Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168492.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_9, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 25814696
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 122000 characters in sequence are not A, C, G, or T
File 54 of 126
Found at i:10662850 original size:187 final size:187
Alignment explanation
Indices: 10662530--10662905 Score: 610
Period size: 187 Copynumber: 2.0 Consensus size: 187
10662520 ATCAAAGAAA
*
10662530 TTAGGGAGCTATTGCTTGAAGAGTCAGAATCTAATTACTATACTATTTTAAAGCACCTTATTTAG
1 TTAGGGAGCTATTGCTTGAAGAGTCAGAACCTAATTACTATACTATTTTAAAGCACCTTATTTAG
* *
10662595 AATAAATTAGCTGTAGGTAAAGAGACCTCGCATGCATATGAGGCCAGTATAATATCAAATAGAGC
66 AATAAATTAGCAGTAGGTAAAGAGACCTCGCATGAATATGAGGCCAGTATAATATCAAATAGAGC
10662660 AGATGTGGTACGCAACACCATTTAACTGTTGACAAA-TCTTCATTTGATTCATATGAT
131 AGATGTGGTACGCAACACCATTTAACTGTTGA-AAATTCTTCATTTGATTCATATGAT
* * * **
10662717 TTAGGGAGCTATTGCTTGAAGAGTCAGAACCTAGTTATTATATTATTTTAAAGCTTCTTATTTAG
1 TTAGGGAGCTATTGCTTGAAGAGTCAGAACCTAATTACTATACTATTTTAAAGCACCTTATTTAG
* * * *
10662782 AATAAATTAGCAGTAGGTAAAGAGACCTTGCATGAATATGGGGCCAGTATAATATCAATTATAGC
66 AATAAATTAGCAGTAGGTAAAGAGACCTCGCATGAATATGAGGCCAGTATAATATCAAATAGAGC
* *
10662847 AGATGTGGTATGCAACACCATTTAACTGTTGAAAATTTTTCATTTGATTCATATGAT
131 AGATGTGGTACGCAACACCATTTAACTGTTGAAAATTCTTCATTTGATTCATATGAT
10662904 TT
1 TT
10662906 GATAGGAAAA
Statistics
Matches: 174, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
186 3 0.02
187 171 0.98
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (187 bp):
TTAGGGAGCTATTGCTTGAAGAGTCAGAACCTAATTACTATACTATTTTAAAGCACCTTATTTAG
AATAAATTAGCAGTAGGTAAAGAGACCTCGCATGAATATGAGGCCAGTATAATATCAAATAGAGC
AGATGTGGTACGCAACACCATTTAACTGTTGAAAATTCTTCATTTGATTCATATGAT
Found at i:10665396 original size:19 final size:19
Alignment explanation
Indices: 10665372--10665410 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
10665362 TAAGCTGGAG
10665372 ATATAAATAATTGAGATTA
1 ATATAAATAATTGAGATTA
*
10665391 ATATAAATAATTGAGCTTA
1 ATATAAATAATTGAGATTA
10665410 A
1 A
10665411 AATTCAAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.51, C:0.03, G:0.10, T:0.36
Consensus pattern (19 bp):
ATATAAATAATTGAGATTA
Found at i:10667158 original size:24 final size:22
Alignment explanation
Indices: 10667105--10667150 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 22
10667095 CATTTTTGAA
10667105 AACA-AATGTATAATATGCATG
1 AACATAATGTATAATATGCATG
10667126 AACATAATGTATAATGAATGCATG
1 AACATAATGTATAAT--ATGCATG
10667150 A
1 A
10667151 TATGAATGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 4 0.18
22 10 0.45
24 8 0.36
ACGTcount: A:0.48, C:0.09, G:0.15, T:0.28
Consensus pattern (22 bp):
AACATAATGTATAATATGCATG
Found at i:10667168 original size:14 final size:13
Alignment explanation
Indices: 10667139--10667179 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
10667129 ATAATGTATA
10667139 ATGAATGCATGAT
1 ATGAATGCATGAT
*
10667152 ATGAATGACATGGT
1 ATGAATG-CATGAT
*
10667166 ATGAATGCAAGAT
1 ATGAATGCATGAT
10667179 A
1 A
10667180 ATTTATGGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 12 0.50
14 12 0.50
ACGTcount: A:0.41, C:0.07, G:0.24, T:0.27
Consensus pattern (13 bp):
ATGAATGCATGAT
Found at i:10667276 original size:17 final size:18
Alignment explanation
Indices: 10667238--10667276 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
10667228 GAGGGTTAAG
* *
10667238 GGTTGGTTTTAGGGTTTG
1 GGTTGGTTTTAGGGTCTA
10667256 GGTTGGTTTT-GGGTCTA
1 GGTTGGTTTTAGGGTCTA
10667273 GGTT
1 GGTT
10667277 AGAGTTTAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.05, C:0.03, G:0.44, T:0.49
Consensus pattern (18 bp):
GGTTGGTTTTAGGGTCTA
Found at i:10667310 original size:7 final size:7
Alignment explanation
Indices: 10667300--10667359 Score: 75
Period size: 7 Copynumber: 8.6 Consensus size: 7
10667290 AGGGTTTTGA
10667300 GTTTAAG
1 GTTTAAG
*
10667307 GTTTAGG
1 GTTTAAG
10667314 GTTTAAG
1 GTTTAAG
*
10667321 TTTTAAG
1 GTTTAAG
10667328 GTTTAAG
1 GTTTAAG
*
10667335 ATTTAAG
1 GTTTAAG
*
10667342 GTTTAGG
1 GTTTAAG
*
10667349 GTTTAAA
1 GTTTAAG
10667356 GTTT
1 GTTT
10667360 TGAGGGTGGC
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
7 44 1.00
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.47
Consensus pattern (7 bp):
GTTTAAG
Found at i:10667385 original size:19 final size:19
Alignment explanation
Indices: 10667363--10667403 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
10667353 AAAGTTTTGA
*
10667363 GGGTGGCTTAGGGTTTCAT
1 GGGTGACTTAGGGTTTCAT
* *
10667382 GGGTGATTTGGGGTTTCAT
1 GGGTGACTTAGGGTTTCAT
10667401 GGG
1 GGG
10667404 GTTGAGGGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.10, C:0.07, G:0.46, T:0.37
Consensus pattern (19 bp):
GGGTGACTTAGGGTTTCAT
Found at i:10667414 original size:17 final size:19
Alignment explanation
Indices: 10667372--10667418 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
10667362 AGGGTGGCTT
10667372 AGGGTTTCATGGGTGATTTG
1 AGGGTTTCATGGGTGA-TTG
10667392 -GGGTTTCATGGG-G-TTG
1 AGGGTTTCATGGGTGATTG
10667408 AGGGTTTCATG
1 AGGGTTTCATG
10667419 AGAAATGCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 3 0.12
17 10 0.38
18 1 0.04
19 12 0.46
ACGTcount: A:0.13, C:0.06, G:0.43, T:0.38
Consensus pattern (19 bp):
AGGGTTTCATGGGTGATTG
Found at i:10669867 original size:49 final size:51
Alignment explanation
Indices: 10669759--10669891 Score: 137
Period size: 49 Copynumber: 2.6 Consensus size: 51
10669749 GGAAAAGTTG
* * *
10669759 CCTATGAAGATAGGTAACAAACTTTAAAAATCTTTTTTTTTTTAAAAGAACTT
1 CCTATGAAGATAGGCAACAAATTTTAAAAATC--TTTTTTTTGAAAAGAACTT
* **
10669812 CC-ATGAAGATAGGCAACAAATTTTAACAATC-TTTTTTTGAAAAGGTC-T
1 CCTATGAAGATAGGCAACAAATTTTAAAAATCTTTTTTTTGAAAAGAACTT
* *
10669860 CCTATGAAGATACGCAATAAACTTTTTAAAAA
1 CCTATGAAGATAGGCAACAAA--TTTTAAAAA
10669892 ATCTCAACTT
Statistics
Matches: 68, Mismatches: 9, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
48 3 0.04
49 29 0.43
51 8 0.12
52 26 0.38
53 2 0.03
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.35
Consensus pattern (51 bp):
CCTATGAAGATAGGCAACAAATTTTAAAAATCTTTTTTTTGAAAAGAACTT
Found at i:10671262 original size:26 final size:26
Alignment explanation
Indices: 10671226--10671275 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
10671216 TGTTGTTACC
*
10671226 CTATGCTTTCCTTGCATTTCAAATTT
1 CTATACTTTCCTTGCATTTCAAATTT
*
10671252 CTATACTTTCCTTGTATTTCAAAT
1 CTATACTTTCCTTGCATTTCAAAT
10671276 GTATGGCCCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.22, C:0.22, G:0.06, T:0.50
Consensus pattern (26 bp):
CTATACTTTCCTTGCATTTCAAATTT
Found at i:10682241 original size:2 final size:2
Alignment explanation
Indices: 10682234--10682258 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10682224 GAAAGCAAAA
10682234 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
10682259 TATATATATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:10683185 original size:3 final size:3
Alignment explanation
Indices: 10683177--10683220 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
10683167 TTTCCTTAAA
*
10683177 ATT ATT ATT ATT ATT ATT ATT ATT GTT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
10683221 CAGGCATTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:10689380 original size:43 final size:43
Alignment explanation
Indices: 10689246--10689446 Score: 171
Period size: 43 Copynumber: 4.7 Consensus size: 43
10689236 CATTTTCAAA
* * * * *
10689246 TTGTTTAGCCTCTGTATAGAGGAGCCCATTTTTTCATTTAAAAT
1 TTGTTTAGCCTCTATATAGAAGAGCCCATTTCTTAATTT-AAAG
* * * * * *
10689290 TTGTTGAGCTTTTATATAGATGAGCCTA-TT-TT--TTTAGAG
1 TTGTTTAGCCTCTATATAGAAGAGCCCATTTCTTAATTTAAAG
*
10689329 TTGTTTAGCCTCTGTATAGAAGAGCCCATTTCTTAATTTAAAG
1 TTGTTTAGCCTCTATATAGAAGAGCCCATTTCTTAATTTAAAG
* *
10689372 TTGTTTAGCCTCTATATA-AAGGAACTCATTTCTTAATTTAAAG
1 TTGTTTAGCCTCTATATAGAA-GAGCCCATTTCTTAATTTAAAG
* * *
10689415 ATTTTTTAAG-CTCTATATAGAAGCGTCCATTT
1 -TTGTTT-AGCCTCTATATAGAAGAGCCCATTT
10689447 TGTTGAGCCT
Statistics
Matches: 126, Mismatches: 23, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
39 24 0.19
40 5 0.04
41 2 0.02
42 4 0.03
43 45 0.36
44 42 0.33
45 4 0.03
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.43
Consensus pattern (43 bp):
TTGTTTAGCCTCTATATAGAAGAGCCCATTTCTTAATTTAAAG
Found at i:10690886 original size:4 final size:4
Alignment explanation
Indices: 10690840--10690901 Score: 52
Period size: 4 Copynumber: 15.2 Consensus size: 4
10690830 TTCAAATATC
* * * * * *
10690840 TTTA TTTT TTTA TTTA TATA TTTTA CTTA CTGA TTTA TCTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTTA
*
10690889 TTTA TCTA TTTA T
1 TTTA TTTA TTTA T
10690902 AAATACTTTT
Statistics
Matches: 45, Mismatches: 12, Indels: 2
0.76 0.20 0.03
Matches are distributed among these distances:
4 42 0.93
5 3 0.07
ACGTcount: A:0.24, C:0.06, G:0.02, T:0.68
Consensus pattern (4 bp):
TTTA
Found at i:10700497 original size:16 final size:15
Alignment explanation
Indices: 10700469--10700502 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
10700459 ATTTTACTTT
10700469 TTTCATTTTTTTTTG
1 TTTCATTTTTTTTTG
*
10700484 TTTCCTTTTGTTTTTG
1 TTTCATTTT-TTTTTG
10700500 TTT
1 TTT
10700503 TTTGTGTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.03, C:0.09, G:0.09, T:0.79
Consensus pattern (15 bp):
TTTCATTTTTTTTTG
Found at i:10700505 original size:13 final size:13
Alignment explanation
Indices: 10700489--10700533 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
10700479 TTTTGTTTCC
10700489 TTTTGTTTTTGTT
1 TTTTGTTTTTGTT
* *
10700502 TTTTGTGTTTGTG
1 TTTTGTTTTTGTT
10700515 TTTTGTTCATTTGTT
1 TTTTGTT--TTTGTT
10700530 TTTT
1 TTTT
10700534 TAAAAGTTGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
13 17 0.65
15 9 0.35
ACGTcount: A:0.02, C:0.02, G:0.18, T:0.78
Consensus pattern (13 bp):
TTTTGTTTTTGTT
