Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008124.1 Hibiscus syriacus cultivar Beakdansim tig00110678_pilon, whole genome shotgun sequence
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: 3296903
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 18 of 19
Found at i:3076278 original size:60 final size:60
Alignment explanation
Indices: 3076167--3076309 Score: 143
Period size: 60 Copynumber: 2.4 Consensus size: 60
3076157 TCCTCAAATC
* * * * **
3076167 ATAACC-TCGATTTTAAATT-GTTCTTAAACTTTTAAATATTTTAATTTCAT-CCTCAAACT
1 ATAACCTTC-ATTCTAAATTAGTCCTTAAACTTTTAAATAATATAATCCCATCCCT-AAACT
*
3076226 ATGAATCTT-ATTCTAAATTAGTCCTTAAACTTTTGAAA-AATATAATCCCATCCCTAAACT
1 AT-AACCTTCATTCTAAATTAGTCCTTAAACTTTT-AAATAATATAATCCCATCCCTAAACT
*
3076286 ATAACCTTCTTTCTAAATTAGTCC
1 ATAACCTTCATTCTAAATTAGTCC
3076310 CCAAACTTAA
Statistics
Matches: 69, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
59 16 0.23
60 46 0.67
61 7 0.10
ACGTcount: A:0.35, C:0.20, G:0.04, T:0.41
Consensus pattern (60 bp):
ATAACCTTCATTCTAAATTAGTCCTTAAACTTTTAAATAATATAATCCCATCCCTAAACT
Found at i:3079522 original size:18 final size:18
Alignment explanation
Indices: 3079499--3079543 Score: 90
Period size: 18 Copynumber: 2.5 Consensus size: 18
3079489 ACTTTGCCAG
3079499 ACAAATTTCGCTTCTTGA
1 ACAAATTTCGCTTCTTGA
3079517 ACAAATTTCGCTTCTTGA
1 ACAAATTTCGCTTCTTGA
3079535 ACAAATTTC
1 ACAAATTTC
3079544 AACATGGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.31, C:0.22, G:0.09, T:0.38
Consensus pattern (18 bp):
ACAAATTTCGCTTCTTGA
Found at i:3088255 original size:24 final size:23
Alignment explanation
Indices: 3088228--3088279 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
3088218 TTATTGATTA
3088228 TATAATTTCCCACCCCTAAAATTT
1 TATAATTTCCCA-CCCTAAAATTT
* **
3088252 TATAACTTCTTACCCTAAAATTT
1 TATAATTTCCCACCCTAAAATTT
3088275 T-TAAT
1 TATAAT
3088280 ATAACTTCTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 3 0.12
23 12 0.50
24 9 0.38
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (23 bp):
TATAATTTCCCACCCTAAAATTT
Found at i:3092321 original size:20 final size:20
Alignment explanation
Indices: 3092296--3092408 Score: 165
Period size: 20 Copynumber: 5.7 Consensus size: 20
3092286 TAGTTCACGG
3092296 AATGTAAGATTATCAGTGGA
1 AATGTAAGATTATCAGTGGA
3092316 AATGTAAGATTATCAGTGGA
1 AATGTAAGATTATCAGTGGA
* *
3092336 AATATAAGATTATCAGTGGG
1 AATGTAAGATTATCAGTGGA
*
3092356 AATGTAAGATTATCAGTGGG
1 AATGTAAGATTATCAGTGGA
* *
3092376 AATGTAAGATTACCCGT-GA
1 AATGTAAGATTATCAGTGGA
3092395 GAATGTAAGATTAT
1 -AATGTAAGATTAT
3092409 TAGGGAATAA
Statistics
Matches: 85, Mismatches: 7, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
19 1 0.01
20 84 0.99
ACGTcount: A:0.39, C:0.06, G:0.25, T:0.30
Consensus pattern (20 bp):
AATGTAAGATTATCAGTGGA
Found at i:3092610 original size:37 final size:38
Alignment explanation
Indices: 3092561--3092640 Score: 119
Period size: 37 Copynumber: 2.1 Consensus size: 38
3092551 TAACAAGTTG
*
3092561 AAAAATATTTATATATTTTCTTTAAAAAATTT-AAATTT
1 AAAAATATTTATATATTTT-TTTAAAAAATTTAAAATAT
*
3092599 AAAAA-ATTTATATATTTTTTTACAAAATTTAAAATAT
1 AAAAATATTTATATATTTTTTTAAAAAATTTAAAATAT
3092636 AAAAA
1 AAAAA
3092641 GGTTTAATGA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
36 11 0.28
37 23 0.59
38 5 0.13
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (38 bp):
AAAAATATTTATATATTTTTTTAAAAAATTTAAAATAT
Found at i:3098941 original size:31 final size:31
Alignment explanation
Indices: 3098856--3098929 Score: 121
Period size: 31 Copynumber: 2.4 Consensus size: 31
3098846 AAATTTTGTA
* * *
3098856 TTTAATATCTAAACTATTAATTTAATTTTAG
1 TTTAGTATCTAAACTATTAATTTTAGTTTAG
3098887 TTTAGTATCTAAACTATTAATTTTAGTTTAG
1 TTTAGTATCTAAACTATTAATTTTAGTTTAG
3098918 TTTAGTATCTAA
1 TTTAGTATCTAA
3098930 GTTTTTAATT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.35, C:0.07, G:0.07, T:0.51
Consensus pattern (31 bp):
TTTAGTATCTAAACTATTAATTTTAGTTTAG
Found at i:3099060 original size:30 final size:31
Alignment explanation
Indices: 3099026--3099101 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 31
3099016 TAAAATTGAA
*
3099026 AGTTTAGGTACTAAAA-AAATTAAAACTAAT
1 AGTTTAGGTACTAAAATAAATCAAAACTAAT
* * *
3099056 AGTTTAGGTATTAAAATAGATCAAAACTGAT
1 AGTTTAGGTACTAAAATAAATCAAAACTAAT
* *
3099087 AATTTATGTACTAAA
1 AGTTTAGGTACTAAA
3099102 CGTATTAAAT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
30 15 0.39
31 23 0.61
ACGTcount: A:0.49, C:0.07, G:0.12, T:0.33
Consensus pattern (31 bp):
AGTTTAGGTACTAAAATAAATCAAAACTAAT
Found at i:3100003 original size:18 final size:18
Alignment explanation
Indices: 3099977--3100021 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
3099967 AGCCCTCAGC
3099977 TCTTCTTCTCCTTTATCT
1 TCTTCTTCTCCTTTATCT
*
3099995 TCTTATTCTCCTTTATCT
1 TCTTCTTCTCCTTTATCT
3100013 TCTTCTTCT
1 TCTTCTTCT
3100022 TCGACACCGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.07, C:0.31, G:0.00, T:0.62
Consensus pattern (18 bp):
TCTTCTTCTCCTTTATCT
Found at i:3102676 original size:21 final size:21
Alignment explanation
Indices: 3102642--3102702 Score: 97
Period size: 21 Copynumber: 3.0 Consensus size: 21
3102632 ATACTGTCAC
*
3102642 CCCTA-CAATATTGATACTCT
1 CCCTAGCAGTATTGATACTCT
*
3102662 CCCTAGCAGTATTGATATTCT
1 CCCTAGCAGTATTGATACTCT
3102683 CCCTAGCAGTATTGATACTC
1 CCCTAGCAGTATTGATACTC
3102703 CCAGCTTAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
20 5 0.14
21 32 0.86
ACGTcount: A:0.26, C:0.28, G:0.11, T:0.34
Consensus pattern (21 bp):
CCCTAGCAGTATTGATACTCT
Found at i:3106438 original size:18 final size:18
Alignment explanation
Indices: 3106393--3106439 Score: 69
Period size: 19 Copynumber: 2.6 Consensus size: 18
3106383 TATGAACTTG
3106393 AAAATAAG-TATGAATCT
1 AAAATAAGTTATGAATCT
3106410 AAAATTAAGTTATGAATCT
1 AAAA-TAAGTTATGAATCT
*
3106429 GAAATAAGTTA
1 AAAATAAGTTA
3106440 CGAGTCCGGA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 4 0.15
18 11 0.41
19 12 0.44
ACGTcount: A:0.51, C:0.04, G:0.13, T:0.32
Consensus pattern (18 bp):
AAAATAAGTTATGAATCT
Found at i:3106540 original size:13 final size:13
Alignment explanation
Indices: 3106506--3106557 Score: 61
Period size: 13 Copynumber: 4.1 Consensus size: 13
3106496 ATTATGAGAA
*
3106506 TGAAATGTGAAAG
1 TGAAATATGAAAG
3106519 TG-AATATGAAAG
1 TGAAATATGAAAG
* *
3106531 TGAAAGATGAAAA
1 TGAAATATGAAAG
*
3106544 TGAGATATGAAAG
1 TGAAATATGAAAG
3106557 T
1 T
3106558 TTTGTATTGT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
12 11 0.34
13 21 0.66
ACGTcount: A:0.50, C:0.00, G:0.27, T:0.23
Consensus pattern (13 bp):
TGAAATATGAAAG
Found at i:3106608 original size:18 final size:18
Alignment explanation
Indices: 3106585--3106649 Score: 76
Period size: 18 Copynumber: 3.4 Consensus size: 18
3106575 TGAAAAAGAA
3106585 TATGATATGACTATTATG
1 TATGATATGACTATTATG
** *
3106603 TATGATATTGTTTATCATGG
1 TATGATA-TGACTATTAT-G
3106623 CTATGATATGACTATTATG
1 -TATGATATGACTATTATG
3106642 TATGATAT
1 TATGATAT
3106650 TGTTTATCAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
18 15 0.39
19 8 0.21
20 8 0.21
21 7 0.18
ACGTcount: A:0.31, C:0.06, G:0.17, T:0.46
Consensus pattern (18 bp):
TATGATATGACTATTATG
Found at i:3106669 original size:39 final size:39
Alignment explanation
Indices: 3106585--3106661 Score: 154
Period size: 39 Copynumber: 2.0 Consensus size: 39
3106575 TGAAAAAGAA
3106585 TATGATATGACTATTATGTATGATATTGTTTATCATGGC
1 TATGATATGACTATTATGTATGATATTGTTTATCATGGC
3106624 TATGATATGACTATTATGTATGATATTGTTTATCATGG
1 TATGATATGACTATTATGTATGATATTGTTTATCATGG
3106662 TTTTGATAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.29, C:0.06, G:0.18, T:0.47
Consensus pattern (39 bp):
TATGATATGACTATTATGTATGATATTGTTTATCATGGC
Found at i:3110093 original size:155 final size:155
Alignment explanation
Indices: 3109811--3110120 Score: 611
Period size: 155 Copynumber: 2.0 Consensus size: 155
3109801 CCAAGAAATT
3109811 GCAGGCACTTGATGGCCACTAATTCTGAGATATGTTTTTAATAATCGAATTGACTTTGGTGAATT
1 GCAGGCACTTGATGGCCACTAATTCTGAGATATGTTTTTAATAATCGAATTGACTTTGGTGAATT
*
3109876 GGAATAAAAAAAGGAAAGAAAAGAGGTTGGCAATTTACAAAATTTAAACTCTTACATATCATCCT
66 GGAATAAAAAAAGAAAAGAAAAGAGGTTGGCAATTTACAAAATTTAAACTCTTACATATCATCCT
3109941 AATGATGAAGTTTTATATTAGAGCA
131 AATGATGAAGTTTTATATTAGAGCA
3109966 GCAGGCACTTGATGGCCACTAATTCTGAGATATGTTTTTAATAATCGAATTGACTTTGGTGAATT
1 GCAGGCACTTGATGGCCACTAATTCTGAGATATGTTTTTAATAATCGAATTGACTTTGGTGAATT
3110031 GGAATAAAAAAAGAAAAGAAAAGAGGTTGGCAATTTACAAAATTTAAACTCTTACATATCATCCT
66 GGAATAAAAAAAGAAAAGAAAAGAGGTTGGCAATTTACAAAATTTAAACTCTTACATATCATCCT
3110096 AATGATGAAGTTTTATATTAGAGCA
131 AATGATGAAGTTTTATATTAGAGCA
3110121 CAGCAGGGCA
Statistics
Matches: 154, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
155 154 1.00
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (155 bp):
GCAGGCACTTGATGGCCACTAATTCTGAGATATGTTTTTAATAATCGAATTGACTTTGGTGAATT
GGAATAAAAAAAGAAAAGAAAAGAGGTTGGCAATTTACAAAATTTAAACTCTTACATATCATCCT
AATGATGAAGTTTTATATTAGAGCA
Found at i:3114029 original size:2 final size:2
Alignment explanation
Indices: 3114022--3114133 Score: 224
Period size: 2 Copynumber: 56.0 Consensus size: 2
3114012 TAGGAAATAG
3114022 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
3114064 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
3114106 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
3114134 TTTGGGGTTC
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 110 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:3118556 original size:24 final size:24
Alignment explanation
Indices: 3118524--3118569 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
3118514 TAAACAAACG
* *
3118524 AATATAAATGAATGGACATAAATT
1 AATATAAATGAACGAACATAAATT
3118548 AATATAAATGAACGAACATAAA
1 AATATAAATGAACGAACATAAA
3118570 CGAACAGATT
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:0.59, C:0.07, G:0.11, T:0.24
Consensus pattern (24 bp):
AATATAAATGAACGAACATAAATT
Found at i:3120990 original size:19 final size:19
Alignment explanation
Indices: 3120966--3121015 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
3120956 TCATATTATT
3120966 TTTTTTGTATTTTTT-TGGA
1 TTTTTTGTATTTTTTCT-GA
*
3120985 TTTTTTGAATTTTTTCTGA
1 TTTTTTGTATTTTTTCTGA
*
3121004 TTTTTTATATTT
1 TTTTTTGTATTT
3121016 ATAAAATTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 26 0.96
20 1 0.04
ACGTcount: A:0.14, C:0.02, G:0.10, T:0.74
Consensus pattern (19 bp):
TTTTTTGTATTTTTTCTGA
Found at i:3121373 original size:19 final size:17
Alignment explanation
Indices: 3121333--3121367 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
3121323 AAAAGTAAAA
*
3121333 TTTATCGGATATATTTT
1 TTTATCAGATATATTTT
3121350 TTTATCAGATATATTTT
1 TTTATCAGATATATTTT
3121367 T
1 T
3121368 GTTTATGTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.26, C:0.06, G:0.09, T:0.60
Consensus pattern (17 bp):
TTTATCAGATATATTTT
Found at i:3121467 original size:84 final size:83
Alignment explanation
Indices: 3121365--3121532 Score: 264
Period size: 84 Copynumber: 2.0 Consensus size: 83
3121355 CAGATATATT
* * *
3121365 TTTGTTTATGTCACATGTTTCATTTATCGGATAAAAACTGTTTGTCTTTTTCGTCTTTGTCATAT
1 TTTGTTTATGTCACATGTTTCATTTATCGGACAAAAACTGGTTGCCTTTTTCGTCTTTGTCATAT
3121430 CCTTATTAACACAAGAATG
