Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 175 of 203
Found at i:55643360 original size:21 final size:21
Alignment explanation
Indices: 55643335--55643374 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
55643325 TTCTGCTCTG
55643335 CTCTG-CTGCCATCGCTGCTTC
1 CTCTGCCT-CCATCGCTGCTTC
*
55643356 CTCTGCCTCCCTCGCTGCT
1 CTCTGCCTCCATCGCTGCT
55643375 GTATCCGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.03, C:0.47, G:0.17, T:0.33
Consensus pattern (21 bp):
CTCTGCCTCCATCGCTGCTTC
Found at i:55648849 original size:9 final size:9
Alignment explanation
Indices: 55648835--55648995 Score: 93
Period size: 9 Copynumber: 18.3 Consensus size: 9
55648825 TATGTATTAC
*
55648835 GTAAGTTAA
1 GTAAGTTAT
*
55648844 GTAAGTTTT
1 GTAAGTTAT
55648853 GTAAGTTAT
1 GTAAGTTAT
55648862 GTAAGTTAT
1 GTAAGTTAT
* *
55648871 GTTA-TGAT
1 GTAAGTTAT
* *
55648879 ATACATTTAT
1 GTA-AGTTAT
* *
55648889 GTGAGGTAT
1 GTAAGTTAT
55648898 GTAAGTTAT
1 GTAAGTTAT
* *
55648907 GATATGATAT
1 G-TAAGTTAT
* *
55648917 -AAATTTAT
1 GTAAGTTAT
55648925 GT-A-TTAT
1 GTAAGTTAT
55648932 GTAAGTTAT
1 GTAAGTTAT
55648941 GTAAGTTAT
1 GTAAGTTAT
* *
55648950 GATATGATAT
1 G-TAAGTTAT
* *
55648960 AT-ATTTAT
1 GTAAGTTAT
55648968 GT-A-TTAT
1 GTAAGTTAT
*
55648975 GTAAGTTTT
1 GTAAGTTAT
55648984 GTAAGTTAT
1 GTAAGTTAT
55648993 GTA
1 GTA
55648996 TTATGATATA
Statistics
Matches: 113, Mismatches: 30, Indels: 18
0.70 0.19 0.11
Matches are distributed among these distances:
7 12 0.11
8 16 0.14
9 69 0.61
10 16 0.14
ACGTcount: A:0.34, C:0.01, G:0.19, T:0.47
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:55648906 original size:36 final size:34
Alignment explanation
Indices: 55648859--55648942 Score: 123
Period size: 36 Copynumber: 2.4 Consensus size: 34
55648849 TTTTGTAAGT
*
55648859 TATGTAAGTTATGTTATGATATACATTTATGTGAGG
1 TATGTAAGTTATGTTATGATATAAATTTATGT-A-G
* *
55648895 TATGTAAGTTATGATATGATATAAATTTATGTAT
1 TATGTAAGTTATGTTATGATATAAATTTATGTAG
55648929 TATGTAAGTTATGT
1 TATGTAAGTTATGT
55648943 AAGTTATGAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
34 13 0.30
35 1 0.02
36 30 0.68
ACGTcount: A:0.33, C:0.01, G:0.19, T:0.46
Consensus pattern (34 bp):
TATGTAAGTTATGTTATGATATAAATTTATGTAG
Found at i:55648942 original size:43 final size:43
Alignment explanation
Indices: 55648885--55649015 Score: 208
Period size: 43 Copynumber: 3.0 Consensus size: 43
55648875 TGATATACAT
* * *
55648885 TTATGTGAGGTATGTAAGTTATGATATGATATAAATTTATGTA
1 TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTA
55648928 TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTA
1 TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTA
*
55648971 TTATGTAAGTTTTGTAAGTTATGTATTATGATATATATTTATGTA
1 TTATGTAAGTTATGTAAGTTATG-A-TATGATATATATTTATGTA
55649016 AGTTATTATA
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
43 62 0.76
44 1 0.01
45 19 0.23
ACGTcount: A:0.34, C:0.00, G:0.18, T:0.49
Consensus pattern (43 bp):
TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTA
Found at i:55652524 original size:46 final size:46
Alignment explanation
Indices: 55652474--55652649 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
55652464 TGGTTGAGCA
55652474 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
55652520 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
55652565 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
55652613 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
55652650 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:55652630 original size:93 final size:93
Alignment explanation
Indices: 55652471--55652642 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
55652461 GGATGGTTGA
* *
55652471 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
55652536 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
55652564 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
55652629 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
55652643 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:55662650 original size:22 final size:21
Alignment explanation
Indices: 55662624--55662735 Score: 63
Period size: 21 Copynumber: 5.0 Consensus size: 21
55662614 GGGTTATGGT
*
55662624 TTTATG-TTTGGAGTTTTAAGGG
1 TTTATGATTT-GAGATTT-AGGG
55662646 TTTATGATTTGAGATTTAGGG
1 TTTATGATTTGAGATTTAGGG
* *
55662667 TTTAAGGTGTAGTG-GA--TAGGG
1 TTTATGAT-T--TGAGATTTAGGG
55662688 TTTATTG-TTTAGAGTAATTTTAAGGG
1 TTTA-TGATTT-GAG--A-TTT-AGGG
55662714 TTTATGATTTGAGATTTAGGG
1 TTTATGATTTGAGATTTAGGG
55662735 T
1 T
55662736 CTGGTGTTGA
Statistics
Matches: 72, Mismatches: 4, Indels: 29
0.69 0.04 0.28
Matches are distributed among these distances:
18 1 0.01
19 1 0.01
20 2 0.03
21 25 0.35
22 18 0.25
23 6 0.08
24 2 0.03
25 6 0.08
26 11 0.15
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.46
Consensus pattern (21 bp):
TTTATGATTTGAGATTTAGGG
Found at i:55662765 original size:68 final size:63
Alignment explanation
Indices: 55662637--55662799 Score: 163
Period size: 68 Copynumber: 2.5 Consensus size: 63
55662627 ATGTTTGGAG
* *
55662637 TTTTAAGGGTTTATGATTTGAGATTTAGGGTTTAAGGTGTAGTGGATAGGGTTTATTGTTTAGAG
1 TTTTAAGGGTTTATGATTTGAGATTTAGGGTCT-AGGTGTA-TGAATAGGGTTTATTGTTT--A-
55662702 TAA
61 TAA
55662705 TTTTAAGGGTTTATGATTTGAGATTTAGGGTCT-GGTGT-TGAAT-GGGTATTACTTAGTGTTTA
1 TTTTAAGGGTTTATGATTTGAGATTTAGGGTCTAGGTGTATGAATAGGGT-TTA--T--TGTTTA
*
55662767 TAG
61 TAA
* *
55662770 TTTTATGGG-TTATGATTAGAGATTTAGGGT
1 TTTTAAGGGTTTATGATTTGAGATTTAGGGT
55662800 TTGAGGTTTA
Statistics
Matches: 85, Mismatches: 5, Indels: 14
0.82 0.05 0.13
Matches are distributed among these distances:
63 4 0.05
64 27 0.32
65 10 0.12
66 7 0.08
68 37 0.44
ACGTcount: A:0.23, C:0.01, G:0.30, T:0.45
Consensus pattern (63 bp):
TTTTAAGGGTTTATGATTTGAGATTTAGGGTCTAGGTGTATGAATAGGGTTTATTGTTTATAA
Found at i:55663915 original size:27 final size:28
Alignment explanation
Indices: 55663878--55663937 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
55663868 AGCATGGCTG
55663878 CCAG-AACAGATA-CTGTGACAGAGCCA
1 CCAGAAACAGATATCTGTGACAGAGCCA
* *
55663904 CCAGAAACAGATATTTGTGGCAGAGCCA
1 CCAGAAACAGATATCTGTGACAGAGCCA
55663932 CCAGAA
1 CCAGAA
55663938 CGCTTCCTCC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 4 0.13
27 8 0.27
28 18 0.60
ACGTcount: A:0.38, C:0.25, G:0.23, T:0.13
Consensus pattern (28 bp):
CCAGAAACAGATATCTGTGACAGAGCCA
Found at i:55666817 original size:113 final size:113
Alignment explanation
Indices: 55666614--55666845 Score: 297
Period size: 113 Copynumber: 2.1 Consensus size: 113
55666604 GGTCGACTTA
*
55666614 TAGCGGCACTTTCCTAAAAACTCCGCTAATGCTCGATATATTGCGTGTGTTTAGGAAAGCGCCGC
1 TAGCGGCACTTTCCTAAAAACGCCGCTAATGCTCGATATATTGCGTGTGTTTAGGAAAGCGCCGC
* * * * * *
55666679 TAATTCCACAGAAGCTCGATTTAAACGATGTTGTTCGGCTTAATCTTT
66 TAATGCCACAGAAGCTCAATGTAAACAATGTCGTTCGGCTGAATCTTT
* * * * *
55666727 TAGCGGCGCTTTCTTAAAAACGCCGCTAATGCTTGAT-TTTTGCG-GCATTTTTAGGAAAGCGCC
1 TAGCGGCACTTTCCTAAAAACGCCGCTAATGCTCGATATATTGCGTG--TGTTTAGGAAAGCGCC
* **
55666790 TCTAATGCCATGGAAGCTCAATGTAAACAATGTCGTTCGGCTGAATCTTT
64 GCTAATGCCACAGAAGCTCAATGTAAACAATGTCGTTCGGCTGAATCTTT
55666840 TAGCGG
1 TAGCGG
55666846 TATTTTTAAA
Statistics
Matches: 102, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
111 1 0.01
112 6 0.06
113 95 0.93
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (113 bp):
TAGCGGCACTTTCCTAAAAACGCCGCTAATGCTCGATATATTGCGTGTGTTTAGGAAAGCGCCGC
TAATGCCACAGAAGCTCAATGTAAACAATGTCGTTCGGCTGAATCTTT
Found at i:55666885 original size:113 final size:113
Alignment explanation
Indices: 55666663--55666910 Score: 243
Period size: 113 Copynumber: 2.2 Consensus size: 113
55666653 ATTGCGTGTG
* * * * * * *
55666663 TTTAGGAAAGCGCCGCTAATTCCACAGAAGCTCGATTTAAACGATGTTGTTCGGCTTAATCTTTT
1 TTTAGGAAAGCGCCACTAATGCCACAGAAGCTCAATGTAAACAATGTCGTTCGGCTGAATCTTTT
* * * * *
55666728 AGCGGCGCTTTCTTAAAAACGCCGCTAATGCTTGATTTTTGCGGCATT
66 AGCGGCGATTTCTTAAAAACGCCGCTAATGCTTCAATATAGCGGCATT
* **
55666776 TTTAGGAAAGCGCCTCTAATGCCATGGAAGCTCAATGTAAACAATGTCGTTCGGCTGAATCTTTT
1 TTTAGGAAAGCGCCACTAATGCCACAGAAGCTCAATGTAAACAATGTCGTTCGGCTGAATCTTTT
* * * * *
55666841 AGCGG-TATTT-TTAAAAAATGCTGCT-ATAGGTTCACATATAGCGGCGTT
66 AGCGGCGATTTCTT-AAAAACGCCGCTAAT-GCTTCA-ATATAGCGGCATT
*
55666889 TTTGAGG-AAGTGCCACTAATGC
1 TTT-AGGAAAGCGCCACTAATGC
55666911 TTGATCTATT
Statistics
Matches: 110, Mismatches: 21, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
111 4 0.04
112 17 0.15
113 86 0.78
114 3 0.03
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.32
Consensus pattern (113 bp):
TTTAGGAAAGCGCCACTAATGCCACAGAAGCTCAATGTAAACAATGTCGTTCGGCTGAATCTTTT
AGCGGCGATTTCTTAAAAACGCCGCTAATGCTTCAATATAGCGGCATT
Found at i:55670098 original size:81 final size:80
Alignment explanation
Indices: 55670002--55670201 Score: 267
Period size: 81 Copynumber: 2.5 Consensus size: 80
55669992 TTACTAAATG
*
55670002 CCCTCGATTTGTAGAATTACCATTTTACCCTCAATTTATAGAATTACCGTTTCACCCTCGATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCAA-TTATAGAATTACCGTTTCACCCTCGATTTA
*
55670067 CAAAATTACCGTTTTA
65 CAAAATTACCATTTTA
** * *
55670083 CCCTCGATTTATAGAATTATAATTTTACCCTCGAATTATAGAATTACTGTTTTACCCTCGATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTC-AATTATAGAATTACCGTTTCACCCTCGATTTA
*
55670148 CAAAATTACTATTTTA
65 CAAAATTACCATTTTA
* * * *
55670164 CCCTC-AGTTTACAAAATTACCGTTTTACCCTCAGTTAT
1 CCCTCGA-TTTATAGAATTACCATTTTACCCTCAATTAT
55670202 GAAATTATTG
Statistics
Matches: 104, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
80 6 0.06
81 96 0.92
82 2 0.02
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (80 bp):
CCCTCGATTTATAGAATTACCATTTTACCCTCAATTATAGAATTACCGTTTCACCCTCGATTTAC
AAAATTACCATTTTA
Found at i:55670199 original size:27 final size:27
Alignment explanation
Indices: 55670002--55670195 Score: 201
Period size: 27 Copynumber: 7.2 Consensus size: 27
55669992 TTACTAAATG
** * *
55670002 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCGTTTTA
* * * *
55670029 CCCTCAATTTATAGAATTACCGTTTCA
1 CCCTCGATTTACAAAATTACCGTTTTA
55670056 CCCTCGATTTACAAAATTACCGTTTTA
1 CCCTCGATTTACAAAATTACCGTTTTA
* * ***
55670083 CCCTCGATTTATAGAATTATAATTTTA
1 CCCTCGATTTACAAAATTACCGTTTTA
* * * *
55670110 CCCTCGAATTATAGAATTACTGTTTTA
1 CCCTCGATTTACAAAATTACCGTTTTA
**
55670137 CCCTCGATTTACAAAATTACTATTTTA
1 CCCTCGATTTACAAAATTACCGTTTTA
55670164 CCCTC-AGTTTACAAAATTACCGTTTTA
1 CCCTCGA-TTTACAAAATTACCGTTTTA
55670191 CCCTC
1 CCCTC
55670196 AGTTATGAAA
Statistics
Matches: 143, Mismatches: 23, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
26 1 0.01
27 142 0.99
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.39
Consensus pattern (27 bp):
CCCTCGATTTACAAAATTACCGTTTTA
Found at i:55670261 original size:27 final size:28
Alignment explanation
Indices: 55670231--55670301 Score: 92
Period size: 27 Copynumber: 2.6 Consensus size: 28
55670221 TGTAAGATAG
**
55670231 AATTACCGAAATACCCTC-AATTTGTAA
1 AATTACCGAAATACCCTCTAATTTCCAA
*
55670258 AATTACCAAAATACCC-CTAATTTCCAA
1 AATTACCGAAATACCCTCTAATTTCCAA
*
55670285 AATTACAGAAATACCCT
1 AATTACCGAAATACCCT
55670302 TGACTTTTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
26 1 0.03
27 36 0.97
ACGTcount: A:0.44, C:0.25, G:0.04, T:0.27
Consensus pattern (28 bp):
AATTACCGAAATACCCTCTAATTTCCAA
Found at i:55670448 original size:27 final size:27
Alignment explanation
Indices: 55670405--55670478 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
55670395 AAATGACTAA
*
55670405 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
55670432 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
