Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 236 of 352
Found at i:77710262 original size:27 final size:28
Alignment explanation
Indices: 77710201--77710279 Score: 90
Period size: 27 Copynumber: 2.9 Consensus size: 28
77710191 AAAATAACTG
*
77710201 AAATACCCCCAAAGGGTAAAATGA-TCA
1 AAATACCCCCATAGGGTAAAATGACTCA
**
77710228 AAATACCCCCATAGGGTAAAATGACTTT
1 AAATACCCCCATAGGGTAAAATGACTCA
***
77710256 AAA-ACCCTTGTAGGGTAAAATGAC
1 AAATACCCCCATAGGGTAAAATGAC
77710280 GGTTTTGGCC
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
27 41 0.91
28 4 0.09
ACGTcount: A:0.43, C:0.20, G:0.16, T:0.20
Consensus pattern (28 bp):
AAATACCCCCATAGGGTAAAATGACTCA
Found at i:77710302 original size:27 final size:27
Alignment explanation
Indices: 77710269--77710511 Score: 240
Period size: 27 Copynumber: 9.0 Consensus size: 27
77710259 ACCCTTGTAG
** *
77710269 GGTAAAATGACGGTTTTGGCCTTATGT
1 GGTAAAATGACTATTTTGCCCTTATGT
*
77710296 GGCAAAATGACTATTTTGCCCTTATGT
1 GGTAAAATGACTATTTTGCCCTTATGT
* *
77710323 GGCAAAATGACTATTTTTCCCTTATGT
1 GGTAAAATGACTATTTTGCCCTTATGT
* * * *
77710350 GTTAAATTGACGATTTTGCCCTTGTGT
1 GGTAAAATGACTATTTTGCCCTTATGT
* * *
77710377 GTTAAAATGA-TGATTTTTCCCTTAGGT
1 GGTAAAATGACT-ATTTTGCCCTTATGT
*
77710404 GATAAAATGACTATTTTGCCCTTATGT
1 GGTAAAATGACTATTTTGCCCTTATGT
** * *
77710431 GACAAAA-GACTATTTTGCCATTATAT
1 GGTAAAATGACTATTTTGCCCTTATGT
** * *
77710457 GGTAAAATGACTGA-AATGCCCCTACGT
1 GGTAAAATGACT-ATTTTGCCCTTATGT
*
77710484 GGTAAATTGACTATTTTGCCCTTATGT
1 GGTAAAATGACTATTTTGCCCTTATGT
77710511 G
1 G
77710512 ATGTATGTTT
Statistics
Matches: 176, Mismatches: 35, Indels: 10
0.80 0.16 0.05
Matches are distributed among these distances:
26 23 0.13
27 151 0.86
28 2 0.01
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (27 bp):
GGTAAAATGACTATTTTGCCCTTATGT
Found at i:77712780 original size:17 final size:18
Alignment explanation
Indices: 77712742--77712780 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
77712732 GGTTTTGAGG
77712742 TTTTGCTCTTCAATTCAT
1 TTTTGCTCTTCAATTCAT
*
77712760 TTTTGGCTCTTC-TTTCAT
1 TTTT-GCTCTTCAATTCAT
77712778 TTT
1 TTT
77712781 ATTTTCTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.10, C:0.21, G:0.08, T:0.62
Consensus pattern (18 bp):
TTTTGCTCTTCAATTCAT
Found at i:77713673 original size:10 final size:10
Alignment explanation
Indices: 77713658--77713685 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
77713648 CAAAATGATA
77713658 CTGGGCCATT
1 CTGGGCCATT
77713668 CTGGGCCATT
1 CTGGGCCATT
77713678 CTGGGCCA
1 CTGGGCCA
77713686 AACTGGGACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.11, C:0.32, G:0.32, T:0.25
Consensus pattern (10 bp):
CTGGGCCATT
Found at i:77715236 original size:40 final size:40
Alignment explanation
Indices: 77715155--77715375 Score: 340
Period size: 40 Copynumber: 5.6 Consensus size: 40
77715145 AAACCAAGTA
** * *
77715155 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
*
77715194 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
77715234 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
77715274 CCTTCGGGACTTGGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
77715314 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
77715354 CCTTCGGG-CTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
77715376 CAATCCGAAT
Statistics
Matches: 170, Mismatches: 10, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
39 26 0.15
40 144 0.85
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.27
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:77723325 original size:40 final size:40
Alignment explanation
Indices: 77723244--77723464 Score: 340
Period size: 40 Copynumber: 5.6 Consensus size: 40
77723234 AAACCAAGTA
** * *
77723244 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
*
77723283 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
77723323 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
77723363 CCTTCGGGACTTGGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
77723403 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
77723443 CCTTCGGG-CTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
77723465 CAATCCGAAT
Statistics
Matches: 170, Mismatches: 10, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
39 26 0.15
40 144 0.85
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.27
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:77731531 original size:36 final size:38
Alignment explanation
Indices: 77731482--77731584 Score: 99
Period size: 36 Copynumber: 2.8 Consensus size: 38
77731472 AGAATATAGT
* *
77731482 AACT-GCACCAATGCTTCGGGACTTAGCCGGA-ATA-T
1 AACTCGCACAAATGCTTCGGGACTTAGCCGGATATACA
* * *
77731517 GACTCGCACAAATGCCTCGGGCAC-TAGCCCGGATGTACA
1 AACTCGCACAAATGCTTCGGG-ACTTAG-CCGGATATACA
77731556 AACTCGC-CAAATGCCTTCGGGACTTAGCC
1 AACTCGCACAAATG-CTTCGGGACTTAGCC
77731585 CGATTTATCA
Statistics
Matches: 54, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
35 3 0.06
36 17 0.31
37 7 0.13
38 12 0.22
39 15 0.28
ACGTcount: A:0.26, C:0.31, G:0.23, T:0.19
Consensus pattern (38 bp):
AACTCGCACAAATGCTTCGGGACTTAGCCGGATATACA
Found at i:77778152 original size:43 final size:44
Alignment explanation
Indices: 77778076--77778158 Score: 125
Period size: 43 Copynumber: 1.9 Consensus size: 44
77778066 AACTAGGCAT
77778076 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGAGCGAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG-GCGAACGC
* *
77778121 CCGAGCTCG-TGAGTTGAGT-CGAGTTCGCTTATGGGCGA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGGCGA
77778159 GTTACATGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
42 4 0.11
43 14 0.39
44 10 0.28
45 8 0.22
ACGTcount: A:0.19, C:0.23, G:0.33, T:0.25
Consensus pattern (44 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGGCGAACGC
Found at i:77787839 original size:22 final size:22
Alignment explanation
Indices: 77787811--77787862 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
77787801 ACACTTTTAA
77787811 CGTTGATCGGCTATTGACCAAT
1 CGTTGATCGGCTATTGACCAAT
77787833 CGTTGATCGGCTATTGACCAAT
1 CGTTGATCGGCTATTGACCAAT
*
77787855 CATTGATC
1 CGTTGATC
77787863 AAGTGTTGAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (22 bp):
CGTTGATCGGCTATTGACCAAT
Found at i:77787871 original size:22 final size:22
Alignment explanation
Indices: 77787813--77787879 Score: 82
Period size: 22 Copynumber: 3.0 Consensus size: 22
77787803 ACTTTTAACG
* *
77787813 TTGATCGGCTATTGACCAATCG
1 TTGATCAGCTATTGACCAATCA
*
77787835 TTGATCGGCTATTGACCAATCA
1 TTGATCAGCTATTGACCAATCA
*
77787857 TTGATCAAG-TGTTGACCAATCA
1 TTGATC-AGCTATTGACCAATCA
77787879 T
1 T
77787880 GTGGCGCTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
22 40 0.98
23 1 0.02
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (22 bp):
TTGATCAGCTATTGACCAATCA
Found at i:77788155 original size:21 final size:22
Alignment explanation
Indices: 77788129--77788181 Score: 83
Period size: 21 Copynumber: 2.5 Consensus size: 22
77788119 ATAAAAATTA
77788129 TTTTAA-AATACTTTTTACCTT
1 TTTTAATAATACTTTTTACCTT
*
77788150 TTTTAATAAT-TTTTTTACCTT
1 TTTTAATAATACTTTTTACCTT
77788171 TTTTAATAATA
1 TTTTAATAATA
77788182 TTATTGATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 26 0.90
22 3 0.10
ACGTcount: A:0.30, C:0.09, G:0.00, T:0.60
Consensus pattern (22 bp):
TTTTAATAATACTTTTTACCTT
Found at i:77788236 original size:27 final size:28
Alignment explanation
Indices: 77788206--77788258 Score: 67
Period size: 26 Copynumber: 1.9 Consensus size: 28
77788196 TAATTTCTTG
77788206 AATTTCTTTTGTA-AATTT-TAT-TTTTAT
1 AATTT-TTTT-TACAATTTATATGTTTTAT
77788233 AATTTTTTTTACAATTTATATGTTTT
1 AATTTTTTTTACAATTTATATGTTTT
77788259 GTTCTAGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
25 2 0.09
26 9 0.39
27 8 0.35
28 4 0.17
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.66
Consensus pattern (28 bp):
AATTTTTTTTACAATTTATATGTTTTAT
Found at i:77788273 original size:21 final size:20
Alignment explanation
Indices: 77788247--77788290 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 20
77788237 TTTTTTACAA
77788247 TTTATATGT-TTTGTTCTAGAT
1 TTTATATGTATTT-TTCTAG-T
77788268 TTTATATGTATTTTTCTAGT
1 TTTATATGTATTTTTCTAGT
77788288 TTT
1 TTT
77788291 CTTTATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 4 0.18
21 15 0.68
22 3 0.14
ACGTcount: A:0.18, C:0.05, G:0.11, T:0.66
Consensus pattern (20 bp):
TTTATATGTATTTTTCTAGT
Found at i:77789213 original size:9 final size:11
Alignment explanation
Indices: 77789180--77789212 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
77789170 TAAATTGAAA
*
77789180 ATAA-TAATTT
1 ATAATTAATAT
77789190 ATAATTAATAT
1 ATAATTAATAT
77789201 ATAATTAATAT
1 ATAATTAATAT
77789212 A
1 A
77789213 AATATATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 4 0.19
11 17 0.81
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
ATAATTAATAT
Found at i:77789216 original size:17 final size:18
Alignment explanation
Indices: 77789178--77789219 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
77789168 ATTAAATTGA
*
77789178 AAATA-ATAATTTATAAT
1 AAATATATAATTAATAAT
*
77789195 TAATATATAATTAAT-AT
1 AAATATATAATTAATAAT
77789212 AAATATAT
1 AAATATAT
77789220 TATATTATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AAATATATAATTAATAAT
Found at i:77789746 original size:24 final size:24
Alignment explanation
Indices: 77789702--77789747 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
77789692 ACCCTTTAAG
* *
77789702 ATATAGTATAGGATTATATAATAT
1 ATATAGTATAGGACTAAATAATAT
77789726 ATATAGTTATA-GACTAAATAAT
1 ATATAG-TATAGGACTAAATAAT
77789748 GGATGGAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 15 0.79
25 4 0.21
ACGTcount: A:0.48, C:0.02, G:0.11, T:0.39
Consensus pattern (24 bp):
ATATAGTATAGGACTAAATAATAT
Found at i:77789864 original size:3 final size:3
