Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01009398.1 Kokia drynarioides strain JFW-HI SEQ_124105, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 247437
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Warning! 14 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:705 original size:23 final size:22
Alignment explanation
Indices: 675--751 Score: 93
Period size: 23 Copynumber: 3.4 Consensus size: 22
665 AGGCTAGCGC
675 GCTTACTGTTCAGTACTGT-GTGT
1 GCTTACTGTTC-GTACT-TCGTGT
698 GCTTACTGTTTCGTACTTCGTGT
1 GCTTACTG-TTCGTACTTCGTGT
*
721 GCTTACTGTTTCGCACTTCGTGT
1 GCTTACTG-TTCGTACTTCGTGT
*
744 GCCTACTG
1 GCTTACTG
752 ATTTGCGCTA
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
22 1 0.02
23 46 0.92
24 3 0.06
ACGTcount: A:0.10, C:0.23, G:0.23, T:0.43
Consensus pattern (22 bp):
GCTTACTGTTCGTACTTCGTGT
Found at i:804 original size:23 final size:23
Alignment explanation
Indices: 770--819 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
760 TATGTGCGCC
770 TACT-GATTGCACTGTGTGTGAT
1 TACTGGATTGCACTGTGTGTGAT
*
792 TACTGGATTGCACTGTGTGTGCT
1 TACTGGATTGCACTGTGTGTGAT
815 TACTG
1 TACTG
820 TTTCCCCAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 4 0.15
23 22 0.85
ACGTcount: A:0.16, C:0.16, G:0.28, T:0.40
Consensus pattern (23 bp):
TACTGGATTGCACTGTGTGTGAT
Found at i:819 original size:45 final size:46
Alignment explanation
Indices: 717--819 Score: 104
Period size: 45 Copynumber: 2.3 Consensus size: 46
707 TTCGTACTTC
* * *
717 GTGTGCTTACTGTTTCGCACTTCGTGTGCCTACTGATTTGCGCTAT
1 GTGTGCTTACTGATTCGCACTTCGTGTGACTACTGATTTGCACTAT
* * * *
763 GTGCGCCTACTGATT-GCACTGT-GTGTGATTACTGGA-TTGCACTGT
1 GTGTGCTTACTGATTCGCACT-TCGTGTGACTACT-GATTTGCACTAT
808 GTGTGCTTACTG
1 GTGTGCTTACTG
820 TTTCCCCAAC
Statistics
Matches: 46, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
45 31 0.67
46 15 0.33
ACGTcount: A:0.13, C:0.21, G:0.27, T:0.39
Consensus pattern (46 bp):
GTGTGCTTACTGATTCGCACTTCGTGTGACTACTGATTTGCACTAT
Found at i:2820 original size:60 final size:60
Alignment explanation
Indices: 2750--2863 Score: 201
Period size: 60 Copynumber: 1.9 Consensus size: 60
2740 TTATTAAATA
*
2750 TAATAGAATTATTATTAAATATAATTTAATAAAAATGATAATAAATAATTTAATCATTTT
1 TAATAGAATTATTATTAAATATAATTTAATAAAAATAATAATAAATAATTTAATCATTTT
* *
2810 TAATATAATTATTATTAAATATAATTTAATAAAAATAATAATATATAATTTAAT
1 TAATAGAATTATTATTAAATATAATTTAATAAAAATAATAATAAATAATTTAAT
2864 AACATTCTCA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
60 51 1.00
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.44
Consensus pattern (60 bp):
TAATAGAATTATTATTAAATATAATTTAATAAAAATAATAATAAATAATTTAATCATTTT
Found at i:17007 original size:23 final size:21
Alignment explanation
Indices: 16973--17015 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
16963 ACATTTTAAC
16973 AAAAAAAAAAGTCTAATAAAG
1 AAAAAAAAAAGTCTAATAAAG
*
16994 AAAAAATAATAAGTCTGATAAA
1 AAAAAA-AA-AAGTCTAATAAA
17016 TTAGGGTTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 2 0.11
23 11 0.58
ACGTcount: A:0.67, C:0.05, G:0.09, T:0.19
Consensus pattern (21 bp):
AAAAAAAAAAGTCTAATAAAG
Found at i:17845 original size:22 final size:22
Alignment explanation
Indices: 17817--17858 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
17807 ATAATAGCAA
* *
17817 AAAATGATAGCAAAACAACAGT
1 AAAATGACAACAAAACAACAGT
17839 AAAATGACAACAAAACAACA
1 AAAATGACAACAAAACAACA
17859 CTAGGAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.64, C:0.17, G:0.10, T:0.10
Consensus pattern (22 bp):
AAAATGACAACAAAACAACAGT
Found at i:18339 original size:92 final size:93
Alignment explanation
Indices: 18153--18327 Score: 216
Period size: 92 Copynumber: 1.9 Consensus size: 93
18143 CAAACTTTAT
* * *
18153 AAAAAAACAATTAATCTCCTCTTTTTATTTTTTGCACTCAATTGAGCACTTGAACTTTTAAAATG
1 AAAAAAACAATTAAGCTCCTC-TTTTATTTTTTGCACTCAATTGAGCACTTGAACTTTCAAAATA
* *
18218 TACCAAAAAGATCCTCAAACTTCTTAAAA
65 CACCAAAAAGACCCTCAAACTTCTTAAAA
18247 AAAAAAAGCAATTAAGCTCCTAC-TTT-TTTTTT-CACTCAATTG-G-ATTCTTGAACTTTCAAA
1 AAAAAAA-CAATTAAGCTCCT-CTTTTATTTTTTGCACTCAATTGAGCA--CTTGAACTTTCAAA
*
18307 ATACATCAAAAAGACCCTCAA
62 ATACACCAAAAAGACCCTCAA
18328 TTTTTCAAAA
Statistics
Matches: 71, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
90 1 0.01
91 1 0.01
92 40 0.56
93 6 0.08
94 10 0.14
95 12 0.17
96 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.07, T:0.34
Consensus pattern (93 bp):
AAAAAAACAATTAAGCTCCTCTTTTATTTTTTGCACTCAATTGAGCACTTGAACTTTCAAAATAC
ACCAAAAAGACCCTCAAACTTCTTAAAA
Found at i:18439 original size:19 final size:19
Alignment explanation
Indices: 18386--18439 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
18376 AATTATAAAA
*
18386 ATAAAAA-ATAATAACTTTT
1 ATAAAAATATAA-AAATTTT
* *
18405 AGAAAAATTATTAAAATTTT
1 ATAAAAA-TATAAAAATTTT
18425 ATAAAAATATAAAAA
1 ATAAAAATATAAAAA
18440 ATTAAATTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
19 13 0.46
20 12 0.43
21 3 0.11
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (19 bp):
ATAAAAATATAAAAATTTT
Found at i:18440 original size:20 final size:20
Alignment explanation
Indices: 18386--18442 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
18376 AATTATAAAA
* *
18386 ATAAAAA-ATAATAACTTTT
1 ATAAAAATATAAAAAATTTT
* *
18405 AGAAAAAT-TATTAAAATTTT
1 ATAAAAATATA-AAAAATTTT
18425 ATAAAAATATAAAAAATT
1 ATAAAAATATAAAAAATT
18443 AAATTTATTA
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
19 8 0.28
20 19 0.66
21 2 0.07
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (20 bp):
ATAAAAATATAAAAAATTTT
Found at i:18456 original size:45 final size:44
Alignment explanation
Indices: 18358--18492 Score: 130
Period size: 45 Copynumber: 3.0 Consensus size: 44
18348 GCCCCTACTC
** * *
18358 TTATTAAAAATTATAAAAAATTATAAAAATA-AAAAATAATAACT
1 TTATTAAAAATTATAAAATTTTATAAAAATATAAAAA-ATTAAAT
*
18402 TT-TAGAAAAATTATTAAAATTTTATAAAAATATAAAAAATTAAAT
1 TTAT-TAAAAATTA-TAAAATTTTATAAAAATATAAAAAATTAAAT
* **
18447 TTATTAAAAATTAGAATTTTTTTATAAAAATAGTAAAAAATATAAA
1 TTATTAAAAATTATAA-AATTTTATAAAAATA-TAAAAAAT-TAAA
18493 AAAATTGAGT
Statistics
Matches: 75, Mismatches: 9, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
43 1 0.01
44 12 0.16
45 44 0.59
46 14 0.19
47 4 0.05
ACGTcount: A:0.61, C:0.01, G:0.02, T:0.36
Consensus pattern (44 bp):
TTATTAAAAATTATAAAATTTTATAAAAATATAAAAAATTAAAT
Found at i:20414 original size:25 final size:24
Alignment explanation
Indices: 20386--20525 Score: 121
Period size: 23 Copynumber: 5.9 Consensus size: 24
20376 CCGAAGTACT
*
20386 TAACAGAGGGCACA-TAAGTGCTGGG
1 TAACAGAGGGCACACAAAGTGCT--G
20411 TAACAGAGGGCACACAAAGTGC--
1 TAACAGAGGGCACACAAAGTGCTG
* *
20433 TAATCAGAGGGCACACGAAGTGCTAA
1 TAA-CAGAGGGCACACAAAGTGCT-G
*
20459 TAACAGAGGGCACACATAGTGCTG
1 TAACAGAGGGCACACAAAGTGCTG
* *
20483 -AACAGAGGGCACGA-AACGTGCTA
1 TAACAGAGGGCAC-ACAAAGTGCTG
* *
20506 T-ATAGAGGGCACACACAGTG
1 TAACAGAGGGCACACAAAGTG
20526 ATAAACAGAA
Statistics
Matches: 96, Mismatches: 11, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
22 4 0.04
23 50 0.52
24 1 0.01
25 32 0.33
26 9 0.09
ACGTcount: A:0.36, C:0.20, G:0.30, T:0.14
Consensus pattern (24 bp):
TAACAGAGGGCACACAAAGTGCTG
Found at i:20444 original size:23 final size:23
Alignment explanation
Indices: 20414--20571 Score: 128
Period size: 23 Copynumber: 6.9 Consensus size: 23
20404 TGCTGGGTAA
20414 CAGAGGGCACACAAAGTGCTAAT
1 CAGAGGGCACACAAAGTGCTAAT
*
20437 CAGAGGGCACACGAAGTGCTAAT
1 CAGAGGGCACACAAAGTGCTAAT
*
20460 AACAGAGGGCACACATAGTGCTGAA-
1 --CAGAGGGCACACAAAGTGCT-AAT
*
20485 CAGAGGGCACGA-AACGTGCTATAT
1 CAGAGGGCAC-ACAAAGTGCTA-AT
* * *
20509 -AGAGGGCACACACAGTGATAAA
1 CAGAGGGCACACAAAGTGCTAAT
* * * *
20531 CAGA-AGCACACACAGTGTTGAT
1 CAGAGGGCACACAAAGTGCTAAT
* *
20553 CAGA-AGCACACACAGTGCT
1 CAGAGGGCACACAAAGTGCT
20572 GAACAGAAGC
Statistics
Matches: 113, Mismatches: 14, Indels: 17
0.78 0.10 0.12
Matches are distributed among these distances:
22 35 0.31
23 57 0.50
24 1 0.01
25 18 0.16
26 2 0.02
ACGTcount: A:0.38, C:0.22, G:0.27, T:0.13
Consensus pattern (23 bp):
CAGAGGGCACACAAAGTGCTAAT
Found at i:20504 original size:48 final size:45
Alignment explanation
Indices: 20386--20547 Score: 150
Period size: 48 Copynumber: 3.4 Consensus size: 45
20376 CCGAAGTACT
* *
20386 TAACAGAGGGCACATAAGTGCTGGGTAACAGAGGGCACACAAAGTGC
1 TAACAGAGGGCACACAAGTGCT--ATAACAGAGGGCACACAAAGTGC
*
20433 TAATCAGAGGGCACACGAAGTGCTAATAACAGAGGGCACACATAGTGC
1 TAA-CAGAGGGCACAC-AAGTGCT-ATAACAGAGGGCACACAAAGTGC
* * *
20481 TGAACAGAGGGCACGA-AACGTGCTAT-ATAGAGGGCACACACAGTGA
1 T-AACAGAGGGCAC-ACAA-GTGCTATAACAGAGGGCACACAAAGTGC
*
20527 TAAACAGA-AGCACACACAGTG
1 T-AACAGAGGGCACACA-AGTG
20548 TTGATCAGAA
Statistics
Matches: 99, Mismatches: 9, Indels: 16
0.80 0.07 0.13
Matches are distributed among these distances:
44 1 0.01
45 8 0.08
46 25 0.25
47 7 0.07
48 48 0.48
49 10 0.10
ACGTcount: A:0.38, C:0.20, G:0.28, T:0.13
Consensus pattern (45 bp):
TAACAGAGGGCACACAAGTGCTATAACAGAGGGCACACAAAGTGC
Found at i:20542 original size:22 final size:22
Alignment explanation
Indices: 20514--20590 Score: 118
Period size: 22 Copynumber: 3.5 Consensus size: 22
20504 TATATAGAGG
*
20514 GCACACACAGTGATAAACAGAA
1 GCACACACAGTGATGAACAGAA
* *
20536 GCACACACAGTGTTGATCAGAA
1 GCACACACAGTGATGAACAGAA
*
20558 GCACACACAGTGCTGAACAGAA
1 GCACACACAGTGATGAACAGAA
20580 GCACACACAGT
1 GCACACACAGT
20591 ACTGATCAGT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 50 1.00
ACGTcount: A:0.42, C:0.26, G:0.21, T:0.12
Consensus pattern (22 bp):
GCACACACAGTGATGAACAGAA
Found at i:20569 original size:44 final size:45
Alignment explanation
Indices: 20514--20604 Score: 139
Period size: 44 Copynumber: 2.0 Consensus size: 45
20504 TATATAGAGG
**
20514 GCACACACAGTGATAAACAGAAGCACACACAGTGTTGATCAG-AA
1 GCACACACAGTGATAAACAGAAGCACACACAGTACTGATCAGTAA
* *
20558 GCACACACAGTGCTGAACAGAAGCACACACAGTACTGATCAGTAA
1 GCACACACAGTGATAAACAGAAGCACACACAGTACTGATCAGTAA
20603 GC
1 GC
20605 GCGCTAGCGT
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
44 38 0.90
45 4 0.10
ACGTcount: A:0.41, C:0.25, G:0.21, T:0.13
Consensus pattern (45 bp):
GCACACACAGTGATAAACAGAAGCACACACAGTACTGATCAGTAA
Found at i:20595 original size:22 final size:22
Alignment explanation
Indices: 20514--20604 Score: 103
Period size: 22 Copynumber: 4.1 Consensus size: 22
20504 TATATAGAGG
*
20514 GCACACACAGTGA-TAAACAGAA
1 GCACACACAGT-ACTGAACAGAA
** *
20536 GCACACACAGTGTTGATCAGAA
1 GCACACACAGTACTGAACAGAA
*
20558 GCACACACAGTGCTGAACAGAA
1 GCACACACAGTACTGAACAGAA
*
20580 GCACACACAGTACTGATCAGTAA
1 GCACACACAGTACTGAACAG-AA
20603 GC
1 GC
20605 GCGCTAGCGT
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
22 56 0.93
23 4 0.07
ACGTcount: A:0.41, C:0.25, G:0.21, T:0.13
Consensus pattern (22 bp):
GCACACACAGTACTGAACAGAA
Found at i:26236 original size:89 final size:88
Alignment explanation
Indices: 26140--26308 Score: 257
Period size: 89 Copynumber: 1.9 Consensus size: 88
26130 TTTTTTTTTG
*
26140 CACTCAATTGAGTAATTGAACTTTCAAAATGCATAAAAAAGACACTCAAACTTCTTCAAAAAAAG
1 CACTCAATTGAGTAATTGAACTTTCAAAATGCATAAAAAAGACACTCAAAATTCTTCAAAAAAA-
26205 CAATTAAGCCCCTGCTTTTTCTCC
65 CAATTAAGCCCCTGCTTTTTCTCC
* * * * *
26229 CACTCAATTGAGTACTTGAACTTTTAAAATTCATAAAAAAGACTCTCAAAATTTTTCAAAAAAAC
1 CACTCAATTGAGTAATTGAACTTTCAAAATGCATAAAAAAGACACTCAAAATTCTTCAAAAAAAC
* *
26294 AATTAATCCCTTGCT
66 AATTAAGCCCCTGCT
26309 CTTATTAAAA
Statistics
Matches: 72, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
88 14 0.19
89 58 0.81
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (88 bp):
CACTCAATTGAGTAATTGAACTTTCAAAATGCATAAAAAAGACACTCAAAATTCTTCAAAAAAAC
AATTAAGCCCCTGCTTTTTCTCC
Found at i:26912 original size:28 final size:27
Alignment explanation
Indices: 26879--26971 Score: 107
Period size: 28 Copynumber: 3.3 Consensus size: 27
26869 ATATTTTGTT
26879 TAATTTTCTTACATTTTATAAAATTTTA
1 TAATTTT-TTACATTTTATAAAATTTTA
* *
26907 TAATTTTTTTATATTTCTA-AATATTTTA
1 TAA-TTTTTTACATTT-TATAAAATTTTA
26935 TAATTTTTTACGACTTTTATAAAATTTTA
1 TAATTTTTTAC-A-TTTTATAAAATTTTA
*
26964 CAATTTTT
1 TAATTTTT
26972 ATATTTTTTT
Statistics
Matches: 55, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
27 7 0.13
28 24 0.44
29 24 0.44
ACGTcount: A:0.33, C:0.06, G:0.01, T:0.59
Consensus pattern (27 bp):
TAATTTTTTACATTTTATAAAATTTTA
Found at i:26915 original size:10 final size:10
Alignment explanation
Indices: 26830--27001 Score: 57
Period size: 10 Copynumber: 17.9 Consensus size: 10
26820 TTTTGGCACG
26830 ATAA-TTTTT
1 ATAATTTTTT
26839 ATAATTTTTTT
1 ATAA-TTTTTT
26850 ATGAA--TTTT
1 AT-AATTTTTT
26859 AT-ATTTCTTT
1 ATAATTT-TTT
26869 AT-ATTTTGTT
1 ATAATTTT-TT
26879 -TAATTTTCTT
1 ATAATTTT-TT
*
26889 A-CA--TTTT
1 ATAATTTTTT
**
26896 ATAAAATTTT
1 ATAATTTTTT
26906 ATAATTTTTT
1 ATAATTTTTT
*
26916 -T-ATATTTCT
1 ATAAT-TTTTT
*
26925 A-AATATTTT
1 ATAATTTTTT
26934 ATAATTTTTT
1 ATAATTTTTT