Found at i:10701188 original size:19 final size:19
Alignment explanation
Indices: 10701164--10701207 Score: 72
Period size: 18 Copynumber: 2.4 Consensus size: 19
10701154 AGTCAAAACA
*
10701164 TTTTTTTCAATT-TTTGAT
1 TTTTTTTCAATTCTTTCAT
10701182 TTTTTTTCAATTCTTTCAT
1 TTTTTTTCAATTCTTTCAT
10701201 TTTTTTT
1 TTTTTTT
10701208 TGAAAAAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 12 0.50
19 12 0.50
ACGTcount: A:0.14, C:0.09, G:0.02, T:0.75
Consensus pattern (19 bp):
TTTTTTTCAATTCTTTCAT
Found at i:10701745 original size:26 final size:26
Alignment explanation
Indices: 10701711--10701790 Score: 108
Period size: 26 Copynumber: 3.1 Consensus size: 26
10701701 AGAAATTATT
** *
10701711 TTTTTTAATTCATAAAAAATTTAGTA
1 TTTTTTAATTCATAAAAAAAATAGAA
10701737 TTTTTTAATTCATAAAAAAAATAGAA
1 TTTTTTAATTCATAAAAAAAATAGAA
* *
10701763 TTTTTTTATTCATAAAAAAACTA-AA
1 TTTTTTAATTCATAAAAAAAATAGAA
10701788 TTT
1 TTT
10701791 CTTTTTTTGA
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
25 5 0.10
26 44 0.90
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (26 bp):
TTTTTTAATTCATAAAAAAAATAGAA
Found at i:10702126 original size:14 final size:13
Alignment explanation
Indices: 10702097--10702132 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
10702087 GTAATGTATA
10702097 ATGAATGCATGAT
1 ATGAATGCATGAT
*
10702110 ATGAATGACATGGT
1 ATGAATG-CATGAT
10702124 ATGAATGCA
1 ATGAATGCA
10702133 AGACAAGCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 9 0.43
14 12 0.57
ACGTcount: A:0.39, C:0.08, G:0.25, T:0.28
Consensus pattern (13 bp):
ATGAATGCATGAT
Found at i:10702268 original size:10 final size:10
Alignment explanation
Indices: 10702253--10702282 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
10702243 GTCGGTTTAG
10702253 GGTTTGGGTT
1 GGTTTGGGTT
10702263 GGTTTGGGTT
1 GGTTTGGGTT
10702273 GGTTTGGGTT
1 GGTTTGGGTT
10702283 TTAGGGTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (10 bp):
GGTTTGGGTT
Found at i:10702341 original size:7 final size:7
Alignment explanation
Indices: 10702331--10702437 Score: 58
Period size: 7 Copynumber: 14.4 Consensus size: 7
10702321 AAATTTGAGA
10702331 TTTAGGG
1 TTTAGGG
10702338 TTTAGGG
1 TTTAGGG
*
10702345 -TTAGGAT
1 TTTAGG-G
10702352 TTTA-GG
1 TTTAGGG
* *
10702358 CTTAGGA
1 TTTAGGG
10702365 TATT-GGG
1 T-TTAGGG
10702372 TTTAGGG
1 TTTAGGG
**
10702379 TTTAGAT
1 TTTAGGG
10702386 TTTAGGG
1 TTTAGGG
*
10702393 TTTAAGGT
1 TTT-AGGG
10702401 TTTATGGGTGG
1 TTTA---G-GG
10702412 TTTAGGG
1 TTTAGGG
10702419 TTTCATGGG
1 TTT-A-GGG
10702428 TTTAGGG
1 TTTAGGG
10702435 TTT
1 TTT
10702438 TATGAGAAAT
Statistics
Matches: 76, Mismatches: 12, Indels: 24
0.68 0.11 0.21
Matches are distributed among these distances:
6 10 0.13
7 40 0.53
8 14 0.18
9 6 0.08
10 1 0.01
11 5 0.07
ACGTcount: A:0.17, C:0.02, G:0.36, T:0.46
Consensus pattern (7 bp):
TTTAGGG
Found at i:10702415 original size:19 final size:19
Alignment explanation
Indices: 10702391--10702428 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
10702381 TAGATTTTAG
*
10702391 GGTTTAAGGTTTTATGGGT
1 GGTTTAAGGTTTCATGGGT
*
10702410 GGTTTAGGGTTTCATGGGT
1 GGTTTAAGGTTTCATGGGT
10702429 TTAGGGTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.13, C:0.03, G:0.39, T:0.45
Consensus pattern (19 bp):
GGTTTAAGGTTTCATGGGT
Found at i:10702435 original size:26 final size:26
Alignment explanation
Indices: 10702386--10702435 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
10702376 GGGTTTAGAT
*
10702386 TTTAGGGTTTAAGGTTTTATGGGTGG
1 TTTAGGGTTTAAGGGTTTATGGGTGG
*
10702412 TTTAGGGTTTCATGGGTTTA-GGGT
1 TTTAGGGTTT-AAGGGTTTATGGGT
10702436 TTTATGAGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 14 0.67
27 7 0.33
ACGTcount: A:0.14, C:0.02, G:0.38, T:0.46
Consensus pattern (26 bp):
TTTAGGGTTTAAGGGTTTATGGGTGG
Found at i:10704949 original size:60 final size:61
Alignment explanation
Indices: 10704866--10705014 Score: 178
Period size: 60 Copynumber: 2.5 Consensus size: 61
10704856 AAGGAACACT
* * *
10704866 GTAATTAATT-ATATTTAAAAATTACAATGTACAATTACTATGTTTATC-TTATAAAAACGCA
1 GTAATTGATTAAT-TTTAAAAATTACAATGAACAATTACTATGTTTAGCTTTA-AAAAACGCA
* * * * *
10704927 GTGATTGA-TAATTTTAAAAATTACAATGAACAATTATTGTGTTTAGCTTTAAAAAATGTA
1 GTAATTGATTAATTTTAAAAATTACAATGAACAATTACTATGTTTAGCTTTAAAAAACGCA
*
10704987 GTAATTGATTAATTTCAAAAATTACAAT
1 GTAATTGATTAATTTTAAAAATTACAAT
10705015 ATATAAATTC
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
60 46 0.61
61 29 0.39
ACGTcount: A:0.44, C:0.07, G:0.09, T:0.40
Consensus pattern (61 bp):
GTAATTGATTAATTTTAAAAATTACAATGAACAATTACTATGTTTAGCTTTAAAAAACGCA
Found at i:10705036 original size:84 final size:84
Alignment explanation
Indices: 10704942--10705098 Score: 233
Period size: 84 Copynumber: 1.9 Consensus size: 84
10704932 TGATAATTTT
* ** *
10704942 AAAAATTACAATGAACAATTATTGTGTTTAGCTTTAAAAAATGTAGTAATTGATTAATTTCAAAA
1 AAAAATTACAATGAACAATTACTACGTTTAGCTTTAAAAAATGCAGTAATTGATTAATTTCAAAA
10705007 ATTACAATATATAAATTCA
66 ATTACAATATATAAATTCA
* * * * *
10705026 AAAAATTACAATGTACAATTGCTACGTTTATCTTTAAAAAATGCAGTAATTGATTATTTTTAAAA
1 AAAAATTACAATGAACAATTACTACGTTTAGCTTTAAAAAATGCAGTAATTGATTAATTTCAAAA
10705091 ATTACAAT
66 ATTACAAT
10705099 GAATAATTAC
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
84 64 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (84 bp):
AAAAATTACAATGAACAATTACTACGTTTAGCTTTAAAAAATGCAGTAATTGATTAATTTCAAAA
ATTACAATATATAAATTCA
Found at i:10705095 original size:61 final size:59
Alignment explanation
Indices: 10705026--10705202 Score: 196
Period size: 62 Copynumber: 2.9 Consensus size: 59
10705016 TATAAATTCA
* *
10705026 AAAAATTACAATGTACAATTGCTACGTTTATCTTTAAA-AAATGCAGTAATTGATTATTTTT
1 AAAAATTACAATG-ACAATTACTACGTTTATCTTCAAAGAAATGCAGTAATTGA--ATTTTT
* * * *
10705087 AAAAATTACAATGAATAATTACTACATTTAGT-TTCAAAGAAATGTAGTATTTGAATTTTT
1 AAAAATTACAATG-ACAATTACTACGTTTA-TCTTCAAAGAAATGCAGTAATTGAATTTTT
* *
10705147 AAATATATTACAATGATCAATTACTGCGTTTATCTTCAAAGAAATGCATTAATTGA
1 AAA-A-ATTACAATGA-CAATTACTACGTTTATCTTCAAAGAAATGCAGTAATTGA
10705203 GCATTTTACA
Statistics
Matches: 97, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
60 9 0.09
61 34 0.35
62 54 0.56
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.39
Consensus pattern (59 bp):
AAAAATTACAATGACAATTACTACGTTTATCTTCAAAGAAATGCAGTAATTGAATTTTT
Found at i:10705668 original size:62 final size:63
Alignment explanation
Indices: 10705570--10705766 Score: 236
Period size: 62 Copynumber: 3.1 Consensus size: 63
10705560 TAAATGGTAG
* * *
10705570 CAATTATTGCATTTTTAAGAACACAACCACAATAATAGAGTTTGAATATAAACCAT-AAAGAA
1 CAATTATTGCATTTTTAAGAATACAAACACAATAATAGAGTATGAATATAAACCATAAAAGAA
* * * *
10705632 TAATTATTGCATTTTTTAGAATACAAACTCAATAATAGAGTCTGAATATAAACCATAAAAAGAA
1 CAATTATTGCATTTTTAAGAATACAAACACAATAATAGAGTATGAATATAAACCAT-AAAAGAA
* * * **
10705696 CAA-TACCTACATTTTTAAGAATACAAACACAGTAATAGAGTATGAATATAAAAAATTACAAAGA
1 CAATTA-TTGCATTTTTAAGAATACAAACACAATAATAGAGTATGAATATAAACCA-TA-AAAGA
10705760 A
63 A
10705761 CAATTA
1 CAATTA
10705767 CTGAGTTTTG
Statistics
Matches: 114, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
62 50 0.44
63 2 0.02
64 50 0.44
65 10 0.09
66 2 0.02
ACGTcount: A:0.50, C:0.13, G:0.09, T:0.28
Consensus pattern (63 bp):
CAATTATTGCATTTTTAAGAATACAAACACAATAATAGAGTATGAATATAAACCATAAAAGAA
Found at i:10707551 original size:24 final size:24
Alignment explanation
Indices: 10707521--10707566 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
10707511 TAAAATAATA
10707521 TTGTAGAGATGTAACCTAACAAAC
1 TTGTAGAGATGTAACCTAACAAAC
*
10707545 TTGTAGAGATGTAATCTAACAA
1 TTGTAGAGATGTAACCTAACAA
10707567 TATCTAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.28
Consensus pattern (24 bp):
TTGTAGAGATGTAACCTAACAAAC
Found at i:10709796 original size:291 final size:291
Alignment explanation
Indices: 10709262--10709834 Score: 821
Period size: 291 Copynumber: 2.0 Consensus size: 291
10709252 AATAAAAGAA
* * *
10709262 AGAGAGTATATTTCAATCAAATATAGGGAAAATTTTCCATTTATCAAGGGAGAAATGAATCAAAA
1 AGAGAGTATATTTCAATCAAATAGAGGCAAAAGTTTCCATTTATCAAGGGAGAAATGAATCAAAA
* *
10709327 TTATAATAATACAAAAAAATTTTGGATCAAATCATATGATAAATTTTATAAAGATTTGTATAAGA
66 CTATAATAATACAAAAAAATTTTGGATCAAATCATATCATAAATTTTATAAAGATTTGTATAAGA
** * *
10709392 GTAATTAAGAAAAATGGCATAATGTCAATGAGAGCTTTGCTTAGTAGCAAGGAAATGGCTCTAAA
131 GTAATTAAGAAAAATAACATAATGTCAATGAGAGCTTTGCTTAATAGCAAGGAAATAGCTCTAAA
* * * ** * * *
10709457 ACCCTGAAATTCTAAGTTCAAATCTCATTACTTGTGGATTTGGTTCAACTTCATGTTAGATTTGT
196 ACCCTAAAATCCTAAGTTCAAATCTCATCACTTACGGATTTAGTTCAACTTCATGTTAAATATGT
10709522 TTAGATATGTTTTGGTTGATTTATTAGAACG
261 TTAGATATGTTTTGGTTGATTTATTAGAACG
* * *
10709553 AGAGAGTATATTTCAATCAAATAGAGGCAAAAGTTTCTATTTATTAAGGGAGAAATGAATCACAA
1 AGAGAGTATATTTCAATCAAATAGAGGCAAAAGTTTCCATTTATCAAGGGAGAAATGAATCAAAA
* * *
10709618 CTGTAATAATACAAAAAGATTTTGGATCAAATCATA-CACTAAATTTTATAAAGATTTGTATGAG
66 CTATAATAATACAAAAAAATTTTGGATCAAATCATATCA-TAAATTTTATAAAGATTTGTATAAG
* *
10709682 AGTAATTAAGAAAAATAATATAATGTCAATGAGAGCTTTGCTTAATGGC-AGAGAAGA-AGCTCT
130 AGTAATTAAGAAAAATAACATAATGTCAATGAGAGCTTTGCTTAATAGCAAG-GAA-ATAGCTCT
*
10709745 AGAACCCTAAAATCCTAAGTTCAAATC-CAATCACTTACGGATTTAGTTCAACTTCATGTTAAAT
193 AAAACCCTAAAATCCTAAGTTCAAATCTC-ATCACTTACGGATTTAGTTCAACTTCATGTTAAAT
* * *
10709809 ATGTTTCGTTATGTTTTGGTTTATTT
257 ATGTTTAGATATGTTTTGGTTGATTT
10709835 TTTTGTTTGA
Statistics
Matches: 249, Mismatches: 29, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
290 4 0.02
291 244 0.98
292 1 0.00
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (291 bp):
AGAGAGTATATTTCAATCAAATAGAGGCAAAAGTTTCCATTTATCAAGGGAGAAATGAATCAAAA
CTATAATAATACAAAAAAATTTTGGATCAAATCATATCATAAATTTTATAAAGATTTGTATAAGA
GTAATTAAGAAAAATAACATAATGTCAATGAGAGCTTTGCTTAATAGCAAGGAAATAGCTCTAAA
ACCCTAAAATCCTAAGTTCAAATCTCATCACTTACGGATTTAGTTCAACTTCATGTTAAATATGT
TTAGATATGTTTTGGTTGATTTATTAGAACG