66 -CTTATTAACACAAGAATG
* * *
3121449 TTTGTTTATGTCACATGTTTCATTTATCGGACAAAAATTGGTTGCCTTTTTCTTCTTTGTCTTAT
1 TTTGTTTATGTCACATGTTTCATTTATCGGACAAAAACTGGTTGCCTTTTTCGTCTTTGTCATAT
*
3121514 CTTGTTAACACAAGAATG
66 CTTATTAACACAAGAATG
3121532 T
1 T
3121533 GCAAAGAGGG
Statistics
Matches: 77, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
83 18 0.23
84 59 0.77
ACGTcount: A:0.24, C:0.15, G:0.14, T:0.47
Consensus pattern (83 bp):
TTTGTTTATGTCACATGTTTCATTTATCGGACAAAAACTGGTTGCCTTTTTCGTCTTTGTCATAT
CTTATTAACACAAGAATG
Found at i:3121629 original size:21 final size:21
Alignment explanation
Indices: 3121579--3121642 Score: 76
Period size: 21 Copynumber: 3.0 Consensus size: 21
3121569 GGTCGAAAAA
* * *
3121579 AATATTTTAAATATTATTATT
1 AATATTTTTATTATTAATATT
*
3121600 AGTATTTTTATTATTAATATT
1 AATATTTTTATTATTAATATT
3121621 AATATTTTT-TTATTAATTATT
1 AATATTTTTATTATTAA-TATT
3121642 A
1 A
3121643 CCTAACCTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.19
21 30 0.81
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (21 bp):
AATATTTTTATTATTAATATT
Found at i:3126669 original size:21 final size:20
Alignment explanation
Indices: 3126635--3126693 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 20
3126625 CTATTGCAAC
*
3126635 GCGAATTTCCGAAACTGAGTT
1 GCGAATTT-GGAAACTGAGTT
* *
3126656 GCGAATTTGTGAAATATGCGTT
1 GCGAATTTG-GAAA-CTGAGTT
*
3126678 GTGAATTTGGAAACTG
1 GCGAATTTGGAAACTG
3126694 TATTTACAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
20 2 0.06
21 16 0.52
22 13 0.42
ACGTcount: A:0.29, C:0.12, G:0.27, T:0.32
Consensus pattern (20 bp):
GCGAATTTGGAAACTGAGTT
Found at i:3126720 original size:20 final size:21
Alignment explanation
Indices: 3126693--3126739 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
3126683 TTTGGAAACT
3126693 GTATTTACAAATTCGCGTTGC
1 GTATTTACAAATTCGCGTTGC
* *
3126714 G-ATTTACATATTTGCGTTGC
1 GTATTTACAAATTCGCGTTGC
3126734 GTATTT
1 GTATTT
3126740 GGAAACTGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 18 0.78
21 5 0.22
ACGTcount: A:0.21, C:0.15, G:0.19, T:0.45
Consensus pattern (21 bp):
GTATTTACAAATTCGCGTTGC
Found at i:3127701 original size:23 final size:22
Alignment explanation
Indices: 3127645--3127705 Score: 65
Period size: 21 Copynumber: 2.8 Consensus size: 22
3127635 AAGGTACTCG
3127645 AAAAAAAT-AAGAAAAAACCAC
1 AAAAAAATGAAGAAAAAACCAC
* *
3127666 AATAAAA-GAAGAAAATAATTCA-
1 AAAAAAATGAAGAAAA-AA-CCAC
3127688 AAAAAAATGAAGAAAAAA
1 AAAAAAATGAAGAAAAAA
3127706 GATGTTGAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
21 13 0.39
22 10 0.30
23 10 0.30
ACGTcount: A:0.75, C:0.07, G:0.08, T:0.10
Consensus pattern (22 bp):
AAAAAAATGAAGAAAAAACCAC
Found at i:3136289 original size:31 final size:32
Alignment explanation
Indices: 3136223--3136289 Score: 75
Period size: 31 Copynumber: 2.1 Consensus size: 32
3136213 CTTCCATTAT
* *
3136223 TTAAGAAAAAAACGTAAAATTTAGTTTAATACA
1 TTAAGAAAAAAAC-TAAAATATAGTATAATACA
*
3136256 TTAAGAAAAAAA-TAAAATATA-TATATATTCA
1 TTAAGAAAAAAACTAAAATATAGTATA-ATACA
3136287 TTA
1 TTA
3136290 TTTTTAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
30 3 0.10
31 15 0.50
33 12 0.40
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.33
Consensus pattern (32 bp):
TTAAGAAAAAAACTAAAATATAGTATAATACA
Found at i:3136430 original size:2 final size:2
Alignment explanation
Indices: 3136420--3136463 Score: 65
Period size: 2 Copynumber: 23.0 Consensus size: 2
3136410 TAAGATCTAT
*
3136420 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA CA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3136460 TA TA
1 TA TA
3136464 AATTTTATTA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
1 2 0.05
2 36 0.95
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3136438 original size:29 final size:29
Alignment explanation
Indices: 3136406--3136463 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 29
3136396 TAAATTAATT
* *
3136406 TATATA-AGATCTAT-TATATTATATATA
1 TATATATAGATATATATATATTACATATA
*
3136433 TATATATATATATATATATATTACATATA
1 TATATATAGATATATATATATTACATATA
3136462 TA
1 TA
3136464 AATTTTATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 6 0.23
28 6 0.23
29 14 0.54
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (29 bp):
TATATATAGATATATATATATTACATATA
Found at i:3136493 original size:11 final size:11
Alignment explanation
Indices: 3136477--3136507 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
3136467 TTTATTATAA
3136477 ATCTTAATTAG
1 ATCTTAATTAG
*
3136488 ATCTTAATTAT
1 ATCTTAATTAG
3136499 ATCTTAATT
1 ATCTTAATT
3136508 CAAAACTACC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.52
Consensus pattern (11 bp):
ATCTTAATTAG
Found at i:3137317 original size:16 final size:17
Alignment explanation
Indices: 3137296--3137328 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
3137286 ATAGAGACTT
3137296 GAAAAATTATT-ATTTA
1 GAAAAATTATTAATTTA
3137312 GAAAAATTATTAATTTA
1 GAAAAATTATTAATTTA
3137329 TTGAGTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (17 bp):
GAAAAATTATTAATTTA
Found at i:3147834 original size:24 final size:24
Alignment explanation
Indices: 3147802--3147857 Score: 112
Period size: 24 Copynumber: 2.3 Consensus size: 24
3147792 ACACGACTAC
3147802 AAACTCTAGCTTCGGCTAGTTTAT
1 AAACTCTAGCTTCGGCTAGTTTAT
3147826 AAACTCTAGCTTCGGCTAGTTTAT
1 AAACTCTAGCTTCGGCTAGTTTAT
3147850 AAACTCTA
1 AAACTCTA
3147858 CTCTCAACAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (24 bp):
AAACTCTAGCTTCGGCTAGTTTAT
Found at i:3150436 original size:31 final size:31
Alignment explanation
Indices: 3150352--3150438 Score: 95
Period size: 31 Copynumber: 2.8 Consensus size: 31
3150342 CACTAACGCC
* *
3150352 ATCGGTCCGTCCGATTCAAGTCCCTAACATT
1 ATCGGTCCGTTCGATTTAAGTCCCTAACATT
* * * *
3150383 ATCAGTCC-ATCTAATTTCAGTCCCTAACATT
1 ATCGGTCCGTTC-GATTTAAGTCCCTAACATT
*
3150414 ATCGGTCCGTTCGATTTTAGTCCCT
1 ATCGGTCCGTTCGATTTAAGTCCCT
3150439 CAACCACGTT
Statistics
Matches: 44, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
30 1 0.02
31 41 0.93
32 2 0.05
ACGTcount: A:0.22, C:0.30, G:0.14, T:0.34
Consensus pattern (31 bp):
ATCGGTCCGTTCGATTTAAGTCCCTAACATT
Found at i:3150479 original size:15 final size:15
Alignment explanation
Indices: 3150461--3150494 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
3150451 TGACTTCAGC
3150461 AAAAGGGACTTAAAT
1 AAAAGGGACTTAAAT
**
3150476 AAAAGGGGGTTAAAT
1 AAAAGGGACTTAAAT
3150491 AAAA
1 AAAA
3150495 TTAATAGCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.03, G:0.24, T:0.18
Consensus pattern (15 bp):
AAAAGGGACTTAAAT
Found at i:3158745 original size:228 final size:229
Alignment explanation
Indices: 3158208--3158923 Score: 1343
Period size: 228 Copynumber: 3.1 Consensus size: 229
3158198 GTTATATTGT
* * * *
3158208 AAAGTATCTATCCTTTTTATAAAAGTGTACATACTTATTTCACTGT-GAAAATATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
3158272 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
66 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
*
3158337 TAA--TTGTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
131 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
3158400 AAAAAATTGAAACATAAATTACATAACTTTAAAA
196 AAAAAATTGAAACATAAATTACATAACTTTAAAA
*
3158434 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAAACATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
3158499 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
66 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
3158564 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
131 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
3158629 AAAAAATTGAAACATAAATTACATAACTTT-AAA
196 AAAAAATTGAAACATAAATTACATAACTTTAAAA
3158662 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
3158727 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
66 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
3158792 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-A
131 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
3158856 AAAAAATTGAAACATAAATTACATAACTTTAAAA
196 AAAAAATTGAAACATAAATTACATAACTTTAAAA
3158890 AAAGTATATATCATTTTTATAAAAGTGTCCATAC
1 AAAGTATATATCATTTTTATAAAAGTGTCCATAC
3158924 GTATAAAAGT
Statistics
Matches: 479, Mismatches: 7, Indels: 6
0.97 0.01 0.01
Matches are distributed among these distances:
226 43 0.09
227 115 0.24
228 232 0.48
229 89 0.19
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (229 bp):
AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
AAAAAATTGAAACATAAATTACATAACTTTAAAA
Found at i:3158995 original size:20 final size:19
Alignment explanation
Indices: 3158972--3159018 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
3158962 CGATATACCA
*
3158972 GGTAAAAATATGATAAAACT
1 GGTAAAAA-ATGATAAAACC
3158992 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
3159012 GGTAAAA
1 GGTAAAA
3159019 CGTTACTGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 2 0.08
20 20 0.80
21 3 0.12
ACGTcount: A:0.55, C:0.09, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:3159200 original size:17 final size:19
Alignment explanation
Indices: 3159161--3159203 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
3159151 TAGGTAAAAT
3159161 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
3159181 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
3159198 ATGATA
1 ATGATA
3159204 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:3161906 original size:21 final size:21
Alignment explanation
Indices: 3161882--3161925 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
3161872 AAGACAATCA
3161882 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
3161903 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
3161924 AG
1 AG
3161926 GCATAAGGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.11, G:0.32, T:0.16
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:3162001 original size:33 final size:33
Alignment explanation
Indices: 3161959--3162024 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
3161949 AAATAGATGG
*
3161959 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
3161992 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
3162025 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:3164694 original size:199 final size:199
Alignment explanation
Indices: 3163893--3165870 Score: 3595
Period size: 199 Copynumber: 9.9 Consensus size: 199
3163883 CAATATGGCC
*
3163893 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCCAAAAACATCGAAAA
1 AACAGGGTGC-ACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
* *
3163958 CCAAAAGTATAATGTAATATGTAAATTTTCAATCTAACCGGTACAAGTTTACCGATTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
* *
3164023 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTGTTGTTCCAGAATTAA
130 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
3164088 TGGAA
195 TGGAA
*
3164093 AACATGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGC-ACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
3164158 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
*
3164223 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCATAATGAA
130 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
3164288 TGGAA
195 TGGAA
