Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 43 of 279
Found at i:14461302 original size:19 final size:20
Alignment explanation
Indices: 14461259--14461302 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
14461249 ATAATAAAAT
*
14461259 TAACAATAAAACAATAATTA
1 TAACAATAAAACAATAATAA
*
14461279 T-ACAATATAACAA-AATAA
1 TAACAATAAAACAATAATAA
14461297 TAACAA
1 TAACAA
14461303 AATCATAACC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 5 0.24
19 15 0.71
20 1 0.05
ACGTcount: A:0.66, C:0.11, G:0.00, T:0.23
Consensus pattern (20 bp):
TAACAATAAAACAATAATAA
Found at i:14464626 original size:30 final size:31
Alignment explanation
Indices: 14464572--14464637 Score: 107
Period size: 30 Copynumber: 2.2 Consensus size: 31
14464562 CCAAAAAAAG
14464572 ATTAAATTAAATAGTTTATAATTTTTAAGGT
1 ATTAAATTAAATAGTTTATAATTTTTAAGGT
* *
14464603 ATTAAATTAAAT-TTTTATCATTTTTAAGGT
1 ATTAAATTAAATAGTTTATAATTTTTAAGGT
14464633 ATTAA
1 ATTAA
14464638 TTGTACCATT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
30 21 0.64
31 12 0.36
ACGTcount: A:0.41, C:0.02, G:0.08, T:0.50
Consensus pattern (31 bp):
ATTAAATTAAATAGTTTATAATTTTTAAGGT
Found at i:14465441 original size:29 final size:29
Alignment explanation
Indices: 14465386--14465442 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
14465376 CCTCATCAAA
* * *
14465386 TTAATTAATTTATTATTAAATAGATTAAT
1 TTAATTAATATATTATTAAAAAAATTAAT
*
14465415 TTAATTAATATATTGTTAAAAAAATTAA
1 TTAATTAATATATTATTAAAAAAATTAA
14465443 ATACGGCTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (29 bp):
TTAATTAATATATTATTAAAAAAATTAAT
Found at i:14467257 original size:2 final size:2
Alignment explanation
Indices: 14467250--14467279 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
14467240 GACGAGGGCT
14467250 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14467280 TTGGTGGTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:14467941 original size:22 final size:22
Alignment explanation
Indices: 14467914--14467965 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
14467904 TTAGTTGTTG
14467914 AGTTATTTAATGCAATTTTTGT
1 AGTTATTTAATGCAATTTTTGT
14467936 AGTTATTTAATGCAATTTTTGT
1 AGTTATTTAATGCAATTTTTGT
*
14467958 AGTGATTT
1 AGTTATTT
14467966 GTGATTGTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.27, C:0.04, G:0.15, T:0.54
Consensus pattern (22 bp):
AGTTATTTAATGCAATTTTTGT
Found at i:14470992 original size:6 final size:6
Alignment explanation
Indices: 14470981--14471010 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
14470971 TTTGCATCTG
14470981 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
14471011 TTAGAATTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
ATTTTT
Found at i:14474099 original size:36 final size:36
Alignment explanation
Indices: 14474047--14474171 Score: 241
Period size: 36 Copynumber: 3.5 Consensus size: 36
14474037 CCCAACTACT
*
14474047 GTATACGTGAACAGTACTGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACTGTATACGTGAATAGTGCC
14474083 GTATACGTGAATAGTACTGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACTGTATACGTGAATAGTGCC
14474119 GTATACGTGAATAGTACTGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACTGTATACGTGAATAGTGCC
14474155 GTATACGTGAATAGTAC
1 GTATACGTGAATAGTAC
14474172 CGTAAACGGT
Statistics
Matches: 88, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
36 88 1.00
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.30
Consensus pattern (36 bp):
GTATACGTGAATAGTACTGTATACGTGAATAGTGCC
Found at i:14474174 original size:18 final size:18
Alignment explanation
Indices: 14474047--14474175 Score: 195
Period size: 18 Copynumber: 7.2 Consensus size: 18
14474037 CCCAACTACT
* *
14474047 GTATACGTGAACAGTACT
1 GTATACGTGAATAGTACC
*
14474065 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
*
14474083 GTATACGTGAATAGTACT
1 GTATACGTGAATAGTACC
*
14474101 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
*
14474119 GTATACGTGAATAGTACT
1 GTATACGTGAATAGTACC
*
14474137 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
14474155 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
14474173 GTA
1 GTA
14474176 AACGGTCGTA
Statistics
Matches: 99, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 99 1.00
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:14476931 original size:16 final size:16
Alignment explanation
Indices: 14476910--14476978 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
14476900 TTTGGTTCGC
14476910 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
14476926 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
14476942 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
14476959 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
14476975 TGTA
1 TGTA
14476979 ATAGCTAATC
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:14476956 original size:33 final size:32
Alignment explanation
Indices: 14476910--14476978 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
14476900 TTTGGTTCGC
14476910 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
14476942 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGTGTATTGGATTAGAGG
14476975 TGTA
1 TGTA
14476979 ATAGCTAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 6 0.17
33 30 0.83
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGATTAGAGG
Found at i:14477043 original size:44 final size:45
Alignment explanation
Indices: 14476959--14477049 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
14476949 GGATTAGAGG
* * *
14476959 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
14477004 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
14477048 TG
1 TG
14477050 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:14477235 original size:18 final size:19
Alignment explanation
Indices: 14477214--14477250 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
14477204 TTATTATTAA
14477214 ATAT-ATTT-TAATTAAAAT
1 ATATAATTTATAA-TAAAAT
14477232 ATATAATTTATAATAAAAT
1 ATATAATTTATAATAAAAT
14477251 TCTTAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.24
19 10 0.59
20 3 0.18
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
ATATAATTTATAATAAAAT
Found at i:14477358 original size:59 final size:58
Alignment explanation
Indices: 14477292--14477477 Score: 157
Period size: 59 Copynumber: 3.1 Consensus size: 58
14477282 CTCAAATCAT
* *
14477292 AATATATGATACTATAAAATATAATTTGAAATAATTAATATTAAATATATTTTAATTAA
1 AATATATGATACTATAAAATATAATTT-AAATAATTATTATTAAATATATTTTAATAAA
* * * * *
14477351 AATATATGAT-TTAATAAAATTCTTAATATTAAAT-ATTCTTATATGAAT-T-TTCTAA-AATCA
1 AATATATGATACT-ATAAAA-T-ATAAT-TTAAATAATTATTAT-TAAATATATTTTAATAA--A
* **
14477411 TAATATATAATACTATAAAATATAATTTAACATAATTATTATTAAATATAAGTTAATAAA
1 -AATATATGATACTATAAAATATAATTTAA-ATAATTATTATTAAATATATTTTAATAAA
14477471 AATATAT
1 AATATAT
14477478 AATTTATCAT
Statistics
Matches: 98, Mismatches: 15, Indels: 28
0.70 0.11 0.20
Matches are distributed among these distances:
58 6 0.06
59 38 0.39
60 19 0.19
61 30 0.31
62 5 0.05
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (58 bp):
AATATATGATACTATAAAATATAATTTAAATAATTATTATTAAATATATTTTAATAAA
Found at i:14477415 original size:120 final size:120
Alignment explanation
Indices: 14477194--14477483 Score: 456
Period size: 120 Copynumber: 2.4 Consensus size: 120
14477184 TTAATCATAT
14477194 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTATAATAAAATTCTTAATA
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAA-TT-TAATAAAATTCTTAATA
* * *
14477259 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA
64 ATAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* * *
14477316 TTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAT
1 TTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
*
14477380 TAAATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATAAAATATAA
65 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
** *
14477436 TTTAACATAATTATTATTAAATATAAGTTAATAAAAATATATAATTTA
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTA
14477484 TCATCATACT
Statistics
Matches: 154, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
119 2 0.01
120 109 0.71
121 2 0.01
122 39 0.25
123 2 0.01
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (120 bp):
TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:14481245 original size:45 final size:45
Alignment explanation
Indices: 14481167--14481261 Score: 120
Period size: 45 Copynumber: 2.1 Consensus size: 45
14481157 TTGCTGATGA
* * * * *
14481167 ATTTCGTTAAATTAAATTTTATAATATTGTAAATTAGTTCGAGCT
1 ATTTTGTTAAATCAAATTTTATAATAATATAAATTAATTCGAGCT
*
14481212 GTTTTGTTAAATCAAA-TTTATAATAAATATAAATTAATTCGAGCT
1 ATTTTGTTAAATCAAATTTTATAAT-AATATAAATTAATTCGAGCT
14481257 ATTTT
1 ATTTT
14481262 AAGATCATTG
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
44 8 0.19
45 34 0.81
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.46
Consensus pattern (45 bp):
ATTTTGTTAAATCAAATTTTATAATAATATAAATTAATTCGAGCT
Found at i:14482261 original size:24 final size:25
Alignment explanation
Indices: 14482215--14482261 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
14482205 AAGATTATAT
* *
14482215 ATAAATTTTTTATTTAATTTAATAC
1 ATAAATTTTTAATTTAATATAATAC
*
