Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167838.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_11, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 23775123
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 69000 characters in sequence are not A, C, G, or T
File 114 of 129
Found at i:20432060 original size:27 final size:25
Alignment explanation
Indices: 20432011--20432067 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 25
20432001 CTGGACATAG
* * *
20432011 ATGGGCCTAATAGGCCTATACACGA
1 ATGGGCCTAATAGGCCCAAACACAA
20432036 ATGGGCCTAATTGAGGCCCAAACACAA
1 ATGGGCCTAA-T-AGGCCCAAACACAA
20432063 ATGGG
1 ATGGG
20432068 TGTCTACAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 10 0.37
26 1 0.04
27 16 0.59
ACGTcount: A:0.33, C:0.23, G:0.26, T:0.18
Consensus pattern (25 bp):
ATGGGCCTAATAGGCCCAAACACAA
Found at i:20444776 original size:3 final size:3
Alignment explanation
Indices: 20444759--20444801 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
20444749 AGAAAAGGAA
* * *
20444759 AAT AA- AAT GAT AAT AAT AAT ATT AGT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
20444802 CAACAACAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:20444867 original size:25 final size:25
Alignment explanation
Indices: 20444839--20444887 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
20444829 AGTCCAACTA
*
20444839 GGCCTAGACACATATGGGCCTAATG
1 GGCCTAGACACAAATGGGCCTAATG
*
20444864 GGCCTGGACACAAATGGGCCTAAT
1 GGCCTAGACACAAATGGGCCTAAT
20444888 TAAAGCCCGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.29, C:0.24, G:0.29, T:0.18
Consensus pattern (25 bp):
GGCCTAGACACAAATGGGCCTAATG
Found at i:20445748 original size:9 final size:9
Alignment explanation
Indices: 20445734--20445782 Score: 53
Period size: 9 Copynumber: 5.4 Consensus size: 9
20445724 TCATACGAGT
20445734 ACATGTTTA
1 ACATGTTTA
20445743 ACATGTTTA
1 ACATGTTTA
* **
20445752 ATACATTTA
1 ACATGTTTA
*
20445761 ATATGTTTA
1 ACATGTTTA
*
20445770 ACACGTTTA
1 ACATGTTTA
20445779 ACAT
1 ACAT
20445783 ATTTTTTATA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.37, C:0.12, G:0.08, T:0.43
Consensus pattern (9 bp):
ACATGTTTA
Found at i:20445748 original size:33 final size:34
Alignment explanation
Indices: 20445691--20445757 Score: 118
Period size: 33 Copynumber: 2.0 Consensus size: 34
20445681 TTAATCTTAC
20445691 CATACGAGTACACGTTTTAACATGTTTAATACAT
1 CATACGAGTACACGTTTTAACATGTTTAATACAT
*
20445725 CATACGAGTACATG-TTTAACATGTTTAATACAT
1 CATACGAGTACACGTTTTAACATGTTTAATACAT
20445758 TTAATATGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 19 0.59
34 13 0.41
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (34 bp):
CATACGAGTACACGTTTTAACATGTTTAATACAT
Found at i:20445778 original size:18 final size:18
Alignment explanation
Indices: 20445738--20445782 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
20445728 ACGAGTACAT
*
20445738 GTTTAACATGTTTAATAC
1 GTTTAACATGTTTAACAC
* *
20445756 ATTTAATATGTTTAACAC
1 GTTTAACATGTTTAACAC
20445774 GTTTAACAT
1 GTTTAACAT
20445783 ATTTTTTATA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.36, C:0.11, G:0.09, T:0.44
Consensus pattern (18 bp):
GTTTAACATGTTTAACAC
Found at i:20445796 original size:27 final size:27
Alignment explanation
Indices: 20445739--20445796 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
20445729 CGAGTACATG
* * *
20445739 TTTAACATGTTTAATACATTTAATATG
1 TTTAACACGTTTAACACATTTAATATA
* **
20445766 TTTAACACGTTTAACATATTTTTTATA
1 TTTAACACGTTTAACACATTTAATATA
20445793 TTTA
1 TTTA
20445797 TTTTAATTTA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.34, C:0.09, G:0.05, T:0.52
Consensus pattern (27 bp):
TTTAACACGTTTAACACATTTAATATA
Found at i:20446318 original size:29 final size:29
Alignment explanation
Indices: 20446234--20446329 Score: 93
Period size: 29 Copynumber: 3.3 Consensus size: 29
20446224 CGTATTCTTG
*
20446234 TATATATTCATGTTAATCGTGTTTATTCA
1 TATATATTCATGTTAATTGTGTTTATTCA
* * * *
20446263 TATATATTCATATTAGTTATGTCTATTCA
1 TATATATTCATGTTAATTGTGTTTATTCA
* * * * *
20446292 TGTATATCCATGTTATTTGTATTTATTAA
1 TATATATTCATGTTAATTGTGTTTATTCA
20446321 TATCATATT
1 TAT-ATATT
20446330 TAAATGGATT
Statistics
Matches: 51, Mismatches: 15, Indels: 1
0.76 0.22 0.01
Matches are distributed among these distances:
29 47 0.92
30 4 0.08
ACGTcount: A:0.29, C:0.09, G:0.08, T:0.53
Consensus pattern (29 bp):
TATATATTCATGTTAATTGTGTTTATTCA
Found at i:20451448 original size:2 final size:2
Alignment explanation
Indices: 20451441--20451472 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
20451431 CTTTAAGAGC
20451441 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20451473 GCAGATACTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20453620 original size:21 final size:20
Alignment explanation
Indices: 20453586--20453634 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
20453576 TAAATTAATC
* *
20453586 AATAAAACAATATATAATTA
1 AATAAAACAATATAAAACTA
*
20453606 AATAAATCTAATATAAAACTA
1 AATAAAAC-AATATAAAACTA
*
20453627 AATTAAAC
1 AATAAAAC
20453635 TCATAAATTT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (20 bp):
AATAAAACAATATAAAACTA
Found at i:20453666 original size:8 final size:7
Alignment explanation
Indices: 20453638--20453662 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
20453628 ATTAAACTCA
20453638 TAAATTT
1 TAAATTT
20453645 TAAATTT
1 TAAATTT
20453652 TAAATTT
1 TAAATTT
20453659 TAAA
1 TAAA
20453663 ATTTCAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (7 bp):
TAAATTT
Found at i:20454391 original size:12 final size:12
Alignment explanation
Indices: 20454373--20454403 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
20454363 ATTAAAAATG
20454373 ATTAAATAAAAA
1 ATTAAATAAAAA
*
20454385 TTTAAATAAAAA
1 ATTAAATAAAAA
20454397 ATTAAAT
1 ATTAAAT
20454404 TCATAGATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
ATTAAATAAAAA
Found at i:20454668 original size:22 final size:22
Alignment explanation
Indices: 20454643--20454684 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
20454633 ATTGAATTAT
*
20454643 TTTTAATATAAAATTTCATAAA
1 TTTTAATAAAAAATTTCATAAA
*
20454665 TTTTACTAAAAAATTTCATA
1 TTTTAATAAAAAATTTCATA
20454685 TAAATTTGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (22 bp):
TTTTAATAAAAAATTTCATAAA
Found at i:20462752 original size:18 final size:19
Alignment explanation
Indices: 20462715--20462752 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
20462705 TAAACAATTT
* *
20462715 AAATATATAAAATAATAAA
1 AAATATATAAAAAAAGAAA
20462734 AAATA-ATAAAAAAAGAAA
1 AAATATATAAAAAAAGAAA
20462752 A
1 A
20462753 TTAATTTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (19 bp):
AAATATATAAAAAAAGAAA
Found at i:20463975 original size:32 final size:30
Alignment explanation
Indices: 20463939--20464045 Score: 91
Period size: 32 Copynumber: 3.6 Consensus size: 30
20463929 ACAAATAAAG
* *
20463939 AAAATGAATATAAATAAATATGCATGGAAATA
1 AAAATCAATATAAATAAATAT-C-TGAAAATA
*
20463971 AAAATTAATAAATAAATAAATATCTGAAAATA
1 AAAATCAAT--ATAAATAAATATCTGAAAATA
*
20464003 AAAA-CAA-ATAAAT-AA-AT-TGAAAACA
1 AAAATCAATATAAATAAATATCTGAAAATA
*
20464028 AAAAACAA-ATAAATAAAT
1 AAAATCAATATAAATAAAT
20464046 CTTACCTGAA
Statistics
Matches: 66, Mismatches: 4, Indels: 14
0.79 0.05 0.17
Matches are distributed among these distances:
25 11 0.17
26 11 0.17
27 4 0.06
28 6 0.09
31 2 0.03
32 19 0.29
33 1 0.02
34 12 0.18
ACGTcount: A:0.67, C:0.05, G:0.06, T:0.22
Consensus pattern (30 bp):
AAAATCAATATAAATAAATATCTGAAAATA
Found at i:20464038 original size:26 final size:26
Alignment explanation
Indices: 20463980--20464047 Score: 93
Period size: 26 Copynumber: 2.5 Consensus size: 26
20463970 AAAAATTAAT
*
20463980 AAATAAATAAATATCTGAAAATAAAAAC
1 AAATAAAT-AA-ATCTGAAAAAAAAAAC
20464008 AAATAAATAAAT-TGAAAACAAAAAAC
1 AAATAAATAAATCTGAAAA-AAAAAAC
20464034 AAATAAATAAATCT
1 AAATAAATAAATCT
20464048 TACCTGAATG
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
25 6 0.16
26 20 0.54
27 3 0.08
28 8 0.22
ACGTcount: A:0.69, C:0.07, G:0.03, T:0.21
Consensus pattern (26 bp):
AAATAAATAAATCTGAAAAAAAAAAC
Found at i:20464561 original size:24 final size:24
Alignment explanation
Indices: 20464529--20464587 Score: 84
Period size: 24 Copynumber: 2.4 Consensus size: 24
20464519 ATCATGGATT
20464529 AAATAAAAA-TAACAAATATAAAATA
1 AAATAAAAAGTAACAAA-AT-AAATA
*
20464554 AACTAAAAAGTAACAAAATAAATA
1 AAATAAAAAGTAACAAAATAAATA
20464578 AAATAAAAAG
1 AAATAAAAAG
20464588 AACTATTTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
24 14 0.45
25 10 0.32
26 7 0.23
ACGTcount: A:0.75, C:0.05, G:0.03, T:0.17
Consensus pattern (24 bp):
AAATAAAAAGTAACAAAATAAATA
Found at i:20466281 original size:16 final size:17
Alignment explanation
Indices: 20466239--20466271 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
20466229 ATATAATATG
20466239 ATAATAT-AAAATAAAA
1 ATAATATAAAAATAAAA
20466255 ATAATATAAAAATAAAA
1 ATAATATAAAAATAAAA
20466272 TGATTTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (17 bp):
ATAATATAAAAATAAAA
Found at i:20466357 original size:19 final size:20
Alignment explanation
Indices: 20466323--20466360 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
20466313 TTTAACTTAT
20466323 TAATTTAAATTATTATATAA
1 TAATTTAAATTATTATATAA
*
20466343 TAATTTTAA-TATTATATA
1 TAATTTAAATTATTATATA
20466361 TTTTTATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TAATTTAAATTATTATATAA
Found at i:20466358 original size:17 final size:18
Alignment explanation
Indices: 20466338--20466377 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
20466328 TAAATTATTA
20466338 TATAATAATTTTA-ATAT
1 TATAATAATTTTATATAT
*
20466355 TAT-ATATTTTTATATAT
1 TATAATAATTTTATATAT
20466372 T-TAATA
1 TATAATA
20466378 TGAAATATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TATAATAATTTTATATAT
Found at i:20466434 original size:17 final size:17
Alignment explanation
Indices: 20466395--20466427 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
20466385 TACATAATAT
*
20466395 AAATT-ATTAAATAAAA
1 AAATTGATTAAAGAAAA
20466411 AAATTGATTAAAGAAAA
1 AAATTGATTAAAGAAAA
20466428 CATTTGAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.27
Consensus pattern (17 bp):
AAATTGATTAAAGAAAA
Found at i:20468069 original size:11 final size:11
Alignment explanation
Indices: 20468050--20468100 Score: 50
Period size: 11 Copynumber: 4.4 Consensus size: 11
20468040 ACATTTTCAA
20468050 TAAATTTTTTAT
1 TAAA-TTTTTAT
20468062 TAAATTTTTAT
1 TAAATTTTTAT
20468073 T-AATATTTTAT
1 TAAAT-TTTTAT
*
20468084 TAGATATTTTTAA
1 TA-A-ATTTTTAT
20468097 TAAA
1 TAAA
20468101 AAATTTATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
10 3 0.09
11 16 0.47
12 5 0.15
13 8 0.24
14 2 0.06
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (11 bp):
TAAATTTTTAT
Found at i:20468080 original size:12 final size:12
Alignment explanation
Indices: 20468055--20468095 Score: 59
Period size: 11 Copynumber: 3.5 Consensus size: 12
20468045 TTCAATAAAT
20468055 TTTTTATTAA-A
1 TTTTTATTAATA
20468066 TTTTTATTAATA
1 TTTTTATTAATA
20468078 -TTTTATTAGATA
1 TTTTTATTA-ATA
20468090 TTTTTA
1 TTTTTA
20468096 ATAAAAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 18 0.67
12 4 0.15
13 5 0.19
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (12 bp):
TTTTTATTAATA
