Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032250.1 Gossypioides kirkii chromosome KI_08
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: 39602670
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 500 characters in sequence are not A, C, G, or T
File 46 of 125
Found at i:14304139 original size:56 final size:56
Alignment explanation
Indices: 14304052--14304447 Score: 591
Period size: 56 Copynumber: 7.1 Consensus size: 56
14304042 AATATTTTTA
* * *
14304052 AACCTTTACGTTGATATCCTTTCGGATATCCCTTTTCATAATATCCTTACAGATAT
1 AACCTTTACATTGATATCCTTTCGGACATCCCTTTTCATAATATCCTTACGGATAT
*
14304108 AACCTTTATATTGATATCCTTTCGGACATCCCTTTTCATAATATCCTTACGGATAT
1 AACCTTTACATTGATATCCTTTCGGACATCCCTTTTCATAATATCCTTACGGATAT
* **
14304164 AACCATTACATTGATATCCTTTTAGACATCCCTTTTCATAATATCCTTACGGATAT
1 AACCTTTACATTGATATCCTTTCGGACATCCCTTTTCATAATATCCTTACGGATAT
* * *
14304220 AACCTTTACATTGATATCCTTTAGGAAATCCCTTTACATAATATCCTTACGGATAT
1 AACCTTTACATTGATATCCTTTCGGACATCCCTTTTCATAATATCCTTACGGATAT
** *
14304276 AACCTTTACA-AAATATCCTTCCGGACATCCCTTTTCATAATATCCTTACGGATAT
1 AACCTTTACATTGATATCCTTTCGGACATCCCTTTTCATAATATCCTTACGGATAT
** * *
14304331 AACCTTTACA-AAATATCCTTCCGGACATCCCTTTTCATAATATCCTTACGAATAT
1 AACCTTTACATTGATATCCTTTCGGACATCCCTTTTCATAATATCCTTACGGATAT
* **
14304386 AACATTTACA-AAATATCCTTTCGGACATCCCTTTTCATAATATCCTTACGGATAT
1 AACCTTTACATTGATATCCTTTCGGACATCCCTTTTCATAATATCCTTACGGATAT
14304441 AACCTTT
1 AACCTTT
14304448 GCAAAAAATC
Statistics
Matches: 316, Mismatches: 24, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
55 151 0.48
56 165 0.52
ACGTcount: A:0.30, C:0.24, G:0.08, T:0.38
Consensus pattern (56 bp):
AACCTTTACATTGATATCCTTTCGGACATCCCTTTTCATAATATCCTTACGGATAT
Found at i:14304317 original size:55 final size:55
Alignment explanation
Indices: 14304065--14304465 Score: 577
Period size: 55 Copynumber: 7.2 Consensus size: 55
14304055 CTTTACGTTG
* * * **
14304065 ATATCCTTTCGGATATCCCTTTTCATAATATCCTTACAGATATAACCTTTATATTG
1 ATATCCTTTCGGACATCCCTTTTCATAATATCCTTACGGATATAACCTTTACA-AA
* **
14304121 ATATCCTTTCGGACATCCCTTTTCATAATATCCTTACGGATATAACCATTACATTG
1 ATATCCTTTCGGACATCCCTTTTCATAATATCCTTACGGATATAACCTTTACA-AA
** **
14304177 ATATCCTTTTAGACATCCCTTTTCATAATATCCTTACGGATATAACCTTTACATTG
1 ATATCCTTTCGGACATCCCTTTTCATAATATCCTTACGGATATAACCTTTACA-AA
* * *
14304233 ATATCCTTTAGGAAATCCCTTTACATAATATCCTTACGGATATAACCTTTACAAA
1 ATATCCTTTCGGACATCCCTTTTCATAATATCCTTACGGATATAACCTTTACAAA
*
14304288 ATATCCTTCCGGACATCCCTTTTCATAATATCCTTACGGATATAACCTTTACAAA
1 ATATCCTTTCGGACATCCCTTTTCATAATATCCTTACGGATATAACCTTTACAAA
* * *
14304343 ATATCCTTCCGGACATCCCTTTTCATAATATCCTTACGAATATAACATTTACAAA
1 ATATCCTTTCGGACATCCCTTTTCATAATATCCTTACGGATATAACCTTTACAAA
*
14304398 ATATCCTTTCGGACATCCCTTTTCATAATATCCTTACGGATATAACCTTTGCAAA
1 ATATCCTTTCGGACATCCCTTTTCATAATATCCTTACGGATATAACCTTTACAAA
* *
14304453 AAATCCTTGCGGA
1 ATATCCTTTCGGA
14304466 TATAAAGAAA
Statistics
Matches: 320, Mismatches: 25, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
55 166 0.52
56 154 0.48
ACGTcount: A:0.31, C:0.24, G:0.08, T:0.37
Consensus pattern (55 bp):
ATATCCTTTCGGACATCCCTTTTCATAATATCCTTACGGATATAACCTTTACAAA
Found at i:14305958 original size:21 final size:21
Alignment explanation
Indices: 14305934--14305988 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
14305924 TTGTGCTAGC
*
14305934 TCTACTGATACAAGT-ATGATT
1 TCTACTGATACAAGTCATG-TA
*
14305955 TCTACCGATACAAGTCATGTA
1 TCTACTGATACAAGTCATGTA
14305976 TCTACTGATACAA
1 TCTACTGATACAA
14305989 TAAACTCCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
21 27 0.90
22 3 0.10
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.33
Consensus pattern (21 bp):
TCTACTGATACAAGTCATGTA
Found at i:14309046 original size:19 final size:20
Alignment explanation
Indices: 14309007--14309046 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
14308997 GGTAGAATTG
*
14309007 TTATTCTTAGAAAATTAAAT
1 TTATACTTAGAAAATTAAAT
14309027 TTATACTTAGAAAA-TAAAT
1 TTATACTTAGAAAATTAAAT
14309046 T
1 T
14309047 CTAAATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (20 bp):
TTATACTTAGAAAATTAAAT
Found at i:14312259 original size:25 final size:25
Alignment explanation
Indices: 14312230--14312310 Score: 110
Period size: 25 Copynumber: 3.2 Consensus size: 25
14312220 AGACGATAAA
*
14312230 GATATTTTGTCTGGCTCGAAAAAGT
1 GATATTTTGTCTGGCTCGAAAAAGC
*
14312255 GATATTTTGTCTGGCTCGAAAGAGC
1 GATATTTTGTCTGGCTCGAAAAAGC
**
14312280 GATATACTGTCTGGCTCGAAAGAA-C
1 GATATTTTGTCTGGCTCGAAA-AAGC
14312305 GATATT
1 GATATT
14312311 CTAAATTTTG
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
25 48 0.98
26 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (25 bp):
GATATTTTGTCTGGCTCGAAAAAGC
Found at i:14312380 original size:26 final size:26
Alignment explanation
Indices: 14312320--14312383 Score: 85
Period size: 25 Copynumber: 2.5 Consensus size: 26
14312310 TCTAAATTTT
* * * *
14312320 GGCTCATAAGAACGATACTCTGTCTA
1 GGCTCGTAAGAGCGAAAATCTGTCTA
14312346 -GCTCGTAAGAGCGAAAATCTGTCTA
1 GGCTCGTAAGAGCGAAAATCTGTCTA
14312371 GGCTCGTAAGAGC
1 GGCTCGTAAGAGC
14312384 TAAACTCTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 21 0.64
26 12 0.36
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.23
Consensus pattern (26 bp):
GGCTCGTAAGAGCGAAAATCTGTCTA
Found at i:14315677 original size:34 final size:33
Alignment explanation
Indices: 14315639--14315710 Score: 90
Period size: 34 Copynumber: 2.2 Consensus size: 33
14315629 TAGATTAATT
* ** *
14315639 CATATTTTATGTGTCATTATGTTAAATTATGTTA
1 CATATTTCATGTACCATTATATTAAATTAT-TTA
14315673 CATATTTCATGTACCATTATATTAAATTATTTA
1 CATATTTCATGTACCATTATATTAAATTATTTA
*
14315706 AATAT
1 CATAT
14315711 AATCTATCTT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
33 7 0.21
34 26 0.79
ACGTcount: A:0.35, C:0.08, G:0.07, T:0.50
Consensus pattern (33 bp):
CATATTTCATGTACCATTATATTAAATTATTTA
Found at i:14322122 original size:20 final size:20
Alignment explanation
Indices: 14322092--14322156 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 20
14322082 TTGCAAAGTT
14322092 TTTTGAAATTATGTAAATATA
1 TTTT-AAATTATGTAAATATA
14322113 TTTTAAATTAAT-T-AA-A-A
1 TTTTAAATT-ATGTAAATATA
*
14322130 --GTAAATTATGTAAATATA
1 TTTTAAATTATGTAAATATA
14322148 TTTTAAATT
1 TTTTAAATT
14322157 TAAAATTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 15
0.67 0.04 0.29
Matches are distributed among these distances:
14 2 0.06
15 7 0.20
16 2 0.06
17 2 0.06
18 2 0.06
19 2 0.06
20 12 0.34
21 6 0.17
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (20 bp):
TTTTAAATTATGTAAATATA
Found at i:14322171 original size:35 final size:36
Alignment explanation
Indices: 14322092--14322168 Score: 99
Period size: 35 Copynumber: 2.2 Consensus size: 36
14322082 TTGCAAAGTT
14322092 TTTTGAAATTATGTAAATATATTTTAAATTAATTAAAA
1 TTTT-AAATTATGTAAATATATTTTAAATT-ATTAAAA
*
14322130 --GTAAATTATGTAAATATATTTTAAA-T-TTAAAA
1 TTTTAAATTATGTAAATATATTTTAAATTATTAAAA
14322162 TTTTAAA
1 TTTTAAA
14322169 ATTGAGGAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
32 6 0.17
34 5 0.14
35 23 0.66
36 1 0.03
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.47
Consensus pattern (36 bp):
TTTTAAATTATGTAAATATATTTTAAATTATTAAAA
Found at i:14323224 original size:17 final size:17
Alignment explanation
Indices: 14323173--14323267 Score: 127
Period size: 18 Copynumber: 5.4 Consensus size: 17
14323163 TTAAACCCAT
*
14323173 TTTAAATTTATTTTATGA
1 TTTAAATTTATTTTA-AA
14323191 TTTAAATTTATTTTTAAA
1 TTTAAATTTA-TTTTAAA
*
14323209 TTTAAATTTGTTTTAAAA
1 TTTAAATTTATTTT-AAA
*
14323227 TTTAAATTTAATTTAAA
1 TTTAAATTTATTTTAAA
*
14323244 TTTAAAATTATTTTAAA
1 TTTAAATTTATTTTAAA
14323261 TTTAAAT
1 TTTAAAT
14323268 AAATAAAAGT
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
17 28 0.41
18 35 0.51
19 5 0.07
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:14323241 original size:5 final size:6
Alignment explanation
Indices: 14323190--14323267 Score: 72
Period size: 6 Copynumber: 13.3 Consensus size: 6
14323180 TTATTTTATG
* * * *
14323190 ATTTAA ATTTAT TTTTAA ATTTAA ATTT-G TTTTAAA ATTTAA ATTT-A
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTT-AA ATTTAA ATTTAA
* *
14323237 ATTTAA ATTTAA AATT-A TTTTAA ATTTAA AT
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA AT
14323268 AAATAAAAGT
Statistics
Matches: 56, Mismatches: 12, Indels: 8
0.74 0.16 0.11
Matches are distributed among these distances:
5 11 0.20
6 42 0.75
7 3 0.05
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (6 bp):
ATTTAA
Found at i:14325030 original size:30 final size:30
Alignment explanation
Indices: 14324987--14325383 Score: 149
Period size: 30 Copynumber: 13.4 Consensus size: 30
14324977 AAAATTGTCC
* * *
14324987 AAAAATCATATTTTAACCCCCTAACTTCT-T
1 AAAAATTACATTTTAA-CCCCAAACTTCTCT
* *
14325017 AAAAATTACATTTTAACCCTTAAA-TTTTCT
1 AAAAATTACATTTTAACCC-CAAACTTCTCT
* *
14325047 AAAAATCATATTTTAACCCTCAAAC-T-TCT
1 AAAAATTACATTTTAACCC-CAAACTTCTCT
* * *
14325076 AAAAATTCCAATTTTGACCCCAAACTT-TCC
1 AAAAATTAC-ATTTTAACCCCAAACTTCTCT
* *
14325106 AAAAATTACCATTTT-ACCCTTAAA-TT-TCC
1 AAAAATTA-CATTTTAACCC-CAAACTTCTCT
* * * *
14325135 AAAAATTCCATTTTTAACCTCGAACTT-TCC
1 AAAAATTACA-TTTTAACCCCAAACTTCTCT
*
14325165 AAAAATT-CTATTTTTGAA-CCCAAACTTTTC-
1 AAAAATTAC-A-TTTT-AACCCCAAACTTCTCT
* *
14325195 AAAAATTACCATTTT-ACCCTCGAA-TT-TCC
1 AAAAATTA-CATTTTAACCC-CAAACTTCTCT
* * *
14325224 AAAAATTCCATTTTTAACCCCGAA-TTCTCC
1 AAAAATTACA-TTTTAACCCCAAACTTCTCT
*
14325254 AAAAATTACCATTTT-ACCCCTAAA-TT-TCC
1 AAAAATTA-CATTTTAACCCC-AAACTTCTCT
* * ** *
14325283 AAAAATTCCATTTTTAATCCTGAACTT-TCC
1 AAAAATTACA-TTTTAACCCCAAACTTCTCT
* * * *
14325313 AAAAATTGACATTTTATCCTCGAA-TTC-CC
1 AAAAATT-ACATTTTAACCCCAAACTTCTCT
* **
14325342 AAAAATTCCATTTTAACCCTGAAC--CTCT
1 AAAAATTACATTTTAACCCCAAACTTCTCT
14325370 AAAAATTACTATTT
1 AAAAATTAC-ATTT
14325384 CCCCCTAAGT
Statistics
Matches: 296, Mismatches: 40, Indels: 63
0.74 0.10 0.16
Matches are distributed among these distances:
27 1 0.00
28 30 0.10
29 100 0.34
30 154 0.52
31 10 0.03
32 1 0.00
ACGTcount: A:0.37, C:0.25, G:0.02, T:0.36
Consensus pattern (30 bp):
AAAAATTACATTTTAACCCCAAACTTCTCT
Found at i:14325125 original size:59 final size:57
Alignment explanation
Indices: 14324978--14325383 Score: 271
Period size: 59 Copynumber: 6.9 Consensus size: 57
14324968 GAAGGTCCCA
* * * *
14324978 AAATTGTCCAAAAA-TCATATTTTAACCCCCTAACTTCTTAAAAATTA-CATTTTAACCCTT
1 AAATT-TCCAAAAATTC-CATTTTAA-CCCCAAACTTCTCAAAAATTACCATTTT-ACCC-C
* *
14325038 AAATTTTCTAAAAA-TCATATTTTAACCCTCAAACTTCT-AAAAATT-CCAATTTTGACCCC
1 AAA-TTTCCAAAAATTC-CATTTTAACCC-CAAACTTCTCAAAAATTACC-ATTTT-ACCCC
* * *
14325097 AAACTTTCCAAAAATTACCATTTT-ACCCTTAAATTTC-CAAAAATT-CCATTTTTAACCTCG
1 AAA-TTTCCAAAAATT-CCATTTTAACCC-CAAACTTCTCAAAAATTACCA-TTTT-ACC-CC
* * *
14325157 AACTTTCCAAAAATTCTATTTTTGAA-CCCAAACTTTTCAAAAATTACCATTTTACCCTC
1 AAATTTCCAAAAATTCCA-TTTT-AACCCCAAACTTCTCAAAAATTACCATTTTACCC-C
* *
14325216 GAATTTCCAAAAATTCCATTTTTAACCCCGAA-TTCTCCAAAAATTACCATTTTACCCC
1 AAATTTCCAAAAATTCCA-TTTTAACCCCAAACTTCT-CAAAAATTACCATTTTACCCC
* ** *
14325274 TAAATTTCCAAAAATTCCATTTTTAATCCTGAACTT-TCCAAAAATTGA-CATTTTATCCTC
1 -AAATTTCCAAAAATTCCA-TTTTAACCCCAAACTTCT-CAAAAATT-ACCATTTTA-CCCC
* * ** * *
14325334 GAATTCCCAAAAATTCCATTTTAACCCTGAACCTCT-AAAAATTACTATTT
1 AAATTTCCAAAAATTCCATTTTAACCCCAAACTTCTCAAAAATTACCATTT
14325384 CCCCCTAAGT
Statistics
Matches: 292, Mismatches: 31, Indels: 49
0.78 0.08 0.13
Matches are distributed among these distances:
56 1 0.00
57 11 0.04
58 24 0.08
59 182 0.62
60 67 0.23
61 7 0.02
ACGTcount: A:0.37, C:0.25, G:0.02, T:0.36
Consensus pattern (57 bp):
AAATTTCCAAAAATTCCATTTTAACCCCAAACTTCTCAAAAATTACCATTTTACCCC
Found at i:14325150 original size:89 final size:90
Alignment explanation
Indices: 14325017--14325360 Score: 342
Period size: 89 Copynumber: 3.9 Consensus size: 90
14325007 CTAACTTCTT
* *
14325017 AAAAATTA-CATTTTAACCCTTAAATTTTCTAAAAA-T-CATATTTTAACCCTCAAACTTCTAAA
1 AAAAATTACCATTTTAACCCTTAAA-TTTCCAAAAATTCCAT-TTTTAACCCTCGAACTTCTAAA
