Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 72 of 163
Found at i:19054779 original size:40 final size:42
Alignment explanation
Indices: 19054724--19054815 Score: 143
Period size: 40 Copynumber: 2.2 Consensus size: 42
19054714 TGCACTGCCA
*
19054724 CAATCTGCCCTATGGTCAGGGTAAGAGATCGGAT-G-GTCTT
1 CAATCTGCCCCATGGTCAGGGTAAGAGATCGGATGGTGTCTT
* *
19054764 CAATCTGCCCCATGGTCGGGGTAAGAGATCGGATGGTGTTTT
1 CAATCTGCCCCATGGTCAGGGTAAGAGATCGGATGGTGTCTT
19054806 CAATCTGCCC
1 CAATCTGCCC
19054816 TCTAATTAGG
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
40 32 0.68
41 1 0.02
42 14 0.30
ACGTcount: A:0.21, C:0.23, G:0.29, T:0.27
Consensus pattern (42 bp):
CAATCTGCCCCATGGTCAGGGTAAGAGATCGGATGGTGTCTT
Found at i:19054828 original size:42 final size:40
Alignment explanation
Indices: 19054724--19054829 Score: 106
Period size: 40 Copynumber: 2.6 Consensus size: 40
19054714 TGCACTGCCA
* **
19054724 CAATCTGCCCTATGGTCAGGGTAAGAGATCGGATGGTCTT
1 CAATCTGCCCCATAATCAGGGTAAGAGATCGGATGGTCTT
** * *
19054764 CAATCTGCCCCATGGTCGGGGTAAGAGATCGGATGGTGTTTT
1 CAATCTGCCCCATAATCAGGGTAAGAGATCGGAT-G-GTCTT
*
19054806 CAATCTGCCCTC-TAATTAGGGTAA
1 CAATCTGCCC-CATAATCAGGGTAA
19054830 AAGACTCAAG
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
40 32 0.57
41 1 0.02
42 22 0.39
43 1 0.02
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (40 bp):
CAATCTGCCCCATAATCAGGGTAAGAGATCGGATGGTCTT
Found at i:19059632 original size:22 final size:21
Alignment explanation
Indices: 19059588--19059634 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
19059578 CGATCTAAGG
*
19059588 AAAAATAAAAGAAACAGATTT
1 AAAAATAAAAGAAACAGAATT
* *
19059609 AAAAATTAAAGAAAATAGAATT
1 AAAAATAAAAG-AAACAGAATT
19059631 AAAA
1 AAAA
19059635 GAAATAGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.70, C:0.02, G:0.09, T:0.19
Consensus pattern (21 bp):
AAAAATAAAAGAAACAGAATT
Found at i:19060471 original size:19 final size:19
Alignment explanation
Indices: 19060449--19060491 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
19060439 AAATATAAAC
19060449 TAAATACAAAT-TTAAATAA
1 TAAATA-AAATCTTAAATAA
* *
19060468 TAAATAATATCTTAAATAT
1 TAAATAAAATCTTAAATAA
19060487 TAAAT
1 TAAAT
19060492 CCTAATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAATAAAATCTTAAATAA
Found at i:19060747 original size:24 final size:23
Alignment explanation
Indices: 19060704--19060748 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
19060694 AGGATCATAC
19060704 TCTAAAAATATATATATTTAATA
1 TCTAAAAATATATATATTTAATA
* *
19060727 TCTAAAAGTATGTCATATTTAA
1 TCTAAAAATATAT-ATATTTAA
19060749 GCATTATCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.42
Consensus pattern (23 bp):
TCTAAAAATATATATATTTAATA
Found at i:19061367 original size:104 final size:104
Alignment explanation
Indices: 19061089--19061353 Score: 469
Period size: 104 Copynumber: 2.5 Consensus size: 104
19061079 ATACATTGGA
* *
19061089 CCTTTTAACGCGAAATGAAATGACACCCAAGCACTCCATCCCGGTTACTCAGCCTAATATGCTCT
1 CCTTTTGACGCGAAGTGAAATGACACCCAAGCACTCCATCCCGGTTACTCAGCCTAATATGCTCT
19061154 CAATTTTTTTCTTCTCACTTTTTTTTTAGAATGCGTTGC
66 CAATTTTTTTCTTCTCACTTTTTTTTTAGAATGCGTTGC
19061193 CCTTTTGACGCGAAGTGAAATGACACCCAAGCACTCCATCCCGGTTACTCAGCCTAATATGCTCT
1 CCTTTTGACGCGAAGTGAAATGACACCCAAGCACTCCATCCCGGTTACTCAGCCTAATATGCTCT
19061258 CAATTTTTTTCTTCTCAC-TTTTTTTTAGAATGCGTTAGC
66 CAATTTTTTTCTTCTCACTTTTTTTTTAGAATGCGTT-GC
* * *
19061297 CCTTTTGACGCGAAGTGAAATGACAACCAAGCACTCCACCCCGGTTACTCAGTCTAA
1 CCTTTTGACGCGAAGTGAAATGACACCCAAGCACTCCATCCCGGTTACTCAGCCTAA
19061354 CACATTCTGA
Statistics
Matches: 155, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
103 18 0.12
104 137 0.88
ACGTcount: A:0.25, C:0.28, G:0.14, T:0.33
Consensus pattern (104 bp):
CCTTTTGACGCGAAGTGAAATGACACCCAAGCACTCCATCCCGGTTACTCAGCCTAATATGCTCT
CAATTTTTTTCTTCTCACTTTTTTTTTAGAATGCGTTGC
Found at i:19061385 original size:104 final size:101
Alignment explanation
Indices: 19061089--19061387 Score: 384
Period size: 104 Copynumber: 2.9 Consensus size: 101
19061079 ATACATTGGA
* *
19061089 CCTTTTAACGCGAAATGAAATGACACCCAAGCACTCCATCCCGGTTACTCAGCCTAATATGCTCT
1 CCTTTTGACGCGAAGTGAAATGACACCCAAGCACTCCATCCCGGTTACTCAGCCTAATATGCTCT
*
19061154 CAATTTTTTTCTTCTCACTT-TTTTTTTAGAATGCGTTGC
66 CAA-TTTTTT-TT-T-ATTTCTTTTTTTAGAATGCGTTGC
19061193 CCTTTTGACGCGAAGTGAAATGACACCCAAGCACTCCATCCCGGTTACTCAGCCTAATATGCTCT
1 CCTTTTGACGCGAAGTGAAATGACACCCAAGCACTCCATCCCGGTTACTCAGCCTAATATGCTCT
* **
19061258 CAATTTTTTTCTTCTCACTTTTTTTTAGAATGCGTTAGC
66 CAATTTTTTT-TTATTTC-TTTTTTTAGAATGCGTT-GC
* * * * ***
19061297 CCTTTTGACGCGAAGTGAAATGACAACCAAGCACTCCACCCCGGTTACTCAGTCTAACACATTCT
1 CCTTTTGACGCGAAGTGAAATGACACCCAAGCACTCCATCCCGGTTACTCAGCCTAATATGCTCT
*
19061362 GAATTTATTTATTTATTTCTTTTTTT
66 CAATTT-TTT-TTTATTTCTTTTTTT
19061388 TTATTCGGGT
Statistics
Matches: 172, Mismatches: 17, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
102 2 0.01
103 24 0.14
104 138 0.80
105 7 0.04
106 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.13, T:0.36
Consensus pattern (101 bp):
CCTTTTGACGCGAAGTGAAATGACACCCAAGCACTCCATCCCGGTTACTCAGCCTAATATGCTCT
CAATTTTTTTTTATTTCTTTTTTTAGAATGCGTTGC
Found at i:19062161 original size:1 final size:1
Alignment explanation
Indices: 19062151--19062181 Score: 53
Period size: 1 Copynumber: 31.0 Consensus size: 1
19062141 AATAAGATAG
*
19062151 AAAAATAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
19062182 TAATTGGGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.97, C:0.00, G:0.00, T:0.03
Consensus pattern (1 bp):
A
Found at i:19067817 original size:22 final size:21
Alignment explanation
Indices: 19067773--19067819 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
19067763 TGATCTAAGG
*
19067773 AAAAATAAAAGAAACAGATTT
1 AAAAATAAAAGAAACAGAATT
* *
19067794 AAAAATTAAAGAAAATAGAATT
1 AAAAATAAAAG-AAACAGAATT
19067816 AAAA
1 AAAA
19067820 GAAATAGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.70, C:0.02, G:0.09, T:0.19
Consensus pattern (21 bp):
AAAAATAAAAGAAACAGAATT
Found at i:19087251 original size:30 final size:29
Alignment explanation
Indices: 19087217--19087443 Score: 172
Period size: 30 Copynumber: 7.7 Consensus size: 29
19087207 ACATTAAAAT
*
19087217 AGGGTCAAATTTGGATTTTTAGAAAGTTCA
1 AGGGTCAAATTTGAATTTTTAGAAAGTT-A
* *
19087247 AGGGTCAAATTGGAAATTTTAGAAAGTT-
1 AGGGTCAAATTTGAATTTTTAGAAAGTTA
* * * ** *
19087275 TGGGATCAAA-TTCAAATTTGGGAAAGTTT
1 AGGG-TCAAATTTGAATTTTTAGAAAGTTA
* * *
19087304 GGGGGCAAATTTGAATTTTTAGAAAATTTA
1 AGGGTCAAATTTGAATTTTTAG-AAAGTTA
* ** *
19087334 AGGATCAAATTCAAATTTTTAGAAAATTTA
1 AGGGTCAAATTTGAATTTTTAG-AAAGTTA
* *
19087364 GGGGTCAAATTTGAATTTTT-GAAAAGTTCG
1 AGGGTCAAATTTGAATTTTTAG-AAAGTT-A
* * *
19087394 AGGGTAAAATTTGAATTTTTGGAAAGTTG
1 AGGGTCAAATTTGAATTTTTAGAAAGTTA
* *
19087423 GGGGTTAAATTTGAATTTTTA
1 AGGGTCAAATTTGAATTTTTA
19087444 AAAAATTCAG
Statistics
Matches: 159, Mismatches: 32, Indels: 13
0.78 0.16 0.06
Matches are distributed among these distances:
28 21 0.13
29 42 0.26
30 95 0.60
31 1 0.01
ACGTcount: A:0.36, C:0.04, G:0.23, T:0.37
Consensus pattern (29 bp):
AGGGTCAAATTTGAATTTTTAGAAAGTTA
Found at i:19087301 original size:58 final size:58
Alignment explanation
Indices: 19087238--19087351 Score: 149
Period size: 57 Copynumber: 2.0 Consensus size: 58
19087228 TGGATTTTTA
* * *
19087238 GAAAGTTCAAGGGTCAAATTGGAAATTTTAGAAAGTTT-GGGATCAAATTCAAATTTGG
1 GAAAGTT-AAGGGGCAAATTGGAAATTTTAGAAAATTTAAGGATCAAATTCAAATTTGG
** * *
19087296 GAAAGTTTGGGGGCAAATTTGAATTTTTAGAAAATTTAAGGATCAAATTCAAATTT
1 GAAAGTTAAGGGGCAAATTGGAAATTTTAGAAAATTTAAGGATCAAATTCAAATTT
19087352 TTAGAAAATT
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
57 24 0.50
58 24 0.50
ACGTcount: A:0.39, C:0.06, G:0.22, T:0.33
Consensus pattern (58 bp):
GAAAGTTAAGGGGCAAATTGGAAATTTTAGAAAATTTAAGGATCAAATTCAAATTTGG
Found at i:19087412 original size:29 final size:29
Alignment explanation
Indices: 19087310--19087461 Score: 126
Period size: 30 Copynumber: 5.1 Consensus size: 29
19087300 GTTTGGGGGC
* * * *
19087310 AAATTTGAATTTTTAGAAAATTTAAGGATC
1 AAATTTGAATTTTT-GAAAAGTTGAGGGTA
** * *
19087340 AAATTCAAATTTTTAGAAAA-TTTAGGGGTC
1 AAATTTGAATTTTT-GAAAAGTTGA-GGGTA
19087370 AAATTTGAATTTTTGAAAAGTTCGAGGGTA
1 AAATTTGAATTTTTGAAAAGTT-GAGGGTA
* * *
19087400 AAATTTGAATTTTTGGAAAGTTGGGGGTT
1 AAATTTGAATTTTTGAAAAGTTGAGGGTA
* * *
19087429 AAATTTGAATTTTTAAAAAATTCAGGGGTA
1 AAATTTGAATTTTTGAAAAGTTGA-GGGTA
19087459 AAA
1 AAA
19087462 CATAATTTTA
Statistics
Matches: 101, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
29 32 0.32
30 68 0.67
31 1 0.01
ACGTcount: A:0.39, C:0.03, G:0.20, T:0.38
Consensus pattern (29 bp):
AAATTTGAATTTTTGAAAAGTTGAGGGTA
Found at i:19087437 original size:59 final size:58
Alignment explanation
Indices: 19087282--19087461 Score: 170
Period size: 59 Copynumber: 3.1 Consensus size: 58
19087272 GTTTGGGATC
* * * *
19087282 AAATTCAAA--TTTGGGAAAGTTTGGGGG-CAAATTTGAATTTTTAGAAAATTTAAGGATC
1 AAATTCAAATTTTTAGGAAAG-TTGGGGGTCAAATTTGAATTTTT-GAAAA-TTCAGGGTA
* * *
19087340 AAATTCAAATTTTTAGAAAATTTAGGGGTCAAATTTGAATTTTTGAAAAGTTCGAGGGTA
1 AAATTCAAATTTTTAGGAAAGTTGGGGGTCAAATTTGAATTTTTGAAAA-TTC-AGGGTA
** * *
19087400 AAATTTGAATTTTT-GGAAAGTTGGGGGTTAAATTTGAATTTTTAAAAAATTCAGGGGTA
1 AAATTCAAATTTTTAGGAAAGTTGGGGGTCAAATTTGAATTTTT-GAAAATTCA-GGGTA
19087459 AAA
1 AAA
19087462 CATAATTTTA
Statistics
Matches: 101, Mismatches: 15, Indels: 11
0.80 0.12 0.09
Matches are distributed among these distances:
58 10 0.10
59 49 0.49
60 42 0.42
ACGTcount: A:0.38, C:0.04, G:0.22, T:0.36
Consensus pattern (58 bp):
AAATTCAAATTTTTAGGAAAGTTGGGGGTCAAATTTGAATTTTTGAAAATTCAGGGTA
Found at i:19095015 original size:44 final size:44
Alignment explanation
Indices: 19094960--19095045 Score: 111
Period size: 44 Copynumber: 2.0 Consensus size: 44
19094950 CTTTGATTTA
* * *
19094960 GTATGTAAACATGTAATAATTAGT-GAAGCCAATGTTTGAGTTCT
1 GTATGTAAACATGTAAGAACT-GTCGAAGCCAATATTTGAGTTCT
* *
19095004 GTATTTAAACATGTAAGAACTGTCGAAGGCAATATTTGAGTT
1 GTATGTAAACATGTAAGAACTGTCGAAGCCAATATTTGAGTT
19095046 GAGAGAGACT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
43 2 0.06
44 34 0.94
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (44 bp):
GTATGTAAACATGTAAGAACTGTCGAAGCCAATATTTGAGTTCT
Found at i:19097888 original size:51 final size:51
Alignment explanation
Indices: 19097801--19098044 Score: 384
Period size: 51 Copynumber: 4.8 Consensus size: 51
19097791 GCTATAAACG
*
19097801 AAAGAGTCCGGTGACTAAGTGTCATCGTGAGTAAATGAATCCTTTAC-AGATT
1 AAAG-GTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGA-ATT
*
19097853 AAAGGTCTGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGAATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGAATT
* *
19097904 AAAGGTCCGATGATTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGAATT
* *
19097955 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCATGACGAATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGAATT
*
19098006 AAAGGTCCGATGACTCAA-TGTCATCGTGAGTATATGAAT
1 AAAGGTCCGATGACT-AAGTGTCATCGTGAGTAAATGAAT
19098045 TTCTATACGA
Statistics
Matches: 180, Mismatches: 10, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
51 173 0.96
52 7 0.04
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (51 bp):
AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGAATT
Found at i:19099977 original size:29 final size:29
Alignment explanation
Indices: 19099945--19100056 Score: 97
Period size: 29 Copynumber: 3.8 Consensus size: 29
19099935 TTTTTAACTT
19099945 CCGAGGGTAAAAATGGAATTTTGGTGAAA
1 CCGAGGGTAAAAATGGAATTTTGGTGAAA
* *
19099974 CCGAGGTTAAAAATGGGATTTT-G-GAAA
1 CCGAGGGTAAAAATGGAATTTTGGTGAAA
