Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 238 of 345
Found at i:80733587 original size:22 final size:22
Alignment explanation
Indices: 80733560--80733630 Score: 65
Period size: 23 Copynumber: 3.1 Consensus size: 22
80733550 GCTCACATTC
80733560 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
80733582 ATCACATATATG-CATGTC-ACATT
1 ATCACAT-T-GGCCAT-TCGGCCTT
80733605 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
80733628 ATC
1 ATC
80733631 TCATATATAC
Statistics
Matches: 37, Mismatches: 6, Indels: 12
0.67 0.11 0.22
Matches are distributed among these distances:
22 13 0.35
23 14 0.38
24 10 0.27
ACGTcount: A:0.24, C:0.30, G:0.14, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:80733649 original size:93 final size:94
Alignment explanation
Indices: 80733467--80733659 Score: 280
Period size: 93 Copynumber: 2.1 Consensus size: 94
80733457 TATATATATT
* *
80733467 TCACATTGACCATTCGGCTTTACCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGC
1 TCACATTGACCATTCGGCCTTACCACATATATGCATGTTCACATTCACCACATTGGCCATTCGGC
* **
80733532 CTTATCACACATATGCATGCTCACATTCA
66 CTTATCACACATATACACACTCACATTCA
* * *
80733561 TCACATTGGCCATTCGGCCTTATCACATATATGCATG-TCACATTCATCACATTGGCCATTCGGC
1 TCACATTGACCATTCGGCCTTACCACATATATGCATGTTCACATTCACCACATTGGCCATTCGGC
* * *
80733625 CTTATCTCATATATACACATTCACATTCA
66 CTTATCACACATATACACACTCACATTCA
80733654 TCACAT
1 TCACAT
80733660 AAAATCCTAA
Statistics
Matches: 88, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
93 54 0.61
94 34 0.39
ACGTcount: A:0.27, C:0.30, G:0.11, T:0.33
Consensus pattern (94 bp):
TCACATTGACCATTCGGCCTTACCACATATATGCATGTTCACATTCACCACATTGGCCATTCGGC
CTTATCACACATATACACACTCACATTCA
Found at i:80737149 original size:6 final size:6
Alignment explanation
Indices: 80737119--80737162 Score: 54
Period size: 6 Copynumber: 7.3 Consensus size: 6
80737109 TAAAGAATGG
* *
80737119 TAGT-A TAGTAA TAAGTAA TAATAA TATTAA TAGTAA TAGTAA TA
1 TAGTAA TAGTAA T-AGTAA TAGTAA TAGTAA TAGTAA TAGTAA TA
80737163 ATACAAGTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
5 4 0.12
6 24 0.71
7 6 0.18
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.36
Consensus pattern (6 bp):
TAGTAA
Found at i:80737731 original size:25 final size:23
Alignment explanation
Indices: 80737703--80737758 Score: 60
Period size: 25 Copynumber: 2.4 Consensus size: 23
80737693 AGATATTGTA
*
80737703 AGTAATATATAGGAAGAATATATAT
1 AGTAATATAAAGG-AGAA-ATATAT
* *
80737728 AGTATTAAAAAGGAGAAATATAT
1 AGTAATATAAAGGAGAAATATAT
80737751 -GTAATATA
1 AGTAATATA
80737759 CATGGATTGA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
22 6 0.23
23 6 0.23
24 4 0.15
25 10 0.38
ACGTcount: A:0.54, C:0.00, G:0.16, T:0.30
Consensus pattern (23 bp):
AGTAATATAAAGGAGAAATATAT
Found at i:80739980 original size:35 final size:37
Alignment explanation
Indices: 80739892--80739993 Score: 145
Period size: 37 Copynumber: 2.8 Consensus size: 37
80739882 AGCTCAGACG
* * *
80739892 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGAACA
80739929 AAATCTCCACACGTAGTCATCGGGTCTTACCC-AACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGAACA
* *
80739965 TAAT-TCCACACGTAGTCACCGGGTCTTAC
1 AAATCTCCACACGTAGTCATCGGGTCTTAC
80739994 TGGAATATAT
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
35 24 0.40
36 6 0.10
37 30 0.50
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGAACA
Found at i:80740297 original size:93 final size:93
Alignment explanation
Indices: 80740200--80740388 Score: 263
Period size: 93 Copynumber: 2.0 Consensus size: 93
80740190 TATATATTCC
* *
80740200 CATTGACCATTCGGCTTTACCACATATATGCATGTTCATATTCACCACA-TGGCCATTCGGCCTT
1 CATTGACCA-TCGGCCTTACCACATATATGCATGTTCACATTCACCACATTGGCCATTCGGCCTT
* **
80740264 ATCACACATATGCATGCTCACATTCATCA
65 ATCACACATATACACACTCACATTCATCA
* * *
80740293 CATTGGCCATCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTA
1 CATTGACCATCGGCCTTACCACATATATGCATGTTCACATTCACCACATTGGCCATTCGGCCTTA
* * *
80740358 TCTCATATATACACATTCACATTCATCA
66 TCACACATATACACACTCACATTCATCA
80740386 CAT
1 CAT
80740389 AAAATCCTAA
Statistics
Matches: 84, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
92 35 0.42
93 49 0.58
ACGTcount: A:0.27, C:0.30, G:0.11, T:0.32
Consensus pattern (93 bp):
CATTGACCATCGGCCTTACCACATATATGCATGTTCACATTCACCACATTGGCCATTCGGCCTTA
TCACACATATACACACTCACATTCATCA
Found at i:80740377 original size:47 final size:47
Alignment explanation
Indices: 80740200--80740388 Score: 265
Period size: 46 Copynumber: 4.1 Consensus size: 47
80740190 TATATATTCC
* * * * *
80740200 CATTGACCATTCGGCTTTACCACATATATGCATGTTCATATTCACCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
80740247 CA-TGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
80740293 CATTGGCCA-TCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * **
80740339 CATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
80740386 CAT
1 CAT
80740389 AAAATCCTAA
Statistics
Matches: 127, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
46 83 0.65
47 44 0.35
ACGTcount: A:0.27, C:0.30, G:0.11, T:0.32
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:80744487 original size:40 final size:40
Alignment explanation
Indices: 80744356--80744624 Score: 400
Period size: 40 Copynumber: 6.8 Consensus size: 40
80744346 CCAGCATGAT
* * * * *
80744356 TGCTCTTC-GGACCTAGCCCGTATATAACACCAGCACG-A
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
80744394 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACG-A
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
80744433 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
80744473 TGCTCTTCGGGACTTAGTCCGGATACATAACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
80744513 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
80744553 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
80744593 TGCTCTTCGGGACTTAGCCCGGATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATACATCACT
80744625 CTCAATTCTC
Statistics
Matches: 216, Mismatches: 13, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
38 8 0.04
39 60 0.28
40 148 0.69
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:80745940 original size:37 final size:37
Alignment explanation
Indices: 80745881--80745985 Score: 156
Period size: 37 Copynumber: 2.8 Consensus size: 37
80745871 AGCTCAGACG
* * *
80745881 AAATCTCCACACGAAGTTATCGGGTCTTACTCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACTCGAACA
*
80745918 AAATCTCCACACGTAGTCATCGGGTCTTACCCGAACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACTCGAACA
* *
80745955 TAATCTCCACACGTAGTCACCGGGTCTTACT
1 AAATCTCCACACGTAGTCATCGGGTCTTACT
80745986 GGAATATATT
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACTCGAACA
Found at i:80746270 original size:47 final size:47
Alignment explanation
Indices: 80746194--80746385 Score: 267
Period size: 47 Copynumber: 4.1 Consensus size: 47
80746184 ATATATTTCC
* * * * *
80746194 CATTGACCATTCGGCTTTACCACATATATGCATGTTCATATTCACCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
80746241 CATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
80746288 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * * **
80746335 CATTGGCCATTCGGCCTTTTTCTCATATATACACATTCACATTCATCA
1 CATTGGCCATTCGGCC-TTATCACATATATGCATGTTCACATTCATCA
80746383 CAT
1 CAT
80746386 AAAATCCTAA
Statistics
Matches: 130, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
47 101 0.78
48 29 0.22
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.34
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:80779952 original size:3 final size:3
Alignment explanation
Indices: 80779946--80779989 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
80779936 TAGTAACAAC
* * * *
80779946 AAT AAT AAT AAT AAT AAT AAT AAC AAT ACT AAT TAT AAA AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
80779990 CAAGGACATT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:80790791 original size:19 final size:20
Alignment explanation
Indices: 80790749--80790792 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
80790739 CCATATTAAC
** *
80790749 ACAGTTGGGCCCATTTCAAT
1 ACAGTTGGGCCCATAACAAA
80790769 ACAGTT-GGCCCATAACAAA
1 ACAGTTGGGCCCATAACAAA
80790788 ACAGT
1 ACAGT
80790793 CTCATATGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (20 bp):
ACAGTTGGGCCCATAACAAA
Found at i:80794225 original size:48 final size:48
Alignment explanation
Indices: 80794154--80794249 Score: 174
Period size: 48 Copynumber: 2.0 Consensus size: 48
80794144 TTCTATCTCA
80794154 TTCACCACTTAATTCCATTTCTAAAATTTTTAGTGATTTTTCAAAACC
1 TTCACCACTTAATTCCATTTCTAAAATTTTTAGTGATTTTTCAAAACC
* *
80794202 TTCACCACTTAATTTCATTTCTAAAATTTTTATTGATTTTTCAAAACC
1 TTCACCACTTAATTCCATTTCTAAAATTTTTAGTGATTTTTCAAAACC
80794250 ACGTCACTGC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.31, C:0.20, G:0.03, T:0.46
Consensus pattern (48 bp):
TTCACCACTTAATTCCATTTCTAAAATTTTTAGTGATTTTTCAAAACC
Found at i:80798481 original size:74 final size:74
Alignment explanation
Indices: 80798392--80798539 Score: 278
Period size: 74 Copynumber: 2.0 Consensus size: 74
80798382 TAAAACACAT
*
80798392 GAACTACTACCTTTAACAATTCTTTGAACTAAATCAAATCCAAATAACCCTAAAATTCATTAGTT
1 GAACTACTACCTTTAACAATTCTTTGAACTAAATCAAATCCAAATAACCATAAAATTCATTAGTT
80798457 TATTAACAC
66 TATTAACAC
*
80798466 GAACTACTACTTTTAACAATTCTTTGAACTAAATCAAATCCAAATAACCATAAAATTCATTAGTT
1 GAACTACTACCTTTAACAATTCTTTGAACTAAATCAAATCCAAATAACCATAAAATTCATTAGTT
80798531 TATTAACAC
66 TATTAACAC
80798540 AAATTTGCAT
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 72 1.00
ACGTcount: A:0.43, C:0.20, G:0.04, T:0.33
Consensus pattern (74 bp):
GAACTACTACCTTTAACAATTCTTTGAACTAAATCAAATCCAAATAACCATAAAATTCATTAGTT
TATTAACAC
Found at i:80800169 original size:26 final size:26
Alignment explanation
Indices: 80800140--80800247 Score: 164
Period size: 26 Copynumber: 4.2 Consensus size: 26
80800130 TGGTACAAAT
80800140 TGATAAT-GAGTTAGGTAAATATTCCA
1 TGATAATGGA-TTAGGTAAATATTCCA
80800166 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATATTCCA
* *
80800192 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATATTCCA
* *
80800218 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATATTCCA
80800244 TGAT
1 TGAT
80800248 GGGCATTTCA
Statistics
Matches: 78, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
26 76 0.97
27 2 0.03
ACGTcount: A:0.34, C:0.07, G:0.22, T:0.36
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATATTCCA
Found at i:80806131 original size:85 final size:85
Alignment explanation
Indices: 80805982--80806322 Score: 362
Period size: 86 Copynumber: 4.0 Consensus size: 85
80805972 AAAGAAAAAC
* * * ** *
80805982 ATTTGCAATTACTGCCACTTGTTGTGAGTGCACAACATGGTTGCAAATTAAACAAACTGTCACTG
1 ATTTGCAGTTACTACCACTTGTTATGAGTGCACAACATATTTGCAAATTAAACAAACTGCCACTG
80806047 GGTTTGTGGACGAGCCACAT
66 GGTTTGTGGACGAGCCACAT
* * *
