Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006321.1 Hibiscus syriacus cultivar Beakdansim tig00015101_pilon, 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: 133192
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Found at i:10256 original size:22 final size:21
Alignment explanation
Indices: 10218--10264 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
10208 TATAATTATT
10218 TAAAAAATTAAATAAAAATAC
1 TAAAAAATTAAATAAAAATAC
* *
10239 TAAAATATTTAATAAAAA-A-
1 TAAAAAATTAAATAAAAATAC
10258 TAAAAAA
1 TAAAAAA
10265 AATTTAGGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 6 0.26
20 1 0.04
21 16 0.70
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (21 bp):
TAAAAAATTAAATAAAAATAC
Found at i:10269 original size:21 final size:21
Alignment explanation
Indices: 10219--10270 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
10209 ATAATTATTT
* *
10219 AAAAAATTAAATAAAAATACT
1 AAAAAATTTAATAAAAATACA
*
10240 AAAATATTTAATAAAAAATA-A
1 AAAAAATTTAAT-AAAAATACA
10261 AAAAAATTTA
1 AAAAAATTTA
10271 GGTTGAACCG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 19 0.73
22 7 0.27
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (21 bp):
AAAAAATTTAATAAAAATACA
Found at i:11133 original size:5 final size:5
Alignment explanation
Indices: 11123--11166 Score: 54
Period size: 5 Copynumber: 8.8 Consensus size: 5
11113 GATCTAAACA
* *
11123 AAAAT AAAAT AAAAT AAAAT AAAAG AAGA- AAAAT AAGAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AA-AAT AAAA
11167 GAGACGACAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
4 3 0.09
5 26 0.76
6 5 0.15
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.14
Consensus pattern (5 bp):
AAAAT
Found at i:20216 original size:2 final size:2
Alignment explanation
Indices: 20209--20244 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
20199 AAAAATACTC
20209 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
20245 TTATGAAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22827 original size:20 final size:19
Alignment explanation
Indices: 22781--22840 Score: 57
Period size: 20 Copynumber: 3.1 Consensus size: 19
22771 AAAAAAAAAT
* * *
22781 TAAAAATATAAAATATTTAT
1 TAAAAATATAACAT-TTAAA
* *
22801 TATAAATATTACATTATAAA
1 TAAAAATATAACATT-TAAA
22821 TAAAAATATAACATTTAAA
1 TAAAAATATAACATTTAAA
22840 T
1 T
22841 TATATTTATA
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
19 6 0.19
20 26 0.81
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.38
Consensus pattern (19 bp):
TAAAAATATAACATTTAAA
Found at i:23020 original size:13 final size:13
Alignment explanation
Indices: 23002--23046 Score: 56
Period size: 13 Copynumber: 3.3 Consensus size: 13
22992 TTTAAATTAT
23002 AATAAAATATAAA
1 AATAAAATATAAA
23015 AATAAAA-ATAAA
1 AATAAAATATAAA
23027 AAGTAAATATAATAAA
1 AA-TAAA-AT-ATAAA
23043 AATA
1 AATA
23047 TATTTTATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 7 0.25
13 11 0.39
14 1 0.04
15 2 0.07
16 7 0.25
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (13 bp):
AATAAAATATAAA
Found at i:23645 original size:14 final size:15
Alignment explanation
Indices: 23626--23660 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
23616 CTATAAATAC
23626 ATTTAAAAA-TAAAA
1 ATTTAAAAATTAAAA
*
23640 ATTTAAAAATTAAAC
1 ATTTAAAAATTAAAA
23655 ATTTAA
1 ATTTAA
23661 CGTTATGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (15 bp):
ATTTAAAAATTAAAA
Found at i:24236 original size:36 final size:36
Alignment explanation
Indices: 24189--24260 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
24179 ACTTCATTCT
24189 GGGAATACATGACTATCGAGTCCAGAAATCTATGGC
1 GGGAATACATGACTATCGAGTCCAGAAATCTATGGC
24225 GGGAATACATGACTATCGAGTCCAGAAATCTATGGC
1 GGGAATACATGACTATCGAGTCCAGAAATCTATGGC
24261 TATGAAATAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.22
Consensus pattern (36 bp):
GGGAATACATGACTATCGAGTCCAGAAATCTATGGC
Found at i:32659 original size:64 final size:64
Alignment explanation
Indices: 32591--32731 Score: 167
Period size: 64 Copynumber: 2.2 Consensus size: 64
32581 ATGTAATTCA
** * * * *
32591 TGCATCGATGCATCCCATTAATAATGAA-ACATTGAATGCAATTGGTGCATCGATGCATAAGGAG
1 TGCATCGATGCATCCCAACAATAAT-AATACATCGAATACAATTGATGCACCGATGCATAAGGAG
** * * *
32655 TGCATCGATGCATCCCAACAATAATAATACATCGAATACCTTTTATGCACCGATGCATCAGTAG
1 TGCATCGATGCATCCCAACAATAATAATACATCGAATACAATTGATGCACCGATGCATAAGGAG
32719 TGCATCGATGCAT
1 TGCATCGATGCAT
32732 ACCTTCATTA
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
63 2 0.03
64 63 0.97
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.27
Consensus pattern (64 bp):
TGCATCGATGCATCCCAACAATAATAATACATCGAATACAATTGATGCACCGATGCATAAGGAG
Found at i:33057 original size:12 final size:12
Alignment explanation
Indices: 33039--33074 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
33029 TATATATGTT
33039 CATGTGATATGA
1 CATGTGATATGA
*
33051 TATGTGATATGA
1 CATGTGATATGA
33063 CATGTGATATGA
1 CATGTGATATGA
33075 GAACATGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (12 bp):
CATGTGATATGA
Found at i:33096 original size:23 final size:26
Alignment explanation
Indices: 33039--33107 Score: 85
Period size: 24 Copynumber: 2.8 Consensus size: 26
33029 TATATATGTT
**
33039 CATGTGATAT--GATATGTGATATGA
1 CATGTGATATGAGATACATGATATGA
33063 CATGTGATATGAGA-ACATGATATGA
1 CATGTGATATGAGATACATGATATGA
33088 -A-GTGATATGAGATACATGAT
1 CATGTGATATGAGATACATGAT
33108 CACAAGAGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
23 11 0.28
24 18 0.45
25 9 0.22
26 2 0.05
ACGTcount: A:0.38, C:0.06, G:0.25, T:0.32
Consensus pattern (26 bp):
CATGTGATATGAGATACATGATATGA
Found at i:39566 original size:64 final size:64
Alignment explanation
Indices: 39498--39638 Score: 167
Period size: 64 Copynumber: 2.2 Consensus size: 64
39488 ATGTAATTCA
** * * * *
39498 TGCATCGATGCATCCCATTAATAATGAA-ACATTGAATGCAATTGGTGCATCGATGCATAAGGAG
1 TGCATCGATGCATCCCAGCAATAAT-AATACATCGAATACAATTGATGCACCGATGCATAAGGAG
** * * *
39562 TGCATCGATGCATCCCAGCAATAATAATACATCGAATACCTTTTATGCACCGATGCATCAGTAG
1 TGCATCGATGCATCCCAGCAATAATAATACATCGAATACAATTGATGCACCGATGCATAAGGAG
39626 TGCATCGATGCAT
1 TGCATCGATGCAT
39639 ACCTTCATTA
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
63 2 0.03
64 63 0.97
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (64 bp):
TGCATCGATGCATCCCAGCAATAATAATACATCGAATACAATTGATGCACCGATGCATAAGGAG
Found at i:39964 original size:12 final size:12
Alignment explanation
Indices: 39946--39981 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
39936 TATATATGTT
39946 CATGTGATATGA
1 CATGTGATATGA
*
39958 TATGTGATATGA
1 CATGTGATATGA
39970 CATGTGATATGA
1 CATGTGATATGA
39982 GAACATGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (12 bp):