Alignment explanation
Indices: 77789858--77789915 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
77789848 CTAAAAGAAG
77789858 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
77789906 ATA ATA ATA A
1 ATA ATA ATA A
77789916 AGGAGTTTCA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:77796575 original size:42 final size:42
Alignment explanation
Indices: 77796528--77796641 Score: 124
Period size: 43 Copynumber: 2.7 Consensus size: 42
77796518 TACCATTCCA
* * *
77796528 ATGCCATATCCCAGATATGGCCTTACATG-GGATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAG-TCTCATATCG
* * *
77796570 ATGCCAATAGT-CCAGCTATGGTTTTACACGAAGTCTCATATTG
1 ATGCC-ATA-TCCCAGATATGGTCTTACACGAAGTCTCATATCG
*
77796613 ATGCCATATCCCAGATATAGTCTTACACG
1 ATGCCATATCCCAGATATGGTCTTACACG
77796642 TAATCTTAGT
Statistics
Matches: 59, Mismatches: 9, Indels: 8
0.78 0.12 0.11
Matches are distributed among these distances:
41 1 0.02
42 24 0.41
43 32 0.54
44 2 0.03
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
Found at i:77797967 original size:42 final size:42
Alignment explanation
Indices: 77797890--77798016 Score: 152
Period size: 42 Copynumber: 3.0 Consensus size: 42
77797880 ATATTTGATC
* * * *
77797890 CATTTTATTCGATGATGCACTTATGTTCCAGTATAATTGCTT
1 CATTATATTCGATGATGCACTTAAGTGCCAATATAATTGCTT
*
77797932 CATTATATTCAATGATGCACTTAAGTGCCAATATAATTGCTT
1 CATTATATTCGATGATGCACTTAAGTGCCAATATAATTGCTT
*
77797974 CGA-TATA-TCTGATGATGCACTTACA-TGCCAATATATTTGCTT
1 C-ATTATATTC-GATGATGCACTTA-AGTGCCAATATAATTGCTT
77798016 C
1 C
77798017 GGTACATCCA
Statistics
Matches: 75, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
41 2 0.03
42 71 0.95
43 2 0.03
ACGTcount: A:0.28, C:0.18, G:0.13, T:0.40
Consensus pattern (42 bp):
CATTATATTCGATGATGCACTTAAGTGCCAATATAATTGCTT
Found at i:77798031 original size:42 final size:42
Alignment explanation
Indices: 77797901--77798045 Score: 132
Period size: 42 Copynumber: 3.5 Consensus size: 42
77797891 ATTTTATTCG
** * * * *
77797901 ATGATGCACTTATGTTCCAGTATAATTGCTTC-ATTATATTCA
1 ATGATGCACTTACATGCCAATATAATTGCTTCGA-TACATCCA
* **
77797943 ATGATGCACTTA-AGTGCCAATATAATTGCTTCGATATATCTG
1 ATGATGCACTTACA-TGCCAATATAATTGCTTCGATACATCCA
* *
77797985 ATGATGCACTTACATGCCAATATATTTGCTTCGGTACATCCA
1 ATGATGCACTTACATGCCAATATAATTGCTTCGATACATCCA
* * *
77798027 ATGATACATTTACTTGCCA
1 ATGATGCACTTACATGCCA
77798046 GCATGATTGC
Statistics
Matches: 86, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
42 84 0.98
43 2 0.02
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (42 bp):
ATGATGCACTTACATGCCAATATAATTGCTTCGATACATCCA
Found at i:77798056 original size:42 final size:43
Alignment explanation
Indices: 77798010--77798102 Score: 100
Period size: 42 Copynumber: 2.2 Consensus size: 43
77798000 GCCAATATAT
* *
77798010 TTGCTTCGGTACATCCAATGATACA-T-TTACTTGCCAGCATGA
1 TTGCTTCAGTACATCCAATGATACACTATTA-TTGCCAGCATAA
* ** * *
77798052 TTGCTTTAGTTTATCCAATGATGCACTATTATTGGCAGCATAA
1 TTGCTTCAGTACATCCAATGATACACTATTATTGCCAGCATAA
77798095 TTGCTTCA
1 TTGCTTCA
77798103 ATTCGTTTGA
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
42 20 0.49
43 18 0.44
44 3 0.07
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.38
Consensus pattern (43 bp):
TTGCTTCAGTACATCCAATGATACACTATTATTGCCAGCATAA
Found at i:77799983 original size:29 final size:29
Alignment explanation
Indices: 77799920--77799987 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
77799910 TAATCAACCA
77799920 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
77799949 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
77799978 CGCACACTTA
1 CGCACACTTA
77799988 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:77800128 original size:29 final size:30
Alignment explanation
Indices: 77800089--77800167 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
77800079 CTTAATAATC
77800089 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
77800119 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
77800148 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
77800168 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:77806295 original size:42 final size:42
Alignment explanation
Indices: 77806180--77806347 Score: 167
Period size: 42 Copynumber: 3.9 Consensus size: 42
77806170 AGTAAGATGC
* **
77806180 CAATGCCATATCCCAGATATGGTCTTACATGGGATCACATATAT
1 CAATGCCATATCCCAGATATGGTCTTACACGAAATCAC--ATAT
* * * * ** * *
77806224 CGATGCCGATAGCCTAGCTATGGTCTTACACGATGTCTCGTAT
1 CAATGCC-ATATCCCAGATATGGTCTTACACGAAATCACATAT
*
77806267 -AGATGCCATGTCCCAGATATGGTCTTACACGAAATCACATAT
1 CA-ATGCCATATCCCAGATATGGTCTTACACGAAATCACATAT
* *
77806309 CAATTCCATATCCCAGATATGGTCTTACATGAAATCACA
1 CAATGCCATATCCCAGATATGGTCTTACACGAAATCACA
77806348 CAACCCTAGT
Statistics
Matches: 99, Mismatches: 22, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
42 61 0.62
43 9 0.09
44 6 0.06
45 23 0.23
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (42 bp):
CAATGCCATATCCCAGATATGGTCTTACACGAAATCACATAT
Found at i:77806920 original size:21 final size:22
Alignment explanation
Indices: 77806890--77806930 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
77806880 TAGTAAAAGT
77806890 CATTTCTCTAACCA-TAAACATG
1 CATTTCTCT-ACCATTAAACATG
77806912 CATTT-TCTACCATTAAACA
1 CATTTCTCTACCATTAAACA
77806931 CAAAACTACA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 9 0.50
22 5 0.28
ACGTcount: A:0.37, C:0.27, G:0.02, T:0.34
Consensus pattern (22 bp):
CATTTCTCTACCATTAAACATG
Found at i:77816354 original size:48 final size:47
Alignment explanation
Indices: 77816029--77816352 Score: 220
Period size: 46 Copynumber: 6.9 Consensus size: 47
77816019 TATAGGGTAT
*
77816029 AATGCCGATGCCATGTCCCAGACATGGTCTTACACGGGC-CCATCCATC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCCAT-C-TC
** * * *
77816077 AA-GATGATGACATGTCCCAGACATAGTCTTACACTAGGTCTCACATATC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACT-GG-CTC-CATCTC
** * * * *
77816126 TGTACCGATGCCATGTCCCAGTCATGGTCTTACACTGACACC-TCT-
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCCATCTC
* *
77816171 ATATGTGCCGATGCCATGTCCCAGATATGGTCTTACACT-G-TCAGATCTC
1 A-A--TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-CATCTC
* * * * * *
77816220 -GTAGCCAATG-CATATCCCAAAC-TTGTCTTACACTGGCTTACATCTC
1 AAT-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TCCATCTC
* * * * * *
77816266 GAGGCTGATG-CATATCCCAGACAT-GTCTTACACTAGCTCTCGTCTC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-CATCTC
*
77816312 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC
77816353 TCATAATGTG
Statistics
Matches: 209, Mismatches: 47, Indels: 40
0.71 0.16 0.14
Matches are distributed among these distances:
44 11 0.05
45 12 0.06
46 54 0.26
47 43 0.21
48 54 0.26
49 4 0.02
50 28 0.13
51 3 0.01
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.27
Consensus pattern (47 bp):
AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCCATCTC
Found at i:77816367 original size:48 final size:48
Alignment explanation
Indices: 77816032--77816396 Score: 192
Period size: 46 Copynumber: 7.8 Consensus size: 48
77816022 AGGGTATAAT
* * ***
77816032 GCCGATGCCATGTCCCAGACATGGTCTTACACGGGC-C-CATCCATCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-AATGTG
** * * * *
77816079 GATGATGACATGTCCCAGACATAGTCTTACACTAGG-TCTCACATATCTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT-GGCTCTCATA-ATGTG
* * * *
77816128 TACCGATGCCATGTCCCAGTCATGGTCTTACACTGACACCTC-TATATGT-
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TCTCATA-ATGTG
* ** * *
77816177 GCCGATGCCATGTCCCAGATATGGTCTTACACT-G-TCAGAT-CTCGTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTG
* * * * * *
77816223 GCCAATG-CATATCCCAAAC-TTGTCTTACACTGGCT-TACAT-CTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-GTG
* * * *
77816269 GCTGATG-CATATCCCAGACAT-GTCTTACACTAGCTCTCGTCTCAA--T-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC--AT-AATGTG
*
77816315 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATGTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTG
* *
77816363 GCCGATG-CATGTCCCAAATAT-GTCTTACACTGGC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC
77816397 ACACAATTAA
Statistics
Matches: 245, Mismatches: 49, Indels: 49
0.71 0.14 0.14
Matches are distributed among these distances:
44 12 0.05
45 15 0.06
46 64 0.26
47 56 0.23
48 57 0.23
49 6 0.02
50 32 0.13
51 3 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTG
Found at i:77816370 original size:94 final size:95
Alignment explanation
Indices: 77816029--77816393 Score: 249
Period size: 94 Copynumber: 3.9 Consensus size: 95
77816019 TATAGGGTAT
* * * * * **
77816029 AATGCCGATGCCATGTCCCAGACATGGTCTTACACGGGC-C-CATCCATCAAGATGATGACATGT
1 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCAT-AATGAGGCCGATGACATGT
* *
77816092 CCCAGACATAGTCTTACACTAGGTCTCACATATC
65 CCCAGACATAGTCTTACACTA-G-CTC-CGTCTC
** * ** * * * *
77816126 TGTACCGATGCCATGTCCCAGTCATGGTCTTACACTGACACCTC-TATATG-TGCCGATGCCATG
1 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGC-TCTCATA-ATGAGGCCGATGACATG
* * *
77816189 TCCCAGATATGGTCTTACACT-G-TCAGATCTC
64 TCCCAGACATAGTCTTACACTAGCTCCG-TCTC
* * * * * *
77816220 -GTAGCCAATG-CATATCCCAAAC-TTGTCTTACACTGGCT-TACAT-CTCGAGGCTGATG-CAT
1 AAT-GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCT-CATAAT-GAGGCCGATGACAT
*
77816279 ATCCCAGACAT-GTCTTACACTAGCTCTCGTCTC
63 GTCCCAGACATAGTCTTACACTAGCTC-CGTCTC
*
77816312 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATGTGGCCGATG-CATGTC
1 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATGAGGCCGATGACATGTC
77816376 CCA-A-ATATGTCTTACACT
66 CCAGACATA-GTCTTACACT
77816394 GGCACACAAT
Statistics
Matches: 209, Mismatches: 39, Indels: 43
0.72 0.13 0.15
Matches are distributed among these distances:
90 12 0.06
91 15 0.07
92 34 0.16
93 25 0.12
94 54 0.26
