Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167838.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_11, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 23775123
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 69000 characters in sequence are not A, C, G, or T
File 76 of 129
Found at i:14340600 original size:23 final size:23
Alignment explanation
Indices: 14340574--14340618 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
14340564 CCGAGCTTAA
14340574 GAAAGCCAAATTACAAGAATAAT
1 GAAAGCCAAATTACAAGAATAAT
14340597 GAAAGCCAAATTACAAGAATAA
1 GAAAGCCAAATTACAAGAATAA
14340619 CCTTATAAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.58, C:0.13, G:0.13, T:0.16
Consensus pattern (23 bp):
GAAAGCCAAATTACAAGAATAAT
Found at i:14341748 original size:22 final size:23
Alignment explanation
Indices: 14341718--14341765 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
14341708 AATGAATGAT
* *
14341718 TGAATTTGAATGATTA-CATTTA
1 TGAAATTGAAGGATTATCATTTA
*
14341740 TGAAATTGAAGGATTATGATTTA
1 TGAAATTGAAGGATTATCATTTA
14341763 TGA
1 TGA
14341766 TTGAATTGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.38, C:0.02, G:0.19, T:0.42
Consensus pattern (23 bp):
TGAAATTGAAGGATTATCATTTA
Found at i:14345369 original size:37 final size:37
Alignment explanation
Indices: 14345319--14345392 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
14345309 ATAAAGAATA
14345319 CTAAAGTTAAAAGGATAAGTAGATGACGGCTAGGGTT
1 CTAAAGTTAAAAGGATAAGTAGATGACGGCTAGGGTT
*
14345356 CTAAAGTTAAAAGGATAAGTAGATGATGGCTAGGGTT
1 CTAAAGTTAAAAGGATAAGTAGATGACGGCTAGGGTT
14345393 TTCTTCAAGA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.38, C:0.07, G:0.30, T:0.26
Consensus pattern (37 bp):
CTAAAGTTAAAAGGATAAGTAGATGACGGCTAGGGTT
Found at i:14354422 original size:45 final size:51
Alignment explanation
Indices: 14354365--14354472 Score: 129
Period size: 50 Copynumber: 2.2 Consensus size: 51
14354355 TAGTTGATGG
* *
14354365 ATGGATGCTATGGATG-TT-T-TATGGT-TAGATATTTTATGATGT-TTT-
1 ATGGATGTTATGGATGCTTATGTATGGTATAGATATTTTATGATATATTTA
*
14354410 ATGGATGTTATGGATGCTTGATGTATGTTATAGATATTTTATGATATATTTA
1 ATGGATGTTATGGATGCTT-ATGTATGGTATAGATATTTTATGATATATTTA
*
14354462 ATGAATGTTAT
1 ATGGATGTTAT
14354473 TTGGATTTAA
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
45 15 0.29
46 2 0.04
48 1 0.02
49 5 0.10
50 16 0.31
51 3 0.06
52 10 0.19
ACGTcount: A:0.27, C:0.02, G:0.22, T:0.49
Consensus pattern (51 bp):
ATGGATGTTATGGATGCTTATGTATGGTATAGATATTTTATGATATATTTA
Found at i:14355109 original size:5 final size:5
Alignment explanation
Indices: 14355090--14355141 Score: 50
Period size: 5 Copynumber: 9.8 Consensus size: 5
14355080 CACTTTATTG
* * *
14355090 TTTTA TTTTT TTTTC TTTTCC TTTTGC TTTTTC TTTCC TTTTC TTTTC
1 TTTTC TTTTC TTTTC TTTT-C TTTT-C -TTTTC TTTTC TTTTC TTTTC
14355138 TTTT
1 TTTT
14355142 TTACAAGCTA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
5 29 0.73
6 7 0.17
7 4 0.10
ACGTcount: A:0.02, C:0.17, G:0.02, T:0.79
Consensus pattern (5 bp):
TTTTC
Found at i:14355120 original size:22 final size:20
Alignment explanation
Indices: 14355090--14355143 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 20
14355080 CACTTTATTG
* *
14355090 TTTTATTTTTTTTTCTTTTCC
1 TTTTCTTTTTTTTCCTTTT-C
14355111 TTTTGCTTTTTCTTTCCTTTTC
1 TTTT-CTTTTT-TTTCCTTTTC
14355133 TTTTCTTTTTT
1 TTTTCTTTTTT
14355144 ACAAGCTAGC
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
20 1 0.03
21 10 0.34
22 10 0.34
23 8 0.28
ACGTcount: A:0.02, C:0.17, G:0.02, T:0.80
Consensus pattern (20 bp):
TTTTCTTTTTTTTCCTTTTC
Found at i:14355175 original size:11 final size:11
Alignment explanation
Indices: 14355159--14355204 Score: 56
Period size: 11 Copynumber: 4.0 Consensus size: 11
14355149 CTAGCTTGAG
14355159 TTTTTCTTTTT
1 TTTTTCTTTTT
14355170 TTTTTCTTGTTT
1 TTTTTCTT-TTT
*
14355182 TCTTTTCATTTT
1 T-TTTTCTTTTT
*
14355194 TTTTTATTTTT
1 TTTTTCTTTTT
14355205 CCATTCTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.53
12 8 0.27
13 6 0.20
ACGTcount: A:0.04, C:0.09, G:0.02, T:0.85
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:14367818 original size:161 final size:159
Alignment explanation
Indices: 14367640--14368091 Score: 442
Period size: 161 Copynumber: 2.8 Consensus size: 159
14367630 AAACTTTCAT
* *
14367640 TTAATCATTTAAAAGTTGTTCAGAGTCTCAAATTATTACTT-TTTGCTTTAAT-GTTCATGGTGT
1 TTAATCATTTAAAAGTTGTTCAAAGTCTCAAATTATTA-TTGTTTGCTTTAATAG-TCATAGTGT
* * * * *
14367703 TAGTGAGTTTT-GAAATTTTAAAGATTTTTTATGTACC-ATAAGGGCAATAATGCAATGCTTA-T
64 TAGTAAATTTTAG-AATTTTAAAGACTTTTTATG-ACCTACAAGGGCAATAATGCAATGCTAACT
*
14367765 CAATGATTGCTGACAT-T-GTCATCTAGATAGCTTAAG
127 C-ATAATTGCT--CATCTGGTCATCT--ATAGCTTAAG
* * *
14367801 TTAATCATCTAAAAGTTGTTCAAAGTCTTAAATTATTATTGTTTGCTTTACTAGTCATAGTGTTA
1 TTAATCATTTAAAAGTTGTTCAAAGTCTCAAATTATTATTGTTTGCTTTAATAGTCATAGTGTTA
* *
14367866 GTAAATTTTAGAATTTTTAAGACTTTTTGTGACCTACAAGGGCAATAATGCAATGCTAACTCATA
66 GTAAATTTTAGAATTTTAAAGACTTTTTATGACCTACAAGGGCAATAATGCAATGCTAACTCATA
14367931 ATTGCTCATCTGGTCATCTATAGCTTAAG
131 ATTGCTCATCTGGTCATCTATAGCTTAAG
* * * * * * * *
14367960 TTAATCATTTAAAAGTTATTCGAACTCTTAAATTGTTATTGCTAG-TGTAAATA-TACATAGTGT
1 TTAATCATTTAAAAGTTGTTCAAAGTCTCAAATTATTATTGTTTGCT-TTAATAGT-CATAGTGT
* * * * * * *
14368023 TAGTGAATTAT-GAAATTTT-TAGTAC-TTTAATGTCCTACAAGGGCAATAATGTAATGCTGACT
64 TAGTAAATTTTAG-AATTTTAAAG-ACTTTTTATGACCTACAAGGGCAATAATGCAATGCTAACT
*
14368085 AATAATT
127 CATAATT
14368092 AATCATTTAA
Statistics
Matches: 249, Mismatches: 31, Indels: 25
0.82 0.10 0.08
Matches are distributed among these distances:
158 43 0.17
159 80 0.32
160 6 0.02
161 116 0.47
162 4 0.02
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.41
Consensus pattern (159 bp):
TTAATCATTTAAAAGTTGTTCAAAGTCTCAAATTATTATTGTTTGCTTTAATAGTCATAGTGTTA
GTAAATTTTAGAATTTTAAAGACTTTTTATGACCTACAAGGGCAATAATGCAATGCTAACTCATA
ATTGCTCATCTGGTCATCTATAGCTTAAG
Found at i:14368408 original size:96 final size:97
Alignment explanation
Indices: 14368253--14368439 Score: 245
Period size: 96 Copynumber: 1.9 Consensus size: 97
14368243 TAGCTTAAGT
* * *
14368253 TAATCATTTAAAAGTTGTTCAAATTTTGAAATTGTTATTGCTTGCATAAATATACATGGTGTTAG
1 TAATCATTTAAAAGTAGTTCAAATCTTGAAATTATTATTGCTTGCATAAATATACATGGTGTTAG
*
14368318 TGAATTTTATAATTTTTAAGACTTTTAAAAGC
66 TGAATTTTAAAATTTTTAAGACTTTTAAAAGC
* * * *
14368350 TAATCATTTAAAA-TAGTTCAAAATCTT-AAATTATTATTGTTTGCTTTAATGTTA-ATGGTGTT
1 TAATCATTTAAAAGTAGTTC-AAATCTTGAAATTATTATTGCTTGCATAAAT-ATACATGGTGTT
**
14368412 AGTGAATTTTAAAATTTTTGGGACTTTT
64 AGTGAATTTTAAAATTTTTAAGACTTTT
14368440 TGTGTCCTAC
Statistics
Matches: 78, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
96 57 0.73
97 21 0.27
ACGTcount: A:0.34, C:0.06, G:0.13, T:0.47
Consensus pattern (97 bp):
TAATCATTTAAAAGTAGTTCAAATCTTGAAATTATTATTGCTTGCATAAATATACATGGTGTTAG
TGAATTTTAAAATTTTTAAGACTTTTAAAAGC
Found at i:14368794 original size:159 final size:157
Alignment explanation
Indices: 14368350--14368870 Score: 594
Period size: 159 Copynumber: 3.3 Consensus size: 157
14368340 TTTTAAAAGC
* * * * *
14368350 TAATCATTTAAAA-TAGTTCAAAATCTTAAATTATTATTGTTTGCTTTAATGTTA-ATGGTGTTA
1 TAATCATTTAAAAGTTGTTCAAACTC-TAAATTATTATTGTTTGCATAAAT-ATACAT-GTGTTA
* ** * * * *
14368413 GTGAATTTTAAAATTTTTGGGACTTTTTGTGTCCTACAAGGGCAACAATATAAAGCTAACCAATA
63 GTGAA-TTTAAAATTTTTAGGACTTTTAATGTCCTACAAGGGCAATAATGTAATGCTGACCAATA
* *
14368478 ATTGCTCATATGTTCATCTAG--A---TAAGT
127 ATTACTCA-ATGATCATCTAGATAGCTTAAGT
* * *
14368505 TAATCATTTAAAAGTTGTTCAAACTCTTAAATTGTTATTGGTTACATAAATATACATGATGTTAG
1 TAATCATTTAAAAGTTGTTCAAACTC-TAAATTATTATTGTTTGCATAAATATACATG-TGTTAG
* * * * *
14368570 TGAATTTAGTAATTTTGAAGGACTTTTAATGTCTTACAAGGGTAATAATGTAATGCTGACTAATA
64 TGAATTTA-AAATTTT-TAGGACTTTTAATGTCCTACAAGGGCAATAATGTAATGCTGACCAATA
14368635 ATTACATGC-ATGATCATCTAGATAGCTTAAGT
127 ATTAC-T-CAATGATCATCTAGATAGCTTAAGT
*
14368667 TAATCATTTAAAAGTTGTTCAAACTC-AAATTATTATTGCTTGCATAAATATACATAGTGTTAGT
1 TAATCATTTAAAAGTTGTTCAAACTCTAAATTATTATTGTTTGCATAAATATACAT-GTGTTAGT
* *
14368731 GAATTCTAAAATTTTTAGGACATTTAATGTCCTACACA-GGCAATAATGTAATGTTGACCAATAA
65 GAATT-TAAAATTTTTAGGACTTTTAATGTCCTACA-AGGGCAATAATGTAATGCTGACCAATAA
14368795 TTACTCATATGATCATCTAGATAGCTTAAGT
128 TTACTCA-ATGATCATCTAGATAGCTTAAGT
*
14368826 TAATCATTTAAAAGTTGTTCAAACTCTTAAATTGTTATTGTTTGC
1 TAATCATTTAAAAGTTGTTCAAACTC-TAAATTATTATTGTTTGC
14368871 TTGATTAATG
Statistics
Matches: 313, Mismatches: 34, Indels: 32
0.83 0.09 0.08
Matches are distributed among these distances:
155 20 0.06
156 48 0.15
157 53 0.17
158 2 0.01
159 96 0.31
160 45 0.14
161 18 0.06
162 31 0.10
ACGTcount: A:0.35, C:0.11, G:0.14, T:0.40
Consensus pattern (157 bp):
TAATCATTTAAAAGTTGTTCAAACTCTAAATTATTATTGTTTGCATAAATATACATGTGTTAGTG
AATTTAAAATTTTTAGGACTTTTAATGTCCTACAAGGGCAATAATGTAATGCTGACCAATAATTA
CTCAATGATCATCTAGATAGCTTAAGT
Found at i:14379151 original size:40 final size:40
Alignment explanation
Indices: 14379106--14379186 Score: 126
Period size: 40 Copynumber: 2.0 Consensus size: 40
14379096 ATCACACTTT
* * *
14379106 TACCATAATATAAGAAAGATTTGTGTTTGTCTAAAAGCTG
1 TACCATAATAGAAGAAAGATTCGTGTTTGTCTAAAAACTG
*
14379146 TACCATAATAGAAGATAGATTCGTGTTTGTCTAAAAACTG
1 TACCATAATAGAAGAAAGATTCGTGTTTGTCTAAAAACTG
14379186 T
1 T
14379187 GCTGCGATTC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.35
Consensus pattern (40 bp):
TACCATAATAGAAGAAAGATTCGTGTTTGTCTAAAAACTG
Found at i:14380168 original size:15 final size:15
Alignment explanation
Indices: 14380142--14380188 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
14380132 CTACTACTAC
*
14380142 TACTACTACTATTAT