14482240 ATAAA-TTTTAATTTAGTATAAT
1 ATAAATTTTTAATTTAATATAAT
14482262 TATACATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 14 0.74
25 5 0.26
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (25 bp):
ATAAATTTTTAATTTAATATAATAC
Found at i:14483317 original size:28 final size:28
Alignment explanation
Indices: 14483272--14483328 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
14483262 ACCTAATAAT
* * * *
14483272 AGAGGTTTTGATGTAAAATTATATTTTA
1 AGAGGGTTTGACGAAAAATTACATTTTA
14483300 AGAGGGTTTGACGAAAAATTACATTTTA
1 AGAGGGTTTGACGAAAAATTACATTTTA
14483328 A
1 A
14483329 AAATTCAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.39, C:0.04, G:0.19, T:0.39
Consensus pattern (28 bp):
AGAGGGTTTGACGAAAAATTACATTTTA
Found at i:14488405 original size:33 final size:33
Alignment explanation
Indices: 14488368--14488432 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
14488358 AATCTTCATA
14488368 AATAATATTTAGATTGGTTTAAAATGATTGATG
1 AATAATATTTAGATTGGTTTAAAATGATTGATG
14488401 AATAATATTTAGATTGGTTTAAAATGATTGAT
1 AATAATATTTAGATTGGTTTAAAATGATTGAT
14488433 TAAGCTATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.43
Consensus pattern (33 bp):
AATAATATTTAGATTGGTTTAAAATGATTGATG
Found at i:14490766 original size:8 final size:8
Alignment explanation
Indices: 14490753--14490787 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
14490743 GAAACCAATT
14490753 TTTATATA
1 TTTATATA
14490761 TTTATATA
1 TTTATATA
14490769 TTTATATA
1 TTTATATA
*
14490777 TTGATA-A
1 TTTATATA
14490784 TTTA
1 TTTA
14490788 AATGTATAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 4 0.16
8 21 0.84
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (8 bp):
TTTATATA
Found at i:14494772 original size:20 final size:21
Alignment explanation
Indices: 14494733--14494773 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
14494723 TTATTAGGTA
14494733 TAATAAGATAAAATAAAAATT
1 TAATAAGATAAAATAAAAATT
14494754 TAATAA-ATATAAA-AAAAATT
1 TAATAAGATA-AAATAAAAATT
14494774 ATGTTGTAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.29
Consensus pattern (21 bp):
TAATAAGATAAAATAAAAATT
Found at i:14495364 original size:43 final size:43
Alignment explanation
Indices: 14495262--14495448 Score: 182
Period size: 43 Copynumber: 4.3 Consensus size: 43
14495252 GCGTCGCAAA
* * * ** * *
14495262 AAACGCCACTAAAAACCATGACTTTTAGCGATGTTCTTTTTTC-T
1 AAACGCCGCTAAAGACCATGACCTTTAGCG--GCGCTTTTTCCAC
* *
14495306 AAACGCCACTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTCCAC
* * * *
14495349 AAACGCCGCTAAAGACCATGATCTTTAGCGTCGCTTTTTCTAA
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTCCAC
* * *
14495392 AAACGCCGCTATATATCC--GACCTTTAGCGGCGCTTTTTTCAC
1 AAACGCCGCTAAAGA-CCATGACCTTTAGCGGCGCTTTTTCCAC
14495434 AAACGCCGCTAAAGA
1 AAACGCCGCTAAAGA
14495449 ATATAAAATT
Statistics
Matches: 119, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
42 39 0.33
43 50 0.42
44 30 0.25
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTCCAC
Found at i:14496485 original size:45 final size:45
Alignment explanation
Indices: 14496421--14496511 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
14496411 AGAATAATAT
*
14496421 GTAAGTGCATTGATTCCTCCCAAATTCATTAGGACCAACACTCCA
1 GTAAGTGCATTGATTCCTCCCAAATTCATCAGGACCAACACTCCA
14496466 GTAAGTGCATTGATTCCTCCCAAATTCATCAGGACCAACACTCCA
1 GTAAGTGCATTGATTCCTCCCAAATTCATCAGGACCAACACTCCA
14496511 G
1 G
14496512 CAACAGTCTA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.31, C:0.30, G:0.14, T:0.25
Consensus pattern (45 bp):
GTAAGTGCATTGATTCCTCCCAAATTCATCAGGACCAACACTCCA
Found at i:14501924 original size:23 final size:22
Alignment explanation
Indices: 14501898--14501943 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 22
14501888 TGTGATGACG
14501898 TTATCTT-ATAAATATGTATGAAT
1 TTATCTTGA-AAATATGT-TGAAT
14501921 TTATCTTGAAAATATGTTGAAT
1 TTATCTTGAAAATATGTTGAAT
14501943 T
1 T
14501944 GATTTGGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 6 0.27
23 15 0.68
24 1 0.05
ACGTcount: A:0.37, C:0.04, G:0.11, T:0.48
Consensus pattern (22 bp):
TTATCTTGAAAATATGTTGAAT
Found at i:14512600 original size:24 final size:23
Alignment explanation
Indices: 14512573--14512620 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
14512563 TTTTGGGGAA
14512573 TATTTGTGTTTACGTTTTGAGGGT
1 TATTTGTGTTTACGTTTT-AGGGT
* *
14512597 TATTTGTTTTTAGGTTTTAGGGT
1 TATTTGTGTTTACGTTTTAGGGT
14512620 T
1 T
14512621 TAGTTTTTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 6 0.27
24 16 0.73
ACGTcount: A:0.12, C:0.02, G:0.27, T:0.58
Consensus pattern (23 bp):
TATTTGTGTTTACGTTTTAGGGT
Found at i:14515419 original size:40 final size:40
Alignment explanation
Indices: 14515363--14515442 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
14515353 ATTATTGGAA
14515363 AGAGTGCCATCAAGATTGTAATAAATAATGACACCTCCCT
1 AGAGTGCCATCAAGATTGTAATAAATAATGACACCTCCCT
* *
14515403 AGAGTGCCATCCAGATTGTATTAAATAATGACACCTCCCT
1 AGAGTGCCATCAAGATTGTAATAAATAATGACACCTCCCT
14515443 GATTCGTTGA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.26
Consensus pattern (40 bp):
AGAGTGCCATCAAGATTGTAATAAATAATGACACCTCCCT
Found at i:14518445 original size:24 final size:24
Alignment explanation
Indices: 14518418--14518463 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
14518408 AAGCTCATGT
* *
14518418 GAGCTAATAACGGGTAGCTTTGAA
1 GAGCCAATAACGGGAAGCTTTGAA
14518442 GAGCCAATAACGGGAAGCTTTG
1 GAGCCAATAACGGGAAGCTTTG
14518464 GATAGCTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.33, C:0.15, G:0.30, T:0.22
Consensus pattern (24 bp):
GAGCCAATAACGGGAAGCTTTGAA
Found at i:14519614 original size:14 final size:14
Alignment explanation
Indices: 14519578--14519614 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
14519568 TGATATTAGA
14519578 TATTTA-TTTTATT
1 TATTTACTTTTATT
14519591 TA-TTATCTTTTATT
1 TATTTA-CTTTTATT
14519605 TATTTACTTT
1 TATTTACTTT
14519615 CCAACTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 3 0.14
13 2 0.10
14 13 0.62
15 3 0.14
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (14 bp):
TATTTACTTTTATT
Found at i:14530842 original size:35 final size:35
Alignment explanation
Indices: 14530803--14530878 Score: 152
Period size: 35 Copynumber: 2.2 Consensus size: 35
14530793 AGTACAGAGA
14530803 CTAAAATTGATCAAATCAAAGTATAAGAACTAAAT
1 CTAAAATTGATCAAATCAAAGTATAAGAACTAAAT
14530838 CTAAAATTGATCAAATCAAAGTATAAGAACTAAAT
1 CTAAAATTGATCAAATCAAAGTATAAGAACTAAAT
14530873 CTAAAA
1 CTAAAA
14530879 CTTTCACAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.55, C:0.12, G:0.08, T:0.25
Consensus pattern (35 bp):
CTAAAATTGATCAAATCAAAGTATAAGAACTAAAT
Found at i:14534940 original size:15 final size:15
Alignment explanation
Indices: 14534920--14534988 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
14534910 GTATCTTGGG
14534920 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
14534935 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
14534950 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
14534965 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
14534980 TTTCTTTAT
1 TTTCTTTAT
14534989 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:14534989 original size:30 final size:30
Alignment explanation
Indices: 14534911--14534998 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
14534901 CATAGTATCG
* * * *
14534911 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
14534941 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
14534971 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
14534999 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:14539021 original size:16 final size:16
Alignment explanation
Indices: 14539000--14539034 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
14538990 GGTATGTAAC
14539000 AGAAAAAAAAAAGAAA
1 AGAAAAAAAAAAGAAA
*
14539016 AGAAAAAGAAAAGAAA
1 AGAAAAAAAAAAGAAA
14539032 AGA
1 AGA
14539035 GAGACAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (16 bp):
AGAAAAAAAAAAGAAA
Found at i:14544162 original size:17 final size:17
Alignment explanation
Indices: 14544133--14544165 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
14544123 TAATCTTTCA
14544133 TTATTGTTATTATTTAT
1 TTATTGTTATTATTTAT
14544150 TTATATGTT-TTATTTA
1 TTAT-TGTTATTATTTA
14544166 CATTTTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.70
Consensus pattern (17 bp):
TTATTGTTATTATTTAT
Found at i:14549641 original size:13 final size:13
Alignment explanation
Indices: 14549623--14549657 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
14549613 ATAGTACTGG
14549623 CTTCATCATGGGT
1 CTTCATCATGGGT
14549636 CTTCATCATGGGT
1 CTTCATCATGGGT
*
14549649 ATTCATCAT
1 CTTCATCAT
14549658 ATGCTGTAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.20, C:0.23, G:0.17, T:0.40
Consensus pattern (13 bp):
CTTCATCATGGGT
Found at i:14556992 original size:20 final size:21
Alignment explanation
Indices: 14556942--14556996 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
14556932 CTTGTTAAAC
* *
14556942 ATTAGATATTTTGGTAAATCT
1 ATTAGATATATTGATAAATCT
* *
14556963 -TTAAAAATATTGATAAAT-T
1 ATTAGATATATTGATAAATCT
14556982 ATTAGATATATTGAT
1 ATTAGATATATTGAT
14556997 GACTCCTTCG
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 1 0.04
