Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, 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: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 54 of 160
Found at i:11502807 original size:61 final size:61
Alignment explanation
Indices: 11502738--11502860 Score: 237
Period size: 61 Copynumber: 2.0 Consensus size: 61
11502728 AGGCTATTTG
11502738 AATTGGAATTTGATCATTAAACTAATTATCCAACACTCTATCAATAGATGAGATATACCTC
1 AATTGGAATTTGATCATTAAACTAATTATCCAACACTCTATCAATAGATGAGATATACCTC
*
11502799 AATTGGAATTTGATCATTAAACTAATTATTCAACACTCTATCAATAGATGAGATATACCTC
1 AATTGGAATTTGATCATTAAACTAATTATCCAACACTCTATCAATAGATGAGATATACCTC
11502860 A
1 A
11502861 GTGAGCTTCT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (61 bp):
AATTGGAATTTGATCATTAAACTAATTATCCAACACTCTATCAATAGATGAGATATACCTC
Found at i:11513339 original size:26 final size:26
Alignment explanation
Indices: 11513310--11513360 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
11513300 CCTAATTCTT
* *
11513310 AATTGTGATAAAAGCATTAGTACCTC
1 AATTATGATAAAAGCATTAATACCTC
* *
11513336 AATTATGGTAATAGCATTAATACCT
1 AATTATGATAAAAGCATTAATACCT
11513361 TATCATATAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (26 bp):
AATTATGATAAAAGCATTAATACCTC
Found at i:11513449 original size:23 final size:23
Alignment explanation
Indices: 11513419--11513464 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
11513409 AAAAAGAAGA
11513419 TCGATGGTCTCATCAATAGTGGT
1 TCGATGGTCTCATCAATAGTGGT
11513442 TCGATGGTCTCATCAATAGTGGT
1 TCGATGGTCTCATCAATAGTGGT
11513465 ACCTTGATCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.35
Consensus pattern (23 bp):
TCGATGGTCTCATCAATAGTGGT
Found at i:11514314 original size:62 final size:61
Alignment explanation
Indices: 11514185--11514377 Score: 178
Period size: 63 Copynumber: 3.1 Consensus size: 61
11514175 GGGATTACTT
* * * *
11514185 ATTTTTT-GAGGATTATTTAAGGCA-TTTTTGGTTAGAAAACTCCTTAAATAATGTTGATT-A
1 ATTTTTTAGAGGATTATTTAAGGCATTTTTTAGTTAGAAAA-TACTTAAATAAT-CTCATTCA
* *
11514245 ATATTTTTAGGGGATTATTTAAGGCATTTTTTTGTTAGAAAATGACTTAAATAATCTCATTCA
1 AT-TTTTTAGAGGATTATTTAAGGCATTTTTTAGTTAGAAAAT-ACTTAAATAATCTCATTCA
* ** * * * *
11514308 ATTTTTTATAGATGATTATTTAAGGTGTTTTCTAGCTA-AAAATACCTTAAACAATCTTATTCA
1 A-TTTTT-TAGAGGATTATTTAAGGCATTTTTTAGTTAGAAAATA-CTTAAATAATCTCATTCA
11514371 ATTTTTT
1 ATTTTTT
11514378 GTAAAAGATT
Statistics
Matches: 111, Mismatches: 14, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
60 2 0.02
61 6 0.05
62 27 0.24
63 52 0.47
64 24 0.22
ACGTcount: A:0.33, C:0.08, G:0.13, T:0.46
Consensus pattern (61 bp):
ATTTTTTAGAGGATTATTTAAGGCATTTTTTAGTTAGAAAATACTTAAATAATCTCATTCA
Found at i:11516010 original size:19 final size:19
Alignment explanation
Indices: 11515986--11516025 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
11515976 AGTAAAAAAT
11515986 ACATG-TTTTGAGGAAAGAA
1 ACATGCTTTTGA-GAAAGAA
11516005 ACATGTCTTTTGAGAAAGAA
1 ACATG-CTTTTGAGAAAGAA
11516025 A
1 A
11516026 TGAATCATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.26
20 8 0.42
21 6 0.32
ACGTcount: A:0.42, C:0.07, G:0.23, T:0.28
Consensus pattern (19 bp):
ACATGCTTTTGAGAAAGAA
Found at i:11516273 original size:12 final size:12
Alignment explanation
Indices: 11516235--11516284 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
11516225 GAATAATCAT
*
11516235 AAAAGAATAATA
1 AAAAGAAAAATA
*
11516247 AAAA-AAGAAAGA
1 AAAAGAA-AAATA
11516259 AAAAGAAAAATA
1 AAAAGAAAAATA
*
11516271 AAAATAAAAATA
1 AAAAGAAAAATA
11516283 AA
1 AA
11516285 GGTTTAGGGT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
11 2 0.06
12 28 0.88
13 2 0.06
ACGTcount: A:0.82, C:0.00, G:0.08, T:0.10
Consensus pattern (12 bp):
AAAAGAAAAATA
Found at i:11516281 original size:6 final size:6
Alignment explanation
Indices: 11516243--11516284 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
11516233 ATAAAAGAAT
* *
11516243 AATAAA AA-AAGA AAGAAA AAGAAA AATAAA AATAAA AATAAA
1 AATAAA AATAA-A AATAAA AATAAA AATAAA AATAAA AATAAA
11516285 GGTTTAGGGT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
5 2 0.06
6 29 0.88
7 2 0.06
ACGTcount: A:0.83, C:0.00, G:0.07, T:0.10
Consensus pattern (6 bp):
AATAAA
Found at i:11517358 original size:104 final size:100
Alignment explanation
Indices: 11517198--11517596 Score: 406
Period size: 103 Copynumber: 3.9 Consensus size: 100
11517188 ATGGAGAAGT
* * * * * *
11517198 TAAGTATAAAGACTTTTTAGTGAAAAAAATTCAAATTCTCATTTGAGAAGAAAACTTTCGAGGTA
1 TAAGTATGAAGACTTTTAAGT--AAGAACTTCAAATTCTCGTTTGAAAAGAAAACTTTCGAGGTA
11517263 AAATTCTAATCCTTGAAAAAAGAAAATTTCAAGAAATG
64 AAATTCTAATCCTTGAAAAAA-AAAATTTCAAGAAATG
* * *
11517301 TAAGTATGAAGACTCTTTATATGTAAGAACTTCAAATTTTTGTTTGAAAAGAAAACTTTTGAGGT
1 TAAGTATGAAGACT-TTTA-A-GTAAGAACTTCAAATTCTCGTTTGAAAAGAAAACTTTCGAGGT
* *
11517366 AAAATTTTAATTCTTGAAAAAAGAAAATTTCAAGAAATG
63 AAAATTCTAATCCTTGAAAAAA-AAAATTTCAAGAAATG
* * * ** * *
11517405 TAAGTGTAAAGACTTTTCAGTGAAGGAGTTTTAAATTCTCGTTTGAAAAGAAAAC-TTCTAAGGT
1 TAAGTATGAAGACTTTTAAGT-AA-GAACTTCAAATTCTCGTTTGAAAAGAAAACTTTC-GAGGT
* *
11517469 AAAATTTTAATCTTTGAAAAAAAGAAATTTCAAGAAATG
63 AAAATTCTAATCCTTGAAAAAAA-AAATTTCAAGAAATG
* * * * * * * *
11517508 TAACTAAGAAGACTTTCCAAGGAAAGAACTTCAAATTCTCATTT-AAAAAAAAACTTTTGAGATA
1 TAAGTATGAAGACTTT-TAA-GTAAGAACTTCAAATTCTCGTTTGAAAAGAAAACTTTCGAGGTA
*
11517572 AGATTCTAATCCTTGAAAAAAAAAA
64 AAATTCTAATCCTTGAAAAAAAAAA
11517597 GATATTTCAA
Statistics
Matches: 245, Mismatches: 41, Indels: 22
0.80 0.13 0.07
Matches are distributed among these distances:
101 5 0.02
102 38 0.16
103 109 0.44
104 89 0.36
105 2 0.01
106 2 0.01
ACGTcount: A:0.45, C:0.09, G:0.14, T:0.32
Consensus pattern (100 bp):
TAAGTATGAAGACTTTTAAGTAAGAACTTCAAATTCTCGTTTGAAAAGAAAACTTTCGAGGTAAA
ATTCTAATCCTTGAAAAAAAAAATTTCAAGAAATG
Found at i:11517954 original size:40 final size:39
Alignment explanation
Indices: 11517899--11518000 Score: 125
Period size: 40 Copynumber: 2.6 Consensus size: 39
11517889 GGGTGTTATC
*
11517899 CTTATTTTTAAAGTTGTTGTGCCTCTATCATGGAAGAACT
1 CTTATTTTTAAAGTTGTTGTGCCTCTATCATAG-AGAACT
* * * * *
11517939 CTTATTTTTAAAGTTGTTATGCCTTTATTATAGAGGAGT
1 CTTATTTTTAAAGTTGTTGTGCCTCTATCATAGAGAACT
*
11517978 CTTATTTCTAAAGTTG-TGTGCCT
1 CTTATTTTTAAAGTTGTTGTGCCT
11518001 TTTTTGATGA
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
38 6 0.11
39 19 0.35
40 29 0.54
ACGTcount: A:0.24, C:0.13, G:0.18, T:0.46
Consensus pattern (39 bp):
CTTATTTTTAAAGTTGTTGTGCCTCTATCATAGAGAACT
Found at i:11518013 original size:38 final size:38
Alignment explanation
Indices: 11517899--11518075 Score: 180
Period size: 39 Copynumber: 4.5 Consensus size: 38
11517889 GGGTGTTATC
* * *
11517899 CTTATTTTTAAAGTTGTTGTGCCTCTA-TCATG-GAAGAA
1 CTTATTTTTAAAGTTG-TGTGCCTTTATTGATGAGGAG-A
* *
11517937 CTCTTATTTTTAAAGTTGTTATGCCTTTATT-ATAGAGGAGT
1 --CTTATTTTTAAAGTTG-TGTGCCTTTATTGAT-GAGGAGA
* *
11517978 CTTATTTCTAAAGTTGTGTGCCTTTTTTGATGAGGAGCA
1 CTTATTTTTAAAGTTGTGTGCCTTTATTGATGAGGAG-A
* *
11518017 CTTATTTTTAAAGTTGTGTACCTTTATTGATGAAGAGA
1 CTTATTTTTAAAGTTGTGTGCCTTTATTGATGAGGAGA
11518055 CTTAATTTTTAAAGTTGTGTG
1 CTT-ATTTTTAAAGTTGTGTG
11518076 AAAAGCCGTT
Statistics
Matches: 118, Mismatches: 13, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
38 20 0.17
39 66 0.56
40 27 0.23
41 2 0.02
42 3 0.03
ACGTcount: A:0.25, C:0.10, G:0.19, T:0.46
Consensus pattern (38 bp):
CTTATTTTTAAAGTTGTGTGCCTTTATTGATGAGGAGA
Found at i:11518154 original size:16 final size:15
Alignment explanation
Indices: 11518131--11518167 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 15
11518121 TTATTGCAAG
*
11518131 AAAAAAAATATAAAA
1 AAAAAAAAAATAAAA
11518146 AACAAAAAAAATAAAA
1 AA-AAAAAAAATAAAA
11518162 AAAAAA
1 AAAAAA
11518168 GTGAATAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.89, C:0.03, G:0.00, T:0.08
Consensus pattern (15 bp):
AAAAAAAAAATAAAA
Found at i:11518165 original size:9 final size:9
Alignment explanation
Indices: 11518131--11518165 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
11518121 TTATTGCAAG
11518131 AAAAAAAAT
1 AAAAAAAAT
* *
11518140 ATAAAAAAC
1 AAAAAAAAT
11518149 AAAAAAAAT
1 AAAAAAAAT
11518158 AAAAAAAA
1 AAAAAAAA
11518166 AAGTGAATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.89, C:0.03, G:0.00, T:0.09
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:11518165 original size:18 final size:18
Alignment explanation
Indices: 11518131--11518165 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
11518121 TTATTGCAAG
*
11518131 AAAAAAAATATAAAAAAC
1 AAAAAAAATAAAAAAAAC
11518149 AAAAAAAATAAAAAAAA
1 AAAAAAAATAAAAAAAA
11518166 AAGTGAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.89, C:0.03, G:0.00, T:0.09
Consensus pattern (18 bp):
AAAAAAAATAAAAAAAAC
Found at i:11518397 original size:24 final size:24
Alignment explanation
Indices: 11518353--11518425 Score: 71
Period size: 23 Copynumber: 3.1 Consensus size: 24
11518343 TAAGTCACAA
11518353 TTATTTATAT-ATTTTTAT-TTTTT
1 TTATTT-TATGATTTTTATATTTTT
* * * *
11518376 TAATTTTA-GGTTTTTATGTTTTA
1 TTATTTTATGATTTTTATATTTTT
11518399 TTATTTTATGATTTTTATATTTATT
1 TTATTTTATGATTTTTATATTT-TT
11518424 TT
1 TT
11518426 CTCCACATGT
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
22 9 0.23
23 16 0.41
24 11 0.28
25 3 0.08
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (24 bp):
TTATTTTATGATTTTTATATTTTT
Found at i:11519129 original size:61 final size:59
Alignment explanation
Indices: 11519048--11519162 Score: 158
Period size: 61 Copynumber: 1.9 Consensus size: 59
11519038 TTATACAAGG
** * * *
11519048 AAAATTGATACCTTCAACTTTTCCTTAAAAATGTTTTTCTTGATAATTTTTATTTTTTTAA
1 AAAATTGATACCCCCAACTTTTCCTCAAAAAT-ATTTT-TTGAAAATTTTTATTTTTTTAA
*
11519109 AAAATTGGTACCCCCAACTTTTCCTCAAAAATATTTTTTGAAAATTTTTATTTT
1 AAAATTGATACCCCCAACTTTTCCTCAAAAATATTTTTTGAAAATTTTTATTTT
11519163 AGAAATTTTA
