Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167982.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_24, 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: 18142777
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 63000 characters in sequence are not A, C, G, or T
File 44 of 84
Found at i:10320268 original size:62 final size:62
Alignment explanation
Indices: 10320169--10320298 Score: 217
Period size: 62 Copynumber: 2.1 Consensus size: 62
10320159 TCTGATTTGT
*
10320169 TATTTTGTCAATAGTGTCTCCATGACACCAAGAACAGAGA-ACCAAAGCTAAGACTATGCTTG
1 TATTTTGACAATAGTGTCTCCATGACACCAAGAACAGAGACA-CAAAGCTAAGACTATGCTTG
* *
10320231 TATTTTGACAATAGTGTCTCCATGACACCAAGCACAGAGACACAAAGCTAAGATTATGCTTG
1 TATTTTGACAATAGTGTCTCCATGACACCAAGAACAGAGACACAAAGCTAAGACTATGCTTG
10320293 TATTTT
1 TATTTT
10320299 ATGTTAATCA
Statistics
Matches: 64, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
62 63 0.98
63 1 0.02
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (62 bp):
TATTTTGACAATAGTGTCTCCATGACACCAAGAACAGAGACACAAAGCTAAGACTATGCTTG
Found at i:10326288 original size:2 final size:2
Alignment explanation
Indices: 10326281--10326323 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
10326271 TAGACAACGA
* * *
10326281 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT GT AT AA AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10326323 A
1 A
10326324 GACGTTCGAC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.47
Consensus pattern (2 bp):
AT
Found at i:10326839 original size:16 final size:16
Alignment explanation
Indices: 10326801--10326831 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10326791 CTCACGTTCC
*
10326801 ATATATATAAATATAA
1 ATATAAATAAATATAA
10326817 ATATAAATAAATATA
1 ATATAAATAAATATA
10326832 TATGTAAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
ATATAAATAAATATAA
Found at i:10329277 original size:27 final size:27
Alignment explanation
Indices: 10329225--10329325 Score: 72
Period size: 27 Copynumber: 3.9 Consensus size: 27
10329215 TTTCTTAAAA
* *
10329225 AATA-AAAAATATGAAAAAAATATTTAAT
1 AATATAAAAATA-GAAATAAATATTT-AG
* *
10329253 AAT-TAAAAATAGAAATAAGTTTTTAG
1 AATATAAAAATAGAAATAAATATTTAG
* * *
10329279 AATATAAAAATACAAAT-GA-ATTGA-
1 AATATAAAAATAGAAATAAATATTTAG
10329303 AATATAAAAATA-AAA-AAATATTT
1 AATATAAAAATAGAAATAAATATTT
10329326 TTAATTATGA
Statistics
Matches: 58, Mismatches: 11, Indels: 12
0.72 0.14 0.15
Matches are distributed among these distances:
23 4 0.07
24 15 0.26
25 3 0.05
26 4 0.07
27 22 0.38
28 10 0.17
ACGTcount: A:0.63, C:0.01, G:0.06, T:0.30
Consensus pattern (27 bp):
AATATAAAAATAGAAATAAATATTTAG
Found at i:10330342 original size:1 final size:1
Alignment explanation
Indices: 10330336--10330364 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
10330326 TACCTGAGGG
10330336 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
10330365 CAATTTTAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:10330423 original size:65 final size:65
Alignment explanation
Indices: 10330353--10330487 Score: 198
Period size: 65 Copynumber: 2.1 Consensus size: 65
10330343 TTTTTTTTTT
* * * **
10330353 TTTTTTTTTTTTCAATTTTAGTTTTGCGGTTTAATTTGACATGAAAATGACTATGGTTGTGTTGG
1 TTTTTTATTTTT-AATTTTAGTTTTGCGATTTAATTTGACATGAAAATAACTATAATTGTGTTGG
10330418 A
65 A
* *
10330419 TTTTTTATTTTTATTTTTAGTTTTGCGATTTAATTTGACATTAAAATAACTATAATTGTGTTGGA
1 TTTTTTATTTTTAATTTTAGTTTTGCGATTTAATTTGACATGAAAATAACTATAATTGTGTTGGA
10330484 TTTT
1 TTTT
10330488 GCTATGTTGT
Statistics
Matches: 62, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
65 51 0.82
66 11 0.18
ACGTcount: A:0.24, C:0.05, G:0.16, T:0.56
Consensus pattern (65 bp):
TTTTTTATTTTTAATTTTAGTTTTGCGATTTAATTTGACATGAAAATAACTATAATTGTGTTGGA
Found at i:10334073 original size:10 final size:9
Alignment explanation
Indices: 10334034--10334077 Score: 52
Period size: 10 Copynumber: 4.6 Consensus size: 9
10334024 TAGTTATCTA
10334034 TATTTTATT
1 TATTTTATT
10334043 TATTTTAGTT
1 TATTTTA-TT
*
10334053 ATATCTTATT
1 -TATTTTATT
10334063 TATTGTTATT
1 TATT-TTATT
10334073 TATTT
1 TATTT
10334078 AAAATTACGT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
9 11 0.37
10 13 0.43
11 6 0.20
ACGTcount: A:0.23, C:0.02, G:0.05, T:0.70
Consensus pattern (9 bp):
TATTTTATT
Found at i:10338229 original size:14 final size:14
Alignment explanation
Indices: 10338210--10338240 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
10338200 TTTCCTTTTT
10338210 AAATATATTTTATA
1 AAATATATTTTATA
*
10338224 AAATATGTTTTATA
1 AAATATATTTTATA
10338238 AAA
1 AAA
10338241 AGGAAAAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (14 bp):
AAATATATTTTATA
Found at i:10339563 original size:21 final size:21
Alignment explanation
Indices: 10339523--10339562 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
10339513 ATGAAAATGA
10339523 CTATGGTTGTGTTGGATTTTG
1 CTATGGTTGTGTTGGATTTTG
10339544 CTAT-GTTGT-TTGTGATTTT
1 CTATGGTTGTGTTG-GATTTT
10339563 TTTACCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.17
20 11 0.61
21 4 0.22
ACGTcount: A:0.10, C:0.05, G:0.28, T:0.57
Consensus pattern (21 bp):
CTATGGTTGTGTTGGATTTTG
Found at i:10341157 original size:55 final size:54
Alignment explanation
Indices: 10341056--10341204 Score: 158
Period size: 55 Copynumber: 2.7 Consensus size: 54
10341046 ATAAATTGAT
* * * * *
10341056 AATCATGCAATTAATAATGTA-AATCATGCAATTAAACT-TGCAATTAAATAAAC
1 AATCATGCAAATAAAAATATATAAACATGCAAATAAA-TATGCAATTAAATAAAC
* *
10341109 AATCATGCAAATAAAAATATATAAACTATGCAAATAAATATGCAATTAAATATAT
1 AATCATGCAAATAAAAATATATAAAC-ATGCAAATAAATATGCAATTAAATAAAC
** * *
10341164 AATCATATAAATAAAACTATATAAACCACGCAAATAAATAT
1 AATCATGCAAATAAAAATATATAAA-CATGCAAATAAATAT
10341205 ATAATCATGC
Statistics
Matches: 81, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
53 18 0.22
54 4 0.05
55 58 0.72
56 1 0.01
ACGTcount: A:0.54, C:0.12, G:0.05, T:0.28
Consensus pattern (54 bp):
AATCATGCAAATAAAAATATATAAACATGCAAATAAATATGCAATTAAATAAAC
Found at i:10341201 original size:23 final size:22
Alignment explanation
Indices: 10341172--10341232 Score: 72
Period size: 20 Copynumber: 2.8 Consensus size: 22
10341162 ATAATCATAT
10341172 AAATAAAACTATATAAACCACGC
1 AAATAAAA-TATATAAACCACGC
* *
10341195 AAAT-AAATATAT-AATCATGC
1 AAATAAAATATATAAACCACGC
10341215 AAATAATAATATATAAAC
1 AAATAA-AATATATAAAC
10341233 TATGCAAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
20 10 0.31
21 6 0.19
22 10 0.31
23 6 0.19
ACGTcount: A:0.59, C:0.13, G:0.03, T:0.25
Consensus pattern (22 bp):
AAATAAAATATATAAACCACGC
Found at i:10341221 original size:55 final size:53
Alignment explanation
Indices: 10341117--10341310 Score: 153
Period size: 52 Copynumber: 3.7 Consensus size: 53
10341107 ACAATCATGC
* ** *** *
10341117 AAATAAAAATATATAAACTATGCAAATAAATATGCAATTAAATATATAATCATAT
1 AAATAAAACTATATAAACTATGCAAATAAATATATAATTATGCAAATAAT-A-AT
* * *
10341172 AAATAAAACTATATAAACCACGCAAATAAATATATAATCATGCAAATAATAAT
1 AAATAAAACTATATAAACTATGCAAATAAATATATAATTATGCAAATAATAAT
* ** * *
10341225 ATAT-AAACTATGCAAAATATGCAATTAAATATATAATTATGCAAATAA-ACAT
1 AAATAAAACTATATAAACTATGCAAATAAATATATAATTATGCAAATAATA-AT
* * * *
10341277 GCAATTAAA-TATATAATC-ATACAAATAAATATAT
1 -AAATAAAACTATATAAACTATGCAAATAAATATAT
10341311 TAATAATCAA
Statistics
Matches: 110, Mismatches: 26, Indels: 9
0.76 0.18 0.06
Matches are distributed among these distances:
51 1 0.01
52 53 0.48
53 12 0.11
54 4 0.04
55 40 0.36
ACGTcount: A:0.57, C:0.10, G:0.04, T:0.29
Consensus pattern (53 bp):
AAATAAAACTATATAAACTATGCAAATAAATATATAATTATGCAAATAATAAT
Found at i:10341237 original size:23 final size:21
Alignment explanation
Indices: 10341142--10341240 Score: 85
Period size: 22 Copynumber: 4.6 Consensus size: 21
10341132 AACTATGCAA
* *
10341142 ATAAATATGC-AATTAAATAT
1 ATAAACATGCAAATAAAATAT
* **
10341162 ATAATCATATAAATAAAACTAT
1 ATAAACATGCAAATAAAA-TAT
*
10341184 ATAAACCACGCAAAT-AAATAT
1 ATAAA-CATGCAAATAAAATAT
*
10341205 ATAATCATGCAAATAATAATAT
1 ATAAACATGCAAATAA-AATAT
10341227 ATAAACTATGCAAA
1 ATAAAC-ATGCAAA
10341241 ATATGCAATT
Statistics
Matches: 61, Mismatches: 12, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
20 14 0.23
21 14 0.23
22 20 0.33
23 13 0.21
ACGTcount: A:0.57, C:0.11, G:0.04, T:0.28
Consensus pattern (21 bp):
ATAAACATGCAAATAAAATAT
Found at i:10341240 original size:43 final size:43
Alignment explanation
Indices: 10341142--10341240 Score: 130
Period size: 43 Copynumber: 2.3 Consensus size: 43
10341132 AACTATGCAA
* *
10341142 ATAAA-TATGCAATTAAATATATAATCATATAAATAAAACTAT
1 ATAAACTATGCAAATAAATATATAATCATACAAATAAAACTAT
* * *
10341184 ATAAACCACGCAAATAAATATATAATCATGCAAATAATAA-TAT
1 ATAAACTATGCAAATAAATATATAATCATACAAATAA-AACTAT
10341227 ATAAACTATGCAAA
1 ATAAACTATGCAAA
10341241 ATATGCAATT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
42 5 0.10
43 41 0.85
44 2 0.04
ACGTcount: A:0.57, C:0.11, G:0.04, T:0.28
Consensus pattern (43 bp):
ATAAACTATGCAAATAAATATATAATCATACAAATAAAACTAT
Found at i:10341247 original size:32 final size:29
Alignment explanation
Indices: 10341211--10341292 Score: 74
Period size: 32 Copynumber: 2.6 Consensus size: 29
10341201 ATATATAATC
10341211 ATGCAAATAATAATATATAAACTATGCAAAAT
1 ATGC-AATAA-AATATAT-AACTATGCAAAAT
* * *
10341243 ATGCAATTAAATATATAATTATGCAAATAAAC
1 ATGCAATAAAATATATAACTATGC--A-AAAT
*
10341275 ATGCAATTAAATATATAA
1 ATGCAATAAAATATATAA
10341293 TCATACAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
29 7 0.16
30 7 0.16
31 5 0.11
32 25 0.57
ACGTcount: A:0.55, C:0.09, G:0.06, T:0.30
Consensus pattern (29 bp):
ATGCAATAAAATATATAACTATGCAAAAT
Found at i:10341282 original size:20 final size:20
Alignment explanation
Indices: 10341227--10341283 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 20
10341217 ATAATAATAT
*
10341227 ATAAACTATGCAAAATATGCAA
1 ATAAAC-ATGC-AATTATGCAA
* * **
10341249 TTAAATATATAATTATGCAA
1 ATAAACATGCAATTATGCAA
10341269 ATAAACATGCAATTA
1 ATAAACATGCAATTA
10341284 AATATATAAT
Statistics
Matches: 26, Mismatches: 9, Indels: 2
0.70 0.24 0.05
Matches are distributed among these distances:
20 20 0.77
21 2 0.08
22 4 0.15
ACGTcount: A:0.53, C:0.11, G:0.07, T:0.30
Consensus pattern (20 bp):
ATAAACATGCAATTATGCAA
Found at i:10341292 original size:20 final size:20
Alignment explanation
Indices: 10341269--10341334 Score: 60
Period size: 20 Copynumber: 3.1 Consensus size: 20
10341259 AATTATGCAA
10341269 ATAAACATGCAATTAAATAT
