Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr5
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: 39371879
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2227820 characters in sequence are not A, C, G, or T
File 63 of 103
Found at i:23798458 original size:21 final size:21
Alignment explanation
Indices: 23798433--23798475 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
23798423 ATTTCTCTAC
*
23798433 AAGAA-AAATCGATTCTATGAA
1 AAGAAGAAATCAATTCT-TGAA
*
23798454 AAGAAGATATCAATTCTTGAA
1 AAGAAGAAATCAATTCTTGAA
23798475 A
1 A
23798476 GACAAAAAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.51, C:0.09, G:0.14, T:0.26
Consensus pattern (21 bp):
AAGAAGAAATCAATTCTTGAA
Found at i:23803047 original size:13 final size:13
Alignment explanation
Indices: 23803029--23803053 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23803019 TTTCAGAAAA
23803029 TTTATAAAATCAT
1 TTTATAAAATCAT
23803042 TTTATAAAATCA
1 TTTATAAAATCA
23803054 CAATTTCTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:23807759 original size:15 final size:15
Alignment explanation
Indices: 23807739--23807784 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
23807729 TTCTTAAAAC
23807739 AACTTTAAAACCAAA
1 AACTTTAAAACCAAA
23807754 AACTTTAAAATCC-AA
1 AACTTTAAAA-CCAAA
* *
23807769 AGCTTTAAAATCAAA
1 AACTTTAAAACCAAA
23807784 A
1 A
23807785 TCTCTGATCT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 1 0.04
15 24 0.89
16 2 0.07
ACGTcount: A:0.57, C:0.17, G:0.02, T:0.24
Consensus pattern (15 bp):
AACTTTAAAACCAAA
Found at i:23808991 original size:13 final size:13
Alignment explanation
Indices: 23808973--23808997 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23808963 TTTCAGAAAA
23808973 TTTATAAAATCAT
1 TTTATAAAATCAT
23808986 TTTATAAAATCA
1 TTTATAAAATCA
23808998 CAATTTCTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:23814640 original size:16 final size:17
Alignment explanation
Indices: 23814600--23814640 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
23814590 TTTCAAAACT
23814600 TTTATTTTTTATTTTCA
1 TTTATTTTTTATTTTCA
* *
23814617 GTCA-TTTTTATTTT-A
1 TTTATTTTTTATTTTCA
23814632 TTTATTTTT
1 TTTATTTTT
23814641 CTACATTAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 3
0.73 0.15 0.12
Matches are distributed among these distances:
15 3 0.16
16 14 0.74
17 2 0.11
ACGTcount: A:0.17, C:0.05, G:0.02, T:0.76
Consensus pattern (17 bp):
TTTATTTTTTATTTTCA
Found at i:23828013 original size:12 final size:12
Alignment explanation
Indices: 23827996--23828033 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
23827986 ATGTGTGTGT
23827996 GAGAGAGAGACA
1 GAGAGAGAGACA
*
23828008 GAGAGACAGACA
1 GAGAGAGAGACA
*
23828020 GAGACAGAGACA
1 GAGAGAGAGACA
23828032 GA
1 GA
23828034 AAGGGAGGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.50, C:0.13, G:0.37, T:0.00
Consensus pattern (12 bp):
GAGAGAGAGACA
Found at i:23829482 original size:38 final size:38
Alignment explanation
Indices: 23829431--23829503 Score: 128
Period size: 38 Copynumber: 1.9 Consensus size: 38
23829421 GCGAAGAAGT
*
23829431 TGATGCACATAAGACTGAACCCCAGCCCCCACCAAAGC
1 TGATGCACATAAGACTGAACCCAAGCCCCCACCAAAGC
*
23829469 TGATGCATATAAGACTGAACCCAAGCCCCCACCAA
1 TGATGCACATAAGACTGAACCCAAGCCCCCACCAA
23829504 CTCCCTTTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.36, C:0.37, G:0.15, T:0.12
Consensus pattern (38 bp):
TGATGCACATAAGACTGAACCCAAGCCCCCACCAAAGC
Found at i:23840202 original size:14 final size:16
Alignment explanation
Indices: 23840171--23840211 Score: 68
Period size: 15 Copynumber: 2.7 Consensus size: 16
23840161 GTTGGAATTC
23840171 AAAAATAAAAATCTAG
1 AAAAATAAAAATCTAG
23840187 -AAAATAAAAATC-AG
1 AAAAATAAAAATCTAG
23840201 AAAAATAAAAA
1 AAAAATAAAAA
23840212 AATTCGAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 2 0.08
15 22 0.92
ACGTcount: A:0.76, C:0.05, G:0.05, T:0.15
Consensus pattern (16 bp):
AAAAATAAAAATCTAG
Found at i:23843388 original size:2 final size:2
Alignment explanation
Indices: 23843381--23843454 Score: 73
Period size: 2 Copynumber: 37.5 Consensus size: 2
23843371 TGTCTTGCCC
* * *
23843381 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C- CT CG AT ANT GC- CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT -CT -CT CT
*
23843423 CC CT C- CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
23843455 CTCGATATCC
Statistics
Matches: 60, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
1 3 0.05
2 56 0.93
3 1 0.02
ACGTcount: A:0.03, C:0.50, G:0.03, T:0.43
Consensus pattern (2 bp):
CT
Found at i:23847680 original size:29 final size:31
Alignment explanation
Indices: 23847611--23847697 Score: 103
Period size: 29 Copynumber: 2.9 Consensus size: 31
23847601 CTATTTAGAA
23847611 AATTTAAATAAA-TTTTA-ATTTTATTATCGT
1 AATTTAAATAAATTTTTATATTTTATTATC-T
* *
23847641 -ATTCAATTAAATTTTTATATTTTATT-T-T
1 AATTTAAATAAATTTTTATATTTTATTATCT
*
23847669 AATTTAAATAAATTTTTATATTTAATTAT
1 AATTTAAATAAATTTTTATATTTTATTAT
23847698 AGACTAACTG
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
28 1 0.02
29 32 0.67
30 7 0.15
31 8 0.17
ACGTcount: A:0.39, C:0.02, G:0.01, T:0.57
Consensus pattern (31 bp):
AATTTAAATAAATTTTTATATTTTATTATCT
Found at i:23856812 original size:59 final size:59
Alignment explanation
Indices: 23856729--23856844 Score: 153
Period size: 59 Copynumber: 2.0 Consensus size: 59
23856719 AAAATTTTTT
* * *
23856729 ATAAATTTATCCATTCCCTAAAGTGAATG-CGATATCATTTAATAATTATGGTCATAGTC
1 ATAAATCTATCCATTCCCTAAAGTGAATGTC-ACATCATTTAATAATTATGATCATAGTC
* * * *
23856788 ATAAATCTATCTATTTCCTGAAGTGAATGTCACATTATTTAATAATTATGATCATAG
1 ATAAATCTATCCATTCCCTAAAGTGAATGTCACATCATTTAATAATTATGATCATAG
23856845 ATATCGAAGA
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
59 48 0.98
60 1 0.02
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (59 bp):
ATAAATCTATCCATTCCCTAAAGTGAATGTCACATCATTTAATAATTATGATCATAGTC
Found at i:23856927 original size:25 final size:25
Alignment explanation
Indices: 23856898--23856996 Score: 83
Period size: 25 Copynumber: 4.0 Consensus size: 25
23856888 AATTTCAATT
23856898 ATAATTTTACCACCAGAAGTGGATA
1 ATAATTTTACCACCAGAAGTGGATA
* * * * ** *
23856923 ATAATTTTACTATCATAATTTAAGA
1 ATAATTTTACCACCAGAAGTGGATA
* ** *
23856948 ATAATTTTGCCATGAGAAGTGGATGG
1 ATAATTTTACCACCAGAAGTGGAT-A
23856974 ATAA-TTTACCACCAGAAGTGGAT
1 ATAATTTTACCACCAGAAGTGGAT
23856997 GAATGTCGAA
Statistics
Matches: 54, Mismatches: 19, Indels: 2
0.72 0.25 0.03
Matches are distributed among these distances:
25 50 0.93
26 4 0.07
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.32
Consensus pattern (25 bp):
ATAATTTTACCACCAGAAGTGGATA
Found at i:23857889 original size:20 final size:20
Alignment explanation
Indices: 23857848--23857891 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
23857838 TATTATTTTC
*
23857848 TATTAAGTCTTAAAGAAGTT
1 TATTAAGTCTTAAAGAAATT
*
23857868 TATTAAGTTTTAAA-AATATT
1 TATTAAGTCTTAAAGAA-ATT
23857888 TATT
1 TATT
23857892 TGAATAGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 2 0.10
20 19 0.90
ACGTcount: A:0.41, C:0.02, G:0.09, T:0.48
Consensus pattern (20 bp):
TATTAAGTCTTAAAGAAATT
Found at i:23861485 original size:23 final size:24
Alignment explanation
Indices: 23861448--23861502 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
23861438 CGCATGTGAA
23861448 AAAAAAATTGCTATATACCATGTTG
1 AAAAAAATT-CTATATACCATGTTG
***
23861473 AAAAAAATT-TATATGTTATGTTG
1 AAAAAAATTCTATATACCATGTTG
23861496 AAAAAAA
1 AAAAAAA
23861503 ATTTGTTTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 18 0.67
25 9 0.33
ACGTcount: A:0.51, C:0.05, G:0.11, T:0.33
Consensus pattern (24 bp):
AAAAAAATTCTATATACCATGTTG
Found at i:23861595 original size:54 final size:52
Alignment explanation
Indices: 23861537--23861651 Score: 140
Period size: 54 Copynumber: 2.2 Consensus size: 52
23861527 AATTTTGTTG
** * *
23861537 TTACATGTAATGTTCAAAAAAATTTTACTACATGTTATGTTAAAAAAATTATTA
1 TTACATGT-ATGTTCAAAAAAATTTTACTACACATCAT-TTAAAAAAAATATTA
** *
23861591 TTACACACTATGTTGAAAAAAATTTTACTACACATCATTTAAAAAAAATATTA
1 TTACA-TGTATGTTCAAAAAAATTTTACTACACATCATTTAAAAAAAATATTA
23861644 TTACATGT
1 TTACATGT
23861652 TATACCATTT
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
52 1 0.02
53 19 0.37
54 30 0.59
55 1 0.02
ACGTcount: A:0.45, C:0.10, G:0.06, T:0.38
Consensus pattern (52 bp):
TTACATGTATGTTCAAAAAAATTTTACTACACATCATTTAAAAAAAATATTA
Found at i:23861623 original size:27 final size:26
Alignment explanation
Indices: 23861546--23861637 Score: 98
Period size: 27 Copynumber: 3.5 Consensus size: 26
23861536 GTTACATGTA
***
23861546 ATGTTCAAAAAAATTTTACTACATGTT
1 ATGTT-AAAAAAATTTTACTACACACT
*
23861573 ATGTTAAAAAAATTATTATTACACACT
1 ATGTTAAAAAAATT-TTACTACACACT
23861600 ATGTTGAAAAAAATTTTACTACACA-T
1 ATGTT-AAAAAAATTTTACTACACACT
23861626 CAT-TTAAAAAAA
1 -ATGTTAAAAAAA
23861638 ATATTATTAC
Statistics
Matches: 57, Mismatches: 5, Indels: 8
0.81 0.07 0.11
Matches are distributed among these distances:
25 7 0.12
26 12 0.21
27 29 0.51
28 9 0.16
ACGTcount: A:0.48, C:0.11, G:0.05, T:0.36
Consensus pattern (26 bp):
ATGTTAAAAAAATTTTACTACACACT
Found at i:23861643 original size:53 final size:54
Alignment explanation
Indices: 23861546--23861648 Score: 154
Period size: 54 Copynumber: 1.9 Consensus size: 54
23861536 GTTACATGTA
** * *
23861546 ATGTTCAAAAAAATTTTACTACATGTTATGTTAAAAAAATTATTATTACACACT
1 ATGTTCAAAAAAATTTTACTACACATCATGTTAAAAAAAATATTATTACACACT
*
23861600 ATGTTGAAAAAAATTTTACTACACATCAT-TTAAAAAAAATATTATTACA