14325079 AATTCCAATTTTGACCCCAAACTTTCC
64 AATTCCAATTTTGACCCCAAACTTTCC
*
14325106 AAAAATTACCATTTT-ACCCTTAAATTTCCAAAAATTCCATTTTTAA-CCTCGAACTTTCCAAAA
1 AAAAATTACCATTTTAACCCTTAAATTTCCAAAAATTCCATTTTTAACCCTCGAAC-TTCTAAAA
* * * *
14325169 ATTCTATTTTTGAACCCAAACTTTTC
65 ATTCCAATTTTGACCCCAAACTTTCC
**
14325195 AAAAATTACCATTTT-ACCCTCGAATTTCCAAAAATTCCATTTTTAACCC-CGAA-TTCTCCAAA
1 AAAAATTACCATTTTAACCCTTAAATTTCCAAAAATTCCATTTTTAACCCTCGAACTTCT--AAA
14325257 AATTACC-ATTTT-ACCCCTAAA-TTTCC
64 AATT-CCAATTTTGACCCC-AAACTTTCC
* * * * * *
14325283 AAAAATT-CCATTTTTAATCCTGAACTTTCCAAAAATTGACA-TTTT-ATCCTCGAA-TTCCCAA
1 AAAAATTACCA-TTTTAACCCTTAAATTTCCAAAAATT-CCATTTTTAACCCTCGAACTT-CTAA
*
14325344 AAATTCC-ATTTTAACCC
63 AAATTCCAATTTTGACCC
14325361 TGAACCTCTA
Statistics
Matches: 219, Mismatches: 21, Indels: 31
0.81 0.08 0.11
Matches are distributed among these distances:
87 13 0.06
88 49 0.22
89 142 0.65
90 15 0.07
ACGTcount: A:0.37, C:0.25, G:0.02, T:0.36
Consensus pattern (90 bp):
AAAAATTACCATTTTAACCCTTAAATTTCCAAAAATTCCATTTTTAACCCTCGAACTTCTAAAAA
TTCCAATTTTGACCCCAAACTTTCC
Found at i:14337897 original size:209 final size:209
Alignment explanation
Indices: 14337534--14338210 Score: 923
Period size: 207 Copynumber: 3.2 Consensus size: 209
14337524 AAAAATGAGA
* * * * * *
14337534 CGGTCATCTTCCTGATGAGATACAGAGAAGTATACCAAATCAATGAAACAAGGCTCAAAGAGAGC
1 CGGTCATCTTCTTGATAAGATACTGAGAAGTAGACCAAATCAATGAAACCAGGCTCAAAGTGAGC
* **
14337599 AAATCTTCGAACCCCAACTTCCTGATGAGATACTGAGAAGCAAATCGAAGCAATAAA-ATGGTTA
66 AAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAGA-GGTTA
*
14337663 GCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGA
130 GCTTCCTGATGAGATACTGAGAAGTGAACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGA
*
14337728 TTGAAACTAGTGATG
195 TTGAAACAAGTGATG
* *
14337743 CGATCATCTTCTTGATAAGATACTGAGAAGTAGACCAAATCAATGAAACCAGGCTCGAAGTGAGC
1 CGGTCATCTTCTTGATAAGATACTGAGAAGTAGACCAAATCAATGAAACCAGGCTCAAAGTGAGC
* * *
14337808 AAATCTTCGAACCCCAGCTTCCTAATGAGATACTGAGAAGTAGGTCGAAGCAATAAAGCGGTTAG
66 AAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAGAGGTTAG
*
14337873 CTTCCAT-ATGAGATACTGAGAAGTGAACCAAATTCGTCTTCCTGATGAAATAC--AGAAGCGGA
131 CTTCC-TGATGAGATACTGAGAAGTGAACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGA
14337935 TTGAAACAAGTGATG
195 TTGAAACAAGTGATG
* * * *
14337950 CGGTCATCTTCTTGATAAGATACTGAGAAATAGACCAAATTAATGAAATCAGGCTCAAAGTGATC
1 CGGTCATCTTCTTGATAAGATACTGAGAAGTAGACCAAATCAATGAAACCAGGCTCAAAGTGAGC
* * * * * *
14338015 AAATATTCGAACCTCAGCTTCCTGATGAAATACTGAGAAGCAGGTCGAAGTAATAAAGAGGGTAC
66 AAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAGAGGTTAG
* * * ** * *
14338080 CTTCCTGATGAGATACAGAGAAGTGAACCAGATCCGTCTTTTTGATGAGACACAGAGAAGTGGAT
131 CTTCCTGATGAGATACTGAGAAGTGAACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGAT
**
14338145 CAAAAACAAGTGATG
196 -TGAAACAAGTGATG
* * * *
14338160 CGGTCATCTTCCTT-ATGAGATACCGAGAAGTAGACCAAATCGATGACACCA
1 CGGTCATCTT-CTTGATAAGATACTGAGAAGTAGACCAAATCAATGAAACCA
14338211 AACCACTGAA
Statistics
Matches: 412, Mismatches: 49, Indels: 13
0.87 0.10 0.03
Matches are distributed among these distances:
206 1 0.00
207 182 0.44
209 173 0.42
210 53 0.13
211 3 0.01
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.23
Consensus pattern (209 bp):
CGGTCATCTTCTTGATAAGATACTGAGAAGTAGACCAAATCAATGAAACCAGGCTCAAAGTGAGC
AAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAGAGGTTAG
CTTCCTGATGAGATACTGAGAAGTGAACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGAT
TGAAACAAGTGATG
Found at i:14338774 original size:29 final size:28
Alignment explanation
Indices: 14338728--14338973 Score: 237
Period size: 29 Copynumber: 8.4 Consensus size: 28
14338718 CCCGAACTTT
**
14338728 AAAATTCCATTTTGA-CCCTAAACTTTTTA
1 AAAATTCCATTTT-ACCCCTAAA-TTTCCA
14338757 AAAATTACCATTTTACCCCTAAATTTCCA
1 AAAATT-CCATTTTACCCCTAAATTTCCA
*
14338786 AAAATTCCATTTTTACCCCTAAACTTT-TA
1 AAAATTCCA-TTTTACCCCTAAA-TTTCCA
* *
14338815 AAAATTACCATTTTACCCCTGAATTTCAAA
1 AAAATT-CCATTTTACCCCTAAATTTC-CA
** *
14338845 AAAATTCCATTTTGACATC-GAATTCTCCA
1 AAAATTCCATTTT-ACCCCTAAATT-TCCA
*
14338874 AAAATTACCATTTTACCCCTAAATTTCTA
1 AAAATT-CCATTTTACCCCTAAATTTCCA
*
14338903 AAAATTCCATTTTTAACCCTAAACTTTCCA
1 AAAATTCCA-TTTTACCCCTAAA-TTTCCA
** *
14338933 AAAATTACCATTTTACCCCCGAATGTCCA
1 AAAATT-CCATTTTACCCCTAAATTTCCA
14338962 AAAATTCCATTT
1 AAAATTCCATTT
14338974 ATAAGCCCAA
Statistics
Matches: 185, Mismatches: 18, Indels: 29
0.80 0.08 0.12
Matches are distributed among these distances:
28 15 0.08
29 103 0.56
30 64 0.35
31 3 0.02
ACGTcount: A:0.37, C:0.25, G:0.02, T:0.36
Consensus pattern (28 bp):
AAAATTCCATTTTACCCCTAAATTTCCA
Found at i:14338850 original size:59 final size:58
Alignment explanation
Indices: 14338728--14339009 Score: 313
Period size: 59 Copynumber: 4.8 Consensus size: 58
14338718 CCCGAACTTT
*
14338728 AAAATTCCATTTTGA-CCCTAAACTTTTTAAAAATTACCATTTTACCCCTAAATTTCCA
1 AAAATTCCATTTTGACCCCTAAAC-TTTCAAAAATTACCATTTTACCCCTAAATTTCCA
* * * *
14338786 AAAATTCCATTTTTACCCCTAAACTTTTAAAAATTACCATTTTACCCCTGAATTTCAAA
1 AAAATTCCATTTTGACCCCTAAACTTTCAAAAATTACCATTTTACCCCTAAATTTC-CA
** * *
14338845 AAAATTCCATTTTGACATC-GAA-TTCTCCAAAAATTACCATTTTACCCCTAAATTTCTA
1 AAAATTCCATTTTGACCCCTAAACTT-T-CAAAAATTACCATTTTACCCCTAAATTTCCA
* * ** *
14338903 AAAATTCCATTTTTAACCCTAAACTTTCCAAAAATTACCATTTTACCCCCGAATGTCCA
1 AAAATTCCATTTTGACCCCTAAACTTT-CAAAAATTACCATTTTACCCCTAAATTTCCA
* * *
14338962 AAAATTCCATTTATAAGCCC-AAAGC-TTCAAAAATTACTATTTTACCCC
1 AAAATTCCATTT-TGACCCCTAAA-CTTTCAAAAATTACCATTTTACCCC
14339010 CAAAGTGTCT
Statistics
Matches: 194, Mismatches: 22, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
57 2 0.01
58 84 0.43
59 100 0.52
60 8 0.04
ACGTcount: A:0.37, C:0.25, G:0.03, T:0.35
Consensus pattern (58 bp):
AAAATTCCATTTTGACCCCTAAACTTTCAAAAATTACCATTTTACCCCTAAATTTCCA
Found at i:14338855 original size:117 final size:117
Alignment explanation
Indices: 14338756--14338973 Score: 357
Period size: 117 Copynumber: 1.9 Consensus size: 117
14338746 TAAACTTTTT
* *
14338756 AAAAATTACCATTTTACCCCTAAATTTCCAAAAATTCCATTTTTACCCCTAAACTTT-TAAAAAT
1 AAAAATTACCATTTTACCCCTAAATTTCCAAAAATTCCATTTTTAACCCTAAACTTTCCAAAAAT
* * *
14338820 TACCATTTTACCCCTGAATTTCAAAAAAATTCCATTTTGACATCGAATTCTCC
66 TACCATTTTACCCCCGAATGTC-AAAAAATTCCATTTTGACATCAAATTCTCC
*
14338873 AAAAATTACCATTTTACCCCTAAATTTCTAAAAATTCCATTTTTAACCCTAAACTTTCCAAAAAT
1 AAAAATTACCATTTTACCCCTAAATTTCCAAAAATTCCATTTTTAACCCTAAACTTTCCAAAAAT
*
14338938 TACCATTTTACCCCCGAATGTCCAAAAATTCCATTT
66 TACCATTTTACCCCCGAATGTCAAAAAATTCCATTT
14338974 ATAAGCCCAA
Statistics
Matches: 94, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
117 68 0.72
118 26 0.28
ACGTcount: A:0.37, C:0.25, G:0.02, T:0.35
Consensus pattern (117 bp):
AAAAATTACCATTTTACCCCTAAATTTCCAAAAATTCCATTTTTAACCCTAAACTTTCCAAAAAT
TACCATTTTACCCCCGAATGTCAAAAAATTCCATTTTGACATCAAATTCTCC
Found at i:14338875 original size:88 final size:88
Alignment explanation
Indices: 14338695--14339009 Score: 282
Period size: 88 Copynumber: 3.6 Consensus size: 88
14338685 ACCCTTGAAT
**
14338695 TTTCCAAAAA-T-CATATTTTGACCCCCGAAC-TTT-AAAATT-CCATTTTGA-CCCTAAACTTT
1 TTTCCAAAAATTCCAT-TTTT-ACCCCTAAACTTTTAAAAATTACCATTTT-ACCCCTAAACTTT
** *
14338754 TTAAAAATTACCATTTTACC-CCTAAA
63 CAAAAAATTACCATTTTACCACC-GAA
*
14338780 TTTCCAAAAATTCCATTTTTACCCCTAAACTTTTAAAAATTACCATTTTACCCCTGAA-TTTCAA
1 TTTCCAAAAATTCCATTTTTACCCCTAAACTTTTAAAAATTACCATTTTACCCCTAAACTTTC-A
*
14338844 AAAAATT-CCATTTTGA-CATCGAA
65 AAAAATTACCATTTT-ACCACCGAA
*
14338867 TTCTCCAAAAATTACCA-TTTTACCCCTAAA-TTTCTAAAAATT-CCATTTTTAACCCTAAACTT
1 TT-TCCAAAAATT-CCATTTTTACCCCTAAACTTT-TAAAAATTACCA-TTTTACCCCTAAACTT
* *
14338929 TCCAAAAATTACCATTTTACCCCCGAA
62 TCAAAAAATTACCATTTTACCACCGAA
* * * * *
14338956 TGTCCAAAAATTCCATTTATAAGCCC-AAAGC-TTCAAAAATTACTATTTTACCCC
1 TTTCCAAAAATTCCATTT-TTACCCCTAAA-CTTTTAAAAATTACCATTTTACCCC
14339010 CAAAGTGTCT
Statistics
Matches: 191, Mismatches: 18, Indels: 39
0.77 0.07 0.16
Matches are distributed among these distances:
85 18 0.09
86 8 0.04
87 34 0.18
88 102 0.53
89 29 0.15
ACGTcount: A:0.36, C:0.25, G:0.03, T:0.35
Consensus pattern (88 bp):
TTTCCAAAAATTCCATTTTTACCCCTAAACTTTTAAAAATTACCATTTTACCCCTAAACTTTCAA
AAAATTACCATTTTACCACCGAA
Found at i:14338993 original size:117 final size:117
Alignment explanation
Indices: 14338756--14339023 Score: 353
Period size: 117 Copynumber: 2.3 Consensus size: 117
14338746 TAAACTTTTT
* * *
14338756 AAAAATTACCATTTTACCCCTAAATTTCCAAAAATTCCATTTTTACCCCTAAACTTTTAAAAATT
1 AAAAATTACCATTTTACCCCTAAATTTCTAAAAATTCCATTTTTAACCCTAAACTTTCAAAAATT
* * * * **
14338821 ACCATTTTACCCCTGAATTTCAAAAAAATTCCATTTTGACATCGAATTCTCC
66 ACCATTTTACCCCCGAATGTCAAAAAAATTCCATTTTGACACCCAAAGCTCC
14338873 AAAAATTACCATTTTACCCCTAAATTTCTAAAAATTCCATTTTTAACCCTAAACTTTCCAAAAAT
1 AAAAATTACCATTTTACCCCTAAATTTCTAAAAATTCCATTTTTAACCCTAAACTTT-CAAAAAT
* *
14338938 TACCATTTTACCCCCGAATGTC-CAAAAATTCCATTTAT-A-AGCCCAAAGCTTC
65 TACCATTTTACCCCCGAATGTCAAAAAAATTCCATTT-TGACA-CCCAAAGCTCC
* * *
14338990 AAAAATTACTATTTTACCCCCAAAGTGTCTAAAA
1 AAAAATTACCATTTTACCCCTAAA-TTTCTAAAA
14339024 TTACCGTTTT
Statistics
Matches: 133, Mismatches: 14, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
116 1 0.01
117 97 0.73
118 35 0.26
ACGTcount: A:0.38, C:0.25, G:0.03, T:0.34
Consensus pattern (117 bp):
AAAAATTACCATTTTACCCCTAAATTTCTAAAAATTCCATTTTTAACCCTAAACTTTCAAAAATT
ACCATTTTACCCCCGAATGTCAAAAAAATTCCATTTTGACACCCAAAGCTCC
Found at i:14339011 original size:29 final size:28
Alignment explanation
Indices: 14338756--14339033 Score: 161
Period size: 29 Copynumber: 9.5 Consensus size: 28
14338746 TAAACTTTTT
* *
14338756 AAAAATTACCATTTTACCCCTAAATTTCC
1 AAAAATTACCATTTTACCCCCAAAGTT-C
* * *
14338785 AAAAATT-CCATTTTTACCCCTAAACTTTT
1 AAAAATTACCA-TTTTACCCCCAAA-GTTC
** *
14338814 AAAAATTACCATTTTACCCCTGAATTTC
1 AAAAATTACCATTTTACCCCCAAAGTTC
** * *
14338842 AAAAAAATT-CCATTTTGA-CATCGAATTCTCC
1 --AAAAATTACCATTTT-ACCCCCAAAGT-T-C
* *
14338873 AAAAATTACCATTTTACCCCTAAATTTC
1 AAAAATTACCATTTTACCCCCAAAGTTC
* * *
14338901 TAAAAATT-CCATTTTTAACCCTAAACTTTCC
1 -AAAAATTACCA-TTTTACCCCCAAA-GTT-C
* *
14338932 AAAAATTACCATTTTACCCCCGAATGTCC
1 AAAAATTACCATTTTACCCCC-AAAGTTC
**
14338961 AAAAATT-CCATTTATAAGCCCAAAGCTTC
1 AAAAATTACCATTT-TACCCCCAAAG-TTC
*
14338990 AAAAATTACTATTTTACCCCCAAAGTGTC
1 AAAAATTACCATTTTACCCCCAAAGT-TC
* *
14339019 TAAAATTACCGTTTT
1 AAAAATTACCATTTT
14339034 GCCCTCGGGT
Statistics
Matches: 203, Mismatches: 26, Indels: 40
0.75 0.10 0.15
Matches are distributed among these distances:
28 20 0.10
29 125 0.62
30 51 0.25
31 7 0.03
ACGTcount: A:0.37, C:0.25, G:0.04, T:0.35
Consensus pattern (28 bp):
AAAAATTACCATTTTACCCCCAAAGTTC
Found at i:14343145 original size:16 final size:16
Alignment explanation
Indices: 14343124--14343188 Score: 51
Period size: 16 Copynumber: 3.8 Consensus size: 16
14343114 TCTAAAACGT
*
14343124 TAGGCTTTGTGCCTAG
1 TAGGCTTCGTGCCTAG
14343140 TAGGCTTCGTGCCGGT-G
1 TAGGCTTCGTGCC--TAG
*
14343157 TTTTCAGGCTTTGTGCCTAG
1 ---T-AGGCTTCGTGCCTAG
14343177 TAGGCTTCGTGC
1 TAGGCTTCGTGC
14343189 TGATGTTTTC
Statistics
Matches: 39, Mismatches: 3, Indels: 14
0.70 0.05 0.25
Matches are distributed among these distances:
16 22 0.56
17 2 0.05
18 1 0.03
19 1 0.03
20 2 0.05
21 11 0.28
ACGTcount: A:0.09, C:0.22, G:0.32, T:0.37
Consensus pattern (16 bp):
TAGGCTTCGTGCCTAG
Found at i:14343167 original size:21 final size:21
Alignment explanation
Indices: 14343141--14343252 Score: 61
Period size: 21 Copynumber: 5.8 Consensus size: 21
14343131 TGTGCCTAGT
14343141 AGGCTTCGTGCCGGTGTTTTC
1 AGGCTTCGTGCCGGTGTTTTC
*
14343162 AGGCTTTGTGCC--TAG---T-
1 AGGCTTCGTGCCGGT-GTTTTC
* *
14343178 AGGCTTCGTGCTGATGTTTTC
1 AGGCTTCGTGCCGGTGTTTTC
14343199 AGGCTAT-GTGCC--TAG---T-
1 AGGCT-TCGTGCCGGT-GTTTTC
14343215 AGGCTTCGTGCCGGTGTTTTC
1 AGGCTTCGTGCCGGTGTTTTC
* *
14343236 AGGCTTTGTCCCGGTGT
1 AGGCTTCGTGCCGGTGT
14343253 ATTCGAGCTA
Statistics
Matches: 69, Mismatches: 6, Indels: 32
0.64 0.06 0.30
Matches are distributed among these distances:
15 1 0.01
16 20 0.29
17 4 0.06
