Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 41 of 221
Found at i:11403826 original size:20 final size:20
Alignment explanation
Indices: 11403801--11403841 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
11403791 TAATAACATG
*
11403801 TCTAAAATGGATATTTTATT
1 TCTAAAATGGACATTTTATT
*
11403821 TCTAAAATGGACCTTTTATT
1 TCTAAAATGGACATTTTATT
11403841 T
1 T
11403842 ATCAAAAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.32, C:0.10, G:0.10, T:0.49
Consensus pattern (20 bp):
TCTAAAATGGACATTTTATT
Found at i:11403908 original size:13 final size:13
Alignment explanation
Indices: 11403892--11403963 Score: 64
Period size: 13 Copynumber: 5.9 Consensus size: 13
11403882 TTTAAACAAA
11403892 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
11403905 ACTTTTCAAAATC
1 ACTTTTCAAAAGC
*
11403918 ACTTTTCCAAAG-
1 ACTTTTCAAAAGC
*
11403930 ----TACAAAAGC
1 ACTTTTCAAAAGC
*
11403939 ACTTTTCAAAATC
1 ACTTTTCAAAAGC
*
11403952 ACTTTTCCAAAG
1 ACTTTTCAAAAG
11403964 TACAAAAATA
Statistics
Matches: 45, Mismatches: 9, Indels: 10
0.70 0.14 0.16
Matches are distributed among these distances:
8 6 0.13
13 39 0.87
ACGTcount: A:0.39, C:0.24, G:0.06, T:0.32
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:11403936 original size:34 final size:34
Alignment explanation
Indices: 11403898--11403970 Score: 146
Period size: 34 Copynumber: 2.1 Consensus size: 34
11403888 CAAAACTTTT
11403898 CAAAAGCACTTTTCAAAATCACTTTTCCAAAGTA
1 CAAAAGCACTTTTCAAAATCACTTTTCCAAAGTA
11403932 CAAAAGCACTTTTCAAAATCACTTTTCCAAAGTA
1 CAAAAGCACTTTTCAAAATCACTTTTCCAAAGTA
11403966 CAAAA
1 CAAAA
11403971 ATATATGGCC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.44, C:0.23, G:0.05, T:0.27
Consensus pattern (34 bp):
CAAAAGCACTTTTCAAAATCACTTTTCCAAAGTA
Found at i:11406251 original size:16 final size:16
Alignment explanation
Indices: 11406230--11406269 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
11406220 AATATATATC
**
11406230 ATATTTAATGTAAATA
1 ATATTTAAAATAAATA
11406246 ATATTTAAAATAAATA
1 ATATTTAAAATAAATA
11406262 ATAATTTA
1 AT-ATTTA
11406270 TGAATAGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 16 0.76
17 5 0.24
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (16 bp):
ATATTTAAAATAAATA
Found at i:11409227 original size:50 final size:48
Alignment explanation
Indices: 11409188--11409319 Score: 151
Period size: 50 Copynumber: 2.7 Consensus size: 48
11409178 CATTGAAGTT
11409188 ATGAGAGGTCCCAT-GTAAGACCATGTCTGGGACATGGCATTGGCACCGAG
1 ATGAGAGGTCCC-TCGTAAGACCATGTCTGGGACATGGCA-T-GCACCGAG
* *
11409238 ATGAGAGGTCCCTCGTAAGACCATGTCTGGGACATGGCATGGGCACCAAT
1 ATGAGAGGTCCCTCGTAAGACCATGTCTGGGACATGGCAT--GCACCGAG
** *
11409288 ATGAGAACTCCCAT-GTAAGACCATATCTGGGA
1 ATGAGAGGTCCC-TCGTAAGACCATGTCTGGGA
11409320 TATGAAATTG
Statistics
Matches: 74, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
49 2 0.03
50 71 0.96
51 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.29, T:0.20
Consensus pattern (48 bp):
ATGAGAGGTCCCTCGTAAGACCATGTCTGGGACATGGCATGCACCGAG
Found at i:11418753 original size:10 final size:11
Alignment explanation
Indices: 11418728--11418754 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
11418718 AAATAAAATA
11418728 AAAAAATAAAC
1 AAAAAATAAAC
11418739 AAAAAATAAAC
1 AAAAAATAAAC
11418750 AAAAA
1 AAAAA
11418755 GGGAAAATAA
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:0.85, C:0.07, G:0.00, T:0.07
Consensus pattern (11 bp):
AAAAAATAAAC
Found at i:11421389 original size:17 final size:17
Alignment explanation
Indices: 11421363--11421395 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
11421353 GTATTGATTT
*
11421363 TGACATCTCTATGTCAA
1 TGACAACTCTATGTCAA
11421380 TGACAACTCTATGTCA
1 TGACAACTCTATGTCA
11421396 TCAATCAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.33
Consensus pattern (17 bp):
TGACAACTCTATGTCAA
Found at i:11426373 original size:66 final size:66
Alignment explanation
Indices: 11426290--11426415 Score: 182
Period size: 66 Copynumber: 1.9 Consensus size: 66
11426280 TTATTGCATT
* ** *
11426290 AATGTCGCTGCATGAGTTAA-TCCAAGATTACGTCCAGAATTGTCGCTGCACTTGACAGCTGCTC
1 AATGTCGCTGCATGAGTTAATTCC-AGATGACGTCCAGAATTGTCGCCACACCTGACAGCTGCTC
11426354 GC
65 GC
* *
11426356 AATGTCGTTGCATGAGTTAATTCCAGATGGCGTCCAGAATTGTCGCCACACCTGACAGCT
1 AATGTCGCTGCATGAGTTAATTCCAGATGACGTCCAGAATTGTCGCCACACCTGACAGCT
11426416 ATCCGGATAA
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
66 50 0.94
67 3 0.06
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (66 bp):
AATGTCGCTGCATGAGTTAATTCCAGATGACGTCCAGAATTGTCGCCACACCTGACAGCTGCTCG
C
Found at i:11429036 original size:79 final size:81
Alignment explanation
Indices: 11428927--11429109 Score: 241
Period size: 79 Copynumber: 2.3 Consensus size: 81
11428917 TACTCGTTCA
* *
11428927 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
*
11428990 ATTTAGTAACTT-GCACC
65 ATATAGTAACTTAGCA-C
**
11429007 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
11429070 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
11429086 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
11429110 CATCATTCGA
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 3 0.03
79 61 0.67
80 27 0.30
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:11429109 original size:40 final size:40
Alignment explanation
Indices: 11428906--11429109 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
11428896 CGGAATTTAA
** *
11428906 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
11428946 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
11428986 CCGGATTTAGTAACTTGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
11429025 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
11429065 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
11429105 CCGGA
1 CCGGA
11429110 CATCATTCGA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 93 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:11431355 original size:54 final size:53
Alignment explanation
Indices: 11431262--11431381 Score: 152
Period size: 54 Copynumber: 2.2 Consensus size: 53
11431252 AGTGCGTCAC
* *
11431262 AAGGCATTCCCTTCATAGATCGCCATGAAGGCTTCCTTTTCATAGATAGCCACA
1 AAGGC-TTCCTTTCATAGATCGCCATAAAGGCTTCCTTTTCATAGATAGCCACA
* * * *
11431316 AAGGCTTCCTTTCTATAGATTGCCA-AAAGGACTTTCTTTTCATAGATCGCTACA
1 AAGGCTTCCTTTC-ATAGATCGCCATAAAGG-CTTCCTTTTCATAGATAGCCACA
11431370 AAGGCTTCCTTT
1 AAGGCTTCCTTT
11431382 TTCTAGCGTG
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
53 11 0.19
54 47 0.81
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.33
Consensus pattern (53 bp):
AAGGCTTCCTTTCATAGATCGCCATAAAGGCTTCCTTTTCATAGATAGCCACA
Found at i:11431382 original size:27 final size:27
Alignment explanation
Indices: 11431273--11431382 Score: 134
Period size: 27 Copynumber: 4.1 Consensus size: 27
11431263 AGGCATTCCC
**
11431273 TTCATAGATCGCCATGAAGGCTTCCTT
1 TTCATAGATCGCCACAAAGGCTTCCTT
*
11431300 TTCATAGATAGCCACAAAGGCTTCC-T
1 TTCATAGATCGCCACAAAGGCTTCCTT
* *
11431326 TTCTATAGATTGCCA-AAAGGACTTTCTT
1 TTC-ATAGATCGCCACAAAGG-CTTCCTT
*
11431354 TTCATAGATCGCTACAAAGGCTTCCTT
1 TTCATAGATCGCCACAAAGGCTTCCTT
11431381 TT
1 TT
11431383 TCTAGCGTGT
Statistics
Matches: 71, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
26 9 0.13
27 53 0.75
28 9 0.13
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (27 bp):
TTCATAGATCGCCACAAAGGCTTCCTT
Found at i:11432577 original size:29 final size:29
Alignment explanation
Indices: 11432535--11432592 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
11432525 AGATGAACTG
11432535 GGCGTACAACACCTTTGGCAATAATCCCT
1 GGCGTACAACACCTTTGGCAATAATCCCT
11432564 GGCGTACAACACCTTTGGCAATAATCCCT
1 GGCGTACAACACCTTTGGCAATAATCCCT
11432593 TACTTATAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (29 bp):
GGCGTACAACACCTTTGGCAATAATCCCT
Found at i:11435524 original size:21 final size:21
Alignment explanation
Indices: 11435500--11435546 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
11435490 GAACTGAGAG
*
11435500 TTCTACCGATACAACTCTGG-C
1 TTCTACCAATACAAC-CTGGAC
11435521 TTCTACCAATACAACCTGGAC
1 TTCTACCAATACAACCTGGAC
11435542 TTCTA
1 TTCTA
11435547 TCGGTAGAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 4 0.17
21 20 0.83
ACGTcount: A:0.28, C:0.32, G:0.11, T:0.30
Consensus pattern (21 bp):
TTCTACCAATACAACCTGGAC
Found at i:11441945 original size:12 final size:12
Alignment explanation
Indices: 11441914--11441953 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
11441904 TTTCCGTTTC
*
11441914 CATTTTCA-TAT
1 CATTTTCATTCT
*
11441925 CATTCTCATTCT
1 CATTTTCATTCT
11441937 CATTTTCATTCT
1 CATTTTCATTCT
11441949 CATTT
1 CATTT
11441954 CAATTTCATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
11 7 0.28
12 18 0.72
ACGTcount: A:0.20, C:0.25, G:0.00, T:0.55
Consensus pattern (12 bp):
CATTTTCATTCT
Found at i:11441947 original size:18 final size:17
Alignment explanation
Indices: 11441924--11441963 Score: 62
Period size: 18 Copynumber: 2.3 Consensus size: 17
11441914 CATTTTCATA
*
11441924 TCATTCTCATTCTCATTT
1 TCATTCTCATT-TCAATT
11441942 TCATTCTCATTTCAATT
1 TCATTCTCATTTCAATT
11441959 TCATT
1 TCATT
11441964 TCCGCAGTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.20, C:0.25, G:0.00, T:0.55
Consensus pattern (17 bp):
TCATTCTCATTTCAATT
Found at i:11453833 original size:22 final size:21
Alignment explanation
Indices: 11453808--11453851 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
11453798 TGATAAACTT
11453808 TAATATATA-ATTATATTATTTA
1 TAATATATATATTA-ATT-TTTA
*
11453830 TAATTTATATATTAATTTTTA
1 TAATATATATATTAATTTTTA
11453851 T
1 T
11453852 CAACTTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 11 0.55
23 4 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TAATATATATATTAATTTTTA
Found at i:11463568 original size:23 final size:22
Alignment explanation
Indices: 11463542--11463605 Score: 58
Period size: 21 Copynumber: 2.8 Consensus size: 22
11463532 TCTTAGTAAT
11463542 GCCTTTATGGTGTATTCTATCTG
1 GCCTTTATGG-GTATTCTATCTG
* * * *
11463565 GCCTTTGT-GGCATTCTATTTT
1 GCCTTTATGGGTATTCTATCTG
11463586 GCCTTTATGGCGTACTTCTA
1 GCCTTTATGG-GTA-TTCTA
11463606 CTAAAGCTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
21 16 0.50
22 2 0.06
23 9 0.28
24 5 0.16
ACGTcount: A:0.12, C:0.20, G:0.20, T:0.47
Consensus pattern (22 bp):
GCCTTTATGGGTATTCTATCTG
Found at i:11468217 original size:24 final size:24
Alignment explanation
Indices: 11468185--11468232 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
11468175 AAACCATTAA
11468185 ATATATTTTT-TTAATATTTAAATT
1 ATATATTTTTATTAA-ATTTAAATT
*
11468209 ATATTTTTTTATTAAATTTAAATT
1 ATATATTTTTATTAAATTTAAATT
11468233 TTCATATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (24 bp):
ATATATTTTTATTAAATTTAAATT
Found at i:11469449 original size:14 final size:14
Alignment explanation
Indices: 11469425--11469464 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
11469415 ATGTGAAGAA
11469425 TATTA-TTTAAAAT
1 TATTATTTTAAAAT
11469438 TATTATTTTAAAA-
1 TATTATTTTAAAAT
11469451 T-TTATTCTTAAAAT
1 TATTATT-TTAAAAT
11469465 AAAATTGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 5 0.21
13 12 0.50
14 7 0.29
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (14 bp):
TATTATTTTAAAAT
Found at i:11469578 original size:15 final size:15