95 2 0.01
96 1 0.00
97 33 0.16
98 28 0.13
99 4 0.02
100 1 0.00
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.28
Consensus pattern (95 bp):
AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATGAGGCCGATGACATGTC
CCAGACATAGTCTTACACTAGCTCCGTCTC
Found at i:77823951 original size:47 final size:46
Alignment explanation
Indices: 77823888--77824051 Score: 167
Period size: 46 Copynumber: 3.6 Consensus size: 46
77823878 CGAGGCCGAC
* * * *
77823888 GCCATTTCCCAGACATGGTCTTACACTGACACCTCTAT-AGTGCAGAT
1 GCCATGTCCCAAACATGGTCTTACACTGACACATCT-TGA-AGCAGAT
77823935 GCCATGTCCCAAACATGGTCTTACACTGACACATCTTGAAGCAGAT
1 GCCATGTCCCAAACATGGTCTTACACTGACACATCTTGAAGCAGAT
* * * * *
77823981 G-CATGTCCCAAACAT-GTCTTACAGTGGCTTACATCTCGAGGCCGAT
1 GCCATGTCCCAAACATGGTCTTACACTGAC--ACATCTTGAAGCAGAT
*
77824027 G-CATGTCCCAGACAT-GTCTTACACT
1 GCCATGTCCCAAACATGGTCTTACACT
77824052 AGCTCTCGTC
Statistics
Matches: 103, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
44 11 0.11
45 14 0.14
46 44 0.43
47 34 0.33
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.26
Consensus pattern (46 bp):
GCCATGTCCCAAACATGGTCTTACACTGACACATCTTGAAGCAGAT
Found at i:77824072 original size:46 final size:46
Alignment explanation
Indices: 77823932--77824099 Score: 139
Period size: 46 Copynumber: 3.6 Consensus size: 46
77823922 CTATAGTGCA
* * *
77823932 GATGCCATGTCCCAAACATGGTCTTACACT-GAC--ACATCTTGAAG-CA
1 GATG-CATGTCCCAGACAT-GTCTTACACTAG-CTTACATC-TCAAGACC
* * * * *
77823978 GATGCATGTCCCAAACATGTCTTACAGTGGCTTACATCTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCAAGACC
* *
77824024 GATGCATGTCCCAGACATGTCTTACACTAGCTCT-CGTCTCAATACC
1 GATGCATGTCCCAGACATGTCTTACACTAGCT-TACATCTCAAGACC
*
77824070 GATGCCATATCCCAGACATGGTCTTACACT
1 GATG-CATGTCCCAGACAT-GTCTTACACT
77824100 GACTCTCATA
Statistics
Matches: 103, Mismatches: 12, Indels: 12
0.81 0.09 0.09
Matches are distributed among these distances:
44 10 0.10
45 18 0.17
46 51 0.50
47 14 0.14
48 10 0.10
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCAAGACC
Found at i:77825851 original size:27 final size:26
Alignment explanation
Indices: 77825814--77825928 Score: 90
Period size: 27 Copynumber: 4.3 Consensus size: 26
77825804 AGCATGGCTG
* *
77825814 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGGGACAGAGCCA
*
77825840 CCAGATACAGATATTGGGGCAGAGCCA
1 CCAGA-ACAGATATTGGGACAGAGCCA
* * *
77825867 CCAGAACAAATATTTGTGG-GATAGCCA
1 CCAGAACAGATA-TTG-GGACAGAGCCA
* *
77825894 CTAGAAACAGATATTTGTGG-CATAGCCA
1 CCAG-AACAGATA-TTG-GGACAGAGCCA
77825922 CCAGAAC
1 CCAGAAC
77825929 GCTTCCTCCA
Statistics
Matches: 75, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
26 11 0.15
27 38 0.51
28 26 0.35
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATATTGGGACAGAGCCA
Found at i:77825909 original size:28 final size:28
Alignment explanation
Indices: 77825838--77825927 Score: 105
Period size: 28 Copynumber: 3.3 Consensus size: 28
77825828 GTGACAGAGT
* *
77825838 CACCAGATACAGATA-TTG-GGGCAGAGC
1 CACCAGAAACAGATATTTGTGGG-ATAGC
*
77825865 CACCAG-AACAAATATTTGTGGGATAGC
1 CACCAGAAACAGATATTTGTGGGATAGC
* *
77825892 CACTAGAAACAGATATTTGTGGCATAGC
1 CACCAGAAACAGATATTTGTGGGATAGC
77825920 CACCAGAA
1 CACCAGAA
77825928 CGCTTCCTCC
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
26 6 0.11
27 18 0.34
28 29 0.55
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (28 bp):
CACCAGAAACAGATATTTGTGGGATAGC
Found at i:77828585 original size:18 final size:18
Alignment explanation
Indices: 77828562--77828605 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
77828552 GCAAAATCTT
77828562 GATGGATTTAAACATAGG
1 GATGGATTTAAACATAGG
* * *
77828580 GATGGATTTGATCTTAGG
1 GATGGATTTAAACATAGG
77828598 GATGGATT
1 GATGGATT
77828606 GGCTGACCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.30, C:0.05, G:0.32, T:0.34
Consensus pattern (18 bp):
GATGGATTTAAACATAGG
Found at i:77832059 original size:26 final size:26
Alignment explanation
Indices: 77832030--77832111 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
77832020 TGATACAAAT
77832030 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
77832056 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
77832082 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
77832108 TGAT
1 TGAT
77832112 GGGAATTTCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.32, C:0.06, G:0.26, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:77840707 original size:68 final size:68
Alignment explanation
Indices: 77840634--77840785 Score: 168
Period size: 67 Copynumber: 2.2 Consensus size: 68
77840624 CATCATGTGT
* * * * *
77840634 ACAAGAGAGCTACGAGACATTATGATGTAGCTAGGTTGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTACGAGACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
77840697 TGTAG
64 TGTAG
* * * *
77840702 ACAAGAGAGCTACG-G-GATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACTAT
1 ACAAGAGAGCTACGAGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCAT
77840765 GTAG
65 GTAG
77840769 ACAAGAGAGCTACGAGA
1 ACAAGAGAGCTACGAGA
77840786 TAAACTGGCT
Statistics
Matches: 70, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
64 23 0.33
65 3 0.04
66 3 0.04
67 26 0.37
68 15 0.21
ACGTcount: A:0.32, C:0.16, G:0.30, T:0.22
Consensus pattern (68 bp):
ACAAGAGAGCTACGAGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATG
TAG
Found at i:77845091 original size:10 final size:10
Alignment explanation
Indices: 77845068--77845119 Score: 50
Period size: 10 Copynumber: 4.9 Consensus size: 10
77845058 ATGTGAATCT
*
77845068 ATCATAAATAA
1 ATCA-AAATTA
77845079 ATCAAAATTA
1 ATCAAAATTA
77845089 ATCAAAATTTA
1 ATCAAAA-TTA
*
77845100 ATATAAAATTA
1 AT-CAAAATTA
*
77845111 ATTAAAATT
1 ATCAAAATT
77845120 CAACATGTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
10 19 0.51
11 14 0.38
12 4 0.11
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.35
Consensus pattern (10 bp):
ATCAAAATTA
Found at i:77850978 original size:24 final size:24
Alignment explanation
Indices: 77850922--77851003 Score: 103
Period size: 24 Copynumber: 3.4 Consensus size: 24
77850912 ATGAGCTATG
* * *
77850922 AATCAGTAAGCTCATACGAGTTGA
1 AATCGGTAAGCTCATACAAGCTGA
77850946 GAATCGGTAAGCTC-TCACAAGCTGA
1 -AATCGGTAAGCTCAT-ACAAGCTGA
*
77850971 AATCGGTAAGCTCATACTAGCTGA
1 AATCGGTAAGCTCATACAAGCTGA
77850995 AATCGGTAA
1 AATCGGTAA
77851004 TCCCTAATGA
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
24 31 0.61
25 20 0.39
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (24 bp):
AATCGGTAAGCTCATACAAGCTGA
Found at i:77854702 original size:102 final size:103
Alignment explanation
Indices: 77854525--77854721 Score: 281
Period size: 102 Copynumber: 1.9 Consensus size: 103
77854515 ATATCGATAC
* * * *
77854525 AACTTCCCAAACTTGTATAAAACAAGTTTAAAACACTTAAAGACATTTTTGATTGACTCAAAAAT
1 AACTTCCCAAACTTGAATAAAACAAGTTTAAAACACTCAAAGACATTTTGGATTGACACAAAAAT
*
77854590 GTTTAGATAAATTAAAATACATTTAAAATAAGTTATAT
66 ATTTAGATAAATTAAAATACATTTAAAATAAGTTATAT
** *
77854628 AACTTCCCAAACTTGAATAAAATGAGTTTAAAACAC-CAAA-ATCATTTTGGATTGGCACAAAAA
1 AACTTCCCAAACTTGAATAAAACAAGTTTAAAACACTCAAAGA-CATTTTGGATTGACACAAAAA
* *
77854691 TATTTAGATAAATTAAAATATATTTAGAATA
65 TATTTAGATAAATTAAAATACATTTAAAATA
77854722 TATTTTTGAG
Statistics
Matches: 83, Mismatches: 10, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
101 1 0.01
102 49 0.59
103 33 0.40
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.32
Consensus pattern (103 bp):
AACTTCCCAAACTTGAATAAAACAAGTTTAAAACACTCAAAGACATTTTGGATTGACACAAAAAT
ATTTAGATAAATTAAAATACATTTAAAATAAGTTATAT
Found at i:77869089 original size:23 final size:24
Alignment explanation
Indices: 77869038--77869090 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
77869028 TTGTTTTATT
* *
77869038 TTTATTTTTATTTTTTTGCCCTTA
1 TTTATTTTTATTTTATTGCCATTA
*
77869062 -ATATTTTTATTTTATT-CCATTA
1 TTTATTTTTATTTTATTGCCATTA
77869084 TTTATTT
1 TTTATTT
77869091 ATTCATTACT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
22 5 0.21
23 19 0.79
ACGTcount: A:0.19, C:0.09, G:0.02, T:0.70
Consensus pattern (24 bp):
TTTATTTTTATTTTATTGCCATTA
Found at i:77874357 original size:13 final size:13
Alignment explanation
Indices: 77874339--77874381 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
77874329 TAGATTTTTC
77874339 CTAAATATTATTA
1 CTAAATATTATTA
77874352 CTAAATA--ATT-
1 CTAAATATTATTA
*
77874362 CTAAATATTATCA
1 CTAAATATTATTA
77874375 CTAAATA
1 CTAAATA
77874382 ATTCAAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
10 7 0.27
11 3 0.12
12 2 0.08
13 14 0.54
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.40
Consensus pattern (13 bp):
CTAAATATTATTA
Found at i:77874369 original size:23 final size:23
Alignment explanation
Indices: 77874339--77874390 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
77874329 TAGATTTTTC
*
77874339 CTAAATATTATTACTAAATAATT
1 CTAAATATTATCACTAAATAATT
77874362 CTAAATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
*
77874385 CAAAAT
1 CTAAAT
77874391 TTAAAAATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (23 bp):
CTAAATATTATCACTAAATAATT
Found at i:77878871 original size:22 final size:21
Alignment explanation
Indices: 77878833--77878875 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
77878823 AAAGTCTAAA
77878833 TATTTATTTATTCATTTGTTTT
1 TATTTATTTATTCATTT-TTTT
77878855 TATTTATTT-TT-ATATTTTTT
1 TATTTATTTATTCAT-TTTTTT
77878875 T
1 T
77878876 CTTTTGAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 7 0.35
21 4 0.20
22 9 0.45
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (21 bp):
TATTTATTTATTCATTTTTTT
Found at i:77892132 original size:19 final size:19
Alignment explanation
Indices: 77892097--77892135 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
77892087 TTCGTCCATA
*
77892097 TTAGAAAAACCCTTTTGTT
1 TTAGAAAAACCCGTTTGTT