Found at i:20470216 original size:31 final size:30
Alignment explanation
Indices: 20470110--20470248 Score: 124
Period size: 30 Copynumber: 4.6 Consensus size: 30
20470100 TTAATTTATG
* *
20470110 TTAAAGATTTATTTAAATACAAATTAAAAA
1 TTAAAGATTTATTTAAATATAAATTAAAGA
* * * *
20470140 TTAAACAATTATTTGAATATAAATTAAAGG
1 TTAAAGATTTATTTAAATATAAATTAAAGA
*
20470170 TT-AAGAATTGTTTTTAAATATAAATTAAAGA
1 TTAAAG-ATT-TATTTAAATATAAATTAAAGA
* * *
20470201 TTAAAGATTTATTTTAATA-CAA-TAAAAA
1 TTAAAGATTTATTTAAATATAAATTAAAGA
20470229 TATATAA-ATTTATTTAAATA
1 T-TA-AAGATTTATTTAAATA
20470249 AAGTAATAAA
Statistics
Matches: 88, Mismatches: 16, Indels: 11
0.77 0.14 0.10
Matches are distributed among these distances:
28 6 0.07
29 18 0.20
30 38 0.43
31 23 0.26
32 3 0.03
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.40
Consensus pattern (30 bp):
TTAAAGATTTATTTAAATATAAATTAAAGA
Found at i:20475205 original size:9 final size:9
Alignment explanation
Indices: 20475179--20475236 Score: 53
Period size: 9 Copynumber: 6.1 Consensus size: 9
20475169 GATTTTAGTT
20475179 ATCGTCATC
1 ATCGTCATC
**
20475188 ATCACCATC
1 ATCGTCATC
20475197 ATCGTCATC
1 ATCGTCATC
*
20475206 ATCCTCATC
1 ATCGTCATC
*
20475215 GTCTTGATCATC
1 ATC--G-TCATC
20475227 ATCGTCATC
1 ATCGTCATC
20475236 A
1 A
20475237 AAGTCATCTT
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
9 30 0.79
10 1 0.03
12 7 0.18
ACGTcount: A:0.24, C:0.34, G:0.09, T:0.33
Consensus pattern (9 bp):
ATCGTCATC
Found at i:20475206 original size:15 final size:15
Alignment explanation
Indices: 20475186--20475236 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
20475176 GTTATCGTCA
20475186 TCATCACCATCATCG
1 TCATCACCATCATCG
20475201 TCATCATCC-TCATCG
1 TCATCA-CCATCATCG
* * *
20475216 TCTTGATCATCATCG
1 TCATCACCATCATCG
20475231 TCATCA
1 TCATCA
20475237 AAGTCATCTT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
14 1 0.03
15 26 0.90
16 2 0.07
ACGTcount: A:0.24, C:0.35, G:0.08, T:0.33
Consensus pattern (15 bp):
TCATCACCATCATCG
Found at i:20480417 original size:181 final size:180
Alignment explanation
Indices: 20480107--20480448 Score: 533
Period size: 181 Copynumber: 1.9 Consensus size: 180
20480097 AAGGAAATAT
* * *
20480107 TCTAAAGTTCTACTAGTGAAGGGGCATTTGAGCCTATGCAGATGCAGATTGGGCAGGCCCTCCTA
1 TCTAAAGTTCTACTAGTGAAGGGGCATTCGAGCCTATGCAGATGCAAATTGGGCAGACCCTCCTA
* * * *
20480172 TAAATAGGAAGTCTGCATTTGGTTATGCTATCTTCCTTGGGAGAAATCTAGTGTCCTAGAAGAGC
66 CAAATAGAAAGTCTACATCTGGTTATGCTATCTTCCTTGGGAGAAATCTAGTGTCCTAGAAGAGC
20480237 AAGAAGCAGCAAGTAGTTGCTAGGTCTAGCGTAGAAGTATAGATAGGAAG
131 AAGAAGCAGCAAGTAGTTGCTAGGTCTAGCGTAGAAGTATAGATAGGAAG
* * *
20480287 TCTAAAGTTCTACTAGTGATGGGGGTATTCGAGCCTATGCAGATGCAAATTGGGCA-ACTTCTCC
1 TCTAAAGTTCTACTAGTGA-AGGGGCATTCGAGCCTATGCAGATGCAAATTGGGCAGAC-CCTCC
** * *
20480351 TACGGATAGAAAGTCTACATCTGGTTATGCTATCTTCCTTGGGAGTAATCTAGTGTCCTGGAAGA
64 TACAAATAGAAAGTCTACATCTGGTTATGCTATCTTCCTTGGGAGAAATCTAGTGTCCTAGAAGA
20480416 GCAAGAAGCAGCAAGTAGTTGCTAGGTCTAGCG
129 GCAAGAAGCAGCAAGTAGTTGCTAGGTCTAGCG
20480449 CTGAAGCAAA
Statistics
Matches: 146, Mismatches: 14, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
180 20 0.14
181 126 0.86
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.27
Consensus pattern (180 bp):
TCTAAAGTTCTACTAGTGAAGGGGCATTCGAGCCTATGCAGATGCAAATTGGGCAGACCCTCCTA
CAAATAGAAAGTCTACATCTGGTTATGCTATCTTCCTTGGGAGAAATCTAGTGTCCTAGAAGAGC
AAGAAGCAGCAAGTAGTTGCTAGGTCTAGCGTAGAAGTATAGATAGGAAG
Found at i:20486711 original size:16 final size:16
Alignment explanation
Indices: 20486690--20486724 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
20486680 ATTCAAATCC
20486690 TTGTGAGTTATTTTT-T
1 TTGTGAGTT-TTTTTGT
20486706 TTGTGAGTTTTTTTGT
1 TTGTGAGTTTTTTTGT
20486722 TTG
1 TTG
20486725 CAGTTAATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.09, C:0.00, G:0.23, T:0.69
Consensus pattern (16 bp):
TTGTGAGTTTTTTTGT
Found at i:20489493 original size:21 final size:21
Alignment explanation
Indices: 20489469--20489532 Score: 110
Period size: 21 Copynumber: 3.0 Consensus size: 21
20489459 GGTTTAATAT
*
20489469 TTTTCTTACTCTTGGTATTGG
1 TTTTCTTACTCTTGGTACTGG
20489490 TTTTCTTACTCTTGGTACTGG
1 TTTTCTTACTCTTGGTACTGG
*
20489511 TCTTCTTACTCTTGGTACTGG
1 TTTTCTTACTCTTGGTACTGG
20489532 T
1 T
20489533 ATCGACCCAG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.09, C:0.19, G:0.19, T:0.53
Consensus pattern (21 bp):
TTTTCTTACTCTTGGTACTGG
Found at i:20489845 original size:15 final size:14
Alignment explanation
Indices: 20489825--20489872 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
20489815 TAAAAATTTA
*
20489825 TAATAATGAATAATT
1 TAATAAT-AATAAAT
20489840 TAATAATAATAAAT
1 TAATAATAATAAAT
20489854 TAAT--TAAT--AT
1 TAATAATAATAAAT
20489864 TAATAATAA
1 TAATAATAA
20489873 ATTAATAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
10 6 0.20
12 7 0.23
14 10 0.33
15 7 0.23
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (14 bp):
TAATAATAATAAAT
Found at i:20489847 original size:18 final size:17
Alignment explanation
Indices: 20489813--20489881 Score: 70
Period size: 18 Copynumber: 4.0 Consensus size: 17
20489803 GACGTAGGTA
*
20489813 AATAAAAATTT-ATAAT
1 AATAATAATTTAATAAT
20489829 AATGAATAATTTAATAAT
1 AAT-AATAATTTAATAAT
*
20489847 AATAAATTAA-TTAATATT
1 AAT-AA-TAATTTAATAAT
*
20489865 AATAATAAATTAATAAT
1 AATAATAATTTAATAAT
20489882 TTATTAAAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
16 6 0.13
17 16 0.36
18 20 0.44
19 3 0.07
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.39
Consensus pattern (17 bp):
AATAATAATTTAATAAT
Found at i:20489850 original size:21 final size:21
Alignment explanation
Indices: 20489824--20489884 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 21
20489814 ATAAAAATTT
*
20489824 ATAATAATGAATAATTTAATA
1 ATAATAATTAATAATTTAATA
20489845 ATAATAAATTAATTAATATTAATA
1 ATAAT-AATTAA-TAAT-TTAATA
20489869 AT-A-AATTAATAATTTA
1 ATAATAATTAATAATTTA
20489885 TTAAAAAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
19 3 0.08
20 4 0.11
21 11 0.31
22 5 0.14
23 5 0.14
24 8 0.22
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (21 bp):
ATAATAATTAATAATTTAATA
Found at i:20489887 original size:11 final size:11
Alignment explanation
Indices: 20489824--20489888 Score: 53
Period size: 11 Copynumber: 6.1 Consensus size: 11
20489814 ATAAAAATTT
*
20489824 ATAATA-ATGA
1 ATAATATATTA
* *
20489834 ATAATTTAATA
1 ATAATATATTA
*
20489845 ATAATAAATTA
1 ATAATATATTA
*
20489856 ATTA-ATATTA
1 ATAATATATTA
*
20489866 ATAATAAATTA
1 ATAATATATTA
*
20489877 ATAATTTATTA
1 ATAATATATTA
20489888 A
1 A
20489889 AAAAAAAAAA
Statistics
Matches: 41, Mismatches: 12, Indels: 3
0.73 0.21 0.05
Matches are distributed among these distances:
10 13 0.32
11 28 0.68
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (11 bp):
ATAATATATTA
Found at i:20493643 original size:15 final size:15
Alignment explanation
Indices: 20493623--20493652 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
20493613 GCAGCAAAAA
*
20493623 TGTCATGATCATCGT
1 TGTCATCATCATCGT
20493638 TGTCATCATCATCGT
1 TGTCATCATCATCGT
20493653 ATTTCCTGAA
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:0.23, G:0.17, T:0.40
Consensus pattern (15 bp):
TGTCATCATCATCGT
Found at i:20501323 original size:1 final size:1
Alignment explanation
Indices: 20501317--20501345 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
20501307 CATTTTCAGG
20501317 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
20501346 ATGGCCTGCG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:20512964 original size:23 final size:23
Alignment explanation
Indices: 20512933--20513003 Score: 79
Period size: 23 Copynumber: 3.0 Consensus size: 23
20512923 ATAAATTTAT
*
20512933 ATTTAATATATTATTAATAATAA
1 ATTTTATATATTATTAATAATAA
20512956 ATTTTATATATTATTAATAAATTAA
1 ATTTTATATATTATTAAT-AA-TAA
** *
20512981 ATAATATCATTTTATTAATAATA
1 ATTTTAT-ATATTATTAATAATA
20513004 TAAATCTCGT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
23 17 0.41
24 4 0.10
25 10 0.24
26 10 0.24
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (23 bp):
ATTTTATATATTATTAATAATAA
Found at i:20512973 original size:20 final size:21
Alignment explanation
Indices: 20512939--20512978 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
20512929 TTATATTTAA
20512939 TATATTATTAATAATAAATTT
1 TATATTATTAATAATAAATTT
*
20512960 TATA-TATTATTAATAAATT
1 TATATTATTAATAATAAATT
20512979 AAATAATATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TATATTATTAATAATAAATTT
Found at i:20513036 original size:13 final size:13
Alignment explanation
Indices: 20513018--20513057 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 13
20513008 TCTCGTTTCA
20513018 TTAATAAATTTTT
1 TTAATAAATTTTT
20513031 TTAATATTAATTTTT
1 TTAATA--AATTTTT
*
20513046 TTAATATATTTT
1 TTAATAAATTTT
20513058 AATTTATTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 11 0.46
15 13 0.54
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (13 bp):
TTAATAAATTTTT
Found at i:20513055 original size:17 final size:15
Alignment explanation
Indices: 20513024--20513052 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
20513014 TTCATTAATA
20513024 AATTTTTTTAATATT
1 AATTTTTTTAATATT
20513039 AATTTTTTTAATAT
1 AATTTTTTTAATAT
20513053 ATTTTAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
AATTTTTTTAATATT
Found at i:20513957 original size:79 final size:80
Alignment explanation
Indices: 20513871--20514023 Score: 227
Period size: 80 Copynumber: 1.9 Consensus size: 80
20513861 ATAATAATTA
** *
20513871 TTTTATATTATATTTAATTT-TATCTAAAGAAATGGATATGATTACAATGATGATTAATCATCCT
1 TTTTATATTATATTTAATTTATATCTAAAGAAAAAGATATGATTACAAGGATGATTAATCATCCT
*
20513935 TTTGGTATAAGATCT
66 TTTGATATAAGATCT
* * * *
20513950 TTTTATATTATATTTAGTTTATATTTAAAGAAAAAGATATGATTATAAGGATGATTAATCATTCT
1 TTTTATATTATATTTAATTTATATCTAAAGAAAAAGATATGATTACAAGGATGATTAATCATCCT
20514015 TTTGATATA
66 TTTGATATA
20514024 GAATGATTCA
Statistics
Matches: 65, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
79 19 0.29
80 46 0.71
ACGTcount: A:0.37, C:0.05, G:0.11, T:0.46
Consensus pattern (80 bp):
TTTTATATTATATTTAATTTATATCTAAAGAAAAAGATATGATTACAAGGATGATTAATCATCCT
TTTGATATAAGATCT
Found at i:20514097 original size:45 final size:45
Alignment explanation
Indices: 20514028--20514117 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
20514018 GATATAGAAT
*
20514028 GATTCAATTCTTTCAAAGTGGAGATGATTTTTTTTAATCCATAAG
1 GATTCAATTCTTTCAAAGTAGAGATGATTTTTTTTAATCCATAAG
20514073 GATTCAATTCTTTCAAAGTAGAGATGATTTTTTTTAATCCATAAG
1 GATTCAATTCTTTCAAAGTAGAGATGATTTTTTTTAATCCATAAG
20514118 ATTGATCTTA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.42
Consensus pattern (45 bp):
GATTCAATTCTTTCAAAGTAGAGATGATTTTTTTTAATCCATAAG
Found at i:20515000 original size:35 final size:33
Alignment explanation
Indices: 20514936--20515001 Score: 78
Period size: 35 Copynumber: 1.9 Consensus size: 33
20514926 ACTATATACA
*** *
20514936 ATATTATATATAATTTTAAACGTTTTTATATTT
1 ATATTATATATAATTTTAAAAAATATTATATTT
20514969 ATATTATATAATATATTTTAAAAAATATTATAT
1 ATATTATAT-ATA-ATTTTAAAAAATATTATAT
20515002 GTAATATATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 9 0.33
34 3 0.11
35 15 0.56
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (33 bp):
ATATTATATATAATTTTAAAAAATATTATATTT
Found at i:20515006 original size:26 final size:26