1 TACTAATACTATTAT
14380157 TACTAATACTATTAT
1 TACTAATACTATTAT
* * *
14380172 TATTATTATTATTAT
1 TACTAATACTATTAT
14380187 TA
1 TA
14380189 ATTTGTTAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.36, C:0.11, G:0.00, T:0.53
Consensus pattern (15 bp):
TACTAATACTATTAT
Found at i:14384144 original size:2 final size:2
Alignment explanation
Indices: 14384139--14384166 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
14384129 GAGAGATATA
14384139 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
14384167 CGTATTATAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:14388324 original size:22 final size:22
Alignment explanation
Indices: 14388299--14388341 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
14388289 TTTTTTATCT
*
14388299 TTAATTATAATGATACAAATAC
1 TTAATTATAAGGATACAAATAC
* *
14388321 TTAATTCTAGGGATACAAATA
1 TTAATTATAAGGATACAAATA
14388342 TAAATATTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.35
Consensus pattern (22 bp):
TTAATTATAAGGATACAAATAC
Found at i:14397795 original size:2 final size:2
Alignment explanation
Indices: 14397790--14397834 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
14397780 TGTGTGTGGG
14397790 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14397832 TA T
1 TA T
14397835 TTGCCAATAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:14398481 original size:42 final size:42
Alignment explanation
Indices: 14398432--14398516 Score: 134
Period size: 42 Copynumber: 2.0 Consensus size: 42
14398422 GTATTGTGAT
* *
14398432 AGAATTTTTTGTGATCAAACCTGGATTGACTGGTATTAACTA
1 AGAATTTTTCGTGATCAAACCTAGATTGACTGGTATTAACTA
* *
14398474 AGAATTTTTCGTGATCCAACCTAGATTGACTTGTATTAACTA
1 AGAATTTTTCGTGATCAAACCTAGATTGACTGGTATTAACTA
14398516 A
1 A
14398517 AAAAATTCAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (42 bp):
AGAATTTTTCGTGATCAAACCTAGATTGACTGGTATTAACTA
Found at i:14398964 original size:6 final size:6
Alignment explanation
Indices: 14398953--14398984 Score: 55
Period size: 6 Copynumber: 5.2 Consensus size: 6
14398943 CTTATTCCAT
14398953 ATTTAA ATTTAA ATTTAA ATTTAA ATATTAA A
1 ATTTAA ATTTAA ATTTAA ATTTAA AT-TTAA A
14398985 AAAATTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 20 0.80
7 5 0.20
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (6 bp):
ATTTAA
Found at i:14401072 original size:27 final size:27
Alignment explanation
Indices: 14401032--14401091 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
14401022 TTTGTTTTTT
**
14401032 AATT-ATCTTTAAAAATTAATATATGA
1 AATTAATCTTTAAAAATTAATATACAA
*
14401058 AATTAATCTTTAAAAATTACTATACAA
1 AATTAATCTTTAAAAATTAATATACAA
14401085 AATTAAT
1 AATTAAT
14401092 ACACGAGACA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 4 0.13
27 26 0.87
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.40
Consensus pattern (27 bp):
AATTAATCTTTAAAAATTAATATACAA
Found at i:14402582 original size:2 final size:2
Alignment explanation
Indices: 14402575--14402610 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
14402565 TATGAACTTA
14402575 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14402611 GCATATAAGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14410592 original size:12 final size:12
Alignment explanation
Indices: 14410575--14410601 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
14410565 AACGAATTAA
14410575 GGAGGATCCTAG
1 GGAGGATCCTAG
14410587 GGAGGATCCTAG
1 GGAGGATCCTAG
14410599 GGA
1 GGA
14410602 AGACCCTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.15, G:0.44, T:0.15
Consensus pattern (12 bp):
GGAGGATCCTAG
Found at i:14428024 original size:10 final size:10
Alignment explanation
Indices: 14428009--14428052 Score: 61
Period size: 10 Copynumber: 4.3 Consensus size: 10
14427999 ATTATGCTTG
*
14428009 AAAAAAATGA
1 AAAAAAAAGA
14428019 AAAAAAAAGA
1 AAAAAAAAGA
14428029 AAAAAAAAGA
1 AAAAAAAAGA
*
14428039 GAAAAAAATGA
1 -AAAAAAAAGA
14428050 AAA
1 AAA
14428053 CTTAAATTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
10 22 0.71
11 9 0.29
ACGTcount: A:0.84, C:0.00, G:0.11, T:0.05
Consensus pattern (10 bp):
AAAAAAAAGA
Found at i:14428026 original size:12 final size:11
Alignment explanation
Indices: 14428009--14428046 Score: 51
Period size: 12 Copynumber: 3.5 Consensus size: 11
14427999 ATTATGCTTG
*
14428009 AAAAAAATG-A
1 AAAAAAAAGAA
14428019 AAAAAAAAGAA
1 AAAAAAAAGAA
14428030 AAAAAAAGAGAA
1 AAAAAAA-AGAA
14428042 AAAAA
1 AAAAA
14428047 TGAAAACTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 8 0.32
11 8 0.32
12 9 0.36
ACGTcount: A:0.87, C:0.00, G:0.11, T:0.03
Consensus pattern (11 bp):
AAAAAAAAGAA
Found at i:14428035 original size:21 final size:21
Alignment explanation
Indices: 14428009--14428052 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
14427999 ATTATGCTTG
*
14428009 AAAAAAATGA-AAAAAAAAGA
1 AAAAAAAAGAGAAAAAAAAGA
*
14428029 AAAAAAAAGAGAAAAAAATGA
1 AAAAAAAAGAGAAAAAAAAGA
14428050 AAA
1 AAA
14428053 CTTAAATTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.84, C:0.00, G:0.11, T:0.05
Consensus pattern (21 bp):
AAAAAAAAGAGAAAAAAAAGA
Found at i:14430219 original size:42 final size:41
Alignment explanation
Indices: 14430110--14430375 Score: 205
Period size: 41 Copynumber: 6.5 Consensus size: 41
14430100 GCACCCTTGA
* * * *
14430110 TTTT-AAAGTTGTATGCCTTTGTTTTGAATAAACATTTATT
1 TTTTCAAAGTTGTATGCCTTCGTTTTGAATGAGCATTTAAT
* * *** *
14430150 TTTTCAAAGTTGTGTGCTTTTACTTTGAATGTGTCATTTAAT
1 TTTTCAAAGTTGTATGCCTTCGTTTTGAATGAG-CATTTAAT
* * *
14430192 TTTTCAAAGTTGTATGCCTCCGTTTTGAAAGAGCCTTTAAT
1 TTTTCAAAGTTGTATGCCTTCGTTTTGAATGAGCATTTAAT
* * * *
14430233 TTTTTAAAGTCGTATGCCTTCGTTTTGAAAGAGCCTTTAAAT
1 TTTTCAAAGTTGTATGCCTTCGTTTTGAATGAGCATTT-AAT
* * * * * * *
14430275 TTTT-AAAGTTTTGTGCCTTCATTTTGAATAAGCCTTAAAA
1 TTTTCAAAGTTGTATGCCTTCGTTTTGAATGAGCATTTAAT
* * * * *
14430315 TTGTCAAAGTTGTATGCCTTCATTTTGAA-GAAGCCTTAAAA
1 TTTTCAAAGTTGTATGCCTTCGTTTTGAATG-AGCATTTAAT
* *
14430356 TTTTCAAATTTGTGTGCCTT
1 TTTTCAAAGTTGTATGCCTT
14430376 AATTTTAAAG
Statistics
Matches: 186, Mismatches: 35, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
40 9 0.05
41 138 0.74
42 39 0.21
ACGTcount: A:0.26, C:0.13, G:0.15, T:0.46
Consensus pattern (41 bp):
TTTTCAAAGTTGTATGCCTTCGTTTTGAATGAGCATTTAAT
Found at i:14430349 original size:41 final size:41
Alignment explanation
Indices: 14430192--14430385 Score: 214
Period size: 41 Copynumber: 4.8 Consensus size: 41
14430182 GTCATTTAAT
* * * *
14430192 TTTTCAAAGTTGTATGCCTCCGTTTTGAAAGAGCCTTTAAT
1 TTTTCAAAGTTGTATGCCTTCATTTTGAAAGAGCCTTAAAA
* * * *
14430233 TTTTTAAAGTCGTATGCCTTCGTTTTGAAAGAGCCTTTAAA
1 TTTTCAAAGTTGTATGCCTTCATTTTGAAAGAGCCTTAAAA
* * *
14430274 TTTTTAAAGTTTTGTGCCTTCATTTTGAATA-AGCCTTAAAA
1 TTTTCAAAGTTGTATGCCTTCATTTTGAA-AGAGCCTTAAAA
*
14430315 TTGTCAAAGTTGTATGCCTTCATTTTG-AAGAAGCCTTAAAA
1 TTTTCAAAGTTGTATGCCTTCATTTTGAAAG-AGCCTTAAAA
* * *
14430356 TTTTCAAATTTGTGTGCCTTAATTTT-AAAG
1 TTTTCAAAGTTGTATGCCTTCATTTTGAAAG
14430386 GAATAACTAA
Statistics
Matches: 132, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
39 1 0.01
40 1 0.01
41 129 0.98
42 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.15, T:0.43
Consensus pattern (41 bp):
TTTTCAAAGTTGTATGCCTTCATTTTGAAAGAGCCTTAAAA
Found at i:14433305 original size:16 final size:16
Alignment explanation
Indices: 14433267--14433298 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
14433257 ACTGCTTTAG
14433267 AGAAAATTAACAAGAA
1 AGAAAATTAACAAGAA
14433283 AGAAAATT-ACAAGAA
1 AGAAAATTAACAAGAA
14433298 A
1 A
14433299 TGTAAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.69, C:0.06, G:0.12, T:0.12
Consensus pattern (16 bp):
AGAAAATTAACAAGAA
Found at i:14439777 original size:32 final size:32
Alignment explanation
Indices: 14439736--14439802 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
14439726 ATTTAAAATA
*
14439736 AAACTTACAAAATAAAGAATAAGTTCGATCAT
1 AAACTTACAAAATAAAGAATAAGTTAGATCAT
14439768 AAACTTACAAAATAAAGAATAAGTTAGATCAT
1 AAACTTACAAAATAAAGAATAAGTTAGATCAT
14439800 AAA
1 AAA
14439803 ATTCTTAGTG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.57, C:0.10, G:0.09, T:0.24
Consensus pattern (32 bp):
AAACTTACAAAATAAAGAATAAGTTAGATCAT
Found at i:14441135 original size:21 final size:21
Alignment explanation
Indices: 14441088--14441138 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
14441078 CTAAGGGAAA
*
14441088 GGATCAATCCCCTAGCAAAAG
1 GGATCGATCCCCTAGCAAAAG
14441109 GGATCGATCCCCTAGCAAAAG
1 GGATCGATCCCCTAGCAAAAG
14441130 GGATCGATC
1 GGATCGATC
14441139 TTGTCTTCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.33, C:0.27, G:0.24, T:0.16
Consensus pattern (21 bp):
GGATCGATCCCCTAGCAAAAG
Found at i:14441452 original size:21 final size:20
Alignment explanation
Indices: 14441403--14441455 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
14441393 AATCTAGAAA
14441403 AAGGGATCGATCACCTAAAG
1 AAGGGATCGATCACCTAAAG
* *
14441423 AATGGATCGAT-ACCTTGAATG
1 AAGGGATCGATCACC-T-AAAG
14441444 AAGGGATCGATC
1 AAGGGATCGATC
14441456 GGGTAAAGCT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 3 0.11
20 11 0.41
21 13 0.48
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.21
Consensus pattern (20 bp):
AAGGGATCGATCACCTAAAG
Found at i:14444810 original size:25 final size:25
Alignment explanation
Indices: 14444782--14444837 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 25
14444772 GTATTTTAAA
*
14444782 AATATCAAATTTTAA-ATTTTGCCAC
1 AATATC-AATTATAATATTTTGCCAC
* *
14444807 AATATTCAATTATAATATTTTGTCAT
1 AATA-TCAATTATAATATTTTGCCAC
14444833 AATAT
1 AATAT
