Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 71 of 221
Found at i:20676750 original size:16 final size:16
Alignment explanation
Indices: 20676729--20676759 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20676719 AACATTATGA
*
20676729 TTAATGGCAAACAATT
1 TTAATGGAAAACAATT
20676745 TTAATGGAAAACAAT
1 TTAATGGAAAACAAT
20676760 CCAAGTGGTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.10, G:0.13, T:0.29
Consensus pattern (16 bp):
TTAATGGAAAACAATT
Found at i:20679326 original size:19 final size:19
Alignment explanation
Indices: 20679271--20679341 Score: 65
Period size: 19 Copynumber: 3.7 Consensus size: 19
20679261 AATTTCTTAG
*
20679271 ATAACTTTTACAACTTTTTA
1 ATAATTTTTA-AACTTTTTA
* *
20679291 GTAATTATTAATA-TTTTTA
1 ATAATTTTTAA-ACTTTTTA
*
20679310 ATAATTTTTAAACTTTTTT
1 ATAATTTTTAAACTTTTTA
*
20679329 AT-AGTTTTAAACT
1 ATAATTTTTAAACT
20679342 CATCTCAAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
18 11 0.26
19 23 0.55
20 8 0.19
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (19 bp):
ATAATTTTTAAACTTTTTA
Found at i:20683028 original size:35 final size:34
Alignment explanation
Indices: 20682984--20683050 Score: 82
Period size: 34 Copynumber: 1.9 Consensus size: 34
20682974 CAAACACCAG
*
20682984 AAAATATTTTCCA-ATAATTCATTTTACAGAAAAGT
1 AAAACATTTTCCAGA-AA-TCATTTTACAGAAAAGT
* *
20683019 AAAACATTTTCTAGAAATCATTTTACGGAAAA
1 AAAACATTTTCCAGAAATCATTTTACAGAAAA
20683051 CATTTTACTG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
34 14 0.50
35 13 0.46
36 1 0.04
ACGTcount: A:0.46, C:0.12, G:0.07, T:0.34
Consensus pattern (34 bp):
AAAACATTTTCCAGAAATCATTTTACAGAAAAGT
Found at i:20683557 original size:16 final size:15
Alignment explanation
Indices: 20683538--20683574 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
20683528 ATTATAAAAG
20683538 AAAAAT-AATAATATT
1 AAAAATAAATAATA-T
20683553 AAAAATAAATAATAT
1 AAAAATAAATAATAT
20683568 AAAAATA
1 AAAAATA
20683575 CGCAATCTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
AAAAATAAATAATAT
Found at i:20683636 original size:15 final size:16
Alignment explanation
Indices: 20683607--20683641 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
20683597 TTATAAAAAT
*
20683607 ATATAAAATTTTAATA
1 ATATAAAATTATAATA
20683623 ATATAAAA-TATAATA
1 ATATAAAATTATAATA
20683638 ATAT
1 ATAT
20683642 GTATTAGGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
ATATAAAATTATAATA
Found at i:20685438 original size:9 final size:9
Alignment explanation
Indices: 20685424--20685560 Score: 193
Period size: 9 Copynumber: 14.6 Consensus size: 9
20685414 TTTGGTTAAA
20685424 AATTACCCG
1 AATTACCCG
20685433 AATTACCCG
1 AATTACCCG
20685442 AATTACCCG
1 AATTACCCG
*
20685451 ACTTACCCG
1 AATTACCCG
20685460 AATTACCCG
1 AATTACCCG
*
20685469 ACTTACCCG
1 AATTACCCG
20685478 AATTACCCG
1 AATTACCCG
20685487 AATTACCCG
1 AATTACCCG
*
20685496 AAAATTACCCA
1 --AATTACCCG
20685507 AATTACCCG
1 AATTACCCG
20685516 AATTACCCG
1 AATTACCCG
20685525 AAAATTACCCG
1 --AATTACCCG
20685536 AAAATTACCCG
1 --AATTACCCG
20685547 AATTACCCG
1 AATTACCCG
20685556 AATTA
1 AATTA
20685561 AATCACTACA
Statistics
Matches: 118, Mismatches: 6, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
9 90 0.76
11 28 0.24
ACGTcount: A:0.36, C:0.32, G:0.09, T:0.22
Consensus pattern (9 bp):
AATTACCCG
Found at i:20685589 original size:17 final size:17
Alignment explanation
Indices: 20685567--20685627 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
20685557 ATTAAATCAC
20685567 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
** * *
20685584 TACATAAATCTTTGAATCAC
1 TACAT-AA--TTAAAAACAT
*
20685604 TACATAATTAAAAATAT
1 TACATAATTAAAAACAT
20685621 TACATAA
1 TACATAA
20685628 GTCTTTGAAT
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
17 17 0.53
18 2 0.06
19 2 0.06
20 11 0.34
ACGTcount: A:0.52, C:0.13, G:0.02, T:0.33
Consensus pattern (17 bp):
TACATAATTAAAAACAT
Found at i:20685609 original size:20 final size:20
Alignment explanation
Indices: 20685584--20685647 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 20
20685574 TTAAAAACAT
20685584 TACATAAATCTTTGAATCAC
1 TACATAAATCTTTGAATCAC
*** *
20685604 TACAT-AAT-TAAAAAT-AT
1 TACATAAATCTTTGAATCAC
*
20685621 TACATAAGTCTTTGAATCAC
1 TACATAAATCTTTGAATCAC
20685641 TACATAA
1 TACATAA
20685648 TTAAAAATAT
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
17 6 0.19
18 6 0.19
19 7 0.22
20 13 0.41
ACGTcount: A:0.45, C:0.16, G:0.05, T:0.34
Consensus pattern (20 bp):
TACATAAATCTTTGAATCAC
Found at i:20685667 original size:37 final size:37
Alignment explanation
Indices: 20685561--20685673 Score: 192
Period size: 37 Copynumber: 3.1 Consensus size: 37
20685551 ACCCGAATTA
* *
20685561 AATCACTACATAATTAAAAACATTACATAAATCTTTG
1 AATCACTACATAATTAAAAATATTACATAAGTCTTTG
20685598 AATCACTACATAATTAAAAATATTACATAAGTCTTTG
1 AATCACTACATAATTAAAAATATTACATAAGTCTTTG
*
20685635 AATCACTACATAATTAAAAATATTACACAAGTC-TTG
1 AATCACTACATAATTAAAAATATTACATAAGTCTTTG
20685671 AAT
1 AAT
20685674 TAAAACATAA
Statistics
Matches: 73, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
36 6 0.08
37 67 0.92
ACGTcount: A:0.48, C:0.15, G:0.04, T:0.33
Consensus pattern (37 bp):
AATCACTACATAATTAAAAATATTACATAAGTCTTTG
Found at i:20685741 original size:24 final size:24
Alignment explanation
Indices: 20685714--20685772 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 24
20685704 ATTCTCCATT
*
20685714 TATATCCATTTCATCTTTCCAAAA
1 TATATCCATTTCATCTCTCCAAAA
*
20685738 TATATTCATTTCATCTCTCCAAAA
1 TATATCCATTTCATCTCTCCAAAA
*
20685762 TATCTCCATTT
1 TATATCCATTT
20685773 GCATTAAACC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.31, C:0.25, G:0.00, T:0.44
Consensus pattern (24 bp):
TATATCCATTTCATCTCTCCAAAA
Found at i:20689562 original size:9 final size:9
Alignment explanation
Indices: 20689548--20689573 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
20689538 GAGTGTGAAA
20689548 GTGAAATTT
1 GTGAAATTT
20689557 GTGAAATTT
1 GTGAAATTT
20689566 GTGAAATT
1 GTGAAATT
20689574 AGGGAGGAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (9 bp):
GTGAAATTT
Found at i:20690435 original size:21 final size:20
Alignment explanation
Indices: 20690374--20690436 Score: 60
Period size: 21 Copynumber: 3.2 Consensus size: 20
20690364 ATATATATGA
20690374 ATATAAAAAAAC--AT-TAC
1 ATATAAAAAAACAAATATAC
* * **
20690391 TTATAAAAAAATAAATATGT
1 ATATAAAAAAACAAATATAC
20690411 ATATAAAAACAACAAATATAC
1 ATATAAAAA-AACAAATATAC
20690432 ATATA
1 ATATA
20690437 TATATAAATA
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
17 10 0.29
19 2 0.06
20 9 0.26
21 13 0.38
ACGTcount: A:0.63, C:0.08, G:0.02, T:0.27
Consensus pattern (20 bp):
ATATAAAAAAACAAATATAC
Found at i:20691417 original size:57 final size:57
Alignment explanation
Indices: 20691329--20691442 Score: 228
Period size: 57 Copynumber: 2.0 Consensus size: 57
20691319 AAATAACAAC
20691329 ATAGAAAGTAAATCTGTTGGATTTGATTCTCAACCTTTGATTTTCTTTCCATTTTGT
1 ATAGAAAGTAAATCTGTTGGATTTGATTCTCAACCTTTGATTTTCTTTCCATTTTGT
20691386 ATAGAAAGTAAATCTGTTGGATTTGATTCTCAACCTTTGATTTTCTTTCCATTTTGT
1 ATAGAAAGTAAATCTGTTGGATTTGATTCTCAACCTTTGATTTTCTTTCCATTTTGT
20691443 TTCTTTCCTT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.25, C:0.14, G:0.14, T:0.47
Consensus pattern (57 bp):
ATAGAAAGTAAATCTGTTGGATTTGATTCTCAACCTTTGATTTTCTTTCCATTTTGT
Found at i:20693274 original size:194 final size:196
Alignment explanation
Indices: 20692925--20693282 Score: 517
Period size: 194 Copynumber: 1.8 Consensus size: 196
20692915 CCATCATCAA
* * *
20692925 ATTAGGGTTATGAGATGCTACAGTAAATAACAAAAATAGAAGCATGCTATTTCATTTCAAAACTT
1 ATTAGAGTTATGAGATACTACAGTAAATAACAAAAATAGAAGCATGCTATTTCAATTCAAAACTT
* **
20692990 ATTAAAAAATTCATTAATCATCAAACATTCATTTAAACATGTTATACATGCAAGACCGAGCTTAA
66 ATTAAAAAATTCATTAATCATCAAACATTCAGTTAAACATGTTATACATGCAAGACAAAGCTTAA
*
20693055 ATCGAGCTTACAAAAGCTTTAAAACAATTTAGAACTAAGAAGGGTCTCACTCGTATATGTCATCG
131 ATCGAGCTTACAAAAGCTATAAAACAATTTAGAACTAAGAAGGGTCTCACTCGTATATGTCATCG
20693120 G
196 G
* *
20693121 ATTAGAGTTATGAGATACTACAGTAAATAA-AAAACA-A-AATG-ATGTTATTTCAATTCATAAC
1 ATTAGAGTTATGAGATACTACAGTAAATAACAAAA-ATAGAA-GCATGCTATTTCAATTCAAAAC
** * * * *
20693182 TTATTAAACCATTTATTAATCATCGAACATTCAGTTAAACATGTTATACTTGCAATACAAAGCTT
64 TTATTAAAAAATTCATTAATCATCAAACATTCAGTTAAACATGTTATACATGCAAGACAAAGCTT
* *
20693247 AAATCGAGCTTACGAAATCTATAAAACAATTTAGAA
129 AAATCGAGCTTACAAAAGCTATAAAACAATTTAGAA
20693283 GCAGCGCCTA
Statistics
Matches: 143, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
194 108 0.76
195 6 0.04
196 29 0.20
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.31
Consensus pattern (196 bp):
ATTAGAGTTATGAGATACTACAGTAAATAACAAAAATAGAAGCATGCTATTTCAATTCAAAACTT
ATTAAAAAATTCATTAATCATCAAACATTCAGTTAAACATGTTATACATGCAAGACAAAGCTTAA
ATCGAGCTTACAAAAGCTATAAAACAATTTAGAACTAAGAAGGGTCTCACTCGTATATGTCATCG
G
Found at i:20696902 original size:26 final size:25
Alignment explanation
Indices: 20696873--20696930 Score: 62
Period size: 26 Copynumber: 2.3 Consensus size: 25
20696863 AGTTTAGTGT
20696873 TGCTTTTGAAAAATGCTTTTAAAAAG
1 TGCTTTTGAAAAATGC-TTTAAAAAG
* * * *
20696899 TGCTGTGGAAAAGTGCTTTGAAAAG
1 TGCTTTTGAAAAATGCTTTAAAAAG
*
20696924 TACTTTT
1 TGCTTTT
20696931 ATAAAGTTTG
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
25 12 0.48
26 13 0.52
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.38
Consensus pattern (25 bp):
TGCTTTTGAAAAATGCTTTAAAAAG
Found at i:20696923 original size:12 final size:12
Alignment explanation
Indices: 20696877--20696929 Score: 52
Period size: 13 Copynumber: 4.2 Consensus size: 12
20696867 TAGTGTTGCT
*
20696877 TTTGAAAAATGC
1 TTTGAAAAGTGC
*
20696889 TTTTAAAAAGTGC
1 -TTTGAAAAGTGC
*
20696902 TGTGGAAAAGTGC
1 T-TTGAAAAGTGC
*
20696915 TTTGAAAAGTAC
1 TTTGAAAAGTGC
20696927 TTT
1 TTT
20696930 TATAAAGTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
12 13 0.39
13 20 0.61
ACGTcount: A:0.36, C:0.08, G:0.21, T:0.36
Consensus pattern (12 bp):
TTTGAAAAGTGC
Found at i:20697247 original size:30 final size:30
Alignment explanation
Indices: 20697211--20697272 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
20697201 TATTTTAAAT
*
20697211 AATTAGATATTAATACATTTGTATTATTTA
1 AATTAGATATTAACACATTTGTATTATTTA
20697241 AATTAGATATTAACACATTTGTATTATTTA
1 AATTAGATATTAACACATTTGTATTATTTA
20697271 AA
1 AA
20697273 AAATTTATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.42, C:0.05, G:0.06, T:0.47
Consensus pattern (30 bp):
AATTAGATATTAACACATTTGTATTATTTA
Found at i:20699220 original size:20 final size:21
Alignment explanation
Indices: 20699185--20699223 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
20699175 ACATTTCTTC
20699185 ATTATTTTACTTAAAAAATTA
1 ATTATTTTACTTAAAAAATTA
*
20699206 ATTATTTT-TTTAAAAAAT
1 ATTATTTTACTTAAAAAAT
20699224 ATTTAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (21 bp):
ATTATTTTACTTAAAAAATTA
Found at i:20700873 original size:30 final size:28
Alignment explanation
Indices: 20700810--20700880 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 28
20700800 ATATTTTATA
*
20700810 TTTTTAATTTTAAAATACTTTTTTTAAAT
1 TTTTTAATTTTAAAATA-TTTTTTAAAAT
20700839 TTTTTATATTTTAAAAT-TTTTTTAAAATACT
1 TTTTTA-ATTTTAAAATATTTTTT-AAA-A-T
20700870 TTTTTAATTTT
1 TTTTTAATTTT
20700881 TTTAATTTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
28 6 0.16
29 8 0.22
30 16 0.43
31 7 0.19
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (28 bp):
TTTTTAATTTTAAAATATTTTTTAAAAT
Found at i:20700889 original size:39 final size:40
Alignment explanation
Indices: 20700817--20700938 Score: 174
Period size: 39 Copynumber: 3.0 Consensus size: 40
20700807 ATATTTTTAA
* *
20700817 TTTTAAAATACTTTTTTTAAATTTTTTATATTTTAAAATTT
1 TTTTAAAATAC-TTTTTTAATTTTTTTATATTTTAAAATAT
20700858 TTTTAAAATACTTTTTTAATTTTTTTA-ATTTTAAAATAT
1 TTTTAAAATACTTTTTTAATTTTTTTATATTTTAAAATAT
*
20700897 TTTTAAAATACTTTTTTAATTTTTGTTTTAATTTTTAAAATA
1 TTTTAAAATACTTTTTTAATTTTT-TTAT-A-TTTTAAAATA
20700939 AATTTTTGGT
Statistics
Matches: 74, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
39 35 0.47
40 17 0.23
41 11 0.15
42 1 0.01
43 10 0.14
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.62
Consensus pattern (40 bp):
TTTTAAAATACTTTTTTAATTTTTTTATATTTTAAAATAT
Found at i:20713245 original size:24 final size:24
Alignment explanation
Indices: 20713213--20713258 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
20713203 ATATTCACCT
20713213 TTGAACACTCGGAATGTTATCCCG
1 TTGAACACTCGGAATGTTATCCCG
20713237 TTGAACACTCGGAATGTTATCC
1 TTGAACACTCGGAATGTTATCC
20713259 GTTATCGGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (24 bp):
TTGAACACTCGGAATGTTATCCCG
