Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 71 of 175
Found at i:21058652 original size:27 final size:26
Alignment explanation
Indices: 21058622--21058691 Score: 72
Period size: 27 Copynumber: 2.7 Consensus size: 26
21058612 TTTCTTTCTC
21058622 TTTCACTTATTTCTTTTTCAATCTCTT
1 TTTCA-TTATTTCTTTTTCAATCTCTT
* * * *
21058649 TTTCTTTTTTTTTTCTTTCAATTTCTT
1 TTTCATTATTTCTT-TTTCAATCTCTT
21058676 TTTCA--ATTTCTTTTTC
1 TTTCATTATTTCTTTTTC
21058692 TTTTTCTTTT
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
24 4 0.11
25 5 0.14
26 7 0.20
27 19 0.54
ACGTcount: A:0.11, C:0.19, G:0.00, T:0.70
Consensus pattern (26 bp):
TTTCATTATTTCTTTTTCAATCTCTT
Found at i:21058688 original size:39 final size:39
Alignment explanation
Indices: 21058606--21058742 Score: 168
Period size: 39 Copynumber: 3.4 Consensus size: 39
21058596 TTCATTCGCA
* * *
21058606 TTTTCTTTTCTTTCTCTTTCACTTATTTCTTTTTCAATCTCT
1 TTTTCTTTTTTTTTTCTTTCA---ATTTCTTTTTCAATTTCT
21058648 TTTTCTTTTTTTTTTCTTTCAATTTCTTTTTCAATTTCT
1 TTTTCTTTTTTTTTTCTTTCAATTTCTTTTTCAATTTCT
* **
21058687 TTTTCTTTTTCTTTTCTTTCAATTTCCTTTTTTTATTTC-
1 TTTTCTTTTTTTTTTCTTTCAATTT-CTTTTTCAATTTCT
21058726 TTTTCTTTTTCTTTTTC
1 TTTTCTTTTT-TTTTTC
21058743 ATTCTTTTTC
Statistics
Matches: 86, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
39 51 0.59
40 16 0.19
42 19 0.22
ACGTcount: A:0.08, C:0.19, G:0.00, T:0.73
Consensus pattern (39 bp):
TTTTCTTTTTTTTTTCTTTCAATTTCTTTTTCAATTTCT
Found at i:21058716 original size:28 final size:27
Alignment explanation
Indices: 21058676--21058733 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 27
21058666 TCAATTTCTT
21058676 TTTCAATTTCTTTTTCTT-TTTCTTTTC
1 TTTCAATTTCTTTTT-TTATTTCTTTTC
21058703 TTTCAATTTCCTTTTTTTATTTCTTTTC
1 TTTCAATTT-CTTTTTTTATTTCTTTTC
21058731 TTT
1 TTT
21058734 TTCTTTTTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
27 11 0.38
28 18 0.62
ACGTcount: A:0.09, C:0.17, G:0.00, T:0.74
Consensus pattern (27 bp):
TTTCAATTTCTTTTTTTATTTCTTTTC
Found at i:21075115 original size:50 final size:50
Alignment explanation
Indices: 21075040--21075175 Score: 182
Period size: 50 Copynumber: 2.7 Consensus size: 50
21075030 ACCAATCGAG
* **
21075040 AACACGCCTTTGCAGAAAGTGCCTAGCTGGTAGGCTAACATCCCTTCAGA
1 AACACGCCTTTGCACAAAGTGCCTAGCCCGTAGGCTAACATCCCTTCAGA
*
21075090 AACACGCCTTTGCACAAAGTGCCTAGCCCGTAGGCTAACATCCCTTCGGA
1 AACACGCCTTTGCACAAAGTGCCTAGCCCGTAGGCTAACATCCCTTCAGA
* ** * * *
21075140 AACACGTCTGGGCACCAAGTGCCAAGCCCGAAGGCT
1 AACACGCCTTTGCACAAAGTGCCTAGCCCGTAGGCT
21075176 TTACATCTGC
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 76 1.00
ACGTcount: A:0.27, C:0.32, G:0.23, T:0.18
Consensus pattern (50 bp):
AACACGCCTTTGCACAAAGTGCCTAGCCCGTAGGCTAACATCCCTTCAGA
Found at i:21081653 original size:18 final size:18
Alignment explanation
Indices: 21081625--21081681 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
21081615 GTTCACCATT
21081625 TCATATTCCATTTCACATA
1 TCAT-TTCCATTTCACATA
*
21081644 TCATTTCCATTTCTCA-A
1 TCATTTCCATTTCACATA
21081661 -CAATTTTCCATTTCA-ATA
1 TC-A-TTTCCATTTCACATA
21081679 TCA
1 TCA
21081682 AATATCTTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
16 1 0.03
17 3 0.09
18 23 0.72
19 5 0.16
ACGTcount: A:0.30, C:0.26, G:0.00, T:0.44
Consensus pattern (18 bp):
TCATTTCCATTTCACATA
Found at i:21081912 original size:37 final size:37
Alignment explanation
Indices: 21081833--21081914 Score: 119
Period size: 37 Copynumber: 2.2 Consensus size: 37
21081823 TAAGTTTGAC
* * *
21081833 ACCCAATGTCTCATCAGTTAAATCGAAGCAAATTGGA
1 ACCCAGTGTCTCATCAGTTAAACCAAAGCAAATTGGA
* *
21081870 ACCCAGTGTCTCATCGGTTAAACCAAAGTAAATTGGA
1 ACCCAGTGTCTCATCAGTTAAACCAAAGCAAATTGGA
21081907 ACCCAGTG
1 ACCCAGTG
21081915 CCTTATCGAC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.23
Consensus pattern (37 bp):
ACCCAGTGTCTCATCAGTTAAACCAAAGCAAATTGGA
Found at i:21082459 original size:15 final size:17
Alignment explanation
Indices: 21082439--21082471 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
21082429 TAGTATTATA
21082439 ATAAATT-T-TTATTTG
1 ATAAATTATGTTATTTG
21082454 ATAAATTATGTTATTTG
1 ATAAATTATGTTATTTG
21082471 A
1 A
21082472 AATAGTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 1 0.06
17 8 0.50
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (17 bp):
ATAAATTATGTTATTTG
Found at i:21086739 original size:15 final size:16
Alignment explanation
Indices: 21086712--21086742 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
21086702 TTGGAGTTAT
21086712 AATAAATAAAAGAAAG
1 AATAAATAAAAGAAAG
21086728 AATAAA-AAAAGAAAG
1 AATAAATAAAAGAAAG
21086743 GTAATGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (16 bp):
AATAAATAAAAGAAAG
Found at i:21088379 original size:40 final size:40
Alignment explanation
Indices: 21088324--21088559 Score: 402
Period size: 40 Copynumber: 5.9 Consensus size: 40
21088314 ATTTGAATAC
21088324 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
21088364 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
*
21088404 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
* *
21088444 GTACGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
*
21088484 ATCCGGGCTAAGA-CCGAAGGCAATTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
* * *
21088523 ATCCGGGCTAAGACCCAAAGGCATTCGTGCGAGTTGA
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGA
21088560 CCCGAAGGCA
Statistics
Matches: 184, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
39 38 0.21
40 146 0.79
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
Found at i:21088553 original size:119 final size:120
Alignment explanation
Indices: 21088327--21088559 Score: 432
Period size: 119 Copynumber: 1.9 Consensus size: 120
21088317 TGAATACATC
*
21088327 CGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATTTGT
1 CGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCAATTGT
* *
21088392 GCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATGTA
66 GCAAGTTGATATATCCGGGCTAAGACCCAAAGGCATTCGTGCGAGTTGATATGTA
21088447 CGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATATATCCGGGCTAAGA-CCGAAGGCAATTGT
1 CGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCAATTGT
21088511 GCAAGTTGATATATCCGGGCTAAGACCCAAAGGCATTCGTGCGAGTTGA
66 GCAAGTTGATATATCCGGGCTAAGACCCAAAGGCATTCGTGCGAGTTGA
21088560 CCCGAAGGCA
Statistics
Matches: 110, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
119 60 0.55
120 50 0.45
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (120 bp):
CGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCAATTGT
GCAAGTTGATATATCCGGGCTAAGACCCAAAGGCATTCGTGCGAGTTGATATGTA
Found at i:21090038 original size:11 final size:11
Alignment explanation
Indices: 21090022--21090048 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
21090012 CTTTTTCTTC
21090022 ATTTTGTTTTT
1 ATTTTGTTTTT
21090033 ATTTTGTTTTT
1 ATTTTGTTTTT
21090044 ATTTT
1 ATTTT
21090049 AACATTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.11, C:0.00, G:0.07, T:0.81
Consensus pattern (11 bp):
ATTTTGTTTTT
Found at i:21098051 original size:8 final size:8
Alignment explanation
Indices: 21098026--21098063 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
21098016 TAATATTTTT
21098026 TTTTTC-A
1 TTTTTCTA
21098033 TTTTTCATA
1 TTTTTC-TA
21098042 TTTTTCTA
1 TTTTTCTA
*
21098050 TTTTTCTC
1 TTTTTCTA
21098058 TTTTTC
1 TTTTTC
21098064 GATCACTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
7 6 0.21
8 15 0.54
9 7 0.25
ACGTcount: A:0.11, C:0.16, G:0.00, T:0.74
Consensus pattern (8 bp):
TTTTTCTA
Found at i:21100460 original size:8 final size:8
Alignment explanation
Indices: 21100433--21100496 Score: 71
Period size: 8 Copynumber: 8.1 Consensus size: 8
21100423 GGGTTTAAGG
*
21100433 TTTATTTT
1 TTTATATT
21100441 TTATATATT
1 TT-TATATT
*
21100450 TTTATAGT
1 TTTATATT
21100458 TTTA-ATT
1 TTTATATT
21100465 TTT-TATAT
1 TTTATAT-T
21100473 TTTATATT
1 TTTATATT
21100481 TTTATATT
1 TTTATATT
21100489 TTTA-ATT
1 TTTATATT
21100496 T
1 T
21100497 CTTTATATAT
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
7 11 0.22
8 28 0.57
9 10 0.20
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (8 bp):
TTTATATT
Found at i:21100467 original size:15 final size:14
Alignment explanation
Indices: 21100447--21100496 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 14
21100437 TTTTTTATAT
21100447 ATTTTTATAGTTTTA
1 ATTTTTATA-TTTTA
21100462 ATTTTTTATATTTTA
1 A-TTTTTATATTTTA
21100477 TATTTTTATATTTTTA
1 -ATTTTTATA-TTTTA
21100493 ATTT
1 ATTT
21100497 CTTTATATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
15 18 0.56
16 14 0.44
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (14 bp):
ATTTTTATATTTTA
Found at i:21100479 original size:31 final size:34
Alignment explanation
Indices: 21100444--21100518 Score: 111
Period size: 31 Copynumber: 2.3 Consensus size: 34
21100434 TTATTTTTTA
21100444 TATATTTTTATAGTTTTAATTT-TTTATAT-T-T
1 TATATTTTTATAGTTTTAATTTCTTTATATATAT
*
21100475 TATATTTTTATATTTTTAATTTCTTTATATATAT
1 TATATTTTTATAGTTTTAATTTCTTTATATATAT
*
21100509 TATTTTTTTA
1 TATATTTTTA
21100519 AATAATTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
31 21 0.54
32 7 0.18
33 1 0.03
34 10 0.26
ACGTcount: A:0.27, C:0.01, G:0.01, T:0.71
Consensus pattern (34 bp):
TATATTTTTATAGTTTTAATTTCTTTATATATAT
Found at i:21100545 original size:27 final size:29
Alignment explanation
Indices: 21100491--21100545 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
21100481 TTTATATTTT
21100491 TAATTTCTTTATATATATTATTTTTTTAAA
1 TAATTTCTTTATATATA-TATTTTTTTAAA
*
21100521 TAATTT-TTTATATATA-CTTTTTTTA
1 TAATTTCTTTATATATATATTTTTTTA
21100546 GATGTAAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 8 0.33
29 10 0.42
30 6 0.25
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (29 bp):
TAATTTCTTTATATATATATTTTTTTAAA
Found at i:21110948 original size:4 final size:4
Alignment explanation
Indices: 21110939--21110971 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
21110929 CTGAATCTAT
*
21110939 TTTA TTTA TTTA TTTA TTTA TTTC TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
21110972 ACTTTTGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:21116022 original size:51 final size:51
Alignment explanation
