC
* *
94313478 GATCTACTCCACTGCAACTTCAAGGAAACAAGATCTACA
1 GATCTGCTCCACTGCAACTTCAGGGAAACAAGATCTACA
94313517 GAATCTGTTT
Statistics
Matches: 396, Mismatches: 41, Indels: 2
0.90 0.09 0.00
Matches are distributed among these distances:
132 1 0.00
133 395 1.00
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (133 bp):
GATCTGCTCCACTGCAACTTCAGGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTT
TAGGGAACTAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACTAGATTCGCCGTC
TTC
Found at i:94313361 original size:45 final size:44
Alignment explanation
Indices: 94313035--94313368 Score: 137
Period size: 45 Copynumber: 7.5 Consensus size: 44
94313025 GGTGGCTTAA
* *
94313035 ATCTGCTTCACTGCAACTTCAGGAAGACTAGATTCGCCGTCTTCG
1 ATCTGCTCCACTGCAACTTCAGGAAGACTAGA-TCGCTGTCTTCG
* * * * * **
94313080 ATTTGCTCTACTGCAACTTTAGGGAA-ACAAGATCTACAATCTTC-
1 ATCTGCTCCACTGCAACTTCA-GGAAGACTAGATC-GCTGTCTTCG
* * * * * * **
94313124 AGCCTACTCCACTACAACTTTAAGG-A-ACTAGGAT-GGTGGCTTAA
1 A-TCTGCTCCACTGCAAC-TTCAGGAAGACTA-GATCGCTGTCTTCG
* *
94313168 ATCTGCTTCACTGCAACTTCAGGAAGACTAGATTCGCCGTCTTCG
1 ATCTGCTCCACTGCAACTTCAGGAAGACTAGA-TCGCTGTCTTCG
* * * * * **
94313213 ATCTCCTCCACTGTAACTTTAAGGAA-ACAAGATCTACAATCTTC-
1 ATCTGCTCCACTGCAAC-TTCAGGAAGACTAGATC-GCTGTCTTCG
* * * * * * * * **
94313257 AGCCTACTCCACTACAACTTTAGGGAG-TTAGGAT-GGTGGCTTAA
1 A-TCTGCTCCACTGCAACTTCAGGAAGACTA-GATCGCTGTCTTCG
* * * *
94313301 ATCTGTTTCATTGCAACTTCAGGAAGATTAGATTCGCTGTCTTCG
1 ATCTGCTCCACTGCAACTTCAGGAAGACTAGA-TCGCTGTCTTCG
94313346 ATCTGCTCCACTGCAACTTCAGG
1 ATCTGCTCCACTGCAACTTCAGG
94313369 GAAACAAGAT
Statistics
Matches: 202, Mismatches: 68, Indels: 38
0.66 0.22 0.12
Matches are distributed among these distances:
42 5 0.02
43 40 0.20
44 28 0.14
45 115 0.57
46 14 0.07
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (44 bp):
ATCTGCTCCACTGCAACTTCAGGAAGACTAGATCGCTGTCTTCG
Found at i:94313640 original size:64 final size:64
Alignment explanation
Indices: 94313536--94313663 Score: 211
Period size: 64 Copynumber: 2.0 Consensus size: 64
94313526 TCATAGGCCT
* * *
94313536 ATGCTTATGCCAAATAATTAGGATGCTATGATCGACATGAATCGAATGTTCCTAACTAGATGTG
1 ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
**
94313600 ATGCTTATGCTGAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
1 ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
94313664 TTATGAATGA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 59 1.00
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (64 bp):
ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
Found at i:94319160 original size:131 final size:132
Alignment explanation
Indices: 94318900--94319238 Score: 476
Period size: 131 Copynumber: 2.6 Consensus size: 132
94318890 CCAATGAAAA
* * * * * *
94318900 AAATCGGAACCCAGCACAATAGAGCACGATTCCTCGAATTTCTAAACATCGAACATTGCCTT-AT
1 AAATCGCAACCCAGCACGATAGGGCACGATTCCTCGAATTGCCAAACATCGAACATTGCCTTCGT
** ** * *
94318964 TTT--AG-AA-TTTAGGGAACATGAGTGAAATTTTAAAGGGATATTCGATTATTTTGAACAAATA
66 TTTAAAGAAATTTTAAAGAACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACA
94319025 GG
131 GG
*
94319027 AAATCGCAACCCAGCACGATAGGGCACGATTCCTCGAATTGCCAAACATCGAACATTACCTTCGT
1 AAATCGCAACCCAGCACGATAGGGCACGATTCCTCGAATTGCCAAACATCGAACATTGCCTTCGT
*
94319092 TTTAAAGAAATTTTAAAG-ACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACG
66 TTTAAAGAAATTTTAAAGAACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACA
94319156 GG
131 GG
* *
94319158 AAATCGCAACCCAGCACGATAGGGCACAATTCC-CGAATTGCCAAACATCGAGCATTGCCTTCGT