1 ATAAACATGCAATTAAATAT
* * *
10341289 ATAATCATACAAATAAATAT
1 ATAAACATGCAATTAAATAT
*
10341309 ATTAATAATCAAGCAATTAAATAT
1 A-T-A-AA-CATGCAATTAAATAT
10341333 AT
1 AT
10341335 TAATAATTAT
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
20 18 0.51
21 1 0.03
22 1 0.03
23 2 0.06
24 13 0.37
ACGTcount: A:0.56, C:0.09, G:0.03, T:0.32
Consensus pattern (20 bp):
ATAAACATGCAATTAAATAT
Found at i:10341293 original size:32 final size:32
Alignment explanation
Indices: 10341243--10341305 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
10341233 TATGCAAAAT
* *
10341243 ATGCAATTAAATATATAATTATGCAAATAAAC
1 ATGCAATTAAATATATAATCATACAAATAAAC
10341275 ATGCAATTAAATATATAATCATACAAATAAA
1 ATGCAATTAAATATATAATCATACAAATAAA
10341306 TATATTAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.56, C:0.10, G:0.05, T:0.30
Consensus pattern (32 bp):
ATGCAATTAAATATATAATCATACAAATAAAC
Found at i:10341316 original size:24 final size:24
Alignment explanation
Indices: 10341289--10341424 Score: 136
Period size: 24 Copynumber: 5.6 Consensus size: 24
10341279 AATTAAATAT
10341289 ATAATCATACAAATAAATATATTA
1 ATAATCATACAAATAAATATATTA
*
10341313 ATAATCA-AGCAATTAAATATATTA
1 ATAATCATA-CAAATAAATATATTA
* * *
10341337 ATAATTATGC-AATCAAAT-TA-AA
1 ATAATCATACAAAT-AAATATATTA
10341359 TATAATCATACAAATAAATATATTA
1 -ATAATCATACAAATAAATATATTA
*
10341384 ATAAATCACACAAATAAATATATTA
1 AT-AATCATACAAATAAATATATTA
* *
10341409 ATCATGCAAACAAATA
1 ATAAT-CATACAAATA
10341425 TATTAGGCAA
Statistics
Matches: 92, Mismatches: 11, Indels: 17
0.77 0.09 0.14
Matches are distributed among these distances:
22 1 0.01
23 17 0.18
24 41 0.45
25 33 0.36
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (24 bp):
ATAATCATACAAATAAATATATTA
Found at i:10341378 original size:47 final size:45
Alignment explanation
Indices: 10341291--10341429 Score: 129
Period size: 46 Copynumber: 2.9 Consensus size: 45
10341281 TTAAATATAT
* * *
10341291 AATCATACAAATAAATATATTAATAATCAAGCAATTAAATATATTAATA
1 AATCACACAAATAAATATA-TAATCAT--A-CAAATAAATATATTAATA
*
10341340 ATTATGCA-ATCAAATTAA-ATATAATCATACAAATAAATATATTAATA
1 A--AT-CACA-CAAATAAATATATAATCATACAAATAAATATATTAATA
* *
10341387 AATCACACAAATAAATATATTAATCATGCAAACAAATATATTA
1 AATCACACAAATAAATATA-TAATCATACAAATAAATATATTA
10341430 GGCAAACAAA
Statistics
Matches: 77, Mismatches: 6, Indels: 17
0.77 0.06 0.17
Matches are distributed among these distances:
44 9 0.12
45 6 0.08
46 21 0.27
47 18 0.23
48 1 0.01
49 1 0.01
50 6 0.08
51 6 0.08
52 9 0.12
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.32
Consensus pattern (45 bp):
AATCACACAAATAAATATATAATCATACAAATAAATATATTAATA
Found at i:10341411 original size:21 final size:21
Alignment explanation
Indices: 10341361--10341429 Score: 75
Period size: 21 Copynumber: 3.1 Consensus size: 21
10341351 AAATTAAATA
10341361 TAATCATACAAATAAATATATT
1 TAATCATACAAATAAATATA-T
*
10341383 AATAAATCACACAAATAAATATAT
1 --T-AATCATACAAATAAATATAT
* *
10341407 TAATCATGCAAACAAATATAT
1 TAATCATACAAATAAATATAT
10341428 TA
1 TA
10341430 GGCAAACAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
21 19 0.47
22 1 0.03
24 2 0.05
25 18 0.45
ACGTcount: A:0.57, C:0.12, G:0.01, T:0.30
Consensus pattern (21 bp):
TAATCATACAAATAAATATAT
Found at i:10341472 original size:32 final size:31
Alignment explanation
Indices: 10341409--10341486 Score: 79
Period size: 32 Copynumber: 2.5 Consensus size: 31
10341399 AAATATATTA
10341409 ATCATGCAAACAA-ATATATTAGGCAAACAAATT
1 ATCATGCAAA-AATA-ATATTAGGCAAACAAA-T
* * **
10341442 ATCATGCAAATATAATATTAGTCATCCAAAT
1 ATCATGCAAAAATAATATTAGGCAAACAAAT
10341473 -TCATGCAAAAATAA
1 ATCATGCAAAAATAA
10341487 ATATAAAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
30 13 0.33
31 1 0.03
32 14 0.36
33 11 0.28
ACGTcount: A:0.50, C:0.15, G:0.08, T:0.27
Consensus pattern (31 bp):
ATCATGCAAAAATAATATTAGGCAAACAAAT
Found at i:10342463 original size:49 final size:48
Alignment explanation
Indices: 10342401--10342550 Score: 172
Period size: 49 Copynumber: 3.2 Consensus size: 48
10342391 AAAATTTTGA
* * *
10342401 AAAATAAAATGCTCTCC-CATAATTGAGGCTTTGGAACCTTTGAAAAA-T
1 AAAATAAAATGCTC-CCTCATAACTAAGGCTTT-GAAACTTTGAAAAAGT
10342449 AAAATGAAAATGCTCCCTCATAACTAAGGCTTTGAAACTTTGAAAAAGT
1 AAAAT-AAAATGCTCCCTCATAACTAAGGCTTTGAAACTTTGAAAAAGT
*
10342498 AAAAT--ACT-C-CCCT-ATAACTAAGGCTTTGAAACTTTTGAAAAA-T
1 AAAATAAAATGCTCCCTCATAACTAAGGCTTTGAAAC-TTTGAAAAAGT
10342541 AAAATAAAAT
1 AAAATAAAAT
10342551 AAAATCATTC
Statistics
Matches: 91, Mismatches: 5, Indels: 15
0.82 0.05 0.14
Matches are distributed among these distances:
43 25 0.27
44 13 0.14
45 3 0.03
46 2 0.02
48 20 0.22
49 28 0.31
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (48 bp):
AAAATAAAATGCTCCCTCATAACTAAGGCTTTGAAACTTTGAAAAAGT
Found at i:10342491 original size:91 final size:91
Alignment explanation
Indices: 10342365--10342550 Score: 252
Period size: 92 Copynumber: 2.0 Consensus size: 91
10342355 TTTTTTTTTT
* * * * *
10342365 AAATGCTCCCTATAATTAAGACTTTGAAAATTTTGAAAAA-TAAAATGCTCTCCC-ATAATTGAG
1 AAATGCTCCCTATAACTAAGACTTTGAAAACTTTGAAAAAGTAAAATACTC-CCCTATAACTAAG
*
10342428 GCTTTGGAACCTTTGAAAAATAAAATGA
65 GCTTTGAAACCTTTGAAAAATAAAAT-A
*
10342456 AAATGCTCCCTCATAACTAAGGCTTTG-AAACTTTGAAAAAGTAAAATACTCCCCTATAACTAAG
1 AAATGCTCCCT-ATAACTAAGACTTTGAAAACTTTGAAAAAGTAAAATACTCCCCTATAACTAAG
*
10342520 GCTTTGAAACTTTTGAAAAATAAAATA
65 GCTTTGAAACCTTTGAAAAATAAAATA
10342547 AAAT
1 AAAT
10342551 AAAATCATTC
Statistics
Matches: 84, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
91 31 0.37
92 53 0.63
ACGTcount: A:0.43, C:0.16, G:0.12, T:0.30
Consensus pattern (91 bp):
AAATGCTCCCTATAACTAAGACTTTGAAAACTTTGAAAAAGTAAAATACTCCCCTATAACTAAGG
CTTTGAAACCTTTGAAAAATAAAATA
Found at i:10342546 original size:43 final size:44
Alignment explanation
Indices: 10342370--10342546 Score: 198
Period size: 43 Copynumber: 4.0 Consensus size: 44
10342360 TTTTTAAATG
* * * *
10342370 CTCCCTATAATTAAGACTTTGAAAATTTTGAAAAATAAAATGCT
1 CTCCCTATAACTAAGGCTTTGAAACTTTTGAAAAATAAAATACT
* * * * *
10342414 CTCCC-ATAATTGAGGCTTTGGAACCTTTGAAAAATAAAATGAAAAT
1 CTCCCTATAACTAAGGCTTTGAAACTTTTGAAAAATAAAAT---ACT
10342460 GCTCCCTCATAACTAAGGCTTTGAAAC-TTTGAAAAAGTAAAATACT
1 -CTCCCT-ATAACTAAGGCTTTGAAACTTTTGAAAAA-TAAAATACT
10342506 C-CCCTATAACTAAGGCTTTGAAACTTTTGAAAAATAAAATA
1 CTCCCTATAACTAAGGCTTTGAAACTTTTGAAAAATAAAATA
10342547 AAATAAAATC
Statistics
Matches: 114, Mismatches: 11, Indels: 17
0.80 0.08 0.12
Matches are distributed among these distances:
43 56 0.49
44 18 0.16
45 1 0.01
46 3 0.03
47 5 0.04
48 9 0.08
49 22 0.19
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.30
Consensus pattern (44 bp):
CTCCCTATAACTAAGGCTTTGAAACTTTTGAAAAATAAAATACT
Found at i:10349915 original size:20 final size:19
Alignment explanation
Indices: 10349890--10350003 Score: 85
Period size: 20 Copynumber: 6.0 Consensus size: 19
10349880 TGCAAGAATG
10349890 TCATGCAAATATATCAATTA
1 TCATGCAAATATATCAA-TA
*
10349910 TCATGC-AATAATAACAATA
1 TCATGCAAAT-ATATCAATA
*
10349929 --ATGTAAATATAT-AATA
1 TCATGCAAATATATCAATA
*
10349945 TCATGCAAATATATTAATTA
1 TCATGCAAATATATCAA-TA
* *
10349965 TTATGC-AATAATATAAAATA
1 TCATGCAAAT-ATAT-CAATA
* *
10349985 CCATGCAAATATATTAATA
1 TCATGCAAATATATCAATA
10350004 ACCATTCATG
Statistics
Matches: 76, Mismatches: 9, Indels: 19
0.73 0.09 0.18
Matches are distributed among these distances:
16 4 0.05
17 6 0.08
18 14 0.18
19 14 0.18
20 33 0.43
21 5 0.07
ACGTcount: A:0.50, C:0.11, G:0.05, T:0.34
Consensus pattern (19 bp):
TCATGCAAATATATCAATA
Found at i:10350146 original size:24 final size:24
Alignment explanation
Indices: 10350116--10350191 Score: 91
Period size: 24 Copynumber: 3.1 Consensus size: 24
10350106 ATGCAATTAA
* *
10350116 ATATCATTCAAATTAATATAATATT
1 ATATCATGC-AATAAATATAATATT
*
10350141 A-ATCATGCAATAACATATAATATC
1 ATATCATGCAATAA-ATATAATATT
*
10350165 ATATCATGCAATAAATATAAAATT
1 ATATCATGCAATAAATATAATATT
10350189 ATA
1 ATA
10350192 CAATAATAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
23 4 0.09
24 27 0.61
25 13 0.30
ACGTcount: A:0.51, C:0.11, G:0.03, T:0.36
Consensus pattern (24 bp):
ATATCATGCAATAAATATAATATT
Found at i:10350308 original size:21 final size:20
Alignment explanation
Indices: 10350260--10350317 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
10350250 AAATAAATTG
10350260 ATAATCATGCAATTAAATAT
1 ATAATCATGCAATTAAATAT
10350280 ATAATCATGCAATTAACA-AT
1 ATAATCATGCAATTAA-ATAT
* *
10350300 GTAAATCATGCAAATAAA
1 AT-AATCATGCAATTAAA
10350318 CATGTAATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 20 0.59
21 14 0.41
ACGTcount: A:0.52, C:0.12, G:0.07, T:0.29
Consensus pattern (20 bp):
ATAATCATGCAATTAAATAT
Found at i:10350322 original size:21 final size:21
Alignment explanation
Indices: 10350262--10350324 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
10350252 ATAAATTGAT
* * *
10350262 AATCATGCAATTAAATATAT-
1 AATCATGCAAATAAACATGTA
*
10350282 AATCATGC-AATTAACAATGTA
1 AATCATGCAAATAAAC-ATGTA
10350303 AATCATGCAAATAAACATGTA
1 AATCATGCAAATAAACATGTA
10350324 A
1 A
10350325 TTAAATATAT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
19 4 0.11
20 11 0.31
21 14 0.40
22 6 0.17
ACGTcount: A:0.51, C:0.13, G:0.08, T:0.29
Consensus pattern (21 bp):
AATCATGCAAATAAACATGTA
Found at i:10350327 original size:33 final size:32
Alignment explanation
Indices: 10350280--10350349 Score: 79
Period size: 33 Copynumber: 2.2 Consensus size: 32
10350270 AATTAAATAT
* * *
10350280 ATAATCATGCAATTAACA-ATGTAAATCATGCAA
1 ATAAACATGCAATTAA-ATATAT-AATCATACAA
*
10350313 ATAAACATGTAATTAAATATATAATCATACAA
1 ATAAACATGCAATTAAATATATAATCATACAA
10350345 ATAAA
1 ATAAA
10350350 TGTATTAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
32 15 0.47
33 17 0.53
ACGTcount: A:0.54, C:0.11, G:0.06, T:0.29
Consensus pattern (32 bp):
ATAAACATGCAATTAAATATATAATCATACAA
Found at i:10350430 original size:21 final size:21
Alignment explanation
Indices: 10350400--10350448 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
10350390 CAATCAAATT
10350400 ATATGTAATCACACAAATAAAA
1 ATAT-TAATCACACAAATAAAA
** *
10350422 ATATTAATCATGCAAATAAAT
1 ATATTAATCACACAAATAAAA
10350443 ATATTA
1 ATATTA
10350449 GGTAAATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.55, C:0.10, G:0.04, T:0.31
Consensus pattern (21 bp):
ATATTAATCACACAAATAAAA
Found at i:10350471 original size:16 final size:17
Alignment explanation
Indices: 10350431--10350478 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