14444838 TCTTTCACAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
25 12 0.46
26 14 0.54
ACGTcount: A:0.41, C:0.11, G:0.04, T:0.45
Consensus pattern (25 bp):
AATATCAATTATAATATTTTGCCAC
Found at i:14444826 original size:26 final size:25
Alignment explanation
Indices: 14444789--14444839 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
14444779 AAAAATATCA
*
14444789 AATTTTAAATTTTGCCACAATATTC
1 AATTATAAATTTTGCCACAATATTC
* *
14444814 AATTATAATATTTTGTCATAATATTC
1 AATTATAA-ATTTTGCCACAATATTC
14444840 TTTCACAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.37, C:0.12, G:0.04, T:0.47
Consensus pattern (25 bp):
AATTATAAATTTTGCCACAATATTC
Found at i:14445618 original size:16 final size:14
Alignment explanation
Indices: 14445583--14445657 Score: 61
Period size: 14 Copynumber: 5.6 Consensus size: 14
14445573 AATTTTGATA
14445583 TATTAAT-TTAAAT
1 TATTAATATTAAAT
14445596 TATTAATATTATAAT
1 TATTAATATTA-AAT
14445611 TGATTAATA-TAAAT
1 T-ATTAATATTAAAT
* *
14445625 GA-TAATATT--GT
1 TATTAATATTAAAT
* *
14445636 TATTAATATCATAT
1 TATTAATATTAAAT
14445650 TATTAATA
1 TATTAATA
14445658 ATGAATTATA
Statistics
Matches: 50, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
11 2 0.04
12 11 0.22
13 9 0.18
14 15 0.30
15 6 0.12
16 7 0.14
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.49
Consensus pattern (14 bp):
TATTAATATTAAAT
Found at i:14445835 original size:31 final size:31
Alignment explanation
Indices: 14445798--14445887 Score: 121
Period size: 30 Copynumber: 2.9 Consensus size: 31
14445788 TATTAAAGGG
*
14445798 ACTAAATTTCAAATTTTATGTGAGTACAAAG
1 ACTAAATTTCAAATTTTATGTGAGTACAAAA
* *
14445829 GCTAAATTTCAAATTTGTA-CT-AGTACAAAA
1 ACTAAATTTCAAATTT-TATGTGAGTACAAAA
*
14445859 ACTAAATTTCAAATTTCATGTGAGTACAA
1 ACTAAATTTCAAATTTTATGTGAGTACAA
14445888 GAACCATTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
29 1 0.02
30 24 0.48
31 23 0.46
32 2 0.04
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.34
Consensus pattern (31 bp):
ACTAAATTTCAAATTTTATGTGAGTACAAAA
Found at i:14446705 original size:18 final size:19
Alignment explanation
Indices: 14446669--14446711 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
14446659 ATGAATAAAT
*
14446669 TATTAATAATATTTTACAA
1 TATTAATAATATTTAACAA
14446688 -ATTAAT-ATATTTAAACAA
1 TATTAATAATATTT-AACAA
14446706 TATTAA
1 TATTAA
14446712 AATCATTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 6 0.29
18 10 0.48
19 5 0.24
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (19 bp):
TATTAATAATATTTAACAA
Found at i:14456794 original size:16 final size:16
Alignment explanation
Indices: 14456775--14456810 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
14456765 AGTTGTTTTT
*
14456775 TGAAGGTGTTGTTCCA
1 TGAAGGAGTTGTTCCA
*
14456791 TGAAGGAGTTGTTCCT
1 TGAAGGAGTTGTTCCA
14456807 TGAA
1 TGAA
14456811 TAATTGTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.22, C:0.11, G:0.31, T:0.36
Consensus pattern (16 bp):
TGAAGGAGTTGTTCCA
Found at i:14459523 original size:2 final size:2
Alignment explanation
Indices: 14459516--14459546 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
14459506 GTATTGAAAG
14459516 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
14459547 AAGAACAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14462994 original size:6 final size:6
Alignment explanation
Indices: 14462942--14462980 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
14462932 ACAAAAAATC
*
14462942 AAAGGA AAAAGA AAAGGA AAAGGA AAAGG- AAAGGA AAAG
1 AAAGGA AAAGGA AAAGGA AAAGGA AAAGGA AAAGGA AAAG
14462981 CTAGAAAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 5 0.17
6 25 0.83
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (6 bp):
AAAGGA
Found at i:14463983 original size:18 final size:18
Alignment explanation
Indices: 14463960--14463994 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
14463950 TTTGCCAATC
*
14463960 AAAATAATATATACATTA
1 AAAATAATATAAACATTA
14463978 AAAATAATATAAACATT
1 AAAATAATATAAACATT
14463995 TTGTAATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (18 bp):
AAAATAATATAAACATTA
Found at i:14478184 original size:71 final size:71
Alignment explanation
Indices: 14478109--14478251 Score: 286
Period size: 71 Copynumber: 2.0 Consensus size: 71
14478099 AAATGAATAG
14478109 TCACCAATCAAGCCAATTCAAAAAGTTATGATATTCTATATAGTCATGTTTTATTGTTTAAATAA
1 TCACCAATCAAGCCAATTCAAAAAGTTATGATATTCTATATAGTCATGTTTTATTGTTTAAATAA
14478174 ATTTTA
66 ATTTTA
14478180 TCACCAATCAAGCCAATTCAAAAAGTTATGATATTCTATATAGTCATGTTTTATTGTTTAAATAA
1 TCACCAATCAAGCCAATTCAAAAAGTTATGATATTCTATATAGTCATGTTTTATTGTTTAAATAA
14478245 ATTTTA
66 ATTTTA
14478251 T
1 T
14478252 TTAAACAGTC
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 72 1.00
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.41
Consensus pattern (71 bp):
TCACCAATCAAGCCAATTCAAAAAGTTATGATATTCTATATAGTCATGTTTTATTGTTTAAATAA
ATTTTA
Found at i:14478322 original size:20 final size:21
Alignment explanation
Indices: 14478283--14478323 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
14478273 TTCAAATATG
*
14478283 TTTACTCGTACTATTATGTTT
1 TTTACTCGTACTAATATGTTT
*
14478304 TTTACT-GTTCTAATATGTTT
1 TTTACTCGTACTAATATGTTT
14478324 ATTCAAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.20, C:0.12, G:0.10, T:0.59
Consensus pattern (21 bp):
TTTACTCGTACTAATATGTTT
Found at i:14479819 original size:17 final size:16
Alignment explanation
Indices: 14479798--14479829 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
14479788 CAAGAAGCCA
*
14479798 AAAAAACTGCAAGCAG
1 AAAAAACTGAAAGCAG
14479814 AAAAAACTGAAAGCAG
1 AAAAAACTGAAAGCAG
14479830 TAGCCGGACG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.16, G:0.19, T:0.06
Consensus pattern (16 bp):
AAAAAACTGAAAGCAG
Found at i:14479943 original size:36 final size:35
Alignment explanation
Indices: 14479903--14479985 Score: 112
Period size: 36 Copynumber: 2.3 Consensus size: 35
14479893 CAGTGGTAGA
*
14479903 AGAGCAGTAAATGGTAAAGAGAAAGCAGAAAAAAAT
1 AGAGCAGTAAACGGTAAAGAGAAAGCAG-AAAAAAT
* * *
14479939 AGAGCAATAAACGGTAAAGAGAAAGTAGAAAGAAT
1 AGAGCAGTAAACGGTAAAGAGAAAGCAGAAAAAAT
*
14479974 AGAGCAGGAAAC
1 AGAGCAGTAAAC
14479986 AGGGGGCGTG
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
35 16 0.39
36 25 0.61
ACGTcount: A:0.57, C:0.07, G:0.27, T:0.10
Consensus pattern (35 bp):
AGAGCAGTAAACGGTAAAGAGAAAGCAGAAAAAAT
Found at i:14480354 original size:11 final size:12
Alignment explanation
Indices: 14480333--14480357 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14480323 AAACTCCACA
14480333 TTTCTTTTTTTT
1 TTTCTTTTTTTT
14480345 TTTCTTTTTTTT
1 TTTCTTTTTTTT
14480357 T
1 T
14480358 CCTTCCCATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (12 bp):
TTTCTTTTTTTT
Found at i:14481001 original size:18 final size:18
Alignment explanation
Indices: 14480967--14481001 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14480957 AATCTCTTAA
* *
14480967 AATATAATAATAGAAAAT
1 AATAAAATAATAAAAAAT
14480985 AATAAAATAATAAAAAA
1 AATAAAATAATAAAAAA
14481002 AGTATTTGTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (18 bp):
AATAAAATAATAAAAAAT
Found at i:14481113 original size:3 final size:3
Alignment explanation
Indices: 14481107--14481150 Score: 54
Period size: 3 Copynumber: 14.0 Consensus size: 3
14481097 ATAGGAAAAA
14481107 AAT AAT AA- AGAT TAAT AAAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT A-AT -AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
14481151 GATGATGATG
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
2 1 0.03
3 30 0.81
4 5 0.14
5 1 0.03
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:14481425 original size:14 final size:14
Alignment explanation
Indices: 14481408--14481461 Score: 58
Period size: 14 Copynumber: 4.0 Consensus size: 14
14481398 TTAAAATCCT
*
14481408 AATTGAAACCCTAA
1 AATTAAAACCCTAA
* *
14481422 AATTGAAA-CCTTA
1 AATTAAAACCCTAA
14481435 AA-TAAAACCCTAA
1 AATTAAAACCCTAA
*
14481448 AATCAAAACCCTAA
1 AATTAAAACCCTAA
14481462 GCAAAACCTG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
12 4 0.12
13 12 0.35
14 18 0.53
ACGTcount: A:0.54, C:0.22, G:0.04, T:0.20
Consensus pattern (14 bp):
AATTAAAACCCTAA
Found at i:14481450 original size:13 final size:13
Alignment explanation
Indices: 14481413--14481461 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
14481403 ATCCTAATTG
*
14481413 AAACCCTAAAATTG
1 AAACCCTAAAA-TA
*
14481427 AAA-CCTTAAATA
1 AAACCCTAAAATA
14481439 AAACCCTAAAATCA
1 AAACCCTAAAAT-A
14481453 AAACCCTAA
1 AAACCCTAA
14481462 GCAAAACCTG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
12 4 0.13
13 13 0.43
14 13 0.43
ACGTcount: A:0.55, C:0.24, G:0.02, T:0.18
Consensus pattern (13 bp):
AAACCCTAAAATA
Found at i:14481467 original size:26 final size:26
Alignment explanation
Indices: 14481413--14481469 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
14481403 ATCCTAATTG
** * *
14481413 AAACCCTAAAATTGAAACCTTAAATA
1 AAACCCTAAAATCAAAACCCTAAACA
*
14481439 AAACCCTAAAATCAAAACCCTAAGCA
1 AAACCCTAAAATCAAAACCCTAAACA
14481465 AAACC
1 AAACC
14481470 TGAAACCCTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.54, C:0.26, G:0.04, T:0.16
Consensus pattern (26 bp):
AAACCCTAAAATCAAAACCCTAAACA
Found at i:14481730 original size:13 final size:14
Alignment explanation
Indices: 14481707--14481735 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
14481697 AACAATTTTT
14481707 AATAAAGAATAATA
1 AATAAAGAATAATA
14481721 AATAAA-AATAATA
1 AATAAAGAATAATA
14481734 AA
1 AA
14481736 ATGAGATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (14 bp):
AATAAAGAATAATA