77892116 TTAGAGAAAA-CCGTTTGTT
1 TTAGA-AAAACCCGTTTGTT
77892135 T
1 T
77892136 GTTGAGTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.41
Consensus pattern (19 bp):
TTAGAAAAACCCGTTTGTT
Found at i:77892979 original size:31 final size:31
Alignment explanation
Indices: 77892944--77893012 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 31
77892934 TGCACCCTTA
* * * *
77892944 TGTGGCCTGCCTGTGTGGGCCCACACGCCCG
1 TGTGGCCTACCCGTATGGGCCCACACACCCG
** *
77892975 TGTGGTTTACCCGTATGGGCCCACACACCTG
1 TGTGGCCTACCCGTATGGGCCCACACACCCG
77893006 TGTGGCC
1 TGTGGCC
77893013 CACACGGCCC
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.10, C:0.35, G:0.32, T:0.23
Consensus pattern (31 bp):
TGTGGCCTACCCGTATGGGCCCACACACCCG
Found at i:77894498 original size:35 final size:35
Alignment explanation
Indices: 77894459--77894624 Score: 163
Period size: 35 Copynumber: 4.6 Consensus size: 35
77894449 CATGGAAAAG
*
77894459 TGTGAAATGTAGGTATGGTATCATCTATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
* * *
77894494 TGTGAAAAGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
77894529 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGT
** * * *
77894569 TAAGAAATGTAGGTATGGCAT-TTCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGT
** *
77894604 TGAAAAATATAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
77894625 TTCAATGAGG
Statistics
Matches: 109, Mismatches: 16, Indels: 12
0.80 0.12 0.09
Matches are distributed among these distances:
34 1 0.01
35 75 0.69
37 2 0.02
38 3 0.03
40 28 0.26
ACGTcount: A:0.33, C:0.10, G:0.24, T:0.33
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
Found at i:77894549 original size:40 final size:40
Alignment explanation
Indices: 77894470--77894586 Score: 113
Period size: 40 Copynumber: 3.0 Consensus size: 40
77894460 GTGAAATGTA
* *
77894470 GGTATGGTATCATCTATACTGAGTTGTGAAA---A-GTA-
1 GGTATGGTATAATCCATACTGAGTTGTGAAATGTAGGTAT
* *
77894505 GGTATGGTATTATCCATACTGAGCTGTGAAATGTAGGTAT
1 GGTATGGTATAATCCATACTGAGTTGTGAAATGTAGGTAT
**
77894545 GGTAT--TATCAAATCCATACTGAGTTAAGAAATGTAGGTAT
1 GGTATGGTAT--AATCCATACTGAGTTGTGAAATGTAGGTAT
77894585 GG
1 GG
77894587 CATTTCCCAT
Statistics
Matches: 68, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
35 28 0.41
38 4 0.06
39 3 0.04
40 33 0.49
ACGTcount: A:0.32, C:0.09, G:0.26, T:0.33
Consensus pattern (40 bp):
GGTATGGTATAATCCATACTGAGTTGTGAAATGTAGGTAT
Found at i:77894597 original size:75 final size:75
Alignment explanation
Indices: 77894459--77894629 Score: 194
Period size: 75 Copynumber: 2.4 Consensus size: 75
77894449 CATGGAAAAG
* ** *
77894459 TGTGAAATGTAGGTATGG---TATC--ATCTATACTGAGTTGTGAAAAGTAGGTATGGTATTATC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAAAGTAGGTATGGCATTATC
*
77894519 CATACTGAGC
66 CATACCGAGC
*
77894529 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAAAGTAGGTATGGCATTAT-
*
77894593 CCATACCGAGT
65 CCATACCGAGC
** *
77894604 TGAAAAATATAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
77894630 TGAGGAAAAC
Statistics
Matches: 85, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
70 18 0.21
73 4 0.05
74 5 0.06
75 58 0.68
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAAAGTAGGTATGGCATTATC
CATACCGAGC
Found at i:77899792 original size:23 final size:23
Alignment explanation
Indices: 77899766--77899811 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
77899756 AGATTTTTCT
* *
77899766 TAAATATTATTATTAAATAATTC
1 TAAATATTATCACTAAATAATTC
77899789 TAAATATTATCACTAAATAATTC
1 TAAATATTATCACTAAATAATTC
77899812 AAAAATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (23 bp):
TAAATATTATCACTAAATAATTC
Found at i:77900798 original size:19 final size:18
Alignment explanation
Indices: 77900765--77900801 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
77900755 AAAATATATT
*
77900765 TTTAATTTTGATAATTTA
1 TTTAATTTAGATAATTTA
77900783 TTTAACTTTAGATAATTTA
1 TTTAA-TTTAGATAATTTA
77900802 AAACATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (18 bp):
TTTAATTTAGATAATTTA
Found at i:77915057 original size:25 final size:25
Alignment explanation
Indices: 77915024--77915106 Score: 68
Period size: 25 Copynumber: 3.4 Consensus size: 25
77915014 AGTAAGTTGC
*
77915024 ATATGAATAAATATACAACAACAAT
1 ATATCAATAAATATACAACAACAAT
**
77915049 ATATCAAT--A-AT-CAACATA-GTT
1 ATATCAATAAATATACAACA-ACAAT
*
77915070 GCATATGAATAAATATACAACAACAAT
1 --ATATCAATAAATATACAACAACAAT
77915097 ATATCAATAA
1 ATATCAATAA
77915107 TCAACATACT
Statistics
Matches: 43, Mismatches: 7, Indels: 16
0.65 0.11 0.24
Matches are distributed among these distances:
21 6 0.14
22 3 0.07
23 8 0.19
25 17 0.40
26 3 0.07
27 6 0.14
ACGTcount: A:0.55, C:0.13, G:0.05, T:0.27
Consensus pattern (25 bp):
ATATCAATAAATATACAACAACAAT
Found at i:77915089 original size:48 final size:48
Alignment explanation
Indices: 77915018--77915114 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
77915008 AAGCTTAGTA
77915018 AGTTGCATATGAATAAATATACAACAACAATATATCAATAATCAACAT
1 AGTTGCATATGAATAAATATACAACAACAATATATCAATAATCAACAT
77915066 AGTTGCATATGAATAAATATACAACAACAATATATCAATAATCAACAT
1 AGTTGCATATGAATAAATATACAACAACAATATATCAATAATCAACAT
77915114 A
1 A
77915115 CTCATAATAC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.53, C:0.14, G:0.06, T:0.27
Consensus pattern (48 bp):
AGTTGCATATGAATAAATATACAACAACAATATATCAATAATCAACAT
Found at i:77915468 original size:46 final size:46
Alignment explanation
Indices: 77915343--77915585 Score: 158
Period size: 46 Copynumber: 5.2 Consensus size: 46
77915333 CTCAAACACG
* * * * *
77915343 GTCTTACACTGGCTCACATCT-TAAGTCGATGCCATGTCCCAGACAT
1 GTCTTACACTAGCTTACATCTCGAGGCCGATG-CATGTCCCAGACAT
* *
77915389 GGTCTTACACT-GAC-TATTATCTAGTA-GCCGATGCATGTCCCAGACAT
1 -GTCTTACACTAG-CTTA-CATCTCG-AGGCCGATGCATGTCCCAGACAT
* * * *
77915436 GTCTTACACTAGCTTACATCTCGAGGCTGATGCATATCCCAGAAAA
1 GTCTTACACTAGCTTACATCTCGAGGCCGATGCATGTCCCAGACAT
* * * * *
77915482 GTCTTACACTAGCACT-CGTCTCAATGCCAATGCCATGTCCCAGACAT
1 GTCTTACACTAGC-TTACATCTCGAGGCCGATG-CATGTCCCAGACAT
* * * * *
77915529 GGTCTTACACTGGCTCT-CATAAT-GTGGCCGATGCATATCCCAAACAT
1 -GTCTTACACTAGCT-TACAT-CTCGAGGCCGATGCATGTCCCAGACAT
77915576 GTCTTACACT
1 GTCTTACACT
77915586 GGCCCACATC
Statistics
Matches: 155, Mismatches: 29, Indels: 25
0.74 0.14 0.12
Matches are distributed among these distances:
45 1 0.01
46 69 0.45
47 56 0.36
48 27 0.17
49 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (46 bp):
GTCTTACACTAGCTTACATCTCGAGGCCGATGCATGTCCCAGACAT
Found at i:77915598 original size:94 final size:93
Alignment explanation
Indices: 77915422--77915599 Score: 218
Period size: 94 Copynumber: 1.9 Consensus size: 93
77915412 GTAGCCGATG
* *
77915422 CATGTCCCAGACATGTCTTACACTAGCTTACATCTCGAGGCTGATGCATATCCCAGAAAAGTCTT
1 CATGTCCCAGACATGTCTTACACTAGCTTACATATCGAGGCCGATGCATATCCCAGAAAAGTCTT
* *
77915487 ACACTAGCACTCGTCTCAATGCCAATGC
66 ACACTAGCACACATCTCAATGCCAATGC
* * *
77915515 CATGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-GTGGCCGATGCATATCCCA-AACATG
1 CATGTCCCAGACAT-GTCTTACACTAGCT-TACAT-ATCGAGGCCGATGCATATCCCAGAA-AAG
* *
77915577 TCTTACACTGGCCCACATCTCAA
62 TCTTACACTAGCACACATCTCAA
77915600 ATGACCCCAA
Statistics
Matches: 72, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
93 16 0.22
94 54 0.75
95 2 0.03
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.26
Consensus pattern (93 bp):
CATGTCCCAGACATGTCTTACACTAGCTTACATATCGAGGCCGATGCATATCCCAGAAAAGTCTT
ACACTAGCACACATCTCAATGCCAATGC
Found at i:77923485 original size:7 final size:7
Alignment explanation
Indices: 77923473--77923498 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
77923463 ATAACTTATT
77923473 ACCCTAA
1 ACCCTAA
77923480 ACCCTAA
1 ACCCTAA
77923487 ACCCTAA
1 ACCCTAA
77923494 ACCCT
1 ACCCT
77923499 TTAATTCCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.38, C:0.46, G:0.00, T:0.15
Consensus pattern (7 bp):
ACCCTAA
Found at i:77924374 original size:46 final size:46
Alignment explanation
Indices: 77924253--77924374 Score: 201
Period size: 46 Copynumber: 2.7 Consensus size: 46
77924243 GCCCATAAAC
* **
77924253 GAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCATCCATAAGT
1 GAACTCAGACTCAACTCAACGAG-TTCGGATGTTCGCATCCATAAGT
77924299 GAACTCAGACTCAACTCAACGAGTTCGGATGTTCGCATCCATAAGT
1 GAACTCAGACTCAACTCAACGAGTTCGGATGTTCGCATCCATAAGT
77924345 GAACTCAGACTCAACTCAACGAGTTCGGAT
1 GAACTCAGACTCAACTCAACGAGTTCGGAT
77924375 ACCTAGTTAC
Statistics
Matches: 72, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
45 2 0.03
46 70 0.97
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (46 bp):
GAACTCAGACTCAACTCAACGAGTTCGGATGTTCGCATCCATAAGT
Found at i:77925911 original size:47 final size:47
Alignment explanation
Indices: 77925838--77926062 Score: 210
Period size: 47 Copynumber: 4.8 Consensus size: 47
77925828 TGGGTAAGGT
* *
77925838 GCCGATGCCATGTCTCAGACACGGTCTTACACTGGCTCACATCTCACA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCA-A
* * *
77925886 -TCGATGCCATGTCCCAGACATGGTCTTATACTGACT-ATCATCTCATA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCA-CATCTCA-A
* *
77925933 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACGTCTCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAA
* ** * * * *
77925978 GGCCGATG-CATATCCCAGACAT-GTCTTACACTAACACTCGTCTGAA
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAA
* * *
77926024 TGCCGATGCCATATCCCAAACATGGTCTTATACTGGCTC
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC
77926063 TCATAATGTG
Statistics
Matches: 148, Mismatches: 23, Indels: 12
0.81 0.13 0.07
Matches are distributed among these distances:
45 1 0.01
46 64 0.43
47 67 0.45
48 16 0.11
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAA
Found at i:77925965 original size:93 final size:92
Alignment explanation
Indices: 77925837--77926062 Score: 235
Period size: 93 Copynumber: 2.4 Consensus size: 92