1 AAATCGCAACCCAGCACGATAGGGCACGATTCCTCGAATTGCCAAACATCGAACATTGCCTTCGT
*
94319222 TTTAAAGAATTTTTAAA
66 TTTAAAGAAATTTTAAA
94319239 TGAATAATTA
Statistics
Matches: 189, Mismatches: 18, Indels: 7
0.88 0.08 0.03
Matches are distributed among these distances:
127 56 0.30
128 4 0.02
130 47 0.25
131 77 0.41
132 5 0.03
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (132 bp):
AAATCGCAACCCAGCACGATAGGGCACGATTCCTCGAATTGCCAAACATCGAACATTGCCTTCGT
TTTAAAGAAATTTTAAAGAACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACA
GG
Found at i:94324054 original size:27 final size:25
Alignment explanation
Indices: 94324007--94324065 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 25
94323997 TTCTTCTTCA
94324007 TTCTTTTTTATTATTATTTTTGTT-C
1 TTCTTTTTTATTATTATTTTT-TTCC
*
94324032 TTCTTTTTGTCATTTTTATTTTTTTCC
1 TTCTTTTT-T-ATTATTATTTTTTTCC
94324059 TTCTTTT
1 TTCTTTT
94324066 CAGTTTGATT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 8 0.27
26 3 0.10
27 19 0.63
ACGTcount: A:0.08, C:0.12, G:0.03, T:0.76
Consensus pattern (25 bp):
TTCTTTTTTATTATTATTTTTTTCC
Found at i:94330342 original size:21 final size:20
Alignment explanation
Indices: 94330313--94330351 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
94330303 AAACTAAAAG
*
94330313 TGTGAAAGAATATTCTATGCT
1 TGTGAAAGAACATT-TATGCT
*
94330334 TGTGGAAGAACATTTATG
1 TGTGAAAGAACATTTATG
94330352 TTATATGAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.33, C:0.08, G:0.23, T:0.36
Consensus pattern (20 bp):
TGTGAAAGAACATTTATGCT
Found at i:94331919 original size:17 final size:18
Alignment explanation
Indices: 94331897--94331935 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
94331887 ATTTAGGCCG
94331897 TGTGGG-CCAAATGGGTA
1 TGTGGGCCCAAATGGGTA
* *
94331914 TGTGGGCCCACATGGGTG
1 TGTGGGCCCAAATGGGTA
94331932 TGTG
1 TGTG
94331936 AAATTCTAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.15, C:0.15, G:0.44, T:0.26
Consensus pattern (18 bp):
TGTGGGCCCAAATGGGTA
Found at i:94332380 original size:55 final size:55
Alignment explanation
Indices: 94332313--94332420 Score: 162
Period size: 55 Copynumber: 2.0 Consensus size: 55
94332303 TCTTAAGCCT
* * *
94332313 ATTATCTAGCAGCTCAGCTGCAAATTTTTGTTTATGTACCGTGTTTCGGTACAAC
1 ATTATCTAGCAGCTCAGCTGCAAATTTCTATTTATGTACCGCGTTTCGGTACAAC
* * *
94332368 ATTATCTGGCAGCTCAGCTGTAAATTTCTATTTATGTGCCGCGTTTCGGTACA
1 ATTATCTAGCAGCTCAGCTGCAAATTTCTATTTATGTACCGCGTTTCGGTACA
94332421 GCATGATATG
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
55 47 1.00
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.38
Consensus pattern (55 bp):
ATTATCTAGCAGCTCAGCTGCAAATTTCTATTTATGTACCGCGTTTCGGTACAAC
Found at i:94349030 original size:17 final size:16
Alignment explanation
Indices: 94349003--94349052 Score: 61
Period size: 15 Copynumber: 3.2 Consensus size: 16
94348993 GTACTATATG
94349003 ATAAT-AATGATAATA
1 ATAATGAATGATAATA
94349018 ATAATGAAATGAT-ATA
1 ATAATG-AATGATAATA
*
94349034 A-AATGTATGATAATA
1 ATAATGAATGATAATA
94349049 ATAA
1 ATAA
94349053 AATTACATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
14 5 0.17
15 13 0.43
16 6 0.20
17 6 0.20
ACGTcount: A:0.58, C:0.00, G:0.10, T:0.32
Consensus pattern (16 bp):
ATAATGAATGATAATA
Found at i:94349246 original size:21 final size:21
Alignment explanation
Indices: 94349212--94349251 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
94349202 AAAAGAAAGT
*
94349212 ACAGGGACTCAATT-AAACGA
1 ACAGGGACTAAATTGAAACGA
94349232 ACAGGAGACTAAATTGAAAC
1 ACAGG-GACTAAATTGAAAC
94349252 TACAATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 8 0.47