Alignment explanation
Indices: 20514969--20515032 Score: 105
Period size: 26 Copynumber: 2.5 Consensus size: 26
20514959 TTTTATATTT
20514969 ATATTATA--TAATATATTTTAAAAA
1 ATATTATATGTAATATATTTTAAAAA
20514993 ATATTATATGTAATATATTTTAAAAA
1 ATATTATATGTAATATATTTTAAAAA
*
20515019 ATATTTTATGTAAT
1 ATATTATATGTAAT
20515033 CCGAGTAGTT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
24 8 0.22
26 29 0.78
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (26 bp):
ATATTATATGTAATATATTTTAAAAA
Found at i:20528057 original size:13 final size:12
Alignment explanation
Indices: 20528021--20528059 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
20528011 AAATCTATTT
20528021 AAATATATTAAA
1 AAATATATTAAA
* *
20528033 AATTAAATTAAA
1 AAATATATTAAA
20528045 ATAATATATTAAA
1 A-AATATATTAAA
20528058 AA
1 AA
20528060 TTTTTACATT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
12 12 0.55
13 10 0.45
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAATATATTAAA
Found at i:20529791 original size:2 final size:2
Alignment explanation
Indices: 20529784--20529811 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
20529774 CAATCAAGTC
20529784 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20529812 GTCGTAACAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20530809 original size:32 final size:32
Alignment explanation
Indices: 20530773--20530836 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
20530763 GTGTCCTTAA
* * *
20530773 GATTTTTAGGACTTTGGATTTCATGGATTTTG
1 GATTTTGAGGACTTTGGATTTAAGGGATTTTG
* *
20530805 GATTTTGGGGAGTTTGGATTTAAGGGATTTTG
1 GATTTTGAGGACTTTGGATTTAAGGGATTTTG
20530837 AAAATTAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.19, C:0.03, G:0.31, T:0.47
Consensus pattern (32 bp):
GATTTTGAGGACTTTGGATTTAAGGGATTTTG
Found at i:20530831 original size:16 final size:16
Alignment explanation
Indices: 20530785--20530836 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
20530775 TTTTTAGGAC
* *
20530785 TTTGGATTTCATGGAT
1 TTTGGATTTAAGGGAT
** *
20530801 TTTGGATTTTGGGGAG
1 TTTGGATTTAAGGGAT
20530817 TTTGGATTTAAGGGAT
1 TTTGGATTTAAGGGAT
20530833 TTTG
1 TTTG
20530837 AAAATTAAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.17, C:0.02, G:0.33, T:0.48
Consensus pattern (16 bp):
TTTGGATTTAAGGGAT
Found at i:20531959 original size:20 final size:20
Alignment explanation
Indices: 20531936--20531984 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
20531926 TTTTTTTTTT
*
20531936 TTTTTGTTTCTGTTTTTGCG
1 TTTTTGTTTCTGTTTTTGCA
* * *
20531956 TTTTTTTTTTTTTTTTTGCA
1 TTTTTGTTTCTGTTTTTGCA
*
20531976 TTTCTGTTT
1 TTTTTGTTT
20531985 TGGGTATTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.02, C:0.08, G:0.12, T:0.78
Consensus pattern (20 bp):
TTTTTGTTTCTGTTTTTGCA
Found at i:20531986 original size:33 final size:32
Alignment explanation
Indices: 20531923--20531985 Score: 108
Period size: 32 Copynumber: 1.9 Consensus size: 32
20531913 CGAGGACTGT
20531923 GTTTTTTTTTTTTTTTTTGTTTCTGTTTTTGC
1 GTTTTTTTTTTTTTTTTTGTTTCTGTTTTTGC
20531955 GTTTTTTTTTTTTTTTTTGCATTTCTGTTTT
1 GTTTTTTTTTTTTTTTTTG--TTTCTGTTTT
20531986 GGGTATTTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 19 0.66
34 10 0.34
ACGTcount: A:0.02, C:0.06, G:0.11, T:0.81
Consensus pattern (32 bp):
GTTTTTTTTTTTTTTTTTGTTTCTGTTTTTGC
Found at i:20532328 original size:24 final size:23
Alignment explanation
Indices: 20532276--20532343 Score: 70
Period size: 23 Copynumber: 3.0 Consensus size: 23
20532266 ACTGCCTTCC
*
20532276 TTAATTTTTTTT-TTT-TATCTT
1 TTAATTTTTTTTGTTTGTATTTT
* *
20532297 CTATTTTTTTTTGTTTGGTATTTT
1 TTAATTTTTTTTGTTT-GTATTTT
20532321 TTAA-TTTTTTTGTTCTGTATTTT
1 TTAATTTTTTTTGTT-TGTATTTT
20532344 GTATTATTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
21 10 0.26
22 3 0.08
23 17 0.45
24 8 0.21
ACGTcount: A:0.12, C:0.04, G:0.07, T:0.76
Consensus pattern (23 bp):
TTAATTTTTTTTGTTTGTATTTT
Found at i:20532353 original size:23 final size:23
Alignment explanation
Indices: 20532302--20532354 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
20532292 ATCTTCTATT
*
20532302 TTTTTTTGTTTGGTATTTTTTAA
1 TTTTTTTGTTTGGTATTTTGTAA
20532325 TTTTTTTGTTCT-GTATTTTGT-A
1 TTTTTTTGTT-TGGTATTTTGTAA
20532347 TTATTTTT
1 TT-TTTTT
20532355 ATATTTCGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
22 3 0.11
23 23 0.85
24 1 0.04
ACGTcount: A:0.11, C:0.02, G:0.11, T:0.75
Consensus pattern (23 bp):
TTTTTTTGTTTGGTATTTTGTAA
Found at i:20532684 original size:73 final size:71
Alignment explanation
Indices: 20532616--20535142 Score: 2512
Period size: 73 Copynumber: 35.5 Consensus size: 71
20532606 TCGGGACGAC
** * * *
20532616 ACCGCGAGTCAAGGATTAAAGATGACAAGGACTGAATCGCGAGTCGAAGAGTTAATGAAATGACC
1 ACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTC-AAGA-ATAATGAAATGACC
20532681 GGGATTAA
64 GGGATTAA
* * * **
20532689 ACCACGAGTCAAGGATT-AAGAATGACTGGGACTGAACCGCAAGTCAA-AA-AATAAAATAACTA
1 ACCGCGAGTCAAGGATTAAAG-ATGACTGGGACTGAACCGCAAGTCAAGAATAATGAAATGACCG
20532751 GGATTAA
65 GGATTAA
** * * * *
20532758 ACCATGAGTCAAAGGA-TAAAGATGACTAGGACTGAACTGCAAGTC-AG-AGAATGAAAT-ATCG
1 ACCGCGAGTC-AAGGATTAAAGATGACTGGGACTGAACCGCAAGTCAAGAATAATGAAATGACCG
*
20532819 AGATTAA
65 GGATTAA
* * * * *
20532826 ACCGCGAGTCAAAGATTAGAGATGACTGGGACTAAATCGCAAGTCAGAGAATTAATGAAATGATC
1 ACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCA-AGAA-TAATGAAATGACC
20532891 GGGATTAA
64 GGGATTAA
* * * * *
20532899 ACCGCGAGTCAAGAATTAAAGATGACTGAGATTGAACCGTAAGTCGAAGAATTAATGAAATGACT
1 ACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTC-AAGAA-TAATGAAATGACC
*
20532964 GGGTTTAA
64 GGGATTAA
* * * * *
20532972 ACCGCGAGTCAAAGATTAAA-ATGACT-GAACTGAATCACAAGTCAGAGAATAAAATGAAATGAT
1 ACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCA-AGAAT--AATGAAATGAC
20533035 CGGGATTAA
63 CGGGATTAA
* *
20533044 ACCGCGAGTCAAGGATTAAAGATGACTGAGACTGAACCGCAAGTCAGAGAAT-A--AAATGACCA
1 ACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCA-AGAATAATGAAATGACCG
20533106 GGATTAA
65 GGATTAA
** * *
20533113 ACCATGAGTCAAGGATTAGAGATGACTGGGACTGAACCGCAAGTCAGAGAATAAAATGAAATGAT
1 ACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCA-AGAAT--AATGAAATGAC
20533178 CGGGATTAA
63 CGGGATTAA
* * *
20533187 ACCGTGAGTCAAGAATTAAAGATGACTGGGACTAAACCGCAAGTCGAAGAATTAATGAAATGACC
1 ACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTC-AAGAA-TAATGAAATGACC
*
20533252 GGGTTTAA
64 GGGATTAA
* * * ** * *
20533260 ATCGCGAGTCAAAGATTAAAG-TGATTGAAACTGAACCACAAGTCAGAGAATAAAATGAAATGAT
1 ACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCA-AGAAT--AATGAAATGAC
20533324 CGGGATTAA
63 CGGGATTAA
* * *
20533333 ACCGCGAGTCAAAGATTAAAGATGACTGGAACTGAACCGCAAGTCAGAGAATAAAATGAAACGAC
1 ACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCA-AGAAT--AATGAAATGAC
20533398 CGGGATTAA
63 CGGGATTAA
* * * * *
20533407 ATCGCGAGTCAAGGATTAAAGATGACTGGGACTAAACCGTAAGTCAGAGAAT-A--AAATGATCA
1 ACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCA-AGAATAATGAAATGACCG
20533469 GGATTAA
65 GGATTAA
** * *
20533476 ACCATGAGTCAAGGATTAGAGATGACTGGGACTAAACCGCAAGTCAGAGAAT--T--AATGACCG
1 ACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCA-AGAATAATGAAATGACCG
20533537 GGATTAA
65 GGATTAA
** * * *
20533544 ACCATGAGTCAAGGATTAAAAATGACTGGGACTGAACCGTAAGTCAGAGAAT--T--AATGATCG
1 ACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCA-AGAATAATGAAATGACCG
20533605 GGATTAA
65 GGATTAA
* * *
20533612 ATCACGAGTCAAGGATTAAAGATGACTAGGACTGAACCGCAAGTC-A-AA-AATGAAATGACCGG
1 ACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCAAGAATAATGAAATGACCGG
20533674 GATTAA
66 GATTAA
* *
20533680 ACCGCGAGTCAAAGATTAAAGATGACTGGGACTGAACCACAAGTCGAAGAATTAATGAAATGACC
1 ACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTC-AAGAA-TAATGAAATGACC
20533745 GGGATTAA
64 GGGATTAA
* * * * * *
20533753 ATCGCGAGTCAAGGATTAAAGATGACTGGGAATAAATCGTAAGTCAGAGAAT-A--AAATGACCA
1 ACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCA-AGAATAATGAAATGACCG
20533815 GGATTAA
65 GGATTAA
** * * * * *
20533822 ACCATGAGTCAAGGATTAGAGATGACTGGGATTGAATCGTAAGTCAGAGAAT--T--AATGACCA
1 ACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCA-AGAATAATGAAATGACCG
20533883 GGATTAA
65 GGATTAA
* * * * *
20533890 ACCGTGAGTCAATGATTAAAAATGACTGCGATTGAACCGCAAGTCAGAGAATGAAATGAAATGAC
1 ACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCA-AGAAT--AATGAAATGAC
20533955 CGGGATTAA
63 CGGGATTAA
* * * *
20533964 ACCGCGAGTCAAGAATTAAAGATGACTGGGATTGAACCACAAGTCAGAGAAT-A--AAATGACCA
1 ACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCA-AGAATAATGAAATGACCG
20534026 GGATTAA
65 GGATTAA
** * * * * *
20534033 ACCATGAGTCAAAGATTAAAAATGACTGCGACTGAACCGTAAGTCAGAGAATGAAATGAAATGAT
1 ACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCA-AGAAT--AATGAAATGAC
20534098 CGGGATTAA
63 CGGGATTAA
* * * *
20534107 ACCGCGAGTTAAGAATTAAAGATGACTGGGACTGAACCGCAAATCAGAGAAT-A--AAATGACCA
1 ACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCA-AGAATAATGAAATGACCG
20534169 GGATTAA
65 GGATTAA
** * *
20534176 ACCATGAGTCAAGGATTAGAGATGACTGGGACTGAACCGCAAGTCAGAGAAT--T--AATGATCG
1 ACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCA-AGAATAATGAAATGACCG
20534237 GGATTAA
65 GGATTAA
* * * * *
20534244 ACCACGAGTCAAGGATTAAAGATGACTAGGACTGAACCGTAAGTCAGAGTCAGAGAATAAAATGA
1 ACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCA-AG--A-ATAATGAAATGA
*
20534309 TCGGGATTAA
62 CCGGGATTAA
* * * * * *
20534319 TCCGTGAGTCAAAGCTTAAAGATGACTGGGACTGAATCGCAAGTC-AG-AGAATGAAATGACCGG
1 ACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCAAGAATAATGAAATGACCGG
20534382 GATTAA
66 GATTAA
* * * * *
20534388 ACCGCGAGTCAAAGATTAAAGATGATTGAGATTGAACCGCATGTCAGAGAAATAATGAAATGACC
1 ACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCA-AG-AATAATGAAATGACC
20534453 GGGATTAA
64 GGGATTAA
** * * * * * * **
20534461 ACCATGAGTCAAAGATTAAAGATTATTGTGATTGAACCGCAAGTC-AG-ATAATGAAATCACCTA
1 ACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCAAGAATAATGAAATGACCGG
20534524 GATTAA
66 GATTAA
* * * * *
20534530 ACCACGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTTAGAGAATGAAATGAAATGAT
1 ACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCA-AGAAT--AATGAAATGAC
20534595 CGGGATTAA
63 CGGGATTAA
* * * * *
20534604 ACCACGAGTCAAAGATTAAAGATGACTGGGATTGAATCGCAAGTCAAAGAAT-A--AAATGATCG
1 ACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTC-AAGAATAATGAAATGACCG
20534666 GGATTAA
65 GGATTAA
* * * * * * *
20534673 ATCACGAGTCAAAGATTAAAGATGACTGGGATTGAACCGTAAGTCAATAAATAATGAAATGATCG
1 ACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCAA-GAATAATGAAATGACCG
20534738 GGATTAA
65 GGATTAA
* * * *
20534745 ACCGCGAGTCAAGAATTAAAGATGACTGAGACTGAATCGCAAGTCGAAGAATTAATGAAATGATC
1 ACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTC-AAGAA-TAATGAAATGACC
*
20534810 GAGATTAA
64 GGGATTAA
* * * *
20534818 ACCGCGAGTCAAAGAATAAAGATGACTGGGACTGAACCGTAAGTCAGAGAATTAATGAAATGATC
1 ACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCA-AGAA-TAATGAAATGACC
20534883 GGGATTAA
64 GGGATTAA
* * ** *
20534891 ATCACGAGTCAAAGGA-TAAAGATGACTGGGACTGAACCTTAAGTCAGAGAATTAATGAAATGAT
1 ACCGCGAGTC-AAGGATTAAAGATGACTGGGACTGAACCGCAAGTCA-AGAA-TAATGAAATGAC
20534955 CGGGATTAA
63 CGGGATTAA
* * ** * * * **
20534964 ATCGTGAGTCAAATATTAAATATGATTGGGACTGAACCACAAGTCAGAGAATTAATGAAATGATT