80806067 ATTTGCAGTTACTACCACTTGTTGTGAGTGCACAACATATTTGTAGATTAAACAAA-TAGCCACT
1 ATTTGCAGTTACTACCACTTGTTATGAGTGCACAACATATTTGCAAATTAAACAAACT-GCCACT
*
80806131 GGGTTT-TGCAGATGAGCCACAT
65 GGGTTTGTG--GACGAGCCACAT
** ** * **
80806153 ATTTTTAGTTACTGTCACTTGATATGAGTGCACAACATATTCACAAATTAAACAAACTGCCACTA
1 ATTTGCAGTTACTACCACTTGTTATGAGTGCACAACATATTTGCAAATTAAACAAACTGCCACT-
* * * *
80806218 GGTTTTGTAGATGAGCCATAT
65 GGGTTTGTGGACGAGCCACAT
* * * * * *
80806239 ATTTGTAGTTACTATCACTTATTATGGGTGCACAACATATTTGCAGATTAAACAAACTACCACTG
1 ATTTGCAGTTACTACCACTTGTTATGAGTGCACAACATATTTGCAAATTAAACAAACTGCCACTG
* *
80806304 GATTTTGTGGACGCGCCAC
66 G-GTTTGTGGACGAGCCAC
80806323 CATTTGTTTG
Statistics
Matches: 215, Mismatches: 34, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
84 3 0.01
85 63 0.29
86 142 0.66
87 6 0.03
88 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (85 bp):
ATTTGCAGTTACTACCACTTGTTATGAGTGCACAACATATTTGCAAATTAAACAAACTGCCACTG
GGTTTGTGGACGAGCCACAT
Found at i:80806291 original size:172 final size:171
Alignment explanation
Indices: 80805990--80806310 Score: 448
Period size: 172 Copynumber: 1.9 Consensus size: 171
80805980 ACATTTGCAA
* * * * * *
80805990 TTACTGCCACTTGTTGTGAGTGCACAACATGGTTGCAAATTAAACAAACTGTCACTGGGTTTGTG
1 TTACTGCCACTTGATATGAGTGCACAACATGATTACAAATTAAACAAACTGCCACTGGGTTTGTA
* * *
80806055 GACGAGCCACATATTTGCAGTTACTACCACTTGTTGTGAGTGCACAACATATTTGTAGATTAAAC
66 GACGAGCCACATATTTGCAGTTACTACCACTTATTATGAGTGCACAACATATTTGCAGATTAAAC
*
80806120 AAA-TAGCCACTGGGTTTTGCAGATGAGCCACATATTTTTAG
131 AAACTA-CCACTGGATTTTGCAGATGAGCCACATATTTTTAG
* *
80806161 TTACTGTCACTTGATATGAGTGCACAACAT-ATTCACAAATTAAACAAACTGCCACTAGGTTTTG
1 TTACTGCCACTTGATATGAGTGCACAACATGATT-ACAAATTAAACAAACTGCCACT-GGGTTTG
* * * * *
80806225 TAGATGAGCCATATATTTGTAGTTACTATCACTTATTATGGGTGCACAACATATTTGCAGATTAA
64 TAGACGAGCCACATATTTGCAGTTACTACCACTTATTATGAGTGCACAACATATTTGCAGATTAA
80806290 ACAAACTACCACTGGATTTTG
129 ACAAACTACCACTGGATTTTG
80806311 TGGACGCGCC
Statistics
Matches: 130, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
170 2 0.02
171 47 0.36
172 79 0.61
173 2 0.02
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.32
Consensus pattern (171 bp):
TTACTGCCACTTGATATGAGTGCACAACATGATTACAAATTAAACAAACTGCCACTGGGTTTGTA
GACGAGCCACATATTTGCAGTTACTACCACTTATTATGAGTGCACAACATATTTGCAGATTAAAC
AAACTACCACTGGATTTTGCAGATGAGCCACATATTTTTAG
Found at i:80806895 original size:28 final size:28
Alignment explanation
Indices: 80806864--80806943 Score: 90
Period size: 28 Copynumber: 2.9 Consensus size: 28
80806854 TGTTTTTTGT
*
80806864 AAAATAGAAGCAAAACTGTAAAATCTAA
1 AAAATAGAAGTAAAACTGTAAAATCTAA
** * * *
80806892 AAAATAGGGGTAAAATTATGAAATCTAA
1 AAAATAGAAGTAAAACTGTAAAATCTAA
80806920 AAAATA-AAGGTAAAACTGTAAAAT
1 AAAATAGAA-GTAAAACTGTAAAAT
80806944 TTGTAAAATA
Statistics
Matches: 40, Mismatches: 11, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.59, C:0.06, G:0.14, T:0.21
Consensus pattern (28 bp):
AAAATAGAAGTAAAACTGTAAAATCTAA
Found at i:80812751 original size:7 final size:7
Alignment explanation
Indices: 80812739--80812766 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
80812729 GTTCAAAAAG
80812739 CCTTGCC
1 CCTTGCC
80812746 CCTTGCC
1 CCTTGCC
80812753 CCTTGCC
1 CCTTGCC
80812760 CCTTGCC
1 CCTTGCC
80812767 TGTCATAGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.00, C:0.57, G:0.14, T:0.29
Consensus pattern (7 bp):
CCTTGCC
Found at i:80823439 original size:15 final size:15
Alignment explanation
Indices: 80823421--80823451 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
80823411 ATAAATAAAG
80823421 AAAAAATAGATAGAT
1 AAAAAATAGATAGAT
80823436 AAAAAATAGATAGAT
1 AAAAAATAGATAGAT
80823451 A
1 A
80823452 GATGAGAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.13, T:0.19
Consensus pattern (15 bp):
AAAAAATAGATAGAT
Found at i:80829029 original size:21 final size:20
Alignment explanation
Indices: 80828999--80829037 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
80828989 ACGCCTACAA
80828999 AAAGATCGCTTGGATTTAAG
1 AAAGATCGCTTGGATTTAAG
80829019 AAAGAGTCGCTTGGATTTA
1 AAAGA-TCGCTTGGATTTA
80829038 TCCATGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.31
Consensus pattern (20 bp):
AAAGATCGCTTGGATTTAAG
Found at i:80829208 original size:16 final size:15
Alignment explanation
Indices: 80829181--80829247 Score: 63
Period size: 16 Copynumber: 4.6 Consensus size: 15
80829171 TACCATTTCA
80829181 ATATATAATTTAAAT
1 ATATATAATTTAAAT
80829196 ATATATAAATTTAAAT
1 ATATAT-AATTTAAAT
80829212 ATAT-TAA--TAATAT
1 ATATATAATTTAA-AT
*
80829225 ATAAATAATATT-AAT
1 ATATATAAT-TTAAAT
80829240 A-ATATAAT
1 ATATATAAT
80829248 AATATAGAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
12 3 0.07
13 5 0.11
14 11 0.25
15 10 0.23
16 14 0.32
17 1 0.02
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
ATATATAATTTAAAT
Found at i:80829225 original size:11 final size:11
Alignment explanation
Indices: 80829209--80829251 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
80829199 TATAAATTTA
80829209 AATATATTAAT
1 AATATATTAAT
*
80829220 AATATATAAAT
1 AATATATTAAT
80829231 -A-ATATTAAT
1 AATATATTAAT
*
80829240 AATATAATAAT
1 AATATATTAAT
80829251 A
1 A
80829252 TAGAAAGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
9 7 0.26
10 2 0.07
11 18 0.67
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AATATATTAAT
Found at i:80829237 original size:20 final size:19
Alignment explanation
Indices: 80829191--80829245 Score: 71
Period size: 20 Copynumber: 3.0 Consensus size: 19
80829181 ATATATAATT
*
80829191 TAAATATA-T-ATAA-ATT
1 TAAATATATTAATAATATA
80829207 TAAATATATTAATAATATA
1 TAAATATATTAATAATATA
80829226 TAAATAATATTAATAATATA
1 TAAAT-ATATTAATAATATA
80829246 ATAATATAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
16 8 0.24
17 1 0.03
18 4 0.12
19 7 0.21
20 14 0.41
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
TAAATATATTAATAATATA
Found at i:80830984 original size:21 final size:21
Alignment explanation
Indices: 80830958--80831026 Score: 86
Period size: 21 Copynumber: 3.3 Consensus size: 21
80830948 TCATTTCGTT
80830958 TCTTTTTGTCCAAGTTACTTC
1 TCTTTTTGTCCAAGTTACTTC
* *
80830979 TCTTTTTGTCCAAGTTGCTTT
1 TCTTTTTGTCCAAGTTACTTC
* * *
80831000 TCTTTTTGTCTAACTCACTTC
1 TCTTTTTGTCCAAGTTACTTC
80831021 -CTTTTT
1 TCTTTTT
80831027 TCTTTGTGAG
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
20 6 0.15
21 35 0.85
ACGTcount: A:0.12, C:0.23, G:0.09, T:0.57
Consensus pattern (21 bp):
TCTTTTTGTCCAAGTTACTTC
Found at i:80837513 original size:29 final size:29
Alignment explanation
Indices: 80837471--80837526 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
80837461 CTTAACCAAC
80837471 AAGCTAGGTTACTTGGCAAGTGAGAAAAT
1 AAGCTAGGTTACTTGGCAAGTGAGAAAAT
80837500 AAGCTAGGTTACTTGGCAAGTGAGAAA
1 AAGCTAGGTTACTTGGCAAGTGAGAAA
80837527 CTAACTATTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.38, C:0.11, G:0.29, T:0.23
Consensus pattern (29 bp):
AAGCTAGGTTACTTGGCAAGTGAGAAAAT
Found at i:80837889 original size:14 final size:14
Alignment explanation
Indices: 80837868--80837917 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
80837858 TTTTTTGAAT
*
80837868 AAAT-ATTTTCATA
1 AAATAATTTTCAAA
*
80837881 AAATAATTTTTAAA
1 AAATAATTTTCAAA
*
80837895 AAATAATTTTTAAAA
1 AAATAA-TTTTCAAA
80837910 AAATAATT
1 AAATAATT
80837918 AAAATGTGCA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
13 4 0.12
14 15 0.47
15 13 0.41
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (14 bp):
AAATAATTTTCAAA
Found at i:80837891 original size:15 final size:14
Alignment explanation
Indices: 80837880--80837917 Score: 67
Period size: 14 Copynumber: 2.6 Consensus size: 14
80837870 ATATTTTCAT
80837880 AAAATAATTTTTAA
1 AAAATAATTTTTAA
80837894 AAAATAATTTTTAAA
1 AAAATAATTTTT-AA
80837909 AAAATAATT
1 AAAATAATT
80837918 AAAATGTGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
AAAATAATTTTTAA
Found at i:80838385 original size:18 final size:17
Alignment explanation
Indices: 80838341--80838385 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
80838331 TTATATATTT
*
80838341 TTATTATTAAACAAAAG
1 TTATTATTAAACAAAAA
*
80838358 TTATTCATTAATCTAAAAA
1 TTATT-ATTAAAC-AAAAA
80838377 TTATTATTA
1 TTATTATTA
80838386 TTTATTAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 5 0.21
18 10 0.42
19 9 0.38
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (17 bp):
TTATTATTAAACAAAAA
Found at i:80844217 original size:40 final size:39
Alignment explanation
Indices: 80844173--80844308 Score: 166
Period size: 40 Copynumber: 3.4 Consensus size: 39
80844163 AAATATGTGC
* * *
80844173 CCCTGATTGTACTTCGGTACCCTTGATTGCACAC-ACGTGA
1 CCCTGTTTGTACTTCGGTACCCCTG-TT-CACACAAAGTGA
*
80844213 CCCTGTTTGTACTTCGGTACCCCTGTTCACACATAAGTGC
1 CCCTGTTTGTACTTCGGTACCCCTGTTCACACA-AAGTGA
* * *
80844253 CCCTGTTTGTACTTTGGTACCACTGTTCACACATAAGTGC
1 CCCTGTTTGTACTTCGGTACCCCTGTTCACACA-AAGTGA
80844293 CCCTGTTTGTACTTCG
1 CCCTGTTTGTACTTCG
80844309 ATAACCCTAT
Statistics
Matches: 87, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
38 5 0.06
39 2 0.02
40 80 0.92
ACGTcount: A:0.18, C:0.30, G:0.18, T:0.34
Consensus pattern (39 bp):
CCCTGTTTGTACTTCGGTACCCCTGTTCACACAAAGTGA
Found at i:80844238 original size:20 final size:20
Alignment explanation
Indices: 80844213--80844377 Score: 107
Period size: 20 Copynumber: 8.2 Consensus size: 20
80844203 ACACACGTGA
80844213 CCCTGTTTGTACTTCGGTAC
1 CCCTGTTTGTACTTCGGTAC
*** * ** *
80844233 CCCTGTTCACACATAAGTGC
1 CCCTGTTTGTACTTCGGTAC
*
80844253 CCCTGTTTGTACTTTGGTAC
1 CCCTGTTTGTACTTCGGTAC
* *** * ** *
80844273 CACTGTTCACACATAAGTGC
1 CCCTGTTTGTACTTCGGTAC
* *
80844293 CCCTGTTTGTACTTCGATAA
1 CCCTGTTTGTACTTCGGTAC
*
80844313 CCCTATTTGTACTTCGGTAC
1 CCCTGTTTGTACTTCGGTAC
* * *
80844333 CCCTTTTTGTACAT-GTGTGC
1 CCCTGTTTGTACTTCG-GTAC
*
80844353 CCCTGTTTGTACTTTGGTAC
1 CCCTGTTTGTACTTCGGTAC
80844373 CCCTG
1 CCCTG
80844378 AACGCATTTG
Statistics
Matches: 102, Mismatches: 41, Indels: 4
0.69 0.28 0.03
Matches are distributed among these distances:
19 1 0.01
20 100 0.98
21 1 0.01
ACGTcount: A:0.16, C:0.29, G:0.18, T:0.38
Consensus pattern (20 bp):
CCCTGTTTGTACTTCGGTAC
Found at i:80844323 original size:60 final size:60
Alignment explanation
Indices: 80844253--80844366 Score: 147
Period size: 60 Copynumber: 1.9 Consensus size: 60
80844243 ACATAAGTGC
* *
80844253 CCCTGTTTGTACTTTGGTACCACTGTTCACACATAAGTGCCCCTGTTTGTACTTCGATAA
1 CCCTATTTGTACTTCGGTACCACTGTTCACACATAAGTGCCCCTGTTTGTACTTCGATAA
* * *** **
80844313 CCCTATTTGTACTTCGGTACCCCTTTTTGTACATGTGTGCCCCTGTTTGTACTT
1 CCCTATTTGTACTTCGGTACCACTGTTCACACATAAGTGCCCCTGTTTGTACTT
80844367 TGGTACCCCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
60 45 1.00
ACGTcount: A:0.16, C:0.27, G:0.17, T:0.40
Consensus pattern (60 bp):
CCCTATTTGTACTTCGGTACCACTGTTCACACATAAGTGCCCCTGTTTGTACTTCGATAA
Found at i:80845968 original size:43 final size:43
Alignment explanation
