Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167904.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_17, 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: 21107920
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 100000 characters in sequence are not A, C, G, or T
File 110 of 121
Found at i:18727286 original size:30 final size:30
Alignment explanation
Indices: 18727250--18727306 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
18727240 TTTAAAATAT
* * *
18727250 AAAATATTATTTTTTAAATATAAATATTTA
1 AAAATATCATTATATAAATATAAATATTTA
*
18727280 AAAATATCATTATATAAATATATATAT
1 AAAATATCATTATATAAATATAAATAT
18727307 AAATAAATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (30 bp):
AAAATATCATTATATAAATATAAATATTTA
Found at i:18728074 original size:24 final size:24
Alignment explanation
Indices: 18728047--18728129 Score: 69
Period size: 24 Copynumber: 3.3 Consensus size: 24
18728037 ATAAGTAATA
18728047 AATAATTATTATTTATTAGTATAT
1 AATAATTATTATTTATTAGTATAT
* * * *
18728071 AATAATTAATCTTTATGTAATA-AA
1 AATAATTATTATTTAT-TAGTATAT
* *
18728095 AATAAATATTTATATTTATTAGCATAT
1 AAT-AAT-TAT-TATTTATTAGTATAT
18728122 AATAATTA
1 AATAATTA
18728130 ATCTTTACGT
Statistics
Matches: 43, Mismatches: 11, Indels: 9
0.68 0.17 0.14
Matches are distributed among these distances:
24 18 0.42
25 8 0.19
26 7 0.16
27 10 0.23
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (24 bp):
AATAATTATTATTTATTAGTATAT
Found at i:18728074 original size:28 final size:28
Alignment explanation
Indices: 18728042--18728131 Score: 75
Period size: 28 Copynumber: 3.4 Consensus size: 28
18728032 AAATAATAAG
18728042 TAATAAATAATTATTATTTATTAGTATA
1 TAATAAATAATTATTATTTATTAGTATA
* *
18728070 TAATAATTAATCT-TTATGTA--A-TA-A
1 TAATAAATAAT-TATTATTTATTAGTATA
* * *
18728094 AAATAAATATTTA-TATTTATTAGCATA
1 TAATAAATAATTATTATTTATTAGTATA
*
18728121 TAATAATTAAT
1 TAATAAATAAT
18728132 CTTTACGTAA
Statistics
Matches: 46, Mismatches: 10, Indels: 13
0.67 0.14 0.19
Matches are distributed among these distances:
23 6 0.13
24 9 0.20
25 3 0.07
26 2 0.04
27 9 0.20
28 16 0.35
29 1 0.02
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (28 bp):
TAATAAATAATTATTATTTATTAGTATA
Found at i:18728093 original size:21 final size:22
Alignment explanation
Indices: 18728040--18728108 Score: 68
Period size: 24 Copynumber: 3.0 Consensus size: 22
18728030 ATAAATAATA
*
18728040 AGTAATAAATAATTATTATTTATT
1 AGTAAT-AATAATTAATATTTA-T
*
18728064 AGTATATAATAATTAATCTTTAT
1 AGTA-ATAATAATTAATATTTAT
* *
18728087 -GTAATAAAAATAAATATTTAT
1 AGTAATAATAATTAATATTTAT
18728108 A
1 A
18728109 TTTATTAGCA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
21 15 0.39
22 3 0.08
23 1 0.03
24 17 0.45
25 2 0.05
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.45
Consensus pattern (22 bp):
AGTAATAATAATTAATATTTAT
Found at i:18728111 original size:51 final size:52
Alignment explanation
Indices: 18728043--18728161 Score: 186
Period size: 51 Copynumber: 2.3 Consensus size: 52
18728033 AATAATAAGT
* * *
18728043 AATAAATAATTATTATTTATTAGTATATAATAATTAATCTTTATGTAATA-AA
1 AATAAATATTTA-TATTTATTAGCATATAATAATTAATCTTTACGTAATAGAA
18728095 AATAAATATTTATATTTATTAGCATATAATAATTAATCTTTACGTAATAGAA
1 AATAAATATTTATATTTATTAGCATATAATAATTAATCTTTACGTAATAGAA
*
18728147 AAGAAATATTTATAT
1 AATAAATATTTATAT
18728162 ATAAAATTAA
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
51 35 0.56
52 27 0.44
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.44
Consensus pattern (52 bp):
AATAAATATTTATATTTATTAGCATATAATAATTAATCTTTACGTAATAGAA
Found at i:18729171 original size:16 final size:16
Alignment explanation
Indices: 18729150--18729189 Score: 73
Period size: 15 Copynumber: 2.6 Consensus size: 16
18729140 TTTTCATTGT
18729150 ATTTTTTATTTTGTTG
1 ATTTTTTATTTTGTTG
18729166 A-TTTTTATTTTGTTG
1 ATTTTTTATTTTGTTG
18729181 ATTTTTTAT
1 ATTTTTTAT
18729190 GCAAAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 15 0.65
16 8 0.35
ACGTcount: A:0.15, C:0.00, G:0.10, T:0.75
Consensus pattern (16 bp):
ATTTTTTATTTTGTTG
Found at i:18729178 original size:29 final size:31
Alignment explanation
Indices: 18729124--18729189 Score: 77
Period size: 29 Copynumber: 2.2 Consensus size: 31
18729114 ATATCAATTA
*
18729124 TTTTAATTTGTTGAATTTTTCATTG-T-ATT
1 TTTTATTTTGTTGAATTTTTCATTGTTGATT
18729153 TTTTATTTTGTTG-ATTTTT-ATTTTGTTGATT
1 TTTTATTTTGTTGAATTTTTCA--TTGTTGATT
18729184 TTTTAT
1 TTTTAT
18729190 GCAAAATAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
27 1 0.03
28 6 0.19
29 15 0.47
30 1 0.03
31 9 0.28
ACGTcount: A:0.17, C:0.02, G:0.11, T:0.71
Consensus pattern (31 bp):
TTTTATTTTGTTGAATTTTTCATTGTTGATT
Found at i:18741144 original size:24 final size:26
Alignment explanation
Indices: 18741117--18741165 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
18741107 CAAACAATGG
**
18741117 TGAA-ATA-ATTTTTTTCTTTTTTTT
1 TGAATATATATTTTTTGATTTTTTTT
18741141 TGAATATATATTTTTTGATTTTTTT
1 TGAATATATATTTTTTGATTTTTTT
18741166 AAGAGATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 4 0.19
25 3 0.14
26 14 0.67
ACGTcount: A:0.22, C:0.02, G:0.06, T:0.69
Consensus pattern (26 bp):
TGAATATATATTTTTTGATTTTTTTT
Found at i:18741995 original size:19 final size:19
Alignment explanation
Indices: 18741973--18742020 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
18741963 AATAAATAAT
18741973 AATAATAATAAAACAAATA
1 AATAATAATAAAACAAATA
**
18741992 AATAATAATAAATTAAATA
1 AATAATAATAAAACAAATA
*
18742011 ATTAATAATA
1 AATAATAATA
18742021 CTTTCAATTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (19 bp):
AATAATAATAAAACAAATA
Found at i:18742017 original size:22 final size:21
Alignment explanation
Indices: 18741963--18742020 Score: 68
Period size: 19 Copynumber: 2.9 Consensus size: 21
18741953 CACTTTCAAT
18741963 AATAAATAA-TAATAATAATA
1 AATAAATAATTAATAATAATA
* *
18741983 AA-ACA-AATAAATAATAATA
1 AATAAATAATTAATAATAATA
18742002 AATTAAATAATTAATAATA
1 AA-TAAATAATTAATAATA
18742021 CTTTCAATTG
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
18 2 0.07
19 14 0.47
20 2 0.07
21 2 0.07
22 10 0.33
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (21 bp):
AATAAATAATTAATAATAATA
Found at i:18742567 original size:18 final size:20
Alignment explanation
Indices: 18742544--18742581 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
18742534 AAAATTAATG
18742544 ATAAAAA-TA-TTTATAAAA
1 ATAAAAATTATTTTATAAAA
18742562 ATAAAAATTATTTTATAAAA
1 ATAAAAATTATTTTATAAAA
18742582 TGTTTTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.39
19 2 0.11
20 9 0.50
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
ATAAAAATTATTTTATAAAA
Found at i:18747592 original size:19 final size:20
Alignment explanation
Indices: 18747562--18747600 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
18747552 ATTATGAAAA
18747562 CTAAAGAAAAAAAAATCAAT
1 CTAAAGAAAAAAAAATCAAT
*
18747582 CTAAA-AAAAAAAACTCAAT
1 CTAAAGAAAAAAAAATCAAT
18747601 TGATTCACTT
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:0.69, C:0.13, G:0.03, T:0.15
Consensus pattern (20 bp):
CTAAAGAAAAAAAAATCAAT
Found at i:18753173 original size:16 final size:17
Alignment explanation
Indices: 18753152--18753186 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
18753142 GTAGTTTTTT
18753152 TAAAAAAT-ATTACAAC
1 TAAAAAATAATTACAAC
18753168 TAAAAAATACATTACAAC
1 TAAAAAATA-ATTACAAC
18753186 T
1 T
18753187 GATTTAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
18 9 0.53
ACGTcount: A:0.60, C:0.14, G:0.00, T:0.26
Consensus pattern (17 bp):
TAAAAAATAATTACAAC
Found at i:18754294 original size:5 final size:5
Alignment explanation
Indices: 18754284--18754317 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
18754274 CTATATATGT
18754284 TATAA TATAA TATAA TATAA TATAA TATAA TATA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATA
18754318 TGATTAGAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:18754398 original size:17 final size:17
Alignment explanation
Indices: 18754378--18754411 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
18754368 TTATAATTTA
18754378 AAATTTTA-ATTTATATT
1 AAATTTTATA-TTATATT
18754395 AAATTTTATATTATATT
1 AAATTTTATATTATATT
18754412 TATAGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 15 0.94
18 1 0.06
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
AAATTTTATATTATATT
Found at i:18755927 original size:59 final size:58
Alignment explanation
Indices: 18755821--18756210 Score: 482
Period size: 59 Copynumber: 6.7 Consensus size: 58
18755811 TTATGCAGAA
* *
18755821 AAAATTGATACTTTCAACTTTTTCTC-AAAATATTTTTTAGAAAATTTAATTTCGAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTAATTTCGAGG
* **
18755878 AAAATTGATACTTTCAACTTTTCCTCAAAAATCTCTTTTTTGAAAATTT-ATCTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATAT-TTTTTTGAAAATTTAAT-TTCGAGG
* * * * * *
18755937 AAAATTGATACTTTTATCTTTTTCTCAAAAATATTTTTTGGAAACTTTAATTTCGAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTAATTTCGAGG
*** * **
18755995 AAAATTGATACTTTCAACTTTTCCTCAAAACCCTTTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTAATTTCGAGG
*
18756053 AAAATTGATACTTTCAACTTTTTCC-CAAAAATATTTTTTTGAAACTTTTAATTTCGAGG
1 AAAATTGATACTTTCAAC-TTTTCCTCAAAAATATTTTTTTGAAA-ATTTAATTTCGAGG
* * * **
18756112 AAAATTAATACTTTCAACTTTTCCTCAAAACT-TTTTTTTGAAAATTTATTTTTTTTAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTA--ATTTCGAGG
*
18756171 AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT
18756211 TTGAATTTTA
Statistics
Matches: 281, Mismatches: 42, Indels: 17
0.83 0.12 0.05
Matches are distributed among these distances:
57 29 0.10
58 121 0.43
59 124 0.44
60 7 0.02
ACGTcount: A:0.34, C:0.13, G:0.07, T:0.46
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTAATTTCGAGG
Found at i:18756034 original size:117 final size:115
Alignment explanation
Indices: 18755821--18756209 Score: 609
Period size: 116 Copynumber: 3.3 Consensus size: 115
18755811 TTATGCAGAA
*
18755821 AAAATTGATACTTTCAACTTTTTCTC-AAAATATTTTTTAGAAAATTTAATTTCGAGGAAAATTG
1 AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAACTTTAATTTCGAGGAAAATTG
* *
18755885 ATACTTTCAACTTTTCCTCAAAAATCTCTTTTTTGAAAATTTATCTTTAAGG
66 ATACTTTCAACTTTTCCTC-AAAA-CTTTTTTTTGAAAATTTATTTTTAAGG
* * * *
18755937 AAAATTGATACTTTTATCTTTTTCTCAAAAATATTTTTTGGAAACTTTAATTTCGAGAAAAATTG
1 AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAACTTTAATTTCGAGGAAAATTG
*
18756002 ATACTTTCAACTTTTCCTCAAAACCCTTTTTTTGAAAATTTATTTTTAAGG
66 ATACTTTCAACTTTTCCTCAAAA-CTTTTTTTTGAAAATTTATTTTTAAGG
* *
18756053 AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTGAAACTTTTAATTTCGAGGAAAATT
1 AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAC-TTTAATTTCGAGGAAAATT
* *
18756118 AATACTTTCAACTTTTCCTCAAAACTTTTTTTTGAAAATTTATTTTTTTTAGG
65 GATACTTTCAACTTTTCCTCAAAACTTTTTTTTGAAAATTTA--TTTTTAAGG
18756171 AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTT
1 AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTT
18756210 TTTGAATTTT
Statistics
Matches: 251, Mismatches: 18, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
116 110 0.44
117 95 0.38
118 46 0.18
