Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 157 of 163
Found at i:52430699 original size:11 final size:12
Alignment explanation
Indices: 52430659--52430697 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
52430649 CACGATCATT
*
52430659 AAAATATATGAA
1 AAAATATATAAA
52430671 AAAAT-TATAAA
1 AAAATATATAAA
52430682 AATAATATATAAA
1 AA-AATATATAAA
52430695 AAA
1 AAA
52430698 TACATACTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
11 7 0.29
12 9 0.38
13 8 0.33
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.26
Consensus pattern (12 bp):
AAAATATATAAA
Found at i:52432354 original size:35 final size:35
Alignment explanation
Indices: 52432308--52432377 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
52432298 ATAGCAGTAG
52432308 GAACACAATTTTACAGGTTAGAATTAAGTGAACTT
1 GAACACAATTTTACAGGTTAGAATTAAGTGAACTT
52432343 GAACACAATTTTACAGGTTAGAATTAAGTGAACTT
1 GAACACAATTTTACAGGTTAGAATTAAGTGAACTT
52432378 ACTCATGACT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.31
Consensus pattern (35 bp):
GAACACAATTTTACAGGTTAGAATTAAGTGAACTT
Found at i:52437572 original size:12 final size:12
Alignment explanation
Indices: 52437551--52437584 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
52437541 TATATATTTT
*
52437551 AAAATTATATAA
1 AAAATAATATAA
52437563 AAAATAATATAA
1 AAAATAATATAA
*
52437575 AAATTAATAT
1 AAAATAATAT
52437585 GGGCGGGCCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:52438709 original size:2 final size:2
Alignment explanation
Indices: 52438696--52438727 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
52438686 ACAATCAAAC
*
52438696 TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
52438728 AAAGAATAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:52442392 original size:87 final size:88
Alignment explanation
Indices: 52442281--52442455 Score: 343
Period size: 87 Copynumber: 2.0 Consensus size: 88
52442271 GACAAAGTAA
52442281 AATATATATATATATATATATGATATAATAGCTAATTTGGTTATTAGTGTAATAATAACCTGCTA
1 AATATATATATATATATATATGATATAATAGCTAATTTGGTTATTAGTGTAATAATAACCTGCTA
52442346 GTCTGTAATCTGTATGGTATTAC
66 GTCTGTAATCTGTATGGTATTAC
52442369 AATATATATA-ATATATATATGATATAATAGCTAATTTGGTTATTAGTGTAATAATAACCTGCTA
1 AATATATATATATATATATATGATATAATAGCTAATTTGGTTATTAGTGTAATAATAACCTGCTA
52442433 GTCTGTAATCTGTATGGTATTAC
66 GTCTGTAATCTGTATGGTATTAC
52442456 CGTCATTAAC
Statistics
Matches: 87, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
87 77 0.89
88 10 0.11
ACGTcount: A:0.37, C:0.08, G:0.14, T:0.42
Consensus pattern (88 bp):
AATATATATATATATATATATGATATAATAGCTAATTTGGTTATTAGTGTAATAATAACCTGCTA
GTCTGTAATCTGTATGGTATTAC
Found at i:52445242 original size:2 final size:2
Alignment explanation
Indices: 52445235--52445262 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
52445225 TAGGTAATAC
52445235 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
52445263 TTGGTCCTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:52459743 original size:43 final size:43
Alignment explanation
Indices: 52459682--52459778 Score: 185
Period size: 43 Copynumber: 2.2 Consensus size: 43
52459672 GCAACCTAAC
52459682 AACAAAAGATGTCCATTAGCAATTATCCTCTTGGCCAGAAAAA
1 AACAAAAGATGTCCATTAGCAATTATCCTCTTGGCCAGAAAAA
52459725 AACAAAAGATGTCCATTAGCAATTATCCTCTTGGCCAGAAAAA
1 AACAAAAGATGTCCATTAGCAATTATCCTCTTGGCCAGAAAAA
52459768 AACAAACAGAT
1 AACAAA-AGAT
52459779 CATATATATT
Statistics
Matches: 53, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
43 49 0.92
44 4 0.08
ACGTcount: A:0.44, C:0.21, G:0.13, T:0.22
Consensus pattern (43 bp):
AACAAAAGATGTCCATTAGCAATTATCCTCTTGGCCAGAAAAA
Found at i:52473472 original size:40 final size:39
Alignment explanation
Indices: 52473349--52473484 Score: 159
Period size: 40 Copynumber: 3.5 Consensus size: 39
52473339 CGACTTCGAG
*
52473349 TCGATGAGACACTAGGTGTCAATTTACTACTTCGGATTAAT
1 TCGATGAGACACTGGGTGTCAATTTA-TACTTCGGATT-AT
* * * *
52473390 TCGATGAGGCACTGGGTGCCAA-TTA-ACTTCGGTTTAG
1 TCGATGAGACACTGGGTGTCAATTTATACTTCGGATTAT
* *
52473427 ACGATGAGACACTGGGTGTCAATTTATTACTTCGAATTAT
1 TCGATGAGACACTGGGTGTCAATTTA-TACTTCGGATTAT
*
52473467 TCGATGAGGCACTGGGTG
1 TCGATGAGACACTGGGTG
52473485 CCAAACTGGT
Statistics
Matches: 79, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
37 20 0.25
38 12 0.15
40 28 0.35
41 19 0.24
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.32
Consensus pattern (39 bp):
TCGATGAGACACTGGGTGTCAATTTATACTTCGGATTAT
Found at i:52479053 original size:15 final size:16
Alignment explanation
Indices: 52479033--52479064 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
52479023 ACCTAAACTA
52479033 TTACTTT-TGTTTTAG
1 TTACTTTATGTTTTAG
52479048 TTACTTTATGTTTTAG
1 TTACTTTATGTTTTAG
52479064 T
1 T
52479065 CATTTATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.16, C:0.06, G:0.12, T:0.66
Consensus pattern (16 bp):
TTACTTTATGTTTTAG
Found at i:52479070 original size:15 final size:16
Alignment explanation
Indices: 52479035--52479071 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
52479025 CTAAACTATT
*
52479035 ACTTT-TGTTTTAGTT
1 ACTTTATGTTTTAGTC
52479050 ACTTTATGTTTTAGTC
1 ACTTTATGTTTTAGTC
52479066 A-TTTAT
1 ACTTTAT
52479072 TATCGTGTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.19, C:0.08, G:0.11, T:0.62
Consensus pattern (16 bp):
ACTTTATGTTTTAGTC
Found at i:52492822 original size:33 final size:33
Alignment explanation
Indices: 52492777--52492842 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
52492767 CCAACGACAA
* * *
52492777 AACAAACTTAATCTAAGAGTACAATATGAAGGT
1 AACAAACATAATCTAAGAGAAAAATATGAAGGT
*
52492810 AACAAACATAATCTAAGAGAAAAATTTGAAGGT
1 AACAAACATAATCTAAGAGAAAAATATGAAGGT
52492843 CTGCGATGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.52, C:0.11, G:0.15, T:0.23
Consensus pattern (33 bp):
AACAAACATAATCTAAGAGAAAAATATGAAGGT
Found at i:52494844 original size:4 final size:4
Alignment explanation
Indices: 52494828--52494862 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
52494818 TATACCAAAT
* *
52494828 ATAC ATGC ATAC ATAC ATAT ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
52494863 TATAAACATT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.49, C:0.20, G:0.03, T:0.29
Consensus pattern (4 bp):
ATAC
Found at i:52494856 original size:16 final size:16
Alignment explanation
Indices: 52494835--52494866 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
52494825 AATATACATG
52494835 CATACATACATATATA
1 CATACATACATATATA
52494851 CATACATACATATATA
1 CATACATACATATATA
52494867 AACATTTGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.19, G:0.00, T:0.31
Consensus pattern (16 bp):
CATACATACATATATA
Found at i:52508669 original size:19 final size:17
Alignment explanation
Indices: 52508637--52508692 Score: 71
Period size: 16 Copynumber: 3.3 Consensus size: 17
52508627 TTTTTAAATT
*
52508637 TTAAAA-ATAAAAATCA
1 TTAAAATATAAAAATAA
52508653 TTAAAATTATCAAAAATAA
1 TTAAAA-TAT-AAAAATAA
52508672 TT-AAATATAAAAATAA
1 TTAAAATATAAAAATAA
52508688 TTAAA
1 TTAAA
52508693 TGTTGACATG
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
16 16 0.46
17 5 0.14
18 5 0.14
19 9 0.26
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (17 bp):
TTAAAATATAAAAATAA
Found at i:52516106 original size:6 final size:6
Alignment explanation
Indices: 52516095--52516120 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
52516085 CTCTCTCTAT
52516095 ATATAG ATATAG ATATAG ATATAG AT
1 ATATAG ATATAG ATATAG ATATAG AT
52516121 TCATATTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.15, T:0.35
Consensus pattern (6 bp):
ATATAG
Found at i:52522413 original size:15 final size:14
Alignment explanation
Indices: 52522393--52522422 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
52522383 TAGAACATGT
52522393 AAAAATAAAATGAAA
1 AAAAATAAAAT-AAA
52522408 AAAAATAAAATAAA
1 AAAAATAAAATAAA
52522422 A
1 A
52522423 TGAAAGTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.13
Consensus pattern (14 bp):
AAAAATAAAATAAA
Found at i:52530971 original size:2 final size:2
Alignment explanation
Indices: 52530964--52530996 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
52530954 CTGTCCCCAC
52530964 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
52530997 GTTAGAGATT
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:52540859 original size:20 final size:21
Alignment explanation
Indices: 52540836--52540875 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
52540826 TTTATAATGA
*
52540836 TAAAAT-TATATTTTGATTCT
1 TAAAATGTAAATTTTGATTCT
52540856 TAAAATGGTAAATTTTGATT
1 TAAAAT-GTAAATTTTGATT
52540876 TAATCATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
22 11 0.65
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.50
Consensus pattern (21 bp):
TAAAATGTAAATTTTGATTCT
Found at i:52541236 original size:44 final size:43
Alignment explanation
Indices: 52541173--52541267 Score: 165
Period size: 44 Copynumber: 2.2 Consensus size: 43
52541163 ATTCTTTCCG
*
52541173 GTTCTTTATTCATTATACTTTATATTAGTTAAATAATGAATTTT
1 GTTCTTTATTCATTATACTTTATATTAATTAAATAATGAA-TTT
52541217 GTTCTTTATTCATTATACTTTATATTAATTAAATAATGAATTT
1 GTTCTTTATTCATTATACTTTATATTAATTAAATAATGAATTT
52541260 -TTCTTTAT
1 GTTCTTTAT
52541268 AATTGTTTCA
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
42 8 0.16
43 3 0.06
44 39 0.78
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (43 bp):
GTTCTTTATTCATTATACTTTATATTAATTAAATAATGAATTT
Found at i:52542127 original size:37 final size:39
Alignment explanation
Indices: 52542036--52542143 Score: 166
Period size: 39 Copynumber: 2.8 Consensus size: 39
52542026 AAATTATCCA
* *
52542036 ACCCAACCCAATAAAACTAAAACTAAAGTCTATCCAATT
1 ACCCAACCCAATAAAAATAAAACTAAAGTCTACCCAATT
* *
52542075 ACCCAACACAATAAAATTAAAACTAAAGTC-ACCCAATT
1 ACCCAACCCAATAAAAATAAAACTAAAGTCTACCCAATT
52542113 A-CCAACCCAATAAAAATAAAACTAAAGTCTA
1 ACCCAACCCAATAAAAATAAAACTAAAGTCTA
52542144 ACTCTTAAGT
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
37 26 0.41
38 9 0.14
39 28 0.44