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
59 16 0.33
60 4 0.08
61 28 0.58
ACGTcount: A:0.32, C:0.14, G:0.05, T:0.49
Consensus pattern (59 bp):
AAAATTGATACCCCCAACTTTTCCTCAAAAATATTTTTTGAAAATTTTTATTTTTTTAA
Found at i:11519236 original size:61 final size:59
Alignment explanation
Indices: 11519149--11519354 Score: 202
Period size: 61 Copynumber: 3.5 Consensus size: 59
11519139 ATATTTTTTG
* * * *
11519149 AAAATTTTTATTTTAGAAATTTTATTTTCAAGAAAAATTGCTACTTTCAACTTTTTCTGA
1 AAAATATTT-TTTTAAAAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTTCTCA
* *
11519209 AAAATATTTTTTTAAAAAAATTTTATTTTCAAGCAAAACTGATACTTTCAAC-TTTTCTTCA
1 AAAATATTTTTTT--AAAAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTTC-TCA
* ** * * * *
11519270 AAATTATTTTTTTTTAAA--TTATTTTTAAGGAATATTGATACTTTCAACTTTTTTTCA
1 AAAATATTTTTTTAAAAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTTCTCA
* * *
11519327 AAAATTTTTTTTTGGAAATTTTTATTTT
1 AAAATATTTTTTT-AAAAATTTTATTTT
11519355 AGGAAAATCA
Statistics
Matches: 120, Mismatches: 19, Indels: 14
0.78 0.12 0.09
Matches are distributed among these distances:
57 40 0.33
58 6 0.05
59 7 0.06
60 20 0.17
61 47 0.39
ACGTcount: A:0.34, C:0.09, G:0.05, T:0.51
Consensus pattern (59 bp):
AAAATATTTTTTTAAAAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTTCTCA
Found at i:11519349 original size:15 final size:16
Alignment explanation
Indices: 11519328--11519360 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
11519318 TTTTTTTCAA
11519328 AAATTTTT-TTTT-GG
1 AAATTTTTATTTTAGG
11519342 AAATTTTTATTTTAGG
1 AAATTTTTATTTTAGG
11519358 AAA
1 AAA
11519361 ATCATTGACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
15 4 0.24
16 5 0.29
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (16 bp):
AAATTTTTATTTTAGG
Found at i:11519462 original size:19 final size:20
Alignment explanation
Indices: 11519426--11519464 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
11519416 AATTCTAATT
11519426 TAATCAATAAGAAGAAATAA
1 TAATCAATAAGAAGAAATAA
* *
11519446 TAAT-AATAATAATAAATAA
1 TAATCAATAAGAAGAAATAA
11519465 ATAAATGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.26
Consensus pattern (20 bp):
TAATCAATAAGAAGAAATAA
Found at i:11520501 original size:42 final size:40
Alignment explanation
Indices: 11520439--11520565 Score: 130
Period size: 40 Copynumber: 3.1 Consensus size: 40
11520429 TTTATTAAAC
* *
11520439 AAAGCTCCT-TCAAAAAGAGGCTCAACAACTTTGTGAAAAATA
1 AAAGCTCCTCT-AAACAGAGGCACAACAAC-TT-TGAAAAATA
* **
11520481 AATGCTCCTCTAAACAGAGGCACAATGACTTTGAAAAATA
1 AAAGCTCCTCTAAACAGAGGCACAACAACTTTGAAAAATA
* * * *
11520521 AAAGCTCCTCTAAATAAATGCACCACAACTTTGAAAAAATA
1 AAAGCTCCTCTAAACAGAGGCACAACAACTTTG-AAAAATA
11520562 AAAG
1 AAAG
11520566 GCTTATTGAC
Statistics
Matches: 71, Mismatches: 12, Indels: 5
0.81 0.14 0.06
Matches are distributed among these distances:
40 35 0.49
41 13 0.18
42 22 0.31
43 1 0.01
ACGTcount: A:0.46, C:0.20, G:0.13, T:0.21
Consensus pattern (40 bp):
AAAGCTCCTCTAAACAGAGGCACAACAACTTTGAAAAATA
Found at i:11521152 original size:46 final size:46
Alignment explanation
Indices: 11521066--11521451 Score: 371
Period size: 46 Copynumber: 8.5 Consensus size: 46
11521056 GGTTTTATAT
* * **
11521066 CTCAAAGATTCTCATTTGAAAATGTCTTAAAGGCTCTCATTTAAGA
1 CTCAAAGATTCTTATTTGAAAACGTCTTAAAGATTCTCATTTAAGA
* * * * *
11521112 CTAAAAAATACTTATTTGAAAATGTCTTAAAGATTTTCATTTGAA-A
1 CTCAAAGATTCTTATTTGAAAACGTCTTAAAGATTCTCATTT-AAGA
* * * * *
11521158 CTTAAAGATTTTTATTTGAAAATGTCTTAAAGATTTTTATTTGGAA-A
1 CTCAAAGATTCTTATTTGAAAACGTCTTAAAGATTCTCATTT--AAGA
* * * * *
11521205 CGTCTTAAATATTCTCATTTGGAAACGTCTTAAAGATTTTCATTTGAGA
1 C-TC--AAAGATTCTTATTTGAAAACGTCTTAAAGATTCTCATTTAAGA
* * *
11521254 CTCAAAGATTCTTATTTGAAAACATTTTAAAGATTCTCATTTGAGA
1 CTCAAAGATTCTTATTTGAAAACGTCTTAAAGATTCTCATTTAAGA
*
11521300 CTCAAAGATTCTCATTTGAAAACGTCTTAAAGATTCTCA--T-A-A
1 CTCAAAGATTCTTATTTGAAAACGTCTTAAAGATTCTCATTTAAGA
* * * *
11521342 ---AAA-ATTCTCATTTGAAAACGTTTTAAAGATTCTCACTTGAGA
1 CTCAAAGATTCTTATTTGAAAACGTCTTAAAGATTCTCATTTAAGA
11521384 CTCAAAGATT-TTCATTTGAAAACGTCTTAAAGATTCTCATTTAAGA
1 CTCAAAGATTCTT-ATTTGAAAACGTCTTAAAGATTCTCATTTAAGA
* *
11521430 CTCAAAAATTCTTATTAGAAAA
1 CTCAAAGATTCTTATTTGAAAA
11521452 TTTAGGACTT
Statistics
Matches: 288, Mismatches: 36, Indels: 32
0.81 0.10 0.09
Matches are distributed among these distances:
38 31 0.11
39 3 0.01
40 1 0.00
41 1 0.00
42 2 0.01
43 1 0.00
44 1 0.00
45 4 0.01
46 196 0.68
47 9 0.03
48 4 0.01
49 2 0.01
50 33 0.11
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (46 bp):
CTCAAAGATTCTTATTTGAAAACGTCTTAAAGATTCTCATTTAAGA
Found at i:11521153 original size:25 final size:25
Alignment explanation
Indices: 11521125--11521339 Score: 195
Period size: 25 Copynumber: 9.1 Consensus size: 25
11521115 AAAAATACTT
*
11521125 ATTTGAAAATGTCTTAAAGATTTTC
1 ATTTGAAAACGTCTTAAAGATTTTC
*
11521150 ATTTG-AAA---CTTAAAGATTTTT
1 ATTTGAAAACGTCTTAAAGATTTTC
* *
11521171 ATTTGAAAATGTCTTAAAGATTTTT
1 ATTTGAAAACGTCTTAAAGATTTTC
* * *
11521196 ATTTGGAAACGTCTTAAATATTCTC
1 ATTTGAAAACGTCTTAAAGATTTTC
*
11521221 ATTTGGAAACGTCTTAAAGATTTTC
1 ATTTGAAAACGTCTTAAAGATTTTC
*
11521246 ATTTG-AGAC-TC--AAAGATTCTT-
1 ATTTGAAAACGTCTTAAAGATT-TTC
* * *
11521267 ATTTGAAAACATTTTAAAGATTCTC
1 ATTTGAAAACGTCTTAAAGATTTTC
* *
11521292 ATTTG-AGAC-TC--AAAGATTCTC
1 ATTTGAAAACGTCTTAAAGATTTTC
*
11521313 ATTTGAAAACGTCTTAAAGATTCTC
1 ATTTGAAAACGTCTTAAAGATTTTC
11521338 AT
1 AT
11521340 AAAAAATTCT
Statistics
Matches: 161, Mismatches: 15, Indels: 28
0.79 0.07 0.14
Matches are distributed among these distances:
21 44 0.27
22 11 0.07
23 6 0.04
24 10 0.06
25 90 0.56
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (25 bp):
ATTTGAAAACGTCTTAAAGATTTTC
Found at i:11521198 original size:71 final size:70
Alignment explanation
Indices: 11521122--11521336 Score: 238
Period size: 71 Copynumber: 3.0 Consensus size: 70
11521112 CTAAAAAATA
* * *
11521122 CTTATTTGAAAATGTCTTAAAGATTTTCATTTGAAACTTAAAGATTTTTATTTGAAAATGTCTTA
1 CTTATTTGAAAACGTCTTAAAGATTCTCATTTGAAACTTAAAGATTTTCATTTGAAAA-GTCTTA
11521187 AAGATT
65 AAGATT
* * * *
11521193 TTTATTTGGAAACGTCTTAAATATTCTCATTTGGAAACGTCTTAAAGATTTTCATTTG---AGAC
1 CTTATTTGAAAACGTCTTAAAGATTCTCATTT-GAAA---CTTAAAGATTTTCATTTGAAAAGTC
*
11521255 TCAAAGATT
62 TTAAAGATT
* * * * *
11521264 CTTATTTGAAAACATTTTAAAGATTCTCATTTGAGACTCAAAGATTCTCATTTGAAAACGTCTTA
1 CTTATTTGAAAACGTCTTAAAGATTCTCATTTGAAACTTAAAGATTTTCATTTGAAAA-GTCTTA
11521329 AAGATT
65 AAGATT
11521335 CT
1 CT
11521337 CATAAAAAAT
Statistics
Matches: 118, Mismatches: 18, Indels: 16
0.78 0.12 0.11
Matches are distributed among these distances:
67 16 0.14
70 4 0.03
71 76 0.64
72 5 0.04
75 17 0.14
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (70 bp):
CTTATTTGAAAACGTCTTAAAGATTCTCATTTGAAACTTAAAGATTTTCATTTGAAAAGTCTTAA
AGATT
Found at i:11521374 original size:25 final size:24
Alignment explanation
Indices: 11521345--11521425 Score: 87
Period size: 25 Copynumber: 3.4 Consensus size: 24
11521335 CTCATAAAAA
11521345 ATTCTCATTTGAAAACGTTTTAAAG
1 ATTCTCATTTGAAAACG-TTTAAAG
* * *
11521370 ATTCTCACTTG-AGAC--TCAAAG
1 ATTCTCATTTGAAAACGTTTAAAG
*
11521391 ATTTTCATTTGAAAACGTCTTAAAG
1 ATTCTCATTTGAAAACGT-TTAAAG
11521416 ATTCTCATTT
1 ATTCTCATTT
11521426 AAGACTCAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
21 14 0.32
22 3 0.07
24 3 0.07
25 24 0.55
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.40
Consensus pattern (24 bp):
ATTCTCATTTGAAAACGTTTAAAG
Found at i:11521392 original size:21 final size:21
Alignment explanation
Indices: 11521366--11521441 Score: 71
Period size: 21 Copynumber: 3.4 Consensus size: 21
11521356 AAAACGTTTT
*
11521366 AAAGATTCTCACTTGAGACTC
1 AAAGATTCTCATTTGAGACTC
* *
11521387 AAAGATTTTCATTTGAAAACGTC
1 AAAGATTCTCATTTG-AGAC-TC
*
11521410 TTAAAGATTCTCATTTAAGACTC
1 --AAAGATTCTCATTTGAGACTC
*
11521433 AAAAATTCT
1 AAAGATTCT
11521442 TATTAGAAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
21 21 0.48
22 3 0.07
23 4 0.09
24 3 0.07
25 13 0.30
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.34
Consensus pattern (21 bp):
AAAGATTCTCATTTGAGACTC
Found at i:11521402 original size:84 final size:84
Alignment explanation
Indices: 11521261--11521423 Score: 290
Period size: 84 Copynumber: 1.9 Consensus size: 84
11521251 AGACTCAAAG
* *
11521261 ATTCTTATTTGAAAACATTTTAAAGATTCTCATTTGAGACTCAAAGATTCTCATTTGAAAACGTC
1 ATTCTCATTTGAAAACATTTTAAAGATTCTCACTTGAGACTCAAAGATTCTCATTTGAAAACGTC
11521326 TTAAAGATTCTCATAAAAA
66 TTAAAGATTCTCATAAAAA
* *
11521345 ATTCTCATTTGAAAACGTTTTAAAGATTCTCACTTGAGACTCAAAGATTTTCATTTGAAAACGTC
1 ATTCTCATTTGAAAACATTTTAAAGATTCTCACTTGAGACTCAAAGATTCTCATTTGAAAACGTC
11521410 TTAAAGATTCTCAT
66 TTAAAGATTCTCAT
11521424 TTAAGACTCA
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
84 75 1.00
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.37
Consensus pattern (84 bp):
ATTCTCATTTGAAAACATTTTAAAGATTCTCACTTGAGACTCAAAGATTCTCATTTGAAAACGTC
TTAAAGATTCTCATAAAAA
Found at i:11521451 original size:130 final size:130
Alignment explanation
Indices: 11521215--11521451 Score: 368
Period size: 130 Copynumber: 1.8 Consensus size: 130
11521205 CGTCTTAAAT
* * * *
11521215 ATTCTCATTTGGAAACGTCTTAAAGATTTTCATTTGAGACTCAAAGATTCTTATTTGAAAACATT
1 ATTCTCATTTGAAAACGTCTTAAAGATTCTCACTTGAGACTCAAAGATTCTTATTTGAAAACATC
* * *
11521280 TTAAAGATTCTCATTTGAGACTCAAAGATTCTCATTTGAAAACGTCTTAAAGATTCTCATAAAAA
66 TTAAAGATTCTCATTTAAGACTCAAAAATTCTCATTAGAAAACGTCTTAAAGATTCTCATAAAAA
* *
11521345 ATTCTCATTTGAAAACGTTTTAAAGATTCTCACTTGAGACTCAAAGATT-TTCATTTGAAAACGT
1 ATTCTCATTTGAAAACGTCTTAAAGATTCTCACTTGAGACTCAAAGATTCTT-ATTTGAAAACAT
*
11521409 CTTAAAGATTCTCATTTAAGACTCAAAAATTCTTATTAGAAAA
65 CTTAAAGATTCTCATTTAAGACTCAAAAATTCTCATTAGAAAA
11521452 TTTAGGACTT
Statistics
Matches: 96, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
