Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, 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: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 152 of 190
Found at i:24482389 original size:6 final size:5
Alignment explanation
Indices: 24482366--24482403 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
24482356 AAAAAAAATC
*
24482366 AATTA AAATA AATTA AATTTA AATTA AA-TA AATTA AAT
1 AATTA AATTA AATTA AA-TTA AATTA AATTA AATTA AAT
24482404 AAAAAAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
4 4 0.14
5 20 0.69
6 5 0.17
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (5 bp):
AATTA
Found at i:24482397 original size:9 final size:9
Alignment explanation
Indices: 24482361--24482406 Score: 56
Period size: 9 Copynumber: 4.8 Consensus size: 9
24482351 TTTAAAAAAA
*
24482361 AAATCAATT
1 AAATAAATT
24482370 AAAATAAATT
1 -AAATAAATT
24482380 AAATTTAAATT
1 AAA--TAAATT
24482391 AAATAAATT
1 AAATAAATT
24482400 AAATAAA
1 AAATAAA
24482407 AAAAATTCAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
9 16 0.48
10 8 0.24
11 9 0.27
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (9 bp):
AAATAAATT
Found at i:24482926 original size:20 final size:20
Alignment explanation
Indices: 24482884--24482947 Score: 87
Period size: 20 Copynumber: 3.2 Consensus size: 20
24482874 AATTCCTCCA
24482884 AAAAATTCAAGCTAAA--CCT
1 AAAAATTCAA-CTAAATTCCT
*
24482903 AAAAATTCAACTAAATTCCC
1 AAAAATTCAACTAAATTCCT
*
24482923 AAAACTTCAACTAAATTCCT
1 AAAAATTCAACTAAATTCCT
24482943 AAAAA
1 AAAAA
24482948 AAAAAAAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
18 5 0.13
19 10 0.26
20 24 0.62
ACGTcount: A:0.53, C:0.22, G:0.02, T:0.23
Consensus pattern (20 bp):
AAAAATTCAACTAAATTCCT
Found at i:24489780 original size:20 final size:20
Alignment explanation
Indices: 24489755--24489793 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
24489745 ATTTGTCCAG
*
24489755 AAATATAAAATATGAAATAT
1 AAATATAAAATACGAAATAT
24489775 AAATATAAAATACGAAATA
1 AAATATAAAATACGAAATA
24489794 CAATAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.26
Consensus pattern (20 bp):
AAATATAAAATACGAAATAT
Found at i:24491145 original size:21 final size:21
Alignment explanation
Indices: 24491102--24491150 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
24491092 GAGTATTTAT
* *
24491102 AAAAAAAATTTCAATACAGTA
1 AAAAAAAATTTCAAAACAATA
* *
24491123 AAAAAAAATTTTAAAATAATA
1 AAAAAAAATTTCAAAACAATA
*
24491144 AATAAAA
1 AAAAAAA
24491151 TTTGATTAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.24
Consensus pattern (21 bp):
AAAAAAAATTTCAAAACAATA
Found at i:24500252 original size:16 final size:16
Alignment explanation
Indices: 24500231--24500263 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
24500221 AAAATCATCG
24500231 TAAATCATCATTATCA
1 TAAATCATCATTATCA
24500247 TAAATCATCATTATCA
1 TAAATCATCATTATCA
24500263 T
1 T
24500264 TCAAATCGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.18, G:0.00, T:0.39
Consensus pattern (16 bp):
TAAATCATCATTATCA
Found at i:24504901 original size:16 final size:16
Alignment explanation
Indices: 24504880--24504912 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
24504870 AAAATCATCG
24504880 TAAATCATCATTATCA
1 TAAATCATCATTATCA
24504896 TAAATCATCATTATCA
1 TAAATCATCATTATCA
24504912 T
1 T
24504913 TCAAATCGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.18, G:0.00, T:0.39
Consensus pattern (16 bp):
TAAATCATCATTATCA
Found at i:24510195 original size:48 final size:49
Alignment explanation
Indices: 24510094--24510521 Score: 474
Period size: 48 Copynumber: 9.0 Consensus size: 49
24510084 GTTTTGAGAA
* *
24510094 AAGATGAGATTTTTAAAGTTGTTGAGCCTTTGCTGAGAGGAGCTTTTTC-
1 AAGATGAGA-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTCT
* * *
24510143 AAGAT-AGATTTTAAAGTTGTTAAGCCTCTACTGAGAGGAACCTTTTCT
1 AAGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTCT
* * * *
24510191 AAGATGAAATTTTAAAATTGTTGAGCTTCTGCT-AGAGGAGCTTTTTC-
1 AAGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTCT
* *
24510238 AAGATG-GATTTTAAAGTTGTTAAGCCTCTGCTGAGATGAGCCTTTT-T
1 AAGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTCT
* * * * * *
24510285 CAAGATGA-TTTTTAAGGTCGTTGAGCCTTTG-TGAGATGAGCCCTTTTCC
1 -AAGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CCTTTTCT
**
24510334 AA-ATGAGATTTTAAAGTAATTGAGCCTCTGCTGAGAGGAG-CTTTT-T
1 AAGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTCT
* *
24510380 ---ATAAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTCC
1 AAGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTCT
*
24510426 AAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAG-C-TTTCT
1 AAGATGAGA-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTCT
* * *
24510474 AAGATGAAATTTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGTCTTTT
1 AAGATGAGA-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTT
24510522 TCAGATTTTA
Statistics
Matches: 320, Mismatches: 41, Indels: 35
0.81 0.10 0.09
Matches are distributed among these distances:
44 35 0.11
45 5 0.02
46 22 0.07
47 69 0.22
48 113 0.35
49 42 0.13
50 34 0.11
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (49 bp):
AAGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTCT
Found at i:24510248 original size:95 final size:96
Alignment explanation
Indices: 24510094--24510524 Score: 467
Period size: 95 Copynumber: 4.5 Consensus size: 96
24510084 GTTTTGAGAA
*
24510094 AAGATGAGATTTTTAAAGTTGTTGAGCCTT-TGCTGAGAGGAG-CTTTTTCAAGAT-AGATTTTA
1 AAGATGA-AATTTTAAAGTTGTTGAG-CTTCTGCTGAGAGGAGCCTTTTTCAAGATGAGATTTTA
*
24510156 AAGTTGTTAAGCCTCTACTGAGAGGAACCTTTTCT
64 AAGTTGTTAAGCCTCTGCTGAGAGG-ACCTTTT-T
*
24510191 AAGATGAAATTTTAAAATTGTTGAGCTTCTGCT-AGAGGAG-CTTTTTCAAGATG-GATTTTAAA
1 AAGATGAAATTTTAAAGTTGTTGAGCTTCTGCTGAGAGGAGCCTTTTTCAAGATGAGATTTTAAA
*
24510253 GTTGTTAAGCCTCTGCTGAGATGAGCCTTTTT
66 GTTGTTAAGCCTCTGCTGAGAGGA-CCTTTTT
* * * * *
24510285 CAAGATG-ATTTTTAAGGTCGTTGAGCCTT-TG-TGAGATGAGCCCTTTTCCAA-ATGAGATTTT
1 -AAGATGAAATTTTAAAGTTGTTGAG-CTTCTGCTGAGAGGAG-CCTTTTTCAAGATGAGATTTT
** * *
24510346 AAAGTAATTGAGCCTCTGCTGAGAGGAGCTTTTT
63 AAAGTTGTTAAGCCTCTGCTGAGAGGACCTTTTT
* *
24510380 ---AT-AAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTCCAAGATGAGATTTTTA
1 AAGATGAA-ATTTTAAAGTTGTTGAGCTTCTGCTGAGAGGAGCCTTTTTCAAGATGAGA-TTTTA
* * * *
24510441 AAGTTGTTGAGCCTCTGCTGAGAAGAGCTTTCT
64 AAGTTGTTAAGCCTCTGCTGAGAGGACCTTTTT
* * *
24510474 AAGATGAAATTTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGTCTTTTTCA
1 AAGATGAAA-TTTTAAAGTTGTTGAGCTTCTGCTGAGAGGAGCCTTTTTCA
24510525 GATTTTAAAT
Statistics
Matches: 287, Mismatches: 27, Indels: 39
0.81 0.08 0.11
Matches are distributed among these distances:
91 5 0.02
92 26 0.09
93 15 0.05
94 58 0.20
95 76 0.26
96 57 0.20
97 10 0.03
98 40 0.14
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (96 bp):
AAGATGAAATTTTAAAGTTGTTGAGCTTCTGCTGAGAGGAGCCTTTTTCAAGATGAGATTTTAAA
GTTGTTAAGCCTCTGCTGAGAGGACCTTTTT
Found at i:24510358 original size:142 final size:144
Alignment explanation
Indices: 24510094--24510524 Score: 524
Period size: 142 Copynumber: 3.0 Consensus size: 144
24510084 GTTTTGAGAA
*
24510094 AAGATGAGATTTTTAAAGTTGTTGAGCCTTTGCTGAGAGGAG-CTTTTTCAAGATAGA-TTTTAA
1 AAGATG-GA-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAGATAGATTTTTAA
* ** * * * *
24510157 AGTTGTTAAGCCTCTACTGAGAGGAACCTTTTCTAAGATGAAATTTTAAAATTGTTGAGCTTCTG
64 AGTTGTTGAGCCT-TTGTGAGAAGAGCCTTTTCTAAGATGAAATTTTAAAGTTGTTGAGCCTCTG
24510222 CT-AGAGGAGCTTTTTC
128 CTGAGAGGAGCTTTTTC
* * *
24510238 AAGATGGATTTTAAAGTTGTTAAGCCTCTGCTGAGATGAGCCTTTTTCAAGAT-GATTTTTAAGG
1 AAGATGGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAGATAGATTTTTAAAG
* * * * **
24510302 TCGTTGAGCCTTTGTGAGATGAGCCCTTTTCCAA-ATGAGATTTTAAAGTAATTGAGCCTCTGCT
66 TTGTTGAGCCTTTGTGAGAAGAG-CCTTTTCTAAGATGAAATTTTAAAGTTGTTGAGCCTCTGCT
24510366 GAGAGGAGCTTTTT-
130 GAGAGGAGCTTTTTC
*
24510380 ATA-A--GATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTCCAAGATGAGATTTTTAA
1 A-AGATGGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAGAT-AGATTTTTAA
*
24510442 AGTTGTTGAGCCTCTGCTGAGAAGAG-C-TTTCTAAGATGAAATTTTTAAAGTTGTTGAGCCTCT
64 AGTTGTTGAGCCTTTG-TGAGAAGAGCCTTTTCTAAGATGAAA-TTTTAAAGTTGTTGAGCCTCT
*
24510505 ACTGAGAGGAGTCTTTTTC
127 GCTGAGAGGAG-CTTTTTC
24510524 A
1 A
24510525 GATTTTAAAT
Statistics
Matches: 247, Mismatches: 28, Indels: 24
0.83 0.09 0.08
Matches are distributed among these distances:
140 50 0.20
141 6 0.02
142 117 0.47
143 67 0.27
144 7 0.03
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (144 bp):
AAGATGGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAGATAGATTTTTAAAG
TTGTTGAGCCTTTGTGAGAAGAGCCTTTTCTAAGATGAAATTTTAAAGTTGTTGAGCCTCTGCTG
AGAGGAGCTTTTTC
Found at i:24515599 original size:14 final size:14
Alignment explanation
Indices: 24515584--24515626 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
24515574 AATTTCTATA
*
24515584 TTTGTATTTATTTAT
1 TTTGTATTTA-ATAT
*
24515599 TTTATATTTAATAT
1 TTTGTATTTAATAT
24515613 TTTGTATTTAATAT
1 TTTGTATTTAATAT
24515627 GTATAACAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
14 16 0.64
15 9 0.36
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (14 bp):
TTTGTATTTAATAT
Found at i:24521983 original size:2 final size:2
Alignment explanation
Indices: 24521976--24522012 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
24521966 ACATGTTAAG
24521976 AT AT AT AT 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
24522013 ATACTTAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:24524583 original size:26 final size:26
Alignment explanation
Indices: 24524565--24524623 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
24524555 TTAAAAATTA
24524565 AAAT-AATTTTATTAATTTAATATAAT
1 AAATAAATTTTATT-ATTTAATATAAT
24524591 AAATAAATTTTATTATTTAATAT-AT
1 AAATAAATTTTATTATTTAATATAAT
*
24524616 TAATAAAT
1 AAATAAAT
24524624 ATTTTAAATC
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
25 9 0.29
26 13 0.42
27 9 0.29
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (26 bp):
AAATAAATTTTATTATTTAATATAAT
Found at i:24524627 original size:27 final size:27
Alignment explanation
Indices: 24524564--24524629 Score: 82
Period size: 26 Copynumber: 2.4 Consensus size: 27
24524554 TTTAAAAATT
24524564 AAAATAATTTTATTAATTTAATATAATA
1 AAAAT-ATTTTATTAATTTAATATAATA
*
24524592 AATAA-ATTTTATT-ATTTAATATATTA
1 AA-AATATTTTATTAATTTAATATAATA
24524618 ATAAATATTTTA
1 A-AAATATTTTA
24524630 AATCAAAGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
26 15 0.44
27 15 0.44
28 2 0.06
29 2 0.06
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (27 bp):
AAAATATTTTATTAATTTAATATAATA
Found at i:24526291 original size:43 final size:40
Alignment explanation
Indices: 24526237--24526330 Score: 111
Period size: 39 Copynumber: 2.3 Consensus size: 40
24526227 TTAATATTTC
24526237 AATAATA-AATAGTATTATATTATTATTTTAATAATAAATAATA
1 AATAATATAATAGTATT-T-TTA-TA-TTTAATAATAAATAATA
* **
