Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168492.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_9, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 25814696
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 122000 characters in sequence are not A, C, G, or T
File 90 of 126
Found at i:17692815 original size:14 final size:15
Alignment explanation
Indices: 17692783--17692850 Score: 56
Period size: 14 Copynumber: 4.7 Consensus size: 15
17692773 ATTAATTAAT
*
17692783 TATTTATATAAATAT
1 TATTTATATAAATAA
17692798 TATTTATAT-AATAA
1 TATTTATATAAATAA
17692812 TATTT-T-TAAATATTTA
1 TATTTATATAAATA---A
*
17692828 TATTT-TAAAAATAA
1 TATTTATATAAATAA
17692842 TATTT-TATA
1 TATTTATATA
17692851 TTTTAAAAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
12 1 0.02
13 5 0.11
14 18 0.40
15 9 0.20
16 7 0.16
17 5 0.11
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TATTTATATAAATAA
Found at i:17692845 original size:20 final size:21
Alignment explanation
Indices: 17692820--17692872 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
17692810 AATATTTTTA
17692820 AATATTTATATTTT-AAAAAT
1 AATATTTATATTTTAAAAAAT
17692840 AATATTTTATATTTTAAAAAAT
1 AATA-TTTATATTTTAAAAAAT
17692862 AATATTT-TATT
1 AATATTTATATT
17692873 AATTTTAGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 8 0.26
21 13 0.42
22 10 0.32
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
AATATTTATATTTTAAAAAAT
Found at i:17692850 original size:21 final size:22
Alignment explanation
Indices: 17692820--17692871 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
17692810 AATATTTTTA
17692820 AATA-TTTATATTTT-AAAAAT
1 AATATTTTATATTTTAAAAAAT
17692840 AATATTTTATATTTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
17692862 AATATTTTAT
1 AATATTTTAT
17692872 TAATTTTAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 4 0.13
21 10 0.33
22 16 0.53
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
AATATTTTATATTTTAAAAAAT
Found at i:17693546 original size:24 final size:23
Alignment explanation
Indices: 17693496--17693554 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
17693486 ATATGTTTGT
* *
17693496 TAATGATCATAAAATTAATTATA
1 TAATTATCATAAAATTAATAATA
17693519 TAATATATCATAAAATTTAATAAT-
1 TAAT-TATCATAAAA-TTAATAATA
*
17693543 TAATTATGATAA
1 TAATTATCATAA
17693555 TTGATATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
23 11 0.35
24 13 0.42
25 7 0.23
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (23 bp):
TAATTATCATAAAATTAATAATA
Found at i:17693752 original size:66 final size:66
Alignment explanation
Indices: 17693562--17693755 Score: 229
Period size: 66 Copynumber: 2.9 Consensus size: 66
17693552 TAATTGATAT
* * *
17693562 TTTTA-GCTTTCCTTACCTTTTCATTTTCTTTAATTTAAAAATAATATTTATCTATT-ATTCATG
1 TTTTAGGCTTTCTTTATCTTTTCATTTTCTTTAATTTAAAAATAATATTTATCTATTAATT-GTG
17693625 TC
65 TC
17693627 TTTTAGGCTTTCTTTATCTTTTCATTTTCTTTGAATTTAAAAATAATATTTAT-TAATTAATTGT
1 TTTTAGGCTTTCTTTATCTTTTCATTTTCTTT-AATTTAAAAATAATATTTATCT-ATTAATTGT
17693691 G-C
64 GTC
* * * *
17693693 ATCTTT-GGTTTTGTTTATCTTTTTTATTTT-TTTAATTTTAAAATAATATTTATCTATTAATTG
1 -T-TTTAGGCTTTCTTTATC-TTTTCATTTTCTTTAATTTAAAAATAATATTTATCTATTAATTG
17693756 CGATCATTAG
Statistics
Matches: 114, Mismatches: 7, Indels: 15
0.84 0.05 0.11
Matches are distributed among these distances:
65 5 0.04
66 53 0.46
67 41 0.36
68 15 0.13
ACGTcount: A:0.26, C:0.10, G:0.06, T:0.58
Consensus pattern (66 bp):
TTTTAGGCTTTCTTTATCTTTTCATTTTCTTTAATTTAAAAATAATATTTATCTATTAATTGTGT
C
Found at i:17695029 original size:15 final size:17
Alignment explanation
Indices: 17694983--17695029 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
17694973 GAGACATAAA
17694983 AATA-TATAAAAATATT
1 AATATTATAAAAATATT
*
17694999 AATATTATAAATATATT
1 AATATTATAAAAATATT
*
17695016 ACT-TTA-AAAAATAT
1 AATATTATAAAAATAT
17695030 AAAAATGGAC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 7 0.26
16 7 0.26
17 13 0.48
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (17 bp):
AATATTATAAAAATATT
Found at i:17695913 original size:17 final size:17
Alignment explanation
Indices: 17695888--17695922 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
17695878 TGTTATAAAA
*
17695888 TTTTTTTATTACTCAAC
1 TTTTGTTATTACTCAAC
17695905 TTTTGTTATTACTCAAC
1 TTTTGTTATTACTCAAC
17695922 T
1 T
17695923 AGATTCTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.23, C:0.17, G:0.03, T:0.57
Consensus pattern (17 bp):
TTTTGTTATTACTCAAC
Found at i:17696203 original size:2 final size:2
Alignment explanation
Indices: 17696190--17696296 Score: 81
Period size: 2 Copynumber: 53.5 Consensus size: 2
17696180 GTTTAAAAAC
* * * * *
17696190 AT AT AT AC AT AT AT AT AT AA AT AT AA AT AT AT AT AC AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * * * * *
17696232 AT AT AT AT AC AC AC AC AC AC AC AT AT AT GCT -T AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT
17696274 AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
17696297 CACACACATA
Statistics
Matches: 91, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
1 1 0.01
2 89 0.98
3 1 0.01
ACGTcount: A:0.51, C:0.09, G:0.01, T:0.38
Consensus pattern (2 bp):
AT
Found at i:17696301 original size:2 final size:2
Alignment explanation
Indices: 17696296--17696332 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
17696286 ATATATATAT
*
17696296 AC AC AC AC AT AC AC AC AC AC A- AC -C AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
17696333 TATATGCTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
1 2 0.06
2 29 0.94
ACGTcount: A:0.51, C:0.46, G:0.00, T:0.03
Consensus pattern (2 bp):
AC
Found at i:17697637 original size:54 final size:53
Alignment explanation
Indices: 17697550--17697697 Score: 181
Period size: 54 Copynumber: 2.7 Consensus size: 53
17697540 TTCTTGATAA
* * * *
17697550 TTTTTATTTTTGAGGAAAATTGGCACTTCCAACTTTTCCTTAAAGTATTT-AGAAG
1 TTTTTA-TTTT-AAGAAAATTGGTACTTTCAACTTTTCCTTAAAGCATTTGA-AAG
* *
17697605 TTTTTATTTTAAAGAAAATTGATACTTTCAACTTTTTCTTAAAGCATTTGAAAG
1 TTTTTATTTT-AAGAAAATTGGTACTTTCAACTTTTCCTTAAAGCATTTGAAAG
17697659 TTTTTATTTTAAGAAAAATTGGTACTTTCAACTTCTTCC
1 TTTTTATTTTAAG-AAAATTGGTACTTTCAACTT-TTCC
17697698 CAAAATATAT
Statistics
Matches: 81, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
53 3 0.04
54 68 0.84
55 10 0.12
ACGTcount: A:0.31, C:0.12, G:0.11, T:0.46
Consensus pattern (53 bp):
TTTTTATTTTAAGAAAATTGGTACTTTCAACTTTTCCTTAAAGCATTTGAAAG
Found at i:17697732 original size:15 final size:15
Alignment explanation
Indices: 17697709--17697748 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
17697699 AAAATATATT
*
17697709 TTTTTGAAAATTTTA
1 TTTTAGAAAATTTTA
17697724 TTTTAG-AAATTTTA
1 TTTTAGAAAATTTTA
17697738 TTTTAAGAAAA
1 TTTT-AGAAAA
17697749 ATTGATACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 12 0.55
15 7 0.32
16 3 0.14
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (15 bp):
TTTTAGAAAATTTTA
Found at i:17697733 original size:14 final size:15
Alignment explanation
Indices: 17697716--17697747 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
17697706 ATTTTTTTGA
17697716 AAATTTTATTTT-AG
1 AAATTTTATTTTAAG
17697730 AAATTTTATTTTAAG
1 AAATTTTATTTTAAG
17697745 AAA
1 AAA
17697748 AATTGATACT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (15 bp):
AAATTTTATTTTAAG
Found at i:17697784 original size:73 final size:73
Alignment explanation
Indices: 17697660--17697801 Score: 227
Period size: 73 Copynumber: 1.9 Consensus size: 73
17697650 ATTTGAAAGT
*
17697660 TTTTATTTTAAGAAAAATTGGTACTTTCAACTTCTTCCCAAAATATATTTTT-TTGAAAATTTTA
1 TTTTATTTTAAGAAAAATTGATACTTTCAACTTCTTCCCAAAATATATTTTTCTTG-AAATTTTA
17697724 TTTTAGAAA
65 TTTTAGAAA
17697733 TTTTATTTTAAGAAAAATTGATACTTTCAACTT-TTCCTCAAAATACT-TTTTTCTTGAAATTTT
1 TTTTATTTTAAGAAAAATTGATACTTTCAACTTCTTCC-CAAAATA-TATTTTTCTTGAAATTTT
17697796 ATTTTA
64 ATTTTA
17697802 AAGGAAAATT
Statistics
Matches: 65, Mismatches: 1, Indels: 6
0.90 0.01 0.08
Matches are distributed among these distances:
72 4 0.06
73 57 0.88
74 4 0.06
ACGTcount: A:0.34, C:0.11, G:0.06, T:0.50
Consensus pattern (73 bp):
TTTTATTTTAAGAAAAATTGATACTTTCAACTTCTTCCCAAAATATATTTTTCTTGAAATTTTAT
TTTAGAAA
Found at i:17697884 original size:119 final size:117
Alignment explanation
Indices: 17697715--17698095 Score: 497
Period size: 119 Copynumber: 3.2 Consensus size: 117
17697705 TATTTTTTTG
* *
17697715 AAAAT-TTTATTTTAGAAATTTTATTTT-AAGAAAAATTGATACTTTCAACTTTTCCTCAAAATA
1 AAAATATTT-TTTTAGAAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTCCCCCAAAATA
* * * * *
17697778 CTTTTTTCTTGAAATTTTATTTTAAAGGAAAATTAATACTTTCAACTTTTCCTCA
65 -TTTTTT-TTAAAACTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCA
*
17697833 AAAATATTTTTTTAGAAATTTTATTTTCAAGAAAAATTGATACTTTTAACTTTCCCCCATAAATA
1 AAAATATTTTTTTAGAAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTCCCCCA-AAATA
*
17697898 -TTGTTTTAAAACTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTTCCT-A
65 TTTTTTTTAAAACTTTATTTTCAAGAAAAATTGATACTTTCAAC-TTTTCCTCA
**
17697950 AAAATATATATTTTTA-AACATTTTATTTTCAAGGGAAATTGATACTTTCAACTTTCCCCCAAAA
1 AAAATAT-T-TTTTTAGAA-ATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTCCCCCAAAA
* *
17698014 -ATATTTTTTTAAAACTTTATTTTCAAGAAAAATTGATACTTTTAATTTTTCCTCA
63 TAT-TTTTTTTAAAACTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCA
*
17698069 AAAATACTTTTTT-GAGAATTTTATTTT
1 AAAATATTTTTTTAGA-AATTTTATTTT
17698096 AGGAAAATCA
Statistics
Matches: 235, Mismatches: 16, Indels: 25
0.85 0.06 0.09
Matches are distributed among these distances:
117 58 0.25
118 49 0.21
119 123 0.52
120 5 0.02
ACGTcount: A:0.36, C:0.12, G:0.05, T:0.46
Consensus pattern (117 bp):
AAAATATTTTTTTAGAAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTCCCCCAAAATAT
TTTTTTTAAAACTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCA
Found at i:17698102 original size:58 final size:58
Alignment explanation
Indices: 17697715--17698095 Score: 464
Period size: 59 Copynumber: 6.4 Consensus size: 58
17697705 TATTTTTTTG
17697715 AAAAT-TTTATTTTAGAAATTTTATTTT-AAGAAAAATTGATACTTTCAACTTTTCCTC-
1 AAAATATTT-TTTTA-AAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCA
* * * *
17697772 AAAATACTTTTTTCTTGAAATTTTATTTTAAAGGAAAATTAATACTTTCAACTTTTCCTCA
1 AAAATA--TTTTT-TTAAAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCA
* * *
17697833 AAAATATTTTTTTAGAAATTTTATTTTCAAGAAAAATTGATACTTTTAACTTTCCCCCA
1 AAAATATTTTTTTA-AAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCA
* * *
17697892 TAAATATTGTTTTAAAACTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTTCCT-A
1 AAAATATTTTTTTAAAATTTTATTTTCAAGAAAAATTGATACTTTCAAC-TTTTCCTCA
** * *
17697950 AAAATATATATTTTTAAACATTTTATTTTCAAGGGAAATTGATACTTTCAACTTTCCCCCA
1 AAAATAT-T-TTTTTAAA-ATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCA
* * *
17698011 AAAATATTTTTTTAAAACTTTATTTTCAAGAAAAATTGATACTTTTAATTTTTCCTCA
1 AAAATATTTTTTTAAAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCA
* *
17698069 AAAATACTTTTTTGAGAATTTTATTTT
1 AAAATA-TTTTTTTAAAATTTTATTTT
17698096 AGGAAAATCA
Statistics
Matches: 278, Mismatches: 33, Indels: 24
0.83 0.10 0.07
Matches are distributed among these distances:
57 5 0.02
58 83 0.30
59 100 0.36
60 46 0.17
61 44 0.16
ACGTcount: A:0.36, C:0.12, G:0.05, T:0.46
Consensus pattern (58 bp):
AAAATATTTTTTTAAAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCA
Found at i:17698184 original size:15 final size:15
Alignment explanation
Indices: 17698166--17698200 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
17698156 TAGAAATAAT
17698166 AATAAT-AATAATATA
1 AATAATAAATAA-ATA
17698181 AATAATAAATAAATA
1 AATAATAAATAAATA
17698196 AATAA
1 AATAA
17698201 ATAGAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
AATAATAAATAAATA
Found at i:17698199 original size:12 final size:11
Alignment explanation
Indices: 17698159--17698203 Score: 58
Period size: 12 Copynumber: 4.1 Consensus size: 11
17698149 TCTAATTTAG
17698159 AAATAAT-AAT
1 AAATAATAAAT
17698169 -AATAATAATAT
1 AAATAATAA-AT
17698180 AAATAATAAAT
1 AAATAATAAAT
17698191 AAATAAATAAAT
1 AAAT-AATAAAT
17698203 A
1 A
17698204 GAAAAAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
9 6 0.19
10 1 0.03
11 8 0.26
12 16 0.52
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
AAATAATAAAT
Found at i:17699175 original size:12 final size:11
Alignment explanation
Indices: 17699158--17699187 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
17699148 CAACTCGACA
17699158 TTTTTTTTTACT
1 TTTTTTTTTA-T
17699170 TTTTTTTTTAT
1 TTTTTTTTTAT
17699181 TTTTTTT
1 TTTTTTT
17699188 GGTTAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 8 0.44
12 10 0.56
ACGTcount: A:0.07, C:0.03, G:0.00, T:0.90
Consensus pattern (11 bp):
TTTTTTTTTAT
Found at i:17699312 original size:44 final size:44
Alignment explanation
Indices: 17699203--17699569 Score: 308
Period size: 44 Copynumber: 8.5 Consensus size: 44
17699193 AAATTTTGAT
* ** *
17699203 CAAAGCTCTTCTAAGCAGAGGCTCAACGACTTTGAAAAAAATAAA
1 CAAAGCTCCTCTAAATAGAGGCTCAACGACTTTG-GAAAAATAAA
* * *
17699248 CAGAGCTCCTATAAACAGAGGCTCAACGACTTTGGAAAAATAAA
1 CAAAGCTCCTCTAAATAGAGGCTCAACGACTTTGGAAAAATAAA
* *
17699292 TAAAGCTCCTCTAAATAGAGGCTCAACGACTTTTGAAAAATAAA
1 CAAAGCTCCTCTAAATAGAGGCTCAACGACTTTGGAAAAATAAA
** ** *
17699336 CAAAGCTTATCTAACCAGAGGCTCAACGACTTTTGAAAAATAAA
1 CAAAGCTCCTCTAAATAGAGGCTCAACGACTTTGGAAAAATAAA
* * * *
17699380 TAAAGCTCCTTTAAACAGAGG-----CGACTTTAGAAAAATAAA
1 CAAAGCTCCTCTAAATAGAGGCTCAACGACTTTGGAAAAATAAA
** *
17699419 CAAAGCTATTCTAAATAAAGGCTCAACGACTTTGGAAAAATAAA
1 CAAAGCTCCTCTAAATAGAGGCTCAACGACTTTGGAAAAATAAA
* * * * *
17699463 CAAAGCT-CTTTTAATCAAAGGCAACAA-AACTTTGGAAAAAT-AA
