Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 65 of 216
Found at i:19428738 original size:43 final size:44
Alignment explanation
Indices: 19428554--19428740 Score: 113
Period size: 43 Copynumber: 4.4 Consensus size: 44
19428544 TTGGAAATTA
*
19428554 CAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAAAGAAAT
1 CAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAAT
* ** * * **
19428598 C-AATCCTATCTCCCTGAAGTTGCAGTGGAGC-G-GATTA-AAAT
1 CAAATCTTATCTCCCT-AAGCAGTAGTGGAGCAGACAGAAGAAAT
* * * * ** *
19428639 CATAGATCTTATCTCTCT--GAAGT--TGCAGTAGAGCAGATCACAT
1 CA-A-ATCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CAGAAGAAAT
* *
19428682 CGAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAAT
1 CAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAAT
*
19428726 C-AATCCTATCTCCCT
1 CAAATCTTATCTCCCT
19428741 GAACTTGCAG
Statistics
Matches: 101, Mismatches: 30, Indels: 25
0.65 0.19 0.16
Matches are distributed among these distances:
39 4 0.04
40 1 0.01
41 18 0.18
42 4 0.04
43 35 0.35
44 32 0.32
45 7 0.07
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (44 bp):
CAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAAT
Found at i:19429611 original size:19 final size:20
Alignment explanation
Indices: 19429589--19429626 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
19429579 CCAAATCCTT
*
19429589 TTTTGTTCA-TTTTTATTTA
1 TTTTATTCATTTTTTATTTA
19429608 TTTTATTCATTTTTTATTT
1 TTTTATTCATTTTTTATTT
19429627 TGTTTTGTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.76
Consensus pattern (20 bp):
TTTTATTCATTTTTTATTTA
Found at i:19430201 original size:3 final size:3
Alignment explanation
Indices: 19430193--19430235 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
19430183 ATTTTCTTAA
19430193 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
19430236 TCCTCATTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:19449434 original size:11 final size:11
Alignment explanation
Indices: 19449418--19449448 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
19449408 ATACCCATAC
19449418 CCCATACCTTG
1 CCCATACCTTG
*
19449429 CCCATACCTTT
1 CCCATACCTTG
19449440 CCCATACCT
1 CCCATACCT
19449449 ACCCATACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.48, G:0.03, T:0.29
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:19450019 original size:18 final size:18
Alignment explanation
Indices: 19449992--19450084 Score: 150
Period size: 18 Copynumber: 5.2 Consensus size: 18
19449982 TACGACCGTT
19449992 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
19450010 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
19450028 TACAGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
19450046 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
19450064 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
19450082 TAC
1 TAC
19450085 AGTAGTTGGG
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 68 1.00
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:19454145 original size:11 final size:11
Alignment explanation
Indices: 19454129--19454159 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
19454119 ATACCCATAC
19454129 CCCATACCTTG
1 CCCATACCTTG
*
19454140 CCCATACCTTT
1 CCCATACCTTG
19454151 CCCATACCT
1 CCCATACCT
19454160 ACCCATACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.48, G:0.03, T:0.29
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:19460290 original size:2 final size:2
Alignment explanation
Indices: 19460283--19460313 Score: 53
Period size: 2 Copynumber: 15.0 Consensus size: 2
19460273 AGATAATCTC
19460283 AT AT AT AT AT AT AT AT AT AT AT AT AT GAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
19460314 TTTCTTGATG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 26 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:19465639 original size:12 final size:12
Alignment explanation
Indices: 19465624--19465658 Score: 61
Period size: 13 Copynumber: 2.8 Consensus size: 12
19465614 TGAAACAATA
19465624 TATTCTTTAAAT
1 TATTCTTTAAAT
19465636 TATTCTTTTAAAT
1 TATTC-TTTAAAT
19465649 TATTCTTTAA
1 TATTCTTTAA
19465659 GTAACATAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.60
Consensus pattern (12 bp):
TATTCTTTAAAT
Found at i:19465807 original size:19 final size:22
Alignment explanation
Indices: 19465761--19465806 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
19465751 AAGTAGGTTG
19465761 TATATTATTTTTTGTAATATTA
1 TATATTATTTTTTGTAATATTA
19465783 TATATTATTTTTAT-TAAT-TTA
1 TATATTATTTTT-TGTAATATTA
19465804 TAT
1 TAT
19465807 TTTAATAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 6 0.26
22 16 0.70
23 1 0.04
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (22 bp):
TATATTATTTTTTGTAATATTA
Found at i:19465859 original size:21 final size:20
Alignment explanation
Indices: 19465830--19465869 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
19465820 ATATTAAGAA
19465830 TATTATTAAATTATATATTAT
1 TATTATTAAATTATA-ATTAT
*
19465851 TATTGTTAAATTATAATTA
1 TATTATTAAATTATAATTA
19465870 ATAATAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (20 bp):
TATTATTAAATTATAATTAT
Found at i:19465933 original size:58 final size:60
Alignment explanation
Indices: 19465781--19465934 Score: 140
Period size: 58 Copynumber: 2.5 Consensus size: 60
19465771 TTTGTAATAT
* * **
19465781 TATA-TATTATTTTTATTAATTTATATTTTAATAATTGCTATATTAAGAATATTATTAAATTA
1 TATATTATTATTTTTATTAAATTATA--TTAATAAAT-CTATATTAAGAATAGGATTAAATTA
* *
19465843 TATATTATTATTGTTAAATTATAATTA-A-TAATAAAT-T-TATTAA-AATAGGGTTAAATTA
1 TATATTATTATT-TT-TATTA-AATTATATTAATAAATCTATATTAAGAATAGGATTAAATTA
*
19465901 TGTATTATTATTTTTATTAAATTATATCTAATAA
1 TATATTATTATTTTTATTAAATTATAT-TAATAA
19465935 TAATCCTATT
Statistics
Matches: 77, Mismatches: 8, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
55 5 0.06
56 5 0.06
57 2 0.03
58 29 0.38
59 6 0.08
60 1 0.01
62 11 0.14
63 7 0.09
64 2 0.03
65 5 0.06
66 4 0.05
ACGTcount: A:0.42, C:0.01, G:0.05, T:0.52
Consensus pattern (60 bp):
TATATTATTATTTTTATTAAATTATATTAATAAATCTATATTAAGAATAGGATTAAATTA
Found at i:19466129 original size:16 final size:16
Alignment explanation
Indices: 19466109--19466178 Score: 86
Period size: 16 Copynumber: 4.4 Consensus size: 16
19466099 TTGAATTGTT
*
19466109 ATTACAGTTCTATTCT
1 ATTACAGTTCTATTCC
**
19466125 ATTACAACTCTATTCC
1 ATTACAGTTCTATTCC
19466141 ATTACAGTTCTATTCC
1 ATTACAGTTCTATTCC
***
19466157 ATTACAACCCTATTCC
1 ATTACAGTTCTATTCC
19466173 ATTACA
1 ATTACA
19466179 CTGAACCAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 46 1.00
ACGTcount: A:0.30, C:0.27, G:0.03, T:0.40
Consensus pattern (16 bp):
ATTACAGTTCTATTCC
Found at i:19466150 original size:32 final size:32
Alignment explanation
Indices: 19466109--19466178 Score: 122
Period size: 32 Copynumber: 2.2 Consensus size: 32
19466099 TTGAATTGTT
* *
19466109 ATTACAGTTCTATTCTATTACAACTCTATTCC
1 ATTACAGTTCTATTCCATTACAACCCTATTCC
19466141 ATTACAGTTCTATTCCATTACAACCCTATTCC
1 ATTACAGTTCTATTCCATTACAACCCTATTCC
19466173 ATTACA
1 ATTACA
19466179 CTGAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.30, C:0.27, G:0.03, T:0.40
Consensus pattern (32 bp):
ATTACAGTTCTATTCCATTACAACCCTATTCC
Found at i:19466764 original size:272 final size:271
Alignment explanation
Indices: 19466195--19467058 Score: 1289
Period size: 272 Copynumber: 3.2 Consensus size: 271
19466185 CAAACATGGC
* * * * * *
19466195 CTTAAAGTTTCGTTTTAGTCTCTTTAGGAAAAAATATTTATAAACCCGACCTAGACGTTACAGTC
1 CTTAAAGTTTCATTTTGGTCTCTTTAGGAAGAATTATTTATAAACCAG-CCTAGACGTTACGGTC
* * *
19466260 GGATTATGGAGGTCACATCACTAGATAAAAGAAAGTACTAGTGTTTTGAATAATCAATTCCAGCA
65 GGATTACGGAGGTCACATCACTAGATAAAAGAAAGTACTAGTGTTTTGAAAAACCAATTCCAGCA
* *
19466325 GGTTAAAACTTCATTGTCTTGTTTTTTTTCTAAAAAAAAACATTTCAAACATGTCAAAATATCAA
130 GGTTAAAACTTTATTGTCTCG------TT-TAAAAAAAAACATTTCAAACATGTCAAAATATCAA
* * * * *
19466390 GCTAAATTCTCTTATAAACGTGTCCGCTGAAATTTTTTTTAATGAAAACTTCAAACTTAATTTGT
188 GTTAAATTCTCTTATAAACGTGCCCGCTGAAATTATTTTTAATGAAAACCTCAAACTTAATTTGC
19466455 AGCAACAATTACTTGAAAA
253 AGCAACAATTACTTGAAAA
* * *
19466474 CTTAAAGTTTTATTTTGGTCTCTTTAGGAAGGATTATTTATAAACCTAGCCTAGATGTTACGGTC
1 CTTAAAGTTTCATTTTGGTCTCTTTAGGAAGAATTATTTATAAACC-AGCCTAGACGTTACGGTC
* *
19466539 GGATTACGGAGGTTACATCACTAGATAAAAGAAAGTACTAGTGTTTTGAAGAACCAATTCCAGCA
65 GGATTACGGAGGTCACATCACTAGATAAAAGAAAGTACTAGTGTTTTGAAAAACCAATTCCAGCA
*
19466604 GGTTAAAACTTTATTGTCTCGTTTAAAAAAAAACATTTCAAACATGTCAAAATATCAAGTTATAT
130 GGTTAAAACTTTATTGTCTCGTTTAAAAAAAAACATTTCAAACATGTCAAAATATCAAGTTAAAT
* * * *
19466669 TCTCTTATAAACGTACCCACTAAAATTATTTTTAATGAAAACCTCAAACTTAATTTGCAGCTACA
195 TCTCTTATAAACGTGCCCGCTGAAATTATTTTTAATGAAAACCTCAAACTTAATTTGCAGCAACA
*
19466734 ATTACTTGAAAG
260 ATTACTTGAAAA
* * * *
19466746 CTTAAAGTTTCGTTTTGGTCTCTTTAGGAAGGATTATTTATAAACCCGGCCTAGGCGTTACGGTC
1 CTTAAAGTTTCATTTTGGTCTCTTTAGGAAGAATTATTTATAAA-CCAGCCTAGACGTTACGGTC
*
19466811 GGATTACGGAGGTCACATCACTAGATAAAAGAAAGTACTAGTGTTTTGAAAAACCAATTCCAACA
65 GGATTACGGAGGTCACATCACTAGATAAAAGAAAGTACTAGTGTTTTGAAAAACCAATTCCAGCA
*
19466876 GGTTAAAACTTCT-TTGTCTCATTTAAAAAAAAACATTTCAAACATGTCAAAATATCAAGTTAAA
130 GGTTAAAACTT-TATTGTCTCGTTTAAAAAAAAACATTTCAAACATGTCAAAATATCAAGTTAAA
* * * *
19466940 TTCTTTTATAAATGTGCCCGCTGAAATTATTTTTAATGAAAACCTTAAACTTAATTTGCAGCGAC
194 TTCTCTTATAAACGTGCCCGCTGAAATTATTTTTAATGAAAACCTCAAACTTAATTTGCAGCAAC
19467005 AATTACTTGAAAA
259 AATTACTTGAAAA
19467018 CTTAAAGTTTCATTTTGGTCTCTTTAGGAAGAATTATTTAT
1 CTTAAAGTTTCATTTTGGTCTCTTTAGGAAGAATTATTTAT
19467059 CATTTGAGCT
Statistics
Matches: 536, Mismatches: 46, Indels: 13
0.90 0.08 0.02
Matches are distributed among these distances:
272 396 0.74
273 5 0.01
279 134 0.25
280 1 0.00
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.34
Consensus pattern (271 bp):
CTTAAAGTTTCATTTTGGTCTCTTTAGGAAGAATTATTTATAAACCAGCCTAGACGTTACGGTCG
GATTACGGAGGTCACATCACTAGATAAAAGAAAGTACTAGTGTTTTGAAAAACCAATTCCAGCAG
GTTAAAACTTTATTGTCTCGTTTAAAAAAAAACATTTCAAACATGTCAAAATATCAAGTTAAATT
CTCTTATAAACGTGCCCGCTGAAATTATTTTTAATGAAAACCTCAAACTTAATTTGCAGCAACAA
TTACTTGAAAA
Found at i:19468246 original size:30 final size:31
Alignment explanation
Indices: 19468212--19468271 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
19468202 TATGGTTTAA
19468212 TGTGCAATTGTATAAATG-AATTTTGATTTT
1 TGTGCAATTGTATAAATGAAATTTTGATTTT
* *
19468242 TGTGCAATTTTATACATGAAATTTTGATTT
1 TGTGCAATTGTATAAATGAAATTTTGATTT
19468272 GATCCAATTC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 16 0.59
31 11 0.41
ACGTcount: A:0.30, C:0.05, G:0.15, T:0.50
Consensus pattern (31 bp):
TGTGCAATTGTATAAATGAAATTTTGATTTT
Found at i:19468280 original size:30 final size:29
Alignment explanation
Indices: 19468216--19468280 Score: 69
Period size: 30 Copynumber: 2.2 Consensus size: 29
19468206 GTTTAATGTG
*
19468216 CAATTGTATAAATGAATTTTGATTTTTGTG
1 CAATTGTATAAATGAATTTTGA-TTTTGTC
* *
19468246 CAATTTTATACATGAAATTTTGA-TTTGATC
1 CAATTGTATAAATG-AATTTTGATTTTG-TC
19468276 CAATT
1 CAATT
19468281 CTTGTAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 4 0.13
30 18 0.60
31 8 0.27
ACGTcount: A:0.32, C:0.08, G:0.12, T:0.48
Consensus pattern (29 bp):
CAATTGTATAAATGAATTTTGATTTTGTC
Found at i:19469522 original size:4 final size:4
Alignment explanation
Indices: 19469515--19469561 Score: 94
Period size: 4 Copynumber: 11.8 Consensus size: 4
19469505 CAAACAATAA
19469515 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
19469562 TATTGTTTAG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 43 1.00
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:19470019 original size:19 final size:20
Alignment explanation
Indices: 19469981--19470020 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
19469971 GGGTTTTTTT
19469981 TAATTTTTTTAATATTAATA
1 TAATTTTTTTAATATTAATA
19470001 TAATTATTTTT-AT-TTAATA
1 TAATT-TTTTTAATATTAATA
19470020 T
1 T
19470021 TAATATCAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.37
20 7 0.37
21 5 0.26