18 2 0.03
19 2 0.03
20 4 0.06
21 35 0.51
22 1 0.01
ACGTcount: A:0.09, C:0.21, G:0.32, T:0.38
Consensus pattern (21 bp):
AGGCTTCGTGCCGGTGTTTTC
Found at i:14343175 original size:37 final size:37
Alignment explanation
Indices: 14343125--14343244 Score: 213
Period size: 37 Copynumber: 3.2 Consensus size: 37
14343115 CTAAAACGTT
14343125 AGGCTTTGTGCCTAGTAGGCTTCGTGCCGGTGTTTTC
1 AGGCTTTGTGCCTAGTAGGCTTCGTGCCGGTGTTTTC
* *
14343162 AGGCTTTGTGCCTAGTAGGCTTCGTGCTGATGTTTTC
1 AGGCTTTGTGCCTAGTAGGCTTCGTGCCGGTGTTTTC
*
14343199 AGGCTATGTGCCTAGTAGGCTTCGTGCCGGTGTTTTC
1 AGGCTTTGTGCCTAGTAGGCTTCGTGCCGGTGTTTTC
14343236 AGGCTTTGT
1 AGGCTTTGT
14343245 CCCGGTGTAT
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 77 1.00
ACGTcount: A:0.10, C:0.20, G:0.32, T:0.38
Consensus pattern (37 bp):
AGGCTTTGTGCCTAGTAGGCTTCGTGCCGGTGTTTTC
Found at i:14343277 original size:74 final size:73
Alignment explanation
Indices: 14343123--14343284 Score: 204
Period size: 74 Copynumber: 2.2 Consensus size: 73
14343113 ATCTAAAACG
* * *
14343123 TTAGGCTTTGTGCCTAGTAGGCTTCGTGCCGGTGTTTTCAGGCTTTGTGCCTAGTAGGCTTCGTG
1 TTAGGCTTTGTGCCTAGTAGGCTTCGTGCCGGTGTTTTCAGGCTTTGTGCCCAGTAGGATTCGAG
14343188 CTGATGTT
66 CTGATGTT
* * *
14343196 TTCAGGCTATGTGCCTAGTAGGCTTCGTGCCGGTGTTTTCAGGCTTTGT-CCCGGT-GTATTCGA
1 TT-AGGCTTTGTGCCTAGTAGGCTTCGTGCCGGTGTTTTCAGGCTTTGTGCCCAGTAGGATTCGA
14343259 GCT-ATGTGCT
65 GCTGATGT--T
14343269 TAGTAGGCTTTGTGCC
1 T--TAGGCTTTGTGCC
14343285 GATGATCCAA
Statistics
Matches: 77, Mismatches: 7, Indels: 9
0.83 0.08 0.10
Matches are distributed among these distances:
71 4 0.05
72 8 0.10
73 8 0.10
74 56 0.73
75 1 0.01
ACGTcount: A:0.10, C:0.20, G:0.31, T:0.38
Consensus pattern (73 bp):
TTAGGCTTTGTGCCTAGTAGGCTTCGTGCCGGTGTTTTCAGGCTTTGTGCCCAGTAGGATTCGAG
CTGATGTT
Found at i:14343783 original size:6 final size:6
Alignment explanation
Indices: 14343774--14343877 Score: 67
Period size: 6 Copynumber: 18.0 Consensus size: 6
14343764 TAAAATGATT
* * *
14343774 TTTAAA TTT-AT TTCTAAA ATTAAA TTT-AC TTTAAA TTTAAA TTTAAA
1 TTTAAA TTTAAA TT-TAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* ** *
14343821 TTCATT TTTAAA TTTAAA TTT-AG TTTAAA TTTGAAA --T-AA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA TTTAAA TTTAAA
* *
14343866 ATTAAA ATTAAA
1 TTTAAA TTTAAA
14343878 AAGCCCAAAA
Statistics
Matches: 75, Mismatches: 15, Indels: 16
0.71 0.14 0.15
Matches are distributed among these distances:
3 2 0.03
5 13 0.17
6 55 0.73
7 5 0.07
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (6 bp):
TTTAAA
Found at i:14343783 original size:24 final size:24
Alignment explanation
Indices: 14343750--14343842 Score: 73
Period size: 24 Copynumber: 3.7 Consensus size: 24
14343740 TTTGGGTCAA
* *
14343750 TTTT-AATTTAAGTTTAAAATGAT
1 TTTTAAATTTAAATTTAAAATAAT
*
14343773 TTTTAAATTT-ATTTCTAAAATTAAATT
1 TTTTAAATTTAAATT-TAAAA-T-AA-T
* *
14343800 TACTTTAAATTTAAATTTAAATTCAT
1 T--TTTAAATTTAAATTTAAAATAAT
14343826 TTTTAAATTTAAATTTA
1 TTTTAAATTTAAATTTA
14343843 GTTTAAATTT
Statistics
Matches: 57, Mismatches: 5, Indels: 15
0.74 0.06 0.19
Matches are distributed among these distances:
23 7 0.12
24 26 0.46
25 1 0.02
26 3 0.05
27 3 0.05
28 1 0.02
29 13 0.23
30 3 0.05
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.54
Consensus pattern (24 bp):
TTTTAAATTTAAATTTAAAATAAT
Found at i:14343807 original size:41 final size:41
Alignment explanation
Indices: 14343762--14343849 Score: 104
Period size: 41 Copynumber: 2.1 Consensus size: 41
14343752 TTAATTTAAG
** *
14343762 TTTAAAATGATTTTTAAATTTATTTCTAAAATTAAATTTAC
1 TTTAAAATGAAATTTAAATTCATTTCTAAAATTAAATTTAC
* * * * *
14343803 TTTAAATTTAAATTTAAATTCATTTTTAAATTTAAATTTAG
1 TTTAAAATGAAATTTAAATTCATTTCTAAAATTAAATTTAC
14343844 TTTAAA
1 TTTAAA
14343850 TTTGAAATAA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.52
Consensus pattern (41 bp):
TTTAAAATGAAATTTAAATTCATTTCTAAAATTAAATTTAC
Found at i:14343813 original size:17 final size:18
Alignment explanation
Indices: 14343774--14343818 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
14343764 TAAAATGATT
*
14343774 TTTAAATTTATTTCTAAA
1 TTTAAATTTACTTCTAAA
*
14343792 ATTAAATTTACTT-TAAA
1 TTTAAATTTACTTCTAAA
14343809 TTTAAATTTA
1 TTTAAATTTA
14343819 AATTCATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 13 0.54
18 11 0.46
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.53
Consensus pattern (18 bp):
TTTAAATTTACTTCTAAA
Found at i:14343850 original size:41 final size:42
Alignment explanation
Indices: 14343774--14343857 Score: 125
Period size: 41 Copynumber: 2.0 Consensus size: 42
14343764 TAAAATGATT
*
14343774 TTTAAATTTATTTCTAAAATTAAATTTACTTTAAATTT-AAA
1 TTTAAATTCATTTCTAAAATTAAATTTACTTTAAATTTGAAA
* * *
14343815 TTTAAATTCATTTTTAAATTTAAATTTAGTTTAAATTTGAAA
1 TTTAAATTCATTTCTAAAATTAAATTTACTTTAAATTTGAAA
14343857 T
1 T
14343858 AATTTAAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
41 34 0.89
42 4 0.11
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (42 bp):
TTTAAATTCATTTCTAAAATTAAATTTACTTTAAATTTGAAA
Found at i:14345604 original size:29 final size:29
Alignment explanation
Indices: 14345571--14345768 Score: 104
Period size: 29 Copynumber: 6.6 Consensus size: 29
14345561 GGACTGTTTA
14345571 AAAATTACCATTTTACCCTCGAACTTC-CC
1 AAAATTACCATTTTACCCTCG-ACTTCACC
* *
14345600 AAAATT-CCATTTTAACCC-CGATTTCATCA
1 AAAATTACCATTTT-ACCCTCGACTTCA-CC
*
14345629 AAAATTACCATTTTATACCCTCGAACTT-TCC
1 AAAATTACCA-TTT-TACCCTCG-ACTTCACC
* * ** *
14345660 AAAATTA-TATTTATTAACCCCCGGTTTCATCA
1 AAAATTACCA-TT-TT-ACCCTCGACTTCA-CC
* * *
14345692 AAAATTACCATTTTACCCTTGAACTT-TCT
1 AAAATTACCATTTTACCCTCG-ACTTCACC
* * *
14345721 AATATT-CCATTTTTAACCTCGATTTCACC
1 AAAATTACCA-TTTTACCCTCGACTTCACC
14345750 AAAAATTACCATTTTACCC
1 -AAAATTACCATTTTACCC
14345769 CGCGTGAAAA
Statistics
Matches: 125, Mismatches: 26, Indels: 35
0.67 0.14 0.19
Matches are distributed among these distances:
27 4 0.03
28 15 0.12
29 33 0.26
30 27 0.22
31 29 0.23
32 13 0.10
33 4 0.03
ACGTcount: A:0.33, C:0.27, G:0.04, T:0.36
Consensus pattern (29 bp):
AAAATTACCATTTTACCCTCGACTTCACC
Found at i:14345662 original size:60 final size:59
Alignment explanation
Indices: 14345570--14345768 Score: 274
Period size: 59 Copynumber: 3.3 Consensus size: 59
14345560 TGGACTGTTT
*
14345570 AAAAATTACCATTTTACCCTCGAACTTCCCAAAATTCCA-TTTTAACCCCGATTTCATC
1 AAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCATC
** *
14345628 AAAAATTACCATTTTATACCCTCGAACTTTCCAAAATTATATTTATTAACCCCCGGTTTCATC
1 AAAAATTACCA-TTT-TACCCTCGAACTTTCCAAAATTCCATTT-TTAA-CCCCGATTTCATC
* * * * *
14345691 AAAAATTACCATTTTACCCTTGAACTTTCTAATATTCCATTTTTAACCTCGATTTCACC
1 AAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCATC
14345750 AAAAATTACCATTTTACCC
1 AAAAATTACCATTTTACCC
14345769 CGCGTGAAAA
Statistics
Matches: 124, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
58 11 0.09
59 32 0.26
60 26 0.21
61 25 0.20
62 7 0.06
63 23 0.19
ACGTcount: A:0.33, C:0.27, G:0.04, T:0.36
Consensus pattern (59 bp):
AAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCATC
Found at i:14358179 original size:76 final size:76
Alignment explanation
Indices: 14358049--14358509 Score: 787
Period size: 76 Copynumber: 6.0 Consensus size: 76
14358039 AATGAAGCAC
*
14358049 CAACATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
1 CAACATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAACAAGTCTTTATCTCTGAAAT
14358114 TGAAGTAAGAG
66 TGAAGTAAGAG
* *
14358125 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCTCTGAAAT
1 CAACATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAACAAGTCTTTATCTCTGAAAT
14358190 TGAAGTAAGAG
66 TGAAGTAAGAG
*
14358201 CAACATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
1 CAACATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAACAAGTCTTTATCTCTGAAAT
*
14358266 TGAAGTCAGAG
66 TGAAGTAAGAG
*
14358277 CAACATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCTCTGAAAT
1 CAACATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAACAAGTCTTTATCTCTGAAAT
14358342 TGAAGTAAGAG
66 TGAAGTAAGAG
* *
14358353 CAACTTCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
1 CAACATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAACAAGTCTTTATCTCTGAAAT
*
14358418 TGAAGTAATAG
66 TGAAGTAAGAG
* * *
14358429 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTAAA
1 CAACATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAACAAGTCTTTA--TCTCTGAA
*
14358494 ATTGAAATAAGAG
64 ATTGAAGTAAGAG
14358507 CAA
1 CAA
14358510 GATGAAGCCT
Statistics
Matches: 362, Mismatches: 21, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
76 341 0.94
78 21 0.06
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (76 bp):
CAACATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAACAAGTCTTTATCTCTGAAAT
TGAAGTAAGAG
Found at i:14358833 original size:17 final size:18
Alignment explanation
Indices: 14358794--14358838 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
14358784 TAAAATGATT
*
14358794 TTTAAATTTATTTCTAAA
1 TTTAAATTTACTTCTAAA
*
14358812 ATTAAATTTACTT-TAAA
1 TTTAAATTTACTTCTAAA
14358829 TTTAAATTTA
1 TTTAAATTTA
14358839 AATTCATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 13 0.54
18 11 0.46
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.53
Consensus pattern (18 bp):
TTTAAATTTACTTCTAAA
Found at i:14358852 original size:18 final size:18
Alignment explanation
Indices: 14358829--14358880 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
14358819 TTACTTTAAA
*
14358829 TTTAAATTTAAATTCATT
1 TTTAAATTTAAATTAATT
14358847 TTTAAATTTGAAA-TAATT
1 TTTAAATTT-AAATTAATT
* *
14358865 TTAAAATTAAAATTAA
1 TTTAAATTTAAATTAA
14358881 AAAGCCCAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 3 0.10
18 23 0.79
19 3 0.10
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (18 bp):
TTTAAATTTAAATTAATT
Found at i:14360823 original size:59 final size:59
Alignment explanation
Indices: 14360750--14361321 Score: 763
Period size: 59 Copynumber: 9.7 Consensus size: 59
14360740 AGACTGTTCG
* * * *
14360750 AAAATTAACATTTTAGCCCCGAACTTCCCAAAATTCCATTTTTAACCCCGATTTCATCA
1 AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCATCA
* * * *
14360809 AAAATTACCATTTTACCCCCGAAGTTTCCAAAATTCCATTTTTATCCCC-AGTTTCACCA
1 AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGA-TTTCATCA
* **
14360868 AAAATTACCATTTTACCCCTAAACTTTCCAAAATTCTGTTTTTAACCCCGATTTCATC-
1 AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCATCA
* * *
14360926 AAAATTACCATTTTACCCCCAAACTTCCCAAAGTTCCATTTTTTACCCCGATTTCATCA
1 AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCATCA
* * *
14360985 AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCACTTTTAACCTCGATTTCACCA
1 AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCATCA
* * *
14361044 AAAATTACCATTTTACCCCTAAACTTTCCAAAATTCTATTTTTAACCTCGATTTCATCA
1 AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCATCA
* * *
14361103 AAAATTACCATTTTACCCCTAAATTTTCCAAAATTCCATTTTTAACCTCGATTTCATCA
1 AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCATCA
* * * * * *
14361162 CAAATTACCATCTTACCCCCGAACTTTCAAAAATTCCATTATTAACCTCGATTTCATCA
1 AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCATCA
* * * * *
14361221 AAAATTACCATTTTACCCCCGAACTTTCTAAGATTCTATTTTTAACCCCGATTTCACCA
1 AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCATCA
* ** *
14361280 AAAATTACCATTTTGCCCCCGCAC-GTCCAAAATTACCATTTT
1 AAAATTACCATTTTACCCCCAAACTTTCCAAAATT-CCATTTT
14361322 GCCCCCGAGT
Statistics
Matches: 457, Mismatches: 52, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
58 60 0.13
59 396 0.87
60 1 0.00
ACGTcount: A:0.32, C:0.29, G:0.04, T:0.35
Consensus pattern (59 bp):
AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCATCA
Found at i:14361104 original size:29 final size:29
Alignment explanation
Indices: 14360778--14361293 Score: 189
Period size: 29 Copynumber: 17.5 Consensus size: 29
14360768 CCGAACTTCC
*
14360778 CAAAATTCCATTTTTAACCCCGATTTCAT
1 CAAAATTCCATTTTTAACCTCGATTTCAT
* *
14360807 CAAAAATTACCA-TTTTACCCCCGAAGTTTC--