20 26 0.96
ACGTcount: A:0.42, C:0.02, G:0.11, T:0.45
Consensus pattern (21 bp):
ATTAGATATATTGATAAATCT
Found at i:14575806 original size:8 final size:8
Alignment explanation
Indices: 14575793--14575831 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
14575783 TATATGTGTT
*
14575793 TATATATA
1 TATATATG
14575801 TATATATG
1 TATATATG
*
14575809 TATGTATG
1 TATATATG
*
14575817 TATGTATG
1 TATATATG
14575825 TATATAT
1 TATATAT
14575832 AAACAGAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.36, C:0.00, G:0.13, T:0.51
Consensus pattern (8 bp):
TATATATG
Found at i:14576234 original size:11 final size:12
Alignment explanation
Indices: 14576208--14576237 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
14576198 GGATATTTCC
14576208 TTAAGAAAAATA
1 TTAAGAAAAATA
14576220 TTAAGAAAAAT-
1 TTAAGAAAAATA
14576231 TTAAGAA
1 TTAAGAA
14576238 TTGAAATACA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.63, C:0.00, G:0.10, T:0.27
Consensus pattern (12 bp):
TTAAGAAAAATA
Found at i:14576388 original size:15 final size:13
Alignment explanation
Indices: 14576370--14576403 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
14576360 TTGATGTTTA
14576370 AAAAAACTTATATAT
1 AAAAAA-TTATA-AT
14576385 AAAAAATTATAAT
1 AAAAAATTATAAT
14576398 AAAAAA
1 AAAAAA
14576404 AGTTTATGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.42
14 5 0.26
15 6 0.32
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (13 bp):
AAAAAATTATAAT
Found at i:14582810 original size:28 final size:28
Alignment explanation
Indices: 14582768--14582821 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
14582758 AAGTCATAGC
*
14582768 AAAGGGTTGCGGGTTCGAACACTGTAGT
1 AAAGGGTTGCGGGTTCAAACACTGTAGT
*
14582796 AAAGGGTTGCTGGTTCAAACACTGTA
1 AAAGGGTTGCGGGTTCAAACACTGTA
14582822 CTTACATCCG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (28 bp):
AAAGGGTTGCGGGTTCAAACACTGTAGT
Found at i:14583813 original size:172 final size:172
Alignment explanation
Indices: 14583472--14583860 Score: 557
Period size: 172 Copynumber: 2.3 Consensus size: 172
14583462 GACAGATATG
* * * *
14583472 TACCAAAATGGGTTACCTTACCAATTTGTAACAAACGACCCATTTCAGTACTTAATTTGTAATGT
1 TACCAAAATGAGTCACCTTACCAATTTGTAACAAACGACCCATTTCAGTAATTAATTTGTAAGGT
** * ** *
14583537 CGTCCATTTTGGTATTTAATTATTTTTAAATTATTTAGGTAAAATTGTTGTACCATACACCATTT
66 CACCCATTTTGATATTTAATTATTTTTAAATTACCTAGGTAAAAATGTTGTACCATACACCATTT
14583602 CTTGACCTTTTTACCCCAATAATCCAAAAAATAATAATAAAA
131 CTTGACCTTTTTACCCCAATAATCCAAAAAATAATAATAAAA
* * * *
14583644 TGCCAAAATGAGTCACCTTACCAATTTGCAACAAACGACTCATTTCGGTAATTAATTTGTAAGGT
1 TACCAAAATGAGTCACCTTACCAATTTGTAACAAACGACCCATTTCAGTAATTAATTTGTAAGGT
* **
14583709 CACCCATTTTGATATTTAATTATTTTTTATATTACCTAGGTAAAAATGTTGTACCATACACTGTT
66 CACCCATTTTGATATTTAATTA-TTTTTAAATTACCTAGGTAAAAATGTTGTACCATACACCATT
* *
14583774 TCTTGACCTTTTTACCCCAATAATCCAAAAAA-CATAATAAAT
130 TCTTGACCTTTTTACCCCAATAATCCAAAAAATAATAATAAAA
* *
14583816 TACCAAAAT-AGAACACCTTACCAATTTGTAGCAAACGACCCATTT
1 TACCAAAATGAG-TCACCTTACCAATTTGTAACAAACGACCCATTT
14583861 TGAAATTTAA
Statistics
Matches: 191, Mismatches: 24, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
171 2 0.01
172 121 0.63
173 68 0.36
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.35
Consensus pattern (172 bp):
TACCAAAATGAGTCACCTTACCAATTTGTAACAAACGACCCATTTCAGTAATTAATTTGTAAGGT
CACCCATTTTGATATTTAATTATTTTTAAATTACCTAGGTAAAAATGTTGTACCATACACCATTT
CTTGACCTTTTTACCCCAATAATCCAAAAAATAATAATAAAA
Found at i:14583903 original size:32 final size:31
Alignment explanation
Indices: 14583838--14583908 Score: 81
Period size: 32 Copynumber: 2.3 Consensus size: 31
14583828 ACACCTTACC
* *
14583838 AATTTGTAGCAAACGACCCATTTTGAAATTT
1 AATTTGTAGCAAACAACCCATTTGGAAATTT
* *
14583869 AATATTGTAGCAAACAATCCATTTCGGTAA-TT
1 AAT-TTGTAGCAAACAACCCATTT-GGAAATTT
14583901 AATTTGTA
1 AATTTGTA
14583909 AGCTAGCCCG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
31 8 0.24
32 23 0.68
33 3 0.09
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.37
Consensus pattern (31 bp):
AATTTGTAGCAAACAACCCATTTGGAAATTT
Found at i:14583982 original size:3 final size:3
Alignment explanation
Indices: 14583974--14584092 Score: 229
Period size: 3 Copynumber: 39.7 Consensus size: 3
14583964 GTACTACGCA
14583974 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
14584022 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
*
14584070 AAG AAG AAG AAG AAG AAT AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AA
14584093 ATATACACTA
Statistics
Matches: 114, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 114 1.00
ACGTcount: A:0.67, C:0.00, G:0.32, T:0.01
Consensus pattern (3 bp):
AAG
Found at i:14584971 original size:79 final size:79
Alignment explanation
Indices: 14584881--14585122 Score: 457
Period size: 79 Copynumber: 3.1 Consensus size: 79
14584871 ATCTTATAGG
* *
14584881 TTTCTAAACTTCTTTTCTAGTCAAAGTAATATTCAAAGTTTGATTCTACAAGTTTGTGAGATCAA
1 TTTCTAAACTTCTTTTCTAGTCCAAGTAATATTTAAAGTTTGATTCTACAAGTTTGTGAGATCAA
14584946 ACTATTCTTAATAT
66 ACTATTCTTAATAT
14584960 TTTCTAAACTTCTTTTCTAGTCCAAGTAATATTTAAAGTTTGATTCTACAAGTTTGTGAGATCAA
1 TTTCTAAACTTCTTTTCTAGTCCAAGTAATATTTAAAGTTTGATTCTACAAGTTTGTGAGATCAA
14585025 ACTATTCTTAATAT
66 ACTATTCTTAATAT
*
14585039 TTTCTAAACTTCTTTTCTAGTCCAAGTAATATTTAAAGTTTGATTCTACAAGTTTGTGAGATCGA
1 TTTCTAAACTTCTTTTCTAGTCCAAGTAATATTTAAAGTTTGATTCTACAAGTTTGTGAGATCAA
14585104 ACTATTCTTAATAT
66 ACTATTCTTAATAT
14585118 TTTCT
1 TTTCT
14585123 TAGTTCTTTA
Statistics
Matches: 160, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
79 160 1.00
ACGTcount: A:0.31, C:0.14, G:0.10, T:0.45
Consensus pattern (79 bp):
TTTCTAAACTTCTTTTCTAGTCCAAGTAATATTTAAAGTTTGATTCTACAAGTTTGTGAGATCAA
ACTATTCTTAATAT
Found at i:14585413 original size:23 final size:23
Alignment explanation
Indices: 14585376--14585437 Score: 88
Period size: 23 Copynumber: 2.7 Consensus size: 23
14585366 TTGATTCTTT
*
14585376 TTTTTATTTTGTTTTACAATATC
1 TTTTTATTTTATTTTACAATATC
* * *
14585399 TTTTTACTTTATTTTGCGATATC
1 TTTTTATTTTATTTTACAATATC
14585422 TTTTTATTTTATTTTA
1 TTTTTATTTTATTTTA
14585438 ATTTTGATTT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.19, C:0.08, G:0.05, T:0.68
Consensus pattern (23 bp):
TTTTTATTTTATTTTACAATATC
Found at i:14588136 original size:66 final size:66
Alignment explanation
Indices: 14588030--14588163 Score: 164
Period size: 66 Copynumber: 2.0 Consensus size: 66
14588020 ATTCTGAAGC
* * * * * *
14588030 TGTAGCTGGAGTTCGTCATATTTTTTTGTTGCCTCTGCTTCCCTCGCA-ATTGTCTCTGCTTTAA
1 TGTAGCTGGAGTTCATCACATTTTTTTGTAGCCTCTGCTTCCCTCG-ATACTGCCTCCGCTTTAA
14588094 GT
65 GT
* *
14588096 TGTAGCTGGAGTTCATCACATTTTCTTTG-AGCGTCTGCTTCTCTCGATACTGCCTCCGCTTTAA
1 TGTAGCTGGAGTTCATCACATTTT-TTTGTAGCCTCTGCTTCCCTCGATACTGCCTCCGCTTTAA
14588160 GT
65 GT
14588162 TG
1 TG
14588164 AGCAATTTGT
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
65 1 0.02
66 53 0.91
67 4 0.07
ACGTcount: A:0.13, C:0.24, G:0.20, T:0.43
Consensus pattern (66 bp):
TGTAGCTGGAGTTCATCACATTTTTTTGTAGCCTCTGCTTCCCTCGATACTGCCTCCGCTTTAAG
T
Found at i:14596365 original size:30 final size:30
Alignment explanation
Indices: 14596331--14596428 Score: 90
Period size: 30 Copynumber: 3.3 Consensus size: 30
14596321 AGCTCACTCC
14596331 TAGCTCATATTCAGCTCACGAGCTAAACCT
1 TAGCTCATATTCAGCTCACGAGCTAAACCT
** * * * * *
14596361 TAGCTCAGCTTCAGCTTAGGAGTTTAATCT
1 TAGCTCATATTCAGCTCACGAGCTAAACCT
* * *
14596391 CAGCTCA-ACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
14596421 TAGCTCAT
1 TAGCTCAT
14596429 TTTAGTTTAA
Statistics
Matches: 50, Mismatches: 16, Indels: 3
0.72 0.23 0.04
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.30
Consensus pattern (30 bp):
TAGCTCATATTCAGCTCACGAGCTAAACCT
Found at i:14597969 original size:14 final size:14
Alignment explanation
Indices: 14597922--14597969 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
14597912 GTACGAATGG
*
14597922 AATGGTAGGAACGA
1 AATGGTAGGAACAA
*
14597936 AAGGGTAGGAACAA
1 AATGGTAGGAACAA
*
14597950 AATGGTATGAACAA
1 AATGGTAGGAACAA
*
14597964 ATTGGT
1 AATGGT
14597970 CGGTTTAGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.44, C:0.06, G:0.31, T:0.19
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:14599898 original size:30 final size:29
Alignment explanation
Indices: 14599804--14599900 Score: 95
Period size: 30 Copynumber: 3.2 Consensus size: 29
14599794 TAAACTGAAA
*
14599804 TGAGCTAAGTTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAA-T
* * * * * * *
14599834 TGAGCTGAGGCTAAACTCTTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCT-AAAT
14599864 TGAGCTAAGGTTTAGCTCGTGAGCTAAAT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAT
14599893 ATGAGCTA
1 -TGAGCTA
14599901 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 15, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
29 3 0.06
30 45 0.90
31 2 0.04
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (29 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTAAAT
Found at i:14602096 original size:12 final size:12
Alignment explanation
Indices: 14602081--14602111 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
14602071 TTCTTTTTGC
14602081 TTTTCAAAGGCT
1 TTTTCAAAGGCT
14602093 TTTTCAAAGGCT