ACGTcount: A:0.34, C:0.13, G:0.07, T:0.46
Consensus pattern (115 bp):
AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAACTTTAATTTCGAGGAAAATTG
ATACTTTCAACTTTTCCTCAAAACTTTTTTTTGAAAATTTATTTTTAAGG
Found at i:18756257 original size:15 final size:15
Alignment explanation
Indices: 18756239--18756288 Score: 68
Period size: 15 Copynumber: 3.4 Consensus size: 15
18756229 AAATAAAATT
18756239 AATAAATAAAATCAA
1 AATAAATAAAATCAA
18756254 AATAAATAAAATCAA
1 AATAAATAAAATCAA
*
18756269 AATTAA-AAAAT-AA
1 AATAAATAAAATCAA
18756282 TAATAAA
1 -AATAAA
18756289 CAATAAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
13 2 0.06
14 10 0.31
15 20 0.62
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.22
Consensus pattern (15 bp):
AATAAATAAAATCAA
Found at i:18756261 original size:19 final size:18
Alignment explanation
Indices: 18756223--18756263 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
18756213 GAATTTTATT
*
18756223 TAAAGAAAATAAAATTAA
1 TAAAGAAAATAAAATAAA
*
18756241 TAAATAAAATCAAAATAAA
1 TAAAGAAAAT-AAAATAAA
18756260 TAAA
1 TAAA
18756264 ATCAAAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (18 bp):
TAAAGAAAATAAAATAAA
Found at i:18756271 original size:34 final size:32
Alignment explanation
Indices: 18756223--18756331 Score: 114
Period size: 34 Copynumber: 3.2 Consensus size: 32
18756213 GAATTTTATT
18756223 TAAAGAAAATAAAATTAATAAATAA-AATCAAAA
1 TAAA-AAAATAAAATTAATAAATAATAAT-AAAA
*
18756256 TAAATAAAATCAAAATTAAAAAATAATAATAAACAA
1 TAAA-AAAAT-AAAATTAATAAATAATAAT-AA-AA
* *
18756292 TAAAAATAATAATAGTAAT-AATAATAATAAAA
1 TAAAAA-AATAAAATTAATAAATAATAATAAAA
18756324 TAAAAAAA
1 TAAAAAAA
18756332 CGAAAAAAAA
Statistics
Matches: 66, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
31 2 0.03
32 8 0.12
33 11 0.17
34 23 0.35
35 13 0.20
36 9 0.14
ACGTcount: A:0.72, C:0.03, G:0.02, T:0.23
Consensus pattern (32 bp):
TAAAAAAATAAAATTAATAAATAATAATAAAA
Found at i:18756279 original size:19 final size:18
Alignment explanation
Indices: 18756228--18756300 Score: 66
Period size: 19 Copynumber: 4.1 Consensus size: 18
18756218 TTATTTAAAG
18756228 AAAAT-AAAATTAATAAAT
1 AAAATCAAAATTAA-AAAT
18756246 AAAATCAAAA-T--AAAT
1 AAAATCAAAATTAAAAAT
18756261 AAAATCAAAATTAAAAAAT
1 AAAATCAAAATT-AAAAAT
*
18756280 AATAAT-AAACAATAAAAAT
1 AA-AATCAAA-ATTAAAAAT
18756299 AA
1 AA
18756301 TAATAGTAAT
Statistics
Matches: 47, Mismatches: 1, Indels: 13
0.77 0.02 0.21
Matches are distributed among these distances:
15 14 0.30
16 1 0.02
18 6 0.13
19 21 0.45
20 5 0.11
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.22
Consensus pattern (18 bp):
AAAATCAAAATTAAAAAT
Found at i:18756285 original size:3 final size:3
Alignment explanation
Indices: 18756277--18756326 Score: 57
Period size: 3 Copynumber: 16.7 Consensus size: 3
18756267 AAAATTAAAA
* * *
18756277 AAT AAT AAT AAAC AAT AAA AAT AAT AAT AGT AAT AAT AAT AAT AA-
1 AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
18756322 AAT AA
1 AAT AA
18756327 AAAAACGAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
2 2 0.05
3 35 0.90
4 2 0.05
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:18756329 original size:6 final size:6
Alignment explanation
Indices: 18756228--18756329 Score: 52
Period size: 6 Copynumber: 16.7 Consensus size: 6
18756218 TTATTTAAAG
* * *
18756228 AAAATA AAATTA ATAAAT- AAAATC AAAAT- -AAAT- AAAATCA AAATTAA
1 AAAATA AAAATA A-AAATA AAAATA AAAATA AAAATA AAAAT-A AAAAT-A
* * *
18756275 AAAATA ATAATA AACAATA AAAATA ATAATAGTA ATAATA ATAAT- AAAATA
1 AAAATA AAAATA AA-AATA AAAATA A-AA-A-TA AAAATA AAAATA AAAATA
18756326 AAAA
1 AAAA
18756330 AACGAAAAAA
Statistics
Matches: 77, Mismatches: 9, Indels: 20
0.73 0.08 0.19
Matches are distributed among these distances:
4 4 0.05
5 12 0.16
6 35 0.45
7 21 0.27
8 2 0.03
9 3 0.04
ACGTcount: A:0.73, C:0.03, G:0.01, T:0.24
Consensus pattern (6 bp):
AAAATA
Found at i:18757241 original size:41 final size:40
Alignment explanation
Indices: 18757169--18757248 Score: 101
Period size: 41 Copynumber: 1.9 Consensus size: 40
18757159 AATCAAATAA
*
18757169 AAAAATATTAATAGATAATTAAATGAAAATAATCAGATAACC
1 AAAAATATTAACAGATAATTAAA-GAAAATAAT-AGATAACC
18757211 AAAAA-ATTAACAGATAAATTAAA-AATAATAATAGATAA
1 AAAAATATTAACAGAT-AATTAAAGAA-AATAATAGATAA
18757249 ATTATAATAT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
40 8 0.23
41 15 0.43
42 12 0.34
ACGTcount: A:0.64, C:0.05, G:0.06, T:0.25
Consensus pattern (40 bp):
AAAAATATTAACAGATAATTAAAGAAAATAATAGATAACC
Found at i:18757250 original size:14 final size:13
Alignment explanation
Indices: 18757233--18757381 Score: 85
Period size: 14 Copynumber: 10.9 Consensus size: 13
18757223 GATAAATTAA
18757233 AAATAATAATAGAT
1 AAATAATAATA-AT
*
18757247 AAATTATAATATAT
1 AAATAATAATA-AT
*
18757261 AAATAGATAAATACT
1 AAATA-AT-AATAAT
18757276 -AATAA-ATATATAT
1 AAATAATA-ATA-AT
18757289 ATAATAATATATAGAT
1 A-AATAATA-ATA-AT
*
18757305 AGATAAATAA-AAT
1 AAAT-AATAATAAT
18757318 -AATAATAATAAT
1 AAATAATAATAAT
*
18757330 AAATATATATTAAT
1 AAATA-ATAATAAT
* *
18757344 AAATAGTAATAAA
1 AAATAATAATAAT
18757357 AAAT-A-AATATAT
1 AAATAATAATA-AT
18757369 AAATAATACATAA
1 AAATAATA-ATAA
18757382 GATACACAGA
Statistics
Matches: 106, Mismatches: 14, Indels: 30
0.71 0.09 0.20
Matches are distributed among these distances:
11 10 0.09
12 13 0.12
13 18 0.17
14 35 0.33
15 14 0.13
16 16 0.15
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.32
Consensus pattern (13 bp):
AAATAATAATAAT
Found at i:18757282 original size:18 final size:18
Alignment explanation
Indices: 18757233--18757381 Score: 86
Period size: 18 Copynumber: 8.7 Consensus size: 18
18757223 GATAAATTAA
* *
18757233 AAATAATAATAGATAAAT
1 AAATAATAATAAATAGAT
*
18757251 -TATAATATATAAATAGAT
1 AAATAATA-ATAAATAGAT
* *
18757269 AAATACTAATAAATATAT
1 AAATAATAATAAATAGAT
* *
18757287 ATATAATAATATATAGAT
1 AAATAATAATAAATAGAT
*
18757305 AGAT-A-AATAAAATA-AT
1 AAATAATAAT-AAATAGAT
18757321 -AATAATAATAAAT--AT
1 AAATAATAATAAATAGAT
*
18757336 --ATATTAATAAATAG-T
1 AAATAATAATAAATAGAT
* *
18757351 -AATAAAAAATAAATATAT
1 AAAT-AATAATAAATAGAT
18757369 AAATAATACATAA
1 AAATAATA-ATAA
18757382 GATACACAGA
Statistics
Matches: 101, Mismatches: 18, Indels: 23
0.71 0.13 0.16
Matches are distributed among these distances:
14 11 0.11
15 5 0.05
16 12 0.12
17 23 0.23
18 38 0.38
19 12 0.12
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.32
Consensus pattern (18 bp):
AAATAATAATAAATAGAT
Found at i:18757314 original size:4 final size:4
Alignment explanation
Indices: 18757224--18757374 Score: 52
Period size: 4 Copynumber: 38.0 Consensus size: 4
18757214 AAATTAACAG
* * * *
18757224 ATAA ATTA A-AA AT-A AT-A ATAG ATAA ATTATA ATAT ATAA ATAG ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA A-TA-A ATAA ATAA ATAA ATAA
* * * * *
18757271 ATACTA ATAA ATAT ATAT AT-A AT-A ATAT ATAG ATAG ATAA ATAA A-ATA
1 ATA--A ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATA-A
*
18757319 AT-A AT-A AT-A ATAA ATATA TATTA ATAA ATAGTA ATAA A-AA ATAA
1 ATAA ATAA ATAA ATAA ATA-A -ATAA ATAA ATA--A ATAA ATAA ATAA
*
18757363 ATAT ATAA ATAA
1 ATAA ATAA ATAA
18757375 TACATAAGAT
Statistics
Matches: 115, Mismatches: 17, Indels: 30
0.71 0.10 0.19
Matches are distributed among these distances:
3 26 0.23
4 71 0.62
5 6 0.05
6 12 0.10
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (4 bp):
ATAA
Found at i:18757371 original size:39 final size:42
Alignment explanation
Indices: 18757222--18757376 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 42
18757212 AAAAATTAAC
* *
18757222 AGATAAATTAAAAATAAT-AATAGATAAATTATAATATATAAAT
1 AGATAAA-T-AAAATAATAAATATATAAATAATAATATATAAAT
* * *
18757265 AGATAAAT--ACTAATAAATATATATATAATAATATATAGAT
1 AGATAAATAAAATAATAAATATATAAATAATAATATATAAAT
*
18757305 AGATAAATAAAATAAT-AATAATAATAAATATATATTA-ATAAAT
1 AGATAAATAAAATAATAAAT-AT-ATAAATA-ATAATATATAAAT
18757348 AG-T-AATAAAA-AATAAATATATAAATAATA
1 AGATAAATAAAATAATAAATATATAAATAATA
18757377 CATAAGATAC
Statistics
Matches: 96, Mismatches: 9, Indels: 19
0.77 0.07 0.15
Matches are distributed among these distances:
38 3 0.03
39 12 0.12
40 34 0.35
41 13 0.14
42 9 0.09
43 20 0.21
44 5 0.05
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (42 bp):
AGATAAATAAAATAATAAATATATAAATAATAATATATAAAT
Found at i:18757428 original size:17 final size:17
Alignment explanation
Indices: 18757406--18757466 Score: 61
Period size: 17 Copynumber: 3.5 Consensus size: 17
18757396 AAAGAAGAGG
*
18757406 AAAAAATATA-AAATAT
1 AAAAAAAATAGAAATAT
18757422 AAAAAAAATAGAAATAT
1 AAAAAAAATAGAAATAT
* *
18757439 AAAATACAAAAATAAATAAT
1 AAAA-A-AAATAGAAAT-AT
18757459 AAAAAAAA
1 AAAAAAAA
18757467 ACAAATGGGC
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
16 9 0.24
17 10 0.26
18 4 0.11
19 9 0.24
20 6 0.16
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.18
Consensus pattern (17 bp):
AAAAAAAATAGAAATAT
Found at i:18757440 original size:24 final size:25
Alignment explanation
Indices: 18757409--18757456 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 25
18757399 GAAGAGGAAA
*
18757409 AAATATAAAATATAAAAA-AAATAG
1 AAATATAAAATACAAAAATAAATAG
18757433 AAATATAAAATACAAAAATAAATA
1 AAATATAAAATACAAAAATAAATA
18757457 ATAAAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 17 0.77
25 5 0.23
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (25 bp):
AAATATAAAATACAAAAATAAATAG
Found at i:18757444 original size:13 final size:13
Alignment explanation
Indices: 18757409--18757454 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 13
18757399 GAAGAGGAAA
*
18757409 AAATATAAAATAT
1 AAATATAAAATAC
*
18757422 AAA-A-AAAATAG
1 AAATATAAAATAC
18757433 AAATATAAAATAC
1 AAATATAAAATAC
*
18757446 AAAAATAAA
1 AAATATAAA
18757455 TAATAAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
11 9 0.32
12 2 0.07
13 17 0.61
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (13 bp):
AAATATAAAATAC
Found at i:18757467 original size:17 final size:17
Alignment explanation
Indices: 18757406--18757467 Score: 54
Period size: 18 Copynumber: 3.4 Consensus size: 17
18757396 AAAGAAGAGG
*
18757406 AAAAAATATAAAATATAA
1 AAAAAATAGAAAATA-AA
18757424 AAAAAATAGAAATATAAAA
1 AAAAAATAGAAA-AT-AAA
18757443 TACAAAAATA-AATAATAAA
1 -A-AAAAATAGAA-AATAAA
18757462 AAAAAA
1 AAAAAA
18757468 CAAATGGGCC
Statistics
Matches: 38, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
17 5 0.13
18 12 0.32
19 7 0.18
20 6 0.16
21 8 0.21
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.18
Consensus pattern (17 bp):
AAAAAATAGAAAATAAA
Found at i:18757472 original size:17 final size:16
Alignment explanation
Indices: 18757416--18757472 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 16
18757406 AAAAAATATA
*
18757416 AAATATAAAAAAAATAG
1 AAATATAAAAAAAA-AC
*
18757433 AAATATAAAATACAAAAAT
1 AAATAT-AAA-A-AAAAAC
18757452 AAATAATAAAAAAAAAC
1 AAAT-ATAAAAAAAAAC
18757469 AAAT
1 AAAT
18757473 GGGCCTACCC
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
17 15 0.44
18 4 0.12
19 9 0.26
20 6 0.18
ACGTcount: A:0.77, C:0.04, G:0.02, T:0.18
Consensus pattern (16 bp):
AAATATAAAAAAAAAC
Found at i:18763036 original size:58 final size:58