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TAATTTTTTTAATATTAATA
Found at i:19470024 original size:20 final size:21
Alignment explanation
Indices: 19469980--19470024 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
19469970 AGGGTTTTTT
19469980 TTAATTTTTTTAATATTAATA
1 TTAATTTTTTTAATATTAATA
19470001 -TAATTATTTTT-AT-TTAATA
1 TTAATT-TTTTTAATATTAATA
19470020 TTAAT
1 TTAAT
19470025 ATCAATTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
19 6 0.27
20 11 0.50
21 5 0.23
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TTAATTTTTTTAATATTAATA
Found at i:19470045 original size:31 final size:25
Alignment explanation
Indices: 19469984--19470031 Score: 80
Period size: 25 Copynumber: 1.9 Consensus size: 25
19469974 TTTTTTTTAA
19469984 TTTT-TTTAATATTAATATAATTAT
1 TTTTATTTAATATTAATATAATTAT
19470008 TTTTATTTAATATTAATATCAATT
1 TTTTATTTAATATTAATAT-AATT
19470032 TTAAATTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 4 0.18
25 14 0.64
26 4 0.18
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (25 bp):
TTTTATTTAATATTAATATAATTAT
Found at i:19470054 original size:21 final size:21
Alignment explanation
Indices: 19470030--19470074 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
19470020 TTAATATCAA
19470030 TTTT-AAATTTATTATTATATT
1 TTTTAAAATTTATTA-TATATT
* *
19470051 TTTTAAAATTTTTTATGTATT
1 TTTTAAAATTTATTATATATT
19470072 TTT
1 TTT
19470075 ATATATTTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (21 bp):
TTTTAAAATTTATTATATATT
Found at i:19470080 original size:31 final size:33
Alignment explanation
Indices: 19470036--19470096 Score: 83
Period size: 31 Copynumber: 1.9 Consensus size: 33
19470026 TCAATTTTAA
19470036 ATTTATTATTATATTT-TTTAAAATTTTTTATGT
1 ATTTATTATTATATTTCTTT-AAATTTTTTATGT
*
19470069 ATTT-TTA-TATATTTCTTTGAATTTTTTA
1 ATTTATTATTATATTTCTTTAAATTTTTTA
19470097 GAATTAGGAC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
31 16 0.62
32 6 0.23
33 4 0.15
ACGTcount: A:0.28, C:0.02, G:0.03, T:0.67
Consensus pattern (33 bp):
ATTTATTATTATATTTCTTTAAATTTTTTATGT
Found at i:19470158 original size:50 final size:50
Alignment explanation
Indices: 19470091--19470190 Score: 123
Period size: 50 Copynumber: 2.0 Consensus size: 50
19470081 TTCTTTGAAT
* * * *
19470091 TTTTTAGAATTAGGACTAAATTGATA-ACATTTGTAAATGTTGAGGGCTAA
1 TTTTTAGAATTAGGACTAAATCGATATA-ATATGTAAAAGTTGAAGGCTAA
*
19470141 TTTTTA-AATTTATGACTAAATCGATATAATATGTAAAAGTTGAAGGCTAA
1 TTTTTAGAA-TTAGGACTAAATCGATATAATATGTAAAAGTTGAAGGCTAA
19470191 ATTTGTTATT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
49 2 0.05
50 40 0.93
51 1 0.02
ACGTcount: A:0.39, C:0.06, G:0.17, T:0.38
Consensus pattern (50 bp):
TTTTTAGAATTAGGACTAAATCGATATAATATGTAAAAGTTGAAGGCTAA
Found at i:19471514 original size:16 final size:16
Alignment explanation
Indices: 19471472--19471514 Score: 54
Period size: 14 Copynumber: 2.8 Consensus size: 16
19471462 ACTCATTATT
19471472 TGACCAACACAAATAA
1 TGACCAACACAAATAA
* *
19471488 T--TCAGCACAAATAA
1 TGACCAACACAAATAA
19471502 TGACCAACACAAA
1 TGACCAACACAAA
19471515 CATTTTATCA
Statistics
Matches: 21, Mismatches: 4, Indels: 4
0.72 0.14 0.14
Matches are distributed among these distances:
14 12 0.57
16 9 0.43
ACGTcount: A:0.53, C:0.26, G:0.07, T:0.14
Consensus pattern (16 bp):
TGACCAACACAAATAA
Found at i:19472479 original size:25 final size:25
Alignment explanation
Indices: 19472445--19472500 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
19472435 GTGCCACTAC
19472445 TATTCCTACTCTAATCTAGAATTTA
1 TATTCCTACTCTAATCTAGAATTTA
19472470 TATTCCTACTCTAATCTAGAATTTA
1 TATTCCTACTCTAATCTAGAATTTA
*
19472495 TCTTCC
1 TATTCC
19472501 CAAATAAAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.29, C:0.23, G:0.04, T:0.45
Consensus pattern (25 bp):
TATTCCTACTCTAATCTAGAATTTA
Found at i:19474106 original size:29 final size:30
Alignment explanation
Indices: 19474050--19474111 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
19474040 ATTATAGATT
19474050 ATTTTAAATATTTTAATATATGAAATATTA
1 ATTTTAAATATTTTAATATATGAAATATTA
*
19474080 ATTTTAAATATTTTAAGTA-AT-TAATATTA
1 ATTTTAAATATTTTAA-TATATGAAATATTA
19474109 ATT
1 ATT
19474112 ATTTATAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 10 0.33
30 18 0.60
31 2 0.07
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (30 bp):
ATTTTAAATATTTTAATATATGAAATATTA
Found at i:19475565 original size:28 final size:27
Alignment explanation
Indices: 19475525--19475642 Score: 110
Period size: 28 Copynumber: 4.0 Consensus size: 27
19475515 AAACTTTTGC
*
19475525 ATCGGTGCCCAAGATGTACAAGAAAAAT
1 ATCGGTTCCCAAGATGTACAA-AAAAAT
19475553 ATCGGTTCCCAAGATGTACAAAAAAATT
1 ATCGGTTCCCAAGATGTACAAAAAAA-T
* **
19475581 CCCAACATTTCACGCCCAAGATGTACAAGAAAAAT
1 ---ATCGGTT----CCCAAGATGTACAA-AAAAAT
19475616 ATCGGTTCCCAAGATGTACAAAAAAAT
1 ATCGGTTCCCAAGATGTACAAAAAAAT
19475643 TCCCAACATT
Statistics
Matches: 74, Mismatches: 7, Indels: 19
0.74 0.07 0.19
Matches are distributed among these distances:
27 11 0.15
28 35 0.47
31 4 0.05
32 4 0.05
35 15 0.20
36 5 0.07
ACGTcount: A:0.43, C:0.21, G:0.15, T:0.20
Consensus pattern (27 bp):
ATCGGTTCCCAAGATGTACAAAAAAAT
Found at i:19475606 original size:35 final size:35
Alignment explanation
Indices: 19475560--19475657 Score: 104
Period size: 28 Copynumber: 3.0 Consensus size: 35
19475550 AATATCGGTT
19475560 CCCAAGATGTACAAAAAAATTCCCAACATTTCACG
1 CCCAAGATGTACAAAAAAATTCCCAACATTTCACG
* **
19475595 CCCAAGATGTACAAGAAAAA-T---ATCGGTT----
1 CCCAAGATGTACAA-AAAAATTCCCAACATTTCACG
19475623 CCCAAGATGTACAAAAAAATTCCCAACATTTCACG
1 CCCAAGATGTACAAAAAAATTCCCAACATTTCACG
19475658 AGACGATATG
Statistics
Matches: 48, Mismatches: 6, Indels: 18
0.67 0.08 0.25
Matches are distributed among these distances:
27 5 0.10
28 15 0.31
31 4 0.08
32 4 0.08
35 15 0.31
36 5 0.10
ACGTcount: A:0.43, C:0.26, G:0.11, T:0.20
Consensus pattern (35 bp):
CCCAAGATGTACAAAAAAATTCCCAACATTTCACG
Found at i:19475630 original size:63 final size:63
Alignment explanation
Indices: 19475531--19475657 Score: 254
Period size: 63 Copynumber: 2.0 Consensus size: 63
19475521 TTGCATCGGT
19475531 GCCCAAGATGTACAAGAAAAATATCGGTTCCCAAGATGTACAAAAAAATTCCCAACATTTCAC
1 GCCCAAGATGTACAAGAAAAATATCGGTTCCCAAGATGTACAAAAAAATTCCCAACATTTCAC
19475594 GCCCAAGATGTACAAGAAAAATATCGGTTCCCAAGATGTACAAAAAAATTCCCAACATTTCAC
1 GCCCAAGATGTACAAGAAAAATATCGGTTCCCAAGATGTACAAAAAAATTCCCAACATTTCAC
19475657 G
1 G
19475658 AGACGATATG
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 64 1.00
ACGTcount: A:0.43, C:0.24, G:0.13, T:0.20
Consensus pattern (63 bp):
GCCCAAGATGTACAAGAAAAATATCGGTTCCCAAGATGTACAAAAAAATTCCCAACATTTCAC
Found at i:19477018 original size:32 final size:32
Alignment explanation
Indices: 19476982--19477360 Score: 422
Period size: 32 Copynumber: 11.8 Consensus size: 32
19476972 ATATTTTATG
* * *
19476982 TATTGTCTAATTGAATTGTATAGGTATACACC
1 TATTGTCGAATTGAATTGTATATGTATACACA
**
19477014 TATTGTCGAATTGAATTGTATATGTATACTTA
1 TATTGTCGAATTGAATTGTATATGTATACACA
* * **
19477046 TATTGCCGAATTGAATTGTATGTGTATACTTA
1 TATTGTCGAATTGAATTGTATATGTATACACA
* * *
19477078 TATTGCCGAATTGAATTGTATAGGTATACACC
1 TATTGTCGAATTGAATTGTATATGTATACACA
*
19477110 TATTGTCGAATTGAATTGTATATGTAT--ACT
1 TATTGTCGAATTGAATTGTATATGTATACACA
* * *
19477140 TATGGTGCTGGATTGAATTGTATATGTATA-ATTA
1 TATTGT-C-GAATTGAATTGTATATGTATACA-CA
* *
19477174 TATTGTCGAATTGAATTGTATAAGTATACACC
1 TATTGTCGAATTGAATTGTATATGTATACACA
* **
19477206 TATTGTCAAATTGAATTGTATATGTATACTTA
1 TATTGTCGAATTGAATTGTATATGTATACACA
* * *
19477238 TATTGTCGAATTGAATTGCATAGGTATACACC
1 TATTGTCGAATTGAATTGTATATGTATACACA
**
19477270 TATTGTCGAATTGAATTGTATATGTATACGTA
1 TATTGTCGAATTGAATTGTATATGTATACACA
* **
19477302 TATTGCCGAATTGAATTGTATATGTATACTTA
1 TATTGTCGAATTGAATTGTATATGTATACACA
* * *
19477334 TGTTGCCGAATTGATTTGTATATGTAT
1 TATTGTCGAATTGAATTGTATATGTAT
19477361 TTATATATTG
Statistics
Matches: 298, Mismatches: 44, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
30 7 0.02
31 1 0.00
32 282 0.95
33 3 0.01
34 5 0.02
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.42
Consensus pattern (32 bp):
TATTGTCGAATTGAATTGTATATGTATACACA
Found at i:19477058 original size:64 final size:64
Alignment explanation
Indices: 19476982--19477360 Score: 467
Period size: 64 Copynumber: 5.9 Consensus size: 64
19476972 ATATTTTATG
*
19476982 TATTGTCTAATTGAATTGTATAGGTATACACCTATTGTCGAATTGAATTGTATATGTATACTTA
1 TATTGTCGAATTGAATTGTATAGGTATACACCTATTGTCGAATTGAATTGTATATGTATACTTA
* *** * * ***
19477046 TATTGCCGAATTGAATTGTAT-GTGTATACTTATATTGCCGAATTGAATTGTATAGGTATACACC
1 TATTGTCGAATTGAATTGTATAG-GTATACACCTATTGTCGAATTGAATTGTATATGTATACTTA
* * * * *
19477110 TATTGTCGAATTGAATTGTATATGTAT--ACTTATGGTGCTGGATTGAATTGTATATGTATAATT
1 TATTGTCGAATTGAATTGTATAGGTATACACCTATTGT-C-GAATTGAATTGTATATGTATACTT
19477173 A
64 A
* *
19477174 TATTGTCGAATTGAATTGTATAAGTATACACCTATTGTCAAATTGAATTGTATATGTATACTTA
1 TATTGTCGAATTGAATTGTATAGGTATACACCTATTGTCGAATTGAATTGTATATGTATACTTA
* *
19477238 TATTGTCGAATTGAATTGCATAGGTATACACCTATTGTCGAATTGAATTGTATATGTATACGTA
1 TATTGTCGAATTGAATTGTATAGGTATACACCTATTGTCGAATTGAATTGTATATGTATACTTA
* * *** * * *
19477302 TATTGCCGAATTGAATTGTATATGTATACTTATGTTGCCGAATTGATTTGTATATGTAT
1 TATTGTCGAATTGAATTGTATAGGTATACACCTATTGTCGAATTGAATTGTATATGTAT
19477361 TTATATATTG
Statistics
Matches: 267, Mismatches: 42, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
62 4 0.01
63 2 0.01
64 253 0.95
65 1 0.00
66 7 0.03
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.42
Consensus pattern (64 bp):
TATTGTCGAATTGAATTGTATAGGTATACACCTATTGTCGAATTGAATTGTATATGTATACTTA
Found at i:19477096 original size:96 final size:96
Alignment explanation
Indices: 19476982--19477360 Score: 551
Period size: 96 Copynumber: 3.9 Consensus size: 96
19476972 ATATTTTATG
*
19476982 TATTGTCTAATTGAATTGTATAGGTATACACCTATTGTCGAATTGAATTGTATATGTATACTTAT
1 TATTGTCGAATTGAATTGTATAGGTATACACCTATTGTCGAATTGAATTGTATATGTATACTTAT
*
19477047 ATTGCCGAATTGAATTGTATGTGTATACTTA
66 ATTGCCGAATTGAATTGTATATGTATACTTA
*
19477078 TATTGCCGAATTGAATTGTATAGGTATACACCTATTGTCGAATTGAATTGTATATGTATACTTAT
1 TATTGTCGAATTGAATTGTATAGGTATACACCTATTGTCGAATTGAATTGTATATGTATACTTAT
** * * *
19477143 GGTGCTGGATTGAATTGTATATGTATAATTA
66 ATTGCCGAATTGAATTGTATATGTATACTTA
* *
19477174 TATTGTCGAATTGAATTGTATAAGTATACACCTATTGTCAAATTGAATTGTATATGTATACTTAT
1 TATTGTCGAATTGAATTGTATAGGTATACACCTATTGTCGAATTGAATTGTATATGTATACTTAT
* * * ***
19477239 ATTGTCGAATTGAATTGCATAGGTATACACC
66 ATTGCCGAATTGAATTGTATATGTATACTTA
* *** *
19477270 TATTGTCGAATTGAATTGTATATGTATACGTATATTGCCGAATTGAATTGTATATGTATACTTAT
1 TATTGTCGAATTGAATTGTATAGGTATACACCTATTGTCGAATTGAATTGTATATGTATACTTAT
* *
19477335 GTTGCCGAATTGATTTGTATATGTAT
66 ATTGCCGAATTGAATTGTATATGTAT
19477361 TTATATATTG
Statistics
Matches: 250, Mismatches: 33, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
96 250 1.00
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.42
Consensus pattern (96 bp):
TATTGTCGAATTGAATTGTATAGGTATACACCTATTGTCGAATTGAATTGTATATGTATACTTAT
ATTGCCGAATTGAATTGTATATGTATACTTA
Found at i:19487374 original size:32 final size:32
Alignment explanation
Indices: 19487328--19487802 Score: 600
Period size: 32 Copynumber: 14.8 Consensus size: 32
19487318 ATATTTTATG
* * ***
19487328 TATTTTCGAATTGAATTGTATAGGTATACACC
1 TATTGTCGAATTGAATTGTATATGTATACTTA
*
19487360 TATTGTCAAATTGAATTGTATATGTATACTTA
1 TATTGTCGAATTGAATTGTATATGTATACTTA
19487392 TATTG-CTGAATTGAATTGTATATGTATACTTA
1 TATTGTC-GAATTGAATTGTATATGTATACTTA
* * *
19487424 TATTGCCGAATTGAATTGTATAGGTATACACT-
1 TATTGTCGAATTGAATTGTATATGTATAC-TTA
19487456 TATTGTCGAATTGAATTGTATATGTATACTTA
1 TATTGTCGAATTGAATTGTATATGTATACTTA
* * ***
19487488 TATTGCCGAATTGAATTGTATAGGTATACACC
1 TATTGTCGAATTGAATTGTATATGTATACTTA
19487520 TATTGTCGAATTGAATTGTATATGTATACTTA
1 TATTGTCGAATTGAATTGTATATGTATACTTA
19487552 TATTGTCGAATTGAATTGTATATGTATACTTA
1 TATTGTCGAATTGAATTGTATATGTATACTTA
* * ***
19487584 TATT-TCTGAATTAAATTGTATAGGTATACACC
1 TATTGTC-GAATTGAATTGTATATGTATACTTA
*
19487616 TATTTTCGAATTGAATTGTATATGTATACTTA