24526280 AAT-ATATAATAGTATTTTTATATTTAATAATTAATGTTA
1 AATAATATAATAGTATTTTTATATTTAATAATAAATAATA
24526319 AATAATATAATA
1 AATAATATAATA
24526331 ATGTTATTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
39 17 0.37
40 10 0.22
41 3 0.07
42 4 0.09
43 12 0.26
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (40 bp):
AATAATATAATAGTATTTTTATATTTAATAATAAATAATA
Found at i:24526309 original size:32 final size:36
Alignment explanation
Indices: 24526215--24526310 Score: 101
Period size: 32 Copynumber: 2.7 Consensus size: 36
24526205 ATATTATTAA
*
24526215 ATATAAGTATTTTTAATATTTCAATAATAAATAGTATT
1 ATATTAGTATTTTT-ATATTT-AATAATAAATAGTATT
* * * *
24526253 ATATTATTATTTTAATAATAAATAATAAATA-TA-T
1 ATATTAGTATTTTTATATTTAATAATAAATAGTATT
24526287 A-A-TAGTATTTTTATATTTAATAAT
1 ATATTAGTATTTTTATATTTAATAAT
24526311 TAATGTTAAA
Statistics
Matches: 49, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
32 18 0.37
33 1 0.02
34 2 0.04
35 2 0.04
36 11 0.22
37 4 0.08
38 11 0.22
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (36 bp):
ATATTAGTATTTTTATATTTAATAATAAATAGTATT
Found at i:24526517 original size:17 final size:17
Alignment explanation
Indices: 24526493--24526531 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
24526483 TTCAATATAA
*
24526493 AATATAAAATTTTTAAT
1 AATATAAAATATTTAAT
*
24526510 AGTAT-AAATATTTAAT
1 AATATAAAATATTTAAT
24526526 AATATA
1 AATATA
24526532 TATTACTATT
Statistics
Matches: 18, Mismatches: 3, Indels: 2
0.78 0.13 0.09
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (17 bp):
AATATAAAATATTTAAT
Found at i:24530103 original size:16 final size:16
Alignment explanation
Indices: 24530082--24530112 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24530072 ATCATTTATA
24530082 ATTTTTATTCTATTTT
1 ATTTTTATTCTATTTT
*
24530098 ATTTTTATTTTATTT
1 ATTTTTATTCTATTT
24530113 AAATTTCTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.77
Consensus pattern (16 bp):
ATTTTTATTCTATTTT
Found at i:24531020 original size:75 final size:75
Alignment explanation
Indices: 24530897--24531046 Score: 255
Period size: 75 Copynumber: 2.0 Consensus size: 75
24530887 ACCTTTAATA
* * *
24530897 GCCAACCACCCAATACCGAAAAATTAATAGCTTTTTTGCTATTGTCACCACCATACTTCATCTTT
1 GCCAACCACCCAATACCAAAAAATTAATAGCCTTTTTGCTATTGTCACCACCATACTTCATCTTC
24530962 GGTTGTTACT
66 GGTTGTTACT
* *
24530972 GCCAACCACCCAATACCAAAAAATTAATAGCCTTTTTGCTATTGTCACCACCATATTTCGTCTTC
1 GCCAACCACCCAATACCAAAAAATTAATAGCCTTTTTGCTATTGTCACCACCATACTTCATCTTC
24531037 GGTTGTTACT
66 GGTTGTTACT
24531047 CACCAGTGTT
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
75 70 1.00
ACGTcount: A:0.28, C:0.27, G:0.11, T:0.34
Consensus pattern (75 bp):
GCCAACCACCCAATACCAAAAAATTAATAGCCTTTTTGCTATTGTCACCACCATACTTCATCTTC
GGTTGTTACT
Found at i:24532542 original size:50 final size:50
Alignment explanation
Indices: 24532449--24532543 Score: 120
Period size: 50 Copynumber: 1.9 Consensus size: 50
24532439 AAAATGCTCA
**
24532449 TTTAAAAAAAGGCTTAGTAACTTTAAAAATATAATTTTGAAAAAATATCT
1 TTTAAAAAAAGGCTTAGTAACTTTAAAAATATAATTTAAAAAAAATATCT
* * * *
24532499 TTTAAACAAAGGC-TATGTATCTTTAAAAATCTCATTTAAAAAAAA
1 TTTAAAAAAAGGCTTA-GTAACTTTAAAAATATAATTTAAAAAAAA
24532544 AAAACTTGTT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
49 2 0.05
50 36 0.95
ACGTcount: A:0.49, C:0.08, G:0.07, T:0.35
Consensus pattern (50 bp):
TTTAAAAAAAGGCTTAGTAACTTTAAAAATATAATTTAAAAAAAATATCT
Found at i:24532608 original size:26 final size:26
Alignment explanation
Indices: 24532568--24532619 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
24532558 CAAAGGCATT
24532568 GAAACTTTAAAAATCTCATATGAAAA
1 GAAACTTTAAAAATCTCATATGAAAA
* *
24532594 GAAAC-TTAAAGAATCTCTTTTGAAAA
1 GAAACTTTAAA-AATCTCATATGAAAA
24532620 AAAATAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 5 0.22
26 18 0.78
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.29
Consensus pattern (26 bp):
GAAACTTTAAAAATCTCATATGAAAA
Found at i:24532668 original size:21 final size:22
Alignment explanation
Indices: 24532642--24532683 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
24532632 TCAAGGATTT
*
24532642 ATTCAAATATTCACA-TAAAAA
1 ATTCAAAGATTCACACTAAAAA
24532663 ATTCAAAGATTCACACTAAAA
1 ATTCAAAGATTCACACTAAAA
24532684 GATACTCGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.55, C:0.17, G:0.02, T:0.26
Consensus pattern (22 bp):
ATTCAAAGATTCACACTAAAAA
Found at i:24533009 original size:20 final size:22
Alignment explanation
Indices: 24532961--24533040 Score: 85
Period size: 22 Copynumber: 3.7 Consensus size: 22
24532951 CAATAAAGGT
* *
24532961 TTTCAAGATTCACATTAAAACT-
1 TTTCAAGATTCGCATCAAAA-TG
*
24532983 TTTCAAGATTCGCATCGAAA-G
1 TTTCAAGATTCGCATCAAAATG
*
24533004 -TTCAAGATTCACATCAAAATG
1 TTTCAAGATTCGCATCAAAATG
24533025 TTCTCAAGATTCGCAT
1 TT-TCAAGATTCGCAT
24533041 TGGGTTCAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
20 17 0.35
21 1 0.02
22 18 0.38
23 12 0.25
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.33
Consensus pattern (22 bp):
TTTCAAGATTCGCATCAAAATG
Found at i:24533013 original size:175 final size:175
Alignment explanation
Indices: 24532696--24533016 Score: 382
Period size: 175 Copynumber: 1.8 Consensus size: 175
24532686 TACTCGAGAT
* **
24532696 TCGCATCAAAAGTCTTTGAGATTAGTATCGAAGGTTCGGGATTCACACCAAAAGGTTATTGAGAT
1 TCGCATCAAAAGTCTTTGAGATTAGAATCGAAGGTTCAAGATTCACACCAAAAGGTTATTGAGAT
* *
24532761 TCACATCAAGAGTTGCATCAAAAGCCTTCAAGAATCACATTAAAAGCCTTTGAGATTCACATTGA
66 TCACATCAAGAGTTGCATCAAAAGCCTTCAAGAATCACATTAAAAGCCTTTAAGATTCACATCGA
* *
24532826 AGGTTTAAGATTCACACCGAAAAGTTTCAAAATTGTCATTAAGAG
131 AAGTTCAAGATTCACACCGAAAAGTTTCAAAATTGTCATTAAGAG
* *
24532871 TCGCATCAAAAG-CTTTTGAGATTTGCAAT-GAAGGTTCAAGATTCACACGAAAAGGTT-TTCGA
1 TCGCATCAAAAGTC-TTTGAGATTAG-AATCGAAGGTTCAAGATTCACACCAAAAGGTTATT-GA
*** ** * ** * * *
24532933 GATTTGTATTGAGAGTTGCAAT-AAAGGTTTTCAAGATTCACATTAAAA-CTTTTCAAGATTCGC
63 GATTCACATCAAGAGTTGC-ATCAAAAGCCTTCAAGAATCACATTAAAAGCCTTT-AAGATTCAC
24532996 ATCGAAAGTTCAAGATTCACA
126 ATCGAAAGTTCAAGATTCACA
24533017 TCAAAATGTT
Statistics
Matches: 121, Mismatches: 20, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
174 7 0.06
175 110 0.91
176 4 0.03
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (175 bp):
TCGCATCAAAAGTCTTTGAGATTAGAATCGAAGGTTCAAGATTCACACCAAAAGGTTATTGAGAT
TCACATCAAGAGTTGCATCAAAAGCCTTCAAGAATCACATTAAAAGCCTTTAAGATTCACATCGA
AAGTTCAAGATTCACACCGAAAAGTTTCAAAATTGTCATTAAGAG
Found at i:24536084 original size:9 final size:9
Alignment explanation
Indices: 24536047--24536083 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
24536037 AATTTCAAAT
24536047 ATATATAAA
1 ATATATAAA
24536056 ATATATAAA
1 ATATATAAA
24536065 ATATATAAA
1 ATATATAAA
24536074 A-AGTATAAA
1 ATA-TATAAA
24536083 A
1 A
24536084 AAAATCATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 1 0.04
9 26 0.96
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (9 bp):
ATATATAAA
Found at i:24536798 original size:81 final size:81
Alignment explanation
Indices: 24536662--24536812 Score: 198
Period size: 81 Copynumber: 1.9 Consensus size: 81
24536652 AAAATTAAAG
* ** * * *
24536662 GAGCAGAATGGGGAAGCAGAAAATATAAAACAGAAAGTGAAACCAGTGGGAGTGGCGGCAACGAA
1 GAGCAGAAAGGGGAAGCAGAAAATATAAAACAGAAAGAAAAACCAGCGGCAGTGGCAGCAACGAA
24536727 ATAAAAACAGAAGAAAA
66 A-AAAAACAGAAGAAAA
* *
24536744 GAGCAGAAAGGGG-AGCAGAAAATATAAAACAGAGAGAAAAATTCA-CGGCAGTGGCAGCAACGA
1 GAGCAGAAAGGGGAAGCAGAAAATATAAAACAGAAAGAAAAA-CCAGCGGCAGTGGCAGCAACGA
24536807 AAAAAA
65 AAAAAA
24536813 CCTGGAGCGT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
80 4 0.07
81 42 0.70
82 14 0.23
ACGTcount: A:0.52, C:0.12, G:0.28, T:0.08
Consensus pattern (81 bp):
GAGCAGAAAGGGGAAGCAGAAAATATAAAACAGAAAGAAAAACCAGCGGCAGTGGCAGCAACGAA
AAAAAACAGAAGAAAA
Found at i:24540856 original size:15 final size:16
Alignment explanation
Indices: 24540821--24540858 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
24540811 TTCATGCTTT
24540821 AATTTACTTTTTATAC
1 AATTTACTTTTTATAC
24540837 AATTTA-TTTTTCATAC
1 AATTTACTTTTT-ATAC
*
24540853 ATTTTA
1 AATTTA
24540859 AATTTATGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 5 0.25
16 15 0.75
ACGTcount: A:0.32, C:0.11, G:0.00, T:0.58
Consensus pattern (16 bp):
AATTTACTTTTTATAC
Found at i:24541281 original size:12 final size:12
Alignment explanation
Indices: 24541250--24541309 Score: 57
Period size: 12 Copynumber: 4.9 Consensus size: 12
24541240 ACGAAATTCA
24541250 AAACCCTAAATG
1 AAACCCTAAATG
** *
24541262 TGATCCTAAATG
1 AAACCCTAAATG
24541274 AAACCCTAAAATG
1 AAACCCT-AAATG
* **
24541287 AAATCCTAAACC
1 AAACCCTAAATG
24541299 AAACCCTAAAT
1 AAACCCTAAAT
24541310 CCTAAGTGAA
Statistics
Matches: 36, Mismatches: 11, Indels: 2
0.73 0.22 0.04
Matches are distributed among these distances:
12 25 0.69
13 11 0.31
ACGTcount: A:0.48, C:0.25, G:0.07, T:0.20
Consensus pattern (12 bp):
AAACCCTAAATG
Found at i:24541292 original size:25 final size:25
Alignment explanation
Indices: 24541250--24541308 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
24541240 ACGAAATTCA
** **
24541250 AAACCCT-AAATGTGATCCTAAATG
1 AAACCCTAAAATGAAATCCTAAACC
24541274 AAACCCTAAAATGAAATCCTAAACC
1 AAACCCTAAAATGAAATCCTAAACC
24541299 AAACCCTAAA
1 AAACCCTAAA
24541309 TCCTAAGTGA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
24 7 0.23
25 23 0.77
ACGTcount: A:0.49, C:0.25, G:0.07, T:0.19
Consensus pattern (25 bp):
AAACCCTAAAATGAAATCCTAAACC
Found at i:24541321 original size:19 final size:19
Alignment explanation
Indices: 24541299--24541357 Score: 82
Period size: 19 Copynumber: 3.1 Consensus size: 19
24541289 ATCCTAAACC
*
24541299 AAACCCTAAATCCTAAGTG
1 AAACCCTAAACCCTAAGTG
*
24541318 AAACCCTAAACCCTAGGTG
1 AAACCCTAAACCCTAAGTG
* *
24541337 AAATCCAAAACCCTAAGTG
1 AAACCCTAAACCCTAAGTG
24541356 AA
1 AA
24541358 GCCCCTTATC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.44, C:0.27, G:0.12, T:0.17
Consensus pattern (19 bp):
AAACCCTAAACCCTAAGTG
Found at i:24545453 original size:12 final size:12
Alignment explanation
Indices: 24545436--24545460 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24545426 AGAATTAATG
24545436 AAATAATAACAA
1 AAATAATAACAA
24545448 AAATAATAACAA
1 AAATAATAACAA
24545460 A
1 A
24545461 TTAGACCATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (12 bp):
AAATAATAACAA
Found at i:24550579 original size:23 final size:23
Alignment explanation
Indices: 24550536--24550579 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
24550526 TTCACGAATG
*
24550536 AATTTGTTTAATGTTAACAAACA
1 AATTTGTTTAATCTTAACAAACA
24550559 AATTTGTTTAA-CTTAATCAAA
1 AATTTGTTTAATCTTAA-CAAA
24550580 TTGAACATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.41
Consensus pattern (23 bp):
AATTTGTTTAATCTTAACAAACA
Found at i:24556807 original size:58 final size:57
Alignment explanation
Indices: 24556743--24557194 Score: 463
Period size: 58 Copynumber: 7.7 Consensus size: 57
24556733 TCTTGTACAG
* *