* *
55670459 AATACCCTTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
55670479 TGACGAATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.08
27 34 0.89
28 1 0.03
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:55670482 original size:27 final size:27
Alignment explanation
Indices: 55670418--55670482 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
55670408 ACCCCTAATA
*
55670418 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * *
55670445 GGTAAAGTGACCGTAATA-CCCTTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
55670472 GGTAAAATGAC
1 GGTAAAATGAC
55670483 GAATATGCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:55671362 original size:25 final size:25
Alignment explanation
Indices: 55671294--55671375 Score: 87
Period size: 25 Copynumber: 3.3 Consensus size: 25
55671284 GGAAGTGCTA
* * ***
55671294 AAAGGGCTCTGCCCCAATTTACCGG
1 AAAGGGCTTTGCCCCAGTTTATTAG
*
55671319 AAAGGGCTTTGCCCTAGTTTATTAG
1 AAAGGGCTTTGCCCCAGTTTATTAG
55671344 AAAGGGCTTTGCCCCAG-TTATTA-
1 AAAGGGCTTTGCCCCAGTTTATTAG
55671367 AAAGAGGCT
1 AAAG-GGCT
55671376 AGGCCTCCAG
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
23 4 0.08
24 10 0.20
25 35 0.71
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (25 bp):
AAAGGGCTTTGCCCCAGTTTATTAG
Found at i:55671375 original size:24 final size:24
Alignment explanation
Indices: 55671318--55671389 Score: 83
Period size: 25 Copynumber: 2.9 Consensus size: 24
55671308 CAATTTACCG
*
55671318 GAAAGGGCTTTGCCCTAGTTTATTA
1 GAAAGGGCTTTGCCCCAG-TTATTA
55671343 GAAAGGGCTTTGCCCCAGTTATTA
1 GAAAGGGCTTTGCCCCAGTTATTA
**
55671367 -AAAGAGGCTAGGCCTCCAGTTAT
1 GAAAG-GGCTTTGCC-CCAGTTAT
55671390 ATGATAAAGC
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
23 4 0.10
24 13 0.31
25 25 0.60
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.29
Consensus pattern (24 bp):
GAAAGGGCTTTGCCCCAGTTATTA
Found at i:55671575 original size:42 final size:42
Alignment explanation
Indices: 55671510--55671601 Score: 168
Period size: 42 Copynumber: 2.2 Consensus size: 42
55671500 TAGTCTCCCC
55671510 AAATGGGCTTGCATACAATCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACAATCATTGACATTACATGTGATATTG
55671552 AAATGGGCTTGCATAC-ATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACAAT-CATTGACATTACATGTGATATTG
55671594 AAATGGGC
1 AAATGGGC
55671602 CTAAAGGTCA
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
41 2 0.04
42 47 0.96
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.32
Consensus pattern (42 bp):
AAATGGGCTTGCATACAATCATTGACATTACATGTGATATTG
Found at i:55671663 original size:31 final size:31
Alignment explanation
Indices: 55671625--55671739 Score: 178
Period size: 31 Copynumber: 3.7 Consensus size: 31
55671615 CGTTTACAGT
* *
55671625 AAAGGCTTCAGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
55671656 AAAGGCTTCGGCCTAGTAATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
55671687 AAAGGCTTCGGCCCAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
55671718 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
55671740 CCAAGACTAA
Statistics
Matches: 77, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
30 5 0.06
31 72 0.94
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:55680501 original size:47 final size:47
Alignment explanation
Indices: 55680450--55680666 Score: 328
Period size: 47 Copynumber: 4.6 Consensus size: 47
55680440 TTAGGATTTT
** * *
55680450 ATGTGATGAATGTGAATGTGTATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
55680497 ATGTGATGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
55680544 ATGTGATAAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
55680591 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
55680638 ATGTGATGAACGTGAA-AGTGTATATATGT
1 ATGTGATGAATGTGAACA-TGCATATATGT
55680667 TGCGAAGCCG
Statistics
Matches: 156, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
46 1 0.01
47 155 0.99
ACGTcount: A:0.34, C:0.10, G:0.28, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:55680644 original size:22 final size:22
Alignment explanation
Indices: 55680522--55680644 Score: 67
Period size: 22 Copynumber: 5.3 Consensus size: 22
55680512 ACATGCATAT
*
55680522 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCAGAATGGCCA
* *
55680544 ATGTGATAAATGTG-AGCAT-GCATA
1 ATGTGAT-AA-G-GCAGAATGGC-CA
*
55680568 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCAGAATGGCCA
*
55680591 ATGTGATGAATGTG-A-ACAT-GCATA
1 ATGTGAT-AA-G-GCAGA-ATGGC-CA
55680615 TATGTGATAAGGCAGAATGGCCA
1 -ATGTGATAAGGCAGAATGGCCA
55680638 ATGTGAT
1 ATGTGAT
55680645 GAACGTGAAA
Statistics
Matches: 76, Mismatches: 9, Indels: 32
0.65 0.08 0.27
Matches are distributed among these distances:
22 23 0.30
23 19 0.25
24 18 0.24
25 16 0.21
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCAGAATGGCCA
Found at i:55681007 original size:37 final size:37
Alignment explanation
Indices: 55680899--55681007 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
55680889 GGAAATATAT
*
55680899 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
55680936 TCCGAGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
55680973 TCCGGGTAAGACCCGATGACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
55681008 CGTCTGAGCT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:55682147 original size:40 final size:40
Alignment explanation
Indices: 55682077--55682294 Score: 248
Period size: 40 Copynumber: 5.5 Consensus size: 40
55682067 AAACCAAGTA
* *
55682077 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
55682116 CCTTCAGGACTTAGCACGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
55682156 CCTTCGGGACTTAGCCCGGATATAGTAAC-CATCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTC-GCACAAATG
* *
55682196 CCTTTGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
55682236 CTTTCGAGG-CTTAGCCCAGA-ATTAGTCACTAGCACAAATG
1 CCTTCG-GGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
55682276 CCTACGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
55682295 TTATCATCCG
Statistics
Matches: 152, Mismatches: 20, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
39 17 0.11
40 132 0.87
41 3 0.02
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:55688549 original size:40 final size:40
Alignment explanation
Indices: 55688504--55688731 Score: 402
Period size: 40 Copynumber: 5.7 Consensus size: 40
55688494 GCAAACACAT
*
55688504 TTGCCTTCGGGTCTTAGCCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
55688544 TTGCCTTCGGGTCTTAGCCCGGATATGTCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
55688584 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
55688624 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
55688664 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
55688704 TTGCCTTCGGGTCATAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
55688732 TCCAATGCTC
Statistics
Matches: 180, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 180 1.00
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:55693630 original size:49 final size:47
Alignment explanation
Indices: 55693523--55693749 Score: 357
Period size: 47 Copynumber: 4.7 Consensus size: 47
55693513 TTAGGATTCT
* * *
55693523 ATGTGATGGATGTGAACA-TGAATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
*
55693570 ATGTGATGAATGTGAAAGTGTATATATGTGATCAGGCCTATAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC--TAATGGCCG
55693619 ATGTGATGAATGTGAAAGTGTATATAAATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATAT--ATGTGATAAGGCCTAATGGCCG
55693668 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
55693715 TTGTGATGAATGTGAAAGTGTATATATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
55693750 TCCCGAAGGG
Statistics
Matches: 169, Mismatches: 6, Indels: 10
0.91 0.03 0.05
Matches are distributed among these distances:
46 1 0.01
47 88 0.52
49 68 0.40
51 12 0.07
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:55701682 original size:42 final size:42
Alignment explanation
Indices: 55701616--55701719 Score: 127
Period size: 42 Copynumber: 2.5 Consensus size: 42
55701606 CCTAACAAAC
* * * ** *
55701616 GCCTGACACATTGGTGTGTAAGGCCATTTTGAGAGTTACACG
1 GCCTGACACATGGGCGTGTGAGGCCATTTCAAGAGTTACAAG
* *
55701658 GCCTGCCACATGGGCGTGTGAGGCCATTTCAAGAGTTGCAAG
1 GCCTGACACATGGGCGTGTGAGGCCATTTCAAGAGTTACAAG
*
55701700 GCCTGGCACATGGGCGTGTG
1 GCCTGACACATGGGCGTGTG
55701720 GGTTGGCCAA
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.20, C:0.22, G:0.34, T:0.24
Consensus pattern (42 bp):
GCCTGACACATGGGCGTGTGAGGCCATTTCAAGAGTTACAAG
Found at i:55705099 original size:56 final size:56
Alignment explanation
Indices: 55705013--55705186 Score: 339
Period size: 56 Copynumber: 3.1 Consensus size: 56
55705003 AAACATGTTG
55705013 GGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGCAT
1 GGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGCAT
55705069 GGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGCAT
1 GGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGCAT
*
55705125 GGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGCAT
1 GGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGCAT
55705181 GGGCAA
1 GGGCAA
55705187 TAAACTAATA
Statistics
Matches: 117, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 117 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.22
Consensus pattern (56 bp):
GGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGCAT
Found at i:55706696 original size:40 final size:39
Alignment explanation
Indices: 55706612--55706796 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 39
55706602 TCGAATGATG
* * * *
55706612 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
55706652 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
55706692 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
*
55706731 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
*
55706772 T-CGGGCTATGACCCGAAGGCATTTG
1 TCCGGGCTAAG-CCCGAAGGCATTTG
55706797 AACAAGTAGC
Statistics
Matches: 125, Mismatches: 17, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
39 35 0.28
40 80 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:55706748 original size:79 final size:82
Alignment explanation
Indices: 55706612--55706796 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
55706602 TCGAATGATG
* *
55706612 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
*
55706676 TGTGCGAGATACTA-AT
66 TGTGCGAGATACTATAA
* * * **
55706692 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
*
55706754 TTGTGCGAGTTACTATAA
65 TTGTGCGAGATACTATAA
*
55706772 T-CGGGCTATGACCCGAAGGCATTTG
1 TCCGGGCTAAGACCCGAAGGCATTTG
55706797 AACAAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.62
80 34 0.37
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (82 bp):
TCCGGGCTAAGACCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATAA
Found at i:55706818 original size:79 final size:79
Alignment explanation
Indices: 55706612--55706829 Score: 203
Period size: 79 Copynumber: 2.7 Consensus size: 79
55706602 TCGAATGATG
** * * * **
55706612 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAAC-AAGTTACTAAATCCGGGTTAA-ATCCCGAAGGCAT
*
55706675 TTGTGCGAGATACTAAT
63 TTGTGCGAGATACTAAA
** * *
55706692 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
1 TCCGGGCTAAGCCCGAAGGCATTTGAACAAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTTG
*
55706757 TGCGAGTTACTATAA
66 TGCGAGATACTA-AA
* * *
55706772 T-CGGGCTATGACCCGAAGGCATTTGAACAAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAACAAGTTA-CTAAATCCGGGTTAAATCCCGAAGG
