Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 193 of 250
Found at i:60351442 original size:7 final size:7
Alignment explanation
Indices: 60351430--60351457 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
60351420 ATAAAATTGA
60351430 AATTTTT
1 AATTTTT
60351437 AATTTTT
1 AATTTTT
60351444 AATTTTT
1 AATTTTT
60351451 AATTTTT
1 AATTTTT
60351458 GAAAATGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
AATTTTT
Found at i:60364582 original size:11 final size:12
Alignment explanation
Indices: 60364560--60364599 Score: 57
Period size: 11 Copynumber: 3.4 Consensus size: 12
60364550 TATAAATTAC
60364560 AATATT-AATTT
1 AATATTAAATTT
60364571 AAT-TTAAATTT
1 AATATTAAATTT
60364582 AATATTAAATTCT
1 AATATTAAATT-T
60364595 AATAT
1 AATAT
60364600 ATTTCTATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 2 0.08
11 11 0.42
12 7 0.27
13 6 0.23
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (12 bp):
AATATTAAATTT
Found at i:60367312 original size:20 final size:20
Alignment explanation
Indices: 60367284--60367340 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
60367274 AATACTATGA
* *
60367284 ACCACTCCATTTACTTTCTT
1 ACCATTCCATTTACTTACTT
60367304 ACCATTCCATTTACTTACTT
1 ACCATTCCATTTACTTACTT
* *
60367324 TCCATTTCATTTACTTA
1 ACCATTCCATTTACTTA
60367341 GCATAAAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.23, C:0.30, G:0.00, T:0.47
Consensus pattern (20 bp):
ACCATTCCATTTACTTACTT
Found at i:60371899 original size:19 final size:20
Alignment explanation
Indices: 60371875--60371912 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
60371865 GGTACCACCA
60371875 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
60371894 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
60371913 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:60379193 original size:46 final size:46
Alignment explanation
Indices: 60379034--60379206 Score: 154
Period size: 46 Copynumber: 3.7 Consensus size: 46
60379024 AACCCGCCCC
* * ** *** *
60379034 TAAGTGAACTCAGACTTAACTCAATGAGCCCGGGTGTTCGCATCCA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * * * *
60379080 TAAATGAACTCGGACTCGACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
60379128 TCA-CGAACTCAGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTTGCATCCA
60379173 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
60379207 TGCTCAACCA
Statistics
Matches: 99, Mismatches: 21, Indels: 14
0.74 0.16 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 55 0.56
47 27 0.27
48 2 0.02
49 1 0.01
50 4 0.04
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:60380245 original size:42 final size:42
Alignment explanation
Indices: 60380186--60380281 Score: 113
Period size: 42 Copynumber: 2.3 Consensus size: 42
60380176 ATGAGTTTTT
* * *
60380186 GTTTAGCTCTTACGAGCTTTAGTTTAA-CCTTGATGGGTTTCC
1 GTTTAGCTCTTACGAGCTTCAGTTCAACCCTT-ATGGGTTTCA
** *
60380228 GTTTAGCTCTTTTGAGCTTCCGTTCAACCCTTATGGGTTTCA
1 GTTTAGCTCTTACGAGCTTCAGTTCAACCCTTATGGGTTTCA
*
60380270 GTTTAGCACTTA
1 GTTTAGCTCTTA
60380282 TGTGCTTTCG
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
42 41 0.91
43 4 0.09
ACGTcount: A:0.17, C:0.21, G:0.20, T:0.43
Consensus pattern (42 bp):
GTTTAGCTCTTACGAGCTTCAGTTCAACCCTTATGGGTTTCA
Found at i:60380298 original size:42 final size:43
Alignment explanation
Indices: 60380213--60380298 Score: 111
Period size: 42 Copynumber: 2.0 Consensus size: 43
60380203 TTTAGTTTAA
* * * *
60380213 CCTTGATGGGTTTCCGTTTAGCTCTTTTGAGCTTCCGTTCAAC
1 CCTTGATGGGTTTCAGTTTAGCACTTATGAGCTTCCGTGCAAC
* *
60380256 CCTT-ATGGGTTTCAGTTTAGCACTTATGTGCTTTCGTGCAAC
1 CCTTGATGGGTTTCAGTTTAGCACTTATGAGCTTCCGTGCAAC
60380298 C
1 C
60380299 TTTGGGCTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 33 0.89
43 4 0.11
ACGTcount: A:0.14, C:0.24, G:0.21, T:0.41
Consensus pattern (43 bp):
CCTTGATGGGTTTCAGTTTAGCACTTATGAGCTTCCGTGCAAC
Found at i:60390942 original size:16 final size:16
Alignment explanation
Indices: 60390921--60390951 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
60390911 GAATAGTTAG
60390921 GATACATATGTCATGT
1 GATACATATGTCATGT
60390937 GATACATATGTCATG
1 GATACATATGTCATG
60390952 ACATAGGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.35
Consensus pattern (16 bp):
GATACATATGTCATGT
Found at i:60394240 original size:15 final size:15
Alignment explanation
Indices: 60394215--60394247 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
60394205 AACCATTTCA
60394215 AAAAGAAAAGAAGAAC
1 AAAAGAAAAGAA-AAC
60394231 AAAA-AAAAGAAAAC
1 AAAAGAAAAGAAAAC
60394245 AAA
1 AAA
60394248 GAGATGCAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.35
15 7 0.41
16 4 0.24
ACGTcount: A:0.82, C:0.06, G:0.12, T:0.00
Consensus pattern (15 bp):
AAAAGAAAAGAAAAC
Found at i:60394311 original size:15 final size:15
Alignment explanation
Indices: 60394291--60394321 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
60394281 AGCAGTAACC
60394291 AAAATAAAAATAATA
1 AAAATAAAAATAATA
*
60394306 AAAATAAAACTAATA
1 AAAATAAAAATAATA
60394321 A
1 A
60394322 TTTTTTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.19
Consensus pattern (15 bp):
AAAATAAAAATAATA
Found at i:60395167 original size:35 final size:35
Alignment explanation
Indices: 60395090--60395170 Score: 110
Period size: 35 Copynumber: 2.3 Consensus size: 35
60395080 TATCCCTCCA
*
60395090 AAACACACCAATGCTCATAAGAGCTACTCCAATCG
1 AAACACACCAATGCTCAAAAGAGCTACTCCAATCG
* * *
60395125 AAGCACACCAATGCTCAAAAGAGCTAGTCC-TTCCG
1 AAACACACCAATGCTCAAAAGAGCTACTCCAAT-CG
60395160 AAACACACCAA
1 AAACACACCAA
60395171 ATAGAGAGTA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
34 1 0.03
35 39 0.98
ACGTcount: A:0.41, C:0.32, G:0.12, T:0.15
Consensus pattern (35 bp):
AAACACACCAATGCTCAAAAGAGCTACTCCAATCG
Found at i:60396256 original size:18 final size:17
Alignment explanation
Indices: 60396233--60396266 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
60396223 TTAAGTCATC
60396233 CAATTATAATTATTTAAT
1 CAATTATAATT-TTTAAT
*
60396251 CAATTATCATTTTTAA
1 CAATTATAATTTTTAA
60396267 ATTAATAGTC
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:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (17 bp):
CAATTATAATTTTTAAT
Found at i:60403025 original size:24 final size:24
Alignment explanation
Indices: 60402997--60403042 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
60402987 CTTTTTTAAT
*
60402997 AAAAATATTTAAAAATTTAAAAGA
1 AAAAATATATAAAAATTTAAAAGA
*
60403021 AAAAATATATAAAATTTTAAAA
1 AAAAATATATAAAAATTTAAAA
60403043 TTTTAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (24 bp):
AAAAATATATAAAAATTTAAAAGA
Found at i:60403067 original size:18 final size:18
Alignment explanation
Indices: 60403041--60403075 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
60403031 AAAATTTTAA
*
60403041 AATTTTAAAATATAAAAG
1 AATTATAAAATATAAAAG
*
60403059 AATTATAAATTATAAAA
1 AATTATAAAATATAAAA
60403076 ATATATGCAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (18 bp):
AATTATAAAATATAAAAG
Found at i:60403068 original size:25 final size:26
Alignment explanation
Indices: 60402995--60403080 Score: 74
Period size: 25 Copynumber: 3.4 Consensus size: 26
60402985 TACTTTTTTA
* *
60402995 ATAAAAATATTTAAAAATT-TAAAA-G
1 ATAAAAATA-TAAAAAATTATAAAATT
* *
60403020 A-AAAAATATATAAAATTTTAAAATT
1 ATAAAAATATAAAAAATTATAAAATT
*
60403045 -TTAAAATATAAAAGAATTAT-AAATT
1 ATAAAAATATAAAA-AATTATAAAATT
60403070 ATAAAAATATA
1 ATAAAAATATA
60403081 TGCATATAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
23 7 0.14
24 12 0.24
25 16 0.33
26 14 0.29
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (26 bp):
ATAAAAATATAAAAAATTATAAAATT
Found at i:60403654 original size:30 final size:30
Alignment explanation
Indices: 60403618--60403674 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
60403608 ACTTAATAGA
60403618 GAGTGACCAAAATAGAAAA-GATCTAAACCT
1 GAGTGACCAAAATA-AAAATGATCTAAACCT
*
60403648 GAGTGACCAAAATAAAAATTATCTAAA
1 GAGTGACCAAAATAAAAATGATCTAAA
60403675 ATGTTAGTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 4 0.16
30 21 0.84
ACGTcount: A:0.53, C:0.14, G:0.14, T:0.19
Consensus pattern (30 bp):
GAGTGACCAAAATAAAAATGATCTAAACCT
Found at i:60403776 original size:2 final size:2
Alignment explanation
Indices: 60403763--60405417 Score: 1325
Period size: 2 Copynumber: 809.0 Consensus size: 2
60403753 ATAATTTATC
* *
60403763 TA TA TCA TA TA TA TCA TA TA TA TA TG TA TA TA TA TCA TA GA TA
1 TA TA T-A TA TA TA T-A TA TA TA TA TA TA TA TA TA T-A TA TA TA
* * * *
60403806 TA TA TCA TA TA TA TA GA TA TC TA TA TA TC TA TA TC TA TA TA TA
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
60403849 TA TCA TA TA TA T- TA TC TA TA TCA TA TA TA TCA TA TA TA TA TA
1 TA T-A TA TA TA TA TA TA TA TA T-A TA TA TA T-A TA TA TA TA TA
* * *
60403891 TA GA TA TA TA TA GA TA TGA TA TA -A TA GA TA -A TA TA TA -A TA
1 TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA
* *
60403931 TA TA TCA TA TA TA TA TA TG TA TA TA TA TCA TA TA TA TA TA TG TA
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA
* * * *
60403975 TA TA TA TCA TA GA TA TA TA TCA TA TA TA TA GA TA TC TA TA TA TC
1 TA TA TA T-A TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA
* *
60404019 TA TA TC TA TA TA TA TA TCA TA TA TA T- TA TC TA TA TCA TA TA TA
1 TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA T-A TA TA TA
* * *
60404062 TCA TA TA TA TA GA TA TA TA TA GA TA TGA TA TA -A TA GA TA -A TA
1 T-A TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA
* *
60404104 TA TA -A TA TA TA TCA TA TA TA TA TA TG TA TA TA TA TCA TA GA TA
1 TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA T-A TA TA TA
* * * *
60404147 TA TA TCA TA TA TA TA GA TA TC TA TA TA TC TA TA TC TA TA TA TA
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
60404190 TA TCA TA TA TA T- TA TC TA TA TCA TA TA TA TCA TA TA TA TA TA
1 TA T-A TA TA TA TA TA TA TA TA T-A TA TA TA T-A TA TA TA TA TA
* * *
60404232 TA GA TCA TA TA TA TCA TA TA TA TA TA TA TA GA TCA TA TA TG TCA
1 TA TA T-A TA TA TA T-A TA TA TA TA TA TA TA TA T-A TA TA TA T-A
* * *
60404276 TA TA TA TA TA GA TA GA TA TA TA TA T- TA T- TGA AA GT- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA -TA TA TA TA
* * *