** *
26944 ACGA-CTTTT
1 ATAATTTTTT
**
26953 ATAAAATTTT
1 ATAATTTTTT
*
26963 ACAA-TTTTT
1 ATAATTTTTT
*
26972 ATATTTTTTTT
1 ATA-ATTTTTT
* *
26983 CTAATTTTTA
1 ATAATTTTTT
26993 ATAATTTTT
1 ATAATTTTT
27002 ATTAAAATTT
Statistics
Matches: 121, Mismatches: 23, Indels: 37
0.67 0.13 0.20
Matches are distributed among these distances:
7 4 0.03
8 5 0.04
9 34 0.28
10 62 0.51
11 14 0.12
12 2 0.02
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (10 bp):
ATAATTTTTT
Found at i:26917 original size:58 final size:57
Alignment explanation
Indices: 26855--26971 Score: 157
Period size: 57 Copynumber: 2.0 Consensus size: 57
26845 TTTTTATGAA
** * *
26855 TTTTATATTTCTTTATATTTTGTTTAATTTTCTTAC-A-TTTTATAAAATTTTATAATTT
1 TTTTATATTTCTAAATA-TTT-TATAATTTT-TTACGACTTTTATAAAATTTTACAATTT
26913 TTTTATATTTCTAAATATTTTATAATTTTTTACGACTTTTATAAAATTTTACAATTT
1 TTTTATATTTCTAAATATTTTATAATTTTTTACGACTTTTATAAAATTTTACAATTT
26970 TT
1 TT
26972 ATATTTTTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
55 4 0.08
56 9 0.17
57 25 0.47
58 15 0.28
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (57 bp):
TTTTATATTTCTAAATATTTTATAATTTTTTACGACTTTTATAAAATTTTACAATTT
Found at i:26952 original size:19 final size:19
Alignment explanation
Indices: 26930--27001 Score: 63
Period size: 19 Copynumber: 3.7 Consensus size: 19
26920 TTTCTAAATA
*
26930 TTTTATAATTTTTTACGAC
1 TTTTATAATTTTTTACAAC
** *
26949 TTTTATAAAATTTTACAAT
1 TTTTATAATTTTTTACAAC
* * *
26968 TTTTATATTTTTTTTCTAAT
1 TTTTATAATTTTTTAC-AAC
26988 TTTTAATAATTTTT
1 TTTT-ATAATTTTT
27002 ATTAAAATTT
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
19 27 0.64
20 7 0.17
21 8 0.19
ACGTcount: A:0.29, C:0.06, G:0.01, T:0.64
Consensus pattern (19 bp):
TTTTATAATTTTTTACAAC
Found at i:27231 original size:91 final size:88
Alignment explanation
Indices: 27063--27236 Score: 210
Period size: 91 Copynumber: 2.0 Consensus size: 88
27053 AAGCAGAGGT
* * *
27063 TTAATTGCTTTTTTTTTTTAAAGTTTAAGAGTCTTTTTATACATTTTAAAAATTTAAATACTCAA
1 TTAATTACTTTTTTTTTTTAAAGTTTAAGAGACTTTTTATACATTTTAAAAATTTAAATACCCAA
* * *
27128 TTGAGTGCAAAAAAAAAAAAATC
66 ATAAATGCAAAAAAAAAAAAATC
*
27151 TTAATTACTTTTTTTTTTTAAAAGGTTTGAA-A-ACTTTTTCGATGCATTTTAAAAATTTAAATA
1 TTAATTACTTTTTTTTTTT-AAA-GTTT-AAGAGACTTTTT--ATACATTTTAAAAATTTAAATA
*
27214 CCCAAATAAAT-CTAAAAAAAAAA
61 CCCAAATAAATGCAAAAAAAAAAA
27237 TTTAATTATT
Statistics
Matches: 73, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
88 18 0.25
89 9 0.12
90 16 0.22
91 30 0.41
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.42
Consensus pattern (88 bp):
TTAATTACTTTTTTTTTTTAAAGTTTAAGAGACTTTTTATACATTTTAAAAATTTAAATACCCAA
ATAAATGCAAAAAAAAAAAAATC
Found at i:29700 original size:17 final size:17
Alignment explanation
Indices: 29680--29722 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
29670 TTAAATTTAT
29680 TAAAAATTAGAAAAAAA
1 TAAAAATTAGAAAAAAA
* * *
29697 TAAAAATCATAAAAAAT
1 TAAAAATTAGAAAAAAA
29714 TATAAAATT
1 TA-AAAATT
29723 TTATAAAAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (17 bp):
TAAAAATTAGAAAAAAA
Found at i:29711 original size:27 final size:26
Alignment explanation
Indices: 29625--29720 Score: 84
Period size: 27 Copynumber: 3.6 Consensus size: 26
29615 GTGAGATGTG
* *
29625 ATAAAAATTTATAAAAAATAAAAATC
1 ATAAAAAATTAAAAAAAATAAAAATC
* * * * * *
29651 AATGAAAATTTAAAAAATATTAAATTT
1 -ATAAAAAATTAAAAAAAATAAAAATC
*
29678 ATTAAAAATTAGAAAAAAATAAAAATC
1 ATAAAAAATTA-AAAAAAATAAAAATC
*
29705 ATAAAAAATTATAAAA
1 ATAAAAAATTAAAAAA
29721 TTTTATAAAA
Statistics
Matches: 54, Mismatches: 14, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
26 13 0.24
27 41 0.76
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (26 bp):
ATAAAAAATTAAAAAAAATAAAAATC
Found at i:29718 original size:19 final size:19
Alignment explanation
Indices: 29642--29739 Score: 55
Period size: 19 Copynumber: 5.3 Consensus size: 19
29632 TTTATAAAAA
* *
29642 ATAAAAATCAATGAAAATTT
1 ATAAAAATC-ATAAAAAATT
* *
29662 A-AAAAAT-AT-TAAATTT
1 ATAAAAATCATAAAAAATT
* *
29678 ATTAAAAATTAGAAAAAA--
1 A-TAAAAATCATAAAAAATT
29696 ATAAAAATCATAAAAAATT
1 ATAAAAATCATAAAAAATT
**
29715 AT-AAAATTTTATAAAAATT
1 ATAAAAATCATA-AAAAATT
29734 ATAAAA
1 ATAAAA
29740 CGCATCAAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 16
0.72 0.09 0.19
Matches are distributed among these distances:
16 7 0.11
17 16 0.26
18 14 0.23
19 18 0.29
20 7 0.11
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (19 bp):
ATAAAAATCATAAAAAATT
Found at i:29720 original size:9 final size:9
Alignment explanation
Indices: 29625--29739 Score: 76
Period size: 10 Copynumber: 12.7 Consensus size: 9
29615 GTGAGATGTG
29625 ATAAAAATTT
1 ATAAAAA-TT
29635 ATAAAAA--
1 ATAAAAATT
*
29642 ATAAAAATCA
1 ATAAAAAT-T
*
29652 ATGAAAATT
1 ATAAAAATT
*
29661 -TAAAAAAT
1 ATAAAAATT
* *
29669 ATTAAATTT
1 ATAAAAATT
29678 ATTAAAAATT
1 A-TAAAAATT
* *
29688 AGAAAAA-A
1 ATAAAAATT
*
29696 ATAAAAATC
1 ATAAAAATT
29705 ATAAAAAATT
1 AT-AAAAATT
*
29715 ATAAAATTTT
1 ATAAAA-ATT
29725 ATAAAAATT
1 ATAAAAATT
29734 ATAAAA
1 ATAAAA
29740 CGCATCAAAA
Statistics
Matches: 81, Mismatches: 16, Indels: 17
0.71 0.14 0.15
Matches are distributed among these distances:
7 7 0.09
8 12 0.15
9 25 0.31
10 37 0.46
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (9 bp):
ATAAAAATT
Found at i:29879 original size:17 final size:19
Alignment explanation
Indices: 29854--29903 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 19
29844 GACATTTGAC
*
29854 AAAAA-TAATAAAA-AT-T
1 AAAAATTAATAAAATATAG
29870 AAAAATTAATAAAATATAG
1 AAAAATTAATAAAATATAG
29889 AAAAATT-ATAAAATA
1 AAAAATTAATAAAATA
29904 CTTTTTTTGG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
16 5 0.17
17 8 0.27
18 10 0.33
19 7 0.23
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (19 bp):
AAAAATTAATAAAATATAG
Found at i:29969 original size:47 final size:47
Alignment explanation
Indices: 29918--30033 Score: 110
Period size: 49 Copynumber: 2.4 Consensus size: 47
29908 TTTTGGTAGG
** *
29918 ATAATTTTTACAATTTTTTTACGGATTTTATA-TTTTTTTACATTTCT
1 ATAATTTTTACAATTTTTTTA-AAATTTTATATTTTTTTTACATATCT
* *
29965 ATAATTTTCTTACAA-CTTTATAAAATTTTATATTTTTTTTTACATATCT
1 ATAA-TTT-TTACAATTTTTTTAAAATTTTATA-TTTTTTTTACATATCT
* * *
30014 ATATTTTTTATAGTTTTTTT
1 ATAATTTTTACAATTTTTTT
30034 TTTTTACGAT
Statistics
Matches: 54, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
47 16 0.30
48 15 0.28
49 23 0.43
ACGTcount: A:0.28, C:0.08, G:0.03, T:0.62
Consensus pattern (47 bp):
ATAATTTTTACAATTTTTTTAAAATTTTATATTTTTTTTACATATCT
Found at i:29971 original size:19 final size:18
Alignment explanation
Indices: 29923--29978 Score: 60
Period size: 19 Copynumber: 3.0 Consensus size: 18
29913 GTAGGATAAT
*
29923 TTTTACAATTTTTTTACGGA
1 TTTTATAATTTTTTTAC--A
29943 TTTTAT-ATTTTTTTACA
1 TTTTATAATTTTTTTACA
*
29960 TTTCTATAATTTTCTTACA
1 TTT-TATAATTTTTTTACA
29979 ACTTTATAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
17 4 0.12
18 3 0.09
19 20 0.62
20 5 0.16
ACGTcount: A:0.25, C:0.11, G:0.04, T:0.61
Consensus pattern (18 bp):
TTTTATAATTTTTTTACA
Found at i:30113 original size:20 final size:20
Alignment explanation
Indices: 30066--30109 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
30056 AAATTACAAT
* *
30066 TTTTATAATTTTTTTACGAC
1 TTTTATAATTCTTTTACGAA
*
30086 TTTTATAATTCTTTT-CTAA
1 TTTTATAATTCTTTTACGAA
30105 TTTTA
1 TTTTA
30110 ATAAATTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.25, C:0.09, G:0.02, T:0.64
Consensus pattern (20 bp):
TTTTATAATTCTTTTACGAA
Found at i:30129 original size:29 final size:29
Alignment explanation
Indices: 30097--30160 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
30087 TTTATAATTC
* *
30097 TTTTCTAATTTTAA-TAAATTTTAAATATT
1 TTTTATAATTTTAATTAAAATTT-AATATT
*
30126 TTTTATATTTTTAATTAAAATTTAATATT
1 TTTTATAATTTTAATTAAAATTTAATATT
30155 TTTTAT
1 TTTTAT
30161 TTTTTATAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
29 24 0.77
30 7 0.23
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (29 bp):
TTTTATAATTTTAATTAAAATTTAATATT
Found at i:30171 original size:30 final size:30
Alignment explanation
Indices: 30105--30166 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 30
30095 TCTTTTCTAA
*
30105 TTTTAA-TAAATTTTAAATATTTTTTATAT
1 TTTTAATTAAAATTTAAATATTTTTTATAT
30134 TTTTAATTAAAATTT-AATATTTTTTAT-T
1 TTTTAATTAAAATTTAAATATTTTTTATAT
30162 TTTTA
1 TTTTA
30167 TAATTTTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
28 6 0.19
29 18 0.58
30 7 0.23
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (30 bp):
TTTTAATTAAAATTTAAATATTTTTTATAT
Found at i:30794 original size:27 final size:27
Alignment explanation
Indices: 30763--30816 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
30753 TGTGAATCTG
30763 GACATGCCTTTGGTCTCCCAAATCATA
1 GACATGCCTTTGGTCTCCCAAATCATA
30790 GACATGCCTTTGGTCTCCCAAATCATA
1 GACATGCCTTTGGTCTCCCAAATCATA
30817 ATCGAAGACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.30
Consensus pattern (27 bp):
GACATGCCTTTGGTCTCCCAAATCATA
Found at i:32087 original size:3 final size:3
Alignment explanation
Indices: 32079--32113 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
32069 TGTCCATTTC
32079 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
32114 ATATGTCTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:36474 original size:9 final size:9
Alignment explanation
Indices: 36460--36517 Score: 57
Period size: 9 Copynumber: 6.1 Consensus size: 9
36450 GCAAATGATT
36460 TTAAAATTA
1 TTAAAATTA
36469 TTAAAATTA
1 TTAAAATTA
36478 TTTTTAAAA-TA
1 ---TTAAAATTA
36489 -TAAAATTA
1 TTAAAATTA
36497 TTAAAATTA
1 TTAAAATTA
36506 TTTTAAAATTA
1 --TTAAAATTA
36517 T
1 T
36518 AATCATCATC
Statistics
Matches: 42, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
7 5 0.12
8 2 0.05
9 18 0.43
11 11 0.26
12 6 0.14
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (9 bp):
TTAAAATTA
Found at i:36480 original size:20 final size:20
Alignment explanation
Indices: 36452--36517 Score: 68
Period size: 20 Copynumber: 3.4 Consensus size: 20
36442 CCACGTCAGC
*
36452 AAATGATTTTAAAATTATTA
1 AAATTATTTTAAAATTATTA
36472 AAATTATTTTTAAAA-TA-TA
1 AAATTA-TTTTAAAATTATTA
36491 AAATTA--TTAAAATTATTTTA
1 AAATTATTTTAAAATTA--TTA
36511 AAATTAT
1 AAATTAT
36518 AATCATCATC
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
16 6 0.15
17 2 0.05
19 8 0.21
20 15 0.38
21 8 0.21
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (20 bp):
AAATTATTTTAAAATTATTA
Found at i:36493 original size:28 final size:28
Alignment explanation
Indices: 36461--36519 Score: 102
Period size: 28 Copynumber: 2.1 Consensus size: 28
36451 CAAATGATTT
36461 TAAAATTATTAAAATTATTTTTAAAA-TA
1 TAAAATTATTAAAATTA-TTTTAAAATTA
36489 TAAAATTATTAAAATTATTTTAAAATTA
1 TAAAATTATTAAAATTATTTTAAAATTA
36517 TAA
1 TAA
36520 TCATCATCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
27 8 0.27
28 22 0.73
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (28 bp):
TAAAATTATTAAAATTATTTTAAAATTA
Found at i:36494 original size:19 final size:21
Alignment explanation
Indices: 36458--36498 Score: 68
Period size: 19 Copynumber: 2.0 Consensus size: 21
36448 CAGCAAATGA
36458 TTTTAAAATTATTAAAATTAT
1 TTTTAAAATTATTAAAATTAT
36479 TTTTAAAA-TA-TAAAATTAT
1 TTTTAAAATTATTAAAATTAT
36498 T
1 T
36499 AAAATTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 10 0.50
20 2 0.10
21 8 0.40
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TTTTAAAATTATTAAAATTAT
Found at i:37263 original size:30 final size:30
Alignment explanation
Indices: 37229--37294 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 30
37219 ATTGGAAATT
*
37229 AAAATTA-TTTAATAATTTTATTATTTCAAA
1 AAAATTATTTTAATAATTTTATAATTT-AAA
*
37259 AAAATAATTTTAATAATTTTATAATTTAAA
1 AAAATTATTTTAATAATTTTATAATTTAAA
37289 AAAATT
1 AAAATT
37295 TATATTTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
30 14 0.44
31 18 0.56
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (30 bp):
AAAATTATTTTAATAATTTTATAATTTAAA
Found at i:37309 original size:16 final size:17
Alignment explanation
Indices: 37262--37309 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
37252 TTTCAAAAAA
* *
37262 ATAATTTTAATAATTTT
1 ATAATTTTAAAAAATTT
*
37279 ATAATTTAAAAAAATTT
1 ATAATTTTAAAAAATTT
37296 AT-ATTTTAAAAAAT
1 ATAATTTTAAAAAAT
37310 AATTTTAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
16 11 0.41
17 16 0.59
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
ATAATTTTAAAAAATTT
Found at i:37612 original size:3 final size:3
Alignment explanation
Indices: 37604--37629 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
37594 AAAAAATAGT
37604 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
37630 TAAATCTCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:42380 original size:26 final size:26
Alignment explanation
Indices: 42344--42434 Score: 94