Alignment explanation
Indices: 11469558--11469613 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
11469548 TGTATGTTTA
11469558 ATAATATTTATAATT
1 ATAATATTTATAATT
11469573 ATAATATTT-TATATT
1 ATAATATTTATA-ATT
*
11469588 A-ATATATTAATAATT
1 ATA-ATATTTATAATT
*
11469603 TTAAATATTTA
1 AT-AATATTTA
11469614 AAAAATAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
14 3 0.09
15 21 0.64
16 8 0.24
17 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATAATATTTATAATT
Found at i:11469603 original size:22 final size:22
Alignment explanation
Indices: 11469494--11469605 Score: 60
Period size: 21 Copynumber: 5.1 Consensus size: 22
11469484 GTTTATTTTA
11469494 TTATATTAATTATATTAATAATTTAT
1 TTATATTAA-TATATTAATAA--T-T
*
11469520 TATATGATTAA-ATATAAATAATT
1 T-TAT-ATTAATATATTAATAATT
** * *
11469543 AAATATGT-ATGT-TTAATAATA
1 TTATAT-TAATATATTAATAATT
11469564 TT-TA-TAAT-TA-TAAT-ATT
1 TTATATTAATATATTAATAATT
11469581 TTATATTAATATATTAATAATT
1 TTATATTAATATATTAATAATT
11469603 TTA
1 TTA
11469606 AATATTTAAA
Statistics
Matches: 66, Mismatches: 9, Indels: 26
0.65 0.09 0.26
Matches are distributed among these distances:
17 4 0.06
18 8 0.12
19 6 0.09
20 4 0.06
21 14 0.21
22 10 0.15
23 1 0.02
24 1 0.02
26 10 0.15
27 3 0.05
28 5 0.08
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.52
Consensus pattern (22 bp):
TTATATTAATATATTAATAATT
Found at i:11470466 original size:3 final size:3
Alignment explanation
Indices: 11470458--11470491 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
11470448 TAACATTTCG
11470458 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
11470492 AACCTTTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:11473514 original size:5 final size:5
Alignment explanation
Indices: 11473504--11473530 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
11473494 AGTGCTAGTC
11473504 TCCTT TCCTT TCCTT TCCTT TCCTT TC
1 TCCTT TCCTT TCCTT TCCTT TCCTT TC
11473531 TTCTTACGGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (5 bp):
TCCTT
Found at i:11475017 original size:35 final size:35
Alignment explanation
Indices: 11474944--11475010 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
11474934 TCGAAATCGT
* *
11474944 AACCCGTAATCTCGAACCCTTGAACCTTAAACTCA
1 AACCCGTAACCTCGAACCCTTGAACCCTAAACTCA
11474979 AACCCGTAACCTCGAACCCTTGAACCCTAAAC
1 AACCCGTAACCTCGAACCCTTGAACCCTAAAC
11475011 CTAAACCTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.34, C:0.37, G:0.09, T:0.19
Consensus pattern (35 bp):
AACCCGTAACCTCGAACCCTTGAACCCTAAACTCA
Found at i:11475032 original size:35 final size:36
Alignment explanation
Indices: 11474944--11475045 Score: 88
Period size: 35 Copynumber: 2.9 Consensus size: 36
11474934 TCGAAATCGT
* * * *
11474944 AACCCGTAATCTCGAACCCTTGAACCTTAAA-CTCA
1 AACCCGTAACCACCAACCCTTGAACCCTAAACCTCA
* *
11474979 AACCCGTAACCTCGAACCCTTGAACCCTAAACCT-A
1 AACCCGTAACCACCAACCCTTGAACCCTAAACCTCA
* *
11475014 AA-CCTTGAACCACCAACCC--GAACTCTAAACCT
1 AACCCGT-AACCACCAACCCTTGAACCCTAAACCT
11475046 TAAATCCTAA
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
33 12 0.20
34 3 0.05
35 42 0.71
36 2 0.03
ACGTcount: A:0.35, C:0.38, G:0.08, T:0.19
Consensus pattern (36 bp):
AACCCGTAACCACCAACCCTTGAACCCTAAACCTCA
Found at i:11475532 original size:102 final size:104
Alignment explanation
Indices: 11475356--11475559 Score: 227
Period size: 102 Copynumber: 2.0 Consensus size: 104
11475346 TAGATGAGTA
* * **
11475356 TATAATAACACTTTGTTATCTTTAAAATTTAATGATGTGACATTATTTTATTGGTGCTTAAAAAC
1 TATAATAACACTTTGTTATCTTTAAAATTTAATGACGTGACACTATTTTATTAATGCTTAAAAAC
**
11475421 TATACTTTTTT-GGATAATCT-TAATATAATTTATTCTCG
66 TATACTTTTTTAAAATAAT-TATAATATAATTTATTCTCG
* * * * * *
11475459 TATAATAATA-TTTTTTATTTTTAAAATTTAATGACGTGGCACTATTTTATTAAT-ATCTAAAAT
1 TATAATAACACTTTGTTATCTTTAAAATTTAATGACGTGACACTATTTTATTAATGCT-TAAAAA
* * *
11475522 TTATATTTTTTTAAAATGATTATAATATAATTTATTCT
65 CTATACTTTTTTAAAATAATTATAATATAATTTATTCT
11475560 AAATTAATTT
Statistics
Matches: 83, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
101 1 0.01
102 53 0.64
103 29 0.35
ACGTcount: A:0.35, C:0.07, G:0.07, T:0.50
Consensus pattern (104 bp):
TATAATAACACTTTGTTATCTTTAAAATTTAATGACGTGACACTATTTTATTAATGCTTAAAAAC
TATACTTTTTTAAAATAATTATAATATAATTTATTCTCG
Found at i:11475969 original size:21 final size:20
Alignment explanation
Indices: 11475943--11475981 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
11475933 AGGGTCATAG
11475943 TATTTAATTATAATTAATTAT
1 TATTTAATTAT-ATTAATTAT
11475964 TATTTAATTATATTAATT
1 TATTTAATTATATTAATT
11475982 TGAAAGCTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TATTTAATTATATTAATTAT
Found at i:11475997 original size:14 final size:13
Alignment explanation
Indices: 11475976--11476014 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
11475966 TTTAATTATA
*
11475976 TTAATTTGAAAGC
1 TTAATTTGAAAAC
11475989 TTAAGTTTGAAAAC
1 TTAA-TTTGAAAAC
11476003 TTAATTTGAAAA
1 TTAATTTGAAAA
11476015 TTTGGAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 12 0.50
14 12 0.50
ACGTcount: A:0.44, C:0.05, G:0.13, T:0.38
Consensus pattern (13 bp):
TTAATTTGAAAAC
Found at i:11476052 original size:29 final size:27
Alignment explanation
Indices: 11475978--11476052 Score: 69
Period size: 29 Copynumber: 2.6 Consensus size: 27
11475968 TAATTATATT
* * * *
11475978 AATTTGAAAGCTTAAGTTTGAAAACTT
1 AATTTGAAAACTTAAATTTAAAAACTA
*
11476005 AATTTGAAAATTTGGAAATTTAAAAACTA
1 AATTTGAAAACTT--AAATTTAAAAACTA
11476034 AATTTTTGAAAACTTAAAT
1 AA--TTTGAAAACTTAAAT
11476053 GTCTTGAGAA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
27 11 0.29
29 17 0.45
31 10 0.26
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.37
Consensus pattern (27 bp):
AATTTGAAAACTTAAATTTAAAAACTA
Found at i:11476545 original size:35 final size:35
Alignment explanation
Indices: 11476501--11476707 Score: 219
Period size: 35 Copynumber: 6.1 Consensus size: 35
11476491 TTCACTTGTC
* *
11476501 TTTTCTTGCAGGGAATATTTCCTGTTCACGCATTA
1 TTTTGTTGCAGGGAATCTTTCCTGTTCACGCATTA
* * *
11476536 TTCTGTTGCAGGAAATCTTTCCTGTTCA--CATCA
1 TTTTGTTGCAGGGAATCTTTCCTGTTCACGCATTA
* * *
11476569 -TTTCTTGCAGGGAACCTCTCCTGTTCACGCATTA
1 TTTTGTTGCAGGGAATCTTTCCTGTTCACGCATTA
* *
11476603 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTA
1 TTTTGTTGCAGGGAATCTTTCCTGTTCACGCATTA
* *
11476638 TTTTGTTGCAGGGAATCTTTCTTGTTCA--CATCA
1 TTTTGTTGCAGGGAATCTTTCCTGTTCACGCATTA
* * * * *
11476671 -TTTCTTGCAGGGAATCTCTCATGTTCATGTATTA
1 TTTTGTTGCAGGGAATCTTTCCTGTTCACGCATTA
11476705 TTT
1 TTT
11476708 CTTTTTGGAC
Statistics
Matches: 144, Mismatches: 22, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
32 46 0.32
33 8 0.06
34 7 0.05
35 83 0.58
ACGTcount: A:0.19, C:0.22, G:0.17, T:0.42
Consensus pattern (35 bp):
TTTTGTTGCAGGGAATCTTTCCTGTTCACGCATTA
Found at i:11476679 original size:67 final size:68
Alignment explanation
Indices: 11476501--11476697 Score: 231
Period size: 67 Copynumber: 2.9 Consensus size: 68
11476491 TTCACTTGTC
* * *
11476501 TTTTCTTGCAGGGAATATTTCCTGTTCACGCATTATTCTGTTGCAGGAAATCTTTCCTGTT--CA
1 TTTTCTTGCAGGGAATCTTTCCTGTTCAC-CATTATT-TGTTGCAGGGAATCTCTCCTGTTCACA
11476564 CATCA
64 CATCA
* *
11476569 -TTTCTTGCAGGGAACCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACA
1 TTTTCTTGCAGGGAATCTTTCCTGTTCAC-CATTA-TTTGTTGCAGGGAATCTCTCCTGTTCACA
*
11476633 CATTA
64 CATCA
* * * * *
11476638 TTTTGTTGCAGGGAATCTTTCTTGTTCA-CATCATTTCTTGCAGGGAATCTCTCATGTTCA
1 TTTTCTTGCAGGGAATCTTTCCTGTTCACCATTATTTGTTGCAGGGAATCTCTCCTGTTCA
11476698 TGTATTATTT
Statistics
Matches: 112, Mismatches: 13, Indels: 9
0.84 0.10 0.07
Matches are distributed among these distances:
67 77 0.69
68 6 0.05
69 6 0.05
70 23 0.21
ACGTcount: A:0.19, C:0.23, G:0.17, T:0.41
Consensus pattern (68 bp):
TTTTCTTGCAGGGAATCTTTCCTGTTCACCATTATTTGTTGCAGGGAATCTCTCCTGTTCACACA
TCA
Found at i:11476682 original size:102 final size:102
Alignment explanation
Indices: 11476501--11476707 Score: 315
Period size: 102 Copynumber: 2.0 Consensus size: 102
11476491 TTCACTTGTC
* *
11476501 TTTTCTTGCAGGGAATATTTCCTGTTCACGCATTATTCTGTTGCAGGAAATCTTTCCTGTTCACA
1 TTTTCTTGCAGGGAATATCTCCTGTTCACACATTATTCTGTTGCAGGAAATCTTTCCTGTTCACA
*
11476566 TCATTTCTTGCAGGGAACCTCTCCTGTTCACGCATTA
66 TCATTTCTTGCAGGGAACCTCTCATGTTCACGCATTA
* * * * *
11476603 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTGCAGGGAATCTTTCTTGTTCACA
1 TTTTCTTGCAGGGAATATCTCCTGTTCACACATTATTCTGTTGCAGGAAATCTTTCCTGTTCACA
* * *
11476668 TCATTTCTTGCAGGGAATCTCTCATGTTCATGTATTA
66 TCATTTCTTGCAGGGAACCTCTCATGTTCACGCATTA
11476705 TTT
1 TTT
11476708 CTTTTTGGAC
Statistics
Matches: 94, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
102 94 1.00
ACGTcount: A:0.19, C:0.22, G:0.17, T:0.42
Consensus pattern (102 bp):
TTTTCTTGCAGGGAATATCTCCTGTTCACACATTATTCTGTTGCAGGAAATCTTTCCTGTTCACA
TCATTTCTTGCAGGGAACCTCTCATGTTCACGCATTA
Found at i:11479535 original size:20 final size:23
Alignment explanation
Indices: 11479500--11479544 Score: 69
Period size: 20 Copynumber: 2.1 Consensus size: 23
11479490 GAGCAAATTG
11479500 TTGATTCTATTTCTTTTTTG-AT
1 TTGATTCTATTTCTTTTTTGTAT
11479522 TTGA-TCTA-TTCTTTTTTGTAT
1 TTGATTCTATTTCTTTTTTGTAT
11479543 TT
1 TT
11479545 CTCTTTTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 10 0.45
21 8 0.36
22 4 0.18
ACGTcount: A:0.13, C:0.09, G:0.09, T:0.69
Consensus pattern (23 bp):
TTGATTCTATTTCTTTTTTGTAT
Found at i:11485055 original size:67 final size:66
Alignment explanation
Indices: 11484984--11485180 Score: 200
Period size: 67 Copynumber: 2.9 Consensus size: 66
11484974 AAATAATACA
* * *
11484984 TGAACAGGAGAGATTCCTTGCAA-GAAATGAT-GTGAACAGGAAAGATTCCCTACAACAAAATAA
1 TGAACAGGAGAGATTCCCTGCAACAAAATAATCGTGAACAGGAAAGATTCCCTACAA-AAAATAA
11485047 TGTG
65 --TG
* * * * * *
11485051 TGAACAGGAGAGATCCCCTGCAACAAAATAATGCGTGAACAGGAGAGATTCCTTGCAAGAAATGA
1 TGAACAGGAGAGATTCCCTGCAACAAAATAAT-CGTGAACAGGAAAGATTCCCTACAAAAAATAA
11485116 TG
65 TG
* * * * *
11485118 TGAACAGGAAAGATTCCCTGCAACAGAATAATGCGTAAACAGGAAATATTCCCTGCAAGAAAA
1 TGAACAGGAGAGATTCCCTGCAACAAAATAAT-CGTGAACAGGAAAGATTCCCTACAA-AAAA
11485181 GACAAGTGAA
Statistics
Matches: 109, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
67 74 0.68
68 9 0.08
69 5 0.05
70 21 0.19
ACGTcount: A:0.42, C:0.17, G:0.22, T:0.19
Consensus pattern (66 bp):
TGAACAGGAGAGATTCCCTGCAACAAAATAATCGTGAACAGGAAAGATTCCCTACAAAAAATAAT
G
Found at i:11485056 original size:35 final size:35
Alignment explanation
Indices: 11484984--11485180 Score: 199
Period size: 35 Copynumber: 5.8 Consensus size: 35
11484974 AAATAATACA
* * * *
11484984 TGAACAGGAGAGATTCCTTGCAA-GAAATGA--TG
1 TGAACAGGAAAGATTCCCTGCAACAAAATAATGTG
*
11485016 TGAACAGGAAAGATTCCCTACAACAAAATAATGTG
1 TGAACAGGAAAGATTCCCTGCAACAAAATAATGTG
* * *
11485051 TGAACAGGAGAGATCCCCTGCAACAAAATAATGCG
1 TGAACAGGAAAGATTCCCTGCAACAAAATAATGTG
* * * *
11485086 TGAACAGGAGAGATTCCTTGCAA-GAAATGA--TG
1 TGAACAGGAAAGATTCCCTGCAACAAAATAATGTG
* *
11485118 TGAACAGGAAAGATTCCCTGCAACAGAATAATGCG
1 TGAACAGGAAAGATTCCCTGCAACAAAATAATGTG
* * *
11485153 TAAACAGGAAATATTCCCTGCAAGAAAA
1 TGAACAGGAAAGATTCCCTGCAACAAAA
11485181 GACAAGTGAA
Statistics
Matches: 135, Mismatches: 24, Indels: 9
0.80 0.14 0.05
Matches are distributed among these distances:
32 42 0.31
33 9 0.07
34 5 0.04
35 79 0.59
ACGTcount: A:0.42, C:0.17, G:0.22, T:0.19