ACGTcount: A:0.53, C:0.26, G:0.03, T:0.19
Consensus pattern (39 bp):
ACCCAACCCAATAAAAATAAAACTAAAGTCTACCCAATT
Found at i:52542322 original size:37 final size:38
Alignment explanation
Indices: 52542276--52542351 Score: 109
Period size: 38 Copynumber: 2.0 Consensus size: 38
52542266 TGTTAATTTT
*
52542276 AAGAATTATGT-AATGTTTTTAATTATGTAGTGATTCA
1 AAGAATTATGTGAATATTTTTAATTATGTAGTGATTCA
* * *
52542313 AAGACTTATGTGATTATTTTTAATTATGTGGTGATTCA
1 AAGAATTATGTGAATATTTTTAATTATGTAGTGATTCA
52542351 A
1 A
52542352 TTCGGTTAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
37 10 0.29
38 24 0.71
ACGTcount: A:0.33, C:0.04, G:0.17, T:0.46
Consensus pattern (38 bp):
AAGAATTATGTGAATATTTTTAATTATGTAGTGATTCA
Found at i:52553409 original size:18 final size:20
Alignment explanation
Indices: 52553372--52553413 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
52553362 ATAGAAGTAA
*
52553372 TAAAGTGTATATAATAAAAT
1 TAAAATGTATATAATAAAAT
52553392 TAAAATGTATA-AAT-AAAT
1 TAAAATGTATATAATAAAAT
52553410 TAAA
1 TAAA
52553414 GTAAAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.38
19 3 0.14
20 10 0.48
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (20 bp):
TAAAATGTATATAATAAAAT
Found at i:52559839 original size:72 final size:73
Alignment explanation
Indices: 52559744--52559888 Score: 283
Period size: 72 Copynumber: 2.0 Consensus size: 73
52559734 AAACGTATAC
52559744 CATTCCAAAGTTAAAGTTCCAATCATTCTAAACAAAAACAAAACATTTTCTATTAAAATTTTCCA
1 CATTCCAAAGTTAAAGTTCCAATCATTCTAAACAAAAACAAAACATTTTCTATTAAAATTTTCCA
52559809 ACTTAATA
66 ACTTAATA
52559817 CATTCCAAAG-TAAAGTTCCAATCATTCTAAACAAAAACAAAACATTTTCTATTAAAATTTTCCA
1 CATTCCAAAGTTAAAGTTCCAATCATTCTAAACAAAAACAAAACATTTTCTATTAAAATTTTCCA
52559881 ACTTAATA
66 ACTTAATA
52559889 TGTTTTTTTT
Statistics
Matches: 72, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
72 62 0.86
73 10 0.14
ACGTcount: A:0.46, C:0.19, G:0.03, T:0.32
Consensus pattern (73 bp):
CATTCCAAAGTTAAAGTTCCAATCATTCTAAACAAAAACAAAACATTTTCTATTAAAATTTTCCA
ACTTAATA
Found at i:52572449 original size:16 final size:16
Alignment explanation
Indices: 52572428--52572469 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
52572418 TATATGTGAA
52572428 AAATAATAATATAAA-T
1 AAATAATAAT-TAAATT
52572444 AAATAATACATTAAATT
1 AAATAATA-ATTAAATT
*
52572461 AAAAAATAA
1 AAATAATAA
52572470 CGTTTAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 13 0.57
17 10 0.43
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (16 bp):
AAATAATAATTAAATT
Found at i:52573642 original size:173 final size:174
Alignment explanation
Indices: 52573343--52573690 Score: 689
Period size: 173 Copynumber: 2.0 Consensus size: 174
52573333 ATATATATAT
52573343 ATTATAAATAAAGGAGATACGTTCAAAAGGAACTTGTTACAGTGTGCCTGTTAAAGGCCTATAGC
1 ATTATAAATAAAGGAGATACGTTCAAAAGGAACTTGTTACAGTGTGCCTGTTAAAGGCCTATAGC
52573408 ATTTGACACTTGGTGTAAATCAGATGGTCCCTGACTCGTCAAGCATAATCAGGTATAACTTCAAA
66 ATTTGACACTTGGTGTAAATCAGATGGTCCCTGACTCGTCAAGCATAATCAGGTATAACTTCAAA
52573473 CATTAACAATTTATTAAGCTCACTATTGGCAGCCTTAGCCATAC
131 CATTAACAATTTATTAAGCTCACTATTGGCAGCCTTAGCCATAC
52573517 ATTATAAAT-AAGGAGATACGTTCAAAAGGAACTTGTTACAGTGTGCCTGTTAAAGGCCTATAGC
1 ATTATAAATAAAGGAGATACGTTCAAAAGGAACTTGTTACAGTGTGCCTGTTAAAGGCCTATAGC
52573581 ATTTGACACTTGGTGTAAATCAGATGGTCCCTGACTCGTCAAGCATAATCAGGTATAACTTCAAA
66 ATTTGACACTTGGTGTAAATCAGATGGTCCCTGACTCGTCAAGCATAATCAGGTATAACTTCAAA
52573646 CATTAACAATTTATTAAGCTCACTATTGGCAGCCTTAGCCATAC
131 CATTAACAATTTATTAAGCTCACTATTGGCAGCCTTAGCCATAC
52573690 A
1 A
52573691 ACCTGCCAGC
Statistics
Matches: 174, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
173 165 0.95
174 9 0.05
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (174 bp):
ATTATAAATAAAGGAGATACGTTCAAAAGGAACTTGTTACAGTGTGCCTGTTAAAGGCCTATAGC
ATTTGACACTTGGTGTAAATCAGATGGTCCCTGACTCGTCAAGCATAATCAGGTATAACTTCAAA
CATTAACAATTTATTAAGCTCACTATTGGCAGCCTTAGCCATAC
Found at i:52575134 original size:40 final size:40
Alignment explanation
Indices: 52575071--52575202 Score: 148
Period size: 40 Copynumber: 3.4 Consensus size: 40
52575061 ATTTGGCACT
*
52575071 CAGTGCCTCATCGGA-TAATTCGAAGTAATAAATTGACACC
1 CAGTGCCTCATC-GATTAAATCGAAGTAATAAATTGACACC
* *
52575111 CAGTGTCTCATCGATTAAATCGAAGTAAT---TTGGCACC
1 CAGTGCCTCATCGATTAAATCGAAGTAATAAATTGACACC
* *
52575148 TAGTGCCTCATCGAATT-AATCTGAAGTAGTAAATTGACACC
1 CAGTGCCTCATCG-ATTAAATC-GAAGTAATAAATTGACACC
*
52575189 CAGTGTCTCATCGA
1 CAGTGCCTCATCGA
52575203 CTCGAAGTCA
Statistics
Matches: 77, Mismatches: 9, Indels: 12
0.79 0.09 0.12
Matches are distributed among these distances:
37 22 0.29
38 10 0.13
39 2 0.03
40 25 0.32
41 18 0.23
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (40 bp):
CAGTGCCTCATCGATTAAATCGAAGTAATAAATTGACACC
Found at i:52575193 original size:78 final size:77
Alignment explanation
Indices: 52575059--52575202 Score: 229
Period size: 78 Copynumber: 1.9 Consensus size: 77
52575049 CAAAACACAC
*
52575059 TAATTTGGCACTCAGTGCCTCATCGGATAATTCGAAGTAATAAATTGACACCCAGTGTCTCATCG
1 TAATTTGGCACTCAGTGCCTCATCGAATAATTCGAAGTAATAAATTGACACCCAGTGTCTCATCG
52575124 ATTAAATCGAAG
66 ATTAAATCGAAG
*
52575136 TAATTTGGCAC-CTAGTGCCTCATCGAATTAA-TCTGAAGTAGTAAATTGACACCCAGTGTCTCA
1 TAATTTGGCACTC-AGTGCCTCATCGAA-TAATTC-GAAGTAATAAATTGACACCCAGTGTCTCA
52575199 TCGA
63 TCGA
52575203 CTCGAAGTCA
Statistics
Matches: 62, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
76 1 0.02
77 26 0.42
78 35 0.56
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (77 bp):
TAATTTGGCACTCAGTGCCTCATCGAATAATTCGAAGTAATAAATTGACACCCAGTGTCTCATCG
ATTAAATCGAAG
Found at i:52575199 original size:41 final size:41
Alignment explanation
Indices: 52575071--52575202 Score: 134
Period size: 41 Copynumber: 3.3 Consensus size: 41
52575061 ATTTGGCACT
* *
52575071 CAGTGCCTCATCGGA-TAAT-TCGAAGTAATAAATTGACACC
1 CAGTGCCTCATCGAATTAATCT-GAAGTAGTAAATTGACACC
* * *
52575111 CAGTGTCTCATCG-ATTAAATC-G-A--AGTAATTTGGCACC
1 CAGTGCCTCATCGAATT-AATCTGAAGTAGTAAATTGACACC
*
52575148 TAGTGCCTCATCGAATTAATCTGAAGTAGTAAATTGACACC
1 CAGTGCCTCATCGAATTAATCTGAAGTAGTAAATTGACACC
*
52575189 CAGTGTCTCATCGA
1 CAGTGCCTCATCGA
52575203 CTCGAAGTCA
Statistics
Matches: 74, Mismatches: 10, Indels: 15
0.75 0.10 0.15
Matches are distributed among these distances:
37 26 0.35
38 4 0.05
39 3 0.04
40 14 0.19
41 27 0.36
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (41 bp):
CAGTGCCTCATCGAATTAATCTGAAGTAGTAAATTGACACC
Found at i:52580355 original size:19 final size:19
Alignment explanation
Indices: 52580331--52580370 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
52580321 TTTATATAAA
*
52580331 AAAAT-ATTTATTAATTTAT
1 AAAATAATTAATT-ATTTAT
52580350 AAAATAATTAATTATTTAT
1 AAAATAATTAATTATTTAT
52580369 AA
1 AA
52580371 TTTCTTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
AAAATAATTAATTATTTAT
Found at i:52581056 original size:21 final size:21
Alignment explanation
Indices: 52581032--52581072 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
52581022 CTGGTTCTTC
*
52581032 TTTTAAATAATT-TATTTTAAA
1 TTTT-AATAATTATAGTTTAAA
52581053 TTTTAATAATTATAGTTTAA
1 TTTTAATAATTATAGTTTAA
52581073 CTTTGGTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (21 bp):
TTTTAATAATTATAGTTTAAA
Found at i:52581785 original size:16 final size:17
Alignment explanation
Indices: 52581761--52581795 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
52581751 ATGTGTTCTA
*
52581761 TTATTTTTA-TATATTT
1 TTATATTTATTATATTT
52581777 TTATATTTATTATATTT
1 TTATATTTATTATATTT
52581794 TT
1 TT
52581796 TCAATTACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (17 bp):
TTATATTTATTATATTT
Found at i:52585053 original size:21 final size:19
Alignment explanation
Indices: 52585013--52585050 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
52585003 ATTATTCTAG
52585013 TGAAAAAAAATTGATATAT
1 TGAAAAAAAATTGATATAT
*
52585032 TGAAAAAAAATTTATATAT
1 TGAAAAAAAATTGATATAT
52585051 ATTTTTATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.34
Consensus pattern (19 bp):
TGAAAAAAAATTGATATAT
Found at i:52589513 original size:20 final size:20
Alignment explanation
Indices: 52589490--52589550 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 20
52589480 TTTTTTAGAT
52589490 AATT-ATGTTTATTTTCTTTA
1 AATTAATGTTTATTTT-TTTA
*
52589510 AATTAATGATTATTTTTTTA
1 AATTAATGTTTATTTTTTTA
* *
52589530 ATTTAATGTATTATTTATTTA
1 AATTAATGT-TTATTTTTTTA
52589551 TTTTATTATT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
20 15 0.43
21 20 0.57
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (20 bp):
AATTAATGTTTATTTTTTTA
Found at i:52589714 original size:22 final size:21
Alignment explanation
Indices: 52589685--52589728 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
52589675 TAAATCTATT
*
52589685 AGAAAAAGCA-TGTTGAAAAAA
1 AGAAAAAG-ATTGATGAAAAAA
52589706 AGAACAAAGATTGATGAAAAAA
1 AGAA-AAAGATTGATGAAAAAA
52589728 A
1 A
52589729 ATCAAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.64, C:0.05, G:0.18, T:0.14
Consensus pattern (21 bp):
AGAAAAAGATTGATGAAAAAA
Found at i:52592284 original size:6 final size:7
Alignment explanation
Indices: 52592250--52592282 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
52592240 AGGTTAATTC
52592250 TATAAAA
1 TATAAAA
52592257 TATAAAA
1 TATAAAA
52592264 TATAAAA
1 TATAAAA
52592271 TAT-AAA
1 TATAAAA
52592277 TATAAA
1 TATAAA
52592283 TAGATGATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (7 bp):
TATAAAA
Found at i:52599717 original size:19 final size:17
Alignment explanation
Indices: 52599668--52599720 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 17
52599658 TATTCATACA
52599668 TTTTAATTTAATCCCTAC
1 TTTT-ATTTAATCCCTAC
*
52599686 TTTTATTTCTAATCTCTAC
1 TTTTA-TT-TAATCCCTAC
52599705 TTTTGGATTTAATCCC
1 TTTT--ATTTAATCCC
52599721 ATTAGAATTC
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
17 1 0.03
18 6 0.21
19 19 0.66
20 2 0.07
21 1 0.03
ACGTcount: A:0.23, C:0.21, G:0.04, T:0.53
Consensus pattern (17 bp):
TTTTATTTAATCCCTAC
Found at i:52605203 original size:6 final size:6
Alignment explanation