* *
19100001 GTTCGAAGGT-AAAATGGTAATTTTTGGTGAAA
1 --CCGAGGGTAAAAATGG-AA-TTTTGGTGAAA
* *
19100033 TC-AGGGTCAAAAATGAAATTTTGG
1 CCGAGGGT-AAAAATGGAATTTTGG
19100057 AAAGTTTGGG
Statistics
Matches: 67, Mismatches: 8, Indels: 16
0.74 0.09 0.18
Matches are distributed among these distances:
27 4 0.06
28 8 0.12
29 36 0.54
30 8 0.12
31 7 0.10
32 4 0.06
ACGTcount: A:0.37, C:0.06, G:0.29, T:0.29
Consensus pattern (29 bp):
CCGAGGGTAAAAATGGAATTTTGGTGAAA
Found at i:19100047 original size:59 final size:59
Alignment explanation
Indices: 19099949--19100239 Score: 351
Period size: 59 Copynumber: 4.9 Consensus size: 59
19099939 TAACTTCCGA
* * *
19099949 GGGTAAAAATGG-AA-TTTTGGTGAAA-CCGAGGTTAAAAATGGGATTTTGGAAAGTTCGA-
1 GGGT-AAAATGGTAATTTTTGGTGAAATCAG-GGTCAAAAATGGAATTTTGGAAAGTT-GAG
* *
19100007 AGGTAAAATGGTAATTTTTGGTGAAATCAGGGTCAAAAATGAAATTTTGGAAAGTTTG-G
1 GGGTAAAATGGTAATTTTTGGTGAAATCAGGGTCAAAAATGGAATTTTGGAAAG-TTGAG
* * * *
19100066 GGGTAAAATGGTAATTTTTTGTGAAATTAGGGTCAAAAATAGAATTTTGGAAAGTTTAG
1 GGGTAAAATGGTAATTTTTGGTGAAATCAGGGTCAAAAATGGAATTTTGGAAAGTTGAG
* * * *
19100125 GGGTAAAATGGTAATTTTTGGTGAAATTAGGGTTAAAAATGGGATTTTGGAAAGTTTAG
1 GGGTAAAATGGTAATTTTTGGTGAAATCAGGGTCAAAAATGGAATTTTGGAAAGTTGAG
* * *
19100184 GGGTAAAATGGTAAATTTTAGTGAAATCGGGGT-AAAAATGGAATTTTGGAATAGTT
1 GGGTAAAATGGTAATTTTTGGTGAAATCAGGGTCAAAAATGGAATTTTGGAA-AGTT
19100240 TAAGGACCTA
Statistics
Matches: 206, Mismatches: 20, Indels: 13
0.86 0.08 0.05
Matches are distributed among these distances:
57 7 0.03
58 24 0.12
59 171 0.83
60 4 0.02
ACGTcount: A:0.36, C:0.02, G:0.29, T:0.33
Consensus pattern (59 bp):
GGGTAAAATGGTAATTTTTGGTGAAATCAGGGTCAAAAATGGAATTTTGGAAAGTTGAG
Found at i:19100073 original size:29 final size:29
Alignment explanation
Indices: 19100036--19100241 Score: 112
Period size: 30 Copynumber: 7.0 Consensus size: 29
19100026 GGTGAAATCA
*
19100036 GGGTCAAAAATGAAATTTTGGAAAGTTTGG
1 GGGT-AAAAATGAAATTTTGGAAAGTTTAG
*
19100066 GGGT-AAAATGGTAATTTTTTGTGAAA--TTA-
1 GGGTAAAAAT-G-AA-ATTTTG-GAAAGTTTAG
19100095 GGGTCAAAAAT-AGAATTTTGGAAAGTTTAG
1 GGGT-AAAAATGA-AATTTTGGAAAGTTTAG
*
19100125 GGGT-AAAATGGTAATTTTTGGTGAAA--TTAG
1 GGGTAAAAAT-G-AAATTTT-G-GAAAGTTTAG
* **
19100155 GGTTAAAAATGGGATTTTGGAAAGTTTAG
1 GGGTAAAAATGAAATTTTGGAAAGTTTAG
*
19100184 GGGT-AAAATGGTAAATTTTAGTGAAA---TCG
1 GGGTAAAAAT-G-AAATTTT-G-GAAAGTTTAG
*
19100213 GGGTAAAAATGGAATTTTGGAATAGTTTA
1 GGGTAAAAATGAAATTTTGGAA-AGTTTA
19100242 AGGACCTATA
Statistics
Matches: 135, Mismatches: 14, Indels: 54
0.67 0.07 0.27
Matches are distributed among these distances:
26 3 0.02
27 10 0.07
28 28 0.21
29 28 0.21
30 36 0.27
31 18 0.13
32 12 0.09
ACGTcount: A:0.36, C:0.01, G:0.28, T:0.34
Consensus pattern (29 bp):
GGGTAAAAATGAAATTTTGGAAAGTTTAG
Found at i:19101261 original size:3 final size:3
Alignment explanation
Indices: 19101255--19101299 Score: 72
Period size: 3 Copynumber: 15.0 Consensus size: 3
19101245 TTCACATCAT
* *
19101255 TTA TTA TTA TTA TTA TTG TTG TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
19101300 ATGCTATTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:19102038 original size:17 final size:17
Alignment explanation
Indices: 19102018--19102062 Score: 65
Period size: 16 Copynumber: 2.7 Consensus size: 17
19102008 TTTCAAATGT
19102018 ATTTAAATTTAAAACAA
1 ATTTAAATTTAAAACAA
*
19102035 ATTTAAATTT-AAATAA
1 ATTTAAATTTAAAACAA
*
19102051 ATTTAAAATTAA
1 ATTTAAATTTAA
19102063 TTTCAAACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 14 0.56
17 11 0.44
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (17 bp):
ATTTAAATTTAAAACAA
Found at i:19102059 original size:23 final size:24
Alignment explanation
Indices: 19102033--19102082 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
19102023 AATTTAAAAC
19102033 AAATTTAAATTT-AAA-TAAATTTA
1 AAATTT-AATTTCAAACTAAATTTA
*
19102056 AAA-TTAATTTCAAACTTAATTTA
1 AAATTTAATTTCAAACTAAATTTA
19102079 AAAT
1 AAAT
19102083 CCAAGTTGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
21 5 0.22
22 5 0.22
23 13 0.57
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (24 bp):
AAATTTAATTTCAAACTAAATTTA
Found at i:19102064 original size:27 final size:28
Alignment explanation
Indices: 19102021--19102074 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
19102011 CAAATGTATT
*
19102021 TAAATTTAAAACAAATTT-AAATTTAAA
1 TAAATTTAAAACAAATTTCAAACTTAAA
**
19102048 TAAATTTAAAATTAATTTCAAACTTAA
1 TAAATTTAAAACAAATTTCAAACTTAA
19102075 TTTAAAATCC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 16 0.70
28 7 0.30
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.39
Consensus pattern (28 bp):
TAAATTTAAAACAAATTTCAAACTTAAA
Found at i:19102076 original size:12 final size:11
Alignment explanation
Indices: 19102040--19102082 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
19102030 AACAAATTTA
*
19102040 AATTT-AAATA
1 AATTTAAAATT
19102050 AATTTAAAATT
1 AATTTAAAATT
*
19102061 AATTTCAAACTT
1 AATTT-AAAATT
19102073 AATTTAAAAT
1 AATTTAAAAT
19102083 CCAAGTTGGG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
10 5 0.18
11 13 0.46
12 10 0.36
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (11 bp):
AATTTAAAATT
Found at i:19103267 original size:24 final size:24
Alignment explanation
Indices: 19103174--19103252 Score: 131
Period size: 24 Copynumber: 3.3 Consensus size: 24
19103164 TAGAAGTATC
19103174 AAACGTATAGTGGCTGACGAGCAT
1 AAACGTATAGTGGCTGACGAGCAT
19103198 AAACGTATAGTGGCTGACGAGCAT
1 AAACGTATAGTGGCTGACGAGCAT
* * *
19103222 AAATGTATAGTGGCCGATGAGCAT
1 AAACGTATAGTGGCTGACGAGCAT
19103246 AAACGTA
1 AAACGTA
19103253 AATTAGCTGG
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 51 1.00
ACGTcount: A:0.35, C:0.15, G:0.28, T:0.22
Consensus pattern (24 bp):
AAACGTATAGTGGCTGACGAGCAT
Found at i:19103267 original size:48 final size:48
Alignment explanation
Indices: 19103178--19103272 Score: 127
Period size: 48 Copynumber: 2.0 Consensus size: 48
19103168 AGTATCAAAC
* * *
19103178 GTATAGTGGCTGACGAGCATAAACGTATAGTGGCTGACGAGCATAAAT
1 GTATAGTGGCCGACGAGCATAAACGTAAAGTAGCTGACGAGCATAAAT
* * * *
19103226 GTATAGTGGCCGATGAGCATAAACGTAAATTAGCTGGCGAGCGTAAA
1 GTATAGTGGCCGACGAGCATAAACGTAAAGTAGCTGACGAGCATAAA
19103273 CGCACTAAAC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.34, C:0.15, G:0.29, T:0.22
Consensus pattern (48 bp):
GTATAGTGGCCGACGAGCATAAACGTAAAGTAGCTGACGAGCATAAAT
Found at i:19106275 original size:3 final size:3
Alignment explanation
Indices: 19106267--19106317 Score: 52
Period size: 3 Copynumber: 17.0 Consensus size: 3
19106257 CGGGGCAACA
* *
19106267 TCT TCT TCT TTT TCT TCCT TC- TCT TCT TTT TCT TCT TCT T-T TCTT
1 TCT TCT TCT TCT TCT T-CT TCT TCT TCT TCT TCT TCT TCT TCT TC-T
19106312 TCT TCT
1 TCT TCT
19106318 ACCTCAATAC
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
2 4 0.10
3 30 0.75
4 6 0.15
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TCT
Found at i:19119025 original size:6 final size:6
Alignment explanation
Indices: 19119014--19119057 Score: 65
Period size: 6 Copynumber: 7.7 Consensus size: 6
19119004 TTCCTTAAGC
*
19119014 TTTCAT TTTCAT TTTCAT TTTCAT CTTCAT TTTC-T TTTC-T TTTC
1 TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTC
19119058 TTAACCTTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
5 10 0.28
6 26 0.72
ACGTcount: A:0.11, C:0.20, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTCAT
Found at i:19130834 original size:42 final size:41
Alignment explanation
Indices: 19130605--19130869 Score: 298
Period size: 41 Copynumber: 6.4 Consensus size: 41
19130595 GTATAAATGA
**
19130605 AAGACTCATGTCTCTAGATGAGCATGAGATTATATTAAAGG
1 AAGACTCATGTCTCGGGATGAGCATGAGATTATATTAAAGG
* * *
19130646 AAGACTCATGTCTCGGAATGAGCCTGAGAGTATATTAAAGG
1 AAGACTCATGTCTCGGGATGAGCATGAGATTATATTAAAGG
* * *
19130687 AAGACTCATGTCTCAGGATGAACATGTGATTATATTAAAGG
1 AAGACTCATGTCTCGGGATGAGCATGAGATTATATTAAAGG
* * **
19130728 AAGAATCATGTCTCGGAATGAGCATGAGGGTATATTAAAGG
1 AAGACTCATGTCTCGGGATGAGCATGAGATTATATTAAAGG
* * * *
19130769 AAGACTCATGTCTTGGGTTTGAGCATGAGATTATGTTTTAAGG
1 AAGACTCATGTCTCGGG-ATGAGCATGAGATTAT-ATTAAAGG
* * *
19130812 AAGACTCGTGACTCGGGATGAGCTTGAGATTACGT-TTAAAGG
1 AAGACTCATGTCTCGGGATGAGCATGAGATTA--TATTAAAGG
* *
19130854 AAGACTTATGACTCGG
1 AAGACTCATGTCTCGG
19130870 TTGTTATATA
Statistics
Matches: 186, Mismatches: 34, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
41 119 0.64
42 46 0.25
43 20 0.11
44 1 0.01
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.28
Consensus pattern (41 bp):
AAGACTCATGTCTCGGGATGAGCATGAGATTATATTAAAGG
Found at i:19132299 original size:26 final size:26
Alignment explanation
Indices: 19132227--19132300 Score: 87
Period size: 25 Copynumber: 2.9 Consensus size: 26
19132217 AAATAACTGA
* *
19132227 TACTGAAAAATAAATGACAAACTAAT
1 TACTGAAAAATAAATGATAAACTAAG
** *
19132253 TACTG-AAAGCAAATAATAAACTAAG
1 TACTGAAAAATAAATGATAAACTAAG
*
19132278 TACTGAAAAATAAATGGTAAACT
1 TACTGAAAAATAAATGATAAACT
19132301 GTAAATGGTA
Statistics
Matches: 38, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
25 20 0.53
26 18 0.47
ACGTcount: A:0.55, C:0.11, G:0.11, T:0.23
Consensus pattern (26 bp):
TACTGAAAAATAAATGATAAACTAAG
Found at i:19133564 original size:72 final size:72
Alignment explanation
Indices: 19133482--19133615 Score: 223
Period size: 72 Copynumber: 1.9 Consensus size: 72
19133472 AAGTGAACAG
* *
19133482 CCATCATTCATCATTCATAAATGAATGTGTTGTTTCATATAAAAACTCTTGAATGAAACATTAAA
1 CCATCATTCATCATTCATAAATGAATATGTTGATTCATATAAAAACTCTTGAATGAAACATTAAA
19133547 TGTGAAA
66 TGTGAAA
* * *
19133554 CCATCATTCATCATTCATAAATGAATATGTTGATTCATTTAAAAACTCTTTAGTGAAACATT
1 CCATCATTCATCATTCATAAATGAATATGTTGATTCATATAAAAACTCTTGAATGAAACATT
19133616 GTATCCCTCC
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
72 57 1.00
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.37
Consensus pattern (72 bp):
CCATCATTCATCATTCATAAATGAATATGTTGATTCATATAAAAACTCTTGAATGAAACATTAAA
TGTGAAA
Found at i:19138074 original size:18 final size:18
Alignment explanation
Indices: 19138051--19138087 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
19138041 TCTTAGGAGC
*
19138051 ATTCTGTCCCCATTTAGA
1 ATTCTGACCCCATTTAGA
*
19138069 ATTCTGACTCCATTTAGA
1 ATTCTGACCCCATTTAGA
19138087 A
1 A
19138088 GTAGAAGAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.27, C:0.24, G:0.11, T:0.38
Consensus pattern (18 bp):
ATTCTGACCCCATTTAGA
Found at i:19139113 original size:5 final size:5
Alignment explanation
Indices: 19139069--19139171 Score: 98
Period size: 5 Copynumber: 20.4 Consensus size: 5
19139059 AACCTGATAT
* * * * * * *
19139069 TTTTC ATTTC ATTTC GTTTC TTTTA TTTTA TTTTA TTTTC TTTTC GTTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC
* * * *
19139119 GTTTC TTGTC TTTTT TTTTC TTTTTC TTTTC GTTTC TTTTC TTTTC TTTTC
1 TTTTC TTTTC TTTTC TTTTC -TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC
19139170 TT
1 TT
19139172 CCAAACAGCA
Statistics
Matches: 84, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
5 79 0.94
6 5 0.06
ACGTcount: A:0.05, C:0.16, G:0.05, T:0.75
Consensus pattern (5 bp):
TTTTC
Found at i:19139150 original size:31 final size:31
Alignment explanation
Indices: 19139080--19139171 Score: 105
Period size: 31 Copynumber: 3.0 Consensus size: 31
19139070 TTTCATTTCA
* * * *
19139080 TTTCGTTTCTTTTATTTTATTTTATTTTC-T
1 TTTCGTTTCGTTTCTTGTCTTTTATTTTCTT
*
19139110 TTTCGTTTCGTTTCTTGTCTTTTTTTTTCTT
1 TTTCGTTTCGTTTCTTGTCTTTTATTTTCTT
* * *
19139141 TTTCTTTTCGTTTCTTTTCTTTTCTTTTCTT
1 TTTCGTTTCGTTTCTTGTCTTTTATTTTCTT
19139172 CCAAACAGCA
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
30 24 0.45