CATGTGATATGA
Found at i:40003 original size:23 final size:26
Alignment explanation
Indices: 39946--40014 Score: 85
Period size: 24 Copynumber: 2.8 Consensus size: 26
39936 TATATATGTT
**
39946 CATGTGATAT--GATATGTGATATGA
1 CATGTGATATGAGATACATGATATGA
39970 CATGTGATATGAGA-ACATGATATGA
1 CATGTGATATGAGATACATGATATGA
39995 -A-GTGATATGAGATACATGAT
1 CATGTGATATGAGATACATGAT
40015 CACAAGAGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
23 11 0.28
24 18 0.45
25 9 0.22
26 2 0.05
ACGTcount: A:0.38, C:0.06, G:0.25, T:0.32
Consensus pattern (26 bp):
CATGTGATATGAGATACATGATATGA
Found at i:46406 original size:45 final size:45
Alignment explanation
Indices: 46355--46457 Score: 120
Period size: 45 Copynumber: 2.3 Consensus size: 45
46345 GCATTGTTAG
** *
46355 TGCATCGATGCA-CTCTTTTAA-AATAAAAACATCGAATGTAATTCA
1 TGCATCGATGCATC-CCATTAATAAT-AAAACATCGAATGCAATTCA
* **
46400 TGCATCGATGCATCCCATTAATAATGAAACATCGAATGCAATTGG
1 TGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCA
46445 TGCATCGATGCAT
1 TGCATCGATGCAT
46458 AATGAGTGCA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
45 46 0.92
46 4 0.08
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (45 bp):
TGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCA
Found at i:46518 original size:64 final size:64
Alignment explanation
Indices: 46400--46543 Score: 166
Period size: 64 Copynumber: 2.2 Consensus size: 64
46390 ATGTAATTCA
* * * * *
46400 TGCATCGATGCATCCCATTAATAATGAAACATCGAATGCAATTGGTGCATCGATGCATAA-TGAG
1 TGCATCGATGCATACCAGTAATAATGAAACATCGAATACAATTGATGCACCGATGCATAAGT-AG
** * * *
46464 TGCATCGATGCATACCAGTAATAAT-AATACATCGAATACCTTTTATGCACCGATGTATCAGTAG
1 TGCATCGATGCATACCAGTAATAATGAA-ACATCGAATACAATTGATGCACCGATGCATAAGTAG
46528 TGCATCGATGCATACC
1 TGCATCGATGCATACC
46544 TTCATTAAAA
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
63 2 0.03
64 65 0.96
65 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (64 bp):
TGCATCGATGCATACCAGTAATAATGAAACATCGAATACAATTGATGCACCGATGCATAAGTAG
Found at i:46866 original size:12 final size:12
Alignment explanation
Indices: 46848--46883 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
46838 TATATATGTT
46848 CATGTGATATGA
1 CATGTGATATGA
*
46860 TATGTGATATGA
1 CATGTGATATGA
46872 CATGTGATATGA
1 CATGTGATATGA
46884 GAAAATGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (12 bp):
CATGTGATATGA
Found at i:48148 original size:18 final size:19
Alignment explanation
Indices: 48105--48148 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
48095 GTCTGACATA
*
48105 TTGACCTTGACCCGAACTG
1 TTGACTTTGACCCGAACTG
* *
48124 TTAACTTTGACCTGAA-TG
1 TTGACTTTGACCCGAACTG
48142 TTGACTT
1 TTGACTT
48149 ACCCATTGAC
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (19 bp):
TTGACTTTGACCCGAACTG
Found at i:54532 original size:22 final size:21
Alignment explanation
Indices: 54478--54534 Score: 55
Period size: 22 Copynumber: 2.7 Consensus size: 21
54468 ATAATAAACC
*
54478 AAAGAGAAAAGAAAAAAGTTA
1 AAAGAGAAAATAAAAAAGTTA
*
54499 ATAA-A-ATTAATAAAATAAGTTA
1 A-AAGAGA-AAATAAAA-AAGTTA
54521 AAAGAGAAAATAAA
1 AAAGAGAAAATAAA
54535 GGATTGATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 9
0.70 0.08 0.22
Matches are distributed among these distances:
20 1 0.04
21 10 0.36
22 16 0.57
23 1 0.04
ACGTcount: A:0.70, C:0.00, G:0.12, T:0.18
Consensus pattern (21 bp):
AAAGAGAAAATAAAAAAGTTA
Found at i:55381 original size:36 final size:34
Alignment explanation
Indices: 55341--55753 Score: 148
Period size: 36 Copynumber: 11.3 Consensus size: 34
55331 TAATAAAAAT
*
55341 TATAATATATATGTTTAAAAATTAATTTTCAAAC-TA
1 TATAATATATAT-TTT-AAAATT-ATTTTAAAACTTA
* * *
55377 TATAATTTATATTTTCAAATTGTTTTAAAACTTA
1 TATAATATATATTTTAAAATTATTTTAAAACTTA
* *
55411 TATATATATATATTTTTTCAAAA--CTTTTAAAAATTA
1 TATA-ATATATA--TTTT-AAAATTATTTTAAAACTTA
55447 TATAATATATATAATTTTTTTAAAATT-TTTTAAAAACTATA
1 TAT-A-ATATAT-A---TTTTAAAATTATTTT-AAAACT-TA
* * * *
55488 TAATATATATATGTTTTCAAAA-TGTTTCAAAAATTA
1 T-ATA-ATATATATTTT-AAAATTATTTTAAAACTTA
* *
55524 TATAATATATATATTTTTTCAAAA-TGTTTTAAAAATTA
1 TAT-A-ATATATA--TTTT-AAAATTATTTTAAAACTTA
* * *
55562 TATAATATATGTTTTCAAAAATGTTTTCAAAACTATA
1 TATAATATATATTTT-AAAATTATTTT-AAAACT-TA
* * *
55599 TTATTAATAT-T-TTTCAAAATGT-TTTAAAAACTATG
1 -TA-TAATATATATTTTAAAAT-TATTTTAAAACT-TA
* * * *
55634 TATTATACATATTTTCAAAA-TGTTTTAAAAATTA
1 TATAATATATATTTT-AAAATTATTTTAAAACTTA
* *
55668 TATAATATATATATGTTTTCAAAAATATTCTAAAAACTATA
1 TAT-A-ATATATA--TTTT-AAAATTATT-TTAAAACT-TA
* *
55709 TATCATATAGATTTTCAAAA-TATTTTTAAAA-TTA
1 TATAATATATATTTT-AAAATTA-TTTTAAAACTTA
55743 TATAATATATA
1 TATAATATATA
55754 CATATATAAA
Statistics
Matches: 305, Mismatches: 36, Indels: 74
0.73 0.09 0.18
Matches are distributed among these distances:
33 12 0.04
34 39 0.13
35 37 0.12
36 71 0.23
37 40 0.13
38 52 0.17
39 25 0.08
40 11 0.04
41 16 0.05
42 2 0.01
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (34 bp):
TATAATATATATTTTAAAATTATTTTAAAACTTA
Found at i:55765 original size:36 final size:36
Alignment explanation
Indices: 55375--55756 Score: 276
Period size: 38 Copynumber: 10.4 Consensus size: 36
55365 ATTTTCAAAC
* * * *
55375 TATATAAT-T-TATATTTTCAAATTGTTTTAAAACT
1 TATATAATATATACATTTTCAAAATATTTTAAAAAT
** *
55409 TATATATATATATATTTTTTCAAAA-CTTTTAAAAAT
1 TATATA-ATATATACATTTTCAAAATATTTTAAAAAT
* * * *
55445 TATATAATATATATAATTTTTTTAAAATTTTTTAAAAAC
1 TATATAATATATA-CA--TTTTCAAAATATTTTAAAAAT
* * *
55484 TATATAATATATATATGTTTTCAAAATGTTTCAAAAAT
1 TATATAATATATACA--TTTTCAAAATATTTTAAAAAT
* *
55522 TATATAATATATATATTTTTTCAAAATGTTTTAAAAAT
1 TATATAATATATACA--TTTTCAAAATATTTTAAAAAT
* * * *
55560 TATATAATATAT--GTTTTCAAAAATGTTTTCAAAAC
1 TATATAATATATACATTTTC-AAAATATTTTAAAAAT
* * * *
55595 TATATTAT-TAATA-TTTTTCAAAATGTTTTAAAAAC
1 TATATAATAT-ATACATTTTCAAAATATTTTAAAAAT
* * * * *
55630 TATGTATTATACATATTTTCAAAATGTTTTAAAAAT
1 TATATAATATATACATTTTCAAAATATTTTAAAAAT
* * *
55666 TATATAATATATATATGTTTTCAAAAATATTCTAAAAAC
1 TATATAATATATACA--TTTTC-AAAATATTTTAAAAAT
* *
55705 TATAT-ATCATATAGATTTTCAAAATATTTTTAAAAT
1 TATATAAT-ATATACATTTTCAAAATATTTTAAAAAT
55741 TATATAATATATACAT
1 TATATAATATATACAT
55757 ATATAAAATT
Statistics
Matches: 291, Mismatches: 40, Indels: 32
0.80 0.11 0.09
Matches are distributed among these distances:
34 12 0.04
35 54 0.19
36 79 0.27
37 18 0.06
38 82 0.28
39 46 0.16
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.47
Consensus pattern (36 bp):
TATATAATATATACATTTTCAAAATATTTTAAAAAT
Found at i:56631 original size:84 final size:83
Alignment explanation
Indices: 56319--58143 Score: 1755
Period size: 84 Copynumber: 22.0 Consensus size: 83
56309 TGCTTTGGGC
*
56319 TATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TT--TGGCAGATA