24556743 GGAAAATTGATACTTTTAACTTTTCCCTAAAAATATTCTTTTGAAACTTTAATTTTGA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATT-TTTTGAAACTTTAATTTTAA
* *
24556801 GGAAAATTGATATTTTCAACTTTTCTCC-AAAAATATTTTTTGGAAACTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTC-CCTAAAAATATTTTTT-GAAACTTTAATTTT-AA
* * * *
24556860 AGAAAATTAATACTTTCAACTTTT-CCTCAAAAACTTTTTTTTGAAA-TTTTATTTTAAA
1 GGAAAATTGATACTTTCAACTTTTCCCT-AAAAA-TATTTTTTGAAACTTTAATTTT-AA
* *
24556918 GGAAAATTGATACTTTCAACTTTT-CCTCAAAAATCTTTTTTGAAA-TTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCT-AAAAATATTTTTTGAAACTTTAATTTTAA
*
24556974 GGAAAATTGATACTTTCAACTTTTTCCC-AAAAATATTTTTTGGAAACTTTGATTTTCAA
1 GGAAAATTGATACTTTCAAC-TTTTCCCTAAAAATATTTTTT-GAAACTTTAATTTT-AA
* * * * *
24557033 GGAAAATTGATACCTTCAACTTTT-CTTCAAAAACCTTTTTTTTTTTTTAAA-TTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCT-AAAAA------TATTTTTTGAAACTTTAATTTTAA
* * *
24557095 AGAAAATTGATACTTTCAACTTTTTTCC-AAAAATATTTTTTAGAAACTTTGATTTTTAA
1 GGAAAATTGATACTTTCAAC-TTTTCCCTAAAAATATTTTTT-GAAACTTT-AATTTTAA
* *
24557154 AGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTT
24557195 TTGGATTTTA
Statistics
Matches: 339, Mismatches: 30, Indels: 49
0.81 0.07 0.12
Matches are distributed among these distances:
56 41 0.12
57 36 0.11
58 108 0.32
59 100 0.29
60 7 0.02
62 25 0.07
63 11 0.03
64 4 0.01
65 7 0.02
ACGTcount: A:0.35, C:0.13, G:0.07, T:0.46
Consensus pattern (57 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGAAACTTTAATTTTAA
Found at i:24556891 original size:59 final size:58
Alignment explanation
Indices: 24556744--24557194 Score: 510
Period size: 59 Copynumber: 7.7 Consensus size: 58
24556734 CTTGTACAGG
* * * *
24556744 GAAAATTGATACTTTTAACTTTTCC-CTAAAAATATTCTTTTGAAACTTT-AATTTTGAG
1 GAAAATTGATACTTTCAACTTTTCCTC-AAAAATATT-TTTTGAAACTTTGATTTTTAAA
* *
24556802 GAAAATTGATATTTTCAACTTTT-CTCCAAAAATATTTTTTGGAAACTTTGATTTTCAAA
1 GAAAATTGATACTTTCAACTTTTCCT-CAAAAATATTTTTT-GAAACTTTGATTTTTAAA
* * *
24556861 GAAAATTAATACTTTCAACTTTTCCTCAAAAACTTTTTTTTGAAA-TTTTA-TTTTAAA
1 GAAAATTGATACTTTCAACTTTTCCTCAAAAA-TATTTTTTGAAACTTTGATTTTTAAA
* *
24556918 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTGAAA-TTT-ATTTTTAAG
1 -GAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAACTTTGATTTTTAAA
* *
24556975 GAAAATTGATACTTTCAACTTTTTCC-CAAAAATATTTTTTGGAAACTTTGATTTTCAAG
1 GAAAATTGATACTTTCAAC-TTTTCCTCAAAAATATTTTTT-GAAACTTTGATTTTTAAA
* * * *
24557034 GAAAATTGATACCTTCAACTTTTCTTCAAAAACCTTTTTTTTTTTTTAAA-TTT-ATTTTTAAA
1 GAAAATTGATACTTTCAACTTTTCCTCAAAAA------TATTTTTTGAAACTTTGATTTTTAAA
*
24557096 GAAAATTGATACTTTCAACTTTT-TTCCAAAAATATTTTTTAGAAACTTTGATTTTTAAA
1 GAAAATTGATACTTTCAACTTTTCCT-CAAAAATATTTTTT-GAAACTTTGATTTTTAAA
*
24557155 GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTT
1 GAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT
24557195 TTGGATTTTA
Statistics
Matches: 342, Mismatches: 27, Indels: 47
0.82 0.06 0.11
Matches are distributed among these distances:
56 40 0.12
57 44 0.13
58 84 0.25
59 115 0.34
60 9 0.03
61 2 0.01
62 35 0.10
63 3 0.01
64 3 0.01
65 7 0.02
ACGTcount: A:0.35, C:0.13, G:0.07, T:0.46
Consensus pattern (58 bp):
GAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAACTTTGATTTTTAAA
Found at i:24557318 original size:4 final size:4
Alignment explanation
Indices: 24557309--24557352 Score: 63
Period size: 4 Copynumber: 11.0 Consensus size: 4
24557299 ATCCTAATTT
*
24557309 AATA AATA AA-A TAATA AATA AACA AATA AATA AATA AATA AATA
1 AATA AATA AATA -AATA AATA AATA AATA AATA AATA AATA AATA
24557353 TAAAAAGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
3 1 0.03
4 34 0.94
5 1 0.03
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:24558241 original size:19 final size:20
Alignment explanation
Indices: 24558193--24558240 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
24558183 TTCAACCAAA
*
24558193 AAAAAAAAATCTGATAAACG
1 AAAAAAAAATCAGATAAACG
24558213 AAAAAAAAATCAGATAAACG
1 AAAAAAAAATCAGATAAACG
24558233 AAAAAAAA
1 AAAAAAAA
24558241 TAAAAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.73, C:0.08, G:0.08, T:0.10
Consensus pattern (20 bp):
AAAAAAAAATCAGATAAACG
Found at i:24558323 original size:14 final size:15
Alignment explanation
Indices: 24558304--24558436 Score: 60
Period size: 16 Copynumber: 8.7 Consensus size: 15
24558294 AGATAAAAAA
24558304 ATAATAAATAAAT-T
1 ATAATAAATAAATAT
24558318 ATAAT-AATAAATAT
1 ATAATAAATAAATAT
*
24558332 ATAACTAGATAAATA-
1 ATAA-TAAATAAATAT
* * *
24558347 A-AATACATATATAG
1 ATAATAAATAAATAT
* * *
24558361 ATATTAACAGAAAATAA
1 ATAATAA-A-TAAATAT
*
24558378 ATAAATAAATAAAGAT
1 AT-AATAAATAAATAT
* *
24558394 ATACATATATTAATGCAT
1 ATA-ATAAATAAAT--AT
*
24558412 AGTAAT-AATAAATAA
1 A-TAATAAATAAATAT
24558427 ATAATAAATA
1 ATAATAAATA
24558437 CATAAAATAC
Statistics
Matches: 88, Mismatches: 18, Indels: 25
0.67 0.14 0.19
Matches are distributed among these distances:
13 15 0.17
14 17 0.19
15 12 0.14
16 21 0.24
17 12 0.14
18 9 0.10
19 2 0.02
ACGTcount: A:0.62, C:0.04, G:0.05, T:0.30
Consensus pattern (15 bp):
ATAATAAATAAATAT
Found at i:24558347 original size:33 final size:31
Alignment explanation
Indices: 24558307--24558396 Score: 89
Period size: 33 Copynumber: 2.9 Consensus size: 31
24558297 TAAAAAAATA
24558307 ATAAATAAATTATAATAATAAATATATAACTAG
1 ATAAATAAA-TATAATAATAAATATATAAC-AG
*
24558340 ATAAATAAA-ATACATATATAGATAT-TAACAG
1 ATAAATAAATATA-ATA-ATAAATATATAACAG
*
24558371 A-AAATAAATA-AATAAATAAAGATATA
1 ATAAATAAATATAAT-AATAAATATATA
24558397 CATATATTAA
Statistics
Matches: 49, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
29 8 0.16
30 11 0.22
31 7 0.14
32 7 0.14
33 16 0.33
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.29
Consensus pattern (31 bp):
ATAAATAAATATAATAATAAATATATAACAG
Found at i:24558350 original size:21 final size:20
Alignment explanation
Indices: 24558238--24558351 Score: 67
Period size: 21 Copynumber: 5.5 Consensus size: 20
24558228 AAACGAAAAA
*
24558238 AAATAAAA-AA-AAATAGAT
1 AAATAAAATAATAACTAGAT
*
24558256 AATTAATAATAATAA-TAAGAT
1 AAATAA-AATAATAACT-AGAT
*
24558277 AAATAAAA-AATATTACAAGAT
1 AAATAAAATAATA--ACTAGAT
* *
24558298 AAA-AAAATAATAAATAAATT
1 AAATAAAATAATAACTAGA-T
24558318 ATAATAATAAATATATAACTAGAT
1 A-AAT-A-AAATA-ATAACTAGAT
24558342 AAATAAAATA
1 AAATAAAATA
24558352 CATATATAGA
Statistics
Matches: 74, Mismatches: 8, Indels: 25
0.69 0.07 0.23
Matches are distributed among these distances:
18 5 0.07
19 9 0.12
20 11 0.15
21 30 0.41
22 1 0.01
23 4 0.05
24 7 0.09
25 7 0.09
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.26
Consensus pattern (20 bp):
AAATAAAATAATAACTAGAT
Found at i:24558363 original size:65 final size:64
Alignment explanation
Indices: 24558234--24558354 Score: 149
Period size: 65 Copynumber: 1.9 Consensus size: 64
24558224 AGATAAACGA
*
24558234 AAAAAAATAAAAAAAAATAGATAATTAATAATAATAATAAGATAAATAAAAAATATTACAAGAT
1 AAAAAAATAAAAAAAAATAGATAATTAATAATAATAATAAGATAAATAAAAAACATTACAAGAT
* * *
24558298 AAAAAAATAATAAATAAAT-TATAA-TAATAAATATATAACT-AGATAAATAAAATACAT
1 AAAAAAATAA-AAAAAAATAGATAATTAAT-AATA-ATAA-TAAGATAAATAAAAAACAT
24558355 ATATAGATAT
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
63 4 0.08
64 18 0.37
65 26 0.53
66 1 0.02
ACGTcount: A:0.69, C:0.02, G:0.03, T:0.26
Consensus pattern (64 bp):
AAAAAAATAAAAAAAAATAGATAATTAATAATAATAATAAGATAAATAAAAAACATTACAAGAT
Found at i:24559225 original size:18 final size:18
Alignment explanation
Indices: 24559198--24559263 Score: 73
Period size: 18 Copynumber: 3.7 Consensus size: 18
24559188 CAGATTCACA
24559198 AGATTTGCAAGAATTTTT
1 AGATTTGCAAGAATTTTT
* *
24559216 AGATTCGCAACCAA-TTTT
1 AGATTTGCAA-GAATTTTT
*
24559234 AGATTTGCAAGAATTTTC
1 AGATTTGCAAGAATTTTT
24559252 A-AGTTTGCAAGA
1 AGA-TTTGCAAGA
24559264 CATAAATGTT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
17 3 0.08
18 35 0.88
19 2 0.05
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (18 bp):
AGATTTGCAAGAATTTTT
Found at i:24559401 original size:18 final size:18
Alignment explanation
Indices: 24559375--24559432 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 18
24559365 AATTTTTTTA
*
24559375 TTCAGATTCGTAAGAATT
1 TTCAGATTCGCAAGAATT
* * *
24559393 TTTAGATTCACATGAATT
1 TTCAGATTCGCAAGAATT
*
24559411 TTCAGATTTGCAAGAATT
1 TTCAGATTCGCAAGAATT
24559429 TTCA
1 TTCA
24559433 ATTTCATATT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (18 bp):
TTCAGATTCGCAAGAATT
Found at i:24559903 original size:22 final size:22
Alignment explanation
Indices: 24559878--24559925 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
24559868 ATTCATATAA
*
24559878 AAAACCTTCAAGATTCTCATTT-
1 AAAACC-TAAAGATTCTCATTTG
* *
24559900 AAAATCTAAAGATTTTCATTTG
1 AAAACCTAAAGATTCTCATTTG
24559922 AAAA
1 AAAA
24559926 TTCTTAAAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.44, C:0.15, G:0.06, T:0.35
Consensus pattern (22 bp):
AAAACCTAAAGATTCTCATTTG
Found at i:24559913 original size:21 final size:24
Alignment explanation
Indices: 24559887--24559937 Score: 72
Period size: 21 Copynumber: 2.2 Consensus size: 24
24559877 AAAAACCTTC
24559887 AAGATTCTCATTT-AAAA-TC-TA
1 AAGATTCTCATTTGAAAATTCTTA
*
24559908 AAGATTTTCATTTGAAAATTCTTA
1 AAGATTCTCATTTGAAAATTCTTA
24559932 AAGATT
1 AAGATT
24559938 ATGCCTGGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 12 0.46
22 4 0.15
23 2 0.08
24 8 0.31
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (24 bp):
AAGATTCTCATTTGAAAATTCTTA
Found at i:24562089 original size:22 final size:23
Alignment explanation
Indices: 24562064--24562107 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
24562054 ATAAAATCTT
24562064 ATTAC-ATAAAAGAAATCCTAAC
1 ATTACTATAAAAGAAATCCTAAC
* *
24562086 ATTACTCTAAAAGAAATTCTAA
1 ATTACTATAAAAGAAATCCTAA
24562108 AATGACAAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.52, C:0.16, G:0.05, T:0.27
Consensus pattern (23 bp):
ATTACTATAAAAGAAATCCTAAC
Found at i:24563800 original size:14 final size:14
Alignment explanation
Indices: 24563781--24563809 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
24563771 TTCTTCTTCC
24563781 ATTTGTCTGGTTTG
1 ATTTGTCTGGTTTG
24563795 ATTTGTCTGGTTTG
1 ATTTGTCTGGTTTG
24563809 A
1 A
24563810 GCTCTAGTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.10, C:0.07, G:0.28, T:0.55
Consensus pattern (14 bp):
ATTTGTCTGGTTTG
Found at i:24569624 original size:17 final size:16
Alignment explanation
Indices: 24569604--24569646 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
24569594 TTTTTTTTTG
*
24569604 TTGTAAAAAACTTTTAT
1 TTGTAAAAAA-ATTTAT
24569621 TTGTAAAAATAATTTAT
1 TTGTAAAAA-AATTTAT
24569638 TT-TAAAAAA
1 TTGTAAAAAA
24569647 TATCTCTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 1 0.04
16 6 0.25
17 16 0.67
18 1 0.04
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (16 bp):
TTGTAAAAAAATTTAT
Found at i:24569790 original size:104 final size:103
Alignment explanation
Indices: 24569620--24569813 Score: 225
Period size: 104 Copynumber: 1.9 Consensus size: 103