1 TTTTCAAAGGCT
14602105 TTTTCAA
1 TTTTCAA
14602112 GTTCTCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGGCT
Found at i:14602188 original size:6 final size:6
Alignment explanation
Indices: 14602172--14602221 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
14602162 TTTCTTTTTA
*
14602172 TTTCAT TTTCTT TTTCTT CTCTTGCTT TTTCTT TTTC-T TTTC-T TTTCTT
1 TTTCTT TTTCTT TTTCTT -T-TT-CTT TTTCTT TTTCTT TTTCTT TTTCTT
14602221 T
1 T
14602222 GTTTTCTCTT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
5 10 0.26
6 20 0.51
7 3 0.08
8 3 0.08
9 3 0.08
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.76
Consensus pattern (6 bp):
TTTCTT
Found at i:14602204 original size:37 final size:37
Alignment explanation
Indices: 14602161--14602231 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
14602151 CTTGCCTCTC
14602161 TTTTCTTTTT-ATTTCATTTTCTTT-TTCTTCTCTTGCT
1 TTTTCTTTTTCATTTC-TTTTCTTTGTT-TTCTCTTGCT
*
14602198 TTTTCTTTTTCTTTTCTTTTCTTTGTTTTCTCTT
1 TTTTCTTTTTCATTTCTTTTCTTTGTTTTCTCTT
14602232 TACAAGAATG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 25 0.81
38 6 0.19
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.76
Consensus pattern (37 bp):
TTTTCTTTTTCATTTCTTTTCTTTGTTTTCTCTTGCT
Found at i:14602232 original size:16 final size:16
Alignment explanation
Indices: 14602157--14602217 Score: 63
Period size: 16 Copynumber: 3.8 Consensus size: 16
14602147 GCCTCTTGCC
*
14602157 TCTCTTTTCTTTTTAT
1 TCTCTTTTCTTTTTCT
14602173 T-TCATTTTCTTTTTCT
1 TCTC-TTTTCTTTTTCT
*
14602189 TCTC-TTGCTTTTTCTT
1 TCTCTTTTCTTTTTC-T
*
14602205 TTTCTTTTCTTTT
1 TCTCTTTTCTTTT
14602218 CTTTGTTTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
15 11 0.30
16 17 0.46
17 9 0.24
ACGTcount: A:0.03, C:0.20, G:0.02, T:0.75
Consensus pattern (16 bp):
TCTCTTTTCTTTTTCT
Found at i:14603872 original size:30 final size:30
Alignment explanation
Indices: 14603838--14603934 Score: 88
Period size: 30 Copynumber: 3.2 Consensus size: 30
14603828 TAAACTAAAA
* *
14603838 TGAGCTAAGTTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCATGAGCTAAAGT
* * * * * * * *
14603868 TGAGCTGAGGCTAAACTCCTAAGTTGAAGT
1 TGAGCTAAGGTTTAGCTCATGAGCTAAAGT
14603898 TGAGCTAAGGTTTAGCTCATGAGCTAAA-T
1 TGAGCTAAGGTTTAGCTCATGAGCTAAAGT
14603927 ATGAGCTA
1 -TGAGCTA
14603935 GGAGTGAGCT
Statistics
Matches: 49, Mismatches: 17, Indels: 2
0.72 0.25 0.03
Matches are distributed among these distances:
29 1 0.02
30 48 0.98
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCATGAGCTAAAGT
Found at i:14609479 original size:17 final size:19
Alignment explanation
Indices: 14609437--14609480 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
14609427 ATCAAATTTT
*
14609437 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
14609456 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
14609474 AA-TATTA
1 AATTATTA
14609481 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:14610534 original size:5 final size:5
Alignment explanation
Indices: 14610520--14610556 Score: 65
Period size: 5 Copynumber: 7.2 Consensus size: 5
14610510 GGATTCAGTT
14610520 TTTTC TTTTTC TTTTC TTTTC TTTTC TTTTC TTTTC T
1 TTTTC -TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC T
14610557 CATCATCTAC
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 26 0.84
6 5 0.16
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTC
Found at i:14612213 original size:33 final size:32
Alignment explanation
Indices: 14612176--14612239 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 32
14612166 CTATGGGCCA
14612176 TACTGT-TATCTGAAAATGGGCTAAGGCCCAGTT
1 TACTGTAT-TCTGAAAA-GGGCTAAGGCCCAGTT
**
14612209 TACTGTATTCTGAAAAGGGCTTCGGCCCAGT
1 TACTGTATTCTGAAAAGGGCTAAGGCCCAGT
14612240 ACCCGCTGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 13 0.46
33 14 0.50
34 1 0.04
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (32 bp):
TACTGTATTCTGAAAAGGGCTAAGGCCCAGTT
Found at i:14612236 original size:32 final size:33
Alignment explanation
Indices: 14612176--14612239 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 33
14612166 CTATGGGCCA
14612176 TACTGTTATCTGAAAATGGGCTAAGGCCCAGTT
1 TACTGTTATCTGAAAATGGGCTAAGGCCCAGTT
**
14612209 TACTG-TATTCTGAAAA-GGGCTTCGGCCCAGT
1 TACTGTTA-TCTGAAAATGGGCTAAGGCCCAGT
14612240 ACCCGCTGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 15 0.54
33 13 0.46
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (33 bp):
TACTGTTATCTGAAAATGGGCTAAGGCCCAGTT
Found at i:14621037 original size:46 final size:47
Alignment explanation
Indices: 14620931--14621052 Score: 147
Period size: 46 Copynumber: 2.6 Consensus size: 47
14620921 NNNNNNNNAC
** * *
14620931 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC--A-ATATATCTAAT
* *
14620981 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
*
14621027 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
14621053 CTGTCCTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
46 34 0.53
50 30 0.47
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
Found at i:14622287 original size:21 final size:21
Alignment explanation
Indices: 14622255--14622298 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
14622245 TTTCGGGATG
*
14622255 TTACATTCCTAATA-TTGTTT
1 TTACATTCCTAATACTCGTTT
*
14622275 TTACTTTCACTAATACTCGTTT
1 TTACATTC-CTAATACTCGTTT
14622297 TT
1 TT
14622299 GTAACATCCC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 6 0.30
22 7 0.35
ACGTcount: A:0.23, C:0.18, G:0.05, T:0.55
Consensus pattern (21 bp):
TTACATTCCTAATACTCGTTT
Found at i:14623864 original size:42 final size:42
Alignment explanation
Indices: 14623705--14623864 Score: 133
Period size: 42 Copynumber: 3.8 Consensus size: 42
14623695 TATGTGTTAT
* * * * *
14623705 CGTGTAAGACCACGTTTAGGACGTTGACATCGACTTATGATTTA
1 CGTGTAAGACCATGTCTGGGACGTTGACATTGAATT-TGA-TTA
* * * * * * *
14623749 CGTGTAAGGCTATGTCTGGGACGTTGGCGTTGTACTTGATTT
1 CGTGTAAGACCATGTCTGGGACGTTGACATTGAATTTGATTA
* * *
14623791 TGTGTAAGACCCTGTCTGGGACAG-TGGCATTGAATTTGATTA
1 CGTGTAAGACCATGTCTGGGAC-GTTGACATTGAATTTGATTA
* *
14623833 CATGTAAGACCATGTCTGGGACGTTTACATTG
1 CGTGTAAGACCATGTCTGGGACGTTGACATTG
14623865 TACAAGCTTT
Statistics
Matches: 89, Mismatches: 25, Indels: 6
0.74 0.21 0.05
Matches are distributed among these distances:
41 1 0.01
42 59 0.66
43 4 0.04
44 25 0.28
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.34
Consensus pattern (42 bp):
CGTGTAAGACCATGTCTGGGACGTTGACATTGAATTTGATTA
Found at i:14631711 original size:20 final size:19
Alignment explanation
Indices: 14631641--14631724 Score: 70
Period size: 20 Copynumber: 4.4 Consensus size: 19
14631631 ATAGATAAGA
14631641 AATAGATAAATAATATAA-A-
1 AATA-ATAAAT-ATATAATAG
*
14631660 AATAATACTAATATATATTAG
1 AATAATA--AATATATAATAG
14631681 AAT-AT--ATATATAATAG
1 AATAATAAATATATAATAG
14631697 AATAGATAAATATATAATAG
1 AATA-ATAAATATATAATAG
14631717 AATTAATA
1 AA-TAATA
14631725 TTCTAACATC
Statistics
Matches: 54, Mismatches: 2, Indels: 17
0.74 0.03 0.23
Matches are distributed among these distances:
16 13 0.24
18 5 0.09
19 9 0.17
20 22 0.41
21 5 0.09
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.33
Consensus pattern (19 bp):
AATAATAAATATATAATAG
Found at i:14639893 original size:60 final size:60
Alignment explanation
Indices: 14639754--14639873 Score: 152
Period size: 60 Copynumber: 2.0 Consensus size: 60
14639744 CTATTCAGAA
* * * *
14639754 ATCAGAGT-TAACTGGGTCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGT
1 ATCAGAGTAT-ACTGGG-CCTAGCCCATATCAATATCAATCTGGGCCATAACCCATTACAGT
* *
14639815 ATCAGAGTATACTGGGCCTAGCCCATATCAGTGTCAATCTGGGCCATAACCCTATTACA
1 ATCAGAGTATACTGGGCCTAGCCCATATCAATATCAATCTGGGCCATAACCC-ATTACA
14639874 AGTTGAGATA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
60 31 0.61
61 19 0.37
62 1 0.02
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (60 bp):
ATCAGAGTATACTGGGCCTAGCCCATATCAATATCAATCTGGGCCATAACCCATTACAGT
Found at i:14639899 original size:60 final size:60
Alignment explanation
Indices: 14639754--14639902 Score: 151
Period size: 60 Copynumber: 2.5 Consensus size: 60
14639744 CTATTCAGAA
* * * *
14639754 ATCAGAGT-TAACTGGGTCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGT
1 ATCAGAGTAT-ACTGGGCCTT-GCCCATATCAATATCAATCTGGGCCATAACCCATTACAGT
* * *
14639815 ATCAGAGTATACTGGGCCTAGCCCATATCAGTGTCAATCTGGGCCATAACCCTATTACAAGT
1 ATCAGAGTATACTGGGCCTTGCCCATATCAATATCAATCTGGGCCATAACCC-ATTAC-AGT
* **
14639877 -TGAGA-TATGTTGGGCCTTGCCCATAT
1 ATCAGAGTATACTGGGCCTTGCCCATAT
14639903 TAACACAGTT
Statistics
Matches: 74, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
60 46 0.62
61 24 0.32
62 4 0.05
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (60 bp):
ATCAGAGTATACTGGGCCTTGCCCATATCAATATCAATCTGGGCCATAACCCATTACAGT
Found at i:14639920 original size:20 final size:20
Alignment explanation
Indices: 14639895--14639940 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
14639885 GTTGGGCCTT
14639895 GCCCATATT-AACACAGTTGG
1 GCCCATATTCAACACAGTT-G
*
14639915 GCCCAT-TTCAATACAGTTG
1 GCCCATATTCAACACAGTTG
14639934 GCCCATA
1 GCCCATA
14639941 ACAAAACAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (20 bp):
GCCCATATTCAACACAGTTG
Found at i:14639949 original size:19 final size:20
Alignment explanation