31 29 0.55
ACGTcount: A:0.03, C:0.15, G:0.05, T:0.76
Consensus pattern (31 bp):
TTTCGTTTCGTTTCTTGTCTTTTATTTTCTT
Found at i:19148781 original size:15 final size:15
Alignment explanation
Indices: 19148757--19148813 Score: 53
Period size: 15 Copynumber: 3.6 Consensus size: 15
19148747 GATGAAGAAT
*
19148757 AATAATAATTTTAAA
1 AATAAAAATTTTAAA
19148772 AATAAAAATTAATTAAA
1 AATAAAAATT--TTAAA
*
19148789 TAATAATAA-TTTAATA
1 -AATAAAAATTTTAA-A
19148805 AATAAAAAT
1 AATAAAAAT
19148814 AAGCTAGAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
15 20 0.59
16 1 0.03
17 6 0.18
18 7 0.21
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
AATAAAAATTTTAAA
Found at i:19148793 original size:18 final size:18
Alignment explanation
Indices: 19148754--19148809 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
19148744 GATGATGAAG
*
19148754 AATAATAATAATT--TTA
1 AATAATAAAAATTAATTA
19148770 AA-AATAAAAATTAATTA
1 AATAATAAAAATTAATTA
*
19148787 AATAATAATAATTTAA-TA
1 AATAATAA-AAATTAATTA
19148805 AATAA
1 AATAA
19148810 AAATAAGCTA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
15 9 0.26
16 2 0.06
17 5 0.15
18 12 0.35
19 6 0.18
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
AATAATAAAAATTAATTA
Found at i:19148814 original size:18 final size:19
Alignment explanation
Indices: 19148780--19148815 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
19148770 AAAATAAAAA
*
19148780 TTAATTAAATAATAATAAT
1 TTAATTAAATAAAAATAAT
19148799 TTAA-TAAATAAAAATAA
1 TTAATTAAATAAAAATAA
19148816 GCTAGAATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
TTAATTAAATAAAAATAAT
Found at i:19151308 original size:19 final size:18
Alignment explanation
Indices: 19151278--19151326 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
19151268 CTACAATATC
*
19151278 TTAAAATATAAAA-AAAA
1 TTAAACTATAAAATAAAA
*
19151295 TTAATAACTATAAAATAAAG
1 TT-A-AACTATAAAATAAAA
19151315 TTAAACTATAAA
1 TTAAACTATAAA
19151327 CTTTAAAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 2 0.07
18 10 0.37
19 10 0.37
20 5 0.19
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (18 bp):
TTAAACTATAAAATAAAA
Found at i:19158823 original size:17 final size:18
Alignment explanation
Indices: 19158789--19158828 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
19158779 GGGTTTAGAG
* *
19158789 ATAAAAAGCTAAACTAAA
1 ATAAAAAGCGAAAATAAA
19158807 ATAAAAA-CGAAAATAAA
1 ATAAAAAGCGAAAATAAA
19158824 ATAAA
1 ATAAA
19158829 TAAAATGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.72, C:0.07, G:0.05, T:0.15
Consensus pattern (18 bp):
ATAAAAAGCGAAAATAAA
Found at i:19160316 original size:2 final size:2
Alignment explanation
Indices: 19160309--19160361 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
19160299 CATAAGTATG
19160309 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
19160351 TA TA TA TA TA T
1 TA TA TA TA TA T
19160362 TTTAAGACAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:19163531 original size:15 final size:15
Alignment explanation
Indices: 19163511--19163553 Score: 86
Period size: 15 Copynumber: 2.9 Consensus size: 15
19163501 CTATCTCCGA
19163511 TTCCGTGAGCTTCTT
1 TTCCGTGAGCTTCTT
19163526 TTCCGTGAGCTTCTT
1 TTCCGTGAGCTTCTT
19163541 TTCCGTGAGCTTC
1 TTCCGTGAGCTTC
19163554 AAACTCTGTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.07, C:0.28, G:0.21, T:0.44
Consensus pattern (15 bp):
TTCCGTGAGCTTCTT
Found at i:19166353 original size:21 final size:22
Alignment explanation
Indices: 19166308--19166361 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 22
19166298 ATTATATTAT
* *
19166308 TGTTTTAGTGTTGTTTTGGTTAC
1 TGTTTTGGTGTTATTTT-GTTAC
19166331 TGTTTTGGTGTTATTTT-TTAC
1 TGTTTTGGTGTTATTTTGTTAC
19166352 TGTTTTGGTG
1 TGTTTTGGTG
19166362 CTGTTTTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 14 0.48
23 15 0.52
ACGTcount: A:0.07, C:0.04, G:0.26, T:0.63
Consensus pattern (22 bp):
TGTTTTGGTGTTATTTTGTTAC
Found at i:19166368 original size:21 final size:21
Alignment explanation
Indices: 19166308--19166369 Score: 79
Period size: 21 Copynumber: 2.9 Consensus size: 21
19166298 ATTATATTAT
*
19166308 TGTTTTAGTGTTGTTTTGGTTAC
1 TGTTTTGGTGTTGTTTT--TTAC
*
19166331 TGTTTTGGTGTTATTTTTTAC
1 TGTTTTGGTGTTGTTTTTTAC
*
19166352 TGTTTTGGTGCTGTTTTT
1 TGTTTTGGTGTTGTTTTT
19166370 ATTGTTATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 20 0.57
23 15 0.43
ACGTcount: A:0.06, C:0.05, G:0.24, T:0.65
Consensus pattern (21 bp):
TGTTTTGGTGTTGTTTTTTAC
Found at i:19166370 original size:20 final size:21
Alignment explanation
Indices: 19166327--19166375 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
19166317 GTTGTTTTGG
* *
19166327 TTACTGTTTTGGTGTTATTTT
1 TTACTGTTTTGGTGCTAGTTT
19166348 TTACTGTTTTGGTGCT-GTTT
1 TTACTGTTTTGGTGCTAGTTT
*
19166368 TTATTGTT
1 TTACTGTT
19166376 ATTTTTCTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 10 0.40
21 15 0.60
ACGTcount: A:0.08, C:0.06, G:0.20, T:0.65
Consensus pattern (21 bp):
TTACTGTTTTGGTGCTAGTTT
Found at i:19166440 original size:12 final size:12
Alignment explanation
Indices: 19166407--19166446 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
19166397 ATTGTTTCGC
* *
19166407 TGTTATTTTTGC
1 TGTTATTTTGGT
*
19166419 TGTTGTTTTGGT
1 TGTTATTTTGGT
19166431 TGTTATTTTGGT
1 TGTTATTTTGGT
19166443 TGTT
1 TGTT
19166447 TGGATGTTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.05, C:0.03, G:0.25, T:0.68
Consensus pattern (12 bp):
TGTTATTTTGGT
Found at i:19166454 original size:20 final size:21
Alignment explanation
Indices: 19166420--19166459 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
19166410 TATTTTTGCT
*
19166420 GTTGTTTTGGTTGTTATTTTG
1 GTTGTTTTGGATGTTATTTTG
19166441 GTTG-TTTGGATGTTATTTT
1 GTTGTTTTGGATGTTATTTT
19166460 TATGCGTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.07, C:0.00, G:0.28, T:0.65
Consensus pattern (21 bp):
GTTGTTTTGGATGTTATTTTG
Found at i:19176122 original size:51 final size:51
Alignment explanation
Indices: 19176041--19176233 Score: 341
Period size: 51 Copynumber: 3.8 Consensus size: 51
19176031 GTTATAAACA
19176041 AAAGAGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACAGATT
1 AAAG-GTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACAGATT
*
19176093 AAAGGTCCGATGACTAAGTGTCATTGTGAGTAAATGAATCCTTTACAGATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACAGATT
*
19176144 AAAGGTCTGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACAGATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACAGATT
* *
19176195 AAAGGTCCGATGACTTAGTGTCATCGTGAGTATATGAAT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAAT
19176234 TTCTATACGA
Statistics
Matches: 135, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
51 131 0.97
52 4 0.03
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (51 bp):
AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACAGATT
Found at i:19181781 original size:42 final size:42
Alignment explanation
Indices: 19181722--19181806 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
19181712 TCTATAATTG
*
19181722 AATGTTTCGAGTAGAGCAATGCTCTCGAAAAATTTAACACCT
1 AATGTTTCGAGTAGAGCAATACTCTCGAAAAATTTAACACCT
19181764 AATGTTTCGAGTAGAGCAATACTCTCGAAAAATTTAACACCT
1 AATGTTTCGAGTAGAGCAATACTCTCGAAAAATTTAACACCT
19181806 A
1 A
19181807 TTTTGCAACC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (42 bp):
AATGTTTCGAGTAGAGCAATACTCTCGAAAAATTTAACACCT
Found at i:19186559 original size:39 final size:39
Alignment explanation
Indices: 19186502--19186577 Score: 107
Period size: 39 Copynumber: 1.9 Consensus size: 39
19186492 AACCACGGTA
* *
19186502 ATGAGCCACCCCAACACCCTGGGCCTAGTGATAGGGGGG
1 ATGAGCCACCACAACACCCTGGACCTAGTGATAGGGGGG
* * *
19186541 ATGAGCCACCACACCACCCTGGACCTGGTGGTAGGGG
1 ATGAGCCACCACAACACCCTGGACCTAGTGATAGGGG
19186578 AGAGGAACAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.22, C:0.32, G:0.33, T:0.13
Consensus pattern (39 bp):
ATGAGCCACCACAACACCCTGGACCTAGTGATAGGGGGG
Found at i:19188913 original size:18 final size:18
Alignment explanation
Indices: 19188878--19188912 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
19188868 TTTTTCTATC
19188878 CTCTTTCTTTGCTCTTTT
1 CTCTTTCTTTGCTCTTTT
*
19188896 CTCTTTTTTTGCT-TTTT
1 CTCTTTCTTTGCTCTTTT
19188913 TTCCATTCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.00, C:0.23, G:0.06, T:0.71
Consensus pattern (18 bp):
CTCTTTCTTTGCTCTTTT
Found at i:19195797 original size:13 final size:13
Alignment explanation
Indices: 19195776--19195809 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
19195766 TAAAAAGCAT
19195776 AATATAAAAGAGAA
1 AATA-AAAAGAGAA
*
19195790 AATAAAAATAGAA
1 AATAAAAAGAGAA
19195803 AATAAAA
1 AATAAAA
19195810 GAAAAATGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 15 0.79
14 4 0.21
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (13 bp):
AATAAAAAGAGAA
Found at i:19207730 original size:26 final size:26
Alignment explanation
Indices: 19207701--19207758 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
19207691 GTATGCCCAA
* *
19207701 AATTGTCGCTGCCTGAA-CATGTCCAG
1 AATTGTCGCTACAT-AAGCATGTCCAG
*
19207727 AATTGTCGCTACATAAGCATGTTCAG
1 AATTGTCGCTACATAAGCATGTCCAG
19207753 AATTGT
1 AATTGT
19207759 GCCCAGAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 2 0.07
26 26 0.93
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (26 bp):
AATTGTCGCTACATAAGCATGTCCAG
Found at i:19210124 original size:15 final size:16
Alignment explanation
Indices: 19210092--19210133 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
19210082 GGATCTCCCA
19210092 ATCTTCATAG-TACCC
1 ATCTTCATAGATACCC
*
19210107 ATCTTCATAGATA-TC
1 ATCTTCATAGATACCC
*
19210122 ATCCTCATAGAT
1 ATCTTCATAGAT
19210134 GTCGTCATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 22 0.92
16 2 0.08
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (16 bp):
ATCTTCATAGATACCC
Found at i:19214642 original size:29 final size:29
Alignment explanation
Indices: 19214582--19214648 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
19214572 ACGGTCTTGT
* **
19214582 TGACGTGACCATTAAGGGACTAACAGTGC
1 TGACGTGGCCATTAAGGGACTAACAGCAC
* * *
19214611 TGACGTGGCCGTTAAGGTACTAACGGCAC
1 TGACGTGGCCATTAAGGGACTAACAGCAC
19214640 TGACGTGGC
1 TGACGTGGC
19214649 AATTTATTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.25, C:0.22, G:0.31, T:0.21
Consensus pattern (29 bp):
TGACGTGGCCATTAAGGGACTAACAGCAC
Found at i:19214752 original size:20 final size:20
Alignment explanation
Indices: 19214727--19214838 Score: 82
Period size: 20 Copynumber: 5.9 Consensus size: 20
19214717 CCACGTCAGT
19214727 AAATTATTTTAAAATTATTA
1 AAATTATTTTAAAATTATTA
19214747 AAATTATTTTTTAAAA-TA-T-
1 AAATTA--TTTTAAAATTATTA
19214766 AAATT-TTTTAAATGATT-TTA
1 AAATTATTTTAAA--ATTATTA
* * * *
19214786 AAATTAATTT-AATTTTTTT
1 AAATTATTTTAAAATTATTA
19214805 AAA-TA---TAAAATTATTA
1 AAATTATTTTAAAATTATTA
19214821 AAATTATTTTAAAATTAT
1 AAATTATTTTAAAATTAT
19214839 AATCATCATC
Statistics
Matches: 72, Mismatches: 6, Indels: 28
0.68 0.06 0.26
Matches are distributed among these distances:
15 1 0.01
16 16 0.22
17 2 0.03
18 5 0.07
19 12 0.17
20 23 0.32
21 5 0.07
22 8 0.11
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (20 bp):
AAATTATTTTAAAATTATTA
Found at i:19214830 original size:46 final size:49
Alignment explanation
Indices: 19214727--19214837 Score: 142
Period size: 46 Copynumber: 2.3 Consensus size: 49
19214717 CCACGTCAGT
* *
19214727 AAATTATTTTAAAATT-ATTAAAATTATTTTTTAAAATATAAATTTTTT
1 AAATTATTTTAAAATTAATTAAAATTATTTTTTAAAATATAAATTATTA
* *
19214775 AAATGATTTTAAAATTAATT-TAA-T-TTTTTT-AAATATAAAATTATTA