Period size: 26 Copynumber: 3.5 Consensus size: 26
42334 AGACTCTGAA
* *
42344 GATATACTGAATTGGCTCGAAAGAGC
1 GATATACTGAACTGACTCGAAAGAGC
42370 GATATACTGAACTGACTCGAAAGAGC
1 GATATACTGAACTGACTCGAAAGAGC
* * * * *
42396 AAAATACTGAACT-AGTTCGTAAGAGT
1 GATATACTGAACTGA-CTCGAAAGAGC
*
42422 GATATGCTGAACT
1 GATATACTGAACT
42435 AGCTCATAAG
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
25 1 0.02
26 53 0.98
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.24
Consensus pattern (26 bp):
GATATACTGAACTGACTCGAAAGAGC
Found at i:42435 original size:26 final size:26
Alignment explanation
Indices: 42402--42451 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
42392 GAGCAAAATA
* *
42402 CTGAACTAGTTCGTAAGAGTGATATG
1 CTGAACTAGCTCATAAGAGTGATATG
42428 CTGAACTAGCTCATAAGAGTGATA
1 CTGAACTAGCTCATAAGAGTGATA
42452 AACTGACTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (26 bp):
CTGAACTAGCTCATAAGAGTGATATG
Found at i:42457 original size:26 final size:26
Alignment explanation
Indices: 42401--42465 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
42391 AGAGCAAAAT
* * *
42401 ACTGAACTAGTTCGTAAGAGTGATAT
1 ACTGAACTAGCTCATAAGAGTGATAA
*
42427 GCTGAACTAGCTCATAAGAGTGATAA
1 ACTGAACTAGCTCATAAGAGTGATAA
42453 ACTG-ACTGAGCTC
1 ACTGAACT-AGCTC
42466 GTATGATCTA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
25 3 0.09
26 30 0.91
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (26 bp):
ACTGAACTAGCTCATAAGAGTGATAA
Found at i:49480 original size:13 final size:13
Alignment explanation
Indices: 49429--49486 Score: 53
Period size: 13 Copynumber: 4.2 Consensus size: 13
49419 TAGATTTGTA
*
49429 ATTTTATATACAT
1 ATTTTTTATACAT
*
49442 ATTTTTTTTAACATTGT
1 ATTTTTTAT-ACA---T
*
49459 ATATTTTATACAT
1 ATTTTTTATACAT
49472 ATTTTTTATACAT
1 ATTTTTTATACAT
49485 AT
1 AT
49487 ATATTGTTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
13 22 0.61
14 3 0.08
16 3 0.08
17 8 0.22
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.59
Consensus pattern (13 bp):
ATTTTTTATACAT
Found at i:49496 original size:20 final size:20
Alignment explanation
Indices: 49473--49510 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
49463 TTTATACATA
49473 TTTTTTATACATATATATTG
1 TTTTTTATACATATATATTG
*
49493 TTTTTTATATATATATAT
1 TTTTTTATACATATATAT
49511 ATAATCTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.63
Consensus pattern (20 bp):
TTTTTTATACATATATATTG
Found at i:51683 original size:21 final size:21
Alignment explanation
Indices: 51659--51710 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
51649 ATAGGACAAA
51659 CTACCGATACCTATATTGGTT
1 CTACCGATACCTATATTGGTT
51680 CTACCGATACCTATATTGGTT
1 CTACCGATACCTATATTGGTT
51701 CTACCGATAC
1 CTACCGATAC
51711 AACCAATACT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.25, C:0.27, G:0.13, T:0.35
Consensus pattern (21 bp):
CTACCGATACCTATATTGGTT
Found at i:59140 original size:26 final size:26
Alignment explanation
Indices: 59104--59407 Score: 290
Period size: 26 Copynumber: 11.7 Consensus size: 26
59094 AGACTCTGAA
59104 GATATACTGAACTGGCTCGAAAGAGC
1 GATATACTGAACTGGCTCGAAAGAGC
* ** *
59130 GATATACTGAATTGGCTTAAAATAGC
1 GATATACTGAACTGGCTCGAAAGAGC
* ** *
59156 GATATATTGATTTGGCTTGAAAGAGC
1 GATATACTGAACTGGCTCGAAAGAGC
**
59182 GATATACTGAACTGATTCGAAAGAG-
1 GATATACTGAACTGGCTCGAAAGAGC
59207 GATATACTGAACTGGCTCGAAAGAGC
1 GATATACTGAACTGGCTCGAAAGAGC
* * ** * *
59233 TATATACTAAACTAACTTGTAAGAGC
1 GATATACTGAACTGGCTCGAAAGAGC
* * *
59259 GATATGCTGAACTGGCTTGAAAGAGT
1 GATATACTGAACTGGCTCGAAAGAGC
* * *
59285 GATATATTGAACTGGCTCGAAGGAGT
1 GATATACTGAACTGGCTCGAAAGAGC
* *
59311 AATATACTGAACTAGCTCGAAAGAGC
1 GATATACTGAACTGGCTCGAAAGAGC
* * * *
59337 GATATATTGAATTGCCTCGTAAGAGC
1 GATATACTGAACTGGCTCGAAAGAGC
* *
59363 GATATACTGAATTGGCT-TATAAGAGC
1 GATATACTGAACTGGCTCGA-AAGAGC
*
59389 GATAAACTG-ACTAGGCTCG
1 GATATACTGAACT-GGCTCG
59408 TATGAGCTAA
Statistics
Matches: 223, Mismatches: 51, Indels: 7
0.79 0.18 0.02
Matches are distributed among these distances:
25 25 0.11
26 198 0.89
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.26
Consensus pattern (26 bp):
GATATACTGAACTGGCTCGAAAGAGC
Found at i:62057 original size:18 final size:18
Alignment explanation
Indices: 62034--62069 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
62024 ACTAACCTAT
62034 TATGATAATAAATAATAA
1 TATGATAATAAATAATAA
*
62052 TATGATAGTAAATAATAA
1 TATGATAATAAATAATAA
62070 CATGTAAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.33
Consensus pattern (18 bp):
TATGATAATAAATAATAA
Found at i:62079 original size:18 final size:18
Alignment explanation
Indices: 62035--62073 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
62025 CTAACCTATT
* *
62035 ATGATAATAAATAATAAT
1 ATGATAGTAAATAATAAC
62053 ATGATAGTAAATAATAAC
1 ATGATAGTAAATAATAAC
62071 ATG
1 ATG
62074 TAAGTACTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.56, C:0.03, G:0.10, T:0.31
Consensus pattern (18 bp):
ATGATAGTAAATAATAAC
Found at i:64344 original size:22 final size:22
Alignment explanation
Indices: 64315--64387 Score: 60
Period size: 21 Copynumber: 3.3 Consensus size: 22
64305 TAAAATTTAA
64315 TTTT-TATATTTTATTAATTAT
1 TTTTATATATTTTATTAATTAT
* ** *
64336 TTTTATATAATTTGGTACATCAAT
1 TTTTATATATTTTATTA-AT-TAT
*
64360 GTTTATA-ATTTTATTAATTAT
1 TTTTATATATTTTATTAATTAT
*
64381 TTATATA
1 TTTTATA
64388 AAAAAGGACC
Statistics
Matches: 38, Mismatches: 11, Indels: 6
0.69 0.20 0.11
Matches are distributed among these distances:
21 11 0.29
22 11 0.29
23 8 0.21
24 8 0.21
ACGTcount: A:0.33, C:0.03, G:0.04, T:0.60
Consensus pattern (22 bp):
TTTTATATATTTTATTAATTAT
Found at i:64893 original size:30 final size:29
Alignment explanation
Indices: 64842--64909 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 29
64832 GCAAATGATT
64842 TTAAAATTATTTTTAAAAAATATAAAATTA
1 TTAAAATTATTTTTAAAAAATA-AAAATTA
*** *
64872 TTAAAATTATTTTTTTGAAATAATAATTA
1 TTAAAATTATTTTTAAAAAATAAAAATTA
64901 TT-AAATTAT
1 TTAAAATTAT
64910 GATTTTTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 7 0.21
29 8 0.24
30 19 0.56
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (29 bp):
TTAAAATTATTTTTAAAAAATAAAAATTA
Found at i:69996 original size:21 final size:21
Alignment explanation
Indices: 69949--69989 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
69939 ACTTGTTTTG
*
69949 GTAGAAGTAACACTTGTATCA
1 GTAGAACTAACACTTGTATCA
*
69970 GTAGAACTATCACTTGTATC
1 GTAGAACTAACACTTGTATC
69990 GATAGAATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (21 bp):
GTAGAACTAACACTTGTATCA
Found at i:71700 original size:23 final size:22
Alignment explanation
Indices: 71658--71700 Score: 52
Period size: 23 Copynumber: 1.9 Consensus size: 22
71648 ACATATGAAA
*
71658 TTTTACATTATCTTCGTTAACT
1 TTTTACATTATCTTCATTAACT
71680 TTTTAACATTA-CTTTCATTAA
1 TTTT-ACATTATC-TTCATTAA
71701 ATTTATTAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.28, C:0.16, G:0.02, T:0.53
Consensus pattern (22 bp):
TTTTACATTATCTTCATTAACT
Found at i:76342 original size:120 final size:119
Alignment explanation
Indices: 76121--76363 Score: 396
Period size: 120 Copynumber: 2.0 Consensus size: 119
76111 AATTATATGC
* *
76121 ATAGATATCGTATCGATGGCTGGGGTACCACATATGTTGCGAGTCCTCGACAGCTCGTGTGAGCA
1 ATAGATACCGTATCGATGGCTGGGGTACCACATATGTTGCGAGTCCTCAACAGCTCGTGTGAGCA
* *
76186 ACATCGTATACTGGTAACGGAGTTGATACAGACATGAGAATGAAATTCTGGATT
66 ACATCGTATACTGGTAACAGAGTTGATACAGACATGAGAATGAAATTCTCGATT
*
76240 ATAGCATACCGTATCGATGGTTGGGGTACCACATATGTTGCGAGTCCTCAACAGCTCGTGTGAGC
1 ATAG-ATACCGTATCGATGGCTGGGGTACCACATATGTTGCGAGTCCTCAACAGCTCGTGTGAGC
* * * *
76305 AGCATCGTATATTGGTAACAGAGTTGATATAGACATGAGGATGAAATTCTCGATT
65 AACATCGTATACTGGTAACAGAGTTGATACAGACATGAGAATGAAATTCTCGATT
76360 ATAG
1 ATAG
76364 TTTGTGGAAG
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
119 4 0.04
120 110 0.96
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (119 bp):
ATAGATACCGTATCGATGGCTGGGGTACCACATATGTTGCGAGTCCTCAACAGCTCGTGTGAGCA
ACATCGTATACTGGTAACAGAGTTGATACAGACATGAGAATGAAATTCTCGATT
Found at i:77112 original size:21 final size:21
Alignment explanation
Indices: 77086--77141 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
77076 CTGGAGTTTG
77086 TTGTATCGGTAGAAGTAATAA
1 TTGTATCGGTAGAAGTAATAA
* * *
77107 TTGTATCGGTAGTAGTCATAC
1 TTGTATCGGTAGAAGTAATAA
*
77128 TTGTATTGGTAGAA
1 TTGTATCGGTAGAA
77142 CCTTTCCAAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.25, T:0.38
Consensus pattern (21 bp):
TTGTATCGGTAGAAGTAATAA
Found at i:86012 original size:9 final size:9
Alignment explanation
Indices: 86000--86225 Score: 60
Period size: 9 Copynumber: 24.6 Consensus size: 9
85990 TAAAAAACTA
86000 AAAAATTAT
1 AAAAATTAT
*
86009 AAAAA-AAT
1 AAAAATTAT
86017 AAAAA--AT
1 AAAAATTAT
*
86024 AAAAAATATT
1 AAAAATTA-T
*
86034 AAAAATATTT
1 AAAAAT-TAT
*
86044 AAAAATATTT
1 AAAAAT-TAT
*
86054 AAAAA-TAG
1 AAAAATTAT
*
86062 GAAAATTGAT
1 AAAAATT-AT
* *
86072 ATAAACTTGT
1 A-AAAATTAT
86082 AAAAATTAT
1 AAAAATTAT
86091 AAAAA-TA-
1 AAAAATTAT
86098 AAAAA-TA-
1 AAAAATTAT
86105 AAAAATT-T
1 AAAAATTAT
86113 AAAAAATATATTT
1 -AAAAAT-TA--T
86126 AAAATATT-T
1 AAAA-ATTAT
*
86135 AAAATTTTAT
1 AAAA-ATTAT
*
86145 AAAAACGTATT
1 AAAAA-TTA-T
*
86156 AAAATTCTAT
1 AAAAAT-TAT
**
86166 AAAAAACAT
1 AAAAATTAT
*
86175 AAATATTAT
1 AAAAATTAT
* *
86184 TAAAAGTAT
1 AAAAATTAT
*
86193 TAAAATTGAT
1 AAAAATT-AT
*
86203 ATAAACTTAT
1 A-AAAATTAT
*
86213 GAAAATTA-
1 AAAAATTAT
86221 AAAAA
1 AAAAA
86226 AAATCATAAA
Statistics
Matches: 164, Mismatches: 32, Indels: 43
0.69 0.13 0.18
Matches are distributed among these distances:
7 19 0.12
8 19 0.12
9 58 0.35
10 42 0.26
11 18 0.11
12 5 0.03
13 3 0.02
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:86012 original size:18 final size:18
Alignment explanation
Indices: 85989--86048 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 18
85979 TATTTTTCTC
*
85989 ATAAAAAACTAAAAAATT
1 ATAAAAAAATAAAAAATT
86007 ATAAAAAAATAAAAAA-T
1 ATAAAAAAATAAAAAATT
*
86024 A-AAAAATATTAAAAATATT
1 ATAAAAA-AATAAAAA-ATT
86043 -TAAAAA
1 ATAAAAA
86049 TATTTAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
16 5 0.14
17 9 0.25
18 16 0.44
19 6 0.17
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (18 bp):
ATAAAAAAATAAAAAATT
Found at i:86047 original size:25 final size:26
Alignment explanation
Indices: 85989--86038 Score: 77
Period size: 24 Copynumber: 2.0 Consensus size: 26
85979 TATTTTTCTC
85989 ATAAAAAACTAAAAAATTATAAAAAA
1 ATAAAAAACTAAAAAATTATAAAAAA
*
86015 ATAAAAAA-TAAAAAA-TATTAAAAA
1 ATAAAAAACTAAAAAATTATAAAAAA
86039 TATTTAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 8 0.35
25 7 0.30
26 8 0.35
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (26 bp):
ATAAAAAACTAAAAAATTATAAAAAA
Found at i:86059 original size:10 final size:10
Alignment explanation
Indices: 86025--86060 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
86015 ATAAAAAATA
86025 AAAAATA-TT
1 AAAAATATTT
86034 AAAAATATTT
1 AAAAATATTT
86044 AAAAATATTT
1 AAAAATATTT
86054 AAAAATA
1 AAAAATA
86061 GGAAAATTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 7 0.27
10 19 0.73
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (10 bp):
AAAAATATTT
Found at i:86066 original size:19 final size:19
Alignment explanation
Indices: 86025--86066 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
86015 ATAAAAAATA
**
86025 AAAAATATTAAAAATATTT
1 AAAAATATTAAAAATATGG
86044 AAAAATATTTAAAAATA-GG
1 AAAAATA-TTAAAAATATGG
86063 AAAA
1 AAAA
86067 TTGATATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.29
Consensus pattern (19 bp):
AAAAATATTAAAAATATGG
Found at i:86642 original size:21 final size:21
Alignment explanation
Indices: 86613--86652 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
86603 TTATATCAAC
86613 TTTAAAATT-TTTATATATTTT
1 TTTAAAATTATTTAT-TATTTT
*
86634 TTTACAATTATTTATTATT
1 TTTAAAATTATTTATTATT
86653 CTTAAAATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTAAAATTATTTATTATTTT
Found at i:86744 original size:19 final size:19
Alignment explanation
Indices: 86687--86758 Score: 67
Period size: 19 Copynumber: 3.9 Consensus size: 19
86677 TTTTAAATGT
*
86687 TTTATTA-ATTTTAGAAAA
1 TTTATTATATTTTATAAAA
* * *
86705 TTT-TTATAATTTATTAGA
1 TTTATTATATTTTATAAAA
*
86723 TTTATTATATTTTATAATA
1 TTTATTATATTTTATAAAA
* *
86742 TTTATAATTTTTTATAA
1 TTTATTATATTTTATAA
86759 GTTTAATAAA
Statistics
Matches: 43, Mismatches: 9, Indels: 3
0.78 0.16 0.05
Matches are distributed among these distances:
17 3 0.07
18 13 0.30
19 27 0.63
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (19 bp):
TTTATTATATTTTATAAAA
Found at i:86767 original size:19 final size:18
Alignment explanation
Indices: 86732--86834 Score: 66
Period size: 19 Copynumber: 5.4 Consensus size: 18
86722 ATTTATTATA
*
86732 TTTTATAATATTTATAATT
1 TTTTATAAT-TTAATAATT