1 TATTGTCGAATTGAATTGTATATGTATACTTA
19487648 TATTGTCGAATTGAATTGTA-ATAGTATACTTA
1 TATTGTCGAATTGAATTGTATAT-GTATACTTA
* * ***
19487680 TATTGCCGAATTGAATTGTATAGGTATACACC
1 TATTGTCGAATTGAATTGTATATGTATACTTA
* *
19487712 TATTGTCAAATTGAATTGTATATATATACTTA
1 TATTGTCGAATTGAATTGTATATGTATACTTA
*
19487744 TATTGCCGAATTGAATTGTATATGTATACTTA
1 TATTGTCGAATTGAATTGTATATGTATACTTA
* *
19487776 TGTTGCCGAATTG-ATTGGTATATGTAT
1 TATTGTCGAATTGAATT-GTATATGTAT
19487803 TTATATATTG
Statistics
Matches: 385, Mismatches: 49, Indels: 18
0.85 0.11 0.04
Matches are distributed among these distances:
31 9 0.02
32 371 0.96
33 5 0.01
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (32 bp):
TATTGTCGAATTGAATTGTATATGTATACTTA
Found at i:19487813 original size:96 final size:96
Alignment explanation
Indices: 19487328--19487802 Score: 695
Period size: 96 Copynumber: 4.9 Consensus size: 96
19487318 ATATTTTATG
* * *** *
19487328 TATTTTCGAATTGAATTGTATAGGTATACACCTATTGTCAAATTGAATTGTATATGTATACTTAT
1 TATTGTCGAATTGAATTGTATATGTATACTTATATTGTCGAATTGAATTGTATATGTATACTTAT
* * ***
19487393 ATTGCTGAATTGAATTGTATATGTATACTTA
66 ATTGCCGAATTGAATTGTATAGGTATACACC
* * *
19487424 TATTGCCGAATTGAATTGTATAGGTATACACT-TATTGTCGAATTGAATTGTATATGTATACTTA
1 TATTGTCGAATTGAATTGTATATGTATAC-TTATATTGTCGAATTGAATTGTATATGTATACTTA
19487488 TATTGCCGAATTGAATTGTATAGGTATACACC
65 TATTGCCGAATTGAATTGTATAGGTATACACC
19487520 TATTGTCGAATTGAATTGTATATGTATACTTATATTGTCGAATTGAATTGTATATGTATACTTAT
1 TATTGTCGAATTGAATTGTATATGTATACTTATATTGTCGAATTGAATTGTATATGTATACTTAT
* * *
19487585 ATTTCTGAATTAAATTGTATAGGTATACACC
66 ATTGCCGAATTGAATTGTATAGGTATACACC
*
19487616 TATTTTCGAATTGAATTGTATATGTATACTTATATTGTCGAATTGAATTGTA-ATAGTATACTTA
1 TATTGTCGAATTGAATTGTATATGTATACTTATATTGTCGAATTGAATTGTATAT-GTATACTTA
19487680 TATTGCCGAATTGAATTGTATAGGTATACACC
65 TATTGCCGAATTGAATTGTATAGGTATACACC
* * *
19487712 TATTGTCAAATTGAATTGTATATATATACTTATATTGCCGAATTGAATTGTATATGTATACTTAT
1 TATTGTCGAATTGAATTGTATATGTATACTTATATTGTCGAATTGAATTGTATATGTATACTTAT
* *
19487777 GTTGCCGAATTG-ATTGGTATATGTAT
66 ATTGCCGAATTGAATT-GTATAGGTAT
19487803 TTATATATTG
Statistics
Matches: 348, Mismatches: 26, Indels: 10
0.91 0.07 0.03
Matches are distributed among these distances:
95 6 0.02
96 340 0.98
97 2 0.01
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (96 bp):
TATTGTCGAATTGAATTGTATATGTATACTTATATTGTCGAATTGAATTGTATATGTATACTTAT
ATTGCCGAATTGAATTGTATAGGTATACACC
Found at i:19489052 original size:41 final size:41
Alignment explanation
Indices: 19489007--19489088 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
19488997 TAAGGGTGTT
*
19489007 ACTTAAATAATCGGTTAAAACATTCTATGCGTTGTAAAATC
1 ACTTAAATAATCGGTTAAAACATTCTATGCATTGTAAAATC
19489048 ACTTAAATAATCGGTTAAAACATTCTATGCATTGTAAAATC
1 ACTTAAATAATCGGTTAAAACATTCTATGCATTGTAAAATC
19489089 TCTTTCTTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.34
Consensus pattern (41 bp):
ACTTAAATAATCGGTTAAAACATTCTATGCATTGTAAAATC
Found at i:19491368 original size:41 final size:40
Alignment explanation
Indices: 19491322--19491466 Score: 200
Period size: 41 Copynumber: 3.5 Consensus size: 40
19491312 GTGTAAAAAG
*
19491322 GGGCACATATGTGCAATTCAGGGGTATCGAAGTACAAACA
1 GGGCACATAAGTGCAATTCAGGGGTATCGAAGTACAAACA
* * * *
19491362 GCGGCACATTAGTGCAATTCAGGGATAACAAAGTACAAACA
1 G-GGCACATAAGTGCAATTCAGGGGTATCGAAGTACAAACA
*
19491403 GGGGCACATAAGTGCAATTCAGGGGTATTGAAGTACAAACA
1 -GGGCACATAAGTGCAATTCAGGGGTATCGAAGTACAAACA
*
19491444 GGTGCACGTAAGTGCAATTCAGG
1 GG-GCACATAAGTGCAATTCAGG
19491467 TATAATTAAC
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
40 3 0.03
41 87 0.96
42 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.28, T:0.19
Consensus pattern (40 bp):
GGGCACATAAGTGCAATTCAGGGGTATCGAAGTACAAACA
Found at i:19491415 original size:20 final size:20
Alignment explanation
Indices: 19491351--19491456 Score: 54
Period size: 20 Copynumber: 5.2 Consensus size: 20
19491341 AGGGGTATCG
*
19491351 AAGTACAAACAGCGGCACAT
1 AAGTACAAACAGGGGCACAT
* * * **
19491371 TAGTGCAATTCAGGGATAACA-
1 AAGTACAA-ACAGGG-GCACAT
19491392 AAGTACAAACAGGGGCACAT
1 AAGTACAAACAGGGGCACAT
* * * *
19491412 AAGTGCAATTCAGGGGTA-TT
1 AAGTACAA-ACAGGGGCACAT
* *
19491432 GAAGTACAAACAGGTGCACGT
1 -AAGTACAAACAGGGGCACAT
19491453 AAGT
1 AAGT
19491457 GCAATTCAGG
Statistics
Matches: 60, Mismatches: 20, Indels: 12
0.65 0.22 0.13
Matches are distributed among these distances:
19 3 0.05
20 29 0.48
21 25 0.42
22 3 0.05
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.18
Consensus pattern (20 bp):
AAGTACAAACAGGGGCACAT
Found at i:19491425 original size:21 final size:21
Alignment explanation
Indices: 19491320--19491466 Score: 72
Period size: 21 Copynumber: 7.1 Consensus size: 21
19491310 AAGTGTAAAA
*
19491320 AGGGGCACATATGTGCAATTC
1 AGGGGCACATAAGTGCAATTC
* * * *
19491341 AGGGGTATC-GAAGTACAA-AC
1 AGGGGCA-CATAAGTGCAATTC
* *
19491361 AGCGGCACATTAGTGCAATTC
1 AGGGGCACATAAGTGCAATTC
** * *
19491382 AGGGATAACA-AAGTACAA-AC
1 AGGG-GCACATAAGTGCAATTC
19491402 AGGGGCACATAAGTGCAATTC
1 AGGGGCACATAAGTGCAATTC
* * * *
19491423 AGGGGTA-TTGAAGTACAA-AC
1 AGGGGCACAT-AAGTGCAATTC
* *
19491443 AGGTGCACGTAAGTGCAATTC
1 AGGGGCACATAAGTGCAATTC
19491464 AGG
1 AGG
19491467 TATAATTAAC
Statistics
Matches: 87, Mismatches: 30, Indels: 18
0.64 0.22 0.13
Matches are distributed among these distances:
19 4 0.05
20 38 0.44
21 41 0.47
22 4 0.05
ACGTcount: A:0.36, C:0.17, G:0.28, T:0.19
Consensus pattern (21 bp):
AGGGGCACATAAGTGCAATTC
Found at i:19491458 original size:82 final size:82
Alignment explanation
Indices: 19491320--19491471 Score: 243
Period size: 82 Copynumber: 1.9 Consensus size: 82
19491310 AAGTGTAAAA
* *
19491320 AGGGGCACATATGTGCAATTCAGGGGTATCGAAGTACAAACAGCGGCACATTAGTGCAATTCAGG
1 AGGGGCACATAAGTGCAATTCAGGGGTATCGAAGTACAAACAGCGGCACATAAGTGCAATTCAGG
19491385 GATAACAAAGTACAAAC
66 GATAACAAAGTACAAAC
* *
19491402 AGGGGCACATAAGTGCAATTCAGGGGTATTGAAGTACAAACAG-GTGCACGTAAGTGCAATTCAG
1 AGGGGCACATAAGTGCAATTCAGGGGTATCGAAGTACAAACAGCG-GCACATAAGTGCAATTCAG
*
19491466 GTATAA
65 GGATAA
19491472 TTAACATAAG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
81 1 0.02
82 63 0.98
ACGTcount: A:0.37, C:0.16, G:0.27, T:0.20
Consensus pattern (82 bp):
AGGGGCACATAAGTGCAATTCAGGGGTATCGAAGTACAAACAGCGGCACATAAGTGCAATTCAGG
GATAACAAAGTACAAAC
Found at i:19498618 original size:41 final size:41
Alignment explanation
Indices: 19498561--19498733 Score: 186
Period size: 41 Copynumber: 4.2 Consensus size: 41
19498551 ACCAGAGTGT
* *
19498561 AAACAGGGGCACGTAAGTGCAATTGT-GGTGTACCAAAGTAC
1 AAACAGGGGCATGTAAGTGCAATT-TAGGTGTACCGAAGTAC
* * * * *
19498602 AAACTGGAGCATGTAAGTGCAATTTAGGGGTACTGAGGTAC
1 AAACAGGGGCATGTAAGTGCAATTTAGGTGTACCGAAGTAC
** * * *
19498643 AAACAGGGGCACATAAGTGCAATTCAGGAGTACCGAAGTAG
1 AAACAGGGGCATGTAAGTGCAATTTAGGTGTACCGAAGTAC
* * *
19498684 AAACAGGGGCATGTAAATGCAATTTAAGTGTATCGAAGTAC
1 AAACAGGGGCATGTAAGTGCAATTTAGGTGTACCGAAGTAC
*
19498725 AAACTGGGG
1 AAACAGGGG
19498734 TACATAAGTG
Statistics
Matches: 106, Mismatches: 25, Indels: 2
0.80 0.19 0.02
Matches are distributed among these distances:
40 1 0.01
41 105 0.99
ACGTcount: A:0.36, C:0.14, G:0.29, T:0.20
Consensus pattern (41 bp):
AAACAGGGGCATGTAAGTGCAATTTAGGTGTACCGAAGTAC
Found at i:19498662 original size:82 final size:82
Alignment explanation
Indices: 19498561--19498766 Score: 236
Period size: 82 Copynumber: 2.5 Consensus size: 82
19498551 ACCAGAGTGT
* ** * * *
19498561 AAACAGGGGCACGTAAGTGCAATTGTGGTGTACCAAAGTACAAACTGGAGCATGTAAGTGCAATT
1 AAACAGGGGCACATAAGTGCAATTCAGGAGTACCAAAGTACAAACAGGAGCATGTAAATGCAATT
* *
19498626 TAGGGGTA-CTGAGGTAC
66 TAAGGGTATC-GAAGTAC
* * *
19498643 AAACAGGGGCACATAAGTGCAATTCAGGAGTACCGAAGTAGAAACAGGGGCATGTAAATGCAATT
1 AAACAGGGGCACATAAGTGCAATTCAGGAGTACCAAAGTACAAACAGGAGCATGTAAATGCAATT
*
19498708 TAAGTGTATCGAAGTAC
66 TAAGGGTATCGAAGTAC
* * * *
19498725 AAACTGGGGTACATAAGTGTAATTCAAGG-GTACCAAAATACA
1 AAACAGGGGCACATAAGTGCAATTC-AGGAGTACCAAAGTACA
19498767 GACAATGGCA
Statistics
Matches: 104, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
82 100 0.96
83 4 0.04
ACGTcount: A:0.37, C:0.15, G:0.27, T:0.21
Consensus pattern (82 bp):
AAACAGGGGCACATAAGTGCAATTCAGGAGTACCAAAGTACAAACAGGAGCATGTAAATGCAATT
TAAGGGTATCGAAGTAC
Found at i:19506100 original size:15 final size:15
Alignment explanation
Indices: 19506067--19506127 Score: 77
Period size: 15 Copynumber: 3.9 Consensus size: 15
19506057 GTATCTTTAT
19506067 TAAAAATAAAATATAA
1 TAAAAATAAAA-ATAA
*
19506083 TAAAAATAAAAATTA
1 TAAAAATAAAAATAA
*
19506098 TAAACATAAAAATAA
1 TAAAAATAAAAATAA
19506113 TAAATAAATAAAAAT
1 T-AA-AAATAAAAAT
19506128 CTCAAACACT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
15 17 0.44
16 13 0.33
17 9 0.23
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.25
Consensus pattern (15 bp):
TAAAAATAAAAATAA
Found at i:19506135 original size:32 final size:31
Alignment explanation
Indices: 19506065--19506135 Score: 78
Period size: 32 Copynumber: 2.3 Consensus size: 31
19506055 AAGTATCTTT
19506065 ATTA-AAA-ATAAAATATAATAAAAATAAAA
1 ATTACAAACATAAAATATAATAAAAATAAAA
*
19506094 ATTATAAACATAAAA-ATAATAAATAAATAAAA
1 ATTACAAACATAAAATATAAT-AA-AAATAAAA
19506126 ATCT-CAAACA
1 AT-TACAAACA
19506136 CTACACTTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
29 4 0.11
30 8 0.22
31 8 0.22
32 15 0.42
33 1 0.03
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.24
Consensus pattern (31 bp):
ATTACAAACATAAAATATAATAAAAATAAAA
Found at i:19519894 original size:51 final size:51
Alignment explanation
Indices: 19519830--19520007 Score: 257
Period size: 51 Copynumber: 3.5 Consensus size: 51
19519820 TAAGACTGAG
* * *
19519830 GGTAGTGAATCTTATTTCCCTAGCGTTGCAATGGAACAGATTAAAGCTAAA
1 GGTAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTAAA
* * *
19519881 GGTAGCGAATCTTATTTCTCTGGCGTTGCAGTGGAATAGATTAAAGCAAAA
1 GGTAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTAAA
* * *
19519932 GGTAGCGAATCTTGTTTCCCTGGCGTTGCAGTGGAGCAGATTAAAGCTGAA
1 GGTAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTAAA
* *
19519983 GGTAGCGAATCTTATCTCTCTGGCG
1 GGTAGCGAATCTTATTTCCCTGGCG
19520008 CAGATTAAAG
Statistics
Matches: 112, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 112 1.00
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (51 bp):
GGTAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTAAA
Found at i:19520094 original size:44 final size:43
Alignment explanation
Indices: 19520025--19520438 Score: 264
Period size: 44 Copynumber: 9.8 Consensus size: 43
19520015 AAGATGACGA
* * *
19520025 AATCTTATCTCCCTAAAGTTACAGTGGAGCTGATTGAAGTCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-TCAAT
* * * *
19520069 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGGTTAAAATCACA-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-GAATCA-AT
* * * * * * *
19520113 AGTCTTATCTCTCTGAAGTTACAG-AGAGCAGATCGCATC--C
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAATCAAT
* * * *
19520153 AGTCTTATCTGCCTGAAGTTGCAGTGGAGCAGACTGAATAAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAATCAAT
* * **
19520196 CAATCTTATCTCCCTGAAATTGTAGTGGAGCAGATTGAAGAAACT
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAATCAA-T
* * * * *
19520241 AATCCTATCTCTCTGAAGTTGTAGTAGAGCGGA-TGAA--AAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAATCAAT
* ** * * *
19520281 CA-CAGATCT---T-AAGTTGCAG-AGAGCAGATCGCATC-A-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAATCAAT
* * * * *
19520316 AGTCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTGAATGAACC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAATCAA-T
* **
19520360 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAAAAACT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAATCAA-T
* * *
19520404 AATCCTATCTCTCTGAAGTTGCAGTGGAGCGGATT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
19520439 AAAATGATGG
Statistics
Matches: 289, Mismatches: 61, Indels: 40
0.74 0.16 0.10
Matches are distributed among these distances:
34 7 0.02
35 10 0.03