Found at i:20713314 original size:33 final size:33
Alignment explanation
Indices: 20713263--20713599 Score: 162
Period size: 33 Copynumber: 9.7 Consensus size: 33
20713253 TTATCCGTTA
* *
20713263 TCGGTGGATTCAGCACTTAGCAACCACCAGTGAT
1 TCGG-GGAATCAGCACTTAGCAACCACCAATGAT
20713297 TCGGGGAATCAGCACTTAGCAACCCCTTTCACATTCAATGAT
1 TCGGGGAATCAGCACTTAGCAA---C---CAC---CAATGAT
*
20713339 AT-GGTGGAATCAGCACTTAGCAACCACCAATGAA
1 -TCGG-GGAATCAGCACTTAGCAACCACCAATGAT
*
20713373 TCGGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGAT
1 TCGGGGAATCAGCACTTAGCAACCAC---CA-A--T--GAT
* * ** * *
20713414 ACGGCGGGATCAGCACTTAGCAACTGCTAATGAA
1 TCGG-GGAATCAGCACTTAGCAACCACCAATGAT
*
20713448 TCGGGGAATTAGCACTTAGCAACC-CC-----T
1 TCGGGGAATCAGCACTTAGCAACCACCAATGAT
* * *
20713475 TGGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAAT
1 TCGGGGAATCAGCACTTAGCAA-CCAC--CA-A--T--GAT
* *
20713516 ACGGTGGAATCAGCACTTAGCAACCACCAATGAA
1 TCGG-GGAATCAGCACTTAGCAACCACCAATGAT
20713550 TCGGGGAATCAGCACTTAGCAACC-CC-----T
1 TCGGGGAATCAGCACTTAGCAACCACCAATGAT
20713577 T-GGGGAATCAGCACTTAGCAACC
1 TCGGGGAATCAGCACTTAGCAACC
20713600 CCCTTTATAT
Statistics
Matches: 241, Mismatches: 26, Indels: 80
0.69 0.07 0.23
Matches are distributed among these distances:
26 22 0.09
27 21 0.09
28 2 0.01
29 1 0.00
31 1 0.00
32 3 0.01
33 76 0.32
34 21 0.09
36 5 0.02
37 4 0.02
38 2 0.01
39 7 0.03
40 1 0.00
41 11 0.05
42 45 0.19
43 19 0.08
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (33 bp):
TCGGGGAATCAGCACTTAGCAACCACCAATGAT
Found at i:20713362 original size:43 final size:42
Alignment explanation
Indices: 20713299--20713437 Score: 147
Period size: 42 Copynumber: 3.5 Consensus size: 42
20713289 CCAGTGATTC
20713299 GGGGAATCAGCACTTAGCAACCCCTTTCACATTCAATGATAT
1 GGGGAATCAGCACTTAGCAACCCCTTTCACATTCAATGATAT
20713341 GGTGGAATCAGCACTTAGCAA---C---CAC---CAATGA-AT
1 GG-GGAATCAGCACTTAGCAACCCCTTTCACATTCAATGATAT
* *
20713374 CGGGGAATCAGCACTTAGCAACCCCTTTCACATTTAA-GATAC
1 -GGGGAATCAGCACTTAGCAACCCCTTTCACATTCAATGATAT
*
20713416 GGCGGGATCAGCACTTAGCAAC
1 GG-GGAATCAGCACTTAGCAAC
20713438 TGCTAATGAA
Statistics
Matches: 81, Mismatches: 3, Indels: 26
0.74 0.03 0.24
Matches are distributed among these distances:
33 20 0.25
34 8 0.10
36 1 0.01
37 3 0.04
39 3 0.04
40 1 0.01
41 4 0.05
42 23 0.28
43 18 0.22
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.22
Consensus pattern (42 bp):
GGGGAATCAGCACTTAGCAACCCCTTTCACATTCAATGATAT
Found at i:20713391 original size:76 final size:75
Alignment explanation
Indices: 20713264--20713475 Score: 316
Period size: 76 Copynumber: 2.8 Consensus size: 75
20713254 TATCCGTTAT
* * *
20713264 CGGTGGATTCAGCACTTAGCAACCACCAGTGATTCGGGGAATCAGCACTTAGCAACCCCTTTCAC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCAC
20713329 ATTCAATGATA
66 ATTCAA-GATA
*
20713340 TGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCAC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCAC
*
20713405 ATTTAAGATA
66 ATTCAAGATA
* * ** * *
20713415 CGGCGGGATCAGCACTTAGCAACTGCTAATGAATCGGGGAATTAGCACTTAGCAACCCCTT
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTT
20713476 GGGGGAATCA
Statistics
Matches: 124, Mismatches: 12, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
75 58 0.47
76 66 0.53
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (75 bp):
CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCAC
ATTCAAGATA
Found at i:20713497 original size:102 final size:101
Alignment explanation
Indices: 20713375--20713604 Score: 379
Period size: 102 Copynumber: 2.3 Consensus size: 101
20713365 CCAATGAATC
* * * **
20713375 GGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGCGGGATCAGCACTTAGCAACTG
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGCGGAATCAGCACTTAGCAACCA
* *
20713440 CTAATGAATCGGGGAATTAGCACTTAGCAACCCCTT
66 CCAATGAATCGGGGAATCAGCACTTAGCAACCCCTT
*
20713476 GGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACC
1 -GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGCGGAATCAGCACTTAGCAACC
20713541 ACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTT
65 ACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTT
20713578 GGGGAATCAGCACTTAGCAACCCCCTT
1 GGGGAATCAGCACTTAGCAACCCCCTT
20713605 TATATTCAAT
Statistics
Matches: 120, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
101 27 0.22
102 93 0.77
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (101 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGCGGAATCAGCACTTAGCAACCA
CCAATGAATCGGGGAATCAGCACTTAGCAACCCCTT
Found at i:20713581 original size:26 final size:26
Alignment explanation
Indices: 20713552--20713601 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
20713542 CCAATGAATC
20713552 GGGGAATCAGCACTTAGCAACCCCTT
1 GGGGAATCAGCACTTAGCAACCCCTT
20713578 GGGGAATCAGCACTTAGCAACCCC
1 GGGGAATCAGCACTTAGCAACCCC
20713602 CTTTATATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.28, C:0.32, G:0.24, T:0.16
Consensus pattern (26 bp):
GGGGAATCAGCACTTAGCAACCCCTT
Found at i:20720852 original size:33 final size:33
Alignment explanation
Indices: 20720810--20721127 Score: 200
Period size: 33 Copynumber: 9.4 Consensus size: 33
20720800 CGGTGGATTT
*
20720810 AGCACTTAGCAACCACCAGTGATTCGGGGAATC
1 AGCACTTAGCAACCACCAATGATTCGGGGAATC
* *
20720843 AGCACTTAGCAACCCCTTTCACATTA-T-GGTGGAATC
1 AGCACTTAGCAACCAC---CA-ATGATTCGG-GGAATC
*
20720879 AGCACTTAGCAACCACCAATGAATCGGGGAATC
1 AGCACTTAGCAACCACCAATGATTCGGGGAATC
* * *
20720912 AGCACTTAGCAACCCCTTTCACATTTACGATACGGTGGGATC
1 AGCACTTAGCAACCAC---CA-A--T--GATTCGG-GGAATC
*
20720954 AGCACTTAGCAACCACCAATGAATCGGGGAATC
1 AGCACTTAGCAACCACCAATGATTCGGGGAATC
20720987 AGCACTTAGCAACC-CC-----TT-GGGGAATC
1 AGCACTTAGCAACCACCAATGATTCGGGGAATC
* * *
20721013 AGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATC
1 AGCACTTAGCAA-CCAC--CA-A--T--GATTCGG-GGAATC
*
20721055 AGCACTTAGCAACCACCAATGAATCGGGGAATC
1 AGCACTTAGCAACCACCAATGATTCGGGGAATC
*
20721088 AACACTTAGCAACC-CC-----TT-GGGGAATC
1 AGCACTTAGCAACCACCAATGATTCGGGGAATC
20721114 AGCACTTAGCAACC
1 AGCACTTAGCAACC
20721128 CCCTTTATAT
Statistics
Matches: 231, Mismatches: 22, Indels: 71
0.71 0.07 0.22
Matches are distributed among these distances:
26 41 0.18
27 4 0.02
28 1 0.00
30 1 0.00
32 7 0.03
33 77 0.33
34 11 0.05
35 2 0.01
36 28 0.12
37 3 0.01
38 2 0.01
39 5 0.02
40 1 0.00
41 10 0.04
42 38 0.16
ACGTcount: A:0.32, C:0.29, G:0.19, T:0.20
Consensus pattern (33 bp):
AGCACTTAGCAACCACCAATGATTCGGGGAATC
Found at i:20720912 original size:69 final size:71
Alignment explanation
Indices: 20720796--20721004 Score: 323
Period size: 69 Copynumber: 2.9 Consensus size: 71
20720786 ATGTTATCCG
* * * *
20720796 TTATCGGTGGATTTAGCACTTAGCAACCACCAGTGATTCGGGGAATCAGCACTTAGCAACCCCTT
1 TTATCGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTT
20720861 TCACA-
66 TCACAT
20720866 TTAT-GGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTT
1 TTATCGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTT
20720930 TCACAT
66 TCACAT
*
20720936 TTACGATACGGTGGGATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACC
1 TT---AT-CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACC
20721001 CCTT
62 CCTT
20721005 GGGGAATCAG
Statistics
Matches: 128, Mismatches: 5, Indels: 7
0.91 0.04 0.05
Matches are distributed among these distances:
69 61 0.48
70 6 0.05
73 2 0.02
75 59 0.46
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (71 bp):
TTATCGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTT
TCACAT
Found at i:20721008 original size:26 final size:26
Alignment explanation
Indices: 20720979--20721028 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
20720969 CCAATGAATC
20720979 GGGGAATCAGCACTTAGCAACCCCTT
1 GGGGAATCAGCACTTAGCAACCCCTT
20721005 GGGGAATCAGCACTTAGCAACCCC
1 GGGGAATCAGCACTTAGCAACCCC
20721029 CTTCACATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.28, C:0.32, G:0.24, T:0.16
Consensus pattern (26 bp):
GGGGAATCAGCACTTAGCAACCCCTT
Found at i:20721024 original size:101 final size:101
Alignment explanation
Indices: 20720904--20721132 Score: 413
Period size: 101 Copynumber: 2.3 Consensus size: 101
20720894 CCAATGAATC
* ** *
20720904 GGGGAATCAGCACTTAGCAACCCCTTTCACATTTACGATACGGTGGGATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
*
20720969 CCAATGAATCGGGGAATCAGCACTTAGCAACCCCTT
66 CCAATGAATCGGGGAATCAACACTTAGCAACCCCTT
20721005 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
20721070 CCAATGAATCGGGGAATCAACACTTAGCAACCCCTT
66 CCAATGAATCGGGGAATCAACACTTAGCAACCCCTT
20721106 GGGGAATCAGCACTTAGCAACCCCCTT
1 GGGGAATCAGCACTTAGCAACCCCCTT
20721133 TATATTCAAT
Statistics
Matches: 123, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
101 123 1.00
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.20
Consensus pattern (101 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
CCAATGAATCGGGGAATCAACACTTAGCAACCCCTT
Found at i:20721109 original size:26 final size:26
Alignment explanation
Indices: 20721080--20721129 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
20721070 CCAATGAATC
20721080 GGGGAATCAACACTTAGCAACCCCTT
1 GGGGAATCAACACTTAGCAACCCCTT
*
20721106 GGGGAATCAGCACTTAGCAACCCC
1 GGGGAATCAACACTTAGCAACCCC
20721130 CTTTATATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.30, C:0.32, G:0.22, T:0.16
Consensus pattern (26 bp):
GGGGAATCAACACTTAGCAACCCCTT
Found at i:20726528 original size:42 final size:43
Alignment explanation
Indices: 20726427--20726530 Score: 129
Period size: 43 Copynumber: 2.4 Consensus size: 43
20726417 TCTCTAGATT
* * *
20726427 GTGTGCAATTCGAAATAGGGCCACACAGTCGTGTTGCCATACC
1 GTGTGCAATTCAAAATAGGGCCACACAGCCGTGTTGCCAGACC
* * * * *
20726470 GTGTGCAATTCCAAATAGGGTCATACGGCCGTGTTG-TAGACC
1 GTGTGCAATTCAAAATAGGGCCACACAGCCGTGTTGCCAGACC
20726512 GTGTGCAATTCAAAATAGG
1 GTGTGCAATTCAAAATAGG
20726531 ATCACATGAT
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
42 22 0.42
43 31 0.58
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (43 bp):
GTGTGCAATTCAAAATAGGGCCACACAGCCGTGTTGCCAGACC
Found at i:20726545 original size:42 final size:42
Alignment explanation
Indices: 20726427--20726545 Score: 114
Period size: 42 Copynumber: 2.8 Consensus size: 42
20726417 TCTCTAGATT
* * * *
20726427 GTGTGCAATTCGAAATAGGGCCACACAGTCGTGTTGCCATACC
1 GTGTGCAATTCAAAATAGGGTCACAGA-TCGTGTTGCCAGACC
* * ** *
20726470 GTGTGCAATTCCAAATAGGGTCATACGGCCGTGTTG-TAGACC
1 GTGTGCAATTCAAAATAGGGTCACA-GATCGTGTTGCCAGACC
*
20726512 GTGTGCAATTCAAAATAGGATCACATGATCGTGT
1 GTGTGCAATTCAAAATAGGGTCACA-GATCGTGT
20726546 CGCAAACTGT
Statistics
Matches: 61, Mismatches: 14, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
42 32 0.52
43 29 0.48
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (42 bp):
GTGTGCAATTCAAAATAGGGTCACAGATCGTGTTGCCAGACC
Found at i:20728888 original size:68 final size:68
Alignment explanation
Indices: 20728765--20728926 Score: 236
Period size: 68 Copynumber: 2.4 Consensus size: 68
20728755 AACACGTGAA
* * *
20728765 AGTCTGCTAGGACATTAAACATGGGGATTACAGGTGTAAGACCATAACTCAACTATGGCAACCAA
1 AGTCTGCCAGGACATTAAACATGAGGATTACAGGTGTAAGACCATAACTCAACTATGGAAACCAA
20728830 TAG
66 TAG
* * * * *
20728833 AGTCCT-TCAGGACATTAGACATGAGGATTACAGGTGTAAGATCATAGCTCGACTATGGAAACCA
1 AGT-CTGCCAGGACATTAAACATGAGGATTACAGGTGTAAGACCATAACTCAACTATGGAAACCA
20728897 ATAG
65 ATAG
20728901 AGTCTGCCAGGACATTAAACATGAGG
1 AGTCTGCCAGGACATTAAACATGAGG
20728927 CATGATAAGT
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
67 2 0.02
68 78 0.95
69 2 0.02
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.22
Consensus pattern (68 bp):
AGTCTGCCAGGACATTAAACATGAGGATTACAGGTGTAAGACCATAACTCAACTATGGAAACCAA
TAG
Found at i:20732137 original size:14 final size:14
Alignment explanation
Indices: 20732105--20732148 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
20732095 TTGCCTAAAT
**
20732105 AACTACTGCATCTG
1 AACTACTGTGTCTG
* *
20732119 TACTACTGTGTTTG
1 AACTACTGTGTCTG
20732133 AACTACTGTGTCTG
1 AACTACTGTGTCTG
20732147 AA
1 AA
20732149 TTCATCTCCA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.36
Consensus pattern (14 bp):
AACTACTGTGTCTG
Found at i:20733204 original size:41 final size:41
Alignment explanation
Indices: 20733159--20733242 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
20733149 AATTACAAAC
20733159 GTGTAATTCTCGTATCTAAAAAATGAACATCAATACTAGGG
1 GTGTAATTCTCGTATCTAAAAAATGAACATCAATACTAGGG
20733200 GTGTAATTCTCGTATCTAAAAAATGAACATCAATACTAGGG
1 GTGTAATTCTCGTATCTAAAAAATGAACATCAATACTAGGG
20733241 GT
1 GT
20733243 AAAAACCAGA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (41 bp):
GTGTAATTCTCGTATCTAAAAAATGAACATCAATACTAGGG
Found at i:20739224 original size:217 final size:216