1 CAAAGCTCCTCTAAAT-AGAGGC-TCAACGACTTTGGAAAAATAAA
** * * *
17699506 -ATGGCTCCTCTAAATAGAGG-GCAACAAAACTTTGGGAAAAT-AA
1 CAAAGCTCCTCTAAATAGAGGCTCAAC--GACTTTGGAAAAATAAA
**
17699549 -ATGGCTCCTCTAAATAGAGGC
1 CAAAGCTCCTCTAAATAGAGGC
17699570 AATAAAACTT
Statistics
Matches: 270, Mismatches: 40, Indels: 25
0.81 0.12 0.07
Matches are distributed among these distances:
39 32 0.12
40 3 0.01
42 8 0.03
43 48 0.18
44 146 0.54
45 33 0.12
ACGTcount: A:0.44, C:0.18, G:0.16, T:0.22
Consensus pattern (44 bp):
CAAAGCTCCTCTAAATAGAGGCTCAACGACTTTGGAAAAATAAA
Found at i:17699441 original size:127 final size:128
Alignment explanation
Indices: 17699203--17699472 Score: 366
Period size: 127 Copynumber: 2.1 Consensus size: 128
17699193 AAATTTTGAT
* *
17699203 CAAAGCTCTTCTAAGCAGAGGCTCAACGACTTTGAAAAAAATAAACAGAGCTCCTATAAACAGAG
1 CAAAGCTCTTCTAACCAGAGGCTCAACGACTTTG-AAAAAATAAACAAAGCTCCTATAAACAGAG
* * * * *
17699268 GCTCAACGACTTTGGAAAAATAAATAAAGCTCCTCTAAATAGAGGCTCAACGACTTTTGAAAAAT
65 G----ACGACTTTAGAAAAATAAACAAAGCTACTCTAAATAAAGGCTCAACGACTTTGGAAAAAT
17699333 AAA
126 AAA
* *
17699336 CAAAGCT-TATCTAACCAGAGGCTCAACGACTTTTG-AAAAATAAATAAAGCTCCTTTAAACAGA
1 CAAAGCTCT-TCTAACCAGAGGCTCAACGAC-TTTGAAAAAATAAACAAAGCTCCTATAAACAGA
*
17699399 GG-CGACTTTAGAAAAATAAACAAAGCTATTCTAAATAAAGGCTCAACGACTTTGGAAAAATAAA
64 GGACGACTTTAGAAAAATAAACAAAGCTACTCTAAATAAAGGCTCAACGACTTTGGAAAAATAAA
17699463 CAAAGCTCTT
1 CAAAGCTCTT
17699473 TTAATCAAAG
Statistics
Matches: 124, Mismatches: 10, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
127 64 0.52
128 1 0.01
132 28 0.23
133 27 0.22
134 4 0.03
ACGTcount: A:0.44, C:0.19, G:0.15, T:0.22
Consensus pattern (128 bp):
CAAAGCTCTTCTAACCAGAGGCTCAACGACTTTGAAAAAATAAACAAAGCTCCTATAAACAGAGG
ACGACTTTAGAAAAATAAACAAAGCTACTCTAAATAAAGGCTCAACGACTTTGGAAAAATAAA
Found at i:17699495 original size:127 final size:127
Alignment explanation
Indices: 17699203--17699507 Score: 328
Period size: 127 Copynumber: 2.4 Consensus size: 127
17699193 AAATTTTGAT
* * * * * * * *
17699203 CAAAGCTCT-TCTAAGCAGAGGCTCAACGACTTTGAAAAAAATAAACAGAGCTCCTATAAACAGA
1 CAAAGCT-TATCTAACCAAAGGCACAACAACTTTG-GAAAAATAAATAAAGCTCCTTTAAACAGA
* * * * *
17699267 GGCTCAACGACTTTGGAAAAATAAATAAAGCTCCTCTAAATAGAGGCTCAACGACTTTTGAAAAA
64 GG-----CGACTTTAGAAAAATAAACAAAGCTACTCTAAATAAAGGCTCAACGACTTTGGAAAAA
17699332 TAAA
124 TAAA
* * * *
17699336 CAAAGCTTATCTAACCAGAGGCTCAACGACTTTTGAAAAATAAATAAAGCTCCTTTAAACAGAGG
1 CAAAGCTTATCTAACCAAAGGCACAACAACTTTGGAAAAATAAATAAAGCTCCTTTAAACAGAGG
*
17699401 CGACTTTAGAAAAATAAACAAAGCTATTCTAAATAAAGGCTCAACGACTTTGGAAAAATAAA
66 CGACTTTAGAAAAATAAACAAAGCTACTCTAAATAAAGGCTCAACGACTTTGGAAAAATAAA
* *
17699463 CAAAGCTCT-TTTAATCAAAGGCAACAA-AACTTTGGAAAAATAAAT
1 CAAAGCT-TATCTAACCAAAGGC-ACAACAACTTTGGAAAAATAAAT
17699508 GGCTCCTCTA
Statistics
Matches: 151, Mismatches: 18, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
127 89 0.59
128 4 0.03
132 28 0.19
133 30 0.20
ACGTcount: A:0.45, C:0.18, G:0.14, T:0.22
Consensus pattern (127 bp):
CAAAGCTTATCTAACCAAAGGCACAACAACTTTGGAAAAATAAATAAAGCTCCTTTAAACAGAGG
CGACTTTAGAAAAATAAACAAAGCTACTCTAAATAAAGGCTCAACGACTTTGGAAAAATAAA
Found at i:17699540 original size:43 final size:42
Alignment explanation
Indices: 17699481--17699592 Score: 181
Period size: 43 Copynumber: 2.6 Consensus size: 42
17699471 TTTTAATCAA
17699481 AGGCAACAAAACTTTGGAAAAATAAATGGCTCCTCTAAATAG
1 AGGCAACAAAACTTTGGAAAAATAAATGGCTCCTCTAAATAG
*
17699523 AGGGCAACAAAACTTTGGGAAAATAAATGGCTCCTCTAAATAG
1 A-GGCAACAAAACTTTGGAAAAATAAATGGCTCCTCTAAATAG
*
17699566 AGGCAATAAAACTTT-GAGAAAATAAAT
1 AGGCAACAAAACTTTGGA-AAAATAAAT
17699593 AAACAAGGCT
Statistics
Matches: 65, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
41 1 0.02
42 23 0.35
43 41 0.63
ACGTcount: A:0.46, C:0.14, G:0.18, T:0.21
Consensus pattern (42 bp):
AGGCAACAAAACTTTGGAAAAATAAATGGCTCCTCTAAATAG
Found at i:17700617 original size:8 final size:8
Alignment explanation
Indices: 17700604--17700665 Score: 58
Period size: 8 Copynumber: 7.6 Consensus size: 8
17700594 CGAGTATTCC
17700604 TTTTTCAT
1 TTTTTCAT
*
17700612 TTTTTCCT
1 TTTTTCAT
17700620 TTTTT-ATTT
1 TTTTTCA--T
17700629 TTTTCTCAT
1 TTTT-TCAT
17700638 TTTTT--T
1 TTTTTCAT
17700644 TCTTTTCAT
1 T-TTTTCAT
17700653 TTTTTCAT
1 TTTTTCAT
17700661 TTTTT
1 TTTTT
17700666 TTCAAGCATA
Statistics
Matches: 45, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
6 2 0.04
7 4 0.09
8 25 0.56
9 12 0.27
10 1 0.02
11 1 0.02
ACGTcount: A:0.08, C:0.13, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTTTCAT
Found at i:17700620 original size:15 final size:15
Alignment explanation
Indices: 17700600--17700664 Score: 57
Period size: 15 Copynumber: 4.6 Consensus size: 15
17700590 GTCTCGAGTA
17700600 TTCCTTTTTCATTTT
1 TTCCTTTTTCATTTT
*
17700615 TTCCTTTTTTATTTT
1 TTCCTTTTTCATTTT
* **
17700630 TTTCTCATT--TTTT
1 TTCCTTTTTCATTTT
17700643 TT-C-TTTTCATTTT
1 TTCCTTTTTCATTTT
*
17700656 TTCATTTTT
1 TTCCTTTTT
17700665 TTTCAAGCAT
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
11 2 0.05
12 1 0.03
13 12 0.31
15 24 0.62
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (15 bp):
TTCCTTTTTCATTTT
Found at i:17712011 original size:18 final size:17
Alignment explanation
Indices: 17711988--17712037 Score: 64
Period size: 20 Copynumber: 2.7 Consensus size: 17
17711978 AAATCTGAAA
17711988 TTAATAAAATATTATTTT
1 TTAATAAAATATTA-TTT
17712006 TTAATATAAAATATTATTT
1 TT-A-ATAAAATATTATTT
17712025 TTAATATAAATAT
1 TTAATA-AAATAT
17712038 AAAATTAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
17 3 0.10
18 9 0.31
19 6 0.21
20 11 0.38
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TTAATAAAATATTATTT
Found at i:17712027 original size:19 final size:20
Alignment explanation
Indices: 17711991--17712034 Score: 81
Period size: 19 Copynumber: 2.2 Consensus size: 20
17711981 TCTGAAATTA
17711991 ATAAAATATTATTTTTTAAT
1 ATAAAATATTATTTTTTAAT
17712011 ATAAAATATTA-TTTTTAAT
1 ATAAAATATTATTTTTTAAT
17712030 ATAAA
1 ATAAA
17712035 TATAAAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 13 0.54
20 11 0.46
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATAAAATATTATTTTTTAAT
Found at i:17713409 original size:8 final size:8
Alignment explanation
Indices: 17713396--17713433 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
17713386 ATTGAGTTTA
17713396 TATATATT
1 TATATATT
17713404 TATATATT
1 TATATATT
17713412 TATAT-TT
1 TATATATT
17713419 ATATATATT
1 -TATATATT
17713428 TA-ATAT
1 TATATAT
17713434 AAATATTATC
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
7 6 0.21
8 20 0.71
9 2 0.07
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
TATATATT
Found at i:17713417 original size:14 final size:14
Alignment explanation
Indices: 17713398--17713424 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
17713388 TGAGTTTATA
17713398 TATATTTATATATT
1 TATATTTATATATT
17713412 TATATTTATATAT
1 TATATTTATATAT
17713425 ATTTAATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
TATATTTATATATT
Found at i:17714112 original size:30 final size:30
Alignment explanation
Indices: 17714076--17714143 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
17714066 CGAAATTAAT
* * *
17714076 AAAATATTATTTTTTAAATATAAATATTTA
1 AAAATATTATTATATAAATATAAATAATTA
* *
17714106 AAAATATCATTATATAAATATATATAATTA
1 AAAATATTATTATATAAATATAAATAATTA
17714136 AAAA-ATTA
1 AAAATATTA
17714144 AAAAATTAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 3 0.09
30 29 0.91
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (30 bp):
AAAATATTATTATATAAATATAAATAATTA
Found at i:17714156 original size:12 final size:12
Alignment explanation
Indices: 17714139--17714163 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17714129 ATAATTAAAA
17714139 AATTAAAAAATT
1 AATTAAAAAATT
17714151 AATTAAAAAATT
1 AATTAAAAAATT
17714163 A
1 A
17714164 TTTATATATA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AATTAAAAAATT
Found at i:17717003 original size:78 final size:79
Alignment explanation
Indices: 17716921--17717083 Score: 177
Period size: 81 Copynumber: 2.1 Consensus size: 79
17716911 TGTTGTTTTT
* ** * *
17716921 TTTTTTTTTCCTTTTGGCTTTATC-TTGTCCTT-TTTTAAAAATAATATTTATCTATTACTTGTA
1 TTTTTTTTGCCTTTTACCTTT-TCATTGTCCTTCTTTTAAAAATAATATTTATCTATTAATTATA
*
17716984 ATAATTTATTGTTTA
65 ATAATTGATTGTTTA
** * **
17716999 TTTTTTTTGGTTTTTACCTTTTCATTTTTTTTCACTTTTAAAAATAATATTTATCTATTAATTAT
1 TTTTTTTTGCCTTTTACCTTTTCATTGTCCTT--CTTTTAAAAATAATATTTATCTATTAATTAT
*
17717064 AATAATTGATTGTTTC
64 AATAATTGATTGTTTA
17717080 TTTT
1 TTTT
17717084 GGGATTTTTG
Statistics
Matches: 69, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
77 2 0.03
78 21 0.30
81 46 0.67
ACGTcount: A:0.24, C:0.09, G:0.06, T:0.61
Consensus pattern (79 bp):
TTTTTTTTGCCTTTTACCTTTTCATTGTCCTTCTTTTAAAAATAATATTTATCTATTAATTATAA
TAATTGATTGTTTA
Found at i:17718008 original size:82 final size:84
Alignment explanation
Indices: 17717906--17718073 Score: 232
Period size: 84 Copynumber: 2.0 Consensus size: 84
17717896 AAAGGTGAGA
* * * * * * *
17717906 AATTCGTTATTTAATAATTAGATTTATTTATCTTTC-AAA-ACAAAATAGTCCCTTGAGTAAAAG
1 AATTCATTATTCAATAATTAGATTTATTTATCCTTCAAAAGAAAAAATAATCCATTGAATAAAAG
17717969 TATCAATCTCATGAGAAAG
66 TATCAATCTCATGAGAAAG
* * *
17717988 AATTCATTATTCAATTATTAGATTTATTTATCCTTCAAAAGAAAAAATAATCCATTTAATGAAAG
1 AATTCATTATTCAATAATTAGATTTATTTATCCTTCAAAAGAAAAAATAATCCATTGAATAAAAG
17718053 TATCAATCTCATGAGAAAG
66 TATCAATCTCATGAGAAAG
17718072 AA
1 AA
17718074 GCTATCAACT
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
82 32 0.43
83 3 0.04
84 39 0.53
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.36
Consensus pattern (84 bp):
AATTCATTATTCAATAATTAGATTTATTTATCCTTCAAAAGAAAAAATAATCCATTGAATAAAAG
TATCAATCTCATGAGAAAG
Found at i:17724556 original size:17 final size:17
Alignment explanation
Indices: 17724534--17724568 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
17724524 AAAAGAGTCT
17724534 AGTTGAGTAATAAAAAA
1 AGTTGAGTAATAAAAAA
17724551 AGTTGAGTAATAAAAAA
1 AGTTGAGTAATAAAAAA
17724568 A
1 A
17724569 AATTATAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.17, T:0.23
Consensus pattern (17 bp):
AGTTGAGTAATAAAAAA
Found at i:17726489 original size:29 final size:30
Alignment explanation
Indices: 17726444--17726504 Score: 115
Period size: 29 Copynumber: 2.1 Consensus size: 30
17726434 AAACCAAAAG
17726444 ATAAAAAACTAAAAAAAGCTACAATCAATT
1 ATAAAAAACTAAAAAAAGCTACAATCAATT
17726474 ATAAAAAACT-AAAAAAGCTACAATCAATT
1 ATAAAAAACTAAAAAAAGCTACAATCAATT
17726503 AT
1 AT
17726505 CACAATTAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 21 0.68
30 10 0.32
ACGTcount: A:0.62, C:0.13, G:0.03, T:0.21
Consensus pattern (30 bp):
ATAAAAAACTAAAAAAAGCTACAATCAATT
Found at i:17726747 original size:66 final size:65
Alignment explanation
Indices: 17726667--17726850 Score: 187
Period size: 67 Copynumber: 2.8 Consensus size: 65
17726657 CAAAAAATAC
* *
17726667 AACCAATGAT-CACAATTAATGGATAAATATTATTTTAAAATTGAAAAAATAAAAACGATAAACA
1 AACCAAAGATGCACAATTAATAGATAAATATTATTTTAAAATTGAAAAAATAAAAA-GATAAACA
17726731 A
65 A
* *
17726732 AACCAAAGATGCACAATTAATTA-ATAAATATTATTTTTAAAATCGAAAAAAATGAAAAGATAAA
1 AACCAAAGATGCACAATTAA-TAGATAAATATTA-TTTTAAAATTG-AAAAAATAAAAAGATAAA
*
17726796 GAA
63 CAA
* * * * *
17726799 AGCCAAA-AAG-ACATGACTAATAGATAAATATTATTTTTAAATTAAAGAAAAT
1 AACCAAAGATGCACA--ATTAATAGATAAATATTATTTTAAAATTGAA-AAAAT
17726851 GAAAGGGTAA
Statistics
Matches: 100, Mismatches: 11, Indels: 15
0.79 0.09 0.12
Matches are distributed among these distances:
65 14 0.14
66 36 0.36
67 39 0.39
68 11 0.11
ACGTcount: A:0.57, C:0.08, G:0.09, T:0.27
Consensus pattern (65 bp):
AACCAAAGATGCACAATTAATAGATAAATATTATTTTAAAATTGAAAAAATAAAAAGATAAACAA
Found at i:17726826 original size:67 final size:65
Alignment explanation
Indices: 17726677--17726873 Score: 188
Period size: 66 Copynumber: 3.0 Consensus size: 65
17726667 AACCAATGAT
* * * * *
17726677 CACAATTAATGGATAAATATTA-TTTTAAAATTG-AAAAAATAAAAACGATAAACAAAACCAAAG
1 CACAACTAATAGATAAATATTATTTTTAAAA-TGAAAAAAATGAAAA-GATAAAGAAAGCCAAA-
*
17726740 ATG
63 AAG
*
17726743 CACAATTAATTA-ATAAATATTATTTTTAAAATCGAAAAAAATGAAAAGATAAAGAAAGCCAAAA
1 CACAACTAA-TAGATAAATATTATTTTTAAAAT-GAAAAAAATGAAAAGATAAAGAAAGCCAAAA
17726807 AG
64 AG
* * * *
17726809 -ACATGACTAATAGATAAATATTATTTTT-AAATTAAAGAAAATGAAAGGGTAAAGAAAGCTAAA
1 CACA--ACTAATAGATAAATATTATTTTTAAAATGAAA-AAAATGAAAAGATAAAGAAAGCCAAA
17726872 AA
63 AA
17726874 TATCAATTAT
Statistics
Matches: 113, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
65 6 0.05
66 53 0.47
67 43 0.38
68 11 0.10
ACGTcount: A:0.57, C:0.07, G:0.11, T:0.25
Consensus pattern (65 bp):
CACAACTAATAGATAAATATTATTTTTAAAATGAAAAAAATGAAAAGATAAAGAAAGCCAAAAAG
Found at i:17729721 original size:11 final size:11
Alignment explanation
Indices: 17729705--17729734 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
17729695 AGCAATATCT
17729705 AACAAATCCCA
1 AACAAATCCCA
17729716 AACAAATCCCA
1 AACAAATCCCA
17729727 AACAAATC
1 AACAAATC
17729735 TTTTAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.57, C:0.33, G:0.00, T:0.10
Consensus pattern (11 bp):
AACAAATCCCA
Found at i:17729758 original size:11 final size:11
Alignment explanation
Indices: 17729705--17729759 Score: 56
Period size: 11 Copynumber: 4.9 Consensus size: 11
17729695 AGCAATATCT
*
17729705 AACAAATCCCA
1 AACAAATCTCA
*
17729716 AACAAATCCCA
1 AACAAATCTCA
**
17729727 AACAAATCTTTT
1 AACAAATC-TCA
*
17729739 AATAAATCTCA
1 AACAAATCTCA
17729750 AACAAATCTC
1 AACAAATCTC
17729760 TTATGAGATT
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
11 29 0.81
12 7 0.19
ACGTcount: A:0.51, C:0.27, G:0.00, T:0.22
Consensus pattern (11 bp):
AACAAATCTCA