60404317 TA GA TA TA TA -A TA GA TA -A TA TA TA TA TCA TA TA TA TA -A CTT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA -TA
* *
60404358 TCA -A TA -A TA TA TA TA TC TA TC TA TA TA TA TA TA TGA TA TA TA
1 T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA
* * * * *
60404400 GA TA TA TA TA TCA TA TA TA TA GA TA TC TA TA TA TA TC TT TCA -A
1 TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA
* *
60404443 TA -A TA TA TA TA TA GA TA TGA TA TA -A TA GA TA -A TA TA TA TA
1 TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA
* *
60404483 TA TCA TA TA TA TA TA TG TA TA TA TA TCA TA GA TA TA TA TCA TA
1 TA T-A TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA T-A TA
* * * *
60404526 TA TA TA GA TA TC TA TA TA TC TA TA TC TA TA TA TA TCA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA
* *
60404569 T- TA TC TA TA TCA TA TA TA TCA TA TA TA TA TA GA TA TGA TA TA
1 TA TA TA TA TA T-A TA TA TA T-A TA TA TA TA TA TA TA T-A TA TA
* * *
60404611 -A TA GA TA AA TA TA -A TA TA TA TA TCA TA TA TA TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA
* * * *
60404652 TA TGA TA GA TA TA TA TCA TA TA TA TA GA TA TC TA TA TA TC TA TA
1 TA T-A TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
60404696 TC TA TA TA TA TA TA TCA TA TA TA T- TA TC TA TA TCA TA TA TCA
1 TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA T-A TA TA T-A
* * *
60404738 TA TA TA TA TA TA GA TA TA TA TA GA TA TGA TA TA -A TA GA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA
* * *
60404779 TA GA TA -A TA TA TA TA TCA TA TA TA TA TG TA TA TA TA TCA TA GA
1 TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA T-A TA TA
* * * *
60404822 TA TA TA TCA TA TA TA TA GA TA TC TA TA TA TC TA TA TC TA TA TA
1 TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
60404865 TA TA TA TA TCA TA TA TA T- TA TC TA TA TCA TA TA TA TCA TA TA
1 TA TA TA TA T-A TA TA TA TA TA TA TA TA T-A TA TA TA T-A TA TA
* * * *
60404907 TA TA TA GA TA TA TA TA GA TA TGA TA TA -A TA GA TA -A TA GA TA
1 TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA
* *
60404948 -A TA TA TA TA TA TCA TA TA TA TA TG TA TA TA TA TCA TA GA TA TA
1 TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA T-A TA TA TA TA
* * * *
60404991 TA TCA TA TA TA TA GA TA TC TA TA TA TC TA TA TC TA TA TA TA TA
1 TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
60405034 TCA TA TA TA TA TA TG TA TA TA TA TCA TA GA TA TA TA TA TA TGA
1 T-A TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA T-A
* * * *
60405077 TA TA TA TA TA GA TA TA GA TA TA TA GA TA TC TA TA TA TA TGA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA
* * * *
60405120 AA TA TC TC TA -A TA TA TA TA TCA TA GA TA TA TA TCA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA T-A TA TA TA TA
* * * * *
60405163 GA TA TC TA TA TA TA -A CTT TCA -A TA -A TA TA TA TA TC TA TC TA
1 TA TA TA TA TA TA TA TA -TA T-A TA TA TA TA TA TA TA TA TA TA TA
* * *
60405204 TA TA TA TA TA TA TGA TA TA TA TGA TC TA TA TA TA TA TA TC GA TA
1 TA TA TA TA TA TA T-A TA TA TA T-A TA TA TA TA TA TA TA TA TA TA
* * *
60405248 TA TA TA -A TA TGA TC TA TA TA TA TA TGA TA CA TA TA TA TA TA GA
1 TA TA TA TA TA T-A TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA
* * * *
60405291 TA TA GA TA TA GA TA TA TA TA GA TA TCA TA TA TA TA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA
* * * * *
60405334 TA TA TCA TA TA TA TA GA TA TC TA TA TA TC TA TA TC TA TA TC TA
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
60405377 TA TA TA TA TCG TA TA TA T- TA TC TA TA TCA TA TA TA TA TA TA
1 TA TA TA TA T-A TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA
60405418 GATTTTGTTC
Statistics
Matches: 1311, Mismatches: 229, Indels: 226
0.74 0.13 0.13
Matches are distributed among these distances:
1 38 0.03
2 1139 0.87
3 134 0.10
ACGTcount: A:0.45, C:0.06, G:0.05, T:0.44
Consensus pattern (2 bp):
TA
Found at i:60404116 original size:157 final size:158
Alignment explanation
Indices: 60403763--60405385 Score: 1088
Period size: 157 Copynumber: 10.0 Consensus size: 158
60403753 ATAATTTATC
* * * *
60403763 TATATCATATATATCATATATATATGTATATATATCATAGATATATATCATATATATAGATATCT
1 TATAT-ATATATATGATATA-ATA-G-ATA-ATAT-ATA-ATATATATCATATATATATATGTAT
* *
60403828 ATATATC-T--ATATCTAT-ATATATAT-CATATATAT-TATCTATATC-ATATATATCAT-ATA
59 ATATATCATAGATATATATCATATATATAGATATATATATATCTATATCTATATATAT-ATCATA
** * * *
60403885 TATATATAGATATAT-ATAGATATGATATA-ATAGA
123 TATATATATCTATATCATATATATCATATATATATA
* * *
60403919 TA-ATATATAATAT-ATATCATATAT-ATATATGTATATATATCATATATATATATGTATATATA
1 TATATATAT-ATATGATATAATAGATAATATAT-AATATATATCATATATATATATGTATATATA
*
60403981 TCATAGATATATATCATATATATAGATATCTATATATCTATATCTATATATATATCATATATAT-
64 TCATAGATATATATCATATATATAGATATATATATATCTATATCTATATATATATCATATATATA
*
60404045 TATCTATATCATATATATCATATATATAGA
129 TATCTATATCATATATATCATATATATATA
*
60404075 TATATATAGATATGATATAATAGATAATATATAATATATATCATATATATATATGTATATATATC
1 TATATATATATATGATATAATAGATAATATATAATATATATCATATATATATATGTATATATATC
*
60404140 ATAGATATATATCATATATATAGATATCTATATATCTATATCTATATATATATCATATATAT-TA
66 ATAGATATATATCATATATATAGATATATATATATCTATATCTATATATATATCATATATATATA
60404204 TCTATATCATATATATCATATATATATA
131 TCTATATCATATATATCATATATATATA
* * * * * *
60404232 TAGATCATATATATCATAT-ATATATATATAGATCATATATGTCATATATATATAGATAGATATA
1 TATAT-ATATATATGATATAATAGATA-ATATATAATATATATCATATATATAT--AT-G-TATA
* * *
60404296 TATATTATTGAAAGTTATATATAGATATATAATAGATAATATATATATC-ATA--TATATA-ACT
60 TATATCA-T---AGATATATAT-CATATAT-ATAGAT-ATATATATATCTATATCTATATATA-T
*
60404357 TTCAATAATATATATATC--TATC-TATATAT-ATATATGATATA
117 ATC-AT-ATATATATATCTATATCATATATATCATATAT-ATATA
* * * * *
60404398 TAGATATATATATCATATATATAGAT-ATCTATATATATCTTTCAATAATATATATATAG-ATAT
1 TATATATATATATGATATA-ATAGATAATATATA-ATATATATC-AT-ATATATATAT-GTATAT
* * * * *
60404461 GATATAATAGATAATATAT-ATATATCATATATATATATGTATATATATCATAGATATATATCAT
61 -ATATCATAGAT-ATATATCATATAT-ATAGATATATATATATCTATATC-TATATATATATCAT
*
60404525 ATATATAGATATCTATAT-ATCTATATCTATATATATCATA
122 ATATAT--ATATCTATATCATATATATC-ATATATAT-ATA
* * * * * * *
60404565 TATATTATCTATATCATAT-ATATCATATATATATAGATATGATATAATAGATAAATATAATATA
1 TATA-TATATATATGATATAATA-GATA-ATATATA-ATAT-ATATCATATATATATAT-GTATA
* * * *
60404629 TATATCATATATATATGT-ATATATAT-GATAGATATATATC-ATA--TATATAGATATCTATAT
60 TATATCATAGATATATATCATATATATAGATATATATATATCTATATCTATATATATATC-ATAT
*
60404689 ATCTATATCTATAT-ATATATATCATATATATTATCTA
124 ATATATATCTATATCATATATATCATATATA-TA--TA
* * * *
60404726 TATCATATATCATAT-ATATATATAGAT-ATATATAGATATGATATAATAGATAATAGATAATAT
1 TAT-ATATAT-ATATGATATA-ATAGATAATATATA-ATAT-ATATCATATAT-ATATAT-GTAT
* * ** *
60404789 ATATATCATATATATATGTAT-ATATATCATAGATATATATCATATATATAGATATCTATATATC
59 ATATATCATAGATATA--TATCATATAT-ATAGATATATAT-ATATCTATATCTATATATATATC
* *
60404853 TATATCTATATATATATATATCATATATATTATCTATATCATATA
120 -ATA--TATATATATCTATATCATATATATCA--TATAT-ATATA
* * *
60404898 TATCATATATATATAGATATATATAGAT-ATGATATAATAGATAAT-AGATAATATATATATATC
1 TAT-ATATATATAT-GATATA-ATAGATAAT-ATATAATATAT-ATCATAT-ATATATATGTAT-
* **
60404961 ATATAT-ATATGTATATATATCATAGATAT--ATATCATATATATAGATATCTATATATCTATAT
59 ATATATCATA-G-ATATATATCATATATATAGATAT-ATATATATCTATATCTATATA--TATAT
*
60405023 C-TATATATATATC-ATAT-ATATATATGTATATATATCATA
119 CATATATATATATCTATATCATATATAT-CATATATAT-ATA
* * * * * *
60405062 GATATATATATATGATAT-ATATATAGATATAGATATATAGAT-ATCTATATATATG-ATAAATA
1 TATATATATATATGATATAATAGATA-ATATATA-ATATATATCATATATATATATGTATATATA
* * * ** *
60405124 TCTCTA-ATATATAT-ATCATAGATATATATCATATATATAGATATCTATATATAACTTTCAATA
64 TC-ATAGATATATATCAT-ATATATAGATAT-ATATATATCTATATCTATATAT-A-TATC-AT-
*
60405187 ATATATATATCTATCT-ATATATAT-ATATATGATATA
122 ATATATATATCTATATCATATATATCATATAT-ATATA
* * *
60405223 TATGATCTATATAT-ATAT-ATCGAT-ATATATAATAT-GATC-TATATATATATGATACATATA
1 TAT-ATATATATATGATATAATAGATAATATATAATATATATCATATATATATATG-T--ATATA
* *
60405283 TAT-ATAGATATAGATATAGATATATATAGATATCATATATA--TATATGTATATATATCAT-AT
62 TATCATAGATAT--ATAT-CATATATATAGATAT-ATATATATCTATATCTATATATAT-ATCAT
* * *
60405344 ATATAGATATCTATAT-ATCTATATC-TATATCTATA
122 ATATATATATCTATATCATATATATCATATATATATA
60405379 TATATAT
1 TATATAT
60405386 CGTATATATT
Statistics
Matches: 1221, Mismatches: 122, Indels: 249
0.77 0.08 0.16
Matches are distributed among these distances:
148 31 0.03
149 5 0.00
151 9 0.01
152 8 0.01
153 10 0.01
154 27 0.02
155 37 0.03
156 22 0.02
157 200 0.16
158 52 0.04
159 57 0.05
160 80 0.07
161 104 0.09
162 69 0.06
163 66 0.05
164 23 0.02
165 64 0.05
166 63 0.05
167 56 0.05
168 54 0.04
169 63 0.05
170 6 0.00
171 35 0.03
172 41 0.03
173 26 0.02
174 12 0.01
175 1 0.00
ACGTcount: A:0.45, C:0.06, G:0.05, T:0.44
Consensus pattern (158 bp):
TATATATATATATGATATAATAGATAATATATAATATATATCATATATATATATGTATATATATC
ATAGATATATATCATATATATAGATATATATATATCTATATCTATATATATATCATATATATATA
TCTATATCATATATATCATATATATATA
Found at i:60418482 original size:32 final size:32
Alignment explanation
Indices: 60418441--60418502 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
60418431 CATCTATTTT
60418441 CATTGTTCAACTCTTTGACAACACGAAAAATC
1 CATTGTTCAACTCTTTGACAACACGAAAAATC
*
60418473 CATTGTTCAACTCTTTGACAACATGAAAAA
1 CATTGTTCAACTCTTTGACAACACGAAAAA
60418503 ACCAAAAGCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.39, C:0.23, G:0.10, T:0.29
Consensus pattern (32 bp):
CATTGTTCAACTCTTTGACAACACGAAAAATC
Found at i:60421080 original size:16 final size:16
Alignment explanation
Indices: 60421055--60421087 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
60421045 ACGATATTCT
*
60421055 ATATTTTATAGTAGCA
1 ATATTCTATAGTAGCA
60421071 ATATTCTATAGTAGCA
1 ATATTCTATAGTAGCA
60421087 A
1 A
60421088 AGGAATAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.39
Consensus pattern (16 bp):
ATATTCTATAGTAGCA
Found at i:60423743 original size:18 final size:18
Alignment explanation
Indices: 60423716--60423758 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
60423706 CGCATAAAAA
* *
60423716 GAAAGCAAATAAATAAAC
1 GAAAGAAAATAAACAAAC
*
60423734 GAAAGAAAATAAACAAAT
1 GAAAGAAAATAAACAAAC
60423752 GAAAGAA
1 GAAAGAA
60423759 GGGGGAAAGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.70, C:0.07, G:0.14, T:0.09