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGGCAGATA
* * * * *
56381 GCCCTTCTAGCCTTGAGC
66 ACCCTTCTCGACTTAAGT
* ** * * * *
56399 TATACCACAAATGATGTG--TTGTTGAGCTGA--GT-GTCGAACTCAAATGTCCTTGTTGGCAGA
1 TATGCTGCAAATGATGTGCCTTG--GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGGCAGA
* * *
56459 TAACCCTTCTAGCCTTGAGT
64 TAACCCTTCTCGACTTAAGT
* * *
56479 TATGCTACAAATGATGTGCCTTCGAAGCTGAGCGTAGTCGAACTCGAAGGTCTTCGGTTGGCAGA
1 TATGCTGCAAATGATGTGCCTT-GGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG-TGGCAGA
56544 TAACCCTTCTCGACTTAAGT
64 TAACCCTTCTCGACTTAAGT
* * * * *
56564 TATACTGCAAATAATATGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTTGGTGACAGAT
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTGGCAGAT
* *
56629 AACCCTTCTAGCCTTAAGT
65 AACCCTTCTCGACTTAAGT
** * * * * * * *
56648 TATGCTATAGATGATGTGTCCTCGAAGCTGAGTGTAATCGAACTTGAGGGTC-TT--TGGCAGAT
1 TATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGGCAGAT
* *
56710 AACCCTTATCGACTTAAGC
65 AACCCTTCTCGACTTAAGT
* * * * * * *
56729 TATACTGTAAATGATGTGCATTGGAGCTGAACGTAGTCGAACTCGAAGGTATTCGATTGGCAGAT
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTG-GTGGCAGAT
* *
56794 AACACTTTTCGACTTAAGT
65 AACCCTTCTCGACTTAAGT
* * *
56813 TATGCTGCAAATGATATGGCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTTTTTTGGTCTTTGGC
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGG-TCTTTGG----TGGC
* *
56878 AGATAACCCTTATCGACTTAAGC
61 AGATAACCCTTCTCGACTTAAGT
* * * * * * *
56901 TATACTGTAAATGATGTGCATTGGAGCTGAACGTAGTCGAACTCGAAGGTATTCGATTGGCAGAT
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTG-GTGGCAGAT
* *
56966 AACACTTTTCGACTTAAGT
65 AACCCTTCTCGACTTAAGT
* * * *
56985 TATGCTGCAAATGATATGGCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTTTTTTGGTGACAGAT
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGG-TCTTTGGTGGCAGAT
* * *
57050 AACCCTTCTAGCCTTGAGT
65 AACCCTTCTCGACTTAAGT
* * * * * * *
57069 TATGCTGTAGATGATGTGTCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTC-TT--TGGCAGAT
1 TATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGGCAGAT
** *
57131 TGCCCTTCTCGACTTAAGA
65 AACCCTTCTCGACTTAAGT
57150 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGAT
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG-TGGCAGAT
57215 AACCCTTCTCGACTTAAGT
65 AACCCTTCTCGACTTAAGT
* * * * *
57234 TATTCTGCACATGATATGCCTTGGAGCTAAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACAGAT
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTGGCAGAT
* * *
57299 AACCCTTCTAGCCTTGAGT
65 AACCCTTCTCGACTTAAGT
* * * * * * * * *
57318 TATGCTGTAGATGATGTGTCCTCGAAGCTGAGTGTAATCAAACTCGAGGGT-ATT--TGGCAGAT
1 TATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGGCAGAT
*
57380 AACCCTTCTCGACTTAAGC
65 AACCCTTCTCGACTTAAGT
** * *
57399 TATGCTATAAATGATGTG-CTCTGGAGCTAAGCGTAGTCAAACTCGAAGGTCTTTGGTTGGCAGA
1 TATGCTGCAAATGATGTGCCT-TGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG-TGGCAGA
57463 TAACCCTTCTCGACTTAAGT
64 TAACCCTTCTCGACTTAAGT
* * * *
57483 TATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTAGAACTCGAAGGTCTTTTGGTGACATAT
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTGGCAGAT
* * * *
57548 AACCCTTATAGCCTTGAGT
65 AACCCTTCTCGACTTAAGT
* * * * ** * *
57567 TATGCTGTAGATGATGTGTCCTCGAAGCTGAGTATAATCGAACTCGAGGGTC-TT--TGGCAGAT
1 TATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGGCAGAT
* *
57629 AGCCCTTCTCGACTTAAGC
65 AACCCTTCTCGACTTAAGT
* * *
57648 TATGCTGCAAATGATGTGCCTTGGA-CTTAGCGTAGTCAAACTCGAAGGTCTTTGGTTGACAGAT
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG-TGGCAGAT
57712 AACCCTTCTCGACTTAAGT
65 AACCCTTCTCGACTTAAGT
* * * *
57731 TATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTTGATGACAGAT
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTGGCAGAT
* * *
57796 AACACTTCT-AACCTTGAGT
65 AACCCTTCTCGA-CTTAAGT
* * * * ** * * *
57815 TATGCTGTAGATGATGTGTCCTCGAAGCTGATTGTAATCGAACTCGAGGGT-ATT--TGGCAGAT
1 TATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGGCAGAT
* *
57877 AGCCCTTCTCGACTTAAGC
65 AACCCTTCTCGACTTAAGT
*
57896 TATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGAT
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG-TGGCAGAT
57961 AACCCTTCTCGACTTAAGT
65 AACCCTTCTCGACTTAAGT
* * * * * * ** *
57980 TATGCTGCAAATAATATGCCTTGGAGCTTAGCGTAGTCGAAATCGAATGTCTTTTGATTACATAT
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTGGCAGAT
* * *
58045 AACCCTTCTAGCCTTGAGT
65 AACCCTTCTCGACTTAAGT
* * * * * * *
58064 TATGATGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTC-TT--TGGCAGAT
1 TATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGGCAGAT
*
58126 AGCCCTTCTCGACTTAAG
65 AACCCTTCTCGACTTAAG
58144 CTATACTACA
Statistics
Matches: 1416, Mismatches: 274, Indels: 109
0.79 0.15 0.06
Matches are distributed among these distances:
77 14 0.01
78 7 0.00
79 21 0.01
80 170 0.12
81 212 0.15
82 3 0.00
83 64 0.05
84 628 0.44
85 226 0.16
87 4 0.00
88 67 0.05
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (83 bp):
TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGGCAGATA
ACCCTTCTCGACTTAAGT
Found at i:56755 original size:165 final size:163
Alignment explanation
Indices: 56319--58143 Score: 1706
Period size: 165 Copynumber: 11.0 Consensus size: 163
56309 TGCTTTGGGC
* *
56319 TATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGCAGATAGCC
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGCAGATAACC
* * * ** * *
56384 CTTCTAGCCTTGAGCTATACCACAAATGATGTG--TTGTTGAGCTGA--GT-GTCGAACTCAAAT
66 CTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTG--GAGCTGAGCGTAGTCGAACTCGAAG
* * * * *
56444 GTCCTTGTTGGCAGATAACCCTTCTAGCCTTGAGT
129 GTCTTTGGTGGCAGATAACCCTTCTCGACTTAAGT
* *
56479 TATGCTACAAATGATGTGCCTTCGAAGCTGAGCGTAGTCGAACTCGAAGGTCTTCGGTTGGCAGA
1 TATGCTGCAAATGATGTGCCTT-GGAGCTGAGCGTAGTCGAACTCGAAGGTC-T---TTGGCAGA
* * * *
56544 TAACCCTTCTCGACTTAAGTTATACTGCAAATAATATGCCTTGGAGCTGAGCGTAGTCAAACTCG
61 TAACCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCG
* * *
56609 AAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTAAGT
126 AAGGTC-TTTGGTGGCAGATAACCCTTCTCGACTTAAGT
** * * * * * * *
56648 TATGCTATAGATGATGTGTCCTCGAAGCTGAGTGTAATCGAACTTGAGGGTCTTTGGCAGATAAC
1 TATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGCAGATAAC
* * * *
56713 CCTTATCGACTTAAGCTATACTGTAAATGATGTGCATTGGAGCTGAACGTAGTCGAACTCGAAGG
65 CCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGG
* * * * *
56778 TATTCGATTGGCAGATAACACTTTTCGACTTAAGT
130 TCTTTG-GTGGCAGATAACCCTTCTCGACTTAAGT
* *
56813 TATGCTGCAAATGATATGGCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTTTTTTGGTCTTTGGC
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAA--------GGTCTTTGGC
* * * *