129 2 0.02
130 94 0.98
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.37
Consensus pattern (130 bp):
ATTCTCATTTGAAAACGTCTTAAAGATTCTCACTTGAGACTCAAAGATTCTTATTTGAAAACATC
TTAAAGATTCTCATTTAAGACTCAAAAATTCTCATTAGAAAACGTCTTAAAGATTCTCATAAAAA
Found at i:11522730 original size:37 final size:34
Alignment explanation
Indices: 11522688--11522785 Score: 108
Period size: 37 Copynumber: 2.8 Consensus size: 34
11522678 GTCTTCCTTT
*
11522688 TCTTTTTTTTTTTTTTCATATTTTTTCCATTCTTTCA
1 TCTTTTTTTTTTTTTTCATCTTTTTTCC-TT-TTT-A
* * *
11522725 TCTTTTCTTTTTTTTTCCTCTTTCTTT-CTTTTTT
1 TCTTTTTTTTTTTTTTCATCTTT-TTTCCTTTTTA
*
11522759 TCTTTTTTTTTTTTCTCATCTTTTTTC
1 TCTTTTTTTTTTTTTTCATCTTTTTTC
11522786 ATCCTTTTTT
Statistics
Matches: 52, Mismatches: 7, Indels: 7
0.79 0.11 0.11
Matches are distributed among these distances:
33 3 0.06
34 20 0.38
35 3 0.06
36 2 0.04
37 21 0.40
38 3 0.06
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.77
Consensus pattern (34 bp):
TCTTTTTTTTTTTTTTCATCTTTTTTCCTTTTTA
Found at i:11522738 original size:8 final size:8
Alignment explanation
Indices: 11522685--11522772 Score: 56
Period size: 8 Copynumber: 10.2 Consensus size: 8
11522675 TGAGTCTTCC
11522685 TTTTCTTT
1 TTTTCTTT
11522693 TTTT-TTT
1 TTTTCTTT
11522700 TTTTCATATT
1 TTTTC-T-TT
11522710 TTTTCCATTCT
1 TTTT-C-TT-T
*
11522721 TTCATCTTT
1 TT-TTCTTT
11522730 TCTTT-TTT
1 T-TTTCTTT
11522738 TTTCCTCTTT
1 TTT--TCTTT
*
11522748 CTTTCTTT
1 TTTTCTTT
11522756 TTTTCTTT
1 TTTTCTTT
11522764 TTTT-TTT
1 TTTTCTTT
11522771 TT
1 TT
11522773 CTCATCTTTT
Statistics
Matches: 66, Mismatches: 4, Indels: 21
0.73 0.04 0.23
Matches are distributed among these distances:
7 14 0.21
8 24 0.36
9 5 0.08
10 15 0.23
11 7 0.11
12 1 0.02
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTTCTTT
Found at i:11522746 original size:25 final size:28
Alignment explanation
Indices: 11522708--11522767 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
11522698 TTTTTTCATA
11522708 TTTTTTCCATTCTTTC-ATCTTTTCTT-T
1 TTTTTTCCA-TCTTTCTATCTTTTCTTCT
* *
11522735 TTTTTTCC-TCTTTCTTTCTTTTTTTCT
1 TTTTTTCCATCTTTCTATCTTTTCTTCT
11522762 TTTTTT
1 TTTTTT
11522768 TTTTTCTCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 6 0.21
26 8 0.28
27 15 0.52
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.77
Consensus pattern (28 bp):
TTTTTTCCATCTTTCTATCTTTTCTTCT
Found at i:11522773 original size:25 final size:25
Alignment explanation
Indices: 11522717--11522798 Score: 65
Period size: 28 Copynumber: 3.0 Consensus size: 25
11522707 ATTTTTTCCA
* *
11522717 TTCTTTCATCTTTTCTTTTTTTTTCCTCT
1 TTCTTTCTTTTTTTC-TTTTTTTT--T-T
11522746 TTCTTTCTTTTTTTCTTTTTTTTTT
1 TTCTTTCTTTTTTTCTTTTTTTTTT
* *
11522771 TTCTCATCTTTTTTCATCCTTTTTTTTT
1 TTCT-TTCTTTTTT--TCTTTTTTTTTT
11522799 CATTTTTTTC
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
25 5 0.11
26 9 0.20
28 19 0.41
29 13 0.28
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.77
Consensus pattern (25 bp):
TTCTTTCTTTTTTTCTTTTTTTTTT
Found at i:11522780 original size:26 final size:26
Alignment explanation
Indices: 11522751--11522833 Score: 73
Period size: 25 Copynumber: 3.2 Consensus size: 26
11522741 CCTCTTTCTT
11522751 TCTTTTTTTCTTTTTTTTTTTTCTCA
1 TCTTTTTTTCTTTTTTTTTTTTCTCA
* **
11522777 TC-TTTTTTCATCCTTTTTTTT-TCA
1 TCTTTTTTTCTTTTTTTTTTTTCTCA
* *
11522801 T-TTTTTTCATCATCTTCTTTTTTTCTCA
1 TCTTTTTT--TC-TTTTTTTTTTTTCTCA
11522829 TCTTT
1 TCTTT
11522834 CACCCATTAT
Statistics
Matches: 43, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
24 9 0.21
25 16 0.37
26 4 0.09
27 7 0.16
28 4 0.09
29 3 0.07
ACGTcount: A:0.07, C:0.19, G:0.00, T:0.73
Consensus pattern (26 bp):
TCTTTTTTTCTTTTTTTTTTTTCTCA
Found at i:11522793 original size:23 final size:23
Alignment explanation
Indices: 11522766--11522811 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
11522756 TTTTCTTTTT
11522766 TTTTTTTCTCATCTTTTTTCATCC
1 TTTTTTTCTCAT-TTTTTTCATCC
*
11522790 TTTTTTTTTCATTTTTTTCATC
1 TTTTTTTCTCATTTTTTTCATC
11522812 ATCTTCTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.09, C:0.20, G:0.00, T:0.72
Consensus pattern (23 bp):
TTTTTTTCTCATTTTTTTCATCC
Found at i:11522805 original size:37 final size:35
Alignment explanation
Indices: 11522682--11522821 Score: 121
Period size: 34 Copynumber: 3.9 Consensus size: 35
11522672 ACTTGAGTCT
*
11522682 TCCTTTTCTTTTTTTTTTTTT-TCATATTTTTTCCA
1 TCCTTTTCTTTTTTTTTTTTTCTCATCTTTTTT-CA
*
11522717 TTCTTTCATCTTTTCTTTTTTTTTC-C-TCTTTCTTTC-
1 TCCTTT--TCTTTT-TTTTTTTTTCTCATCTTT-TTTCA
**
11522753 TTTTTTTC-TTTTTTTTTTTTCTCATCTTTTTTCA
1 TCCTTTTCTTTTTTTTTTTTTCTCATCTTTTTTCA
*
11522787 TCCTTTT-TTTTTCATTTTTTTCATCATCTTCTTTT
1 TCCTTTTCTTTTT-TTTTTTTTC-TCATCTT-TTTT
11522822 TTTCTCATCT
Statistics
Matches: 87, Mismatches: 6, Indels: 22
0.76 0.05 0.19
Matches are distributed among these distances:
32 10 0.11
33 8 0.09
34 16 0.18
35 13 0.15
36 12 0.14
37 15 0.17
38 13 0.15
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.74
Consensus pattern (35 bp):
TCCTTTTCTTTTTTTTTTTTTCTCATCTTTTTTCA
Found at i:11522813 original size:12 final size:12
Alignment explanation
Indices: 11522766--11522813 Score: 55
Period size: 12 Copynumber: 4.1 Consensus size: 12
11522756 TTTTCTTTTT
11522766 TTTTTTTC-TCA
1 TTTTTTTCATCA
*
11522777 TCTTTTTTCATCC
1 T-TTTTTTCATCA
*
11522790 TTTTTTT-TTCA
1 TTTTTTTCATCA
11522801 TTTTTTTCATCA
1 TTTTTTTCATCA
11522813 T
1 T
11522814 CTTCTTTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
11 10 0.33
12 17 0.57
13 3 0.10
ACGTcount: A:0.10, C:0.19, G:0.00, T:0.71
Consensus pattern (12 bp):
TTTTTTTCATCA
Found at i:11522821 original size:23 final size:24
Alignment explanation
Indices: 11522774--11522821 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
11522764 TTTTTTTTTC
* * *
11522774 TCATCTTTTTTCATCCTTTTTTTT
1 TCATCTTTTTTCATCATCTTCTTT
11522798 TCAT-TTTTTTCATCATCTTCTTT
1 TCATCTTTTTTCATCATCTTCTTT
11522821 T
1 T
11522822 TTTCTCATCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.10, C:0.21, G:0.00, T:0.69
Consensus pattern (24 bp):
TCATCTTTTTTCATCATCTTCTTT
Found at i:11522823 original size:16 final size:16
Alignment explanation
Indices: 11522801--11522832 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
11522791 TTTTTTTTCA
11522801 TTTTTTTCATCATCTTC
1 TTTTTTTC-TCATCTTC
11522818 TTTTTTTCTCATCTT
1 TTTTTTTCTCATCTT
11522833 TCACCCATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.09, C:0.22, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTTTTCTCATCTTC
Found at i:11522834 original size:26 final size:26
Alignment explanation
Indices: 11522764--11522835 Score: 76
Period size: 26 Copynumber: 2.8 Consensus size: 26
11522754 TTTTTTCTTT
**
11522764 TTTTTTTTTCTCATCTTTTTTCATCC
1 TTTTTTTTTCTCATCTTTCATCATCC
* *
11522790 TTTTTTTTTCAT-TTTTTTCATCAT-C
1 TTTTTTTTTC-TCATCTTTCATCATCC
11522815 TTCTTTTTTTCTCATCTTTCA
1 TT-TTTTTTTCTCATCTTTCA
11522836 CCCATTATTG
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
25 4 0.11
26 32 0.86
27 1 0.03
ACGTcount: A:0.10, C:0.21, G:0.00, T:0.69
Consensus pattern (26 bp):
TTTTTTTTTCTCATCTTTCATCATCC
Found at i:11527075 original size:133 final size:133
Alignment explanation
Indices: 11526837--11527081 Score: 305
Period size: 133 Copynumber: 1.8 Consensus size: 133
11526827 ATTGGGAGGT
* * * * * * *
11526837 TTTTATTTTAAAGAAAATTGGTACTTTCAGCTTTTTCTTAAAAATATTTTTCTTGATAATTTTTA
1 TTTTATTTTAAAGAAAATTGATACTTTCAACTTTTTCTAAAAAAAATATTTCTTGAAAAATTTTA
* * * *
11526902 TTTTTAAGAAAAATTGGTACTTCCAACTTTTCCTCAAAAATATTTTTAAAAAATTTTTATTTTAG
66 TTGTAAAGAAAAATTGATACTTCCAACTTTTACTCAAAAATATTTTTAAAAAATTTTTATTTTAG
11526967 AAA
131 AAA
*
11526970 TTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTTC-AAAAAAAATATTT-TTGAAAAAATTT
1 TTTTATTTT-AAAGAAAATTGATACTTTCAACTTTTTCTAAAAAAAATATTTCTTG-AAAAATTT
* ** **
11527033 TGTTGTAAAGAAAAATTGATACTTTTAACTTTTACTTTAAAATATTTTT
64 TATTGTAAAGAAAAATTGATACTTCCAACTTTTACTCAAAAATATTTTT
11527082 TTAAAAAAAA
Statistics
Matches: 93, Mismatches: 17, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
132 3 0.03
133 65 0.70
134 25 0.27
ACGTcount: A:0.37, C:0.08, G:0.07, T:0.48
Consensus pattern (133 bp):
TTTTATTTTAAAGAAAATTGATACTTTCAACTTTTTCTAAAAAAAATATTTCTTGAAAAATTTTA
TTGTAAAGAAAAATTGATACTTCCAACTTTTACTCAAAAATATTTTTAAAAAATTTTTATTTTAG
AAA
Found at i:11527117 original size:61 final size:60
Alignment explanation
Indices: 11526973--11527144 Score: 191
Period size: 61 Copynumber: 2.8 Consensus size: 60
11526963 TTAGAAATTT
* * * * ***
11526973 TATTTTCAAGGAAAATTGATACTTTCAACTTTTTCAAAAAAAATATTTTTGAAAAAATTT
1 TATTTTCAAGGAAAATTGATACTTTCAACTTTTTCTAAAAATATTTTTTTAAAAAAAAAA
* * * * * * *
11527033 TGTTGTAAAGAAAAATTGATACTTTTAACTTTTACTTTAAAATATTTTTTTAAAAAAAAAA
1 TATTTTCAAGGAAAATTGATACTTTCAACTTTTTC-TAAAAATATTTTTTTAAAAAAAAAA
*
11527094 TATTTTCAAGGAAAACTGATACTTTCAACTTTTTCCTAAAAATATTTTTTT
1 TATTTTCAAGGAAAATTGATACTTTCAACTTTTT-CTAAAAATATTTTTTT
11527145 TTTGGAAATT
Statistics
Matches: 88, Mismatches: 22, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
60 29 0.33
61 58 0.66
62 1 0.01
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.44
Consensus pattern (60 bp):
TATTTTCAAGGAAAATTGATACTTTCAACTTTTTCTAAAAATATTTTTTTAAAAAAAAAA
Found at i:11528112 original size:15 final size:15
Alignment explanation
Indices: 11528089--11528120 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
11528079 TGACTAAAGA
*
11528089 TATTTTTATTTTTAT
1 TATTATTATTTTTAT
11528104 TATTATTATTTTTAT
1 TATTATTATTTTTAT
11528119 TA
1 TA
11528121 AATCTATTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (15 bp):
TATTATTATTTTTAT
Found at i:11528176 original size:19 final size:20
Alignment explanation
Indices: 11528139--11528177 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
11528129 ACAAACTAAT