10350421 AATATTAATC
10350431 ATGCAAATAAATATATT
1 ATGCAAATAAATATATT
* *
10350448 AGGTAAATAAAT-TATT
1 ATGCAAATAAATATATT
10350464 ATGCAAATATAATAT
1 ATGCAAATA-AATAT
10350479 TAGTCATCCA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
16 11 0.44
17 13 0.52
18 1 0.04
ACGTcount: A:0.52, C:0.04, G:0.08, T:0.35
Consensus pattern (17 bp):
ATGCAAATAAATATATT
Found at i:10358951 original size:14 final size:14
Alignment explanation
Indices: 10358916--10358975 Score: 56
Period size: 14 Copynumber: 4.4 Consensus size: 14
10358906 ATTCCATTTG
*
10358916 TTATTAATAATATA
1 TTATTATTAATATA
10358930 TT-TATATTAATATA
1 TTAT-TATTAATATA
*
10358944 TTATTATTTATA-A
1 TTATTATTAATATA
10358957 TATATTATT--TATA
1 T-TATTATTAATATA
10358970 TTATTA
1 TTATTA
10358976 ATATAATGTT
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
12 7 0.17
13 5 0.12
14 27 0.68
15 1 0.03
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
TTATTATTAATATA
Found at i:10358953 original size:20 final size:20
Alignment explanation
Indices: 10358917--10358980 Score: 61
Period size: 17 Copynumber: 3.5 Consensus size: 20
10358907 TTCCATTTGT
10358917 TATTAATA-A-TA-TATTTA
1 TATTAATATATTATTATTTA
10358934 TATTAATATATTATTA-TT-
1 TATTAATATATTATTATTTA
*
10358952 TA-TAATATATTATT-TATA
1 TATTAATATATTATTATTTA
10358970 TTATTAATATA
1 -TATTAATATA
10358981 ATGTTTATAC
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
17 21 0.54
18 3 0.08
19 6 0.15
20 9 0.23
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TATTAATATATTATTATTTA
Found at i:10358987 original size:20 final size:19
Alignment explanation
Indices: 10358934--10358989 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 19
10358924 AATATATTTA
10358934 TATTAATAT-ATTATTAT-T
1 TATTAATATAATT-TTATAT
*
10358952 TA-TAATATATTATTTATAT
1 TATTAATATAAT-TTTATAT
10358971 TATTAATATAATGTTTATA
1 TATTAATATAAT-TTTATA
10358990 CCACAAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
17 6 0.19
18 7 0.23
19 4 0.13
20 14 0.45
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (19 bp):
TATTAATATAATTTTATAT
Found at i:10358988 original size:34 final size:34
Alignment explanation
Indices: 10358920--10358989 Score: 81
Period size: 34 Copynumber: 2.1 Consensus size: 34
10358910 CATTTGTTAT
*
10358920 TAATAATATATTTATATTAATATATTATTATTTA
1 TAATAATATATTTATATTAATATATTAATATTTA
* *
10358954 TAAT-ATATTATTTATATTATTA-ATATAATGTTTA
1 TAATAATA-TATTTATATTAATATAT-TAATATTTA
10358988 TA
1 TA
10358990 CCACAAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
33 5 0.16
34 26 0.84
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (34 bp):
TAATAATATATTTATATTAATATATTAATATTTA
Found at i:10359144 original size:10 final size:10
Alignment explanation
Indices: 10359121--10359153 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
10359111 CATTTTTATG
10359121 TTTTCAACAAT
1 TTTTCAA-AAT
10359132 TTTT-AAAAT
1 TTTTCAAAAT
10359141 TTTTCAAAAT
1 TTTTCAAAAT
10359151 TTT
1 TTT
10359154 ATTTTCAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 7 0.33
10 10 0.48
11 4 0.19
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (10 bp):
TTTTCAAAAT
Found at i:10364712 original size:6 final size:6
Alignment explanation
Indices: 10364697--10364729 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
10364687 ACAGAACAAA
*
10364697 AAAACC AAAACT AAAACC AAAACC AAAA-C AAAA
1 AAAACC AAAACC AAAACC AAAACC AAAACC AAAA
10364730 TAATACCTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.73, C:0.24, G:0.00, T:0.03
Consensus pattern (6 bp):
AAAACC
Found at i:10364869 original size:12 final size:12
Alignment explanation
Indices: 10364841--10364890 Score: 55
Period size: 12 Copynumber: 4.2 Consensus size: 12
10364831 CATTAAAACA
*
10364841 AGAACCTGAAAC
1 AGAACCTGAACC
10364853 AGAACCTGAACC
1 AGAACCTGAACC
* *
10364865 CGAACCAGAACC
1 AGAACCTGAACC
* *
10364877 GGAACATGAACC
1 AGAACCTGAACC
10364889 AG
1 AG
10364891 CATTATCAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.44, C:0.30, G:0.20, T:0.06
Consensus pattern (12 bp):
AGAACCTGAACC
Found at i:10364887 original size:18 final size:18
Alignment explanation
Indices: 10364842--10364890 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
10364832 ATTAAAACAA
* *
10364842 GAACCTGAAACAGAACCT
1 GAACCTGAACCAGAACCG
*
10364860 GAACCCGAACCAGAACCG
1 GAACCTGAACCAGAACCG
*
10364878 GAACATGAACCAG
1 GAACCTGAACCAG
10364891 CATTATCAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.43, C:0.31, G:0.20, T:0.06
Consensus pattern (18 bp):
GAACCTGAACCAGAACCG
Found at i:10373855 original size:17 final size:17
Alignment explanation
Indices: 10373829--10373861 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10373819 TGAACACTGA
*
10373829 AGAGTGGAATACAAGGC
1 AGAGTAGAATACAAGGC
10373846 AGAGTAGAATACAAGG
1 AGAGTAGAATACAAGG
10373862 TGTGAAGAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.09, G:0.33, T:0.12
Consensus pattern (17 bp):
AGAGTAGAATACAAGGC
Found at i:10374721 original size:16 final size:15
Alignment explanation
Indices: 10374696--10374741 Score: 58
Period size: 16 Copynumber: 3.0 Consensus size: 15
10374686 ACGATATAGG
10374696 TATA-TTATATGATAA
1 TATATTTATAT-ATAA
10374711 TATATTTATATATCAA
1 TATATTTATATAT-AA
*
10374727 TAAATTTATATATAA
1 TATATTTATATATAA
10374742 CATAATTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 8 0.29
16 20 0.71
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (15 bp):
TATATTTATATATAA
Found at i:10375325 original size:17 final size:18
Alignment explanation
Indices: 10375293--10375331 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
10375283 TAATTTAAGC
10375293 AAAATTAAATTAAATT-A
1 AAAATTAAATTAAATTGA
10375310 AAAATTAAAATT-AATTGA
1 AAAATT-AAATTAAATTGA
10375328 AAAA
1 AAAA
10375332 GACATAATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (18 bp):
AAAATTAAATTAAATTGA
Found at i:10376312 original size:78 final size:78
Alignment explanation
Indices: 10376183--10376334 Score: 270
Period size: 78 Copynumber: 1.9 Consensus size: 78
10376173 TAAAAGGGTC
*
10376183 AATTAATGATGATTGGCTTATACTTCGGCAAGACAATAGACAGACAGAAAAGATTTATTAAGAGT
1 AATTAATGATGATTGACTTATACTTCGGCAAGACAATAGACAGACAGAAAAGATTTATTAAGAGT
10376248 CTAATTTGGTTTG
66 CTAATTTGGTTTG
*
10376261 AATTAATGATGATTGACTTATAGTTCGGCAAGACAAT-GAACAGACAGAAAAGATTTATTAAGAG
1 AATTAATGATGATTGACTTATACTTCGGCAAGACAATAG-ACAGACAGAAAAGATTTATTAAGAG
10376325 TCTAATTTGG
65 TCTAATTTGG
10376335 CGATCCAAAG
Statistics
Matches: 71, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
77 1 0.01
78 70 0.99
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.31
Consensus pattern (78 bp):
AATTAATGATGATTGACTTATACTTCGGCAAGACAATAGACAGACAGAAAAGATTTATTAAGAGT
CTAATTTGGTTTG
Found at i:10376954 original size:52 final size:52
Alignment explanation
Indices: 10376891--10376997 Score: 198
Period size: 52 Copynumber: 2.1 Consensus size: 52
10376881 TGGTTTTCTG
10376891 TCTTCTTTTGGTGACTTTTGAATA-TCCAAGAGGATTCAACAACCACAAGTTT
1 TCTTCTTTTGGTGACTTTTGAATATTCC-AGAGGATTCAACAACCACAAGTTT
10376943 TCTTCTTTTGGTGACTTTTGAATATTCCAGAGGATTCAACAACCACAAGTTT
1 TCTTCTTTTGGTGACTTTTGAATATTCCAGAGGATTCAACAACCACAAGTTT
10376995 TCT
1 TCT
10376998 CTAACAAAAC
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
52 51 0.94
53 3 0.06
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (52 bp):
TCTTCTTTTGGTGACTTTTGAATATTCCAGAGGATTCAACAACCACAAGTTT
Found at i:10383747 original size:13 final size:13
Alignment explanation
Indices: 10383714--10383755 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
10383704 GCATTTTATA
10383714 TTTCTTTCC-TTT
1 TTTCTTTCCTTTT
*
10383726 CTTCTTTTCCTTTT
1 TTTC-TTTCCTTTT
*
10383740 TTTCTTTCATTTT
1 TTTCTTTCCTTTT
10383753 TTT
1 TTT
10383756 AATTATATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
12 3 0.12
13 16 0.64
14 6 0.24
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTCTTTCCTTTT
Found at i:10385587 original size:18 final size:18
Alignment explanation
Indices: 10385564--10385599 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
10385554 TTTAATTAGG
10385564 GATAGTAATCAAGATAAT
1 GATAGTAATCAAGATAAT
*
10385582 GATAGTAATCAGGATAAT
1 GATAGTAATCAAGATAAT
10385600 TATTTTTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (18 bp):
GATAGTAATCAAGATAAT
Found at i:10386441 original size:2 final size:2
Alignment explanation
Indices: 10386434--10386463 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
10386424 TCACCCTATG
10386434 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10386464 GTATTCATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10390489 original size:2 final size:2
Alignment explanation
Indices: 10390477--10390509 Score: 57
Period size: 2 Copynumber: 16.0 Consensus size: 2
10390467 CCTTGCCACT
10390477 TA TA CTA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10390510 ATCTTGTATA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 28 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:10397482 original size:2 final size:2
Alignment explanation
Indices: 10397475--10397504 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
10397465 ATTATTTATC
10397475 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10397505 GGAGGACTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10399005 original size:2 final size:2
Alignment explanation
Indices: 10398998--10399024 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
10398988 GCTAATTTTA
10398998 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
10399025 AAAACTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10402399 original size:6 final size:6
Alignment explanation
Indices: 10402371--10402456 Score: 50
Period size: 6 Copynumber: 13.2 Consensus size: 6
10402361 TAATGGATTG
* *
10402371 AATTTA AATTAATA TAATATTA AATTTA AGTTT- AATTTAAA AATTAAA
1 AATTTA AATT--TA -AAT-TTA AATTTA AATTTA AATTT--A AATT-TA
*
10402419 AATTT- AATTTA AATTTA ATTTTTTA AATTTA AATTTA A
1 AATTTA AATTTA AATTTA A--ATTTA AATTTA AATTTA A
10402457 TTTGATATAA
Statistics
Matches: 63, Mismatches: 6, Indels: 22
0.69 0.07 0.24
Matches are distributed among these distances:
5 9 0.14
6 29 0.46
7 8 0.13
8 13 0.21
9 3 0.05
10 1 0.02
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (6 bp):
AATTTA
Found at i:10402596 original size:24 final size:23
Alignment explanation
Indices: 10402569--10402629 Score: 68
Period size: 26 Copynumber: 2.5 Consensus size: 23