Found at i:10719611 original size:2 final size:2
Alignment explanation
Indices: 10719604--10719628 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10719594 TCAATTTCAA
10719604 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 A
10719629 AAAGAAGAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10722183 original size:18 final size:18
Alignment explanation
Indices: 10722160--10722196 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
10722150 ACCTTATTTT
*
10722160 TTTTTTTTATTGATAAAA
1 TTTTTTTTATCGATAAAA
10722178 TTTTTTTTATCGATAAAA
1 TTTTTTTTATCGATAAAA
10722196 T
1 T
10722197 AATTATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.59
Consensus pattern (18 bp):
TTTTTTTTATCGATAAAA
Found at i:10722320 original size:65 final size:62
Alignment explanation
Indices: 10722197--10722325 Score: 152
Period size: 65 Copynumber: 2.0 Consensus size: 62
10722187 TCGATAAAAT
* * * *
10722197 AATTATTAATAAAAAATTTTATCGATAATTTTTATGATAATTCATGTTAAATTATTATTTATA
1 AATTATTAATAAAAAAATTTATCGATAAATTTTATAATAATT-ATGTTAAATTATTATTGATA
* *
10722260 AATTATTAATAAAATTAAATTTATCGATAAATTTTATTAATAATT-TGTTGATATTTTTATTGAT
1 AATTATTAATAAAA--AAATTTATCGATAAATTTTA-TAATAATTATGTT-AAATTATTATTGAT
10722324 A
62 A
10722325 A
1 A
10722326 TGATTATATT
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
63 14 0.25
64 4 0.07
65 31 0.55
66 7 0.12
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (62 bp):
AATTATTAATAAAAAAATTTATCGATAAATTTTATAATAATTATGTTAAATTATTATTGATA
Found at i:10723579 original size:20 final size:20
Alignment explanation
Indices: 10723554--10723593 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
10723544 ATTAAGGAAA
10723554 ATAAAATTTTTCCAAAGTTT
1 ATAAAATTTTTCCAAAGTTT
10723574 ATAAAATTTTTCCAAAGTTT
1 ATAAAATTTTTCCAAAGTTT
10723594 TCACTCAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.10, G:0.05, T:0.45
Consensus pattern (20 bp):
ATAAAATTTTTCCAAAGTTT
Found at i:10724249 original size:16 final size:15
Alignment explanation
Indices: 10724208--10724294 Score: 69
Period size: 15 Copynumber: 6.1 Consensus size: 15
10724198 AATGAGTAAG
*
10724208 AAAATAAT-ATCATA
1 AAAATAATAATAATA
*
10724222 AAAATAATAATAGTA
1 AAAATAATAATAATA
10724237 AAAATAATAAATAATA
1 AAAATAAT-AATAATA
**
10724253 AAAA-AGGAA-AATA
1 AAAATAATAATAATA
*
10724266 AATAATAAGAA-AATA
1 AA-AATAATAATAATA
10724281 AAAA-AATAA-AATA
1 AAAATAATAATAATA
10724294 A
1 A
10724295 GAAAAGAAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
13 15 0.24
14 14 0.23
15 23 0.37
16 10 0.16
ACGTcount: A:0.74, C:0.01, G:0.05, T:0.21
Consensus pattern (15 bp):
AAAATAATAATAATA
Found at i:10724267 original size:13 final size:13
Alignment explanation
Indices: 10724249--10724304 Score: 67
Period size: 13 Copynumber: 4.2 Consensus size: 13
10724239 AATAATAAAT
*
10724249 AATAAAAAAGGAA
1 AATAAAAAAAGAA
10724262 AATAAATAATAAGAA
1 AATAAA-AA-AAGAA
*
10724277 AATAAAAAAATAA
1 AATAAAAAAAGAA
*
10724290 AATAAGAAAAGAA
1 AATAAAAAAAGAA
10724303 AA
1 AA
10724305 CTAACCAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
13 23 0.62
14 4 0.11
15 10 0.27
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.12
Consensus pattern (13 bp):
AATAAAAAAAGAA
Found at i:10725116 original size:6 final size:6
Alignment explanation
Indices: 10725107--10725207 Score: 51
Period size: 6 Copynumber: 16.0 Consensus size: 6
10725097 AAACAAAGTA
* * * * *
10725107 AAAAAT AAAAGA- AATAACAT AATAAT AATAAT AATAAT AATAAT AATAAT
1 AAAAAT AAAA-AT AA-AA-AT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
* * * * *
10725157 AATAAT AATAAT AATAAAT GAAACT AAAAGT AAAAATT AATAAAT AAAAAT
1 AAAAAT AAAAAT AA-AAAT AAAAAT AAAAAT AAAAA-T AA-AAAT AAAAAT
10725208 TTAAAAGTTT
Statistics
Matches: 81, Mismatches: 8, Indels: 12
0.80 0.08 0.12
Matches are distributed among these distances:
6 61 0.75
7 15 0.19
8 5 0.06
ACGTcount: A:0.69, C:0.02, G:0.03, T:0.26
Consensus pattern (6 bp):
AAAAAT
Found at i:10725133 original size:3 final size:3
Alignment explanation
Indices: 10725125--10725173 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
10725115 AAGAAATAAC
10725125 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
10725173 A
1 A
10725174 ATGAAACTAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:10726041 original size:34 final size:33
Alignment explanation
Indices: 10725933--10726052 Score: 129
Period size: 34 Copynumber: 3.6 Consensus size: 33
10725923 CTTGAATGAC
*
10725933 TCCTCTAACCAGA-GCTAATGAA-ACTTTAAAAAT
1 TCCTCTAACCAAAGGCT-AT-AAGACTTTAAAAAT
* *
10725966 TACTCTAACCCAAGGCTATAAGACTTTGAAAAACT
1 TCCTCTAACCAAAGGCTATAAGACTTT-AAAAA-T
*
10726001 T-TTCTAACCAAAGGCTATAAGACTTTAAATAAT
1 TCCTCTAACCAAAGGCTATAAGACTTTAAA-AAT
*
10726034 TCCTCTAACCAGAGGCTAT
1 TCCTCTAACCAAAGGCTAT
10726053 GATACTTGAA
Statistics
Matches: 74, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
32 2 0.03
33 22 0.30
34 48 0.65
35 2 0.03
ACGTcount: A:0.39, C:0.22, G:0.11, T:0.28
Consensus pattern (33 bp):
TCCTCTAACCAAAGGCTATAAGACTTTAAAAAT
Found at i:10726062 original size:67 final size:66
Alignment explanation
Indices: 10725916--10726063 Score: 158
Period size: 67 Copynumber: 2.2 Consensus size: 66
10725906 AACCAAAAGT
** *
10725916 TATGATACTTGAATGACTCCTCTAACCAGAGCTAATGAAACTTTAAAAATTACTCTAACCCAAGG
1 TATGATACTTGAAAAACTCCTCTAACCAAAGCTAATGAAACTTTAAAAATTACTCTAACCCAAGG
10725981 C
66 C
* * ** *
10725982 TATAAGACTTTGAAAAACTTTTCTAACCAAAGGCT-AT-AAGACTTTAAATAATTCCTCTAA-CC
1 TATGATAC-TTGAAAAACTCCTCTAACCAAA-GCTAATGAA-ACTTTAAA-AATTACTCTAACCC
10726044 AGAGGC
62 A-AGGC
10726050 TATGATACTTGAAA
1 TATGATACTTGAAA
10726064 TAAAAAATCT
Statistics
Matches: 67, Mismatches: 10, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
66 8 0.12
67 36 0.54
68 23 0.34
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (66 bp):
TATGATACTTGAAAAACTCCTCTAACCAAAGCTAATGAAACTTTAAAAATTACTCTAACCCAAGG
C
Found at i:10726065 original size:34 final size:34
Alignment explanation
Indices: 10725916--10726066 Score: 116
Period size: 34 Copynumber: 4.5 Consensus size: 34
10725906 AACCAAAAGT
* * *
10725916 TATGATACTTG-AATGACTCCTCTAACCAGA-GC
1 TATGAGACTTGAAATAATTCCTCTAACCAGAGGC
* * *
10725948 TAATGAAACTTTAAA-AATTACTCTAACCCA-AGGC
1 T-ATGAGACTTGAAATAATTCCTCTAA-CCAGAGGC
* * *
10725982 TATAAGACTTTGAAA-AACTT-TTCTAACCAAAGGC
1 TATGAGAC-TTGAAATAA-TTCCTCTAACCAGAGGC
* *
10726016 TATAAGACTTTAAATAATTCCTCTAACCAGAGGC
1 TATGAGACTTGAAATAATTCCTCTAACCAGAGGC
*
10726050 TATGATACTTGAAATAA
1 TATGAGACTTGAAATAA
10726067 AAAATCTAGG
Statistics
Matches: 95, Mismatches: 15, Indels: 16
0.75 0.12 0.13
Matches are distributed among these distances:
32 1 0.01
33 32 0.34
34 60 0.63
35 2 0.02
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.29
Consensus pattern (34 bp):
TATGAGACTTGAAATAATTCCTCTAACCAGAGGC
Found at i:10726238 original size:33 final size:32
Alignment explanation
Indices: 10726201--10726317 Score: 90
Period size: 33 Copynumber: 3.5 Consensus size: 32
10726191 AACAAAATCT
*
10726201 TCTAACCAAAGGCAATGAAACTTTAAAACCTCC
1 TCTAACCAAAGGCAA-GAAACTTTAAAAACTCC
* * * *
10726234 TCTAATCAGAGGCTACAATACTTTAAAAACTCC
1 TCTAACCAAAGGCAAGAA-ACTTTAAAAACTCC
* * * *
10726267 TTTAACTAGAGGCTACGAGAAACTTTAAAAGATTCC
1 TCTAACCAAAGGC-A--AGAAACTTTAAAA-ACTCC
*
10726303 TCTAACCAAATGCAA
1 TCTAACCAAAGGCAA
10726318 TGAGATTTGA
Statistics
Matches: 64, Mismatches: 15, Indels: 10
0.72 0.17 0.11
Matches are distributed among these distances:
32 2 0.03
33 36 0.56
35 10 0.16
36 16 0.25
ACGTcount: A:0.41, C:0.23, G:0.11, T:0.25
Consensus pattern (32 bp):
TCTAACCAAAGGCAAGAAACTTTAAAAACTCC
Found at i:10737772 original size:39 final size:39
Alignment explanation
Indices: 10737728--10737804 Score: 145
Period size: 39 Copynumber: 2.0 Consensus size: 39
10737718 CCTCTAAGAG
*
10737728 ATCAAATTTTTATTGCACTTTTATATTCTTAGAATGTTT
1 ATCAAATTTTTATTGCACTTTTATATTCTCAGAATGTTT
10737767 ATCAAATTTTTATTGCACTTTTATATTCTCAGAATGTT
1 ATCAAATTTTTATTGCACTTTTATATTCTCAGAATGTT
10737805 CGAATGCACT
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:0.29, C:0.12, G:0.08, T:0.52
Consensus pattern (39 bp):
ATCAAATTTTTATTGCACTTTTATATTCTCAGAATGTTT
Found at i:10742737 original size:15 final size:16
Alignment explanation
Indices: 10742705--10742738 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
10742695 CTAAACCTAT
*
10742705 TTTTTATTTTATTCTA
1 TTTTTATTTTACTCTA
10742721 TTTTTATTTTACT-TA
1 TTTTTATTTTACTCTA
10742736 TTT
1 TTT
10742739 CTAAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTATTTTACTCTA
Found at i:10743704 original size:26 final size:26
Alignment explanation
Indices: 10743665--10743720 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
10743655 AGGAAGAAAG
10743665 AAATAAAATAAAAAATTAATAAATAA
1 AAATAAAATAAAAAATTAATAAATAA
10743691 AAATAAAAGT-AAAAATTAATAAATAA
1 AAATAAAA-TAAAAAATTAATAAATAA
10743717 AAAT
1 AAAT
10743721 TTAAAAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
26 28 0.97
27 1 0.03
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (26 bp):
AAATAAAATAAAAAATTAATAAATAA
Found at i:10743724 original size:15 final size:14
Alignment explanation
Indices: 10743670--10743721 Score: 72
Period size: 14 Copynumber: 3.8 Consensus size: 14
10743660 GAAAGAAATA
10743670 AAATAAAAAATTAAT
1 AAAT-AAAAATTAAT
10743685 AAATAAAAA-TAA-
1 AAATAAAAATTAAT
*
10743697 AAGTAAAAATTAAT
1 AAATAAAAATTAAT
10743711 AAATAAAAATT
1 AAATAAAAATT
10743722 TAAAAGTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
12 8 0.24
13 6 0.18
14 15 0.45
15 4 0.12
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (14 bp):
AAATAAAAATTAAT
Found at i:10745029 original size:7 final size:7
Alignment explanation
Indices: 10745017--10745045 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
10745007 AATTCTAATC
10745017 ATTTTAA
1 ATTTTAA
10745024 ATTTTAA
1 ATTTTAA
10745031 ATTTTAA
1 ATTTTAA
10745038 ATTTTAA
1 ATTTTAA
10745045 A
1 A