36 7 0.02
39 6 0.02
40 32 0.11
41 24 0.08
42 4 0.01
43 10 0.03
44 185 0.64
45 4 0.01
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAATCAAT
Found at i:19520255 original size:128 final size:127
Alignment explanation
Indices: 19520027--19520260 Score: 294
Period size: 128 Copynumber: 1.8 Consensus size: 127
19520017 GATGACGAAA
* * * *
19520027 TCTTATCTCCCTAAAGTTACAGTGGAGCTGATTGAAGTCAATAATCCTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTAAAGTTACAGTGGAGCAGACTGAAGTAAATAATCCTATCTCCCTGAAATTGCA
* * *
19520092 GTGGAGCGGGTTAAAATCACAAGTCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCCAG
66 GTGGAGCAGATTAAAA-CACAAGTCCTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCCAG
* * * * *
19520155 TCTTATCTGCCTGAAGTTGCAGTGGAGCAGACTGAA-TAAATCAATCTTATCTCCCTGAAATTGT
1 TCTTATCTCCCTAAAGTTACAGTGGAGCAGACTGAAGTAAAT-AATCCTATCTCCCTGAAATTGC
19520219 AGTGGAGCAGATTGAAGAA-ACTAA-TCCTATCTCTCTGAAGTT
65 AGTGGAGCAGATT-AA-AACAC-AAGTCCTATCTCTCTGAAGTT
19520261 GTAGTAGAGC
Statistics
Matches: 90, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
127 4 0.04
128 80 0.89
129 4 0.04
130 2 0.02
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (127 bp):
TCTTATCTCCCTAAAGTTACAGTGGAGCAGACTGAAGTAAATAATCCTATCTCCCTGAAATTGCA
GTGGAGCAGATTAAAACACAAGTCCTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCCAG
Found at i:19520373 original size:163 final size:168
Alignment explanation
Indices: 19520025--19520443 Score: 564
Period size: 163 Copynumber: 2.5 Consensus size: 168
19520015 AAGATGACGA
* * *
19520025 AATCTTATCTCCCT-AAAGTTACAGTGGAGCTGATTGAAGTCAA-TAATCCTATCTCCCTGAAGT
1 AATCTTATCTCCCTGAAA-TTACAGTGGAGCAGATTGAAG-AAACTAATCCTATCTCTCTGAAGT
* *
19520088 TGCAGTGGAGCGGGTTAAAATCACAAGTCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCC
64 TGCAGTGGAGCGGATTAAAATCACAAG---TA-CTCTCTGAAGTTACAGAGAGCAGATCGCATCA
* * * *
19520153 AGTCTTATCTGCCTGAAGTTGCAGTGGAGCAGACTGAATAAATC
125 AGTCTTATCTCCCTAAAGTTGCAGTAGAGCAGACTGAATAAACC
**
19520197 AATCTTATCTCCCTGAAATTGTAGTGGAGCAGATTGAAGAAACTAATCCTATCTCTCTGAAGTTG
1 AATCTTATCTCCCTGAAATTACAGTGGAGCAGATTGAAGAAACTAATCCTATCTCTCTGAAGTTG
* * * *
19520262 TAGTAGAGCGGATGAAAATCAC-AG-A-TCT-T-AAGTTGCAGAGAGCAGATCGCATCAAGTCTT
66 CAGTGGAGCGGATTAAAATCACAAGTACTCTCTGAAGTTACAGAGAGCAGATCGCATCAAGTCTT
* *
19520322 ATCTCCCTAAAGTTGCAGTAGAGCAGATTGAATGAACC
131 ATCTCCCTAAAGTTGCAGTAGAGCAGACTGAATAAACC
* *
19520360 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAAAAACTAATCCTATCTCTCTGAAGTTG
1 AATCTTATCTCCCTGAAATTACAGTGGAGCAGATTGAAGAAACTAATCCTATCTCTCTGAAGTTG
19520425 CAGTGGAGCGGATTAAAAT
66 CAGTGGAGCGGATTAAAAT
19520444 GATGGATCTT
Statistics
Matches: 221, Mismatches: 24, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
163 138 0.62
164 1 0.00
165 3 0.01
167 1 0.00
171 4 0.02
172 71 0.32
173 3 0.01
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (168 bp):
AATCTTATCTCCCTGAAATTACAGTGGAGCAGATTGAAGAAACTAATCCTATCTCTCTGAAGTTG
CAGTGGAGCGGATTAAAATCACAAGTACTCTCTGAAGTTACAGAGAGCAGATCGCATCAAGTCTT
ATCTCCCTAAAGTTGCAGTAGAGCAGACTGAATAAACC
Found at i:19526432 original size:39 final size:35
Alignment explanation
Indices: 19526387--19526467 Score: 90
Period size: 39 Copynumber: 2.2 Consensus size: 35
19526377 TAAAATACTT
* *
19526387 TAATTTAAATTAATATAAAAATAAAATAATATTTTAATA
1 TAATTTAAAATAAAATAAAAAT--AA-AATATTTT-ATA
**
19526426 TAATTTAAAATAAAATATTAATAAAATATTTTATA
1 TAATTTAAAATAAAATAAAAATAAAATATTTTATA
19526461 TAATTTA
1 TAATTTA
19526468 GACTAAATGA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
35 10 0.26
36 8 0.21
37 2 0.05
39 18 0.47
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (35 bp):
TAATTTAAAATAAAATAAAAATAAAATATTTTATA
Found at i:19526439 original size:34 final size:36
Alignment explanation
Indices: 19526375--19526467 Score: 113
Period size: 34 Copynumber: 2.7 Consensus size: 36
19526365 TATAATTTGA
* * * *
19526375 AATAAAATACTTTAATTTAAATTAATATAAAA-A-T
1 AATAAAATATTTTAATATAATTTAAAATAAAATATT
19526409 AA-AATAATATTTTAATATAATTTAAAATAAAATATT
1 AATAA-AATATTTTAATATAATTTAAAATAAAATATT
19526445 AATAAAATATTTT-ATATAATTTA
1 AATAAAATATTTTAATATAATTTA
19526468 GACTAAATGA
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
33 2 0.04
34 25 0.49
35 11 0.22
36 11 0.22
37 2 0.04
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (36 bp):
AATAAAATATTTTAATATAATTTAAAATAAAATATT
Found at i:19526805 original size:6 final size:6
Alignment explanation
Indices: 19526794--19526836 Score: 86
Period size: 6 Copynumber: 7.2 Consensus size: 6
19526784 TTATTCATTA
19526794 TAGGTT TAGGTT TAGGTT TAGGTT TAGGTT TAGGTT TAGGTT T
1 TAGGTT TAGGTT TAGGTT TAGGTT TAGGTT TAGGTT TAGGTT T
19526837 TGGGGTTTAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.16, C:0.00, G:0.33, T:0.51
Consensus pattern (6 bp):
TAGGTT
Found at i:19539407 original size:9 final size:9
Alignment explanation
Indices: 19539393--19539417 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
19539383 AATACTCATA
19539393 CTAAGCTTG
1 CTAAGCTTG
19539402 CTAAGCTTG
1 CTAAGCTTG
19539411 CTAAGCT
1 CTAAGCT
19539418 CACCCCATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (9 bp):
CTAAGCTTG
Found at i:19558645 original size:42 final size:43
Alignment explanation
Indices: 19558597--19558682 Score: 138
Period size: 42 Copynumber: 2.0 Consensus size: 43
19558587 ATTTATTTGC
*
19558597 CACACGGCCTGGACACATGCCCATATCCT-TACCCATGTGGTT
1 CACACGGCCTCGACACATGCCCATATCCTCTACCCATGTGGTT
* *
19558639 CACACGGCCTCGACACATGCCCATGTCCTCTGCCCATGTGGTT
1 CACACGGCCTCGACACATGCCCATATCCTCTACCCATGTGGTT
19558682 C
1 C
19558683 CGAAACATAA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
42 27 0.68
43 13 0.32
ACGTcount: A:0.19, C:0.38, G:0.20, T:0.23
Consensus pattern (43 bp):
CACACGGCCTCGACACATGCCCATATCCTCTACCCATGTGGTT
Found at i:19561952 original size:26 final size:27
Alignment explanation
Indices: 19561923--19561980 Score: 68
Period size: 26 Copynumber: 2.2 Consensus size: 27
19561913 GGCTTCCCAG
* *
19561923 ATAACTTCACCAC-TAAGGC-TTTCCGA
1 ATAACTACACCACAT-AGGCTTTTCCAA
19561949 ATAA-TACACCACATAGGCTTTTCCAA
1 ATAACTACACCACATAGGCTTTTCCAA
19561975 ATAACT
1 ATAACT
19561981 CGCCATAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
25 11 0.41
26 15 0.56
27 1 0.04
ACGTcount: A:0.36, C:0.28, G:0.09, T:0.28
Consensus pattern (27 bp):
ATAACTACACCACATAGGCTTTTCCAA
Found at i:19561966 original size:25 final size:26
Alignment explanation
Indices: 19561930--19561978 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
19561920 CAGATAACTT
*
19561930 CACCACTAAGGC-TTTCCGAATAATA
1 CACCACTAAGGCTTTTCCAAATAATA
19561955 CACCAC-ATAGGCTTTTCCAAATAA
1 CACCACTA-AGGCTTTTCCAAATAA
19561979 CTCGCCATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 1 0.05
25 10 0.48
26 10 0.48
ACGTcount: A:0.37, C:0.29, G:0.10, T:0.24
Consensus pattern (26 bp):
CACCACTAAGGCTTTTCCAAATAATA
Found at i:19569421 original size:100 final size:100
Alignment explanation
Indices: 19569285--19569935 Score: 831
Period size: 100 Copynumber: 6.5 Consensus size: 100
19569275 TTATCTGTTA
* ** * * ** *
19569285 CTTTAATCTGTTTAACTGTGATGTCGAGGAAGCAAGATTCGTTGTTGTAGC-TTCAATCTGTTCC
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGGTTCGCCGTTGTGGCGTT-AATCTGTTCC
* * * *
19569349 ACTACACCGCCT-AGGGAGTAAGATTCACTGTTGTAG
65 ACTGCACCGCTTGA-GAAGTAAGATTCACTGTGGTAG
* * * * * * *
19569385 CTTTAATCTTTTTAACTGCCATGTTGGGGAATCAAGATTCACTGTTGTGGCGTTAATATGTTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGGTTCGCCGTTGTGGCGTTAATCTGTTCCA
** * *
19569450 CTGCACCGCCAG-GAAAGTAAGATTCATTGTTGTAG
66 CTGCACCGCTTGAG-AAGTAAGATTCACTGTGGTAG
19569485 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGGTTCGCCGTTGTGGCGTTAATCTGTTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGGTTCGCCGTTGTGGCGTTAATCTGTTCCA
*
19569550 CTGCACCGCTTGAGAAGTAAGATTCGCTGTGGTAG
66 CTGCACCGCTTGAGAAGTAAGATTCACTGTGGTAG
* * *
19569585 CTTTAATCTTTTTAACTGCAATGTCAGGGAAGAAAGGTTCGCCGTTATGGCGTTAATCTGTTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGGTTCGCCGTTGTGGCGTTAATCTGTTCCA
* **
19569650 CTACACCGCTTGAGAAGTAAGATTTGCTGTGGTAG
66 CTGCACCGCTTGAGAAGTAAGATTCACTGTGGTAG
*
19569685 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGGTTCGCCGTTGTGGCGTTAATCTTTTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGGTTCGCCGTTGTGGCGTTAATCTGTTCCA
19569750 CTGCACCGCTTGAGAAGTAAGATTCACTGTGGTAG
66 CTGCACCGCTTGAGAAGTAAGATTCACTGTGGTAG
* * * * *
19569785 CTTTAATCTTTTTCACTACAATGTCAGGGAAGCAAGGTTCACCGTTGTGGCGTTAATCTATTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGGTTCGCCGTTGTGGCGTTAATCTGTTCCA
* * * * *
19569850 CTGCACCACTTGACAAGTAAGATTCGCTGTTGTGG
66 CTGCACCGCTTGAGAAGTAAGATTCACTGTGGTAG
* * * * * *
19569885 CTTTAATCATTTTAACGGCAATGTCGAGGAAGCAAGATTCACTGTTGTGGC
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGGTTCGCCGTTGTGGC
19569936 TTTCATCTTA
Statistics
Matches: 491, Mismatches: 56, Indels: 8
0.88 0.10 0.01
Matches are distributed among these distances:
99 1 0.00
100 487 0.99
101 3 0.01
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (100 bp):
CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGGTTCGCCGTTGTGGCGTTAATCTGTTCCA
CTGCACCGCTTGAGAAGTAAGATTCACTGTGGTAG
Found at i:19569422 original size:50 final size:48
Alignment explanation
Indices: 19569362--19569944 Score: 188
Period size: 50 Copynumber: 11.7 Consensus size: 48
19569352 ACACCGCCTA
* * * *
19569362 GGGAGTAAGATTCACTGTTGTAGCTTTAATCTTTTTAACTGCCATGTTG
1 GGGAATAAGATTCACTGTTGTGGCTTTAATCTTTTTCACTGCCATG-TC
* * * * * *
19569411 GGGAATCAAGATTCACTGTTGTGGCGTTAATATGTTCCACTG-CACCGCC
1 GGGAAT-AAGATTCACTGTTGTGGCTTTAATCTTTTTCACTGCCA-TGTC
* * * * *
19569460 AGGAAAGTAAGATTCATTGTTGTAGCTTTAATCTTTTTAACTGCAATGTC
1 -GGGAA-TAAGATTCACTGTTGTGGCTTTAATCTTTTTCACTGCCATGTC
* * * * * * * * *
19569510 GGGGAAGCAAGGTTCGCCGTTGTGGCGTTAATCTGTTCCACTG-CACCGCTT
1 -GGGAA-TAAGATTCACTGTTGTGGCTTTAATCTTTTTCACTGCCA-TG-TC
* * * * * *
19569561 GAGAAGTAAGATTCGCTGTGGTAGCTTTAATCTTTTTAACTGCAATGTC
1 GGGAA-TAAGATTCACTGTTGTGGCTTTAATCTTTTTCACTGCCATGTC
* * * * * * * * * * *
19569610 AGGGAAGAAAGGTTCGCCGTTATGGCGTTAATCTGTTCCACT-ACACCGCTT
1 -GGGAA-TAAGATTCACTGTTGTGGCTTTAATCTTTTTCACTGCCA-TG-TC
* ** * * * *
19569661 GAGAAGTAAGATTTGCTGTGGTAGCTTTAATCTTTTTAACTGCAATGTC
1 GGGAA-TAAGATTCACTGTTGTGGCTTTAATCTTTTTCACTGCCATGTC
* * * * * * * *
19569710 GGGGAAGCAAGGTTCGCCGTTGTGGCGTTAATCTTTTCCACTG-CACCGCTT
1 -GGGAA-TAAGATTCACTGTTGTGGCTTTAATCTTTTTCACTGCCA-TG-TC
* * * * *
19569761 GAGAAGTAAGATTCACTGTGGTAGCTTTAATCTTTTTCACTACAATGTC
1 GGGAA-TAAGATTCACTGTTGTGGCTTTAATCTTTTTCACTGCCATGTC
* * * * * *
19569810 AGGGAAGCAAGGTTCACCGTTGTGGCGTTAATCTATTCCACTGCACCACT-T-
1 -GGGAA-TAAGATTCACTGTTGTGGCTTTAATCTTTTTCACTG--CCA-TGTC
** * * * * *
19569861 GACAAGTAAGATTCGCTGTTGTGGCTTTAATCATTTTAACGGCAATGTC
1 GGGAA-TAAGATTCACTGTTGTGGCTTTAATCTTTTTCACTGCCATGTC
* *
19569910 GAGGAAGCAAGATTCACTGTTGTGGCTTTCATCTT
1 G-GGAA-TAAGATTCACTGTTGTGGCTTTAATCTT
19569945 ATTCCATTGC
Statistics
Matches: 375, Mismatches: 136, Indels: 45
0.67 0.24 0.08
Matches are distributed among these distances:
47 1 0.00
48 3 0.01
49 14 0.04
50 345 0.92
51 8 0.02
52 3 0.01
53 1 0.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (48 bp):
GGGAATAAGATTCACTGTTGTGGCTTTAATCTTTTTCACTGCCATGTC
Found at i:19572462 original size:14 final size:16
Alignment explanation
Indices: 19572443--19572477 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
19572433 TTGACCTCTC
19572443 CTTTTTC-T-TTTTTT
1 CTTTTTCTTATTTTTT
19572457 CTTTTTCTTATTTTTT
1 CTTTTTCTTATTTTTT
19572473 CTTTT
1 CTTTT
19572478 ATTTTTGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.37
15 1 0.05
16 11 0.58
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (16 bp):
CTTTTTCTTATTTTTT
Found at i:19572502 original size:30 final size:31
Alignment explanation
Indices: 19572466--19572526 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
19572456 TCTTTTTCTT
*
19572466 ATTTTTTCTTTTATTTTTGATTTTG-ATTTTG
1 ATTTTTT-TTCTATTTTTGATTTTGAATTTTG
* *
19572497 ATTTTTTTTCTTTTTTTTATTTTGAATTTT