3164293 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCA-CCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
3164358 CCAAAAGTATAATGTAATATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTT
65 CCAAAAG--T-A--T-A-ATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTT
3164423 TATGAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCA
123 TATGAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCA
3164488 GAATGAATGGAA
188 GAATGAATGGAA
3164500 AACAGGGTGCACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAAC
1 AACAGGGTGCACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAAC
3164565 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGAG
*
3164630 AATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTATCGATATTTTTGTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
3164695 GGAA
196 GGAA
3164699 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCA-CCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
3164764 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
*
3164829 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTTTTCCAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
3164894 TGGAA
195 TGGAA
*
3164899 AACAGGGTGCACCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCCAAAAACATCGAAAAC
1 AACAGGGTGCACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAAC
3164964 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGAG
3165029 AATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
3165094 GGAA
196 GGAA
* *
3165098 AACATGGTGCACCATAAAGTGTCAATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAAC
1 AACAGGGTGCACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAAC
*
3165163 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTATCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGAG
3165228 AATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
3165293 GGAA
196 GGAA
3165297 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCA-CCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
3165362 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
* *
3165427 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTCTGTGTCGATATTTTTGTTCCAGAAAGAA
130 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
3165492 TGGAA
195 TGGAA
* * *
3165497 AACAGGGTGCAACCATAAAGTTTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG-AAC
1 AACAGGGTGC-ACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
3165561 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
3165626 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
3165691 TGGAA
195 TGGAA
* *
3165696 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG-AAC
1 AACAGGGTGCA-CCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
* *
3165760 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCAGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
3165825 GAATATGTCTAAATAATGTGTCGACACGT--TTTAGTTTGTGTCGATA
130 GAATATGTCTAAATAATGTGTCGACAC-TAATTTAGTTTGTGTCGATA
3165871 CTAATTTAAA
Statistics
Matches: 1734, Mismatches: 31, Indels: 28
0.97 0.02 0.02
Matches are distributed among these distances:
198 18 0.01
199 812 0.47
200 702 0.40
201 2 0.00
202 1 0.00
203 2 0.00
204 1 0.00
205 1 0.00
206 61 0.04
207 134 0.08
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (199 bp):
AACAGGGTGCACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAAC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
GGAA
Found at i:3164914 original size:399 final size:399
Alignment explanation
Indices: 3163893--3165870 Score: 3606
Period size: 399 Copynumber: 4.9 Consensus size: 399
3163883 CAATATGGCC
*
3163893 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
* *
3163958 CCAAAAGTATAATGTAATATGTAAATTTTCAATCTAACCGGTACAAGTTTACCGATTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
* *
3164023 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTGTTGTTCCAGAATTAA
131 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
*
3164088 TGGAAAACATGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATC
196 TGGAAAACAGGGTGC-ACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATC
3164153 GAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTA
260 GAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTA
*
3164218 TGAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCATA
325 TGAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGA
3164283 ATGAATGGAA
390 ATGAATGGAA
*
3164293 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
3164358 CCAAAAGTATAATGTAATATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTT
66 CCAAAAG--T-A--T-A-ATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTT
3164423 TATGAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCA
124 TATGAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCA
3164488 GAATGAATGGAAAACAGGGTGCACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAA
189 GAATGAATGGAAAACAGGGTGCACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAA
3164553 AACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCG
254 AACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCG
*
3164618 GTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTATCGATATTTTTGT
319 GTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGT
3164683 TCCAGAATGAATGGAA
384 TCCAGAATGAATGGAA
*
3164699 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
3164764 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
*
3164829 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTTTTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
*
3164894 TGGAAAACAGGGTGCACCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCCAAAAACATCG
196 TGGAAAACAGGGTGCACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCG
3164959 AAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTAT
261 AAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTAT
3165024 GAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAA
326 GAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAA
3165089 TGAATGGAA
391 TGAATGGAA
* *
3165098 AACATGGTGC-ACCATAAAGTGTCAATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
*
3165162 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTATCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
3165227 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
3165292 TGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATC
196 TGGAAAACAGGGTGCA-CCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATC
3165357 GAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTA
260 GAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTA
*
3165422 TGAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTCTGTGTCGATATTTTTGTTCCAGA
325 TGAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGA
*
3165487 AAGAATGGAA
390 ATGAATGGAA
* * *
3165497 AACAGGGTGCAACCATAAAGTTTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG-AAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
3165561 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
3165626 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
*
3165691 TGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATC
196 TGGAAAACAGGGTGCA-CCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATC
* * *
3165756 G-AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCAGTTTTA
260 GAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTA
3165820 TGAGAGAATATGTCTAAATAATGTGTCGACACGT--TTTAGTTTGTGTCGATA
325 TGAGAGAATATGTCTAAATAATGTGTCGACAC-TAATTTAGTTTGTGTCGATA
3165871 CTAATTTAAA
Statistics
Matches: 1537, Mismatches: 31, Indels: 23
0.97 0.02 0.01
Matches are distributed among these distances:
397 16 0.01
398 288 0.19
399 720 0.47
400 118 0.08
401 1 0.00
402 1 0.00
403 2 0.00
404 1 0.00
405 1 0.00
406 260 0.17
407 129 0.08
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (399 bp):
AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
TGGAAAACAGGGTGCACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCG
AAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTAT
GAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAA
TGAATGGAA
Found at i:3165251 original size:598 final size:598
Alignment explanation
Indices: 3163893--3165870 Score: 3613
Period size: 598 Copynumber: 3.3 Consensus size: 598
3163883 CAATATGGCC
*
3163893 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCCAAAAACATCGAAAA
1 AACAGGGTGC-ACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
* *
3163958 CCAAAAGTATAATGTAATATGTAAATTTTCAATCTAACCGGTACAAGTTTACCGATTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
* *
3164023 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTGTTGTTCCAGAATTAA
130 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
* *
3164088 TGGAAAACATGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATC
195 TGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATC
3164153 GAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTA
260 GAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTA
*
3164218 TGAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCATA
325 TGAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGA
3164283 ATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAA
390 ATGAATGGAAAACAGGGTGCA-CCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAA
3164348 ACATCGAAAACCAAAAGTATAATGTAATATGTAATATGTAATTTTTCAATCTAACCGGTACAAGT
454 ACATCGAAAACCAAAAG--T-A--T-A-ATGTAATATGTAATTTTTCAATCTAACCGGTACAAGT
3164413 TTACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATAT
512 TTACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATAT
3164478 TTTTGTTCCAGAATGAATGGAA
577 TTTTGTTCCAGAATGAATGGAA
3164500 AACAGGGTGCACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAAC
1 AACAGGGTGCACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAAC
3164565 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGAG
*
3164630 AATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTATCGATATTTTTGTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
3164695 GGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCG
196 GGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCG
3164760 AAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTAT
261 AAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTAT
*
3164825 GAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTTTTCCAGAA
326 GAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAA
*
3164890 TGAATGGAAAACAGGGTGCACCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCCAAAAAC
391 TGAATGGAAAACAGGGTGCACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAAC
3164955 ATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTT
456 ATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTT
3165020 TTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCC
521 TTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCC
3165085 AGAATGAATGGAA
586 AGAATGAATGGAA
* *
3165098 AACATGGTGCACCATAAAGTGTCAATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAAC
1 AACAGGGTGCACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAAC
*
3165163 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTATCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGAG
3165228 AATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