Indices: 14639907--14639950 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
14639897 CCATATTAAC
** *
14639907 ACAGTTGGGCCCATTTCAAT
1 ACAGTTGGGCCCATAACAAA
14639927 ACAGTT-GGCCCATAACAAA
1 ACAGTTGGGCCCATAACAAA
14639946 ACAGT
1 ACAGT
14639951 CTCATATGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (20 bp):
ACAGTTGGGCCCATAACAAA
Found at i:14642271 original size:17 final size:19
Alignment explanation
Indices: 14642229--14642272 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
14642219 ATCAAATTTT
*
14642229 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
14642248 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
14642266 AA-TATTA
1 AATTATTA
14642273 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:14643326 original size:5 final size:5
Alignment explanation
Indices: 14643312--14643348 Score: 65
Period size: 5 Copynumber: 7.2 Consensus size: 5
14643302 GGATTCAGTT
14643312 TTTTC TTTTTC TTTTC TTTTC TTTTC TTTTC TTTTC T
1 TTTTC -TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC T
14643349 CATCATCTAC
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 26 0.84
6 5 0.16
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTC
Found at i:14644627 original size:27 final size:26
Alignment explanation
Indices: 14644597--14644653 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
14644587 AATACCTTTA
* *
14644597 TAGGTGAAAAATTTACAGATTTACCCC
1 TAGGAGAAAAA-TTACAGATATACCCC
* *
14644624 TAGGAGTAAAATTACTGATATACCCC
1 TAGGAGAAAAATTACAGATATACCCC
14644650 TAGG
1 TAGG
14644654 GTTAAGGTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 17 0.65
27 9 0.35
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.28
Consensus pattern (26 bp):
TAGGAGAAAAATTACAGATATACCCC
Found at i:14645818 original size:16 final size:17
Alignment explanation
Indices: 14645786--14645818 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
14645776 CATCAAGAAG
14645786 GGTTTTCAATGAAAACAT
1 GGTTTTCAA-GAAAACAT
14645804 GGTTTTCAA-AAAACA
1 GGTTTTCAAGAAAACA
14645819 CTTCAATGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (17 bp):
GGTTTTCAAGAAAACAT
Found at i:14649922 original size:98 final size:98
Alignment explanation
Indices: 14649753--14649950 Score: 378
Period size: 98 Copynumber: 2.0 Consensus size: 98
14649743 AAATAAATTT
14649753 TTATACCTCGAATTTGTGGTTTCGCAACCGCTATTCCATTTAGGCCCTATTTCGGGATGTTACAT
1 TTATACCTCGAATTTGTGGTTTCGCAACCGCTATTCCATTTAGGCCCTATTTCGGGATGTTACAT
14649818 TCCTAATATTGTTTTTACTTTCACTAATACTCG
66 TCCTAATATTGTTTTTACTTTCACTAATACTCG
* *
14649851 TTATACCTCGAATTTGTGGTTTCGCAACCGCTGTTCCGTTTAGGCCCTATTTCGGGATGTTACAT
1 TTATACCTCGAATTTGTGGTTTCGCAACCGCTATTCCATTTAGGCCCTATTTCGGGATGTTACAT
14649916 TCCTAATATTGTTTTTACTTTCACTAATACTCG
66 TCCTAATATTGTTTTTACTTTCACTAATACTCG
14649949 TT
1 TT
14649951 TTTGTAACAT
Statistics
Matches: 98, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
98 98 1.00
ACGTcount: A:0.20, C:0.22, G:0.15, T:0.42
Consensus pattern (98 bp):
TTATACCTCGAATTTGTGGTTTCGCAACCGCTATTCCATTTAGGCCCTATTTCGGGATGTTACAT
TCCTAATATTGTTTTTACTTTCACTAATACTCG
Found at i:14649942 original size:21 final size:21
Alignment explanation
Indices: 14649910--14649953 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
14649900 TTTCGGGATG
*
14649910 TTACATTCCTAATA-TTGTTT
1 TTACATTCCTAATACTCGTTT
*
14649930 TTACTTTCACTAATACTCGTTT
1 TTACATTC-CTAATACTCGTTT
14649952 TT
1 TT
14649954 GTAACATCCC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 6 0.30
22 7 0.35
ACGTcount: A:0.23, C:0.18, G:0.05, T:0.55
Consensus pattern (21 bp):
TTACATTCCTAATACTCGTTT
Found at i:14650088 original size:67 final size:67
Alignment explanation
Indices: 14649980--14650108 Score: 258
Period size: 67 Copynumber: 1.9 Consensus size: 67
14649970 TGAAAAAAAA
14649980 TTTCAAAGTAAATAAAATGTGATTTATCAATGTTAGTAGAAGAGGTAGTTGGATTTCGAAGGTTT
1 TTTCAAAGTAAATAAAATGTGATTTATCAATGTTAGTAGAAGAGGTAGTTGGATTTCGAAGGTTT
14650045 TT
66 TT
14650047 TTTCAAAGTAAATAAAATGTGATTTATCAATGTTAGTAGAAGAGGTAGTTGGATTTCGAAGG
1 TTTCAAAGTAAATAAAATGTGATTTATCAATGTTAGTAGAAGAGGTAGTTGGATTTCGAAGG
14650109 GAGTTGAAAC
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 62 1.00
ACGTcount: A:0.36, C:0.05, G:0.23, T:0.36
Consensus pattern (67 bp):
TTTCAAAGTAAATAAAATGTGATTTATCAATGTTAGTAGAAGAGGTAGTTGGATTTCGAAGGTTT
TT
Found at i:14655252 original size:8 final size:8
Alignment explanation
Indices: 14655239--14655264 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
14655229 AATCCACTTG
14655239 TTTAGTTC
1 TTTAGTTC
14655247 TTTAGTTC
1 TTTAGTTC
14655255 TTTAGTTC
1 TTTAGTTC
14655263 TT
1 TT
14655265 AAGGAGCACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.12, G:0.12, T:0.65
Consensus pattern (8 bp):
TTTAGTTC
Found at i:14656865 original size:17 final size:17
Alignment explanation
Indices: 14656845--14656878 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
14656835 TTCGTATATT
*
14656845 ATACTAATTATATCTAA
1 ATACTAAGTATATCTAA
14656862 ATACTAAGTATATCTAA
1 ATACTAAGTATATCTAA
14656879 GCGAATCTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.47, C:0.12, G:0.03, T:0.38
Consensus pattern (17 bp):
ATACTAAGTATATCTAA
Found at i:14659748 original size:18 final size:18
Alignment explanation
Indices: 14659725--14659761 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
14659715 ATGAAGCTGG
* *
14659725 TTTATCTCATTTTTCCAC
1 TTTATCTAATTTATCCAC
14659743 TTTATCTAATTTATCCAC
1 TTTATCTAATTTATCCAC
14659761 T
1 T
14659762 GCGTCGAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.24, G:0.00, T:0.54
Consensus pattern (18 bp):
TTTATCTAATTTATCCAC
Found at i:14661536 original size:20 final size:19
Alignment explanation
Indices: 14661466--14661549 Score: 70
Period size: 20 Copynumber: 4.4 Consensus size: 19
14661456 ATAGATAAGA
14661466 AATAGATAAATAATATAA-A-
1 AATA-ATAAAT-ATATAATAG
*
14661485 AATAATACTAATATATATTAG
1 AATAATA--AATATATAATAG
14661506 AAT-AT--ATATATAATAG
1 AATAATAAATATATAATAG
14661522 AATAGATAAATATATAATAG
1 AATA-ATAAATATATAATAG
14661542 AATTAATA
1 AA-TAATA
14661550 TTCTAACATC
Statistics
Matches: 54, Mismatches: 2, Indels: 17
0.74 0.03 0.23
Matches are distributed among these distances:
16 13 0.24
18 5 0.09
19 9 0.17
20 22 0.41
21 5 0.09
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.33
Consensus pattern (19 bp):
AATAATAAATATATAATAG
Found at i:14668002 original size:47 final size:47
Alignment explanation
Indices: 14667930--14668049 Score: 222
Period size: 47 Copynumber: 2.6 Consensus size: 47
14667920 CATAAGTGAG
*
14667930 CTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCACAAA
1 CTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACAAA
*
14667977 CTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAA
1 CTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACAAA
14668024 CTCGGACTCAACTCAACGAGTTCGGA
1 CTCGGACTCAACTCAACGAGTTCGGA
14668050 CATTCGCATC
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (47 bp):
CTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACAAA
Found at i:14670880 original size:20 final size:20
Alignment explanation
Indices: 14670855--14670905 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
14670845 AGCACCAAAG
14670855 CAGTGGCATGAAAATTTTGA
1 CAGTGGCATGAAAATTTTGA
14670875 CAGTGGCATGAAAATTTTGA
1 CAGTGGCATGAAAATTTTGA
*
14670895 CAGTGTCATGA
1 CAGTGGCATGA
14670906 TACCAAACGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.29
Consensus pattern (20 bp):
CAGTGGCATGAAAATTTTGA
Found at i:14674645 original size:19 final size:17
Alignment explanation
Indices: 14674621--14674675 Score: 56
Period size: 19 Copynumber: 3.0 Consensus size: 17
14674611 TTCCAATTTA
14674621 ACCCAAAATATTTATTTTT
1 ACCCAAAA-A-TTATTTTT
*
14674640 ACCCAAAAATTATTTTA
1 ACCCAAAAATTATTTTT
*
14674657 AACCATAAAATTAATTTTT
1 ACCCA-AAAATT-ATTTTT
14674676 CTAAAAATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
17 11 0.35
18 7 0.23
19 13 0.42
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.42
Consensus pattern (17 bp):
ACCCAAAAATTATTTTT
Found at i:14676669 original size:26 final size:26
Alignment explanation
Indices: 14676617--14676679 Score: 83
Period size: 26 Copynumber: 2.4 Consensus size: 26
14676607 CCATTAAAAA
*
14676617 TATCGTATGTGAAAGTCCATCAAGAC
1 TATCTTATGTGAAAGTCCATCAAGAC
* *
14676643 TATCTTATGTGAAAGT-CTTCCAGGAC
1 TATCTTATGTGAAAGTCCAT-CAAGAC
14676669 TATCTTATGTG
1 TATCTTATGTG
14676680 GTAGATCATG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
25 2 0.06
26 31 0.94
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (26 bp):
TATCTTATGTGAAAGTCCATCAAGAC
Found at i:14679493 original size:8 final size:8
Alignment explanation
Indices: 14679480--14679515 Score: 63
Period size: 8 Copynumber: 4.5 Consensus size: 8
14679470 AAATGCCAGA
14679480 ATTTCGGC
1 ATTTCGGC
14679488 ATTTCGGC
1 ATTTCGGC
14679496 ATTTCGGC
1 ATTTCGGC
*
14679504 TTTTCGGC
1 ATTTCGGC
14679512 ATTT
1 ATTT
14679516 TATCCCTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.11, C:0.22, G:0.22, T:0.44
Consensus pattern (8 bp):
ATTTCGGC
Found at i:14686251 original size:68 final size:68
Alignment explanation
Indices: 14686142--14686276 Score: 261
Period size: 68 Copynumber: 2.0 Consensus size: 68
14686132 GTTATACCGA
*