22 4 0.24
ACGTcount: A:0.47, C:0.17, G:0.20, T:0.15
Consensus pattern (21 bp):
ACAGGGACTAAATTGAAACGA
Found at i:94355023 original size:50 final size:50
Alignment explanation
Indices: 94354948--94355224 Score: 421
Period size: 50 Copynumber: 5.5 Consensus size: 50
94354938 CCATGGCAAC
*
94354948 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGATAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
94354998 AAGTGATAAGTAATAGCTTCGGCTACACTTA-CATGATCAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATC-TGATCAAGGACAAATGA
*
94355048 AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * *
94355098 AAGTGATAAGTAATAGCTTCGGCTACACTTACCTGATCAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
94355148 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATAA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * *
94355198 CAAGTGAAAAGTGGTAGTTTCGGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
94355225 CTGATCAGTG
Statistics
Matches: 206, Mismatches: 18, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
49 1 0.00
50 181 0.88
51 24 0.12
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:94355121 original size:100 final size:100
Alignment explanation
Indices: 94354948--94355224 Score: 464
Period size: 100 Copynumber: 2.8 Consensus size: 100
94354938 CCATGGCAAC
*
94354948 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGATAAATGAAAGTGATAAGTAATA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGAAAGTGATAAGTAATA
94355013 GCTTCGGCTACACTTACATGATCAAGGACAAGTGA
66 GCTTCGGCTACACTTACATGATCAAGGACAAGTGA
*
94355048 AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGGACAAATGAAAGTGATAAGTAATA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGAAAGTGATAAGTAATA
*
94355113 GCTTCGGCTACACTTACCTGATCAAGGACAAGTGA
66 GCTTCGGCTACACTTACATGATCAAGGACAAGTGA
* * * **
94355148 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATAACAAGTGAAAAGTGGT
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA-AAGTGATAAGTAAT
*
94355213 AGTTTCGGCTAC
65 AGCTTCGGCTAC
94355225 CTGATCAGTG
Statistics
Matches: 166, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
100 144 0.87
101 22 0.13
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (100 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGAAAGTGATAAGTAATA
GCTTCGGCTACACTTACATGATCAAGGACAAGTGA
Found at i:94355357 original size:49 final size:48
Alignment explanation
Indices: 94355251--94355414 Score: 182
Period size: 49 Copynumber: 3.6 Consensus size: 48
94355241 GATTTCCGTA
* * * * *
94355251 TAAGACCATATCTGGGATATAGCATCAGT-GA-GATATGTGATTCGTG
1 TAAGACCATAGCTGGGCTATGGCATCAATATATGATATGTGATTCGTG
*
94355297 TAAGACCATAGCTGGGCTATGGCATCAATATGTGATATGTGATTACGTG
1 TAAGACCATAGCTGGGCTATGGCATCAATATATGATATGTGATT-CGTG
* *
94355346 TAAGACTATAGCTGGGCTATGGCATCGATATATGA-A--T-A-T-GTG
1 TAAGACCATAGCTGGGCTATGGCATCAATATATGATATGTGATTCGTG
*
94355388 TAAGACCATAGCTGGGTTATGGCATCA
1 TAAGACCATAGCTGGGCTATGGCATCA
94355415 TTATCTGAAG
Statistics
Matches: 103, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
42 27 0.26
44 1 0.01
45 1 0.01
46 26 0.25
48 12 0.12
49 36 0.35
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (48 bp):
TAAGACCATAGCTGGGCTATGGCATCAATATATGATATGTGATTCGTG
Found at i:94355389 original size:42 final size:43
Alignment explanation
Indices: 94355294--94355457 Score: 163
Period size: 42 Copynumber: 3.7 Consensus size: 43
94355284 TATGTGATTC
* *
94355294 GTGTAAGACCATAGCTGGGCTATGGCATCAATATGTGATATG-TGATT
1 GTGTAAGACCATAGCTGGGCTATGGCATC--GAT-T-ATATGAAGA-T
* *