86751 TTTTATAAGTTTAATAAATT
1 TTTTATAA-TTTAAT-AATT
*
86771 TATTTA-AATTTTAATATATA
1 T-TTTATAA-TTTAATA-ATT
* * **
86791 ATATATTTTTTAATAATT
1 TTTTATAATTTAATAATT
*
86809 TTTTATTATTTAAT-ATT
1 TTTTATAATTTAATAATT
86826 TTTTCATAA
1 TTTT-ATAA
86835 AAATATTATA
Statistics
Matches: 66, Mismatches: 12, Indels: 13
0.73 0.13 0.14
Matches are distributed among these distances:
17 7 0.11
18 16 0.24
19 23 0.35
20 16 0.24
21 4 0.06
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (18 bp):
TTTTATAATTTAATAATT
Found at i:86783 original size:20 final size:20
Alignment explanation
Indices: 86747--86786 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
86737 TAATATTTAT
86747 AATTTTTTATAAGTTTAATA
1 AATTTTTTATAAGTTTAATA
*
86767 AATTTATTTA-AATTTTAATA
1 AATTT-TTTATAAGTTTAATA
86787 TATAATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (20 bp):
AATTTTTTATAAGTTTAATA
Found at i:86815 original size:18 final size:17
Alignment explanation
Indices: 86794--86829 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
86784 ATATATAATA
*
86794 TATTTTTTAATAATTTTT
1 TATTATTTAAT-ATTTTT
86812 TATTATTTAATATTTTT
1 TATTATTTAATATTTTT
86829 T
1 T
86830 CATAAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
TATTATTTAATATTTTT
Found at i:86823 original size:30 final size:29
Alignment explanation
Indices: 86742--86834 Score: 86
Period size: 30 Copynumber: 3.2 Consensus size: 29
86732 TTTTATAATA
* *
86742 TTTATAATTTTTTATAAGTTTAATAAATTT
1 TTTATAATTTTTTATTA-TTTAATATATTT
* *
86772 ATTTA-AA--TTTTAATATATAATATATTT
1 -TTTATAATTTTTTATTATTTAATATATTT
86799 TTTAATAATTTTTTATTATTTAATAT-TTT
1 TTT-ATAATTTTTTATTATTTAATATATTT
*
86828 TTCATAA
1 TTTATAA
86835 AAATATTATA
Statistics
Matches: 51, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
26 3 0.06
27 11 0.22
28 12 0.24
29 5 0.10
30 16 0.31
31 4 0.08
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (29 bp):
TTTATAATTTTTTATTATTTAATATATTT
Found at i:88372 original size:2 final size:2
Alignment explanation
Indices: 88367--88393 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
88357 TATGTGAGTT
88367 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
88394 GCGTGTGTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:104920 original size:12 final size:12
Alignment explanation
Indices: 104903--104929 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
104893 AGGAGGAGGT
104903 AGAGAAAGAAGA
1 AGAGAAAGAAGA
104915 AGAGAAAGAAGA
1 AGAGAAAGAAGA
104927 AGA
1 AGA
104930 AAAACTTGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (12 bp):
AGAGAAAGAAGA
Found at i:105370 original size:17 final size:18
Alignment explanation
Indices: 105338--105388 Score: 56
Period size: 17 Copynumber: 3.0 Consensus size: 18
105328 CTCTTTTTAG
*
105338 TTAATTTTCA-TGCATTC
1 TTAATTGTCATTGCATTC
105355 TT-ATTGTGC-TTGCATT-
1 TTAATTGT-CATTGCATTC
105371 TTAATTGTCATTGCATTC
1 TTAATTGTCATTGCATTC
105389 CTTTCAGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 9
0.74 0.03 0.24
Matches are distributed among these distances:
16 7 0.25
17 21 0.75
ACGTcount: A:0.20, C:0.16, G:0.12, T:0.53
Consensus pattern (18 bp):
TTAATTGTCATTGCATTC
Found at i:109068 original size:589 final size:587
Alignment explanation
Indices: 107685--109524 Score: 2372
Period size: 589 Copynumber: 3.1 Consensus size: 587
107675 ACACCTATCA
* * * *
107685 AGACTCTAACTATTGAACCCATTAAGAATGACAATAAAATTACAAACTTCAGGTGTGGCCATTTG
1 AGACCCTAACTATTGAACCCATTAAGAACGACAACAAAATTACAAACTTCAGGTGTGACCATTTG
* * * * *
107750 ATAATCTTTGAAGACATAGATTAA-TCAGGATTTCGATTCAAAGTATTGGAGAAAAGTTTGAAAC
66 ATAATATTTGAAGACATAAATTAATTGA-GATTTCGGTTCAAAGTATTGGGGAAAAGTTTGAAAC
* *
107814 TGTTGTCAAGTACCTTAATAGGTAAGTACGTTTAATTTTGAGACTATGCATGATTAAATCTGAAA
130 TGTTGTCAAGTACCTTAATTGGTAAGTACGTTTATTTTTGAGACTATGCATGATTAAATCTGAAA
* * *
107879 AATTATACTTGTAAATAGGAAACTGTGTAAGAATGGTTGAATGTTTAAGGTAACACACG-GATGA
195 AATTGTACTTGTAAATAGGAAACTGTTTAAGAATGGTTGAATGTTTAGGGTAACACA-GAGATGA
* * *
107943 TATTCTGTTAAATGAAGAATCAAAACAAGGAATGTCAAATGTTTATGGGAAGAGATAGGATCATG
259 TATTCTGTTAAATGAAGAATCAAAACAAGGAATGCCAAATATTTATGGGAAGAGATAGGTTCATG
* * * *
108008 AATTTTTTTAGTTTAACGTTACTGAATTAATGATAGAGGAAGTTAAAACAATGGGATTCAACAAC
324 AATTTTTTTATTTTAACGTTACTGAATTAATGAAAGAGGAAGTTAAGA-AATGGAATTCAACAAC
* * * * *
108073 TTAGATAATGCACAATCGTTTTTTCTAAGCTATGCTCATATCTAAGCAGTGGAAGTTCATGTCAG
388 TTAGATGATGCACAATCGTTTTATCTAAGCTATGCTCATATCTAAGCAATGGAAGTTCACGTTAG
*
108138 ATTTAGTAGATAATTGTGTTATTACCGTTCCACCAATTCAACCAGTTCCATCTAAAAGCAAGGGA
453 ATTTTGTAGATAATTGTGTTATTACCGTTCCACCAATTCAACCAGTTCCATCTAAAAGCAAGGGA
* * * * *
108203 TTTTTCAGCAAAACTTCAACAGAAGGAAATACCA--CTCTCTTTATTGC-AATATACAAATCTAA
518 TTTTTCAGCGAAGCTTCAATAGAAAGAAATACCATTCTCTCTCTATTGCAAAT-TACAAATCT-A
108265 AAAATTT
581 AAAATTT
* * * * *
108272 AGACCCTAACTATTGAACCCATTGAGAATGACAACAAAATTAAAAACTTTAGGTGTGGCCA-TTG
1 AGACCCTAACTATTGAACCCATTAAGAACGACAACAAAATTACAAACTTCAGGTGTGACCATTTG
* *
108336 ATAATCA-TTGAAGACATAAATTAATCGAGATTTCCGTTCAAAGTATTGGGGAAAAGTTTGAAAC
66 ATAAT-ATTTGAAGACATAAATTAATTGAGATTTCGGTTCAAAGTATTGGGGAAAAGTTTGAAAC
* * * * *
108400 TATTGTCATGTACCTTAATTGGTAAGTATGTTTATTTTTAAGACTATGCAAGATTAAATCTGAAA
130 TGTTGTCAAGTACCTTAATTGGTAAGTACGTTTATTTTTGAGACTATGCATGATTAAATCTGAAA
* * *
108465 AATTGTACTTGTAAATA-GATAATTGTTTAAGAATGGTTGAATATTTAGGGTAACATAGAGATGA
195 AATTGTACTTGTAAATAGGA-AACTGTTTAAGAATGGTTGAATGTTTAGGGTAACACAGAGATGA
* * *
108529 TATTCTGTTAAATGAAAAATCAAAACAAGGAATGCCAAATATTTATGGGAAGGGACAGGTTCATG
259 TATTCTGTTAAATGAAGAATCAAAACAAGGAATGCCAAATATTTATGGGAAGAGATAGGTTCATG
* * *
108594 AATTTTTTTATTTTAATGTTACTAAATTAACGAAAGAGGAAGTTAAGGAAATGGAATTCAACAAC
324 AATTTTTTTATTTTAACGTTACTGAATTAATGAAAGAGGAAGTTAA-GAAATGGAATTCAACAAC
* * * *
108659 TTACATGATGCTCAACCGTTTTATCTAAGATATGCTCATATCTAAGCAATGGGAA-TTCACGTTA
388 TTAGATGATGCACAATCGTTTTATCTAAGCTATGCTCATATCTAAGCAAT-GGAAGTTCACGTTA
* * * * *
108723 AATTTTGATAGATAATTGTGTTATTACCATTCCACCAATTCAACCAATTCCATCTATAAGAAAGG
452 GATTTTG-TAGATAATTGTGTTATTACCGTTCCACCAATTCAACCAGTTCCATCTAAAAGCAAGG
* * *
108788 GATTTTTCAACGAAGCTTCAATAGAAAGAAATACCATTCTCTCTCTATTGCAAATTAAAAATCTG
516 GATTTTTCAGCGAAGCTTCAATAGAAAGAAATACCATTCTCTCTCTATTGCAAATTACAAATCTA
108853 AAAATTT
581 AAAATTT
** * * * * *
108860 AGATTCTAACTGTTAAACCTATTAAGAACGACACCAAAATTACAAACTTCAGGTGTAACCATTTG
1 AGACCCTAACTATTGAACCCATTAAGAACGACAACAAAATTACAAACTTCAGGTGTGACCATTTG
* * *
108925 ATAATATTTGAAGACATAAATTAATTGAGATTTTGGTTCAAAGTATTGGGGAATAGTTTGAATCT
66 ATAATATTTGAAGACATAAATTAATTGAGATTTCGGTTCAAAGTATTGGGGAAAAGTTTGAAACT
* * *
108990 GTTCTCAAGTACCTTAATTGGTAAGTACATTTATTTTTGAGACTATGCATGACTAAATCTGAAAA
131 GTTGTCAAGTACCTTAATTGGTAAGTACGTTTATTTTTGAGACTATGCATGATTAAATCTGAAAA
* **
109055 ATTGTACTTGTAAATAGGAAACTGTTTAAGAATGGTTGAATGTTTTGGAAAACACAGAGATGATA
196 ATTGTACTTGTAAATAGGAAACTGTTTAAGAATGGTTGAATGTTTAGGGTAACACAGAGATGATA
* * * * *
109120 TTCTATTTAATGAAGAGTCAAAATAAGGAATGCCAAATATTTATGGGAAGAGATGGGTTCATGAA
261 TTCTGTTAAATGAAGAATCAAAACAAGGAATGCCAAATATTTATGGGAAGAGATAGGTTCATGAA
* * * * * * *
109185 TTTTTTGATTTTAACATTATTGAATGAATGGAAGAGGAAGTTAAAGCAATGAAATTCAACAACTT
326 TTTTTTTATTTTAACGTTACTGAATTAATGAAAGAGGAAGTT-AAGAAATGGAATTCAACAACTT
* * * * ** * *
109250 AGATGATGCACAATCATTTTATCTATGCTATGCTTATATTTAAGCAATCAAAGTTCACGTTGGAC
390 AGATGATGCACAATCGTTTTATCTAAGCTATGCTCATATCTAAGCAATGGAAGTTCACGTTAGAT
* * * * * * * * * *
109315 TTTGTGGATAA-TGTTGTTATTACTGTTCCATCAATTCAATCGGTTCTAACTACAAGCAAGAGAC
455 TTTGTAGATAATTG-TGTTATTACCGTTCCACCAATTCAACCAGTTCCATCTAAAAGCAAGGGAT
* * * * *
109379 TTTTCAGCGAAAG-TTCAATGGAAAGAAATACCATTATTTCTCTATTGCAACA-TGCTAATCTAA
519 TTTTCAGCG-AAGCTTCAATAGAAAGAAATACCATTCTCTCTCTATTGCAA-ATTACAAATCTAA
109442 AAGATTT
582 AA-ATTT
* * * *
109449 AGACCCTAACTGTTGAACCCATTAAGAACGACAAAAAAATTACAAACTTCAAGTATGACCATTTG
1 AGACCCTAACTATTGAACCCATTAAGAACGACAACAAAATTACAAACTTCAGGTGTGACCATTTG
*
109514 ATAATCTTTGA
66 ATAATATTTGA
109525 TGGAAAGCAA
Statistics
Matches: 1080, Mismatches: 154, Indels: 36
0.85 0.12 0.03
Matches are distributed among these distances:
585 3 0.00
586 338 0.31
587 148 0.14
588 154 0.14
589 430 0.40
590 7 0.01
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.33
Consensus pattern (587 bp):
AGACCCTAACTATTGAACCCATTAAGAACGACAACAAAATTACAAACTTCAGGTGTGACCATTTG
ATAATATTTGAAGACATAAATTAATTGAGATTTCGGTTCAAAGTATTGGGGAAAAGTTTGAAACT
GTTGTCAAGTACCTTAATTGGTAAGTACGTTTATTTTTGAGACTATGCATGATTAAATCTGAAAA
ATTGTACTTGTAAATAGGAAACTGTTTAAGAATGGTTGAATGTTTAGGGTAACACAGAGATGATA
TTCTGTTAAATGAAGAATCAAAACAAGGAATGCCAAATATTTATGGGAAGAGATAGGTTCATGAA
TTTTTTTATTTTAACGTTACTGAATTAATGAAAGAGGAAGTTAAGAAATGGAATTCAACAACTTA
GATGATGCACAATCGTTTTATCTAAGCTATGCTCATATCTAAGCAATGGAAGTTCACGTTAGATT
TTGTAGATAATTGTGTTATTACCGTTCCACCAATTCAACCAGTTCCATCTAAAAGCAAGGGATTT
TTCAGCGAAGCTTCAATAGAAAGAAATACCATTCTCTCTCTATTGCAAATTACAAATCTAAAAAT
TT
Found at i:110323 original size:825 final size:827
Alignment explanation
Indices: 108724--110323 Score: 2147
Period size: 825 Copynumber: 1.9 Consensus size: 827
108714 TTCACGTTAA
* * *
108724 ATTTTGATAGATAATTGTGTTATTACCATTCCACCAATTCAACCAATTCCATCTATAAGAAAGGG
1 ATTTTGATAGATAATTGTGTTATTACCATTCCACCAATTCAACCAACTCCATCTACAAGAAAGGA
* * * * *
108789 ATTTTTCAACGAAGCTTCAATAGAAAGAAATACCATTCTCTCTCTATTGCAAATTAAAAATCTGA
66 AATTTCCAACGAAGCTTCAATAGAAAGAAATACCATCCTCTCTCTATTGCAAAGTAAAAATCTAA
* * * *
108854 AAATTTAGATTCTAACTGTTAAACCTATTAAGAACGACACCAAAATTACAAACTTCAGGTGTAAC
131 AAATTTAGACTCTAACTGTTAAACCCATTAAGAACGACAACAAAATTACAAACTTCAGGTATAAC
* * *
108919 CATTTGATAATATTTGAAGACATAAATTAATTGAGATTTTGGTTCAAAGTATTGGGGAATAGTTT
196 CATTTGATAATATTTGAAGACATAAATTAAGTGAGATTTTGATTCAAAGTATTGGGGAAAAGTTT
* * *
108984 GAATCTGTTCTCAAGTACCTTAATTGGTAAGTACATTTATTTTTGAGACTATGCATGACTAAATC
261 GAATCTGTTCTCAAATACCTTAATTGATAAGTACATTTATTTTTGAGACTATGCATGACTAAATA
109049 TGAAAAATTGTACTTGTAAATAGGAAACTGTTTAAGAATGGTTGAATGTTTTGGAAAACACAGAG
326 TGAAAAATTGTACTTGTAAATAGGAAACTGTTTAAGAATGGTTGAATGTTTTGGAAAACACAGAG
* * * * *
109114 ATGATATTCTATTTAATGAAGAGTCAAAATAAGGAATGCCAAATATTTATGGGAAGAGATGGGTT
391 ATGATATTCTATTAAATGAAGAATCAAAACAAAGAATGCCAAATATTTATGGGAAGAGATGGATT
* * * * * *
109179 CATGAATTTTTTGATTTTAACATTATTGAATGAATGGAAGAGGAAGTTAAAGCAATGAAATTCAA
456 CATGAATTTTTTGATTTTAACATTACTAAATGAATCGAAGAAGAAGTTAAAGAAATGAAACTCAA
* ** *
109244 CAACTTAGATGATGCACAATCATTTTATCTATGCTATGCTTATATTTAAGCAATCAAAGTTCACG
521 CAACTTAGATGATGCACAATCATTTTATCTAAGCTATGCTTATATTTAAAAAATCAAAGTTCACA
* ** * *
109309 TTGGACTTTGTGGATAATGTTGTTATTACTGTTCCATCAATTCAATCGGTTCTAACTACAAGCAA
586 TCGGACTTTGTAAATAATGTTGTTATTACCGTTCCACCAATTCAATCGGTTCTAACTACAAGCAA
* * *
109374 GAGACTTTTCAGCGAAAGTTCAATGGAAAGAAATACCATTATTTCTCTATTGCAACATGCTAATC
651 GAGACTTTTCAGCGAAAGTTCAATGAAAAGAAATACCATTATCTCTCTATTGCAACATACTAATC
* * * *
109439 TAAAAGATTTAGACCCTAACTGTTGAACCCATTAAGAACGACAAAAAAATTACAAACTTCAAGTA
716 TAAAAGATTTAGACCCTAACTATTGAACCCATTAAGAACAACAAAAAAAGTAAAAACTTCAAGTA
109504 TGACCATTTGATAATCTTTGATGGAAAGCAATTGGAGTTCACATTGT
781 TGACCATTTGATAATCTTTGATGGAAAGCAATTGGAGTTCACATTGT
* * * * *
109551 ATTTTTATAGATAATTGTGTTATTACCATTCCATCAATTCAATCGACTCCATTTACAAGAAA-GA
1 ATTTTGATAGATAATTGTGTTATTACCATTCCACCAATTCAACCAACTCCATCTACAAGAAAGGA
** * * * *
109615 AATTTCCAGTGAAGCTTTAATAGAAAGAAATACCATCCTCTCTCTATTGCAACGTAGAAGTCTAA
66 AATTTCCAACGAAGCTTCAATAGAAAGAAATACCATCCTCTCTCTATTGCAAAGTAAAAATCT-A
* *
109680 AAAATTTATAC-CTTAACTGTTAAACCCATTGAA-AATGACAACAAAATTACAAACTTCAGGTAT
130 AAAATTTAGACTC-TAACTGTTAAACCCATT-AAGAACGACAACAAAATTACAAACTTCAGGTAT
** * *
109743 GGCCATTTGATAATCTTTGAAGACATAGATTAAGTGAGATTTTGATTCAAAGTATTGGGGAAAAG
193 AACCATTTGATAATATTTGAAGACATAAATTAAGTGAGATTTTGATTCAAAGTATTGGGGAAAAG
* *
109808 TTTGAAAT-TGTTGTCAAATACCTT-ATCAT-ATAA-TACGA-TTATTTTTTAGACTATGCATGA
258 TTTG-AATCTGTTCTCAAATACCTTAAT--TGATAAGTAC-ATTTATTTTTGAGACTATGCATGA
* * *
109868 TTAAATATGCATAATTGTACTTGTAAATAGGAAACTGTTTAAGAATGGTTGAATGTTTAT-GAAA
319 CTAAATATGAAAAATTGTACTTGTAAATAGGAAACTGTTTAAGAATGGTTGAATGTTT-TGGAAA
* *
109932 ACACAGAGATGATATTTTGTTAAATGAAGAATCAAAACAAAGAATGCCAAATATTTATGGGAAGA
383 ACACAGAGATGATATTCTATTAAATGAAGAATCAAAACAAAGAATGCCAAATATTTATGGGAAGA
* * *
109997 GATGGATTTATGAATTTTTT-ATTTTAACATTACTAAATTAA-CGATAGAAGAAGTTAAATAAAT
448 GATGGATTCATGAATTTTTTGATTTTAACATTACTAAATGAATCGA-AGAAGAAGTTAAAGAAAT
* * * *
110060 GGAACTCTAA-AACTTAGATGATGCTCAATCGTTTTATCTAAGCTATGCTTATATTTAAAAAATG
512 GAAACTC-AACAACTTAGATGATGCACAATCATTTTATCTAAGCTATGCTTATATTTAAAAAATC
* * * *
110124 AAAGTTCACATCGTATTTTGTAAATAAT-TGTGTTATTACCGTTCCACCAATTC-AGCTGATT-T
576 AAAGTTCACATCGGACTTTGTAAATAATGT-TGTTATTACCGTTCCACCAATTCAATC-GGTTCT
* * *
110186 CATCTACAAGCAA-AGTATTTTTCAGCG-AAGCTTCAATGAAAAGAAATACCATTCTCTCTCTAT
639 -AACTACAAGCAAGAG-ACTTTTCAGCGAAAG-TTCAATGAAAAGAAATACCATTATCTCTCTAT
* * * *
110249 TGCAACATACTAATCTGAATA-ATTTAGACTCTAACTATTGAACCCATTGAGAACAACAACAAAA
701 TGCAACATACTAATCT-AAAAGATTTAGACCCTAACTATTGAACCCATTAAGAACAACAAAAAAA
110313 GTAAAAACTTC
765 GTAAAAACTTC
110324 TAGCCATTTG