11528139 GATAAATCCAATAAAAAAAA
1 GATAAATCCAATAAAAAAAA
11528159 GATAAAT-CAACTAAAAAAA
1 GATAAATCCAA-TAAAAAAA
11528178 TAAAGATAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 3 0.17
20 15 0.83
ACGTcount: A:0.69, C:0.10, G:0.05, T:0.15
Consensus pattern (20 bp):
GATAAATCCAATAAAAAAAA
Found at i:11528193 original size:19 final size:18
Alignment explanation
Indices: 11528171--11528221 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
11528161 TAAATCAACT
11528171 AAAAAAATAAAGATAGATAA
1 AAAAAAATAAA-ATA-ATAA
**
11528191 AAACTAATAAAATAATAA
1 AAAAAAATAAAATAATAA
11528209 AATAAAAATAAAA
1 AA-AAAAATAAAA
11528222 ATGAAAAGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 6 0.23
19 11 0.42
20 9 0.35
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.18
Consensus pattern (18 bp):
AAAAAAATAAAATAATAA
Found at i:11529640 original size:19 final size:19
Alignment explanation
Indices: 11529617--11529660 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
11529607 TTGCTTAAGC
11529617 ATTTATTTATTTAATTTAT
1 ATTTATTTATTTAATTTAT
* * * *
11529636 TTTTACTTGTTTCATTTAT
1 ATTTATTTATTTAATTTAT
11529655 ATTTAT
1 ATTTAT
11529661 ATTGTTAGGT
Statistics
Matches: 19, Mismatches: 6, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.68
Consensus pattern (19 bp):
ATTTATTTATTTAATTTAT
Found at i:11529673 original size:20 final size:20
Alignment explanation
Indices: 11529650--11529728 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
11529640 ACTTGTTTCA
11529650 TTTATATTTATATTGTTAGG
1 TTTATATTTATATTGTTAGG
* * **
11529670 TTTATATCTATATTGTCATA
1 TTTATATTTATATTGTTAGG
11529690 TTAAAGATATATTTATATTGTTAGG
1 TT-----TATATTTATATTGTTAGG
11529715 TTTATATTTATATT
1 TTTATATTTATATT
11529729 AAAGATACAT
Statistics
Matches: 46, Mismatches: 8, Indels: 10
0.72 0.12 0.16
Matches are distributed among these distances:
20 30 0.65
25 16 0.35
ACGTcount: A:0.30, C:0.03, G:0.10, T:0.57
Consensus pattern (20 bp):
TTTATATTTATATTGTTAGG
Found at i:11533181 original size:29 final size:29
Alignment explanation
Indices: 11533149--11533210 Score: 106
Period size: 29 Copynumber: 2.1 Consensus size: 29
11533139 ATGCTCAATT
11533149 TGATTCTTAAATTTTAAAAATTTTTAATA
1 TGATTCTTAAATTTTAAAAATTTTTAATA
* *
11533178 TGATTTTTTAATTTTAAAAATTTTTAATA
1 TGATTCTTAAATTTTAAAAATTTTTAATA
11533207 TGAT
1 TGAT
11533211 ATATGAATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.55
Consensus pattern (29 bp):
TGATTCTTAAATTTTAAAAATTTTTAATA
Found at i:11533219 original size:29 final size:29
Alignment explanation
Indices: 11533158--11533219 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 29
11533148 TTGATTCTTA
* * *
11533158 AATTTTAAAAATTTTTAATATGATTTTTT
1 AATTTTAAAAATTTTTAATATGATATATG
11533187 AATTTTAAAAATTTTTAATATGATATATG
1 AATTTTAAAAATTTTTAATATGATATATG
11533216 AATT
1 AATT
11533220 ATGAATATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (29 bp):
AATTTTAAAAATTTTTAATATGATATATG
Found at i:11533229 original size:29 final size:29
Alignment explanation
Indices: 11533158--11533236 Score: 86
Period size: 29 Copynumber: 2.7 Consensus size: 29
11533148 TTGATTCTTA
* * * *
11533158 AATTTTAAAAATTTTTAATATGATTTTTT
1 AATTATAAAAATTTTTAATATGATATATG
*
11533187 AATTTTAAAAATTTTTAATATGATATATG
1 AATTATAAAAATTTTTAATATGATATATG
* * *
11533216 AATTATGAATATTTTAAATAT
1 AATTATAAAAATTTTTAATAT
11533237 TTTAATACTC
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (29 bp):
AATTATAAAAATTTTTAATATGATATATG
Found at i:11533864 original size:2 final size:2
Alignment explanation
Indices: 11533857--11533886 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
11533847 AAGTAGCATT
*
11533857 TA TA TA TA TA AA 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
11533887 AGTAGCACTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:11534101 original size:19 final size:19
Alignment explanation
Indices: 11534077--11534129 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 19
11534067 TACTTATTAT
11534077 TTAAAATAATATTAAAATA
1 TTAAAATAATATTAAAATA
* *
11534096 TTAAAA-ATTATTAAAATT
1 TTAAAATAATATTAAAATA
* *
11534114 TTTAAATAAAATTAAA
1 TTAAAATAATATTAAA
11534130 TTTTTATTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
18 15 0.54
19 13 0.46
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
TTAAAATAATATTAAAATA
Found at i:11534130 original size:18 final size:19
Alignment explanation
Indices: 11534109--11534145 Score: 58
Period size: 18 Copynumber: 1.9 Consensus size: 19
11534099 AAAATTATTA
11534109 AAATTTTTA-AATAAAATT
1 AAATTTTTATAATAAAATT
11534127 AAATTTTTATTAATAAAAT
1 AAATTTTTA-TAATAAAAT
11534146 AATAATTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
20 8 0.47
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
AAATTTTTATAATAAAATT
Found at i:11534134 original size:19 final size:20
Alignment explanation
Indices: 11534076--11534145 Score: 58
Period size: 19 Copynumber: 3.7 Consensus size: 20
11534066 TTACTTATTA
*
11534076 TTTA-AAATAATATTAAAAT
1 TTTATAAATAAAATTAAAAT
* **
11534095 ATTA-AAA-ATTATTAAAAT
1 TTTATAAATAAAATTAAAAT
*
11534113 TTT-TAAATAAAATTAAATT
1 TTTATAAATAAAATTAAAAT
*
11534132 TTTATTAATAAAAT
1 TTTATAAATAAAAT
11534146 AATAATTCAT
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
18 15 0.37
19 17 0.41
20 9 0.22
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
TTTATAAATAAAATTAAAAT
Found at i:11534152 original size:21 final size:18
Alignment explanation
Indices: 11534107--11534152 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
11534097 TAAAAATTAT
11534107 TAAAATTTTTAAATAAAA
1 TAAAATTTTTAAATAAAA
*
11534125 TTAAATTTTTATTAATAAAA
1 TAAAATTTTTA--AATAAAA
11534145 TAATAATT
1 TAA-AATT
11534153 CATGTCGAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 10 0.43
20 9 0.39
21 4 0.17
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TAAAATTTTTAAATAAAA
Found at i:11534259 original size:2 final size:2
Alignment explanation
Indices: 11534252--11534282 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
11534242 AAGAACAAGA
11534252 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 A
11534283 AACAGTTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11534737 original size:22 final size:22
Alignment explanation
Indices: 11534696--11534765 Score: 117
Period size: 22 Copynumber: 3.3 Consensus size: 22
11534686 TTAATTTTAT
11534696 ATTTATA-TTAAAA-AATAATA
1 ATTTATATTTAAAATAATAATA
*
11534716 TTTTATATTTAAAATAATAATA
1 ATTTATATTTAAAATAATAATA
11534738 ATTTATATTTAAAATAATAATA
1 ATTTATATTTAAAATAATAATA
11534760 ATTTAT
1 ATTTAT
11534766 TAATTTTGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
20 6 0.13
21 6 0.13
22 34 0.74
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
ATTTATATTTAAAATAATAATA
Found at i:11535828 original size:33 final size:29
Alignment explanation
Indices: 11535754--11535818 Score: 98
Period size: 29 Copynumber: 2.3 Consensus size: 29
11535744 CTTATATCAT
11535754 AGTA-AAAGAGTTTATATATTTTTTTTAG
1 AGTAGAAAGAGTTTATATATTTTTTTTAG
*
11535782 AGTAGAAAGAGTTTATGTATTTTTTTTTA-
1 AGTAGAAAGAGTTTATATA-TTTTTTTTAG
11535811 AGTAGAAA
1 AGTAGAAA
11535819 TTAAGAGTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
28 4 0.12
29 21 0.62
30 9 0.26
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.46
Consensus pattern (29 bp):
AGTAGAAAGAGTTTATATATTTTTTTTAG
Found at i:11536455 original size:16 final size:16
Alignment explanation
Indices: 11536436--11536477 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
11536426 TTAATGCTAA
11536436 ATTTATTTAATTTTAT
1 ATTTATTTAATTTTAT
*
11536452 ATTTAATTT-ATTTTTT
1 ATTT-ATTTAATTTTAT
11536468 A-TTATTTAAT
1 ATTTATTTAAT
11536478 AATATTGTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
14 4 0.17
15 4 0.17
16 11 0.48
17 4 0.17
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
ATTTATTTAATTTTAT
Found at i:11537169 original size:135 final size:131
Alignment explanation
Indices: 11536996--11537261 Score: 480
Period size: 135 Copynumber: 2.0 Consensus size: 131
11536986 TTAAAAAGGG
11536996 AAGAATCCTTGATGCAAGAAAACGATGTAAAGGAAGAAAATTCCAAATACAAGAAAAAAAGAAGT
1 AAGAATCCTTGATGCAAGAAAACGATGTAAAGGAAGAAAATTCCAAATACAAGAAAAAAAGAAGT
11537061 AATTAAAGCAACTAAATCAACCATTTCAT-AAAACTTTTTTTTTTTTTTCCTTTTGTCTCAAACA
66 AATTAAAGCAACTAAATCAACCATTTCATCAAAAC---TTTTTTTTTTTCCTTTTGTCTCAAACA
11537125 AAGT
128 AAGT
11537129 AAGAATCCTTATGATGCAAGAAAACGATGTAAAGGAAGAAAATTCCAAATACAAGAAAAAAAGAA
1 AAGAATCC-T-TGATGCAAGAAAACGATGTAAAGGAAGAAAATTCCAAATACAAGAAAAAAAGAA
11537194 GTAATTAAAGCAACTAAATCAACCATTTCATCAAAACTTTTTTTTTTTCCTTTTGTCTCAAACAA
64 GTAATTAAAGCAACTAAATCAACCATTTCATCAAAACTTTTTTTTTTTCCTTTTGTCTCAAACAA
11537259 AGT
129 AGT
11537262 TGGAACTCGT
Statistics
Matches: 130, Mismatches: 0, Indels: 6
0.96 0.00 0.04
Matches are distributed among these distances:
133 39 0.30
134 1 0.01
135 85 0.65
136 5 0.04
ACGTcount: A:0.45, C:0.15, G:0.11, T:0.29
Consensus pattern (131 bp):
AAGAATCCTTGATGCAAGAAAACGATGTAAAGGAAGAAAATTCCAAATACAAGAAAAAAAGAAGT
AATTAAAGCAACTAAATCAACCATTTCATCAAAACTTTTTTTTTTTCCTTTTGTCTCAAACAAAG
T
Found at i:11542603 original size:30 final size:30
Alignment explanation
Indices: 11542569--11542629 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
11542559 TAATACATTA
11542569 AGAAAGTTCTAGAATAATTTAATATGTAAG
1 AGAAAGTTCTAGAATAATTTAATATGTAAG
11542599 AGAAAGTTCTAGAATAATTTAATATGTAAG
1 AGAAAGTTCTAGAATAATTTAATATGTAAG
11542629 A
1 A
11542630 TTGCAAGCCG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.48, C:0.03, G:0.16, T:0.33
Consensus pattern (30 bp):
AGAAAGTTCTAGAATAATTTAATATGTAAG
Found at i:11545490 original size:2 final size:2
Alignment explanation
Indices: 11545483--11545512 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
11545473 TGCTTTATTG
*