Alignment explanation
Indices: 18762794--18763116 Score: 338
Period size: 59 Copynumber: 5.6 Consensus size: 58
18762784 TTTGTGCAGG
* * * * *
18762794 AAAAATTGATACTTTTAACTTTT-TCTC-AAAATATTTTTTAAAAATTTTAATTTCGAG
1 AAAAATTGATACTTTCAACTTTTCTC-CAAAAATATTTTTTGAAAACTTTAATTTCTAA
* *
18762851 AAAAATTGATACCTTCAACTTTTCTCCAAAAATATTTTTTGAAAAACTTTAATTTCTAG
1 AAAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTTG-AAAACTTTAATTTCTAA
* * ** * * *
18762910 AAAAATTGATACTTTCAACTTTTC-CTCAAAACCTTTTTTTTTTAAATTTTATTTTTTAA
1 AAAAATTGATACTTTCAACTTTTCTC-CAAAA-ATATTTTTTGAAAACTTTAATTTCTAA
* *
18762969 AAAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTTGGAAACTTTAATTTCGAA
1 AAAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTTGAAAACTTTAATTTCTAA
* * *
18763027 AAAAATTGATACTTTCAACTTTTC-CCGTAAAACAT-TTTTTTGAAAA-TTTATTTTTTTTA
1 AAAAATTGATACTTTCAACTTTTCTCC--AAAA-ATATTTTTTGAAAACTTTA-ATTTCTAA
18763086 AAAAATTGATAC-TTC-ACTCTTTCTCCAAAAA
1 AAAAATTGATACTTTCAACT-TTTCTCCAAAAA
18763117 ATAGTTGGTT
Statistics
Matches: 227, Mismatches: 27, Indels: 25
0.81 0.10 0.09
Matches are distributed among these distances:
56 1 0.00
57 31 0.14
58 69 0.30
59 116 0.51
60 10 0.04
ACGTcount: A:0.37, C:0.14, G:0.05, T:0.45
Consensus pattern (58 bp):
AAAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTTGAAAACTTTAATTTCTAA
Found at i:18763044 original size:117 final size:116
Alignment explanation
Indices: 18762794--18763116 Score: 415
Period size: 117 Copynumber: 2.8 Consensus size: 116
18762784 TTTGTGCAGG
* * * * ** *
18762794 AAAAATTGATACTTTTAACTTTTTCTCAAAA-TATTTTTTAAAAATTTTAATTTCGAGAAAAATT
1 AAAAATTGATACTTTCAACTTTTCCTCAAAACTATTTTTTTAAAATTTTATTTTTTAAAAAAATT
* *
18762858 GATACCTTCAACTTTTCTCCAAAAATATTTTTTGAAAAACTTTAATTTCTAG
66 GATA-CTTCAACTTTTCTCCAAAAATATTTTTTGAAAAACTTTAATTTCGAA
* *
18762910 AAAAATTGATACTTTCAACTTTTCCTCAAAACCTTTTTTTTTTAAATTTTATTTTTTAAAAAAAT
1 AAAAATTGATACTTTCAACTTTTCCTCAAAA-CTATTTTTTTAAAATTTTATTTTTTAAAAAAAT
*
18762975 TGATACTTTCAACTTTTCTCCAAAAATATTTTTTG-GAAACTTTAATTTCGAA
65 TGATAC-TTCAACTTTTCTCCAAAAATATTTTTTGAAAAACTTTAATTTCGAA
*
18763027 AAAAATTGATACTTTCAACTTTTCC-CGTAAAAC-ATTTTTTTGAAAA-TTTATTTTTTTTAAAA
1 AAAAATTGATACTTTCAACTTTTCCTC--AAAACTATTTTTTT-AAAATTTTA-TTTTTTAAAAA
18763089 AATTGATACTTC-ACTCTTTCTCCAAAAA
62 AATTGATACTTCAACT-TTTCTCCAAAAA
18763117 ATAGTTGGTT
Statistics
Matches: 184, Mismatches: 15, Indels: 16
0.86 0.07 0.07
Matches are distributed among these distances:
115 3 0.02
116 56 0.30
117 63 0.34
118 62 0.34
ACGTcount: A:0.37, C:0.14, G:0.05, T:0.45
Consensus pattern (116 bp):
AAAAATTGATACTTTCAACTTTTCCTCAAAACTATTTTTTTAAAATTTTATTTTTTAAAAAAATT
GATACTTCAACTTTTCTCCAAAAATATTTTTTGAAAAACTTTAATTTCGAA
Found at i:18763154 original size:9 final size:9
Alignment explanation
Indices: 18763148--18763211 Score: 55
Period size: 9 Copynumber: 7.3 Consensus size: 9
18763138 TATTTAAAGA
18763148 AAATAAAAT
1 AAATAAAAT
18763157 AAATAAAAT
1 AAATAAAAT
18763166 AAATAAAA-
1 AAATAAAAT
*
18763174 AAA-AAATT
1 AAATAAAAT
* *
18763182 CTAATATAAT
1 -AAATAAAAT
18763192 -AATAATAAT
1 AAATAA-AAT
18763201 AAAT-AAAT
1 AAATAAAAT
18763209 AAA
1 AAA
18763212 AAATATGGGA
Statistics
Matches: 45, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
7 3 0.07
8 13 0.29
9 23 0.51
10 6 0.13
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (9 bp):
AAATAAAAT
Found at i:18763164 original size:14 final size:14
Alignment explanation
Indices: 18763142--18763212 Score: 51
Period size: 14 Copynumber: 5.0 Consensus size: 14
18763132 AAATTTTATT
*
18763142 TAAAGAAAATAAAA
1 TAAATAAAATAAAA
18763156 TAAATAAAAT-AAA
1 TAAATAAAATAAAA
*
18763169 TAAA-AAAA-AAATTC
1 TAAATAAAATAAA--A
18763183 TAATATAATAATAATAA
1 TAA-ATAA-AATAA-AA
18763200 TAAAT-AAATAAAA
1 TAAATAAAATAAAA
18763213 AATATGGGAA
Statistics
Matches: 46, Mismatches: 3, Indels: 17
0.70 0.05 0.26
Matches are distributed among these distances:
12 6 0.13
13 9 0.20
14 17 0.37
15 2 0.04
16 4 0.09
17 5 0.11
18 2 0.04
19 1 0.02
ACGTcount: A:0.73, C:0.01, G:0.01, T:0.24
Consensus pattern (14 bp):
TAAATAAAATAAAA
Found at i:18763202 original size:35 final size:35
Alignment explanation
Indices: 18763149--18763215 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
18763139 ATTTAAAGAA
18763149 AATAAAATAAATAAAATAAATAAAAAAAAAATTCT
1 AATAAAATAAATAAAATAAATAAAAAAAAAATTCT
* *
18763184 AATATAAT-AATAATAATAAATAAATAAAAAAT
1 AATAAAATAAATAA-AATAAATAAAAAAAAAAT
18763216 ATGGGAACGG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 5 0.17
35 24 0.83
ACGTcount: A:0.73, C:0.01, G:0.00, T:0.25
Consensus pattern (35 bp):
AATAAAATAAATAAAATAAATAAAAAAAAAATTCT
Found at i:18763501 original size:14 final size:14
Alignment explanation
Indices: 18763482--18763517 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 14
18763472 CCTCTTTCCC
18763482 TCTCTCTCTCTTCCTT
1 TCTCT-TCTC-TCCTT
18763498 TCTCTTCTCTCCTT
1 TCTCTTCTCTCCTT
18763512 TCTCTT
1 TCTCTT
18763518 TAAAAACCCG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 11 0.55
15 4 0.20
16 5 0.25
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (14 bp):
TCTCTTCTCTCCTT
Found at i:18764159 original size:22 final size:22
Alignment explanation
Indices: 18764133--18764207 Score: 84
Period size: 22 Copynumber: 3.5 Consensus size: 22
18764123 CCAGAAAATT
18764133 AATAGATAAATTATAATATATA
1 AATAGATAAATTATAATATATA
*
18764155 AATAGATAAA-TACTAATAAATA
1 AATAGATAAATTA-TAATATATA
* * *
18764177 CAT--ATATATAATAATATATA
1 AATAGATAAATTATAATATATA
18764197 AATAGATAAAT
1 AATAGATAAAT
18764208 AAAAAAATAA
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
20 14 0.33
21 3 0.07
22 25 0.60
ACGTcount: A:0.60, C:0.03, G:0.04, T:0.33
Consensus pattern (22 bp):
AATAGATAAATTATAATATATA
Found at i:18764163 original size:8 final size:8
Alignment explanation
Indices: 18764133--18764264 Score: 84
Period size: 8 Copynumber: 17.0 Consensus size: 8
18764123 CCAGAAAATT
*
18764133 AATAGATA
1 AATATATA
18764141 AAT-TAT-
1 AATATATA
18764147 AATATATA
1 AATATATA
*
18764155 AATAGATA
1 AATATATA
18764163 AATACTAATA
1 AATA-T-ATA
*
18764173 AATACATA
1 AATATATA
*
18764181 TATATA-A
1 AATATATA
18764188 TAATATATA
1 -AATATATA
*
18764197 AATAGATA
1 AATATATA
* *
18764205 AATAAAAA
1 AATATATA
18764213 AATA-ATA
1 AATATATA
18764220 AATATAT-
1 AATATATA
*
18764227 ATTA-ATA
1 AATATATA
18764234 AATAGTAATA
1 AATA-T-ATA
18764244 AA-A-ATA
1 AATATATA
18764250 AATATATA
1 AATATATA
18764258 AAT-TATA
1 AATATATA
18764265 CATAGGATAC
Statistics
Matches: 98, Mismatches: 13, Indels: 27
0.71 0.09 0.20
Matches are distributed among these distances:
6 10 0.10
7 23 0.23
8 51 0.52
9 2 0.02
10 12 0.12
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.33
Consensus pattern (8 bp):
AATATATA
Found at i:18764220 original size:30 final size:30
Alignment explanation
Indices: 18764184--18764269 Score: 79
Period size: 31 Copynumber: 2.8 Consensus size: 30
18764174 ATACATATAT
18764184 ATAATAATATATAAATAGATAAATA-AAAAA
1 ATAATAATATATAAATA-ATAAATAGAAAAA
* *
18764214 ATAATAA-ATATATATTAATAAATAGTAATAA
1 ATAATAATATATA-AATAATAAATAG-AAAAA
* *
18764245 A-AATAAATATATAAATTATACATAG
1 ATAAT-AATATATAAATAATAAATAG
18764270 GATACACAGA
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
29 12 0.26
30 13 0.28
31 16 0.35
32 5 0.11
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.31
Consensus pattern (30 bp):
ATAATAATATATAAATAATAAATAGAAAAA
Found at i:18764223 original size:4 final size:4
Alignment explanation
Indices: 18764128--18764260 Score: 58
Period size: 4 Copynumber: 32.0 Consensus size: 4
18764118 GATAACCAGA
* * * *
18764128 AAAT TAAT AGAT AAATT ATAAT ATAT AAAT AGAT AAAT ACTAAT AAAT
1 AAAT AAAT AAAT AAA-T A-AAT AAAT AAAT AAAT AAAT A--AAT AAAT
* * * * *
18764176 ACAT ATAT ATAAT -AAT ATAT AAAT AGAT AAAT AAAA AAAT -AAT AAAT
1 AAAT AAAT A-AAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
* *
18764223 ATATAT TAAT AAAT AGTAAT -AA- AAAT AAAT ATAT AAAT
1 A-A-AT AAAT AAAT A--AAT AAAT AAAT AAAT AAAT AAAT
18764261 TATACATAGG
Statistics
Matches: 95, Mismatches: 21, Indels: 26
0.67 0.15 0.18
Matches are distributed among these distances:
3 10 0.11
4 66 0.69
5 8 0.08
6 11 0.12
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (4 bp):
AAAT
Found at i:18764242 original size:10 final size:10
Alignment explanation
Indices: 18764132--18764250 Score: 75
Period size: 10 Copynumber: 11.6 Consensus size: 10
18764122 ACCAGAAAAT
18764132 TAATAGATAAA
1 TAATA-ATAAA
* *
18764143 TTATAATATA
1 TAATAATAAA
18764153 TAAATAGATAAA
1 T-AATA-ATAAA
*
18764165 TACTAATAAA
1 TAATAATAAA
*
18764175 TACAT-ATATA
1 TA-ATAATAAA
*
18764185 TAATAATATA
1 TAATAATAAA
18764195 TAAATAGATAAA
1 T-AATA-ATAAA
18764207 TAA-AA-AAA
1 TAATAATAAA
*
18764215 TAATAAATATA
1 TAAT-AATAAA
*
18764226 TATTAATAAA
1 TAATAATAAA
*
18764236 TAGTAATAAA
1 TAATAATAAA
18764246 -AATAA
1 TAATAA
18764251 ATATATAAAT
Statistics
Matches: 86, Mismatches: 13, Indels: 20
0.72 0.11 0.17
Matches are distributed among these distances:
8 6 0.07
9 7 0.08
10 41 0.48
11 22 0.26
12 10 0.12
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (10 bp):
TAATAATAAA
Found at i:18764258 original size:24 final size:24
Alignment explanation
Indices: 18764127--18764260 Score: 77
Period size: 22 Copynumber: 5.7 Consensus size: 24
18764117 GGATAACCAG
* * *
18764127 AAAATTAATAGATAAATTATAAT-
1 AAAATAAATATATAAATAATAATA
* * *
18764150 -ATATAAATAGATAAATACTAAT-
1 AAAATAAATATATAAATAATAATA
*
18764172 -AAATACATATATATAATAATATATA
1 AAAATAAATATATA-AATAATA-ATA
18764197 AATAGATAAATA-A-AAA-AATAATA
1 AA-A-ATAAATATATAAATAATAATA
* * *
18764220 AATATATAT-TAATAAATAGTAATA
1 AAAATAAATAT-ATAAATAATAATA
18764244 AAAATAAATATATAAAT
1 AAAATAAATATATAAAT
18764261 TATACATAGG
Statistics
Matches: 86, Mismatches: 14, Indels: 21
0.71 0.12 0.17
Matches are distributed among these distances:
21 5 0.06
22 29 0.34
23 14 0.16
24 25 0.29
25 3 0.03
26 2 0.02
27 2 0.02
28 6 0.07
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.32
Consensus pattern (24 bp):
AAAATAAATATATAAATAATAATA
Found at i:18764308 original size:7 final size:7
Alignment explanation
Indices: 18764296--18764366 Score: 85
Period size: 7 Copynumber: 10.4 Consensus size: 7
18764286 AGAAGAGGAA
18764296 AAAATAT
1 AAAATAT
18764303 AAAATAT
1 AAAATAT
18764310 AAAATA-
1 AAAATAT
18764316 AAAATA-
1 AAAATAT
18764322 AAAATAT
1 AAAATAT
18764329 AGAAATAT
1 A-AAATAT
*
18764337 AAAATAC
1 AAAATAT
*
18764344 AAAATAC
1 AAAATAT
*
18764351 AAAATAC
1 AAAATAT
18764358 AAAA-AT
1 AAAATAT
18764364 AAA
1 AAA
18764367 TAATAAAAAA
Statistics
Matches: 60, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
6 16 0.27
7 37 0.62
8 7 0.12
ACGTcount: A:0.75, C:0.04, G:0.01, T:0.20
Consensus pattern (7 bp):
AAAATAT
Found at i:18764324 original size:27 final size:27
Alignment explanation
Indices: 18764294--18764379 Score: 99
Period size: 26 Copynumber: 3.3 Consensus size: 27
18764284 AAAGAAGAGG
18764294 AAAAAATATAAAATATAAAATAAAAAT
1 AAAAAATATAAAATATAAAATAAAAAT
18764321 -AAAAATATAGAAATATAAAATACAAAAT
1 AAAAAATATA-AAATATAAAATA-AAAAT
* * *
18764349 ACAAAATACAAAA-AT-AAATAATAA-
1 AAAAAATATAAAATATAAAATAAAAAT