Found at i:17732068 original size:930 final size:921
Alignment explanation
Indices: 17729065--17732401 Score: 3800
Period size: 930 Copynumber: 3.6 Consensus size: 921
17729055 ACCCACTACC
* * * * * * **
17729065 TGTTGGGGATCACTATAGCTCTGATACCACTTGTTAGGCCAAAAAG-CTTCAATCCCATCAAGCC
1 TGTTGGAGATCACCACAGTTCTGATACCACTTGTTAGGCTAAAAGGTC-TCAATCTTATCAAGCC
*** * *
17729129 AGTGGAAGCAAAATCAAATAATCAATCAATCACATAAGAGACAACAATTTAACATGGTT-TAGTC
65 AACAGAAGCAAAATCAAATAATCAATCAATCACATAAGAGACAATAATTTAACAT-GTTCGA-TC
* * * ** * * * *
17729193 TAACTGGCTTATGTCCACAGATGATAAACAAGATTCACTAGTTGTAGAGAATTACAAACATACAT
128 CAACTGACCTATGTCCATGGATGAGAAACAAGATCCACTAATTGTAGAAAATTACAAACATACAT
* ** * * *
17729258 AAAAATATATCAA-CTGTTCAACAATCAATACCTATAGACCCTT-TCAATCT-TCTCTAGTCCTA
193 CAAAATATATCAATC-ACTCAACAATCAATACCCATAGA-CCTTCTCAATCTCT-TTTAGTCTTA
* * * * * * *
17729320 TAGAA-TATTTTCAACCTAAATAAACAGATACCCATGTACACCATTTCAACACAACCAAACACAT
255 T-GAAGTATTCTCAACCCAAACAAATAGATACCCATGTGCACCTTTTCAATACAACCAAACACAT
* * * *
17729384 ACCCATATGCACCCATGCATCATACCTATATGGACCATCTCAGTCTCCTCTAGTCCACTCACAAA
319 A-CCATATGCACCCATACATCATACCTATATGGACCATCTCAATCTCCTGTAGTCCACTCATAAA
* *
17729449 CAAACATACACACCCATAAGACGTAAATCTTTAGTAGTCTTATGAGGGTGTCTACCCATAAAATC
383 CAAACATACACA-CCATAAGATGTAAATCTTTAGTAGTCTTATGA-GGTGTCTACACATAAAATC
* * * * *
17729514 TTACAACTCTTTTATATCTTTTTCTCATGCCTAACCTTACAAAGACTTCACATATTTATAACCAT
446 TTACAACTCTCTTACATCTTTTTCTCATGCCTAACCCTGCAAAGACTTCACCTATTTATAACCAT
* * * * * * * * *
17729579 ACAAACTTACCTATTCAGAATCTCTTTCTTCTTAGAATTCTTCTTCTGTAAATCAAACTTCCCTA
511 ACAAACTTGCCTATTAAGAATATCTTTCCTCTTAAAATTTTTCTTCTGCAAGTCAAACTTACCTA
* **
17729644 TTAAGAATCTTTTTTTTTTA-AATTCTTTTCTGTAAGTTTTCTTATCCATCAAGCAATATCTAAC
576 TTAAGAA--TATTTTTTTTAGAATTCTTTTCTACAAGTTTTCTTATCCATCAAG----------C
17729708 AAATCCCAAACAAATCCCAAACAAATCTTTTAATAAATCTCAAACAAATCTCTTATGAGATTTGA
629 -AAT---------AT---------A-----TAATAAATCTCAAACAAATCTCTTATG-GATTTGA
*
17729773 GTCATTATTCCTAACAATCTTCACTTTGACTCAAATTTCATTAACCATTCGTCTTCATGCTAGAC
669 GTCATTATTCCTAACAATCTTCACTTTGACTCAAATTT-ATTAATCATT-GTCTTCATGCTAGAC
**
17729838 ATGTTTGACTCCACCTGCAATGGAAGTCTCACAATCATCTTTTCTTGTGTGCCTTTACTCTTCAT
732 ATGTTTGACT-CACCTGCAATGGAAGTCTCACAATCATCTTTTCTTGTGTGCCTTTAAGCTTCAT
*
17729903 GCAAATCGATCTTCAAAACATTAACTTGAACTTCTTTTTTGAATCAAGTTCCTCTAAGCTTACCT
796 GCAAATCGATCTTCAAAACATTAACTTGAACTTCTTTCTTGAATCAAGTTCCTCTAAGCTTACCT
* * * *
17729968 CTTCTCATATCTCGAACCTCTATCTCCTTTCATATCTCGAACTTTCGACTTTAATACCATT
861 CTTCTCATGTCTCGAACCTCTATCTCTTTTCACATCTCGAACTTTCGACTCTAATACCATT
* ** * * *
17730029 TGTT-AAGGATCACCACAACTCTAATACCACTTATTAGGCTAAAAGGTTTCAATCTTATCAAGCC
1 TGTTGGA-GATCACCACAGTTCTGATACCACTTGTTAGGCTAAAAGGTCTCAATCTTATCAAGCC
* * *
17730093 AGCAGAAGCAAAATCAAATAATCAATCAATCACATAAGATATAATAATTTAACATGATTCGGA-C
65 AACAGAAGCAAAATCAAATAATCAATCAATCACATAAGAGACAATAATTTAACATG-TTC-GATC
* * *
17730157 CAATTGACCTATGTCTATGGATGAGAAACAAGATCCACTAATTATAGAAAATTACAAACATACAT
128 CAACTGACCTATGTCCATGGATGAGAAACAAGATCCACTAATTGTAGAAAATTACAAACATACAT
* * * *
17730222 TAAAAAATATCAATCACTTAACAATCAATACCCATAGA-CTCTCTCAATCTCTTTTAGTCCTATG
193 CAAAATATATCAATCACTCAACAATCAATACCCATAGACCT-TCTCAATCTCTTTTAGTCTTATG
* * * * * * *
17730286 AAGTATTCTTAATCCAAACAAATAGATACCTATGTGCACCTTTTTAACATAACTAAACACATACT
257 AAGTATTCTCAACCCAAACAAATAGATACCCATGTGCACCTTTTCAATACAACCAAACACATAC-
* ** *
17730351 CAGATAAACCCATATATCATACCTATATGGACCATCTCAATCTCCTGTAGTCCACTCATAAACAA
321 CATATGCACCCATACATCATACCTATATGGACCATCTCAATCTCCTGTAGTCCACTCATAAACAA
* * * *
17730416 ACATACACATCCATAAGATGTAAATCTTTAGTAGTCTTATGGGGTGTCTACTCATAAAATTTTAT
386 ACATACACA-CCATAAGATGTAAATCTTTAGTAGTCTTATGAGGTGTCTACACATAAAATCTTAC
* * * *
17730481 AACTCTCTTGCATCTTTTTCTCATGCCTAACCCTGTAAAGACTTCTCCTATTTATAACTATACAA
450 AACTCTCTTACATCTTTTTCTCATGCCTAACCCTGCAAAGACTTCACCTATTTATAACCATACAA
* * *
17730546 ACTTGCCTATTAAGAATCTCTTTCCTCTTAAAATTTTTCTTTTGTAAGTCAAACTTACCTATTAA
515 ACTTGCCTATTAAGAATATCTTTCCTCTTAAAATTTTTCTTCTGCAAGTCAAACTTACCTATTAA
** *
17730611 GAATATTTTTTTTAGAATTCTTTTCTGTAAGTTTTCTTATCCATCAAGCAATATATAATAAATTT
580 GAATATTTTTTTTAGAATTCTTTTCTACAAGTTTTCTTATCCATCAAGCAATATATAATAAATCT
* *
17730676 TAAACAAATCTC--A---A----A-T--TTATTCCTAACAATCTTCACTTTAACTCAAATTTTAT
645 CAAACAAATCTCTTATGGATTTGAGTCATTATTCCTAACAATCTTCACTTTGACTCAAA-TTTAT
* * * * ** *
17730729 CAATCATTTATCTTCATGCTAGACATATTTGGCTACACCTATAATGGAAGTCTGACAATCATCTT
709 TAATCA-TTGTCTTCATGCTAGACATGTTTGACT-CACCTGCAATGGAAGTCTCACAATCATCTT
* *
17730794 TTCTTATGTGCCTTTATGCTTCATGCAAATCGATCTTCAAAACATTAACTTGAACTTC-TTCTTT
772 TTCTTGTGTGCCTTTAAGCTTCATGCAAATCGATCTTCAAAACATTAACTTGAACTTCTTTC-TT
* * * *
17730858 GAATCAAGTTCCTCTAAGCTTACCTCTTCTCATGTTTTGAACCTCTTATCTTTTTTCACATGTCG
836 GAATCAAGTTCCTCTAAGCTTACCTCTTCTCATGTCTCGAACCTC-TATCTCTTTTCACATCTCG
* *
17730923 ATCTTTCGACTCTAATACCACT
900 AACTTTCGACTCTAATACCATT
* *
17730945 TGTTGGGGATCACCACAGTTTTGATACCACTTGTTAGGCTAAAAGGTCTCAATCTTATCAAGCCA
1 TGTTGGAGATCACCACAGTTCTGATACCACTTGTTAGGCTAAAAGGTCTCAATCTTATCAAGCCA
* *
17731010 ACAAAAGCAAAATCAAATAATCAATCAATCACACAAGAGACAATAATTTAACATGGTTCGATCCA
66 ACAGAAGCAAAATCAAATAATCAATCAATCACATAAGAGACAATAATTTAACAT-GTTCGATCCA
* *
17731075 ACTGACCTACGTCCATGGATGAGAAACAAGATCCACTAATTGTAAAAAATTACAAACATACATCA
130 ACTGACCTATGTCCATGGATGAGAAACAAGATCCACTAATTGTAGAAAATTACAAACATACATCA
* * *
17731140 AAATATATCAATCACTCAATAATAAATACCCATAGACCTTCTCAATCTCTTTTAGTCTTATGGAG
195 AAATATATCAATCACTCAACAATCAATACCCATAGACCTTCTCAATCTCTTTTAGTCTTATGAAG
** *
17731205 TATTCTCAACCCAAGTAAATAGATACCCATATGCACCTTTTCAATACAACCAAACACATACCATA
260 TATTCTCAACCCAAACAAATAGATACCCATGTGCACCTTTTCAATACAACCAAACACATACCATA
* * *
17731270 TGCACCCATACATCATACCTATATGGATCATCTCAATCTTCTGTTGTCCACTCATAAACAAACAT
325 TGCACCCATACATCATACCTATATGGACCATCTCAATCTCCTGTAGTCCACTCATAAACAAACAT
* *
17731335 ACACACCTATAAGATGTAAATCTTTAGTATTCTTATGAGGTGTCTACACATAAAATCTTACAATT
390 ACACACC-ATAAGATGTAAATCTTTAGTAGTCTTATGAGGTGTCTACACATAAAATCTTACAACT
* * **
17731400 TTCTTACATCTTTTTCTCATGTCTAACTTTGCAAAGACTTCACCTATTTATAACCATACAAACTT
454 CTCTTACATCTTTTTCTCATGCCTAACCCTGCAAAGACTTCACCTATTTATAACCATACAAACTT
* * **
17731465 ACCTATTAA-AA-ATCTTTCCTCTTAGAATTTTTCTTCTGCAAGTCAAACTTGTCTATTAA-AAT
519 GCCTATTAAGAATATCTTTCCTCTTAAAATTTTTCTTCTGCAAGTCAAACTTACCTATTAAGAA-
* *
17731527 TTTTTTTCCTTTTAGAATTCTTCTTCTACAAGTTTTCTTATCCATCAAGCAATATCTAATAAATC
583 -TATTTT--TTTTAGAATTCTT-TTCTACAAGTTTTCTTATCCATCAAGCAATATATAATAAATC
* *
17731592 TCAAACAAATCTCTTATGGGATTTGAGTCATTATTCCTAATAATCTTTA-TCTTGACTCAAATTA
644 TCAAACAAATCTCTTAT-GGATTTGAGTCATTATTCCTAACAATCTTCACT-TTGACTCAAATT-
* * *
17731656 TATTAATCATCTGTCTTCATGCTAGACATGCTTGACTCTACCTGCAATGAAAGTCTCACAATAAT
706 TATTAATCAT-TGTCTTCATGCTAGACATGTTTGACTC-ACCTGCAATGGAAGTCTCACAATCAT
* * * * ** *
17731721 CTTCTCTTTGTGTGCCTTTAAGCTTCATGTAAATTGATCTTCAAAATACGAACTTAAACTTCTTT
769 CTTTTC-TTGTGTGCCTTTAAGCTTCATGCAAATCGATCTTCAAAACATTAACTTGAACTTCTTT
* * * *
17731786 CTTGAATCGAGCTT-CTTTAAGCTTACCTCTTTTCATGTCTCGAACCTCTATCTCTTTTCACGTC
833 CTTGAATCAAG-TTCCTCTAAGCTTACCTCTTCTCATGTCTCGAACCTCTATCTCTTTTCACATC
* * * *
17731850 TCAAACTTTCAACTCTGATACCTTT
897 TCGAACTTTCGACTCTAATACCATT
* * * * * * *
17731875 TATTGGAGATCACTATAGTTCTGATATCACTTGTTAGGCTAAAAAGCCTCAATCTCATCAAGCCA
1 TGTTGGAGATCACCACAGTTCTGATACCACTTGTTAGGCTAAAAGGTCTCAATCTTATCAAGCCA
* * *
17731940 ACAGAAGTAAAATTAAATAATCAATCAATCACATAAGAGACAATAATTTAACGTAGTTCGATCCA
66 ACAGAAGCAAAATCAAATAATCAATCAATCACATAAGAGACAATAATTTAACAT-GTTCGATCCA
* ** * * * * *
17732005 ACTGACTTATGTCCACAGATGAGAAATAATATTCACTAGTTGTAGAGAATTACAAACATACATCA
130 ACTGACCTATGTCCATGGATGAGAAACAAGATCCACTAATTGTAGAAAATTACAAACATACATCA
* * * *
17732070 AAATGTATCAATCACTCAACAATCAATACCTATAGACCCTT-TCAATATCTTCTAGTCTTATGAA
195 AAATATATCAATCACTCAACAATCAATACCCATAGA-CCTTCTCAATCTCTTTTAGTCTTATGAA
* * * * * * *
17732134 GTATTCTCAACTCAAACAAACAAATATCCATGTGCACCCTTTCAATACAACCAAACATAAACCTA
259 GTATTCTCAACCCAAACAAATAGATACCCATGTGCACCTTTTCAATACAACCAAACACATACC-A
* * * * * *
17732199 TATGCACCCATACATCATACTTATATGGACCATCTCAGTCTCCTCTAGTTCACTCACAAGCAAAC
323 TATGCACCCATACATCATACCTATATGGACCATCTCAATCTCCTGTAGTCCACTCATAAACAAAC
* * * * *
17732264 ATATACACCCATAAGACGTAAATCTTCAGTAGTCTTATGAGGTGTCTACCCATAAAA-CTCTACG
388 ATACACA-CCATAAGATGTAAATCTTTAGTAGTCTTATGAGGTGTCTACACATAAAATCT-TACA
* * * * *
17732328 ACTCTCTTACATCTTTTTCTTATGCCTAACCCTACAGAGACTTCACATATTTATAATCATACAAA
451 ACTCTCTTACATCTTTTTCTCATGCCTAACCCTGCAAAGACTTCACCTATTTATAACCATACAAA
17732393 CTTGCCTAT
516 CTTGCCTAT
17732402 GAATAATCCT
Statistics
Matches: 2043, Mismatches: 280, Indels: 133
0.83 0.11 0.05
Matches are distributed among these distances:
912 2 0.00
913 42 0.02
914 11 0.01
915 369 0.18
916 329 0.16
917 54 0.03
918 1 0.00
919 1 0.00
922 1 0.00
923 1 0.00
926 1 0.00
927 1 0.00
928 21 0.01
929 5 0.00
930 391 0.19
931 262 0.13
932 7 0.00
933 1 0.00
942 2 0.00
951 3 0.00
952 1 0.00
961 10 0.00
962 35 0.02
963 142 0.07
964 347 0.17
965 2 0.00
966 1 0.00
ACGTcount: A:0.34, C:0.23, G:0.09, T:0.34
Consensus pattern (921 bp):
TGTTGGAGATCACCACAGTTCTGATACCACTTGTTAGGCTAAAAGGTCTCAATCTTATCAAGCCA
ACAGAAGCAAAATCAAATAATCAATCAATCACATAAGAGACAATAATTTAACATGTTCGATCCAA
CTGACCTATGTCCATGGATGAGAAACAAGATCCACTAATTGTAGAAAATTACAAACATACATCAA
AATATATCAATCACTCAACAATCAATACCCATAGACCTTCTCAATCTCTTTTAGTCTTATGAAGT
ATTCTCAACCCAAACAAATAGATACCCATGTGCACCTTTTCAATACAACCAAACACATACCATAT
GCACCCATACATCATACCTATATGGACCATCTCAATCTCCTGTAGTCCACTCATAAACAAACATA
CACACCATAAGATGTAAATCTTTAGTAGTCTTATGAGGTGTCTACACATAAAATCTTACAACTCT
CTTACATCTTTTTCTCATGCCTAACCCTGCAAAGACTTCACCTATTTATAACCATACAAACTTGC
CTATTAAGAATATCTTTCCTCTTAAAATTTTTCTTCTGCAAGTCAAACTTACCTATTAAGAATAT
TTTTTTTAGAATTCTTTTCTACAAGTTTTCTTATCCATCAAGCAATATATAATAAATCTCAAACA
AATCTCTTATGGATTTGAGTCATTATTCCTAACAATCTTCACTTTGACTCAAATTTATTAATCAT
TGTCTTCATGCTAGACATGTTTGACTCACCTGCAATGGAAGTCTCACAATCATCTTTTCTTGTGT
GCCTTTAAGCTTCATGCAAATCGATCTTCAAAACATTAACTTGAACTTCTTTCTTGAATCAAGTT
CCTCTAAGCTTACCTCTTCTCATGTCTCGAACCTCTATCTCTTTTCACATCTCGAACTTTCGACT
CTAATACCATT
Found at i:17734663 original size:20 final size:21
Alignment explanation
Indices: 17734628--17734668 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
17734618 ACAATTTAAC
*
17734628 TCATCTTTACTATTGAGATTT
1 TCATCTTTACTATTGAAATTT
*
17734649 TCATTTTTA-TATTGAAATTT
1 TCATCTTTACTATTGAAATTT
17734669 AAGTGCAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.27, C:0.10, G:0.07, T:0.56
Consensus pattern (21 bp):
TCATCTTTACTATTGAAATTT
Found at i:17739421 original size:2 final size:2
Alignment explanation
Indices: 17739414--17739467 Score: 65
Period size: 2 Copynumber: 27.5 Consensus size: 2
17739404 CAATCAAGTT
* * * *
17739414 TA TA TA TA TA TA CA TA TA TA TA TA TT TA TA GA TA TA TA TA TC
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17739456 TA -A TA TA TA TA T
1 TA TA TA TA TA TA T
17739468 TATCGGCCTT
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:17742413 original size:2 final size:2
Alignment explanation
Indices: 17742406--17742439 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
17742396 TGTTTGCTTC
17742406 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
17742440 GCTTTCATCA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17746639 original size:11 final size:11
Alignment explanation
Indices: 17746621--17746652 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
17746611 AATCTCATAA
17746621 GAGATTTGTTT
1 GAGATTTGTTT
*
17746632 GGGATTTGTTT
1 GAGATTTGTTT
17746643 GAGATTTGTT
1 GAGATTTGTT
17746653 AGATATTGCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.31, T:0.53
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:17748331 original size:937 final size:938
Alignment explanation
Indices: 17745825--17749194 Score: 4333
Period size: 944 Copynumber: 3.6 Consensus size: 938
17745815 AAAGAATTAT
* * *
17745825 TAGGCAAGTTTGTATGATTATAAATATGTGAAGT-CTCTATAGGGTTAGGCATGAGAAAAAGATG
1 TAGGCAAGTTTGTATGGTTATAAATAGGTGAAGTCCT-TGTAGGGTTAGGCATGAGAAAAAGATG
* * * *
17745889 TAAGAGAGTCGT-AGAATTTTATGGGTAGACACCTTATAAGACTACTGAAGATTTACGTCTTATG
65 TAAGAGAATTGTAAG-ATTTTATGGGTAGACACCTCATAAGACTACTAAAGATTTACGTCTTATG
* * * * * * *
17745953 GGTATGTATGTTTATTTGTGAGTAGATTAGAGGAGACTAAAATGGTCCATATAAGTATGATGTAT
129 GGTGTGTATGTTTGTTTATGAGTGGACTAGAGGAGACTGAAATGGTCCATATAGGTATGATGTAT
* * * * * *
17746018 GGGTACATATAGGTATATGTTTGATTGTATTGAAAGGGTACACATGGATATTTGTTTGTTTGAGT
194 GGGTGCATATAGGTATGTGTTTGGTTGTATTGAAAGGGTGCACATGGGTATCTGTTTGTTTGAGT
* * * *
17746083 TGAGAATACT-TCATAGGACTAAAAGATATTGAAAGGGTCTATAGGTATTGATTGTTGAGTGATT
259 TGAGAATACTCT-ATAAGACTAAAAGAGATTGAGAGGGTCTATGGGTATTGATTGTTGAGTGATT
* * *
17746147 GATATATTTGGATGTATGTTTGTAATTCTCTACAACTAGTGAATCTTGTTTCTCATCTATGGACA
323 GATATATTTTGATGTATGTTTGTAATTCTCTACAACTAGTGAATCTTATTTCTCATCCATGGACA
* *
17746212 TAAGTCAGTTGGATCGAACTACGTTAAATTATTGTCTCTTATGTGATTGATTGATTATTTGATTT
388 TAAGTCAATTGGATCGAACCACGTTAAATTATTGTCTCTTATGTGATTGATTGATTATTTGATTT
* * * * * * *
17746277 TAC-TTCTGTTGGCTTGATGAGATTGAAGCTTCTTAGCCTAATAAGTGATATCAGAGCTATGGTG
453 TGCTTTC-GCTGGCTTGATAAGATTGAACCTT-TTAGCCTAACAAGTGGTATCAAAGCTATGGTG
* * * * * * *
17746341 ATCTCTAACAAAAGGTATCAGAGTTGAAAGTTTGAGACGTGGAAAGAGATAGAGGTTCGAGACAT
516 ATCCCCAACAAATGGTATTAGAGTCGAAAGTTCGAGATGTGGAAAGAGATAGAGGTTCGAGACAT
* * * * * * **
17746406 GAAAAGAGGTAAGCTTAGA-GAAGCTTGATTC-AAGAAAGAAGTTTAAGTTCATATTTTTACTAT
581 GAGAAGAGGCAAGCTTAGAGGAA-CTTGATTCAAAG-AAGAAGTTCAAGTTAATGTTTTGAAGAT
* * * *
17746469 CAATTTACATGAAGCTTAAAGGCACACAAAGAGAAGATGATTGTGAGACTTCTATTACAGGTGGA
644 CGATTTGCATGAAGCTTAAAGGCACACAAA-AAAAGATGATTGTGAGACTTCCATTACAGGTGGA
* * * *
17746534 GCCAAGCATGTCTAGCATGAAGACAGATGATTGATGAAATTTGAGTTAAGGTGGAGATTATTAGG
708 GCCAAGCATGTCTAGCATGAAGATAGATGATTGATGAAATTTGAGTCAAGGTGAAGATTGTTAGG
* * * *
17746599 AATAATGACTCAAATCTCATAAGAGATTTGTTTGGGATTTGTTTGAGATTTGTTAGATATTGCTT
