Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_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: 12923621
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 22 of 65
Found at i:4304205 original size:35 final size:35
Alignment explanation
Indices: 4304146--4304234 Score: 101
Period size: 35 Copynumber: 2.5 Consensus size: 35
4304136 ATTTGAATCC
4304146 TTGTGTCCACTCATATTGCAACCCAAAGAT-ATGCA
1 TTGTGTCCACTCATATTGCAACCCAAAG-TGATGCA
* *
4304181 TTGTGTCCACTGA-AGTTGCCACCCAAAGTGATGCA
1 TTGTGTCCACTCATA-TTGCAACCCAAAGTGATGCA
* * *
4304216 TTATGTTCTCTCATATTGC
1 TTGTGTCCACTCATATTGC
4304235 TGCCCAATTT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
34 2 0.04
35 42 0.93
36 1 0.02
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.33
Consensus pattern (35 bp):
TTGTGTCCACTCATATTGCAACCCAAAGTGATGCA
Found at i:4312413 original size:18 final size:18
Alignment explanation
Indices: 4312390--4312439 Score: 100
Period size: 18 Copynumber: 2.8 Consensus size: 18
4312380 AAAGTCTATC
4312390 TTTGATTTTGAAAACTGT
1 TTTGATTTTGAAAACTGT
4312408 TTTGATTTTGAAAACTGT
1 TTTGATTTTGAAAACTGT
4312426 TTTGATTTTGAAAA
1 TTTGATTTTGAAAA
4312440 ATAAGTGTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.30, C:0.04, G:0.16, T:0.50
Consensus pattern (18 bp):
TTTGATTTTGAAAACTGT
Found at i:4313793 original size:35 final size:35
Alignment explanation
Indices: 4313740--4313840 Score: 130
Period size: 35 Copynumber: 2.9 Consensus size: 35
4313730 ATGACTTAAA
* *
4313740 AAGGCACATTTTGTTGAAGAGACATGACTTTTGGT
1 AAGGCACATCTTGGTGAAGAGACATGACTTTTGGT
* *
4313775 AAGGCACCTCTTGGTGAAGAGGCATGACTTTTGGT
1 AAGGCACATCTTGGTGAAGAGACATGACTTTTGGT
* * * *
4313810 GAGGCACTTCTTGGTGAAGAGTCGTGACTTT
1 AAGGCACATCTTGGTGAAGAGACATGACTTT
4313841 CCATGGAAGT
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 58 1.00
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.32
Consensus pattern (35 bp):
AAGGCACATCTTGGTGAAGAGACATGACTTTTGGT
Found at i:4313810 original size:20 final size:20
Alignment explanation
Indices: 4313748--4313811 Score: 57
Period size: 20 Copynumber: 3.5 Consensus size: 20
4313738 AAAAGGCACA
* *
4313748 TTTTGTTGAAGAGACATGAC
1 TTTTGGTGAAGAGGCATGAC
*
4313768 TTTTGGT--A-AGGCA--CC
1 TTTTGGTGAAGAGGCATGAC
*
4313783 TCTTGGTGAAGAGGCATGAC
1 TTTTGGTGAAGAGGCATGAC
4313803 TTTTGGTGA
1 TTTTGGTGA
4313812 GGCACTTCTT
Statistics
Matches: 33, Mismatches: 6, Indels: 10
0.67 0.12 0.20
Matches are distributed among these distances:
15 7 0.21
17 5 0.15
18 6 0.18
20 15 0.45
ACGTcount: A:0.23, C:0.12, G:0.30, T:0.34
Consensus pattern (20 bp):
TTTTGGTGAAGAGGCATGAC
Found at i:4317457 original size:6 final size:7
Alignment explanation
Indices: 4317441--4317487 Score: 60
Period size: 7 Copynumber: 6.4 Consensus size: 7
4317431 GGGTACCTTC
4317441 AAAATTA
1 AAAATTA
4317448 AAAATTA
1 AAAATTA
4317455 AAAATGAGTA
1 AAAAT---TA
4317465 AAAATTA
1 AAAATTA
4317472 AAAATTA
1 AAAATTA
4317479 AAAA-TA
1 AAAATTA
4317485 AAA
1 AAA
4317488 GAAAATTGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
6 5 0.14
7 25 0.68
10 7 0.19
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.23
Consensus pattern (7 bp):
AAAATTA
Found at i:4317492 original size:24 final size:24
Alignment explanation
Indices: 4317441--4317494 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
4317431 GGGTACCTTC
**
4317441 AAAATTAAAAATTAAAAATGAGTA
1 AAAATTAAAAATTAAAAATGAAAA
4317465 AAAATTAAAAATTAAAAAT-AAAA
1 AAAATTAAAAATTAAAAATGAAAA
4317488 GAAAATT
1 -AAAATT
4317495 GAAGAATGGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 2 0.07
24 25 0.93
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.24
Consensus pattern (24 bp):
AAAATTAAAAATTAAAAATGAAAA
Found at i:4323133 original size:39 final size:39
Alignment explanation
Indices: 4323036--4323133 Score: 142
Period size: 40 Copynumber: 2.5 Consensus size: 39
4323026 GTATATCGAT
*
4323036 TAAGCACTTCGGTGCATATGGTGGGCACGACCATATGTG
1 TAAGCACTTCGGTGCATATGGTGGGCAAGACCATATGTG
* *
4323075 TAACGCACTTCGGTGCATATGGTGGGCAAGATCTTATGTG
1 TAA-GCACTTCGGTGCATATGGTGGGCAAGACCATATGTG
* *
4323115 TAAGCACTACAGTGCATAT
1 TAAGCACTTCGGTGCATAT
4323134 ATTTGACTCA
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
39 17 0.32
40 36 0.68
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.28
Consensus pattern (39 bp):
TAAGCACTTCGGTGCATATGGTGGGCAAGACCATATGTG
Found at i:4331687 original size:22 final size:23
Alignment explanation
Indices: 4331662--4331705 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
4331652 ATCATTACAT
*
4331662 TGATGTTTATCATGAAT-ATATA
1 TGATATTTATCATGAATGATATA
4331684 TGATATTTATCATGAATGATAT
1 TGATATTTATCATGAATGATAT
4331706 TTCGGATTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.36, C:0.05, G:0.14, T:0.45
Consensus pattern (23 bp):
TGATATTTATCATGAATGATATA
Found at i:4331907 original size:40 final size:39
Alignment explanation
Indices: 4331852--4331965 Score: 174
Period size: 40 Copynumber: 2.8 Consensus size: 39
4331842 TATTGATTAA
*
4331852 GCACTTCGGTGCATATGGTAGGCATGACCTTATGTGTAAT
1 GCACTTCGGTGCATATGGT-GGCACGACCTTATGTGTAAT
*
4331892 GCACTTCGGTGCATATGGTGTGCACGACCTTATATGTAAT
1 GCACTTCGGTGCATATGGTG-GCACGACCTTATGTGTAAT
*
4331932 GCACTTCGGTGCATATGATGGGCACGACCTTATG
1 GCACTTCGGTGCATATGGT-GGCACGACCTTATG
4331966 CTTAAGCACT
Statistics
Matches: 68, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
39 1 0.01
40 66 0.97
41 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (39 bp):
GCACTTCGGTGCATATGGTGGCACGACCTTATGTGTAAT
Found at i:4335608 original size:16 final size:18
Alignment explanation
Indices: 4335582--4335614 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
4335572 CATTTATGAT
4335582 ATATGTGATATT-TTTAA
1 ATATGTGATATTCTTTAA
4335599 ATAT-TGATATTCTTTA
1 ATATGTGATATTCTTTA
4335615 CTTTGATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.33, C:0.03, G:0.09, T:0.55
Consensus pattern (18 bp):
ATATGTGATATTCTTTAA
Found at i:4343346 original size:45 final size:45
Alignment explanation
Indices: 4343282--4343376 Score: 145
Period size: 45 Copynumber: 2.1 Consensus size: 45
4343272 CAGTTTTAGC
*
4343282 CGACAGCAGCCCCGACACGTTGCAGTTCCAGCAGCTTCCAGCAAA
1 CGACAGCAACCCCGACACGTTGCAGTTCCAGCAGCTTCCAGCAAA
** *
4343327 CGACAGCAACCCTTACACGTTGCAGTTCCAGTAGCTTCCAGCAAA
1 CGACAGCAACCCCGACACGTTGCAGTTCCAGCAGCTTCCAGCAAA
*
4343372 TGACA
1 CGACA
4343377 ACAGCCTCTC
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.28, C:0.35, G:0.20, T:0.17
Consensus pattern (45 bp):
CGACAGCAACCCCGACACGTTGCAGTTCCAGCAGCTTCCAGCAAA
Found at i:4343454 original size:15 final size:15
Alignment explanation
Indices: 4343418--4343446 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
4343408 TCCATCAAGC
4343418 ATATTAACCGTACGG
1 ATATTAACCGTACGG
4343433 ATATTAACCGTACG
1 ATATTAACCGTACG
4343447 CGTATTAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (15 bp):
ATATTAACCGTACGG
Found at i:4346626 original size:3 final size:3
Alignment explanation
Indices: 4346618--4346644 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
4346608 AGAGCGATTT
4346618 TGA TGA TGA TGA TGA TGA TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA
4346645 AGAGATGGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
TGA
Found at i:4356211 original size:21 final size:21
Alignment explanation
Indices: 4356185--4356235 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
4356175 GTTTCCTACT
*
4356185 GGCAGCCAAATATCCATAATG
1 GGCAGCCAAATATCCAGAATG
4356206 GGCAGCCAAATATCCAGAATG
1 GGCAGCCAAATATCCAGAATG
*
4356227 GGTAGCCAA
1 GGCAGCCAA
4356236 CATAGTTCCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.16
Consensus pattern (21 bp):
GGCAGCCAAATATCCAGAATG
Found at i:4359159 original size:11 final size:11
Alignment explanation
Indices: 4359143--4359198 Score: 53
Period size: 11 Copynumber: 4.9 Consensus size: 11
4359133 TTATGCTTGA
4359143 AGAAAAAAAAG
1 AGAAAAAAAAG
*
4359154 AGAAAAAAGAAA
1 AGAAAAAA-AAG
4359166 AGAAAAGAAAA-
1 AGAAAA-AAAAG
4359177 AGAAAAGAAAAG
1 AGAAAA-AAAAG
4359189 A-AAAGAAAAA
1 AGAAA-AAAAA
4359199 TAAAAAGTGG
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
11 26 0.65
12 12 0.30
13 2 0.05
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (11 bp):
AGAAAAAAAAG
Found at i:4359168 original size:5 final size:5
Alignment explanation
Indices: 4359142--4359197 Score: 80
Period size: 5 Copynumber: 11.4 Consensus size: 5
4359132 ATTATGCTTG
*
4359142 AAGAA AA-AA AAGAG AA-AA AAGAA AAGAA AAGAAA AAGAA AAGAA AAGAA
1 AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAG-AA AAGAA AAGAA AAGAA
4359191 AAGAA AA
1 AAGAA AA
4359198 ATAAAAAGTG
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
4 7 0.15
5 34 0.74
6 5 0.11
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (5 bp):
AAGAA
Found at i:4359198 original size:16 final size:16
Alignment explanation
Indices: 4359142--4359197 Score: 78
Period size: 16 Copynumber: 3.4 Consensus size: 16
4359132 ATTATGCTTG
*
4359142 AAGAAAAAAAAGAGAAAA
1 AAGAAAAGAAA-AG-AAA
4359160 AAGAAAAGAAAAGAAA
1 AAGAAAAGAAAAGAAA
4359176 AAGAAAAGAAAAG-AA
1 AAGAAAAGAAAAGAAA
4359191 AAGAAAA
1 AAGAAAA
4359198 ATAAAAAGTG
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
15 9 0.24
16 16 0.43
17 2 0.05
18 10 0.27
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (16 bp):
AAGAAAAGAAAAGAAA
Found at i:4360525 original size:123 final size:123
Alignment explanation
Indices: 4359948--4360506 Score: 877
Period size: 123 Copynumber: 4.5 Consensus size: 123
4359938 CACTCAATGG
* * *
4359948 ATCAACATTTCCAAAAGAAGTTCGTAATAAGAAGAACTCATCTGAAGGGGAAGAAGAAGTTCAAA
1 ATCAACATTTCCAGAAGAAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
* *
4360013 ATCTGAATAACTTATTCAACCTTTTGCTCGACTCTATCACAGAAGGAGATAGAGCAGC
66 ATCTGAAGAACTTATTCAACCTTTTGCTCGACTCTATCGCAGAAGGAGATAGAGCAGC
* *
4360071 ATCAACATTTCCAGAAGAAGTTTGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCAAA
1 ATCAACATTTCCAGAAGAAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
* *
4360136 ATCTGAAGAACTTATTTAACCTTTTGCTCGACTCTATCGCAGAAAGAGATAGAGCAGC
66 ATCTGAAGAACTTATTCAACCTTTTGCTCGACTCTATCGCAGAAGGAGATAGAGCAGC
* *
4360194 ATCAACATTTCCAGAAAAAGTTCATAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
1 ATCAACATTTCCAGAAGAAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
* *
4360259 ATCTGAAGAACTTATTCAACCTTTTGCTCGACTCTATCGCAGAAGGAGATAGAACAAC
66 ATCTGAAGAACTTATTCAACCTTTTGCTCGACTCTATCGCAGAAGGAGATAGAGCAGC
* * * *
4360317 ATCAACATTTCCATAAGAAGTTCGTAAAAAGAAAAACTCATCTGAAGAGGAATAAGAAGTTCATA
1 ATCAACATTTCCAGAAGAAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
* * * * *
4360382 ATTTGAATAACTTATTCAACCGTTTGCTCAACTCTATCGTAGAAGGAGATAGAGCAGC
66 ATCTGAAGAACTTATTCAACCTTTTGCTCGACTCTATCGCAGAAGGAGATAGAGCAGC
* * *
4360440 ATCAACATTTCTAGAAGAA-TATCATAATAAGAAGAACTCATCTAAAGAGGAAGAAGAAGTTCAT
1 ATCAACATTTCCAGAAGAAGT-TCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCAT
4360504 AAT
65 AAT
4360507 GAGAAGAGTT
Statistics
Matches: 400, Mismatches: 35, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
122 1 0.00
123 399 1.00
ACGTcount: A:0.42, C:0.16, G:0.18, T:0.24
Consensus pattern (123 bp):
ATCAACATTTCCAGAAGAAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
ATCTGAAGAACTTATTCAACCTTTTGCTCGACTCTATCGCAGAAGGAGATAGAGCAGC
Found at i:4360989 original size:45 final size:45
Alignment explanation
Indices: 4360923--4361088 Score: 206