Consensus pattern (18 bp):
GAAAGAAAATAAACAAAC
Found at i:60445117 original size:13 final size:13
Alignment explanation
Indices: 60445101--60445128 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
60445091 GATATTCATA
60445101 ATTAATATGAATT
1 ATTAATATGAATT
60445114 ATTAATATGAATT
1 ATTAATATGAATT
60445127 AT
1 AT
60445129 AGACTCGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (13 bp):
ATTAATATGAATT
Found at i:60445342 original size:19 final size:19
Alignment explanation
Indices: 60445300--60445335 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
60445290 AAATTTTATA
*
60445300 TATATATTTATTATTTATC
1 TATATATTTATTATATATC
60445319 TATATATTTA-TATATAT
1 TATATATTTATTATATAT
60445336 TTAATATCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (19 bp):
TATATATTTATTATATATC
Found at i:60445434 original size:17 final size:17
Alignment explanation
Indices: 60445412--60445450 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
60445402 CTGACTCCAT
*
60445412 TTTTAT-TTTCTAGTTTA
1 TTTTATATTT-TAGTATA
60445429 TTTTATATTTTAGTATA
1 TTTTATATTTTAGTATA
60445446 TTTTA
1 TTTTA
60445451 CATCTAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.69
Consensus pattern (17 bp):
TTTTATATTTTAGTATA
Found at i:60447337 original size:14 final size:14
Alignment explanation
Indices: 60447318--60447346 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
60447308 TTTTTTACTT
60447318 TGTTATATAGATTA
1 TGTTATATAGATTA
60447332 TGTTATATAGATTA
1 TGTTATATAGATTA
60447346 T
1 T
60447347 TATTTATCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (14 bp):
TGTTATATAGATTA
Found at i:60447492 original size:21 final size:21
Alignment explanation
Indices: 60447468--60447507 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
60447458 TTTATCAGTA
*
60447468 ATTCCATTTCATTTATATTAT
1 ATTCCATATCATTTATATTAT
*
60447489 ATTCTATATCATTTATATT
1 ATTCCATATCATTTATATT
60447508 TTGAAATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.12, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTCCATATCATTTATATTAT
Found at i:60448114 original size:11 final size:11
Alignment explanation
Indices: 60448098--60448122 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
60448088 CTTTATATAC
60448098 ATATACAATAA
1 ATATACAATAA
60448109 ATATACAATAA
1 ATATACAATAA
60448120 ATA
1 ATA
60448123 CAATAATCGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (11 bp):
ATATACAATAA
Found at i:60448953 original size:21 final size:21
Alignment explanation
Indices: 60448929--60448972 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
60448919 GAATCTTTAG
*
60448929 TATTTATTGTATCATTT-TATT
1 TATTTAAT-TATCATTTCTATT
*
60448950 TATTTAATTATCCTTTCTATT
1 TATTTAATTATCATTTCTATT
60448971 TA
1 TA
60448973 ACTATTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.25, C:0.09, G:0.02, T:0.64
Consensus pattern (21 bp):
TATTTAATTATCATTTCTATT
Found at i:60449135 original size:21 final size:24
Alignment explanation
Indices: 60449109--60449154 Score: 71
Period size: 21 Copynumber: 2.0 Consensus size: 24
60449099 AGGTTCTTTA
60449109 TCATTT-TCATT-TTTTA-ATGAT
1 TCATTTCTCATTCTTTTATATGAT
60449130 TCATTTCTCATTCTTTTATATGAT
1 TCATTTCTCATTCTTTTATATGAT
60449154 T
1 T
60449155 TTTATGAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 6 0.27
22 5 0.23
23 5 0.23
24 6 0.27
ACGTcount: A:0.22, C:0.13, G:0.04, T:0.61
Consensus pattern (24 bp):
TCATTTCTCATTCTTTTATATGAT
Found at i:60457526 original size:6 final size:6
Alignment explanation
Indices: 60457515--60457585 Score: 59
Period size: 5 Copynumber: 13.2 Consensus size: 6
60457505 GGGATCACTA
60457515 ACTAAT ACTAAT -CTAAT -CT-A- ACTAAT ACTAAT -CTAAT ACTAAT
1 ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT
* * *
60457558 A-GAAT A-GAAT ACTAA- CCTAAT ACTAAT A
1 ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT A
60457586 GAATAGAAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
4 3 0.05
5 26 0.47
6 26 0.47
ACGTcount: A:0.49, C:0.17, G:0.03, T:0.31
Consensus pattern (6 bp):
ACTAAT
Found at i:60457537 original size:20 final size:21
Alignment explanation
Indices: 60457511--60457556 Score: 85
Period size: 20 Copynumber: 2.2 Consensus size: 21
60457501 AGCCGGGATC
60457511 ACTAACTAATACTAATCTAAT
1 ACTAACTAATACTAATCTAAT
60457532 -CTAACTAATACTAATCTAAT
1 ACTAACTAATACTAATCTAAT
60457552 ACTAA
1 ACTAA
60457557 TAGAATAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.33
Consensus pattern (21 bp):
ACTAACTAATACTAATCTAAT
Found at i:60457550 original size:11 final size:11
Alignment explanation
Indices: 60457511--60457557 Score: 73
Period size: 11 Copynumber: 4.5 Consensus size: 11
60457501 AGCCGGGATC
60457511 ACTAA-CTAAT
1 ACTAATCTAAT
60457521 ACTAATCTAAT
1 ACTAATCTAAT
60457532 -CTAA-CTAAT
1 ACTAATCTAAT
60457541 ACTAATCTAAT
1 ACTAATCTAAT
60457552 ACTAAT
1 ACTAAT
60457558 AGAATAGAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
9 5 0.15
10 13 0.38
11 16 0.47
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.34
Consensus pattern (11 bp):
ACTAATCTAAT
Found at i:60457572 original size:27 final size:27
Alignment explanation
Indices: 60457538--60457593 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
60457528 TAATCTAACT
*
60457538 AATACTAATCTAATACTAATAGAATAG
1 AATACTAACCTAATACTAATAGAATAG
60457565 AATACTAACCTAATACTAATAGAATAG
1 AATACTAACCTAATACTAATAGAATAG
60457592 AA
1 AA
60457594 AAAATAGAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.54, C:0.12, G:0.07, T:0.27
Consensus pattern (27 bp):
AATACTAACCTAATACTAATAGAATAG
Found at i:60457601 original size:14 final size:14
Alignment explanation
Indices: 60457582--60457609 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
60457572 ACCTAATACT
60457582 AATAGAATAGAAAA
1 AATAGAATAGAAAA
60457596 AATAGAATAGAAAA
1 AATAGAATAGAAAA
60457610 TACTAATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (14 bp):
AATAGAATAGAAAA
Found at i:60461764 original size:21 final size:20
Alignment explanation
Indices: 60461740--60461835 Score: 69
Period size: 20 Copynumber: 5.0 Consensus size: 20
60461730 AAAAAATAGA
60461740 AATAATAATATAT--ATAAT
1 AATAATAATATATAAATAAT
*
60461758 AATAAT-ATATAAAAATAAT
1 AATAATAATATATAAATAAT
* *
60461777 -ATAAAAATATATAAAATATT
1 AATAATAATATAT-AAATAAT
* * *
60461797 TAGAAT-ATATATAATAAAAT
1 AATAATAATATATAA-ATAAT
60461817 AGAT-ATAATATATAAATAA
1 A-ATAATAATATATAAATAA
60461836 ATTGAATATA
Statistics
Matches: 59, Mismatches: 11, Indels: 14
0.70 0.13 0.17
Matches are distributed among these distances:
17 5 0.08
18 10 0.17
19 12 0.20
20 20 0.34
21 12 0.20
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (20 bp):
AATAATAATATATAAATAAT
Found at i:60461787 original size:8 final size:9
Alignment explanation
Indices: 60461741--60461832 Score: 61
Period size: 9 Copynumber: 10.6 Consensus size: 9
60461731 AAAAATAGAA
60461741 ATAATAATAT
1 ATAA-AATAT
*
60461751 ATATAATA-
1 ATAAAATAT
*
60461759 ATAATATAT
1 ATAAAATAT
60461768 A-AAAATAAT
1 ATAAAAT-AT
60461777 ATAAAAATAT
1 AT-AAAATAT
60461787 ATAAAATAT
1 ATAAAATAT
* *
60461796 TTAGAATAT
1 ATAAAATAT
60461805 AT---ATA-
1 ATAAAATAT
*
60461810 ATAAAATAG
1 ATAAAATAT
*
60461819 ATATAATAT
1 ATAAAATAT
60461828 ATAAA
1 ATAAA
60461833 TAAATTGAAT
Statistics
Matches: 64, Mismatches: 10, Indels: 17
0.70 0.11 0.19
Matches are distributed among these distances:
5 2 0.03
6 3 0.05
8 13 0.20
9 34 0.53
10 7 0.11
11 5 0.08
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (9 bp):
ATAAAATAT
Found at i:60461835 original size:11 final size:11
Alignment explanation
Indices: 60461743--60461835 Score: 61
Period size: 11 Copynumber: 8.5 Consensus size: 11
60461733 AAATAGAAAT
60461743 AATAATATATA
1 AATAATATATA
60461754 TAATAATAATATA
1 -AATAAT-ATATA
*
60461767 TAAAAATAATATA
1 -AATAAT-ATATA
60461780 AA-AATATAT-
1 AATAATATATA
*
60461789 AA-AATATTTA
1 AATAATATATA
60461799 GAAT-ATATAT-
1 -AATAATATATA
* *
60461809 AATAAAATAGA
1 AATAATATATA
*
60461820 TATAATATATA
1 AATAATATATA
60461831 AATAA
1 AATAA
60461836 ATTGAATATA
Statistics
Matches: 66, Mismatches: 9, Indels: 13
0.75 0.10 0.15
Matches are distributed among these distances:
9 11 0.17
10 8 0.12
11 22 0.33
12 8 0.12
13 17 0.26
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (11 bp):
AATAATATATA
Found at i:60461837 original size:21 final size:21
Alignment explanation
Indices: 60461717--60461855 Score: 64
Period size: 21 Copynumber: 6.8 Consensus size: 21
60461707 TTTGTATTCT
* *
60461717 ATATAATGTATACAAAAAATAG
1 ATATAATATATA-AATAAATAG
* *
60461739 AAATAATA-ATATATATAATA-
1 ATATAATATATAAATA-AATAG
*
60461759 ATA-ATATATAAAAATAATATA-
1 ATATA-ATATATAAATAA-ATAG
**
60461780 A-A-AATATATAAAATATTTAG
1 ATATAATATAT-AAATAAATAG
60461800 A-AT-ATATAT-AATAAAATAG
1 ATATAATATATAAAT-AAATAG
*
60461819 ATATAATATATAAATAAATTG
1 ATATAATATATAAATAAATAG
*
60461840 AATATAATGT-TAAATA
1 -ATATAATATATAAATA
60461856 TATAAATAAA
Statistics
Matches: 91, Mismatches: 14, Indels: 25
0.70 0.11 0.19
Matches are distributed among these distances:
18 3 0.03
19 13 0.14
20 25 0.27
21 33 0.36
22 17 0.19
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.34
Consensus pattern (21 bp):
ATATAATATATAAATAAATAG
Found at i:60461847 original size:22 final size:22
Alignment explanation
Indices: 60461739--60461836 Score: 74
Period size: 23 Copynumber: 4.3 Consensus size: 22
60461729 CAAAAAATAG
*
60461739 AAATAATAATATATATAATAATAAT
1 AAATAA-AATAGATATAAT-AT-AT
* *
60461764 ATATAAAAATA-ATATAA-AAAT
1 AAAT-AAAATAGATATAATATAT
* ** *
60461785 ATATAAAATATTTAGAATATAT
1 AAATAAAATAGATATAATATAT
60461807 ATAATAAAATAGATATAATATAT
1 A-AATAAAATAGATATAATATAT
60461830 AAATAAA
1 AAATAAA
60461837 TTGAATATAA
Statistics
Matches: 60, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
20 6 0.10
21 10 0.17
22 11 0.18
23 18 0.30
24 6 0.10
25 7 0.12
26 2 0.03
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (22 bp):
AAATAAAATAGATATAATATAT
Found at i:60463725 original size:27 final size:27
Alignment explanation
Indices: 60463690--60463768 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
60463680 CAAGGTCACG
*
60463690 ATCAATAGCGTCACTATCATTAATAGC
1 ATCAATAGCGTCACTATCATCAATAGC
* * * * * *
60463717 GTCACTAGCATCAATATCGTCACTAGC
1 ATCAATAGCGTCACTATCATCAATAGC
