Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 69 of 333
Found at i:20935157 original size:18 final size:18
Alignment explanation
Indices: 20935136--20935184 Score: 84
Period size: 16 Copynumber: 2.8 Consensus size: 18
20935126 AAAGCAAAAT
20935136 AAAAATTAAAATATATAA
1 AAAAATTAAAATATATAA
20935154 AAAAATT-AAA-ATATAA
1 AAAAATTAAAATATATAA
20935170 AAAAATTAAAATATA
1 AAAAATTAAAATATA
20935185 AGTATAAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
16 13 0.45
17 6 0.21
18 10 0.34
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (18 bp):
AAAAATTAAAATATATAA
Found at i:20935262 original size:22 final size:20
Alignment explanation
Indices: 20935117--20935269 Score: 71
Period size: 20 Copynumber: 7.5 Consensus size: 20
20935107 AAAAAAGAAA
**
20935117 AAAATAAAAA-AAGCAAAAT
1 AAAATAAAAATAAATAAAAT
* *
20935136 AAAAATTAAAATATATAAAA-
1 -AAAATAAAAATAAATAAAAT
*
20935156 AAATTAAAATATAAA-AAAATT
1 AAAATAAAA-ATAAATAAAA-T
* * *
20935177 AAAATATAAGTATAAGAATAAT
1 AAAATAAAAATA-AATAA-AAT
* * * * *
20935199 AAATTAATTAATTAAT-TAGT
1 AAAATAA-AAATAAATAAAAT
**
20935219 AAAATAAAAATAAATACTAT
1 AAAATAAAAATAAATAAAAT
20935239 AACAATTAAAAATAAATAAAAT
1 AA-AA-TAAAAATAAATAAAAT
20935261 AAAATAAAA
1 AAAATAAAA
20935270 TTGGGGTAAT
Statistics
Matches: 96, Mismatches: 26, Indels: 22
0.67 0.18 0.15
Matches are distributed among these distances:
19 17 0.18
20 31 0.32
21 18 0.19
22 26 0.27
23 4 0.04
ACGTcount: A:0.70, C:0.02, G:0.03, T:0.25
Consensus pattern (20 bp):
AAAATAAAAATAAATAAAAT
Found at i:20948879 original size:15 final size:15
Alignment explanation
Indices: 20948859--20948888 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
20948849 AAAAAAATAG
*
20948859 GCGTCCCTAACATCT
1 GCGTCCCCAACATCT
20948874 GCGTCCCCAACATCT
1 GCGTCCCCAACATCT
20948889 TTCATCCCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.43, G:0.13, T:0.23
Consensus pattern (15 bp):
GCGTCCCCAACATCT
Found at i:20949004 original size:14 final size:16
Alignment explanation
Indices: 20948971--20949007 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
20948961 TGCCATTGAC
20948971 ATATAGAACTAGAAAT
1 ATATAGAACTAGAAAT
20948987 ATATAGAACTAGAAAT
1 ATATAGAACTAGAAAT
20949003 ATATA
1 ATATA
20949008 CTTACTCCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.57, C:0.05, G:0.11, T:0.27
Consensus pattern (16 bp):
ATATAGAACTAGAAAT
Found at i:20955338 original size:37 final size:37
Alignment explanation
Indices: 20955288--20955366 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
20955278 TTATTACAAA
* * *
20955288 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
20955325 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
20955362 GTCTT
1 GTCTT
20955367 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:20955572 original size:47 final size:47
Alignment explanation
Indices: 20955485--20955981 Score: 742
Period size: 47 Copynumber: 10.4 Consensus size: 47
20955475 CCTTTCGGGA
* * * * * * *
20955485 CTTATCACATTTATGCACTTTCACATCCATTACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
20955532 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
20955579 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
20955626 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
20955673 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
20955720 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
20955767 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
20955814 CTTATTACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTA-T-CACATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
20955865 CTTATCACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
20955916 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20955963 CTTATCACATATATACACT
1 CTTATCACATATATACACT
20955982 CTCTTGGCTG
Statistics
Matches: 427, Mismatches: 17, Indels: 12
0.94 0.04 0.03
Matches are distributed among these distances:
47 327 0.77
48 1 0.00
49 11 0.03
50 1 0.00
51 87 0.20
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:20959673 original size:40 final size:40
Alignment explanation
Indices: 20959465--20959727 Score: 291
Period size: 40 Copynumber: 6.6 Consensus size: 40
20959455 CCAGCATGAT
* * * *
20959465 TGCTCTTCGGGACCTAGCCCGGACATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
** *
20959505 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
20959545 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
20959585 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * * *
20959625 TGCTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAA
1 TGCTCTTCGGGACTTAGCCCGGATATA-TCACTAGCACGAA
* *
20959666 TGC-CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCAC-AA
1 TGCTCTTCGGGA-CTTAGCCCGGATAT-ATCAC-TAGCACGAA
*
20959706 AGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
20959728 CATCATTCAA
Statistics
Matches: 191, Mismatches: 27, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.02
40 168 0.88
41 20 0.10
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:20959673 original size:120 final size:121
Alignment explanation
Indices: 20959452--20959729 Score: 321
Period size: 120 Copynumber: 2.3 Consensus size: 121
20959442 CGAATACACG
* * * * *
20959452 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGACATAACACCAGCACGAATGCTCTTCGGGG
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGACACAACACCAGCACGAATGCTCTTCGGGA
* * *
20959517 TTTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATA-CA
66 CTTAGCACGGATATATAACTAGCACCAATGCTCTTCGGAACTTAGCCCGGATATCA
* * * *
20959572 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGACACAACACCAGCACGAATGCTCTTCGGGA
* * * * * **
20959637 CTTAGCCCGGATTTAGTAACTCGCACCAATGC-CTTCGGATCTTAGTCCGGATATGG
66 CTTAGCACGGATATA-TAACTAGCACCAATGCTCTTCGGAACTTAGCCCGGATATCA
* *
20959693 TCACTTAGCA-CAAAGC-CTTCGGGACTTAGCCCGGACA
1 TCAC-TAGCATGAATGCTCTTCGGGACTTAGCCCGGACA
20959730 TCATTCAAAT
Statistics
Matches: 133, Mismatches: 22, Indels: 6
0.83 0.14 0.04
Matches are distributed among these distances:
120 107 0.80
121 21 0.16
122 5 0.04
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (121 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGACACAACACCAGCACGAATGCTCTTCGGGA
CTTAGCACGGATATATAACTAGCACCAATGCTCTTCGGAACTTAGCCCGGATATCA
Found at i:20960088 original size:29 final size:29
Alignment explanation
Indices: 20960033--20960110 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 29
20960023 CTTAATAATC
* *
20960033 AACCACGCACACTTA-TGCCATGTATTTTA
1 AACC-CGCACACTTAGTGCCATGCATTTCA
*
20960062 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
20960091 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
20960111 ATCTCACAAC
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
28 10 0.23
29 33 0.77
ACGTcount: A:0.28, C:0.32, G:0.14, T:0.26
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:20960153 original size:43 final size:43
Alignment explanation
Indices: 20960092--20960194 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
20960082 TGCATTTCAA
20960092 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
20960135 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
20960178 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
20960195 TGAAAACCAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:20962090 original size:37 final size:37
Alignment explanation
Indices: 20962040--20962118 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
20962030 TTATTACGAA
* * *
20962040 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
20962077 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
20962114 GTCTT
1 GTCTT
20962119 TAGAGCTCAG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:20962434 original size:38 final size:42
Alignment explanation
Indices: 20962392--20962501 Score: 133
Period size: 38 Copynumber: 2.6 Consensus size: 42
20962382 TCATTCTCAT
20962392 GCTATTAGGCCTTATCAC-TATCACTT-CA-TCATCAC-TCG
1 GCTATTAGGCCTTATCACATATCACTTACATTCATCACGTCG
20962430 GCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACGTCG
1 GCTATTAGGCCTTAT--CACATAT-CAC-TT-ACATTCATCACGTCG
20962477 GCTATTAGGCC-T-TCACATATCACTT
1 GCTATTAGGCCTTATCACATATCACTT
20962502 TCACATTCCA
Statistics
Matches: 63, Mismatches: 0, Indels: 15
0.81 0.00 0.19
Matches are distributed among these distances:
38 15 0.24
40 3 0.05
41 5 0.08
42 6 0.10
43 9 0.14
45 3 0.05
46 8 0.13
47 14 0.22
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (42 bp):
GCTATTAGGCCTTATCACATATCACTTACATTCATCACGTCG
Found at i:20962506 original size:42 final size:41
Alignment explanation
Indices: 20962294--20962509 Score: 132
Period size: 42 Copynumber: 5.4 Consensus size: 41
20962284 CTTGTCACAT
* *
20962294 ATATACACTTTCACATTCATCAATCGGCCATTAGGCCTTATCAC
1 ATAT-CACTTTCACATTCATCACTCGGCTATTAGGCC-T-TCAC
20962338 ATATATACAC-TT--CATTCATCA-TC-GC-A-TAGG-CTTC-C
1 --ATAT-CACTTTCACATTCATCACTCGGCTATTAGGCCTTCAC
20962373 AT-TACACTTT--CATTC-TCA-T--GCTATTAGGCCTT-ATC
1 ATAT-CACTTTCACATTCATCACTCGGCTATTAGGCCTTCA-C
20962408 ACTATCAC-TT--CA-TCATCACTCGGCTATTAGGCCTTATCACAC
1 A-TATCACTTTCACATTCATCACTCGGCTATTAGGCC-T-T--CAC
20962450 ATATACACTTTCACATTCATCACGTCGGCTATTAGGCCTTCAC
1 ATAT-CACTTTCACATTCATCAC-TCGGCTATTAGGCCTTCAC
20962493 ATATCACTTTCACATTC
1 ATATCACTTTCACATTC
20962510 CATACACTTT
Statistics
Matches: 147, Mismatches: 0, Indels: 50
0.75 0.00 0.25
Matches are distributed among these distances:
31 2 0.01
32 10 0.07
33 13 0.09
34 5 0.03
35 10 0.07
36 7 0.05
37 2 0.01
38 12 0.08
39 5 0.03
40 2 0.01
41 5 0.03
42 20 0.14
43 19 0.13
45 5 0.03
46 16 0.11
47 14 0.10
ACGTcount: A:0.27, C:0.30, G:0.09, T:0.35
Consensus pattern (41 bp):
ATATCACTTTCACATTCATCACTCGGCTATTAGGCCTTCAC
Found at i:20962515 original size:59 final size:62
Alignment explanation
Indices: 20962452--20962573 Score: 196
Period size: 59 Copynumber: 2.0 Consensus size: 62
20962442 TATCACACAT
*
20962452 ATACACTTTCACATTCATCACGTCGGCTATTAGGCC-TT-CACATAT-CACTTTCACATTCC
1 ATACACTTTCACATTCATCACATCGGCTATTAGGCCTTTACACATATACACTTTCACATTCC
20962511 ATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATTACACATATACACTTTCACATTC
1 ATACACTTTCACATTCATCACATCGGCTATTAGGCC-T-TTACACATATACACTTTCACATTC
20962574 ATCACATCGG
Statistics
Matches: 57, Mismatches: 1, Indels: 5
0.90 0.02 0.08
Matches are distributed among these distances:
59 35 0.61
62 2 0.04
63 7 0.12
64 13 0.23
ACGTcount: A:0.28, C:0.30, G:0.07, T:0.34
Consensus pattern (62 bp):
ATACACTTTCACATTCATCACATCGGCTATTAGGCCTTTACACATATACACTTTCACATTCC
Found at i:20962519 original size:17 final size:18
Alignment explanation
Indices: 20962492--20962526 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
20962482 TAGGCCTTCA
20962492 CATATCACTTTCACATTC
1 CATATCACTTTCACATTC
20962510 CATA-CACTTTCACATTC
1 CATATCACTTTCACATTC
20962527 ATCACATCGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.29, C:0.34, G:0.00, T:0.37
Consensus pattern (18 bp):
CATATCACTTTCACATTC
Found at i:20962558 original size:106 final size:103
Alignment explanation
Indices: 20962420--20962702 Score: 407
Period size: 98 Copynumber: 2.8 Consensus size: 103
20962410 TATCACTTCA
*
20962420 TCATCAC-TCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTA
1 TCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTA
* *
20962484 GGCCTTCACATATCACTTTCACATTCCATACACTTTCACAT
66 GGCCTTCACATATCAC-AT-ACA-TACATACACTTTCACAT
*
20962525 TCATCACATCGGCTATTAGGCCTTATTACACATATACACTTTCACATTCATCACATCGGCTATTA
1 TCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTA
*
20962590 GGCC-T----TATCACATATATACATACACTTTCACAT
66 GGCCTTCACATATCACATACATACATACACTTTCACAT
* * *
20962623 TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
1 TCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTA
20962688 GGCCTTATCACATAT
66 GGCC-T-TCACATAT
20962703 ATACACTCTC
Statistics
Matches: 161, Mismatches: 9, Indels: 16
0.87 0.05 0.09
Matches are distributed among these distances:
98 81 0.50
99 2 0.01
100 1 0.01
101 7 0.04
105 11 0.07
106 59 0.37
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (103 bp):
TCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTA
GGCCTTCACATATCACATACATACATACACTTTCACAT
Found at i:20962575 original size:47 final size:47
Alignment explanation