77925827 ATGGGTAAGG
* * * *
77925837 TGCCGATGCCATGTCTCAGACACGGTCTTACACTGGCTCACATCTCACA-TCGATGCCATGTCCC
1 TGCCGATGCCATGTCCCAGACA-TGTCTTACACTGGCTCACATCTCA-AGCCGATG-CATATCCC
* *
77925901 AGACATGGTCTTATACTGACTA-TCATCTC-A
63 AGACAT-GTCTTACACTAAC-ACTCATCTCAA
* *
77925931 TAGCCGATG-CATGTCCCAGACATGTCTTACACTGGCTTACGTCTCAAGGCCGATGCATATCCCA
1 T-GCCGATGCCATGTCCCAGACATGTCTTACACTGGCTCACATCTCAA-GCCGATGCATATCCCA
* *
77925995 GACATGTCTTACACTAACACTCGTCTGAA
64 GACATGTCTTACACTAACACTCATCTCAA
* * *
77926024 TGCCGATGCCATATCCCAAACATGGTCTTATACTGGCTC
1 TGCCGATGCCATGTCCCAGACAT-GTCTTACACTGGCTC
77926063 TCATAATGTG
Statistics
Matches: 111, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
91 1 0.01
92 24 0.22
93 48 0.43
94 31 0.28
95 7 0.06
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (92 bp):
TGCCGATGCCATGTCCCAGACATGTCTTACACTGGCTCACATCTCAAGCCGATGCATATCCCAGA
CATGTCTTACACTAACACTCATCTCAA
Found at i:77934682 original size:3 final size:3
Alignment explanation
Indices: 77934674--77934708 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
77934664 GGTACGGTTA
*
77934674 AAT AAT AAT AAC AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
77934709 AGAAAAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:77936728 original size:25 final size:25
Alignment explanation
Indices: 77936700--77936756 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
77936690 TCAATTCATT
*
77936700 TTGAACTAA-AAAACTAAACTAG-TGC
1 TTGAACTAACAAAA-TAAAC-AGCAGC
*
77936725 TTGAAGTAACAAAATAAACAGCAGC
1 TTGAACTAACAAAATAAACAGCAGC
77936750 TTGAACT
1 TTGAACT
77936757 TTAGCCAGCA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 2 0.07
25 21 0.78
26 4 0.15
ACGTcount: A:0.47, C:0.16, G:0.14, T:0.23
Consensus pattern (25 bp):
TTGAACTAACAAAATAAACAGCAGC
Found at i:77937399 original size:25 final size:27
Alignment explanation
Indices: 77937360--77937431 Score: 96
Period size: 25 Copynumber: 2.8 Consensus size: 27
77937350 CAACTATCAC
*
77937360 TTCTCGCTAAGCTTGCAGCTTTG-ACA
1 TTCTTGCTAAGCTTGCAGCTTTGCACA
77937386 -TCTTGCTAAGCTTGCAGC-TTGCACA
1 TTCTTGCTAAGCTTGCAGCTTTGCACA
* *
77937411 TTTTTGCTGAGCTTGCAGCTT
1 TTCTTGCTAAGCTTGCAGCTT
77937432 ACACATTAGA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
24 3 0.08
25 20 0.50
26 16 0.40
27 1 0.03
ACGTcount: A:0.17, C:0.25, G:0.21, T:0.38
Consensus pattern (27 bp):
TTCTTGCTAAGCTTGCAGCTTTGCACA
Found at i:77937424 original size:26 final size:26
Alignment explanation
Indices: 77937360--77937438 Score: 99
Period size: 26 Copynumber: 3.1 Consensus size: 26
77937350 CAACTATCAC
*
77937360 TTCTCGCTAAGCTTGCAGCTTTG-ACA
1 TTCTTGCTAAGCTTGCAGC-TTGCACA
77937386 -TCTTGCTAAGCTTGCAGCTTGCACA
1 TTCTTGCTAAGCTTGCAGCTTGCACA
* * *
77937411 TTTTTGCTGAGCTTGCAGCTTACACA
1 TTCTTGCTAAGCTTGCAGCTTGCACA
77937437 TT
1 TT
77937439 AGAAAGCTCA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
24 3 0.06
25 20 0.43
26 24 0.51
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.37
Consensus pattern (26 bp):
TTCTTGCTAAGCTTGCAGCTTGCACA
Found at i:77937940 original size:25 final size:25
Alignment explanation
Indices: 77937912--77937968 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
77937902 TCAGTTTATT
77937912 TTGAACTAA-AAAACTAAACTAGT-GC
1 TTGAACTAACAAAA-TAAAC-AGTAGC
* *
77937937 TTGAAGTAACAAAATGAACAGTAGC
1 TTGAACTAACAAAATAAACAGTAGC
77937962 TTGAACT
1 TTGAACT
77937969 TTAGCCAGCA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 3 0.11
25 20 0.74
26 4 0.15
ACGTcount: A:0.46, C:0.14, G:0.16, T:0.25
Consensus pattern (25 bp):
TTGAACTAACAAAATAAACAGTAGC
Found at i:77942559 original size:16 final size:16
Alignment explanation
Indices: 77942535--77942570 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
77942525 ATCATTTCCC
* *
77942535 AAAAGCAAAGGAAGAG
1 AAAAACAAAGGAAAAG
77942551 AAAAACAAAGGAAAAG
1 AAAAACAAAGGAAAAG
77942567 AAAA
1 AAAA
77942571 CCCCCAACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.72, C:0.06, G:0.22, T:0.00
Consensus pattern (16 bp):
AAAAACAAAGGAAAAG
Found at i:77947122 original size:22 final size:22
Alignment explanation
Indices: 77947078--77947124 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
77947068 TATATATGAT
* *
77947078 AAATGGTAGCAACATAATAGTA
1 AAATGGTAGCAAAACAATAGTA
* *
77947100 AAATTGTAGCAAAACAATGGTA
1 AAATGGTAGCAAAACAATAGTA
77947122 AAA
1 AAA
77947125 AGTGGGAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.53, C:0.09, G:0.17, T:0.21
Consensus pattern (22 bp):
AAATGGTAGCAAAACAATAGTA
Found at i:77950245 original size:12 final size:12
Alignment explanation
Indices: 77950228--77950253 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
77950218 AAATAAAATT
77950228 AATTATATAATA
1 AATTATATAATA
77950240 AATTATATAATA
1 AATTATATAATA
77950252 AA
1 AA
77950254 GTAAGTAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
AATTATATAATA
Found at i:77959884 original size:14 final size:13
Alignment explanation
Indices: 77959867--77959959 Score: 59
Period size: 13 Copynumber: 6.9 Consensus size: 13
77959857 GAAAATAAGT
77959867 TAAAGAAAATAAAA
1 TAAA-AAAATAAAA
77959881 TAAAATAAATAAAA
1 TAAAA-AAATAAAA
*
77959895 -AAACTAAAACAAAA
1 TAAA--AAAATAAAA
* * *
77959909 TTAAAAAAGAAGA
1 TAAAAAAATAAAA
77959922 TAAAAAAATAATAA
1 TAAAAAAATAA-AA
77959936 -AAGTAAAAAT-AAA
1 TAA--AAAAATAAAA
77959949 -AAAAAAATAAA
1 TAAAAAAATAAA
77959960 CTTAATGATA
Statistics
Matches: 64, Mismatches: 7, Indels: 18
0.72 0.08 0.20
Matches are distributed among these distances:
11 6 0.09
12 2 0.03
13 26 0.41
14 21 0.33
15 9 0.14
ACGTcount: A:0.78, C:0.02, G:0.04, T:0.15
Consensus pattern (13 bp):
TAAAAAAATAAAA
Found at i:77959892 original size:4 final size:5
Alignment explanation
Indices: 77959872--77959959 Score: 54
Period size: 5 Copynumber: 16.6 Consensus size: 5
77959862 TAAGTTAAAG
* * *
77959872 AAAAT AAAAT AAAAT -AAAT AAAA- AAACT AAAAC AAAATT AAAAA AGAAGAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA-T AAAAT A-AA-AT
* *
77959923 AAAAA AATAAT AAAAGT AAAAAT AAAAAA AAAAT AAA
1 AAAAT AA-AAT AAAA-T -AAAAT -AAAAT AAAAT AAA
77959960 CTTAATGATA
Statistics
Matches: 65, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
4 7 0.11
5 33 0.51
6 19 0.29
7 6 0.09
ACGTcount: A:0.80, C:0.02, G:0.03, T:0.15
Consensus pattern (5 bp):
AAAAT
Found at i:77959893 original size:23 final size:23
Alignment explanation
Indices: 77959858--77959959 Score: 77
Period size: 23 Copynumber: 4.3 Consensus size: 23
77959848 GATAATGATG
* *
77959858 AAAATAAGTTAAAGAAAATAAAAT
1 AAAATAA-ATAAAGAAAATAAAAA
77959882 AAAATAAATAAA-AAAACTAAAACA
1 AAAATAAATAAAGAAAA-TAAAA-A
* *
77959906 AAATTAAA-AAAGAAGATAAAAA
1 AAAATAAATAAAGAAAATAAAAA
*
77959928 AATAATAAA-AGTA-AAAATAAAAAA
1 AA-AATAAATA-AAGAAAAT-AAAAA
77959952 AAAATAAA
1 AAAATAAA
77959960 CTTAATGATA
Statistics
Matches: 65, Mismatches: 7, Indels: 13
0.76 0.08 0.15
Matches are distributed among these distances:
22 7 0.11
23 33 0.51
24 25 0.38
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.16
Consensus pattern (23 bp):
AAAATAAATAAAGAAAATAAAAA
Found at i:77959949 original size:46 final size:46
Alignment explanation
Indices: 77959868--77959959 Score: 107
Period size: 46 Copynumber: 2.0 Consensus size: 46
77959858 AAAATAAGTT
* * *
77959868 AAAGAAAATAAAATAAAATAAATAAAAAAACTAAAACAAAATTAAA
1 AAAGAAAATAAAAAAAAATAAATAAAAAAACTAAAAAAAAAATAAA
* *
77959914 AAAGAAGATAAAAAAATAATAAA-AGTAAAAA-TAAAAAAAAAATAAA
1 AAAGAAAATAAAAAAA-AATAAATA-AAAAAACTAAAAAAAAAATAAA
77959960 CTTAATGATA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
46 28 0.72
47 11 0.28
ACGTcount: A:0.79, C:0.02, G:0.04, T:0.14
Consensus pattern (46 bp):
AAAGAAAATAAAAAAAAATAAATAAAAAAACTAAAAAAAAAATAAA
Found at i:77960065 original size:16 final size:16
Alignment explanation
Indices: 77960032--77960079 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 16
77960022 TAGAAATAGC
*
77960032 AAAATAATAATA-ATA
1 AAAATTATAATATATA
77960047 AAAATTATAATATATAA
1 AAAATTATAATATAT-A
*
77960064 AAAATTA-AAAATATA
1 AAAATTATAATATATA
77960079 A
1 A
77960080 GTATAAGAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 13 0.45
16 8 0.28
17 8 0.28
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAATTATAATATATA
Found at i:77960067 original size:18 final size:19
Alignment explanation
Indices: 77960035--77960079 Score: 53
Period size: 17 Copynumber: 2.6 Consensus size: 19
77960025 AAATAGCAAA
77960035 ATAATA-ATAATAAAAATT
1 ATAATATATAATAAAAATT
77960053 ATAATATAT-A-AAAAATT
1 ATAATATATAATAAAAATT
*
77960070 A-AAAATATAA
1 ATAATATATAA
77960080 GTATAAGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
16 6 0.25
17 9 0.38
18 7 0.29
19 2 0.08
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
ATAATATATAATAAAAATT
Found at i:77960093 original size:25 final size:23
Alignment explanation
Indices: 77960045--77960130 Score: 68
Period size: 25 Copynumber: 3.5 Consensus size: 23
77960035 ATAATAATAA
77960045 TAAAAATTATAATATATAAA-AAAT
1 TAAAAA-TATAATATA-AAATAAAT
77960069 TAAAAATATAAGTATAAGAATAAAT
1 TAAAAATATAA-TATAA-AATAAAT
* *
77960094 TAATTAAT-TAATTAGTAAAATAAAA
1 TAA-AAATATAA-TA-TAAAATAAAT
77960119 TAAATAATATAA
1 TAAA-AATATAA
77960131 CAATTAATAA
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
23 6 0.12
24 12 0.24
25 24 0.47
26 9 0.18
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (23 bp):
TAAAAATATAATATAAAATAAAT
Found at i:77960119 original size:5 final size:5
Alignment explanation
Indices: 77960109--77960156 Score: 53
Period size: 5 Copynumber: 9.2 Consensus size: 5
77960099 AATTAATTAG
*
77960109 TAAAA TAAAA T-AAA TAATA TAACAA TTAATAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAA-AA -TAA-AA TAAAA TAAAA TAAAA
77960156 T
1 T
77960157 TGGGGTGATT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
4 4 0.11
5 24 0.65
6 4 0.11
7 5 0.14