Period size: 45 Copynumber: 3.7 Consensus size: 45
4360913 CTGCCAGTAG
* * * *
4360923 CCCCTACACGTTGCAGTTCCAGCAACTTCTAGCAAACGATAGCAA
1 CCCCTACACGTTGCAGTTCCAGCAGCTTCCAGCAAACGACAACAA
* *
4360968 CTCCTACACGTTGCAGTTCCAGCAGCTTCCAGCAAACGACAACAG
1 CCCCTACACGTTGCAGTTCCAGCAGCTTCCAGCAAACGACAACAA
* * *
4361013 CCCCTACACGTTGTAATTCCAGCAGCTTCCAGCAAACGACATCAA
1 CCCCTACACGTTGCAGTTCCAGCAGCTTCCAGCAAACGACAACAA
* * ** *
4361058 CCTCTCCACGTCCCAGTTCTAGCAGCTTCCA
1 CCCCTACACGTTGCAGTTCCAGCAGCTTCCA
4361089 ACAAGCATAT
Statistics
Matches: 103, Mismatches: 18, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 103 1.00
ACGTcount: A:0.28, C:0.37, G:0.15, T:0.20
Consensus pattern (45 bp):
CCCCTACACGTTGCAGTTCCAGCAGCTTCCAGCAAACGACAACAA
Found at i:4361075 original size:90 final size:90
Alignment explanation
Indices: 4360921--4361088 Score: 230
Period size: 90 Copynumber: 1.9 Consensus size: 90
4360911 ATCTGCCAGT
* * * **
4360921 AGCCCCTACACGTTGCAGTTCCAGCAACTTCTAGCAAACGATAGCAACTCCTACACGTTGCAGTT
1 AGCCCCTACACGTTGCAATTCCAGCAACTTCCAGCAAACGACAGCAACTCCTACACGTCCCAGTT
4360986 CCAGCAGCTTCCAGCAAACGACAAC
66 CCAGCAGCTTCCAGCAAACGACAAC
* * * *
4361011 AGCCCCTACACGTTGTAATTCCAGCAGCTTCCAGCAAACGACATCAAC-CTCTCCACGTCCCAGT
1 AGCCCCTACACGTTGCAATTCCAGCAACTTCCAGCAAACGACAGCAACTC-CTACACGTCCCAGT
*
4361075 TCTAGCAGCTTCCA
65 TCCAGCAGCTTCCA
4361089 ACAAGCATAT
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
89 1 0.01
90 66 0.99
ACGTcount: A:0.28, C:0.36, G:0.15, T:0.20
Consensus pattern (90 bp):
AGCCCCTACACGTTGCAATTCCAGCAACTTCCAGCAAACGACAGCAACTCCTACACGTCCCAGTT
CCAGCAGCTTCCAGCAAACGACAAC
Found at i:4362934 original size:2 final size:2
Alignment explanation
Indices: 4362927--4362957 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
4362917 TCACATCAAA
4362927 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4362958 CTGGACTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4363960 original size:37 final size:39
Alignment explanation
Indices: 4363918--4363993 Score: 102
Period size: 38 Copynumber: 2.0 Consensus size: 39
4363908 TAAATCAAAA
**
4363918 TGTTACATT-TTTTTAACATTTTTAGTTA-AACCGAAAG
1 TGTTACATTCTTCGTAACATTTTTAGTTACAACCGAAAG
*
4363955 TGTTACATTCTTCGTAACATTTTTTGTTAGCAACCGAAA
1 TGTTACATTCTTCGTAACATTTTTAGTTA-CAACCGAAA
4363994 ATATTATATT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
37 9 0.27
38 16 0.48
40 8 0.24
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.43
Consensus pattern (39 bp):
TGTTACATTCTTCGTAACATTTTTAGTTACAACCGAAAG
Found at i:4364394 original size:17 final size:17
Alignment explanation
Indices: 4364374--4364430 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 17
4364364 ATTTTCTCTA
4364374 TTTTTATAATTTAAATT
1 TTTTTATAATTTAAATT
* * *
4364391 TTTTAATCA-TTAAAAT
1 TTTTTATAATTTAAATT
* *
4364407 TTTCTATATTTTAATATT
1 TTTTTATAATTTAA-ATT
4364425 TTTTTA
1 TTTTTA
4364431 ATATTATACG
Statistics
Matches: 29, Mismatches: 9, Indels: 3
0.71 0.22 0.07
Matches are distributed among these distances:
16 11 0.38
17 11 0.38
18 7 0.24
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTTTATAATTTAAATT
Found at i:4364395 original size:16 final size:16
Alignment explanation
Indices: 4364374--4364432 Score: 57
Period size: 17 Copynumber: 3.6 Consensus size: 16
4364364 ATTTTCTCTA
4364374 TTTTTATAATTTAAAT
1 TTTTTATAATTTAAAT
* *
4364390 TTTTTAATCATTAAAAT
1 TTTTT-ATAATTTAAAT
* *
4364407 TTTCTATATTTTAATAT
1 TTTTTATAATTTAA-AT
4364424 TTTTT-TAAT
1 TTTTTATAAT
4364433 ATTATACGTT
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
16 14 0.42
17 19 0.58
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (16 bp):
TTTTTATAATTTAAAT
Found at i:4365166 original size:181 final size:182
Alignment explanation
Indices: 4364812--4365284 Score: 687
Period size: 181 Copynumber: 2.6 Consensus size: 182
4364802 GATCCAAATT
* * * * **
4364812 AAAAATGTGTCGATCCAAAATGATATAACAGGTAAAACTATGACAAAACCAGTATTGAAATGATA
1 AAAAATGTATCGATCCAAAATGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* * * * * *
4364877 AAACCGGTAAAGCGCTACCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTTC
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATAAAAGGATCGACACTTC
* * *
4364942 GTGAATTTAAAAGAGAAACTGTTTTAAATCCTATAAAGTGTCGATACTTTTA
131 GTGAATTTAAAAGAGAAACAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
* * *
4364994 AAAAATGTATCGATCCAAAATGATATACCAGTTAAAAATATGATAAAACCGGTAACAAAATGATA
1 AAAAATGTATCGATCCAAAATGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* *
4365059 AAACCGGTAAAACGTTACCGGATATATTGAAAGTGTCGATACTTT-ATAAAAGGATCGACACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATAAAAGGATCGACACTTC
* ** *
4365123 GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAATGTGTCGATACTTTAA
131 GTGAATTTAAAAGAGAAACAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
* * *
4365175 AAAAATATATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAATGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
*
4365240 AAACCGGTAAAATGATACCGGATATATTGAAAGTGTCGATACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
4365285 CGTAAGTACG
Statistics
Matches: 260, Mismatches: 31, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
181 164 0.63
182 96 0.37
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (182 bp):
AAAAATGTATCGATCCAAAATGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATAAAAGGATCGACACTTC
GTGAATTTAAAAGAGAAACAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
Found at i:4365228 original size:20 final size:19
Alignment explanation
Indices: 4365205--4365251 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
4365195 CGATATAACA
4365205 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
4365225 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
4365245 GGTAAAA
1 GGTAAAA
4365252 TGATACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:4365253 original size:17 final size:19
Alignment explanation
Indices: 4365214--4365256 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
4365204 AGGTAAAAAT
4365214 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
4365234 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
4365251 ATGATA
1 ATGATA
4365257 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:4367507 original size:21 final size:21
Alignment explanation
Indices: 4367481--4367545 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
4367471 AATACAATCA
*
4367481 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
4367502 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
4367523 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
4367544 AG
1 AG
4367546 GCATAAGGGG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.42, C:0.11, G:0.31, T:0.17
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:4367621 original size:33 final size:33
Alignment explanation
Indices: 4367579--4367644 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
4367569 AAATAGATGG
*
4367579 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
4367612 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
4367645 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:4368849 original size:4 final size:4
Alignment explanation
Indices: 4368840--4368872 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
4368830 TAAGAGATTG
4368840 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT G
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT G
4368873 AAAGGACATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.24, C:0.00, G:0.27, T:0.48
Consensus pattern (4 bp):
GTAT
Found at i:4369957 original size:200 final size:200
Alignment explanation
Indices: 4369614--4370590 Score: 1699
Period size: 200 Copynumber: 4.9 Consensus size: 200
4369604 CAATATGACC
* *
4369614 AACAGGGCGCAACCATAAAGTGTCGAACCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
4369679 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
*
4369744 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATAATTTTGGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
*
4369809 TGGAA
196 TGGCA
4369814 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
*
4369879 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTTCAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
*
4369944 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAAAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
*
4370009 TGGCC
196 TGGCA
* *
4370014 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAACGTGTCGATCCCAAAAACATGGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
*
4370079 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACTGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
4370144 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
4370209 TGGCA
196 TGGCA
**
4370214 AACAGGGTGCAACTGTAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
*
4370279 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
* *
4370344 TAATAGGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
4370409 TGGCA
196 TGGCA
* * *
4370414 AACAGGCTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCTCATAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
*
4370479 CCAAAAGTACAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
* * * *
4370544 GAAT-TGGTATATAAT-ATGTATCGACACTGTTTAATGTTT-TGTCGATA
131 GAATAT-GTCTA-AATAATGTGTCGACACTTTTTTA-GTTTGTGTCGATA
4370591 CTAATTTAAA
Statistics
Matches: 740, Mismatches: 34, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
200 733 0.99
201 7 0.01
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (200 bp):
AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
TGGCA
Found at i:4372064 original size:6 final size:6
Alignment explanation
Indices: 4372053--4372146 Score: 64
Period size: 6 Copynumber: 15.7 Consensus size: 6
4372043 TAAGCGGTCA
* * * * *
4372053 ATGAAG ATGAAG CT-AATG ATGAAG ATGACG ATGACG ATGATG ATGACG
1 ATGAAG ATGAAG ATGAA-G ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG
* * * * * * *
4372101 ATGAAG CTGACG ATGAAG ATGATG ACGATG ATGATG ATGATG ATGA
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGA
4372147 TGATCCAAAC
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
5 2 0.03
6 69 0.95
7 2 0.03
ACGTcount: A:0.38, C:0.07, G:0.32, T:0.22
Consensus pattern (6 bp):
ATGAAG
Found at i:4372096 original size:3 final size:3
Alignment explanation
Indices: 4372068--4372150 Score: 85
Period size: 3 Copynumber: 27.7 Consensus size: 3
4372058 GATGAAGCTA
* * * * * * *
4372068 ATG ATG AAG ATG ACG ATG ACG ATG ATG ATG ACG ATG AAG CTG ACG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
* *
4372116 AAG ATG ATG ACG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
4372151 CCAAACTAGT
Statistics
Matches: 62, Mismatches: 18, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.36, C:0.07, G:0.33, T:0.24
Consensus pattern (3 bp):
ATG
Found at i:4373696 original size:183 final size:183
Alignment explanation
Indices: 4373362--4374684 Score: 2161
Period size: 183 Copynumber: 7.1 Consensus size: 183
4373352 CAAAGTTTTC
* * *
4373362 ACACTTTTTAATATTGTGTC-TATATTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCATT
1 ACACTTTTTAATATTGTGTCGGA-ACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATT
* *
4373426 TAAAAAAGTGTCG--ATTGAAAAAACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTA
65 TAAAAAAGTGTCGACATT---TACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTA
4373489 ATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
127 ATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
4373546 ACACTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATA-CATTG
1 ACACTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATT-
*
4373610 TCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
65 TAAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
4373675 TAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
130 TAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
4373729 ACACTTTTTAATATTGTGTCGGAACTTTATGTTCAGATTGGAAGAAAAATGTGTCGATACCATTT
1 ACACTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
*
4373794 AAAAAAGTGTCGACATTTACACATCGGTACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 AAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
*
4373859 AACCGGTATAAATATACTGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
4373912 ACACTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTC
1 ACACTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATA-C---C
*
4373977 AAAAATGTGTCGATACCATTTAAAAAAGTGTCGACATTTACACATCGAAACCCAGAATTATAATG
62 ----A--T-T---TA--A-----AAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATG
* * *
4374042 TAATGGATAATTTTGTAATATAACAGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTATAA
110 TAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAA
4374107 CCTATATCG
175 CCTATATCG
4374116 ACACTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
1 ACACTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
*
4374181 AAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATATAATAGATAATTTTGTAATAT
66 AAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
*
4374246 AACCGGTATAAATATACCGGTTTTATGAGCAAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
4374299 ACACTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
1 ACACTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
* *
4374364 AAAAAAGTGTCGACATTTACACATCAGAACCCAGAATTATAAAGTAATAGATAATTTTGTAATAT
66 AAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
4374429 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
* *
4374482 ACACTTTTTAATATTGTGCCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATA-CATTG
1 ACACTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATT-
* *
4374546 TCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAAATAATTTTGTAATA
65 TAAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
* *
4374611 TAACCGGTATAAATATGCCGGTTTTATGAGTGAATAGGTCTACAACCTATATCG
130 TAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
4374665 ACACTTTTTAATATTGTGTC
1 ACACTTTTTAATATTGTGTC
4374685 AGTAATTTTA
Statistics
Matches: 1076, Mismatches: 36, Indels: 55
0.92 0.03 0.05
Matches are distributed among these distances:
182 4 0.00
183 813 0.76
184 71 0.07
185 1 0.00
186 3 0.00
187 1 0.00
188 1 0.00
190 2 0.00
191 1 0.00
193 2 0.00
194 2 0.00
196 1 0.00
197 2 0.00
199 1 0.00
200 1 0.00
203 1 0.00
204 169 0.16
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (183 bp):
ACACTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
AAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
Found at i:4373982 original size:21 final size:21
Alignment explanation
Indices: 4373956--4374010 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
4373946 AGATTGGAAG
4373956 AAAAATGTGTCGATACCATTC
1 AAAAATGTGTCGATACCATTC
*
4373977 AAAAATGTGTCGATACCATTT
1 AAAAATGTGTCGATACCATTC
*
4373998 AAAAAAGTGTCGA
1 AAAAATGTGTCGA
4374011 CATTTACACA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (21 bp):
AAAAATGTGTCGATACCATTC
Found at i:4374534 original size:570 final size:565
Alignment explanation
Indices: 4373406--4374684 Score: 2173
Period size: 570 Copynumber: 2.3 Consensus size: 565
4373396 AGAATGGAAG
* *
4373406 AAAAATGTGTCGATACCATTTAAAAAAGTGTCG--ATTGAAAAAACATCGGAACCCAGAATTATA
1 AAAAATGTGTCGATACCATTTAAAAAAGTGTCGACATT---TACACATCGGAACCCAGAATTATA
4373469 ATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTA
63 ATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTA
4373534 CAACCTATATCGACACTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTG
128 CAACCTATATCGACACTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTG
* *
4373599 TCGATACATTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATA
193 TCGATACATTGTAAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATATAATAGATA
*
4373664 ATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
258 ATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCAAATAGGTCTACAACCTATATCG
*
4373729 ACACTTTTTAATATTGTGTCGGAACTTTATGTTCAGATTGGAAGAAAAATGTGTCGATACCATTT
323 ACACTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
* * *
4373794 AAAAAAGTGTCGACATTTACACATCGGTACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
388 AAAAAAGTGTCGACATTTACACATCAGAACCCAGAATTATAAAGTAATAGATAATTTTGTAATAT
*
4373859 AACCGGTATAAATATACTGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAAT
453 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAAT
*
4373924 ATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTC
518 ATTGTGCCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGAT---A--C
*
4373977 AAAAATGTGTCGATACCATTTAAAAAAGTGTCGACATTTACACATCGAAACCCAGAATTATAATG
1 AAAAATGTGTCGATACCATTTAAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATG
* * *
4374042 TAATGGATAATTTTGTAATATAACAGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTATAA
66 TAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAA
4374107 CCTATATCGACACTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCG
131 CCTATATCGACACTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCG
4374172 ATACCATT-TAAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATATAATAGATAAT
196 ATA-CATTGTAAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATATAATAGATAAT
4374236 TTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCAAATAGGTCTACAACCTATATCGAC
260 TTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCAAATAGGTCTACAACCTATATCGAC
4374301 ACTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAA
325 ACTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAA
4374366 AAAAGTGTCGACATTTACACATCAGAACCCAGAATTATAAAGTAATAGATAATTTTGTAATATAA
390 AAAAGTGTCGACATTTACACATCAGAACCCAGAATTATAAAGTAATAGATAATTTTGTAATATAA
4374431 CCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATAT
455 CCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATAT
*
4374496 TGTGCCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATAC
520 TGTGCCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATAC
4374542 ----A--T-T-G-T--C-----AAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATG
1 AAAAATGTGTCGATACCATTTAAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATG
* * *
4374591 TAATAAATAATTTTGTAATATAACCGGTATAAATATGCCGGTTTTATGAGTGAATAGGTCTACAA
66 TAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAA
4374656 CCTATATCGACACTTTTTAATATTGTGTC
131 CCTATATCGACACTTTTTAATATTGTGTC
4374685 AGTAATTTTA
Statistics
Matches: 682, Mismatches: 23, Indels: 28
0.93 0.03 0.04
Matches are distributed among these distances:
549 130 0.19
554 1 0.00
556 1 0.00
557 1 0.00
558 1 0.00
559 1 0.00
561 1 0.00
565 1 0.00
567 1 0.00
570 504 0.74
571 37 0.05
573 3 0.00
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (565 bp):
AAAAATGTGTCGATACCATTTAAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATG
TAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAA
CCTATATCGACACTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCG
ATACATTGTAAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATATAATAGATAATT
TTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCAAATAGGTCTACAACCTATATCGACA
CTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAA
AAAGTGTCGACATTTACACATCAGAACCCAGAATTATAAAGTAATAGATAATTTTGTAATATAAC
CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
GTGCCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATAC
Found at i:4377557 original size:22 final size:23
Alignment explanation
Indices: 4377514--4377575 Score: 99
Period size: 22 Copynumber: 2.7 Consensus size: 23
4377504 TAAAAATATG
4377514 ATAGGTAGCGCTTATATAATGTA
1 ATAGGTAGCGCTTATATAATGTA
*
4377537 ATAGGTAGCGTTTA-ATAATGTA
1 ATAGGTAGCGCTTATATAATGTA
*
4377559 ATAGGTAGTGCTTATAT
1 ATAGGTAGCGCTTATAT
4377576 TGTAAAGTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
22 20 0.57
23 15 0.43
ACGTcount: A:0.34, C:0.06, G:0.23, T:0.37
Consensus pattern (23 bp):
ATAGGTAGCGCTTATATAATGTA
Found at i:4378013 original size:23 final size:23
Alignment explanation
Indices: 4377983--4378054 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
4377973 AATAGGTAAA
*
4377983 ATAT-ATGTAATAGGTAACGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
4378005 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
4378028 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
4378051 ATAT
1 ATAT
4378055 TGTAAAGTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
22 4 0.09
23 41 0.91
ACGTcount: A:0.36, C:0.06, G:0.19, T:0.39
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:4378338 original size:478 final size:483
Alignment explanation
Indices: 4377175--4378925 Score: 2968
Period size: 477 Copynumber: 3.7 Consensus size: 483
4377165 TATGTACATC
4377175 TTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTA
1 TTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTA
4377240 CGGATATATATTATTA--AATTAAAAACAATAAACATATATA-TACATATTTATTATTATCTTTG
66 C-GATATATATTATTATTAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTG
* *
4377302 GTTAATA-TGTTAAATTTAAATACTAAATAATATTTTTATAAAATATC-AAACAATCAAATAATT
130 GTTAATATTGTTAAATTTAAATTCTAAATATTA-TTTTATAAAATATCAAAACAATCAAATAATT
4377365 TTTTGTGCAAAT-AAATTATTAAATTAATA-TGTAGGTGGAAAACATGAAACACTATTAAAAAAA
194 TTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAA
* *
4377428 TTGAAACATAAATTACATAACTTTAAAAAACGTATCGATCCTTTTATAAAAAGTATAGACAC-TT
258 TTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCTTTTTATAAAAAGTATAGACACTTT
4377492 CAATATAATAGGTAAAA-ATATG--ATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTA-AT
323 CAATATAATAGGTAAAATATATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATAT
4377553 AATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTT-TATAAAAGTGTCCATACTTTT
388 AATGTAATAGGTAGTGCTTATATTGTAAAGTATCTAT-CTTTTATA-AAAAGTGTCCATACTTTT
4377617 TTCACTGTGGAAAACATT-ATTTAAGGTTATCT
451 TTCACTGTGGAAAACATTAATTTAAGGTTATCT
4377649 TTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTA
1 TTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTA
4377714 CG--ATATA-TATTATTAATTAAAAACAATAAACATATATATTACATA-TTATTATTATCTTTGG
66 CGATATATATTATTATTAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTGG
4377775 TTAATATTGTTAAATTTAAATTCTAAATA-TATTTTATAAAATATCAAAACAATCAAATAATTTT
131 TTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTT
4377839 TTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGG-AAACATGAAACACTATTAAAAAAATT
196 TTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAATT
*
4377903 GAAACATAAATTACATAACTTTAAAAAAAAGTATCGATCATTTTATAAAAAGTATAGACACTTTC
260 GAAACATAAATTACATAACTTT-AAAAAAAGTATCGATCTTTTTATAAAAAGTATAGACACTTTC
*
4377968 AATATAATAGGTAAAATATATGTAATAGGTAACGCTTATATAATGTAATAGGTAGCGTTTATATA
324 AATATAATAGGTAAAATATATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATA
4378033 ATGTAATAGGTAGTGCTTATATTGTAAAGTATCTAT-TTTTATAAAAAG-GTCCATACTTTTTTC