Consensus pattern (35 bp):
TGAACAGGAAAGATTCCCTGCAACAAAATAATGTG
Found at i:11485150 original size:102 final size:102
Alignment explanation
Indices: 11484974--11485180 Score: 324
Period size: 102 Copynumber: 2.0 Consensus size: 102
11484964 GTCCAAAAAG
11484974 AAATAATACATGAACAGGAGAGATTCCTTGCAAGAAATGATGTGAACAGGAAAGATTCCCTACAA
1 AAATAATACATGAACAGGAGAGATTCCTTGCAAGAAATGATGTGAACAGGAAAGATTCCCTACAA
* * *
11485039 CAAAATAATGTGTGAACAGGAGAGATCCCCTGCAACA
66 CAAAATAATGCGTAAACAGGAAAGATCCCCTGCAACA
* * *
11485076 AAATAATGCGTGAACAGGAGAGATTCCTTGCAAGAAATGATGTGAACAGGAAAGATTCCCTGCAA
1 AAATAATACATGAACAGGAGAGATTCCTTGCAAGAAATGATGTGAACAGGAAAGATTCCCTACAA
* * * *
11485141 CAGAATAATGCGTAAACAGGAAATATTCCCTGCAAGA
66 CAAAATAATGCGTAAACAGGAAAGATCCCCTGCAACA
11485178 AAA
1 AAA
11485181 GACAAGTGAA
Statistics
Matches: 95, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
102 95 1.00
ACGTcount: A:0.43, C:0.17, G:0.21, T:0.19
Consensus pattern (102 bp):
AAATAATACATGAACAGGAGAGATTCCTTGCAAGAAATGATGTGAACAGGAAAGATTCCCTACAA
CAAAATAATGCGTAAACAGGAAAGATCCCCTGCAACA
Found at i:11486049 original size:7 final size:7
Alignment explanation
Indices: 11486037--11486113 Score: 100
Period size: 7 Copynumber: 10.7 Consensus size: 7
11486027 GTTAGGAAAT
11486037 CCTAAAC
1 CCTAAAC
11486044 CCTAAAC
1 CCTAAAC
11486051 CCTAAAAC
1 CCT-AAAC
*
11486059 CTTAAAAC
1 CCT-AAAC
11486067 CCTAAAC
1 CCTAAAC
**
11486074 TTTAAAC
1 CCTAAAC
11486081 CCTAAAC
1 CCTAAAC
*
11486088 ACTAAAC
1 CCTAAAC
11486095 CCTAAAC
1 CCTAAAC
11486102 CCTAAAC
1 CCTAAAC
11486109 CCTAA
1 CCTAA
11486114 TCCCGATACT
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
7 48 0.79
8 13 0.21
ACGTcount: A:0.45, C:0.36, G:0.00, T:0.18
Consensus pattern (7 bp):
CCTAAAC
Found at i:11490899 original size:9 final size:9
Alignment explanation
Indices: 11490885--11490965 Score: 62
Period size: 9 Copynumber: 9.4 Consensus size: 9
11490875 TTTGAAAATA
11490885 TAAAATTAT
1 TAAAATTAT
11490894 TAAAATTAT
1 TAAAATTAT
* * *
11490903 TATATTTTT
1 TAAAATTAT
*
11490912 TGAAA-TA-
1 TAAAATTAT
11490919 TAAAATTAT
1 TAAAATTAT
* * *
11490928 TATATTTTT
1 TAAAATTAT
*
11490937 TGAAA-TA-
1 TAAAATTAT
11490944 TAAAATTAT
1 TAAAATTAT
11490953 TAAAATTAT
1 TAAAATTAT
11490962 TAAA
1 TAAA
11490966 TAATTTTATT
Statistics
Matches: 52, Mismatches: 16, Indels: 8
0.68 0.21 0.11
Matches are distributed among these distances:
7 8 0.15
8 6 0.12
9 38 0.73
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.48
Consensus pattern (9 bp):
TAAAATTAT
Found at i:11490911 original size:34 final size:32
Alignment explanation
Indices: 11490864--11490963 Score: 110
Period size: 25 Copynumber: 3.3 Consensus size: 32
11490854 ATTCATAACA
11490864 AAAATTA-T-TTTTTTGAAAATATAAAATTATT
1 AAAATTATTATTTTTTG-AAATATAAAATTATT
11490895 AAAATTATTATATTTTTTGAAATAT-AAA--ATT
1 AAAATTA-T-TATTTTTTGAAATATAAAATTATT
11490926 ---ATTA-TATTTTTTGAAATATAAAATTATT
1 AAAATTATTATTTTTTGAAATATAAAATTATT
11490954 AAAATTATTA
1 AAAATTATTA
11490964 AATAATTTTA
Statistics
Matches: 58, Mismatches: 0, Indels: 21
0.73 0.00 0.27
Matches are distributed among these distances:
25 15 0.26
26 3 0.05
28 7 0.12
31 14 0.24
32 2 0.03
33 3 0.05
34 7 0.12
35 7 0.12
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (32 bp):
AAAATTATTATTTTTTGAAATATAAAATTATT
Found at i:11490922 original size:25 final size:25
Alignment explanation
Indices: 11490894--11490954 Score: 122
Period size: 25 Copynumber: 2.4 Consensus size: 25
11490884 ATAAAATTAT
11490894 TAAAATTATTATATTTTTTGAAATA
1 TAAAATTATTATATTTTTTGAAATA
11490919 TAAAATTATTATATTTTTTGAAATA
1 TAAAATTATTATATTTTTTGAAATA
11490944 TAAAATTATTA
1 TAAAATTATTA
11490955 AAATTATTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (25 bp):
TAAAATTATTATATTTTTTGAAATA
Found at i:11492654 original size:9 final size:9
Alignment explanation
Indices: 11492640--11492676 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
11492630 TATAGTTTGA
11492640 TATTCGAAT
1 TATTCGAAT
11492649 TATTCGAAT
1 TATTCGAAT
*
11492658 TATTCGAGT
1 TATTCGAAT
11492667 TATTCGAAT
1 TATTCGAAT
11492676 T
1 T
11492677 CGAAAATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:11493009 original size:43 final size:44
Alignment explanation
Indices: 11492932--11493015 Score: 134
Period size: 43 Copynumber: 1.9 Consensus size: 44
11492922 GGGACTTGGG
*
11492932 GGAGGAGGAGGATGAACAATGGAAAGAAACAATGGATATGACTT
1 GGAGGAGGAGGATGAACAATGGAAAGAAACAATGGAGATGACTT
* *
11492976 GGAGGAGGAGGATGAA-GATGGAAAGAAATAATGGAGATGA
1 GGAGGAGGAGGATGAACAATGGAAAGAAACAATGGAGATGA
11493016 TGATGATTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
43 21 0.57
44 16 0.43
ACGTcount: A:0.44, C:0.04, G:0.38, T:0.14
Consensus pattern (44 bp):
GGAGGAGGAGGATGAACAATGGAAAGAAACAATGGAGATGACTT
Found at i:11506148 original size:98 final size:98
Alignment explanation
Indices: 11506030--11506219 Score: 362
Period size: 98 Copynumber: 1.9 Consensus size: 98
11506020 AAAATTTGCC
11506030 CAGTCTTTAACATGGCACATCACTAAATTTAAATAGTTAATTTCACACTCATTATATCTACACTT
1 CAGTCTTTAACATGGCACATCACTAAATTTAAATAGTTAATTTCACACTCATTATATCTACACTT
11506095 GGACCTCATTAAACCTAAAAATTATCCTTAGCA
66 GGACCTCATTAAACCTAAAAATTATCCTTAGCA
* *
11506128 CAGTCTTTAACATGGCACATCACTAAATTTAAATAGTTGATTTCACACTCATTATATCTACATTT
1 CAGTCTTTAACATGGCACATCACTAAATTTAAATAGTTAATTTCACACTCATTATATCTACACTT
11506193 GGACCTCATTAAACCTAAAAATTATCC
66 GGACCTCATTAAACCTAAAAATTATCC
11506220 ATGCCAAAAC
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
98 90 1.00
ACGTcount: A:0.36, C:0.22, G:0.07, T:0.34
Consensus pattern (98 bp):
CAGTCTTTAACATGGCACATCACTAAATTTAAATAGTTAATTTCACACTCATTATATCTACACTT
GGACCTCATTAAACCTAAAAATTATCCTTAGCA
Found at i:11507948 original size:29 final size:29
Alignment explanation
Indices: 11507916--11507993 Score: 81
Period size: 29 Copynumber: 2.7 Consensus size: 29
11507906 TTCTGATAAA
11507916 GCACTTTGATGCCATTCTATTCTA-TTATT
1 GCACTTTGATGCCATTCTATTCTATTTA-T
* * *
11507945 GCAC-TTCATTGCTATTCTTTTCTATTTAT
1 GCACTTTGA-TGCCATTCTATTCTATTTAT
11507974 GCACTTTGATG-CATCTCTAT
1 GCACTTTGATGCCAT-TCTAT
11507994 ATTAATTTCC
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
28 5 0.13
29 28 0.72
30 6 0.15
ACGTcount: A:0.19, C:0.22, G:0.10, T:0.49
Consensus pattern (29 bp):
GCACTTTGATGCCATTCTATTCTATTTAT
Found at i:11517318 original size:33 final size:33
Alignment explanation
Indices: 11517292--11517430 Score: 208
Period size: 33 Copynumber: 4.2 Consensus size: 33
11517282 ATCCTTCCAG
*
11517292 CACACCAATGCTCAGAAGAGCTAATCCAACCAA
1 CACACCAATGCTCATAAGAGCTAATCCAACCAA
* *
11517325 CACACCAATGCTTATAAGAGCTAATCCAACCAT
1 CACACCAATGCTCATAAGAGCTAATCCAACCAA
* *
11517358 CACACCAGTGCTCATAAGAGCTAATCCAACCAT
1 CACACCAATGCTCATAAGAGCTAATCCAACCAA
* *
11517391 CACA-CAGTGCTCATAAGAGCTAGTCCAACCAA
1 CACACCAATGCTCATAAGAGCTAATCCAACCAA
11517423 CACACCAA
1 CACACCAA
11517431 ACGGAGAGTA
Statistics
Matches: 97, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
32 30 0.31
33 67 0.69
ACGTcount: A:0.40, C:0.33, G:0.12, T:0.16
Consensus pattern (33 bp):
CACACCAATGCTCATAAGAGCTAATCCAACCAA
Found at i:11525079 original size:26 final size:26
Alignment explanation
Indices: 11525043--11525096 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
11525033 GTTAAACGAA
11525043 GGAAGATCCGGCTAAAACAGAGTATT
1 GGAAGATCCGGCTAAAACAGAGTATT
11525069 GGAAGATCCGGCTAAAACAGAGTATT
1 GGAAGATCCGGCTAAAACAGAGTATT
11525095 GG
1 GG
11525097 CTCAAAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.37, C:0.15, G:0.30, T:0.19
Consensus pattern (26 bp):
GGAAGATCCGGCTAAAACAGAGTATT
Found at i:11531741 original size:41 final size:41
Alignment explanation
Indices: 11531696--11531790 Score: 111
Period size: 41 Copynumber: 2.3 Consensus size: 41
11531686 TTTGGTCTTC
*
11531696 TAGCGGCGTTTTTAT-ATAAGCGACGCTAAAGTTAAGATTTT
1 TAGCGGCGTTTTTATGATAAGCGACGCTAAAGTT-AGAGTTT
* * * * * *
11531737 TAGCGGTGATTCTATGATAAGCGCCGCTAATGTTAGGGTTT
1 TAGCGGCGTTTTTATGATAAGCGACGCTAAAGTTAGAGTTT
11531778 TAGCGGCGTTTTT
1 TAGCGGCGTTTTT
11531791 GTTGAAGCGC
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
41 27 0.63
42 16 0.37
ACGTcount: A:0.23, C:0.14, G:0.26, T:0.37
Consensus pattern (41 bp):
TAGCGGCGTTTTTATGATAAGCGACGCTAAAGTTAGAGTTT
Found at i:11531782 original size:82 final size:80
Alignment explanation
Indices: 11531608--11531790 Score: 199
Period size: 82 Copynumber: 2.2 Consensus size: 80
11531598 TAATGGTCGG
* * * *
11531608 GGGTTTTAGTGGCGTTTTTAATCAACCGCCGCTAAAGTTAAGGTATTTAGCGGCGATTTCTTTGA
1 GGGTTTTAGCGGCGTTTTTAATCAACCGACGCTAAAGTTAAGATATTTAGCGGCGATTTCTATGA
*
11531673 AGCGTCGCGAATATT
66 AGCGCCGCGAATATT
* * * *
11531688 TGGTCTTCTAGCGGCGTTTTTATAT-AAGCGACGCTAAAGTTAAGATTTTTAGCGGTGA-TTCTA
1 GGGT-TT-TAGCGGCGTTTTTA-ATCAACCGACGCTAAAGTTAAGATATTTAGCGGCGATTTCTA
* *
11531751 TGATAAGCGCCGCTAATGTT
63 TG--AAGCGCCGCGAATATT
11531771 AGGGTTTTAGCGGCGTTTTT
1 -GGGTTTTAGCGGCGTTTTT
11531791 GTTGAAGCGC
Statistics
Matches: 85, Mismatches: 12, Indels: 10
0.79 0.11 0.09
Matches are distributed among these distances:
80 3 0.04
81 8 0.09
82 54 0.64
83 17 0.20
84 3 0.04
ACGTcount: A:0.22, C:0.15, G:0.26, T:0.37
Consensus pattern (80 bp):
GGGTTTTAGCGGCGTTTTTAATCAACCGACGCTAAAGTTAAGATATTTAGCGGCGATTTCTATGA
AGCGCCGCGAATATT
Found at i:11532832 original size:16 final size:15
Alignment explanation
Indices: 11532797--11532871 Score: 96
Period size: 16 Copynumber: 4.9 Consensus size: 15
11532787 GGATATAAAG
*
11532797 TTTAGGGGTTGGGAA
1 TTTAGGGGTTAGGAA
*
11532812 TTTAGGGGCTAGGATA
1 TTTAGGGGTTAGGA-A
11532828 TTTAGGGGTTAGGAA
1 TTTAGGGGTTAGGAA
* *
11532843 TTTAAGGGCTAGGAGA
1 TTTAGGGGTTAGGA-A
11532859 TTTAGGGGTTAGG
1 TTTAGGGGTTAGG
11532872 GGTTAGGGAT
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
15 25 0.49
16 26 0.51
ACGTcount: A:0.24, C:0.03, G:0.41, T:0.32
Consensus pattern (15 bp):
TTTAGGGGTTAGGAA
Found at i:11532835 original size:31 final size:31
Alignment explanation
Indices: 11532797--11532871 Score: 123
Period size: 31 Copynumber: 2.4 Consensus size: 31
11532787 GGATATAAAG
* * *
11532797 TTTAGGGGTTGGGAATTTAGGGGCTAGGATA
1 TTTAGGGGTTAGGAATTTAAGGGCTAGGAGA
11532828 TTTAGGGGTTAGGAATTTAAGGGCTAGGAGA
1 TTTAGGGGTTAGGAATTTAAGGGCTAGGAGA
11532859 TTTAGGGGTTAGG
1 TTTAGGGGTTAGG
11532872 GGTTAGGGAT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.24, C:0.03, G:0.41, T:0.32
Consensus pattern (31 bp):
TTTAGGGGTTAGGAATTTAAGGGCTAGGAGA
Found at i:11532872 original size:22 final size:21
Alignment explanation
Indices: 11532847--11532894 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
11532837 TAGGAATTTA
11532847 AGGGCTAGGAGATTTAGGGGTT
1 AGGGCTAGG-GATTTAGGGGTT
* *
11532869 AGGGGTTAGGGATTTAGGGTTT
1 A-GGGCTAGGGATTTAGGGGTT
11532891 AGGG
1 AGGG
11532895 TGTCAATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 3 0.13
22 13 0.57
23 7 0.30
ACGTcount: A:0.21, C:0.02, G:0.48, T:0.29
Consensus pattern (21 bp):
AGGGCTAGGGATTTAGGGGTT
Found at i:11532887 original size:15 final size:15
Alignment explanation
Indices: 11532797--11532894 Score: 76
Period size: 15 Copynumber: 6.5 Consensus size: 15
11532787 GGATATAAAG
11532797 TTTAGGGGTT-GGGAA
1 TTTAGGGGTTAGGG-A
* *
11532812 TTTAGGGGCTAGGATA
1 TTTAGGGGTTAGG-GA
*
11532828 TTTAGGGGTTAGGAA
1 TTTAGGGGTTAGGGA
* *
11532843 TTTAAGGGCTAGGAGA
1 TTTAGGGGTTAGG-GA
11532859 TTTAGGGGTTAGGG-