Alignment explanation
Indices: 20738949--20739400 Score: 579
Period size: 217 Copynumber: 2.1 Consensus size: 216
20738939 GATTTGTTTA
* ** * * *
20738949 TTCAGTCTGCCCCACTACAATTTCAGGGGGATAAGACTTACTTTCTTGGTCTGCTCCACTGCAAC
1 TTCAGTCTG-CTCACTACAATTTCAGAAGGATAAGACCTACTTACTTAGTCTGCTCCACTGCAAC
* * *
20739014 TTTAGGAAGATAAGACCT-GATATGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCAGTGGTT
65 TTCAGGAAGATAAGA-CTAGATATGATCTGCTCTCTACAACTTCAGAGAGATAAGATCAGTGATT
* *
20739078 TTAATCCGCTCCACTACAA-CTTCAAGGAGATAGGATTATTGGCTTTAATCTGCTTCACTGCAA-
129 TTAATCCGATCCACTACAACCTT-AAGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAAC
20739141 CTTCAAGGAGATAAGATTCGCCATC
193 CTT-AAGGAGATAAGATTCGCCATC
*
20739166 TTCAGTCTGTCTCACTACAACTTT-AGAAGGATAAGACCTGCTTACTTAGTCTGCTCCACTGCAA
1 TTCAGTCTG-CTCACTACAA-TTTCAGAAGGATAAGACCTACTTACTTAGTCTGCTCCACTGCAA
* * * * *
20739230 CTTCAGGGAGATAAGACTAGATGTGATCTGCTCTCTACAACTTTAGAGAGATAAGATCTGTTATT
64 CTTCAGGAAGATAAGACTAGATATGATCTGCTCTCTACAACTTCAGAGAGATAAGATCAGTGATT
* ** * *
20739295 TTAATCCGATCCGCTGTAACCTTAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGTAACC
129 TTAATCCGATCCACTACAACCTTAAGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACC
* * *
20739360 TTAGGGAGATAAGATTTGCCGTC
194 TTAAGGAGATAAGATTCGCCATC
*
20739383 TTCAATCTGCTCCACTAC
1 TTCAGTCTGCT-CACTAC
20739401 TGCTCATGGA
Statistics
Matches: 203, Mismatches: 27, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
216 4 0.02
217 190 0.94
218 9 0.04
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (216 bp):
TTCAGTCTGCTCACTACAATTTCAGAAGGATAAGACCTACTTACTTAGTCTGCTCCACTGCAACT
TCAGGAAGATAAGACTAGATATGATCTGCTCTCTACAACTTCAGAGAGATAAGATCAGTGATTTT
AATCCGATCCACTACAACCTTAAGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACCTT
AAGGAGATAAGATTCGCCATC
Found at i:20739243 original size:44 final size:44
Alignment explanation
Indices: 20738952--20739246 Score: 137
Period size: 44 Copynumber: 6.8 Consensus size: 44
20738942 TTGTTTATTC
* * * * * * *
20738952 AGTCTGCCCCACTACAATTTCAGGGGGATAAGACTTACTTTCTT
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACCTGCTTACTT
* * * * *
20738996 GGTCTGCTCCACTGCAACTTTAGGAAGATAAGACCTG-ATA-TG
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACCTGCTTACTT
* * * *
20739038 A-TCTGCT-CTCTGCAACTTCAGAGAGATAAGATCAGTGGTT--TT
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-C-CTGCTTACTT
* * * * * ** *
20739080 AATCCGCTCCACTACAACTTCAAGGAGATAGGA--TTATTGGCTTT
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACCTGCTT-AC-TT
* * * * *
20739124 AATCTGCTTCACTGCAACTTCAAGGAGATAAGA-TTCGC-CATCTT
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACCT-GCTTA-CTT
* * *
20739168 CAGTCTG-TCTCACTACAACTTTA-GAAGGATAAGACCTGCTTACTT
1 -AGTCTGCTC-CACTGCAACTTCAGGGA-GATAAGACCTGCTTACTT
20739213 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGAC
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGAC
20739247 TAGATGTGAT
Statistics
Matches: 186, Mismatches: 46, Indels: 38
0.69 0.17 0.14
Matches are distributed among these distances:
40 23 0.12
41 7 0.04
42 5 0.03
43 7 0.04
44 108 0.58
45 34 0.18
46 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.29
Consensus pattern (44 bp):
AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACCTGCTTACTT
Found at i:20739588 original size:44 final size:44
Alignment explanation
Indices: 20739521--20739853 Score: 255
Period size: 44 Copynumber: 7.6 Consensus size: 44
20739511 TGTCTTCGAT
*
20739521 CTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAAC
1 CTACTCCACTACTGCTCAGGGAGATAAGATCTGTAATTTTCAAC
** * * ** * * *
20739565 CTACTCCACTGTTGCTCAAGGAGATAAG-GCTGGGGA-CTTCGAT
1 CTACTCCACTACTGCTCAGGGAGATAAGATCT-GTAATTTTCAAC
* * * *
20739608 CTGCTCCACTATTGCTTAGGGAGTTAAGATCTGTAATTTTCAAC
1 CTACTCCACTACTGCTCAGGGAGATAAGATCTGTAATTTTCAAC
* * * ** * * *
20739652 CTACTCCATTGCTGCTCAGGGAGATAAG-GCTGGGGA-CTTCGAT
1 CTACTCCACTACTGCTCAGGGAGATAAGATCT-GTAATTTTCAAC
* * *
20739695 ATGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAAC
1 CTACTCCACTACTGCTCAGGGAGATAAGATCTGTAATTTTCAAC
* * * ** * * *
20739739 CTACTCCACTGCTACTCAGGGAGATAAG-GCTGGGGA-CTTCGAT
1 CTACTCCACTACTGCTCAGGGAGATAAGATCT-GTAATTTTCAAC
* * *
20739782 CTGCTCCATTACTGCTTAGGGAGATAAGATCTGTAATTTTCAAC
1 CTACTCCACTACTGCTCAGGGAGATAAGATCTGTAATTTTCAAC
* *
20739826 CTATTCCACTGCTGCTCAGGGAGATAAG
1 CTACTCCACTACTGCTCAGGGAGATAAG
20739854 GCTGGGGACT
Statistics
Matches: 209, Mismatches: 71, Indels: 18
0.70 0.24 0.06
Matches are distributed among these distances:
43 93 0.44
44 116 0.56
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.29
Consensus pattern (44 bp):
CTACTCCACTACTGCTCAGGGAGATAAGATCTGTAATTTTCAAC
Found at i:20739623 original size:43 final size:43
Alignment explanation
Indices: 20739514--20739896 Score: 234
Period size: 43 Copynumber: 8.8 Consensus size: 43
20739504 AGGCTAGTGT
* * * **
20739514 CTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCT-GTAA
1 CTTCGATCTGCTCCACTACTGCTCAGGGAGATAAG-GCTGGGGA
* * * * ** *
20739557 TTTTCAACCTACTCCACTGTTGCTCAAGGAGATAAGGCTGGGGA
1 -CTTCGATCTGCTCCACTACTGCTCAGGGAGATAAGGCTGGGGA
* * * * **
20739601 CTTCGATCTGCTCCACTATTGCTTAGGGAGTTAAGATCT-GTAA
1 CTTCGATCTGCTCCACTACTGCTCAGGGAGATAAG-GCTGGGGA
* * * * * *
20739644 TTTTCAACCTACTCCATTGCTGCTCAGGGAGATAAGGCTGGGGA
1 -CTTCGATCTGCTCCACTACTGCTCAGGGAGATAAGGCTGGGGA
* * * **
20739688 CTTCGATATGCTCCACTACTGCTTAGGGAGATAAGATCT-GTAA
1 CTTCGATCTGCTCCACTACTGCTCAGGGAGATAAG-GCTGGGGA
* * * * * *
20739731 TTTTCAACCTACTCCACTGCTACTCAGGGAGATAAGGCTGGGGA
1 -CTTCGATCTGCTCCACTACTGCTCAGGGAGATAAGGCTGGGGA
* * * **
20739775 CTTCGATCTGCTCCATTACTGCTTAGGGAGATAAGATCT-GTAA
1 CTTCGATCTGCTCCACTACTGCTCAGGGAGATAAG-GCTGGGGA
* * * ** *
20739818 TTTTCAACCTATTCCACTGCTGCTCAGGGAGATAAGGCTGGGGA
1 -CTTCGATCTGCTCCACTACTGCTCAGGGAGATAAGGCTGGGGA
* *
20739862 CTTCGATATGCTCCACTACTGCTTAGGGAGATAAG
1 CTTCGATCTGCTCCACTACTGCTCAGGGAGATAAG
20739897 ATCTATGATT
Statistics
Matches: 244, Mismatches: 85, Indels: 21
0.70 0.24 0.06
Matches are distributed among these distances:
43 122 0.50
44 122 0.50
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.29
Consensus pattern (43 bp):
CTTCGATCTGCTCCACTACTGCTCAGGGAGATAAGGCTGGGGA
Found at i:20739924 original size:87 final size:87
Alignment explanation
Indices: 20739514--20739900 Score: 675
Period size: 87 Copynumber: 4.4 Consensus size: 87
20739504 AGGCTAGTGT
* *
20739514 CTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGTTG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTG
*
20739579 CTCAAGGAGATAAGGCTGGGGA
66 CTCAGGGAGATAAGGCTGGGGA
* * *
20739601 CTTCGATCTGCTCCACTATTGCTTAGGGAGTTAAGATCTGTAATTTTCAACCTACTCCATTGCTG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTG
20739666 CTCAGGGAGATAAGGCTGGGGA
66 CTCAGGGAGATAAGGCTGGGGA
* *
20739688 CTTCGATATGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTA
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTG
20739753 CTCAGGGAGATAAGGCTGGGGA
66 CTCAGGGAGATAAGGCTGGGGA
* *
20739775 CTTCGATCTGCTCCATTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTATTCCACTGCTG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTG
20739840 CTCAGGGAGATAAGGCTGGGGA
66 CTCAGGGAGATAAGGCTGGGGA
*
20739862 CTTCGATATGCTCCACTACTGCTTAGGGAGATAAGATCT
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
20739901 ATGATTTTTA
Statistics
Matches: 283, Mismatches: 17, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
87 283 1.00
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.29
Consensus pattern (87 bp):
CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTG
CTCAGGGAGATAAGGCTGGGGA
Found at i:20752108 original size:25 final size:26
Alignment explanation
Indices: 20752066--20752139 Score: 89
Period size: 25 Copynumber: 2.8 Consensus size: 26
20752056 AAATTATAAA
*
20752066 ATTTATATAACAAAATAAATA-ATGT
1 ATTTATATAAAAAAATAAATATATGT
20752091 ATTTAT-TAAAAAACATAAATATATGT
1 ATTTATATAAAAAA-ATAAATATATGT
* *
20752117 ATATATATAAAATAAAAAAATAT
1 ATTTATATAAAA-AAATAAATAT
20752140 GTGTTAAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
24 6 0.14
25 13 0.31
26 9 0.21
27 12 0.29
28 2 0.05
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (26 bp):
ATTTATATAAAAAAATAAATATATGT
Found at i:20752140 original size:25 final size:24
Alignment explanation
Indices: 20752069--20752141 Score: 67
Period size: 26 Copynumber: 2.9 Consensus size: 24
20752059 TTATAAAATT
* * *
20752069 TATATAACAAAATAAATAATGTATT
1 TATATAAAAAAAAAAAT-ATGTATA
20752094 TAT-TAAAAAACATAAATATATGTATA
1 TATATAAAAAA-A-AAA-ATATGTATA
20752120 TATATAAAATAAAAAAATATGT
1 TATATAAAA-AAAAAAATATGT
20752142 GTTAAAAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
24 6 0.15
25 10 0.25
26 14 0.35
27 8 0.20
28 2 0.05
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.34
Consensus pattern (24 bp):
TATATAAAAAAAAAAATATGTATA
Found at i:20759220 original size:68 final size:68
Alignment explanation
Indices: 20759109--20759257 Score: 190
Period size: 68 Copynumber: 2.2 Consensus size: 68
20759099 TCCGTTAGAG
* * * * * * *
20759109 CATTAAAAATTGGGATTGCAGGTGTAAGACTATAGCTCAACTATGACATCCACTAGAGTCTGCTA
1 CATTAAAAATGGGGATTACAAGTGTAAAACTATAGCTCAACTATGACAACCAATAGAGTCCGCTA
20759174 GGA
66 GGA
* * * * *
20759177 CATTAAACATGGGGATTACAAGTGTAAAACTGTAGCTCCACTATGGCAACCAATAGAGTCCGTTA
1 CATTAAAAATGGGGATTACAAGTGTAAAACTATAGCTCAACTATGACAACCAATAGAGTCCGCTA
20759242 GGA
66 GGA
20759245 CATTAAAAATGGG
1 CATTAAAAATGGG
20759258 TTATAATGAG
Statistics
Matches: 68, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (68 bp):
CATTAAAAATGGGGATTACAAGTGTAAAACTATAGCTCAACTATGACAACCAATAGAGTCCGCTA
GGA
Found at i:20759376 original size:27 final size:27
Alignment explanation
Indices: 20759325--20759383 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
20759315 TAAATGTGCG
* **
20759325 TAGTCTGCAAGGACAATAATCATGGGA
1 TAGTCCGCAAGGACAATAAAAATGGGA
* *
20759352 TAGTCCGCCAGGACAATAAAAATGGGG
1 TAGTCCGCAAGGACAATAAAAATGGGA
20759379 TAGTC
1 TAGTC
20759384 ATGATAATAG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.36, C:0.17, G:0.27, T:0.20
Consensus pattern (27 bp):
TAGTCCGCAAGGACAATAAAAATGGGA
Found at i:20760943 original size:913 final size:918
Alignment explanation
Indices: 20759162--20760995 Score: 3363
Period size: 913 Copynumber: 2.0 Consensus size: 918
20759152 TGACATCCAC
20759162 TAGAGTCTGCTAGGACATTAAACATGGGGATTACAAGTGTAAAACTGTAGCTCCACTATGGCAAC
1 TAGAGTCTGCTAGGACATTAAACATGGGGATTACAAGTGTAAAACTGTAGCTCCACTATGGCAAC
* *
20759227 CAATAGAGTCCGTTAGGACATTAAAAATGGGTTATAATGAGTAAGATCATAACTCGGGTATGGCA
66 CAATAGAGTCCGTCAGGACATTAAAAATGGGATATAATGAGTAAGATCATAACTCGGGTATGGCA
20759292 ACATATAGAGTTCGTCGAGACAATAAATGTGCGTAGTCTGCAAGGACAATAATCATGGGATAGTC
131 ACATATAGAGTTCGTCGAGACAATAAATGTGC--AG-CT--AAGG---ATAATCATGGGATAGTC
*
20759357 CGCCAGGACAATAAAAATGGGGTAGTCATGATAATAGGTATATGAAAACGAAGTTAAAGGTTTTG
188 CGCCAGGACAATAAAAATGGAGTAGTCATGATAATAGGTATATGAAAACGAAGTTAAAGGTTTTG
20759422 AAACCAGTTTAGGGGTTTTGCATGTTTCTGGAAAATTAAGTTTTAAGCTGAGAATGTTGAGTGTA
253 AAACCAGTTTAGGGGTTTTGCATGTTTCTGGAAAATTAAGTTTTAAGCTGAGAATGTTGAGTGTA
*
20759487 ACTCATGGTTTTGGTTATAGTCATTAGCTTTCAAAATAATGAAAGCTCTGGCATTCAAAAAAACT
318 ACTCATGGTTTTGGTTATAGTCATTAGCTTTCAAAAGAATGAAAGCTCTGGCATTCAAAAAAACT
20759552 AAACTGATAAGGCGAAAAAGAATCAGGTAAGTGTGTCGGCATATGAAAAAGGTCATGATAATAGG
383 AAACTGATAAGGCGAAAAAGAATCAGGTAAGTGTGTCGGCATATGAAAAAGGTCATGATAATAGG
20759617 TATATGAATTTCATGTCTGTGGCAATGGAGTACTGAAGGGAAATTATTGACGGGATAGATGCAGT
448 TATATGAATTTCATGTCTGTGGCAATGGAGTACTGAAGGGAAATTATTGACGGGATAGATGCAGT
* *
20759682 TGGGATTGGGAAATAAGAATTTTTGTTAGATACCTCCATACAGAGTTGTTGTGTGCAATCTATGA
513 TGAGATTGGGAAATAAGAATTTTTGTTAGATACCTCCATACAGAGTTGTTGTGTGCAATCCATGA
*
20759747 TGTATAAAGCTCTGAGCCTTTAAGGAGGGGACACTTTGGTGTTCGAGCATCAAGGTATAAGAATG
578 TGTATAAAGCTCTAAGCCTTTAAGGAGGGGACACTTTGGTGTTCGAGCATCAAGGTATAAGAATG
20759812 CTAAAATAGAGGAAAGAGCGAATGAATAGGAGAATGAAATTTCGTTACGATACCACCATATAGCT
643 CTAAAATAGAGGAAAGAGCGAATGAATAGGAGAATGAAATTTCGTTACGATACCACCATATAGCT
*
20759877 TTGCTAAATACAAACCGTGATGTGTGAAGCTCCGAGCATTGTGAGGTGGCATTTCGGTGTTCGGG
708 TTGCTAAATACAAACCGTGATGTGTGAAGCTCCGAGCATTGTGAGGTGGCATTTCGGTGTTCGAG
* *
20759942 TATCAAGGTAAAATGTACAAAGGAATGATATTGACTGGTCCTTCGAGGTGACACCATGACATTGA
773 TATCAAGGTAAAATGTAAAAAGGAATGATATCGACTGGTCCTTCGAGGTGACACCATGACATTGA
*
20760007 TATTTAAGTTCCATAATGCAACACCTAACGACGGTTAACAGGCTCTATGGGGTGACATCGCGATG
838 TATTTAAGTTCCATAAAGCAACACCTAACGACGGTTAACAGGCTCTATGGGGTGACATCGCGATG
20760072 GCAGTAAAGTCACCAA
903 GCAGTAAAGTCACCAA
20760088 TAGAGTCTGCTAGGACATTAAACATGGGGATTACAAGTGTAAAACTGTAGCTCCACTATGGCAAC
1 TAGAGTCTGCTAGGACATTAAACATGGGGATTACAAGTGTAAAACTGTAGCTCCACTATGGCAAC