Indices: 80845828--80845949 Score: 217
Period size: 43 Copynumber: 2.8 Consensus size: 43
80845818 TATTAAAAAA
*
80845828 AAGCGCCGCTAAAAGTCGTAGCCTTTAGCGGCGTTTGGAGAAG
1 AAGCGCCGCTAAAAGTCGTGGCCTTTAGCGGCGTTTGGAGAAG
80845871 AAGCGCCGCTAAAAGTCGTGGCCTTTAGCGGCGTTTGGAGAAG
1 AAGCGCCGCTAAAAGTCGTGGCCTTTAGCGGCGTTTGGAGAAG
* *
80845914 AAGCGTCGCTAAAAGTCATGGCCTTTAGCGGCGTTT
1 AAGCGCCGCTAAAAGTCGTGGCCTTTAGCGGCGTTT
80845950 TTCCCACAAA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 76 1.00
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.23
Consensus pattern (43 bp):
AAGCGCCGCTAAAAGTCGTGGCCTTTAGCGGCGTTTGGAGAAG
Found at i:80846057 original size:31 final size:30
Alignment explanation
Indices: 80846022--80846087 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
80846012 CTTCCTGCAT
80846022 TAAAATCCAACC-AAATACAACAAATATAGCA
1 TAAAATCCAACCAAAATAC--CAAATATAGCA
* * *
80846053 TAAAATGCAGCCAAAATACCAAATTTAGCA
1 TAAAATCCAACCAAAATACCAAATATAGCA
80846083 TAAAA
1 TAAAA
80846088 AAATACAACC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 15 0.48
31 10 0.32
32 6 0.19
ACGTcount: A:0.56, C:0.20, G:0.06, T:0.18
Consensus pattern (30 bp):
TAAAATCCAACCAAAATACCAAATATAGCA
Found at i:80846349 original size:21 final size:21
Alignment explanation
Indices: 80846323--80846384 Score: 106
Period size: 21 Copynumber: 3.0 Consensus size: 21
80846313 TTCCTATGCT
80846323 CTGCCTCCCTCGCTGCTGCCG
1 CTGCCTCCCTCGCTGCTGCCG
*
80846344 CTGCCTACCTCGCTGCTGCCG
1 CTGCCTCCCTCGCTGCTGCCG
*
80846365 CTGCCTCCCTCTCTGCTGCC
1 CTGCCTCCCTCGCTGCTGCC
80846385 TCCGCTCTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.02, C:0.52, G:0.21, T:0.26
Consensus pattern (21 bp):
CTGCCTCCCTCGCTGCTGCCG
Found at i:80846812 original size:13 final size:14
Alignment explanation
Indices: 80846787--80846815 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
80846777 TGATGAATTG
80846787 AATTAAACAATTAT
1 AATTAAACAATTAT
80846801 AATTAAAC-ATTAT
1 AATTAAACAATTAT
80846814 AA
1 AA
80846816 ATATTTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACAATTAT
Found at i:80847019 original size:16 final size:17
Alignment explanation
Indices: 80846982--80847020 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
80846972 AAAATATTAT
*
80846982 TTAATATTAGAAAGTTA
1 TTAATATTAGAAAGTAA
*
80846999 TTAATATTTGAAAG-AA
1 TTAATATTAGAAAGTAA
80847015 TTAATA
1 TTAATA
80847021 AAATTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (17 bp):
TTAATATTAGAAAGTAA
Found at i:80852037 original size:42 final size:43
Alignment explanation
Indices: 80851989--80852077 Score: 126
Period size: 42 Copynumber: 2.1 Consensus size: 43
80851979 ACTAGTTATG
* *
80851989 TATGATATGATATATATTTAAGT-ATTATGTAATTATGTAAGT
1 TATGATATGATATATATTTAAGTAATTATATAATTATCTAAGT
* *
80852031 TATGATATGATATATATTTATGTAAATTATATATTTATCTAAGT
1 TATGATATGATATATATTTAAGT-AATTATATAATTATCTAAGT
80852075 TAT
1 TAT
80852078 ATAAGTTATG
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
42 22 0.54
44 19 0.46
ACGTcount: A:0.38, C:0.01, G:0.11, T:0.49
Consensus pattern (43 bp):
TATGATATGATATATATTTAAGTAATTATATAATTATCTAAGT
Found at i:80852063 original size:17 final size:17
Alignment explanation
Indices: 80852041--80852167 Score: 89
Period size: 17 Copynumber: 7.4 Consensus size: 17
80852031 TATGATATGA
*
80852041 TATATATTTATGTAAAT
1 TATATATTTATGTAAGT
*
80852058 TATATATTTATCTAAGT
1 TATATATTTATGTAAGT
*
80852075 TATATAAGTTATGTAAGT
1 TATAT-ATTTATGTAAGT
* * *
80852093 TATGTAAATTATGATATA-A
1 TATAT-ATTTATG-TA-AGT
* *
80852112 AATATATTTAAGT-A-T
1 TATATATTTATGTAAGT
* *
80852127 TATGTAAGTTATGTAAGT
1 TATAT-ATTTATGTAAGT
*
80852145 TATATATTTATCTAAGT
1 TATATATTTATGTAAGT
80852162 TATATA
1 TATATA
80852168 AGTTATTACG
Statistics
Matches: 85, Mismatches: 19, Indels: 12
0.73 0.16 0.10
Matches are distributed among these distances:
15 4 0.05
16 6 0.07
17 38 0.45
18 31 0.36
19 5 0.06
20 1 0.01
ACGTcount: A:0.40, C:0.02, G:0.10, T:0.48
Consensus pattern (17 bp):
TATATATTTATGTAAGT
Found at i:80852074 original size:44 final size:44
Alignment explanation
Indices: 80851989--80852109 Score: 131
Period size: 44 Copynumber: 2.8 Consensus size: 44
80851979 ACTAGTTATG
* * * *
80851989 TATGATATGATATATATTTAAGT--ATTATGTAATTATGTAAGT
1 TATGATATGATATATATTTATGTAAATTATATATTTATCTAAGT
80852031 TATGATATGATATATATTTATGTAAATTATATATTTATCTAAGT
1 TATGATATGATATATATTTATGTAAATTATATATTTATCTAAGT
* * * *
80852075 TAT-ATAAGTTATGTAAGTTATGTAAATTATGATAT
1 TATGATATGATATAT-ATTTATGTAAATTAT-ATAT
80852110 AAAATATATT
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
42 22 0.33
43 8 0.12
44 33 0.49
45 4 0.06
ACGTcount: A:0.39, C:0.01, G:0.12, T:0.48
Consensus pattern (44 bp):
TATGATATGATATATATTTATGTAAATTATATATTTATCTAAGT
Found at i:80852077 original size:9 final size:9
Alignment explanation
Indices: 80852021--80852199 Score: 69
Period size: 9 Copynumber: 19.4 Consensus size: 9
80852011 TATTATGTAA
*
80852021 TTATGTAAG
1 TTATATAAG
*
80852030 TTATGATATG
1 TTAT-ATAAG
* *
80852040 ATATAT-AT
1 TTATATAAG
* *
80852048 TTATGTAAA
1 TTATATAAG
*
80852057 TTATAT-AT
1 TTATATAAG
*
80852065 TTATCTAAG
1 TTATATAAG
80852074 TTATATAAG
1 TTATATAAG
*
80852083 TTATGTAAG
1 TTATATAAG
* *
80852092 TTATGTAAAT
1 TTATAT-AAG
*
80852102 TATGATATAAAA
1 T-T-ATAT-AAG
*
80852114 TATATTTAAG
1 T-TATATAAG
*
80852124 TATTATGTAAG
1 --TTATATAAG
*
80852135 TTATGTAAG
1 TTATATAAG
*
80852144 TTATAT-AT
1 TTATATAAG
*
80852152 TTATCTAAG
1 TTATATAAG
80852161 TTATATAAG
1 TTATATAAG
*
80852170 TTAT-TACG
1 TTATATAAG
* *
80852178 TTTTGTAAG
1 TTATATAAG
*
80852187 TTATATAAA
1 TTATATAAG
80852196 TTAT
1 TTAT
80852200 GATATCAAAT
Statistics
Matches: 129, Mismatches: 31, Indels: 20
0.72 0.17 0.11
Matches are distributed among these distances:
8 22 0.17
9 75 0.58
10 11 0.09
11 11 0.09
12 10 0.08
ACGTcount: A:0.39, C:0.02, G:0.12, T:0.48
Consensus pattern (9 bp):
TTATATAAG
Found at i:80852186 original size:26 final size:26
Alignment explanation
Indices: 80852021--80852204 Score: 94
Period size: 26 Copynumber: 7.0 Consensus size: 26
80852011 TATTATGTAA
* *
80852021 TTATGTAAGTTATGATATGATATATAT
1 TTATGTAAGTTAT-ATAAGTTATATAT
* * * *
80852048 TTATGTAAATTATAT-ATTTATCTAAG
1 TTATGTAAGTTATATAAGTTATAT-AT
* * * *
80852074 TTATATAAGTTATGTAAGTTATGTAAA
1 TTATGTAAGTTATATAAGTTATAT-AT
* * *
80852101 TTATG-ATA-TAAAATATATTTA-AGTA-
1 TTATGTA-AGTTATATA-AGTTATA-TAT
*
80852126 TTATGTAAGTTATGTAAGTTATATAT
1 TTATGTAAGTTATATAAGTTATATAT
*
80852152 TTATCTAAGTTATATAAGTTAT-TACGT
1 TTATGTAAGTTATATAAGTTATATA--T
*
80852179 TT-TGTAAGTTATATAAATTATGATAT
1 TTATGTAAGTTATATAAGTTAT-ATAT
80852205 CAAATATATT
Statistics
Matches: 118, Mismatches: 26, Indels: 27
0.69 0.15 0.16
Matches are distributed among these distances:
25 18 0.15
26 65 0.55
27 33 0.28
28 2 0.02
ACGTcount: A:0.39, C:0.02, G:0.12, T:0.48
Consensus pattern (26 bp):
TTATGTAAGTTATATAAGTTATATAT
Found at i:80852187 original size:113 final size:113
Alignment explanation
Indices: 80851989--80852200 Score: 279
Period size: 113 Copynumber: 1.9 Consensus size: 113
80851979 ACTAGTTATG
* * * *
80851989 TATGATATGATATATATTTAAGTATTATGTAATTATGTAAGTTATGATATGATATATATTTATGT
1 TATGATATAAAATATATTTAAGTATTATGTAATTATGTAAGTTATGATATGATATATAGTTATAT
*
80852054 AAATTATATATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
66 AAATTATATATTTATCTAAGTTATATAAATTATGTAAGTTATGTAAAT
* *
80852102 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTAT-ATAT-TTATCTAAGTTAT
1 TATGATATAAAATATATTTAAGTATTATGTAA-TTATGTAAGTTATGATATGATATAT-AGTTAT
* *
80852165 ATAAGTTAT-TACGTTT-TGTAAGTTATATAAATTATG
64 ATAAATTATATA--TTTATCTAAGTTATATAAATTATG
80852201 ATATCAAATA
Statistics
Matches: 86, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
112 6 0.07
113 64 0.74
114 16 0.19
ACGTcount: A:0.39, C:0.01, G:0.12, T:0.48
Consensus pattern (113 bp):
TATGATATAAAATATATTTAAGTATTATGTAATTATGTAAGTTATGATATGATATATAGTTATAT
AAATTATATATTTATCTAAGTTATATAAATTATGTAAGTTATGTAAAT
Found at i:80852325 original size:15 final size:15
Alignment explanation
Indices: 80852305--80852360 Score: 64
Period size: 15 Copynumber: 3.8 Consensus size: 15
80852295 AAGTAGCGGG
80852305 ATTAAATAATATTTA
1 ATTAAATAATATTTA
80852320 ATTAAATAATATTT-
1 ATTAAATAATATTTA
80852334 A-TAAA-AATTATTTTA
1 ATTAAATAA-TA-TTTA
*
80852349 ATTAAGTAATAT
1 ATTAAATAATAT
80852361 ACATGTCGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
12 2 0.06
13 6 0.17
14 4 0.11
15 16 0.46
16 5 0.14
17 2 0.06
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (15 bp):
ATTAAATAATATTTA
Found at i:80853302 original size:355 final size:354
Alignment explanation
Indices: 80852570--80853444 Score: 1680
Period size: 355 Copynumber: 2.5 Consensus size: 354
80852560 ATAAAACGGA
*
80852570 GAATTTTTTAAGATTCATCATACGCGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAG
1 GAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAG
80852635 CTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAT
66 CTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAT
80852700 AAGGTTGGAGAGAAGGTCAGCCATTGTTGTAATTTTGATAAAAATTAGTTATAACTTTAAAGACA
131 AAGGTTGGAGAGAAGGTCAGCCATTGTTGTAATTTTGATAAAAATTAGTTATAACTTTAAAGACA
80852765 TTTAAAATATTAAATATTAAAATCAAACATTATTAATGCAAAAAATAGTAATTTGAATATAATAA
196 TTTAAAATATTAAATATTAAAATCAAACATTATTAATGCAAAAAATAGTAATTTGAATATAATAA
80852830 TATAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAGTAAATGA
261 TATAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAGTAAATGA
80852895 GCTCGATAGAACTTTTTTCAAGTCTTTTT
326 GCTCGATAGAACTTTTTTCAAGTCTTTTT
80852924 GAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAG
1 GAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAG
80852989 CTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAT
66 CTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAT
* *
80853054 AAGGTTGGAGAGAAGGTCAGCCATTGCTATAATTTTGATAAAAATTAGTTATAACTTTTAAAGAC
131 AAGGTTGGAGAGAAGGTCAGCCATTGTTGTAATTTTGATAAAAATTAGTTATAAC-TTTAAAGAC
80853119 ATTTAAAAATATTAAATATTAAAATCAAACATTATTAATGC-AAAAATAGTAATTTGAATATAAT
195 ATTT-AAAATATTAAATATTAAAATCAAACATTATTAATGCAAAAAATAGTAATTTGAATATAAT
80853183 AATATAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAGTAAAT
259 AATATAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAGTAAAT
80853248 GAGCTCGATAGAACTTTTTTCAAGTCTTTTT
324 GAGCTCGATAGAACTTTTTTCAAGTCTTTTT
80853279 GAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAG
1 GAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAG
80853344 CTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAT
66 CTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAT
* *
80853409 AAGGTCGGAGAGAAGGTCATCCATTGTTGTAATTTT
131 AAGGTTGGAGAGAAGGTCAGCCATTGTTGTAATTTT
80853445 AATGGACAAG
Statistics
Matches: 512, Mismatches: 7, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
354 182 0.36
355 294 0.57
356 36 0.07
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.35
Consensus pattern (354 bp):
GAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAG
CTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAT
AAGGTTGGAGAGAAGGTCAGCCATTGTTGTAATTTTGATAAAAATTAGTTATAACTTTAAAGACA
TTTAAAATATTAAATATTAAAATCAAACATTATTAATGCAAAAAATAGTAATTTGAATATAATAA
TATAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAGTAAATGA
GCTCGATAGAACTTTTTTCAAGTCTTTTT
Found at i:80854209 original size:183 final size:183
Alignment explanation
Indices: 80853901--80854266 Score: 705
Period size: 183 Copynumber: 2.0 Consensus size: 183
80853891 AGAACAGATT
80853901 TAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTATATC
1 TAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTATATC
80853966 AGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGGAGC
66 AGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGGAGC
*
80854031 AGGAAGCAGTAACTGAAATACATACAACATTAATTCACTAATATAGACACATG
131 AGGAAGCAGTAACTGAAACACATACAACATTAATTCACTAATATAGACACATG
*
80854084 TAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATGAAAACTTTATCTATATC
1 TAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTATATC
80854149 AGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGGAGC
66 AGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGGAGC
*
80854214 AGGAAGCAGTAACTGAAACATATACAACATTAATTCACTAATATAGACACATG
131 AGGAAGCAGTAACTGAAACACATACAACATTAATTCACTAATATAGACACATG
80854267 AAACTATATC
Statistics
Matches: 180, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
183 180 1.00
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (183 bp):
TAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTATATC
AGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGGAGC
AGGAAGCAGTAACTGAAACACATACAACATTAATTCACTAATATAGACACATG
Found at i:80856943 original size:26 final size:26
Alignment explanation
Indices: 80856912--80856972 Score: 122
Period size: 26 Copynumber: 2.3 Consensus size: 26
80856902 GGGTAAAAAT
80856912 TTTAGGGGAGAAGAAGTTGGGGGAAA
1 TTTAGGGGAGAAGAAGTTGGGGGAAA
80856938 TTTAGGGGAGAAGAAGTTGGGGGAAA
1 TTTAGGGGAGAAGAAGTTGGGGGAAA
80856964 TTTAGGGGA
1 TTTAGGGGA
80856973 AATCGGGGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.33, C:0.00, G:0.46, T:0.21
Consensus pattern (26 bp):
TTTAGGGGAGAAGAAGTTGGGGGAAA
Found at i:80857285 original size:28 final size:28
Alignment explanation
Indices: 80857253--80857310 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
80857243 AATCAAAACT
*
80857253 CTAT-ACCTTAAACCATTAAACTATATCC
1 CTATAACCTTAAACC-CTAAACTATATCC
* *
80857281 CTATAACCTTAATCCCTAAAGTATATCC
1 CTATAACCTTAAACCCTAAACTATATCC
80857309 CT
1 CT
80857311 TAAACCCTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 17 0.65
29 9 0.35
ACGTcount: A:0.36, C:0.29, G:0.02, T:0.33
Consensus pattern (28 bp):
CTATAACCTTAAACCCTAAACTATATCC
Found at i:80857311 original size:21 final size:21
Alignment explanation
Indices: 80857287--80857330 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
80857277 ATCCCTATAA
* *
80857287 CCTTAATCCCTAAAGTATATC
1 CCTTAAACCCTAAACTATATC
80857308 CCTTAAACCCTAAACTATATC
1 CCTTAAACCCTAAACTATATC
80857329 CC
1 CC
80857331 CTAACCATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.34, C:0.34, G:0.02, T:0.30
Consensus pattern (21 bp):
CCTTAAACCCTAAACTATATC
Found at i:80857565 original size:21 final size:21
Alignment explanation
Indices: 80857539--80857596 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
80857529 ACAAAATAAA
* *
80857539 AACCCTTAAGT-ATTAACCCC
1 AACCCTTAAATCATAAACCCC
80857559 TAACCCTTAAATCATAAACCCC
1 -AACCCTTAAATCATAAACCCC
*
80857581 AACCCTTAAACCATAA
1 AACCCTTAAATCATAA
80857597 TGCATAAACG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 25 0.76
22 8 0.24
ACGTcount: A:0.41, C:0.34, G:0.02, T:0.22
Consensus pattern (21 bp):
AACCCTTAAATCATAAACCCC
Found at i:80857728 original size:41 final size:41
Alignment explanation
Indices: 80857670--80857921 Score: 373
Period size: 41 Copynumber: 6.1 Consensus size: 41
80857660 AACCCTAAAC
**
80857670 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCCGA
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTA
* *
80857711 TTTTTAGCGGCGCTTTACCAAAAGTGCCGCTAATGCTCTTA
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTA
* * *
80857752 TTTTTAGCGGCGTTTTACAAAAAGCGCCGCTATTGCT-TCGA
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCT-TA
* *
80857793 TTTTTAGCGGCATTTTACCAAAAGCGTCGCTAATGCTCTTA
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTA
*
80857834 TTTTTAGCGGCGTTTTACCAAAAGTGCCGCTAATGCTCTTA
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTA
*
80857875 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTC-TA
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTA
80857915 TGTTTTA
1 T-TTTTA
80857922 CAATTTTTTT
Statistics
Matches: 189, Mismatches: 19, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
40 4 0.02
41 184 0.97
42 1 0.01
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (41 bp):
TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTA
Found at i:80857921 original size:123 final size:123
Alignment explanation
Indices: 80857670--80857911 Score: 430
Period size: 123 Copynumber: 2.0 Consensus size: 123
80857660 AACCCTAAAC
*
80857670 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCCGATTTTTAGCGGCGCTTTACCAAAAG
1 TTTTTAGCGGCATTTTACCAAAAGCGCCGCTAATGCTCCGATTTTTAGCGGCGCTTTACCAAAAG
80857735 TGCCGCTAATGCTCTTATTTTTAGCGGCGTTTTACAAAAAGCGCCGCTATTGCTTCGA
66 TGCCGCTAATGCTCTTATTTTTAGCGGCGTTTTACAAAAAGCGCCGCTATTGCTTCGA
* ** *
80857793 TTTTTAGCGGCATTTTACCAAAAGCGTCGCTAATGCTCTTATTTTTAGCGGCGTTTTACCAAAAG
1 TTTTTAGCGGCATTTTACCAAAAGCGCCGCTAATGCTCCGATTTTTAGCGGCGCTTTACCAAAAG
*
80857858 TGCCGCTAATGCTCTTATTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCT
66 TGCCGCTAATGCTCTTATTTTTAGCGGCGTTTTACAAAAAGCGCCGCTATTGCT
80857912 CTATGTTTTA
Statistics
Matches: 113, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
123 113 1.00
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (123 bp):
TTTTTAGCGGCATTTTACCAAAAGCGCCGCTAATGCTCCGATTTTTAGCGGCGCTTTACCAAAAG
TGCCGCTAATGCTCTTATTTTTAGCGGCGTTTTACAAAAAGCGCCGCTATTGCTTCGA
Found at i:80858867 original size:45 final size:46
Alignment explanation
Indices: 80858765--80858882 Score: 139
Period size: 45 Copynumber: 2.5 Consensus size: 46
80858755 TGTCTTCGAC
** * *
80858765 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATAAT
1 ATGGACTTACATGGCTCATT-CTGTCTCCAAAGCCA-ATATATATAAT
* * *
80858813 ATGGGCTTACATGGCTCATTCTGTCTCCAAAGCC-ATATATCTGAT
1 ATGGACTTACATGGCTCATTCTGTCTCCAAAGCCAATATATATAAT
*
80858858 ATGGACTTACATGGCTCATTTTGTC
1 ATGGACTTACATGGCTCATTCTGTC
80858883 CTGTCCTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
45 32 0.52
47 13 0.21
48 16 0.26
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.36
Consensus pattern (46 bp):
ATGGACTTACATGGCTCATTCTGTCTCCAAAGCCAATATATATAAT
Found at i:80863206 original size:46 final size:48
Alignment explanation
Indices: 80863102--80863221 Score: 154
Period size: 48 Copynumber: 2.5 Consensus size: 48
80863092 TGTCTTCGAC
** * *
80863102 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAAT
* * *
80863150 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCCATATA-A-CTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAAT
*
80863196 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
80863222 CTGTCCTGTC
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
46 27 0.43
47 1 0.02
48 35 0.56
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.35
Consensus pattern (48 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAAT
Found at i:80871013 original size:48 final size:48
Alignment explanation
Indices: 80870935--80871205 Score: 180
Period size: 48 Copynumber: 5.9 Consensus size: 48
80870925 CACCACGATT
* * * *
80870935 TATGAGATCCTGTGTAAAACCAAGTCTGGGACATGGCATCAGCATTGA
1 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGA
* * * *
80870983 TATGAGAGCTAGTGTAAGACCATGTTTGGGACATGCCATCGGCATTGA
1 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGA
* * * *
80871031 TATGTGTGCCAGTGTAAGACCATATCTGGGATATGG---C-G--TTG-
1 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGA
** *
80871072 TATGAGATTTCA-TGTAAGACCATGTCTGGG---T--CAT-GGCATTGA
1 TATGAGA-GCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGA
* * * **
80871114 TATGAG-GTCCTGTATAAGACCATGTCTGGGACATGGCATCGGCACCGA
1 TATGAGAG-CCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGA
* * *
80871162 TAAGAGA-CTTC-GTATAAGACTATGTCTGGGACATGGCATCAGCA
1 TATGAGAGC--CAGTGTAAGACCATGTCTGGGACATGGCATCAGCA
80871206 CCGACATGAG
Statistics
Matches: 175, Mismatches: 29, Indels: 38
0.72 0.12 0.16
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
41 26 0.15
42 28 0.16
44 1 0.01
45 2 0.01
47 4 0.02
48 111 0.63
49 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (48 bp):
TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGA
Found at i:80871100 original size:41 final size:40
Alignment explanation
Indices: 80871023--80871152 Score: 120
Period size: 42 Copynumber: 3.1 Consensus size: 40
80871013 ACATGCCATC
* * *
80871023 GGCATTGATATGTGTGCCAGTGTAAGACCATATCTGGGATAT
1 GGCATTGATATGAG-GTCA-TGTAAGACCATGTCTGGGATAT
* *
80871065 GGCGTTG-TATGAGATTTCATGTAAGACCATGTCTGGG-TCAT
1 GGCATTGATATGAG--GTCATGTAAGACCATGTCTGGGAT-AT
* *
80871106 GGCATTGATATGAGGTCCTGTATAAGACCATGTCTGGGACAT
1 GGCATTGATATGAGGTCATG--TAAGACCATGTCTGGGATAT
80871148 GGCAT
1 GGCAT
80871153 CGGCACCGAT
Statistics
Matches: 73, Mismatches: 9, Indels: 12
0.78 0.10 0.13
Matches are distributed among these distances:
40 5 0.07
41 30 0.41
42 38 0.52
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.31
Consensus pattern (40 bp):
GGCATTGATATGAGGTCATGTAAGACCATGTCTGGGATAT
Found at i:80871207 original size:48 final size:48
Alignment explanation
Indices: 80871125--80871237 Score: 172
Period size: 48 Copynumber: 2.4 Consensus size: 48
80871115 ATGAGGTCCT
* *
80871125 GTATAAGACCATGTCTGGGACATGGCATCGGCACCGATAAGAGACTTC
1 GTATAAGACCATGTCTGGGACATGGCATCAGCACCGACAAGAGACTTC
* *
80871173 GTATAAGACTATGTCTGGGACATGGCATCAGCACCGACATGAGACTTC
1 GTATAAGACCATGTCTGGGACATGGCATCAGCACCGACAAGAGACTTC
* *
80871221 GTATAAGATCATATCTG
1 GTATAAGACCATGTCTG
80871238 AGATATGGAA
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 58 1.00
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (48 bp):
GTATAAGACCATGTCTGGGACATGGCATCAGCACCGACAAGAGACTTC
Found at i:80876810 original size:17 final size:17
Alignment explanation
Indices: 80876788--80876842 Score: 69
Period size: 17 Copynumber: 3.4 Consensus size: 17
80876778 TAACCCTTTT
80876788 ATTCAAAAAATCATTCA
1 ATTCAAAAAATCATTCA
* **
80876805 ATTC--AAAACCATTTT
1 ATTCAAAAAATCATTCA
80876820 ATTCAAAAAATCATTCA
1 ATTCAAAAAATCATTCA
80876837 ATTCAA
1 ATTCAA
80876843 TACATATACA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
15 12 0.40
17 18 0.60
ACGTcount: A:0.49, C:0.18, G:0.00, T:0.33