1 ATGTTCAAAAAAATTTTACTACACATCATGTTAAAAAAAATATTATTACA
23861649 TGTTATACCA
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
53 19 0.43
54 25 0.57
ACGTcount: A:0.48, C:0.11, G:0.05, T:0.37
Consensus pattern (54 bp):
ATGTTCAAAAAAATTTTACTACACATCATGTTAAAAAAAATATTATTACACACT
Found at i:23864365 original size:13 final size:14
Alignment explanation
Indices: 23864339--23864370 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
23864329 CCAATAAATT
23864339 TAAAA-ATTTAAAA
1 TAAAATATTTAAAA
23864352 TAAAATATTT-AAA
1 TAAAATATTTAAAA
23864365 TAAAAT
1 TAAAAT
23864371 TTTTTATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 14 0.78
14 4 0.22
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
TAAAATATTTAAAA
Found at i:23864959 original size:17 final size:18
Alignment explanation
Indices: 23864924--23864977 Score: 60
Period size: 18 Copynumber: 3.0 Consensus size: 18
23864914 AGAGAATAAA
23864924 TAATTTTATTA-ATTATTTT
1 TAATTTT-TTATA-TATTTT
23864943 T-ATTTTTTATATATTTTT
1 TAATTTTTTATATA-TTTT
23864961 TAATTTTTTATA-ATTTT
1 TAATTTTTTATATATTTT
23864978 AATATAATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
17 9 0.28
18 12 0.38
19 11 0.34
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (18 bp):
TAATTTTTTATATATTTT
Found at i:23864961 original size:19 final size:18
Alignment explanation
Indices: 23864927--23864977 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 18
23864917 GAATAAATAA
*
23864927 TTTTATTAATTATTTTTATT
1 TTTTA-TAATT-TTTTAATT
23864947 TTTTATATATTTTTTAATT
1 TTTTATA-ATTTTTTAATT
23864966 TTTTATAATTTT
1 TTTTATAATTTT
23864978 AATATAATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 5 0.17
19 16 0.55
20 8 0.28
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTTATAATTTTTTAATT
Found at i:23864964 original size:28 final size:29
Alignment explanation
Indices: 23864922--23864983 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 29
23864912 TGAGAGAATA
*
23864922 AATA-ATTTTATTAATTATTTT-TATTTTT
1 AATATATTTTATTAATT-TTTTATAATTTT
*
23864950 TATATATTTT-TTAATTTTTTATAATTTT
1 AATATATTTTATTAATTTTTTATAATTTT
23864978 AATATA
1 AATATA
23864984 ATTAATTGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
27 4 0.14
28 20 0.69
29 5 0.17
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (29 bp):
AATATATTTTATTAATTTTTTATAATTTT
Found at i:23865399 original size:16 final size:16
Alignment explanation
Indices: 23865380--23865415 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
23865370 TAATTATTAT
23865380 ATAAAAATAAAATAAA
1 ATAAAAATAAAATAAA
*
23865396 ATAAAAATATAATAAA
1 ATAAAAATAAAATAAA
23865412 ATAA
1 ATAA
23865416 TTATTACTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (16 bp):
ATAAAAATAAAATAAA
Found at i:23865616 original size:23 final size:22
Alignment explanation
Indices: 23865570--23865628 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 22
23865560 TATTAGATTT
23865570 TTTAAATATTAATAATCTAGAA
1 TTTAAATATTAATAATCTAGAA
*
23865592 TTTAAAATATTAATAAT-TAATAA
1 TTT-AAATATTAATAATCT-AGAA
*
23865615 TTTAAATAGTAATA
1 TTTAAATATTAATA
23865629 TTTTATTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 14 0.42
23 19 0.58
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (22 bp):
TTTAAATATTAATAATCTAGAA
Found at i:23866343 original size:2 final size:2
Alignment explanation
Indices: 23866336--23866375 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
23866326 NNNNNNNNNN
*
23866336 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23866376 AGAGAATAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:23867203 original size:27 final size:23
Alignment explanation
Indices: 23867148--23867202 Score: 92
Period size: 23 Copynumber: 2.4 Consensus size: 23
23867138 GGAATGAATG
*
23867148 AATGAATGATGTTTATGATGGTA
1 AATGAATGATGCTTATGATGGTA
23867171 AATGAATGATGCTTATGATGGTA
1 AATGAATGATGCTTATGATGGTA
*
23867194 AATAAATGA
1 AATGAATGA
23867203 AGAAGATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.40, C:0.02, G:0.24, T:0.35
Consensus pattern (23 bp):
AATGAATGATGCTTATGATGGTA
Found at i:23868166 original size:89 final size:89
Alignment explanation
Indices: 23868042--23868257 Score: 333
Period size: 89 Copynumber: 2.4 Consensus size: 89
23868032 TAATGTTGTA
* * * * *
23868042 TGATGATGATGACCCGGCCATGTGCGAGTAAGGAGTGTGCATAAGTCGATGATGACCCAATTATG
1 TGATGATGATGACCTGGCTATGTGCGAGTAAGGAGTGCGCATAAGTCGATGATGACCCAACTACG
*
23868107 TGCAAGTAGGGAGTGCACATGAGC
66 TGCAAGTAAGGAGTGCACATGAGC
* * * *
23868131 TGATGATGATGACCTAGCTATGTGTGAGTAGGGAGTGCGCATAAGTTGATGATGACCCAACTACG
1 TGATGATGATGACCTGGCTATGTGCGAGTAAGGAGTGCGCATAAGTCGATGATGACCCAACTACG
*
23868196 TGCGAGTAAGGAGTGCACATGAGC
66 TGCAAGTAAGGAGTGCACATGAGC
23868220 TGATGATGATGACCTGGCTATGTGCGAGTAAGGAGTGC
1 TGATGATGATGACCTGGCTATGTGCGAGTAAGGAGTGC
23868258 ACATGACGAT
Statistics
Matches: 113, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
89 113 1.00
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.24
Consensus pattern (89 bp):
TGATGATGATGACCTGGCTATGTGCGAGTAAGGAGTGCGCATAAGTCGATGATGACCCAACTACG
TGCAAGTAAGGAGTGCACATGAGC
Found at i:23868262 original size:46 final size:45
Alignment explanation
Indices: 23868042--23868263 Score: 227
Period size: 46 Copynumber: 5.0 Consensus size: 45
23868032 TAATGTTGTA
* * ** *
23868042 TGATGATGATGACCCGGCCATGTGCGAGTAAGGAGTGTGCATAAG
1 TGATGATGATGACCCAGCTATGTGCGAGTAAGGAGTGCACATGAG
* ** * *
23868087 T--CGATGATGACCCAATTATGTGCAAGTAGGGAGTGCACATGAG
1 TGATGATGATGACCCAGCTATGTGCGAGTAAGGAGTGCACATGAG
* * * * *
23868130 CTGATGATGATGACCTAGCTATGTGTGAGTAGGGAGTGCGCATAAG
1 -TGATGATGATGACCCAGCTATGTGCGAGTAAGGAGTGCACATGAG
* *
23868176 T--TGATGATGACCCAACTACGTGCGAGTAAGGAGTGCACATGAG
1 TGATGATGATGACCCAGCTATGTGCGAGTAAGGAGTGCACATGAG
**
23868219 CTGATGATGATGACCTGGCTATGTGCGAGTAAGGAGTGCACATGA
1 -TGATGATGATGACCCAGCTATGTGCGAGTAAGGAGTGCACATGA
23868264 CGATGAATGA
Statistics
Matches: 142, Mismatches: 29, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
43 67 0.47
44 2 0.01
45 2 0.01
46 71 0.50
ACGTcount: A:0.28, C:0.16, G:0.33, T:0.23
Consensus pattern (45 bp):
TGATGATGATGACCCAGCTATGTGCGAGTAAGGAGTGCACATGAG
Found at i:23873083 original size:2 final size:2
Alignment explanation
Indices: 23873076--23873108 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
23873066 TTTATAAGTT
23873076 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
23873109 NACAAGACCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23873318 original size:83 final size:84
Alignment explanation
Indices: 23873172--23873327 Score: 262
Period size: 83 Copynumber: 1.9 Consensus size: 84
23873162 GCGGAAAAAA
*
23873172 GGGGTGCGACACGAGGACTTCCCAGGAGGTCACCCATCATAGTACTACTCTCGCCCAAACACGC-
1 GGGGTGCAACACGAGGACTTCCCAGGAGGTCACCCATCATAGTACTACTCTCGCCCAAACACGCT
23873236 TTAACTGCTGAGTTCTGAT
66 TTAACTGCTGAGTTCTGAT
* *
23873255 GGGGTGCAACACGAGGACTTCTCAGGAGGTCACCCATCCTAGTACTACTCTCG-CCAAAGCACGC
1 GGGGTGCAACACGAGGACTTCCCAGGAGGTCACCCATCATAGTACTACTCTCGCCCAAA-CACGC
23873319 TTTAACTGC
65 TTTAACTGC
23873328 GGAAAAAATG
Statistics
Matches: 68, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
82 5 0.07
83 55 0.81
84 8 0.12
ACGTcount: A:0.24, C:0.31, G:0.24, T:0.21
Consensus pattern (84 bp):
GGGGTGCAACACGAGGACTTCCCAGGAGGTCACCCATCATAGTACTACTCTCGCCCAAACACGCT
TTAACTGCTGAGTTCTGAT
Found at i:23876304 original size:20 final size:19
Alignment explanation
Indices: 23876272--23876328 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 19
23876262 AGAGAAAAAG
23876272 AAAGGAA-AAATAAAAATGA
1 AAAGGAAGAAATAAAAAT-A
23876291 AAAGGAAGAAATAAAGAATA
1 AAAGGAAGAAATAAA-AATA
*
23876311 AGAA-AAAGAAATAAAAAT
1 A-AAGGAAGAAATAAAAAT
23876329 TGTCATTTAG
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
19 10 0.29
20 19 0.56
21 5 0.15
ACGTcount: A:0.74, C:0.00, G:0.16, T:0.11
Consensus pattern (19 bp):
AAAGGAAGAAATAAAAATA
Found at i:23876315 original size:23 final size:22
Alignment explanation
Indices: 23876264--23876321 Score: 61
Period size: 20 Copynumber: 2.8 Consensus size: 22
23876254 GGAAGGAAAG
*
23876264 AGAAAAAG-AAAGGAAAAATAA
1 AGAATAAGAAAAGGAAAAATAA
23876285 A-AAT--GAAAAGGAAGAAATAA
1 AGAATAAGAAAAGGAA-AAATAA
*
23876305 AGAATAAGAAAAAGAAA
1 AGAATAAGAAAAGGAAA
23876322 TAAAAATTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
18 1 0.03
19 7 0.23
20 9 0.30
21 4 0.13
22 1 0.03
23 8 0.27
ACGTcount: A:0.74, C:0.00, G:0.19, T:0.07
Consensus pattern (22 bp):
AGAATAAGAAAAGGAAAAATAA
Found at i:23876895 original size:167 final size:167
Alignment explanation
Indices: 23876613--23876955 Score: 562
Period size: 167 Copynumber: 2.1 Consensus size: 167
23876603 ATTCCTGAAT
* * * * *
23876613 AAGAAATTGAATTAATGCTACCCAAAAGGGTCTCCCATAATTTTATTTTCTTCTTTTTTATACTT
1 AAGAAGTTGAATTAATACTACCCAAAAGGGTCTCCCATAATTTCATTTTCTTCCTTTATATACTT
23876678 TTACACTCATTATCTTATGGAAGAAGTTGTGGTTATTTGTTGTTTAGGATATATGTATCTTCTTT
66 TTACACTCATTATCTTATGGAAGAAGTTGTGGTTATTTGTTGTTTAGGATATATGTATCTTCTTT
*
23876743 GGCCTTGTATGTTTGTCTATACTTGTTATCCTTGCAG
131 GACCTTGTATGTTTGTCTATACTTGTTATCCTTGCAG
* *
23876780 AAGAAGTTGAATTAATACTACCC-AAATGGTCTCCCATGATTTCATTTTCTTCCTTTATATACTT
1 AAGAAGTTGAATTAATACTACCCAAAAGGGTCTCCCATAATTTCATTTTCTTCCTTTATATACTT
*
23876844 TTACAGTCATTATCCTTATGGAAGAAGTTGTGGTTATTTGTTGTTTAGGATATATGTATCTTCTT
66 TTACACTCATTAT-CTTATGGAAGAAGTTGTGGTTATTTGTTGTTTAGGATATATGTATCTTCTT
* *
23876909 TGACCTTGTATGTTTGTCTATACTTGTTATCTTTGCGG
130 TGACCTTGTATGTTTGTCTATACTTGTTATCCTTGCAG
*
23876947 AAGATGTTG
1 AAGAAGTTG