389 ATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCTTTTATAAAAAGTGTCCATACTTTTTTC
4378096 ACTGTGGAAAACATTAATTTAAGGTTATCT
454 ACTGTGGAAAACATTAATTTAAGGTTATCT
*
4378126 TTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCATCTAATGATTTATTTTTTACGTTA
1 TTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTA
4378191 CGATATATATT-TTATT-ATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTGG
66 CGATATATATTATTATTAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTGG
4378254 TTAATATTGTTAAATTTAAATTCT-AATATTATTTTATAAAATATCAAAAC-ATCAAATAATTTT
131 TTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTT
4378317 TTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAATTG
196 TTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAATTG
4378382 AAACAT-AATTACATAACTTT-AAAAAA--ATCGATCCTTTTTATAAAAAGTATAGACACTTTCA
261 AAACATAAATTACATAACTTTAAAAAAAGTATCGAT-CTTTTTATAAAAAGTATAGACACTTTCA
*
4378443 ATATAATAGGTAAAAATATGATGTAATAGGTAGCG-TTAATATAATGTAATAGGTATCGTTTATA
325 ATATAATAGGT-AAAATAT-ATGTAATAGGTAGCGCTT-ATATAATGTAATAGGTAGCGTTTATA
4378507 TAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCATTTTAT-AAAAGTGTCCATACTTTT
387 TAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATC-TTTTATAAAAAGTGTCCATACTTTT
4378571 TTCACTGTGGAAAACATTAATTTAAGGTTATC-
451 TTCACTGTGGAAAACATTAATTTAAGGTTATCT
*
4378603 TTTGAGTGAGTTTTAAGATATTAATTTAGTAA-TATAGGCGTCTAATGAGTTATTTTTTACGTTA
1 TTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTA
4378667 CGATATATATTATTATTAAATT-AAAAC-ATAAACATATATATATAC--ATTTA-TATTATCTTT
66 CGATATATATTATTATT-AATTAAAAACAATAAACATATATAT-TACATATTTATTATTATCTTT
* *
4378727 GGTTAATATTGTTAAATTTAAATTGTAAATATTATTTTATAAAATATCAAAATAATCAAATAATT
129 GGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATT
* *
4378792 TTTTGTGCAAATGAAATTATTAAATTAATATTGTATGTGGAAAATATGAAACACTATTAAAAAAT
194 TTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAT
4378857 TGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCTTTTTTATAAAAAAGTATAGACACTT
259 TGAAACATAAATTACATAACTTTAAAAAAAGTATCGATC-TTTTTAT-AAAAAGTATAGACACTT
4378922 TCAA
322 TCAA
4378926 CATATTATAA
Statistics
Matches: 1223, Mismatches: 14, Indels: 72
0.93 0.01 0.06
Matches are distributed among these distances:
470 5 0.00
471 19 0.02
472 76 0.06
473 99 0.08
474 149 0.12
475 69 0.06
476 183 0.15
477 241 0.20
478 210 0.17
479 136 0.11
480 2 0.00
481 13 0.01
482 21 0.02
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.40
Consensus pattern (483 bp):
TTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTA
CGATATATATTATTATTAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTGG
TTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTT
TTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAATTG
AAACATAAATTACATAACTTTAAAAAAAGTATCGATCTTTTTATAAAAAGTATAGACACTTTCAA
TATAATAGGTAAAATATATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAAT
GTAATAGGTAGTGCTTATATTGTAAAGTATCTATCTTTTATAAAAAGTGTCCATACTTTTTTCAC
TGTGGAAAACATTAATTTAAGGTTATCT
Found at i:4378489 original size:23 final size:23
Alignment explanation
Indices: 4378457--4378521 Score: 103
Period size: 23 Copynumber: 2.8 Consensus size: 23
4378447 AATAGGTAAA
*
4378457 AATATGATGTAATAGGTAGCGTT
1 AATATAATGTAATAGGTAGCGTT
*
4378480 AATATAATGTAATAGGTATCGTT
1 AATATAATGTAATAGGTAGCGTT
*
4378503 TATATAATGTAATAGGTAG
1 AATATAATGTAATAGGTAG
4378522 TGCTTATATT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.38, C:0.03, G:0.22, T:0.37
Consensus pattern (23 bp):
AATATAATGTAATAGGTAGCGTT
Found at i:4378528 original size:23 final size:22
Alignment explanation
Indices: 4378458--4378530 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 22
4378448 ATAGGTAAAA
* *
4378458 ATATGATGTAATAGGTAGCGTT
1 ATATAATGTAATAGGTAGTGTT
4378480 AATATAATGTAATAGGTA-TCGTTT
1 -ATATAATGTAATAGGTAGT-G-TT
4378504 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGTG-TT
4378527 ATAT
1 ATAT
4378531 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
23 41 0.93
24 3 0.07
ACGTcount: A:0.36, C:0.04, G:0.21, T:0.40
Consensus pattern (22 bp):
ATATAATGTAATAGGTAGTGTT
Found at i:4379069 original size:23 final size:23
Alignment explanation
Indices: 4378999--4379057 Score: 118
Period size: 23 Copynumber: 2.6 Consensus size: 23
4378989 AAATAGGTCA
4378999 ATATAAGCGCTACATATTACATT
1 ATATAAGCGCTACATATTACATT
4379022 ATATAAGCGCTACATATTACATT
1 ATATAAGCGCTACATATTACATT
4379045 ATATAAGCGCTAC
1 ATATAAGCGCTAC
4379058 CTAGTATGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (23 bp):
ATATAAGCGCTACATATTACATT
Found at i:4379245 original size:19 final size:19
Alignment explanation
Indices: 4379202--4379238 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
4379192 CCTAGGAAAC
4379202 AGCTTTGTTTTGCATAACA
1 AGCTTTGTTTTGCATAACA
4379221 AGCTTTGTTTTGCATAAC
1 AGCTTTGTTTTGCATAAC
4379239 GCACTTTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.43
Consensus pattern (19 bp):
AGCTTTGTTTTGCATAACA
Found at i:4379679 original size:35 final size:32
Alignment explanation
Indices: 4379632--4379719 Score: 86
Period size: 35 Copynumber: 2.6 Consensus size: 32
4379622 ATATATATAT
*
4379632 ATATATATTATATGGTTTGAAATCATTTTGAAAA
1 ATATATAATATATGGTTTGAAAT-ATTTTG-AAA
* *
4379666 ATTATATAATATATGGGTTTTTTAAATGTTTTGAAA
1 A-TATATAATATAT-GG--TTTGAAATATTTTGAAA
*
4379702 ATATATAATATATAGTTT
1 ATATATAATATATGGTTT
4379720 TTGAAAATAT
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
32 3 0.07
34 2 0.04
35 23 0.50
36 6 0.13
37 5 0.11
38 7 0.15
ACGTcount: A:0.40, C:0.01, G:0.11, T:0.48
Consensus pattern (32 bp):
ATATATAATATATGGTTTGAAATATTTTGAAA
Found at i:4379737 original size:22 final size:24
Alignment explanation
Indices: 4379694--4379749 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
4379684 TTTTTAAATG
4379694 TTTTGAAAATATATAATATATAGT
1 TTTTGAAAATATATAATATATAGT
* *
4379718 TTTTGAAAATATATATTATATCG-
1 TTTTGAAAATATATAATATATAGT
4379741 TTTTGAAAA
1 TTTTGAAAA
4379750 CTTTTTAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 9 0.30
24 21 0.70
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.46
Consensus pattern (24 bp):
TTTTGAAAATATATAATATATAGT
Found at i:4379764 original size:37 final size:36
Alignment explanation
Indices: 4379717--4380049 Score: 377
Period size: 36 Copynumber: 8.9 Consensus size: 36
4379707 TAATATATAG
* *
4379717 TTTTTGAAAATATATATTATATCGTTTTGAAAACTT-
1 TTTTTAAAAATATATATTATATAGTTTTGAAAA-TTA
** * * *
4379753 TTTAAAAAAAATATATATATAATATATAATTTTTAAAAATA
1 TTT--TTAAAA-ATATATAT--TATATAGTTTTGAAAATTA
4379794 TTTTTGAAAAACATATATATTATATAGTTTTGAAAATTA
1 TTTTT--AAAA-ATATATATTATATAGTTTTGAAAATTA
4379833 GTTTTT-AAAATATATATTATATAGTTTTGAAAA-TA
1 -TTTTTAAAAATATATATTATATAGTTTTGAAAATTA
*
4379868 TTTTTGAAAAACATATATTATATAGTTTTGAAAATTA
1 TTTTT-AAAAATATATATTATATAGTTTTGAAAATTA
*
4379905 GTTTTTAAATATATATATTATATAGTTTTGAAAATTA
1 -TTTTTAAAAATATATATTATATAGTTTTGAAAATTA
4379942 GTTTTTTAAAAATATATATTATATAGTTTTGAAAATTA
1 --TTTTTAAAAATATATATTATATAGTTTTGAAAATTA
4379980 GTTTTTAAAAATATATATTATAT-GATTTTGAAAATTA
1 -TTTTTAAAAATATATATTATATAG-TTTTGAAAATTA
* * * *
4380017 TTTTTTAAAACATATATTGTATAGTTTTAAAAA
1 TTTTTAAAAATATATATTATATAGTTTTGAAAA
4380050 AATGTTTTTA
Statistics
Matches: 258, Mismatches: 23, Indels: 32
0.82 0.07 0.10
Matches are distributed among these distances:
34 5 0.02
35 2 0.01
36 81 0.31
37 69 0.27
38 43 0.17
39 24 0.09
40 6 0.02
41 28 0.11
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.48
Consensus pattern (36 bp):
TTTTTAAAAATATATATTATATAGTTTTGAAAATTA
Found at i:4379965 original size:75 final size:74
Alignment explanation
Indices: 4379717--4380049 Score: 408
Period size: 75 Copynumber: 4.4 Consensus size: 74
4379707 TAATATATAG
* * **
4379717 TTTTTGAAAATATATATTATATCGTTTTGAAAACTT--TTTAAAAAAAATATATATATAATATAT
1 TTTTTAAAAATATATATTATATAGTTTTGAAAA-TTAGTTT---TTAAATATATATAT--TATAT
* * *
4379780 AATTTTTAAAAATAT
60 AGTTTTGAAAATTAT
*
4379795 TTTTGAAAAACATATATATTATATAGTTTTGAAAATTAGTTTTTAAA-ATATATATTATATAGTT
1 TTTT-TAAAA-ATATATATTATATAGTTTTGAAAATTAGTTTTTAAATATATATATTATATAGTT
4379859 TTGAAAA-TAT
64 TTGAAAATTAT
* *
4379869 TTTTGAAAAACATATATTATATAGTTTTGAAAATTAGTTTTTAAATATATATATTATATAGTTTT
1 TTTTTAAAAATATATATTATATAGTTTTGAAAATTAGTTTTTAAATATATATATTATATAGTTTT
4379934 GAAAATTAGT
66 GAAAATTA-T
*
4379944 TTTTTAAAAATATATATTATATAGTTTTGAAAATTAGTTTTTAAAAATATATATTATAT-GATTT
1 TTTTTAAAAATATATATTATATAGTTTTGAAAATTAGTTTTTAAATATATATATTATATAG-TTT
4380008 TGAAAATTAT
65 TGAAAATTAT
* * *
4380018 TTTTT-AAAACATATATTGTATAGTTTTAAAAA
1 TTTTTAAAAATATATATTATATAGTTTTGAAAA
4380050 AATGTTTTTA
Statistics
Matches: 232, Mismatches: 15, Indels: 21
0.87 0.06 0.08
Matches are distributed among these distances:
72 35 0.15
73 52 0.22
74 16 0.07
75 83 0.36
77 8 0.03
78 7 0.03
79 5 0.02
80 23 0.10
81 3 0.01
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.48
Consensus pattern (74 bp):
TTTTTAAAAATATATATTATATAGTTTTGAAAATTAGTTTTTAAATATATATATTATATAGTTTT
GAAAATTAT
Found at i:4380052 original size:75 final size:74
Alignment explanation
Indices: 4379767--4380049 Score: 412
Period size: 75 Copynumber: 3.8 Consensus size: 74
4379757 AAAAAAATAT
* * * *
4379767 ATATATAATATATAATTTTTAAAAATATTTTTGAAAAACATATATATTATATAGTTTTGAAAATT
1 ATATATATTATATAGTTTTGAAAATTATTTTTGAAAAAC--ATATATTATATAGTTTTGAAAATT
4379832 AGTTTTT-AAA
64 AGTTTTTAAAA
4379842 ATATATATTATATAGTTTTGAAAA-TATTTTTGAAAAACATATATTATATAGTTTTGAAAATTAG
1 ATATATATTATATAGTTTTGAAAATTATTTTTGAAAAACATATATTATATAGTTTTGAAAATTAG
*
4379906 TTTTTAAAT
66 TTTTTAAAA
* *
4379915 ATATATATTATATAGTTTTGAAAATTAGTTTTTTAAAAATATATATTATATAGTTTTGAAAATTA
1 ATATATATTATATAGTTTTGAAAATTA-TTTTTGAAAAACATATATTATATAGTTTTGAAAATTA
4379980 GTTTTTAAAA
65 GTTTTTAAAA
* * *
4379990 ATATATATTATAT-GATTTTGAAAATTATTTTT-TAAAACATATATTGTATAGTTTTAAAAA
1 ATATATATTATATAG-TTTTGAAAATTATTTTTGAAAAACATATATTATATAGTTTTGAAAA
4380050 AATGTTTTTA
Statistics
Matches: 193, Mismatches: 11, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
72 31 0.16
73 50 0.26
74 22 0.11
75 90 0.47
ACGTcount: A:0.44, C:0.01, G:0.07, T:0.48
Consensus pattern (74 bp):
ATATATATTATATAGTTTTGAAAATTATTTTTGAAAAACATATATTATATAGTTTTGAAAATTAG
TTTTTAAAA
Found at i:4380069 original size:4 final size:4
Alignment explanation
Indices: 4380060--4380120 Score: 97
Period size: 4 Copynumber: 15.0 Consensus size: 4
4380050 AATGTTTTTA
4380060 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTTT ATTT CA-TT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT A-TTT ATTT -ATTT ATTT ATTT
4380109 ATTT ATTT ATTT
1 ATTT ATTT ATTT
4380121 TATTATTGTT
Statistics
Matches: 54, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
3 1 0.02
4 48 0.89
5 5 0.09
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.74
Consensus pattern (4 bp):
ATTT
Found at i:4380093 original size:29 final size:29
Alignment explanation
Indices: 4380060--4380120 Score: 51
Period size: 29 Copynumber: 2.1 Consensus size: 29
4380050 AATGTTTTTA
4380060 ATTTATTTA-TTTATTT-ATTTATTTATTT
1 ATTTATTTATTTTATTTCA-TTATTTATTT
4380088 ATTTTATTTCA--TTATTT-ATTTATTTATTT
1 A-TTTATTT-ATTTTATTTCA-TTATTTATTT
4380117 ATTT
1 ATTT
4380121 TATTATTGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
28 4 0.13
29 26 0.84
30 1 0.03
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.74
Consensus pattern (29 bp):
ATTTATTTATTTTATTTCATTATTTATTT
Found at i:4380326 original size:16 final size:15
Alignment explanation