1 TTTAGGGGTTAGGGA
* *
11532873 GTTAGGGATTTAGGG-
1 TTTAGGG-GTTAGGGA
11532888 TTTAGGG
1 TTTAGGG
11532895 TGTCAATTAA
Statistics
Matches: 67, Mismatches: 12, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
14 6 0.09
15 34 0.51
16 27 0.40
ACGTcount: A:0.22, C:0.02, G:0.43, T:0.33
Consensus pattern (15 bp):
TTTAGGGGTTAGGGA
Found at i:11538409 original size:66 final size:65
Alignment explanation
Indices: 11538302--11538472 Score: 227
Period size: 66 Copynumber: 2.6 Consensus size: 65
11538292 GAGCAAATTA
* * *
11538302 CACAACTTAAAGCGGATGCAACATCGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCCA
1 CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAG-TATGAAGAACTCCA
11538366 G
65 G
*
11538367 CTACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACGAAAGTATGAAGAACTCCA
1 C-ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCA
11538432 G
65 G
* * * * *
11538433 CAGCAGCTTAAAGTAGATGCGGCAGCAAGAGAAGCAGAGG
1 CA-CAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGG
11538473 CGGCAGCGAG
Statistics
Matches: 94, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
65 2 0.02
66 88 0.94
67 4 0.04
ACGTcount: A:0.40, C:0.19, G:0.27, T:0.14
Consensus pattern (65 bp):
CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAG
Found at i:11538500 original size:42 final size:42
Alignment explanation
Indices: 11538443--11538555 Score: 136
Period size: 42 Copynumber: 2.7 Consensus size: 42
11538433 CAGCAGCTTA
* * * *
11538443 AAGTAGATGCGGCAGCAAGAGAAGCAGAGGCGGCAGCGAGAG
1 AAGTAGAGGCTGCAGCAAGGGAAGCAGAGGCGACAGCGAGAG
* * * *
11538485 AAGTATAGGCTGCAGCAAGGGAAGCAGAGGCTATAGCGAGGG
1 AAGTAGAGGCTGCAGCAAGGGAAGCAGAGGCGACAGCGAGAG
* *
11538527 AAGTAGAGGCTGCAACGAGGGAAGCAGAG
1 AAGTAGAGGCTGCAGCAAGGGAAGCAGAG
11538556 CAGCGTCAAA
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 60 1.00
ACGTcount: A:0.35, C:0.15, G:0.42, T:0.08
Consensus pattern (42 bp):
AAGTAGAGGCTGCAGCAAGGGAAGCAGAGGCGACAGCGAGAG
Found at i:11538516 original size:21 final size:21
Alignment explanation
Indices: 11538454--11538555 Score: 105
Period size: 21 Copynumber: 4.9 Consensus size: 21
11538444 AGTAGATGCG
* * *
11538454 GCAGCAAGAGAAGCAGAGGCG
1 GCAGCGAGGGAAGCAGAGGCT
* * *
11538475 GCAGCGAGAGAAGTATAGGCT
1 GCAGCGAGGGAAGCAGAGGCT
*
11538496 GCAGCAAGGGAAGCAGAGGCT
1 GCAGCGAGGGAAGCAGAGGCT
** *
11538517 ATAGCGAGGGAAGTAGAGGCT
1 GCAGCGAGGGAAGCAGAGGCT
*
11538538 GCAACGAGGGAAGCAGAG
1 GCAGCGAGGGAAGCAGAG
11538556 CAGCGTCAAA
Statistics
Matches: 65, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 65 1.00
ACGTcount: A:0.35, C:0.16, G:0.42, T:0.07
Consensus pattern (21 bp):
GCAGCGAGGGAAGCAGAGGCT
Found at i:11539014 original size:86 final size:86
Alignment explanation
Indices: 11538904--11539068 Score: 213
Period size: 86 Copynumber: 1.9 Consensus size: 86
11538894 AAGTGTTGGC
* *
11538904 CTTTAGCGGCGTTTTTGATAAAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCATTTGTGGAAAA
1 CTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCATTTGTGGAAAA
11538969 AACGCCACTAAAGATCAAGGT
66 AACGCCACTAAAGATCAAGGT
* * ** * * * ***
11538990 CTTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGATGTGGTTCTTTAGTGGCGTTTGTGGTTGA
1 CTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCATTTGTGGAAAA
*
11539055 AGCGCCACTAAAGA
66 AACGCCACTAAAGA
11539069 ACCTAATCTT
Statistics
Matches: 66, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
86 66 1.00
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (86 bp):
CTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCATTTGTGGAAAA
AACGCCACTAAAGATCAAGGT
Found at i:11539047 original size:43 final size:42
Alignment explanation
Indices: 11538904--11539068 Score: 163
Period size: 43 Copynumber: 3.9 Consensus size: 42
11538894 AAGTGTTGGC
* * *
11538904 CTTTAGCGGCGTTT-TTGATAAAAGCGCCGCTAAAGATAAGGGT
1 CTTTAGCGGCGTTTGTGGA-GAAAGCGCCACTAAAGATAA-GGT
* * *
11538947 CTTTAGCGGCATTTGTGGAAAAAACGCCACTAAAGATCAAGGT
1 CTTTAGCGGCGTTTGTGGAGAAAGCGCCACTAAAGAT-AAGGT
* * **
11538990 CTTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGATGTGGTT
1 CTTTAGCGGCGTTTGTGGAGAAAGCGCCACTAAAGATAAGG-T
* *
11539033 CTTTAGTGGCGTTTGTGGTTG-AAGCGCCACTAAAGA
1 CTTTAGCGGCGTTTGTGG-AGAAAGCGCCACTAAAGA
11539069 ACCTAATCTT
Statistics
Matches: 104, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
42 2 0.02
43 96 0.92
44 6 0.06
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (42 bp):
CTTTAGCGGCGTTTGTGGAGAAAGCGCCACTAAAGATAAGGT
Found at i:11539601 original size:56 final size:50
Alignment explanation
Indices: 11539510--11539698 Score: 166
Period size: 50 Copynumber: 3.7 Consensus size: 50
11539500 GGTGATGAGA
* * *
11539510 TCCCATGTAAGACCATGTTTGGAACATGGCATTGGCATCATTGAGATTATGAAAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCA---AG---ATGAAAGG
* *
11539566 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAAAGG
* * ** * *
11539616 TCTCC-CGTAAGACCATGTCTGGGACATGGCATGGGCACTGATATGAGAA-C
1 TC-CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGA-AAGG
* * *
11539666 TCCCATGTAAGACCATATCTGGGATATGACATT
1 TCCCATGTAAGACCATGTCTGGGACATGGCATT
11539699 AGCAGTACAA
Statistics
Matches: 112, Mismatches: 18, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
49 2 0.02
50 69 0.62
51 3 0.03
53 2 0.02
56 36 0.32
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAAAGG
Found at i:11559714 original size:50 final size:50
Alignment explanation
Indices: 11559607--11559852 Score: 201
Period size: 50 Copynumber: 4.8 Consensus size: 50
11559597 TTTGGGTGAT
* * * * *
11559607 GAGATCCCATGTAAGACCATGTTTGGAACATGGAATTGGCATCATTGAGATTATGA
1 GAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C----CGA-CATGA
* * *
11559663 GAGATCACATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGA
1 GAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATGA
* ** * * * *
11559713 GAGGTCCCCCGTAAGACCATGTCTAGGACATGACATGGGCACCGATATGA
1 GAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATGA
* * * *
11559763 GA-ACTCTCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTACAAGA
1 GAGA-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-ACATGA
* * *
11559812 AACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 GAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
11559853 TGTTATTATC
Statistics
Matches: 155, Mismatches: 32, Indels: 13
0.77 0.16 0.06
Matches are distributed among these distances:
48 1 0.01
49 38 0.25
50 77 0.50
51 2 0.01
55 1 0.01
56 36 0.23
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (50 bp):
GAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATGA
Found at i:11564493 original size:45 final size:45
Alignment explanation
Indices: 11564429--11564529 Score: 139
Period size: 45 Copynumber: 2.2 Consensus size: 45
11564419 TTAGGTTGGA
* * *
11564429 TTTGGTATGCTGGTGTTGATTTTTGCTTATTGTTTTAAGGTCGAT
1 TTTGGTATGCTGATATTGATTTTTGCTTATTATTTTAAGGTCGAT
* * *
11564474 TTTGGTATGTTGATATTGATTTTTGCTTATTATTTTAAGGTTGGT
1 TTTGGTATGCTGATATTGATTTTTGCTTATTATTTTAAGGTCGAT
*
11564519 TTTTGTATGCT
1 TTTGGTATGCT
11564530 AAAATTTATT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.15, C:0.05, G:0.24, T:0.56
Consensus pattern (45 bp):
TTTGGTATGCTGATATTGATTTTTGCTTATTATTTTAAGGTCGAT
Found at i:11564541 original size:45 final size:45
Alignment explanation
Indices: 11564444--11564542 Score: 126
Period size: 45 Copynumber: 2.2 Consensus size: 45
11564434 TATGCTGGTG
* * * *
11564444 TTGATTTTTGCTTATTGTTTTAAGGTCGATTTTGGTATGTTGATA
1 TTGATTTTTGCTTATTATTTTAAGGTCGATTTTGGTATGCTAAAA
* * *
11564489 TTGATTTTTGCTTATTATTTTAAGGTTGGTTTTTGTATGCTAAAA
1 TTGATTTTTGCTTATTATTTTAAGGTCGATTTTGGTATGCTAAAA
*
11564534 TTTATTTTT
1 TTGATTTTT
11564543 AGAAATTATT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.19, C:0.04, G:0.18, T:0.59
Consensus pattern (45 bp):
TTGATTTTTGCTTATTATTTTAAGGTCGATTTTGGTATGCTAAAA
Found at i:11566658 original size:51 final size:51
Alignment explanation
Indices: 11566527--11566671 Score: 179
Period size: 51 Copynumber: 2.9 Consensus size: 51
11566517 AGTGAAACTG
* *
11566527 ATGGTCACGTGTGTAGTACTATGTGCAGG-TGACTATGTGTACCGGAATGAT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCT-ACTACGTGTACCGGAATGAT
* * *
11566578 A-GGTCGCATGTGTAGTACTATGTGCAGGCTACTACGTGTATC-GAATGGT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGAT
* * *
11566627 AATGGTCACATGTGTAGTACTATGTGTAGGCTACTATGTGAACCG
1 -ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCG
11566672 AACATCATTG
Statistics
Matches: 80, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
49 6 0.08
50 36 0.45
51 38 0.47
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.31
Consensus pattern (51 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGAT
Found at i:11580773 original size:21 final size:21
Alignment explanation
Indices: 11580721--11580764 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
11580711 TAAAAAAAGG
11580721 TTGCTGTTTTTGTTCTTCATT
1 TTGCTGTTTTTGTTCTTCATT
11580742 TTGCTGTTTTTGTTCTTCATT
1 TTGCTGTTTTTGTTCTTCATT
11580763 TT
1 TT
11580765 TCTTCTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.05, C:0.14, G:0.14, T:0.68
Consensus pattern (21 bp):
TTGCTGTTTTTGTTCTTCATT
Found at i:11581701 original size:3 final size:3
Alignment explanation
Indices: 11581695--11581719 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
11581685 TTTTTTTAGC
11581695 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
11581720 GTATATCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:11584609 original size:16 final size:17
Alignment explanation
Indices: 11584577--11584610 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
11584567 TCATAAAGCA
*
11584577 ATATGGTCACGTGACAG
1 ATATGGTCACCTGACAG
11584594 ATATGG-CACCTGACAG
1 ATATGGTCACCTGACAG
11584610 A
1 A
11584611 ACTACACTGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.21
Consensus pattern (17 bp):
ATATGGTCACCTGACAG
Found at i:11586218 original size:6 final size:5
Alignment explanation
Indices: 11586196--11586275 Score: 60
Period size: 5 Copynumber: 15.8 Consensus size: 5
11586186 AGGAATGTCC
* *
11586196 AAAAA AAAAG -AAA- AAAAG CAAAAG AAAAAAG AACAG AAAA- AAAAG
1 AAAAG AAAAG AAAAG AAAAG -AAAAG --AAAAG AAAAG AAAAG AAAAG
*
11586241 AAAAG AAGA- AAAAG AAAAG AAAAAG AAAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG -AAAAG -AAAAG AAAA
11586276 AGGAGAGGCC
Statistics
Matches: 62, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
4 13 0.21
5 28 0.45
6 16 0.26
7 5 0.08
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:11586220 original size:14 final size:13
Alignment explanation
Indices: 11586196--11586276 Score: 96
Period size: 14 Copynumber: 6.2 Consensus size: 13
11586186 AGGAATGTCC
11586196 AAAAA-AAAAGAA
1 AAAAAGAAAAGAA
11586208 AAAAAGCAAAAG-A
1 AAAAAG-AAAAGAA
*
11586221 AAAAAGAACAGAAA
1 AAAAAGAAAAG-AA
11586235 AAAAAGAAAAGAA
1 AAAAAGAAAAGAA
11586248 GAAAAAGAAAAGAA
1 -AAAAAGAAAAGAA
*
11586262 AAAGA-AAAAGAA
1 AAAAAGAAAAGAA
11586274 AAA
1 AAA
11586277 GGAGAGGCCA
Statistics
Matches: 61, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
12 19 0.31
13 13 0.21
14 29 0.48
ACGTcount: A:0.83, C:0.02, G:0.15, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAGAA
Found at i:11586235 original size:17 final size:17
Alignment explanation