23876956 TGGCTAATTG
Statistics
Matches: 163, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
166 48 0.29
167 115 0.71
ACGTcount: A:0.24, C:0.14, G:0.16, T:0.45
Consensus pattern (167 bp):
AAGAAGTTGAATTAATACTACCCAAAAGGGTCTCCCATAATTTCATTTTCTTCCTTTATATACTT
TTACACTCATTATCTTATGGAAGAAGTTGTGGTTATTTGTTGTTTAGGATATATGTATCTTCTTT
GACCTTGTATGTTTGTCTATACTTGTTATCCTTGCAG
Found at i:23882558 original size:80 final size:80
Alignment explanation
Indices: 23882424--23882580 Score: 242
Period size: 80 Copynumber: 2.0 Consensus size: 80
23882414 AATCCTTCTA
* * * *
23882424 AATCCTCTGTTCCAACATAATTCTAATTCTCGATATAAAGTCCACATTTTTACTGATAGTGGAAA
1 AATCCGCTGTTCCAACATAATTCTAATTCTCGATATAAAGTCCACAATTGTACTGATAGTGAAAA
*
23882489 AGAGATCTTTATCTG
66 AGAGATCCTTATCTG
* * *
23882504 AATCCGCTGTTCTAACATAATTCTAATTCTTGATATAAAGTCCACAATTGTACTGTTAGTGAAAA
1 AATCCGCTGTTCCAACATAATTCTAATTCTCGATATAAAGTCCACAATTGTACTGATAGTGAAAA
23882569 AGAGATCCTTAT
66 AGAGATCCTTAT
23882581 ATTATATGTA
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
80 69 1.00
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.36
Consensus pattern (80 bp):
AATCCGCTGTTCCAACATAATTCTAATTCTCGATATAAAGTCCACAATTGTACTGATAGTGAAAA
AGAGATCCTTATCTG
Found at i:23882989 original size:16 final size:14
Alignment explanation
Indices: 23882959--23883003 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 14
23882949 ATATATACAC
23882959 TATAATACTTTTAA
1 TATAATACTTTTAA
23882973 TATATATACTTTATAA
1 TATA-ATACTTT-TAA
* *
23882989 TATAAAACTTGTAA
1 TATAATACTTTTAA
23883003 T
1 T
23883004 GTCTTTTAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 8 0.30
15 12 0.44
16 7 0.26
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.47
Consensus pattern (14 bp):
TATAATACTTTTAA
Found at i:23882990 original size:25 final size:23
Alignment explanation
Indices: 23882910--23882978 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
23882900 TTTACAATAT
* * *
23882910 ACTATAATATTATTTTATATAAAG
1 ACTATAATACT-TTTTATATATAC
*
23882934 AATATAATACTTTTTATATATAC
1 ACTATAATACTTTTTATATATAC
*
23882957 ACTATAATACTTTTAATATATA
1 ACTATAATACTTTTTATATATA
23882979 TACTTTATAA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
23 30 0.77
24 9 0.23
ACGTcount: A:0.45, C:0.07, G:0.01, T:0.46
Consensus pattern (23 bp):
ACTATAATACTTTTTATATATAC
Found at i:23883115 original size:40 final size:40
Alignment explanation
Indices: 23883070--23883178 Score: 218
Period size: 40 Copynumber: 2.7 Consensus size: 40
23883060 TTATTATTGT
23883070 ATAAATTAATTACTAAATAATATATAATATTTTGTATAAC
1 ATAAATTAATTACTAAATAATATATAATATTTTGTATAAC
23883110 ATAAATTAATTACTAAATAATATATAATATTTTGTATAAC
1 ATAAATTAATTACTAAATAATATATAATATTTTGTATAAC
23883150 ATAAATTAATTACTAAATAATATATAATA
1 ATAAATTAATTACTAAATAATATATAATA
23883179 CAAATTTATT
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 69 1.00
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (40 bp):
ATAAATTAATTACTAAATAATATATAATATTTTGTATAAC
Found at i:23883546 original size:29 final size:29
Alignment explanation
Indices: 23883502--23883558 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
23883492 CCCAAGACCC
* *
23883502 CAGCTGCCGGCCTACCACGCCACGCTCGT
1 CAGCTGCCGGCATACCACGCCAAGCTCGT
23883531 CAGCTGCCGGCATACCACGCCAAGCTCG
1 CAGCTGCCGGCATACCACGCCAAGCTCG
23883559 GCTCCTTCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.18, C:0.46, G:0.25, T:0.12
Consensus pattern (29 bp):
CAGCTGCCGGCATACCACGCCAAGCTCGT
Found at i:23888430 original size:12 final size:12
Alignment explanation
Indices: 23888415--23888443 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
23888405 CTCTCTCATT
23888415 TATATTTATATA
1 TATATTTATATA
23888427 TATATTTATATA
1 TATATTTATATA
23888439 TATAT
1 TATAT
23888444 CAAACAAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TATATTTATATA
Found at i:23893911 original size:20 final size:20
Alignment explanation
Indices: 23893866--23893903 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
23893856 TTTTGGCCCC
23893866 ATTTGACTTATTAGAGTATA
1 ATTTGACTTATTAGAGTATA
*
23893886 ATTTGACTTATTGGAGTA
1 ATTTGACTTATTAGAGTA
23893904 AGATTTGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.18, T:0.45
Consensus pattern (20 bp):
ATTTGACTTATTAGAGTATA
Found at i:23893993 original size:28 final size:28
Alignment explanation
Indices: 23893958--23894014 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
23893948 TGGAGAAAAA
23893958 GGGTAAAATGGCAATTTTGCCACC-TTAG
1 GGGTAAAATGGCAATTTT-CCACCATTAG
* *
23893986 GGGTAAAATTGTAATTTTCCACCATTAG
1 GGGTAAAATGGCAATTTTCCACCATTAG
23894014 G
1 G
23894015 ACATTTTTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 5 0.19
28 21 0.81
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.32
Consensus pattern (28 bp):
GGGTAAAATGGCAATTTTCCACCATTAG
Found at i:23895502 original size:20 final size:20
Alignment explanation
Indices: 23895457--23895494 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
23895447 TTTTGGCCCC
23895457 ATTTGACTTATTAGAGTATA
1 ATTTGACTTATTAGAGTATA
*
23895477 ATTTGACTTATTGGAGTA
1 ATTTGACTTATTAGAGTA
23895495 AGATTTGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.18, T:0.45
Consensus pattern (20 bp):
ATTTGACTTATTAGAGTATA
Found at i:23895585 original size:28 final size:28
Alignment explanation
Indices: 23895553--23895606 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
23895543 GAAAAAAGGT
*
23895553 AAAATGGTAATTTTGCCACC-CCAGGAGC
1 AAAATGATAATTTT-CCACCACCAGGAGC
*
23895581 AAAATTATAATTTTCCACCACCAGGA
1 AAAATGATAATTTTCCACCACCAGGA
23895607 CATTTTTCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.24
Consensus pattern (28 bp):
AAAATGATAATTTTCCACCACCAGGAGC
Found at i:23902688 original size:12 final size:13
Alignment explanation
Indices: 23902662--23902688 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
23902652 TATCCGATCT
23902662 AAATTATCAAAAA
1 AAATTATCAAAAA
23902675 AAATTATCAAAAA
1 AAATTATCAAAAA
23902688 A
1 A
23902689 TAAGAAAAGA
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:0.70, C:0.07, G:0.00, T:0.22
Consensus pattern (13 bp):
AAATTATCAAAAA
Found at i:23903151 original size:22 final size:21
Alignment explanation
Indices: 23903109--23903165 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
23903099 TTAAACAAAT
*
23903109 TTTAATTTTATTATTGTATTTA
1 TTTAAATTT-TTATTGTATTTA
*
23903131 TTTAAATTTTTATTTTAATTTA
1 TTTAAATTTTTATTGT-ATTTA
**
23903153 AATAAATTTTTAT
1 TTTAAATTTTTAT
23903166 AACTAATTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 6 0.20
22 24 0.80
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (21 bp):
TTTAAATTTTTATTGTATTTA
Found at i:23904958 original size:27 final size:27
Alignment explanation
Indices: 23904919--23904973 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
23904909 CACTTGGCAG
*
23904919 TTAGTGAGTAGGAGATAAATCCGCCAT
1 TTAGTGAGCAGGAGATAAATCCGCCAT
23904946 TTAGTGAGCAGGAGATAAATCCGCCAT
1 TTAGTGAGCAGGAGATAAATCCGCCAT
23904973 T
1 T
23904974 AAGATTTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.25
Consensus pattern (27 bp):
TTAGTGAGCAGGAGATAAATCCGCCAT
Found at i:23906245 original size:40 final size:38
Alignment explanation
Indices: 23906187--23906290 Score: 127
Period size: 38 Copynumber: 2.7 Consensus size: 38
23906177 ACCCAGCTCA
* * *
23906187 TGTGCATTCCCCCCACATCGTGTACATAGCCGGAGTCATCG
1 TGTGCA-TCCCCCCACATCGTGCACA-A-CCAGAGCCATCG
* *
23906228 TGTGCATCCCCCCACATCGTGCACAATCAGTGCCATCG
1 TGTGCATCCCCCCACATCGTGCACAACCAGAGCCATCG
*
23906266 TGTACATCCCCCCACATCGTGCACA
1 TGTGCATCCCCCCACATCGTGCACA
23906291 CAGGCACTAT
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
38 32 0.56
39 1 0.02
40 18 0.32
41 6 0.11
ACGTcount: A:0.21, C:0.38, G:0.18, T:0.22
Consensus pattern (38 bp):
TGTGCATCCCCCCACATCGTGCACAACCAGAGCCATCG
Found at i:23906283 original size:19 final size:19
Alignment explanation
Indices: 23906194--23906286 Score: 62
Period size: 19 Copynumber: 4.8 Consensus size: 19
23906184 TCATGTGCAT
23906194 TCCCCCCACATCGTGTACA
1 TCCCCCCACATCGTGTACA
** ** *
23906213 TAGCCGGAGTCATCGTGTGCA
1 TCCCCCCA--CATCGTGTACA
*
23906234 TCCCCCCACATCGTGCACAA
1 TCCCCCCACATCGTGTAC-A
****
23906254 TCAGTGC-CATCGTGTACA
1 TCCCCCCACATCGTGTACA
23906272 TCCCCCCACATCGTG
1 TCCCCCCACATCGTG
23906287 CACACAGGCA
Statistics
Matches: 50, Mismatches: 20, Indels: 8
0.64 0.26 0.10
Matches are distributed among these distances:
18 4 0.08
19 28 0.56
20 4 0.08
21 14 0.28
ACGTcount: A:0.20, C:0.40, G:0.18, T:0.22
Consensus pattern (19 bp):
TCCCCCCACATCGTGTACA
Found at i:23907870 original size:3 final size:3
Alignment explanation
Indices: 23907862--23907898 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
23907852 CTTTTTTAAT
23907862 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
23907899 CAGCAAAGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:23914662 original size:20 final size:19
Alignment explanation
Indices: 23914630--23914686 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 19
23914620 AGAGAAAAAG
23914630 AAAGGAA-AAATAAAAATGA
1 AAAGGAAGAAATAAAAAT-A
23914649 AAAGGAAGAAATAAAGAATA
1 AAAGGAAGAAATAAA-AATA
*
23914669 AGAA-AAAGAAATAAAAAT
1 A-AAGGAAGAAATAAAAAT
23914687 TGTCATTTAG
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
19 10 0.29
20 19 0.56
21 5 0.15
ACGTcount: A:0.74, C:0.00, G:0.16, T:0.11
Consensus pattern (19 bp):
AAAGGAAGAAATAAAAATA
Found at i:23914673 original size:23 final size:22
Alignment explanation
Indices: 23914622--23914679 Score: 61