Indices: 4380305--4380334 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
4380295 GCCGGCGAAA
4380305 ATCCCGGGACTGACCC
1 ATCCCGGGA-TGACCC
4380321 ATCCCGGGATGACC
1 ATCCCGGGATGACC
4380335 GGTAACAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.20, C:0.40, G:0.27, T:0.13
Consensus pattern (15 bp):
ATCCCGGGATGACCC
Found at i:4381224 original size:13 final size:12
Alignment explanation
Indices: 4381206--4381264 Score: 64
Period size: 13 Copynumber: 4.7 Consensus size: 12
4381196 TTTATTCCTT
4381206 TTATTTTCTTTTA
1 TTATTTT-TTTTA
*
4381219 TTATTTTCTTGTA
1 TTATTTT-TTTTA
4381232 TTATTTTTGTTTA
1 TTATTTTT-TTTA
* *
4381245 TTATTATTATTA
1 TTATTTTTTTTA
4381257 TTATTTTT
1 TTATTTTT
4381265 ACTAACCTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
12 11 0.28
13 29 0.73
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.75
Consensus pattern (12 bp):
TTATTTTTTTTA
Found at i:4382905 original size:17 final size:17
Alignment explanation
Indices: 4382867--4382905 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
4382857 TATTTTCTCT
* *
4382867 ATTTTTTATAATTTATA
1 ATTTTTAATAATTTAAA
*
4382884 TTTTTTAATAATTTAAA
1 ATTTTTAATAATTTAAA
4382901 ATTTT
1 ATTTT
4382906 CTGTAGTTTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
ATTTTTAATAATTTAAA
Found at i:4384361 original size:20 final size:19
Alignment explanation
Indices: 4384311--4384366 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
4384301 AACCAATAAT
4384311 AATAAACATAAAAT-AATTG
1 AATAAA-ATAAAATAAATTG
*
4384330 GATGAAAA-AAAATGAAATTG
1 AAT-AAAATAAAAT-AAATTG
4384350 AATAAAATAAAATAAAT
1 AATAAAATAAAATAAAT
4384367 GAAGATAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
18 5 0.16
19 11 0.35
20 15 0.48
ACGTcount: A:0.66, C:0.02, G:0.09, T:0.23
Consensus pattern (19 bp):
AATAAAATAAAATAAATTG
Found at i:4384473 original size:21 final size:21
Alignment explanation
Indices: 4384425--4384501 Score: 61
Period size: 22 Copynumber: 3.6 Consensus size: 21
4384415 TTTAAAAGAA
* * *
4384425 AAATAATAATA-AAAGAAAAG
1 AAATAAAAATATAATGAAAAT
4384445 AAACTAAAAATATAATGAAAAT
1 AAA-TAAAAATATAATGAAAAT
*
4384467 AAATAAATAGTATAAAT-AAAAT
1 AAATAAA-AATAT-AATGAAAAT
4384489 -AATAAAAAATATA
1 AAAT-AAAAATATA
4384502 TATATATAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
20 4 0.09
21 18 0.38
22 22 0.47
23 3 0.06
ACGTcount: A:0.71, C:0.01, G:0.05, T:0.22
Consensus pattern (21 bp):
AAATAAAAATATAATGAAAAT
Found at i:4384728 original size:2 final size:2
Alignment explanation
Indices: 4384723--4384757 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
4384713 AATAATAATA
4384723 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4384758 ATAGGAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4385338 original size:37 final size:37
Alignment explanation
Indices: 4385245--4385346 Score: 141
Period size: 37 Copynumber: 2.8 Consensus size: 37
4385235 ATGCTTGTGG
* * ** * *
4385245 ATCCTATCTTTAGGAGTTTAAATAATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTCT
*
4385282 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTCT
4385319 ATCCTATTTTTAGGAGTTTGAATCCTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAG
4385347 TAGGACGAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTCT
Found at i:4386283 original size:106 final size:106
Alignment explanation
Indices: 4386099--4387364 Score: 1892
Period size: 106 Copynumber: 12.0 Consensus size: 106
4386089 GCATTGTTCC
* * * * *
4386099 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGAATCGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * *
4386164 CCAGTC-GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
66 CCAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
4386205 GAGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCTAAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
4386270 CCAACGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
4386311 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGCTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
4386376 CCAGCGGTCCCTTTGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
4386417 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCCGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
4386482 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
4386523 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
4386588 CCAGTGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
4386629 GAGTCCATTATCTTTCGTTGTGAAGTTGAAATCGGCTCTGAAATTGGGAAATTGTTTGTTAACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
** * *
4386694 CCAGATGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
** * *
4386735 TTGTCCAATATCATTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
4386800 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
4386841 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
4386906 CCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
4386947 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * *
4387012 CCAGTGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGT-TT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
4387052 GAGTCCAATATCCTTCG--CTGAAGTTGAAA-TGGCTTTGAAATTGGGAA-ATGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
4387113 CCAGCGGTCCATTCGTCGTGAAGTTG-ACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
4387153 GAGTCCAATATCCTTC---GTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTTGTTTGTTGAC-
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAG-TTGTTTGTTGACA
* *
4387214 A-CAGTGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTG
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
4387255 GAGTCCAATATCCTTCGTTGTGAAGTTAAAATTAGCTCTGAATTTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * *
4387320 CCAGTC-GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
66 CCAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
4387361 GAGT
1 GAGT
4387365 GGCACGATAT
Statistics
Matches: 1061, Mismatches: 87, Indels: 24
0.91 0.07 0.02
Matches are distributed among these distances:
100 22 0.02
101 92 0.09
102 47 0.04
103 21 0.02
104 12 0.01
105 48 0.05
106 819 0.77
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:4388348 original size:22 final size:22
Alignment explanation
Indices: 4388322--4388376 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
4388312 TTGTGTTTGG
4388322 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
4388344 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
4388366 TCAAAGGTTTG
1 TCAAAGGTTTG
4388377 ATGGGGTAGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.24, C:0.13, G:0.27, T:0.36
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:4388992 original size:7 final size:7
Alignment explanation
Indices: 4388980--4389035 Score: 58
Period size: 7 Copynumber: 7.6 Consensus size: 7
4388970 TTTTTGTCCC
4388980 TTTTTCT
1 TTTTTCT
4388987 TTTTTCT
1 TTTTTCT
4388994 TTTTTCTT
1 TTTTTC-T
*
4389002 TTTGTTTT
1 TTT-TTCT
*
4389010 TTTTTGT
1 TTTTTCT
4389017 TTTGTTCT
1 TTT-TTCT
*
4389025 TTTTTGT
1 TTTTTCT
4389032 TTTT
1 TTTT
4389036 GCCCTTTTTG
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
7 26 0.62
8 14 0.33
9 2 0.05
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.86
Consensus pattern (7 bp):
TTTTTCT
Found at i:4388998 original size:15 final size:15
Alignment explanation
Indices: 4388980--4389035 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
4388970 TTTTTGTCCC
4388980 TTTTTC-TTTTTTCT
1 TTTTTCTTTTTTTCT
*
4388994 TTTTTCTTTTTGTTTT
1 TTTTTCTTTTT-TTCT
* *
4389010 TTTTTGTTTTGTTCT
1 TTTTTCTTTTTTTCT
*
4389025 TTTTTGTTTTT
1 TTTTTCTTTTT
4389036 GCCCTTTTTG
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
14 6 0.17
15 17 0.49
16 12 0.34
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.86
Consensus pattern (15 bp):
TTTTTCTTTTTTTCT
Found at i:4389045 original size:30 final size:30
Alignment explanation
Indices: 4388970--4389047 Score: 95
Period size: 30 Copynumber: 2.6 Consensus size: 30
4388960 TGCATGTGCT
*
4388970 TTTTTGTCCCTTTTTCTTTTTTCTTTTTTC
1 TTTTTGTCCCTTTTTGTTTTTTCTTTTTTC
*** *
4389000 TTTTTGTTTTTTTTTGTTTTGTTCTTTTTTG
1 TTTTTGTCCCTTTTTGTTTT-TTCTTTTTTC
4389031 TTTTTG-CCCTTTTTGTT
1 TTTTTGTCCCTTTTTGTT
4389048 CTAATTGAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
30 24 0.62
31 15 0.38
ACGTcount: A:0.00, C:0.13, G:0.09, T:0.78
Consensus pattern (30 bp):
TTTTTGTCCCTTTTTGTTTTTTCTTTTTTC
Found at i:4393511 original size:22 final size:22
Alignment explanation
Indices: 4393459--4393591 Score: 62
Period size: 22 Copynumber: 6.0 Consensus size: 22
4393449 CAAAGAAACT
4393459 AAAAATAT-AATGAAAATAA-ATA
1 AAAAATATAAAT-AAAATAATA-A
* *
4393481 AATAGTATAAATAAAATAATAA
1 AAAAATATAAATAAAATAATAA
* *
4393503 AAAAATATATATATAAA-AATAT
1 AAAAATATAAATA-AAATAATAA
* ** *
4393525 AAAAATGTATGTATAAT-ATAA
1 AAAAATATAAATAAAATAATAA
* *
4393546 TAAAATACTAAATAGTAATAATAA
1 AAAAATA-TAAATA-AAATAATAA
* *
4393570 TAATAA-ATAAATGAAA-AATAA
1 -AAAAATATAAATAAAATAATAA
4393591 A
1 A
4393592 TATACATATA
Statistics
Matches: 85, Mismatches: 18, Indels: 18
0.70 0.15 0.15
Matches are distributed among these distances:
20 1 0.01
21 15 0.18
22 45 0.53
23 16 0.19
24 5 0.06
25 3 0.04
ACGTcount: A:0.67, C:0.01, G:0.05, T:0.28
Consensus pattern (22 bp):
AAAAATATAAATAAAATAATAA
Found at i:4393518 original size:24 final size:24
Alignment explanation
Indices: 4393473--4393550 Score: 79
Period size: 22 Copynumber: 3.3 Consensus size: 24
4393463 ATATAATGAA
* *
4393473 AATAAATAAATAGTATAAATAAAAT
1 AATAAAAAAATA-TATATATAAAAT
4393498 AATAAAAAAATATATATAT-AAA-
1 AATAAAAAAATATATATATAAAAT
* * * *
4393520 AATATAAAAATGTATGTATAATAT
1 AATAAAAAAATATATATATAAAAT
4393544 AATAAAA
1 AATAAAA
4393551 TACTAAATAG
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
22 16 0.36
23 5 0.11
24 12 0.27
25 11 0.25
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (24 bp):
AATAAAAAAATATATATATAAAAT
Found at i:4393821 original size:23 final size:23
Alignment explanation
Indices: 4393792--4393838 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
4393782 ACGCAAAGAA
4393792 AAATAAAAAAAATTATAA-TAAAT
1 AAATAAAAAAAA-TATAATTAAAT
*
4393815 AAATAAATAAAATATAATTAAAT
1 AAATAAAAAAAATATAATTAAAT
4393838 A
1 A
4393839 TATATATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 5 0.23
23 17 0.77
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (23 bp):
AAATAAAAAAAATATAATTAAAT
Found at i:4394306 original size:37 final size:37
Alignment explanation
Indices: 4394257--4394349 Score: 105
Period size: 37 Copynumber: 2.5 Consensus size: 37
4394247 ATGCTTGTGG
* * * *
4394257 ATCATATCTTTAGGAGTTTAAATAATTGTAGAATTCT
1 ATCATATTTTTAGGAGTTTAAATAATAGCAAAATTCT
* * **
4394294 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTCT
1 ATCATATTTTTAGGAGTTTAAATAATAGCAAAATTCT
*
4394331 ATCATATTTTTAAGAGTTT
1 ATCATATTTTTAGGAGTTT
4394350 GAATCCTAAT
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.32, C:0.11, G:0.13, T:0.44
Consensus pattern (37 bp):
ATCATATTTTTAGGAGTTTAAATAATAGCAAAATTCT
Found at i:4402453 original size:2 final size:2
Alignment explanation
Indices: 4402446--4402473 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4402436 AATAGTTAAA
4402446 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4402474 TTGAATTGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4403820 original size:29 final size:29
Alignment explanation
Indices: 4403788--4403868 Score: 144