Indices: 11586196--11586276 Score: 76
Period size: 17 Copynumber: 4.6 Consensus size: 17
11586186 AGGAATGTCC
* *
11586196 AAAAAAAAAGAAAAAAAG
1 AAAAAGAAA-AAAGAAAG
*
11586214 CAAAAGAAAAAAGAACAG
1 AAAAAGAAAAAAGAA-AG
*
11586232 AAAAAAAAGAAAAG-AAG
1 AAAAAGAA-AAAAGAAAG
11586249 AAAAAGAAAAGAA-AAAG
1 AAAAAGAAAA-AAGAAAG
11586266 AAAAAGAAAAA
1 AAAAAGAAAAA
11586277 GGAGAGGCCA
Statistics
Matches: 53, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
16 3 0.06
17 29 0.55
18 16 0.30
19 5 0.09
ACGTcount: A:0.83, C:0.02, G:0.15, T:0.00
Consensus pattern (17 bp):
AAAAAGAAAAAAGAAAG
Found at i:11586243 original size:35 final size:34
Alignment explanation
Indices: 11586197--11586270 Score: 105
Period size: 35 Copynumber: 2.1 Consensus size: 34
11586187 GGAATGTCCA
*
11586197 AAAAAAAAGAAAAAAAGCAAAAGAAAA-AAGAACAG
1 AAAAAAAAGAAAAAAAGAAAAAGAAAAGAA-AA-AG
*
11586232 AAAAAAAAGAAAAGAAGAAAAAGAAAAGAAAAAG
1 AAAAAAAAGAAAAAAAGAAAAAGAAAAGAAAAAG
11586266 AAAAA
1 AAAAA
11586271 GAAAAAGGAG
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
34 7 0.19
35 27 0.75
36 2 0.06
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (34 bp):
AAAAAAAAGAAAAAAAGAAAAAGAAAAGAAAAAG
Found at i:11586274 original size:40 final size:39
Alignment explanation
Indices: 11586196--11586276 Score: 112
Period size: 40 Copynumber: 2.1 Consensus size: 39
11586186 AGGAATGTCC
*
11586196 AAAAAAAAAGAAAAAAAGCAAAAGAAAAAAGAACAGAAA
1 AAAAAAAAAGAAAAAAAGCAAAAGAAAAAAGAAAAGAAA
11586235 AAAAAGAAAAGAAGAAAAAG-AAAAG-AAAAAGAAAAAGAAA
1 AAAAA-AAAAGAA-AAAAAGCAAAAGAAAAAAG-AAAAGAAA
11586275 AA
1 AA
11586277 GGAGAGGCCA
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
39 11 0.29
40 21 0.55
41 6 0.16
ACGTcount: A:0.83, C:0.02, G:0.15, T:0.00
Consensus pattern (39 bp):
AAAAAAAAAGAAAAAAAGCAAAAGAAAAAAGAAAAGAAA
Found at i:11586276 original size:6 final size:6
Alignment explanation
Indices: 11586208--11586277 Score: 70
Period size: 6 Copynumber: 11.0 Consensus size: 6
11586198 AAAAAAAGAA
* *
11586208 AAAAAG CAAAAG AAAAAAG AACAGAAA AAAAAG AAAAGAAG AAAAAG -AAAAG
1 AAAAAG AAAAAG -AAAAAG AA-A-AAG AAAAAG -AAA-AAG AAAAAG AAAAAG
11586260 AAAAAG AAAAAG AAAAAG
1 AAAAAG AAAAAG AAAAAG
11586278 GAGAGGCCAA
Statistics
Matches: 54, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
5 5 0.09
6 29 0.54
7 13 0.24
8 7 0.13
ACGTcount: A:0.80, C:0.03, G:0.17, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:11586785 original size:108 final size:104
Alignment explanation
Indices: 11586597--11586808 Score: 289
Period size: 108 Copynumber: 2.0 Consensus size: 104
11586587 TAATTTATTC
* ** * ** * *
11586597 TCATTTTGTATCTTAGCAAAATTTGCTATCTTGATTTATTTATTTTGAGCTTTGTTCTCAATAAA
1 TCATTTTGAATCTTAGCAAAATTCACTATCTTAATTTATTTATTTAAAGCTCTGCTCTCAATAAA
11586662 ATTTCATCTTGCCCATTGTGATAATCCTTTTCATCTTAT
66 ATTTCATCTTGCCCATTGTGATAATCCTTTTCATCTTAT
*
11586701 TCATTTTGAATCTTAGCAAAATTCACTAACCTGCTTAATTTATTTGTTTAAAGCTCTGCTCTCAA
1 TCATTTTGAATCTTAGCAAAATTCACT-A--T-CTTAATTTATTTATTTAAAGCTCTGCTCTCAA
* *
11586766 TAAAATTTCATCTTTCCCATTGTGATAATCTTTTTCATCTTAT
62 TAAAATTTCATCTTGCCCATTGTGATAATCCTTTTCATCTTAT
11586809 CTTAGCAAAA
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
104 24 0.26
105 1 0.01
107 1 0.01
108 67 0.72
ACGTcount: A:0.26, C:0.18, G:0.08, T:0.48
Consensus pattern (104 bp):
TCATTTTGAATCTTAGCAAAATTCACTATCTTAATTTATTTATTTAAAGCTCTGCTCTCAATAAA
ATTTCATCTTGCCCATTGTGATAATCCTTTTCATCTTAT
Found at i:11587828 original size:46 final size:46
Alignment explanation
Indices: 11587790--11588661 Score: 1190
Period size: 46 Copynumber: 19.4 Consensus size: 46
11587780 GACTAGAAGC
* * * *
11587790 AGCAGATTTTATCTTCCTGTATTTGGCAGCAGAGTAGACCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
* *
11587836 AGCAGATCTTGTCTTCCTGTATTTGGCAGTGGAGAAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
*
11587882 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGAACGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
* **
11587928 AGTAGATCTTGTCTTCCTGTATTTGGCAGAAGAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
11587974 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
* *
11588020 AACAGATCTTGTCTTCCTGTATTTGGCAACGGAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
* * * *
11588066 AACAGATCTTGTATTCCTGTATTTGGCAGTGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
* * *
11588112 AGCAGATCTTGTCTTCCTATATTTGGCAGCGAAGAAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
* *
11588158 ATCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
* * *
11588204 AGTAGA--------T-CT-TATTTGGTAGCGGAGAAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
* * *
11588240 AGTAGATCTTGTCTTCCTGTATTTGGCAGCAGAGTAGATTGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
* *
11588286 AGCAAATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATTGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
* * *
11588332 AGCAGATCTTGTCTTCTTGTATTTGGCAGCAGAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
* * * * *
11588378 AACAGATATTGTCTTTCTGTATTTGGCAGTGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
* *
11588424 AGCAGATCTTGTCTTCCTGTATTTGGTAGCGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
* *
11588470 AACAGA-----TC-T--T-T-TTTGGCAGCGGAGAAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
* * *
11588506 AGCAGATCTTGTCTTCCTATATTTGGCAGTGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
11588552 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
11588598 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
* *
11588644 TGCAGATCTTATCTTCCT
1 AGCAGATCTTGTCTTCCT
11588662 AAGCAGTAGT
Statistics
Matches: 733, Mismatches: 73, Indels: 40
0.87 0.09 0.05
Matches are distributed among these distances:
36 57 0.08
37 3 0.00
38 2 0.00
40 1 0.00
41 4 0.01
42 1 0.00
44 2 0.00
45 3 0.00
46 660 0.90
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.31
Consensus pattern (46 bp):
AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
Found at i:11588217 original size:36 final size:36
Alignment explanation
Indices: 11588177--11588249 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
11588167 TGTCTTCCTG
*
11588177 TATTTGGCAGCGAAGTAGATCGAAGATAGTAGATCT
1 TATTTGGCAGCGAAGAAGATCGAAGATAGTAGATCT
* *
11588213 TATTTGGTAGCGGAGAAGATCGAAGATAGTAGATCT
1 TATTTGGCAGCGAAGAAGATCGAAGATAGTAGATCT
11588249 T
1 T
11588250 GTCTTCCTGT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.29
Consensus pattern (36 bp):
TATTTGGCAGCGAAGAAGATCGAAGATAGTAGATCT
Found at i:11588485 original size:36 final size:36
Alignment explanation
Indices: 11588445--11588515 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 36
11588435 TCTTCCTGTA
* *
11588445 TTTGGTAGCGAAGTAGATCGAAGATAACAGATCTTT
1 TTTGGCAGCGAAGAAGATCGAAGATAACAGATCTTT
* *
11588481 TTTGGCAGCGGAGAAGATCGAAGATAGCAGATCTT
1 TTTGGCAGCGAAGAAGATCGAAGATAACAGATCTT
11588516 GTCTTCCTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.32, C:0.13, G:0.28, T:0.27
Consensus pattern (36 bp):
TTTGGCAGCGAAGAAGATCGAAGATAACAGATCTTT
Found at i:11589028 original size:41 final size:41
Alignment explanation
Indices: 11588969--11589202 Score: 129
Period size: 44 Copynumber: 5.8 Consensus size: 41
11588959 TAAAGATAGC
* ** ** *
11588969 AGATCTTATCTCTTTGAAGTTGCAGTAGAGCAGACCACGAT
1 AGATCCTATCTCCCTGAAGTTGCAGTAGAGCAGAAAACCAT
*
11589010 -GAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCAT
1 AG-ATCCTATCTCCCTGAAGTTGCAGTAGAGCAG---AAAACCAT
* * *
11589054 AGATCTTATCTCTCTGAAGTTGCAGTAGAGCAG--ATCGCAT
1 AGATCCTATCTCCCTGAAGTTGCAGTAGAGCAGAAAAC-CAT
* *
11589094 CCAG-TCTTATCTCCCT-AAG-T--AGTAGTG--G--AACC--
1 --AGATCCTATCTCCCTGAAGTTGCAGTAGAGCAGAAAACCAT
* *
11589126 A-ATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAACCAA
1 AGATCCTATCTCCCTGAAGTTGCAGTAGAGC--A-GAAAACCAT
* *
11589169 AGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA
1 AGATCCTATCTCCCTGAAGTTGCAGTAGAGCAGA
11589203 TCACATCCAG
Statistics
Matches: 150, Mismatches: 20, Indels: 46
0.69 0.09 0.21
Matches are distributed among these distances:
30 12 0.08
31 3 0.02
32 1 0.01
34 7 0.05
35 3 0.02
37 6 0.04
39 3 0.02
40 7 0.05
41 43 0.29
42 3 0.02
43 1 0.01
44 60 0.40
45 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (41 bp):
AGATCCTATCTCCCTGAAGTTGCAGTAGAGCAGAAAACCAT
Found at i:11589076 original size:44 final size:43
Alignment explanation
Indices: 11588969--11589252 Score: 180
Period size: 41 Copynumber: 7.0 Consensus size: 43
11588959 TAAAGATAGC
* ** *
11588969 AGATCTTATCTCTTTGAAGTTGCAGTAGAGCAG--ACCACGAT
1 AGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATAAAACCAT
* * *
11589010 -GAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCAT
1 AG-ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-TAAAACCAT
** *
11589054 AGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCC--
1 AGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGAT-AAAACCAT
* *
11589096 AG-TCTTATCTCCCT-AAG-T--AGTAGTG--G----AACC--
1 AGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATAAAACCAT
* * * *
11589126 A-ATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAACCAA
1 AGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-TAAAACCAT
* *
11589169 AGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCC--
1 AGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGAT-AAAACCAT
* *
11589211 AG-TCTTATCTCTCTGAAGTTACAGTGGAGCAGACTAAAACCA
1 AGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-TAAAACCA
11589253 CAAACTTCGT
Statistics
Matches: 192, Mismatches: 27, Indels: 47
0.72 0.10 0.18
Matches are distributed among these distances:
30 15 0.08
31 3 0.02
32 1 0.01
34 6 0.03
35 1 0.01
36 1 0.01
37 6 0.03
39 1 0.01
40 4 0.02
41 75 0.39
42 5 0.03
43 3 0.02
44 70 0.36
45 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (43 bp):
AGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATAAAACCAT
Found at i:11589213 original size:115 final size:115
Alignment explanation
Indices: 11589011--11589221 Score: 386
Period size: 115 Copynumber: 1.8 Consensus size: 115
11589001 GACCACGATG
* *
11589011 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCATAGATCTTATCTCTCTGAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAACCAAAGATCTTATCTCTCTGAAGTTG
*
11589076 CAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAGTAGTAGTGGAACC
66 CAGTAGAGCAGATCACATCCAGTCTTATCTCCCTAAGTAGTAGTGGAACC
*
11589126 AATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAACCAAAGATCTTATCTCTCTGAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAACCAAAGATCTTATCTCTCTGAAGTTG
11589191 CAGTAGAGCAGATCACATCCAGTCTTATCTC
66 CAGTAGAGCAGATCACATCCAGTCTTATCTC
11589222 TCTGAAGTTA
Statistics
Matches: 92, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
115 92 1.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (115 bp):
AATCCTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAACCAAAGATCTTATCTCTCTGAAGTTG
CAGTAGAGCAGATCACATCCAGTCTTATCTCCCTAAGTAGTAGTGGAACC
Found at i:11591354 original size:98 final size:98
Alignment explanation
Indices: 11591180--11591376 Score: 342
Period size: 98 Copynumber: 2.0 Consensus size: 98
11591170 GTACAATAAA
*
11591180 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
11591245 CCTCTAGAATCCCAAACTCGA-AATATTTCCTTT
66 CCTCTAAAATCCCAAACT-GAGAATATTTCCTTT
11591278 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