3165293 GGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCG
196 GGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCG
3165358 AAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTAT
261 AAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTAT
*
3165423 GAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTCTGTGTCGATATTTTTGTTCCAGAA
326 GAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAA
* * *
3165488 AGAATGGAAAACAGGGTGCAACCATAAAGTTTCGATCCATATATAAAAAGTGTCGATCCCAAAAT
391 TGAATGGAAAACAGGGTGC-ACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAA
*
3165553 CATCG-AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGT
455 CATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGT
3165617 TTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTC
520 TTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTC
3165682 CAGAATGAATGGAA
585 CAGAATGAATGGAA
* *
3165696 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG-AAC
1 AACAGGGTGCA-CCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
* *
3165760 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCAGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
3165825 GAATATGTCTAAATAATGTGTCGACACGT--TTTAGTTTGTGTCGATA
130 GAATATGTCTAAATAATGTGTCGACAC-TAATTTAGTTTGTGTCGATA
3165871 CTAATTTAAA
Statistics
Matches: 1339, Mismatches: 29, Indels: 16
0.97 0.02 0.01
Matches are distributed among these distances:
597 17 0.01
598 764 0.57
599 96 0.07
600 1 0.00
602 1 0.00
603 1 0.00
605 59 0.04
606 390 0.29
607 10 0.01
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (598 bp):
AACAGGGTGCACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAAC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
GGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCG
AAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTAT
GAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAA
TGAATGGAAAACAGGGTGCACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAAC
ATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTT
TTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCC
AGAATGAATGGAA
Found at i:3167357 original size:6 final size:6
Alignment explanation
Indices: 3167333--3167436 Score: 91
Period size: 6 Copynumber: 17.3 Consensus size: 6
3167323 AGCGGTTGCA
* * * * *
3167333 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GAAGAT GACGAT GATGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
* ** * * * * *
3167381 GACGAT GAAGAT GGCGAT GAAGAT GATGAC GATGAT GATGAT GATGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
3167429 GAAGAT GA
1 GAAGAT GA
3167437 TGATCCAAAC
Statistics
Matches: 80, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 80 1.00
ACGTcount: A:0.38, C:0.07, G:0.35, T:0.20
Consensus pattern (6 bp):
GAAGAT
Found at i:3167440 original size:12 final size:12
Alignment explanation
Indices: 3167336--3167436 Score: 121
Period size: 12 Copynumber: 8.4 Consensus size: 12
3167326 GGTTGCAGAA
*
3167336 GATGAAGCTGAC
1 GATGAAGATGAC
3167348 GATGAAGATGAC
1 GATGAAGATGAC
3167360 GATGAAGATGAC
1 GATGAAGATGAC
*
3167372 GATGATGATGAC
1 GATGAAGATGAC
*
3167384 GATGAAGATGGC
1 GATGAAGATGAC
*
3167396 GATGAAGATGAT
1 GATGAAGATGAC
* * *
3167408 GACGATGATGAT
1 GATGAAGATGAC
* *
3167420 GATGATGATGAA
1 GATGAAGATGAC
3167432 GATGA
1 GATGA
3167437 TGATCCAAAC
Statistics
Matches: 79, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 79 1.00
ACGTcount: A:0.38, C:0.07, G:0.35, T:0.21
Consensus pattern (12 bp):
GATGAAGATGAC
Found at i:3172556 original size:25 final size:25
Alignment explanation
Indices: 3172528--3172592 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
3172518 TTATCATTAA
3172528 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
****
3172553 ATTTAGGTATGTTTGTTAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
3172578 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
3172593 TCTTTTGAGT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:3172970 original size:23 final size:23
Alignment explanation
Indices: 3172939--3173011 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
3172929 ATAGGTAAAC
*
3172939 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
3172962 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
3172985 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
3173008 ATAT
1 ATAT
3173012 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:3173456 original size:18 final size:18
Alignment explanation
Indices: 3173435--3173471 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
3173425 GTAATTGGAG
3173435 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
3173453 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
3173471 T
1 T
3173472 ATATTTCGGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:3173768 original size:39 final size:39
Alignment explanation
Indices: 3173725--3173811 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
3173715 TCCGATGCTC
*
3173725 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
* *
3173764 ATCAAAATTCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
3173803 ATCAAAATC
1 ATCAAAATC
3173812 TACAACTTGA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.48, C:0.20, G:0.14, T:0.18
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
Found at i:3174264 original size:23 final size:23
Alignment explanation
Indices: 3174233--3174305 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
3174223 ATAGGTAAAC
*
3174233 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
3174256 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
3174279 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
3174302 ATAT
1 ATAT
3174306 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:3174693 original size:23 final size:23
Alignment explanation
Indices: 3174662--3174734 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
3174652 ATAGGTAAAA
*
3174662 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
3174685 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
3174708 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
3174731 ATAT
1 ATAT
3174735 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:3174830 original size:429 final size:429
Alignment explanation
Indices: 3174030--3175083 Score: 1968
Period size: 429 Copynumber: 2.5 Consensus size: 429
3174020 GTTAATGTTG
* * * * *
3174030 TTAAATT-TAAATTATAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATC-AAATAATCAAATAATTTTTTGTGCAA
*
3174094 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTGTTAAAAAAATTGAAACATA
65 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATA
* *
3174159 AATTACATAACTTTTAAAAAAAGTATCGATCTTTTTTATAAAAAGTATGGACACTTTCAATATAA
130 AATTACATAAC-TTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
*
3174224 TAGGTAAACATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
194 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
3174289 ATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
259 ATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
3174354 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
324 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
3174419 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
389 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
3174460 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAA-TTTTTGTGCAAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
3174524 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACATA
3174589 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
130 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
3174654 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
195 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
*
3174719 TAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAATTGTCCATACTTTTTTCACTGT
260 TAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
3174784 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
325 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
3174849 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
390 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
3174889 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
3174954 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAA
*
3175019 ATTATATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATA
131 ATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATA
3175084 TAATGTAATA
Statistics
Matches: 610, Mismatches: 11, Indels: 7
0.97 0.02 0.01
Matches are distributed among these distances:
429 476 0.78
430 107 0.18
431 27 0.04
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.39
Consensus pattern (429 bp):
TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAA
ATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATA
GGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAAT
AGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTG
GAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCG
TCTAATGATTTATTTTTTACGTTACGATATATATTATTA
Found at i:3176805 original size:20 final size:20
Alignment explanation
Indices: 3176769--3176806 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
3176759 AATATTTGGT
*
3176769 TGTTTCATTTGTCTTGTTGA
1 TGTTTCATTTATCTTGTTGA
*
3176789 TGTTTCATTTATTTTGTT
1 TGTTTCATTTATCTTGTT
3176807 TTGCTCGTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.08, G:0.16, T:0.66
Consensus pattern (20 bp):
TGTTTCATTTATCTTGTTGA
Found at i:3178032 original size:33 final size:33
Alignment explanation
Indices: 3177944--3178038 Score: 88
Period size: 32 Copynumber: 2.9 Consensus size: 33
3177934 CCCGAATCGA
* * **
3177944 AACCAAAATTAACCCGAACCGAA-AGTAACCTG
1 AACCGAAAGTAACCCGAACCGAATTTTAACCTG
* * *
3177976 AACCGAAAGAAACTCGAATCGAATTTTAA-CTCG
1 AACCGAAAGTAACCCGAACCGAATTTTAACCT-G
*
3178009 ATCCGAAAGTAACCCGAACCGAA-TTTAACC
1 AACCGAAAGTAACCCGAACCGAATTTTAACC
3178039 CGTCCCAAAA
Statistics
Matches: 49, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
32 25 0.51
33 24 0.49
ACGTcount: A:0.43, C:0.26, G:0.14, T:0.17
Consensus pattern (33 bp):
AACCGAAAGTAACCCGAACCGAATTTTAACCTG
Found at i:3178040 original size:16 final size:16
Alignment explanation
Indices: 3177953--3178031 Score: 77
Period size: 16 Copynumber: 4.9 Consensus size: 16
3177943 AAACCAAAAT
3177953 TAACCCGAACCGAAAG
1 TAACCCGAACCGAAAG
*
3177969 TAACCTGAACCGAAAG
1 TAACCCGAACCGAAAG
* * * **
3177985 AAACTCGAATCGAATTT
1 TAACCCGAACCGAA-AG
* *
3178002 TAACTCGATCCGAAAG
1 TAACCCGAACCGAAAG
3178018 TAACCCGAACCGAA
1 TAACCCGAACCGAA
3178032 TTTAACCCGT
Statistics
Matches: 48, Mismatches: 14, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
16 37 0.77
17 11 0.23
ACGTcount: A:0.42, C:0.27, G:0.16, T:0.15
Consensus pattern (16 bp):
TAACCCGAACCGAAAG
Found at i:3181071 original size:336 final size:330
Alignment explanation
Indices: 3180557--3181545 Score: 1200
Period size: 336 Copynumber: 3.0 Consensus size: 330
3180547 ATCGAAAGCA
* * * *
3180557 TGAGGTGGAGAGTGATAATCCCAAGGCTCAGCTAGAAAATCAGAATCAAGAGGATGACATACATA
1 TGAGGTGGAGAGTGATGA-CCCAAGGCTCAGCTAGAGAATGAGAATCAAGAGGATGACATGCATA
* * * * * *
3180622 AGAAAGTTAAAGATGTAGGGGATTATGGTGGTGGCGAGAATGAGGAGTTTGGATTGAAGTTCAAA