24569610 AAAACTTTTA
* *
24569620 TTTGTAAAAATAATTTATTTTAAAAAATATCTCTAATATGTTGGTAAGATTTTCTGTCAAAGATT
1 TTTGTAAAAACAATTTATTTTAAAAAATATCTCTAATATATTGGTAAGATTTTCTGTCAAAGATT
* *
24569685 A-TCTTTCAATATATTGGTAGGATTTGAAATTTTATTTG
66 ATTC-TCCAATATATTGCTAGGATTTGAAATTTTATTTG
* * * * *
24569723 TTTGTGAAAACAATTTATTTTCATAAATATTTTTCAATATATTGGTAAGA-TTT-T-TCATTAAG
1 TTTGTAAAAACAATTTATTTTAAAAAATATCTCT-AATATATTGGTAAGATTTTCTGTCA--AAG
*
24569785 AATTATTCTCCAATATATTGCTAGTATTT
63 -ATTATTCTCCAATATATTGCTAGGATTT
24569814 TAAAAATATA
Statistics
Matches: 76, Mismatches: 10, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
101 3 0.04
102 1 0.01
103 34 0.45
104 36 0.47
105 2 0.03
ACGTcount: A:0.35, C:0.07, G:0.11, T:0.47
Consensus pattern (103 bp):
TTTGTAAAAACAATTTATTTTAAAAAATATCTCTAATATATTGGTAAGATTTTCTGTCAAAGATT
ATTCTCCAATATATTGCTAGGATTTGAAATTTTATTTG
Found at i:24570012 original size:16 final size:17
Alignment explanation
Indices: 24569991--24570031 Score: 66
Period size: 16 Copynumber: 2.5 Consensus size: 17
24569981 TTATCATACA
24569991 AATAATATCATGC-AAT
1 AATAATATCATGCAAAT
*
24570007 AATAATATTATGCAAAT
1 AATAATATCATGCAAAT
24570024 AATAATAT
1 AATAATAT
24570032 AATATATCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 12 0.52
17 11 0.48
ACGTcount: A:0.54, C:0.07, G:0.05, T:0.34
Consensus pattern (17 bp):
AATAATATCATGCAAAT
Found at i:24570314 original size:21 final size:21
Alignment explanation
Indices: 24570304--24570345 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
24570294 ATAAAATAAT
24570304 ATATAAAAAACAAAACAAAAA
1 ATATAAAAAACAAAACAAAAA
*
24570325 ATATAAAAAA-TAAACAAAAA
1 ATATAAAAAACAAAACAAAAA
24570345 A
1 A
24570346 AGGACAAACC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.81, C:0.07, G:0.00, T:0.12
Consensus pattern (21 bp):
ATATAAAAAACAAAACAAAAA
Found at i:24570339 original size:20 final size:20
Alignment explanation
Indices: 24570283--24570345 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
24570273 AATAAATATT
* *
24570283 AAAATAT-AAACATAAA-AT
1 AAAATATAAAAAATAAACAA
* *
24570301 AATATATAAAAAACAAAACAA
1 AAAATATAAAAAA-TAAACAA
24570322 AAAATATAAAAAATAAACAA
1 AAAATATAAAAAATAAACAA
24570342 AAAA
1 AAAA
24570346 AGGACAAACC
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
18 6 0.17
19 4 0.11
20 13 0.36
21 13 0.36
ACGTcount: A:0.78, C:0.06, G:0.00, T:0.16
Consensus pattern (20 bp):
AAAATATAAAAAATAAACAA
Found at i:24570339 original size:25 final size:25
Alignment explanation
Indices: 24570268--24570343 Score: 70
Period size: 24 Copynumber: 3.2 Consensus size: 25
24570258 ACAACCATTT
* *
24570268 AAAACAATAAATATTAAAATATAAAC
1 AAAACAAAAAATA-TAAAAAATAAAC
* * *
24570294 -ATA-AAATAATAT-ATAAA-AAAC
1 AAAACAAAAAATATAAAAAATAAAC
24570315 AAAACAAAAAATATAAAAAATAAAC
1 AAAACAAAAAATATAAAAAATAAAC
24570340 AAAA
1 AAAA
24570344 AAAGGACAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 9
0.69 0.15 0.16
Matches are distributed among these distances:
21 4 0.11
22 5 0.13
23 9 0.24
24 10 0.26
25 10 0.26
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.18
Consensus pattern (25 bp):
AAAACAAAAAATATAAAAAATAAAC
Found at i:24573880 original size:24 final size:23
Alignment explanation
Indices: 24573838--24573897 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 23
24573828 TCTATTGTTG
*
24573838 AAAATATATAAATATATTTAATCTT
1 AAAATAAAT-AATATATTTAAT-TT
24573863 AAAATAAATAATATATTTAATTT
1 AAAATAAATAATATATTTAATTT
*
24573886 AAATTTAAATAA
1 AAA-ATAAATAA
24573898 AATAATTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
23 5 0.16
24 19 0.59
25 8 0.25
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (23 bp):
AAAATAAATAATATATTTAATTT
Found at i:24587992 original size:7 final size:7
Alignment explanation
Indices: 24587980--24588017 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
24587970 TCACTTCATC
24587980 AATTATA
1 AATTATA
24587987 AATTATA
1 AATTATA
24587994 AATTATA
1 AATTATA
24588001 AATTATA
1 AATTATA
24588008 AATTATA
1 AATTATA
24588015 AAT
1 AAT
24588018 CATGGCCAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
AATTATA
Found at i:24588089 original size:16 final size:16
Alignment explanation
Indices: 24588064--24588097 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
24588054 AATCTTTAAA
*
24588064 ATCATTATAAATCATC
1 ATCATCATAAATCATC
24588080 ATCATCATAAATCATC
1 ATCATCATAAATCATC
24588096 AT
1 AT
24588098 TATTATTCGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.44, C:0.21, G:0.00, T:0.35
Consensus pattern (16 bp):
ATCATCATAAATCATC
Found at i:24591349 original size:31 final size:32
Alignment explanation
Indices: 24591314--24591380 Score: 77
Period size: 31 Copynumber: 2.1 Consensus size: 32
24591304 CTACTTATCG
*
24591314 TAATTTA-ACTTCTTAG-AATCTTCAAAGATTA
1 TAATTTATACTTCTTAGAAATCTTCAAA-ATCA
*
24591345 TAA-TTATAGTTCTTAGAAAATCTTCAAAATCA
1 TAATTTATACTTCTTAG-AAATCTTCAAAATCA
24591377 TAAT
1 TAAT
24591381 ATGAGCTCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
30 3 0.10
31 11 0.37
32 6 0.20
33 10 0.33
ACGTcount: A:0.42, C:0.12, G:0.06, T:0.40
Consensus pattern (32 bp):
TAATTTATACTTCTTAGAAATCTTCAAAATCA
Found at i:24594438 original size:24 final size:23
Alignment explanation
Indices: 24594407--24594461 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 23
24594397 AGTTTAATTT
24594407 TAATTTAA-ATAAAATAATAAATA
1 TAATTTAACAT-AAATAATAAATA
*
24594430 TAATCTTAACATAAATAATAAAAA
1 TAAT-TTAACATAAATAATAAATA
*
24594454 AAATTTAA
1 TAATTTAA
24594462 TCCTAAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 8 0.29
24 18 0.64
25 2 0.07
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.33
Consensus pattern (23 bp):
TAATTTAACATAAATAATAAATA
Found at i:24594916 original size:34 final size:34
Alignment explanation
Indices: 24594845--24594909 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 34
24594835 CCCTAAAGTT
* * * *
24594845 TTAAGACTTATTAGAAATGGATTTTTGAAAAGAC
1 TTAAGACTTATCAAAAATAGATTTTCGAAAAGAC
*
24594879 TTAAGGCTTATCAAAAATAGATTTTCGAAAA
1 TTAAGACTTATCAAAAATAGATTTTCGAAAA
24594910 ACCTTAAAGT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 26 1.00
ACGTcount: A:0.43, C:0.08, G:0.15, T:0.34
Consensus pattern (34 bp):
TTAAGACTTATCAAAAATAGATTTTCGAAAAGAC
Found at i:24595021 original size:34 final size:34
Alignment explanation
Indices: 24594972--24595046 Score: 96
Period size: 34 Copynumber: 2.2 Consensus size: 34
24594962 ATGAATATCC
* * *
24594972 AAGAATCCTTTAAGCTTCTTGAAAATCCATTTCT
1 AAGAAACCTTAAAGCTTCTGGAAAATCCATTTCT
* * *
24595006 AAGAAACCTTAAAGCTTCTGGGATATCCATTTTT
1 AAGAAACCTTAAAGCTTCTGGAAAATCCATTTCT
24595040 AAGAAAC
1 AAGAAAC
24595047 TCAATTTCAC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (34 bp):
AAGAAACCTTAAAGCTTCTGGAAAATCCATTTCT
Found at i:24596766 original size:21 final size:23
Alignment explanation
Indices: 24596735--24596783 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
24596725 TAAGATTTTG
* *
24596735 TTTTATTTTTTTAAATTATG-TA
1 TTTTAATTTTTAAAATTATGATA
24596757 TTTTAATTTTTAAAATTATGATA
1 TTTTAATTTTTAAAATTATGATA
24596780 TTTT
1 TTTT
24596784 TATCTAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (23 bp):
TTTTAATTTTTAAAATTATGATA
Found at i:24596799 original size:17 final size:17
Alignment explanation
Indices: 24596779--24596817 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
24596769 AAATTATGAT
*
24596779 ATTTTTATCTAATAAAA
1 ATTTTTATATAATAAAA
* *
24596796 ATTTATGTATAATAAAA
1 ATTTTTATATAATAAAA
24596813 ATTTT
1 ATTTT
24596818 CAAATAAAAG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (17 bp):
ATTTTTATATAATAAAA
Found at i:24600338 original size:3 final size:3
Alignment explanation
Indices: 24600330--24600380 Score: 93
Period size: 3 Copynumber: 17.0 Consensus size: 3
24600320 CATGCTGTAA
*
24600330 ATT ATT ATT ATT ATT GTT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
24600378 ATT
1 ATT
24600381 GTGAAACTAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:24600426 original size:3 final size:3
Alignment explanation
Indices: 24600414--24600504 Score: 130
Period size: 3 Copynumber: 30.7 Consensus size: 3
24600404 GATAAATTGC
*
24600414 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ACA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
24600461 ATA ATA ATA ATA ATA ATA ATA ACA ACA ACA ACA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
24600505 GGAATCTCCG
Statistics
Matches: 83, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
2 2 0.02
3 81 0.98
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:24600824 original size:23 final size:24
Alignment explanation
Indices: 24600780--24600824 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
24600770 AGAAAAATTA
* *
24600780 ATTAATTAAAAATATAATTTAATG
1 ATTAATTAAAAATAGAAATTAATG
*
24600804 ATTAA-TAATAATAGAAATTAA
1 ATTAATTAAAAATAGAAATTAA
24600825 AAATTAAGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 13 0.72
24 5 0.28
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (24 bp):
ATTAATTAAAAATAGAAATTAATG
Found at i:24602297 original size:3 final size:3
Alignment explanation
Indices: 24602281--24602338 Score: 80
Period size: 3 Copynumber: 19.3 Consensus size: 3
24602271 TTTATTTTTC
* * * *
24602281 TAA TAA TAG CAA TAA TAA TAA TAA TAA TAA TAA TTA TAA TAA TAA CAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
24602329 TAA TAA TAA T
1 TAA TAA TAA T
24602339 CAAAGGAAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:24610197 original size:46 final size:46
Alignment explanation
Indices: 24610147--24610235 Score: 142
Period size: 46 Copynumber: 1.9 Consensus size: 46
24610137 AGAAAACAAT
* ** *
24610147 AATAAAATGAAAATTTTTGTATTGAAAAGAAATTTCTAAATATACC
1 AATAAAATAAAAATTTTCATATTGAAAAGAAACTTCTAAATATACC
24610193 AATAAAATAAAAATTTTCATATTGAAAAGAAACTTCTAAATAT
1 AATAAAATAAAAATTTTCATATTGAAAAGAAACTTCTAAATAT
24610236 TCCAGTACTT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.34
Consensus pattern (46 bp):
AATAAAATAAAAATTTTCATATTGAAAAGAAACTTCTAAATATACC
Found at i:24611798 original size:16 final size:16
Alignment explanation
Indices: 24611777--24611808 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
24611767 CCTTCCAAGG
24611777 CAAGGAAAAGGACGAA
1 CAAGGAAAAGGACGAA
24611793 CAAGGAAAAGGACGAA
1 CAAGGAAAAGGACGAA
24611809 AGGTGCGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.12, G:0.31, T:0.00
Consensus pattern (16 bp):
CAAGGAAAAGGACGAA
Found at i:24615314 original size:1 final size:1
Alignment explanation
Indices: 24615310--24615339 Score: 51
Period size: 1 Copynumber: 30.0 Consensus size: 1
24615300 TTTATTCATC
*
24615310 TTTTTTTTTTCTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
24615340 ATCTTTTACC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.03, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:24615322 original size:11 final size:11
Alignment explanation
Indices: 24615308--24615346 Score: 62