1 ATTTTTTTTCTATTTTTGATTTTGAATTTT
19572527 TTGAATTGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 14 0.54
31 12 0.46
ACGTcount: A:0.13, C:0.03, G:0.07, T:0.77
Consensus pattern (31 bp):
ATTTTTTTTCTATTTTTGATTTTGAATTTTG
Found at i:19573245 original size:35 final size:35
Alignment explanation
Indices: 19573203--19573281 Score: 133
Period size: 35 Copynumber: 2.3 Consensus size: 35
19573193 ATATAAATTC
*
19573203 ATGAATAATTATTTGTATCATATGATTATGAATGA
1 ATGAATAATTATTTGTACCATATGATTATGAATGA
*
19573238 ATGAATAATAATTTGTACCATATGATTATGAATGA
1 ATGAATAATTATTTGTACCATATGATTATGAATGA
19573273 AT-AATAATT
1 ATGAATAATT
19573282 TGGAAGAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
34 6 0.15
35 35 0.85
ACGTcount: A:0.43, C:0.04, G:0.13, T:0.41
Consensus pattern (35 bp):
ATGAATAATTATTTGTACCATATGATTATGAATGA
Found at i:19598745 original size:26 final size:27
Alignment explanation
Indices: 19598689--19598774 Score: 129
Period size: 27 Copynumber: 3.2 Consensus size: 27
19598679 ACAAAAGTCA
* * *
19598689 TTGTGGCGAACCATGAAAATAAAGGCT
1 TTGTGGTGAACCATGAAAAGAAAGCCT
*
19598716 TTGTGGTGAACCATG-AAAGAAAGCCC
1 TTGTGGTGAACCATGAAAAGAAAGCCT
19598742 TTGTGGTGAACCATGAAAAGAAAGCCT
1 TTGTGGTGAACCATGAAAAGAAAGCCT
19598769 TTGTGG
1 TTGTGG
19598775 CAAATCTTTG
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
26 23 0.43
27 30 0.57
ACGTcount: A:0.34, C:0.15, G:0.28, T:0.23
Consensus pattern (27 bp):
TTGTGGTGAACCATGAAAAGAAAGCCT
Found at i:19598905 original size:27 final size:27
Alignment explanation
Indices: 19598864--19598949 Score: 109
Period size: 27 Copynumber: 3.2 Consensus size: 27
19598854 CCTCTGTGGA
* *
19598864 GAACTCTAAAAGAATAGTACTCATAGC
1 GAACTCTAAAAGAATGGTACTCATGGC
* *
19598891 GAACCCTAAAGGAATGGTACTCATGGC
1 GAACTCTAAAAGAATGGTACTCATGGC
* * *
19598918 GAACTATAAATGAATGGTATTCATGGC
1 GAACTCTAAAAGAATGGTACTCATGGC
19598945 GAACT
1 GAACT
19598950 ACGAAAGAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.23
Consensus pattern (27 bp):
GAACTCTAAAAGAATGGTACTCATGGC
Found at i:19618419 original size:21 final size:23
Alignment explanation
Indices: 19618395--19618438 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
19618385 TCCTACGGTT
19618395 TTCTT-AACATCAC-ATTTATAC
1 TTCTTAAACATCACAATTTATAC
19618416 TTCTTACAACATCACAATTTATA
1 TTCTTA-AACATCACAATTTATA
19618439 TAAAAAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 5 0.25
23 8 0.40
24 7 0.35
ACGTcount: A:0.36, C:0.23, G:0.00, T:0.41
Consensus pattern (23 bp):
TTCTTAAACATCACAATTTATAC
Found at i:19619134 original size:28 final size:28
Alignment explanation
Indices: 19619102--19619159 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
19619092 CAACATGTCC
*
19619102 TTAGTCTAATCGAAAATGAGCAAATTAA
1 TTAGTATAATCGAAAATGAGCAAATTAA
* *
19619130 TTAGTATAATTGGAAATGAGCAAATTAA
1 TTAGTATAATCGAAAATGAGCAAATTAA
19619158 TT
1 TT
19619160 GAAAGACTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.45, C:0.07, G:0.16, T:0.33
Consensus pattern (28 bp):
TTAGTATAATCGAAAATGAGCAAATTAA
Found at i:19638877 original size:73 final size:73
Alignment explanation
Indices: 19638785--19638926 Score: 221
Period size: 73 Copynumber: 1.9 Consensus size: 73
19638775 AAATAGGTAA
* * *
19638785 AAAAAAATCTGGTAAGTTAATTTATTGAAAACAATATTAAATTTAAAAGAGTTCTAAAATTCTTA
1 AAAAAAATCTGCTAAGTTAATTTATTGAAAACAAAATTAAATCTAAAAGAGTTCTAAAATTCTTA
19638850 AAAAAGGT
66 AAAAAGGT
* * * *
19638858 AAAAAAATCTGCTATGTTAATTTATTGAAAACAAAATTATATCTAAAAGAGTTTTCAAATTCTTA
1 AAAAAAATCTGCTAAGTTAATTTATTGAAAACAAAATTAAATCTAAAAGAGTTCTAAAATTCTTA
19638923 AAAA
66 AAAA
19638927 GAAAATAGAT
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
73 62 1.00
ACGTcount: A:0.50, C:0.07, G:0.09, T:0.34
Consensus pattern (73 bp):
AAAAAAATCTGCTAAGTTAATTTATTGAAAACAAAATTAAATCTAAAAGAGTTCTAAAATTCTTA
AAAAAGGT
Found at i:19646079 original size:5 final size:5
Alignment explanation
Indices: 19646071--19646095 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
19646061 ATAATTATAT
19646071 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
19646096 GGTTAACATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:19646921 original size:29 final size:30
Alignment explanation
Indices: 19646889--19646951 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
19646879 AGCTTTGGCT
*
19646889 ATCGATT-ATGAAAAGGGATGGTGACGACC
1 ATCGATTAATGAAAAGGGATGGTGACCACC
*
19646918 ATCGATTAATGAAAAGGGATGGTTACCACC
1 ATCGATTAATGAAAAGGGATGGTGACCACC
19646948 ATCG
1 ATCG
19646952 TTTAGCACAC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 7 0.23
30 24 0.77
ACGTcount: A:0.35, C:0.16, G:0.27, T:0.22
Consensus pattern (30 bp):
ATCGATTAATGAAAAGGGATGGTGACCACC
Found at i:19673977 original size:40 final size:40
Alignment explanation
Indices: 19673940--19674164 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 40
19673930 GCTACTCGTT
* * *
19673940 CAAATGCCTTCGGGACATAGCTCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
19673980 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
19674020 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
19674060 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
19674099 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
* *
19674140 CAAA-ACCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
19674165 CATCATTCAA
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
38 2 0.01
39 32 0.20
40 116 0.71
41 13 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:19674124 original size:119 final size:120
Alignment explanation
Indices: 19673942--19674164 Score: 283
Period size: 119 Copynumber: 1.9 Consensus size: 120
19673932 TACTCGTTCA
* *
19673942 AATGCCTTCGGGACATAGCTCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* * *
19674007 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-ACCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
19674062 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
19674124 ATATGGTCACTTAGCACAAAACCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAACCTTCGGGACTTAACCCGGA
19674165 CATCATTCAA
Statistics
Matches: 88, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
118 4 0.05
119 64 0.73
120 20 0.23
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAACCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:19678008 original size:27 final size:27
Alignment explanation
Indices: 19677954--19678288 Score: 333
Period size: 27 Copynumber: 12.5 Consensus size: 27
19677944 GGTATAACAG
*
19677954 TCATTTTACCCAAT-GA-GGTATTACGA
1 TCATTTTACCC-ATCGAGGGTATTTCGA
* *
19677980 TCATTTTATCCTTCGAGGGTATTTCGA
1 TCATTTTACCCATCGAGGGTATTTCGA
* *
19678007 TCATTTTACCTATTGAGGGTATTTC-A
1 TCATTTTACCCATCGAGGGTATTTCGA
* *
19678033 GTCATTTTACACATC-ACAGGTATTTCGA
1 -TCATTTTACCCATCGA-GGGTATTTCGA
* *
19678061 TCATTTTACCCATCGAGGGTATCTCGG
1 TCATTTTACCCATCGAGGGTATTTCGA
* *
19678088 TAATTTTACCCATCGAGGGTATTTTGA
1 TCATTTTACCCATCGAGGGTATTTCGA
* *
19678115 TTATTTTACCCATCGAGGGTATTTCAA
1 TCATTTTACCCATCGAGGGTATTTCGA
* *
19678142 TAATTTTATCCATCGAGGGTATTTCGA
1 TCATTTTACCCATCGAGGGTATTTCGA
* * * * *
19678169 TCATTTTACTCATCAAAGGTATTTTGG
1 TCATTTTACCCATCGAGGGTATTTCGA
* *
19678196 TCATTTTACCCATTGAGGGTATTTTGGA
1 TCATTTTACCCATCGAGGGTA-TTTCGA
* *
19678224 -AATTTTATCCATCGAGGGTATTTC-A
1 TCATTTTACCCATCGAGGGTATTTCGA
* * *
19678249 GTCATTTTACCCATTGAGGTTATTTCAA
1 -TCATTTTACCCATCGAGGGTATTTCGA
19678277 TCA-TTTACCCAT
1 TCATTTTACCCAT
19678289 GAATCGCAAG
Statistics
Matches: 253, Mismatches: 46, Indels: 20
0.79 0.14 0.06
Matches are distributed among these distances:
25 2 0.01
26 26 0.10
27 218 0.86
28 7 0.03
ACGTcount: A:0.25, C:0.18, G:0.16, T:0.41
Consensus pattern (27 bp):
TCATTTTACCCATCGAGGGTATTTCGA
Found at i:19685096 original size:28 final size:28
Alignment explanation
Indices: 19685064--19685174 Score: 159
Period size: 28 Copynumber: 4.0 Consensus size: 28
19685054 AGTAGCAATC
* * * *
19685064 TGGGCCTGAGCCCTATACAGCAACGGTG
1 TGGGCCTTAGCCCAATACAGTAACAGTG
19685092 TGGGCCTTAGCCCAATACAGTAACAGTG
1 TGGGCCTTAGCCCAATACAGTAACAGTG
*
19685120 TGGGCCTTAGCCCAATACAATAACAGTG
1 TGGGCCTTAGCCCAATACAGTAACAGTG
* *
19685148 TGGGCCTTAGCCAAATATAGTAACAGT
1 TGGGCCTTAGCCCAATACAGTAACAGT
19685175 ACAATGCAGT
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 75 1.00
ACGTcount: A:0.29, C:0.24, G:0.25, T:0.22
Consensus pattern (28 bp):
TGGGCCTTAGCCCAATACAGTAACAGTG
Found at i:19685539 original size:27 final size:27
Alignment explanation
Indices: 19685506--19685923 Score: 310
Period size: 27 Copynumber: 15.5 Consensus size: 27
19685496 TGGTATAACA
19685506 GTCATTTTACCCTATAG-GGGTATTTTG
1 GTCATTTTACCC-ATAGAGGGTATTTTG
* * * * **
19685533 GTTATTTTACCCTTCGGGGGTATTTCA
1 GTCATTTTACCCATAGAGGGTATTTTG
* * *
19685560 ATCATTTTACCCATGGAGAGTATTTTG
1 GTCATTTTACCCATAGAGGGTATTTTG
* *
19685587 ATCATTTTACCCATTGAGGGTATTTCT-
1 GTCATTTTACCCATAGAGGGTATTT-TG
* * *
19685614 GTCATTTTATCCATCGAGGGTATTTCG
1 GTCATTTTACCCATAGAGGGTATTTTG
* *
19685641 ATCATTTTACCCATCGAGGGTATTTTG
1 GTCATTTTACCCATAGAGGGTATTTTG
* * *
19685668 GTCAGTTTAACCATTGAGGGTATTTTG
1 GTCATTTTACCCATAGAGGGTATTTTG
* *
19685695 GTCATTTAACCCATCA-AGGGTATTTCG
1 GTCATTTTACCCAT-AGAGGGTATTTTG
* * * **
19685722 ATCATTTTATCCATCGAGGGTATTTCA
1 GTCATTTTACCCATAGAGGGTATTTTG
* * * * * **
19685749 ATTATTTTACCAATTGATGGTATTTCA
1 GTCATTTTACCCATAGAGGGTATTTTG
* * * *
19685776 GTCATTTTATCCATCGAGGGAATTTCG
1 GTCATTTTACCCATAGAGGGTATTTTG
* *
19685803 ATCATTTTACCCATCGAGGGTATTTCT-
1 GTCATTTTACCCATAGAGGGTATTT-TG
* * * *
19685830 ATTATTTTACCTATCGAGGGTATTTTG
1 GTCATTTTACCCATAGAGGGTATTTTG
* *
19685857 GTCATTTTATCCATCA-AGGGTATTTCG
1 GTCATTTTACCCAT-AGAGGGTATTTTG
* *
19685884 ATCATTTTACCCATCGAGGGT-TTTTCG
1 GTCATTTTACCCATAGAGGGTATTTT-G
19685911 GTCATTTT-CCCAT
1 GTCATTTTACCCAT
19685924 GAATCGCAAG
Statistics
Matches: 315, Mismatches: 66, Indels: 21
0.78 0.16 0.05
Matches are distributed among these distances:
26 11 0.03
27 303 0.96
28 1 0.00
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.42
Consensus pattern (27 bp):
GTCATTTTACCCATAGAGGGTATTTTG
Found at i:19685565 original size:54 final size:54
Alignment explanation
Indices: 19685507--19685923 Score: 439
Period size: 54 Copynumber: 7.7 Consensus size: 54
19685497 GGTATAACAG
* * * * * *
19685507 TCATTTTACCCTATAG-GGGTATTTTGGTTATTTTACCCTTCGGGGGTATTTCAA
1 TCATTTTACCC-ATCGAGGGTATTTTGATCATTTTACCCATCGAGGGTATTTCGA
* * *
19685561 TCATTTTACCCATGGAGAGTATTTTGATCATTTTACCCATTGAGGGTATTTCTG-
1 TCATTTTACCCATCGAGGGTATTTTGATCATTTTACCCATCGAGGGTATTTC-GA
* * * *
19685615 TCATTTTATCCATCGAGGGTATTTCGATCATTTTACCCATCGAGGGTATTTTGG
1 TCATTTTACCCATCGAGGGTATTTTGATCATTTTACCCATCGAGGGTATTTCGA
* * * * * *
19685669 TCAGTTTAACCATTGAGGGTATTTTGGTCATTTAACCCATCAAGGGTATTTCGA
1 TCATTTTACCCATCGAGGGTATTTTGATCATTTTACCCATCGAGGGTATTTCGA
* ** * * * *
19685723 TCATTTTATCCATCGAGGGTATTTCAATTATTTTACCAATTGATGGTATTTC-A
1 TCATTTTACCCATCGAGGGTATTTTGATCATTTTACCCATCGAGGGTATTTCGA
* * * *
19685776 GTCATTTTATCCATCGAGGGAATTTCGATCATTTTACCCATCGAGGGTATTTCTA
1 -TCATTTTACCCATCGAGGGTATTTTGATCATTTTACCCATCGAGGGTATTTCGA
* * * * *
19685831 TTATTTTACCTATCGAGGGTATTTTGGTCATTTTATCCATCAAGGGTATTTCGA
1 TCATTTTACCCATCGAGGGTATTTTGATCATTTTACCCATCGAGGGTATTTCGA
*
19685885 TCATTTTACCCATCGAGGGT-TTTTCGGTCATTTT-CCCAT
1 TCATTTTACCCATCGAGGGTATTTT-GATCATTTTACCCAT
19685924 GAATCGCAAG
Statistics
Matches: 304, Mismatches: 53, Indels: 13
0.82 0.14 0.04
Matches are distributed among these distances:
53 13 0.04
54 290 0.95
55 1 0.00
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.42
Consensus pattern (54 bp):
TCATTTTACCCATCGAGGGTATTTTGATCATTTTACCCATCGAGGGTATTTCGA
Found at i:19685621 original size:81 final size:81
Alignment explanation
Indices: 19685507--19685923 Score: 511
Period size: 81 Copynumber: 5.2 Consensus size: 81
19685497 GGTATAACAG
* * * * * *
19685507 TCATTTTACCCTATAG-GGGTATTTTGGTTATTTTACCCTTCGGGGGTATTTCAATCATTTTACC
1 TCATTTTACCC-ATTGAGGGTATTTTGGTCATTTTATCCATCGAGGGTATTTCGATCATTTTACC
* *
19685571 CATGGAGAGTATTTTGA