1 AAATTATTTTAAAATTAATTAAAATTATTTTTTAAAATAT-AAATTATTA
19214821 AAATTATTTTAAAATTA
1 AAATTATTTTAAAATTA
19214838 TAATCATCAT
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
45 6 0.11
46 29 0.52
47 1 0.02
48 17 0.30
49 3 0.05
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (49 bp):
AAATTATTTTAAAATTAATTAAAATTATTTTTTAAAATATAAATTATTA
Found at i:19216027 original size:20 final size:22
Alignment explanation
Indices: 19216002--19216043 Score: 70
Period size: 20 Copynumber: 2.0 Consensus size: 22
19215992 AAAAAAAATT
19216002 AATAATTTT-AT-ATTTTAAAA
1 AATAATTTTAATAATTTTAAAA
19216022 AATAATTTTAATAATTTTAAAA
1 AATAATTTTAATAATTTTAAAA
19216044 TAATTTGCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 9 0.45
21 2 0.10
22 9 0.45
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AATAATTTTAATAATTTTAAAA
Found at i:19216044 original size:20 final size:19
Alignment explanation
Indices: 19216002--19216049 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 19
19215992 AAAAAAAATT
19216002 AATAATTTTATATTTTAAAA
1 AATAATTTTATATTTT-AAA
19216022 AATAATTTTAATAATTTT-AA
1 AATAATTTT-AT-ATTTTAAA
19216042 AATAATTT
1 AATAATTT
19216050 GCTGACGTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 19 0.73
21 2 0.08
22 5 0.19
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
AATAATTTTATATTTTAAA
Found at i:19220665 original size:16 final size:16
Alignment explanation
Indices: 19220618--19220667 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
19220608 TGAATTACTG
*
19220618 ATTACAACTATATTAT-
1 ATTACAACTCTATT-TC
* *
19220634 ATTATAGCTCTA-TTC
1 ATTACAACTCTATTTC
19220649 ATTACAACTCTATTTC
1 ATTACAACTCTATTTC
19220665 ATT
1 ATT
19220668 CTCTCAACTA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
14 1 0.04
15 11 0.41
16 15 0.56
ACGTcount: A:0.34, C:0.18, G:0.02, T:0.46
Consensus pattern (16 bp):
ATTACAACTCTATTTC
Found at i:19222037 original size:17 final size:17
Alignment explanation
Indices: 19221989--19222029 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
19221979 TTTTTTATTT
19221989 TTTTCTTGTTAATTTTA
1 TTTTCTTGTTAATTTTA
19222006 TTTTCTTGTTAATTTTA
1 TTTTCTTGTTAATTTTA
19222023 TTTTCTT
1 TTTTCTT
19222030 TTCAATTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.15, C:0.07, G:0.05, T:0.73
Consensus pattern (17 bp):
TTTTCTTGTTAATTTTA
Found at i:19222482 original size:3 final size:3
Alignment explanation
Indices: 19222476--19222501 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
19222466 ATTATTATTA
19222476 TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT
19222502 AAATGATTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:19223553 original size:18 final size:19
Alignment explanation
Indices: 19223530--19223588 Score: 59
Period size: 22 Copynumber: 3.0 Consensus size: 19
19223520 TCCAATTGTA
19223530 ATTTTTATTAAAA-AT-TTT
1 ATTTTT-TTAAAATATATTT
19223548 ATTTTTTTAAAATATATTT
1 ATTTTTTTAAAATATATTT
*
19223567 ATTAATTTTTTAAAATAAATTT
1 A-T--TTTTTTAAAATATATTT
19223589 TTGCTGACGT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
17 6 0.17
18 8 0.23
19 4 0.11
20 1 0.03
22 16 0.46
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
ATTTTTTTAAAATATATTT
Found at i:19224167 original size:24 final size:24
Alignment explanation
Indices: 19224140--19224186 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
19224130 AAGCTTAATT
* *
19224140 CTAATCAATGTAAAATATATTATG
1 CTAATAAATGTAAAATAAATTATG
*
19224164 CTAATAAATGTTAAATAAATTAT
1 CTAATAAATGTAAAATAAATTAT
19224187 ACAACTAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.38
Consensus pattern (24 bp):
CTAATAAATGTAAAATAAATTATG
Found at i:19224195 original size:24 final size:24
Alignment explanation
Indices: 19224140--19224196 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
19224130 AAGCTTAATT
* * *
19224140 CTAATCAATGTAAAATATATTATG
1 CTAATAAATGTAAAATAAATTATA
*
19224164 CTAATAAATGTTAAATAAATTATA
1 CTAATAAATGTAAAATAAATTATA
19224188 C-AACTAAAT
1 CTAA-TAAAT
19224197 TTTCTAGAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 2 0.07
24 26 0.93
ACGTcount: A:0.51, C:0.09, G:0.05, T:0.35
Consensus pattern (24 bp):
CTAATAAATGTAAAATAAATTATA
Found at i:19228133 original size:15 final size:15
Alignment explanation
Indices: 19228113--19228149 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
19228103 TTGTATCACT
19228113 CTTTCTTAAGATGCC
1 CTTTCTTAAGATGCC
19228128 CTTTCTTAAGATGCC
1 CTTTCTTAAGATGCC
19228143 CTTTCTT
1 CTTTCTT
19228150 CTTGCAGAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.16, C:0.27, G:0.11, T:0.46
Consensus pattern (15 bp):
CTTTCTTAAGATGCC
Found at i:19229225 original size:35 final size:36
Alignment explanation
Indices: 19229179--19229255 Score: 113
Period size: 35 Copynumber: 2.2 Consensus size: 36
19229169 AAGATAATAT
*
19229179 ATTTTGTTTAACTTGACTTGCAA-TCAATTTCTTAG-
1 ATTTTGTTTAACTTGACTTGCAAGT-AATCTCTTAGA
*
19229214 ATTTTGTTTAACTTGACTTGTAAGTAATCTCTTAGA
1 ATTTTGTTTAACTTGACTTGCAAGTAATCTCTTAGA
19229250 ATTTTG
1 ATTTTG
19229256 GTCACACAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
35 31 0.82
36 7 0.18
ACGTcount: A:0.26, C:0.12, G:0.13, T:0.49
Consensus pattern (36 bp):
ATTTTGTTTAACTTGACTTGCAAGTAATCTCTTAGA
Found at i:19229443 original size:2 final size:2
Alignment explanation
Indices: 19229436--19229483 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
19229426 AATTATGAGA
19229436 AT AT AT AT AT AT 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 AT AT AT AT AT AT
19229478 AT AT AT
1 AT AT AT
19229484 GTATGGTTTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19233649 original size:6 final size:6
Alignment explanation
Indices: 19233638--19233666 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
19233628 CAAAAGGAAA
19233638 GAAGAT GAAGAT GAAGAT GAAGAT GAAGA
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGA
19233667 AGAGAGGTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.34, T:0.14
Consensus pattern (6 bp):
GAAGAT
Found at i:19234722 original size:23 final size:24
Alignment explanation
Indices: 19234676--19234731 Score: 80
Period size: 23 Copynumber: 2.4 Consensus size: 24
19234666 GACACACATA
* *
19234676 AAACC-CCACGACATTCAGGTGGT
1 AAACCTCCACGACACTCAGGGGGT
19234699 AAACCTCCACGACACTC-GGGGGT
1 AAACCTCCACGACACTCAGGGGGT
19234722 AAACCTCCAC
1 AAACCTCCAC
19234732 ATGTTGAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 20 0.67
24 10 0.33
ACGTcount: A:0.30, C:0.36, G:0.20, T:0.14
Consensus pattern (24 bp):
AAACCTCCACGACACTCAGGGGGT
Found at i:19234906 original size:24 final size:24
Alignment explanation
Indices: 19234874--19234933 Score: 102
Period size: 24 Copynumber: 2.5 Consensus size: 24
19234864 AGGGCAGACA
*
19234874 TAAACCTCCACAACACTCAGGTGG
1 TAAACCTCCACAACACTCAGGGGG
*
19234898 TAAACCTCCACGACACTCAGGGGG
1 TAAACCTCCACAACACTCAGGGGG
19234922 TAAACCTCCACA
1 TAAACCTCCACA
19234934 TGTTGAAGGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.33, C:0.35, G:0.17, T:0.15
Consensus pattern (24 bp):
TAAACCTCCACAACACTCAGGGGG
Found at i:19235004 original size:201 final size:201
Alignment explanation
Indices: 19234627--19235650 Score: 1766
Period size: 201 Copynumber: 5.1 Consensus size: 201
19234617 ACATGGGGAA
* * * * *
19234627 AAACCGCCTCATAGATACCTATTGAGTGTGGAAGTTGAGGACACACATAAAACC-CCACGACATT
1 AAACCTCCTCATAGACACCTATTGAGTGTGGAAGTTGAGGGCACACAT-AAACCTCCACAACACT
* * *
19234691 CAGGTGGTAAACCTCCACGACACTC-GGGGGTAAACCTCCACATGTTGAAGGGTTCCCTGCTGGT
65 CAGGTGGTAAACCTCCACGACACTCAGGGGGTAAACCTCCACATGTTGAAGGATTCCTTGATGGT
* * *
19234755 AAACCACCCATGAAGCCATTCCCTGGTGACAAACCATCCAAGGGTAAGGGAAAGGGAGAACCTCA
130 AAGCCACCCATGAAGCCATTCCCCGGTGACAAACCATCAAAGGGTAAGGGAAAGGGAGAACCTCA
19234820 TGAACCC
195 TGAACCC
*
19234827 AAACCTCCTCATAGACACCTATTGAGTGTGGAAGTTGAGGGCAGACATAAACCTCCACAACACTC
1 AAACCTCCTCATAGACACCTATTGAGTGTGGAAGTTGAGGGCACACATAAACCTCCACAACACTC
*
19234892 AGGTGGTAAACCTCCACGACACTCAGGGGGTAAACCTCCACATGTTGAAGGATTCCTTGGTGGTA
66 AGGTGGTAAACCTCCACGACACTCAGGGGGTAAACCTCCACATGTTGAAGGATTCCTTGATGGTA
19234957 AGCCACCCATGAAGCCATTCCCCGGTGACAAACCATCAAAGGGTAAGGGAAAGGGAGAACCTCAT
131 AGCCACCCATGAAGCCATTCCCCGGTGACAAACCATCAAAGGGTAAGGGAAAGGGAGAACCTCAT
19235022 GAACCC
196 GAACCC
*
19235028 AAACCTCCTCATAGACACCTATTGAGTGTGGAAGTTGATGGCACACATAAACCTCCACAACACTC
1 AAACCTCCTCATAGACACCTATTGAGTGTGGAAGTTGAGGGCACACATAAACCTCCACAACACTC
**
19235093 AGGTGGTAAACCTCCACGACACTCAGGGGGTAAACCTCCACATGTTGAAGGATTCCCCGATGGTA
66 AGGTGGTAAACCTCCACGACACTCAGGGGGTAAACCTCCACATGTTGAAGGATTCCTTGATGGTA
*
19235158 AGCCGCCCATGAAGCCATTCCCCGGTGACAAACCATCAAAGGGTAAGGGAAAGGGAGAACCTCAT
131 AGCCACCCATGAAGCCATTCCCCGGTGACAAACCATCAAAGGGTAAGGGAAAGGGAGAACCTCAT
19235223 GAACCC
196 GAACCC
* * *
19235229 AAACCTCCTCATAGACACCTATTGAGTGTGGAAGTTGAGGGAACACACAGACCTCCACAACACTC
1 AAACCTCCTCATAGACACCTATTGAGTGTGGAAGTTGAGGGCACACATAAACCTCCACAACACTC
*
19235294 AGGTGGTAAACCTCCACGACACTCAGGGGGTAAACCTCCACATGTTGAAGGATTCCTTGGTGGTA
66 AGGTGGTAAACCTCCACGACACTCAGGGGGTAAACCTCCACATGTTGAAGGATTCCTTGATGGTA
19235359 AGCCACCCATGAAGCCATTCCCCGGTGACAAACCATCAAAGGGTAAGGGAAAGGGAGAACCTCAT
131 AGCCACCCATGAAGCCATTCCCCGGTGACAAACCATCAAAGGGTAAGGGAAAGGGAGAACCTCAT
19235424 GAACCC
196 GAACCC
*
19235430 AAACCTCCTCATAGACACCTATTGAGTGTGGAAGTTGAGGGCAGACATAAACCTCCACAACACTC
1 AAACCTCCTCATAGACACCTATTGAGTGTGGAAGTTGAGGGCACACATAAACCTCCACAACACTC
*
19235495 AGGTGGTAAACCTCCACGACACTCAGGGGGTAAACCTCCACATGTTGAAGGATTCCCTT-ACGGT
66 AGGTGGTAAACCTCCACGACACTCAGGGGGTAAACCTCCACATGTTGAAGGATT-CCTTGATGGT
* ** *
19235559 AAGCCACCCATGAAGCCATTTCCCGGTGACAAACCATCCCAGGGTAAGGGAAAGGGAGCACCTCA
130 AAGCCACCCATGAAGCCATTCCCCGGTGACAAACCATCAAAGGGTAAGGGAAAGGGAGAACCTCA
19235624 TGAACCC
195 TGAACCC
19235631 AAACCTCCTCATAGACACCT
1 AAACCTCCTCATAGACACCT
19235651 CTTAAGTGAG
Statistics
Matches: 785, Mismatches: 36, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
199 5 0.01
200 77 0.10
201 699 0.89
202 4 0.01
ACGTcount: A:0.32, C:0.28, G:0.23, T:0.18
Consensus pattern (201 bp):
AAACCTCCTCATAGACACCTATTGAGTGTGGAAGTTGAGGGCACACATAAACCTCCACAACACTC
AGGTGGTAAACCTCCACGACACTCAGGGGGTAAACCTCCACATGTTGAAGGATTCCTTGATGGTA
AGCCACCCATGAAGCCATTCCCCGGTGACAAACCATCAAAGGGTAAGGGAAAGGGAGAACCTCAT
GAACCC
Found at i:19235107 original size:24 final size:24
Alignment explanation
Indices: 19235075--19235134 Score: 102
Period size: 24 Copynumber: 2.5 Consensus size: 24
19235065 ATGGCACACA
*
19235075 TAAACCTCCACAACACTCAGGTGG
1 TAAACCTCCACAACACTCAGGGGG
*
19235099 TAAACCTCCACGACACTCAGGGGG
1 TAAACCTCCACAACACTCAGGGGG
19235123 TAAACCTCCACA
1 TAAACCTCCACA
19235135 TGTTGAAGGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.33, C:0.35, G:0.17, T:0.15
Consensus pattern (24 bp):
TAAACCTCCACAACACTCAGGGGG
Found at i:19235315 original size:24 final size:24
Alignment explanation
Indices: 19235279--19235335 Score: 96
Period size: 24 Copynumber: 2.4 Consensus size: 24
19235269 GAACACACAG
*
19235279 ACCTCCACAACACTCAGGTGGTAA
1 ACCTCCACAACACTCAGGGGGTAA
*
19235303 ACCTCCACGACACTCAGGGGGTAA
1 ACCTCCACAACACTCAGGGGGTAA
19235327 ACCTCCACA
1 ACCTCCACA
19235336 TGTTGAAGGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.32, C:0.37, G:0.18, T:0.14
Consensus pattern (24 bp):
ACCTCCACAACACTCAGGGGGTAA
Found at i:19235509 original size:24 final size:24
Alignment explanation
Indices: 19235477--19235536 Score: 102
Period size: 24 Copynumber: 2.5 Consensus size: 24
19235467 AGGGCAGACA
*
19235477 TAAACCTCCACAACACTCAGGTGG
1 TAAACCTCCACAACACTCAGGGGG
*
19235501 TAAACCTCCACGACACTCAGGGGG
1 TAAACCTCCACAACACTCAGGGGG
19235525 TAAACCTCCACA
1 TAAACCTCCACA