Indices: 20962511--20962709 Score: 326
Period size: 47 Copynumber: 4.1 Consensus size: 47
20962501 TTCACATTCC
* * *
20962511 ATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATTACACAT
1 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
*
20962558 ATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATAT
1 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATAT
20962607 ACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
1 --ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
20962656 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
1 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
20962703 ATACACT
1 ATACACT
20962710 CTCTTGGCTG
Statistics
Matches: 145, Mismatches: 3, Indels: 8
0.93 0.02 0.05
Matches are distributed among these distances:
47 96 0.66
49 7 0.05
51 42 0.29
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
Found at i:20976843 original size:40 final size:40
Alignment explanation
Indices: 20976635--20976897 Score: 291
Period size: 40 Copynumber: 6.6 Consensus size: 40
20976625 CCAGCATGAT
* * * *
20976635 TGCTCTTCGGGACCTAGCCCGGACATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
** *
20976675 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
20976715 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
20976755 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * * *
20976795 TGCTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAA
1 TGCTCTTCGGGACTTAGCCCGGATATA-TCACTAGCACGAA
* *
20976836 TGC-CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCAC-AA
1 TGCTCTTCGGGA-CTTAGCCCGGATAT-ATCAC-TAGCACGAA
*
20976876 AGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
20976898 CATCATTCAA
Statistics
Matches: 191, Mismatches: 27, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.02
40 168 0.88
41 20 0.10
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:20976843 original size:120 final size:121
Alignment explanation
Indices: 20976622--20976899 Score: 321
Period size: 120 Copynumber: 2.3 Consensus size: 121
20976612 CGAATACACG
* * * * *
20976622 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGACATAACACCAGCACGAATGCTCTTCGGGG
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGACACAACACCAGCACGAATGCTCTTCGGGA
* * *
20976687 TTTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATA-CA
66 CTTAGCACGGATATATAACTAGCACCAATGCTCTTCGGAACTTAGCCCGGATATCA
* * * *
20976742 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGACACAACACCAGCACGAATGCTCTTCGGGA
* * * * * **
20976807 CTTAGCCCGGATTTAGTAACTCGCACCAATGC-CTTCGGATCTTAGTCCGGATATGG
66 CTTAGCACGGATATA-TAACTAGCACCAATGCTCTTCGGAACTTAGCCCGGATATCA
* *
20976863 TCACTTAGCA-CAAAGC-CTTCGGGACTTAGCCCGGACA
1 TCAC-TAGCATGAATGCTCTTCGGGACTTAGCCCGGACA
20976900 TCATTCAAAT
Statistics
Matches: 133, Mismatches: 22, Indels: 6
0.83 0.14 0.04
Matches are distributed among these distances:
120 107 0.80
121 21 0.16
122 5 0.04
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (121 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGACACAACACCAGCACGAATGCTCTTCGGGA
CTTAGCACGGATATATAACTAGCACCAATGCTCTTCGGAACTTAGCCCGGATATCA
Found at i:20977251 original size:29 final size:29
Alignment explanation
Indices: 20977203--20977281 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 29
20977193 CTTAATAATC
* * *
20977203 AACCACGCACACTTACTGCCATGTATTTTA
1 AACC-CGCACACTTAGTGCCATGCATTTCA
*
20977233 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
20977262 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
20977282 ATCTCACAAC
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 40 0.93
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.14, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:20977324 original size:43 final size:43
Alignment explanation
Indices: 20977263--20977365 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
20977253 TGCATTTCAA
20977263 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
20977306 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
20977349 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
20977366 TGAAAACCAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:20979269 original size:37 final size:37
Alignment explanation
Indices: 20979219--20979297 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
20979209 TTATTACGAA
* * *
20979219 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
20979256 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
20979293 GTCTT
1 GTCTT
20979298 TAGAGCTCAG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:20979503 original size:47 final size:47
Alignment explanation
Indices: 20979460--20979953 Score: 790
Period size: 47 Copynumber: 10.4 Consensus size: 47
20979450 TTGGCCACTC
* * * *
20979460 GGCCTTGTCACATATATACACTTTCACATTCATCATATCGGCCATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTA
*
20979507 GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTA
*
20979554 GGCCTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTA
*
20979601 GGCCTTATCACACATATACACTTTCACATTCATCACCTCGGCTATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTA
*
20979648 GGCCTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTA
*
20979695 GGCCTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTA
20979742 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTA
*
20979789 GGCCTTATTACACATATACACTTTCACATTCATCACATCGGCTATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTA
* * *
20979836 GGCCTTATTACATATATACATACACTTTCACATTCATCACATCGGCCATTA
1 GGCCTTA-T-CACACAT--ATACACTTTCACATTCATCACATCGGCTATTA
* *
20979887 GGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
1 GGCCTTATCAC--ACATATACACTTTCACATTCATCACATCGGCTATTA
*
20979936 GGCCTTATCACATATATA
1 GGCCTTATCACACATATA
20979954 TCACATCTCT
Statistics
Matches: 427, Mismatches: 14, Indels: 12
0.94 0.03 0.03
Matches are distributed among these distances:
47 334 0.78
48 1 0.00
49 49 0.11
50 1 0.00
51 42 0.10
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTA
Found at i:20993504 original size:127 final size:127
Alignment explanation
Indices: 20993278--20993533 Score: 503
Period size: 127 Copynumber: 2.0 Consensus size: 127
20993268 TTCGATACAG
20993278 AGAAAGTCTTGGTTGAACCTTGGAATAGATAGGATACAAATGTCATGACATTAGGGTTACTAAGA
1 AGAAAGTCTTGGTTGAACCTTGGAATAGATAGGATACAAATGTCATGACATTAGGGTTACTAAGA
20993343 TTACGTGTAAGTCCATATCTGGGATATGGCATTGATATGGTACTATGTGTACGAGATTCCCA
66 TTACGTGTAAGTCCATATCTGGGATATGGCATTGATATGGTACTATGTGTACGAGATTCCCA
20993405 AGAAAGTCTTGGTTGAACCTTGGAATAGATAGGATACAAATGTCATGACATTAGGGTTACTAAGA
1 AGAAAGTCTTGGTTGAACCTTGGAATAGATAGGATACAAATGTCATGACATTAGGGTTACTAAGA
*
20993470 TTACGTGTAAGTCCATATCTGGGATATGGCATTGATATGGTACTGTGTGTACGAGATTCCCA
66 TTACGTGTAAGTCCATATCTGGGATATGGCATTGATATGGTACTATGTGTACGAGATTCCCA
20993532 AG
1 AG
20993534 TATCCTTTAG
Statistics
Matches: 128, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
127 128 1.00
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.30
Consensus pattern (127 bp):
AGAAAGTCTTGGTTGAACCTTGGAATAGATAGGATACAAATGTCATGACATTAGGGTTACTAAGA
TTACGTGTAAGTCCATATCTGGGATATGGCATTGATATGGTACTATGTGTACGAGATTCCCA
Found at i:21004992 original size:75 final size:75
Alignment explanation
Indices: 21004896--21005035 Score: 219
Period size: 75 Copynumber: 1.9 Consensus size: 75
21004886 TTGGCCGCTG
21004896 TAGTTTTCAATTTAAAAATCTGGAGGCACTACCTGTAC-GATGAGAAGTGCACCATCTACACTGA
1 TAGTTTTCAATTTAAAAATCTGGAGGCACTACCTGTACAG-TGAGAAGTGCACCATCTACACTGA
21004960 TAAAAAAGCCT
65 TAAAAAAGCCT
** * * *
21004971 TAGTTTTCGTTTTGAAAATCTGGAGGCACTACCTGTACAGTGAGAAGTGTACTATCTACACTGAT
1 TAGTTTTCAATTTAAAAATCTGGAGGCACTACCTGTACAGTGAGAAGTGCACCATCTACACTGAT
21005036 CACGAAAGTC
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
75 58 0.98
76 1 0.02
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (75 bp):
TAGTTTTCAATTTAAAAATCTGGAGGCACTACCTGTACAGTGAGAAGTGCACCATCTACACTGAT
AAAAAAGCCT
Found at i:21019552 original size:15 final size:16
Alignment explanation
Indices: 21019526--21019555 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
21019516 TTCTATTCTC
21019526 AAAATAAAAATAAATT
1 AAAATAAAAATAAATT
21019542 AAAAT-AAAATAAAT
1 AAAATAAAAATAAAT
21019556 ATTTTAGCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (16 bp):
AAAATAAAAATAAATT
Found at i:21022422 original size:22 final size:22
Alignment explanation
Indices: 21022397--21022438 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
21022387 ATCTTTAAAA
*
21022397 TAATTAAAATT-TATAAAATAGT
1 TAATAAAAATTCTA-AAAATAGT
21022419 TAATAAAAATTCTAAAAATA
1 TAATAAAAATTCTAAAAATA
21022439 TTCTAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (22 bp):
TAATAAAAATTCTAAAAATAGT
Found at i:21022434 original size:9 final size:9
Alignment explanation
Indices: 21022401--21022504 Score: 54
Period size: 10 Copynumber: 11.1 Consensus size: 9
21022391 TTAAAATAAT
*
21022401 TAAAATTTA
1 TAAAAATTA
21022410 TAAAATAGTTAA
1 TAAAA-A-TT-A
*
21022422 TAAAAATTC
1 TAAAAATTA
*
21022431 TAAAAATATTC
1 T-AAAA-ATTA
21022442 TAAAAA-TA
1 TAAAAATTA
21022450 TAAAAATTA
1 TAAAAATTA
21022459 TAAACAATT-
1 TAAA-AATTA
* *
21022468 TCCAAAATAA
1 T-AAAAATTA
*
21022478 TAAAAATATT
1 TAAAAAT-TA
21022488 TAAAAA-TA
1 TAAAAATTA
21022496 T-AAAATTA
1 TAAAAATTA
21022504 T
1 T
21022505 TAGTAAACGA
Statistics
Matches: 75, Mismatches: 9, Indels: 23
0.70 0.08 0.21
Matches are distributed among these distances:
7 4 0.05
8 12 0.16
9 22 0.29
10 23 0.31
11 8 0.11
12 6 0.08
ACGTcount: A:0.61, C:0.05, G:0.01, T:0.34
Consensus pattern (9 bp):
TAAAAATTA
Found at i:21022453 original size:28 final size:28
Alignment explanation
Indices: 21022419--21022496 Score: 88
Period size: 28 Copynumber: 2.8 Consensus size: 28
21022409 ATAAAATAGT
*
21022419 TAATAAAAATTCTAAAAATATTCTAAAAA
1 TAATAAAAATTATAAAAATATTC-AAAAA
*
21022448 T-ATAAAAATTATAAACAAT-TTCCAAAA
1 TAATAAAAATTATAAA-AATATTCAAAAA
*
21022475 TAATAAAAATATTTAAAAATAT
1 TAATAAAAAT-TATAAAAATAT
21022497 AAAATTATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
27 5 0.12
28 27 0.64
29 10 0.24
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (28 bp):
TAATAAAAATTATAAAAATATTCAAAAA
Found at i:21022498 original size:18 final size:18
Alignment explanation
Indices: 21022442--21022505 Score: 53
Period size: 18 Copynumber: 3.6 Consensus size: 18
21022432 AAAAATATTC
21022442 TAAAAATA--TAAAAATTA
1 TAAAAATATTTAAAAA-TA
**
21022459 TAAACAAT-TTCCAAAATAA
1 TAAA-AATATTTAAAAAT-A
21022478 TAAAAATATTTAAAAATA
1 TAAAAATATTTAAAAATA
*
21022496 TAAAATTATT
1 TAAAAATATT
21022506 AGTAAACGAT
Statistics
Matches: 37, Mismatches: 5, Indels: 9
0.73 0.10 0.18
Matches are distributed among these distances:
17 4 0.11
18 17 0.46
19 16 0.43
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (18 bp):
TAAAAATATTTAAAAATA
Found at i:21023638 original size:23 final size:24
Alignment explanation
Indices: 21023607--21023653 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
21023597 CATTAGTTAC
*
21023607 ATATGTGTCGTATGC-CAAATATT
1 ATATGTGTCATATGCTCAAATATT
*
21023630 ATATTTGTCATATGCTCAAATATT
1 ATATGTGTCATATGCTCAAATATT
21023654 TTGTTCAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.43
Consensus pattern (24 bp):
ATATGTGTCATATGCTCAAATATT
Found at i:21029851 original size:49 final size:48
Alignment explanation
Indices: 21029746--21029921 Score: 167
Period size: 49 Copynumber: 3.6 Consensus size: 48
21029736 TGATGTGTGT
** *
21029746 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGAAACCAATAGATGAGA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCG-GCCCAAGAGATGAGA
* * * * *
21029795 GCCAGTGTAAGACCTATCTGGGACACGGCATCGGCCTCGAGATATGCA-A
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCC-CAAGAGATG-AGA
* *
21029844 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCAC-AGATAAGTGAGA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCCCAAGA-GA-TGAGA
* * * *
21029893 GCCAATGCAAGACCTGTCTAGGACATGGC
1 GCTAGTGTAAGACCTGTCTGGGACATGGC
21029922 GTCAGCCTCG
Statistics
Matches: 105, Mismatches: 17, Indels: 10
0.80 0.13 0.08
Matches are distributed among these distances:
47 3 0.03
48 4 0.04
49 97 0.92
50 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.30, T:0.19
Consensus pattern (48 bp):
GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCCCAAGAGATGAGA
Found at i:21029917 original size:98 final size:98
Alignment explanation
Indices: 21029746--21029973 Score: 275
Period size: 98 Copynumber: 2.3 Consensus size: 98
21029736 TGATGTGTGT
* *
21029746 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGAAACCAATAGATGAGAGCCAGTGTAAGACCTA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGAAACCAATAGATGAGAGCCAATGCAAGACCTA
* *
21029811 TCTGGGACACGGCATCGGCCTCGA-GATATGCAA
66 TCTAGGACACGGCATCAGCCTCGATG-TATGCAA
**
21029844 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCA-CAGATA-AGTGAGAGCCAATGCAAGACC
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGAAACCA-ATAGA-TGAGAGCCAATGCAAGACC
* * * *
21029907 TGTCTAGGACATGGCGTCAGCCTCGATGTATGGAA
64 TATCTAGGACACGGCATCAGCCTCGATGTATGCAA
* **
21029942 G-TCAGTGTAAGACCTATCTCAGACATGGCATC
1 GCT-AGTGTAAGACCTGTCTGGGACATGGCATC
21029974 AACTTAGATG
Statistics
Matches: 113, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
97 4 0.04
98 108 0.96
99 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.21
Consensus pattern (98 bp):
GCTAGTGTAAGACCTGTCTGGGACATGGCATCGAAACCAATAGATGAGAGCCAATGCAAGACCTA
TCTAGGACACGGCATCAGCCTCGATGTATGCAA
Found at i:21029954 original size:49 final size:47
Alignment explanation
Indices: 21029797--21029973 Score: 144
Period size: 49 Copynumber: 3.6 Consensus size: 47
21029787 AGATGAGAGC
* * *
21029797 CAGTGTAAGACCTATCTGGGACACGGCATCGGCCTCGAGATATGCAAG
1 CAGTGTAAGACCTATCTAGGACATGGCATC-GCCTCGAGATATGGAAG
* * * * *
21029845 CTAGTGTAAGACCTGTCTGGGACATGGCATCGGCAC-AGATAAGTGAGAG
1 C-AGTGTAAGACCTATCTAGGACATGGCATCGCCTCGAGATATG-GA-AG
* * * *
21029894 CCAATGCAAGACCTGTCTAGGACATGGCGTCAGCCTCGATG-TATGGAAG
1 -CAGTGTAAGACCTATCTAGGACATGGCATC-GCCTCGA-GATATGGAAG
21029943 TCAGTGTAAGACCTATCTCA-GACATGGCATC
1 -CAGTGTAAGACCTATCT-AGGACATGGCATC
21029974 AACTTAGATG
Statistics
Matches: 103, Mismatches: 18, Indels: 15
0.76 0.13 0.11
Matches are distributed among these distances:
47 6 0.06
48 5 0.05
49 80 0.78
50 7 0.07
51 4 0.04
52 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.21
Consensus pattern (47 bp):
CAGTGTAAGACCTATCTAGGACATGGCATCGCCTCGAGATATGGAAG
Found at i:21031487 original size:26 final size:26
Alignment explanation
Indices: 21031440--21031500 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
21031430 ATATTTTTCA
21031440 CAAAATTTTATCAAGGGAAAAATCGT
1 CAAAATTTTATCAAGGGAAAAATCGT
* * *
21031466 TAAATTTTTAT-AATGGGTAAAATCGT
1 CAAAATTTTATCAA-GGGAAAAATCGT
21031492 CAAAATTTT
1 CAAAATTTT
21031501 GTTGAGGGTA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
25 2 0.07
26 27 0.93
ACGTcount: A:0.43, C:0.08, G:0.13, T:0.36
Consensus pattern (26 bp):
CAAAATTTTATCAAGGGAAAAATCGT
Found at i:21037110 original size:16 final size:16
Alignment explanation
Indices: 21037083--21037120 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
21037073 CTAATCGAGA
21037083 AAGAAG-AAAACGAAG
1 AAGAAGAAAAACGAAG
*
21037098 GAGAAGAAAAACGAAG
1 AAGAAGAAAAACGAAG
21037114 AAGAAGA
1 AAGAAGA
21037121 GAAGTTCGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 5 0.25
16 15 0.75
ACGTcount: A:0.66, C:0.05, G:0.29, T:0.00
Consensus pattern (16 bp):
AAGAAGAAAAACGAAG
Found at i:21037920 original size:63 final size:63
Alignment explanation
Indices: 21037821--21037946 Score: 216
Period size: 63 Copynumber: 2.0 Consensus size: 63
21037811 AACATGCGTA
* *
21037821 GGATCAGAGCGGTAGCGTCTCAACATCGAGACGTGGAACACATCATGTATACGGTCTAACTCT
1 GGATCAGAGCAGTAGCATCTCAACATCGAGACGTGGAACACATCATGTATACGGTCTAACTCT
* *
21037884 GGATCAGAGCAGTAGCATCTCAACATTGAGACGTGGAACACATCATGTATCCGGTCTAACTCT
1 GGATCAGAGCAGTAGCATCTCAACATCGAGACGTGGAACACATCATGTATACGGTCTAACTCT
21037947 AGAGGTAGCT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
63 59 1.00
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.23
Consensus pattern (63 bp):
GGATCAGAGCAGTAGCATCTCAACATCGAGACGTGGAACACATCATGTATACGGTCTAACTCT
Found at i:21044244 original size:13 final size:14
Alignment explanation
Indices: 21044206--21044259 Score: 56
Period size: 15 Copynumber: 3.9 Consensus size: 14
21044196 ACAACTAATC
21044206 GAAAAAGAAGAAAA
1 GAAAAAGAAGAAAA
**
21044220 TGAAGGAGAAGAAAA
1 -GAAAAAGAAGAAAA
* *
21044235 G-CAAAGAAGAAGA
1 GAAAAAGAAGAAAA
21044248 GAAAAAGAAGAA
1 GAAAAAGAAGAA
21044260 GAAAAGTTCG
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
13 9 0.29
14 10 0.32
15 12 0.39
ACGTcount: A:0.69, C:0.02, G:0.28, T:0.02
Consensus pattern (14 bp):
GAAAAAGAAGAAAA
Found at i:21050350 original size:9 final size:9
Alignment explanation
Indices: 21050332--21050363 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
21050322 AAATTTAGAG
*
21050332 TTCTTTTAT
1 TTCTTCTAT
21050341 TTCTTCTAT
1 TTCTTCTAT
21050350 TTCTTCTAT
1 TTCTTCTAT
21050359 TTCTT
1 TTCTT
21050364 TGTTCTCTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.09, C:0.19, G:0.00, T:0.72
Consensus pattern (9 bp):
TTCTTCTAT
Found at i:21062559 original size:30 final size:30
Alignment explanation
Indices: 21062523--21062585 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
21062513 ACTTAACGAG
21062523 CAAATGCCTCTAAAATAATAA-AAAATTTAA
1 CAAATGCCTCTAAAATAATAACAAAA-TTAA
*
21062553 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
21062583 CAA
1 CAA
21062586 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 27 0.87
31 4 0.13
ACGTcount: A:0.57, C:0.14, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:21064492 original size:40 final size:40
Alignment explanation
Indices: 21064418--21064599 Score: 289
Period size: 40 Copynumber: 4.6 Consensus size: 40
21064408 AACCCAAGTA
*
21064418 CCTTCGGGAT-TTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGG-TCTTAGCCCGGATATAGTC-ACTAGCACAAATG
21064457 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
*
21064497 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
21064537 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
**
21064577 CCTTCGGGAATTAGCCCGGATAT
1 CCTTCGGGTCTTAGCCCGGATAT
21064600 CATCCGAATA
Statistics
Matches: 135, Mismatches: 5, Indels: 5
0.93 0.03 0.03
Matches are distributed among these distances:
38 1 0.01
39 12 0.09
40 121 0.90
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:21068394 original size:43 final size:43
Alignment explanation
Indices: 21068342--21068430 Score: 178
Period size: 43 Copynumber: 2.1 Consensus size: 43
21068332 TTATTTAGTG
21068342 ATTGAATAAGTGTATTTTTCTATTATAGATCAAGAAATACCGA
1 ATTGAATAAGTGTATTTTTCTATTATAGATCAAGAAATACCGA
21068385 ATTGAATAAGTGTATTTTTCTATTATAGATCAAGAAATACCGA
1 ATTGAATAAGTGTATTTTTCTATTATAGATCAAGAAATACCGA
21068428 ATT
1 ATT
21068431 CGAACCTAGA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.38
Consensus pattern (43 bp):
ATTGAATAAGTGTATTTTTCTATTATAGATCAAGAAATACCGA
Found at i:21068837 original size:46 final size:46
Alignment explanation
Indices: 21068685--21068892 Score: 222
Period size: 46 Copynumber: 4.5 Consensus size: 46
21068675 GGGTTAATGT
* * * **
21068685 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGGCACATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGA
* * *
21068731 GAGCCCGTGTAAGACCATGTCTGGGACATTGCATCGGCATCGAGATGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACA-TGCATCGGCCTCAAGATGA
* * * *
21068779 GTGCTAGTGTAAGACATGTCTGGGACATGCATTGGCCTCAAGACGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATG-A
*
21068826 -AGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CAAGATGA
* *
21068871 TAGTCAGTGTAAGACCATGTCT
1 GAGCCAGTGTAAGA-CATGTCT
21068893 AAGACATGGC
Statistics
Matches: 135, Mismatches: 21, Indels: 11
0.81 0.13 0.07
Matches are distributed among these distances:
45 3 0.02
46 74 0.55
47 34 0.25
48 24 0.18
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.24
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGA
Found at i:21068915 original size:47 final size:48
Alignment explanation
Indices: 21068826--21068952 Score: 145
Period size: 47 Copynumber: 2.7 Consensus size: 48
21068816 TCAAGACGTA
* **
21068826 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGATGAT-
1 AGCCAGTGTAAGACCATGTCTAGGACATGGCATCAACTACGAGAT-ATG
* * *
21068872 AGTCAGTGTAAGACCATGTCTAAGACATGGCATCAACT-TGAGATATG
1 AGCCAGTGTAAGACCATGTCTAGGACATGGCATCAACTACGAGATATG
* *
21068919 AGCCAATATAAGACCATGTCTAGGACATGGCATC
1 AGCCAGTGTAAGACCATGTCTAGGACATGGCATC
21068953 GGCACCTTAC
Statistics
Matches: 68, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
46 14 0.21
47 47 0.69
48 7 0.10
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (48 bp):
AGCCAGTGTAAGACCATGTCTAGGACATGGCATCAACTACGAGATATG
Found at i:21068945 original size:140 final size:140
Alignment explanation
Indices: 21068690--21068947 Score: 317
Period size: 140 Copynumber: 1.8 Consensus size: 140
21068680 AATGTGAGCT
* * **
21068690 AGTGTAAGACATGTCTGGGACATGCATCGGGCACATTATGAGAGCCCGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGGCACATGATGAGAGCCAGTGTAAGACCATGTCTAA
* ** * * * * *
21068755 GACATTGCATCGGCATCGAGATGAGTGCTAGTGTAAGACATGTCTGGGACATGCATTGGCCTCAA
66 GACATGGCATCAACATCGAGATGAGAGCCAATATAAGACATGTCTAGGACATGCATTGGCCTCAA
21068820 GACGTAAGCC
131 GACGTAAGCC
* *
21068830 AGTGTAAGACATGTCTGGGACATGCATC-GGCTACGA-GATGATAGTCAGTGTAAGACCATGTCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGGC-AC-ATGATGAGAGCCAGTGTAAGACCATGTCT
*
21068893 AAGACATGGCATCAAC-TTGAGAT-ATGAGCCAATATAAGACCATGTCTAGGACATG
64 AAGACATGGCATCAACATCGAGATGA-GAGCCAATATAAGA-CATGTCTAGGACATG
21068948 GCATCGGCAC
Statistics
Matches: 99, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
138 1 0.01
139 19 0.19
140 78 0.79
141 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.23
Consensus pattern (140 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGGCACATGATGAGAGCCAGTGTAAGACCATGTCTAA
GACATGGCATCAACATCGAGATGAGAGCCAATATAAGACATGTCTAGGACATGCATTGGCCTCAA
GACGTAAGCC
Found at i:21070517 original size:14 final size:14
Alignment explanation
Indices: 21070498--21070529 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
21070488 AGGTCATTTA
21070498 GCCCAACCAAACGG
1 GCCCAACCAAACGG
*
21070512 GCCCAACCAAACTG
1 GCCCAACCAAACGG
21070526 GCCC
1 GCCC
21070530 GGTGATTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.31, C:0.47, G:0.19, T:0.03
Consensus pattern (14 bp):
GCCCAACCAAACGG
Found at i:21075642 original size:14 final size:14
Alignment explanation
Indices: 21075623--21075654 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
21075613 AGGTCATTTA
21075623 GCCCAACCAAACGG
1 GCCCAACCAAACGG
*
21075637 GCCCAACCAAACTG
1 GCCCAACCAAACGG
21075651 GCCC
1 GCCC
21075655 GGTGATTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.31, C:0.47, G:0.19, T:0.03
Consensus pattern (14 bp):
GCCCAACCAAACGG
Found at i:21081783 original size:30 final size:30
Alignment explanation
Indices: 21081749--21081805 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
21081739 ATTTTCGAGC
* *
21081749 CTAGGGGTAAAATGGTCGTTTTGTCAAGGT
1 CTAGGGGCAAAATGGTCATTTTGTCAAGGT
*
21081779 CTAGGGGCAAAATGGTCATTTTTTCAA
1 CTAGGGGCAAAATGGTCATTTTGTCAA
21081806 AGAAGTGAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33
Consensus pattern (30 bp):
CTAGGGGCAAAATGGTCATTTTGTCAAGGT
Found at i:21082336 original size:46 final size:44
Alignment explanation
Indices: 21082147--21082362 Score: 173
Period size: 46 Copynumber: 4.6 Consensus size: 44
21082137 AATGTGAGCT
* * * * * *
21082147 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCTAGA-GACGATA-CC
* * * * *
21082193 CGTGTAAGACCATGTCGGGGACATGGCATCAGCATCGAGACGAGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGC-TAGAGACGA-TACC
* *
21082241 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCA-AGACGTATGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAG-CT-AGAGACG-ATACC
*
21082287 AGTGTAAGACATGTCTGGGACATGCATCAGCTATGAGATGATACTC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCTA-GAGACGATAC-C
*
21082333 AGTGTAAGACCATGTCTAGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
21082363 GACTTGAGAT
Statistics
Matches: 138, Mismatches: 20, Indels: 22
0.77 0.11 0.12
Matches are distributed among these distances:
44 1 0.01
45 5 0.04
46 66 0.48
47 41 0.30
48 24 0.17
49 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCTAGAGACGATACC
Found at i:21082362 original size:94 final size:93