10745046 ATGACATCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (7 bp):
ATTTTAA
Found at i:10749687 original size:20 final size:19
Alignment explanation
Indices: 10749664--10749702 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
10749654 ATAACTATAA
10749664 AATACATATTTTTTTAAATT
1 AATACA-ATTTTTTTAAATT
*
10749684 AATATAATTTTTTTAAATT
1 AATACAATTTTTTTAAATT
10749703 TTAAATCGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (19 bp):
AATACAATTTTTTTAAATT
Found at i:10749905 original size:2 final size:2
Alignment explanation
Indices: 10749898--10749925 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
10749888 TCAAGGATGG
10749898 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10749926 CGATATTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10751090 original size:11 final size:11
Alignment explanation
Indices: 10751074--10751135 Score: 61
Period size: 12 Copynumber: 5.4 Consensus size: 11
10751064 TTTTTTAATA
10751074 TAAATATAAAT
1 TAAATATAAAT
*
10751085 TAAATATATAT
1 TAAATATAAAT
* *
10751096 AAAATATATAAA
1 TAAATATA-AAT
10751108 TAAATATAAAAT
1 TAAATAT-AAAT
*
10751120 TAAATAAATAAT
1 TAAATATA-AAT
10751132 TAAA
1 TAAA
10751136 AAATATTTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
11 18 0.44
12 22 0.54
13 1 0.02
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
TAAATATAAAT
Found at i:10751104 original size:13 final size:12
Alignment explanation
Indices: 10751073--10751135 Score: 60
Period size: 11 Copynumber: 5.4 Consensus size: 12
10751063 TTTTTTTAAT
10751073 ATAAATATA-AA
1 ATAAATATATAA
* *
10751084 TTAAATATATAT
1 ATAAATATATAA
10751096 A-AAATATATAA
1 ATAAATATATAA
10751107 ATAAATATA-AA
1 ATAAATATATAA
*
10751118 ATTAAATAAATAA
1 A-TAAATATATAA
*
10751131 TTAAA
1 ATAAA
10751136 AAATATTTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
11 21 0.50
12 19 0.45
13 2 0.05
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
ATAAATATATAA
Found at i:10751107 original size:19 final size:18
Alignment explanation
Indices: 10751069--10751136 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 18
10751059 ATTATTTTTT
10751069 TAATATAAATATAAATTAAA
1 TAATATAAA-ATAAA-TAAA
*
10751089 TATATATAAAATATATAAA
1 TA-ATATAAAATAAATAAA
10751108 TAAATATAAAATTAAATAAA
1 T-AATATAAAA-TAAATAAA
10751128 TAAT-TAAAA
1 TAATATAAAA
10751137 AATATTTTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
18 5 0.12
19 16 0.37
20 15 0.35
21 7 0.16
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
TAATATAAAATAAATAAA
Found at i:10754255 original size:2 final size:2
Alignment explanation
Indices: 10754248--10754280 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
10754238 AAACGAGAAA
10754248 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
10754281 GTTTAATTAG
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:10758695 original size:2 final size:2
Alignment explanation
Indices: 10758688--10758716 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
10758678 TAAATTCATT
10758688 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10758717 TACGTTACGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10759280 original size:19 final size:19
Alignment explanation
Indices: 10759225--10759280 Score: 51
Period size: 19 Copynumber: 2.8 Consensus size: 19
10759215 AATTTTTTTT
*
10759225 TAAAAATATATAAT-TTAAA
1 TAAAAAT-TATAATCATAAA
*
10759244 TAATAAATTTTAATATCATAAA
1 TAA-AAATTAT-A-ATCATAAA
10759266 TAAAAATTATAATCA
1 TAAAAATTATAATCA
10759281 CATAAGTCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
19 9 0.30
20 6 0.20
21 8 0.27
22 7 0.23
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.38
Consensus pattern (19 bp):
TAAAAATTATAATCATAAA
Found at i:10761239 original size:20 final size:21
Alignment explanation
Indices: 10761202--10761241 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
10761192 GTTAGTAGTA
* *
10761202 AAAAATTTTCATATATTTTAG
1 AAAAAGTTTCATAAATTTTAG
10761223 AAAAAGTTT-ATAAATTTTA
1 AAAAAGTTTCATAAATTTTA
10761242 TTTTCTAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (21 bp):
AAAAAGTTTCATAAATTTTAG
Found at i:10763378 original size:37 final size:36
Alignment explanation
Indices: 10763277--10763378 Score: 118
Period size: 34 Copynumber: 2.9 Consensus size: 36
10763267 TTGAAAGTAG
* *
10763277 AGGATGTTTTTGTTTAGGAACAATGGACATGGTTGT
1 AGGATTTTTTTGTTTAGGAACAATGGACATGCTTGT
* * *
10763313 AGGA-TGTTTTG-TTAGGAAAAATGAACATGCTTGT
1 AGGATTTTTTTGTTTAGGAACAATGGACATGCTTGT
* *
10763347 TGGATTTTTTTGGTTTAGTAACAATGGACATG
1 AGGATTTTTTT-GTTTAGGAACAATGGACATG
10763379 GGTCTAACTT
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
34 23 0.43
35 10 0.19
36 5 0.09
37 15 0.28
ACGTcount: A:0.27, C:0.06, G:0.27, T:0.39
Consensus pattern (36 bp):
AGGATTTTTTTGTTTAGGAACAATGGACATGCTTGT
Found at i:10766103 original size:25 final size:29
Alignment explanation
Indices: 10766042--10766107 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 29
10766032 AGATTGTTCT
* *
10766042 TATTTTATTTGTCTTTTTCTCAATGTTCT
1 TATTTTATTTGTCTTTTTCTCAATGTCCA
10766071 TATTTTATTTGTCTTTTT-TC-AT-TCCA
1 TATTTTATTTGTCTTTTTCTCAATGTCCA
10766097 TA-TTTATTTGT
1 TATTTTATTTGT
10766108 ATAGATAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
25 9 0.26
26 4 0.11
27 2 0.06
28 2 0.06
29 18 0.51
ACGTcount: A:0.15, C:0.12, G:0.06, T:0.67
Consensus pattern (29 bp):
TATTTTATTTGTCTTTTTCTCAATGTCCA
Found at i:10772411 original size:31 final size:29
Alignment explanation
Indices: 10772370--10772429 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 29
10772360 TGAAAAATAG
* *
10772370 ATAGTAAGAAAACATTTGATTAGATCAAGAA
1 ATAGCAAGAAAACATTT-A-TAGAGCAAGAA
10772401 ATAGCAAGAAAACATTTATAGAGCAAGAA
1 ATAGCAAGAAAACATTTATAGAGCAAGAA
10772430 TAAAAAACCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 10 0.37
30 1 0.04
31 16 0.59
ACGTcount: A:0.53, C:0.08, G:0.17, T:0.22
Consensus pattern (29 bp):
ATAGCAAGAAAACATTTATAGAGCAAGAA
Found at i:10773363 original size:268 final size:268
Alignment explanation
Indices: 10772852--10773360 Score: 624
Period size: 268 Copynumber: 1.9 Consensus size: 268
10772842 CTACATTTCT
* **
10772852 ATAACAAGAAATATAGTTATTGATATTGAGAAAATTTTACATTTATCAAACACTATGTCTTTGAC
1 ATAACAAGAAATATAGTTATTGATAATGAGAAAATTTTACATTTATCAAACACTACATCTTTGAC
*
10772917 ATAAAAAATATAGTTAAAAATATCTTAAATATTCTATTATAAATATTATATCTATTACTACATTT
66 ATAAAAAACATAGTTAAAAATATCTTAAATATTCTATTATAAATATTATATCTATTACTACATTT
* * ** * *
10772982 CCATATCAAGAAACATTGTTGATATTGAAAATATTAAATTTATTTTGTTATTTTTTTAAATAATC
131 CCAAATCAAAAAACATCCTTAATATTGAAAATATTAAATTTATTTTGTTATTTATTTAAATAATC
* * * *
10773047 AACTACATTTTATATGTATAAAGCGTAATGCTTATAAAAATAAAAAATTATGGTTTATCAATTGT
196 AACTACATTTCATATGTAAAAAGCGTAATACTTATAAAAAAAAAAAATTATGGTTTATCAATTGT
10773112 TACATGCC
261 TACATGCC
* * * * *
10773120 ATAATAAGAAATGTAGTTATTGATAAAT-AGAAAATTTT-CTATTTATCAAATACTACATTTTTT
1 ATAACAAGAAATATAGTTATTGAT-AATGAGAAAATTTTAC-ATTTATCAAACACTACATCTTTG
* * **
10773183 ACATAAAAAACGTAGTTAAAAGTATCATT-AATATTCTATTAT-AATATTATATCTATTGTTACA
64 ACATAAAAAACATAGTTAAAAATATC-TTAAATATTCTATTATAAATATTATATCTATTACTACA
* *
10773246 TTTTCAAA-CTAAAAAATATCCTTAATATTGAAAATATCT-AA-TT-TTTTGTTA-TTATTTAAA
128 TTTCCAAATC-AAAAAACATCCTTAATATTGAAAATAT-TAAATTTATTTTGTTATTTATTTAAA
* *
10773306 TTAATCAACTACGTTTCATATGTAAAAAG-GTATAGTACTTTTGAAAAAAAAAAAA
191 -TAATCAACTACATTTCATATGTAAAAAGCGTA-A-TACTTAT-AAAAAAAAAAAA
10773361 ATTCAAAATC
Statistics
Matches: 205, Mismatches: 27, Indels: 19
0.82 0.11 0.08
Matches are distributed among these distances:
264 11 0.05
265 34 0.17
266 8 0.04
267 61 0.30
268 87 0.42
269 4 0.02
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.40
Consensus pattern (268 bp):
ATAACAAGAAATATAGTTATTGATAATGAGAAAATTTTACATTTATCAAACACTACATCTTTGAC
ATAAAAAACATAGTTAAAAATATCTTAAATATTCTATTATAAATATTATATCTATTACTACATTT
CCAAATCAAAAAACATCCTTAATATTGAAAATATTAAATTTATTTTGTTATTTATTTAAATAATC
AACTACATTTCATATGTAAAAAGCGTAATACTTATAAAAAAAAAAAATTATGGTTTATCAATTGT
TACATGCC
Found at i:10774115 original size:21 final size:21
Alignment explanation
Indices: 10774089--10774134 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
10774079 GCTTGAACAT
10774089 AATTAAAGAAACTTAAAATAG
1 AATTAAAGAAACTTAAAATAG
* *
10774110 AATTAAAGAAACTTGAAATTG
1 AATTAAAGAAACTTAAAATAG
10774131 AATT
1 AATT
10774135 CAAATTTAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.57, C:0.04, G:0.11, T:0.28
Consensus pattern (21 bp):
AATTAAAGAAACTTAAAATAG
Found at i:10776781 original size:27 final size:27
Alignment explanation
Indices: 10776718--10776781 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
10776708 AGAAAAGATA
* * *
10776718 TACTAGTTGTAGAGAATTACAAATTGAT
1 TACTACTT-TAGAGAATTACAAACTAAT
*
10776746 TACTGCTTTAGAGAATTACAAACTAAT
1 TACTACTTTAGAGAATTACAAACTAAT
*
10776773 TGCTACTTT
1 TACTACTTT
10776782 TTGTATAGTC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
27 24 0.80
28 6 0.20
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (27 bp):
TACTACTTTAGAGAATTACAAACTAAT
Found at i:10782214 original size:81 final size:78
Alignment explanation
Indices: 10782059--10782217 Score: 221
Period size: 81 Copynumber: 2.0 Consensus size: 78
10782049 ATATTTTAAA
* * *
10782059 ATTGTTATTTTAAATTTTTTATTATAAATATTAATAAATTATTTAATTTTTAAACAAGAATTGTA
1 ATTGTCATTTTAAATTTTTTATTATAAATATTAATAAATTATTTAATTTGTAAACAAGAATTATA
10782124 ATTGCATTGAATG
66 ATTGCATTGAATG
* *
10782137 ATTGTCATTTTAAATATTTTTATTATAAATATTAACATAATTTATTTAATTTGTAAATAAGAATT
1 ATTGTCATTTTAAAT-TTTTTATTATAAATATT-A-ATAAATTATTTAATTTGTAAACAAGAATT
*
10782202 ATTATT-CTATTGAATG
63 ATAATTGC-ATTGAATG
10782218 GCTTTTATTA
Statistics
Matches: 71, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
78 14 0.20
79 17 0.24
80 2 0.03
81 38 0.54
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.50
Consensus pattern (78 bp):
ATTGTCATTTTAAATTTTTTATTATAAATATTAATAAATTATTTAATTTGTAAACAAGAATTATA