Indices: 21115904--21116146 Score: 289
Period size: 51 Copynumber: 4.8 Consensus size: 51
21115894 TATCATTCAA
* * *
21115904 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATCA-AACTTTCCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATAACTATCCGG
* *
21115954 TTCACGTAATAGCCTGCACATAGTACTACACACGTGACCATTAA-TATCCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA-TAACTATCCGG
*
21116005 TACACGTAGTAGCCTGCACATAGTACTACACACGTGATCA-AAGCTATCCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATAA-CTATCCGG
** * * * **
21116056 TATGCATAGTAGCCTGCACATAGTACTACACATGCGACC-TTTC-ATTCCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATAACTA-TCCGG
* *
21116106 TACATGTAGTAGCCTACACATAGTACTACACACGTGACCAT
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
21116147 CGCTTTCACT
Statistics
Matches: 163, Mismatches: 23, Indels: 13
0.82 0.12 0.07
Matches are distributed among these distances:
49 3 0.02
50 74 0.45
51 84 0.52
52 2 0.01
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (51 bp):
TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATAACTATCCGG
Found at i:21116045 original size:101 final size:101
Alignment explanation
Indices: 21115904--21116142 Score: 349
Period size: 101 Copynumber: 2.4 Consensus size: 101
21115894 TATCATTCAA
* *
21115904 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAA-CTTTCCGGT-T-CACGTAATAG
1 TACACGTAGTAGCCTACACATAGTACTACACACGTGATCAAAGCTATCCGGTATGCA--TAATAG
*
21115966 CCTGCACATAGTACTACACACGTGACCATTAATATCCGG
64 CCTGCACATAGTACTACACACGCGACCATTAAT-TCCGG
* *
21116005 TACACGTAGTAGCCTGCACATAGTACTACACACGTGATCAAAGCTATCCGGTATGCATAGTAGCC
1 TACACGTAGTAGCCTACACATAGTACTACACACGTGATCAAAGCTATCCGGTATGCATAATAGCC
* * *
21116070 TGCACATAGTACTACACATGCGACCTTTCATTCCGG
66 TGCACATAGTACTACACACGCGACCATTAATTCCGG
*
21116106 TACATGTAGTAGCCTACACATAGTACTACACACGTGA
1 TACACGTAGTAGCCTACACATAGTACTACACACGTGA
21116143 CCATCGCTTT
Statistics
Matches: 126, Mismatches: 9, Indels: 6
0.89 0.06 0.04
Matches are distributed among these distances:
101 81 0.64
102 42 0.33
103 1 0.01
104 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (101 bp):
TACACGTAGTAGCCTACACATAGTACTACACACGTGATCAAAGCTATCCGGTATGCATAATAGCC
TGCACATAGTACTACACACGCGACCATTAATTCCGG
Found at i:21119037 original size:9 final size:9
Alignment explanation
Indices: 21119021--21119070 Score: 59
Period size: 9 Copynumber: 5.7 Consensus size: 9
21119011 CCTATGAGTT
21119021 TCAAAAAAA
1 TCAAAAAAA
*
21119030 TTAAAAAAAA
1 -TCAAAAAAA
21119040 TC--AAAAA
1 TCAAAAAAA
21119047 TCAAAAAAA
1 TCAAAAAAA
21119056 TCAAAAAAA
1 TCAAAAAAA
*
21119065 TGAAAA
1 TCAAAA
21119071 TGATGGAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
7 7 0.20
9 20 0.57
10 8 0.23
ACGTcount: A:0.76, C:0.08, G:0.02, T:0.14
Consensus pattern (9 bp):
TCAAAAAAA
Found at i:21119095 original size:17 final size:17
Alignment explanation
Indices: 21119075--21119116 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
21119065 TGAAAATGAT
21119075 GGAAAAAG-AAAAGCAAA
1 GGAAAAAGAAAAAG-AAA
21119092 GGAAAAAGAAAAAGAAA
1 GGAAAAAGAAAAAGAAA
*
21119109 AGAAAAAG
1 GGAAAAAG
21119117 GAGAGGCCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 18 0.78
18 5 0.22
ACGTcount: A:0.74, C:0.02, G:0.24, T:0.00
Consensus pattern (17 bp):
GGAAAAAGAAAAAGAAA
Found at i:21119104 original size:7 final size:6
Alignment explanation
Indices: 21119076--21119116 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
21119066 GAAAATGATG
* *
21119076 GAAAAA G-AAAA GCAAAG GAAAAA GAAAAA G-AAAA GAAAAA G
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA G
21119117 GAGAGGCCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
5 10 0.33
6 20 0.67
ACGTcount: A:0.76, C:0.02, G:0.22, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:21119109 original size:11 final size:11
Alignment explanation
Indices: 21119076--21119116 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
21119066 GAAAATGATG
21119076 GAAAAAGAAAA
1 GAAAAAGAAAA
* *
21119087 GCAAAGGAAAAA
1 GAAAAAG-AAAA
21119099 GAAAAAGAAAA
1 GAAAAAGAAAA
21119110 GAAAAAG
1 GAAAAAG
21119117 GAGAGGCCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
11 16 0.64
12 9 0.36
ACGTcount: A:0.76, C:0.02, G:0.22, T:0.00
Consensus pattern (11 bp):
GAAAAAGAAAA
Found at i:21121493 original size:45 final size:45
Alignment explanation
Indices: 21121358--21121644 Score: 425
Period size: 45 Copynumber: 6.4 Consensus size: 45
21121348 CCCTAGAGTT
* * *
21121358 GCAGTGGAGTGGATTGAAGATAGCAGATCTTGTCTTCCTGTATTG
1 GCAGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTG
*
21121403 GCAGCGAAGTAGATCGAAGATAGCAG-TCTTGTCTTCCTGTATTG
1 GCAGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTG
*
21121447 GCAGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTG
1 GCAGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTG
* * *
21121492 GCAGTAAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATACTG
1 GCAGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTG
** * * *
21121537 GCAGCAAAGTAGATCGAAAATAGCAGATCTTGTCTTCCTGTGTTT
1 GCAGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTG
*
21121582 GCAGCGAAGTAGA-CTGAAGATAGCAGATCTTGTCTTCCTGTATTG
1 GCAGTGAAGTAGATC-GAAGATAGCAGATCTTGTCTTCCTGTATTG
21121627 GCAGTGAAGTAGATCGAA
1 GCAGTGAAGTAGATCGAA
21121645 TACACCAGCC
Statistics
Matches: 220, Mismatches: 19, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
44 44 0.20
45 175 0.80
46 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (45 bp):
GCAGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTG
Found at i:21121790 original size:89 final size:88
Alignment explanation
Indices: 21121403--21121794 Score: 312
Period size: 89 Copynumber: 4.4 Consensus size: 88
21121393 TCCTGTATTG
* *
21121403 GCAGCGAAGTAGA-TCGAAGATAGCAG-TCTTGTCTTCCTGTATTGGCAGTGAAGTAGATCGAAG
1 GCAGCGGAGTAGACT-GAAGATAGCAGATCTTGTCTTCCTGTACTGGCAGTGAAGTAGATCGAA-
* * * *
21121466 ATAGCAGATCTTGTCT-TCCT-A-TATT
64 ACACCA-ACCTTGCCTCT-CTGAGT-TT
*** * **
21121491 GGCAGTAAAGTAGA-TCGAAGATAGCAGATCTTGTCTTCCTATACTGGCAGCAAAGTAGATCGAA
1 -GCAGCGGAGTAGACT-GAAGATAGCAGATCTTGTCTTCCTGTACTGGCAGTGAAGTAGATCG-A
* * * * *
21121555 AATAGCAGATCTTGTCT-TCCTGTGTTT
63 AACACCA-ACCTTGCCTCT-CTGAGTTT
* *
21121582 GCAGCGAAGTAGACTGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATCGAATA
1 GCAGCGGAGTAGACTGAAGATAGCAGATCTTGTCTTCCTGTACTGGCAGTGAAGTAGATCGAA-A
* *
21121647 CACCAGCCTTGCCTCCCTGAGTTT
65 CACCAACCTTGCCTCTCTGAGTTT
* * * * * * * *
21121671 GCAACGGAGCAAACTAAAAACAGCAAATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGAAAG
1 GCAGCGGAGTAGACTGAAGATAGCAGATCTTGTCTTCCTGTACTGGCAGTGAAGTAGATCGAAA-
21121736 CACCAACCTTGCCTCTCTGAGTTT
65 CACCAACCTTGCCTCTCTGAGTTT
* * ** * *
21121760 GCAGTGGATTAGGTTGAAGATTGTAGATCTTGTCT
1 GCAGCGGAGTAGACTGAAGATAGCAGATCTTGTCT
21121795 CCCTAAGTAG
Statistics
Matches: 250, Mismatches: 45, Indels: 16
0.80 0.14 0.05
Matches are distributed among these distances:
88 1 0.00
89 136 0.54
90 107 0.43
91 5 0.02
92 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (88 bp):
GCAGCGGAGTAGACTGAAGATAGCAGATCTTGTCTTCCTGTACTGGCAGTGAAGTAGATCGAAAC
ACCAACCTTGCCTCTCTGAGTTT
Found at i:21122125 original size:44 final size:44
Alignment explanation
Indices: 21122066--21122177 Score: 136
Period size: 44 Copynumber: 2.5 Consensus size: 44
21122056 ATAACCACCT
* ***
21122066 TTATTTCCTTGAAGTTGCAGTGGAACCGGTTGAAGATATCAA-TC
1 TTATCTCCTTGAAGTTGCAGTGGAACAAATTGAAGATA-CAAGTC
* * *
21122110 TTATCTCCTTAAAGTTGCAGTGGGACAAATTGAAGTTACAAGTC
1 TTATCTCCTTGAAGTTGCAGTGGAACAAATTGAAGATACAAGTC
*
21122154 TTATCTCCCTGAAGTTGCAGTGGA
1 TTATCTCCTTGAAGTTGCAGTGGA
21122178 GTAGACTGAG
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 3 0.05
44 54 0.95
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (44 bp):
TTATCTCCTTGAAGTTGCAGTGGAACAAATTGAAGATACAAGTC
Found at i:21129838 original size:32 final size:32
Alignment explanation
Indices: 21129802--21129870 Score: 129
Period size: 32 Copynumber: 2.2 Consensus size: 32
21129792 ATATTTCATT
21129802 AATTTATTAAACAATTACTTGATTTTAACAAC
1 AATTTATTAAACAATTACTTGATTTTAACAAC
*
21129834 AATTTATTAAACAATTACTTGGTTTTAACAAC
1 AATTTATTAAACAATTACTTGATTTTAACAAC
21129866 AATTT
1 AATTT
21129871 TAAGTAAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.42, C:0.12, G:0.04, T:0.42
Consensus pattern (32 bp):
AATTTATTAAACAATTACTTGATTTTAACAAC
Found at i:21135920 original size:96 final size:94
Alignment explanation
Indices: 21135815--21135997 Score: 294
Period size: 96 Copynumber: 1.9 Consensus size: 94
21135805 CTCTAGTTAA
* * *
21135815 ATATTTAATTGGACATTGGAAACCCTTATGATCTTTTGAACTACACTAATAACATTGCACAAAAG
1 ATATTTAATTGGACACTGGAAACCCTTATGATCTTTTGAACT-CACCAATAACAGTGCACAAAAG
*
21135880 GTGATATCTCAATTGTATTCTCTCTATTTGG
65 GTGATATCTCAATCGTATT-TCTCTATTTGG
* *
21135911 ATATTTAATTGGACACTGGAAGCTCTTATGATCTTTTGAACTCACCAATAACAGTGCACAAAAGG
1 ATATTTAATTGGACACTGGAAACCCTTATGATCTTTTGAACTCACCAATAACAGTGCACAAAAGG
21135976 TGATATCTCAATCGTATTTCTC
66 TGATATCTCAATCGTATTTCTC
21135998 CTTTCATTTG
Statistics
Matches: 81, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
94 4 0.05
95 38 0.47
96 39 0.48
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (94 bp):
ATATTTAATTGGACACTGGAAACCCTTATGATCTTTTGAACTCACCAATAACAGTGCACAAAAGG
TGATATCTCAATCGTATTTCTCTATTTGG
Found at i:21137306 original size:17 final size:17
Alignment explanation
Indices: 21137269--21137316 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
21137259 GACTTTAGAA
*
21137269 GAATTTT-TGAATTAGT
1 GAATTTTGTGATTTAGT
*
21137285 GAATTTTGTGATTTATT
1 GAATTTTGTGATTTAGT
21137302 GAATTTTGTGATTTA
1 GAATTTTGTGATTTA
21137317 AAAAGAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 7 0.24
17 22 0.76
ACGTcount: A:0.27, C:0.00, G:0.19, T:0.54
Consensus pattern (17 bp):
GAATTTTGTGATTTAGT
Found at i:21138610 original size:46 final size:46
Alignment explanation
Indices: 21138545--21138679 Score: 227
Period size: 46 Copynumber: 2.9 Consensus size: 46
21138535 GCAAAGTATG
21138545 AAATGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGTTGTGA
1 AAAT-TAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGTTGTGA
21138592 AAATTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGTTGTGA
1 AAATTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGTTGTGA
* *
21138638 AAAGTAGGTATGGTATTTCCA-TGAAGAAAACCATACTGAGTT
1 AAATTAGGTATGGTGTTT-CAGTGAAGAAAACCATACTGAGTT
21138680 ATAGCAATGT
Statistics
Matches: 85, Mismatches: 2, Indels: 3
0.94 0.02 0.03
Matches are distributed among these distances:
46 79 0.93
47 6 0.07
ACGTcount: A:0.36, C:0.10, G:0.25, T:0.30
Consensus pattern (46 bp):
AAATTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGTTGTGA
Found at i:21144076 original size:75 final size:75
Alignment explanation
Indices: 21143993--21144149 Score: 296
Period size: 75 Copynumber: 2.1 Consensus size: 75
21143983 ACTCTAGTGC
*
21143993 TTCAAAAGATTTGTTTTATGTTTTGATTTATCTTAGCTTGAGAAATAAAGTTATGTGATTTTAAA
1 TTCAAAAGATTTGTTGTATGTTTTGATTTATCTTAGCTTGAGAAATAAAGTTATGTGATTTTAAA
21144058 ATGTGCATCT
66 ATGTGCATCT
21144068 TTCAAAAGATTTGTTGTATGTTTTGATTTATCTTAGCTTGAGAAATAAAGTTATGTGATTTTAAA
1 TTCAAAAGATTTGTTGTATGTTTTGATTTATCTTAGCTTGAGAAATAAAGTTATGTGATTTTAAA
21144133 ATGTGCATCT
66 ATGTGCATCT
21144143 TTGCAAA
1 TT-CAAA
21144150 TGTGAAAATT
Statistics
Matches: 80, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
75 76 0.95
76 4 0.05
ACGTcount: A:0.31, C:0.07, G:0.17, T:0.45
Consensus pattern (75 bp):
TTCAAAAGATTTGTTGTATGTTTTGATTTATCTTAGCTTGAGAAATAAAGTTATGTGATTTTAAA
ATGTGCATCT
Found at i:21145849 original size:49 final size:48
Alignment explanation
Indices: 21145722--21145866 Score: 132
Period size: 49 Copynumber: 3.0 Consensus size: 48
21145712 GTTGCATTGC
* ** * *
21145722 AACTCGGGC-TCCCAATTCAATGTGGTTATATGGTCATGGGTTTAAGTAT
1 AACT-GGGCATCCCAGTT-AATGTGGTTATGCGGTCACGGGTTCAAGTAT
* * ** *
21145771 AACTAGG-ACTCCTAGTTGACGGTGATTATGCGGTCACGGGTTCAAGTAT
1 AACTGGGCA-TCCCAGTT-AATGTGGTTATGCGGTCACGGGTTCAAGTAT
*
21145820 AACTGGGCATCCCAGTTAATGATGGTTATGCAGTCACGGGTTCAAGT
1 AACTGGGCATCCCAGTTAATG-TGGTTATGCGGTCACGGGTTCAAGT
21145867 TTCATGACAC
Statistics
Matches: 75, Mismatches: 17, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
48 4 0.05
49 70 0.93
50 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (48 bp):
AACTGGGCATCCCAGTTAATGTGGTTATGCGGTCACGGGTTCAAGTAT
Found at i:21147072 original size:18 final size:18
Alignment explanation
Indices: 21147049--21147085 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
21147039 AATCAAAGAA
21147049 ATTACAAAATATAAAATT
1 ATTACAAAATATAAAATT
21147067 ATTACAAAATATAAAATT
1 ATTACAAAATATAAAATT
21147085 A
1 A
21147086 AGACGACAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (18 bp):
ATTACAAAATATAAAATT
Found at i:21147233 original size:27 final size:27
Alignment explanation
Indices: 21147203--21147259 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
21147193 GAATGCAAAG
21147203 AAAGAAAATGAATTGGATATATATAGC
1 AAAGAAAATGAATTGGATATATATAGC
21147230 AAAGAAAATGAATTGGATATATATAGC
1 AAAGAAAATGAATTGGATATATATAGC
21147257 AAA
1 AAA
21147260 TAAACTAGTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.54, C:0.04, G:0.18, T:0.25
Consensus pattern (27 bp):
AAAGAAAATGAATTGGATATATATAGC
Found at i:21158851 original size:53 final size:51
Alignment explanation
Indices: 21158778--21158970 Score: 232
Period size: 50 Copynumber: 3.8 Consensus size: 51
21158768 CCGGTTCACA
*
21158778 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCTGATACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCTGGTACACG
* * * * *
21158829 TAGTAGCCTCTGCACATTGTACTACACATGTGATCGA--AGCTATCCGGTACGCA
1 TAGTAG-C-CTGCACATAGTACTACACATGTGA-CCATCA-CTATCTGGTACACG
*
21158882 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACC-ATCACTATCTGGTACACG
**
21158932 TAGTAGCCTGCACATAGTACTACACACATGACCATCACT
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACT
21158971 TTCACTTTCA
Statistics
Matches: 119, Mismatches: 15, Indels: 17
0.79 0.10 0.11
Matches are distributed among these distances:
49 4 0.03
50 40 0.34
51 30 0.25
52 3 0.03
53 40 0.34
54 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCTGGTACACG
Found at i:21162279 original size:16 final size:16
Alignment explanation
Indices: 21162258--21162290 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
21162248 ATTTGCGAAC
21162258 CTATATTACGTTATAA
1 CTATATTACGTTATAA
21162274 CTATATTACGTTATAA
1 CTATATTACGTTATAA
21162290 C
1 C
21162291 CCATTTTTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.15, G:0.06, T:0.42
Consensus pattern (16 bp):
CTATATTACGTTATAA
Found at i:21165567 original size:21 final size:20
Alignment explanation
Indices: 21165543--21165581 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
21165533 ATTTGGTAGC
* *
21165543 TTGTCTACATTATCTGGTGGG
1 TTGTCCACAATAT-TGGTGGG
21165564 TTGTCCACAATATTGGTG
1 TTGTCCACAATATTGGTG
21165582 TGTTAATAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.18, C:0.15, G:0.26, T:0.41
Consensus pattern (20 bp):
TTGTCCACAATATTGGTGGG
Found at i:21172539 original size:39 final size:39
Alignment explanation
Indices: 21172435--21172539 Score: 108
Period size: 39 Copynumber: 2.7 Consensus size: 39
21172425 TTATCGAAAT
21172435 CATTATTATAATTATTGTAATTATAA--TTTAGGATCAAA
1 CATTATTATAATTA-TGTAATTATAATTTTTAGGATCAAA
* * * * **
21172473 TATTATTATAATTACTCTAACTGTAATTTTTTTG-TCAAA
1 CATTATTATAATTA-TGTAATTATAATTTTTAGGATCAAA
21172512 CATTATTATAATTATGGTAATTATAATT
1 CATTATTATAATTAT-GTAATTATAATT
21172540 ATTATATTCG
Statistics
Matches: 53, Mismatches: 11, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
38 22 0.42
39 27 0.51
40 4 0.08
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.49
Consensus pattern (39 bp):
CATTATTATAATTATGTAATTATAATTTTTAGGATCAAA
Found at i:21180063 original size:16 final size:16
Alignment explanation
Indices: 21180044--21180074 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21180034 TTTGATCATA
21180044 TTTTTATTTAAATAAG
1 TTTTTATTTAAATAAG
*
21180060 TTTTTATTTTAATAA
1 TTTTTATTTAAATAA
21180075 ATTAATAGCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.61
Consensus pattern (16 bp):
TTTTTATTTAAATAAG
Found at i:21184166 original size:24 final size:25
Alignment explanation
Indices: 21184122--21184171 Score: 59
Period size: 24 Copynumber: 2.0 Consensus size: 25
21184112 ACCCTTCTCA
*
21184122 TCTCTTCACTTCTCTCTCATTTTTC
1 TCTCTTCACTTCTCTCTCATTGTTC
*
21184147 TCTCTTTA-TTCTCT-TCCATTGTTC
1 TCTCTTCACTTCTCTCT-CATTGTTC
21184171 T
1 T
21184172 TCATATTCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 1 0.05
24 14 0.64
25 7 0.32
ACGTcount: A:0.08, C:0.32, G:0.02, T:0.58
Consensus pattern (25 bp):
TCTCTTCACTTCTCTCTCATTGTTC
Found at i:21195321 original size:15 final size:16
Alignment explanation
Indices: 21195301--21195335 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
21195291 AGGAAACAAA
21195301 AGAAGAAAA-AAATGG
1 AGAAGAAAAGAAATGG
*
21195316 AGAAGAAAAGAAATTG
1 AGAAGAAAAGAAATGG
21195332 AGAA
1 AGAA
21195336 AATAAGTGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.66, C:0.00, G:0.26, T:0.09
Consensus pattern (16 bp):
AGAAGAAAAGAAATGG
Found at i:21207455 original size:21 final size:21
Alignment explanation
Indices: 21207423--21207469 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
21207413 ATTGTTCAAA
21207423 TATTTGATTTAG-TATTCCATT
1 TATTTGATTTAGTTATT-CATT
*
21207444 TATTT-ATCTTAGTTATTTATT
1 TATTTGAT-TTAGTTATTCATT
21207465 TATTT
1 TATTT
21207470 TTATTTGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 2 0.09
21 17 0.74
22 4 0.17
ACGTcount: A:0.23, C:0.06, G:0.06, T:0.64
Consensus pattern (21 bp):
TATTTGATTTAGTTATTCATT
Found at i:21223054 original size:10 final size:10
Alignment explanation
Indices: 21223039--21223068 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
21223029 TCAATGGCAA
21223039 GAAGAAGGCT
1 GAAGAAGGCT
21223049 GAAGAAGGCT
1 GAAGAAGGCT
*
21223059 GAAGATGGCT
1 GAAGAAGGCT
21223069 CCCACAATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.37, C:0.10, G:0.40, T:0.13
Consensus pattern (10 bp):
GAAGAAGGCT
Found at i:21224793 original size:23 final size:22
Alignment explanation
Indices: 21224741--21224793 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 22
21224731 TCCTTGTCTT
*
21224741 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
* *
21224763 CTTATTTTCTCTTCTTTCTTC-AA
1 TTTCTTTTCT-TTCTTT-TTCTAA
21224786 TTTCTTTT
1 TTTCTTTT
21224794 TCACTTTTCT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
22 7 0.29
23 14 0.58
24 3 0.12
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:21224807 original size:18 final size:18
Alignment explanation
Indices: 21224786--21224825 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
21224776 CTTTCTTCAA
* * *
21224786 TTTCTTTTTCACTTTTCT
1 TTTCTGTTTCACATTCCT
21224804 TTTCTGTTTCACATTCCT
1 TTTCTGTTTCACATTCCT
21224822 TTTC
1 TTTC
21224826 ACTCTCAATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.07, C:0.25, G:0.03, T:0.65
Consensus pattern (18 bp):
TTTCTGTTTCACATTCCT
Found at i:21229233 original size:50 final size:50
Alignment explanation
Indices: 21229107--21229349 Score: 206
Period size: 50 Copynumber: 4.8 Consensus size: 50
21229097 TCATAATAAC
* * * *
21229107 ATGCCAAAGCCATGTCCCAAACATGGTCTTACATGCGA-TGTTTC--CT-G
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACT-TCTCATCTCG
** * * * *
21229154 TACTGCCAATTTCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCG
1 -A-TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATCTCG
* ** *
21229206 ATGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATCTCG
* * * * *
21229256 GTGCCAACGTCATGTCCCAGACATGGTCTTACATGGGACCTCTCTTAATCTCAATA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CT-TC-TCATCTC---G
21229312 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
21229350 TCTCATTCCC
Statistics
Matches: 153, Mismatches: 31, Indels: 14
0.77 0.16 0.07
Matches are distributed among these distances:
48 1 0.01
49 33 0.22
50 72 0.47
51 3 0.02
52 3 0.02
53 6 0.04
56 35 0.23
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (50 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATCTCG
Found at i:21230980 original size:20 final size:20
Alignment explanation
Indices: 21230957--21231006 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
21230947 GGGCACCAAT
21230957 GTGCAAACAAGGGAATTGAA
1 GTGCAAACAAGGGAATTGAA
* * *
21230977 GTGCAAGCAAGGGCATTGAT