Alignment explanation
Indices: 21082145--21082363 Score: 270
Period size: 94 Copynumber: 2.3 Consensus size: 93
21082135 TTAATGTGAG
*
21082145 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCCGTGTAAGACCATGTCG
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCACA-TATGAGAGCCAGTGTAAGACCATGTCG
*
21082210 GGGACATGGCATCAGCATCGAGACGAGTG
65 GGGACATGGCATCAGCATCGAGACGAGTA
*
21082239 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCA-A-GACGTATGCCAGTGTAAGA-CATGT
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATATGA-G-A-GCCAGTGTAAGACCATGT
* *
21082301 CTGGGACAT-GCATCAGCTAT-GAGATGA-TA
63 CGGGGACATGGCATCAGC-ATCGAGACGAGTA
*
21082330 CTCAGTGTAAGACCATGTCTAGGACATGGCATCG
1 CT-AGTGTAAGA-CATGTCTGGGACAT-GCATCG
21082364 ACTTGAGATA
Statistics
Matches: 112, Mismatches: 6, Indels: 14
0.85 0.05 0.11
Matches are distributed among these distances:
91 5 0.04
92 25 0.22
93 29 0.26
94 53 0.47
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.22
Consensus pattern (93 bp):
CTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATATGAGAGCCAGTGTAAGACCATGTCGG
GGACATGGCATCAGCATCGAGACGAGTA
Found at i:21082402 original size:140 final size:141
Alignment explanation
Indices: 21082147--21082412 Score: 301
Period size: 140 Copynumber: 1.9 Consensus size: 141
21082137 AATGTGAGCT
* * * *
21082147 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCCGTGTAAGACCATGTCGGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATGAGAGCCAGTGTAAGACCATGTCGAG
* * * *
21082212 GACATGGCATCAGCATCGAGACGAGTGCTAGTGTAAGACATGTCTGGGACA-TGCATCGGCCTCA
66 GACATGGCATCAGCATCGAGACGAGAGCCAATGTAAGACATGTCTGGGACATTACATCGGCCTCA
21082276 AGACGTATGCC
131 AGACGTATGCC
* * * *
21082287 AGTGTAAGACATGTCTGGGACATGCATCAGCTATGA-GATGATA-CTCAGTGTAAGACCATGTCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCA-CATGATGAGAGC-CAGTGTAAGACCATGTCG
* * * *
21082350 AGGACATGGCATC-G-ACTTGAGA-TATGAGCCAATGTATGATCATGTCTTGGACATTACATCGG
64 AGGACATGGCATCAGCA-TCGAGACGA-GAGCCAATGTAAGA-CATGTCTGGGACATTACATCGG
21082412 C
126 C
21082413 ACCTTACCCC
Statistics
Matches: 104, Mismatches: 16, Indels: 11
0.79 0.12 0.08
Matches are distributed among these distances:
138 2 0.02
139 17 0.16
140 76 0.73
141 9 0.09
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.24
Consensus pattern (141 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATGAGAGCCAGTGTAAGACCATGTCGAG
GACATGGCATCAGCATCGAGACGAGAGCCAATGTAAGACATGTCTGGGACATTACATCGGCCTCA
AGACGTATGCC
Found at i:21083589 original size:20 final size:21
Alignment explanation
Indices: 21083550--21083589 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
21083540 GTGGAAATGG
*
21083550 CTACACGGGCATGTTGCCCTT
1 CTACACGAGCATGTTGCCCTT
*
21083571 CTACACGAGCGTG-TGCCCT
1 CTACACGAGCATGTTGCCCT
21083590 ATTTCAAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.15, C:0.35, G:0.25, T:0.25
Consensus pattern (21 bp):
CTACACGAGCATGTTGCCCTT
Found at i:21083861 original size:3 final size:3
Alignment explanation
Indices: 21083853--21083878 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
21083843 AACCCACAAA
21083853 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
21083879 ACCCAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:21089809 original size:15 final size:16
Alignment explanation
Indices: 21089794--21089824 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21089784 ATATGATAAA
21089794 TAAAATTTAAAAAAAT
1 TAAAATTTAAAAAAAT
*
21089810 TGAAATTTAAAAAAA
1 TAAAATTTAAAAAAA
21089825 AACTATATTT
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:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (16 bp):
TAAAATTTAAAAAAAT
Found at i:21097067 original size:14 final size:14
Alignment explanation
Indices: 21097043--21097069 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
21097033 AATTTTATGC
21097043 TTTTTATTTTTTTA
1 TTTTTATTTTTTTA
21097057 TTTTTATTTTTTT
1 TTTTTATTTTTTT
21097070 TAGGCACGAG
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:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (14 bp):
TTTTTATTTTTTTA
Found at i:21100656 original size:15 final size:15
Alignment explanation
Indices: 21100638--21100667 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
21100628 TTTCTCAATA
21100638 TTGGATCTCTTTATT
1 TTGGATCTCTTTATT
*
21100653 TTGGATCTTTTTATT
1 TTGGATCTCTTTATT
21100668 CTAGGTTTCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.10, G:0.13, T:0.63
Consensus pattern (15 bp):
TTGGATCTCTTTATT
Found at i:21102396 original size:10 final size:9
Alignment explanation
Indices: 21102373--21102398 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
21102363 TTTGGTGTTG
21102373 GTTTTTGAT
1 GTTTTTGAT
21102382 GTTTTTGAT
1 GTTTTTGAT
21102391 GTTTTTGA
1 GTTTTTGA
21102399 GGTTCTTAAA
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:0.12, C:0.00, G:0.23, T:0.65
Consensus pattern (9 bp):
GTTTTTGAT
Found at i:21106879 original size:8 final size:8
Alignment explanation
Indices: 21106866--21106909 Score: 56
Period size: 8 Copynumber: 5.6 Consensus size: 8
21106856 GTAACACCCC
21106866 AAAATTTT
1 AAAATTTT
21106874 AAAA-TTT
1 AAAATTTT
*
21106881 -GAATTGTT
1 AAAATT-TT
21106889 AAAATTTT
1 AAAATTTT
21106897 AAAATTTT
1 AAAATTTT
21106905 AAAAT
1 AAAAT
21106910 GGGCATTGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
6 2 0.06
7 4 0.13
8 21 0.68
9 4 0.13
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (8 bp):
AAAATTTT
Found at i:21115309 original size:28 final size:28
Alignment explanation
Indices: 21115255--21115317 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
21115245 AAAGGCATCC
21115255 AAAAAGAAAAACAAAAGTACAAAAATAGA
1 AAAAAGAAAAACAAAAG-ACAAAAATAGA
**
21115284 AAAAAGAAAAGGAAAAG-CAAACAATAGA
1 AAAAAGAAAAACAAAAGACAAA-AATAGA
*
21115312 ACAAAG
1 AAAAAG
21115318 GTCATAGTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
27 4 0.13
28 11 0.37
29 15 0.50
ACGTcount: A:0.73, C:0.08, G:0.14, T:0.05
Consensus pattern (28 bp):
AAAAAGAAAAACAAAAGACAAAAATAGA
Found at i:21117018 original size:64 final size:64
Alignment explanation
Indices: 21116939--21117120 Score: 328
Period size: 64 Copynumber: 2.8 Consensus size: 64
21116929 ATATCACATT
*
21116939 TAGTTAGGAGTATTTGACTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCATCTCATC
1 TAGTTAGGAGCATTTGACTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCATCTCATC
* *
21117003 TAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTGTTTGACATAAGCATCTCATC
1 TAGTTAGGAGCATTTGACTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCATCTCATC
*
21117067 TAGTTAGGAGCATTTGACTCATTTCGATCATAGCATCCTAATTATTTGGCATAA
1 TAGTTAGGAGCATTTGACTCATTTCGATCATAGCATCCTAATTATTTGACATAA
21117121 TCATAGACAT
Statistics
Matches: 112, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 112 1.00
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.37
Consensus pattern (64 bp):
TAGTTAGGAGCATTTGACTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCATCTCATC
Found at i:21117508 original size:177 final size:178
Alignment explanation
Indices: 21117189--21117730 Score: 557
Period size: 177 Copynumber: 3.1 Consensus size: 178
21117179 CGGTGAAGTC
* * * *
21117189 AAGTCTTATCTCCCTGAGGTTGCAGTGGAACAGACTAAAGATTGCAAG-TCTTATTTCCCTAAGC
1 AAGTCTTATCT-CCTGAGGTTGAAGTAGAGCAGACTAAAGATTG-AAGATCTTATCTCCCTAAGC
* * * * * * * * * *
21117253 AGTAGTGGAACAGACTAAAGACGACAAATCTTATCTCCATGTACCGGCAATGAAGCAGA-TTTAT
64 AGTAGCGGAGCAGATTGAAGATGGCGAATCTTATCTCCATGCACAGGCAATGGAGCAGATTTTA-
* * * * * *
21117317 GTCAC-CAGCCTTATCTCCCTGAA-GTTGC-AGTGGAGCAGGCTCAATAT-AT
128 GCCACTGA-CCTTATCTCTCTGAAGGTAGCAAG-AGAGCAGGCTCAAGATGAT
* * * *
21117366 AAGTCTTATCTCCTTGATGTTGTAGTAGAGCAGATTAAAGATTGAAGATCTTATCTCCCTCAGCA
1 AAGTCTTATCTCC-TGAGGTTGAAGTAGAGCAGACTAAAGATTGAAGATCTTATCTCCCTAAGCA
* * * *
21117431 GTAGCGGAGCAGATTGAGGATGGTGAATCTTATCTCCATGCACAGGCAATGGAGAAAATTTTAGC
65 GTAGCGGAGCAGATTGAAGATGGCGAATCTTATCTCCATGCACAGGCAATGGAGCAGATTTTAGC
* *
21117496 CACTGACCTTATCTCTCT-AAGGTAGCAAGAGAGCAGGTTGAAGATGAT
130 CACTGACCTTATCTCTCTGAAGGTAGCAAGAGAGCAGGCTCAAGATGAT
* * *
21117544 -AGTCTTATCTTCCTGAGGTTGCAAGGA-AGCAGACTGAAGATTGAAGATCTTATCTCCCTAAAC
1 AAGTCTTATC-TCCTGAGGTTG-AAGTAGAGCAGACTAAAGATTGAAGATCTTATCTCCCTAAGC
* * *
21117607 AGTAGCGGAGCAGATCGAAGATGGCGAATCTTCTCTCCACGCACAGGCAATGGAGCAGATTTTAG
64 AGTAGCGGAGCAGATTGAAGATGGCGAATCTTATCTCCATGCACAGGCAATGGAGCAGATTTTAG
* * * * * *
21117672 CCACTGGCCTTATCTCTCTG-AGGTAACAAGAGAGTAGGTTGAAGATGGT
129 CCACTGACCTTATCTCTCTGAAGGTAGCAAGAGAGCAGGCTCAAGATGAT
21117721 -AGTCTTATCT
1 AAGTCTTATCT
21117731 TACTAAGGTA
Statistics
Matches: 308, Mismatches: 47, Indels: 21
0.82 0.12 0.06
Matches are distributed among these distances:
176 8 0.03
177 285 0.93
178 15 0.05
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (178 bp):
AAGTCTTATCTCCTGAGGTTGAAGTAGAGCAGACTAAAGATTGAAGATCTTATCTCCCTAAGCAG
TAGCGGAGCAGATTGAAGATGGCGAATCTTATCTCCATGCACAGGCAATGGAGCAGATTTTAGCC
ACTGACCTTATCTCTCTGAAGGTAGCAAGAGAGCAGGCTCAAGATGAT
Found at i:21117731 original size:177 final size:177
Alignment explanation
Indices: 21117394--21117768 Score: 570
Period size: 177 Copynumber: 2.1 Consensus size: 177
21117384 GTTGTAGTAG
* * * * * * *
21117394 AGCAGATTAAAGATTGAAGATCTTATCTCCCTCAGCAGTAGCGGAGCAGATTGAGGATGGTGAAT
1 AGCAGACTGAAGATTGAAGATCTTATCTCCCTAAACAGTAGCGGAGCAGATCGAAGATGGCGAAT
* *
21117459 CTTATCTCCATGCACAGGCAATGGAGAAAATTTTAGCCACTGACCTTATCTCTCTAAGGTAGCAA
66 CTTATCTCCACGCACAGGCAATGGAGAAAATTTTAGCCACTGACCTTATCTCTCTAAGGTAACAA
* * *
21117524 GAGAGCAGGTTGAAGATGATAGTCTTATCTTCCTGAGGTTGCAAGGA
131 GAGAGCAGGTTGAAGATGATAGTCTTATCTTACTAAGGTAGCAAGGA
21117571 AGCAGACTGAAGATTGAAGATCTTATCTCCCTAAACAGTAGCGGAGCAGATCGAAGATGGCGAAT
1 AGCAGACTGAAGATTGAAGATCTTATCTCCCTAAACAGTAGCGGAGCAGATCGAAGATGGCGAAT
* * * * *
21117636 CTTCTCTCCACGCACAGGCAATGGAGCAGATTTTAGCCACTGGCCTTATCTCTCTGAGGTAACAA
66 CTTATCTCCACGCACAGGCAATGGAGAAAATTTTAGCCACTGACCTTATCTCTCTAAGGTAACAA
* *
21117701 GAGAGTAGGTTGAAGATGGTAGTCTTATCTTACTAAGGTAGCAAGGA
131 GAGAGCAGGTTGAAGATGATAGTCTTATCTTACTAAGGTAGCAAGGA
*
21117748 AACAGACTGAAGATTGAAGAT
1 AGCAGACTGAAGATTGAAGAT
21117769 TGGAAGAGGC
Statistics
Matches: 178, Mismatches: 20, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
177 178 1.00
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.25
Consensus pattern (177 bp):
AGCAGACTGAAGATTGAAGATCTTATCTCCCTAAACAGTAGCGGAGCAGATCGAAGATGGCGAAT
CTTATCTCCACGCACAGGCAATGGAGAAAATTTTAGCCACTGACCTTATCTCTCTAAGGTAACAA
GAGAGCAGGTTGAAGATGATAGTCTTATCTTACTAAGGTAGCAAGGA
Found at i:21117906 original size:43 final size:45
Alignment explanation
Indices: 21117827--21117922 Score: 115
Period size: 43 Copynumber: 2.2 Consensus size: 45
21117817 AGCCTCAAGC
* ***
21117827 CTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTG-AG-T
1 CTTATCTCTCTGAGGTAGCAAGAAAGCAGACGGAAGATTGAAGAT
* * *
21117870 CTTATCTTTCTGAGGTAGTAAGAAAGGAGACGGAAGATTGAAGAT
1 CTTATCTCTCTGAGGTAGCAAGAAAGCAGACGGAAGATTGAAGAT
21117915 CTTATCTC
1 CTTATCTC
21117923 CCTAAGCAGT
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
43 33 0.77
44 2 0.05
45 8 0.19
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (45 bp):
CTTATCTCTCTGAGGTAGCAAGAAAGCAGACGGAAGATTGAAGAT
Found at i:21118104 original size:177 final size:177
Alignment explanation
Indices: 21117771--21118529 Score: 961
Period size: 177 Copynumber: 4.3 Consensus size: 177
21117761 TTGAAGATTG
* * * * * * * *
21117771 GAAGA-GGCAAATCTCATCTCTATGTATCGGCAATTGAGCAAATTTAAGCCTCAAGCCTTATCTC
1 GAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCACTAGCCTTATCTC
* * * *
21117835 TCTGAGGTAGCAAGAGAGCAGGTTGAAGATTG-AGTCTTATCTTTCTGAGGTAGTAAGAAAGGAG
66 TCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAG
* * *
21117899 ACGGAAGATTGAAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATC
131 ACTGAAAATTGAAGATCTTATCTCCCTAAGCAGTAGCAGAGCAGATC
*
21117946 GAAGATGGCAAATCTTATCTCCATGTA-CAGGCAATGGAGCAGATTTTAGCCACTAGCCTTATCT
1 GAAGATGGCGAATCTTATCTCCATGTATC-GGCAATGGAGCAGATTTTAGCCACTAGCCTTATCT
* * ** *
21118010 CTCTGAAGTAGCAAGAGAGTAGGTTGGCGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGTA
65 CTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCA
* * *
21118075 GACTGAAAATTGTAGATCTTATCTCCCTAAGTAATAGCAGAGCAGATC
130 GACTGAAAATTGAAGATCTTATCTCCCTAAGCAGTAGCAGAGCAGATC