1 ACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCA-AGAA-TAATGAAATGACC
*
20535029 GAGATTAA
64 GGGATTAA
* * * *
20535037 ACCGCGAGTCAAAGATTAAATATGACTGGGATTGAACCGCAAGTCGAAGAATTAATGAAATGACT
1 ACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTC-AAGAA-TAATGAAATGACC
20535102 GGGATTAA
64 GGGATTAA
20535110 ACCGCGAGTCAAGGATTAAAGATGACTGGGACT
1 ACCGCGAGTCAAGGATTAAAGATGACTGGGACT
20535143 AAATCGTAAG
Statistics
Matches: 2110, Mismatches: 265, Indels: 158
0.83 0.10 0.06
Matches are distributed among these distances:
65 2 0.00
66 2 0.00
67 4 0.00
68 331 0.16
69 533 0.25
70 15 0.01
71 34 0.02
72 143 0.07
73 631 0.30
74 360 0.17
75 55 0.03
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.20
Consensus pattern (71 bp):
ACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCAAGAATAATGAAATGACCGG
GATTAA
Found at i:20532975 original size:38 final size:37
Alignment explanation
Indices: 20532657--20535145 Score: 787
Period size: 35 Copynumber: 69.9 Consensus size: 37
20532647 CTGAATCGCG
* * * *
20532657 AGTCGAAGAGTTAATGAAATGACCGGGATTAAACCACG
1 AGTC-AAGAATTAATGAAATGACTGGGATTAAACCGCA
* * *
20532695 AGTCAAGGATTAA-G-AATGACTGGGACTGAACCGCA
1 AGTCAAGAATTAATGAAATGACTGGGATTAAACCGCA
* * * ***
20532730 AGTCAA-AA--AATAAAATAACTAGGATTAAACCATG
1 AGTCAAGAATTAATGAAATGACTGGGATTAAACCGCA
* * * * * *
20532764 AGTCAAAGGA-TAA--AGATGACTAGGACTGAACTGCA
1 AGTC-AAGAATTAATGAAATGACTGGGATTAAACCGCA
* * *
20532799 AGTC-AG-A-GAATGAAAT-A-TCGAGATTAAACCGCG
1 AGTCAAGAATTAATGAAATGACT-GGGATTAAACCGCA
* * *
20532832 AGTCAA-AGATT-A-GAGATGACTGGGACTAAATCGCA
1 AGTCAAGA-ATTAATGAAATGACTGGGATTAAACCGCA
*
20532867 AGTCAGAGAATTAATGAAATGA-TCGGGATTAAACCGCG
1 AGTCA-AGAATTAATGAAATGACT-GGGATTAAACCGCA
* * * *
20532905 AGTCAAGAATTAA--AGATGACTGAGATTGAACCGTA
1 AGTCAAGAATTAATGAAATGACTGGGATTAAACCGCA
* *
20532940 AGTCGAAGAATTAATGAAATGACTGGGTTTAAACCGCG
1 AGTC-AAGAATTAATGAAATGACTGGGATTAAACCGCA
* * * * *
20532978 AGTCAA-AGATT-A--AAATGACT-GAACTGAATCACA
1 AGTCAAGA-ATTAATGAAATGACTGGGATTAAACCGCA
* *
20533011 AGTCAGAGAATAAAATGAAATGA-TCGGGATTAAACCGCG
1 AGTCA-AGAAT-TAATGAAATGACT-GGGATTAAACCGCA
* * * * *
20533050 AGTCAAGGATTAA--AGATGACTGAGACTGAACCGCA
1 AGTCAAGAATTAATGAAATGACTGGGATTAAACCGCA
** ***
20533085 AGTCAGAGAA-T-A--AAATGACCAGGATTAAACCATG
1 AGTCA-AGAATTAATGAAATGACTGGGATTAAACCGCA
* * * *
20533119 AGTCAAGGATT-A-GAGATGACTGGGACTGAACCGCA
1 AGTCAAGAATTAATGAAATGACTGGGATTAAACCGCA
* **
20533154 AGTCAGAGAATAAAATGAAATGA-TCGGGATTAAACCGTG
1 AGTCA-AGAAT-TAATGAAATGACT-GGGATTAAACCGCA
* *
20533193 AGTCAAGAATTAA--AGATGACTGGGACTAAACCGCA
1 AGTCAAGAATTAATGAAATGACTGGGATTAAACCGCA
* * * *
20533228 AGTCGAAGAATTAATGAAATGACCGGGTTTAAATCGCG
1 AGTC-AAGAATTAATGAAATGACTGGGATTAAACCGCA
* * ** * * *
20533266 AGTCAA-AGATT-A--AAGTGATTGAAACTGAACCACA
1 AGTCAAGA-ATTAATGAAATGACTGGGATTAAACCGCA
* *
20533300 AGTCAGAGAATAAAATGAAATGA-TCGGGATTAAACCGCG
1 AGTCA-AGAAT-TAATGAAATGACT-GGGATTAAACCGCA
* * * *
20533339 AGTCAA-AGATTAA--AGATGACTGGAACTGAACCGCA
1 AGTCAAGA-ATTAATGAAATGACTGGGATTAAACCGCA
* * * * *
20533374 AGTCAGAGAATAAAATGAAACGACCGGGATTAAATCGCG
1 AGTCA-AGAAT-TAATGAAATGACTGGGATTAAACCGCA
* * * *
20533413 AGTCAAGGATTAA--AGATGACTGGGACTAAACCGTA
1 AGTCAAGAATTAATGAAATGACTGGGATTAAACCGCA
* ***
20533448 AGTCAGAGAA-T-A--AAATGA-TCAGGATTAAACCATG
1 AGTCA-AGAATTAATGAAATGACT-GGGATTAAACCGCA
* * *
20533482 AGTCAAGGATT-A-GAGATGACTGGGACTAAACCGCA
1 AGTCAAGAATTAATGAAATGACTGGGATTAAACCGCA
* ***
20533517 AGTCAGAGAA-T--T--AATGACCGGGATTAAACCATG
1 AGTCA-AGAATTAATGAAATGACTGGGATTAAACCGCA
* * * *
20533550 AGTCAAGGATTAA--AAATGACTGGGACTGAACCGTA
1 AGTCAAGAATTAATGAAATGACTGGGATTAAACCGCA
* * *
20533585 AGTCAGAGAATTAATG--AT--C-GGGATTAAATCACG
1 AGTCA-AGAATTAATGAAATGACTGGGATTAAACCGCA
* * * * *
20533618 AGTCAAGGATTAA--AGATGACTAGGACTGAACCGCA
1 AGTCAAGAATTAATGAAATGACTGGGATTAAACCGCA
* *
20533653 AGTC-A-AA--AATGAAATGACCGGGATTAAACCGCG
1 AGTCAAGAATTAATGAAATGACTGGGATTAAACCGCA
* * * *
20533686 AGTCAA-AGATTAA--AGATGACTGGGACTGAACCACA
1 AGTCAAGA-ATTAATGAAATGACTGGGATTAAACCGCA
* * *
20533721 AGTCGAAGAATTAATGAAATGACCGGGATTAAATCGCG
1 AGTC-AAGAATTAATGAAATGACTGGGATTAAACCGCA
* * * * *
20533759 AGTCAAGGATTAA--AGATGACTGGGAATAAATCGTA
1 AGTCAAGAATTAATGAAATGACTGGGATTAAACCGCA
** ***
20533794 AGTCAGAGAA-T-A--AAATGACCAGGATTAAACCATG
1 AGTCA-AGAATTAATGAAATGACTGGGATTAAACCGCA
* * * * *
20533828 AGTCAAGGATT-A-GAGATGACTGGGATTGAATCGTA
1 AGTCAAGAATTAATGAAATGACTGGGATTAAACCGCA
** **
20533863 AGTCAGAGAA-T--T--AATGACCAGGATTAAACCGTG
1 AGTCA-AGAATTAATGAAATGACTGGGATTAAACCGCA
* *
20533896 AGTCAATG-ATTAA--AAATGACTGCGATTGAACCGCA
1 AGTCAA-GAATTAATGAAATGACTGGGATTAAACCGCA
* * *
20533931 AGTCAGAGAATGAAATGAAATGACCGGGATTAAACCGCG
1 AGTCA-AGAAT-TAATGAAATGACTGGGATTAAACCGCA
* * *
20533970 AGTCAAGAATTAA--AGATGACTGGGATTGAACCACA
1 AGTCAAGAATTAATGAAATGACTGGGATTAAACCGCA
** ***
20534005 AGTCAGAGAA-T-A--AAATGACCAGGATTAAACCATG
1 AGTCA-AGAATTAATGAAATGACTGGGATTAAACCGCA
* * * *
20534039 AGTCAA-AGATTAA--AAATGACTGCGACTGAACCGTA
1 AGTCAAGA-ATTAATGAAATGACTGGGATTAAACCGCA
* *
20534074 AGTCAGAGAATGAAATGAAATGA-TCGGGATTAAACCGCG
1 AGTCA-AGAAT-TAATGAAATGACT-GGGATTAAACCGCA
* * * *
20534113 AGTTAAGAATTAA--AGATGACTGGGACTGAACCGCA
1 AGTCAAGAATTAATGAAATGACTGGGATTAAACCGCA
* ** ***
20534148 AATCAGAGAA-T-A--AAATGACCAGGATTAAACCATG
1 AGTCA-AGAATTAATGAAATGACTGGGATTAAACCGCA
* * * *
20534182 AGTCAAGGATT-A-GAGATGACTGGGACTGAACCGCA
1 AGTCAAGAATTAATGAAATGACTGGGATTAAACCGCA
* *
20534217 AGTCAGAGAATTAATG--AT--C-GGGATTAAACCACG
1 AGTCA-AGAATTAATGAAATGACTGGGATTAAACCGCA
* * * * * *
20534250 AGTCAAGGATTAA--AGATGACTAGGACTGAACCGTA
1 AGTCAAGAATTAATGAAATGACTGGGATTAAACCGCA
* * * **
20534285 AGTCAGAGTCAGA-GAATAAAATGA-TCGGGATTAATCCGTG
1 AGTCA-AG--A-ATTAATGAAATGACT-GGGATTAAACCGCA
* * * * *
20534325 AGTCAA-AGCTTAA--AGATGACTGGGACTGAATCGCA
1 AGTCAAGA-ATTAATGAAATGACTGGGATTAAACCGCA
* * *
20534360 AGTC-AG-A-GAATGAAATGACCGGGATTAAACCGCG
1 AGTCAAGAATTAATGAAATGACTGGGATTAAACCGCA
* * * *
20534394 AGTCAA-AGATTAA--AGATGATTGAGATTGAACCGCA
1 AGTCAAGA-ATTAATGAAATGACTGGGATTAAACCGCA
* * * ***
20534429 TGTCAGAGAAATAATGAAATGACCGGGATTAAACCATG
1 AGTCA-AGAATTAATGAAATGACTGGGATTAAACCGCA
* * * * *
20534467 AGTCAA-AGATTAA--AGATTATTGTGATTGAACCGCA
1 AGTCAAGA-ATTAATGAAATGACTGGGATTAAACCGCA
* * * *
20534502 AGTC-AG-A-TAATGAAATCACCT-AGATTAAACCACG
1 AGTCAAGAATTAATGAAATGA-CTGGGATTAAACCGCA
* *
20534536 AGTCAA-AGATTAA--AGATGACTGGGATTGAACCGCA
1 AGTCAAGA-ATTAATGAAATGACTGGGATTAAACCGCA
* * * *
20534571 AGTTAGAGAATGAAATGAAATGA-TCGGGATTAAACCACG
1 AGTCA-AGAAT-TAATGAAATGACT-GGGATTAAACCGCA
* * *
20534610 AGTCAA-AGATTAA--AGATGACTGGGATTGAATCGCA
1 AGTCAAGA-ATTAATGAAATGACTGGGATTAAACCGCA
* * *
20534645 AGTCAAAGAA-T-A--AAATGA-TCGGGATTAAATCACG
1 AGTC-AAGAATTAATGAAATGACT-GGGATTAAACCGCA
* * *
20534679 AGTCAA-AGATTAA--AGATGACTGGGATTGAACCGTA
1 AGTCAAGA-ATTAATGAAATGACTGGGATTAAACCGCA
* * *
20534714 AGTCAATAAATAATGAAATGA-TCGGGATTAAACCGCG
1 AGTCAAGAATTAATGAAATGACT-GGGATTAAACCGCA
* * * * *
20534751 AGTCAAGAATTAA--AGATGACTGAGACTGAATCGCA
1 AGTCAAGAATTAATGAAATGACTGGGATTAAACCGCA
* *
20534786 AGTCGAAGAATTAATGAAATGA-TCGAGATTAAACCGCG
1 AGTC-AAGAATTAATGAAATGACT-GGGATTAAACCGCA
* * * *
20534824 AGTCAAAGAA-TAA--AGATGACTGGGACTGAACCGTA
1 AGTC-AAGAATTAATGAAATGACTGGGATTAAACCGCA
* * *
20534859 AGTCAGAGAATTAATGAAATGA-TCGGGATTAAATCACG
1 AGTCA-AGAATTAATGAAATGACT-GGGATTAAACCGCA
* * * * **
20534897 AGTCAAAGGA-TAA--AGATGACTGGGACTGAACCTTA
1 AGTC-AAGAATTAATGAAATGACTGGGATTAAACCGCA
* **
20534932 AGTCAGAGAATTAATGAAATGA-TCGGGATTAAATCGTG
1 AGTCA-AGAATTAATGAAATGACT-GGGATTAAACCGCA
* * * * *
20534970 AGTCAA-ATATTAA--ATATGATTGGGACTGAACCACA
1 AGTCAAGA-ATTAATGAAATGACTGGGATTAAACCGCA
* * *
20535005 AGTCAGAGAATTAATGAAATGATTGAGATTAAACCGCG
1 AGTCA-AGAATTAATGAAATGACTGGGATTAAACCGCA
* *
20535043 AGTCAA-AGATTAA--ATATGACTGGGATTGAACCGCA
1 AGTCAAGA-ATTAATGAAATGACTGGGATTAAACCGCA
*
20535078 AGTCGAAGAATTAATGAAATGACTGGGATTAAACCGCG
1 AGTC-AAGAATTAATGAAATGACTGGGATTAAACCGCA
* * *
20535116 AGTCAAGGATTAA--AGATGACTGGGACTAAA
1 AGTCAAGAATTAATGAAATGACTGGGATTAAA
20535146 TCGTAAGTTA
Statistics
Matches: 1769, Mismatches: 478, Indels: 411
0.67 0.18 0.15
Matches are distributed among these distances:
31 2 0.00
32 36 0.02
33 138 0.08
34 237 0.13
35 652 0.37
36 153 0.09
37 143 0.08
38 253 0.14
39 136 0.08
40 19 0.01
ACGTcount: A:0.42, C:0.14, G:0.24, T:0.20
Consensus pattern (37 bp):
AGTCAAGAATTAATGAAATGACTGGGATTAAACCGCA
Found at i:20533205 original size:143 final size:142
Alignment explanation
Indices: 20532600--20535142 Score: 2492
Period size: 143 Copynumber: 17.8 Consensus size: 142
20532590 ATAATAAAGA
** * * ** * *
20532600 AAATGATCGGGACGACACCGCGAGTCAAGGATTAAAGATGACAAGGACTGAATCGCGAGTCGAAG
1 AAATGATCGGGATTAAACCGCGAGTCAAGAATTAAAGATGACTGGGACTGAACCGCAAGTC--AG
* * *
20532665 AGTTAATGAAATGACCGGGATTAAACCACGAGTCAAGGATT-AAGAATGACTGGGACTGAACCGC
64 AG--AATAAAATGACCGGGATTAAACCGCGAGTCAAAGATTAAAG-ATGACTGGGACTGAACCGC
*
20532729 AAGTCA-A-AA--AATA
126 AAGTCAGAGAATTAATG
* * ** * * *
20532742 AAAT-AACTAGGATTAAACCATGAGTCAAAGGA-TAAAGATGACTAGGACTGAACTGCAAGTCAG
1 AAATGATC-GGGATTAAACCGCGAGTC-AAGAATTAAAGATGACTGGGACTGAACCGCAAGTCAG
* * * * * *
20532805 AGAATGAAAT-ATCGAGATTAAACCGCGAGTCAAAGATTAGAGATGACTGGGACTAAATCGCAAG
64 AGAATAAAATGACCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGACTGAACCGCAAG
20532869 TCAGAGAATTAATG
129 TCAGAGAATTAATG
* * *
20532883 AAATGATCGGGATTAAACCGCGAGTCAAGAATTAAAGATGACTGAGATTGAACCGTAAGTC-GAA
1 AAATGATCGGGATTAAACCGCGAGTCAAGAATTAAAGATGACTGGGACTGAACCGCAAGTCAG-A
* * * * *
20532947 GAATTAATGAAATGACTGGGTTTAAACCGCGAGTCAAAGATTAAA-ATGACT-GAACTGAATCAC
65 GAA-T-A--AAATGACCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGACTGAACCGC
*
20533010 AAGTCAGAGAATAAAATG
126 AAGTCAGAGAAT-TAATG
* *
20533028 AAATGATCGGGATTAAACCGCGAGTCAAGGATTAAAGATGACTGAGACTGAACCGCAAGTCAGAG
1 AAATGATCGGGATTAAACCGCGAGTCAAGAATTAAAGATGACTGGGACTGAACCGCAAGTCAGAG
* ** * *
20533093 AATAAAATGACCAGGATTAAACCATGAGTCAAGGATTAGAGATGACTGGGACTGAACCGCAAGTC
66 AATAAAATGACCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGACTGAACCGCAAGTC
*
20533158 AGAGAATAAAATG
131 AGAGAAT-TAATG
* *
20533171 AAATGATCGGGATTAAACCGTGAGTCAAGAATTAAAGATGACTGGGACTAAACCGCAAGTC-GAA
1 AAATGATCGGGATTAAACCGCGAGTCAAGAATTAAAGATGACTGGGACTGAACCGCAAGTCAG-A
* * * ** *
20533235 GAATTAATGAAATGACCGGGTTTAAATCGCGAGTCAAAGATTAAAG-TGATTGAAACTGAACCAC
65 GAA-T-A--AAATGACCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGACTGAACCGC
*
20533299 AAGTCAGAGAATAAAATG
126 AAGTCAGAGAAT-TAATG
*
20533317 AAATGATCGGGATTAAACCGCGAGTCAA-AGATTAAAGATGACTGGAACTGAACCGCAAGTCAGA
1 AAATGATCGGGATTAAACCGCGAGTCAAGA-ATTAAAGATGACTGGGACTGAACCGCAAGTCAGA
* * *
20533381 GAATAAAATGAAACGACCGGGATTAAATCGCGAGTCAAGGATTAAAGATGACTGGGACTAAACCG
65 GAATAAAAT-----GACCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGACTGAACCG
*
20533446 TAAGTCAGAGAA-T-A--
125 CAAGTCAGAGAATTAATG
* ** * * *
20533460 AAATGATCAGGATTAAACCATGAGTCAAGGATTAGAGATGACTGGGACTAAACCGCAAGTCAGAG
1 AAATGATCGGGATTAAACCGCGAGTCAAGAATTAAAGATGACTGGGACTGAACCGCAAGTCAGAG
* ** * * *
20533525 AAT-TAATGACCGGGATTAAACCATGAGTCAAGGATTAAAAATGACTGGGACTGAACCGTAAGTC
66 AATAAAATGACCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGACTGAACCGCAAGTC
20533589 AGAGAA-T--T-
131 AGAGAATTAATG
* * * * *
20533597 -AATGATCGGGATTAAATCACGAGTCAAGGATTAAAGATGACTAGGACTGAACCGCAAGTCA-AA
1 AAATGATCGGGATTAAACCGCGAGTCAAGAATTAAAGATGACTGGGACTGAACCGCAAGTCAGAG
* *