14686142 GTTTAAATTTGTTTAAGTGAACGTCTTTGATAAATCAATTAATCGTGGCGTTGAGATATTTTAAA
1 GTTTAAATTTGTTTAAGTGAACGTCTTTGATAAATCAATTAATCGTGGCCTTGAGATATTTTAAA
14686207 AAC
66 AAC
14686210 GTTTAAATTTGTTTAAGTGAACGTCTTTGATAAATCAATTAATCGTGGCCTTGAGATATTTTAAA
1 GTTTAAATTTGTTTAAGTGAACGTCTTTGATAAATCAATTAATCGTGGCCTTGAGATATTTTAAA
14686275 AA
66 AA
14686277 AATTATCGTT
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 66 1.00
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (68 bp):
GTTTAAATTTGTTTAAGTGAACGTCTTTGATAAATCAATTAATCGTGGCCTTGAGATATTTTAAA
AAC
Found at i:14691892 original size:17 final size:17
Alignment explanation
Indices: 14691872--14691989 Score: 141
Period size: 17 Copynumber: 6.6 Consensus size: 17
14691862 CAATGATATG
14691872 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
*
14691889 CAATCTTAGATATGTTTGA
1 CAATCTTAGATATG-AT-A
14691908 -AATCTTAGATATGATA
1 CAATCTTAGATATGATA
14691924 TGCAATCTTAGATATGATA
1 --CAATCTTAGATATGATA
14691943 CAATCTTAGATATGATTGA
1 CAATCTTAGATATGA-T-A
14691962 -AATCTTAGATATGATA
1 CAATCTTAGATATGATA
14691978 TGCAATCTTAGA
1 --CAATCTTAGA
14691990 AGATATGATT
Statistics
Matches: 89, Mismatches: 2, Indels: 18
0.82 0.02 0.17
Matches are distributed among these distances:
16 2 0.02
17 31 0.35
18 29 0.33
19 27 0.30
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.37
Consensus pattern (17 bp):
CAATCTTAGATATGATA
Found at i:14691913 original size:35 final size:35
Alignment explanation
Indices: 14691868--14691989 Score: 142
Period size: 35 Copynumber: 3.4 Consensus size: 35
14691858 TCTTCAATGA
*
14691868 TATGCAATCTTAGATATGATACAATCTTAGATATG
1 TATGAAATCTTAGATATGATACAATCTTAGATATG
*
14691903 TTTGAAATCTTAGATATGATATGCAATCTTAGATATG
1 TATGAAATCTTAGATATGATA--CAATCTTAGATATG
14691940 -AT-ACAATCTTAGATATGATTGA-AATCTTAGATATG
1 TATGA-AATCTTAGATATGA-T-ACAATCTTAGATATG
*
14691975 ATATGCAATCTTAGA
1 -TATGAAATCTTAGA
14691990 AGATATGATT
Statistics
Matches: 75, Mismatches: 4, Indels: 14
0.81 0.04 0.15
Matches are distributed among these distances:
35 33 0.44
36 15 0.20
37 26 0.35
38 1 0.01
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.38
Consensus pattern (35 bp):
TATGAAATCTTAGATATGATACAATCTTAGATATG
Found at i:14691922 original size:54 final size:54
Alignment explanation
Indices: 14691864--14691989 Score: 243
Period size: 54 Copynumber: 2.3 Consensus size: 54
14691854 ATAATCTTCA
*
14691864 ATGATATGCAATCTTAGATATGATACAATCTTAGATATGTTTGAAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATACAATCTTAGATATGATTGAAATCTTAGAT
14691918 ATGATATGCAATCTTAGATATGATACAATCTTAGATATGATTGAAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATACAATCTTAGATATGATTGAAATCTTAGAT
14691972 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
14691990 AGATATGATT
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
54 71 1.00
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (54 bp):
ATGATATGCAATCTTAGATATGATACAATCTTAGATATGATTGAAATCTTAGAT
Found at i:14691996 original size:17 final size:19
Alignment explanation
Indices: 14691864--14691989 Score: 183
Period size: 19 Copynumber: 6.9 Consensus size: 19
14691854 ATAATCTTCA
14691864 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
14691883 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
* *
14691900 ATG-TTTGAAATCTTAGAT
1 ATGATATGCAATCTTAGAT
14691918 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
14691937 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
14691954 ATGAT-TGAAATCTTAGAT
1 ATGATATGCAATCTTAGAT
14691972 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
14691990 AGATATGATT
Statistics
Matches: 95, Mismatches: 6, Indels: 12
0.84 0.05 0.11
Matches are distributed among these distances:
16 1 0.01
17 30 0.32
18 28 0.29
19 36 0.38
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:14692011 original size:23 final size:22
Alignment explanation
Indices: 14691914--14691998 Score: 77
Period size: 19 Copynumber: 4.4 Consensus size: 22
14691904 TTGAAATCTT
14691914 AGATATGATATGCAATCTT---
1 AGATATGATATGCAATCTTAGA
14691933 AGATATGATA--CAATCTT---
1 AGATATGATATGCAATCTTAGA
*
14691950 AGATATGAT-TGAAATCTT---
1 AGATATGATATGCAATCTTAGA
14691968 AGATATGATATGCAATCTTAGA
1 AGATATGATATGCAATCTTAGA
14691990 AGATATGAT
1 AGATATGAT
14691999 TTTGTAATCT
Statistics
Matches: 58, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
17 16 0.28
18 15 0.26
19 18 0.31
22 9 0.16
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.35
Consensus pattern (22 bp):
AGATATGATATGCAATCTTAGA
Found at i:14704225 original size:78 final size:78
Alignment explanation
Indices: 14704124--14704546 Score: 740
Period size: 78 Copynumber: 5.4 Consensus size: 78
14704114 TCGACAGAGG
* *
14704124 GCAGATCAAAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTG
1 GCAGATCGAAGACACAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTG
14704189 TATTAGACGGGGA
66 TATTAGACGGGGA
*
14704202 GCAGATCGAAGACACAGTAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTG
1 GCAGATCGAAGACACAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTG
14704267 TATTAGACGGGGA
66 TATTAGACGGGGA
*
14704280 GCAGATCGAAGACACAGTAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTG
1 GCAGATCGAAGACACAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTG
14704345 TATTAGACGGGGA
66 TATTAGACGGGGA
*
14704358 GCAGATCGAAGACACAGTAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTG
1 GCAGATCGAAGACACAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTG
14704423 TATTAGACGGGGA
66 TATTAGACGGGGA
* * *
14704436 GCAGATCAAAGACATAACAGAT-TGGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCT
1 GCAGATCGAAGACACAGCAGATCT-GACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCT
*
14704500 ATATTAGACGGGGA
65 GTATTAGACGGGGA
*
14704514 GCAGATCGAAGACATAGCAGATCTGACCTTCAT
1 GCAGATCGAAGACACAGCAGATCTGACCTTCAT
14704547 GTGTTTACAT
Statistics
Matches: 333, Mismatches: 10, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
77 1 0.00
78 331 0.99
79 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (78 bp):
GCAGATCGAAGACACAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTG
TATTAGACGGGGA
Found at i:14704729 original size:44 final size:45
Alignment explanation
Indices: 14704486--14704804 Score: 331
Period size: 45 Copynumber: 7.1 Consensus size: 45
14704476 GATCCAAGAT
* *
14704486 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAG--ATAACA
* * * * * * * *
14704533 GATCTGACCT-TCATGTGTTTACATC--GAAGCAGATCCAAGATGACA
1 GATTTGGCATCTC-TGT-ATTAGA-CGGGGAGCAGATCGAAGATAACA
* * * *
14704578 GATTTGGCATATCTGTATTAGACGGGGAGAAAATCGGAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
* *
14704623 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGGAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
* * * * *
14704668 GATTTGGCATCTTTGTATTAGACGGGAAGCAGATTGAAG-CAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
* *
14704712 GATTTGGCGTCTATGTATTAGACGGGGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
* * *
14704757 GATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
14704802 GAT
1 GAT
14704805 ATCGGCTTCC
Statistics
Matches: 226, Mismatches: 39, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
43 1 0.00
44 42 0.19
45 153 0.68
46 4 0.02
47 21 0.09
48 4 0.02
49 1 0.00
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.25
Consensus pattern (45 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
Found at i:14704740 original size:89 final size:90
Alignment explanation
Indices: 14704486--14704796 Score: 324
Period size: 89 Copynumber: 3.4 Consensus size: 90
14704476 GATCCAAGAT
* * * *
14704486 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCT-TCATGTG
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACA-A-CAGATTTGGCATCT-ATGT-
* * * * * *
14704550 TTTACATC--GAAGCAGATCCAAGATGACA
62 ATTAGA-CGGGGAGCAAATCGAAGATAACA
* * * * * *
14704578 GATTTGGCATATCTGTATTAGACGGGGAGAAAATCGGAGATAACAGATTTGGCATCTCTGTATTA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACAACAGATTTGGCATCTATGTATTA
*
14704643 GACGGGGAGCAAATCGGAGATAACA
66 GACGGGGAGCAAATCGAAGATAACA
* * * * *
14704668 GATTTGGCATCTTTGTATTAGACGGGAAGCAGATTGAAG-CAGCAGATTTGGCGTCTATGTATTA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACAACAGATTTGGCATCTATGTATTA
*
14704732 GACGGGGAGCAGATCGAAGATAACA
66 GACGGGGAGCAAATCGAAGATAACA
* *
14704757 GATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGA
14704797 TAGCAGATAT
Statistics
Matches: 180, Mismatches: 35, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
88 1 0.01
89 82 0.46
90 59 0.33
91 2 0.01
92 36 0.20
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.25
Consensus pattern (90 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACAACAGATTTGGCATCTATGTATTA
GACGGGGAGCAAATCGAAGATAACA
Found at i:14705031 original size:21 final size:20
Alignment explanation
Indices: 14704997--14705036 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
14704987 TGGGCCCAGA
*
14704997 AATAAGCCCAAAAACAAAAAT
1 AATAAACCCAAAAA-AAAAAT
14705018 AATAAACCCCAAAAAAAAA
1 AATAAA-CCCAAAAAAAAA
14705037 GAAGTCCAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.70, C:0.20, G:0.03, T:0.07
Consensus pattern (20 bp):
AATAAACCCAAAAAAAAAAT
Found at i:14705251 original size:17 final size:19