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (5 bp):
TAAAA
Found at i:77964186 original size:13 final size:13
Alignment explanation
Indices: 77964168--77964194 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
77964158 CTTAGGTACC
77964168 TAGGGAATTTAGT
1 TAGGGAATTTAGT
77964181 TAGGGAATTTAGT
1 TAGGGAATTTAGT
77964194 T
1 T
77964195 CATACTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.30, T:0.41
Consensus pattern (13 bp):
TAGGGAATTTAGT
Found at i:77967292 original size:34 final size:34
Alignment explanation
Indices: 77967249--77967316 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
77967239 GTATTGAATG
77967249 GGGTATTGTTAAAGAAATAGTAGTTTAAAATTTT
1 GGGTATTGTTAAAGAAATAGTAGTTTAAAATTTT
77967283 GGGTATTGTTAAAGAAATAGTAGTTTAAAATTTT
1 GGGTATTGTTAAAGAAATAGTAGTTTAAAATTTT
77967317 TCTTTCAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.41
Consensus pattern (34 bp):
GGGTATTGTTAAAGAAATAGTAGTTTAAAATTTT
Found at i:77971456 original size:33 final size:32
Alignment explanation
Indices: 77971404--77971469 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 32
77971394 AACAATCAAA
* *
77971404 TGTAGTTTGGGCCTAAGCCCATTTTAGTCTCAG
1 TGTAGTTCGGGCCTAAGCCCATTTCAGT-TCAG
* *
77971437 TGTAGTTCGGGCTTTAGCCCATTTCAGTTCAG
1 TGTAGTTCGGGCCTAAGCCCATTTCAGTTCAG
77971469 T
1 T
77971470 ATCAAATATG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 5 0.17
33 24 0.83
ACGTcount: A:0.17, C:0.21, G:0.24, T:0.38
Consensus pattern (32 bp):
TGTAGTTCGGGCCTAAGCCCATTTCAGTTCAG
Found at i:77985768 original size:25 final size:25
Alignment explanation
Indices: 77985740--77985791 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
77985730 TTTGGCTTGA
*
77985740 CATTTACTAAGCAATATCAGATATT
1 CATTTACTAAGCAATATCAAATATT
* *
77985765 CATTTATTAGGCAATATCAAATATT
1 CATTTACTAAGCAATATCAAATATT
77985790 CA
1 CA
77985792 AATTATTCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.37
Consensus pattern (25 bp):
CATTTACTAAGCAATATCAAATATT
Found at i:77999823 original size:22 final size:24
Alignment explanation
Indices: 77999784--77999827 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
77999774 GTAGTTCAAA
*
77999784 ATTTTTCTATCAATTTATTAAAAG
1 ATTTTCCTATCAATTTATTAAAAG
77999808 ATTTTCCTA-CAA-TTATTAAA
1 ATTTTCCTATCAATTTATTAAA
77999828 TCTATATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 8 0.42
23 3 0.16
24 8 0.42
ACGTcount: A:0.39, C:0.11, G:0.02, T:0.48
Consensus pattern (24 bp):
ATTTTCCTATCAATTTATTAAAAG
Found at i:78006569 original size:16 final size:16
Alignment explanation
Indices: 78006548--78006584 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
78006538 TTGGTTCGCT
78006548 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
78006564 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
78006580 GTAAT
1 GTAAT
78006585 AGGTAATTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.35, T:0.22
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:78006653 original size:44 final size:46
Alignment explanation
Indices: 78006564--78006654 Score: 159
Period size: 46 Copynumber: 2.0 Consensus size: 46
78006554 GAATAGAGGC
*
78006564 GTAATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
78006610 GTAATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
78006654 G
1 G
78006655 GAATAGAGGT
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
44 20 0.45
45 3 0.07
46 21 0.48
ACGTcount: A:0.26, C:0.04, G:0.31, T:0.38
Consensus pattern (46 bp):
GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
Found at i:78006655 original size:39 final size:44
Alignment explanation
Indices: 78006564--78006671 Score: 145
Period size: 46 Copynumber: 2.5 Consensus size: 44
78006554 GAATAGAGGC
*
78006564 GTAATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTT--AT
78006610 GTAATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGG-T-T
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTAT
*
78006650 G-AATGGAATAGAGGTGTAATAG
1 GTAATGGAATAGAGGCGTAATAG
78006672 CATAAGGAAA
Statistics
Matches: 59, Mismatches: 2, Indels: 8
0.86 0.03 0.12
Matches are distributed among these distances:
39 18 0.31
40 3 0.05
43 1 0.02
44 13 0.22
45 3 0.05
46 21 0.36
ACGTcount: A:0.29, C:0.04, G:0.31, T:0.36
Consensus pattern (44 bp):
GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTAT
Found at i:78006833 original size:15 final size:15
Alignment explanation
Indices: 78006813--78006851 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 15
78006803 CATAATTGTT
78006813 ATAAAATATAATTTA
1 ATAAAATATAATTTA
78006828 ATAAAATATATAATTTA
1 AT-AAA-ATATAATTTA
78006845 ATAAAAT
1 ATAAAAT
78006852 TGTTAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 4 0.18
16 6 0.27
17 12 0.55
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
ATAAAATATAATTTA
Found at i:78006858 original size:17 final size:17
Alignment explanation
Indices: 78006818--78006851 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
78006808 TTGTTATAAA
78006818 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
78006835 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
78006852 TGTTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:78006923 original size:20 final size:21
Alignment explanation
Indices: 78006884--78006923 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
78006874 AATTTACTAA
*
78006884 TAAAATCATAATATATAATAC
1 TAAAATCATAATATAAAATAC
*
78006905 TAAAAT-ATAATTTAAAATA
1 TAAAATCATAATATAAAATA
78006924 ATTATTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAAATCATAATATAAAATAC
Found at i:78006965 original size:54 final size:54
Alignment explanation
Indices: 78006775--78006970 Score: 144
Period size: 54 Copynumber: 3.4 Consensus size: 54
78006765 TATTAATATA
* * * * * *
78006775 AATAATAAATAATTTAATCATATTTTAACATAATTGTTATAAAATATAATTTAAT
1 AATAATAAATAATTAAAT-AAAATTTAAAATAATTATTATTAAATATAATTTAAT
* * * **
78006830 AA-AATATATAATTTAATAAAATTGTTAATAA-ATATTCTTATATAAATTTACTAATAAAAT
1 AATAATAAATAATTAAATAAAA-T-TTAA-AATA-ATTATTAT-TAAA--TA-TAATTTAAT
* * *
78006890 CATAATATATAATACTAAAATATAATTTAAAATAATTATTATTAAATATAATTTAAT
1 AATAATAAATAAT--T-AAATAAAATTTAAAATAATTATTATTAAATATAATTTAAT
78006947 AATAATAAATAATTAAATAAAATT
1 AATAATAAATAATTAAATAAAATT
78006971 CTTATTCTTA
Statistics
Matches: 111, Mismatches: 17, Indels: 27
0.72 0.11 0.17
Matches are distributed among these distances:
53 2 0.02
54 24 0.22
55 8 0.07
56 8 0.07
57 21 0.19
58 2 0.02
59 2 0.02
60 12 0.11
61 19 0.17
62 5 0.05
63 2 0.02
64 6 0.05
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (54 bp):
AATAATAAATAATTAAATAAAATTTAAAATAATTATTATTAAATATAATTTAAT
Found at i:78008488 original size:49 final size:49
Alignment explanation
Indices: 78008416--78008519 Score: 145
Period size: 49 Copynumber: 2.1 Consensus size: 49
78008406 GAAAAAAAAC
* * ** * *
78008416 AAATTAAAATTAAGTTTAATATCATGAATCAAAAGGTGAACACTTTATA
1 AAATTAAAATTAAGTTCAATATCATGAATAAAAAACTCAACACTGTATA
*
78008465 AAATTAAAATTGAGTTCAATATCATGAATAAAAAACTCAACACTGTATA
1 AAATTAAAATTAAGTTCAATATCATGAATAAAAAACTCAACACTGTATA
78008514 AAATTA
1 AAATTA
78008520 TAACACATGA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.51, C:0.10, G:0.09, T:0.31
Consensus pattern (49 bp):
AAATTAAAATTAAGTTCAATATCATGAATAAAAAACTCAACACTGTATA
Found at i:78011797 original size:23 final size:22
Alignment explanation
Indices: 78011753--78011797 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
78011743 ATAAAAAATC
*
78011753 TATTTAAAAAAAGGTCAAATTT
1 TATTTAAAAAAAGGTAAAATTT
78011775 TATTTAAAATAAAGG-AAATATTT
1 TATTTAAAA-AAAGGTAAA-ATTT
78011798 CCACTTTGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.51, C:0.02, G:0.09, T:0.38
Consensus pattern (22 bp):
TATTTAAAAAAAGGTAAAATTT
Found at i:78013701 original size:21 final size:22
Alignment explanation
Indices: 78013648--78013701 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 22
78013638 CTTAATTAAG
78013648 TAAATTAAGATTAATTAAAACTA
1 TAAA-TAAGATTAATTAAAACTA
78013671 -AAA-AATGATTAATTAAAA-TA
1 TAAATAA-GATTAATTAAAACTA
78013691 TAAATAAGATT
1 TAAATAAGATT
78013702 TATGAAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
20 4 0.14
21 19 0.68
22 5 0.18
ACGTcount: A:0.59, C:0.02, G:0.06, T:0.33
Consensus pattern (22 bp):
TAAATAAGATTAATTAAAACTA
Found at i:78013894 original size:14 final size:14
Alignment explanation
Indices: 78013875--78013910 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
78013865 TAAAAGCAAG
*
78013875 TCATTTTTCAGAAA
1 TCATTTTCCAGAAA
78013889 TCATTTTCCAGAAA
1 TCATTTTCCAGAAA
*
78013903 TTATTTTC
1 TCATTTTC
78013911 AGTGAAACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.17, G:0.06, T:0.47
Consensus pattern (14 bp):
TCATTTTCCAGAAA
Found at i:78020242 original size:50 final size:49
Alignment explanation
Indices: 78020047--78020409 Score: 354
Period size: 50 Copynumber: 7.5 Consensus size: 49
78020037 TGTGTGCTAA
* *
78020047 TGTAAGA-CATGTCTGGGACAT-GCATCGGC-C-ATATTATGAGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGTCTCGATA-TATGAGAGTCAG
* * *
78020093 TGTAAGACTATGTCTGGGACATGGCATCGGTCTCGAGACT-TGAAAG-CTAG
1 TGTAAGACCATGTCTGGGACATGGCATC-GTCTCGATA-TATGAGAGTC-AG
* * * * * * *
78020143 TATAAGACCAAGTCTAGGACATGGAATCGGCTTG--ATAT--GTGTCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGTCTCGATATATGAGAGTCAG
*
78020188 TGTAAGACCATGTCTGGGACATGGCATCAGTCTCAATATATGAGAGTCAG
1 TGTAAGACCATGTCTGGGACATGGCATC-GTCTCGATATATGAGAGTCAG
* * *
78020238 TGTAAGACCATGTCTGAGACATGACATCGATCTCGATATATGAAAGTCAG
1 TGTAAGACCATGTCTGGGACATGGCATCG-TCTCGATATATGAGAGTCAG
* *
78020288 TGTAAGGCCATGTCTGGGACATGGCATCGACTTCGATATATGAGAGTCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGTC-TCGATATATGAGAGTCAG
* * * *
78020338 TGTAAGACCATGTCTGGGACATGGCATCGACTTCGATGTAT--GAGCCAA
1 TGTAAGACCATGTCTGGGACATGGCATCGTC-TCGATATATGAGAGTCAG
* *
78020386 TGTAAGACCATGTTTGGGATATGG
1 TGTAAGACCATGTCTGGGACATGG