Consensus pattern (17 bp):
ATTCAAAAAATCATTCA
Found at i:80876817 original size:15 final size:15
Alignment explanation
Indices: 80876794--80876842 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
80876784 TTTTATTCAA
80876794 AAAATCATTCAATTC
1 AAAATCATTCAATTC
* **
80876809 AAAACCATTTTATTC
1 AAAATCATTCAATTC
80876824 AAAAAATCATTCAATTC
1 --AAAATCATTCAATTC
80876841 AA
1 AA
80876843 TACATATACA
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
15 14 0.54
17 12 0.46
ACGTcount: A:0.49, C:0.18, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAATCATTCAATTC
Found at i:80876820 original size:32 final size:32
Alignment explanation
Indices: 80876779--80876842 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
80876769 ATTTAAAATT
*
80876779 AACCCTTTTATTCAAAAAATCATTCAATTCAA
1 AACCATTTTATTCAAAAAATCATTCAATTCAA
80876811 AACCATTTTATTCAAAAAATCATTCAATTCAA
1 AACCATTTTATTCAAAAAATCATTCAATTCAA
80876843 TACATATACA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.45, C:0.20, G:0.00, T:0.34
Consensus pattern (32 bp):
AACCATTTTATTCAAAAAATCATTCAATTCAA
Found at i:80882515 original size:42 final size:42
Alignment explanation
Indices: 80882456--80882567 Score: 145
Period size: 42 Copynumber: 2.7 Consensus size: 42
80882446 TGTGATTTCA
* * * * *
80882456 TGTAAGACCATATCTGGGATATGGCGTTGATATGAGAT-TCCG
1 TGTAAGACCATGTCTGGGACATGGCATCGATATGAGGTCT-CG
*
80882498 TGTAAGACCATGTCTGGGACATGGCATCGGTATGAGGTCTCG
1 TGTAAGACCATGTCTGGGACATGGCATCGATATGAGGTCTCG
*
80882540 TATAAGACCATGTCTGGGACATGGCATC
1 TGTAAGACCATGTCTGGGACATGGCATC
80882568 TTCACCGACA
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
42 61 0.98
43 1 0.02
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATGGCATCGATATGAGGTCTCG
Found at i:80882604 original size:48 final size:48
Alignment explanation
Indices: 80882537--80882665 Score: 204
Period size: 48 Copynumber: 2.7 Consensus size: 48
80882527 GTATGAGGTC
* **
80882537 TCGTATAAGACCATGTCTGGGACATGGCATCTTCACCGACATGAGACT
1 TCGTATAAGACCATATCTGGGACATGGCATCGGCACCGACATGAGACT
* *
80882585 TTGTATAAGACCATCTCTGGGACATGGCATCGGCACCGACATGAGACT
1 TCGTATAAGACCATATCTGGGACATGGCATCGGCACCGACATGAGACT
*
80882633 TCGTATAAGACCATATCTGGGATATGGCATCGG
1 TCGTATAAGACCATATCTGGGACATGGCATCGG
80882666 TATGTAGACC
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 74 1.00
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (48 bp):
TCGTATAAGACCATATCTGGGACATGGCATCGGCACCGACATGAGACT
Found at i:80890423 original size:21 final size:21
Alignment explanation
Indices: 80890398--80890448 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
80890388 ATATTGTTAT
*
80890398 ACATGATATAACATGATATGC
1 ACATGATATAACATGAGATGC
***
80890419 ACATGATATGTTATGAGATGC
1 ACATGATATAACATGAGATGC
80890440 ACATGATAT
1 ACATGATAT
80890449 GCTATGATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (21 bp):
ACATGATATAACATGAGATGC
Found at i:80890449 original size:21 final size:21
Alignment explanation
Indices: 80890410--80890455 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
80890400 ATGATATAAC
* *
80890410 ATGATATGCACATGATATGTT
1 ATGAGATGCACATGATATGCT
80890431 ATGAGATGCACATGATATGCT
1 ATGAGATGCACATGATATGCT
80890452 ATGA
1 ATGA
80890456 TATACTCATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.33
Consensus pattern (21 bp):
ATGAGATGCACATGATATGCT
Found at i:80890562 original size:24 final size:25
Alignment explanation
Indices: 80890530--80890577 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
80890520 CCAGTTTACC
**
80890530 AAAAAAGGCTTTGCCT-CAGTTATT
1 AAAAAAGGCTAGGCCTCCAGTTATT
*
80890554 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAAAGGCTAGGCCTCCAGTTAT
80890578 ATGATAAAGC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (25 bp):
AAAAAAGGCTAGGCCTCCAGTTATT
Found at i:80898506 original size:10 final size:10
Alignment explanation
Indices: 80898491--80898551 Score: 61
Period size: 10 Copynumber: 5.9 Consensus size: 10
80898481 ATATTGTTAT
80898491 ACATGATATG
1 ACATGATATG
80898501 ACATGATATG
1 ACATGATATG
80898511 AACATGATATG
1 -ACATGATATG
** *
80898522 TTATGAGATG
1 ACATGATATG
80898532 CACATGATATG
1 -ACATGATATG
80898543 -CTATGATAT
1 AC-ATGATAT
80898552 ACTCATTATA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
9 1 0.02
10 24 0.57
11 17 0.40
ACGTcount: A:0.38, C:0.10, G:0.20, T:0.33
Consensus pattern (10 bp):
ACATGATATG
Found at i:80898516 original size:21 final size:20
Alignment explanation
Indices: 80898491--80898551 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 20
80898481 ATATTGTTAT
80898491 ACATGATATGACATGATATGA
1 ACATGATATG-CATGATATGA
* * *
80898512 ACATGATATGTTATGAGATGC
1 ACATGATATG-CATGATATGA
80898533 ACATGATATGCTATGATAT
1 ACATGATATGC-ATGATAT
80898552 ACTCATTATA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.38, C:0.10, G:0.20, T:0.33
Consensus pattern (20 bp):
ACATGATATGCATGATATGA
Found at i:80903834 original size:20 final size:20
Alignment explanation
Indices: 80903809--80903953 Score: 98
Period size: 20 Copynumber: 7.3 Consensus size: 20
80903799 CACATATGTG
*
80903809 CCCCTGATTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
** * * *
80903829 CCCCTGAATGCACATAC-GTG
1 CCCCTGTTTGTAC-TTCGGTA
80903849 CCCCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
* * **
80903869 CCCCTGTTTGCACATAAGT-
1 CCCCTGTTTGTACTTCGGTA
80903888 CCCCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
* * * * *
80903908 CTCGTGTTTGCACAT-GTGTG
1 CCCCTGTTTGTACTTCG-GTA
* *
80903928 CCCCTGTTTGCACTTTGGTA
1 CCCCTGTTTGTACTTCGGTA
80903948 CCCCTG
1 CCCCTG
80903954 AACGCATTTA
Statistics
Matches: 94, Mismatches: 26, Indels: 10
0.72 0.20 0.08
Matches are distributed among these distances:
19 18 0.19
20 73 0.78
21 3 0.03
ACGTcount: A:0.14, C:0.31, G:0.21, T:0.34
Consensus pattern (20 bp):
CCCCTGTTTGTACTTCGGTA
Found at i:80903850 original size:40 final size:40
Alignment explanation
Indices: 80903797--80903955 Score: 203
Period size: 40 Copynumber: 4.0 Consensus size: 40
80903787 ATTGAATGTT
*
80903797 TGCACATATGTGCCCCTGATTGTACTTCGGTACCCCTGAA
1 TGCACATATGTGCCCCTGTTTGTACTTCGGTACCCCTGAA
* **
80903837 TGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTGTT
1 TGCACATATGTGCCCCTGTTTGTACTTCGGTACCCCTGAA
* * * **
80903877 TGCACATAAGT-CCCCTGTTTGTACTTCGGTACTCGTGTT
1 TGCACATATGTGCCCCTGTTTGTACTTCGGTACCCCTGAA
* * *
80903916 TGCACATGTGTGCCCCTGTTTGCACTTTGGTACCCCTGAA
1 TGCACATATGTGCCCCTGTTTGTACTTCGGTACCCCTGAA
80903956 CGCATTTACA
Statistics
Matches: 103, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
39 35 0.34
40 68 0.66
ACGTcount: A:0.16, C:0.30, G:0.21, T:0.34
Consensus pattern (40 bp):
TGCACATATGTGCCCCTGTTTGTACTTCGGTACCCCTGAA
Found at i:80903893 original size:19 final size:20
Alignment explanation
Indices: 80903793--80903940 Score: 73
Period size: 20 Copynumber: 7.5 Consensus size: 20
80903783 AATTATTGAA
* *
80903793 TGTTTGCACATATGTGCCCC
1 TGTTTGCACATAAGTACCCC
* * * **
80903813 TGATTGTACTTCGGTACCCC
1 TGTTTGCACATAAGTACCCC
** * *
80903833 TGAATGCACATACGTGCCCC
1 TGTTTGCACATAAGTACCCC
* * **
80903853 TGTTTGTACTTCGGTACCCC
1 TGTTTGCACATAAGTACCCC
80903873 TGTTTGCACATAAGT-CCCC
1 TGTTTGCACATAAGTACCCC
* * ** * *
80903892 TGTTTGTACTTCGGTACTCG
1 TGTTTGCACATAAGTACCCC
** *
80903912 TGTTTGCACATGTGTGCCCC
1 TGTTTGCACATAAGTACCCC
80903932 TGTTTGCAC
1 TGTTTGCAC
80903941 TTTGGTACCC
Statistics
Matches: 91, Mismatches: 36, Indels: 2
0.71 0.28 0.02
Matches are distributed among these distances:
19 15 0.16
20 76 0.84
ACGTcount: A:0.15, C:0.29, G:0.21, T:0.35
Consensus pattern (20 bp):
TGTTTGCACATAAGTACCCC
Found at i:80903900 original size:79 final size:80
Alignment explanation
Indices: 80903793--80903953 Score: 225
Period size: 79 Copynumber: 2.0 Consensus size: 80
80903783 AATTATTGAA
*
80903793 TGTTTGCACATATGTGCCCCTGATTGTACTTCGGTACCCCTGAATGCACATACGTGCCCCTGTTT
1 TGTTTGCACATAAGTGCCCCTGATTGTACTTCGGTACCCCTGAATGCACATACGTGCCCCTGTTT
*
80903858 GTACTTCGGTACCCC
66 GCACTTCGGTACCCC
* * * ** **
80903873 TGTTTGCACATAAGT-CCCCTGTTTGTACTTCGGTACTCGTGTTTGCACATGTGTGCCCCTGTTT
1 TGTTTGCACATAAGTGCCCCTGATTGTACTTCGGTACCCCTGAATGCACATACGTGCCCCTGTTT
*
80903937 GCACTTTGGTACCCC
66 GCACTTCGGTACCCC
80903952 TG
1 TG
80903954 AACGCATTTA
Statistics
Matches: 71, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
79 57 0.80
80 14 0.20
ACGTcount: A:0.14, C:0.29, G:0.21, T:0.35
Consensus pattern (80 bp):
TGTTTGCACATAAGTGCCCCTGATTGTACTTCGGTACCCCTGAATGCACATACGTGCCCCTGTTT
GCACTTCGGTACCCC
Found at i:80910833 original size:2 final size:2
Alignment explanation
Indices: 80910826--80910868 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
80910816 GGAAAGTAAA
80910826 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
80910868 T
1 T
80910869 TAGAGAAACT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:80912945 original size:44 final size:44
Alignment explanation
Indices: 80912893--80913009 Score: 189
Period size: 44 Copynumber: 2.7 Consensus size: 44
80912883 TATACAAGCT
* *
80912893 AGTGTAAGACCTGTTTGGGACATGGCATCTGCTTGACATGTGTC
1 AGTGTAAGACATGTCTGGGACATGGCATCTGCTTGACATGTGTC
*
80912937 AGTGTAAGACTTGTCTGGGACATGGCATCTGCTTGACATGTGTC
1 AGTGTAAGACATGTCTGGGACATGGCATCTGCTTGACATGTGTC
* *
80912981 AGTGTAAGACATGTCTAGGACTTGGCATC
1 AGTGTAAGACATGTCTGGGACATGGCATC
80913010 GACACCGATA
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 68 1.00
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGGCATCTGCTTGACATGTGTC
Found at i:80913839 original size:20 final size:20
Alignment explanation
Indices: 80913814--80913855 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
80913804 AATAGTTATG
80913814 GATTATAATTTATATGTTTA
1 GATTATAATTTATATGTTTA
80913834 GATTATAATTTATATGTTTA
1 GATTATAATTTATATGTTTA
80913854 GA
1 GA
80913856 ATCTTTAATG
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:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (20 bp):
GATTATAATTTATATGTTTA
Found at i:80922208 original size:137 final size:137
Alignment explanation
Indices: 80921988--80922306 Score: 397
Period size: 137 Copynumber: 2.3 Consensus size: 137
80921978 TTTGACATGA
* * * * * * *
80921988 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAA
1 TGCCATGGTATCTTTCAACCATGGTCGTACACA-TTTCATATCA-GGTGCCATGGTATCTTTCAA
** * ***
80922052 CCATGGTCTTATTCATTTCATGTCACGATGCCATGGTATCTTTCAACCATGGTCTTATTTATTTC
64 CCATGGTCTTACACATTTCATATCACGATGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
* * *
80922117 CCGTCATGT
129 ACATCAGGT
* *
80922126 TGCCATGGTATCTTTCAACCATGGTCGTCCACGTTTCATATCAGGTGCCATGGTATCTTTCAACC
1 TGCCATGGTATCTTTCAACCATGGTCGTACACATTTCATATCAGGTGCCATGGTATCTTTCAACC
* * * *
80922191 ATGGTCTTACACGTTTCATATCAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
66 ATGGTCTTACACATTTCATATCACGATGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAC
80922256 ATCAGGT
131 ATCAGGT
* *
80922263 TGCCATGGTATTTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCGTACACATTTCATATCAG
80922307 AGAGCACACT
Statistics
Matches: 154, Mismatches: 26, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
137 124 0.81
138 30 0.19
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.39
Consensus pattern (137 bp):
TGCCATGGTATCTTTCAACCATGGTCGTACACATTTCATATCAGGTGCCATGGTATCTTTCAACC
ATGGTCTTACACATTTCATATCACGATGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAC
ATCAGGT
Found at i:80922306 original size:46 final size:46
Alignment explanation
Indices: 80921988--80922306 Score: 399
Period size: 46 Copynumber: 7.0 Consensus size: 46
80921978 TTTGACATGA
* * * * * *
80921988 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
80922034 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*** *** *
80922080 TGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* * *
80922126 TGCCATGGTATCTTTCAACCATGGTCGTCCACGTTTCATATCAGG-
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
80922171 TGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
80922217 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
80922263 TGCCATGGTATTTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
80922307 AGAGCACACT
Statistics
Matches: 245, Mismatches: 26, Indels: 4
0.89 0.09 0.01
Matches are distributed among these distances:
45 47 0.19
46 198 0.81
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:80929390 original size:39 final size:39
Alignment explanation
Indices: 80929336--80929485 Score: 228
Period size: 39 Copynumber: 3.8 Consensus size: 39
80929326 TGTGTGAGAT
* ** *
80929336 TTATATTCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCAAAGGCATTTGTGCTGGTG
* * *
80929375 TTATATCCGAGCTAAGTCCCGAAGGTATTTGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCAAAGGCATTTGTGCTGGTG
*
80929414 TTATATCCGGGCTAAGTCCCAAAGGTATTTGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCAAAGGCATTTGTGCTGGTG
80929453 TTATATCCGGGCTAAGTCCCAAAGGCATTTGTG
1 TTATATCCGGGCTAAGTCCCAAAGGCATTTGTG
80929486 TTGGAAATGT
Statistics
Matches: 103, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 103 1.00
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.33
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCAAAGGCATTTGTGCTGGTG
Found at i:80934637 original size:23 final size:24
Alignment explanation
Indices: 80934611--80934663 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
80934601 CCACCAAATA
*
80934611 AAATATTACTCTTTTAAAAT-TTT
1 AAATATAACTCTTTTAAAATATTT
* *
80934634 AAATATAATTTTTTTAAAATATTT
1 AAATATAACTCTTTTAAAATATTT
*
80934658 GAATAT
1 AAATAT
80934664 CTTTAAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
23 17 0.68
24 8 0.32
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (24 bp):
AAATATAACTCTTTTAAAATATTT
Found at i:80934702 original size:22 final size:21
Alignment explanation
Indices: 80934677--80934753 Score: 84
Period size: 22 Copynumber: 3.5 Consensus size: 21
80934667 TAAAAATAAT
80934677 TTTAAAAATATATATTTATAAA
1 TTTAAAAATATATATTTA-AAA
80934699 TTTAAAAAT-TAATATTTAAAA
1 TTTAAAAATAT-ATATTTAAAA
* *
80934720 TTTTTAAAATATACATTTAAAA
1 -TTTAAAAATATATATTTAAAA
80934742 TATTATAAAATA
1 T-TTA-AAAATA
80934754 AATAATAAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
21 5 0.11
22 35 0.74
23 7 0.15
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (21 bp):
TTTAAAAATATATATTTAAAA
Found at i:80934706 original size:23 final size:22
Alignment explanation
Indices: 80934674--80934753 Score: 81
Period size: 23 Copynumber: 3.6 Consensus size: 22
80934664 CTTTAAAAAT
*
80934674 AATTTTAAAAATATATATTTATA
1 AATTTAAAAAATATATATTTA-A
*
80934697 AATTTAAAAATTA-ATATTTAA
1 AATTTAAAAAATATATATTTAA
** *
80934718 AATTTTTAAAATATACATTTAA
1 AATTTAAAAAATATATATTTAA
*
80934740 AATATTATAAAATA
1 AAT-TTAAAAAATA
80934754 AATAATAAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
21 11 0.23
22 17 0.35
23 20 0.42
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (22 bp):
AATTTAAAAAATATATATTTAA
Found at i:80934901 original size:11 final size:10
Alignment explanation
Indices: 80934889--80934925 Score: 56
Period size: 11 Copynumber: 3.5 Consensus size: 10
80934879 ATTGTAAAAC
80934889 AAATAATAAA
1 AAATAATAAA
80934899 CAAATAATAAA
1 -AAATAATAAA
80934910 AAACTAATAAA
1 AAA-TAATAAA
80934921 AAATA
1 AAATA
80934926 GAAAAATGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 5 0.20
11 20 0.80
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.19
Consensus pattern (10 bp):
AAATAATAAA
Found at i:80935162 original size:12 final size:12
Alignment explanation
Indices: 80935145--80935177 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
80935135 CGACCCACCC
80935145 ATATTAATTTTT
1 ATATTAATTTTT
80935157 ATATT-ATTTTT
1 ATATTAATTTTT
80935168 ATA-TAATTTT
1 ATATTAATTTT
80935178 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:80935418 original size:22 final size:22
Alignment explanation
Indices: 80935393--80935435 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
80935383 TATCCAAATA
80935393 ATAACAACAAAATAGTAGCAAC
1 ATAACAACAAAATAGTAGCAAC
* **
80935415 ATAATAGTAAAATAGTAGCAA
1 ATAACAACAAAATAGTAGCAA
80935436 AATAGGAAGA
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:0.58, C:0.12, G:0.12, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAC
Found at i:80935439 original size:11 final size:11
Alignment explanation
Indices: 80935400--80935440 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
80935390 ATAATAACAA
80935400 CAAAATAGTAG
1 CAAAATAGTAG
* *
80935411 CAACATAATAG
1 CAAAATAGTAG
*
80935422 TAAAATAGTAG
1 CAAAATAGTAG
80935433 CAAAATAG
1 CAAAATAG
80935441 GAAGAAAACA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.20
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:80940100 original size:48 final size:48
Alignment explanation
Indices: 80939965--80940278 Score: 326
Period size: 48 Copynumber: 6.5 Consensus size: 48
80939955 TATCACAGAT
* * * *
80939965 ATGGTCTTACATTGGCTCTCATATATCGATGCCGATGCCATGTTCCAAAC
1 ATGGTCTTACACTAGCTCACATATA--GATGCCGATGCCATGTCCCAAAC
* * * * * * *
80940015 ATGGTCTTACACTATCCCACATGTTGAGGCC-ATTGCCATATCCCAGAC
1 ATGGTCTTACACTAGCTCACATATAGATGCCGA-TGCCATGTCCCAAAC
* * *
80940063 ATGGTCTTACACTAGCTCTCATATAGATGCCGATGCCACGTTCCAAAC
1 ATGGTCTTACACTAGCTCACATATAGATGCCGATGCCATGTCCCAAAC
* * *
80940111 ATGGTCTTACACTAGCTCACATATCGAAGCCGACGCCATGTCCCAAAC
1 ATGGTCTTACACTAGCTCACATATAGATGCCGATGCCATGTCCCAAAC
* * * *
80940159 ATGGTCTTACATTGGCTCACATATCA-AGGCCGATGCCATGTCCCAGAC
1 ATGGTCTTACACTAGCTCACATAT-AGATGCCGATGCCATGTCCCAAAC
* * * * * *
80940207 ATGGTCTTATACTAGCTCTCATATAGATGCTGATTCCATATTCCAAAC
1 ATGGTCTTACACTAGCTCACATATAGATGCCGATGCCATGTCCCAAAC
*
80940255 ATGGTCTTACACTGGCTCACATAT
1 ATGGTCTTACACTAGCTCACATAT
80940279 CCCTAGAATC
Statistics
Matches: 214, Mismatches: 46, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
47 2 0.01
48 193 0.90
49 1 0.00
50 18 0.08
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.28
Consensus pattern (48 bp):
ATGGTCTTACACTAGCTCACATATAGATGCCGATGCCATGTCCCAAAC
Found at i:80940189 original size:144 final size:144
Alignment explanation
Indices: 80939982--80940279 Score: 418
Period size: 144 Copynumber: 2.1 Consensus size: 144
80939972 TACATTGGCT
* * * * * * **
80939982 CTCATATATCGATGCCGATGCCATGTTCCAAACATGGTCTTACACTATCCCACATGTTGAGGCC-
1 CTCACATATCGAAGCCGACGCCATGTCCCAAACATGGTCTTACACTAGCCCACATATCAAGGCCG
*
80940046 ATTGCCATATCCCAGACATGGTCTTACACTAGCTCTCATATAGATGCCGATGCCACGTTCCAAAC
66 A-TGCCATATCCCAGACATGGTCTTACACTAGCTCTCATATAGATGCCGATGCCACATTCCAAAC
80940111 ATGGTCTTACACTAG
130 ATGGTCTTACACTAG
* * *
80940126 CTCACATATCGAAGCCGACGCCATGTCCCAAACATGGTCTTACATTGGCTCACATATCAAGGCCG
1 CTCACATATCGAAGCCGACGCCATGTCCCAAACATGGTCTTACACTAGCCCACATATCAAGGCCG
* * * * *
80940191 ATGCCATGTCCCAGACATGGTCTTATACTAGCTCTCATATAGATGCTGATTCCATATTCCAAACA
66 ATGCCATATCCCAGACATGGTCTTACACTAGCTCTCATATAGATGCCGATGCCACATTCCAAACA
*
80940256 TGGTCTTACACTGG
131 TGGTCTTACACTAG
80940270 CTCACATATC
1 CTCACATATC
80940280 CCTAGAATCA
Statistics
Matches: 135, Mismatches: 18, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
144 134 0.99
145 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.28
Consensus pattern (144 bp):
CTCACATATCGAAGCCGACGCCATGTCCCAAACATGGTCTTACACTAGCCCACATATCAAGGCCG
ATGCCATATCCCAGACATGGTCTTACACTAGCTCTCATATAGATGCCGATGCCACATTCCAAACA
TGGTCTTACACTAG
Found at i:80942635 original size:25 final size:27
Alignment explanation
Indices: 80942581--80942635 Score: 69
Period size: 25 Copynumber: 2.1 Consensus size: 27
80942571 TATAAATATT
*
80942581 TTTTAACAAAAATACAAAAAATCAAGA
1 TTTTAACAAAAATACAAAAAATCAAAA
* *
80942608 TTTTAA-AAAAAT-CAAAAATTGAAAA
1 TTTTAACAAAAATACAAAAAATCAAAA
80942633 TTT
1 TTT
80942636 GCAATAAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 13 0.52
26 6 0.24
27 6 0.24
ACGTcount: A:0.60, C:0.07, G:0.04, T:0.29
Consensus pattern (27 bp):
TTTTAACAAAAATACAAAAAATCAAAA
Found at i:80948039 original size:21 final size:21
Alignment explanation
Indices: 80948015--80948084 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
80948005 AATAAATAAT
80948015 AAATACTATATAATTTAATTA
1 AAATACTATATAATTTAATTA
* *
80948036 AAATTAGTATGAATAATTATAA-AA
1 AAA-TACTAT--ATAATT-TAATTA
* *
80948060 AAATACTATGTAATTTAGTTA
1 AAATACTATATAATTTAATTA
80948081 AAAT
1 AAAT
80948085 TCGTTTTAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
20 2 0.05
21 13 0.34
22 5 0.13
23 5 0.13
24 10 0.26
25 3 0.08
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.39
Consensus pattern (21 bp):
AAATACTATATAATTTAATTA
Found at i:80948052 original size:24 final size:24
Alignment explanation
Indices: 80948024--80948100 Score: 63
Period size: 24 Copynumber: 3.3 Consensus size: 24
80948014 TAAATACTAT
80948024 ATAATTTAATTAAAATTAGTATGA
1 ATAATTTAATTAAAATTAGTATGA
* *
80948048 ATAATTATAA--AAAAATACTATG-
1 ATAATT-TAATTAAAATTAGTATGA
* * * *
80948070 -TAATTTAGTTAAAATTCGTTTTA
1 ATAATTTAATTAAAATTAGTATGA
80948093 ATAATTTA
1 ATAATTTA
80948101 TAATGGATAC
Statistics
Matches: 40, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
20 2 0.05
21 5 0.12
22 7 0.17
23 10 0.25
24 13 0.32
25 3 0.08
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.43
Consensus pattern (24 bp):
ATAATTTAATTAAAATTAGTATGA
Found at i:80948074 original size:45 final size:45
Alignment explanation
Indices: 80948010--80948136 Score: 139
Period size: 45 Copynumber: 2.8 Consensus size: 45
80948000 GTATTAATAA
* *
80948010 ATAATAAATACTATATAATTTAATTAAAATTAGTATGAATAA-TT
1 ATAAAAAATACTATGTAATTTAATTAAAATTAGTATGAATAATTT
* * * *
80948054 ATAAAAAAATACTATGTAATTTAGTTAAAATTCGTTTTAATAATTT
1 AT-AAAAAATACTATGTAATTTAATTAAAATTAGTATGAATAATTT
***
80948100 ATAATGGATACTATGTAATTTAATTAAATATTTAGTA
1 ATAAAAAATACTATGTAATTTAATTAAA-A-TTAGTA
80948137 GACAAAAATA
Statistics
Matches: 67, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
44 2 0.03
45 56 0.84
46 5 0.07
47 4 0.06