Found at i:14484170 original size:63 final size:61
Alignment explanation
Indices: 14484003--14484182 Score: 184
Period size: 63 Copynumber: 2.9 Consensus size: 61
14483993 ATTTTTTTAA
* * * * *
14484003 AAGGGATTATTGAAGGCATTTTTAGTCCAAAAGTGCCATAAATAAATGCCATTTAAAAATATG
1 AAGGGATTATTTAAGGTATTTTTAGTCCAAAAATGCCTTAAAT-AAT-CCATTTAAAAATATC
* * * * *
14484066 AAGAGATTATTTAAGATGTTTTTAGTCCAAAAA--CCTTTTAAATAATCCTTTTTAAAATGTATC
1 AAGGGATTATTTAAGGTATTTTTAGTCCAAAAATGCC--TTAAATAATCC-ATTTAAAA-ATATC
* *
14484129 AAGGGATTATTTAAGGTATTTTTGGTCCAAAAATGCCTTAAATAATCCCTTTAA
1 AAGGGATTATTTAAGGTATTTTTAGTCCAAAAATGCCTTAAATAATCCATTTAA
14484183 TTGCTTACAA
Statistics
Matches: 96, Mismatches: 15, Indels: 13
0.77 0.12 0.10
Matches are distributed among these distances:
61 4 0.04
62 15 0.16
63 75 0.78
65 2 0.02
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (61 bp):
AAGGGATTATTTAAGGTATTTTTAGTCCAAAAATGCCTTAAATAATCCATTTAAAAATATC
Found at i:14489323 original size:23 final size:22
Alignment explanation
Indices: 14489279--14489320 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
14489269 CTTAGTTCTT
*
14489279 TTCATTTTTAGCTTTATTTTGC
1 TTCATTTTAAGCTTTATTTTGC
14489301 TTCATATTTAAGC-TTATTTT
1 TTCAT-TTTAAGCTTTATTTT
14489321 TGCAAGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.19, C:0.12, G:0.07, T:0.62
Consensus pattern (22 bp):
TTCATTTTAAGCTTTATTTTGC
Found at i:14490853 original size:19 final size:20
Alignment explanation
Indices: 14490815--14490853 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
14490805 AAAATGCTAA
*
14490815 ATTTTTTTTATTATTCTGTT
1 ATTTTTTTTATAATTCTGTT
*
14490835 ATTTTTTTTCTAATT-TGTT
1 ATTTTTTTTATAATTCTGTT
14490854 GTTCTAGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.15, C:0.05, G:0.05, T:0.74
Consensus pattern (20 bp):
ATTTTTTTTATAATTCTGTT
Found at i:14501898 original size:61 final size:61
Alignment explanation
Indices: 14501803--14501923 Score: 199
Period size: 61 Copynumber: 2.0 Consensus size: 61
14501793 GAAAGTAAAG
* *
14501803 TACAAGATCTAAAGAATAAATATGCTCAAAACAATTAAAATCAAGCTCAATGAACTAAAAC
1 TACAAGATCCAAAGAATAAATATACTCAAAACAATTAAAATCAAGCTCAATGAACTAAAAC
*
14501864 TACAAGATCCAAAGAATAAATCA-ACTCAAAACAATTAAAATTAAGCTCAATGAACTAAAA
1 TACAAGATCCAAAGAATAAAT-ATACTCAAAACAATTAAAATCAAGCTCAATGAACTAAAA
14501924 ATCAATTAGA
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
61 55 0.98
62 1 0.02
ACGTcount: A:0.55, C:0.17, G:0.07, T:0.21
Consensus pattern (61 bp):
TACAAGATCCAAAGAATAAATATACTCAAAACAATTAAAATCAAGCTCAATGAACTAAAAC
Found at i:14510506 original size:29 final size:29
Alignment explanation
Indices: 14510416--14510506 Score: 80
Period size: 29 Copynumber: 3.1 Consensus size: 29
14510406 AATTCATAAG
**
14510416 AAAATTAAAG-TTTCTAATAAAAGTTTGAC
1 AAAATTAAAGATTT-TAATAAAAAATTGAC
* * * *
14510445 AAAATTCAAA-ATATATGATAAAAAA-TAAT
1 AAAATT-AAAGAT-TTTAATAAAAAATTGAC
14510474 AAAATTAAAGATTTTAATAAAAAATTGAC
1 AAAATTAAAGATTTTAATAAAAAATTGAC
14510503 AAAA
1 AAAA
14510507 ATTTACAATC
Statistics
Matches: 47, Mismatches: 10, Indels: 10
0.70 0.15 0.15
Matches are distributed among these distances:
28 13 0.28
29 22 0.47
30 11 0.23
31 1 0.02
ACGTcount: A:0.59, C:0.04, G:0.07, T:0.30
Consensus pattern (29 bp):
AAAATTAAAGATTTTAATAAAAAATTGAC
Found at i:14520053 original size:22 final size:22
Alignment explanation
Indices: 14520027--14520069 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
14520017 ACAATATTTA
* *
14520027 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAAAATTAAG
14520049 TATTTGTATCCCTAAAATTAA
1 TATTTGTATCCCTAAAATTAA
14520070 AGACAGAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.44
Consensus pattern (22 bp):
TATTTGTATCCCTAAAATTAAG
Found at i:14521692 original size:24 final size:22
Alignment explanation
Indices: 14521660--14521718 Score: 64
Period size: 24 Copynumber: 2.6 Consensus size: 22
14521650 ATACAAAAAA
*
14521660 TAAAAATAAAAATAAAATATAT
1 TAAATATAAAAATAAAATATAT
* **
14521682 ATAATATATAAATATATTATATAT
1 -TAA-ATATAAAAATAAAATATAT
14521706 TAAATATAAAAAT
1 TAAATATAAAAAT
14521719 TAAACTTTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
22 9 0.30
23 6 0.20
24 15 0.50
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
TAAATATAAAAATAAAATATAT
Found at i:14521695 original size:22 final size:22
Alignment explanation
Indices: 14521663--14521715 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
14521653 CAAAAAATAA
*
14521663 AAATAAAAATAAAATATATA-T
1 AAATATAAATAAAATATATATT
* *
14521684 AATATATAAATATATTATATATT
1 AA-ATATAAATAAAATATATATT
14521707 AAATATAAA
1 AAATATAAA
14521716 AATTAAACTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 2 0.07
22 22 0.81
23 3 0.11
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
AAATATAAATAAAATATATATT
Found at i:14521698 original size:15 final size:16
Alignment explanation
Indices: 14521678--14521713 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
14521668 AAAATAAAAT
14521678 ATATATAATATA-TAA
1 ATATATAATATATTAA
*
14521693 ATATATTATATATTAA
1 ATATATAATATATTAA
14521709 ATATA
1 ATATA
14521714 AAAATTAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
ATATATAATATATTAA
Found at i:14526987 original size:62 final size:62
Alignment explanation
Indices: 14526906--14527025 Score: 213
Period size: 62 Copynumber: 1.9 Consensus size: 62
14526896 TTCAATATAC
*
14526906 TTCAATTTTACTCTTAGTTTTCCACAGTTTTATTTTTTAATTTTTTCACATGGTATCAAAGA
1 TTCAATTTTACTCTTAGTTTTCCACAGTTTTATTTCTTAATTTTTTCACATGGTATCAAAGA
* *
14526968 TTCAGTTTTACTCTTAGTTTTCCACAGTTTTATTTCTTAGTTTTTTCACATGGTATCA
1 TTCAATTTTACTCTTAGTTTTCCACAGTTTTATTTCTTAATTTTTTCACATGGTATCA
14527026 GAGCTTTAGG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 55 1.00
ACGTcount: A:0.23, C:0.16, G:0.09, T:0.53
Consensus pattern (62 bp):
TTCAATTTTACTCTTAGTTTTCCACAGTTTTATTTCTTAATTTTTTCACATGGTATCAAAGA
Found at i:14530863 original size:22 final size:22
Alignment explanation
Indices: 14530838--14530880 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
14530828 TGTATATTTA
*
14530838 TATTTGTATCTCTAAAATTAAG
1 TATTTGTATCCCTAAAATTAAG
* *
14530860 TATTTTTATCCCTAGAATTAA
1 TATTTGTATCCCTAAAATTAA
14530881 AGACAAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.47
Consensus pattern (22 bp):
TATTTGTATCCCTAAAATTAAG
Found at i:14531532 original size:16 final size:16
Alignment explanation
Indices: 14531513--14531559 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
14531503 CATCTTGGGT
14531513 TTGGGTCACTTCAAGA
1 TTGGGTCACTTCAAGA
* * *
14531529 TTGGGTCATTTCTAGT
1 TTGGGTCACTTCAAGA
14531545 TTGGGTCACTTCAAG
1 TTGGGTCACTTCAAG
14531560 CATGAGTTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.19, C:0.17, G:0.26, T:0.38
Consensus pattern (16 bp):
TTGGGTCACTTCAAGA
Found at i:14535063 original size:17 final size:16
Alignment explanation
Indices: 14535041--14535074 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
14535031 ATCAAGATGC
*
14535041 AGCAGCTACTTCCAGCT
1 AGCAGCCACTT-CAGCT
14535058 AGCAGCCACTTCAGCT
1 AGCAGCCACTTCAGCT
14535074 A
1 A
14535075 ATATTGAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.26, C:0.35, G:0.18, T:0.21
Consensus pattern (16 bp):
AGCAGCCACTTCAGCT
Found at i:14540283 original size:23 final size:23
Alignment explanation
Indices: 14540253--14540297 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
14540243 TTACTGTAGG
*
14540253 CCCATAAAAAATAATTCTCTTGA
1 CCCATAAAAAATAATGCTCTTGA
* *
14540276 CCCATAAATAGTAATGCTCTTG
1 CCCATAAAAAATAATGCTCTTG
14540298 CTTAATTTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.31
Consensus pattern (23 bp):
CCCATAAAAAATAATGCTCTTGA
Found at i:14548488 original size:28 final size:28
Alignment explanation
Indices: 14548443--14548528 Score: 74
Period size: 28 Copynumber: 3.1 Consensus size: 28
14548433 ATTTTATTAC
*
14548443 TTTAT-TTC-AATAAAATTTTATATTGTTA
1 TTTATATTCAAAT-AAATTTTATATT-TAA
* *
14548471 TTGTA-ATT-AAATAAATTTCATCTTTAA
1 TT-TATATTCAAATAAATTTTATATTTAA
14548498 TTTATATTCAAATAAATTTTA-ATTTTAA
1 TTTATATTCAAATAAATTTTATA-TTTAA
14548526 TTT
1 TTT
14548529 TTATATAACT
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
26 2 0.04
27 7 0.15
28 31 0.66
29 7 0.15
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.55
Consensus pattern (28 bp):
TTTATATTCAAATAAATTTTATATTTAA
Found at i:14549313 original size:18 final size:17
Alignment explanation
Indices: 14549273--14549314 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
14549263 TTTCAAATAT
14549273 ATTTTATAAAATATTATA
1 ATTTT-TAAAATATTATA
*
14549291 A-TTTTAAAATATTTTTA
1 ATTTTTAAAATA-TTATA
14549308 ATTTTTA
1 ATTTTTA
14549315 TTATGATATG
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 7 0.33
17 8 0.38
18 6 0.29
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
ATTTTTAAAATATTATA
Found at i:14549432 original size:31 final size:31
Alignment explanation
Indices: 14549388--14549453 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 31
14549378 TTTTCAAAAT
*
14549388 AATTTTGTTAAAA-TTACATATCATTTTAAA
1 AATTTTGTTAAAATTTACATATCAATTTAAA
**
14549418 AATTTTAGTTAAAATTTTTATATCAATTTAAA
1 AATTTT-GTTAAAATTTACATATCAATTTAAA
14549450 AATT
1 AATT
14549454 AAATAAAAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 6 0.19
31 7 0.23
32 18 0.58
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.48
Consensus pattern (31 bp):
AATTTTGTTAAAATTTACATATCAATTTAAA
Found at i:14549507 original size:31 final size:30
Alignment explanation
Indices: 14549427--14549507 Score: 83
Period size: 30 Copynumber: 2.7 Consensus size: 30
14549417 AAATTTTAGT
*
14549427 TAAAATTTTTATATCAATTTAAAAATTAAA