Period size: 11 Copynumber: 3.5 Consensus size: 11
24615298 TTTTTATTCA
24615308 TCTTTTTTTTT
1 TCTTTTTTTTT
24615319 TCTTTTTTTTT
1 TCTTTTTTTTT
24615330 T-TTTTTTTTT
1 TCTTTTTTTTT
24615340 ATCTTTT
1 -TCTTTT
24615347 ACCTTTCTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.35
11 13 0.50
12 4 0.15
ACGTcount: A:0.03, C:0.08, G:0.00, T:0.90
Consensus pattern (11 bp):
TCTTTTTTTTT
Found at i:24625433 original size:16 final size:17
Alignment explanation
Indices: 24625407--24625460 Score: 65
Period size: 16 Copynumber: 3.2 Consensus size: 17
24625397 TTTAAGAACT
*
24625407 AAAGCTTACTAAATATAG
1 AAAG-TTACTAAAAATAG
*
24625425 AAA-TTACTAAAAATGG
1 AAAGTTACTAAAAATAG
*
24625441 AAAGTTGCTAAAAATAG
1 AAAGTTACTAAAAATAG
24625458 AAA
1 AAA
24625461 ATTAAACAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
16 14 0.45
17 14 0.45
18 3 0.10
ACGTcount: A:0.56, C:0.07, G:0.13, T:0.24
Consensus pattern (17 bp):
AAAGTTACTAAAAATAG
Found at i:24630698 original size:40 final size:40
Alignment explanation
Indices: 24630656--24630740 Score: 104
Period size: 40 Copynumber: 2.2 Consensus size: 40
24630646 ATTAACACTT
* *
24630656 TTTTTTTGT--TTAGAATTATAATTTAT-TTATAACAATAA
1 TTTTTTTGTCGTTAAAACTATAATTTATGTTATAACAAT-A
* *
24630694 TTTTTTTGTCGTTAAAACTATTATTTATGTTATAATAATA
1 TTTTTTTGTCGTTAAAACTATAATTTATGTTATAACAATA
24630734 TTTTTTT
1 TTTTTTT
24630741 ATACATGTTC
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
38 9 0.22
40 22 0.55
41 9 0.22
ACGTcount: A:0.32, C:0.04, G:0.06, T:0.59
Consensus pattern (40 bp):
TTTTTTTGTCGTTAAAACTATAATTTATGTTATAACAATA
Found at i:24630836 original size:218 final size:211
Alignment explanation
Indices: 24630175--24630843 Score: 622
Period size: 217 Copynumber: 3.1 Consensus size: 211
24630165 TATTTTACAC
* * *
24630175 CAAATTATACCAATTTTACAATTATTCTCAC-ATTTTTACTTTAACACTTAATTTTTTATTTAGA
1 CAAATAATATCAATTTTAC-ATTATTCTCACTATTTTTA-TTTAACACTT-ATTTTTTGTTTAGA
* * *
24630239 ATTATTTGTATTCATAA-AACTAATTTGTTTAT-GTCACAAA-T-TTA-TTACGTT-TCAATAAT
63 ATTATTT-TATTCATAACAA-TAATTT-TTTTTCGTTA-AAACTATTATTTATGTTAT-AATAAT
* * * *
24630298 ATTTTTTTACATTTGTTGTTACTTTTCATTACATTTAAAATTATTACAATTTTTTTGTTAAGGTG
123 ATTTTTTTATACTTGTTGTTACTTTTCATTACATTTAAAATTATCACAA-TTTTTT-CTAAGGTG
* *
24630363 TAACGATACTTTTAAAT-ATTTTATGT
186 TTACGATACTTTT-AATCATTTTAAGT
* * *
24630389 AAAATAATATCAATTTTACGATTATTCTCACT-GTTTTATGTTAACCCTTATTTTTTGTTTA-AA
1 CAAATAATATCAATTTTAC-ATTATTCTCACTATTTTTAT-TTAACACTTATTTTTTGTTTAGAA
* * * ** *
24630452 TTATTTTTATTCGTAACAATAATTTTTTTACATTGCCAACTTAATTATTCATGTTATAATAATAT
64 TTA-TTTTATTCATAACAATAATTTTTTTTCGTT-AAAAC-T-ATTATTTATGTTATAATAATAT
* * * * ** *
24630517 TTTTTTATGCTTATTGTTACCTTTCATTAGATTTAGGATTATCATAATTTTTTCTTAAAGGTGTT
125 TTTTTTATACTTGTTGTTACTTTTCATTACATTTAAAATTATCACAATTTTTTC-T-AAGGTGTT
* *
24630582 ACAATACTTTTAATCATTTTACA-C
188 ACGATACTTTTAATCATTTTA-AGT
* * * * *
24630606 CGATTGATATCAATTTTATCATTTTTCTCACTATTTTTATATTAACACTTTTTTTTTGTTTAGAA
1 CAAATAATATCAATTTTA-CATTATTCTCACTATTTTTAT-TTAACACTTATTTTTTGTTTAGAA
*
24630671 TTATAATTTATTTATAACAATAATTTTTTTGTCGTTAAAACTATTATTTATGTTATAATAATATT
64 TTAT--TTTATTCATAACAATAATTTTTTT-TCGTTAAAACTATTATTTATGTTATAATAATATT
* ** * *
24630736 TTTTTATACATGTTCCTACTTTTTATTACATTTAAAATTATCACAATTTTTTACTAAGGTATTAC
126 TTTTTATACTTGTTGTTACTTTTCATTACATTTAAAATTATCACAATTTTTT-CTAAGGTGTTAC
* * *
24630801 GACACTTCTAATCCAATTTAAGT
190 GATACTTTTAAT-CATTTTAAGT
24630824 CAAATAATATCAATTTTACA
1 CAAATAATATCAATTTTACA
24630844 AACATTCTTA
Statistics
Matches: 363, Mismatches: 67, Indels: 47
0.76 0.14 0.10
Matches are distributed among these distances:
211 3 0.01
212 22 0.06
213 17 0.05
214 41 0.11
216 13 0.04
217 119 0.33
218 113 0.31
219 7 0.02
220 25 0.07
221 3 0.01
ACGTcount: A:0.32, C:0.12, G:0.06, T:0.51
Consensus pattern (211 bp):
CAAATAATATCAATTTTACATTATTCTCACTATTTTTATTTAACACTTATTTTTTGTTTAGAATT
ATTTTATTCATAACAATAATTTTTTTTCGTTAAAACTATTATTTATGTTATAATAATATTTTTTT
ATACTTGTTGTTACTTTTCATTACATTTAAAATTATCACAATTTTTTCTAAGGTGTTACGATACT
TTTAATCATTTTAAGT
Found at i:24631684 original size:221 final size:220
Alignment explanation
Indices: 24631182--24631691 Score: 502
Period size: 221 Copynumber: 2.3 Consensus size: 220
24631172 TAAGACCATT
* * * *
24631182 TTTTACATTACCAA--T--TTA-TTATGTTTCAATTATATCTTTTTACATTTGTTGTTATTTTTT
1 TTTTACATTACCAACTTAATTATTTATGTTACAATAATATTTTTTTACATTTGTTGTTACTTTTT
* * ** *
24631242 ATTACGTTCAGAATTATTACAATTTTTCCCTAAAGTATAATGATACTTCTAACTATTTTACATTA
66 ATTACGTTTAGAAGTATTACAATTTTTCCCTAAAGTATAACAATACTTCTAACTATTTTACATCA
* ** *
24631307 AATAATAATAATTTAACAATTATTCTCACCATTTTACGTTAACTCTTAATTGTTTATTTAAAATT
131 AATAATAATAATTTAACAATTACTCTCACCATTTTACACTAACACTTAATTGTTTATTTAAAATT
** * * *
24631372 AGTTTTTTATTTGTAATAATAGTTA
196 AGTTAATTATTTATAAAAATAATTA
* ** ** *
24631397 TTTTATATTACCAACTTAATTATTTATGTTGTAATAATA-TTTTTTACGCTTGTTGTTACCTTTT
1 TTTTACATTACCAACTTAATTATTTATGTTACAATAATATTTTTTTACATTTGTTGTTACTTTTT
* * * * * **
24631461 ATTATGTTTAGAAGTATTACAATTTTGTTCTTAAAGGTATTACAATACTTCTTA-TCATTTTATG
66 ATTACGTTTAGAAGTATTACAATTTT-TCCCTAAA-GTATAACAATACTTCTAACT-ATTTTACA
* * * * * * * * *
24631525 TCAAATAATACTAATTTTATAATTACTCTCACCTTTTTTATACTAACACTT-TTTTTTTGTTTAG
128 TCAAATAATAATAATTTAACAATTACTCTCACC-ATTTTACACTAACACTTAATTGTTTATTTAA
*
24631589 AATTA-TTAATTATTTATAAAAATAATTC
192 AATTAGTTAATTATTTATAAAAATAATTA
* *
24631617 TTTTACGTTACCAAAAC-T-ATTATTTATGTTACAATAATATTTTTTTACATTTGTTTTTACTTT
1 TTTTACATTACC--AACTTAATTATTTATGTTACAATAATATTTTTTTACATTTGTTGTTACTTT
24631680 TTATTACGTTTA
64 TTATTACGTTTA
24631692 AATTTATCAC
Statistics
Matches: 234, Mismatches: 49, Indels: 18
0.78 0.16 0.06
Matches are distributed among these distances:
215 13 0.06
217 1 0.00
219 46 0.20
220 66 0.28
221 93 0.40
222 15 0.06
ACGTcount: A:0.31, C:0.11, G:0.06, T:0.52
Consensus pattern (220 bp):
TTTTACATTACCAACTTAATTATTTATGTTACAATAATATTTTTTTACATTTGTTGTTACTTTTT
ATTACGTTTAGAAGTATTACAATTTTTCCCTAAAGTATAACAATACTTCTAACTATTTTACATCA
AATAATAATAATTTAACAATTACTCTCACCATTTTACACTAACACTTAATTGTTTATTTAAAATT
AGTTAATTATTTATAAAAATAATTA
Found at i:24631853 original size:17 final size:17
Alignment explanation
Indices: 24631826--24631863 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
24631816 ATGATTTCAA
*
24631826 TTTTACAATTATTCACTT
1 TTTTACAATTA-ACACTT
24631844 TTTTAC-ATTAACACTT
1 TTTTACAATTAACACTT
24631860 TTTT
1 TTTT
24631864 TGTTTAGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 9 0.47
17 4 0.21
18 6 0.32
ACGTcount: A:0.26, C:0.16, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTTACAATTAACACTT
Found at i:24632396 original size:218 final size:219
Alignment explanation
Indices: 24631784--24632680 Score: 763
Period size: 218 Copynumber: 4.1 Consensus size: 219
24631774 TACCTTTTTA
* * * * * * *
24631784 TGTTATGATATTTCTAACACATTTTAAGCTAAATGATTTCAATTTTACAATTATTC--ACTTTTT
1 TGTTACGACATTTCTAACACATTTTATGCCAAATAATATCAATTTTACAATTATTCTTATTTTTT
* * *
24631847 TACATTAACA-CT-TTTTTTGTTTAGAATTA-TTTTTATTCATAATAATAAATTTTTTTACGTTA
66 TACATTAACACCTATTTTTTGTTTAAAATTATTTTTTATTTATAATAAT-AATTTTTTTACATTA
* * *
24631909 TCAACTTAATTA-TTATGTTATAATAATATC-TTTTATACTTATTCTTATCTTTT-AATATGTTT
130 TCAACTTAATTATTTACGTTATAATAATATCTTTTTATACTTATTCTTA-CTTTTCATTATATTT
* * *
24631971 AAAATTATTATAACTTTTTCTT-AAG
194 AGAATTATCATAACTTTTTATTAAAG
* * * * *
24631996 ATATTATGACATTTCTAACACGTTTTATGCCAAA-ATATATCAATTTCACAATTATTCTTATCTT
1 -TGTTACGACATTTCTAACACATTTTATGCCAAATA-ATATCAATTTTACAATTATTCTTATTTT
** * *
24632060 TTTATGTTAACACCTATTTTTTGGTGTAAAATTATTTTTTATTTATAATACTAATTTTTTT-CAT
64 TTTACATTAACACCTATTTTTT-GTTTAAAATTATTTTTTATTTATAATAATAATTTTTTTACAT
* * * * * * * * * **
24632124 TACCAATTTAATTATTTACATTTTAGTAATATGTTTTTACACTTGTTGTTACTTTTCATTAGGTT
128 TATCAACTTAATTATTTACGTTATAATAATATCTTTTTATACTTATTCTTACTTTTCATTATATT
24632189 TAGAATTATCATAA-TATTTTATTAAAG
193 TAGAATTATCATAACT-TTTTATTAAAG
* * * * ** *
24632216 TGTAACGATACTTGTAAC-CATTTTATGTTAAATAATATTAATTTTACAATTATTCTT-TTTTTT
1 TGTTACGACATTTCTAACACATTTTATGCCAAATAATATCAATTTTACAATTATTCTTATTTTTT
*** *
24632279 TACATTAACTTTTATATTTTTGTTTAAAATTATTTTTTATTTGTAATAAT-ATTTCTTTTACATT
66 TACATTAACACCTAT-TTTTTGTTTAAAATTATTTTTTATTTATAATAATAATTT-TTTTACATT
** * * * * *
24632343 ATCAACTTAATTATTTTTGTTACAATAATATCTTTTTATGCCTATTGTTACTTTTCATTACATTT
129 ATCAACTTAATTATTTACGTTATAATAATATCTTTTTATACTTATTCTTACTTTTCATTATATTT
* * * * *
24632408 ATAACTATCACAACTCTTTGTTAAAG
194 AGAATTATCATAACTTTTTATTAAAG
* ** *** * * * * *
24632434 TGTTACGACATTTTTAACTGATTTTACATCAAATAACACCAATTTTATAACTATT-TTCATATTT
1 TGTTACGACATTTCTAACACATTTTATGCCAAATAATATCAATTTTACAATTATTCTT-ATTTTT
** * * * *
24632498 TTATGTTAACACTTATTTATTGGTTTAAAATTATTCTTTAGGTTTA-AGATAATAATTCTTTTAC
65 TTACATTAACACCTATTT-TTTGTTTAAAATTATTTTTTA--TTTATA-ATAATAATTTTTTTAC
* * * *
24632562 GTTATCAACTTAATTATTTACGTTATAATAATATCTTTTTATGCTTCTTCTTAC-CTTCATTATA
126 ATTATCAACTTAATTATTTACGTTATAATAATATCTTTTTATACTTATTCTTACTTTTCATTATA
* *
24632626 TTTAGAATTATCACAACTTTTTCTT-AAG
191 TTTAGAATTATCATAACTTTTTATTAAAG
* * *
24632654 AT-TTACAACATTTCCAACATATTTTAT
1 -TGTTACGACATTTCTAACACATTTTAT
24632681 ATCAAATGAT
Statistics
Matches: 545, Mismatches: 113, Indels: 45
0.78 0.16 0.06
Matches are distributed among these distances:
213 47 0.09
215 13 0.02
216 6 0.01
217 65 0.12
218 163 0.30
219 96 0.18
220 60 0.11
221 31 0.06
222 61 0.11
223 3 0.01
ACGTcount: A:0.32, C:0.11, G:0.06, T:0.51
Consensus pattern (219 bp):
TGTTACGACATTTCTAACACATTTTATGCCAAATAATATCAATTTTACAATTATTCTTATTTTTT
TACATTAACACCTATTTTTTGTTTAAAATTATTTTTTATTTATAATAATAATTTTTTTACATTAT
CAACTTAATTATTTACGTTATAATAATATCTTTTTATACTTATTCTTACTTTTCATTATATTTAG
AATTATCATAACTTTTTATTAAAG
Found at i:24632602 original size:21 final size:21
Alignment explanation
Indices: 24632546--24632602 Score: 50
Period size: 21 Copynumber: 2.8 Consensus size: 21
24632536 TAGGTTTAAG
24632546 ATAATAAT-TC-TTTTACGTT
1 ATAATAATATCTTTTTACGTT
* *
24632565 ATCAACTTA-AT-TATTTACGTT
1 AT-AA-TAATATCTTTTTACGTT
24632586 ATAATAATATCTTTTTA
1 ATAATAATATCTTTTTA
24632603 TGCTTCTTCT
Statistics
Matches: 28, Mismatches: 4, Indels: 10
0.67 0.10 0.24
Matches are distributed among these distances:
19 4 0.14
20 6 0.21
21 18 0.64
ACGTcount: A:0.35, C:0.11, G:0.04, T:0.51
Consensus pattern (21 bp):
ATAATAATATCTTTTTACGTT
Found at i:24634250 original size:21 final size:21
Alignment explanation
Indices: 24634226--24634265 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
24634216 TCCTAAAGTG
24634226 AAAATTATT-TAAATTTTGTAT
1 AAAATT-TTATAAATTTTGTAT
24634247 AAAATTTTATAAATTTTGT
1 AAAATTTTATAAATTTTGT
24634266 TTTGCAATCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (21 bp):
AAAATTTTATAAATTTTGTAT
Found at i:24634465 original size:2 final size:2
Alignment explanation
Indices: 24634458--24634490 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
24634448 TGGGTTAAGA
24634458 AT AT 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 A
24634491 CTTTTACTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:24640496 original size:39 final size:39