1 GTGCAAACAAGGGAATTGAA
21230997 GTGCAAACAA
1 GTGCAAACAA
21231007 TATAAGCGCA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.40, C:0.14, G:0.30, T:0.16
Consensus pattern (20 bp):
GTGCAAACAAGGGAATTGAA
Found at i:21233189 original size:20 final size:20
Alignment explanation
Indices: 21233169--21233208 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
21233159 CTGGAAAATT
21233169 ATATAAAATAAAATAATATTA
1 ATAT-AAATAAAATAATATTA
* *
21233190 ATATTAATAAGATAATATT
1 ATATAAATAAAATAATATT
21233209 TAGGAAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (20 bp):
ATATAAATAAAATAATATTA
Found at i:21233811 original size:9 final size:10
Alignment explanation
Indices: 21233781--21233953 Score: 62
Period size: 10 Copynumber: 17.8 Consensus size: 10
21233771 AAAGTTGTTT
21233781 AAAATT-TT-
1 AAAATTATTA
21233789 AAAATTATTA
1 AAAATTATTA
*
21233799 AAAATTATAA
1 AAAATTATTA
* *
21233809 AAAAATATTT
1 AAAATTATTA
21233819 AAAA-TATTTA
1 AAAATTA-TTA
** *
21233829 AATGTTATAA
1 AAAATTATTA
*
21233839 AAAATATTTTA
1 AAAAT-TATTA
21233850 AAAATT-TT-
1 AAAATTATTA
21233858 AAAATT-TGTA
1 AAAATTAT-TA
* *
21233868 AAAAATATTT
1 AAAATTATTA
*
21233878 AAAA-GATT-
1 AAAATTATTA
*
21233886 AAAATT-TGTG
1 AAAATTAT-TA
21233896 AAAATTATTA
1 AAAATTATTA
*
21233906 AAAAATA-T-
1 AAAATTATTA
* *
21233914 AAAATGATGA
1 AAAATTATTA
**
21233924 AAAATTGAAAAA
1 AAAATT--ATTA
*
21233936 AAAATTATTT
1 AAAATTATTA
21233946 AAAATTAT
1 AAAATTAT
21233954 AATAATTTTA
Statistics
Matches: 122, Mismatches: 27, Indels: 30
0.68 0.15 0.17
Matches are distributed among these distances:
8 23 0.19
9 12 0.10
10 67 0.55
11 12 0.10
12 8 0.07
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (10 bp):
AAAATTATTA
Found at i:21233822 original size:30 final size:28
Alignment explanation
Indices: 21233781--21233889 Score: 112
Period size: 30 Copynumber: 3.8 Consensus size: 28
21233771 AAAGTTGTTT
21233781 AAAAT-TTTAAAATTATTAAAAATTATAAA
1 AAAATATTTAAAA-TATTAAAAATTAT-AA
**
21233810 AAAATATTTAAAATATTTAAATGTTATAA
1 AAAATATTTAAAATA-TTAAAAATTATAA
* * *
21233839 AAAATATTTTAAAAATTTTAAAATTTGTAA
1 AAAATA-TTT-AAAATATTAAAAATTATAA
*
21233869 AAAATATTTAAAAGATTAAAA
1 AAAATATTTAAAATATTAAAA
21233890 TTTGTGAAAA
Statistics
Matches: 68, Mismatches: 8, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
28 10 0.15
29 18 0.26
30 35 0.51
31 5 0.07
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.39
Consensus pattern (28 bp):
AAAATATTTAAAATATTAAAAATTATAA
Found at i:21233899 original size:29 final size:28
Alignment explanation
Indices: 21233781--21233918 Score: 127
Period size: 28 Copynumber: 4.8 Consensus size: 28
21233771 AAAGTTGTTT
*
21233781 AAAAT-TTTAAAATTATTAAAAATTATAAA
1 AAAATATTTAAAA-TATTAAAATTTAT-AA
*
21233810 AAAATATTTAAAATATTTAAATGTTATAA
1 AAAATATTTAAAATATTAAAAT-TTATAA
* *
21233839 AAAATATTTTAAAAATTTTAAAATTTGTAA
1 AAAATA-TTT-AAAATATTAAAATTTATAA
* * *
21233869 AAAATATTTAAAAGATTAAAATTTGTGA
1 AAAATATTTAAAATATTAAAATTTATAA
* *
21233897 AAATTA-TTAAAAAATATAAAAT
1 AAAATATTTAAAATAT-TAAAAT
21233919 GATGAAAAAT
Statistics
Matches: 94, Mismatches: 10, Indels: 11
0.82 0.09 0.10
Matches are distributed among these distances:
27 8 0.09
28 27 0.29
29 23 0.24
30 25 0.27
31 11 0.12
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (28 bp):
AAAATATTTAAAATATTAAAATTTATAA
Found at i:21233928 original size:38 final size:35
Alignment explanation
Indices: 21233848--21233929 Score: 87
Period size: 38 Copynumber: 2.2 Consensus size: 35
21233838 AAAAATATTT
21233848 TAAAAATTTTAAAATTTGTAAAAAATATTTAAAAGA
1 TAAAAATTTTAAAATTTGTAAAAAATA-TTAAAAGA
*
21233884 TTAAAATTTGTGAAAATTAT-TAAAAAATA-TAAAATGA
1 TAAAAATTT-T-AAAATT-TGTAAAAAATATTAAAA-GA
21233921 TGAAAAATT
1 T-AAAAATT
21233930 GAAAAAAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
36 13 0.33
37 4 0.10
38 21 0.54
39 1 0.03
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.35
Consensus pattern (35 bp):
TAAAAATTTTAAAATTTGTAAAAAATATTAAAAGA
Found at i:21245271 original size:19 final size:20
Alignment explanation
Indices: 21245247--21245299 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 20
21245237 CAGCGATTAA
21245247 AAATTATTTTTTAT-AAAAT
1 AAATTATTTTTTATGAAAAT
* *
21245266 AAATTATATTATTATGAGAAT
1 AAATTAT-TTTTTATGAAAAT
*
21245287 -ATTTATTTTTTAT
1 AAATTATTTTTTAT
21245300 TTTATTTTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 13 0.46
20 11 0.39
21 4 0.14
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.55
Consensus pattern (20 bp):
AAATTATTTTTTATGAAAAT
Found at i:21247971 original size:13 final size:13
Alignment explanation
Indices: 21247953--21247978 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21247943 TTTCGAATCA
21247953 TGATAATTTAATT
1 TGATAATTTAATT
21247966 TGATAATTTAATT
1 TGATAATTTAATT
21247979 CCGTTCGGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (13 bp):
TGATAATTTAATT
Found at i:21250567 original size:59 final size:56
Alignment explanation
Indices: 21250496--21250606 Score: 150
Period size: 59 Copynumber: 1.9 Consensus size: 56
21250486 ATCACTTTAA
* * **
21250496 TATTAAATTAATATAATATTTATCTTGATAAATAATAGATTAAATTTAATATTAAATCT
1 TATTAAAATAATAGAATATTTATCTACA-AAATAA-AGATTAAATTTAAT-TTAAATCT
*
21250555 TATTAAAATAATAGAATATTTATCTACAAAATAAATATTAAATTTAATTTAA
1 TATTAAAATAATAGAATATTTATCTACAAAATAAAGATTAAATTTAATTTAA
21250607 TATTAAGATA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
56 4 0.09
57 13 0.28
58 6 0.13
59 24 0.51
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.43
Consensus pattern (56 bp):
TATTAAAATAATAGAATATTTATCTACAAAATAAAGATTAAATTTAATTTAAATCT
Found at i:21250651 original size:25 final size:25
Alignment explanation
Indices: 21250597--21250651 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
21250587 AAATATTAAA
*
21250597 TTTAATTTAATATTAAGATAATCAC
1 TTTAATTTAATATTAAGACAATCAC
*
21250622 TTTAATATTAA-ATTAATACAAT-AC
1 TTTAAT-TTAATATTAAGACAATCAC
21250646 TATTAA
1 T-TTAA
21250652 GATAAGTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 3 0.12
25 19 0.73
26 4 0.15
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (25 bp):
TTTAATTTAATATTAAGACAATCAC
Found at i:21250685 original size:37 final size:39
Alignment explanation
Indices: 21250588--21250694 Score: 104
Period size: 37 Copynumber: 2.9 Consensus size: 39
21250578 CTACAAAATA
*
21250588 AATATTAAATTTAAT-TT-AA-TATTAAGATAATCACTTT
1 AATATTAAATTTAATATTAAACTATTAAGATAATCAC-AT
*
21250625 AATATTAAA-TTAATA-CAATACTATTAAGATAAGT-A-AT
1 AATATTAAATTTAATATTAA-ACTATTAAGATAA-TCACAT
*
21250662 AA-ATTAAATTTAATATTAAACTATTAAAATAAT
1 AATATTAAATTTAATATTAAACTATTAAGATAAT
21250695 ATTATTTTTA
Statistics
Matches: 59, Mismatches: 4, Indels: 15
0.76 0.05 0.19
Matches are distributed among these distances:
36 12 0.20
37 31 0.53
38 3 0.05
39 12 0.20
40 1 0.02
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.40
Consensus pattern (39 bp):
AATATTAAATTTAATATTAAACTATTAAGATAATCACAT
Found at i:21250788 original size:14 final size:14
Alignment explanation
Indices: 21250769--21250804 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
21250759 TTCCACTACT
21250769 CAACCACCAAAGAC
1 CAACCACCAAAGAC
21250783 CAACCACCAAAGAC
1 CAACCACCAAAGAC
21250797 CAACCACC
1 CAACCACC
21250805 GCCGGCCACC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.47, C:0.47, G:0.06, T:0.00
Consensus pattern (14 bp):
CAACCACCAAAGAC
Found at i:21258139 original size:97 final size:99
Alignment explanation
Indices: 21258010--21258191 Score: 278
Period size: 97 Copynumber: 1.8 Consensus size: 99
21258000 TCACATATCG
*
21258010 GTGCCGATGCAATGTCCCAGACATGGTCTTACACTAACACTCATC-TC-GAGTCAATGCCATGTC
1 GTGCCGATGCAATGTCCCAGACATGGTCTTACACTAACACTCATCATCTGAGCCAATGCCATGTC
21258073 CCAGACATGGTCTTACACTGACTCTCCTCTACCC
66 CCAGACATGGTCTTACACTGACTCTCCTCTACCC
* * * * * *
21258107 GTGCTGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCCTCGATCTGTGCCGATGCCATGT
1 GTGCCGATGCAATGTCCCAGACATGGTCTTACACTAACACTCATC-ATCTGAGCCAATGCCATGT
21258172 CCCAGACATGGTCTTACACT
65 CCCAGACATGGTCTTACACT
21258192 AGCACACTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
97 41 0.55
99 2 0.03
100 32 0.43
ACGTcount: A:0.22, C:0.33, G:0.19, T:0.26
Consensus pattern (99 bp):
GTGCCGATGCAATGTCCCAGACATGGTCTTACACTAACACTCATCATCTGAGCCAATGCCATGTC
CCAGACATGGTCTTACACTGACTCTCCTCTACCC
Found at i:21258193 original size:50 final size:48
Alignment explanation
Indices: 21257963--21258196 Score: 235
Period size: 50 Copynumber: 4.8 Consensus size: 48
21257953 CATGATAGGA
* * * * *
21257963 TGCCAATGCCATATCCCAGATATGGTCTTACA-TGGGA-TCACAT-ATCGG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTC-C-TCATC-G
* * *
21258011 TGCCGATGCAATGTCCCAGACATGGTCTTACACTAACACTCATC-TCG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCCTCATCG
* * * * *
21258058 AGTCAATGCCATGTCCCAGACATGGTCTTACACT-GACTCTCCTCTACCCG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CACTCCTC-A-TCG
*
21258108 TGCTGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCCTCGATCTG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCCTC-ATC-G
21258158 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCAC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCAC
21258197 ACTCACTGCC
Statistics
Matches: 153, Mismatches: 24, Indels: 16
0.79 0.12 0.08
Matches are distributed among these distances:
47 37 0.24
48 31 0.20
49 3 0.02
50 81 0.53
51 1 0.01
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.26
Consensus pattern (48 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCCTCATCG
Found at i:21258220 original size:50 final size:48
Alignment explanation
Indices: 21258021--21258220 Score: 144
Period size: 50 Copynumber: 4.1 Consensus size: 48
21258011 TGCCGATGCA
* *
21258021 ATGTCCCAGACATGGTCTTACACTA-ACACTCATCTCGA--GTCAATGCC
1 ATGTCCCAGACATGGTCTTACACTAGACACTCA-CTCCATGGTC-ATACC
* * * * * *
21258068 ATGTCCCAGACATGGTCTTACACT-GACTCTCCTCTACCCGTGCTGATGCC
1 ATGTCCCAGACATGGTCTTACACTAGACACT-CACT--CCATGGTCATACC
* * *
21258118 ATGTCCCAGACATGGTCTTACACTAG-CACTC-CTCGATCTGTGCCGATGCC
1 ATGTCCCAGACATGGTCTTACACTAGACACTCACTCCA--TG-GTC-ATACC
21258168 ATGTCCCAGACATGGTCTTACACTAGCACACTCACTGCCATGGTCCA-ACC
1 ATGTCCCAGACATGGTCTTACACTAG-ACACTCACT-CCATGGT-CATACC
21258218 ATG