56878 AGATAACCCTTATCGACTTAAGCTATACTGTAAATGATGTGCATTGGAGCTGAACGTAGTCGAAC
58 AGATAACCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
* * * * *
56943 TCGAAGGTATTCGATTGGCAGATAACACTTTTCGACTTAAGT
123 TCGAAGGTCTTTG-GTGGCAGATAACCCTTCTCGACTTAAGT
* * *
56985 TATGCTGCAAATGATATGGCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTTTTTTGGTGACAGAT
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGG-TCTTT-G-G-CAGAT
* * * * * * * * * * *
57050 AACCCTTCTAGCCTTGAGTTATGCTGTAGATGATGTGTCCTCGAAGCTGAGTGTAATCGAACTCG
62 AACCCTTCTCGACTTAAGCTATACTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCG
* ** *
57115 AGGGTC-TT--TGGCAGATTGCCCTTCTCGACTTAAGA
126 AAGGTCTTTGGTGGCAGATAACCCTTCTCGACTTAAGT
57150 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGAT
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC--T--TTGGCAGAT
* * * * *
57215 AACCCTTCTCGACTTAAGTTATTCTGCACATGATATGCCTTGGAGCTAAGCGTAGTCGAACTCGA
62 AACCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGA
* * * *
57280 AGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGT
127 AGGTC-TTTGGTGGCAGATAACCCTTCTCGACTTAAGT
* * * * * * * * *
57318 TATGCTGTAGATGATGTGTCCTCGAAGCTGAGTGTAATCAAACTCGAGGGTATTTGGCAGATAAC
1 TATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGCAGATAAC
* ** * *
57383 CCTTCTCGACTTAAGCTATGCTATAAATGATGTG-CTCTGGAGCTAAGCGTAGTCAAACTCGAAG
65 CCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCT-TGGAGCTGAGCGTAGTCGAACTCGAAG
57447 GTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGT
129 GTCTTTGG-TGGCAGATAACCCTTCTCGACTTAAGT
* * *
57483 TATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTAGAACTCGAAGGTCTTTTGGTGACATAT
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTT-G-G-CAGAT
* * * * * * * * * * ** *
57548 AACCCTTATAGCCTTGAGTTATGCTGTAGATGATGTGTCCTCGAAGCTGAGTATAATCGAACTCG
62 AACCCTTCTCGACTTAAGCTATACTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCG
* * *
57613 AGGGTC-TT--TGGCAGATAGCCCTTCTCGACTTAAGC
126 AAGGTCTTTGGTGGCAGATAACCCTTCTCGACTTAAGT
* *
57648 TATGCTGCAAATGATGTGCCTTGGA-CTTAGCGTAGTCAAACTCGAAGGTCTTTGGTTGACAGAT
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTT-G--G-CAGAT
* * * *
57712 AACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCAAACTCGA
62 AACCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGA
* * * * *
57777 AGGTCTTTTGATGACAGATAACACTTCT-AACCTTGAGT
127 AGGTC-TTTGGTGGCAGATAACCCTTCTCGA-CTTAAGT
* * * * ** * * * *
57815 TATGCTGTAGATGATGTGTCCTCGAAGCTGATTGTAATCGAACTCGAGGGTATTTGGCAGATAGC
1 TATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGCAGATAAC
57880 CCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGG
65 CCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGG
57945 TCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGT
130 TCTTTGG-TGGCAGATAACCCTTCTCGACTTAAGT
* * * * * * *
57980 TATGCTGCAAATAATATGCCTTGGAGCTTAGCGTAGTCGAAATCGAATGTCTTTTGATTACATAT
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTG---GCAGAT
* * * * * * * * *
58045 AACCCTTCTAGCCTTGAGTTATGA-TGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTC
62 AACCCTTCTCGACTTAAGCTAT-ACTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTC
* *
58109 GAGGGTC-TT--TGGCAGATAGCCCTTCTCGACTTAAG
125 GAAGGTCTTTGGTGGCAGATAACCCTTCTCGACTTAAG
58144 CTATACTACA
Statistics
Matches: 1385, Mismatches: 221, Indels: 113
0.81 0.13 0.07
Matches are distributed among these distances:
160 20 0.01
161 28 0.02
162 1 0.00
163 31 0.02
164 173 0.12
165 553 0.40
166 9 0.01
167 44 0.03
168 165 0.12
169 192 0.14
170 5 0.00
172 164 0.12
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (163 bp):
TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGCAGATAACC
CTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGT
CTTTGGTGGCAGATAACCCTTCTCGACTTAAGT
Found at i:56774 original size:249 final size:246
Alignment explanation
Indices: 56292--58156 Score: 2116
Period size: 249 Copynumber: 7.5 Consensus size: 246
56282 ATAATTTTAT
* * * * * * * * * *
56292 TGACAGATAGCTCTTCTTGCTTTGGGCTATGCTGTAAATGATGTG-CCTTGGAGCTGAGCGTAGT
1 TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAGATGATGTGTCCTCGAAGCTGAGCGTAAT
* * * * * *
56356 CGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTAGCCTTGAGCTATACCACAAATGATGTG--TT
66 CGAACTCGAAGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTACAAATGATGTGCCTT
* * * * *
56419 GTTGAGCTGA--GT-GTCGAACTCAAATGTCCTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTA
131 G--GAGCTGAGCGTAGTCGAACTCGAAGGT-CTTGTTGGCAGATAACCCTTCTCGACTTAAGTTA
* * * *
56481 TGCTACAAATGATGTGCCTTCGAAGCTGAGCGTAGTCGAACTCGAAGGTCTTCGG
193 TGCTGCAAATGATATGCCTT-GGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG
* * * * * * * * * * * *
56536 TTGGCAGATAACCCTTCTCGACTTAAGTTATACTGCAAATAATATG-CCTTGGAGCTGAGCGTAG
1 -TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAGATGATGTGTCCTCGAAGCTGAGCGTAA
* * * * * *
56600 TCAAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTAAGTTATGCTATAGATGATGT
65 TCGAACTCGAAGGTC-TTT-G-G-CAGATAACCCTTCTCGACTTAAGCTATGCTACAAATGATGT
* * * * * * *
56665 GTCCTCGAAGCTGAGTGTAATCGAACTTGAGGGTC-T-TTGGCAGATAACCCTTATCGACTTAAG
126 G-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTGTTGGCAGATAACCCTTCTCGACTTAAG
* * * * * * * * *
56728 CTATACTGTAAATGATGTGCATTGGAGCTGAACGTAGTCGAACTCGAAGGTATTCGAT
190 TTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTG-G
* * * * * * * * * * * * *
56786 TGGCAGATAACACTTTTCGACTTAAGTTATGCTGCAAATGATATG-GCTTGGAGCTGAGCGTAGT
1 TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAGATGATGTGTCCTCGAAGCTGAGCGTAAT
* * **
56850 CGAACTCGAAGGTTTTTTGGTCTTTGGCAGATAACCCTTATCGACTTAAGCTATACTGTAAATGA
66 CGAACTCGAA--------GGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTACAAATGA
* * * * *
56915 TGTGCATTGGAGCTGAACGTAGTCGAACTCGAAGGTATTCGATTGGCAGATAACACTTTTCGACT
123 TGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTT-G-TTGGCAGATAACCCTTCTCGACT
* *
56980 TAAGTTATGCTGCAAATGATATGGCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTTTTTTGG
186 TAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGG-TCTTTGG
*
57042 TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAGATGATGTGTCCTCGAAGCTGAGTGTAAT
1 TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAGATGATGTGTCCTCGAAGCTGAGCGTAAT
* ** * *
57107 CGAACTCGAGGGTCTTTGGCAGATTGCCCTTCTCGACTTAAGATATGCTGCAAATGATGTGCCTT
66 CGAACTCGAAGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTACAAATGATGTGCCTT
57172 GGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTAT
131 GGAGCTGAGCGTAGTCGAACTCGAAGGTC-TT-GTTGGCAGATAACCCTTCTCGACTTAAGTTAT
* * *
57237 TCTGCACATGATATGCCTTGGAGCTAAGCGTAGTCGAACTCGAAGGTCTTTTGG
194 GCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGG
*