19235537 TGTTGAAGGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.33, C:0.35, G:0.17, T:0.15
Consensus pattern (24 bp):
TAAACCTCCACAACACTCAGGGGG
Found at i:19236296 original size:16 final size:16
Alignment explanation
Indices: 19236273--19236344 Score: 108
Period size: 16 Copynumber: 4.5 Consensus size: 16
19236263 CGTTTGGTTC
19236273 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
*
19236289 GGTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
** *
19236305 ATTGTAATGGAATATA
1 GCTGTAATGGAATAGA
19236321 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
19236337 GCTGTAAT
1 GCTGTAAT
19236345 CAGTAATTCA
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.38, C:0.04, G:0.29, T:0.29
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:19236385 original size:46 final size:44
Alignment explanation
Indices: 19236326--19236419 Score: 127
Period size: 44 Copynumber: 2.1 Consensus size: 44
19236316 ATATAGCTGT
* *
19236326 AATGGAATAGAGCTGTAATCAGTAATTCAAT-TGTTTGGTTGATTGG
1 AATGGAATAGAGCTGTAAT-AAT-ATTC-ATGTGTTTGGTTGAATGG
*
19236372 AATGGAATAGAGCTGTAATAATATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAGCTGTAATAATATTCATGTGTTTGGTTGAATGG
19236416 AATG
1 AATG
19236420 ATGCTGTAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
43 1 0.02
44 22 0.50
45 2 0.05
46 19 0.43
ACGTcount: A:0.31, C:0.05, G:0.27, T:0.37
Consensus pattern (44 bp):
AATGGAATAGAGCTGTAATAATATTCATGTGTTTGGTTGAATGG
Found at i:19236581 original size:58 final size:55
Alignment explanation
Indices: 19236514--19236659 Score: 168
Period size: 58 Copynumber: 2.5 Consensus size: 55
19236504 AATTTTAATG
*
19236514 ATTATTATTAAATATAATTGAATAAAAATAT-TAATTTATTTAATTATATTTTAACATA
1 ATTATTATTAAATATAATT-AATAAAAATATGTAATTTA-ATAA-TAT-TTTTAACATA
* *
19236572 ATTATTATTAAATACAATTTAATAAAATAATATGTAATTTAATAATATTTTTAATATA
1 ATTATTATTAAATATAA-TTAAT-AAA-AATATGTAATTTAATAATATTTTTAACATA
*
19236630 ATTATTATTAAAATATGAATTAGTAAAAAT
1 ATTATTATT-AAATAT-AATTAATAAAAAT
19236660 TATAATATAT
Statistics
Matches: 77, Mismatches: 5, Indels: 13
0.81 0.05 0.14
Matches are distributed among these distances:
57 3 0.04
58 40 0.52
59 17 0.22
60 10 0.13
61 7 0.09
ACGTcount: A:0.50, C:0.01, G:0.03, T:0.46
Consensus pattern (55 bp):
ATTATTATTAAATATAATTAATAAAAATATGTAATTTAATAATATTTTTAACATA
Found at i:19243497 original size:18 final size:18
Alignment explanation
Indices: 19243455--19243488 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
19243445 AGAAGTTTTC
19243455 ATAATTACACATTTAAAA
1 ATAATTACACATTTAAAA
*
19243473 ATAATTAGA-ATTTAAA
1 ATAATTACACATTTAAA
19243489 TTATAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.35
Consensus pattern (18 bp):
ATAATTACACATTTAAAA
Found at i:19243864 original size:25 final size:26
Alignment explanation
Indices: 19243811--19243861 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
19243801 ACTAATTATT
**
19243811 TTAATTAAAAATATAAAATTTAAAAA
1 TTAATTAAAAATATAAAACGTAAAAA
19243837 TTAATTAAAAA-ATAAACACGTAAAA
1 TTAATTAAAAATATAAA-ACGTAAAA
19243862 TTACATGCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 5 0.23
26 17 0.77
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (26 bp):
TTAATTAAAAATATAAAACGTAAAAA
Found at i:19244163 original size:176 final size:175
Alignment explanation
Indices: 19243946--19244371 Score: 626
Period size: 175 Copynumber: 2.4 Consensus size: 175
19243936 GAATACCCTC
* * **
19243946 TATTTTTCATCATATTAC-TAAATT-ACATTTAAAAATAATTATAATTTAATCGAAAATTATTAG
1 TATTTTTCATTATATT-CTTAAATTGATATTTAAAAATAATTATAATTTAATTTAAAATTATTAG
*
19244009 TTAAAAAATTTAACGTAGAAATAAATTGTGTTAATTTTAAATTTTTAAAAATTGTA-CAAATTTT
65 TTAAAAAATTTAACGTAGAAA-AAATTGTGCTAATTTT-AATTTTTAAAAATTGTATCAAATTTT
* * *
19244073 ATTGATATAAAATAGAGTTCTTATTTAAACAGAACTCTAAGAATAATT
128 ATTGATATAAAATAGAGTTATTATTTAAACAAAACTCTAAAAATAATT
* *
19244121 TATTTTTCATTATATTCTTAAATTGATGTTTAAAAATAATTATAATTTAATTTAAATTTATTAGT
1 TATTTTTCATTATATTCTTAAATTGATATTTAAAAATAATTATAATTTAATTTAAAATTATTAGT
* * * *
19244186 TAAAAAATTTAAGGTAGAAAAAATTGTGCTAATTTTAATTTTTTAAAATTTTATGAAATTTTATT
66 TAAAAAATTTAACGTAGAAAAAATTGTGCTAATTTTAATTTTTAAAAATTGTATCAAATTTTATT
* * *
19244251 GATATAAAATAGGGTTATTATTTGAGCAAAACTCTAAAAATAATT
131 GATATAAAATAGAGTTATTATTTAAACAAAACTCTAAAAATAATT
* *
19244296 TATTTTTCATTATATTCTTAAATTGATATTT-AAAATAATTATAATTTAATTTATAATTATTAAT
1 TATTTTTCATTATATTCTTAAATTGATATTTAAAAATAATTATAATTTAATTTAAAATTATTAGT
19244360 TAAAAAATTTAA
66 TAAAAAATTTAA
19244372 ATATAAGTCA
Statistics
Matches: 227, Mismatches: 21, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
174 58 0.26
175 115 0.51
176 54 0.24
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.45
Consensus pattern (175 bp):
TATTTTTCATTATATTCTTAAATTGATATTTAAAAATAATTATAATTTAATTTAAAATTATTAGT
TAAAAAATTTAACGTAGAAAAAATTGTGCTAATTTTAATTTTTAAAAATTGTATCAAATTTTATT
GATATAAAATAGAGTTATTATTTAAACAAAACTCTAAAAATAATT
Found at i:19246180 original size:23 final size:23
Alignment explanation
Indices: 19246155--19246315 Score: 234
Period size: 23 Copynumber: 7.0 Consensus size: 23
19246145 ATTTCCGCCT
* * *
19246155 AAATCATATTAACATTTAAGCAT
1 AAATCACATTAATATTTAAGCAC
** *
19246178 AAATCACACCAATATTTAAGCAT
1 AAATCACATTAATATTTAAGCAC
* *
19246201 AAATCATATTAACATTTAAGCAC
1 AAATCACATTAATATTTAAGCAC
19246224 AAATCACATTAATATTTAAGCAC
1 AAATCACATTAATATTTAAGCAC
*
19246247 AAATCACATTAATATTTAAGAAC
1 AAATCACATTAATATTTAAGCAC
19246270 AAATCACATTAATATTTAAGCAC
1 AAATCACATTAATATTTAAGCAC
19246293 AAATCACATTAATATTTAA-CAC
1 AAATCACATTAATATTTAAGCAC
19246315 A
1 A
19246316 TATAATCACA
Statistics
Matches: 125, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
22 4 0.03
23 121 0.97
ACGTcount: A:0.49, C:0.17, G:0.04, T:0.30
Consensus pattern (23 bp):
AAATCACATTAATATTTAAGCAC
Found at i:19248767 original size:58 final size:60
Alignment explanation
Indices: 19248705--19248827 Score: 169
Period size: 58 Copynumber: 2.1 Consensus size: 60
19248695 TGAGTACTTA
* * * *
19248705 AGCATTTAACACAACACATATTAATCATATTTAATTACA-TTACTTACATGAATA-TTTT
1 AGCATTTAACACAACACATATTAATCACATTTAATCACATTTAATCACATGAATATTTTT
* * *
19248763 AGCATTTATCACATCACATATTAATCACATTTAGTCACATTTAATCACATGAATATTTTT
1 AGCATTTAACACAACACATATTAATCACATTTAATCACATTTAATCACATGAATATTTTT
19248823 AGCAT
1 AGCAT
19248828 AAATCATATT
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
58 34 0.61
59 13 0.23
60 9 0.16
ACGTcount: A:0.39, C:0.17, G:0.05, T:0.39
Consensus pattern (60 bp):
AGCATTTAACACAACACATATTAATCACATTTAATCACATTTAATCACATGAATATTTTT
Found at i:19248802 original size:10 final size:10
Alignment explanation
Indices: 19248775--19248812 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
19248765 CATTTATCAC
19248775 ATCACATATTA
1 ATCACAT-TTA
19248786 ATCACATTTA
1 ATCACATTTA
*
19248796 GTCACATTTA
1 ATCACATTTA
19248806 ATCACAT
1 ATCACAT
19248813 GAATATTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 18 0.72
11 7 0.28
ACGTcount: A:0.39, C:0.21, G:0.03, T:0.37
Consensus pattern (10 bp):
ATCACATTTA
Found at i:19248853 original size:23 final size:23
Alignment explanation
Indices: 19248823--19248937 Score: 149
Period size: 23 Copynumber: 5.0 Consensus size: 23
19248813 GAATATTTTT
19248823 AGCATAAATCATATTAACATTTA
1 AGCATAAATCATATTAACATTTA
* *
19248846 AGCATAAATCACATTAATATTTA
1 AGCATAAATCATATTAACATTTA
*
19248869 AGCATAAATTATATTAACATTTA
1 AGCATAAATCATATTAACATTTA
* * *
19248892 AGAAAAAACCATATTAACATTTA
1 AGCATAAATCATATTAACATTTA
* * *
19248915 AGCACAAATCACATTAATATTTA
1 AGCATAAATCATATTAACATTTA
19248938 GCACATATAA
Statistics
Matches: 78, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 78 1.00
ACGTcount: A:0.50, C:0.13, G:0.04, T:0.33
Consensus pattern (23 bp):
AGCATAAATCATATTAACATTTA
Found at i:19248884 original size:46 final size:46
Alignment explanation
Indices: 19248805--19248954 Score: 158
Period size: 46 Copynumber: 3.2 Consensus size: 46
19248795 AGTCACATTT
* *
19248805 AATCACATGAATATTTTTAGCATAAATCATATTAACATTTAAGCATA
1 AATCACATTAATA-TTTAAGCATAAATCATATTAACATTTAAGCATA
* * *
19248852 AATCACATTAATATTTAAGCATAAATTATATTAACATTTAAGAAAA
1 AATCACATTAATATTTAAGCATAAATCATATTAACATTTAAGCATA
* * * * * *
19248898 AACCATATTAACATTTAAGCACAAATCACATTAATATTT-AGCACATA
1 AATCACATTAATATTTAAGCATAAATCATATTAACATTTAAG--CATA
19248945 TAATCACATT
1 -AATCACATT
19248955 TAAACATAAT
Statistics
Matches: 84, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
45 2 0.02
46 61 0.73
47 14 0.17
48 7 0.08
ACGTcount: A:0.47, C:0.14, G:0.05, T:0.34
Consensus pattern (46 bp):
AATCACATTAATATTTAAGCATAAATCATATTAACATTTAAGCATA
Found at i:19253307 original size:30 final size:29
Alignment explanation
Indices: 19253235--19253387 Score: 157
Period size: 29 Copynumber: 5.2 Consensus size: 29
19253225 TCAAAACATA
* *
19253235 ATTTTAGGAAA-TTTTAGGGTCAAAATGTA
1 ATTTT-GGAAAGTTTGAGGGTCAAAATGTG
*
19253264 ATTTTTGGAAAGTTTAGGGGGTCAAAATGTG
1 A-TTTTGGAAAGTTT-GAGGGTCAAAATGTG
* * *
19253295 ATTTTGGGAAGTTTGAGGGTTAAAATATG
1 ATTTTGGAAAGTTTGAGGGTCAAAATGTG
* *
19253324 ATTTTGGGAAAGTTTGA-GGTTAAAATGTA
1 ATTTT-GGAAAGTTTGAGGGTCAAAATGTG
* *
19253353 ATTTTGGAAAAGTTTGAGTGTCAAAATATG
1 ATTTTGG-AAAGTTTGAGGGTCAAAATGTG
19253383 ATTTT
1 ATTTT
19253388 TAAATAAACA
Statistics
Matches: 104, Mismatches: 14, Indels: 11
0.81 0.11 0.09
Matches are distributed among these distances:
28 2 0.02
29 47 0.45
30 42 0.40
31 13 0.12
ACGTcount: A:0.33, C:0.02, G:0.26, T:0.39
Consensus pattern (29 bp):
ATTTTGGAAAGTTTGAGGGTCAAAATGTG
Found at i:19253379 original size:59 final size:59
Alignment explanation
Indices: 19253233--19253387 Score: 179
Period size: 60 Copynumber: 2.6 Consensus size: 59
19253223 GATCAAAACA
* * * * *
19253233 TAATTTTAGGAAA-TTTTAGGGTCAAAATGTAATTTTTGGAAAGTTTAGGGGGTCAAAATG
1 TAATTTT-GGAAAGTTTGAGGGTCAAAATATGATTTTGGGAAAGTTTA-GAGGTCAAAATG
* * * *
19253293 TGATTTTGGGAAGTTTGAGGGTTAAAATATGATTTTGGGAAAGTTT-GAGGTTAAAATG
1 TAATTTTGGAAAGTTTGAGGGTCAAAATATGATTTTGGGAAAGTTTAGAGGTCAAAATG
*
19253351 TAATTTTGGAAAAGTTTGAGTGTCAAAATATGATTTT
1 TAATTTTGG-AAAGTTTGAGGGTCAAAATATGATTTT
19253388 TAAATAAACA
Statistics
Matches: 80, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
58 18 0.22
59 28 0.35
60 34 0.43
ACGTcount: A:0.34, C:0.02, G:0.26, T:0.39
Consensus pattern (59 bp):
TAATTTTGGAAAGTTTGAGGGTCAAAATATGATTTTGGGAAAGTTTAGAGGTCAAAATG
Found at i:19261055 original size:47 final size:49
Alignment explanation
Indices: 19261004--19261116 Score: 160
Period size: 50 Copynumber: 2.3 Consensus size: 49
19260994 ATAGTAATAT
* *
19261004 AGATAAACTACCACTTAAT-AT-TATTGTGGACAAGTCATC-ACTTTTGC
1 AGATAAACTGCCACTTAATAATATATTGTGGACAAGCCA-CGACTTTTGC
19261051 AGATAAACTGCCACTTAATAATAATATTGTGGACAAGCCACGACTTTTGC
1 AGATAAACTGCCACTTAATAAT-ATATTGTGGACAAGCCACGACTTTTGC
*
19261101 AAATAAACTGCCACTT
1 AGATAAACTGCCACTT
19261117 CTTCCACCTT
Statistics
Matches: 59, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
47 18 0.31
48 2 0.03
49 1 0.02
50 38 0.64
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.30
Consensus pattern (49 bp):
AGATAAACTGCCACTTAATAATATATTGTGGACAAGCCACGACTTTTGC
Found at i:19263587 original size:41 final size:41
Alignment explanation
Indices: 19263488--19263765 Score: 299
Period size: 41 Copynumber: 6.7 Consensus size: 41
19263478 ATACTTGGTG
*** *
19263488 TATGAATAAGGAAGACTCATGTCTCGGGTTGAGCATGAGAAATTT
1 TATGAATAAGGAAGACTCATGTCTCGAAATGAGAATGAG--A--T
* * * *
19263533 TAT-AA-ATGAAAGACTCATGTCTTGAAATAAGAATGAGAT
1 TATGAATAAGGAAGACTCATGTCTCGAAATGAGAATGAGAT
* * *
19263572 TTTGATTAAGGAAGACTCATGTCTTGAAATGAGAATGAGAT
1 TATGAATAAGGAAGACTCATGTCTCGAAATGAGAATGAGAT
*
19263613 TATGAATAAGGAAAACTCATGTCTCGAAATGAGAATGAGAT
1 TATGAATAAGGAAGACTCATGTCTCGAAATGAGAATGAGAT
*