*
60463744 ATCAATATCGTCACTATCATCAATA
1 ATCAATAGCGTCACTATCATCAATA
60463769 TCGATATCAT
Statistics
Matches: 38, Mismatches: 14, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.35, C:0.25, G:0.10, T:0.29
Consensus pattern (27 bp):
ATCAATAGCGTCACTATCATCAATAGC
Found at i:60463769 original size:18 final size:18
Alignment explanation
Indices: 60463690--60463783 Score: 122
Period size: 18 Copynumber: 5.4 Consensus size: 18
60463680 CAAGGTCACG
*
60463690 ATCAATAGCGTCACTATC
1 ATCAATATCGTCACTATC
* * *
60463708 ATTAATAGCGTCACTAGC
1 ATCAATATCGTCACTATC
*
60463726 ATCAATATCGTCACTAGC
1 ATCAATATCGTCACTATC
60463744 ATCAATATCGTCACTATC
1 ATCAATATCGTCACTATC
60463762 ATCAATATCG--A-TATC
1 ATCAATATCGTCACTATC
60463777 ATCAATA
1 ATCAATA
60463784 AGAAAACCTT
Statistics
Matches: 71, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
15 11 0.15
16 1 0.01
18 59 0.83
ACGTcount: A:0.36, C:0.24, G:0.10, T:0.30
Consensus pattern (18 bp):
ATCAATATCGTCACTATC
Found at i:60472711 original size:13 final size:14
Alignment explanation
Indices: 60472693--60472721 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
60472683 CGCCCCCCCC
60472693 TTTTTA-TTTTTTT
1 TTTTTAGTTTTTTT
60472706 TTTTTAGTTTTTTT
1 TTTTTAGTTTTTTT
60472720 TT
1 TT
60472722 AGAATTAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.07, C:0.00, G:0.03, T:0.90
Consensus pattern (14 bp):
TTTTTAGTTTTTTT
Found at i:60472819 original size:337 final size:325
Alignment explanation
Indices: 60472182--60472847 Score: 1110
Period size: 337 Copynumber: 2.0 Consensus size: 325
60472172 AAAAACATAT
60472182 CTTTCCGTAGCACCGGTACTAAGTACTCTCTGGTTCGATTCTTTAGCGGGTTTATTGATAGAGAT
1 CTTTCCGTAGCACCGGTACTAAGTACTCTCTGGTTCGATTCTTTA-CGGGTTTATTGATAGAGAT
60472247 CAATCATTTTTCCCGGATGCGTTAACATTCCCTTTTTTTTTAATTCGAGTTATTGTCGCGGGACG
65 CAATCATTTTTCCCGGATGCGTTAACATTCCC-TTTTTTTTAATTCGAGTTATTGTCGCGGGACG
60472312 GGGCGAAAAAGATTAGATCGAGATACAATCAAAATATCTGTGACTACTCTCTCGCCCCCCTTTTT
129 GGGCGAAAAAGATTAGATCGAGATACAATCAAAATATCTGTGACTACTCTCTCGCCCCCCTTTTT
60472377 ATTTTTTTTTTTTAGTTTTTTTTAGATTAGATAAGAATTAGATAAAATAGAACGAAAAAAGGGAT
194 ATTTTTTTTTTTTAGTTTTTTTTAGATTAGATAAGAATTAGATAAAATAGAACGAAAAAAGGGAT
60472442 TCAACCTCACCGAAACTCGGGTTCAAGCTCCAATTAAATTACTAGTAGAGC-AAAAGAGAAATGT
259 TCAACCTCACCGAAACTCGGGTTCAAGCTCCAATTAAATTACTAGTAGAGCGAAAAGAGAAATGT
60472506 GG
324 GG
60472508 CTTTCCGTAGCACCGGTACTAAGTACTCTCTGGTTCGATTCTTTA-GGGTTTATTGATAGAGATC
1 CTTTCCGTAGCACCGGTACTAAGTACTCTCTGGTTCGATTCTTTACGGGTTTATTGATAGAGATC
60472572 AATCA-TTTTCCCGGATGCGTTAACATTCCC-TTTTTTTAATT-GAGTTATTGTCGCGGGACGGG
66 AATCATTTTTCCCGGATGCGTTAACATTCCCTTTTTTTTAATTCGAGTTATTGTCGCGGGACGGG
60472634 GCGAAAAAGATTAGATCGAGATACAATC-AAATATCTGTGACTACTCTCTCGCCCCCCCCTTTTT
131 GCGAAAAAGATTAGATCGAGATACAATCAAAATATCTGTGACTACTCTCTCG--CCCCCCTTTTT
60472698 ATTTTTTTTTTTTAGTTTTTTTTTAGAATTAGATAAGAATTAGATAAAATAAATAAGGAAGGTAG
194 ATTTTTTTTTTTTAG-TTTTTTTTAG-ATTAGATAAGAATTAG---------ATAA--AA--TAG
60472763 AACGAAAAAAGGGGATTCAACCTCACCGAAACTCGGGTTCAAGCTCCAATTAAATTACTAGTAGA
244 AACGAAAAAA-GGGATTCAACCTCACCGAAACTCGGGTTCAAGCTCCAATTAAATTACTAGTAGA
60472828 GCGAAAAGAGAAATGTGG
308 GCGAAAAGAGAAATGTGG
60472846 CT
1 CT
60472848 GGAACAACAG
Statistics
Matches: 321, Mismatches: 0, Indels: 26
0.93 0.00 0.07
Matches are distributed among these distances:
319 23 0.07
320 49 0.15
321 37 0.12
322 10 0.03
323 41 0.13
324 24 0.07
326 45 0.14
332 4 0.01
334 2 0.01
336 13 0.04
337 56 0.17
338 17 0.05
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (325 bp):
CTTTCCGTAGCACCGGTACTAAGTACTCTCTGGTTCGATTCTTTACGGGTTTATTGATAGAGATC
AATCATTTTTCCCGGATGCGTTAACATTCCCTTTTTTTTAATTCGAGTTATTGTCGCGGGACGGG
GCGAAAAAGATTAGATCGAGATACAATCAAAATATCTGTGACTACTCTCTCGCCCCCCTTTTTAT
TTTTTTTTTTTAGTTTTTTTTAGATTAGATAAGAATTAGATAAAATAGAACGAAAAAAGGGATTC
AACCTCACCGAAACTCGGGTTCAAGCTCCAATTAAATTACTAGTAGAGCGAAAAGAGAAATGTGG
Found at i:60473458 original size:20 final size:20
Alignment explanation
Indices: 60473435--60473479 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 20
60473425 TCTATATTAT
60473435 TATATTATTAATCTT-ATTTA
1 TATATTATTAAT-TTAATTTA
60473455 TATATTATTAATTTAATTTA
1 TATATTATTAATTTAATTTA
60473475 TATAT
1 TATAT
60473480 ATTTAAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 2 0.08
20 22 0.92
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (20 bp):
TATATTATTAATTTAATTTA
Found at i:60473483 original size:15 final size:15
Alignment explanation
Indices: 60473465--60473494 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
60473455 TATATTATTA
*
60473465 ATTTAATTTATATAT
1 ATTTAAATTATATAT
60473480 ATTTAAATTATATAT
1 ATTTAAATTATATAT
60473495 TGAAATGATA
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:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
ATTTAAATTATATAT
Found at i:60473485 original size:20 final size:20
Alignment explanation
Indices: 60473434--60473485 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 20
60473424 TTCTATATTA
60473434 TTATAT-TA-TTAATCTTAT
1 TTATATATATTTAATCTTAT
60473452 TTATATAT-TATTAAT-TTAAT
1 TTATATATAT-TTAATCTT-AT
60473472 TTATATATATTTAA
1 TTATATATATTTAA
60473486 ATTATATATT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
18 6 0.21
19 3 0.10
20 19 0.66
21 1 0.03
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (20 bp):
TTATATATATTTAATCTTAT
Found at i:60473675 original size:21 final size:21
Alignment explanation
Indices: 60473635--60473673 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
60473625 AAATCATGGA
60473635 TAAATCCAAGCGACTCTTTCT
1 TAAATCCAAGCGACTCTTTCT
60473656 TAAATCCAAGCGA-TCTTT
1 TAAATCCAAGCGACTCTTT
60473674 TCGTAGGCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.33
Consensus pattern (21 bp):
TAAATCCAAGCGACTCTTTCT
Found at i:60474730 original size:12 final size:12
Alignment explanation
Indices: 60474712--60474755 Score: 63
Period size: 12 Copynumber: 3.8 Consensus size: 12
60474702 CTGGGAGTGG
60474712 TAAAGTAAATAA
1 TAAAGTAAATAA
*
60474724 AAAAGTAAATAA
1 TAAAGTAAATAA
*
60474736 TAAA-TAAAGAA
1 TAAAGTAAATAA
60474747 TAAAGTAAA
1 TAAAGTAAA
60474756 ATATATATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
11 10 0.36
12 18 0.64
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.20
Consensus pattern (12 bp):
TAAAGTAAATAA
Found at i:60475946 original size:7 final size:7
Alignment explanation
Indices: 60475911--60475935 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
60475901 ATGGAGCCTT
60475911 AATTTAA
1 AATTTAA
60475918 AATTTAA
1 AATTTAA
60475925 AATTTAA
1 AATTTAA
60475932 AATT
1 AATT
60475936 ATTTAAAATT
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
AATTTAA
Found at i:60479437 original size:2 final size:2
Alignment explanation
Indices: 60479432--60479686 Score: 221
Period size: 2 Copynumber: 123.5 Consensus size: 2
60479422 TATTGAAAGT
* * *
60479432 TA TA TA TA GA TA TC TA TA TA TA TGA TA TA TA TC TA TGA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA T-A TA TA TA
* *
60479476 TA CA TA TA TA TA TGA TA TA TA T- TA TA TA T- TA TC TA T- TA TA
1 TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
60479516 TCA TA TC TA TA TA TA TC TA TA TGA TA TA TA TGA TA TA GA TA -A
1 T-A TA TA TA TA TA TA TA TA TA T-A TA TA TA T-A TA TA TA TA TA
* * * * *
60479558 TA TA TA TGA TA TA TA TA GA TA TA GA TA TA GA TA TA TA GA TA TC
1 TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
60479601 TA TA TA TA TGA TA TA TA TGA TC TA TA TA TA TA TGA TA TA TA TA
1 TA TA TA TA T-A TA TA TA T-A TA TA TA TA TA TA T-A TA TA TA TA
* * *
60479644 TA GA TCA TA TA TA TCA TA TA TA TA TA GA TA TA TA TA TC TA TA T
1 TA TA T-A TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA T
60479687 CAACAAGGTT
Statistics
Matches: 203, Mismatches: 34, Indels: 32
0.75 0.13 0.12
Matches are distributed among these distances:
1 4 0.02
2 175 0.86
3 24 0.12
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.45
Consensus pattern (2 bp):
TA
Found at i:60484629 original size:44 final size:44
Alignment explanation
Indices: 60484579--60484666 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
60484569 TGGACTGGTA
*
60484579 ATTCAGATCCAAGCTCATTAGAGTAATTGTTGTTGCAGGGGATT
1 ATTCAGATCCAAGCTCATTAGAGTAATTGTCGTTGCAGGGGATT
60484623 ATTCAGATCCAAGCTCATTAGAGTAATTGTCGTTGCAGGGGATT
1 ATTCAGATCCAAGCTCATTAGAGTAATTGTCGTTGCAGGGGATT
60484667 TAGCCTGGAC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (44 bp):
ATTCAGATCCAAGCTCATTAGAGTAATTGTCGTTGCAGGGGATT
Found at i:60490438 original size:36 final size:34
Alignment explanation
Indices: 60490387--60490456 Score: 104
Period size: 36 Copynumber: 2.0 Consensus size: 34
60490377 TACTCTGAAG
*
60490387 CATTTTGATTGCTATCAGATAAGTTAAAAGGATAAA
1 CATTTTCATTGCTATCAGAT-AGTTAAAA-GATAAA
*
60490423 CATTTTCATTTCTATCAGATAGTTAAAAGATAAA
1 CATTTTCATTGCTATCAGATAGTTAAAAGATAAA
60490457 ATGAGTGGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
34 6 0.19
35 8 0.25
36 18 0.56
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.36
Consensus pattern (34 bp):
CATTTTCATTGCTATCAGATAGTTAAAAGATAAA
Found at i:60492199 original size:19 final size:18
Alignment explanation
Indices: 60492159--60492200 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
60492149 AAGTAATTAC
*
60492159 TTTTTATAAAATTAATAT
1 TTTTTATAAAATTAATAA
60492177 TTTTTATAAAAATT-ATGAA
1 TTTTTAT-AAAATTAAT-AA
60492196 TTTTT
1 TTTTT
60492201 TCATCACATC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (18 bp):
TTTTTATAAAATTAATAA
Found at i:60494156 original size:12 final size:12
Alignment explanation
Indices: 60494136--60494165 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
60494126 AATTCATGTT
60494136 TAATTTTTTT-A
1 TAATTTTTTTAA
60494147 TAATTTTTTTAA
1 TAATTTTTTTAA
60494159 TAATTTT
1 TAATTTT
60494166 ATTACAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.56
12 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TAATTTTTTTAA
Found at i:60499887 original size:33 final size:32
Alignment explanation
Indices: 60499837--60499902 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 32
60499827 AAATTTTTGC
* *
60499837 AGACCAATTAAAAATAACCTGTTCATCCATTAA
1 AGACCAATTAAAAATAACATGTT-ATCCACTAA
* *
60499870 AGACCAATTGAAGATAACATGTTATCCACTAA
1 AGACCAATTAAAAATAACATGTTATCCACTAA
60499902 A
1 A