18764373 AAAAAAT
1 AAAAAAT
18764380 CAATGAGCCT
Statistics
Matches: 52, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
24 6 0.12
25 3 0.06
26 14 0.27
27 14 0.27
28 8 0.15
29 7 0.13
ACGTcount: A:0.76, C:0.03, G:0.01, T:0.20
Consensus pattern (27 bp):
AAAAAATATAAAATATAAAATAAAAAT
Found at i:18764373 original size:34 final size:33
Alignment explanation
Indices: 18764297--18764374 Score: 90
Period size: 34 Copynumber: 2.3 Consensus size: 33
18764287 GAAGAGGAAA
*
18764297 AAAT-ATAAAATATAAAATAAAAATAAAAATAT
1 AAATAATAAAATACAAAATAAAAATAAAAATAT
18764329 AGAA-ATATAAAATACAAAATACAAAATACAAAA-AT
1 A-AATA-ATAAAATACAAAATA-AAAATA-AAAATAT
18764364 AAATAATAAAA
1 AAATAATAAAA
18764375 AAAATCAATG
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
32 1 0.03
33 2 0.05
34 22 0.56
35 10 0.26
36 4 0.10
ACGTcount: A:0.74, C:0.04, G:0.01, T:0.21
Consensus pattern (33 bp):
AAATAATAAAATACAAAATAAAAATAAAAATAT
Found at i:18764375 original size:14 final size:14
Alignment explanation
Indices: 18764296--18764376 Score: 78
Period size: 14 Copynumber: 5.8 Consensus size: 14
18764286 AGAAGAGGAA
*
18764296 AAAATATAAAATAT
1 AAAATAAAAAATAT
18764310 AAAAT-AAAAATA-
1 AAAATAAAAAATAT
*
18764322 AAAATATAGAAATAT
1 AAAATA-AAAAATAT
* *
18764337 AAAATACAAAATAC
1 AAAATAAAAAATAT
18764351 AAAATACAAAAATA-
1 AAAATA-AAAAATAT
18764365 AATAATAAAAAA
1 AA-AATAAAAAA
18764377 AATCAATGAG
Statistics
Matches: 56, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
12 5 0.09
13 6 0.11
14 29 0.52
15 16 0.29
ACGTcount: A:0.75, C:0.04, G:0.01, T:0.20
Consensus pattern (14 bp):
AAAATAAAAAATAT
Found at i:18764462 original size:7 final size:7
Alignment explanation
Indices: 18764452--18764486 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
18764442 ACAATATATG
18764452 ATATGAT
1 ATATGAT
18764459 ATATGAT
1 ATATGAT
*
18764466 ATATGGT
1 ATATGAT
*
18764473 ATATGAC
1 ATATGAT
18764480 ATATGAT
1 ATATGAT
18764487 TAGAGTAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.40, C:0.03, G:0.17, T:0.40
Consensus pattern (7 bp):
ATATGAT
Found at i:18765733 original size:9 final size:9
Alignment explanation
Indices: 18765706--18765739 Score: 50
Period size: 9 Copynumber: 3.6 Consensus size: 9
18765696 TAAAAATCTT
18765706 TTTTATATA
1 TTTTATATA
18765715 TTATTAATATA
1 TT-TT-ATATA
18765726 TTTTATATA
1 TTTTATATA
18765735 TTTTA
1 TTTTA
18765740 AGAAAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 12 0.52
10 4 0.17
11 7 0.30
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (9 bp):
TTTTATATA
Found at i:18769499 original size:21 final size:21
Alignment explanation
Indices: 18769443--18769507 Score: 58
Period size: 21 Copynumber: 3.1 Consensus size: 21
18769433 GGAGGGAAGC
* * *
18769443 CAGGAGGTCCTGGTGGGCCAC
1 CAGGAGGTCCAGGTGGACCAG
** *
18769464 CAAAAGGCCCAGGTGGACCAG
1 CAGGAGGTCCAGGTGGACCAG
* *
18769485 CAGGAGGTCCGGGTGGAACAG
1 CAGGAGGTCCAGGTGGACCAG
18769506 CA
1 CA
18769508 TAAGGTAAAG
Statistics
Matches: 33, Mismatches: 11, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.25, C:0.26, G:0.40, T:0.09
Consensus pattern (21 bp):
CAGGAGGTCCAGGTGGACCAG
Found at i:18770094 original size:30 final size:30
Alignment explanation
Indices: 18770058--18770118 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
18770048 CCTCCAGGTT
* *
18770058 CAGGCCAAGGAGCTCCGGGACCGCCTTGTC
1 CAGGCCAAGGAGCTCCAGGACCGCCTGGTC
18770088 CAGGCCAAGGAGCTCCAGGACCGCCTGGTC
1 CAGGCCAAGGAGCTCCAGGACCGCCTGGTC
18770118 C
1 C
18770119 GGGAGGACCC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.18, C:0.38, G:0.33, T:0.11
Consensus pattern (30 bp):
CAGGCCAAGGAGCTCCAGGACCGCCTGGTC
Found at i:18770546 original size:2 final size:2
Alignment explanation
Indices: 18770539--18770574 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
18770529 TGATTTAGCC
18770539 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
18770575 GAAGAGATGT
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:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:18775450 original size:11 final size:11
Alignment explanation
Indices: 18775426--18775464 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
18775416 TTTCTCTTTG
* *
18775426 AAAAATAAACA
1 AAAAAGAAAAA
18775437 AAAAAGAAAAA
1 AAAAAGAAAAA
*
18775448 AAAAAAAAAAA
1 AAAAAGAAAAA
18775459 AAAAAG
1 AAAAAG
18775465 CTTGCAATGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.90, C:0.03, G:0.05, T:0.03
Consensus pattern (11 bp):
AAAAAGAAAAA
Found at i:18776289 original size:14 final size:13
Alignment explanation
Indices: 18776261--18776286 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18776251 TAAAATAACT
18776261 TTTTTTACCAAAA
1 TTTTTTACCAAAA
18776274 TTTTTTACCAAAA
1 TTTTTTACCAAAA
18776287 ATTCATATAA
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:0.38, C:0.15, G:0.00, T:0.46
Consensus pattern (13 bp):
TTTTTTACCAAAA
Found at i:18778126 original size:3 final size:3
Alignment explanation
Indices: 18778118--18778145 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
18778108 ATGGTTTTTC
18778118 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
18778146 TTGATTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:18785027 original size:2 final size:2
Alignment explanation
Indices: 18785020--18785053 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
18785010 ACTTCACGAT
*
18785020 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18785054 AATTAATAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:18785473 original size:139 final size:139
Alignment explanation
Indices: 18785223--18785498 Score: 525
Period size: 139 Copynumber: 2.0 Consensus size: 139
18785213 AGGAAGCCAT
* *
18785223 CTACTTTGACAGTGTCAAGCAACTAGAAGGGCTTGTTACAAGTGCCCTTAGAGTTTTCCATGTTT
1 CTACTTTGACAGTGTCAAGCAACTAGAAGGGCTTGTTACAAGTGCCATTAAAGTTTTCCATGTTT
18785288 CCATTAGCTTTTTCCACTGGTCTTGACGGAAGTTTCTTCTCTCAATCATGATGGAAATGGTTCAT
66 CCATTAGCTTTTTCCACTGGTCTTGACGGAAGTTTCTTCTCTCAATCATGATGGAAATGGTTCAT
18785353 CCATCTCTG
131 CCATCTCTG
*
18785362 CTACTTTGACAGTGTCAAGCAACTAGAAGGGCTTGTTACACGTGCCATTAAAGTTTTCCATGTTT
1 CTACTTTGACAGTGTCAAGCAACTAGAAGGGCTTGTTACAAGTGCCATTAAAGTTTTCCATGTTT
18785427 CCATTAGCTTTTTCCACTGGTCTTGACGGAAGTTTCTTCTCTCAATCATGATGGAAATGGTTCAT
66 CCATTAGCTTTTTCCACTGGTCTTGACGGAAGTTTCTTCTCTCAATCATGATGGAAATGGTTCAT
18785492 CCATCTC
131 CCATCTC
18785499 CGCTTGTAAA
Statistics
Matches: 134, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
139 134 1.00
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36
Consensus pattern (139 bp):
CTACTTTGACAGTGTCAAGCAACTAGAAGGGCTTGTTACAAGTGCCATTAAAGTTTTCCATGTTT
CCATTAGCTTTTTCCACTGGTCTTGACGGAAGTTTCTTCTCTCAATCATGATGGAAATGGTTCAT
CCATCTCTG
Found at i:18788576 original size:20 final size:20
Alignment explanation
Indices: 18788551--18788592 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
18788541 AAAAGACATT
18788551 AATGTTTTGGTAGTTGGTTC
1 AATGTTTTGGTAGTTGGTTC
18788571 AATGTTTTGGTAGTTGGTTC
1 AATGTTTTGGTAGTTGGTTC
18788591 AA
1 AA
18788593 CTGGGTATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.19, C:0.05, G:0.29, T:0.48
Consensus pattern (20 bp):
AATGTTTTGGTAGTTGGTTC
Found at i:18796740 original size:29 final size:29
Alignment explanation
Indices: 18796671--18796744 Score: 73
Period size: 29 Copynumber: 2.6 Consensus size: 29
18796661 ATCCGATCTG
* *
18796671 AAAT-TAATAAAATATTATTTTTTAAATAT
1 AAATATAA-AAAATATTATTATATAAATAT
**
18796700 AAATATTTAAAATATTATTATATAAATAT
1 AAATATAAAAAATATTATTATATAAATAT
18796729 ATAA-ATAAAAAA-ATTA
1 A-AATATAAAAAATATTA
18796745 AATAATTAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
28 4 0.11
29 30 0.81
30 3 0.08
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (29 bp):
AAATATAAAAAATATTATTATATAAATAT
Found at i:18796748 original size:21 final size:22
Alignment explanation
Indices: 18796722--18796765 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
18796712 TATTATTATA
18796722 TAAAT-ATATAAATAAAAA-AAT
1 TAAATAAT-TAAATAAAAATAAT
*
18796743 TAAATAATTAATTAAAAATAAT
1 TAAATAATTAAATAAAAATAAT
18796765 T
1 T
18796766 TTTTAATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (22 bp):
TAAATAATTAAATAAAAATAAT
Found at i:18798414 original size:34 final size:34
Alignment explanation
Indices: 18798352--18798497 Score: 139
Period size: 34 Copynumber: 4.3 Consensus size: 34
18798342 AACGACGTTT
* * * *
18798352 TCTATAAAACGTCGTTATATTAGTGGTATTTATA
1 TCTAAAAAATGTCGCTATATTAGCGGTATTTATA
* * *
18798386 TCTGAAAAATGTTGCTATATTAGCGGTATTCATA
1 TCTAAAAAATGTCGCTATATTAGCGGTATTTATA
* ** * *
18798420 TCTAAAAAACGTCATTATATTAGCGATATTTTTA
1 TCTAAAAAATGTCGCTATATTAGCGGTATTTATA
* * * * *
18798454 TCTAAAAAATATCGCTATATTAGTGATTTTTTTA
1 TCTAAAAAATGTCGCTATATTAGCGGTATTTATA
18798488 TCTAAAAAAT
1 TCTAAAAAAT
18798498 ACTGTTACAT
Statistics
Matches: 91, Mismatches: 21, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
34 91 1.00
ACGTcount: A:0.36, C:0.10, G:0.12, T:0.42
Consensus pattern (34 bp):
TCTAAAAAATGTCGCTATATTAGCGGTATTTATA
Found at i:18798490 original size:68 final size:68
Alignment explanation
Indices: 18798352--18798496 Score: 173
Period size: 68 Copynumber: 2.1 Consensus size: 68
18798342 AACGACGTTT
* * * * * * * *
18798352 TCTATAAAACGTCGTTATATTAGTGGTATTTATATCTGAAAAATGTTGCTATATTAGCGGTATTC
1 TCTAAAAAACGTCATTATATTAGCGATATTTATATCTAAAAAATATCGCTATATTAGCGATATTC
18798417 ATA
66 ATA
* * * *
18798420 TCTAAAAAACGTCATTATATTAGCGATATTTTTATCTAAAAAATATCGCTATATTAGTGATTTTT
1 TCTAAAAAACGTCATTATATTAGCGATATTTATATCTAAAAAATATCGCTATATTAGCGATATTC
*
18798485 TTA
66 ATA
18798488 TCTAAAAAA
1 TCTAAAAAA
18798497 TACTGTTACA
Statistics
Matches: 64, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
68 64 1.00
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.41
Consensus pattern (68 bp):
TCTAAAAAACGTCATTATATTAGCGATATTTATATCTAAAAAATATCGCTATATTAGCGATATTC
ATA
Found at i:18798510 original size:34 final size:34
Alignment explanation
Indices: 18798370--18798512 Score: 99
Period size: 34 Copynumber: 4.2 Consensus size: 34
18798360 ACGTCGTTAT
* * * * * *
18798370 ATTAGTGGTATTTATATCTGAAAAATGTTGCTAT
1 ATTAGTGATATTTTTATCTAAAAAATATCGCTAC
* * ** ** ** *
18798404 ATTAGCGGTATTCATATCTAAAAAACGTCATTAT
1 ATTAGTGATATTTTTATCTAAAAAATATCGCTAC
* *
18798438 ATTAGCGATATTTTTATCTAAAAAATATCGCTAT
1 ATTAGTGATATTTTTATCTAAAAAATATCGCTAC
* *
18798472 ATTAGTGATTTTTTTATCTAAAAAATA-CTGTTAC
1 ATTAGTGATATTTTTATCTAAAAAATATC-GCTAC
18798506 ATTAGTG
1 ATTAGTG
18798513 GTGTTTGTAT
Statistics
Matches: 90, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
33 1 0.01
34 89 0.99
ACGTcount: A:0.36, C:0.10, G:0.13, T:0.42
Consensus pattern (34 bp):
ATTAGTGATATTTTTATCTAAAAAATATCGCTAC
Found at i:18798524 original size:34 final size:34
Alignment explanation
Indices: 18798438--18798524 Score: 86
Period size: 34 Copynumber: 2.6 Consensus size: 34
18798428 ACGTCATTAT
* * * *
18798438 ATTAGCGATATTTTTATCTAAAAAATATCGCTAT
1 ATTAGTGATGTTTGTATCTAAAAAATATCGCTAC
* * *
18798472 ATTAGTGATTTTTTTATCTAAAAAATA-CTGTTAC
1 ATTAGTGATGTTTGTATCTAAAAAATATC-GCTAC
*
18798506 ATTAGTGGTGTTTGTATCT
1 ATTAGTGATGTTTGTATCT
18798525 TTAATACGTT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