* *
11591343 CCTTTAAAATCCCAAACTTAGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTGAGAATATTTCCTTT
11591376 A
1 A
11591377 TTATTTTTTA
Statistics
Matches: 94, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
97 1 0.01
98 93 0.99
ACGTcount: A:0.38, C:0.24, G:0.09, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTCTAAAATCCCAAACTGAGAATATTTCCTTT
Found at i:11593883 original size:218 final size:218
Alignment explanation
Indices: 11593611--11594629 Score: 1635
Period size: 218 Copynumber: 4.7 Consensus size: 218
11593601 CCTACTCCAC
* * * *
11593611 TGTCGGCTTTAATCTGCTCCACCGCAACTTCAGGGAGATAAGATTTGTCATCTTCAGTCTACCTC
1 TGTCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGCCTGCCTC
* *
11593676 ACTGTAACTTCAGGAGGATAAGACTTGCTTTGCTTAGTCTGTTCCACTGCAACTTCAGGGAGATA
66 ACTGCAACTTCAGGAGGATAAGACTTGCTTTGCTTAGTCTGCTCCACTGCAACTTCAGGGAGATA
* * * *
11593741 AGGCTAGATGCGATCTACTCTTTGCAACTTCAGACAGATAAGATCTGAGGTTTTAATCCACTCCA
131 AGACTAGATGCGATCTACTCTCTGCAACTTCAGAGAGATAAGATCTGAGGTTTTAATCCGCTCCA
* * * *
11593806 CTATAATTTCAGGGAGATAAGAT
196 ATACAACTTCAGGGAGATAGGAT
*
11593829 TGTCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGCCTGTCTC
1 TGTCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGCCTGCCTC
* *
11593894 ACTGCAACTTCAGGAGGATAATACTTGCTTTGCTTAGTCTGCTCCACTGCAACTTCAAGGAGATA
66 ACTGCAACTTCAGGAGGATAAGACTTGCTTTGCTTAGTCTGCTCCACTGCAACTTCAGGGAGATA
* *
11593959 AGACTAGATACGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGAGGTTTTAATCCGCTCCA
131 AGACTAGATGCGATCTACTCTCTGCAACTTCAGAGAGATAAGATCTGAGGTTTTAATCCGCTCCA
11594024 ATACAACTTCAGGGAGATAGGAT
196 ATACAACTTCAGGGAGATAGGAT
* *
11594047 TGTTGGCTTTAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGCCATCTTCAGCCTGCCTC
1 TGTCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGCCTGCCTC
* * * * *
11594112 ACTGCAACTTCAGGAGGATACGACTTGCGTTGCTTAGTCTGCTCCACTACAACTTCAGGTTATCA
66 ACTGCAACTTCAGGAGGATAAGACTTGCTTTGCTTAGTCTGCTCCACTGCAACTTCAGG-GA-GA
* * *
11594177 AAAAACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGAGGTTTTAATCCGCTC
129 TAAGACTAGATGCGATCTACTCTCTGCAACTTCAGAGAGATAAGATCTGAGGTTTTAATCCGCTC
*
11594242 CAATGCAACTTCAGGGAGATAGGAT
194 CAATACAACTTCAGGGAGATAGGAT
* *
11594267 TGTTGGCTTTAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGCCTGCCTC
1 TGTCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGCCTGCCTC
* * *
11594332 ACTGCAACTTTAGGAGGATACGACTTGCGTTGCTTAGTCTGCTCCACTGCAACTTCAGGGAGATA
66 ACTGCAACTTCAGGAGGATAAGACTTGCTTTGCTTAGTCTGCTCCACTGCAACTTCAGGGAGATA
*
11594397 AGACTAGATGCGATCTACTCTCTGCAACTTCAGAAAGATAAGATCTGAGGTTTTAATCCGCTCCA
131 AGACTAGATGCGATCTACTCTCTGCAACTTCAGAGAGATAAGATCTGAGGTTTTAATCCGCTCCA
*
11594462 ATGCAACTTCAGGGAGATAGGAT
196 ATACAACTTCAGGGAGATAGGAT
* *
11594485 TATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTC
1 TGTCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGCCTGCCTC
* * *
11594550 ACTGTAACTTCAGGAGGATAAGACTTG-TTTACTTAGTCTGCTCCACTGTAACTTCAGGGAGATA
66 ACTGCAACTTCAGGAGGATAAGACTTGCTTTGCTTAGTCTGCTCCACTGCAACTTCAGGGAGATA
11594614 AGACTAGATGCGATCT
131 AGACTAGATGCGATCT
11594630 GTTATCTTCA
Statistics
Matches: 746, Mismatches: 53, Indels: 5
0.93 0.07 0.01
Matches are distributed among these distances:
217 50 0.07
218 487 0.65
219 2 0.00
220 207 0.28
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (218 bp):
TGTCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGCCTGCCTC
ACTGCAACTTCAGGAGGATAAGACTTGCTTTGCTTAGTCTGCTCCACTGCAACTTCAGGGAGATA
AGACTAGATGCGATCTACTCTCTGCAACTTCAGAGAGATAAGATCTGAGGTTTTAATCCGCTCCA
ATACAACTTCAGGGAGATAGGAT
Found at i:11593914 original size:45 final size:45
Alignment explanation
Indices: 11593842--11594618 Score: 172
Period size: 45 Copynumber: 17.7 Consensus size: 45
11593832 CGGCTTTAAT
*
11593842 CTGCTCCACTGCAACTTCAGG-GAGATAAGATTTGCCAT-CTTCAGC
1 CTGCTCCACTGCAACTTCAGGAG-GATAAGACTTGCCATGCTT-AGC
* ** *
11593887 CTG-TCTCACTGCAACTTCAGGAGGATAATACTTGCTTTGCTTAGT
1 CTGCTC-CACTGCAACTTCAGGAGGATAAGACTTGCCATGCTTAGC
* * * *
11593932 CTGCTCCACTGCAACTTCAAGGA-GATAAGACTAG--ATAC-GA-T
1 CTGCTCCACTGCAACTTC-AGGAGGATAAGACTTGCCATGCTTAGC
* * * *
11593973 CTGCT-CTCTGCAACTTCA-GAGAGATAAGA-TCTG--AGGTTTTAATC
1 CTGCTCCACTGCAACTTCAGGAG-GATAAGACT-TGCCATG-CTT-AGC
* * * * **
11594017 C-GCTCCAATACAACTTCAGG-GAGATAGGA-TTG--TTGGCTTTAAT
1 CTGCTCCACTGCAACTTCAGGAG-GATAAGACTTGCCAT-GC-TTAGC
* *
11594060 CTGCTCCACTGTAACTTCAGG-GAGATAAGATTTGCCAT-CTTCAGC
1 CTGCTCCACTGCAACTTCAGGAG-GATAAGACTTGCCATGCTT-AGC
* ** *
11594105 CTGC-CTCACTGCAACTTCAGGAGGATACGACTTGCGTTGCTTAGT
1 CTGCTC-CACTGCAACTTCAGGAGGATAAGACTTGCCATGCTTAGC
* ** * * * * *
11594150 CTGCTCCACTACAACTTCAGGTTATCAAAAAACTAG--ATGC-GA-T
1 CTGCTCCACTGCAACTTCAGG--AGGATAAGACTTGCCATGCTTAGC
* * * *
11594193 CTGCT-CTCTGCAACTTCA-GAGAGATAAGA-TCTG--AGGTTTTAATC
1 CTGCTCCACTGCAACTTCAGGAG-GATAAGACT-TGCCATG-CTT-AGC
* * * **
11594237 C-GCTCCAATGCAACTTCAGG-GAGATAGGA-TTG--TTGGCTTTAAT
1 CTGCTCCACTGCAACTTCAGGAG-GATAAGACTTGCCAT-GC-TTAGC
* *
11594280 CTGTTCCACTGCAACTTCAGG-GAGATAAGATTTGCCAT-CTTCAGC
1 CTGCTCCACTGCAACTTCAGGAG-GATAAGACTTGCCATGCTT-AGC
* * ** *
11594325 CTGC-CTCACTGCAACTTTAGGAGGATACGACTTGCGTTGCTTAGT
1 CTGCTC-CACTGCAACTTCAGGAGGATAAGACTTGCCATGCTTAGC
* * *
11594370 CTGCTCCACTGCAACTTCAGG-GAGATAAGACTAG--ATGC-GA-T
1 CTGCTCCACTGCAACTTCAGGAG-GATAAGACTTGCCATGCTTAGC
* * * * * * *
11594411 CTACT-CTCTGCAACTTCAGAAAGATAAGA-TCTG--AGGTTTTAATC
1 CTGCTCCACTGCAACTTCAGGAGGATAAGACT-TGCCATG-CTT-AGC
* * ** * **
11594455 C-GCTCCAATGCAACTTCAGG-GAGATAGGA-TTATC-GGCTTTAAT
1 CTGCTCCACTGCAACTTCAGGAG-GATAAGACTTGCCATGC-TTAGC
* *
11594498 CTGCTCCACTGCAACTTCAGG-GAGATAAGATTTGCCAT-CTTCAGT
1 CTGCTCCACTGCAACTTCAGGAG-GATAAGACTTGCCATGCTT-AGC
* ** * *
11594543 CTGC-CTCACTGTAACTTCAGGAGGATAAGACTTG-TTTACTTAGT
1 CTGCTC-CACTGCAACTTCAGGAGGATAAGACTTGCCATGCTTAGC
*
11594587 CTGCTCCACTGTAACTTCAGG-GAGATAAGACT
1 CTGCTCCACTGCAACTTCAGGAG-GATAAGACT
11594619 AGATGCGATC
Statistics
Matches: 551, Mismatches: 114, Indels: 135
0.69 0.14 0.17
Matches are distributed among these distances:
38 2 0.00
39 5 0.01
40 50 0.09
41 12 0.02
42 13 0.02
43 34 0.06
44 191 0.35
45 214 0.39
46 21 0.04
47 9 0.02
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (45 bp):
CTGCTCCACTGCAACTTCAGGAGGATAAGACTTGCCATGCTTAGC
Found at i:11594278 original size:44 final size:44
Alignment explanation
Indices: 11593615--11594616 Score: 401
Period size: 44 Copynumber: 22.9 Consensus size: 44
11593605 CTCCACTGTC
* *
11593615 GGCTTTAATCTGCTCCACCGCAACTTCAGGGAGATAAGATTTGTC
1 GGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGTT
** * * * *
11593660 ATCTTCAGTCTAC-CTCACTGTAACTTCA-GGAGGATAAGACTTGCTT
1 GGCTTTAATCTGCTC-CACTGCAACTTCAGGGA-GATAAGA-TTG-TT
* * * * * *
11593706 TGC-TTAGTCTGTTCCACTGCAACTTCAGGGAGATAAGGCTAGAT
1 GGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA-GATTGTT
* * ** ** *
11593750 -GC---GATCTACT-CTTTGCAACTTCAGACAGATAAGATCTG-A
1 GGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TGTT
* ** ** * *
11593789 GGTTTTAATCCACTCCACTATAATTTCAGGGAGATAAGATTGTC
1 GGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTT
11593833 GGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-T-TT
1 GGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTT
* ** *
11593875 GCCATCTTCAGCCTG-TCTCACTGCAACTTCA-GGAGGATAATACTTGCTT
1 GGC-T-TT-AATCTGCTC-CACTGCAACTTCAGGGA-GATAAGA-TTG-TT
* * * * *
11593924 TGC-TTAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTAGAT
1 GGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGTT
* * * * *
11593968 -AC---GATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTG-A
1 GGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TGTT
* * * * *
11594007 GGTTTTAATCCGCTCCAATACAACTTCAGGGAGATAGGATTGTT
1 GGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTT
*
11594051 GGCTTTAATCTGCTCCACTGTAACTTCAGGGAGATAAGA-T-TT
1 GGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTT
* ** *
11594093 GCCATCTTCAGCCTGC-CTCACTGCAACTTCA-GGAGGATACGACTTGCGTT
1 GGC-T-TT-AATCTGCTC-CACTGCAACTTCAGGGA-GATAAGA-TT--GTT
* * * * * * * *
11594143 -GC-TTAGTCTGCTCCACTACAACTTCAGGTTATCAAAAAACTAGAT
1 GGCTTTAATCTGCTCCACTGCAACTTCAGG-GA-GATAAGA-TTGTT
* * * *
11594188 -GC---GATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTG-A
1 GGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TGTT
* * * *
11594227 GGTTTTAATCCGCTCCAATGCAACTTCAGGGAGATAGGATTGTT
1 GGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTT
*
11594271 GGCTTTAATCTGTTCCACTGCAACTTCAGGGAGATAAGA-T-TT
1 GGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTT
* ** * *
11594313 GCCATCTTCAGCCTGC-CTCACTGCAACTTTA-GGAGGATACGACTTGCGTT
1 GGC-T-TT-AATCTGCTC-CACTGCAACTTCAGGGA-GATAAGA-TT--GTT
* * *
11594363 -GC-TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGAT
1 GGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGTT
* * * ** *
11594406 -GC---GATCTACT-CTCTGCAACTTCAGAAAGATAAGATCTG-A
1 GGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TGTT
* * * * * *
11594445 GGTTTTAATCCGCTCCAATGCAACTTCAGGGAGATAGGATTATC
1 GGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTT
11594489 GGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-T-TT
1 GGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTT
* * *
11594531 GCCATCTTCAGTCTGC-CTCACTGTAACTTCA-GGAGGATAAGACTTGTT
1 GGC-T-TT-AATCTGCTC-CACTGCAACTTCAGGGA-GATAAGA-TTGTT
** * *
11594579 TAC-TTAGTCTGCTCCACTGTAACTTCAGGGAGATAAGA
1 GGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
11594617 CTAGATGCGA
Statistics
Matches: 715, Mismatches: 162, Indels: 161
0.69 0.16 0.16
Matches are distributed among these distances:
39 5 0.01
40 71 0.10
41 16 0.02
42 26 0.04
43 51 0.07
44 272 0.38
45 228 0.32
46 24 0.03
47 10 0.01
48 3 0.00
49 5 0.01
50 4 0.01
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.30
Consensus pattern (44 bp):
GGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTT
Found at i:11594428 original size:438 final size:436
Alignment explanation
Indices: 11593613--11594629 Score: 1622
Period size: 438 Copynumber: 2.3 Consensus size: 436
11593603 TACTCCACTG
* * *
11593613 TCGGCTTTAATCTGCTCCACCGCAACTTCAGGGAGATAAGATTTGTCATCTTCAGTCTACCTCAC
1 TCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCAC
* * * *
11593678 TGTAACTTCAGGAGGATAAGACTTGCTTTGCTTAGTCTGTTCCACTGCAACTTCAGGGAGATAAG
66 TGTAACTTCAGGAGGATAAGACTTGCTTTGCTTAGTCTGCTCCACTGCAACTTCAGGGACAAAAA
* * *
11593743 GCTAGATGCGATCTACTCTTTGCAACTTCAGACAGATAAGATCTGAGGTTTTAATCCACTCCACT
131 ACTAGATGCGATCTACTCTCTGCAACTTCAGACAGATAAGATCTGAGGTTTTAATCCACTCCAAT
* *
11593808 ATAATTTCAGGGAGATAAGATTGTCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
196 ACAACTTCAGGGAGATAAGATTGTCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
* * *
11593873 TTGCCATCTTCAGCCTGTCTCACTGCAACTTCAGGAGGATAATACTTGCTTTGCTTAGTCTGCTC
261 TTGCCATCTTCAGCCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCGTTGCTTAGTCTGCTC
* *
11593938 CACTGCAACTTCAAGGAGATAAGACTAGATACGATCTGCTCTCTGCAACTTCAGAGAGATAAGAT
326 CACTGCAACTTCAAGGAGATAAGACTAGATACGATCTACTCTCTGCAACTTCAGAAAGATAAGAT
*
11594003 CTGAGGTTTTAATCCGCTCCAATACAACTTCAGGGAGATAGGATTG
391 CTGAGGTTTTAATCCGCTCCAATACAACTTCAGGGAGATAGGATTA
* * *
11594049 TTGGCTTTAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGCCATCTTCAGCCTGCCTCAC
1 TCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCAC
* * * * *
11594114 TGCAACTTCAGGAGGATACGACTTGCGTTGCTTAGTCTGCTCCACTACAACTTCAGGTTATCAAA
66 TGTAACTTCAGGAGGATAAGACTTGCTTTGCTTAGTCTGCTCCACTGCAACTTCAGG-GA-CAAA
* * *
11594179 AAACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGAGGTTTTAATCCGCTCCA
129 AAACTAGATGCGATCTACTCTCTGCAACTTCAGACAGATAAGATCTGAGGTTTTAATCCACTCCA
* * * *
11594244 ATGCAACTTCAGGGAGATAGGATTGTTGGCTTTAATCTGTTCCACTGCAACTTCAGGGAGATAAG
194 ATACAACTTCAGGGAGATAAGATTGTCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* *
11594309 ATTTGCCATCTTCAGCCTGCCTCACTGCAACTTTAGGAGGATACGACTTGCGTTGCTTAGTCTGC
259 ATTTGCCATCTTCAGCCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCGTTGCTTAGTCTGC
* *
11594374 TCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTACTCTCTGCAACTTCAGAAAGATAAG
324 TCCACTGCAACTTCAAGGAGATAAGACTAGATACGATCTACTCTCTGCAACTTCAGAAAGATAAG
*
11594439 ATCTGAGGTTTTAATCCGCTCCAATGCAACTTCAGGGAGATAGGATTA
389 ATCTGAGGTTTTAATCCGCTCCAATACAACTTCAGGGAGATAGGATTA
11594487 TCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCAC
1 TCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCAC
* * * * *
11594552 TGTAACTTCAGGAGGATAAGACTTG-TTTACTTAGTCTGCTCCACTGTAACTTCAGGGAGATAAG
66 TGTAACTTCAGGAGGATAAGACTTGCTTTGCTTAGTCTGCTCCACTGCAACTTCAGGGACAAAAA
11594616 ACTAGATGCGATCT
131 ACTAGATGCGATCT
11594630 GTTATCTTCA
Statistics
Matches: 528, Mismatches: 51, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
435 17 0.03
436 112 0.21
437 28 0.05
438 371 0.70
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.30
Consensus pattern (436 bp):
TCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCAC
TGTAACTTCAGGAGGATAAGACTTGCTTTGCTTAGTCTGCTCCACTGCAACTTCAGGGACAAAAA
ACTAGATGCGATCTACTCTCTGCAACTTCAGACAGATAAGATCTGAGGTTTTAATCCACTCCAAT
ACAACTTCAGGGAGATAAGATTGTCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
TTGCCATCTTCAGCCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCGTTGCTTAGTCTGCTC
CACTGCAACTTCAAGGAGATAAGACTAGATACGATCTACTCTCTGCAACTTCAGAAAGATAAGAT
CTGAGGTTTTAATCCGCTCCAATACAACTTCAGGGAGATAGGATTA
Found at i:11605874 original size:119 final size:120
Alignment explanation
Indices: 11605690--11605907 Score: 300
Period size: 119 Copynumber: 1.8 Consensus size: 120
11605680 GCTACTCGTT
*
11605690 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGG
* *
11605755 ATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
66 ATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * **
11605810 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTCG-GATCTTAGTCC
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGAGA-CTTAACCC
* *
11605872 GGATATGGTCACTTAGCACAAAGCCTTCGGGACTTA
64 GGATATAGTAACTTAGCACAAAGCCTTCGGGACTTA
11605908 GCCTGGACAT
Statistics
Matches: 86, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
118 3 0.03
119 61 0.71
120 22 0.26
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:11605908 original size:40 final size:40
Alignment explanation
Indices: 11605671--11605910 Score: 283
Period size: 40 Copynumber: 6.0 Consensus size: 40
11605661 CGGAATTTAA
** *
11605671 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
11605711 CCGGTTATAGTAACTCGCACAAATGCCTTCGAGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
11605751 CCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
11605791 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
11605830 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
11605870 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
11605910 C
1 C
11605911 TGGACATCAT
Statistics
Matches: 175, Mismatches: 18, Indels: 14
0.85 0.09 0.07
Matches are distributed among these distances:
38 2 0.01
39 33 0.19
40 128 0.73
41 12 0.07
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:11613963 original size:40 final size:40
Alignment explanation
Indices: 11613720--11613963 Score: 282
Period size: 40 Copynumber: 6.1 Consensus size: 40
11613710 CGGAATTTAA
** * *
11613720 CCGGATATAGCT-ACTCGTTCAAATGCTTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
11613760 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
11613800 CCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
11613840 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
11613879 CCAGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
11613919 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
11613959 CCGGA
1 CCGGA
11613964 CATCATTCGA
Statistics
Matches: 178, Mismatches: 19, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
38 2 0.01
39 32 0.18
40 132 0.74
41 12 0.07
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:11617531 original size:98 final size:98
Alignment explanation
Indices: 11617357--11617553 Score: 342
Period size: 98 Copynumber: 2.0 Consensus size: 98
11617347 GTACAATAAA
* *
11617357 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACATTATGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACATTAGGGCACAATT
*
11617422 CCTCTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
*
11617455 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACATTAGGGCACAATT
11617520 CCAT-TAAAATCCCAAACTCGGAATATTTCCTTT
66 CC-TCTAAAATCCCAAACTCGGAATATTTCCTTT
11617553 A
1 A
11617554 TTATTTTTAA
Statistics
Matches: 94, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
98 93 0.99
99 1 0.01
ACGTcount: A:0.38, C:0.25, G:0.09, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACATTAGGGCACAATT
CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
Found at i:11632357 original size:16 final size:16
Alignment explanation
Indices: 11632317--11632357 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
11632307 CGTTTGGTTT
11632317 ATTGTAATGGAATAAA
1 ATTGTAATGGAATAAA
** *
11632333 GCTGCAATGGAATAAA
1 ATTGTAATGGAATAAA
11632349 ATTGTAATG
1 ATTGTAATG
11632358 AAATTGAGCT
Statistics
Matches: 19, Mismatches: 6, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.44, C:0.05, G:0.22, T:0.29
Consensus pattern (16 bp):
ATTGTAATGGAATAAA
Found at i:11632368 original size:32 final size:32
Alignment explanation
Indices: 11632317--11632378 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
11632307 CGTTTGGTTT
* *
11632317 ATTGTAATGGAATAAAGCTGCAATGGAATAAA
1 ATTGTAATGAAATAAAGCTGCAATAGAATAAA
** *
11632349 ATTGTAATGAAATTGAGCTGTAATAGAATA
1 ATTGTAATGAAATAAAGCTGCAATAGAATA
11632379 GACCTGTAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.45, C:0.05, G:0.21, T:0.29
Consensus pattern (32 bp):
ATTGTAATGAAATAAAGCTGCAATAGAATAAA
Found at i:11638320 original size:31 final size:31
Alignment explanation
Indices: 11638258--11638330 Score: 76
Period size: 31 Copynumber: 2.3 Consensus size: 31
11638248 CTACTTCATT
* * * *
11638258 TTTTTATTAGTATATATGTATTATTATTATG
1 TTTTTATTTGTATATATGAACTAATATTATG
11638289 TTTTTATTTGTATATATGAAACTAATA-TATG
1 TTTTTATTTGTATATATG-AACTAATATTATG
*
11638320 TATGTTATTTG
1 T-TTTTATTTG
11638331 CTTCAAATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
31 22 0.63
32 13 0.37
ACGTcount: A:0.30, C:0.01, G:0.11, T:0.58
Consensus pattern (31 bp):
TTTTTATTTGTATATATGAACTAATATTATG
Found at i:11651166 original size:17 final size:17
Alignment explanation
Indices: 11651144--11651178 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
11651134 AGTAATAATA
*
11651144 ATTAAAATTTTAAAAAT
1 ATTAAAAATTTAAAAAT
11651161 ATTAAAAATTTAAAAAT
1 ATTAAAAATTTAAAAAT
11651178 A
1 A
11651179 AAAAAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
ATTAAAAATTTAAAAAT
Found at i:11651184 original size:17 final size:17
Alignment explanation
Indices: 11651147--11651199 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
11651137 AATAATAATT
* **
11651147 AAAATTTTAAAAATATT
1 AAAAATTTAAAAATAAA
11651164 AAAAATTTAAAAATAAAA
1 AAAAATTTAAAAAT-AAA
*
11651182 AAAAATTCAAAAA-AAA
1 AAAAATTTAAAAATAAA
11651198 AA
1 AA
11651200 GTGTTGAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
16 5 0.16
17 13 0.42
18 13 0.42
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.25
Consensus pattern (17 bp):
AAAAATTTAAAAATAAA
Found at i:11663560 original size:12 final size:11
Alignment explanation
Indices: 11663543--11663573 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
11663533 TTTAGCTTAG
11663543 TTAGTTTAATT
1 TTAGTTTAATT
11663554 ATTAGTTTAATT
1 -TTAGTTTAATT
11663566 TTAGTTTA
1 TTAGTTTA
11663574 TAAACAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (11 bp):
TTAGTTTAATT
Found at i:11664959 original size:20 final size:20
Alignment explanation
Indices: 11664934--11664975 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
11664924 AGAAGTAGAG
11664934 TAAGAACTCTTTAAAGTTTC
1 TAAGAACTCTTTAAAGTTTC
11664954 TAAGAACTCTTTAAAGTTTC
1 TAAGAACTCTTTAAAGTTTC
11664974 TA
1 TA
11664976 TATAATGATG
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:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (20 bp):
TAAGAACTCTTTAAAGTTTC
Found at i:11667938 original size:19 final size:19
Alignment explanation
Indices: 11667914--11667951 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
11667904 TGCAAATGAA
11667914 TCATTTCTCATTTT-ATTTT
1 TCATTTCT-ATTTTCATTTT
11667933 TCATTTCTATTTTCATTTT
1 TCATTTCTATTTTCATTTT
11667952 GAGAAAATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (19 bp):
TCATTTCTATTTTCATTTT
Found at i:11671831 original size:21 final size:21
Alignment explanation
Indices: 11671801--11671847 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
11671791 AATTAAAACT
*
11671801 TTTAAAAAATTGCAAGAGA-A
1 TTTAAAAAATTGCAAAAGAGA
*
11671821 TTTACAAAAATTTCAAAAGAGA
1 TTTA-AAAAATTGCAAAAGAGA
11671843 TTTAA
1 TTTAA
11671848 TTAAAATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 4 0.17
21 14 0.61
22 5 0.22
ACGTcount: A:0.53, C:0.06, G:0.11, T:0.30
Consensus pattern (21 bp):
TTTAAAAAATTGCAAAAGAGA
Found at i:11673628 original size:17 final size:17
Alignment explanation
Indices: 11673606--11673655 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
11673596 TATTTTTCAA
11673606 TAAAAATTCTAAAATTT
1 TAAAAATTCTAAAATTT
* *
11673623 TAAAAA-TATATAATTT
1 TAAAAATTCTAAAATTT
11673639 TGAAAAATTC-AAAATTT
1 T-AAAAATTCTAAAATTT
11673656 ATGAAAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
16 9 0.33
17 17 0.63
18 1 0.04
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (17 bp):
TAAAAATTCTAAAATTT
Found at i:11674190 original size:10 final size:9
Alignment explanation
Indices: 11674163--11674194 Score: 55
Period size: 9 Copynumber: 3.4 Consensus size: 9
11674153 AAAAAATATA
11674163 TTTATTATT
1 TTTATTATT
11674172 TTTATTATT
1 TTTATTATT
11674181 TTTATGTATT
1 TTTAT-TATT
11674191 TTTA
1 TTTA
11674195 AAGAGTGAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 14 0.64
10 8 0.36
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (9 bp):
TTTATTATT
Found at i:11675029 original size:12 final size:12
Alignment explanation
Indices: 11675012--11675064 Score: 61
Period size: 12 Copynumber: 4.4 Consensus size: 12
11675002 ATGGTTGCCC
*
11675012 TCATCATTGTCA
1 TCATCATTATCA
11675024 TCATCATTATCA
1 TCATCATTATCA
* * *
11675036 TTATCATCAACA
1 TCATCATTATCA
*
11675048 TCATCGTTATCA
1 TCATCATTATCA
11675060 TCATC
1 TCATC
11675065 TTCTACTTCA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.30, C:0.26, G:0.04, T:0.40
Consensus pattern (12 bp):
TCATCATTATCA