1 C-AAAATT-CCATTTTTAACCTCG-A-TTTCAT
* * *
14360837 CAAAATTCCATTTTTATCC-CCAGTTTCAC
1 CAAAATTCCATTTTTAACCTCGA-TTTCAT
* **
14360866 CAAAAATTACCA-TTTTACCCCTAAACTTTC--
1 C-AAAATT-CCATTTTTA-ACCTCGA-TTTCAT
** *
14360896 CAAAATTCTGTTTTTAACCCCGATTTCAT
1 CAAAATTCCATTTTTAACCTCGATTTCAT
* * * * *
14360925 CAAAATTACCA-TTTTACCCCCAAACTTC-C
1 CAAAATT-CCATTTTTAACCTC-GATTTCAT
* * *
14360954 CAAAGTTCCATTTTTTACCCCGATTTCAT
1 CAAAATTCCATTTTTAACCTCGATTTCAT
* * *
14360983 CAAAAATTACCA-TTTTACCCCCAAACTTTC--
1 C-AAAATT-CCATTTTTAACCTC-GA-TTTCAT
* *
14361013 CAAAATTCCACTTTTAACCTCGATTTCAC
1 CAAAATTCCATTTTTAACCTCGATTTCAT
* **
14361042 CAAAAATTACCA-TTTTACCCCTAAACTTTC--
1 C-AAAATT-CCATTTTTA-ACCTCGA-TTTCAT
*
14361072 CAAAATTCTATTTTTAACCTCGATTTCAT
1 CAAAATTCCATTTTTAACCTCGATTTCAT
* **
14361101 CAAAAATTACCA-TTTTACCCCTAAATTT--T
1 C-AAAATT-CCATTTTTA-ACCTCGATTTCAT
14361130 CCAAAATTCCATTTTTAACCTCGATTTCAT
1 -CAAAATTCCATTTTTAACCTCGATTTCAT
* * *
14361160 CACAAATTACCA-TCTTACCCCCGAACTTTCA-
1 CA-AAATT-CCATTTTTAACCTCG-A-TTTCAT
*
14361191 -AAAATTCCATTATTAACCTCGATTTCAT
1 CAAAATTCCATTTTTAACCTCGATTTCAT
* *
14361219 CAAAAATTACCA-TTTTACCCCCGAACTTTC-T
1 C-AAAATT-CCATTTTTAACCTCG-A-TTTCAT
* * * *
14361250 -AAGATTCTATTTTTAACCCCGATTTCAC
1 CAAAATTCCATTTTTAACCTCGATTTCAT
14361278 CAAAAATTACCATTTT
1 C-AAAATT-CCATTTT
14361294 GCCCCCGCAC
Statistics
Matches: 371, Mismatches: 61, Indels: 108
0.69 0.11 0.20
Matches are distributed among these distances:
27 27 0.07
28 42 0.11
29 126 0.34
30 106 0.29
31 44 0.12
32 26 0.07
ACGTcount: A:0.33, C:0.29, G:0.03, T:0.36
Consensus pattern (29 bp):
CAAAATTCCATTTTTAACCTCGATTTCAT
Found at i:14361346 original size:28 final size:28
Alignment explanation
Indices: 14361280--14361349 Score: 81
Period size: 28 Copynumber: 2.5 Consensus size: 28
14361270 GATTTCACCA
*
14361280 AAAATTACCATTTTGCCCCCGCACGTCC
1 AAAAGTACCATTTTGCCCCCGCACGTCC
*
14361308 AAAATTACCATTTTGCCCCCG-A-GTATCC
1 AAAAGTACCATTTTGCCCCCGCACG--TCC
*
14361336 AAAAGTCCCATTTT
1 AAAAGTACCATTTT
14361350 CAACCCGATT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.03
27 1 0.03
28 36 0.95
ACGTcount: A:0.29, C:0.33, G:0.10, T:0.29
Consensus pattern (28 bp):
AAAAGTACCATTTTGCCCCCGCACGTCC
Found at i:14362261 original size:19 final size:20
Alignment explanation
Indices: 14362218--14362262 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
14362208 AAAGATTTCC
*
14362218 TTTAAAATAACACAAAGCCT
1 TTTAAAATAACACAAAGCAT
**
14362238 TTTAAAATAA-ACATCGCAT
1 TTTAAAATAACACAAAGCAT
14362257 TTTAAA
1 TTTAAA
14362263 CTTGACTTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.49, C:0.16, G:0.04, T:0.31
Consensus pattern (20 bp):
TTTAAAATAACACAAAGCAT
Found at i:14362494 original size:12 final size:11
Alignment explanation
Indices: 14362473--14362499 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
14362463 GGCGACTCCC
14362473 TTTTTATTTTT
1 TTTTTATTTTT
14362484 TTTTTATTTTT
1 TTTTTATTTTT
14362495 TTTTT
1 TTTTT
14362500 CAAAATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.07, C:0.00, G:0.00, T:0.93
Consensus pattern (11 bp):
TTTTTATTTTT
Found at i:14373825 original size:22 final size:22
Alignment explanation
Indices: 14373790--14373852 Score: 92
Period size: 22 Copynumber: 2.9 Consensus size: 22
14373780 CCATGGATGT
*
14373790 ATTATGACAATATAATTGATTG
1 ATTATGCCAATATAATTGATTG
*
14373812 ATTGCT-CCAATATAATTGATTG
1 ATT-ATGCCAATATAATTGATTG
14373834 ATTATGCCAATATAATTGA
1 ATTATGCCAATATAATTGA
14373853 ATATTTTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.40
Consensus pattern (22 bp):
ATTATGCCAATATAATTGATTG
Found at i:14385155 original size:29 final size:30
Alignment explanation
Indices: 14385097--14385158 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 30
14385087 AGGGTTACTT
* *
14385097 AAATTATCAATTTTAAATAATTAAGTGATC
1 AAATTATAAATTTTAAATAATTAAATGATC
*
14385127 AAATTATAAATTTT-TATAATTAAATGATC
1 AAATTATAAATTTTAAATAATTAAATGATC
14385156 AAA
1 AAA
14385159 ATGTAAACTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 16 0.55
30 13 0.45
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.40
Consensus pattern (30 bp):
AAATTATAAATTTTAAATAATTAAATGATC
Found at i:14388428 original size:24 final size:24
Alignment explanation
Indices: 14388396--14388442 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
14388386 ATGTGGAACC
* *
14388396 AGTAGAAAATGAATATTCAACTCA
1 AGTAGAAAATGAAGATCCAACTCA
14388420 AGTAGAAAATGAAGATCCAACTC
1 AGTAGAAAATGAAGATCCAACTC
14388443 CATGTATGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.49, C:0.15, G:0.15, T:0.21
Consensus pattern (24 bp):
AGTAGAAAATGAAGATCCAACTCA
Found at i:14390813 original size:28 final size:28
Alignment explanation
Indices: 14390754--14390839 Score: 72
Period size: 28 Copynumber: 3.1 Consensus size: 28
14390744 ACATTTTTTC
* *
14390754 ATTTGAAATTAATTAAGTTTATGAA--TGA
1 ATTTGAAATTAATTATGTTTA--AATTTGT
14390782 ATTTGAAATTAATTATGTTTAAATTTGT
1 ATTTGAAATTAATTATGTTTAAATTTGT
* * **
14390810 ATTT--AATTAATAATTTTTATGTTTGT
1 ATTTGAAATTAATTATGTTTAAATTTGT
14390836 ATTT
1 ATTT
14390840 TGGTTTAAGG
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
26 24 0.48
28 26 0.52
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.53
Consensus pattern (28 bp):
ATTTGAAATTAATTATGTTTAAATTTGT
Found at i:14390828 original size:26 final size:26
Alignment explanation
Indices: 14390788--14390839 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
14390778 ATGAATTTGA
*
14390788 AATTAATTATGTTTAAATTTGTATTT
1 AATTAATAATGTTTAAATTTGTATTT
* **
14390814 AATTAATAATTTTTATGTTTGTATTT
1 AATTAATAATGTTTAAATTTGTATTT
14390840 TGGTTTAAGG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.60
Consensus pattern (26 bp):
AATTAATAATGTTTAAATTTGTATTT
Found at i:14390851 original size:7 final size:7
Alignment explanation
Indices: 14390841--14390940 Score: 78
Period size: 7 Copynumber: 13.9 Consensus size: 7
14390831 TTTGTATTTT
14390841 GGTTTAA
1 GGTTTAA
14390848 GGTTTAA
1 GGTTTAA
14390855 GGTTTAGA
1 GGTTTA-A
*
14390863 GCTTTAA
1 GGTTTAA
* *
14390870 GATTTAG
1 GGTTTAA
14390877 GGTTTAA
1 GGTTTAA
14390884 GAGTTTAA
1 G-GTTTAA
14390892 GGTTTAA
1 GGTTTAA
*
14390899 GATTT-A
1 GGTTTAA
14390905 GAGTTTATA
1 G-GTTTA-A
*
14390914 -GTTTAT
1 GGTTTAA
*
14390920 GGTTTTAG
1 GG-TTTAA
*
14390928 GGTTTAG
1 GGTTTAA
14390935 GGTTTA
1 GGTTTA
14390941 GAGTTTAATT
Statistics
Matches: 77, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
6 2 0.03
7 55 0.71
8 19 0.25
9 1 0.01
ACGTcount: A:0.26, C:0.01, G:0.28, T:0.45
Consensus pattern (7 bp):
GGTTTAA
Found at i:14390870 original size:15 final size:15
Alignment explanation
Indices: 14390841--14390940 Score: 79
Period size: 15 Copynumber: 6.9 Consensus size: 15
14390831 TTTGTATTTT
14390841 GGTTTA-AGGTTTAA
1 GGTTTAGAGGTTTAA
*
14390855 GGTTTAGAGCTTTAA
1 GGTTTAGAGGTTTAA
*
14390870 GATTTAG-GGTTTAA
1 GGTTTAGAGGTTTAA
14390884 GAGTTTA-AGGTTTAA
1 G-GTTTAGAGGTTTAA
*
14390899 GATTTAGA-GTTTATA
1 GGTTTAGAGGTTTA-A
* *
14390914 -GTTTATG-GTTTTAG
1 GGTTTA-GAGGTTTAA
14390928 GGTTTAG-GGTTTA
1 GGTTTAGAGGTTTA
14390941 GAGTTTAATT
Statistics
Matches: 69, Mismatches: 9, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
14 32 0.46
15 37 0.54
ACGTcount: A:0.26, C:0.01, G:0.28, T:0.45
Consensus pattern (15 bp):
GGTTTAGAGGTTTAA
Found at i:14390880 original size:29 final size:29
Alignment explanation
Indices: 14390843--14390948 Score: 101
Period size: 29 Copynumber: 3.7 Consensus size: 29
14390833 TGTATTTTGG
*
14390843 TTTAAGGTTTAAG-GTTTAGAGCTTTAAGA
1 TTTAGGGTTTAAGAGTTTA-AGCTTTAAGA
*
14390872 TTTAGGGTTTAAGAGTTTAAGGTTTAAGA
1 TTTAGGGTTTAAGAGTTTAAGCTTTAAGA
* * * * * *
14390901 TTTAGAGTTT-ATAGTTTATGGTTTTAGGG
1 TTTAGGGTTTAAGAGTTTA-AGCTTTAAGA
14390930 TTTAGGGTTT-AGAGTTTAA
1 TTTAGGGTTTAAGAGTTTAA
14390949 TTATGCATAA
Statistics
Matches: 64, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
28 7 0.11
29 52 0.81
30 5 0.08
ACGTcount: A:0.27, C:0.01, G:0.26, T:0.45
Consensus pattern (29 bp):
TTTAGGGTTTAAGAGTTTAAGCTTTAAGA
Found at i:14390946 original size:22 final size:21
Alignment explanation
Indices: 14390842--14390947 Score: 97
Period size: 22 Copynumber: 4.9 Consensus size: 21
14390832 TTGTATTTTG
*
14390842 GTTTAAGGTTTAAGGTTTAGA
1 GTTTAAGGTTTAGGGTTTAGA
*
14390863 GCTTTAAGATTTAGGGTTTAAGA
1 G-TTTAAGGTTTAGGGTTT-AGA
* *
14390886 GTTTAAGGTTTAAGATTTAGA
1 GTTTAAGGTTTAGGGTTTAGA
* *
14390907 GTTTATA-GTTTATGGTTTTAGG
1 GTTTA-AGGTTTA-GGGTTTAGA
* *
14390929 GTTTAGGGTTTAGAGTTTA
1 GTTTAAGGTTTAGGGTTTA
14390948 ATTATGCATA
Statistics
Matches: 69, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
21 19 0.28
22 46 0.67
23 4 0.06
ACGTcount: A:0.26, C:0.01, G:0.27, T:0.45
Consensus pattern (21 bp):
GTTTAAGGTTTAGGGTTTAGA
Found at i:14393393 original size:5 final size:6
Alignment explanation
Indices: 14393364--14393447 Score: 55
Period size: 6 Copynumber: 13.8 Consensus size: 6
14393354 TAAATTGATT
* * **
14393364 TTTAAA TTT-TA TTTAAA TTTAAA TTTAATTA TTTAAA TTT-AC TTTGGA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAA--A TTTAAA TTTAAA TTTAAA
** * *
14393412 TTTAAA TTTAAA TAAAAA TTAAAA CATTAAA TTTAA
1 TTTAAA TTTAAA TTTAAA TTTAAA -TTTAAA TTTAA
14393448 CATTAAAAAA
Statistics
Matches: 60, Mismatches: 13, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
5 8 0.13
6 42 0.70
7 4 0.07
8 6 0.10
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (6 bp):
TTTAAA
Found at i:14393402 original size:31 final size:31
Alignment explanation
Indices: 14393364--14393422 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
14393354 TAAATTGATT
14393364 TTTAAATTTTA-TTTAAATTTAAATTTAATTA
1 TTTAAA-TTTACTTTAAATTTAAATTTAATTA
**
14393395 TTTAAATTTACTTTGGATTTAAATTTAA
1 TTTAAATTTACTTTAAATTTAAATTTAA
14393423 ATAAAAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 4 0.16
31 21 0.84
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (31 bp):
TTTAAATTTACTTTAAATTTAAATTTAATTA
Found at i:14394439 original size:16 final size:16
Alignment explanation
Indices: 14394418--14394448 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14394408 CAAAATGTTT
*
14394418 CCAGATCTGGGTTTTC
1 CCAGATCTGGATTTTC
14394434 CCAGATCTGGATTTT
1 CCAGATCTGGATTTT
14394449 GAAAAGTCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.39
Consensus pattern (16 bp):
CCAGATCTGGATTTTC
Found at i:14395752 original size:59 final size:59
Alignment explanation
Indices: 14395343--14395768 Score: 638
Period size: 59 Copynumber: 7.2 Consensus size: 59
14395333 TTACATTCTG
* *
14395343 ACCCCGATTTCACCGAAAATTACCATTTTACCCCCGAATCTTCTAAAATTTCATTTTTA
1 ACCCCGATTTCACCAAAAATTACCATTTTACCCCCGAATCTTCTAAAATTCCATTTTTA
*
14395402 ACCTCGATTTCACCAAAAATTACCATTTTTACCCCCGAATCTTCTAAAATTCCATTTTTA
1 ACCCCGATTTCACCAAAAATTACCA-TTTTACCCCCGAATCTTCTAAAATTCCATTTTTA
*
14395462 ACCCCGATTTCACCAAAAATTACCATTTTACCCCTGAATCTTCTAAAATTCCATTTTTA
1 ACCCCGATTTCACCAAAAATTACCATTTTACCCCCGAATCTTCTAAAATTCCATTTTTA
* **
14395521 ACCCTGATTTCACCAAAAATTACCATTTTACCCCAAAATCTTCTAAAATTCCATTTTTA
1 ACCCCGATTTCACCAAAAATTACCATTTTACCCCCGAATCTTCTAAAATTCCATTTTTA
* * *
14395580 ACCCTGATTTCACTAAAAATTACCATTTTACGCCCGAATCTTCTAAAATTCCATTTTTA
1 ACCCCGATTTCACCAAAAATTACCATTTTACCCCCGAATCTTCTAAAATTCCATTTTTA
* *
14395639 ACCCCGATTTCATCAAAAATTACCATTTTACCCCTGAATCTTCTAAAATTCCATTTTTA
1 ACCCCGATTTCACCAAAAATTACCATTTTACCCCCGAATCTTCTAAAATTCCATTTTTA
* * * ** * * * *
14395698 ACCTCGATTTCACCGAAAATTACCATTTTGCCCCCGGGT-ATCCAAAAGTCCCATTTTTC
1 ACCCCGATTTCACCAAAAATTACCATTTTACCCCCGAATCTTCTAAAA-TTCCATTTTTA
14395757 ACCCCGATTTCA
1 ACCCCGATTTCA
14395769 TCGTTTATTA
Statistics
Matches: 336, Mismatches: 29, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
58 6 0.02
59 273 0.81
60 57 0.17
ACGTcount: A:0.31, C:0.29, G:0.05, T:0.35
Consensus pattern (59 bp):
ACCCCGATTTCACCAAAAATTACCATTTTACCCCCGAATCTTCTAAAATTCCATTTTTA
Found at i:14396940 original size:3 final size:3
Alignment explanation
Indices: 14396932--14396981 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
14396922 AAGATGTTTG