33 1 0.02
34 44 0.98
ACGTcount: A:0.32, C:0.09, G:0.13, T:0.46
Consensus pattern (34 bp):
ATTAGTGATGTTTGTATCTAAAAAATATCGCTAC
Found at i:18800053 original size:140 final size:140
Alignment explanation
Indices: 18799785--18800043 Score: 315
Period size: 140 Copynumber: 1.9 Consensus size: 140
18799775 AAATAGTCCC
* *
18799785 AAATAGACATAAACGATAACTTTTTCACCCATATCAACCGTAGAAACTAAGTTCAATAAATCAGA
1 AAATAGACATAAACAATAACTTTTTCACACATATCAACCGTAGAAACTAAGTTCAATAAATCAGA
* * * ** *
18799850 TAAGTTTAATATCAAGTATTGAAGCTATCCAAATTGTTTCAATTGAACAATAACAAAAAATTTGT
66 TAAGTTTAATATCAAGTATTGAAGCTATCAAAACTATTAAAATAGAACAATAACAAAAAATTTGT
18799915 AATTTTACCT
131 AATTTTACCT
* * * *** * **
18799925 AAATAGACGTAAACAATAACTTTTTCATACATATCATCCGTCTTAACTAAGTTCAA-AACTTTTG
1 AAATAGACATAAACAATAACTTTTTCACACATATCAACCGTAGAAACTAAGTTCAATAA-ATCAG
* *
18799989 ATAAGTTTAATATCATGTATTGATA-CTATCAAAACTATTAAAATAGTACAATAAC
65 ATAAGTTTAATATCAAGTATTGA-AGCTATCAAAACTATTAAAATAGAACAATAAC
18800044 TGTTAATTTG
Statistics
Matches: 98, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
139 2 0.02
140 95 0.97
141 1 0.01
ACGTcount: A:0.43, C:0.15, G:0.08, T:0.33
Consensus pattern (140 bp):
AAATAGACATAAACAATAACTTTTTCACACATATCAACCGTAGAAACTAAGTTCAATAAATCAGA
TAAGTTTAATATCAAGTATTGAAGCTATCAAAACTATTAAAATAGAACAATAACAAAAAATTTGT
AATTTTACCT
Found at i:18806548 original size:186 final size:185
Alignment explanation
Indices: 18806213--18806689 Score: 647
Period size: 186 Copynumber: 2.6 Consensus size: 185
18806203 TGATGGTTAG
* **
18806213 TGAAGGCATTTTTTTAGAACAAACATGTTCAATAATTTTCTCTTAAAATTTTTGAGATTATTAAA
1 TGAAGGTATTTTTTTAGAACAAACACCTTCAATAATTTTCTCTTAAAATTTTTGAGATTATT-AA
* *
18806278 AGAATCTTTCAGT-AAAAAAAGCCTTTAATTTTTCACAACTCAATTTTTAAGACGGTTAGTAAAG
65 AGAGTCTTTCAGTGAAAAAAA-CCTTTAATTTTTCACAACTCAAATTTTAAGACGGTTAGTAAAG
* * * *
18806342 GCGTTTATGCTAGAAAAATGCCTTCACTAATTTCTTCTAATTTATGTACATATTTAT
129 GCATTTATGCTAGAAAAATGCCTTCACTAATTCCTTCTAATTTATATACATAATTAT
*
18806399 TGAAGGTATTTTTTTAGAACAAACGCCTTCAATAATTTTCTCTTAAAATTTTT-AGGATTATTAA
1 TGAAGGTATTTTTTTAGAACAAACACCTTCAATAATTTTCTCTTAAAATTTTTGA-GATTATTAA
* * * * *
18806463 AGACGTCTTTCAGTGAAAAACATCTTCAATTTTTCACAACTCAAATTTTAAGACGTTTAGTGAAG
65 AGA-GTCTTTCAGTGAAAAAAACCTTTAATTTTTCACAACTCAAATTTTAAGACGGTTAGTAAAG
* * * *
18806528 GTATTTATTCTAGGAAAATGCCTTCGCTAATTCCTTCTAATTTATATACATAATTAT
129 GCATTTATGCTAGAAAAATGCCTTCACTAATTCCTTCTAATTTATATACATAATTAT
* *
18806585 TGAAGGTA-TTTTTTAGAAAAAAAATACCTTCAATAATTTTCTCTTAAAATTTTTGAGATTATTA
1 TGAAGGTATTTTTTTAG--AACAAACACCTTCAATAATTTTCTCTTAAAATTTTTGAGATTATTA
* *
18806649 AAGATGTC-TTCTAATGAAAAATACCTTTAATTTTTCACAAC
64 AAGA-GTCTTTC-AGTGAAAAAAACCTTTAATTTTTCACAAC
18806690 GCCTTCTAGA
Statistics
Matches: 257, Mismatches: 27, Indels: 13
0.87 0.09 0.04
Matches are distributed among these distances:
185 14 0.05
186 163 0.63
187 79 0.31
188 1 0.00
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (185 bp):
TGAAGGTATTTTTTTAGAACAAACACCTTCAATAATTTTCTCTTAAAATTTTTGAGATTATTAAA
GAGTCTTTCAGTGAAAAAAACCTTTAATTTTTCACAACTCAAATTTTAAGACGGTTAGTAAAGGC
ATTTATGCTAGAAAAATGCCTTCACTAATTCCTTCTAATTTATATACATAATTAT
Found at i:18806825 original size:158 final size:158
Alignment explanation
Indices: 18806535--18806847 Score: 450
Period size: 158 Copynumber: 2.0 Consensus size: 158
18806525 AAGGTATTTA
* * *
18806535 TTCTAGGAAAATGCCTTCGCTAATTCCTTCTAATTTATATACATAATTATTGAAGGTATTTTTTA
1 TTCTAGAAAAACGCCTTCACTAATTCCTTCTAATTTATATACATAATTATTGAAGGTATTTTTTA
* ** *
18806600 GAAAAAAAATACCTTCAATAATTTTCTCTTAAAATTTTTGAGATTATTAAAGATGTCTTCTAATG
66 GAAAAAAAATACCTTCAATAATTTTCTCTTAAAATTTTTAAGATTATTAAAGACATCTTCCAATG
*
18806665 AAAAATACCTTTAATTTTTCACAACGCC
131 AAAAATACCTTTAACTTTTCACAACGCC
* *
18806693 TTCTAGAAAAACGCCTTCACTAATTCTTTTTAATTTA-AGTACATAATTATTGAAGGTATATTTT
1 TTCTAGAAAAACGCCTTCACTAATTCCTTCTAATTTATA-TACATAATTATTGAAGGTAT-TTTT
* * * * *
18806757 T-GAAAAAAAATGCTTTCAATAATTTTTTCTTAAAATTTTTAAGATTATTAAAGGCATCTTCCAG
64 TAGAAAAAAAATACCTTCAATAATTTTCTCTTAAAATTTTTAAGATTATTAAAGACATCTTCCAA
*
18806821 TGAAAAATGCCTTTAACTTTTCACAAC
129 TGAAAAATACCTTTAACTTTTCACAAC
18806848 TCAAATTTTA
Statistics
Matches: 137, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
157 1 0.01
158 131 0.96
159 5 0.04
ACGTcount: A:0.36, C:0.14, G:0.09, T:0.41
Consensus pattern (158 bp):
TTCTAGAAAAACGCCTTCACTAATTCCTTCTAATTTATATACATAATTATTGAAGGTATTTTTTA
GAAAAAAAATACCTTCAATAATTTTCTCTTAAAATTTTTAAGATTATTAAAGACATCTTCCAATG
AAAAATACCTTTAACTTTTCACAACGCC
Found at i:18807053 original size:170 final size:168
Alignment explanation
Indices: 18806770--18807110 Score: 468
Period size: 170 Copynumber: 2.0 Consensus size: 168
18806760 AAAAAAATGC
* * ** *
18806770 TTTCAATAATTTTTTCTTAAAATTTTTAAGATTATTAAAGGCATCTTCCAGTGAAAAATGCCTTT
1 TTTCAATAATTCTCTCTTAAAATTTTTAAGATTATTAAAGGCATCTTCCAGAAAAAAACGCCTTT
* * **
18806835 AACTTTTCACAACTCAAATTTTAAGACATTCAGTGAAGGCGTTTATTCTAAAAAAATGCCTTCAC
66 AACTTTTCACAACTCAAATTTTAAAACATTCAATGAAGGCGTTTATTCTAAAAAAACACCTTCAC
* *
18806900 TAATTCTTTCTAATTTACGTACATAATTATTGAAGGCA
131 TAATTCCTTCTAATTTACATACATAATTATTGAAGGCA
* * * *
18806938 TTTCAATAATTCTCTCTTAAAATTTTTGAGATTATTAAAGGCGTTTTCTAGAAAAAAAAACGCCT
1 TTTCAATAATTCTCTCTTAAAATTTTTAAGATTATTAAAGGCATCTTCCAG--AAAAAAACGCCT
* * * *
18807003 TTAATTTTTCACAACTCAAATTTTAAAACAGTT-AATGAAGGTGTTTATTCTAGAAAAACACTTT
64 TTAACTTTTCACAACTCAAATTTTAAAACA-TTCAATGAAGGCGTTTATTCTAAAAAAACACCTT
*
18807067 CACTAATTCCTTCTAATTTACATACATAATTATTGAATGCA
128 CACTAATTCCTTCTAATTTACATACATAATTATTGAAGGCA
18807108 TTT
1 TTT
18807111 TTTGAGAAAA
Statistics
Matches: 150, Mismatches: 20, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
168 45 0.30
170 103 0.69
171 2 0.01
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.40
Consensus pattern (168 bp):
TTTCAATAATTCTCTCTTAAAATTTTTAAGATTATTAAAGGCATCTTCCAGAAAAAAACGCCTTT
AACTTTTCACAACTCAAATTTTAAAACATTCAATGAAGGCGTTTATTCTAAAAAAACACCTTCAC
TAATTCCTTCTAATTTACATACATAATTATTGAAGGCA
Found at i:18807161 original size:125 final size:124
Alignment explanation
Indices: 18806968--18807252 Score: 345
Period size: 124 Copynumber: 2.3 Consensus size: 124
18806958 AATTTTTGAG
* * * *
18806968 ATTATTAAAGGCGTTTTCTAGAAAAAAAAACGCCTTTAATTTTTCACAACTCAAATTTTAAAACA
1 ATTATTAAAGGCATTTT-T-TAAGAAAAAACACCTTTAATTTTTCACAACTCAAATTTTAAAACA
** * *
18807033 GTTAATGAAGGTGTTTATTCTAGAAAAACACTTTCACTAATTCCTTCTAATTTACATACATA
64 GTTAATGAAGGCATTTATTCTA-AAAAACACCTTCACTAATTCCTTCTAATTGACATACATA
* * * * * *
18807095 ATTATTGAATGCATTTTTTGAGAAAAAATACCTTTAATTTTTCACAACTCAAATTTTAAGATAGT
1 ATTATTAAAGGCATTTTTTAAGAAAAAACACCTTTAATTTTTCACAACTCAAATTTTAAAACAGT
* * * * **
18807160 TAGTTAAGGCATTTATTTTAAAAAATACCTTCACTAATTCCTTCTAATTGATGTACATA
66 TAATGAAGGCATTTATTCTAAAAAACACCTTCACTAATTCCTTCTAATTGACATACATA
* *
18807219 TTTATTAAAGGCATTTTTTAAGAATAAACACCTT
1 ATTATTAAAGGCATTTTTTAAGAAAAAACACCTT
18807253 CACTAATTTC
Statistics
Matches: 132, Mismatches: 26, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
124 62 0.47
125 55 0.42
126 1 0.01
127 14 0.11
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.39
Consensus pattern (124 bp):
ATTATTAAAGGCATTTTTTAAGAAAAAACACCTTTAATTTTTCACAACTCAAATTTTAAAACAGT
TAATGAAGGCATTTATTCTAAAAAACACCTTCACTAATTCCTTCTAATTGACATACATA
Found at i:18807256 original size:62 final size:61
Alignment explanation
Indices: 18807165--18807299 Score: 157
Period size: 62 Copynumber: 2.2 Consensus size: 61
18807155 ATAGTTAGTT
* * *
18807165 AAGGCATTTATTTTAAAAAATACCTTCACTAATTCCTTCTAATTGATGTACATATTTATT-A
1 AAGGCATTT-TTTAAAAAAACACCTTCACTAATTCCTTCTAATTGATGTACATAATTATTGA
* * **
18807226 AAGGCATTTTTTAAGAATAAACACCTTCACTAATTTCTTTTAATTTTTGTACATAATTATTGA
1 AAGGCATTTTTTAA-AA-AAACACCTTCACTAATTCCTTCTAATTGATGTACATAATTATTGA
*
18807289 AA-GCAATTTTT
1 AAGGCATTTTTT
18807300 CTACTGAAAA
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
60 4 0.06
61 11 0.17
62 45 0.71
63 3 0.05
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.44
Consensus pattern (61 bp):
AAGGCATTTTTTAAAAAAACACCTTCACTAATTCCTTCTAATTGATGTACATAATTATTGA
Found at i:18807849 original size:25 final size:25
Alignment explanation
Indices: 18807820--18807872 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
18807810 GAATCGTATA
** *
18807820 CTGAATGATTTGTTGAATGGTGTTT
1 CTGAATGATTTACTGAATGATGTTT
*
18807845 CTGAATGGTTTACTGAATGATGTTT
1 CTGAATGATTTACTGAATGATGTTT
18807870 CTG
1 CTG
18807873 TACGTAGTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.21, C:0.08, G:0.26, T:0.45
Consensus pattern (25 bp):
CTGAATGATTTACTGAATGATGTTT
Found at i:18807851 original size:13 final size:13
Alignment explanation
Indices: 18807833--18807872 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
18807823 AATGATTTGT
18807833 TGAATGGTGTTTC
1 TGAATGGTGTTTC
*
18807846 TGAATGGT-TTAC
1 TGAATGGTGTTTC
*
18807858 TGAATGATGTTTC
1 TGAATGGTGTTTC
18807871 TG
1 TG
18807873 TACGTAGTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
12 10 0.43
13 13 0.57
ACGTcount: A:0.20, C:0.07, G:0.28, T:0.45
Consensus pattern (13 bp):
TGAATGGTGTTTC
Found at i:18807862 original size:12 final size:12
Alignment explanation
Indices: 18807801--18807863 Score: 54
Period size: 12 Copynumber: 5.2 Consensus size: 12
18807791 TGTATGATAT
*
18807801 TGGTATACTGAA
1 TGGTTTACTGAA
* *
18807813 TCGTATACTGAA
1 TGGTTTACTGAA
* **
18807825 TGATTTGTTGAA
1 TGGTTTACTGAA
*
18807837 TGGTGTTTCTGAA
1 TGGT-TTACTGAA
18807850 TGGTTTACTGAA
1 TGGTTTACTGAA
18807862 TG
1 TG
18807864 ATGTTTCTGT
Statistics
Matches: 40, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
12 30 0.75
13 10 0.25
ACGTcount: A:0.25, C:0.08, G:0.25, T:0.41
Consensus pattern (12 bp):
TGGTTTACTGAA
Found at i:18810534 original size:22 final size:20
Alignment explanation
Indices: 18810487--18810526 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
18810477 TTTTATTTTT
*
18810487 TATTTTTATTTTCTAGAAAG
1 TATTTTTATTTTCTAAAAAG
*
18810507 TAATTTTTATTTTTTAAAAA
1 T-ATTTTTATTTTCTAAAAA
18810527 TTGTATTTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (20 bp):
TATTTTTATTTTCTAAAAAG
Found at i:18813236 original size:11 final size:11
Alignment explanation
Indices: 18813220--18813266 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
18813210 CGATTTTGGT
18813220 TTTTTATTAAA
1 TTTTTATTAAA
18813231 TTTTTATTAAA
1 TTTTTATTAAA
* **
18813242 TTATTAAAAAAA
1 TT-TTTATTAAA
18813254 TTTTTA-TAAA
1 TTTTTATTAAA
18813264 TTT
1 TTT
18813267 CATCTAAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
10 6 0.20
11 16 0.53
12 8 0.27
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (11 bp):
TTTTTATTAAA
Found at i:18815368 original size:19 final size:19
Alignment explanation
Indices: 18815344--18815400 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
18815334 TTTTAAATCA
18815344 TATCATATTAATATTATAT
1 TATCATATTAATATTATAT
*
18815363 TATCATATCGTAAT-TTAAAT
1 TATCATAT--TAATATTATAT
*
18815383 TATCATTTTTAATATTAT
1 TATCA-TATTAATATTAT
18815401 TATCGGTGAT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
19 12 0.39
20 13 0.42
21 6 0.19
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.53
Consensus pattern (19 bp):
TATCATATTAATATTATAT