60499903 TGATTCACAG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 9 0.31
33 20 0.69
ACGTcount: A:0.45, C:0.20, G:0.09, T:0.26
Consensus pattern (32 bp):
AGACCAATTAAAAATAACATGTTATCCACTAA
Found at i:60506154 original size:35 final size:36
Alignment explanation
Indices: 60506110--60506237 Score: 143
Period size: 35 Copynumber: 3.5 Consensus size: 36
60506100 TCCTCATTGA
*
60506110 AATACCATACCTACATTTTACAACTCGGTATGGGA-
1 AATACCATACCTACATTTTACAACTCAGTATGGGAT
* * **
60506145 AATGCCATACTTACATTTTTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTTACAACTCAGTATGG----GAT
*
60506185 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
1 AATACCATACCTACATTTTACAACTCAGTATGGGAT
*
60506220 GATACCATACCTACATTT
1 AATACCATACCTACATTT
60506238 CACACTTTTC
Statistics
Matches: 77, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
35 48 0.62
39 3 0.04
40 26 0.34
ACGTcount: A:0.34, C:0.22, G:0.11, T:0.34
Consensus pattern (36 bp):
AATACCATACCTACATTTTACAACTCAGTATGGGAT
Found at i:60507886 original size:27 final size:27
Alignment explanation
Indices: 60507856--60507944 Score: 126
Period size: 27 Copynumber: 3.3 Consensus size: 27
60507846 GATCACTGAA
* * *
60507856 CACTTTGCTATGTTTGGCACACTATAT
1 CACTTTGCCATGATTGGCACACTTTAT
60507883 CACTTTGCCATGATTGAG-ACACTTTAT
1 CACTTTGCCATGATTG-GCACACTTTAT
*
60507910 CACTTTGCCATGATTGACACACTTTAT
1 CACTTTGCCATGATTGGCACACTTTAT
60507937 CACTTTGC
1 CACTTTGC
60507945 TATAGTTCAA
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
27 55 0.98
28 1 0.02
ACGTcount: A:0.24, C:0.25, G:0.13, T:0.38
Consensus pattern (27 bp):
CACTTTGCCATGATTGGCACACTTTAT
Found at i:60508082 original size:31 final size:31
Alignment explanation
Indices: 60508010--60508180 Score: 206
Period size: 31 Copynumber: 5.5 Consensus size: 31
60508000 AAGTGTAGCT
* * *
60508010 AAGCTACCACTTATCACTTG-TCACTTGTAGTCG
1 AAGCTACCACTTTTCAC-TGATCA--GGTAGCCG
* *
60508043 AAGCTACCACTATTCACTGATCAGGTAGCTG
1 AAGCTACCACTTTTCACTGATCAGGTAGCCG
* * *
60508074 GAGCTACCACTTTTCACTAATCAAGTAGCCG
1 AAGCTACCACTTTTCACTGATCAGGTAGCCG
*
60508105 AAGCTACTACTTTTCACTGATCAGGTAG-C-
1 AAGCTACCACTTTTCACTGATCAGGTAGCCG
60508134 -AGCTACCACTTTTCACTGATCAGGTAGCCG
1 AAGCTACCACTTTTCACTGATCAGGTAGCCG
60508164 AAGCTACCACTTTTCAC
1 AAGCTACCACTTTTCAC
60508181 ATTATACACA
Statistics
Matches: 119, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
28 26 0.22
29 1 0.01
30 1 0.01
31 71 0.60
32 2 0.02
33 18 0.15
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (31 bp):
AAGCTACCACTTTTCACTGATCAGGTAGCCG
Found at i:60508165 original size:59 final size:60
Alignment explanation
Indices: 60508036--60508180 Score: 220
Period size: 59 Copynumber: 2.4 Consensus size: 60
60508026 CTTGTCACTT
* *
60508036 GTAGTCGAAGCTACCACTATTCACTGATCAGGTAGCTGGAGCTACCACTTTTCACTAATCAA
1 GTAGCCGAAGCTACCACTTTTCACTGATCAGGTAGC--GAGCTACCACTTTTCACTAATCAA
* * *
60508098 GTAGCCGAAGCTACTACTTTTCACTGATCAGGTAGC-AGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAGGTAGCGAGCTACCACTTTTCACTAATCAA
60508157 GTAGCCGAAGCTACCACTTTTCAC
1 GTAGCCGAAGCTACCACTTTTCAC
60508181 ATTATACACA
Statistics
Matches: 77, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
59 44 0.57
62 33 0.43
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.28
Consensus pattern (60 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAGGTAGCGAGCTACCACTTTTCACTAATCAA
Found at i:60508223 original size:32 final size:32
Alignment explanation
Indices: 60508185--60508281 Score: 124
Period size: 33 Copynumber: 3.0 Consensus size: 32
60508175 TTTCACATTA
60508185 TACACACAAGGTGTACATTTCCTTTTCAAG-TG
1 TACACACAA-GTGTACATTTCCTTTTCAAGTTG
* *
60508217 TACACACAAAGTGTACGTTTCCTTTTTAAGTTG
1 TACACAC-AAGTGTACATTTCCTTTTCAAGTTG
* *
60508250 TACACACACAATGTACATTTCCTTTTCCAGTT
1 TACACACA-AGTGTACATTTCCTTTTCAAGTT
60508282 ATACCTTTTA
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
32 26 0.46
33 30 0.54
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.37
Consensus pattern (32 bp):
TACACACAAGTGTACATTTCCTTTTCAAGTTG
Found at i:60508257 original size:33 final size:32
Alignment explanation
Indices: 60508185--60508276 Score: 132
Period size: 32 Copynumber: 2.8 Consensus size: 32
60508175 TTTCACATTA
*
60508185 TACACACAAGGTGTACATTTCCTTTTCAAGTG
1 TACACACAAAGTGTACATTTCCTTTTCAAGTG
* *
60508217 TACACACAAAGTGTACGTTTCCTTTTTAAGTTG
1 TACACACAAAGTGTACATTTCCTTTTCAAG-TG
60508250 TACACACACAA-TGTACATTTCCTTTTC
1 TACACACA-AAGTGTACATTTCCTTTTC
60508277 CAGTTATACC
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
32 27 0.51
33 24 0.45
34 2 0.04
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.37
Consensus pattern (32 bp):
TACACACAAAGTGTACATTTCCTTTTCAAGTG
Found at i:60508426 original size:91 final size:91
Alignment explanation
Indices: 60508271--60508454 Score: 359
Period size: 91 Copynumber: 2.0 Consensus size: 91
60508261 TGTACATTTC
60508271 CTTTTCCAGTTATACCTTTTAGGTACATGTATCCTTTTCAAGTGTCACCCTTTCAGGTGAAATTC
1 CTTTTCCAGTTATACCTTTTAGGTACATGTATCCTTTTCAAGTGTCACCCTTTCAGGTGAAATTC
60508336 CTTTTTATAATGAGATCATAAGATTA
66 CTTTTTATAATGAGATCATAAGATTA
*
60508362 CTTTTCCAGTTGTACCTTTTAGGTACATGTATCCTTTTCAAGTGTCACCCTTTCAGGTGAAATTC
1 CTTTTCCAGTTATACCTTTTAGGTACATGTATCCTTTTCAAGTGTCACCCTTTCAGGTGAAATTC
60508427 CTTTTTATAATGAGATCATAAGATTA
66 CTTTTTATAATGAGATCATAAGATTA
60508453 CT
1 CT
60508455 CCCTTCGGAA
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
91 92 1.00
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.42
Consensus pattern (91 bp):
CTTTTCCAGTTATACCTTTTAGGTACATGTATCCTTTTCAAGTGTCACCCTTTCAGGTGAAATTC
CTTTTTATAATGAGATCATAAGATTA
Found at i:60514414 original size:16 final size:14
Alignment explanation
Indices: 60514378--60514405 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
60514368 TTGGGCCTTT
60514378 GTAATTTTGGACTG
1 GTAATTTTGGACTG
60514392 GTAATTTTGGACTG
1 GTAATTTTGGACTG
60514406 TTTTAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.07, G:0.29, T:0.43
Consensus pattern (14 bp):
GTAATTTTGGACTG
Found at i:60515588 original size:99 final size:99
Alignment explanation
Indices: 60515416--60515614 Score: 380
Period size: 99 Copynumber: 2.0 Consensus size: 99
60515406 CATCAGGAAC
60515416 AATGAACACTGACATGGATTCGGATGAAAATTTTAAAACCAACTTATCTTTTTAGGAAAGTAGTT
1 AATGAACACTGACATGGATTCGGATGAAAATTTTAAAACCAACTTATCTTTTTAGGAAAGTAGTT
*
60515481 CCTCCTTTTGTGACGTCCACTCTTCTGGATTTCG
66 CCTACTTTTGTGACGTCCACTCTTCTGGATTTCG
*
60515515 AATGAACAGTGACATGGATTCGGATGAAAATTTTAAAACCAACTTATCTTTTTAGGAAAGTAGTT
1 AATGAACACTGACATGGATTCGGATGAAAATTTTAAAACCAACTTATCTTTTTAGGAAAGTAGTT
60515580 CCTACTTTTGTGACGTCCACTCTTCTGGATTTCG
66 CCTACTTTTGTGACGTCCACTCTTCTGGATTTCG
60515614 A
1 A
60515615 CTTTCATATC
Statistics
Matches: 98, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
99 98 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (99 bp):
AATGAACACTGACATGGATTCGGATGAAAATTTTAAAACCAACTTATCTTTTTAGGAAAGTAGTT
CCTACTTTTGTGACGTCCACTCTTCTGGATTTCG
Found at i:60525246 original size:8 final size:8
Alignment explanation
Indices: 60525204--60525228 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
60525194 ATATGGACTA
60525204 AATAAAAT
1 AATAAAAT
60525212 AATAAAAT
1 AATAAAAT
60525220 AATAAAAT
1 AATAAAAT
60525228 A
1 A
60525229 TCTTATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:60525252 original size:29 final size:31
Alignment explanation
Indices: 60525201--60525269 Score: 81
Period size: 29 Copynumber: 2.3 Consensus size: 31
60525191 TATATATGGA
*
60525201 CTAAATAAAATAATAAAATAATAA-AA-TAT
1 CTAATTAAAATAATAAAATAATAATAATTAT
* *
60525230 CTTATTAAAATATTAAACA-AATAATAATTAT
1 CTAATTAAAATAATAAA-ATAATAATAATTAT
60525261 CTAATTAAA
1 CTAATTAAA
60525270 TAACTATAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
29 19 0.58
30 3 0.09
31 11 0.33
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (31 bp):
CTAATTAAAATAATAAAATAATAATAATTAT
Found at i:60531292 original size:10 final size:10
Alignment explanation
Indices: 60531277--60531301 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
60531267 TATGGTTGAT
60531277 ATTATGAGAA
1 ATTATGAGAA
60531287 ATTATGAGAA
1 ATTATGAGAA
60531297 ATTAT
1 ATTAT
60531302 TAACATTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (10 bp):
ATTATGAGAA
Found at i:60532934 original size:48 final size:48
Alignment explanation
Indices: 60532796--60532971 Score: 232
Period size: 47 Copynumber: 3.7 Consensus size: 48
60532786 AAGCCATAGT
* ** * *
60532796 CCAGCTATGATCTTATAT-GGAAGCACATATCACATAGATGCCATAGC
1 CCAGCTATGGTCTTATATAGGAAGCACATATCACACCGATACCATATC
* *
60532843 CCAGCTATGGTCTTATA-CGGAAGCACATATCACACCGGTACCATATC
1 CCAGCTATGGTCTTATATAGGAAGCACATATCACACCGATACCATATC
* *
60532890 CCAGCTATGGTCTTATATAGAAATCACATATCACACCGATACCATATC
1 CCAGCTATGGTCTTATATAGGAAGCACATATCACACCGATACCATATC
* *
60532938 TCAGATATGGTCTTATATA-GAAGCACATATCACA
1 CCAGCTATGGTCTTATATAGGAAGCACATATCACA
60532972 TATTGCCATG
Statistics
Matches: 113, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
47 70 0.62
48 43 0.38
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (48 bp):
CCAGCTATGGTCTTATATAGGAAGCACATATCACACCGATACCATATC
Found at i:60532948 original size:95 final size:94
Alignment explanation
Indices: 60532796--60532971 Score: 244
Period size: 95 Copynumber: 1.9 Consensus size: 94
60532786 AAGCCATAGT
* * * *
60532796 CCAGCTATGATCTTATATGGAAGCACATATCACATAGATGCCATAGCCCAGCTATGGTCTTATAC
1 CCAGCTATGATCTTATATGAAAGCACATATCACACAGATACCATAGCCCAGATATGGTCTTATAC
*
60532861 GGAAGCACATATCACACCGGTACCATATC
66 AGAAGCACATATCACACCGGTACCATATC
* * * * *
60532890 CCAGCTATGGTCTTATATAGAAATCACATATCACACCGATACCATATCTCAGATATGGTCTTATA
1 CCAGCTATGATCTTATAT-GAAAGCACATATCACACAGATACCATAGCCCAGATATGGTCTTATA
*
60532955 TAGAAGCACATATCACA
65 CAGAAGCACATATCACA
60532972 TATTGCCATG
Statistics
Matches: 70, Mismatches: 11, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
94 17 0.24
95 53 0.76
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (94 bp):
CCAGCTATGATCTTATATGAAAGCACATATCACACAGATACCATAGCCCAGATATGGTCTTATAC
AGAAGCACATATCACACCGGTACCATATC
Found at i:60540468 original size:30 final size:33
Alignment explanation
Indices: 60540434--60540512 Score: 83
Period size: 37 Copynumber: 2.3 Consensus size: 33
60540424 GTTTGATTTC
60540434 GATTTA-CCC-CT-TTTTCTTATTTTCGTTCAT