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.43
Consensus pattern (45 bp):
ATAAAAAATACTATGTAATTTAATTAAAATTAGTATGAATAATTT
Found at i:80950131 original size:53 final size:53
Alignment explanation
Indices: 80950050--80950200 Score: 205
Period size: 53 Copynumber: 2.8 Consensus size: 53
80950040 CTTACACGGT
* *
80950050 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
* *
80950105 TCACATTATACCGATGCCATAGCCCAGCTACGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
80950158 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
80950201 GCGCACTTAT
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
52 1 0.01
53 79 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:80956438 original size:18 final size:19
Alignment explanation
Indices: 80956404--80956442 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
80956394 CTTTAAACCC
80956404 AAACACTAAACCCTAACAA
1 AAACACTAAACCCTAACAA
*
80956423 AAACCCTAAA-CCTAACAA
1 AAACACTAAACCCTAACAA
80956441 AA
1 AA
80956443 TTAAAAAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.59, C:0.31, G:0.00, T:0.10
Consensus pattern (19 bp):
AAACACTAAACCCTAACAA
Found at i:80956707 original size:30 final size:30
Alignment explanation
Indices: 80956654--80956713 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
80956644 AATTAAAGAA
** *
80956654 ATTAAAAGATAAAATTAGTATTTCCTTTCT
1 ATTAAAAGATAAAATTAACATTTCATTTCT
*
80956684 ATTAAAAGATAAATTTAACATTTCATTTCT
1 ATTAAAAGATAAAATTAACATTTCATTTCT
80956714 TCTTCATGGG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.42, C:0.10, G:0.05, T:0.43
Consensus pattern (30 bp):
ATTAAAAGATAAAATTAACATTTCATTTCT
Found at i:80958047 original size:39 final size:39
Alignment explanation
Indices: 80957988--80958067 Score: 142
Period size: 39 Copynumber: 2.1 Consensus size: 39
80957978 CAACTCGTAG
* *
80957988 AATCTCACTATCTCGAAGACTCTTTTGGTAGATTTTGTA
1 AATCACACTATCCCGAAGACTCTTTTGGTAGATTTTGTA
80958027 AATCACACTATCCCGAAGACTCTTTTGGTAGATTTTGTA
1 AATCACACTATCCCGAAGACTCTTTTGGTAGATTTTGTA
80958066 AA
1 AA
80958068 CATTTGGCTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.38
Consensus pattern (39 bp):
AATCACACTATCCCGAAGACTCTTTTGGTAGATTTTGTA
Found at i:80971714 original size:291 final size:291
Alignment explanation
Indices: 80971179--80971743 Score: 1076
Period size: 291 Copynumber: 1.9 Consensus size: 291
80971169 TTCATCATCC
* *
80971179 CAAACAATTTTTGTTGCTAAGGTACTCTCCCTTCACAAAATTTTGTGTCTTTACCATCTATTATT
1 CAAACAATTTTTGTTGCTAAGGTACTCTCCCTCCACAAAATTTCGTGTCTTTACCATCTATTATT
80971244 ATTTTGATTTTAAATGTCAATCGACATAAAACTATAAGTATATAATTAGATATAATAATATAGTT
66 ATTTTGATTTTAAATGTCAATCGACATAAAACTATAAGTATATAATTAGATATAATAATATAGTT
80971309 TCATAAAAAATAAGAATAATACATCACGAATGGATGAAAGCCATAAGATGAACACTAATGAAAAA
131 TCATAAAAAATAAGAATAATACATCACGAATGGATGAAAGCCATAAGATGAACACTAATGAAAAA
80971374 ATTCACAAAGATCCATAGTAAACAATAACGAGGATATAAAAAAGATAGTTAATCAATTAAGAGAA
196 ATTCACAAAGATCCATAGTAAACAATAACGAGGATATAAAAAAGATAGTTAATCAATTAAGAGAA
80971439 TATATACCAAAATTCTCAAGTACCTTAGCAA
261 TATATACCAAAATTCTCAAGTACCTTAGCAA
*
80971470 CAAACAGTTTTTGTTGCTAAGGTACTCTCCCTCCACAAAATTTCGTGTCTTTACCATCTATTATT
1 CAAACAATTTTTGTTGCTAAGGTACTCTCCCTCCACAAAATTTCGTGTCTTTACCATCTATTATT
80971535 ATTTTGATTTTAAATGTCAATCGACATAAAACTATAAGTATATAATTAGATATAATAATATAGTT
66 ATTTTGATTTTAAATGTCAATCGACATAAAACTATAAGTATATAATTAGATATAATAATATAGTT
80971600 TCATAAAAAATAAGAATAATACATCACGAATGGATGAAAGCCATAAGATGAACACTAATGAAAAA
131 TCATAAAAAATAAGAATAATACATCACGAATGGATGAAAGCCATAAGATGAACACTAATGAAAAA
* * *
80971665 ATTCTCAAAGATCCATAGTAAACAATAATGAGGATATAAAAATGATAGTTAATCAATTAAGAGAA
196 ATTCACAAAGATCCATAGTAAACAATAACGAGGATATAAAAAAGATAGTTAATCAATTAAGAGAA
80971730 TATATACCAAAATT
261 TATATACCAAAATT
80971744 TTCAGATTAT
Statistics
Matches: 268, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
291 268 1.00
ACGTcount: A:0.44, C:0.13, G:0.11, T:0.31
Consensus pattern (291 bp):
CAAACAATTTTTGTTGCTAAGGTACTCTCCCTCCACAAAATTTCGTGTCTTTACCATCTATTATT
ATTTTGATTTTAAATGTCAATCGACATAAAACTATAAGTATATAATTAGATATAATAATATAGTT
TCATAAAAAATAAGAATAATACATCACGAATGGATGAAAGCCATAAGATGAACACTAATGAAAAA
ATTCACAAAGATCCATAGTAAACAATAACGAGGATATAAAAAAGATAGTTAATCAATTAAGAGAA
TATATACCAAAATTCTCAAGTACCTTAGCAA
Found at i:80974504 original size:75 final size:74
Alignment explanation
Indices: 80974365--80974562 Score: 218
Period size: 75 Copynumber: 2.8 Consensus size: 74
80974355 GTAGTTTGTA
* *
80974365 AAATATTGAAAATAGAAGAGTAAAGTAAAATATAAATAAAATTAAGGGAGAAATTTGTAGATAAA
1 AAATATTGAAAATAAAAGAGCAAAGTAAAATATAAATAAAATTAAGGGAGAAATTTGTAGATAAA
80974430 TAATAATAAT
66 -AATAATAAT
* * * *
80974440 AAATATTGAAAATAAAATAGCAAATTAAAATGTAAATAAAATTAAGGGAGCAA-TT-T---T---
1 AAATATTGAAAATAAAAGAGCAAAGTAAAATATAAATAAAATTAAGGGAGAAATTTGTAGATAAA
80974497 AAT-ATAA-
66 AATAATAAT
** * *
80974504 AAATATTGAAAATAAAAGAGCGAATTTAAAATATAAATAAAATTAACGGAGCAATTTGT
1 AAATATTGAAAATAAAAGAGC-AAAGTAAAATATAAATAAAATTAAGGGAGAAATTTGT
80974563 GAATAAATAT
Statistics
Matches: 110, Mismatches: 10, Indels: 14
0.82 0.07 0.10
Matches are distributed among these distances:
64 20 0.18
65 33 0.30
66 5 0.05
67 1 0.01
70 1 0.01
73 1 0.01
74 2 0.02
75 47 0.43
ACGTcount: A:0.57, C:0.03, G:0.13, T:0.27
Consensus pattern (74 bp):
AAATATTGAAAATAAAAGAGCAAAGTAAAATATAAATAAAATTAAGGGAGAAATTTGTAGATAAA
AATAATAAT
Found at i:80974509 original size:64 final size:67
Alignment explanation
Indices: 80974430--80974560 Score: 205
Period size: 65 Copynumber: 2.0 Consensus size: 67
80974420 TGTAGATAAA
* * *
80974430 TAATAATAATAAATATTGAAAATAAAATAGC-AAATTAAAATGTAAATAAAATTAAGGGAGCAAT
1 TAATAATAATAAATATTGAAAATAAAAGAGCGAAATTAAAATATAAATAAAATTAACGGAGCAAT
80974494 TT
66 TT
*
80974496 TAAT-ATAA-AAATATTGAAAATAAAAGAGCGAATTTAAAATATAAATAAAATTAACGGAGCAAT
1 TAATAATAATAAATATTGAAAATAAAAGAGCGAAATTAAAATATAAATAAAATTAACGGAGCAAT
80974559 TT
66 TT
80974561 GTGAATAAAT
Statistics
Matches: 60, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
64 20 0.33
65 36 0.60
66 4 0.07
ACGTcount: A:0.57, C:0.04, G:0.11, T:0.28
Consensus pattern (67 bp):
TAATAATAATAAATATTGAAAATAAAAGAGCGAAATTAAAATATAAATAAAATTAACGGAGCAAT
TT
Found at i:80974560 original size:30 final size:30
Alignment explanation
Indices: 80974458--80974560 Score: 89
Period size: 34 Copynumber: 3.3 Consensus size: 30
80974448 AAAATAAAAT
* * *
80974458 AGCAAATTAAAATGTAAATAAAATTAAGGG
1 AGCAATTTAAAATATAAATAAAATTAAAGG
* * * *
80974488 AGCAATTTTAATATAAAAATATTGAAAATAAAAG
1 AGCAA-TTTAAAATATAAATA---AAATTAAAGG
*
80974522 AGCGAATTTAAAATATAAATAAAATTAACGG
1 AGC-AATTTAAAATATAAATAAAATTAAAGG
80974553 AGCAATTT
1 AGCAATTT
80974561 GTGAATAAAT
Statistics
Matches: 56, Mismatches: 12, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
30 10 0.18
31 21 0.38
34 23 0.41
35 2 0.04
ACGTcount: A:0.55, C:0.05, G:0.13, T:0.27
Consensus pattern (30 bp):
AGCAATTTAAAATATAAATAAAATTAAAGG
Found at i:80974618 original size:157 final size:160
Alignment explanation
Indices: 80974428--80974772 Score: 606
Period size: 157 Copynumber: 2.2 Consensus size: 160
80974418 TTTGTAGATA
*
80974428 AATAATAATAATAAATATTGAAAATAAAATAGCAAATTAAAATGTAAATAAAATTAAGGGAGCAA
1 AATAATAATAATAAATATTGAAAATAAAATAGCAAATTAAAATGTAAATAAAATTAACGGAGCAA
*
80974493 TTTTAATATAAAAATATTGAAAATAAAAGAGCGAATTTAAAATATAAATAAAATTAACGGAGCAA
66 TTTTAATATAAAAATATTAAAAATAAAAGAGCGAATTTAAAATATAAATAAAATTAACGGAGCAA
*
80974558 TTTGTGAATAAATATAC-A-A-ATAATAAT
131 TTTGAGAATAAATATACAATAGATAATAAT
* *
80974585 AATAATAATAATAAATATTGAAAATAAAATAGCAAATTAAAATGTAAATAAAATTAACTGAGTAA
1 AATAATAATAATAAATATTGAAAATAAAATAGCAAATTAAAATGTAAATAAAATTAACGGAGCAA
* *
80974650 TTTTAATATAAAAATATTAAAAATAAAATAGCGAATTTAAAATATAAATAAAATTAAGGGAGCAA
66 TTTTAATATAAAAATATTAAAAATAAAAGAGCGAATTTAAAATATAAATAAAATTAACGGAGCAA
80974715 TTTGAGAATAAATATACAATAGATAATAAT
131 TTTGAGAATAAATATACAATAGATAATAAT
80974745 AATAATAATAATAAATATTGAAAATAAA
1 AATAATAATAATAAATATTGAAAATAAA
80974773 TATAACAATA
Statistics
Matches: 178, Mismatches: 7, Indels: 3
0.95 0.04 0.02
Matches are distributed among these distances:
157 140 0.79
158 1 0.01
159 1 0.01
160 36 0.20
ACGTcount: A:0.59, C:0.03, G:0.09, T:0.29
Consensus pattern (160 bp):
AATAATAATAATAAATATTGAAAATAAAATAGCAAATTAAAATGTAAATAAAATTAACGGAGCAA
TTTTAATATAAAAATATTAAAAATAAAAGAGCGAATTTAAAATATAAATAAAATTAACGGAGCAA
TTTGAGAATAAATATACAATAGATAATAAT
Found at i:80974675 original size:92 final size:90
Alignment explanation
Indices: 80974496--80974679 Score: 230
Period size: 92 Copynumber: 2.0 Consensus size: 90
80974486 GGAGCAATTT
*
80974496 TAATATAAAAATATTGAAAATAAAAGAGCGAATTTAAAATATAAATAAAATTAACGGAGCAATTT
1 TAATATAAAAATATTGAAAATAAAAGAGCGAAATTAAAATATAAATAAAATTAACGGAGCAATTT
* *
80974561 GTGAATAAATATACAAATAATAATAA
66 GTAAATAAAAATACAAATAATAA-AA
* * * *
80974587 TAATAATAATAAATATTGAAAATAAAATAGC-AAATTAAAATGTAAATAAAATTAACTGAGTAAT
1 TAAT-ATAA-AAATATTGAAAATAAAAGAGCGAAATTAAAATATAAATAAAATTAACGGAGCAAT
*
80974651 TT-TAATATAAAAATATTAAA-AATAAAA
64 TTGTAA-ATAAAAATA-CAAATAATAAAA
80974678 TA
1 TA
80974680 GCGAATTTAA
Statistics
Matches: 81, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
91 10 0.12
92 48 0.59
93 23 0.28
ACGTcount: A:0.60, C:0.03, G:0.08, T:0.29
Consensus pattern (90 bp):
TAATATAAAAATATTGAAAATAAAAGAGCGAAATTAAAATATAAATAAAATTAACGGAGCAATTT
GTAAATAAAAATACAAATAATAAAA
Found at i:80974717 original size:65 final size:66
Alignment explanation
Indices: 80974587--80974717 Score: 185
Period size: 65 Copynumber: 2.0 Consensus size: 66
80974577 ATAATAATAA
* * * *
80974587 TAATAATAATAAATATTGAAAATAAAATAGCAAATTAAAATGTAAATAAAATTAACTGAGTAATT
1 TAATAATAATAAATATTAAAAATAAAATAGCAAATTAAAATATAAATAAAATTAACGGAGCAATT
80974652 T
66 T
* *
80974653 TAAT-ATAA-AAATATTAAAAATAAAATAGCGAATTTAAAATATAAATAAAATTAAGGGAGCAAT
1 TAATAATAATAAATATTAAAAATAAAATAGC-AAATTAAAATATAAATAAAATTAACGGAGCAAT
80974716 TT
65 TT
80974718 GAGAATAAAT
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
64 20 0.34
65 34 0.59
66 4 0.07
ACGTcount: A:0.58, C:0.03, G:0.08, T:0.31
Consensus pattern (66 bp):
TAATAATAATAAATATTAAAAATAAAATAGCAAATTAAAATATAAATAAAATTAACGGAGCAATT
T
Found at i:80974842 original size:17 final size:17
Alignment explanation
Indices: 80974822--80974854 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
80974812 ACAAATACAA
80974822 ATATAAATAAAATAAAT
1 ATATAAATAAAATAAAT
*
80974839 ATATAAGTAAAATAAA
1 ATATAAATAAAATAAA
80974855 GTAGAAATAA
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:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (17 bp):
ATATAAATAAAATAAAT
Found at i:80978427 original size:40 final size:40
Alignment explanation
Indices: 80978320--80978502 Score: 129
Period size: 40 Copynumber: 4.6 Consensus size: 40
80978310 GTTATGAAAT
* * * **
80978320 TAGCAGGCTTCGTGCCAATGAATCTATCAACCTTAGT-GC
1 TAGCAGGCTTTGTGCCAGTGAATTTATCAGGCTTAGTGGC
** * * * * *
80978359 TTAGCAAACTTTGTGTC-GATGTAGTTATCGGGCTTTGTGGC
1 -TAGCAGGCTTTGTGCCAG-TGAATTTATCAGGCTTAGTGGC
* * *
80978400 TAGTAGGCCTTGTGCCAGTGAATTTATCAAGCTTAGT-GC