19263654 TATGAATAAAGAAGACTCATGTCTCGAAATGAGAATGAGAT
1 TATGAATAAGGAAGACTCATGTCTCGAAATGAGAATGAGAT
* * ** *
19263695 TTTGATTAAGGAAGACTCATGTCTCGAGTTGAGAATGAGAA
1 TATGAATAAGGAAGACTCATGTCTCGAAATGAGAATGAGAT
** * *
19263736 TATGGTTAAAGGAAGACTTATGACTCGAAA
1 TATGAAT-AAGGAAGACTCATGTCTCGAAA
19263766 GAGCATAAGG
Statistics
Matches: 199, Mismatches: 31, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.02
40 1 0.01
41 148 0.74
42 18 0.09
43 24 0.12
44 2 0.01
45 3 0.02
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (41 bp):
TATGAATAAGGAAGACTCATGTCTCGAAATGAGAATGAGAT
Found at i:19263709 original size:123 final size:124
Alignment explanation
Indices: 19263488--19263739 Score: 348
Period size: 123 Copynumber: 2.0 Consensus size: 124
19263478 ATACTTGGTG
* *** * *
19263488 TATGAATAAGGAAGACTCATGTCTCGGGTTGAGCATGAGAAATTTTATAAATGAAAGACTCATGT
1 TATGAATAAGGAAAACTCATGTCTCGAAATGAGAATGAG-AATTTAATAAATGAAAGACTCATGT
* * *
19263553 CTTGAAATAAGAATGAGATTTTGATTAAGGAAGACTCATGTCTTGAAATGAGAATGAGAT
65 CTCGAAATAAGAATGAGATTTTGATTAAGGAAGACTCATGTCTCGAAATGAGAATGAGAA
19263613 TATGAATAAGGAAAACTCATGTCTCGAAATGAGAATGAG-ATTATGAATAAA-G-AAGACTCATG
1 TATGAATAAGGAAAACTCATGTCTCGAAATGAGAATGAGAATT-T-AATAAATGAAAGACTCATG
* **
19263675 TCTCGAAATGAGAATGAGATTTTGATTAAGGAAGACTCATGTCTCGAGTTGAGAATGAGAA
64 TCTCGAAATAAGAATGAGATTTTGATTAAGGAAGACTCATGTCTCGAAATGAGAATGAGAA
19263736 TATG
1 TATG
19263740 GTTAAAGGAA
Statistics
Matches: 113, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
123 72 0.64
124 2 0.02
125 39 0.35
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.28
Consensus pattern (124 bp):
TATGAATAAGGAAAACTCATGTCTCGAAATGAGAATGAGAATTTAATAAATGAAAGACTCATGTC
TCGAAATAAGAATGAGATTTTGATTAAGGAAGACTCATGTCTCGAAATGAGAATGAGAA
Found at i:19281490 original size:24 final size:23
Alignment explanation
Indices: 19281463--19281512 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
19281453 TATTATTAAA
*
19281463 ATATGAAT-TAATAAAAATCATAAT
1 ATAT-AATATAATAAAAATAAT-AT
*
19281487 ATATAATATTATAAAAATAATAT
1 ATATAATATAATAAAAATAATAT
19281510 ATA
1 ATA
19281513 ACATACTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 8 0.35
24 15 0.65
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (23 bp):
ATATAATATAATAAAAATAATAT
Found at i:19281494 original size:58 final size:58
Alignment explanation
Indices: 19281343--19281494 Score: 141
Period size: 58 Copynumber: 2.6 Consensus size: 58
19281333 AGATTATGGA
* * * * * *
19281343 TAAATATATTTTAATAAAAATAATAATAAATAATTAAATCATATTTTAACATAATTAT
1 TAAATACAATTTAATAAAAATCATAATATATAATAAAATCATATTATAACATAATTAT
* * *
19281401 TAAATACAATTTAATAAAATATCAT-ATAATTTAATAAAATTCTTATTAT-A-ATTATTAT
1 TAAATACAATTTAATAAAA-ATCATAAT-ATATAATAAAA-TCATATTATAACATAATTAT
*
19281459 TAAAATATGAA-TTAATAAAAATCATAATATATAATA
1 T-AAATA-CAATTTAATAAAAATCATAATATATAATA
19281495 TTATAAAAAT
Statistics
Matches: 77, Mismatches: 11, Indels: 12
0.77 0.11 0.12
Matches are distributed among these distances:
58 39 0.51
59 29 0.38
60 9 0.12
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.41
Consensus pattern (58 bp):
TAAATACAATTTAATAAAAATCATAATATATAATAAAATCATATTATAACATAATTAT
Found at i:19281872 original size:17 final size:17
Alignment explanation
Indices: 19281843--19281929 Score: 102
Period size: 17 Copynumber: 5.1 Consensus size: 17
19281833 CTTAAACCCA
*
19281843 ATTTTAAATTTTAATTT
1 ATTTTAAATTTAAATTT
*
19281860 ATTTTTAAGTTTAAATTT
1 A-TTTTAAATTTAAATTT
* *
19281878 ATTATAAATTTAAATCT
1 ATTTTAAATTTAAATTT
* *
19281895 ATTTTGAGTTTAAATTT
1 ATTTTAAATTTAAATTT
*
19281912 ATTTTAAATTTGAATTT
1 ATTTTAAATTTAAATTT
19281929 A
1 A
19281930 ATTAAAAAGT
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
17 42 0.74
18 15 0.26
ACGTcount: A:0.37, C:0.01, G:0.05, T:0.57
Consensus pattern (17 bp):
ATTTTAAATTTAAATTT
Found at i:19283307 original size:30 final size:29
Alignment explanation
Indices: 19283266--19283545 Score: 237
Period size: 29 Copynumber: 9.6 Consensus size: 29
19283256 TCCTTAAACT
*
19283266 TTCCAAAAAATTATATTTTGACCCCCGAAC
1 TTCC-AAAAATTACATTTTGACCCCCGAAC
* * * *
19283296 TTTCCAAAAATTACACTTTAACCCTCAAAC
1 -TTCCAAAAATTACATTTTGACCCCCGAAC
* * *
19283326 TTTCAAAAAGTTACATTTTGA--CTCGAATT
1 TTCCAAAAA-TTACATTTTGACCCCCGAA-C
* **
19283355 TTTCAAAAATTACATTTTGACCCCTAAAC
1 TTCCAAAAATTACATTTTGACCCCCGAAC
* * *
19283384 TTTTCAAAAATTACATTTTTACCCCCAAAC
1 -TTCCAAAAATTACATTTTGACCCCCGAAC
* * **
19283414 TTCTAAAAATTCCATTTTG--CCCTAAAC
1 TTCCAAAAATTACATTTTGACCCCCGAAC
*
19283441 TTCCAAAAATCACATTTTTG-CCCCCGAAC
1 TTCCAAAAATTACA-TTTTGACCCCCGAAC
* * * *
19283470 TTCCGAAAATCACATTTTTACCCTCGAAC
1 TTCCAAAAATTACATTTTGACCCCCGAAC
* *
19283499 TTCCAAAAATTTCATTTTTACCCCCGAAC
1 TTCCAAAAATTACATTTTGACCCCCGAAC
*
19283528 TTCCAAAAATCACATTTT
1 TTCCAAAAATTACATTTT
19283546 TACCTCGAAT
Statistics
Matches: 206, Mismatches: 35, Indels: 18
0.80 0.14 0.07
Matches are distributed among these distances:
27 18 0.09
28 25 0.12
29 100 0.49
30 59 0.29
31 4 0.02
ACGTcount: A:0.35, C:0.27, G:0.04, T:0.34
Consensus pattern (29 bp):
TTCCAAAAATTACATTTTGACCCCCGAAC
Found at i:19283560 original size:29 final size:28
Alignment explanation
Indices: 19283266--19283604 Score: 216
Period size: 29 Copynumber: 11.6 Consensus size: 28
19283256 TCCTTAAACT
* * *
19283266 TTCCAAAAAATTATATTTTGACCCCCGAAC
1 TTCC-AAAAATTACATTTTTA-CCTCGAAC
* * *
19283296 TTTCCAAAAATTACACTTTAACCCTCAAAC
1 -TTCCAAAAATTACATTTTTA-CCTCGAAC
* * *
19283326 TTTCAAAAAGTTACATTTTGA-CTCGAATT
1 TTCCAAAAA-TTACATTTTTACCTCGAA-C
* * * *
19283355 TTTCAAAAATTACATTTTGACCCCTAAAC
1 TTCCAAAAATTACATTTTTACCTC-GAAC
* * *
19283384 TTTTCAAAAATTACATTTTTACCCCCAAAC
1 -TTCCAAAAATTACATTTTTA-CCTCGAAC
* * ** *
19283414 TTCTAAAAATTCCATTTTGCCCT-AAAC
1 TTCCAAAAATTACATTTTTACCTCGAAC
* * *
19283441 TTCCAAAAATCACATTTTTGCCCCCGAAC
1 TTCCAAAAATTACATTTTT-ACCTCGAAC
* *
19283470 TTCCGAAAATCACATTTTTACCCTCGAAC
1 TTCCAAAAATTACATTTTTA-CCTCGAAC
* *
19283499 TTCCAAAAATTTCATTTTTACCCCCGAAC
1 TTCCAAAAATTACATTTTTA-CCTCGAAC
* *
19283528 TTCCAAAAATCACATTTTTACCTCGAATT
1 TTCCAAAAATTACATTTTTACCTCGAA-C
* * *
19283557 TTCCCAAAATGACATTTTTACCTCTAAAAC
1 TTCCAAAAATTACATTTTTACCTC--GAAC
19283587 TTTCC-AAAATTACATTTT
1 -TTCCAAAAATTACATTTT
19283605 AACCCTAAAC
Statistics
Matches: 253, Mismatches: 42, Indels: 27
0.79 0.13 0.08
Matches are distributed among these distances:
27 19 0.08
28 27 0.11
29 127 0.50
30 66 0.26
31 14 0.06
ACGTcount: A:0.35, C:0.26, G:0.04, T:0.35
Consensus pattern (28 bp):
TTCCAAAAATTACATTTTTACCTCGAAC
Found at i:19283572 original size:87 final size:87
Alignment explanation
Indices: 19283281--19283609 Score: 265
Period size: 88 Copynumber: 3.8 Consensus size: 87
19283271 AAAAATTATA
* * * * * *
19283281 TTTTGACCCCCGAACTTTCCAAAAATTACACTTTAACCCTCAAACTTTCAAAAAGTTACATTTTG
1 TTTTGA-CCCCGAAC-TTCCCAAAATCACATTTTTACCCTCAAACTTCCAAAAA-TTACATTTTT
* * ** * *
19283346 A-CTCGAATTTTTCAAAAATTACA-
63 ACCCCCAAACTTCCAAAAATCACAT
* * * * * * *
19283369 TTTTGACCCCTAAACTTTTCAAAAATTACATTTTTACCCCCAAACTTCTAAAAATTCCA-TTTT-
1 TTTTGACCCC-GAAC-TTCCCAAAATCACATTTTTACCCTCAAACTTCCAAAAATTACATTTTTA
* *
19283432 GCCCTAAACTTCCAAAAATCACAT
64 CCCCCAAACTTCCAAAAATCACAT
* * * *
19283456 TTTTGCCCCCGAACTTCCGAAAATCACATTTTTACCCTCGAACTTCCAAAAATTTCATTTTTACC
1 TTTTGACCCCGAACTTCCCAAAATCACATTTTTACCCTCAAACTTCCAAAAATTACATTTTTACC
*
19283521 CCCGAACTTCCAAAAATCACAT
66 CCCAAACTTCCAAAAATCACAT
* * * * *
19283543 TTTT-ACCTCGAATTTTCCCAAAATGACATTTTTACCTCTAAAACTTTCC-AAAATTACATTTTA
1 TTTTGACCCCGAA-CTTCCCAAAATCACATTTTTACC-CTCAAAC-TTCCAAAAATTACATTTTT
19283606 ACCC
63 ACCC
19283610 TAAACTCTCC
Statistics
Matches: 197, Mismatches: 36, Indels: 16
0.79 0.14 0.06
Matches are distributed among these distances:
85 36 0.18
86 32 0.16
87 62 0.31
88 63 0.32
89 4 0.02
ACGTcount: A:0.34, C:0.27, G:0.04, T:0.34
Consensus pattern (87 bp):
TTTTGACCCCGAACTTCCCAAAATCACATTTTTACCCTCAAACTTCCAAAAATTACATTTTTACC
CCCAAACTTCCAAAAATCACAT
Found at i:19284037 original size:97 final size:97
Alignment explanation
Indices: 19283871--19284064 Score: 289
Period size: 97 Copynumber: 2.0 Consensus size: 97
19283861 AAAATATTTA
* *
19283871 AAATCGAGGAAATATTCCTTTATTTCGAGTTTTGAAAATTTGTGCCTTAACTTACTAAGCGAGAT
1 AAATCGAGGAAATATTCCTTTATCTCGAGTTTTGAAAATTTGTGCCTTAACTTACTAAGCGAGAC
19283936 TTTTCTTCAAACCAGGATAATCGAATACCCTT
66 TTTTCTTCAAACCAGGATAATCGAATACCCTT
* * * * * * *
19283968 AAATCGAGGCAATGTTTCTTTATCTCTAGTTTTGAAAATTTGTGCCTTAACTTATTAGGCGCGAC
1 AAATCGAGGAAATATTCCTTTATCTCGAGTTTTGAAAATTTGTGCCTTAACTTACTAAGCGAGAC
* *
19284033 TTTTCTTCAAATCGGGATAATCGAATACCCTT
66 TTTTCTTCAAACCAGGATAATCGAATACCCTT
19284065 TTTCCAAGGT
Statistics
Matches: 86, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
97 86 1.00
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.37
Consensus pattern (97 bp):
AAATCGAGGAAATATTCCTTTATCTCGAGTTTTGAAAATTTGTGCCTTAACTTACTAAGCGAGAC
TTTTCTTCAAACCAGGATAATCGAATACCCTT
Found at i:19287503 original size:27 final size:28
Alignment explanation
Indices: 19287471--19287530 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 28
19287461 ATTAAAATAA
** * *
19287471 TTTTAACTTTTAAATTAAGACAA-ATGT
1 TTTTAACTCATAAATTAAAACAATATAT
*
19287498 TTTTAAGTCATAAATTAAAACAATATAT
1 TTTTAACTCATAAATTAAAACAATATAT
19287526 TTTTA
1 TTTTA
19287531 TTTTGATCAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 19 0.70
28 8 0.30
ACGTcount: A:0.43, C:0.07, G:0.05, T:0.45
Consensus pattern (28 bp):
TTTTAACTCATAAATTAAAACAATATAT
Found at i:19287995 original size:19 final size:19
Alignment explanation
Indices: 19287971--19288007 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
19287961 TGTTGTTTGC
* *
19287971 TACTATTTTGTTATTATTT
1 TACTATTATATTATTATTT
19287990 TACTATTATATTATTATT
1 TACTATTATATTATTATT
19288008 ATTTATTTGG
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:0.27, C:0.05, G:0.03, T:0.65
Consensus pattern (19 bp):
TACTATTATATTATTATTT
Found at i:19294309 original size:18 final size:18
Alignment explanation
Indices: 19294266--19294311 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
19294256 CAAGGTCACG
*
19294266 ATCAATAGCGTCACTAGC
1 ATCAATATCGTCACTAGC
19294284 ATCAATATCGTCACTAGC
1 ATCAATATCGTCACTAGC
19294302 ATCAATATCG
1 ATCAATATCG
19294312 ATATCATCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.35, C:0.26, G:0.13, T:0.26
Consensus pattern (18 bp):
ATCAATATCGTCACTAGC
Found at i:19296762 original size:24 final size:21
Alignment explanation
Indices: 19296695--19296742 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
19296685 TGAGTTAGAC
*
19296695 AAAAGAGAAGCAACTTGGACA
1 AAAAGAGAAGTAACTTGGACA
19296716 AAAAGAGAAGTAACTTGGACA
1 AAAAGAGAAGTAACTTGGACA
19296737 AAAAGA
1 AAAAGA
19296743 AACGAAGTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.56, C:0.10, G:0.23, T:0.10
Consensus pattern (21 bp):
AAAAGAGAAGTAACTTGGACA
Found at i:19300635 original size:93 final size:92
Alignment explanation
Indices: 19300537--19300841 Score: 265
Period size: 93 Copynumber: 3.2 Consensus size: 92
19300527 CCTCCAATGT
* * * * *
19300537 ATGAACCTAAGCCATCAGTCCATGAACATCCAAAGAAAGAGAAGTCAGAACTCAAACCACCCGTA
1 ATGAACCTAAGCCACCAGTTCATGAACCTCCAAAGAAAGAGAAGCCAGAACACAAACCACCCGTA
19300602 TATGAACCTCCAATGAAGCCACCGATTC
66 TATGAACCTCCAA-GAAGCCACCGATTC
* * *
19300630 ATGAACCTAAACCCCCAAAGCCACCAGTTCACGAACCTCCCAAGAAAGAGAAGCCAGAACACAAG
1 ATGAACCT---------AAGCCACCAGTTCATGAACCTCCAAAGAAAGAGAAGCCAGAACACAAA
* * *
19300695 CCA-CCGATATATGAATCTCCAAAGAAGCCTCCAATGT-
57 CCACCCG-TATATGAACCTCC-AAGAAGCCACCGAT-TC
* * * * * *
19300732 ATAAACCTAAGCCACCAATTCATGAACCTCCAAAGAAAGAAAAACCA-AAGCCCAAACCACCTGT
1 ATGAACCTAAGCCACCAGTTCATGAACCTCCAAAGAAAGAGAAGCCAGAA-CACAAACCACCCGT