10402559 TTTGAATTCG
*
10402569 AATTAAAATTTAAAATATTTTATT
1 AATTAAAATTTAAAATATATT-TT
*
10402593 AATTAAAATAATAAAAATATATTTT
1 AATTAAAAT--TTAAAATATATTTT
10402618 AATATAAAATTT
1 AAT-TAAAATTT
10402630 TGATTAAACT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
24 10 0.32
25 5 0.16
26 16 0.52
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
AATTAAAATTTAAAATATATTTT
Found at i:10402724 original size:16 final size:16
Alignment explanation
Indices: 10402690--10402766 Score: 72
Period size: 16 Copynumber: 4.9 Consensus size: 16
10402680 ATTTGATCGA
*
10402690 TAAA-TTAAA-TTATT
1 TAAATTTAAATTTAAT
10402704 TAAATTTAAATTTAAT
1 TAAATTTAAATTTAAT
*
10402720 TAAA--TAATAATTAATT
1 TAAATTTAA-ATTTAA-T
*
10402736 TAAATTTAAATTTTAT
1 TAAATTTAAATTTAAT
*
10402752 TTAATTTAAATTTAA
1 TAAATTTAAATTTAA
10402767 ATAATTTATG
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
14 7 0.14
15 10 0.20
16 27 0.53
17 4 0.08
18 3 0.06
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TAAATTTAAATTTAAT
Found at i:10402744 original size:22 final size:22
Alignment explanation
Indices: 10402712--10402771 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
10402702 TTTAAATTTA
10402712 AATTT-AA-TTAAATAATAATT
1 AATTTAAATTTAAATAATAATT
** *
10402732 AATTTAAATTTAAATTTTATTT
1 AATTTAAATTTAAATAATAATT
10402754 AATTTAAATTTAAATAAT
1 AATTTAAATTTAAATAAT
10402772 TTATGAATAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
20 5 0.15
21 2 0.06
22 26 0.79
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
AATTTAAATTTAAATAATAATT
Found at i:10402750 original size:7 final size:6
Alignment explanation
Indices: 10402701--10402768 Score: 60
Period size: 6 Copynumber: 12.3 Consensus size: 6
10402691 AAATTAAATT
*
10402701 ATTTAA ATTTAA ATTT-A A-TTAA A--TAA TAATT-A ATTTAA ATTTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA -ATTTAA ATTTAA ATTTAA
*
10402745 ATTT-T ATTT-A ATTTAA ATTTAA AT
1 ATTTAA ATTTAA ATTTAA ATTTAA AT
10402769 AATTTATGAA
Statistics
Matches: 53, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
4 5 0.09
5 16 0.30
6 31 0.58
7 1 0.02
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (6 bp):
ATTTAA
Found at i:10402829 original size:13 final size:13
Alignment explanation
Indices: 10402811--10402836 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10402801 TTAATTTTAA
10402811 CACGATATGTTAG
1 CACGATATGTTAG
10402824 CACGATATGTTAG
1 CACGATATGTTAG
10402837 GTTTTTTTTT
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:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (13 bp):
CACGATATGTTAG
Found at i:10403140 original size:3 final size:3
Alignment explanation
Indices: 10403126--10403165 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
10403116 CAAGGGGGCA
* *
10403126 GTG GTT GTG GTG GTG GTG GTG GTG GTG GTG GTA GTG GTG G
1 GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG G
10403166 GGTCTCTATC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.03, C:0.00, G:0.62, T:0.35
Consensus pattern (3 bp):
GTG
Found at i:10406900 original size:13 final size:13
Alignment explanation
Indices: 10406854--10406905 Score: 54
Period size: 13 Copynumber: 3.9 Consensus size: 13
10406844 TTTTATAATT
10406854 TAAAATATAACTAAA
1 TAAAATATAA--AAA
10406869 TAACAATAT--AAA
1 TAA-AATATAAAAA
*
10406881 TATAATATAAAAA
1 TAAAATATAAAAA
10406894 TAAAATATAAAA
1 TAAAATATAAAA
10406906 TAATATAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
11 5 0.16
12 5 0.16
13 14 0.44
15 3 0.09
16 5 0.16
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (13 bp):
TAAAATATAAAAA
Found at i:10406901 original size:18 final size:18
Alignment explanation
Indices: 10406854--10406908 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 18
10406844 TTTTATAATT
*
10406854 TAAAATATAACTAAATAACAA
1 TAAAATATAA-T--ATAAAAA
10406875 TATAAATATAATATAAAAA
1 TA-AAATATAATATAAAAA
*
10406894 TAAAATATAAAATAA
1 TAAAATATAATATAA
10406909 TATAATTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 12 0.39
19 8 0.26
21 3 0.10
22 8 0.26
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (18 bp):
TAAAATATAATATAAAAA
Found at i:10418628 original size:20 final size:20
Alignment explanation
Indices: 10418603--10418645 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
10418593 ACGAAACTAG
10418603 ATTTTAGGTTTAGAAGTACA
1 ATTTTAGGTTTAGAAGTACA
*
10418623 ATTTTAGGTTTAGGAGTACA
1 ATTTTAGGTTTAGAAGTACA
10418643 ATT
1 ATT
10418646 ACGCATAAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.05, G:0.21, T:0.42
Consensus pattern (20 bp):
ATTTTAGGTTTAGAAGTACA
Found at i:10419369 original size:13 final size:12
Alignment explanation
Indices: 10419343--10419381 Score: 60
Period size: 13 Copynumber: 3.1 Consensus size: 12
10419333 AAAAAAATCT
10419343 AAAATAAAATAA
1 AAAATAAAATAA
10419355 AAAATAAAATGAA
1 AAAATAAAAT-AA
10419368 AAAATAAAAGTAA
1 AAAATAAAA-TAA
10419381 A
1 A
10419382 TACTTGCGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 10 0.40
13 14 0.56
14 1 0.04
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.15
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:10423862 original size:108 final size:108
Alignment explanation
Indices: 10423673--10423888 Score: 405
Period size: 108 Copynumber: 2.0 Consensus size: 108
10423663 ACCTTACTGT
*
10423673 AATAAGATAATAACGTCATTTAAGAGATATCAGAATTACTCCAATTCCATACCCTAAAGCATTAA
1 AATAAGACAATAACGTCATTTAAGAGATATCAGAATTACTCCAATTCCATACCCTAAAGCATTAA
10423738 CTGCCTCATCGAAGTACATTTTTCAAGACTTTTCATTATCATC
66 CTGCCTCATCGAAGTACATTTTTCAAGACTTTTCATTATCATC
10423781 AATAAGACAATAACGTCATTTAAGAGATATCAGAATTACTCCAATTCCATACCCTAAAGCATTAA
1 AATAAGACAATAACGTCATTTAAGAGATATCAGAATTACTCCAATTCCATACCCTAAAGCATTAA
* *
10423846 CTGCCTTATTGAAGTACATTTTTCAAGACTTTTCATTATCATC
66 CTGCCTCATCGAAGTACATTTTTCAAGACTTTTCATTATCATC
10423889 TTCTTCCTTC
Statistics
Matches: 105, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
108 105 1.00
ACGTcount: A:0.37, C:0.21, G:0.09, T:0.33
Consensus pattern (108 bp):
AATAAGACAATAACGTCATTTAAGAGATATCAGAATTACTCCAATTCCATACCCTAAAGCATTAA
CTGCCTCATCGAAGTACATTTTTCAAGACTTTTCATTATCATC
Found at i:10433038 original size:18 final size:16
Alignment explanation
Indices: 10433001--10433052 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 16
10432991 AAATATAAGT
10433001 AAAAAAAATCTAAAATAA
1 AAAAAAAATC--AAATAA
10433019 AACAAAAAATCAAATGAA
1 AA-AAAAAATCAAAT-AA
*
10433037 AAAGAAAAAGCAAATA
1 AAA-AAAAATCAAATA
10433053 CCTATGATCG
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
17 6 0.20
18 16 0.53
19 8 0.27
ACGTcount: A:0.75, C:0.08, G:0.06, T:0.12
Consensus pattern (16 bp):
AAAAAAAATCAAATAA
Found at i:10433362 original size:27 final size:27
Alignment explanation
Indices: 10433327--10433378 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
10433317 TAGGTTTTCC
10433327 AAAAAAACCCAAAAACCCAAAAAAAAA
1 AAAAAAACCCAAAAACCCAAAAAAAAA
* * *
10433354 AAAAAAACCCAGAAATCCAAGAAAA
1 AAAAAAACCCAAAAACCCAAAAAAA
10433379 TCCTATTCTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.73, C:0.21, G:0.04, T:0.02
Consensus pattern (27 bp):
AAAAAAACCCAAAAACCCAAAAAAAAA
Found at i:10436174 original size:31 final size:30
Alignment explanation
Indices: 10436136--10436209 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 30
10436126 AGTAAAACCC
* *
10436136 TTTTGTTTTAATTACATTTATTAAGCAAAAG
1 TTTTGTTTTAATT-CATTAATTAAACAAAAG
** *
10436167 TTTTG-TTTACATTTGTTAATTAAACAAAAT
1 TTTTGTTTTA-ATTCATTAATTAAACAAAAG
10436197 TTTTGTTTTAATT
1 TTTTGTTTTAATT
10436210 GATCATCTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
30 24 0.67
31 12 0.33
ACGTcount: A:0.32, C:0.05, G:0.08, T:0.54
Consensus pattern (30 bp):
TTTTGTTTTAATTCATTAATTAAACAAAAG
Found at i:10440240 original size:22 final size:21
Alignment explanation
Indices: 10440212--10440253 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
10440202 ATTTATTTAA
*
10440212 CAAAAAATAAAATTAAAAAAAC
1 CAAAAAA-AAAATAAAAAAAAC
*
10440234 CAAAAAAAAAGTAAAAAAAA
1 CAAAAAAAAAATAAAAAAAA
10440254 ATAATAATAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.81, C:0.07, G:0.02, T:0.10
Consensus pattern (21 bp):
CAAAAAAAAAATAAAAAAAAC
Found at i:10440243 original size:20 final size:21
Alignment explanation
Indices: 10440214--10440252 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
10440204 TTATTTAACA
*
10440214 AAAAATAAAATTAAAAAAACC
1 AAAAATAAAAGTAAAAAAACC
10440235 AAAAA-AAAAGTAAAAAAA
1 AAAAATAAAAGTAAAAAAA
10440253 AATAATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.82, C:0.05, G:0.03, T:0.10
Consensus pattern (21 bp):
AAAAATAAAAGTAAAAAAACC
Found at i:10440287 original size:18 final size:20
Alignment explanation
Indices: 10440248--10440291 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
10440238 AAAAAAGTAA
10440248 AAAAAAATAATAATAGATTT
1 AAAAAAATAATAATAGATTT
10440268 AATAAAAATAA-AATA-A-TT
1 AA-AAAAATAATAATAGATTT
10440286 AAAAAA
1 AAAAAA
10440292 CAACAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 4 0.17
18 4 0.17
19 1 0.04
20 6 0.26
21 8 0.35
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (20 bp):
AAAAAAATAATAATAGATTT
Found at i:10440307 original size:19 final size:19
Alignment explanation
Indices: 10440210--10440317 Score: 80
Period size: 19 Copynumber: 5.5 Consensus size: 19
10440200 AAATTTATTT
*
10440210 AACAAAAAATAAAATTAAAAA
1 AACAAAAAA-ATAATT-AAAA
*
10440231 AACCAAAAAAA-AAGTAAAA
1 AA-CAAAAAAATAATTAAAA
*
10440250 AA-AAATAATAATAGATTTAATA
1 AACAAA-AA-AATA-A-TTAAAA
*
10440272 AA-AATAAAATAATTAAAA
1 AACAAAAAAATAATTAAAA
10440290 AACAACAAAAATAA-TAAAA
1 AACAA-AAAAATAATTAAAA
10440309 AACAAAAAA
1 AACAAAAAA
10440318 TTAGAAAAAA
Statistics
Matches: 73, Mismatches: 6, Indels: 19
0.74 0.06 0.19
Matches are distributed among these distances:
17 3 0.04
18 13 0.18
19 21 0.29
20 15 0.21
21 6 0.08
22 15 0.21
ACGTcount: A:0.77, C:0.06, G:0.02, T:0.16
Consensus pattern (19 bp):
AACAAAAAAATAATTAAAA
Found at i:10440314 original size:16 final size:17
Alignment explanation
Indices: 10440266--10440316 Score: 54
Period size: 16 Copynumber: 3.0 Consensus size: 17
10440256 AATAATAGAT
10440266 TTAATAAAAATA-AAATAA
1 TTAATAAAAA-ACAAA-AA
10440284 TTAA-AAAACAACAAAAA
1 TTAATAAAA-AACAAAAA
10440301 -TAATAAAAAACAAAAA
1 TTAATAAAAAACAAAAA
10440317 ATTAGAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
16 11 0.37
17 11 0.37
18 8 0.27
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (17 bp):