20533660 AATGAAATGACCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGACTGAACCACAAGTC
66 AATAAAATGACCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGACTGAACCGCAAGTC
20533725 -GAAGAATTAATG
131 AG-AGAATTAATG
* * * * * * *
20533737 AAATGACCGGGATTAAATCGCGAGTCAAGGATTAAAGATGACTGGGAATAAATCGTAAGTCAGAG
1 AAATGATCGGGATTAAACCGCGAGTCAAGAATTAAAGATGACTGGGACTGAACCGCAAGTCAGAG
* ** * * * * *
20533802 AATAAAATGACCAGGATTAAACCATGAGTCAAGGATTAGAGATGACTGGGATTGAATCGTAAGTC
66 AATAAAATGACCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGACTGAACCGCAAGTC
20533867 AGAGAA-T--T-
131 AGAGAATTAATG
* * * * * *
20533875 -AATGACCAGGATTAAACCGTGAGTCAATG-ATTAAAAATGACTGCGATTGAACCGCAAGTCAGA
1 AAATGATCGGGATTAAACCGCGAGTCAA-GAATTAAAGATGACTGGGACTGAACCGCAAGTCAGA
*
20533938 GAATGAAATGAAATGACCGGGATTAAACCGCGAGTC-AAGAATTAAAGATGACTGGGATTGAACC
65 GAAT---A--AAATGACCGGGATTAAACCGCGAGTCAAAG-ATTAAAGATGACTGGGACTGAACC
*
20534002 ACAAGTCAGAGAA-T-A--
124 GCAAGTCAGAGAATTAATG
* * ** * * *
20534017 AAATGACCAGGATTAAACCATGAGTCAA-AGATTAAAAATGACTGCGACTGAACCGTAAGTCAGA
1 AAATGATCGGGATTAAACCGCGAGTCAAGA-ATTAAAGATGACTGGGACTGAACCGCAAGTCAGA
* *
20534081 GAATGAAATGAAATGATCGGGATTAAACCGCGAGT-TAAGAATTAAAGATGACTGGGACTGAACC
65 GAAT---A--AAATGACCGGGATTAAACCGCGAGTCAAAG-ATTAAAGATGACTGGGACTGAACC
*
20534145 GCAAATCAGAGAA-T-A--
124 GCAAGTCAGAGAATTAATG
* * ** * *
20534160 AAATGACCAGGATTAAACCATGAGTCAAGGATTAGAGATGACTGGGACTGAACCGCAAGTCAGAG
1 AAATGATCGGGATTAAACCGCGAGTCAAGAATTAAAGATGACTGGGACTGAACCGCAAGTCAGAG
* * * * * *
20534225 AAT-TAATGATCGGGATTAAACCACGAGTCAAGGATTAAAGATGACTAGGACTGAACCGTAAGTC
66 AATAAAATGACCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGACTGAACCGCAAGTC
* *
20534289 AGAGTCAGA-GAATA
131 AGAG--A-ATTAATG
* * * *
20534303 AAATGATCGGGATTAATCCGTGAGTCAA-AGCTTAAAGATGACTGGGACTGAATCGCAAGTCAGA
1 AAATGATCGGGATTAAACCGCGAGTCAAGA-ATTAAAGATGACTGGGACTGAACCGCAAGTCAGA
* * * * *
20534367 GAATGAAATGACCGGGATTAAACCGCGAGTCAAAGATTAAAGATGATTGAGATTGAACCGCATGT
65 GAATAAAATGACCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGACTGAACCGCAAGT
*
20534432 CAGAGAAATAATG
130 CAGAGAATTAATG
* ** * * * *
20534445 AAATGACCGGGATTAAACCATGAGTCAA-AGATTAAAGATTATTGTGATTGAACCGCAAGTCAGA
1 AAATGATCGGGATTAAACCGCGAGTCAAGA-ATTAAAGATGACTGGGACTGAACCGCAAGTCAGA
* * * ** * *
20534509 TAATGAAATCACCTAGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGT
65 GAATAAAATGACCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGACTGAACCGCAAGT
* *
20534574 TAGAGAATGAAATG
130 CAGAGAAT-TAATG
* * * *
20534588 AAATGATCGGGATTAAACCACGAGTCAA-AGATTAAAGATGACTGGGATTGAATCGCAAGTCAAA
1 AAATGATCGGGATTAAACCGCGAGTCAAGA-ATTAAAGATGACTGGGACTGAACCGCAAGTCAGA
* * * * *
20534652 GAATAAAATGATCGGGATTAAATCACGAGTCAAAGATTAAAGATGACTGGGATTGAACCGTAAGT
65 GAATAAAATGACCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGACTGAACCGCAAGT
* *
20534717 CA-ATAAATAATG
130 CAGAGAATTAATG
* *
20534729 AAATGATCGGGATTAAACCGCGAGTCAAGAATTAAAGATGACTGAGACTGAATCGCAAGTC-GAA
1 AAATGATCGGGATTAAACCGCGAGTCAAGAATTAAAGATGACTGGGACTGAACCGCAAGTCAG-A
* * * *
20534793 GAATTAATGAAATGATCGAGATTAAACCGCGAGTCAAAGAATAAAGATGACTGGGACTGAACCGT
65 GAA-T-A--AAATGACCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGACTGAACCGC
20534858 AAGTCAGAGAATTAATG
126 AAGTCAGAGAATTAATG
* * * **
20534875 AAATGATCGGGATTAAATCACGAGTCAAAGGA-TAAAGATGACTGGGACTGAACCTTAAGTCAGA
1 AAATGATCGGGATTAAACCGCGAGTC-AAGAATTAAAGATGACTGGGACTGAACCGCAAGTCAGA
* * * * * * *
20534939 GAATTAATGAAATGATCGGGATTAAATCGTGAGTCAAATATTAAATATGATTGGGACTGAACCAC
65 GAA-T-A--AAATGACCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGACTGAACCGC
20535004 AAGTCAGAGAATTAATG
126 AAGTCAGAGAATTAATG
* * * *
20535021 AAATGATTGAGATTAAACCGCGAGTCAA-AGATTAAATATGACTGGGATTGAACCGCAAGTC-GA
1 AAATGATCGGGATTAAACCGCGAGTCAAGA-ATTAAAGATGACTGGGACTGAACCGCAAGTCAG-
* *
20535084 AGAATTAATGAAATGACTGGGATTAAACCGCGAGTCAAGGATTAAAGATGACTGGGACT
64 AGAA-T-A--AAATGACCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGACT
20535143 AAATCGTAAG
Statistics
Matches: 2058, Mismatches: 264, Indels: 154
0.83 0.11 0.06
Matches are distributed among these distances:
135 5 0.00
136 113 0.05
137 218 0.11
138 14 0.01
139 5 0.00
140 11 0.01
141 204 0.10
142 302 0.15
143 528 0.26
144 79 0.04
145 141 0.07
146 348 0.17
147 67 0.03
148 23 0.01
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.20
Consensus pattern (142 bp):
AAATGATCGGGATTAAACCGCGAGTCAAGAATTAAAGATGACTGGGACTGAACCGCAAGTCAGAG
AATAAAATGACCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGACTGAACCGCAAGTC
AGAGAATTAATG
Found at i:20535264 original size:36 final size:36
Alignment explanation
Indices: 20535216--20535285 Score: 90
Period size: 36 Copynumber: 1.9 Consensus size: 36
20535206 GGTCTTACAG
20535216 AATTGACTGGGATAACACCGC-AAGTCAAAATTATAA
1 AATTGACTGGGATAACACCGCGAA-TCAAAATTATAA
* *
20535252 AATTGA-TCGGGATAACATCGCGAATCAAATTTAT
1 AATTGACT-GGGATAACACCGCGAATCAAAATTAT
20535286 GCCCGAAGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
35 1 0.03
36 27 0.90
37 2 0.07
ACGTcount: A:0.41, C:0.16, G:0.17, T:0.26
Consensus pattern (36 bp):
AATTGACTGGGATAACACCGCGAATCAAAATTATAA
Found at i:20535278 original size:87 final size:87
Alignment explanation
Indices: 20535132--20535299 Score: 257
Period size: 87 Copynumber: 1.9 Consensus size: 87
20535122 GGATTAAAGA
* * * * *
20535132 TGACTGGGACTAAATCGTAAGTTAAAATTATAGAATTGATCGGGATAATATCACGAATCAAATTT
1 TGACTGGGACTAAACCGCAAGTCAAAATTATAAAATTGATCGGGATAACATCACGAATCAAATTT
*
20535197 ATGCCTGAAGGTCTTACAGAAT
66 ATGCCCGAAGGTCTTACAGAAT
*
20535219 TGACTGGGA-TAACACCGCAAGTCAAAATTATAAAATTGATCGGGATAACATCGCGAATCAAATT
1 TGACTGGGACTAA-ACCGCAAGTCAAAATTATAAAATTGATCGGGATAACATCACGAATCAAATT
20535283 TATGCCCGAAGGTCTTA
65 TATGCCCGAAGGTCTTA
20535300 GAAATCATGA
Statistics
Matches: 73, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
86 3 0.04
87 70 0.96
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.27
Consensus pattern (87 bp):
TGACTGGGACTAAACCGCAAGTCAAAATTATAAAATTGATCGGGATAACATCACGAATCAAATTT
ATGCCCGAAGGTCTTACAGAAT
Found at i:20535313 original size:22 final size:22
Alignment explanation
Indices: 20535288--20535343 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
20535278 AAATTTATGC
20535288 CCGAAGGTCTTAGAAATCATGA
1 CCGAAGGTCTTAGAAATCATGA
20535310 CCGAAGGTCTTAGAAATCATGA
1 CCGAAGGTCTTAGAAATCATGA
*
20535332 CCGGAGGTCTTA
1 CCGAAGGTCTTA
20535344 CAGAAATAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (22 bp):
CCGAAGGTCTTAGAAATCATGA
Found at i:20535473 original size:23 final size:22
Alignment explanation
Indices: 20535423--20535479 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 22
20535413 TTATGCTCAA
* * *
20535423 AGGTCTTAGAAATCATGTCCGG
1 AGGTCTTACAAATTATGCCCGG
*
20535445 AAGTCTTACAGAATTATGCCCGG
1 AGGTCTTACA-AATTATGCCCGG
20535468 AGGTCTTACAAA
1 AGGTCTTACAAA
20535480 ATTGACTGGG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
22 10 0.34
23 19 0.66
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (22 bp):
AGGTCTTACAAATTATGCCCGG
Found at i:20535529 original size:132 final size:131
Alignment explanation
Indices: 20535190--20535610 Score: 548
Period size: 132 Copynumber: 3.2 Consensus size: 131
20535180 TATCACGAAT
* * *
20535190 CAAATTTATGCCTGAAGGTCTTACAGAATTGACTGGGATAACACCGCAAGTCAAAATTATAAAAT
1 CAAA-TTATGCCCGGAGGTCTTACAAAATTGACTGGGATAACACCGCAAGTCAAAATTATAAAAT
* *
20535255 TGATCGGGATAACATCGCGAATCAAATTTATGCCCGAAGGTCTTAGAAATCATGACC-GAAGGTC
65 TGATCGAGATAACACCGCGAATCAAATTTATGCCCGAAGGTCTTAGAAATCATGACCGGAA-GTC
20535319 TTA
129 TTA
* * * * * *
20535322 GAAATCATGACCGGAGGTCTTACAGAAA-TAACTGAGATAACACCGCAAGTCAAAATTATATAAT
1 CAAATTATGCCCGGAGGTCTTACA-AAATTGACTGGGATAACACCGCAAGTCAAAATTATAAAAT
* * *
20535386 TGATC-AGGATAACACCGCGAATCAAATTTATGCTCAAAGGTCTTAGAAATCATGTCCGGAAGTC
65 TGATCGA-GATAACACCGCGAATCAAATTTATGCCCGAAGGTCTTAGAAATCATGACCGGAAGTC
20535450 TTA
129 TTA
*
20535453 CAGAATTATGCCCGGAGGTCTTACAAAATTGACTGGGATAACACCGCAAGTCAAAATTATAGAAT
1 CA-AATTATGCCCGGAGGTCTTACAAAATTGACTGGGATAACACCGCAAGTCAAAATTATAAAAT
* * * *
20535518 TGATCGAGATAACACCTCGAATCAAATTTATGCCCGGAGGTTTTAGAAATCAT-ACCCGGAGGTC
65 TGATCGAGATAACACCGCGAATCAAATTTATGCCCGAAGGTCTTAGAAATCATGA-CCGGAAGTC
20535582 TTA
129 TTA
* * *
20535585 CAAAAT-TGCTCGAAGGTCTTA-AAAAT
1 CAAATTATGCCCGGAGGTCTTACAAAAT
20535611 CATGTCCGAA
Statistics
Matches: 252, Mismatches: 30, Indels: 17
0.84 0.10 0.06
Matches are distributed among these distances:
129 5 0.02
130 13 0.05
131 113 0.45
132 120 0.48
133 1 0.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (131 bp):
CAAATTATGCCCGGAGGTCTTACAAAATTGACTGGGATAACACCGCAAGTCAAAATTATAAAATT
GATCGAGATAACACCGCGAATCAAATTTATGCCCGAAGGTCTTAGAAATCATGACCGGAAGTCTT
A
Found at i:20535602 original size:21 final size:21
Alignment explanation
Indices: 20535577--20535627 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
20535567 TCATACCCGG
20535577 AGGTCTTACAAAAT-TG-CTCGA
1 AGGTCTTA-AAAATATGTC-CGA
20535598 AGGTCTTAAAAATCATGTCCGA
1 AGGTCTTAAAAAT-ATGTCCGA
20535620 AGGTCTTA
1 AGGTCTTA
20535628 TAGAATTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 5 0.19
21 8 0.30
22 13 0.48
23 1 0.04
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (21 bp):
AGGTCTTAAAAATATGTCCGA
Found at i:20537677 original size:18 final size:18
Alignment explanation
Indices: 20537655--20537699 Score: 72
Period size: 18 Copynumber: 2.4 Consensus size: 18
20537645 CCCTTTTATT
*
20537655 TTTTTTTTCTTTTTTTTTG
1 TTTTTTTT-TATTTTTTTG
20537674 TTTTTTTTTATTTTTTTG
1 TTTTTTTTTATTTTTTTG
20537692 TTTTTTTT
1 TTTTTTTT
20537700 ATGCCTCATC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 17 0.68
19 8 0.32
ACGTcount: A:0.02, C:0.02, G:0.04, T:0.91
Consensus pattern (18 bp):
TTTTTTTTTATTTTTTTG
Found at i:20537717 original size:1 final size:1
Alignment explanation
Indices: 20537648--20537699 Score: 59
Period size: 1 Copynumber: 52.0 Consensus size: 1
20537638 AATATGTCCC
* * * * *
20537648 TTTTATTTTTTTTTTCTTTTTTTTTGTTTTTTTTTATTTTTTTGTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
20537700 ATGCCTCATC
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 41 1.00
ACGTcount: A:0.04, C:0.02, G:0.04, T:0.90
Consensus pattern (1 bp):
T
Found at i:20541697 original size:32 final size:32
Alignment explanation
Indices: 20541661--20541725 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
20541651 CGTGTCCTTA
* * *
20541661 GGATTTTTAGGACTTTGGATTTCATGGATTTT
1 GGATTTTGAGGACTTTGGATTTAAGGGATTTT
* *
20541693 GGATTTTGGGGAGTTTGGATTTAAGGGATTTT
1 GGATTTTGAGGACTTTGGATTTAAGGGATTTT
20541725 G
1 G
20541726 AAAATTAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.18, C:0.03, G:0.32, T:0.46
Consensus pattern (32 bp):
GGATTTTGAGGACTTTGGATTTAAGGGATTTT
Found at i:20541720 original size:16 final size:16
Alignment explanation
Indices: 20541674--20541725 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
20541664 TTTTTAGGAC
* *
20541674 TTTGGATTTCATGGAT
1 TTTGGATTTAAGGGAT
** *
20541690 TTTGGATTTTGGGGAG
1 TTTGGATTTAAGGGAT
20541706 TTTGGATTTAAGGGAT
1 TTTGGATTTAAGGGAT
20541722 TTTG
1 TTTG
20541726 AAAATTAAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.17, C:0.02, G:0.33, T:0.48
Consensus pattern (16 bp):
TTTGGATTTAAGGGAT
Found at i:20543226 original size:26 final size:26
Alignment explanation
Indices: 20543199--20543253 Score: 80
Period size: 24 Copynumber: 2.2 Consensus size: 26
20543189 ATCTTCTGTT