11545483 AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11545513 GTTGATTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:11553660 original size:2 final size:2
Alignment explanation
Indices: 11553653--11553699 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
11553643 ATAACATTGG
*
11553653 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11553695 AT AT A
1 AT AT A
11553700 CACCAAATTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:11554058 original size:5 final size:5
Alignment explanation
Indices: 11554048--11554076 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
11554038 ATAATAAATC
11554048 AATTA AATTA AATTA AATTA AATTA AATT
1 AATTA AATTA AATTA AATTA AATTA AATT
11554077 TCTTTTATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
AATTA
Found at i:11555358 original size:22 final size:21
Alignment explanation
Indices: 11555330--11555401 Score: 69
Period size: 21 Copynumber: 3.4 Consensus size: 21
11555320 TAATAAGTAA
*
11555330 AATAATAATTAAAGATGAAAAT
1 AATAATAAATAAA-ATGAAAAT
* *
11555352 AATAATAAGTAAAAAGAAAA-
1 AATAATAAATAAAATGAAAAT
11555372 AATCTAA-AAATAAAATGAAAAT
1 AA--TAATAAATAAAATGAAAAT
11555394 AA-AATAAA
1 AATAATAAA
11555402 ATTACAATAA
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
19 2 0.05
20 5 0.12
21 18 0.43
22 17 0.40
ACGTcount: A:0.71, C:0.01, G:0.07, T:0.21
Consensus pattern (21 bp):
AATAATAAATAAAATGAAAAT
Found at i:11555397 original size:16 final size:16
Alignment explanation
Indices: 11555378--11555413 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
11555368 AAAAAATCTA
11555378 AAAATAAAATGAAAAT
1 AAAATAAAATGAAAAT
* *
11555394 AAAATAAAATTACAAT
1 AAAATAAAATGAAAAT
11555410 AAAA
1 AAAA
11555414 AATAGGATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.19
Consensus pattern (16 bp):
AAAATAAAATGAAAAT
Found at i:11562045 original size:17 final size:17
Alignment explanation
Indices: 11562001--11562046 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
11561991 ATGCAATGAC
*
11562001 ATGATGAATGAATGATG
1 ATGATGCATGAATGATG
11562018 ATGAT-CTATGAATGAGTG
1 ATGATGC-ATGAATGA-TG
11562036 A-GATGCATGAA
1 ATGATGCATGAA
11562047 ATGAATGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
17 21 0.84
18 4 0.16
ACGTcount: A:0.39, C:0.04, G:0.28, T:0.28
Consensus pattern (17 bp):
ATGATGCATGAATGATG
Found at i:11563548 original size:25 final size:29
Alignment explanation
Indices: 11563520--11563575 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 29
11563510 TAAAAATTTC
11563520 AATTTAAAG-TAATGA-G-TAA-AATAAT
1 AATTTAAAGATAATGATGATAATAATAAT
*
11563545 AA-TTAAAGATGATGATGATAATAATAAT
1 AATTTAAAGATAATGATGATAATAATAAT
11563573 AAT
1 AAT
11563576 AAGTAAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
24 6 0.24
25 7 0.28
26 1 0.04
27 3 0.12
28 8 0.32
ACGTcount: A:0.55, C:0.00, G:0.12, T:0.32
Consensus pattern (29 bp):
AATTTAAAGATAATGATGATAATAATAAT
Found at i:11563609 original size:25 final size:25
Alignment explanation
Indices: 11563581--11563636 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
11563571 ATAATAAGTA
11563581 AAAATCA-AAAAAATAAAATGAAAAT
1 AAAATCAGAAAAAATAAAAT-AAAAT
* *
11563606 AAAAT-AGACAAAGTAAAATAAAAT
1 AAAATCAGAAAAAATAAAATAAAAT
*
11563630 AGAATCA
1 AAAATCA
11563637 CAACAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 10 0.38
25 16 0.62
ACGTcount: A:0.71, C:0.05, G:0.07, T:0.16
Consensus pattern (25 bp):
AAAATCAGAAAAAATAAAATAAAAT
Found at i:11564419 original size:22 final size:23
Alignment explanation
Indices: 11564393--11564435 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
11564383 TAAAAATAAT
*
11564393 TTAAAAG-TAGATAAAGAAAAGA
1 TTAAAAGATAAATAAAGAAAAGA
*
11564415 TTAAAAGATAAATAAATAAAA
1 TTAAAAGATAAATAAAGAAAA
11564436 CAAACAAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.67, C:0.00, G:0.12, T:0.21
Consensus pattern (23 bp):
TTAAAAGATAAATAAAGAAAAGA
Found at i:11572363 original size:77 final size:73
Alignment explanation
Indices: 11572250--11572411 Score: 171
Period size: 73 Copynumber: 2.2 Consensus size: 73
11572240 ATTCTGAAAT
* * * * * ** *
11572250 ATAATTTTTTTTCATATTTTCAATAAAGATTACATTTTTCTTATCATAAAAATGTTGTCTTTGTT
1 ATAAATTTTTTTCATACTTTCAACAAAAACTACA--TTT-TTATCATAAAAA-CATATCTTTGTT
11572315 AAATTATAAAAA
62 AAATTATAAAAA
* * *
11572327 ATAGATTTTTTTCATACTTTCAACAAAAACTGCATTTTTATCTTAAAAACATATCTTTGTTAAAT
1 ATAAATTTTTTTCATACTTTCAACAAAAACTACATTTTTATCATAAAAACATATCTTTGTTAAAT
*
11572392 TCTAAAAA
66 TATAAAAA
*
11572400 GTAAATTTTTTT
1 ATAAATTTTTTT
11572412 TTTCATATTT
Statistics
Matches: 71, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
73 30 0.42
74 11 0.15
75 3 0.04
77 27 0.38
ACGTcount: A:0.38, C:0.10, G:0.05, T:0.48
Consensus pattern (73 bp):
ATAAATTTTTTTCATACTTTCAACAAAAACTACATTTTTATCATAAAAACATATCTTTGTTAAAT
TATAAAAA
Found at i:11583592 original size:34 final size:34
Alignment explanation
Indices: 11583554--11583619 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
11583544 ATGTTTTTAT
*
11583554 CATTACTATATATTTAATAGTATGTAACTCCTGC
1 CATTACTATATATTTAATAGTATATAACTCCTGC
11583588 CATTACTATATATTTAATAGTATATAACTCCT
1 CATTACTATATATTTAATAGTATATAACTCCT
11583620 AATAATACTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.35, C:0.17, G:0.06, T:0.42
Consensus pattern (34 bp):
CATTACTATATATTTAATAGTATATAACTCCTGC
Found at i:11583629 original size:34 final size:34
Alignment explanation
Indices: 11583557--11583629 Score: 101
Period size: 34 Copynumber: 2.1 Consensus size: 34
11583547 TTTTTATCAT
* ** *
11583557 TACTATATATTTAATAGTATGTAACTCCTGCCAT
1 TACTATATATTTAATAGTATATAACTCCTAACAA
*
11583591 TACTATATATTTAATAGTATATAACTCCTAATAA
1 TACTATATATTTAATAGTATATAACTCCTAACAA
11583625 TACTA
1 TACTA
11583630 ATTGTTAGAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.38, C:0.15, G:0.05, T:0.41
Consensus pattern (34 bp):
TACTATATATTTAATAGTATATAACTCCTAACAA
Found at i:11592107 original size:17 final size:19
Alignment explanation
Indices: 11592080--11592114 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
11592070 AAATTCAAAT
11592080 ATTTAATTTGG-TATGTTC
1 ATTTAATTTGGTTATGTTC
11592098 ATTT-ATTTGGTTATGTT
1 ATTTAATTTGGTTATGTT
11592115 TCATATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.20, C:0.03, G:0.17, T:0.60
Consensus pattern (19 bp):
ATTTAATTTGGTTATGTTC
Found at i:11597186 original size:21 final size:22
Alignment explanation
Indices: 11597157--11597198 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
11597147 GTTTTTTTTA
* *
11597157 AATGATTAAAGAAAAATAAAGT
1 AATGATTAAAAAAAAACAAAGT
11597179 AATG-TTAAAAAAAAACAAAG
1 AATGATTAAAAAAAAACAAAG
11597199 AAATTTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.67, C:0.02, G:0.12, T:0.19
Consensus pattern (22 bp):
AATGATTAAAAAAAAACAAAGT
Found at i:11597792 original size:19 final size:19
Alignment explanation
Indices: 11597770--11597820 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 19
11597760 AAATATAAAA
11597770 TGAAATTTTAAATCCTAGG
1 TGAAATTTTAAATCCTAGG
* * *
11597789 TGAAATCTAAAACCCTAGG
1 TGAAATTTTAAATCCTAGG
* *
11597808 TGAGACTTTAAAT
1 TGAAATTTTAAAT
11597821 TATAGGTGAG
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (19 bp):
TGAAATTTTAAATCCTAGG
Found at i:11598061 original size:21 final size:20
Alignment explanation
Indices: 11598032--11598070 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
11598022 ATATAATTCC
*
11598032 TTAATCAAAACAATAATAAAA
1 TTAAACAAAACAA-AATAAAA
*
11598053 TTAAACAAAATAAAATAA
1 TTAAACAAAACAAAATAA
11598071 TAAAAGTGGG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (20 bp):
TTAAACAAAACAAAATAAAA
Found at i:11598066 original size:15 final size:16
Alignment explanation
Indices: 11598039--11598068 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
11598029 TCCTTAATCA
11598039 AAACAATAATAAAATT
1 AAACAATAATAAAATT
11598055 AAACAA-AATAAAAT
1 AAACAATAATAAAAT
11598069 AATAAAAGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (16 bp):
AAACAATAATAAAATT
Found at i:11602870 original size:15 final size:13
Alignment explanation
Indices: 11602842--11602867 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11602832 ATGAAATAAG
11602842 GAAAAAAGAGAAA
1 GAAAAAAGAGAAA
11602855 GAAAAAAGAGAAA
1 GAAAAAAGAGAAA
11602868 AAGGTTGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (13 bp):
GAAAAAAGAGAAA
Found at i:11604177 original size:26 final size:24
Alignment explanation
Indices: 11604147--11604209 Score: 72
Period size: 26 Copynumber: 2.5 Consensus size: 24
11604137 TCCATTTAAA
**
11604147 GAAAATAAAAAAAAAAGTGAAAGAGT
1 GAAAA-AAAAAAAAAAAAGAAAGA-T
11604173 GAAAAAAAAATGAAAAAAAGAAAGAT
1 GAAAAAAAAA--AAAAAAAGAAAGAT
11604199 GAAAAAAAAAA
1 GAAAAAAAAAA
11604210 CGTGAAAGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 1 0.03
25 5 0.15
26 16 0.48
27 11 0.33
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (24 bp):
GAAAAAAAAAAAAAAAAGAAAGAT
Found at i:11604188 original size:27 final size:26
Alignment explanation
Indices: 11604156--11604208 Score: 79
Period size: 26 Copynumber: 1.9 Consensus size: 26
11604146 AGAAAATAAA
11604156 AAAAAAAGTGAAAGAGTGAAAAAAAAATG
1 AAAAAAA--GAAAGA-TGAAAAAAAAATG
11604185 AAAAAAAGAAAGATGAAAAAAAAA
1 AAAAAAAGAAAGATGAAAAAAAAA
11604209 ACGTGAAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 11 0.46
27 6 0.25
29 7 0.29
ACGTcount: A:0.75, C:0.00, G:0.17, T:0.08
Consensus pattern (26 bp):
AAAAAAAGAAAGATGAAAAAAAAATG
Found at i:11604193 original size:45 final size:47
Alignment explanation
Indices: 11604144--11604251 Score: 132
Period size: 47 Copynumber: 2.3 Consensus size: 47
11604134 GGATCCATTT
**
11604144 AAAGAAAATAAAAAAAAAA-GTGAAAGAGTGAA-AAAA-AAATGAAAA
1 AAAGAAAATAAAAAAAAAACGTGAAAGAAAGAAGAAAAGAAA-GAAAA
*
11604189 AAAGAAAGATGAAAAAAAAAACGTGAAAGAAAGAAGAAAAGAAAGAAAG
1 AAAGAAA-AT-AAAAAAAAAACGTGAAAGAAAGAAGAAAAGAAAGAAAA
*
11604238 AAAGAAAAGAAAAA