65 CATCGAGGGTATTTTGA
19685588 TCATTTTACCCATTGAGGGTATTTCT-GTCATTTTATCCATCGAGGGTATTTCGATCATTTTACC
1 TCATTTTACCCATTGAGGGTATTT-TGGTCATTTTATCCATCGAGGGTATTTCGATCATTTTACC
*
19685652 CATCGAGGGTATTTTGG
65 CATCGAGGGTATTTTGA
* * * * * *
19685669 TCAGTTTAACCATTGAGGGTATTTTGGTCATTTAACCCATCAAGGGTATTTCGATCATTTTATCC
1 TCATTTTACCCATTGAGGGTATTTTGGTCATTTTATCCATCGAGGGTATTTCGATCATTTTACCC
**
19685734 ATCGAGGGTATTTCAA
66 ATCGAGGGTATTTTGA
* * * ** *
19685750 TTATTTTACCAATTGATGGTATTTCAGTCATTTTATCCATCGAGGGAATTTCGATCATTTTACCC
1 TCATTTTACCCATTGAGGGTATTTTGGTCATTTTATCCATCGAGGGTATTTCGATCATTTTACCC
19685815 ATCGAGGGTATTTCT-A
66 ATCGAGGGTATTT-TGA
* * * *
19685831 TTATTTTACCTATCGAGGGTATTTTGGTCATTTTATCCATCAAGGGTATTTCGATCATTTTACCC
1 TCATTTTACCCATTGAGGGTATTTTGGTCATTTTATCCATCGAGGGTATTTCGATCATTTTACCC
*
19685896 ATCGAGGGT-TTTTCGG
66 ATCGAGGGTATTTT-GA
19685912 TCATTTT-CCCAT
1 TCATTTTACCCAT
19685924 GAATCGCAAG
Statistics
Matches: 289, Mismatches: 41, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
79 1 0.00
80 11 0.04
81 276 0.96
82 1 0.00
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.42
Consensus pattern (81 bp):
TCATTTTACCCATTGAGGGTATTTTGGTCATTTTATCCATCGAGGGTATTTCGATCATTTTACCC
ATCGAGGGTATTTTGA
Found at i:19689694 original size:19 final size:19
Alignment explanation
Indices: 19689670--19689776 Score: 162
Period size: 19 Copynumber: 5.6 Consensus size: 19
19689660 AATCTTTAGG
19689670 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
19689689 GATATGCAATCTTAGATA-
1 GATATGCAATCTTAGATAT
**
19689707 GAATATATAATCTTAGATAT
1 G-ATATGCAATCTTAGATAT
19689727 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
19689746 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
19689765 GATATGCAATCT
1 GATATGCAATCT
19689777 CAGAAGATAT
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
18 1 0.01
19 76 0.97
20 1 0.01
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:19689720 original size:38 final size:38
Alignment explanation
Indices: 19689677--19689776 Score: 184
Period size: 38 Copynumber: 2.6 Consensus size: 38
19689667 AGGGATATGC
19689677 AATCTTAGATATGATATGCAATCTTAGATA-GAATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATG-ATATAT
19689715 AATCTTAGATATGATATGCAATCTTAGATATGATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATGATATAT
19689753 AATCTTAGATATGATATGCAATCT
1 AATCTTAGATATGATATGCAATCT
19689777 CAGAAGATAT
Statistics
Matches: 61, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
38 60 0.98
39 1 0.02
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.38
Consensus pattern (38 bp):
AATCTTAGATATGATATGCAATCTTAGATATGATATAT
Found at i:19694417 original size:39 final size:40
Alignment explanation
Indices: 19694252--19694469 Score: 246
Period size: 40 Copynumber: 5.5 Consensus size: 40
19694242 GCTACTCGTT
* * *
19694252 CAAATGCCTTCGGGACATAGCCC-GGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCAGATT-TAGTAACTCGCA
19694292 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCA
*
19694332 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCA
* * * * *
19694372 CCAATGCCTTTGGG-CTTAGCCCAGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCA
** * * * *
19694411 CAAATGCCTTC-GGATCTTAGTCCAGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCAGATTTAGTAAC-TCGCA
19694452 CAAA-GCCTTCGGGACTTA
1 CAAATGCCTTCGGGACTTA
19694470 GCCCGGACAT
Statistics
Matches: 154, Mismatches: 19, Indels: 10
0.84 0.10 0.05
Matches are distributed among these distances:
38 2 0.01
39 30 0.19
40 108 0.70
41 14 0.09
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCA
Found at i:19694460 original size:79 final size:79
Alignment explanation
Indices: 19694252--19694473 Score: 241
Period size: 79 Copynumber: 2.8 Consensus size: 79
19694242 GCTACTCGTT
* * * * * *
19694252 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAG
1 CAAATGCCTTCGGGACTTAACCCAGATATAGTAACTAGCACAAA-GCCTTCGGGACTTAGCCCAG
*
19694317 ATTTAGTAACTCGCA
65 AATTAGTAACTCGCA
* * * * *
19694332 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTTGGG-CTTAGCCCAG
1 CAAATGCCTTCGGGACTTAACCCAGATATAGTAACTAGCA-CAAAGCCTTCGGGACTTAGCCCAG
*
19694396 AATTAGTATCTCGCA
65 AATTAGTAACTCGCA
** * *
19694411 CAAATGCCTTC-GGATCTTAGTCCAGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAACCCAGATATAGTAAC-TAGCACAAAGCCTTCGGGACTTAGCCC
19694474 GGACATCATT
Statistics
Matches: 120, Mismatches: 18, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
78 3 0.03
79 58 0.48
80 56 0.47
81 3 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAACCCAGATATAGTAACTAGCACAAAGCCTTCGGGACTTAGCCCAGA
ATTAGTAACTCGCA
Found at i:19701044 original size:132 final size:132
Alignment explanation
Indices: 19700136--19701030 Score: 1490
Period size: 132 Copynumber: 6.8 Consensus size: 132
19700126 TTGACAGCGA
* *
19700136 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGGGTGCATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * *
19700201 TTTACTTCCCTCGACAACAGTGGAATAGATTAAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
19700266 GG
131 GG
* * * *
19700268 AGCAGATCGAAGATGGCGGATTTTACCTTCCTGTGGTTATAGTGGAGTACATTGAAGCCAGCAAG
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* *
19700333 TCTACTTCCCTGGGCAACAATGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
19700398 GG
131 GG
*
19700400 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
*
19700465 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
19700530 GG
131 GG
* *
19700532 ATCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTAAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * * *
19700597 TCTACTTCTCTGGACAACACTGGAATAGATTAAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
19700662 GG
131 GG
19700664 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
19700729 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
19700794 GG
131 GG
* *
19700796 AGCAGATCGAGGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
19700861 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
*
19700926 GT
131 GG
* * *
19700928 AGCAGATCGAAGATGACAGATTTTACCTTCCTGTGGTTACAGTGGAGT-CAATTGAAGCCAGTAA
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTAC-ATTGAAGCCAGTAA
* * *
19700992 -TCATA-TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATT
65 TTC-TACT-TCCCTGGACAACAGTGGAATAGATTGAAGATT
19701031 GTAACTCCTA
Statistics
Matches: 720, Mismatches: 40, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
131 4 0.01
132 716 0.99
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (132 bp):
AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
GG
Found at i:19701385 original size:36 final size:36
Alignment explanation
Indices: 19701345--19701448 Score: 120
Period size: 38 Copynumber: 2.8 Consensus size: 36
19701335 TTGTGGAAAC
19701345 ATAATCTTCAG-GGATATACAATCTTAGATATAATAT
1 ATAATCTT-AGAGGATATACAATCTTAGATATAATAT
* *
19701381 ATAATCTTAGATATGATATACAATCTTAGATATGATAT
1 ATAATCTTAG--AGGATATACAATCTTAGATATAATAT
* *
19701419 ATAATCTTAGATATGATATGCAATCTTAGA
1 ATAATCTTAG--AGGATATACAATCTTAGA
19701449 AGATAAGATT
Statistics
Matches: 62, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
35 2 0.03
36 8 0.13
38 52 0.84
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.38
Consensus pattern (36 bp):
ATAATCTTAGAGGATATACAATCTTAGATATAATAT
Found at i:19701386 original size:19 final size:19
Alignment explanation
Indices: 19701357--19701448 Score: 148
Period size: 19 Copynumber: 4.8 Consensus size: 19
19701347 AATCTTCAGG
19701357 GATATACAATCTTAGATAT
1 GATATACAATCTTAGATAT
* *
19701376 AATATATAATCTTAGATAT
1 GATATACAATCTTAGATAT
19701395 GATATACAATCTTAGATAT
1 GATATACAATCTTAGATAT
*
19701414 GATATATAATCTTAGATAT
1 GATATACAATCTTAGATAT
*
19701433 GATATGCAATCTTAGA
1 GATATACAATCTTAGA
19701449 AGATAAGATT
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 66 1.00
ACGTcount: A:0.42, C:0.09, G:0.11, T:0.38
Consensus pattern (19 bp):
GATATACAATCTTAGATAT
Found at i:19701402 original size:38 final size:38
Alignment explanation
Indices: 19701357--19701448 Score: 166
Period size: 38 Copynumber: 2.4 Consensus size: 38
19701347 AATCTTCAGG
19701357 GATATACAATCTTAGATATAATATATAATCTTAGATAT
1 GATATACAATCTTAGATATAATATATAATCTTAGATAT
*
19701395 GATATACAATCTTAGATATGATATATAATCTTAGATAT
1 GATATACAATCTTAGATATAATATATAATCTTAGATAT
*
19701433 GATATGCAATCTTAGA
1 GATATACAATCTTAGA
19701449 AGATAAGATT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 52 1.00
ACGTcount: A:0.42, C:0.09, G:0.11, T:0.38
Consensus pattern (38 bp):
GATATACAATCTTAGATATAATATATAATCTTAGATAT
Found at i:19708344 original size:50 final size:50
Alignment explanation
Indices: 19708269--19708404 Score: 202
Period size: 50 Copynumber: 2.7 Consensus size: 50
19708259 GTGAAGTTGC
* *
19708269 TAGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATG-A
1 TAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAG-ATGAA
* *
19708319 TAGGTCGCATGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGATGAA
1 TAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATGAA
*
19708369 AATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
1 TA-GGTCACATGTGTAGTACTATGTGCAGGCTACTA
19708405 TGTGAATCGG
Statistics
Matches: 78, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
49 3 0.04
50 43 0.55
51 32 0.41
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (50 bp):
TAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATGAA
Found at i:19708408 original size:26 final size:26
Alignment explanation
Indices: 19708327--19708408 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 26
19708317 GATAGGTCGC
19708327 ATGTGTAGTACTATGTGCAGGCTACT
1 ATGTGTAGTACTATGTGCAGGCTACT
* * ***
19708353 ACGTGTA-T-CAGATGAAAATGG-TCAC-
1 ATGTGTAGTAC-TATGTGCA-GGCT-ACT
19708378 ATGTGTAGTACTATGTGCAGGCTACT
1 ATGTGTAGTACTATGTGCAGGCTACT
19708404 ATGTG
1 ATGTG
19708409 AATCGGGTAT
Statistics
Matches: 39, Mismatches: 10, Indels: 14
0.62 0.16 0.22
Matches are distributed among these distances:
24 1 0.03
25 16 0.41
26 21 0.54
27 1 0.03
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.32
Consensus pattern (26 bp):
ATGTGTAGTACTATGTGCAGGCTACT
Found at i:19718792 original size:12 final size:12
Alignment explanation
Indices: 19718775--19718799 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19718765 AGCCATAACC
19718775 CCGATACAACAG
1 CCGATACAACAG
19718787 CCGATACAACAG
1 CCGATACAACAG
19718799 C
1 C
19718800 AAAACTATCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.36, G:0.16, T:0.08
Consensus pattern (12 bp):
CCGATACAACAG
Found at i:19725556 original size:39 final size:40
Alignment explanation
Indices: 19725399--19725623 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 40
19725389 GCTCCTCGTT
* *
19725399 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
19725439 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
19725479 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
19725519 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* ** * * * *
19725558 CAAATACCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
19725599 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
19725624 CATCATTCAA
Statistics
Matches: 161, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
38 2 0.01
39 31 0.19
40 115 0.71
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:19725583 original size:119 final size:120
Alignment explanation
Indices: 19725401--19725623 Score: 283
Period size: 119 Copynumber: 1.9 Consensus size: 120
19725391 TCCTCGTTCA
* *
19725401 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATACCTTCGGGACTTAACCCGGAT
* * *
19725466 TTAGTAAC-TCGCACAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAA-AGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
19725521 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATACCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATACCTTCGGGA-CTTAACCCGG
* * *
19725583 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
19725624 CATCATTCAA