Statistics
Matches: 670, Mismatches: 87, Indels: 34
0.85 0.11 0.04
Matches are distributed among these distances:
824 11 0.02
825 244 0.36
826 221 0.33
827 188 0.28
828 6 0.01
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.33
Consensus pattern (827 bp):
ATTTTGATAGATAATTGTGTTATTACCATTCCACCAATTCAACCAACTCCATCTACAAGAAAGGA
AATTTCCAACGAAGCTTCAATAGAAAGAAATACCATCCTCTCTCTATTGCAAAGTAAAAATCTAA
AAATTTAGACTCTAACTGTTAAACCCATTAAGAACGACAACAAAATTACAAACTTCAGGTATAAC
CATTTGATAATATTTGAAGACATAAATTAAGTGAGATTTTGATTCAAAGTATTGGGGAAAAGTTT
GAATCTGTTCTCAAATACCTTAATTGATAAGTACATTTATTTTTGAGACTATGCATGACTAAATA
TGAAAAATTGTACTTGTAAATAGGAAACTGTTTAAGAATGGTTGAATGTTTTGGAAAACACAGAG
ATGATATTCTATTAAATGAAGAATCAAAACAAAGAATGCCAAATATTTATGGGAAGAGATGGATT
CATGAATTTTTTGATTTTAACATTACTAAATGAATCGAAGAAGAAGTTAAAGAAATGAAACTCAA
CAACTTAGATGATGCACAATCATTTTATCTAAGCTATGCTTATATTTAAAAAATCAAAGTTCACA
TCGGACTTTGTAAATAATGTTGTTATTACCGTTCCACCAATTCAATCGGTTCTAACTACAAGCAA
GAGACTTTTCAGCGAAAGTTCAATGAAAAGAAATACCATTATCTCTCTATTGCAACATACTAATC
TAAAAGATTTAGACCCTAACTATTGAACCCATTAAGAACAACAAAAAAAGTAAAAACTTCAAGTA
TGACCATTTGATAATCTTTGATGGAAAGCAATTGGAGTTCACATTGT
Found at i:110801 original size:586 final size:584
Alignment explanation
Indices: 109529--113684 Score: 3868
Period size: 590 Copynumber: 7.1 Consensus size: 584
109519 CTTTGATGGA
* * * *
109529 AAGCAATTGG-AGTTCACATTGTATTTTTATAGATAATTGTGTTATTACCATTCCATCAATTCAA
1 AAGCAA-TGGAAGTTCACGTTGGA-TTTTGT-GATAATTGTGTTATTACCATTCCACCAATTCAA
* ** * * * * ** * * *
109593 TC-GACTCCATTTACAAG-AAAGAAATTTCCAGTGAAGCTTTAAT-AGAAAGAAATACCATCCTC
63 CCTGTTTCAATCTACAAGCAAAGGATTTTTTAGCGAAGCTTCAATGA-AAAGAAATACCATTCTC
* * * * * * * *
109655 TCTCTATTGCAACGTA-GAAGTCTAAAAAATTTATAC-CTTAACTGTTAAACCCATTGAAAATGA
127 TCTCTATTGCAACATACTAA-TCT-GAAAATTTAGACTC-TAACTATTGAACCCATTGAGAACGA
109718 CAACAAAATTACAAACTTCAGGTATGGCCATTTGATAATCTTTGAAGACATAGATTAAGT-GAGA
189 CAACAAAATTACAAACTTCA--TA-GGCCATTTGATAATCTTTGAAGACATAGATTAA-TCGAGA
* * * * *
109782 TTTTGATTCAAAGTATTGGGGAAAAGTTTGAAATTGTTGTCAAATACCTT-ATCAT-ATAA-TAC
250 TTTCGGTTCAAAGTATTGGGGAAAAGTTTGAAACTGTTGTCAAGTACCTTAAT--TGGTAAGTAC
* * * *
109844 GATTATTTTT-TAGACTATGCATGATTAAATATGCATAATTGTACTTGTAAATAGGAAACTGTTT
313 GTTTATTTTTGT-GACTATGCATGATTAAATCTGAAAAATTGTACTTGTAAATAGGAAACTGTTT
* ** * *
109908 AAGAATGGTTGAATGTTTATGAAAACACAGAGATGATATTTTGTTAAATGAAGAATCAAAACAAA
377 AAGAATGGTTGAATGTTTAGGGCAACACAGAGATGATATTCTGTTAAATGAAGAATCAAAACAAG
* * * *
109973 GAATGCCAAATATTTATGGGAAGAGATGGATTTATGAA-TTTTTTATTTTAACATTACTAAATTA
442 GAATGCCAAATATTTATGGGAAGAGACGGGTTCATGAATTTTTTTATTTTAACGTTACTAAATTA
* * *
110037 ACGATAGAAGAAGTTAAATAAATGGAACTCTAA-AACTTAGATGATGCTCAATCGTTTTATCTAA
507 ACGATAGAGGAAGTTAAAGAAATGGAAATC-AACAACTTAGATGATGCT-AATCGTTTTATCTAA
* *
110101 GCTATGCTTATATTT
570 GCTATGCTCATATCT
** * * * * * * *
110116 AAAAAATGAAAGTTCACATCGTATTTTGTAAATAATTGTGTTATTACCGTTCCACCAATTC-AGC
1 AAGCAATGGAAGTTCACGTTGGATTTTGT-GATAATTGTGTTATTACCATTCCACCAATTCAACC
* *
110180 TGATTTC-ATCTACAAGCAAAGTATTTTTCAGCGAAGCTTCAATGAAAAGAAATACCATTCTCTC
65 TG-TTTCAATCTACAAGCAAAGGATTTTTTAGCGAAGCTTCAATGAAAAGAAATACCATTCTCTC
*
110244 TCTATTGCAACATACTAATCTGAATAATTTAGACTCTAACTATTGAACCCATTGAGAACAACAAC
129 TCTATTGCAACATACTAATCTGAA-AATTTAGACTCTAACTATTGAACCCATTGAGAACGACAAC
* * *
110309 AAAAGTAAAAACTTC-TA-GCCATTTGATAATATTTGAAGACATAGATTAATCGAGATTTCGGTT
193 AAAATTACAAACTTCATAGGCCATTTGATAATCTTTGAAGACATAGATTAATCGAGATTTCGGTT
* * *
110372 CAAAATATTGGCGGAAAGGTTTGAAACTGTTGTCAAGTATCTTAATTGGTAAGTACGTTTATTTT
258 CAAAGTATTGG-GGAAAAGTTTGAAACTGTTGTCAAGTACCTTAATTGGTAAGTACGTTTATTTT
* * * *
110437 TGTGACTATGTATGATTAAATCTGAAAAATTATCCTTGTAAATAGGAAATTGTTTAAGAATGGTT
322 TGTGACTATGCATGATTAAATCTGAAAAATTGTACTTGTAAATAGGAAACTGTTTAAGAATGGTT
* * *
110502 GAATGTTTAGGGCAACATAGAGATGATATTCTATTAAATGAAGAATCAAAACAATGAATGCCAAA
387 GAATGTTTAGGGCAACACAGAGATGATATTCTGTTAAATGAAGAATCAAAACAAGGAATGCCAAA
* ** * *
110567 TAATTT-TGGGAAGTGAAAGATTCATGAATTTTTTTTATTTTAACGTTACTAAATTAATGATAGA
452 T-ATTTATGGGAAGAGACGGGTTCATGAA-TTTTTTTATTTTAACGTTACTAAATTAACGATAGA
* * *
110631 GGAAGTTAAAGCAATGGAAATCAATAACTTAGATGATGCATAATCGTTTTATCTAAGCTATACTC
515 GGAAGTTAAAGAAATGGAAATCAACAACTTAGATGATGC-TAATCGTTTTATCTAAGCTATGCTC
110696 ATATCT
579 ATATCT
*
110702 AAGCAATGGAAGTTCACGTTGGATTTTGTGCATAATTGTGTTATTACCGTTCCACCAATTCAACC
1 AAGCAATGGAAGTTCACGTTGGATTTTGTG-ATAATTGTGTTATTACCATTCCACCAATTCAACC
* ** * * ** *
110767 TGTTTTAAT-TACAAGCAAATAATTTTTTAGCGAAGCTTCAATGGAAAGAAGTTTCGTTCTCTCT
65 TGTTTCAATCTACAAGCAAAGGATTTTTTAGCGAAGCTTCAATGAAAAGAAATACCATTCTCTCT
* * * * * *
110831 GTATTGCAACATTA-TAATTTGAAGATTTAGACCCTAACTGTTG-ACCTCATTCAGAACGACAAC
130 CTATTGCAACA-TACTAATCTGAAAATTTAGACTCTAACTATTGAACC-CATTGAGAACGACAAC
* **
110894 AAAATTACAAACTTTCAATAGGACCATTTGATAATATTTGAAGACATAGATTAAT----ATTTTA
193 AAAATTACAAAC-TTC-ATAGG-CCATTTGATAATCTTTGAAGACATAGATTAATCGAGATTTCG
* * * * * *
110955 GTTTAAAGTATTGGGGAATATTTTGAAGCTGTTGTGAAGTACCTTAATTGGTAAATACGTTTATT
255 GTTCAAAGTATTGGGGAAAAGTTTGAAACTGTTGTCAAGTACCTTAATTGGTAAGTACGTTTATT
* *
111020 TTT-TAGACTATGCATGATTAAATTTGAAAAATTGTACTTGTAAAATAGGAAACTGTTCAAGAAT
320 TTTGT-GACTATGCATGATTAAATCTGAAAAATTGTACTTGT-AAATAGGAAACTGTTTAAGAAT
* * * * * * * *
111084 GGCTGAATATTTAGGGTAACATAGAGATGATATTCTATTAAATGATGAATCAAAACGAGGAATGA
383 GGTTGAATGTTTAGGGCAACACAGAGATGATATTCTGTTAAATGAAGAATCAAAACAAGGAATGC
* *
111149 CAAATATTTATGGGAAGAGACGGGTTCATGAATTTTTTGATTTTAACGTTACTAAATTAACGACA
448 CAAATATTTATGGGAAGAGACGGGTTCATGAATTTTTTTATTTTAACGTTACTAAATTAACGATA
* * **
111214 GAGGAAGTTAAAGCAATGGAATTCAACAACTTAGATGATGCTCAATCAATTTATCTAAGCTA---
513 GAGGAAGTTAAAGAAATGGAAATCAACAACTTAGATGATGCT-AATCGTTTTATCTAAGCTATGC
**
111276 T-A-ATGG
577 TCATATCT
* * * **
111282 AAG---TGTACA--TCA---T--ATTTTTATAGATAA-T-T-TTATTACCATTCCATCAATTTTA
1 AAGCAATGGA-AGTTCACGTTGGA-TTTTGT-GATAATTGTGTTATTACCATTCCACCAATTCAA
* * *
111334 CC-GGTTCAATCTACAAGC-AAGG-GTTTTTAGTGAAGCTTCAATTG-AAAGAAATACCATTCTC
63 CCTGTTTCAATCTACAAGCAAAGGATTTTTTAGCGAAGCTTCAA-TGAAAAGAAATACCATTCTC
* * ** * *
111395 TCTTTATTGAAACATAAAAATCTGAAAATTTTAGA-TCATAAC-AGTTAAACCCTTTGAGAACGA
127 TCTCTATTGCAACATACTAATCTGAAAA-TTTAGACTC-TAACTA-TTGAACCCATTGAGAACGA
* * * * *
111458 CAACAAAATTACAAAGTTTAGATGTGGCCATCTT-ATAATCTTTGAAGACTTAGATTAATTGAGA
189 CAACAAAATTACAAA-CTT-CAT-AGGCCAT-TTGATAATCTTTGAAGACATAGATTAATCGAGA
* *
111522 TTTTGGTTCAAAGTATTGGGGAAAAGTTTGAAACT-AT-T---G-----T-ATTGGTAAGTACGT
250 TTTCGGTTCAAAGTATTGGGGAAAAGTTTGAAACTGTTGTCAAGTACCTTAATTGGTAAGTACGT
*
111576 TTATTTTT-TAGACTATGCATGATTAAATCTGAAAAATTATACTTGTAAATAGGAAACTGTTTAA
315 TTATTTTTGT-GACTATGCATGATTAAATCTGAAAAATTGTACTTGTAAATAGGAAACTGTTTAA
* * * * * * *
111640 GATTGGTTGAATGTTTAAGGTAATACATAGATGATATTCTGGTAAATGAATAATCAAAACAAGGA
379 GAATGGTTGAATGTTTAGGGCAACACAGAGATGATATTCTGTTAAATGAAGAATCAAAACAAGGA
* * * * * *
111705 ATGCTAAATATTTATGAGAAGAGATGGGTTCAGGAATTTTTTTATTTTAACGTCAATAAATTAAC
444 ATGCCAAATATTTATGGGAAGAGACGGGTTCATGAATTTTTTTATTTTAACGTTACTAAATTAAC
* * * * * * * * *
111770 GATCGAGGAAGTTAAAGTAAT-AAAATTCAATAACTTACACGACGCACAATCGTTTTATTTAAGC
509 GATAGAGGAAGTTAAAGAAATGGAAA-TCAACAACTTAGATGATGC-TAATCGTTTTATCTAAGC
111834 TATGCTCATATCT
572 TATGCTCATATCT
* *** * ***
111847 AAGCAATGGAAGTTCACCTCAAATTTTGTGGATATTTGTGTTATTATTGTTCCACCAATTCAA-C
1 AAGCAATGGAAGTTCACGTTGGATTTTGT-GATAATTGTGTTATTACCATTCCACCAATTCAACC
* * * * * * * * *
111911 TGGTTCCATCTAAAAGCAAGGGATTTTTTAGTGAAACTTCAACGGAATGAAATACCATTCTCTCT
65 TGTTTCAATCTACAAGCAAAGGATTTTTTAGCGAAGCTTCAATGAAAAGAAATACCATTCTCTCT
* * * * * * *
111976 CTATTGTAACATACTAATTTGAAAATTTTAGAC-CAAAATTGTTAAACCCATTAAGAACGACAAC
130 CTATTGCAACATACTAATCTGAAAA-TTTAGACTC-TAACTATTGAACCCATTGAGAACGACAAC
* * * * *
112040 AAAATTACAAACTTTAGGTGTGGTCATTTGATAATCTTTGAAGACATAGATTTATCGATATTTCG
193 AAAATTACAAACTTCA--T-AGGCCATTTGATAATCTTTGAAGACATAGATTAATCGAGATTTCG
* * * * * * * * *
112105 ATTCAAAGTACTGGGGAAAAAGGTTGAAACTATTGTCATGTTCCTTAATTGATTAA-TGCGATTA
255 GTTCAAAGTATTGGGG-AAAAGTTTGAAACTGTTGTCAAGTACCTTAATTG-GTAAGTACGTTTA
* * * * *
112169 TTTTTGAGACTATACATGATTAAATATGAAAAATTGTACTTGTAAATATGAAACTCTTTAAGAAT
318 TTTTTGTGACTATGCATGATTAAATCTGAAAAATTGTACTTGTAAATAGGAAACTGTTTAAGAAT
* * * * * *
112234 GGTTGAATGTTTAAGGAAACACAGAGATGATATTCTATTAATTGAAGAATCAAAATAAGAAATGC
383 GGTTGAATGTTTAGGGCAACACAGAGATGATATTCTGTTAAATGAAGAATCAAAACAAGGAATGC
* * * *
112299 CAAATATTTATGGGAAGAGACAGGTTCATGAATTTTTTGATTTTAACGTTACTAAATTAATGACA
448 CAAATATTTATGGGAAGAGACGGGTTCATGAATTTTTTTATTTTAACGTTACTAAATTAACGATA
* * * * * * * *
112364 AAGGAAGTTAAATAAATGGAATTCAACAATTTAGATGATACTAAATCATTTTATCTAAGATGTGC
513 GAGGAAGTTAAAGAAATGGAAATCAACAACTTAGATGATGCT-AATCGTTTTATCTAAGCTATGC
112429 TCATATCT
577 TCATATCT
* ** **
112437 AAGCAATGGAAGTTTATATCAGATTTTGTAGATAATTGTGTTATTACCATTCCACCAATTCAA-C
1 AAGCAATGGAAGTTCACGTTGGATTTTGT-GATAATTGTGTTATTACCATTCCACCAATTCAACC
* * * * * *
112501 TGATTCCATTTACAATC-AAGAGATTTTTTTAGCGAAGCTTCAAGGGAAAAAAAAATACCA-T-T
65 TGTTTCAATCTACAAGCAAAG-GA-TTTTTTAGCGAAGCTTCAA-TG-AAAAGAAATACCATTCT
* * * * * *
112563 CTCTCTATTGCAATATACTAATCTAAAAAATTTAGACCCTTATTATTGAACCCATTGAGAACGTC
126 CTCTCTATTGCAACATACTAATCT-GAAAATTTAGACTCTAACTATTGAACCCATTGAGAACGAC
* * *
112628 AACAAAATTACAAATTTCAAGTGTGGCCATTTGATAATCTTTGAAGACATTGATTAATCGAGATT
190 AACAAAATTACAAACTTC-A-T-AGGCCATTTGATAATCTTTGAAGACATAGATTAATCGAGATT
* *
112693 TCGGTTCAAGGTATTGGGGAAAAGTTTGAAATTGTTGTCAAGTACCTTAATTGGTAAGTACGTTT
252 TCGGTTCAAAGTATTGGGGAAAAGTTTGAAACTGTTGTCAAGTACCTTAATTGGTAAGTACGTTT
** * * * * ** * *
112758 ATTTTTGACACCATACATGATTAAATTTGAAAAATAGTACTTAAAAATTGGAAACTATTTAAGAA
317 ATTTTTGTGACTATGCATGATTAAATCTGAAAAATTGTACTTGTAAATAGGAAACTGTTTAAGAA
* * * * ** * *
112823 TGGTAGAATGTTTAGGGCAAAACAAAGATGATATTTTGTGGAATGAAAAATCAAAACAGGGAATG
382 TGGTTGAATGTTTAGGGCAACACAGAGATGATATTCTGTTAAATGAAGAATCAAAACAAGGAATG
* * *
112888 CCAAATATTTATAGGAAGAG--GGGTTCATG-ATTTTTTTATTTTACCTTTACTAAATTAACGAT
447 CCAAATATTTATGGGAAGAGACGGGTTCATGAATTTTTTTATTTTAACGTTACTAAATTAACGAT
* * *
112950 AGAGGAAGTTAAAGAAAT-GAAACTCAACAACTTAGATGATCCTTAATTGTTTTATCTAAGTTAT
512 AGAGGAAGTTAAAGAAATGGAAA-TCAACAACTTAGATGATGC-TAATCGTTTTATCTAAGCTAT
* *
113014 GGTCATATAT
575 GCTCATATCT
* * * * *
113024 AAGCAAAGGAAGTTCTCGTTGTATTTTTATAGATAATTGTGTTATTACCATTCCACCAATTCAAT
1 AAGCAATGGAAGTTCACGTTGGA-TTTTGT-GATAATTGTGTTATTACCATTCCACCAATTCAAC
* * * * * * * *
113089 C-GATGCCATCTACAAGCAAGGGGTTTTTTTAACGAAGCTTCAA-CATAAAGAAATACAATTCTC
64 CTGTTTCAATCTACAAGCAA-AGGATTTTTTAGCGAAGCTTCAATGA-AAAGAAATACCATTCTC
* * * *
113152 TCTCTATTGCAACATTCTAATCTGAAAAATTTAGAAAAGTTTAGACCCTAATTGTTAAAGCCATT
127 TCTCTATTGCAACATACTAATCTG-AAAATTTAG---ACTCTA-A--CT-ATTG---AACCCATT
* *
113217 GAAAACGACAACAAAATTACAAACTTCA-AGTGCGACCATTTGATAATCTTTAAAGACATAGATT
181 GAGAACGACAACAAAATTACAAACTTCATA--G-G-CCATTTGATAATCTTTGAAGACATAGATT
* * * *
113281 AATTGAGATTTCGATTCAAAGTACTGGGGAAAAGTTTGAAACTGTTGTGAAGTACCTTAATTGGT
242 AATCGAGATTTCGGTTCAAAGTATTGGGGAAAAGTTTGAAACTGTTGTCAAGTACCTTAATTGGT
* * * * * *
113346 ATGTACGTTAAATTTTGAGAATATGCATGATTAAATCTGAAAAAATTGTACTTGTAAATAAGAAA
307 AAGTACGTTTATTTTTGTGACTATGCATGATTAAATCTG-AAAAATTGTACTTGTAAATAGGAAA
* * * * *
113411 TTGTTTAAGAATGGTTGAATATTTTGGGCAACATAGAGATGATATTTTGTTAAATGAAGAATCAA
371 CTGTTTAAGAATGGTTGAATGTTTAGGGCAACACAGAGATGATATTCTGTTAAATGAAGAATCAA
* *
113476 AACAAGGAACGCCAAATA-TT-TGTG-AGA-A---G---A-G---------A---T---GTTACT
436 AACAAGGAATGCCAAATATTTATGGGAAGAGACGGGTTCATGAATTTTTTTATTTTAACGTTACT
* * *
113515 AAATTAATGGA-AGAGGAAGTTAAAGTAAT-GAAATTCAACAACTTAGATGATGCGCAATCGTTT
501 AAATTAA-CGATAGAGGAAGTTAAAGAAATGGAAA-TCAACAACTTAGATGATGC-TAATCGTTT
*
113578 TATCTAAGCTATGCTTATATCT
563 TATCTAAGCTATGCTCATATCT
* * *
113600 AAGCAATGGAATTTCACGTTGGACTTTGTGGATAATTGTGTTATTACTATTCCACCAATTCAACC
1 AAGCAATGGAAGTTCACGTTGGATTTTGT-GATAATTGTGTTATTACCATTCCACCAATTCAACC
113665 T-TTTCTAA-CTACAAG-AAAGG
65 TGTTTC-AATCTACAAGCAAAGG
113685 GATGGATAAT
Statistics
Matches: 2965, Mismatches: 471, Indels: 280
0.80 0.13 0.08
Matches are distributed among these distances:
559 2 0.00
560 176 0.06
561 57 0.02
562 1 0.00
563 1 0.00
564 1 0.00
565 5 0.00
566 2 0.00
567 53 0.02
568 81 0.03
569 38 0.01
570 2 0.00
571 3 0.00
572 40 0.01
573 13 0.00
574 4 0.00
575 48 0.02
576 131 0.04
577 13 0.00
578 152 0.05
579 14 0.00
580 6 0.00
581 3 0.00
582 54 0.02
583 30 0.01
584 154 0.05
585 220 0.07
586 392 0.13
587 228 0.08
588 117 0.04
589 10 0.00
590 494 0.17
591 147 0.05
592 9 0.00
593 10 0.00
594 2 0.00
595 4 0.00
596 4 0.00
597 4 0.00
598 150 0.05
599 90 0.03
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.34
Consensus pattern (584 bp):
AAGCAATGGAAGTTCACGTTGGATTTTGTGATAATTGTGTTATTACCATTCCACCAATTCAACCT
GTTTCAATCTACAAGCAAAGGATTTTTTAGCGAAGCTTCAATGAAAAGAAATACCATTCTCTCTC
TATTGCAACATACTAATCTGAAAATTTAGACTCTAACTATTGAACCCATTGAGAACGACAACAAA
ATTACAAACTTCATAGGCCATTTGATAATCTTTGAAGACATAGATTAATCGAGATTTCGGTTCAA
AGTATTGGGGAAAAGTTTGAAACTGTTGTCAAGTACCTTAATTGGTAAGTACGTTTATTTTTGTG