Alignment explanation
Indices: 14705154--14705244 Score: 143
Period size: 19 Copynumber: 4.9 Consensus size: 19
14705144 ATAATCTTCA
14705154 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
14705173 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
14705192 ACGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
14705209 ATGAT-TGCAATCTTAGTT
1 ATGATATGCAATCTTAGAT
14705227 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
14705245 AGATATGATT
Statistics
Matches: 65, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
17 15 0.23
18 15 0.23
19 35 0.54
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:14705569 original size:16 final size:18
Alignment explanation
Indices: 14705537--14705569 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
14705527 TTCCCTAATT
14705537 TTTTTATATATATTTTAA
1 TTTTTATATATATTTTAA
14705555 TTTTTA-ATA-ATTTTA
1 TTTTTATATATATTTTA
14705570 GTATCATATC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 3 0.20
18 6 0.40
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTTATATATATTTTAA
Found at i:14707390 original size:32 final size:32
Alignment explanation
Indices: 14707349--14707414 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 32
14707339 GGAAATGGTT
14707349 TAAATGATTTGGTATATGGAAACTGTCATATG
1 TAAATGATTTGGTATATGGAAACTGTCATATG
* * *
14707381 TAAATGATTTGGTGTATTGAAATTGTCATATG
1 TAAATGATTTGGTATATGGAAACTGTCATATG
14707413 TA
1 TA
14707415 TTAAACTTGG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.33, C:0.05, G:0.21, T:0.41
Consensus pattern (32 bp):
TAAATGATTTGGTATATGGAAACTGTCATATG
Found at i:14710911 original size:16 final size:16
Alignment explanation
Indices: 14710890--14710920 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
14710880 CCTAAGGATG
14710890 AAATAAAAATAAAATT
1 AAATAAAAATAAAATT
14710906 AAATAAAAATAAAAT
1 AAATAAAAATAAAAT
14710921 AAAAAGTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (16 bp):
AAATAAAAATAAAATT
Found at i:14712622 original size:9 final size:10
Alignment explanation
Indices: 14712596--14712633 Score: 53
Period size: 9 Copynumber: 3.9 Consensus size: 10
14712586 GTGGTGCGCA
14712596 AGGGTGAGAAG
1 AGGG-GAGAAG
14712607 AGGGGAGAAG
1 AGGGGAGAAG
14712617 -GGGGAG-AG
1 AGGGGAGAAG
14712625 AGGGGAGAA
1 AGGGGAGAA
14712634 AAATGGAAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
8 2 0.08
9 12 0.48
10 7 0.28
11 4 0.16
ACGTcount: A:0.37, C:0.00, G:0.61, T:0.03
Consensus pattern (10 bp):
AGGGGAGAAG
Found at i:14712628 original size:18 final size:19
Alignment explanation
Indices: 14712595--14712633 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
14712585 TGTGGTGCGC
*
14712595 AAGGGTGAGAAGAGGGGAG
1 AAGGGGGAGAAGAGGGGAG
14712614 AAGGGGGAG-AGAGGGGAG
1 AAGGGGGAGAAGAGGGGAG
14712632 AA
1 AA
14712634 AAATGGAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.38, C:0.00, G:0.59, T:0.03
Consensus pattern (19 bp):
AAGGGGGAGAAGAGGGGAG
Found at i:14720302 original size:36 final size:36
Alignment explanation
Indices: 14720248--14720316 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
14720238 AGCATGCTAG
*
14720248 TCAGAATAGACTCGAAAGGCTGCTGAACTAAATCAA
1 TCAGAATAGACTCAAAAGGCTGCTGAACTAAATCAA
*
14720284 TCAGAATAGA-TCCAAAAGGTTGCTGAACTAAAT
1 TCAGAATAGACT-CAAAAGGCTGCTGAACTAAAT
14720317 AAAGTTTACT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
35 1 0.03
36 29 0.97
ACGTcount: A:0.42, C:0.17, G:0.19, T:0.22
Consensus pattern (36 bp):
TCAGAATAGACTCAAAAGGCTGCTGAACTAAATCAA
Found at i:14731350 original size:14 final size:15
Alignment explanation
Indices: 14731327--14731366 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
14731317 ATATATTTGT
14731327 ATTAACATTAATA-A
1 ATTAACATTAATATA
*
14731341 ATTAATATTAATATA
1 ATTAACATTAATATA
14731356 ATTAAACATTA
1 ATT-AACATTA
14731367 CTTAATGATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 12 0.55
15 4 0.18
16 6 0.27
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (15 bp):
ATTAACATTAATATA
Found at i:14733402 original size:43 final size:42
Alignment explanation
Indices: 14733355--14733487 Score: 110
Period size: 42 Copynumber: 3.1 Consensus size: 42
14733345 CCTCGAGTGA
*
14733355 GATTTACATATAAGACCATGTCTGGGACATCAGCATTGTATCT
1 GATTTACATGTAAGACCATGTCTGGGACATCAGCATTGTAT-T
* * * * *
14733398 GATTT-CGTGTAAGACCCTGTTTGGGACA-GAGGCATCGATATT
1 GATTTACATGTAAGACCATGTCTGGGACATCA-GCATTG-TATT
* * * * *
14733440 GAATTACATGTAAGACCACGTCTGAGACGTCCGCATTGTACTT
1 GATTTACATGTAAGACCATGTCTGGGACATCAGCATTGTA-TT
14733483 G-TTTA
1 GATTTA
14733488 TGAGCATCTA
Statistics
Matches: 68, Mismatches: 17, Indels: 11
0.71 0.18 0.11
Matches are distributed among these distances:
41 1 0.01
42 34 0.50
43 33 0.49
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.32
Consensus pattern (42 bp):
GATTTACATGTAAGACCATGTCTGGGACATCAGCATTGTATT
Found at i:14733463 original size:85 final size:85
Alignment explanation
Indices: 14733317--14733479 Score: 204
Period size: 85 Copynumber: 1.9 Consensus size: 85
14733307 GTCTGAGACA
* * * * *
14733317 TCGTGTAAGACCGTGTCTGGGACACAGGCCTCGAGTGAGATTTACATATAAGACCATGTCTGGGA
1 TCGTGTAAGACCCTGTCTGGGACACAGGCATCGAGTGAGAATTACATATAAGACCACGTCTGAGA
14733382 CATCAGCATTGTATCTGATT
66 CATCAGCATTGTATCTGATT
* * *
14733402 TCGTGTAAGACCCTGTTTGGGACAGAGGCATCGA-T-ATTGAATTACATGTAAGACCACGTCTGA
1 TCGTGTAAGACCCTGTCTGGGACACAGGCATCGAGTGA--GAATTACATATAAGACCACGTCTGA
* *
14733465 GACGTCCGCATTGTA
64 GACATCAGCATTGTA
14733480 CTTGTTTATG
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
83 1 0.02
84 1 0.02
85 64 0.97
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (85 bp):
TCGTGTAAGACCCTGTCTGGGACACAGGCATCGAGTGAGAATTACATATAAGACCACGTCTGAGA
CATCAGCATTGTATCTGATT
Found at i:14737914 original size:6 final size:6
Alignment explanation
Indices: 14737903--14737927 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
14737893 ACTCAGTGTA
14737903 ATTCTG ATTCTG ATTCTG ATTCTG A
1 ATTCTG ATTCTG ATTCTG ATTCTG A
14737928 ATTTCAAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.16, G:0.16, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:14743347 original size:17 final size:17
Alignment explanation
Indices: 14743305--14743355 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
14743295 GCTCCTTCCA
*
14743305 TTTTCTCTTTTTCTTC-
1 TTTTCTCTTATTCTTCT
**
14743321 TCATCTTCTTATTCTTCT
1 TTTTC-TCTTATTCTTCT
*
14743339 TTTTCTCTTGTTCTTCT
1 TTTTCTCTTATTCTTCT
14743356 ACTTCCCAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
16 3 0.11
17 21 0.78
18 3 0.11
ACGTcount: A:0.04, C:0.25, G:0.02, T:0.69
Consensus pattern (17 bp):
TTTTCTCTTATTCTTCT
Found at i:14743684 original size:29 final size:29
Alignment explanation
Indices: 14743639--14743696 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
14743629 TCCTTCACTC
* **
14743639 TATCTCCTTCCAGCAACTTACTACATACA
1 TATCTCCTTCCAACAACGCACTACATACA
14743668 TATCTCCTTCCAACAACGCACTACATACA
1 TATCTCCTTCCAACAACGCACTACATACA
14743697 ATAGGTAGCT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.33, C:0.36, G:0.03, T:0.28
Consensus pattern (29 bp):
TATCTCCTTCCAACAACGCACTACATACA
Found at i:14746715 original size:5 final size:5
Alignment explanation
Indices: 14746707--14746733 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
14746697 AAAAATAAAA
14746707 TTCAG TTCAG TTCAG TTCAG TTCAG TT
1 TTCAG TTCAG TTCAG TTCAG TTCAG TT
14746734 TTGGATATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.44
Consensus pattern (5 bp):
TTCAG
Found at i:14755473 original size:343 final size:345
Alignment explanation
Indices: 14754844--14755528 Score: 941
Period size: 343 Copynumber: 2.0 Consensus size: 345
14754834 TTCGTCAATA
* * * * *
14754844 AAGGGTTAAACAAGTGGTTTCAATAGATTCGTCAAGAAAAAAAGCATACGATGCAAACTCTTCAA
1 AAGGGTTAAACAAGTGGTTTCAACAAATTCATCAAGAAAAAAAGCATACAATACAAACTCTTCAA
* *
14754909 TCTCAACTTGATCAGTTAAGCATTTTGTACCCAACAGATGACGTGTTGATGGAGCTAGTGGATGT
66 TCTCAACTTGATCACTTAAGCACTTTGTACCCAACAGATGACGTGTTGATGGAGCTAGTGGATGT
14754974 AAAGTTAGCTATGAATCTTAAGGCGAACAAAGAGGAGTTGTATTAGGAGCAACGTGCGAGAGCAA
131 AAAGTTAGCTATGAATCTTAAGGCGAACAAAGAGGAGTTGTATTAGGAGCAACGTGCGAGAGCAA
14755039 ACTGGTTGAAATTCAGGGATAGGAACACATCTTTTTTATCAATTTGCAACATAGAGAAAGCGATT
196 ACTGGTTGAAATTCAGGGATAGGAACACATCTTTTTTATCAATTTGCAACATAGAGAAAGCGATT
* * * * * *
14755104 GAATGGTATTAAATGTTCATAGGATAATG-AGGGAAAGGTTGTCGAATGAGAGAATGAGGT-GAG
261 GAATAGTAATAAATGTTCACAGGATAAAGCA-GGAAAGGTTGTCGAAGGAAAGAATGAGGTAGAG
*
14755167 AGAGACTTAATTTT-ATTAGTG
325 AAAGACTT-ATTTTCATTAGTG
* * * * * *
14755188 AAGGGTTAAACAGGTGGTTTCAACAAATTCATCGAGAAAAAAGGCTTATAATACAAACTCTTCGA
1 AAGGGTTAAACAAGTGGTTTCAACAAATTCATCAAGAAAAAAAGCATACAATACAAACTCTTCAA
* * *
14755253 TCTCAACTTGATCACTTAAGCCCTTTGTACCCAACGGATGATGTGTTGATGGAGCTAGTGGATGT
66 TCTCAACTTGATCACTTAAGCACTTTGTACCCAACAGATGACGTGTTGATGGAGCTAGTGGATGT
* * * **** * * *
14755318 GAAG-TAGCTATGAATCTTGAGGCGAACAAAGAGGAGTTGTATTGGGAGTTGTGTGTGAGAGTAG
131 AAAGTTAGCTATGAATCTTAAGGCGAACAAAGAGGAGTTGTATTAGGAGCAACGTGCGAGAGCAA
* * *
14755382 ACTGGTTGAAATTCGGGGA-AGGAACATATCTTTTTTTATCGATTTGCAACATAGAGAAAGC-AT
196 ACTGGTTGAAATTCAGGGATAGGAACACATC-TTTTTTATCAATTTGCAACATAGAGAAAGCGA-
* * *
14755445 TTGAATAGTAATAAATGTTTACAGGATAAAGCAGGAAGGGTTGTCGAAGGAAAGAATGAGGTAGG