20760153 CAATAGAGTCCGTCAGGACATTAAAAATGGGATATAATGAGTAAGATCATAACTCGGGTATGGCA
66 CAATAGAGTCCGTCAGGACATTAAAAATGGGATATAATGAGTAAGATCATAACTCGGGTATGGCA
* *
20760218 ACATATGGAGTTCGTCGAGACAATAAATGTGC-G-T-A-G-TAATCATGGGATAGTCCGCTAGGA
131 ACATATAGAGTTCGTCGAGACAATAAATGTGCAGCTAAGGATAATCATGGGATAGTCCGCCAGGA
*
20760278 CAATAAAAATGGAGTAGTCATGATAATAGGTATATGAAAACGAAGTTAAGGGTTTTGAAACCAGT
196 CAATAAAAATGGAGTAGTCATGATAATAGGTATATGAAAACGAAGTTAAAGGTTTTGAAACCAGT
20760343 TTAGGGGTTTTGCATGTTTCTGGAAAATTAAGTTTTAAGCTGAGAATGTTGAGTGTAACTCATGG
261 TTAGGGGTTTTGCATGTTTCTGGAAAATTAAGTTTTAAGCTGAGAATGTTGAGTGTAACTCATGG
20760408 TTTTGGTTATAGTCATTAGCTTTCAAAAGAATGAAAGCTCTGGCATTCAAAAAAACTAAACTGAT
326 TTTTGGTTATAGTCATTAGCTTTCAAAAGAATGAAAGCTCTGGCATTCAAAAAAACTAAACTGAT
* *
20760473 AAGGCGAAAAAGAATCAGGTGAGTGTGTCGGCATATGAAAAGGGTCATGATAATAGGTATATGAA
391 AAGGCGAAAAAGAATCAGGTAAGTGTGTCGGCATATGAAAAAGGTCATGATAATAGGTATATGAA
20760538 TTTCATGTCTGTGGCAATGGAGTACTGAAGGGAAATTATTGACGGGATAGATGCAGTTGAGATTG
456 TTTCATGTCTGTGGCAATGGAGTACTGAAGGGAAATTATTGACGGGATAGATGCAGTTGAGATTG
* *
20760603 GGAAATGAGAATTTTTGTTAGATACCTCCATATAGAGTTGTTGTGTGCAATCCATGATGTATAAA
521 GGAAATAAGAATTTTTGTTAGATACCTCCATACAGAGTTGTTGTGTGCAATCCATGATGTATAAA
*
20760668 GCTCTAAGCCTTTAAGGAGGGGACACTTTGGTGTTCGAGCATCAAGGTATAAGAATGCTAAAATG
586 GCTCTAAGCCTTTAAGGAGGGGACACTTTGGTGTTCGAGCATCAAGGTATAAGAATGCTAAAATA
*
20760733 GAGGAAAGAGCGAATGAATAGGAGAATGAAATTTCGTTACGATACCACCATATAGTTTTGCTAAA
651 GAGGAAAGAGCGAATGAATAGGAGAATGAAATTTCGTTACGATACCACCATATAGCTTTGCTAAA
*
20760798 TACAAATCGTGATGTGTGAAGCTCCGAGCATTGTGAGGTGGCATTTCGGTGTTCGAGTATCAAGG
716 TACAAACCGTGATGTGTGAAGCTCCGAGCATTGTGAGGTGGCATTTCGGTGTTCGAGTATCAAGG
20760863 TAAAATGTAAAAAGGAATGATATCGACTGGTCCTTCGAGGTGACACCATGACATTGATATTTAAG
781 TAAAATGTAAAAAGGAATGATATCGACTGGTCCTTCGAGGTGACACCATGACATTGATATTTAAG
*
20760928 TTCCATAAAGCAACACCTAACGACGGTTAACAGGCTCTATGGGGTGACATCGCGATGGCGGTAAA
846 TTCCATAAAGCAACACCTAACGACGGTTAACAGGCTCTATGGGGTGACATCGCGATGGCAGTAAA
20760993 GTC
911 GTC
20760996 CTTCGTGACA
Statistics
Matches: 886, Mismatches: 22, Indels: 13
0.96 0.02 0.01
Matches are distributed among these distances:
913 723 0.82
917 1 0.00
918 1 0.00
921 1 0.00
923 1 0.00
926 159 0.18
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.27
Consensus pattern (918 bp):
TAGAGTCTGCTAGGACATTAAACATGGGGATTACAAGTGTAAAACTGTAGCTCCACTATGGCAAC
CAATAGAGTCCGTCAGGACATTAAAAATGGGATATAATGAGTAAGATCATAACTCGGGTATGGCA
ACATATAGAGTTCGTCGAGACAATAAATGTGCAGCTAAGGATAATCATGGGATAGTCCGCCAGGA
CAATAAAAATGGAGTAGTCATGATAATAGGTATATGAAAACGAAGTTAAAGGTTTTGAAACCAGT
TTAGGGGTTTTGCATGTTTCTGGAAAATTAAGTTTTAAGCTGAGAATGTTGAGTGTAACTCATGG
TTTTGGTTATAGTCATTAGCTTTCAAAAGAATGAAAGCTCTGGCATTCAAAAAAACTAAACTGAT
AAGGCGAAAAAGAATCAGGTAAGTGTGTCGGCATATGAAAAAGGTCATGATAATAGGTATATGAA
TTTCATGTCTGTGGCAATGGAGTACTGAAGGGAAATTATTGACGGGATAGATGCAGTTGAGATTG
GGAAATAAGAATTTTTGTTAGATACCTCCATACAGAGTTGTTGTGTGCAATCCATGATGTATAAA
GCTCTAAGCCTTTAAGGAGGGGACACTTTGGTGTTCGAGCATCAAGGTATAAGAATGCTAAAATA
GAGGAAAGAGCGAATGAATAGGAGAATGAAATTTCGTTACGATACCACCATATAGCTTTGCTAAA
TACAAACCGTGATGTGTGAAGCTCCGAGCATTGTGAGGTGGCATTTCGGTGTTCGAGTATCAAGG
TAAAATGTAAAAAGGAATGATATCGACTGGTCCTTCGAGGTGACACCATGACATTGATATTTAAG
TTCCATAAAGCAACACCTAACGACGGTTAACAGGCTCTATGGGGTGACATCGCGATGGCAGTAAA
GTCACCAA
Found at i:20761258 original size:67 final size:67
Alignment explanation
Indices: 20761073--20761324 Score: 223
Period size: 67 Copynumber: 3.8 Consensus size: 67
20761063 CCGTTGGGAT
* * * * * * *
20761073 AGTAAACACAGGGTATGTTGTGTAAGATCATGGCTCGA-CTGTGG-TGACATAAACAGTCCAT-C
1 AGTAAACACAGGGTATGTTGTGTAAGACCATAGCTC-ATCTATGGAAG-CATAGAGAGTCCATGG
20761135 AGGAC
64 A-GAC
* * *
20761140 AGTAAACACAGGGTATGTTGTCTAAGACCATAGCTCGA-CTATAGCAA-CATAGAGAGTCCGTCG
1 AGTAAACACAGGGTATGTTGTGTAAGACCATAGCTC-ATCTAT-GGAAGCATAGAGAGTCCAT-G
20761203 GA-AC
63 GAGAC
* * * *
20761207 AGTAAACACGGGGTATGATGTGTAAGACCATAGCTCATTTATGGAAGCATAGAGAGTCCATTGAG
1 AGTAAACACAGGGTATGTTGTGTAAGACCATAGCTCATCTATGGAAGCATAGAGAGTCCATGGAG
20761272 AC
66 AC
* * * *
20761274 AG-AAA-ACATGGGTCTGTTCTGTAAGACCATGGCTCATCTATGGTAGCATAG
1 AGTAAACACA-GGGTATGTTGTGTAAGACCATAGCTCATCTATGGAAGCATAG
20761325 TGAATTCGTT
Statistics
Matches: 153, Mismatches: 24, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
65 2 0.01
66 45 0.29
67 104 0.68
68 1 0.01
69 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.24
Consensus pattern (67 bp):
AGTAAACACAGGGTATGTTGTGTAAGACCATAGCTCATCTATGGAAGCATAGAGAGTCCATGGAG
AC
Found at i:20761346 original size:66 final size:66
Alignment explanation
Indices: 20761227--20761367 Score: 165
Period size: 66 Copynumber: 2.1 Consensus size: 66
20761217 GGGTATGATG
* * * * * *
20761227 TGTAAGACCATAGCTCATTTATGGAAGCATAGAGAGTCCATTGAGACAGAAAACATGGGTCTGTT
1 TGTAAGACCATAGCTCATCTATGGAAGCATAGAGAATCCATTGAGACAAAAAACATAGGTATATT
*
20761292 C
66 A
* * * * * *
20761293 TGTAAGACCATGGCTCATCTATGGTAGCATAGTGAATTCGTTGGGACAAAAAACATAGGTATATT
1 TGTAAGACCATAGCTCATCTATGGAAGCATAGAGAATCCATTGAGACAAAAAACATAGGTATATT
20761358 A
66 A
20761359 TGTAAGACC
1 TGTAAGACC
20761368 GAAGCTCGAT
Statistics
Matches: 62, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
66 62 1.00
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (66 bp):
TGTAAGACCATAGCTCATCTATGGAAGCATAGAGAATCCATTGAGACAAAAAACATAGGTATATT
A
Found at i:20763178 original size:71 final size:70
Alignment explanation
Indices: 20763024--20763184 Score: 207
Period size: 71 Copynumber: 2.3 Consensus size: 70
20763014 TTATCAACTC
* *
20763024 TTAGAACCGAATGTATATTCACTATAAACATGAATAGCCGAATGCTTATATACATATATGCTTAA
1 TTAGAACCAAATGTATATACACTATAAACATGAATAGCCGAATGCTTATATACATATA-GCTTAA
*
20763089 CATATA
65 CAAATA
** * * *
20763095 TTAGCTCAAAATGTATATACACTTTGAACATGAATAGCCGAATGCATATATATACATATA-CTTA
1 TTAGAACCAAATGTATATACACTATAAACATGAATAGCCGAATGC-T-TATATACATATAGCTTA
20763159 ACAAATA
64 ACAAATA
*
20763166 TTATAACCAAATGTATATA
1 TTAGAACCAAATGTATATA
20763185 TGTATTTATC
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
71 63 0.83
72 1 0.01
73 12 0.16
ACGTcount: A:0.43, C:0.15, G:0.10, T:0.32
Consensus pattern (70 bp):
TTAGAACCAAATGTATATACACTATAAACATGAATAGCCGAATGCTTATATACATATAGCTTAAC
AAATA
Found at i:20763239 original size:35 final size:35
Alignment explanation
Indices: 20763167--20763246 Score: 88
Period size: 35 Copynumber: 2.3 Consensus size: 35
20763157 TAACAAATAT
* * * *
20763167 TATAACCAAATGTATATATGTATTTATCACCTGCA
1 TATAACCAAATGCATATATGTACTTAACACCTACA
* **
20763202 TATATCCAAATGCATATATGTACTTAACATGTACA
1 TATAACCAAATGCATATATGTACTTAACACCTACA
*
20763237 TATAATCAAA
1 TATAACCAAA
20763247 CCTATACAAA
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.41, C:0.16, G:0.07, T:0.35
Consensus pattern (35 bp):
TATAACCAAATGCATATATGTACTTAACACCTACA
Found at i:20763678 original size:41 final size:41
Alignment explanation
Indices: 20763633--20763820 Score: 306
Period size: 41 Copynumber: 4.6 Consensus size: 41
20763623 ACCAACAATT
* * *
20763633 AGCCTGTTAGACGTAAAGTCTGAAATATTTCACCGGCATCG
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
* *
20763674 AGCCTGCTAGACATAAAGTCTGAAACATTTCACTGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
*
20763715 AGCCTGCTAGACGTAAAG-CTCGAAATATTTCACCGGCATCA
1 AGCCTGCTAGACGTAAAGTCT-GAAACATTTCACCGGCATCA
20763756 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
20763797 AGCCTGCTAGACGTAAAGTCTGAA
1 AGCCTGCTAGACGTAAAGTCTGAA
20763821 TCATCTTACT
Statistics
Matches: 136, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
40 2 0.01
41 132 0.97
42 2 0.01
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.23
Consensus pattern (41 bp):
AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
Found at i:20772938 original size:20 final size:20
Alignment explanation
Indices: 20772913--20772958 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
20772903 TTGTTAAGTT
*
20772913 AAAAGAAGATAAAGTAAAGG
1 AAAAGAAGAGAAAGTAAAGG
*
20772933 AAAAGAAGAGAAAGTAAATG
1 AAAAGAAGAGAAAGTAAAGG
20772953 AAAAGA
1 AAAAGA
20772959 GAAGTGAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.24, T:0.09
Consensus pattern (20 bp):
AAAAGAAGAGAAAGTAAAGG
Found at i:20776294 original size:76 final size:76
Alignment explanation
Indices: 20776222--20776544 Score: 407
Period size: 76 Copynumber: 4.2 Consensus size: 76
20776212 TACGCCCAGT
* * ** *
20776222 GCTAGTTGGATAAACCGACGATATCAAACGTGTGCCCAGCACTA-TTCGGATAAACTGACAATGA
1 GCTAGTCGGATAAACCGACGATATCAAATGTGTGCCCAGCACTAGTT-GGATGTACTAACAATGA
20776286 GTTGCGCCCAAC
65 GTTGCGCCCAAC
* * ** * * *
20776298 GTTAGTCGGGTAAACTAACAATATCAAATGTGTGCCCAGCGCTAGTTGGATGTACCAACAATGAG
1 GCTAGTCGGATAAACCGACGATATCAAATGTGTGCCCAGCACTAGTTGGATGTACTAACAATGAG
*
20776363 TTGTGCCCAAC
66 TTGCGCCCAAC
* * * * *
20776374 GCTAGTCGGGTAAATCGATGATATCAAATGTGTGCCCAGCACTAGTTGGATGTACCAATAATGAG
1 GCTAGTCGGATAAACCGACGATATCAAATGTGTGCCCAGCACTAGTTGGATGTACTAACAATGAG
20776439 TTGCGCCCAAC
66 TTGCGCCCAAC
* *
20776450 GCTAGTC-GAGTAAACTGACGATATCAAATGTGTGCCCAACACTAGTTGGATGTACTAACAATGA
1 GCTAGTCGGA-TAAACCGACGATATCAAATGTGTGCCCAGCACTAGTTGGATGTACTAACAATGA
*
20776514 GTTGCACCCAAC
65 GTTGCGCCCAAC
**
20776526 GCTAGTCAAATAAACCGAC
1 GCTAGTCGGATAAACCGAC
20776545 AAATACATAC
Statistics
Matches: 212, Mismatches: 32, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
75 1 0.00
76 208 0.98
77 3 0.01
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.23
Consensus pattern (76 bp):
GCTAGTCGGATAAACCGACGATATCAAATGTGTGCCCAGCACTAGTTGGATGTACTAACAATGAG
TTGCGCCCAAC
Found at i:20776358 original size:40 final size:39
Alignment explanation
Indices: 20776318--20776431 Score: 99
Period size: 36 Copynumber: 3.0 Consensus size: 39
20776308 TAAACTAACA
20776318 ATATCAAATGTGTGCCCAGCGCTAGTTGGATGTACCAAC
1 ATATCAAATGTGTGCCCAGCGCTAGTTGGATGTACCAAC
* * * * * ** * **
20776357 A-AT-GAGT-TGTGCCCAACGCTAGTCGGGTAAATCGATG
1 ATATCAAATGTGTGCCCAGCGCTAGTTGGATGTA-CCAAC
*
20776394 ATATCAAATGTGTGCCCAGCACTAGTTGGATGTACCAA
1 ATATCAAATGTGTGCCCAGCGCTAGTTGGATGTACCAA
20776432 TAATGAGTTG
Statistics
Matches: 51, Mismatches: 20, Indels: 8
0.65 0.25 0.10
Matches are distributed among these distances:
36 19 0.37
37 5 0.10
38 4 0.08
39 5 0.10
40 18 0.35
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (39 bp):
ATATCAAATGTGTGCCCAGCGCTAGTTGGATGTACCAAC
Found at i:20776377 original size:36 final size:36
Alignment explanation
Indices: 20776328--20776531 Score: 97
Period size: 36 Copynumber: 5.4 Consensus size: 36
20776318 ATATCAAATG
*
20776328 TGTGCCCAGCGCTAGTTGGATGTACCAACAATGAGT
1 TGTGCCCAACGCTAGTTGGATGTACCAACAATGAGT
* * ** * ** * *
20776364 TGTGCCCAACGCTAGTCGGGTAAATCGATGATATCAAAT
1 TGTGCCCAACGCTAGTTGGATGTA-CCAACA-AT-GAGT
* * *
20776403 GTGTGCCCAGCACTAGTTGGATGTACCAATAATGAGT
1 -TGTGCCCAACGCTAGTTGGATGTACCAACAATGAGT
* * ** * *
20776440 TGCGCCCAACGCTAG-TCGA-GTAAACTGACGATATCAAAT
1 TGTGCCCAACGCTAGTTGGATGT--ACCAAC-A-AT-GAGT
* *
20776479 GTGTGCCCAACACTAGTTGGATGTACTAACAATGAGT
1 -TGTGCCCAACGCTAGTTGGATGTACCAACAATGAGT
**
20776516 TGCACCCAACGCTAGT
1 TGTGCCCAACGCTAGT
20776532 CAAATAAACC
Statistics
Matches: 117, Mismatches: 39, Indels: 24
0.65 0.22 0.13
Matches are distributed among these distances:
34 2 0.02
35 3 0.03
36 47 0.40
37 8 0.07
38 8 0.07
39 8 0.07
40 36 0.31
41 3 0.03
42 2 0.02
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.25
Consensus pattern (36 bp):
TGTGCCCAACGCTAGTTGGATGTACCAACAATGAGT
Found at i:20777544 original size:41 final size:40
Alignment explanation
Indices: 20777499--20777732 Score: 279
Period size: 41 Copynumber: 5.7 Consensus size: 40
20777489 ATGCTGTGAC
** *
20777499 TTTTAGCGGCGTTTTTAAGTTGCGCCGCTAATGGTAGGGT
1 TTTTAGCGGCGTTTTTAAGAAGCGCCGCTAATGTTAGGGT
* * *
20777539 GTTTTAGCAGCGTTTTTAATGAAGCGCTGCTAATGTTACGGT
1 -TTTTAGCGGCGTTTTTAA-GAAGCGCCGCTAATGTTAGGGT
* * **
20777581 TTTTAGTGGTGTTTTTTGGGAAGCGCCGCTAATGTTAGGGT
1 TTTTAGCGGCG-TTTTTAAGAAGCGCCGCTAATGTTAGGGT
* *
20777622 TTTTAGCGGCGTTTTTAATGAAGCGCCGCTAAAGTTAAGGT
1 TTTTAGCGGCGTTTTTAA-GAAGCGCCGCTAATGTTAGGGT
* *
20777663 TTTTAGCGGCGTTTTTTGAGAAGCGCCGCTAATGTTAGGGG
1 TTTTAGCGGCG-TTTTTAAGAAGCGCCGCTAATGTTAGGGT
*
20777704 TTTTAGCGGCGTTTTTGTAGAAGCGCCGC
1 TTTTAGCGGCGTTTTT-AAGAAGCGCCGC
20777733 AAAAAACATT
Statistics
Matches: 164, Mismatches: 24, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
40 10 0.06
41 126 0.77
42 28 0.17
ACGTcount: A:0.18, C:0.15, G:0.31, T:0.37
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTTAAGAAGCGCCGCTAATGTTAGGGT
Found at i:20777626 original size:82 final size:82
Alignment explanation
Indices: 20777499--20777732 Score: 319
Period size: 82 Copynumber: 2.9 Consensus size: 82
20777489 ATGCTGTGAC
* ** * *
20777499 TTTTAGCGGCG-TTTTTAAGTTGCGCCGCTAATGGTAGGGTGTTTTAGCAGCGTTTTTAATGAAG