Indices: 52605192--52605220 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
52605182 ATTATTTATT
52605192 ATTTTA ATTTTA ATTTTA ATTTTA ATTTT
1 ATTTTA ATTTTA ATTTTA ATTTTA ATTTT
52605221 TTCTTTCGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (6 bp):
ATTTTA
Found at i:52605477 original size:6 final size:6
Alignment explanation
Indices: 52605468--52605493 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
52605458 ATATTTATTA
52605468 TTAATT TTAATT TTAATT TTAATT TT
1 TTAATT TTAATT TTAATT TTAATT TT
52605494 TTCTTTCGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (6 bp):
TTAATT
Found at i:52605666 original size:273 final size:273
Alignment explanation
Indices: 52605179--52605741 Score: 1094
Period size: 273 Copynumber: 2.1 Consensus size: 273
52605169 AGAAATTTTA
*
52605179 TTTATTATTTATTATTTTAATTTTAATTTTAATTTTAATTTTTTCTTTCGAAAAAAGCAAAATAG
1 TTTATTATATATTATTTTAATTTTAATTTTAATTTTAATTTTTTCTTTCGAAAAAAGCAAAATAG
52605244 TTGGTAGAGTAATGCTTTTCATACTTTATAAAAGGTAACACTAAAGTAGCACAAAGGCTTGTAAT
66 TTGGTAGAGTAATGCTTTTCATACTTTATAAAAGGTAACACTAAAGTAGCACAAAGGCTTGTAAT
52605309 TTATTAAATATTTTAAGAAAAAAATGATTTTTTTAAATATATGATAGTATTTAGCTATATTATCA
131 TTATTAAATATTTTAAGAAAAAAATGATTTTTTTAAATATATGATAGTATTTAGCTATATTATCA
52605374 ATGTTGTAACAAATGATAAAAAAAAAACATGTGAGATGTTTTAGTTTTTGTTAATAAAATTTTTT
196 ATGTTGTAACAAATGATAAAAAAAAAACATGTGAGATGTTTTAGTTTTTGTTAATAAAATTTTTT
52605439 TCCATTTATGGCT
261 TCCATTTATGGCT
52605452 TTTATTATAT-TTATTATTAATTTTAATTTTAATTTTAATTTTTTCTTTCGAAAAAAGCAAAATA
1 TTTATTATATATTATT-TTAATTTTAATTTTAATTTTAATTTTTTCTTTCGAAAAAAGCAAAATA
52605516 GTTGGTAGAGTAATGCTTTTCATACTTTATAAAAGGTAACACTAAAGTAGCACAAAGGCTTGTAA
65 GTTGGTAGAGTAATGCTTTTCATACTTTATAAAAGGTAACACTAAAGTAGCACAAAGGCTTGTAA
52605581 TTTATTAAATATTTTAAGAAAAAAATGATTTTTTTAAATATATGATAGTATTTAGCTATATTATC
130 TTTATTAAATATTTTAAGAAAAAAATGATTTTTTTAAATATATGATAGTATTTAGCTATATTATC
52605646 AATGTTGTAACAAATGATAAAAAAAAAACATGTGAGATGTTTTAGTTTTTGTTAATAAAATTTTT
195 AATGTTGTAACAAATGATAAAAAAAAAACATGTGAGATGTTTTAGTTTTTGTTAATAAAATTTTT
52605711 TTCCATTTATGGCT
260 TTCCATTTATGGCT
52605725 TTTATTAT-TATTATTTT
1 TTTATTATATATTATTTT
52605742 CTTGTACAGA
Statistics
Matches: 287, Mismatches: 1, Indels: 5
0.98 0.00 0.02
Matches are distributed among these distances:
272 8 0.03
273 279 0.97
ACGTcount: A:0.38, C:0.06, G:0.11, T:0.45
Consensus pattern (273 bp):
TTTATTATATATTATTTTAATTTTAATTTTAATTTTAATTTTTTCTTTCGAAAAAAGCAAAATAG
TTGGTAGAGTAATGCTTTTCATACTTTATAAAAGGTAACACTAAAGTAGCACAAAGGCTTGTAAT
TTATTAAATATTTTAAGAAAAAAATGATTTTTTTAAATATATGATAGTATTTAGCTATATTATCA
ATGTTGTAACAAATGATAAAAAAAAAACATGTGAGATGTTTTAGTTTTTGTTAATAAAATTTTTT
TCCATTTATGGCT
Found at i:52606359 original size:20 final size:20
Alignment explanation
Indices: 52606304--52606367 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
52606294 GTTTAAAATA
*
52606304 AAAAAATTATT-AAATTATGT
1 AAAATATTATTAAAATTAT-T
**
52606324 AACAATAACA-TAAAATTATT
1 AA-AATATTATTAAAATTATT
*
52606344 AAAATATTATTAAAATTTTT
1 AAAATATTATTAAAATTATT
52606364 AAAA
1 AAAA
52606368 AATATCACAA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
19 5 0.14
20 19 0.54
21 11 0.31
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.38
Consensus pattern (20 bp):
AAAATATTATTAAAATTATT
Found at i:52613852 original size:32 final size:32
Alignment explanation
Indices: 52613816--52613924 Score: 86
Period size: 32 Copynumber: 3.5 Consensus size: 32
52613806 TTAATATATC
*
52613816 ATTTGGTATTTAAACTTGATATTTTTTTTCTA
1 ATTTGGTACTTAAACTTGATATTTTTTTTCTA
* * *
52613848 ATTTGATATTTAAA--T-AT-TTTTTGATTC-A
1 ATTTGGTACTTAAACTTGATATTTTT-TTTCTA
* * *
52613876 ATTTGGTACCTAAATTTGACA-TTTTTTTCTTA
1 ATTTGGTACTTAAACTTGATATTTTTTTTC-TA
*
52613908 AGTTGGTACTTAAACTT
1 ATTTGGTACTTAAACTT
52613925 TTTGGAGATC
Statistics
Matches: 60, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
28 17 0.28
29 5 0.08
30 5 0.08
31 5 0.08
32 28 0.47
ACGTcount: A:0.28, C:0.08, G:0.10, T:0.54
Consensus pattern (32 bp):
ATTTGGTACTTAAACTTGATATTTTTTTTCTA
Found at i:52613921 original size:60 final size:61
Alignment explanation
Indices: 52613816--52613976 Score: 168
Period size: 60 Copynumber: 2.7 Consensus size: 61
52613806 TTAATATATC
** * * * ** *
52613816 ATTTGGTATTTAAACTTGATATTTTTTT-TCTAATTTGATATTTAAA-TATTTT-TTGATTCA
1 ATTTGGTACCTAAACTTGACATTTTTTTCT-TAATTTGGTACTTAAACT-TTTTGGAGATCCA
* *
52613876 ATTTGGTACCTAAATTTGACATTTTTTTCTTAAGTTGGTACTTAAACTTTTTGGAGATCCA
1 ATTTGGTACCTAAACTTGACATTTTTTTCTTAATTTGGTACTTAAACTTTTTGGAGATCCA
**
52613937 ATTTGGTACCTAAACTTGACA-AATTTTCTTAATTTGGTAC
1 ATTTGGTACCTAAACTTGACATTTTTTTCTTAATTTGGTAC
52613977 CTACTCTTTT
Statistics
Matches: 84, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
60 57 0.68
61 27 0.32
ACGTcount: A:0.28, C:0.11, G:0.12, T:0.50
Consensus pattern (61 bp):
ATTTGGTACCTAAACTTGACATTTTTTTCTTAATTTGGTACTTAAACTTTTTGGAGATCCA
Found at i:52637840 original size:3 final size:3
Alignment explanation
Indices: 52637832--52637886 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
52637822 TGTATTCTGT
52637832 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
52637880 TTA TTA T
1 TTA TTA T
52637887 GAAAGCTTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:52646688 original size:96 final size:96
Alignment explanation
Indices: 52646524--52646716 Score: 368
Period size: 96 Copynumber: 2.0 Consensus size: 96
52646514 CAAGCAGCAA
52646524 TACCTCATTTCGGATTACAGATTACAAGGACGGAAACACCAAGATGAAGCTTGAAAAATCAAGGT
1 TACCTCATTTCGGATTACAGATTACAAGGACGGAAACACCAAGATGAAGCTTGAAAAATCAAGGT
*
52646589 CATTTACTTCATCATTGGAGCTAAGGGTCAC
66 CATTTACTTCATCAGTGGAGCTAAGGGTCAC
*
52646620 TACCTCATTTCGGATTACAGATTACAAGGACGGAAACACCAAGGTGAAGCTTGAAAAATCAAGGT
1 TACCTCATTTCGGATTACAGATTACAAGGACGGAAACACCAAGATGAAGCTTGAAAAATCAAGGT
52646685 CATTTACTTCATCAGTGGAGCTAAGGGTCAC
66 CATTTACTTCATCAGTGGAGCTAAGGGTCAC
52646716 T
1 T
52646717 GAGAGCATTG
Statistics
Matches: 95, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
96 95 1.00
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.25
Consensus pattern (96 bp):
TACCTCATTTCGGATTACAGATTACAAGGACGGAAACACCAAGATGAAGCTTGAAAAATCAAGGT
CATTTACTTCATCAGTGGAGCTAAGGGTCAC
Found at i:52647088 original size:46 final size:50
Alignment explanation
Indices: 52646997--52647093 Score: 139
Period size: 46 Copynumber: 2.0 Consensus size: 50
52646987 AAACCCACAT
52646997 AAACAGAACCAGATAAATAAACAAAAACATATAATTAAAAGATCAAAATTA
1 AAACAGAACCAGATAAAT-AACAAAAACATATAATTAAAAGATCAAAATTA
* *
52647048 AAACA-AACCAGATAAAT-A-GAAAACATATAA-TAAAATATCAAAATTA
1 AAACAGAACCAGATAAATAACAAAAACATATAATTAAAAGATCAAAATTA
52647094 GACAGATATG
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
46 15 0.34
47 11 0.25
48 1 0.02
50 12 0.27
51 5 0.11
ACGTcount: A:0.65, C:0.11, G:0.05, T:0.19
Consensus pattern (50 bp):
AAACAGAACCAGATAAATAACAAAAACATATAATTAAAAGATCAAAATTA
Found at i:52649260 original size:15 final size:14
Alignment explanation
Indices: 52649224--52649270 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 14
52649214 TATTTAGTAC
52649224 TTATA-TTTTAATT
1 TTATATTTTTAATT
*
52649237 TGATCATTTTTAATTT
1 TTAT-ATTTTTAA-TT
52649253 TTATATTTTTAAATT
1 TTATATTTTT-AATT
52649268 TTA
1 TTA
52649271 AAAATTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
13 3 0.11
14 1 0.04
15 17 0.61
16 7 0.25
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (14 bp):
TTATATTTTTAATT
Found at i:52651690 original size:18 final size:18
Alignment explanation
Indices: 52651667--52651702 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
52651657 ATCCTTCACT
52651667 TTCCTTTTCTTTATTAAA
1 TTCCTTTTCTTTATTAAA
52651685 TTCCTTTTCTTTATTAAA
1 TTCCTTTTCTTTATTAAA
52651703 CGAAATAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.17, G:0.00, T:0.61
Consensus pattern (18 bp):
TTCCTTTTCTTTATTAAA
Found at i:52653642 original size:47 final size:46
Alignment explanation
Indices: 52653553--52653739 Score: 277
Period size: 46 Copynumber: 4.0 Consensus size: 46
52653543 TTACGAAGGA
* * *
52653553 AATAATCTCTCAAATCATACCAAGTAATATGGTAAATGAATAGATCT
1 AATAATCTCTC-AATCATGCTAAGTAATATGGTAAATAAATAGATCT
* *
52653600 AATAATCTCTCCATCATGCTAAGTAATATGGAAAAATAAATAGA-CGT
1 AATAATCTCTCAATCATGCTAAGTAATATGG-TAAATAAATAGATC-T
* *
52653647 AATAATCTCCCAATCATGCTAAGTAATATGGTAAATAAATAGATGT
1 AATAATCTCTCAATCATGCTAAGTAATATGGTAAATAAATAGATCT
52653693 AATAATCTCTCAATCATGCTAAGTAATATGGTAAATAAATAGATCT
1 AATAATCTCTCAATCATGCTAAGTAATATGGTAAATAAATAGATCT
52653739 A
1 A
52653740 TATCCCCCCC
Statistics
Matches: 126, Mismatches: 11, Indels: 7
0.88 0.08 0.05
Matches are distributed among these distances:
46 75 0.60
47 51 0.40
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (46 bp):
AATAATCTCTCAATCATGCTAAGTAATATGGTAAATAAATAGATCT
Found at i:52655999 original size:18 final size:17
Alignment explanation
Indices: 52655976--52656009 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
52655966 ATAAAAGATC
52655976 ATTTTAAAATTAAATGAA
1 ATTTT-AAATTAAATGAA
*
52655994 ATTTTAACTTAAATGA
1 ATTTTAAATTAAATGA
52656010 TAAAAAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.50, C:0.03, G:0.06, T:0.41
Consensus pattern (17 bp):
ATTTTAAATTAAATGAA
Found at i:52657778 original size:4 final size:4
Alignment explanation
Indices: 52657769--52657829 Score: 70
Period size: 4 Copynumber: 15.2 Consensus size: 4
52657759 AATTCTTTCG
** *
52657769 ATAC ATAC ATTAC ATAC ATAC ATAC ACGC ATGC ATAC AT-C ATAC ATAC
1 ATAC ATAC A-TAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
52657817 ATAC ATGC ATAC A
1 ATAC ATAC ATAC A
52657830 ACCAAGAAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
3 3 0.06
4 42 0.86
5 4 0.08
ACGTcount: A:0.44, C:0.26, G:0.05, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:52657814 original size:23 final size:24
Alignment explanation
Indices: 52657779--52657829 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 24
52657769 ATACATACAT
*
52657779 TACATACATACATACACGCATGCA
1 TACATACATACATACACACATGCA
*
52657803 TACAT-CATACATACATACATGCA
1 TACATACATACATACACACATGCA