20543199 TTTTTTTTG-TTTGATATTTT-T-TTA
1 TTTTTTTTGTTTTG-TATTTTGTATTA
20543223 TTTTTTTTGTTTTGTATTTTGTATTA
1 TTTTTTTTGTTTTGTATTTTGTATTA
20543249 TTTTT
1 TTTTT
20543254 GTATTTCGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
24 15 0.54
25 5 0.18
26 8 0.29
ACGTcount: A:0.11, C:0.00, G:0.09, T:0.80
Consensus pattern (26 bp):
TTTTTTTTGTTTTGTATTTTGTATTA
Found at i:20543273 original size:26 final size:22
Alignment explanation
Indices: 20543217--20543284 Score: 73
Period size: 26 Copynumber: 2.9 Consensus size: 22
20543207 GTTTGATATT
*
20543217 TTTTTATTTTTTTTGTTTTGTA
1 TTTTTATTATTTTTGTTTTGTA
20543239 TTTTGTATTATTTTTGTATTTCGTA
1 TTTT-TATTATTTTTGT-TTT-GTA
*
20543264 TATTATTATTATTTTTATTTT
1 T-TT-TTATTATTTTTGTTTT
20543285 ATTTTATTCT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
22 4 0.10
23 11 0.28
24 3 0.08
25 7 0.18
26 13 0.33
27 1 0.03
ACGTcount: A:0.16, C:0.01, G:0.07, T:0.75
Consensus pattern (22 bp):
TTTTTATTATTTTTGTTTTGTA
Found at i:20544385 original size:26 final size:26
Alignment explanation
Indices: 20544333--20544387 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
20544323 TTTAAACAAA
**
20544333 AATTGATTTAAAAATTAAAATTTTAT
1 AATTGATTTAAAAATTAAAATAATAT
* *
20544359 AATTTATTTAAATATTAAAATAATAT
1 AATTGATTTAAAAATTAAAATAATAT
20544385 AAT
1 AAT
20544388 AAATATAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (26 bp):
AATTGATTTAAAAATTAAAATAATAT
Found at i:20558036 original size:13 final size:13
Alignment explanation
Indices: 20558018--20558055 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
20558008 AAGAAATCTT
20558018 TTATTTTATTTTA
1 TTATTTTATTTTA
20558031 TTATTTTATTTTA
1 TTATTTTATTTTA
* *
20558044 TGATATTATTTT
1 TTATTTTATTTT
20558056 TTAAAATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (13 bp):
TTATTTTATTTTA
Found at i:20558037 original size:18 final size:18
Alignment explanation
Indices: 20558016--20558055 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
20558006 TAAAGAAATC
**
20558016 TTTTATTTTATTTTATTA
1 TTTTATTTTATGATATTA
20558034 TTTTATTTTATGATATTA
1 TTTTATTTTATGATATTA
20558052 TTTT
1 TTTT
20558056 TTAAAATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.75
Consensus pattern (18 bp):
TTTTATTTTATGATATTA
Found at i:20561167 original size:31 final size:31
Alignment explanation
Indices: 20561127--20561238 Score: 136
Period size: 31 Copynumber: 3.6 Consensus size: 31
20561117 ATTTTTATTG
*
20561127 TATTTAAATAAGTATTTAATTTTTTAATTTA
1 TATTTAAATAAATATTTAATTTTTTAATTTA
* * *
20561158 TTTTTAAATAAACATTTAA-TTTTTAATTTG
1 TATTTAAATAAATATTTAATTTTTTAATTTA
* * **
20561188 TATTTAAATAAGTTTTTAAAATTTTAATTTA
1 TATTTAAATAAATATTTAATTTTTTAATTTA
*
20561219 TATTTAAATAAATTTTTAAT
1 TATTTAAATAAATATTTAAT
20561239 ACAAATCATT
Statistics
Matches: 68, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
30 25 0.37
31 43 0.63
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (31 bp):
TATTTAAATAAATATTTAATTTTTTAATTTA
Found at i:20561237 original size:61 final size:59
Alignment explanation
Indices: 20561092--20561238 Score: 179
Period size: 61 Copynumber: 2.5 Consensus size: 59
20561082 TAGATCTTTA
* ** **
20561092 TAATTT-TATTTAGATAAATTAATATATTTTTATTGTATTTAAATAAGTATTTAATTTTT
1 TAATTTATATTTAAATAAATTTTTA-ATTTTTATTGTATTTAAATAAGTATTTAAAATTT
* ** *
20561151 TAATTTATTTTTAAATAAACATTTAATTTTTAATTTGTATTTAAATAAGTTTTTAAAATTT
1 TAATTTATATTTAAATAAATTTTTAATTTTT-A-TTGTATTTAAATAAGTATTTAAAATTT
20561212 TAATTTATATTTAAATAAATTTTTAAT
1 TAATTTATATTTAAATAAATTTTTAAT
20561239 ACAAATCATT
Statistics
Matches: 73, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
59 12 0.16
60 13 0.18
61 48 0.66
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.56
Consensus pattern (59 bp):
TAATTTATATTTAAATAAATTTTTAATTTTTATTGTATTTAAATAAGTATTTAAAATTT
Found at i:20561336 original size:30 final size:29
Alignment explanation
Indices: 20561260--20561332 Score: 94
Period size: 30 Copynumber: 2.5 Consensus size: 29
20561250 TTCATTTAAA
*
20561260 ATAAAAATTTATTTGAATATAAATTAAAAT
1 ATAAAAATTTATTTAAATATAAA-TAAAAT
**
20561290 ATAATGATTTATTTAAATATAACA-AAAAT
1 ATAAAAATTTATTTAAATATAA-ATAAAAT
20561319 ATAAAAATTTATTT
1 ATAAAAATTTATTT
20561333 TAAAAAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
29 17 0.46
30 19 0.51
31 1 0.03
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.41
Consensus pattern (29 bp):
ATAAAAATTTATTTAAATATAAATAAAAT
Found at i:20561997 original size:2 final size:2
Alignment explanation
Indices: 20561992--20562018 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
20561982 TATAAATGGA
20561992 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
20562019 ATATATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:20562023 original size:2 final size:2
Alignment explanation
Indices: 20562018--20562063 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
20562008 TCTCTCTCTC
20562018 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
20562060 TA TA
1 TA TA
20562064 AACACACGCA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:20569982 original size:14 final size:14
Alignment explanation
Indices: 20569963--20569990 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
20569953 TTATTGTTGG
20569963 ATGATAATAATTAT
1 ATGATAATAATTAT
20569977 ATGATAATAATTAT
1 ATGATAATAATTAT
20569991 TTTCATTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (14 bp):
ATGATAATAATTAT
Found at i:20570595 original size:43 final size:38
Alignment explanation
Indices: 20570531--20570610 Score: 106
Period size: 42 Copynumber: 2.0 Consensus size: 38
20570521 CTCTTCACAC
*
20570531 TTTAATTTTTTTTTTCAAAATTTTTTATAAATAAAATTA
1 TTTAATTTTTTTTTTCAAAATTTTTGA-AAATAAAATTA
20570570 TTTAATTATCTTTTTTTACACAAATTTTTGAAAATAAAATT
1 TTTAATT-T-TTTTTTT-CA-AAATTTTTGAAAATAAAATT
20570611 TTGAAAAGTC
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
39 7 0.19
40 1 0.03
41 7 0.19
42 12 0.33
43 9 0.25
ACGTcount: A:0.39, C:0.05, G:0.01, T:0.55
Consensus pattern (38 bp):
TTTAATTTTTTTTTTCAAAATTTTTGAAAATAAAATTA
Found at i:20570632 original size:34 final size:34
Alignment explanation
Indices: 20570589--20570721 Score: 128
Period size: 34 Copynumber: 3.9 Consensus size: 34
20570579 CTTTTTTTAC
* * *
20570589 ACAAATTTTTGAAAATAAAATTTTGAAAAGTCAT
1 ACAACTTTTTAAAAATAAAATTTTGAAAAATCAT
*
20570623 -CAACTTTTTTAAAAATAAATTTTTGAAAAATCAT
1 ACAAC-TTTTTAAAAATAAAATTTTGAAAAATCAT
* * *
20570657 ATAACTTTTCAAAAATAAAATTTTGAAAAATTAT
1 ACAACTTTTTAAAAATAAAATTTTGAAAAATCAT
* * *
20570691 A-AA-TATTTTCATAAATAAATTTTTAAAAAAT
1 ACAACT-TTTT-AAAAATAAAATTTTGAAAAAT
20570722 TAAATTTTTG
Statistics
Matches: 83, Mismatches: 12, Indels: 8
0.81 0.12 0.08
Matches are distributed among these distances:
32 1 0.01
33 8 0.10
34 71 0.86
35 3 0.04
ACGTcount: A:0.51, C:0.06, G:0.04, T:0.39
Consensus pattern (34 bp):
ACAACTTTTTAAAAATAAAATTTTGAAAAATCAT
Found at i:20570652 original size:16 final size:15
Alignment explanation
Indices: 20570627--20570735 Score: 74
Period size: 16 Copynumber: 6.6 Consensus size: 15
20570617 AGTCATCAAC
*
20570627 TTTTTTAAAAATAAA
1 TTTTTAAAAAATAAA
20570642 TTTTTGAAAAATCATATAA
1 TTTTT-AAAAA--ATA-AA
* *
20570661 CTTTTCAAAAATAAAA
1 TTTTTAAAAAAT-AAA
*
20570677 TTTTGAAAAATTATAAA
1 TTTTTAAAAA--ATAAA
* *
20570694 TATTTTCATAAATAAA
1 T-TTTTAAAAAATAAA
20570710 TTTTTAAAAAATTAAA
1 TTTTTAAAAAA-TAAA
20570726 TTTTTGAAAA
1 TTTTT-AAAA
20570736 GTTTATAATT
Statistics
Matches: 73, Mismatches: 11, Indels: 18
0.72 0.11 0.18
Matches are distributed among these distances:
15 13 0.18
16 30 0.41
17 9 0.12
18 15 0.21
19 6 0.08
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (15 bp):
TTTTTAAAAAATAAA
Found at i:20570746 original size:34 final size:35
Alignment explanation
Indices: 20570708--20570843 Score: 101
Period size: 34 Copynumber: 4.1 Consensus size: 35
20570698 TTCATAAATA
20570708 AATTTTTAAAAAATTAAATTTTTGAAAAG-TTTAT
1 AATTTTTAAAAAATTAAATTTTTGAAAAGATTTAT
* ** *
20570742 AATTTTT-CAAAATTTTATTTTTGAAATGATTTAT
1 AATTTTTAAAAAATTAAATTTTTGAAAAGATTTAT
* **
20570776 TATTTTCT--AAAATTTTATTTTTG-AAAGATTATAT
1 AATTTT-TAAAAAATTAAATTTTTGAAAAGATT-TAT
**
20570810 GAATTTTT-GTAAA-TAAATTTTT-AAAA-ATTTAT
1 -AATTTTTAAAAAATTAAATTTTTGAAAAGATTTAT
20570842 AA
1 AA
20570844 AATTCCATAA
Statistics
Matches: 86, Mismatches: 10, Indels: 15
0.77 0.09 0.14
Matches are distributed among these distances:
31 2 0.02
32 3 0.03
33 26 0.30
34 46 0.53
35 9 0.10
ACGTcount: A:0.41, C:0.01, G:0.06, T:0.51
Consensus pattern (35 bp):
AATTTTTAAAAAATTAAATTTTTGAAAAGATTTAT
Found at i:20570747 original size:18 final size:15
Alignment explanation
Indices: 20570725--20570801 Score: 66
Period size: 15 Copynumber: 4.7 Consensus size: 15
20570715 AAAAAATTAA
20570725 ATTTTTGAAAAGTTTAT
1 ATTTTTGAAAA-TTT-T
*
20570742 AATTTTTCAAAATTTT
1 -ATTTTTGAAAATTTT
20570758 ATTTTTGAAATGATTTATT
1 ATTTTTGAAA--A-TT-TT
20570777 ATTTTCT-AAAATTTT
1 ATTTT-TGAAAATTTT
20570792 ATTTTTGAAA
1 ATTTTTGAAA
20570802 GATTATATGA
Statistics
Matches: 51, Mismatches: 2, Indels: 15
0.75 0.03 0.22
Matches are distributed among these distances:
14 1 0.02
15 19 0.37
16 3 0.06
17 5 0.10
18 12 0.24
19 10 0.20
20 1 0.02
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.56
Consensus pattern (15 bp):
ATTTTTGAAAATTTT
Found at i:20570749 original size:49 final size:48
Alignment explanation
Indices: 20570662--20570754 Score: 118
Period size: 50 Copynumber: 1.9 Consensus size: 48
20570652 ATCATATAAC
*
20570662 TTTTCAAAAATAAAATTTTGAAAAATTATAAATATTTTCATAAATAAAT
1 TTTTAAAAAATAAAATTTTGAAAAATTATAAATATTTTCA-AAATAAAT
* *
20570711 TTTTAAAAAATTAAATTTTTGAAAAGTT-TATAAT-TTTTCAAAAT
1 TTTTAAAAAA-TAAAATTTTGAAAAATTATA-AATATTTTCAAAAT
20570755 TTTATTTTTG
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
48 4 0.10
49 17 0.44
50 18 0.46
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.44
Consensus pattern (48 bp):
TTTTAAAAAATAAAATTTTGAAAAATTATAAATATTTTCAAAATAAAT
Found at i:20570762 original size:33 final size:34
Alignment explanation
Indices: 20570725--20570816 Score: 118
Period size: 34 Copynumber: 2.7 Consensus size: 34
20570715 AAAAAATTAA
20570725 ATTTTTGAAAAG-TTTATAATTTT-TCAAAATTTT
1 ATTTTTGAAAAGATTTATAATTTTCT-AAAATTTT
* *
20570758 ATTTTTGAAATGATTTATTATTTTCTAAAATTTT
1 ATTTTTGAAAAGATTTATAATTTTCTAAAATTTT
20570792 ATTTTTG-AAAGATTATATGAATTTT
1 ATTTTTGAAAAGATT-TAT-AATTTT
20570817 TGTAAATAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
33 17 0.33
34 28 0.55
35 6 0.12
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.55
Consensus pattern (34 bp):
ATTTTTGAAAAGATTTATAATTTTCTAAAATTTT
Found at i:20572115 original size:3 final size:3
Alignment explanation
Indices: 20572107--20572178 Score: 144
Period size: 3 Copynumber: 24.0 Consensus size: 3
20572097 TAAGGAGAAC
20572107 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
20572155 AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT
20572179 GAAATGTTCC
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 69 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:20573999 original size:17 final size:18
Alignment explanation
Indices: 20573965--20573999 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
20573955 AAATTAAAAA
20573965 TAAAATTATATATTTTAT
1 TAAAATTATATATTTTAT
*
20573983 TAAAATTA-ATTTTTTAT
1 TAAAATTATATATTTTAT
20574000 ATAATTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TAAAATTATATATTTTAT