55706830 TACGTGATTT
Statistics
Matches: 117, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
78 1 0.01
79 72 0.62
80 44 0.38
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAACAAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTTG
TGCGAGATACTAAA
Found at i:55711384 original size:48 final size:48
Alignment explanation
Indices: 55711328--55711641 Score: 389
Period size: 48 Copynumber: 6.5 Consensus size: 48
55711318 ACGAGATCCT
55711328 GTGTAAGACCATGTCTGGGACATGGCATCAGCATTGATATGTGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCAGCATTGATATGTGTGCCA
*
55711376 GTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCAGCATTGATATGTGTGCCA
* * * * * *
55711424 GTGTAAGACCATGTTTGGGACATGGCATCAACGTTGATATGAGAGCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCAGCATTGATATGTGTGCCA
* * * *
55711472 GTGTAAGACCATGTCTGGGACATGGCATCAACGTTGATATGAGAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCAGCATTGATATGTGTGCCA
* *
55711520 ATGTAAGACCATGTCTGGGACATGGCATC-GACATTGATGTGTGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCAG-CATTGATATGTGTGCCA
* * * * * * **
55711568 GTGTAAGACCATATCTAGGATATGGCATCAGCCTCGGTATGTGATTTCA
1 GTGTAAGACCATGTCTGGGACATGGCATCAGCATTGATATGTG-TGCCA
* *
55711617 -TGTAAGACCATATCTGGGATATGGC
1 GTGTAAGACCATGTCTGGGACATGGC
55711642 GTTGATATGA
Statistics
Matches: 236, Mismatches: 27, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
48 232 0.98
49 4 0.02
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCAGCATTGATATGTGTGCCA
Found at i:55711593 original size:144 final size:144
Alignment explanation
Indices: 55711328--55711597 Score: 441
Period size: 144 Copynumber: 1.9 Consensus size: 144
55711318 ACGAGATCCT
* * * *
55711328 GTGTAAGACCATGTCTGGGACATGGCATCAGCATTGATATGTGTGCCAGTGTAAGACCATGTCTG
1 GTGTAAGACCATGTCTGGGACATGGCATCAACATTGATATGAGAGCCAATGTAAGACCATGTCTG
* * * *
55711393 GGACATGGCATCGGCATTGATATGTGTGCCAGTGTAAGACCATGTTTGGGACATGGCATCAACGT
66 GGACATGGCATCGACATTGATATGTGTGCCAGTGTAAGACCATATCTAGGACATGGCATCAACGT
55711458 TGATATGAGAGCTA
131 TGATATGAGAGCTA
*
55711472 GTGTAAGACCATGTCTGGGACATGGCATCAACGTTGATATGAGAGCCAATGTAAGACCATGTCTG
1 GTGTAAGACCATGTCTGGGACATGGCATCAACATTGATATGAGAGCCAATGTAAGACCATGTCTG
* *
55711537 GGACATGGCATCGACATTGATGTGTGTGCCAGTGTAAGACCATATCTAGGATATGGCATCA
66 GGACATGGCATCGACATTGATATGTGTGCCAGTGTAAGACCATATCTAGGACATGGCATCA
55711598 GCCTCGGTAT
Statistics
Matches: 115, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
144 115 1.00
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (144 bp):
GTGTAAGACCATGTCTGGGACATGGCATCAACATTGATATGAGAGCCAATGTAAGACCATGTCTG
GGACATGGCATCGACATTGATATGTGTGCCAGTGTAAGACCATATCTAGGACATGGCATCAACGT
TGATATGAGAGCTA
Found at i:55711621 original size:144 final size:144
Alignment explanation
Indices: 55711328--55711641 Score: 432
Period size: 144 Copynumber: 2.2 Consensus size: 144
55711318 ACGAGATCCT
* * * *
55711328 GTGTAAGACCATGTCTGGGACATGGCATCAGCATTGATATGTGTGCCAGTGTAAGACCATGTCTG
1 GTGTAAGACCATGTCTGGGACATGGCATCAACATTGATATGAGAGCCAATGTAAGACCATGTCTG
* * * * *
55711393 GGACATGGCATCGGCATTGATATGTGTGCCAGTGTAAGACCATGTTTGGGACATGGCATCAACGT
66 GGACATGGCATCGACATTGATATGTGTGCCAGTGTAAGACCATATCTAGGACATGGCATCAACCT
*
55711458 TGATATGAGAGCTA
131 CGATATGAGAGCTA
*
55711472 GTGTAAGACCATGTCTGGGACATGGCATCAACGTTGATATGAGAGCCAATGTAAGACCATGTCTG
1 GTGTAAGACCATGTCTGGGACATGGCATCAACATTGATATGAGAGCCAATGTAAGACCATGTCTG
* * *
55711537 GGACATGGCATCGACATTGATGTGTGTGCCAGTGTAAGACCATATCTAGGATATGGCATCAGCCT
66 GGACATGGCATCGACATTGATATGTGTGCCAGTGTAAGACCATATCTAGGACATGGCATCAACCT
* * **
55711602 CGGTATGTGATTTCA
131 CGATATGAGAGCT-A
* *
55711617 -TGTAAGACCATATCTGGGATATGGC
1 GTGTAAGACCATGTCTGGGACATGGC
55711642 GTTGATATGA
Statistics
Matches: 149, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
144 148 0.99
145 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (144 bp):
GTGTAAGACCATGTCTGGGACATGGCATCAACATTGATATGAGAGCCAATGTAAGACCATGTCTG
GGACATGGCATCGACATTGATATGTGTGCCAGTGTAAGACCATATCTAGGACATGGCATCAACCT
CGATATGAGAGCTA
Found at i:55713520 original size:16 final size:16
Alignment explanation
Indices: 55713479--55713514 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
55713469 TGAATCGATG
* *
55713479 AAAGCCGAAAAGTCGA
1 AAAGCCAAAAAGTCAA
55713495 AAAGCCAAAAAGTCAA
1 AAAGCCAAAAAGTCAA
55713511 AAAG
1 AAAG
55713515 TTAAAACTTC
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:0.58, C:0.17, G:0.19, T:0.06
Consensus pattern (16 bp):
AAAGCCAAAAAGTCAA
Found at i:55716108 original size:49 final size:49
Alignment explanation
Indices: 55715941--55716165 Score: 288
Period size: 49 Copynumber: 4.5 Consensus size: 49
55715931 TGAGGTCGGA
* * * *
55715941 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCACG
* * **
55715992 TGTGTAGTACTAAGTGCAGGCTACAACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACG
* *
55716042 TGTGCAGTACTAAGTGCAGGTTACTACGTGTACCAGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
* * *
55716091 TGTGTAGTACTAGGTGCAGGCTACTACGTGTACCGGATAATTGGTCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
* *
55716140 TGTGTAGTGCTATGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
55716166 TGCATATCAG
Statistics
Matches: 152, Mismatches: 21, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
49 76 0.50
50 43 0.28
51 33 0.22
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
Found at i:55716122 original size:99 final size:101
Alignment explanation
Indices: 55715941--55716165 Score: 285
Period size: 99 Copynumber: 2.3 Consensus size: 101
55715931 TGAGGTCGGA
* * *
55715941 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTGTGATCACGTGTGTAGTACTAAG
1 TGTGCAGTACTAAGTGCAGGCTACTACGCGTACCAGATAACTGTGATCACGTGTGTAGTACTAAG
55716006 TGCAGGCTACAACGTGTATCAGATGGTTAGGTCACG
66 TGCAGGCTACAACGTGTATCAGATGGTTAGGTCACG
* * * *
55716042 TGTGCAGTACTAAGTGCAGGTTACTACGTGTACCAGATAA-T-TGGTCACGTGTGTAGTACTAGG
1 TGTGCAGTACTAAGTGCAGGCTACTACGCGTACCAGATAACTGTGATCACGTGTGTAGTACTAAG
* * * ** *
55716105 TGCAGGCTACTACGTGTACCGGATAATT-GGTCACA
66 TGCAGGCTACAACGTGTATCAGATGGTTAGGTCACG
* * *
55716140 TGTGTAGTGCTATGTGCAGGCTACTA
1 TGTGCAGTACTAAGTGCAGGCTACTA
55716166 TGCATATCAG
Statistics
Matches: 107, Mismatches: 17, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
98 28 0.26
99 43 0.40
100 1 0.01
101 35 0.33
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (101 bp):
TGTGCAGTACTAAGTGCAGGCTACTACGCGTACCAGATAACTGTGATCACGTGTGTAGTACTAAG
TGCAGGCTACAACGTGTATCAGATGGTTAGGTCACG
Found at i:55720220 original size:27 final size:27
Alignment explanation
Indices: 55720190--55720287 Score: 107
Period size: 27 Copynumber: 3.7 Consensus size: 27
55720180 CCCAGTTTGG
55720190 AAAATGACCGTAATGCCCCTGAT-GGGA
1 AAAATGACCGTAAT-CCCCTGATAGGGA
*
55720217 AAAATGACCG--A-CCCCTG-TAGGGT
1 AAAATGACCGTAATCCCCTGATAGGGA
* * *
55720240 AAAATGACTGTAATACCCTCATAGGGA
1 AAAATGACCGTAATCCCCTGATAGGGA
55720267 AAAATGACCGTAATGCCCCTG
1 AAAATGACCGTAAT-CCCCTG
55720288 TATGGTAGAA
Statistics
Matches: 57, Mismatches: 8, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
22 1 0.02
23 18 0.32
25 2 0.04
26 4 0.07
27 28 0.49
28 4 0.07
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.19
Consensus pattern (27 bp):
AAAATGACCGTAATCCCCTGATAGGGA
Found at i:55729964 original size:40 final size:40
Alignment explanation
Indices: 55729870--55730014 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
55729860 TACTCGAATG
*
55729870 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
55729911 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
55729951 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* * *
55729991 ATATCCGGGTTAAGACTCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
55730015 CTTGTGCGAG
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 61 0.67
41 28 0.31
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:55732155 original size:3 final size:3
Alignment explanation
Indices: 55732149--55732195 Score: 78
Period size: 3 Copynumber: 16.0 Consensus size: 3
55732139 TGTGACGATG
*
55732149 ATA ATA ATA ATA ATG ATA ATA ATA AT- ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
55732196 GGAATGACAA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
2 2 0.05
3 39 0.95
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:55732178 original size:23 final size:23
Alignment explanation
Indices: 55732152--55732195 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
55732142 GACGATGATA
*
55732152 ATAATAATAATGATAATAATAAT
1 ATAATAATAATAATAATAATAAT
55732175 ATAATAATAATAATAATAATA
1 ATAATAATAATAATAATAATA
55732196 GGAATGACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (23 bp):
ATAATAATAATAATAATAATAAT
Found at i:55733604 original size:37 final size:37
Alignment explanation
Indices: 55733554--55733632 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
55733544 TTATTACGAA
* * *
55733554 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
55733591 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
55733628 GTCTT
1 GTCTT
55733633 TAGAACTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:55733821 original size:51 final size:51
Alignment explanation
Indices: 55733766--55734526 Score: 1111
Period size: 51 Copynumber: 15.3 Consensus size: 51
55733756 CACATTTATG
55733766 TTATCACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGCC
55733817 TTATCACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGCC
55733868 TTATCACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGCC
55733919 TTATCACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGCC
55733970 TTATCACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGCC
55734021 TTATCACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGCC
* * *
55734072 TTATTAC--ATAT--ATACACTTTCACATTCATCACATCAGCTATTAGGTAGGCC
1 TTATCACATATATACATACACTTTCACATTCATCACATCGGCCA-T---TAGGCC
* *
55734123 TTATCAC--ACAT--ATACACTTTCACATTCATCACATCGGCTATTAGGCC
1 TTATCACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGCC
* * *
55734170 TTATTACATATATACATATACTTTCACATTCATCACATCGGCTATTAGGCC
1 TTATCACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGCC
* * *
55734221 TTATCAC--ACAT--ATACACTTTCACATTCATCACGTCGGCTATTAGGCC
1 TTATCACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGCC
* * *
55734268 TTATCAC----ACAGATACACTTTCACATTCATCACATCGGCTATTAGGCC
1 TTATCACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGCC
* *
55734315 TTATTACATATATACATATACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGCC
* *
55734366 TTATTAC--ATAT--ATACACTTTCACATTCATCACATCGGCTATTAGGCC
1 TTATCACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGCC
* *
55734413 TTATTACATATATACATATACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGCC
* *
55734464 TTATTAC--ATAT--ATACACTTTCACATTCATCACATCGGCTATTAGGCC
1 TTATCACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGCC
*
55734511 TTATCACACATATACA
1 TTATCACATATATACA
55734527 CTCTCTTGGC
Statistics
Matches: 661, Mismatches: 27, Indels: 44
0.90 0.04 0.06
Matches are distributed among these distances:
45 1 0.00
47 202 0.31
48 1 0.00
49 26 0.04
50 1 0.00
51 430 0.65
ACGTcount: A:0.31, C:0.28, G:0.08, T:0.33
Consensus pattern (51 bp):
TTATCACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGCC
Found at i:55733942 original size:102 final size:100
Alignment explanation
Indices: 55733766--55734526 Score: 1113
Period size: 98 Copynumber: 7.7 Consensus size: 100
55733756 CACATTTATG
*
55733766 TTATCACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 TTATCAC--ATATACATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATA
55733831 CATACACTTTCACATTCATCACATCGGCCATTAGGCC
64 CATACACTTTCACATTCATCACATCGGCCATTAGGCC
*
55733868 TTATCACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 TTATCAC--ATATACATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATA
55733933 CATACACTTTCACATTCATCACATCGGCCATTAGGCC
64 CATACACTTTCACATTCATCACATCGGCCATTAGGCC
*
55733970 TTATCACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 TTATCAC--ATATACATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATA
55734035 CATACACTTTCACATTCATCACATCGGCCATTAGGCC
64 CATACACTTTCACATTCATCACATCGGCCATTAGGCC
* * *
55734072 TTATTACATAT--ATACACTTTCACATTCATCACATCAGCTATTAGGTAGGCCTTATCAC--ACA
1 TTATCACATATACATACACTTTCACATTCATCACATCGGCTA-T---TAGGCCTTATCACATATA
*
55734133 T--ATACACTTTCACATTCATCACATCGGCTATTAGGCC
62 TACATACACTTTCACATTCATCACATCGGCCATTAGGCC
* * *
55734170 TTATTACATATATACATATACTTTCACATTCATCACATCGGCTATTAGGCCTTATCAC--ACAT-
1 TTA-T-CACATATACATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATA
* *
55734232 -ATACACTTTCACATTCATCACGTCGGCTATTAGGCC
64 CATACACTTTCACATTCATCACATCGGCCATTAGGCC
* * *
55734268 TTATCAC--ACAGATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATTACATATATACA
1 TTATCACATATACATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACA
*
55734331 TATACTTTCACATTCATCACATCGGCCATTAGGCC
66 TACACTTTCACATTCATCACATCGGCCATTAGGCC
* *
55734366 TTATTACATAT--ATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATTACATATATACA
1 TTATCACATATACATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACA
*
55734429 TATACTTTCACATTCATCACATCGGCCATTAGGCC
66 TACACTTTCACATTCATCACATCGGCCATTAGGCC
* *
55734464 TTATTACATAT--ATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACA
1 TTATCACATATACATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACA
55734527 CTCTCTTGGC
Statistics
Matches: 622, Mismatches: 23, Indels: 32
0.92 0.03 0.05
Matches are distributed among these distances:
94 43 0.07
96 5 0.01
97 1 0.00
98 307 0.49
99 2 0.00
100 13 0.02
101 1 0.00
102 250 0.40
ACGTcount: A:0.31, C:0.28, G:0.08, T:0.33
Consensus pattern (100 bp):
TTATCACATATACATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACA
TACACTTTCACATTCATCACATCGGCCATTAGGCC
Found at i:55734244 original size:38 final size:40
Alignment explanation
Indices: 55734202--55734318 Score: 99
Period size: 47 Copynumber: 2.6 Consensus size: 40
55734192 TTCACATTCA
*
55734202 TCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACAT
1 TCACATCGGCTATTAGGCCTTATCACACAGATACAC-TT---AT
55734246 TCATCACGTCGGCTATTAGGCCTTATCACACAGATACACTTTCACATT
1 TCA-CA--TCGGCTATTAGGCCTTATCACACAGATACAC-TT---A-T
55734294 CATCACATCGGCTATTAGGCCTTAT
1 --TCACATCGGCTATTAGGCCTTAT
55734319 TACATATATA
Statistics
Matches: 66, Mismatches: 1, Indels: 9
0.87 0.01 0.12
Matches are distributed among these distances:
44 3 0.05
45 2 0.03
47 55 0.83
48 1 0.02
49 2 0.03
50 3 0.05
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.32
Consensus pattern (40 bp):
TCACATCGGCTATTAGGCCTTATCACACAGATACACTTAT
Found at i:55738824 original size:51 final size:50
Alignment explanation
Indices: 55738644--55738825 Score: 162
Period size: 51 Copynumber: 3.7 Consensus size: 50
55738634 TGCTATCTTC
* *
55738644 AATCTGCTCCTACTGCAACTTCAGGGAGATTAGACTCATAACTTTTAGCTTC
1 AATCTGCTCCTACTGCAACTTCAGGGAGATGAGACTC-TAAC-TTTAGCTTT
* * * * *
55738696 AATCTGCTCC-ACTGTAACTTTAGGGAGATAAGA-TCT-GC--TATCTTT
1 AATCTGCTCCTACTGCAACTTCAGGGAGATGAGACTCTAACTTTAGCTTT
** * * *
55738741 AGGCTACTCCTACTGTAACTTCAAGGAGATGAGACTCGTAACTTGTAGCTTT
1 AATCTGCTCCTACTGCAACTTCAGGGAGATGAGACTC-TAACTT-TAGCTTT
55738793 AATCTGCTCC-ACTGCAACTTCAGAGGA-ATGAGA
1 AATCTGCTCCTACTGCAACTTCAG-GGAGATGAGA
55738826 TTCACTATCT
Statistics
Matches: 103, Mismatches: 19, Indels: 17
0.74 0.14 0.12
Matches are distributed among these distances:
45 12 0.12
46 20 0.19
47 2 0.02
48 2 0.02
49 2 0.02
50 2 0.02
51 37 0.36
52 26 0.25
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.31
Consensus pattern (50 bp):
AATCTGCTCCTACTGCAACTTCAGGGAGATGAGACTCTAACTTTAGCTTT
Found at i:55738834 original size:97 final size:96
Alignment explanation
Indices: 55738589--55738880 Score: 318
Period size: 97 Copynumber: 3.0 Consensus size: 96
55738579 AATTTGTATT
*** * * * *
55738589 TTGTAGCTTTAATCAATTCCACTGTAGCTTCAGGGAAATGAGATTTGCTATCTTCAATCTGCTCC
1 TTGTAGCTTTAATCTGCTCCACTGTAACTTCAGGG-AATGAGATTCGCTATCTTCAGTCTACTCC
* *
55738654 TACTGCAACTTCAGGGAGATTAGACTCATAAC
65 TACTGCAACTTCAGGGAGATAAGACTCGTAAC
* * * * * *
55738686 TTTTAGCTTCAATCTGCTCCACTGTAACTTTAGGGAGATAAGA-TCTGCTATCTTTAGGCTACTC
1 TTGTAGCTTTAATCTGCTCCACTGTAACTTCAGGGA-ATGAGATTC-GCTATCTTCAGTCTACTC
* * *
55738750 CTACTGTAACTTCAAGGAGATGAGACTCGTAAC
64 CTACTGCAACTTCAGGGAGATAAGACTCGTAAC
* * *
55738783 TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGAGGAATGAGATTCACTATCTTCAGTCTACTTC
1 TTGTAGCTTTAATCTGCTCCACTGTAACTTCAG-GGAATGAGATTCGCTATCTTCAGTCTACTCC
* * *
55738848 -ACTACATCTTCAGGGAGATAAGACTCGTGAC
65 TACTGCAACTTCAGGGAGATAAGACTCGTAAC
55738879 TT
1 TT
55738881 CAATCTGTTC
Statistics
Matches: 159, Mismatches: 32, Indels: 9
0.80 0.16 0.05
Matches are distributed among these distances:
96 29 0.18
97 125 0.79
98 5 0.03
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (96 bp):
TTGTAGCTTTAATCTGCTCCACTGTAACTTCAGGGAATGAGATTCGCTATCTTCAGTCTACTCCT
ACTGCAACTTCAGGGAGATAAGACTCGTAAC
Found at i:55738991 original size:45 final size:45
Alignment explanation
Indices: 55738606--55739036 Score: 194
Period size: 44 Copynumber: 9.3 Consensus size: 45
55738596 TTTAATCAAT
* * *
55738606 TCCACTGTAGCTTCAGGGAAATGAGATTTGCTATCTTCAATCTGC
1 TCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAATCTGC
* * ** *
55738651 TCCTACTGCAACTTCAGGGAGATTAGACTCATAACTTTTAGCTTCAATCTGC
1 TCC-ACTGCAACTTCAGGGAAATAAGA-T--T---TGCTATCTTCAATCTGC
* * * * * ** *
55738703 TCCACTGTAACTTTAGGGAGATAAGATCTGCTATCTTTAGGCTAC
1 TCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAATCTGC
* * * * * *
55738748 TCCTACTGTAACTTCAAGGAGATGAGACTCGTAACTTG-TAGCTTTAATCTGC
1 TCC-ACTGCAACTTCAGGGAAAT-A-A---G--ATTTGCTATCTTCAATCTGC
* ** * *
55738800 TCCACTGCAACTTCAGAGG-AATGAGATTCACTATCTTCAGTCTAC
1 TCCACTGCAACTTCAG-GGAAATAAGATTTGCTATCTTCAATCTGC
* * * * * * *
55738845 TTCACTACATCTTCAGGGAGATAAGACTCG-TGA-CTTCAATCTGT
1 TCCACTGCAACTTCAGGGAAATAAGATTTGCT-ATCTTCAATCTGC
* * * * *
55738889 TCCACTAG-AACTTCAAGAAAATAAGA-TTGAC-AGCTTTAATCTGT
1 TCCACT-GCAACTTCAGGGAAATAAGATTTG-CTATCTTCAATCTGC
* *
55738933 TCCACTACAACTTCAGGGAAATAAGATTTGCTATCTTCAATCCGC
1 TCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAATCTGC
* * * * * * *
55738978 TCCACTGTAACTTCAGGGAGATAGGACTCG-TAACTTCAACCTGC
1 TCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAATCTGC
*
55739022 CCCACTGCAACTTCA
1 TCCACTGCAACTTCA
55739037 AGGGGATAAG
Statistics
Matches: 287, Mismatches: 73, Indels: 53
0.69 0.18 0.13
Matches are distributed among these distances:
43 3 0.01
44 89 0.31
45 83 0.29
46 37 0.13
47 2 0.01
48 1 0.00
49 2 0.01
50 1 0.00
51 34 0.12
52 32 0.11
53 3 0.01
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (45 bp):
TCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAATCTGC
Found at i:55739046 original size:133 final size:133
Alignment explanation
Indices: 55738787--55739038 Score: 319
Period size: 133 Copynumber: 1.9 Consensus size: 133
55738777 CGTAACTTGT
* * * * *
55738787 AGCTTTAATCTGCTCCACTGCAACTTCAGAGGAATGAGATTCACTATCTTCAGTCTACTTCACTA
1 AGCTTTAATCTGCTCCACTACAACTTCAGAGGAATAAGATTCACTATCTTCAATCCACTCCACTA
* * * **
55738852 CATCTTCAGGGAGATAAGACTCGTGACTTCAATCTGTTCCACTAGAACTTCAAGAAAATAAGATT
66 CAACTTCAGGGAGATAAGACTCGTAACTTCAACCTGCCCCACTAGAACTTCAAGAAAATAAGATT
55738917 GAC
131 GAC
* ** *
55738920 AGCTTTAATCTGTTCCACTACAACTTCAG-GGAAATAAGATTTGCTATCTTCAATCCGCTCCACT
1 AGCTTTAATCTGCTCCACTACAACTTCAGAGG-AATAAGATTCACTATCTTCAATCCACTCCACT
** *
55738984 GTAACTTCAGGGAGATAGGACTCGTAACTTCAACCTGCCCCACT-GCAACTTCAAG
65 ACAACTTCAGGGAGATAAGACTCGTAACTTCAACCTGCCCCACTAG-AACTTCAAG
55739039 GGGATAAGGT
Statistics
Matches: 100, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
132 3 0.03
133 97 0.97
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (133 bp):
AGCTTTAATCTGCTCCACTACAACTTCAGAGGAATAAGATTCACTATCTTCAATCCACTCCACTA
CAACTTCAGGGAGATAAGACTCGTAACTTCAACCTGCCCCACTAGAACTTCAAGAAAATAAGATT
GAC
Found at i:55739350 original size:111 final size:111
Alignment explanation
Indices: 55739156--55739382 Score: 436
Period size: 111 Copynumber: 2.0 Consensus size: 111
55739146 ATCTAAATGA
55739156 ATCAAATGCTCCTAACTATATGTGTATGCATGATATTAGCGTGAATACAGAATGTCATGTTTGTG
1 ATCAAATGCTCCTAACTATATGTGTATGCATGATATTAGCGTGAATACAGAATGTCATGTTTGTG
55739221 AGAATGATCCCTCTTTTAATACTTAAGTTGTCATTACTTATTGTTT
66 AGAATGATCCCTCTTTTAATACTTAAGTTGTCATTACTTATTGTTT
*
55739267 ATCAAATGCTCCTAACTATATGTGTATGCATGATATTAGCGTGAATGCAGAATGTCATGTTTGTG
1 ATCAAATGCTCCTAACTATATGTGTATGCATGATATTAGCGTGAATACAGAATGTCATGTTTGTG
*
55739332 AGAATGATCCCTCTTTTAATACTTAAGTTGTCATTGCTTATTGTTT
66 AGAATGATCCCTCTTTTAATACTTAAGTTGTCATTACTTATTGTTT
55739378 ATCAA
1 ATCAA
55739383 GTTTCTATTG
Statistics
Matches: 114, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
111 114 1.00
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.40
Consensus pattern (111 bp):
ATCAAATGCTCCTAACTATATGTGTATGCATGATATTAGCGTGAATACAGAATGTCATGTTTGTG
AGAATGATCCCTCTTTTAATACTTAAGTTGTCATTACTTATTGTTT
Found at i:55750150 original size:19 final size:19
Alignment explanation
Indices: 55750126--55750167 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
55750116 AATAAAATAC
55750126 CACATCCAGTACGTTAGGA
1 CACATCCAGTACGTTAGGA
55750145 CACATCCAGTACGTTAGGA
1 CACATCCAGTACGTTAGGA
55750164 CACA
1 CACA
55750168 ACCCTCGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.33, C:0.29, G:0.19, T:0.19
Consensus pattern (19 bp):
CACATCCAGTACGTTAGGA
Found at i:55750804 original size:3 final size:3
Alignment explanation
Indices: 55750746--55750786 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
55750736 TGTGGCGATG
**
55750746 ATA ATA ATA ATA ATA ATA ATA ATA ATA ACC AT- ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
55750787 GGAATGACAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:55752084 original size:14 final size:13
Alignment explanation
Indices: 55752062--55752093 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
55752052 TAATAGATTC
55752062 AAAAAGAAAAATA
1 AAAAAGAAAAATA
55752075 AAAAAGGAAAAATA
1 AAAAA-GAAAAATA
55752089 AAAAA
1 AAAAA
55752094 ATTCACCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.84, C:0.00, G:0.09, T:0.06
Consensus pattern (13 bp):
AAAAAGAAAAATA
Found at i:55764624 original size:53 final size:53
Alignment explanation
Indices: 55764562--55764667 Score: 203
Period size: 53 Copynumber: 2.0 Consensus size: 53
55764552 GAACACTTAA
55764562 TCAGGAAATCCAAAATCTAGAAGTTTCCTTCCTTTAATCTTTAATCTTTCCCT
1 TCAGGAAATCCAAAATCTAGAAGTTTCCTTCCTTTAATCTTTAATCTTTCCCT
*
55764615 TCAGGAAATCCAAAATCTAGAAGTTTCCTTCCTTTAATTTTTAATCTTTCCCT
1 TCAGGAAATCCAAAATCTAGAAGTTTCCTTCCTTTAATCTTTAATCTTTCCCT
55764668 AAAGTATGAA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.41
Consensus pattern (53 bp):
TCAGGAAATCCAAAATCTAGAAGTTTCCTTCCTTTAATCTTTAATCTTTCCCT
Found at i:55767002 original size:30 final size:29
Alignment explanation
Indices: 55766956--55767012 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 29
55766946 TTTACGAGCC
55766956 TAGGGGAAAAAGTGTAATTTTGACAAAATT
1 TAGGGGAAAAAGTGTAATTTTG-CAAAATT
55766986 TAGGGGCAAAAA-TGTAATTTTGCAAAA
1 TAGGGG-AAAAAGTGTAATTTTGCAAAA