TTAATAAAAAACAAAAA
Found at i:10440325 original size:17 final size:17
Alignment explanation
Indices: 10440266--10440328 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 17
10440256 AATAATAGAT
* *
10440266 TTAATAAAAATAAAATAA
1 TTAAAAAAAACAAAA-AA
10440284 TTAAAAAACAAC-AAAAA
1 TTAAAAAA-AACAAAAAA
10440301 -TAATAAAAAACAAAAAA
1 TTAA-AAAAAACAAAAAA
10440318 TTAGAAAAAAA
1 TTA-AAAAAAA
10440329 GTAAAATTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
16 6 0.16
17 11 0.29
18 18 0.47
19 3 0.08
ACGTcount: A:0.76, C:0.05, G:0.02, T:0.17
Consensus pattern (17 bp):
TTAAAAAAAACAAAAAA
Found at i:10440327 original size:19 final size:19
Alignment explanation
Indices: 10440286--10440328 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
10440276 TAAAATAATT
*
10440286 AAAAAACAACAAAAATAAT
1 AAAAAACAACAAAAATAAA
*
10440305 AAAAAACAA-AAAATTAGAA
1 AAAAAACAACAAAAATA-AA
10440324 AAAAA
1 AAAAA
10440329 GTAAAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.81, C:0.07, G:0.02, T:0.09
Consensus pattern (19 bp):
AAAAAACAACAAAAATAAA
Found at i:10440975 original size:31 final size:31
Alignment explanation
Indices: 10440939--10440998 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
10440929 TAATTATATA
*
10440939 TAAATATATTATTTTATTAA-ATAAAATATCT
1 TAAATA-ATAATTTTATTAATATAAAATATCT
*
10440970 TAAATAATAATTTTATTAATATAATATAT
1 TAAATAATAATTTTATTAATATAAAATAT
10440999 AAAAATTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 12 0.46
31 14 0.54
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (31 bp):
TAAATAATAATTTTATTAATATAAAATATCT
Found at i:10440993 original size:17 final size:16
Alignment explanation
Indices: 10440929--10440995 Score: 57
Period size: 17 Copynumber: 4.1 Consensus size: 16
10440919 ATTTACATCT
*
10440929 TAATTATATATAAATATA
1 TAATTTTAT-TAAATA-A
*
10440947 TTATTTTATTAAATAA
1 TAATTTTATTAAATAA
* *
10440963 -AA-TATCTTAAATAA
1 TAATTTTATTAAATAA
10440977 TAATTTTATTAATATAA
1 TAATTTTATTAA-ATAA
10440994 TA
1 TA
10440996 TATAAAAATT
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
14 10 0.26
15 3 0.08
16 7 0.18
17 12 0.31
18 7 0.18
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (16 bp):
TAATTTTATTAAATAA
Found at i:10441725 original size:17 final size:16
Alignment explanation
Indices: 10441697--10441765 Score: 61
Period size: 17 Copynumber: 4.2 Consensus size: 16
10441687 TGAAATAAAG
*
10441697 TATTAAATAATAAATT
1 TATTAAATAATAAATA
*
10441713 TATTAATATAATACATA
1 TATTAA-ATAATAAATA
*
10441730 TA-TAAAT-ATAAAATT
1 TATTAAATAAT-AAATA
*
10441745 TAATAAATAATCAAATA
1 TATTAAATAAT-AAATA
10441762 TATT
1 TATT
10441766 TTTTAATATA
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
14 2 0.05
15 7 0.17
16 14 0.33
17 19 0.45
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (16 bp):
TATTAAATAATAAATA
Found at i:10441744 original size:32 final size:32
Alignment explanation
Indices: 10441700--10441764 Score: 80
Period size: 32 Copynumber: 2.0 Consensus size: 32
10441690 AATAAAGTAT
* *
10441700 TAAATAATAAATTTATTAATATAAT-ACATATA
1 TAAATAATAAATTTAATAA-ATAATCAAATATA
10441732 TAAAT-ATAAAATTTAATAAATAATCAAATATA
1 TAAATAAT-AAATTTAATAAATAATCAAATATA
10441764 T
1 T
10441765 TTTTTAATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
31 7 0.24
32 22 0.76
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.38
Consensus pattern (32 bp):
TAAATAATAAATTTAATAAATAATCAAATATA
Found at i:10442004 original size:12 final size:11
Alignment explanation
Indices: 10441975--10442003 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
10441965 AGTTAAAAAT
10441975 TAAAAAAGAAA
1 TAAAAAAGAAA
10441986 TAAAAAAGAAA
1 TAAAAAAGAAA
10441997 TAAAAAA
1 TAAAAAA
10442004 AATGAGAAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.83, C:0.00, G:0.07, T:0.10
Consensus pattern (11 bp):
TAAAAAAGAAA
Found at i:10443656 original size:19 final size:19
Alignment explanation
Indices: 10443632--10443668 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
10443622 ATTATATCTA
10443632 TAATTATTTAAGAAACCTT
1 TAATTATTTAAGAAACCTT
*
10443651 TAATTATTTAATAAACCT
1 TAATTATTTAAGAAACCT
10443669 ATAAATTACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.43, C:0.11, G:0.03, T:0.43
Consensus pattern (19 bp):
TAATTATTTAAGAAACCTT
Found at i:10443811 original size:21 final size:21
Alignment explanation
Indices: 10443785--10443831 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
10443775 AATATCCATC
*
10443785 CATCCATAAAAGCATCAATAA
1 CATCCATAAAAACATCAATAA
*
10443806 CATCCATAAAAACATCTATAA
1 CATCCATAAAAACATCAATAA
*
10443827 AATCC
1 CATCC
10443832 TTTAAATAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.51, C:0.26, G:0.02, T:0.21
Consensus pattern (21 bp):
CATCCATAAAAACATCAATAA
Found at i:10448176 original size:102 final size:103
Alignment explanation
Indices: 10448018--10448349 Score: 340
Period size: 102 Copynumber: 3.3 Consensus size: 103
10448008 CAATGACTAG
* * **
10448018 TCATCGCGATATATTATTAAA-ATAGTTCATCAATAATCATAATACACAACCATCATCACAATGC
1 TCATCGCAATATATTA-TAAAGATAGTTGATCAATAATCATAATACACAACTGTCATCACAATGC
* * *
10448082 AAAATATGTAAT-ATTTTCACATTTCATAAATGTGAAAC
65 AAAATATGCAATAATTTTCACATTTCACAAATGTGAATC
*
10448120 TCATCACAATATATTATAAAGATAGTTGATCAATAATCATAATACACAACTGTCATCACAATGC-
1 TCATCGCAATATATTATAAAGATAGTTGATCAATAATCATAATACACAACTGTCATCACAATGCA
* *
10448184 AAA-ATGCACAGTAATTTTCACA--ACACCAAAGGT-AATC
66 AAATATGCA-A-TAATTTTCACATTTCA-CAAATGTGAATC
* * * ** * *
10448221 TCATCGTAATATACTATAAAGAT-GATTGATCAATAATCACAATATGCAATTGTCATCACAATGA
1 TCATCGCAATATATTATAAAGATAG-TTGATCAATAATCATAATACACAACTGTCATCACAATGC
** * * *
10448285 AAAATACACAATAATTTTCATATTTTACAAATATG-ATC
65 AAAATATGCAATAATTTTCACATTTCACAAATGTGAATC
* *
10448323 TCATTGCAATATATTGTAAAGATAGTT
1 TCATCGCAATATATTATAAAGATAGTT
10448350 AAGTAACAAT
Statistics
Matches: 189, Mismatches: 29, Indels: 24
0.78 0.12 0.10
Matches are distributed among these distances:
100 5 0.03
101 77 0.41
102 93 0.49
103 14 0.07
ACGTcount: A:0.43, C:0.17, G:0.08, T:0.32
Consensus pattern (103 bp):
TCATCGCAATATATTATAAAGATAGTTGATCAATAATCATAATACACAACTGTCATCACAATGCA
AAATATGCAATAATTTTCACATTTCACAAATGTGAATC
Found at i:10459326 original size:2 final size:2
Alignment explanation
Indices: 10459319--10459346 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
10459309 AATTAAGAAG
10459319 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
10459347 CAATGCTTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10470644 original size:21 final size:22
Alignment explanation
Indices: 10470498--10470793 Score: 69
Period size: 22 Copynumber: 13.8 Consensus size: 22
10470488 CATTTTATAT
* *
10470498 TAAATTATGC-ATGATTTACTAT
1 TAAATTAT-CAATTATTTACTAC
* * *
10470520 TAAGTTATCAATAATTAACTA-
1 TAAATTATCAATTATTTACTAC
* * *
10470541 TAATGTTATCGATGATTTACTAC
1 TAA-ATTATCAATTATTTACTAC
* * * **
10470564 TAAGTTAT-ACTAATTTACTTT
1 TAAATTATCAATTATTTACTAC
* * * * *
10470585 TAAGTTTTCAATGAATAACTAC
1 TAAATTATCAATTATTTACTAC
10470607 TAAATTATCAATTATTTACTA-
1 TAAATTATCAATTATTTACTAC
* *
10470628 TAATTTAT-AATTGATTTAGTAC
1 TAAATTATCAATT-ATTTACTAC
* *
10470650 TAAGTTAT---TTAGTTACTAC
1 TAAATTATCAATTATTTACTAC
* * * *
10470669 T--ACTATTAATTAATTACTAT
1 TAAATTATCAATTATTTACTAC
* *
10470689 TAAATTGA--AACTGATTTACTAT
1 TAAATT-ATCAA-TTATTTACTAC
* * *
10470711 TAAATGATCAATAATTTACTAT
1 TAAATTATCAATTATTTACTAC
* * * *
10470733 TAAGTTCT-AATTGATTTATTAT
1 TAAATTATCAATT-ATTTACTAC
* * * *
10470755 TAAGTTATCAATAATTAACTAT
1 TAAATTATCAATTATTTACTAC
* * *
10470777 TAAGTTATTACTTATTT
1 TAAATTATCAATTATTT
10470794 TTTGTTATAT
Statistics
Matches: 207, Mismatches: 50, Indels: 34
0.71 0.17 0.12
Matches are distributed among these distances:
17 3 0.01
19 8 0.04
20 16 0.08
21 39 0.19
22 132 0.64
23 9 0.04
ACGTcount: A:0.38, C:0.09, G:0.07, T:0.46
Consensus pattern (22 bp):
TAAATTATCAATTATTTACTAC
Found at i:10470645 original size:65 final size:65
Alignment explanation
Indices: 10470509--10470657 Score: 160
Period size: 65 Copynumber: 2.3 Consensus size: 65
10470499 AAATTATGCA
* *
10470509 TGATTTACTATTAAGTTATCAATAATTAACTATAATGTTATCGATGATTTACTACTAAGTTATAC
1 TGATTTACTATTAAGTTATCAATAATTAACTATAATATTATCAATGATTTACTACTAAGTTATAC
* * * * *
10470574 TAATTTACTTTTAAGTTTTCAATGAA-TAACTACTAA-ATTATCAATTATTTACTA-TAATTTAT
1 TGATTTACTATTAAGTTATCAAT-AATTAACTA-TAATATTATCAATGATTTACTACTAAGTTAT
*
10470636 AAT
64 -AC
* *
10470639 TGATTTAGTACTAAGTTAT
1 TGATTTACTATTAAGTTAT
10470658 TTAGTTACTA
Statistics
Matches: 68, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
64 7 0.10
65 56 0.82
66 5 0.07
ACGTcount: A:0.38, C:0.09, G:0.07, T:0.46
Consensus pattern (65 bp):
TGATTTACTATTAAGTTATCAATAATTAACTATAATATTATCAATGATTTACTACTAAGTTATAC
Found at i:10470727 original size:22 final size:22
Alignment explanation
Indices: 10470702--10470779 Score: 70
Period size: 22 Copynumber: 3.5 Consensus size: 22
10470692 ATTGAAACTG
10470702 ATTTACTATTAAATGATCAATA
1 ATTTACTATTAAATGATCAATA
* *
10470724 ATTTACTATT-AA-GTTCTAATTG
1 ATTTACTATTAAATGATC-AA-TA
* * *
10470746 ATTTATTATTAAGTTATCAATA
1 ATTTACTATTAAATGATCAATA
*
10470768 ATTAACTATTAA
1 ATTTACTATTAA
10470780 GTTATTACTT
Statistics
Matches: 43, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
20 3 0.07
21 4 0.09
22 31 0.72
23 3 0.07
24 2 0.05
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.46
Consensus pattern (22 bp):
ATTTACTATTAAATGATCAATA
Found at i:10470731 original size:44 final size:44
Alignment explanation
Indices: 10470682--10470779 Score: 124
Period size: 44 Copynumber: 2.2 Consensus size: 44
10470672 TATTAATTAA
*
10470682 TTACTATTAAATTGAAACTGATTTACTATTAAATGATCAATAAT
1 TTACTATTAAATTCAAACTGATTTACTATTAAATGATCAATAAT
* * * * * *
10470726 TTACTATTAAGTTCTAATTGATTTATTATTAAGTTATCAATAAT
1 TTACTATTAAATTCAAACTGATTTACTATTAAATGATCAATAAT
*
10470770 TAACTATTAA
1 TTACTATTAA
10470780 GTTATTACTT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.45
Consensus pattern (44 bp):
TTACTATTAAATTCAAACTGATTTACTATTAAATGATCAATAAT
Found at i:10470784 original size:22 final size:22
Alignment explanation
Indices: 10470511--10470628 Score: 98
Period size: 22 Copynumber: 5.4 Consensus size: 22
10470501 ATTATGCATG
10470511 ATTTACTATTAAGTTATCAATA
1 ATTTACTATTAAGTTATCAATA
* * *
10470533 ATTAACTA-TAATGTTATCGATG
1 ATTTACTATTAA-GTTATCAATA
* *
10470555 ATTTACTACTAAGTTAT-ACTA
1 ATTTACTATTAAGTTATCAATA
* *
10470576 ATTTACTTTTAAGTTTTCAATGA