Statistics
Matches: 88, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
118 4 0.05
119 65 0.74
120 19 0.22
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATACCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:19732803 original size:28 final size:27
Alignment explanation
Indices: 19732754--19732812 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 27
19732744 TCTCTTAATC
*
19732754 AAAAAGGAAAATAATGAAAT-AATGAAA
1 AAAAAGGAAAATAATAAAATAAAT-AAA
* *
19732781 AAAAAGTAAAATCATAATAATAAATAAA
1 AAAAAGGAAAATAATAA-AATAAATAAA
19732809 AAAA
1 AAAA
19732813 TTAGAACATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 14 0.52
28 10 0.37
29 3 0.11
ACGTcount: A:0.73, C:0.02, G:0.08, T:0.17
Consensus pattern (27 bp):
AAAAAGGAAAATAATAAAATAAATAAA
Found at i:19736458 original size:27 final size:27
Alignment explanation
Indices: 19736436--19736820 Score: 405
Period size: 27 Copynumber: 14.3 Consensus size: 27
19736426 AGGGGTATAA
*
19736436 CAGTCATTTTACCTTATGAGGGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTT
*
19736463 CAGTCATTTTACCCTATGAAGGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTT
19736490 C-GATCATTTTACCCTATG-GGGTTATTT
1 CAG-TCATTTTACCCTATGAGGG-TATTT
* * *
19736517 CGGTTATTTTACCCTATAAGGGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTT
*
19736544 C-GATTATTTTACCCTATG-GGGTATTT
1 CAG-TCATTTTACCCTATGAGGGTATTT
* * *
19736570 TAGTTAATTTACCCTATGAGGGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTT
* *
19736597 CGGTCATTTTACCTTAT-AGGGGTA-TT
1 CAGTCATTTTACCCTATGA-GGGTATTT
* *
19736623 CTGATCATTTTACCCTATGGGGGTATTT
1 CAG-TCATTTTACCCTATGAGGGTATTT
*
19736651 TAGTCATTTTACCCTATG-GGGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTT
19736677 CAGTCATTTTACCCTAT-AGGGGTATTT
1 CAGTCATTTTACCCTATGA-GGGTATTT
* * *
19736704 CGGTCATTTTACCTTACGAGGGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTT
* *
19736731 CAGTTATTTTGCCCTAT-AGGGGTATTT
1 CAGTCATTTTACCCTATGA-GGGTATTT
* *
19736758 CGGTCATTTTATCCTATG-GGAGTATTT
1 CAGTCATTTTACCCTATGAGG-GTATTT
19736785 C-GATCATTTTACCCTATGAGGGTATTT
1 CAG-TCATTTTACCCTATGAGGGTATTT
**
19736812 TGGTCATTT
1 CAGTCATTT
19736821 ATCGACCTCT
Statistics
Matches: 305, Mismatches: 33, Indels: 40
0.81 0.09 0.11
Matches are distributed among these distances:
26 59 0.19
27 235 0.77
28 11 0.04
ACGTcount: A:0.21, C:0.16, G:0.20, T:0.44
Consensus pattern (27 bp):
CAGTCATTTTACCCTATGAGGGTATTT
Found at i:19736487 original size:54 final size:53
Alignment explanation
Indices: 19736438--19736820 Score: 459
Period size: 54 Copynumber: 7.1 Consensus size: 53
19736428 GGGTATAACA
* *
19736438 GTCATTTTACCTTATGAGGGTATTTCAGTCATTTTACCCTATGAAGGTATTTCG
1 GTCATTTTACCCTATG-GGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCG
* * * *
19736492 ATCATTTTACCCTATGGGGTTATTTCGGTTATTTTACCCTATAAGGGTATTTCG
1 GTCATTTTACCCTATGGGG-TATTTCAGTCATTTTACCCTATGAGGGTATTTCG
* * * * *
19736546 ATTATTTTACCCTATGGGGTATTTTAGTTAATTTACCCTATGAGGGTATTTCG
1 GTCATTTTACCCTATGGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCG
* * * **
19736599 GTCATTTTACCTTATAGGGGTA-TTCTGATCATTTTACCCTATGGGGGTATTTTA
1 GTCATTTTACCCTAT-GGGGTATTTCAG-TCATTTTACCCTATGAGGGTATTTCG
19736653 GTCATTTTACCCTATGGGGTATTTCAGTCATTTTACCCTAT-AGGGGTATTTCG
1 GTCATTTTACCCTATGGGGTATTTCAGTCATTTTACCCTATGA-GGGTATTTCG
* * * *
19736706 GTCATTTTACCTTACGAGGGTATTTCAGTTATTTTGCCCTAT-AGGGGTATTTCG
1 GTCATTTTACCCTATG-GGGTATTTCAGTCATTTTACCCTATGA-GGGTATTTCG
* *
19736760 GTCATTTTATCCTATGGGAGTATTTC-GATCATTTTACCCTATGAGGGTATTTTG
1 GTCATTTTACCCTATGGG-GTATTTCAG-TCATTTTACCCTATGAGGGTATTTCG
19736814 GTCATTT
1 GTCATTT
19736821 ATCGACCTCT
Statistics
Matches: 284, Mismatches: 36, Indels: 18
0.84 0.11 0.05
Matches are distributed among these distances:
53 93 0.33
54 190 0.67
55 1 0.00
ACGTcount: A:0.20, C:0.16, G:0.20, T:0.44
Consensus pattern (53 bp):
GTCATTTTACCCTATGGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCG
Found at i:19736633 original size:107 final size:105
Alignment explanation
Indices: 19736439--19736820 Score: 473
Period size: 107 Copynumber: 3.6 Consensus size: 105
19736429 GGTATAACAG
* * * *
19736439 TCATTTTACCTTATGAGGGTATTTCAGTCATTTTACCCTATGAAGGTATTTCGATCATTTTACCC
1 TCATTTTACCCTATG-GGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCGGTCATTTTACCT
* *
19736504 TATGGGGTTATTTCGGTTATTTTACCCTATAAGGGTATTTCGA
65 TATGGGG-TATTT-GATTATTTTACCCTATAGGGGTATTTCGA
* * * *
19736547 TTATTTTACCCTATGGGGTATTTTAGTTAATTTACCCTATGAGGGTATTTCGGTCATTTTACCTT
1 TCATTTTACCCTATGGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCGGTCATTTTACCTT
* * *
19736612 ATAGGGGTATTCTGATCATTTTACCCTATGGGGGTATTT-TA
66 AT-GGGGTATT-TGATTATTTTACCCTATAGGGGTATTTCGA
19736653 GTCATTTTACCCTATGGGGTATTTCAGTCATTTTACCCTAT-AGGGGTATTTCGGTCATTTTACC
1 -TCATTTTACCCTATGGGGTATTTCAGTCATTTTACCCTATGA-GGGTATTTCGGTCATTTTACC
* * * *
19736717 TTACGAGGGTATTTCAGTTATTTTGCCCTATAGGGGTATTTCGG
64 TTATG-GGGTATTTGA-TTATTTTACCCTATAGGGGTATTTCGA
* *
19736761 TCATTTTATCCTATGGGAGTATTTC-GATCATTTTACCCTATGAGGGTATTTTGGTCATTT
1 TCATTTTACCCTATGGG-GTATTTCAG-TCATTTTACCCTATGAGGGTATTTCGGTCATTT
19736821 ATCGACCTCT
Statistics
Matches: 238, Mismatches: 26, Indels: 20
0.84 0.09 0.07
Matches are distributed among these distances:
106 5 0.02
107 177 0.74
108 55 0.23
109 1 0.00
ACGTcount: A:0.20, C:0.16, G:0.20, T:0.44
Consensus pattern (105 bp):
TCATTTTACCCTATGGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCGGTCATTTTACCTT
ATGGGGTATTTGATTATTTTACCCTATAGGGGTATTTCGA
Found at i:19740453 original size:33 final size:32
Alignment explanation
Indices: 19740382--19740457 Score: 84
Period size: 33 Copynumber: 2.3 Consensus size: 32
19740372 ACTTTCCCCC
19740382 TCTCTA-TTTTCTCTCAATCTCTCTTTCAATT
1 TCTCTATTTTTCTCTCAATCTCTCTTTCAATT
* * *
19740413 TCTTCTATTTTTCTTTGCAGTCTCT-TTTCCATTT
1 TC-TCTATTTTTCTCT-CAATCTCTCTTT-CAATT
19740447 TCTCTATTTTT
1 TCTCTATTTTT
19740458 TATTTAGTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
31 2 0.05
32 4 0.11
33 19 0.50
34 13 0.34
ACGTcount: A:0.12, C:0.25, G:0.03, T:0.61
Consensus pattern (32 bp):
TCTCTATTTTTCTCTCAATCTCTCTTTCAATT
Found at i:19746529 original size:21 final size:21
Alignment explanation
Indices: 19746505--19746556 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
19746495 AGTGTGTTCC
*
19746505 TTTTATGTTGATTG-TTTTAG
1 TTTTATGTTGAATGCTTTTAG
*
19746525 ATTTTCTTGTTGAATGCTTTTAG
1 -TTTT-ATGTTGAATGCTTTTAG
*
19746548 TTTCATGTT
1 TTTTATGTT
19746557 ATTTAAGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 8 0.32
22 11 0.44
23 6 0.24
ACGTcount: A:0.15, C:0.06, G:0.17, T:0.62
Consensus pattern (21 bp):
TTTTATGTTGAATGCTTTTAG
Found at i:19748652 original size:31 final size:30
Alignment explanation
Indices: 19748602--19748683 Score: 83
Period size: 31 Copynumber: 2.7 Consensus size: 30
19748592 TCTCTATGTA
* * *
19748602 AGTGGACGGTTTGCATGATTTAAGGAAGATT
1 AGTGGACAGTTTGCTTGATTTAAGGAAGA-G
* * *
19748633 AGTGGACAGTTTTCTTGATTCAAGGGAGAG
1 AGTGGACAGTTTGCTTGATTTAAGGAAGAG
* *
19748663 GGTGGAAAGTTTGCTTGATTT
1 AGTGGACAGTTTGCTTGATTT
19748684 GTTGAAAATG
Statistics
Matches: 41, Mismatches: 10, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
30 17 0.41
31 24 0.59
ACGTcount: A:0.26, C:0.07, G:0.33, T:0.34
Consensus pattern (30 bp):
AGTGGACAGTTTGCTTGATTTAAGGAAGAG
Found at i:19752547 original size:10 final size:10
Alignment explanation
Indices: 19752528--19752560 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
19752518 AATAAGTTAC
19752528 TAAA-AAAAA
1 TAAATAAAAA
*
19752537 TAGATAAAAA
1 TAAATAAAAA
19752547 TAAATAAAAA
1 TAAATAAAAA
19752557 TAAA
1 TAAA
19752561 AATTATATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 3 0.14
10 18 0.86
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (10 bp):
TAAATAAAAA
Found at i:19755897 original size:20 final size:20
Alignment explanation
Indices: 19755872--19755957 Score: 63
Period size: 20 Copynumber: 4.3 Consensus size: 20
19755862 CTTATACTGG
19755872 TTGCACTTCAGTGCCCCTGA
1 TTGCACTTCAGTGCCCCTGA
* **
19755892 TTGCAC-TCTAGTGCCCTTTT
1 TTGCACTTC-AGTGCCCCTGA
** *
19755912 TTATACTTTAGTG-CCCT-A
1 TTGCACTTCAGTGCCCCTGA
19755930 TTTGCACTTC-GATGCCCCTGA
1 -TTGCACTTCAG-TGCCCCTGA
19755951 TTGCACT
1 TTGCACT
19755958 CTGGTGCCCC
Statistics
Matches: 49, Mismatches: 11, Indels: 12
0.68 0.15 0.17
Matches are distributed among these distances:
18 1 0.02
19 13 0.27
20 33 0.67
21 2 0.04
ACGTcount: A:0.15, C:0.30, G:0.16, T:0.38
Consensus pattern (20 bp):
TTGCACTTCAGTGCCCCTGA
Found at i:19757897 original size:11 final size:11
Alignment explanation
Indices: 19757883--19757919 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
19757873 CATATATAAC
19757883 AATATTAAAAT
1 AATATTAAAAT
19757894 AATATTAAAAT
1 AATATTAAAAT
19757905 AATA--AAAAT
1 AATATTAAAAT
19757914 AATATT
1 AATATT
19757920 TGTAATAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 9 0.38
11 15 0.62
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
AATATTAAAAT
Found at i:19759254 original size:29 final size:30
Alignment explanation
Indices: 19759216--19759296 Score: 80
Period size: 29 Copynumber: 2.8 Consensus size: 30
19759206 ATTAATATAT
*
19759216 TATGA-AGAAAATATTAAAATATTATTAAA
1 TATGATAGAAAATATTAAAAAATTATTAAA
** *
19759245 -ATTTTAGAAATTA-TAGAAAAATTATTAAA
1 TATGATAGAAAATATTA-AAAAATTATTAAA
19759274 TATGATA-AAAATATTAAACAAAT
1 TATGATAGAAAATATTAAA-AAAT
19759297 ACAAAACTTA
Statistics
Matches: 40, Mismatches: 7, Indels: 9
0.71 0.12 0.16
Matches are distributed among these distances:
28 4 0.10
29 26 0.65
30 10 0.25
ACGTcount: A:0.58, C:0.01, G:0.06, T:0.35
Consensus pattern (30 bp):
TATGATAGAAAATATTAAAAAATTATTAAA
Found at i:19759915 original size:17 final size:17
Alignment explanation
Indices: 19759895--19759940 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
19759885 AGATTAATTA
*
19759895 TATAAATTATTTAATAT
1 TATAAATTATTTAAAAT
* *
19759912 TATAAAATAATTAAAAT
1 TATAAATTATTTAAAAT
*
19759929 TACAAATTATTT
1 TATAAATTATTT
19759941 TATAAATTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (17 bp):
TATAAATTATTTAAAAT
Found at i:19759958 original size:9 final size:9
Alignment explanation
Indices: 19759938--19760028 Score: 56
Period size: 10 Copynumber: 9.0 Consensus size: 9
19759928 TTACAAATTA
19759938 TTTTATAAAT
1 TTTTAT-AAT
*
19759948 TTTTATCAT
1 TTTTATAAT
*
19759957 TTTAATAAT
1 TTTTATAAT
*
19759966 TTTTATGTTAT
1 TTTTA--TAAT
19759977 TTTCTATAAATT
1 TTT-TAT-AA-T
*
19759989 TTTCTATATT
1 TTT-TATAAT
19759999 TTTTATAAT
1 TTTTATAAT
19760008 ATTTCTATAAT
1 -TTT-TATAAT
19760019 TTTTAATAAT
1 TTTT-ATAAT
19760029 CAATCAATTG
Statistics
Matches: 65, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
9 19 0.29
10 22 0.34
11 14 0.22
12 10 0.15
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.63
Consensus pattern (9 bp):
TTTTATAAT
Found at i:19759989 original size:11 final size:10
Alignment explanation
Indices: 19759975--19760021 Score: 51
Period size: 11 Copynumber: 4.5 Consensus size: 10
19759965 TTTTTATGTT
19759975 ATTTTCTATAA
1 ATTTTCTAT-A
19759986 ATTTTTCTAT-
1 A-TTTTCTATA
*
19759996 ATTTTTTATA
1 ATTTTCTATA
19760006 ATATTTCTATA
1 AT-TTTCTATA
19760017 ATTTT
1 ATTTT
19760022 TAATAATCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
9 7 0.23
10 6 0.19
11 10 0.32
12 8 0.26
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (10 bp):
ATTTTCTATA
Found at i:19759993 original size:12 final size:11
Alignment explanation
Indices: 19759976--19760022 Score: 62
Period size: 10 Copynumber: 4.4 Consensus size: 11
19759966 TTTTATGTTA
19759976 TTTTCTATAAAT
1 TTTTCTAT-AAT
19759988 TTTTCTAT-AT
1 TTTTCTATAAT
19759998 TTTT-TATAAT
1 TTTTCTATAAT
*
19760008 ATTTCTATAAT
1 TTTTCTATAAT
19760019 TTTT
1 TTTT
19760023 AATAATCAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
9 3 0.10
10 11 0.35
11 9 0.29
12 8 0.26
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (11 bp):
TTTTCTATAAT
Found at i:19760022 original size:21 final size:20
Alignment explanation