Alignment explanation
Indices: 24640412--24640488 Score: 145
Period size: 39 Copynumber: 2.0 Consensus size: 39
24640402 AGTCTCCTTT
*
24640412 GTCCCAGTGCCAGCCACTAATAAGTAGCAAAACACTGTA
1 GTCCCAGTGCCAGCCACTAATAAGTAGCAAAAAACTGTA
24640451 GTCCCAGTGCCAGCCACTAATAAGTAGCAAAAAACTGT
1 GTCCCAGTGCCAGCCACTAATAAGTAGCAAAAAACTGT
24640489 CTTCCCAGGA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.36, C:0.27, G:0.18, T:0.18
Consensus pattern (39 bp):
GTCCCAGTGCCAGCCACTAATAAGTAGCAAAAAACTGTA
Found at i:24642014 original size:2 final size:2
Alignment explanation
Indices: 24642007--24642051 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
24641997 ATAAGCATGT
24642007 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
24642049 TC T
1 TC T
24642052 ATATATATAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:24648435 original size:3 final size:3
Alignment explanation
Indices: 24648427--24648468 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
24648417 GTCATTTTTA
24648427 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
24648469 TAGAATTAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:24649840 original size:2 final size:2
Alignment explanation
Indices: 24649833--24649867 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
24649823 GTTGGAATGA
24649833 AT AT AT 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 A
24649868 AAACACAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:24650450 original size:21 final size:21
Alignment explanation
Indices: 24650418--24650458 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
24650408 TTTATTTTAT
24650418 TTATTTTCTTTAATTT-TTAAA
1 TTATTTTCTTT-ATTTATTAAA
24650439 TTATTTAT-TTTATTTATTAA
1 TTATTT-TCTTTATTTATTAA
24650459 TGCATATTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 4 0.22
21 13 0.72
22 1 0.06
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.68
Consensus pattern (21 bp):
TTATTTTCTTTATTTATTAAA
Found at i:24650576 original size:15 final size:14
Alignment explanation
Indices: 24650551--24650610 Score: 59
Period size: 15 Copynumber: 4.1 Consensus size: 14
24650541 AAAAGTATGT
24650551 AAAT-AAAATAAAA
1 AAATAAAAATAAAA
24650564 AAATAAAATATAAAA
1 AAATAAAA-ATAAAA
*
24650579 AATGATAAAAATAATA
1 AA--ATAAAAATAAAA
*
24650595 ATATAAAAAATAAAA
1 AAAT-AAAAATAAAA
24650610 A
1 A
24650611 TCTCTGAGAA
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
13 4 0.10
14 5 0.13
15 18 0.46
16 6 0.15
17 6 0.15
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (14 bp):
AAATAAAAATAAAA
Found at i:24650595 original size:26 final size:23
Alignment explanation
Indices: 24650558--24650605 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
24650548 TGTAAATAAA
24650558 ATAAAAAAATAAAATATAAAAAATG
1 ATAAAAAAAT--AATATAAAAAATG
24650583 ATAAAAATAATAATATAAAAAAT
1 ATAAAAA-AATAATATAAAAAAT
24650606 AAAAATCTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 12 0.55
25 7 0.32
26 3 0.14
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (23 bp):
ATAAAAAAATAATATAAAAAATG
Found at i:24650879 original size:3 final size:3
Alignment explanation
Indices: 24650871--24650979 Score: 139
Period size: 3 Copynumber: 35.7 Consensus size: 3
24650861 CTTGTTTGAA
24650871 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
* * * * *
24650919 AAT AAC AAC AAC AAT AAC AAT AAT AAT AGAT ATAT ATAT AAT -TT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT A-AT A-AT AAT AAT AAT
24650966 AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AA
24650980 ACCAATTAGA
Statistics
Matches: 97, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
2 1 0.01
3 86 0.89
4 10 0.10
ACGTcount: A:0.64, C:0.04, G:0.01, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:24652783 original size:21 final size:21
Alignment explanation
Indices: 24652757--24652796 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
24652747 AATAGATAAT
24652757 AAAAGAAAAAGATTTTCTTGG
1 AAAAGAAAAAGATTTTCTTGG
24652778 AAAAGAAAAAGATTTTCTT
1 AAAAGAAAAAGATTTTCTT
24652797 TTGACATGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.50, C:0.05, G:0.15, T:0.30
Consensus pattern (21 bp):
AAAAGAAAAAGATTTTCTTGG
Found at i:24658110 original size:12 final size:12
Alignment explanation
Indices: 24658093--24658121 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
24658083 GTTAAAACAT
24658093 AAAAATAAAAAC
1 AAAAATAAAAAC
24658105 AAAAATAAAAAC
1 AAAAATAAAAAC
24658117 AAAAA
1 AAAAA
24658122 GAAGCCATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.86, C:0.07, G:0.00, T:0.07
Consensus pattern (12 bp):
AAAAATAAAAAC
Found at i:24658112 original size:18 final size:19
Alignment explanation
Indices: 24658086--24658121 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
24658076 ATTTATGGTT
*
24658086 AAAACATAAAAATAAAAAC
1 AAAACATAAAAACAAAAAC
24658105 AAAA-ATAAAAACAAAAA
1 AAAACATAAAAACAAAAA
24658122 GAAGCCATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.83, C:0.08, G:0.00, T:0.08
Consensus pattern (19 bp):
AAAACATAAAAACAAAAAC
Found at i:24658497 original size:14 final size:14
Alignment explanation
Indices: 24658473--24658517 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
24658463 CAGATGTTTC
24658473 AAAAG-AGAAAAAA
1 AAAAGAAGAAAAAA
24658486 AAAAGAAGAAAAAA
1 AAAAGAAGAAAAAA
24658500 AAAGAGTAAAGAAAAAA
1 AAA-AG--AAGAAAAAA
24658517 A
1 A
24658518 GACATGCACC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
13 5 0.18
14 11 0.39
15 2 0.07
17 10 0.36
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (14 bp):
AAAAGAAGAAAAAA
Found at i:24658518 original size:15 final size:13
Alignment explanation
Indices: 24658473--24658519 Score: 60
Period size: 13 Copynumber: 3.5 Consensus size: 13
24658463 CAGATGTTTC
24658473 AAAAGAGAAAAAA
1 AAAAGAGAAAAAA
24658486 AAAAGA-AGAAAAA
1 AAAAGAGA-AAAAA
24658499 AAAAGAGTAAAGAAA
1 AAAAGAG-AAA-AAA
24658514 AAAAGA
1 AAAAGA
24658520 CATGCACCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
12 1 0.03
13 17 0.57
14 2 0.07
15 10 0.33
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (13 bp):
AAAAGAGAAAAAA
Found at i:24658726 original size:128 final size:129
Alignment explanation
Indices: 24658494--24658726 Score: 287
Period size: 128 Copynumber: 1.8 Consensus size: 129
24658484 AAAAAAGAAG
*
24658494 AAAAAAAAAGAGTAAAGAAAAAAAGACATGCACCTTAAATATAAGAGTCTGGAGCAAAAAGTGCA
1 AAAAAAAAAGAGTAAAGAAAAAAAGACATGCACCTTAAATATAAGAGTCTGGAGCAAAAAGTGAA
* ***
24658559 TAAAGTTACAATTAGAATCCTAAGAATGCAAGAAAATAGATTGCTTGAAGTCAAATATTTCTAA
66 TAAAGTTACAATTAGAATCCCAAGAAAAAAAGAAAATAGATTGCTTGAAGTCAAATATTTCTAA
* * *
24658623 AAAAAAAAAGCGTAAAGAAAAAAAGACATGTACCTTAAAGGTA-AAGA-TCT-GAGGAAAAAGTG
1 AAAAAAAAAGAGTAAAGAAAAAAAGACATGCACCTTAAA--TATAAGAGTCTGGAGCAAAAAGTG
* * * *
24658685 AATAAA-TCTTCAGTTATAATCCCAA-ATAAAAAAGAAGATAGA
64 AATAAAGT-TACAATTAGAATCCCAAGA-AAAAAAGAAAATAGA
24658727 ATTCAAGAAA
Statistics
Matches: 88, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
127 2 0.02
128 40 0.45
129 40 0.45
130 4 0.05
131 2 0.02
ACGTcount: A:0.53, C:0.10, G:0.16, T:0.20
Consensus pattern (129 bp):
AAAAAAAAAGAGTAAAGAAAAAAAGACATGCACCTTAAATATAAGAGTCTGGAGCAAAAAGTGAA
TAAAGTTACAATTAGAATCCCAAGAAAAAAAGAAAATAGATTGCTTGAAGTCAAATATTTCTAA
Found at i:24660046 original size:89 final size:89
Alignment explanation
Indices: 24659895--24660057 Score: 202
Period size: 89 Copynumber: 1.8 Consensus size: 89
24659885 TGCATGTTGC
* * * * * *
24659895 AAAAATAAAAATATATATTTGTATTTGCATAACTTGCATTTGTATTGATATATGTATCATGAGAA
1 AAAAATAAAAAAAGATATTTGTATTTGCATAACTTGCATTCGCATTGACATATGCATCATGAGAA
* *
24659960 GAATATTTGATCTACGTACTATAA
66 AAACATTTGATCTACGTACTATAA
* * * *
24659984 AAAAATAAAAAAAGATATTTGTATTTGCATTACTTGTATTCGCACTT-ACATGTGCATTATGAGA
1 AAAAATAAAAAAAGATATTTGTATTTGCATAACTTGCATTCGCA-TTGACATATGCATCATGAGA
24660048 AAAACATTTG
65 AAAACATTTG
24660058 TATCCGCATC
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
89 59 0.97
90 2 0.03
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.37
Consensus pattern (89 bp):
AAAAATAAAAAAAGATATTTGTATTTGCATAACTTGCATTCGCATTGACATATGCATCATGAGAA
AAACATTTGATCTACGTACTATAA
Found at i:24660179 original size:26 final size:26
Alignment explanation
Indices: 24660144--24660203 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
24660134 TTACATCATC
* *
24660144 TACATCATAACCAAGGCATTTGCATT
1 TACATCATAACAAAGACATTTGCATT
* *
24660170 TACATTATAAGAAAGACATTTGCATT
1 TACATCATAACAAAGACATTTGCATT
*
24660196 TGCATCAT
1 TACATCAT
24660204 GGCATCTGCA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (26 bp):
TACATCATAACAAAGACATTTGCATT
Found at i:24660466 original size:22 final size:20
Alignment explanation
Indices: 24660437--24660498 Score: 72
Period size: 22 Copynumber: 3.0 Consensus size: 20
24660427 GTTGAAAAAA
24660437 TGAG-ATAATCTCTAAGATCT
1 TGAGCATAATCTCTAAGA-CT
24660457 CTGAGCATAATCTCTAAGACT
1 -TGAGCATAATCTCTAAGACT
*
24660478 TATAGGCATAATCTCTAAGAC
1 T-GA-GCATAATCTCTAAGAC
24660499 ATCTAAGCAA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
20 1 0.03
21 7 0.19
22 29 0.78
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (20 bp):
TGAGCATAATCTCTAAGACT
Found at i:24660736 original size:144 final size:148
Alignment explanation
Indices: 24660441--24660739 Score: 360
Period size: 144 Copynumber: 2.0 Consensus size: 148
24660431 AAAAAATGAG
* *
24660441 ATAATCTCTAAGATCTCTGAGCATAATCTCTAAGACTTATAGGCATAATCTCTAAGACATCTAAG
1 ATAATCTCTAAGAGCTCTGAGCATAATCTCTAAGACTTATAGGCATAATCTATAAGACATCTAAG
* *
24660506 CAAAATATTTTAAAATTTCAAAGTTTCAATGCCTTTGATACAAAAAACATTTAAAAATGTTGAGA
66 CAAAACATTTTAAAATTTCAAAGTTTCAATGCCTTTGATACAAAAAACATTCAAAAATGTTGAGA
* *
24660571 TTTGTAAGATTTTTGGGC
131 TTTGTAAGACTCTTGGGC
* * * * * *
24660589 ATAATCTCTAAGAGCTCT-AGGCATAATTTTTAAGACCTT-T-GGGA-AATCTATAAGACCTTTG
1 ATAATCTCTAAGAGCTCTGA-GCATAATCTCTAAGA-CTTATAGGCATAATCTATAAGACATCTA
* * * * * *
24660650 AGTAAAACATTTTAAACTTTTAAAGTTTCAATG-CTTTG-TACGAGAAACATTCAAAGATGTTGA
64 AGCAAAACATTTTAAAATTTCAAAGTTTCAATGCCTTTGATACAAAAAACATTCAAAAATGTTGA
24660713 GATTTGTAAGACCTCTT-GGC
129 GATTTGTAAGA-CTCTTGGGC
24660733 ATAATCT
1 ATAATCT
24660740 TTAAAACTTC
Statistics
Matches: 130, Mismatches: 18, Indels: 10
0.82 0.11 0.06
Matches are distributed among these distances:
144 42 0.32
145 8 0.06
146 42 0.32
147 4 0.03
148 31 0.24
149 3 0.02
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.35
Consensus pattern (148 bp):
ATAATCTCTAAGAGCTCTGAGCATAATCTCTAAGACTTATAGGCATAATCTATAAGACATCTAAG
CAAAACATTTTAAAATTTCAAAGTTTCAATGCCTTTGATACAAAAAACATTCAAAAATGTTGAGA
TTTGTAAGACTCTTGGGC
Found at i:24660757 original size:144 final size:146
Alignment explanation
Indices: 24660441--24660775 Score: 354
Period size: 144 Copynumber: 2.3 Consensus size: 146
24660431 AAAAAATGAG
* ** * * * * * * * *
24660441 ATAATCTCTAAGATCTCTGAGCATAATCTCTAAGACTTATAGGCATAATCTCTAAGACATCTAAG
1 ATAATCTCTAAGAACTCCAAGCATAATCTATAAGACCTCT-GGGA-AATCTATAAGACCTTTGAG
* * *
24660506 CAAAATATTTTAAAATTTCAAAGTTTCAATGCCTTTGATACAAAAAACATTTAAAAATGTTGAGA