773 AATAATGACTCAAATCTCATAAGAAATTTATTTGAGATTTGTTTGAAATTTGTTAGATATTGCTT
* *
17746664 GATGGATAAGAAAACTTATAAAAGAAGAATTCTAAAAGGAAAAAAATTTTTAATAGGCAAGTTTG
838 GATGGATAAGAAAACTTATAGAA-AAGAATTCT-AAA--AAAAAAATTCTTAATAGGCAAGTTTG
* * *
17746729 ACTTGCAAAAGAAGAATTCTAAGAGGAAAGATATTTTTAA
899 ACTTGCAGAAGAAGAATTCTAAGAGGAAAGAGATTCTTAA
* * *
17746769 TAGGCAAGTTTGTATGGTTATAAATAGATGAAGTCTTTGCAGGGTTAGGCATGAGAAAAAGATGT
1 TAGGCAAGTTTGTATGGTTATAAATAGGTGAAGTCCTTGTAGGGTTAGGCATGAGAAAAAGATGT
* * * * * * *
17746834 AAGAAAATTGTAAGATTTTATGGGTAGATACCTAATAAAAATACTAAAAATTTACATCTTATGGG
66 AAGAGAATTGTAAGATTTTATGGGTAGACACCTCATAAGACTACTAAAGATTTACGTCTTATGGG
* * ** * * *
17746899 TGTGTATGTTTGTTTATGAGTGAACTACAAAAGATTGAGATGGTCCATATAGGTATGATGTATAG
131 TGTGTATGTTTGTTTATGAGTGGACTAGAGGAGACTGAAATGGTCCATATAGGTATGATGTATGG
* * *
17746964 GTGCATAT-GGATATGTGTTTGGTTGTATTGAAATGGTGCATATGGGTATCTGTTTGTTTGGGTT
196 GTGCATATAGG-TATGTGTTTGGTTGTATTGAAAGGGTGCACATGGGTATCTGTTTGTTTGAGTT
* * *
17747028 GAGAATACTCTATAAGACTAAAGGAGATTGAGAGGGTCTATTGGTATTGATTGTTGAGTGGTTGA
260 GAGAATACTCTATAAGACTAAAAGAGATTGAGAGGGTCTATGGGTATTGATTGTTGAGTGATTGA
* * * * * ** **
17747093 TATGTTTTGATGTATGTTTGTAATTTTTTACAACTAATGGATCTTATTTCTCATCCGCGGATGTA
325 TATATTTTGATGTATGTTTGTAATTCTCTACAACTAGTGAATCTTATTTCTCATCCATGGACATA
* * * *
17747158 AGTCAGTTGGATCGAATCACGTTAAATTATTATCTCTTGTGTGATTGATTGATTATTTGATTTTG
390 AGTCAATTGGATCGAACCACGTTAAATTATTGTCTCTTATGTGATTGATTGATTATTTGATTTTG
* * * *
17747223 CTTTCGTTGGCTTGATAAGATTAAGACCTTTTAGCCTAACAAGTGGTATCAAAACTGTGGTGATC
455 CTTTCGCTGGCTTGATAAGATTGA-ACCTTTTAGCCTAACAAGTGGTATCAAAGCTATGGTGATC
* * * *
17747288 CCCAACAAGTGATATTAGAGTCGAAAGATCGAGATGTGGAAAGAGATAGAGGTTCGAAACATGAG
519 CCCAACAAATGGTATTAGAGTCGAAAGTTCGAGATGTGGAAAGAGATAGAGGTTCGAGACATGAG
* * * *
17747353 AAAAGGCAAGCTTAGAGGAACTTAATTCAAAAAACAAGTTCAAGTTAATGTTTTGAAGATCGATT
584 AAGAGGCAAGCTTAGAGGAACTTGATTCAAAGAAGAAGTTCAAGTTAATGTTTTGAAGATCGATT
* *
17747418 TGCATGAAGCTTAAAGGCACACAAAAAAAGATGATTGTGAGACTTCCATTGCAGGTGGAGCCAAA
649 TGCATGAAGCTTAAAGGCACACAAAAAAAGATGATTGTGAGACTTCCATTACAGGTGGAGCCAAG
* * *
17747483 TATATCTAGCATGAAGATAGATGATTGATGAAATTTGAGTCAAGGTGAAGATTGTTAGGAATAAC
714 CATGTCTAGCATGAAGATAGATGATTGATGAAATTTGAGTCAAGGTGAAGATTGTTAGGAATAAT
* *
17747548 GACTCAAGTCCCATAAGAAATTTATTTGAGATTTGTTTGAAATTTGTTAGATATTGCTTGATGGA
779 GACTCAAATCTCATAAGAAATTTATTTGAGATTTGTTTGAAATTTGTTAGATATTGCTTGATGGA
* *
17747613 TAAGAAAACTTGTAGAAAAGAATTCTAAAAAAAAATATTCTTAATAGGCAAGTTTGACTTACAGA
844 TAAGAAAACTTATAGAAAAGAATTCTAAAAAAAAA-ATTCTTAATAGGCAAGTTTGACTTGCAGA
17747678 AGAAGAATTCTAAGAGGAAAGAGATTCTTAA
908 AGAAGAATTCTAAGAGGAAAGAGATTCTTAA
*
17747709 TAGGCAAGTTTGTATAGTTATAAATAGGTGAAGTCCTTGTAGGGTTAGGCATGAGAAAAAGATGT
1 TAGGCAAGTTTGTATGGTTATAAATAGGTGAAGTCCTTGTAGGGTTAGGCATGAGAAAAAGATGT
* * * *
17747774 AAGAGAGTTGTAAGATTTTATAGGTAGACATCTCATAAGACTACTAAAGATTTATGTCTTATGGG
66 AAGAGAATTGTAAGATTTTATGGGTAGACACCTCATAAGACTACTAAAGATTTACGTCTTATGGG
* * *
17747839 TGTGTATGTTTGTTTATGAGTGGACTATAGGAGACTGAAATGATCCAT-TAGGTATGATATATGG
131 TGTGTATGTTTGTTTATGAGTGGACTAGAGGAGACTGAAATGGTCCATATAGGTATGATGTATGG
* * * *
17747903 GTGCATCTAGGTATGTGTTTGGTTATATTGAAAGGGTGCACATGGGTATCTATTTGTTTGGGTTG
196 GTGCATATAGGTATGTGTTTGGTTGTATTGAAAGGGTGCACATGGGTATCTGTTTGTTTGAGTTG
*
17747968 AGAATACT-TCATAAAACTAAAAGAGATTGAGAGGGTCTATGGGTATTGATTGTTGAGTGATTGA
261 AGAATACTCT-ATAAGACTAAAAGAGATTGAGAGGGTCTATGGGTATTGATTGTTGAGTGATTGA
* * *
17748032 T-T-TTTTTATGTATGTTTGTAATTCTCTATAACTAGTGAATCTTATTTCTCATCCATGGACGTA
325 TATATTTTGATGTATGTTTGTAATTCTCTACAACTAGTGAATCTTATTTCTCATCCATGGACATA
* * ** * * * *
17748095 GGTTAATTGGATCGAACCATATTAAATTATTGTATCTTGTGTGATTAACTGATTATTTGATTTTG
390 AGTCAATTGGATCGAACCACGTTAAATTATTGTCTCTTATGTGATTGATTGATTATTTGATTTTG
* * * * * * *
17748160 TTTTCGCTAGCTTGATAAGATTGAGACCTTTTAGCCTAATAAGTGGTATTAGAGTTGTGGTGATC
455 CTTTCGCTGGCTTGATAAGATTGA-ACCTTTTAGCCTAACAAGTGGTATCAAAGCTATGGTGATC
* * * * * *
17748225 CCCAACAAATGGTATTAGAGCCGAAGGTTCAAAATAT-GAAAGGAGATAGAGGTTCGAGATATGA
519 CCCAACAAATGGTATTAGAGTCGAAAGTTCGAGATGTGGAAA-GAGATAGAGGTTCGAGACATGA
*
17748289 GAAGAGGCAAGCTTAGAGGAACTCGATTCAAAGAAGAAGTTCAAGTTAATGTTTTGAAGATCGAT
583 GAAGAGGCAAGCTTAGAGGAACTTGATTCAAAGAAGAAGTTCAAGTTAATGTTTTGAAGATCGAT
* * *
17748354 TTGCATGAAGCGTAAAGGCACACAAAAAAAGATGATTGTGAGACTTCCATTACAGGTAGAGTCAA
648 TTGCATGAAGCTTAAAGGCACACAAAAAAAGATGATTGTGAGACTTCCATTACAGGTGGAGCCAA
* *
17748419 GCATGTCTAGCATGAAGAT-GAATGATTGATGAAATTTGAGTCAAAGTGTAGATTGTTAGGAATA
713 GCATGTCTAGCATGAAGATAG-ATGATTGATGAAATTTGAGTCAAGGTGAAGATTGTTAGGAATA
*
17748483 ATGACTCAAATCTCATAAGAGATTTGTTTGGGATTTGTTAAAAGATTTGTTTGGGATTTGTTTGA
777 ATGACTCAAATCTCATAAGA-A---ATTT---ATTTG-----AGATTTGTTT--GA--------A
* * * **
17748548 GATTTGTTAGATATTGTTTGATGGATAAGAAAACTTACAGAAAAGAATTTTTTTAAAAAAAATTC
820 -ATTTGTTAGATATTGCTTGATGGATAAGAAAACTTATAGAAAAGAA-TTCTAAAAAAAAAATTC
*
17748613 TTAATAGGTAAGTTTGACTTGCAGAAGAAGAATTCTAAGAGGAAAGAGATTCTTAA
883 TTAATAGGCAAGTTTGACTTGCAGAAGAAGAATTCTAAGAGGAAAGAGATTCTTAA
* * * *
17748669 TAGGTAAGTTTGTATGGTTATAAATATGTGAAGTCTTTGTA-AGTTAGGCATGAGAAAAAGATGT
1 TAGGCAAGTTTGTATGGTTATAAATAGGTGAAGTCCTTGTAGGGTTAGGCATGAGAAAAAGATGT
* * *
17748733 AAAAGAATTGTAAGATTTTATGGGTAGACACCCCTATAAGACT-CTGAAGATTTACGTCTTATGG
66 AAGAGAATTGTAAGATTTTATGGGTAGACACCTC-ATAAGACTACTAAAGATTTACGTCTTATGG
* *
17748797 GTGTGTATGTTTGTTTGTGAGTGGACTAGAGGAGACTGAGATGGTCCATATAGGTATGATGTATG
130 GTGTGTATGTTTGTTTATGAGTGGACTAGAGGAGACTGAAATGGTCCATATAGGTATGATGTATG
* * * * * *
17748862 TGTGCATATGGGTATGGGTTTGGTTGTATTGAAATGGTGTACATGGGTATCTGTTTGTTTAAGTT
195 GGTGCATATAGGTATGTGTTTGGTTGTATTGAAAGGGTGCACATGGGTATCTGTTTGTTTGAGTT
* * * * *
17748927 GAGAATACTCTATAAGGACTAGAGGAGATTGAGAAGGTCTATGGGTATTGATTGTTAAGTGGTTG
260 GAGAATACTCTATAA-GACTAAAAGAGATTGAGAGGGTCTATGGGTATTGATTGTTGAGTGATTG
* * * **
17748992 ATATATTTTTATGTATGTTTGTAATTCTCTACAACTAGTGAATCTTGTTTATCATCTGTGGACAT
324 ATATATTTTGATGTATGTTTGTAATTCTCTACAACTAGTGAATCTTATTTCTCATCCATGGACAT
* * * *
17749057 AGGCCAATTGGA-CTGAACCATGTTAAATTGTTGTCTCTTATGTGATTGATTGATTATTTGATTT
389 AAGTCAATTGGATC-GAACCACGTTAAATTATTGTCTCTTATGTGATTGATTGATTATTTGATTT
* * * *
17749121 TGCTTCCACTGGCTTGATGAGATTGAAGCTTTTTAGCCTAACAAGTGGTATCAAAGCTATGGTGA
453 TGCTTTCGCTGGCTTGATAAGATTGAA-CCTTTTAGCCTAACAAGTGGTATCAAAGCTATGGTGA
17749186 TCCCCAACA
517 TCCCCAACA
17749195 GGTAGTGGGT
Statistics
Matches: 2107, Mismatches: 274, Indels: 71
0.86 0.11 0.03
Matches are distributed among these distances:
936 5 0.00
937 407 0.19
938 3 0.00
939 136 0.06
940 213 0.10
941 6 0.00
942 9 0.00
943 170 0.08
944 558 0.26
945 16 0.01
949 10 0.00
951 2 0.00
959 116 0.06
960 228 0.11
961 56 0.03
962 3 0.00
963 169 0.08
ACGTcount: A:0.33, C:0.09, G:0.24, T:0.34
Consensus pattern (938 bp):
TAGGCAAGTTTGTATGGTTATAAATAGGTGAAGTCCTTGTAGGGTTAGGCATGAGAAAAAGATGT
AAGAGAATTGTAAGATTTTATGGGTAGACACCTCATAAGACTACTAAAGATTTACGTCTTATGGG
TGTGTATGTTTGTTTATGAGTGGACTAGAGGAGACTGAAATGGTCCATATAGGTATGATGTATGG
GTGCATATAGGTATGTGTTTGGTTGTATTGAAAGGGTGCACATGGGTATCTGTTTGTTTGAGTTG
AGAATACTCTATAAGACTAAAAGAGATTGAGAGGGTCTATGGGTATTGATTGTTGAGTGATTGAT
ATATTTTGATGTATGTTTGTAATTCTCTACAACTAGTGAATCTTATTTCTCATCCATGGACATAA
GTCAATTGGATCGAACCACGTTAAATTATTGTCTCTTATGTGATTGATTGATTATTTGATTTTGC
TTTCGCTGGCTTGATAAGATTGAACCTTTTAGCCTAACAAGTGGTATCAAAGCTATGGTGATCCC
CAACAAATGGTATTAGAGTCGAAAGTTCGAGATGTGGAAAGAGATAGAGGTTCGAGACATGAGAA
GAGGCAAGCTTAGAGGAACTTGATTCAAAGAAGAAGTTCAAGTTAATGTTTTGAAGATCGATTTG
CATGAAGCTTAAAGGCACACAAAAAAAGATGATTGTGAGACTTCCATTACAGGTGGAGCCAAGCA
TGTCTAGCATGAAGATAGATGATTGATGAAATTTGAGTCAAGGTGAAGATTGTTAGGAATAATGA
CTCAAATCTCATAAGAAATTTATTTGAGATTTGTTTGAAATTTGTTAGATATTGCTTGATGGATA
AGAAAACTTATAGAAAAGAATTCTAAAAAAAAAATTCTTAATAGGCAAGTTTGACTTGCAGAAGA
AGAATTCTAAGAGGAAAGAGATTCTTAA
Found at i:17748519 original size:11 final size:11
Alignment explanation
Indices: 17748501--17748568 Score: 68
Period size: 11 Copynumber: 6.2 Consensus size: 11
17748491 AATCTCATAA
17748501 GAGATTTGTTT
1 GAGATTTGTTT
* *
17748512 GGGATTTGTTAA
1 GAGATTTGTT-T
*
17748524 AAGATTTGTTT
1 GAGATTTGTTT
*
17748535 GGGATTTGTTT
1 GAGATTTGTTT
17748546 GAGATTTG-TT
1 GAGATTTGTTT
17748556 -AGATATTGTTT
1 GAGAT-TTGTTT
17748567 GA
1 GA
17748569 TGGATAAGAA
Statistics
Matches: 45, Mismatches: 8, Indels: 7
0.75 0.13 0.12
Matches are distributed among these distances:
9 4 0.09
10 5 0.11
11 27 0.60
12 9 0.20
ACGTcount: A:0.22, C:0.00, G:0.28, T:0.50
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:17751582 original size:66 final size:66
Alignment explanation
Indices: 17751398--17751596 Score: 208
Period size: 66 Copynumber: 3.0 Consensus size: 66
17751388 TATTTTTAGC
* * * * * * *
17751398 TTTCTTTACCCTTTCATTTTCTTTAATTTAAAAATAATATTTATCTATTAGTCATGT-C-TTTTT
1 TTTCTTTATCTTTTCATTTTCTTCAATTTTAAAATAATATTTATCAATTAAT--TGTGCATCTTT
*
17751461 GGC
64 GGT
* *
17751464 TTTCTTTATCTTTTCATTTTCTTCGATTTTAAAAATAATATTTATTAATTAATTGTGCATCTTTG
1 TTTCTTTATCTTTTCATTTTCTTCAATTTT-AAAATAATATTTATCAATTAATTGTGCATCTTTG
17751529 GT
65 GT
* * * *
17751531 TTTGTTTATCGTTTTTATTTT-TTCAATTTTAAAATAATATTTATCCATTAATTGTG-ATCATTG
1 TTTCTTTATC-TTTTCATTTTCTTCAATTTTAAAATAATATTTATCAATTAATTGTGCATCTTTG
17751594 GT
65 GT
17751596 T
1 T
17751597 GTATTTTTTG
Statistics
Matches: 113, Mismatches: 16, Indels: 9
0.82 0.12 0.07
Matches are distributed among these distances:
65 12 0.11
66 50 0.44
67 42 0.37
68 9 0.08
ACGTcount: A:0.25, C:0.11, G:0.08, T:0.56
Consensus pattern (66 bp):
TTTCTTTATCTTTTCATTTTCTTCAATTTTAAAATAATATTTATCAATTAATTGTGCATCTTTGG
T
Found at i:17751615 original size:66 final size:68
Alignment explanation
Indices: 17751413--17751596 Score: 177
Period size: 67 Copynumber: 2.8 Consensus size: 68
17751403 TTACCCTTTC
* * * ** * *
17751413 ATTTTCTTTAA-TTTAAAAATAATATTTATCTATTAGTCATGT-C-TTTTTGGCTTTCTTTATC-
1 ATTTTCTTCAATTTTAAAAATAATATTTATCAATTAAT--TGTGCATCATTGGTTTTGTTTATCG
17751474 -TTTT
64 ATTTT
* * * *
17751478 CATTTTCTTCGATTTTAAAAATAATATTTATTAATTAATTGTGCATCTTTGGTTTTGTTTATCGT
1 -ATTTTCTTCAATTTTAAAAATAATATTTATCAATTAATTGTGCATCATTGGTTTTGTTTATCGA
17751543 TTTT
65 TTTT
*
17751547 ATTTT-TTCAATTTT-AAAATAATATTTATCCATTAATTGTG-ATCATTGGTT
1 ATTTTCTTCAATTTTAAAAATAATATTTATCAATTAATTGTGCATCATTGGTT
17751597 GTATTTTTTG
Statistics
Matches: 101, Mismatches: 12, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
65 12 0.12
66 34 0.34
67 46 0.46
68 5 0.05
69 4 0.04
ACGTcount: A:0.27, C:0.09, G:0.08, T:0.56
Consensus pattern (68 bp):
ATTTTCTTCAATTTTAAAAATAATATTTATCAATTAATTGTGCATCATTGGTTTTGTTTATCGAT
TTT
Found at i:17751791 original size:29 final size:30
Alignment explanation
Indices: 17751758--17751818 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
17751748 ATTAATTGTG
17751758 ATAATTGATTGTAGC-TTTTTTAGTTTTTT
1 ATAATTGATTGTAGCTTTTTTTAGTTTTTT
17751787 ATAATTGATTGTAGCTTTTTTTAGTTTTTT
1 ATAATTGATTGTAGCTTTTTTTAGTTTTTT
17751817 AT
1 AT
17751819 CTTTTGGTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 15 0.48
30 16 0.52
ACGTcount: A:0.21, C:0.03, G:0.13, T:0.62
Consensus pattern (30 bp):
ATAATTGATTGTAGCTTTTTTTAGTTTTTT
Found at i:17752883 original size:15 final size:17
Alignment explanation
Indices: 17752841--17752883 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
17752831 ATATAAAAAA
17752841 TATAAAAATATTAATAT
1 TATAAAAATATTAATAT
* *
17752858 TATAAATATATTACT-T
1 TATAAAAATATTAATAT
17752874 TA-AAAAATAT
1 TATAAAAATAT
17752884 AAAAAAGACA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 7 0.30
16 3 0.13
17 13 0.57
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (17 bp):
TATAAAAATATTAATAT
Found at i:17756280 original size:18 final size:18
Alignment explanation
Indices: 17756257--17756306 Score: 75
Period size: 19 Copynumber: 2.7 Consensus size: 18
17756247 NNATTAATTT
17756257 ATATTTATATTAAAAATA
1 ATATTTATATTAAAAATA
17756275 ATATTTTATATTAAAAAATA
1 ATA-TTTATATT-AAAAATA
17756295 ATATTT-TATTAA
1 ATATTTATATTAA
17756307 TTTCAGATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
17 2 0.07
18 7 0.23
19 11 0.37
20 10 0.33
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
ATATTTATATTAAAAATA
Found at i:17756284 original size:19 final size:20
Alignment explanation
Indices: 17756260--17756303 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
17756250 TTAATTTATA
17756260 TTTATATT-AAAAATAATAT
1 TTTATATTAAAAAATAATAT
17756279 TTTATATTAAAAAATAATAT
1 TTTATATTAAAAAATAATAT
17756299 TTTAT
1 TTTAT
17756304 TAATTTCAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TTTATATTAAAAAATAATAT
Found at i:17759352 original size:44 final size:44
Alignment explanation
Indices: 17759194--17759452 Score: 230
Period size: 44 Copynumber: 6.0 Consensus size: 44
17759184 AATTTTGATC
*
17759194 AAAGCTCCTCTAAGT-AGAGGCTTAACGACTTTGAGAAACATAAAT
1 AAAGCTCCTCTAA-TCAGAGGCTTAACGACTTTG-GAAAAATAAAT
* * * * *
17759239 ---GCTCCTCTAAACAAAAGCTCAACGACTTT-GAGAAATAAAT
1 AAAGCTCCTCTAATCAGAGGCTTAACGACTTTGGAAAAATAAAT
* * * * *
17759279 --TGCTCCTATAAACAAAGG--TAACAAAACTTTGGAAAAATAAAT
1 AAAGCTCCTCTAATCAGAGGCTTAAC--GACTTTGGAAAAATAAAT
* * * * *
17759321 GAAGCTCTTCTAAACAGAGACTTAACGACTTTGGAAAATTAAAT
1 AAAGCTCCTCTAATCAGAGGCTTAACGACTTTGGAAAAATAAAT
* * * *
17759365 AAAGCTCCTCTAATCAGAGGCTTAACAACTTCGAAAAAATAAAC
1 AAAGCTCCTCTAATCAGAGGCTTAACGACTTTGGAAAAATAAAT
*
17759409 AAAGCTCCTCTAATCAGAGGCTTAACGACTTTTGAAAAATAAAT
1 AAAGCTCCTCTAATCAGAGGCTTAACGACTTTGGAAAAATAAAT
17759453 GCTCCTTTAA
Statistics
Matches: 173, Mismatches: 32, Indels: 19
0.77 0.14 0.08
Matches are distributed among these distances:
39 3 0.02
40 9 0.05
41 20 0.12
42 34 0.20
44 103 0.60
46 4 0.02
ACGTcount: A:0.43, C:0.19, G:0.14, T:0.24
Consensus pattern (44 bp):
AAAGCTCCTCTAATCAGAGGCTTAACGACTTTGGAAAAATAAAT
Found at i:17759469 original size:41 final size:40
Alignment explanation