Period size: 29 Copynumber: 2.8 Consensus size: 29
4403778 AAAAGCATGT
4403788 CCCTAATAACAAATATTGAAAAACTTAGA
1 CCCTAATAACAAATATTGAAAAACTTAGA
*
4403817 CCCTAATAACAAATATTGAAAAACTTGGA
1 CCCTAATAACAAATATTGAAAAACTTAGA
*
4403846 CCCTAATAACAAGTATTGAAAAA
1 CCCTAATAACAAATATTGAAAAA
4403869 ATAGGACCTT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 50 1.00
ACGTcount: A:0.51, C:0.17, G:0.09, T:0.23
Consensus pattern (29 bp):
CCCTAATAACAAATATTGAAAAACTTAGA
Found at i:4403875 original size:29 final size:29
Alignment explanation
Indices: 4403788--4403899 Score: 136
Period size: 29 Copynumber: 3.9 Consensus size: 29
4403778 AAAAGCATGT
*
4403788 CCCTAATAACAAATATTGAAAAACTTA-GA
1 CCCTAATAACAAATATTGAAAAA-ATAGGA
* *
4403817 CCCTAATAACAAATATTGAAAAACTTGGA
1 CCCTAATAACAAATATTGAAAAAATAGGA
*
4403846 CCCTAATAACAAGTATTGAAAAAATAGGA
1 CCCTAATAACAAATATTGAAAAAATAGGA
* * * *
4403875 CCTTTATAACAAATGTTAAAAAAAT
1 CCCTAATAACAAATATTGAAAAAAT
4403900 TATAAATTAT
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
28 1 0.01
29 71 0.99
ACGTcount: A:0.51, C:0.15, G:0.09, T:0.25
Consensus pattern (29 bp):
CCCTAATAACAAATATTGAAAAAATAGGA
Found at i:4403884 original size:58 final size:58
Alignment explanation
Indices: 4403788--4403897 Score: 150
Period size: 58 Copynumber: 1.9 Consensus size: 58
4403778 AAAAGCATGT
* *
4403788 CCCTAATAACAAATATTGAAAAACTTAGACCCTAATAACAAATATTGAAAAACTTGGA
1 CCCTAATAACAAATATTGAAAAACATAGACCCTAATAACAAATATTAAAAAACTTGGA
* * * *
4403846 CCCTAATAACAAGTATTGAAAAA-ATAGGACCTTTATAACAAATGTTAAAAAA
1 CCCTAATAACAAATATTGAAAAACATA-GACCCTAATAACAAATATTAAAAAA
4403898 ATTATAAATT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.04
58 43 0.96
ACGTcount: A:0.51, C:0.15, G:0.09, T:0.25
Consensus pattern (58 bp):
CCCTAATAACAAATATTGAAAAACATAGACCCTAATAACAAATATTAAAAAACTTGGA
Found at i:4404136 original size:19 final size:19
Alignment explanation
Indices: 4404112--4404148 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
4404102 ATGACCAACA
*
4404112 AAATCGCAATGCGATCTCT
1 AAATCGCAACGCGATCTCT
4404131 AAATCGCAACGCGATCTC
1 AAATCGCAACGCGATCTC
4404149 CAGTAACGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:4404197 original size:20 final size:20
Alignment explanation
Indices: 4404174--4404248 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
4404164 GTTTCCAGAT
4404174 TCGCAACGCGATTTTGACTA
1 TCGCAACGCGATTTTGACTA
* * *
4404194 TCGCAACGCGAATATGTA-AA
1 TCGCAACGCGATTTTG-ACTA
* *
4404214 TCGCAACGTGATTCTGACTA
1 TCGCAACGCGATTTTGACTA
*
4404234 TCGCAATGCGATTTT
1 TCGCAACGCGATTTT
4404249 CAAAGCGCCA
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
19 1 0.02
20 41 0.95
21 1 0.02
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (20 bp):
TCGCAACGCGATTTTGACTA
Found at i:4404419 original size:22 final size:22
Alignment explanation
Indices: 4404391--4404463 Score: 128
Period size: 22 Copynumber: 3.3 Consensus size: 22
4404381 CTACGGTGAC
*
4404391 ATCCGTCCCCATATCCGACGAA
1 ATCCGTCCCCATCTCCGACGAA
4404413 ATCCGTCCCCATCTCCGACGAA
1 ATCCGTCCCCATCTCCGACGAA
*
4404435 ATCCGTCCCCATCTCCGGCGAA
1 ATCCGTCCCCATCTCCGACGAA
4404457 ATCCGTC
1 ATCCGTC
4404464 TATCTCCATC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 49 1.00
ACGTcount: A:0.22, C:0.44, G:0.15, T:0.19
Consensus pattern (22 bp):
ATCCGTCCCCATCTCCGACGAA
Found at i:4404894 original size:20 final size:20
Alignment explanation
Indices: 4404869--4404917 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
4404859 TTTAGTTTCA
4404869 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
**
4404889 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
*
4404909 TGTTGCGAT
1 CGTTGCGAT
4404918 TTTCATTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.37
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:4404923 original size:20 final size:20
Alignment explanation
Indices: 4404885--4404940 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
4404875 GATAGTCAAA
* **
4404885 TTCGCGTTGCGATAGTCATT
1 TTCGTGTTGCGATTTTCATT
4404905 TTCGTGTTGCGATTTTCATT
1 TTCGTGTTGCGATTTTCATT
*
4404925 TTTGTGTTGCGATTTT
1 TTCGTGTTGCGATTTT
4404941 AAGTTTCAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.11, C:0.14, G:0.23, T:0.52
Consensus pattern (20 bp):
TTCGTGTTGCGATTTTCATT
Found at i:4406952 original size:19 final size:19
Alignment explanation
Indices: 4406930--4406974 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
4406920 AAATCGCAAC
4406930 GCGAATTTAGTTTCGCGTT
1 GCGAATTTAGTTTCGCGTT
* * *
4406949 GCGATTTTGGTTTTGCGTT
1 GCGAATTTAGTTTCGCGTT
4406968 GC-AATTT
1 GCGAATTT
4406975 TCTCGTTGCG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 4 0.18
19 18 0.82
ACGTcount: A:0.13, C:0.13, G:0.27, T:0.47
Consensus pattern (19 bp):
GCGAATTTAGTTTCGCGTT
Found at i:4407015 original size:33 final size:33
Alignment explanation
Indices: 4406945--4407019 Score: 87
Period size: 33 Copynumber: 2.3 Consensus size: 33
4406935 TTTAGTTTCG
* * * * *
4406945 CGTTGCGATTTTGGTTTTGCGTTGCAATTTTCT
1 CGTTGCGATTTTGATTTCGCATTGCAATTATCC
* *
4406978 CGTTGCGATTTTTATTTCGCATTGCGATTATCC
1 CGTTGCGATTTTGATTTCGCATTGCAATTATCC
4407011 CGTTGCGAT
1 CGTTGCGAT
4407020 AGTCATTTTC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.12, C:0.19, G:0.23, T:0.47
Consensus pattern (33 bp):
CGTTGCGATTTTGATTTCGCATTGCAATTATCC
Found at i:4407049 original size:20 final size:20
Alignment explanation
Indices: 4407026--4407069 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
4407016 CGATAGTCAT
*
4407026 TTTCGCGTTGTGATTTTAAG
1 TTTCGCGTTGCGATTTTAAG
*
4407046 TTTCGTGTTGCGATTTTAAG
1 TTTCGCGTTGCGATTTTAAG
4407066 TTTC
1 TTTC
4407070 AGAAACTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.14, C:0.11, G:0.23, T:0.52
Consensus pattern (20 bp):
TTTCGCGTTGCGATTTTAAG
Found at i:4407581 original size:21 final size:21
Alignment explanation
Indices: 4407555--4407667 Score: 68
Period size: 21 Copynumber: 5.4 Consensus size: 21
4407545 CCTATCATCG
4407555 TTCAAGAGGCCTCTCCTATCA
1 TTCAAGAGGCCTCTCCTATCA
* * *
4407576 TTCAAGAGGCCACT-ATCATCC
1 TTCAAGAGGCCTCTCCT-ATCA
* * * * *
4407597 CTCAAGAGTCCCCTCCCATCG
1 TTCAAGAGGCCTCTCCTATCA
* *
4407618 TTCAAGAGGCCTCT-GTCATCG
1 TTCAAGAGGCCTCTCCT-ATCA
* * * *
4407639 TTGAAGAGGTCTCTCCCACCA
1 TTCAAGAGGCCTCTCCTATCA
4407660 TTCAAGAG
1 TTCAAGAG
4407668 CTCGATTCAC
Statistics
Matches: 67, Mismatches: 21, Indels: 8
0.70 0.22 0.08
Matches are distributed among these distances:
20 1 0.01
21 66 0.99
ACGTcount: A:0.24, C:0.34, G:0.18, T:0.25
Consensus pattern (21 bp):
TTCAAGAGGCCTCTCCTATCA
Found at i:4407622 original size:42 final size:42
Alignment explanation
Indices: 4407546--4407667 Score: 118
Period size: 42 Copynumber: 2.9 Consensus size: 42
4407536 ACCGACTCAC
** * *
4407546 CTATCATCGTTCAAGAGGCCTCTCCTATCATTCAAGAGGCCA
1 CTATCATCCCTCAAGAGGCCCCTCCCATCATTCAAGAGGCCA
* * *
4407588 CTATCATCCCTCAAGAGTCCCCTCCCATCGTTCAAGAGGCCT
1 CTATCATCCCTCAAGAGGCCCCTCCCATCATTCAAGAGGCCA
* ** * * * *
4407630 CTGTCATCGTTGAAGAGGTCTCTCCCACCATTCAAGAG
1 CTATCATCCCTCAAGAGGCCCCTCCCATCATTCAAGAG
4407668 CTCGATTCAC
Statistics
Matches: 64, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 64 1.00
ACGTcount: A:0.24, C:0.34, G:0.17, T:0.25
Consensus pattern (42 bp):
CTATCATCCCTCAAGAGGCCCCTCCCATCATTCAAGAGGCCA
Found at i:4409213 original size:20 final size:20
Alignment explanation
Indices: 4409188--4409260 Score: 78
Period size: 20 Copynumber: 3.6 Consensus size: 20
4409178 AGGTACACTT
4409188 TCGCAACGCT-AAACTCAAAA
1 TCGCAACG-TGAAACTCAAAA
* *
4409208 TCGCAATGTGAAAGTCAAAA
1 TCGCAACGTGAAACTCAAAA
*
4409228 TCGCAATGTGAAAGC-CAAAA
1 TCGCAACGTGAAA-CTCAAAA
*
4409248 TCGCAACGCGAAA
1 TCGCAACGTGAAA
4409261 TTTAATTCGC
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
19 1 0.02
20 45 0.98
ACGTcount: A:0.44, C:0.23, G:0.18, T:0.15
Consensus pattern (20 bp):
TCGCAACGTGAAACTCAAAA
Found at i:4409329 original size:20 final size:20
Alignment explanation
Indices: 4409304--4409422 Score: 97
Period size: 20 Copynumber: 6.2 Consensus size: 20
4409294 GCGATTTTCT
* *
4409304 CGTTGCGATAGTCAACTTCC
1 CGTTGCGATAGTCAAATTCA
*
4409324 CGTTGCGATAATCAAATTCA
1 CGTTGCGATAGTCAAATTCA
*
4409344 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCA
* **
4409364 CATTGCGAT--T----TTTG
1 CGTTGCGATAGTCAAATTCA
* * *
4409378 CGGTGCGATAGTCATATTCG
1 CGTTGCGATAGTCAAATTCA
*
4409398 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCA
4409418 CGTTG
1 CGTTG
4409423 TGTAATAAGT
Statistics
Matches: 81, Mismatches: 12, Indels: 12
0.77 0.11 0.11
Matches are distributed among these distances:
14 10 0.12
16 1 0.01
18 1 0.01
20 69 0.85
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.33
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCA
Found at i:4409330 original size:34 final size:33
Alignment explanation
Indices: 4409270--4409406 Score: 105
Period size: 34 Copynumber: 3.8 Consensus size: 33
4409260 ATTTAATTCG
* * *
4409270 CGTTGCAATAGTCTAATACGCTTTGCGATTTTCT
1 CGTTGCGATAGTC-AATTCGCGTTGCGATTTTCT
* *
4409304 CGTTGCGATAGTCAACTTCCCGTTGCGATAATCAAATTCA
1 CGTTGCGATAGTCAA-TTCGCGTTGCGAT--T----TTCT
*
4409344 CGTTGCGATAGTCAAATTCGCATTGCGATTTT-T
1 CGTTGCGATAGTC-AATTCGCGTTGCGATTTTCT
*
4409377 GCGGTGCGATAGTCATATTCGCGTTGCGAT
1 -CGTTGCGATAGTCA-ATTCGCGTTGCGAT
4409407 AGTCAAATTC
Statistics
Matches: 83, Mismatches: 10, Indels: 20
0.73 0.09 0.18
Matches are distributed among these distances:
33 3 0.04
34 49 0.59
36 1 0.01
38 1 0.01
40 27 0.33
41 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.35
Consensus pattern (33 bp):
CGTTGCGATAGTCAATTCGCGTTGCGATTTTCT
Found at i:4409385 original size:74 final size:74
Alignment explanation
Indices: 4409264--4409422 Score: 214
Period size: 74 Copynumber: 2.1 Consensus size: 74
4409254 CGCGAAATTT
* * *
4409264 AATTCGCGTTGCAATAGTCTAATACGCTTTGCGATTTTCTCGTTGCGATAGTCA-ACTTCCCGTT
1 AATTCGCGTTGCAATAGTCAAATACGCATTGCGATTTTCTCGGTGCGATAGTCATA-TTCCCGTT
4409328 GCGATAATCA
65 GCGATAATCA
* * * *
4409338 AATTCACGTTGCGATAGTCAAATTCGCATTGCGATTTT-TGCGGTGCGATAGTCATATTCGCGTT
1 AATTCGCGTTGCAATAGTCAAATACGCATTGCGATTTTCT-CGGTGCGATAGTCATATTCCCGTT
*
4409402 GCGATAGTCA
65 GCGATAATCA
4409412 AATTCGCGTTG
1 AATTCGCGTTG
4409423 TGTAATAAGT
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
73 1 0.01
74 72 0.97
75 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.35
Consensus pattern (74 bp):
AATTCGCGTTGCAATAGTCAAATACGCATTGCGATTTTCTCGGTGCGATAGTCATATTCCCGTTG
CGATAATCA
Found at i:4409640 original size:140 final size:143
Alignment explanation
Indices: 4409385--4409670 Score: 497
Period size: 140 Copynumber: 2.0 Consensus size: 143
4409375 TTGCGGTGCG
* **
4409385 ATAGTCATATTCGCGTTGCGATAGTCAAATTCGCGTTGTGTAATAAGTGATAACAACTGAACAGA
1 ATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCAATGTGTAATAAGTGATAACAACTGAACAGA
*
4409450 TCATAGTAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACA
66 TCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACA
4409515 TAAAATACACATA
131 TAAAATACACATA
* *
4409528 ATAGTCAAATTCGCGTTGCGATATTCAAA-T-G-AATGTGTAATAAGTGATAACAACTGAACATA
1 ATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCAATGTGTAATAAGTGATAACAACTGAACAGA
4409590 TCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACA
66 TCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACA
4409655 TAAAATACACATA
131 TAAAATACACATA
4409668 ATA
1 ATA
4409671 CAACGTTTGC
Statistics
Matches: 137, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