1 AAAGAAAATAAAAA
11604252 GAATGAATGG
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
45 7 0.13
46 2 0.04
47 15 0.28
48 12 0.22
49 15 0.28
50 3 0.06
ACGTcount: A:0.75, C:0.01, G:0.19, T:0.06
Consensus pattern (47 bp):
AAAGAAAATAAAAAAAAAACGTGAAAGAAAGAAGAAAAGAAAGAAAA
Found at i:11604195 original size:19 final size:20
Alignment explanation
Indices: 11604154--11604195 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
11604144 AAAGAAAATA
* **
11604154 AAAAAAAAAGTGAAAGAGTG
1 AAAAAAAAAGTGAAAAAAAG
11604174 AAAAAAAAA-TGAAAAAAAG
1 AAAAAAAAAGTGAAAAAAAG
11604193 AAA
1 AAA
11604196 GATGAAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (20 bp):
AAAAAAAAAGTGAAAAAAAG
Found at i:11605179 original size:29 final size:28
Alignment explanation
Indices: 11605137--11605220 Score: 80
Period size: 29 Copynumber: 2.9 Consensus size: 28
11605127 CGAGAAAGAA
*
11605137 TTTAAGCCAAGTTTAGTTGGCACCCAGGT
1 TTTAAGCCCAGTTTA-TTGGCACCCAGGT
* ** *
11605166 TTTAAGCCCAGTTTAACTAACACCTAGGT
1 TTTAAGCCCAGTTT-ATTGGCACCCAGGT
11605195 TTTAAGCCCA-TATTATCTGGCACCCA
1 TTTAAGCCCAGT-TTAT-TGGCACCCA
11605221 TGAAAATTTA
Statistics
Matches: 43, Mismatches: 9, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
28 2 0.05
29 40 0.93
30 1 0.02
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (28 bp):
TTTAAGCCCAGTTTATTGGCACCCAGGT
Found at i:11605654 original size:96 final size:96
Alignment explanation
Indices: 11605523--11605697 Score: 212
Period size: 96 Copynumber: 1.8 Consensus size: 96
11605513 CCAATGAACT
* * ** * *
11605523 TTAAGCCCAATTTATTTGGAACCTAATGAGTTTTAAGCTTAGATT-ATCTAGCACGC-AATGCAA
1 TTAAGCCCAATTTAGTTGGAACCTAATAAAATTTAAGCCTAGATTCA-CTAGCAC-CAAATGAAA
*
11605586 ATTTAAGTCTAGATTATCTGGCACCTATAGAAA
64 ATTTAAGCCTAGATTATCTGGCACCTATAGAAA
* * *
11605619 TTAAGCCCAATTTAGTTGGCACC-AATAAAAATTTAAGCCTAGTTTCACTAGTACCAAATGAAAA
1 TTAAGCCCAATTTAGTTGGAACCTAAT-AAAATTTAAGCCTAGATTCACTAGCACCAAATGAAAA
11605683 TTTAAGCCTAGATTA
65 TTTAAGCCTAGATTA
11605698 GTTGGCAACC
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
95 4 0.06
96 61 0.92
97 1 0.02
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32
Consensus pattern (96 bp):
TTAAGCCCAATTTAGTTGGAACCTAATAAAATTTAAGCCTAGATTCACTAGCACCAAATGAAAAT
TTAAGCCTAGATTATCTGGCACCTATAGAAA
Found at i:11605712 original size:33 final size:31
Alignment explanation
Indices: 11605554--11605725 Score: 134
Period size: 33 Copynumber: 5.3 Consensus size: 31
11605544 CCTAATGAGT
* * *
11605554 TTTAAGCTTAGATTATCTAGCACGCAATGCAAA
1 TTTAAGCCTAGATTAT-TGGCAC-CAATGAAAA
* *
11605587 TTTAAGTCTAGATTATCTGGCACCTAT-AGAAA
1 TTTAAGCCTAGATTAT-TGGCACCAATGA-AAA
* *
11605619 -TTAAGCCCA-ATTTAGTTGGCACCAATAAAAA
1 TTTAAGCCTAGA-TTA-TTGGCACCAATGAAAA
* * * *
11605650 TTTAAGCCTAGTTTCACTAGTACCAAATGAAAA
1 TTTAAGCCTAGATT-ATTGGCACC-AATGAAAA
11605683 TTTAAGCCTAGATTAGTTGGCAACCAATGAAAA
1 TTTAAGCCTAGATTA-TTGGC-ACCAATGAAAA
11605716 TTTAAGCCTA
1 TTTAAGCCTA
11605726 TTTTGGCTGG
Statistics
Matches: 111, Mismatches: 18, Indels: 20
0.74 0.12 0.13
Matches are distributed among these distances:
30 1 0.01
31 22 0.20
32 24 0.22
33 61 0.55
34 3 0.03
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (31 bp):
TTTAAGCCTAGATTATTGGCACCAATGAAAA
Found at i:11605773 original size:30 final size:30
Alignment explanation
Indices: 11605733--11605798 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 30
11605723 CTATTTTGGC
* *
11605733 TGGCACCTAGGTTTTAAGCCCAGTATTAGT
1 TGGCATCTAGGTTTTAAGCCCAATATTAGT
11605763 TGGCATCTAGGTTTTAAGCCCAATATTAGT
1 TGGCATCTAGGTTTTAAGCCCAATATTAGT
11605793 TGGCAT
1 TGGCAT
11605799 TGAGAAGTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (30 bp):
TGGCATCTAGGTTTTAAGCCCAATATTAGT
Found at i:11606362 original size:18 final size:17
Alignment explanation
Indices: 11606324--11606375 Score: 54
Period size: 16 Copynumber: 3.0 Consensus size: 17
11606314 TTAGGAACTT
11606324 CAAA-AAAAAAAAAAAA
1 CAAACAAAAAAAAAAAA
*
11606340 C-AACAAAAAAATAATAA
1 CAAACAAAAAAA-AAAAA
11606357 CAAACAAAAGACAAAAAAA
1 CAAACAAAA-A-AAAAAAA
11606376 GGAAAAACTT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
15 2 0.07
16 8 0.28
17 5 0.17
18 7 0.24
19 5 0.17
20 2 0.07
ACGTcount: A:0.83, C:0.12, G:0.02, T:0.04
Consensus pattern (17 bp):
CAAACAAAAAAAAAAAA
Found at i:11607898 original size:46 final size:46
Alignment explanation
Indices: 11607831--11607923 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
11607821 AAACAAACGT
11607831 AAAAGGCAAAAGAGAAAAGAATAGTAGAATTTGTAGTAAAGGTGAG
1 AAAAGGCAAAAGAGAAAAGAATAGTAGAATTTGTAGTAAAGGTGAG
11607877 AAAAGGCAAAAGAGAAAAGAATAGTAGAATTTGTAGTAAAGGTGAG
1 AAAAGGCAAAAGAGAAAAGAATAGTAGAATTTGTAGTAAAGGTGAG
11607923 A
1 A
11607924 CCGAAACCCT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.53, C:0.02, G:0.28, T:0.17
Consensus pattern (46 bp):
AAAAGGCAAAAGAGAAAAGAATAGTAGAATTTGTAGTAAAGGTGAG
Found at i:11610447 original size:158 final size:158
Alignment explanation
Indices: 11610158--11610472 Score: 359
Period size: 158 Copynumber: 2.0 Consensus size: 158
11610148 AATACACAAC
* ** * *
11610158 AGTTTTCACCTTTCACAAAGTTATTGCATCTAAATATGCATAAAACACTATCTAGTTCAATACTA
1 AGTTTTCACCTTTCACAAAGTCATTGCATCTAAATACACACAAAACACTATCTAGTTCAATACAA
* * * * * *
11610223 AATTTCCTACTATTTTAAGGCTTTAAATTACTATAGCAATAGTTTATCAACAAGCGCAATACACA
66 AATTTCCTACAAATTTAAGGCTTTAAATTACTACAGAAATAGTTCATCAACAAGCACAATACACA
* * **
11610288 ACCAGAATCACTAAGCAAAATATGCAAT
131 ACAAGAAACAAAAAGCAAAATATGCAAT
* * *
11610316 AGTTTTCACTTTTCACAAAGTCATTGTAT-TATAATACACACAATACACTATCTAGTTCAATA-A
1 AGTTTTCACCTTTCACAAAGTCATTGCATCTA-AATACACACAAAACACTATCTAGTTCAATACA
* * **
11610379 AGAATTTTCTACAAAATTT-AGGCTTTCAATTACTACA-AAAGTAGTTCATTGACAAGCACAATA
65 A-AATTTCCTAC-AAATTTAAGGCTTTAAATTACTACAGAAA-TAGTTCATCAACAAGCACAATA
*
11610442 TACAACAAGAAACAAAAAGCAAAATATGCAA
127 CACAACAAGAAACAAAAAGCAAAATATGCAA
11610473 CAATAAAAGT
Statistics
Matches: 130, Mismatches: 23, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
157 5 0.04
158 121 0.93
159 4 0.03
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.30
Consensus pattern (158 bp):
AGTTTTCACCTTTCACAAAGTCATTGCATCTAAATACACACAAAACACTATCTAGTTCAATACAA
AATTTCCTACAAATTTAAGGCTTTAAATTACTACAGAAATAGTTCATCAACAAGCACAATACACA
ACAAGAAACAAAAAGCAAAATATGCAAT
Found at i:11614355 original size:20 final size:20
Alignment explanation
Indices: 11614332--11614377 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
11614322 TGCATGCACA
*
11614332 CACACATCATCAAACATAAG
1 CACACATCATCAAACACAAG
*
11614352 CACACGTCATCAAACACAAG
1 CACACATCATCAAACACAAG
11614372 CACACA
1 CACACA
11614378 CCATTAGCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.48, C:0.35, G:0.07, T:0.11
Consensus pattern (20 bp):
CACACATCATCAAACACAAG
Found at i:11614519 original size:56 final size:56
Alignment explanation
Indices: 11614452--11614557 Score: 167
Period size: 56 Copynumber: 1.9 Consensus size: 56
11614442 CATAAGCACA
* *
11614452 CATTATTAGCCATTTCATAATTAAGGGGATAATAAAAATCATTAGACACAAGCATG
1 CATTATCAGCCATTTCATAATTAAGGGGATAATAAAAATAATTAGACACAAGCATG
* * *
11614508 CATTATCAGCCATTTCATAGTTAATGGGATAATAAAGATAATTAGACACA
1 CATTATCAGCCATTTCATAATTAAGGGGATAATAAAAATAATTAGACACA
11614558 TACAGGCATG
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 45 1.00
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.29
Consensus pattern (56 bp):
CATTATCAGCCATTTCATAATTAAGGGGATAATAAAAATAATTAGACACAAGCATG
Found at i:11620038 original size:19 final size:20
Alignment explanation
Indices: 11619989--11620038 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 20
11619979 AAGATTGAAT
* *
11619989 TTTGGTGAATCTTAAAATGC
1 TTTGGTGAATCCTAAAATGA
*
11620009 TTTGGAT-AATCCTAATA-GA
1 TTTGG-TGAATCCTAAAATGA
11620028 TTTGGTGAATC
1 TTTGGTGAATC
11620039 TTGGATGGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
18 1 0.04
19 10 0.40
20 13 0.52
21 1 0.04
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (20 bp):
TTTGGTGAATCCTAAAATGA
Found at i:11621573 original size:143 final size:143
Alignment explanation
Indices: 11621315--11621602 Score: 542
Period size: 143 Copynumber: 2.0 Consensus size: 143
11621305 CTTGCTTTAG
11621315 TTTATGATTAGGGGAACATACCGATCTTTCTAATATTTTAGGTTTTCTTTATTGTTTTCAAAGTT
1 TTTATGATTAGGGGAACATACCGATCTTTCTAATATTTTAGGTTTTCTTTATTGTTTTCAAAGTT
11621380 CGTAAGCTTTCTTTACTTTGTTTCAATTTAATCAAGCTTCATTTCAATTTTTCAATCTAATTTAA
66 CGTAAGCTTTCTTTACTTTGTTTCAATTTAATCAAGCTTCATTTCAATTTTTCAATCTAATTTAA
11621445 GTTCTATTTTATT
131 GTTCTATTTTATT
11621458 TTTATGATTAGGGGAACATACCGATCTTTCTAAT-TGTTTAGGTTTTCTTTATTGTTTTCAAAGT
1 TTTATGATTAGGGGAACATACCGATCTTTCTAATAT-TTTAGGTTTTCTTTATTGTTTTCAAAGT
* *
11621522 TCTTAAGCTTTCTTTACTTTGTTTCAATTTAATCAAGCTTCATTTCAATTTTTCAATTTAATTTA
65 TCGTAAGCTTTCTTTACTTTGTTTCAATTTAATCAAGCTTCATTTCAATTTTTCAATCTAATTTA
11621587 AGTTCTATTTTATT
130 AGTTCTATTTTATT
11621601 TT
1 TT
11621603 CAATTCAAAG
Statistics
Matches: 142, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
142 1 0.01
143 141 0.99
ACGTcount: A:0.25, C:0.13, G:0.10, T:0.52
Consensus pattern (143 bp):
TTTATGATTAGGGGAACATACCGATCTTTCTAATATTTTAGGTTTTCTTTATTGTTTTCAAAGTT
CGTAAGCTTTCTTTACTTTGTTTCAATTTAATCAAGCTTCATTTCAATTTTTCAATCTAATTTAA
GTTCTATTTTATT
Found at i:11623487 original size:21 final size:20
Alignment explanation
Indices: 11623447--11623488 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
11623437 ATAGCTAAGG
11623447 ATTTCTTAAATCTAATAAAA
1 ATTTCTTAAATCTAATAAAA
*
11623467 ATTTCTTACAATC-AATCAAA
1 ATTTCTTA-AATCTAATAAAA
11623487 AT
1 AT
11623489 GAGAGCTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (20 bp):
ATTTCTTAAATCTAATAAAA
Found at i:11627538 original size:17 final size:18
Alignment explanation
Indices: 11627498--11627539 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
11627488 TTTCATATCA
*
11627498 TCAATGATAAAATCACTT