65 AGAAAGTTGAAGATGTAGTGGATCATGGTGGTGGTGAGAATGAGGAGTGTGG-TTGAAGTTTAAA
* * *
3180687 GATGATATTAGTGATTGTGTGGATGCATCTGGTCACGGAGTTATTGAAGAAGGTGACAAGTTGGT
129 GATGATATTAGTGATTGTGTGG-TGCATCTGGTCATGGAGTGATTGAAGAA-GTGACATG-TGGT
* * *
3180752 GGATGATAAGGCTTCGGTAACAAAGGTACCACTGATCGGAGAACATTTGCAGAGCTGGAAACAAG
191 GGATGATAAGGCTTCGGTAACAGAGGTACCACTGATCGGAGAACATTTGCAAAGCTCGAAACAAG
*
3180817 AAGAGAATGCTAAATCCCACATGCAAACCGAGAGTCGAGATCAAACGCTTGAAGTGGAGAA-GGG
256 AAGAGAATGCTAAATCCAACATGCAAACCGAGAGTCGAGATCAAA-GCTTGAAGTGGAGAATGGG
**
3180881 AAGTCCAAAGGT
320 -AGTCCAAACCT
* *
3180893 TGAGGCGGAGAGTGATGACCCTAAGGCTCAGCTAGAGAATGAGAATCAAGAGGATGGCATGCATA
1 TGAGGTGGAGAGTGATGACCC-AAGGCTCAGCTAGAGAATGAGAATCAAGAGGATGACATGCATA
* * *
3180958 ATAAAGTTGAAGATGTAGTGGATCATAGTGGTGGTGAGAATGAGGAGTGTGAGTTGACGTTTAAA
65 AGAAAGTTGAAGATGTAGTGGATCATGGTGGTGGTGAGAATGAGGAGTGTG-GTTGAAGTTTAAA
* * * *
3181023 GATGATATTAATAATCGTGTGGCTGCATCTGGCCATGGAGTGATTGAAGAAAGTGACATGGTGGT
129 GATGATATTAGTGATTGTGTGG-TGCATCTGGTCATGGAGTGATTGAAG-AAGTGACAT-GTGGT
* * * * *
3181088 GGATGATAAAGCTACGGTAACAGAGGGACCACTGATAGGAGAACATTTGCATAGCTCGAAACAAG
191 GGATGATAAGGCTTCGGTAACAGAGGTACCACTGATCGGAGAACATTTGCAAAGCTCGAAACAAG
* * * * *
3181153 AAGAGAATGCGAATTCCAACATGCAAACGGAGAGTCGAGATCAAGAGTTTGAAGAGGAGAATGGG
256 AAGAGAATGCTAAATCCAACATGCAAACCGAGAGTCGAGATCAA-AGCTTGAAGTGGAGAATGGG
3181218 AGTCCAAACCT
320 AGTCCAAACCT
* * * *
3181229 TGAAGTGGAGAGTGATGATCCAAAGGCTCAGCAAGAGATTGAGAATCAAGAGGATGACATGCATA
1 TGAGGTGGAGAGTGATGA-CCCAAGGCTCAGCTAGAGAATGAGAATCAAGAGGATGACATGCATA
* *
3181294 AGAAAGTTGAAGATGTAGTGGATCATGGTGGTGGTGAGATTGAGAATGGGTGTGGGTTGAAGTTT
65 AGAAAGTTGAAGATGTAGTGGATCATGGTGGTGGTGAGAATGAG---GAGTGT-GGTTGAAGTTT
* * * *
3181359 AAGGATGATATTAGTGATTGTGTGAGTGCATCTGGTCATGAAGTGGTTGAAGAA---A-TTGTGG
126 AAAGATGATATTAGTGATTGTGTG-GTGCATCTGGTCATGGAGTGATTGAAGAAGTGACATGTGG
* * * * *
3181420 TGGAAGATAAGCCCGT-GGTAGCAGAGGTACCACTGATCAGAGAACATTTGCAAAGCTCGAAACA
190 TGGATGATAAG-GCTTCGGTAACAGAGGTACCACTGATCGGAGAACATTTGCAAAGCTCGAAACA
* * * * * *
3181484 AGAGGAGAATG-TGAAGTCCAACATGCAAACTGAGAGTCAAGTTCGAAATCTTGAAGTGGAGA
254 AGAAGAGAATGCT-AAATCCAACATGCAAACCGAGAGTCGAGATC-AAAGCTTGAAGTGGAGA
3181546 GTGATGATCC
Statistics
Matches: 562, Mismatches: 76, Indels: 33
0.84 0.11 0.05
Matches are distributed among these distances:
333 105 0.19
334 4 0.01
335 4 0.01
336 378 0.67
337 10 0.02
338 2 0.00
339 57 0.10
340 2 0.00
ACGTcount: A:0.34, C:0.12, G:0.32, T:0.22
Consensus pattern (330 bp):
TGAGGTGGAGAGTGATGACCCAAGGCTCAGCTAGAGAATGAGAATCAAGAGGATGACATGCATAA
GAAAGTTGAAGATGTAGTGGATCATGGTGGTGGTGAGAATGAGGAGTGTGGTTGAAGTTTAAAGA
TGATATTAGTGATTGTGTGGTGCATCTGGTCATGGAGTGATTGAAGAAGTGACATGTGGTGGATG
ATAAGGCTTCGGTAACAGAGGTACCACTGATCGGAGAACATTTGCAAAGCTCGAAACAAGAAGAG
AATGCTAAATCCAACATGCAAACCGAGAGTCGAGATCAAAGCTTGAAGTGGAGAATGGGAGTCCA
AACCT
Found at i:3181844 original size:309 final size:305
Alignment explanation
Indices: 3181227--3181854 Score: 836
Period size: 309 Copynumber: 2.0 Consensus size: 305
3181217 GAGTCCAAAC
* * *
3181227 CTTGAAGTGGAGAGTGATGATCCAAAGGCTCAGCAAGAGATTGAGAATCAAGAGGATGACATGCA
1 CTTGAAGTGGAGAGTGATGATCCTAAGGCTCAGCTAGAGAATGAGAATCAAGAGGATGACATGCA
* * *
3181292 TAAGAAAGTTGAAGATGTAGTGGATCATGGTGGTGGTGAGATTGAGAATGGGTGTGGGTTGAAGT
66 TAAGAAAGTTAAAGATGTAGCGGATCATGGTGGTGGTGAGA---ATAA-GGGTGTGGGTTGAAGT
* * *
3181357 TTAAGGATGATATTAGTGATTGTGTGAG-TGCATCTGGTCATGAAGTGGTTGAAGAAAT----TG
127 TTAAAGATGATATTAGTGATTGTGTG-GCTGCATCTGGTCATGGAGTGATTGAAGAAATGACATG
* * *
3181417 TGGTGGAAGATAAGCCCGTGGTAGCAGAGGTACCACTGATCAGAGAACATTTGCAAAGCTCGAAA
191 TGGTGGAAGATAAGCCC-TGGTAACAGAGGTACCACTGATCGGAGAACATTTGCAGAGCTCGAAA
* * ** *
3181482 CAAGAGGAGAATGTGAAGTCCAACATGCAAACT-GAGAGTCAAGTTCGAAAT
255 CAAGAAGAGAATGTGAATTCCAACACACAAA-TGGAGAGTCAAGATCGAAAT
* * *
3181533 CTTGAAGTGGAGAGTGATGATCCTAAGACTCGGCTAGAGAATGAGAATCAAGAGGATGACATCCA
1 CTTGAAGTGGAGAGTGATGATCCTAAGGCTCAGCTAGAGAATGAGAATCAAGAGGATGACATGCA
* * * * *
3181598 TAAGAAAGTTAAAGATGTTGGGGGTCACGGTGGTGGTGAGAATAAGGAGTGTGAGTTGAAGTTTA
66 TAAGAAAGTTAAAGATGTAGCGGATCATGGTGGTGGTGAGAATAAGG-GTGTGGGTTGAAGTTTA
*
3181663 AAGATGATATCAGTGATTGTGTGGCTGCATCTGGTCATGGAGTGATTGAAGAAACTGACATGTTG
130 AAGATGATATTAGTGATTGTGTGGCTGCATCTGGTCATGGAGTGATTGAAGAAA-TGACATG-TG
* * * *
3181728 GTGGACGATAAGGCCTCGGTAACAGAGGTACCTCTGATCGGAGAACATTCGCAGAGCTCGAAACA
193 GTGGAAGATAAGCCCT-GGTAACAGAGGTACCACTGATCGGAGAACATTTGCAGAGCTCGAAACA
*
3181793 AGAAGAGAATGTGAATTCCAACACACAAATGGAGAATCAAGATCGAAAT
257 AGAAGAGAATGTGAATTCCAACACACAAATGGAGAGTCAAGATCGAAAT
3181842 CTTGAAGTGGAGA
1 CTTGAAGTGGAGA
3181855 ATGGGAGTTC
Statistics
Matches: 282, Mismatches: 30, Indels: 17
0.86 0.09 0.05
Matches are distributed among these distances:
302 3 0.01
303 67 0.24
304 1 0.00
306 95 0.34
308 4 0.01
309 112 0.40
ACGTcount: A:0.34, C:0.12, G:0.31, T:0.23
Consensus pattern (305 bp):
CTTGAAGTGGAGAGTGATGATCCTAAGGCTCAGCTAGAGAATGAGAATCAAGAGGATGACATGCA
TAAGAAAGTTAAAGATGTAGCGGATCATGGTGGTGGTGAGAATAAGGGTGTGGGTTGAAGTTTAA
AGATGATATTAGTGATTGTGTGGCTGCATCTGGTCATGGAGTGATTGAAGAAATGACATGTGGTG
GAAGATAAGCCCTGGTAACAGAGGTACCACTGATCGGAGAACATTTGCAGAGCTCGAAACAAGAA
GAGAATGTGAATTCCAACACACAAATGGAGAGTCAAGATCGAAAT
Found at i:3182103 original size:336 final size:333
Alignment explanation
Indices: 3181541--3182176 Score: 864
Period size: 336 Copynumber: 1.9 Consensus size: 333
3181531 ATCTTGAAGT
* *
3181541 GGAGAGTGATGATCCTAAGACTCGGCTAGAGAATGAGAATCAAGAGGATGACATCCATAAGAAAG
1 GGAGAGTGATGATCCTAAGACTCAGCTAGAGAATGAGAATCAAGAGGATGACATCCACAAGAAAG
* * * ** * * *
3181606 TTAAAGATGTTGGGGGTCACGGTGGTGGTGAGAATAAGGAGTGTGAGTTGAAGTTTAAAGATGAT
66 TGAAAGATGTAGCGGACCACGGCGATAGTGAGAATAAGGAGTGTGAGTTGAAGTTTAAAGATGAT
* * * *
3181671 ATCAGTGATTGTGTGGCTGCATCTGGTCATGGAGTGATTGAAGAAACTGACATGTTGGTGGACGA
131 ATCAGTGATTGTGAGGCTGCATCTGCTCATGGAGTGATTGAAGAAACTGACATGGTGGTGGAAGA
* * * * *
3181736 TAAGGCCTCGGTAACAGAGGTACCTCTGATCGGAGAACATTCGCAGAGCTCGAAACAAGAAGAGA
196 TAAGCCCTCGGTAACAGAGGTACCACTGATCGGAGAACATTCGCAGAGATCAAAACAAGAAGAAA
**
3181801 ATGTGAATTCCAACACACAAATGGAGAATCAAGATCGAAATCTTGAAGTGGAGAATGGGAGTTCA
261 ATACGAATTCCAACACACAAATGGAGAATCAAGATCGAAATCTTGAAGTGGAGAATGGGAGTTCA
3181866 AAGCCTGA
326 AAGCCTGA
* * * *
3181874 GGAGAGTGATGATCCTAAGGCTCAGCTAGGGAATGATAATCAAGAGGATGACATGCACAAGAAAG
1 GGAGAGTGATGATCCTAAGACTCAGCTAGAGAATGAGAATCAAGAGGATGACATCCACAAGAAAG
* *
3181939 TGGAAA-ATGTAGCGGACCATGGCGATAGTGAGAATGAGAAGTG-GTGTGGGTTGAAGTTTAAAG
66 T-GAAAGATGTAGCGGACCACGGCGATAGTGAGAAT---AAG-GAGTGTGAGTTGAAGTTTAAAG
* *
3182002 ATGATATTAGTGATTGTGAGGCTGCATCTGCTCATGGAGT-AGTTGAAGAAAGTGACATGGTGGT
126 ATGATATCAGTGATTGTGAGGCTGCATCTGCTCATGGAGTGA-TTGAAGAAACTGACATGGTGGT
* *
3182066 GGAAGATAAGCCCTTGGTAACAGAGGTACCACTGATCGGAGAACATTTGCAGAGATCAAAACAAG
190 GGAAGATAAGCCCTCGGTAACAGAGGTACCACTGATCGGAGAACATTCGCAGAGATCAAAACAAG
* * * ** *
3182131 AAGAAAATACGAATTCTAGCACCCAAATGGAGTGTCAAGATGGAAA
255 AAGAAAATACGAATTCCAACACACAAATGGAGAATCAAGATCGAAA
3182177 GTTTCCGGTG
Statistics
Matches: 260, Mismatches: 37, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
333 81 0.31
334 3 0.01
335 1 0.00
336 174 0.67
337 1 0.00
ACGTcount: A:0.35, C:0.13, G:0.31, T:0.22
Consensus pattern (333 bp):
GGAGAGTGATGATCCTAAGACTCAGCTAGAGAATGAGAATCAAGAGGATGACATCCACAAGAAAG
TGAAAGATGTAGCGGACCACGGCGATAGTGAGAATAAGGAGTGTGAGTTGAAGTTTAAAGATGAT
ATCAGTGATTGTGAGGCTGCATCTGCTCATGGAGTGATTGAAGAAACTGACATGGTGGTGGAAGA
TAAGCCCTCGGTAACAGAGGTACCACTGATCGGAGAACATTCGCAGAGATCAAAACAAGAAGAAA
ATACGAATTCCAACACACAAATGGAGAATCAAGATCGAAATCTTGAAGTGGAGAATGGGAGTTCA
AAGCCTGA
Found at i:3189186 original size:29 final size:29
Alignment explanation
Indices: 3189113--3189200 Score: 117
Period size: 29 Copynumber: 3.1 Consensus size: 29
3189103 AACAGGATGA
3189113 GGATATAATCTCATGCAAAATCAGGAC-G
1 GGATATAATCTCATGCAAAATCAGGACGG
*
3189141 AGATATAATCAT-ATGCAAAATCAGGACGG
1 GGATATAATC-TCATGCAAAATCAGGACGG
* * *
3189170 GGATATAATCTCGTGCAGAATCAAGACGG
1 GGATATAATCTCATGCAAAATCAGGACGG
3189199 GG
1 GG
3189201 TTAATCCTAT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
28 25 0.48
29 27 0.52
ACGTcount: A:0.39, C:0.16, G:0.25, T:0.20
Consensus pattern (29 bp):
GGATATAATCTCATGCAAAATCAGGACGG
Found at i:3194676 original size:2 final size:2
Alignment explanation
Indices: 3194671--3194695 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3194661 AAATTTAGTT
3194671 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
3194696 TCAAATGTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3204331 original size:2 final size:2
Alignment explanation
Indices: 3204324--3204366 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
3204314 CTTATACAGA
3204324 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
3204366 A
1 A
3204367 TGTCTTCTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3207675 original size:52 final size:52
Alignment explanation
Indices: 3207589--3207695 Score: 144
Period size: 52 Copynumber: 2.1 Consensus size: 52
3207579 TTTTTATAGG
* *** * *
3207589 TGAGGTGTTTTGTTCTTTGTAATTTGGTTTGTACAGGGAGGTTCTTTGTTGGA
1 TGAGGTGTTTTGTTCTTTGTAAATTAACTTGTACAGAGAGATTCTTT-TTGGA
3207642 TGAGGTGTTTTGTT-TTTGTAAATTAACTTGTACAGAGAGATTCTTTTTGGA
1 TGAGGTGTTTTGTTCTTTGTAAATTAACTTGTACAGAGAGATTCTTTTTGGA
3207693 TGA
1 TGA
3207696 ATAAAATTCA
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
51 8 0.17
52 26 0.54
53 14 0.29
ACGTcount: A:0.19, C:0.06, G:0.28, T:0.48
Consensus pattern (52 bp):
TGAGGTGTTTTGTTCTTTGTAAATTAACTTGTACAGAGAGATTCTTTTTGGA
Found at i:3209926 original size:52 final size:52
Alignment explanation
Indices: 3209848--3209953 Score: 203
Period size: 52 Copynumber: 2.0 Consensus size: 52
3209838 AACTTGTTCT
3209848 AAAGCCTTGGTAAGTTATTTAGGGTCTTAATAGAGCATAGAAATGTCTTTTA
1 AAAGCCTTGGTAAGTTATTTAGGGTCTTAATAGAGCATAGAAATGTCTTTTA
*
3209900 AAAGCCTTTGTAAGTTATTTAGGGTCTTAATAGAGCATAGAAATGTCTTTTA
1 AAAGCCTTGGTAAGTTATTTAGGGTCTTAATAGAGCATAGAAATGTCTTTTA
3209952 AA
1 AA
3209954 CCTCTAAAAC
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.37
Consensus pattern (52 bp):
AAAGCCTTGGTAAGTTATTTAGGGTCTTAATAGAGCATAGAAATGTCTTTTA
Found at i:3211259 original size:13 final size:13
Alignment explanation
Indices: 3211227--3211266 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
3211217 AAATTATAAC
*
3211227 TAATAATATTAAA
1 TAATTATATTAAA
3211240 T-ATTATATTAAA
1 TAATTATATTAAA
3211252 TAATTATATTAAA
1 TAATTATATTAAA
3211265 TA
1 TA
3211267 TATTTATGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 11 0.44
13 14 0.56
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
TAATTATATTAAA
Found at i:3213146 original size:33 final size:34
Alignment explanation
Indices: 3213085--3213184 Score: 139
Period size: 33 Copynumber: 3.0 Consensus size: 34
3213075 AAATTTAATG
*
3213085 TTAAATTTCGAATACTATAATTTATATTTTAAAT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
* * * *
3213119 TTAAATTT-GAATAATATTATTTTTATTTTTATT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
*
3213152 TTAAATTTCGAATAATATAATTTGTATTTTAAA
1 TTAAATTTCGAATAATATAATTTATATTTTAAA
3213185 AACATTTATC
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
33 28 0.50
34 28 0.50
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (34 bp):
TTAAATTTCGAATAATATAATTTATATTTTAAAT
Found at i:3213792 original size:21 final size:21
Alignment explanation
Indices: 3213704--3213797 Score: 129