Period size: 20 Copynumber: 2.8 Consensus size: 22
23914612 GGAAGGAAAG
*
23914622 AGAAAAAG-AAAGGAAAAATAA
1 AGAATAAGAAAAGGAAAAATAA
23914643 A-AAT--GAAAAGGAAGAAATAA
1 AGAATAAGAAAAGGAA-AAATAA
*
23914663 AGAATAAGAAAAAGAAA
1 AGAATAAGAAAAGGAAA
23914680 TAAAAATTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
18 1 0.03
19 7 0.23
20 9 0.30
21 4 0.13
22 1 0.03
23 8 0.27
ACGTcount: A:0.74, C:0.00, G:0.19, T:0.07
Consensus pattern (22 bp):
AGAATAAGAAAAGGAAAAATAA
Found at i:23931642 original size:22 final size:21
Alignment explanation
Indices: 23931591--23931642 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 21
23931581 AAAACCCTAG
*
23931591 GTGGAAAAATTCAAGGGAAAA
1 GTGGAAAAATTCAAGGAAAAA
23931612 GTGTG-AAAATTCAAGGAAACAA
1 GTG-GAAAAATTCAAGGAAA-AA
23931634 GTGGAAAAA
1 GTGGAAAAA
23931643 GGTAAGATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 17 0.63
22 10 0.37
ACGTcount: A:0.52, C:0.06, G:0.27, T:0.15
Consensus pattern (21 bp):
GTGGAAAAATTCAAGGAAAAA
Found at i:23936325 original size:13 final size:13
Alignment explanation
Indices: 23936307--23936331 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23936297 CTTTCTTTTG
23936307 TCTTTATGCTTTA
1 TCTTTATGCTTTA
23936320 TCTTTATGCTTT
1 TCTTTATGCTTT
23936332 TTACAAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.16, G:0.08, T:0.64
Consensus pattern (13 bp):
TCTTTATGCTTTA
Found at i:23936666 original size:13 final size:13
Alignment explanation
Indices: 23936640--23936684 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
23936630 AATTAATGGG
* *
23936640 TTTTATTTAATTA
1 TTTTAATTAGTTA
23936653 TTTTAATTAGTTA
1 TTTTAATTAGTTA
*
23936666 TTTTAGGTTAGTTA
1 TTTTA-ATTAGTTA
23936680 TTTTA
1 TTTTA
23936685 GGTCAGTCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
13 16 0.57
14 12 0.43
ACGTcount: A:0.27, C:0.00, G:0.09, T:0.64
Consensus pattern (13 bp):
TTTTAATTAGTTA
Found at i:23936678 original size:14 final size:14
Alignment explanation
Indices: 23936650--23936687 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
23936640 TTTTATTTAA
*
23936650 TTATTTTA-ATTAG
1 TTATTTTAGGTTAG
23936663 TTATTTTAGGTTAG
1 TTATTTTAGGTTAG
23936677 TTATTTTAGGT
1 TTATTTTAGGT
23936688 CAGTCAATCT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 8 0.35
14 15 0.65
ACGTcount: A:0.24, C:0.00, G:0.16, T:0.61
Consensus pattern (14 bp):
TTATTTTAGGTTAG
Found at i:23956903 original size:46 final size:45
Alignment explanation
Indices: 23956835--23956937 Score: 109
Period size: 45 Copynumber: 2.3 Consensus size: 45
23956825 TTTACAGTTT
* ** * *
23956835 TGGCTCCCCGTTGGGACCATGACATGCT-CCCTTGATGTGGGATTCA
1 TGGCTCCCCATTAAGACCATGACATGCTGCAC--GATGTGGGATTAA
* *
23956881 TGGCTCCCCATTAAGACTATGACATTCTGCACGATGTGGGATTAA
1 TGGCTCCCCATTAAGACCATGACATGCTGCACGATGTGGGATTAA
*
23956926 TGGCTTCCCATT
1 TGGCTCCCCATT
23956938 GGGACCGTGA
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
45 23 0.48
46 23 0.48
47 2 0.04
ACGTcount: A:0.19, C:0.26, G:0.24, T:0.30
Consensus pattern (45 bp):
TGGCTCCCCATTAAGACCATGACATGCTGCACGATGTGGGATTAA
Found at i:23959677 original size:19 final size:19
Alignment explanation
Indices: 23959650--23959686 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
23959640 CCATTTGACT
23959650 TATTAGAGTATGATTTGAG
1 TATTAGAGTATGATTTGAG
*
23959669 TATTGGAGTATGATTTGA
1 TATTAGAGTATGATTTGA
23959687 AGTTTAGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.27, T:0.43
Consensus pattern (19 bp):
TATTAGAGTATGATTTGAG
Found at i:23960901 original size:13 final size:13
Alignment explanation
Indices: 23960883--23960908 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
23960873 AGGAGAAATT
23960883 ATGATTTTATAAA
1 ATGATTTTATAAA
23960896 ATGATTTTATAAA
1 ATGATTTTATAAA
23960909 TTTTCTGGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (13 bp):
ATGATTTTATAAA
Found at i:23962213 original size:58 final size:59
Alignment explanation
Indices: 23962112--23962238 Score: 175
Period size: 58 Copynumber: 2.2 Consensus size: 59
23962102 GATAGGCACA
* ** * * *
23962112 ACAAGCATGTGTCTTACTCATTACACATGTCTAGCACCAAGCCTTGTTAAATAGGCATC
1 ACAAGCATGTGTCTCACTCACCACACATGTCGAACACCAAGCCTTGTTAAATAGACATC
* *
23962171 ATAAGCATGTGTCTCAC-CACCACACATGTCGAACACCAAGCCTTGTTAGATAGACATC
1 ACAAGCATGTGTCTCACTCACCACACATGTCGAACACCAAGCCTTGTTAAATAGACATC
23962229 ACAAGCATGT
1 ACAAGCATGT
23962239 ATTATATCCC
Statistics
Matches: 59, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
58 44 0.75
59 15 0.25
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (59 bp):
ACAAGCATGTGTCTCACTCACCACACATGTCGAACACCAAGCCTTGTTAAATAGACATC
Found at i:23962698 original size:38 final size:39
Alignment explanation
Indices: 23962610--23962712 Score: 118
Period size: 39 Copynumber: 2.7 Consensus size: 39
23962600 ACCAAAAGCA
* * * * **
23962610 TTTTGGTTATTGACCTCAAAACAAAGTAAATAAGGCAAT
1 TTTTGGTTATTTACCCCAAAACAAAGGAAAGAAAACAAT
*
23962649 TTTTGGTTATTTACCCCAAAACAAAGGAAGGAAAAC-AT
1 TTTTGGTTATTTACCCCAAAACAAAGGAAAGAAAACAAT
* *
23962687 TTTTGGTTATTTATCCCAAAAAAAAG
1 TTTTGGTTATTTACCCCAAAACAAAG
23962713 AAAAAAGAAT
Statistics
Matches: 55, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
38 26 0.47
39 29 0.53
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.31
Consensus pattern (39 bp):
TTTTGGTTATTTACCCCAAAACAAAGGAAAGAAAACAAT
Found at i:23964355 original size:9 final size:9
Alignment explanation
Indices: 23964341--23964365 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
23964331 AATTTTAAAT
23964341 AAAAAATAA
1 AAAAAATAA
23964350 AAAAAATAA
1 AAAAAATAA
23964359 AAAAAAT
1 AAAAAAT
23964366 TATAGCTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (9 bp):
AAAAAATAA
Found at i:23970566 original size:2 final size:2
Alignment explanation
Indices: 23970559--23970592 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
23970549 AACATCATAT
23970559 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC -C TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
23970593 ATATATATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:23970597 original size:2 final size:2
Alignment explanation
Indices: 23970592--23970616 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
23970582 CTCTCTCCTC
23970592 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
23970617 CAAACAAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23978053 original size:13 final size:13
Alignment explanation
Indices: 23978035--23978059 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23978025 CTTTCTTTTG
23978035 TCTTTATGCTTTA
1 TCTTTATGCTTTA
23978048 TCTTTATGCTTT
1 TCTTTATGCTTT
23978060 TTAGAAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.16, G:0.08, T:0.64
Consensus pattern (13 bp):
TCTTTATGCTTTA
Found at i:23978899 original size:15 final size:15
Alignment explanation
Indices: 23978881--23978910 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
23978871 GAGAAAAAGG
*
23978881 GAGAACGAAAAACAC
1 GAGAACAAAAAACAC
23978896 GAGAACAAAAAACAC
1 GAGAACAAAAAACAC
23978911 CAGATTGAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.20, G:0.17, T:0.00
Consensus pattern (15 bp):
GAGAACAAAAAACAC
Found at i:23983589 original size:15 final size:15
Alignment explanation
Indices: 23983552--23983592 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
23983542 ACTCTAGAGC
*
23983552 TTTTCTTTAAACTCT
1 TTTTCTTTAAAATCT
23983567 TTTT-TTTAAAAT-T
1 TTTTCTTTAAAATCT
23983580 TTATTCTTTAAAA
1 TT-TTCTTTAAAA
23983593 AAATTGTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 3 0.13
14 9 0.39
15 11 0.48
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.61
Consensus pattern (15 bp):
TTTTCTTTAAAATCT
Found at i:24000711 original size:26 final size:26
Alignment explanation
Indices: 24000676--24000736 Score: 113
Period size: 26 Copynumber: 2.3 Consensus size: 26
24000666 AAATTTTGTA
24000676 GTAAGGTCATTACTTTTGACCTTCCT
1 GTAAGGTCATTACTTTTGACCTTCCT
*
24000702 GTAAGGTCATTATTTTTGACCTTCCT
1 GTAAGGTCATTACTTTTGACCTTCCT
24000728 GTAAGGTCA
1 GTAAGGTCA
24000737 ATTAATAAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.21, C:0.20, G:0.18, T:0.41
Consensus pattern (26 bp):
GTAAGGTCATTACTTTTGACCTTCCT
Found at i:24000749 original size:27 final size:26
Alignment explanation
Indices: 24000693--24000749 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
24000683 CATTACTTTT
* ***
24000693 GACCTTCCTGTAAGGTCATTATTTTT
1 GACCTTCCTGTAAGGTCATTAATAAA
24000719 GACCTTCCTGTAAGGTCAATTAATAAA
1 GACCTTCCTGTAAGGTC-ATTAATAAA
24000746 GACC
1 GACC
24000750 GTCCAATTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 17 0.65
27 9 0.35
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.35
Consensus pattern (26 bp):
GACCTTCCTGTAAGGTCATTAATAAA
Found at i:24001542 original size:251 final size:247
Alignment explanation
Indices: 24001086--24001543 Score: 738
Period size: 251 Copynumber: 1.8 Consensus size: 247
24001076 AAAATTGATA
* *
24001086 TAAAAACTTGTAAAGGTAGAATAACTAAATTTAAAATCTTAACATAAATGTGTGAGAGTTAACAT
1 TAAAAACTTATAAAGGTAGAATAACTAAATTTAAAATCTTAACATAAATGTGTGACAGTTAACAT
* *
24001151 AACAAGTCAATTAAGAAAAAAATATAATTTTAATGAAAAAATAATTTAAATTGTATTTTCCGGCT
66 AACAAGTCAATTAAGAAAAAAATATAATTTTAATGAAAAAAAAATTTAAATTGTATATTCCGGCT
**
24001216 AAAAGTGTTTAACGATATAAAAATTTTAATTTTTAAATAAAAAATAATAAGGATAAAAATAATTA
131 AAAAGTGTTTAACGATATAAAAATTTTAATTTTTAAATAAAAAATAATAAAAATAAAAATAATTA
24001281 TAGTTCAAAATTGGCATAGAAAAGCCTTGACATAAAACCATAAGAATTGACG
196 TAGTTCAAAATTGGCATAGAAAAGCCTTGACATAAAACCATAAGAATTGACG
* * * *