94355341 ACGTGTAAGACTATAGCTGGGCTATGGCATCGA-TATATGAATAT
1 --GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
* *
94355385 GTGTAAGACCATAGCTGGGTTATGGCATC-ATTATCTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
* **
94355427 GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA
94355458 GAAAATGAAG
Statistics
Matches: 100, Mismatches: 12, Indels: 12
0.81 0.10 0.10
Matches are distributed among these distances:
41 1 0.01
42 61 0.61
43 1 0.01
44 6 0.06
45 2 0.02
47 1 0.01
49 28 0.28
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (43 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
Found at i:94356131 original size:23 final size:23
Alignment explanation
Indices: 94356101--94356151 Score: 102
Period size: 23 Copynumber: 2.2 Consensus size: 23
94356091 ATGATATTTC
94356101 AAATACTTTGGTGAATAAAGCTT
1 AAATACTTTGGTGAATAAAGCTT
94356124 AAATACTTTGGTGAATAAAGCTT
1 AAATACTTTGGTGAATAAAGCTT
94356147 AAATA
1 AAATA
94356152 TGAAATAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.43, C:0.08, G:0.16, T:0.33
Consensus pattern (23 bp):
AAATACTTTGGTGAATAAAGCTT
Found at i:94357704 original size:2 final size:2
Alignment explanation
Indices: 94357697--94357734 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
94357687 ATTGGGACCC
*
94357697 CT CT CT CT CT CT CT CT CT CT CT CT CT CC CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
94357735 GTTTGTCTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (2 bp):
CT
Found at i:94361471 original size:20 final size:19
Alignment explanation
Indices: 94361424--94361473 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 19
94361414 AAAATTGTAA
*
94361424 AATTTTATAAAATATATAG
1 AATTTTAGAAAATATATAG
* * *
94361443 AAATATAGAAATATATATAT
1 AATTTTAGAAA-ATATATAG
94361463 AATTTTAGAAA
1 AATTTTAGAAA
94361474 GTCGTAAGAA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (19 bp):
AATTTTAGAAAATATATAG
Found at i:94361658 original size:10 final size:10
Alignment explanation
Indices: 94361645--94361705 Score: 56
Period size: 10 Copynumber: 6.4 Consensus size: 10
94361635 TTTTGATGCA
94361645 TTTTATAATT
1 TTTTATAATT
*
94361655 TTTTATGA-T
1 TTTTATAATT
**
94361664 TTTTATAAAA
1 TTTTATAATT
*
94361674 TTTTACAATT
1 TTTTATAATT
*
94361684 TTTTATAA-A
1 TTTTATAATT
94361693 TTTTA-AATT
1 TTTTATAATT
94361702 TTTT
1 TTTT
94361706 TCATATTTTT
Statistics
Matches: 40, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
8 2 0.05
9 17 0.43
10 21 0.52
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (10 bp):
TTTTATAATT
Found at i:94361677 original size:19 final size:19
Alignment explanation
Indices: 94361662--94361704 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
94361652 ATTTTTTATG
94361662 ATTTTTATAAAATTTTACA
1 ATTTTTATAAAATTTTACA
94361681 ATTTTT-TATAAATTTTA-A
1 ATTTTTATA-AAATTTTACA
94361699 ATTTTT
1 ATTTTT
94361705 TTCATATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 9 0.39
19 14 0.61
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (19 bp):
ATTTTTATAAAATTTTACA
Found at i:94361706 original size:20 final size:20
Alignment explanation
Indices: 94361663--94361705 Score: 72
Period size: 18 Copynumber: 2.2 Consensus size: 20
94361653 TTTTTTATGA
94361663 TTTTTATAAAATTTTACAAT
1 TTTTTATAAAATTTTACAAT
94361683 TTTTTAT-AAATTTTA-AAT
1 TTTTTATAAAATTTTACAAT
94361701 TTTTT
1 TTTTT
94361706 TCATATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 8 0.35
19 8 0.35
20 7 0.30
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTTTATAAAATTTTACAAT
Found at i:94362043 original size:94 final size:89