* * * * *
21118123 GAAGATGGCGAATCTTATCTCCATGTA-CAGGCAATGGAGAAAATTTTAGCCATTGGTCTTATCT
1 GAAGATGGCGAATCTTATCTCCATGTATC-GGCAATGGAGCAGATTTTAGCCACTAGCCTTATCT
* *
21118187 CTCTGAGGTAGCAAGAGAGCAGGTTGAAGATGGTAGTCTTATCTTTCTGAGGTAGCAAGGAAGCA
65 CTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCA
* * *
21118252 GACTGAAGATTGTAGATTTTATCTCCCTAAGCAGTAGCAGAGCAGATC
130 GACTGAAAATTGAAGATCTTATCTCCCTAAGCAGTAGCAGAGCAGATC
* * * *
21118300 GAAGATGGTGAATCTTATCTTCATGTATCGACAATGGAGTAGATTTTAGCCACTAGCCTTATCTC
1 GAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCACTAGCCTTATCTC
* ** ** *
21118365 TTTGAGGTAGCAAGAGAATAGGTTGGCGATTGTAGCCTTATCTTCCTGAGGTAGCAAGGAAGCAG
66 TCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAG
* * * **
21118430 A-TTAAAGATTGAAAATCTTATCTCCCTAAGCAGTTGTGGAGCAGATC
131 ACTGAAA-ATTGAAGATCTTATCTCCCTAAGCAGTAGCAGAGCAGATC
* * * * * *
21118477 GAGGATGGCGAATTTTATCTCTATGTATCGGGAATGGAGTAGATTTAAGCCAC
1 GAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCAC
21118530 CAGTCCTATT
Statistics
Matches: 509, Mismatches: 70, Indels: 8
0.87 0.12 0.01
Matches are distributed among these distances:
175 6 0.01
176 81 0.16
177 421 0.83
178 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (177 bp):
GAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCACTAGCCTTATCTC
TCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAG
ACTGAAAATTGAAGATCTTATCTCCCTAAGCAGTAGCAGAGCAGATC
Found at i:21118226 original size:44 final size:44
Alignment explanation
Indices: 21118178--21118276 Score: 128
Period size: 44 Copynumber: 2.2 Consensus size: 44
21118168 TTAGCCATTG
**
21118178 GTCTTATCTCTCTGAGGTAGCAA-GAGAGCAGGTTGAAGATGGTA
1 GTCTTATCTCTCTGAGGTAGCAAGGA-AGCAGACTGAAGATGGTA
* *
21118222 GTCTTATCTTTCTGAGGTAGCAAGGAAGCAGACTGAAGATTGTA
1 GTCTTATCTCTCTGAGGTAGCAAGGAAGCAGACTGAAGATGGTA
*
21118266 GATTTTATCTC
1 G-TCTTATCTC
21118277 CCTAAGCAGT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
44 38 0.81
45 9 0.19
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.31
Consensus pattern (44 bp):
GTCTTATCTCTCTGAGGTAGCAAGGAAGCAGACTGAAGATGGTA
Found at i:21123042 original size:24 final size:24
Alignment explanation
Indices: 21123015--21123062 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
21123005 GATTTTTGTG
*
21123015 ATTAGTCCGTTGGAATCTCAAGGT
1 ATTAGTCCGTTGGAAACTCAAGGT
21123039 ATTAGTCCGTTGGAAACTCAAGGT
1 ATTAGTCCGTTGGAAACTCAAGGT
21123063 GTTATGTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (24 bp):
ATTAGTCCGTTGGAAACTCAAGGT
Found at i:21123535 original size:25 final size:25
Alignment explanation
Indices: 21123507--21123558 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
21123497 TTTGGCTTGA
**
21123507 CATTTACTAAGCAATATCGGATATT
1 CATTTACTAAGCAATATCAAATATT
* *
21123532 CATTTATTAGGCAATATCAAATATT
1 CATTTACTAAGCAATATCAAATATT
21123557 CA
1 CA
21123559 AATTATTCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (25 bp):
CATTTACTAAGCAATATCAAATATT
Found at i:21133748 original size:3 final size:3
Alignment explanation
Indices: 21133740--21133769 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
21133730 ATTTCAGAGC
*
21133740 AAG AAG AAG AAG AAA AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
21133770 CTAAATGCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:21134525 original size:16 final size:16
Alignment explanation
Indices: 21134464--21134531 Score: 91
Period size: 16 Copynumber: 4.2 Consensus size: 16
21134454 TGGTTCACTA
* * *
21134464 TAATGGAATAGGGTTA
1 TAATGGAATAGAGCTG
* *
21134480 TAATTGAATAGAGTTG
1 TAATGGAATAGAGCTG
21134496 TAATGGAATAGAGCTG
1 TAATGGAATAGAGCTG
21134512 TAATGGAATAGAGCTG
1 TAATGGAATAGAGCTG
21134528 TAAT
1 TAAT
21134532 CAGTAATTCA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.38, C:0.03, G:0.28, T:0.31
Consensus pattern (16 bp):
TAATGGAATAGAGCTG
Found at i:21134606 original size:44 final size:46
Alignment explanation
Indices: 21134513--21134606 Score: 120
Period size: 44 Copynumber: 2.1 Consensus size: 46
21134503 ATAGAGCTGT
* *
21134513 AATGGAATAGAGCTGTAATCAGTAATTCAACTATTTGGTTGAATAG
1 AATGGAATAGAGCTGTAATCAGTAATTCAACTATTTAGTTAAATAG
*** *
21134559 AATGGAATAGAGCTGTAAT-AG-AATTCTTGTATTTAGTTAAATGG
1 AATGGAATAGAGCTGTAATCAGTAATTCAACTATTTAGTTAAATAG
21134603 AATG
1 AATG
21134607 ATGTTGTAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
44 21 0.50
45 2 0.05
46 19 0.45
ACGTcount: A:0.37, C:0.06, G:0.22, T:0.34
Consensus pattern (46 bp):
AATGGAATAGAGCTGTAATCAGTAATTCAACTATTTAGTTAAATAG
Found at i:21134708 original size:25 final size:26
Alignment explanation
Indices: 21134675--21134725 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
21134665 GTTGGTAGAT
*
21134675 GATTATTGTT-ATTAAATTTTAATAA
1 GATTATTGTTAAATAAATTTTAATAA
*
21134700 GATTATTGTTAAATATATTTTAATAA
1 GATTATTGTTAAATAAATTTTAATAA
21134726 AAATAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (26 bp):
GATTATTGTTAAATAAATTTTAATAA
Found at i:21134839 original size:13 final size:13
Alignment explanation
Indices: 21134811--21134884 Score: 86
Period size: 13 Copynumber: 6.1 Consensus size: 13
21134801 TAATAACATA
*
21134811 ATTAAT-ATAATT
1 ATTAATAATATTT
21134823 ATTAATAATATTT
1 ATTAATAATATTT
21134836 ATTAATAAT-TTT
1 ATTAATAATATTT
* *
21134848 AAT-ATAA-AATT
1 ATTAATAATATTT
21134859 ATTAATAATATTT
1 ATTAATAATATTT
21134872 ATTAATAAT-TTT
1 ATTAATAATATTT
21134884 A
1 A
21134885 ATATAAAATT
Statistics
Matches: 53, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
11 8 0.15
12 19 0.36
13 26 0.49
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
ATTAATAATATTT
Found at i:21134859 original size:36 final size:36
Alignment explanation
Indices: 21134812--21134898 Score: 160
Period size: 36 Copynumber: 2.5 Consensus size: 36
21134802 AATAACATAA
21134812 TTAATAT--AATTATTAATAATATTTATTAATAATT
1 TTAATATAAAATTATTAATAATATTTATTAATAATT
21134846 TTAATATAAAATTATTAATAATATTTATTAATAATT
1 TTAATATAAAATTATTAATAATATTTATTAATAATT
21134882 TTAATATAAAATTATTA
1 TTAATATAAAATTATTA
21134899 TTAAGAACAT
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
34 7 0.14
36 44 0.86
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (36 bp):
TTAATATAAAATTATTAATAATATTTATTAATAATT
Found at i:21135155 original size:58 final size:58
Alignment explanation
Indices: 21135022--21135157 Score: 177
Period size: 58 Copynumber: 2.3 Consensus size: 58
21135012 TATTATTATT
* *
21135022 AAATTTTAATA-AGATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAATC
1 AAATTTTAATATA-ATTATTACTAAAAATAATTTAATAAAAATAATAAATAATTTAATA
* * * * *
21135080 ATATTTTAACATGATTATTACTAAATATAATTTAAT-AAAATAATATATAATTTAATA
1 AAATTTTAATATAATTATTACTAAAAATAATTTAATAAAAATAATAAATAATTTAATA
21135137 AAATTCTTAATATAATTATTA
1 AAATT-TTAATATAATTATTA
21135158 TTATATGAAT
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
57 23 0.35
58 43 0.65
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (58 bp):
AAATTTTAATATAATTATTACTAAAAATAATTTAATAAAAATAATAAATAATTTAATA
Found at i:21149001 original size:41 final size:41
Alignment explanation
Indices: 21148933--21149156 Score: 263
Period size: 41 Copynumber: 5.4 Consensus size: 41
21148923 ATTACTCGAT
* * *
21148933 ATCTCGCACACTAAGTGCCA-AAGCATAGTCGAAACTATTATA
1 ATCTCGCACACTAAGTG-CATTA-CATAGCCGAAGCTATTATA
* ** * *
21148975 ATTTCTTACACTCAGTGCGTTACATAGCCGAAGCTATTATA
1 ATCTCGCACACTAAGTGCATTACATAGCCGAAGCTATTATA
*
21149016 ATCTCGCACACTAATTGCATTACATAGCCGAAGCTATTATA
1 ATCTCGCACACTAAGTGCATTACATAGCCGAAGCTATTATA
* *
21149057 ATCTCACACACTAAGCGCATTACATAGCCGAAGCTATTATA
1 ATCTCGCACACTAAGTGCATTACATAGCCGAAGCTATTATA
* * * **
21149098 ATCTCGTACACAAAGTGCATTACACAGCCGAAGCTATCT-CG
1 ATCTCGCACACTAAGTGCATTACATAGCCGAAGCTAT-TATA
21149139 ATCTCGCACACTAAGTGC
1 ATCTCGCACACTAAGTGC
21149157 CAAATGTAAT
Statistics
Matches: 154, Mismatches: 26, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
41 139 0.90
42 15 0.10
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.26
Consensus pattern (41 bp):
ATCTCGCACACTAAGTGCATTACATAGCCGAAGCTATTATA
Found at i:21153176 original size:26 final size:26
Alignment explanation
Indices: 21153140--21153191 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
21153130 TCAAGCACAC
21153140 AAGCAAAATAAGCTTTACAATCCTTT
1 AAGCAAAATAAGCTTTACAATCCTTT
21153166 AAGCAAAATAAGCTTTACAATCCTTT
1 AAGCAAAATAAGCTTTACAATCCTTT
21153192 CTCACATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (26 bp):
AAGCAAAATAAGCTTTACAATCCTTT
Found at i:21154097 original size:13 final size:15
Alignment explanation
Indices: 21154079--21154110 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
21154069 TTCACTCATC
21154079 AATCTCTT-CCTC-G
1 AATCTCTTGCCTCTG
21154092 AATCTCTTGCCTCTG
1 AATCTCTTGCCTCTG
21154107 AATC
1 AATC
21154111 AGCCTTTCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 4 0.24
15 5 0.29
ACGTcount: A:0.19, C:0.34, G:0.09, T:0.38
Consensus pattern (15 bp):
AATCTCTTGCCTCTG
Found at i:21158603 original size:42 final size:42
Alignment explanation
Indices: 21158490--21158608 Score: 150
Period size: 43 Copynumber: 2.8 Consensus size: 42
21158480 AGTACCGTAC
* * *
21158490 CAATGCCATATCCCAGATATGGTCTTACATGTAATCTCGTAT
1 CAATGCCATATCCCAGATATGGTCTTACACGTAATATCATAT
* *
21158532 CAATGCCAATAGCCCAGCTATGGTCTTACACG-AAGTATCATAT
1 CAATGCC-ATATCCCAGATATGGTCTTACACGTAA-TATCATAT
* *
21158575 CGATGCCATATCCCAGATATAGTCTTACACGTAA
1 CAATGCCATATCCCAGATATGGTCTTACACGTAA
21158609 ACTCAGTAAC
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
42 30 0.46
43 35 0.54
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (42 bp):
CAATGCCATATCCCAGATATGGTCTTACACGTAATATCATAT
Found at i:21161030 original size:89 final size:89
Alignment explanation
Indices: 21160879--21161054 Score: 325
Period size: 89 Copynumber: 2.0 Consensus size: 89
21160869 ACTTTGGTTA
*
21160879 CTTTGAACTTTTGCTTCTAGCCAATTCAGGTATGGCTCCCCTTAAGGTAAACTCAGACTCACTTG
1 CTTTGAACTTTTGCTTCTAGCCAATTCAGGTATGGCTCCCCTTAAGGTAAACTCAAACTCACTTG
21160944 GGATGGATTTACTTGTTCTTTCAG
66 GGATGGATTTACTTGTTCTTTCAG
* *
21160968 CTTTGAACTTTTTCTTCTAGCCAATTCAGGTATGGCTCCCCTTAAGGTAAACTTAAACTCACTTG
1 CTTTGAACTTTTGCTTCTAGCCAATTCAGGTATGGCTCCCCTTAAGGTAAACTCAAACTCACTTG
21161033 GGATGGATTTACTTGTTCTTTC
66 GGATGGATTTACTTGTTCTTTC
21161055 TCCATGATAT
Statistics
Matches: 84, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
89 84 1.00
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.39
Consensus pattern (89 bp):
CTTTGAACTTTTGCTTCTAGCCAATTCAGGTATGGCTCCCCTTAAGGTAAACTCAAACTCACTTG
GGATGGATTTACTTGTTCTTTCAG
Found at i:21163248 original size:29 final size:29
Alignment explanation
Indices: 21163210--21163268 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
21163200 TGAAGTATGA
21163210 TAATTTCATATTTTTCTATTGCTTTTGAT
1 TAATTTCATATTTTTCTATTGCTTTTGAT
21163239 TAATTTCATATTTTTCTATTGCTTTTGAT
1 TAATTTCATATTTTTCTATTGCTTTTGAT
21163268 T
1 T
21163269 GCTTCTTTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.20, C:0.10, G:0.07, T:0.63
Consensus pattern (29 bp):
TAATTTCATATTTTTCTATTGCTTTTGAT
Found at i:21169829 original size:41 final size:41
Alignment explanation
Indices: 21169772--21170010 Score: 290
Period size: 41 Copynumber: 5.8 Consensus size: 41
21169762 GAATATAATA
* *
21169772 CAGACGTTACGTCTAGCAGGCTTAATGCCGGTGAAGTA-A-TT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG-A-TACATTT
*
21169813 CAGACTTTAAGTCTAGCAGGCTAAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
21169854 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
* *
21169895 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
* * *
21169936 CAGACTATATGTCTAGCAGGC-TAAGTGCCGGTG-TAC-TGAAT
1 CAGACTTTAAGTCTAGCAGGCTTAA-TGCCGGTGATACAT--TT
* * **
21169977 CAGGCTTTAAGCCTAGCAGGCAAAATGCCGGTGA
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGA
21170011 ATCTGTCTAA
Statistics
Matches: 179, Mismatches: 12, Indels: 13
0.88 0.06 0.06
Matches are distributed among these distances:
39 3 0.02
40 8 0.04
41 166 0.93
42 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (41 bp):
CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
Found at i:21169993 original size:123 final size:123
Alignment explanation
Indices: 21169782--21170010 Score: 322
Period size: 123 Copynumber: 1.9 Consensus size: 123
21169772 CAGACGTTAC