52657826 TACA
1 TACA
52657830 ACCAAGAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 20 0.80
24 5 0.20
ACGTcount: A:0.43, C:0.27, G:0.06, T:0.24
Consensus pattern (24 bp):
TACATACATACATACACACATGCA
Found at i:52657814 original size:27 final size:29
Alignment explanation
Indices: 52657772--52657826 Score: 87
Period size: 27 Copynumber: 2.0 Consensus size: 29
52657762 TCTTTCGATA
52657772 CATACATTACATACATACATACACGCATG
1 CATACATTACATACATACATACACGCATG
*
52657801 CATACA-T-CATACATACATACATGCAT
1 CATACATTACATACATACATACACGCAT
52657827 ACAACCAAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 18 0.72
28 1 0.04
29 6 0.24
ACGTcount: A:0.42, C:0.27, G:0.05, T:0.25
Consensus pattern (29 bp):
CATACATTACATACATACATACACGCATG
Found at i:52662828 original size:69 final size:69
Alignment explanation
Indices: 52662717--52662856 Score: 280
Period size: 69 Copynumber: 2.0 Consensus size: 69
52662707 CTTGAAATGC
52662717 TCCTTGCACTTACTTGCACATCAGGACTCTGAGCAACATTTTCCAAGAGTTGAGCACTTTCAGCT
1 TCCTTGCACTTACTTGCACATCAGGACTCTGAGCAACATTTTCCAAGAGTTGAGCACTTTCAGCT
52662782 GCAT
66 GCAT
52662786 TCCTTGCACTTACTTGCACATCAGGACTCTGAGCAACATTTTCCAAGAGTTGAGCACTTTCAGCT
1 TCCTTGCACTTACTTGCACATCAGGACTCTGAGCAACATTTTCCAAGAGTTGAGCACTTTCAGCT
52662851 GCAT
66 GCAT
52662855 TC
1 TC
52662857 TTTTGTAGAG
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 71 1.00
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.31
Consensus pattern (69 bp):
TCCTTGCACTTACTTGCACATCAGGACTCTGAGCAACATTTTCCAAGAGTTGAGCACTTTCAGCT
GCAT
Found at i:52683665 original size:57 final size:59
Alignment explanation
Indices: 52683559--52683699 Score: 155
Period size: 57 Copynumber: 2.4 Consensus size: 59
52683549 GGTAAAAAGG
*
52683559 ATCTAGCCCGGACGGGTGATCCTATCCTGATATAGCCCTCCCAAAGAATATGTGTGAAAAAT
1 ATCTAGCCCGGACGGGTGATCC-AT-CTGATATAGCCCTCCCAAAGAATACGTG-GAAAAAT
* * *
52683621 ATCTAGCCCGGATGGGTGAT-C-T-TGATATAGCCCTCTCGAAGAATACGTGG-AAAAT
1 ATCTAGCCCGGACGGGTGATCCATCTGATATAGCCCTCCCAAAGAATACGTGGAAAAAT
* *
52683676 GGATTTAGCCCGGACGGGTAATCC
1 --ATCTAGCCCGGACGGGTGATCC
52683700 GAATTAGGAT
Statistics
Matches: 69, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
55 5 0.07
56 1 0.01
57 41 0.59
58 1 0.01
59 1 0.01
61 1 0.01
62 19 0.28
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (59 bp):
ATCTAGCCCGGACGGGTGATCCATCTGATATAGCCCTCCCAAAGAATACGTGGAAAAAT
Found at i:52683929 original size:67 final size:67
Alignment explanation
Indices: 52683821--52683952 Score: 228
Period size: 67 Copynumber: 2.0 Consensus size: 67
52683811 GTTTATATTA
52683821 CAGGGCATTTAGCCTGGACTGGTAATCTCGCTGTAAGAAATGAGGTTCGCGGGAGTGTGCTCTCT
1 CAGGGCATTTAGCCTGGACTGGTAATCTCGCTGTAAGAAATGAGGTTCGCGGGAGTGTGCTCTCT
52683886 TG
66 TG
* ** *
52683888 CAGGGGATTTAGTGTGGACTGGTAATCTCGCTGTAAGAAATGAGGTTCGTGGGAGTGTGCTCTCT
1 CAGGGCATTTAGCCTGGACTGGTAATCTCGCTGTAAGAAATGAGGTTCGCGGGAGTGTGCTCTCT
52683953 GAATTGAAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 61 1.00
ACGTcount: A:0.20, C:0.17, G:0.34, T:0.30
Consensus pattern (67 bp):
CAGGGCATTTAGCCTGGACTGGTAATCTCGCTGTAAGAAATGAGGTTCGCGGGAGTGTGCTCTCT
TG
Found at i:52690188 original size:71 final size:71
Alignment explanation
Indices: 52690055--52690189 Score: 162
Period size: 71 Copynumber: 1.9 Consensus size: 71
52690045 TATGAAATGA
** * ** * * * ***
52690055 TTATTTGTTTCTGACTTTGAGTTTGCTTATGTCTTGGTGCTTATGCTATTGATTCGTTAATTGAG
1 TTATTTGTTTCCAACTTTGAGTTTGCCTATGTCCGGGTGCCTATGCTATCGATGCACCAATTGAG
52690120 ATATGT
66 ATATGT
*
52690126 TTATTTGTTTCCAACTTTGAGTTTGCCTATGTCCGGGTGCCTATGCTATCGGTGCACCAATTGA
1 TTATTTGTTTCCAACTTTGAGTTTGCCTATGTCCGGGTGCCTATGCTATCGATGCACCAATTGA
52690190 TTTCCCTGTT
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
71 52 1.00
ACGTcount: A:0.17, C:0.16, G:0.21, T:0.46
Consensus pattern (71 bp):
TTATTTGTTTCCAACTTTGAGTTTGCCTATGTCCGGGTGCCTATGCTATCGATGCACCAATTGAG
ATATGT
Found at i:52691121 original size:21 final size:21
Alignment explanation
Indices: 52691095--52691174 Score: 97
Period size: 21 Copynumber: 3.8 Consensus size: 21
52691085 ATAGCGGTTA
*
52691095 TGGCGGTGGTGGATATGGTGG
1 TGGCGGTGGTGGCTATGGTGG
*
52691116 TGGCGGTGGCGGCTATGGTGG
1 TGGCGGTGGTGGCTATGGTGG
* * *
52691137 GGGCAGTGGTGGCTATGGAGG
1 TGGCGGTGGTGGCTATGGTGG
* *
52691158 TGGTGGTGGGGGCTATG
1 TGGCGGTGGTGGCTATG
52691175 ACAGAAATGA
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 49 1.00
ACGTcount: A:0.09, C:0.09, G:0.57, T:0.25
Consensus pattern (21 bp):
TGGCGGTGGTGGCTATGGTGG
Found at i:52702041 original size:74 final size:74
Alignment explanation
Indices: 52701919--52702066 Score: 269
Period size: 74 Copynumber: 2.0 Consensus size: 74
52701909 CATTTAACCC
* *
52701919 TATACAAGGGCATTGAAATATGATCTTCCAATGACTCATAAAATGCATGAAAACTCTTCAAAGAA
1 TATACAAGGGCATTGAAATACGATCTTCCAATGACTCATAAAACGCATGAAAACTCTTCAAAGAA
52701984 GCAAATATA
66 GCAAATATA
52701993 TATACAAGGGCATTGAAATACGATCTTCCAATGACTCATAAAACGCATGAAAACTCTTCAAAGAA
1 TATACAAGGGCATTGAAATACGATCTTCCAATGACTCATAAAACGCATGAAAACTCTTCAAAGAA
*
52702058 GTAAATATA
66 GCAAATATA
52702067 CATGTGTCCA
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 71 1.00
ACGTcount: A:0.45, C:0.17, G:0.14, T:0.25
Consensus pattern (74 bp):
TATACAAGGGCATTGAAATACGATCTTCCAATGACTCATAAAACGCATGAAAACTCTTCAAAGAA
GCAAATATA
Found at i:52708510 original size:24 final size:24
Alignment explanation
Indices: 52708482--52708533 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
52708472 TTAGTAGGTC
* *
52708482 AAATAAACTATGCTAATAAATGTT
1 AAATAAACTATACTAATAAATATT
* *
52708506 AAATATATTATACTAATAAATATT
1 AAATAAACTATACTAATAAATATT
52708530 AAAT
1 AAAT
52708534 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATATT
Found at i:52710422 original size:24 final size:24
Alignment explanation
Indices: 52710389--52710440 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
52710379 TTAGTAGGTC
** *
52710389 AAATAAATTATGGTAATAAATGCT
1 AAATAAATTATACTAATAAATACT
*
52710413 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
52710437 AAAT
1 AAAT
52710441 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.06, G:0.06, T:0.35
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:52720968 original size:3 final size:3
Alignment explanation
Indices: 52720956--52720993 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
52720946 GATGCTTAAC
52720956 TCT T-T TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
52720994 AGCATCATGT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:52742350 original size:21 final size:19
Alignment explanation
Indices: 52742305--52742354 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 19
52742295 TTATTTAAAA
*
52742305 TAAAAAAGTAATAAAATTC
1 TAAAAAAATAATAAAATTC
* *
52742324 TTAAAAAATAATAAGAAATTG
1 TAAAAAAATAAT-A-AAATTC
52742345 TAAAAAAATA
1 TAAAAAAATA
52742355 TTTAAAATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 10 0.40
20 1 0.04
21 14 0.56
ACGTcount: A:0.66, C:0.02, G:0.06, T:0.26
Consensus pattern (19 bp):
TAAAAAAATAATAAAATTC
Found at i:52742880 original size:21 final size:19
Alignment explanation
Indices: 52742845--52742940 Score: 63
Period size: 19 Copynumber: 4.8 Consensus size: 19
52742835 CACTTTTAAT
*
52742845 ATTTTTTATGATTTTTATAGA
1 ATTTTATATG-TTTTTATA-A
52742866 ATTTTAATATGTTTTTATAAAA
1 ATTTT-ATATGTTTTTAT--AA
**
52742888 ATGTAAATATG-TTTTATTAA
1 AT-TTTATATGTTTTTA-TAA
*
52742908 ATTTTATCT-TTTTTAATAA
1 ATTTTATATGTTTTT-ATAA
52742927 ATTTTATAT-TTTTT
1 ATTTTATATGTTTTT
52742941 TGATGATTTT
Statistics
Matches: 61, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
19 24 0.39
20 5 0.08
21 17 0.28
22 13 0.21
23 2 0.03
ACGTcount: A:0.33, C:0.01, G:0.05, T:0.60
Consensus pattern (19 bp):
ATTTTATATGTTTTTATAA
Found at i:52742927 original size:19 final size:19
Alignment explanation
Indices: 52742894--52742940 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
52742884 AAAAATGTAA
* *
52742894 ATATGTTTTATTAAATTTT
1 ATATTTTTTAATAAATTTT
*
52742913 ATCTTTTTTAATAAATTTT
1 ATATTTTTTAATAAATTTT
52742932 ATATTTTTT
1 ATATTTTTT
52742941 TGATGATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (19 bp):
ATATTTTTTAATAAATTTT
Found at i:52742968 original size:19 final size:19
Alignment explanation
Indices: 52742917--52742974 Score: 62
Period size: 19 Copynumber: 3.0 Consensus size: 19
52742907 AATTTTATCT
* *
52742917 TTTTTAATAAATTTTATATT
1 TTTTTAAT-AATTTTTTATA
* *
52742937 TTTTTGATGATTTTTTATA
1 TTTTTAATAATTTTTTATA
*
52742956 TTTTTAATTATTTTTTATA
1 TTTTTAATAATTTTTTATA
52742975 AGAAAAAATT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 25 0.78
20 7 0.22
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (19 bp):
TTTTTAATAATTTTTTATA
Found at i:52751195 original size:30 final size:30
Alignment explanation
Indices: 52751161--52751226 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
52751151 GGATGTAAAT
* * *
52751161 TTTATCGCGGGATTTTTGGGTTTCAGAAAC
1 TTTATCACAGGATTTTGGGGTTTCAGAAAC
* *
52751191 TTTATCATAGGATTTTGGGGTTTTAGAAAC
1 TTTATCACAGGATTTTGGGGTTTCAGAAAC
52751221 TTTATC
1 TTTATC
52751227 TCAGATTCTC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.23, C:0.11, G:0.23, T:0.44
Consensus pattern (30 bp):
TTTATCACAGGATTTTGGGGTTTCAGAAAC
Found at i:52751233 original size:29 final size:30
Alignment explanation
Indices: 52751170--52751226 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
52751160 TTTTATCGCG
*
52751170 GGATTTTTGGGTTTCAGAAACTTTATCATA
1 GGATTTTGGGGTTTCAGAAACTTTATCATA
*
52751200 GGATTTTGGGGTTTTAGAAACTTTATC
1 GGATTTTGGGGTTTCAGAAACTTTATC
52751227 TCAGATTCTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.25, C:0.09, G:0.23, T:0.44
Consensus pattern (30 bp):
GGATTTTGGGGTTTCAGAAACTTTATCATA
Found at i:52751337 original size:39 final size:39
Alignment explanation
Indices: 52751266--52751340 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
52751256 TTACAGAAAG
***
52751266 TGGCACGGAGCAAGGCAAAAACGTGTTGTATAGGACGCT
1 TGGCACGGAGCAAGGCAAAAACGTGCCCTATAGGACGCT
*
52751305 TGGCAC-GAGGCAAGGCAAAAATGTGCCCTATAGGAC