Alignment explanation
Indices: 94361821--94362044 Score: 247
Period size: 94 Copynumber: 2.5 Consensus size: 89
94361811 TGTATTTTGG
* * * *
94361821 CAATTGAATGCAAAAAAAAAAGTTTAATTG-TTTTTTTTTTTGAAAAATTTTGAGAGTCTTTTTG
1 CAATTGAATGCAAAAAAAAGAGCTTAATTGTTTTTTTTTTTTAAAAAAATTTGAGAGTCTTTTTG
* *
94361885 ATATATTTTGACAATTTAAGTACC
66 ATACATTTTGACAATTCAAGTACC
* ** *
94361909 CAATTGAATGCAAAAAAAAATAGGGGCTTAATT-TCTTTTTTTTTAAAAAAAAAATTTGAGGGTC
1 CAATTGAATGC--AAAAAAA-A-GAGCTTAATTGT-TTTTTTTTT-TTAAAAAAATTTGAGAGTC
94361973 TTTTTGATACATTTTGA-AAGTTCAAGTACC
60 TTTTTGATACATTTTGACAA-TTCAAGTACC
* *
94362003 GAATTGAATGCAAAAAAAAGAGACTTAATTGTTTTCTTTTTT
1 CAATTGAATGCAAAAAAAAGAG-CTTAATTGTTTTTTTTTTT
94362045 AAAGTTTGAG
Statistics
Matches: 112, Mismatches: 14, Indels: 18
0.78 0.10 0.12
Matches are distributed among these distances:
88 11 0.10
90 9 0.08
91 17 0.15
92 15 0.13
93 11 0.10
94 49 0.44
ACGTcount: A:0.38, C:0.08, G:0.14, T:0.41
Consensus pattern (89 bp):
CAATTGAATGCAAAAAAAAGAGCTTAATTGTTTTTTTTTTTTAAAAAAATTTGAGAGTCTTTTTG
ATACATTTTGACAATTCAAGTACC
Found at i:94376346 original size:44 final size:43
Alignment explanation
Indices: 94376269--94376351 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 43
94376259 TTTGATATGT
*
94376269 GATTTCGTGTAAGACCACATTTGGGACGTTGGCATCGATTTCA
1 GATTTCGTGTAAGACCACATTTAGGACGTTGGCATCGATTTCA
*
94376312 GATTTACGTGTAAGACC-CTGTTTAGGACAG-TGGCATCGAT
1 GATTT-CGTGTAAGACCAC-ATTTAGGAC-GTTGGCATCGAT
94376352 ACTTAATTAC
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
43 6 0.17
44 28 0.80
45 1 0.03
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (43 bp):
GATTTCGTGTAAGACCACATTTAGGACGTTGGCATCGATTTCA
Found at i:94379552 original size:5 final size:6
Alignment explanation
Indices: 94379535--94379560 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
94379525 TTAAACCCCC
94379535 TATTTT TATTTT TATTTT TATTTT TA
1 TATTTT TATTTT TATTTT TATTTT TA
94379561 GCATTTCGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
TATTTT
Found at i:94380401 original size:11 final size:11
Alignment explanation
Indices: 94380385--94380412 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
94380375 GCAATACAAG
94380385 AAGTTGTGCGC
1 AAGTTGTGCGC
94380396 AAGTTGTGCGC
1 AAGTTGTGCGC
94380407 AAGTTG
1 AAGTTG
94380413 CCCACAACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.21, C:0.14, G:0.36, T:0.29
Consensus pattern (11 bp):
AAGTTGTGCGC
Found at i:94383366 original size:10 final size:10
Alignment explanation
Indices: 94383353--94383390 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
94383343 ACGTTTGAAA
94383353 AAAATAAAAC
1 AAAATAAAAC
94383363 AAAATAAAAC
1 AAAATAAAAC
94383373 AAAA-AAATA-
1 AAAATAAA-AC
94383382 AAAATAAAA
1 AAAATAAAA
94383391 AATGTATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 8 0.31
10 18 0.69
ACGTcount: A:0.84, C:0.05, G:0.00, T:0.11
Consensus pattern (10 bp):
AAAATAAAAC
Found at i:94383379 original size:13 final size:13
Alignment explanation
Indices: 94383350--94383393 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
94383340 ACTACGTTTG
94383350 AAAAAAATAAAAC
1 AAAAAAATAAAAC
94383363 ---AAAATAAAAC
1 AAAAAAATAAAAC
94383373 AAAAAAATAAAA-
1 AAAAAAATAAAAC
94383385 ATAAAAAAT
1 A-AAAAAAT
94383394 GTATATAGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
10 10 0.37
12 1 0.04
13 16 0.59
ACGTcount: A:0.84, C:0.05, G:0.00, T:0.11
Consensus pattern (13 bp):
AAAAAAATAAAAC
Found at i:94383995 original size:13 final size:13
Alignment explanation