57291 TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAGATGATGTGTCCTCGAAGCTGAGTGTAAT
1 TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAGATGATGTGTCCTCGAAGCTGAGCGTAAT
* * * *
57356 CAAACTCGAGGGTATTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTATAAATGATGTG-CTC
66 CGAACTCGAAGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTACAAATGATGTGCCT-
* *
57420 TGGAGCTAAGCGTAGTCAAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTA
130 TGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TT-GTTGGCAGATAACCCTTCTCGACTTAAGTTA
*
57485 TGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTAGAACTCGAAGGTCTTTTGG
193 TGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGG
* * **
57540 TGACATATAACCCTTATAGCCTTGAGTTATGCTGTAGATGATGTGTCCTCGAAGCTGAGTATAAT
1 TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAGATGATGTGTCCTCGAAGCTGAGCGTAAT
* * *
57605 CGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTT
66 CGAACTCGAAGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTACAAATGATGTGCCTT
* * *
57670 GGA-CTTAGCGTAGTCAAACTCGAAGGTCTTTGGTTGACAGATAACCCTTCTCGACTTAAGTTAT
131 GGAGCTGAGCGTAGTCGAACTCGAAGGTC-TT-GTTGGCAGATAACCCTTCTCGACTTAAGTTAT
* *
57734 GCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTTGA
194 GCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGG
* * **
57788 TGACAGATAACACTTCTAACCTTGAGTTATGCTGTAGATGATGTGTCCTCGAAGCTGATTGTAAT
1 TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAGATGATGTGTCCTCGAAGCTGAGCGTAAT
* * * * *
57853 CGAACTCGAGGGTATTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTT
66 CGAACTCGAAGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTACAAATGATGTGCCTT
57918 GGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTAT
131 GGAGCTGAGCGTAGTCGAACTCGAAGGTC-TT-GTTGGCAGATAACCCTTCTCGACTTAAGTTAT
* * * * *
57983 GCTGCAAATAATATGCCTTGGAGCTTAGCGTAGTCGAAATCGAATGTCTTTTGA
194 GCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGG
* * * * * *
58037 TTACATATAACCCTTCTAGCCTTGAGTTATGATGTAAATGATGTGCCCTCGAAGCTGAGTGTAAT
1 TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAGATGATGTGTCCTCGAAGCTGAGCGTAAT
* * *
58102 CGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTACAAAT
66 CGAACTCGAAGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTACAAAT
58157 AGTTTGTATA
Statistics
Matches: 1431, Mismatches: 159, Indels: 56
0.87 0.10 0.03
Matches are distributed among these distances:
245 64 0.04
246 3 0.00
247 1 0.00
248 239 0.17
249 856 0.60
250 52 0.04
251 1 0.00
252 29 0.02
253 46 0.03
254 1 0.00
255 1 0.00
256 107 0.07
257 31 0.02
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (246 bp):
TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAGATGATGTGTCCTCGAAGCTGAGCGTAAT
CGAACTCGAAGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTACAAATGATGTGCCTT
GGAGCTGAGCGTAGTCGAACTCGAAGGTCTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGC
TGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG
Found at i:63388 original size:9 final size:9
Alignment explanation
Indices: 63374--63401 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
63364 GAAAAAAGTT
63374 AATAAAATA
1 AATAAAATA
63383 AATAAAATA
1 AATAAAATA
63392 AATAAAATA
1 AATAAAATA
63401 A
1 A
63402 GTTAAAAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (9 bp):
AATAAAATA
Found at i:63522 original size:15 final size:17
Alignment explanation
Indices: 63504--63544 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
63494 ATAATAAAAT
63504 AAAATAAAA-TAGGG-A
1 AAAATAAAATTAGGGAA
63519 AAAATAAAATTTAGGGAA
1 AAAATAAAA-TTAGGGAA
63537 AAAATAAA
1 AAAATAAA
63545 CAATAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.39
17 5 0.22
18 9 0.39
ACGTcount: A:0.68, C:0.00, G:0.15, T:0.17
Consensus pattern (17 bp):
AAAATAAAATTAGGGAA
Found at i:65251 original size:36 final size:36
Alignment explanation
Indices: 64886--65252 Score: 398
Period size: 36 Copynumber: 9.9 Consensus size: 36
64876 CTATACAATT
64886 TATATTTTCAAAATTTGTTTTAAAAACTTATATATTATA
1 TATATTTTCAAAA--TGTTTTAAAAA-TTATATATTATA
* *
64925 TATATTTTTCAAAAACGTTTTAAAAATTATATAATATA
1 TATA-TTTTC-AAAATGTTTTAAAAATTATATATTATA
* * *
64963 TATAAGTTTTTTAAAATATTTTAAAAACTATATAATATATA
1 TAT-A--TTTTCAAAATGTTTTAAAAATTATAT-AT-TATA
*
65004 TATGTTTTCAAAATGTTTTAAAAATTATA-ATATATA
1 TATATTTTCAAAATGTTTTAAAAATTATATAT-TATA
*
65040 TATATATTCAAAATGTTTTAAAAATTATATA--ATA
1 TATATTTTCAAAATGTTTTAAAAATTATATATTATA
* *
65074 TATGTTTTCAAAAATGTTTTAAAAACTATATATTATA
1 TATATTTTC-AAAATGTTTTAAAAATTATATATTATA
* * *
65111 TATATTTTCACAATGTTTTAAAAACTATGTATTATA
1 TATATTTTCAAAATGTTTTAAAAATTATATATTATA
* * *
65147 CATATTTTCAAAATGTTTTTAAAACTATATATTATA
1 TATATTTTCAAAATGTTTTAAAAATTATATATTATA
* * *
65183 TATATGTTTTCAAAAATGTTCTAAAAACTATATATCATA
1 TATA--TTTTC-AAAATGTTTTAAAAATTATATATTATA
* *
65222 TAGATTTTCAAAATGTTTTTAAAATTATATA
1 TATATTTTCAAAATGTTTTAAAAATTATATA
65253 ATCTATACAT
Statistics
Matches: 284, Mismatches: 31, Indels: 29
0.83 0.09 0.08
Matches are distributed among these distances:
34 10 0.04
35 21 0.07
36 113 0.40
37 17 0.06
38 41 0.14
39 60 0.21
40 11 0.04
41 11 0.04
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.46
Consensus pattern (36 bp):
TATATTTTCAAAATGTTTTAAAAATTATATATTATA
Found at i:65271 original size:111 final size:109
Alignment explanation
Indices: 64829--65271 Score: 399
Period size: 111 Copynumber: 4.0 Consensus size: 109
64819 AATAAAAACA
* * ** * * *
64829 TTTTCTAAAATTATATA-ATATATATG-TTTAAAAAATAAATTTCAAAACTATACA-ATTTATAT
1 TTTT-TAAAAATATATATATATATATGTTTTCAAAAAT-GTTTTAAAAACTATATATATATATAT
* * * *
64891 TTTCAAAATTTGTTTTAAAAACT-TATATATTATATATATTTTTCAAAAACG
64 TTTCAAAATGT-TTTTAAAAA-TATATA-ATTATACATA--TATC-AAAATG
* ** *
64942 -TTTTAAAAATTATATAATATATATAAGTTTTTTAAAATATTTTAAAAACTATATAATATATATA
1 TTTTTAAAAA-TATAT-ATATATATATGTTTTCAAAAATGTTTTAAAAACTATAT-ATATATATA
*
65006 TGTTTTCAAAATG-TTTTAAAAAT-TATAATATATATATATATTCAAAATG
63 --TTTTCAAAATGTTTTTAAAAATATATAAT-TATACATATA-TCAAAATG
65055 -TTTTAAAAAT-TATATA-ATATATGTTTTCAAAAATGTTTTAAAAACTATATATTATATATATT
1 TTTTTAAAAATATATATATATATATGTTTTCAAAAATGTTTTAAAAACTATATA-TATATATATT
* * *
65117 TTCACAATG-TTTTAAAAACTATGT-ATTATACATATTTTCAAAATG
65 TTCAAAATGTTTTTAAAAA-TATATAATTATACATA-TATCAAAATG
* * *
65162 TTTTTAAAACTATATATTATATATATGTTTTCAAAAATGTTCTAAAAACTATATATCATATAGAT
1 TTTTTAAAAATATATA-TATATATATGTTTTCAAAAATGTTTTAAAAACTATATAT-ATATATAT
*
65227 TTTCAAAATGTTTTTAAAATTATATAATCTATACATATAT-AAAAT
64 TTTCAAAATGTTTTTAAAAATATATAAT-TATACATATATCAAAAT
65272 AAAATAAAAA
Statistics
Matches: 282, Mismatches: 26, Indels: 46
0.80 0.07 0.13
Matches are distributed among these distances:
107 34 0.12
108 14 0.05
109 44 0.16
110 6 0.02
111 67 0.24
112 21 0.07
113 24 0.09
114 25 0.09
115 22 0.08
116 15 0.05