*
21169782 GTCTAGCAGGCTTAATGCCGGTGAAGTAATTCAGACTTTAAGTCTAGCAGGCTAAATGCCGGTGA
1 GTCTAGCAGGCTTAATGCCGGTGAAGTAATTCAGACTATAAGTCTAGCAGGCTAAATGCCGGTGA
* * **
21169847 TACATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATAT
66 TACATATCAGACTTTAAGCCTAGCAGGCAAAATGCCGGTGATACATTTCAGACTATAT
* *
21169905 GTCTAGCAGGCTTAATGCCGGTG-A-TACATTTCAGACTATATGTCTAGCAGGCTAAGTGCCGGT
1 GTCTAGCAGGCTTAATGCCGGTGAAGTA-A-TTCAGACTATAAGTCTAGCAGGCTAAATGCCGGT
*
21169968 G-TAC-TGAATCAGGCTTTAAGCCTAGCAGGCAAAATGCCGGTGA
64 GATACAT--ATCAGACTTTAAGCCTAGCAGGCAAAATGCCGGTGA
21170011 ATCTGTCTAA
Statistics
Matches: 94, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
121 3 0.03
122 5 0.05
123 86 0.91
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (123 bp):
GTCTAGCAGGCTTAATGCCGGTGAAGTAATTCAGACTATAAGTCTAGCAGGCTAAATGCCGGTGA
TACATATCAGACTTTAAGCCTAGCAGGCAAAATGCCGGTGATACATTTCAGACTATAT
Found at i:21177443 original size:41 final size:38
Alignment explanation
Indices: 21177380--21177581 Score: 208
Period size: 41 Copynumber: 5.0 Consensus size: 38
21177370 GTGATTGAAT
* * *
21177380 ATAATACAGACGTTACGTCTAGCAGGCTTAATGCCGGTG
1 ATAATTCAGACTTTAAGTCTAGCAGGC-TAATGCCGGTG
21177419 AAGTAATTCAGACTTTAAGTCTAGCAGGCTAATGCCGGTG
1 -A-TAATTCAGACTTTAAGTCTAGCAGGCTAATGCCGGTG
21177459 ATACATTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG
1 ATA-ATTCAGACTTTAAGTCTAGCAGGC-TAATGCCGGTG
* * *
21177499 ATACATTTCAGACTATATGTCTAGCAGGCTAAGTGCAGGTG
1 ATA-A-TTCAGACTTTAAGTCTAGCAGGCTAA-TGCCGGTG
* * *
21177540 TACTGAA-TCAGGCTTTAAGCCTAGCAGGCAAAATGCCGGTG
1 -A-T-AATTCAGACTTTAAGTCTAGCAGGC-TAATGCCGGTG
21177581 A
1 A
21177582 ATCTGTCTAA
Statistics
Matches: 141, Mismatches: 12, Indels: 18
0.82 0.07 0.11
Matches are distributed among these distances:
38 2 0.01
39 25 0.18
40 32 0.23
41 76 0.54
42 3 0.02
43 2 0.01
44 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (38 bp):
ATAATTCAGACTTTAAGTCTAGCAGGCTAATGCCGGTG
Found at i:21177488 original size:80 final size:82
Alignment explanation
Indices: 21177386--21177583 Score: 244
Period size: 80 Copynumber: 2.4 Consensus size: 82
21177376 GAATATAATA
* * *
21177386 CAGACGTTACGTCTAGCAGGCTTAATGCCGGTGAAGTA-A-TTCAGACTTTAAGTCTAGCAGGCT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGAA-TACATTTCAGACTATAAGTCTAGCAGGCT
* *
21177449 AA-TGCCGGTGATAC-ATT
65 AAGTGCAGGTG-TACGAAT
*
21177466 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG-ATACATTTCAGACTATATGTCTAGCAGGCTA
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGAATACATTTCAGACTATAAGTCTAGCAGGCTA
21177530 AGTGCAGGTGTACTGAAT
66 AGTGCAGGTGTAC-GAAT
* * **
21177548 CAGGCTTTAAGCCTAGCAGGCAAAATGCCGGTGAAT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGAAT
21177584 CTGTCTAAAT
Statistics
Matches: 102, Mismatches: 10, Indels: 9
0.84 0.08 0.07
Matches are distributed among these distances:
78 2 0.02
79 2 0.02
80 58 0.57
81 7 0.07
82 31 0.30
83 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (82 bp):
CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGAATACATTTCAGACTATAAGTCTAGCAGGCTA
AGTGCAGGTGTACGAAT
Found at i:21178585 original size:44 final size:44
Alignment explanation
Indices: 21178536--21179186 Score: 150
Period size: 44 Copynumber: 15.2 Consensus size: 44
21178526 TAAATTCAGA
* * * *
21178536 GAGATAAGATCATTGGTTTTAATCCGCTCCACTGTAATATCAAG
1 GAGATAAGATCACTAGCTTCAATCCGCTCCACTGTAATATCAAG
* * * * *
21178580 GAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAAG
1 GAGATAAGATCACTAGCTTCAATCCGCTCCACTGTAATATCAAG
* * ** * * *
21178624 GAGATAAGATCTGA-AATTCTTCGGTCTGTTCCACTGTAATCTCAAG
1 GAGATAAGATC--ACTA-GCTTCAATCCGCTCCACTGTAATATCAAG
* * * * * ** *
21178670 AAAATAAGA-C-CT-GATGCGATCTACTCTACTGTAACT-TC-AG
1 GAGATAAGATCACTAGCTTCAATCCGCTCCACTGTAA-TATCAAG
*
21178710 AGAGATAAGATC-CT---TT-AATCCGCTCCACTGTAATCTCAAG
1 -GAGATAAGATCACTAGCTTCAATCCGCTCCACTGTAATATCAAG
* * * * * *
21178750 GAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGG
1 GAGATAAGATCACTAGCTTCAATCCGCTCCACTGTAATATCAAG
* * ** * * * *
21178794 GAGATAAGATCTGA-AATTCTTCGGTCTGTTCCACTGTAATCTCAGG
1 GAGATAAGATC--ACTA-GCTTCAATCCGCTCCACTGTAATATCAAG
* * * * ** * *
21178840 GAAATAAGA-C-CT-GATGCGATCTACTCTACTGTAACT-T-TAG
1 GAGATAAGATCACTAGCTTCAATCCGCTCCACTGTAA-TATCAAG
* *
21178880 AGAGATAAGATC-CT---TT-AATCCGCTCCACTGTAATCTCAGG
1 -GAGATAAGATCACTAGCTTCAATCCGCTCCACTGTAATATCAAG
* * * ** * * *
21178920 GAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAATCTCAAG
1 GAGATAAGATCACTAGCTTCAATCCGCTCCACTGTAATATCAAG
** * ** * * *
21178964 GAGATAAGATCTGTAATTCTTCGGTCTGCTCCACTGTAATCTCAGG
1 GAGATAAGATCACT-A-GCTTCAATCCGCTCCACTGTAATATCAAG
* * * * *
21179010 GAGATAAGA-C-CT-GATACGATCCACTCTACTGTAACT-TC-AG
1 GAGATAAGATCACTAGCTTCAATCCGCTCCACTGTAA-TATCAAG
*
21179050 AGAGATAAGATC-CT---TT-AATCCGCTCCACTGTAATCTC-AG
1 -GAGATAAGATCACTAGCTTCAATCCGCTCCACTGTAATATCAAG
* * * * * * *
21179089 AGAGATAGGAT-AGT-GTCTTCGATCTGCTCCGCTGTAATCTCAGG
1 -GAGATAAGATCACTAG-CTTCAATCCGCTCCACTGTAATATCAAG
* * * **
21179133 GAGATAATAT-ATCTGGCTTCAATCTGCTCCACTGTAACCTCAAG
1 GAGATAAGATCA-CTAGCTTCAATCCGCTCCACTGTAATATCAAG
21179177 GAGATAAGAT
1 GAGATAAGAT
21179187 TTAAAATTCT
Statistics
Matches: 458, Mismatches: 107, Indels: 84
0.71 0.16 0.13
Matches are distributed among these distances:
38 3 0.01
39 76 0.17
40 14 0.03
41 74 0.16
42 14 0.03
43 31 0.07
44 140 0.31
45 7 0.02
46 99 0.22
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (44 bp):
GAGATAAGATCACTAGCTTCAATCCGCTCCACTGTAATATCAAG
Found at i:21178667 original size:46 final size:45
Alignment explanation
Indices: 21178561--21179266 Score: 263
Period size: 46 Copynumber: 16.4 Consensus size: 45
21178551 GTTTTAATCC
* * * * **
21178561 GCTCCACTGTAATATCAAGGAGATAGGAT-T-ACTAGCTTCAATCT
1 GCTCCACTGTAATCTCAAGGAGATAAGATCTGAAT-TCTTCGGTCT
*
21178605 GCTCCGCTGTAATCTCAAGGAGATAAGATCTGAAATTCTTCGGTCT
1 GCTCCACTGTAATCTCAAGGAGATAAGATCTG-AATTCTTCGGTCT
* * * * * *
21178651 GTTCCACTGTAATCTCAAGAAAATAAGACCTG-A---TGCGATCT
1 GCTCCACTGTAATCTCAAGGAGATAAGATCTGAATTCTTCGGTCT
* * **
21178692 ACTCTACTGTAA-CTTC-AGAGAGATAAGATCCT---TTAATC---C-
1 GCTCCACTGTAATC-TCAAG-GAGATAAGAT-CTGAATTCTTCGGTCT
* * * **
21178731 GCTCCACTGTAATCTCAAGGAGATAGGAT-T-ACTAGCTTCAATCT
1 GCTCCACTGTAATCTCAAGGAGATAAGATCTGAAT-TCTTCGGTCT
* *
21178775 GCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCT
1 GCTCCACTGTAATCTCAAGGAGATAAGATCTG-AATTCTTCGGTCT
* * * * * *
21178821 GTTCCACTGTAATCTCAGGGAAATAAGACCTG-A---TGCGATCT
1 GCTCCACTGTAATCTCAAGGAGATAAGATCTGAATTCTTCGGTCT
* * ** **
21178862 ACTCTACTGTAA-CTTTAGAGAGATAAGATCCT---TTAATC---C-
1 GCTCCACTGTAATCTCAAG-GAGATAAGAT-CTGAATTCTTCGGTCT
* * * * *
21178901 GCTCCACTGTAATCTCAGGGAGATAGGAT-T-ACTATCTTTGATCT
1 GCTCCACTGTAATCTCAAGGAGATAAGATCTGAAT-TCTTCGGTCT
*
21178945 GCTCCGCTGTAATCTCAAGGAGATAAGATCTGTAATTCTTCGGTCT
1 GCTCCACTGTAATCTCAAGGAGATAAGATCTG-AATTCTTCGGTCT
* * * * *
21178991 GCTCCACTGTAATCTCAGGGAGATAAGACCTG-A---TACGATCC
1 GCTCCACTGTAATCTCAAGGAGATAAGATCTGAATTCTTCGGTCT
* * **
21179032 ACTCTACTGTAA-CTTC-AGAGAGATAAGATCCT---TTAATC---C-
1 GCTCCACTGTAATC-TCAAG-GAGATAAGAT-CTGAATTCTTCGGTCT
* * *
21179071 GCTCCACTGTAATCTC-AGAGAGATAGGA--T-AGTGTCTTCGATCT
1 GCTCCACTGTAATCTCAAG-GAGATAAGATCTGAAT-TCTTCGGTCT
* * * * **
21179114 GCTCCGCTGTAATCTCAGGGAGATAATATATCTG---GCTTCAATCT
1 GCTCCACTGTAATCTCAAGGAGAT-A-AGATCTGAATTCTTCGGTCT
* * *
21179158 GCTCCACTGTAACCTCAAGGAGATAAGATTTAAAATTCTTCGGTCT
1 GCTCCACTGTAATCTCAAGGAGATAAGATCT-GAATTCTTCGGTCT
* * * *
21179204 ACTCCACTGTAATCTCAGGGAGATAAGACCTAAAATTCTTCGGTCT
1 GCTCCACTGTAATCTCAAGGAGATAAGATCT-GAATTCTTCGGTCT
*
21179250 GTTCCACTGTAATCTCA
1 GCTCCACTGTAATCTCA
21179267 GGAAAATAAG
Statistics
Matches: 496, Mismatches: 105, Indels: 120
0.69 0.15 0.17
Matches are distributed among these distances:
36 1 0.00
37 2 0.00
38 1 0.00
39 68 0.14
40 22 0.04
41 73 0.15
42 11 0.02
43 26 0.05
44 112 0.23
45 4 0.01
46 169 0.34
47 7 0.01
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (45 bp):
GCTCCACTGTAATCTCAAGGAGATAAGATCTGAATTCTTCGGTCT
Found at i:21178804 original size:170 final size:170
Alignment explanation
Indices: 21178517--21179139 Score: 991
Period size: 170 Copynumber: 3.6 Consensus size: 170
21178507 GGGTGTTACA
* * *
21178517 ACTCTACTGTAAATTCAGAGAGATAAGATCATTGGTTTTAATCCGCTCCACTGTAATATCAAGGA
1 ACTCTACTGTAACTTCAGAGAGATAAGATC-----CTTTAATCCGCTCCACTGTAATCTCAAGGA
21178582 GATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAAGGAGATAAGATCTGAAATTCTTCG
61 GATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAAGGAGATAAGATCTGAAATTCTTCG
* *
21178647 GTCTGTTCCACTGTAATCTCAAGAAAATAAGACCTGATGCGATCT
126 GTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGATGCGATCT
21178692 ACTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATCCGCTCCACTGTAATCTCAAGGAGATAG
1 ACTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATCCGCTCCACTGTAATCTCAAGGAGATAG
*
21178757 GATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTG
66 GATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAAGGAGATAAGATCTGAAATTCTTCGGTCTG
21178822 TTCCACTGTAATCTCAGGGAAATAAGACCTGATGCGATCT
131 TTCCACTGTAATCTCAGGGAAATAAGACCTGATGCGATCT
* *
21178862 ACTCTACTGTAACTTTAGAGAGATAAGATCCTTTAATCCGCTCCACTGTAATCTCAGGGAGATAG
1 ACTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATCCGCTCCACTGTAATCTCAAGGAGATAG
* ** *
21178927 GATTACTATCTTTGATCTGCTCCGCTGTAATCTCAAGGAGATAAGATCTGTAATTCTTCGGTCTG
66 GATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAAGGAGATAAGATCTGAAATTCTTCGGTCTG
* * * *
21178992 CTCCACTGTAATCTCAGGGAGATAAGACCTGATACGATCC
131 TTCCACTGTAATCTCAGGGAAATAAGACCTGATGCGATCT
21179032 ACTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATCCGCTCCACTGTAATCTC-AGAGAGATA
1 ACTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATCCGCTCCACTGTAATCTCAAG-GAGATA
* * *
21179096 GGA-TAGT-GTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAA
65 GGATTACTAG-CTTCAATCTGCTCCGCTGTAATCTCAAGGAGATAA
21179140 TATATCTGGC
Statistics
Matches: 423, Mismatches: 23, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
169 37 0.09
170 357 0.84
175 29 0.07
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (170 bp):
ACTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATCCGCTCCACTGTAATCTCAAGGAGATAG
GATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAAGGAGATAAGATCTGAAATTCTTCGGTCTG
TTCCACTGTAATCTCAGGGAAATAAGACCTGATGCGATCT
Found at i:21179182 original size:87 final size:88
Alignment explanation
Indices: 21179066--21179229 Score: 208
Period size: 90 Copynumber: 1.9 Consensus size: 88
21179056 AAGATCCTTT
* * * * *
21179066 AATCCGCTCCACTGTAATCTCAGAGAGATAGGA-T-AGTGTCTTCGATCTGCTCCGCTGTAATCT
1 AATCCGCTCCACTGTAACCTCAGAGAGATAAGATTAAAT-TCTTCGATCTACTCCACTGTAATCT
21179129 CAGGGAGATAATATATCTGGCTTC
65 CAGGGAGATAATATATCTGGCTTC
* *
21179153 AATCTGCTCCACTGTAACCTCA-AGGAGATAAGATTTAAAATTCTTCGGTCTACTCCACTGTAAT
1 AATCCGCTCCACTGTAACCTCAGA-GAGATAAGA-TT-AAATTCTTCGATCTACTCCACTGTAAT
21179217 CTCAGGGAGATAA
63 CTCAGGGAGATAA
21179230 GACCTAAAAT
Statistics
Matches: 65, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
86 1 0.02
87 28 0.43
89 1 0.02
90 33 0.51
91 2 0.03
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (88 bp):
AATCCGCTCCACTGTAACCTCAGAGAGATAAGATTAAATTCTTCGATCTACTCCACTGTAATCTC
AGGGAGATAATATATCTGGCTTC
Found at i:21180498 original size:13 final size:13
Alignment explanation
Indices: 21180480--21180517 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
21180470 TTAGCCTCTC
*
21180480 CATTTTTTATTTT
1 CATTTTTCATTTT
*
21180493 CATTTTTCATTCT
1 CATTTTTCATTTT
21180506 CATTTTTCATTT
1 CATTTTTCATTT
21180518 ATTTAATTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (13 bp):
CATTTTTCATTTT
Found at i:21181489 original size:50 final size:50
Alignment explanation
Indices: 21181435--21181531 Score: 126
Period size: 50 Copynumber: 1.9 Consensus size: 50
21181425 TAGGTCTCTA
*
21181435 TTTTTCATTC-TTCTTTCTTTTT-TTCATTTTATTTTGATATTGATTTTGAT
1 TTTTTC-TTCTTTC-TTCTTTTTGTTCATTTTATTTTAATATTGATTTTGAT
** *
21181485 TTTTTCTTCTTTCTTCTTTTTGTTTTTTTTATTTTAATTTTGATTTT
1 TTTTTCTTCTTTCTTCTTTTTGTTCATTTTATTTTAATATTGATTTT
21181532 TTTCATTTTC
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
49 11 0.27
50 30 0.73
ACGTcount: A:0.11, C:0.09, G:0.05, T:0.74
Consensus pattern (50 bp):
TTTTTCTTCTTTCTTCTTTTTGTTCATTTTATTTTAATATTGATTTTGAT