1 ATG
21258221 GCCTTTTTTT
Statistics
Matches: 122, Mismatches: 15, Indels: 29
0.73 0.09 0.17
Matches are distributed among these distances:
46 1 0.01
47 30 0.25
48 5 0.04
49 2 0.02
50 68 0.56
51 4 0.03
52 8 0.07
53 2 0.02
54 2 0.02
ACGTcount: A:0.23, C:0.34, G:0.17, T:0.26
Consensus pattern (48 bp):
ATGTCCCAGACATGGTCTTACACTAGACACTCACTCCATGGTCATACC
Found at i:21258636 original size:42 final size:42
Alignment explanation
Indices: 21258588--21258680 Score: 132
Period size: 42 Copynumber: 2.2 Consensus size: 42
21258578 TTGGTATTGT
* *
21258588 ACACTTAGTGCCCGTTATTCGACATCGCCATTTTTGTTTCAC
1 ACACTTAGTGCCCGTTATTCAACATCGCCATTTTAGTTTCAC
** * *
21258630 ACACTTAGTGCCCGTTATTCAATGTCGTCATTTTAGTTTCAT
1 ACACTTAGTGCCCGTTATTCAACATCGCCATTTTAGTTTCAC
21258672 ACACTTAGT
1 ACACTTAGT
21258681 TCCATTCGTA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.22, C:0.25, G:0.14, T:0.40
Consensus pattern (42 bp):
ACACTTAGTGCCCGTTATTCAACATCGCCATTTTAGTTTCAC
Found at i:21261495 original size:20 final size:18
Alignment explanation
Indices: 21261445--21261553 Score: 73
Period size: 18 Copynumber: 5.9 Consensus size: 18
21261435 CTACAAGATA
21261445 AATATTAAATTAA-ATTT
1 AATATTAAATTAATATTT
21261462 AATATTAAGA-TAATCACTTT
1 AATATTAA-ATTAAT-A-TTT
**
21261482 AATATTAAATTAATAAAT
1 AATATTAAATTAATATTT
* *
21261500 ACTATTAAGA-TAATTATTA
1 AATATTAA-ATTAA-TATTT
* *
21261519 AAT-TTAATTTAATATTA
1 AATATTAAATTAATATTT
*
21261536 AACTATTAAAATAATATT
1 AA-TATTAAATTAATATT
21261554 ATTTTTGGAA
Statistics
Matches: 72, Mismatches: 10, Indels: 18
0.72 0.10 0.18
Matches are distributed among these distances:
17 18 0.25
18 20 0.28
19 19 0.26
20 15 0.21
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
AATATTAAATTAATATTT
Found at i:21263702 original size:51 final size:49
Alignment explanation
Indices: 21263570--21263759 Score: 209
Period size: 51 Copynumber: 3.8 Consensus size: 49
21263560 ATTATTATCA
* * * *
21263570 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAACTT
1 TTCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAC-C
* * * *
21263620 TTTGGTTCACGTAGTAGCCTGTACATTGTACTACACACGTGACCAAAGCC
1 TTCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAA-CC
* * * *
21263670 TTCCGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCATTATC
1 TT-CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA-AACC
* *
21263721 TATCGATACACGTAGTAGCCTGCACTTAGTACTACACAC
1 T-TCGGTACACGTAGTAGCCTGCACATAGTACTACACAC
21263760 TTGTTTATAG
Statistics
Matches: 116, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
50 42 0.36
51 72 0.62
52 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.27
Consensus pattern (49 bp):
TTCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAACC
Found at i:21270644 original size:20 final size:20
Alignment explanation
Indices: 21270619--21270694 Score: 102
Period size: 20 Copynumber: 3.9 Consensus size: 20
21270609 TTCATGTGGT
21270619 TCAGCTCACTT-GAGCTCAAG
1 TCAGCTCA-TTCGAGCTCAAG
21270639 TCAGCTCATTCGAGCTCAAG
1 TCAGCTCATTCGAGCTCAAG
* *
21270659 TCAGCTCATTCGAGCTTAAT
1 TCAGCTCATTCGAGCTCAAG
*
21270679 TCATCTCATT-GAGCTC
1 TCAGCTCATTCGAGCTC
21270695 GTTATTAGCT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
19 7 0.14
20 44 0.86
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.30
Consensus pattern (20 bp):
TCAGCTCATTCGAGCTCAAG
Found at i:21272166 original size:13 final size:12
Alignment explanation
Indices: 21272148--21272178 Score: 53
Period size: 13 Copynumber: 2.5 Consensus size: 12
21272138 ATTGTAATTG
21272148 AAAAAAAAATCGA
1 AAAAAAAAATC-A
21272161 AAAAAAAAATCA
1 AAAAAAAAATCA
21272173 AAAAAA
1 AAAAAA
21272179 TTCGAAATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 7 0.39
13 11 0.61
ACGTcount: A:0.84, C:0.06, G:0.03, T:0.06
Consensus pattern (12 bp):
AAAAAAAAATCA
Found at i:21277400 original size:29 final size:29
Alignment explanation
Indices: 21277368--21277443 Score: 116
Period size: 29 Copynumber: 2.6 Consensus size: 29
21277358 TTTAACCATA
*
21277368 TAACAAATTATTAATATAATTTATTATTT
1 TAACAAATTATTAATATAAATTATTATTT
*
21277397 TAACAAATTACTAATATAAATTATTATTT
1 TAACAAATTATTAATATAAATTATTATTT
*
21277426 TAATAAATTATTTAATAT
1 TAACAAATTA-TTAATAT
21277444 TTCAATTTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
29 36 0.86
30 6 0.14
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (29 bp):
TAACAAATTATTAATATAAATTATTATTT
Found at i:21277431 original size:16 final size:16
Alignment explanation
Indices: 21277378--21277437 Score: 54
Period size: 16 Copynumber: 3.8 Consensus size: 16
21277368 TAACAAATTA
21277378 TTAATATAATTTATTATT
1 TTAATA-AA-TTATTATT
* *
21277396 TTAACAAATTACTA--
1 TTAATAAATTATTATT
*
21277410 AT-ATAAATTATTATT
1 TTAATAAATTATTATT
21277425 TTAATAAATTATT
1 TTAATAAATTATT
21277438 TAATATTTCA
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
13 9 0.27
14 1 0.03
15 1 0.03
16 15 0.45
17 2 0.06
18 5 0.15
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (16 bp):
TTAATAAATTATTATT
Found at i:21279180 original size:23 final size:22
Alignment explanation
Indices: 21279145--21279196 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
21279135 TATTTTAACC
21279145 TAATTTAAAAATATGAATATTT
1 TAATTTAAAAATATGAATATTT
* *
21279167 TAATTATATAAATATGAGTA-TT
1 TAATT-TAAAAATATGAATATTT
21279189 T-ATTTAAA
1 TAATTTAAA
21279197 TAATGTTTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 3 0.12
21 3 0.12
22 8 0.31
23 12 0.46
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (22 bp):
TAATTTAAAAATATGAATATTT
Found at i:21281561 original size:19 final size:20
Alignment explanation
Indices: 21281537--21281575 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
21281527 GTTTAGAATA
*
21281537 TTGTAAAAAATA-TTAAAAT
1 TTGTAAAAAAAATTTAAAAT
21281556 TTGTAAAAAAAATTTAAAAT
1 TTGTAAAAAAAATTTAAAAT
21281576 GGTAAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (20 bp):
TTGTAAAAAAAATTTAAAAT
Found at i:21281566 original size:20 final size:19
Alignment explanation
Indices: 21281537--21281575 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
21281527 GTTTAGAATA
21281537 TTGT-AAAAAATATTAAAAT
1 TTGTAAAAAAAT-TTAAAAT
21281556 TTGTAAAAAAAATTTAAAAT
1 TTGT-AAAAAAATTTAAAAT
21281576 GGTAAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 7 0.39
21 7 0.39
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (19 bp):
TTGTAAAAAAATTTAAAAT
Found at i:21281583 original size:20 final size:21
Alignment explanation
Indices: 21281541--21281583 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
21281531 AGAATATTGT
*
21281541 AAAAAATATTAAAATTTGTAA
1 AAAAAATATTAAAATTGGTAA
21281562 AAAAAAT-TTAAAA-TGGTAA
1 AAAAAATATTAAAATTGGTAA
21281581 AAA
1 AAA
21281584 TTATACATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.38
20 6 0.29
21 7 0.33
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (21 bp):
AAAAAATATTAAAATTGGTAA
Found at i:21281788 original size:9 final size:9
Alignment explanation
Indices: 21281744--21281812 Score: 79
Period size: 10 Copynumber: 7.4 Consensus size: 9
21281734 TGGACATAAT
21281744 ATTATAAAA
1 ATTATAAAA
*
21281753 ATTATTAAGA
1 ATTA-TAAAA
21281763 A-TAGTAAAA
1 ATTA-TAAAA
21281772 ATTAT-AAA
1 ATTATAAAA
21281780 ATTATTAAAA
1 ATTA-TAAAA
21281790 ATTATAATAA
1 ATTATAA-AA
21281800 ATTATAAAA
1 ATTATAAAA
21281809 ATTA
1 ATTA
21281813 ATAATTATTG
Statistics
Matches: 52, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
8 7 0.13
9 22 0.42
10 23 0.44
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (9 bp):
ATTATAAAA
Found at i:21281793 original size:37 final size:36
Alignment explanation
Indices: 21281739--21281828 Score: 96
Period size: 37 Copynumber: 2.5 Consensus size: 36
21281729 CATCATGGAC
*
21281739 ATAATATTA-TAAAAATTAT-TAAGAATAGTAAAAATT
1 ATAAAATTATTAAAAATTATATAA-AATA-TAAAAATT
*
21281775 ATAAAATTATTAAAAATTATAATAAATTATAAAAATT
1 ATAAAATTATTAAAAATTAT-ATAAAATATAAAAATT
*
21281812 A-ATAATTATTGAAAAAT
1 ATAAAATTATT-AAAAAT
21281829 AACATACAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
36 16 0.34
37 25 0.53
38 3 0.06
39 3 0.06
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (36 bp):
ATAAAATTATTAAAAATTATATAAAATATAAAAATT
Found at i:21281826 original size:17 final size:17
Alignment explanation
Indices: 21281767--21281828 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 17
21281757 TTAAGAATAG
*
21281767 TAAAAATTATAAAATTAT
1 TAAAAATTA-ATAATTAT
21281785 TAAAAATTATAATAAATTA-
1 TAAAAA-T-TAAT-AATTAT
21281804 TAAAAATTAATAATTAT
1 TAAAAATTAATAATTAT
21281821 TGAAAAAT
1 T-AAAAAT
21281829 AACATACAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
16 5 0.13
17 5 0.13
18 13 0.34
19 8 0.21
20 7 0.18
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (17 bp):
TAAAAATTAATAATTAT
Found at i:21286458 original size:17 final size:17
Alignment explanation
Indices: 21286436--21286486 Score: 84
Period size: 17 Copynumber: 3.0 Consensus size: 17
21286426 ACTAAATCCC
*
21286436 TATACATCACTTAGGTA
1 TATACATTACTTAGGTA
21286453 TATACATTACTTAGGTA
1 TATACATTACTTAGGTA
*
21286470 TGTACATTACTTAGGTA
1 TATACATTACTTAGGTA
21286487 CATGCCACAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (17 bp):
TATACATTACTTAGGTA
Found at i:21288428 original size:4 final size:4
Alignment explanation
Indices: 21288419--21288446 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
21288409 CCTTTTTCTT
21288419 TTTC TTTC TTTC TTTC TTTC TTTC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC
21288447 CTTCCTTCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTC
Found at i:21288525 original size:15 final size:15
Alignment explanation
Indices: 21288507--21288537 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
21288497 TCTTTTCTGC
*
21288507 TTCTTTTCTTTCTTT
1 TTCTATTCTTTCTTT
21288522 TTCTATTCTTTCTTT
1 TTCTATTCTTTCTTT
21288537 T
1 T
21288538 GTTTTATGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.77
Consensus pattern (15 bp):
TTCTATTCTTTCTTT
Found at i:21288559 original size:5 final size:5
Alignment explanation
Indices: 21288546--21288617 Score: 62
Period size: 5 Copynumber: 14.4 Consensus size: 5
21288536 TTGTTTTATG
21288546 TATATA TATAA TATAA TATAA TAT-A T-TAA TAATAA TATAA TATAA -A-AA