1 TAAAAATTTTATATCAATTTAAAAATTAAA
* * * **
14549457 TAAAAACTCTATGTCAATTTAAAATATTATG
1 TAAAAATTTTATATCAATTTAAAA-ATTAAA
14549488 TAAAAATTTTCATAT-AATTT
1 TAAAAATTTT-ATATCAATTT
14549508 TCAAAAATAG
Statistics
Matches: 40, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
30 20 0.50
31 17 0.43
32 3 0.08
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.43
Consensus pattern (30 bp):
TAAAAATTTTATATCAATTTAAAAATTAAA
Found at i:14549599 original size:14 final size:14
Alignment explanation
Indices: 14549580--14549617 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
14549570 ATATAATTTT
*
14549580 AAACATTTTTTATA
1 AAACATATTTTATA
14549594 AAACATATTTTATA
1 AAACATATTTTATA
*
14549608 AAATATATTT
1 AAACATATTT
14549618 AAAAAGAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (14 bp):
AAACATATTTTATA
Found at i:14549667 original size:18 final size:19
Alignment explanation
Indices: 14549641--14549683 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
14549631 AAAATATATT
14549641 TAATATTTT-AGATA-AAAA
1 TAATATTTTAAG-TAGAAAA
*
14549659 TAATTTTTTAAGTAGAAAA
1 TAATATTTTAAGTAGAAAA
14549678 TAATAT
1 TAATAT
14549684 GTTTTATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (19 bp):
TAATATTTTAAGTAGAAAA
Found at i:14551862 original size:27 final size:27
Alignment explanation
Indices: 14551832--14551886 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
14551822 GACAAACACT
14551832 AAGTTTTATGATTTCACAATGCATATA
1 AAGTTTTATGATTTCACAATGCATATA
14551859 AAGTTTTATGATTTCACAATGCATATA
1 AAGTTTTATGATTTCACAATGCATATA
14551886 A
1 A
14551887 CAAATATTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.40
Consensus pattern (27 bp):
AAGTTTTATGATTTCACAATGCATATA
Found at i:14551899 original size:27 final size:26
Alignment explanation
Indices: 14551841--14551899 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 26
14551831 TAAGTTTTAT
* *
14551841 GATTTCACAATGCATATAAAGTTTTA
1 GATTTCACAATGCATATAAAATATTA
14551867 TGATTTCACAATGCATATAACAAATATTA
1 -GATTTCACAATGCATAT-A-AAATATTA
14551896 -ATTT
1 GATTT
14551900 TCCATGTGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 21 0.75
28 1 0.04
29 6 0.21
ACGTcount: A:0.41, C:0.12, G:0.08, T:0.39
Consensus pattern (26 bp):
GATTTCACAATGCATATAAAATATTA
Found at i:14552735 original size:16 final size:15
Alignment explanation
Indices: 14552714--14552743 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
14552704 AATTTTAGAT
14552714 AAAAAAATCTAAAATC
1 AAAAAAATC-AAAATC
14552730 AAAAAAATCAAAAT
1 AAAAAAATCAAAAT
14552744 TATATATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.73, C:0.10, G:0.00, T:0.17
Consensus pattern (15 bp):
AAAAAAATCAAAATC
Found at i:14552844 original size:22 final size:24
Alignment explanation
Indices: 14552812--14552855 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
14552802 TCTACCTAAA
*
14552812 TATATTTAAAAT-ATATTAAAACT
1 TATATTTAAAATAATATAAAAACT
14552835 TATA-TTAAAATAATATAAAAA
1 TATATTTAAAATAATATAAAAA
14552856 AATTTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (24 bp):
TATATTTAAAATAATATAAAAACT
Found at i:14558227 original size:160 final size:159
Alignment explanation
Indices: 14557668--14559061 Score: 1100
Period size: 161 Copynumber: 8.7 Consensus size: 159
14557658 ACATTTAGAC
* * ** * * * *
14557668 AAGTTTCATATCATGTATAT-AAGCTATCTAAATTGAAAAAACATAA-ATATAATTACAAA-TTA
1 AAGTTTAATATCATGTAT-TGAAGCTATCTAAACTGTTAAAATAGAACA-ATAACTACAAACTTG
* ** * **
14557730 CATTTTTGCCCTTTAATGGCACAAAAAGTAT-TAAACAGATGTAAACAATAACTTGTTCATGCAT
64 CATTTTTGCCTTTTAATGGCACAAAAAGT-TCTAAACAGACATAAAC-ATAACTTTTTCACACAT
* * *
14557794 ATCAATTGTGAAAACCAAGTTCAATTATTCGAA
127 ATCAACTATGAAAACCAAGTTCAATCATTCGAA
* * * * * * * *
14557827 CAAGTTATAAT-TAAACTTTAATGCATATCTATTTTAA-TGATTGCAAAATAGAA-ATATAATTG
1 -AAGTT-TAATAT-CA-TGTATTG-A-AGCTATCTAAACTG-TT--AAAATAGAACA-ATAACTA
* * * * * * * *
14557889 CAAAATTACATTTTTACC-TTTAATGCCACAAAAAGTCCTAAACAAACATAAACAACAACCTTTT
56 CAAACTTGCATTTTTGCCTTTTAATGGCACAAAAAGTTCTAAACAGACATAAAC-ATAACTTTTT
* * * *
14557953 --CAC--ATCAACTATGGAAACTAAGTTCAATTATTCGGAT
120 CACACATATCAACTATGAAAACCAAGTTCAATCATTC-GAA
* * * * * * *
14557990 AAGTATAATATCATGTATTGAAGCTATCCAAACTATTAAAATAGAACAATAGCAACAAATTTGTA
1 AAGTTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAATAGAACAATAACTACAAACTTGCA
* * ** * *
14558055 TTTTTGCCTTTTAATGGCATAAAAAGTTGTAAATGGACATAAATGATAACTTTTTCACACATATT
66 TTTTTGCCTTTTAATGGCACAAAAAGTTCTAAACAGACATAAA-CATAACTTTTTCACACATATC
* * *
14558120 AACTGTGGAAACCAAATTCAATCATTCGAA
130 AACTATGAAAACCAAGTTCAATCATTCGAA
* * * * * *
14558150 AAGTTTAATATTATGTATTGAAGTTATCTAAATTGTTAAAATAGAACAATAATTGCAAACTTACA
1 AAGTTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAATAGAACAATAACTACAAACTTGCA
* * * * * * *
14558215 TTTTTACCTTTTAAGGGCA-TAAAAGCTCTTAAATAGATATAAACAGTAATTTTTTCACACATAT
66 TTTTTGCCTTTTAATGGCACAAAAAGTTC-TAAACAGACATAAACA-TAACTTTTTCACACATAT
* * * * * *
14558279 CAATTGTGAAAATCAAGTTTAATAATTCAAA
129 CAACTATGAAAACCAAGTTCAATCATTCGAA
* * **
14558310 CAAGTTTAATATCATGTTTTGAAGCTATATAAACTACTAAAATAGAACAATAACTACAAACTTGC
1 -AAGTTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAATAGAACAATAACTACAAACTTGC
* * *** * * *
14558375 ACTTTTGTCTTTTAACAACATAAAAAGTCCT-AACAGACATAAACAATAAC-TTTTCACATATAT
65 ATTTTTGCCTTTTAATGGCACAAAAAGTTCTAAACAGACATAAAC-ATAACTTTTTCACACATAT
* * *
14558438 CAACCATGAAAACCAAATTCAATCATTCAAA
129 CAACTATGAAAACCAAGTTCAATCATTCGAA
* * * * * * * **
14558469 CAAGTTTAATATCATGTATTGAGGCAATCTAAACTATTAAAACAGAATAATAATTGCAAACTTTT
1 -AAGTTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAATAGAACAATAACTACAAACTTGC
*** * * * * * * *
14558534 ATTTTTGCCTTTTAACAACATAAAAAATCCTAAGCAAACATAAATAGTAACATTTTCACACATAT
65 ATTTTTGCCTTTTAATGGCACAAAAAGTTCTAAACAGACATAAACA-TAACTTTTTCACACATAT
* * * * *
14558599 CAACTATGGAAACCAAATTCAATTACTTGGAT
129 CAACTATGAAAACCAAGTTCAATCA-TTCGAA
* *
14558631 AAGTTTAATATCATGTATTAAAAGCTATCTAAACTGTTAAAATAAAACAATAACTACAAACTTGC
1 AAGTTTAATATCATGTATT-GAAGCTATCTAAACTGTTAAAATAGAACAATAACTACAAACTTGC
* * * * * * *
14558696 ATTTTTGCATTTTGATAGCACAAAAAATTATAAACAGACATAAATAGTAACTTTTTCACATATA-
65 ATTTTTGCCTTTTAATGGCACAAAAAGTTCTAAACAGACATAAACA-TAACTTTTTCACACATAT
*
14558760 CAAACTATGAAAACTAAGTTCAATCATTCGAA
129 C-AACTATGAAAACCAAGTTCAATCATTCGAA
* *
14558792 CAAGTTTAATACCATGTGTTGAAGCTATCTAAA-TGTTAAAATAGAACAATAACTACAAA-TATG
1 -AAGTTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAATAGAACAATAACTACAAACT-TG
* * * *
14558855 CATTTTTTGCTTTTTAATGGCACAAAAA-ATCTTAAACAGACATAAACCACAAGTTTTTCACACA
64 CA-TTTTTGCCTTTTAATGGCACAAAAAGTTC-TAAACAGACATAAA-CATAACTTTTTCACACA
* * *
14558919 TATCAACTATGAAAACTAAGTTCAATAATTCAGAT
126 TATCAACTATGAAAACCAAGTTCAATCATTC-GAA
* * * * *
14558954 AAGTTTAATATCATGTATTGAAGCTATCAAAATTGTTAAAATATAACAATAACTACAAATTTACA
1 AAGTTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAATAGAACAATAACTACAAACTTGCA
* * * *
14559019 TTTTTGCCCTTAAATGACACAAAAA-TTCTAAATAGACATAAAC
66 TTTTTGCCTTTTAATGGCACAAAAAGTTCTAAACAGACATAAAC
14559062 TACAAGTTTC
Statistics
Matches: 994, Mismatches: 199, Indels: 83
0.78 0.16 0.07
Matches are distributed among these distances:
156 26 0.03
157 36 0.04
158 9 0.01
159 133 0.13
160 205 0.21
161 303 0.30
162 199 0.20
163 6 0.01
164 9 0.01
166 56 0.06
167 12 0.01
ACGTcount: A:0.44, C:0.15, G:0.09, T:0.32
Consensus pattern (159 bp):
AAGTTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAATAGAACAATAACTACAAACTTGCA
TTTTTGCCTTTTAATGGCACAAAAAGTTCTAAACAGACATAAACATAACTTTTTCACACATATCA
ACTATGAAAACCAAGTTCAATCATTCGAA
Found at i:14560230 original size:13 final size:13
Alignment explanation
Indices: 14560195--14560231 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
14560185 ATAACCAACG
*
14560195 ATATATAAAAAAC
1 ATATATAAAGAAC
*
14560208 ATATCTAAAGAAC
1 ATATATAAAGAAC
14560221 ATATATAAAGA
1 ATATATAAAGA
14560232 CATTCAGAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.62, C:0.08, G:0.05, T:0.24
Consensus pattern (13 bp):
ATATATAAAGAAC
Found at i:14564369 original size:111 final size:112
Alignment explanation
Indices: 14564244--14564453 Score: 350
Period size: 111 Copynumber: 1.9 Consensus size: 112
14564234 TAGACTACTG
*
14564244 ATGTTATAATTATATATAACTAACATATGTAAAATTACTTACATATTTAAGCTCGTAAATATAAT
1 ATGTTATAATTATATATAACTAACATATGTAAAATTACTTACATATTTAAACTCGTAAATATAAT
* *
14564309 TATTTATTG-TTCTTTAACTTGTAAACTTAAAATCCAAATTTTCTAA
66 TACTAATTGTTTCTTTAACTTGTAAACTTAAAATCCAAATTTTCTAA
* * *
14564355 ATGTTATAATTATATATAATTAACATATGTAAAATTACTTGCATATTTAAACTTGTAAATATAAT
1 ATGTTATAATTATATATAACTAACATATGTAAAATTACTTACATATTTAAACTCGTAAATATAAT
*
14564420 TACTAATTGTTTTTTTAACTTGTAAACTTAAAAT
66 TACTAATTGTTTCTTTAACTTGTAAACTTAAAAT
14564454 AAAGGTTTTC
Statistics
Matches: 91, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
111 68 0.75
112 23 0.25
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.44
Consensus pattern (112 bp):
ATGTTATAATTATATATAACTAACATATGTAAAATTACTTACATATTTAAACTCGTAAATATAAT
TACTAATTGTTTCTTTAACTTGTAAACTTAAAATCCAAATTTTCTAA
Found at i:14568450 original size:21 final size:20
Alignment explanation
Indices: 14568404--14568446 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
14568394 CAGATCATTT
14568404 TAATTTTTTTGGAAAGCAAAA
1 TAATTTTTTTGG-AAGCAAAA
*
14568425 TAATTTTTTTGG-ATCAAAA
1 TAATTTTTTTGGAAGCAAAA
14568444 TAA
1 TAA
14568447 AATTGTCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 9 0.43
21 12 0.57
ACGTcount: A:0.42, C:0.05, G:0.12, T:0.42
Consensus pattern (20 bp):
TAATTTTTTTGGAAGCAAAA
Found at i:14568760 original size:17 final size:18
Alignment explanation