14396932 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
14396980 AT
1 AT
14396982 GTTTAATTTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:14397540 original size:25 final size:23
Alignment explanation
Indices: 14397494--14397550 Score: 73
Period size: 25 Copynumber: 2.5 Consensus size: 23
14397484 TTACTCAACT
14397494 AAAT-AAA-AAAAATTAAATAAC
1 AAATCAAATAAAAATTAAATAAC
14397515 AAATCAAATAAAAATTAAATTAAAC
1 AAATCAAATAAAAATTAAA-T-AAC
*
14397540 AAAACAAATAA
1 AAATCAAATAA
14397551 CTTAAAATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 4 0.13
22 3 0.10
23 10 0.32
24 1 0.03
25 13 0.42
ACGTcount: A:0.74, C:0.07, G:0.00, T:0.19
Consensus pattern (23 bp):
AAATCAAATAAAAATTAAATAAC
Found at i:14400077 original size:57 final size:57
Alignment explanation
Indices: 14399984--14400104 Score: 188
Period size: 57 Copynumber: 2.1 Consensus size: 57
14399974 TTATTTATAC
** **
14399984 ATTTATGCTGTCTTAATGTAATTTATAGTTGCTGTCAAAATGTCTCTTAATGTGCAT
1 ATTTATGCTGTCCAAATGTAATTTATAGTTGCTGTCAAAATGTCTCTTAATGCACAT
* *
14400041 ATTTATGCTGTCCAAATGTAATTTATAGTTGTTGTCATAATGTCTCTTAATGCACAT
1 ATTTATGCTGTCCAAATGTAATTTATAGTTGCTGTCAAAATGTCTCTTAATGCACAT
14400098 ATTTATG
1 ATTTATG
14400105 TTATCAAAAT
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.27, C:0.12, G:0.15, T:0.45
Consensus pattern (57 bp):
ATTTATGCTGTCCAAATGTAATTTATAGTTGCTGTCAAAATGTCTCTTAATGCACAT
Found at i:14400141 original size:57 final size:57
Alignment explanation
Indices: 14399984--14400132 Score: 165
Period size: 57 Copynumber: 2.6 Consensus size: 57
14399974 TTATTTATAC
* ** * * * **
14399984 ATTTATGCTGTCTTAATGTAATTTATAGTTGCTGTCAAAATGTCTCTTAATGTGCAT
1 ATTTATGCTATCAAAATGTAATTAATAGTTGTTGTCATAATGTCTCTTAATGCACAT
* * *
14400041 ATTTATGCTGTCCAAATGTAATTTATAGTTGTTGTCATAATGTCTCTTAATGCACAT
1 ATTTATGCTATCAAAATGTAATTAATAGTTGTTGTCATAATGTCTCTTAATGCACAT
* *
14400098 ATTTATGTTATCAAAATGTGAA-TAATGGTTGTTGT
1 ATTTATGCTATCAAAATGT-AATTAATAGTTGTTGT
14400133 TTTGATGTCC
Statistics
Matches: 80, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
57 78 0.98
58 2 0.03
ACGTcount: A:0.28, C:0.11, G:0.16, T:0.45
Consensus pattern (57 bp):
ATTTATGCTATCAAAATGTAATTAATAGTTGTTGTCATAATGTCTCTTAATGCACAT
Found at i:14429279 original size:16 final size:14
Alignment explanation
Indices: 14429250--14429299 Score: 52
Period size: 16 Copynumber: 3.6 Consensus size: 14
14429240 CACGTGTAAG
14429250 ATAAATTAAAAATT
1 ATAAATTAAAAATT
14429264 ATAAATATACAAAATT
1 ATAAAT-TA-AAAATT
14429280 AT---TTAAAAATT
1 ATAAATTAAAAATT
14429291 AATAAATTA
1 -ATAAATTA
14429300 TTGAAATTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 11
0.73 0.00 0.27
Matches are distributed among these distances:
11 6 0.20
12 4 0.13
13 1 0.03
14 6 0.20
15 5 0.17
16 8 0.27
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (14 bp):
ATAAATTAAAAATT
Found at i:14429312 original size:26 final size:27
Alignment explanation
Indices: 14429257--14429333 Score: 77
Period size: 28 Copynumber: 2.9 Consensus size: 27
14429247 AAGATAAATT
* **
14429257 AAAAATTATAAATATA-CAAAATTATTTA
1 AAAAATAATAAATATATTGAAATTA--TA
*
14429285 AAAATTAATAAAT-TATTGAAATTATA
1 AAAAATAATAAATATATTGAAATTATA
*
14429311 AAAAATAATAAATATATTTAAAT
1 AAAAATAATAAATATATTGAAAT
14429334 ATTAATCTTA
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
26 14 0.34
27 10 0.24
28 17 0.41
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (27 bp):
AAAAATAATAAATATATTGAAATTATA
Found at i:14429316 original size:19 final size:17
Alignment explanation
Indices: 14429257--14429326 Score: 54
Period size: 19 Copynumber: 4.0 Consensus size: 17
14429247 AAGATAAATT
14429257 AAAAATTA-TAAATATA
1 AAAAATTATTAAATATA
* *
14429273 CAAAATTATTTAAAAATTA
1 AAAAATTA-TTAAATA-TA
*
14429292 ATAAATTATTGAAATTATA
1 AAAAATTATT-AAA-TATA
*
14429311 AAAAA-TAATAAATATA
1 AAAAATTATTAAATATA
14429327 TTTAAATATT
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
16 11 0.26
17 3 0.07
18 10 0.24
19 17 0.40
20 1 0.02
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (17 bp):
AAAAATTATTAAATATA
Found at i:14430035 original size:18 final size:19
Alignment explanation
Indices: 14429998--14430036 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
14429988 TTTTAAACAA
14429998 TTATTAACATGTTATATTT
1 TTATTAACATGTTATATTT
* *
14430017 TTATTAAGAT-TTTTATTT
1 TTATTAACATGTTATATTT
14430035 TT
1 TT
14430037 GGTGACAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.64
Consensus pattern (19 bp):
TTATTAACATGTTATATTT
Found at i:14430547 original size:21 final size:21
Alignment explanation
Indices: 14430523--14430567 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
14430513 GCTTCCTTCG
*
14430523 CTTCTCTCGCTGCTGCCTCCA
1 CTTCCCTCGCTGCTGCCTCCA
* *
14430544 CTTCCCTCTCTGTTGCCTCCA
1 CTTCCCTCGCTGCTGCCTCCA
14430565 CTT
1 CTT
14430568 TAAGTTGTAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.04, C:0.47, G:0.11, T:0.38
Consensus pattern (21 bp):
CTTCCCTCGCTGCTGCCTCCA
Found at i:14435287 original size:23 final size:22
Alignment explanation
Indices: 14435261--14435333 Score: 75
Period size: 23 Copynumber: 3.5 Consensus size: 22
14435251 TATTATTTGT
*
14435261 TATTAATATTAAGTAATTAATAA
1 TATTTATATTAA-TAATTAATAA
14435284 TATTTATATTAAT-A-T--T-A
1 TATTTATATTAATAATTAATAA
*
14435301 TATTTACATTAATAATTAATATA
1 TATTTATATTAATAATTAATA-A
14435324 TATTTATATT
1 TATTTATATT
14435334 TATATTTATA
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
17 13 0.32
18 2 0.05
19 1 0.02
20 1 0.02
21 2 0.05
22 1 0.02
23 21 0.51
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (22 bp):
TATTTATATTAATAATTAATAA
Found at i:14435298 original size:12 final size:12
Alignment explanation
Indices: 14435281--14435344 Score: 53
Period size: 12 Copynumber: 5.5 Consensus size: 12
14435271 AAGTAATTAA
14435281 TAATATTTATAT
1 TAATATTTATAT
14435293 TAATA-TTATAT
1 TAATATTTATAT
* * *
14435304 TTACATTAATAAT
1 TAATATTTAT-AT
14435317 TAATA--TATAT
1 TAATATTTATAT
*
14435327 TTATATTTATAT
1 TAATATTTATAT
*
14435339 TTATAT
1 TAATAT
14435345 ATTTCGATTT
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
10 6 0.15
11 11 0.27
12 19 0.46
13 5 0.12
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (12 bp):
TAATATTTATAT
Found at i:14435303 original size:17 final size:17
Alignment explanation
Indices: 14435283--14435344 Score: 72
Period size: 17 Copynumber: 3.6 Consensus size: 17
14435273 GTAATTAATA
14435283 ATATTTATATTAATATT
1 ATATTTATATTAATATT
*
14435300 ATATTTACATTAATAATT
1 ATATTTATATTAAT-ATT
* *
14435318 A-ATATATATTTATATTT
1 ATATTTATATTAATA-TT
14435335 ATATTTATAT
1 ATATTTATAT
14435345 ATTTCGATTT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
16 1 0.03
17 25 0.68
18 11 0.30
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (17 bp):
ATATTTATATTAATATT
Found at i:14435313 original size:29 final size:29
Alignment explanation
Indices: 14435281--14435344 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 29
14435271 AAGTAATTAA
14435281 TAATATTT-ATAT-TAATATTATATTTACAT
1 TAATATTTAATATAT-AT-TTATATTTACAT
* *
14435310 TAATAATTAATATATATTTATATTTATAT
1 TAATATTTAATATATATTTATATTTACAT
*
14435339 TTATAT
1 TAATAT
14435345 ATTTCGATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
29 22 0.76
30 6 0.21
31 1 0.03
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (29 bp):
TAATATTTAATATATATTTATATTTACAT
Found at i:14435432 original size:11 final size:12
Alignment explanation
Indices: 14435418--14435446 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
14435408 TATTATTATT
14435418 TTATTTAAA-TA
1 TTATTTAAATTA
14435429 TTATTTAAATTA
1 TTATTTAAATTA
14435441 TTATTT
1 TTATTT
14435447 TTATTTAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TTATTTAAATTA
Found at i:14435459 original size:29 final size:28
Alignment explanation
Indices: 14435409--14435464 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 28
14435399 TATTCTATCT
14435409 ATTATTATTTTATTTAAATATTATTTAA
1 ATTATTATTTTATTTAAATATTATTTAA
**
14435437 ATTATTATTTTTATTTAGTTATTATTTA
1 ATTATTA-TTTTATTTAAATATTATTTA
14435465 TATTTAGTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 7 0.28
29 18 0.72
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (28 bp):
ATTATTATTTTATTTAAATATTATTTAA
Found at i:14435460 original size:17 final size:17
Alignment explanation
Indices: 14435438--14435477 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
14435428 ATTATTTAAA
*
14435438 TTATTATTTTTATTTAG
1 TTATTATTTATATTTAG
14435455 TTATTATTTATATTTAG
1 TTATTATTTATATTTAG
14435472 TCTATT
1 T-TATT
14435478 TAGAATTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.25, C:0.03, G:0.05, T:0.68
Consensus pattern (17 bp):
TTATTATTTATATTTAG
Found at i:14435821 original size:157 final size:157
Alignment explanation
Indices: 14435535--14435842 Score: 535
Period size: 157 Copynumber: 2.0 Consensus size: 157
14435525 ATAGACATCC
* * *
14435535 ACGGGAATTAGCTTATCCATCCCCCAAATAGTACTATAAGAATCAGTACTGAACATCCCTCCTGT
1 ACGGGAATTAGCTTATCCACCCCCCAAACAGTACTATAAGAATCAGTACTAAACATCCCTCCTGT
14435600 AATTGTACACGCGCCCATAGCAATAACATATTTAGGTTCAGGCATTTGTTCATATAATCTCACTA
66 AATTGTACACGCGCCCATAGCAATAACATATTTAGGTTCAGGCATTTGTTCATATAATCTCACTA
14435665 AAGAGGGCACCATTTTCATTGAGATCT
131 AAGAGGGCACCATTTTCATTGAGATCT
* *
14435692 ACGGGAATTAGCTTATCGACCCCCCGAACAGTACTATAAGAATCAGTACTAAACATCCCTCCTGT
1 ACGGGAATTAGCTTATCCACCCCCCAAACAGTACTATAAGAATCAGTACTAAACATCCCTCCTGT
* *
14435757 AATTGTACACGCGCCCATAGCAATACCATATTTAGGTTCGGGCATTTGTTCATATAATCTCACTA
66 AATTGTACACGCGCCCATAGCAATAACATATTTAGGTTCAGGCATTTGTTCATATAATCTCACTA
* *
14435822 AAGAGGGCGCTATTTTCATTG
131 AAGAGGGCACCATTTTCATTG
14435843 TTACTGTTCC
Statistics
Matches: 142, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
157 142 1.00
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (157 bp):
ACGGGAATTAGCTTATCCACCCCCCAAACAGTACTATAAGAATCAGTACTAAACATCCCTCCTGT
AATTGTACACGCGCCCATAGCAATAACATATTTAGGTTCAGGCATTTGTTCATATAATCTCACTA
AAGAGGGCACCATTTTCATTGAGATCT
Found at i:14436561 original size:17 final size:17
Alignment explanation
Indices: 14436539--14436572 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
14436529 CCGCTAATGC
14436539 TCTGACCTTTAGCGGCA
1 TCTGACCTTTAGCGGCA
14436556 TCTGACCTTTAGCGGCA
1 TCTGACCTTTAGCGGCA
14436573 CTTATGGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.29, G:0.24, T:0.29
Consensus pattern (17 bp):
TCTGACCTTTAGCGGCA
Found at i:14436618 original size:41 final size:41
Alignment explanation
Indices: 14436556--14436678 Score: 174
Period size: 41 Copynumber: 3.0 Consensus size: 41
14436546 TTTAGCGGCA
* *
14436556 TCTGACCTTTAGCGGCACTTATGGTAAAACGGCGCTAATGC
1 TCTGACCTTTAGCGGCGCTTATGGTAAAACGCCGCTAATGC
* *
14436597 TCTGACCTTTAACGACGCTTATGGTAAAACGCCGCTAATGC
1 TCTGACCTTTAGCGGCGCTTATGGTAAAACGCCGCTAATGC
* * * *
14436638 TCTGACCTTGAGCGGTGCTTATGGTAAAGCGTCGCTAATGC
1 TCTGACCTTTAGCGGCGCTTATGGTAAAACGCCGCTAATGC
14436679 GTTTAGTGGT
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 72 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (41 bp):
TCTGACCTTTAGCGGCGCTTATGGTAAAACGCCGCTAATGC
Found at i:14438733 original size:15 final size:15
Alignment explanation
Indices: 14438715--14438750 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
14438705 ACTTTATCCA
14438715 TTTTGACTTGAAAAGT
1 TTTTG-CTTGAAAAGT
*
14438731 TTTTGTTTGAAAAGT
1 TTTTGCTTGAAAAGT
14438746 TTTTG
1 TTTTG
14438751 TCATTTTATC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.25, C:0.03, G:0.19, T:0.53
Consensus pattern (15 bp):
TTTTGCTTGAAAAGT
Found at i:14438751 original size:15 final size:15
Alignment explanation
Indices: 14438722--14438751 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
14438712 CCATTTTGAC
14438722 TTGAAAAGTTTTTGT
1 TTGAAAAGTTTTTGT
14438737 TTGAAAAGTTTTTGT
1 TTGAAAAGTTTTTGT
14438752 CATTTTATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.20, T:0.53
Consensus pattern (15 bp):
TTGAAAAGTTTTTGT
Found at i:14438809 original size:13 final size:13
Alignment explanation
Indices: 14438787--14438820 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