1 TATA-A TATAA TATAA TATAA TATAA TATAA T-ATAA TATAA TATAA TATAA
* *
21288594 CATAA TCATTAC TATAA TATAA TA
1 TATAA T-A-TAA TATAA TATAA TA
21288618 ATATTTTTTT
Statistics
Matches: 56, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
3 3 0.05
4 6 0.11
5 34 0.61
6 10 0.18
7 3 0.05
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (5 bp):
TATAA
Found at i:21288571 original size:19 final size:19
Alignment explanation
Indices: 21288547--21288589 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
21288537 TGTTTTATGT
21288547 ATATATATAAT-ATAATATA
1 ATATAT-TAATAATAATATA
21288566 ATATATTAATAATAATATA
1 ATATATTAATAATAATATA
21288585 ATATA
1 ATATA
21288590 AAAACATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
ATATATTAATAATAATATA
Found at i:21288599 original size:24 final size:25
Alignment explanation
Indices: 21288553--21288618 Score: 73
Period size: 24 Copynumber: 2.7 Consensus size: 25
21288543 ATGTATATAT
* *
21288553 ATAATATAATATAATATATTAAT-A
1 ATAATATAATATAATAAAATAATCA
21288577 ATAATATAATATAA-AAACATAATCA
1 ATAATATAATATAATAAA-ATAATCA
* *
21288602 TTACTATAATATAATAA
1 ATAATATAATATAATAA
21288619 TATTTTTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
23 2 0.06
24 18 0.51
25 13 0.37
26 2 0.06
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (25 bp):
ATAATATAATATAATAAAATAATCA
Found at i:21291975 original size:29 final size:30
Alignment explanation
Indices: 21291929--21292037 Score: 107
Period size: 29 Copynumber: 3.7 Consensus size: 30
21291919 TGTACGTGTT
* *
21291929 TGGATGCCTTGGTGGCTATCTAATG-TGAG
1 TGGATGCCTTCGTGGCTATCTAAAGTTGAG
* * * *
21291958 TAGG-TGCCTTTGTGGCTACCAAAAGTTGCG
1 T-GGATGCCTTCGTGGCTATCTAAAGTTGAG
*
21291988 TGGATGCCTTCGTGGCTATCT-AAGTTAAG
1 TGGATGCCTTCGTGGCTATCTAAAGTTGAG
**
21292017 TGGATGATTTCGTGGCTATCT
1 TGGATGCCTTCGTGGCTATCT
21292038 TTTGATCAAA
Statistics
Matches: 65, Mismatches: 12, Indels: 6
0.78 0.14 0.07
Matches are distributed among these distances:
29 45 0.69
30 20 0.31
ACGTcount: A:0.18, C:0.17, G:0.30, T:0.35
Consensus pattern (30 bp):
TGGATGCCTTCGTGGCTATCTAAAGTTGAG
Found at i:21293603 original size:37 final size:37
Alignment explanation
Indices: 21293553--21293632 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
21293543 CTTATTACGA
* *
21293553 AGTCTTACCCGGACATAA-TCTCCACACGAAGTTATCG
1 AGTCTTACCCGGACAAAATTC-CCACACGAAGTCATCG
*
21293590 AGTCTTACCCGGACAAAATTCCCACACGCAGTCATCG
1 AGTCTTACCCGGACAAAATTCCCACACGAAGTCATCG
*
21293627 GGTCTT
1 AGTCTT
21293633 TAGAGCCCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (37 bp):
AGTCTTACCCGGACAAAATTCCCACACGAAGTCATCG
Found at i:21293822 original size:47 final size:47
Alignment explanation
Indices: 21293763--21294107 Score: 453
Period size: 47 Copynumber: 7.4 Consensus size: 47
21293753 TATCACATTT
* *
21293763 ATACAC-T-TTCACATTCATCACATCGGCCATTAGGCCTTATCTCAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCAC
* * *
21293808 ATACACATGCTCACATTCATCACATTGGCCACTCGGCCTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCAC
* * * *
21293855 ATACACCTGTTCACTTTCATCACATTGGCCATTCGGCTTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCAC
* * *
21293902 ATATACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCAC
*
21293949 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCAT
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCAC
** * *
21293996 ATATGCATGTTCACATTCATCACATTGGCCATTCGGTCTTATCTCAT
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCAC
** * *
21294043 ATATGCATGTTCACATTCATCACATTGGCCATTCGGCCCTATTCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTA-TCTCAC
*
21294091 ATATACACT-TTCACATT
1 ATACACA-TGTTCACATT
21294108 TATTCAATTA
Statistics
Matches: 271, Mismatches: 25, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
45 6 0.02
46 1 0.00
47 245 0.90
48 18 0.07
49 1 0.00
ACGTcount: A:0.26, C:0.31, G:0.10, T:0.33
Consensus pattern (47 bp):
ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCAC
Found at i:21307152 original size:2 final size:2
Alignment explanation
Indices: 21307145--21307177 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
21307135 TTGTATAGAA
21307145 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
21307178 ACATATATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:21307414 original size:34 final size:35
Alignment explanation
Indices: 21307353--21307420 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 35
21307343 AAATTACATG
* *
21307353 TTATTTTTTTAATTTTAATTCATAAAATATTTAAT
1 TTATTTTTTAAATTTTAACTCATAAAATATTTAAT
21307388 TTATTTTTTAAATTTTAAACT-A-AAAATATTTAA
1 TTATTTTTTAAATTTT-AACTCATAAAATATTTAA
21307421 AATTCAAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
34 11 0.37
35 16 0.53
36 3 0.10
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (35 bp):
TTATTTTTTAAATTTTAACTCATAAAATATTTAAT
Found at i:21309677 original size:24 final size:24
Alignment explanation
Indices: 21309627--21309677 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
21309617 AGTTTTGACC
* *
21309627 TTTGACTATTGGGTAAATTTTAAA
1 TTTGAATATTGGGTAAATTATAAA
*
21309651 TTTGAATATT-GGTATAATTATATA
1 TTTGAATATTGGGTA-AATTATAAA
21309675 TTT
1 TTT
21309678 TTTAAAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 4 0.17
24 19 0.83
ACGTcount: A:0.33, C:0.02, G:0.14, T:0.51
Consensus pattern (24 bp):
TTTGAATATTGGGTAAATTATAAA
Found at i:21317758 original size:25 final size:28
Alignment explanation
Indices: 21317730--21317781 Score: 83
Period size: 25 Copynumber: 2.0 Consensus size: 28
21317720 TATATTAGTA
21317730 AAGGTTAATATA-GTA-AAT-TAACAAT
1 AAGGTTAATATATGTATAATATAACAAT
21317755 AAGGTTAATATATGTATAATATAACAA
1 AAGGTTAATATATGTATAATATAACAA
21317782 ATTAAAATGC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 12 0.50
26 3 0.12
27 3 0.12
28 6 0.25
ACGTcount: A:0.52, C:0.04, G:0.12, T:0.33
Consensus pattern (28 bp):
AAGGTTAATATATGTATAATATAACAAT
Found at i:21320536 original size:28 final size:28
Alignment explanation
Indices: 21320473--21320626 Score: 265
Period size: 28 Copynumber: 5.5 Consensus size: 28
21320463 ATATTAAGTC
* *
21320473 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
21320500 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
21320528 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
21320556 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
21320584 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
21320612 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
21320627 GTACAATTTA
Statistics
Matches: 123, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
27 22 0.18
28 101 0.82
ACGTcount: A:0.33, C:0.29, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:21323173 original size:41 final size:41
Alignment explanation
Indices: 21323128--21323313 Score: 327
Period size: 41 Copynumber: 4.5 Consensus size: 41
21323118 AACTTTAAGT
21323128 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
*
21323169 CTAGCAGGCTACATGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
*
21323210 CTAGCAGGCTACATGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
* *
21323251 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
*
21323292 CTAGCAGGCTAAGTGCCGGTGA
1 CTAGCAGGCTACGTGCCGGTGA
21323314 ATATGTTAAA
Statistics
Matches: 140, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 140 1.00
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (41 bp):
CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:21327765 original size:40 final size:40
Alignment explanation
Indices: 21327682--21327984 Score: 405
Period size: 40 Copynumber: 7.6 Consensus size: 40
21327672 TTGAATGCTG
* * * * * *
21327682 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
21327722 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
21327762 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
21327802 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
21327842 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
21327882 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
21327922 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
21327961 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
21327985 TGAACGAGGA
Statistics
Matches: 241, Mismatches: 19, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
39 35 0.15
40 198 0.82
41 8 0.03
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:21352123 original size:12 final size:13
Alignment explanation
Indices: 21352106--21352135 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
21352096 CTCACACATG
21352106 AATAAATAAA-GC
1 AATAAATAAATGC
21352118 AATAAATAAATGC
1 AATAAATAAATGC
21352131 AATAA
1 AATAA
21352136 TTATATCCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.67, C:0.07, G:0.07, T:0.20
Consensus pattern (13 bp):
AATAAATAAATGC
Found at i:21362000 original size:14 final size:14
Alignment explanation
Indices: 21361981--21362034 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 14
21361971 ACTTTCGTCA
*
21361981 TTCTTTTTTTCTTT
1 TTCTTTTTCTCTTT
* *
21361995 TTCTTTTCACTCCTT
1 TTCTTTT-TCTCTTT
*
21362010 TTGTTTTTCTCTTT
1 TTCTTTTTCTCTTT
21362024 TTCTTTTTCTC
1 TTCTTTTTCTC
21362035 GCTTAATGGA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
14 22 0.69
15 10 0.31
ACGTcount: A:0.02, C:0.22, G:0.02, T:0.74
Consensus pattern (14 bp):
TTCTTTTTCTCTTT
Found at i:21375589 original size:33 final size:34
Alignment explanation
Indices: 21375523--21375604 Score: 112
Period size: 33 Copynumber: 2.4 Consensus size: 34
21375513 TCCTGCCCCA
* *
21375523 CATGCAATTCAATCAAAGACATTTCAAACAATTC
1 CATGCAATTCAATCAAAGACATTTAAAAAAATTC
* *
21375557 CATGCAATTCAGTCAAA-TCATTTAAAAAAATTC
1 CATGCAATTCAATCAAAGACATTTAAAAAAATTC
*
21375590 CACGCAATTCAATCA
1 CATGCAATTCAATCA
21375605 GAATTATATA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
33 26 0.62
34 16 0.38
ACGTcount: A:0.44, C:0.23, G:0.06, T:0.27
Consensus pattern (34 bp):
CATGCAATTCAATCAAAGACATTTAAAAAAATTC
Found at i:21383136 original size:13 final size:13
Alignment explanation
Indices: 21383103--21383141 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
21383093 ACATACATAT
*
21383103 AATTTAATTAAAC
1 AATTTAATTACAC
* *
21383116 CATATAATTACAC
1 AATTTAATTACAC