140 108 0.79
141 1 0.01
142 1 0.01
143 27 0.20
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.29
Consensus pattern (143 bp):
ATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCAATGTGTAATAAGTGATAACAACTGAACAGA
TCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACA
TAAAATACACATA
Found at i:4412974 original size:19 final size:19
Alignment explanation
Indices: 4412950--4412986 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
4412940 TGCGATACTG
*
4412950 GAGATCGCGTTGCGATTTA
1 GAGATCGCATTGCGATTTA
*
4412969 GAGATCGTATTGCGATTT
1 GAGATCGCATTGCGATTT
4412987 TGTTGGTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.22, C:0.14, G:0.30, T:0.35
Consensus pattern (19 bp):
GAGATCGCATTGCGATTTA
Found at i:4413460 original size:21 final size:21
Alignment explanation
Indices: 4413426--4413492 Score: 86
Period size: 21 Copynumber: 3.3 Consensus size: 21
4413416 AACTGGCTGA
*
4413426 AAATCGG-T-AAAACCGGGGT
1 AAATCGGCTGAAAACCGGAGT
4413445 AAATCGGCTGAAAACCGGAGT
1 AAATCGGCTGAAAACCGGAGT
* *
4413466 GAATCGGCTGAAAACCGGA-A
1 AAATCGGCTGAAAACCGGAGT
4413486 AAATCGG
1 AAATCGG
4413493 TTTGAACCGC
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
19 7 0.17
20 7 0.17
21 28 0.67
ACGTcount: A:0.39, C:0.18, G:0.30, T:0.13
Consensus pattern (21 bp):
AAATCGGCTGAAAACCGGAGT
Found at i:4422764 original size:21 final size:21
Alignment explanation
Indices: 4422740--4422783 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
4422730 GCACCATCAG
*
4422740 CAGTAGATGTGAGACCTCCAC
1 CAGTAGATGTGAGACCTCAAC
4422761 CAGTAGATGTGAGACCTCAAC
1 CAGTAGATGTGAGACCTCAAC
4422782 CA
1 CA
4422784 CCATTCCCTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.32, C:0.27, G:0.23, T:0.18
Consensus pattern (21 bp):
CAGTAGATGTGAGACCTCAAC
Found at i:4423399 original size:16 final size:16
Alignment explanation
Indices: 4423378--4423408 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
4423368 GAGCAAAGAG
4423378 TCACGATCAATGTATA
1 TCACGATCAATGTATA
4423394 TCACGATCAATGTAT
1 TCACGATCAATGTAT
4423409 TCAACTCTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.32
Consensus pattern (16 bp):
TCACGATCAATGTATA
Found at i:4432272 original size:106 final size:106
Alignment explanation
Indices: 4432087--4432284 Score: 306
Period size: 106 Copynumber: 1.9 Consensus size: 106
4432077 TGAGCTGAAG
* **
4432087 CAGTTATTATTGAACATGAACGGCTAATTTTGATGTAGCAAAAGACATAGAGGCTTTGTAATCTT
1 CAGTTATTATTGAACATAAACGGCTAATTTTGATGTAGCAAAAGACATAGAGGCTTTAAAATCTT
*
4432152 TGAAAAATCTTTGATGAATCACCTATAGAATCTCGCATTTC
66 TGAAAAACCTTTGATGAATCACCTATAGAATCTCGCATTTC
* * * * *
4432193 CAGTTATTATTTAATATAAATGGCTAATTTTGTTGTAGTAAAAGACATAGAGGCTTTAAAATCTT
1 CAGTTATTATTGAACATAAACGGCTAATTTTGATGTAGCAAAAGACATAGAGGCTTTAAAATCTT
*
4432258 TGAAAAACCTTTGATGAATCGCCTATA
66 TGAAAAACCTTTGATGAATCACCTATA
4432285 CAATTTTTTC
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
106 82 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (106 bp):
CAGTTATTATTGAACATAAACGGCTAATTTTGATGTAGCAAAAGACATAGAGGCTTTAAAATCTT
TGAAAAACCTTTGATGAATCACCTATAGAATCTCGCATTTC
Found at i:4434136 original size:21 final size:22
Alignment explanation
Indices: 4434110--4434159 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
4434100 TGAGCTATAA
4434110 CTTTGTAATAAG-GT-TGCTTGG
1 CTTTGTAATAAGTGTGTG-TTGG
4434131 CTTTGTAA-AAGTGTGTGTTGG
1 CTTTGTAATAAGTGTGTGTTGG
4434152 CTTT-TAAT
1 CTTTGTAAT
4434160 TTATTGATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
20 6 0.23
21 18 0.69
22 2 0.08
ACGTcount: A:0.20, C:0.08, G:0.26, T:0.46
Consensus pattern (22 bp):
CTTTGTAATAAGTGTGTGTTGG
Found at i:4435535 original size:12 final size:12
Alignment explanation
Indices: 4435518--4435545 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
4435508 CTTGGTCATA
4435518 CAACGACAAATC
1 CAACGACAAATC
4435530 CAACGACAAATC
1 CAACGACAAATC
4435542 CAAC
1 CAAC
4435546 AAAAGAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.50, C:0.36, G:0.07, T:0.07
Consensus pattern (12 bp):
CAACGACAAATC
Found at i:4443041 original size:20 final size:20
Alignment explanation
Indices: 4443016--4443053 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4443006 CTTGAGATAG
* *
4443016 GTAGTATTGATACTCTAGTT
1 GTAGTATCGATACCCTAGTT
4443036 GTAGTATCGATACCCTAG
1 GTAGTATCGATACCCTAG
4443054 GGTCAAGTAT
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:0.26, C:0.16, G:0.21, T:0.37
Consensus pattern (20 bp):
GTAGTATCGATACCCTAGTT
Found at i:4448726 original size:20 final size:20
Alignment explanation
Indices: 4448701--4448738 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4448691 TCTGAGGTAG
*
4448701 GTAGTATCAATACTCTAGTT
1 GTAGTATCAATACCCTAGTT
*
4448721 GTAGTATCGATACCCTAG
1 GTAGTATCAATACCCTAG
4448739 GGTCAAGTAT
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:0.29, C:0.18, G:0.18, T:0.34
Consensus pattern (20 bp):
GTAGTATCAATACCCTAGTT
Found at i:4451609 original size:64 final size:62
Alignment explanation
Indices: 4451534--4451849 Score: 213
Period size: 64 Copynumber: 5.0 Consensus size: 62
4451524 TTGTTATCTT
* * *
4451534 TTTAATTTTGAATATTAAAATATAATTATATACTTTTGTATATTTCAAATTAAAATAATATATA
1 TTTAAGTTTGAATATTAAAAGATAATTATAT-CTTTTGAATATTTCAAATTAAAATAATAT-TA
* * * * ** *
4451598 TTTAAGTTTGAATAGTAAAAG-GAGTT-TACCTTTTGACCATTGCAAATT-AAAT-ATATTA
1 TTTAAGTTTGAATATTAAAAGATAATTATATCTTTTGAATATTTCAAATTAAAATAATATTA
* * * * *
4451656 TTTAA-TTTGAATATTAGTAAGATAATTA-CTC-TTTGAATATGTCAATTTAAAA-AAGCGTTTG
1 TTTAAGTTTGAATATTA-AAAGATAATTATATCTTTTGAATATTTCAAATTAAAATAA-----TA
4451717 TTA
60 TTA
* * **
4451720 CCTTTTTAACTTTGAATATT-AAAGATAATTGTATACTTTTGTTTATTTCAAATTAAAATAATAT
1 ----TTTAAGTTTGAATATTAAAAGATAATTATAT-CTTTTGAATATTTCAAATTAAAATAATA-
4451784 TTTA
60 -TTA
** * *
4451788 TTTAAGTTTGAATGGTAAAAGA-AGTTTTATCTTTTGAATATTTCAAATTAAAAT-ATATTA
1 TTTAAGTTTGAATATTAAAAGATAATTATATCTTTTGAATATTTCAAATTAAAATAATATTA
4451848 TT
1 TT
4451850 ATCTGTTTAA
Statistics
Matches: 193, Mismatches: 37, Indels: 48
0.69 0.13 0.17
Matches are distributed among these distances:
57 10 0.05
58 22 0.11
59 12 0.06
60 9 0.05
61 15 0.08
62 5 0.03
63 25 0.13
64 41 0.21
65 5 0.03
66 1 0.01
67 9 0.05
68 9 0.05
69 11 0.06
70 17 0.09
71 2 0.01
ACGTcount: A:0.39, C:0.06, G:0.09, T:0.46
Consensus pattern (62 bp):
TTTAAGTTTGAATATTAAAAGATAATTATATCTTTTGAATATTTCAAATTAAAATAATATTA
Found at i:4451792 original size:190 final size:192
Alignment explanation
Indices: 4451466--4451849 Score: 542
Period size: 190 Copynumber: 2.0 Consensus size: 192
4451456 AAAGATAATT
* * * * * *
4451466 TTTAATTTGAATATTAAGAGGATAATTAATTTTTTAATAAGTCAATTTAAAAAGGTATTTGTTAT
1 TTTAATTTGAATATTAAGAAGATAATTAATCTTTGAATAAGTCAATTTAAAAAAGCATTTGTTAC
* *
4451531 CTTTTTAATTTTGAATATTAAAATATAATTATATACTTTTGTATATTTCAAATTAAAATAATATA
66 CTTTTTAACTTTGAATATTAAAAGATAATTATATACTTTTGTATATTTCAAATTAAAATAATATA
* *
4451596 TATTTAAGTTTGAATAGTAAAAGGAG-TTTACCTTTTGACCATTGCAAATT-AAATATATTA
131 TATTTAAGTTTGAATAGTAAAAGAAGTTTTACCTTTTGAACATTGCAAATTAAAATATATTA
* * *
4451656 TTTAATTTGAATATT-AGTAAGATAATTACTCTTTGAATATGTCAATTTAAAAAAGCGTTTGTTA
1 TTTAATTTGAATATTAAG-AAGATAATTAATCTTTGAATAAGTCAATTTAAAAAAGCATTTGTTA
* *
4451720 CCTTTTTAACTTTGAATATT-AAAGATAATTGTATACTTTTGTTTATTTCAAATTAAAATAATAT
65 CCTTTTTAACTTTGAATATTAAAAGATAATTATATACTTTTGTATATTTCAAATTAAAATAATA-
* * * * *
4451784 TTTATTTAAGTTTGAATGGTAAAAGAAGTTTTATCTTTTGAATATTTCAAATTAAAATATATTA
129 TATATTTAAGTTTGAATAGTAAAAGAAGTTTTACCTTTTGAACATTGCAAATTAAAATATATTA
4451848 TT
1 TT
4451850 ATCTGTTTAA
Statistics
Matches: 170, Mismatches: 20, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
189 42 0.25
190 96 0.56
191 20 0.12
192 12 0.07
ACGTcount: A:0.39, C:0.05, G:0.10, T:0.46
Consensus pattern (192 bp):
TTTAATTTGAATATTAAGAAGATAATTAATCTTTGAATAAGTCAATTTAAAAAAGCATTTGTTAC
CTTTTTAACTTTGAATATTAAAAGATAATTATATACTTTTGTATATTTCAAATTAAAATAATATA
TATTTAAGTTTGAATAGTAAAAGAAGTTTTACCTTTTGAACATTGCAAATTAAAATATATTA
Found at i:4453463 original size:28 final size:29
Alignment explanation
Indices: 4453410--4453468 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 29
4453400 AAATCTATCA
* *
4453410 AATTTTTAATATTTTGTGATT-CTTTTAC
1 AATTTTTAATATTTTATGATTATTTTTAC
*
4453438 AATTTTTCATATTTTCAT-ATTATTTTTAC
1 AATTTTTAATATTTT-ATGATTATTTTTAC
4453467 AA
1 AA
4453469 AATTTAGTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
28 17 0.65
29 9 0.35
ACGTcount: A:0.29, C:0.08, G:0.03, T:0.59
Consensus pattern (29 bp):
AATTTTTAATATTTTATGATTATTTTTAC
Found at i:4453918 original size:29 final size:30
Alignment explanation
Indices: 4453886--4453950 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 30
4453876 ATCAATATGG
*
4453886 CCACCAAACT-TTCAATTGAA-TCAATCAGA
1 CCACCAAACTATTCAATT-AATTCAATCAAA
* * *
4453915 CCACCCAACTATTTAATTAATTCAATGAAA
1 CCACCAAACTATTCAATTAATTCAATCAAA
4453945 CCACCA
1 CCACCA
4453951 GCCGTTAATT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
29 11 0.38
30 18 0.62
ACGTcount: A:0.42, C:0.29, G:0.05, T:0.25
Consensus pattern (30 bp):
CCACCAAACTATTCAATTAATTCAATCAAA
Found at i:4454261 original size:29 final size:29
Alignment explanation
Indices: 4454229--4454292 Score: 103
Period size: 29 Copynumber: 2.2 Consensus size: 29
4454219 AAAAAATCGG
4454229 TTAATTCGGTTC-GATTAATAATTTTCAAA
1 TTAATTCGGTTCAG-TTAATAATTTTCAAA
4454258 TTAATTCGGTTCAGTTAATAATTTTCAAA
1 TTAATTCGGTTCAGTTAATAATTTTCAAA
*
4454287 TAAATT
1 TTAATT
4454293 TTGGTTCGCT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
29 32 0.97
30 1 0.03
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.45
Consensus pattern (29 bp):
TTAATTCGGTTCAGTTAATAATTTTCAAA
Found at i:4454645 original size:16 final size:16
Alignment explanation
Indices: 4454626--4454661 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
4454616 TTACAATTAA
4454626 TTTAAAAAATAATTTG
1 TTTAAAAAATAATTTG
4454642 TTTAAAAAATAATTTG
1 TTTAAAAAATAATTTG
4454658 TTTA
1 TTTA
4454662 GTTTTTTATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (16 bp):
TTTAAAAAATAATTTG
Found at i:4455451 original size:48 final size:48
Alignment explanation
Indices: 4455373--4455585 Score: 179
Period size: 48 Copynumber: 4.4 Consensus size: 48
4455363 TATAATATAG
* *
4455373 TTTTTAAAAAACATATAATATAGTTTTTGAAAACATATTATATAGTTTA
1 TTTTTAAAATATATAT-ATATAGTTTTTGAAAACATATTATATAGTTTA
*
4455422 TTTTTAAAATATATATATATAGTTTTTGAAAATATA-TAGTATAGTTT-
1 TTTTTAAAATATATATATATAGTTTTTGAAAACATATTA-TATAGTTTA
* * * * *
4455469 TTTTTAACATAT-TGTTATATAGTTTTT-TAAACATATGTAATATATTTTT
1 TTTTTAAAATATAT-ATATATAGTTTTTGAAAACATAT-T-ATATAGTTTA
* * * * *
4455518 TTTTTGAAAACATAT-TATATA-ATTTTGAAAATATAATATATTA-TATA
1 TTTTT-AAAATATATATATATAGTTTTTGAAAACATATTATA-TAGTTTA
* *
4455565 GTTTTAATATATATATATATA
1 TTTTTAAAATATATATATATA
4455586 TATATATATT
Statistics
Matches: 134, Mismatches: 19, Indels: 24
0.76 0.11 0.14
Matches are distributed among these distances:
46 14 0.10
47 40 0.30
48 42 0.31
49 32 0.24
50 5 0.04
51 1 0.01
ACGTcount: A:0.41, C:0.02, G:0.06, T:0.50
Consensus pattern (48 bp):
TTTTTAAAATATATATATATAGTTTTTGAAAACATATTATATAGTTTA
Found at i:4455471 original size:23 final size:23
Alignment explanation
Indices: 4455314--4455519 Score: 156
Period size: 23 Copynumber: 8.9 Consensus size: 23
4455304 AATATATGAT
4455314 AATATATAGTATATAGTTTTTTGAA
1 AATATATA--ATATAGTTTTTTGAA
*
4455339 AA-ATA-AA-ATA-TTTTTTAAAA
1 AATATATAATATAGTTTTTT-GAA
**
4455359 AATATATAATATAGTTTTTAAAA