ATTGCATTGAATG
Found at i:10782236 original size:79 final size:78
Alignment explanation
Indices: 10782059--10782237 Score: 195
Period size: 81 Copynumber: 2.3 Consensus size: 78
10782049 ATATTTTAAA
* * *
10782059 ATTGTTATTTTAAA-TTTTTTATTATAAATATTAATAAATTATTTAATTTTTAAACAAGAATTGT
1 ATTG-TATATTAAATTTTTTTATTATAAATATTAATAAATTATTTAATTTGTAAACAAGAATTAT
10782123 AATTGCATTGAATG
65 AATTGCATTGAATG
* * * *
10782137 ATTGTCATTTTAAATATTTTTATTATAAATATTAACATAATTTATTTAATTTGTAAATAAGAATT
1 ATTGT-ATATTAAATTTTTTTATTATAAATATT-A-ATAAATTATTTAATTTGTAAACAAGAATT
*
10782202 ATTATT-CTATTGAATGG
63 ATAATTGC-ATTGAAT-G
*
10782219 CTT-T-TATTAAATTTTTTTA
1 ATTGTATATTAAATTTTTTTA
10782238 AAATTCTAAA
Statistics
Matches: 86, Mismatches: 9, Indels: 11
0.81 0.08 0.10
Matches are distributed among these distances:
77 1 0.01
78 12 0.14
79 30 0.35
80 2 0.02
81 38 0.44
82 3 0.03
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.52
Consensus pattern (78 bp):
ATTGTATATTAAATTTTTTTATTATAAATATTAATAAATTATTTAATTTGTAAACAAGAATTATA
ATTGCATTGAATG
Found at i:10785348 original size:7 final size:7
Alignment explanation
Indices: 10785319--10785449 Score: 67
Period size: 7 Copynumber: 19.3 Consensus size: 7
10785309 TTCTCCGTAC
10785319 AAACCCT
1 AAACCCT
*
10785326 AAA-CCA
1 AAACCCT
*
10785332 AAAACC-
1 AAACCCT
*
10785338 AAACTCT
1 AAACCCT
10785345 AAACCCT
1 AAACCCT
* **
10785352 AAATCAA
1 AAACCCT
*
10785359 AAACCGT
1 AAACCCT
*
10785366 AAA-CTT
1 AAACCCT
10785372 AAACCCT
1 AAACCCT
*
10785379 AAATCCT
1 AAACCCT
*
10785386 AAACCTT
1 AAACCCT
*
10785393 AAACCTT
1 AAACCCT
* *
10785400 AAACTCA
1 AAACCCT
*
10785407 AAACCCC
1 AAACCCT
10785414 AAACCCTT
1 AAACCC-T
10785422 AAA--CT
1 AAACCCT
*
10785427 AAACCAT
1 AAACCCT
10785434 AAA-CCT
1 AAACCCT
10785440 AAAACCCT
1 -AAACCCT
10785448 AA
1 AA
10785450 CATAAACCCA
Statistics
Matches: 93, Mismatches: 23, Indels: 16
0.70 0.17 0.12
Matches are distributed among these distances:
5 4 0.04
6 17 0.18
7 66 0.71
8 6 0.06
ACGTcount: A:0.50, C:0.32, G:0.01, T:0.17
Consensus pattern (7 bp):
AAACCCT
Found at i:10785359 original size:26 final size:26
Alignment explanation
Indices: 10785319--10785383 Score: 96
Period size: 26 Copynumber: 2.5 Consensus size: 26
10785309 TTCTCCGTAC
*
10785319 AAACCCTAAACCAAAAACC-AAACTCT
1 AAACCCTAAATCAAAAACCGAAACT-T
10785345 AAACCCTAAATCAAAAACCGTAAACTT
1 AAACCCTAAATCAAAAACCG-AAACTT
10785372 AAACCCTAAATC
1 AAACCCTAAATC
10785384 CTAAACCTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
26 18 0.50
27 13 0.36
28 5 0.14
ACGTcount: A:0.52, C:0.31, G:0.02, T:0.15
Consensus pattern (26 bp):
AAACCCTAAATCAAAAACCGAAACTT
Found at i:10785374 original size:27 final size:26
Alignment explanation
Indices: 10785319--10785403 Score: 100
Period size: 27 Copynumber: 3.2 Consensus size: 26
10785309 TTCTCCGTAC
*
10785319 AAACCCTAAACCAAAAACC-AAACTCT
1 AAACCCTAAATCAAAAACCTAAACT-T
10785345 AAACCCTAAATCAAAAACCGTAAACTT
1 AAACCCTAAATCAAAAACC-TAAACTT
**
10785372 AAACCCTAAATCCTAAACCTTAAACCTT
1 AAACCCTAAATCAAAAACC-TAAA-CTT
10785400 AAAC
1 AAAC
10785404 TCAAAACCCC
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
26 18 0.35
27 22 0.42
28 12 0.23
ACGTcount: A:0.51, C:0.31, G:0.01, T:0.18
Consensus pattern (26 bp):
AAACCCTAAATCAAAAACCTAAACTT
Found at i:10787923 original size:2 final size:2
Alignment explanation
Indices: 10787916--10787951 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
10787906 TGAGGCATCT
10787916 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10787952 AGCCATTATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10792508 original size:126 final size:125
Alignment explanation
Indices: 10792332--10792869 Score: 495
Period size: 126 Copynumber: 4.3 Consensus size: 125
10792322 CCAAAATGTT
* * * *
10792332 TTCAATAATT-CCTTCATAAATTCTTATAAGGTGATTACTCAAGGTA-TTTTTGGCAAAAAACAC
1 TTCAATAATTCCCTTCATAAATTTTTATGACGTGATTACTCAA-GTAGTTTTTGGC-AAAAATAC
* * *
10792395 CTTGAATAATTCTGAAAAAAAAATTTAATGGGGTTATTAAAGGTATTTTTAGCTAAAAACACA
64 CTTGAATAA-TCTGAAAAAAAAATTTAATGGGGTTATTGAAGGTATTTCTAGCCAAAAACACA
* * * *
10792458 TTCAAT-ATTCCCTTCATAAATTTTTATGAGGTAATTACTCAA-TACGTTTTTGACTAAAAATGC
1 TTCAATAATTCCCTTCATAAATTTTTATGACGTGATTACTCAAGTA-GTTTTTGGC-AAAAATAC
* * **
10792521 CTTGAATAATCTTGAAAAAAAATTTTAATGGGGTTGTTGAAGGCGTTTCTAGCCAAAAAC-CA
64 CTTGAATAATC-TGAAAAAAAAATTTAATGGGGTTATTGAAGGTATTTCTAGCCAAAAACACA
* * * *
10792583 CTTCAATAATCCCCTT-ATAAATTTTTATGACGTGACTACTTAA-TGAGTTTTTCGTCAAAAATA
1 -TTCAATAATTCCCTTCATAAATTTTTATGACGTGATTACTCAAGT-AGTTTTT-GGCAAAAATA
* * ** * * *
10792646 CCTTGAATAATCTCAAAAAAAAATATTGAATGAGGTTATTGAAGGGGTTTCTAACCAAAAATACC
63 CCTTGAATAATCTGAAAAAAAAAT-TT-AATGGGGTTATTGAAGGTATTTCTAGCCAAAAACACA
* * * * * *
10792711 TTCAATAATTCAC-TCATAAATTTTTATAACATGTTTACTCAAGGTATTTTTTTGCCAAAAATAC
1 TTCAATAATTCCCTTCATAAATTTTTATGACGTGATTACTCAA-GTA-GTTTTTGGCAAAAATAC
* * * * * *
10792775 TTTGAATAA-CTAAAAAAAATATATTTTAATGGTGTTATTGAAGGTATTTTTAGTCAAAAACTTC
64 CTTGAATAATCTGAAAAAAA-A-A-TTTAATGGGGTTATTGAAGGTATTTCTAGCCAAAAAC-AC
10792839 -
125 A
*
10792839 TTCAATAATT-CCTTCATATATTTTTATGACG
1 TTCAATAATTCCCTTCATAAATTTTTATGACG
10792870 CCTTCAATAT
Statistics
Matches: 339, Mismatches: 53, Indels: 38
0.79 0.12 0.09
Matches are distributed among these distances:
124 2 0.01
125 17 0.05
126 155 0.46
127 82 0.24
128 72 0.21
129 10 0.03
130 1 0.00
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.37
Consensus pattern (125 bp):
TTCAATAATTCCCTTCATAAATTTTTATGACGTGATTACTCAAGTAGTTTTTGGCAAAAATACCT
TGAATAATCTGAAAAAAAAATTTAATGGGGTTATTGAAGGTATTTCTAGCCAAAAACACA
Found at i:10792833 original size:128 final size:125
Alignment explanation
Indices: 10792195--10792865 Score: 478
Period size: 126 Copynumber: 5.4 Consensus size: 125
10792185 ATCGATTTTG
** * * *
10792195 ATTTCTAGCCAAAAACGCCTTCAATAA-TCC-TCTTATAATTTTTATAAGGTGATTACTCAAGGC
1 ATTTCTAGCCAAAAATACCTTCAATAATTCCTTCATA-AATTTTTATAACGTGATTACTCAAGGT
* * * ***** * * *
10792258 ATTTTTT------AATGCCTTGAATAGTCATGAAAATTTTTTTTAATAGGATTATTGAAGGC
65 ATTTTTTGCCAAAAATACCTTGAATAATC-TAAAAAAAAAATTTAATGGGGTTATTGAAGGT
* * *** * *
10792314 GTTTCTGGCC-AAAATGTTTTCAATAATTCCTTCATAAATTCTTATAAGGTGATTACTCAAGGTA
1 ATTTCTAGCCAAAAATACCTTCAATAATTCCTTCATAAATTTTTATAACGTGATTACTCAAGGTA
* * * * *
10792378 TTTTTGGCAAAAAACACCTTGAATAATTCTGAAAAAAAAATTTAATGGGGTTATTAAAGGT
66 TTTTTTGCCAAAAATACCTTGAATAA-TCTAAAAAAAAAATTTAATGGGGTTATTGAAGGT
* * * * * * *
10792439 ATTTTTAGCTAAAAACACATTCAAT-ATTCCCTTCATAAATTTTTATGAGGTAATTACTCAA--T
1 ATTTCTAGCCAAAAATACCTTCAATAATT-CCTTCATAAATTTTTATAACGTGATTACTCAAGGT
* * * * * * *
10792501 ACGTTTTTGACTAAAAATGCCTTGAATAATCTTGAAAAAAAATTTTAATGGGGTTGTTGAAGGC
65 A-TTTTTTG-CCAAAAATACCTTGAATAATC-TAAAAAAAAAATTTAATGGGGTTATTGAAGGT
* * * * * * *
10792565 GTTTCTAGCCAAAAA-CCACTTCAATAATCCCCTT-ATAAATTTTTATGACGTGACTACTTAATG
1 ATTTCTAGCCAAAAATAC-CTTCAATAAT-TCCTTCATAAATTTTTATAACGTGATTACTCAAGG
* * * * *
10792628 -AGTTTTTCGTCAAAAATACCTTGAATAATCTCAAAAAAAAATATTGAATGAGGTTATTGAAGGG
64 TA-TTTTTTGCCAAAAATACCTTGAATAATCT-AAAAAAAAA-ATTTAATGGGGTTATTGAAGGT
* * * *
10792692 GTTTCTAACCAAAAATACCTTCAATAATTCAC-TCATAAATTTTTATAACATGTTTACTCAAGGT
1 ATTTCTAGCCAAAAATACCTTCAATAATTC-CTTCATAAATTTTTATAACGTGATTACTCAAGGT
* *
10792756 ATTTTTTTGCCAAAAATACTTTGAATAA-CTAAAAAAAATATATTTTAATGGTGTTATTGAAGGT
65 A-TTTTTTGCCAAAAATACCTTGAATAATCTAAAAAAAA-A-A-TTTAATGGGGTTATTGAAGGT
* * * *
10792820 ATTTTTAGTCAAAAACT-TCTTCAATAATTCCTTCATATATTTTTAT
1 ATTTCTAGCCAAAAA-TACCTTCAATAATTCCTTCATAAATTTTTAT
10792866 GACGCCTTCA
Statistics
Matches: 437, Mismatches: 86, Indels: 49
0.76 0.15 0.09
Matches are distributed among these distances:
118 13 0.03
119 42 0.10
120 4 0.01
124 2 0.00
125 52 0.12
126 162 0.37
127 83 0.19
128 78 0.18
129 1 0.00
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (125 bp):
ATTTCTAGCCAAAAATACCTTCAATAATTCCTTCATAAATTTTTATAACGTGATTACTCAAGGTA
TTTTTTGCCAAAAATACCTTGAATAATCTAAAAAAAAAATTTAATGGGGTTATTGAAGGT
Found at i:10794283 original size:23 final size:22
Alignment explanation
Indices: 10794236--10794285 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
10794226 TCCACCATTA
*
10794236 AAAACTAAGTTGGAGGTTTGGC
1 AAAACCAAGTTGGAGGTTTGGC
10794258 AAAACCAAGTTGGAGGTTTGGC
1 AAAACCAAGTTGGAGGTTTGGC
*
10794280 CAAACC
1 AAAACC
10794286 TCATAGACCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.22
Consensus pattern (22 bp):
AAAACCAAGTTGGAGGTTTGGC
Found at i:10795002 original size:18 final size:17
Alignment explanation
Indices: 10794975--10795009 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
10794965 ACATGCCCAT
10794975 TTCTATGAAAACCTAAA
1 TTCTATGAAAACCTAAA
*
10794992 TTCTCATGAAACCCTAAA
1 TTCT-ATGAAAACCTAAA
10795010 CTTTAAACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.43, C:0.23, G:0.06, T:0.29
Consensus pattern (17 bp):
TTCTATGAAAACCTAAA
Found at i:10795074 original size:35 final size:35
Alignment explanation
Indices: 10795000--10795074 Score: 80
Period size: 35 Copynumber: 2.1 Consensus size: 35
10794990 AATTCTCATG
* * * *
10795000 AAACCCTAAACTTTAAACCTTAAATCATAAACTCT
1 AAACCCTAAACCTTAAACCTTAAAACACAAACTCC
* *
10795035 AAACCCTAGACCTTAAACCTTAAAACCCAAA-TCCC
1 AAACCCTAAACCTTAAACCTTAAAACACAAACT-CC
10795070 AAACC
1 AAACC
10795075 AAACCCTAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
34 1 0.03
35 32 0.97
ACGTcount: A:0.45, C:0.32, G:0.01, T:0.21
Consensus pattern (35 bp):
AAACCCTAAACCTTAAACCTTAAAACACAAACTCC
Found at i:10795118 original size:19 final size:19
Alignment explanation
Indices: 10795057--10795103 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
10795047 TTAAACCTTA
*
10795057 AAACCC-AAATCCCAAACC
1 AAACCCTAAATCCCAAACT
10795075 AAACCCTAAATCCCAAACT
1 AAACCCTAAATCCCAAACT
10795094 AAACCCTAAA
1 AAACCCTAAA
10795104 CCCTAACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
18 6 0.22
19 21 0.78
ACGTcount: A:0.51, C:0.38, G:0.00, T:0.11
Consensus pattern (19 bp):