21383129 AATTTAATTACAC
1 AATTTAATTACAC
21383142 GAACTTACCT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (13 bp):
AATTTAATTACAC
Found at i:21386207 original size:39 final size:39
Alignment explanation
Indices: 21386134--21386234 Score: 105
Period size: 39 Copynumber: 2.6 Consensus size: 39
21386124 TAACACTCCA
* * * *
21386134 CGTTGTGGCTAAGCCACTGTATATTACAGTCAAGCTGAAT
1 CGTTGTGGTTAAGCCACTGAATACTACAGACAAGCT-AAT
* *
21386174 -GTTGTGGTTAAGCCACTGAATACTGCAGACAAGCTACT
1 CGTTGTGGTTAAGCCACTGAATACTACAGACAAGCTAAT
* * *
21386212 CGTTGTGGTAAAACCATTGAATA
1 CGTTGTGGTTAAGCCACTGAATA
21386235 ACGTTGTGGC
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
38 2 0.04
39 49 0.96
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.29
Consensus pattern (39 bp):
CGTTGTGGTTAAGCCACTGAATACTACAGACAAGCTAAT
Found at i:21386273 original size:63 final size:62
Alignment explanation
Indices: 21386174--21386377 Score: 196
Period size: 63 Copynumber: 3.2 Consensus size: 62
21386164 CAAGCTGAAT
** * * *
21386174 GTTGTGGTTAAGCCACTGAATA-CTGCAGACAAGCTACTCGTTGTGGTAAAACCATTGAATAAC
1 GTTGTGGCCAAGCCACTCAATATC-GCAAACAAGCTAC-CGTTGTGGTCAAACCATTGAATAAC
* * * * *
21386237 GTTGTGGCCAAGCCACTCAATATCGCATACAAGCTACACATTGTGGTCAAGCCACTGAATAAT
1 GTTGTGGCCAAGCCACTCAATATCGCAAACAAGCTAC-CGTTGTGGTCAAACCATTGAATAAC
* * * * * *
21386300 GTTGTGACCAAGCCATTCAATATTGTAAACAAGCTACAGACTGTGGTCAAACCACTT-AATAAC
1 GTTGTGGCCAAGCCACTCAATATCGCAAACAAGCTACCG-TTGTGGTCAAACCA-TTGAATAAC
*
21386363 ATTGTGGCCAAGCCA
1 GTTGTGGCCAAGCCA
21386378 TATAGTATTG
Statistics
Matches: 115, Mismatches: 23, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
63 113 0.98
64 2 0.02
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.25
Consensus pattern (62 bp):
GTTGTGGCCAAGCCACTCAATATCGCAAACAAGCTACCGTTGTGGTCAAACCATTGAATAAC
Found at i:21386378 original size:63 final size:63
Alignment explanation
Indices: 21386215--21386378 Score: 204
Period size: 63 Copynumber: 2.6 Consensus size: 63
21386205 AGCTACTCGT
* * * *
21386215 TGTGGTAAAACCA-TTGAATAACGTTGTGGCCAAGCCACTCAATATCGCATACAAGCTACACAT
1 TGTGGTCAAACCACTT-AATAACGTTGTGGCCAAGCCATTCAATATCGCAAACAAGCTACACAC
* * * * * * *
21386278 TGTGGTCAAGCCACTGAATAATGTTGTGACCAAGCCATTCAATATTGTAAACAAGCTACAGAC
1 TGTGGTCAAACCACTTAATAACGTTGTGGCCAAGCCATTCAATATCGCAAACAAGCTACACAC
*
21386341 TGTGGTCAAACCACTTAATAACATTGTGGCCAAGCCAT
1 TGTGGTCAAACCACTTAATAACGTTGTGGCCAAGCCAT
21386379 ATAGTATTGC
Statistics
Matches: 84, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
63 83 0.99
64 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (63 bp):
TGTGGTCAAACCACTTAATAACGTTGTGGCCAAGCCATTCAATATCGCAAACAAGCTACACAC
Found at i:21397033 original size:20 final size:21
Alignment explanation
Indices: 21397008--21397054 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
21396998 TTTAGATTAT
21397008 AATAAAAT-AATAA-TAAATGA
1 AATAAAATGAA-AATTAAATGA
21397028 AAT-AAATGAAAATTAAATGA
1 AATAAAATGAAAATTAAATGA
*
21397048 AAGAAAA
1 AATAAAA
21397055 ACAAGAAATC
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
19 6 0.26
20 14 0.61
21 3 0.13
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.21
Consensus pattern (21 bp):
AATAAAATGAAAATTAAATGA
Found at i:21397654 original size:24 final size:24
Alignment explanation
Indices: 21397627--21397673 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
21397617 AAATAAAGTG
* *
21397627 TAAACCCTAAAAGAAAAGAAAAAC
1 TAAAACCTAAAACAAAAGAAAAAC
* *
21397651 TAAAATCTAAAACTAAAGAAAAA
1 TAAAACCTAAAACAAAAGAAAAA
21397674 ATTATACAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.68, C:0.13, G:0.06, T:0.13
Consensus pattern (24 bp):
TAAAACCTAAAACAAAAGAAAAAC
Found at i:21414717 original size:40 final size:40
Alignment explanation
Indices: 21414673--21414845 Score: 269
Period size: 40 Copynumber: 4.3 Consensus size: 40
21414663 GGACTAAGAT
21414673 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
*
21414713 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
*
21414753 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
* * *
21414793 CCGAAGGCATTTGTGCGA-ATTACTATAA-CCAGGCTATGTC
1 CCGAAGGCATTTGTGCGAGA-TACTA-AATCCGGGTTAAGTC
21414833 CCGAAGGCATTTG
1 CCGAAGGCATTTG
21414846 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
40 124 0.98
41 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
Found at i:21414766 original size:80 final size:80
Alignment explanation
Indices: 21414621--21414845 Score: 298
Period size: 80 Copynumber: 2.8 Consensus size: 80
21414611 TTGAATGCTG
* * * *
21414621 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-ATCCGGGCTAAG-TCCCGAAGGCA
21414682 TTTGTGCGAGATACTAAA
63 TTTGTGCGAGATACTAAA
*
21414700 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
*
21414765 GTGCGAGTTACTAAA
66 GTGCGAGATACTAAA
* * *
21414780 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA-CCAGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATT
21414844 TG
65 TG
21414846 AACGAGGAGC
Statistics
Matches: 131, Mismatches: 10, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
79 21 0.16
80 100 0.76
81 10 0.08
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:21414834 original size:120 final size:119
Alignment explanation
Indices: 21414621--21414845 Score: 289
Period size: 120 Copynumber: 1.9 Consensus size: 119
21414611 TTGAATGCTG
21414621 TCCGGGCTAAGTCCCGAAGGCTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATTTG
* *
21414686 TGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
66 TGCGAGATACTAAATCCAGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * **
21414740 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-ATCCGGGTTAAG-TCCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGCA
*
21414802 TTTGTGCGA-ATTACTATAA-CCAGGCTATGTCCCGAAGGCATTTG
62 TTTGTGCGAGA-TACTA-AATCCAGGCTAAGTCCCGAAGGCATTTG
21414846 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
119 22 0.24
120 60 0.65
121 10 0.11
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (119 bp):
TCCGGGCTAAGTCCCGAAGGCTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATTTG
TGCGAGATACTAAATCCAGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:21414863 original size:80 final size:79
Alignment explanation
Indices: 21414621--21414878 Score: 269
Period size: 80 Copynumber: 3.3 Consensus size: 79
21414611 TTGAATGCTG
* * *
21414621 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCC-GGACTAAGAT-CCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAA-TTACTAA-ATCCAGG-CTAAG-TCCCGAAGGC
*
21414681 ATTTGTGCGAGATACTAAA
62 ATTTGTGCGAG-GACTAAA
* * *
21414700 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTAAATCCAGGCTAAGTCCCGAAGGCATTT
*
21414765 GTGCGAGTTACTAAA
66 GTGCGAG-GACTAAA
*
21414780 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA-CCAGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTA-AATCCAGGCTAAGTCCCGAAGGCATT
** *
21414844 TGAACGAGGAGCTATA
65 TGTGCGAGGA-CTAAA
* *
21414860 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
21414879 TACGTGATTT
Statistics
Matches: 156, Mismatches: 16, Indels: 14
0.84 0.09 0.08
Matches are distributed among these distances:
79 36 0.23
80 107 0.69
81 13 0.08
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTAAATCCAGGCTAAGTCCCGAAGGCATTT
GTGCGAGGACTAAA
Found at i:21414863 original size:120 final size:119
Alignment explanation
Indices: 21414621--21414878 Score: 278
Period size: 120 Copynumber: 2.2 Consensus size: 119
21414611 TTGAATGCTG
*
21414621 TCCGGGCTAAGTCCCGAAGGCTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATTTG
* * ** *
21414686 TGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
66 TGCGAGATACTAAATCCAGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAA
* * **
21414740 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-ATCCGGGTTAAG-TCCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGCA
* *
21414802 TTTGTGCGA-ATTACTATAA-CCAGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATA
62 TTTGTGCGAGA-TACTA-AATCCAGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAA
* *
21414860 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
21414879 TACGTGATTT
Statistics
Matches: 118, Mismatches: 14, Indels: 14
0.81 0.10 0.10
Matches are distributed among these distances:
119 37 0.31
120 71 0.60
121 10 0.08
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATTTG
TGCGAGATACTAAATCCAGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAA
Found at i:21422705 original size:40 final size:40
Alignment explanation
Indices: 21422661--21422833 Score: 269
Period size: 40 Copynumber: 4.3 Consensus size: 40
21422651 GGACTAAGAT
21422661 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
* *
21422701 CCGAAGGCATTTGTGCGAGTTACTAAATCTGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
*
21422741 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
* *
21422781 CCGAAGGCATTTGTGCGA-ATTACTATAA-CCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGA-TACTA-AATCCGGGTTAAGTC
21422821 CCGAAGGCATTTG
1 CCGAAGGCATTTG
21422834 AACGAGGAGC
Statistics
Matches: 125, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
40 123 0.98
41 2 0.02
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
Found at i:21422765 original size:80 final size:80
Alignment explanation
Indices: 21422609--21422833 Score: 296
Period size: 80 Copynumber: 2.8 Consensus size: 80
21422599 TTGAATGCTG
* * * * * *
21422609 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACAATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAA-TTACTATAACCGGGCTAAG-TCCCGAAGGCAT
21422671 TTGTGCGAGATACTAAA
64 TTGTGCGAGATACTAAA
* * *
21422688 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCTGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA-CCGGGCTAAGTCCCGAAGGCATT
*
21422752 TGTGCGAGTTACTAAA
65 TGTGCGAGATACTAAA
*
21422768 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTT
21422833 G
66 G
21422834 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
79 22 0.17
80 96 0.76
81 9 0.07
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:21422847 original size:40 final size:39
Alignment explanation
Indices: 21422610--21422833 Score: 226
Period size: 40 Copynumber: 5.6 Consensus size: 39