Period size: 21 Copynumber: 4.5 Consensus size: 21
3213694 TATGGTATAA
*
3213704 AACCCTGCGGGCTAGGCATGT
1 AACCCTGCGGGCTAGGAATGT
*
3213725 AA-CCTGGCGGGCTAGGCATGT
1 AACCCT-GCGGGCTAGGAATGT
3213746 AA-CCTGGCGGGCTAGGAATGT
1 AACCCT-GCGGGCTAGGAATGT
*
3213767 AACCCTGCGGGCTCGGAATGT
1 AACCCTGCGGGCTAGGAATGT
3213788 AACCCTGCGG
1 AACCCTGCGG
3213798 AGATGGCATA
Statistics
Matches: 69, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
20 3 0.04
21 63 0.91
22 3 0.04
ACGTcount: A:0.20, C:0.27, G:0.35, T:0.18
Consensus pattern (21 bp):
AACCCTGCGGGCTAGGAATGT
Found at i:3213827 original size:21 final size:21
Alignment explanation
Indices: 3213801--3213848 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
3213791 CCTGCGGAGA
*
3213801 TGGCATATAAACTGGTGGGCT
1 TGGCATATAAACTGGAGGGCT
* *
3213822 TGGCATATGAAGTGGAGGGCT
1 TGGCATATAAACTGGAGGGCT
*
3213843 GGGCAT
1 TGGCAT
3213849 GTACCCCTGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.12, G:0.40, T:0.25
Consensus pattern (21 bp):
TGGCATATAAACTGGAGGGCT
Found at i:3215614 original size:35 final size:32
Alignment explanation
Indices: 3215573--3215657 Score: 98
Period size: 32 Copynumber: 2.6 Consensus size: 32
3215563 AATTCTAAAT
3215573 AAATAATAATTATATAAATATTATTTTAATAAAAA
1 AAATAATAATTATATAAATA-TA--TTAATAAAAA
* * *
3215608 AAATAATATTTACATAAATATATTAATATAAA
1 AAATAATAATTATATAAATATATTAATAAAAA
* *
3215640 AAATAATAACTATTTAAA
1 AAATAATAATTATATAAA
3215658 AAAATACTAA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
32 23 0.53
34 2 0.05
35 18 0.42
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (32 bp):
AAATAATAATTATATAAATATATTAATAAAAA
Found at i:3215634 original size:32 final size:34
Alignment explanation
Indices: 3215573--3215648 Score: 102
Period size: 35 Copynumber: 2.3 Consensus size: 34
3215563 AATTCTAAAT
*
3215573 AAATAATAATTATATAAATATTATTTTAATAAAAA
1 AAATAATAATTACATAAATATTA-TTTAATAAAAA
* *
3215608 AAATAATATTTACATAAATA-TA-TTAATATAAA
1 AAATAATAATTACATAAATATTATTTAATAAAAA
3215640 AAATAATAA
1 AAATAATAA
3215649 CTATTTAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
32 17 0.46
34 2 0.05
35 18 0.49
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (34 bp):
AAATAATAATTACATAAATATTATTTAATAAAAA
Found at i:3215673 original size:34 final size:34
Alignment explanation
Indices: 3215601--3215680 Score: 92
Period size: 34 Copynumber: 2.3 Consensus size: 34
3215591 TATTATTTTA
* * *
3215601 ATAAAAAAAATAATATTTACATAAATATATTAAT
1 ATAAAAAAAATAATATTTACATAAAAATACTAAC
3215635 ATAAAAAATAATAACTATTTA-A-AAAAATACTAAC
1 ATAAAAAA-AATAA-TATTTACATAAAAATACTAAC
3215669 ATAAAAATAAAT
1 ATAAAAA-AAAT
3215681 TTCTTACCAC
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
34 27 0.68
35 7 0.17
36 6 0.15
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (34 bp):
ATAAAAAAAATAATATTTACATAAAAATACTAAC
Found at i:3217089 original size:15 final size:17
Alignment explanation
Indices: 3217058--3217089 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
3217048 GGCCATGGAA
3217058 GGAGGGAGAAAGTGAGG
1 GGAGGGAGAAAGTGAGG
3217075 GGAGGGA-AAAG-GAGG
1 GGAGGGAGAAAGTGAGG
3217090 AGCACACGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.27
16 4 0.27
17 7 0.47
ACGTcount: A:0.38, C:0.00, G:0.59, T:0.03
Consensus pattern (17 bp):
GGAGGGAGAAAGTGAGG
Found at i:3217407 original size:13 final size:12
Alignment explanation
Indices: 3217358--3217438 Score: 56
Period size: 12 Copynumber: 6.4 Consensus size: 12
3217348 ACAGTTTTAC
3217358 ATTATTTTTGAAAA
1 ATTA-TTTT-AAAA
*
3217372 ATGA-TTTAAAA
1 ATTATTTTAAAA
* *
3217383 AATATTATAAAA
1 ATTATTTTAAAA
*
3217395 ATTATTTTCAAA
1 ATTATTTTAAAA
*
3217407 AGTATTTTTGAAAA
1 ATTA-TTTT-AAAA
*
3217421 ATATAGTTTAAAA
1 AT-TATTTTAAAA
3217434 ATTAT
1 ATTAT
3217439 AGGTGAGGTG
Statistics
Matches: 51, Mismatches: 12, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
11 6 0.12
12 23 0.45
13 10 0.20
14 10 0.20
15 2 0.04
ACGTcount: A:0.49, C:0.01, G:0.06, T:0.43
Consensus pattern (12 bp):
ATTATTTTAAAA
Found at i:3217528 original size:52 final size:52
Alignment explanation
Indices: 3217442--3217548 Score: 144
Period size: 52 Copynumber: 2.1 Consensus size: 52
3217432 AAATTATAGG
* *** * *
3217442 TGAGGTGTTTTGTTCTTTGTAATTTGGTTTGTACAGGGAGGTTCTTTGTTGGA
1 TGAGGTGTTTTGTTCTTTGTAAATTAACTTGTACAGAGAGATTCTTT-TTGGA
3217495 TGAGGTGTTTTGTT-TTTGTAAATTAACTTGTACAGAGAGATTCTTTTTGGA
1 TGAGGTGTTTTGTTCTTTGTAAATTAACTTGTACAGAGAGATTCTTTTTGGA
3217546 TGA
1 TGA
3217549 ATAAAATTCA
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
51 8 0.17
52 26 0.54
53 14 0.29
ACGTcount: A:0.19, C:0.06, G:0.28, T:0.48
Consensus pattern (52 bp):
TGAGGTGTTTTGTTCTTTGTAAATTAACTTGTACAGAGAGATTCTTTTTGGA
Found at i:3219776 original size:52 final size:52
Alignment explanation
Indices: 3219698--3219803 Score: 203
Period size: 52 Copynumber: 2.0 Consensus size: 52
3219688 AACTTGTTCT
3219698 AAAGCCTTGGTAAGTTATTTAGGGTCTTAATAGAGCATAGAAATGTCTTTTA
1 AAAGCCTTGGTAAGTTATTTAGGGTCTTAATAGAGCATAGAAATGTCTTTTA
*
3219750 AAAGCCTTTGTAAGTTATTTAGGGTCTTAATAGAGCATAGAAATGTCTTTTA
1 AAAGCCTTGGTAAGTTATTTAGGGTCTTAATAGAGCATAGAAATGTCTTTTA
3219802 AA
1 AA
3219804 CCTCTAAAAC
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.37
Consensus pattern (52 bp):
AAAGCCTTGGTAAGTTATTTAGGGTCTTAATAGAGCATAGAAATGTCTTTTA
Found at i:3223041 original size:15 final size:17
Alignment explanation
Indices: 3223010--3223041 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
3223000 GGCCATGGAA
3223010 GGAGGGAGAAAGTGAGG
1 GGAGGGAGAAAGTGAGG
3223027 GGAGGGA-AAAG-GAGG
1 GGAGGGAGAAAGTGAGG
3223042 AGCACACGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.27
16 4 0.27
17 7 0.47
ACGTcount: A:0.38, C:0.00, G:0.59, T:0.03
Consensus pattern (17 bp):
GGAGGGAGAAAGTGAGG
Found at i:3225106 original size:18 final size:18
Alignment explanation
Indices: 3225083--3225117 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
3225073 ACTGAAAATT
3225083 TGTCCCGAATGACCACTA
1 TGTCCCGAATGACCACTA
3225101 TGTCCCGAATGACCACT
1 TGTCCCGAATGACCACT
3225118 CCTTAAGAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.26, C:0.34, G:0.17, T:0.23
Consensus pattern (18 bp):
TGTCCCGAATGACCACTA
Found at i:3226036 original size:21 final size:23
Alignment explanation
Indices: 3226010--3226063 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 23
3226000 AAAGTTCTCG
*
3226010 GGTATCGATACCCTCCA-CATA-
1 GGTATCGATACCATCCACCATAT
*
3226031 GGTATCGATA-CATCTACCATAT
1 GGTATCGATACCATCCACCATAT
3226053 GGTATCGATAC
1 GGTATCGATAC
3226064 TGTTCATACA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 4 0.14
21 14 0.50
22 10 0.36
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (23 bp):
GGTATCGATACCATCCACCATAT
Found at i:3229905 original size:20 final size:20
Alignment explanation
Indices: 3229880--3229917 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
3229870 CACATGTTAA
3229880 AGAATGCATCGATACACTAT
1 AGAATGCATCGATACACTAT
* *
3229900 AGAATGTATCGATGCACT
1 AGAATGCATCGATACACT
3229918 TCAAGGGGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.26
Consensus pattern (20 bp):
AGAATGCATCGATACACTAT
Found at i:3230680 original size:23 final size:24
Alignment explanation
Indices: 3230649--3230698 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
3230639 CAGGACATAC
*
3230649 AGTGATCCTTCGGGAT-ATTTCAT
1 AGTGATCCTTCCGGATAATTTCAT
*
3230672 AGTGGTCCTTCCGGATAAATTTCAT
1 AGTGATCCTTCCGGAT-AATTTCAT
3230697 AG
1 AG
3230699 CCCCTAGTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 14 0.61
25 9 0.39
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (24 bp):
AGTGATCCTTCCGGATAATTTCAT
Found at i:3233696 original size:24 final size:20
Alignment explanation
Indices: 3233669--3233726 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 20
3233659 GCATGGGTAG
3233669 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCAC-TG-T--AGAA
*
3233693 TGCATCGATACACTGTAGAA
1 TGCATCGATGCACTGTAGAA
*
3233713 TGTATCGATGCACT
1 TGCATCGATGCACT
3233727 TCAAGGGGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 16 0.52
22 1 0.03
23 2 0.06
24 12 0.39
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.28
Consensus pattern (20 bp):
TGCATCGATGCACTGTAGAA
Found at i:3236174 original size:21 final size:23
Alignment explanation
Indices: 3236150--3236195 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
3236140 ACCCTCAGGG
3236150 TACCCTCCAC-ATA-GGTATCGA
1 TACCCTCCACTATAGGGTATCGA
*
3236171 TA-CCTCTACTATAGGGTATCGA
1 TACCCTCCACTATAGGGTATCGA
3236193 TAC
1 TAC
3236196 TGTTCATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
20 6 0.29
21 5 0.24
22 10 0.48
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.28
Consensus pattern (23 bp):
TACCCTCCACTATAGGGTATCGA
Found at i:3236610 original size:14 final size:14
Alignment explanation
Indices: 3236591--3236622 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
3236581 AATTCCCTTA
3236591 TTAAATCTCTCTTC
1 TTAAATCTCTCTTC
*
3236605 TTAAATTTCTCTTC
1 TTAAATCTCTCTTC
3236619 TTAA
1 TTAA
3236623 TGTTTTAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.25, C:0.22, G:0.00, T:0.53
Consensus pattern (14 bp):
TTAAATCTCTCTTC
Found at i:3238420 original size:22 final size:22
Alignment explanation
Indices: 3238395--3238438 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
3238385 TTCAAGAATG
*
3238395 TTTTAAATTTTAAT-ATATATTA
1 TTTTAAA-TATAATAATATATTA
*
3238417 TTTTCAATATAATAATATATTA
1 TTTTAAATATAATAATATATTA
3238439 AATTAATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (22 bp):
TTTTAAATATAATAATATATTA
Found at i:3240910 original size:26 final size:26
Alignment explanation
Indices: 3240874--3240948 Score: 141
Period size: 26 Copynumber: 2.9 Consensus size: 26
3240864 ACCAACTTGG
*
3240874 TAGCTGGTTGAATTCACGCGCCATGA
1 TAGCTGGTTGAACTCACGCGCCATGA
3240900 TAGCTGGTTGAACTCACGCGCCATGA
1 TAGCTGGTTGAACTCACGCGCCATGA
3240926 TAGCTGGTTGAACTCACGCGCCA
1 TAGCTGGTTGAACTCACGCGCCA
3240949 ACTCATTCTC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 48 1.00
ACGTcount: A:0.23, C:0.27, G:0.27, T:0.24
Consensus pattern (26 bp):
TAGCTGGTTGAACTCACGCGCCATGA
Found at i:3249570 original size:21 final size:21
Alignment explanation
Indices: 3249546--3249598 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
3249536 CTTTCACACT
3249546 TCTTTTGTTTCCTTGGAACAG
1 TCTTTTGTTTCCTTGGAACAG
3249567 TCTTTTGTTTCCTTGGAACAG
1 TCTTTTGTTTCCTTGGAACAG
*
3249588 TCTTCTGTTTC
1 TCTTTTGTTTC
3249599 TTTCCTCCCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.11, C:0.21, G:0.17, T:0.51
Consensus pattern (21 bp):
TCTTTTGTTTCCTTGGAACAG
Found at i:3254721 original size:29 final size:28
Alignment explanation
Indices: 3254682--3254746 Score: 78
Period size: 28 Copynumber: 2.2 Consensus size: 28
3254672 ATTTAATCAT
3254682 ATTTTTGTATTAATTAT-TTTATATTATTTA
1 ATTTTT-TATT-ATTATATTTA-ATTATTTA
* *
3254712 ATTTTTTATTATTTTATTTAATTATTTT
1 ATTTTTTATTATTATATTTAATTATTTA
3254740 ATTTTTT
1 ATTTTTT
3254747 TTACAGTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
28 18 0.56
29 8 0.25
30 6 0.19
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (28 bp):
ATTTTTTATTATTATATTTAATTATTTA
Found at i:3254723 original size:15 final size:14
Alignment explanation
Indices: 3254681--3254746 Score: 62