1 TGGCACGGA-GCAAGGCAAAAACGTGCCCTATAGGAC
52751341 ACGCTTTCAC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 2 0.06
39 29 0.94
ACGTcount: A:0.32, C:0.20, G:0.32, T:0.16
Consensus pattern (39 bp):
TGGCACGGAGCAAGGCAAAAACGTGCCCTATAGGACGCT
Found at i:52769253 original size:21 final size:21
Alignment explanation
Indices: 52769227--52769291 Score: 85
Period size: 21 Copynumber: 3.1 Consensus size: 21
52769217 CAGCAATGCA
* *
52769227 GTTGATGCGGTGGAGGGAAAG
1 GTTGATGCGCTGGATGGAAAG
* *
52769248 GTTGATGTGCTGGATGGAAAA
1 GTTGATGCGCTGGATGGAAAG
*
52769269 GTCGATGCGCTGGATGGAAAG
1 GTTGATGCGCTGGATGGAAAG
52769290 GT
1 GT
52769292 GGATTACGAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.25, C:0.08, G:0.45, T:0.23
Consensus pattern (21 bp):
GTTGATGCGCTGGATGGAAAG
Found at i:52769591 original size:186 final size:186
Alignment explanation
Indices: 52769277--52769646 Score: 695
Period size: 186 Copynumber: 2.0 Consensus size: 186
52769267 AAGTCGATGC
* *
52769277 GCTGGATGGAAAGGTGGATTACGACAGTCAGATAGTTCATGAAAACAAGCCAGAGCAGAAAGATA
1 GCTGGATGGAAAGGTGGATTACAACAGTCAGATAGTCCATGAAAACAAGCCAGAGCAGAAAGATA
52769342 TCTCAAGGGAGGATGTAGATCCCCATGCACTGGATGGAAAGGTGGATTATGACAGTCAGATAGTT
66 TCTCAAGGGAGGATGTAGATCCCCATGCACTGGATGGAAAGGTGGATTATGACAGTCAGATAGTT
* *
52769407 CATGAAAACAAGCCAGAGCAGAAAGATATCTTGAGAGAGGATGTAGATTCCCATTT
131 CATGAAAACAAGCCAGAGCAGAAAGATATCTTGAGAGAAGATGTAGATCCCCATTT
52769463 GCTGGATGGAAAGGTGGATTACAACAGTCAGATAGTCCATGAAAACAAGCCAGAGCAGAAAGATA
1 GCTGGATGGAAAGGTGGATTACAACAGTCAGATAGTCCATGAAAACAAGCCAGAGCAGAAAGATA
52769528 TCTCAAGGGAGGATGTAGATCCCCATGCACTGGATGGAAAGGTGGATTATGACAGTCAGATAGTT
66 TCTCAAGGGAGGATGTAGATCCCCATGCACTGGATGGAAAGGTGGATTATGACAGTCAGATAGTT
*
52769593 CATGAAAACAAGCCAGAGCAGAAAGATATCTTGAGGGAAGATGTAGATCCCCAT
131 CATGAAAACAAGCCAGAGCAGAAAGATATCTTGAGAGAAGATGTAGATCCCCAT
52769647 AGAATTCAAG
Statistics
Matches: 179, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
186 179 1.00
ACGTcount: A:0.36, C:0.16, G:0.28, T:0.20
Consensus pattern (186 bp):
GCTGGATGGAAAGGTGGATTACAACAGTCAGATAGTCCATGAAAACAAGCCAGAGCAGAAAGATA
TCTCAAGGGAGGATGTAGATCCCCATGCACTGGATGGAAAGGTGGATTATGACAGTCAGATAGTT
CATGAAAACAAGCCAGAGCAGAAAGATATCTTGAGAGAAGATGTAGATCCCCATTT
Found at i:52769672 original size:93 final size:93
Alignment explanation
Indices: 52769273--52769646 Score: 613
Period size: 93 Copynumber: 4.0 Consensus size: 93
52769263 GGAAAAGTCG
* *
52769273 ATGCGCTGGATGGAAAGGTGGATTACGACAGTCAGATAGTTCATGAAAACAAGCCAGAGCAGAAA
1 ATGCACTGGATGGAAAGGTGGATTATGACAGTCAGATAGTTCATGAAAACAAGCCAGAGCAGAAA
52769338 GATATCTCAAGGGAGGATGTAGATCCCC
66 GATATCTCAAGGGAGGATGTAGATCCCC
52769366 ATGCACTGGATGGAAAGGTGGATTATGACAGTCAGATAGTTCATGAAAACAAGCCAGAGCAGAAA
1 ATGCACTGGATGGAAAGGTGGATTATGACAGTCAGATAGTTCATGAAAACAAGCCAGAGCAGAAA
** * *
52769431 GATATCTTGAGAGAGGATGTAGATTCCC
66 GATATCTCAAGGGAGGATGTAGATCCCC
*** ** *
52769459 ATTTGCTGGATGGAAAGGTGGATTACAACAGTCAGATAGTCCATGAAAACAAGCCAGAGCAGAAA
1 ATGCACTGGATGGAAAGGTGGATTATGACAGTCAGATAGTTCATGAAAACAAGCCAGAGCAGAAA
52769524 GATATCTCAAGGGAGGATGTAGATCCCC
66 GATATCTCAAGGGAGGATGTAGATCCCC
52769552 ATGCACTGGATGGAAAGGTGGATTATGACAGTCAGATAGTTCATGAAAACAAGCCAGAGCAGAAA
1 ATGCACTGGATGGAAAGGTGGATTATGACAGTCAGATAGTTCATGAAAACAAGCCAGAGCAGAAA
** *
52769617 GATATCTTGAGGGAAGATGTAGATCCCC
66 GATATCTCAAGGGAGGATGTAGATCCCC
52769645 AT
1 AT
52769647 AGAATTCAAG
Statistics
Matches: 256, Mismatches: 25, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 256 1.00
ACGTcount: A:0.36, C:0.16, G:0.28, T:0.20
Consensus pattern (93 bp):
ATGCACTGGATGGAAAGGTGGATTATGACAGTCAGATAGTTCATGAAAACAAGCCAGAGCAGAAA
GATATCTCAAGGGAGGATGTAGATCCCC
Found at i:52770372 original size:54 final size:54
Alignment explanation
Indices: 52770285--52770396 Score: 170
Period size: 54 Copynumber: 2.1 Consensus size: 54
52770275 GAGCTGTGAT
* *
52770285 TTCAAAGGATGTTTCATCCAAGCAAAAATGTCAGAAGGTTGACGATACAAAGAC
1 TTCAAAGGATGTTTCATCCAAGCAAAAAGGTCAGAAGGTTGACCATACAAAGAC
* * * *
52770339 TTCAAAGGATTTTTCATCCGAGCAAAAAGGTCAGAAGGTTGACCTTACAAAGCC
1 TTCAAAGGATGTTTCATCCAAGCAAAAAGGTCAGAAGGTTGACCATACAAAGAC
52770393 TTCA
1 TTCA
52770397 GGCTCTCCAA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.24
Consensus pattern (54 bp):
TTCAAAGGATGTTTCATCCAAGCAAAAAGGTCAGAAGGTTGACCATACAAAGAC
Found at i:52772017 original size:45 final size:45
Alignment explanation
Indices: 52771749--52772023 Score: 184
Period size: 45 Copynumber: 6.0 Consensus size: 45
52771739 ATGCCCTACT
** * * *
52771749 TCCTCCACCTTCACCACCCTCTTTGACGACTATTGCCCCACTTCC
1 TCCTCCACCTTCACCACCCTCTTCAACGACTACTGTCCCACATCC
** * * * * *
52771794 TTTTCTACCTTCACCATCCTTTTCAATGACTAGTGT-CC-CA-CC
1 TCCTCCACCTTCACCACCCTCTTCAACGACTACTGTCCCACATCC
** *
52771836 TCCTCCACCTTCATCTCTA-CCTCCCCAATTGAC-ATCTAGTGCTCCA-ATTCC
1 TCCTCCACCTTCA-C-C-ACCCTCTTCAA-CGACTA-CT-GT-C-CCACA-TCC
* * * * * *
52771887 TTCTCCGCCTTCACCATCCTCTTCAACAACTAGTGTCCCACTTCC
1 TCCTCCACCTTCACCACCCTCTTCAACGACTACTGTCCCACATCC
* * * * *
52771932 TCCTCCACCTTCACCACCCTTTTCAGCAACTATTGCCCCACATCC
1 TCCTCCACCTTCACCACCCTCTTCAACGACTACTGTCCCACATCC
*
52771977 TCCTCCACCTTCACCACCCTCTTCAACGACTACTGTCCCACTTCC
1 TCCTCCACCTTCACCACCCTCTTCAACGACTACTGTCCCACATCC
52772022 TC
1 TC
52772024 TAACCTCACC
Statistics
Matches: 175, Mismatches: 40, Indels: 30
0.71 0.16 0.12
Matches are distributed among these distances:
42 12 0.07
43 2 0.01
44 10 0.06
45 116 0.66
46 3 0.02
47 2 0.01
48 4 0.02
49 12 0.07
50 1 0.01
51 13 0.07
ACGTcount: A:0.18, C:0.45, G:0.06, T:0.31
Consensus pattern (45 bp):
TCCTCCACCTTCACCACCCTCTTCAACGACTACTGTCCCACATCC
Found at i:52772036 original size:42 final size:45
Alignment explanation
Indices: 52771883--52772023 Score: 192
Period size: 45 Copynumber: 3.1 Consensus size: 45
52771873 AGTGCTCCAA
* * * *
52771883 TTCCTTCTCCGCCTTCACCATCCTCTTCAACAACTAGTGTCCCAC
1 TTCCTCCTCCACCTTCACCACCCTCTTCAACAACTACTGTCCCAC
* * * *
52771928 TTCCTCCTCCACCTTCACCACCCTTTTCAGCAACTATTGCCCCAC
1 TTCCTCCTCCACCTTCACCACCCTCTTCAACAACTACTGTCCCAC
* *
52771973 ATCCTCCTCCACCTTCACCACCCTCTTCAACGACTACTGTCCCAC
1 TTCCTCCTCCACCTTCACCACCCTCTTCAACAACTACTGTCCCAC
52772018 TTCCTC
1 TTCCTC
52772024 TAACCTCACC
Statistics
Matches: 82, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 82 1.00
ACGTcount: A:0.18, C:0.48, G:0.05, T:0.29
Consensus pattern (45 bp):
TTCCTCCTCCACCTTCACCACCCTCTTCAACAACTACTGTCCCAC
Found at i:52772044 original size:42 final size:45
Alignment explanation
Indices: 52771883--52772050 Score: 189
Period size: 45 Copynumber: 3.8 Consensus size: 45
52771873 AGTGCTCCAA
* * * * *
52771883 TTCCTTCTCCGCCTTCACCATCCTCTTCAACAACTAGTGTCCCAC
1 TTCCTCCTCCACCTTCACCACCCTTTTCAACAACTACTGTCCCAC
* * *
52771928 TTCCTCCTCCACCTTCACCACCCTTTTCAGCAACTATTGCCCCAC
1 TTCCTCCTCCACCTTCACCACCCTTTTCAACAACTACTGTCCCAC
* * *
52771973 ATCCTCCTCCACCTTCACCACCCTCTTCAACGACTACTGTCCCAC
1 TTCCTCCTCCACCTTCACCACCCTTTTCAACAACTACTGTCCCAC
* * *
52772018 TTCCT-CT-AACC-TCACCACCTTTTTCAACTACTA
1 TTCCTCCTCCACCTTCACCACCCTTTTCAACAACTA
52772051 TTGCCTCGTC
Statistics
Matches: 105, Mismatches: 18, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
42 19 0.18
43 3 0.03
44 2 0.02
45 81 0.77
ACGTcount: A:0.20, C:0.46, G:0.04, T:0.30
Consensus pattern (45 bp):
TTCCTCCTCCACCTTCACCACCCTTTTCAACAACTACTGTCCCAC
Found at i:52772076 original size:42 final size:42
Alignment explanation
Indices: 52772030--52772162 Score: 119
Period size: 42 Copynumber: 3.2 Consensus size: 42
52772020 CCTCTAACCT
52772030 CACCACCTTTTTCAACTACTATTGCCTCGTCTCCTCCATCTC
1 CACCACCTTTTTCAACTACTATTGCCTCGTCTCCTCCATCTC
**** * * * * * *
52772072 CACCACCTCCACCAATGTGTAGTACT-CCAC-T-TCCTCCATTTT
1 CACCACCTTTTTCAA---CTACTATTGCCTCGTCTCCTCCATCTC
*
52772114 CACCACCCTTTTCAACTACTATTGCCTCGTCTCCTCCATCTC
1 CACCACCTTTTTCAACTACTATTGCCTCGTCTCCTCCATCTC
52772156 CACCACC
1 CACCACC
52772163 CCCACCAATG
Statistics
Matches: 64, Mismatches: 21, Indels: 12
0.66 0.22 0.12
Matches are distributed among these distances:
39 5 0.08
40 3 0.05
41 1 0.02
42 46 0.72
43 1 0.02
44 3 0.05
45 5 0.08
ACGTcount: A:0.19, C:0.44, G:0.05, T:0.32
Consensus pattern (42 bp):
CACCACCTTTTTCAACTACTATTGCCTCGTCTCCTCCATCTC
Found at i:52772107 original size:84 final size:84
Alignment explanation
Indices: 52772014--52772290 Score: 328
Period size: 84 Copynumber: 3.3 Consensus size: 84
52772004 GACTACTGTC
52772014 CCACTTCCTCTAACC-TCACCACCTTTTTCAACTACTATTGCCTCGTCTCCTCCATCTCCACCAC
1 CCACTTCCTC-AACCTTCACCACCTTTTTCAACTACTATTGCCTCGTCTCCTCCATCTCCACCAC
52772078 CTCCACCAATGTGTAGTACT
65 CTCCACCAATGTGTAGTACT
* ** *
52772098 CCACTTCCTCCATTTTCACCACCCTTTTCAACTACTATTGCCTCGTCTCCTCCATCTCCACCACC
1 CCACTTCCTCAACCTTCACCACCTTTTTCAACTACTATTGCCTCGTCTCCTCCATCTCCACCACC
*
52772163 CCCACCAATGTGTAGTACT
66 TCCACCAATGTGTAGTACT
** * * * * *
52772182 CCACTTCCTCCGCCTTCACCACCCTCTTT-GACTAATATTGTCC-CATCTCCTCCAGCTCCA-CA
1 CCACTTCCTCAACCTTCACCA-CCTTTTTCAACTACTATTG-CCTCGTCTCCTCCATCTCCACCA
* * * *
52772244 ACTCCCATCAATGTCTAGTGCT
64 CCT-CCACCAATGTGTAGTACT
* *
52772266 TCACTTCCTCCACCTTCACCACCTT
1 CCACTTCCTCAACCTTCACCACCTT
52772291 CTTCGGTTAC
Statistics
Matches: 167, Mismatches: 22, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
83 7 0.04
84 153 0.92
85 7 0.04
ACGTcount: A:0.19, C:0.44, G:0.06, T:0.31
Consensus pattern (84 bp):
CCACTTCCTCAACCTTCACCACCTTTTTCAACTACTATTGCCTCGTCTCCTCCATCTCCACCACC
TCCACCAATGTGTAGTACT
Found at i:52772191 original size:42 final size:42
Alignment explanation
Indices: 52772061--52772192 Score: 117
Period size: 42 Copynumber: 3.1 Consensus size: 42
52772051 TTGCCTCGTC
*
52772061 TCCTCCATCTCCACCACCTCCACCAATGTGTAGTACTCCACT
1 TCCTCCATCTCCACCACCCCCACCAATGTGTAGTACTCCACT
* * **** * * * *
52772103 TCCTCCATTTTCACCACCCTTTTCAA---CTACTATTGCCTCGT
1 TCCTCCATCTCCACCACCCCCACCAATGTGTAGTACT-CCAC-T
52772144 CTCCTCCATCTCCACCACCCCCACCAATGTGTAGTACTCCACT
1 -TCCTCCATCTCCACCACCCCCACCAATGTGTAGTACTCCACT
52772187 TCCTCC
1 TCCTCC
52772193 GCCTTCACCA
Statistics
Matches: 63, Mismatches: 21, Indels: 12
0.66 0.22 0.12
Matches are distributed among these distances:
39 5 0.08
40 3 0.05
41 1 0.02
42 45 0.71
43 1 0.02