Found at i:21181530 original size:12 final size:12
Alignment explanation
Indices: 21181531--21181570 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
21181521 ATTTTGATTT
*
21181531 TTTTCATTTTCA
1 TTTTCATTTTGA
21181543 TTTTCATTTTGA
1 TTTTCATTTTGA
* *
21181555 CTTTGATTTTGA
1 TTTTCATTTTGA
21181567 TTTT
1 TTTT
21181571 TCTTTTTCTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.15, C:0.10, G:0.07, T:0.68
Consensus pattern (12 bp):
TTTTCATTTTGA
Found at i:21181531 original size:20 final size:21
Alignment explanation
Indices: 21181502--21181552 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
21181492 TCTTTCTTCT
*
21181502 TTTTG-TTTTTTTTATTTTAA
1 TTTTGATTTTTTTCATTTTAA
*
21181522 TTTTGATTTTTTTCATTTTCA
1 TTTTGATTTTTTTCATTTTAA
*
21181543 TTTTCATTTT
1 TTTTGATTTT
21181553 GACTTTGATT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 5 0.19
21 22 0.81
ACGTcount: A:0.14, C:0.06, G:0.04, T:0.76
Consensus pattern (21 bp):
TTTTGATTTTTTTCATTTTAA
Found at i:21194629 original size:17 final size:18
Alignment explanation
Indices: 21194590--21194639 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 18
21194580 CACTCATTAT
*
21194590 TTATTATAAATTTATTACAA
1 TTATTAT-AA-TTATGACAA
21194610 TTATTATAATTATGAC-A
1 TTATTATAATTATGACAA
21194627 TTAATT-TAATTAT
1 TT-ATTATAATTAT
21194640 TTAATTTACT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 10 0.36
18 9 0.32
19 2 0.07
20 7 0.25
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (18 bp):
TTATTATAATTATGACAA
Found at i:21216023 original size:17 final size:17
Alignment explanation
Indices: 21216003--21216063 Score: 52
Period size: 17 Copynumber: 3.5 Consensus size: 17
21215993 ATTCATATAT
*
21216003 ATTATTTATATTATTAA
1 ATTATTTATATTATTGA
* *
21216020 ATTAAATTTCACATT-TTGT
1 ATT--ATTT-ATATTATTGA
*
21216039 AGTATTTATATTATTGA
1 ATTATTTATATTATTGA
21216056 ATTATTTA
1 ATTATTTA
21216064 ATCATATTGA
Statistics
Matches: 33, Mismatches: 7, Indels: 8
0.69 0.15 0.17
Matches are distributed among these distances:
16 4 0.12
17 17 0.52
19 8 0.24
20 4 0.12
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (17 bp):
ATTATTTATATTATTGA
Found at i:21217200 original size:16 final size:18
Alignment explanation
Indices: 21217174--21217206 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
21217164 TTAAATTGAC
21217174 TAAATTAATTTT-TCAAT
1 TAAATTAATTTTCTCAAT
21217191 TAAA-TAATTTTCTCAA
1 TAAATTAATTTTCTCAA
21217207 CCTAATTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:21224625 original size:19 final size:19
Alignment explanation
Indices: 21224601--21224639 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
21224591 TTCAACGCTT
21224601 AGGTTCATGTGGCATGGTA
1 AGGTTCATGTGGCATGGTA
21224620 AGGTTCATGTGGCATGGTA
1 AGGTTCATGTGGCATGGTA
21224639 A
1 A
21224640 CACGAAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.23, C:0.10, G:0.36, T:0.31
Consensus pattern (19 bp):
AGGTTCATGTGGCATGGTA
Found at i:21224818 original size:23 final size:23
Alignment explanation
Indices: 21224792--21224839 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
21224782 AAGAATTATA
21224792 TAAAAAAATCAAATTGCATAACT
1 TAAAAAAATCAAATTGCATAACT
21224815 TAAAAAAATCAAATTGCATAACT
1 TAAAAAAATCAAATTGCATAACT
21224838 TA
1 TA
21224840 TACATATTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.56, C:0.12, G:0.04, T:0.27
Consensus pattern (23 bp):
TAAAAAAATCAAATTGCATAACT
Found at i:21231011 original size:41 final size:40
Alignment explanation
Indices: 21230953--21231150 Score: 215
Period size: 41 Copynumber: 4.8 Consensus size: 40
21230943 TTAAACAGAT
* * * *
21230953 TCACCGGCATTTTGCCTGCTAGGCTTAAAGCCTG-ATTCAGTA
1 TCACCGGCA-TTAGCCTGCTAGACTTAAAGTCTGAAAT--GTA
* *
21230995 -CACCGGCACTTAGCCTGCTAGACATATAGTCTGAAATGTA
1 TCACCGGCA-TTAGCCTGCTAGACTTAAAGTCTGAAATGTA
21231035 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
1 TCACCGGCATT-AGCCTGCTAGACTTAAAGTCTGAAATGTA
21231076 TCACCGGCATTTAGCCTGCTAGACTTAAAGTCTG-AAT-TA
1 TCACCGGCA-TTAGCCTGCTAGACTTAAAGTCTGAAATGTA
* *
21231115 CTTCACCGGCATTAAGCCTGCTAGACGTAACGTCTG
1 --TCACCGGCATT-AGCCTGCTAGACTTAAAGTCTG
21231151 TATTATATTC
Statistics
Matches: 138, Mismatches: 11, Indels: 15
0.84 0.07 0.09
Matches are distributed among these distances:
39 2 0.01
40 10 0.07
41 122 0.88
42 4 0.03
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (40 bp):
TCACCGGCATTAGCCTGCTAGACTTAAAGTCTGAAATGTA
Found at i:21231090 original size:82 final size:80
Alignment explanation
Indices: 21230953--21231150 Score: 238
Period size: 82 Copynumber: 2.4 Consensus size: 80
21230943 TTAAACAGAT
** * * *
21230953 TCACCGGCATTTTGCCTGCTAGGCTTAAAGCCTGATTCAGTACACCGGCACTTAGCCTGCTAGAC
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAT-AGTACACCGGCACTTAGCCTGCTAGAC
*
21231018 ATATAGTCTGAAATGTA-
65 ATAAAGTCTG-AAT-TAC
*
21231035 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAA-ATGTATCACCGGCATTTAGCCTGCTAGA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAATA-GTA-CACCGGCACTTAGCCTGCTAGA
*
21231099 CTTAAAGTCTGAATTAC
64 CATAAAGTCTGAATTAC
* *
21231116 TTCACCGGCATTAAGCCTGCTAGACGTAACGTCTG
1 -TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTG
21231151 TATTATATTC
Statistics
Matches: 102, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
80 3 0.03
81 6 0.06
82 93 0.91
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (80 bp):
TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAATAGTACACCGGCACTTAGCCTGCTAGACA
TAAAGTCTGAATTAC
Found at i:21234624 original size:37 final size:37
Alignment explanation
Indices: 21234563--21234782 Score: 372
Period size: 37 Copynumber: 6.0 Consensus size: 37
21234553 TACGTATGAT
* *
21234563 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
21234598 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
21234635 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
21234672 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
21234709 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
* *
21234746 CACTTATCACTCTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
21234783 TAAAGCTATC
Statistics
Matches: 175, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
35 9 0.05
36 3 0.02
37 163 0.93
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:21234825 original size:52 final size:52
Alignment explanation
Indices: 21234746--21235112 Score: 461
Period size: 52 Copynumber: 7.2 Consensus size: 52
21234736 TAAGTGTAGC
* * **
21234746 CACTTATCACTCTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTAT
1 CACTTTTCACT-TGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
21234799 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* *
21234851 CAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* ** *
21234897 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* *
21234949 CAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* * *
21234995 CACTTTCCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* ** *
21235047 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
21235099 CACTTTGTCACTTG
1 CACTTT-TCACTTG
21235113 ATCAGAAGTA
Statistics
Matches: 276, Mismatches: 25, Indels: 26
0.84 0.08 0.08
Matches are distributed among these distances:
46 83 0.30
49 1 0.00
52 176 0.64
53 16 0.06
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
Found at i:21234887 original size:98 final size:98
Alignment explanation
Indices: 21234746--21235104 Score: 511
Period size: 98 Copynumber: 3.6 Consensus size: 98
21234736 TAAGTGTAGC
* * * * *
21234746 CACTTATCACTCTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTTCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTCCACTT
21234811 GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
66 GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
21234844 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTCCACTT
** *
21234909 GTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
66 GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
21234942 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTCCACTT
*
21235007 GTCACTTGATCAGATAAGTATAGCCGAAGCTAT
66 GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* * * *
21235040 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTT
21235105 GTCACTTGAT
Statistics
Matches: 235, Mismatches: 20, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
98 191 0.81
100 1 0.00
104 43 0.18
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTCCACTT
GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:21235113 original size:150 final size:144
Alignment explanation
Indices: 21234753--21235118 Score: 579
Period size: 150 Copynumber: 2.5 Consensus size: 144
21234743 AGCCACTTAT
* *
21234753 CACTCTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTTCACTTGTCACTT
1 CACT-TGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC---T---TTGTCACTT
*
21234818 GATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCG
59 GATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCG
21234883 AAGCTATTACTTATCACTTTC
124 AAGCTATTACTTATCACTTTC
21234904 CACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGA
1 CACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGA
*
21234969 TAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTATAGCCGA
66 TAAGTATAGCCGAAGCTATCACTTATCAC--T----TTGTCACTTGATCAGATAAGTATAGCCGA
21235034 AGCTATTACTTATCACTTTC
125 AGCTATTACTTATCACTTTC
21235054 CACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGA
1 CACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGA
21235119 AGTACTCAAA
Statistics
Matches: 205, Mismatches: 4, Indels: 13
0.92 0.02 0.06
Matches are distributed among these distances:
144 43 0.21
146 1 0.00
147 1 0.00
150 156 0.76
151 4 0.02
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (144 bp):
CACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGA
TAAGTATAGCCGAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
TACTTATCACTTTC
Found at i:21238298 original size:49 final size:50
Alignment explanation
Indices: 21238243--21238446 Score: 232
Period size: 49 Copynumber: 4.0 Consensus size: 50
21238233 TTCGTTTTCT
*
21238243 CGATGCCATAGTCCAACTATGGTCTTACACGTAATCACA-AATCACATAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACATAC
* * *
21238292 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACA-TATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACATAC
* *
21238341 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATATCACACATATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACAC-G--T---A-ATCACACA-ATCACATAC
* * * *
21238399 CGATGGCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCACAT
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACAT
21238447 GTTCACATGT
Statistics
Matches: 135, Mismatches: 11, Indels: 17
0.83 0.07 0.10
Matches are distributed among these distances:
49 74 0.55
50 7 0.05
51 7 0.05
52 1 0.01
55 1 0.01
56 6 0.04
57 1 0.01
58 38 0.28
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.24
Consensus pattern (50 bp):
CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACATAC
Found at i:21238413 original size:58 final size:59
Alignment explanation
Indices: 21238327--21238445 Score: 222
Period size: 58 Copynumber: 2.0 Consensus size: 59
21238317 TACACGAAAT
21238327 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACAT-ATCA
1 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
*
21238385 CACATATCACTTACCGATGGCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
1 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
21238444 CA
1 CA
21238446 TGTTCACATG
Statistics
Matches: 59, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
58 53 0.90
59 6 0.10
ACGTcount: A:0.32, C:0.30, G:0.14, T:0.24
Consensus pattern (59 bp):
CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
Found at i:21238426 original size:28 final size:28
Alignment explanation
Indices: 21238336--21238426 Score: 69
Period size: 27 Copynumber: 3.2 Consensus size: 28
21238326 TCACATATCA
*
21238336 CTTACCGATGCCATAGCCCAGCTATGGT
1 CTTACCGATGACATAGCCCAGCTATGGT
* * * **
21238364 CTTACACGGAATCACATATCACA-CATAT-CA
1 CTTAC-C-G-ATGACATAGCCCAGC-TATGGT
*
21238394 CTTACCGATGGCATAGCCCAGCTATGGT
1 CTTACCGATGACATAGCCCAGCTATGGT