AAACCCTAAATCCCAAACT
Found at i:10796813 original size:17 final size:16
Alignment explanation
Indices: 10796778--10796826 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
10796768 AAATGACAAC
* *
10796778 AAAGAAAAACAAAGCA
1 AAAGAAAAAAAAAACA
10796794 AAAGAAAAAAAAAACGA
1 AAAGAAAAAAAAAAC-A
10796811 AAAGAGAAAGAAAAAA
1 AAAGA-AAA-AAAAAA
10796827 AACAACAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 13 0.46
17 6 0.21
18 3 0.11
19 6 0.21
ACGTcount: A:0.80, C:0.06, G:0.14, T:0.00
Consensus pattern (16 bp):
AAAGAAAAAAAAAACA
Found at i:10812452 original size:24 final size:25
Alignment explanation
Indices: 10812425--10812472 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
10812415 ACTTTGTCAT
10812425 TCATGTTATATTAT-CATGCATTTA
1 TCATGTTATATTATACATGCATTTA
* *
10812449 TCATGTTATTTTGTACATGCATTT
1 TCATGTTATATTATACATGCATTT
10812473 TATGCATATG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.25, C:0.12, G:0.10, T:0.52
Consensus pattern (25 bp):
TCATGTTATATTATACATGCATTTA
Found at i:10813639 original size:2 final size:2
Alignment explanation
Indices: 10813632--10813661 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
10813622 TGAGGCATCT
10813632 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10813662 AAAGACATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10817825 original size:50 final size:50
Alignment explanation
Indices: 10817765--10817918 Score: 142
Period size: 50 Copynumber: 3.1 Consensus size: 50
10817755 AAATGAGATG
* *
10817765 TTTAAAGTTTCTCTACCTCTTTTTAAAGAAGA-TTC-TCAAAATTGATCAAT
1 TTTAAAGTTTC-CTACCTATTTTTAAAGAAGAGCTCTTCAAAATTGAT-AAT
**
10817815 TTTAAAGTTTCCTTACCTATTTTT-AA-AAGAGCTCTTCAAAATTGATTGT
1 TTTAAAGTTTCC-TACCTATTTTTAAAGAAGAGCTCTTCAAAATTGATAAT
* * **
10817864 TTTCAAAGTTTCCCTACCAATTTTTAAAG--GAGCTTTTCAATTTTGA-AAT
1 TTT-AAAGTTT-CCTACCTATTTTTAAAGAAGAGCTCTTCAAAATTGATAAT
10817913 TTTAAA
1 TTTAAA
10817919 ATTCCCTAAC
Statistics
Matches: 87, Mismatches: 10, Indels: 16
0.77 0.09 0.14
Matches are distributed among these distances:
48 7 0.08
49 13 0.15
50 63 0.72
51 4 0.05
ACGTcount: A:0.32, C:0.15, G:0.09, T:0.44
Consensus pattern (50 bp):
TTTAAAGTTTCCTACCTATTTTTAAAGAAGAGCTCTTCAAAATTGATAAT
Found at i:10818038 original size:49 final size:49
Alignment explanation
Indices: 10817958--10818145 Score: 150
Period size: 49 Copynumber: 3.8 Consensus size: 49
10817948 GCTCTCAGGT
* * *
10817958 TCTTTCTA-AAAAAGCTTTTCAAAAATT-AGATTTTTAAAGTTTCCTAACC
1 TCTTTTTAGAAAAA-CTTTTC-AAAATTAAGATTTTTAAAGTTTCATAGCC
* * * *
10818007 TTTTTTTAGAAAAACTTTTCAAATTTGAGATTTTTCAAA-TTTCTTAGCC
1 TCTTTTTAGAAAAACTTTTCAAAATTAAGATTTTT-AAAGTTTCATAGCC
* * * * *
10818056 TCTTTTTATAAGAGCTTTCCAAAATTAACG-TTTTTAAAATTTCATAGCC
1 TCTTTTTAGAAAAACTTTTCAAAATTAA-GATTTTTAAAGTTTCATAGCC
* * ** * *
10818105 TCTATTTAGAAGAGGTTTTCAAATTTAAGGTTTTTAAAGTT
1 TCTTTTTAGAAAAACTTTTCAAAATTAAGATTTTTAAAGTT
10818146 ATGAACCCGC
Statistics
Matches: 114, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
48 9 0.08
49 96 0.84
50 9 0.08
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.45
Consensus pattern (49 bp):
TCTTTTTAGAAAAACTTTTCAAAATTAAGATTTTTAAAGTTTCATAGCC
Found at i:10818266 original size:53 final size:53
Alignment explanation
Indices: 10818173--10818276 Score: 138
Period size: 53 Copynumber: 2.0 Consensus size: 53
10818163 AGGGGTTTTT
* ** *
10818173 CCAAAGTTAAGATCATTTTTAAAGTTTTGAAGCTTCTGTTTAAAAAAGTTTGC
1 CCAAAGTTAAAATCATTTTTAAAGTTTAAAACCTTCTGTTTAAAAAAGTTTGC
* *
10818226 CCAAAGTTAAAATCATTTTTAAAGTTTCAAAACCTT-TGTTTAGAATAGTTT
1 CCAAAGTTAAAATCATTTTTAAAGTTT-AAAACCTTCTGTTTAAAAAAGTTT
10818277 TTAAAGTTCA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
53 39 0.89
54 5 0.11
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (53 bp):
CCAAAGTTAAAATCATTTTTAAAGTTTAAAACCTTCTGTTTAAAAAAGTTTGC
Found at i:10820685 original size:20 final size:20
Alignment explanation
Indices: 10820660--10820823 Score: 97
Period size: 20 Copynumber: 8.2 Consensus size: 20
10820650 CAATCATAAG
* *
10820660 TAAACCCTAAACCTTGAA-CC
1 TAAACCTTAAACC-TAAACCC
*
10820680 TAAACCTTTAACCCTAAACCC
1 TAAACC-TTAAACCTAAACCC
*
10820701 TAAACTTTAAACCTAAACTCC
1 TAAACCTTAAACCTAAAC-CC
* *
10820722 -AAAGCTTAAACCCAAACCC
1 TAAACCTTAAACCTAAACCC
* *
10820741 TAAACCCTAAACCTAAACCT
1 TAAACCTTAAACCTAAACCC
*
10820761 TTAA-CTCTAAACCTTAAA-CC
1 TAAACCT-TAAACC-TAAACCC
* * * * *
10820781 TATA-CTCCATAGCTTAAATCC
1 TAAACCT-TA-AACCTAAACCC
10820802 -AAACCTTAAACCTAAACCC
1 TAAACCTTAAACCTAAACCC
10820821 TAA
1 TAA
10820824 CCTAGACCAT
Statistics
Matches: 109, Mismatches: 25, Indels: 20
0.71 0.16 0.13
Matches are distributed among these distances:
19 11 0.10
20 74 0.68
21 24 0.22
ACGTcount: A:0.42, C:0.33, G:0.02, T:0.23
Consensus pattern (20 bp):
TAAACCTTAAACCTAAACCC
Found at i:10820740 original size:6 final size:7
Alignment explanation
Indices: 10820660--10820780 Score: 90
Period size: 7 Copynumber: 17.9 Consensus size: 7
10820650 CAATCATAAG
10820660 TAAACCC
1 TAAACCC
*
10820667 TAAACCT
1 TAAACCC
*
10820674 TGAA-CC
1 TAAACCC
*
10820680 TAAACCT
1 TAAACCC
*
10820687 TTAACCC
1 TAAACCC
10820694 TAAACCC
1 TAAACCC
**
10820701 TAAACTT
1 TAAACCC
10820708 TAAA-CC
1 TAAACCC
10820714 TAAACTCC
1 TAAAC-CC
* *
10820722 -AAAGCT
1 TAAACCC
10820728 TAAACCC
1 TAAACCC
10820735 -AAACCC
1 TAAACCC
10820741 TAAACCC
1 TAAACCC
10820748 TAAA-CC
1 TAAACCC
*
10820754 TAAACCT
1 TAAACCC
* *
10820761 TTAACTC
1 TAAACCC
*
10820768 TAAACCT
1 TAAACCC
10820775 TAAACC
1 TAAACC
10820781 TATACTCCAT
Statistics
Matches: 85, Mismatches: 23, Indels: 12
0.71 0.19 0.10
Matches are distributed among these distances:
6 21 0.25
7 62 0.73
8 2 0.02
ACGTcount: A:0.42, C:0.34, G:0.02, T:0.22
Consensus pattern (7 bp):
TAAACCC
Found at i:10820759 original size:13 final size:13
Alignment explanation
Indices: 10820660--10820782 Score: 90
Period size: 13 Copynumber: 9.2 Consensus size: 13
10820650 CAATCATAAG
10820660 TAAACCCTAAACC
1 TAAACCCTAAACC
*
10820673 TTGAA-CCTAAACC
1 -TAAACCCTAAACC
*
10820686 TTTAACCCTAAACCC
1 -TAAACCCTAAA-CC
**
10820701 TAAACTTTAAACC
1 TAAACCCTAAACC
*
10820714 TAAACTCC-AAAGCT
1 TAAAC-CCTAAA-CC
10820728 TAAACCC-AAACCC
1 TAAACCCTAAA-CC
10820741 TAAACCCTAAACC
1 TAAACCCTAAACC
* *
10820754 TAAACCTTTAACTC
1 TAAACCCTAAAC-C
*
10820768 TAAACCTTAAACC
1 TAAACCCTAAACC
10820781 TA
1 TA
10820783 TACTCCATAG
Statistics
Matches: 90, Mismatches: 13, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
13 50 0.56
14 38 0.42
15 2 0.02
ACGTcount: A:0.42, C:0.33, G:0.02, T:0.23
Consensus pattern (13 bp):
TAAACCCTAAACC
Found at i:10820818 original size:13 final size:13
Alignment explanation
Indices: 10820660--10820819 Score: 78
Period size: 13 Copynumber: 11.9 Consensus size: 13
10820650 CAATCATAAG
10820660 TAAACCCTAAACCT
1 TAAA-CCTAAACCT
*
10820674 TGAACCTAAACCTT
1 TAAACCTAAACC-T
* *
10820688 TAACCCTAAACCC
1 TAAACCTAAACCT
*
10820701 TAAACTTTAAACC-
1 TAAAC-CTAAACCT
* *
10820714 TAAACTCCAAAGCT
1 TAAAC-CTAAACCT
* *
10820728 TAAACCCAAACCC
1 TAAACCTAAACCT
10820741 TAAACCCTAAACC-
1 TAAA-CCTAAACCT
*
10820754 TAAACCTTTAA-CT
1 TAAACC-TAAACCT
10820767 CTAAACCTTAAACC-
1 -TAAACC-TAAACCT
* * * *
10820781 TATACTCCATAGCT
1 TAAAC-CTAAACCT
10820795 TAAATCC-AAACCT
1 TAAA-CCTAAACCT
10820808 TAAACCTAAACC
1 TAAACCTAAACC
10820820 CTAACCTAGA
Statistics
Matches: 113, Mismatches: 21, Indels: 25
0.71 0.13 0.16
Matches are distributed among these distances:
12 5 0.04
13 59 0.52
14 47 0.42
15 2 0.02
ACGTcount: A:0.42, C:0.33, G:0.02, T:0.23
Consensus pattern (13 bp):
TAAACCTAAACCT
Found at i:10820823 original size:67 final size:67
Alignment explanation
Indices: 10820660--10820823 Score: 204
Period size: 67 Copynumber: 2.4 Consensus size: 67
10820650 CAATCATAAG
* * * *
10820660 TAAACCCTAAACCTTGAACCTAAACCTTTAACCCTAAACCCTAAACTTTAAACCTAAACTCCAAA
1 TAAACCC-AAACCTTAAACCTAAACCCTAAACCCTAAACCCTAAACCTTAAACCTAAACTCCAAA
10820725 GCT
65 GCT
* * * * * *
10820728 TAAACCCAAACCCTAAACCCTAAA-CCTAAACCTTTAACTCTAAACCTTAAACCTATACTCCATA
1 TAAACCCAAACCTTAAA-CCTAAACCCTAAACCCTAAACCCTAAACCTTAAACCTAAACTCCAAA
10820792 GCT
65 GCT
*
10820795 TAAATCCAAACCTTAAACCTAAACCCTAA
1 TAAACCCAAACCTTAAACCTAAACCCTAA
10820824 CCTAGACCAT
Statistics
Matches: 82, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
66 6 0.07
67 63 0.77
68 13 0.16
ACGTcount: A:0.42, C:0.33, G:0.02, T:0.23
Consensus pattern (67 bp):
TAAACCCAAACCTTAAACCTAAACCCTAAACCCTAAACCCTAAACCTTAAACCTAAACTCCAAAG
CT
Found at i:10821391 original size:34 final size:33
Alignment explanation
Indices: 10821328--10821396 Score: 81
Period size: 33 Copynumber: 2.1 Consensus size: 33
10821318 TTATTTTTTT
10821328 CAAAAGAAATAAAAAAAGATTCAATTTTTTGAAA
1 CAAAAGAAATAAAAAAAGATTCAATTTTTT-AAA
10821362 CAAAA-AAATAAAAGAAAGGAATT-AA-TTTTTAAA
1 CAAAAGAAATAAAA-AAA-G-ATTCAATTTTTTAAA
10821395 CA
1 CA
10821397 TTATAAATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
33 13 0.41
34 13 0.41
35 3 0.09
36 3 0.09
ACGTcount: A:0.61, C:0.06, G:0.09, T:0.25
Consensus pattern (33 bp):
CAAAAGAAATAAAAAAAGATTCAATTTTTTAAA
Found at i:10826391 original size:20 final size:20
Alignment explanation
Indices: 10826354--10826391 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
10826344 GTCCTTCAGT
*
10826354 AAGAAAAAAAGAGCAAAAGA
1 AAGAAAAAAAGAGAAAAAGA
10826374 AAGAAGAAAAAGA-AAAAA
1 AAGAA-AAAAAGAGAAAAA
10826392 TAATTAGTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.79, C:0.03, G:0.18, T:0.00
Consensus pattern (20 bp):
AAGAAAAAAAGAGAAAAAGA
Found at i:10826954 original size:14 final size:15
Alignment explanation
Indices: 10826935--10826967 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
10826925 GTTAATACAT
10826935 GAAGAAA-AAAAAAG
1 GAAGAAAGAAAAAAG
10826949 GAAGAAATGAAAAAAG
1 GAAGAAA-GAAAAAAG
10826965 GAA
1 GAA
10826968 AAATATGGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
16 10 0.59