118 10 0.04
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (109 bp):
TTTTTAAAAATATATATATATATATGTTTTCAAAAATGTTTTAAAAACTATATATATATATATTT
TCAAAATGTTTTTAAAAATATATAATTATACATATATCAAAATG
Found at i:65304 original size:11 final size:11
Alignment explanation
Indices: 65288--65312 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
65278 AAAATGACTA
65288 AAATAAATAAT
1 AAATAAATAAT
65299 AAATAAATAAT
1 AAATAAATAAT
65310 AAA
1 AAA
65313 CATAAATATG
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:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
AAATAAATAAT
Found at i:66443 original size:22 final size:22
Alignment explanation
Indices: 66418--66467 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
66408 TTATGAAATT
66418 TAATTAT-TT-AAAATATTTAAAA
1 TAATTATATTCAAAA-A-TTAAAA
66440 TAATTATATTCAAAAATTAAAA
1 TAATTATATTCAAAAATTAAAA
*
66462 AAATTA
1 TAATTA
66468 GCTAATAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
22 18 0.72
23 3 0.12
24 4 0.16
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
TAATTATATTCAAAAATTAAAA
Found at i:68571 original size:2 final size:2
Alignment explanation
Indices: 68564--68609 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
68554 AATGAATACA
68564 AT 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 AT
68606 AT AT
1 AT AT
68610 TCTAGGGGTC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:70442 original size:38 final size:38
Alignment explanation
Indices: 70400--70474 Score: 125
Period size: 38 Copynumber: 2.0 Consensus size: 38
70390 TGTTCGATTT
70400 GTTTATATTCATGAACAA-ACTCATTTGTAAACTCATTC
1 GTTTATATTCATGAACAAGA-TCATTTGTAAACTCATTC
*
70438 GTTTATATTCATTAACAAGATCATTTGTAAACTCATT
1 GTTTATATTCATGAACAAGATCATTTGTAAACTCATT
70475 TATTTTGTAC
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
38 34 0.97
39 1 0.03
ACGTcount: A:0.35, C:0.16, G:0.08, T:0.41
Consensus pattern (38 bp):
GTTTATATTCATGAACAAGATCATTTGTAAACTCATTC
Found at i:70699 original size:47 final size:47
Alignment explanation
Indices: 70603--70711 Score: 119
Period size: 47 Copynumber: 2.3 Consensus size: 47
70593 TTTAGCTTGC
* * *** *
70603 AAATAAACAAATTCACAAAAATATAAATAAATATGTTTGTGAACGTT
1 AAATAAACAAATTCACAAAAACATAAATAAACATGTTCAAGAACATT
* * *
70650 AAATAAACAAGTTCACAAACACATAAATGAACATGTTCAAGAACATT
1 AAATAAACAAATTCACAAAAACATAAATAAACATGTTCAAGAACATT
* *
70697 AAACAAACATATTCA
1 AAATAAACAAATTCA
70712 TGAACGCTAA
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.54, C:0.14, G:0.07, T:0.25
Consensus pattern (47 bp):
AAATAAACAAATTCACAAAAACATAAATAAACATGTTCAAGAACATT
Found at i:72024 original size:94 final size:94
Alignment explanation
Indices: 71861--72153 Score: 514
Period size: 94 Copynumber: 3.1 Consensus size: 94
71851 ATATAGGGTG
* * *
71861 GGGACAGCAACTTAACTAGTGGCTGTGCATAACCGATTGCAATAGCATGTTCACAATAAAGAATA
1 GGGACAGCAACTTAACTAGTGAC--TGCGTAACCGATTACAATAGCATGTTCACAATAAAGAATA
71926 ATTACAGTAATATGCATGCTCAACTGTAAAT
64 ATTACAGTAATATGCATGCTCAACTGTAAAT
* *
71957 GGGACAGCAACTTAACTAGTGACTGCGTAACCGATTAAAATAGCATGCTCACAATAAAGAATAAT
1 GGGACAGCAACTTAACTAGTGACTGCGTAACCGATTACAATAGCATGTTCACAATAAAGAATAAT
*
72022 TACAGCAATATGCATGCTCAACTGTAAAT
66 TACAGTAATATGCATGCTCAACTGTAAAT
72051 GGGACAGCAACTTAACTAGTGACTGCGTAACCGATTACAATAGCATGTTCACAATAAAGAATAAT
1 GGGACAGCAACTTAACTAGTGACTGCGTAACCGATTACAATAGCATGTTCACAATAAAGAATAAT
72116 TACAGTAATATGCATGCTCAACTGTAAAT
66 TACAGTAATATGCATGCTCAACTGTAAAT
72145 GGGACAGCA
1 GGGACAGCA
72154 CATGTTCACA
Statistics
Matches: 188, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
94 166 0.88
96 22 0.12
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.24
Consensus pattern (94 bp):
GGGACAGCAACTTAACTAGTGACTGCGTAACCGATTACAATAGCATGTTCACAATAAAGAATAAT
TACAGTAATATGCATGCTCAACTGTAAAT
Found at i:72232 original size:60 final size:60
Alignment explanation
Indices: 72094--72212 Score: 238
Period size: 60 Copynumber: 2.0 Consensus size: 60
72084 ATTACAATAG
72094 CATGTTCACAATAAAGAATAATTACAGTAATATGCATGCTCAACTGTAAATGGGACAGCA
1 CATGTTCACAATAAAGAATAATTACAGTAATATGCATGCTCAACTGTAAATGGGACAGCA
72154 CATGTTCACAATAAAGAATAATTACAGTAATATGCATGCTCAACTGTAAATGGGACAGC
1 CATGTTCACAATAAAGAATAATTACAGTAATATGCATGCTCAACTGTAAATGGGACAGC
72213 CTTTAAACAC
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.25
Consensus pattern (60 bp):
CATGTTCACAATAAAGAATAATTACAGTAATATGCATGCTCAACTGTAAATGGGACAGCA
Found at i:91103 original size:42 final size:42
Alignment explanation
Indices: 91052--91194 Score: 128
Period size: 42 Copynumber: 3.4 Consensus size: 42
91042 TAAAAATTAT
* *
91052 TATCAAAAATATTAATATTTTTTAATATTTTCGATAGAATAT
1 TATCGAAAATATTAATATTTTTTAATATTTTCGATAGAATAC
* * * **
91094 TATCGAAAATGTTAATATTATTTTAACATTTAC-AGTAGAACGC
1 TATCGAAAATATTAATATT-TTTTAATATTTTCGA-TAGAATAC
* * * **
91137 TA-CTTAAAATGTTAATATTTTTTAATATTTTCGGTAGAGGAC
1 TATC-GAAAATATTAATATTTTTTAATATTTTCGATAGAATAC
*
91179 TACCGAAAATATTAAT
1 TATCGAAAATATTAAT
91195 TTCGGTAGAG
Statistics
Matches: 80, Mismatches: 16, Indels: 10
0.75 0.15 0.09
Matches are distributed among these distances:
42 47 0.59
43 33 0.41
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (42 bp):
TATCGAAAATATTAATATTTTTTAATATTTTCGATAGAATAC
Found at i:91199 original size:29 final size:29
Alignment explanation
Indices: 91165--91255 Score: 146
Period size: 29 Copynumber: 3.1 Consensus size: 29
91155 TTTTTAATAT
*
91165 TTTCGGTAGAGGACTACCGAAAATATTAA
1 TTTCGGTAGAGGACTACCGAAAATGTTAA
* *
91194 TTTCGGTAGAGGGCTATCGAAAATGTTAA
1 TTTCGGTAGAGGACTACCGAAAATGTTAA
*
91223 TTTCGGTAGAGGACTACCGGAAATGTTAA
1 TTTCGGTAGAGGACTACCGAAAATGTTAA
91252 TTTC
1 TTTC
91256 ACTACCTAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 56 1.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.31
Consensus pattern (29 bp):
TTTCGGTAGAGGACTACCGAAAATGTTAA
Found at i:91572 original size:17 final size:18
Alignment explanation
Indices: 91550--91586 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
91540 TTGATCCAAT
91550 ATATTTTA-TAATTATTA
1 ATATTTTATTAATTATTA
*
91567 ATATTTTATTATTTATTA
1 ATATTTTATTAATTATTA
91585 AT
1 AT
91587 TAATCAATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
ATATTTTATTAATTATTA
Found at i:99276 original size:5 final size:5
Alignment explanation
Indices: 99268--99293 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
99258 TATCTTCTAA
99268 AATTC AATTC AATTC AATTC AATTC A
1 AATTC AATTC AATTC AATTC AATTC A
99294 CCATGAATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.38
Consensus pattern (5 bp):
AATTC
Found at i:99567 original size:5 final size:5
Alignment explanation
Indices: 99551--99579 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
99541 AATCAATAAA
99551 TATAT T-TAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT
99580 ATTCTTAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TATAT
Found at i:99758 original size:17 final size:17
Alignment explanation
Indices: 99725--99758 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
99715 TGATTATGAG
*
99725 TTAAATTTTTATAATAT
1 TTAAATTTTAATAATAT
*
99742 TTAAATTTTAATTATAT
1 TTAAATTTTAATAATAT
99759 ATTAGAGATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TTAAATTTTAATAATAT
Found at i:100865 original size:10 final size:10
Alignment explanation
Indices: 100850--100940 Score: 56
Period size: 10 Copynumber: 8.1 Consensus size: 10
100840 TCTTTAAATG
100850 ATAAACGAAC
1 ATAAACGAAC
100860 ATAAACGAAC
1 ATAAACGAAC
*
100870 ACAAGCGAACGAAC
1 A-TA---AACGAAC
*
100884 ATAAATGAAC
1 ATAAACGAAC
100894 ATAATACATGAAC
1 ATAA-AC--GAAC
*
100907 ATAAATGAGCAC
1 ATAAACGA--AC
*
100919 AATAAATGAAC
1 -ATAAACGAAC
100930 ATAAACGAAC
1 ATAAACGAAC
100940 A
1 A
100941 ACACACACAC
Statistics
Matches: 65, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
10 33 0.51
11 4 0.06
12 3 0.05
13 17 0.26
14 8 0.12
ACGTcount: A:0.57, C:0.18, G:0.12, T:0.13
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:100910 original size:23 final size:23
Alignment explanation
Indices: 100850--100940 Score: 92
Period size: 23 Copynumber: 3.9 Consensus size: 23
100840 TCTTTAAATG
* *
100850 ATAAACGAACATAAACGAACACA
1 ATAAATGAACATAAATGAACACA
** * *
100873 AGCGAACGAACATAAATGAACATA
1 A-TAAATGAACATAAATGAACACA
* *
100897 ATACATGAACATAAATGAGCACA
1 ATAAATGAACATAAATGAACACA
*
100920 ATAAATGAACATAAACGAACA
1 ATAAATGAACATAAATGAACA
100941 ACACACACAC
Statistics
Matches: 54, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
23 35 0.65
24 19 0.35
ACGTcount: A:0.57, C:0.18, G:0.12, T:0.13
Consensus pattern (23 bp):
ATAAATGAACATAAATGAACACA
Found at i:101218 original size:14 final size:14
Alignment explanation
Indices: 101199--101251 Score: 60
Period size: 14 Copynumber: 4.1 Consensus size: 14
101189 GCCCTATGTT
101199 CGAACATAAATGAA
1 CGAACATAAATGAA
101213 CGAACATAAAT---
1 CGAACATAAATGAA
*
101224 -TAACATAAATGAA
1 CGAACATAAATGAA
*
101237 CGAACATAAACGAA
1 CGAACATAAATGAA
101251 C
1 C
101252 ATATAATCGA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
10 9 0.28
14 23 0.72
ACGTcount: A:0.57, C:0.17, G:0.11, T:0.15
Consensus pattern (14 bp):
CGAACATAAATGAA
Found at i:101230 original size:24 final size:24
Alignment explanation
Indices: 101199--101288 Score: 96
Period size: 24 Copynumber: 3.8 Consensus size: 24
101189 GCCCTATGTT
101199 CGAACATAAATGAACGAACATAAA
1 CGAACATAAATGAACGAACATAAA
**
101223 TTAACATAAATGAACGAACATAAA
1 CGAACATAAATGAACGAACATAAA
* **
101247 CGAACAT--AT-AATCGAACGTTCA
1 CGAACATAAATGAA-CGAACATAAA
*
101269 CGAACGTAAATGAACGAACA
1 CGAACATAAATGAACGAACA
101289 AACCCTTTGT
Statistics
Matches: 53, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
21 2 0.04
22 15 0.28
24 34 0.64
25 2 0.04
ACGTcount: A:0.52, C:0.18, G:0.13, T:0.17
Consensus pattern (24 bp):
CGAACATAAATGAACGAACATAAA
Found at i:101799 original size:22 final size:22
Alignment explanation
Indices: 101772--101820 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
101762 ATGATAAGGT
101772 ATTAATGTCACTTGTAATACAA
1 ATTAATGTCACTTGTAATACAA
101794 ATTAATGTCACTTGTAATACAA
1 ATTAATGTCACTTGTAATACAA
101816 ATTAA
1 ATTAA
101821 CATATTTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.43, C:0.12, G:0.08, T:0.37
Consensus pattern (22 bp):
ATTAATGTCACTTGTAATACAA
Found at i:104148 original size:26 final size:27
Alignment explanation
Indices: 104098--104148 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
104088 TACGATCCTT
*
104098 ATTTTGAATTAATTCTTAATTTTAGAC
1 ATTTTGAATTAATTCTTAATATTAGAC
104125 ATTTT-AATTTAATTCTTAA-ATTAG
1 ATTTTGAA-TTAATTCTTAATATTAG
104149 GATTCTCGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 6 0.27
27 16 0.73
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.53
Consensus pattern (27 bp):
ATTTTGAATTAATTCTTAATATTAGAC
Found at i:105007 original size:50 final size:51
Alignment explanation
Indices: 104899--105012 Score: 158
Period size: 50 Copynumber: 2.3 Consensus size: 51
104889 GCGCCCACTA
* * *
104899 CACCGCGCTATACGATGATTTGGTGCCACGTAGGGTATAGCGCACCCCCTG
1 CACCGCGCTATACGATGAGTTGGCGCCACGTAGGGTATAACGCACCCCCTG
* **
104950 CACCGCGCTATACGGTGAGTTGGCGCCACGT-GGGTATAACGCGGCCCCTG
1 CACCGCGCTATACGATGAGTTGGCGCCACGTAGGGTATAACGCACCCCCTG
*
105000 CAGCGCGCTATAC
1 CACCGCGCTATAC
105013 CTGTATATCT
Statistics
Matches: 56, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
50 28 0.50
51 28 0.50
ACGTcount: A:0.18, C:0.32, G:0.30, T:0.19
Consensus pattern (51 bp):
CACCGCGCTATACGATGAGTTGGCGCCACGTAGGGTATAACGCACCCCCTG
Found at i:105211 original size:13 final size:14
Alignment explanation
Indices: 105183--105211 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
105173 ATATTTTATA
105183 ATATTTTTACTATT
1 ATATTTTTACTATT
105197 ATATTTTTACT-TT
1 ATATTTTTACTATT
105210 AT
1 AT
105212 TTAATATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.66
Consensus pattern (14 bp):
ATATTTTTACTATT
Found at i:105421 original size:110 final size:111
Alignment explanation
Indices: 105286--105506 Score: 345
Period size: 110 Copynumber: 2.0 Consensus size: 111
105276 TGGAAATCAT
* *
105286 ATATCTCTACACTTTGCTGATACGGTAATATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
* * * * *
105351 TATTTAGTT-ATTTATTTAATACATGATTATTATATTAATAATTAA
66 TAATTAGTTGATTCATTTAATACATAATTATTAGATTAAGAATTAA
* *
105396 ATATCTCGACACTTTGTTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTATTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
*
105461 TAATTAGTTGATTCATTTAATGCATAATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTCATTTAATACATAATTATTAGATTAAGAATTAA
105507 TTTTTGTAAT
Statistics
Matches: 100, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
110 69 0.69
111 31 0.31
ACGTcount: A:0.37, C:0.08, G:0.09, T:0.47
Consensus pattern (111 bp):
ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
TAATTAGTTGATTCATTTAATACATAATTATTAGATTAAGAATTAA
Found at i:108940 original size:13 final size:13
Alignment explanation
Indices: 108922--108962 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
108912 CACATCAACG
108922 TAAATAAATTTAA
1 TAAATAAATTTAA
*
108935 TAAATAAATTAAA
1 TAAATAAATTTAA
108948 T-AATATAATTTAA
1 TAAATA-AATTTAA
108961 TA
1 TA
108963 TTATTACCTG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 4 0.17
13 20 0.83
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
TAAATAAATTTAA
Found at i:109345 original size:47 final size:49
Alignment explanation
Indices: 109271--109374 Score: 151
Period size: 47 Copynumber: 2.2 Consensus size: 49
109261 TTATACAAAA
*