Indices: 94383977--94384031 Score: 71
Period size: 13 Copynumber: 4.5 Consensus size: 13
94383967 AATTTAGAAT
94383977 TATTTAGTGATAA
1 TATTTAGTGATAA
*
94383990 TATTTAGTAATAA
1 TATTTAGTGATAA
*
94384003 TATTTA--GA-AT
1 TATTTAGTGATAA
94384013 TATTTAGTGATAA
1 TATTTAGTGATAA
94384026 TATTTA
1 TATTTA
94384032 AGAAAAATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
10 7 0.20
11 1 0.03
12 2 0.06
13 25 0.71
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:94384041 original size:24 final size:23
Alignment explanation
Indices: 94383991--94384043 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
94383981 TAGTGATAAT
**
94383991 ATTTAGTAATAATATTTAGAATT
1 ATTTAGTAATAATATTTAGAAAA
*
94384014 ATTTAGTGATAATATTTAAGAAAA
1 ATTTAGTAATAATATTT-AGAAAA
94384038 ATTTAG
1 ATTTAG
94384044 CTAAATTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 16 0.62
24 10 0.38
ACGTcount: A:0.45, C:0.00, G:0.11, T:0.43
Consensus pattern (23 bp):
ATTTAGTAATAATATTTAGAAAA
Found at i:94387708 original size:15 final size:15
Alignment explanation
Indices: 94387688--94387717 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
94387678 ATAAGCTAAT
94387688 TAATAAGAAAAGTCA
1 TAATAAGAAAAGTCA
94387703 TAATAAGAAAAGTCA
1 TAATAAGAAAAGTCA
94387718 CCATCATCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.07, G:0.13, T:0.20
Consensus pattern (15 bp):
TAATAAGAAAAGTCA
Found at i:94392468 original size:53 final size:53
Alignment explanation
Indices: 94392404--94392509 Score: 203
Period size: 53 Copynumber: 2.0 Consensus size: 53
94392394 CATCAGATTT
94392404 TCCTAATAAATACTAATCTTTCGTACGAAATCAGATAAAAATGTTTGATAATC
1 TCCTAATAAATACTAATCTTTCGTACGAAATCAGATAAAAATGTTTGATAATC
*
94392457 TCCTAATAAATACTAATCTTTCGTACGAAATCAGATAACAATGTTTGATAATC
1 TCCTAATAAATACTAATCTTTCGTACGAAATCAGATAAAAATGTTTGATAATC
94392510 CTATCTTTCA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.41, C:0.16, G:0.09, T:0.34
Consensus pattern (53 bp):
TCCTAATAAATACTAATCTTTCGTACGAAATCAGATAAAAATGTTTGATAATC
Found at i:94393321 original size:16 final size:16
Alignment explanation
Indices: 94393300--94393339 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
94393290 TCTGACATAA
94393300 TTTAAAATAA-AAATAT
1 TTTAAAA-AATAAATAT
94393316 TTTAAAAAATAAATAT
1 TTTAAAAAATAAATAT
*
94393332 TGTAAAAA
1 TTTAAAAA
94393340 TTGAATGTCG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 2 0.09
16 20 0.91
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (16 bp):
TTTAAAAAATAAATAT
Found at i:94397401 original size:15 final size:14
Alignment explanation
Indices: 94397363--94397404 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
94397353 ATAATTAATT
*
94397363 TTTAATTAAATAAA
1 TTTAATTAATTAAA
94397377 TTTAATTAATTAAA
1 TTTAATTAATTAAA
*
94397391 TGTTGATTAATTAA
1 T-TTAATTAATTAA
94397405 GTCAATATAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 14 0.56
15 11 0.44
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (14 bp):
TTTAATTAATTAAA
Found at i:94398038 original size:34 final size:34
Alignment explanation
Indices: 94397999--94398114 Score: 128
Period size: 34 Copynumber: 3.4 Consensus size: 34
94397989 ACATATATGG
*
94397999 ATATCATATCAGAATGACACAATACCACAAATAT
1 ATATCAAATCAGAATGACACAATACCACAAATAT
* * * * **
94398033 ATATCAAATCAGAAT-ATCATATTTCCA-GAACGT
1 ATATCAAATCAGAATGA-CACAATACCACAAATAT
*
94398066 ATATCATATCAGAATGACACAATACCACAAATAT
1 ATATCAAATCAGAATGACACAATACCACAAATAT
*
94398100 ATATCAAATTAGAAT
1 ATATCAAATCAGAAT
94398115 ATCATATTTC
Statistics
Matches: 63, Mismatches: 16, Indels: 6
0.74 0.19 0.07