1 TTTTAGCGGCGTTTTTTGAGAAGCGCCGCTAATGTTAGGGT-TTTTAGCGGCGTTTTTAATGAAG
* * *
20777563 CGCTGCTAATGTTACGGT
65 CGCCGCTAAAGTTAAGGT
* * *
20777581 TTTTAGTGGTGTTTTTTGGGAAGCGCCGCTAATGTTAGGGTTTTTAGCGGCGTTTTTAATGAAGC
1 TTTTAGCGGCGTTTTTTGAGAAGCGCCGCTAATGTTAGGGTTTTTAGCGGCGTTTTTAATGAAGC
20777646 GCCGCTAAAGTTAAGGT
66 GCCGCTAAAGTTAAGGT
* *
20777663 TTTTAGCGGCGTTTTTTGAGAAGCGCCGCTAATGTTAGGGGTTTTAGCGGCGTTTTT-GTAGAAG
1 TTTTAGCGGCGTTTTTTGAGAAGCGCCGCTAATGTTAGGGTTTTTAGCGGCGTTTTTAAT-GAAG
20777727 CGCCGC
65 CGCCGC
20777733 AAAAAACATT
Statistics
Matches: 134, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
81 1 0.01
82 109 0.81
83 24 0.18
ACGTcount: A:0.18, C:0.15, G:0.31, T:0.37
Consensus pattern (82 bp):
TTTTAGCGGCGTTTTTTGAGAAGCGCCGCTAATGTTAGGGTTTTTAGCGGCGTTTTTAATGAAGC
GCCGCTAAAGTTAAGGT
Found at i:20778682 original size:17 final size:16
Alignment explanation
Indices: 20778660--20778691 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
20778650 GAGATTAAGG
20778660 TTTAGGGGTTAAGGGGA
1 TTTAGGGGTT-AGGGGA
20778677 TTTAGGGGTTAGGGG
1 TTTAGGGGTTAGGGG
20778692 TTAGAGATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.19, C:0.00, G:0.50, T:0.31
Consensus pattern (16 bp):
TTTAGGGGTTAGGGGA
Found at i:20780183 original size:355 final size:350
Alignment explanation
Indices: 20779537--20780196 Score: 900
Period size: 355 Copynumber: 1.9 Consensus size: 350
20779527 GGCGTTTTTG
* *
20779537 CGCAAAAAGTTCTTAATAATTTGGAGAAAACGGTGTAGTTTTTGACTGGGAATTTAACGGCTTTT
1 CGCAAAAAATTATTAATAATTTGGAGAAAACGGTGTAGTTTTTGACTGGGAATTTAACGGCTTTT
* * *
20779602 GCGGCGCTAGTGTAAAAATGCCATTAAAGGTGGGCATTAGCGGCGCTAAAAAAAACGCCGCAAAG
66 GCGGCGCTAGTGTAAAAATGCCACTAAAGGTGGGCATTAGCGGCGCTAAAAAAAACACCGCAAAA
* *
20779667 TTGCTTTGTAGTTTAAACAAAACGTCATTTTGTCTAGCACATTAACGGCATTAGTGGCGCTCGGG
131 TTGCTTTGTAGTTTAAACAAAACGTCATTTTGTCCAGCACATTAACGACATTAGTGGCGCTCGGG
* * *
20779732 TAAAAACGCCGCAATTTTTAATTATTTATAGTGTTTTTAAATATTAATTAAAAAAACAATGTATT
196 AAAAAACGCCGCAATTTTTAATTATTTATAATGTTTTTAAATATTAATTAAAAAAACAATGTATC
*
20779797 AAATCCAAAAACGACGCCGTTTCAATAGAAGAATTTAATTTATTAAACGCCACTATAATGGAGAT
261 AAATCCAAAAACGACGCCGTTTCAATAGAAGAAATTAATTTATTAAACGCCACTATAATGGAGAT
20779862 TAGTGGCTTTTTTCACAAAAAACGC
326 TAGTGGCTTTTTTCACAAAAAACGC
* * *
20779887 CGCAAAAAATTATTAATAGTTTGG-GCAAAACGGTGTAGTTTTTGACTTGGAATTTAATGGCTTT
1 CGCAAAAAATTATTAATAATTTGGAG-AAAACGGTGTAGTTTTTGACTGGGAATTTAACGGCTTT
* * * * * **
20779951 TGCGGTGC-ATGTGTAAAAACT-CCACTAAAGGTGGGCGTTTGCGGTGTTAGGCTAAAAACACCG
65 TGCGGCGCTA-GTGTAAAAA-TGCCACTAAAGGTGGGCATTAGCGGCGCTA--AAAAAAACACCG
* * *
20780014 CAAAATTTCTTTGTAGTTTAAACAAAACGGTGTCGTTTTGTCCGGCACATTAACGACATTAGTGG
126 CAAAATTGCTTTGTAGTTTAAACAAAAC---GTCATTTTGTCCAGCACATTAACGACATTAGTGG
* * *
20780079 CGCTTGGGAAAAAACGTCGCAATTTTTAATT-TTATCTAAT-TTTTTAAATATTAATT-AAAAAA
188 CGCTCGGGAAAAAACGCCGCAATTTTTAATTATT-TATAATGTTTTTAAATATTAATTAAAAAAA
* * * *
20780141 CAATGTATCAAATTTCCGAAAACGGCGTCGTTTCAATAGAAGAAATTGATTTATTA
252 CAATGTATCAAA--TCCAAAAACGACGCCGTTTCAATAGAAGAAATTAATTTATTA
20780197 GTGGCGTTTT
Statistics
Matches: 268, Mismatches: 31, Indels: 17
0.85 0.10 0.05
Matches are distributed among these distances:
349 2 0.01
350 96 0.36
351 1 0.00
352 35 0.13
353 17 0.06
354 18 0.07
355 99 0.37
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (350 bp):
CGCAAAAAATTATTAATAATTTGGAGAAAACGGTGTAGTTTTTGACTGGGAATTTAACGGCTTTT
GCGGCGCTAGTGTAAAAATGCCACTAAAGGTGGGCATTAGCGGCGCTAAAAAAAACACCGCAAAA
TTGCTTTGTAGTTTAAACAAAACGTCATTTTGTCCAGCACATTAACGACATTAGTGGCGCTCGGG
AAAAAACGCCGCAATTTTTAATTATTTATAATGTTTTTAAATATTAATTAAAAAAACAATGTATC
AAATCCAAAAACGACGCCGTTTCAATAGAAGAAATTAATTTATTAAACGCCACTATAATGGAGAT
TAGTGGCTTTTTTCACAAAAAACGC
Found at i:20780563 original size:14 final size:14
Alignment explanation
Indices: 20780544--20780591 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
20780534 GAAAAAGCTC
20780544 ATTTTTCCCCTCAA
1 ATTTTTCCCCTCAA
20780558 ATTTTT-CCC-CAA
1 ATTTTTCCCCTCAA
* *
20780570 A--ATTCCCCTCCA
1 ATTTTTCCCCTCAA
20780582 ATTTTTCCCC
1 ATTTTTCCCC
20780592 AAAATTCCCC
Statistics
Matches: 27, Mismatches: 3, Indels: 8
0.71 0.08 0.21
Matches are distributed among these distances:
10 2 0.07
11 3 0.11
12 7 0.26
13 3 0.11
14 12 0.44
ACGTcount: A:0.21, C:0.40, G:0.00, T:0.40
Consensus pattern (14 bp):
ATTTTTCCCCTCAA
Found at i:20780575 original size:24 final size:24
Alignment explanation
Indices: 20780548--20780606 Score: 102
Period size: 24 Copynumber: 2.5 Consensus size: 24
20780538 AAGCTCATTT
20780548 TTCCCCTCAAATTTTTCCCCAAAA
1 TTCCCCTCAAATTTTTCCCCAAAA
*
20780572 TTCCCCTCCAATTTTTCCCCAAAA
1 TTCCCCTCAAATTTTTCCCCAAAA
20780596 TTCCCC-CAAAT
1 TTCCCCTCAAAT
20780607 CTAGAACCCT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
23 4 0.12
24 29 0.88
ACGTcount: A:0.27, C:0.41, G:0.00, T:0.32
Consensus pattern (24 bp):
TTCCCCTCAAATTTTTCCCCAAAA
Found at i:20781000 original size:12 final size:12
Alignment explanation
Indices: 20780983--20781007 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
20780973 AGTTTGAAAC
20780983 TGTTCATAATTT
1 TGTTCATAATTT
20780995 TGTTCATAATTT
1 TGTTCATAATTT
20781007 T
1 T
20781008 CACTATCCTG
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:0.24, C:0.08, G:0.08, T:0.60
Consensus pattern (12 bp):
TGTTCATAATTT
Found at i:20781613 original size:25 final size:26
Alignment explanation
Indices: 20781579--20781636 Score: 91
Period size: 25 Copynumber: 2.3 Consensus size: 26
20781569 CTCGTTGCAT
* *
20781579 AATAATTCTTACTCTAT-GCTTATCA
1 AATAATTCTTACTCTATAACTTATAA
20781604 AATAATTCTTACTCTATAACTTATAA
1 AATAATTCTTACTCTATAACTTATAA
20781630 AATAATT
1 AATAATT
20781637 AAATTCTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 17 0.57
26 13 0.43
ACGTcount: A:0.40, C:0.16, G:0.02, T:0.43
Consensus pattern (26 bp):
AATAATTCTTACTCTATAACTTATAA
Found at i:20782425 original size:21 final size:21
Alignment explanation
Indices: 20782401--20782440 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
20782391 ATTGTAAATG
* *
20782401 CTATTTTTTAAATATTAAAAC
1 CTATATTTTAAATAATAAAAC
*
20782422 CTATATTTTCAATAATAAA
1 CTATATTTTAAATAATAAA
20782441 TTTTATAATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (21 bp):
CTATATTTTAAATAATAAAAC
Found at i:20782524 original size:68 final size:69
Alignment explanation
Indices: 20782363--20782572 Score: 359
Period size: 69 Copynumber: 3.1 Consensus size: 69
20782353 AAATTTTATT
* * *
20782363 AATAATAAATTTTATAATTTTAAAAATAATTGTAAATGCTATTTTTTAAATATTAAAACCTATAT
1 AATAATAAATTTTATAATTTTAAAAATAATTGTAAATGTTATTTTCTAAATATTAACACCTATAT
20782428 TTTC
66 TTTC
*
20782432 AATAATAAATTTTATAATTTTAAAATTAATTGTAAATGTTATTTTCTAAATATTAACACCTATAT
1 AATAATAAATTTTATAATTTTAAAAATAATTGTAAATGTTATTTTCTAAATATTAACACCTATAT
20782497 TTTC
66 TTTC
*
20782501 AATAA-AAATTTTACAATTTTAAAAATAATTGTAAATGTTATTTTCTAAATATTAACACCTATAT
1 AATAATAAATTTTATAATTTTAAAAATAATTGTAAATGTTATTTTCTAAATATTAACACCTATAT
*
20782565 TTTT
66 TTTC
20782569 AATA
1 AATA
20782573 TATCACCCCA
Statistics
Matches: 134, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
68 64 0.48
69 70 0.52
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.46
Consensus pattern (69 bp):
AATAATAAATTTTATAATTTTAAAAATAATTGTAAATGTTATTTTCTAAATATTAACACCTATAT
TTTC
Found at i:20782878 original size:28 final size:28
Alignment explanation
Indices: 20782845--20783226 Score: 106
Period size: 25 Copynumber: 13.2 Consensus size: 28
20782835 TCAATCATAT
*
20782845 CATAACTTATAT-ATAAACTTACATAATA
1 CATAACTTACATAAT-AACTTACATAATA
20782873 CATAACTTACATAATAACTTACATAACTTA
1 CATAACTTACATAATAACTTACATAA--TA
* * * *
20782903 TATAGAAACTTATAT-GTAAACTTGCATAACTTA
1 CAT---AACTTACATAAT-AACTTACATAA--TA
* *
20782936 TATAA-TAACATAATAACTTACATAATA
1 CATAACTTACATAATAACTTACATAATA
* * * * *
20782963 TATAGCCTACATAAATTGCATAACTCACAAAATA
1 CATAACTTACAT--A----ATAACTTACATAATA
*
20782997 CACAACTTACATAACTTAAATAACTTACATAATA
1 CATAACTTAC---A--T-AATAACTTACATAATA
20783031 CATAACTTA-AT--TAA-TTA-ATATTATA
1 CATAACTTACATAATAACTTACATA--ATA
*
20783056 CATAACTTAC---ATAACTTACA-ACTTA
1 CATAACTTACATAATAACTTACATA-ATA
* *
20783081 CATAACTTA-ATTAATTAATATTATACACAACTTA
1 CATAACTTACA-TAA-T-A-ACT-TACATAA--TA
*
20783115 CATAACATACATAATACATAACTTACATAATA
1 CATAACTTACATAA----TAACTTACATAATA
* *
20783147 CACAACTTAC---ATAGCTTACATAATA
1 CATAACTTACATAATAACTTACATAATA
*
20783172 CATAACTTAC---ATAACTTATATAATA
1 CATAACTTACATAATAACTTACATAATA
*
20783197 CATAACTTACATAAT---TTACGTAATA
1 CATAACTTACATAATAACTTACATAATA
20783222 CATAA
1 CATAA
20783227 TATATATCAT
Statistics
Matches: 273, Mismatches: 37, Indels: 91
0.68 0.09 0.23
Matches are distributed among these distances:
23 3 0.01
24 3 0.01
25 87 0.32
26 4 0.01
27 7 0.03
28 30 0.11
29 18 0.07
30 10 0.04
31 2 0.01
32 15 0.05
33 26 0.10
34 59 0.22
35 3 0.01
36 1 0.00
37 2 0.01
38 2 0.01
39 1 0.00
ACGTcount: A:0.48, C:0.17, G:0.02, T:0.33
Consensus pattern (28 bp):
CATAACTTACATAATAACTTACATAATA
Found at i:20782885 original size:9 final size:9
Alignment explanation
Indices: 20782860--20783254 Score: 186
Period size: 9 Copynumber: 45.4 Consensus size: 9
20782850 CTTATATATA
20782860 AACTTACAT
1 AACTTACAT
20782869 AA--TACAT
1 AACTTACAT
20782876 AACTTACATAAT
1 AACTTAC---AT
20782888 AACTTACAT
1 AACTTACAT
*
20782897 AACTTATAT
1 AACTTACAT
*
20782906 AGAAACTTATATGT
1 ---AACTTACA--T
*
20782920 AAACTTGCAT
1 -AACTTACAT
*
20782930 AACTTATAT
1 AACTTACAT
*
20782939 AA-TAACATAAT
1 AACTTAC---AT
20782950 AACTTACAT
1 AACTTACAT
*
20782959 AA--TATAT
1 AACTTACAT
* *
20782966 AGCCTACAT
1 AACTTACAT
* *
20782975 AAATTGCAT
1 AACTTACAT
*
20782984 AACTCACA-
1 AACTTACAT
* *
20782992 AA-ATACAC
1 AACTTACAT
20783000 AACTTACAT
1 AACTTACAT
*
20783009 AACTTAAAT
1 AACTTACAT
20783018 AACTTACAT
1 AACTTACAT
20783027 AA--TACAT
1 AACTTACAT
20783034 AACTTA-ATT
1 AACTTACA-T
20783043 AA-TTA-AT
1 AACTTACAT
*
20783050 -ATTATACAT
1 AACT-TACAT
20783059 AACTTACAT
1 AACTTACAT
20783068 AACTTAC--
1 AACTTACAT
20783075 AACTTACAT
1 AACTTACAT
20783084 AACTTA-ATT
1 AACTTACA-T
20783093 AA-TTA-AT
1 AACTTACAT
* *
20783100 -ATTATACAC
1 AACT-TACAT
20783109 AACTTACAT
1 AACTTACAT
*
20783118 AACATACAT
1 AACTTACAT
20783127 AA--TACAT
1 AACTTACAT
20783134 AACTTACAT
1 AACTTACAT
*
20783143 AA--TACAC
1 AACTTACAT
20783150 AACTTACAT
1 AACTTACAT
*
20783159 AGCTTACAT
1 AACTTACAT
20783168 AA--TACAT
1 AACTTACAT
20783175 AACTTACAT
1 AACTTACAT
*
20783184 AACTTATAT
1 AACTTACAT
20783193 AA--TACAT
1 AACTTACAT
20783200 AACTTACAT
1 AACTTACAT
* *
20783209 AATTTACGT
1 AACTTACAT
20783218 AA--TACAT
1 AACTTACAT
*
20783225 AA--TATAT
1 AACTTACAT
* *
20783232 ATCATATCAT
1 AACTTA-CAT
20783242 AACTTACAT
1 AACTTACAT
20783251 AACT
1 AACT
20783255 CATATATACT
Statistics
Matches: 300, Mismatches: 43, Indels: 86
0.70 0.10 0.20
Matches are distributed among these distances:
6 2 0.01
7 70 0.23
8 20 0.07
9 165 0.55
10 11 0.04
11 4 0.01
12 27 0.09
14 1 0.00
ACGTcount: A:0.48, C:0.17, G:0.02, T:0.33
Consensus pattern (9 bp):
AACTTACAT
Found at i:20782895 original size:21 final size:21
Alignment explanation
Indices: 20782871--20782960 Score: 64
Period size: 21 Copynumber: 4.3 Consensus size: 21
20782861 ACTTACATAA
20782871 TACATAACTTACATAATAACT
1 TACATAACTTACATAATAACT
*
20782892 TACATAACTTATATAGA-AACT
1 TACATAACTTACATA-ATAACT
* *
20782913 TATATGTAAACTTGC---ATAACT
1 TACA--T-AACTTACATAATAACT
* *
20782934 TATATAA-TAACATAATAACT
1 TACATAACTTACATAATAACT
20782954 TACATAA
1 TACATAA
20782961 TATATAGCCT
Statistics
Matches: 54, Mismatches: 7, Indels: 17
0.69 0.09 0.22
Matches are distributed among these distances:
17 2 0.04
18 2 0.04
19 1 0.02
20 13 0.24
21 29 0.54
22 1 0.02
23 1 0.02
24 5 0.09
ACGTcount: A:0.48, C:0.14, G:0.03, T:0.34
Consensus pattern (21 bp):
TACATAACTTACATAATAACT
Found at i:20783008 original size:34 final size:34
Alignment explanation
Indices: 20782970--20783048 Score: 88
Period size: 34 Copynumber: 2.4 Consensus size: 34
20782960 ATATATAGCC
**
20782970 TACATAAATTGCATAACTCACAAAATACACAACT
1 TACATAAATTAAATAACTCACAAAATACACAACT
* * * *
20783004 TACATAACTTAAATAACTTACATAATACATAACT
1 TACATAAATTAAATAACTCACAAAATACACAACT
*
20783038 TA-ATTAATTAA
1 TACATAAATTAA
20783049 TATTATACAT
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
33 7 0.19
34 30 0.81
ACGTcount: A:0.51, C:0.18, G:0.01, T:0.30
Consensus pattern (34 bp):
TACATAAATTAAATAACTCACAAAATACACAACT
Found at i:20783032 original size:25 final size:24
Alignment explanation
Indices: 20783004--20783252 Score: 165
Period size: 25 Copynumber: 10.0 Consensus size: 24
20782994 ATACACAACT
*
20783004 TACATAACTTAAATAACTTACATAA
1 TACATAACTTACATAA-TTACATAA
20783029 TACATAACTTA-ATTAATTA-ATATTA
1 TACATAACTTACA-TAATTACATA--A