Found at i:20574063 original size:20 final size:20
Alignment explanation
Indices: 20574012--20574063 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 20
20574002 AATTTTTATT
*
20574012 TTTAATTTATATATATGTGAA
1 TTTAATTTA-ATATATGTAAA
* *
20574033 TTAAATATAATATCAT-TAAA
1 TTTAATTTAATAT-ATGTAAA
20574053 TTTAATTTAAT
1 TTTAATTTAAT
20574064 CACATTTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 16 0.64
21 9 0.36
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (20 bp):
TTTAATTTAATATATGTAAA
Found at i:20574527 original size:2 final size:2
Alignment explanation
Indices: 20574514--20574550 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
20574504 ATGAATGCTC
*
20574514 AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
20574551 ACCAAAGCGG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:20575470 original size:2 final size:2
Alignment explanation
Indices: 20575463--20575506 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
20575453 CATCTTCAGG
20575463 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
20575505 CT
1 CT
20575507 GTGTCTGTAC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:20575679 original size:15 final size:16
Alignment explanation
Indices: 20575654--20575683 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
20575644 ATGTGAAGCA
20575654 TTTGACTTTTTTTTTT
1 TTTGACTTTTTTTTTT
20575670 TTTG-CTTTTTTTTT
1 TTTGACTTTTTTTTT
20575684 GTACTTTGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.03, C:0.07, G:0.07, T:0.83
Consensus pattern (16 bp):
TTTGACTTTTTTTTTT
Found at i:20583308 original size:6 final size:7
Alignment explanation
Indices: 20583282--20583307 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
20583272 CTAATTCTCT
20583282 TTTTTTA
1 TTTTTTA
20583289 TTTTTTA
1 TTTTTTA
20583296 TTTTTTA
1 TTTTTTA
20583303 TTTTT
1 TTTTT
20583308 AAGATTGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTA
Found at i:20593313 original size:26 final size:27
Alignment explanation
Indices: 20593273--20593354 Score: 89
Period size: 25 Copynumber: 3.1 Consensus size: 27
20593263 AACCCAAACA
* *
20593273 AAACCTTAAAA-CTTAATGCTAATCC-
1 AAACCTTAAAACCTTAATCCTAACCCT
20593298 AAACCTTAAAACCTT-ATCCTAACCCT
1 AAACCTTAAAACCTTAATCCTAACCCT
* * *
20593324 AAACCTCAAAACTTTAACCCTAAACCCT
1 AAACCTTAAAACCTTAATCCT-AACCCT
20593352 AAA
1 AAA
20593355 ATCAAAAGTC
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
25 19 0.40
26 16 0.33
27 4 0.08
28 9 0.19
ACGTcount: A:0.44, C:0.30, G:0.01, T:0.24
Consensus pattern (27 bp):
AAACCTTAAAACCTTAATCCTAACCCT
Found at i:20596537 original size:32 final size:31
Alignment explanation
Indices: 20596496--20596597 Score: 86
Period size: 32 Copynumber: 3.4 Consensus size: 31
20596486 ATTTTTAAGG
*
20596496 AAAAGTTGAAAGTATCAAATTTCCTTGAAAAT
1 AAAATTTGAAAGTATCAAATTT-CTTGAAAAT
** * * **
20596528 AAAATTTGAAAAAAT-ATATTT-TTTAGGA-
1 AAAATTTGAAAGTATCAAATTTCTTGAAAAT
*
20596556 AAAA-TTGAAAGTATCAATTTTTCTTGAAAAT
1 AAAATTTGAAAGTATCAA-ATTTCTTGAAAAT
20596587 AAAATTTGAAA
1 AAAATTTGAAA
20596598 AAAAACATTA
Statistics
Matches: 51, Mismatches: 14, Indels: 10
0.68 0.19 0.13
Matches are distributed among these distances:
27 8 0.16
28 5 0.10
29 7 0.14
30 4 0.08
31 9 0.18
32 18 0.35
ACGTcount: A:0.49, C:0.05, G:0.11, T:0.35
Consensus pattern (31 bp):
AAAATTTGAAAGTATCAAATTTCTTGAAAAT
Found at i:20596547 original size:59 final size:59
Alignment explanation
Indices: 20596419--20596649 Score: 322
Period size: 59 Copynumber: 3.9 Consensus size: 59
20596409 CCAATTTCTA
* * * * *
20596419 AAAAAATACATTTTTGAGAAAAAGTTAAAAGTATCAATTTTTCTTGAAAACAAAATTTT
1 AAAAAATACATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTG
* *
20596478 AAAAACAT--ATTTTTAAGGAAAAGTTGAAAGTATCAAATTTCCTTGAAAATAAAATTTG
1 AAAAA-ATACATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTG
* * *
20596536 AAAAAATATATTTTTTAGGAAAAATTGAAAGTATCAATTTTTCTTGAAAATAAAATTTG
1 AAAAAATACATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTG
* * *
20596595 AAAAAAAACATTATTAAGGAAAAGTTGAAAGTATCAGTTTTTCTTGAAAATAAAA
1 AAAAAATACATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAA
20596650 AACCTTCAAA
Statistics
Matches: 152, Mismatches: 17, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
57 2 0.01
58 48 0.32
59 100 0.66
60 2 0.01
ACGTcount: A:0.49, C:0.06, G:0.11, T:0.34
Consensus pattern (59 bp):
AAAAAATACATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTG
Found at i:20608573 original size:21 final size:21
Alignment explanation
Indices: 20608528--20608588 Score: 88
Period size: 21 Copynumber: 3.0 Consensus size: 21
20608518 ATTTTTAAGT
* *
20608528 TTTCAAATGCGAATATTTG-A
1 TTTCAAATGAGAATCTTTGAA
20608548 TTTCAAATGAGAATCTTTGAA
1 TTTCAAATGAGAATCTTTGAA
*
20608569 TTTCAAACGAGAATCTTTGA
1 TTTCAAATGAGAATCTTTGA
20608589 GATGTGAGAC
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (21 bp):
TTTCAAATGAGAATCTTTGAA
Found at i:20609064 original size:41 final size:41
Alignment explanation
Indices: 20608952--20609341 Score: 412
Period size: 41 Copynumber: 9.4 Consensus size: 41
20608942 ATTGTCAAGA
* * *
20608952 AGCATTTTATTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGG
1 AGCAATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGG
** *
20608993 AATAATTTATTTTTTCAAAGTTGTGTTGCCTCTGTTTAGAGG
1 AGCAATTTA-TTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGG
* *
20609035 AGCAATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAAAGA
1 AGCAATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGG
* *
20609076 AGCAACTTATTTTCCAAAGTTGTGGTTGCCTCTGTTTAGAGG
1 AGCAATTTATTTTTCAAAGTTGTGG-TGCCTCTGTTTAGAGG
* *
20609118 AGC-TTTTATTTTTTCAAAGTTGTGGT-CCTCTGTTTAGAAG
1 AGCAATTTA-TTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGG
** *
20609158 AATAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGG
1 AGCAATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGG
* * * *
20609199 AGCAATTTATTTTTCAAAGTCGTGATGCCTTTGTTTACAGG
1 AGCAATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGG
* * ** *
20609240 AGCAATTTA-CTTTCTAGAGTTGTAATGCCTCTG-TTAGAAG
1 AGCAATTTATTTTTC-AAAGTTGTGGTGCCTCTGTTTAGAGG
** * * *
20609280 AGCAATTTA-TTTTCAAAAGTCATTGAGCCTCTGTTTAGATG
1 AGCAATTTATTTTTC-AAAGTTGTGGTGCCTCTGTTTAGAGG
20609321 AGCTTAATTTACTTTTTCAAA
1 AGC--AATTTA-TTTTTCAAA
20609342 AAAAATGTGT
Statistics
Matches: 293, Mismatches: 45, Indels: 19
0.82 0.13 0.05
Matches are distributed among these distances:
40 64 0.22
41 147 0.50
42 68 0.23
43 6 0.02
44 3 0.01
45 5 0.02
ACGTcount: A:0.25, C:0.14, G:0.20, T:0.42
Consensus pattern (41 bp):
AGCAATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGG
Found at i:20610256 original size:10 final size:10
Alignment explanation
Indices: 20610241--20610288 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
20610231 GTTTCTATTT
20610241 TTTTTTTGTA
1 TTTTTTTGTA
*
20610251 TTTTTTATGTG
1 TTTTTT-TGTA
* *
20610262 TTTGTTTATA
1 TTTTTTTGTA
*
20610272 TTTTTTGGTA
1 TTTTTTTGTA
20610282 TTTTTTT
1 TTTTTTT
20610289 ATTCTTATTT
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
10 21 0.72
11 8 0.28
ACGTcount: A:0.10, C:0.00, G:0.12, T:0.77
Consensus pattern (10 bp):
TTTTTTTGTA
Found at i:20610457 original size:82 final size:82
Alignment explanation
Indices: 20610382--20610545 Score: 217
Period size: 82 Copynumber: 2.0 Consensus size: 82
20610372 AAAATATAAA
* * *
20610382 ATAAAATTT-TCAAGAAAA-ATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATA
1 ATAAAATTTCTAAAAAAAATATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAACA
20610445 AAATTTCTAAAAAGTAT
66 AAATTTCTAAAAAGTAT
* ** * *
20610462 TTCCAATTTCTAAAAAAAATATATTTTTGAGGAAAAGTTGAAAGTATTAATTTTTCTTGAAAACA
1 ATAAAATTTCTAAAAAAAATATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAACA
*
20610527 AAATTT-TAACAAAATAT
66 AAATTTCTAA-AAAGTAT
20610544 AT
1 AT
20610546 TTTTAAGAAA
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
80 6 0.08
81 10 0.14
82 55 0.77
ACGTcount: A:0.48, C:0.06, G:0.09, T:0.37
Consensus pattern (82 bp):
ATAAAATTTCTAAAAAAAATATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAACA
AAATTTCTAAAAAGTAT
Found at i:20610544 original size:60 final size:59
Alignment explanation
Indices: 20610474--20610698 Score: 290
Period size: 59 Copynumber: 3.8 Consensus size: 59
20610464 CCAATTTCTA
* * * *
20610474 AAAAAAATATATTTTTGAGGAAAAGTTGAAAGTATTAATTTTTCTTGAAAACAAAATTTT
1 AAAAAAA-ATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTT
* * *
20610534 AACAAAATATATTTTTAAGAAAAAGTTAAAAGTATCAATTTTCCTTGAAAATAAAATTTT
1 AA-AAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTT
* ** *
20610594 AAAAAAAATAATTTTAAGAAAATTTTGAAAGTATCAA-TTTTCGTTGAAAATAAAATTTA
1 AAAAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTTC-TTGAAAATAAAATTTT
* **
20610653 AAAAAAAACATTGCTAAGAAAAAGTTGAAAGTATCAATTTTTCTTG
1 AAAAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTG
20610699 TACAAAAACA
Statistics
Matches: 142, Mismatches: 20, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
58 4 0.03
59 79 0.56
60 55 0.39
61 4 0.03
ACGTcount: A:0.49, C:0.05, G:0.10, T:0.36
Consensus pattern (59 bp):
AAAAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTT
Found at i:20612638 original size:2 final size:2
Alignment explanation
Indices: 20612631--20612661 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
20612621 CAAAAGGAAA
*
20612631 AG AG AG AG GG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
20612662 CAAGTGATGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
AG
Found at i:20612724 original size:14 final size:14
Alignment explanation
Indices: 20612705--20612734 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
20612695 TCCATAGAAA
20612705 GTAAGTGGGTTTAG
1 GTAAGTGGGTTTAG
20612719 GTAAGTGGGTTTAG
1 GTAAGTGGGTTTAG
20612733 GT
1 GT
20612735 GACACTGCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.43, T:0.37
Consensus pattern (14 bp):
GTAAGTGGGTTTAG
Found at i:20614796 original size:16 final size:16
Alignment explanation
Indices: 20614745--20614797 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
20614735 ACAGTTATAA
20614745 AGATTTATTTGTTAGT
1 AGATTTATTTGTTAGT
* * * *
20614761 ATATTCATTT-TGAAT
1 AGATTTATTTGTTAGT
20614776 AAGATTTATTTGTTAGT
1 -AGATTTATTTGTTAGT
20614793 AGATT
1 AGATT
20614798 GGGTTTAGAG
Statistics
Matches: 27, Mismatches: 8, Indels: 4
0.69 0.21 0.10
Matches are distributed among these distances:
15 3 0.11
16 21 0.78
17 3 0.11
ACGTcount: A:0.30, C:0.02, G:0.15, T:0.53
Consensus pattern (16 bp):
AGATTTATTTGTTAGT
Found at i:20617454 original size:28 final size:27
Alignment explanation
Indices: 20617394--20617462 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 27
20617384 TATTTCATAA
*
20617394 ATTCATAAATCAATGTCAAAATATGTC
1 ATTCATAAATCATTGTCAAAATATGTC
20617421 ACTTCATAAATCATTG-CAAAATATGCTAC
1 A-TTCATAAATCATTGTCAAAATATG-T-C
20617450 ATTCA-AATATCAT
1 ATTCATAA-ATCAT
20617463 AATCAAACCA
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
27 12 0.32
28 23 0.62
29 2 0.05
ACGTcount: A:0.43, C:0.17, G:0.06, T:0.33
Consensus pattern (27 bp):
ATTCATAAATCATTGTCAAAATATGTC
Found at i:20617516 original size:16 final size:16
Alignment explanation
Indices: 20617495--20617533 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
20617485 ATCATTAAAA
*