1 GATTTATCCCACTCTTTTCTTATTTTCGTTCAT
*
60540464 GATTTTATCCCAAATCTCTTTTCTTGTTTTCGTTCAT
1 GA-TTTATCCC--A-CTCTTTTCTTATTTTCGTTCAT
60540501 GATTTTATCCCA
1 GA-TTTATCCCA
60540513 AATCTCTAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
30 2 0.05
31 4 0.10
32 3 0.07
35 1 0.02
36 2 0.05
37 29 0.71
ACGTcount: A:0.16, C:0.23, G:0.08, T:0.53
Consensus pattern (33 bp):
GATTTATCCCACTCTTTTCTTATTTTCGTTCAT
Found at i:60540488 original size:37 final size:37
Alignment explanation
Indices: 60540445--60540519 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
60540435 ATTTACCCCT
60540445 TTTTCTTATTTTCGTTCATGATTTTATCCCAAATCTC
1 TTTTCTTATTTTCGTTCATGATTTTATCCCAAATCTC
*
60540482 TTTTCTTGTTTTCGTTCATGATTTTATCCCAAATCTC
1 TTTTCTTATTTTCGTTCATGATTTTATCCCAAATCTC
60540519 T
1 T
60540520 AATTGAATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.17, C:0.21, G:0.07, T:0.55
Consensus pattern (37 bp):
TTTTCTTATTTTCGTTCATGATTTTATCCCAAATCTC
Found at i:60540711 original size:18 final size:18
Alignment explanation
Indices: 60540688--60540727 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
60540678 TTACCTTCGT
*
60540688 TATTATTATTTTATTATC
1 TATTATTATTCTATTATC
* *
60540706 TATTATTGTTCTATTATT
1 TATTATTATTCTATTATC
60540724 TATT
1 TATT
60540728 CATTCATCAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.68
Consensus pattern (18 bp):
TATTATTATTCTATTATC
Found at i:60541273 original size:25 final size:25
Alignment explanation
Indices: 60541245--60541303 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
60541235 TTTTCATATC
* *
60541245 ATTTATTCTAAAT-GTTTTATACATT
1 ATTTATT-TAAATCATTTCATACATT
*
60541270 ATTTATGTTAAATCATTTCATATATT
1 ATTTAT-TTAAATCATTTCATACATT
60541296 ATTTATTT
1 ATTTATTT
60541304 TAAGTTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 13 0.45
26 16 0.55
ACGTcount: A:0.32, C:0.07, G:0.03, T:0.58
Consensus pattern (25 bp):
ATTTATTTAAATCATTTCATACATT
Found at i:60542340 original size:27 final size:27
Alignment explanation
Indices: 60542310--60542365 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
60542300 AGGAATCGGG
*
60542310 TTACTAAGGTCTTTTATTTTCTTTATT
1 TTACTAAGGTATTTTATTTTCTTTATT
60542337 TTACTAAGGTATTTTATTTTCTTTATT
1 TTACTAAGGTATTTTATTTTCTTTATT
60542364 TT
1 TT
60542366 TTCTTTGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.20, C:0.09, G:0.07, T:0.64
Consensus pattern (27 bp):
TTACTAAGGTATTTTATTTTCTTTATT
Found at i:60543184 original size:11 final size:11
Alignment explanation
Indices: 60543169--60543321 Score: 75
Period size: 11 Copynumber: 13.9 Consensus size: 11
60543159 CTCTAATAAG
*
60543169 TATATATTATG
1 TATATATTATA
*
60543180 TATATATTTTAA
1 TATATATTAT-A
* *
60543192 TACTATATTGTG
1 TA-TATATTATA
*
60543204 TATATATTTTA
1 TATATATTATA
60543215 TATATATTATA
1 TATATATTATA
* *
60543226 TGTATTTTA-A
1 TATATATTATA
*
60543236 TAT-TATT-TT
1 TATATATTATA
*
60543245 TATATCTTA-A
1 TATATATTATA
*
60543255 TACTATATTATG
1 TA-TATATTATA
60543267 TATAT-TTATA
1 TATATATTATA
*
60543277 TATATTATGTACA
1 TATA-TAT-TATA
* *
60543290 TATATTTTCTA
1 TATATATTATA
* *
60543301 -ATATTATTTTT
1 TATA-TATTATA
60543312 TATATATTAT
1 TATATATTAT
60543322 CATGTATATA
Statistics
Matches: 105, Mismatches: 25, Indels: 24
0.68 0.16 0.16
Matches are distributed among these distances:
9 6 0.06
10 19 0.18
11 54 0.51
12 12 0.11
13 14 0.13
ACGTcount: A:0.35, C:0.03, G:0.04, T:0.58
Consensus pattern (11 bp):
TATATATTATA
Found at i:60543199 original size:24 final size:23
Alignment explanation
Indices: 60543169--60543319 Score: 119
Period size: 24 Copynumber: 6.8 Consensus size: 23
60543159 CTCTAATAAG
60543169 TATATATTATGTATATATTTTAA
1 TATATATTATGTATATATTTTAA
*
60543192 TACTATATTGTGTATATATTTT-A
1 TA-TATATTATGTATATATTTTAA
*
60543215 TATATATTA--TATGTATTTTAA
1 TATATATTATGTATATATTTTAA
*
60543236 TAT-TATT-T-T-TATATCTTAA
1 TATATATTATGTATATATTTTAA
60543255 TACTATATTATG--TATA-TTT-A
1 TA-TATATTATGTATATATTTTAA
60543275 TATATATTATGTACATATATTTTCTAA
1 TATATATTATGT--ATATA-TTT-TAA
* *
60543302 TAT-TATTTTTTATATATT
1 TATATATTATGTATATATT
60543320 ATCATGTATA
Statistics
Matches: 105, Mismatches: 8, Indels: 30
0.73 0.06 0.21
Matches are distributed among these distances:
19 19 0.18
20 18 0.17
21 10 0.10
22 11 0.10
23 11 0.10
24 23 0.22
25 2 0.02
26 7 0.07
27 4 0.04
ACGTcount: A:0.34, C:0.03, G:0.04, T:0.58
Consensus pattern (23 bp):
TATATATTATGTATATATTTTAA
Found at i:60543343 original size:22 final size:23
Alignment explanation
Indices: 60543309--60543390 Score: 73
Period size: 22 Copynumber: 3.6 Consensus size: 23
60543299 TAATATTATT
60543309 TTTTATATATTATCATGTATATA
1 TTTTATATATTATCATGTATATA
* *
60543332 TTTTA-ATATTATTA-GTTATATTT
1 TTTTATATATTATCATG-TATA-TA
*
60543355 TTTTATACTATT-TCGTGTATATA
1 TTTTATA-TATTATCATGTATATA
*
60543378 TATT-TATATTATC
1 TTTTATATATTATC
60543391 CTTATTATTA
Statistics
Matches: 47, Mismatches: 6, Indels: 13
0.71 0.09 0.20
Matches are distributed among these distances:
21 5 0.11
22 16 0.34
23 15 0.32
24 6 0.13
25 5 0.11
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.60
Consensus pattern (23 bp):
TTTTATATATTATCATGTATATA
Found at i:60543351 original size:36 final size:38
Alignment explanation
Indices: 60543272--60543352 Score: 96
Period size: 36 Copynumber: 2.2 Consensus size: 38
60543262 TTATGTATAT
* **
60543272 TTATATATATTATGTACATATATTTTCTAATATTATTTT
1 TTATATATATCATGTA-ATATATTTTCTAATATTATTAG
60543311 TTATATATTATCATGT-ATATA-TTT-TAATATTATTAG
1 TTATATA-TATCATGTAATATATTTTCTAATATTATTAG
60543347 TTATAT
1 TTATAT
60543353 TTTTTTATAC
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
36 16 0.42
37 3 0.08
38 5 0.13
39 7 0.18
40 7 0.18
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.58
Consensus pattern (38 bp):
TTATATATATCATGTAATATATTTTCTAATATTATTAG
Found at i:60546547 original size:21 final size:22
Alignment explanation
Indices: 60546488--60546549 Score: 74
Period size: 21 Copynumber: 2.9 Consensus size: 22
60546478 ATGTTGACAA
*
60546488 TAAAATAGATTATAAAAATCTAT
1 TAAAA-AGATTATAAAAATTTAT
* *
60546511 TAAAAAAATTGT-AAAATTTAT
1 TAAAAAGATTATAAAAATTTAT
60546532 T-AAAAGATTATAAAAATT
1 TAAAAAGATTATAAAAATT
60546550 AAAGTTTAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
20 8 0.24
21 15 0.45
22 5 0.15
23 5 0.15
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (22 bp):
TAAAAAGATTATAAAAATTTAT
Found at i:60557477 original size:15 final size:16
Alignment explanation
Indices: 60557453--60557491 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
60557443 ATAAGAAAAT
**
60557453 ATTATTAATTTTTTTA
1 ATTATTAATTAATTTA
60557469 ATT-TTAATTAATTTA
1 ATTATTAATTAATTTA
60557484 ATTATTAA
1 ATTATTAA
60557492 GTTGTTAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
ATTATTAATTAATTTA
Found at i:60560452 original size:27 final size:28
Alignment explanation
Indices: 60560422--60560474 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
60560412 TATTTTATTT
60560422 ATATTAGGA-TAATTAATATTAAGATAA
1 ATATTAGGATTAATTAATATTAAGATAA
* *
60560449 ATATTAGGATTATTTAATTTTAAGAT
1 ATATTAGGATTAATTAATATTAAGAT
60560475 TTTATTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 9 0.39
28 14 0.61
ACGTcount: A:0.45, C:0.00, G:0.11, T:0.43
Consensus pattern (28 bp):
ATATTAGGATTAATTAATATTAAGATAA
Found at i:60560480 original size:27 final size:26
Alignment explanation
Indices: 60560418--60560480 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
60560408 ATTTTATTTT
60560418 ATTTATATTAGGATAATTAATATTAAG
1 ATTT-TATTAGGATAATTAATATTAAG
** * *
60560445 ATAAATATTAGGATTATTTAATTTTAAG
1 AT-TTTATTAGGA-TAATTAATATTAAG
60560473 ATTTTATT
1 ATTTTATT
60560481 TTAATTATCT
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
27 14 0.50
28 14 0.50
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:60563371 original size:38 final size:38
Alignment explanation
Indices: 60563326--60563409 Score: 105
Period size: 38 Copynumber: 2.2 Consensus size: 38
60563316 TTTAAACTTA
* * ** *
60563326 GATATAATACCAGCACTAGGCCTGCGAGATTTAACCCT
1 GATATAATACCAACACAAAACCTGCGAGATTTAACCCG
* *
60563364 GATATAATGCCAACACAAAACCTGCGGGATTTAACCCG
1 GATATAATACCAACACAAAACCTGCGAGATTTAACCCG
60563402 GATATAAT
1 GATATAAT
60563410 TCTAGCATAT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.23
Consensus pattern (38 bp):
GATATAATACCAACACAAAACCTGCGAGATTTAACCCG
Found at i:60568705 original size:5 final size:5
Alignment explanation
Indices: 60568695--60568731 Score: 74
Period size: 5 Copynumber: 7.4 Consensus size: 5
60568685 AAGAAATTTG
60568695 TGTTT TGTTT TGTTT TGTTT TGTTT TGTTT TGTTT TG
1 TGTTT TGTTT TGTTT TGTTT TGTTT TGTTT TGTTT TG
60568732 ATGAGGAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.00, C:0.00, G:0.22, T:0.78
Consensus pattern (5 bp):
TGTTT
Found at i:60570967 original size:13 final size:13
Alignment explanation
Indices: 60570951--60570976 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
60570941 TATTAAGAGA
60570951 ATAAATTATATTT
1 ATAAATTATATTT
60570964 ATAAATTATATTT
1 ATAAATTATATTT
60570977 TTACTATTAA
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:0.00, T:0.54
Consensus pattern (13 bp):
ATAAATTATATTT
Found at i:60573426 original size:7 final size:7
Alignment explanation
Indices: 60573417--60573460 Score: 63
Period size: 7 Copynumber: 6.4 Consensus size: 7
60573407 TTTTTTATTT
*
60573417 TTTAAAT
1 TTTAAAC
60573424 TTTAAA-
1 TTTAAAC
*
60573430 TTTGAAC
1 TTTAAAC
60573437 TTTAAAC
1 TTTAAAC
60573444 TTTAAAC
1 TTTAAAC
60573451 TTTAAAC
1 TTTAAAC
60573458 TTT
1 TTT
60573461 TAAGGATAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
6 5 0.15
7 29 0.85
ACGTcount: A:0.39, C:0.09, G:0.02, T:0.50
Consensus pattern (7 bp):
TTTAAAC
Found at i:60573442 original size:20 final size:21
Alignment explanation
Indices: 60573417--60573460 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
60573407 TTTTTTATTT
* *
60573417 TTTAAATTTTAAA-TTTGAAC
1 TTTAAACTTTAAACTTTAAAC
60573437 TTTAAACTTTAAACTTTAAAC
1 TTTAAACTTTAAACTTTAAAC
60573458 TTT
1 TTT
60573461 TAAGGATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.39, C:0.09, G:0.02, T:0.50
Consensus pattern (21 bp):
TTTAAACTTTAAACTTTAAAC
Found at i:60575133 original size:87 final size:87
Alignment explanation
Indices: 60575016--60575187 Score: 317