1 TCAATAATAAAATCACTT
*
11627516 T-GATAATAAAATCA-TT
1 TCAATAATAAAATCACTT
11627532 TCAATAAT
1 TCAATAAT
11627540 TACATTATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
16 3 0.15
17 16 0.80
18 1 0.05
ACGTcount: A:0.48, C:0.12, G:0.05, T:0.36
Consensus pattern (18 bp):
TCAATAATAAAATCACTT
Found at i:11628730 original size:25 final size:25
Alignment explanation
Indices: 11628673--11628719 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
11628663 AAATTATAAT
* *
11628673 AATAAT-TTTAAATTATTATCTTTA
1 AATAATATTGAAATTATTAACTTTA
11628697 AATAATATTGAAATTATTAACTT
1 AATAATATTGAAATTATTAACTT
11628720 ATATAACTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (25 bp):
AATAATATTGAAATTATTAACTTTA
Found at i:11628904 original size:17 final size:17
Alignment explanation
Indices: 11628870--11628905 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
11628860 ACCACGAGTT
*
11628870 ATAAGATCACTTTAGTG
1 ATAAGATCACCTTAGTG
*
11628887 ATAAGATCACCTTGGTG
1 ATAAGATCACCTTAGTG
11628904 AT
1 AT
11628906 TAAATTACCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.33
Consensus pattern (17 bp):
ATAAGATCACCTTAGTG
Found at i:11629459 original size:28 final size:29
Alignment explanation
Indices: 11629403--11629463 Score: 81
Period size: 28 Copynumber: 2.1 Consensus size: 29
11629393 TTGAAAAAAA
*
11629403 GAAAGATTTATTATATTATATTTGTTAAT
1 GAAAGATTTATTAAATTATATTTGTTAAT
*
11629432 GAAAG-TTTAATTAAATTAT-TTTTTTAAT
1 GAAAGATTT-ATTAAATTATATTTGTTAAT
11629460 GAAA
1 GAAA
11629464 TTTGAACTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 15 0.52
29 14 0.48
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (29 bp):
GAAAGATTTATTAAATTATATTTGTTAAT
Found at i:11631035 original size:13 final size:12
Alignment explanation
Indices: 11630979--11631033 Score: 58
Period size: 12 Copynumber: 4.5 Consensus size: 12
11630969 ATATTTAAAA
11630979 ATTTTTAAATAT
1 ATTTTTAAATAT
* *
11630991 ATTTTTTTAATTAC
1 A--TTTTTAAATAT
*
11631005 ACTTTTAAATAT
1 ATTTTTAAATAT
11631017 ATTTTTAAA-AT
1 ATTTTTAAATAT
11631028 ATTTTT
1 ATTTTT
11631034 TTTCAAAAAG
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
11 8 0.23
12 17 0.49
14 10 0.29
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (12 bp):
ATTTTTAAATAT
Found at i:11632854 original size:20 final size:22
Alignment explanation
Indices: 11632829--11632871 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
11632819 TATCTATTTC
*
11632829 TTTAGATTTTTGA-ATAA-ATT
1 TTTAGATTGTTGACATAAGATT
11632849 TTTAGATTGTTGACATAAGATT
1 TTTAGATTGTTGACATAAGATT
11632871 T
1 T
11632872 ATGGCATTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 12 0.60
21 4 0.20
22 4 0.20
ACGTcount: A:0.33, C:0.02, G:0.14, T:0.51
Consensus pattern (22 bp):
TTTAGATTGTTGACATAAGATT
Found at i:11643198 original size:9 final size:9
Alignment explanation
Indices: 11643180--11643227 Score: 55
Period size: 9 Copynumber: 5.4 Consensus size: 9
11643170 AAAAATAATT
*
11643180 ATTAAAAAA
1 ATTAATAAA
11643189 ATTAATAAA
1 ATTAATAAA
*
11643198 AATATATAAA
1 ATTA-ATAAA
11643208 ATTAATAAA
1 ATTAATAAA
11643217 A--AATAAA
1 ATTAATAAA
11643224 ATTA
1 ATTA
11643228 TTTTTATAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
7 7 0.21
9 18 0.55
10 8 0.24
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (9 bp):
ATTAATAAA
Found at i:11643289 original size:2 final size:2
Alignment explanation
Indices: 11643282--11643316 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
11643272 AGTGGTTATC
11643282 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
11643317 CACACACACA
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:11650380 original size:39 final size:39
Alignment explanation
Indices: 11650330--11650408 Score: 106
Period size: 39 Copynumber: 2.0 Consensus size: 39
11650320 TTTTTGAAAT
* *
11650330 CCAAAACCCTAGGTGAGATCCTAAA-CTATAGGTGAAACC
1 CCAAAACCCTAGGTGAAACCCTAAATCT-TAGGTGAAACC
* *
11650369 CCAAAATCCTAGGTGAAACCCTAAATCTTAGGTGTAACC
1 CCAAAACCCTAGGTGAAACCCTAAATCTTAGGTGAAACC
11650408 C
1 C
11650409 GACAGCTTAG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 33 0.94
40 2 0.06
ACGTcount: A:0.37, C:0.27, G:0.16, T:0.20
Consensus pattern (39 bp):
CCAAAACCCTAGGTGAAACCCTAAATCTTAGGTGAAACC
Found at i:11650400 original size:19 final size:19
Alignment explanation
Indices: 11650339--11650426 Score: 79
Period size: 19 Copynumber: 4.6 Consensus size: 19
11650329 TCCAAAACCC
* *
11650339 TAGGTGAGATCCTAAA-CT
1 TAGGTGAAACCCTAAATCT
* *
11650357 ATAGGTGAAACCCCAAAATCC
1 -TAGGTGAAA-CCCTAAATCT
11650378 TAGGTGAAACCCTAAATCT
1 TAGGTGAAACCCTAAATCT
* * * *
11650397 TAGGTGTAACCCGACAGCT
1 TAGGTGAAACCCTAAATCT
11650416 TAGGTGAAACC
1 TAGGTGAAACC
11650427 TGAAACCTTA
Statistics
Matches: 56, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
19 41 0.73
20 14 0.25
21 1 0.02
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (19 bp):
TAGGTGAAACCCTAAATCT
Found at i:11650436 original size:19 final size:19
Alignment explanation
Indices: 11650378--11650436 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
11650368 CCCAAAATCC
*
11650378 TAGGTGAAACCCT-AAATCT
1 TAGGTGAAA-CCTGAAACCT
* * * *
11650397 TAGGTGTAACCCGACAGCT
1 TAGGTGAAACCTGAAACCT
11650416 TAGGTGAAACCTGAAACCT
1 TAGGTGAAACCTGAAACCT
11650435 TA
1 TA
11650437 AATAAAACTT
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
18 2 0.06
19 29 0.94
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (19 bp):
TAGGTGAAACCTGAAACCT
Found at i:11650815 original size:2 final size:2
Alignment explanation
Indices: 11650808--11650849 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
11650798 TGTTATGCAC
* *
11650808 AT AT AT AT AT AT GT AT AT AT AT AT AT AT GT AT AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11650849 A
1 A
11650850 GTATTTTTCA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11650827 original size:16 final size:16
Alignment explanation
Indices: 11650808--11650853 Score: 78
Period size: 16 Copynumber: 3.0 Consensus size: 16
11650798 TGTTATGCAC
11650808 ATATATATATATGTAT
1 ATATATATATATGTAT
11650824 ATATATATATATGTAT
1 ATATATATATATGTAT
11650840 ATATAT-TATA-GTAT
1 ATATATATATATGTAT
11650854 TTTTCATTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.13
15 4 0.13
16 22 0.73
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (16 bp):
ATATATATATATGTAT
Found at i:11650937 original size:15 final size:14
Alignment explanation
Indices: 11650882--11650937 Score: 50
Period size: 13 Copynumber: 4.2 Consensus size: 14
11650872 TAAAAAGTTC
*
11650882 TTTAAAAAAT-TAG
1 TTTAAAAAATATAA
11650895 TTTAAAAAATATAA
1 TTTAAAAAATATAA
11650909 -TT--AAAATA-ACA
1 TTTAAAAAATATA-A
11650920 TTTCAAAAAATATAA
1 TTT-AAAAAATATAA
11650935 TTT
1 TTT
11650938 TTGGTATTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 12
0.73 0.02 0.25
Matches are distributed among these distances:
10 1 0.03
11 7 0.20
12 2 0.06
13 12 0.34
14 2 0.06
15 10 0.29
16 1 0.03
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.38
Consensus pattern (14 bp):
TTTAAAAAATATAA
Found at i:11652165 original size:3 final size:3
Alignment explanation
Indices: 11652157--11652208 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
11652147 TATTACATTA
11652157 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
11652205 AAT A
1 AAT A
11652209 TATACCATGT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:11656529 original size:41 final size:40
Alignment explanation
Indices: 11656484--11656589 Score: 122
Period size: 41 Copynumber: 2.6 Consensus size: 40
11656474 AATGTTTTCC
** *
11656484 AAGACCTCTAGGCAAAACCTTAAATTTTTTTATGATTTCTA
1 AAGACCTCTAGGCAAAACCTTAAATTTTTCAATGATATC-A
* * * *
11656525 AAGACCTCTGGGCGAAACCTTAGATTTTTCAATGATATCC
1 AAGACCTCTAGGCAAAACCTTAAATTTTTCAATGATATCA
* *
11656565 AAGACCTTTAGGCAAAATCTTAAAT
1 AAGACCTCTAGGCAAAACCTTAAAT
11656590 CTTTGATTGA
Statistics
Matches: 53, Mismatches: 12, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
40 20 0.38
41 33 0.62
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (40 bp):
AAGACCTCTAGGCAAAACCTTAAATTTTTCAATGATATCA
Found at i:11656660 original size:40 final size:40
Alignment explanation
Indices: 11656471--11656682 Score: 147
Period size: 40 Copynumber: 5.3 Consensus size: 40
11656461 TTTTAGATTA
* * *
11656471 TTGAATGTTTTCCAAGACCTCTAGGCAAAACCTTAAATTT
1 TTGAATGATTTCCAAGACCTTTGGGCAAAACCTTAAATTT
** * * * *
11656511 TTTTATGATTTCTAAAGACCTCTGGGCGAAACCTTAGATTT
1 TTGAATGATTTC-CAAGACCTTTGGGCAAAACCTTAAATTT
* * * * *
11656552 TTCAATGATATCCAAGACCTTTAGGCAAAATCTTAAATCT
1 TTGAATGATTTCCAAGACCTTTGGGCAAAACCTTAAATTT
* * * * ** *
11656592 TTGATTGATCTT-CAAGACTTTTGAGTAAAATTTTAGATTT
1 TTGAATGAT-TTCCAAGACCTTTGGGCAAAACCTTAAATTT
* * * * * *
11656632 TTTAATGATTTCTAAGATCTTTGGGTAAAACTTTAAAGTT
1 TTGAATGATTTCCAAGACCTTTGGGCAAAACCTTAAATTT
*
11656672 TTAAATGATTT
1 TTGAATGATTT
11656683 TCAAATACAT
Statistics
Matches: 132, Mismatches: 37, Indels: 6
0.75 0.21 0.03
Matches are distributed among these distances:
39 2 0.02
40 96 0.73
41 34 0.26
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.41
Consensus pattern (40 bp):
TTGAATGATTTCCAAGACCTTTGGGCAAAACCTTAAATTT
Found at i:11656803 original size:41 final size:42
Alignment explanation
Indices: 11656738--11656853 Score: 116
Period size: 41 Copynumber: 2.8 Consensus size: 42
11656728 ACCTCCAGAT
* *
11656738 AAAATTTTAAATTTTTGAAA-GATTTTCAAAGACCTTTAA-GC
1 AAAATCTT-AATTTTTTAAATGATTTTCAAAGACCTTTAAGGC
* *
11656779 GAAAT-TTCAATTTTTTAAATGATTTCCAAAGA-CTTTAAGGC
1 AAAATCTT-AATTTTTTAAATGATTTTCAAAGACCTTTAAGGC
** *
11656820 AAAATCTTAAAATTTTAAATAATTTTC-AAGACCT
1 AAAATCTTAATTTTTTAAATGATTTTCAAAGACCT
11656854 CCGAGAAAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 8
0.78 0.11 0.10
Matches are distributed among these distances:
40 22 0.35