Period size: 15 Copynumber: 4.6 Consensus size: 14
3254671 AATTTAATCA
*
3254681 TATTTTTGTATTAAT
1 TATTTTT-TATTATT
*
3254696 TATTTTATATTATT
1 TATTTTTTATTATT
3254710 TAATTTTTTATTATT
1 T-ATTTTTTATTATT
* *
3254725 T-TATTTAATTATTT
1 TATTTTTTATTA-TT
3254739 TATTTTTT
1 TATTTTTT
3254747 TTACAGTTAT
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
13 8 0.20
14 10 0.24
15 23 0.56
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.73
Consensus pattern (14 bp):
TATTTTTTATTATT
Found at i:3254728 original size:20 final size:21
Alignment explanation
Indices: 3254691--3254747 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
3254681 TATTTTTGTA
3254691 TTAATTATTTTA-TA--TTAT
1 TTAATTATTTTATTATTTTAT
3254709 TTAATT-TTTTATTATTTTAT
1 TTAATTATTTTATTATTTTAT
*
3254729 TTAATTATTTTATTTTTTT
1 TTAATTATTTTATTATTTT
3254748 TACAGTTATA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
17 5 0.15
18 8 0.24
20 10 0.29
21 11 0.32
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (21 bp):
TTAATTATTTTATTATTTTAT
Found at i:3254756 original size:28 final size:29
Alignment explanation
Indices: 3254682--3254756 Score: 75
Period size: 28 Copynumber: 2.6 Consensus size: 29
3254672 ATTTAATCAT
3254682 ATTTTTGTATTAA-TTATTTTATATTATTTA
1 ATTTTT-TATTAAGTTA-TTTATATTATTTA
** *
3254712 ATTTTTTATTATTTTATTTA-ATTATTTT
1 ATTTTTTATTAAGTTATTTATATTATTTA
3254740 ATTTTTT-TTACAGTTAT
1 ATTTTTTATTA-AGTTAT
3254757 AAATTGGAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
27 3 0.08
28 18 0.46
29 9 0.23
30 9 0.23
ACGTcount: A:0.27, C:0.01, G:0.03, T:0.69
Consensus pattern (29 bp):
ATTTTTTATTAAGTTATTTATATTATTTA
Found at i:3255033 original size:20 final size:21
Alignment explanation
Indices: 3254996--3255047 Score: 79
Period size: 20 Copynumber: 2.5 Consensus size: 21
3254986 TTTATAACTG
*
3254996 TAAAAAAATAAAATAATTAAA
1 TAAAATAATAAAATAATTAAA
3255017 TAAAATAATAAAA-AATTAAA
1 TAAAATAATAAAATAATTAAA
*
3255037 TAATATAATAA
1 TAAAATAATAA
3255048 TTAAATAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (21 bp):
TAAAATAATAAAATAATTAAA
Found at i:3255053 original size:16 final size:15
Alignment explanation
Indices: 3255014--3255055 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
3255004 TAAAATAATT
*
3255014 AAATAAAATAATAAA
1 AAATTAAATAATAAA
3255029 AAATTAAATAATATAA
1 AAATTAAATAATA-AA
*
3255045 TAATTAAATAA
1 AAATTAAATAA
3255056 AATACTAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 12 0.50
16 12 0.50
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
AAATTAAATAATAAA
Found at i:3261995 original size:29 final size:29
Alignment explanation
Indices: 3261945--3262026 Score: 130
Period size: 29 Copynumber: 2.8 Consensus size: 29
3261935 AGGAATAGAG
* *
3261945 AGGTCGCCATGCAG-CCTAGGCGACCTTGT
1 AGGTCGCCATGTAGTCC-CGGCGACCTTGT
3261974 AGGTCGCCATGTAGTCCCGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
3262003 AGGTCGCCATGTAGTCCCGGCGAC
1 AGGTCGCCATGTAGTCCCGGCGAC
3262027 ATTCCCATCG
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
29 48 0.96
30 2 0.04
ACGTcount: A:0.16, C:0.32, G:0.32, T:0.21
Consensus pattern (29 bp):
AGGTCGCCATGTAGTCCCGGCGACCTTGT
Found at i:3262129 original size:27 final size:27
Alignment explanation
Indices: 3262097--3262152 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
3262087 CCTACAGCTC
3262097 CCAATGCATGCATGTGAACCATTTGAG
1 CCAATGCATGCATGTGAACCATTTGAG
3262124 CCAATGCATGCATGTGAACCATTTGAG
1 CCAATGCATGCATGTGAACCATTTGAG
3262151 CC
1 CC
3262153 GTGAATTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (27 bp):
CCAATGCATGCATGTGAACCATTTGAG
Found at i:3262297 original size:23 final size:23
Alignment explanation
Indices: 3262269--3262314 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
3262259 AAAAGAAAGA
3262269 AAGAAAGGGAGAAGAGATTGCAG
1 AAGAAAGGGAGAAGAGATTGCAG
3262292 AAGAAAGGGAGAAGAGATTGCAG
1 AAGAAAGGGAGAAGAGATTGCAG
3262315 CCGAGAAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.48, C:0.04, G:0.39, T:0.09
Consensus pattern (23 bp):
AAGAAAGGGAGAAGAGATTGCAG
Found at i:3262329 original size:25 final size:23
Alignment explanation
Indices: 3262269--3262329 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 23
3262259 AAAAGAAAGA
**
3262269 AAGAAAGGGAGAAGAGATTGCAG
1 AAGAAAGAAAGAAGAGATTGCAG
**
3262292 AAGAAAGGGAGAAGAGATTGCAG
1 AAGAAAGAAAGAAGAGATTGCAG
*
3262315 CCGAGAAAGAAAGAA
1 --AAGAAAGAAAGAA
3262330 AGGGAGAAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
23 23 0.70
25 10 0.30
ACGTcount: A:0.51, C:0.07, G:0.36, T:0.07
Consensus pattern (23 bp):
AAGAAAGAAAGAAGAGATTGCAG
Found at i:3262343 original size:21 final size:21
Alignment explanation
Indices: 3262319--3262371 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
3262309 TTGCAGCCGA
3262319 GAAAGAAAGAAAGGGAGAAAG
1 GAAAGAAAGAAAGGGAGAAAG
3262340 GAAAGAAAGAAAGGGAGAAAG
1 GAAAGAAAGAAAGGGAGAAAG
*
3262361 GAAAGTAAGAA
1 GAAAGAAAGAA
3262372 GAAGAAAGGG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.62, C:0.00, G:0.36, T:0.02
Consensus pattern (21 bp):
GAAAGAAAGAAAGGGAGAAAG
Found at i:3262365 original size:17 final size:16
Alignment explanation
Indices: 3262317--3262348 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
3262307 GATTGCAGCC
3262317 GAGAAAGAAAGAAAGG
1 GAGAAAGAAAGAAAGG
3262333 GAGAAAGGAAAGAAAG
1 GAGAAA-GAAAGAAAG
3262349 AAAGGGAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (16 bp):
GAGAAAGAAAGAAAGG
Found at i:3262551 original size:41 final size:41
Alignment explanation
Indices: 3262506--3262594 Score: 92
Period size: 41 Copynumber: 2.2 Consensus size: 41
3262496 TATATGATTG
* *
3262506 TTAGTTTAAG-TT-ATAGTATACATAAATTAAAAATTATTTAA
1 TTAGTTTAAGTTTGATAGT-TACAT-AATTAAAAAATAATTAA
* * * *
3262547 TTAGTATATGTTTGATAGTTATATAGTTAAAAAATAATTAA
1 TTAGTTTAAGTTTGATAGTTACATAATTAAAAAATAATTAA
3262588 TTAGTTT
1 TTAGTTT
3262595 GTTTTGTTAA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
41 28 0.72
42 6 0.15
43 5 0.13
ACGTcount: A:0.43, C:0.01, G:0.10, T:0.46
Consensus pattern (41 bp):
TTAGTTTAAGTTTGATAGTTACATAATTAAAAAATAATTAA
Found at i:3262626 original size:45 final size:48
Alignment explanation
Indices: 3262575--3262665 Score: 143
Period size: 45 Copynumber: 2.0 Consensus size: 48
3262565 TTATATAGTT
*
3262575 AAAAAATAATTAATTAGTTTGT-TTTGTT-AATAGTT-AGTTATATAA
1 AAAAAATAATTAATTAGTTTGTATTAGTTAAATAGTTAAGTTATATAA
*
3262620 AAAAAATATTTAATTAGTTTGTATTAGTTAAATAGTTAAGTTATAT
1 AAAAAATAATTAATTAGTTTGTATTAGTTAAATAGTTAAGTTATAT
3262666 TTGTTTGTTG
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
45 21 0.51
46 5 0.12
47 7 0.17
48 8 0.20
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (48 bp):
AAAAAATAATTAATTAGTTTGTATTAGTTAAATAGTTAAGTTATATAA
Found at i:3262859 original size:16 final size:16
Alignment explanation
Indices: 3262827--3262873 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
3262817 TTTAAAAAGT
*
3262827 TTAGTTTGTTAGT-TTA
1 TTAGTTTATTA-TATTA
3262843 TTAGTTTATTATATTA
1 TTAGTTTATTATATTA
*
3262859 TAAG-TTATTATATTA
1 TTAGTTTATTATATTA
3262874 AAGTTTAGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 12 0.43
16 16 0.57
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.60
Consensus pattern (16 bp):
TTAGTTTATTATATTA
Found at i:3262868 original size:15 final size:14
Alignment explanation
Indices: 3262848--3262878 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
3262838 GTTTATTAGT
3262848 TTATTATATTATAAG
1 TTATTATATTA-AAG
3262863 TTATTATATTAAAG
1 TTATTATATTAAAG
3262877 TT
1 TT
3262879 TAGTGTTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (14 bp):
TTATTATATTAAAG
Found at i:3265050 original size:17 final size:17
Alignment explanation
Indices: 3265028--3265060 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
3265018 CAATGATTTT
*
3265028 TAGTATCAAATCATTAC
1 TAGTATCAAATAATTAC
3265045 TAGTATCAAATAATTA
1 TAGTATCAAATAATTA
3265061 AATATTTAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.36
Consensus pattern (17 bp):
TAGTATCAAATAATTAC
Found at i:3265077 original size:24 final size:22
Alignment explanation
Indices: 3265045--3265113 Score: 77
Period size: 22 Copynumber: 3.0 Consensus size: 22
3265035 AAATCATTAC
3265045 TAGTATCAAATAATTAAATATT
1 TAGTATCAAATAATTAAATATT
* *
3265067 TAGTAAATCAACTATTTTAAATCA-T
1 TAGT--ATCAAATA-ATTAAAT-ATT
3265092 TAGTATCAAATAATTAAATATT
1 TAGTATCAAATAATTAAATATT
3265114 AACAATAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
21 1 0.03
22 11 0.29
23 7 0.18
24 7 0.18
25 11 0.29
26 1 0.03
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.41
Consensus pattern (22 bp):
TAGTATCAAATAATTAAATATT
Found at i:3265298 original size:11 final size:11
Alignment explanation
Indices: 3265252--3265334 Score: 58
Period size: 11 Copynumber: 6.9 Consensus size: 11
3265242 TTAGTATTCT
3265252 ATAATTATTAGTA
1 ATAATTATTA--A
3265265 ATAATTATTAA
1 ATAATTATTAA
*
3265276 ATCATTAGTATTAA
1 AT-A--ATTATTAA
*
3265290 ATCATTATTATAA
1 ATAATTA-T-TAA
*
3265303 ATAATTACTAA
1 ATAATTATTAA
* *
3265314 ATAATAACTAA
1 ATAATTATTAA
3265325 ATAATTATTA
1 ATAATTATTA
3265335 TAAAATCATT
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
11 27 0.47
12 2 0.04
13 19 0.33
14 9 0.16
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (11 bp):
ATAATTATTAA
Found at i:3265333 original size:35 final size:37
Alignment explanation
Indices: 3265252--3265338 Score: 99
Period size: 38 Copynumber: 2.4 Consensus size: 37
3265242 TTAGTATTCT
* * *
3265252 ATAATTATTAGT-AATAATTATTAAATCATTAGTATTAA
1 ATAATTATTA-TAAATAATTACTAAATCAATAG-ACTAA
*
3265290 ATCATTATTATAAATAATTACTAAAT-AATA-ACTAA
1 ATAATTATTATAAATAATTACTAAATCAATAGACTAA
3265325 ATAATTATTATAAA
1 ATAATTATTATAAA
3265339 ATCATTATTA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
35 17 0.40
37 4 0.09
38 22 0.51
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (37 bp):
ATAATTATTATAAATAATTACTAAATCAATAGACTAA
Found at i:3265345 original size:14 final size:13
Alignment explanation
Indices: 3265322--3265459 Score: 70
Period size: 12 Copynumber: 10.0 Consensus size: 13
3265312 AAATAATAAC
*
3265322 TAAATAATTATTA
1 TAAATCATTATTA
3265335 TAAAATCATTATTA
1 T-AAATCATTATTA
*
3265349 T-AATGATTATTA
1 TAAATCATTATTA
3265361 TCAAATCATTACGAGGTTCA
1 T-AAATCATT---A--TT-A
*
3265381 TCAAATCATTAAATATT
1 T-AAATCATT--AT-TA
3265398 TAAATCATTA-T-
1 TAAATCATTATTA
*
3265409 TAAATCATTTTTA
1 TAAATCATTATTA
*
3265422 T-AATGATTATTA
1 TAAATCATTATTA
3265434 CTAAATCATTATTA
1 -TAAATCATTATTA
*
3265448 T-AATGATTATTA
1 TAAATCATTATTA
3265460 AATCATTGCT
Statistics
Matches: 100, Mismatches: 11, Indels: 29
0.71 0.08 0.21
Matches are distributed among these distances:
11 9 0.09
12 32 0.32
13 4 0.04
14 29 0.29
16 8 0.08
17 3 0.03
18 1 0.01
19 3 0.03
20 11 0.11
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.44
Consensus pattern (13 bp):
TAAATCATTATTA
Found at i:3265359 original size:12 final size:13
Alignment explanation
Indices: 3265268--3265459 Score: 82
Period size: 14 Copynumber: 14.3 Consensus size: 13
3265258 ATTAGTAATA
3265268 ATTATTAAATCATT
1 ATTA-TAAATCATT
*
3265282 AGTATTAAATCATT
1 ATTA-TAAATCATT
3265296 ATTATAAAT-A--
1 ATTATAAATCATT
3265306 ATTACTAAAT-A--
1 ATTA-TAAATCATT
* *
3265317 ATAACTAAATAATT
1 ATTA-TAAATCATT
3265331 ATTATAAAATCATT