Period size: 87 Copynumber: 2.0 Consensus size: 87
60575006 GAGATGTAAA
60575016 AAAAAAATAATAATAATAATAAAAGGTCTGAAAGACTATGTCAGCTTATTATATTACCTTCAAGA
1 AAAAAAATAATAATAATAATAAAAGGTCTGAAAGACTATGTCAGCTTATTATATTACCTTCAAGA
60575081 ATGAGCATCTCATGTACCTTGT
66 ATGAGCATCTCATGTACCTTGT
* *
60575103 AAAATAATAATAATAATAATAAAAGGTCTGAAAGACTATGTCAGCTTATTATATTTCCTTCAAGA
1 AAAAAAATAATAATAATAATAAAAGGTCTGAAAGACTATGTCAGCTTATTATATTACCTTCAAGA
*
60575168 ATGGGCATCTCATGTACCTT
66 ATGAGCATCTCATGTACCTT
60575188 TTCCTTTGAT
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 82 1.00
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.32
Consensus pattern (87 bp):
AAAAAAATAATAATAATAATAAAAGGTCTGAAAGACTATGTCAGCTTATTATATTACCTTCAAGA
ATGAGCATCTCATGTACCTTGT
Found at i:60577034 original size:7 final size:7
Alignment explanation
Indices: 60577024--60577057 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
60577014 AAATTTTTAA
60577024 ATTTTTT
1 ATTTTTT
60577031 ATTTTTT
1 ATTTTTT
60577038 ATTTTTT
1 ATTTTTT
60577045 ATTTTTT
1 ATTTTTT
60577052 ATTTTT
1 ATTTTT
60577058 CTTTTGAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
ATTTTTT
Found at i:60577825 original size:7 final size:7
Alignment explanation
Indices: 60577813--60577864 Score: 50
Period size: 7 Copynumber: 7.3 Consensus size: 7
60577803 ACTAACTAAT
60577813 CTAAACC
1 CTAAACC
60577820 CTAAACTC
1 CTAAAC-C
* *
60577828 TTAATCC
1 CTAAACC
60577835 CTAAACC
1 CTAAACC
*
60577842 TTAAACC
1 CTAAACC
*
60577849 CTAAAAC
1 CTAAACC
*
60577856 ATAAACC
1 CTAAACC
60577863 CT
1 CT
60577865 GGACCCTGAA
Statistics
Matches: 34, Mismatches: 10, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
7 29 0.85
8 5 0.15
ACGTcount: A:0.42, C:0.35, G:0.00, T:0.23
Consensus pattern (7 bp):
CTAAACC
Found at i:60577850 original size:14 final size:14
Alignment explanation
Indices: 60577814--60577864 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
60577804 CTAACTAATC
60577814 TAAACCCTAAACTCT
1 TAAACCCTAAAC-CT
*
60577829 TAATCCCTAAACCT
1 TAAACCCTAAACCT
* *
60577843 TAAACCCTAAAACA
1 TAAACCCTAAACCT
60577857 TAAACCCT
1 TAAACCCT
60577865 GGACCCTGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 21 0.66
15 11 0.34
ACGTcount: A:0.43, C:0.33, G:0.00, T:0.24
Consensus pattern (14 bp):
TAAACCCTAAACCT
Found at i:60577956 original size:15 final size:14
Alignment explanation
Indices: 60577932--60577970 Score: 69
Period size: 15 Copynumber: 2.7 Consensus size: 14
60577922 AAACCACATT
60577932 TAAACCATAATCCC
1 TAAACCATAATCCC
60577946 TAAACCCATAATCCC
1 TAAA-CCATAATCCC
60577961 TAAACCATAA
1 TAAACCATAA
60577971 AATAGTAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 10 0.42
15 14 0.58
ACGTcount: A:0.46, C:0.33, G:0.00, T:0.21
Consensus pattern (14 bp):
TAAACCATAATCCC
Found at i:60578270 original size:40 final size:41
Alignment explanation
Indices: 60578226--60578384 Score: 106
Period size: 45 Copynumber: 3.5 Consensus size: 41
60578216 GATCAAGCAT
*
60578226 TAGCGGCG-TTTTTTAAAAAGCGCCTCTAAAGGTGTATTTA
1 TAGCGGCGTTTTTTTAAAAAGCGCCTCTAAAGGTGTAATTA
* **
60578266 TAGCGGCGTGGCTTTTTTTAAAAAGCGCCGCTAAAGCGACACTAAAGATCAAGCA
1 TAGCGGC---G-TTTTTTTAAAAAGCGCCTCTAAAG-G----T---G-T-AATTA
*
60578321 TTAGCGGCG-TTTTTTAAAAAGCGCCTCTAAAGGTGTACTTA
1 -TAGCGGCGTTTTTTTAAAAAGCGCCTCTAAAGGTGTAATTA
*
60578362 TAGCGGTGTTTTTTTAAGAAAGC
1 TAGCGGCGTTTTTTTAA-AAAGC
60578385 CGTTAATACT
Statistics
Matches: 92, Mismatches: 9, Indels: 34
0.68 0.07 0.25
Matches are distributed among these distances:
40 14 0.15
41 10 0.11
42 6 0.07
43 2 0.02
45 22 0.24
46 2 0.02
50 2 0.02
51 22 0.24
53 2 0.02
54 1 0.01
55 2 0.02
56 7 0.08
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (41 bp):
TAGCGGCGTTTTTTTAAAAAGCGCCTCTAAAGGTGTAATTA
Found at i:60578285 original size:96 final size:96
Alignment explanation
Indices: 60578177--60578367 Score: 373
Period size: 96 Copynumber: 2.0 Consensus size: 96
60578167 TCAATTTCTT
60578177 GTGGCTTTTTTTAAAAAGCGCCGCTAAAGCGACACTAAAGATCAAGCATTAGCGGCGTTTTTTAA
1 GTGGCTTTTTTTAAAAAGCGCCGCTAAAGCGACACTAAAGATCAAGCATTAGCGGCGTTTTTTAA
*
60578242 AAAGCGCCTCTAAAGGTGTATTTATAGCGGC
66 AAAGCGCCTCTAAAGGTGTACTTATAGCGGC
60578273 GTGGCTTTTTTTAAAAAGCGCCGCTAAAGCGACACTAAAGATCAAGCATTAGCGGCGTTTTTTAA
1 GTGGCTTTTTTTAAAAAGCGCCGCTAAAGCGACACTAAAGATCAAGCATTAGCGGCGTTTTTTAA
60578338 AAAGCGCCTCTAAAGGTGTACTTATAGCGG
66 AAAGCGCCTCTAAAGGTGTACTTATAGCGG
60578368 TGTTTTTTTA
Statistics
Matches: 94, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
96 94 1.00
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (96 bp):
GTGGCTTTTTTTAAAAAGCGCCGCTAAAGCGACACTAAAGATCAAGCATTAGCGGCGTTTTTTAA
AAAGCGCCTCTAAAGGTGTACTTATAGCGGC
Found at i:60578552 original size:39 final size:40
Alignment explanation
Indices: 60578509--60578617 Score: 130
Period size: 40 Copynumber: 2.8 Consensus size: 40
60578499 AGATCAAGCA
*
60578509 TTAGCGGC-ATTTTAAAAAAGCGCCGCTAATACTCGATCT
1 TTAGCAGCGATTTTAAAAAAGCGCCGCTAATACTCGATCT
* ** *
60578548 TTAGCAGCGTTTTTTGAAAATCGCCGCTAATACTCGATCT
1 TTAGCAGCGATTTTAAAAAAGCGCCGCTAATACTCGATCT
* ** *
60578588 TTAGCAGCGTTTTTTGAAAATCGCCGCTAA
1 TTAGCAGCGATTTTAAAAAAGCGCCGCTAA
60578618 AGCCACTAAA
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
39 7 0.11
40 57 0.89
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (40 bp):
TTAGCAGCGATTTTAAAAAAGCGCCGCTAATACTCGATCT
Found at i:60578573 original size:40 final size:40
Alignment explanation
Indices: 60578524--60578617 Score: 179
Period size: 40 Copynumber: 2.4 Consensus size: 40
60578514 GGCATTTTAA
*
60578524 AAAAGCGCCGCTAATACTCGATCTTTAGCAGCGTTTTTTG
1 AAAATCGCCGCTAATACTCGATCTTTAGCAGCGTTTTTTG
60578564 AAAATCGCCGCTAATACTCGATCTTTAGCAGCGTTTTTTG
1 AAAATCGCCGCTAATACTCGATCTTTAGCAGCGTTTTTTG
60578604 AAAATCGCCGCTAA
1 AAAATCGCCGCTAA
60578618 AGCCACTAAA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (40 bp):
AAAATCGCCGCTAATACTCGATCTTTAGCAGCGTTTTTTG
Found at i:60578711 original size:40 final size:41
Alignment explanation
Indices: 60578667--60578772 Score: 121
Period size: 40 Copynumber: 2.7 Consensus size: 41
60578657 AAATTCTTTT
*
60578667 GCGGCGTTTTTTGAAAAACGTCACTAAATA-TCAAACATTA
1 GCGGCGTTTTTTGAAAAACGCCACTAAATACTCAAACATTA
* * *
60578707 GCGGCGTTTTTT-AAAAAGCGCCGCT-AATACTCAATCTTTA
1 GCGGCGTTTTTTGAAAAA-CGCCACTAAATACTCAAACATTA
* *
60578747 GCGGC-ATTTTTGAAAAGCGCCACTAA
1 GCGGCGTTTTTTGAAAAACGCCACTAA
60578773 TGCTCATTCT
Statistics
Matches: 55, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
39 20 0.36
40 35 0.64
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (41 bp):
GCGGCGTTTTTTGAAAAACGCCACTAAATACTCAAACATTA
Found at i:60578757 original size:39 final size:39
Alignment explanation
Indices: 60578674--60578796 Score: 115
Period size: 39 Copynumber: 3.1 Consensus size: 39
60578664 TTTGCGGCGT
* * * *
60578674 TTTTTGAAAAA-CGTCACTAAATA-TCAAACATTAGCGGCGT
1 TTTTT-AAAAAGCGCCACT-AATACTCAATCTTTAGCGGC-A
*
60578714 TTTTTAAAAAGCGCCGCTAATACTCAATCTTTAGCGGCA
1 TTTTTAAAAAGCGCCACTAATACTCAATCTTTAGCGGCA
* * * * *
60578753 TTTTTGAAAAGCGCCACTAATGCTCATTCTTTAGTGGCG
1 TTTTTAAAAAGCGCCACTAATACTCAATCTTTAGCGGCA
60578792 TTTTT
1 TTTTT
60578797 CATTCAAACG
Statistics
Matches: 70, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
39 47 0.67
40 23 0.33
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.35
Consensus pattern (39 bp):
TTTTTAAAAAGCGCCACTAATACTCAATCTTTAGCGGCA
Found at i:60584920 original size:8 final size:8
Alignment explanation
Indices: 60584907--60584932 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
60584897 ATACTCTTTT
60584907 CTTATTTG
1 CTTATTTG
60584915 CTTATTTG
1 CTTATTTG
60584923 CTTATTTG
1 CTTATTTG
60584931 CT
1 CT
60584933 AGTATGTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.15, G:0.12, T:0.62
Consensus pattern (8 bp):
CTTATTTG
Found at i:60587526 original size:33 final size:32
Alignment explanation
Indices: 60587482--60587543 Score: 88
Period size: 33 Copynumber: 1.9 Consensus size: 32
60587472 TAAAAAAATA
60587482 TTTAACAATAAAAAATTAAAAATAATTATCAT
1 TTTAACAATAAAAAATTAAAAATAATTATCAT
* * *
60587514 TTTAACTAATAAATAATTTAAATTAATTAT
1 TTTAAC-AATAAAAAATTAAAAATAATTAT
60587544 ATAATTCATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 6 0.23
33 20 0.77
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (32 bp):
TTTAACAATAAAAAATTAAAAATAATTATCAT
Found at i:60588910 original size:13 final size:13
Alignment explanation
Indices: 60588892--60588916 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60588882 TTCATAACAA
60588892 AATAATAATAAAT
1 AATAATAATAAAT
60588905 AATAATAATAAA
1 AATAATAATAAA
60588917 CCAAATATTT
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:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AATAATAATAAAT
Found at i:60591491 original size:29 final size:29
Alignment explanation
Indices: 60591457--60591516 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
60591447 ATGATGAGAG
60591457 TATACCCAAAATAATTTCAGACTCATGGA
1 TATACCCAAAATAATTTCAGACTCATGGA
60591486 TATACCCAAAATAATTTCAGACTCATGGA
1 TATACCCAAAATAATTTCAGACTCATGGA
60591515 TA
1 TA
60591517 CTTAGATAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.28
Consensus pattern (29 bp):
TATACCCAAAATAATTTCAGACTCATGGA
Found at i:60604582 original size:31 final size:31
Alignment explanation
Indices: 60604547--60604610 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
60604537 TCTGCCATGA
60604547 GAGTAAATGTGTTGTTTGCTGTGTTTTTATG
1 GAGTAAATGTGTTGTTTGCTGTGTTTTTATG
60604578 GAGTAAATGTGTTGTTTGCTGTGTTTTTATG
1 GAGTAAATGTGTTGTTTGCTGTGTTTTTATG
60604609 GA
1 GA
60604611 AGATTATGAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.17, C:0.03, G:0.30, T:0.50
Consensus pattern (31 bp):
GAGTAAATGTGTTGTTTGCTGTGTTTTTATG
Found at i:60608119 original size:46 final size:45
Alignment explanation
Indices: 60608015--60608232 Score: 190
Period size: 46 Copynumber: 4.8 Consensus size: 45
60608005 AGATTTGTGT
* * * *
60608015 GCCAGTGTAAGACCATGTCTGGGACATGGCATC-GGCATTGAGAAGAGG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCA--CAGATGAGA
* *
60608063 GCTAGTGTAAGACATGTCTAGGACATGCATCAGCCACAGTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACAG-ATGAGA
* * * **
60608109 GCCAGTGTAAGACATGTCTGAGACATGCATCGGCCTCGAGATGTTA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-AGATGAGA