64 TAAAACATTTTAAAATTTCAAAGTTTCAATGCCTTTGATACAAAAAACATTCAAAAATGTTGAGA
* *
24660571 TTTGTAAGATTTTTGGGC
129 TTTGTAAGACTCTTGGGC
* * * * * *
24660589 ATAATCTCTAAGAGCTCTAGGCATAATTTTTAAGACCTTTGGGAAATCTATAAGACCTTTGAGTA
1 ATAATCTCTAAGAACTCCAAGCATAATCTATAAGACCTCTGGGAAATCTATAAGACCTTTGAGTA
* * * * *
24660654 AAACATTTTAAACTTTTAAAGTTTCAATG-CTTTG-TACGAGAAACATTCAAAGATGTTGAGATT
66 AAACATTTTAAAATTTCAAAGTTTCAATGCCTTTGATACAAAAAACATTCAAAAATGTTGAGATT
24660717 TGTAAGACCTCTT-GGC
131 TGTAAGA-CTCTTGGGC
*
24660733 ATAATCTTTAA-AACTTCCAAGCATAATCTATAAGACCTCTGGG
1 ATAATCTCTAAGAAC-TCCAAGCATAATCTATAAGACCTCTGGG
24660776 CAAAACATTT
Statistics
Matches: 156, Mismatches: 29, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
143 2 0.01
144 68 0.44
145 8 0.05
146 42 0.27
147 3 0.02
148 33 0.21
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.34
Consensus pattern (146 bp):
ATAATCTCTAAGAACTCCAAGCATAATCTATAAGACCTCTGGGAAATCTATAAGACCTTTGAGTA
AAACATTTTAAAATTTCAAAGTTTCAATGCCTTTGATACAAAAAACATTCAAAAATGTTGAGATT
TGTAAGACTCTTGGGC
Found at i:24661020 original size:126 final size:124
Alignment explanation
Indices: 24660633--24661022 Score: 394
Period size: 126 Copynumber: 3.1 Consensus size: 124
24660623 ACCTTTGGGA
* * * * * * ** * *
24660633 AATCTATAAGACCTTTGAGTAAAACATTTTAAACTTTTAAAGTTTCAATGCT-TTGTACGAGAAA
1 AATCTTTAAGACCTCTGGGCAAAACATTTTAAATTTTTAAAGTTTCAATCCTCTAATACGAGGAG
* * * * *
24660697 CATTCAAAGATGTTGAGATTTGTAAGACCTCTTGGCATAATCTTTAAAACTTCCAAGCAT
66 CATTCAAAGATGTTGAGATTTGTAAGAACTTTTGGCATAATCTTTAAGACCTCCGA-CAT
* * * *
24660757 AATCTATAAGACCTCTGGGCAAAACATTTTAAATTTTTAAAGTTTCAATGCCTCTGATACAAAGA
1 AATCTTTAAGACCTCTGGGCAAAACATTTTAAATTTTTAAAGTTTCAAT-CCTCTAATACGAGGA
* * * * * *
24660822 GCATTCAAAGATGTTGAGATTTGTAAGAACTCTGGGCATAAT-TTCTATGACCTCTTGCCAC
65 GCATTCAAAGATGTTGAGATTTGTAAGAACTTTTGGCATAATCTT-TAAGACCTC-CGACAT
* *
24660883 AAT-TTTCAAGA-CTTTCGGGCAAAACATTTTAAATTTTTAAAGTTTCAATACCTCTAATATGAG
1 AATCTTT-AAGACCTCT-GGGCAAAACATTTTAAATTTTTAAAGTTTCAAT-CCTCTAATACGAG
* * *
24660946 GAGCATTCAAAGATGTTGAGATTTATAA-AACTTTTAAGTATAATCTTTAAGACCTCCGGACAT
63 GAGCATTCAAAGATGTTGAGATTTGTAAGAACTTTT-GGCATAATCTTTAAGACCTCC-GACAT
24661009 AATCTTTAAGACCT
1 AATCTTTAAGACCT
24661023 TCAACATAAT
Statistics
Matches: 219, Mismatches: 36, Indels: 19
0.80 0.13 0.07
Matches are distributed among these distances:
124 45 0.21
125 14 0.06
126 153 0.70
127 7 0.03
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.34
Consensus pattern (124 bp):
AATCTTTAAGACCTCTGGGCAAAACATTTTAAATTTTTAAAGTTTCAATCCTCTAATACGAGGAG
CATTCAAAGATGTTGAGATTTGTAAGAACTTTTGGCATAATCTTTAAGACCTCCGACAT
Found at i:24661031 original size:21 final size:22
Alignment explanation
Indices: 24660985--24661040 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
24660975 ACTTTTAAGT
*
24660985 ATAATCTTTAAGACCTCCGGAC
1 ATAATCTTTAAGACCTCCGAAC
*
24661007 ATAATCTTTAAGACCTTC-AAC
1 ATAATCTTTAAGACCTCCGAAC
*
24661028 ATAATCTGTAAGA
1 ATAATCTTTAAGA
24661041 TTAATGGGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
21 14 0.45
22 17 0.55
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.30
Consensus pattern (22 bp):
ATAATCTTTAAGACCTCCGAAC
Found at i:24661306 original size:148 final size:145
Alignment explanation
Indices: 24660901--24661308 Score: 402
Period size: 147 Copynumber: 2.8 Consensus size: 145
24660891 AGACTTTCGG
* * * *
24660901 GCAAAACATTTTAAATTTTTAAAGTTTCAATACCTCTAATATGAGGAGCATTCAAAGATGTTGAG
1 GCAAAACCTTTTAAATTTTAAAAGTTTCAATGCCTCTAATAT-AAGAGCATTCAAAGATGTTGAG
* * * *
24660966 ATTTATAAAACTTTTAAGTATAATCTTTAAGACCTCCGGACATAATCTTTAAGACCTTCAACATA
65 A-TTGTAAAACCTTTAAGTATAATCCTTAAGACCTCCGGGCATAATCTTTAAGACCTTCAACATA
* ** *
24661031 ATCTGTAAGATTAATGG
129 ATCTGTAAAACCAATGA
* * * * * *
24661048 GTAAAATCTTTCAAATTTTCAAAGTTTCAATGCCTCTGATATGATGAGCATTCAAAGATGTTGAG
1 GCAAAACCTTTTAAATTTTAAAAGTTTCAATGCCTCTAATAT-AAGAGCATTCAAAGATGTTGAG
** * * * ** * *
24661113 ATTAGTAAAACCTCCAAATATAATCCATAAGATCTCCAAGCATAATCTTTATGACCTTCGAGCAT
65 ATT-GTAAAACCTTTAAGTATAATCCTTAAGACCTCCGGGCATAATCTTTAAGACCTTC-AACAT
**
24661178 AATCTGTAAAACCCCTGA
128 AATCTGTAAAACCAATGA
* * * *
24661196 GCAAAACCTTTTGAAGTTTAAAAGTTTCAATGCCTTTAATATAAGAAGCATTCAAAGATATTGAG
1 GCAAAACCTTTTAAATTTTAAAAGTTTCAATGCCTCTAATATAAG-AGCATTCAAAGATGTTGAG
** * * * *
24661261 AGTTGTAAGGCCTTTAGGTATAATCCTTAAAACCTCTGGGTATAATCT
65 A-TTGTAAAACCTTTAAGTATAATCCTTAAGACCTCCGGGCATAATCT
24661309 CTAAATCTTT
Statistics
Matches: 207, Mismatches: 50, Indels: 7
0.78 0.19 0.03
Matches are distributed among these distances:
146 2 0.01
147 103 0.50
148 100 0.48
149 2 0.01
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (145 bp):
GCAAAACCTTTTAAATTTTAAAAGTTTCAATGCCTCTAATATAAGAGCATTCAAAGATGTTGAGA
TTGTAAAACCTTTAAGTATAATCCTTAAGACCTCCGGGCATAATCTTTAAGACCTTCAACATAAT
CTGTAAAACCAATGA
Found at i:24661543 original size:16 final size:15
Alignment explanation
Indices: 24661524--24661565 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
24661514 CTGAAAACAA
24661524 AACAAAAAAAAAAAGC
1 AACAAAAAAAAAAA-C
*
24661540 AACAAAAAACAAAAC
1 AACAAAAAAAAAAAC
24661555 AA-AAAAAAAAA
1 AACAAAAAAAAA
24661566 TTTTGAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 8 0.33
15 3 0.12
16 13 0.54
ACGTcount: A:0.86, C:0.12, G:0.02, T:0.00
Consensus pattern (15 bp):
AACAAAAAAAAAAAC
Found at i:24662993 original size:4 final size:4
Alignment explanation
Indices: 24662984--24663010 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
24662974 AACAAAAGTA
24662984 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
24663011 AATCAATCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:24663966 original size:14 final size:13
Alignment explanation
Indices: 24663931--24663973 Score: 52
Period size: 14 Copynumber: 3.3 Consensus size: 13
24663921 GTATGTAAAT
24663931 AAAATAAAA-ATA
1 AAAATAAAATATA
*
24663943 AAACTAAAATATA
1 AAAATAAAATATA
*
24663956 AAATATAAAATACA
1 AAA-ATAAAATATA
24663970 AAAA
1 AAAA
24663974 ATGATAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
12 8 0.31
13 7 0.27
14 11 0.42
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.19
Consensus pattern (13 bp):
AAAATAAAATATA
Found at i:24663980 original size:24 final size:23
Alignment explanation
Indices: 24663929--24663982 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
24663919 AAGTATGTAA
24663929 ATAAAATAAAAATAAAACTAAAAT
1 ATAAAATAAAAATAAAAC-AAAAT
*
24663953 ATAAAATATAAAATACAA-AAAAT
1 ATAAAATA-AAAATAAAACAAAAT
24663976 GATAAAA
1 -ATAAAA
24663983 AAATAAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 5 0.19
24 14 0.52
25 8 0.30
ACGTcount: A:0.74, C:0.04, G:0.02, T:0.20
Consensus pattern (23 bp):
ATAAAATAAAAATAAAACAAAAT
Found at i:24664265 original size:3 final size:3
Alignment explanation
Indices: 24664257--24664396 Score: 162
Period size: 3 Copynumber: 46.7 Consensus size: 3
24664247 TTCTTATTTG
24664257 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
* * * *
24664305 AAT GAA- AAT AAC AAT AAT AAT AAT AAT AAT AAT GAC AAT AAC AAT
1 AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
24664350 AAT AAT AAC AAT AA- ATAT ACAT -AT AA- ATTT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT A-AT A-AT AAT AAT A-AT AAT AAT AAT AAT AAT
24664395 AA
1 AA
24664397 ATCAATTAGA
Statistics
Matches: 117, Mismatches: 13, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
2 6 0.05
3 105 0.90
4 6 0.05
ACGTcount: A:0.65, C:0.04, G:0.01, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:24670879 original size:19 final size:19
Alignment explanation
Indices: 24670854--24670892 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
24670844 TTCCTTTTAC
24670854 ATTTTTTTAT--TGTTAACT
1 ATTTTTTTATAAT-TTAACT
24670872 ATTTTTTTATAATTTAACT
1 ATTTTTTTATAATTTAACT
24670891 AT
1 AT
24670893 CACTCAGCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 10 0.53
19 8 0.42
20 1 0.05
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.64
Consensus pattern (19 bp):
ATTTTTTTATAATTTAACT
Found at i:24680025 original size:28 final size:29
Alignment explanation
Indices: 24679993--24680047 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 29
24679983 TTCTAAAAAC
24679993 ATGCAAATAGAA-TATACAATT-TTCAATT
1 ATGCAAATA-AAGTATACAATTATTCAATT
*
24680021 ATGCAAATAAAGTATATAATTATTCAA
1 ATGCAAATAAAGTATACAATTATTCAA
24680048 ACAGAGCCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 2 0.08
28 17 0.71
29 5 0.21
ACGTcount: A:0.49, C:0.09, G:0.07, T:0.35
Consensus pattern (29 bp):
ATGCAAATAAAGTATACAATTATTCAATT
Found at i:24685854 original size:29 final size:29
Alignment explanation
Indices: 24685820--24685905 Score: 99
Period size: 29 Copynumber: 3.0 Consensus size: 29
24685810 AAATCAATAG
24685820 AAATTAATTCTATGGTCAACCAATTAATT
1 AAATTAATTCTATGGTCAACCAATTAATT
* * *
24685849 GAATTAATTC-AGTGATCAACCAATTAATC
1 AAATTAATTCTA-TGGTCAACCAATTAATT
24685878 AAATTAA-T-T-TGGTTCAACCAATTAATT
1 AAATTAATTCTATGG-TCAACCAATTAATT
24685905 A
1 A
24685906 GGTTTTAATC
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
26 2 0.04
27 14 0.29
28 2 0.04
29 30 0.62
ACGTcount: A:0.42, C:0.14, G:0.08, T:0.36
Consensus pattern (29 bp):
AAATTAATTCTATGGTCAACCAATTAATT
Found at i:24686268 original size:27 final size:28
Alignment explanation
Indices: 24686229--24686283 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
24686219 ATTTTAACCA
* *
24686229 AATTAATTAATCAA-ATTGATTTAATTC
1 AATTAATCAATCAACATTGAATTAATTC
*
24686256 AATTAATCGATCAACCATTGAATTAATT
1 AATTAATCAATCAA-CATTGAATTAATT
24686284 TTCATTGGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 12 0.52
29 11 0.48
ACGTcount: A:0.44, C:0.11, G:0.05, T:0.40
Consensus pattern (28 bp):
AATTAATCAATCAACATTGAATTAATTC
Found at i:24695001 original size:18 final size:18
Alignment explanation
Indices: 24694960--24695005 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
24694950 ATTAAAGCAA
* *
24694960 AATATTTTTATTTTCATG
1 AATATTTTTATCTTAATG
* *
24694978 ATTATTTTTATCTTAATT
1 AATATTTTTATCTTAATG
24694996 AATATTTTTA
1 AATATTTTTA
24695006 ATTTTTAATC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.63
Consensus pattern (18 bp):
AATATTTTTATCTTAATG
Found at i:24695888 original size:20 final size:19
Alignment explanation
Indices: 24695853--24695894 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
24695843 CCTCGGTTTG
24695853 ATTAATTTTAAATTTAATTA
1 ATTAATTTTAAATTT-ATTA
**
24695873 ATTAATTTTATTTTTATTA
1 ATTAATTTTAAATTTATTA
24695892 ATT
1 ATT
24695895 GAATCAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
ATTAATTTTAAATTTATTA
Found at i:24697078 original size:196 final size:195
Alignment explanation
Indices: 24696727--24697092 Score: 488
Period size: 196 Copynumber: 1.9 Consensus size: 195
24696717 AAAGTATTCA
* * *
24696727 CATATTAAAAAGTATAAAAAAATTTTATACTCAATTAATATACATTTAGGTCATATTTAATGTAT
1 CATAATAAAAAGTATAAAAAAATTTGATACCCAATTAATATACATTTAGGTCATATTTAATGTAT
* * * * *
24696792 AAAATGATGAATAAGATAGTATGATAATCATTTTATATTATCTTTGATTTGTATTTAATTGAAAG