78020410 TGTCGGCATC
Statistics
Matches: 265, Mismatches: 37, Indels: 28
0.80 0.11 0.08
Matches are distributed among these distances:
45 27 0.10
46 12 0.05
47 15 0.06
48 36 0.14
49 9 0.03
50 163 0.62
51 3 0.01
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.26
Consensus pattern (49 bp):
TGTAAGACCATGTCTGGGACATGGCATCGTCTCGATATATGAGAGTCAG
Found at i:78020251 original size:145 final size:143
Alignment explanation
Indices: 78020032--78020366 Score: 392
Period size: 145 Copynumber: 2.3 Consensus size: 143
78020022 AACATTTGGG
*
78020032 TGATATGTGTGCTAATGTAAGA-CATGTCTGGGACAT-GCATCGGCCATATTATGAGAGCCAGTG
1 TGATATGTGT-C-AGTGTAAGACCATGTCTGGGACATGGCATCGGCCATATTATGAGAGCCAGTG
* * * *
78020095 TAAGACTATGTCTGGGACATGGCATCGGTCTCGAGACT-TGAAAG-CTAGTATAAGACCAAGTCT
64 TAAGACCATGTCTGAGACATGACATCGATCTCGAGA-TATGAAAGTC-AGTATAAGACCAAGTCT
*
78020158 AGGACATGGAATCGGCT
127 AGGACATGGAATCGACT
* *
78020175 TGATATGTGTCAGTGTAAGACCATGTCTGGGACATGGCATCAGTCTCA-ATATATGAGAGTCAGT
1 TGATATGTGTCAGTGTAAGACCATGTCTGGGACATGGCATC-GGC-CATAT-TATGAGAGCCAGT
* * * * *
78020239 GTAAGACCATGTCTGAGACATGACATCGATCTCGATATATGAAAGTCAGTGTAAGGCCATGTCTG
63 GTAAGACCATGTCTGAGACATGACATCGATCTCGAGATATGAAAGTCAGTATAAGACCAAGTCTA
*
78020304 GGACATGGCATCGACT
128 GGACATGGAATCGACT
*
78020320 TCGATATATGAGAGTCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 T-G--ATAT--GTGTCAGTGTAAGACCATGTCTGGGACATGGCATCG
78020367 ACTTCGATGT
Statistics
Matches: 165, Mismatches: 15, Indels: 18
0.83 0.08 0.09
Matches are distributed among these distances:
141 8 0.05
142 15 0.09
143 15 0.09
144 5 0.03
145 81 0.49
146 2 0.01
148 4 0.02
149 1 0.01
150 34 0.21
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (143 bp):
TGATATGTGTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATATTATGAGAGCCAGTGTA
AGACCATGTCTGAGACATGACATCGATCTCGAGATATGAAAGTCAGTATAAGACCAAGTCTAGGA
CATGGAATCGACT
Found at i:78022844 original size:19 final size:19
Alignment explanation
Indices: 78022833--78022870 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
78022823 TTTCTTTTGC
*
78022833 TATTTTAATTTTGTAGTGA
1 TATTTTAATTTTCTAGTGA
*
78022852 TATTTTAATTTTGTAGTGA
1 TATTTTAATTTTCTAGTGA
78022871 AAAGCTTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.16, T:0.58
Consensus pattern (19 bp):
TATTTTAATTTTCTAGTGA
Found at i:78023539 original size:23 final size:23
Alignment explanation
Indices: 78023493--78023539 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
78023483 TTTACTTTAG
*
78023493 TTTTCTTAGGTTTTCTCTTCTTC
1 TTTTCTTAGGTTTTCTATTCTTC
*
78023516 TTTTC-TAGGTTTTCATATTTTTC
1 TTTTCTTAGGTTTTC-TATTCTTC
78023539 T
1 T
78023540 ATCTTCTTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.09, C:0.17, G:0.09, T:0.66
Consensus pattern (23 bp):
TTTTCTTAGGTTTTCTATTCTTC
Found at i:78023702 original size:21 final size:21
Alignment explanation
Indices: 78023676--78023716 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
78023666 CTTGTTTTGA
*
78023676 CATTTTC-GTCTTTGTTTAATG
1 CATTTTCAGT-TTTCTTTAATG
78023697 CATTTTCAGTTTTCTTTAAT
1 CATTTTCAGTTTTCTTTAAT
78023717 TTTGGTTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.17, C:0.15, G:0.10, T:0.59
Consensus pattern (21 bp):
CATTTTCAGTTTTCTTTAATG
Found at i:78027073 original size:13 final size:13
Alignment explanation
Indices: 78027057--78027082 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
78027047 TCAATGGCAG
78027057 TGTCAAATGTTCT
1 TGTCAAATGTTCT
78027070 TGTCAAATGTTCT
1 TGTCAAATGTTCT
78027083 AAGGCAAACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.46
Consensus pattern (13 bp):
TGTCAAATGTTCT
Found at i:78028822 original size:19 final size:18
Alignment explanation
Indices: 78028780--78028825 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
78028770 ATATAATTGT
*
78028780 AATAATTTTTAATTATTT
1 AATAATTTTTAATTATTA
* *
78028798 ATTAATTTTGTAATTGTTA
1 AATAATTTT-TAATTATTA
78028817 AATAATTTT
1 AATAATTTT
78028826 AAAAACTTCT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (18 bp):
AATAATTTTTAATTATTA
Found at i:78029007 original size:21 final size:21
Alignment explanation
Indices: 78028940--78028999 Score: 93
Period size: 21 Copynumber: 2.9 Consensus size: 21
78028930 CGCTGTTTCT
*
78028940 AATCTCACTGCTACAGTATCC
1 AATCTTACTGCTACAGTATCC
* *
78028961 AATCTTATTGCTATAGTATCC
1 AATCTTACTGCTACAGTATCC
78028982 AATCTTACTGCTACAGTA
1 AATCTTACTGCTACAGTA
78029000 ATTAATCTCA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.35
Consensus pattern (21 bp):
AATCTTACTGCTACAGTATCC
Found at i:78029943 original size:142 final size:142
Alignment explanation
Indices: 78029687--78029975 Score: 578
Period size: 142 Copynumber: 2.0 Consensus size: 142
78029677 AAAATTGAAC
78029687 ATTAAAATTAAATTTAAGTACATAAGTGAGATAAAAAAAATCAAGTATCAAATAGAAAAAATTCA
1 ATTAAAATTAAATTTAAGTACATAAGTGAGATAAAAAAAATCAAGTATCAAATAGAAAAAATTCA
78029752 GATGCCAAAGTGAATGTTAAAACCAAATTTAAAAGAAACTTAAATGTCAAACACAACATTAGAAT
66 GATGCCAAAGTGAATGTTAAAACCAAATTTAAAAGAAACTTAAATGTCAAACACAACATTAGAAT
78029817 CAAACTCTATAT
131 CAAACTCTATAT
78029829 ATTAAAATTAAATTTAAGTACATAAGTGAGATAAAAAAAATCAAGTATCAAATAGAAAAAATTCA
1 ATTAAAATTAAATTTAAGTACATAAGTGAGATAAAAAAAATCAAGTATCAAATAGAAAAAATTCA
78029894 GATGCCAAAGTGAATGTTAAAACCAAATTTAAAAGAAACTTAAATGTCAAACACAACATTAGAAT
66 GATGCCAAAGTGAATGTTAAAACCAAATTTAAAAGAAACTTAAATGTCAAACACAACATTAGAAT
78029959 CAAACTCTATAT
131 CAAACTCTATAT
78029971 ATTAA
1 ATTAA
78029976 CCTTTTTAAA
Statistics
Matches: 147, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
142 147 1.00
ACGTcount: A:0.54, C:0.11, G:0.10, T:0.26
Consensus pattern (142 bp):
ATTAAAATTAAATTTAAGTACATAAGTGAGATAAAAAAAATCAAGTATCAAATAGAAAAAATTCA
GATGCCAAAGTGAATGTTAAAACCAAATTTAAAAGAAACTTAAATGTCAAACACAACATTAGAAT
CAAACTCTATAT
Found at i:78038708 original size:79 final size:79
Alignment explanation
Indices: 78038577--78038746 Score: 331
Period size: 79 Copynumber: 2.1 Consensus size: 79
78038567 TCTATGTGTT
78038577 ATTCTGAATTTACCAGCTTTACAATTTGTATATCTAGCATTATCCAAGTTAAAGTTGTCTTCAGA
1 ATTCTGAATTTACCAGCTTTACAATTTGTATATCTAGCATTATCCAAGTTAAAGTTGTCTTCAGA
78038642 GATACCCGTGCATG
66 GATACCCGTGCATG
78038656 ATTCTGAATTTACCAGCTTTACAATTTGTATATCTAGCATTATCCAAGTTAAAGTTGTCTTCAGA
1 ATTCTGAATTTACCAGCTTTACAATTTGTATATCTAGCATTATCCAAGTTAAAGTTGTCTTCAGA
78038721 GATACCCGTGCATG
66 GATACCCGTGCATG
78038735 ATTCTGATATTT
1 ATTCTGA-ATTT
78038747 CTATGCTGAT
Statistics
Matches: 90, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
79 86 0.96
80 4 0.04
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (79 bp):
ATTCTGAATTTACCAGCTTTACAATTTGTATATCTAGCATTATCCAAGTTAAAGTTGTCTTCAGA
GATACCCGTGCATG
Found at i:78052972 original size:13 final size:13
Alignment explanation
Indices: 78052954--78052985 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
78052944 AGCACACGGG
78052954 CGTGTGCATTGGC
1 CGTGTGCATTGGC
78052967 CGTGTGCATTGGC
1 CGTGTGCATTGGC
78052980 CGTGTG
1 CGTGTG
78052986 ATATTGTGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.06, C:0.22, G:0.41, T:0.31
Consensus pattern (13 bp):
CGTGTGCATTGGC
Found at i:78059765 original size:26 final size:26
Alignment explanation
Indices: 78059744--78059793 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
78059734 AACAGGAAGT
*
78059744 TCACAAAGAACTTTTAATCAGGAAAC
1 TCACAAAGAACCTTTAATCAGGAAAC
* *
78059770 TCACGAAGAGCCTTTAATCAGGAA
1 TCACAAAGAACCTTTAATCAGGAA
78059794 CTTCGGATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.42, C:0.20, G:0.16, T:0.22
Consensus pattern (26 bp):
TCACAAAGAACCTTTAATCAGGAAAC
Found at i:78063385 original size:44 final size:44
Alignment explanation
Indices: 78063322--78063409 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
78063312 TGATAGAGAG
78063322 AGTGTAAATTGCATATTTGCAATTCAGAGCTTTAACCAGTTGAA
1 AGTGTAAATTGCATATTTGCAATTCAGAGCTTTAACCAGTTGAA
78063366 AGTGTAAATTGCATATTTGCAATTCAGAGCTTTAACCAGTTGAA
1 AGTGTAAATTGCATATTTGCAATTCAGAGCTTTAACCAGTTGAA
78063410 GTAGAAAATA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (44 bp):
AGTGTAAATTGCATATTTGCAATTCAGAGCTTTAACCAGTTGAA
Found at i:78064870 original size:42 final size:42
Alignment explanation
Indices: 78064824--78064911 Score: 158
Period size: 42 Copynumber: 2.1 Consensus size: 42
78064814 CACATGCCCA
*
78064824 TGTGCTAGGCCGTGTGTCACACACGGCTGAGACACACACCCG
1 TGTGCTAGGCCATGTGTCACACACGGCTGAGACACACACCCG
*
78064866 TGTGCTAGGCCATGTGTCACACACGGCTGAGACATACACCCG
1 TGTGCTAGGCCATGTGTCACACACGGCTGAGACACACACCCG
78064908 TGTG
1 TGTG
78064912 TCTGCTCGTG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.22, C:0.31, G:0.28, T:0.19
Consensus pattern (42 bp):
TGTGCTAGGCCATGTGTCACACACGGCTGAGACACACACCCG
Found at i:78066397 original size:26 final size:26
Alignment explanation
Indices: 78066376--78066429 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
78066366 AACAGGAAGT
*
78066376 TCACAAAGAACTTTTAATCAGGAAAC
1 TCACAAAGAACCTTTAATCAGGAAAC
* *
78066402 TCACCAAGAGCCTTTAATCAGG-AAC
1 TCACAAAGAACCTTTAATCAGGAAAC
78066427 TCA
1 TCA
78066430 GGATAGCGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 6 0.24
26 19 0.76
ACGTcount: A:0.41, C:0.24, G:0.13, T:0.22
Consensus pattern (26 bp):
TCACAAAGAACCTTTAATCAGGAAAC
Found at i:78070007 original size:48 final size:48
Alignment explanation
Indices: 78069943--78070231 Score: 470
Period size: 48 Copynumber: 6.0 Consensus size: 48
78069933 CAAGATAAAT
* * * *
78069943 ATATATATGTGTGGTAAAGCTGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
78069991 ATATGTATATGTGGTAAAGCCGAATGGCTAATCTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
78070039 ATATGTATATGTGGTAAAGCGGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
78070087 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
78070135 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
78070183 ATATGTATATTTGGTAAAGCCGAATGACTAATGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