14438777 TATCGTTTGT
14438787 TAAAAAAATAAAA
1 TAAAAAAATAAAA
*
14438800 TAAAATAATAAAA
1 TAAAAAAATAAAA
14438813 TAAAAAAA
1 TAAAAAAA
14438821 ATTTTAAAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (13 bp):
TAAAAAAATAAAA
Found at i:14439079 original size:44 final size:44
Alignment explanation
Indices: 14439024--14439111 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
14439014 ATAAAATCTA
14439024 TATTTTGTTATTTTTTTAATATTGCTTCACGATCGTTTTATTGT
1 TATTTTGTTATTTTTTTAATATTGCTTCACGATCGTTTTATTGT
14439068 TATTTTGTTATTTTTTTAATATTGCTTCACGATCGTTTTATTGT
1 TATTTTGTTATTTTTTTAATATTGCTTCACGATCGTTTTATTGT
14439112 CATTATCGAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.18, C:0.09, G:0.11, T:0.61
Consensus pattern (44 bp):
TATTTTGTTATTTTTTTAATATTGCTTCACGATCGTTTTATTGT
Found at i:14459757 original size:3 final size:3
Alignment explanation
Indices: 14459749--14459778 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
14459739 TTTTACTTAT
14459749 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
14459779 CTTATATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:14469718 original size:20 final size:22
Alignment explanation
Indices: 14469659--14469728 Score: 99
Period size: 22 Copynumber: 3.3 Consensus size: 22
14469649 AGAGCACCGT
* *
14469659 AGTGCTAAACAAAGAACACTGA
1 AGTGCTGAACAAAGACCACTGA
14469681 AGTGCTGAACAAAGACCACTGA
1 AGTGCTGAACAAAGACCACTGA
*
14469703 AGTGCTG-A-ATAGACCACTGA
1 AGTGCTGAACAAAGACCACTGA
14469723 AGTGCT
1 AGTGCT
14469729 AAACCTTACA
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
20 17 0.38
21 1 0.02
22 27 0.60
ACGTcount: A:0.40, C:0.20, G:0.23, T:0.17
Consensus pattern (22 bp):
AGTGCTGAACAAAGACCACTGA
Found at i:14477384 original size:13 final size:14
Alignment explanation
Indices: 14477355--14477384 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
14477345 TTCAGTACAT
14477355 TGACATTTAACCTC
1 TGACATTTAACCTC
14477369 TGACATTTAA-CTC
1 TGACATTTAACCTC
14477382 TGA
1 TGA
14477385 TTGCATTGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.37
Consensus pattern (14 bp):
TGACATTTAACCTC
Found at i:14483869 original size:20 final size:21
Alignment explanation
Indices: 14483846--14483884 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
14483836 CGATAACTTT
14483846 TACT-GGGCTCCGACCACATC
1 TACTAGGGCTCCGACCACATC
14483866 TACTAGGGCTCCGACCACA
1 TACTAGGGCTCCGACCACA
14483885 ACATCACCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.23, C:0.38, G:0.21, T:0.18
Consensus pattern (21 bp):
TACTAGGGCTCCGACCACATC
Found at i:14486374 original size:19 final size:18
Alignment explanation
Indices: 14486341--14486391 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
14486331 TCAGTCATTT
* *
14486341 GAAAAAGAAACAAAATGA
1 GAAAAAGAAAGAAAAAGA
14486359 GAAAAAGAAAGAAAAAGA
1 GAAAAAGAAAGAAAAAGA
*
14486377 AAAGAAAGAAAGAAA
1 GAA-AAAGAAAGAAA
14486392 GAAAGTTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
18 18 0.62
19 11 0.38
ACGTcount: A:0.76, C:0.02, G:0.20, T:0.02
Consensus pattern (18 bp):
GAAAAAGAAAGAAAAAGA
Found at i:14486380 original size:11 final size:10
Alignment explanation
Indices: 14486341--14486391 Score: 54
Period size: 10 Copynumber: 5.4 Consensus size: 10
14486331 TCAGTCATTT
14486341 GAAAAAGAAA
1 GAAAAAGAAA
* *
14486351 CAAAATG--A
1 GAAAAAGAAA
14486359 GAAAAAGAAA
1 GAAAAAGAAA
14486369 GAAAAAGAAA
1 GAAAAAGAAA
*
14486379 -AGAAAGAAA
1 GAAAAAGAAA
14486388 GAAA
1 GAAA
14486392 GAAAGTTTTG
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
8 6 0.19
9 8 0.25
10 18 0.56
ACGTcount: A:0.76, C:0.02, G:0.20, T:0.02
Consensus pattern (10 bp):
GAAAAAGAAA
Found at i:14492480 original size:25 final size:25
Alignment explanation
Indices: 14492392--14492544 Score: 162
Period size: 25 Copynumber: 6.0 Consensus size: 25
14492382 ATTTTGATTT
* * *
14492392 TGGCTCGTAAGAGAGTAATTCTGATTT
1 TGGCTCGTAAGGGCGTAATTCTG--TC
* ** * *
14492419 TGGCTTGTAATAGCGTAATTCTAATTT
1 TGGCTCGTAAGGGCGTAATTCT--GTC
* *
14492446 TGGCTTGTAAGTGCGTAATTCTGTC
1 TGGCTCGTAAGGGCGTAATTCTGTC
*
14492471 TGGCTCGTAAGGGCGTAATTTTGTC
1 TGGCTCGTAAGGGCGTAATTCTGTC
*
14492496 TGGCTCGTAAGGGCGTAATTTTGTC
1 TGGCTCGTAAGGGCGTAATTCTGTC
14492521 TGGCTCGTAAGGGCGTAATTCTGT
1 TGGCTCGTAAGGGCGTAATTCTGT
14492545 ATCGGTAGAA
Statistics
Matches: 112, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
25 71 0.63
27 41 0.37
ACGTcount: A:0.20, C:0.14, G:0.28, T:0.38
Consensus pattern (25 bp):
TGGCTCGTAAGGGCGTAATTCTGTC
Found at i:14493906 original size:19 final size:19
Alignment explanation
Indices: 14493882--14493923 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
14493872 AGATAGGATG
14493882 GTGTGAGGGGAACATTCTA
1 GTGTGAGGGGAACATTCTA
14493901 GTGTGAGGGGAACATTCTA
1 GTGTGAGGGGAACATTCTA
14493920 GTGT
1 GTGT
14493924 TTATCGTCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.24, C:0.10, G:0.38, T:0.29
Consensus pattern (19 bp):
GTGTGAGGGGAACATTCTA
Found at i:14501397 original size:21 final size:22
Alignment explanation
Indices: 14501371--14501419 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
14501361 GTATTGTGGG
14501371 TTTTATT-GTTAGATTTGATGA
1 TTTTATTAGTTAGATTTGATGA
**
14501392 TTTTATTAAGTTATTTTTGATGA
1 TTTTATT-AGTTAGATTTGATGA
14501415 TTTTA
1 TTTTA
14501420 GGGTTTAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 7 0.29
23 17 0.71
ACGTcount: A:0.24, C:0.00, G:0.14, T:0.61
Consensus pattern (22 bp):
TTTTATTAGTTAGATTTGATGA
Found at i:14501901 original size:27 final size:27
Alignment explanation
Indices: 14501863--14501976 Score: 165
Period size: 27 Copynumber: 4.2 Consensus size: 27
14501853 ACGACGAAGA
* *
14501863 AATTCTGATTCTAGCTCAAAAGAGCGT
1 AATTCTGATTCTGGCTCATAAGAGCGT
*
14501890 AATTCTGATTCTGGCTCGTAAGAGCGT
1 AATTCTGATTCTGGCTCATAAGAGCGT
* *
14501917 AATTCTGATTCTGGCTTATAAGAGTGT
1 AATTCTGATTCTGGCTCATAAGAGCGT
* *
14501944 AATTCTGATTCTGGCTCGTAGGAGCGT
1 AATTCTGATTCTGGCTCATAAGAGCGT
14501971 AATTCT
1 AATTCT
14501977 ATCTAGCTCG
Statistics
Matches: 77, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 77 1.00
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (27 bp):
AATTCTGATTCTGGCTCATAAGAGCGT
Found at i:14501946 original size:54 final size:54
Alignment explanation
Indices: 14501863--14501985 Score: 187
Period size: 54 Copynumber: 2.3 Consensus size: 54
14501853 ACGACGAAGA
14501863 AATTCTGATTCTAGCTCAAAAGAGCGTAATTCTGATTCTGGCTCGTAAGAGCGT
1 AATTCTGATTCTAGCTCAAAAGAGCGTAATTCTGATTCTGGCTCGTAAGAGCGT
* * * * *
14501917 AATTCTGATTCTGGCTTATAAGAGTGTAATTCTGATTCTGGCTCGTAGGAGCGT
1 AATTCTGATTCTAGCTCAAAAGAGCGTAATTCTGATTCTGGCTCGTAAGAGCGT
14501971 AATTCT-A-TCTAGCTC
1 AATTCTGATTCTAGCTC
14501986 GTAAGGGCAT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
52 6 0.10
53 1 0.02
54 55 0.89
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (54 bp):
AATTCTGATTCTAGCTCAAAAGAGCGTAATTCTGATTCTGGCTCGTAAGAGCGT
Found at i:14501998 original size:25 final size:27
Alignment explanation
Indices: 14501863--14501999 Score: 109
Period size: 27 Copynumber: 5.1 Consensus size: 27
14501853 ACGACGAAGA
** * *
14501863 AATTCTGATTCTAGCTCAAAAGAGCGT
1 AATTCTGATTCTAGCTCGTAGGAGCAT
* * *
14501890 AATTCTGATTCTGGCTCGTAAGAGCGT
1 AATTCTGATTCTAGCTCGTAGGAGCAT
* ** * **
14501917 AATTCTGATTCTGGCTTATAAGAGTGT
1 AATTCTGATTCTAGCTCGTAGGAGCAT
* *
14501944 AATTCTGATTCTGGCTCGTAGGAGCGT
1 AATTCTGATTCTAGCTCGTAGGAGCAT
14501971 AATTCT-A-TCTAGCTCGTAAGG-GCAT
1 AATTCTGATTCTAGCTCGT-AGGAGCAT
14501996 AATT
1 AATT
14502000 TTGTCTGGCT
Statistics
Matches: 97, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
25 16 0.16
26 4 0.04
27 77 0.79
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (27 bp):
AATTCTGATTCTAGCTCGTAGGAGCAT
Found at i:14502010 original size:25 final size:25
Alignment explanation
Indices: 14501884--14502012 Score: 80
Period size: 27 Copynumber: 4.9 Consensus size: 25
14501874 TAGCTCAAAA
* *
14501884 GAGCGTAATTCTGATTCTGGCTCGTAA
1 GAGCATAATTCT-A-TCTGGCTCGTAG
* ** *
14501911 GAGCGTAATTCTGATTCTGGCTTATAA
1 GAGCATAATTCT-A-TCTGGCTCGTAG
**
14501938 GAGTGTAATTCTGATTCTGGCTCGTAG
1 GAGCATAATTCT-A-TCTGGCTCGTAG
* *
14501965 GAGCGTAATTCTATCTAGCTCGTAAG
1 GAGCATAATTCTATCTGGCTCGT-AG
* *
14501991 G-GCATAATTTTGTCTGGCTCGT
1 GAGCATAATTCTATCTGGCTCGT
14502013 GAAAGCAGTA
Statistics
Matches: 89, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
25 26 0.29
26 4 0.04
27 59 0.66
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.36
Consensus pattern (25 bp):
GAGCATAATTCTATCTGGCTCGTAG
Found at i:14505483 original size:35 final size:35
Alignment explanation
Indices: 14505431--14505565 Score: 175
Period size: 35 Copynumber: 3.9 Consensus size: 35
14505421 CTTAGGATCT
* * *
14505431 ATCCC-ACCCAACAAAATTGCACACAAGTGCATTC-
1 ATCCCTACACAACCAAATTGCACAAAAGTGCA-TCA
*
14505465 ATCCCTACACAACCAAATTGTACAAAAGTGCATCA
1 ATCCCTACACAACCAAATTGCACAAAAGTGCATCA
*
14505500 ATCCCTACACAACCAAATTGTACAAAAGTGCATCA
1 ATCCCTACACAACCAAATTGCACAAAAGTGCATCA
* * *
14505535 ATCCCTGCACAACCAAAATGCACCAAAGTGC
1 ATCCCTACACAACCAAATTGCACAAAAGTGC
14505566 TAAGCTCAAA
Statistics
Matches: 91, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
34 7 0.08
35 84 0.92
ACGTcount: A:0.41, C:0.32, G:0.10, T:0.18
Consensus pattern (35 bp):
ATCCCTACACAACCAAATTGCACAAAAGTGCATCA
Found at i:14508280 original size:24 final size:24
Alignment explanation
Indices: 14508253--14508308 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
14508243 TAATTATTAA
***
14508253 AATAAATAACAAAGATTTTATGCT
1 AATAAATAACAAAGATACAATGCT
* *
14508277 AATAAATATCAAATATACAATGCT
1 AATAAATAACAAAGATACAATGCT
14508301 AATAAATA
1 AATAAATA
14508309 CTAAATCTTC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.55, C:0.09, G:0.05, T:0.30
Consensus pattern (24 bp):
AATAAATAACAAAGATACAATGCT
Found at i:14508937 original size:69 final size:69
Alignment explanation
Indices: 14508823--14508991 Score: 223
Period size: 69 Copynumber: 2.4 Consensus size: 69
14508813 GTTGGAGTAT
* * * * *
14508823 CAAATTTGAATGTAAATTGCTGTCCAAAATGGTATTAGATGTATCCATTGCATGCTTC-GAAAAC
1 CAAATTTGAATGTGAATTGCTGTCCAAAATGCTATTAAATATATCCATTACATGCTTCAG-AAAC
14508887 TTGTC
65 TTGTC
* ** *
14508892 CAAATTTGAATGTGAATTGTTGTCCGCAATGCTATTAAATATATCCATTACATGCTTCAGAATCT
1 CAAATTTGAATGTGAATTGCTGTCCAAAATGCTATTAAATATATCCATTACATGCTTCAGAAACT
14508957 TGTC
66 TGTC
* *
14508961 CAAATATGAATGTGAATTGCTATCCAAAATG
1 CAAATTTGAATGTGAATTGCTGTCCAAAATG
14508992 ACATTAATTG
Statistics
Matches: 85, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
69 84 0.99
70 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (69 bp):
CAAATTTGAATGTGAATTGCTGTCCAAAATGCTATTAAATATATCCATTACATGCTTCAGAAACT
TGTC
Found at i:14509008 original size:69 final size:67
Alignment explanation
Indices: 14508823--14509014 Score: 206
Period size: 69 Copynumber: 2.8 Consensus size: 67
14508813 GTTGGAGTAT
* * *
14508823 CAAATTTGAATGTAAATTGCTGTCCAAAATGGTATTAGATGTATCCATTGCATGCTTCGAAAACT
1 CAAATTTGAATGTGAATTGCTGTCCAAAAT-GCATTA-ATGTATCCATTACATGCTTCGAAAACT
14508888 TGTC
64 TGTC
* ** * *
14508892 CAAATTTGAATGTGAATTGTTGTCCGCAATGCTATTAAATATATCCATTACATGCTTC-AGAATC
1 CAAATTTGAATGTGAATTGCTGTCCAAAATGC-ATT-AATGTATCCATTACATGCTTCGA-AAAC
14508956 TTGTC
63 TTGTC
* * * *
14508961 CAAATATGAATGTGAATTGCTATCCAAAATGACATTAATTGTGTCCATTTCATG
1 CAAATTTGAATGTGAATTGCTGTCCAAAATG-CATTAA-TGTATCCATTACATG
14509015 TTTTAAGATC
Statistics
Matches: 102, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
68 4 0.04
69 96 0.94
70 2 0.02
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (67 bp):
CAAATTTGAATGTGAATTGCTGTCCAAAATGCATTAATGTATCCATTACATGCTTCGAAAACTTG
TC
Found at i:14509352 original size:59 final size:59
Alignment explanation
Indices: 14509276--14509424 Score: 208
Period size: 59 Copynumber: 2.5 Consensus size: 59
14509266 TTAATATAAT
* * * ** *
14509276 ATTTGATACTTGAACTTGATACTTTTTCCTAATTCGGTACCTAAAATTTTTTTTACTCA
1 ATTTGATACCTGAACTTGATATTTTTTCCTAATTCGGTACCTAAAACTTTTTGGACCCA
* * *
14509335 ATTTGGTACCTGAACTTGACATTTTTTCCTAATTCGGTACCTAAACCTTTTTGGACCCA