24001333 TAAAAACTTATAAAGGTGGAATAACTAAATTTTAAATCTTAACGTAAATGTGTGACAGTTAACGT
1 TAAAAACTTATAAAGGTAGAATAACTAAATTTAAAATCTTAACATAAATGTGTGACAGTTAACAT
* *
24001398 AACAAGTCAATTAAGTAAAAAAATCTAATTTTAGTGAAAAACAAACATTTAAATT-TATATTCTC
66 AACAAGTCAATTAAG-AAAAAAATATAATTTTAATGAAAAA-AAA-ATTTAAATTGTATATTC-C
* *
24001462 GGACTAAAAGTGTTTAACGATATACAAATTTTAATTTTTAAATAAAGAATAATAAAAATAAAAAT
127 GG-CTAAAAGTGTTTAACGATATAAAAATTTTAATTTTTAAATAAAAAATAATAAAAATAAAAAT
24001527 AATTATAGTTCAAAATT
191 AATTATAGTTCAAAATT
24001544 AACGTAAGAA
Statistics
Matches: 192, Mismatches: 14, Indels: 6
0.91 0.07 0.03
Matches are distributed among these distances:
247 74 0.39
248 23 0.12
249 8 0.04
250 12 0.06
251 75 0.39
ACGTcount: A:0.49, C:0.08, G:0.11, T:0.32
Consensus pattern (247 bp):
TAAAAACTTATAAAGGTAGAATAACTAAATTTAAAATCTTAACATAAATGTGTGACAGTTAACAT
AACAAGTCAATTAAGAAAAAAATATAATTTTAATGAAAAAAAAATTTAAATTGTATATTCCGGCT
AAAAGTGTTTAACGATATAAAAATTTTAATTTTTAAATAAAAAATAATAAAAATAAAAATAATTA
TAGTTCAAAATTGGCATAGAAAAGCCTTGACATAAAACCATAAGAATTGACG
Found at i:24002860 original size:58 final size:58
Alignment explanation
Indices: 24002733--24002917 Score: 230
Period size: 58 Copynumber: 3.2 Consensus size: 58
24002723 CAAAAAAAAA
* *
24002733 ACAAGTATGTGTCTTACTCATTACACATGTCTAGCACTAAGCCTTTCTAGATAGGCA-C
1 ACAAGCATGTGTCTTACTCATTACACATGTCTAGCAC-AAGCCTTGCTAGATAGGCATC
* *
24002791 AACAAGCATGTGTCTTACTCATTGCATATGTCTAGCACAAGCCTTGCTAGATAGGCATC
1 -ACAAGCATGTGTCTTACTCATTACACATGTCTAGCACAAGCCTTGCTAGATAGGCATC
* * ** * * *
24002850 ATAAGCATGTGTCTCAC-CACCACACATGTCTAACACCGAGCCTTGTTAGATAGGCATC
1 ACAAGCATGTGTCTTACTCATTACACATGTCTAGCA-CAAGCCTTGCTAGATAGGCATC
24002908 ACAAGCATGT
1 ACAAGCATGT
24002918 ATGAAATCCC
Statistics
Matches: 110, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
57 13 0.12
58 62 0.56
59 35 0.32
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (58 bp):
ACAAGCATGTGTCTTACTCATTACACATGTCTAGCACAAGCCTTGCTAGATAGGCATC
Found at i:24003380 original size:38 final size:38
Alignment explanation
Indices: 24003292--24003394 Score: 118
Period size: 39 Copynumber: 2.7 Consensus size: 38
24003282 ACCAAAAGCA
* * **
24003292 TTTTGGTTATTGACCTCAAAACAAAGTAAAGAAGGCAAT
1 TTTTGGTTATTTACCT-AAAACAAAGGAAAGAAAACAAT
24003331 TTTTGGTTATTTACCATAAAACAAAGGAAAGAAAAC-AT
1 TTTTGGTTATTTACC-TAAAACAAAGGAAAGAAAACAAT
* *
24003369 TTTTTGTTATTTATCCCAAAACAAAG
1 TTTTGGTTATTTA-CCTAAAACAAAG
24003395 AAAAAAGAAT
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
38 23 0.41
39 32 0.57
40 1 0.02
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.32
Consensus pattern (38 bp):
TTTTGGTTATTTACCTAAAACAAAGGAAAGAAAACAAT
Found at i:24004484 original size:35 final size:36
Alignment explanation
Indices: 24004431--24004534 Score: 120
Period size: 35 Copynumber: 2.9 Consensus size: 36
24004421 TTATCAGTGT
* *
24004431 TGATAGACATGCATAGTGTGGGAGAGCACATGAC-A
1 TGATAGTCATGCGTAGTGTGGGAGAGCACATGACAA
* * *
24004466 TGATGGTCATGCGTAGTGTGGCAGAGCATATGACAA
1 TGATAGTCATGCGTAGTGTGGGAGAGCACATGACAA
* * * *
24004502 TGCTAGTTATGTGTGGTGTGGGAGAGCACATGA
1 TGATAGTCATGCGTAGTGTGGGAGAGCACATGA
24004535 ATTTTGTTAA
Statistics
Matches: 56, Mismatches: 12, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
35 29 0.52
36 27 0.48
ACGTcount: A:0.28, C:0.12, G:0.35, T:0.25
Consensus pattern (36 bp):
TGATAGTCATGCGTAGTGTGGGAGAGCACATGACAA
Found at i:24006002 original size:38 final size:38
Alignment explanation
Indices: 24005960--24006086 Score: 105
Period size: 38 Copynumber: 3.3 Consensus size: 38
24005950 CAAACACCTT
24005960 ACAACAAGAACATTTTCTTAATAATTTTTGAACTGCTA
1 ACAACAAGAACATTTTCTTAATAATTTTTGAACTGCTA
* ** * **** ** *
24005998 ACAACAATAACATAATCTCAACATAA--AGCAAACACCTT
1 ACAACAAGAACATTTTCT-TA-ATAATTTTTGAACTGCTA
*
24006036 ACAACAAGAACATTTTCTTAATAATTTTTGAACTGTTA
1 ACAACAAGAACATTTTCTTAATAATTTTTGAACTGCTA
*
24006074 ACAACAATAACAT
1 ACAACAAGAACAT
24006087 AATCTCAACA
Statistics
Matches: 61, Mismatches: 24, Indels: 8
0.66 0.26 0.09
Matches are distributed among these distances:
36 4 0.07
37 1 0.02
38 51 0.84
39 1 0.02
40 4 0.07
ACGTcount: A:0.46, C:0.19, G:0.06, T:0.30
Consensus pattern (38 bp):
ACAACAAGAACATTTTCTTAATAATTTTTGAACTGCTA
Found at i:24006048 original size:76 final size:76
Alignment explanation
Indices: 24005922--24006096 Score: 323
Period size: 76 Copynumber: 2.3 Consensus size: 76
24005912 TACTAAGCTC
* *
24005922 ACAACAACAACATAATCTCAATATAAAGCAAACACCTTACAACAAGAACATTTTCTTAATAATTT
1 ACAACAATAACATAATCTCAACATAAAGCAAACACCTTACAACAAGAACATTTTCTTAATAATTT
24005987 TTGAACTGCTA
66 TTGAACTGCTA
24005998 ACAACAATAACATAATCTCAACATAAAGCAAACACCTTACAACAAGAACATTTTCTTAATAATTT
1 ACAACAATAACATAATCTCAACATAAAGCAAACACCTTACAACAAGAACATTTTCTTAATAATTT
*
24006063 TTGAACTGTTA
66 TTGAACTGCTA
24006074 ACAACAATAACATAATCTCAACA
1 ACAACAATAACATAATCTCAACA
24006097 CTTTCCAAAC
Statistics
Matches: 96, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 96 1.00
ACGTcount: A:0.47, C:0.21, G:0.05, T:0.27
Consensus pattern (76 bp):
ACAACAATAACATAATCTCAACATAAAGCAAACACCTTACAACAAGAACATTTTCTTAATAATTT
TTGAACTGCTA
Found at i:24012168 original size:13 final size:13
Alignment explanation
Indices: 24012150--24012176 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
24012140 TTAATCGAAC
24012150 TAAATAAAAATAT
1 TAAATAAAAATAT
24012163 TAAATAAAAATAT
1 TAAATAAAAATAT
24012176 T
1 T
24012177 CTATTTTCAT
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
TAAATAAAAATAT
Found at i:24013410 original size:26 final size:26
Alignment explanation
Indices: 24013350--24013411 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 26
24013340 ACCATATACC
*
24013350 CATCATCAACATGCACACCATCCCAT
1 CATCATCATCATGCACACCATCCCAT
*
24013376 CATCATCATCATGCACATCATCCCAT
1 CATCATCATCATGCACACCATCCCAT
24013402 CATCATCATC
1 CATCATCATC
24013412 TCATATGCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.32, C:0.40, G:0.03, T:0.24
Consensus pattern (26 bp):
CATCATCATCATGCACACCATCCCAT
Found at i:24013704 original size:42 final size:42
Alignment explanation
Indices: 24013646--24013768 Score: 228
Period size: 42 Copynumber: 2.9 Consensus size: 42
24013636 ACGGAGGCAA
* *
24013646 CAACGGCTTATGTGCACTCCCACTCACACATAGCCGGGTCAG
1 CAACGGCTTATGTGCACTCCTACTCGCACATAGCCGGGTCAG
24013688 CAACGGCTTATGTGCACTCCTACTCGCACATAGCCGGGTCAG
1 CAACGGCTTATGTGCACTCCTACTCGCACATAGCCGGGTCAG
24013730 CAACGGCTTATGTGCACTCCTACTCGCACATAGCCGGGT
1 CAACGGCTTATGTGCACTCCTACTCGCACATAGCCGGGT
24013769 TCAAATCAAC
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 79 1.00
ACGTcount: A:0.22, C:0.34, G:0.23, T:0.21
Consensus pattern (42 bp):
CAACGGCTTATGTGCACTCCTACTCGCACATAGCCGGGTCAG
Found at i:24016257 original size:2 final size:2
Alignment explanation
Indices: 24016192--24016244 Score: 88
Period size: 2 Copynumber: 26.5 Consensus size: 2
24016182 TAGCCAAAAC
* *
24016192 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT AT AC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24016234 AT AT AT AT AT A
1 AT AT AT AT AT A
24016245 ATACAAGTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:24018671 original size:18 final size:17
Alignment explanation
Indices: 24018645--24018678 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
24018635 GAACTCAAGG
24018645 AAGAGGAAGAAAAAGAT
1 AAGAGGAAGAAAAAGAT
*
24018662 AAGAGAGAAGCAAAAGA
1 AAGAG-GAAGAAAAAGA
24018679 AACGAAGAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.65, C:0.03, G:0.29, T:0.03
Consensus pattern (17 bp):
AAGAGGAAGAAAAAGAT
Found at i:24024985 original size:21 final size:21
Alignment explanation
Indices: 24024956--24024998 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
24024946 AATACCATAT
*
24024956 ATTATAATAGTTTA-ATTTTAA
1 ATTAAAATA-TTTATATTTTAA
24024977 ATTAAAATATTTATTATTTTAA
1 ATTAAAATATTTA-TATTTTAA
24024999 TAATTTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 4 0.21
21 8 0.42
22 7 0.37
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (21 bp):
ATTAAAATATTTATATTTTAA
Found at i:24025018 original size:20 final size:22
Alignment explanation
Indices: 24024995--24025036 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
24024985 ATTTATTATT
24024995 TTAAT-AATTTATT-TAAAATA
1 TTAATAAATTTATTATAAAATA
*
24025015 TTAATAAATTTGTTATAAAATA
1 TTAATAAATTTATTATAAAATA
24025037 AATCTTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
21 7 0.37
22 7 0.37
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (22 bp):
TTAATAAATTTATTATAAAATA
Found at i:24039492 original size:27 final size:27
Alignment explanation
Indices: 24039461--24039520 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
24039451 AAATTTACAC
24039461 AATATTAATAATTTATATTACATTTAA
1 AATATTAATAATTTATATTACATTTAA
*
24039488 AATATTAATAATTTATATTTCATTTAA
1 AATATTAATAATTTATATTACATTTAA
24039515 AATATT
1 AATATT
24039521 TGTTTTATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (27 bp):
AATATTAATAATTTATATTACATTTAA
Found at i:24046540 original size:18 final size:19
Alignment explanation
Indices: 24046517--24046569 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 19
24046507 GTAGTATAGC
*
24046517 TCTTTTTTTTTTA-TTTTT
1 TCTTTTTTTTTCATTTTTT
24046535 TC-TTTTTTTTCATTTTTT
1 TCTTTTTTTTTCATTTTTT
*
24046553 TCTTGTTTTTTC-TTTTT
1 TCTTTTTTTTTCATTTTT
24046570 ATTATTATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 9 0.29
18 14 0.45
19 8 0.26
ACGTcount: A:0.04, C:0.09, G:0.02, T:0.85
Consensus pattern (19 bp):
TCTTTTTTTTTCATTTTTT
Found at i:24046561 original size:28 final size:27