Indices: 17759197--17759538 Score: 210
Period size: 44 Copynumber: 8.1 Consensus size: 40
17759187 TTTGATCAAA
*
17759197 GCTCCTCTAAGTAGAGGCTTAACGACTTTGAGAAACATAAAT
1 GCTCCTCTAAATAGAGGCTTAACGACTTTGA-AAA-ATAAAT
* * * * *
17759239 GCTCCTCTAAACAAAAGCTCAACGACTTTGAGAAATAAATT
1 GCTCCTCTAAATAGAGGCTTAACGACTTTGAAAAATAAA-T
* * * *
17759280 GCTCCTATAAACAAAGG--TAACAAAACTTTGGAAAAATAAAT
1 GCTCCTCTAAATAGAGGCTTAAC--GACTTT-GAAAAATAAAT
* * * *
17759321 GAAGCTCTTCTAAACAGAGACTTAACGACTTTGGAAAATTAAAT
1 ---GCTCCTCTAAATAGAGGCTTAACGACTTT-GAAAAATAAAT
* * *
17759365 AAAGCTCCTCT-AATCAGAGGCTTAACAACTTCGAAAAAATAAACAAA
1 ---GCTCCTCTAAAT-AGAGGCTTAACGACTTTG-AAAAAT--A-AAT
17759412 GCTCCTCT-AATCAGAGGCTTAACGACTTTTGAAAAATAAAT
1 GCTCCTCTAAAT-AGAGGCTTAACGAC-TTTGAAAAATAAAT
* *** *
17759453 GCTCCTTTAAATAGAGGCACCACAACTTTTG-AAAATAAAAT
1 GCTCCTCTAAATAGAGGCTTAACGAC-TTTGAAAAAT-AAAT
* *
17759494 GCTTCTCTAAATAGAGG-TAACCACGACTTTGAAAAATAAAT
1 GCTCCTCTAAATAGAGGCTTA--ACGACTTTGAAAAATAAAT
17759535 GCTC
1 GCTC
17759539 TTGGAGACTA
Statistics
Matches: 240, Mismatches: 40, Indels: 41
0.75 0.12 0.13
Matches are distributed among these distances:
39 3 0.01
40 10 0.04
41 78 0.32
42 48 0.20
43 3 0.01
44 88 0.37
45 3 0.01
46 5 0.02
47 2 0.01
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.25
Consensus pattern (40 bp):
GCTCCTCTAAATAGAGGCTTAACGACTTTGAAAAATAAAT
Found at i:17759530 original size:42 final size:41
Alignment explanation
Indices: 17759433--17759538 Score: 144
Period size: 41 Copynumber: 2.6 Consensus size: 41
17759423 CAGAGGCTTA
* *
17759433 ACGACTTTTGAAAAATAAATGCTCCTTTAAATAGAGGCACC
1 ACGACTTTTGAAAAATAAATGCTCCTCTAAATAGAGGAACC
* *
17759474 ACAACTTTTG-AAAATAAAATGCTTCTCTAAATAGAGGTAACC
1 ACGACTTTTGAAAAAT-AAATGCTCCTCTAAATAGAGG-AACC
17759516 ACGAC-TTTGAAAAATAAATGCTC
1 ACGACTTTTGAAAAATAAATGCTC
17759539 TTGGAGACTA
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
40 5 0.09
41 39 0.70
42 12 0.21
ACGTcount: A:0.42, C:0.18, G:0.13, T:0.27
Consensus pattern (41 bp):
ACGACTTTTGAAAAATAAATGCTCCTCTAAATAGAGGAACC
Found at i:17760033 original size:20 final size:21
Alignment explanation
Indices: 17759976--17760241 Score: 158
Period size: 21 Copynumber: 12.3 Consensus size: 21
17759966 ACTTTAGGGT
* *
17759976 TTTGAATCTCAAATATTCTCA
1 TTTGAAACTCAAAGATTCTCA
17759997 TTTGAAACTCAAAGATTCTCA
1 TTTGAAACTCAAAGATTCTCA
* *
17760018 TTT-AAATTCGAAGATTCAT-A
1 TTTGAAACTCAAAGATTC-TCA
* **
17760038 TTTG--A-T--AA-ATTTTGGG
1 TTTGAAACTCAAAGATTCT-CA
* *
17760054 TTTCACACCTCAAAGATTCTCA
1 TTTGA-AACTCAAAGATTCTCA
*
17760076 TTTGAAACTCAAATATTCTCA
1 TTTGAAACTCAAAGATTCTCA
17760097 TTT-AACACTCAAAGATTCTCA
1 TTTGAA-ACTCAAAGATTCTCA
*
17760118 TTTGGAAACGTCTTAAAGATTCTTA
1 TTT-GAAAC-TC--AAAGATTCTCA
17760143 TTT-AAGACTCAAAGATTCTCA
1 TTTGAA-ACTCAAAGATTCTCA
* *
17760164 TTTGAAAATATCTTAAAGATTCTCC
1 TTTG--AA-A-CTCAAAGATTCTCA
*
17760189 TTT-AAGACTTAAAGATTCTCA
1 TTTGAA-ACTCAAAGATTCTCA
*
17760210 TTTGAAAATGTCTTAAAGATTCTCA
1 TTTG-AAA---CTCAAAGATTCTCA
17760235 TTTGAAA
1 TTTGAAA
17760242 ATCTAATTTC
Statistics
Matches: 196, Mismatches: 22, Indels: 51
0.73 0.08 0.19
Matches are distributed among these distances:
14 1 0.01
15 3 0.02
16 5 0.03
18 1 0.01
19 1 0.01
20 19 0.10
21 86 0.44
22 12 0.06
23 14 0.07
24 8 0.04
25 46 0.23
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (21 bp):
TTTGAAACTCAAAGATTCTCA
Found at i:17760155 original size:46 final size:46
Alignment explanation
Indices: 17760062--17760237 Score: 243
Period size: 46 Copynumber: 3.9 Consensus size: 46
17760052 GGTTTCACAC
* *
17760062 CTCAAAGATTCTCATTTG-AAAC-TC--AAATATTCTCATTTAACA
1 CTCAAAGATTCTCATTTGAAAACGTCTTAAAGATTCTCATTTAAGA
* *
17760104 CTCAAAGATTCTCATTTGGAAACGTCTTAAAGATTCTTATTTAAGA
1 CTCAAAGATTCTCATTTGAAAACGTCTTAAAGATTCTCATTTAAGA
** *
17760150 CTCAAAGATTCTCATTTGAAAATATCTTAAAGATTCTCCTTTAAGA
1 CTCAAAGATTCTCATTTGAAAACGTCTTAAAGATTCTCATTTAAGA
* *
17760196 CTTAAAGATTCTCATTTGAAAATGTCTTAAAGATTCTCATTT
1 CTCAAAGATTCTCATTTGAAAACGTCTTAAAGATTCTCATTT
17760238 GAAAATCTAA
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
42 18 0.15
43 4 0.03
44 2 0.02
46 95 0.80
ACGTcount: A:0.36, C:0.17, G:0.09, T:0.38
Consensus pattern (46 bp):
CTCAAAGATTCTCATTTGAAAACGTCTTAAAGATTCTCATTTAAGA
Found at i:17760242 original size:25 final size:25
Alignment explanation
Indices: 17760107--17760243 Score: 146
Period size: 25 Copynumber: 5.8 Consensus size: 25
17760097 TTTAACACTC
* *
17760107 AAAGATTCTCATTTGGAAACGTCTT
1 AAAGATTCTCATTTGAAAATGTCTT
* * *
17760132 AAAGATTCTTATTT---AA-GACTC
1 AAAGATTCTCATTTGAAAATGTCTT
*
17760153 AAAGATTCTCATTTGAAAATATCTT
1 AAAGATTCTCATTTGAAAATGTCTT
* *
17760178 AAAGATTCTCCTTT---AA-GACTT
1 AAAGATTCTCATTTGAAAATGTCTT
17760199 AAAGATTCTCATTTGAAAATGTCTT
1 AAAGATTCTCATTTGAAAATGTCTT
17760224 AAAGATTCTCATTTGAAAAT
1 AAAGATTCTCATTTGAAAAT
17760244 CTAATTTCTT
Statistics
Matches: 92, Mismatches: 12, Indels: 16
0.77 0.10 0.13
Matches are distributed among these distances:
21 32 0.35
22 4 0.04
24 4 0.04
25 52 0.57
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (25 bp):
AAAGATTCTCATTTGAAAATGTCTT
Found at i:17760264 original size:34 final size:37
Alignment explanation
Indices: 17760225--17760295 Score: 112
Period size: 34 Copynumber: 2.0 Consensus size: 37
17760215 AAATGTCTTA
*
17760225 AAGATTCTCATTTG-AAA-ATCTAATTTC-TTAAGAC
1 AAGATTCTCATTTGAAAACATCTAAATTCATTAAGAC
17760259 AAGATTCTCATTTGAAAACATCTAAATTCATTAAGAC
1 AAGATTCTCATTTGAAAACATCTAAATTCATTAAGAC
17760296 TTCAATTCAT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
34 14 0.42
35 3 0.09
36 9 0.27
37 7 0.21
ACGTcount: A:0.41, C:0.15, G:0.08, T:0.35
Consensus pattern (37 bp):
AAGATTCTCATTTGAAAACATCTAAATTCATTAAGAC
Found at i:17761517 original size:14 final size:13
Alignment explanation
Indices: 17761510--17761554 Score: 53
Period size: 11 Copynumber: 3.8 Consensus size: 13
17761500 TTTTTTTTCC
17761510 TCTTTTTTCTTTA
1 TCTTTTTTCTTTA
*
17761523 TCTTTTTTC-TCA
1 TCTTTTTTCTTTA
17761535 T-TTTTTTCTTT-
1 TCTTTTTTCTTTA
17761546 T-TTTTTTCT
1 TCTTTTTTCT
17761555 CATTTTTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
11 16 0.55
12 4 0.14
13 9 0.31
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.80
Consensus pattern (13 bp):
TCTTTTTTCTTTA
Found at i:17761528 original size:22 final size:21
Alignment explanation
Indices: 17761498--17761585 Score: 106
Period size: 22 Copynumber: 4.0 Consensus size: 21
17761488 CCTTTCCCTT
17761498 TTTTTTTTTTCCTC-TTTTTTC
1 TTTTTTTTTT-CTCATTTTTTC
17761519 TTTATCTTTTTTCTCATTTTTTTC
1 TTT-T-TTTTTTCTCA-TTTTTTC
17761543 TTTTTTTTTTCTCATTTTTTTC
1 TTTTTTTTTTCTCA-TTTTTTC
*
17761565 ATTCTTTTTTTCTCATTTTTT
1 -TTTTTTTTTTCTCATTTTTT
17761586 ATCCTCTTCT
Statistics
Matches: 61, Mismatches: 1, Indels: 9
0.86 0.01 0.13
Matches are distributed among these distances:
21 3 0.05
22 28 0.46
23 20 0.33
24 10 0.16
ACGTcount: A:0.06, C:0.16, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTTTTTTTTCTCATTTTTTC
Found at i:17761548 original size:31 final size:32
Alignment explanation
Indices: 17761510--17761573 Score: 87
Period size: 31 Copynumber: 2.0 Consensus size: 32
17761500 TTTTTTTTCC
17761510 TCTTTTTTCTTTATC-TTTTTTCTCATT-TTTT
1 TCTTTTTTCTTTATCATTTTTT-TCATTCTTTT
* *
17761541 TCTTTTTTTTTTCTCATTTTTTTCATTCTTTT
1 TCTTTTTTCTTTATCATTTTTTTCATTCTTTT
17761573 T
1 T
17761574 TTCTCATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 18 0.62
32 11 0.38
ACGTcount: A:0.06, C:0.16, G:0.00, T:0.78
Consensus pattern (32 bp):
TCTTTTTTCTTTATCATTTTTTTCATTCTTTT
Found at i:17761576 original size:23 final size:22
Alignment explanation
Indices: 17761525--17761606 Score: 110
Period size: 22 Copynumber: 3.5 Consensus size: 22
17761515 TTTCTTTATC
*
17761525 TTTTTTCTCATTTTTTTCTTTT
1 TTTTTTCTCATTTTTTTCTTCT
17761547 TTTTTTCTCATTTTTTTCATTCT
1 TTTTTTCTCATTTTTTTC-TTCT
17761570 TTTTTTCTCATTTTTTATCCTCTTCT
1 TTTTTTCTCA-TTTTT-T--TCTTCT
17761596 TTTTTTCTCAT
1 TTTTTTCTCAT
17761607 CTTTCACCCA
Statistics
Matches: 54, Mismatches: 1, Indels: 7
0.87 0.02 0.11
Matches are distributed among these distances:
22 18 0.33
23 13 0.24
24 5 0.09
25 2 0.04
26 14 0.26
27 2 0.04
ACGTcount: A:0.07, C:0.18, G:0.00, T:0.74
Consensus pattern (22 bp):
TTTTTTCTCATTTTTTTCTTCT
Found at i:17761583 original size:11 final size:11
Alignment explanation
Indices: 17761525--17761585 Score: 79
Period size: 11 Copynumber: 5.5 Consensus size: 11
17761515 TTTCTTTATC
17761525 TTTTTTCTCAT
1 TTTTTTCTCAT
**
17761536 TTTTTTCTTTT
1 TTTTTTCTCAT
17761547 TTTTTTCTCAT
1 TTTTTTCTCAT
17761558 TTTTTTCATTC-T
1 TTTTTTC--TCAT
17761570 TTTTTTCTCAT
1 TTTTTTCTCAT
17761581 TTTTT
1 TTTTT
17761586 ATCCTCTTCT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
10 2 0.05
11 31 0.72
12 8 0.19
13 2 0.05
ACGTcount: A:0.07, C:0.15, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTTTCTCAT
Found at i:17761609 original size:13 final size:13
Alignment explanation
Indices: 17761499--17761610 Score: 66
Period size: 13 Copynumber: 9.2 Consensus size: 13
17761489 CTTTCCCTTT
* *
17761499 TTTTTTTTTCCTC
1 TTTTTTTCTCATC
*
17761512 -TTTTTTCTTTATC
1 TTTTTTTC-TCATC
17761525 -TTTTTTCTCA--
1 TTTTTTTCTCATC
17761535 TTTTTTTCT--T-
1 TTTTTTTCTCATC
17761545 TTTTTTT-TC-TC
1 TTTTTTTCTCATC
*
17761556 ATTTTTT-TCATTC
1 TTTTTTTCTCA-TC
17761569 TTTTTTTCTCAT-
1 TTTTTTTCTCATC
* *
17761581 TTTTTATCCTCTTC
1 TTTTT-TTCTCATC
17761595 TTTTTTTCTCATC
1 TTTTTTTCTCATC
17761608 TTT
1 TTT
17761611 CACCCATTGT
Statistics
Matches: 79, Mismatches: 10, Indels: 20
0.72 0.09 0.18
Matches are distributed among these distances:
9 1 0.01
10 8 0.10
11 16 0.20
12 13 0.16
13 33 0.42
14 8 0.10
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.75
Consensus pattern (13 bp):
TTTTTTTCTCATC
Found at i:17762231 original size:18 final size:18
Alignment explanation
Indices: 17762208--17762248 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
17762198 AAGCTCATGG
17762208 ATCTTCATAAAAGATTGC
1 ATCTTCATAAAAGATTGC
17762226 ATCTTCATAAAAGATTGC
1 ATCTTCATAAAAGATTGC
17762244 ATCTT
1 ATCTT
17762249 TAAGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.37
Consensus pattern (18 bp):
ATCTTCATAAAAGATTGC
Found at i:17766716 original size:54 final size:54
Alignment explanation
Indices: 17766626--17766733 Score: 153
Period size: 54 Copynumber: 2.0 Consensus size: 54
17766616 AATGGGTAGC
* * * * * *
17766626 CTAAATAGGGGATGGTAGAGATTAGTGGACTGTTTCTGGCCACAAGGTAATGGT
1 CTAAATAGGGGATGGCAAAGATCAGTGAACTATTTCTAGCCACAAGGTAATGGT
*
17766680 CTAAATGGGGGATGGCAAAGATCAGTGAACTATTTCTAGCCACAAGGTAATGGT
1 CTAAATAGGGGATGGCAAAGATCAGTGAACTATTTCTAGCCACAAGGTAATGGT
17766734 GTGGTAAGCG
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.31, C:0.13, G:0.31, T:0.26
Consensus pattern (54 bp):
CTAAATAGGGGATGGCAAAGATCAGTGAACTATTTCTAGCCACAAGGTAATGGT
Found at i:17767116 original size:20 final size:18
Alignment explanation
Indices: 17767070--17767120 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 18
17767060 TAGATGGATC
17767070 ATAAAATAAAATAAAAAA
1 ATAAAATAAAATAAAAAA
*
17767088 ATGATAAATACGAAATAAAAAT
1 AT-A-AAATA--AAATAAAAAA
17767110 ATAAAATAAAA
1 ATAAAATAAAA
17767121 ATGAATAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
18 5 0.18
19 1 0.04
20 10 0.36
21 1 0.04
22 11 0.39
ACGTcount: A:0.75, C:0.02, G:0.04, T:0.20
Consensus pattern (18 bp):
ATAAAATAAAATAAAAAA
Found at i:17768886 original size:2 final size:2
Alignment explanation
Indices: 17768879--17768903 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
17768869 TTGCTGAGCC
17768879 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
17768904 GGTATTTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:17769651 original size:86 final size:85
Alignment explanation
Indices: 17769539--17769709 Score: 315
Period size: 86 Copynumber: 2.0 Consensus size: 85
17769529 CGCCTATTTT
17769539 TGGAAGGTTGTTCCTCGTTGAACAGCCTATCAATTTTAGTTAAAAATTTTGAAATAAACAAAATA
1 TGGAAGGTTGTTCCTCGTTGAACAGCCTATCAATTTTAGTTAAAAATTTTGAAAT-AACAAAATA
17769604 AAATTTCATATCTTATTGAGC
65 AAATTTCATATCTTATTGAGC
*
17769625 TGGAAGGTTGTTCCTCGTTGAACAGCCTATCAATTTTAGTTAAAAATTTTGAAATACCAAAATAA
1 TGGAAGGTTGTTCCTCGTTGAACAGCCTATCAATTTTAGTTAAAAATTTTGAAATAACAAAATAA
*
17769690 AATTTCGTATCTTATTGAGC
66 AATTTCATATCTTATTGAGC
17769710 CATTGTCACT
Statistics
Matches: 83, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
85 28 0.34
86 55 0.66
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (85 bp):
TGGAAGGTTGTTCCTCGTTGAACAGCCTATCAATTTTAGTTAAAAATTTTGAAATAACAAAATAA
AATTTCATATCTTATTGAGC
Found at i:17778876 original size:52 final size:52
Alignment explanation
Indices: 17778810--17778913 Score: 136
Period size: 52 Copynumber: 2.0 Consensus size: 52
17778800 GGACAAAAAA
* *
17778810 ACTTACAGCAGAAGAATTCTAAAAGGAAAAAAAATTTTAATAGGCAAGTTTG
1 ACTTACAGAAGAAGAATTCTAAAAGGAAAAAAAATTTTAATAGACAAGTTTG
* * * * * *
17778862 ACTTATAGAAGAAGAATTTTAAGAGGAAAGAGATTTTTAATAGACAAGTTTG
1 ACTTACAGAAGAAGAATTCTAAAAGGAAAAAAAATTTTAATAGACAAGTTTG
17778914 TATGGTTATA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.46, C:0.07, G:0.19, T:0.28
Consensus pattern (52 bp):
ACTTACAGAAGAAGAATTCTAAAAGGAAAAAAAATTTTAATAGACAAGTTTG
Found at i:17779533 original size:11 final size:11
Alignment explanation
Indices: 17779518--17779559 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
17779508 GATTCAAAGA
17779518 AGATTTGTTTG
1 AGATTTGTTTG
*
17779529 GGATTTGTTTG
1 AGATTTGTTTG
*
17779540 AGATTTGTTTA
1 AGATTTGTTTG
*
17779551 AAATTTGTT
1 AGATTTGTT
17779560 AGATATTGCT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.21, C:0.00, G:0.24, T:0.55
Consensus pattern (11 bp):
AGATTTGTTTG
Found at i:17780619 original size:52 final size:50
Alignment explanation