259 TTGAATAGTAATAAATGTTCACAGGATAAAGCAGGAAAGGTTGTCGAAGGAAAGAATGAGGTAGA
14755510 GAAAGACTTATTTTCATTA
324 GAAAGACTTATTTTCATTA
14755529 TAATGGCATA
Statistics
Matches: 297, Mismatches: 39, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
342 11 0.04
343 155 0.52
344 131 0.44
ACGTcount: A:0.35, C:0.12, G:0.26, T:0.28
Consensus pattern (345 bp):
AAGGGTTAAACAAGTGGTTTCAACAAATTCATCAAGAAAAAAAGCATACAATACAAACTCTTCAA
TCTCAACTTGATCACTTAAGCACTTTGTACCCAACAGATGACGTGTTGATGGAGCTAGTGGATGT
AAAGTTAGCTATGAATCTTAAGGCGAACAAAGAGGAGTTGTATTAGGAGCAACGTGCGAGAGCAA
ACTGGTTGAAATTCAGGGATAGGAACACATCTTTTTTATCAATTTGCAACATAGAGAAAGCGATT
GAATAGTAATAAATGTTCACAGGATAAAGCAGGAAAGGTTGTCGAAGGAAAGAATGAGGTAGAGA
AAGACTTATTTTCATTAGTG
Found at i:14757266 original size:14 final size:14
Alignment explanation
Indices: 14757247--14757273 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14757237 AAATCGGTGA
14757247 AAAAATTAATGTTC
1 AAAAATTAATGTTC
14757261 AAAAATTAATGTT
1 AAAAATTAATGTT
14757274 ATTAAACATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.04, G:0.07, T:0.37
Consensus pattern (14 bp):
AAAAATTAATGTTC
Found at i:14757575 original size:19 final size:19
Alignment explanation
Indices: 14757551--14757592 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
14757541 TTTATACAGG
14757551 TTTTCCTTCTT-TTTTTCC
1 TTTTCCTTCTTCTTTTTCC
*
14757569 ATTTTCCTTTTTCTTTTTCC
1 -TTTTCCTTCTTCTTTTTCC
14757589 TTTT
1 TTTT
14757593 TTCGTTGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTCCTTCTTCTTTTTCC
Found at i:14758777 original size:20 final size:20
Alignment explanation
Indices: 14758736--14758778 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
14758726 TTTGCAGAGT
**
14758736 AAAGAAGAAAAGGAAATTGA
1 AAAGAAGAAAAGGAAACCGA
14758756 AAAGAAGAAAA-GAAAGCCGA
1 AAAGAAGAAAAGGAAA-CCGA
14758776 AAA
1 AAA
14758779 AAAATGGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.67, C:0.05, G:0.23, T:0.05
Consensus pattern (20 bp):
AAAGAAGAAAAGGAAACCGA
Found at i:14760559 original size:45 final size:45
Alignment explanation
Indices: 14760495--14760598 Score: 111
Period size: 45 Copynumber: 2.3 Consensus size: 45
14760485 GATGTCGTTG
* * * *
14760495 TATCTTCCAACCACGGTCTTATACATTTTCGAAGTGA-TGCCATAC
1 TATCTTTCAACTATGGTCTTATACATTGTCGAAGT-ATTGCCATAC
* * * * *
14760540 TATCTTTTAACTATGGTCTTATTCATTGTCGATGTATTGCTATAG
1 TATCTTTCAACTATGGTCTTATACATTGTCGAAGTATTGCCATAC
14760585 TATCTTTCAACTAT
1 TATCTTTCAACTAT
14760599 AATCTTATTC
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
44 1 0.02
45 47 0.98
ACGTcount: A:0.25, C:0.20, G:0.12, T:0.42
Consensus pattern (45 bp):
TATCTTTCAACTATGGTCTTATACATTGTCGAAGTATTGCCATAC
Found at i:14760605 original size:45 final size:46
Alignment explanation
Indices: 14760531--14760656 Score: 139
Period size: 45 Copynumber: 2.8 Consensus size: 46
14760521 TTTCGAAGTG
* * * *
14760531 ATGCCATACTATCTTTTAACTATGGTCTTATTCATTGTC-GATGTA
1 ATGCCATAGTATCTTTCAACTATGATCTTATTCATTATCAGATGTA
* * * ** *
14760576 TTGCTATAGTATCTTTCAACTATAATCTTATTC-GCATCAGATTTA
1 ATGCCATAGTATCTTTCAACTATGATCTTATTCATTATCAGATGTA
*
14760621 ATGCCATAGTATCTTTCAACTATGCTCTTATTCATT
1 ATGCCATAGTATCTTTCAACTATGATCTTATTCATT
14760657 CCGGTTTAAT
Statistics
Matches: 63, Mismatches: 16, Indels: 3
0.77 0.20 0.04
Matches are distributed among these distances:
44 2 0.03
45 61 0.97
ACGTcount: A:0.26, C:0.19, G:0.10, T:0.44
Consensus pattern (46 bp):
ATGCCATAGTATCTTTCAACTATGATCTTATTCATTATCAGATGTA
Found at i:14775181 original size:27 final size:27
Alignment explanation
Indices: 14775151--14775300 Score: 158
Period size: 27 Copynumber: 5.6 Consensus size: 27
14775141 ATATTGAGTC
* * *
14775151 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAAAT
*
14775178 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
** ** *
14775205 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAAAT
* **
14775232 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAAAT
* *
14775259 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
14775286 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
14775301 GTACAATTTA
Statistics
Matches: 103, Mismatches: 18, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
27 102 0.99
28 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAAAT
Found at i:14775286 original size:81 final size:81
Alignment explanation
Indices: 14775151--14775299 Score: 219
Period size: 81 Copynumber: 1.8 Consensus size: 81
14775141 ATATTGAGTC
* *
14775151 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAG
1 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCAACATAATCAAATCGCACACTTAG
14775216 TGCCGCATGGTCAATT
66 TGCCGCATGGTCAATT
* * ** *
14775232 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTA
1 CGCACACTCAGTGCTAT-ATAATCAACTCGCACACTTAGTGCAACATAATCAAATCGCACACTTA
14775296 GTGC
65 GTGC
14775300 TGTACAATTT
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
80 2 0.03
81 58 0.97
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCAACATAATCAAATCGCACACTTAG
TGCCGCATGGTCAATT
Found at i:14781667 original size:13 final size:13
Alignment explanation
Indices: 14781645--14781678 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
14781635 TTTCAAGATG
*
14781645 GAAATCGACAAGA
1 GAAATGGACAAGA
14781658 GAAATGGACAAGA
1 GAAATGGACAAGA
*
14781671 AAAATGGA
1 GAAATGGA
14781679 AAAATAAAGA
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:0.56, C:0.09, G:0.26, T:0.09
Consensus pattern (13 bp):
GAAATGGACAAGA
Found at i:14782810 original size:30 final size:31
Alignment explanation
Indices: 14782742--14782810 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
14782732 ATGTTAATGG
*
14782742 ATGATTGATTTGTCATTTTTCGATAACGTTA
1 ATGATTGATTTGTCATTTTTCGATAAAGTTA
* *
14782773 GTGATTGATTTGTTATTTTTC-A-AAAGTTGA
1 ATGATTGATTTGTCATTTTTCGATAAAGTT-A
14782803 ATGATTGA
1 ATGATTGA
14782811 ATTGAAATCA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 5 0.15
30 9 0.27
31 19 0.58
ACGTcount: A:0.28, C:0.06, G:0.19, T:0.48
Consensus pattern (31 bp):
ATGATTGATTTGTCATTTTTCGATAAAGTTA
Found at i:14782913 original size:28 final size:29
Alignment explanation
Indices: 14782877--14782972 Score: 117
Period size: 28 Copynumber: 3.4 Consensus size: 29
14782867 TAATTTACCT
14782877 TTTTTTATTCAACATTAAA-TTTTTTTTA
1 TTTTTTATTCAACATTAAAGTTTTTTTTA
* ** *
14782905 TTTTTTATTCAACAATAAAGTAACTTCTT-
1 TTTTTTATTCAACATTAAAGT-TTTTTTTA
*
14782934 TTTTTTATTCAACATTAAATTTTTTTTTA
1 TTTTTTATTCAACATTAAAGTTTTTTTTA
14782963 TTTTTT-TTCA
1 TTTTTTATTCA
14782973 CACTAACATT
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
28 26 0.46
29 26 0.46
30 4 0.07
ACGTcount: A:0.28, C:0.09, G:0.01, T:0.61
Consensus pattern (29 bp):
TTTTTTATTCAACATTAAAGTTTTTTTTA
Found at i:14787130 original size:13 final size:13
Alignment explanation
Indices: 14787114--14787138 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14787104 TTTATTTTTA
14787114 TTTTTAATTCATC
1 TTTTTAATTCATC
14787127 TTTTTAATTCAT
1 TTTTTAATTCAT
14787139 TACTCTTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTTTAATTCATC
Found at i:14787393 original size:13 final size:15
Alignment explanation
Indices: 14787364--14787396 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
14787354 GGTGAAGAAA
14787364 ATAAATATTTGATAT
1 ATAAATATTTGATAT
14787379 ATAAATA-TT-ATAT
1 ATAAATATTTGATAT
14787392 ATAAA
1 ATAAA
14787397 GAAAAATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.50
14 2 0.11
15 7 0.39
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (15 bp):
ATAAATATTTGATAT
Found at i:14787638 original size:24 final size:24
Alignment explanation
Indices: 14787611--14787737 Score: 64
Period size: 24 Copynumber: 5.2 Consensus size: 24
14787601 CTAATATATC
14787611 AAAAATATAAATTTAAAATAAAAA
1 AAAAATATAAATTTAAAATAAAAA
* * *
14787635 AAAACT-TAAATCT-ACATAAAATA
1 AAAAATATAAATTTAAAATAAAA-A
* * * *
14787658 AAAAATACAAATCT-GAATAAAAT
1 AAAAATATAAATTTAAAATAAAAA
* * *
14787681 AAAAAT-TAAATTCAATACTCAAATAT
1 AAAAATATAAATTTAA-AAT-AAA-AA
**
14787707 AAAAATATTAACATTTAACGTAAAAA
1 AAAAATA-TAA-ATTTAAAATAAAAA
14787733 AAAAA
1 AAAAA
14787738 ACTAAGTTCA
Statistics
Matches: 77, Mismatches: 17, Indels: 16
0.70 0.15 0.15
Matches are distributed among these distances:
22 11 0.14
23 18 0.23
24 19 0.25
25 3 0.04
26 14 0.18
27 3 0.04
28 4 0.05
29 5 0.06
ACGTcount: A:0.65, C:0.08, G:0.02, T:0.25
Consensus pattern (24 bp):
AAAAATATAAATTTAAAATAAAAA
Found at i:14794061 original size:10 final size:10
Alignment explanation
Indices: 14794046--14794075 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
14794036 AAATAAAAAG
14794046 ACTAAAATGA
1 ACTAAAATGA
14794056 ACTAAAATGA
1 ACTAAAATGA
14794066 ACTAAAATGA
1 ACTAAAATGA
14794076 TATAATTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.60, C:0.10, G:0.10, T:0.20
Consensus pattern (10 bp):
ACTAAAATGA
Found at i:14794636 original size:17 final size:17
Alignment explanation
Indices: 14794614--14794646 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
14794604 CCTTTTTTAA
*
14794614 AGTTAAAAGTCAAAACC
1 AGTTAAAAGACAAAACC
14794631 AGTTAAAAGACAAAAC
1 AGTTAAAAGACAAAAC
14794647 TATGTTATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.15, G:0.12, T:0.15
Consensus pattern (17 bp):
AGTTAAAAGACAAAACC
Done.