ACTATGCATGATTAAATCTGAAAAATTGTACTTGTAAATAGGAAACTGTTTAAGAATGGTTGAAT
GTTTAGGGCAACACAGAGATGATATTCTGTTAAATGAAGAATCAAAACAAGGAATGCCAAATATT
TATGGGAAGAGACGGGTTCATGAATTTTTTTATTTTAACGTTACTAAATTAACGATAGAGGAAGT
TAAAGAAATGGAAATCAACAACTTAGATGATGCTAATCGTTTTATCTAAGCTATGCTCATATCT
Found at i:113720 original size:59 final size:59
Alignment explanation
Indices: 113628--113746 Score: 229
Period size: 59 Copynumber: 2.0 Consensus size: 59
113618 TTGGACTTTG
113628 TGGATAATTGTGTTATTACTATTCCACCAATTCAACCTTTTCTAACTACAAGAAAGGGA
1 TGGATAATTGTGTTATTACTATTCCACCAATTCAACCTTTTCTAACTACAAGAAAGGGA
*
113687 TGGATAATTGTGTTATTACTGTTCCACCAATTCAACCTTTTCTAACTACAAGAAAGGGA
1 TGGATAATTGTGTTATTACTATTCCACCAATTCAACCTTTTCTAACTACAAGAAAGGGA
113746 T
1 T
113747 TTTTTAGGGA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.34
Consensus pattern (59 bp):
TGGATAATTGTGTTATTACTATTCCACCAATTCAACCTTTTCTAACTACAAGAAAGGGA
Found at i:115765 original size:16 final size:17
Alignment explanation
Indices: 115744--115791 Score: 71
Period size: 16 Copynumber: 2.8 Consensus size: 17
115734 TTATAGAAAA
115744 TTTCTTTCTTTTTCT-T
1 TTTCTTTCTTTTTCTAT
115760 TTTCTTTCTTTTTCTCAT
1 TTTCTTTCTTTTTCT-AT
*
115778 TTTGTTTCTTTTTC
1 TTTCTTTCTTTTTC
115792 AAATGACTCT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
16 15 0.52
18 14 0.48
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.77
Consensus pattern (17 bp):
TTTCTTTCTTTTTCTAT
Found at i:124767 original size:13 final size:14
Alignment explanation
Indices: 124749--124778 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
124739 GTCAATGCAA
124749 TCAGA-GTTAAATG
1 TCAGAGGTTAAATG
124762 TCAGAGGTTAAATG
1 TCAGAGGTTAAATG
124776 TCA
1 TCA
124779 ATGTACTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.30
Consensus pattern (14 bp):
TCAGAGGTTAAATG
Found at i:131920 original size:2 final size:2
Alignment explanation
Indices: 131913--131963 Score: 66
Period size: 2 Copynumber: 24.5 Consensus size: 2
131903 ACATACATTC
* *
131913 AT AT AT AT AT AT AT AT AC AT AT AGT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT
131956 AGT AT AT A
1 A-T AT AT A
131964 ATGATAAATA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
2 39 0.91
3 4 0.09
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (2 bp):
AT
Found at i:131942 original size:21 final size:21
Alignment explanation
Indices: 131916--131963 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
131906 TACATTCATA
131916 TATATATATATATACATATAG
1 TATATATATATATACATATAG
131937 TATATATATATATACATATAG
1 TATATATATATATACATATAG
131958 TATATA
1 TATATA
131964 ATGATAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (21 bp):
TATATATATATATACATATAG
Found at i:137641 original size:12 final size:12
Alignment explanation
Indices: 137619--137656 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
137609 GGAGGTGATC
137619 AAGAGAAAGAAG
1 AAGAGAAAGAAG
137631 AAG-GAAAAGAAG
1 AAGAG-AAAGAAG
137643 AAGAGAAAGAAG
1 AAGAGAAAGAAG
137655 AA
1 AA
137657 ACAGTACCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 1 0.04
12 22 0.92
13 1 0.04
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (12 bp):
AAGAGAAAGAAG
Found at i:144515 original size:2 final size:2
Alignment explanation
Indices: 144508--144533 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
144498 AAATCAAAAT
144508 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
144534 ATTTTATAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:148723 original size:29 final size:29
Alignment explanation
Indices: 148691--148954 Score: 161
Period size: 30 Copynumber: 8.8 Consensus size: 29
148681 CCCTCGAACC
* ** * *
148691 TTTCCAAAATTTCATTTTGGCCCTTAAGT
1 TTTCCAAAATTACATTTTAACCCTAAACT
*
148720 TTTCCAAAATTACATTTAAACCCTAAACT
1 TTTCCAAAATTACATTTTAACCCTAAACT
* *
148749 TTACCAAAATTACATTTTAACCCCTAAATT
1 TTTCCAAAATTACATTTTAA-CCCTAAACT
* *
148779 TTTCCAAAATTACATTTTGATCCATAAACT
1 TTTCCAAAATTACATTTT-AACCCTAAACT
* * * * * *
148809 TCTCCAAAATCACATTTTCATCCTTGAACC
1 TTTCCAAAATTACATTTT-AACCCTAAACT
* * *
148839 TTTCTAAAATTACATTTTGACCCCCCTAAGCT
1 TTTCCAAAATTACATTTT-A--ACCCTAAACT
* * * *
148871 TCTCCAAAATCACGTTTTGACCCTCAAAC-
1 TTTCCAAAATTACATTTTAACCCT-AAACT
* * * * *
148900 CTTCCTAAAAATCATATTTTTACCTTAAACT
1 TTTCC--AAAATTACATTTTAACCCTAAACT
* * *
148931 TCTCCAAAATCACATTTTGACCCT
1 TTTCCAAAATTACATTTTAACCCT
148955 GTATTCTTTG
Statistics
Matches: 181, Mismatches: 46, Indels: 16
0.74 0.19 0.07
Matches are distributed among these distances:
29 64 0.35
30 79 0.44
31 19 0.10
32 19 0.10
ACGTcount: A:0.33, C:0.27, G:0.04, T:0.37
Consensus pattern (29 bp):
TTTCCAAAATTACATTTTAACCCTAAACT
Found at i:148824 original size:60 final size:58
Alignment explanation
Indices: 148676--148953 Score: 202
Period size: 60 Copynumber: 4.6 Consensus size: 58
148666 ACGTGTCCCA
* ** * * **
148676 TTTGACCCTCGAACCTT-TCCAAAATTTCATTTTGGCCCTTAAGTTTTCCAAAATTACAT
1 TTTGACCCT--AAACTTCTCCAAAATCACATTTTGACCCCTAAACTTTCCAAAATTACAT
** * * *
148735 TTAAACCCTAAACTT-TACCAAAATTACATTTTAACCCCTAAATTTTTCCAAAATTACAT
1 TTTGACCCTAAACTTCT-CCAAAATCACATTTTGACCCCTAAA-CTTTCCAAAATTACAT
* * * * * *
148794 TTTGATCCATAAACTTCTCCAAAATCACATTTTCATCCTTGAACCTTTCTAAAATTACAT
1 TTTGA-CCCTAAACTTCTCCAAAATCACATTTTGACCCCT-AAACTTTCCAAAATTACAT
* * * * *
148854 TTTGACCCCCCTAAGCTTCTCCAAAATCACGTTTTGA-CCCTCAAACCTTCCTAAAAATCATAT
1 TTTGA---CCCTAAACTTCTCCAAAATCACATTTTGACCCCT-AAACTTTCC--AAAATTACAT
* *
148917 TTTTACCTTAAACTTCTCCAAAATCACATTTTGACCC
1 TTTGACCCTAAACTTCTCCAAAATCACATTTTGACCC
148954 TGTATTCTTT
Statistics
Matches: 175, Mismatches: 34, Indels: 18
0.77 0.15 0.08
Matches are distributed among these distances:
57 6 0.03
58 20 0.11
59 26 0.15
60 72 0.41
61 14 0.08
62 25 0.14
63 12 0.07
ACGTcount: A:0.32, C:0.27, G:0.04, T:0.36
Consensus pattern (58 bp):
TTTGACCCTAAACTTCTCCAAAATCACATTTTGACCCCTAAACTTTCCAAAATTACAT
Found at i:157341 original size:39 final size:39
Alignment explanation
Indices: 157280--157932 Score: 372
Period size: 39 Copynumber: 16.7 Consensus size: 39
157270 TAAAGATTTT
* *
157280 AATCTCTTACCTCGAGCTTGGGGCAGATTACAACCATCC
1 AATCTTTTACCCCGAGCTTGGGGCAGATTACAACCATCC
* * * * * * **
157319 GATCTTTTACCCTGAGCCTGGGGCAGATCACCATCGGCC
1 AATCTTTTACCCCGAGCTTGGGGCAGATTACAACCATCC
* * * ** * *
157358 AATCTCTTACCCCAAGCTTGGGGCAGTTTGTAGCCATTC
1 AATCTTTTACCCCGAGCTTGGGGCAGATTACAACCATCC
* * * * * *
157397 GATTTTTTACCCCGAGCTTGGGGCAGATCACCATCAGCC
1 AATCTTTTACCCCGAGCTTGGGGCAGATTACAACCATCC
* * * *
157436 AATCTCTTACCTCGAGCTTGGGGCAGATTGCAGCCATCC
1 AATCTTTTACCCCGAGCTTGGGGCAGATTACAACCATCC
* * * * * * *
157475 GATCTTTTACCCTGAGCTTAGGGCAGATCACCATCAGCC
1 AATCTTTTACCCCGAGCTTGGGGCAGATTACAACCATCC
* * ** * * * *
157514 AATCTTTTACCCCGAACCTAAGGTAAATTACAGCCATCT
1 AATCTTTTACCCCGAGCTTGGGGCAGATTACAACCATCC
* * * * *
157553 GATCTTTTACCTCGAGCTTGGGGTAGATTGCAGCCATCC
1 AATCTTTTACCCCGAGCTTGGGGCAGATTACAACCATCC
* ** * * * *
157592 GATCTTTTACCCCGAGCTTAAGGCAGATCACCATCAGCC
1 AATCTTTTACCCCGAGCTTGGGGCAGATTACAACCATCC
* * *** ** * *
157631 AATCTCTTACCCTGAGCTTGTATCAGATTGTAGCCATCT
1 AATCTTTTACCCCGAGCTTGGGGCAGATTACAACCATCC
* * * * * *
157670 AATCTTTTACCCCGAGCTTGAGGTAGATCACCATCAGCC
1 AATCTTTTACCCCGAGCTTGGGGCAGATTACAACCATCC
* * * ** *
157709 AATCTCTTACCTCGAGCCTACGGCAGATTGCAACCATCC
1 AATCTTTTACCCCGAGCTTGGGGCAGATTACAACCATCC
* * * * * *
157748 GATCTTTTACCCCGAGCTTGGGGAAGATCACCATCAGCC
1 AATCTTTTACCCCGAGCTTGGGGCAGATTACAACCATCC
* * * *
157787 AAT-TTCTTACCTCGAGCTTGGGGCAGATTGCAGCCATCT
1 AATCTT-TTACCCCGAGCTTGGGGCAGATTACAACCATCC
* * * * * *
157826 AATCTTTTACCCCGAGCCTGGGGTAGATCACCATCAGCC
1 AATCTTTTACCCCGAGCTTGGGGCAGATTACAACCATCC
* * * ** *
157865 AATCTCTTACCCCGAGCCTAGGGCAGATTGTAACCATTC
1 AATCTTTTACCCCGAGCTTGGGGCAGATTACAACCATCC
* * * * *
157904 GATCTTTTACCTCGATCATGGGGTAGATT
1 AATCTTTTACCCCGAGCTTGGGGCAGATT
157933 GAAGACATCA
Statistics
Matches: 432, Mismatches: 180, Indels: 4
0.70 0.29 0.01
Matches are distributed among these distances:
38 2 0.00
39 428 0.99
40 2 0.00
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (39 bp):
AATCTTTTACCCCGAGCTTGGGGCAGATTACAACCATCC
Found at i:157493 original size:117 final size:115
Alignment explanation
Indices: 157281--157892 Score: 412
Period size: 117 Copynumber: 5.2 Consensus size: 115
157271 AAAGATTTTA
* * * * * * * *
157281 ATCTCTTACCTCGAGCTTGGGGCAGATTACAACCATCCGATCTTTTACC-CTGAGCCTGGGGCAG
1 ATCTTTTACCCCGAGCTTGGGGCAGATCACCATCAGCCAATCTTTTACCTC-GAGCTTGGGGCAG
* * * * *
157345 A-T-CA-CCATCGGCCAATCTCTTACCCCAAGCTTGGGGCAGTTTGTAGCCATTC-G-
65 ATTGCAGCCAT---CCAATCTTTTACCCCGAGCTTAGGGCAG-AT-CA-CCA-TCAGC
* *
157398 ATTTTTTACCCCGAGCTTGGGGCAGATCACCATCAGCCAATCTCTTACCTCGAGCTTGGGGCAGA
1 ATCTTTTACCCCGAGCTTGGGGCAGATCACCATCAGCCAATCTTTTACCTCGAGCTTGGGGCAGA
* *
157463 TTGCAGCCATCCGATCTTTTACCCTGAGCTTAGGGCAGATCACCATCAGCC
66 TTGCAGCCATCCAATCTTTTACCCCGAGCTTAGGGCAGATCACCATCAG-C
* * ** * * *
157514 AATCTTTTACCCCGAACCTAAGGTAAATTACAGCCATCTG---ATCTTTTACCTCGAGCTTGGGG
1 -ATCTTTTACCCCGAGCTTGGGGCAGA-T-CA-CCATCAGCCAATCTTTTACCTCGAGCTTGGGG
* * *
157576 TAGATTGCAGCCATCCGATCTTTTACCCCGAGCTTAAGGCAGATCACCATCAGCC
62 CAGATTGCAGCCATCCAATCTTTTACCCCGAGCTTAGGGCAGATCACCATCAG-C
* * *** * * * *
157631 AATCTCTTACCCTGAGCTTGTATCAGATTGTAGCCAT---CTAATCTTTTACCCCGAGCTTGAGG
1 -ATCTTTTACCCCGAGCTTGGGGCAGA-T-CA-CCATCAGCCAATCTTTTACCTCGAGCTTGGGG
* * * * * *
157693 TAGA-T-CA-CCATCAGCCAATCTCTTACCTCGAGCCTACGGCAGATTGCAACCATCCG-
62 CAGATTGCAGCCAT---CCAATCTTTTACCCCGAGCTTAGGGCAGA-T-C-ACCATCAGC
*
157749 ATCTTTTACCCCGAGCTTGGGGAAGATCACCATCAGCCAAT-TTCTTACCTCGAGCTTGGGGCAG
1 ATCTTTTACCCCGAGCTTGGGGCAGATCACCATCAGCCAATCTT-TTACCTCGAGCTTGGGGCAG
* * * *
157813 ATTGCAGCCATCTAATCTTTTACCCCGAGCCTGGGGTAGATCACCATCAGCC
65 ATTGCAGCCATCCAATCTTTTACCCCGAGCTTAGGGCAGATCACCATCAG-C
* * *
157865 AATCTCTTACCCCGAGCCTAGGGCAGAT
1 -ATCTTTTACCCCGAGCTTGGGGCAGAT
157893 TGTAACCATT
Statistics
Matches: 394, Mismatches: 71, Indels: 60
0.75 0.14 0.11
Matches are distributed among these distances:
113 2 0.01
114 19 0.05
115 5 0.01
116 6 0.02
117 329 0.84
118 5 0.01
119 7 0.02
120 21 0.05
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.26
Consensus pattern (115 bp):
ATCTTTTACCCCGAGCTTGGGGCAGATCACCATCAGCCAATCTTTTACCTCGAGCTTGGGGCAGA
TTGCAGCCATCCAATCTTTTACCCCGAGCTTAGGGCAGATCACCATCAGC
Found at i:157549 original size:156 final size:156
Alignment explanation
Indices: 157280--157580 Score: 417
Period size: 156 Copynumber: 1.9 Consensus size: 156
157270 TAAAGATTTT
*
157280 AATCTCTTACCTCGAGCTTGGGGCAGATTACAACCATCCGATCTTTTACCCTGAGCCTGGGGCAG
1 AATCTCTTACCTCGAGCTTGGGGCAGATTACAACCATCCGATCTTTTACCCTGAGCCTAGGGCAG
* * ** ** ** *
157345 ATCACCATCGGCCAATCTCTTACCCCAAGCTTGGGGCAGTTTGTAGCCAT-TCGATTTTTTACCC
66 ATCACCATCAGCCAATCTCTTACCCCAAGCCTAAGGCAAATTACAGCCATCT-GATCTTTTACCC
157409 CGAGCTTGGGGCAGATCACCATCAGCC
130 CGAGCTTGGGGCAGATCACCATCAGCC
* * *
157436 AATCTCTTACCTCGAGCTTGGGGCAGATTGCAGCCATCCGATCTTTTACCCTGAGCTTAGGGCAG
1 AATCTCTTACCTCGAGCTTGGGGCAGATTACAACCATCCGATCTTTTACCCTGAGCCTAGGGCAG
* * *
157501 ATCACCATCAGCCAATCTTTTACCCCGAA-CCTAAGGTAAATTACAGCCATCTGATCTTTTACCT
66 ATCACCATCAGCCAATCTCTTACCCC-AAGCCTAAGGCAAATTACAGCCATCTGATCTTTTACCC
*
157565 CGAGCTTGGGGTAGAT
130 CGAGCTTGGGGCAGAT
157581 TGCAGCCATC
Statistics
Matches: 126, Mismatches: 17, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
156 123 0.98
157 3 0.02
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (156 bp):
AATCTCTTACCTCGAGCTTGGGGCAGATTACAACCATCCGATCTTTTACCCTGAGCCTAGGGCAG
ATCACCATCAGCCAATCTCTTACCCCAAGCCTAAGGCAAATTACAGCCATCTGATCTTTTACCCC
GAGCTTGGGGCAGATCACCATCAGCC
Found at i:157815 original size:156 final size:156
Alignment explanation
Indices: 157554--157914 Score: 535
Period size: 156 Copynumber: 2.3 Consensus size: 156
157544 CAGCCATCTG
* * * * * *
157554 ATCTTTTACCTCGAGCTTGGGGTAGATTGCAGCCATCCGATCTTTTACCCCGAGCTTAAGGCAGA
1 ATCTCTTACCTCGAGCCTAGGGCAGATTGCAACCATCCGATCTTTTACCCCGAGCTTAAGGAAGA
* * *
157619 TCACCATCAGCCAATCTCTTACCCTGAGCTTGTATCAGATTGTAGCCATCTAATCTTTTACCCCG
66 TCACCATCAGCCAATCTCTTACCCTGAGCTTGGAGCAGATTGCAGCCATCTAATCTTTTACCCCG
*
157684 AGCTTGAGGTAGATCACCATCAGCCA
131 AGCCTGAGGTAGATCACCATCAGCCA
* **
157710 ATCTCTTACCTCGAGCCTACGGCAGATTGCAACCATCCGATCTTTTACCCCGAGCTTGGGGAAGA
1 ATCTCTTACCTCGAGCCTAGGGCAGATTGCAACCATCCGATCTTTTACCCCGAGCTTAAGGAAGA
* *
157775 TCACCATCAGCCAATTTCTTA-CCTCGAGCTTGGGGCAGATTGCAGCCATCTAATCTTTTACCCC
66 TCACCATCAGCCAATCTCTTACCCT-GAGCTTGGAGCAGATTGCAGCCATCTAATCTTTTACCCC
*
157839 GAGCCTGGGGTAGATCACCATCAGCCA
130 GAGCCTGAGGTAGATCACCATCAGCCA
* * *
157866 ATCTCTTACCCCGAGCCTAGGGCAGATTGTAACCATTCGATCTTTTACC
1 ATCTCTTACCTCGAGCCTAGGGCAGATTGCAACCATCCGATCTTTTACC
157915 TCGATCATGG
Statistics
Matches: 184, Mismatches: 20, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
155 3 0.02
156 181 0.98
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.27
Consensus pattern (156 bp):
ATCTCTTACCTCGAGCCTAGGGCAGATTGCAACCATCCGATCTTTTACCCCGAGCTTAAGGAAGA