Indices: 17780520--17780621 Score: 143
Period size: 52 Copynumber: 2.0 Consensus size: 50
17780510 GGATAAAAAA
17780520 ACTTACAGAAAAGAATTCTTAAAAAAAAAGATTCTTAATAGCCAAGTTTG
1 ACTTACAGAAAAGAATTCTTAAAAAAAAAGATTCTTAATAGCCAAGTTTG
* **
17780570 ACTTACAGAAGAAGAATTC-TAAGAGAAAAGAGATTCTTAATAGGTAAGTTTG
1 ACTTACAGAA-AAGAATTCTTAA-A-AAAAAAGATTCTTAATAGCCAAGTTTG
17780622 TATGGTTATA
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
50 13 0.28
51 9 0.20
52 24 0.52
ACGTcount: A:0.46, C:0.10, G:0.17, T:0.27
Consensus pattern (50 bp):
ACTTACAGAAAAGAATTCTTAAAAAAAAAGATTCTTAATAGCCAAGTTTG
Found at i:17783324 original size:24 final size:24
Alignment explanation
Indices: 17783279--17783324 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
17783269 TTTGTTAATG
*
17783279 ATCATAAAATTAATTATATAATAT
1 ATCATAAAATTAATAATATAATAT
17783303 ATCATAAAATTTAATAAT-TAAT
1 ATCATAAAA-TTAATAATATAAT
17783325 TGTGATAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.41
Consensus pattern (24 bp):
ATCATAAAATTAATAATATAATAT
Found at i:17783478 original size:67 final size:65
Alignment explanation
Indices: 17783347--17783535 Score: 195
Period size: 66 Copynumber: 2.8 Consensus size: 65
17783337 TATTTTTAGC
* * * * * *
17783347 TTTCTTTACCCTTTCATTTTCTTTAATTTAAAAATAATATTTATCTATTAGTCGTGTCTTTTTGG
1 TTTCTTTATCTTTTCATTTTCTTTATTTTAAAAATAATATTTAT-TATTAATTGTGTCTCTTTGG
17783412 T
65 T
17783413 TTTCTTTATCTTTTCATTTTCTTTGATTTTAAAAATAATATTTATTAATTAATTGTG-CATCTTT
1 TTTCTTTATCTTTTCATTTTCTTT-ATTTTAAAAATAATATTTATT-ATTAATTGTGTC-TCTTT
17783477 GGT
63 GGT
* * ** *
17783480 TTTGTTTATCGTTTTTATGTTT-TCAATTTT-AAAATAATATTTATCCATTAATTGTG
1 TTTCTTTATC-TTTTCAT-TTTCTTTATTTTAAAAATAATATTTAT-TATTAATTGTG
17783536 ATAATTGGTT
Statistics
Matches: 106, Mismatches: 11, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
66 48 0.45
67 48 0.45
68 7 0.07
69 3 0.03
ACGTcount: A:0.25, C:0.10, G:0.08, T:0.57
Consensus pattern (65 bp):
TTTCTTTATCTTTTCATTTTCTTTATTTTAAAAATAATATTTATTATTAATTGTGTCTCTTTGGT
Found at i:17783562 original size:66 final size:67
Alignment explanation
Indices: 17783438--17783563 Score: 148
Period size: 66 Copynumber: 1.9 Consensus size: 67
17783428 ATTTTCTTTG
* ** ** * *
17783438 ATTTTAAAAATAATATTTATTAATTAATTGTGCATCTTTGGTTTTGTTTATCGTTTTTATGTTTT
1 ATTTTAAAAATAATATTTATCAATTAATTGTGCATAATTGGTTTACTTTATAGATTTTATGTTTT
17783503 CA
66 CA
* *
17783505 ATTTT-AAAATAATATTTATCCATTAATTGTG-ATAATTGGTTGTACTTTTTAGATTTTAT
1 ATTTTAAAAATAATATTTATCAATTAATTGTGCATAATTGGTT-TACTTTATAGATTTTAT
17783564 TATCTTTTGA
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
65 8 0.16
66 36 0.73
67 5 0.10
ACGTcount: A:0.29, C:0.06, G:0.10, T:0.55
Consensus pattern (67 bp):
ATTTTAAAAATAATATTTATCAATTAATTGTGCATAATTGGTTTACTTTATAGATTTTATGTTTT
CA
Found at i:17783750 original size:29 final size:30
Alignment explanation
Indices: 17783708--17783768 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
17783698 ATTAATTGTG
17783708 ATAATTGATTGTAGC-TTTTTTAGTTTTTT
1 ATAATTGATTGTAGCTTTTTTTAGTTTTTT
17783737 ATAATTGATTGTAGCTTTTTTTAGTTTTTT
1 ATAATTGATTGTAGCTTTTTTTAGTTTTTT
17783767 AT
1 AT
17783769 CTTTTGGTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 15 0.48
30 16 0.52
ACGTcount: A:0.21, C:0.03, G:0.13, T:0.62
Consensus pattern (30 bp):
ATAATTGATTGTAGCTTTTTTTAGTTTTTT
Found at i:17787628 original size:2 final size:2
Alignment explanation
Indices: 17787617--17787671 Score: 94
Period size: 2 Copynumber: 28.0 Consensus size: 2
17787607 TGGATTTTTG
17787617 GA GA -A GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
*
17787658 GA GA GA GA GG GA GA
1 GA GA GA GA GA GA GA
17787672 TTTAGAGAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 49 0.98
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:17790779 original size:2 final size:2
Alignment explanation
Indices: 17790759--17790810 Score: 52
Period size: 2 Copynumber: 26.5 Consensus size: 2
17790749 AAGGTGGATA
* * * * *
17790759 AT AT TT AT AT -T AG AT AT AT AT AT AT AA AT AA AT AT AT AA AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17790800 AT AT AT AT AT A
1 AT AT AT AT AT A
17790811 AACTAGATTG
Statistics
Matches: 39, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (2 bp):
AT
Found at i:17791725 original size:80 final size:79
Alignment explanation
Indices: 17791583--17791740 Score: 221
Period size: 80 Copynumber: 2.0 Consensus size: 79
17791573 TTGATCTCTT
* * *
17791583 TTTTCTTATGAGATTGACACTTTCATTAAGGCGATTGTTTTTTTAAGATAAATAAATTTAATAAT
1 TTTTCTTATGAGATTGACACTTTCAATAAGGCAATTGTTTTTTTAAGATAAATAAATCTAATAAT
*
17791648 TAAATAATGAATTC
66 TAAATAATAAATTC
*
17791662 TTTT-TTATGAGATTGATACTTTCAATAATGG-AATTGTTTTTTTATAAGATAAATAAATCTAAT
1 TTTTCTTATGAGATTGACACTTTCAATAA-GGCAATTG-TTTTTT-TAAGATAAATAAATCTAAT
*
17791725 AATTGAATAATAAATT
63 AATTAAATAATAAATT
17791741 TATTATAATT
Statistics
Matches: 70, Mismatches: 6, Indels: 5
0.86 0.07 0.06
Matches are distributed among these distances:
78 26 0.37
79 12 0.17
80 32 0.46
ACGTcount: A:0.39, C:0.06, G:0.11, T:0.45
Consensus pattern (79 bp):
TTTTCTTATGAGATTGACACTTTCAATAAGGCAATTGTTTTTTTAAGATAAATAAATCTAATAAT
TAAATAATAAATTC
Found at i:17792630 original size:15 final size:16
Alignment explanation
Indices: 17792593--17792634 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
17792583 TGACTTTTAT
17792593 TTTGTATTTTATATTA
1 TTTGTATTTTATATTA
* *
17792609 TTT-TATTTT-TTTTC
1 TTTGTATTTTATATTA
17792623 TTTGTATTTTAT
1 TTTGTATTTTAT
17792635 GCATTTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 6 0.27
15 12 0.55
16 4 0.18
ACGTcount: A:0.17, C:0.02, G:0.05, T:0.76
Consensus pattern (16 bp):
TTTGTATTTTATATTA
Found at i:17792687 original size:4 final size:4
Alignment explanation
Indices: 17792680--17792853 Score: 67
Period size: 4 Copynumber: 43.2 Consensus size: 4
17792670 TGCTAATATC
* * * * *
17792680 TTTA TTTA -TTA TTTA TTTT TCTTC TGTTA -ATA TTTA TATA TGTA TTTTA
1 TTTA TTTA TTTA TTTA TTTA T-TTA T-TTA TTTA TTTA TTTA TTTA -TTTA
* * *
17792729 TTTA TCTA GTTA TATA TTTA -TTA TTATA TTATAA TTTA TTTA -TTA -TTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TT-TA TT-T-A TTTA TTTA TTTA TTTA
* * *
17792777 TTT- TTTA TTTA TCTTG TAATA TTT- TTTA TTTA TCTTA TTT- TTTT TTTA
1 TTTA TTTA TTTA T-TTA T-TTA TTTA TTTA TTTA T-TTA TTTA TTTA TTTA
* * * * *
17792825 ATTA TCTA TTAA TTTT TTTA TTCA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
17792854 ATGATTTTTT
Statistics
Matches: 126, Mismatches: 31, Indels: 26
0.69 0.17 0.14
Matches are distributed among these distances:
3 23 0.18
4 76 0.60
5 24 0.19
6 3 0.02
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.68
Consensus pattern (4 bp):
TTTA
Found at i:17792747 original size:21 final size:20
Alignment explanation
Indices: 17792722--17792835 Score: 75
Period size: 20 Copynumber: 5.9 Consensus size: 20
17792712 TTTATATATG
17792722 TATTTTATTTATCTAGTTATA
1 TATTTTATTTATCTA-TTATA
17792743 TA-TTTA-TTAT-TA-TATTA
1 TATTTTATTTATCTATTA-TA
*
17792760 TAATTTATTTAT-TATTAT-
1 TATTTTATTTATCTATTATA
17792778 T-TTTTATTTATCT-TGTAATA
1 TATTTTATTTATCTAT-T-ATA
* *
17792798 TTTTTTATTTATCTTATT-TT
1 TATTTTATTTATC-TATTATA
* *
17792818 TTTTTTAATTATCTATTA
1 TATTTTATTTATCTATTA
17792836 ATTTTTTTAT
Statistics
Matches: 78, Mismatches: 3, Indels: 25
0.74 0.03 0.24
Matches are distributed among these distances:
16 2 0.03
17 14 0.18
18 9 0.12
19 17 0.22
20 20 0.26
21 13 0.17
22 2 0.03
23 1 0.01
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.68
Consensus pattern (20 bp):
TATTTTATTTATCTATTATA
Found at i:17792820 original size:19 final size:19
Alignment explanation
Indices: 17792763--17792883 Score: 75
Period size: 21 Copynumber: 6.1 Consensus size: 19
17792753 TATATTATAA
*
17792763 TTTATTTA--TTATTATTT
1 TTTATTTATCTTATTTTTT
* *
17792780 TTTATTTATCTTGTAATATTT
1 TTTATTTATC-T-TATTTTTT
17792801 TTTATTTATCTTATTTTTTT
1 TTTATTTATCTTA-TTTTTT
*
17792821 TTTAATTATCTATTAATTTTTT
1 TTTATTTATC--TT-ATTTTTT
* *
17792843 TATTCATTTATATGATTTTTT
1 T-TT-ATTTATCTTATTTTTT
** *
17792864 TTCGTTTATCTGATTTTTT
1 TTTATTTATCTTATTTTTT
17792883 T
1 T
17792884 CTCTTTTTTG
Statistics
Matches: 84, Mismatches: 10, Indels: 18
0.75 0.09 0.16
Matches are distributed among these distances:
17 8 0.10
19 17 0.20
20 16 0.19
21 25 0.30
22 10 0.12
23 3 0.04
24 5 0.06
ACGTcount: A:0.21, C:0.05, G:0.03, T:0.71
Consensus pattern (19 bp):
TTTATTTATCTTATTTTTT
Found at i:17792829 original size:55 final size:56
Alignment explanation
Indices: 17792724--17792834 Score: 129
Period size: 55 Copynumber: 2.0 Consensus size: 56
17792714 TATATATGTA
17792724 TTTTATTTATCTAGTTATATATTTATTATTATATTATAATTTATTTATTAT-TATT
1 TTTTATTTATCTAGTTATATATTTATTATTATATTATAATTTATTTATTATCTATT
* * * ** *
17792779 TTTTATTTATCTTG-TA-ATATTTTTTATTTATCTTATTTTTTTTTTAATTATCTATT
1 TTTTATTTATCTAGTTATATATTTATTA-TTATATTATAATTTATTT-ATTATCTATT
17792835 AATTTTTTTA
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
53 9 0.19
54 16 0.34
55 18 0.38
56 4 0.09
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.68
Consensus pattern (56 bp):
TTTTATTTATCTAGTTATATATTTATTATTATATTATAATTTATTTATTATCTATT
Found at i:17792840 original size:21 final size:20
Alignment explanation
Indices: 17792762--17792883 Score: 88
Period size: 20 Copynumber: 5.8 Consensus size: 20
17792752 TTATATTATA
*
17792762 ATTTATTTATTATTATTTTTT
1 ATTTATCTATTATT-TTTTTT
*
17792783 ATTTATCT-TGTAATATTTTTT
1 ATTTATCTAT-T-ATTTTTTTT
17792804 ATTTATCTTATT-TTTTTTTT
1 ATTTATC-TATTATTTTTTTT
* *
17792824 AATTATCTATTAATTTTTTT
1 ATTTATCTATTATTTTTTTT
* *
17792844 ATTCATTTATATGATTTTTTTT
1 ATTTATCTAT-T-ATTTTTTTT
*
17792866 CGTTTATCTGATT-TTTTT
1 -ATTTATCT-ATTATTTTT
17792884 CTCTTTTTTG
Statistics
Matches: 80, Mismatches: 12, Indels: 18
0.73 0.11 0.16
Matches are distributed among these distances:
19 4 0.05
20 28 0.35
21 27 0.34
22 12 0.15
23 7 0.09
24 2 0.03
ACGTcount: A:0.21, C:0.05, G:0.03, T:0.70
Consensus pattern (20 bp):
ATTTATCTATTATTTTTTTT
Found at i:17792862 original size:41 final size:41
Alignment explanation
Indices: 17792771--17792864 Score: 106
Period size: 41 Copynumber: 2.3 Consensus size: 41
17792761 AATTTATTTA
* *
17792771 TTATTA-TTTTTTATTTATCTTGTAATATTTTTTATTTATC
1 TTATTATTTTTTTAATTATCTTGTAATATTTTTTATTCATC
*
17792811 TTATTTTTTTTTTAATTATCTAT-TAAT-TTTTTTATTCAT-
1 TTATTATTTTTTTAATTATCT-TGTAATATTTTTTATTCATC
17792850 TTATATGATTTTTTT
1 TTAT-T-ATTTTTTT
17792865 TCGTTTATCT
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
39 4 0.09
40 17 0.37
41 24 0.52
42 1 0.02
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.71
Consensus pattern (41 bp):
TTATTATTTTTTTAATTATCTTGTAATATTTTTTATTCATC
Found at i:17792884 original size:18 final size:19
Alignment explanation
Indices: 17792838--17792883 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
17792828 ATCTATTAAT
17792838 TTTTTTATTCATTTATATGA
1 TTTTTT-TTCATTTATATGA
* *
17792858 TTTTTTTTCGTTTATCTGA
1 TTTTTTTTCATTTATATGA
17792877 TTTTTTT
1 TTTTTTT
17792884 CTCTTTTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.15, C:0.07, G:0.07, T:0.72
Consensus pattern (19 bp):
TTTTTTTTCATTTATATGA
Found at i:17793844 original size:27 final size:27
Alignment explanation
Indices: 17793809--17793878 Score: 72
Period size: 27 Copynumber: 2.5 Consensus size: 27
17793799 TTATCTTTAT
17793809 TTTATTTTTATTTTTGTTTTA-ATTTTC
1 TTTATTTTTATTTTT-TTTTATATTTTC
*
17793836 TTTATTTTT-TTATTTTTTTATTTTTTTC
1 TTTATTTTTATT-TTTTTTTA-TATTTTC
*
17793864 TTCCATTTTTATTTT
1 TT-TATTTTTATTTT
17793879 ATTATTTTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
26 7 0.19
27 12 0.33
28 7 0.19
29 8 0.22
30 2 0.06
ACGTcount: A:0.13, C:0.06, G:0.01, T:0.80
Consensus pattern (27 bp):
TTTATTTTTATTTTTTTTTATATTTTC
Found at i:17793849 original size:8 final size:8
Alignment explanation
Indices: 17793808--17793891 Score: 71
Period size: 8 Copynumber: 9.6 Consensus size: 8
17793798 TTTATCTTTA
17793808 TTTTATTT
1 TTTTATTT
17793816 TTATT-TTT
1 TT-TTATTT
17793824 GTTTTAATTT
1 -TTTT-ATTT
17793834 TCTTTATTT
1 T-TTTATTT
17793843 TTTTATTT
1 TTTTATTT
17793851 TTTTATTT
1 TTTTATTT
*
17793859 TTTTCTTCCAT
1 TTTTATT---T
17793870 TTTTATTT
1 TTTTATTT
*
17793878 TATTATTT
1 TTTTATTT
17793886 TCTTTA
1 T-TTTA
17793892 AATAAAATCA
Statistics
Matches: 63, Mismatches: 4, Indels: 17
0.75 0.05 0.20
Matches are distributed among these distances:
8 37 0.59
9 13 0.21
10 6 0.10
11 7 0.11
ACGTcount: A:0.14, C:0.06, G:0.01, T:0.79
Consensus pattern (8 bp):
TTTTATTT
Found at i:17793862 original size:39 final size:39
Alignment explanation
Indices: 17793787--17793860 Score: 100
Period size: 37 Copynumber: 1.9 Consensus size: 39
17793777 ATTAGGTTTA
17793787 TTTAATATTCTTTTATCTTTATTTTATTTTTATTTTTGT
1 TTTAATATTCTTTTATCTTTATTTTATTTTTATTTTTGT
* *
17793826 TTTAATTTTC-TTTAT-TTT-TTTATTTTTTTATTTTT
1 TTTAATATTCTTTTATCTTTATTT-TATTTTTATTTTT
17793861 TTCTTCCATT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 3 0.09
37 15 0.47
38 5 0.16
39 9 0.28
ACGTcount: A:0.16, C:0.04, G:0.01, T:0.78
Consensus pattern (39 bp):
TTTAATATTCTTTTATCTTTATTTTATTTTTATTTTTGT
Found at i:17793965 original size:60 final size:60
Alignment explanation
Indices: 17793899--17794237 Score: 430
Period size: 59 Copynumber: 5.7 Consensus size: 60
17793889 TTAAATAAAA
*
17793899 TCAAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATGAAAGTTT
1 TCAAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATAAAAGTTT
17793959 TC-AAAAAATATTTTTGG-GAAAAAGTTGAAAGTATCAATTTTCCTCGAAAATAAAAGTTT
1 TCAAAAAAATATTTTTGGAG-AAAAGTTGAAAGTATCAATTTTCCTCGAAAATAAAAGTTT
* * ** *
17794018 TC-AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-GAA-TTT