* *
19300796 ACATGAACCTCCCAAGAAGCCACCGATGC
65 ATATGAACCT-CCAAGAAGCCACCGATTC
* *
19300825 ATGAATCTAAACCACCA
1 ATGAACCTAAGCCACCA
19300842 AAGCCACCAA
Statistics
Matches: 168, Mismatches: 28, Indels: 32
0.74 0.12 0.14
Matches are distributed among these distances:
92 2 0.01
93 84 0.50
94 4 0.02
101 3 0.02
102 72 0.43
103 3 0.02
ACGTcount: A:0.41, C:0.31, G:0.13, T:0.14
Consensus pattern (92 bp):
ATGAACCTAAGCCACCAGTTCATGAACCTCCAAAGAAAGAGAAGCCAGAACACAAACCACCCGTA
TATGAACCTCCAAGAAGCCACCGATTC
Found at i:19300677 original size:102 final size:98
Alignment explanation
Indices: 19300545--19300876 Score: 302
Period size: 102 Copynumber: 3.4 Consensus size: 98
19300535 GTATGAACCT
* * * * * *
19300545 AAGCCATCAGTCCATGAACATCCAAAGAAAGAGAAGTCAGAACTCAAACCACCCGTATATGAACC
1 AAGCCACCAATCCACGAACCTCCAAAGAAAGAGAAGCCAGAACACAAACCACCCGTATATGAACC
19300610 TCCAATGAAGCCACCGATTCATGAACCTAAACCCCCA
66 TCCAA-GAAGCCACCGA-TCATGAA-CTAAA-CCCCA
* * * * *
19300647 AAGCCACCAGTTCACGAACCTCCCAAGAAAGAGAAGCCAGAACACAAGCCA-CCGATATATGAAT
1 AAGCCACCAATCCACGAACCTCCAAAGAAAGAGAAGCCAGAACACAAACCACCCG-TATATGAAC
* * *
19300711 CTCCAAAGAAGCCTCC-A--ATGTA-TAAA--CCT
65 CTCC-AAGAAGCCACCGATCATGAACTAAACCCCA
* * * * * * *
19300740 AAGCCACCAATTCATGAACCTCCAAAGAAAGAAAAACCA-AAGCCCAAACCACCTGTACATGAAC
1 AAGCCACCAATCCACGAACCTCCAAAGAAAGAGAAGCCAGAA-CACAAACCACCCGTATATGAAC
19300804 CTCCCAAGAAGCCACCGATGCATGAATCTAAACCACCA
65 CT-CCAAGAAGCCACCGAT-CATGAA-CTAAACC-CCA
* *
19300842 AAGCCACCAATCCACGAACCCCCAAAAAAAGAGAA
1 AAGCCACCAATCCACGAACCTCCAAAGAAAGAGAA
19300877 ACCAAAATTC
Statistics
Matches: 186, Mismatches: 30, Indels: 28
0.76 0.12 0.11
Matches are distributed among these distances:
92 2 0.01
93 62 0.33
94 5 0.03
96 4 0.02
97 4 0.02
98 4 0.02
99 4 0.02
101 4 0.02
102 95 0.51
103 2 0.01
ACGTcount: A:0.42, C:0.32, G:0.13, T:0.12
Consensus pattern (98 bp):
AAGCCACCAATCCACGAACCTCCAAAGAAAGAGAAGCCAGAACACAAACCACCCGTATATGAACC
TCCAAGAAGCCACCGATCATGAACTAAACCCCA
Found at i:19300817 original size:195 final size:195
Alignment explanation
Indices: 19300517--19300918 Score: 513
Period size: 195 Copynumber: 2.1 Consensus size: 195
19300507 TGCATGAACA
* * * * **
19300517 TCCAAAGAAACCTCCAATGTATGAACCTAAGCCATCAGTCCATGAACATCCAAAGAAAGAGAAGT
1 TCCAAAGAAACCTCCAATGTATAAACCTAAGCCACCAATCCATGAACATCCAAAGAAAGAAAAAC
* * * *
19300582 CAGAACTCAAACCACCCGTATATGAACCTCCAATGAAGCCACCGATTCATGAACCTAAACCCCCA
66 CAGAACCCAAACCACCCGTACATGAACCTCCAATGAAGCCACCGATGCATGAACCTAAACCACCA
* * * * * * * *
19300647 AAGCCACCAGTTCACGAACCTCCC-AAGAAAGAGAAGCCAGAACACAAGCCACCGATATATGAAT
131 AAGCCACCAATCCACGAACC-CCCAAAAAAAGAGAAACCAAAACACAAGCCACCAATATATAAAC
19300711 C
195 C
* * *
19300712 TCCAAAGAAGCCTCCAATGTATAAACCTAAGCCACCAATTCATGAACCTCCAAAGAAAGAAAAAC
1 TCCAAAGAAACCTCCAATGTATAAACCTAAGCCACCAATCCATGAACATCCAAAGAAAGAAAAAC
* *
19300777 CA-AAGCCCAAACCACCTGTACATGAACCTCCCAA-GAAGCCACCGATGCATGAATCTAAACCAC
66 CAGAA-CCCAAACCACCCGTACATGAACCT-CCAATGAAGCCACCGATGCATGAACCTAAACCAC
** *
19300840 CAAAGCCACCAATCCACGAACCCCCAAAAAAAGAGAAACCAAAATTCAAGCCACCAATCTATAAA
129 CAAAGCCACCAATCCACGAACCCCCAAAAAAAGAGAAACCAAAACACAAGCCACCAATATATAAA
19300905 CC
194 CC
*
19300907 TCCAAAAAAACC
1 TCCAAAGAAACC
19300919 ACCTTATGGT
Statistics
Matches: 176, Mismatches: 28, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
194 5 0.03
195 167 0.95
196 4 0.02
ACGTcount: A:0.43, C:0.32, G:0.12, T:0.13
Consensus pattern (195 bp):
TCCAAAGAAACCTCCAATGTATAAACCTAAGCCACCAATCCATGAACATCCAAAGAAAGAAAAAC
CAGAACCCAAACCACCCGTACATGAACCTCCAATGAAGCCACCGATGCATGAACCTAAACCACCA
AAGCCACCAATCCACGAACCCCCAAAAAAAGAGAAACCAAAACACAAGCCACCAATATATAAACC
Found at i:19304120 original size:28 final size:29
Alignment explanation
Indices: 19304073--19304198 Score: 100
Period size: 28 Copynumber: 4.4 Consensus size: 29
19304063 GATAAAAAAA
19304073 TAGGGTTAAAATG-AAGTTTTAGAGAA-TT
1 TAGGGTTAAAATGTAA-TTTTAGAGAAGTT
*
19304101 TAGGGTTAAAATGTAATTTTGGAAGAA-TT
1 TAGGGTTAAAATGTAATTTTAG-AGAAGTT
* * *
19304130 CAAGGGTCAAAAGGTAATTTTATGA-AAGTT
1 -TAGGGTTAAAATGTAATTTTA-GAGAAGTT
* * ** *
19304160 TAGGGTGAATATGGGATTTT-GAGAAGGT
1 TAGGGTTAAAATGTAATTTTAGAGAAGTT
19304188 TAGGGTTAAAA
1 TAGGGTTAAAA
19304199 CATGATTTAA
Statistics
Matches: 78, Mismatches: 14, Indels: 12
0.75 0.13 0.12
Matches are distributed among these distances:
27 2 0.03
28 31 0.40
29 24 0.31
30 20 0.26
31 1 0.01
ACGTcount: A:0.37, C:0.02, G:0.28, T:0.33
Consensus pattern (29 bp):
TAGGGTTAAAATGTAATTTTAGAGAAGTT
Found at i:19304217 original size:19 final size:19
Alignment explanation
Indices: 19304189--19304225 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
19304179 TGAGAAGGTT
*
19304189 AGGGTTAAAACATGATTTA
1 AGGGTGAAAACATGATTTA
*
19304208 AGGGTGAAAATATGATTT
1 AGGGTGAAAACATGATTT
19304226 TAAAAAGGTT
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:0.41, C:0.03, G:0.24, T:0.32
Consensus pattern (19 bp):
AGGGTGAAAACATGATTTA
Found at i:19304254 original size:30 final size:30
Alignment explanation
Indices: 19304204--19304539 Score: 288
Period size: 30 Copynumber: 11.2 Consensus size: 30
19304194 TAAAACATGA
* * * *
19304204 TTTAAGGGTGAAAATATGATTTT-AAAAAGG
1 TTTAGGGGTTAAAATGTGATTTTGGAAAA-G
* *
19304234 TTTAGGGGTCAAAATGTGATTTTGGGAAAG
1 TTTAGGGGTTAAAATGTGATTTTGGAAAAG
*
19304264 TTTA-GGGTTAAAATGTGATTTTAGG-GAAG
1 TTTAGGGGTTAAAATGTGATTTT-GGAAAAG
*
19304293 TTTA-GGGTTAAAATATGATTTTGGAAAAG
1 TTTAGGGGTTAAAATGTGATTTTGGAAAAG
*
19304322 TTTAGGGGTTAAAATGTAATTTTGGAAAAG
1 TTTAGGGGTTAAAATGTGATTTTGGAAAAG
* * **
19304352 TTT-GAGGGTCAAAATGTAATTTTGGTTAAG
1 TTTAG-GGGTTAAAATGTGATTTTGGAAAAG
** **
19304382 TTTAGAAGTTAAAATGCAATTTTGGAAAAG
1 TTTAGGGGTTAAAATGTGATTTTGGAAAAG
* * *** * *
19304412 TTCAAGGGTTAAAATACAATTTTTGAGAAG
1 TTTAGGGGTTAAAATGTGATTTTGGAAAAG
* * **
19304442 TTTAAGGGTCAAAATGCAATTTTGGAAAAG
1 TTTAGGGGTTAAAATGTGATTTTGGAAAAG
* *
19304472 TTTAGGGGTGAAAATGTGATTTTGGAAAGG
1 TTTAGGGGTTAAAATGTGATTTTGGAAAAG
* * *
19304502 TTT-GATGGTTAAAATGTGATTTTAGAAAGG
1 TTTAG-GGGTTAAAATGTGATTTTGGAAAAG
19304532 TTTGAGGG
1 TTT-AGGG
19304540 TCAAAATATA
Statistics
Matches: 256, Mismatches: 41, Indels: 17
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.01
29 50 0.20
30 198 0.77
31 5 0.02
32 1 0.00
ACGTcount: A:0.35, C:0.02, G:0.27, T:0.35
Consensus pattern (30 bp):
TTTAGGGGTTAAAATGTGATTTTGGAAAAG
Found at i:19304421 original size:90 final size:88
Alignment explanation
Indices: 19304208--19304546 Score: 340
Period size: 90 Copynumber: 3.8 Consensus size: 88
19304198 ACATGATTTA
* * * * * * *
19304208 AGGGTGAAAATATGATTTT-AAAAAGGTTTAGGGGTCAAAATGTGATTTTGGGAAAGTTT-AGGG
1 AGGGTTAAAATGTGATTTTGGAAAA-GTTTAAGGGTTAAAATGTAATTTTGGAAAAGTTTGAGGG
* * *
19304271 TTAAAATGTGATTTTAGGGAAGTTT
65 TCAAAATGTAATTTT-GGAAAGTTT
* *
19304296 AGGGTTAAAATATGATTTTGGAAAAGTTTAGGGGTTAAAATGTAATTTTGGAAAAGTTTGAGGGT
1 AGGGTTAAAATGTGATTTTGGAAAAGTTTAAGGGTTAAAATGTAATTTTGGAAAAGTTTGAGGGT
*
19304361 CAAAATGTAATTTTGGTTAAGTTT
66 CAAAATGTAATTTTGG-AAAGTTT
* ** * ** * * *
19304385 AGAAGTTAAAATGCAATTTTGGAAAAGTTCAAGGGTTAAAATACAATTTTTGAGAAGTTTAAGGG
1 AG-GGTTAAAATGTGATTTTGGAAAAGTTTAAGGGTTAAAATGTAATTTTGGAAAAGTTTGAGGG
*
19304450 TCAAAATGCAATTTTGGAAAAGTTT
65 TCAAAATGTAATTTTGG-AAAGTTT
* * * * * * *
19304475 AGGGGTGAAAATGTGATTTTGGAAAGGTTTGATGGTTAAAATGTGATTTTAGAAAGGTTTGAGGG
1 A-GGGTTAAAATGTGATTTTGGAAAAGTTTAAGGGTTAAAATGTAATTTTGGAAAAGTTTGAGGG
19304540 TCAAAAT
65 TCAAAAT
19304547 ATAGTTTTTA
Statistics
Matches: 209, Mismatches: 37, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
88 51 0.24
89 29 0.14
90 128 0.61
91 1 0.00
ACGTcount: A:0.36, C:0.02, G:0.27, T:0.35
Consensus pattern (88 bp):
AGGGTTAAAATGTGATTTTGGAAAAGTTTAAGGGTTAAAATGTAATTTTGGAAAAGTTTGAGGGT
CAAAATGTAATTTTGGAAAGTTT
Found at i:19305542 original size:21 final size:21
Alignment explanation
Indices: 19305516--19305556 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
19305506 AATAAATAAT
19305516 AATAAAT-GGTAGTAATAATAG
1 AATAAATAGGTA-TAATAATAG
*
19305537 AATAAATAGGTATATTAATA
1 AATAAATAGGTATAATAATA
19305557 TGTATTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.54, C:0.00, G:0.15, T:0.32
Consensus pattern (21 bp):
AATAAATAGGTATAATAATAG
Found at i:19306585 original size:48 final size:48
Alignment explanation
Indices: 19306490--19306591 Score: 141
Period size: 48 Copynumber: 2.1 Consensus size: 48
19306480 CTCTTGGTTT
* ** * *
19306490 ACTTCTCTGTATCTCATCAGGAAGATGACTGCTTCATTGTTTTAACCC
1 ACTTCTCTGTATCTCATAAGGAAGATGACCACTTCATTGCTTCAACCC
*
19306538 ACTTCTCTGTATCTCATAAGGAAGATGACCACTTTATTGCTTCAACCC
1 ACTTCTCTGTATCTCATAAGGAAGATGACCACTTCATTGCTTCAACCC
*
19306586 ATTTCT
1 ACTTCT
19306592 TTATATCTTG
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.25, C:0.25, G:0.13, T:0.37
Consensus pattern (48 bp):
ACTTCTCTGTATCTCATAAGGAAGATGACCACTTCATTGCTTCAACCC
Found at i:19306798 original size:85 final size:85
Alignment explanation
Indices: 19306662--19306819 Score: 210
Period size: 85 Copynumber: 1.9 Consensus size: 85
19306652 GAATTGGTCT
* * * *
19306662 ACTTCTCTGTATCTCATCAGAAAGATGACTGCTTCATTGTTTTAATCCACTTCTCTATATGTCAT
1 ACTTCTCTGTATCTCATCAGAAAGATGACTACTTCATTGCTTTAACCCACTTCTCTATATCTCAT
*
19306727 CAGGAAGACGAATTTGGTTC
66 CAAGAAGACGAATTTGGTTC
* * * * *
19306747 ACTTCTCTTTATCTCGTTAGGAAGATGAAC-ACTTTATTGCTTTAACCCACTTCTCTATATCTCA
1 ACTTCTCTGTATCTCATCAGAAAGATG-ACTACTTCATTGCTTTAACCCACTTCTCTATATCTCA
19306811 TCAAGAAGA
65 TCAAGAAGA
19306820 TGGGGTTTGG
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
85 60 0.97
86 2 0.03
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.37
Consensus pattern (85 bp):
ACTTCTCTGTATCTCATCAGAAAGATGACTACTTCATTGCTTTAACCCACTTCTCTATATCTCAT
CAAGAAGACGAATTTGGTTC
Found at i:19306980 original size:154 final size:154
Alignment explanation
Indices: 19306757--19307052 Score: 484
Period size: 154 Copynumber: 1.9 Consensus size: 154
19306747 ACTTCTCTTT
* *
19306757 ATCTCGTTAGGAAGATGAACACTTTATTGCTTTAACCCACTTCTCTATATCTCATCAAGAAGATG
1 ATCTCGTTAGGAAGATGAACACTTTATTGCTTCAACCCACTTCTCTATATCTCATCAAGAAGATA
* * *
19306822 GGGTTTGGAAGTTTCACTCTCATTGAGCTTTGCTTCATTGAATTGGTCTACTTCTCTGTATCTCA
66 GGGTTTGGAAGTTTCACTCACATTGAGCTTCGCTTCATTGAATTGGTCTACTTATCTGTATCTCA
*
19306887 TTAGGAAGATGAATTTGGTTTTGC
131 TCAGGAAGATGAATTTGGTTTTGC
* * * * * *
19306911 ATCTCGTTAGGAAGATGACCACTTTATTGCTTCGACCCACTTTTGTGTATCTCATCAGGAAGATA
1 ATCTCGTTAGGAAGATGAACACTTTATTGCTTCAACCCACTTCTCTATATCTCATCAAGAAGATA
19306976 GGGTTTGGAAGTTTCACTCACATTGAGCTTCGCTTCATTGAATTGGTCTACTTATCTGTATCTCA
66 GGGTTTGGAAGTTTCACTCACATTGAGCTTCGCTTCATTGAATTGGTCTACTTATCTGTATCTCA
19307041 TCAGGAAGATGA
131 TCAGGAAGATGA
19307053 CCGCTTCATT
Statistics
Matches: 130, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
154 130 1.00
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (154 bp):
ATCTCGTTAGGAAGATGAACACTTTATTGCTTCAACCCACTTCTCTATATCTCATCAAGAAGATA
GGGTTTGGAAGTTTCACTCACATTGAGCTTCGCTTCATTGAATTGGTCTACTTATCTGTATCTCA
TCAGGAAGATGAATTTGGTTTTGC
Found at i:19307043 original size:76 final size:75
Alignment explanation
Indices: 19306795--19307051 Score: 225
Period size: 76 Copynumber: 3.4 Consensus size: 75
19306785 GCTTTAACCC
* * *
19306795 ACTTCTCTATATCTCATCAAGAAGATGGGGTTTGGAAGTTTCACTCTCATTGAGCTTTGCTTCAT
1 ACTTCTCTGTATCTCATCAGGAAGAT-GGGTTTGGAAGTTTCACTCTCATTGAGCTTCGCTTCAT
19306860 TGAATTGGTCT
65 TGAATTGGTCT
* ** * * * * *
19306871 ACTTCTCTGTATCTCATTAGGAAGATGAATTTGG--TTTTGCA-TCTCGTTAGGAAGATGACCAC
1 ACTTCTCTGTATCTCATCAGGAAGATGGGTTTGGAAGTTT-CACTCTCATT--G-AGCT--TCGC
* * ** *
19306933 TTTATTG-CTTCGACCC
60 TTCATTGAATT-GGTCT
* * *
19306949 ACTTTTGTGTATCTCATCAGGAAGATAGGGTTTGGAAGTTTCACTCACATTGAGCTTCGCTTCAT
1 ACTTCTCTGTATCTCATCAGGAAGAT-GGGTTTGGAAGTTTCACTCTCATTGAGCTTCGCTTCAT