78070231 A
1 A
78070232 AGTGTGTATG
Statistics
Matches: 226, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 226 1.00
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:78070423 original size:37 final size:37
Alignment explanation
Indices: 78070373--78070475 Score: 188
Period size: 37 Copynumber: 2.8 Consensus size: 37
78070363 GGAAATATAT
78070373 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
78070410 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
78070447 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
78070476 GGACTATTCG
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:78073659 original size:22 final size:22
Alignment explanation
Indices: 78073613--78073675 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 22
78073603 AGTAGGCACC
* * * *
78073613 GAAGTGCAAAACAGTAGGCACT
1 GAAGTGCAGAACAATAAGCATT
* *
78073635 GAAGTGTAGAACGATAAGCATT
1 GAAGTGCAGAACAATAAGCATT
78073657 GAAGTGCAGAACAATAAGC
1 GAAGTGCAGAACAATAAGC
78073676 GCTAAAGCGC
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.43, C:0.14, G:0.27, T:0.16
Consensus pattern (22 bp):
GAAGTGCAGAACAATAAGCATT
Found at i:78078276 original size:38 final size:38
Alignment explanation
Indices: 78078231--78078374 Score: 184
Period size: 38 Copynumber: 3.8 Consensus size: 38
78078221 GGCTTAAAGA
78078231 CCCGCAGGCTATATGCTGGTATTATATCTGGGTTAAAT
1 CCCGCAGGCTATATGCTGGTATTATATCTGGGTTAAAT
** * *
78078269 CCCGCAGGCT-TCGCGCTAGTAATATATCTGGGTTAAAT
1 CCCGCAGGCTAT-ATGCTGGTATTATATCTGGGTTAAAT
* *
78078307 CCCGCAGGCTTTATGCTGGTATTATATCCGGGTTAAAT
1 CCCGCAGGCTATATGCTGGTATTATATCTGGGTTAAAT
* *
78078345 CCCGCAGGCCTA-GTGTTGGTATTATATCTG
1 CCCGCAGG-CTATATGCTGGTATTATATCTG
78078375 AGCTTAAAGT
Statistics
Matches: 90, Mismatches: 13, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
37 1 0.01
38 86 0.96
39 3 0.03
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.33
Consensus pattern (38 bp):
CCCGCAGGCTATATGCTGGTATTATATCTGGGTTAAAT
Found at i:78082224 original size:34 final size:34
Alignment explanation
Indices: 78082186--78082267 Score: 164
Period size: 34 Copynumber: 2.4 Consensus size: 34
78082176 TTCTCAATGC
78082186 TTTCTCAAACAGCTTCTTCAATGCTTTTAATGTT
1 TTTCTCAAACAGCTTCTTCAATGCTTTTAATGTT
78082220 TTTCTCAAACAGCTTCTTCAATGCTTTTAATGTT
1 TTTCTCAAACAGCTTCTTCAATGCTTTTAATGTT
78082254 TTTCTCAAACAGCT
1 TTTCTCAAACAGCT
78082268 CCTCCTTTCA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 48 1.00
ACGTcount: A:0.24, C:0.22, G:0.09, T:0.45
Consensus pattern (34 bp):
TTTCTCAAACAGCTTCTTCAATGCTTTTAATGTT
Found at i:78085625 original size:22 final size:22
Alignment explanation
Indices: 78085597--78085672 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
78085587 ACATTTATAT
78085597 ATGTGATAAGGCTGAATGGCCA
1 ATGTGATAAGGCTGAATGGCCA
*
78085619 ATGTGATGAATG-TGAACAT-G-CA
1 ATGTGAT-AAGGCTG-A-ATGGCCA
*
78085641 TATGTGTGATAAGGCCGAATGGCCA
1 -A--TGTGATAAGGCTGAATGGCCA
78085666 ATGTGAT
1 ATGTGAT
78085673 GAACGTGGAA
Statistics
Matches: 42, Mismatches: 3, Indels: 18
0.67 0.05 0.29
Matches are distributed among these distances:
22 17 0.40
23 8 0.19
24 8 0.19
25 9 0.21
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.26
Consensus pattern (22 bp):
ATGTGATAAGGCTGAATGGCCA
Found at i:78085708 original size:94 final size:95
Alignment explanation
Indices: 78085462--78085709 Score: 335
Period size: 94 Copynumber: 2.6 Consensus size: 95
78085452 ATATATGAGC
* * *
78085462 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCAT-T-TGTGTGCTAAGGCCGAATGGCCA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTATATATGTG-GATAAGGCCGAATGGCCA
* *
78085525 ATGTGATGAATGTGAACGTGCATTTGTGTGA
65 ATGTGATGAATGTGAACATGCATATGTGTGA
* * *
78085556 TAAGACCGAATGGCCAATGTGATGAATGTGAACATTTATATATGT-GATAAGGCTGAATGGCCAA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTATATATGTGGATAAGGCCGAATGGCCAA
78085620 TGTGATGAATGTGAACATGCATATGTGTGA
66 TGTGATGAATGTGAACATGCATATGTGTGA
* * **
78085650 TAAGGCCGAATGGCCAATGTGATGAACGTGGAA-GTGTATATATGTGGGGAA-GCCGAATGG
1 TAAGGCCGAATGGCCAATGTGATGAATGT-GAACATGTATATATGTGGATAAGGCCGAATGG
78085710 TTAATGCGAA
Statistics
Matches: 135, Mismatches: 15, Indels: 8
0.85 0.09 0.05
Matches are distributed among these distances:
94 125 0.93
95 7 0.05
96 3 0.02
ACGTcount: A:0.31, C:0.12, G:0.31, T:0.27
Consensus pattern (95 bp):
TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTATATATGTGGATAAGGCCGAATGGCCAA
TGTGATGAATGTGAACATGCATATGTGTGA
Found at i:78085709 original size:47 final size:47
Alignment explanation
Indices: 78085431--78085675 Score: 328
Period size: 47 Copynumber: 5.2 Consensus size: 47
78085421 TTAGGATTTT
* ** * * * *
78085431 ATGTGATGGATGTGAATGTGTATATATGAGCTAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
78085478 ATGTGATGAATGTGAACATGCATTTGTGTGCTAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
78085525 ATGTGATGAATGTGAACGTGCATTTGTGTGATAAGACCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
** *
78085572 ATGTGATGAATGTGAACATTTATATATGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
78085619 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
78085666 ATGTGATGAA
1 ATGTGATGAA
78085676 CGTGGAAGTG
Statistics
Matches: 176, Mismatches: 22, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 176 1.00
ACGTcount: A:0.31, C:0.11, G:0.29, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:78085749 original size:46 final size:46
Alignment explanation
Indices: 78085689--78085779 Score: 112
Period size: 46 Copynumber: 2.0 Consensus size: 46
78085679 GGAAGTGTAT
* * * *
78085689 ATATGTGGGGAAGCCGAATGGTTAATGCGA-AATGTGTATGAGATGG
1 ATATGTGGGAAAGCCAAATGGCTAATGCGAGAA-ATGTATGAGATGG
* *
78085735 ATATGTGGTAAAGCCAAATGGCTAATGTGAGAAATGTATGAGATG
1 ATATGTGGGAAAGCCAAATGGCTAATGCGAGAAATGTATGAGATG
78085780 TGTATATATA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
46 36 0.95
47 2 0.05
ACGTcount: A:0.34, C:0.07, G:0.33, T:0.26
Consensus pattern (46 bp):
ATATGTGGGAAAGCCAAATGGCTAATGCGAGAAATGTATGAGATGG
Found at i:78095194 original size:40 final size:40
Alignment explanation
Indices: 78095124--78095221 Score: 137
Period size: 40 Copynumber: 2.5 Consensus size: 40
78095114 AAACCAAGTA
* * *
78095124 CCTTCGGGATTTAG-CCGGATATAGCTACTCGCTCAACTG
1 CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAAATG
*
78095163 CCTTCAGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGCT-ACTCGCACAAATG
78095203 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
78095222 TTATCATCCG
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
39 13 0.25
40 39 0.75
ACGTcount: A:0.22, C:0.30, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAAATG
Found at i:78097827 original size:27 final size:26
Alignment explanation
Indices: 78097775--78097834 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
78097765 ACATATATAT
*
78097775 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
78097801 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
78097828 ATATCTG
1 ATATCTG
78097835 GTAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:78101902 original size:40 final size:40
Alignment explanation
Indices: 78101855--78102019 Score: 226
Period size: 40 Copynumber: 4.1 Consensus size: 40
78101845 CGGGCTTTAA
* * *
78101855 CCGGATATAGCCACTCGCTCAAATGCCTTCGGGTCTTAGC
1 CCGGATATAGTCACTCGCACAAATGCCTTCGGGACTTAGC
*
78101895 CCGGATATAGT-AGTTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTCA-CTCGCACAAATGCCTTCGGGACTTAGC
* *
78101935 CCGGATATAGTAACTCGCACAAATGCCTTCAGGACTTAGC
1 CCGGATATAGTCACTCGCACAAATGCCTTCGGGACTTAGC
* *
78101975 CC-GAAATTAGTCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTCACTCGCACAAATGCCTTCGGGACTTAGC
78102015 CCGGA
1 CCGGA
78102020 ATTATCATCC
Statistics
Matches: 111, Mismatches: 10, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
39 4 0.04
40 104 0.94
41 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAGTCACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:78106921 original size:17 final size:17
Alignment explanation
Indices: 78106899--78106934 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
78106889 AGGTTAGTGG
78106899 ACCATTGGAAGGCCCAA
1 ACCATTGGAAGGCCCAA
78106916 ACCATTGGAAGGCCCAA
1 ACCATTGGAAGGCCCAA
78106933 AC
1 AC
78106935 TTAAGTTAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.36, C:0.31, G:0.22, T:0.11
Consensus pattern (17 bp):
ACCATTGGAAGGCCCAA
Found at i:78107790 original size:8 final size:8
Alignment explanation
Indices: 78107777--78107804 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
78107767 GCCGAAAACA
78107777 GGCCAATG
1 GGCCAATG
78107785 GGCCAATG
1 GGCCAATG
78107793 GGCCAATG
1 GGCCAATG
78107801 GGCC
1 GGCC
78107805 CACTTTGGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.21, C:0.29, G:0.39, T:0.11
Consensus pattern (8 bp):
GGCCAATG
Found at i:78108189 original size:27 final size:26
Alignment explanation
Indices: 78108155--78108210 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
78108145 ATATATATAC
*
78108155 CTGTTCTGGTGGCCTAGCCACAATAT
1 CTGTTCTGGTGACCTAGCCACAATAT
* * *
78108181 CTGTATCTGGTGACTTCGTCACAATAT
1 CTGT-TCTGGTGACCTAGCCACAATAT
78108208 CTG
1 CTG
78108211 GCAGCCTCGC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 4 0.16
27 21 0.84
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.34
Consensus pattern (26 bp):
CTGTTCTGGTGACCTAGCCACAATAT
Found at i:78110567 original size:14 final size:14
Alignment explanation
Indices: 78110548--78110577 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
78110538 ACCCCTTCAT
*
78110548 TCCCTCATTCATCA
1 TCCCTCATCCATCA
78110562 TCCCTCATCCATCA
1 TCCCTCATCCATCA
78110576 TC
1 TC
78110578 ATCCTATCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.20, C:0.47, G:0.00, T:0.33
Consensus pattern (14 bp):
TCCCTCATCCATCA
Done.