1 ATTTACTATTAAGTTATCAAT-A
* * * *
10470599 A-TAACTACTAAATTATCAATT
1 ATTTACTATTAAGTTATCAATA
10470620 ATTTACTAT
1 ATTTACTAT
10470629 AATTTATAAT
Statistics
Matches: 72, Mismatches: 19, Indels: 10
0.71 0.19 0.10
Matches are distributed among these distances:
21 19 0.26
22 48 0.67
23 5 0.07
ACGTcount: A:0.38, C:0.11, G:0.06, T:0.45
Consensus pattern (22 bp):
ATTTACTATTAAGTTATCAATA
Found at i:10473304 original size:17 final size:17
Alignment explanation
Indices: 10473253--10473304 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 17
10473243 AAAAGCTTTT
*
10473253 TTTTTTTTATTTAAAAA
1 TTTTTTTTATATAAAAA
** * * *
10473270 ACTTTATTATACATAAA
1 TTTTTTTTATATAAAAA
10473287 TTTTTTTTATATAAAAA
1 TTTTTTTTATATAAAAA
10473304 T
1 T
10473305 ATTAAAATAC
Statistics
Matches: 24, Mismatches: 11, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTTTTTTATATAAAAA
Found at i:10474570 original size:12 final size:13
Alignment explanation
Indices: 10474555--10474583 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
10474545 TTAAATTAAA
10474555 ATTTA-TAAAAAT
1 ATTTACTAAAAAT
10474567 ATTTACTAAAAAT
1 ATTTACTAAAAAT
10474580 ATTT
1 ATTT
10474584 TAGTCAATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.31
13 11 0.69
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (13 bp):
ATTTACTAAAAAT
Found at i:10474796 original size:3 final size:3
Alignment explanation
Indices: 10474788--10474823 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
10474778 ATATTTTTAT
10474788 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
10474824 TATACTAGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:10475039 original size:21 final size:21
Alignment explanation
Indices: 10475006--10475046 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
10474996 TTTCATAACT
*
10475006 TTTGATAAAATTTTGGTAATA
1 TTTGATAAAATTTTGATAATA
**
10475027 TTTGATACGATTTTGATAAT
1 TTTGATAAAATTTTGATAAT
10475047 CTTCTATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.02, G:0.15, T:0.49
Consensus pattern (21 bp):
TTTGATAAAATTTTGATAATA
Found at i:10475510 original size:44 final size:45
Alignment explanation
Indices: 10475397--10475522 Score: 123
Period size: 44 Copynumber: 2.8 Consensus size: 45
10475387 TGTCATTAGC
* * *
10475397 AATTTACTATTAAGCTATTAATGATGTATTGCTAAATTATCAACT
1 AATTTACTATTAAGTTATGAATGATTTATTGCTAAATTATCAACT
* * * * * *
10475442 -ATTTACTATTAAATTA-GCATTGATTTATTGGT-AATTTTTAATT
1 AATTTACTATTAAGTTATG-AATGATTTATTGCTAAATTATCAACT
* *
10475485 AATTTACTATTAAGTTATGAATGATTTACTACTAAATT
1 AATTTACTATTAAGTTATGAATGATTTATTGCTAAATT
10475523 GTTGATGATT
Statistics
Matches: 63, Mismatches: 14, Indels: 8
0.74 0.16 0.09
Matches are distributed among these distances:
43 8 0.13
44 50 0.79
45 5 0.08
ACGTcount: A:0.37, C:0.08, G:0.09, T:0.47
Consensus pattern (45 bp):
AATTTACTATTAAGTTATGAATGATTTATTGCTAAATTATCAACT
Found at i:10475618 original size:22 final size:22
Alignment explanation
Indices: 10475479--10475625 Score: 84
Period size: 22 Copynumber: 6.6 Consensus size: 22
10475469 TTGGTAATTT
*
10475479 TTAATTAATTTACTATTAAGTTA
1 TTAA-TAATTTACTATAAAGTTA
* * *
10475502 TGAATGATTTACTACTAAA-TTG
1 TTAATAATTTACTA-TAAAGTTA
* *
10475524 TTGATGATTTACTACTAAA-TTA
1 TTAATAATTTACTA-TAAAGTTA
* * **
10475546 CTAATGATTTGTTATAAAGTTA
1 TTAATAATTTACTATAAAGTTA
* * * *
10475568 -TAACTAAGTTATTATTAATTTA
1 TTAA-TAATTTACTATAAAGTTA
**
10475590 TCGATAATTTACTATAAAGTTA
1 TTAATAATTTACTATAAAGTTA
*
10475612 TTAATAATTAACTA
1 TTAATAATTTACTA
10475626 ATTTACTATT
Statistics
Matches: 95, Mismatches: 25, Indels: 9
0.74 0.19 0.07
Matches are distributed among these distances:
21 7 0.07
22 81 0.85
23 7 0.07
ACGTcount: A:0.39, C:0.07, G:0.08, T:0.46
Consensus pattern (22 bp):
TTAATAATTTACTATAAAGTTA
Found at i:10475650 original size:30 final size:30
Alignment explanation
Indices: 10475594--10475650 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
10475584 AATTTATCGA
*
10475594 TAATTTACTATAAAGTTATTAATAATTAAC
1 TAATTTACTATAAAGTTATCAATAATTAAC
*
10475624 TAATTTACTATTAAA-TTATCACTAATT
1 TAATTTACTA-TAAAGTTATCAATAATT
10475651 TACAACTAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 20 0.83
31 4 0.17
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.46
Consensus pattern (30 bp):
TAATTTACTATAAAGTTATCAATAATTAAC
Found at i:10475718 original size:44 final size:45
Alignment explanation
Indices: 10475624--10475784 Score: 150
Period size: 44 Copynumber: 3.6 Consensus size: 45
10475614 AATAATTAAC
* * * *
10475624 TAATTTACTATTAAATTATCACTAATTTACA-ACTAAGTTATGAG
1 TAATTTACTATTAAATTATTAATAATTTACATACTAAGTTATCAA
* *
10475668 TGATTTACTATTAAATTATTAATAATTTACATA-TAAATTATCAA
1 TAATTTACTATTAAATTATTAATAATTTACATACTAAGTTATCAA
* ** * * *
10475712 TAATTTATTATTATGTTATT-ATACATTTAC-TATTATGTTATCAT
1 TAATTTACTATTAAATTATTAATA-ATTTACATACTAAGTTATCAA
* * *
10475756 TAATTTACTATTTAATTTTTAATTATTTA
1 TAATTTACTATTAAATTATTAATAATTTA
10475785 TTAAAAAATC
Statistics
Matches: 94, Mismatches: 19, Indels: 8
0.78 0.16 0.07
Matches are distributed among these distances:
43 5 0.05
44 86 0.91
45 3 0.03
ACGTcount: A:0.39, C:0.07, G:0.04, T:0.50
Consensus pattern (45 bp):
TAATTTACTATTAAATTATTAATAATTTACATACTAAGTTATCAA
Found at i:10475730 original size:22 final size:22
Alignment explanation
Indices: 10475624--10475767 Score: 103
Period size: 22 Copynumber: 6.5 Consensus size: 22
10475614 AATAATTAAC
** *
10475624 TAATTTACTATTAAATTATCAC
1 TAATTTACTATTATGTTATCAA
* * * * *
10475646 TAATTTACAACTAAGTTATGAG
1 TAATTTACTATTATGTTATCAA
* ** *
10475668 TGATTTACTATTAAATTATTAA
1 TAATTTACTATTATGTTATCAA
**
10475690 TAATTTAC-ATATAAATTATCAA
1 TAATTTACTAT-TATGTTATCAA
* *
10475712 TAATTTATTATTATGTTAT-TA
1 TAATTTACTATTATGTTATCAA
*
10475733 TACATTTACTATTATGTTATCAT
1 TA-ATTTACTATTATGTTATCAA
10475756 TAATTTACTATT
1 TAATTTACTATT
10475768 TAATTTTTAA
Statistics
Matches: 98, Mismatches: 20, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
21 5 0.05
22 89 0.91
23 4 0.04
ACGTcount: A:0.39, C:0.08, G:0.04, T:0.49
Consensus pattern (22 bp):
TAATTTACTATTATGTTATCAA
Found at i:10475752 original size:140 final size:140
Alignment explanation
Indices: 10475479--10475769 Score: 315
Period size: 140 Copynumber: 2.1 Consensus size: 140
10475469 TTGGTAATTT
* * * * * *
10475479 TTAATTAATTTACTATTAAGTTATGAATGATTTACTACTAAATTGTTGATGATTTACTACTAAAT
1 TTAACTAATTTACTATTAAATTATCAATAATTTACAACTAAATTGATGATGATTTACTACTAAAT
* **
10475544 TACTAATGATTTGTTATAAAGTTATAACTAAGTTATTATTAATTTATCGATAATTTACTATAAAG
66 TACTAATAATTTCATATAAAGTTATAACTAAGTTATTATTAATTTATCGATAATTTACTATAAAG
*
10475609 TTATTAATAA
131 TTATCAATAA
* * *
10475619 TTAACTAATTTACTATTAAATTATCACTAATTTACAACTAAGTT-ATGAGTGATTTACTATTAAA
1 TTAACTAATTTACTATTAAATTATCAATAATTTACAACTAAATTGATGA-TGATTTACTACTAAA
* * *
10475683 TTATTAATAATTTACATATAAA-TTATCAA-TAATTTATTATT-ATGTTAT-TATACATTTACTA
65 TTACTAATAATTT-CATATAAAGTTAT-AACTAAGTTATTATTAAT-TTATCGATA-ATTTACTA
* * *
10475744 TTATGTTATCATTAA
126 TAAAGTTATCAATAA
*
10475759 TTTACT-ATTTA
1 TTAACTAATTTA
10475770 ATTTTTAATT
Statistics
Matches: 126, Mismatches: 20, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
139 13 0.10
140 105 0.83
141 8 0.06
ACGTcount: A:0.39, C:0.08, G:0.06, T:0.47
Consensus pattern (140 bp):
TTAACTAATTTACTATTAAATTATCAATAATTTACAACTAAATTGATGATGATTTACTACTAAAT
TACTAATAATTTCATATAAAGTTATAACTAAGTTATTATTAATTTATCGATAATTTACTATAAAG
TTATCAATAA
Found at i:10475979 original size:22 final size:22
Alignment explanation
Indices: 10475954--10476077 Score: 101
Period size: 22 Copynumber: 5.6 Consensus size: 22
10475944 CCAATGATTA
*
10475954 ACTATTAAATTATTATTAATTT
1 ACTATTAAGTTATTATTAATTT
*
10475976 ACTACTAAGTTATT-TATAATTT
1 ACTATTAAGTTATTAT-TAATTT
10475998 A-TCATTAAGTTTATTAATTAA-TT
1 ACT-ATTAAG-TTATT-ATTAATTT
* ** ** *
10476021 ACTATTAAATTAAAACCAATTC
1 ACTATTAAGTTATTATTAATTT
*
10476043 ACTATTAAGTTATTACTAATTT
1 ACTATTAAGTTATTATTAATTT
*
10476065 ATTATTAAGTTAT
1 ACTATTAAGTTAT
10476078 CACTGATTTA
Statistics
Matches: 80, Mismatches: 15, Indels: 14
0.73 0.14 0.13
Matches are distributed among these distances:
21 5 0.06
22 57 0.71
23 13 0.16
24 4 0.05
25 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.03, T:0.48
Consensus pattern (22 bp):
ACTATTAAGTTATTATTAATTT
Found at i:10476086 original size:22 final size:22
Alignment explanation
Indices: 10476045--10476093 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
10476035 ACCAATTCAC
*
10476045 TATTAAGTTATTACTAATTTAT
1 TATTAAGTTATCACTAATTTAT
*
10476067 TATTAAGTTATCACTGATTTAT
1 TATTAAGTTATCACTAATTTAT
10476089 TATTA
1 TATTA
10476094 TCACTTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.53
Consensus pattern (22 bp):
TATTAAGTTATCACTAATTTAT
Found at i:10476424 original size:22 final size:22
Alignment explanation
Indices: 10476365--10477039 Score: 159
Period size: 22 Copynumber: 31.0 Consensus size: 22
10476355 AGTATAAAAA
* *
10476365 AAGTTATCAATGATTGACAATT
1 AAGTTATCAATGATTTACTATT
* *
10476387 AAGTTATCATTTATTTACTATT
1 AAGTTATCAATGATTTACTATT
* *
10476409 AAGTTATCAATGATTTAATACT
1 AAGTTATCAATGATTTACTATT
* *
10476431 AAATTATCAATTATTTACT-TCT
1 AAGTTATCAATGATTTACTAT-T
* ** *
10476453 AATTTAAAAATGATTTACCATT
1 AAGTTATCAATGATTTACTATT
* *
10476475 AAGTTATGAATAATTTA-TCATT
1 AAGTTATCAATGATTTACT-ATT
*
10476497 AAGTTATGAATGATTT-CTATT
1 AAGTTATCAATGATTTACTATT
* ** * * *
10476518 AAATTATTGATAATTTACCACT
1 AAGTTATCAATGATTTACTATT
* ** * *
10476540 AAATTATTGATGA-TTATTATA
1 AAGTTATCAATGATTTACTATT
* *
10476561 AAGTTAT-AATTAATTTATTATT
1 AAGTTATCAA-TGATTTACTATT
* * * * * *
10476583 AATTTACCGATGATTCATTATC
1 AAGTTATCAATGATTTACTATT
* * * * **
10476605 AA-TGATTAACTAATTTATTGCT
1 AAGTTATCAA-TGATTTACTATT
* * * * *
10476627 AAATCATCACTGATTTACAACT
1 AAGTTATCAATGATTTACTATT
* * *
10476649 AAGTTATTAATAATTTATTATT
1 AAGTTATCAATGATTTACTATT
** * * * * **
10476671 GCGTTGTTAGTGAATTACTGCT
1 AAGTTATCAATGATTTACTATT
* *
10476693 AAGTTAT---TAATTTACTACT
1 AAGTTATCAATGATTTACTATT
* * *
10476712 AAATTATCAATAATTTAATATT
1 AAGTTATCAATGATTTACTATT
**
10476734 ATA-TT-TTTATGTATTTACTATT
1 A-AGTTATCAATG-ATTTACTATT
* *
10476756 ATA-TTATTATTGATTTACTACTT
1 A-AGTTATCAATGATTTACTA-TT
* * * **
10476779 AA-TTTTTAATTATTTACTACA
1 AAGTTATCAATGATTTACTATT
* * * *
10476800 AAATTATCATTGATTGAAC-ACT
1 AAGTTATCAATGATT-TACTATT
* * **
10476822 AAATTATCTATGATTTACTACC
1 AAGTTATCAATGATTTACTATT
* *
10476844 AAGTTAT-TATAAATTTA-TATT
1 AAGTTATCAAT-GATTTACTATT
* *