44 3 0.05
45 5 0.08
ACGTcount: A:0.19, C:0.45, G:0.06, T:0.30
Consensus pattern (42 bp):
TCCTCCATCTCCACCACCCCCACCAATGTGTAGTACTCCACT
Found at i:52772316 original size:84 final size:83
Alignment explanation
Indices: 52772014--52772330 Score: 327
Period size: 84 Copynumber: 3.8 Consensus size: 83
52772004 GACTACTGTC
* * * *
52772014 CCACTTCCTCTAACC-TCACCACCTTTTTCAACTACTATTGCCTCGTCTCCTCCATCTCCACCAC
1 CCACTTCCTC-CACCTTCACCACCTTCTTCGACTACTATTGCCTCATCTCCTCCATCTCCACCAC
52772078 CTCCACCAATGTGTAGTACT
65 C-CCACCAATGTGTAGTACT
** * *
52772098 CCACTTCCTCCATTTTCACCACCCTT-TTCAACTACTATTGCCTCGTCTCCTCCATCTCCACCAC
1 CCACTTCCTCCACCTTCACCA-CCTTCTTCGACTACTATTGCCTCATCTCCTCCATCTCCACCA-
52772162 CCCCACCAATGTGTAGTACT
64 CCCCACCAATGTGTAGTACT
* * * * * *
52772182 CCACTTCCTCCGCCTTCACCACCCTCTTTGACTAATATTGTCC-CATCTCCTCCAGCTCCACAAC
1 CCACTTCCTCCACCTTCACCACCTTCTTCGACTACTATTG-CCTCATCTCCTCCATCTCCACCAC
* * *
52772246 TCCCATCAATGTCTAGTGCT
65 -CCCACCAATGTGTAGTACT
* ** * * * *
52772266 TCACTTCCTCCACCTTCACCACCTTCTTCGGTTACTAGTGCCTTACCTCCTTCAAT-TCCACCAC
1 CCACTTCCTCCACCTTCACCACCTTCTTCGACTACTATTGCCTCATCTCC-TCCATCTCCACCAC
52772330 C
65 C
52772331 ATCTCCACCT
Statistics
Matches: 196, Mismatches: 29, Indels: 17
0.81 0.12 0.07
Matches are distributed among these distances:
83 8 0.04
84 177 0.90
85 11 0.06
ACGTcount: A:0.19, C:0.44, G:0.07, T:0.31
Consensus pattern (83 bp):
CCACTTCCTCCACCTTCACCACCTTCTTCGACTACTATTGCCTCATCTCCTCCATCTCCACCACC
CCACCAATGTGTAGTACT
Found at i:52772788 original size:42 final size:41
Alignment explanation
Indices: 52772742--52772873 Score: 146
Period size: 42 Copynumber: 3.2 Consensus size: 41
52772732 CTAGTGCCCT
*
52772742 ACCTCCTCCATCTCCACCACCTTCTTCAATATCTAGCACCCC
1 ACCTCCTCCATCTCCACCACC-ACTTCAATATCTAGCACCCC
* *
52772784 ACCTCCTCC-T-T-CACCAACCACTTCGATGA-CTAGTACCCC
1 ACCTCCTCCATCTCCACC-ACCACTTCAAT-ATCTAGCACCCC
* * *
52772823 AGCTCCTCCATCTCCACCACCCCCATCAATATCTAGCACCCC
1 ACCTCCTCCATCTCCACCA-CCACTTCAATATCTAGCACCCC
52772865 ACCTCCTCC
1 ACCTCCTCC
52772874 CCCATCGATG
Statistics
Matches: 74, Mismatches: 9, Indels: 14
0.76 0.09 0.14
Matches are distributed among these distances:
39 27 0.36
40 6 0.08
41 4 0.05
42 37 0.50
ACGTcount: A:0.22, C:0.51, G:0.05, T:0.23
Consensus pattern (41 bp):
ACCTCCTCCATCTCCACCACCACTTCAATATCTAGCACCCC
Found at i:52772822 original size:39 final size:38
Alignment explanation
Indices: 52772708--52772873 Score: 109
Period size: 42 Copynumber: 4.1 Consensus size: 38
52772698 ATTCCTCGTT
* * * *
52772708 CTCCTTCACCAACCACTTTGACAACTAGTGCCCTACCTC
1 CTCCTTCACCAACCACTTCGA-TACTAGTACCCCACCTC
* * *
52772747 CTCCATCTCCACC-ACCTTCTTCAATATCTAGCACCCCACCTC
1 CTCC-T-T-CACCAACC-ACTTCGATA-CTAGTACCCCACCTC
*
52772789 CTCCTTCACCAACCACTTCGATGACTAGTACCCCAGCTC
1 CTCCTTCACCAACCACTTCGAT-ACTAGTACCCCACCTC
* * * * *
52772828 CTCCATCTCCACCACCCCCATCAATATCTAGCACCCCACCTC
1 CTCC-T-T-CACCAACCACTTCGATA-CTAGTACCCCACCTC
52772870 CTCC
1 CTCC
52772874 CCCATCGATG
Statistics
Matches: 99, Mismatches: 17, Indels: 19
0.73 0.13 0.14
Matches are distributed among these distances:
39 31 0.31
40 7 0.07
41 8 0.08
42 53 0.54
ACGTcount: A:0.22, C:0.49, G:0.05, T:0.23
Consensus pattern (38 bp):
CTCCTTCACCAACCACTTCGATACTAGTACCCCACCTC
Found at i:52772829 original size:81 final size:81
Alignment explanation
Indices: 52772708--52772873 Score: 251
Period size: 81 Copynumber: 2.0 Consensus size: 81
52772698 ATTCCTCGTT
* * * ** *
52772708 CTCCTTCACCAACCACTTTGACAACTAGTGCCCTACCTCCTCCATCTCCACCACCTTCTTCAATA
1 CTCCTTCACCAACCACTTCGACAACTAGTACCCCACCTCCTCCATCTCCACCACCCCCATCAATA
52772773 TCTAGCACCCCACCTC
66 TCTAGCACCCCACCTC
** *
52772789 CTCCTTCACCAACCACTTCGATGACTAGTACCCCAGCTCCTCCATCTCCACCACCCCCATCAATA
1 CTCCTTCACCAACCACTTCGACAACTAGTACCCCACCTCCTCCATCTCCACCACCCCCATCAATA
52772854 TCTAGCACCCCACCTC
66 TCTAGCACCCCACCTC
52772870 CTCC
1 CTCC
52772874 CCCATCGATG
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 76 1.00
ACGTcount: A:0.22, C:0.49, G:0.05, T:0.23
Consensus pattern (81 bp):
CTCCTTCACCAACCACTTCGACAACTAGTACCCCACCTCCTCCATCTCCACCACCCCCATCAATA
TCTAGCACCCCACCTC
Found at i:52773038 original size:207 final size:204
Alignment explanation
Indices: 52772372--52773131 Score: 827
Period size: 207 Copynumber: 3.7 Consensus size: 204
52772362 TCGTTTCCTG
* * * *
52772372 CTCCACCTTCACCACCCTCTTTGACAACTAGTGCCCCACCTCCTCCATCTCCACCACCCCCATCA
1 CTCCTCCTTCACCAACCACTTTGACGACTAGTGCCCCACCTCCTCCATCTCCACCACCCCCATCA
* * * * * * * * *
52772437 ATATCTAACACCCCACTTCCTCCCCCGTCGGTATCTAGTGCTCCACTTCCTCTTTCACTTTCGCC
66 ATATCTAACACCCAACCTCCTCCCCCATCGATATCTAGTGCTTCAATTCCTCCTTCACCTTCACC
* **
52772502 AACCACTTTGATGACTAGTGCCCCACCTCCTTCACCTTCACTACCATCTCCACCTCCCACATTGA
131 AACCACTTTGATGACTAGTG-CCCACC-CC-TCACC-TC-CT-CCATCTCCACCACCCACATCAA
* *
52772567 TGTCTACTGC-CCCACTTC
190 TATCTA--GCACCC-C-AC
* * *** *
52772585 CTCCTCCATCTTCACC-ACC-CTCTGCAACGACTAGTGCCCCACCTCTTTTGTCTCCATCACCCC
1 CTCCT-C--CTTCACCAACCACTTTG--ACGACTAGTGCCCCACCTCCTCCATCTCCACCACCCC
* * * * * * * *
52772648 TATCAATATCTAGCATCCAACCTCTTCCCTCATCGATGTCTAGTGCTTCAATTCCTCGTTCTCCT
61 CATCAATATCTAACACCCAACCTCCTCCCCCATCGATATCTAGTGCTTCAATTCCTCCTTCACCT
** ** *
52772713 TCACCAACCACTTTGACAACTAGTG-----CCCT-ACCTCCTCCATCTCCACCACCTTCTTCAAT
126 TCACCAACCACTTTGATGACTAGTGCCCACCCCTCACCTCCTCCATCTCCACCACCCACATCAAT
52772772 ATCTAGCACCCCAC
191 ATCTAGCACCCCAC
* * * *
52772786 CTCCTCCTTCACCAACCACTTCGATGACTAGTACCCCAGCTCCTCCATCTCCACCACCCCCATCA
1 CTCCTCCTTCACCAACCACTTTGACGACTAGTGCCCCACCTCCTCCATCTCCACCACCCCCATCA
* * *
52772851 ATATCTAGCACCCCACCTCCTCCCCCATCGATGTCTAGTGCTTCAATTCCTCCTTCACCTTCACC
66 ATATCTAACACCCAACCTCCTCCCCCATCGATATCTAGTGCTTCAATTCCTCCTTCACCTTCACC
** *
52772916 AAATACTTTGATGACTAGTGCCCTACTCCCTCCACCTCCTCCATCTCCACCACCCCCATCAATAT
131 AACCACTTTGATGACTAGTGCCC-AC-CCCT-CACCTCCTCCATCTCCACCACCCACATCAATAT
52772981 CTAGCACCCCAC
193 CTAGCACCCCAC
*
52772993 CTCCTCCTTCACCAACCACTTTGACGACTAGTGCCCCACCTCCTCCATCTCCACCGCCCCCATCA
1 CTCCTCCTTCACCAACCACTTTGACGACTAGTGCCCCACCTCCTCCATCTCCACCACCCCCATCA
* * * *
52773058 ACATCTAACACCCAACCTCCTCCCCCATCGATATCTAGTGCTTCACTTCCTCCTTCACCTTTATC
66 ATATCTAACACCCAACCTCCTCCCCCATCGATATCTAGTGCTTCAATTCCTCCTTCACCTTCACC
52773123 AACCACTTT
131 AACCACTTT
52773132 TTCAACTAGT
Statistics
Matches: 457, Mismatches: 73, Indels: 40
0.80 0.13 0.07
Matches are distributed among these distances:
198 115 0.25
199 3 0.01
200 4 0.01
201 6 0.01
202 3 0.01
203 3 0.01
204 21 0.05
205 6 0.01
206 2 0.00
207 169 0.37
208 1 0.00
209 2 0.00
210 1 0.00
213 4 0.01
214 5 0.01
215 2 0.00
216 110 0.24
ACGTcount: A:0.20, C:0.46, G:0.07, T:0.27
Consensus pattern (204 bp):
CTCCTCCTTCACCAACCACTTTGACGACTAGTGCCCCACCTCCTCCATCTCCACCACCCCCATCA
ATATCTAACACCCAACCTCCTCCCCCATCGATATCTAGTGCTTCAATTCCTCCTTCACCTTCACC
AACCACTTTGATGACTAGTGCCCACCCCTCACCTCCTCCATCTCCACCACCCACATCAATATCTA
GCACCCCAC
Found at i:52773507 original size:33 final size:33
Alignment explanation
Indices: 52773451--52773535 Score: 98
Period size: 33 Copynumber: 2.6 Consensus size: 33
52773441 TGGGGTACCG
*
52773451 CCACCTCCACCGCCGCCTCTTGGAATTGAACCA
1 CCACCTCCACCGCCACCTCTTGGAATTGAACCA
* * * * *
52773484 CCACTTCCAGCGCCACCTTTTGGAGTTGGACCA
1 CCACCTCCACCGCCACCTCTTGGAATTGAACCA
* *
52773517 CCACCGCCACCACCACCTC
1 CCACCTCCACCGCCACCTC
52773536 CAGGAGGAGG
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.20, C:0.47, G:0.15, T:0.18
Consensus pattern (33 bp):
CCACCTCCACCGCCACCTCTTGGAATTGAACCA
Found at i:52773553 original size:36 final size:33
Alignment explanation
Indices: 52773515--52773623 Score: 182
Period size: 33 Copynumber: 3.3 Consensus size: 33
52773505 GGAGTTGGAC
* * *
52773515 CACCACCGCCACCACCACCTCCAGGAGGAGGAG
1 CACCACCTCCGCCACCACCTCCTGGAGGAGGAG
*
52773548 CACCACCTCCGCCACCACCTCCTGGTGGAGGAG
1 CACCACCTCCGCCACCACCTCCTGGAGGAGGAG
52773581 CACCACCTCCGCCACCACCTCCTGGAGGAGGAG
1 CACCACCTCCGCCACCACCTCCTGGAGGAGGAG
52773614 CACCACCTCC
1 CACCACCTCC
52773624 TGGTGGTGGA
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 71 1.00
ACGTcount: A:0.22, C:0.48, G:0.22, T:0.08
Consensus pattern (33 bp):
CACCACCTCCGCCACCACCTCCTGGAGGAGGAG
Found at i:52773618 original size:54 final size:54
Alignment explanation
Indices: 52773560--52773668 Score: 209
Period size: 54 Copynumber: 2.0 Consensus size: 54
52773550 CCACCTCCGC
52773560 CACCACCTCCTGGTGGAGGAGCACCACCTCCGCCACCACCTCCTGGAGGAGGAG
1 CACCACCTCCTGGTGGAGGAGCACCACCTCCGCCACCACCTCCTGGAGGAGGAG
*
52773614 CACCACCTCCTGGTGGTGGAGCACCACCTCCGCCACCACCTCCTGGAGGAGGAG
1 CACCACCTCCTGGTGGAGGAGCACCACCTCCGCCACCACCTCCTGGAGGAGGAG
52773668 C
1 C
52773669 TCCTGGCCCT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.19, C:0.41, G:0.28, T:0.12
Consensus pattern (54 bp):
CACCACCTCCTGGTGGAGGAGCACCACCTCCGCCACCACCTCCTGGAGGAGGAG
Found at i:52773619 original size:21 final size:21
Alignment explanation
Indices: 52773593--52773644 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
52773583 CCACCTCCGC
52773593 CACCACCTCCTGGAGGAGGAG
1 CACCACCTCCTGGAGGAGGAG
* *
52773614 CACCACCTCCTGGTGGTGGAG
1 CACCACCTCCTGGAGGAGGAG
52773635 CACCACCTCC
1 CACCACCTCC
52773645 GCCACCACCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.19, C:0.40, G:0.27, T:0.13
Consensus pattern (21 bp):
CACCACCTCCTGGAGGAGGAG
Found at i:52774032 original size:1 final size:1
Alignment explanation
Indices: 52774026--52774053 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
52774016 ATTAATTTCC
52774026 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
52774054 CCTAAAATTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:52784304 original size:22 final size:22
Alignment explanation
Indices: 52784262--52784304 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
52784252 TTTGCTTTCA
* *
52784262 AGAAAATAAAGAATAATAACTC
1 AGAAAATAAAGAAGAAAAACTC
52784284 AGAAAA-AAAGAAAGAAAAACT
1 AGAAAATAAAG-AAGAAAAACT
52784305 TAAATGCCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.70, C:0.07, G:0.12, T:0.12
Consensus pattern (22 bp):
AGAAAATAAAGAAGAAAAACTC
Found at i:52789426 original size:13 final size:13
Alignment explanation