109271 CGCGATACCTGCCACGCGCTATATAAAATTA-T-GGAGTAAAGGTAT-G
1 CGCGGTACCTGCCACGCGCTATATAAAATTATTAGGAGTAAAGGTATAG
* *
109317 TCGCGGTACCTGCCCCTCGCTATATAAAATTATTAGGAGTAAAGGTATAG
1 -CGCGGTACCTGCCACGCGCTATATAAAATTATTAGGAGTAAAGGTATAG
109367 CGCGGTAC
1 CGCGGTAC
109375 ATGATCCGCG
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
47 28 0.55
48 1 0.02
49 21 0.41
50 1 0.02
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (49 bp):
CGCGGTACCTGCCACGCGCTATATAAAATTATTAGGAGTAAAGGTATAG
Found at i:109387 original size:49 final size:47
Alignment explanation
Indices: 109285--109389 Score: 140
Period size: 49 Copynumber: 2.2 Consensus size: 47
109275 ATACCTGCCA
* *
109285 CGCGCTATATAAAATTATGGAGTAAAGGTATGTCGCGGTACCTGCCC
1 CGCGCTATATAAAATTATGGAGTAAAGGTATGTCGCGGTACATGACC
* *
109332 CTCGCTATATAAAATTATTAGGAGTAAAGGTATAG-CGCGGTACATGATC
1 CGCGCTATATAAAATTA-T-GGAGTAAAGGTAT-GTCGCGGTACATGACC
109381 CGCGCTATA
1 CGCGCTATA
109390 CCCCTACATG
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
47 16 0.32
48 1 0.02
49 32 0.64
50 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (47 bp):
CGCGCTATATAAAATTATGGAGTAAAGGTATGTCGCGGTACATGACC
Found at i:109507 original size:51 final size:51
Alignment explanation
Indices: 109401--109533 Score: 169
Period size: 51 Copynumber: 2.6 Consensus size: 51
109391 CCCTACATGG
* * * **
109401 CGTATAGCACGCTGCAGGGGCCGCGCTATA-CCCACGTGGCGCCAGCTCAC
1 CGTATAGCACGGTGCAGGGGGCGCGCTATACCCCACGTGACGCCAAATCAC
* * *
109451 CGTATAACACGGTGCAGGGGGTGCGCTATACCCCACGTGACGCCAAATCAT
1 CGTATAGCACGGTGCAGGGGGCGCGCTATACCCCACGTGACGCCAAATCAC
* *
109502 CGTATAGCGCGGTGCAGGGGGCGCGCTTTACC
1 CGTATAGCACGGTGCAGGGGGCGCGCTATACC
109534 GCTAAGGGTG
Statistics
Matches: 70, Mismatches: 12, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
50 26 0.37
51 44 0.63
ACGTcount: A:0.20, C:0.32, G:0.32, T:0.17
Consensus pattern (51 bp):
CGTATAGCACGGTGCAGGGGGCGCGCTATACCCCACGTGACGCCAAATCAC
Found at i:117504 original size:285 final size:285
Alignment explanation
Indices: 116994--117566 Score: 941
Period size: 285 Copynumber: 2.0 Consensus size: 285
116984 TTTAGAGACT
* *
116994 GAGTTGAAGGAATTGCAAGAAAAGGTATGTATGTTGACTGAGGATAATAGCCAGTTACTAGGAAG
1 GAGTTGAAGGAATTGCAAGAAAAGGTATGTATGTTGACCGAGGATAATAACCAGTTACTAGGAAG
117059 GCTTGAAAAGAAAGATGCCGAACTAAGAACATTAACGGAGGACTGGGAACTGCTAAGTTCTGAGA
66 GCTTGAAAAGAAAGATGCCGAACTAAGAACATTAACGGAGGACTGGGAACTGCTAAGTTCTGAGA
* * *
117124 TTGAAAATATTCTTGCTGGTGGTCATGAGGAGCTTGTTGATGCTGGGAATCAACTGGAACTCCTT
131 TTGAAAATATACTTGCTGATGGTCATGAGGAACTTGTTGATGCTGGGAATCAACTGGAACTCCTT
* *
117189 TCCGGTTCTTTTCCTCAGAGAAGGATTTGGATTTCTAAGAAAGTTGGTAGGATGGTCAGAGTACT
196 TCCAGTTCTTTTCCTCAGAGAAGGATTTGGATTTCTAAGAAAGTTGGTAGGATGGTAAGAGTACT
117254 GTCAGAAAAGGAATTGCTGATTGAA
261 GTCAGAAAAGGAATTGCTGATTGAA
* *
117279 GAGTTGAAGGAATTGCAAGAAAAGGTATGTTTGTTGACCGAGGATAATAACCAGTTACTTGGAAG
1 GAGTTGAAGGAATTGCAAGAAAAGGTATGTATGTTGACCGAGGATAATAACCAGTTACTAGGAAG
* * * * *
117344 GCTTGAAACA-AAAGATGTCGAACTAAGAACGTTAATGGAGGAGTGGGAGCTGCTAAGTTCTGAG
66 GCTTGAAA-AGAAAGATGCCGAACTAAGAACATTAACGGAGGACTGGGAACTGCTAAGTTCTGAG
* *
117408 ATTGAAAATATACTTGCTGATGGTCATGAGGAACTTGTTGATGCTGGTAATCAATTGGAACTCCT
130 ATTGAAAATATACTTGCTGATGGTCATGAGGAACTTGTTGATGCTGGGAATCAACTGGAACTCCT
* * * *
117473 TTCCAGTTCTTTTCCTCAGAGAAGGATTTGGATTTCTGATAAAGTTGGTAGGGTGGTAAGAGTAT
195 TTCCAGTTCTTTTCCTCAGAGAAGGATTTGGATTTCTAAGAAAGTTGGTAGGATGGTAAGAGTAC
*
117538 TGTTAGAAAAGGAATTGCTGATTGAA
260 TGTCAGAAAAGGAATTGCTGATTGAA
117564 GAG
1 GAG
117567 CTTGGAAGAT
Statistics
Matches: 266, Mismatches: 21, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
285 265 1.00
286 1 0.00
ACGTcount: A:0.32, C:0.12, G:0.28, T:0.28
Consensus pattern (285 bp):
GAGTTGAAGGAATTGCAAGAAAAGGTATGTATGTTGACCGAGGATAATAACCAGTTACTAGGAAG
GCTTGAAAAGAAAGATGCCGAACTAAGAACATTAACGGAGGACTGGGAACTGCTAAGTTCTGAGA
TTGAAAATATACTTGCTGATGGTCATGAGGAACTTGTTGATGCTGGGAATCAACTGGAACTCCTT
TCCAGTTCTTTTCCTCAGAGAAGGATTTGGATTTCTAAGAAAGTTGGTAGGATGGTAAGAGTACT
GTCAGAAAAGGAATTGCTGATTGAA
Found at i:118048 original size:213 final size:213
Alignment explanation
Indices: 117681--118106 Score: 692
Period size: 213 Copynumber: 2.0 Consensus size: 213
117671 AGAATACAAT
*
117681 GAAAAGGAGAAAGAAATTGTTCTACTGAAGAAAGAATTGAATGAAAAAACAGCAATCATTACAAA
1 GAAAAGGAGAAAGAAATTGTTCTACTGAAGAAAGAACTGAATGAAAAAACAGCAATCATTACAAA
*
117746 GCTTGAGCATAGAATGAAGATTGCTGAAGGTGACTTAAGAAATGCATCTGCTTGTGCAACTGTGG
66 GCTCGAGCATAGAATGAAGATTGCTGAAGGTGACTTAAGAAATGCATCTGCTTGTGCAACTGTGG
* *
117811 CTTTTGTAGTTGGGAATAGACTATCAGAGGCAAACCGTAATCATCTCGATG-CCTCGAAAGTTAA
131 CTTTTGTAGTTGGGAATAGACTATCAGAGGCAAACCGTAATCATCTCGATGTCAT-GAAAGGTAA
117875 GGACATTCAGCTTGCAGAA
195 GGACATTCAGCTTGCAGAA
* * * * * *
117894 GAAAAGGTGAAAGAATTTGTTCTACTGGAGAATGAACTGAATGAAAAATCATCAATCATTACAAA
1 GAAAAGGAGAAAGAAATTGTTCTACTGAAGAAAGAACTGAATGAAAAAACAGCAATCATTACAAA
* * *
117959 GCTCGAGGATAGAATGAAGATTGTTGAAGGTGACTTAAGAAATGCATCTGCTTGTGCAACTGTTG
66 GCTCGAGCATAGAATGAAGATTGCTGAAGGTGACTTAAGAAATGCATCTGCTTGTGCAACTGTGG
* * *
118024 CTTTTGTAGTTGTGAATAGACTATCAGAGGCAAACCGTAATCATCTCGATGTGATGAAGGGTAAG
131 CTTTTGTAGTTGGGAATAGACTATCAGAGGCAAACCGTAATCATCTCGATGTCATGAAAGGTAAG
118089 GACATTCAGCTTGCAGAA
196 GACATTCAGCTTGCAGAA
118107 TCAGCACATG
Statistics
Matches: 196, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
213 195 0.99
214 1 0.01
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (213 bp):
GAAAAGGAGAAAGAAATTGTTCTACTGAAGAAAGAACTGAATGAAAAAACAGCAATCATTACAAA
GCTCGAGCATAGAATGAAGATTGCTGAAGGTGACTTAAGAAATGCATCTGCTTGTGCAACTGTGG
CTTTTGTAGTTGGGAATAGACTATCAGAGGCAAACCGTAATCATCTCGATGTCATGAAAGGTAAG
GACATTCAGCTTGCAGAA
Found at i:132396 original size:133 final size:135
Alignment explanation
Indices: 132149--132397 Score: 396
Period size: 133 Copynumber: 1.9 Consensus size: 135
132139 ATTGTTTTTC
* ** *
132149 CCTTGATGTGACAGCTCAATCTGACTTTGCAAAAATGGAAACAAAATCTAAACAAGCAATGGAGA
1 CCTTGATGTGACAGCTCAAGCTGACTCCGCAAAAACGGAAACAAAATCTAAACAAGCAATGGAGA
*
132214 AGGGTGAGTGAATTTTCAAGTCTATTAGTTATGAGGGTCCTGCATGATTTTGGCCAATAATTTTT
66 AGGGTGAGTAAATTTTCAAGTCTATTAGTTATGAGGGTCCTGCATGATTTTGGCCAATAATTTTT
132279 TATTT
131 TATTT
* * *
132284 CCTTGATGTGGCAGCTCAAGCTGACTCCGCCAAAACGGAAAGAAAATCTAAA-ATAGCAA-GGAG
1 CCTTGATGTGACAGCTCAAGCTGACTCCGCAAAAACGGAAACAAAATCTAAACA-AGCAATGGAG
132347 -AGGGTGAGTAAATTTTCAAGTCTATTAGTTATGAGGGTCCTGCATGATTTT
65 AAGGGTGAGTAAATTTTCAAGTCTATTAGTTATGAGGGTCCTGCATGATTTT
132398 CGCTGCCCAC
Statistics
Matches: 105, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
133 50 0.48
134 5 0.05
135 50 0.48
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (135 bp):
CCTTGATGTGACAGCTCAAGCTGACTCCGCAAAAACGGAAACAAAATCTAAACAAGCAATGGAGA
AGGGTGAGTAAATTTTCAAGTCTATTAGTTATGAGGGTCCTGCATGATTTTGGCCAATAATTTTT
TATTT
Done.