10476865 CAA-TTATGC-ATGATATATTATT
1 -AAGTTAT-CAATGATTTACTATT
* * *
10476887 AAGTTATTACTGATTAACTATT
1 AAGTTATCAATGATTTACTATT
*
10476909 ATA-TTATCAATGATTTACTACT
1 A-AGTTATCAATGATTTACTATT
* *
10476931 AAGTTAT-ACTAATTTACT-TT
1 AAGTTATCAATGATTTACTATT
* * * *
10476951 AAAGTTTTCAATAATTAACTACT
1 -AAGTTATCAATGATTTACTATT
* * * *
10476974 AAATTATCAATTATTTATTACT
1 AAGTTATCAATGATTTACTATT
* * *
10476996 AATTTATCATTAATTTACTATT
1 AAGTTATCAATGATTTACTATT
** *
10477018 AAGTTATTTATGATTTAGTATT
1 AAGTTATCAATGATTTACTATT
10477040 GTCAATTAAT
Statistics
Matches: 476, Mismatches: 145, Indels: 64
0.69 0.21 0.09
Matches are distributed among these distances:
19 15 0.03
20 2 0.00
21 68 0.14
22 373 0.78
23 18 0.04
ACGTcount: A:0.37, C:0.09, G:0.07, T:0.47
Consensus pattern (22 bp):
AAGTTATCAATGATTTACTATT
Found at i:10476553 original size:43 final size:44
Alignment explanation
Indices: 10476461--10476554 Score: 104
Period size: 43 Copynumber: 2.2 Consensus size: 44
10476451 CTAATTTAAA
* * * *
10476461 AATGATTTACCATTAAGTTATGAATAATTTATCATTAAGTTATG
1 AATGATTTACCATTAAATTATGAATAATTTACCACTAAATTATG
*
10476505 AATGATTT-CTATTAAATTATTG-ATAATTTACCACTAAATTATTG
1 AATGATTTACCATTAAATTA-TGAATAATTTACCACTAAATTA-TG
10476549 -ATGATT
1 AATGATT
10476555 ATTATAAAGT
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
43 31 0.72
44 12 0.28
ACGTcount: A:0.38, C:0.07, G:0.10, T:0.45
Consensus pattern (44 bp):
AATGATTTACCATTAAATTATGAATAATTTACCACTAAATTATG
Found at i:10477277 original size:22 final size:23
Alignment explanation
Indices: 10477260--10477356 Score: 80
Period size: 22 Copynumber: 4.4 Consensus size: 23
10477250 ATGTTATTAC
10477260 TTATTTACT-CAAAAGTTATCAA
1 TTATTTACTACAAAAGTTATCAA
* *
10477282 TTATTTACTACTAAA-TTATCAT
1 TTATTTACTACAAAAGTTATCAA
** *
10477304 TTATTTACTA-TTAAGTTA-CCA
1 TTATTTACTACAAAAGTTATCAA
*
10477325 TTAATTTACTAC-TAAGTTATCAA
1 TT-ATTTACTACAAAAGTTATCAA
*
10477348 TGA-TTACTA
1 TTATTTACTA
10477357 TTAAGTTATA
Statistics
Matches: 63, Mismatches: 7, Indels: 11
0.78 0.09 0.14
Matches are distributed among these distances:
21 12 0.19
22 44 0.70
23 7 0.11
ACGTcount: A:0.37, C:0.13, G:0.04, T:0.45
Consensus pattern (23 bp):
TTATTTACTACAAAAGTTATCAA
Found at i:10477308 original size:44 final size:44
Alignment explanation
Indices: 10477260--10477364 Score: 117
Period size: 44 Copynumber: 2.4 Consensus size: 44
10477250 ATGTTATTAC
10477260 TTATTTACTCA-AAAGTTATCAATT-ATTTACTACTAAATTATCAT
1 TTATTTACT-ATAAAGTTA-CAATTAATTTACTACTAAATTATCAT
* * * *
10477304 TTATTTACTATTAAGTTACCATTAATTTACTACTAAGTTATCAA
1 TTATTTACTATAAAGTTACAATTAATTTACTACTAAATTATCAT
* *
10477348 TGA-TTACTATTAAGTTA
1 TTATTTACTATAAAGTTA
10477365 TACTGATTAC
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
43 19 0.35
44 35 0.65
ACGTcount: A:0.37, C:0.12, G:0.05, T:0.46
Consensus pattern (44 bp):
TTATTTACTATAAAGTTACAATTAATTTACTACTAAATTATCAT
Found at i:10477373 original size:20 final size:21
Alignment explanation
Indices: 10477272--10477437 Score: 93
Period size: 22 Copynumber: 7.7 Consensus size: 21
10477262 ATTTACTCAA
* *
10477272 AAGTTATCAATTATTTACTACT
1 AAGTTATCAATGA-TTACTATT
* * *
10477294 AAATTATCATTTATTTACTATT
1 AAGTTATCAATGA-TTACTATT
* * * *
10477316 AAGTTACCATTAATTTACTACT
1 AAGTTATCAATGA-TTACTATT
10477338 AAGTTATCAATGATTACTATT
1 AAGTTATCAATGATTACTATT
*
10477359 AAGTTAT-ACTGATTAC-ATTT
1 AAGTTATCAATGATTACTA-TT
* * * *
10477379 AAGTTTTCAATAATTAATTACT
1 AAGTTATCAATGATT-ACTATT
* * * *
10477401 AAATTATTAATTATCTACTAAT
1 AAGTTATCAATGAT-TACTATT
*
10477423 ATGTTATCAATGATT
1 AAGTTATCAATGATT
10477438 TGTGTATATT
Statistics
Matches: 112, Mismatches: 27, Indels: 11
0.75 0.18 0.07
Matches are distributed among these distances:
19 1 0.01
20 16 0.14
21 20 0.18
22 73 0.65
23 2 0.02
ACGTcount: A:0.38, C:0.11, G:0.05, T:0.46
Consensus pattern (21 bp):
AAGTTATCAATGATTACTATT
Found at i:10478782 original size:23 final size:24
Alignment explanation
Indices: 10478734--10478784 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
10478724 AAATTTTAAT
*
10478734 TTAATTAGAAATAATATAATACAC
1 TTAATTAGAAATAATAAAATACAC
*
10478758 TTAATTATAAA-AATAAAACTA-AC
1 TTAATTAGAAATAATAAAA-TACAC
10478781 TTAA
1 TTAA
10478785 CTTGATTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 12 0.50
24 12 0.50
ACGTcount: A:0.57, C:0.08, G:0.02, T:0.33
Consensus pattern (24 bp):
TTAATTAGAAATAATAAAATACAC
Found at i:10481065 original size:24 final size:22
Alignment explanation
Indices: 10481039--10481112 Score: 60
Period size: 24 Copynumber: 3.2 Consensus size: 22
10481029 AAAAAATTCA
10481039 TTTA-AATTAAAATTTATAAGAAT
1 TTTACAATTAAAATTT-TAA-AAT
* * *
10481062 ATTTACTATGAATATTTTTAAAACT
1 -TTTACAATTAA-AATTTTAAAA-T
*
10481087 TTTAGAATTAAAATTTTAAAAT
1 TTTACAATTAAAATTTTAAAAT
10481109 TTTA
1 TTTA
10481113 AATAGTTTAA
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
22 5 0.12
23 9 0.22
24 14 0.35
25 8 0.20
26 4 0.10
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (22 bp):
TTTACAATTAAAATTTTAAAAT
Found at i:10483087 original size:19 final size:19
Alignment explanation
Indices: 10483063--10483102 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
10483053 AGGCATGGAA
10483063 ATTGTCGAGTGAGGACAAC
1 ATTGTCGAGTGAGGACAAC
10483082 ATTGTCGAGTGAGGACAAC
1 ATTGTCGAGTGAGGACAAC
10483101 AT
1 AT
10483103 ATTGTCTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.33, C:0.15, G:0.30, T:0.23
Consensus pattern (19 bp):
ATTGTCGAGTGAGGACAAC
Found at i:10490336 original size:18 final size:18
Alignment explanation
Indices: 10490294--10490337 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
10490284 AGCTGTTTCA
10490294 TGATTTTCATTTCTTTTT
1 TGATTTTCATTTCTTTTT
* *
10490312 TGCTTTTCATTTTTTTTT
1 TGATTTTCATTTCTTTTT
*
10490330 TTATTTTC
1 TGATTTTC
10490338 TAAAGTGCCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.09, C:0.11, G:0.05, T:0.75
Consensus pattern (18 bp):
TGATTTTCATTTCTTTTT
Found at i:10491048 original size:720 final size:705
Alignment explanation
Indices: 10489855--10491453 Score: 1784
Period size: 720 Copynumber: 2.2 Consensus size: 705
10489845 TTTTTTTTTT
* * * *
10489855 TTTTAATTCTTTTTATTAAAAAAACATAATGTTTTTGTTTTTTAAAACGTAGTGAATCATTTAGC
1 TTTTAATT-TTTTTATT--GAAAATATAATGTTTTTGTTTTTTAAAACATAGTGGATCATTT-G-
* * *
10489920 CCATATTTTGCTGAGTTTGATTTGCCACATGGTAGTCTCCCAATATAAATGTTTTCATACAAACC
61 ACTTATTTTGCTGAGTTTGATTTGACACATGGTAGTCTCCCAATATAAATGTTTTCATAC-AACC
** * * * *
10489985 ACATTATACTGTGGGTAATGTAATGATTGATATAA-TTTAAAAAATATATATTTTTAATACTTAA
125 AGTTTATACTGTGGGTAATATAGTGATTGATATAATTTTAAAAAATAAATACTTTTAATACTTAA
* * * *
10490049 AAGTGTAGCATTAGGATACCACGTTTATTATTTCAAAAACATCTTTGATGATTTTACAAGATCAC
190 AAGTGTAGCATTAGAAAACCACATTTATTAATTCAAAAACATCTTTGATGATTTTACAAGATCAC
* *
10490114 GTCTTTTTGTTTTGACACGTAATTGATGATGAATAAAAAATGCTCTACATAAGAATTCTTTTTAC
255 GTCTTTTTGTTTTCACAAGTAATTGATGATGAATAAAAAATGCTCTACATAAGAATTCTTTTTAC
* ** * *
10490179 TCTATTTCCTATGTTGGAAATGTCGTGTTCAAAGAATAAATATCACGTTTCTTGAATCTTTTATG
320 TCTATTTCCTATGTTAGAAACATCGTGTTCAAAGAATAAATACCACATTTCTTGAATCTTTTATG
* * * * * * * * * *
10490244 AATGTGTGGAGCACAGGACTTTTCATTGGGAGTGCAACGTAGCTGTTTCATGATTTTCATTTCTT
385 AATGTATGGAACACAAGACTCTTCATTAGAAATGCAACATAGCTATTTCATGATTTTCATTCCTT
*
10490309 TTTTGCTTTTCATTTTTTTTTTTATTTTCTAAAGTGCCACATGGCT-TTTCATGGTTCTCCTTTC
450 TTTTGCTTTTCA----GTTTTTT-TTTTCTAAAGTGCCACATGGCTATTTCATGGTTCTCCTTT-
* * * *
10490373 CTTTTTGCTTTTTTTTTTTATTTTCTAAAAATATTTGAGAAAAAGAGATAGGTAGTTGTTCCTTG
509 CTTTTT--TATTTTTTTTTATTTTCTAAAAATATTTGAGAAAAAAAGAAAGGTAGTTCTTCCTTG
* * * * * * ** ** *
10490438 ATTTAATTTAAGTGAGGATGAGA-AAGGGGTTGGTGGCAGGTTTAGGT-GTTAAATCTATATTGA
572 ATTTAACTGAAGTAAGGATAAGAGAA-CGATTAATGAAAGGTTTAGATAG-TAAATCTATATTGA
* * * * *
10490501 TAAAGTTATCCTTGTAATCTTTTGAACACTAATTT-GAGCACAAACATAGTGGATGATTGTAATT
635 TAAAATTATCCTCGTAA-CCTTTGAACACTAATTTGGA-AACAAACATAGTGGATGATTGCAATT
*
10490565 ATATGTTC
698 ATATATTC
* *
10490573 TTTTAA-TTTTTTATT-ACAAA-ATAATGTTTTTGTTTTCTAAAATATAGTGGATCATTTGACTT
1 TTTTAATTTTTTTATTGA-AAATATAATGTTTTTGTTTTTTAAAACATAGTGGATCATTTGACTT
* * * * * *
10490635 ATATTGCTGAGTTTGATTTGTCACATGGTAGTATTCCAATATAGATGTTTTCATAGCAACTATGT
65 ATTTTGCTGAGTTTGATTTGACACATGGTAGTCTCCCAATATAAATGTTTTCATA-CAACCA-GT
* * *
10490700 TTATACTATGGGTAACATAGTGATTGATATAATTTTAAAAAAATAAATACTTTTGATACTTAAAA
128 TTATACTGTGGGTAATATAGTGATTGATATAATTTT-AAAAAATAAATACTTTTAATACTTAAAA
* ** * * *
10490765 GTGTAGTGTTTCGATTCA-AAAACGACATTTATTAATTCAAAAATGTTTTTGGTGATTTTATAAG
192 GTGTA--G---C-ATT-AGAAAACCACATTTATTAATTCAAAAACATCTTTGATGATTTTACAAG
* * * *
10490829 ATCACGTCTTTTTG-TTTCA-AATTATGGTTGATGATGAATAAAAAA-GTTTCTATATAAGAATT
250 ATCACGTCTTTTTGTTTTCACAAGTA--ATTGATGATGAATAAAAAATG-CTCTACATAAGAATT
* * * * *
10490891 CTTTTTACTTTGTTTCCTATGTTAGAAACATGGTGTTCAAAGAATAAATGCCATATTTCTTGAAT
312 CTTTTTACTCTATTTCCTATGTTAGAAACATCGTGTTCAAAGAATAAATACCACATTTCTTGAAT
* ** *
10490956 CTTTTATGAATGTATGGAACACAAGACTCTTCATTAGAAATGCCACATAGCTATTTTGTGGCTTT
377 CTTTTATGAATGTATGGAACACAAGACTCTTCATTAGAAATGCAACATAGCTATTTCAT-GATTT
* * *
10491021 TC-TTCCTTTTTTGCTTTTTAGTTTTTTTTTTCTAAAGTGCTACATGGCTATTTCATGGTTTTCC
441 TCATTCCTTTTTTGCTTTTCAGTTTTTTTTTTCTAAAGTGCCACATGGCTATTTCATGGTTCTCC
10491085 TTTCTTTTTTATTTTTTTTTATTTTCTAAAAATATTTGAGAAAAAAAGAAAGGTAGTTCTTCCTT
506 TTTCTTTTTTATTTTTTTTTATTTTCTAAAAATATTTGAGAAAAAAAGAAAGGTAGTTCTTCCTT
*
10491150 GATTTAACTGAAGTAAGGATAAGAGAACGATTAATGAAAGGTTTATATAGTAAATCTATATTGAT
571 GATTTAACTGAAGTAAGGATAAGAGAACGATTAATGAAAGGTTTAGATAGTAAATCTATATTGAT
* * * * * *
10491215 AAAATTGTCCTCGTAACCTTTGAACATTGATTTGGAAACAAACATGGTGGATGGTTGCAATTCTA
636 AAAATTATCCTCGTAACCTTTGAACACTAATTTGGAAACAAACATAGTGGATGATTGCAATTATA
*
10491280 TATTT
701 TATTC
* **
10491285 TTTTAATTCTTTTTTATTGAAAATGTAACATTTTTGTTTTTTAAAACATAGTGGATCATTTGACT
1 TTTTAA-T-TTTTTTATTGAAAATATAATGTTTTTGTTTTTTAAAACATAGTGGATCATTTGACT
* * **
10491350 CATGCTTTGCTGAGTTTGATTTAACATGTGGTAGTCTCCCAATATAAATGTTTTCATATCAACCA
64 TAT--TTTGCTGAGTTTGATTTGACACATGGTAGTCTCCCAATATAAATGTTTTCATA-CAACCA
* * * *
10491415 CGTTTATAATGTGAGTAATATAGTAATTGATGTAATTTT
126 -GTTTATACTGTGGGTAATATAGTGATTGATATAATTTT
10491454 TGCAAAACTA
Statistics
Matches: 737, Mismatches: 117, Indels: 54
0.81 0.13 0.06
Matches are distributed among these distances:
711 56 0.08
712 77 0.10
713 152 0.21
714 36 0.05
715 39 0.05
716 70 0.09
717 1 0.00
718 91 0.12
719 6 0.01
720 202 0.27
721 7 0.01
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.43
Consensus pattern (705 bp):