Indices: 52789408--52789432 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52789398 CTGTAAAAAG
52789408 TTTTCATTTTAGA
1 TTTTCATTTTAGA
52789421 TTTTCATTTTAG
1 TTTTCATTTTAG
52789433 GCACCTAAAA
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:0.20, C:0.08, G:0.08, T:0.64
Consensus pattern (13 bp):
TTTTCATTTTAGA
Found at i:52796495 original size:25 final size:23
Alignment explanation
Indices: 52796467--52796515 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 23
52796457 CAATAAAAAA
52796467 TATTTAAACAATAAAAATGAATATT
1 TATTTAAA-AAT-AAAATGAATATT
* *
52796492 TATTTAAATATAAAATTAATATT
1 TATTTAAAAATAAAATGAATATT
52796515 T
1 T
52796516 TAATTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 12 0.55
24 2 0.09
25 8 0.36
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (23 bp):
TATTTAAAAATAAAATGAATATT
Found at i:52804257 original size:46 final size:46
Alignment explanation
Indices: 52804191--52804283 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
52804181 ATTCGGTAAT
52804191 TTTTTAACAAGAGATTCATCGGGCTAATATACCTATTTTTTCAATA
1 TTTTTAACAAGAGATTCATCGGGCTAATATACCTATTTTTTCAATA
52804237 TTTTTAACAAGAGATTCATCGGGCTAATATACCTATTTTTTCAATA
1 TTTTTAACAAGAGATTCATCGGGCTAATATACCTATTTTTTCAATA
52804283 T
1 T
52804284 ATAAAGACTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.42
Consensus pattern (46 bp):
TTTTTAACAAGAGATTCATCGGGCTAATATACCTATTTTTTCAATA
Found at i:52808468 original size:3 final size:3
Alignment explanation
Indices: 52808460--52808490 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
52808450 TTTGTTACAA
52808460 AAT AAT AAT AAT AA- AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
52808491 AACATCAAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:52808477 original size:14 final size:14
Alignment explanation
Indices: 52808458--52808487 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
52808448 AGTTTGTTAC
52808458 AAAATAATAATAAT
1 AAAATAATAATAAT
52808472 AAAATAATAATAAT
1 AAAATAATAATAAT
52808486 AA
1 AA
52808488 TAAAACATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
AAAATAATAATAAT
Found at i:52808482 original size:17 final size:17
Alignment explanation
Indices: 52808460--52808492 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
52808450 TTTGTTACAA
52808460 AATAATAATAATAAAAT
1 AATAATAATAATAAAAT
52808477 AATAATAATAATAAAA
1 AATAATAATAATAAAA
52808493 CATCAAGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (17 bp):
AATAATAATAATAAAAT
Found at i:52808552 original size:68 final size:68
Alignment explanation
Indices: 52808480--52808615 Score: 254
Period size: 68 Copynumber: 2.0 Consensus size: 68
52808470 ATAAAATAAT
*
52808480 AATAATAATAAAACATCAAGTTTGTTTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATA
1 AATAATAATAAAACATCAAGTTTATTTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATA
52808545 CAA
66 CAA
*
52808548 AATAATAATAAAATATCAAGTTTATTTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATA
1 AATAATAATAAAACATCAAGTTTATTTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATA
52808613 CAA
66 CAA
52808616 TTAATTCAAT
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 66 1.00
ACGTcount: A:0.46, C:0.10, G:0.07, T:0.38
Consensus pattern (68 bp):
AATAATAATAAAACATCAAGTTTATTTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATA
CAA
Found at i:52808617 original size:9 final size:9
Alignment explanation
Indices: 52808603--52808646 Score: 65
Period size: 9 Copynumber: 5.1 Consensus size: 9
52808593 TTTTGTTACA
52808603 ACAATTAAT
1 ACAATTAAT
52808612 ACAATTAAT
1 ACAATTAAT
*
52808621 TCAATT-A-
1 ACAATTAAT
52808628 ACAATTAAT
1 ACAATTAAT
52808637 ACAATTAAT
1 ACAATTAAT
52808646 A
1 A
52808647 ATTTGATAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
7 5 0.16
8 2 0.06
9 24 0.77
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (9 bp):
ACAATTAAT
Found at i:52808633 original size:16 final size:16
Alignment explanation
Indices: 52808612--52808649 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
52808602 AACAATTAAT
*
52808612 ACAATTAATTCAATTA
1 ACAATTAATACAATTA
52808628 ACAATTAATACAATTA
1 ACAATTAATACAATTA
*
52808644 ATAATT
1 ACAATT
52808650 TGATAATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.37
Consensus pattern (16 bp):
ACAATTAATACAATTA
Found at i:52808740 original size:16 final size:16
Alignment explanation
Indices: 52808719--52808760 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
52808709 AATAATTTGA
*
52808719 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
52808735 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
52808751 TAGTTTTAAT
1 TAATTTTAAT
52808761 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:52811714 original size:34 final size:34
Alignment explanation
Indices: 52811671--52811736 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 34
52811661 AGTAAAATAT
* *
52811671 TTTTCGTAAAATGATTT-CGGGAAAATGTTTTAC
1 TTTTCGTAAAATGATTTACAGGAAAATATTTTAC
52811704 TTTTCTGTAAAATGATTTACAGGAAAATATTTT
1 TTTTC-GTAAAATGATTTACAGGAAAATATTTT
52811737 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 5 0.17
34 12 0.41
35 12 0.41
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.44
Consensus pattern (34 bp):
TTTTCGTAAAATGATTTACAGGAAAATATTTTAC
Found at i:52812570 original size:28 final size:28
Alignment explanation
Indices: 52812523--52812603 Score: 90
Period size: 28 Copynumber: 2.9 Consensus size: 28
52812513 CTTTGGATCT
* * *
52812523 TAAATCTTAGATCACGAACTCTAGACCC
1 TAAACCTTAGACCACAAACTCTAGACCC
* * *
52812551 TAAACCTTAGACCAGAAACTCTAAACCT
1 TAAACCTTAGACCACAAACTCTAGACCC
* *
52812579 TAAACCTTGGACCACAGACTCTAGA
1 TAAACCTTAGACCACAAACTCTAGA
52812604 TTTTGGACCC
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.38, C:0.28, G:0.11, T:0.22
Consensus pattern (28 bp):
TAAACCTTAGACCACAAACTCTAGACCC
Found at i:52814923 original size:21 final size:21
Alignment explanation
Indices: 52814899--52814948 Score: 66
Period size: 22 Copynumber: 2.4 Consensus size: 21
52814889 AAAAGGTTTA
52814899 ATTTATAATTTGAATAATTAC
1 ATTTATAATTTGAATAATTAC
* *
52814920 ATTTATTTATTTGAATAATTTC
1 ATTTA-TAATTTGAATAATTAC
52814942 A-TTATAA
1 ATTTATAA
52814949 ATTCTTATCC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 2 0.08
21 8 0.32
22 15 0.60
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.52
Consensus pattern (21 bp):
ATTTATAATTTGAATAATTAC
Found at i:52819006 original size:9 final size:9
Alignment explanation
Indices: 52818992--52819124 Score: 136
Period size: 9 Copynumber: 15.4 Consensus size: 9
52818982 TTTTTATGTA
52818992 TTATGTAAG
1 TTATGTAAG
52819001 TTATGTAAG
1 TTATGTAAG
*
52819010 TTGTGT-A-
1 TTATGTAAG
*
52819017 TTATGTGAG
1 TTATGTAAG
52819026 TTATGTAAG
1 TTATGTAAG
52819035 TTATGTAAG
1 TTATGTAAG
*
52819044 TTATGTAGG
1 TTATGTAAG
*
52819053 CTATGT-A-
1 TTATGTAAG
*
52819060 TTATGTAAA
1 TTATGTAAG
*
52819069 TAATGTAAG
1 TTATGTAAG
*
52819078 TTA-GGAGAG
1 TTATGTA-AG
52819087 TTATGT-A-
1 TTATGTAAG
52819094 TTATGTAAG
1 TTATGTAAG
*
52819103 TTATTTAAG
1 TTATGTAAG
52819112 TTATGTAAG
1 TTATGTAAG
52819121 TTAT
1 TTAT
52819125 TTAATTTGAA
Statistics
Matches: 102, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
7 16 0.16
8 7 0.07
9 78 0.76
10 1 0.01
ACGTcount: A:0.32, C:0.01, G:0.23, T:0.45
Consensus pattern (9 bp):
TTATGTAAG
Found at i:52819016 original size:25 final size:25
Alignment explanation
Indices: 52818985--52819118 Score: 139
Period size: 25 Copynumber: 5.3 Consensus size: 25
52818975 TGATATATTT
52818985 TTATGTATTATGTAAGTTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
* *
52819010 TTGTGTATTATGTGAGTTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
* *
52819035 TTATGTAAGTTATGTAGGCTATGT-A-
1 TTATGT-A-TTATGTAAGTTATGTAAG
* *
52819060 TTATGTAAATAATGTAAGTTA-GGAGAG
1 TTATGT--ATTATGTAAGTTATGTA-AG
*
52819087 TTATGTATTATGTAAGTTATTTAAG
1 TTATGTATTATGTAAGTTATGTAAG
52819112 TTATGTA
1 TTATGTA
52819119 AGTTATTTAA
Statistics
Matches: 89, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
24 1 0.01
25 64 0.72
26 6 0.07
27 18 0.20
ACGTcount: A:0.31, C:0.01, G:0.22, T:0.46
Consensus pattern (25 bp):
TTATGTATTATGTAAGTTATGTAAG
Found at i:52819030 original size:34 final size:33
Alignment explanation
Indices: 52818958--52819124 Score: 165
Period size: 34 Copynumber: 4.9 Consensus size: 33
52818948 TATAAATGAG
* * * **
52818958 TTATGTAAGTTATGATATGATATATTTTTATGTA
1 TTATGTAAGTTATG-TAAGTTATGTAGTTATGTA
*
52818992 TTATGTAAGTTATGTAAGTTGTGTA-TTATGTGA
1 TTATGTAAGTTATGTAAGTTATGTAGTTATGT-A
*
52819025 GTTATGTAAGTTATGTAAGTTATGTAGGCTATGTA
1 -TTATGTAAGTTATGTAAGTTATGTA-GTTATGTA
* * * *
52819060 TTATGTAAATAATGTAAGTTAGGAGAGTTATGTA
1 TTATGTAAGTTATGTAAGTTATG-TAGTTATGTA
*
52819094 TTATGTAAGTTATTTAAGTTATGTAAGTTAT
1 TTATGTAAGTTATGTAAGTTATGT-AGTTAT
52819125 TTAATTTGAA
Statistics
Matches: 110, Mismatches: 17, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
32 6 0.05
33 7 0.06
34 90 0.82
35 2 0.02
36 5 0.05
ACGTcount: A:0.32, C:0.01, G:0.21, T:0.47
Consensus pattern (33 bp):
TTATGTAAGTTATGTAAGTTATGTAGTTATGTA
Found at i:52819039 original size:43 final size:43
Alignment explanation
Indices: 52818956--52819124 Score: 150
Period size: 43 Copynumber: 3.9 Consensus size: 43
52818946 ACTATAAATG
* * **
52818956 AGTTATGTAAGTTATGATATGATATATTTTTATGT-A-TTATGTA
1 AGTTATGTAAGTTATG-TATTATGTA-AGTTATGTAAGTTATGTA
* *
52818999 AGTTATGTAAGTTGTGTATTATGTGAGTTATGTAAGTTATGTA
1 AGTTATGTAAGTTATGTATTATGTAAGTTATGTAAGTTATGTA
* * * * *
52819042 AGTTATGTAGGCTATGTATTATGTAAATAATGTAAGTTA-GGA
1 AGTTATGTAAGTTATGTATTATGTAAGTTATGTAAGTTATGTA
*
52819084 GAGTTATGT-A-TTATGTAAGTTATTTAAGTTATGTAAGTTAT
1 -AGTTATGTAAGTTATGT-A-TTATGTAAGTTATGTAAGTTAT
52819125 TTAATTTGAA
Statistics
Matches: 102, Mismatches: 18, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
41 11 0.11
42 10 0.10
43 81 0.79
ACGTcount: A:0.32, C:0.01, G:0.21, T:0.46
Consensus pattern (43 bp):
AGTTATGTAAGTTATGTATTATGTAAGTTATGTAAGTTATGTA
Found at i:52821683 original size:21 final size:21