*
20783054 TACATAACTTACATAACTTACA-ACT
1 TACATAACTTACATAA-TTACATA-A
20783079 TACATAACTTA-ATTAATTA-ATATTA
1 TACATAACTTACA-TAATTACATA--A
* *
20783104 TACACAACTTACATAACATACATAA
1 TACATAACTTACATAA-TTACATAA
*
20783129 TACATAACTTACATAA-TACACAA
1 TACATAACTTACATAATTACATAA
*
20783152 CTTACATAGCTTACATAA-TACATAA
1 --TACATAACTTACATAATTACATAA
*
20783177 CTTACATAACTTATATAA-TACATAA
1 --TACATAACTTACATAATTACATAA
* *
20783202 CTTACATAATTTACGTAA-TACATAA
1 --TACATAACTTACATAATTACATAA
* * *
20783227 TATATATCATATCATAACTTACATAA
1 TACATAACTTA-CATAA-TTACATAA
20783253 CTCATATATA
Statistics
Matches: 187, Mismatches: 20, Indels: 33
0.78 0.08 0.14
Matches are distributed among these distances:
23 17 0.09
24 13 0.07
25 138 0.74
26 15 0.08
27 4 0.02
ACGTcount: A:0.48, C:0.17, G:0.01, T:0.35
Consensus pattern (24 bp):
TACATAACTTACATAATTACATAA
Found at i:20783037 original size:16 final size:16
Alignment explanation
Indices: 20782948--20783211 Score: 150
Period size: 16 Copynumber: 15.9 Consensus size: 16
20782938 TAATAACATA
*
20782948 ATAACTTACATAATAT
1 ATAACTTACATAATAC
* * *
20782964 ATAGCCTACATAAATTGC
1 ATAACTTACAT-AA-TAC
* *
20782982 ATAACTCACAAAATAC
1 ATAACTTACATAATAC
* *
20782998 ACAACTTACATAACTTAA
1 ATAACTTACATAA--TAC
20783016 ATAACTTACATAATAC
1 ATAACTTACATAATAC
20783032 ATAACTTA-ATTAATTA-
1 ATAACTTACA-TAA-TAC
*
20783048 AT-ATTATACATAACTTAC
1 ATAACT-TACATAA--TAC
*
20783066 ATAACTTACA-ACTTAC
1 ATAACTTACATA-ATAC
20783082 ATAACTTA-ATTAATTA-
1 ATAACTTACA-TAA-TAC
* *
20783098 AT-ATTATACACAACTTAC
1 ATAACT-TACATAA--TAC
*
20783116 ATAACATACATAATAC
1 ATAACTTACATAATAC
20783132 ATAACTTACATAATAC
1 ATAACTTACATAATAC
* *
20783148 ACAACTTACATAGCTTAC
1 ATAACTTACATA--ATAC
20783166 ATAA--TACATAACTTAC
1 ATAACTTACATAA--TAC
*
20783182 ATAACTTATATAATAC
1 ATAACTTACATAATAC
20783198 ATAACTTACATAAT
1 ATAACTTACATAAT
20783212 TTACGTAATA
Statistics
Matches: 191, Mismatches: 31, Indels: 52
0.70 0.11 0.19
Matches are distributed among these distances:
15 6 0.03
16 116 0.61
17 18 0.09
18 48 0.25
19 3 0.02
ACGTcount: A:0.48, C:0.18, G:0.01, T:0.33
Consensus pattern (16 bp):
ATAACTTACATAATAC
Found at i:20783221 original size:75 final size:72
Alignment explanation
Indices: 20782970--20783223 Score: 232
Period size: 75 Copynumber: 3.4 Consensus size: 72
20782960 ATATATAGCC
* * *
20782970 TACATAAATTGCATAACTCACAAAATACACAACTTACATAACTTAAATAACTTACATAA-TACAT
1 TACAT-AATTACATAACTTACATAATACACAACTTACATAACTT-AATAA-TTACATAATTACAT
20783034 AACTTAATTAA
63 AACTTAA-TAA
* * *
20783045 TTA-ATATTATACATAACTTACATAACT-TACAACTTACATAACTTAATTAATTA-ATATTATAC
1 -TACATAAT-TACATAACTTACATAA-TACACAACTTACATAACTTAA-TAATTACATAAT-TAC
*
20783107 ACAACTTACATAACA
61 ATAACTTA-AT-A-A
*
20783122 TACATAA-TACATAACTTACATAATACACAACTTACATAGCTTACATAA-TACATAACTTACATA
1 TACATAATTACATAACTTACATAATACACAACTTACATAACTTA-ATAATTACATAA-TTACATA
20783185 ACTTATATAA
64 ACTTA-ATAA
* *
20783195 TACATAACTTACATAATTTACGTAATACA
1 TACATAA-TTACATAACTTACATAATACA
20783224 TAATATATAT
Statistics
Matches: 148, Mismatches: 15, Indels: 31
0.76 0.08 0.16
Matches are distributed among these distances:
73 11 0.07
74 11 0.07
75 113 0.76
76 9 0.06
77 4 0.03
ACGTcount: A:0.48, C:0.18, G:0.01, T:0.33
Consensus pattern (72 bp):
TACATAATTACATAACTTACATAATACACAACTTACATAACTTAATAATTACATAATTACATAAC
TTAATAA
Found at i:20783440 original size:66 final size:66
Alignment explanation
Indices: 20783370--20783498 Score: 188
Period size: 66 Copynumber: 2.0 Consensus size: 66
20783360 CATCGAGAGA
*
20783370 AGCTGAGGTTCAAAA-AAGATATGAAGAACTTCAGCTACAACTTAAAGCAAAAGCAGCAGCGAGA
1 AGCTGAGGTTCAAAAGAAG-TATGAAGAACTCCAGCTACAACTTAAAGCAAAAGCAGCAGCGAGA
20783434 AG
65 AG
* * * * *
20783436 AGCTGAGGTTCAAAAGAAGTATGAAGAACTCCAGCTGCAGCTTAAAGCAGAGGCGGCAGCGAG
1 AGCTGAGGTTCAAAAGAAGTATGAAGAACTCCAGCTACAACTTAAAGCAAAAGCAGCAGCGAG
20783499 GGAAGCAGAG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
66 53 0.95
67 3 0.05
ACGTcount: A:0.40, C:0.18, G:0.27, T:0.15
Consensus pattern (66 bp):
AGCTGAGGTTCAAAAGAAGTATGAAGAACTCCAGCTACAACTTAAAGCAAAAGCAGCAGCGAGAA
G
Found at i:20783505 original size:21 final size:21
Alignment explanation
Indices: 20783480--20783529 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
20783470 CTGCAGCTTA
* *
20783480 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCAGCAGCGAGAG
20783501 AAGCAGAGGCAGCAGCGAGAG
1 AAGCAGAGGCAGCAGCGAGAG
20783522 AAGCAGAG
1 AAGCAGAG
20783530 CAAAGTAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.36, C:0.18, G:0.46, T:0.00
Consensus pattern (21 bp):
AAGCAGAGGCAGCAGCGAGAG
Found at i:20783912 original size:43 final size:43
Alignment explanation
Indices: 20783851--20784103 Score: 362
Period size: 43 Copynumber: 5.9 Consensus size: 43
20783841 CGTTTTTAAA
* * *
20783851 AAAAGCGCCACTAAAGGTCATGGCCTATAGCGGCTTTTGTGTG
1 AAAAGCGCCGCTAAAGGTCATGGCCTATAGCGGCGTTTGTGGG
*
20783894 AAAAGCGCCGCTAAAGGTCATGGCCTATAGCAGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCATGGCCTATAGCGGCGTTTGTGGG
* * * *
20783937 AAAAGTGTCGCTAAAGGTCATGGCCTATAGTGGCGTTTTTGGG
1 AAAAGCGCCGCTAAAGGTCATGGCCTATAGCGGCGTTTGTGGG
* *
20783980 AAAAGTGCCGCTAAAGGTCATGACCTATAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCATGGCCTATAGCGGCGTTTGTGGG
* * *
20784023 AAAAGCGCCTCTAAAGGTCGTGGCCTATAGCAGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCATGGCCTATAGCGGCGTTTGTGGG
** *
20784066 AAAAGCGCCGCTAAAGGTTGTGGCCTATAGCGGTGTTT
1 AAAAGCGCCGCTAAAGGTCATGGCCTATAGCGGCGTTT
20784104 ATTTCTAAAA
Statistics
Matches: 188, Mismatches: 22, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 188 1.00
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.25
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGGTCATGGCCTATAGCGGCGTTTGTGGG
Found at i:20786588 original size:65 final size:67
Alignment explanation
Indices: 20786398--20786590 Score: 234
Period size: 65 Copynumber: 2.9 Consensus size: 67
20786388 AAAAGTATTT
* *
20786398 TTAT-TTTTTACATCAATAATATACTTATTTACAATTTACGAAAAAATGAAAAAATTGTTGGTAT
1 TTATATTTTTACATCAATAATATACTTATTTACAATTTACGAAAAAATGAAAAAA---AT-GCAT
20786462 ATTGTA
62 ATTGTA
** * *
20786468 TTGGATTTTTACATCAACAATATACTTATTTATAATTTACGAAAAAAATG-AAAAAAT-CAT-TT
1 TTATATTTTTACATCAATAATATACTTATTTACAATTTACG-AAAAAATGAAAAAAATGCATATT
20786530 GTA
65 GTA
*
20786533 TTATATTTTTACATCAATAATATACTTATTTACAATTTAAC-CAAAAATGAAAAAAATG
1 TTATATTTTTACATCAATAATATACTTATTTACAATTT-ACGAAAAAATGAAAAAAATG
20786591 AATTATTATT
Statistics
Matches: 107, Mismatches: 11, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
64 7 0.07
65 46 0.43
66 4 0.04
68 1 0.01
70 2 0.02
71 39 0.36
72 8 0.07
ACGTcount: A:0.45, C:0.09, G:0.07, T:0.40
Consensus pattern (67 bp):
TTATATTTTTACATCAATAATATACTTATTTACAATTTACGAAAAAATGAAAAAAATGCATATTG
TA
Found at i:20792020 original size:26 final size:27
Alignment explanation
Indices: 20791978--20792049 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 27
20791968 TCTTATCCCT
* * *
20791978 ATTTTACCCCCAATAAAA-AATTAACG
1 ATTTTACCCCTAGTAAAATAATTAACA
**
20792004 ATTTTACCCCTAGTAAAATTTTTAACA
1 ATTTTACCCCTAGTAAAATAATTAACA
* *
20792031 ATTTTACCCTTGGTAAAAT
1 ATTTTACCCCTAGTAAAAT
20792050 TTCAAGAAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
26 16 0.42
27 22 0.58
ACGTcount: A:0.39, C:0.19, G:0.06, T:0.36
Consensus pattern (27 bp):
ATTTTACCCCTAGTAAAATAATTAACA
Found at i:20792036 original size:27 final size:27
Alignment explanation
Indices: 20791998--20792051 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
20791988 CAATAAAAAA
*
20791998 TTAACGATTTTACCCCTAGTAAAATTT
1 TTAACAATTTTACCCCTAGTAAAATTT
* *
20792025 TTAACAATTTTACCCTTGGTAAAATTT
1 TTAACAATTTTACCCCTAGTAAAATTT
20792052 CAAGAAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.33, C:0.17, G:0.07, T:0.43
Consensus pattern (27 bp):
TTAACAATTTTACCCCTAGTAAAATTT
Found at i:20798011 original size:18 final size:18
Alignment explanation
Indices: 20797988--20798023 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
20797978 AAACCCTAGA
20797988 ATTCTTT-TGAATCTGATT
1 ATTCTTTGTG-ATCTGATT
20798006 ATTCTTTGTGATCTGATT
1 ATTCTTTGTGATCTGATT
20798024 TTTTTTCTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.88
19 2 0.12
ACGTcount: A:0.19, C:0.11, G:0.14, T:0.56
Consensus pattern (18 bp):
ATTCTTTGTGATCTGATT
Found at i:20804876 original size:18 final size:18
Alignment explanation
Indices: 20804853--20804888 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
20804843 AAACCCTAGA
20804853 ATTCTTT-TGAATCTGATT
1 ATTCTTTGTG-ATCTGATT
20804871 ATTCTTTGTGATCTGATT
1 ATTCTTTGTGATCTGATT
20804889 TTTTTTCTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.88
19 2 0.12
ACGTcount: A:0.19, C:0.11, G:0.14, T:0.56
Consensus pattern (18 bp):
ATTCTTTGTGATCTGATT
Found at i:20813008 original size:18 final size:20
Alignment explanation
Indices: 20812987--20813048 Score: 65
Period size: 21 Copynumber: 3.1 Consensus size: 20
20812977 AGGACATTGT
20812987 TGTTG-AGAAG-GAAGTTGC
1 TGTTGAAGAAGAGAAGTTGC
* *
20813005 TGTTGCAGAAGAGAAAGTTGT
1 TGTTGAAGAAGAG-AAGTTGC
*
20813026 TGCTGAAGAAGAAGAAGTTGC
1 TGTTGAAGAAG-AGAAGTTGC
20813047 TG
1 TG
20813049 AAAATGAGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
18 5 0.14
19 5 0.14
20 1 0.03
21 23 0.64
22 2 0.06
ACGTcount: A:0.32, C:0.06, G:0.35, T:0.26
Consensus pattern (20 bp):
TGTTGAAGAAGAGAAGTTGC
Found at i:20813524 original size:17 final size:17
Alignment explanation
Indices: 20813502--20813535 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
20813492 GATAAATATA
* *
20813502 TATTGTGATTGCATTTT
1 TATTGTCATTACATTTT
20813519 TATTGTCATTACATTTT
1 TATTGTCATTACATTTT
20813536 CATGTTAGTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.09, G:0.12, T:0.59
Consensus pattern (17 bp):
TATTGTCATTACATTTT
Found at i:20818379 original size:30 final size:30
Alignment explanation
Indices: 20818335--20818394 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
20818325 ACTTAACAAG
20818335 CAAATGTCTCTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
* *
20818365 CAAATTTCTTTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
20818395 TAATAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.57, C:0.12, G:0.02, T:0.30
Consensus pattern (30 bp):
CAAATGTCTCTAAAATAATAACAAAATTAA
Found at i:20829370 original size:33 final size:34
Alignment explanation
Indices: 20829294--20829370 Score: 102
Period size: 34 Copynumber: 2.3 Consensus size: 34
20829284 TTTTAATTTC
*
20829294 TTTGGGTTTTTTATTTGATTTAAATGTTTTCAAG
1 TTTGGATTTTTTATTTGATTTAAATGTTTTCAAG
* ** *
20829328 TCTATATTTTTTATTTGATTTAAATGTTTT-GAG
1 TTTGGATTTTTTATTTGATTTAAATGTTTTCAAG
20829361 TTTGGATTTT
1 TTTGGATTTT
20829371 GAATTTAGTA
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
33 9 0.26
34 26 0.74
ACGTcount: A:0.21, C:0.03, G:0.16, T:0.61
Consensus pattern (34 bp):
TTTGGATTTTTTATTTGATTTAAATGTTTTCAAG
Found at i:20831465 original size:43 final size:42
Alignment explanation
Indices: 20831403--20831527 Score: 130
Period size: 43 Copynumber: 2.9 Consensus size: 42
20831393 GATTTCCGAG
20831403 ATGTGTTATCGTGTAAGACCACGTCTGGGACGTTGGCATCGACT
1 ATGTGTTAT-GTGTAAGACCACGTCTGGGACGTTGGCATCGA-T
20831447 -TGTGTTTATGTGTAAGACC-CTGTCTGGGACAG-TGGCATCGAT
1 ATGTG-TTATGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGAT
* ** * *
20831489 ACGTGATTACATGTAAGACCATGTCTGGGATGTTGGCAT
1 ATGTG-TTATGTGTAAGACCACGTCTGGGACGTTGGCAT
20831528 TGTAAGAATT
Statistics
Matches: 69, Mismatches: 6, Indels: 13
0.78 0.07 0.15
Matches are distributed among these distances:
42 3 0.04
43 61 0.88
44 5 0.07
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.31
Consensus pattern (42 bp):
ATGTGTTATGTGTAAGACCACGTCTGGGACGTTGGCATCGAT
Found at i:20832375 original size:23 final size:23
Alignment explanation
Indices: 20832348--20832494 Score: 152
Period size: 23 Copynumber: 6.3 Consensus size: 23
20832338 ATGAGTTGAA
20832348 CCAATTTGTTACATATATGCTGT
1 CCAATTTGTTACATATATGCTGT
* * * *
20832371 CCAATTTTGATGA-TTAAATGCTGC
1 CCAA-TTTG-TTACATATATGCTGT
20832395 CCAATTTGTTACATATATGCTGT
1 CCAATTTGTTACATATATGCTGT
*
20832418 CCAATTTGTTACATATATGCTAT
1 CCAATTTGTTACATATATGCTGT
* * * * *
20832441 CCAATTTTGATGCTTAAATGCTGC
1 CCAA-TTTGTTACATATATGCTGT
* *
20832465 CCAGTTTGTTGCATATATGCTGT
1 CCAATTTGTTACATATATGCTGT
20832488 CCAATTT
1 CCAATTT
20832495 TGGTGTAAAA
Statistics
Matches: 99, Mismatches: 21, Indels: 8
0.77 0.16 0.06
Matches are distributed among these distances:
22 2 0.02
23 63 0.64
24 32 0.32
25 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.14, T:0.41
Consensus pattern (23 bp):
CCAATTTGTTACATATATGCTGT
Found at i:20832430 original size:70 final size:70