Alignment explanation
Indices: 24046519--24046582 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 27
24046509 AGTATAGCTC
* *
24046519 TTTTTTTTTTATTTTTTCTTTTTTTTCA
1 TTTTTTTCTTATTTTTTCTTTTTATT-A
*
24046547 TTTTTTTCTTGTTTTTTCTTTTTATTA
1 TTTTTTTCTTATTTTTTCTTTTTATTA
24046574 TTATTTTTC
1 TT-TTTTTC
24046583 CACCCCTGCC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
27 3 0.09
28 29 0.91
ACGTcount: A:0.08, C:0.08, G:0.02, T:0.83
Consensus pattern (27 bp):
TTTTTTTCTTATTTTTTCTTTTTATTA
Found at i:24046580 original size:19 final size:19
Alignment explanation
Indices: 24046530--24046581 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
24046520 TTTTTTTTTA
*
24046530 TTTTTTCTT-TTTTTTCAT
1 TTTTTTATTATTTTTTCAT
* *
24046548 TTTTTTCTTGTTTTTTC-T
1 TTTTTTATTATTTTTTCAT
24046566 TTTTATTATTATTTTT
1 TTTT-TTATTATTTTT
24046582 CCACCCCTGC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
18 14 0.47
19 16 0.53
ACGTcount: A:0.08, C:0.08, G:0.02, T:0.83
Consensus pattern (19 bp):
TTTTTTATTATTTTTTCAT
Found at i:24046619 original size:10 final size:9
Alignment explanation
Indices: 24046606--24046676 Score: 54
Period size: 10 Copynumber: 7.1 Consensus size: 9
24046596 CGTACAGCTC
24046606 TTTTCTTTTCT
1 TTTTC-TTT-T
24046617 TTTTCTTTT
1 TTTTCTTTT
24046626 TTTT-TATTT
1 TTTTCT-TTT
*
24046635 TTTCTTTTTT
1 TTT-TCTTTT
24046645 TTTTCATTTTT
1 TTTTC--TTTT
24046656 TGTTTCTTATT
1 T-TTTCTT-TT
24046667 TTTTCTTTT
1 TTTTCTTTT
24046676 T
1 T
24046677 ATTATTATTT
Statistics
Matches: 52, Mismatches: 1, Indels: 16
0.75 0.01 0.23
Matches are distributed among these distances:
8 1 0.02
9 15 0.29
10 18 0.35
11 14 0.27
12 4 0.08
ACGTcount: A:0.04, C:0.10, G:0.01, T:0.85
Consensus pattern (9 bp):
TTTTCTTTT
Found at i:24046622 original size:11 final size:10
Alignment explanation
Indices: 24046606--24046676 Score: 74
Period size: 11 Copynumber: 7.0 Consensus size: 10
24046596 CGTACAGCTC
24046606 TTTTCTTTTCT
1 TTTTCTTTT-T
24046617 TTTTCTTTTT
1 TTTTCTTTTT
*
24046627 TTTT-ATTTT
1 TTTTCTTTTT
*
24046636 TTCT-TTTTT
1 TTTTCTTTTT
24046645 TTTTCATTTTT
1 TTTTC-TTTTT
*
24046656 TGTTTCTTATT
1 T-TTTCTTTTT
24046667 TTTTCTTTTT
1 TTTTCTTTTT
24046677 ATTATTATTT
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
9 14 0.27
10 13 0.25
11 20 0.39
12 4 0.08
ACGTcount: A:0.04, C:0.10, G:0.01, T:0.85
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:24046637 original size:28 final size:31
Alignment explanation
Indices: 24046606--24046675 Score: 92
Period size: 28 Copynumber: 2.3 Consensus size: 31
24046596 CGTACAGCTC
24046606 TTTTCTTTTCTTTTTC-TTTT-TTT-TTATT
1 TTTTCTTTTCTTTTTCTTTTTGTTTCTTATT
*
24046634 TTTTCTTTTTTTTTTCATTTTTTGTTTCTTATT
1 TTTTCTTTTCTTTTTC--TTTTTGTTTCTTATT
24046667 TTTTCTTTT
1 TTTTCTTTT
24046676 TATTATTATT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
28 15 0.42
31 4 0.11
32 3 0.08
33 14 0.39
ACGTcount: A:0.04, C:0.10, G:0.01, T:0.84
Consensus pattern (31 bp):
TTTTCTTTTCTTTTTCTTTTTGTTTCTTATT
Found at i:24046641 original size:23 final size:22
Alignment explanation
Indices: 24046611--24046679 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 22
24046601 AGCTCTTTTC
24046611 TTTTCTTTTTCTTTTTTTTTATT
1 TTTTCTTTTT-TTTTTTTTTATT
24046634 TTTTCTTTTTTTTTTCATTTT-TT
1 TTTTCTTTTTTTTTT--TTTTATT
* *
24046657 GTTTCTTATTTTTTCTTTTTATT
1 TTTTCTT-TTTTTTTTTTTTATT
24046680 ATTATTTTGT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
22 9 0.22
23 20 0.50
24 11 0.28
ACGTcount: A:0.06, C:0.09, G:0.01, T:0.84
Consensus pattern (22 bp):
TTTTCTTTTTTTTTTTTTTATT
Found at i:24046641 original size:33 final size:32
Alignment explanation
Indices: 24046604--24046675 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 32
24046594 GTCGTACAGC
* * *
24046604 TCTTTTCTTTTCTTTTTCTTTTTTTTTATTTTT
1 TCTTTTCTTTTCATTTT-TTGTTTCTTATTTTT
*
24046637 TCTTTTTTTTTTCATTTTTTGTTTCTTATTTTT
1 TC-TTTTCTTTTCATTTTTTGTTTCTTATTTTT
24046670 TCTTTT
1 TCTTTT
24046676 TATTATTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
32 4 0.12
33 17 0.50
34 13 0.38
ACGTcount: A:0.04, C:0.11, G:0.01, T:0.83
Consensus pattern (32 bp):
TCTTTTCTTTTCATTTTTTGTTTCTTATTTTT
Found at i:24046644 original size:19 final size:20
Alignment explanation
Indices: 24046606--24046676 Score: 74
Period size: 21 Copynumber: 3.5 Consensus size: 20
24046596 CGTACAGCTC
*
24046606 TTTTCTTTTCTTTTTCTTTTT
1 TTTTCTTTT-TTTTTCTTATT
* *
24046627 TTTTATTTTTTCTT-TT-TT
1 TTTTCTTTTTTTTTCTTATT
24046645 TTTTCATTTTTTGTTTCTTATT
1 TTTTC-TTTTTT-TTTCTTATT
24046667 TTTTCTTTTT
1 TTTTCTTTTT
24046677 ATTATTATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
18 6 0.14
19 8 0.19
20 6 0.14
21 15 0.36
22 7 0.17
ACGTcount: A:0.04, C:0.10, G:0.01, T:0.85
Consensus pattern (20 bp):
TTTTCTTTTTTTTTCTTATT
Found at i:24046684 original size:19 final size:17
Alignment explanation
Indices: 24046616--24046692 Score: 77
Period size: 17 Copynumber: 4.5 Consensus size: 17
24046606 TTTTCTTTTC
24046616 TTTTTCTTTTTTTTTAT
1 TTTTTCTTTTTTTTTAT
24046633 TTTTTCTTTTTTTTT-T
1 TTTTTCTTTTTTTTTAT
* * *
24046649 CATTTT-TTGTTTCTTAT
1 -TTTTTCTTTTTTTTTAT
24046666 TTTTTCTTTTTATTATTAT
1 TTTTTCTTTTT-TT-TTAT
*
24046685 TTTGTCTT
1 TTTTTCTT
24046693 CTATAATGTT
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
16 12 0.25
17 24 0.50
18 1 0.02
19 11 0.23
ACGTcount: A:0.08, C:0.08, G:0.03, T:0.82
Consensus pattern (17 bp):
TTTTTCTTTTTTTTTAT
Found at i:24046687 original size:33 final size:31
Alignment explanation
Indices: 24046622--24046687 Score: 89
Period size: 33 Copynumber: 2.1 Consensus size: 31
24046612 TTTCTTTTTC
*
24046622 TTTTTTTTTATTTTTTCTTTTTTTTTTCATT
1 TTTTTTTTTATTTTTTCTTTTTTTATTCATT
24046653 TTTTGTTTCTTATTTTTTCTTTTTATTATT-ATT
1 TTTT-TTT-TTATTTTTTCTTTTT-TTATTCATT
24046686 TT
1 TT
24046688 GTCTTCTATA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
31 4 0.13
32 3 0.10
33 20 0.65
34 4 0.13
ACGTcount: A:0.09, C:0.06, G:0.02, T:0.83
Consensus pattern (31 bp):
TTTTTTTTTATTTTTTCTTTTTTTATTCATT
Found at i:24047093 original size:24 final size:24
Alignment explanation
Indices: 24047023--24047116 Score: 104
Period size: 24 Copynumber: 4.0 Consensus size: 24
24047013 ATTACACATT
24047023 ATATATAAAAATATGTGACACGTC
1 ATATATAAAAATATGTGACACGTC
** * * *
24047047 A-AGGT-TAGAT-TGTTACACGTC
1 ATATATAAAAATATGTGACACGTC
24047068 ATATATAAAAATATGTGACACGTC
1 ATATATAAAAATATGTGACACGTC
* *
24047092 ATATATAAAAACATATGACACGTC
1 ATATATAAAAATATGTGACACGTC
24047116 A
1 A
24047117 AGGTTGGGTT
Statistics
Matches: 55, Mismatches: 12, Indels: 6
0.75 0.16 0.08
Matches are distributed among these distances:
21 11 0.20
22 5 0.09
23 5 0.09
24 34 0.62
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.29
Consensus pattern (24 bp):
ATATATAAAAATATGTGACACGTC
Found at i:24047134 original size:45 final size:45
Alignment explanation
Indices: 24047085--24047222 Score: 179
Period size: 45 Copynumber: 3.1 Consensus size: 45
24047075 AAAATATGTG
* * * * *
24047085 ACACGTCATATATAAAAACATATGACACGTCAAGGTTGGGTTGTT
1 ACACGTCATGTACAAAAACATGTGACACGTCATGGTTAGGTTGTT
*
24047130 ACACGTTATGTACAAAAACATGTGACACGTCATGGTTAGGTTGTT
1 ACACGTCATGTACAAAAACATGTGACACGTCATGGTTAGGTTGTT
* * *
24047175 ACAC-ACTATGTACAAAAACATGTAACACGTTATGGTTAGGTTGTT
1 ACACGTC-ATGTACAAAAACATGTGACACGTCATGGTTAGGTTGTT
24047220 ACA
1 ACA
24047223 TGCCATGGTT
Statistics
Matches: 82, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
45 82 1.00
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.30
Consensus pattern (45 bp):
ACACGTCATGTACAAAAACATGTGACACGTCATGGTTAGGTTGTT
Found at i:24047134 original size:69 final size:69
Alignment explanation
Indices: 24047023--24047162 Score: 208
Period size: 69 Copynumber: 2.0 Consensus size: 69
24047013 ATTACACATT
* * * *
24047023 ATATATAAAAATATGTGACACGTCAAGGTTAGATTGTTACACGTCATATATAAAAATATGTGACA
1 ATATATAAAAACATATGACACGTCAAGGTTAGATTGTTACACGTCATATACAAAAACATGTGACA
24047088 CGTC
66 CGTC
* * * *
24047092 ATATATAAAAACATATGACACGTCAAGGTTGGGTTGTTACACGTTATGTACAAAAACATGTGACA
1 ATATATAAAAACATATGACACGTCAAGGTTAGATTGTTACACGTCATATACAAAAACATGTGACA
24047157 CGTC
66 CGTC
24047161 AT
1 AT
24047163 GGTTAGGTTG
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
69 63 1.00
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.29
Consensus pattern (69 bp):
ATATATAAAAACATATGACACGTCAAGGTTAGATTGTTACACGTCATATACAAAAACATGTGACA
CGTC
Found at i:24047230 original size:21 final size:21
Alignment explanation
Indices: 24047206--24047250 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
24047196 GTAACACGTT
*
24047206 ATGGTTAGGTTGTTACATGCC
1 ATGGTTAGGTTGTTACACGCC
*
24047227 ATGGTTAGGTTGTTATACGCC
1 ATGGTTAGGTTGTTACACGCC
24047248 ATG
1 ATG
24047251 TACAAAAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.20, C:0.13, G:0.29, T:0.38
Consensus pattern (21 bp):
ATGGTTAGGTTGTTACACGCC
Found at i:24047239 original size:66 final size:66
Alignment explanation
Indices: 24047160--24047285 Score: 198
Period size: 66 Copynumber: 1.9 Consensus size: 66
24047150 TGTGACACGT
* * *
24047160 CATGGTTAGGTTGTTACACACTATGTACAAAAACATGTAACACGTTATGGTTAGGTTGTTACATG
1 CATGGTTAGGTTGTTACACACCATGTACAAAAACAGGTAACACGTCATGGTTAGGTTGTTACATG
24047225 C
66 C
* * *
24047226 CATGGTTAGGTTGTTATACGCCATGTACAAAAACAGGTGACACGTCATGGTTAGGTTGTT
1 CATGGTTAGGTTGTTACACACCATGTACAAAAACAGGTAACACGTCATGGTTAGGTTGTT
24047286 GTACGTCATA
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
66 54 1.00
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.33