55767013 ACACGATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 5 0.19
30 16 0.62
31 5 0.19
ACGTcount: A:0.44, C:0.05, G:0.23, T:0.28
Consensus pattern (29 bp):
TAGGGGAAAAAGTGTAATTTTGCAAAATT
Found at i:55772483 original size:16 final size:15
Alignment explanation
Indices: 55772459--55772488 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
55772449 AACTATTTTA
55772459 TTACAAATTTCACTC
1 TTACAAATTTCACTC
55772474 TTACATAATTTCACT
1 TTACA-AATTTCACT
55772489 TACTCTATTC
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:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:55772809 original size:50 final size:50
Alignment explanation
Indices: 55772700--55772980 Score: 276
Period size: 50 Copynumber: 5.6 Consensus size: 50
55772690 CTGGTATGCA
* * *
55772700 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AACAATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGGTACACG
* * *
55772749 TAGTAGCCTGCAATTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGGTACACG
* * * * *** * * *
55772799 TAGTAGCCTGCACTTAGTACTACATACGTGATCGAAGTTGTCGGGTACCCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAA-CCATCTGGTACACG
** *
55772850 TAGTAGCCTGCACTTAGTACTACACATGCAACCTAACTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGGTACACG
* * * *** *
55772900 TACTAGCCTGCACTTAGTACTACACATGTAAACTAAAACCATCTTAAACACA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCT--AACCATCTGGTACACG
* *
55772952 TGGTAGCCTGCACATAGTACTACACATGT
1 TAGTAGCCTGCACTTAGTACTACACATGT
55772981 TTTCTCACAA
Statistics
Matches: 189, Mismatches: 39, Indels: 5
0.81 0.17 0.02
Matches are distributed among these distances:
49 30 0.16
50 85 0.45
51 37 0.20
52 37 0.20
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGGTACACG
Found at i:55778514 original size:47 final size:47
Alignment explanation
Indices: 55777406--55778485 Score: 1953
Period size: 47 Copynumber: 22.9 Consensus size: 47
55777396 GAAATGATAG
*
55777406 TAAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATATATATGA
1 TAAGGCCTAATGGCCGATGTGATGAACATGAAAGTGTATATATATGA
55777453 TAAGGCCTAATGGCCGATGTGATGAACATGAAAGTGTATATATATGA
1 TAAGGCCTAATGGCCGATGTGATGAACATGAAAGTGTATATATATGA
**
55777500 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAACATGAAAGTGTATATATA--TGA
** **
55777549 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAACATGAAAGTGTATATATATGA
55777596 TAAGGCCTAATGGCCGATGTGATGAACATGAAAGTGTATATATATGA
1 TAAGGCCTAATGGCCGATGTGATGAACATGAAAGTGTATATATATGA
55777643 TAAGGCCTAATGGCCGATGTGATGAACATGAAAGTGTATATATATGA
1 TAAGGCCTAATGGCCGATGTGATGAACATGAAAGTGTATATATATGA
55777690 TAAGGCCTAATGGCCGATGTGATGAACATGAAAGTGTATATATATGA
1 TAAGGCCTAATGGCCGATGTGATGAACATGAAAGTGTATATATATGA
55777737 TAAGGCCTAATGGCCGATGTGATGAACATGAAAGTGTATATATATGA
1 TAAGGCCTAATGGCCGATGTGATGAACATGAAAGTGTATATATATGA
55777784 TAAGGCCTAATGGCCGATGTGATGAACATGAAAGTGTATATATATGA
1 TAAGGCCTAATGGCCGATGTGATGAACATGAAAGTGTATATATATGA
55777831 TAAGGCCTAATGGCCGATGTGATGAACATGAAAGTGTATATATATGA
1 TAAGGCCTAATGGCCGATGTGATGAACATGAAAGTGTATATATATGA
55777878 TAAGGCCTAATGGCCGATGTGATGAACATGAAAGTGTATATATATGA
1 TAAGGCCTAATGGCCGATGTGATGAACATGAAAGTGTATATATATGA
55777925 TAAGGCCTAATGGCCGATGTGATGAACATGAAAGTGTATATATATGA
1 TAAGGCCTAATGGCCGATGTGATGAACATGAAAGTGTATATATATGA
55777972 TAAGGCCTAATGGCCGATGTGATGAACATGAAAGTGTATATATATGA
1 TAAGGCCTAATGGCCGATGTGATGAACATGAAAGTGTATATATATGA
55778019 TAAGGCCTAATGGCCGATGTGATGAACATGAAAGTGTATATATATGA
1 TAAGGCCTAATGGCCGATGTGATGAACATGAAAGTGTATATATATGA
55778066 TAAGGCCTAATGGCCGATGTGATGAACATGAAAGTGTATATATATGA
1 TAAGGCCTAATGGCCGATGTGATGAACATGAAAGTGTATATATATGA
55778113 TAAGGCCTAATGGCCGATGTGATGAACATGAAAGTGTATATATATGA
1 TAAGGCCTAATGGCCGATGTGATGAACATGAAAGTGTATATATATGA
55778160 TAAGGCCTAATGGCCGATGTGATGAACATGAAAGTGTATATATATGA
1 TAAGGCCTAATGGCCGATGTGATGAACATGAAAGTGTATATATATGA
55778207 TAAGGCCTAATGGCCGATGTGATGAACATGAAAGTGTATATATATGA
1 TAAGGCCTAATGGCCGATGTGATGAACATGAAAGTGTATATATATGA
55778254 TAAGGCCTAATGGCCGATGTGATGAACATGAAAGTGTATATATATGA
1 TAAGGCCTAATGGCCGATGTGATGAACATGAAAGTGTATATATATGA
**
55778301 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAACATGAAAGTGTATATATA--TGA
* ** *
55778350 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAACATGAAAGTGTATATATATGA
** * *
55778397 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAACATGAAAGTGTATATATATGA
**
55778444 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TAAGGCCTAATGGCCGATGTGATGAACATGAAAGTGTATATA
55778486 CGTGACAGGG
Statistics
Matches: 1013, Mismatches: 16, Indels: 8
0.98 0.02 0.01
Matches are distributed among these distances:
47 923 0.91
49 90 0.09
ACGTcount: A:0.35, C:0.10, G:0.27, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAACATGAAAGTGTATATATATGA
Found at i:55778771 original size:47 final size:47
Alignment explanation
Indices: 55778700--55778849 Score: 192
Period size: 47 Copynumber: 3.2 Consensus size: 47
55778690 TCCGGGTAAG
*
55778700 CGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATATA
1 CGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
55778747 CGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATA
1 CGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * * * * *
55778794 TGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAA
1 CGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
55778841 TGTGATAAG
1 CGTGATAAG
55778850 TCCCGAAGGG
Statistics
Matches: 89, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 89 1.00
ACGTcount: A:0.32, C:0.10, G:0.31, T:0.27
Consensus pattern (47 bp):
CGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
Found at i:55778951 original size:308 final size:308
Alignment explanation
Indices: 55778393--55779007 Score: 1185
Period size: 308 Copynumber: 2.0 Consensus size: 308
55778383 GTGTATATAT
*
55778393 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATATGTGATAAGGCCTAATGGC
1 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATACGTGATAAGGCCTAATGGC
*
55778458 CGATGTGATGAATGTGAAAGTGTATATACGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
66 CGATGTGATGAATGTGAAAGTATATATACGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
55778523 AGTGTATAAATGTGATAAGTCCCGAAGGGCATTTGTGTCAGTACTATATCCGGGTTAAAACCCCG
131 AGTGTATAAATGTGATAAGTCCCGAAGGGCATTTGTGTCAGTACTATATCCGGGTTAAAACCCCG
55778588 CAGGCTTTATGCGAGAATATTATCACTGATTAATGTCCATAAGCTTCGTGCTCGTACTATATCCG
196 CAGGCTTTATGCGAGAATATTATCACTGATTAATGTCCATAAGCTTCGTGCTCGTACTATATCCG
55778653 AGCTCTAAAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGTAAGC
261 AGCTCTAAAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGTAAGC
* *
55778701 GTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGC
1 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATACGTGATAAGGCCTAATGGC
*
55778766 CGATGTGATGAATGTGAAAGTATATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
66 CGATGTGATGAATGTGAAAGTATATATACGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
55778831 AGTGTATAAATGTGATAAGTCCCGAAGGGCATTTGTGTCAGTACTATATCCGGGTTAAAACCCCG
131 AGTGTATAAATGTGATAAGTCCCGAAGGGCATTTGTGTCAGTACTATATCCGGGTTAAAACCCCG
55778896 CAGGCTTTATGCGAGAATATTATCACTGATTAATGTCCATAAGCTTCGTGCTCGTACTATATCCG
196 CAGGCTTTATGCGAGAATATTATCACTGATTAATGTCCATAAGCTTCGTGCTCGTACTATATCCG
55778961 AGCTCTAAAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGTAAG
261 AGCTCTAAAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGTAAG
55779008 ACCCGATAAC
Statistics
Matches: 302, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
308 302 1.00
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (308 bp):
GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATACGTGATAAGGCCTAATGGC
CGATGTGATGAATGTGAAAGTATATATACGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
AGTGTATAAATGTGATAAGTCCCGAAGGGCATTTGTGTCAGTACTATATCCGGGTTAAAACCCCG
CAGGCTTTATGCGAGAATATTATCACTGATTAATGTCCATAAGCTTCGTGCTCGTACTATATCCG
AGCTCTAAAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGTAAGC
Found at i:55779024 original size:37 final size:37
Alignment explanation
Indices: 55778968--55779046 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
55778958 CCGAGCTCTA
* * *
55778968 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
55779005 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
55779042 AAGAC
1 AAGAC
55779047 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:55784901 original size:50 final size:50
Alignment explanation
Indices: 55784842--55784939 Score: 178
Period size: 50 Copynumber: 2.0 Consensus size: 50
55784832 AGATTAAAAA
*
55784842 ATTAAGAATAGAAAATTCCAGTTAACTTTATAATCTCTCGATTTTTTTCT
1 ATTAAGAATAGAAAATTCCAATTAACTTTATAATCTCTCGATTTTTTTCT
*
55784892 ATTAAGAATAGAAAATTCCAATTAACTTTGTAATCTCTCGATTTTTTT
1 ATTAAGAATAGAAAATTCCAATTAACTTTATAATCTCTCGATTTTTTT
55784940 ATTGATCCTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.44
Consensus pattern (50 bp):
ATTAAGAATAGAAAATTCCAATTAACTTTATAATCTCTCGATTTTTTTCT
Found at i:55787243 original size:21 final size:20
Alignment explanation
Indices: 55787214--55787252 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
55787204 ACACCTACGA
55787214 AAAGATCGCTTGGATTTAAG
1 AAAGATCGCTTGGATTTAAG
55787234 AAAGAGTCGCTTGGATTTA
1 AAAGA-TCGCTTGGATTTA
55787253 TCCATGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.31
Consensus pattern (20 bp):
AAAGATCGCTTGGATTTAAG
Found at i:55789933 original size:14 final size:14
Alignment explanation
Indices: 55789914--55789942 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
55789904 CATATTTACC
55789914 TTCGATCAATATTA
1 TTCGATCAATATTA
55789928 TTCGATCAATATTA
1 TTCGATCAATATTA
55789942 T
1 T
55789943 CTTTATCTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.14, G:0.07, T:0.45
Consensus pattern (14 bp):
TTCGATCAATATTA
Found at i:55790052 original size:21 final size:20
Alignment explanation
Indices: 55790020--55790058 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
55790010 ACTCCTACGA
*
55790020 AAAGATCGCTTGGATTTAAG
1 AAAGATCACTTGGATTTAAG
55790040 AAAGAGTCACTTGGATTTA
1 AAAGA-TCACTTGGATTTA
55790059 TCCATGATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.36, C:0.10, G:0.23, T:0.31
Consensus pattern (20 bp):
AAAGATCACTTGGATTTAAG
Found at i:55790140 original size:73 final size:73
Alignment explanation
Indices: 55790049--55790195 Score: 276
Period size: 73 Copynumber: 2.0 Consensus size: 73
55790039 GAAAGAGTCA
*
55790049 CTTGGATTTATCCATGATTTCTTTATTCCTTATTTCTAAAAAGAATCCTATCCCTATTTCTATTT
1 CTTGGATTTATCCATGATTTCTTTATTCCTTATTTCTAAAAAGAATCCTATCCCTATCTCTATTT
55790114 CTAAAATC
66 CTAAAATC
*
55790122 CTTGGATTTATCCATGATTTCTTTATTCCTTATTTCTAAAAAGAATTCTATCCCTATCTCTATTT
1 CTTGGATTTATCCATGATTTCTTTATTCCTTATTTCTAAAAAGAATCCTATCCCTATCTCTATTT
55790187 CTAAAATC
66 CTAAAATC
55790195 C
1 C
55790196 AATTTTGAAA
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 72 1.00
ACGTcount: A:0.27, C:0.21, G:0.05, T:0.46
Consensus pattern (73 bp):
CTTGGATTTATCCATGATTTCTTTATTCCTTATTTCTAAAAAGAATCCTATCCCTATCTCTATTT
CTAAAATC
Found at i:55790270 original size:20 final size:20
Alignment explanation
Indices: 55790245--55790283 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
55790235 AGGATTTGGT
*
55790245 TTGTTTATTTTATTATTATA
1 TTGTTTATTTTAGTATTATA
55790265 TTGTTTATTTTAGTATTAT
1 TTGTTTATTTTAGTATTAT
55790284 TTATCATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (20 bp):
TTGTTTATTTTAGTATTATA
Found at i:55790326 original size:16 final size:15
Alignment explanation
Indices: 55790295--55790361 Score: 54
Period size: 16 Copynumber: 4.6 Consensus size: 15
55790285 TATCATTTCA
55790295 ATATATAATTTAAAT