Indices: 14568740--14568777 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
14568730 TCAAACATGA
*
14568740 ATGATAAAT-ATGAATGC
1 ATGATAAATAAAGAATGC
*
14568757 ATGATAATTAAAGAATGC
1 ATGATAAATAAAGAATGC
14568775 ATG
1 ATG
14568778 TGAGAACAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.47, C:0.05, G:0.18, T:0.29
Consensus pattern (18 bp):
ATGATAAATAAAGAATGC
Found at i:14571302 original size:16 final size:16
Alignment explanation
Indices: 14571263--14571304 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
14571253 GGTTTAAAAG
*
14571263 GTTTTTTCTTCTTATT
1 GTTTTTTTTTCTTATT
*
14571279 GTTTTTTTTTGTTATT
1 GTTTTTTTTTCTTATT
14571295 GTTTTTTTTT
1 GTTTTTTTTT
14571305 TTACTTTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.05, C:0.05, G:0.10, T:0.81
Consensus pattern (16 bp):
GTTTTTTTTTCTTATT
Found at i:14571602 original size:57 final size:56
Alignment explanation
Indices: 14571470--14571670 Score: 174
Period size: 57 Copynumber: 3.5 Consensus size: 56
14571460 TCAAACCAAG
* * * * * *
14571470 AGTAAATGCAAATAACTTCAAATTTCATCATCGAAA-AGTACTCGGATATCAACACCA
1 AGTAAATGCAAATGACTTCGAATATCACCATCGAAAGA-TACTTGGATATC-ACATCA
* *
14571527 AGTAAACGCAAATGACTTTGAATATCACCATCGAAAGATACTTGGATATCACTATCA
1 AGTAAATGCAAATGACTTCGAATATCACCATCGAAAGATACTTGGATATCAC-ATCA
* * * * * * *
14571584 AGTAAATGCAAATGACTTTGGATATCACTA-CCAAAGAATACTTAGTTATCACCATCG
1 AGTAAATGCAAATGACTTCGAATATCACCATCGAAAG-ATACTTGGATATCA-CATCA
* *
14571641 AG-AAAGTACAAATGACTTCGGATATCACCA
1 AGTAAA-TGCAAATGACTTCGAATATCACCA
14571671 CCAAGTGAAT
Statistics
Matches: 121, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
56 10 0.08
57 109 0.90
58 2 0.02
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.25
Consensus pattern (56 bp):
AGTAAATGCAAATGACTTCGAATATCACCATCGAAAGATACTTGGATATCACATCA
Found at i:14574333 original size:20 final size:20
Alignment explanation
Indices: 14574308--14574373 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 20
14574298 TTTAAAGATC
14574308 TTTTTTGTGATTTTTTGGAT
1 TTTTTTGTGATTTTTTGGAT
** *
14574328 TTTTTTGTTTTTTTTTGGAA
1 TTTTTTGTGATTTTTTGGAT
*
14574348 TTTTCT-TGA--TTTTGGAAT
1 TTTTTTGTGATTTTTTGG-AT
14574366 TTTTTTGT
1 TTTTTTGT
14574374 TTTTTTTAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
17 6 0.17
18 6 0.17
19 2 0.06
20 22 0.61
ACGTcount: A:0.11, C:0.02, G:0.17, T:0.71
Consensus pattern (20 bp):
TTTTTTGTGATTTTTTGGAT
Found at i:14574765 original size:49 final size:49
Alignment explanation
Indices: 14574712--14574872 Score: 189
Period size: 49 Copynumber: 3.3 Consensus size: 49
14574702 AATAAAGACT
* * *
14574712 TTGAAACTTTAAAGATTTCATCTGAAAAAAGATCCTCTAATTAGAGGTA
1 TTGAAACTTTAAAAATCTCATCTGAAAAAAGCTCCTCTAATTAGAGGTA
* * * * *
14574761 TTGAAACTTTAAAAATCTCATATGAAAAAGGCTCCCTTTAATTAGAAGCA
1 TTGAAACTTTAAAAATCTCATCTGAAAAAAGCT-CCTCTAATTAGAGGTA
* * * *
14574811 TTGAAACTTTAAAAATCTCATCT-ATAGAAAGCTCATCTAATCAAAGGTA
1 TTGAAACTTTAAAAATCTCATCTGA-AAAAAGCTCCTCTAATTAGAGGTA
14574860 TTGAAACTTTAAA
1 TTGAAACTTTAAA
14574873 GACTTTATAT
Statistics
Matches: 93, Mismatches: 17, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
49 52 0.56
50 41 0.44
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.32
Consensus pattern (49 bp):
TTGAAACTTTAAAAATCTCATCTGAAAAAAGCTCCTCTAATTAGAGGTA
Found at i:14574821 original size:50 final size:49
Alignment explanation
Indices: 14574712--14574831 Score: 159
Period size: 50 Copynumber: 2.4 Consensus size: 49
14574702 AATAAAGACT
* * * * *
14574712 TTGAAACTTTAAAGATTTCATCTGAAAAAAGATCCTCTAATTAGAGGTA
1 TTGAAACTTTAAAAATCTCATATGAAAAAAGATCCTCTAATTAGAAGCA
* * *
14574761 TTGAAACTTTAAAAATCTCATATGAAAAAGGCTCCCTTTAATTAGAAGCA
1 TTGAAACTTTAAAAATCTCATATGAAAAAAGAT-CCTCTAATTAGAAGCA
14574811 TTGAAACTTTAAAAATCTCAT
1 TTGAAACTTTAAAAATCTCAT
14574832 CTATAGAAAG
Statistics
Matches: 62, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
49 28 0.45
50 34 0.55
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.33
Consensus pattern (49 bp):
TTGAAACTTTAAAAATCTCATATGAAAAAAGATCCTCTAATTAGAAGCA
Found at i:14575499 original size:22 final size:22
Alignment explanation
Indices: 14575455--14575500 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
14575445 GTCTTTAAAT
* *
14575455 TTGGGTACCAACTAATTTGGGC
1 TTGGGTACCAACTAATCTAGGC
* *
14575477 TTGGGTACTAGCTAATCTAGGC
1 TTGGGTACCAACTAATCTAGGC
14575499 TT
1 TT
14575501 AAATTTAAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.35
Consensus pattern (22 bp):
TTGGGTACCAACTAATCTAGGC
Found at i:14575809 original size:16 final size:16
Alignment explanation
Indices: 14575792--14575825 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
14575782 GTCAAATTAT
14575792 TTTCTCT-TTTTCTTA
1 TTTCTCTATTTTCTTA
14575807 TTTCTCTATTTTCTT-
1 TTTCTCTATTTTCTTA
14575822 TTTC
1 TTTC
14575826 ATGATAGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.06, C:0.21, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTCTCTATTTTCTTA
Found at i:14588689 original size:11 final size:11
Alignment explanation
Indices: 14588675--14588699 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
14588665 CTTAAAAACC
14588675 AAAAAAAAAAG
1 AAAAAAAAAAG
14588686 AAAAAAAAAAG
1 AAAAAAAAAAG
14588697 AAA
1 AAA
14588700 GCTTCGAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:14589770 original size:27 final size:27
Alignment explanation
Indices: 14589739--14589791 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
14589729 AATACCAAGA
14589739 TAATTAGAAACATAGATTCACAAGAAC
1 TAATTAGAAACATAGATTCACAAGAAC
14589766 TAATTAGAAACATAGATTCACAAGAA
1 TAATTAGAAACATAGATTCACAAGAA
14589792 ACTTATCCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.53, C:0.13, G:0.11, T:0.23
Consensus pattern (27 bp):
TAATTAGAAACATAGATTCACAAGAAC
Found at i:14589793 original size:17 final size:17
Alignment explanation
Indices: 14589744--14589793 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 17
14589734 CAAGATAATT
14589744 AGAAACATAGATTCACA
1 AGAAACATAGATTCACA
14589761 AG-AAC-TA-ATT----
1 AGAAACATAGATTCACA
14589771 AGAAACATAGATTCACA
1 AGAAACATAGATTCACA
14589788 AGAAAC
1 AGAAAC
14589794 TTATCCAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 14
0.65 0.00 0.35
Matches are distributed among these distances:
10 2 0.08
11 3 0.12
12 2 0.08
13 3 0.12
14 3 0.12
15 2 0.08
16 3 0.12
17 8 0.31
ACGTcount: A:0.54, C:0.16, G:0.12, T:0.18
Consensus pattern (17 bp):
AGAAACATAGATTCACA
Found at i:14595238 original size:34 final size:37
Alignment explanation
Indices: 14595200--14595282 Score: 109
Period size: 34 Copynumber: 2.2 Consensus size: 37
14595190 AAAATATGTG
14595200 TTTATTTAAAAATTATA-T-TA-TGAGATATTTTCTT
1 TTTATTTAAAAATTATATTATATTGAGATATTTTCTT
*
14595234 TTTATATAAAAATTATATTATATTCTGAGATATTTTCTT
1 TTTATTTAAAAATTATATTATA-T-TGAGATATTTTCTT
14595273 TTATATTTAA
1 TT-TATTTAA
14595283 TTTAATAATG
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
34 16 0.39
35 1 0.02
36 2 0.05
39 16 0.39
40 6 0.15
ACGTcount: A:0.36, C:0.04, G:0.05, T:0.55
Consensus pattern (37 bp):
TTTATTTAAAAATTATATTATATTGAGATATTTTCTT
Found at i:14602399 original size:164 final size:157
Alignment explanation
Indices: 14602115--14602538 Score: 415
Period size: 164 Copynumber: 2.6 Consensus size: 157
14602105 AATATATTAG
* ** *
14602115 GTGTGGCCACTAAGTTCAACCATTCGAACAACTTTAATATCACATAATTGAGCTATGTATGTCAC
1 GTGTGG-CACTAAGTTCAACCATTCAAACAACTTTAATATCATGTAATTGAGCTATGTAAGTCAC
* *
14602180 TAAATT-AGGAATATATAACCAAATTTACCATATTGCCATTAAACAACACTAAAAGTTCAAAAAC
65 TAAATTCA-GAATATACAACCAAATTTACAATATTGCCATTAAACAACACTAAAAG-T-AAAAA-
* *
14602244 AACACAAAAACCA-TAACTTTTTTTTAACATATCAA
126 AACACAAAAA--AGTAAC--ATTTCTAACATATCAA
* * * **
14602279 TTGTGGCAGCTAAGTTCAACCATTAAAACAACTTTAATATCATGCAATCAAGCTATGTAAGTCAC
1 GTGTGGCA-CTAAGTTCAACCATTCAAACAACTTTAATATCATGTAATTGAGCTATGTAAGTCAC
* * * *** *
14602344 TAAATTCAGAATATACAACTAGATTTACAATATTGACC-TTTAATGGCATTAAAAGTAAAAAAAC
65 TAAATTCAGAATATACAACCAAATTTACAATATTG-CCATTAAACAACACTAAAAGTAAAAAAAC
*
14602408 ATAAAAAAGTAACATTTCTAACATATCAA
129 ACAAAAAAGTAACATTTCTAACATATCAA
* * * * * * * * *
14602437 GTCTAGCAACCAATTTCAACCATTCAAATAATTTTAATATCATGTAATTGATCTATGCAAGTCAT
1 GTGTGGC-ACTAAGTTCAACCATTCAAACAACTTTAATATCATGTAATTGAGCTATGTAAGTCAC
* *
14602502 TAAA-TCAAGAATATACGACCAAATTTACAATAGTGCC
65 TAAATTC-AGAATATACAACCAAATTTACAATATTGCC
14602539 CATAAACGGC
Statistics
Matches: 215, Mismatches: 39, Indels: 19
0.79 0.14 0.07
Matches are distributed among these distances:
157 4 0.02
158 91 0.42
159 2 0.01
160 4 0.02
161 9 0.04
162 5 0.02
163 3 0.01
164 94 0.44
165 3 0.01
ACGTcount: A:0.43, C:0.18, G:0.09, T:0.30
Consensus pattern (157 bp):
GTGTGGCACTAAGTTCAACCATTCAAACAACTTTAATATCATGTAATTGAGCTATGTAAGTCACT
AAATTCAGAATATACAACCAAATTTACAATATTGCCATTAAACAACACTAAAAGTAAAAAAACAC
AAAAAAGTAACATTTCTAACATATCAA
Found at i:14605823 original size:36 final size:36
Alignment explanation
Indices: 14605776--14605849 Score: 121
Period size: 36 Copynumber: 2.1 Consensus size: 36
14605766 AAATAGGTGT
14605776 AATTCATACATCTTAATACACTATAAACTAATATGA
1 AATTCATACATCTTAATACACTATAAACTAATATGA
* * *
14605812 AATTCATACATCTTAATGCACTATGAACTAATTTGA
1 AATTCATACATCTTAATACACTATAAACTAATATGA
14605848 AA
1 AA
14605850 CCTATGAAGA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.45, C:0.16, G:0.05, T:0.34
Consensus pattern (36 bp):
AATTCATACATCTTAATACACTATAAACTAATATGA
Found at i:14608380 original size:6 final size:6
Alignment explanation
Indices: 14608369--14608415 Score: 58
Period size: 6 Copynumber: 7.8 Consensus size: 6
14608359 TGGTGTGTGC
* * * *
14608369 ATATGT ATATGT ATATAT CTATGT ATATAT ATATAT ATATAT ATATA