Consensus pattern (66 bp):
CATGGTTAGGTTGTTACACACCATGTACAAAAACAGGTAACACGTCATGGTTAGGTTGTTACATG
C
Found at i:24047275 original size:111 final size:111
Alignment explanation
Indices: 24047029--24047450 Score: 425
Period size: 111 Copynumber: 3.8 Consensus size: 111
24047019 CATTATATAT
* * * *
24047029 AAAAATATGTGACACGTCAAGGTTAGATTGTTACACGTCATATATAAAAATATGTGACACGTCAT
1 AAAAACATGTGACACGTCATGGTTAGGTTGTTACACGTCATATACAAAAATATGTGACACGTCAT
* *** * * * * * * **
24047094 -ATATAAAAACATATGACACGTCAAGGTTGGGTTGTTACACGTTATGTAC
66 GGT-T---AGGTTGTTACATGCCATGGTTAGGTTGTTACACGCCATGTAC
* * * * *
24047143 AAAAACATGTGACACGTCATGGTTAGGTTGTTACAC-ACTATGTACAAAAACATGTAACACGTTA
1 AAAAACATGTGACACGTCATGGTTAGGTTGTTACACGTC-ATATACAAAAATATGTGACACGTCA
*
24047207 TGGTTAGGTTGTTACATGCCATGGTTAGGTTGTTATACGCCATGTAC
65 TGGTTAGGTTGTTACATGCCATGGTTAGGTTGTTACACGCCATGTAC
* **
24047254 AAAAACAGGTGACACGTCATGGTTAGGTTGTTGTACGTCATATACAAAAATATGTGACACGTCAT
1 AAAAACATGTGACACGTCATGGTTAGGTTGTTACACGTCATATACAAAAATATGTGACACGTCAT
* * ** * *** * *
24047319 GGTTAAGTTTTTACACACCATGATTAGGTTGCCCCATGCCATATAC
66 GGTTAGGTTGTTACATGCCATGGTTAGGTTGTTACACGCCATGTAC
* * * * *
24047365 AAAAACATGCGACACGCCATGGTTAGGTTATTACACGTCATATACAAAAATATATGACACGCCAT
1 AAAAACATGTGACACGTCATGGTTAGGTTGTTACACGTCATATACAAAAATATGTGACACGTCAT
24047430 GGTTAGGTTGTTACATGCCAT
66 GGTTAGGTTGTTACATGCCAT
24047451 ATTGAAAAAA
Statistics
Matches: 252, Mismatches: 53, Indels: 9
0.80 0.17 0.03
Matches are distributed among these distances:
111 194 0.77
112 1 0.00
113 1 0.00
114 55 0.22
115 1 0.00
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.30
Consensus pattern (111 bp):
AAAAACATGTGACACGTCATGGTTAGGTTGTTACACGTCATATACAAAAATATGTGACACGTCAT
GGTTAGGTTGTTACATGCCATGGTTAGGTTGTTACACGCCATGTAC
Found at i:24047300 original size:45 final size:45
Alignment explanation
Indices: 24047226--24047323 Score: 151
Period size: 45 Copynumber: 2.2 Consensus size: 45
24047216 TGTTACATGC
*
24047226 CATGGTTAGGTTGTTATACGCCATGTACAAAAACAGGTGACACGT
1 CATGGTTAGGTTGTTATACGCCATATACAAAAACAGGTGACACGT
* * * *
24047271 CATGGTTAGGTTGTTGTACGTCATATACAAAAATATGTGACACGT
1 CATGGTTAGGTTGTTATACGCCATATACAAAAACAGGTGACACGT
24047316 CATGGTTA
1 CATGGTTA
24047324 AGTTTTTACA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (45 bp):
CATGGTTAGGTTGTTATACGCCATATACAAAAACAGGTGACACGT
Found at i:24047452 original size:45 final size:45
Alignment explanation
Indices: 24047353--24047452 Score: 146
Period size: 45 Copynumber: 2.2 Consensus size: 45
24047343 TAGGTTGCCC
*
24047353 CATGCCATATACAAAAACATGCGACACGCCATGGTTAGGTTATTA
1 CATGCCATATACAAAAACATACGACACGCCATGGTTAGGTTATTA
* * * * *
24047398 CACGTCATATACAAAAATATATGACACGCCATGGTTAGGTTGTTA
1 CATGCCATATACAAAAACATACGACACGCCATGGTTAGGTTATTA
24047443 CATGCCATAT
1 CATGCCATAT
24047453 TGAAAAAAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (45 bp):
CATGCCATATACAAAAACATACGACACGCCATGGTTAGGTTATTA
Found at i:24047488 original size:32 final size:32
Alignment explanation
Indices: 24047436--24047520 Score: 95
Period size: 29 Copynumber: 2.8 Consensus size: 32
24047426 CCATGGTTAG
* *
24047436 GTTGTTACATGCCATATTGAAAAAAAAATATT
1 GTTGTTACACGTCATATTGAAAAAAAAATATT
* *
24047468 GTTGTTACACGTCATGTTG---AAATAATATT
1 GTTGTTACACGTCATATTGAAAAAAAAATATT
* *
24047497 TTTGTTACACGTCATATTCAAAAA
1 GTTGTTACACGTCATATTGAAAAA
24047521 CATTTTGTTA
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
29 25 0.58
32 18 0.42
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.38
Consensus pattern (32 bp):
GTTGTTACACGTCATATTGAAAAAAAAATATT
Found at i:24047494 original size:29 final size:27
Alignment explanation
Indices: 24047459--24047533 Score: 96
Period size: 29 Copynumber: 2.7 Consensus size: 27
24047449 ATATTGAAAA
* *
24047459 AAAAATATTGTTGTTACACGTCATGTTG
1 AAAAATATT-TTGTTACACGTCATATTC
24047487 AAATAATATTTTTGTTACACGTCATATTC
1 AAA-AATA-TTTTGTTACACGTCATATTC
*
24047516 AAAAACATTTTGTTACAC
1 AAAAATATTTTGTTACAC
24047534 TTTTACACCA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
27 11 0.26
28 6 0.14
29 23 0.55
30 2 0.05
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (27 bp):
AAAAATATTTTGTTACACGTCATATTC
Found at i:24051603 original size:11 final size:10
Alignment explanation
Indices: 24051567--24051604 Score: 51
Period size: 11 Copynumber: 3.7 Consensus size: 10
24051557 AATCCACCAT
24051567 AAAAAAATACA
1 AAAAAAAT-CA
24051578 AAAAAAAT-A
1 AAAAAAATCA
24051587 AAAAAAATCA
1 AAAAAAATCA
24051597 AAGAAAAA
1 AA-AAAAA
24051605 GTTCACAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 9 0.36
10 3 0.12
11 13 0.52
ACGTcount: A:0.84, C:0.05, G:0.03, T:0.08
Consensus pattern (10 bp):
AAAAAAATCA
Found at i:24052805 original size:25 final size:23
Alignment explanation
Indices: 24052777--24052837 Score: 61
Period size: 25 Copynumber: 2.5 Consensus size: 23
24052767 TAAAAAAAAT
*
24052777 AAAATAATAAATAGATAA-AATGGAA
1 AAAATAA-AAATACATAATAAT--AA
*
24052802 AAAATAAAAAAAACATAATAATAA
1 AAAAT-AAAAATACATAATAATAA
24052826 AAAATAAAAATA
1 AAAATAAAAATA
24052838 AAATAAGCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
23 6 0.19
24 7 0.23
25 13 0.42
26 5 0.16
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.18
Consensus pattern (23 bp):
AAAATAAAAATACATAATAATAA
Found at i:24052826 original size:31 final size:30
Alignment explanation
Indices: 24052770--24052827 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 30
24052760 TCAAAAATAA
* *
24052770 AAAAAATAAAATAATAAATAGATAAAATGG
1 AAAAAATAAAAAAACAAATAGATAAAATGG
24052800 AAAAAATAAAAAAAACATAATA-ATAAAA
1 AAAAAAT-AAAAAAACA-AATAGATAAAA
24052828 AATAAAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 7 0.29
31 13 0.54
32 4 0.17
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.17
Consensus pattern (30 bp):
AAAAAATAAAAAAACAAATAGATAAAATGG
Found at i:24052849 original size:24 final size:24
Alignment explanation
Indices: 24052800--24052850 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
24052790 GATAAAATGG
*
24052800 AAAAAATAAAAAAAACATAATAAT
1 AAAAAATAAAAAAAACATAAGAAT
*
24052824 AAAAAATAAAAATAAA-ATAAGCAT
1 AAAAAATAAAAA-AAACATAAGAAT
24052848 AAA
1 AAA
24052851 CTTCACAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 21 0.88
25 3 0.12
ACGTcount: A:0.78, C:0.04, G:0.02, T:0.16
Consensus pattern (24 bp):
AAAAAATAAAAAAAACATAAGAAT
Found at i:24054427 original size:22 final size:21
Alignment explanation
Indices: 24054399--24054440 Score: 75
Period size: 22 Copynumber: 2.0 Consensus size: 21
24054389 TTTTTTCGTA
24054399 AAAATAAAAAAAGAGGAAAAAG
1 AAAATAAAAAAA-AGGAAAAAG
24054421 AAAATAAAAAAAAGGAAAAA
1 AAAATAAAAAAAAGGAAAAA
24054441 CAAATATCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.81, C:0.00, G:0.14, T:0.05
Consensus pattern (21 bp):
AAAATAAAAAAAAGGAAAAAG
Found at i:24054431 original size:21 final size:22
Alignment explanation
Indices: 24054399--24054440 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
24054389 TTTTTTCGTA
*
24054399 AAAATAAAAAAAGAGGAAAAAG
1 AAAATAAAAAAAAAGGAAAAAG
24054421 AAAAT-AAAAAAAAGGAAAAA
1 AAAATAAAAAAAAAGGAAAAA
24054441 CAAATATCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.81, C:0.00, G:0.14, T:0.05
Consensus pattern (22 bp):
AAAATAAAAAAAAAGGAAAAAG
Found at i:24054647 original size:20 final size:20
Alignment explanation
Indices: 24054603--24054640 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
24054593 TTTCTCGTAA
24054603 AAAAT-AAAAAAAGGAAAAG
1 AAAATAAAAAAAAGGAAAAG
24054622 AAAATAAAAAAAAGGAAAA
1 AAAATAAAAAAAAGGAAAA
24054641 ACAAATATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.82, C:0.00, G:0.13, T:0.05
Consensus pattern (20 bp):
AAAATAAAAAAAAGGAAAAG
Found at i:24054657 original size:201 final size:202
Alignment explanation
Indices: 24054266--24054674 Score: 736
Period size: 202 Copynumber: 2.0 Consensus size: 202
24054256 CGGAAATAAG
24054266 AAAAAGTAAGGAAAAAGAAACAAACAAAGTCTTTTCTTTTATTTCTTTTGTTCTTTAAAAATTAT
1 AAAAAGTAAGGAAAAAGAAACAAACAAAGTCTTTTCTTTTATTTCTTTTGTTCTTTAAAAATTAT
*
24054331 GAAAACAAATAAAAGAAAAAGAGAATAAAGAATTAAGAATGATATTTCTGTCAATTGTTTTTTTC
66 GAAAACAAATAAAAGAAAAAGAGAATAAAGAATTAAGAATGATATTTCTGTCAATTATTTTTTTC
24054396 GTAAAAATAAAAAAAGAGGAAAAAGAAAATAAAAAAAAGGAAAAACAAATATCTTCCATTTAAAT
131 GTAAAAATAAAAAAAGAGGAAAAAGAAAATAAAAAAAAGGAAAAACAAATATCTTCCATTTAAAT
24054461 AGGAATA
196 AGGAATA
* *
24054468 AAAAANTAA-GAAAAAGAAAACAAACAATGTCTTTTCTTTTATTTCTTTTGTTCTTTAAAAATTA
1 AAAAAGTAAGGAAAAAG-AAACAAACAAAGTCTTTTCTTTTATTTCTTTTGTTCTTTAAAAATTA
24054532 TGAAAACAAATAAAAGAAAAAGAGAATAAAGAATTAAGAATGATATTTCTGTCAATTATTTTTTC
65 TGAAAACAAATAAAAGAAAAAGAGAATAAAGAATTAAGAATGATATTTCTGTCAATTATTTTTT-
24054597 TCGTAAAAA-ATAAAAAA-AGG-AAAAGAAAATAAAAAAAAGGAAAAACAAATATCTTCCATTTA
129 TCGTAAAAATA-AAAAAAGAGGAAAAAGAAAATAAAAAAAAGGAAAAACAAATATCTTCCATTTA
24054659 AATAGGAATA
193 AATAGGAATA
24054669 AAAAAG
1 AAAAAG
24054675 AAATAAAAAG
Statistics
Matches: 200, Mismatches: 4, Indels: 7
0.95 0.02 0.03
Matches are distributed among these distances:
201 64 0.32
202 121 0.61
203 15 0.08
ACGTcount: A:0.54, C:0.07, G:0.11, T:0.28
Consensus pattern (202 bp):
AAAAAGTAAGGAAAAAGAAACAAACAAAGTCTTTTCTTTTATTTCTTTTGTTCTTTAAAAATTAT
GAAAACAAATAAAAGAAAAAGAGAATAAAGAATTAAGAATGATATTTCTGTCAATTATTTTTTTC
GTAAAAATAAAAAAAGAGGAAAAAGAAAATAAAAAAAAGGAAAAACAAATATCTTCCATTTAAAT
AGGAATA
Found at i:24056265 original size:5 final size:6
Alignment explanation
Indices: 24056250--24056325 Score: 55
Period size: 6 Copynumber: 12.0 Consensus size: 6
24056240 GATTTCTCAA
* *