1 ATATATAATTTAAAT
*
55790310 ATATATAAATTTTAAT
1 ATATAT-AATTTAAAT
55790326 ATAT-TAA--TAATAT
1 ATATATAATTTAA-AT
*
55790339 ATAAATAATATT-AAT
1 ATATATAAT-TTAAAT
55790354 A-ATATAAT
1 ATATATAAT
55790362 AATACAGAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 13
0.71 0.07 0.22
Matches are distributed among these distances:
12 2 0.05
13 5 0.12
14 11 0.26
15 10 0.24
16 13 0.31
17 1 0.02
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATATATAATTTAAAT
Found at i:55790338 original size:11 final size:11
Alignment explanation
Indices: 55790322--55790365 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
55790312 ATATAAATTT
55790322 TAATATATTAA
1 TAATATATTAA
*
55790333 TAATATATAAA
1 TAATATATTAA
55790344 T-A-ATATTAA
1 TAATATATTAA
*
55790353 TAATATAATAA
1 TAATATATTAA
55790364 TA
1 TA
55790366 CAGAAAGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
9 7 0.25
10 2 0.07
11 19 0.68
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
TAATATATTAA
Found at i:55790365 original size:20 final size:19
Alignment explanation
Indices: 55790322--55790365 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
55790312 ATATAAATTT
55790322 TAAT-ATATTAATAATATA
1 TAATAATATTAATAATATA
55790340 TAAATAATATTAATAATATAA
1 T-AATAATATTAATAATAT-A
55790361 TAATA
1 TAATA
55790366 CAGAAAGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 1 0.04
19 3 0.13
20 17 0.74
21 2 0.09
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
TAATAATATTAATAATATA
Found at i:55796421 original size:22 final size:22
Alignment explanation
Indices: 55796395--55796438 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
55796385 TTATCTCTTT
55796395 TGATTGAAAAGGAGCAATAAAA
1 TGATTGAAAAGGAGCAATAAAA
*
55796417 TGATTGAAAATGAGCAATAAAA
1 TGATTGAAAAGGAGCAATAAAA
55796439 AAATCGAGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.55, C:0.05, G:0.20, T:0.20
Consensus pattern (22 bp):
TGATTGAAAAGGAGCAATAAAA
Found at i:55798687 original size:21 final size:21
Alignment explanation
Indices: 55798663--55798706 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
55798653 ACGACCTAAT
*
55798663 TAAATAGAAAGGATA-ATTAAA
1 TAAATA-AAAGGATACAATAAA
*
55798684 TAAATAAAATGATACAATAAA
1 TAAATAAAAGGATACAATAAA
55798705 TA
1 TA
55798707 CTAAAGATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.64, C:0.02, G:0.09, T:0.25
Consensus pattern (21 bp):
TAAATAAAAGGATACAATAAA
Found at i:55800821 original size:22 final size:22
Alignment explanation
Indices: 55800795--55800838 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
55800785 TTATCTCTTT
55800795 TGATTGAAAAGGAGCAATAAAA
1 TGATTGAAAAGGAGCAATAAAA
55800817 TGATTGAAAAGGAGCAATAAAA
1 TGATTGAAAAGGAGCAATAAAA
55800839 AAATCGAGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.55, C:0.05, G:0.23, T:0.18
Consensus pattern (22 bp):
TGATTGAAAAGGAGCAATAAAA
Found at i:55802663 original size:25 final size:20
Alignment explanation
Indices: 55802617--55802654 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
55802607 AAAATGTAAT
55802617 AAAATAAATCAAGACATAAG
1 AAAATAAATCAAGACATAAG
55802637 AAAATAAATCAAGACATA
1 AAAATAAATCAAGACATA
55802655 TTTTTAGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.66, C:0.11, G:0.08, T:0.16
Consensus pattern (20 bp):
AAAATAAATCAAGACATAAG
Found at i:55803094 original size:21 final size:21
Alignment explanation
Indices: 55803070--55803113 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
55803060 ACGACCTAAT
*
55803070 TAAATAGAAAGGATA-ATTAAA
1 TAAATA-AAAGGATACAATAAA
*
55803091 TAAATAAAATGATACAATAAA
1 TAAATAAAAGGATACAATAAA
55803112 TA
1 TA
55803114 CTAAAGATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.64, C:0.02, G:0.09, T:0.25
Consensus pattern (21 bp):
TAAATAAAAGGATACAATAAA
Found at i:55812653 original size:22 final size:22
Alignment explanation
Indices: 55812604--55812655 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
55812594 AACCTTTGCT
* *
55812604 TCGAGACATTGTCTCTAGGATC
1 TCGAGACATGGTCTCAAGGATC
55812626 TCGAGACATGGTCTCCAAGG-TC
1 TCGAGACATGGTCT-CAAGGATC
*
55812648 TTGAGACA
1 TCGAGACA
55812656 AGATTTCTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 22 0.85
23 4 0.15
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (22 bp):
TCGAGACATGGTCTCAAGGATC
Found at i:55813529 original size:73 final size:71
Alignment explanation
Indices: 55813451--55813607 Score: 183
Period size: 73 Copynumber: 2.2 Consensus size: 71
55813441 TAATTTAGAA
* * * * *
55813451 TTAGAATTTAAAATTTTAGGATTTAATATGTTTAATTAGATTTTAA-TTTAGGTTAGATTCATTT
1 TTAGAATTTAAAATTTTAAGATTTAATAAGTTTAATTAGATTTTAACTTGAAGTTAGA--C-TTA
55813515 TTTTTAGTC
63 TTTTTAGTC
** *
55813524 TTAGAATATT-AAATTTTAAGATTTCTTAAGTTTCATTAGATTTTAACTTGAAGTTAGACTTATT
1 TTAGAAT-TTAAAATTTTAAGATTTAATAAGTTTAATTAGATTTTAACTTGAAGTTAGACTTATT
55813588 TTTAGTC
65 TTTAGTC
*
55813595 ATAGAATTTAAAA
1 TTAGAATTTAAAA
55813608 CTTAGAATTT
Statistics
Matches: 72, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
70 2 0.03
71 20 0.28
72 1 0.01
73 38 0.53
74 11 0.15
ACGTcount: A:0.34, C:0.04, G:0.11, T:0.50
Consensus pattern (71 bp):
TTAGAATTTAAAATTTTAAGATTTAATAAGTTTAATTAGATTTTAACTTGAAGTTAGACTTATTT
TTAGTC
Found at i:55813933 original size:54 final size:54
Alignment explanation
Indices: 55813868--55813976 Score: 202
Period size: 54 Copynumber: 2.0 Consensus size: 54
55813858 AGCTTACGAG
55813868 CTAAACCTTAGCTCAACTTCAGCTTAGGAGTTTAATCTCAGCT-AAGCTTTAGCT
1 CTAAACCTTAGCTCAACTTCAGCTTAGGAGTTTAATCTCAGCTCAA-CTTTAGCT
55813922 CTAAACCTTAGCTCAACTTCAGCTTAGGAGTTTAATCTCAGCTCAACTTTAGCT
1 CTAAACCTTAGCTCAACTTCAGCTTAGGAGTTTAATCTCAGCTCAACTTTAGCT
55813976 C
1 C
55813977 ACGAGCTAAA
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
54 52 0.96
55 2 0.04
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (54 bp):
CTAAACCTTAGCTCAACTTCAGCTTAGGAGTTTAATCTCAGCTCAACTTTAGCT
Found at i:55813995 original size:30 final size:30
Alignment explanation
Indices: 55813922--55813996 Score: 78
Period size: 30 Copynumber: 2.5 Consensus size: 30
55813912 AGCTTTAGCT
* *
55813922 CTAAACCTTAGCTCAACTTCAGCTTAGGAG
1 CTAAACCTTAGCTCAACTTCAGCTCACGAG
* * * * *
55813952 TTTAATCTCAGCTCAACTTTAGCTCACGAG
1 CTAAACCTTAGCTCAACTTCAGCTCACGAG
*
55813982 CTAAAGCTTAGCTCA
1 CTAAACCTTAGCTCA
55813997 TTTTAGTTTA
Statistics
Matches: 34, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (30 bp):
CTAAACCTTAGCTCAACTTCAGCTCACGAG
Found at i:55814498 original size:13 final size:13
Alignment explanation
Indices: 55814480--55814504 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55814470 GTATTGATCA
55814480 TGTGTTCACACCT
1 TGTGTTCACACCT
55814493 TGTGTTCACACC
1 TGTGTTCACACC
55814505 ATGATGACCA
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:0.16, C:0.32, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTGTTCACACCT
Found at i:55823059 original size:30 final size:30
Alignment explanation
Indices: 55823024--55823088 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
55823014 TGACTCAGTC
* *
55823024 GTGTGAGCCACATGGCCTAGCGACACAGCT
1 GTGTGAGCCACATGACCTAGCAACACAGCT
55823054 GTGTGAGCCACATGACCTAGCAACACAGCT
1 GTGTGAGCCACATGACCTAGCAACACAGCT
55823084 GTGTG
1 GTGTG
55823089 TCATTTGAGG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.25, C:0.28, G:0.29, T:0.18
Consensus pattern (30 bp):
GTGTGAGCCACATGACCTAGCAACACAGCT
Found at i:55824886 original size:105 final size:105
Alignment explanation
Indices: 55824696--55824888 Score: 228
Period size: 105 Copynumber: 1.8 Consensus size: 105
55824686 TGTCAGCTCG
* * * *
55824696 TGTGAAAACTTCACCTATACTGTTTTGAAACACATTCAGGATACACGCCCGTGTGGGTTGCCTGT
1 TGTGAAAACTTCACCTATACTGTTTTGAAACACACTCAGGACACACGCCCATGTGGGTTGCCAGT
* *** *
55824761 GCGTATCACATGGCCGTGTGACAATCTATGTCTTAGGCCA
66 GCGCATCACACAACCATGTGACAATCTATGTCTTAGGCCA
* * * *
55824801 TGTGAAAA-TTGCATCTATACTGTTTTGAAACACGCTCAGTG-CACACGTCCATGTGTGTTGCCA
1 TGTGAAAACTT-CACCTATACTGTTTTGAAACACACTCAG-GACACACGCCCATGTGGGTTGCCA
*
55824864 GTGTGCATCACACAACCATGTGACA
64 GTGCGCATCACACAACCATGTGACA
55824889 GCCCGTGTCC
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
104 2 0.03
105 69 0.96
106 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (105 bp):
TGTGAAAACTTCACCTATACTGTTTTGAAACACACTCAGGACACACGCCCATGTGGGTTGCCAGT
GCGCATCACACAACCATGTGACAATCTATGTCTTAGGCCA
Found at i:55825671 original size:39 final size:40
Alignment explanation
Indices: 55825609--55825718 Score: 172
Period size: 39 Copynumber: 2.8 Consensus size: 40
55825599 TTTGAGAAAC
*
55825609 TTTCAGTAGAA-CAAGTAGATATGGCTCGATAGAGCATA-T
1 TTTCAGTAGAATCAA-TAGGTATGGCTCGATAGAGCATACT
55825648 TTTCAGTAGAATCAATAGGTATGGCTCGATAGAGCATACT
1 TTTCAGTAGAATCAATAGGTATGGCTCGATAGAGCATACT
*
55825688 TTT-AGTAGAATCAGTAGGTATGGCTCGATAG
1 TTTCAGTAGAATCAATAGGTATGGCTCGATAG
55825719 TAGGTATCGT
Statistics
Matches: 67, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
39 60 0.90
40 7 0.10
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.30
Consensus pattern (40 bp):
TTTCAGTAGAATCAATAGGTATGGCTCGATAGAGCATACT
Found at i:55831662 original size:91 final size:91
Alignment explanation
Indices: 55831511--55831684 Score: 242
Period size: 91 Copynumber: 1.9 Consensus size: 91
55831501 ACATTCACAT
* * * *
55831511 ATTATTTGGCAACTTTTATTTGCAAAAATGTTGTGTATTCACAATCATCTGGCAGCGTATTAACT
1 ATTATTTGGCAACTTTGATATGCAAAAATGTTGTGTATTCACAATCATCTAGCAGCGTATTAACC
55831576 TGCAACCTTTGGTGGTTTGCCCACCC
66 TGCAACCTTTGGTGGTTTGCCCACCC
** * *
55831602 ATTATTTGGCAACTTTGATATGCAATTATGTTGTGTATTCACAA-CTGTCTAGCAGTGTATTAAC
1 ATTATTTGGCAACTTTGATATGCAAAAATGTTGTGTATTCACAATC-ATCTAGCAGCGTATTAAC
* *
55831666 CTGCATCTTTTGGTGGTTT
65 CTGCAACCTTTGGTGGTTT
55831685 ATCCACAAAC
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
90 1 0.01
91 71 0.99
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.40
Consensus pattern (91 bp):
ATTATTTGGCAACTTTGATATGCAAAAATGTTGTGTATTCACAATCATCTAGCAGCGTATTAACC
TGCAACCTTTGGTGGTTTGCCCACCC
Found at i:55833304 original size:12 final size:12
Alignment explanation
Indices: 55833287--55833312 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
55833277 CATTCCAAAG
55833287 TATATATATACA
1 TATATATATACA
55833299 TATATATATACA
1 TATATATATACA
55833311 TA
1 TA
55833313 AGTATGCCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TATATATATACA
Found at i:55833828 original size:27 final size:27
Alignment explanation
Indices: 55833797--55833974 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
55833787 TAAATTGTAC
55833797 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
55833824 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
55833850 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
55833878 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
55833906 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
55833933 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
55833960 AGCATTGAGTGTGCG
1 AGCACTAAGTGTGCG
55833975 GACTCAATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:55833911 original size:82 final size:81
Alignment explanation
Indices: 55833798--55833953 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
55833788 AAATTGTACA
* *
55833798 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
55833862 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
55833879 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
55833944 TGCGAGTTGA
65 TGCGAATTGA
55833954 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:55836762 original size:12 final size:12
Alignment explanation
Indices: 55836745--55836769 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