Alignment explanation
Indices: 20832348--20832494 Score: 258
Period size: 70 Copynumber: 2.1 Consensus size: 70
20832338 ATGAGTTGAA
*
20832348 CCAATTTGTTACATATATGCTGTCCAATTTTGATGATTAAATGCTGCCCAATTTGTTACATATAT
1 CCAATTTGTTACATATATGCTATCCAATTTTGATGATTAAATGCTGCCCAATTTGTTACATATAT
20832413 GCTGT
66 GCTGT
* * *
20832418 CCAATTTGTTACATATATGCTATCCAATTTTGATGCTTAAATGCTGCCCAGTTTGTTGCATATAT
1 CCAATTTGTTACATATATGCTATCCAATTTTGATGATTAAATGCTGCCCAATTTGTTACATATAT
20832483 GCTGT
66 GCTGT
20832488 CCAATTT
1 CCAATTT
20832495 TGGTGTAAAA
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
70 73 1.00
ACGTcount: A:0.26, C:0.18, G:0.14, T:0.41
Consensus pattern (70 bp):
CCAATTTGTTACATATATGCTATCCAATTTTGATGATTAAATGCTGCCCAATTTGTTACATATAT
GCTGT
Found at i:20832507 original size:47 final size:47
Alignment explanation
Indices: 20832411--20832504 Score: 127
Period size: 47 Copynumber: 2.0 Consensus size: 47
20832401 TGTTACATAT
* *
20832411 ATGCTGTCCAATTTGTTACATATATGCTATCCAATTTTGATGCTTAA
1 ATGCTGCCCAATTTGTTACATATATGCTATCCAATTTTGATGCTAAA
* * * *
20832458 ATGCTGCCCAGTTTGTTGCATATATGCTGTCCAATTTTGGTG-TAAA
1 ATGCTGCCCAATTTGTTACATATATGCTATCCAATTTTGATGCTAAA
20832504 A
1 A
20832505 ATGTTGCTCA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
46 4 0.10
47 37 0.90
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (47 bp):
ATGCTGCCCAATTTGTTACATATATGCTATCCAATTTTGATGCTAAA
Found at i:20832563 original size:23 final size:23
Alignment explanation
Indices: 20832360--20832564 Score: 72
Period size: 23 Copynumber: 8.8 Consensus size: 23
20832350 AATTTGTTAC
* *
20832360 ATATATGCTGTCCAATTTTGATG-
1 ATATATGCTGCCCAA-ATTGATGT
* * * **
20832383 ATTAAATGCTGCCCAATTTGTTAC
1 A-TATATGCTGCCCAAATTGATGT
* * * **
20832407 ATATATGCTGTCCAATTTGTTAC
1 ATATATGCTGCCCAAATTGATGT
** *
20832430 ATATATGCTATCCAATTTTGATGCT
1 ATATATGCTGCCCAA-ATTGATG-T
* ** * *
20832455 -TAAATGCTGCCCAGTTTGTTGC
1 ATATATGCTGCCCAAATTGATGT
* * *
20832477 ATATATGCTGTCCAATTTTGGTGT
1 ATATATGCTGCCCAA-ATTGATGT
* * * * * *
20832501 AAAAATGTTGCTCAAACTGTTGT
1 ATATATGCTGCCCAAATTGATGT
20832524 ATATATGCTGCCCAAATTGATGT
1 ATATATGCTGCCCAAATTGATGT
* *
20832547 ATTTATGCTGTCCAAATT
1 ATATATGCTGCCCAAATT
20832565 TTAGCGTGAA
Statistics
Matches: 139, Mismatches: 37, Indels: 12
0.74 0.20 0.06
Matches are distributed among these distances:
23 95 0.68
24 44 0.32
ACGTcount: A:0.27, C:0.17, G:0.16, T:0.40
Consensus pattern (23 bp):
ATATATGCTGCCCAAATTGATGT
Found at i:20834791 original size:4 final size:4
Alignment explanation
Indices: 20834775--20834810 Score: 54
Period size: 4 Copynumber: 8.8 Consensus size: 4
20834765 TTTTCAAAAT
*
20834775 ATTA ATAA ATTA ATTA ATTA ATTA ATTA AGTTA ATT
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA A-TTA ATT
20834811 TCCCCAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 25 0.86
5 4 0.14
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (4 bp):
ATTA
Found at i:20837540 original size:45 final size:45
Alignment explanation
Indices: 20837476--20837569 Score: 161
Period size: 45 Copynumber: 2.1 Consensus size: 45
20837466 AACAGATACT
* *
20837476 CGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
*
20837521 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTT
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
20837566 CGGT
1 CGGT
20837570 TCACATAGTA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
Found at i:20837640 original size:51 final size:51
Alignment explanation
Indices: 20837571--20837711 Score: 185
Period size: 51 Copynumber: 2.8 Consensus size: 51
20837561 ATGTTCGGTT
* * *
20837571 CACATAGTAGCATTCACATAGTACTACACATGTGACCATTACCATCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATAACCATCCGATA
* * * * *
20837622 CACGTAGTAGCCTGCACATAGTACTACACACGTGATCGA-AACTATCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGA-CCATAACCATCCGATA
*
20837673 CGCATAGTAGCCTGCACATAGTACTACACATGTGACCAT
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACCAT
20837712 CACTTTCACT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
50 2 0.03
51 72 0.95
52 2 0.03
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (51 bp):
CACATAGTAGCCTGCACATAGTACTACACATGTGACCATAACCATCCGATA
Found at i:20840344 original size:24 final size:24
Alignment explanation
Indices: 20840317--20840375 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 24
20840307 ATTGCCTTTG
20840317 TGGCATATTCTGTAAATGCCTCTA
1 TGGCATATTCTGTAAATGCCTCTA
* * * * *
20840341 TGGCGTATTTTGTAATTGCCTTTG
1 TGGCATATTCTGTAAATGCCTCTA
*
20840365 TGGAATATTCT
1 TGGCATATTCT
20840376 ATGATGTCTT
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.20, C:0.15, G:0.20, T:0.44
Consensus pattern (24 bp):
TGGCATATTCTGTAAATGCCTCTA
Found at i:20842080 original size:25 final size:25
Alignment explanation
Indices: 20842051--20842103 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
20842041 GATTTGGAAG
20842051 TTAGTAAGTGTAACAATGCGATGCC
1 TTAGTAAGTGTAACAATGCGATGCC
*
20842076 TTAGTAAGTGTAATAATGCGATGCC
1 TTAGTAAGTGTAACAATGCGATGCC
20842101 TTA
1 TTA
20842104 AATATGCTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.32
Consensus pattern (25 bp):
TTAGTAAGTGTAACAATGCGATGCC
Found at i:20845554 original size:143 final size:132
Alignment explanation
Indices: 20845389--20845664 Score: 329
Period size: 143 Copynumber: 2.0 Consensus size: 132
20845379 CATCATGTGC
** * ***
20845389 AAGATCATGTGAAACAATTTACACGAGCCTTGAGGGGTGATATGGATATGAAACAAATCGAATCG
1 AAGATCATGCAAAACAATTTACACGAGCCTCGAGGGCCAATATGGATATG----AAA-CGAATCG
* *
20845454 ACTAATTC-GAAAATGAAATGAGATAATGGAATGAATATATATATACACACATATATGATTGTTG
61 ACCAATTCAG-AAATGAAATGAGATAATGAAATG-A-ATATATAT----ACATATATGATTGTTG
*
20845518 CAAACTAACTATCG
119 CAAACTAACAATCG
* * *
20845532 AAGATCATGCAAAACGATTTACAGGAGCCTCGAGGGCCAATATGGATATGAAACGAATCGACCGA
1 AAGATCATGCAAAACAATTTACACGAGCCTCGAGGGCCAATATGGATATGAAACGAATCGACCAA
20845597 TTCAGAAATGAAATGAGATAATGAAATGAATATATATACATATATGATTGTTGCAAACTAACAAT
66 TTCAGAAATGAAATGAGATAATGAAATGAATATATATACATATATGATTGTTGCAAACTAACAAT
20845662 CG
131 CG
20845664 A
1 A
20845665 GGTAAGCATA
Statistics
Matches: 120, Mismatches: 12, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
132 30 0.25
136 8 0.07
137 1 0.01
138 35 0.29
139 4 0.03
143 42 0.35
ACGTcount: A:0.42, C:0.13, G:0.19, T:0.25
Consensus pattern (132 bp):
AAGATCATGCAAAACAATTTACACGAGCCTCGAGGGCCAATATGGATATGAAACGAATCGACCAA
TTCAGAAATGAAATGAGATAATGAAATGAATATATATACATATATGATTGTTGCAAACTAACAAT
CG
Found at i:20849899 original size:18 final size:18
Alignment explanation
Indices: 20849869--20849903 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
20849859 ATGTTGTACA
20849869 TGTTATGACATTGTGATT
1 TGTTATGACATTGTGATT
20849887 TGTTGATGA-ATTGTGAT
1 TGTT-ATGACATTGTGAT
20849904 GATCAAAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.23, C:0.03, G:0.26, T:0.49
Consensus pattern (18 bp):
TGTTATGACATTGTGATT
Found at i:20856110 original size:69 final size:68
Alignment explanation
Indices: 20855998--20856126 Score: 186
Period size: 69 Copynumber: 1.9 Consensus size: 68
20855988 ACCATGGTTG
* * *
20855998 GACCATAGCAAGACTATGGCAGTTTTCAGACACAAGACTATGGTTGGACCATGGTAATGTTTACG
1 GACCATAGCAAGACTATGACAGTTTTCAGACACAAGACCATGGTTGGACCATGGCAATGTTTACG
20856063 TAA
66 TAA
* * **
20856066 GACCATAGCAAGGCTATGACATTTGTTCAGACGTAAGACCATGGTTGGACCATGGCAATGT
1 GACCATAGCAAGACTATGACAGTT-TTCAGACACAAGACCATGGTTGGACCATGGCAATGT
20856127 ATATATATAT
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
68 21 0.40
69 32 0.60
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.26
Consensus pattern (68 bp):
GACCATAGCAAGACTATGACAGTTTTCAGACACAAGACCATGGTTGGACCATGGCAATGTTTACG
TAA
Found at i:20861581 original size:24 final size:22
Alignment explanation
Indices: 20861540--20861583 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
20861530 CATTATTCCA
*
20861540 ATTTCATATACATGTATCATAT
1 ATTTCATATACATATATCATAT
20861562 ATTTCATATATCAATATATCAT
1 ATTTCATATA-C-ATATATCAT
20861584 GTAACATCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 1 0.05
24 8 0.42
ACGTcount: A:0.39, C:0.14, G:0.02, T:0.45
Consensus pattern (22 bp):
ATTTCATATACATATATCATAT
Found at i:20861827 original size:25 final size:24
Alignment explanation
Indices: 20861808--20861889 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 24
20861798 AAGCTCATAC
20861808 GAGCTGAATATTGTTAAGCTCTCTT
1 GAGCTGAATATTGTTAAGCTCTC-T
* *
20861833 GAGCTGAATATTAG-AAAGCTCATGT
1 GAGCTGAATATT-GTTAAGCTC-TCT
* * *
20861858 GAGCTAAATATCGGTAAGCTCTCT
1 GAGCTGAATATTGTTAAGCTCTCT
20861882 CGAGCTGA
1 -GAGCTGA
20861890 GAATCGGTAG
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
24 3 0.07
25 41 0.89
26 2 0.04
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.30
Consensus pattern (24 bp):
GAGCTGAATATTGTTAAGCTCTCT
Found at i:20867975 original size:47 final size:47
Alignment explanation
Indices: 20867923--20868326 Score: 621
Period size: 47 Copynumber: 8.6 Consensus size: 47
20867913 GATAATTGTG
* *
20867923 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
20867970 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
20868017 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * *
20868066 ATGTGAAAGTGTATATATGTGATGAGGCCTAATAGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
20868113 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
20868160 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
20868207 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
20868254 ATGTGAAAGTGTATATATGTGA-CAGAGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAG-GCCTAATGGCCGATGTGATGA
*
20868301 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
20868327 TCCCGAAGGG
Statistics
Matches: 330, Mismatches: 23, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
46 2 0.01
47 281 0.85
48 2 0.01
49 45 0.14
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:20870438 original size:52 final size:52
Alignment explanation
Indices: 20870376--20870480 Score: 201
Period size: 52 Copynumber: 2.0 Consensus size: 52
20870366 GCCAAAGACC
*
20870376 ATCCATGGTTAAAGCTGCCCATGAAGAAGACAAATACCAACAAAATTTGGAT
1 ATCCATGGTTAAAGCTGCCCATGAAGAAGAAAAATACCAACAAAATTTGGAT
20870428 ATCCATGGTTAAAGCTGCCCATGAAGAAGAAAAATACCAACAAAATTTGGAT
1 ATCCATGGTTAAAGCTGCCCATGAAGAAGAAAAATACCAACAAAATTTGGAT
20870480 A
1 A
20870481 GACTTAACCA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.44, C:0.18, G:0.17, T:0.21
Consensus pattern (52 bp):
ATCCATGGTTAAAGCTGCCCATGAAGAAGAAAAATACCAACAAAATTTGGAT
Found at i:20871592 original size:30 final size:31
Alignment explanation
Indices: 20871556--20871614 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
20871546 TTCGAGCTTG
*
20871556 GGGACAAAAATGTAATTATG-CAAAAGTTTA
1 GGGACAAAAATATAATTATGACAAAAGTTTA
* *
20871586 GGGACAAAATTATAATTTTGACAAAAGTT
1 GGGACAAAAATATAATTATGACAAAAGTT
20871615 GAGTCAAAGC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 17 0.68
31 8 0.32
ACGTcount: A:0.46, C:0.07, G:0.19, T:0.29
Consensus pattern (31 bp):
GGGACAAAAATATAATTATGACAAAAGTTTA
Found at i:20872145 original size:51 final size:51
Alignment explanation
Indices: 20872087--20872423 Score: 319
Period size: 51 Copynumber: 6.6 Consensus size: 51
20872077 GATGAACATG
* * *
20872087 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATATTGGTCACA
* * * * * *
20872138 TGTGTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT-TTGGTCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAA-ATATTGGTCACA
* * * * *
20872189 TGTGTAGTACTGTGTGAAGGCTACTAAGTGAAATCAATAAATGA-TGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTG-TACCGATAAAT-ATTGGTCACA
** * * *
20872241 TGTGTAGTACTAAATGAAGACTACTATGTGTACCGA-AAAGCT-TTGGTCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAA--TATTGGTCACA
* * * * *
20872292 TGTGTAGTACCATGTGAAGGCTACTATGTGAACCG-TAAA-ACTTGATCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATA-TTGGTCACA
* ** *
20872342 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAGGTTGATCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATATTGGTCACA
20872392 TGTGTAGTACTATGTGAAGGCTACTACGTGTA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTA
20872424 TCAAATGATA
Statistics
Matches: 236, Mismatches: 39, Indels: 23
0.79 0.13 0.08
Matches are distributed among these distances:
50 87 0.37
51 110 0.47
52 39 0.17
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (51 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATATTGGTCACA
Found at i:20872270 original size:103 final size:101
Alignment explanation
Indices: 20872086--20872427 Score: 402
Period size: 103 Copynumber: 3.4 Consensus size: 101
20872076 CGATGAACAT
* * * *