21422600 TGAATGCTGT
* * *
21422610 CCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACAATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGT-ACTATAA
*
21422649 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-AA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAG-TACTATAA
*
21422688 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAA
* *
21422728 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAA
* *
21422768 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTACTATAA
*
21422809 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
21422834 AACGAGGAGC
Statistics
Matches: 165, Mismatches: 12, Indels: 15
0.86 0.06 0.08
Matches are distributed among these distances:
39 19 0.12
40 136 0.82
41 10 0.06
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATAA
Found at i:21422851 original size:80 final size:79
Alignment explanation
Indices: 21422609--21422866 Score: 274
Period size: 80 Copynumber: 3.3 Consensus size: 79
21422599 TTGAATGCTG
* * * * * *
21422609 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACAATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAA-TTACTATAACCGGGCTAAG-TCCCGAAGGCAT
*
21422671 TTGTGCGAGATACTAAA
64 TTGTGCGAG-GACTAAA
* * *
21422688 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCTGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA-CCGGGCTAAGTCCCGAAGGCATT
*
21422752 TGTGCGAGTTACTAAA
65 TGTGCGAG-GACTAAA
*
21422768 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTT
** *
21422833 GAACGAGGAGCTATA
66 GTGCGAGGA-CTAAA
* *
21422848 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
21422867 TACGTGATTT
Statistics
Matches: 153, Mismatches: 20, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
79 37 0.24
80 107 0.70
81 9 0.06
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGGACTAAA
Found at i:21425598 original size:51 final size:51
Alignment explanation
Indices: 21425540--21425715 Score: 209
Period size: 51 Copynumber: 3.5 Consensus size: 51
21425530 CTGGTTCGCA
*
21425540 TAGTAGCCTGCACATAGTACTACACATGTGACCGTTACTATTC-GATACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCG-TACTATTCTGGTACACG
* * * * * *
21425591 TAGTAGCCTGCACATAGTACAACACACGTGATCGAAGCTA-TCTGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACATGTGACCGTA-CTATTCTGGTACACG
* *
21425642 TAGTAGCCTGC-CATAGTACTACACATGCGACCAT-C-ATTCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCGTACTATTCTGGTACACG
*
21425690 TAGTAGCCTGCACACAGTACTACACA
1 TAGTAGCCTGCACATAGTACTACACA
21425716 ATTGACCATC
Statistics
Matches: 105, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
47 1 0.01
48 21 0.20
49 13 0.12
50 20 0.19
51 50 0.48
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACATGTGACCGTACTATTCTGGTACACG
Found at i:21425709 original size:99 final size:102
Alignment explanation
Indices: 21425530--21425715 Score: 281
Period size: 99 Copynumber: 1.9 Consensus size: 102
21425520 ATTAATGATA
* * *
21425530 CTGGTTCGCATAGTAGCCTGCACATAGTACTACACATGTGACCGTTACTATTCGATACACGTAGT
1 CTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCGATACTATTCGATACACGTAGT
*
21425595 AGCCTGCACATAGTACAACACACGTGATCGAAGCTAT
66 AGCCTGCACACAGTACAACACACGTGATCGAAGCTAT
*
21425632 CTGGTACGCATAGTAGCCTGC-CATAGTACTACACATGCGACC-AT-C-ATTCTGGTACACGTAG
1 CTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCGATACTATTC-GATACACGTAG
*
21425693 TAGCCTGCACACAGTACTACACA
65 TAGCCTGCACACAGTACAACACA
21425716 ATTGACCATC
Statistics
Matches: 77, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
98 4 0.05
99 32 0.42
100 1 0.01
101 20 0.26
102 20 0.26
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.24
Consensus pattern (102 bp):
CTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCGATACTATTCGATACACGTAGT
AGCCTGCACACAGTACAACACACGTGATCGAAGCTAT
Found at i:21431275 original size:40 final size:40
Alignment explanation
Indices: 21431231--21431452 Score: 270
Period size: 40 Copynumber: 5.5 Consensus size: 40
21431221 CTCGTTCAAT
* *
21431231 TGCCTTCGGGACATAGCCCGGATTTAACAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAA
21431271 TGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAA
*
21431311 TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAA
** * *
21431351 TGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAA
* * * * *
21431391 GGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-AA
1 TGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACGAA
* *
21431431 AGCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGACTTAACCCGGA
21431453 CAGCATTCAA
Statistics
Matches: 162, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
39 3 0.02
40 151 0.93
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAA
Found at i:21434803 original size:51 final size:51
Alignment explanation
Indices: 21434745--21434935 Score: 255
Period size: 51 Copynumber: 3.8 Consensus size: 51
21434735 CCGGCTCACA
* *
21434745 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACGCG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGGTACGCG
* *
21434796 TAGTAGCCTGCACATAGTACTACACACGTGATCGA--AGCTATCCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTATCCGGTACGCG
* * * *
21434847 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTATCCGGTACGCG
21434897 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
21434936 TTCACTTTCA
Statistics
Matches: 122, Mismatches: 12, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
49 4 0.03
50 42 0.34
51 73 0.60
52 2 0.02
53 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGGTACGCG
Found at i:21434924 original size:101 final size:102
Alignment explanation
Indices: 21434743--21434927 Score: 311
Period size: 101 Copynumber: 1.8 Consensus size: 102
21434733 AACCGGCTCA
* *
21434743 CATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACGCGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGCCTGCA
21434808 CATAGTACTACACACGTGATCGAAGCTATCCGGTACG
66 CATAGTACTACACACGTGATCGAAGCTATCCGGTACG
* *
21434845 CATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACGTAGTAGCCTGC
1 CATAGTAGCCTGCACATAGTACTACACATGCGACC-ATCACTATCCGATACACGTAGTAGCCTGC
21434908 ACATAGTACTACACACGTGA
65 ACATAGTACTACACACGTGA
21434928 CCATCACTTT
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
101 39 0.50
102 35 0.45
103 4 0.05
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (102 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGCCTGCA
CATAGTACTACACACGTGATCGAAGCTATCCGGTACG
Found at i:21434951 original size:101 final size:102
Alignment explanation
Indices: 21434735--21434927 Score: 291
Period size: 102 Copynumber: 1.9 Consensus size: 102
21434725 ATTAATGAAA
* * *
21434735 CCGGCTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACGCGTAGT
1 CCGGTTCACATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGT
*
21434800 AGCCTGCACATAGTACTACACACGTGATCGAAGCTAT
66 AGCCTGCACATAGTACTACACACGTGATCCAAGCTAT
* * * *
21434837 CCGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACGTAG
1 CCGGTTCACATAGTAGCCTGCACATAGTACTACACATGCGACC-ATCACTATCCGATACACGTAG
21434900 TAGCCTGCACATAGTACTACACACGTGA
65 TAGCCTGCACATAGTACTACACACGTGA
21434928 CCATCACTTT
Statistics
Matches: 83, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
101 39 0.47
102 40 0.48
103 4 0.05
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (102 bp):
CCGGTTCACATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGT
AGCCTGCACATAGTACTACACACGTGATCCAAGCTAT
Found at i:21437634 original size:12 final size:12
Alignment explanation
Indices: 21437619--21437669 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
21437609 ATTAGTTTAA
*
21437619 TATTTTAATTAT
1 TATTTTCATTAT
*
21437631 TATTATCATTAT
1 TATTTTCATTAT
* * *
21437643 TATTTTTACTAC
1 TATTTTCATTAT
21437655 TATTTTCATTAT
1 TATTTTCATTAT
21437667 TAT
1 TAT
21437670 CAATATTTTT
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (12 bp):
TATTTTCATTAT
Found at i:21437646 original size:24 final size:24
Alignment explanation
Indices: 21437619--21437669 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
21437609 ATTAGTTTAA
* *
21437619 TATTTTAATTATTATTATCATTAT
1 TATTTTAACTACTATTATCATTAT
* *
21437643 TATTTTTACTACTATTTTCATTAT
1 TATTTTAACTACTATTATCATTAT
21437667 TAT
1 TAT
21437670 CAATATTTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (24 bp):
TATTTTAACTACTATTATCATTAT
Found at i:21437689 original size:33 final size:32
Alignment explanation
Indices: 21437628--21437699 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 32
21437618 ATATTTTAAT
* * *
21437628 TATTATTATCATTATTATTTTTACTACTATTT
1 TATTATTATCAATATTATTTCTACTACTATTA
*
21437660 TCATTATTATCAATATT-TTTACTATTACTATTA
1 T-ATTATTATCAATATTATTT-CTACTACTATTA
21437693 TATTATT
1 TATTATT
21437700 CGTTTGTATA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
32 10 0.29
33 24 0.71
ACGTcount: A:0.31, C:0.10, G:0.00, T:0.60
Consensus pattern (32 bp):
TATTATTATCAATATTATTTCTACTACTATTA
Found at i:21446675 original size:28 final size:27
Alignment explanation
Indices: 21446603--21446691 Score: 81
Period size: 28 Copynumber: 3.2 Consensus size: 27
21446593 CTATTCAGTG
* *
21446603 ACAGTACAGTGAGGGCCTTAGCCCAAT
1 ACAGTACAGTGTGGGCCTTAGCCTAAT
* * * * *
21446630 TCAATAGCAATGTCGGCCCTAGCCTAAT
1 ACAGTA-CAGTGTGGGCCTTAGCCTAAT
21446658 ACAGTATCAGTGTGGGCCTTAG-CTCAAT
1 ACAGTA-CAGTGTGGGCCTTAGCCT-AAT
21446686 ACAGTA
1 ACAGTA
21446692 ACATTATAGT
Statistics
Matches: 47, Mismatches: 13, Indels: 3
0.75 0.21 0.05
Matches are distributed among these distances:
27 6 0.13
28 41 0.87
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (27 bp):
ACAGTACAGTGTGGGCCTTAGCCTAAT
Found at i:21447091 original size:27 final size:27
Alignment explanation
Indices: 21447061--21447125 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
21447051 AGGGATATAA
21447061 CAGTCATTTTACCCTAT-AGAGGTATTT
1 CAGTCATTTTACCCTATGAG-GGTATTT
*
21447088 CAGTTATTTTACCCTATGAGGGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTT
*
21447115 CGGTCATTTTA
1 CAGTCATTTTA
21447126 GTATAAATGG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
27 32 0.94
28 2 0.06
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.43
Consensus pattern (27 bp):
CAGTCATTTTACCCTATGAGGGTATTT
Done.