55836735 GCTCAAAGGG
55836745 CAAATAGGGTTC
1 CAAATAGGGTTC
55836757 CAAATAGGGTTC
1 CAAATAGGGTTC
55836769 C
1 C
55836770 TAACCTGACA
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:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (12 bp):
CAAATAGGGTTC
Found at i:55841671 original size:34 final size:34
Alignment explanation
Indices: 55841630--55841779 Score: 239
Period size: 34 Copynumber: 4.4 Consensus size: 34
55841620 TATTATACTT
* *
55841630 GGTGTGCTGGATGGACTGGCTCATACGAGCATAC
1 GGTGTGCTGGATGGATTGGCTCATACGAGCTTAC
55841664 GAG-GTGCTGGATGGATTGGCTCATACGAGCTTAC
1 G-GTGTGCTGGATGGATTGGCTCATACGAGCTTAC
55841698 GGTGTGCTGGATGGATTGGCTCATACGAGCTTAC
1 GGTGTGCTGGATGGATTGGCTCATACGAGCTTAC
* * *
55841732 TGTGTGCTGGATGGATTGGCTCATATGAGTTTAC
1 GGTGTGCTGGATGGATTGGCTCATACGAGCTTAC
55841766 GGTGTGCTGGATGG
1 GGTGTGCTGGATGG
55841780 CTAATGGCAT
Statistics
Matches: 108, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
33 1 0.01
34 106 0.98
35 1 0.01
ACGTcount: A:0.18, C:0.16, G:0.37, T:0.29
Consensus pattern (34 bp):
GGTGTGCTGGATGGATTGGCTCATACGAGCTTAC
Found at i:55843160 original size:46 final size:45
Alignment explanation
Indices: 55843107--55843422 Score: 165
Period size: 49 Copynumber: 6.6 Consensus size: 45
55843097 TATGTGTGCT
*
55843107 AGTGTAAGATATGTCTGGGACATGCATCAGCCACATATTGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-GCCACATATTGAGAGCC
* * * * ***
55843153 AGTGTAAGACATGTTTGGGACAAGCATTGGCCTCGATATATTCCAGCC
1 AGTGTAAGACATGTCTGGGACATGCA-TCGCCAC-ATAT-TGAGAGCC
* * * * *
55843201 AGTGTAAGACATGTCTAGGACATGCATCGGCATTCAGA-CGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGCCA--CATATTGAGAGCC
* ** *
55843247 AGTGTAAGACATGTCTGGGACATGCATCGGCCTTAAGATATACA-AGCT
1 AGTGTAAGACATGTCTGGGACATGCATC-GCC---ACATATTGAGAGCC
* * *
55843295 AGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATGGA-TGAAAGCC
1 AGTGTAAGACATGTCTGGGACAT-GCATCGCCA-C-AT--ATTGAGAGCC
* * ** *
55843344 AGTGTAAGACCTATCTGGGATGCA-GCATCGGCTTCGATATATG-GAAGTC
1 AGTGTAAGACATGTCTGGGA--CATGCATC-GCCAC-ATAT-TGAG-AGCC
*
55843393 AGTGTAAGACCTGTCTGGGACATGGCATCG
1 AGTGTAAGACATGTCTGGGACAT-GCATCG
55843423 ACTTTGATGT
Statistics
Matches: 207, Mismatches: 39, Indels: 46
0.71 0.13 0.16
Matches are distributed among these distances:
45 1 0.00
46 57 0.28
47 15 0.07
48 62 0.30
49 68 0.33
50 2 0.01
51 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGCCACATATTGAGAGCC
Found at i:55843268 original size:94 final size:93
Alignment explanation
Indices: 55843107--55843422 Score: 276
Period size: 94 Copynumber: 3.3 Consensus size: 93
55843097 TATGTGTGCT
* * * *
55843107 AGTGTAAGATATGTCTGGGACATGCATCAGCCACATATTGAGAGCCAGTGTAAGACATGTTTGGG
1 AGTGTAAGACATGTCTGGGACATGCATC-GCCACAGATCGAGAGCCAGTGTAAGACATGTCTGGG
* * * * *
55843172 ACAAGCATTGGCCTCGATATATTCCAGCC
65 ACAAGCATCGGCCTCAAGATATACAAGCC
* * *
55843201 AGTGTAAGACATGTCTAGGACATGCATCGGCATTCAGA-CGAGAGCTAGTGTAAGACATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGCCA--CAGATCGAGAGCCAGTGTAAGACATGTCTGG
* * *
55843265 GACATGCATCGGCCTTAAGATATACAAGCT
64 GACAAGCATCGGCCTCAAGATATACAAGCC
* * * * * *
55843295 AGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATGGATGAAAGCCAGTGTAAGACCTATCT
1 AGTGTAAGACATGTCTGGGACAT-GCATCGCCACAGATCGA-G--AGCCAGTGTAAGACATGTCT
* * * ** *
55843360 GGGATGC-AGCATCGGCTTCGATATATGGAAGTC
62 GGGA--CAAGCATCGGCCTCAAGATATACAAGCC
*
55843393 AGTGTAAGACCTGTCTGGGACATGGCATCG
1 AGTGTAAGACATGTCTGGGACAT-GCATCG
55843423 ACTTTGATGT
Statistics
Matches: 181, Mismatches: 32, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
93 6 0.03
94 94 0.52
95 12 0.07
97 21 0.12
98 47 0.26
99 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (93 bp):
AGTGTAAGACATGTCTGGGACATGCATCGCCACAGATCGAGAGCCAGTGTAAGACATGTCTGGGA
CAAGCATCGGCCTCAAGATATACAAGCC
Found at i:55846313 original size:42 final size:42
Alignment explanation
Indices: 55846266--55846400 Score: 114
Period size: 41 Copynumber: 3.2 Consensus size: 42
55846256 TTGGCAATAA
*
55846266 GCCTGCTAGACCTTTAAGTCTGATATCATTTATCGGCATTAC
1 GCCTGCTAGACCTTTAAGTCTGATATCATTTATCAGCATTAC
* ** * * * * *
55846308 GCCTGCTAG-GCTCGAAGCCCGATAAT-ATTCACCAGC-TTAAA
1 GCCTGCTAGACCTTTAAGTCTGAT-ATCATTTATCAGCATT-AC
* *
55846349 GCTTGCTAGACCTTTAAGTCTGATATCATTTCATTAGCATTAC
1 GCCTGCTAGACCTTTAAGTCTGATATCATTT-ATCAGCATTAC
*
55846392 GCCTACTAG
1 GCCTGCTAG
55846401 GCTCAAAGCC
Statistics
Matches: 66, Mismatches: 21, Indels: 11
0.67 0.21 0.11
Matches are distributed among these distances:
40 2 0.03
41 27 0.41
42 23 0.35
43 12 0.18
44 2 0.03
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (42 bp):
GCCTGCTAGACCTTTAAGTCTGATATCATTTATCAGCATTAC
Found at i:55846440 original size:84 final size:83
Alignment explanation
Indices: 55846264--55846441 Score: 243
Period size: 84 Copynumber: 2.1 Consensus size: 83
55846254 CATTGGCAAT
* * *
55846264 AAGCCTGCTAGACCTTTAAGTCTGATATCATTTATCGGCATTACGCCTGCTAGGCTCGAAGCCCG
1 AAGCCTGCTAGACCTTTAAGTCTGATATCATTTATCAGCATTACGCCTACTAGGCTCAAAGCCCG
**
55846329 ATAATATTCACCAGCTTA
66 ATAATATTCACCAGCACA
* *
55846347 AAGCTTGCTAGACCTTTAAGTCTGATATCATTTCATTAGCATTACGCCTACTAGGCTCAAAGCCC
1 AAGCCTGCTAGACCTTTAAGTCTGATATCATTT-ATCAGCATTACGCCTACTAGGCTCAAAGCCC
55846412 GA-AAT-TCATCACCAGCACA
65 GATAATAT--TCACCAGCACA
*
55846431 AGGCCTGCTAG
1 AAGCCTGCTAG
55846442 GTTTGAACCC
Statistics
Matches: 83, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
82 1 0.01
83 35 0.42
84 47 0.57
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (83 bp):
AAGCCTGCTAGACCTTTAAGTCTGATATCATTTATCAGCATTACGCCTACTAGGCTCAAAGCCCG
ATAATATTCACCAGCACA
Found at i:55848316 original size:14 final size:15
Alignment explanation
Indices: 55848287--55848316 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
55848277 CAAAATTAAG
55848287 ACATGATACTTTCAC
1 ACATGATACTTTCAC
55848302 ACATGATAC-TTCAC
1 ACATGATACTTTCAC
55848316 A
1 A
55848317 TATAATAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (15 bp):
ACATGATACTTTCAC
Found at i:55851517 original size:41 final size:41
Alignment explanation
Indices: 55851428--55851517 Score: 108
Period size: 41 Copynumber: 2.2 Consensus size: 41
55851418 GCTGCGACAT
* *
55851428 GGGCGTGTCATGGCCGTGTAAGGGACATGGGATATAGATAC
1 GGGCGTGTCATGGCCATGTAAGGGACACGGGATATAGATAC
** * * * *
55851469 GTACGTGTTATGTCCATGTGAGGGACACGGGCTATAGATAC
1 GGGCGTGTCATGGCCATGTAAGGGACACGGGATATAGATAC
55851510 GGGCGTGT
1 GGGCGTGT
55851518 GCCCAGCTGT
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.22, C:0.16, G:0.38, T:0.24
Consensus pattern (41 bp):
GGGCGTGTCATGGCCATGTAAGGGACACGGGATATAGATAC
Found at i:55852554 original size:24 final size:24
Alignment explanation
Indices: 55852522--55852570 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
55852512 CTTGAATTTG
55852522 GTCATTGTTGGGCCCACACGGCTT
1 GTCATTGTTGGGCCCACACGGCTT
*
55852546 GTCATTGTTGGGCCCACATGGCTT
1 GTCATTGTTGGGCCCACACGGCTT
55852570 G
1 G
55852571 GGACACGAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.12, C:0.27, G:0.31, T:0.31
Consensus pattern (24 bp):
GTCATTGTTGGGCCCACACGGCTT
Found at i:55856504 original size:46 final size:46
Alignment explanation
Indices: 55856454--55856629 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
55856444 TGGTTGAGCA
55856454 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
55856500 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
55856545 CATCCGAACTCGTTGAGTTGAGTTCGAGTTCACCTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
55856593 CCCGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
55856630 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 17, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 60 0.58
47 28 0.27
48 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:55856610 original size:93 final size:93
Alignment explanation
Indices: 55856451--55856622 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
55856441 GGATGGTTGA
* * * *
55856451 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCATTGAGT
55856516 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
55856544 GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACCTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCATTGAGT
55856609 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
55856623 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:55859592 original size:15 final size:15
Alignment explanation
Indices: 55859553--55859632 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
55859543 GTATCTTGGG
*
55859553 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
55859568 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
55859583 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
55859598 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
55859613 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
55859627 TTTCTT
1 TTTCTT
55859633 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 10 0.19
15 41 0.77
16 2 0.04
ACGTcount: A:0.10, C:0.19, G:0.14, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:55859622 original size:30 final size:30
Alignment explanation
Indices: 55859544--55859631 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
55859534 CATAGTATCG
* * *
55859544 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCC-GGATTTCTC
*
55859574 TAT-TCTGGATTTCTTTATTCCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCCGGATTTCTC
*
55859604 TATCTTGGATTTCTTTATT-CGGTTTTCT
1 TATCTTGGATTTCTTTATTCCGGATTTCT
55859632 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 9 0.18
30 37 0.74
31 4 0.08
ACGTcount: A:0.10, C:0.18, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCCGGATTTCTC
Found at i:55861877 original size:28 final size:26
Alignment explanation
Indices: 55861822--55861909 Score: 131
Period size: 27 Copynumber: 3.3 Consensus size: 26
55861812 AGCATGGCTG
* *
55861822 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
55861848 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
55861876 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
55861903 CCAGAAC
1 CCAGAAC
55861910 GCTTCCTCCA
Statistics
Matches: 57, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
26 5 0.09
27 35 0.61
28 17 0.30
ACGTcount: A:0.39, C:0.24, G:0.24, T:0.14
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:55862039 original size:26 final size:27
Alignment explanation
Indices: 55862010--55862085 Score: 100
Period size: 26 Copynumber: 2.8 Consensus size: 27
55862000 CAAAATTAAC
*
55862010 CCTAGGGGTATAACAGTAATTTTGC-A
1 CCTAGGGGTATAACAGTAATTTTCCAA
55862036 CCTAGGGGTATAACAGTAATTTTCCATA
1 CCTAGGGGTATAACAGTAATTTTCCA-A
* * *
55862064 CATAGGGGTATTATAGTAATTT
1 CCTAGGGGTATAACAGTAATTT
55862086 AGCTACTTTC
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 24 0.55
28 20 0.45
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (27 bp):
CCTAGGGGTATAACAGTAATTTTCCAA
Found at i:55863557 original size:26 final size:26
Alignment explanation
Indices: 55863528--55863611 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
55863518 CATGAAATTC
55863528 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
55863554 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
55863580 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
55863606 TTATCA
1 TTATCA
55863612 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:55864162 original size:68 final size:68
Alignment explanation
Indices: 55864077--55864233 Score: 185
Period size: 68 Copynumber: 2.3 Consensus size: 68
55864067 CTTAAAATTA
* * *