Matches are distributed among these distances:
33 25 0.40
34 38 0.60
ACGTcount: A:0.48, C:0.18, G:0.07, T:0.27
Consensus pattern (34 bp):
ATATCAAATCAGAATGACACAATACCACAAATAT
Found at i:94398077 original size:33 final size:33
Alignment explanation
Indices: 94398032--94398143 Score: 118
Period size: 33 Copynumber: 3.4 Consensus size: 33
94398022 ACCACAAATA
94398032 TATATCAAATCAGAATATCATATTTCCAGAACG
1 TATATCAAATCAGAATATCATATTTCCAGAACG
* * * * * **
94398065 TATATCATATCAGAATGA-CACAATACCACAAATA
1 TATATCAAATCAGAAT-ATCATATTTCCA-GAACG
*
94398099 TATATCAAATTAGAATATCATATTTCCAGAACG
1 TATATCAAATCAGAATATCATATTTCCAGAACG
*
94398132 TATATCATATCA
1 TATATCAAATCA
94398144 AAACAAATCC
Statistics
Matches: 59, Mismatches: 17, Indels: 6
0.72 0.21 0.07
Matches are distributed among these distances:
33 35 0.59
34 24 0.41
ACGTcount: A:0.45, C:0.18, G:0.07, T:0.30
Consensus pattern (33 bp):
TATATCAAATCAGAATATCATATTTCCAGAACG
Found at i:94398107 original size:67 final size:67
Alignment explanation
Indices: 94397999--94398143 Score: 281
Period size: 67 Copynumber: 2.2 Consensus size: 67
94397989 ACATATATGG
94397999 ATATCATATCAGAATGACACAATACCACAAATATATATCAAATCAGAATATCATATTTCCAGAAC
1 ATATCATATCAGAATGACACAATACCACAAATATATATCAAATCAGAATATCATATTTCCAGAAC
94398064 GT
66 GT
*
94398066 ATATCATATCAGAATGACACAATACCACAAATATATATCAAATTAGAATATCATATTTCCAGAAC
1 ATATCATATCAGAATGACACAATACCACAAATATATATCAAATCAGAATATCATATTTCCAGAAC
94398131 GT
66 GT
94398133 ATATCATATCA
1 ATATCATATCA
94398144 AAACAAATCC
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 77 1.00
ACGTcount: A:0.46, C:0.19, G:0.07, T:0.28
Consensus pattern (67 bp):
ATATCATATCAGAATGACACAATACCACAAATATATATCAAATCAGAATATCATATTTCCAGAAC
GT
Found at i:94403042 original size:21 final size:21
Alignment explanation
Indices: 94403016--94403055 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
94403006 TTTATATTAT
94403016 TAAAATGGTAATAAAATAAAA
1 TAAAATGGTAATAAAATAAAA
**
94403037 TAAAATTTTAATAAAATAA
1 TAAAATGGTAATAAAATAA
94403056 TTTAATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (21 bp):
TAAAATGGTAATAAAATAAAA
Found at i:94403061 original size:13 final size:13
Alignment explanation
Indices: 94403024--94403078 Score: 57
Period size: 13 Copynumber: 4.6 Consensus size: 13
94403014 ATTAAAATGG
94403024 TAATAAAATAA--
1 TAATAAAATAATT
94403035 -AATAAAAT--TT
1 TAATAAAATAATT
94403045 TAATAAAATAATT
1 TAATAAAATAATT
*
94403058 TAATAAAAAAATT
1 TAATAAAATAATT
*
94403071 TAGTAAAA
1 TAATAAAA
94403079 ATTATTTACT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
10 8 0.22
11 8 0.22
13 21 0.57
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (13 bp):
TAATAAAATAATT
Found at i:94403066 original size:14 final size:14
Alignment explanation
Indices: 94403043--94403086 Score: 56
Period size: 13 Copynumber: 3.3 Consensus size: 14
94403033 AAAATAAAAT
94403043 TTTAAT-AAAATAA
1 TTTAATAAAAATAA
94403056 TTTAATAAAAA-AA
1 TTTAATAAAAATAA
* *
94403069 TTTAGTAAAAATTA
1 TTTAATAAAAATAA
94403083 TTTA
1 TTTA
94403087 CTTCCGAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
13 18 0.67
14 9 0.33
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (14 bp):
TTTAATAAAAATAA
Found at i:94408410 original size:41 final size:41
Alignment explanation
Indices: 94408360--94408619 Score: 310
Period size: 41 Copynumber: 6.4 Consensus size: 41
94408350 CGTTTTACCA
* * * ** *
94408360 AAAATGCCGCTAAAAA-CAGAGCAATAGCGACATTTTTTGTT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGC-GCTTTTGGT
* *