TCACCATCAGCCAATCTCTTACCCTGAGCTTGGAGCAGATTGCAGCCATCTAATCTTTTACCCCG
AGCCTGAGGTAGATCACCATCAGCCA
Found at i:157914 original size:117 final size:117
Alignment explanation
Indices: 157403--157956 Score: 445
Period size: 117 Copynumber: 4.7 Consensus size: 117
157393 ATTCGATTTT
* * * * * * * * *
157403 TTACCCCGAGCTTGGGGCAGATCACCATCAGCCAATCTCTTACCTCGAGCTTGGGGCAGATTGCA
1 TTACCCCGAGCCTAGGGCAGATTACAACCATCTAATCTTTTACCTCGAGCTTGGGGTAGATTGCA
* * * *
157468 GCCATCCGATCTTTTACCCTGAGCTTAGGGCAGATCACCATCAGCCAATCTT
66 GCCATCCAATCTTTTACCCCGAGCCTAGGGCAGATCACCATCAGCCAATCTC
* * * * * *
157520 TTACCCCGAACCTAAGGTAAATTACAGCCATCTGATCTTTTACCTCGAGCTTGGGGTAGATTGCA
1 TTACCCCGAGCCTAGGGCAGATTACAACCATCTAATCTTTTACCTCGAGCTTGGGGTAGATTGCA
* * *
157585 GCCATCCGATCTTTTACCCCGAGCTTAAGGCAGATCACCATCAGCCAATCTC
66 GCCATCCAATCTTTTACCCCGAGCCTAGGGCAGATCACCATCAGCCAATCTC
* * ** ** * * *
157637 TTACCCTGAG-CTTGTATCAGATTGTAGCCATCTAATCTTTTACCCCGAGCTTGAGGTAGA-T-C
1 TTACCCCGAGCCTAG-GGCAGATTACAACCATCTAATCTTTTACCTCGAGCTTGGGGTAGATTGC
* * * ** * * * * *
157699 A-CCATCAGCCAATCTCTTACCTCGAGCCTACGGCAGATTGCAACCATCCGATCTT
65 AGCCAT---CCAATCTTTTACCCCGAGCCTAGGGCAGATCACCATCAGCCAATCTC
* * * * * * * * *
157754 TTACCCCGAGCTTGGGGAAGATCACCATCAGCCAAT-TTCTTACCTCGAGCTTGGGGCAGATTGC
1 TTACCCCGAGCCTAGGGCAGATTACAACCATCTAATCTT-TTACCTCGAGCTTGGGGTAGATTGC
* * *
157818 AGCCATCTAATCTTTTACCCCGAGCCTGGGGTAGATCACCATCAGCCAATCTC
65 AGCCATCCAATCTTTTACCCCGAGCCTAGGGCAGATCACCATCAGCCAATCTC
** * * * *
157871 TTACCCCGAGCCTAGGGCAGATTGTAACCAT-TCGATCTTTTACCTCGATCATGGGGTAGATTGA
1 TTACCCCGAGCCTAGGGCAGATTACAACCATCT-AATCTTTTACCTCGAGCTTGGGGTAGATTGC
*
157935 AGACATCATCCAATCTCTTACC
65 AG-C--CATCCAATCTTTTACC
157957 TCAATCATGG
Statistics
Matches: 333, Mismatches: 90, Indels: 25
0.74 0.20 0.06
Matches are distributed among these distances:
114 4 0.01
115 2 0.01
116 5 0.02
117 296 0.89
118 6 0.02
119 2 0.01
120 18 0.05
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (117 bp):
TTACCCCGAGCCTAGGGCAGATTACAACCATCTAATCTTTTACCTCGAGCTTGGGGTAGATTGCA
GCCATCCAATCTTTTACCCCGAGCCTAGGGCAGATCACCATCAGCCAATCTC
Found at i:157926 original size:78 final size:78
Alignment explanation
Indices: 157554--157931 Score: 418
Period size: 78 Copynumber: 4.8 Consensus size: 78
157544 CAGCCATCTG
* * * * * * ** ** *
157554 ATCTTTTACCTCGAGCTTGGGGTAGATTGCAGCCATCCGATCTTTTACCCCGAGCTTAAGGCAGA
1 ATCTCTTACCCCGAGCCTAGGGCAGATTGCAACCATCTAATCTTTTACCCCGAGCTTGGGGTAGA
157619 TCACCATCAGCCA
66 TCACCATCAGCCA
* * ** * * *
157632 ATCTCTTACCCTGAG-CTTGTATCAGATTGTAGCCATCTAATCTTTTACCCCGAGCTTGAGGTAG
1 ATCTCTTACCCCGAGCCTAG-GGCAGATTGCAACCATCTAATCTTTTACCCCGAGCTTGGGGTAG
157696 ATCACCATCAGCCA
65 ATCACCATCAGCCA
* * ** *
157710 ATCTCTTACCTCGAGCCTACGGCAGATTGCAACCATCCGATCTTTTACCCCGAGCTTGGGGAAGA
1 ATCTCTTACCCCGAGCCTAGGGCAGATTGCAACCATCTAATCTTTTACCCCGAGCTTGGGGTAGA
157775 TCACCATCAGCCA
66 TCACCATCAGCCA
* * * * * *
157788 ATTTCTTACCTCGAGCTTGGGGCAGATTGCAGCCATCTAATCTTTTACCCCGAGCCTGGGGTAGA
1 ATCTCTTACCCCGAGCCTAGGGCAGATTGCAACCATCTAATCTTTTACCCCGAGCTTGGGGTAGA
157853 TCACCATCAGCCA
66 TCACCATCAGCCA
* * * * *
157866 ATCTCTTACCCCGAGCCTAGGGCAGATTGTAACCAT-TCGATCTTTTACCTCGATCATGGGGTAG
1 ATCTCTTACCCCGAGCCTAGGGCAGATTGCAACCATCT-AATCTTTTACCCCGAGCTTGGGGTAG
157930 AT
65 AT
157932 TGAAGACATC
Statistics
Matches: 253, Mismatches: 44, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
77 3 0.01
78 248 0.98
79 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (78 bp):
ATCTCTTACCCCGAGCCTAGGGCAGATTGCAACCATCTAATCTTTTACCCCGAGCTTGGGGTAGA
TCACCATCAGCCA
Found at i:158356 original size:209 final size:209
Alignment explanation
Indices: 157996--158452 Score: 648
Period size: 209 Copynumber: 2.2 Consensus size: 209
157986 AAGCAATGAG
157996 GTGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCAAAGCTCAATACGAA
1 GTGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCAAAGCTCAATACGAA
* *
158061 TGAGACTTCAAACCCCAGCTCCCTAATGAGATACAAAGAAATGAGTCAAAGCAATAAAGAGGTCA
66 TGAAACTTCAAACCCCAGCTCCCTAATGAGATACAAAGAAATGAGTCAAAGCAAGAAAGAGGTCA
* * * *
158126 TCTTCTTGATGAAATATAGAGAAGTGGATCAAATTCGTCTTTCA-GATGAGATACAGAGAAGCAG
131 TCTTCCTGATGAAATATAGAGAAGTGGACCAAATCCGTC-TTCATAATGAGATACAGAGAAGCAG
*
158190 ATTGAAACAAGTGAT
195 ATTAAAACAAGTGAT
* * ** *
158205 GTGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCGATGAAGCGAAGCTCAATGTGAG
1 GTGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCAAAGCTCAATACGAA
* * * * * * * *
158270 TGAAACTTCAAACCCCATCTTCCTGATGAGATACAGAGAAGTGGGTTAAA-CTAAGAAAGAGGTT
66 TGAAACTTCAAACCCCAGCTCCCTAATGAGATACAAAGAAATGAGTCAAAGC-AAGAAAGAGGTC
* * * *
158334 GTCTTCCTGATGAGATATAGAGAAGTGGACCAAATCCGTCTTCATAATGAGATTCAGTGAAGCAG
130 ATCTTCCTGATGAAATATAGAGAAGTGGACCAAATCCGTCTTCATAATGAGATACAGAGAAGCAG
158399 ATTAAAACAAGTGAT
195 ATTAAAACAAGTGAT
* *
158414 GTGGTCAGCTTCCTAATGAGATACAGAGAAGTAGACCAA
1 GTGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAA
158453 GAGATGAAGT
Statistics
Matches: 220, Mismatches: 26, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
208 5 0.02
209 215 0.98
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.23
Consensus pattern (209 bp):
GTGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCAAAGCTCAATACGAA
TGAAACTTCAAACCCCAGCTCCCTAATGAGATACAAAGAAATGAGTCAAAGCAAGAAAGAGGTCA
TCTTCCTGATGAAATATAGAGAAGTGGACCAAATCCGTCTTCATAATGAGATACAGAGAAGCAGA
TTAAAACAAGTGAT
Found at i:160203 original size:29 final size:30
Alignment explanation
Indices: 160068--160270 Score: 200
Period size: 30 Copynumber: 6.8 Consensus size: 30
160058 TAGTAAGTCC
* * *
160068 CTAAACTTTT-CATAAATCATATTTTAACCC
1 CTAAACTTTTCCA-AAATTACATTTTAACCT
* *
160098 CTAAACTTCTCCAAAATTACATTTTGA-CT
1 CTAAACTTTTCCAAAATTACATTTTAACCT
* ** *
160127 C-GAACTTTTCCAAAATTTTATTTTGACCT
1 CTAAACTTTTCCAAAATTACATTTTAACCT
* *
160156 CTAAATTTTTCTAAAATTACATTTTAACCT
1 CTAAACTTTTCCAAAATTACATTTTAACCT
160186 C-AAACTTTTCCAAAATTACATTTTAACC-
1 CTAAACTTTTCCAAAATTACATTTTAACCT
* * *
160214 CATAAACTTTTCCAAAACTACATTTTGACCC
1 C-TAAACTTTTCCAAAATTACATTTTAACCT
* *
160245 CTCAAACTTCTCCAAAATCACATTTT
1 CT-AAACTTTTCCAAAATTACATTTT
160271 GACCCCGTAT
Statistics
Matches: 144, Mismatches: 22, Indels: 13
0.80 0.12 0.07
Matches are distributed among these distances:
28 22 0.15
29 30 0.21
30 69 0.48
31 23 0.16
ACGTcount: A:0.35, C:0.24, G:0.02, T:0.39
Consensus pattern (30 bp):
CTAAACTTTTCCAAAATTACATTTTAACCT
Found at i:160209 original size:59 final size:58
Alignment explanation
Indices: 160070--160275 Score: 209
Period size: 59 Copynumber: 3.5 Consensus size: 58
160060 GTAAGTCCCT
* * *
160070 AAACTTTT-CATAAATCATATTTTAACCCCTAAACTTCTCCAAAATTACATTTTGA-CTC
1 AAACTTTTCCA-AAATCACATTTTAA-CCCTAAACTTTTCCAAAATTACATTTTAACCTC
* *** * * *
160128 GAACTTTTCCAAAATTTTATTTTGACCTCTAAATTTTTCTAAAATTACATTTTAACCTC
1 AAACTTTTCCAAAATCACATTTTAACC-CTAAACTTTTCCAAAATTACATTTTAACCTC
* * *
160187 AAACTTTTCCAAAATTACATTTTAACCCATAAACTTTTCCAAAACTACATTTTGACCCCTC
1 AAACTTTTCCAAAATCACATTTTAACCC-TAAACTTTTCCAAAATTACATTTT-A-ACCTC
* *
160248 AAACTTCTCCAAAATCACATTTTGACCC
1 AAACTTTTCCAAAATCACATTTTAACCC
160276 CGTATTCTTC
Statistics
Matches: 123, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
57 2 0.02
58 42 0.34
59 49 0.40
60 1 0.01
61 29 0.24
ACGTcount: A:0.35, C:0.25, G:0.02, T:0.38
Consensus pattern (58 bp):
AAACTTTTCCAAAATCACATTTTAACCCTAAACTTTTCCAAAATTACATTTTAACCTC
Found at i:165990 original size:58 final size:59
Alignment explanation
Indices: 165908--166213 Score: 422
Period size: 58 Copynumber: 5.2 Consensus size: 59
165898 TCCGGGAGTA
*
165908 AAAATGGTAATTTTTGGAAGTTTCGGGATCAAAAATGGGATTTTTGGAAGTTCGGGGGT
1 AAAATGGTAATTTTTGGAAGTTTTGGGATCAAAAATGGGATTTTTGGAAGTTCGGGGGT
* * *
165967 AAAATGGTAA-TTTTGGAAGTTTCGAGATCAAAAATGGGATTTTTGGAAGTTCGGGGAT
1 AAAATGGTAATTTTTGGAAGTTTTGGGATCAAAAATGGGATTTTTGGAAGTTCGGGGGT
* * * *
166025 AAAATGGTATTTTTTGGAAGTTTTGGGGTCAAAAATGGAATTTTTGGAAGTTCGAGGGT
1 AAAATGGTAATTTTTGGAAGTTTTGGGATCAAAAATGGGATTTTTGGAAGTTCGGGGGT
** ** *
166084 -AAATGGTAATTTTTGGAAGTTTTGAGG-T-TTAAATGGGATTTTTAAAAGTTCGAGGGT
1 AAAATGGTAATTTTTGGAAGTTTTG-GGATCAAAAATGGGATTTTTGGAAGTTCGGGGGT
* * *
166141 AAAATGGTAATTTTTAGAAGTTTTGGGGTCAAAAATGAGATTTTTGGAAGTTCGGGGGT
1 AAAATGGTAATTTTTGGAAGTTTTGGGATCAAAAATGGGATTTTTGGAAGTTCGGGGGT
*
166200 AAGATGGTAATTTT
1 AAAATGGTAATTTT
166214 AGAATAGTTT
Statistics
Matches: 219, Mismatches: 23, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
57 26 0.12
58 103 0.47
59 90 0.41
ACGTcount: A:0.30, C:0.04, G:0.30, T:0.36
Consensus pattern (59 bp):
AAAATGGTAATTTTTGGAAGTTTTGGGATCAAAAATGGGATTTTTGGAAGTTCGGGGGT
Found at i:166199 original size:30 final size:28
Alignment explanation
Indices: 165908--166213 Score: 224
Period size: 30 Copynumber: 10.5 Consensus size: 28
165898 TCCGGGAGTA
*
165908 AAAATGGTAATTTTTGGAAGTTTC-GGGAT
1 AAAATGGT-ATTTTTGGAAG-TTCGGGGGT
*
165937 CAAAAATGGGATTTTTGGAAGTTCGGGGGT
1 --AAAATGGTATTTTTGGAAGTTCGGGGGT
* * *
165967 AAAATGGTAATTTTGGAAGTTTC-GAGAT
1 AAAATGGTATTTTTGGAAG-TTCGGGGGT
* *
165995 CAAAAATGGGATTTTTGGAAGTTCGGGGAT
1 --AAAATGGTATTTTTGGAAGTTCGGGGGT
**
166025 AAAATGGTATTTTTTGGAAGTTTTGGGGT
1 AAAATGGTA-TTTTTGGAAGTTCGGGGGT
* *
166054 CAAAAATGGAATTTTTGGAAGTTCGAGGGT
1 --AAAATGGTATTTTTGGAAGTTCGGGGGT
* * *
166084 -AAATGGTAATTTTTGGAAGTTTTGAGGTT
1 AAAATGGT-ATTTTTGGAAG-TTCGGGGGT
* * ** *
166113 TAAATGGGATTTTTAAAAGTTCGAGGGT
1 AAAATGGTATTTTTGGAAGTTCGGGGGT
* **
166141 AAAATGGTAATTTTTAGAAGTTTTGGGGT
1 AAAATGGT-ATTTTTGGAAGTTCGGGGGT
166170 CAAAAATGAG-ATTTTTGGAAGTTCGGGGGT
1 --AAAATG-GTATTTTTGGAAGTTCGGGGGT
* *
166200 AAGATGGTAATTTT
1 AAAATGGTATTTTT
166214 AGAATAGTTT
Statistics
Matches: 223, Mismatches: 36, Indels: 35
0.76 0.12 0.12
Matches are distributed among these distances:
27 7 0.03
28 62 0.28
29 57 0.26
30 75 0.34
31 21 0.09
32 1 0.00
ACGTcount: A:0.30, C:0.04, G:0.30, T:0.36
Consensus pattern (28 bp):
AAAATGGTATTTTTGGAAGTTCGGGGGT
Found at i:167418 original size:3 final size:3
Alignment explanation
Indices: 167405--167456 Score: 68
Period size: 3 Copynumber: 17.0 Consensus size: 3
167395 TTATTAGTGA
** *
167405 TAT TCAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TGC TAT TGT TAT
1 TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
167451 TAT TAT
1 TAT TAT
167457 GACTAAAGAT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
3 39 0.93
4 3 0.07
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:168127 original size:11 final size:11
Alignment explanation
Indices: 168111--168174 Score: 58
Period size: 12 Copynumber: 5.7 Consensus size: 11
168101 TTTAACTTTG
168111 AAATTAAATTA
1 AAATTAAATTA
168122 AAATTAAATTTA
1 AAATTAAA-TTA
*
168134 AATTTAAATTTA
1 AAATTAAA-TTA
* *
168146 AGATTAATTTA
1 AAATTAAATTA
* *
168157 AATTTAAAAT-
1 AAATTAAATTA
168167 AAATTAAA
1 AAATTAAA
168175 AAGGGTCCAG
Statistics
Matches: 43, Mismatches: 9, Indels: 3
0.78 0.16 0.05
Matches are distributed among these distances:
10 7 0.16
11 17 0.40
12 19 0.44
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.41
Consensus pattern (11 bp):
AAATTAAATTA
Found at i:168134 original size:17 final size:18
Alignment explanation
Indices: 168101--168171 Score: 76
Period size: 17 Copynumber: 4.1 Consensus size: 18
168091 TTTTGGACTT
* *
168101 TTTAACTTTGAAATTAAA
1 TTTAAATTTAAAATTAAA
* *
168119 -TTAAAATTAAATTTAAA
1 TTTAAATTTAAAATTAAA
*
168136 TTTAAATTTAAGATT-AA
1 TTTAAATTTAAAATTAAA
168153 TTTAAATTTAAAA-TAAA
1 TTTAAATTTAAAATTAAA
168170 TT
1 TT
168172 AAAAAGGGTC
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
16 1 0.02
17 31 0.72
18 11 0.26
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (18 bp):
TTTAAATTTAAAATTAAA
Found at i:171087 original size:153 final size:153
Alignment explanation
Indices: 170809--171088 Score: 368
Period size: 153 Copynumber: 1.8 Consensus size: 153
170799 TAGCTAATTT
*
170809 ACTGGCCACGTCACCTGTCTCATTAGGCCTATAACGGAAGTTGTACATGAGTGACTCATTTGTCA
1 ACTGGCCACGTCACCTGTCTCATTAGGCCTATAACGGAAATTGTACATGAGTGACTCATTTGTCA
* ** * *
170874 CTTTACGATAACTTTAGTGACTGATTTGTTATTTTTTGAAAGTTGAGTGACTGAATTGAAACTTT
66 CTTTACGATAACGTTAGTGACTGATTTGTTATTTTTCCAAAGTCGAGTGACTAAATTGAAACTTT
170939 GTATCATCTAACGTGGCAAGTTA
131 GTATCATCTAACGTGGCAAGTTA
* * * * * *
170962 ACTGGCCACGTTAGCTGTCTCGTTAGGCCTATAACGGGAAA-TGTTA-ATGGGTGATTGATTTGT
1 ACTGGCCACGTCACCTGTCTCATTAGGCCTATAAC-GGAAATTG-TACATGAGTGACTCATTTGT
*** *
171025 CACTTTTTTATAACGTTAGTGACT-ATTTTGTTATTTTTCCAAAGTCGAGTTACTAAATTGAAAC
64 CACTTTACGATAACGTTAGTGACTGA-TTTGTTATTTTTCCAAAGTCGAGTGACTAAATTGAAAC
171089 CAAAGTGACT
Statistics
Matches: 108, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
152 1 0.01
153 101 0.94
154 6 0.06
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.37
Consensus pattern (153 bp):
ACTGGCCACGTCACCTGTCTCATTAGGCCTATAACGGAAATTGTACATGAGTGACTCATTTGTCA
CTTTACGATAACGTTAGTGACTGATTTGTTATTTTTCCAAAGTCGAGTGACTAAATTGAAACTTT
GTATCATCTAACGTGGCAAGTTA
Found at i:171154 original size:3 final size:3