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATA
14608416 AGATGAATGA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (6 bp):
ATATAT
Found at i:14608391 original size:12 final size:12
Alignment explanation
Indices: 14608369--14608414 Score: 65
Period size: 12 Copynumber: 3.8 Consensus size: 12
14608359 TGGTGTGTGC
*
14608369 ATATGTATATGT
1 ATATATATATGT
*
14608381 ATATATCTATGT
1 ATATATATATGT
*
14608393 ATATATATATAT
1 ATATATATATGT
14608405 ATATATATAT
1 ATATATATAT
14608415 AAGATGAATG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (12 bp):
ATATATATATGT
Found at i:14608401 original size:4 final size:4
Alignment explanation
Indices: 14608369--14608415 Score: 58
Period size: 4 Copynumber: 11.8 Consensus size: 4
14608359 TGGTGTGTGC
* * * *
14608369 ATAT GTAT ATGT ATAT ATCT ATGT ATAT ATAT ATAT ATAT ATAT ATA
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATA
14608416 AGATGAATGA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (4 bp):
ATAT
Found at i:14611422 original size:30 final size:30
Alignment explanation
Indices: 14611386--14611443 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
14611376 TAACTCTAAC
* *
14611386 CCAATCTCTCCATCTCATCCGTATCATAAA
1 CCAATCTCTCCATCTCAACCGCATCATAAA
14611416 CCAATCTCTCCATCTCAACCGCATCATA
1 CCAATCTCTCCATCTCAACCGCATCATA
14611444 TTCCACCTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.29, C:0.40, G:0.03, T:0.28
Consensus pattern (30 bp):
CCAATCTCTCCATCTCAACCGCATCATAAA
Found at i:14612135 original size:2 final size:2
Alignment explanation
Indices: 14612128--14612161 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
14612118 ATTCACTTTC
14612128 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14612162 CTCATTAGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14613269 original size:20 final size:20
Alignment explanation
Indices: 14613228--14613270 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
14613218 AGAATTTTTT
*
14613228 ATTATTTTAAATAAATTTATA
1 ATTATTTTAAATAAA-TAATA
14613249 ATTATTTTAATATAAA-AATA
1 ATTATTTTAA-ATAAATAATA
14613269 AT
1 AT
14613271 AAAATAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 5 0.25
21 10 0.50
22 5 0.25
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
ATTATTTTAAATAAATAATA
Found at i:14613590 original size:12 final size:12
Alignment explanation
Indices: 14613565--14613598 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
14613555 TTAGTTAACT
*
14613565 TTTATATAATTAA
1 TTTA-ATAAGTAA
14613578 TTTAATAAGTAA
1 TTTAATAAGTAA
14613590 TTTAATAAG
1 TTTAATAAG
14613599 GGTATTATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 16 0.80
13 4 0.20
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (12 bp):
TTTAATAAGTAA
Found at i:14613765 original size:128 final size:128
Alignment explanation
Indices: 14613576--14613902 Score: 355
Period size: 128 Copynumber: 2.6 Consensus size: 128
14613566 TTATATAATT
* * * * *
14613576 AATTTAATAAGTAATTTAATAAGGGTATTATAATAATTTT--ATAAAATGCTACAAGTCAAATTT
1 AATTTAATATGTAATTTAATAGGGGTATTATAGTAATTTTAAATAAAATGCTACATGTTAAATTT
* *
14613639 TC-ATGAAGCAATGACAAAG-GTATTTTAGTAATTTAATAAGTACTTGATTTTATA-ATTTCTTA
66 TCTATGAAGCAATG-CAAAGAGTATTTTAATAATTTAATAAGTACTTAATTTTATATATTT-TTA
* * *
14613701 AACTTTAAT-TGTAATGTAATAGGGGTATTATAGTAAATTTTAAACAAAATACTACATGTTAAA-
1 AA-TTTAATATGTAATTTAATAGGGGTATTATAGT-AATTTTAAATAAAATGCTACATGTTAAAT
* ** * * **
14613764 TTTCTATTAAGCAATGGTAAGAGTGTTTTAATAATTTAATACGTGGTTAATTTTATATTATTTTT
64 TTTCTATGAAGCAATGCAAAGAGTATTTTAATAATTTAATAAGTACTTAATTTTATA-TATTTTT
14613829 A
128 A
** * *
14613830 AATTTAATATGTAATTTAATAGTAGTATTATAGTACTTTTCAAATAAAATGCTACAT-TTCAATT
1 AATTTAATATGTAATTTAATAGGGGTATTATAGTAATTTT-AAATAAAATGCTACATGTTAAATT
14613894 TTCTATGAA
65 TTCTATGAA
14613903 ATAATTCCAA
Statistics
Matches: 166, Mismatches: 25, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
125 23 0.14
126 12 0.07
127 7 0.04
128 70 0.42
129 50 0.30
130 4 0.02
ACGTcount: A:0.40, C:0.06, G:0.11, T:0.43
Consensus pattern (128 bp):
AATTTAATATGTAATTTAATAGGGGTATTATAGTAATTTTAAATAAAATGCTACATGTTAAATTT
TCTATGAAGCAATGCAAAGAGTATTTTAATAATTTAATAAGTACTTAATTTTATATATTTTTA
Found at i:14617899 original size:22 final size:21
Alignment explanation
Indices: 14617842--14617899 Score: 71
Period size: 22 Copynumber: 2.7 Consensus size: 21
14617832 AATAATCATC
*
14617842 GATAATTTAATAACTAATTAAT
1 GATAATTTAATAA-TAATGAAT
*
14617864 GATAACTTAATAATAAATGAAT
1 GATAATTTAATAAT-AATGAAT
*
14617886 GATAATTTAGTAAT
1 GATAATTTAATAAT
14617900 CAATAATATA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 1 0.03
22 30 0.97
ACGTcount: A:0.50, C:0.03, G:0.09, T:0.38
Consensus pattern (21 bp):
GATAATTTAATAATAATGAAT
Found at i:14618062 original size:22 final size:22
Alignment explanation
Indices: 14618037--14618121 Score: 89
Period size: 22 Copynumber: 3.9 Consensus size: 22
14618027 AAAAAATAAG
* * *
14618037 TGATAATTTAGTAGTTAATTAT
1 TGATAATTTAATAGTAAATTAA
* * *
14618059 TGATAACTTAATAATAAATCAA
1 TGATAATTTAATAGTAAATTAA
*
14618081 TGATAATTTAATAGTAAATTAG
1 TGATAATTTAATAGTAAATTAA
* *
14618103 TAATAATTTAACAGTAAAT
1 TGATAATTTAATAGTAAAT
14618122 CAATTTTAGT
Statistics
Matches: 51, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.47, C:0.04, G:0.09, T:0.40
Consensus pattern (22 bp):
TGATAATTTAATAGTAAATTAA
Found at i:14618066 original size:44 final size:44
Alignment explanation
Indices: 14618001--14618125 Score: 126
Period size: 44 Copynumber: 2.8 Consensus size: 44
14617991 TATAATAACA
* * *
14618001 TAATACTAAATCAGAGATAACTTAACAAAAAAT-AAGTGATAATT
1 TAATAGTAAATTAGTGATAACTTAACAAAAAATCAA-TGATAATT
* * * * *
14618045 TAGTAGTTAATTATTGATAACTTAATAATAAATCAATGATAATT
1 TAATAGTAAATTAGTGATAACTTAACAAAAAATCAATGATAATT
* * **
14618089 TAATAGTAAATTAGTAATAATTTAACAGTAAATCAAT
1 TAATAGTAAATTAGTGATAACTTAACAAAAAATCAAT
14618126 TTTAGTTTGA
Statistics
Matches: 65, Mismatches: 15, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
44 63 0.97
45 2 0.03
ACGTcount: A:0.50, C:0.06, G:0.09, T:0.34
Consensus pattern (44 bp):
TAATAGTAAATTAGTGATAACTTAACAAAAAATCAATGATAATT
Found at i:14618168 original size:22 final size:22
Alignment explanation
Indices: 14618149--14618251 Score: 81
Period size: 22 Copynumber: 4.8 Consensus size: 22
14618139 AATTAATTCA
14618149 TAGTAAATCAA-TGATAAATTAG
1 TAGTAAAT-AATTGATAAATTAG
*
14618171 TAGTAAATAATTGATAATTTAG
1 TAGTAAATAATTGATAAATTAG
* * *
14618193 TAGTTAATTATTGA-AAACTTAA
1 TAGTAAATAATTGATAAA-TTAG
* *
14618215 AAGTAAATCAA-T-ATAACTT-G
1 TAGTAAAT-AATTGATAAATTAG
*
14618235 TAGTAAATAATTTATAA
1 TAGTAAATAATTGATAA
14618252 CATAATAATT
Statistics
Matches: 64, Mismatches: 11, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
19 2 0.03
20 8 0.12
21 11 0.17
22 42 0.66
23 1 0.02
ACGTcount: A:0.49, C:0.04, G:0.11, T:0.37
Consensus pattern (22 bp):
TAGTAAATAATTGATAAATTAG
Found at i:14618432 original size:22 final size:22
Alignment explanation
Indices: 14618407--14618526 Score: 65
Period size: 22 Copynumber: 5.6 Consensus size: 22
14618397 AATGATACCC
14618407 TAATAGTAAAT-ATATAA-ATATG
1 TAATAGTAAATCAT-TAATA-ATG
* *
14618429 TAATAATAAATCATTAATAATT
1 TAATAGTAAATCATTAATAATG
14618451 TAATAGT-AA--ATTAATAACT-
1 TAATAGTAAATCATTAATAA-TG
** **
14618470 TAGCAGTAAATCACTT-ATAACA
1 TAATAGTAAATCA-TTAATAATG
* * *
14618492 TAATAGTAAATTACTAATAATT
1 TAATAGTAAATCATTAATAATG
*
14618514 TAATTGTAAATCA
1 TAATAGTAAATCA
14618527 ATGATAATTT
Statistics
Matches: 75, Mismatches: 14, Indels: 18
0.70 0.13 0.17
Matches are distributed among these distances:
19 13 0.17
20 3 0.04
21 3 0.04
22 51 0.68
23 5 0.07
ACGTcount: A:0.51, C:0.07, G:0.06, T:0.37
Consensus pattern (22 bp):
TAATAGTAAATCATTAATAATG
Found at i:14618477 original size:19 final size:19
Alignment explanation
Indices: 14618441--14618480 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
14618431 ATAATAAATC
* *
14618441 ATTAATAATTTAATAGTAA
1 ATTAATAACTTAACAGTAA
*
14618460 ATTAATAACTTAGCAGTAA
1 ATTAATAACTTAACAGTAA
14618479 AT
1 AT
14618481 CACTTATAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.50, C:0.05, G:0.07, T:0.38
Consensus pattern (19 bp):
ATTAATAACTTAACAGTAA
Found at i:14618543 original size:44 final size:43
Alignment explanation
Indices: 14618148--14618548 Score: 197
Period size: 44 Copynumber: 9.3 Consensus size: 43
14618138 TAATTAATTC
* * * *
14618148 ATAGTAAATCAATGATAAATTAGTAGTAAAT-AATTGATAATTTA
1 ATAGTAAAT-TATAATAATTTAATAGTAAATCAA-TGATAATTTA
* * * * *
14618192 GTAGTTAATTATTGAA-AACTTAAAAGTAAATCAAT-ATAACTT-
1 ATAGTAAATTA-T-AATAATTTAATAGTAAATCAATGATAATTTA
* * * ** * * * *
14618234 GTAGTAAATAATTTATAACATAATAATTAATCAGTAATAATTTA
1 ATAGTAAATTA-TAATAATTTAATAGTAAATCAATGATAATTTA
* * * * *
14618278 ATAATAAATTATGCATAATTTAATA-TAAATCAATAATAACTTG
1 ATAGTAAATTAT-AATAATTTAATAGTAAATCAATGATAATTTA
* * * * *
14618321 ATCGTGAATCATAGATAATTTAACAGTAAATCAATGATAATTTT
1 ATAGTAAATTATA-ATAATTTAATAGTAAATCAATGATAATTTA
* * * * * ***
14618365 GTAGTAAATAATCAAAAATTAAATAGTAAGTCAATGATACCCTA
1 ATAGTAAATTAT-AATAATTTAATAGTAAATCAATGATAATTTA
* * * *
14618409 ATAGTAAATATATAA-ATATGTAATAATAAATCATTAATAATTTA
1 ATAGTAAAT-TATAATA-ATTTAATAGTAAATCAATGATAATTTA
* ** * * **
14618453 ATAGTAAA-T-TAATAACTTAGCAGTAAATCACTTATAACATA
1 ATAGTAAATTATAATAATTTAATAGTAAATCAATGATAATTTA
*
14618494 ATAGTAAATTACTAATAATTTAATTGTAAATCAATGATAATTTA
1 ATAGTAAATTA-TAATAATTTAATAGTAAATCAATGATAATTTA
* *
14618538 GTAGTATATTA
1 ATAGTAAATTA
14618549 GTTAATCATT
Statistics
Matches: 263, Mismatches: 78, Indels: 32
0.71 0.21 0.09
Matches are distributed among these distances:
41 30 0.11
42 28 0.11
43 47 0.18
44 152 0.58