41 38 0.61
42 2 0.03
ACGTcount: A:0.41, C:0.11, G:0.09, T:0.39
Consensus pattern (42 bp):
AAAATCTTAATTTTTTAAATGATTTTCAAAGACCTTTAAGGC
Found at i:11657217 original size:46 final size:48
Alignment explanation
Indices: 11657110--11657260 Score: 188
Period size: 46 Copynumber: 3.3 Consensus size: 48
11657100 GATCTCGTAT
* * * **
11657110 TTTATTTTCT-AAAGTCGTTGAGCTTTTATTTAAAATGAACTTTTAAA
1 TTTATTTTCTAAAAGTTGTTGAGCTTTTACTTAAAAGGAGTTTTTAAA
11657157 TTTATTTTC-AAAAGTTGTTGAGCTTTTACTTAAAA-GAGTTTTTAAA
1 TTTATTTTCTAAAAGTTGTTGAGCTTTTACTTAAAAGGAGTTTTTAAA
* * *
11657203 TTTATTTT-TAAAAGTTATGGAGCTTTTAC-TAAAAGGCGTTTTTAAA
1 TTTATTTTCTAAAAGTTGTTGAGCTTTTACTTAAAAGGAGTTTTTAAA
11657249 TTT-TTTTCTAAA
1 TTTATTTTCTAAA
11657261 TGGTCATGTC
Statistics
Matches: 93, Mismatches: 7, Indels: 9
0.85 0.06 0.08
Matches are distributed among these distances:
45 9 0.10
46 52 0.56
47 32 0.34
ACGTcount: A:0.32, C:0.07, G:0.12, T:0.49
Consensus pattern (48 bp):
TTTATTTTCTAAAAGTTGTTGAGCTTTTACTTAAAAGGAGTTTTTAAA
Found at i:11657311 original size:18 final size:18
Alignment explanation
Indices: 11657284--11657322 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
11657274 TAAATATTCT
11657284 AAAAAAAAACA-AAAAAA
1 AAAAAAAAACACAAAAAA
11657301 AAAATAAAAACACAAAAAA
1 AAAA-AAAAACACAAAAAA
11657320 AAA
1 AAA
11657323 CCTCTTGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 4 0.20
18 7 0.35
19 9 0.45
ACGTcount: A:0.90, C:0.08, G:0.00, T:0.03
Consensus pattern (18 bp):
AAAAAAAAACACAAAAAA
Found at i:11663530 original size:19 final size:21
Alignment explanation
Indices: 11663492--11663544 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
11663482 AAACCTTAAG
*
11663492 TGAAACCCTAAGTGAAAACC-
1 TGAAACCCTAAATGAAAACCT
*
11663512 TGAAACCTTAAAT-AAAACCT
1 TGAAACCCTAAATGAAAACCT
*
11663532 TGAAAACCTAAAT
1 TGAAACCCTAAAT
11663545 CTACCAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 6 0.21
20 22 0.79
ACGTcount: A:0.49, C:0.21, G:0.09, T:0.21
Consensus pattern (21 bp):
TGAAACCCTAAATGAAAACCT
Found at i:11665818 original size:7 final size:7
Alignment explanation
Indices: 11665806--11665835 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
11665796 ATAAATGAAA
11665806 ATGAATG
1 ATGAATG
11665813 ATGAATG
1 ATGAATG
11665820 ATGAATG
1 ATGAATG
11665827 ATG-ATG
1 ATGAATG
11665833 ATG
1 ATG
11665836 GTGAAGAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.40, C:0.00, G:0.30, T:0.30
Consensus pattern (7 bp):
ATGAATG
Found at i:11666410 original size:49 final size:49
Alignment explanation
Indices: 11666234--11666673 Score: 336
Period size: 49 Copynumber: 9.0 Consensus size: 49
11666224 TCCTTTATAA
* ** * *
11666234 AAGCCTTATTTTAGATGAGTTTTTCAAGAATGATA-TTTTAAAGTTTCC
1 AAGCCTTTTTTTAGAAAAGTTTTTCAAAAATGAGATTTTTAAAGTTTCC
** * * * *
11666282 AAGCCTCGTTTTAGAATAA-CTTTTCAAAAATGAGATTTATGAAGCTTCC
1 AAGCCTTTTTTTAGAA-AAGTTTTTCAAAAATGAGATTTTTAAAGTTTCC
* ** * * *
11666331 AAGCATTTTTTTTAGATGAGCTTTTCAAAAATGAGATTTTTGAAGTTTCT
1 AAGC-CTTTTTTTAGAAAAGTTTTTCAAAAATGAGATTTTTAAAGTTTCC
* * **
11666381 ATGCCTTTTTTTAGAAAAGTTTTTTAAAAACAAGATTTTT-AAGTTTCC
1 AAGCCTTTTTTTAGAAAAGTTTTTCAAAAATGAGATTTTTAAAGTTTCC
* ** * * *
11666429 AAG-CTTCTTTTGAGAGGAGTTTTTCACAAATAAGAATTTTAAAGTTTCC
1 AAGCCTT-TTTTTAGAAAAGTTTTTCAAAAATGAGATTTTTAAAGTTTCC
* ** * * * * *
11666478 TAGTGTCTTTTTAGAAAAGCTTTTCGAAAATGATATTTTTAAAGTTTCT
1 AAGCCTTTTTTTAGAAAAGTTTTTCAAAAATGAGATTTTTAAAGTTTCC
** * *
11666527 AAGCCTTTTTTTAGAGGAGTTTTTCAAAAATGAGATTTTCAAAGTTCCC
1 AAGCCTTTTTTTAGAAAAGTTTTTCAAAAATGAGATTTTTAAAGTTTCC
* ** * * * *
11666576 AAGCCTCTTTTTA-AAAGACCTTTTGAAAAATGAAAATTTTAAAGTTTCT
1 AAGCCTTTTTTTAGAAA-AGTTTTTCAAAAATGAGATTTTTAAAGTTTCC
** * * *
11666625 AAGCCTCATTTT-G-GAAGTTGTTCGAAAATGAGATTTTTAAAGTTTCC
1 AAGCCTTTTTTTAGAAAAGTTTTTCAAAAATGAGATTTTTAAAGTTTCC
11666672 AA
1 AA
11666674 ATCTCTTTTT
Statistics
Matches: 302, Mismatches: 81, Indels: 19
0.75 0.20 0.05
Matches are distributed among these distances:
47 29 0.10
48 63 0.21
49 171 0.57
50 39 0.13
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.41
Consensus pattern (49 bp):
AAGCCTTTTTTTAGAAAAGTTTTTCAAAAATGAGATTTTTAAAGTTTCC
Found at i:11666429 original size:98 final size:97
Alignment explanation
Indices: 11666242--11666670 Score: 377
Period size: 98 Copynumber: 4.4 Consensus size: 97
11666232 AAAAGCCTTA
* * * * * *
11666242 TTTTAGATGAGTTTTTCAAGAATGATA-TTTTAAAGTTTCCAAGCCTCGTTTTAGAATAA-CTTT
1 TTTTAGAGGAGTTTTTCAAAAATGAGATTTTTAAAGTTTCTATGCCTCTTTTTAGAA-AAGCTTT
* *
11666305 TCAAAAATGAGATTTATGAAGCTTCCAAGCATTTT
65 TCAAAAATGAGATTT-TTAAGTTTCCAAGC-TTTT
* * * * *
11666340 TTTTAGATGAGCTTTTCAAAAATGAGATTTTTGAAGTTTCTATGCCTTTTTTTAGAAAAGTTTTT
1 TTTTAGAGGAGTTTTTCAAAAATGAGATTTTTAAAGTTTCTATGCCTCTTTTTAGAAAAGCTTTT
* ** *
11666405 TAAAAACAAGATTTTTAAGTTTCCAAGCTTCT
66 CAAAAATGAGATTTTTAAGTTTCCAAGCTTTT
* * * *
11666437 TTTGAGAGGAGTTTTTCACAAATAAGAATTTTAAAGTTTCCTAGTG--TCTTTTTAGAAAAGCTT
1 TTTTAGAGGAGTTTTTCAAAAATGAGATTTTTAAAGTTT-CTA-TGCCTCTTTTTAGAAAAGCTT
* * * *
11666500 TTCGAAAATGATATTTTTAAAGTTTCTAAGCCTTT
64 TTCAAAAATGAGATTTTT-AAGTTTCCAAGCTTTT
* * * * *
11666535 TTTTAGAGGAGTTTTTCAAAAATGAGATTTTCAAAGTTCCCAAGCCTCTTTTTA-AAAGACCTTT
1 TTTTAGAGGAGTTTTTCAAAAATGAGATTTTTAAAGTTTCTATGCCTCTTTTTAGAAA-AGCTTT
* * * * * **
11666599 TGAAAAATGAAAATTTTAAAGTTTCTAAGCCTCA
65 TCAAAAATG-AGATTTTTAAGTTTCCAAGCTTTT
* * *
11666633 TTTT-G-GAAGTTGTTCGAAAATGAGATTTTTAAAGTTTC
1 TTTTAGAGGAGTTTTTCAAAAATGAGATTTTTAAAGTTTC
11666671 CAAATCTCTT
Statistics
Matches: 270, Mismatches: 52, Indels: 20
0.79 0.15 0.06
Matches are distributed among these distances:
96 29 0.11
97 69 0.26
98 125 0.46
99 47 0.17
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.42
Consensus pattern (97 bp):
TTTTAGAGGAGTTTTTCAAAAATGAGATTTTTAAAGTTTCTATGCCTCTTTTTAGAAAAGCTTTT
CAAAAATGAGATTTTTAAGTTTCCAAGCTTTT
Found at i:11666686 original size:96 final size:98
Alignment explanation
Indices: 11666234--11666727 Score: 305
Period size: 98 Copynumber: 5.1 Consensus size: 98
11666224 TCCTTTATAA
* * * * * * *
11666234 AAGCCTTATTTTAGATG-AGTTTTTCAAGAATGATA-TTTTAAAGTTTCCAAGCCTCGTTTTAGA
1 AAGCCTCATTTTAGA-GAAGTTGTTCAAAAATGAGATTTTTAAAGTTTCCAAGTCTCTTTTTAAA
* * * * * * *
11666297 ATAACTTTTCAAAAATG-AGATTTATGAAGCTTCC
65 AGACCTTTTGAAAAATGAAAATTT-TAAAGTTTCT
* ** * * * * *
11666331 AAGCATTTTTTTTAGATG-AGCTT-TTCAAAAATGAGATTTTTGAAGTTTCTATGCCTTTTTTTA
1 AAGC-CTCATTTTAGA-GAAG-TTGTTCAAAAATGAGATTTTTAAAGTTTCCAAGTCTCTTTTTA
** * * * * *
11666394 GAAA-AGTTTTTTAAAAA-CAAGATTTTTAAGTTTCC
63 -AAAGACCTTTTGAAAAATGAAAATTTTAAAGTTTCT
* * * * * * * *
11666429 AAGCTTC-TTTTGAGAGGAGTTTTTCACAAATAAGAATTTTAAAGTTTCCTAGTGTCTTTTTAGA
1 AAGCCTCATTTT-AGAGAAGTTGTTCAAAAATGAGATTTTTAAAGTTTCCAAGTCTCTTTTTA-A
* * *
11666493 AA-AGCTTTTCG-AAAATGATATTTTTAAAGTTTCT
64 AAGACCTTTT-GAAAAATGAAAATTTTAAAGTTTCT
** * * * * *
11666527 AAGCCTTTTTTTAGAGGAGTTTTTCAAAAATGAGATTTTCAAAGTTCCCAAGCCTCTTTTTAAAA
1 AAGCCTCATTTTAGAGAAGTTGTTCAAAAATGAGATTTTTAAAGTTTCCAAGTCTCTTTTTAAAA
11666592 GACCTTTTGAAAAATGAAAATTTTAAAGTTTCT
66 GACCTTTTGAAAAATGAAAATTTTAAAGTTTCT
* * *
11666625 AAGCCTCATTTT-G-GAAGTTGTTCGAAAATGAGATTTTTAAAGTTTCCAAATCTCTTTTTAAAG
1 AAGCCTCATTTTAGAGAAGTTGTTCAAAAATGAGATTTTTAAAGTTTCCAAGTCTCTTTTTAAAA
* * *
11666688 GAGCC-TTTCAAAATTGAGAATTTTAAAAGTTT-T
66 GA-CCTTTTGAAAAATGAAAATTTT-AAAGTTTCT
11666721 ATAGCCT
1 A-AGCCT
11666728 TTATTTAGAA
Statistics
Matches: 320, Mismatches: 61, Indels: 32
0.77 0.15 0.08
Matches are distributed among these distances:
96 69 0.22
97 74 0.23
98 132 0.41
99 43 0.13
100 2 0.01
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (98 bp):
AAGCCTCATTTTAGAGAAGTTGTTCAAAAATGAGATTTTTAAAGTTTCCAAGTCTCTTTTTAAAA
GACCTTTTGAAAAATGAAAATTTTAAAGTTTCT
Found at i:11669202 original size:19 final size:18
Alignment explanation
Indices: 11669178--11669222 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
11669168 CATCCTAAAT
11669178 CCTAAATCACTATGCAAAC
1 CCTAAATCACTATGC-AAC
* **
11669197 CCTAAACCTTTATGCAAC
1 CCTAAATCACTATGCAAC
11669215 CCTAAATC
1 CCTAAATC
11669223 CTAAACTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.38, C:0.33, G:0.04, T:0.24
Consensus pattern (18 bp):
CCTAAATCACTATGCAAC
Found at i:11669308 original size:26 final size:26
Alignment explanation
Indices: 11669279--11669329 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
11669269 ATGCAAAACT
* *
11669279 CAAACCTTAAACCTTAGACCCTAAAG
1 CAAACCTTAAACCCTAAACCCTAAAG
11669305 CAAACCTTAAACCCTAAACCCTAAA
1 CAAACCTTAAACCCTAAACCCTAAA
11669330 CCTTAAATCC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.45, C:0.33, G:0.04, T:0.18
Consensus pattern (26 bp):
CAAACCTTAAACCCTAAACCCTAAAG
Found at i:11669396 original size:7 final size:6
Alignment explanation
Indices: 11669215--11669470 Score: 71
Period size: 7 Copynumber: 39.2 Consensus size: 6
11669205 TTTATGCAAC
*
11669215 CCTAAA TCCTAAA -CTAAA CCAAAA CCT-AA CCTAAA TCCTAAA CTCTAAACGA
1 CCTAAA -CCTAAA CCTAAA CCTAAA CCTAAA CCTAAA -CCTAAA C-CT-AA--A
* * *
11669267 CCATGCAAA ACTCAAA CCTTAAA CCTTAGAC CCTAAA GC-AAA CCTTAAA
1 CC-T--AAA CCT-AAA CC-TAAA CC-TA-AA CCTAAA CCTAAA CC-TAAA
* *
11669316 CCCTAAA CCCTAAA CCTTAAA TCCTAAA -CTAGA CCTTAA CCATAAA CC-AAA
1 -CCTAAA -CCTAAA CC-TAAA -CCTAAA CCTAAA CCTAAA CC-TAAA CCTAAA
* **
11669367 CTCTAAA TCCTAAA -TTGAGC CCTAAA CCCTAAA CC-AAA CCTAAA CCTAAA
1 C-CTAAA -CCTAAA CCT-AAA CCTAAA -CCTAAA CCTAAA CCTAAA CCTAAA
* * *
11669417 -CAAAA CTCCAAA CCTTATAA TCC-AAA CCTTAAA CCTAAAA CTCAAAA
1 CCTAAA C-CTAAA CC-TA-AA -CCTAAA CC-TAAA CCT-AAA C-CTAAA
11669464 CCTAAA C
1 CCTAAA C
11669471 TTTAAACCAA
Statistics
Matches: 191, Mismatches: 24, Indels: 69
0.67 0.08 0.24
Matches are distributed among these distances:
5 34 0.18
6 41 0.21
7 91 0.48
8 15 0.08
9 5 0.03
10 3 0.02
11 2 0.01
ACGTcount: A:0.46, C:0.32, G:0.03, T:0.19
Consensus pattern (6 bp):
CCTAAA
Done.