66 AAAATGATGAATAAAATAGTATGATAATCATTTTATATTATCTTAGATTTGTATCTAATTAAAAA
* *
24696857 GGATAGGATTACGAAAAAAATTATTATCCTCTTAGTATAAAATAATTCAATCCTTTAAAGTCTGG
131 GGATAAGATTACGAAAAAAATTATTATCATCTTAGTATAAAATAATTCAATCCTTTAAAGTCTGG
* *
24696922 CATAATAAAAAGTATAAAAAAAATTTGATACCCATTTAATATACATTTAGGTCA-AGTTTAGTGT
1 CATAATAAAAAGTAT-AAAAAAATTTGATACCCAATTAATATACATTTAGGTCATA-TTTAATGT
** * *
24696986 ATAGGATGAT-AGATAAAATAGTGTGATAATTATTTTATATTATACTTAG-TTTGTATCTAATTA
64 ATAAAATGATGA-ATAAAATAGTATGATAATCATTTTATATTAT-CTTAGATTTGTATCTAATTA
* * *
24697049 AAAAGGATAATATTAC-AAGAAAGATTATTATCATCTTGGTATAA
127 AAAAGGATAAGATTACGAA-AAAAATTATTATCATCTTAGTATAA
24697093 GATTATTTGA
Statistics
Matches: 147, Mismatches: 19, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
195 18 0.12
196 125 0.85
197 4 0.03
ACGTcount: A:0.43, C:0.07, G:0.12, T:0.38
Consensus pattern (195 bp):
CATAATAAAAAGTATAAAAAAATTTGATACCCAATTAATATACATTTAGGTCATATTTAATGTAT
AAAATGATGAATAAAATAGTATGATAATCATTTTATATTATCTTAGATTTGTATCTAATTAAAAA
GGATAAGATTACGAAAAAAATTATTATCATCTTAGTATAAAATAATTCAATCCTTTAAAGTCTGG
Found at i:24697336 original size:21 final size:22
Alignment explanation
Indices: 24697285--24697339 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 22
24697275 GAATGGCATT
24697285 ATATAAT-TTAATTTTATTTATA
1 ATATAATCTT-ATTTTATTTATA
*
24697307 ATATCATCTTATTTTA-TTATA
1 ATATAATCTTATTTTATTTATA
*
24697328 TTATAATCTTAT
1 ATATAATCTTAT
24697340 GTACCAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 15 0.52
22 12 0.41
23 2 0.07
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.58
Consensus pattern (22 bp):
ATATAATCTTATTTTATTTATA
Found at i:24697767 original size:11 final size:11
Alignment explanation
Indices: 24697751--24697776 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
24697741 TGTTAGACGT
24697751 ATATTCATATA
1 ATATTCATATA
24697762 ATATTCATATA
1 ATATTCATATA
24697773 ATAT
1 ATAT
24697777 ATTTTATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (11 bp):
ATATTCATATA
Found at i:24698970 original size:247 final size:247
Alignment explanation
Indices: 24698383--24699069 Score: 875
Period size: 247 Copynumber: 2.7 Consensus size: 247
24698373 TAAATAATTT
* * *
24698383 ATTTATTTTTAAATTTTTTTATTAAAAAAAAATAATTAGTTGATTTCTTTCCCTTTTTAATATAC
1 ATTTATTTTTGAATTTTTTTA-TCAAAAAAAATAATTAGTTGATTTCTTTCCCTTCTTAATATAC
* *
24698448 AAATTTATAAATTATAAAAATAAAAGCACTCTTCCAAACA----TTTTTTTCTCTATAAAATGAC
65 AAAATTATAAATTACAAAAATAAAAGCACTCTTCCAAACACTCTTTTTTTTCTCTATAAAATGAC
*
24698509 CTTTCACAGCAAAAAAAAAAAAAAAAAAAACTACTGAATTAGGGTTTCGAATTTTCGATCTCGTC
130 CTTT--CA-C----AAAAAAAAAAAAAAAA-T--TGAATTAGGGTTTCGAATTTTCGATCTCATC
* * ** * * * *
24698574 TCCTACAATTAGTTGATTTTTAGGTTGTCAAGTACATTTTACTTTGATTTGAAAGACTGAACA
185 CCCCACAATTAGTAAATTTCTAGGTTATCAAGTACATTTTACTCTAATTTGAAAGACTGAACA
* *
24698637 ATCTATCTATCTTTGAATTTTTGTATCAAAAAAAATAATTAGTTGATTTCTTTCCC-TCATTAAT
1 A--T-T-TATTTTTGAATTTTTTTATCAAAAAAAATAATTAGTTGATTTCTTTCCCTTC-TTAAT
*
24698701 ATACAAAATTATAAATTACAAAAATAAATGCACTCTTCCAAACACTCTTTTTTTTCTCTATAAAA
61 ATACAAAATTATAAATTACAAAAATAAAAGCACTCTTCCAAACACTCTTTTTTTTCTCTATAAAA
* * **
24698766 TGACCTTTCACAACAAAAAAAAAAAAATTGAATTAGGGTTTCAAATTTTCGATCTCATCCCCCGT
126 TGACCTTTCACAAAAAAAAAAAAAAAATTGAATTAGGGTTTCGAATTTTCGATCTCATCCCCCAC
* * *
24698831 AATTAGTAAATTTCTAGGTTATCAAGTATATTTTACTCTAATTTTAAAGACTGAATA
191 AATTAGTAAATTTCTAGGTTATCAAGTACATTTTACTCTAATTTGAAAGACTGAACA
*
24698888 ATTTATTTTTGAATTTTTTTATCAAAAAAAATAATTAACTT-ATTTCTTTCCCTTCTTAATATAC
1 ATTTATTTTTGAATTTTTTTATCAAAAAAAATAATT-AGTTGATTTCTTTCCCTTCTTAATATAC
* * *
24698952 AAAATTATAAATTACAAAAATAAAGGCACTTTTCCGAACACTCTTTTTTTTTTCTCTATAAAATG
65 AAAATTATAAATTACAAAAATAAAAGCACTCTTCCAAACACTC--TTTTTTTTCTCTATAAAATG
* * *
24699017 GCCTTTCAC-AGAAAAAAAAAAAAATTGAATTAGGGTTTTGAATTTTCGATCTC
128 ACCTTTCACAAAAAAAAAAAAAAAATTGAATTAGGGTTTCGAATTTTCGATCTC
24699070 GTCATGATGA
Statistics
Matches: 386, Mismatches: 34, Indels: 32
0.85 0.08 0.07
Matches are distributed among these distances:
247 91 0.24
248 47 0.12
249 29 0.08
251 80 0.21
253 1 0.00
254 16 0.04
256 2 0.01
257 77 0.20
258 16 0.04
259 2 0.01
261 25 0.06
ACGTcount: A:0.39, C:0.14, G:0.08, T:0.39
Consensus pattern (247 bp):
ATTTATTTTTGAATTTTTTTATCAAAAAAAATAATTAGTTGATTTCTTTCCCTTCTTAATATACA
AAATTATAAATTACAAAAATAAAAGCACTCTTCCAAACACTCTTTTTTTTCTCTATAAAATGACC
TTTCACAAAAAAAAAAAAAAAATTGAATTAGGGTTTCGAATTTTCGATCTCATCCCCCACAATTA
GTAAATTTCTAGGTTATCAAGTACATTTTACTCTAATTTGAAAGACTGAACA
Found at i:24699823 original size:248 final size:245
Alignment explanation
Indices: 24699366--24700068 Score: 776
Period size: 248 Copynumber: 2.8 Consensus size: 245
24699356 AATGGGGTGT
* * * *
24699366 GCAATTAGTTGATTTATAAGTTGTCA-GTCACATTTTATTTTGATTTGAGGATT-GATCAATTTA
1 GCAATTAGTTGATTTATAAGTTGTCAGGT-ACATTTTATTCTGATTTAAAGATTAAAT-AATTTA
* * *
24699429 TTTATTTTTAAATTTTTTTATTAAAAAAAATAATTAGTTGATTTCTTTCCCT-CTTCAATATATA
64 TTTATTTTTAAATTTTTTTATCAAAAAAAATAATTAGCTGATTTCTTTCCCTCCTT-AATATACA
* * **
24699493 AATTTATAAATTACAAAAATAAAGGCACTCTTCCAAACA--ATTTTTTTCTCTATAAAATGATTT
128 AAATTATAAATTACAAAAATAAAGGCACTCTTCCAAACACTCTTTTTTTCTCTATAAAATGACCT
* * *
24699556 TTTACAGTAAAAAAAAAAAAACTGAATTAGGGTTTTGAATTTTAGATCTCGTCCCTC
193 TTCACAGT----AAAAAAAAACTGAATTAAGGTTTCGAATTTTAGATCTCGTCCCTC
* *
24699613 GCAATTAGTTGATTTTTAAGTTGTCAGGTACATTATATTCTGATTTAAAAGATTAAATAATTTAT
1 GCAATTAGTTGATTTATAAGTTGTCAGGTACATTTTATTCTGATTT-AAAGATTAAATAATTTAT
* *
24699678 TTATTTTTAAATTTTTTTATCAAAAAAAATAATTAGCTAATTTCTTTCTCTCCTTAATATACAAA
65 TTATTTTTAAATTTTTTTATCAAAAAAAATAATTAGCTGATTTCTTTCCCTCCTTAATATACAAA
* *
24699743 ATTATAAATTACAAAAATAAAGGCATTCTTCCAAACACTCTTTTTTTTTTCTCTATAAAATGGCC
130 ATTATAAATTACAAAAATAAAGGCACTCTTCCAAACACTC---TTTTTTTCTCTATAAAATGACC
* * *
24699808 TTTCACAGTAAAAAAAAAAAAAAGTGAATTAAGGTTTCGAATTTTCGATCTCGTCTCTC
192 TTTCACAGT-----AAAAAAAAACTGAATTAAGGTTTCGAATTTTAGATCTCGTCCCTC
* * * * * * * *** ** *
24699867 GTAATTAGTTGATTTCTAGGTTGTCAGATATATTTTACTCTAATTTAAA-A-TACCGAA-CAATC
1 GCAATTAGTTGATTTATAAGTTGTCAGGTACATTTTATTCTGATTTAAAGATTAAATAATTTATT
* * * *
24699929 TATCTCTAAATTTTTTTGTCAAAAAAAAATAATTAACTGATTTCTTTCCCTCCTTAATATACAAA
66 TATTTTTAAATTTTTTTATC-AAAAAAAATAATTAGCTGATTTCTTTCCCTCCTTAATATACAAA
* * * * *
24699994 ATTATAAATTAAAAAAATAAAGGTACTCTTTCGAACACTC-TTTTTTATCTATAAAATGACCTTT
130 ATTATAAATTACAAAAATAAAGGCACTCTTCCAAACACTCTTTTTTTCTCTATAAAATGACCTTT
*
24700058 CACAATAAAAA
195 CACAGTAAAAA
24700069 CAAAGAAAAA
Statistics
Matches: 394, Mismatches: 51, Indels: 27
0.83 0.11 0.06
Matches are distributed among these distances:
242 5 0.01
247 67 0.17
248 105 0.27
249 5 0.01
250 19 0.05
251 80 0.20
252 1 0.00
253 30 0.08
254 82 0.21
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.41
Consensus pattern (245 bp):
GCAATTAGTTGATTTATAAGTTGTCAGGTACATTTTATTCTGATTTAAAGATTAAATAATTTATT
TATTTTTAAATTTTTTTATCAAAAAAAATAATTAGCTGATTTCTTTCCCTCCTTAATATACAAAA
TTATAAATTACAAAAATAAAGGCACTCTTCCAAACACTCTTTTTTTCTCTATAAAATGACCTTTC
ACAGTAAAAAAAAACTGAATTAAGGTTTCGAATTTTAGATCTCGTCCCTC
Found at i:24700001 original size:251 final size:251
Alignment explanation
Indices: 24699437--24700116 Score: 838
Period size: 251 Copynumber: 2.7 Consensus size: 251
24699427 TATTTATTTT
* * * *
24699437 TAAATTTTTTTATTAAAAAAAATAATTAGTTGATTTCTTTCCCT-CTTCAATATATAAATTTATA
1 TAAATTTTTTTATCAAAAAAAATAATTAGCTGATTTCTTTCCCTCCTT-AATATACAAAATTATA
* ** *
24699501 AATTACAAAAATAAAGGCACTCTTCCAAACA--ATTTTTTTCTCTATAAAATGATTTTTTACAGT
65 AATTACAAAAATAAAGGCACTCTTCCAAACACTCTTTTTTTCTCTATAAAATGACCTTTCACAGT
* *
24699564 -AAAAAAAAAAAAACTGAATTAGGGTTTTGAATTTTAGATCTCGTCCCTCGCAATTAGTTGATTT
130 AAAAAAAAAAAAAACTGAATTAGGGTTTCGAATTTTCGATCTCGTCCCTCGCAATTAGTTGATTT
* * * * * ** * * *
24699628 TTAAGTTGTCAGGTACATTATATTCTGATTTAAAAGATTAAATAATTTATTTATTTT
195 CTAAGTTGTCAGATACATTATACTCTAATTTAAAAGATTAAAGAATCAATCTATCTC
* *
24699685 TAAATTTTTTTATCAAAAAAAATAATTAGCTAATTTCTTTCTCTCCTTAATATACAAAATTATAA
1 TAAATTTTTTTATCAAAAAAAATAATTAGCTGATTTCTTTCCCTCCTTAATATACAAAATTATAA
* *
24699750 ATTACAAAAATAAAGGCATTCTTCCAAACACTCTTTTTTTTTTCTCTATAAAATGGCCTTTCACA
66 ATTACAAAAATAAAGGCACTCTTCCAAACACTC---TTTTTTTCTCTATAAAATGACCTTTCACA
* * * *
24699815 GTAAAAAAAAAAAAAAGTGAATTAAGGTTTCGAATTTTCGATCTCGTCTCTCGTAATTAGTTGAT
128 GTAAAAAAAAAAAAAACTGAATTAGGGTTTCGAATTTTCGATCTCGTCCCTCGCAATTAGTTGAT
* * * **
24699880 TTCTAGGTTGTCAGATATATTTTACTCTAATTT-AAA-A-TACCGAA-CAATCTATCTC
193 TTCTAAGTTGTCAGATACATTATACTCTAATTTAAAAGATTAAAGAATCAATCTATCTC
* *
24699935 TAAATTTTTTTGTCAAAAAAAAATAATTAACTGATTTCTTTCCCTCCTTAATATACAAAATTATA
1 TAAATTTTTTTATC-AAAAAAAATAATTAGCTGATTTCTTTCCCTCCTTAATATACAAAATTATA
* * * * * *
24700000 AATTAAAAAAATAAAGGTACTCTTTCGAACACTC-TTTTTTATCTATAAAATGACCTTTCACAAT
65 AATTACAAAAATAAAGGCACTCTTCCAAACACTCTTTTTTTCTCTATAAAATGACCTTTCACAGT
24700064 AAAAACAAAGAAAAAATAACTGAATTAGGGTTTCGAATTTTCGATCTCGTCCC
130 --AAA-AAA-AAAAAA-AACTGAATTAGGGTTTCGAATTTTCGATCTCGTCCC
24700117 CTCCCCTGAA
Statistics
Matches: 371, Mismatches: 48, Indels: 22
0.84 0.11 0.05
Matches are distributed among these distances:
247 27 0.07
248 84 0.23
249 6 0.02
250 22 0.06
251 86 0.23
252 34 0.09
253 30 0.08
254 82 0.22
ACGTcount: A:0.39, C:0.14, G:0.08, T:0.39
Consensus pattern (251 bp):
TAAATTTTTTTATCAAAAAAAATAATTAGCTGATTTCTTTCCCTCCTTAATATACAAAATTATAA
ATTACAAAAATAAAGGCACTCTTCCAAACACTCTTTTTTTCTCTATAAAATGACCTTTCACAGTA
AAAAAAAAAAAAACTGAATTAGGGTTTCGAATTTTCGATCTCGTCCCTCGCAATTAGTTGATTTC
TAAGTTGTCAGATACATTATACTCTAATTTAAAAGATTAAAGAATCAATCTATCTC
Found at i:24705224 original size:6 final size:6
Alignment explanation
Indices: 24705213--24705249 Score: 56
Period size: 6 Copynumber: 6.0 Consensus size: 6
24705203 TTAGTTTAGA
*
24705213 TTAAAT TTAAAT ATTAAAT TTATAT TTAAAT TTAAAT
1 TTAAAT TTAAAT -TTAAAT TTAAAT TTAAAT TTAAAT
24705250 CAAATTTTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 22 0.79
7 6 0.21
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (6 bp):
TTAAAT
Found at i:24705230 original size:13 final size:13
Alignment explanation
Indices: 24705212--24705249 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
24705202 TTTAGTTTAG
24705212 ATTAAATTTAAAT
1 ATTAAATTTAAAT
*
24705225 ATTAAATTTATAT
1 ATTAAATTTAAAT
24705238 -TTAAATTTAAAT
1 ATTAAATTTAAAT
24705250 CAAATTTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 11 0.48
13 12 0.52
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
ATTAAATTTAAAT
Found at i:24705483 original size:30 final size:33
Alignment explanation
Indices: 24705443--24705514 Score: 98
Period size: 30 Copynumber: 2.3 Consensus size: 33
24705433 AAAAAACTGC
24705443 TAAA-TCAAATCAAATTA-AT-AAAATTCAA-T
1 TAAATTCAAATCAAATTATATAAAAATTCAATT
* *
24705472 TCAATTCAAATCAAATTATATAAAAATTTAATT
1 TAAATTCAAATCAAATTATATAAAAATTCAATT
24705505 TAAATTCAAA
1 TAAATTCAAA
24705515 AAGTTTATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
29 3 0.08
30 13 0.36
31 2 0.06
32 8 0.22
33 10 0.28
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.35
Consensus pattern (33 bp):
TAAATTCAAATCAAATTATATAAAAATTCAATT
Done.