24056250 AAAAAT AAAAAT AAAAAT GCAAAAAC AAAAAA ATAAAAT ACAAAA- AAAAAT
1 AAAAAT AAAAAT AAAAAT --AAAAAT AAAAAT A-AAAAT A-AAAAT AAAAAT
* * *
24056301 AAATAC AAAAAC AAAAAT GAAAAAT
1 AAAAAT AAAAAT AAAAAT -AAAAAT
24056326 GATGATTAAT
Statistics
Matches: 57, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
5 4 0.07
6 33 0.58
7 15 0.26
8 5 0.09
ACGTcount: A:0.79, C:0.07, G:0.03, T:0.12
Consensus pattern (6 bp):
AAAAAT
Found at i:24056273 original size:21 final size:21
Alignment explanation
Indices: 24056247--24056317 Score: 83
Period size: 22 Copynumber: 3.3 Consensus size: 21
24056237 GAGGATTTCT
*
24056247 CAAAAAAATAAAAATAAAAATG
1 CAAAAAAA-AAAAATAAAAATA
24056269 CAAAAACAAAAAAAT-AAAATA
1 CAAAAA-AAAAAAATAAAAATA
24056290 CAAAAAAAAATAAATACAAAA-A
1 CAAAAAAAAA-AAATA-AAAATA
24056312 CAAAAA
1 CAAAAA
24056318 TGAAAAATGA
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
20 4 0.09
21 15 0.34
22 19 0.43
23 6 0.14
ACGTcount: A:0.80, C:0.08, G:0.01, T:0.10
Consensus pattern (21 bp):
CAAAAAAAAAAAATAAAAATA
Found at i:24056298 original size:16 final size:16
Alignment explanation
Indices: 24056276--24056316 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 16
24056266 ATGCAAAAAC
24056276 AAAAAAATAAAATACAA
1 AAAAAAAT-AAATACAA
24056293 AAAAAAATAAATACAA
1 AAAAAAATAAATACAA
24056309 AAACAAAA
1 AAA-AAAA
24056317 ATGAAAAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 11 0.48
17 12 0.52
ACGTcount: A:0.83, C:0.07, G:0.00, T:0.10
Consensus pattern (16 bp):
AAAAAAATAAATACAA
Found at i:24056325 original size:21 final size:20
Alignment explanation
Indices: 24056250--24056325 Score: 79
Period size: 20 Copynumber: 3.9 Consensus size: 20
24056240 GATTTCTCAA
* *
24056250 AAAAATAAAAATAAAAATGC
1 AAAAACAAAAATAAAAATAC
*
24056270 AAAAACAAAAAAATAAAATAC
1 AAAAACAAAAATA-AAAATAC
24056291 -AAAA-AAAAAT--AAATAC
1 AAAAACAAAAATAAAAATAC
24056307 AAAAACAAAAATGAAAAAT
1 AAAAACAAAAAT-AAAAAT
24056326 GATGATTAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
16 6 0.13
17 4 0.09
18 6 0.13
19 5 0.11
20 15 0.33
21 10 0.22
ACGTcount: A:0.79, C:0.07, G:0.03, T:0.12
Consensus pattern (20 bp):
AAAAACAAAAATAAAAATAC
Found at i:24060196 original size:84 final size:84
Alignment explanation
Indices: 24060089--24060243 Score: 220
Period size: 84 Copynumber: 1.8 Consensus size: 84
24060079 AAAAAGAAAA
** * *
24060089 AAAGAAAAAAGCAAGTGTGAAAGATGAAGCTCTAGGGTGAAAACCCGAAAGTGCAATTTAGAGCG
1 AAAGAAAAAAGCAAGTGAAAAAGATGAAGCTCTAGGGTGAAAACCCGAAAGGGCAATCTAGAGCG
24060154 AAGATGAAAAAAAATGGGG
66 AAGATGAAAAAAAATGGGG
** ** * *
24060173 AAAGAAAAAAGTGAGTGAAAAAGATGAAGCTCTAGGGTGAAAACTTGAAAGGGTAGTCTAGAGCG
1 AAAGAAAAAAGCAAGTGAAAAAGATGAAGCTCTAGGGTGAAAACCCGAAAGGGCAATCTAGAGCG
24060238 AAGATG
66 AAGATG
24060244 GGAATTTATG
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
84 61 1.00
ACGTcount: A:0.46, C:0.08, G:0.30, T:0.15
Consensus pattern (84 bp):
AAAGAAAAAAGCAAGTGAAAAAGATGAAGCTCTAGGGTGAAAACCCGAAAGGGCAATCTAGAGCG
AAGATGAAAAAAAATGGGG
Found at i:24061763 original size:141 final size:139
Alignment explanation
Indices: 24061403--24061895 Score: 680
Period size: 141 Copynumber: 3.5 Consensus size: 139
24061393 ACATTTCATA
* * * *
24061403 TAATTAATGTCAAGATTTTTTAAAGTTACATTGCCTCAGTTTTCGAGGAGCCACATTTCTTAAAT
1 TAATTAGTTTCAAGA-TTTTTAAAGTTACGTTGCCTCAGTTTTCGAGGAGCCACATTTCCTAAAT
* * * * * * ** *
24061468 CCTCTAGGTATATTTCAACACCTCTGGGCACATTATTCTCTTAAATCCTCTAGGTAAATTTTCTA
65 CCTCTAGGTACATTTTAAGACCTCCGAGCACATTATTCTCTTAAATCCTC-GGGTGCATCTTCTA
24061533 AAACCTCCGGG
129 AAACCTCCGGG
* * *
24061544 TACTTAGTGTCAAGATTTTTTAAAAGTTACGTTGCCTTAGTTTTCGAGGAGCCACATTTCCTAAA
1 TAATTAGTTTCAAGA-TTTTT-AAAGTTACGTTGCCTCAGTTTTCGAGGAGCCACATTTCCTAAA
* * *
24061609 TCCTTTGGGTACATCTTTAAGACCTCCAAGCACATTATTCTCTTAAATCCTGCGGGTGCATCTTC
64 TCCTCTAGGTACAT-TTTAAGACCTCCGAGCACATTATTCTCTTAAATCCT-CGGGTGCATCTTC
*
24061674 TAAAACCTCCAGG
127 TAAAACCTCCGGG
*
24061687 TAATTAGTTTCCAGATTTTTAAAGTTACGTTGCCTCAGTTTTCGAGGAGCCACATTTCCTAAATC
1 TAATTAGTTTCAAGATTTTTAAAGTTACGTTGCCTCAGTTTTCGAGGAGCCACATTTCCTAAATC
*
24061752 CTCTAGGTACATTTTCAAGACCTTCGAGCACATTATTCTCTTAAATCCTCCGGGTGCATCTTCTA
66 CTCTAGGTACATTTT-AAGACCTCCGAGCACATTATTCTCTTAAATCCT-CGGGTGCATCTTCTA
*
24061817 AAACCTCTGGG
129 AAACCTCCGGG
* * *
24061828 TAATTAGTTTCAAGATTTTTAGAGTTACGTTACCTCAGTTTTCGAGGAGCCACATTTCTTAAATC
1 TAATTAGTTTCAAGATTTTTAAAGTTACGTTGCCTCAGTTTTCGAGGAGCCACATTTCCTAAATC
24061893 CTC
66 CTC
24061896 CGGGTGCATC
Statistics
Matches: 315, Mismatches: 33, Indels: 8
0.88 0.09 0.02
Matches are distributed among these distances:
140 3 0.01
141 192 0.61
142 56 0.18
143 63 0.20
144 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.36
Consensus pattern (139 bp):
TAATTAGTTTCAAGATTTTTAAAGTTACGTTGCCTCAGTTTTCGAGGAGCCACATTTCCTAAATC
CTCTAGGTACATTTTAAGACCTCCGAGCACATTATTCTCTTAAATCCTCGGGTGCATCTTCTAAA
ACCTCCGGG
Found at i:24062060 original size:92 final size:93
Alignment explanation
Indices: 24061788--24062060 Score: 410
Period size: 92 Copynumber: 2.9 Consensus size: 93
24061778 AGCACATTAT
*
24061788 TCTCTTAAATCCTCCGGGTGCATCTTCTAAAACCTCTGGGTAATTAGTTTCAAGATTTTTAGAGT
1 TCTCTTAAATCCTCCGGGTGCATCTTCTAAAACCTCTGGGTAATTAGTTTCAA-ATTTTTAAAGT
*
24061853 TACGTTACCTCAGTTTTCGAGGAGCCACA
65 TACGTTGCCTCAGTTTTCGAGGAGCCACA
*
24061882 TTTCTTAAATCCTCCGGGTGCATCTTCTAAAACCTCTGGGTAATTAGTTTC--ATTTTTAAAAGT
1 TCTCTTAAATCCTCCGGGTGCATCTTCTAAAACCTCTGGGTAATTAGTTTCAAATTTTT-AAAGT
*
24061945 TACGTTGCCTCAGTTTTCAAGGAGCCACA
65 TACGTTGCCTCAGTTTTCGAGGAGCCACA
** ** *
24061974 TCTCTTAAATCCTCTAGGTGCATCTTCTAAAACCTCCAGGTAATTAGTTTCAAAATTTTAAAGTC
1 TCTCTTAAATCCTCCGGGTGCATCTTCTAAAACCTCTGGGTAATTAGTTTCAAATTTTTAAAGT-
24062039 T-CGTTGCCTCAGTTTT-GAGGAG
65 TACGTTGCCTCAGTTTTCGAGGAG
24062061 TTCATTTTTA
Statistics
Matches: 164, Mismatches: 11, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
91 6 0.04
92 82 0.50
93 20 0.12
94 56 0.34
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (93 bp):
TCTCTTAAATCCTCCGGGTGCATCTTCTAAAACCTCTGGGTAATTAGTTTCAAATTTTTAAAGTT
ACGTTGCCTCAGTTTTCGAGGAGCCACA
Found at i:24062107 original size:37 final size:37
Alignment explanation
Indices: 24062029--24062498 Score: 417
Period size: 37 Copynumber: 12.3 Consensus size: 37
24062019 AGTTTCAAAA
* *
24062029 TTTTAAAGTCTCGTTGCCTCAGTTTTGAGGAGTTCAT
1 TTTTAAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCAT
* **
24062066 TTTTAAAAGTCTCGTTGCCTCAGCTTTGAAAAGTTCAT
1 TTTT-AAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCAT
* * *
24062104 TTTAAAAGTCTCGTTGCCTCAGCTTTTAGGAGTTCAT
1 TTTTAAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCAT
* * * * * **
24062141 TTTTAAGGTCAT-ATTGCCTCAGCTTTTAAGAGCCACAT
1 TTTTAAAGT-TTCGTTGCCTCAGCTTTGAGGAG-TTCAT
*
24062179 TTTTAAAGTTAT-GTTGCCTCAGCTTTGGGGAGTTTCAT
1 TTTTAAAGTT-TCGTTGCCTCAGCTTTGAGGAG-TTCAT
* * ** *
24062217 ATTTAAAGTTTCATTGCCTCAATTTTGAGGAGTTTATT
1 TTTTAAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCA-T
*
24062255 TTTTAAAAAAAGGTTTTGTTGCCTCAGCTTTGAGGAGTTCAT
1 TTTT----AAA-GTTTCGTTGCCTCAGCTTTGAGGAGTTCAT
* * ** *
24062297 TTTAAAAGTTTCATTGCCTCAATTTTGAGGAGTTTATT
1 TTTTAAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCA-T
* *
24062335 TTTTAAAAAAAGTTTCGTTACCTCAACTTTGAGGAGTTCAT
1 TTTT----AAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCAT
* *
24062376 TTTTCAAGTTTCGTTGCCTCAGTTTTGAGGAGTAT-AT
1 TTTTAAAGTTTCGTTGCCTCAGCTTTGAGGAGT-TCAT
* * *
24062413 TTTTAAAGTCTC-ATGACCTCAACTTTGAGGAGTTCAT
1 TTTTAAAGTTTCGTTG-CCTCAGCTTTGAGGAGTTCAT
* **
24062450 TTTTCAAGTTTCGTTGCCTCAATTTTGAGGAGTTCAT
1 TTTTAAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCAT
24062487 TTTTAAAGTTTC
1 TTTTAAAGTTTC
24062499 ATTTTAAAAA
Statistics
Matches: 353, Mismatches: 60, Indels: 40
0.78 0.13 0.09
Matches are distributed among these distances:
36 3 0.01
37 182 0.52
38 104 0.29
41 5 0.01
42 35 0.10
43 24 0.07
ACGTcount: A:0.24, C:0.15, G:0.18, T:0.43
Consensus pattern (37 bp):
TTTTAAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCAT
Found at i:24062180 original size:75 final size:73
Alignment explanation
Indices: 24062028--24062237 Score: 228
Period size: 75 Copynumber: 2.8 Consensus size: 73
24062018 TAGTTTCAAA
*
24062028 ATTTTAAAGTCTCGTTGCCTCAG-TTTTGAGGAGTTCATTTTTAAAAGTCTCGTTGCCTCAGCTT
1 ATTTTAAAGTCTCGTTGCCTCAGCTTTT-AGGAGTTCATTTTT-AAAGTCTCATTGCCTCAGCTT
**
24062092 TGAAAAGTTC
64 TGAAAAGCAC
*
24062102 ATTTTAAAAGTCTCGTTGCCTCAGCTTTTAGGAGTTCATTTTTAAGGTCAT-ATTGCCTCAGCTT
1 ATTTT-AAAGTCTCGTTGCCTCAGCTTTTAGGAGTTCATTTTTAAAGTC-TCATTGCCTCAGCTT
* *
24062166 TTAAGAGCCAC
64 TGAAAAG-CAC
* ** * *
24062177 ATTTTTAAAGT-TATGTTGCCTCAGCTTTGGGGAGTTTCATATTTAAAGTTTCATTGCCTCA
1 A-TTTTAAAGTCT-CGTTGCCTCAGCTTTTAGGAG-TTCATTTTTAAAGTCTCATTGCCTCA
24062238 ATTTTGAGGA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
74 28 0.24
75 59 0.51
76 29 0.25
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.41
Consensus pattern (73 bp):
ATTTTAAAGTCTCGTTGCCTCAGCTTTTAGGAGTTCATTTTTAAAGTCTCATTGCCTCAGCTTTG
AAAAGCAC
Found at i:24062920 original size:9 final size:9
Alignment explanation
Indices: 24062902--24062952 Score: 66
Period size: 10 Copynumber: 5.2 Consensus size: 9
24062892 ACAATCCACC
24062902 ATAAAAAAA
1 ATAAAAAAA
24062911 ATACAAAAAA
1 ATA-AAAAAA
24062921 ATCAAAAAAA
1 AT-AAAAAAA
24062931 ATAAAAAAA
1 ATAAAAAAA
24062940 ATCAAAGAAAA
1 AT-AAA-AAAA
24062951 AT
1 AT
24062953 TCACAATGAG
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
9 12 0.32
10 19 0.50
11 7 0.18
ACGTcount: A:0.80, C:0.06, G:0.02, T:0.12
Consensus pattern (9 bp):
ATAAAAAAA
Done.