1 TAGCAGGCTTTGTGCCAGTGAATTTATCAGGCTTAGTGGC
* * * * *
80978439 TTAGCAGGCTTTATGCCAGTGTAGTTATCAGGCTTGGTGCC
1 -TAGCAGGCTTTGTGCCAGTGAATTTATCAGGCTTAGTGGC
*
80978480 TAGCAGGCTTTGTGCCGGTGAAT
1 TAGCAGGCTTTGTGCCAGTGAAT
80978503 CAAATTTTTT
Statistics
Matches: 104, Mismatches: 34, Indels: 10
0.70 0.23 0.07
Matches are distributed among these distances:
39 2 0.02
40 98 0.94
41 4 0.04
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.33
Consensus pattern (40 bp):
TAGCAGGCTTTGTGCCAGTGAATTTATCAGGCTTAGTGGC
Found at i:80978464 original size:80 final size:80
Alignment explanation
Indices: 80978320--80978503 Score: 219
Period size: 80 Copynumber: 2.3 Consensus size: 80
80978310 GTTATGAAAT
* * *
80978320 TAGCAGG-CTTCGTGCCAATGAATCTATCAACCTTAGTGCTTAGCAAACTTTGTGTCGATGTAGT
1 TAGCAGGCCTT-GTGCCAGTGAATCTATCAACCTTAGTGCTTAGCAAACTTTATGCCGATGTAGT
* * *
80978384 TATCGGGCTTTGTGGC
65 TATCAGGCTTGGTGCC
* * * **
80978400 TAGTAGGCCTTGTGCCAGTGAATTTATCAAGCTTAGTGCTTAGCAGGCTTTATGCC-AGTGTAGT
1 TAGCAGGCCTTGTGCCAGTGAATCTATCAACCTTAGTGCTTAGCAAACTTTATGCCGA-TGTAGT
80978464 TATCAGGCTTGGTGCC
65 TATCAGGCTTGGTGCC
* *
80978480 TAGCAGGCTTTGTGCCGGTGAATC
1 TAGCAGGCCTTGTGCCAGTGAATC
80978504 AAATTTTTTA
Statistics
Matches: 87, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
79 1 0.01
80 83 0.95
81 3 0.03
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (80 bp):
TAGCAGGCCTTGTGCCAGTGAATCTATCAACCTTAGTGCTTAGCAAACTTTATGCCGATGTAGTT
ATCAGGCTTGGTGCC
Found at i:80980805 original size:16 final size:15
Alignment explanation
Indices: 80980784--80980813 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
80980774 TTGTGTGTTC
80980784 TTTATTTTAATTTTTT
1 TTTATTTT-ATTTTTT
80980800 TTTATTTTATTTTT
1 TTTATTTTATTTTT
80980814 CACAAATTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTATTTTATTTTTT
Found at i:80986457 original size:39 final size:39
Alignment explanation
Indices: 80986414--80986493 Score: 133
Period size: 39 Copynumber: 2.1 Consensus size: 39
80986404 TGTGAATATA
* *
80986414 TATATATGAGAATTATATCCGGACTTCATGTCCGCAGGC
1 TATATACGAGAATTATATCCGGACTTAATGTCCGCAGGC
*
80986453 TATATGCGAGAATTATATCCGGACTTAATGTCCGCAGGC
1 TATATACGAGAATTATATCCGGACTTAATGTCCGCAGGC
80986492 TA
1 TA
80986494 CGTGCTGGAC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (39 bp):
TATATACGAGAATTATATCCGGACTTAATGTCCGCAGGC
Found at i:80994557 original size:39 final size:39
Alignment explanation
Indices: 80994514--80994593 Score: 133
Period size: 39 Copynumber: 2.1 Consensus size: 39
80994504 TGTGAATATA
*
80994514 TATATGCGAGAATTATATCCGGACTTCATGTCCACAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCACAGGC
* *
80994553 TATATGCGAGAATTATATCCGGACTTTAGGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCACAGGC
80994592 TA
1 TA
80994594 CGTGCTGGAC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.29
Consensus pattern (39 bp):
TATATGCGAGAATTATATCCGGACTTCAGGTCCACAGGC
Found at i:80997472 original size:31 final size:31
Alignment explanation
Indices: 80997437--80997499 Score: 110
Period size: 31 Copynumber: 2.0 Consensus size: 31
80997427 CAAATTGACT
80997437 ATTGAACTATTTA-AAAGTTTTTATTTAAGTC
1 ATTGAACTA-TTAGAAAGTTTTTATTTAAGTC
80997468 ATTGAACTATTAGAAAGTTTTTATTTAAGTC
1 ATTGAACTATTAGAAAGTTTTTATTTAAGTC
80997499 A
1 A
80997500 CTCATTTGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 3 0.10
31 28 0.90
ACGTcount: A:0.37, C:0.06, G:0.11, T:0.46
Consensus pattern (31 bp):
ATTGAACTATTAGAAAGTTTTTATTTAAGTC
Found at i:81001538 original size:24 final size:26
Alignment explanation
Indices: 81001506--81001560 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
81001496 TTTTTTTTTA
* *
81001506 TTTAAAAAAACTACCATATTT-TTCTT
1 TTTAAAATACCTACCAT-TTTCTTCTT
81001532 TTTAAAATACCCTACCATTTTCTTCTT
1 TTTAAAATA-CCTACCATTTTCTTCTT
81001559 TT
1 TT
81001561 CTTTCAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 11 0.44
27 14 0.56
ACGTcount: A:0.31, C:0.20, G:0.00, T:0.49
Consensus pattern (26 bp):
TTTAAAATACCTACCATTTTCTTCTT
Found at i:81004801 original size:3 final size:3
Alignment explanation
Indices: 81004793--81004822 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
81004783 CATTACTGAG
81004793 GAA GAA GAA GAA GAA GAA GAA GAA G-A GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
81004823 TTTTGGTTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:81014162 original size:25 final size:25
Alignment explanation
Indices: 81014128--81014178 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
81014118 ATTTTCACTA
81014128 TACCAGACCACCCAATAGACTTATG
1 TACCAGACCACCCAATAGACTTATG
81014153 TACCAGACCACCCAATAGACTTATG
1 TACCAGACCACCCAATAGACTTATG
81014178 T
1 T
81014179 TCAATTTTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.31, G:0.12, T:0.22
Consensus pattern (25 bp):
TACCAGACCACCCAATAGACTTATG
Found at i:81027059 original size:34 final size:34
Alignment explanation
Indices: 81027016--81027119 Score: 181
Period size: 34 Copynumber: 3.1 Consensus size: 34
81027006 CGGTCAAGCC
81027016 ACACGCCCGTGTGCTAGGCCGTATGAACATACTA
1 ACACGCCCGTGTGCTAGGCCGTATGAACATACTA
* *
81027050 ACACGCCCGTGCGCTAGGACGTATGAACATACTA
1 ACACGCCCGTGTGCTAGGCCGTATGAACATACTA
*
81027084 ACACACCCGTGTGCTAGGCCGTATGAACATACTA
1 ACACGCCCGTGTGCTAGGCCGTATGAACATACTA
81027118 AC
1 AC
81027120 TTCTAAAATT
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 65 1.00
ACGTcount: A:0.29, C:0.30, G:0.22, T:0.19
Consensus pattern (34 bp):
ACACGCCCGTGTGCTAGGCCGTATGAACATACTA
Found at i:81028129 original size:42 final size:41
Alignment explanation
Indices: 81028079--81028191 Score: 118
Period size: 42 Copynumber: 2.7 Consensus size: 41
81028069 GCTAAATAGG
* *
81028079 AACCCATAAGGGTTGAACGGAAGCTCATAAAATCTGAACAGA
1 AACCCATAAGGGTTAAACAGAAGCTCATAAAAT-TGAACAGA
* * * * *
81028121 AACTCATAAGAGTTAAACAGAAGCTCAATACAGTTGAACGGA
1 AACCCATAAGGGTTAAACAGAAGCTC-ATAAAATTGAACAGA
* * *
81028163 AACCCATTAGGGTTAAACTGAAACTCATA
1 AACCCATAAGGGTTAAACAGAAGCTCATA
81028192 TGAGTTAAAC
Statistics
Matches: 58, Mismatches: 12, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
41 3 0.05
42 50 0.86
43 5 0.09
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.19
Consensus pattern (41 bp):
AACCCATAAGGGTTAAACAGAAGCTCATAAAATTGAACAGA
Found at i:81028202 original size:21 final size:22
Alignment explanation
Indices: 81028119--81028205 Score: 83
Period size: 21 Copynumber: 4.1 Consensus size: 22
81028109 AATCTGAACA
*
81028119 GAAACTCATA-AGAGTTAAACA
1 GAAACTCATATAGAGTTAAACT
* * * *
81028140 GAAGCTCA-ATACAGTTGAACG
1 GAAACTCATATAGAGTTAAACT
* *
81028161 GAAACCCAT-TAGGGTTAAACT
1 GAAACTCATATAGAGTTAAACT
81028182 GAAACTCATAT-GAGTTAAACT
1 GAAACTCATATAGAGTTAAACT
81028203 GAA
1 GAA
81028206 GCTCGTGAGA
Statistics
Matches: 51, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
20 1 0.02
21 49 0.96
22 1 0.02
ACGTcount: A:0.44, C:0.16, G:0.18, T:0.22
Consensus pattern (22 bp):
GAAACTCATATAGAGTTAAACT
Found at i:81029353 original size:21 final size:21
Alignment explanation
Indices: 81029319--81029358 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
81029309 AATTTAGTTT
*
81029319 TTTTCTATCAAAACGTTAAAA
1 TTTTCTAACAAAACGTTAAAA
* *
81029340 TTTTCTAACGAAACTTTAA
1 TTTTCTAACAAAACGTTAA
81029359 TACTACCTTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.15, G:0.05, T:0.40
Consensus pattern (21 bp):
TTTTCTAACAAAACGTTAAAA
Found at i:81033195 original size:57 final size:57
Alignment explanation
Indices: 81033122--81033229 Score: 146
Period size: 57 Copynumber: 1.9 Consensus size: 57
81033112 GCCCACTGAT
* * *
81033122 CGATCTCGCATACATAGTGCTTGGTT-GAAGAACTCGCACACACAGTGCCTCAATTAC
1 CGATCTCGCACACATAGTGCTCGGTTAAAAGAACTCGCAC-CACAGTGCCTCAATTAC
* * *
81033179 CGATTTCGCACACATAGTGCTCGGTTAAAAGAATTTGCACCACAGTGCCTC
1 CGATCTCGCACACATAGTGCTCGGTTAAAAGAACTCGCACCACAGTGCCTC
81033230 TAATCATTCG
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
57 34 0.77
58 10 0.23
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (57 bp):
CGATCTCGCACACATAGTGCTCGGTTAAAAGAACTCGCACCACAGTGCCTCAATTAC
Found at i:81033473 original size:40 final size:40
Alignment explanation
Indices: 81033441--81033784 Score: 501
Period size: 40 Copynumber: 8.6 Consensus size: 40
81033431 CCAGCATGAT
* * * * *
81033441 TGCTCTTCAGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * * *
81033481 TGCTCTTCGAGG-TTTAGCACGGATATATTACTAGCACGAA
1 TGCTCTTCG-GGACTTAGCCCGGATACATCACTAGCACGAA
*
81033521 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
81033561 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
81033601 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * *
81033641 TGCTCTTCGGGACTTAGCCTGGATATATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
81033681 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
81033721 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
81033761 TGCTCTTTGGGACTTAGCCCGGAT
1 TGCTCTTCGGGACTTAGCCCGGAT
81033785 CATTGTCGAG
Statistics
Matches: 278, Mismatches: 24, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
39 1 0.00
40 275 0.99
41 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:81036124 original size:47 final size:47
Alignment explanation
Indices: 81036046--81036248 Score: 307
Period size: 47 Copynumber: 4.3 Consensus size: 47
81036036 CCCTTCGGGA
* * * * *
81036046 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCATTAGGC
* * * *
81036093 CCTGTCACATATATACACTTTCACATTCATCACATCGGTCATTAGGC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCATTAGGC
*
81036140 CTTATCACATATATACACTTTCACATCCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCATTAGGC
*
81036187 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCATTAGGC
81036234 CTTATCACATATATA
1 CTTATCACATATATA
81036249 TATACATTCA
Statistics
Matches: 140, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 140 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATCCATCACATCGGCCATTAGGC
Found at i:81048979 original size:5 final size:5
Alignment explanation
Indices: 81048970--81049023 Score: 63
Period size: 5 Copynumber: 10.8 Consensus size: 5
81048960 TTAAGAATGT
* * * * *
81048970 TATTA AATTA TATTA TATTA TATTA AATTA TATTT TATTT TATTA AATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
81049020 TATT
1 TATT
81049024 TAATAATAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
5 41 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:81048989 original size:10 final size:10
Alignment explanation
Indices: 81048970--81049023 Score: 72
Period size: 10 Copynumber: 5.4 Consensus size: 10
81048960 TTAAGAATGT
81048970 TATTAAATTA
1 TATTAAATTA
*
81048980 TATTATATTA
1 TATTAAATTA
81048990 TATTAAATTA
1 TATTAAATTA
** *
81049000 TATTTTATTT
1 TATTAAATTA
81049010 TATTAAATTA
1 TATTAAATTA
81049020 TATT
1 TATT
81049024 TAATAATAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
10 36 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
TATTAAATTA
Done.