1 TCAAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATAAAAGTTT
* *
17794075 TCAAAAAAA-GTTTTT-GAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAAATAAAAGTTT
1 TCAAAAAAATATTTTTGGA-GAAAAGTTGAAAGTATCAATTTTCCTCGAAAATAAAAGTTT
* * *
17794134 CCAAAAAAATATTTTT-GAGAAAAAGTTGAAAGTATTAATTTTCCTCG-AAATTAAAG-TT
1 TCAAAAAAATATTTTTGGAG-AAAAGTTGAAAGTATCAATTTTCCTCGAAAATAAAAGTTT
17794192 TCAAAAAAAAAATATTTTTTAGG-GAAAAGTTGAAAGTATCAATTTT
1 TC---AAAAAAATA-TTTTT-GGAGAAAAGTTGAAAGTATCAATTTT
17794238 TCCTGCATAA
Statistics
Matches: 248, Mismatches: 17, Indels: 26
0.85 0.06 0.09
Matches are distributed among these distances:
56 1 0.00
57 41 0.17
58 14 0.06
59 120 0.48
60 35 0.14
61 9 0.04
62 26 0.10
63 1 0.00
64 1 0.00
ACGTcount: A:0.44, C:0.07, G:0.14, T:0.35
Consensus pattern (60 bp):
TCAAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATAAAAGTTT
Found at i:17798156 original size:24 final size:23
Alignment explanation
Indices: 17798128--17798188 Score: 63
Period size: 23 Copynumber: 2.6 Consensus size: 23
17798118 ACAATGGATG
17798128 AAAAATGAGAAAAAAA-AGAAGA
1 AAAAATGAGAAAAAAAGAGAAGA
**
17798150 TAAAAAAAAGGAAAAAAATGAGAAGA
1 -AAAAATGA-GAAAAAAA-GAGAAGA
17798176 AAAAATGA-AAAAA
1 AAAAATGAGAAAAA
17798189 GATATTCAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
23 11 0.35
24 8 0.26
25 6 0.19
26 6 0.19
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.07
Consensus pattern (23 bp):
AAAAATGAGAAAAAAAGAGAAGA
Found at i:17798164 original size:22 final size:23
Alignment explanation
Indices: 17798139--17798190 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
17798129 AAAATGAGAA
*
17798139 AAAAAAGAAGATAA-AAAAAAGG
1 AAAAAAGAAGAGAAGAAAAAAGG
* *
17798161 AAAAAA-ATGAGAAGAAAAAATG
1 AAAAAAGAAGAGAAGAAAAAAGG
17798183 AAAAAAGA
1 AAAAAAGA
17798191 TATTCAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 5 0.20
22 19 0.76
23 1 0.04
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.06
Consensus pattern (23 bp):
AAAAAAGAAGAGAAGAAAAAAGG
Found at i:17799531 original size:43 final size:42
Alignment explanation
Indices: 17799482--17799563 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 42
17799472 ACCTTTGAAC
* *
17799482 TCAAATGAGAAGCTTT-GAATTTTTGGATGTGAATCTCCAAAAT
1 TCAAATGAAAAGCTTTAG-ATTTTTGGATATGAAT-TCCAAAAT
17799525 TCAAATGAAAAGCTTTAGATTTTTGGATATGAATTCCAA
1 TCAAATGAAAAGCTTTAGATTTTTGGATATGAATTCCAA
17799564 GTTTGCCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
42 5 0.14
43 30 0.83
44 1 0.03
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.35
Consensus pattern (42 bp):
TCAAATGAAAAGCTTTAGATTTTTGGATATGAATTCCAAAAT
Found at i:17799922 original size:41 final size:41
Alignment explanation
Indices: 17799862--17800281 Score: 486
Period size: 41 Copynumber: 10.1 Consensus size: 41
17799852 GATTGTCAAA
* *
17799862 GAGCATTTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAG
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
* * *
17799903 GAGCATTTTACTTTTCAAAGTTGTGGTACCTCTGTTTAGAG
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
* *
17799944 GAGCAATTTGCTTGTCAAAGTTCCGT--TGCCTCTGTTTAGAG
1 GAGCAATTTACTTTTCAAAG-T-CGTGGTGCCTCTGTTTAGAG
*
17799985 GAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTATAGAG
1 GAGCAATTTAC-TTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
*
17800027 GAGCAATTTACTTTTCAAAGTCGTGGTACCTCTGTTTAGAG
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
* * *
17800068 GAGCAAGTTACTTTCCAAAGTCGTGGTGCCTTTGTTTAGAG
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
17800109 GAGCAATTTA-TTTTCCAAAGTCGTGGTGCCTCTGTTTAGAG
1 GAGCAATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAG
* * * *
17800150 GAGCAATTTATTTTTTCAAAGTCGTTGAGCCTCTGATTAGAG
1 GAGCAATTTA-CTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
* * * * * *
17800192 GAGCTATTTATGTTTCTCAAAGTCGTTGAGCATCTGATTAGAG
1 GAGCAATTTA-CTTT-TCAAAGTCGTGGTGCCTCTGTTTAGAG
* * * * * *
17800235 GAGCCATTTATATTTTTCAAAGTCGTTGAGCCTATGCTTAGAG
1 GAG-CAATT-TACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
17800278 GAGC
1 GAGC
17800282 TTTGGTAAAA
Statistics
Matches: 336, Mismatches: 32, Indels: 21
0.86 0.08 0.05
Matches are distributed among these distances:
40 6 0.02
41 189 0.56
42 71 0.21
43 62 0.18
44 6 0.02
45 2 0.01
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.37
Consensus pattern (41 bp):
GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
Found at i:17800098 original size:124 final size:123
Alignment explanation
Indices: 17799862--17800281 Score: 508
Period size: 124 Copynumber: 3.4 Consensus size: 123
17799852 GATTGTCAAA
* * *
17799862 GAGCATTTTAC-TTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCATTTTACTTTTCAAAGTTG
1 GAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCG
*
17799926 TGGTACCTCTGTTTAGAGGAGCAATTTGCTTGT-CAAAGTTCCGT-TGCCTCTGTTTAGAG
66 TGGTACCTCTGTTTAGAGGAGCAATTTACTT-TCCAAAG-T-CGTGTGCCTCTGTTTAGAG
* *
17799985 GAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTATAGAGGAGCAATTTACTTTTCAAAGTCG
1 GAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCG
* *
17800050 TGGTACCTCTGTTTAGAGGAGCAAGTTACTTTCCAAAGTCGTGGTGCCTTTGTTTAGAG
66 TGGTACCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGT-GTGCCTCTGTTTAGAG
*
17800109 GAGCAATTTA-TTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTTCAAAGTC
1 GAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTA-CTTTTCAAAGTC
* * * * * * *
17800173 GTTG-AGCCTCTGATTAGAGGAGCTATTTATGTTTCTCAAAGTCGTTGAGCATCTGATTAGAG
65 GTGGTA-CCTCTGTTTAGAGGAGCAATTTA-CTTTC-CAAAGTCG-TGTGCCTCTGTTTAGAG
* * * * * * *
17800235 GAGCCATTTATATTTTTCAAAGTCGTTGAGCCTATGCTTAGAGGAGC
1 GAGCAATTTA-CTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
17800282 TTTGGTAAAA
Statistics
Matches: 260, Mismatches: 26, Indels: 17
0.86 0.09 0.06
Matches are distributed among these distances:
122 3 0.01
123 52 0.20
124 141 0.54
125 4 0.02
126 29 0.11
127 1 0.00
128 30 0.12
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.37
Consensus pattern (123 bp):
GAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCG
TGGTACCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGTGCCTCTGTTTAGAG
Found at i:17800141 original size:165 final size:165
Alignment explanation
Indices: 17799862--17800217 Score: 486
Period size: 165 Copynumber: 2.1 Consensus size: 165
17799852 GATTGTCAAA
* * * ** * *
17799862 GAGCATTTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCATTTTACTTTTCAAAGTTGT
1 GAGCAATTTACTTTTCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAAGTTACTTTCCAAAGTCGT
*
17799927 GGTACCTCTGTTTAGAGGAGCAATTTGCTTGTCAAAGTTCCGTTGCCTCTGTTTAGAGGAGCAAT
66 GGTACCTCTGTTTAGAGGAGCAATTTGATTGTCAAAGTTCCGTTGCCTCTGTTTAGAGGAGCAAT
*
17799992 TTACTTTTTCAAAGTCGTGGTGCCTCTG-TATAGAG
131 TTACTTTTTCAAAGTCGTGGAGCCTCTGAT-TAGAG
17800027 GAGCAATTTACTTTTCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAAGTTACTTTCCAAAGTCGT
1 GAGCAATTTACTTTTCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAAGTTACTTTCCAAAGTCGT
* * *
17800092 GGTGCCTTTGTTTAGAGGAGCAATTT-ATTTTCCAAAG-T-CGTGGTGCCTCTGTTTAGAGGAGC
66 GGTACCTCTGTTTAGAGGAGCAATTTGATTGT-CAAAGTTCCGT--TGCCTCTGTTTAGAGGAGC
* *
17800154 AATTTATTTTTTCAAAGTCGTTGAGCCTCTGATTAGAG
128 AATTTACTTTTTCAAAGTCGTGGAGCCTCTGATTAGAG
* *
17800192 GAGCTATTTATGTTTCTCAAAGTCGT
1 GAGCAATTTA-CTTT-TCAAAGTCGT
17800218 TGAGCATCTG
Statistics
Matches: 169, Mismatches: 16, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
163 3 0.02
164 4 0.02
165 148 0.88
166 4 0.02
167 10 0.06
ACGTcount: A:0.22, C:0.17, G:0.23, T:0.37
Consensus pattern (165 bp):
GAGCAATTTACTTTTCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAAGTTACTTTCCAAAGTCGT
GGTACCTCTGTTTAGAGGAGCAATTTGATTGTCAAAGTTCCGTTGCCTCTGTTTAGAGGAGCAAT
TTACTTTTTCAAAGTCGTGGAGCCTCTGATTAGAG
Found at i:17800309 original size:16 final size:16
Alignment explanation
Indices: 17800288--17800330 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
17800278 GAGCTTTGGT
17800288 AAAAACAAAAA-AATAA
1 AAAAACAAAAACAA-AA
17800304 AAAAACAAAAACAAAA
1 AAAAACAAAAACAAAA
*
17800320 AAAAATAAAAA
1 AAAAACAAAAA
17800331 TGTTGAGTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 23 0.92
17 2 0.08
ACGTcount: A:0.88, C:0.07, G:0.00, T:0.05
Consensus pattern (16 bp):
AAAAACAAAAACAAAA
Found at i:17800316 original size:22 final size:22
Alignment explanation
Indices: 17800288--17800330 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
17800278 GAGCTTTGGT
17800288 AAAAACAAAAAAATAA-AAAAAC
1 AAAAACAAAAAAA-AATAAAAAC
17800310 AAAAACAAAAAAAAATAAAAA
1 AAAAACAAAAAAAAATAAAAA
17800331 TGTTGAGTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 2 0.10
22 18 0.90
ACGTcount: A:0.88, C:0.07, G:0.00, T:0.05
Consensus pattern (22 bp):
AAAAACAAAAAAAAATAAAAAC
Found at i:17800522 original size:18 final size:16
Alignment explanation
Indices: 17800480--17800521 Score: 66
Period size: 16 Copynumber: 2.5 Consensus size: 16
17800470 AATTTGGCTT
17800480 TTATTTTGTATTTTATA
1 TTATTTT-TATTTTATA
17800497 TTATTTTTATTTTATA
1 TTATTTTTATTTTATA
17800513 TTATCTTTT
1 TTAT-TTTT
17800522 TCCTTTGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 13 0.54
17 11 0.46
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (16 bp):
TTATTTTTATTTTATA
Found at i:17800551 original size:4 final size:4
Alignment explanation
Indices: 17800532--17800702 Score: 77
Period size: 4 Copynumber: 42.2 Consensus size: 4
17800522 TCCTTTGTAT
* * * *
17800532 TTTA TGTA TTTA -TTA TTTA TTTA TTTA -TTA TTACTA TGTA TTAA TATA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT--TA TTTA TTTA TTTA
* * * * * *
17800580 TGTA TATC TTTA TTTA TTTA TTTA TTT- TTTC TTCTG TTAATA TTTA TATA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT-TA TT--TA TTTA TTTA
* * * *
17800630 TGTA TTTTA TTTA TCTA GTTA TATA TTTA -TTA TTATA TTATAA TTTA
1 TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT-TA TT-T-A TTTA
*
17800677 TTTA -TTA -TTA TTT- TTTT TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
17800703 CTTGTAATAA
Statistics
Matches: 129, Mismatches: 25, Indels: 26
0.72 0.14 0.14
Matches are distributed among these distances:
3 21 0.16
4 86 0.67
5 13 0.10
6 9 0.07
ACGTcount: A:0.27, C:0.03, G:0.04, T:0.66
Consensus pattern (4 bp):
TTTA
Found at i:17800698 original size:14 final size:14
Alignment explanation
Indices: 17800529--17800702 Score: 70
Period size: 15 Copynumber: 12.9 Consensus size: 14
17800519 TTTTCCTTTG
*
17800529 TATT-TTATGTATT
1 TATTATTATTTATT
17800542 TATTATTTATTTATT
1 TATTA-TTATTTATT
* *
17800557 TATTATTA-CTATG
1 TATTATTATTTATT
* * * *
17800570 TATTAATATATGTA
1 TATTATTATTTATT
17800584 TATCT-TTATTTATT
1 TAT-TATTATTTATT
* *
17800598 TATTTATTTTTTCTT
1 TA-TTATTATTTATT
* * *
17800613 CTGTTAATATTTATA
1 -TATTATTATTTATT
17800628 TATGTA-T-TTTATT
1 TAT-TATTATTTATT
*
17800641 TATCTAGTTATATATT
1 TAT-TA-TTATTTATT
17800657 TATTATTA--TA-T
1 TATTATTATTTATT
17800668 TA-TA--ATTTATT
1 TATTATTATTTATT
17800679 TATTATTATTT-TT
1 TATTATTATTTATT
17800692 T-TT-TTATTTAT
1 TATTATTATTTAT
17800703 CTTGTAATAA
Statistics
Matches: 121, Mismatches: 22, Indels: 37
0.67 0.12 0.21
Matches are distributed among these distances:
8 1 0.01
10 4 0.03
11 12 0.10
12 7 0.06
13 27 0.22
14 26 0.21
15 35 0.29
16 9 0.07
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.66
Consensus pattern (14 bp):
TATTATTATTTATT
Found at i:17800719 original size:42 final size:40
Alignment explanation
Indices: 17800673--17800781 Score: 116
Period size: 42 Copynumber: 2.6 Consensus size: 40
17800663 TATATTATAA
*
17800673 TTTATTTATTATTATT-TTTTTTTTATTTATCTTGTAATAATT
1 TTTATTTATTATTATTATTTTTTTTAATTAT-TTGT--TAATT
*
17800715 TTTATTTA-TCTTATTATTTTTTTTAATTATTTGTTAATT
1 TTTATTTATTATTATTATTTTTTTTAATTATTTGTTAATT
17800754 TTT-TTTATTCATTTATCTGATTTTTTTT
1 TTTATTTATT-A-TTAT-T-ATTTTTTTT
17800782 TCGTTTATCT
Statistics
Matches: 58, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
38 4 0.07
39 9 0.16
41 14 0.24
42 22 0.38
43 9 0.16
ACGTcount: A:0.21, C:0.04, G:0.03, T:0.72
Consensus pattern (40 bp):
TTTATTTATTATTATTATTTTTTTTAATTATTTGTTAATT
Found at i:17800737 original size:21 final size:20
Alignment explanation
Indices: 17800532--17800781 Score: 89
Period size: 21 Copynumber: 11.8 Consensus size: 20
17800522 TCCTTTGTAT
17800532 TTTATGTATTTATTATTTATTTA
1 TTTAT-TATTT-TT-TTTATTTA
* * * *
17800555 TTTATTATTACTATGTATTAA
1 TTTATTATT-TTTTTTATTTA
*
17800576 TATATGTATATCTTTATTTATTTA
1 TTTAT-TAT-T-TTT-TTTATTTA
* *
17800600 TTTATTTTTTCTTCTGTTA-ATA
1 TTTATTATTT-TT-T-TTATTTA
* *
17800622 TTTATATATGTATTTTATTTA
1 TTTAT-TATTTTTTTTATTTA
* *
17800643 TCTAGTTATATATTTATTA-TTA
1 TTTA-TTAT-T-TTTTTTATTTA
* *
17800665 TATTA-TAATTTATTTA-TTA
1 T-TTATTATTTTTTTTATTTA
17800684 -TTATT-TTTTTTTTATTTA
1 TTTATTATTTTTTTTATTTA
* * **
17800702 TCTTGTAATAATTTTTATTTA
1 T-TTATTATTTTTTTTATTTA
*
17800723 TCTTATTATTTTTTTTAATTA
1 T-TTATTATTTTTTTTATTTA
* *
17800744 TTTGTTAATTTTTTTTATTCA
1 TTTATT-ATTTTTTTTATTTA
17800765 TTTATCTGATTTTTTTT
1 TTTAT-T-ATTTTTTTT
17800782 TCGTTTATCT
Statistics
Matches: 166, Mismatches: 42, Indels: 39
0.67 0.17 0.16
Matches are distributed among these distances:
17 10 0.06
18 4 0.02
19 8 0.05
20 11 0.07
21 66 0.40
22 35 0.21
23 22 0.13
24 10 0.06
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.67
Consensus pattern (20 bp):
TTTATTATTTTTTTTATTTA
Found at i:17800777 original size:20 final size:20
Alignment explanation
Indices: 17800754--17800796 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
17800744 TTTGTTAATT
17800754 TTTTTTATTCATTTATCTGA
1 TTTTTTATTCATTTATCTGA
* *
17800774 TTTTTTTTTCGTTTATCTGA
1 TTTTTTATTCATTTATCTGA
17800794 TTT
1 TTT