1 ATTTGATACCTGAACTTGATATTTTTTCCTAATTCGGTACCTAAAACTTTTTGGACCCA
*
14509394 ATTTGATACCTGAACTTGATGTTTTTTCCTA
1 ATTTGATACCTGAACTTGATATTTTTTCCTA
14509425 TTTAGTGTAA
Statistics
Matches: 78, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
59 78 1.00
ACGTcount: A:0.25, C:0.19, G:0.11, T:0.44
Consensus pattern (59 bp):
ATTTGATACCTGAACTTGATATTTTTTCCTAATTCGGTACCTAAAACTTTTTGGACCCA
Found at i:14509374 original size:31 final size:30
Alignment explanation
Indices: 14509286--14509376 Score: 89
Period size: 31 Copynumber: 3.0 Consensus size: 30
14509276 ATTTGATACT
*
14509286 TGAACTTGATACTTTTTCCTAATTCGGTACC
1 TGAACTTGA-ATTTTTTCCTAATTCGGTACC
* * * *
14509317 TAAAATT---TTTTTTACTCAATTTGGTACC
1 TGAACTTGAATTTTTTCCT-AATTCGGTACC
14509345 TGAACTTGACATTTTTTCCTAATTCGGTACC
1 TGAACTTGA-ATTTTTTCCTAATTCGGTACC
14509376 T
1 T
14509377 AAACCTTTTT
Statistics
Matches: 46, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
27 7 0.15
28 15 0.33
31 16 0.35
32 8 0.17
ACGTcount: A:0.24, C:0.20, G:0.11, T:0.45
Consensus pattern (30 bp):
TGAACTTGAATTTTTTCCTAATTCGGTACC
Found at i:14518976 original size:31 final size:32
Alignment explanation
Indices: 14518911--14518973 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
14518901 AAAATGGGAT
*
14518911 TTTAGATTCTTTAAAAGTTAAAAAAAAAAAAA
1 TTTAGATCCTTTAAAAGTTAAAAAAAAAAAAA
* **
14518943 TTTAGATCCTTTGAAAGTTAGTAAAAAAAAA
1 TTTAGATCCTTTAAAAGTTAAAAAAAAAAAA
14518974 TTTGGACCCT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.54, C:0.05, G:0.10, T:0.32
Consensus pattern (32 bp):
TTTAGATCCTTTAAAAGTTAAAAAAAAAAAAA
Found at i:14525581 original size:12 final size:12
Alignment explanation
Indices: 14525564--14525589 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
14525554 AGTAAATTGA
14525564 AACACAAGTAGT
1 AACACAAGTAGT
14525576 AACACAAGTAGT
1 AACACAAGTAGT
14525588 AA
1 AA
14525590 ATGTTTTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.15, G:0.15, T:0.15
Consensus pattern (12 bp):
AACACAAGTAGT
Found at i:14527560 original size:41 final size:41
Alignment explanation
Indices: 14527494--14527804 Score: 430
Period size: 41 Copynumber: 7.6 Consensus size: 41
14527484 GCAATAGCAG
* *
14527494 CGCTGAAA-GTCAGAGCATTAGCGGCGCTTTATCATAAATGC
1 CGCT-AAAGGTCAGAGCATTAGCGGCGCTTTCTCATAAACGC
* * * *
14527535 CGCTAAAGATCAGAGCATTAGCGGCGCTTCCTCTTAAATGC
1 CGCTAAAGGTCAGAGCATTAGCGGCGCTTTCTCATAAACGC
* *
14527576 C-CTAAAGGTCTGGGCATTAGCGGCGCTTTCTCATAAACGC
1 CGCTAAAGGTCAGAGCATTAGCGGCGCTTTCTCATAAACGC
* *
14527616 CGCTAAAGGTCAGATCATTAGCGGCGCTTTCTCAAAAACGC
1 CGCTAAAGGTCAGAGCATTAGCGGCGCTTTCTCATAAACGC
* *
14527657 CGCT-AAGGTTAGAGCATTAGCGGCGCTTTCTCATAAACGT
1 CGCTAAAGGTCAGAGCATTAGCGGCGCTTTCTCATAAACGC
* * * *
14527697 CGTTAAAGGTCAGAGCATTAGCGGCGCTTTCACATAAATGT
1 CGCTAAAGGTCAGAGCATTAGCGGCGCTTTCTCATAAACGC
* *
14527738 CGCTAAATGTCAGAGCATTAGCGGCGCTTTCTCATAAACAC
1 CGCTAAAGGTCAGAGCATTAGCGGCGCTTTCTCATAAACGC
14527779 CGCTAAAGGTCAGAGCATTAGCGGCG
1 CGCTAAAGGTCAGAGCATTAGCGGCG
14527805 TTTATGTGAA
Statistics
Matches: 238, Mismatches: 29, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
40 72 0.30
41 166 0.70
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.24
Consensus pattern (41 bp):
CGCTAAAGGTCAGAGCATTAGCGGCGCTTTCTCATAAACGC
Found at i:14527643 original size:81 final size:81
Alignment explanation
Indices: 14527506--14527804 Score: 413
Period size: 81 Copynumber: 3.7 Consensus size: 81
14527496 CTGAAAGTCA
* * * * *
14527506 GAGCATTAGCGGCGCTTTATCATAAATGCCGCTAAAGATCAGAGCATTAGCGGCGCTTCCTCTTA
1 GAGCATTAGCGGCGCTTTCTCATAAACGCCGCTAAAGGTCAGAGCATTAGCGGCGCTTTCTCATA
14527571 AATGCCCTAAAGGTCT
66 AATGCCCTAAAGGTCT
* * *
14527587 GGGCATTAGCGGCGCTTTCTCATAAACGCCGCTAAAGGTCAGATCATTAGCGGCGCTTTCTCAAA
1 GAGCATTAGCGGCGCTTTCTCATAAACGCCGCTAAAGGTCAGAGCATTAGCGGCGCTTTCTCATA
*
14527652 AACGCCGCT-AAGGT-T
66 AATGCC-CTAAAGGTCT
* * *
14527667 AGAGCATTAGCGGCGCTTTCTCATAAACGTCGTTAAAGGTCAGAGCATTAGCGGCGCTTTCACAT
1 -GAGCATTAGCGGCGCTTTCTCATAAACGCCGCTAAAGGTCAGAGCATTAGCGGCGCTTTCTCAT
* * *
14527732 AAATGTCGCTAAATGTCA
65 AAATG-CCCTAAAGGTCT
*
14527750 GAGCATTAGCGGCGCTTTCTCATAAACACCGCTAAAGGTCAGAGCATTAGCGGCG
1 GAGCATTAGCGGCGCTTTCTCATAAACGCCGCTAAAGGTCAGAGCATTAGCGGCG
14527805 TTTATGTGAA
Statistics
Matches: 191, Mismatches: 22, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
80 1 0.01
81 131 0.69
82 59 0.31
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.24
Consensus pattern (81 bp):
GAGCATTAGCGGCGCTTTCTCATAAACGCCGCTAAAGGTCAGAGCATTAGCGGCGCTTTCTCATA
AATGCCCTAAAGGTCT
Found at i:14527719 original size:122 final size:121
Alignment explanation
Indices: 14527494--14527804 Score: 426
Period size: 122 Copynumber: 2.5 Consensus size: 121
14527484 GCAATAGCAG
* * *
14527494 CGCTGAAAGTCAGAGCATTAGCGGCGCTTTATCATAAATGCCGCTAAAGATCAGAGCATTAGCGG
1 CGCT-AAAGTCAGAGCATTAGCGGCGCTTTCTCATAAACGCCGCTAAAGGTCAGAGCATTAGCGG
* * * * *
14527559 CGCTTCCTCTTAAATGCCCTAAAGGTCTGGGCATTAGCGGCGCTTTCTCATAAACGC
65 CGCTTCCTCATAAACGCCCTAAAGGTCAGAGCATTAGCGGCGCTTTCACATAAACGC
* * *
14527616 CGCTAAAGGTCAGATCATTAGCGGCGCTTTCTCAAAAACGCCGCT-AAGGTTAGAGCATTAGCGG
1 CGCTAAA-GTCAGAGCATTAGCGGCGCTTTCTCATAAACGCCGCTAAAGGTCAGAGCATTAGCGG
* ** * *
14527680 CGCTTTCTCATAAACGTCGTTAAAGGTCAGAGCATTAGCGGCGCTTTCACATAAATGT
65 CGCTTCCTCATAAACG-CCCTAAAGGTCAGAGCATTAGCGGCGCTTTCACATAAACGC
*
14527738 CGCTAAATGTCAGAGCATTAGCGGCGCTTTCTCATAAACACCGCTAAAGGTCAGAGCATTAGCGG
1 CGCTAAA-GTCAGAGCATTAGCGGCGCTTTCTCATAAACGCCGCTAAAGGTCAGAGCATTAGCGG
14527803 CG
65 CG
14527805 TTTATGTGAA
Statistics
Matches: 165, Mismatches: 21, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
121 33 0.20
122 112 0.68
123 20 0.12
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.24
Consensus pattern (121 bp):
CGCTAAAGTCAGAGCATTAGCGGCGCTTTCTCATAAACGCCGCTAAAGGTCAGAGCATTAGCGGC
GCTTCCTCATAAACGCCCTAAAGGTCAGAGCATTAGCGGCGCTTTCACATAAACGC
Found at i:14529476 original size:21 final size:21
Alignment explanation
Indices: 14529452--14529493 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
14529442 TTCAAATACA
14529452 TAATAATTT-AAATAATATTTT
1 TAATAATTTCAAAT-ATATTTT
*
14529473 TAATTATTTCAAATATATTTT
1 TAATAATTTCAAATATATTTT
14529494 ACCATCTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (21 bp):
TAATAATTTCAAATATATTTT
Found at i:14529867 original size:41 final size:42
Alignment explanation
Indices: 14529822--14529941 Score: 143
Period size: 41 Copynumber: 2.9 Consensus size: 42
14529812 AAAAGTCAAG
*
14529822 CAATAGCGGCGTTTTTCCATAAATGCCGCAAAAGGT-TAGAA
1 CAATAGCGGCGTTTTTCCATAAATGCCGCAAAAGGTCCAGAA
* ** * * *
14529863 CAATAGCGGCATTTTTGGAAAAATGCAGCAAAAGGTCCAGAG
1 CAATAGCGGCGTTTTTCCATAAATGCCGCAAAAGGTCCAGAA
* *
14529905 CATTAGCGGCGTTTTTCTCATAAATGCCGCTAAAGGT
1 CAATAGCGGCGTTTTTC-CATAAATGCCGCAAAAGGT
14529942 ATTGCAATAA
Statistics
Matches: 63, Mismatches: 14, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
41 31 0.49
42 17 0.27
43 15 0.24
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (42 bp):
CAATAGCGGCGTTTTTCCATAAATGCCGCAAAAGGTCCAGAA
Found at i:14530110 original size:19 final size:19
Alignment explanation
Indices: 14530088--14530125 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
14530078 TTTCTCATTC
*
14530088 ATTTCTAAATTCCTAATTT
1 ATTTCTAAATCCCTAATTT
14530107 ATTTCTAAATCCCTAATTT
1 ATTTCTAAATCCCTAATTT
14530126 CCACCAACAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.18, G:0.00, T:0.50
Consensus pattern (19 bp):
ATTTCTAAATCCCTAATTT
Found at i:14533159 original size:14 final size:14
Alignment explanation
Indices: 14533136--14533168 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
14533126 TATTAAACCC
14533136 TAAA-TCAAAATAT
1 TAAATTCAAAATAT
*
14533149 TTAATTCAAAATAT
1 TAAATTCAAAATAT
14533163 TAAATT
1 TAAATT
14533169 ATTAAATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 3 0.18
14 14 0.82
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (14 bp):
TAAATTCAAAATAT
Found at i:14533245 original size:16 final size:16
Alignment explanation
Indices: 14533178--14533232 Score: 67
Period size: 17 Copynumber: 3.4 Consensus size: 16
14533168 TATTAAATTA
*
14533178 TATTTAAATAAAT-AT
1 TATTTAAATAATTAAT
* *
14533193 TATTAAAAAAATTGAAT
1 TATTTAAATAATT-AAT
14533210 TATTTAAATAATTAAT
1 TATTTAAATAATTAAT
14533226 TATTTAA
1 TATTTAA
14533233 TTAGTTATTT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
15 10 0.30
16 10 0.30
17 13 0.39
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (16 bp):
TATTTAAATAATTAAT
Found at i:14533512 original size:14 final size:14
Alignment explanation
Indices: 14533489--14533521 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
14533479 TATTAAACCC
14533489 TAAA-TCAAAATAT
1 TAAATTCAAAATAT
*
14533502 TTAATTCAAAATAT
1 TAAATTCAAAATAT
14533516 TAAATT
1 TAAATT
14533522 ATTAAATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 3 0.18
14 14 0.82
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (14 bp):
TAAATTCAAAATAT
Found at i:14533514 original size:121 final size:121
Alignment explanation
Indices: 14532855--14533802 Score: 1248
Period size: 121 Copynumber: 7.9 Consensus size: 121
14532845 AACTCAATTA
* *
14532855 AAATAATTAATTATTTAATTAGTTATTTATT-AACCCTTAAACTCAAATATTTAATTTAAAATAT
1 AAATAATTAATTATTTAATTAGTTATTTATTAAACCC-TAAACCCAAATATTTAATTCAAAATAT
* * * *
14532919 TAAATTATTTAAATATA-TTAAATAAA-ATTTAAATTATTAAAAATAGAACTCAATTAAATT
65 TAAATTATTTAATTATATTTAAATAAATA-TTAAATTATT-AAAA-A-AATTAAATT-ATTT
* * * * * *
14532979 AATTAATTAATTAATTATTTATTTATTTATTAAACCTTAAACTCAAATATTTAATTCAAAATATT
1 AAATAATTAATTATTTAATTAGTTATTTATTAAACCCTAAACCCAAATATTTAATTCAAAATATT
* * ** * *
14533044 AAATTATTCAATTATA-TTAAATAAATATTAAATTATTAAAAATAGAAAAATATTA
66 AAATTATTTAATTATATTTAAATAAATATTAAATTATTAAAAAAATTAAATTATTT
* *
14533099 AAATAATTAATTATTTAATTAGTTATTTATTAAACCCTAAATCAAAATATTTAATTCAAAATATT
1 AAATAATTAATTATTTAATTAGTTATTTATTAAACCCTAAACCCAAATATTTAATTCAAAATATT
* *
14533164 AAATTATTAAATTATATTTAAAT-AA-A-T--ATTATTAAAAAAATTGAATTATTT
66 AAATTATTTAATTATATTTAAATAAATATTAAATTATTAAAAAAATTAAATTATTT
* * *
14533215 AAATAATTAATTATTTAATTAGTTATTTATT-AACCTTTAAACTCAAATATTTAATTTAAAATAT
1 AAATAATTAATTATTTAATTAGTTATTTATTAAACC-CTAAACCCAAATATTTAATTCAAAATAT
* * * * * *
14533279 TAAATTATTTAAATATA-TTAAATAAA-ATTTAAATTATTAAAAATA-GAACTCAATT
65 TAAATTATTTAATTATATTTAAATAAATA-TTAAATTATTAAAAAAATTAAATTATTT
* * * *
14533334 --A-AATTAATTAATTAATTAATTATTTATTAAACCTTAAACTCAAATATTTAATTCAAAATATT
1 AAATAATTAATTATTTAATTAGTTATTTATTAAACCCTAAACCCAAATATTTAATTCAAAATATT
* * * *
14533396 AAATTATTCAATTATA-TTAAATAAATATTAAATTATTAAAAATAGA-AAAAATATTA
66 AAATTATTTAATTATATTTAAATAAATATTAAATTATTAAAAA-A-ATTAAATTATTT
* *
14533452 AAATAATTAATTATTTAATTAGTTATTTATTAAACCCTAAATCAAAATATTTAATTCAAAATATT
1 AAATAATTAATTATTTAATTAGTTATTTATTAAACCCTAAACCCAAATATTTAATTCAAAATATT
* *
14533517 AAATTATTAAATTATATTTAAATAAATATTAAATTATTAAAAAAATTGAATTATTT
66 AAATTATTTAATTATATTTAAATAAATATTAAATTATTAAAAAAATTAAATTATTT
* *
14533573 AAATAATTAATTATTTAATTAGTTATTTATTAAATCTTAAACCCAAATATTTAATTCAAAATATT
1 AAATAATTAATTATTTAATTAGTTATTTATTAAACCCTAAACCCAAATATTTAATTCAAAATATT
*
14533638 AAATTATTTAATTATATTTAAATAAATATTAAATTATTAAAAACAATTTAATTATTT
66 AAATTATTTAATTATATTTAAATAAATATTAAATTATTAAAAA-AATTAAATTATTT
*
14533695 AAATAATTAATTATTTAATTAGTTATTTATTAAATCCTAAACCCAAATATTTAATTCAAAATATT
1 AAATAATTAATTATTTAATTAGTTATTTATTAAACCCTAAACCCAAATATTTAATTCAAAATATT
14533760 AAATTATTTAATTATATTTAAATAAATATTAAATTATTAAAAA
66 AAATTATTTAATTATATTTAAATAAATATTAAATTATTAAAAA
14533803 CAACCGAATT
Statistics
Matches: 732, Mismatches: 73, Indels: 40
0.87 0.09 0.05
Matches are distributed among these distances:
115 10 0.01
116 181 0.25
117 6 0.01
118 7 0.01
119 6 0.01
120 90 0.12
121 190 0.26
122 146 0.20
123 4 0.01
124 87 0.12
125 5 0.01
ACGTcount: A:0.50, C:0.05, G:0.01, T:0.43
Consensus pattern (121 bp):
AAATAATTAATTATTTAATTAGTTATTTATTAAACCCTAAACCCAAATATTTAATTCAAAATATT
AAATTATTTAATTATATTTAAATAAATATTAAATTATTAAAAAAATTAAATTATTT
Found at i:14533546 original size:30 final size:30
Alignment explanation
Indices: 14533510--14533678 Score: 102
Period size: 30 Copynumber: 5.6 Consensus size: 30