21238422 CTTAC
1 CTTAC
21238427 ACGGAATCAC
Statistics
Matches: 45, Mismatches: 12, Indels: 12
0.65 0.17 0.17
Matches are distributed among these distances:
27 12 0.27
28 12 0.27
29 2 0.04
30 7 0.16
31 12 0.27
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.25
Consensus pattern (28 bp):
CTTACCGATGACATAGCCCAGCTATGGT
Found at i:21239760 original size:37 final size:37
Alignment explanation
Indices: 21239699--21239918 Score: 372
Period size: 37 Copynumber: 6.0 Consensus size: 37
21239689 TACGTATGAT
* *
21239699 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
21239734 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
21239771 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
21239808 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
21239845 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
* *
21239882 CACTTATCACTCTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
21239919 TAAAGCTATC
Statistics
Matches: 175, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
35 9 0.05
36 3 0.02
37 163 0.93
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:21239961 original size:52 final size:52
Alignment explanation
Indices: 21239882--21240248 Score: 461
Period size: 52 Copynumber: 7.2 Consensus size: 52
21239872 TAAGTGTAGC
* * **
21239882 CACTTATCACTCTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTAT
1 CACTTTTCACT-TGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
21239935 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* *
21239987 CAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* ** *
21240033 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* *
21240085 CAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* * *
21240131 CACTTTCCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* ** *
21240183 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
21240235 CACTTTGTCACTTG
1 CACTTT-TCACTTG
21240249 ATCAGAAGTA
Statistics
Matches: 276, Mismatches: 25, Indels: 26
0.84 0.08 0.08
Matches are distributed among these distances:
46 83 0.30
49 1 0.00
52 176 0.64
53 16 0.06
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
Found at i:21240023 original size:98 final size:98
Alignment explanation
Indices: 21239882--21240240 Score: 511
Period size: 98 Copynumber: 3.6 Consensus size: 98
21239872 TAAGTGTAGC
* * * * *
21239882 CACTTATCACTCTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTTCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTCCACTT
21239947 GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
66 GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
21239980 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTCCACTT
** *
21240045 GTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
66 GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
21240078 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTCCACTT
*
21240143 GTCACTTGATCAGATAAGTATAGCCGAAGCTAT
66 GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* * * *
21240176 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTT
21240241 GTCACTTGAT
Statistics
Matches: 235, Mismatches: 20, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
98 191 0.81
100 1 0.00
104 43 0.18
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTCCACTT
GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:21240249 original size:150 final size:144
Alignment explanation
Indices: 21239889--21240254 Score: 579
Period size: 150 Copynumber: 2.5 Consensus size: 144
21239879 AGCCACTTAT
* *
21239889 CACTCTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTTCACTTGTCACTT
1 CACT-TGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC---T---TTGTCACTT
*
21239954 GATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCG
59 GATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCG
21240019 AAGCTATTACTTATCACTTTC
124 AAGCTATTACTTATCACTTTC
21240040 CACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGA
1 CACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGA
*
21240105 TAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTATAGCCGA
66 TAAGTATAGCCGAAGCTATCACTTATCAC--T----TTGTCACTTGATCAGATAAGTATAGCCGA
21240170 AGCTATTACTTATCACTTTC
125 AGCTATTACTTATCACTTTC
21240190 CACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGA
1 CACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGA
21240255 AGTACTCAAA
Statistics
Matches: 205, Mismatches: 4, Indels: 13
0.92 0.02 0.06
Matches are distributed among these distances:
144 43 0.21
146 1 0.00
147 1 0.00
150 156 0.76
151 4 0.02
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (144 bp):
CACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGA
TAAGTATAGCCGAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
TACTTATCACTTTC
Found at i:21242709 original size:32 final size:32
Alignment explanation
Indices: 21242668--21242733 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
21242658 TTACGATAAG
21242668 GTGATCCTCTTCTTTATACTTGTTCATTTTGA
1 GTGATCCTCTTCTTTATACTTGTTCATTTTGA
21242700 GTGATCCTCTTCTTTATACTTGTTCATTTTGA
1 GTGATCCTCTTCTTTATACTTGTTCATTTTGA
21242732 GT
1 GT
21242734 CTCAATATGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.15, C:0.18, G:0.14, T:0.53
Consensus pattern (32 bp):
GTGATCCTCTTCTTTATACTTGTTCATTTTGA
Found at i:21246328 original size:23 final size:23
Alignment explanation
Indices: 21246298--21246343 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
21246288 CGAGTCAAGG
21246298 ACAATCATACTTTAATGAAACAA
1 ACAATCATACTTTAATGAAACAA
21246321 ACAATCATACTTTAATGAAACAA
1 ACAATCATACTTTAATGAAACAA
21246344 TTACAATAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.52, C:0.17, G:0.04, T:0.26
Consensus pattern (23 bp):
ACAATCATACTTTAATGAAACAA
Found at i:21252369 original size:20 final size:20
Alignment explanation
Indices: 21252344--21252381 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
21252334 AATATTATAT
*
21252344 TAATTATATATGTTAAATAA
1 TAATTATATATATTAAATAA
21252364 TAATTATATATATTAAAT
1 TAATTATATATATTAAAT
21252382 CACAAATCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (20 bp):
TAATTATATATATTAAATAA
Found at i:21257193 original size:79 final size:78
Alignment explanation
Indices: 21257029--21257214 Score: 288
Period size: 77 Copynumber: 2.4 Consensus size: 78
21257019 TATTCGGATG
*
21257029 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCTGGGCTAAGCCGAAGGCATT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCGAAGGCATT
21257094 TGTGCGAGTTACT
66 TGTGCGAGTTACT
* *
21257107 ATCACCGGGC-AAGTCCCGAAGGCATTTGTG-TGAGTTACT-ATATCCGGGCTAAGTCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGTGACTAAT-TCCGGGCTAAG--CCGAAGG
21257169 CATTTGTGCGAGTTACT
62 CATTTGTGCGAGTTACT
21257186 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
21257215 AGCAAGTAGC
Statistics
Matches: 99, Mismatches: 4, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
76 3 0.03
77 36 0.36
78 9 0.09
79 33 0.33
80 18 0.18
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (78 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCGAAGGCATT
TGTGCGAGTTACT
Found at i:21257236 original size:79 final size:78
Alignment explanation
Indices: 21257029--21257247 Score: 277
Period size: 79 Copynumber: 2.8 Consensus size: 78
21257019 TATTCGGATG
* *
21257029 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGT-GACTA-ATTCTGGGCTAAG-CCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAG-CTATA-TC-CGGCTAAGTCCGAAGGC
21257091 ATTTGTGCGAGTTACT
63 ATTTGTGCGAGTTACT
* **
21257107 ATCACCGGGC-AAGTCCCGAAGGCATTTGTGTGAGTTA-CTATATCCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TAGCTATATCC-GGCTAAGT-CCGAAGGC
21257170 ATTTGTGCGAGTTACT
63 ATTTGTGCGAGTTACT
* *
21257186 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTAGCTATATCCGGCTAAATTCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTATATCCGGCT-AAGTCCGAAGG
21257248 TACTTGGTTT
Statistics
Matches: 123, Mismatches: 9, Indels: 17
0.83 0.06 0.11
Matches are distributed among these distances:
77 34 0.28
78 11 0.09
79 46 0.37
80 32 0.26
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (78 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTATATCCGGCTAAGTCCGAAGGCATT
TGTGCGAGTTACT
Found at i:21257247 original size:39 final size:40
Alignment explanation
Indices: 21257033--21257247 Score: 273
Period size: 40 Copynumber: 5.5 Consensus size: 40
21257023 CGGATGATAA
* *
21257033 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
21257073 CTGGGCTAAG--CCGAAGGCATTTGTGCGAGTTACTATCA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-AT
*
21257111 CCGGGC-AAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
21257150 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
21257190 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
21257230 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
21257248 TACTTGGTTT
Statistics
Matches: 156, Mismatches: 12, Indels: 15
0.85 0.07 0.08
Matches are distributed among these distances:
37 3 0.02
38 29 0.19
39 47 0.30
40 77 0.49
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:21265210 original size:79 final size:79
Alignment explanation
Indices: 21265074--21265259 Score: 297
Period size: 79 Copynumber: 2.4 Consensus size: 79
21265064 TATTCGGATG
* *
21265074 ATAACCGGGCT-AGTCCTGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
21265138 TTGTGCGAGTTACT
66 TTGTGCGAGTTACT
* *
21265152 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-CTATCCGGG-TAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-TCCGGGCTAAG-CCCGAAGGC
21265215 ATTTGTGCGAGTTACT
64 ATTTGTGCGAGTTACT
21265231 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
21265260 AGCAAGTAGC
Statistics
Matches: 101, Mismatches: 4, Indels: 5
0.92 0.04 0.05
Matches are distributed among these distances:
78 16 0.16
79 85 0.84
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
TTGTGCGAGTTACT
Found at i:21265276 original size:79 final size:79
Alignment explanation
Indices: 21265074--21265292 Score: 295
Period size: 79 Copynumber: 2.8 Consensus size: 79
21265064 TATTCGGATG
* *
21265074 ATAACCGGGCT-AGTCCTGAAGGCATTTGTGCTAGT-GACTA-ATTCCGGGCTAAG-CCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAG-CTATA-TCCGGG-TAAGTCCCGAAGG
21265135 CATTTGTGCGAGTTACT
63 CATTTGTGCGAGTTACT
* *
21265152 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTCTATCCGGGTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TAGCTATATCCGGGTAAGTCCCGAAGGCA
21265216 TTTGTGCGAGTTACT
65 TTTGTGCGAGTTACT
* * * *
21265231 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTAGCTATATCCGGCTAAATTCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTATATCCGGGTAAGTCCCGAAGG
21265293 TACTTGGTTT
Statistics
Matches: 126, Mismatches: 9, Indels: 11
0.86 0.06 0.08
Matches are distributed among these distances:
78 17 0.13
79 107 0.85
80 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTATATCCGGGTAAGTCCCGAAGGCAT
TTGTGCGAGTTACT
Found at i:21265292 original size:39 final size:40
Alignment explanation
Indices: 21265074--21265259 Score: 281
Period size: 39 Copynumber: 4.7 Consensus size: 40
21265064 TATTCGGATG
* * *
21265074 ATAACCGGGCT-AGTCCTGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
21265113 A-ATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
21265152 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
21265192 CTATCCGGG-TAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
21265231 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
21265260 AGCAAGTAGC
Statistics
Matches: 133, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
38 1 0.01
39 78 0.59
40 54 0.41
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:21270219 original size:37 final size:37
Alignment explanation
Indices: 21270169--21270247 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
21270159 TTATTACGAA
* * *
21270169 GTCTTACCCGGACATAATCTCCACACCAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACCAAGTCATCGG
**
21270206 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACCAAGTCATCGG
21270243 GTCTT
1 GTCTT
21270248 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.33, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACCAAGTCATCGG
Done.