Found at i:11675037 original size:18 final size:18
Alignment explanation
Indices: 11675012--11675064 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
11675002 ATGGTTGCCC
*
11675012 TCATCATTGTCATCATCA
1 TCATCATTATCATCATCA
* *
11675030 TTATCATTATCATCAACA
1 TCATCATTATCATCATCA
*
11675048 TCATCGTTATCATCATC
1 TCATCATTATCATCATC
11675065 TTCTACTTCA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.30, C:0.26, G:0.04, T:0.40
Consensus pattern (18 bp):
TCATCATTATCATCATCA
Found at i:11676867 original size:6 final size:6
Alignment explanation
Indices: 11676856--11676882 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
11676846 AATTTAGCCT
11676856 TTGGCA TTGGCA TTGGCA TTGGCA TTG
1 TTGGCA TTGGCA TTGGCA TTGGCA TTG
11676883 CTCAAAGGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.15, G:0.33, T:0.37
Consensus pattern (6 bp):
TTGGCA
Found at i:11683226 original size:19 final size:21
Alignment explanation
Indices: 11683202--11683243 Score: 70
Period size: 19 Copynumber: 2.1 Consensus size: 21
11683192 TTAGTAAATT
11683202 AGTAAATAAAA-ATAAAA-AA
1 AGTAAATAAAACATAAAATAA
11683221 AGTAAATAAAACATAAAATAA
1 AGTAAATAAAACATAAAATAA
11683242 AG
1 AG
11683244 ACTTTGTCTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 11 0.52
20 6 0.29
21 4 0.19
ACGTcount: A:0.74, C:0.02, G:0.07, T:0.17
Consensus pattern (21 bp):
AGTAAATAAAACATAAAATAA
Found at i:11688422 original size:54 final size:54
Alignment explanation
Indices: 11688314--11688436 Score: 129
Period size: 54 Copynumber: 2.3 Consensus size: 54
11688304 GTGTTTCCAA
* * * *
11688314 TCAGTGAGTTACACGGCCTAGCACACGTCCTGGCACACGAGCATGTGTGACAAC
1 TCAGAGAGTTACACGACCTAGCACACGGCCTGGCACACGAGCATGTGGGACAAC
* * ** * * * *
11688368 TTAGAGAGTTACACTACCTAGCACACGGCCTGGTGCATGGGCGTGTGGGGCAAC
1 TCAGAGAGTTACACGACCTAGCACACGGCCTGGCACACGAGCATGTGGGACAAC
*
11688422 TCAGTGAGTTACACG
1 TCAGAGAGTTACACG
11688437 GGTGAGGACA
Statistics
Matches: 54, Mismatches: 15, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.24, C:0.26, G:0.29, T:0.20
Consensus pattern (54 bp):
TCAGAGAGTTACACGACCTAGCACACGGCCTGGCACACGAGCATGTGGGACAAC
Found at i:11690750 original size:35 final size:35
Alignment explanation
Indices: 11690711--11690800 Score: 117
Period size: 35 Copynumber: 2.6 Consensus size: 35
11690701 ACTGATACTT
11690711 TGATTCGCATGTTAAGCATGTTACTATTCTGATTA
1 TGATTCGCATGTTAAGCATGTTACTATTCTGATTA
* * * *
11690746 TGATTTGCATGTTGAGCATGTTATTATTCTGATTC
1 TGATTCGCATGTTAAGCATGTTACTATTCTGATTA
* * *
11690781 TGAATCACTTGTTAAGCATG
1 TGATTCGCATGTTAAGCATG
11690801 CCATTATGTT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 46 1.00
ACGTcount: A:0.24, C:0.13, G:0.19, T:0.43
Consensus pattern (35 bp):
TGATTCGCATGTTAAGCATGTTACTATTCTGATTA
Found at i:11694063 original size:18 final size:18
Alignment explanation
Indices: 11694040--11694089 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
11694030 TGTCAATTTG
11694040 GTATCGAT-TTTGGAATAA
1 GTATCGATATTTGGAA-AA
*
11694058 GTATCGATATTTTGAAAA
1 GTATCGATATTTGGAAAA
* *
11694076 CTATCGATACTTGG
1 GTATCGATATTTGG
11694090 TGAAAAAGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 21 0.78
19 6 0.22
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (18 bp):
GTATCGATATTTGGAAAA
Found at i:11696357 original size:22 final size:22
Alignment explanation
Indices: 11696327--11696378 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
11696317 AGGTGTTAAA
*
11696327 ACAACGAAAGAGTTGTCTGAGT
1 ACAACGAAAAAGTTGTCTGAGT
*
11696349 ACAATGAAAAAGTTGTCTGAGT
1 ACAACGAAAAAGTTGTCTGAGT
11696371 ACAACGAA
1 ACAACGAA
11696379 CCCAAATCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.42, C:0.13, G:0.23, T:0.21
Consensus pattern (22 bp):
ACAACGAAAAAGTTGTCTGAGT
Found at i:11698475 original size:23 final size:25
Alignment explanation
Indices: 11698449--11698495 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
11698439 TTTAAAATTT
*
11698449 AAAA-TTATTAAA-AACTTATAAAC
1 AAAATTTATAAAATAACTTATAAAC
*
11698472 AAAATTTATAAAATAAGTTATAAA
1 AAAATTTATAAAATAACTTATAAA
11698496 ATTTTTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 4 0.20
24 7 0.35
25 9 0.45
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (25 bp):
AAAATTTATAAAATAACTTATAAAC
Found at i:11705721 original size:3 final size:3
Alignment explanation
Indices: 11705713--11705780 Score: 57
Period size: 3 Copynumber: 22.3 Consensus size: 3
11705703 TGTTATTAAT
* ** *
11705713 TTA TTA TTA TTA TTA TAA TTA TTAA TTA TTA TTA TCG TTT TCTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA T-TA TTA
* *
11705759 TAA ATA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA T
11705781 AGTATTTAAT
Statistics
Matches: 51, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
2 1 0.02
3 45 0.88
4 5 0.10
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:11706437 original size:17 final size:18
Alignment explanation
Indices: 11706415--11706448 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
11706405 GAAATGAGTT
11706415 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
11706432 AATTAGGGTATAAATTG
1 AATTAGGATATAAATTG
11706449 AAAATAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.35
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:11713298 original size:13 final size:13
Alignment explanation
Indices: 11713280--11713321 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
11713270 TATGAATTAA
11713280 ATATTATTATATT
1 ATATTATTATATT
*
11713293 ATATTATTATAAT
1 ATATTATTATATT
*
11713306 GTATTATTAATATT
1 ATATTATT-ATATT
11713320 AT
1 AT
11713322 TAACTAATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
13 19 0.79
14 5 0.21
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (13 bp):
ATATTATTATATT
Found at i:11713340 original size:24 final size:22
Alignment explanation
Indices: 11713287--11713341 Score: 58
Period size: 24 Copynumber: 2.4 Consensus size: 22
11713277 TAAATATTAT
* *
11713287 TATATTATATTATTATAATGTA
1 TATATAATATTATTATAATATA
11713309 T-TATTAATATTATTAACTAATATA
1 TATA-TAATATTATT-A-TAATATA
11713333 TATATAATA
1 TATATAATA
11713342 AAGTAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
21 2 0.07
22 10 0.37
23 1 0.04
24 12 0.44
25 2 0.07
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (22 bp):
TATATAATATTATTATAATATA
Found at i:11719685 original size:23 final size:23
Alignment explanation
Indices: 11719656--11719722 Score: 70
Period size: 23 Copynumber: 3.0 Consensus size: 23
11719646 TAAATGACAT
11719656 TTTTATTAAATAATAATTTAATA
1 TTTTATTAAATAATAATTTAATA
*
11719679 TTTTATTTAA-AATAA--TAATA
1 TTTTATTAAATAATAATTTAATA
* *
11719699 TTTTAATAAGTAAT-ATTATAATA
1 TTTTATTAAATAATAATT-TAATA
11719722 T
1 T
11719723 ATGTAAAAGA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
20 13 0.36
21 3 0.08
22 5 0.14
23 15 0.42
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (23 bp):
TTTTATTAAATAATAATTTAATA
Found at i:11725806 original size:18 final size:18
Alignment explanation
Indices: 11725773--11725825 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
11725763 ATTCACCTAA
*
11725773 ACCCAATCCAAACCCAAGT
1 ACCCAA-CCCAACCCAAGT
** *
11725792 ATTCAACCCAACCCAATT
1 ACCCAACCCAACCCAAGT
11725810 ACCCAACCCAACCCAA
1 ACCCAACCCAACCCAA
11725826 TCATAAAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 24 0.86
19 4 0.14
ACGTcount: A:0.42, C:0.45, G:0.02, T:0.11
Consensus pattern (18 bp):
ACCCAACCCAACCCAAGT
Found at i:11725943 original size:9 final size:9
Alignment explanation
Indices: 11725929--11725986 Score: 82
Period size: 9 Copynumber: 6.4 Consensus size: 9
11725919 GTAGTGATTC
11725929 AATTCGGTT
1 AATTCGGTT
*
11725938 AATTCGGGT
1 AATTCGGTT
11725947 AATTCGGTT
1 AATTCGGTT
*
11725956 AATTCAAG-T
1 AATTC-GGTT
11725965 AATTCGGTT
1 AATTCGGTT
11725974 AATTCGGTT
1 AATTCGGTT
11725983 AATT
1 AATT
11725987 TTTAACCAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
8 1 0.02
9 41 0.95
10 1 0.02
ACGTcount: A:0.28, C:0.10, G:0.21, T:0.41
Consensus pattern (9 bp):
AATTCGGTT
Found at i:11728633 original size:19 final size:20
Alignment explanation
Indices: 11728596--11728643 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
11728586 TTCGGGGATC
11728596 ATTTTGAAACAAAACAAAAA
1 ATTTTGAAACAAAACAAAAA
* *
11728616 ATTTTGGAA-AAAATAAAAA
1 ATTTTGAAACAAAACAAAAA
*
11728635 ATTTCGAAA
1 ATTTTGAAA
11728644 ACAAGGGTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.60, C:0.06, G:0.08, T:0.25
Consensus pattern (20 bp):
ATTTTGAAACAAAACAAAAA
Found at i:11736129 original size:20 final size:19
Alignment explanation
Indices: 11736104--11736153 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
11736094 TTCGGTGATC
* *
11736104 ATTTTGAAACAAAATAGTAA
1 ATTTTGAAAAAAAAT-GAAA
11736124 ATTTTGAAAAAAAATGAAA
1 ATTTTGAAAAAAAATGAAA
11736143 ACTTTTGAAAA
1 A-TTTTGAAAA
11736154 CAGGGGTCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 4 0.15
20 23 0.85
ACGTcount: A:0.56, C:0.04, G:0.10, T:0.30
Consensus pattern (19 bp):
ATTTTGAAAAAAAATGAAA
Found at i:11739344 original size:53 final size:53
Alignment explanation
Indices: 11739286--11739415 Score: 133
Period size: 53 Copynumber: 2.4 Consensus size: 53
11739276 TAATATAAAA
11739286 TTTAAATCTATTATTATATATTTTTAAAAAAAT-ATTTATATACTTTTATA-TAT
1 TTTAAAT-TATTATTATATATTTTTAAAAAAATCATTTATA-ACTTTTATATTAT
** * * * *
11739339 TTTAAATTTATATATTAT-TATTTTTTCAATAATCATTTTTAATTTTTATATTTT
1 TTTAAA-TTAT-TATTATATATTTTTAAAAAAATCATTTATAACTTTTATATTAT
11739393 TTTAAATT-TTATTATTATATTTT
1 TTTAAATTATTATTA-TATATTTT
11739416 AAATTTATTT
Statistics
Matches: 65, Mismatches: 6, Indels: 12
0.78 0.07 0.14
Matches are distributed among these distances:
51 5 0.08
52 2 0.03
53 37 0.57
54 21 0.32
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (53 bp):
TTTAAATTATTATTATATATTTTTAAAAAAATCATTTATAACTTTTATATTAT
Found at i:11739410 original size:51 final size:53
Alignment explanation
Indices: 11739329--11739445 Score: 136
Period size: 50 Copynumber: 2.3 Consensus size: 53
11739319 ATTTATATAC
* *
11739329 TTTTATA-TATTTTAAATTTATATATTATTATTTTTTCAATAATCATTT-TTAAT
1 TTTTATATTTTTTTAAATTTATATATTATTATATTTT-AA-AATCATTTATTAAT
* * *
11739382 TTTTATATTTTTTTAAA-TT-T-TATTATTATATTTTAAATTTATTTATTTAT
1 TTTTATATTTTTTTAAATTTATATATTATTATATTTTAAAATCATTTATTAAT
11739432 TTTTATATTTTTTT
1 TTTTATATTTTTTT
11739446 TGAATTTTTT
Statistics
Matches: 57, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
49 6 0.11
50 20 0.35
51 13 0.23
52 1 0.02
53 9 0.16
54 8 0.14
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (53 bp):
TTTTATATTTTTTTAAATTTATATATTATTATATTTTAAAATCATTTATTAAT
Found at i:11739423 original size:36 final size:37
Alignment explanation
Indices: 11739334--11739428 Score: 86
Period size: 38 Copynumber: 2.6 Consensus size: 37
11739324 TATACTTTTA
**
11739334 TATATTTTAAATTTATATATTATTATTTTTTCAATAAT
1 TATATTTTAAATTTATATATTATTAAATTTT-AATAAT
* * * * *
11739372 CAT-TTTTAATTTTTATATTTTTTTAAATTTT-ATTAT
1 TATATTTTAA-ATTTATATATTATTAAATTTTAATAAT
*
11739408 TATATTTTAAATTTATTTATT
1 TATATTTTAAATTTATATATT
11739429 TATTTTTATA
Statistics
Matches: 44, Mismatches: 11, Indels: 6
0.72 0.18 0.10
Matches are distributed among these distances:
36 14 0.32
37 12 0.27
38 18 0.41
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (37 bp):
TATATTTTAAATTTATATATTATTAAATTTTAATAAT
Done.