20872086 GTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTACTAA
1 GTGTGTAGTACTATGTGAAGGCTACTAAGTGAATCAATAAATAATGGTCACATGTGTAGTACTAA
*
20872151 GTGAAGGCTACAATGTGTACCGAGAAGCTTTGGTCAC
66 GTGAAGGCTACTATGTGTACCGA-AAGCTTTGGTCAC
* *
20872188 GTGTGTAGTACTGTGTGAAGGCTACTAAGTGAAATCAATAAATGATGGTCACATGTGTAGTACTA
1 GTGTGTAGTACTATGTGAAGGCTACTAAGTG-AATCAATAAATAATGGTCACATGTGTAGTACTA
* *
20872253 AATGAAGACTACTATGTGTACCGAAAAGCTTTGGTCAC
65 AGTGAAGGCTACTATGTGTACCG-AAAGCTTTGGTCAC
* * ** * * *
20872291 GTGTGTAGTACCATGTGAAGGCTACTATGTGAA-CCGTAAA-ACTTGATCACGTGTGTAGTACTA
1 GTGTGTAGTACTATGTGAAGGCTACTAAGTGAATCAATAAATA-ATGGTCACATGTGTAGTACTA
* * * * *
20872354 TGTGAAGGCTACTACGTGAACCGTAAAG-GTTGATCAC
65 AGTGAAGGCTACTATGTGTACCG-AAAGCTTTGGTCAC
* * *
20872391 ATGTGTAGTACTATGTGAAGGCTACTACGTGTATCAA
1 GTGTGTAGTACTATGTGAAGGCTACTAAGTGAATCAA
20872428 ATGATAAAAG
Statistics
Matches: 206, Mismatches: 30, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
100 36 0.17
101 46 0.22
102 32 0.16
103 91 0.44
104 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (101 bp):
GTGTGTAGTACTATGTGAAGGCTACTAAGTGAATCAATAAATAATGGTCACATGTGTAGTACTAA
GTGAAGGCTACTATGTGTACCGAAAGCTTTGGTCAC
Found at i:20880094 original size:23 final size:24
Alignment explanation
Indices: 20880066--20880111 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
20880056 AAAGATAAAG
* *
20880066 ATAAAATAA-AGAATAAAAGGTTA
1 ATAAAATAAGAAAACAAAAGGTTA
20880089 ATAAAATAAGAAAACAAAAGGTT
1 ATAAAATAAGAAAACAAAAGGTT
20880112 TTCTTCTTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.65, C:0.02, G:0.13, T:0.20
Consensus pattern (24 bp):
ATAAAATAAGAAAACAAAAGGTTA
Found at i:20881818 original size:20 final size:20
Alignment explanation
Indices: 20881784--20881837 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
20881774 TAAGTTTATG
* *
20881784 CTAATTAAATTGAATGGAAA
1 CTAAGTAAATGGAATGGAAA
* *
20881804 GTAAGTAAATGGAATGGTAA
1 CTAAGTAAATGGAATGGAAA
20881824 CTAAGTAAATGGAA
1 CTAAGTAAATGGAA
20881838 CGGTTCTTAG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.48, C:0.04, G:0.22, T:0.26
Consensus pattern (20 bp):
CTAAGTAAATGGAATGGAAA
Found at i:20892729 original size:44 final size:42
Alignment explanation
Indices: 20892677--20892819 Score: 106
Period size: 44 Copynumber: 3.2 Consensus size: 42
20892667 AAGACAAGAT
20892677 CTGCTATCTTCAACCTACTCCACTGCTTCTCAGAGAGATAAGG
1 CTGCTATCTTCAACCTACTCCACTGCTTCTCAG-GAGATAAGG
* * * * * * *** * *
20892720 CTAGCTATCTTCGATCTGCTTCGCTACCAATACAGGAAGACAAGAT
1 CT-GCTATCTTCAACCTACTCCACTGCTTCT-CAGG-AGATAAG-G
* *
20892766 TTGCTATCTTCAACCTATTCCACTGCTTCTCAGGGAGATAAGG
1 CTGCTATCTTCAACCTACTCCACTGCTTCTCA-GGAGATAAGG
20892809 CTGACTATCTT
1 CTG-CTATCTT
20892820 TGATCTACTT
Statistics
Matches: 69, Mismatches: 25, Indels: 11
0.66 0.24 0.10
Matches are distributed among these distances:
43 4 0.06
44 35 0.51
45 29 0.42
46 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (42 bp):
CTGCTATCTTCAACCTACTCCACTGCTTCTCAGGAGATAAGG
Found at i:20892789 original size:89 final size:89
Alignment explanation
Indices: 20892638--20892899 Score: 375
Period size: 89 Copynumber: 2.9 Consensus size: 89
20892628 AAGGCTGGTG
20892638 TCTTCGATCTGCTTTGCTACCAGTACAAGAAGACAAGATCTGCTATCTTCAACCTACTCCACTGC
1 TCTTCGATCTGCTTTGCTACCAGTACAAGAAGACAAGATCTGCTATCTTCAACCTACTCCACTGC
*
20892703 TTCTCAGAGAGATAAGGCT-AGCTA
66 TTCTCAGGGAGATAAGGCTGA-CTA
* * * * *
20892727 TCTTCGATCTGCTTCGCTACCAATACAGGAAGACAAGATTTGCTATCTTCAACCTATTCCACTGC
1 TCTTCGATCTGCTTTGCTACCAGTACAAGAAGACAAGATCTGCTATCTTCAACCTACTCCACTGC
20892792 TTCTCAGGGAGATAAGGCTGACTA
66 TTCTCAGGGAGATAAGGCTGACTA
* * * * * *
20892816 TCTTTGATCTACTTTGCTGCCAGTACAAGAAGACAAGATCTACTATTTTCAATCTACTCCACTG-
1 TCTTCGATCTGCTTTGCTACCAGTACAAGAAGACAAGATCTGCTATCTTCAACCTACTCCACTGC
*
20892880 TTGTTCAGGGAGATAAGGCT
66 TT-CTCAGGGAGATAAGGCT
20892900 TTGTGGTTTC
Statistics
Matches: 153, Mismatches: 18, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
88 2 0.01
89 150 0.98
90 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (89 bp):
TCTTCGATCTGCTTTGCTACCAGTACAAGAAGACAAGATCTGCTATCTTCAACCTACTCCACTGC
TTCTCAGGGAGATAAGGCTGACTA
Found at i:20903864 original size:48 final size:48
Alignment explanation
Indices: 20903778--20903922 Score: 182
Period size: 48 Copynumber: 3.0 Consensus size: 48
20903768 GATTTCTCGA
* * * * ** * *
20903778 TGGCCTATACATAGTCCGTACCACCTTTGTGTAATAACAGACTCTCAG
1 TGGCCTACACATAGTCCGTGCCACCCTTGTATCTTAACAGAATATCAG
**
20903826 TGGCCTACACATAGTCCGTGCCACCCTTGTATCTTAACAGAATATTGG
1 TGGCCTACACATAGTCCGTGCCACCCTTGTATCTTAACAGAATATCAG
* *
20903874 TGGCCTGCACACAGTCCGTGCCACCCTTGTATCTTAACAGAATATCAG
1 TGGCCTACACATAGTCCGTGCCACCCTTGTATCTTAACAGAATATCAG
20903922 T
1 T
20903923 ACGCATAGTA
Statistics
Matches: 83, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 83 1.00
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (48 bp):
TGGCCTACACATAGTCCGTGCCACCCTTGTATCTTAACAGAATATCAG
Found at i:20909366 original size:28 final size:28
Alignment explanation
Indices: 20909330--20909511 Score: 303
Period size: 28 Copynumber: 6.5 Consensus size: 28
20909320 TAAATTGTAC
*
20909330 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
20909358 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
20909386 AGCACTAAGTGTGCGAATTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
20909414 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
20909442 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
20909470 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
20909497 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
20909512 GACTTAATAT
Statistics
Matches: 149, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
27 24 0.16
28 125 0.84
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:20926741 original size:28 final size:28
Alignment explanation
Indices: 20926703--20926884 Score: 303
Period size: 28 Copynumber: 6.5 Consensus size: 28
20926693 TAAATTGTAC
*
20926703 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
20926731 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
20926759 AGCACTAAGTGTGCGAATTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
20926787 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
20926815 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
20926843 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
20926870 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
20926885 GACTTAATAT
Statistics
Matches: 149, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
27 24 0.16
28 125 0.84
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:20929799 original size:15 final size:16
Alignment explanation
Indices: 20929768--20929800 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
20929758 AGTGCTTTTC
*
20929768 AAAAGCACTTTTGAAA
1 AAAAGCACTTCTGAAA
20929784 AAAAGCACTTCT-AAA
1 AAAAGCACTTCTGAAA
20929799 AA
1 AA
20929801 GGAGAAGCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.55, C:0.15, G:0.09, T:0.21
Consensus pattern (16 bp):
AAAAGCACTTCTGAAA
Found at i:20930288 original size:13 final size:13
Alignment explanation
Indices: 20930272--20930337 Score: 87
Period size: 13 Copynumber: 5.1 Consensus size: 13
20930262 TTTAAACCAA
*
20930272 ACTTTTCAAAATC
1 ACTTTTCAAAAGC
*
20930285 ACTTCTCAAAAGC
1 ACTTTTCAAAAGC
* **
20930298 ACTTTTCCACGGC
1 ACTTTTCAAAAGC
20930311 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
20930324 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
20930337 A
1 A
20930338 TTGCCAAACT
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 44 1.00
ACGTcount: A:0.35, C:0.27, G:0.08, T:0.30
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:20930760 original size:41 final size:41
Alignment explanation
Indices: 20930624--20930751 Score: 247
Period size: 41 Copynumber: 3.1 Consensus size: 41
20930614 TAGCTAAATG
20930624 ATATTTGATATGAAATGTGATTGAAATTGGTATACTATGTA
1 ATATTTGATATGAAATGTGATTGAAATTGGTATACTATGTA
20930665 ATATTTGATATGAAATGTGATTGAAATTGGTATACTATGTA
1 ATATTTGATATGAAATGTGATTGAAATTGGTATACTATGTA
20930706 ATATTTGATATGAAATGTGATTGAAATTGGTATACTATGTA
1 ATATTTGATATGAAATGTGATTGAAATTGGTATACTATGTA
20930747 TATAT
1 -ATAT
20930752 GTACATGAAT
Statistics
Matches: 86, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
41 82 0.95
42 4 0.05
ACGTcount: A:0.37, C:0.02, G:0.19, T:0.42
Consensus pattern (41 bp):
ATATTTGATATGAAATGTGATTGAAATTGGTATACTATGTA
Found at i:20931893 original size:75 final size:75
Alignment explanation
Indices: 20931808--20932032 Score: 369
Period size: 75 Copynumber: 3.0 Consensus size: 75
20931798 TAAAAACCAA
* * *
20931808 GATTATTCCCTTATTAACAGAGAAGGCAAATGGAAAGTTAGAAAAAGAAATTATATTCTTTCCAA
1 GATTATTCCCTTATTAATAGAGAAGACAAATGGAAAGTTAGAAAAAGGAATTATATTCTTTCCAA
*
20931873 AAGATTATTG
66 AAGAATATTG
* *
20931883 TATTATTCCCTTATTAATAAAGAAGACAAATGGAAAGTTAGAAAAAGGAATTATATTCTTTCCAA
1 GATTATTCCCTTATTAATAGAGAAGACAAATGGAAAGTTAGAAAAAGGAATTATATTCTTTCCAA
20931948 AAGAATATTG
66 AAGAATATTG
* *
20931958 GATTATTCCCTAATTAATAGAAAAGACAAATGGAAAGTTAGAAAAAAGGAATTATATTCTTTCCA
1 GATTATTCCCTTATTAATAGAGAAGACAAATGGAAAGTTAG-AAAAAGGAATTATATTCTTTCCA
20932023 AAAGAATATT
65 AAAGAATATT
20932033 AATTTTCATG
Statistics
Matches: 139, Mismatches: 10, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
75 106 0.76
76 33 0.24
ACGTcount: A:0.45, C:0.10, G:0.14, T:0.31
Consensus pattern (75 bp):
GATTATTCCCTTATTAATAGAGAAGACAAATGGAAAGTTAGAAAAAGGAATTATATTCTTTCCAA
AAGAATATTG
Found at i:20932225 original size:138 final size:138
Alignment explanation
Indices: 20932007--20932427 Score: 650
Period size: 138 Copynumber: 3.1 Consensus size: 138
20931997 AGAAAAAAGG
* *
20932007 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTC--TTATATTTTGACTGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
* *
20932070 TATAACTGTATATATTAATAAATTCGGTAAAATATATACAATTAATATTTTTTATGAATCAAATT
66 TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
20932135 CATATATT
131 CATATATT
20932143 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
** **
20932208 TGCAACTGTTTATATTAATAAGA-TCAATAAAATATATACAATTAATATTTTGTATGAATCAAAT
66 TATAACTGTTTATATTAATAA-ATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAAT
20932272 TCATATATT
130 TCATATATT
* * *
20932281 AGTTATATTCCTTCTAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
* * * * * * *
20932346 TATAACTATTTATATTAATAAATTTGGTTAAACATATACAATAAATATTTTGTATGAATAAAATG
66 TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
20932411 CATATATT
131 CATATATT
20932419 AATTATATT
1 AATTATATT
20932428 TATGTTCTCT
Statistics
Matches: 258, Mismatches: 23, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
136 37 0.14
137 1 0.00
138 219 0.85
139 1 0.00
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.44
Consensus pattern (138 bp):
AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
CATATATT
Found at i:20933981 original size:24 final size:24
Alignment explanation
Indices: 20933954--20934003 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
20933944 CATTAATTAC
20933954 CTAAAACTTATAATGCAAGAATAA
1 CTAAAACTTATAATGCAAGAATAA
20933978 CTAAAACTTATAATGCAAGAATAA
1 CTAAAACTTATAATGCAAGAATAA
20934002 CT
1 CT
20934004 TAGTCATGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.52, C:0.14, G:0.08, T:0.26
Consensus pattern (24 bp):
CTAAAACTTATAATGCAAGAATAA
Found at i:20934742 original size:14 final size:14
Alignment explanation
Indices: 20934723--20934749 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
20934713 CATTTCTTGG
20934723 TCGGTTCAGTTCAC
1 TCGGTTCAGTTCAC
20934737 TCGGTTCAGTTCA
1 TCGGTTCAGTTCA
20934750 ACTGAACCAC
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:0.15, C:0.26, G:0.22, T:0.37
Consensus pattern (14 bp):
TCGGTTCAGTTCAC
Found at i:20936894 original size:25 final size:25
Alignment explanation
Indices: 20936852--20936905 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
20936842 TTTTCTAAAA
*
20936852 AATTTAATTAATATAAAATATTA-AT
1 AATTTAATAAATATAAAA-ATTAGAT
20936877 AATTTAATAAAT-TAAAAAATTAGAT
1 AATTTAATAAATAT-AAAAATTAGAT
20936902 AATT
1 AATT
20936906 AAATTAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 5 0.19
25 21 0.81
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (25 bp):
AATTTAATAAATATAAAAATTAGAT
Found at i:20937533 original size:8 final size:8
Alignment explanation
Indices: 20937520--20937547 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
20937510 AATTATCATC
20937520 TTTTCTTT
1 TTTTCTTT
20937528 TTTTCTTT
1 TTTTCTTT
20937536 TTTTCTTT
1 TTTTCTTT
20937544 TTTT
1 TTTT
20937548 TATTGAACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTCTTT
Done.