94408401 AAAACGCCGCTGAAAA-CTGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
* * ***
94408441 AAAACGCCGCTAAAAACCAAAGCATTAGCAGCG-TTTTACCA
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTT-GGT
*
94408482 AAAACGCCGCTAAAAACCTGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
* *
94408523 AAAACGCAGCTAAAAACCAGAGCATTAGTGGCGCTTTTGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
* * *
94408564 AAAACGCCGCTAAAAACCAGAGCAGTAGCGGCGCTTTCGAT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
94408605 AAAACGCCGCTAAAA
1 AAAACGCCGCTAAAA
94408620 GTCATATAAT
Statistics
Matches: 187, Mismatches: 29, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
40 25 0.13
41 158 0.84
42 4 0.02
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.20
Consensus pattern (41 bp):
AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
Found at i:94408578 original size:123 final size:122
Alignment explanation
Indices: 94408339--94408619 Score: 368
Period size: 123 Copynumber: 2.3 Consensus size: 122
94408329 TAAAAAACGG
* ** *
94408339 AGCAATAGCGGCGTTTTACCAAAAATGCCGCTAAAAACAGAGCAATAGCGACATTTTTTGTTAAA
1 AGCAATAGCGGCGTTTTACCAAAAACGCCGCTAAAAACAGAGCAATAGCGACAGCTTTTGGTAAA
* * *
94408404 ACGCCGCTGAAAACTGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAA
66 ACGCAGCTAAAAACAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAA
* * * * *
94408461 AGCATTAGCAGCGTTTTACCAAAAACGCCGCTAAAAACCTGAGCATTAGCGGC-GCTTTTGGTAA
1 AGCAATAGCGGCGTTTTACCAAAAACGCCGCTAAAAA-CAGAGCAATAGCGACAGCTTTTGGTAA
* *
94408525 AACGCAGCTAAAAACCAGAGCATTAGTGGCGCTTTTGGTAAAACGCCGCTAAAAACCAG
65 AACGCAGCTAAAAA-CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAA
* * *
94408584 AGCAGTAGCGGCGCTTT-CGATAAAACGCCGCTAAAA
1 AGCAATAGCGGCGTTTTACCA-AAAACGCCGCTAAAA
94408620 GTCATATAAT
Statistics
Matches: 138, Mismatches: 18, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
122 56 0.41
123 82 0.59
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.20
Consensus pattern (122 bp):
AGCAATAGCGGCGTTTTACCAAAAACGCCGCTAAAAACAGAGCAATAGCGACAGCTTTTGGTAAA
ACGCAGCTAAAAACAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAA
Found at i:94409147 original size:7 final size:7
Alignment explanation
Indices: 94409137--94409180 Score: 61
Period size: 7 Copynumber: 6.3 Consensus size: 7
94409127 GGTTTAAGAT
*
94409137 TTAGGTG
1 TTAGGGG
94409144 TTAGGGG
1 TTAGGGG
94409151 TTAGGGG
1 TTAGGGG
94409158 TTAGGGG
1 TTAGGGG
*
94409165 TTAAGGG
1 TTAGGGG
*
94409172 TGAGGGG
1 TTAGGGG
94409179 TT
1 TT
94409181 CATGGTTCAG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.16, C:0.00, G:0.52, T:0.32
Consensus pattern (7 bp):
TTAGGGG
Found at i:94409357 original size:14 final size:14
Alignment explanation
Indices: 94409338--94409364 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
94409328 TATCATTATA
94409338 GTTTAGGGTTTAAG
1 GTTTAGGGTTTAAG
94409352 GTTTAGGGTTTAA
1 GTTTAGGGTTTAA
94409365 AGTGTATGAG
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:0.22, C:0.00, G:0.33, T:0.44
Consensus pattern (14 bp):
GTTTAGGGTTTAAG
Found at i:94409405 original size:15 final size:15
Alignment explanation
Indices: 94409387--94409429 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
94409377 ATTATTTTAA
94409387 GGTTTATGGATTATG
1 GGTTTATGGATTATG
*
94409402 GGTTTAGGGATTAT-
1 GGTTTATGGATTATG
*
94409416 GATTTATGG-TTATG
1 GGTTTATGGATTATG
94409430 TAAGAGATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
13 4 0.17
14 7 0.29
15 13 0.54
ACGTcount: A:0.21, C:0.00, G:0.33, T:0.47
Consensus pattern (15 bp):
GGTTTATGGATTATG
Done.