* * * * *
60608155 GCCAGTGTCAGACATGTCTGGGACATGCGTCGGCTAC-GA-GATGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGATGA-GA
* *
60608199 GCTAGTGTAAGACATGTCTGGGACATGCGTCAGC
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGC
60608233 ACGGTTACAT
Statistics
Matches: 142, Mismatches: 24, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
43 1 0.01
44 33 0.23
45 2 0.01
46 77 0.54
47 18 0.13
48 11 0.08
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.22
Consensus pattern (45 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGATGAGA
Found at i:60608179 original size:92 final size:90
Alignment explanation
Indices: 60608015--60608226 Score: 237
Period size: 92 Copynumber: 2.3 Consensus size: 90
60608005 AGATTTGTGT
* * *
60608015 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAAGAGGGCTAGTGTAAGACATGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATCGAGAAGAGAGCCAGTGTAAGACATGT
60608080 CTAGGACATGCATCAGCCAC-AGTATGAGA
64 CTAGGACATGCATCAGCCACGAG-AT--GA
* * * ** *
60608109 GCCAGTGTAAGACATGTCTGAGACATGCATCGGCCTCGAGATGTTAGCCAGTGTCAGACATGTCT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGAAGAGAGCCAGTGTAAGACATGTCT
* * * * *
60608174 GGGACATGCGTCGGCTACGAGATGT
66 AGGACATGCATCAGCCACGAGATGA
*
60608199 GCTAGTGTAAGACATGTCTGGGACATGC
1 GCCAGTGTAAGACATGTCTGGGACATGC
60608227 GTCAGCACGG
Statistics
Matches: 101, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
90 27 0.27
92 47 0.47
93 15 0.15
94 12 0.12
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.22
Consensus pattern (90 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGAAGAGAGCCAGTGTAAGACATGTCT
AGGACATGCATCAGCCACGAGATGA
Found at i:60613368 original size:18 final size:18
Alignment explanation
Indices: 60613345--60613382 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
60613335 TGTGACAAAA
60613345 TGGCTTAGAAAATAGCCT
1 TGGCTTAGAAAATAGCCT
60613363 TGGCTTAGAAAATAGCCT
1 TGGCTTAGAAAATAGCCT
60613381 TG
1 TG
60613383 TATTTGTCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.29
Consensus pattern (18 bp):
TGGCTTAGAAAATAGCCT
Found at i:60613739 original size:23 final size:23
Alignment explanation
Indices: 60613709--60613755 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
60613699 TTACATTTGC
60613709 AATTAGTAAAGGAGAAAAAGATA
1 AATTAGTAAAGGAGAAAAAGATA
60613732 AATTAGTAAAGGAGAAAAAGATA
1 AATTAGTAAAGGAGAAAAAGATA
60613755 A
1 A
60613756 GTCTTATGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.62, C:0.00, G:0.21, T:0.17
Consensus pattern (23 bp):
AATTAGTAAAGGAGAAAAAGATA
Found at i:60627017 original size:89 final size:89
Alignment explanation
Indices: 60626866--60627043 Score: 347
Period size: 89 Copynumber: 2.0 Consensus size: 89
60626856 ATCACTCAAA
60626866 ACGATAATGTATTTTAACTTGTCCTGAGTATTTTAGATTATTAAAATGGATTGGCAACGATGATC
1 ACGATAATGTATTTTAACTTGTCCTGAGTATTTTAGATTATTAAAATGGATTGGCAACGATGATC
60626931 TCAGTTCTTGAAGTGATAGTTTTT
66 TCAGTTCTTGAAGTGATAGTTTTT
*
60626955 ACGATAATGTATTTTAACTTGTCCTGAGTATTTTAGATTATTAAAATGGATTGGCAAGGATGATC
1 ACGATAATGTATTTTAACTTGTCCTGAGTATTTTAGATTATTAAAATGGATTGGCAACGATGATC
60627020 TCAGTTCTTGAAGTGATAGTTTTT
66 TCAGTTCTTGAAGTGATAGTTTTT
60627044 CTTTTGTGAT
Statistics
Matches: 88, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
89 88 1.00
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.42
Consensus pattern (89 bp):
ACGATAATGTATTTTAACTTGTCCTGAGTATTTTAGATTATTAAAATGGATTGGCAACGATGATC
TCAGTTCTTGAAGTGATAGTTTTT
Found at i:60630523 original size:24 final size:24
Alignment explanation
Indices: 60630496--60630543 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
60630486 TATGAAACCA
*
60630496 TAAATGTAATCATTTGAATTGAGG
1 TAAATATAATCATTTGAATTGAGG
60630520 TAAATATAATCATTTGAATTGAGG
1 TAAATATAATCATTTGAATTGAGG
60630544 CTTATTACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.40, C:0.04, G:0.19, T:0.38
Consensus pattern (24 bp):
TAAATATAATCATTTGAATTGAGG
Found at i:60632925 original size:18 final size:18
Alignment explanation
Indices: 60632889--60632923 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
60632879 CGTCGAATGC
60632889 AGAGAGAGAGAAAGAGGG
1 AGAGAGAGAGAAAGAGGG
60632907 AGAGAGAGAG-AAGAGGG
1 AGAGAGAGAGAAAGAGGG
60632924 GAAGAAGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (18 bp):
AGAGAGAGAGAAAGAGGG
Found at i:60633962 original size:18 final size:18
Alignment explanation
Indices: 60633928--60633962 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
60633918 AATAAACCAT
**
60633928 GATTTTTTTTAGTTTTTA
1 GATTTTTTTTACATTTTA
60633946 GATTTTTTTTACATTTT
1 GATTTTTTTTACATTTT
60633963 TTGGGTTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.03, G:0.09, T:0.71
Consensus pattern (18 bp):
GATTTTTTTTACATTTTA
Found at i:60634375 original size:27 final size:26
Alignment explanation
Indices: 60634345--60634418 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 26
60634335 AATTCAAAAT
*
60634345 AAATTTTAAAATTTAAAATATTTATAA
1 AAATTATAAAATTTAAAATATTTA-AA
* * *
60634372 AAATTCTAAAATTTATAATTTTTAAA
1 AAATTATAAAATTTAAAATATTTAAA
60634398 AGAATTATAAGAATTTTAAAA
1 A-AATTATAA-AA-TTTAAAA
60634419 AAATATTCTA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
26 3 0.08
27 28 0.72
28 2 0.05
29 6 0.15
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (26 bp):
AAATTATAAAATTTAAAATATTTAAA
Found at i:60635093 original size:63 final size:64
Alignment explanation
Indices: 60635026--60635152 Score: 247
Period size: 63 Copynumber: 2.0 Consensus size: 64
60635016 AAATATTAAT
60635026 TTGATATTTTAAAATTTTATTAATGATAATTTCAAAAAAT-AAAAAAAATATAAAAATATCAGA
1 TTGATATTTTAAAATTTTATTAATGATAATTTCAAAAAATAAAAAAAAATATAAAAATATCAGA
60635089 TTGATATTTTAAAATTTTATTAATGATAATTTCAAAAAATAAAAAAAAATATAAAAATATCAGA
1 TTGATATTTTAAAATTTTATTAATGATAATTTCAAAAAATAAAAAAAAATATAAAAATATCAGA
60635153 ATTAAAAAAT
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
63 40 0.63
64 23 0.37
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (64 bp):
TTGATATTTTAAAATTTTATTAATGATAATTTCAAAAAATAAAAAAAAATATAAAAATATCAGA
Found at i:60638528 original size:14 final size:14
Alignment explanation
Indices: 60638505--60638546 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
60638495 TTTAAAGGAG
60638505 AAGAGAGAAAAAGA
1 AAGAGAGAAAAAGA
*
60638519 AAGAGGGAAAAAG-
1 AAGAGAGAAAAAGA
60638532 -AGAGAGAAAAA-A
1 AAGAGAGAAAAAGA
60638544 AAG
1 AAG
60638547 GGGGAAAGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
12 10 0.42
13 2 0.08
14 12 0.50
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (14 bp):
AAGAGAGAAAAAGA
Found at i:60641117 original size:22 final size:23
Alignment explanation
Indices: 60641089--60641139 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 23
60641079 ACTGCTTTTT
* *
60641089 TATTTCAGCGTTTTC-CATTATC
1 TATTTCACCCTTTTCTCATTATC
60641111 TATTTCACCCTTTTCTCATTATC
1 TATTTCACCCTTTTCTCATTATC
60641134 TATTTC
1 TATTTC
60641140 TTTCCCCCCT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 13 0.50
23 13 0.50
ACGTcount: A:0.18, C:0.25, G:0.04, T:0.53
Consensus pattern (23 bp):
TATTTCACCCTTTTCTCATTATC
Found at i:60645165 original size:6 final size:6
Alignment explanation
Indices: 60645151--60645181 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
60645141 TTAATAACAA
*
60645151 ATTTTT ATTTAT ATTTAT ATTTAT ATTTAT A
1 ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT A
60645182 ATATTTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
ATTTAT
Found at i:60645358 original size:15 final size:15
Alignment explanation
Indices: 60645338--60645395 Score: 53
Period size: 15 Copynumber: 3.6 Consensus size: 15
60645328 TTTTATTATT
60645338 AATATTTTAATAATA
1 AATATTTTAATAATA
*
60645353 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
60645372 AATATATTAATAATA
1 AATATTTTAATAATA
*
60645387 AATGTTTTA
1 AATATTTTA
60645396 TCGTATAAAG
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 17 0.50
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.29
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:60646735 original size:10 final size:10
Alignment explanation
Indices: 60646716--60646775 Score: 77
Period size: 10 Copynumber: 6.0 Consensus size: 10
60646706 TTAAATTCTA
60646716 AAAGATAAAT
1 AAAGATAAAT
60646726 ACAA-ATAAAT
1 A-AAGATAAAT
*
60646736 AAAGATAATT
1 AAAGATAAAT
*
60646746 AAAGATAATT
1 AAAGATAAAT
60646756 AAAGATAAAT
1 AAAGATAAAT
*
60646766 AAAAATAAAT
1 AAAGATAAAT
60646776 CCTAAATTTA
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
9 2 0.04
10 41 0.91
11 2 0.04
ACGTcount: A:0.68, C:0.02, G:0.07, T:0.23
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:60647591 original size:96 final size:97
Alignment explanation
Indices: 60647423--60647604 Score: 244
Period size: 96 Copynumber: 1.9 Consensus size: 97
60647413 ATTTAATTTA
* * *
60647423 TTTATTTTTACTTAGGAATATATTGAACCTTTTGACGCGAAAAGAGAAGACCACCAAGCACCCCA
1 TTTATTTTTACTTAAGAACATATCGAACCTTTTGACGCGAAAAGAGAAGACCACCAAGCACCCCA
*
60647488 CCTCGGTTACTCAGCCTAACACACTCCTAATT
66 CCTCGGTTACTCAGCCCAACACACTCCTAATT
* * * *
60647520 TTTATTTTT-CTTAAGAACATATCGAACCTTTTGGCGCGAAGAGAGATGA-CAGCCAAGCACCTC
1 TTTATTTTTACTTAAGAACATATCGAACCTTTTGACGCGAAAAGAGAAGACCA-CCAAGCACCCC
*
60647583 ACGC-CGGTTATTCAGCCCAACA
65 AC-CTCGGTTACTCAGCCCAACA
60647605 TATTCTTAAA
Statistics
Matches: 74, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
95 2 0.03
96 62 0.84
97 10 0.14
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (97 bp):
TTTATTTTTACTTAAGAACATATCGAACCTTTTGACGCGAAAAGAGAAGACCACCAAGCACCCCA
CCTCGGTTACTCAGCCCAACACACTCCTAATT
Found at i:60648767 original size:15 final size:15
Alignment explanation
Indices: 60648749--60648826 Score: 60
Period size: 15 Copynumber: 5.4 Consensus size: 15
60648739 ATATCCAAAG
60648749 ATAAAATAATAAATA
1 ATAAAATAATAAATA
60648764 ATAAAAT-A-AAATAA
1 ATAAAATAATAAAT-A
60648778 GATAAAATAA-AAATA
1 -ATAAAATAATAAATA
* *
60648793 CTAATAA-AAT-GA-A
1 ATAA-AATAATAAATA
*
60648806 ATAAAATAATAATTA
1 ATAAAATAATAAATA
60648821 ATAAAA
1 ATAAAA
60648827 ATTAAGAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 16
0.70 0.07 0.23
Matches are distributed among these distances:
12 2 0.04
13 11 0.22
14 8 0.16
15 24 0.48
16 5 0.10
ACGTcount: A:0.72, C:0.01, G:0.03, T:0.24
Consensus pattern (15 bp):
ATAAAATAATAAATA
Done.