Indices: 19759974--19760028 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
19759964 ATTTTTATGT
* *
19759974 TATTTTCTATAAATTTTTCTA
1 TATTTTTTAT-AATATTTCTA
19759995 TATTTTTTATAATATTTCTA
1 TATTTTTTATAATATTTCTA
*
19760015 TAATTTTTAATAAT
1 T-ATTTTTTATAAT
19760029 CAATCAATTG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 10 0.33
21 20 0.67
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (20 bp):
TATTTTTTATAATATTTCTA
Found at i:19768297 original size:20 final size:20
Alignment explanation
Indices: 19768272--19768313 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
19768262 AACTATTTAA
* *
19768272 ATAATATTACTTGAATAGTT
1 ATAATATTAATTGAATAATT
19768292 ATAATATTAATTGAATAATT
1 ATAATATTAATTGAATAATT
19768312 AT
1 AT
19768314 GTGTTTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.02, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAATTGAATAATT
Found at i:19769923 original size:6 final size:6
Alignment explanation
Indices: 19769914--19769944 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
19769904 AGAGAATTCA
19769914 AGATGC AGATGC AGATGC AGATGC AGATGC A
1 AGATGC AGATGC AGATGC AGATGC AGATGC A
19769945 ACTTTGATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.35, C:0.16, G:0.32, T:0.16
Consensus pattern (6 bp):
AGATGC
Found at i:19771003 original size:17 final size:17
Alignment explanation
Indices: 19770983--19771015 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
19770973 AAAATAAATA
*
19770983 AAGACATAAAAAATAAC
1 AAGAAATAAAAAATAAC
19771000 AAGAAATAAAAAATAA
1 AAGAAATAAAAAATAA
19771016 AAATAATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.06, G:0.06, T:0.12
Consensus pattern (17 bp):
AAGAAATAAAAAATAAC
Found at i:19771105 original size:4 final size:4
Alignment explanation
Indices: 19771096--19771121 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
19771086 AAAAAGGAGT
19771096 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
19771122 ATTTGTAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:19774433 original size:5 final size:5
Alignment explanation
Indices: 19774412--19774488 Score: 81
Period size: 5 Copynumber: 15.4 Consensus size: 5
19774402 TTACTTTATT
19774412 TAATA TATATAA TAATA TAATA TAATA TAAT- TAATA TAAT- TAATA TAATA
1 TAATA TA-AT-A TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
*
19774462 TATTATA TTATA TAATA -AA-A TAATA TA
1 TA--ATA TAATA TAATA TAATA TAATA TA
19774489 CATAACATAA
Statistics
Matches: 62, Mismatches: 2, Indels: 16
0.77 0.03 0.20
Matches are distributed among these distances:
3 1 0.02
4 12 0.19
5 38 0.61
6 4 0.06
7 7 0.11
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
TAATA
Found at i:19774498 original size:14 final size:13
Alignment explanation
Indices: 19774413--19774498 Score: 66
Period size: 14 Copynumber: 6.4 Consensus size: 13
19774403 TACTTTATTT
19774413 AATATATATAATAA
1 AATA-ATATAATAA
*
19774427 TATAATATAATATA
1 AATAATATAATA-A
*
19774441 ATTAATATAATTAA
1 AATAATATAA-TAA
* *
19774455 TATAATAT-ATTA
1 AATAATATAATAA
* *
19774467 TATTATATAATAA
1 AATAATATAATAA
19774480 AATAATATACATAA
1 AATAATATA-ATAA
*
19774494 CATAA
1 AATAA
19774499 AAATCTCATA
Statistics
Matches: 57, Mismatches: 11, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
12 9 0.16
13 19 0.33
14 27 0.47
15 2 0.04
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (13 bp):
AATAATATAATAA
Found at i:19775619 original size:42 final size:41
Alignment explanation
Indices: 19775490--19775641 Score: 148
Period size: 43 Copynumber: 3.6 Consensus size: 41
19775480 GTGGATTCAG
*
19775490 CACTTAGCAACCACC-ATAAATTCAGTGATACGAGGAATCAA
1 CACTTAGCAACC-CCTTTAAATTCAGTGATACGAGGAATCAA
* * * *
19775531 CACATAGCAACCCCTTTCACAATTAAG-GATTCGGTGGAATCAA
1 CACTTAGCAACCCCTTT-A-AATTCAGTGATAC-GAGGAATCAA
* *
19775574 CACTTAGCAACCACCTTTATATTCAGTGATAC-AGGGAATCGA
1 CACTTAGCAACC-CCTTTAAATTCAGTGATACGA-GGAATCAA
* *
19775616 CACTTAGCAACCCTTTTATATTCAGT
1 CACTTAGCAACCCCTTTAAATTCAGT
19775642 ATATTCCGGC
Statistics
Matches: 92, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
40 2 0.02
41 25 0.27
42 29 0.32
43 31 0.34
44 5 0.05
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.26
Consensus pattern (41 bp):
CACTTAGCAACCCCTTTAAATTCAGTGATACGAGGAATCAA
Found at i:19775782 original size:26 final size:26
Alignment explanation
Indices: 19775753--19775803 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
19775743 AGTCAATAAT
19775753 TCGGGGAATCAACACTTAGCAACCCC
1 TCGGGGAATCAACACTTAGCAACCCC
*
19775779 TCGGGGAATCACCACTTAGCAACCC
1 TCGGGGAATCAACACTTAGCAACCC
19775804 TTTTAGAGTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.20, T:0.16
Consensus pattern (26 bp):
TCGGGGAATCAACACTTAGCAACCCC
Found at i:19775836 original size:67 final size:67
Alignment explanation
Indices: 19775718--19775875 Score: 244
Period size: 67 Copynumber: 2.3 Consensus size: 67
19775708 ATACGGTGGG
* * ** *
19775718 ATCAGCACTTCGCAACCACCTTTAGAGTCAATAATTCGGGGAATCAACACTTAGCAACCCCTCGG
1 ATCAGCACTTAGCAACC-CTTTTAGAGTCAATAATTCACGGAATCAACACTTAGCAACCCCTCAG
19775783 GGA
65 GGA
* *
19775786 ATCACCACTTAGCAACCCTTTTAGAGTCAATAATTCACGGAATCAGCACTTAGCAACCCCTCAGG
1 ATCAGCACTTAGCAACCCTTTTAGAGTCAATAATTCACGGAATCAACACTTAGCAACCCCTCAGG
19775851 GA
66 GA
19775853 ATCAGCACTTAGCAACCCTTTTA
1 ATCAGCACTTAGCAACCCTTTTA
19775876 TATTCAGTAT
Statistics
Matches: 82, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
67 67 0.82
68 15 0.18
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.23
Consensus pattern (67 bp):
ATCAGCACTTAGCAACCCTTTTAGAGTCAATAATTCACGGAATCAACACTTAGCAACCCCTCAGG
GA
Found at i:19783302 original size:43 final size:43
Alignment explanation
Indices: 19783208--19783404 Score: 174
Period size: 43 Copynumber: 4.7 Consensus size: 43
19783198 CCATTACTCG
* * * * *
19783208 GTGGATTCAGCACTTAGCAACCACC-AT-A-AATTCAGTGATAT
1 GTGGAATCAGCACATAGCAACCACCTTTCACAATTAAG-GATAC
* *
19783249 GGGGAATCAGCACATAGCAACC-CCTTTCACAATTAAGGATTC
1 GTGGAATCAGCACATAGCAACCACCTTTCACAATTAAGGATAC
* * *
19783291 GATGGAATCAGCACTTAGCAACCACCTTT-A-TATTCAGTGATAC
1 G-TGGAATCAGCACATAGCAACCACCTTTCACAATTAAG-GATAC
* * * *
19783334 GGGGAATCAGCACTTAGCAACC-CCTTTCACAATCAAAGATAC
1 GTGGAATCAGCACATAGCAACCACCTTTCACAATTAAGGATAC
*
19783376 GGTGGGATCAGCACATAGCAACCACCTTT
1 -GTGGAATCAGCACATAGCAACCACCTTT
19783405 AGAGTCAATA
Statistics
Matches: 126, Mismatches: 20, Indels: 17
0.77 0.12 0.10
Matches are distributed among these distances:
40 2 0.02
41 25 0.20
42 36 0.29
43 53 0.42
44 10 0.08
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.23
Consensus pattern (43 bp):
GTGGAATCAGCACATAGCAACCACCTTTCACAATTAAGGATAC
Found at i:19783356 original size:85 final size:84
Alignment explanation
Indices: 19783208--19783481 Score: 331
Period size: 85 Copynumber: 3.3 Consensus size: 84
19783198 CCATTACTCG
* * *
19783208 GTGGATTCAGCACTTAGCAACCACC-ATAAATTCAGTGATATGGGGAATCAGCACATAGCAACCC
1 GTGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTGATATGGGGAATCAGCACTTAGCAACCC
*
19783272 CTTTCACAATTAAGGATTC
66 CTTTCACAATTAAAGATTC
* *
19783291 GATGGAATCAGCACTTAGCAACCACCTTTATATTCAGTGATACGGGGAATCAGCACTTAGCAACC
1 G-TGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTGATATGGGGAATCAGCACTTAGCAACC
* *
19783356 CCTTTCACAATCAAAGATAC
65 CCTTTCACAATTAAAGATTC
* * * * * * *
19783376 GGTGGGATCAGCACATAGCAACCACCTTTAGAGTCAATAATTTGGGGAATCAGCACTTAGCAACC
1 -GTGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTGATATGGGGAATCAGCACTTAGCAACC
*
19783441 CCTTT-A-GATTCAATA-ATTC
65 CCTTTCACAATT-AA-AGATTC
*
19783460 GGGGAATCAGCACTTAGCAACC
1 GTGGAATCAGCACTTAGCAACC
19783482 CCTCGGGGAA
Statistics
Matches: 164, Mismatches: 22, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
83 22 0.13
84 29 0.18
85 112 0.68
86 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (84 bp):
GTGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTGATATGGGGAATCAGCACTTAGCAACCC
CTTTCACAATTAAAGATTC
Found at i:19783457 original size:41 final size:41
Alignment explanation
Indices: 19783214--19783484 Score: 244
Period size: 41 Copynumber: 6.5 Consensus size: 41
19783204 CTCGGTGGAT
* * * *
19783214 TCAGCACTTAGCAACCACC-ATAAATTCAGTGATATGGGGAA
1 TCAGCACTTAGCAACC-CCTTTAAATTCAATAATACGGGGAA
* ** * *
19783255 TCAGCACATAGCAACCCCTTTCACAATT-AAGGATTCGATGGAA
1 TCAGCACTTAGCAACCCCTTT-A-AATTCAATAATACG-GGGAA
* * *
19783298 TCAGCACTTAGCAACCACCTTTATATTCAGTGATACGGGGAA
1 TCAGCACTTAGCAACC-CCTTTAAATTCAATAATACGGGGAA
*
19783340 TCAGCACTTAGCAACCCCTTTCACAA-TCAA-AGATACGGTGGGA
1 TCAGCACTTAGCAACCCCTTT-A-AATTCAATA-ATACGG-GGAA
* * * **
19783383 TCAGCACATAGCAACCACCTTTAGAGTCAATAATTTGGGGAA
1 TCAGCACTTAGCAACC-CCTTTAAATTCAATAATACGGGGAA
* *
19783425 TCAGCACTTAGCAACCCCTTTAGATTCAATAATTCGGGGAA
1 TCAGCACTTAGCAACCCCTTTAAATTCAATAATACGGGGAA
19783466 TCAGCACTTAGCAACCCCT
1 TCAGCACTTAGCAACCCCT
19783485 CGGGGAATCA
Statistics
Matches: 192, Mismatches: 25, Indels: 26
0.79 0.10 0.11
Matches are distributed among these distances:
40 2 0.01
41 63 0.33
42 58 0.30
43 58 0.30
44 11 0.06
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (41 bp):
TCAGCACTTAGCAACCCCTTTAAATTCAATAATACGGGGAA
Found at i:19783487 original size:26 final size:26
Alignment explanation
Indices: 19783458--19783508 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
19783448 ATTCAATAAT
*
19783458 TCGGGGAATCAGCACTTAGCAACCCC
1 TCGGGGAATCACCACTTAGCAACCCC
19783484 TCGGGGAATCACCACTTAGCAACCC
1 TCGGGGAATCACCACTTAGCAACCC
19783509 TTTCATATTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.27, C:0.35, G:0.22, T:0.16
Consensus pattern (26 bp):
TCGGGGAATCACCACTTAGCAACCCC
Found at i:19787946 original size:17 final size:17
Alignment explanation
Indices: 19787906--19787939 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
19787896 GAAAAAGAGA
19787906 AAATCAAATAAGAAATC
1 AAATCAAATAAGAAATC
19787923 AAATCAAATAAGAAATC
1 AAATCAAATAAGAAATC
19787940 GAGTCAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.65, C:0.12, G:0.06, T:0.18
Consensus pattern (17 bp):
AAATCAAATAAGAAATC
Found at i:19791950 original size:24 final size:24
Alignment explanation
Indices: 19791918--19791967 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
19791908 AAAGCATGTG
19791918 TTGAGAATCTTTAATTATTTGATA
1 TTGAGAATCTTTAATTATTTGATA
* *
19791942 TTGAGAATCTTTGATTATTTTATA
1 TTGAGAATCTTTAATTATTTGATA
19791966 TT
1 TT
19791968 ATTAAATAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.30, C:0.04, G:0.12, T:0.54
Consensus pattern (24 bp):
TTGAGAATCTTTAATTATTTGATA
Found at i:19795328 original size:12 final size:12
Alignment explanation
Indices: 19795311--19795335 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19795301 AGTCCGCAAG
19795311 AAAAATTATTTT
1 AAAAATTATTTT
19795323 AAAAATTATTTT
1 AAAAATTATTTT
19795335 A
1 A
19795336 TGGTCTACCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
AAAAATTATTTT
Found at i:19796940 original size:27 final size:27
Alignment explanation
Indices: 19796888--19796940 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
19796878 GCTCACATGA
*
19796888 GCTTCCCATTATATGGCTCGAGAGAGG
1 GCTTCCCATTATATGGCTCGAAAGAGG
* *
19796915 GCTTCCCTATTATGT-GCTCTAAAGAG
1 GCTTCCC-ATTATATGGCTCGAAAGAG
19796941 CACTCCCGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 16 0.73
28 6 0.27
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.30
Consensus pattern (27 bp):
GCTTCCCATTATATGGCTCGAAAGAGG
Found at i:19804637 original size:32 final size:29
Alignment explanation
Indices: 19804599--19804662 Score: 83
Period size: 32 Copynumber: 2.1 Consensus size: 29
19804589 TTTATTATAT
* *
19804599 AAACAATTTTTAAAATATAGTATATCAAATTG
1 AAACAATTCTTAAAATA-A-TA-AACAAATTG
19804631 AAACAATTCTTAAAATAATAAACAAATTG
1 AAACAATTCTTAAAATAATAAACAAATTG
19804660 AAA
1 AAA
19804663 ATACAATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
29 11 0.37
30 2 0.07
31 1 0.03
32 16 0.53
ACGTcount: A:0.56, C:0.08, G:0.05, T:0.31
Consensus pattern (29 bp):
AAACAATTCTTAAAATAATAAACAAATTG
Done.