17800797 CTTTTTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.09, G:0.07, T:0.70
Consensus pattern (20 bp):
TTTTTTATTCATTTATCTGA
Found at i:17800801 original size:20 final size:20
Alignment explanation
Indices: 17800765--17800802 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
17800755 TTTTTATTCA
*
17800765 TTTATCTGATTTTTTTTTCG
1 TTTATCTGATTTCTTTTTCG
17800785 TTTATCTGATTTCTTTTT
1 TTTATCTGATTTCTTTTT
17800803 TTTTTCTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.11, C:0.11, G:0.08, T:0.71
Consensus pattern (20 bp):
TTTATCTGATTTCTTTTTCG
Found at i:17801714 original size:11 final size:10
Alignment explanation
Indices: 17801700--17801756 Score: 53
Period size: 11 Copynumber: 5.5 Consensus size: 10
17801690 TTTAATATTC
17801700 TTTTATCTTTA
1 TTTT-TCTTTA
*
17801711 TTTTATTTTTA
1 TTTT-TCTTTA
*
17801722 TTTTTGTTTTA
1 TTTTT-CTTTA
*
17801733 CTTTTCTTTA
1 TTTTTCTTTA
17801743 TTTTT-TTTA
1 TTTTTCTTTA
17801752 TTTTT
1 TTTTT
17801757 TTTCTTCCAT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
9 9 0.22
10 9 0.22
11 23 0.56
ACGTcount: A:0.12, C:0.05, G:0.02, T:0.81
Consensus pattern (10 bp):
TTTTTCTTTA
Found at i:17801720 original size:6 final size:6
Alignment explanation
Indices: 17801700--17801775 Score: 50
Period size: 6 Copynumber: 12.5 Consensus size: 6
17801690 TTTAATATTC
* * * * *
17801700 TTTTAT CTTTA- TTTTAT TTTTAT TTTT-G TTTTAC TTTTCT TTATTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TT-TTAT
17801747 TTTTAT TTTT-T TTCTTCCAT TTTTAT TTT
1 TTTTAT TTTTAT TT-TT--AT TTTTAT TTT
17801776 ATTATTTTCT
Statistics
Matches: 55, Mismatches: 8, Indels: 14
0.71 0.10 0.18
Matches are distributed among these distances:
5 11 0.20
6 34 0.62
7 5 0.09
8 2 0.04
9 3 0.05
ACGTcount: A:0.12, C:0.08, G:0.01, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:17801720 original size:17 final size:17
Alignment explanation
Indices: 17801700--17801750 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
17801690 TTTAATATTC
17801700 TTTTATCTTTATTTTAT
1 TTTTATCTTTATTTTAT
* *
17801717 TTTTATTTTTGTTTTA-
1 TTTTATCTTTATTTTAT
*
17801733 CTTT-TCTTTATTTT-T
1 TTTTATCTTTATTTTAT
17801748 TTT
1 TTT
17801751 ATTTTTTTTC
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
15 10 0.37
16 3 0.11
17 14 0.52
ACGTcount: A:0.12, C:0.06, G:0.02, T:0.80
Consensus pattern (17 bp):
TTTTATCTTTATTTTAT
Found at i:17801757 original size:11 final size:11
Alignment explanation
Indices: 17801707--17801788 Score: 53
Period size: 11 Copynumber: 7.4 Consensus size: 11
17801697 TTCTTTTATC
*
17801707 TTTATTTTATT
1 TTTATTTTTTT
*
17801718 TTTATTTTTGT
1 TTTATTTTTTT
* *
17801729 TTTA-CTTTTC
1 TTTATTTTTTT
17801739 TTTA--TTTTT
1 TTTATTTTTTT
17801748 TTTATTTTTTT
1 TTTATTTTTTT
*
17801759 TCTTCCATTTTTAT
1 T-TT--ATTTTTTT
*
17801773 TTTATTATTTTC
1 TTTATT-TTTTT
17801785 TTTA
1 TTTA
17801789 AATAAAATCA
Statistics
Matches: 56, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
9 8 0.14
10 7 0.12
11 22 0.39
12 9 0.16
13 2 0.04
14 8 0.14
ACGTcount: A:0.13, C:0.07, G:0.01, T:0.78
Consensus pattern (11 bp):
TTTATTTTTTT
Found at i:17801922 original size:60 final size:58
Alignment explanation
Indices: 17801868--17802142 Score: 311
Period size: 60 Copynumber: 4.6 Consensus size: 58
17801858 AAAAAGGGTT
17801868 TTTTTTTGAAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTC-CTAAAAATA
1 TTTTTTTGAAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCTCTAAAAATA
* * ** **
17801925 TTTTTTGGAAACTTTGATTTTCGAGGAAAATTGATACTTTCAACTTTTC-CTCAAAAACC
1 TTTTTTTGAAAATTT-ATTTTTAAGGAAAATTGATACTTTCAACTTTTCTCT-AAAAATA
* *
17801984 TTTTTTTAAAAAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCTCCAAAAATA
1 TTTTTTT--GAAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCTCTAAAAATA
** * *
17802044 TTTTTTTGAAAACTTTGATTTTCGAGGAAAATTGATACTTTCAACTTTTTCTCAAAAAAAAA
1 TTTTTTTGAAAA-TTT-ATTTTTAAGGAAAATTGATACTTTCAAC-TTTTCTC-TAAAAATA
*
17802106 CCCTTTTTTGAAAATTTATTTTTTAAGGAAAAGTTGA
1 --TTTTTTTGAAAATTTA-TTTTTAAGGAAAA-TTGA
17802143 AAGTATCAAT
Statistics
Matches: 183, Mismatches: 22, Indels: 19
0.82 0.10 0.08
Matches are distributed among these distances:
57 13 0.07
58 37 0.20
59 14 0.08
60 69 0.38
61 14 0.08
62 7 0.04
63 14 0.08
64 15 0.08
ACGTcount: A:0.36, C:0.11, G:0.09, T:0.44
Consensus pattern (58 bp):
TTTTTTTGAAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCTCTAAAAATA
Found at i:17802082 original size:120 final size:118
Alignment explanation
Indices: 17801876--17802101 Score: 407
Period size: 120 Copynumber: 1.9 Consensus size: 118
17801866 TTTTTTTTTG
* *
17801876 AAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTAAAAATATTTTTTGGAAACTTTG
1 AAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTGAAAACTTTG
17801941 ATTTTCGAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTAAA
66 ATTTTCGAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTAAA
17801994 AAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTTTGAAAACTT
1 AAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTC-CCAAAAATA-TTTTTTGAAAACTT
*
17802059 TGATTTTCGAGGAAAATTGATACTTTCAACTTTTTCTCAAAAA
64 TGATTTTCGAGGAAAATTGATACTTTCAACTTTTCCTCAAAAA
17802102 AAAACCCTTT
Statistics
Matches: 103, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
118 40 0.39
119 8 0.08
120 55 0.53
ACGTcount: A:0.36, C:0.12, G:0.08, T:0.43
Consensus pattern (118 bp):
AAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTGAAAACTTTG
ATTTTCGAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTAAA
Found at i:17802195 original size:59 final size:59
Alignment explanation
Indices: 17802125--17802572 Score: 481
Period size: 59 Copynumber: 7.6 Consensus size: 59
17802115 GAAAATTTAT
* *
17802125 TTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATTAAAGTTTTCAAAAGATA
1 TTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATTAAAGTTTTCAAAAAATA
* * * * *
17802184 TTTTTAGGGAAAAATTGAAAGTATCAATTTTTCT-TAAAAATAAA-TTTTCAAAAAAGGTTTT
1 TTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATTAAAGTTTTCAAAAAA----TA
*
17802245 TTTTTA-GGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATCAAAGTTTTCAAAAAATA
1 TTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATTAAAGTTTTCAAAAAATA
* * * * *
17802303 TTTTT-GGGAAAAAGTTGAAATTATCAATTTTTCT-TAAAAATGAA-TTTTCAAAAAA-A
1 TTTTTAGGG-AAAAGTTGAAAGTATCAATTTTCCTCGAAAATTAAAGTTTTCAAAAAATA
* * * *
17802359 GTTTTT-GAGGAAAAATTGAAAGTATCAATTTTTCTCGAAAATAAAAGTTTTCAAAATTATA
1 -TTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATTAAAGTTTTCAAAA-AATA
* * * *
17802420 TTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCT-TAAAAATAAA-TTTTCAAAAAATCAA
1 TTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATTAAAGTTTTCAAAAAAT--A
17802479 TTTTT-GAGGAAAAGTTGAAAGTATCAATTTTCCTCG-AAATTAAAG-TTTCAAAAATATATA
1 TTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATTAAAGTTTTC-AAAA-A-ATA
17802539 TTTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
1 -TTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
17802573 CTGCACAAGA
Statistics
Matches: 330, Mismatches: 34, Indels: 48
0.80 0.08 0.12
Matches are distributed among these distances:
56 1 0.00
57 52 0.16
58 40 0.12
59 113 0.34
60 62 0.19
61 48 0.15
62 14 0.04
ACGTcount: A:0.42, C:0.07, G:0.13, T:0.38
Consensus pattern (59 bp):
TTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATTAAAGTTTTCAAAAAATA
Found at i:17802378 original size:176 final size:174
Alignment explanation
Indices: 17802125--17802570 Score: 528
Period size: 176 Copynumber: 2.5 Consensus size: 174
17802115 GAAAATTTAT
* *
17802125 TTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATTAAAGTTTTCAAAAGATATTTTTA
1 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTC-AAAATTAAA-TTTTCAAAA-AAATTTTTA
* *
17802190 GGGAAAAATTGAAAGTATCAATTTTTCTTAAAAAT-AAA-TTTTCAAAAAAGGTT-T-TTTTTTA
63 GGGAAAAATTGAAAGTATCAATTTTTCTCAAAAATAAAAGTTTTC--AAAA--TTATATTTTTGA
*
17802251 GGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATCAAAGTTTTCAAAAAAT-A
124 GGAAAAGTTGAAAGTATCAATTTTCCTCAAAAAT-AAA-TTTTCAAAAAATAA
* * * * *
17802303 TTTTTG-GGAAAAAGTTGAAATTATCAATTTTTCTTAAAAATGAATTTTCAAAAAAAGTTTTT-G
1 TTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTCAAAATTAAATTTTCAAAAAAA-TTTTTAG
* *
17802366 AGGAAAAATTGAAAGTATCAATTTTTCTCGAAAATAAAAGTTTTCAAAATTATATTTTTGGGGAA
64 -GGAAAAATTGAAAGTATCAATTTTTCTCAAAAATAAAAGTTTTCAAAATTATATTTTTGAGGAA
* *
17802431 AAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAATCAA
128 AAGTTGAAAGTATCAATTTTCCTCAAAAATAAATTTTCAAAAAAT-AA
* *
17802479 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCAAAAATATATATTTTT
1 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAATTAAATTTTC-AAAA-A-A-A-TTTT
*
17802544 TAGGGAAAAGTTGAAAGTATCAATTTT
61 TAGGGAAAAATTGAAAGTATCAATTTT
17802571 CCCTGCACAA
Statistics
Matches: 230, Mismatches: 23, Indels: 28
0.82 0.08 0.10
Matches are distributed among these distances:
174 14 0.06
175 7 0.03
176 126 0.55
177 18 0.08
178 34 0.15
179 1 0.00
180 29 0.13
181 1 0.00
ACGTcount: A:0.42, C:0.07, G:0.13, T:0.38
Consensus pattern (174 bp):
TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAATTAAATTTTCAAAAAAATTTTTAGGG
AAAAATTGAAAGTATCAATTTTTCTCAAAAATAAAAGTTTTCAAAATTATATTTTTGAGGAAAAG
TTGAAAGTATCAATTTTCCTCAAAAATAAATTTTCAAAAAATAA
Found at i:17802483 original size:16 final size:17
Alignment explanation
Indices: 17802442--17802483 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
17802432 AGTTGAAAGT
*
17802442 ATCAATTTTTCTTAAAA
1 ATCAATTTTTCTAAAAA
*
17802459 AT-AAATTTTC-AAAAA
1 ATCAATTTTTCTAAAAA
17802474 ATCAATTTTT
1 ATCAATTTTT
17802484 GAGGAAAAGT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
15 6 0.29
16 13 0.62
17 2 0.10
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (17 bp):
ATCAATTTTTCTAAAAA
Found at i:17802571 original size:119 final size:118
Alignment explanation
Indices: 17802125--17802570 Score: 652
Period size: 119 Copynumber: 3.8 Consensus size: 118
17802115 GAAAATTTAT
* *
17802125 TTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATTAAAGTTTTC-AAAAGATATTTTT
1 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATTAAAGTTTTCAAAAATATATTTTT
* **
17802189 AGGGAAAAATTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAGGTTT
66 AGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAA--TAA
* *
17802244 TTTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATCAAAGTTTTCAAAAA-ATATTTTT
1 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATTAAAGTTTTCAAAAATATATTTTT
* * *
17802308 -GGGAAAAAGTTGAAATTATCAATTTTTCTTAAAAATGAATTTTCAAAAAA-AG
66 AGGG-AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAATAA
* * * *
17802360 TTTTTGAGGAAAAATTGAAAGTATCAATTTTTCTCGAAAATAAAAGTTTTCAAAATTATATTTTT
1 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATTAAAGTTTTCAAAAATATATTTTT
*
17802425 GGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAATCAA
66 AGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAT-AA
17802479 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCG-AAATTAAAG-TTTCAAAAATATATATTT
1 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATTAAAGTTTTC-AAAA-ATATA-TT
17802542 TTTAGGGAAAAGTTGAAAGTATCAATTTT
63 TTTAGGGAAAAGTTGAAAGTATCAATTTT
17802571 CCCTGCACAA
Statistics
Matches: 298, Mismatches: 20, Indels: 17
0.89 0.06 0.05
Matches are distributed among these distances:
116 51 0.17
117 56 0.19
118 18 0.06
119 139 0.47
120 34 0.11
ACGTcount: A:0.42, C:0.07, G:0.13, T:0.38
Consensus pattern (118 bp):
TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATTAAAGTTTTCAAAAATATATTTTT
AGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAATAA
Found at i:17804962 original size:2 final size:2
Alignment explanation
Indices: 17804955--17804989 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
17804945 TTGCATAGCC
17804955 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
17804990 TGGTATTTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:17808752 original size:84 final size:84
Alignment explanation
Indices: 17808580--17808748 Score: 263
Period size: 83 Copynumber: 2.0 Consensus size: 84
17808570 AGTTGATATC
17808580 TTCTTTCTCATGAAATTAATACTTTCATTAAAGGGATTGATTTTCCTTTTGAAGAATAAATAAAT
1 TTCTTTCTCATGAAATTAATACTTTCATTAAAGGGATTGATTTTCCTTTTGAAGAATAAATAAAT
*
17808645 CTAATAATTGAATAATGAA
66 CAAATAATTGAATAATGAA
* *
17808664 TTCTTTCTCATGAGATTGATACTTTCATTAAAGGGATTG--TTTCTCTTTTGAA-AGATAAATAA
1 TTCTTTCTCATGAAATTAATACTTTCATTAAAGGGATTGATTTTC-CTTTTGAAGA-ATAAATAA
*
17808726 ATCAAATTATTGAATAATGAA
64 ATCAAATAATTGAATAATGAA
17808747 TT
1 TT
17808749 TCTTACCTTT
Statistics
Matches: 79, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
82 5 0.06
83 37 0.47
84 37 0.47
ACGTcount: A:0.37, C:0.09, G:0.12, T:0.41
Consensus pattern (84 bp):
TTCTTTCTCATGAAATTAATACTTTCATTAAAGGGATTGATTTTCCTTTTGAAGAATAAATAAAT
CAAATAATTGAATAATGAA
Found at i:17813864 original size:10 final size:10
Alignment explanation
Indices: 17813844--17813872 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
17813834 GGATAATATT
17813844 TATAT-TAAA
1 TATATATAAA
17813853 TATATATAAA
1 TATATATAAA
17813863 TATATATAAA
1 TATATATAAA
17813873 CTCGATTGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 5 0.26
10 14 0.74
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
TATATATAAA
Found at i:17815281 original size:23 final size:20
Alignment explanation
Indices: 17815227--17815271 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
17815217 TAATTTTATA
*
17815227 TTTATATTAAAAAATAATAT
1 TTTATATTTAAAAATAATAT
17815247 TTTATATTTAAAAATAATAT
1 TTTATATTTAAAAATAATAT
17815267 TTTAT
1 TTTAT
17815272 TAATTTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTATATTTAAAAATAATAT
Done.