Alignment explanation
Indices: 52821653--52821708 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
52821643 AAACTCTATT
*
52821653 CCTTAGACCTTAAACCTTAAAC
1 CCTTA-ACCTTAAACCCTAAAC
*
52821675 CCTTAACCTTTAACCCTAAAC
1 CCTTAACCTTAAACCCTAAAC
*
52821696 CCTTAACCCTAAA
1 CCTTAACCTTAAA
52821709 TTGACTTAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 25 0.83
22 5 0.17
ACGTcount: A:0.36, C:0.36, G:0.02, T:0.27
Consensus pattern (21 bp):
CCTTAACCTTAAACCCTAAAC
Found at i:52821703 original size:7 final size:7
Alignment explanation
Indices: 52821660--52821705 Score: 56
Period size: 7 Copynumber: 6.4 Consensus size: 7
52821650 ATTCCTTAGA
*
52821660 CCTTAAA
1 CCTTAAC
52821667 CCTTAAAC
1 CCTT-AAC
52821675 CCTTAAC
1 CCTTAAC
*
52821682 CTTTAAC
1 CCTTAAC
*
52821689 CCTAAAC
1 CCTTAAC
52821696 CCTTAAC
1 CCTTAAC
52821703 CCT
1 CCT
52821706 AAATTGACTT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
7 27 0.82
8 6 0.18
ACGTcount: A:0.33, C:0.39, G:0.00, T:0.28
Consensus pattern (7 bp):
CCTTAAC
Found at i:52821706 original size:14 final size:14
Alignment explanation
Indices: 52821653--52821708 Score: 60
Period size: 14 Copynumber: 3.9 Consensus size: 14
52821643 AAACTCTATT
*
52821653 CCTTAGACCTTAAA-
1 CCTTA-ACCCTAAAC
*
52821667 CCTTAAACCCTTAAC
1 CCTT-AACCCTAAAC
*
52821682 CTTTAACCCTAAAC
1 CCTTAACCCTAAAC
52821696 CCTTAACCCTAAA
1 CCTTAACCCTAAA
52821709 TTGACTTAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
14 31 0.89
15 4 0.11
ACGTcount: A:0.36, C:0.36, G:0.02, T:0.27
Consensus pattern (14 bp):
CCTTAACCCTAAAC
Found at i:52822074 original size:39 final size:39
Alignment explanation
Indices: 52821992--52822074 Score: 96
Period size: 39 Copynumber: 2.1 Consensus size: 39
52821982 CATATTCCCT
* * * * * *
52821992 AAACCCTGAATCATAGAATATATATAAATCCTAAATCTT
1 AAACCCTAAATCATAAAACATATATAAATCATAAACCTA
52822031 AAACCCTAAATCATAAAACATATATAAAAT-ATAAACCTA
1 AAACCCTAAATCATAAAACATATAT-AAATCATAAACCTA
52822070 AAACC
1 AAACC
52822075 TCAACCCTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
39 33 0.89
40 4 0.11
ACGTcount: A:0.53, C:0.19, G:0.02, T:0.25
Consensus pattern (39 bp):
AAACCCTAAATCATAAAACATATATAAATCATAAACCTA
Found at i:52822819 original size:175 final size:176
Alignment explanation
Indices: 52822558--52822878 Score: 455
Period size: 175 Copynumber: 1.8 Consensus size: 176
52822548 AACAGAAAAC
* * * *
52822558 GACGGCGTATGCTTAAAACTTTTTGCGGCGCTTCCACCAAATCGCTGCTAATGGTTGACTTCAGC
1 GACGGCGTACGCTTAAAACTTTTTGCGGCGCTTCCACCAAAGCGCCGCTAATGATTGACTTCAGC
**** *
52822623 GGCAATTTCTTTAAAGCGCCACTATGGTGTCTAAAACTCAACAAGAAAACGATGTCGTTCGGTAA
66 GGCAATTTAAAGAAAGCGCCACTATGGTGTCTAAAACTCAACAAGAAAACGACGTCGTTCGGTAA
* *
52822688 AATCTTTTGTGGCGCTCCAGGGAAGCGCTGCCACTATTGTCCCTAA
131 AAACCTTTGTGGCGCTCCAGGGAAGCGCTGCCACTATTGTCCCTAA
* * ***
52822734 GACGGCGTACGCTTAAAACTTTTT-CGGCTCTTCCTCTGTAGCGCCGCTAATGATTGACTTCAGC
1 GACGGCGTACGCTTAAAACTTTTTGCGGCGCTTCCACCAAAGCGCCGCTAATGATTGACTTCAGC
** * *
52822798 GGCGCTTTAAAGAAAGCGCCACTATTGTGTCTAAAACTCAACAAGAAAACGGCGTCGTTCGGTAA
66 GGCAATTTAAAGAAAGCGCCACTATGGTGTCTAAAACTCAACAAGAAAACGACGTCGTTCGGTAA
52822863 AAACCTTTGTGGCGCT
131 AAACCTTTGTGGCGCT
52822879 TTGGGAAAGC
Statistics
Matches: 125, Mismatches: 20, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
175 102 0.82
176 23 0.18
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (176 bp):
GACGGCGTACGCTTAAAACTTTTTGCGGCGCTTCCACCAAAGCGCCGCTAATGATTGACTTCAGC
GGCAATTTAAAGAAAGCGCCACTATGGTGTCTAAAACTCAACAAGAAAACGACGTCGTTCGGTAA
AAACCTTTGTGGCGCTCCAGGGAAGCGCTGCCACTATTGTCCCTAA
Found at i:52829171 original size:24 final size:22
Alignment explanation
Indices: 52829126--52829169 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
52829116 TTTCTGAATT
*
52829126 TTTTTATATTTTTTAAAATTTA
1 TTTTTAAATTTTTTAAAATTTA
*
52829148 TTTTTAAATATTTTTATAATTT
1 TTTTTAAAT-TTTTTAAAATTT
52829170 TAAATTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (22 bp):
TTTTTAAATTTTTTAAAATTTA
Found at i:52839234 original size:60 final size:60
Alignment explanation
Indices: 52839169--52839393 Score: 201
Period size: 63 Copynumber: 3.7 Consensus size: 60
52839159 CCTCGGGCTG
* * **
52839169 TACATTACAGTATAGCAG-CGGGACCTTCAGCAACTCTTCAACAGGAGGGACCTCAGGCCA
1 TACATTACAGTATAGCAGCCGGGACCTTC-GCAACTCCTCAACAGGAGGAACCTCATACCA
* * * * *
52839229 TACATTACAGTGTAGCA-TCGGGACTTTC-C-A-TGACTCAACCA-GAGCAACCTCATACCA
1 TACATTACAGTATAGCAGCCGGGACCTTCGCAACT-CCTCAA-CAGGAGGAACCTCATACCA
* * * * *
52839286 TACATTACAGTATAGCAGCACCAGGACCTTCTGCGACTCCTCAACAGGAGCAGCCTCTTACCA
1 TACATTACAGTATAGCAG--CCGGGACCTTC-GCAACTCCTCAACAGGAGGAACCTCATACCA
52839349 TACATTACAGTATAGCAGCACCGGGACCTTCCGCAACTCCTCAAC
1 TACATTACAGTATAGCAG--CCGGGACCTT-CGCAACTCCTCAAC
52839394 GGAAGGCATC
Statistics
Matches: 136, Mismatches: 17, Indels: 21
0.78 0.10 0.12
Matches are distributed among these distances:
56 1 0.01
57 33 0.24
58 3 0.02
60 33 0.24
62 3 0.02
63 61 0.45
64 2 0.01
ACGTcount: A:0.30, C:0.32, G:0.18, T:0.20
Consensus pattern (60 bp):
TACATTACAGTATAGCAGCCGGGACCTTCGCAACTCCTCAACAGGAGGAACCTCATACCA
Found at i:52844469 original size:21 final size:21
Alignment explanation
Indices: 52844445--52844484 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
52844435 GTTGAGGGAC
* *
52844445 CTAATTAAAATTTTTAAAAGT
1 CTAATGAAAATTTTAAAAAGT
*
52844466 CTAATGAAGATTTTAAAAA
1 CTAATGAAAATTTTAAAAA
52844485 ATTCAGGGGG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.50, C:0.05, G:0.07, T:0.38
Consensus pattern (21 bp):
CTAATGAAAATTTTAAAAAGT
Found at i:52847510 original size:63 final size:63
Alignment explanation
Indices: 52847333--52847630 Score: 288
Period size: 63 Copynumber: 4.8 Consensus size: 63
52847323 CGACCTCGGT
* * * * * *
52847333 CCATACATTACAGTATAGCAG---CGGGACCTTCAGTGACTCAC-CAACAAGAGCAACCTCAGT
1 CCATACATTACAGTATAGCAGCACCGGGACCTTCCGCGACTC-CTCAACAGGAACAACCTCTGA
* * * * * *
52847393 CCATACATTACAG---CGTAGCTCCGGGACCTTCCACGGCTCCTCAACCA-GAGCAACCTCTGA
1 CCATACATTACAGTATAGCAGCACCGGGACCTTCCGCGACTCCTCAA-CAGGAACAACCTCTGA
* * * * *
52847453 CCATACATTACAGTATAGCAGCACCGGGACCTTCGGCAATTCCTCAACAGGAACAACCTCAGG
1 CCATACATTACAGTATAGCAGCACCGGGACCTTCCGCGACTCCTCAACAGGAACAACCTCTGA
* * * * * * *
52847516 CCATGCATTACAGTGTAGCAGCATCAGGACCTTCCGTGACTCCTCAACAGGACCAACCTCTTA
1 CCATACATTACAGTATAGCAGCACCGGGACCTTCCGCGACTCCTCAACAGGAACAACCTCTGA
* *
52847579 CCATACATTACAGTATAACAGCACCGGGACCTTCCGCGACTACTCAACAGGA
1 CCATACATTACAGTATAGCAGCACCGGGACCTTCCGCGACTCCTCAACAGGA
52847631 GCCAGCAGTT
Statistics
Matches: 191, Mismatches: 38, Indels: 15
0.78 0.16 0.06
Matches are distributed among these distances:
57 3 0.02
59 1 0.01
60 54 0.28
61 2 0.01
62 2 0.01
63 129 0.68
ACGTcount: A:0.30, C:0.33, G:0.18, T:0.19
Consensus pattern (63 bp):
CCATACATTACAGTATAGCAGCACCGGGACCTTCCGCGACTCCTCAACAGGAACAACCTCTGA
Found at i:52847588 original size:126 final size:123
Alignment explanation
Indices: 52847333--52847630 Score: 345
Period size: 126 Copynumber: 2.4 Consensus size: 123
52847323 CGACCTCGGT
* * * *
52847333 CCATACATTACAGTATAGCAG---CGGGACCTTCAGTGACTCAC-CAACAAGAGCAACCTCAGTC
1 CCATACATTACAGTATAGCAGCACCGGGACCTTCAGCGACTC-CTCAACAGGAACAACCTCAGGC
* * * *
52847394 CATACATTACAGCGTAGCTCCGGGACCTTCCACGGCTCCTCAACCAGAGCAACCTCTGA
65 CATACATTACAGCGTAGCGCCAGGACCTTCCACGACTCCTCAACCAGACCAACCTCTGA
* * *
52847453 CCATACATTACAGTATAGCAGCACCGGGACCTTCGGCAATTCCTCAACAGGAACAACCTCAGGCC
1 CCATACATTACAGTATAGCAGCACCGGGACCTTCAGCGACTCCTCAACAGGAACAACCTCAGGCC
* * ** *
52847518 ATGCATTACAGTGTAGCAGCATCAGGACCTTCCGTGACTCCTCAA-CAGGACCAACCTCTTA
66 ATACATTACAGCGTAGC-GC--CAGGACCTTCCACGACTCCTCAACCA-GACCAACCTCTGA
* * *
52847579 CCATACATTACAGTATAACAGCACCGGGACCTTCCGCGACTACTCAACAGGA
1 CCATACATTACAGTATAGCAGCACCGGGACCTTCAGCGACTCCTCAACAGGA
52847631 GCCAGCAGTT
Statistics
Matches: 149, Mismatches: 21, Indels: 10
0.83 0.12 0.06
Matches are distributed among these distances:
120 21 0.14
122 1 0.01
123 47 0.32
124 1 0.01
125 2 0.01
126 77 0.52
ACGTcount: A:0.30, C:0.33, G:0.18, T:0.19
Consensus pattern (123 bp):
CCATACATTACAGTATAGCAGCACCGGGACCTTCAGCGACTCCTCAACAGGAACAACCTCAGGCC
ATACATTACAGCGTAGCGCCAGGACCTTCCACGACTCCTCAACCAGACCAACCTCTGA
Found at i:52848222 original size:7 final size:7
Alignment explanation
Indices: 52848210--52848234 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
52848200 AGTGATTGGA
52848210 TTTTTAT
1 TTTTTAT
52848217 TTTTTAT
1 TTTTTAT
52848224 TTTTTAT
1 TTTTTAT
52848231 TTTT
1 TTTT
52848235 CTCATAATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTAT
Found at i:52848424 original size:20 final size:19
Alignment explanation
Indices: 52848382--52848426 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
52848372 TATAATTTTT
*
52848382 AAAATTTTAAAATTAATAA
1 AAAATTTTAAAATTAAGAA
*
52848401 AAAATTTTAAAATTTTAGAA
1 AAAATTTTAAAA-TTAAGAA
52848421 AAAATT
1 AAAATT
52848427 ATCCATGTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
AAAATTTTAAAATTAAGAA
Found at i:52849779 original size:3 final size:3
Alignment explanation
Indices: 52849771--52849825 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
52849761 TGGGTCCTGT
52849771 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
52849819 TTC TTC T
1 TTC TTC T
52849826 GTAATGTTCG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:52850840 original size:57 final size:60
Alignment explanation
Indices: 52850718--52850843 Score: 145
Period size: 60 Copynumber: 2.1 Consensus size: 60
52850708 CTTAAAGTCT
* * *
52850718 AGAACAATTGTCAAGTTTAGGGATTAACTTGGACACAAAAGAAGTTCAAGCCCCAAAGTG
1 AGAATAATTGTCAAGTTTAGGGACTAACTTGGACACAAAAGAAGTTCAAACCCCAAAGTG
* * *
52850778 CGAATAATTGTCAA-TTTCAGGGCCTAATTTGGACA-AAAA-AA-TTCAAACCCCAATA-TG
1 AGAATAATTGTCAAGTTT-AGGGACTAACTTGGACACAAAAGAAGTTCAAACCCCAA-AGTG
52850835 AGAATAATT
1 AGAATAATT
52850844 ACCAAATTCA
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
57 21 0.37
58 3 0.05
59 7 0.12
60 26 0.46
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.25
Consensus pattern (60 bp):
AGAATAATTGTCAAGTTTAGGGACTAACTTGGACACAAAAGAAGTTCAAACCCCAAAGTG
Done.