14533500 ATTTAATTCA
14533510 AAATATTAAATTATTAAATTATATTTAAAT
1 AAATATTAAATTATTAAATTATATTTAAAT
* * *
14533540 AAATATTAAATTATTAAA-AAAATTGAATTATTT
1 AAATATTAAATTATTAAATTATATTTAA--A--T
* *
14533573 AAATAATT-AATTATTTAATTAGTTATTT-ATT
1 AAAT-ATTAAATTATTAAATTA--TATTTAAAT
* *** *
14533604 AAATCTT-AA--ACCCAA--ATATTTAATT
1 AAATATTAAATTATTAAATTATATTTAAAT
*
14533629 CAAAATATTAAATTATTTAATTATATTTAAAT
1 --AAATATTAAATTATTAAATTATATTTAAAT
14533661 AAATATTAAATTATTAAA
1 AAATATTAAATTATTAAA
14533679 AACAATTTAA
Statistics
Matches: 105, Mismatches: 18, Indels: 32
0.68 0.12 0.21
Matches are distributed among these distances:
24 5 0.05
25 3 0.03
26 1 0.01
27 6 0.06
28 5 0.05
29 6 0.06
30 42 0.40
31 6 0.06
32 9 0.09
33 14 0.13
34 4 0.04
35 1 0.01
36 3 0.03
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (30 bp):
AAATATTAAATTATTAAATTATATTTAAAT
Found at i:14533603 original size:16 final size:16
Alignment explanation
Indices: 14533539--14533590 Score: 61
Period size: 17 Copynumber: 3.2 Consensus size: 16
14533529 TATATTTAAA
14533539 TAAAT-ATTAAATTATT
1 TAAATAATT-AATTATT
* *
14533555 AAAAAAATTGAATTATT
1 TAAATAATT-AATTATT
14533572 TAAATAATTAATTATT
1 TAAATAATTAATTATT
14533588 TAA
1 TAA
14533591 TTAGTTATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
16 13 0.43
17 17 0.57
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (16 bp):
TAAATAATTAATTATT
Found at i:14533668 original size:64 final size:64
Alignment explanation
Indices: 14533600--14533793 Score: 217
Period size: 64 Copynumber: 3.1 Consensus size: 64
14533590 ATTAGTTATT
14533600 TATTAAATCTTAAACCCAAATATTTAATTCAAAATATTAAATTATTTAATTATATTTAAATAAA
1 TATTAAATCTTAAACCCAAATATTTAATTCAAAATATTAAATTATTTAATTATATTTAAATAAA
* ** * * * *
14533664 TATTAAATTATTAAAAACAATTTAATT-ATT-TAAATAATT-AATTATTTAA-T-TAGTT--AT-
1 TATTAAA-TCTTAAACCCAA-ATATTTAATTCAAAAT-ATTAAATTATTTAATTATATTTAAATA
*
14533721 -T
63 AA
*
14533722 TATTAAATCCTAAACCCAAATATTTAATTCAAAATATTAAATTATTTAATTATATTTAAATAAA
1 TATTAAATCTTAAACCCAAATATTTAATTCAAAATATTAAATTATTTAATTATATTTAAATAAA
14533786 TATTAAAT
1 TATTAAAT
14533794 TATTAAAAAC
Statistics
Matches: 101, Mismatches: 17, Indels: 24
0.71 0.12 0.17
Matches are distributed among these distances:
56 4 0.04
57 14 0.14
58 21 0.21
59 1 0.01
60 6 0.06
62 6 0.06
63 1 0.01
64 29 0.29
65 15 0.15
66 4 0.04
ACGTcount: A:0.49, C:0.06, G:0.01, T:0.44
Consensus pattern (64 bp):
TATTAAATCTTAAACCCAAATATTTAATTCAAAATATTAAATTATTTAATTATATTTAAATAAA
Found at i:14533677 original size:19 final size:20
Alignment explanation
Indices: 14533652--14533700 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
14533642 TATTTAATTA
14533652 TATTTAAATAA-ATATTAAAT
1 TATTTAAATAACA-ATTAAAT
*
14533672 TA-TTAAA-AACAATTTAAT
1 TATTTAAATAACAATTAAAT
14533690 TATTTAAATAA
1 TATTTAAATAA
14533701 TTAATTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 10 0.40
19 11 0.44
20 4 0.16
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (20 bp):
TATTTAAATAACAATTAAAT
Found at i:14533687 original size:30 final size:30
Alignment explanation
Indices: 14533631--14533688 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
14533621 ATTTAATTCA
** *
14533631 AAATATTAAATTATTTAATTATATTTAAAT
1 AAATATTAAATTATTTAAAAAAATTTAAAT
14533661 AAATATTAAATTA-TTAAAAACAATTTAA
1 AAATATTAAATTATTTAAAAA-AATTTAA
14533689 TTATTTAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (30 bp):
AAATATTAAATTATTTAAAAAAATTTAAAT
Found at i:14533694 original size:8 final size:8
Alignment explanation
Indices: 14533683--14533725 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
14533673 ATTAAAAACA
14533683 ATTTAATT
1 ATTTAATT
*
14533691 ATTTAAAT
1 ATTTAATT
*
14533699 AATTAATT
1 ATTTAATT
14533707 ATTTAATT
1 ATTTAATT
* *
14533715 AGTTATTT
1 ATTTAATT
14533723 ATT
1 ATT
14533726 AAATCCTAAA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (8 bp):
ATTTAATT
Found at i:14533704 original size:360 final size:353
Alignment explanation
Indices: 14532855--14533802 Score: 1503
Period size: 358 Copynumber: 2.6 Consensus size: 353
14532845 AACTCAATTA
*
14532855 AAATAATTAATTATTTAATTAGTTATTTATTAACCCTTAAACTCAAATATTTAATTTAAAATATT
1 AAATAATTAATTATTTAATTAGTTATTTATTAAACCTTAAACTCAAATATTTAATTTAAAATATT
14532920 AAATTATTTAAATATATTAAATAAAATTTAAATTATTAAAAATAGAACTCAATTAAATTAATTAA
66 AAATTATTTAAATATATTAAATAAAATTTAAATTATT--AAA-A-AA--CAATTAAATT-ATTAA
* *
14532985 TTAATTAATTATTTATTTATTTATTAAACCTTAAACTCAAATATTTAATTCAAAATATTAAATTA
124 TTAATTAATTAATTAATTATTTATTAAACCTTAAACTCAAATATTTAATTCAAAATATTAAATTA
14533050 TTCAATTATATTAAATAAATATTAAATTATTAAAAATAGAAAAATATTAAAATAATTAATTATTT
189 TTCAATTATATTAAATAAATATTAAATTATTAAAAATAGAAAAATATTAAAATAATTAATTATTT
14533115 AATTAGTTATTTATTAAACCCTAAATCAAAATATTTAATTCAAAATATTAAATTATTAAATTATA
254 AATTAGTTATTTATTAAACCCTAAATCAAAATATTTAATTCAAAATATTAAATTATTAAATTATA
14533180 TTTAAATAAATATTATTAAAAAAATTGAATTATTT
319 TTTAAATAAATATTATTAAAAAAATTGAATTATTT
14533215 AAATAATTAATTATTTAATTAGTTATTTATT-AACCTTTAAACTCAAATATTTAATTTAAAATAT
1 AAATAATTAATTATTTAATTAGTTATTTATTAAACC-TTAAACTCAAATATTTAATTTAAAATAT
* * *
14533279 TAAATTATTTAAATATATTAAATAAAATTTAAATTATTAAAAATAGAACTCAATTA--AATTAAT
65 TAAATTATTTAAATATATTAAATAAAATTTAAATTATTAAAAA-ACAATTAAATTATTAATTAAT
14533342 TAATTAATTAATTATTTATTAAACCTTAAACTCAAATATTTAATTCAAAATATTAAATTATTCAA
129 TAATTAATTAATTATTTATTAAACCTTAAACTCAAATATTTAATTCAAAATATTAAATTATTCAA
14533407 TTATATTAAATAAATATTAAATTATTAAAAATAGAAAAAATATTAAAATAATTAATTATTTAATT
194 TTATATTAAATAAATATTAAATTATTAAAAATAG-AAAAATATTAAAATAATTAATTATTTAATT
14533472 AGTTATTTATTAAACCCTAAATCAAAATATTTAATTCAAAATATTAAATTATTAAATTATATTTA
258 AGTTATTTATTAAACCCTAAATCAAAATATTTAATTCAAAATATTAAATTATTAAATTATATTTA
14533537 AATAAATATTAAATTATTAAAAAAATTGAATTATTT
323 AAT-AA-A-T--ATTATTAAAAAAATTGAATTATTT
* * *
14533573 AAATAATTAATTATTTAATTAGTTATTTATTAAATCTTAAACCCAAATATTTAATTCAAAATATT
1 AAATAATTAATTATTTAATTAGTTATTTATTAAACCTTAAACTCAAATATTTAATTTAAAATATT
* *
14533638 AAATTATTTAATTATATTTAAAT-AAATATTAAATTATT-AAAAACAATTTAATTATTTAAATAA
66 AAATTATTTAAATATA-TTAAATAAAAT-TTAAATTATTAAAAAACAA-TTAA--A-TT-ATTAA
* * *
14533701 TTAATTATTTAATTAGTTATTTATTAAATCC-TAAACCCAAATATTTAATTCAAAATATTAAATT
124 TTAATTAATTAATTAATTATTTATTAAA-CCTTAAACTCAAATATTTAATTCAAAATATTAAATT
*
14533765 ATTTAATTATATTTAAATAAATATTAAATTATTAAAAA
188 ATTCAATTATA-TTAAATAAATATTAAATTATTAAAAA
14533803 CAACCGAATT
Statistics
Matches: 551, Mismatches: 17, Indels: 35
0.91 0.03 0.06
Matches are distributed among these distances:
352 104 0.19
353 98 0.18
354 3 0.01
355 8 0.01
356 2 0.00
357 5 0.01
358 110 0.20
359 22 0.04
360 98 0.18
361 2 0.00
362 1 0.00
364 70 0.13
365 28 0.05
ACGTcount: A:0.50, C:0.05, G:0.01, T:0.43
Consensus pattern (353 bp):
AAATAATTAATTATTTAATTAGTTATTTATTAAACCTTAAACTCAAATATTTAATTTAAAATATT
AAATTATTTAAATATATTAAATAAAATTTAAATTATTAAAAAACAATTAAATTATTAATTAATTA
ATTAATTAATTATTTATTAAACCTTAAACTCAAATATTTAATTCAAAATATTAAATTATTCAATT
ATATTAAATAAATATTAAATTATTAAAAATAGAAAAATATTAAAATAATTAATTATTTAATTAGT
TATTTATTAAACCCTAAATCAAAATATTTAATTCAAAATATTAAATTATTAAATTATATTTAAAT
AAATATTATTAAAAAAATTGAATTATTT
Found at i:14539740 original size:42 final size:42
Alignment explanation
Indices: 14539681--14539774 Score: 170
Period size: 42 Copynumber: 2.2 Consensus size: 42
14539671 AACTTAAAAC
*
14539681 GAAGGTAGCAGCAAAGGAAGCGGAGGCAGCAGCGAGAGAAGT
1 GAAGGAAGCAGCAAAGGAAGCGGAGGCAGCAGCGAGAGAAGT
*
14539723 GAAGGAAGCAGCAAAGGAAGCGGAGGCAGCAGTGAGAGAAGT
1 GAAGGAAGCAGCAAAGGAAGCGGAGGCAGCAGCGAGAGAAGT
14539765 GAAGGAAGCA
1 GAAGGAAGCA
14539775 ACAAGAGAAG
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.40, C:0.13, G:0.43, T:0.04
Consensus pattern (42 bp):
GAAGGAAGCAGCAAAGGAAGCGGAGGCAGCAGCGAGAGAAGT
Found at i:14539781 original size:21 final size:21
Alignment explanation
Indices: 14539680--14539796 Score: 94
Period size: 21 Copynumber: 5.6 Consensus size: 21
14539670 CAACTTAAAA
*
14539680 CGAAGGTAGCAGCAA-AGGAAG
1 CGAAGGAAGCAGCAAGA-GAAG
* * *
14539701 CGGAGGCAGCAGCGAGAGAAG
1 CGAAGGAAGCAGCAAGAGAAG
*
14539722 TGAAGGAAGCAGCAA-AGGAAG
1 CGAAGGAAGCAGCAAGA-GAAG
* * **
14539743 CGGAGGCAGCAGTGAGAGAAG
1 CGAAGGAAGCAGCAAGAGAAG
* *
14539764 TGAAGGAAGCAACAAGAGAAG
1 CGAAGGAAGCAGCAAGAGAAG
*
14539785 CGAAAGAAGCAG
1 CGAAGGAAGCAG
14539797 AGGCAACAAG
Statistics
Matches: 72, Mismatches: 21, Indels: 6
0.73 0.21 0.06
Matches are distributed among these distances:
20 1 0.01
21 69 0.96
22 2 0.03
ACGTcount: A:0.43, C:0.14, G:0.40, T:0.03
Consensus pattern (21 bp):
CGAAGGAAGCAGCAAGAGAAG
Found at i:14539785 original size:42 final size:42
Alignment explanation
Indices: 14539681--14539786 Score: 160
Period size: 42 Copynumber: 2.5 Consensus size: 42
14539671 AACTTAAAAC
* *
14539681 GAAGGTAGCAGCAAAGGAAGCGGAGGCAGCAGCGAGAGAAGT
1 GAAGGAAGCAACAAAGGAAGCGGAGGCAGCAGCGAGAGAAGT
* *
14539723 GAAGGAAGCAGCAAAGGAAGCGGAGGCAGCAGTGAGAGAAGT
1 GAAGGAAGCAACAAAGGAAGCGGAGGCAGCAGCGAGAGAAGT
14539765 GAAGGAAGCAAC-AAGAGAAGCG
1 GAAGGAAGCAACAAAG-GAAGCG
14539787 AAAGAAGCAG
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
41 3 0.05
42 57 0.95
ACGTcount: A:0.42, C:0.13, G:0.42, T:0.04
Consensus pattern (42 bp):
GAAGGAAGCAACAAAGGAAGCGGAGGCAGCAGCGAGAGAAGT
Found at i:14540026 original size:15 final size:15
Alignment explanation
Indices: 14540006--14540035 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
14539996 GAAGTTATTG
14540006 GTTGGATTTGAATTT
1 GTTGGATTTGAATTT
14540021 GTTGGATTTGAATTT
1 GTTGGATTTGAATTT
14540036 ACAAGAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.00, G:0.27, T:0.53
Consensus pattern (15 bp):
GTTGGATTTGAATTT
Found at i:14540225 original size:43 final size:43
Alignment explanation
Indices: 14540100--14540422 Score: 364
Period size: 43 Copynumber: 7.5 Consensus size: 43
14540090 AGCTGTTAAT
* * * * * *
14540100 TTTAGCGACGTTTATGGGAAAAATGCAGCTAAAGA--ATATTAT
1 TTTAGCGGCGTTTGTGGGAAAAGTGCCGCTAAAGACCATGTT-C
* * * *
14540142 TTATAGCGGCGTTTATGGGCAAAAGCGCTGCTAAATACCATGTTC
1 TT-TAGCGGCGTTTGTGGG-AAAAGTGCCGCTAAAGACCATGTTC
*
14540187 TTTAGCGGCGTTTGTGGCAAAAGTGCCGCTAAAGACCATGTTC
1 TTTAGCGGCGTTTGTGGGAAAAGTGCCGCTAAAGACCATGTTC
* * *
14540230 TTTAGCGGCGTTTGTTGGTAAAGTGCCGCTAAAAACCATGTTC
1 TTTAGCGGCGTTTGTGGGAAAAGTGCCGCTAAAGACCATGTTC
* * * * * *
14540273 TTGAACAGCTTTTGTGGGAAAAGCGCCACTAAAGACCATGTTC
1 TTTAGCGGCGTTTGTGGGAAAAGTGCCGCTAAAGACCATGTTC
14540316 TTTAGCGGCGTTTGTGGGAAAAGTGCCGCTAAAGACCATGTTC
1 TTTAGCGGCGTTTGTGGGAAAAGTGCCGCTAAAGACCATGTTC
* * *
14540359 TATAGCGGCATTTATGGG-AAAGTGCCGCTAAAGACCATGTTC
1 TTTAGCGGCGTTTGTGGGAAAAGTGCCGCTAAAGACCATGTTC
* * *
14540401 TTTAACGACATTTGTGGGAAAA
1 TTTAGCGGCGTTTGTGGGAAAA
14540423 AGCGCCATGT
Statistics
Matches: 238, Mismatches: 38, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
42 40 0.17
43 165 0.69
44 27 0.11
45 2 0.01
46 4 0.02
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGTGCCGCTAAAGACCATGTTC
Found at i:14540331 original size:129 final size:129
Alignment explanation
Indices: 14540157--14540429 Score: 406
Period size: 129 Copynumber: 2.1 Consensus size: 129
14540147 GCGGCGTTTA
* ** *
14540157 TGGGCAAAAGCGCTGCTAAATACCATGTTCTTTAGCGGCGTTTGTGGCAAAAGTGCCGCTAAAGA
1 TGGGAAAAAGCGCCACTAAAGACCATGTTCTTTAGCGGCGTTTGTGGCAAAAGTGCCGCTAAAGA
* * * * *
14540222 CCATGTTCTTTAGCGGCGTTTGTTGGTAAAGTGCCGCTAAAAACCATGTTCTTGAAC-AGCTTTT
66 CCATGTTCTATAGCGGCATTT-ATGGGAAAGTGCCGCTAAAAACCATGTTCTTGAACGA-CATTT
14540286 G
129 G
*
14540287 TGGG-AAAAGCGCCACTAAAGACCATGTTCTTTAGCGGCGTTTGTGGGAAAAGTGCCGCTAAAGA
1 TGGGAAAAAGCGCCACTAAAGACCATGTTCTTTAGCGGCGTTTGTGGCAAAAGTGCCGCTAAAGA
* *
14540351 CCATGTTCTATAGCGGCATTTATGGGAAAGTGCCGCTAAAGACCATGTTCTTTAACGACATTTG
66 CCATGTTCTATAGCGGCATTTATGGGAAAGTGCCGCTAAAAACCATGTTCTTGAACGACATTTG
14540415 TGGGAAAAAGCGCCA
1 TGGGAAAAAGCGCCA
14540430 TGTTGCATCT
Statistics
Matches: 130, Mismatches: 11, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
128 40 0.31
129 86 0.66
130 4 0.03
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (129 bp):
TGGGAAAAAGCGCCACTAAAGACCATGTTCTTTAGCGGCGTTTGTGGCAAAAGTGCCGCTAAAGA
CCATGTTCTATAGCGGCATTTATGGGAAAGTGCCGCTAAAAACCATGTTCTTGAACGACATTTG
Done.