TTTTAATTTTTTTATTGAAAATATAATGTTTTTGTTTTTTAAAACATAGTGGATCATTTGACTTA
TTTTGCTGAGTTTGATTTGACACATGGTAGTCTCCCAATATAAATGTTTTCATACAACCAGTTTA
TACTGTGGGTAATATAGTGATTGATATAATTTTAAAAAATAAATACTTTTAATACTTAAAAGTGT
AGCATTAGAAAACCACATTTATTAATTCAAAAACATCTTTGATGATTTTACAAGATCACGTCTTT
TTGTTTTCACAAGTAATTGATGATGAATAAAAAATGCTCTACATAAGAATTCTTTTTACTCTATT
TCCTATGTTAGAAACATCGTGTTCAAAGAATAAATACCACATTTCTTGAATCTTTTATGAATGTA
TGGAACACAAGACTCTTCATTAGAAATGCAACATAGCTATTTCATGATTTTCATTCCTTTTTTGC
TTTTCAGTTTTTTTTTTCTAAAGTGCCACATGGCTATTTCATGGTTCTCCTTTCTTTTTTATTTT
TTTTTATTTTCTAAAAATATTTGAGAAAAAAAGAAAGGTAGTTCTTCCTTGATTTAACTGAAGTA
AGGATAAGAGAACGATTAATGAAAGGTTTAGATAGTAAATCTATATTGATAAAATTATCCTCGTA
ACCTTTGAACACTAATTTGGAAACAAACATAGTGGATGATTGCAATTATATATTC
Found at i:10493240 original size:17 final size:18
Alignment explanation
Indices: 10493197--10493243 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
10493187 TGAAAGTTTT
*
10493197 TTTATTGATTTTATTATGA
1 TTTATT-ATTTTTTTATGA
*
10493216 TTT-CTATTTTTTTAT-A
1 TTTATTATTTTTTTATGA
10493232 TTTATTATTTTT
1 TTTATTATTTTT
10493244 GTGTTCAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 4 0.17
17 16 0.67
18 1 0.04
19 3 0.12
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (18 bp):
TTTATTATTTTTTTATGA
Found at i:10494041 original size:3 final size:3
Alignment explanation
Indices: 10494033--10494103 Score: 124
Period size: 3 Copynumber: 23.3 Consensus size: 3
10494023 TCTATTTTTG
10494033 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
10494081 TAT TAT TGT TAT TAT TAT CTAT T
1 TAT TAT TAT TAT TAT TAT -TAT T
10494104 TTTGCCTATT
Statistics
Matches: 65, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
3 62 0.95
4 3 0.05
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:10495684 original size:24 final size:24
Alignment explanation
Indices: 10495657--10495708 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
10495647 AATGTTTGAC
10495657 TTCTG-TTGATGTTGATAGAATAAT
1 TTCTGCTT-ATGTTGATAGAATAAT
10495681 TTCTGCTTATGTTGATAGAATAAT
1 TTCTGCTTATGTTGATAGAATAAT
10495705 TTCT
1 TTCT
10495709 ACTGAAATTC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 25 0.93
25 2 0.07
ACGTcount: A:0.27, C:0.08, G:0.17, T:0.48
Consensus pattern (24 bp):
TTCTGCTTATGTTGATAGAATAAT
Found at i:10502162 original size:59 final size:59
Alignment explanation
Indices: 10502101--10502528 Score: 538
Period size: 59 Copynumber: 7.2 Consensus size: 59
10502091 TTGTGTAGGA
10502101 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTAAAAATTT-ATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTAAAAATTTGATTTTTAAGG
* * * * ** *
10502159 AAAATTGATACTTCCAACTTTTCCTCAAAAATATATATTTTTTGAAACTTTGATTTCCAAGA
1 AAAATTGATACTTTCAACTTTTCC-CCAAAA-ATAT-TTTTTTAAAAATTTGATTTTTAAGG
* ** *
10502221 AAAATTGATACTTTCAACTTTTCCTCAAAAATCCCTTTTTTGAAAATTT-ATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAAT-ATTTTTTTAAAAATTTGATTTTTAAGG
* * *
10502280 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTAAAAATTTGATTTTTAAGG
* ** * *
10502339 AAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTCAAAATTTAATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTAAAAATTTGATTTTTAAGG
* * *
10502398 AAAATTGATACTTTCAACTTTTCCCAAAAAATATTTTTTTTGAAAACTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTT-AAAAATTTGATTTTTAAGG
* *** *
10502459 AAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTGAAAATTT-ATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTAAAAATTTGATTTTTAAGG
10502517 AAAATTGATACT
1 AAAATTGATACT
10502529 ACTCAAAAAT
Statistics
Matches: 315, Mismatches: 47, Indels: 16
0.83 0.12 0.04
Matches are distributed among these distances:
58 55 0.17
59 138 0.44
60 32 0.10
61 60 0.19
62 30 0.10
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (59 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTAAAAATTTGATTTTTAAGG
Found at i:10502487 original size:120 final size:118
Alignment explanation
Indices: 10502101--10502528 Score: 680
Period size: 120 Copynumber: 3.6 Consensus size: 118
10502091 TTGTGTAGGA
* *** *
10502101 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTAAAAATTTATTTTTAAGGAAAATTG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTGAAAATTTATTTTTAAGGAAAATTG
* * *
10502166 ATACTTCCAACTTTTCCTCAAAAATATATATTTTTTG-AAACTTTGATTTCCAAGA
66 ATACTTTCAACTTTTCC-CAAAAA-ATAT-TTTTTTGAAAACTTTGATTTTCAAGG
10502221 AAAATTGATACTTTCAACTTTTCCTCAAAAATCCCTTTTTTGAAAATTTATTTTTAAGGAAAATT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA-CCCTTTTTTGAAAATTTATTTTTAAGGAAAATT
* *
10502286 GATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGAAAATTTTGATTTTCAAGG
65 GATACTTTCAACTTTTCCCAAAAAATATTTTTTTGAAAACTTTGATTTTCAAGG
* *
10502339 AAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTCAAAATTTAATTTTTAAGGAAAATT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTGAAAATTT-ATTTTTAAGGAAAATT
10502404 GATACTTTCAACTTTTCCCAAAAAATATTTTTTTTGAAAACTTTGATTTTCAAGG
65 GATACTTTCAACTTTTCCCAAAAAATA-TTTTTTTGAAAACTTTGATTTTCAAGG
10502459 AAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTGAAAATTTATTTTTAAGGAAAATTG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTGAAAATTTATTTTTAAGGAAAATTG
10502524 ATACT
66 ATACT
10502529 ACTCAAAAAT
Statistics
Matches: 287, Mismatches: 16, Indels: 11
0.91 0.05 0.04
Matches are distributed among these distances:
117 22 0.08
118 88 0.31
119 25 0.09
120 106 0.37
121 46 0.16
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (118 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTGAAAATTTATTTTTAAGGAAAATTG
ATACTTTCAACTTTTCCCAAAAAATATTTTTTTGAAAACTTTGATTTTCAAGG
Found at i:10503878 original size:22 final size:22
Alignment explanation
Indices: 10503847--10503916 Score: 81
Period size: 22 Copynumber: 3.2 Consensus size: 22
10503837 TTTAAAAATG
*
10503847 ATTTACCATTAAGTTATGAATA
1 ATTTATCATTAAGTTATGAATA
*
10503869 ATTTATCATTAAGTTATGAATG
1 ATTTATCATTAAGTTATGAATA
* *
10503891 ATTTCT-ATTAAATTATTG-ATA
1 ATTTATCATTAAGTTA-TGAATA
10503912 ATTTA
1 ATTTA
10503917 CCACTAAATT
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
21 14 0.34
22 27 0.66
ACGTcount: A:0.39, C:0.06, G:0.09, T:0.47
Consensus pattern (22 bp):
ATTTATCATTAAGTTATGAATA
Found at i:10503935 original size:43 final size:44
Alignment explanation
Indices: 10503843--10503936 Score: 104
Period size: 43 Copynumber: 2.2 Consensus size: 44
10503833 CTAATTTAAA
* * * *
10503843 AATGATTTACCATTAAGTTATGAATAATTTATCATTAAGTTATG
1 AATGATTTACCATTAAATTATGAATAATTTACCACTAAATTATG
*
10503887 AATGATTT-CTATTAAATTATTG-ATAATTTACCACTAAATTATTG
1 AATGATTTACCATTAAATTA-TGAATAATTTACCACTAAATTA-TG
10503931 -ATGATT
1 AATGATT
10503937 ATTATAAAGT
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
43 31 0.72
44 12 0.28
ACGTcount: A:0.38, C:0.07, G:0.10, T:0.45
Consensus pattern (44 bp):
AATGATTTACCATTAAATTATGAATAATTTACCACTAAATTATG
Found at i:10504107 original size:22 final size:22
Alignment explanation
Indices: 10504082--10504406 Score: 115
Period size: 22 Copynumber: 14.9 Consensus size: 22
10504072 GCTAAGTTAT
10504082 TAATTTACTACTAAATTATCAA
1 TAATTTACTACTAAATTATCAA
* * * **
10504104 TAATTTAATATTATATT-TTTA
1 TAATTTACTACTAAATTATCAA
* * * * *
10504125 TGTATTTACTATTATATTATTAT
1 T-AATTTACTACTAAATTATCAA
* * * *
10504148 TGATTTACTACTTAATTTTTAA
1 TAATTTACTACTAAATTATCAA
* * *
10504170 TTATTTACTACAAAATTATCAT
1 TAATTTACTACTAAATTATCAA
* * *
10504192 TGATTGAAC-ACTAAATTATCTA
1 TAATT-TACTACTAAATTATCAA
* * * *
10504214 TGATTTACTACCAAGTTAT-TA
1 TAATTTACTACTAAATTATCAA
* *
10504235 TAAATTTA-TATTCAATTATGC-A
1 T-AATTTACTACTAAATTAT-CAA
* * * * * * *
10504257 TGATATATTATTAAGTTATTAC
1 TAATTTACTACTAAATTATCAA
* * * *
10504279 TGATTAACTATTATATTATCAA
1 TAATTTACTACTAAATTATCAA
* * *
10504301 TGATTTACTACTAAGTTAT-AC
1 TAATTTACTACTAAATTATCAA
* *
10504322 TAATTTACT-TTAAAGTTTTCAA
1 TAATTTACTACTAAA-TTATCAA
*
10504344 TAATTAACTACTAAATTATCAA
1 TAATTTACTACTAAATTATCAA
* * * *
10504366 TTATTTATTACTAATTTATCAT
1 TAATTTACTACTAAATTATCAA
* *
10504388 TAATTTACTATTAAGTTAT
1 TAATTTACTACTAAATTAT
10504407 TTATGATTTA
Statistics
Matches: 222, Mismatches: 69, Indels: 24
0.70 0.22 0.08
Matches are distributed among these distances:
20 3 0.01
21 31 0.14
22 179 0.81
23 9 0.04
ACGTcount: A:0.38, C:0.10, G:0.04, T:0.48
Consensus pattern (22 bp):
TAATTTACTACTAAATTATCAA
Found at i:10504188 original size:44 final size:44
Alignment explanation
Indices: 10504084--10504196 Score: 131
Period size: 44 Copynumber: 2.6 Consensus size: 44
10504074 TAAGTTATTA
* *
10504084 ATTTACTACTAAATTATCAATAATTTAATATTATATTTTTATGT
1 ATTTACTACTAAATTATCATTGATTTAATATTATATTTTTATGT
* * * *
10504128 ATTTACTATTATATTATTATTGATTTACTACTTA-ATTTTTAAT-T
1 ATTTACTACTAAATTATCATTGATTTAATA-TTATATTTTT-ATGT
*
10504172 ATTTACTACAAAATTATCATTGATT
1 ATTTACTACTAAATTATCATTGATT
10504197 GAACACTAAA
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
44 52 0.91
45 5 0.09
ACGTcount: A:0.36, C:0.08, G:0.03, T:0.53
Consensus pattern (44 bp):
ATTTACTACTAAATTATCATTGATTTAATATTATATTTTTATGT
Found at i:10504660 original size:22 final size:23
Alignment explanation
Indices: 10504643--10504739 Score: 80
Period size: 22 Copynumber: 4.4 Consensus size: 23
10504633 ATGTTATTAC
10504643 TTATTTACT-CAAAAGTTATCAA
1 TTATTTACTACAAAAGTTATCAA
* *
10504665 TTATTTACTACTAAA-TTATCAT
1 TTATTTACTACAAAAGTTATCAA
** *
10504687 TTATTTACTA-TTAAGTTA-CCA
1 TTATTTACTACAAAAGTTATCAA
*
10504708 TTAATTTACTAC-TAAGTTATCAA
1 TT-ATTTACTACAAAAGTTATCAA
*
10504731 TGA-TTACTA
1 TTATTTACTA
10504740 TTAAGTTATA
Statistics
Matches: 63, Mismatches: 7, Indels: 11
0.78 0.09 0.14
Matches are distributed among these distances:
21 12 0.19
22 44 0.70
23 7 0.11
ACGTcount: A:0.37, C:0.13, G:0.04, T:0.45
Consensus pattern (23 bp):
TTATTTACTACAAAAGTTATCAA
Found at i:10504691 original size:44 final size:44
Alignment explanation
Indices: 10504643--10504747 Score: 117
Period size: 44 Copynumber: 2.4 Consensus size: 44
10504633 ATGTTATTAC
10504643 TTATTTACTCA-AAAGTTATCAATT-ATTTACTACTAAATTATCAT
1 TTATTTACT-ATAAAGTTA-CAATTAATTTACTACTAAATTATCAT
* * * *
10504687 TTATTTACTATTAAGTTACCATTAATTTACTACTAAGTTATCAA
1 TTATTTACTATAAAGTTACAATTAATTTACTACTAAATTATCAT
* *
10504731 TGA-TTACTATTAAGTTA
1 TTATTTACTATAAAGTTA
10504748 TACTGATTAC
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
43 19 0.35
44 35 0.65
ACGTcount: A:0.37, C:0.12, G:0.05, T:0.46
Consensus pattern (44 bp):
TTATTTACTATAAAGTTACAATTAATTTACTACTAAATTATCAT
Done.