55864077 AGCTGT-TCGAATGTGTTAGATTCACTATTCAAAGCA-TCATCATTTATGCTGTTTTATTTGGTA
1 AGCTGTCT-GAATGTGTTAGATTCACTATTCAAAGCACT-ACCATATATGCTGTTTTATTTAGTA
55864140 AATGT
64 AATGT
* * * * *
55864145 AGCTGTCTGAATGTGTTAAATTCATTGTTCGATGCACTACCATATATGCTGTTTTATTTAGTAAA
1 AGCTGTCTGAATGTGTTAGATTCACTATTCAAAGCACTACCATATATGCTGTTTTATTTAGTAAA
55864210 TGT
66 TGT
* *
55864213 AGCTGTCCGAATCTGTT-GATT
1 AGCTGTCTGAATGTGTTAGATT
55864234 TCACAATTAA
Statistics
Matches: 76, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
67 3 0.04
68 71 0.93
69 2 0.03
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.42
Consensus pattern (68 bp):
AGCTGTCTGAATGTGTTAGATTCACTATTCAAAGCACTACCATATATGCTGTTTTATTTAGTAAA
TGT
Found at i:55870876 original size:84 final size:84
Alignment explanation
Indices: 55870761--55870930 Score: 304
Period size: 84 Copynumber: 2.0 Consensus size: 84
55870751 ATCTTCTTTA
* *
55870761 AGCTCAAGAGCAAAGGGGAACTAAATCCGATAAGGGGAAGGAAAAAGTAATTGAATAGCCATTGA
1 AGCTCAAGAGCAAAGGGGAACTAAATCCGATAAAGGGAAGGAAAAAGTAATTCAATAGCCATTGA
55870826 AGTCGTTCGACAACATCCG
66 AGTCGTTCGACAACATCCG
55870845 AGCTCAAGAGCAAAGGGGAACTAAATCCGATAAAGGGAAGGAAAAAGTAATTCAATAGCCATTGA
1 AGCTCAAGAGCAAAGGGGAACTAAATCCGATAAAGGGAAGGAAAAAGTAATTCAATAGCCATTGA
* *
55870910 AGTTGTTCGATAACATCCG
66 AGTCGTTCGACAACATCCG
55870929 AG
1 AG
55870931 GTAAGTCTTC
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
84 82 1.00
ACGTcount: A:0.41, C:0.16, G:0.25, T:0.18
Consensus pattern (84 bp):
AGCTCAAGAGCAAAGGGGAACTAAATCCGATAAAGGGAAGGAAAAAGTAATTCAATAGCCATTGA
AGTCGTTCGACAACATCCG
Found at i:55871135 original size:39 final size:39
Alignment explanation
Indices: 55871092--55871170 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
55871082 AATAAATGTT
*
55871092 TTGTGTTTGAGCCTTAGTAACGAAAATGAAATATGGATG
1 TTGTGTTTGAGCCTTAGTAAAGAAAATGAAATATGGATG
55871131 TTGTGTTTGAGCCTTAGTAAAGAAAATGAAATATGGATG
1 TTGTGTTTGAGCCTTAGTAAAGAAAATGAAATATGGATG
55871170 T
1 T
55871171 GTCATGATTA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.34, C:0.06, G:0.25, T:0.34
Consensus pattern (39 bp):
TTGTGTTTGAGCCTTAGTAAAGAAAATGAAATATGGATG
Found at i:55871267 original size:40 final size:40
Alignment explanation
Indices: 55871211--55871422 Score: 259
Period size: 40 Copynumber: 5.3 Consensus size: 40
55871201 CATTTGAATG
* *
55871211 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * *
55871251 TTATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * *
55871291 TTATCCAGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
*
55871331 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * * * *
55871371 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
55871411 ATATCC-GGCTAA
1 ATATCCGGGCTAA
55871423 ATTCCGAAGA
Statistics
Matches: 155, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
39 7 0.05
40 145 0.94
41 3 0.02
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:55875395 original size:60 final size:60
Alignment explanation
Indices: 55875302--55875421 Score: 213
Period size: 60 Copynumber: 2.0 Consensus size: 60
55875292 GACCGAACAT
* * *
55875302 GCTGAGCACCTGAGATTAGTGTTGCAAATTTTACGGGATAAGCAGTTATATGCTAAGTTC
1 GCTGAGCACCTGAGATTAATGTTGCAAATTTTACGGGAAAAGCAGTTATATACTAAGTTC
55875362 GCTGAGCACCTGAGATTAATGTTGCAAATTTTACGGGAAAAGCAGTTATATACTAAGTTC
1 GCTGAGCACCTGAGATTAATGTTGCAAATTTTACGGGAAAAGCAGTTATATACTAAGTTC
55875422 AGTAAGTGTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (60 bp):
GCTGAGCACCTGAGATTAATGTTGCAAATTTTACGGGAAAAGCAGTTATATACTAAGTTC
Found at i:55879538 original size:40 final size:40
Alignment explanation
Indices: 55879479--55879697 Score: 291
Period size: 40 Copynumber: 5.5 Consensus size: 40
55879469 CATTTGAATG
* * *
55879479 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
*
55879519 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATT
*
55879559 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATT
** * * *
55879599 ATCCCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
*
55879639 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATT
55879679 ATATCCGGGCTAAGACCCG
1 ATATCCGGGCTAAGACCCG
55879698 TTTTGTTGGC
Statistics
Matches: 157, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
39 2 0.01
40 149 0.95
41 6 0.04
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
Found at i:55889228 original size:17 final size:17
Alignment explanation
Indices: 55889206--55889264 Score: 70
Period size: 17 Copynumber: 3.6 Consensus size: 17
55889196 GTTTACTCGT
55889206 GTGGGGCCCACGAGCCC
1 GTGGGGCCCACGAGCCC
* *
55889223 GTGGGGTCCAC-AG--T
1 GTGGGGCCCACGAGCCC
*
55889237 GTAGGGCCCACGAGCCC
1 GTGGGGCCCACGAGCCC
55889254 GTGGGGCCCAC
1 GTGGGGCCCAC
55889265 ACGACCCATT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
14 9 0.27
15 2 0.06
16 2 0.06
17 20 0.61
ACGTcount: A:0.14, C:0.36, G:0.41, T:0.10
Consensus pattern (17 bp):
GTGGGGCCCACGAGCCC
Found at i:55889244 original size:31 final size:31
Alignment explanation
Indices: 55889204--55889265 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
55889194 TGGTTTACTC
* *
55889204 GTGTGGGGCCCACGAGCCCGTGGGGTCCACA
1 GTGTAGGGCCCACGAGCCCGTGGGGCCCACA
55889235 GTGTAGGGCCCACGAGCCCGTGGGGCCCACA
1 GTGTAGGGCCCACGAGCCCGTGGGGCCCACA
55889266 CGACCCATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.15, C:0.34, G:0.40, T:0.11
Consensus pattern (31 bp):
GTGTAGGGCCCACGAGCCCGTGGGGCCCACA
Found at i:55896404 original size:39 final size:40
Alignment explanation
Indices: 55896301--55896562 Score: 328
Period size: 39 Copynumber: 6.7 Consensus size: 40
55896291 GCGAATGATG
*
55896301 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
55896339 ATCCGGACTAAGAT-CCAAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
55896380 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
55896419 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
55896458 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
55896497 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
55896536 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
55896563 AACGAGTAGC
Statistics
Matches: 201, Mismatches: 13, Indels: 17
0.87 0.06 0.07
Matches are distributed among these distances:
39 130 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:55896595 original size:79 final size:79
Alignment explanation
Indices: 55896356--55896587 Score: 276
Period size: 78 Copynumber: 2.9 Consensus size: 79
55896346 CTAAGATCCA
* ** * *
55896356 AAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAATTC
1 AAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAATC
* *
55896421 CGGGCT-AAGCCCG
66 CGGGTTAAATCCCG
* **
55896434 AAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATC
1 AAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAATC
*
55896499 CGGGTTAAGTCCCG
66 CGGGTTAAATCCCG
*
55896513 AAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTA
1 AAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CTA
*
55896575 TATCC-GGTTAAAT
62 AATCCGGGTTAAAT
55896588 TCTGAAGGTA
Statistics
Matches: 138, Mismatches: 11, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
78 71 0.51
79 42 0.30
80 25 0.18
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
AAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAATC
CGGGTTAAATCCCG
Found at i:55900874 original size:78 final size:78
Alignment explanation
Indices: 55900745--55900894 Score: 273
Period size: 78 Copynumber: 1.9 Consensus size: 78
55900735 TCACAACTCA
55900745 AAAATCAGTTTCGTAATTTTTCCCTGAAACTAGACTCATATGCCCATCTACATATTTTTTTCTAG
1 AAAATCAGTTTCGTAATTTTTCCCTGAAACTAGACTCATATGCCCATCTACATATTTTTTTCTAG
55900810 AATTTTTGGTCCG
66 AATTTTTGGTCCG
* * *
55900823 AAAATCAGTTTCGTAATTTTTTCCTGAAACTAGACTCGTATTCCCATCTACATATTTTTTTCTAG
1 AAAATCAGTTTCGTAATTTTTCCCTGAAACTAGACTCATATGCCCATCTACATATTTTTTTCTAG
55900888 AATTTTT
66 AATTTTT
55900895 TGTCTGGCCA
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 69 1.00
ACGTcount: A:0.27, C:0.19, G:0.10, T:0.43
Consensus pattern (78 bp):
AAAATCAGTTTCGTAATTTTTCCCTGAAACTAGACTCATATGCCCATCTACATATTTTTTTCTAG
AATTTTTGGTCCG
Found at i:55901460 original size:39 final size:40
Alignment explanation
Indices: 55901335--55901519 Score: 198
Period size: 40 Copynumber: 4.7 Consensus size: 40
55901325 GCTACTCGTT
*
55901335 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* * *
55901375 AAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTGGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
55901415 CCAATGCCTTTGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
55901454 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
55901495 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
55901520 CATCATTCGA
Statistics
Matches: 119, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 74 0.62
41 13 0.11
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:55901503 original size:79 final size:80
Alignment explanation
Indices: 55901335--55901519 Score: 198
Period size: 79 Copynumber: 2.3 Consensus size: 80
55901325 GCTACTCGTT
* *
55901335 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCAAAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCAAAAATGCCTTCGGGACTTAACCCG
* *
55901399 GATTTAGTAACTGGCAC
64 GATATAGTAACTAGCAC
* * * * **
55901416 CAATGCCTTTGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCAAAAATGCCTTCGGGA-CTTAACCCGG
* *
55901479 ATATGGTCACTTAGCA-
65 ATATAGTAAC-TAGCAC
55901495 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
55901520 CATCATTCGA
Statistics
Matches: 86, Mismatches: 14, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
78 3 0.03
79 56 0.65
80 24 0.28
81 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCAAAAATGCCTTCGGGACTTAACCCGGA
TATAGTAACTAGCAC
Found at i:55919722 original size:17 final size:17
Alignment explanation
Indices: 55919687--55919721 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
55919677 TTTCTCTCTA
*
55919687 TTCTTTTTTATTTCTTT
1 TTCTTTTTCATTTCTTT
55919704 TTCTTTTTCA-TTCTTT
1 TTCTTTTTCATTTCTTT
55919720 TT
1 TT
55919722 TACTTGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.80
Consensus pattern (17 bp):
TTCTTTTTCATTTCTTT
Found at i:55919737 original size:30 final size:27
Alignment explanation
Indices: 55919686--55919740 Score: 74
Period size: 30 Copynumber: 1.9 Consensus size: 27
55919676 TTTTCTCTCT
*
55919686 ATTCTTTTTTATTTCTTTTTCTTTTTC
1 ATTCTTTTTTATTTATTTTTCTTTTTC
55919713 ATTCTTTTTTACTTGTTATTTTTCTTTT
1 ATTCTTTTTTA--T-TTATTTTTCTTTT
55919741 GATTTTTCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 11 0.46
29 1 0.04
30 12 0.50
ACGTcount: A:0.09, C:0.13, G:0.02, T:0.76
Consensus pattern (27 bp):
ATTCTTTTTTATTTATTTTTCTTTTTC
Found at i:55930136 original size:21 final size:21
Alignment explanation
Indices: 55930110--55930149 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
55930100 AAATCTATCT
55930110 AAGAAGATTGGAACTTAAGCA
1 AAGAAGATTGGAACTTAAGCA
55930131 AAGAAGATTGGAACTTAAG
1 AAGAAGATTGGAACTTAAG
55930150 TAGGACCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.47, C:0.07, G:0.25, T:0.20
Consensus pattern (21 bp):
AAGAAGATTGGAACTTAAGCA
Found at i:55933106 original size:20 final size:20
Alignment explanation
Indices: 55933081--55933123 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
55933071 TACATTACAT
55933081 ATTTTCACCTAACTTTCCAC
1 ATTTTCACCTAACTTTCCAC
55933101 ATTTTCACCTAACTTTCCAC
1 ATTTTCACCTAACTTTCCAC
55933121 ATT
1 ATT
55933124 GACCAAACGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.26, C:0.33, G:0.00, T:0.42
Consensus pattern (20 bp):
ATTTTCACCTAACTTTCCAC
Done.