45 6 0.02
ACGTcount: A:0.49, C:0.06, G:0.08, T:0.36
Consensus pattern (43 bp):
ATAGTAAATTATAATAATTTAATAGTAAATCAATGATAATTTA
Found at i:14618715 original size:22 final size:21
Alignment explanation
Indices: 14618663--14618715 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
14618653 TAATAGACAT
*
14618663 TATTCACAACTTAATGATAAA
1 TATTCATAACTTAATGATAAA
* *
14618684 TATTTTATAACTTAATGGTAAA
1 TA-TTCATAACTTAATGATAAA
14618706 TCATTCATAA
1 T-ATTCATAA
14618716 ATTAGAAGTA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 2 0.08
22 23 0.88
23 1 0.04
ACGTcount: A:0.43, C:0.11, G:0.06, T:0.40
Consensus pattern (21 bp):
TATTCATAACTTAATGATAAA
Found at i:14618739 original size:24 final size:24
Alignment explanation
Indices: 14618705--14618752 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
14618695 TTAATGGTAA
14618705 ATCATTCATAAATTAG-AAGTAAAT
1 ATCATTCATAAATTAGTAA-TAAAT
* *
14618729 ATCATTGATAATTTAGTAATAAAT
1 ATCATTCATAAATTAGTAATAAAT
14618753 CTTTGATAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 19 0.90
25 2 0.10
ACGTcount: A:0.48, C:0.06, G:0.08, T:0.38
Consensus pattern (24 bp):
ATCATTCATAAATTAGTAATAAAT
Found at i:14618773 original size:22 final size:22
Alignment explanation
Indices: 14618733--14618774 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
14618723 GTAAATATCA
*
14618733 TTGATAATTTAGTAATAAATCT
1 TTGATAACTTAGTAATAAATCT
* *
14618755 TTGATAACTTATTAGTAAAT
1 TTGATAACTTAGTAATAAAT
14618775 AACTGATAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.40, C:0.05, G:0.10, T:0.45
Consensus pattern (22 bp):
TTGATAACTTAGTAATAAATCT
Found at i:14619208 original size:20 final size:21
Alignment explanation
Indices: 14619170--14619214 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 21
14619160 AGTAAATTTC
14619170 AATTTAGTAGTAATTAATTGATA
1 AATTTAGTAGTAA-TAATT-ATA
14619193 AATTTAGTAGT-A-AATTATA
1 AATTTAGTAGTAATAATTATA
14619212 AAT
1 AAT
14619215 ACTTTAATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.27
20 4 0.18
22 1 0.05
23 11 0.50
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (21 bp):
AATTTAGTAGTAATAATTATA
Found at i:14619242 original size:22 final size:22
Alignment explanation
Indices: 14619047--14619247 Score: 56
Period size: 22 Copynumber: 9.2 Consensus size: 22
14619037 AACAGCATAT
**
14619047 TAGTAAATCAATGATAGGTTAA
1 TAGTAAATCAATGATAATTTAA
* *
14619069 TA-AAAAT-AAGTGATAATTTAT
1 TAGTAAATCAA-TGATAATTTAA
* * * * * *
14619090 TTGTTAATTATTAATAACTTAA
1 TAGTAAATCAATGATAATTTAA
** * *
14619112 TAAAAAATCAATTATAACTTAA
1 TAGTAAATCAATGATAATTTAA
* * * *
14619134 TAGTAAATTAGTGATAACTTAT
1 TAGTAAATCAATGATAATTTAA
* * *
14619156 TA--AAAGTAAAT-TTCAATTTAG
1 TAGTAAA-TCAATGAT-AATTTAA
* *
14619177 TAGT-AATTAATTGATAAATTTAG
1 TAGTAAATCAA-TGAT-AATTTAA
* * *
14619200 TAGTAAAT-TATAAATACTTTAA
1 TAGTAAATCAAT-GATAATTTAA
*
14619222 TAGTAAATCAATGATAATTTAG
1 TAGTAAATCAATGATAATTTAA
14619244 TAGT
1 TAGT
14619248 TTATTATCAA
Statistics
Matches: 127, Mismatches: 40, Indels: 24
0.66 0.21 0.13
Matches are distributed among these distances:
20 6 0.05
21 26 0.20
22 74 0.58
23 18 0.14
24 3 0.02
ACGTcount: A:0.47, C:0.04, G:0.10, T:0.39
Consensus pattern (22 bp):
TAGTAAATCAATGATAATTTAA
Found at i:14619254 original size:44 final size:44
Alignment explanation
Indices: 14619188--14619272 Score: 111
Period size: 44 Copynumber: 1.9 Consensus size: 44
14619178 AGTAATTAAT
*
14619188 TGATAAATTTAGTAGTAAATTAT-AAATACTTTAATAGTAAATCAA
1 TGATAAATTTAGTAGTAAATTATCAAA-A-TTTAAAAGTAAATCAA
**
14619233 TGAT-AATTTAGTAGTTTATTATCAAAATTTAAAAGTAAAT
1 TGATAAATTTAGTAGTAAATTATCAAAATTTAAAAGTAAAT
14619273 TAATATGAGT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
43 12 0.33
44 17 0.47
45 7 0.19
ACGTcount: A:0.47, C:0.04, G:0.09, T:0.40
Consensus pattern (44 bp):
TGATAAATTTAGTAGTAAATTATCAAAATTTAAAAGTAAATCAA
Found at i:14619322 original size:16 final size:15
Alignment explanation
Indices: 14619301--14619334 Score: 59
Period size: 16 Copynumber: 2.2 Consensus size: 15
14619291 ATTAATTATC
14619301 AATAACTTAATAGTTA
1 AATAACTTAATAG-TA
14619317 AATAACTTAATAGTA
1 AATAACTTAATAGTA
14619332 AAT
1 AAT
14619335 TATGGATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.35
Consensus pattern (15 bp):
AATAACTTAATAGTA
Found at i:14619343 original size:22 final size:21
Alignment explanation
Indices: 14619318--14619377 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 21
14619308 TAATAGTTAA
14619318 ATAACTTAATAGTAAATTA-TGG
1 ATAACTTAATA-TAAATTAGT-G
*
14619340 ATAATTTAATATAAATTAGTG
1 ATAACTTAATATAAATTAGTG
*
14619361 ATAACTTGATAATAAAT
1 ATAACTTAAT-ATAAAT
14619378 CATAGTTAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 16 0.48
22 17 0.52
ACGTcount: A:0.48, C:0.03, G:0.10, T:0.38
Consensus pattern (21 bp):
ATAACTTAATATAAATTAGTG
Found at i:14619363 original size:21 final size:22
Alignment explanation
Indices: 14619318--14619377 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
14619308 TAATAGTTAA
14619318 ATAACTTAATAGTAAATTATGG
1 ATAACTTAATAGTAAATTATGG
*
14619340 ATAATTTAATA-TAAATTA-GTG
1 ATAACTTAATAGTAAATTATG-G
* *
14619361 ATAACTTGATAATAAAT
1 ATAACTTAATAGTAAAT
14619378 CATAGTTAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 1 0.03
21 17 0.52
22 15 0.45
ACGTcount: A:0.48, C:0.03, G:0.10, T:0.38
Consensus pattern (22 bp):
ATAACTTAATAGTAAATTATGG
Found at i:14619458 original size:22 final size:22
Alignment explanation
Indices: 14619434--14619554 Score: 84
Period size: 22 Copynumber: 5.5 Consensus size: 22
14619424 TCTAAAACTA
*
14619434 AATAGTAAATTAATGATAACAA
1 AATAGTAAATTAATGATAACAT
* ** *
14619456 AATAATAAATGCATAATAACAT
1 AATAGTAAATTAATGATAACAT
* * *
14619478 AATAGTAAATCATTGATAA-TT
1 AATAGTAAATTAATGATAACAT
* * **
14619499 TATATGTAAATTATTGATAATTT
1 AATA-GTAAATTAATGATAACAT
* *
14619522 AATAGTAAATTAGTGATAA-TT
1 AATAGTAAATTAATGATAACAT
*
14619543 AATTGTAAATTA
1 AATAGTAAATTA
14619555 GTTAATTATA
Statistics
Matches: 81, Mismatches: 16, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
21 17 0.21
22 59 0.73
23 5 0.06
ACGTcount: A:0.50, C:0.03, G:0.09, T:0.37
Consensus pattern (22 bp):
AATAGTAAATTAATGATAACAT
Found at i:14619509 original size:44 final size:43
Alignment explanation
Indices: 14619461--14619552 Score: 96
Period size: 44 Copynumber: 2.1 Consensus size: 43
14619451 AACAAAATAA
* *
14619461 TAAATGCA-TAATAACATAATAGTAAATCATTGATAATTTATATG
1 TAAAT-CATTAATAACATAATAGTAAATCAGTGATAATTAAT-TG
* * ** *
14619505 TAAATTATTGATAATTTAATAGTAAATTAGTGATAATTAATTG
1 TAAATCATTAATAACATAATAGTAAATCAGTGATAATTAATTG
14619548 TAAAT
1 TAAAT
14619553 TAGTTAATTA
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
43 8 0.20
44 32 0.80
ACGTcount: A:0.47, C:0.03, G:0.10, T:0.40
Consensus pattern (43 bp):
TAAATCATTAATAACATAATAGTAAATCAGTGATAATTAATTG
Found at i:14619741 original size:22 final size:22
Alignment explanation
Indices: 14619477--14619747 Score: 156
Period size: 22 Copynumber: 12.2 Consensus size: 22
14619467 CATAATAACA
14619477 TAATAGTAAATCATTGATAATT
1 TAATAGTAAATCATTGATAATT
*
14619499 T-ATATGTAAATTATTGATAATT
1 TAATA-GTAAATCATTGATAATT
* *
14619521 TAATAGTAAATTAGTGATAA-T
1 TAATAGTAAATCATTGATAATT
* * *
14619542 TAATTGTAAATTAGTTAATTATATCT
1 TAATAGTAAATCA-TTGA-TA-AT-T
** ** *
14619568 TTGTAGTAAATCATCAATAAAT
1 TAATAGTAAATCATTGATAATT
*
14619590 TAATAGTAAATTAATT-ATAACTT
1 TAATAGTAAA-TCATTGATAA-TT
* * * **
14619613 TATTA-CACATCATCAATAATT
1 TAATAGTAAATCATTGATAATT
* * * *
14619634 TAGTAATAAATCATTAACAATT
1 TAATAGTAAATCATTGATAATT
* *
14619656 TAATAGTAAATCATTCATAACT
1 TAATAGTAAATCATTGATAATT
* * * * *
14619678 T-GTAATAAATTATTCATAAGT
1 TAATAGTAAATCATTGATAATT
* *
14619699 TAATAGTAAATCAATGTTAATT
1 TAATAGTAAATCATTGATAATT
* *
14619721 TAGTAGTAAATTATTGATAATT
1 TAATAGTAAATCATTGATAATT
14619743 TAATA
1 TAATA
14619748 ATATATCACG
Statistics
Matches: 190, Mismatches: 47, Indels: 24
0.73 0.18 0.09
Matches are distributed among these distances:
21 42 0.22
22 118 0.62
23 14 0.07
24 3 0.02
25 3 0.02
26 10 0.05
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.42
Consensus pattern (22 bp):
TAATAGTAAATCATTGATAATT
Found at i:14620169 original size:21 final size:20
Alignment explanation
Indices: 14620143--14620210 Score: 84
Period size: 21 Copynumber: 3.2 Consensus size: 20
14620133 AGTGGTTACT
14620143 AAAATTTTATCAATAATTATC
1 AAAATTTTATCAA-AATTATC
*
14620164 AAAATTATATCGAAAATTA-C
1 AAAATTTTATC-AAAATTATC
14620184 TAAAATTTTATCAAAAGTTATC
1 -AAAATTTTATCAAAA-TTATC
14620206 AAAAT
1 AAAAT
14620211 CAAAATTATA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
20 5 0.12
21 33 0.80
22 3 0.07
ACGTcount: A:0.51, C:0.09, G:0.03, T:0.37
Consensus pattern (20 bp):
AAAATTTTATCAAAATTATC
Found at i:14620179 original size:12 final size:11
Alignment explanation
Indices: 14620143--14620258 Score: 66
Period size: 11 Copynumber: 10.5 Consensus size: 11
14620133 AGTGGTTACT
*
14620143 AAAATTTTATC
1 AAAATTATATC
14620154 AATAA-T-TATC
1 AA-AATTATATC
14620164 AAAATTATATC
1 AAAATTATATC
*
14620175 GAAAATTA-CT-
1 -AAAATTATATC
*
14620185 AAAATTTTATC
1 AAAATTATATC
14620196 AAAAGTTATCAAAATC
1 AAAA-TTAT----ATC
14620212 AAAATTATATC
1 AAAATTATATC
*
14620223 AAAAGT-TATC
1 AAAATTATATC
14620233 -AAATTATAT-
1 AAAATTATATC
*
14620242 ATATATTATATC
1 A-AAATTATATC
14620254 AAAAT
1 AAAAT
14620259 CAAAATTAAA
Statistics
Matches: 82, Mismatches: 8, Indels: 30
0.68 0.07 0.25
Matches are distributed among these distances:
9 12 0.15
10 15 0.18
11 31 0.38
12 13 0.16
15 4 0.05
16 7 0.09
ACGTcount: A:0.52, C:0.09, G:0.03, T:0.37
Consensus pattern (11 bp):
AAAATTATATC
Done.