1 AATATATAATATAGTTTTTTGAA
*
4455382 AACATATAATATAG-TTTTTGAA
1 AATATATAATATAGTTTTTTGAA
* * *
4455404 AACATATTATATAGTTTATTTTTAA
1 AATATATAATATAG-TT-TTTTGAA
4455429 AATATATATATATAG-TTTTTGAA
1 AATATATA-ATATAGTTTTTTGAA
* *
4455452 AATATATAGTATAGTTTTTTTTAA
1 AATATATAATATAG-TTTTTTGAA
* * *
4455476 CATATTGTTATATAGTTTTTT-AA
1 AATA-TATAATATAGTTTTTTGAA
* *
4455499 ACATATGTAATATATTTTTTT
1 A-ATATATAATATAGTTTTTT
4455520 TTTGAAAACA
Statistics
Matches: 149, Mismatches: 19, Indels: 28
0.76 0.10 0.14
Matches are distributed among these distances:
19 6 0.04
20 7 0.05
21 4 0.03
22 26 0.17
23 50 0.34
24 29 0.19
25 21 0.14
26 6 0.04
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (23 bp):
AATATATAATATAGTTTTTTGAA
Found at i:4455543 original size:21 final size:21
Alignment explanation
Indices: 4455519--4455558 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4455509 TATATTTTTT
*
4455519 TTTTGAAAACATATTATATAA
1 TTTTGAAAACATAATATATAA
*
4455540 TTTTGAAAATATAATATAT
1 TTTTGAAAACATAATATAT
4455559 TATATAGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (21 bp):
TTTTGAAAACATAATATATAA
Found at i:4455551 original size:19 final size:21
Alignment explanation
Indices: 4455519--4455557 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
4455509 TATATTTTTT
*
4455519 TTTTGAAAACATATTATATAA
1 TTTTGAAAACATATAATATAA
4455540 TTTTG-AAA-ATATAATATA
1 TTTTGAAAACATATAATATA
4455558 TTATATAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.44
Consensus pattern (21 bp):
TTTTGAAAACATATAATATAA
Found at i:4455582 original size:26 final size:26
Alignment explanation
Indices: 4455529--4455591 Score: 83
Period size: 26 Copynumber: 2.4 Consensus size: 26
4455519 TTTTGAAAAC
4455529 ATATTATATAATTTTGAAAATATAAT
1 ATATTATATAATTTTGAAAATATAAT
* *
4455555 ATATTATATAGTTTT-AATATATATAT
1 ATATTATATAATTTTGAAAATATA-AT
4455581 ATATATATATA
1 ATAT-TATATA
4455592 TATTAAGCTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
25 7 0.21
26 20 0.61
27 6 0.18
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (26 bp):
ATATTATATAATTTTGAAAATATAAT
Found at i:4461809 original size:34 final size:34
Alignment explanation
Indices: 4461770--4461835 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
4461760 TTATTAAAGT
4461770 TTTTTTTATTTAATAGATAGTGAATTTTTAGTGG
1 TTTTTTTATTTAATAGATAGTGAATTTTTAGTGG
* *
4461804 TTTTTTTATTTAATGGGTAGTGAATTTTTAGT
1 TTTTTTTATTTAATAGATAGTGAATTTTTAGT
4461836 AGATGATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.24, C:0.00, G:0.18, T:0.58
Consensus pattern (34 bp):
TTTTTTTATTTAATAGATAGTGAATTTTTAGTGG
Found at i:4461890 original size:3 final size:3
Alignment explanation
Indices: 4461877--4461933 Score: 80
Period size: 3 Copynumber: 18.7 Consensus size: 3
4461867 TGTTAGTAGG
4461877 TAA TAA TTAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -AA TAA TAA
1 TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
4461922 TATT TAA TAA TA
1 TA-A TAA TAA TA
4461934 TTTTTTTCGA
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
2 2 0.04
3 42 0.86
4 5 0.10
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:4462318 original size:60 final size:60
Alignment explanation
Indices: 4462222--4462342 Score: 215
Period size: 60 Copynumber: 2.0 Consensus size: 60
4462212 GTTTTCTTTT
4462222 ATTAACTTTAATTTGAAAGTTTAATATTTTAAGGGTTAGTCTAAATATTTTAATGATTTG
1 ATTAACTTTAATTTGAAAGTTTAATATTTTAAGGGTTAGTCTAAATATTTTAATGATTTG
* * *
4462282 ATTAACTTTAATTTGAAAGTTTAATATTTTATGGGTTAGTTTAAATATTTTAATGGTTTG
1 ATTAACTTTAATTTGAAAGTTTAATATTTTAAGGGTTAGTCTAAATATTTTAATGATTTG
4462342 A
1 A
4462343 CTTTAGTAGT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.34, C:0.02, G:0.14, T:0.50
Consensus pattern (60 bp):
ATTAACTTTAATTTGAAAGTTTAATATTTTAAGGGTTAGTCTAAATATTTTAATGATTTG
Found at i:4462339 original size:21 final size:20
Alignment explanation
Indices: 4462239--4462339 Score: 64
Period size: 21 Copynumber: 5.0 Consensus size: 20
4462229 TTAATTTGAA
*
4462239 AGTTTAATATTTTAAGGGTT
1 AGTTTAATATTTTAATGGTT
* *
4462259 AGTCTAAATATTTTAATGATT
1 AGT-TTAATATTTTAATGGTT
* * * * **
4462280 TGATT-A-ACTTTAATTTGAA
1 AGTTTAATATTTTAA-TGGTT
4462299 AGTTTAATATTTT-ATGGGTT
1 AGTTTAATATTTTAAT-GGTT
4462319 AGTTTAAATATTTTAATGGTT
1 AGTTT-AATATTTTAATGGTT
4462340 TGACTTTAGT
Statistics
Matches: 57, Mismatches: 17, Indels: 13
0.66 0.20 0.15
Matches are distributed among these distances:
18 6 0.11
19 6 0.11
20 12 0.21
21 31 0.54
22 2 0.04
ACGTcount: A:0.33, C:0.02, G:0.15, T:0.50
Consensus pattern (20 bp):
AGTTTAATATTTTAATGGTT
Found at i:4463129 original size:111 final size:111
Alignment explanation
Indices: 4462907--4463111 Score: 374
Period size: 111 Copynumber: 1.8 Consensus size: 111
4462897 TACACTTTGC
* * *
4462907 TGATACGGTAACATTTTAATGTTTTAATTTAATTTAAATTATTAGTAATATTTAGTTGATTTATT
1 TGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAATAATTAGTTGATTCATT
4462972 TAATGCATGATTATTAGATTAAGAATTAAATATCTCGATACTTTAT
66 TAATGCATGATTATTAGATTAAGAATTAAATATCTCGATACTTTAT
4463018 TGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAATAATTAGTTGATTCATT
1 TGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAATAATTAGTTGATTCATT
*
4463083 TAATGTATGATTATTAGATTAAGAATTAA
66 TAATGCATGATTATTAGATTAAGAATTAA
4463112 TTTTTGTAAT
Statistics
Matches: 90, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
111 90 1.00
ACGTcount: A:0.37, C:0.05, G:0.11, T:0.47
Consensus pattern (111 bp):
TGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAATAATTAGTTGATTCATT
TAATGCATGATTATTAGATTAAGAATTAAATATCTCGATACTTTAT
Found at i:4468902 original size:50 final size:49
Alignment explanation
Indices: 4468780--4468902 Score: 142
Period size: 50 Copynumber: 2.5 Consensus size: 49
4468770 CTACGTGGAG
* *
4468780 TATAGCGCGGAT-CAGAGGGAGCGC-TATACCCACGTGGCGCCAGATCACCG
1 TATAGCGCGG-TGCA-AGGG-GCGCGTATACCCACGTGGCGCCAAATCACCA
* * * *
4468830 TATATCGCGGGGCAGGGGGCGCGTTATACCCACGTGGCGCCAAATCAGCA
1 TATAGCGCGGTGCAAGGGGCGCG-TATACCCACGTGGCGCCAAATCACCA
4468880 TATAGCGCGGTGCAAGGGGCGCG
1 TATAGCGCGGTGCAAGGGGCGCG
4468903 CTTTCCTGCT
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
48 4 0.07
49 3 0.05
50 54 0.89
ACGTcount: A:0.22, C:0.28, G:0.36, T:0.15
Consensus pattern (49 bp):
TATAGCGCGGTGCAAGGGGCGCGTATACCCACGTGGCGCCAAATCACCA
Found at i:4469491 original size:16 final size:17
Alignment explanation
Indices: 4469470--4469521 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 17
4469460 TTTTTAATTT
4469470 AATTACT-TAACTTTCA
1 AATTACTCTAACTTTCA
4469486 AATTACTCCTAA-TTT--
1 AATTACT-CTAACTTTCA
*
4469501 AATCACTCTAACTTTCA
1 AATTACTCTAACTTTCA
4469518 AATT
1 AATT
4469522 TATTTTTTAG
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
14 4 0.14
15 9 0.31
16 7 0.24
17 6 0.21
18 3 0.10
ACGTcount: A:0.37, C:0.21, G:0.00, T:0.42
Consensus pattern (17 bp):
AATTACTCTAACTTTCA
Found at i:4471895 original size:16 final size:15
Alignment explanation
Indices: 4471874--4471920 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
4471864 ATATATTTGT
4471874 AATAATATTTCAATTG
1 AATAATATTT-AATTG
4471890 AATAATATTT--TTG
1 AATAATATTTAATTG
4471903 TAATAATATTTTAATTG
1 -AATAATA-TTTAATTG
4471920 A
1 A
4471921 GTGATCTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
13 3 0.11
14 7 0.26
15 3 0.11
16 11 0.41
17 3 0.11
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (15 bp):
AATAATATTTAATTG
Found at i:4471896 original size:30 final size:30
Alignment explanation
Indices: 4471862--4471920 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
4471852 AACAACAAAT
4471862 TAATATATTTGTAATAATATTTCAATTGAA
1 TAATATATTTGTAATAATATTTCAATTGAA
* *
4471892 TAATATTTTTGTAATAATATTTTAATTGA
1 TAATATATTTGTAATAATATTTCAATTGA
4471921 GTGATCTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.51
Consensus pattern (30 bp):
TAATATATTTGTAATAATATTTCAATTGAA
Found at i:4471912 original size:14 final size:14
Alignment explanation
Indices: 4471862--4471914 Score: 63
Period size: 14 Copynumber: 3.6 Consensus size: 14
4471852 AACAACAAAT
*
4471862 TAATATATTTGTAA
1 TAATATTTTTGTAA
4471876 TAATATTTCAATTG-AA
1 TAATATTT---TTGTAA
4471892 TAATATTTTTGTAA
1 TAATATTTTTGTAA
4471906 TAATATTTT
1 TAATATTTT
4471915 AATTGAGTGA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
13 3 0.09
14 18 0.53
16 10 0.29
17 3 0.09
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.53
Consensus pattern (14 bp):
TAATATTTTTGTAA
Found at i:4472737 original size:53 final size:53
Alignment explanation
Indices: 4472626--4472741 Score: 132
Period size: 53 Copynumber: 2.2 Consensus size: 53
4472616 TATATGACCG
* **
4472626 TAATTTATCAAATAAAAAGTTATTTAATTCATGATTAAAATCAACTCATTTTTT
1 TAATTTATCAAATAAAAAGTTATTTAATTCATGATTAAAATCAACTCA-TATCA
*
4472680 TAATTTATTAAAT-AAAAGATTA-TTAATTCATGATTAAAATCTAACTTCA-ATCA
1 TAATTTATCAAATAAAAAG-TTATTTAATTCATGATTAAAATC-AAC-TCATATCA
4472733 TAA-TTATCA
1 TAATTTATCA
4472742 GTCCAAAAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
52 5 0.09
53 28 0.52
54 18 0.33
55 3 0.06
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.42
Consensus pattern (53 bp):
TAATTTATCAAATAAAAAGTTATTTAATTCATGATTAAAATCAACTCATATCA
Found at i:4475556 original size:31 final size:31
Alignment explanation
Indices: 4475518--4475586 Score: 120
Period size: 31 Copynumber: 2.2 Consensus size: 31
4475508 AAGGGTCGAG
*
4475518 TGTTTACCTATGTTCTTCGGGACATATGGAC
1 TGTTTACCTATGTTCTCCGGGACATATGGAC
4475549 TGTTTACCTATGTTCTCCGGGACATATGGAC
1 TGTTTACCTATGTTCTCCGGGACATATGGAC
*
4475580 TGATTAC
1 TGTTTAC
4475587 TTAGGGTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.38
Consensus pattern (31 bp):
TGTTTACCTATGTTCTCCGGGACATATGGAC
Found at i:4476065 original size:2 final size:2
Alignment explanation
Indices: 4476058--4476087 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4476048 TATTTATCCA
4476058 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4476088 TGTAACATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4476769 original size:64 final size:64
Alignment explanation
Indices: 4476661--4476818 Score: 162
Period size: 64 Copynumber: 2.5 Consensus size: 64
4476651 TCCCTTGTCA
* * **
4476661 GGTGCATCGATGCACT-GTCTATGCATCGGTGCATAAATCCCATTCGATGTTTGTA-TTTTAAGC
1 GGTGCATCGATGCACTCCT-TATGCATCGATGCATAAATCCCATTCGATGTTTCCATTTTTAA-C
4476724 G
64 G
** * *
4476725 GGTGCATCGATGCACTCCTTATGCATCGATGCACT-AATGGCATTCTATGTTTCCATTTTTAATG
1 GGTGCATCGATGCACTCCTTATGCATCGATGCA-TAAATCCCATTCGATGTTTCCATTTTTAACG
* *
4476789 GGTGCATCAATGCACTTCC-TGTGCATCGAT
1 GGTGCATCGATGCAC-TCCTTATGCATCGAT
4476819 ACACACTGAA
Statistics
Matches: 80, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
64 69 0.86
65 11 0.14
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.35
Consensus pattern (64 bp):
GGTGCATCGATGCACTCCTTATGCATCGATGCATAAATCCCATTCGATGTTTCCATTTTTAACG
Found at i:4479027 original size:30 final size:30
Alignment explanation
Indices: 4478993--4479094 Score: 195
Period size: 30 Copynumber: 3.4 Consensus size: 30
4478983 GACCAAAATA
4478993 AAAATTTGGAAAGTTTGATGGTCAAAGTAG
1 AAAATTTGGAAAGTTTGATGGTCAAAGTAG
*
4479023 AAAATTTGGAAAGTTTGATGGTTAAAGTAG
1 AAAATTTGGAAAGTTTGATGGTCAAAGTAG
4479053 AAAATTTGGAAAGTTTGATGGTCAAAGTAG
1 AAAATTTGGAAAGTTTGATGGTCAAAGTAG
4479083 AAAATTTGGAAA
1 AAAATTTGGAAA
4479095 CAAATTTAGG
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 70 1.00
ACGTcount: A:0.42, C:0.02, G:0.25, T:0.30
Consensus pattern (30 bp):
AAAATTTGGAAAGTTTGATGGTCAAAGTAG
Done.