1 ATTAT-AAATCATT
*
3265345 ATTAT-AATGATT
1 ATTATAAATCATT
3265357 ATTATCAAATCATT
1 ATTAT-AAATCATT
3265371 ACGAGGTTCATCAAATCATT
1 ---A--TT-AT-AAATCATT
*
3265391 AAATATTTAAATCATT
1 --AT-TATAAATCATT
3265407 A-T-TAAATCATT
1 ATTATAAATCATT
* *
3265418 TTTAT-AATGATT
1 ATTATAAATCATT
3265430 ATTACTAAATCATT
1 ATTA-TAAATCATT
*
3265444 ATTAT-AATGATT
1 ATTATAAATCATT
3265456 ATTA
1 ATTA
3265460 AATCATTGCT
Statistics
Matches: 145, Mismatches: 15, Indels: 38
0.73 0.08 0.19
Matches are distributed among these distances:
10 4 0.03
11 24 0.17
12 34 0.23
13 9 0.06
14 48 0.33
16 8 0.06
17 3 0.02
18 1 0.01
19 3 0.02
20 11 0.08
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.43
Consensus pattern (13 bp):
ATTATAAATCATT
Found at i:3265366 original size:26 final size:26
Alignment explanation
Indices: 3265268--3265459 Score: 88
Period size: 26 Copynumber: 7.7 Consensus size: 26
3265258 ATTAGTAATA
* * *
3265268 ATTATTA-AATCATTAGTATTAAATC
1 ATTATTATAATGATTATTATCAAATC
* *
3265293 ATTATTATAA--ATAATTA-CTAAATA
1 ATTATTATAATGATTATTATC-AAATC
* * * *
3265317 ATAACTA-AATAATTATTATAAAATC
1 ATTATTATAATGATTATTATCAAATC
3265342 ATTATTATAATGATTATTATCAAATC
1 ATTATTATAATGATTATTATCAAATC
** * *
3265368 ---ATTACGA-G-GT-TCATCAAATC
1 ATTATTATAATGATTATTATCAAATC
* * *
3265388 ATTAAATATTTAA--ATCATTATTAAATC
1 ATT--AT-TATAATGATTATTATCAAATC
*
3265415 ATTTTTATAATGATTATTA-CTAAATC
1 ATTATTATAATGATTATTATC-AAATC
3265441 ATTATTATAATGATTATTA
1 ATTATTATAATGATTATTA
3265460 AATCATTGCT
Statistics
Matches: 121, Mismatches: 29, Indels: 33
0.66 0.16 0.18
Matches are distributed among these distances:
20 9 0.07
21 1 0.01
22 1 0.01
23 7 0.06
24 18 0.15
25 25 0.21
26 49 0.40
27 11 0.09
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.43
Consensus pattern (26 bp):
ATTATTATAATGATTATTATCAAATC
Found at i:3265445 original size:23 final size:23
Alignment explanation
Indices: 3265419--3265466 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
3265409 TAAATCATTT
* *
3265419 TTATAATGATTATTACTAAATCA
1 TTATAATAATGATTACTAAATCA
* *
3265442 TTATTATAATGATTATTAAATCA
1 TTATAATAATGATTACTAAATCA
3265465 TT
1 TT
3265467 GCTTGTAGCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.48
Consensus pattern (23 bp):
TTATAATAATGATTACTAAATCA
Found at i:3266900 original size:26 final size:24
Alignment explanation
Indices: 3266842--3266900 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 24
3266832 CTAATAAACC
*
3266842 TAATAATGATTTGATAATTACTAT
1 TAATAATGATTTGATAATTAATAT
*
3266866 TAATCTAATGATTTGATATTTAATGATT
1 TAA--TAATGATTTGATAATTAAT-A-T
3266894 TAATAAT
1 TAATAAT
3266901 AATATGATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
24 3 0.10
26 21 0.72
27 1 0.03
28 4 0.14
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.47
Consensus pattern (24 bp):
TAATAATGATTTGATAATTAATAT
Found at i:3267664 original size:28 final size:30
Alignment explanation
Indices: 3267624--3267686 Score: 103
Period size: 28 Copynumber: 2.2 Consensus size: 30
3267614 ATTTTTTATA
*
3267624 TAATATAATATATAACTTAAACTAATAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
3267654 TAATAT-A-ATATAACTTAAACTAACAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
3267682 TAATA
1 TAATA
3267687 ATTTATACTA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 25 0.78
29 1 0.03
30 6 0.19
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (30 bp):
TAATATAATATATAACTTAAACTAACAAAC
Found at i:3267693 original size:28 final size:28
Alignment explanation
Indices: 3267628--3267693 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
3267618 TTTATATAAT
*
3267628 ATAATATATAACTTAAACTAATAAACTA
1 ATAATATATAACTTAAACTAACAAACTA
3267656 AT-ATAATATAACTTAAACTAACAAACTA
1 ATAAT-ATATAACTTAAACTAACAAACTA
*
3267684 ATAATTTATA
1 ATAATATATA
3267694 CTAACAAACT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 2 0.06
28 30 0.88
29 2 0.06
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (28 bp):
ATAATATATAACTTAAACTAACAAACTA
Found at i:3267696 original size:21 final size:21
Alignment explanation
Indices: 3267663--3267711 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
3267653 CTAATATAAT
3267663 ATAACTTAAACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
* *
3267684 ATAATTTATACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
3267705 ATTAACT
1 A-TAACT
3267712 AGATTTTAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:3268314 original size:81 final size:81
Alignment explanation
Indices: 3268224--3268387 Score: 328
Period size: 81 Copynumber: 2.0 Consensus size: 81
3268214 ACAGCATGCA
3268224 TCCCCTCCCCCATGCATTCCCACGTCCCATGTTGATTGCATGGCGACCTATTCCTTTGCAAAATA
1 TCCCCTCCCCCATGCATTCCCACGTCCCATGTTGATTGCATGGCGACCTATTCCTTTGCAAAATA
3268289 CACACAGGTCGGTCGC
66 CACACAGGTCGGTCGC
3268305 TCCCCTCCCCCATGCATTCCCACGTCCCATGTTGATTGCATGGCGACCTATTCCTTTGCAAAATA
1 TCCCCTCCCCCATGCATTCCCACGTCCCATGTTGATTGCATGGCGACCTATTCCTTTGCAAAATA
3268370 CACACAGGTCGGTCGC
66 CACACAGGTCGGTCGC
3268386 TC
1 TC
3268388 GGATGCCATG
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
81 83 1.00
ACGTcount: A:0.20, C:0.37, G:0.17, T:0.26
Consensus pattern (81 bp):
TCCCCTCCCCCATGCATTCCCACGTCCCATGTTGATTGCATGGCGACCTATTCCTTTGCAAAATA
CACACAGGTCGGTCGC
Found at i:3268426 original size:29 final size:29
Alignment explanation
Indices: 3268394--3268491 Score: 153
Period size: 29 Copynumber: 3.4 Consensus size: 29
3268384 GCTCGGATGC
*
3268394 CATGGCGACCTCCAAGGTCGCCGGGACTA
1 CATGGCGACCTACAAGGTCGCCGGGACTA
3268423 CATGGCGACCTACAAGGTCGCCGGGACTA
1 CATGGCGACCTACAAGGTCGCCGGGACTA
* *
3268452 CATGGCGACCTACAAGGTCGCCTAGG-CTG
1 CATGGCGACCTACAAGGTCGCC-GGGACTA
3268481 CATGGCGACCT
1 CATGGCGACCT
3268492 CTCTATTCCT
Statistics
Matches: 65, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
29 63 0.97
30 2 0.03
ACGTcount: A:0.21, C:0.33, G:0.31, T:0.15
Consensus pattern (29 bp):
CATGGCGACCTACAAGGTCGCCGGGACTA
Found at i:3268567 original size:12 final size:12
Alignment explanation
Indices: 3268538--3268595 Score: 64
Period size: 12 Copynumber: 4.8 Consensus size: 12
3268528 TCGTATATGG
3268538 CTCGTATGTCACC
1 CTCGTATGTCA-C
3268551 CTCGTATGTCAC
1 CTCGTATGTCAC
* **
3268563 CTCGTATAT-GG
1 CTCGTATGTCAC
3268574 CTCGTATGTCAC
1 CTCGTATGTCAC
*
3268586 CCCGTATGTC
1 CTCGTATGTC
3268596 GCCTGGATTG
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
11 8 0.22
12 18 0.49
13 11 0.30
ACGTcount: A:0.16, C:0.33, G:0.19, T:0.33
Consensus pattern (12 bp):
CTCGTATGTCAC
Found at i:3268570 original size:36 final size:35
Alignment explanation
Indices: 3268527--3268595 Score: 129
Period size: 36 Copynumber: 1.9 Consensus size: 35
3268517 GCTCGTATGG
3268527 CTCGTATATGGCTCGTATGTCACCCTCGTATGTCAC
1 CTCGTATATGGCTCGTATGTCACCC-CGTATGTCAC
3268563 CTCGTATATGGCTCGTATGTCACCCCGTATGTC
1 CTCGTATATGGCTCGTATGTCACCCCGTATGTC
3268596 GCCTGGATTG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 8 0.24
36 25 0.76
ACGTcount: A:0.16, C:0.30, G:0.20, T:0.33
Consensus pattern (35 bp):
CTCGTATATGGCTCGTATGTCACCCCGTATGTCAC
Found at i:3271290 original size:7 final size:7
Alignment explanation
Indices: 3271280--3271329 Score: 73
Period size: 7 Copynumber: 7.1 Consensus size: 7
3271270 CAAAAAAAAA
3271280 AAAAATC
1 AAAAATC
3271287 AAAAATC
1 AAAAATC
3271294 AAAAATC
1 AAAAATC
3271301 AAAAATC
1 AAAAATC
*
3271308 AAAAAAC
1 AAAAATC
* *
3271315 AAAATTT
1 AAAAATC
3271322 AAAAATC
1 AAAAATC
3271329 A
1 A
3271330 TTTGAATGAA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.72, C:0.12, G:0.00, T:0.16
Consensus pattern (7 bp):
AAAAATC
Found at i:3271298 original size:21 final size:21
Alignment explanation
Indices: 3271273--3271318 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
3271263 GTTTTTGCAA
*
3271273 AAAAAAAAAAAATCAAAAATC
1 AAAAAAAAAAAATCAAAAAAC
**
3271294 AAAAATCAAAAATCAAAAAAC
1 AAAAAAAAAAAATCAAAAAAC
3271315 AAAA
1 AAAA
3271319 TTTAAAAATC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.80, C:0.11, G:0.00, T:0.09
Consensus pattern (21 bp):
AAAAAAAAAAAATCAAAAAAC
Found at i:3271499 original size:38 final size:38
Alignment explanation
Indices: 3271418--3271499 Score: 119
Period size: 38 Copynumber: 2.2 Consensus size: 38
3271408 GAATTGCAAT
* * *
3271418 AAAACATTCAATTGTAGTTGGCGGTTGGTCGAAAGAAT
1 AAAACATCCAATTGCAGTTGGCGGTTGGTCGAAAGAAA
* *
3271456 GAAACATCCAATTGCAGTTGGCGGTTGGTCGAAGGAAA
1 AAAACATCCAATTGCAGTTGGCGGTTGGTCGAAAGAAA
3271494 AAAACA
1 AAAACA
3271500 AAATTTAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.37, C:0.13, G:0.27, T:0.23
Consensus pattern (38 bp):
AAAACATCCAATTGCAGTTGGCGGTTGGTCGAAAGAAA
Found at i:3276129 original size:157 final size:157
Alignment explanation
Indices: 3275843--3276157 Score: 585
Period size: 157 Copynumber: 2.0 Consensus size: 157
3275833 TTCTTACAAG
*
3275843 TTTGTTGTCATGCAACATACAGAGCTTAAAGGAATGTAAGTAAGCAGACGGCTTGAGTTTAACAT
1 TTTGTTGTCATGCAACATACAGAGCTTAAAGGAATGTAAGTAAGCAGACGGCGTGAGTTTAACAT
*
3275908 CCTTTTGCTATTCAGAGTTTTGATGTTTGGAGATAAAGCTGATAAAATTTCTCAATCTTTTCCTT
66 CCTTTTGCTATTCAGAGTTTTGATGTTTGGAGATAAAACTGATAAAATTTCTCAATCTTTTCCTT
3275973 GTGCTATAAAGGCTATTTCGTTTTCCT
131 GTGCTATAAAGGCTATTTCGTTTTCCT
3276000 TTTGTTGTCATGCAACATACAGAGCTTAAAGGAATGTAAGTAAGCAGACGGCGTGAGTTTAACAT
1 TTTGTTGTCATGCAACATACAGAGCTTAAAGGAATGTAAGTAAGCAGACGGCGTGAGTTTAACAT
* *
3276065 CCTTTTGCTATTCAGAGTTTTGATGTTTGGAGATAAAACTGGTAAAATTTCTCAGTCTTTTCCTT
66 CCTTTTGCTATTCAGAGTTTTGATGTTTGGAGATAAAACTGATAAAATTTCTCAATCTTTTCCTT
*
3276130 GTGCTATCAAGGCTATTTCGTTTTCCT
131 GTGCTATAAAGGCTATTTCGTTTTCCT
3276157 T
1 T
3276158 ACCTTTTAGC
Statistics
Matches: 153, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
157 153 1.00
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.38
Consensus pattern (157 bp):
TTTGTTGTCATGCAACATACAGAGCTTAAAGGAATGTAAGTAAGCAGACGGCGTGAGTTTAACAT
CCTTTTGCTATTCAGAGTTTTGATGTTTGGAGATAAAACTGATAAAATTTCTCAATCTTTTCCTT
GTGCTATAAAGGCTATTTCGTTTTCCT
Found at i:3277230 original size:27 final size:27
Alignment explanation
Indices: 3277200--3277256 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
3277190 TGAATTCAAT
3277200 TCGGATTTTGTAAAGGGTGAAATTAAA
1 TCGGATTTTGTAAAGGGTGAAATTAAA
3277227 TCGGATTTTGTAAAGGGTGAAATTAAA
1 TCGGATTTTGTAAAGGGTGAAATTAAA
3277254 TCG
1 TCG
3277257 AACTTAGATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.35, C:0.05, G:0.26, T:0.33
Consensus pattern (27 bp):
TCGGATTTTGTAAAGGGTGAAATTAAA
Found at i:3280054 original size:16 final size:16
Alignment explanation
Indices: 3280033--3280065 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
3280023 TTGAAATTAC
*
3280033 ACGGAATGCCACTCTT
1 ACGGAATGCCACGCTT
3280049 ACGGAATGCCACGCTT
1 ACGGAATGCCACGCTT
3280065 A
1 A
3280066 TACCTTAATT
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:0.27, C:0.30, G:0.21, T:0.21
Consensus pattern (16 bp):
ACGGAATGCCACGCTT
Found at i:3281617 original size:15 final size:15
Alignment explanation
Indices: 3281597--3281627 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
3281587 GACCCGACAT
3281597 GTTGACCCGTTGACC
1 GTTGACCCGTTGACC
3281612 GTTGACCCGTTGACC
1 GTTGACCCGTTGACC
3281627 G
1 G
3281628 GCGTTGACCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.13, C:0.32, G:0.29, T:0.26
Consensus pattern (15 bp):
GTTGACCCGTTGACC
Done.