Found at i:18823036 original size:12 final size:12
Alignment explanation
Indices: 18823019--18823048 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
18823009 TAGTTGATAA
18823019 AGACAACATATT
1 AGACAACATATT
18823031 AGACAACATATT
1 AGACAACATATT
*
18823043 GGACAA
1 AGACAA
18823049 GGACAGAACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.50, C:0.17, G:0.13, T:0.20
Consensus pattern (12 bp):
AGACAACATATT
Found at i:18830714 original size:21 final size:21
Alignment explanation
Indices: 18830689--18830756 Score: 59
Period size: 24 Copynumber: 3.1 Consensus size: 21
18830679 ATGGATGCAT
18830689 AAATTATTGAAAATATAATAA
1 AAATTATTGAAAATATAATAA
* **
18830710 AAATTA-TGTATCTCATATATCAAA
1 AAATTATTGAAAAT-ATA-AT--AA
18830734 AAATTATT-AAAATATAATAA
1 AAATTATTGAAAATATAATAA
18830754 AAA
1 AAA
18830757 ATGTGTACAT
Statistics
Matches: 36, Mismatches: 6, Indels: 11
0.68 0.11 0.21
Matches are distributed among these distances:
20 9 0.25
21 9 0.25
22 4 0.11
23 3 0.08
24 10 0.28
25 1 0.03
ACGTcount: A:0.59, C:0.04, G:0.03, T:0.34
Consensus pattern (21 bp):
AAATTATTGAAAATATAATAA
Found at i:18830757 original size:21 final size:21
Alignment explanation
Indices: 18830689--18830758 Score: 63
Period size: 21 Copynumber: 3.2 Consensus size: 21
18830679 ATGGATGCAT
18830689 AAATTATTGAAAATATAAT-AA
1 AAATTATT-AAAATATAATAAA
**
18830710 AAATTATGT-ATCTCATATATCAAA
1 AAATTAT-TAAAAT-ATA-AT-AAA
18830734 AAATTATTAAAATATAATAAA
1 AAATTATTAAAATATAATAAA
18830755 AAAT
1 AAAT
18830759 GTGTACATCC
Statistics
Matches: 39, Mismatches: 4, Indels: 12
0.71 0.07 0.22
Matches are distributed among these distances:
20 2 0.05
21 17 0.44
22 5 0.13
23 4 0.10
24 11 0.28
ACGTcount: A:0.59, C:0.04, G:0.03, T:0.34
Consensus pattern (21 bp):
AAATTATTAAAATATAATAAA
Found at i:18831235 original size:22 final size:22
Alignment explanation
Indices: 18831179--18831236 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
18831169 GGAATACTTG
*
18831179 CAAAAGATAAAAACCATAAAAA
1 CAAAAAATAAAAACCATAAAAA
* *
18831201 CAAAAAATCAAAAAGCA-AAAAG
1 CAAAAAAT-AAAAACCATAAAAA
18831223 CAAAAAAATAAAAA
1 C-AAAAAATAAAAA
18831237 ACAAGATGTC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
22 17 0.55
23 14 0.45
ACGTcount: A:0.76, C:0.12, G:0.05, T:0.07
Consensus pattern (22 bp):
CAAAAAATAAAAACCATAAAAA
Found at i:18832931 original size:15 final size:13
Alignment explanation
Indices: 18832884--18832928 Score: 63
Period size: 14 Copynumber: 3.3 Consensus size: 13
18832874 AAAAATATTG
18832884 AATATAATTAAAAA
1 AATA-AATTAAAAA
18832898 AATAAATTAAAATA
1 AATAAATTAAAA-A
*
18832912 AATAAATTTAAAA
1 AATAAATTAAAAA
18832925 AATA
1 AATA
18832929 TAACCCCTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
13 13 0.45
14 16 0.55
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
AATAAATTAAAAA
Found at i:18833796 original size:23 final size:22
Alignment explanation
Indices: 18833769--18833816 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
18833759 ATTTGAAGAG
*
18833769 AAAATTTTAATTTAATATTTAAA
1 AAAATTTTAA-TGAATATTTAAA
*
18833792 AAAATTTTAATGGATATTTAAA
1 AAAATTTTAATGAATATTTAAA
18833814 AAA
1 AAA
18833817 TTAAAAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 13 0.57
23 10 0.43
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (22 bp):
AAAATTTTAATGAATATTTAAA
Found at i:18835255 original size:67 final size:65
Alignment explanation
Indices: 18835179--18835354 Score: 194
Period size: 67 Copynumber: 2.6 Consensus size: 65
18835169 CCAATAGGTT
* *
18835179 TTAGAATATGTATTAGAGGGCTTGAATACTTTTGGGGTGGGCCATGGTGTCAATATATCAAGACG
1 TTAGAATATGAATTAGAGGGCTTGAATA-TTTT-GGGTGGGCCATAGTGTCAATATATCAAGACG
18835244 TA
64 TA
* * * ** * *
18835246 TTAGAATATGAATTAGAGAGCCTGAA-AGGTTTTTGGTTGGGCTTTAGTGTCAATATATCAATAT
1 TTAGAATATGAATTAGAGGGCTTGAATA---TTTTGGGTGGGCCATAGTGTCAATATATCAAGAC
*
18835310 GTT
63 GTA
18835313 TTAGAATATGAATTAGAGGGCTTGAAGT-TTTTGGGTGGGCCA
1 TTAGAATATGAATTAGAGGGCTTGAA-TATTTTGGGTGGGCCA
18835355 AAAAATCAAT
Statistics
Matches: 89, Mismatches: 16, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
65 11 0.12
66 1 0.01
67 73 0.82
68 4 0.04
ACGTcount: A:0.28, C:0.09, G:0.28, T:0.35
Consensus pattern (65 bp):
TTAGAATATGAATTAGAGGGCTTGAATATTTTGGGTGGGCCATAGTGTCAATATATCAAGACGTA
Found at i:18835530 original size:75 final size:75
Alignment explanation
Indices: 18835439--18835583 Score: 247
Period size: 75 Copynumber: 1.9 Consensus size: 75
18835429 TATATATGTG
*
18835439 TTAGAATACGTGTTAGAGAGCCTGAAAAG-TTTTGAGGTGGGCCATGGTGTCGACATATCAAAAT
1 TTAGAATACGTATTAGAGAGCCTGAAAAGTTTTTG-GGTGGGCCATGGTGTCGACATATCAAAAT
18835503 GTATTACAAAT
65 GTATTACAAAT
* *
18835514 TTAGAATATGTATTAGAGAGCCTGAAAAGTTTTTGGGTGGGCCATGGTGTCGACATATCAATATG
1 TTAGAATACGTATTAGAGAGCCTGAAAAGTTTTTGGGTGGGCCATGGTGTCGACATATCAAAATG
18835579 TATTA
66 TATTA
18835584 GAGAGCCTGA
Statistics
Matches: 66, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
75 61 0.92
76 5 0.08
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.32
Consensus pattern (75 bp):
TTAGAATACGTATTAGAGAGCCTGAAAAGTTTTTGGGTGGGCCATGGTGTCGACATATCAAAATG
TATTACAAAT
Found at i:18836934 original size:17 final size:18
Alignment explanation
Indices: 18836912--18836951 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
18836902 TGTTATTAAA
*
18836912 ATAAATATTTAAAA-ATT
1 ATAAATATTAAAAACATT
18836929 ATAAAT-TTAAAAACATT
1 ATAAATATTAAAAACATT
18836946 -TAAATA
1 ATAAATA
18836952 CGTCATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (18 bp):
ATAAATATTAAAAACATT
Found at i:18839007 original size:23 final size:22
Alignment explanation
Indices: 18838958--18839011 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
18838948 TTTATAACAA
* * *
18838958 AAATTTTTTTTTTATTATATTG
1 AAATTTTTTTTTTATAATACTC
18838980 AAATTTTTTTTTTATAAATACTC
1 AAATTTTTTTTTTAT-AATACTC
*
18839003 CAATTTTTT
1 AAATTTTTT
18839012 AAAAAATATT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
22 15 0.56
23 12 0.44
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.63
Consensus pattern (22 bp):
AAATTTTTTTTTTATAATACTC
Found at i:18839107 original size:11 final size:11
Alignment explanation
Indices: 18839091--18839115 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
18839081 TAAAAATTTC
18839091 TTTTTATTATT
1 TTTTTATTATT
18839102 TTTTTATTATT
1 TTTTTATTATT
18839113 TTT
1 TTT
18839116 ATGTTTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTTATTATT
Found at i:18839116 original size:20 final size:19
Alignment explanation
Indices: 18839091--18839128 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
18839081 TAAAAATTTC
18839091 TTTTTATTATTTTTTTATTA
1 TTTTTA-TATTTTTTTATTA
*
18839111 TTTTTATGTTTTTTTATT
1 TTTTTATATTTTTTTATT
18839129 TAATTATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.16, C:0.00, G:0.03, T:0.82
Consensus pattern (19 bp):
TTTTTATATTTTTTTATTA
Found at i:18839331 original size:20 final size:20
Alignment explanation
Indices: 18839284--18839344 Score: 54
Period size: 20 Copynumber: 3.0 Consensus size: 20
18839274 ATGCATAAAT
18839284 ATTAAGAATAATA-ATAAAACA
1 ATTAA-AATAATATATAAAA-A
**
18839305 ACAAAAATAATATATAAAAA
1 ATTAAAATAATATATAAAAA
* *
18839325 ATTAAAAAAAAAT-TAAAAA
1 ATTAAAATAATATATAAAAA
18839344 A
1 A
18839345 AATTTTTTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
19 7 0.21
20 17 0.52
21 9 0.27
ACGTcount: A:0.74, C:0.03, G:0.02, T:0.21
Consensus pattern (20 bp):
ATTAAAATAATATATAAAAA
Found at i:18839348 original size:10 final size:11
Alignment explanation
Indices: 18839320--18839346 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
18839310 AATAATATAT
18839320 AAAAAATTAAA
1 AAAAAATTAAA
18839331 AAAAAATTAAA
1 AAAAAATTAAA
18839342 AAAAA
1 AAAAA
18839347 TTTTTTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAAAATTAAA
Found at i:18840451 original size:28 final size:28
Alignment explanation
Indices: 18840420--18840492 Score: 110
Period size: 28 Copynumber: 2.6 Consensus size: 28
18840410 AGACTTTAGG
* *
18840420 CCCAATCGAATTGAAATCGAGTCTGAAA
1 CCCAATTGAATTGAAATCGAGCCTGAAA
*
18840448 CCCAATTGAATTGAAATCGAGCCTGAAG
1 CCCAATTGAATTGAAATCGAGCCTGAAA
*
18840476 CCCAGTTGAATTGAAAT
1 CCCAATTGAATTGAAAT
18840493 TAGGTATCGA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (28 bp):
CCCAATTGAATTGAAATCGAGCCTGAAA
Found at i:18840810 original size:48 final size:48
Alignment explanation
Indices: 18840729--18841664 Score: 577
Period size: 48 Copynumber: 19.2 Consensus size: 48
18840719 AATTTTAAAA
* * * *
18840729 TTTGAAAGAGACTCCTCTCAGCAAAGGCTCAACAACTTTAAAATTTTGT
1 TTTGAAAAAG-CTCATCTCAGCAGAGGCTCAACAACTTTAAAATTTTAT
* * * * * ** * *
18840778 TTTGAAAAAGTTCTTCTAAACAGAGGCTCAACAATTTTAAAAAGTCACA
1 TTTGAAAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAATTTTA-T
* * * * *
18840827 TCTGAAAAAAGCTCCTCTCAGCAGAGGCTCAATAACTTTAAAAATCTCA-
1 TTTG-AAAAAGCTCATCTCAGCAGAGGCTCAACAACTTT-AAAATTTTAT
* * * * *
18840876 TCTGAAAAAAGCTCATCTTAGTAGAGGCTAAACAACTTT-AAATTCTAT
1 TTTG-AAAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAATTTTAT
* * * * * * *
18840924 CTCGAAAAAAGCTTC-TCTCAGTAGAGACTCAATAACTTTAAAAATCCTCAT
1 TTTG-AAAAAGC-TCATCTCAGCAGAGGCTCAACAACTTT-AAAAT-TTTAT
* * * *
18840975 CTTGAAAAAGCTTC-TTTCAGCAGAAGCTCAACAACTTTAAAATTTCA-
1 TTTGAAAAAGC-TCATCTCAGCAGAGGCTCAACAACTTTAAAATTTTAT
* * * * *
18841022 TTTGTAAAAAGCTCTTTTTAGCAGAGGCTCAATAACTTTAAAATTCTA-
1 TTTG-AAAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAATTTTAT
* * *
18841070 TCTCAAAAAGGCTTC-TCTCAGTAGAGGCTCAACAACTTTAAAATTTTA-
1 TTTGAAAAA-GC-TCATCTCAGCAGAGGCTCAACAACTTTAAAATTTTAT
* * * *
18841118 TCTGAAAAAAGCTCATCTCAGCAGAGACTCAACAACTTTAAAAATCCTCAT
1 TTTG-AAAAAGCTCATCTCAGCAGAGGCTCAACAACTTT-AAAAT-TTTAT
* * * * *
18841169 CTTGAAAGAGCTCATCTCAACAGAAGCTCAATAACTTTAAAATTTTAT
1 TTTGAAAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAATTTTAT
* * * * ** *
18841217 CTCG-AAAAGACTCCTTTCAATAGAGGCTCAACAACTTTAAAATTTT-G
1 TTTGAAAAAG-CTCATCTCAGCAGAGGCTCAACAACTTTAAAATTTTAT
* * * * * *
18841264 TCTGAAAAAAGCTCCTCTCAGCAGAGACTCAACAAGTTTAAAAATCCTCAT
1 TTTG-AAAAAGCTCATCTCAGCAGAGGCTCAACAACTTT-AAAAT-TTTAT
* * * * * *
18841315 CTTT-AAAGAGCTCATCTCAACAGAAGCTTAATAACATTAAAATTTTAT
1 -TTTGAAAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAATTTTAT
* * * * * * * *
18841363 CTCGAAAAGGTTCCTCTCAGTAAAGGTTCAACAACTTTAAAATTTTA-
1 TTTGAAAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAATTTTAT
* * * *
18841410 TCTGAAAAAAGCTCATCTCAGCAGAGACTCAACAACTTTAAAATCCTCAT
1 TTTG-AAAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAAT-TTTAT
* * * * *
18841460 CTTGAAAGAGCTCATCTCAACAGAAGCTCAATAACTTTAAAATTTTA-
1 TTTGAAAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAATTTTAT
* * * **
18841507 TCTGAAAAAAGTTTC-TCTCAGCAGAGACTCAACAACTTTAAAATTTTGG
1 TTTG-AAAAAG-CTCATCTCAGCAGAGGCTCAACAACTTTAAAATTTTAT
* * * * * *
18841556 CTCGAAAAAGCTCTTCTCAGTAGATGTTCAACAACTTTAAAAATTTTTAT
1 TTTGAAAAAGCTCATCTCAGCAGAGGCTCAACAACTTT-AAAA-TTTTAT
* * * * * *
18841606 CTTGAAAAAGCTCATCTTAGTAGATGTTCAATAACTTTAAAATTTTTAT
1 TTTGAAAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAA-TTTTAT
*
18841655 TTTAAAAAAG
1 TTTGAAAAAG
18841665 GCTTCTTTCA
Statistics