Alignment explanation
Indices: 171146--171177 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
171136 GTAATTTACC
171146 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
171178 CGGTAGTAGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:171649 original size:20 final size:20
Alignment explanation
Indices: 171621--171677 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
171611 CCATGTCAGC
*
171621 AAATGATTTTAAAATTATTA
1 AAATTATTTTAAAATTATTA
171641 AAATTATTTTTTAAAA-TA-TA
1 AAATTA--TTTTAAAATTATTA
171661 AAATTA--TTAAAATTATT
1 AAATTATTTTAAAATTATT
171678 TTTTTGAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
16 6 0.19
17 2 0.06
18 1 0.03
20 13 0.41
21 2 0.06
22 8 0.25
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (20 bp):
AAATTATTTTAAAATTATTA
Found at i:171672 original size:29 final size:31
Alignment explanation
Indices: 171630--171702 Score: 123
Period size: 29 Copynumber: 2.4 Consensus size: 31
171620 CAAATGATTT
171630 TAAAATTATTAAAATTA-TTTTTTAAAAT-A
1 TAAAATTATTAAAATTATTTTTTTAAAATAA
*
171659 TAAAATTATTAAAATTATTTTTTTGAAATAA
1 TAAAATTATTAAAATTATTTTTTTAAAATAA
171690 TAAAATTATTAAA
1 TAAAATTATTAAA
171703 TAATTTTAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
29 17 0.41
30 10 0.24
31 14 0.34
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (31 bp):
TAAAATTATTAAAATTATTTTTTTAAAATAA
Found at i:171709 original size:30 final size:29
Alignment explanation
Indices: 171630--171709 Score: 99
Period size: 30 Copynumber: 2.7 Consensus size: 29
171620 CAAATGATTT
*
171630 TAAAATTATTAAA-ATTATTTTTTAAAATA
1 TAAAATTATTAAATAAT-TTTTTTAAAATA
* *
171659 TAAAATTATTAAAATTATTTTTTTGAAATAA
1 TAAAATTATT-AAATAATTTTTTTAAAAT-A
171690 TAAAATTATTAAATAATTTT
1 TAAAATTATTAAATAATTTT
171710 AATTTTCAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
29 10 0.23
30 22 0.50
31 12 0.27
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (29 bp):
TAAAATTATTAAATAATTTTTTTAAAATA
Found at i:172539 original size:22 final size:24
Alignment explanation
Indices: 172514--172560 Score: 71
Period size: 22 Copynumber: 2.0 Consensus size: 24
172504 TAAAATTATT
*
172514 TAATAATTTT-ATTA-TTTCAAAA
1 TAATAATTTTAATAATTTTCAAAA
172536 TAATAATTTTAATAATTTTCAAAA
1 TAATAATTTTAATAATTTTCAAAA
172560 T
1 T
172561 CATTTGCTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 10 0.45
23 3 0.14
24 9 0.41
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (24 bp):
TAATAATTTTAATAATTTTCAAAA
Found at i:178821 original size:42 final size:42
Alignment explanation
Indices: 178710--178899 Score: 188
Period size: 42 Copynumber: 4.5 Consensus size: 42
178700 TGATGTATAA
* * * *
178710 AAAGGAAGACTCATGTCTTGAGTTGAGCAT-AAGAATTTG-TAT
1 AAAGGAAGACTCATGTCTCGAGATGAGAATGAA-AATATGAT-T
* * * * *
178752 AAATGGATGACTCGTGACTCG-GAATGAGCATGAAAATATGATC
1 AAA-GGAAGACTCATGTCTCGAG-ATGAGAATGAAAATATGATT
* *
178795 AAAGGAAGACTCATGTCTCGAGATGAGAATGAGATTATGATT
1 AAAGGAAGACTCATGTCTCGAGATGAGAATGAAAATATGATT
* *
178837 AAAGGAAGACTCATGTCTCGAGATGAGAATGAGAATATAATT
1 AAAGGAAGACTCATGTCTCGAGATGAGAATGAAAATATGATT
* *
178879 AAAGGAAGACTTATGACTCGA
1 AAAGGAAGACTCATGTCTCGA
178900 TAAAGCATAA
Statistics
Matches: 125, Mismatches: 18, Indels: 10
0.82 0.12 0.07
Matches are distributed among these distances:
42 93 0.74
43 29 0.23
44 3 0.02
ACGTcount: A:0.39, C:0.11, G:0.25, T:0.25
Consensus pattern (42 bp):
AAAGGAAGACTCATGTCTCGAGATGAGAATGAAAATATGATT
Found at i:178883 original size:84 final size:85
Alignment explanation
Indices: 178710--178899 Score: 208
Period size: 84 Copynumber: 2.2 Consensus size: 85
178700 TGATGTATAA
* * * * *
178710 AAAGGAAGACTCATGTCTTGAGTTGAGCATAAGAATTTGTATAAATGGATGACTCGTGACTCGGA
1 AAAGGAAGACTCATGTCTCGAGATGAGAATAAGAATTTGTATAAATGGAAGACTCATGACTCGGA
* *
178775 ATGAGCATGAAAATATGATC
66 ATGAGAATGAAAATATAATC
* *
178795 AAAGGAAGACTCATGTCTCGAGATGAGAATGAG-ATTATG-ATTAAA-GGAAGACTCATGTCTC-
1 AAAGGAAGACTCATGTCTCGAGATGAGAATAAGAATT-TGTA-TAAATGGAAGACTCATGACTCG
* *
178856 GAGATGAGAATGAGAATATAATT
64 GA-ATGAGAATGAAAATATAATC
* *
178879 AAAGGAAGACTTATGACTCGA
1 AAAGGAAGACTCATGTCTCGA
178900 TAAAGCATAA
Statistics
Matches: 89, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
83 2 0.02
84 52 0.58
85 35 0.39
ACGTcount: A:0.39, C:0.11, G:0.25, T:0.25
Consensus pattern (85 bp):
AAAGGAAGACTCATGTCTCGAGATGAGAATAAGAATTTGTATAAATGGAAGACTCATGACTCGGA
ATGAGAATGAAAATATAATC
Found at i:192644 original size:69 final size:69
Alignment explanation
Indices: 192567--192707 Score: 264
Period size: 69 Copynumber: 2.0 Consensus size: 69
192557 TTAATTAAGC
192567 AATTAATCATCAAAATTACCTAAGCAAACTTGAATTCACATATAATAAGACTCTGTAAATATTTA
1 AATTAATCATCAAAATTACCTAAGCAAACTTGAATTCACATATAATAAGACTCTGTAAATATTTA
192632 ATAA
66 ATAA
* *
192636 AATTAATCATCAAAATTACCTAAGCAAACTTGAATTCACATATAATTAGACTTTGTAAATATTTA
1 AATTAATCATCAAAATTACCTAAGCAAACTTGAATTCACATATAATAAGACTCTGTAAATATTTA
192701 ATAA
66 ATAA
192705 AAT
1 AAT
192708 ATTTACGGCC
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.48, C:0.13, G:0.06, T:0.33
Consensus pattern (69 bp):
AATTAATCATCAAAATTACCTAAGCAAACTTGAATTCACATATAATAAGACTCTGTAAATATTTA
ATAA
Found at i:194162 original size:23 final size:22
Alignment explanation
Indices: 194131--194179 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
194121 CTCTCCGTTA
*
194131 TTTAGCACGGATAGTGCTCTCCG
1 TTTAACAC-GATAGTGCTCTCCG
* *
194154 TTTAACACGTTTGTGCTCTCCG
1 TTTAACACGATAGTGCTCTCCG
194176 TTTA
1 TTTA
194180 CCACCACGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 16 0.70
23 7 0.30
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.39
Consensus pattern (22 bp):
TTTAACACGATAGTGCTCTCCG
Found at i:198342 original size:5 final size:5
Alignment explanation
Indices: 198332--198377 Score: 56
Period size: 5 Copynumber: 8.6 Consensus size: 5
198322 GCAACCCAAA
*
198332 TTAAT TTAAT TTAAT TTAAT TTAAT CTTGAATT TTATT TTAAT TTA
1 TTAAT TTAAT TTAAT TTAAT TTAAT -TT-AA-T TTAAT TTAAT TTA
198378 GGATGAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
5 28 0.78
6 3 0.08
7 4 0.11
8 1 0.03
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (5 bp):
TTAAT
Found at i:207075 original size:56 final size:56
Alignment explanation
Indices: 206989--207102 Score: 210
Period size: 56 Copynumber: 2.0 Consensus size: 56
206979 CAGTGTATAC
206989 ATCCACAATTACAAAGCCATAGTCATTTCATAGCATTTAAAATAACCACAAAACAT
1 ATCCACAATTACAAAGCCATAGTCATTTCATAGCATTTAAAATAACCACAAAACAT
* *
207045 ATCCACAATTACAAAGTCATAGTCATTTCATAGCATTTAAAATAACCACAAAGCAT
1 ATCCACAATTACAAAGCCATAGTCATTTCATAGCATTTAAAATAACCACAAAACAT
207101 AT
1 AT
207103 TACAATTTAA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.46, C:0.22, G:0.06, T:0.26
Consensus pattern (56 bp):
ATCCACAATTACAAAGCCATAGTCATTTCATAGCATTTAAAATAACCACAAAACAT
Found at i:208591 original size:15 final size:15
Alignment explanation
Indices: 208549--208585 Score: 51
Period size: 13 Copynumber: 2.6 Consensus size: 15
208539 GTAAAGGAAT
*
208549 TTAATCTAAAGT--A
1 TTAATCTAAACTAAA
208562 TTAATCTAAACTAAA
1 TTAATCTAAACTAAA
208577 TTAATCTAA
1 TTAATCTAA
208586 TTTAAAGCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 11 0.52
15 10 0.48
ACGTcount: A:0.49, C:0.11, G:0.03, T:0.38
Consensus pattern (15 bp):
TTAATCTAAACTAAA
Found at i:209625 original size:19 final size:19
Alignment explanation
Indices: 209582--209618 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
209572 AAATGAGGTG
209582 AGTGAGGGTGGTATTTATT
1 AGTGAGGGTGGTATTTATT
209601 AGTGAGGGTGGTATTTAT
1 AGTGAGGGTGGTATTTAT
209619 AGGTGAGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.38, T:0.41
Consensus pattern (19 bp):
AGTGAGGGTGGTATTTATT
Found at i:210157 original size:15 final size:14
Alignment explanation
Indices: 210137--210177 Score: 55
Period size: 15 Copynumber: 2.8 Consensus size: 14
210127 TTTTAGCACA
210137 AATTAATTATTTTAT
1 AATTAATT-TTTTAT
*
210152 AATTAATTTTTTTT
1 AATTAATTTTTTAT
210166 ACATTAATTTTT
1 A-ATTAATTTTT
210178 CAGAATTTGC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 6 0.25
15 18 0.75
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.63
Consensus pattern (14 bp):
AATTAATTTTTTAT
Found at i:216766 original size:52 final size:52
Alignment explanation
Indices: 216710--216808 Score: 137
Period size: 52 Copynumber: 1.9 Consensus size: 52
216700 AACACAATAT
** * *
216710 ACAAATCAGAGTAAT-GTAGAGAATTTCATAACGATCATATAACCAAAGCGAA
1 ACAAATCAGAGT-ATCACAGAGAATTTCATAACAATCATATAAACAAAGCGAA
*
216762 ACAAATCAGAGTATCACAGAGATTTTCATAACAATCATATAAACAAA
1 ACAAATCAGAGTATCACAGAGAATTTCATAACAATCATATAAACAAA
216809 ACGGAGAATG
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
51 2 0.05
52 39 0.95
ACGTcount: A:0.49, C:0.16, G:0.12, T:0.22
Consensus pattern (52 bp):
ACAAATCAGAGTATCACAGAGAATTTCATAACAATCATATAAACAAAGCGAA
Found at i:217098 original size:40 final size:40
Alignment explanation
Indices: 217051--217130 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 40
217041 AGATTTGTGA
* *
217051 TTTTGAACTAAATTTGTGAGTTCCCAAGCATAGATTTTAG
1 TTTTGAACTAAATTTGTGAGTTCCCAAGCACAAATTTTAG
* * *
217091 TTTTGAACTGAATTTGTGATTTCCCATGCACAAATTTTAG
1 TTTTGAACTAAATTTGTGAGTTCCCAAGCACAAATTTTAG
217131 CTAATTGGTT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (40 bp):
TTTTGAACTAAATTTGTGAGTTCCCAAGCACAAATTTTAG
Found at i:220875 original size:2 final size:2
Alignment explanation
Indices: 220868--220907 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
220858 GAGTATATTA
220868 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
220908 TCAATGTAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:221576 original size:18 final size:18
Alignment explanation
Indices: 221553--221604 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 18
221543 AAAATGCAGG
* *
221553 AAATGATGTCAACATTTT
1 AAATGATGTTAACATTTC
*
221571 AAATGATGTTAACACTTC
1 AAATGATGTTAACATTTC
221589 AAATGATGTTAACATT
1 AAATGATGTTAACATT
221605 GATGACAACG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.37
Consensus pattern (18 bp):
AAATGATGTTAACATTTC
Found at i:222149 original size:72 final size:72
Alignment explanation
Indices: 222031--222347 Score: 526
Period size: 72 Copynumber: 4.4 Consensus size: 72
222021 CAATGCTAAA
*
222031 CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATGTTTGGTTCTTGGATATTGAATTTATGTTCTACTTATTTAT
222096 GTGTAAT
66 GTGTAAT
* *
222103 TTAGTTTTATCAATAGATGTTTATGTTTGGTTCTTGGATATTGAATTTATGTTCTACTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATGTTTGGTTCTTGGATATTGAATTTATGTTCTACTTATTTAT
222168 GTGTAAT
66 GTGTAAT
* * *
222175 CTAATTTTATCAATAGTTGTTTATGTTTGGTTCTTGGATATTAAATTTATATTCTACTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATGTTTGGTTCTTGGATATTGAATTTATGTTCTACTTATTTAT
*
222240 GTGCAAT
66 GTGTAAT
* *
222247 CTAGTTTTATTAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATGTTTGGTTCTTGGATATTGAATTTATGTTCTACTTATTTAT
*
222312 GTGTATT
66 GTGTAAT
* *
222319 TTAGTTTTATCAATAGTTGTTTATATTTG
1 CTAGTTTTATCAATAGTTGTTTATGTTTG
222348 ATTTGGATAT
Statistics
Matches: 226, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
72 226 1.00
ACGTcount: A:0.23, C:0.06, G:0.15, T:0.56
Consensus pattern (72 bp):
CTAGTTTTATCAATAGTTGTTTATGTTTGGTTCTTGGATATTGAATTTATGTTCTACTTATTTAT
GTGTAAT
Found at i:224356 original size:13 final size:13
Alignment explanation
Indices: 224334--224364 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
224324 TCTTTAACCA
*
224334 AACTTTTCAAAAG
1 AACTTCTCAAAAG
224347 AACTTCTCAAAAG
1 AACTTCTCAAAAG
224360 AACTT
1 AACTT
224365 TTCCACCACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.45, C:0.19, G:0.06, T:0.29
Consensus pattern (13 bp):
AACTTCTCAAAAG
Found at i:227024 original size:22 final size:22
Alignment explanation
Indices: 226992--227048 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
226982 GAGGGTGATT
*
226992 CTTCTAGTGCTTTAAGTAGATC
1 CTTCTAGTGCTTTAAGTACATC
* *
227014 CTTTTAGTGCTTTAGGTACATC
1 CTTCTAGTGCTTTAAGTACATC
227036 CTTCTAGTGCTTT
1 CTTCTAGTGCTTT
227049 GCACAGCAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.18, C:0.19, G:0.18, T:0.46
Consensus pattern (22 bp):
CTTCTAGTGCTTTAAGTACATC
Found at i:230071 original size:11 final size:11
Alignment explanation
Indices: 230055--230079 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
230045 AATAAATTTT
230055 TTTTTTTTTAA
1 TTTTTTTTTAA
230066 TTTTTTTTTAA
1 TTTTTTTTTAA
230077 TTT
1 TTT
230080 ATAAAATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTTTTTTAA
Found at i:232045 original size:5 final size:6
Alignment explanation
Indices: 232014--232042 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
232004 TTTTGCCTAA
232014 ATTTTT ATTTTT ATTTTT ATTTTT ATTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTT
232043 ATTCCTTACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
ATTTTT
Done.