19307014 TGAATTGGTCT
65 TGAATTGGTCT
*
19307025 ACTTATCTGTATCTCATCAGGAAGATG
1 ACTTCTCTGTATCTCATCAGGAAGATG
19307052 ACCGCTTCAT
Statistics
Matches: 135, Mismatches: 34, Indels: 25
0.70 0.18 0.13
Matches are distributed among these distances:
73 9 0.07
74 2 0.01
75 8 0.06
76 60 0.44
77 4 0.03
78 35 0.26
79 7 0.05
80 2 0.01
81 8 0.06
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.38
Consensus pattern (75 bp):
ACTTCTCTGTATCTCATCAGGAAGATGGGTTTGGAAGTTTCACTCTCATTGAGCTTCGCTTCATT
GAATTGGTCT
Found at i:19307233 original size:363 final size:363
Alignment explanation
Indices: 19306556--19307261 Score: 1069
Period size: 363 Copynumber: 1.9 Consensus size: 363
19306546 GTATCTCATA
* ** * *
19306556 AGGAAGATGACCACTTTATTGCTTCAACCCATTTCTTTATATCTTGTCAAAAATATGGGGTTTGG
1 AGGAAGATGACCACTTTATTGCTTCAACCCATTTCTGTATATCTCATCAAAAAGATAGGGTTTGG
* *
19306621 AAGTTTCACTTACATCGAACTTCGCTTCATTGAATTGGTCTACTTCTCTGTATCTCATCAGAAAG
66 AAGTTTCACTCACATCGAACTTCGCTTCATTGAATTGGTCTACTTATCTGTATCTCATCAGAAAG
* *
19306686 ATGACTGCTTCATTGTTTTAATCCACTTCTCTATATGTCATCAGGAAGACGAATTTGGTTCACTT
131 ATGACCGCTTCATTGTTTTAATCCACTTCTCTATATCTCATCAGGAAGACGAATTTGGTTCACTT
** *
19306751 CTCTTTATCTCGTTAGGAAGATGAACACTTTATTGCTTTAACCCACTTCTCTATATCTCATCAAG
196 CTCTACATCTCGTCAGGAAGATGAACACTTTATTGCTTTAACCCACTTCTCTATATCTCATCAAG
* ** * *
19306816 AAGATGGGGTTTGGAAGTTTCACTCTCATTGAGCTTTGCTTCATTGAATTGGTCTACTTCTCTGT
261 AAGATGGAGTTTCAAAGTTTCACTCTCATTGAGCTTTGCATCATTGAATTGGTCTACTTCTCTAT
19306881 ATCTCATTAGGAAGATGAATTTGGTTTTGCATCTCGTT
326 ATCTCATTAGGAAGATGAATTTGGTTTTGCATCTCGTT
* * **
19306919 AGGAAGATGACCACTTTATTGCTTCGACCCACTTT-TGTGTATCTCATCAGGAAGATAGGGTTTG
1 AGGAAGATGACCACTTTATTGCTTCAACCCA-TTTCTGTATATCTCATCAAAAAGATAGGGTTTG
* * *
19306983 GAAGTTTCACTCACATTGAGCTTCGCTTCATTGAATTGGTCTACTTATCTGTATCTCATCAGGAA
65 GAAGTTTCACTCACATCGAACTTCGCTTCATTGAATTGGTCTACTTATCTGTATCTCATCAGAAA
19307048 GATGACCGCTTCATTGTTTTAATCCACTTCTCTATATCTCATCAGGAAGACGAATTTGGTTCACT
130 GATGACCGCTTCATTGTTTTAATCCACTTCTCTATATCTCATCAGGAAGACGAATTTGGTTCACT
** *
19307113 TCTCTACATCTCGTCAGGAAGATGGCCACTTTATTG-TTTCGACCCACTTCTCTATATCTCATCA
195 TCTCTACATCTCGTCAGGAAGATGAACACTTTATTGCTTT-AACCCACTTCTCTATATCTCATCA
* ** *
19307177 GGAAGATGGAGTTTCAAAGTTTCACTCAT-ATTGAGCTTCT-CATCATTGTTTTGGTCTGCTTCT
259 AGAAGATGGAGTTTCAAAGTTTCACTC-TCATTGAGCTT-TGCATCATTGAATTGGTCTACTTCT
19307240 CTATATCTCATTAGGAAGATGA
322 CTATATCTCATTAGGAAGATGA
19307262 CCTTTTGAAG
Statistics
Matches: 308, Mismatches: 31, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
362 3 0.01
363 300 0.97
364 5 0.02
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.38
Consensus pattern (363 bp):
AGGAAGATGACCACTTTATTGCTTCAACCCATTTCTGTATATCTCATCAAAAAGATAGGGTTTGG
AAGTTTCACTCACATCGAACTTCGCTTCATTGAATTGGTCTACTTATCTGTATCTCATCAGAAAG
ATGACCGCTTCATTGTTTTAATCCACTTCTCTATATCTCATCAGGAAGACGAATTTGGTTCACTT
CTCTACATCTCGTCAGGAAGATGAACACTTTATTGCTTTAACCCACTTCTCTATATCTCATCAAG
AAGATGGAGTTTCAAAGTTTCACTCTCATTGAGCTTTGCATCATTGAATTGGTCTACTTCTCTAT
ATCTCATTAGGAAGATGAATTTGGTTTTGCATCTCGTT
Found at i:19318147 original size:415 final size:415
Alignment explanation
Indices: 19317377--19318206 Score: 1597
Period size: 415 Copynumber: 2.0 Consensus size: 415
19317367 CACTTATCTA
*
19317377 CTTCACGTTGAGTAAGTAAGGTAAATCTCCGTACTCATGGTAAAAGATTTGTTTCATGTCATTAT
1 CTTCACGTTGAGTAAGTAAGGTAAATCTCCGTACTCATGGCAAAAGATTTGTTTCATGTCATTAT
19317442 CCCATTAGTCCCATATTTTTTTCAACTCTTGCACACTGTTCTGAGCTGTACTAATTCTGGTGTAA
66 CCCATTAGTCCCATATTTTTTTCAACTCTTGCACACTGTTCTGAGCTGTACTAATTCTGGTGTAA
* *
19317507 TCCCAAAAGTCAGATTCATGCCCTTTTACTAAGCTATCACCCTTTTGGCTTTAATTTTCCTCCGA
131 TCCCAAAAGTCAGATTCATGCCCTTTTACTAAGCTATCACCCTTTTGGCGTTAATTTTCCCCCGA
19317572 CCACATACGAACAACCATGTTATCCTTCACCTTATCAAGATACTCGTTCTCCATGATCAATTCTC
196 CCACATACGAACAACCATGTTATCCTTCACCTTATCAAGATACTCGTTCTCCATGATCAATTCTC
19317637 TTATCAGTAATTGAGTTCGAATCAATACCTTTCCTAGTATGATGATGCAATGCAAGTAAAAGGAT
261 TTATCAGTAATTGAGTTCGAATCAATACCTTTCCTAGTATGATGATGCAATGCAAGTAAAAGGAT
*
19317702 AAAGTAGAGCAAGTTAGTAAAACTTCCATAACAACAATATAGATATAGAACAAAAAACCTAAGCA
326 AAAGTAGAGAAAGTTAGTAAAACTTCCATAACAACAATATAGATATAGAACAAAAAACCTAAGCA
19317767 TTCGTCTTGGATAACTGCTAAAAGG
391 TTCGTCTTGGATAACTGCTAAAAGG
*
19317792 CTTCACGTTTAGTAAGTAAGGTAAATCTCCGTACTCATGGCAAAAGATTTGTTTCATGTCATTAT
1 CTTCACGTTGAGTAAGTAAGGTAAATCTCCGTACTCATGGCAAAAGATTTGTTTCATGTCATTAT
19317857 CCCATTAGTCCCATATTTTTTTCAACTCTTGCACACTGTTCTGAGCTGTACTAATTCTGGTGTAA
66 CCCATTAGTCCCATATTTTTTTCAACTCTTGCACACTGTTCTGAGCTGTACTAATTCTGGTGTAA
19317922 TCCCAAAAGTCAGATTCATGCCCTTTTACTAAGCTATCACCCTTTTGGCGTTAATTTTCCCCCGA
131 TCCCAAAAGTCAGATTCATGCCCTTTTACTAAGCTATCACCCTTTTGGCGTTAATTTTCCCCCGA
* *
19317987 CCACATACGCACAACCATGTTATCCTTCACCTTATCAAGATACTCGTTCTCTATGATCAATTCTC
196 CCACATACGAACAACCATGTTATCCTTCACCTTATCAAGATACTCGTTCTCCATGATCAATTCTC
19318052 TTATCAGTAATTGAGTTCGAATCAATACCTTTCCTAGTATGATGATGCAATGCAAGTAAAAGGAT
261 TTATCAGTAATTGAGTTCGAATCAATACCTTTCCTAGTATGATGATGCAATGCAAGTAAAAGGAT
19318117 AAAGTAGAGAAAGTTAGTAAAACTTCCATAACAACAATATAGATATAGAACAAAAAACCTAAGCA
326 AAAGTAGAGAAAGTTAGTAAAACTTCCATAACAACAATATAGATATAGAACAAAAAACCTAAGCA
19318182 TTCGTCTTGGATAACTGCTAAAAGG
391 TTCGTCTTGGATAACTGCTAAAAGG
19318207 TTCGGTATAG
Statistics
Matches: 408, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
415 408 1.00
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (415 bp):
CTTCACGTTGAGTAAGTAAGGTAAATCTCCGTACTCATGGCAAAAGATTTGTTTCATGTCATTAT
CCCATTAGTCCCATATTTTTTTCAACTCTTGCACACTGTTCTGAGCTGTACTAATTCTGGTGTAA
TCCCAAAAGTCAGATTCATGCCCTTTTACTAAGCTATCACCCTTTTGGCGTTAATTTTCCCCCGA
CCACATACGAACAACCATGTTATCCTTCACCTTATCAAGATACTCGTTCTCCATGATCAATTCTC
TTATCAGTAATTGAGTTCGAATCAATACCTTTCCTAGTATGATGATGCAATGCAAGTAAAAGGAT
AAAGTAGAGAAAGTTAGTAAAACTTCCATAACAACAATATAGATATAGAACAAAAAACCTAAGCA
TTCGTCTTGGATAACTGCTAAAAGG
Found at i:19319743 original size:30 final size:30
Alignment explanation
Indices: 19319557--19320008 Score: 326
Period size: 30 Copynumber: 15.3 Consensus size: 30
19319547 GAGAATTTAT
* *
19319557 GGTTAAAATGTAATTTTGGAAGAA-TTCGAG
1 GGTTAAAATGTGATTTTGGAA-AAGTTTGAG
* * *
19319587 GGTTAAAAGGTAATTTTATG-AAAGTTTG-G
1 GGTTAAAATGTGATTTT-GGAAAAGTTTGAG
* *
19319616 GGTTAAAATGGGATTTTTGG-AAGGTTTG-G
1 GGTTAAAATGTGA-TTTTGGAAAAGTTTGAG
* ** *
19319645 GGTCAAAACATGATTTT-AAGAAAGTTTG-G
1 GGTTAAAATGTGATTTTGGA-AAAGTTTGAG
* * *
19319674 GATTAAAAT-TTAGTTTTAGAAAAGTTT-AG
1 GGTTAAAATGTGA-TTTTGGAAAAGTTTGAG
*
19319703 GGTAAAAATGTGATTTT-GAAAAGGTTTGAG
1 GGTTAAAATGTGATTTTGGAAAA-GTTTGAG
* *
19319733 GCTTAAAATGTGATTTTGGGAAAGTTT-AG
1 GGTTAAAATGTGATTTTGGAAAAGTTTGAG
* *
19319762 GGTTAAAATGTGATTTTAGAAAAGTTT-AA
1 GGTTAAAATGTGATTTTGGAAAAGTTTGAG
* *
19319791 GATTAAATTGTGATTTTGGAAAAGTTT-AGG
1 GGTTAAAATGTGATTTTGGAAAAGTTTGA-G
* *
19319821 GGTTAAAATATAATTTTGGAAAAGTTTGAG
1 GGTTAAAATGTGATTTTGGAAAAGTTTGAG
*
19319851 GGTTAAAAT-TCAATTTTGGAAAAGTTTGA-
1 GGTTAAAATGT-GATTTTGGAAAAGTTTGAG
*** * * *
19319880 GGTTAAAATACAATTTTAGAGAAGTTTAAG
1 GGTTAAAATGTGATTTTGGAAAAGTTTGAG
* * * *
19319910 GATAAAAATATAATTTTGGAAAAGTTTG-G
1 GGTTAAAATGTGATTTTGGAAAAGTTTGAG
* * * *
19319939 GAGTGAAAATGTGATTTGGGAAAGGTTTGGG
1 G-GTTAAAATGTGATTTTGGAAAAGTTTGAG
* *
19319970 GGTCAAAATGTGATTTT-AAAAAGGTTTGAG
1 GGTTAAAATGTGATTTTGGAAAA-GTTTGAG
*
19320000 GGTCAAAAT
1 GGTTAAAAT
19320009 ATAGTTTTTA
Statistics
Matches: 344, Mismatches: 58, Indels: 40
0.78 0.13 0.09
Matches are distributed among these distances:
28 11 0.03
29 154 0.45
30 171 0.50
31 8 0.02
ACGTcount: A:0.37, C:0.02, G:0.26, T:0.35
Consensus pattern (30 bp):
GGTTAAAATGTGATTTTGGAAAAGTTTGAG
Found at i:19319757 original size:59 final size:59
Alignment explanation
Indices: 19319559--19320010 Score: 325
Period size: 59 Copynumber: 7.6 Consensus size: 59
19319549 GAATTTATGG
* * ** * *
19319559 TTAAAATGTAATTTTGGAAGAA-TTCGAGGGTTAAAAGGTAATTTTATG-AAAGTTTG-GGG
1 TTAAAATGTGATTTTGGAA-AAGTT-TAGGGTTAAAATATGATTTTA-GAAAAGTTTGAGGA
* * * * *
19319618 TTAAAATGGGATTTTTGG-AAGGTTTGGGGTCAAAACATGATTTTA-AGAAAGTTTG-GGA
1 TTAAAATGTGA-TTTTGGAAAAGTTTAGGGTTAAAATATGATTTTAGA-AAAGTTTGAGGA
* * * * *
19319676 TTAAAAT-TTAGTTTTAGAAAAGTTTAGGGTAAAAATGTGATTTT-GAAAAGGTTTGAGGC
1 TTAAAATGTGA-TTTTGGAAAAGTTTAGGGTTAAAATATGATTTTAGAAAA-GTTTGAGGA
* * *
19319735 TTAAAATGTGATTTTGGGAAAGTTTAGGGTTAAAATGTGATTTTAGAAAAGTTT-AAGA
1 TTAAAATGTGATTTTGGAAAAGTTTAGGGTTAAAATATGATTTTAGAAAAGTTTGAGGA
* * * *
19319793 TTAAATTGTGATTTTGGAAAAGTTTAGGGGTTAAAATATAATTTTGGAAAAGTTTGAGGG
1 TTAAAATGTGATTTTGGAAAAGTTTA-GGGTTAAAATATGATTTTAGAAAAGTTTGAGGA
* ** * *
19319853 TTAAAAT-TCAATTTTGGAAAAGTTT-GAGGTTAAAATACAATTTTAGAGAAGTTTAAGGA
1 TTAAAATGT-GATTTTGGAAAAGTTTAG-GGTTAAAATATGATTTTAGAAAAGTTTGAGGA
* * * * * * ** * * *
19319912 TAAAAATATAATTTTGGAAAAGTTTGGGAGTGAAAATGTGATTTGGGAAAGGTTTGGGGG
1 TTAAAATGTGATTTTGGAAAAGTTTAGG-GTTAAAATATGATTTTAGAAAAGTTTGAGGA
* * *
19319972 TCAAAATGTGATTTT-AAAAAGGTTTGAGGGTCAAAATAT
1 TTAAAATGTGATTTTGGAAAA-GTTT-AGGGTTAAAATAT
19320011 AGTTTTTAAA
Statistics
Matches: 315, Mismatches: 59, Indels: 37
0.77 0.14 0.09
Matches are distributed among these distances:
57 9 0.03
58 87 0.28
59 135 0.43
60 82 0.26
61 2 0.01
ACGTcount: A:0.37, C:0.02, G:0.26, T:0.36
Consensus pattern (59 bp):
TTAAAATGTGATTTTGGAAAAGTTTAGGGTTAAAATATGATTTTAGAAAAGTTTGAGGA
Found at i:19319961 original size:89 final size:88
Alignment explanation
Indices: 19319745--19319967 Score: 250
Period size: 89 Copynumber: 2.5 Consensus size: 88
19319735 TTAAAATGTG
* * * * * *** *
19319745 ATTTTGGGAAAGTTTAGGGTTAAAATGTGATTTTAGAAAAGTTTAAGATTAAATTGTGATTTTGG
1 ATTTTGGAAAAGTTTGGGGTTAAAATGTGATTTTGGAAAAGTTTGAGATTAAAATACAATTTTAG
* * *
19319810 AAAAGTTTAGGGGTTAAAATATA
66 AAAAGTTTAAGGATAAAAATATA
* *
19319833 ATTTTGGAAAAGTTTGAGGGTTAAAAT-TCAATTTTGGAAAAGTTTGAGGTTAAAATACAATTTT
1 ATTTTGGAAAAGTTTG-GGGTTAAAATGT-GATTTTGGAAAAGTTTGAGATTAAAATACAATTTT
*
19319897 AGAGAAGTTTAAGGATAAAAATATA
64 AGAAAAGTTTAAGGATAAAAATATA
* * *
19319922 ATTTTGGAAAAGTTTGGGAGTGAAAATGTGATTTGGGAAAGGTTTG
1 ATTTTGGAAAAGTTTGGG-GTTAAAATGTGATTTTGGAAAAGTTTG
19319968 GGGGTCAAAA
Statistics
Matches: 112, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
88 17 0.15
89 94 0.84
90 1 0.01
ACGTcount: A:0.38, C:0.01, G:0.25, T:0.36
Consensus pattern (88 bp):
ATTTTGGAAAAGTTTGGGGTTAAAATGTGATTTTGGAAAAGTTTGAGATTAAAATACAATTTTAG
AAAAGTTTAAGGATAAAAATATA
Found at i:19320979 original size:21 final size:21
Alignment explanation
Indices: 19320953--19320993 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
19320943 AATAAATAAT
19320953 AATAAAT-GGTAGTAATAATAG
1 AATAAATAGGTA-TAATAATAG
*
19320974 AATAAATAGGTATATTAATA
1 AATAAATAGGTATAATAATA
19320994 TGTATTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.54, C:0.00, G:0.15, T:0.32
Consensus pattern (21 bp):
AATAAATAGGTATAATAATAG
Found at i:19321148 original size:12 final size:12
Alignment explanation
Indices: 19321131--19321158 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
19321121 TGATTTCAAA
19321131 AAAACTTGTAAC
1 AAAACTTGTAAC
19321143 AAAACTTGTAAC
1 AAAACTTGTAAC
19321155 AAAA
1 AAAA
19321159 TCCAACCCCC
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:0.57, C:0.14, G:0.07, T:0.21
Consensus pattern (12 bp):
AAAACTTGTAAC
Found at i:19322363 original size:6 final size:6
Alignment explanation
Indices: 19322337--19322375 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
19322327 TTAGAATGGG
*
19322337 AGATGA AGAAGA TAG-TGA AGATGA AGATGA AGATGA AGA
1 AGATGA AGATGA -AGATGA AGATGA AGATGA AGATGA AGA
19322376 AGATAGTGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
5 2 0.07
6 25 0.86
7 2 0.07
ACGTcount: A:0.51, C:0.00, G:0.33, T:0.15
Consensus pattern (6 bp):
AGATGA
Done.