Matches: 689, Mismatches: 164, Indels: 68
0.75 0.18 0.07
Matches are distributed among these distances:
47 28 0.04
48 340 0.49
49 147 0.21
50 158 0.23
51 14 0.02
52 2 0.00
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.30
Consensus pattern (48 bp):
TTTGAAAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAATTTTAT
Found at i:18841108 original size:146 final size:145
Alignment explanation
Indices: 18840799--18841697 Score: 931
Period size: 146 Copynumber: 6.1 Consensus size: 145
18840789 TCTTCTAAAC
* *** * *
18840799 AGAGGCTCAACAATTTTAAAAAGTCACATCTGAAAAAAGCTCCTCTCAGCAGAGGCTCAATAACT
1 AGAGGCTCAACAACTTT-AAAA-TTTTATCTGAAAAAAGCT-CTCTCAGCAGAGACTCAACAACT
* ** * * * *
18840864 TTAAAAAT-CTCATC-TGAAAAAAGCTCATCTTAGTAGAGGCTAAACAACTTT-AAATTCTATCT
63 TTAAAAATCCTCATCTTG-AAAAAGCTCATCTCAACAGAAGCTCAATAACTTTAAAATTTTATCT
*
18840926 CGAAAAAAGCTTCTCTCAGT
127 C-AAAAAGGCTTCTCTCAGT
* * * * *
18840946 AGAGACTCAATAACTTTAAAAATCCTCATCTTG-AAAAAGCTTCTTTCAGCAGA-AGCTCAACAA
1 AGAGGCTCAACAACTTT-AAAAT-TTTATC-TGAAAAAAGC-TCTCTCAGCAGAGA-CTCAACAA
* * * * * * *
18841009 CTTT-AAAAT-TTCAT-TTGTAAAAAGCTCTTTTTAGCAGAGGCTCAATAACTTTAAAATTCTAT
61 CTTTAAAAATCCTCATCTTG-AAAAAGCTCATCTCAACAGAAGCTCAATAACTTTAAAATTTTAT
18841071 CTCAAAAAGGCTTCTCTCAGT
125 CTCAAAAAGGCTTCTCTCAGT
18841092 AGAGGCTCAACAACTTTAAAATTTTATCTGAAAAAAGCTCATCTCAGCAGAGACTCAACAACTTT
1 AGAGGCTCAACAACTTTAAAATTTTATCTGAAAAAAGCTC-TCTCAGCAGAGACTCAACAACTTT
* *
18841157 AAAAATCCTCATCTTGAAAGAGCTCATCTCAACAGAAGCTCAATAACTTTAAAATTTTATCTCGA
65 AAAAATCCTCATCTTGAAAAAGCTCATCTCAACAGAAGCTCAATAACTTTAAAATTTTATCTCAA
* * * *
18841222 AAAGACTCCTTTCAAT
130 AAAGGCTTCTCTCAGT
* *
18841238 AGAGGCTCAACAACTTTAAAATTTTGTCTGAAAAAAGCTCCTCTCAGCAGAGACTCAACAAGTTT
1 AGAGGCTCAACAACTTTAAAATTTTATCTGAAAAAAGCT-CTCTCAGCAGAGACTCAACAACTTT
* * * * *
18841303 AAAAATCCTCATCTTTAAAGAGCTCATCTCAACAGAAGCTTAATAACATTAAAATTTTATCTCGA
65 AAAAATCCTCATCTTGAAAAAGCTCATCTCAACAGAAGCTCAATAACTTTAAAATTTTATCTCAA
18841368 AAAGG-TTCCTCTCAGT
130 AAAGGCTT-CTCTCAGT
* *
18841384 AAAGGTTCAACAACTTTAAAATTTTATCTGAAAAAAGCTCATCTCAGCAGAGACTCAACAACTTT
1 AGAGGCTCAACAACTTTAAAATTTTATCTGAAAAAAGCTC-TCTCAGCAGAGACTCAACAACTTT
* *
18841449 -AAAATCCTCATCTTGAAAGAGCTCATCTCAACAGAAGCTCAATAACTTTAAAATTTTATCTGAA
65 AAAAATCCTCATCTTGAAAAAGCTCATCTCAACAGAAGCTCAATAACTTTAAAATTTTATCTCAA
* * *
18841513 AAAAGTTTCTCTCAGC
130 AAAGGCTTCTCTCAGT
* ** * *
18841529 AGAGACTCAACAACTTTAAAATTTTGGCTCG-AAAAAGCTCTTCTCAGTAGATG-TTCAACAACT
1 AGAGGCTCAACAACTTTAAAATTTTATCT-GAAAAAAGCTC-TCTCAGCAGA-GACTCAACAACT
** * * ** * * *
18841592 TTAAAAATTTTTATCTTGAAAAAGCTCATCTTAGTAGATGTTCAATAACTTTAAAATTTTTATTT
63 TTAAAAATCCTCATCTTGAAAAAGCTCATCTCAACAGAAGCTCAATAACTTTAAAA-TTTTA-TC
* * **
18841657 TAAAAAAGGCTTCTTTCAAC
126 TCAAAAAGGCTTCTCTCAGT
** *
18841677 AGAAACTCAACAACCTTAAAA
1 AGAGGCTCAACAACTTTAAAA
18841698 ATTCTTGAAA
Statistics
Matches: 653, Mismatches: 78, Indels: 41
0.85 0.10 0.05
Matches are distributed among these distances:
143 4 0.01
144 32 0.05
145 136 0.21
146 370 0.57
147 73 0.11
148 38 0.06
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.30
Consensus pattern (145 bp):
AGAGGCTCAACAACTTTAAAATTTTATCTGAAAAAAGCTCTCTCAGCAGAGACTCAACAACTTTA
AAAATCCTCATCTTGAAAAAGCTCATCTCAACAGAAGCTCAATAACTTTAAAATTTTATCTCAAA
AAGGCTTCTCTCAGT
Found at i:18842548 original size:16 final size:16
Alignment explanation
Indices: 18842522--18842555 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
18842512 CATGTCATTC
18842522 TTTTTCATTTTTGTTTT
1 TTTTTCATTTTT-TTTT
18842539 TTTTTC-TTTTTTTTT
1 TTTTTCATTTTTTTTT
18842554 TT
1 TT
18842556 AAAGTAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
16 5 0.29
17 6 0.35
ACGTcount: A:0.03, C:0.06, G:0.03, T:0.88
Consensus pattern (16 bp):
TTTTTCATTTTTTTTT
Found at i:18853838 original size:26 final size:26
Alignment explanation
Indices: 18853802--18853864 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
18853792 TTATAACTTA
* **
18853802 TTATTAATTTATTAA-TTAATTTTTAT
1 TTATTATTTTATTAACAAAATTTTT-T
18853828 TTATTATTTTA-TAACAAAATTTTTT
1 TTATTATTTTATTAACAAAATTTTTT
18853853 TT-TTATTTTATT
1 TTATTATTTTATT
18853865 GAAATTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
24 8 0.25
25 7 0.22
26 17 0.53
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (26 bp):
TTATTATTTTATTAACAAAATTTTTT
Found at i:18854480 original size:93 final size:94
Alignment explanation
Indices: 18854315--18854502 Score: 333
Period size: 93 Copynumber: 2.0 Consensus size: 94
18854305 ACATGCAACA
* **
18854315 TTGAAGGGGTATTTTCGGATTTTTATCGTAAATCCTTCATTTCGGATTTTTCTTCTTTGTACTAA
1 TTGAAGGGGTATTTTCGGATTTTTATCGTAAAGCCTTCAGCTCGGATTTTTCTTCTTTGTACTAA
18854380 TGCTCACTTCCTCTGCAAATACCCTGATC
66 TGCTCACTTCCTCTGCAAATACCCTGATC
*
18854409 TTGAAGGGGTATTTTCGGATTTTTATCGTAAAGCC-TGAGCTCGGATTTTTCTTCTTTGTACTAA
1 TTGAAGGGGTATTTTCGGATTTTTATCGTAAAGCCTTCAGCTCGGATTTTTCTTCTTTGTACTAA
18854473 TGCTCACTTCCTCTGCAAATACCCTGATC
66 TGCTCACTTCCTCTGCAAATACCCTGATC
18854502 T
1 T
18854503 CATCTTTATT
Statistics
Matches: 90, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
93 56 0.62
94 34 0.38
ACGTcount: A:0.20, C:0.21, G:0.16, T:0.42
Consensus pattern (94 bp):
TTGAAGGGGTATTTTCGGATTTTTATCGTAAAGCCTTCAGCTCGGATTTTTCTTCTTTGTACTAA
TGCTCACTTCCTCTGCAAATACCCTGATC
Found at i:18859785 original size:14 final size:13
Alignment explanation
Indices: 18859764--18859799 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
18859754 TCTTTTTTCG
18859764 TTTATTTTTTG-T
1 TTTATTTTTTGAT
18859776 TTTGATTTTTTGAT
1 TTT-ATTTTTTGAT
18859790 TTTATTTTTT
1 TTTATTTTTT
18859800 ATATATATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 3 0.14
13 15 0.68
14 4 0.18
ACGTcount: A:0.11, C:0.00, G:0.08, T:0.81
Consensus pattern (13 bp):
TTTATTTTTTGAT
Found at i:18859816 original size:18 final size:17
Alignment explanation
Indices: 18859790--18859831 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
18859780 ATTTTTTGAT
*
18859790 TTTATTTTTTATATATA
1 TTTATTTTTAATATATA
*
18859807 TTTATATTTTAATATTTA
1 TTTAT-TTTTAATATATA
18859825 -TTATTTT
1 TTTATTTT
18859832 GATTGCATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 3 0.14
17 9 0.41
18 10 0.45
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTATTTTTAATATATA
Found at i:18859823 original size:14 final size:15
Alignment explanation
Indices: 18859790--18859831 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
18859780 ATTTTTTGAT
*
18859790 TTTATTTTTTATATATA
1 TTTATTATTT-TA-ATA
18859807 TTTA-TATTTTAATA
1 TTTATTATTTTAATA
18859821 TTTATTATTTT
1 TTTATTATTTT
18859832 GATTGCATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 7 0.30
15 8 0.35
16 4 0.17
17 4 0.17
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTATTATTTTAATA
Found at i:18861266 original size:2 final size:2
Alignment explanation
Indices: 18861261--18861289 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
18861251 TATTATTCCT
18861261 TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18861290 CATACTAACC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:18863194 original size:81 final size:80
Alignment explanation
Indices: 18863109--18863260 Score: 207
Period size: 81 Copynumber: 1.9 Consensus size: 80
18863099 TGAAAATTTC
* *
18863109 GATGTAAAT-CTCTAAGTTTTTGAAATAAAAATCTTTAACTTTTGAATGTGAATCTCTAAAATAT
1 GATGTAAATGCT-TAAATTTTTCAAATAAAAATCTTTAACTTTTGAATGTGAATCTCTAAAAT-T
*
18863173 TTTGAATATAATTTTTG
64 TTCGAATATAATTTTTG
* * ** *
18863190 GATGTGAATGCTTAAATTTTTCAAATAAAAATCTTTAATTTTTGGGTGTGAATCTTTAAAATTTT
1 GATGTAAATGCTTAAATTTTTCAAATAAAAATCTTTAACTTTTGAATGTGAATCTCTAAAATTTT
18863255 CGAATA
66 CGAATA
18863261 AGAATCTTTG
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
80 8 0.13
81 52 0.84
82 2 0.03
ACGTcount: A:0.36, C:0.07, G:0.12, T:0.44
Consensus pattern (80 bp):
GATGTAAATGCTTAAATTTTTCAAATAAAAATCTTTAACTTTTGAATGTGAATCTCTAAAATTTT
CGAATATAATTTTTG
Found at i:18863230 original size:44 final size:44
Alignment explanation
Indices: 18863181--18863274 Score: 127
Period size: 44 Copynumber: 2.1 Consensus size: 44
18863171 ATTTTGAATA
*
18863181 TAATTTTTGGATGTGAATGC-TTAAATTTTTCAAATAAAAATCTT
1 TAATTTTTGGATGTGAAT-CTTTAAAATTTTCAAATAAAAATCTT
* * *
18863225 TAATTTTTGGGTGTGAATCTTTAAAATTTTCGAATAAGAATCTT
1 TAATTTTTGGATGTGAATCTTTAAAATTTTCAAATAAAAATCTT
18863269 TGAATT
1 T-AATT
18863275 CTAGAAGTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
43 1 0.02
44 39 0.89
45 4 0.09
ACGTcount: A:0.34, C:0.06, G:0.14, T:0.46
Consensus pattern (44 bp):
TAATTTTTGGATGTGAATCTTTAAAATTTTCAAATAAAAATCTT
Found at i:18863322 original size:22 final size:22
Alignment explanation
Indices: 18863297--18863339 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
18863287 TTTGAAATCT
* *
18863297 TTTATGTGAATCCTTAAATTTG
1 TTTATATGAAACCTTAAATTTG
*
18863319 TTTATATGAAACTTTAAATTT
1 TTTATATGAAACCTTAAATTT
18863340 TTTGAATGCG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.07, G:0.09, T:0.51
Consensus pattern (22 bp):
TTTATATGAAACCTTAAATTTG
Found at i:18863502 original size:17 final size:17
Alignment explanation
Indices: 18863468--18863510 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
18863458 ACAAACCTTG
*
18863468 AATTTTTGCAAACTTAA
1 AATTCTTGCAAACTTAA
18863485 AATTCTTGCAAA-TCTAA
1 AATTCTTGCAAACT-TAA
*
18863502 AGTTCTTGC
1 AATTCTTGC
18863511 CTAAAATTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 1 0.04
17 22 0.96
ACGTcount: A:0.35, C:0.16, G:0.09, T:0.40
Consensus pattern (17 bp):
AATTCTTGCAAACTTAA
Found at i:18863599 original size:17 final size:17
Alignment explanation
Indices: 18863514--18863599 Score: 50
Period size: 17 Copynumber: 4.9 Consensus size: 17
18863504 TTCTTGCCTA
* *
18863514 AAATTCTTGTGAATTTG
1 AAATTCTTGTAAACTTG
*
18863531 AAAGTCTTGTAAATCTTTG
1 AAATTCTTGTAAA-C-TTG
* ** *
18863550 -AATTTTTACAAACCTG
1 AAATTCTTGTAAACTTG
*
18863566 AAACTCTTACG-AAACTTG
1 AAATTCTT--GTAAACTTG
18863584 AAATTCTTGTAAACTT
1 AAATTCTTGTAAACTT
18863600 TTACGAATCT
Statistics
Matches: 50, Mismatches: 13, Indels: 12
0.67 0.17 0.16
Matches are distributed among these distances:
16 3 0.06
17 23 0.46
18 21 0.42
19 3 0.06
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.40
Consensus pattern (17 bp):
AAATTCTTGTAAACTTG
Found at i:18863721 original size:75 final size:74
Alignment explanation
Indices: 18863576--18863722 Score: 161
Period size: 75 Copynumber: 2.0 Consensus size: 74
18863566 AAACTCTTAC
* * ** * ***
18863576 GAAACTTGAAATTCTTGTAAACTTTTACGAATCTTAACTTTTTGTGAATTTTGAAATATTTGTGA
1 GAAAATTGAAATTCTTGCAAACTTTTAC-AATCTTAACTTTTTGCAAAATTTGAAATATTTACAA
*
18863641 TTTTTTTTAT
65 ATTTTTTTAT
* *
18863651 GAAAATTGAAATTCTTGCAAACCTTTGTA-AATCTTGACTTTTTGCAAAATTTGAAATCTTTACA
1 GAAAATTGAAATTCTTGCAAA-CTTT-TACAATCTTAACTTTTTGCAAAATTTGAAATATTTACA
18863715 AATTTTTT
64 AATTTTTT
18863723 GTGAAACTTA
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
75 53 0.90
76 4 0.07
77 2 0.03
ACGTcount: A:0.32, C:0.10, G:0.11, T:0.47
Consensus pattern (74 bp):
GAAAATTGAAATTCTTGCAAACTTTTACAATCTTAACTTTTTGCAAAATTTGAAATATTTACAAA
TTTTTTTAT
Found at i:18864218 original size:42 final size:43
Alignment explanation
Indices: 18864146--18864649 Score: 259