ACGTcount: A:0.73, C:0.00, G:0.24, T:0.03
Consensus pattern (15 bp):
GAAGAAAGAAAAAAG
Found at i:10826963 original size:16 final size:15
Alignment explanation
Indices: 10826942--10826971 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
10826932 CATGAAGAAA
10826942 AAAAAAGGAAGAAATG
1 AAAAAAGGAA-AAATG
10826958 AAAAAAGGAAAAAT
1 AAAAAAGGAAAAAT
10826972 ATGGAAAAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.73, C:0.00, G:0.20, T:0.07
Consensus pattern (15 bp):
AAAAAAGGAAAAATG
Found at i:10832900 original size:4 final size:4
Alignment explanation
Indices: 10832891--10832937 Score: 58
Period size: 4 Copynumber: 11.8 Consensus size: 4
10832881 TATCTAAAAA
* * * *
10832891 TTAT TTAT TTAA TTAT TTAT TTAT ATAT TTAT ATAT TTAT ATAT TTA
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTA
10832938 ATATTTATCT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (4 bp):
TTAT
Found at i:10832919 original size:8 final size:8
Alignment explanation
Indices: 10832892--10832945 Score: 74
Period size: 8 Copynumber: 6.9 Consensus size: 8
10832882 ATCTAAAAAT
*
10832892 TATTTATT
1 TATTTATA
* *
10832900 TAATTATT
1 TATTTATA
10832908 TATTTATA
1 TATTTATA
10832916 TATTTATA
1 TATTTATA
10832924 TATTTATA
1 TATTTATA
10832932 TATTTA-A
1 TATTTATA
10832939 TATTTAT
1 TATTTAT
10832946 CTTTTAAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
7 7 0.17
8 35 0.83
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (8 bp):
TATTTATA
Found at i:10833272 original size:27 final size:27
Alignment explanation
Indices: 10833215--10833272 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
10833205 GATATACAAG
*
10833215 ATTA-AAATAGAATAGAATAAAATGAT
1 ATTATAAATAGAATAGAATAAAATAAT
*
10833241 ATTATAAATAGAATTAG-ATTAAATAAT
1 ATTATAAATAGAA-TAGAATAAAATAAT
*
10833268 GTTAT
1 ATTAT
10833273 CATATCTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 4 0.15
27 20 0.74
28 3 0.11
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.34
Consensus pattern (27 bp):
ATTATAAATAGAATAGAATAAAATAAT
Found at i:10834875 original size:34 final size:32
Alignment explanation
Indices: 10834810--10834876 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 32
10834800 TAAGGAACAT
** * *
10834810 GTAAATTAAAGTGCTTGAAAAGTAAATTGCAA
1 GTAAATTAAAGAACTTGAAAACTAAAATGCAA
10834842 GTAAATTTAAAGAACTTGGAAAACTAAAATGCAA
1 GTAAA-TTAAAGAACTT-GAAAACTAAAATGCAA
10834876 G
1 G
10834877 AAAAATTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 5 0.17
33 9 0.31
34 15 0.52
ACGTcount: A:0.49, C:0.07, G:0.18, T:0.25
Consensus pattern (32 bp):
GTAAATTAAAGAACTTGAAAACTAAAATGCAA
Found at i:10843011 original size:19 final size:19
Alignment explanation
Indices: 10842987--10843037 Score: 102
Period size: 19 Copynumber: 2.7 Consensus size: 19
10842977 AGACTTAAAG
10842987 AAACATGAATCACGAATGT
1 AAACATGAATCACGAATGT
10843006 AAACATGAATCACGAATGT
1 AAACATGAATCACGAATGT
10843025 AAACATGAATCAC
1 AAACATGAATCAC
10843038 AAATACACAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.49, C:0.18, G:0.14, T:0.20
Consensus pattern (19 bp):
AAACATGAATCACGAATGT
Found at i:10843964 original size:10 final size:10
Alignment explanation
Indices: 10843949--10844009 Score: 54
Period size: 10 Copynumber: 6.1 Consensus size: 10
10843939 ATGAAAAGAG
*
10843949 TGAATCTTGT
1 TGAATCTTGA
10843959 TGAATCTTGA
1 TGAATCTTGA
*
10843969 AGAATCTTGA
1 TGAATCTTGA
*
10843979 T-AATTCTTTA
1 TGAA-TCTTGA
*
10843989 TTAATCTTGGA
1 TGAATCTT-GA
10844000 TG-ATCTTGA
1 TGAATCTTGA
10844009 T
1 T
10844010 ACATTAGAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
9 5 0.12
10 33 0.79
11 4 0.10
ACGTcount: A:0.28, C:0.10, G:0.16, T:0.46
Consensus pattern (10 bp):
TGAATCTTGA
Found at i:10844056 original size:10 final size:9
Alignment explanation
Indices: 10844043--10844097 Score: 69
Period size: 8 Copynumber: 6.1 Consensus size: 9
10844033 TTCTTGATAT
10844043 ATTCTTGGTA
1 ATTCTTGG-A
10844053 ATTCTT-GA
1 ATTCTTGGA
10844061 ATTCTTGGAA
1 ATTCTTGG-A
10844071 ATTCTT-GA
1 ATTCTTGGA
10844079 ATTCTTGGA
1 ATTCTTGGA
*
10844088 AATCTTGGA
1 ATTCTTGGA
10844097 A
1 A
10844098 AAAAAGCGAA
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
8 14 0.34
9 14 0.34
10 13 0.32
ACGTcount: A:0.27, C:0.11, G:0.18, T:0.44
Consensus pattern (9 bp):
ATTCTTGGA
Found at i:10844058 original size:21 final size:19
Alignment explanation
Indices: 10844032--10844094 Score: 78
Period size: 18 Copynumber: 3.4 Consensus size: 19
10844022 TTTTTTGACT
*
10844032 ATTCTTGATATATTCTTGGTA
1 ATTCTTGA-A-ATTCTTGGAA
10844053 ATTCTTG-AATTCTTGGAA
1 ATTCTTGAAATTCTTGGAA
10844071 ATTCTTG-AATTCTTGGAA
1 ATTCTTGAAATTCTTGGAA
10844089 A-TCTTG
1 ATTCTTG
10844095 GAAAAAAAGC
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
17 5 0.12
18 28 0.68
19 1 0.02
21 7 0.17
ACGTcount: A:0.25, C:0.11, G:0.16, T:0.48
Consensus pattern (19 bp):
ATTCTTGAAATTCTTGGAA
Found at i:10844066 original size:18 final size:18
Alignment explanation
Indices: 10844043--10844094 Score: 88
Period size: 18 Copynumber: 2.9 Consensus size: 18
10844033 TTCTTGATAT
*
10844043 ATTCTTGGTAATTCTTGA
1 ATTCTTGGAAATTCTTGA
10844061 ATTCTTGGAAATTCTTGA
1 ATTCTTGGAAATTCTTGA
10844079 ATTCTTGGAAA-TCTTG
1 ATTCTTGGAAATTCTTG
10844095 GAAAAAAAGC
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
17 5 0.15
18 28 0.85
ACGTcount: A:0.25, C:0.12, G:0.17, T:0.46
Consensus pattern (18 bp):
ATTCTTGGAAATTCTTGA
Found at i:10852956 original size:2 final size:2
Alignment explanation
Indices: 10852951--10852995 Score: 54
Period size: 2 Copynumber: 22.5 Consensus size: 2
10852941 CATAAGTGTG
* * * *
10852951 TA TA TA CA TA TA TA CA TA TA TA TA TA TA TA TA TA CA TA CA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10852993 TA T
1 TA T
10852996 GCATGAAGCA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.42
Consensus pattern (2 bp):
TA
Found at i:10852964 original size:8 final size:8
Alignment explanation
Indices: 10852951--10852995 Score: 63
Period size: 8 Copynumber: 5.6 Consensus size: 8
10852941 CATAAGTGTG
10852951 TATATACA
1 TATATACA
10852959 TATATACA
1 TATATACA
*
10852967 TATATATA
1 TATATACA
*
10852975 TATATATA
1 TATATACA
*
10852983 TACATACA
1 TATATACA
10852991 TATAT
1 TATAT
10852996 GCATGAAGCA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 33 1.00
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.42
Consensus pattern (8 bp):
TATATACA
Found at i:10861375 original size:10 final size:10
Alignment explanation
Indices: 10861351--10861380 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
10861341 TATTTTATCA
10861351 ATTAAAATA-
1 ATTAAAATAT
10861360 ATTAAAATAT
1 ATTAAAATAT
10861370 ATTAAAATAT
1 ATTAAAATAT
10861380 A
1 A
10861381 AAAACTCGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
ATTAAAATAT
Found at i:10869388 original size:10 final size:10
Alignment explanation
Indices: 10869373--10869400 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
10869363 AAAAAGAGTA
10869373 ATTCTTGAAG
1 ATTCTTGAAG
10869383 ATTCTTGAAG
1 ATTCTTGAAG
10869393 ATTCTTGA
1 ATTCTTGA
10869401 TGTTTTTTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.29, C:0.11, G:0.18, T:0.43
Consensus pattern (10 bp):
ATTCTTGAAG
Found at i:10873447 original size:10 final size:10
Alignment explanation
Indices: 10873432--10873501 Score: 54
Period size: 10 Copynumber: 6.9 Consensus size: 10
10873422 GAAAGATGAA
10873432 AGAAAAAGAG
1 AGAAAAAGAG
*
10873442 AGAAAAAGAT
1 AGAAAAAGAG
*
10873452 AGAGAAAGAG
1 AGAAAAAGAG
*
10873462 AGAGAGAA-AG
1 AGA-AAAAGAG
* *
10873472 AGAAGAATA-
1 AGAAAAAGAG
10873481 AGAAAAAGAAG
1 AGAAAAAG-AG
10873492 TAGAAAAAGA
1 -AGAAAAAGA
10873502 AAAAGAATAA
Statistics
Matches: 48, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
9 10 0.21
10 27 0.56
11 3 0.06
12 8 0.17
ACGTcount: A:0.67, C:0.00, G:0.29, T:0.04
Consensus pattern (10 bp):
AGAAAAAGAG
Found at i:10873457 original size:12 final size:11
Alignment explanation
Indices: 10873432--10873573 Score: 61
Period size: 12 Copynumber: 11.5 Consensus size: 11
10873422 GAAAGATGAA
10873432 AGAAAAAG-AG
1 AGAAAAAGAAG
10873442 AGAAAAAGATAG
1 AGAAAAAGA-AG
*
10873454 AGAAAGAGAGAG
1 AGAAAAAGA-AG
*
10873466 AGAAAGAGAAGAATA
1 AG-AA-A-AAGAA-G
10873481 AGAAAAAGAAG
1 AGAAAAAGAAG
*
10873492 TAGAAAAAGAAAA
1 -AGAAAAAG-AAG
*
10873505 AGAATAAGAAG
1 AGAAAAAGAAG
*
10873516 AAGAAAATGAAAAAG
1 -AG-AAA--AAGAAG
*
10873531 AAGACAAAGAAG
1 -AGAAAAAGAAG
*
10873543 AAGAAAAATAAG
1 -AGAAAAAGAAG
*
10873555 AAGAATAAGAAG
1 -AGAAAAAGAAG
10873567 AAGAAAA
1 -AGAAAA
10873574 TGAAAAAGAA
Statistics
Matches: 103, Mismatches: 17, Indels: 22
0.73 0.12 0.15
Matches are distributed among these distances:
10 8 0.08
11 2 0.02
12 67 0.65
13 7 0.07
14 6 0.06
15 13 0.13
ACGTcount: A:0.70, C:0.01, G:0.25, T:0.05
Consensus pattern (11 bp):
AGAAAAAGAAG
Found at i:10873463 original size:22 final size:23
Alignment explanation
Indices: 10873423--10873527 Score: 74
Period size: 24 Copynumber: 4.4 Consensus size: 23
10873413 AGAAAAATAG
10873423 AAAGATGAAAGAAAAAGAGAGAA
1 AAAGATGAAAGAAAAAGAGAGAA
*
10873446 AAAGAT-AGAGAAAGAGAGAGAGAA
1 AAAGATGAAAGAAA-A-AGAGAGAA
* *
10873470 AGAGAAGAATAAGAAAAAGAAGTAGAA
1 AAAGATG-A-AAGAAAAAG-AG-AGAA
* *
10873497 AAAGA-AAAAGAATAAGA-AGAA
1 AAAGATGAAAGAAAAAGAGAGAA
10873518 GAAA-ATGAAA
1 -AAAGATGAAA
10873528 AAGAAGACAA
Statistics
Matches: 65, Mismatches: 8, Indels: 19
0.71 0.09 0.21
Matches are distributed among these distances:
21 5 0.08
22 12 0.18
23 8 0.12
24 20 0.31
25 3 0.05
26 4 0.06
27 13 0.20
ACGTcount: A:0.69, C:0.00, G:0.26, T:0.06
Consensus pattern (23 bp):
AAAGATGAAAGAAAAAGAGAGAA
Found at i:10873483 original size:6 final size:6
Alignment explanation
Indices: 10873474--10873604 Score: 86
Period size: 6 Copynumber: 21.5 Consensus size: 6
10873464 AGAGAAAGAG
* * * * *
10873474 AAGAAT AAGAAA AAGAAG TAGAAA AAGAAA AAGAAT AAGAAG AAGAAA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA
* * * * * *
10873522 ATGAAA AAGAAGACA AAGAAG AAGAAA AATAAG AAGAAT AAGAAG AAGAAA
1 AAGAAA AAG-A-A-A AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA
* * *
10873573 ATGAAA AAGAAGA CA-AAT AAGAAA AA-AAA AAG
1 AAGAAA AAGAA-A AAGAAA AAGAAA AAGAAA AAG
10873605 GTCTAAGGAA
Statistics
Matches: 95, Mismatches: 24, Indels: 12
0.73 0.18 0.09
Matches are distributed among these distances:
5 6 0.06
6 79 0.83
7 4 0.04
8 2 0.02
9 4 0.04
ACGTcount: A:0.73, C:0.02, G:0.20, T:0.06
Consensus pattern (6 bp):
AAGAAA
Found at i:10873573 original size:51 final size:51
Alignment explanation
Indices: 10873480--10873601 Score: 190
Period size: 51 Copynumber: 2.4 Consensus size: 51
10873470 AGAGAAGAAT
* *
10873480 AAGAAAAAGAAGTAGAAAAAGAAAAAGAATAAGAAGAAGAAAATGAAAAAG
1 AAGACAAAGAAGAAGAAAAAGAAAAAGAATAAGAAGAAGAAAATGAAAAAG
* *
10873531 AAGACAAAGAAGAAGAAAAATAAGAAGAATAAGAAGAAGAAAATGAAAAAG
1 AAGACAAAGAAGAAGAAAAAGAAAAAGAATAAGAAGAAGAAAATGAAAAAG
* *
10873582 AAGACAAATAAGAAAAAAAA
1 AAGACAAAGAAGAAGAAAAA
10873602 AAGGTCTAAG
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 65 1.00
ACGTcount: A:0.73, C:0.02, G:0.20, T:0.06
Consensus pattern (51 bp):
AAGACAAAGAAGAAGAAAAAGAAAAAGAATAAGAAGAAGAAAATGAAAAAG
Found at i:10873594 original size:24 final size:25
Alignment explanation
Indices: 10873487--10873597 Score: 113
Period size: 24 Copynumber: 4.5 Consensus size: 25
10873477 AATAAGAAAA
* * *
10873487 AGAAGTAGAAAAAGAAAAAGAATA-
1 AGAAGAAGAAAATGAAAAAGAAGAC
10873511 AGAAGAAGAAAATGAAAAAGAAGAC
1 AGAAGAAGAAAATGAAAAAGAAGAC
* *
10873536 AAAGAAGAAGAAAAAT-AAGAAGAATA-
1 --AGAAGAAG-AAAATGAAAAAGAAGAC
10873562 AGAAGAAGAAAATGAAAAAGAAGAC
1 AGAAGAAGAAAATGAAAAAGAAGAC
*
10873587 A-AATAAGAAAA
1 AGAAGAAGAAAA
10873598 AAAAAAGGTC
Statistics
Matches: 73, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
23 5 0.07
24 46 0.63
25 1 0.01
27 16 0.22
28 5 0.07
ACGTcount: A:0.71, C:0.02, G:0.21, T:0.06
Consensus pattern (25 bp):
AGAAGAAGAAAATGAAAAAGAAGAC
Found at i:10873603 original size:24 final size:24
Alignment explanation
Indices: 10873480--10873603 Score: 99
Period size: 24 Copynumber: 5.0 Consensus size: 24
10873470 AGAGAAGAAT
* * *
10873480 AAGAAAAAGAAGTAGAAAAAGAAA
1 AAGAAGAAGAAGAAGAAAAAAAAA
*
10873504 AAGAATAAGAAGAAGAAAATGAAAAA
1 AAGAAGAAGAAGAAGAAAA--AAAAA
* *
10873530 GAAGACA-AAGAAGAAGAAAAATAAG
1 -AAGA-AGAAGAAGAAGAAAAAAAAA
* **
10873555 AAGAATAAGAAGAAGAAAATGAAA
1 AAGAAGAAGAAGAAGAAAAAAAAA
*
10873579 AAGAAGACA-AATAAGAAAAAAAAA
1 AAGAAGA-AGAAGAAGAAAAAAAAA
10873603 A
1 A
10873604 GGTCTAAGGA
Statistics
Matches: 82, Mismatches: 12, Indels: 12
0.77 0.11 0.11
Matches are distributed among these distances:
23 1 0.01
24 55 0.67
25 4 0.05
26 4 0.05
27 17 0.21
28 1 0.01
ACGTcount: A:0.73, C:0.02, G:0.19, T:0.06
Consensus pattern (24 bp):
AAGAAGAAGAAGAAGAAAAAAAAA
Found at i:10874798 original size:16 final size:16
Alignment explanation
Indices: 10874752--10874798 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
10874742 ATTAATTAGA
10874752 ATTAATATA-ATTT-T
1 ATTAATATATATTTAT
*
10874766 ATTGAA-ATATATATAT
1 ATT-AATATATATTTAT
10874782 ATTAATATATATTTAT
1 ATTAATATATATTTAT
10874798 A
1 A
10874799 AAAATATTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
14 6 0.22
15 7 0.26
16 14 0.52
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATTAATATATATTTAT
Found at i:10878469 original size:6 final size:6
Alignment explanation
Indices: 10878375--10878462 Score: 140
Period size: 6 Copynumber: 14.7 Consensus size: 6
10878365 TTGCTTGTAG
* * * *
10878375 TTTTAA TTTTGG TTTTGG TTTTGG TTTTGA TTTTGA TTTTGA TTTTGA
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA
10878423 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTT
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTT
10878463 TGGTTTTTAA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 79 1.00
ACGTcount: A:0.14, C:0.00, G:0.18, T:0.68
Consensus pattern (6 bp):
TTTTGA
Found at i:10878469 original size:7 final size:7
Alignment explanation
Indices: 10878399--10878475 Score: 73
Period size: 6 Copynumber: 12.3 Consensus size: 7
10878389 TTGGTTTTGG
10878399 TTTTGA-
1 TTTTGAT
10878405 TTTTGA-
1 TTTTGAT
10878411 TTTTGA-
1 TTTTGAT
10878417 TTTTGA-
1 TTTTGAT
10878423 TTTTGA-
1 TTTTGAT
10878429 TTTTGA-
1 TTTTGAT
10878435 TTTTGA-
1 TTTTGAT
10878441 TTTTGA-
1 TTTTGAT
10878447 TTTTGA-
1 TTTTGAT
10878453 TTTTGAT
1 TTTTGAT
*
10878460 TTTTGGT
1 TTTTGAT
*
10878467 TTTTAAT
1 TTTTGAT
10878474 TT
1 TT
10878476 CAGTTTTTAT
Statistics
Matches: 67, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
6 54 0.81
7 13 0.19
ACGTcount: A:0.16, C:0.00, G:0.16, T:0.69
Consensus pattern (7 bp):
TTTTGAT
Found at i:10879578 original size:6 final size:7
Alignment explanation
Indices: 10879562--10879610 Score: 77
Period size: 7 Copynumber: 7.4 Consensus size: 7
10879552 CAATGTTCAA
10879562 TTTTGAT
1 TTTTGAT
10879569 TTTTGAT
1 TTTTGAT
10879576 TTTTGAT
1 TTTTGAT
10879583 TTTTGAT
1 TTTTGAT
10879590 TTTTGA-
1 TTTTGAT
10879596 -TTTGAT
1 TTTTGAT
10879602 TTTTG-T
1 TTTTGAT
10879608 TTT
1 TTT
10879611 GTTTTGGTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
5 5 0.12
6 4 0.10
7 31 0.77
ACGTcount: A:0.12, C:0.00, G:0.14, T:0.73
Consensus pattern (7 bp):
TTTTGAT
Found at i:10879587 original size:21 final size:19
Alignment explanation
Indices: 10879562--10879627 Score: 75
Period size: 17 Copynumber: 3.5 Consensus size: 19
10879552 CAATGTTCAA
10879562 TTTTGATTTTTGATTTTTGAT
1 TTTTGATTTTTGA--TTTGAT
10879583 TTTTGATTTTTGATTTGAT
1 TTTTGATTTTTGATTTGAT
* *
10879602 TTTTG--TTTTGTTTTGGT
1 TTTTGATTTTTGATTTGAT
10879619 TTTTG-TTTT
1 TTTTGATTTT
10879628 ATTTTATTTC
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
17 15 0.36
18 3 0.07
19 11 0.26
21 13 0.31
ACGTcount: A:0.09, C:0.00, G:0.17, T:0.74
Consensus pattern (19 bp):
TTTTGATTTTTGATTTGAT
Found at i:10879601 original size:12 final size:12
Alignment explanation
Indices: 10879570--10879615 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
10879560 AATTTTGATT
10879570 TTTGATTTTTGA
1 TTTGATTTTTGA
10879582 TTTTTGATTTTTGA
1 --TTTGATTTTTGA
*
10879596 TTTGATTTTTGT
1 TTTGATTTTTGA
10879608 TTTG-TTTT
1 TTTGATTTT
10879616 GGTTTTTGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
11 4 0.13
12 15 0.48
14 12 0.39
ACGTcount: A:0.11, C:0.00, G:0.15, T:0.74
Consensus pattern (12 bp):
TTTGATTTTTGA
Found at i:10879622 original size:7 final size:6
Alignment explanation
Indices: 10879562--10879627 Score: 55
Period size: 7 Copynumber: 10.5 Consensus size: 6
10879552 CAATGTTCAA
*
10879562 TTTTGAT TTTTGAT TTTTGAT TTTTGAT TTTTG- ATTTGAT TTTTG- TTTTGT
1 TTTTG-T TTTTG-T TTTTG-T TTTTG-T TTTTGT TTTTG-T TTTTGT TTTTGT
*
10879613 TTTGGT TTTTGT TTT
1 TTTTGT TTTTGT TTT
10879628 ATTTTATTTC
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
5 9 0.17
6 13 0.25
7 30 0.58
ACGTcount: A:0.09, C:0.00, G:0.17, T:0.74
Consensus pattern (6 bp):
TTTTGT
Found at i:10879799 original size:21 final size:21
Alignment explanation
Indices: 10879764--10879843 Score: 90
Period size: 21 Copynumber: 3.8 Consensus size: 21
10879754 ATGATTATTA
10879764 ATTAATTTGCATGATATTTTAT
1 ATTAATTT-CATGATATTTTAT
* *
10879786 CTTAATTTCATGATAGTTTAT
1 ATTAATTTCATGATATTTTAT
* * *
10879807 ATTTATTGCATGATATATTAT
1 ATTAATTTCATGATATTTTAT
*
10879828 ATT-ATTACATGATATT
1 ATTAATTTCATGATATT
10879844 ATTTTGTATG
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
20 11 0.22
21 31 0.63
22 7 0.14
ACGTcount: A:0.33, C:0.06, G:0.09, T:0.53
Consensus pattern (21 bp):
ATTAATTTCATGATATTTTAT
Found at i:10881552 original size:46 final size:46
Alignment explanation
Indices: 10881499--10881590 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
10881489 AGGTCGGAGC
*
10881499 CCATGATAGTTGGTTTCATAAGAGGTTATGTACAAGTTCTGTTTTG
1 CCATGATAGTTGGTTTCATAAGAGGTTATGCACAAGTTCTGTTTTG
10881545 CCATGATAGTTGGTTTCATAAGAGGTTATGCACAAGTTCTGTTTTG
1 CCATGATAGTTGGTTTCATAAGAGGTTATGCACAAGTTCTGTTTTG
10881591 TGGTGTTAAG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.40
Consensus pattern (46 bp):
CCATGATAGTTGGTTTCATAAGAGGTTATGCACAAGTTCTGTTTTG
Found at i:10887240 original size:42 final size:40
Alignment explanation
Indices: 10887159--10887234 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
10887149 CGTAAGTTTA
* * *
10887159 TATATTGTTTTTTGTATATATTATTTGCATACTAACTCTT
1 TATATTGCTATTTGTATATATTATATGCATACTAACTCTT
10887199 TATATTGCTATTTGTATATATTATATGCATACTAAC
1 TATATTGCTATTTGTATATATTATATGCATACTAAC
10887235 CCTCTTCTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.29, C:0.11, G:0.08, T:0.53
Consensus pattern (40 bp):
TATATTGCTATTTGTATATATTATATGCATACTAACTCTT
Found at i:10890442 original size:17 final size:16
Alignment explanation
Indices: 10890407--10890477 Score: 51
Period size: 17 Copynumber: 4.4 Consensus size: 16
10890397 TGGAAAATAC
10890407 AAAATTAAAAAAAGAA
1 AAAATTAAAAAAAGAA
*
10890423 AAAAGTTAAAAAAGGTAA
1 AAAA-TTAAAAAAAG-AA
10890441 AAAA--AATGAAAAAGAA
1 AAAATTAA--AAAAAGAA
10890457 AGAAA--AAAAAAAGAA
1 A-AAATTAAAAAAAGAA
*
10890472 GAAATT
1 AAAATT
10890478 GATGAGGCAA
Statistics
Matches: 45, Mismatches: 3, Indels: 14
0.73 0.05 0.23
Matches are distributed among these distances:
14 3 0.07
15 10 0.22
16 7 0.16
17 19 0.42
18 6 0.13
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (16 bp):
AAAATTAAAAAAAGAA
Found at i:10891157 original size:25 final size:25
Alignment explanation
Indices: 10891129--10891176 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
10891119 ATATTTGTCA
* *
10891129 TGAATTAGAATGATGATAAAAGAAG
1 TGAATGAGAATGATCATAAAAGAAG
* *
10891154 TGAATGATAATGTTCATAAAAGA
1 TGAATGAGAATGATCATAAAAGA
10891177 TTCTTCCATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.50, C:0.02, G:0.21, T:0.27
Consensus pattern (25 bp):
TGAATGAGAATGATCATAAAAGAAG
Done.