20617495 ATCATCGTAAATCATC
1 ATCATCATAAATCATC
20617511 ATCATCATAAATCATC
1 ATCATCATAAATCATC
*
20617527 ATTATCA
1 ATCATCA
20617534 ATCGTTTATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.41, C:0.23, G:0.03, T:0.33
Consensus pattern (16 bp):
ATCATCATAAATCATC
Found at i:20620117 original size:27 final size:28
Alignment explanation
Indices: 20620069--20620149 Score: 110
Period size: 27 Copynumber: 2.9 Consensus size: 28
20620059 ACAAAATCAT
* * *
20620069 CACTTGTAAGAGTTCAACCAATCTTTTG
1 CACTTGTAAGAATTCAAACAATCATTTG
*
20620097 CCCTTGTAA-AATTCAAACAATCATTTG
1 CACTTGTAAGAATTCAAACAATCATTTG
*
20620124 CACTTGTAAGATTTCAAACAATCATT
1 CACTTGTAAGAATTCAAACAATCATT
20620150 CTTAATCAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
27 23 0.50
28 23 0.50
ACGTcount: A:0.35, C:0.21, G:0.10, T:0.35
Consensus pattern (28 bp):
CACTTGTAAGAATTCAAACAATCATTTG
Found at i:20622020 original size:16 final size:16
Alignment explanation
Indices: 20621999--20622037 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
20621989 ATCATTAAAA
*
20621999 ATCATCGTAAATCATC
1 ATCATCATAAATCATC
20622015 ATCATCATAAATCATC
1 ATCATCATAAATCATC
*
20622031 ATTATCA
1 ATCATCA
20622038 ATCGTTTATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.41, C:0.23, G:0.03, T:0.33
Consensus pattern (16 bp):
ATCATCATAAATCATC
Found at i:20625806 original size:19 final size:19
Alignment explanation
Indices: 20625784--20625829 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
20625774 TCAATTCCCT
20625784 TTTTCATTTTCATTCAAAA
1 TTTTCATTTTCATTCAAAA
20625803 TTTTCATTTTCATTCAAAA
1 TTTTCATTTTCATTCAAAA
20625822 TTTTCATT
1 TTTTCATT
20625830 ATAATTTCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.28, C:0.15, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTTCATTTTCATTCAAAA
Found at i:20628693 original size:4 final size:4
Alignment explanation
Indices: 20628684--20628740 Score: 60
Period size: 4 Copynumber: 14.2 Consensus size: 4
20628674 GGAGCAACTT
* * * * * *
20628684 TATA TATA TAAA TATA TAAA TAAA TATA TACA TACA TACA TATA TATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
20628732 TATA TATA T
1 TATA TATA T
20628741 TCAGGTTCTC
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 47 1.00
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.40
Consensus pattern (4 bp):
TATA
Found at i:20628701 original size:12 final size:12
Alignment explanation
Indices: 20628684--20628740 Score: 69
Period size: 12 Copynumber: 4.8 Consensus size: 12
20628674 GGAGCAACTT
20628684 TATATATATAAA
1 TATATATATAAA
*
20628696 TATATAAATAAA
1 TATATATATAAA
* *
20628708 TATATACATACA
1 TATATATATAAA
* *
20628720 TACATATATATA
1 TATATATATAAA
20628732 TATATATAT
1 TATATATAT
20628741 TCAGGTTCTC
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 38 1.00
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.40
Consensus pattern (12 bp):
TATATATATAAA
Found at i:20629798 original size:35 final size:37
Alignment explanation
Indices: 20629737--20629805 Score: 90
Period size: 35 Copynumber: 1.9 Consensus size: 37
20629727 TTAATAAATA
* *
20629737 TTTAATATTTTATAATTTTATATTTAAATTAAATTTT
1 TTTAATATTTTATAATTTGATATTTAAATAAAATTTT
20629774 TTTATATATTTT-TAA-TTGAT-TTTAAATAAAAT
1 TTTA-ATATTTTATAATTTGATATTTAAATAAAAT
20629806 ATTTAATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
35 11 0.38
36 4 0.14
37 7 0.24
38 7 0.24
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.59
Consensus pattern (37 bp):
TTTAATATTTTATAATTTGATATTTAAATAAAATTTT
Found at i:20639882 original size:38 final size:38
Alignment explanation
Indices: 20639831--20639905 Score: 132
Period size: 38 Copynumber: 2.0 Consensus size: 38
20639821 GTAAAATATA
*
20639831 GTTATCATATGAACCTTCCAACAAATACACGCATAATG
1 GTTATCATATGAACCTTCCAACAAATACACACATAATG
*
20639869 GTTATCATATGAACCTTCCAACAATTACACACATAAT
1 GTTATCATATGAACCTTCCAACAAATACACACATAAT
20639906 CACACATATT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.40, C:0.24, G:0.08, T:0.28
Consensus pattern (38 bp):
GTTATCATATGAACCTTCCAACAAATACACACATAATG
Found at i:20643538 original size:38 final size:39
Alignment explanation
Indices: 20643488--20643561 Score: 96
Period size: 38 Copynumber: 1.9 Consensus size: 39
20643478 TTATATAATA
* *
20643488 TAAATATATATATATACAGATAATATAATTTAAAATTAG
1 TAAATATATATATATAAAGATAATATAAATTAAAATTAG
* **
20643527 TAAATAT-TATATGTAAATTTAATATAAATTAAAAT
1 TAAATATATATATATAAAGATAATATAAATTAAAAT
20643562 ATGAATTTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
38 23 0.77
39 7 0.23
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.41
Consensus pattern (39 bp):
TAAATATATATATATAAAGATAATATAAATTAAAATTAG
Found at i:20643612 original size:32 final size:32
Alignment explanation
Indices: 20643576--20643642 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 32
20643566 ATTTTATATT
20643576 TAATATTTAATATATTAATATAAATTATAATATAA
1 TAAT-TTTAATATATTAA-ATAAATT-TAATATAA
* * *
20643611 TAATTTTTATATTTTAAATATATTTAATATAA
1 TAATTTTAATATATTAAATAAATTTAATATAA
20643643 AATAAATATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
32 8 0.28
33 6 0.21
34 11 0.38
35 4 0.14
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (32 bp):
TAATTTTAATATATTAAATAAATTTAATATAA
Found at i:20644209 original size:30 final size:30
Alignment explanation
Indices: 20644175--20644309 Score: 77
Period size: 30 Copynumber: 4.6 Consensus size: 30
20644165 TGTTAAAAGC
20644175 TTATTTATATACAAATTAAATGATAAAAAT
1 TTATTTATATACAAATTAAATGATAAAAAT
* * *
20644205 TTATTT-TGATACAAACTACA-GTTAAAAATT
1 TTATTTAT-ATACAAATTAAATGATAAAAA-T
* **
20644235 TTATTTGA-ATACAAAATAAAAAAT-AAAAT
1 TTATTT-ATATACAAATTAAATGATAAAAAT
* * * *
20644264 TTCATTTAGATA-TAATAAAAAT-ATAAAATT
1 TT-ATTTATATACAAAT-TAAATGATAAAAAT
*
20644294 TTATTTAAATA-AAATT
1 TTATTTATATACAAATT
20644310 CTAAAATTCT
Statistics
Matches: 81, Mismatches: 15, Indels: 20
0.70 0.13 0.17
Matches are distributed among these distances:
29 27 0.33
30 53 0.65
31 1 0.01
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.39
Consensus pattern (30 bp):
TTATTTATATACAAATTAAATGATAAAAAT
Found at i:20646309 original size:28 final size:26
Alignment explanation
Indices: 20646276--20646331 Score: 76
Period size: 28 Copynumber: 2.1 Consensus size: 26
20646266 TAAAAATTTA
*
20646276 ATAATTATTTAAATATTTGATATTTTTT
1 ATAATTAATTAAAT-TTT-ATATTTTTT
*
20646304 ATAATTAATTAAATTTTTTATTTTTT
1 ATAATTAATTAAATTTTATATTTTTT
20646330 AT
1 AT
20646332 TTTAGATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 10 0.38
27 3 0.12
28 13 0.50
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (26 bp):
ATAATTAATTAAATTTTATATTTTTT
Found at i:20651385 original size:33 final size:32
Alignment explanation
Indices: 20651343--20651411 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 32
20651333 TATTGTTTAT
*
20651343 TTTATATTAAAATATAAAATTATCATAT-TATAA
1 TTTATATTAAAATATAAAA-TATAATATATAT-A
* *
20651376 TTTATATTAATATATCAAATATAATATATATA
1 TTTATATTAAAATATAAAATATAATATATATA
20651408 TTTA
1 TTTA
20651412 CGTATAAGCA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
32 12 0.38
33 20 0.62
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (32 bp):
TTTATATTAAAATATAAAATATAATATATATA
Found at i:20652705 original size:26 final size:26
Alignment explanation
Indices: 20652674--20652727 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
20652664 AGCAAATTTT
*
20652674 TTTAGTATTGTTTGCTGCAGAAAATC
1 TTTAGTATTGTTTGCTACAGAAAATC
20652700 TTTAGTATTGTTTGCTACAGAAAATC
1 TTTAGTATTGTTTGCTACAGAAAATC
20652726 TT
1 TT
20652728 GTTAAAGATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.28, C:0.11, G:0.17, T:0.44
Consensus pattern (26 bp):
TTTAGTATTGTTTGCTACAGAAAATC
Found at i:20656482 original size:31 final size:31
Alignment explanation
Indices: 20656447--20656541 Score: 118
Period size: 31 Copynumber: 3.1 Consensus size: 31
20656437 ATTATACAAA
* *
20656447 TAGTCTTTATATTCATATAAAATTTGAAATT
1 TAGTCTCTATATTCACATAAAATTTGAAATT
*
20656478 TAGTCTCTATATTTACATAAAATTTGAAATT
1 TAGTCTCTATATTCACATAAAATTTGAAATT
* * * * *
20656509 TAATCCCAATATTTACATGAAATTTGAAATT
1 TAGTCTCTATATTCACATAAAATTTGAAATT
20656540 TA
1 TA
20656542 ATTCCTCTAA
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 57 1.00
ACGTcount: A:0.40, C:0.09, G:0.06, T:0.44
Consensus pattern (31 bp):
TAGTCTCTATATTCACATAAAATTTGAAATT
Found at i:20656542 original size:31 final size:31
Alignment explanation
Indices: 20656463--20656543 Score: 126
Period size: 31 Copynumber: 2.6 Consensus size: 31
20656453 TTATATTCAT
* * *
20656463 ATAAAATTTGAAATTTAGTCTCTATATTTAC
1 ATAAAATTTGAAATTTAATCCCAATATTTAC
20656494 ATAAAATTTGAAATTTAATCCCAATATTTAC
1 ATAAAATTTGAAATTTAATCCCAATATTTAC
*
20656525 ATGAAATTTGAAATTTAAT
1 ATAAAATTTGAAATTTAAT
20656544 TCCTCTAATA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.43, C:0.09, G:0.06, T:0.42
Consensus pattern (31 bp):
ATAAAATTTGAAATTTAATCCCAATATTTAC
Found at i:20657258 original size:7 final size:7
Alignment explanation
Indices: 20657248--20657370 Score: 61
Period size: 7 Copynumber: 19.0 Consensus size: 7
20657238 AATCTAAAAT
20657248 CTAAACC
1 CTAAACC
20657255 CTAAA-C
1 CTAAACC
20657261 C--AACC
1 CTAAACC
20657266 CTTAAACC
1 C-TAAACC
*
20657274 CTATA-C
1 CTAAACC
*
20657280 CTAAACT
1 CTAAACC
*
20657287 TTAAACC
1 CTAAACC
20657294 CTAAA-C
1 CTAAACC
*
20657300 C-AAACT
1 CTAAACC
20657306 CTAAACC
1 CTAAACC
* *
20657313 ATAAACT
1 CTAAACC
* *
20657320 TTGAA-C
1 CTAAACC
20657326 C-AAACC
1 CTAAACC
20657332 CTAAA-C
1 CTAAACC
*
20657338 C-AAACT
1 CTAAACC
20657344 CTAAACC
1 CTAAACC
20657351 CTAAA-C
1 CTAAACC
*
20657357 TTAAACC
1 CTAAACC
*
20657364 CCAAACC
1 CTAAACC
20657371 AAAACCTTAC
Statistics
Matches: 84, Mismatches: 20, Indels: 24
0.66 0.16 0.19
Matches are distributed among these distances:
4 2 0.02
5 10 0.12
6 20 0.24
7 47 0.56
8 5 0.06
ACGTcount: A:0.45, C:0.36, G:0.01, T:0.19
Consensus pattern (7 bp):
CTAAACC
Found at i:20657273 original size:19 final size:19
Alignment explanation
Indices: 20657249--20657356 Score: 89
Period size: 19 Copynumber: 5.6 Consensus size: 19
20657239 ATCTAAAATC
*
20657249 TAAACCCTAAACCAACCCT
1 TAAACCCTAAACCAAACCT
* *
20657268 TAAACCCTATACCTAAACTT
1 TAAACCCTAAACC-AAACCT
20657288 TAAACCCTAAACCAAA-CT
1 TAAACCCTAAACCAAACCT
* **
20657306 CTAAACCATAAACTTTGAACC-
1 -TAAACCCTAAAC--CAAACCT
20657327 -AAACCCTAAACCAAA-CT
1 TAAACCCTAAACCAAACCT
20657344 CTAAACCCTAAAC
1 -TAAACCCTAAAC
20657357 TTAAACCCCA
Statistics
Matches: 70, Mismatches: 11, Indels: 16
0.72 0.11 0.16
Matches are distributed among these distances:
16 1 0.01
17 2 0.03
18 1 0.01
19 47 0.67
20 16 0.23
21 2 0.03
22 1 0.01
ACGTcount: A:0.45, C:0.34, G:0.01, T:0.19
Consensus pattern (19 bp):
TAAACCCTAAACCAAACCT
Found at i:20657309 original size:12 final size:12
Alignment explanation
Indices: 20657289--20657363 Score: 71
Period size: 12 Copynumber: 6.0 Consensus size: 12
20657279 CCTAAACTTT
*
20657289 AAACCCTAAACC
1 AAACTCTAAACC
20657301 AAACTCTAAACC
1 AAACTCTAAACC
* *
20657313 ATAAACTTTGAACC
1 --AAACTCTAAACC
*
20657327 AAACCCTAAACC
1 AAACTCTAAACC
20657339 AAACTCTAAACCC
1 AAACTCTAAA-CC
20657352 TAAACT-TAAACC
1 -AAACTCTAAACC
20657364 CCAAACCAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
12 31 0.60
13 6 0.12
14 15 0.29
ACGTcount: A:0.48, C:0.33, G:0.01, T:0.17
Consensus pattern (12 bp):
AAACTCTAAACC
Done.