Period size: 42 Copynumber: 11.7 Consensus size: 43
18864136 CCCAATAACT
* * *
18864146 TATTGTAAAGTTGTTTAGCCTCT-ATTTAGAGGAGCCTATTTCC
1 TATTTTAAAGTTGTTTAGCCTTTGA-ATAGAGGAGCCTATTTCC
*
18864189 TA-GTTAAAGTTGTTTAGCCTTTGAATAGAGGAGCCTATTTCC
1 TATTTTAAAGTTGTTTAGCCTTTGAATAGAGGAGCCTATTTCC
* ** **
18864231 TATTTTAAAGTTATTTAGCCTTTGTTTAGATGG-GTTTATTTCC
1 TATTTTAAAGTTGTTTAGCCTTTGAATAGA-GGAGCCTATTTCC
* * ** * **
18864274 TA-TCTAAAGCTGTTTAG-CTTCTGAATAGAATAACCTATTTTT
1 TATTTTAAAGTTGTTTAGCCTT-TGAATAGAGGAGCCTATTTCC
* * * ** *
18864316 TATTTTAAAGTTGTTTAGTATCTGTTTAA-AAAGG-TTC-ATTTCT
1 TATTTTAAAGTTGTTTAG--CCT-TTGAATAGAGGAGCCTATTTCC
* * * * *
18864359 TATTTT-AAGTTGTATAACCTCTGAATAAAAGAGCCTATTTCC
1 TATTTTAAAGTTGTTTAGCCTTTGAATAGAGGAGCCTATTTCC
* * *
18864401 TATTTTAAAGTTGTTTAGCCTTT-ATTTAGAGAAG-CTCATATCC
1 TATTTTAAAGTTGTTTAGCCTTTGA-ATAGAGGAGCCT-ATTTCC
* * * *
18864444 TA-TTTAAAATTATTAAGCCTATGAATAGAGGAGCCTATTTCC
1 TATTTTAAAGTTGTTTAGCCTTTGAATAGAGGAGCCTATTTCC
* * * * * *
18864486 TATATTAAAGTTATTTAGCCTCT-ATTTAAAGGAG-CTCATTTCT
1 TATTTTAAAGTTGTTTAGCCTTTGA-ATAGAGGAGCCT-ATTTCC
* * * * *
18864529 TAATTTTAAAATTGTTTAGCCTCTT-ATTAGAAGAGCCCATTTCAT
1 T-ATTTTAAAGTTGTTTAGCCT-TTGAATAGAGGAGCCTATTTC-C
* * * **
18864574 TTTCTTTAAAAGTTGTTTAGCCTCTGTATAG-GAGAGACC-ATTTTT
1 TAT-TTT-AAAGTTGTTTAGCCTTTGAATAGAG-GAG-CCTATTTCC
* *
18864619 TATTTTAAAAGTTGTTTAGCCTCTGATTAGA
1 TATTTT-AAAGTTGTTTAGCCTTTGAATAGA
18864650 AGAACCCATT
Statistics
Matches: 351, Mismatches: 79, Indels: 60
0.72 0.16 0.12
Matches are distributed among these distances:
39 3 0.01
40 6 0.02
41 4 0.01
42 117 0.33
43 117 0.33
44 58 0.17
45 14 0.04
46 29 0.08
47 3 0.01
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.43
Consensus pattern (43 bp):
TATTTTAAAGTTGTTTAGCCTTTGAATAGAGGAGCCTATTTCC
Found at i:18864299 original size:85 final size:84
Alignment explanation
Indices: 18864146--18864661 Score: 406
Period size: 85 Copynumber: 6.0 Consensus size: 84
18864136 CCCAATAACT
* * *
18864146 TATTGTAAAGTTGTTTAGCCTCTATTTAGAGGAGC-CTATTTCCTAGTTAAAGTTGTTTAGCCTT
1 TATTTTAAAGTTGTTTAGCCTCTATTTAGAGG-GCTC-ATTTCCTATTTAAAGTTGTTTAGCCTC
*
18864210 TGAATAGAGGAGCCTATTTCC
64 TGAATAGAAGAGCCTATTTCC
* * * * * * * *
18864231 TATTTTAAAGTTATTTAGCCTTTGTTTAGATGGGTTTATTTCCTATCTAAAGCTGTTTAGCTTCT
1 TATTTTAAAGTTGTTTAGCCTCTATTTAGA-GGGCTCATTTCCTATTTAAAGTTGTTTAGCCTCT
* * **
18864296 GAATAGAATAACCTATTTTT
65 GAATAGAAGAGCCTATTTCC
** * * * * * * * *
18864316 TATTTTAAAGTTGTTTAGTATCTGTTTAAAAAGGTTCATTTCTTATTTTAAGTTGTATAACCTCT
1 TATTTTAAAGTTGTTTAGCCTCTATTT-AGAGGGCTCATTTCCTATTTAAAGTTGTTTAGCCTCT
*
18864381 GAATAAAAGAGCCTATTTCC
65 GAATAGAAGAGCCTATTTCC
* * * * * * *
18864401 TATTTTAAAGTTGTTTAGCCTTTATTTAGAGAAGCTCATATCCTATTTAAAATTATTAAGCCTAT
1 TATTTTAAAGTTGTTTAGCCTCTATTTAGAG-GGCTCATTTCCTATTTAAAGTTGTTTAGCCTCT
*
18864466 GAATAGAGGAGCCTATTTCC
65 GAATAGAAGAGCCTATTTCC
* * * * *
18864486 TATATTAAAGTTATTTAGCCTCTATTTAAAGGAGCTCATTTCTTAATTTTAAAATTGTTTAGCCT
1 TATTTTAAAGTTGTTTAGCCTCTATTTAGAGG-GCTCATTTCCT-A-TTTAAAGTTGTTTAGCCT
* * * *
18864551 CTTATTAGAAGAGCCCATTTCAT
63 CTGAATAGAAGAGCCTATTTC-C
* * * * **
18864574 TTTCTTTAAAAGTTGTTTAGCCTCTGTATAGGAGAGAC-CATTTTTTATTTTAAAAGTTGTTTAG
1 TAT-TTT-AAAGTTGTTTAGCCTCTATTTA-GAG-GGCTCATTTCCTA-TTT-AAAGTTGTTTAG
* * *
18864638 CCTCTGATTAGAAGAACCCATTTC
60 CCTCTGAATAGAAGAGCCTATTTC
18864662 ATTTTTTTAA
Statistics
Matches: 338, Mismatches: 80, Indels: 21
0.77 0.18 0.05
Matches are distributed among these distances:
84 2 0.01
85 227 0.67
86 5 0.01
87 32 0.09
88 2 0.01
89 7 0.02
90 59 0.17
91 3 0.01
92 1 0.00
ACGTcount: A:0.28, C:0.14, G:0.15, T:0.43
Consensus pattern (84 bp):
TATTTTAAAGTTGTTTAGCCTCTATTTAGAGGGCTCATTTCCTATTTAAAGTTGTTTAGCCTCTG
AATAGAAGAGCCTATTTCC
Found at i:18864549 original size:44 final size:42
Alignment explanation
Indices: 18864352--18864757 Score: 180
Period size: 44 Copynumber: 9.3 Consensus size: 42
18864342 TAAAAAGGTT
* * * * *
18864352 CATTTCTTATTTT-AAGTTGTATAACCTCTGA-ATAAAAGAGC
1 CATTTCTTATTTTAAAATTGTTTAGCCTCT-ATTTAAAGGAGC
* * * * *
18864393 CTATTTCCTATTTTAAAGTTGTTTAGCCTTTATTTAGAGAAGC
1 C-ATTTCTTATTTTAAAATTGTTTAGCCTCTATTTAAAGGAGC
* * * * * * *
18864436 TCATATCCTA-TTTAAAATTATTAAGCCTATGA-ATAGAGGAGC
1 -CATTTCTTATTTTAAAATTGTTTAGCCTCT-ATTTAAAGGAGC
* * * *
18864478 CTATTTCCTATATTAAAGTTATTTAGCCTCTATTTAAAGGAGC
1 C-ATTTCTTATTTTAAAATTGTTTAGCCTCTATTTAAAGGAGC
18864521 TCATTTCTTAATTTTAAAATTGTTTAGCCTCT-TATTAGAA-GAGCC
1 -CATTTCTT-ATTTTAAAATTGTTTAGCCTCTAT-TTA-AAGGAG-C
* * * *
18864566 CATTTCATTTTCTTTAAAAGTTGTTTAGCCTCTGTAT-AGGAGAGAC
1 CATTTC-TTAT-TTTAAAA-TTGTTTAGCCTCTATTTAAAG-GAG-C
* * *
18864612 CATTTTTTATTTTAAAAGTTGTTTAGCCTCTGA-TTAGAAGAACC
1 CATTTCTTATTTTAAAA-TTGTTTAGCCTCT-ATTTA-AAGGAGC
* * * * * * * *
18864656 CATTTCATTTTTTTAAAAGTTATTTAGTCTCTGTATAGAGAAAAC
1 CATTTC-TTATTTTAAAA-TTGTTTAGCCTCTATTTAAAG-GAGC
* * * *
18864701 CATTTCTTAATTTAAAAGTTGTTTAGCTTCTACTTGAAGGAGC
1 CATTTCTTATTTTAAAA-TTGTTTAGCCTCTATTTAAAGGAGC
18864744 CTATTTCTTGATTT
1 C-ATTTCTT-ATTT
18864758 AATTTTTTTA
Statistics
Matches: 280, Mismatches: 58, Indels: 50
0.72 0.15 0.13
Matches are distributed among these distances:
41 2 0.01
42 44 0.16
43 61 0.22
44 95 0.34
45 52 0.19
46 25 0.09
47 1 0.00
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.43
Consensus pattern (42 bp):
CATTTCTTATTTTAAAATTGTTTAGCCTCTATTTAAAGGAGC
Found at i:18864596 original size:46 final size:44
Alignment explanation
Indices: 18864492--18864752 Score: 216
Period size: 44 Copynumber: 5.9 Consensus size: 44
18864482 TTCCTATATT
* * *
18864492 AAAGTTATTTAGCCTC-TATTTA-AAGGAGCTCATTTCTTAATTTTA
1 AAAGTTGTTTAGCCTCTTA-TTAGAA-GAGCCCATTTCTT-TTTTTA
18864537 AAA-TTGTTTAGCCTCTTATTAGAAGAGCCCATTTCATTTTCTTTA
1 AAAGTTGTTTAGCCTCTTATTAGAAGAGCCCATTTC-TTTT-TTTA
* *
18864582 AAAGTTGTTTAGCCTCTGTA-TAGGAGAGACCATTT-TTTATTTTA
1 AAAGTTGTTTAGCCTCT-TATTAGAAGAGCCCATTTCTTT-TTTTA
* *
18864626 AAAGTTGTTTAGCCTCTGATTAGAAGAACCCATTTCATTTTTTTA
1 AAAGTTGTTTAGCCTCTTATTAGAAGAGCCCATTTC-TTTTTTTA
* * ** **
18864671 AAAGTTATTTAGTCTCTGTA-TAG-AGAAAACCATTTCTTAATTTA
1 AAAGTTGTTTAGCCTCT-TATTAGAAG-AGCCCATTTCTTTTTTTA
* *
18864715 AAAGTTGTTTAGCTTC-TACTT-GAAGGAGCCTATTTCTT
1 AAAGTTGTTTAGCCTCTTA-TTAGAA-GAGCCCATTTCTT
18864753 GATTTAATTT
Statistics
Matches: 179, Mismatches: 21, Indels: 33
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.01
43 2 0.01
44 93 0.52
45 50 0.28
46 30 0.17
47 2 0.01
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (44 bp):
AAAGTTGTTTAGCCTCTTATTAGAAGAGCCCATTTCTTTTTTTA
Found at i:18864750 original size:89 final size:89
Alignment explanation
Indices: 18864522--18864750 Score: 304
Period size: 89 Copynumber: 2.6 Consensus size: 89
18864512 TAAAGGAGCT
18864522 CATTTCTTAATTTTAAAA-TTGTTTAGCCTCTTATTAGAAGAGCCCATTTCATTTTCTTTAAAAG
1 CATTTCTTAA-TTTAAAAGTTGTTTAGCCTC-TATTAGAAGAGCCCATTTCATTTTCTTTAAAAG
* *
18864586 TTGTTTAGCCTCTGTATAGGAGAGAC
64 TTATTTAGCCTCTGTATAGGAGAAAC
* * *
18864612 CATTTTTTATTTTAAAAGTTGTTTAGCCTCTGATTAGAAGAACCCATTTCATTTT-TTTAAAAGT
1 CATTTCTTAATTTAAAAGTTGTTTAGCCTCT-ATTAGAAGAGCCCATTTCATTTTCTTTAAAAGT
*
18864676 TATTTAGTCTCTGTATA-GAGAAAAC
65 TATTTAGCCTCTGTATAGGAG-AAAC
* *
18864701 CATTTCTTAATTTAAAAGTTGTTTAGCTTCTACTT-GAAGGAGCCTATTTC
1 CATTTCTTAATTTAAAAGTTGTTTAGCCTCTA-TTAGAA-GAGCCCATTTC
18864751 TTGATTTAAT
Statistics
Matches: 123, Mismatches: 11, Indels: 11
0.85 0.08 0.08
Matches are distributed among these distances:
88 7 0.06
89 74 0.60
90 42 0.34
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (89 bp):
CATTTCTTAATTTAAAAGTTGTTTAGCCTCTATTAGAAGAGCCCATTTCATTTTCTTTAAAAGTT
ATTTAGCCTCTGTATAGGAGAAAC
Found at i:18866192 original size:14 final size:14
Alignment explanation
Indices: 18866169--18866200 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
18866159 TCTAATATTA
18866169 TTTTGAATGATAAT
1 TTTTGAATGATAAT
*
18866183 TTTTGCATGATAAT
1 TTTTGAATGATAAT
18866197 TTTT
1 TTTT
18866201 ATTTATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.28, C:0.03, G:0.12, T:0.56
Consensus pattern (14 bp):
TTTTGAATGATAAT
Found at i:18866427 original size:105 final size:107
Alignment explanation
Indices: 18866251--18866447 Score: 245
Period size: 105 Copynumber: 1.9 Consensus size: 107
18866241 AAAATATATC
* * * * ** * * **
18866251 TTTTAATCTTATCGAACTATTGGAGGATTTAAATATTGAATTAAGTCTTACTAAACTAGTGAGGG
1 TTTTAATCCTACCAAACTATTGAAGGATCAAAATATTGAATTAAATCTTACTAAACTAGTAAAAG
*
18866316 ACTTAATGAATTTT-TT-AAATAAAATAAAATAATACATTTT
66 ACTTAATAAATTTTCTTAAAATAAAATAAAATAATACATTTT
* * *
18866356 TTTTAATCCTACCAAACTATTGAAGGATCAAAATTTTGAATTAAATTTTACTAAACTATTAAAAG
1 TTTTAATCCTACCAAACTATTGAAGGATCAAAATATTGAATTAAATCTTACTAAACTAGTAAAAG
*
18866421 ATTTAATAAATTTTCTTAAAATAAAAT
66 ACTTAATAAATTTTCTTAAAATAAAAT
18866448 TTTATAAATG
Statistics
Matches: 75, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
105 64 0.85
106 2 0.03
107 9 0.12
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.40
Consensus pattern (107 bp):
TTTTAATCCTACCAAACTATTGAAGGATCAAAATATTGAATTAAATCTTACTAAACTAGTAAAAG
ACTTAATAAATTTTCTTAAAATAAAATAAAATAATACATTTT
Found at i:18866454 original size:25 final size:25
Alignment explanation
Indices: 18866421--18866472 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
18866411 CTATTAAAAG
*
18866421 ATTTAATAAAT-TTTCTTAAAATAAA
1 ATTTAATAAATGATT-TTAAAATAAA
*
18866446 ATTTTATAAATGATTTTAAAATAAA
1 ATTTAATAAATGATTTTAAAATAAA
18866471 AT
1 AT
18866473 CTCACTAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 22 0.92
26 2 0.08
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (25 bp):
ATTTAATAAATGATTTTAAAATAAA
Found at i:18867628 original size:12 final size:12
Alignment explanation
Indices: 18867611--18867645 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
18867601 CCATCATCGA
18867611 CTGTTCGGCCAC
1 CTGTTCGGCCAC
18867623 CTGTTCGGCCAC
1 CTGTTCGGCCAC
18867635 CTGTTCGGCCA
1 CTGTTCGGCCA
18867646 TTCCTTACCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.09, C:0.40, G:0.26, T:0.26
Consensus pattern (12 bp):
CTGTTCGGCCAC
Found at i:18870034 original size:19 final size:19
Alignment explanation
Indices: 18870007--18870044 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
18869997 AAAAAAACTG
18870007 CATGAAAACTGAGCAGAAA
1 CATGAAAACTGAGCAGAAA
* *
18870026 CATGGAAACTGGGCAGAAA
1 CATGAAAACTGAGCAGAAA
18870045 AGGGAAGGAA
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:0.47, C:0.16, G:0.26, T:0.11
Consensus pattern (19 bp):
CATGAAAACTGAGCAGAAA
Found at i:18871046 original size:18 final size:18
Alignment explanation
Indices: 18871010--18871047 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
18871000 TTTTAGATTT
*
18871010 ATTTTTTAATTAATTTTA
1 ATTTTTTAATTAATCTTA
18871028 ATTTTTTATATT-ATCTTA
1 ATTTTTTA-ATTAATCTTA
18871046 AT
1 AT
18871048 AAAAATATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (18 bp):
ATTTTTTAATTAATCTTA
Found at i:18871363 original size:2 final size:2
Alignment explanation
Indices: 18871356--18871383 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
18871346 ATTGATATGG
18871356 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
18871384 CATTTAATTA
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
Done.